Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168492.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_9, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 25814696
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 122000 characters in sequence are not A, C, G, or T
File 56 of 126
Found at i:11133457 original size:24 final size:24
Alignment explanation
Indices: 11133430--11133501 Score: 74
Period size: 24 Copynumber: 3.0 Consensus size: 24
11133420 TTTATTAAAA
*
11133430 TTTTAGATTATATTATTTTTATATT
1 TTTTA-ATTATATCATTTTTATATT
* *
11133455 TTTTATTTATATCATTTTTATATGA
1 TTTTAATTATATCATTTTTATAT-T
* *
11133480 TATT-ATCATATCATTTTTATAT
1 TTTTAATTATATCATTTTTATAT
11133502 GATATTATAA
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
24 32 0.80
25 8 0.20
ACGTcount: A:0.29, C:0.04, G:0.03, T:0.64
Consensus pattern (24 bp):
TTTTAATTATATCATTTTTATATT
Found at i:11133502 original size:24 final size:24
Alignment explanation
Indices: 11133463--11133517 Score: 101
Period size: 24 Copynumber: 2.3 Consensus size: 24
11133453 TTTTTTATTT
*
11133463 ATATCATTTTTATATGATATTATC
1 ATATCATTTTTATATGATATTATA
11133487 ATATCATTTTTATATGATATTATA
1 ATATCATTTTTATATGATATTATA
11133511 ATATCAT
1 ATATCAT
11133518 ATTTGAAATT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.36, C:0.07, G:0.04, T:0.53
Consensus pattern (24 bp):
ATATCATTTTTATATGATATTATA
Found at i:11140577 original size:6 final size:6
Alignment explanation
Indices: 11140559--11140607 Score: 62
Period size: 6 Copynumber: 8.2 Consensus size: 6
11140549 CGAGAGATCA
* * * *
11140559 AGGGAG AGAGAG AGGGAG AGGGAG AGGTAG AGGTAG AGGGAG AGAGAG
1 AGGGAG AGGGAG AGGGAG AGGGAG AGGGAG AGGGAG AGGGAG AGGGAG
11140607 A
1 A
11140608 TATGGGATTG
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.39, C:0.00, G:0.57, T:0.04
Consensus pattern (6 bp):
AGGGAG
Found at i:11140580 original size:18 final size:18
Alignment explanation
Indices: 11140559--11140607 Score: 73
Period size: 18 Copynumber: 2.7 Consensus size: 18
11140549 CGAGAGATCA
11140559 AGGGAGAGAGAGAGGGAG
1 AGGGAGAGAGAGAGGGAG
*
11140577 AGGGAGAG-GTAGAGGTAG
1 AGGGAGAGAG-AGAGGGAG
11140595 AGGGAGAGAGAGA
1 AGGGAGAGAGAGA
11140608 TATGGGATTG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
17 1 0.04
18 26 0.93
19 1 0.04
ACGTcount: A:0.39, C:0.00, G:0.57, T:0.04
Consensus pattern (18 bp):
AGGGAGAGAGAGAGGGAG
Found at i:11145282 original size:14 final size:14
Alignment explanation
Indices: 11145263--11145289 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
11145253 TCTGTGTAGT
11145263 TGATTGTAATCTGC
1 TGATTGTAATCTGC
11145277 TGATTGTAATCTG
1 TGATTGTAATCTG
11145290 TATATATTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.11, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTGTAATCTGC
Found at i:11145334 original size:22 final size:22
Alignment explanation
Indices: 11145295--11145336 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
11145285 ATCTGTATAT
*
11145295 ATTTGTATCCCTAAAATTAAGA
1 ATTTGTATACCTAAAATTAAGA
* *
11145317 ATTTGTATATCTAGAATTAA
1 ATTTGTATACCTAAAATTAA
11145337 AGATAAAATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.40, C:0.10, G:0.10, T:0.40
Consensus pattern (22 bp):
ATTTGTATACCTAAAATTAAGA
Found at i:11152013 original size:49 final size:49
Alignment explanation
Indices: 11151952--11152050 Score: 162
Period size: 49 Copynumber: 2.0 Consensus size: 49
11151942 AATTTTACAT
* * *
11151952 TGAACATGCTAATATAATATTTTTATCATGTAATTTAATTTTGATGAGA
1 TGAACATACTAATATAATATTTTCATCATGTAATTTAATTTTGATAAGA
*
11152001 TGAACATACTAATATAATATTTTCATCGTGTAATTTAATTTTGATAAGA
1 TGAACATACTAATATAATATTTTCATCATGTAATTTAATTTTGATAAGA
11152050 T
1 T
11152051 TGTACTATTA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.37, C:0.07, G:0.11, T:0.44
Consensus pattern (49 bp):
TGAACATACTAATATAATATTTTCATCATGTAATTTAATTTTGATAAGA
Found at i:11153778 original size:21 final size:21
Alignment explanation
Indices: 11153752--11153791 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
11153742 AGGATTTATA
11153752 TGTGAACACAATAATCTGTAG
1 TGTGAACACAATAATCTGTAG
* *
11153773 TGTGAACACAGTTATCTGT
1 TGTGAACACAATAATCTGT
11153792 CCTTTTACCC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.33
Consensus pattern (21 bp):
TGTGAACACAATAATCTGTAG
Found at i:11158662 original size:21 final size:21
Alignment explanation
Indices: 11158636--11158678 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
11158626 CCAACTATCA
11158636 AAAGCATCACACAAATTC-CTT
1 AAAGCAT-ACACAAATTCTCTT
*
11158657 AAAGCATTCACAAATTCTCTT
1 AAAGCATACACAAATTCTCTT
11158678 A
1 A
11158679 TACGTGCGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.42, C:0.26, G:0.05, T:0.28
Consensus pattern (21 bp):
AAAGCATACACAAATTCTCTT
Found at i:11159056 original size:2 final size:2
Alignment explanation
Indices: 11159049--11159095 Score: 69
Period size: 2 Copynumber: 23.5 Consensus size: 2
11159039 TTTGTGCATA
11159049 AT AT AT AT AT AT AT AT AT AT GA- AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT AT AT AT AT
*
11159091 GT AT A
1 AT AT A
11159096 AACAAGTTAG
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
1 1 0.02
2 39 0.95
3 1 0.02
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (2 bp):
AT
Found at i:11159595 original size:535 final size:513
Alignment explanation
Indices: 11158565--11163748 Score: 3867
Period size: 497 Copynumber: 10.3 Consensus size: 513
11158555 TATACGTAAG
* * * *
11158565 AACAAGTTAGCACACAGTACTTAATCACATCAAGC-TCTAATAATGATTTCGCAAATGATATCCA
1 AACAAGTTAGCACACAGTAGTTAATCACATCAAGCGTCAAATAACGATTTCACAAATGATATCCA
* * * * * * ** *
11158629 ACTATCAAAAGCATCACACAAATTCCTTA-AAGCATTCACAAATTCTCTTATACGTGCGTCGAAA
66 AGTATCAAGAGCATCCCACAAATTCCTTAGAA-CATTCACGAATTCTCCTAAAAATGCGTCTAAA
* *
11158693 GCAAAAAGGTATGAAAAATTAAAATC-GTG-CAAATGGTTTTTATATCACAATTTGAAATATGTG
130 GCAAAAAAGTATGAAAAATTAAAACCAGTGCCAAA-GGTTTTTATATCACAATTTGAAAT-TGTG
* * * * *
11158756 CAAATGATTTTTATGATCATAATTGTTTGGAAAA-AGATTTTGACATTTTAGGCTCCGAAATCTT
193 CGAATGGTTTTTATGCTCATAATTG-TTGGAAAACAGATTTTGACATTTTAGGCTCCAAAATCCT
** *
11158820 TCAAAAACAGCTTACACTTAAT-GCTGTGAAAAATTAAAAGTAACACAAGTTATCATTGTTTTTT
257 TCAAAAACAGCTTACAC-T-ATCGCTGTGAAAAATTAAAACCAACACAAGTTATCATCGTTTTTT
* * * * *
11158884 GTTTGAGTAGGTTTAAAACATTGAATTCAACGGTATTTAAATTCGTATCTGTTTCAAAACCCGTT
320 GTTTGAGTAAGTTTAAAACATTGAATTCAACGATATTCAAATTCGTTTCTGTTTCAAAACCTGTT
* * * *
11158949 GAAACAGTGTTTCACACTTTAAAGCTCGACACTACTACAAATCATTTTTC-AACCAAAAGATAGA
385 AAAACAGTGTTTCACACTTTAAAGCTCGACACTACTAAAAATCA-TTTTCAAAGCAAAACATAGA
* * * *
11159013 AACTTCAAAAATAGTAAGCCTTTGGGTTTGTGCATAATATATATATATATATATATGAATATATA
449 AACTTCAAAAACATTAAGCTTTTGAGTTTGTGC-----------ATA-A-ATATAT--A-ATATA
11159078 TATATATATATATGTATA
498 TATATATATATA--TATA
* * * * *
11159096 AACAAGTTAGCGCATACAGTAGTTAATCACATCAAACGTC-AATAACAATTGCCCAAATGATATC
1 AACAAGTTA--GCACACAGTAGTTAATCACATCAAGCGTCAAATAACGATTTCACAAATGATATC
* *
11159160 CAAGTGA-CAAGAGCATCCCACAAATTCCTTAGCACATTCACGAATTCTCCTAAAAATGCATCTA
64 CAAGT-ATCAAGAGCATCCCACAAATTCCTTAGAACATTCACGAATTCTCCTAAAAATGCGTCTA
* *
11159224 ATGCAAACAAAACTATGAAAAATTAAAA-CAGTGCCAAAGGTTTTTATATCACAATTTGAAAGTT
128 AAGC-AA-AAAAGTATGAAAAATTAAAACCAGTGCCAAAGGTTTTTATATCACAATTTGAAA-TT
* * * *
11159288 GTGTGAATGGCTTTTAAGCCCATAATTGTTGGAAAACAGATTTTGACATTTTAGGCTCCAAAATC
190 GTGCGAATGGTTTTTATGCTCATAATTGTTGGAAAACAGATTTTGACATTTTAGGCTCCAAAATC
* * *
11159353 CTTCAAAAACAGCTTACATCTATCGCTGTGAAAATTTAAAACCAACACAAATTATCATCGTTCTT
255 CTTCAAAAACAGCTTACA-CTATCGCTGTGAAAAATTAAAACCAACACAAGTTATCATCGTTTTT
* * * * **
11159418 TGTTTGAGCAAGTTTAGAACATTGGATTCAACGATATTGAAATTCGTTTCTGTTTCAAAACCTAC
319 TGTTTGAGTAAGTTTAAAACATTGAATTCAACGATATTCAAATTCGTTTCTGTTTCAAAACCTGT
* * * * * *
11159483 TAAAATAGTGTTTCACACTTTAAAGCTCGAAACTAGTAAAAATCATTTTCAAAGCAAAATACATA
384 TAAAACAGTGTTTCACACTTTAAAGCTCGACACTACTAAAAATCATTTTCAAAGCAAAACATAGA
11159548 AACTTCAAAAACATTAAGCTTTTGAGTTTGTGC--------ATAATATATATATATATATATATA
449 AACTTCAAAAACATTAAGCTTTTGAGTTTGTGCATAAATATATAATATATATATATATATATATA
*
11159605 AACAAGTTAGCACACAGAAGTTAATCACATCAAGCG-CAAATAACGATTTCACAAATGATATCCA
1 AACAAGTTAGCACACAGTAGTTAATCACATCAAGCGTCAAATAACGATTTCACAAATGATATCCA
11159669 AGTATCAAGAGCATCCCACAAATTCCTTAGAACATTCACGAATTCTCCTAAAAATGCGTCTAAAG
66 AGTATCAAGAGCATCCCACAAATTCCTTAGAACATTCACGAATTCTCCTAAAAATGCGTCTAAAG
* * * *
11159734 CAAAAAAGTATGAAAAATTAAAACCA-TGCGAATGATTTTTATATCACAAATTGAAATTTGTGCG
131 CAAAAAAGTATGAAAAATTAAAACCAGTGCCAAAGGTTTTTATATCACAATTTGAAA-TTGTGCG
* * ** * *
11159798 AATGGTTTTTATGCTTATAATTGCTCCAAAACAGA--TTGACATTTTAGTCTCCAAAATCCTTCG
195 AATGGTTTTTATGCTCATAATTGTTGGAAAACAGATTTTGACATTTTAGGCTCCAAAATCCTTCA
* * * * * ** * * *
11159861 AAAATAGCTTACACCTAACGTTGTGAAAAATTAAAATCGATGCATGTTATTATCGTTTTTTATTT
260 AAAACAGCTTACA-CTATCGCTGTGAAAAATTAAAACCAACACAAGTTATCATCGTTTTTTGTTT
* * **
11159926 -TGTAAGTTTAAAACATT-ACATTCAACGATATTCAAATTTGTTTCCATTTCAAAACCTGTTAAA
324 GAGTAAGTTTAAAACATTGA-ATTCAACGATATTCAAATTCGTTTCTGTTTCAAAACCTGTTAAA
** * ** * * *
11159989 ACAGTGTTTTGCACTTTAAAGCTTGACTTTACCAAAAATCGTTTTTAAAGCAAAACATAGAAACT
388 ACAGTGTTTCACACTTTAAAGCTCGACACTACTAAAAATCATTTTCAAAGCAAAACATAGAAACT
* * * * * * * **
11160054 TTAAGAACATTAATCTTTTGAGTTTCTGCAT--A-AGAT-ATCTA-A-A-A-ACAGGT-T-
453 TCAAAAACATTAAGCTTTTGAGTTTGTGCATAAATATATAATATATATATATATATATATA
* * *
11160105 ----AG-CA-CACACAGTAGTTAATCATATCAAGTGTC-AATAACGATTTCACAAATGATATCCA
1 AACAAGTTAGCACACAGTAGTTAATCACATCAAGCGTCAAATAACGATTTCACAAATGATATCCA
* * * ** * * ** * ** **
11160163 AGTATCAAGAGCATTCAACAAATTCTTTTTAGCATTCACGAATTATATTAAAAGTATGTAGAAAG
66 AGTATCAAGAGCATCCCACAAATTCCTTAGAACATTCACGAATTCTCCTAAAAATGCGTCTAAAG
* * * * * *
11160228 CAAAAAAGTATGAAAAATTAAAATC-GTGCGAATGGTTTTTATATCACAATTTTAAAGCTGTGTG
131 CAAAAAAGTATGAAAAATTAAAACCAGTGCCAAAGGTTTTTATATCACAATTTGAAA-TTGTGCG
* *
11160292 AATGGTTTTTATGGC-CATAATTGTTTGG-AAACAGATTTTGACATTTTAGGCTCTAAAATCTTT
195 AATGGTTTTTAT-GCTCATAATTG-TTGGAAAACAGATTTTGACATTTTAGGCTCCAAAATCCTT
* * * * *
11160355 CAAAAATAGCTTATACCTAAT-GCTGTGAAAAATTAAAACCAACGCAAGTTATCATCATTCTTTG
258 CAAAAACAGCTTACA-CT-ATCGCTGTGAAAAATTAAAACCAACACAAGTTATCATCGTTTTTTG
* * * * ** * * *
11160419 TTTGAGCAATTTTAAAACATTGGATTCAACGATATTCAAATTTGTTTCCATTACAAAAGCTGCTA
321 TTTGAGTAAGTTTAAAACATTGAATTCAACGATATTCAAATTCGTTTCTGTTTCAAAACCTGTTA
* * * * ** *
11160484 AAACAATGTTTCATACTTTAAAGCTCAACTCTAGC-AAAAATCGCTTTCAAAGCAAAATATAGAA
386 AAACAGTGTTTCACACTTTAAAGCTCGACACTA-CTAAAAATCATTTTCAAAGCAAAACATAGAA
* * *
11160548 ACTTCAAAAGC-TTTAGCTTTTGAGTTTGTGC-------------ATATA-ATATACATA-A-A
450 ACTTCAAAAACATTAAGCTTTTGAGTTTGTGCATAAATATATAATATATATATATATATATATA
* * * *
11160595 AACAAGTTAGCACATAGAGTAGTTAATGACATCAAGCG-CTAATAACTATTTCACAAATGATATC
1 AACAAGTTAGCAC--ACAGTAGTTAATCACATCAAGCGTCAAATAACGATTTCACAAATGATATC
* * * * * * * *
11160659 CAGGTATCGAGAGCATCCCACAAATTCCTTGGAGCCTTCTCGAATTCTTCTAAAAGTGCGTCTAA
64 CAAGTATCAAGAGCATCCCACAAATTCCTTAGAACATTCACGAATTCTCCTAAAAATGCGTCTAA
* ** * * * * *
11160724 AGCAAAAAAAGTTTGAAAAATTAAAACCA-TGCGTATGGTTTTGTTTATTACAATTTCAAAGCTG
129 AGC-AAAAAAGTATGAAAAATTAAAACCAGTGCCAAAGGTTTT-TATATCACAATTTGAAA-TTG
* * * * * *
11160788 TGTGAATAGTTTTTATGCCCATAATTATT-CAGAAATAGATTTTGACATTTTAGGCTCCAAAATC
191 TGCGAATGGTTTTTATGCTCATAATTGTTGGA-AAACAGATTTTGACATTTTAGGCTCCAAAATC
* * * ** * **
11160852 CATC--AAA-AG-TATACACCTAACGCTGTGAAAAATTAAAATCAATGCAAGTTATCATCATTCC
255 CTTCAAAAACAGCT-TACA-CTATCGCTGTGAAAAATTAAAACCAACACAAGTTATCATCGTTTT
* * ** *
11160913 TTGTTTGAGCAAGTTTAAAACATTGGATTCAACGATATTCAAATTCGTTTCCATTTCAAAACCTA
318 TTGTTTGAGTAAGTTTAAAACATTGAATTCAACGATATTCAAATTCGTTTCTGTTTCAAAACCTG
* * ** * * * ** *
11160978 CTAAAACAGTCTTTCGTACTTTAAAACTTGACTCTAAC-AAAAATCGCTTTCTAAGCAAAACATA
383 TTAAAACAGTGTTTCACACTTTAAAGCTCGACACT-ACTAAAAATCATTTTCAAAGCAAAACATA
* * * *
11161042 AAAAGTTCAAAAACATTAAGCTTTTGAGTTTGTGCAT-AATAGAT-ATA-A-A-A-ATA-A-GT-
447 GAAACTTCAAAAACATTAAGCTTTTGAGTTTGTGCATAAATATATAATATATATATATATATATA
11161098 T-
512 TA
* * * * *
11161099 AGCACA--TAG---ATAGTAGTTAATCACATCAAGCG-CCAATAACGATTTCACCAATGACATCC
1 AACA-AGTTAGCACACAGTAGTTAATCACATCAAGCGTCAAATAACGATTTCACAAATGATATCC
* ** ** *
11161158 AAGTATCAAGAGCATCCCACAAATTCCTTAG--CTTTCACGAATTCTCCTAAACGTAAGTCTGAA
65 AAGTATCAAGAGCATCCCACAAATTCCTTAGAACATTCACGAATTCTCCTAAAAATGCGTCTAAA
* ** ** ** * *
11161221 GCAAAAAAGTATGAAAAATGAAAACC-GTGTGAGCGGTTTTTATATCACAATTTGGAAGCTATTC
130 GCAAAAAAGTATGAAAAATTAAAACCAGTGCCAAAGGTTTTTATATCACAATTT-GAAATTGTGC
* * * *
11161285 AAATGGTTTTTATGCCCATAATTGTTCGG-AAACAGATTTTGACACTTTAGGTTCCAAAATCCTT
194 GAATGGTTTTTATGCTCATAATTGTT-GGAAAACAGATTTTGACATTTTAGGCTCCAAAATCCTT
* * * * * ** *
11161349 CAAAAATAGCTTACACCGAAT-GCTATGAAAAATTATAACTAACGTAAGTTATCATCGTTCTTTG
258 CAAAAACAGCTTACA-C-TATCGCTGTGAAAAATTAAAACCAACACAAGTTATCATCGTTTTTTG
* * * * * * **
11161413 TTTGAGCAAGATTAAAACATTGGATTTAACGATATTCAAATTCATTTCCGTTTCAAAACCTGTCG
321 TTTGAGTAAGTTTAAAACATTGAATTCAACGATATTCAAATTCGTTTCTGTTTCAAAACCTGTTA
* * * * * * *
11161478 AAATAGTGTTTCATAATTTAAAGCTCAACTCTAGC-AAAAATCACTTTCAAAGTAAAACATAGAA
386 AAACAGTGTTTCACACTTTAAAGCTCGACACTA-CTAAAAATCATTTTCAAAGCAAAACATAGAA
* *
11161542 ATTTCAAAAACATTAAGCTTTTAAGTTTGTGC---------------ATA-ATATATATA-A-A
450 ACTTCAAAAACATTAAGCTTTTGAGTTTGTGCATAAATATATAATATATATATATATATATATA
* * * * *
11161588 AACAAGTTAGCACGCATAGTAGTTAATCACATCAAGC-ACCAATAATGATTTTACAAATGATATC
1 AACAAGTTAGCA--CACAGTAGTTAATCACATCAAGCGTCAAATAACGATTTCACAAATGATATC
* * * * * ** * *
11161652 CAAGGATCAAGAGCATCCCCATAAATTCCTTAGAGCATTCATGAATTCTCTTAAACGTACGTCAA
64 CAAGTATCAAGAGCAT-CCCACAAATTCCTTAGAACATTCACGAATTCTCCTAAAAATGCGTCTA
* * * *
11161717 AAGC-AAAAAGTATGAAAAATGAAAATC-GTG-CAAATGGTTTTTAAATCACAATTTGAAAGCTG
128 AAGCAAAAAAGTATGAAAAATTAAAACCAGTGCCAAA-GGTTTTTATATCACAATTTGAAA-TTG
* *
11161779 TGCGAATGGCTTTTATG-TCCATAATTGTTCGG-AAGCAGATTTTGACATTTTAGGCTCCAAAAT
191 TGCGAATGGTTTTTATGCT-CATAATTGTT-GGAAAACAGATTTTGACATTTTAGGCTCCAAAAT
* * * * * * * * *
11161842 CTTTCAAAAAGAGCATACACCTAACGTTATGTAAAAATTAAAACCAACGCAAGTTATCATCATTC
254 CCTTCAAAAACAGCTTACA-CTATCGCTGTG-AAAAATTAAAACCAACACAAGTTATCATCGTTT
* * * * **
11161907 TTTGTTTGCGCAAGTTTAAAAAACATTGGATTCAACGATATTCAAATT-ATTTCCATTTCAAAAC
317 TTTGTTTGAGTAAGTTT--AAAACATTGAATTCAACGATATTCAAATTCGTTTCTGTTTCAAAAC
* * * * *
11161971 CTATTGAAACAGTGTTTCATACTTTAAAGCTCGACTCTAGC-AAAAAT-AGTTTTCAAAGTAAAA
380 CTGTTAAAACAGTGTTTCACACTTTAAAGCTCGACACTA-CTAAAAATCA-TTTTCAAAGCAAAA
* * *
11162034 CATATAAACTTCAAAAACATTAAACGTTTGAGTTTGTGC---------------ATA-ATATATA
443 CATAGAAACTTCAAAAACATTAAGCTTTTGAGTTTGTGCATAAATATATAATATATATATATATA
11162083 TA-A-A
508 TATATA
* * * * * **
11162087 AACAAGTTAGCGCACA-TAGTTAATCACATGAAGCG-CCAATAACAATTACATGAATGATATCCA
1 AACAAGTTAGCACACAGTAGTTAATCACATCAAGCGTCAAATAACGATTTCACAAATGATATCCA
* * * *
11162150 AGTATCAAGAGCATCCCACAAATTCCTTAGAGCGTTCATGAATTCTCCTAAAAATGTGTCTAAAG
66 AGTATCAAGAGCATCCCACAAATTCCTTAGAACATTCACGAATTCTCCTAAAAATGCGTCTAAAG
** * * ** *
11162215 CAAAAAAGTATGAAAAATTAAAACC-GTGTGAATGGTTTCTT-TATCACAATTTGAAAGCTAAGT
131 CAAAAAAGTATGAAAAATTAAAACCAGTGCCAAAGGTTT-TTATATCACAATTTGAAA-TTGTGC
* ** * *
11162278 GAATGGTTTTTATGCCCATAAGAGTTCGAAAACAGATTTTGACATTTTAGGCTCTAAAATCCTTT
194 GAATGGTTTTTATGCTCATAATTGTTGGAAAACAGATTTTGACATTTTAGGCTCCAAAATCC-TT
* * * * * ** * * **
11162343 GAAAAACAGCGTACACCTAACGCTATG-AAAATTAAAACGAACATTAGTTATTATTGTTCATTGT
258 CAAAAACAGCTTACA-CTATCGCTGTGAAAAATTAAAACCAACACAAGTTATCATCGTTTTTTGT
* * * * *
11162407 TTGAGCAAGTTTAAAACATTGGATTCAACGATATTCAAATTTGTTTCTATTTCAAAA-CTAGCTA
322 TTGAGTAAGTTTAAAACATTGAATTCAACGATATTCAAATTCGTTTCTGTTTCAAAACCT-GTTA
** ** * * * *
11162471 AAACAGCATTTCTTACCTTAAAGCTCGACTCTAGC-AAAAATCATTTTCAAACCAAAACATCGAA
386 AAACAGTGTTTCACACTTTAAAGCTCGACACTA-CTAAAAATCATTTTCAAAGCAAAACATAGAA
*
11162535 ACTTCAAAAACATTAATAAGCTTTTGAGTTTTTGC---------------ATA-ATATATATA-A
450 ACTTCAAAAACA-T--TAAGCTTTTGAGTTTGTGCATAAATATATAATATATATATATATATATA
11162583 -A
512 TA
* * *
11162584 AACAAGTTAGCACAC---AGTTAATCACATCAAGAG-CCAATAACAATTTCACAAATGATATCCA
1 AACAAGTTAGCACACAGTAGTTAATCACATCAAGCGTCAAATAACGATTTCACAAATGATATCCA
** * * *
11162645 AG-AGTCAAGAGCATCTTACAAATTCCTT-GAGCATTCAC-ATATTCTCTTAAAAATGCCTCTAA
66 AGTA-TCAAGAGCATCCCACAAATTCCTTAGAACATTCACGA-ATTCTCCTAAAAATGCGTCTAA
* ** * * * *
11162707 AGCAAAAAAGTATGAAAAATTAAAA-CTGTGTGAATGG-TTTTATATCAAAATTTGAAAGCTATG
129 AGCAAAAAAGTATGAAAAATTAAAACCAGTGCCAAAGGTTTTTATATCACAATTTGAAA-TTGTG
* * * * * * *
11162770 CGAATGATTTTTATGCCCATAATTGTTTGAAAACAGATTTTGGCATTTTCGGATCCAAAATCTTT
193 CGAATGGTTTTTATGCTCATAATTGTTGGAAAACAGATTTTGACATTTTAGGCTCCAAAATCCTT
* * * * * * * *
11162835 CAAAAACAGTTTATACCTAAT-GCTGTGGAAAATTAAAACCAACGCAATTTACCATTGTTCTTTG
258 CAAAAACAGCTTACA-CT-ATCGCTGTGAAAAATTAAAACCAACACAAGTTATCATCGTTTTTTG
* * * * * * ** *
11162899 TTTAAGCAAGTTTAAAATATTGGATTTAATGATATTCAAATTCGTTTCCATTTCAAAACCTGCTA
321 TTTGAGTAAGTTTAAAACATTGAATTCAACGATATTCAAATTCGTTTCTGTTTCAAAACCTGTTA
* * * * * * ** * * *
11162964 AAACAATGATTCACATTTTAAAACTTGGCTTTTAGC-AAAAATCATTTTCAAAGTAAAATATAAA
386 AAACAGTGTTTCACACTTTAAAGCTCGAC-ACTA-CTAAAAATCATTTTCAAAGCAAAACATAGA
* *
11163028 AATTTCAAAAACATTAAGCTTTTGAGTTTGTGCAT-AATATAT-ATATA-A-A-A-ACA-AGT-T
449 AACTTCAAAAACATTAAGCTTTTGAGTTTGTGCATAAATATATAATATATATATATATATA-TAT
11163085 -
513 A
* * * *
11163085 ----AG-TA-CACACAAATAGTTAATCACATCAAGC-ACCAATAACGATTTCACAAATGATAGCC
1 AACAAGTTAGCACAC-AGTAGTTAATCACATCAAGCGTCAAATAACGATTTCACAAATGATATCC
* * * *
11163143 AAGTATCAAGAGCATCCTACAAATTCGTTAGAACATTCACGAATTCTCCTAGAAATGCGTTTAAA
65 AAGTATCAAGAGCATCCCACAAATTCCTTAGAACATTCACGAATTCTCCTAAAAATGCGTCTAAA
* *
11163208 GCAAAAAAGTATGAAAAAATTAAAA-C--T-CCACGAATGGTTTTTATACCACAATTTGAAAGGT
130 GCAAAAAAGTATG-AAAAATTAAAACCAGTGCCA--AA-GGTTTTTATATCACAATTTGAAA-TT
* * * * * * *
11163269 GGGAGAATGGTTTTTATGCCCATAATTGTTTGAAAATAGAGTTTGACATTTTAGGCTCCAATATC
190 GTGCGAATGGTTTTTATGCTCATAATTGTTGGAAAACAGATTTTGACATTTTAGGCTCCAAAATC
* ** * *
11163334 CTTCAAAAACAGCTTACACATAAT-GCTATGAAAAATTAAAACCAACGTAAGTTATCATTGTTCT
255 CTTCAAAAACAGCTTACAC-T-ATCGCTGTGAAAAATTAAAACCAACACAAGTTATCATCGTTTT
* * ** * * *
11163398 TTGTTAGAGTAAGTTTAAAACATTGGATTCAAAAATATTCAAATTCATTTCCGTTTCACAA-CTG
318 TTGTTTGAGTAAGTTTAAAACATTGAATTCAACGATATTCAAATTCGTTTCTGTTTCAAAACCT-
* * * * * * * * *
11163462 GCTAAAACAGTGTCTCATAGTTTAAAGCTCAACTCTAGC-AAAAACCGTTTTCAAAGCAAAATAT
382 GTTAAAACAGTGTTTCACACTTTAAAGCTCGACACTA-CTAAAAATCATTTTCAAAGCAAAACAT
*
11163526 AGAAACTTCAAAAACATTATTAGGCTTTTGGGTTTGTGC---------------ATA-ATATATA
446 AGAAACTTCAAAAACATTA--A-GCTTTTGAGTTTGTGCATAAATATATAATATATATATATATA
11163575 TA-A-A
508 TATATA
* * * * *
11163579 AGCAAGTTAGCGCACA-CAGTTAATCACATCAAGAG-CAAATAACGATTTCATAAATGATATCCA
1 AACAAGTTAGCACACAGTAGTTAATCACATCAAGCGTCAAATAACGATTTCACAAATGATATCCA
* * * * * *
11163642 AGTATCAAGTGCATCGCACAAATTCCTTAAAACATTAACGAATTCTCCTAAAAATGCGTTTAAAC
66 AGTATCAAGAGCATCCCACAAATTCCTTAGAACATTCACGAATTCTCCTAAAAATGCGTCTAAAG
* *
11163707 CAAAAAAGTATGAAAAATTATAATCA-TG-CAAATGGTTTTTAT
131 CAAAAAAGTATGAAAAATTAAAACCAGTGCCAAA-GGTTTTTAT
11163749 GCCCATAATT
Statistics
Matches: 3892, Mismatches: 584, Indels: 388
0.80 0.12 0.08
Matches are distributed among these distances:
485 1 0.00
486 2 0.00
487 5 0.00
488 4 0.00
489 4 0.00
490 6 0.00
491 19 0.00
492 25 0.01
493 212 0.05
494 440 0.11
495 256 0.07
496 303 0.08
497 689 0.18
498 379 0.10
499 240 0.06
500 148 0.04
501 65 0.02
502 336 0.09
503 84 0.02
504 20 0.01
505 82 0.02
506 13 0.00
507 112 0.03
508 1 0.00
509 14 0.00
511 17 0.00
512 1 0.00
514 2 0.00
531 9 0.00
533 95 0.02
534 22 0.01
535 280 0.07
536 6 0.00
ACGTcount: A:0.39, C:0.16, G:0.13, T:0.32
Consensus pattern (513 bp):
AACAAGTTAGCACACAGTAGTTAATCACATCAAGCGTCAAATAACGATTTCACAAATGATATCCA
AGTATCAAGAGCATCCCACAAATTCCTTAGAACATTCACGAATTCTCCTAAAAATGCGTCTAAAG
CAAAAAAGTATGAAAAATTAAAACCAGTGCCAAAGGTTTTTATATCACAATTTGAAATTGTGCGA
ATGGTTTTTATGCTCATAATTGTTGGAAAACAGATTTTGACATTTTAGGCTCCAAAATCCTTCAA
AAACAGCTTACACTATCGCTGTGAAAAATTAAAACCAACACAAGTTATCATCGTTTTTTGTTTGA
GTAAGTTTAAAACATTGAATTCAACGATATTCAAATTCGTTTCTGTTTCAAAACCTGTTAAAACA
GTGTTTCACACTTTAAAGCTCGACACTACTAAAAATCATTTTCAAAGCAAAACATAGAAACTTCA
AAAACATTAAGCTTTTGAGTTTGTGCATAAATATATAATATATATATATATATATATA
Found at i:11160879 original size:497 final size:496
Alignment explanation
Indices: 11159085--11163748 Score: 5195
Period size: 497 Copynumber: 9.4 Consensus size: 496
11159075 ATATATATAT
* * * * * * * * *
11159085 ATATATGTATAAACAAGTTAGCGCATACAGTAGTTAATCACATCAAACGTCAATAACAATTGCCC
1 ATATATATAAAAACAAGTTAGCACACACAGTAGTTAATCACATCAAGCGCCAATAACGATTTCAC
11159150 AAATGATATCCAAGTGA-CAAGAGCATCCCACAAATTCCTTAGCA-CATTCACGAATTCTCCTAA
66 AAATGATATCCAAGT-ATCAAGAGCATCCCACAAATTCCTTAG-AGCATTCACGAATTCTCCTAA
* * * * *
11159213 AAATGCATCTAATGCAAACAAAACTATGAAAAATTAAAA-CAGTGCCAAAGGTTTTTATATCACA
129 AAATGCGTCTAAAGC-AA-AAAAGTATGAAAAATTAAAACCA-TGCGAATGGTTTTTATATCACA
* * *
11159277 ATTTGAAAGTTGTGTGAATGGCTTTTAAGCCCATAATTGTT-GGAAAACAGATTTTGACATTTTA
191 ATTTGAAAGCTGTGTGAATGGTTTTTATGCCCATAATTGTTCGG-AAACAGATTTTGACATTTTA
* * * * *
11159341 GGCTCCAAAATCCTTCAAAAACAGCT-TACATCTATCGCTGTGAAAATTTAAAACCAACACAAAT
255 GGCTCCAAAATCCTTC-AAAACAG-TATACACCTAACGCTGTGAAAAATTAAAACCAACGCAAGT
* * **
11159405 TATCATCGTTCTTTGTTTGAGCAAGTTTAGAACATTGGATTCAACGATATTGAAATTCGTTTCTG
318 TATCATCGTTCTTTGTTTGAGCAAGTTTAAAACATTGGATTCAACGATATTCAAATTCGTTTCCA
* * * ** * *
11159470 TTTCAAAACCTACTAAAATAGTGTTTCACACTTTAAAGCTCGAAACTAGTAAAAATCATTTTCAA
383 TTTCAAAACCTGCTAAAACAGTGTTTCATACTTTAAAGCTCGACTCTAGCAAAAATCGTTTTCAA
* * *
11159535 AGCAAAATACATAAACTTCAAAAACATTAAGCTTTTGAGTTTGTGCATAATATATA
448 AGCAAAACATAGAAACTTCAAAAACATTAAGCTTTTGAGTTTGTGC-------ATA
* *
11159591 TATATATATATATAAACAAGTTAG--CACACAGAAGTTAATCACATCAAGCGCAAATAACGATTT
1 -ATATATATA-A-AAACAAGTTAGCACACACAGTAGTTAATCACATCAAGCGCCAATAACGATTT
*
11159654 CACAAATGATATCCAAGTATCAAGAGCATCCCACAAATTCCTTAGAACATTCACGAATTCTCCTA
63 CACAAATGATATCCAAGTATCAAGAGCATCCCACAAATTCCTTAGAGCATTCACGAATTCTCCTA
* *
11159719 AAAATGCGTCTAAAGCAAAAAAGTATGAAAAATTAAAACCATGCGAATGATTTTTATATCACAAA
128 AAAATGCGTCTAAAGCAAAAAAGTATGAAAAATTAAAACCATGCGAATGGTTTTTATATCACAAT
** * ** * ** *
11159784 TTGAAATTTGTGCGAATGGTTTTTATGCTTATAATTGCTCCAAAACAGA--TTGACATTTTAGTC
193 TTGAAAGCTGTGTGAATGGTTTTTATGCCCATAATTGTTCGGAAACAGATTTTGACATTTTAGGC
* * * * * *
11159847 TCCAAAATCCTTCGAAAATAGCT-TACACCTAACGTTGTGAAAAATTAAAATCGATGCATGTTAT
258 TCCAAAATCCTTC-AAAACAG-TATACACCTAACGCTGTGAAAAATTAAAACCAACGCAAGTTAT
* * * * * ** *
11159911 TATCGTTTTTTATTT-TGTAAGTTTAAAACATTACATTCAACGATATTCAAATTTGTTTCCATTT
321 CATCGTTCTTTGTTTGAGCAAGTTTAAAACATTGGATTCAACGATATTCAAATTCGTTTCCATTT
* *** * * * *
11159975 CAAAACCTGTTAAAACAGTGTTTTGCACTTTAAAGCTTGACTTTACCAAAAATCGTTTTTAAAGC
386 CAAAACCTGCTAAAACAGTGTTTCATACTTTAAAGCTCGACTCTAGCAAAAATCGTTTTCAAAGC
* * * *
11160040 AAAACATAGAAACTTTAAGAACATTAATCTTTTGAGTTTCTGCATA
451 AAAACATAGAAACTTCAAAAACATTAAGCTTTTGAGTTTGTGCATA
* * * * * *
11160086 AGATATCTAAAAACAGGTTAGCACACACAGTAGTTAATCATATCAAGTGTCAATAACGATTTCAC
1 ATATATATAAAAACAAGTTAGCACACACAGTAGTTAATCACATCAAGCGCCAATAACGATTTCAC
* * * ** * **
11160151 AAATGATATCCAAGTATCAAGAGCATTCAACAAATTCTTTTTAGCATTCACGAATTATATTAAAA
66 AAATGATATCCAAGTATCAAGAGCATCCCACAAATTCCTTAGAGCATTCACGAATTCTCCTAAAA
* ** ** * * *
11160216 GTATGTAGAAAGCAAAAAAGTATGAAAAATTAAAATCGTGCGAATGGTTTTTATATCACAATTTT
131 ATGCGTCTAAAGCAAAAAAGTATGAAAAATTAAAACCATGCGAATGGTTTTTATATCACAATTTG
* * *
11160281 AAAGCTGTGTGAATGGTTTTTATGGCCATAATTGTTTGGAAACAGATTTTGACATTTTAGGCTCT
196 AAAGCTGTGTGAATGGTTTTTATGCCCATAATTGTTCGGAAACAGATTTTGACATTTTAGGCTCC
* * * *
11160346 AAAATCTTTCAAAAATAGCT-TATACCTAATGCTGTGAAAAATTAAAACCAACGCAAGTTATCAT
261 AAAATCCTTC-AAAACAG-TATACACCTAACGCTGTGAAAAATTAAAACCAACGCAAGTTATCAT
* * * *
11160410 CATTCTTTGTTTGAGCAATTTTAAAACATTGGATTCAACGATATTCAAATTTGTTTCCATTACAA
324 CGTTCTTTGTTTGAGCAAGTTTAAAACATTGGATTCAACGATATTCAAATTCGTTTCCATTTCAA
* * * *
11160475 AAGCTGCTAAAACAATGTTTCATACTTTAAAGCTCAACTCTAGCAAAAATCGCTTTCAAAGCAAA
389 AACCTGCTAAAACAGTGTTTCATACTTTAAAGCTCGACTCTAGCAAAAATCGTTTTCAAAGCAAA
* * *
11160540 ATATAGAAACTTCAAAAGC-TTTAGCTTTTGAGTTTGTGCATATA
454 ACATAGAAACTTCAAAAACATTAAGCTTTTGAGTTTGTGC--ATA
* * * * * *
11160584 ATATACATAAAAACAAGTTAGCACATAGAGTAGTTAATGACATCAAGCGCTAATAACTATTTCAC
1 ATATATATAAAAACAAGTTAGCACACACAGTAGTTAATCACATCAAGCGCCAATAACGATTTCAC
* * * * * *
11160649 AAATGATATCCAGGTATCGAGAGCATCCCACAAATTCCTTGGAGCCTTCTCGAATTCTTCTAAAA
66 AAATGATATCCAAGTATCAAGAGCATCCCACAAATTCCTTAGAGCATTCACGAATTCTCCTAAAA
* * * * *
11160714 GTGCGTCTAAAGCAAAAAAAGTTTGAAAAATTAAAACCATGCGTATGGTTTTGTTTATTACAATT
131 ATGCGTCTAAAGC-AAAAAAGTATGAAAAATTAAAACCATGCGAATGGTTTT-TATATCACAATT
* * * * *
11160779 TCAAAGCTGTGTGAATAGTTTTTATGCCCATAATTATTCAGAAATAGATTTTGACATTTTAGGCT
194 TGAAAGCTGTGTGAATGGTTTTTATGCCCATAATTGTTCGGAAACAGATTTTGACATTTTAGGCT
* * *
11160844 CCAAAATCCATC-AAA-AGTATACACCTAACGCTGTGAAAAATTAAAATCAATGCAAGTTATCAT
259 CCAAAATCCTTCAAAACAGTATACACCTAACGCTGTGAAAAATTAAAACCAACGCAAGTTATCAT
* *
11160907 CATTCCTTGTTTGAGCAAGTTTAAAACATTGGATTCAACGATATTCAAATTCGTTTCCATTTCAA
324 CGTTCTTTGTTTGAGCAAGTTTAAAACATTGGATTCAACGATATTCAAATTCGTTTCCATTTCAA
* * * * * * * *
11160972 AACCTACTAAAACAGTCTTTCGTACTTTAAAACTTGACTCTAACAAAAATCGCTTTCTAAGCAAA
389 AACCTGCTAAAACAGTGTTTCATACTTTAAAGCTCGACTCTAGCAAAAATCGTTTTCAAAGCAAA
* *
11161037 ACATAAAAAGTTCAAAAACATTAAGCTTTTGAGTTTGTGCATA
454 ACATAGAAACTTCAAAAACATTAAGCTTTTGAGTTTGTGCATA
* * * *
11161080 ATAGATATAAAAATAAGTTAGCACATAGATAGTAGTTAATCACATCAAGCGCCAATAACGATTTC
1 ATATATATAAAAACAAGTTAGCAC--ACACAGTAGTTAATCACATCAAGCGCCAATAACGATTTC
* * *
11161145 ACCAATGACATCCAAGTATCAAGAGCATCCCACAAATTCCTT--AGCTTTCACGAATTCTCCTAA
64 ACAAATGATATCCAAGTATCAAGAGCATCCCACAAATTCCTTAGAGCATTCACGAATTCTCCTAA
** ** * * * * **
11161208 ACGTAAGTCTGAAGCAAAAAAGTATGAAAAATGAAAACCGTGTGAGCGGTTTTTATATCACAATT
129 AAATGCGTCTAAAGCAAAAAAGTATGAAAAATTAAAACCATGCGAATGGTTTTTATATCACAATT
* * * * *
11161273 TGGAAGCTAT-TCAAATGGTTTTTATGCCCATAATTGTTCGGAAACAGATTTTGACACTTTAGGT
194 TGAAAGCTGTGT-GAATGGTTTTTATGCCCATAATTGTTCGGAAACAGATTTTGACATTTTAGGC
* * * * * * *
11161337 TCCAAAATCCTTCAAAAATAGCT-TACACCGAATGCTATGAAAAATTATAACTAACGTAAGTTAT
258 TCCAAAATCCTTC-AAAACAG-TATACACCTAACGCTGTGAAAAATTAAAACCAACGCAAGTTAT
* * * *
11161401 CATCGTTCTTTGTTTGAGCAAGATTAAAACATTGGATTTAACGATATTCAAATTCATTTCCGTTT
321 CATCGTTCTTTGTTTGAGCAAGTTTAAAACATTGGATTCAACGATATTCAAATTCGTTTCCATTT
* * * * **
11161466 CAAAACCTG-TCGAAATAGTGTTTCATAATTTAAAGCTCAACTCTAGCAAAAATCACTTTCAAAG
386 CAAAACCTGCT-AAAACAGTGTTTCATACTTTAAAGCTCGACTCTAGCAAAAATCGTTTTCAAAG
* * *
11161530 TAAAACATAGAAATTTCAAAAACATTAAGCTTTTAAGTTTGTGCATA
450 CAAAACATAGAAACTTCAAAAACATTAAGCTTTTGAGTTTGTGCATA
* * * * *
11161577 ATATATATAAAAACAAGTTAGCACGCATAGTAGTTAATCACATCAAGCACCAATAATGATTTTAC
1 ATATATATAAAAACAAGTTAGCACACACAGTAGTTAATCACATCAAGCGCCAATAACGATTTCAC
* * * *
11161642 AAATGATATCCAAGGATCAAGAGCATCCCCATAAATTCCTTAGAGCATTCATGAATTCTCTTAAA
66 AAATGATATCCAAGTATCAAGAGCAT-CCCACAAATTCCTTAGAGCATTCACGAATTCTCCTAAA
** * * * * * * *
11161707 CGTACGTCAAAAGC-AAAAAGTATGAAAAATGAAAATCGTGCAAATGGTTTTTAAATCACAATTT
130 AATGCGTCTAAAGCAAAAAAGTATGAAAAATTAAAACCATGCGAATGGTTTTTATATCACAATTT
* * * *
11161771 GAAAGCTGTGCGAATGGCTTTTATGTCCATAATTGTTCGGAAGCAGATTTTGACATTTTAGGCTC
195 GAAAGCTGTGTGAATGGTTTTTATGCCCATAATTGTTCGGAAACAGATTTTGACATTTTAGGCTC
* * * * *
11161836 CAAAATCTTTCAAAAAGAGCATACACCTAACGTTATGTAAAAATTAAAACCAACGCAAGTTATCA
260 CAAAATCCTTC-AAAACAGTATACACCTAACGCTGTG-AAAAATTAAAACCAACGCAAGTTATCA
* * *
11161901 TCATTCTTTGTTTGCGCAAGTTTAAAAAACATTGGATTCAACGATATTCAAATT-ATTTCCATTT
323 TCGTTCTTTGTTTGAGCAAGTTT--AAAACATTGGATTCAACGATATTCAAATTCGTTTCCATTT
** * * *
11161965 CAAAACCTATTGAAACAGTGTTTCATACTTTAAAGCTCGACTCTAGCAAAAATAGTTTTCAAAGT
386 CAAAACCTGCTAAAACAGTGTTTCATACTTTAAAGCTCGACTCTAGCAAAAATCGTTTTCAAAGC
* * *
11162030 AAAACATATAAACTTCAAAAACATTAAACGTTTGAGTTTGTGCATA
451 AAAACATAGAAACTTCAAAAACATTAAGCTTTTGAGTTTGTGCATA
* * * * *
11162076 ATATATATAAAAACAAGTTAG--CGCACA-TAGTTAATCACATGAAGCGCCAATAACAATTACAT
1 ATATATATAAAAACAAGTTAGCACACACAGTAGTTAATCACATCAAGCGCCAATAACGATTTCAC
* * *
11162138 GAATGATATCCAAGTATCAAGAGCATCCCACAAATTCCTTAGAGCGTTCATGAATTCTCCTAAAA
66 AAATGATATCCAAGTATCAAGAGCATCCCACAAATTCCTTAGAGCATTCACGAATTCTCCTAAAA
* * *
11162203 ATGTGTCTAAAGCAAAAAAGTATGAAAAATTAAAACCGTGTGAATGGTTTCTT-TATCACAATTT
131 ATGCGTCTAAAGCAAAAAAGTATGAAAAATTAAAACCATGCGAATGGTTT-TTATATCACAATTT
** ** *
11162267 GAAAGCTAAGTGAATGGTTTTTATGCCCATAAGAGTTCGAAAACAGATTTTGACATTTTAGGCTC
195 GAAAGCTGTGTGAATGGTTTTTATGCCCATAATTGTTCGGAAACAGATTTTGACATTTTAGGCTC
* * ** * * *** *
11162332 TAAAATCCTTTGAAAAACAGCGTACACCTAACGCTATG-AAAATTAAAACGAACATTAGTTATTA
260 CAAAATCC-TT-CAAAACAGTATACACCTAACGCTGTGAAAAATTAAAACCAACGCAAGTTATCA
* * * *
11162396 TTGTTCATTGTTTGAGCAAGTTTAAAACATTGGATTCAACGATATTCAAATTTGTTTCTATTTCA
323 TCGTTCTTTGTTTGAGCAAGTTTAAAACATTGGATTCAACGATATTCAAATTCGTTTCCATTTCA
** * * * *
11162461 AAA-CTAGCTAAAACAGCATTTCTTACCTTAAAGCTCGACTCTAGCAAAAATCATTTTCAAACCA
388 AAACCT-GCTAAAACAGTGTTTCATACTTTAAAGCTCGACTCTAGCAAAAATCGTTTTCAAAGCA
* *
11162525 AAACATCGAAACTTCAAAAACATTAATAAGCTTTTGAGTTTTTGCATA
452 AAACATAGAAACTTCAAAAACA-T--TAAGCTTTTGAGTTTGTGCATA
* *
11162573 ATATATATAAAAACAAGTTAG--CACAC---AGTTAATCACATCAAGAGCCAATAACAATTTCAC
1 ATATATATAAAAACAAGTTAGCACACACAGTAGTTAATCACATCAAGCGCCAATAACGATTTCAC
** *
11162633 AAATGATATCCAAG-AGTCAAGAGCATCTTACAAATTCCTT-GAGCATTCAC-ATATTCTCTTAA
66 AAATGATATCCAAGTA-TCAAGAGCATCCCACAAATTCCTTAGAGCATTCACGA-ATTCTCCTAA
* ** * *
11162695 AAATGCCTCTAAAGCAAAAAAGTATGAAAAATTAAAACTGTGTGAATGG-TTTTATATCAAAATT
129 AAATGCGTCTAAAGCAAAAAAGTATGAAAAATTAAAACCATGCGAATGGTTTTTATATCACAATT
* * * * * * * *
11162759 TGAAAGCTATGCGAATGATTTTTATGCCCATAATTGTTTGAAAACAGATTTTGGCATTTTCGGAT
194 TGAAAGCTGTGTGAATGGTTTTTATGCCCATAATTGTTCGGAAACAGATTTTGACATTTTAGGCT
* * * * * * *
11162824 CCAAAATCTTTCAAAAACAGTTTATACCTAATGCTGTGGAAAATTAAAACCAACGCAATTTACCA
259 CCAAAATCCTTC-AAAACAGTATACACCTAACGCTGTGAAAAATTAAAACCAACGCAAGTTATCA
* * * * *
11162889 TTGTTCTTTGTTTAAGCAAGTTTAAAATATTGGATTTAATGATATTCAAATTCGTTTCCATTTCA
323 TCGTTCTTTGTTTGAGCAAGTTTAAAACATTGGATTCAACGATATTCAAATTCGTTTCCATTTCA
* * * * * * * * * *
11162954 AAACCTGCTAAAACAATGATTCACATTTTAAAACTTGGCTTTTAGCAAAAATCATTTTCAAAGTA
388 AAACCTGCTAAAACAGTGTTTCATACTTTAAAGCTCGAC-TCTAGCAAAAATCGTTTTCAAAGCA
* * *
11163019 AAATATAAAAATTTCAAAAACATTAAGCTTTTGAGTTTGTGCATAA
452 AAACATAGAAACTTCAAAAACATTAAGCTTTTGAGTTTGTGCAT-A
* * *
11163065 TATATATATAAAAACAAGTTAGTACACACAAATAGTTAATCACATCAAGCACCAATAACGATTTC
1 -ATATATATAAAAACAAGTTAGCACACAC-AGTAGTTAATCACATCAAGCGCCAATAACGATTTC
* * * * *
11163130 ACAAATGATAGCCAAGTATCAAGAGCATCCTACAAATTCGTTAGAACATTCACGAATTCTCCTAG
64 ACAAATGATATCCAAGTATCAAGAGCATCCCACAAATTCCTTAGAGCATTCACGAATTCTCCTAA
* *
11163195 AAATGCGTTTAAAGCAAAAAAGTATGAAAAAATTAAAACTCCA--CGAATGGTTTTTATACCACA
129 AAATGCGTCTAAAGCAAAAAAGTATG-AAAAATTAAAA--CCATGCGAATGGTTTTTATATCACA
* * * * * * *
11163258 ATTTGAAAGGTGGGAGAATGGTTTTTATGCCCATAATTGTTTGAAAATAGAGTTTGACATTTTAG
191 ATTTGAAAGCTGTGTGAATGGTTTTTATGCCCATAATTGTTCGGAAACAGATTTTGACATTTTAG
* * * * *
11163323 GCTCCAATATCCTTCAAAAACAGCT-TACACATAATGCTATGAAAAATTAAAACCAACGTAAGTT
256 GCTCCAAAATCCTTC-AAAACAG-TATACACCTAACGCTGTGAAAAATTAAAACCAACGCAAGTT
* * * ** * *
11163387 ATCATTGTTCTTTGTTAGAGTAAGTTTAAAACATTGGATTCAAAAATATTCAAATTCATTTCCGT
319 ATCATCGTTCTTTGTTTGAGCAAGTTTAAAACATTGGATTCAACGATATTCAAATTCGTTTCCAT
* * * * *
11163452 TTCACAA-CTGGCTAAAACAGTGTCTCATAGTTTAAAGCTCAACTCTAGCAAAAACCGTTTTCAA
384 TTCAAAACCT-GCTAAAACAGTGTTTCATACTTTAAAGCTCGACTCTAGCAAAAATCGTTTTCAA
* *
11163516 AGCAAAATATAGAAACTTCAAAAACATTATTAGGCTTTTGGGTTTGTGCATA
448 AGCAAAACATAGAAACTTCAAAAACATTA--A-GCTTTTGAGTTTGTGCATA
* * * * *
11163568 ATATATATAAAAGCAAGTTAGCGCACAC---AGTTAATCACATCAAGAGCAAATAACGATTTCAT
1 ATATATATAAAAACAAGTTAGCACACACAGTAGTTAATCACATCAAGCGCCAATAACGATTTCAC
* * * * *
11163630 AAATGATATCCAAGTATCAAGTGCATCGCACAAATTCCTTAAAACATTAACGAATTCTCCTAAAA
66 AAATGATATCCAAGTATCAAGAGCATCCCACAAATTCCTTAGAGCATTCACGAATTCTCCTAAAA
* * * * *
11163695 ATGCGTTTAAACCAAAAAAGTATGAAAAATTATAATCATGCAAATGGTTTTTAT
131 ATGCGTCTAAAGCAAAAAAGTATGAAAAATTAAAACCATGCGAATGGTTTTTAT
11163749 GCCCATAATT
Statistics
Matches: 3533, Mismatches: 552, Indels: 154
0.83 0.13 0.04
Matches are distributed among these distances:
491 20 0.01
492 35 0.01
493 232 0.07
494 451 0.13
495 250 0.07
496 322 0.09
497 723 0.20
498 397 0.11
499 227 0.06
500 148 0.04
501 64 0.02
502 357 0.10
503 81 0.02
504 17 0.00
505 78 0.02
506 6 0.00
507 114 0.03
509 11 0.00
ACGTcount: A:0.39, C:0.17, G:0.13, T:0.31
Consensus pattern (496 bp):
ATATATATAAAAACAAGTTAGCACACACAGTAGTTAATCACATCAAGCGCCAATAACGATTTCAC
AAATGATATCCAAGTATCAAGAGCATCCCACAAATTCCTTAGAGCATTCACGAATTCTCCTAAAA
ATGCGTCTAAAGCAAAAAAGTATGAAAAATTAAAACCATGCGAATGGTTTTTATATCACAATTTG
AAAGCTGTGTGAATGGTTTTTATGCCCATAATTGTTCGGAAACAGATTTTGACATTTTAGGCTCC
AAAATCCTTCAAAACAGTATACACCTAACGCTGTGAAAAATTAAAACCAACGCAAGTTATCATCG
TTCTTTGTTTGAGCAAGTTTAAAACATTGGATTCAACGATATTCAAATTCGTTTCCATTTCAAAA
CCTGCTAAAACAGTGTTTCATACTTTAAAGCTCGACTCTAGCAAAAATCGTTTTCAAAGCAAAAC
ATAGAAACTTCAAAAACATTAAGCTTTTGAGTTTGTGCATA
Found at i:11162376 original size:993 final size:989
Alignment explanation
Indices: 11158539--11163748 Score: 5609
Period size: 994 Copynumber: 5.2 Consensus size: 989
11158529 ATCATCGTTC
** * * * *
11158539 TTGAGTTTGTGCATAATATACGTAAGAACAAGTTAGCACACAGTACTTAATCACATCAAGCTCTA
1 TTGAGTTTGTGCATAATATATATAAAAACAAGTTAGCACACAGTAGTTAATCACATCAAGCACAA
* * ** * * * *
11158604 ATAATGATTTCGCAAATGATATCCAACTATCAAAAGCATCACACAAATTCCTTAAAGCATTCACA
66 ATAACGATTTCACAAATGATATCCAAGGATCAAGAGCATCCCACAAATTCCTTAGAGCATTCACG
* ** * * *
11158669 AATTCTCTTATACGTGCGTCGAAAGCAAAAAGGTATGAAAAATTAAAATCGTGCAAATGGTTTTT
131 AATTCTCTTAAAAATGCGTCTAAAGCAAAAAAGTATGAAAAATTAAAATCATGCAAATGGTTTTT
** * * ** * *
11158734 ATATCACAATTTGAAATATGTGCAAATGATTTTTATGATCATAATTGTTTGGAAAAAGATTTTGA
196 ATATCACAATTTGAAAGCTGTGCGAATGGTTTTTATGCCCATAATTGTTCGGAAACAGATTTTGA
* * * **
11158799 CATTTTAGGCTCCGAAATCTTTCAAAAACAGCTTACACTTAATGCTGTGAAAAATTAAAAGTAAC
261 CATTTTAGGCTCCAAAATCTTTCAAAAACAGCTTACACCTAACGCTGTGAAAAATTAAAACCAAC
* * * * * * * *
11158864 ACAAGTTATCATTGTTTTTTGTTTGAGTAGGTTTAAAACATTGAATTCAACGGTATTTAAATTCG
326 GCAAGTTATCATCGTTCTTTGTTTGAGCAAGTTTAAAACATTGGATTCAACGATATTCAAATTCG
* ** * * * * *
11158929 TATCTGTTTCAAAACCCGTTGAAACAGTGTTTCACACTTTAAAGCTCGACACTA-CTACAAATCA
391 TTTCCATTTCAAAACCTGTTAAAACAGTGTTTCACACTTTAAAGCTTGACTCTAGC-AAAAAT-A
* * * * * * * *
11158993 TTTTTC-AACCAAAAGATAGAAACTTCAAAAATAGTAAGCCTTTGGGTTTGTGCATAATATATAT
454 GTTTTCAAAGCAAAACATAAAAACTTCAAAAACATTAAGCTTTTGAGTTTGTGC-----------
*
11159057 ATATATATATATGAATATATATATATATATATATGTATAAACAAGTTAGCGCATACAGTAGTTAA
508 --------------------ATA-ATATATATA---A-AAACAAGTTA--GCACACAGTAGTTAA
* * * * *
11159122 TCACATCAAACGTCAATAACAATTGCCCAAATGATATCCAAGTGA-CAAGAGCATCCCACAAATT
546 TCACATCAAGCGCCAATAACGATTTCACAAATGATATCCAAGT-ATCAAGAGCATCCCACAAATT
* * *
11159186 CCTTAGCA-CATTCACGAATTCTCCTAAAAATGCATCTAATGCAAACAAAACTATGAAAAATTAA
610 CCTTAG-AGCATTCACGAATTCTCCTAAAAATGCGTCTAAAGC-AA-AAAAGTATGAAAAATTAA
* * * * * * *
11159250 AACAGTGCCAAAGGTTTTTATATCACAATTTGAAAGTTGTGTGAATGGCTTTTAAGCCCATAATT
672 AACCGTGCGAATGGTTTTTATATCACAATTTGAAAGCTGAGTGAATGGTTTTTATGCCCATAATT
* *
11159315 GTTGGAAAACAGATTTTGACATTTTAGGCTCCAAAATCCTTCAAAAACAGCTTACATCT-ATCGC
737 GTTCGAAAACAGATTTTGACATTTTAGGCTCCAAAATCCTTCAAAAACAGCTTACACCTAAT-GC
* * ** * *
11159379 TGTGAAAATTTAAAACCAACACAAATTATCATCGTTCTTTGTTTGAGCAAGTTTAGAACATTGGA
801 TATGAAAAATTAAAACCAACGTAAGTTATCATCGTTCTTTGTTTGAGCAAGTTTAAAACATTGGA
* * * * *
11159444 TTCAACGATATTGAAATTCGTTTCTGTTTCAAAACCTACTAAAATAGTGTTTCACACTTTAAAGC
866 TTCAACGATATTCAAATTCGTTTCCGTTTCAAAA-CTGCTAAAACAGTGTTTCATACTTTAAAGC
* * * *
11159509 TCGAA-ACTAGTAAAAATCATTTTCAAAGCAAAATACATAAACTTCAAAAACATTAAGCTT
930 TC-AACTCTAGCAAAAATCATTTTCAAAGCAAAATATAGAAACTTCAAAAACATTAAGCTT
*
11159569 TTGAGTTTGTGCATAATATATATATATATATATATAAACAAGTTAGCACACAGAAGTTAATCACA
1 TTGAGTTTGTGC-------ATA-ATATATATA-A-AAACAAGTTAGCACACAGTAGTTAATCACA
* *
11159634 TCAAGCGCAAATAACGATTTCACAAATGATATCCAAGTATCAAGAGCATCCCACAAATTCCTTAG
56 TCAAGCACAAATAACGATTTCACAAATGATATCCAAGGATCAAGAGCATCCCACAAATTCCTTAG
* * * *
11159699 AACATTCACGAATTCTCCTAAAAATGCGTCTAAAGCAAAAAAGTATGAAAAATTAAAACCATGCG
121 AGCATTCACGAATTCTCTTAAAAATGCGTCTAAAGCAAAAAAGTATGAAAAATTAAAATCATGCA
* * ** ** * **
11159764 AATGATTTTTATATCACAAATTGAAATTTGTGCGAATGGTTTTTATGCTTATAATTGCTCCAAAA
186 AATGGTTTTTATATCACAATTTGAAAGCTGTGCGAATGGTTTTTATGCCCATAATTGTTCGGAAA
* * * * *
11159829 CAGA--TTGACATTTTAGTCTCCAAAATCCTTCGAAAATAGCTTACACCTAACGTTGTGAAAAAT
251 CAGATTTTGACATTTTAGGCTCCAAAATCTTTCAAAAACAGCTTACACCTAACGCTGTGAAAAAT
* * * * * * * * * **
11159892 TAAAATCGATGCATGTTATTATCGTTTTTTATTT-TGTAAGTTTAAAACATTACATTCAACGATA
316 TAAAACCAACGCAAGTTATCATCGTTCTTTGTTTGAGCAAGTTTAAAACATTGGATTCAACGATA
* ** * *
11159956 TTCAAATTTGTTTCCATTTCAAAACCTGTTAAAACAGTGTTTTGCACTTTAAAGCTTGACTTTAC
381 TTCAAATTCGTTTCCATTTCAAAACCTGTTAAAACAGTGTTTCACACTTTAAAGCTTGACTCTAG
* * * * * * *
11160021 CAAAAATCGTTTTTAAAGCAAAACATAGAAACTTTAAGAACATTAATCTTTTGAGTTTCTGCATA
446 CAAAAATAGTTTTCAAAGCAAAACATAAAAACTTCAAAAACATTAAGCTTTTGAGTTTGTGCATA
* * * * * *
11160086 AGATATCTAAAAACAGGTTAGCACACACAGTAGTTAATCATATCAAGTGTCAATAACGATTTCAC
511 ATATATATAAAAACAAGTTAG--CACACAGTAGTTAATCACATCAAGCGCCAATAACGATTTCAC
* * * ** * **
11160151 AAATGATATCCAAGTATCAAGAGCATTCAACAAATTCTTTTTAGCATTCACGAATTATATTAAAA
574 AAATGATATCCAAGTATCAAGAGCATCCCACAAATTCCTTAGAGCATTCACGAATTCTCCTAAAA
* ** ** * *
11160216 GTATGTAGAAAGCAAAAAAGTATGAAAAATTAAAATCGTGCGAATGGTTTTTATATCACAATTTT
639 ATGCGTCTAAAGCAAAAAAGTATGAAAAATTAAAACCGTGCGAATGGTTTTTATATCACAATTTG
* * * * *
11160281 AAAGCTGTGTGAATGGTTTTTATGGCCATAATTGTTTGGAAACAGATTTTGACATTTTAGGCTCT
704 AAAGCTGAGTGAATGGTTTTTATGCCCATAATTGTTCGAAAACAGATTTTGACATTTTAGGCTCC
* * * * *
11160346 AAAATCTTTCAAAAATAGCTTATACCTAATGCTGTGAAAAATTAAAACCAACGCAAGTTATCATC
769 AAAATCCTTCAAAAACAGCTTACACCTAATGCTATGAAAAATTAAAACCAACGTAAGTTATCATC
* * * * *
11160411 ATTCTTTGTTTGAGCAATTTTAAAACATTGGATTCAACGATATTCAAATTTGTTTCCATTACAAA
834 GTTCTTTGTTTGAGCAAGTTTAAAACATTGGATTCAACGATATTCAAATTCGTTTCCGTTTCAAA
* **
11160476 AGCTGCTAAAACAATGTTTCATACTTTAAAGCTCAACTCTAGCAAAAATCGCTTTCAAAGCAAAA
899 A-CTGCTAAAACAGTGTTTCATACTTTAAAGCTCAACTCTAGCAAAAATCATTTTCAAAGCAAAA
* *
11160541 TATAGAAACTTCAAAAGC-TTTAGCTT
963 TATAGAAACTTCAAAAACATTAAGCTT
* * *
11160567 TTGAGTTTGTGCATATAATATACATAAAAACAAGTTAGCACATAGAGTAGTTAATGACATCAAGC
1 TTGAGTTTGTGC--ATAATATATATAAAAACAAGTTAGCAC--ACAGTAGTTAATCACATCAAGC
* * * * * *
11160632 GCTAATAACTATTTCACAAATGATATCC-AGGTATCGAGAGCATCCCACAAATTCCTTGGAGCCT
62 ACAAATAACGATTTCACAAATGATATCCAAGG-ATCAAGAGCATCCCACAAATTCCTTAGAGCAT
* * * * **
11160696 TCTCGAATTCT-TCTAAAAGTGCGTCTAAAGCAAAAAAAGTTTGAAAAATTAAAACCATGCGTAT
126 TCACGAATTCTCT-TAAAAATGCGTCTAAAGC-AAAAAAGTATGAAAAATTAAAATCATGCAAAT
* * * * * * * *
11160760 GGTTTTGTTTATTACAATTTCAAAGCTGTGTGAATAGTTTTTATGCCCATAATTATTCAGAAATA
189 GGTTTT-TATATCACAATTTGAAAGCTGTGCGAATGGTTTTTATGCCCATAATTGTTCGGAAACA
**
11160825 GATTTTGACATTTTAGGCTCCAAAATCCATC--AAA-AG-TATACACCTAACGCTGTGAAAAATT
253 GATTTTGACATTTTAGGCTCCAAAATCTTTCAAAAACAGCT-TACACCTAACGCTGTGAAAAATT
* * * *
11160886 AAAATCAATGCAAGTTATCATCATTCCTTGTTTGAGCAAGTTTAAAACATTGGATTCAACGATAT
317 AAAACCAACGCAAGTTATCATCGTTCTTTGTTTGAGCAAGTTTAAAACATTGGATTCAACGATAT
** * ** * *
11160951 TCAAATTCGTTTCCATTTCAAAACCTACTAAAACAGTCTTTCGTACTTTAAAACTTGACTCTAAC
382 TCAAATTCGTTTCCATTTCAAAACCTGTTAAAACAGTGTTTCACACTTTAAAGCTTGACTCTAGC
* * * *
11161016 AAAAATCGCTTTCTAAGCAAAACATAAAAAGTTCAAAAACATTAAGCTTTTGAGTTTGTGCATAA
447 AAAAATAGTTTTCAAAGCAAAACATAAAAACTTCAAAAACATTAAGCTTTTGAGTTTGTGCATAA
* * *
11161081 TAGATATAAAAATAAGTTAGCACATAGATAGTAGTTAATCACATCAAGCGCCAATAACGATTTCA
512 TATATATAAAAACAAGTTAGCAC----ACAGTAGTTAATCACATCAAGCGCCAATAACGATTTCA
* * *
11161146 CCAATGACATCCAAGTATCAAGAGCATCCCACAAATTCCTT--AGCTTTCACGAATTCTCCTAAA
573 CAAATGATATCCAAGTATCAAGAGCATCCCACAAATTCCTTAGAGCATTCACGAATTCTCCTAAA
** ** * * * **
11161209 CGTAAGTCTGAAGCAAAAAAGTATGAAAAATGAAAACCGTGTGAGCGGTTTTTATATCACAATTT
638 AATGCGTCTAAAGCAAAAAAGTATGAAAAATTAAAACCGTGCGAATGGTTTTTATATCACAATTT
* * * * * *
11161274 GGAAGCT-ATTCAAATGGTTTTTATGCCCATAATTGTTCGGAAACAGATTTTGACACTTTAGGTT
703 GAAAGCTGAGT-GAATGGTTTTTATGCCCATAATTGTTCGAAAACAGATTTTGACATTTTAGGCT
* * * *
11161338 CCAAAATCCTTCAAAAATAGCTTACACCGAATGCTATGAAAAATTATAACTAACGTAAGTTATCA
767 CCAAAATCCTTCAAAAACAGCTTACACCTAATGCTATGAAAAATTAAAACCAACGTAAGTTATCA
* * *
11161403 TCGTTCTTTGTTTGAGCAAGATTAAAACATTGGATTTAACGATATTCAAATTCATTTCCGTTTCA
832 TCGTTCTTTGTTTGAGCAAGTTTAAAACATTGGATTCAACGATATTCAAATTCGTTTCCGTTTCA
* * * * *
11161468 AAACCTG-TCGAAATAGTGTTTCATAATTTAAAGCTCAACTCTAGCAAAAATCACTTTCAAAGTA
897 AAA-CTGCT-AAAACAGTGTTTCATACTTTAAAGCTCAACTCTAGCAAAAATCATTTTCAAAGCA
* *
11161532 AAACATAGAAATTTCAAAAACATTAAGCTT
960 AAATATAGAAACTTCAAAAACATTAAGCTT
* *
11161562 TTAAGTTTGTGCATAATATATATAAAAACAAGTTAGCACGCATAGTAGTTAATCACATCAAGCAC
1 TTGAGTTTGTGCATAATATATATAAAAACAAGTTAGCA--CACAGTAGTTAATCACATCAAGCAC
* * * *
11161627 CAATAATGATTTTACAAATGATATCCAAGGATCAAGAGCATCCCCATAAATTCCTTAGAGCATTC
64 AAATAACGATTTCACAAATGATATCCAAGGATCAAGAGCAT-CCCACAAATTCCTTAGAGCATTC
* ** * * * *
11161692 ATGAATTCTCTTAAACGTACGTCAAAAGC-AAAAAGTATGAAAAATGAAAATCGTGCAAATGGTT
128 ACGAATTCTCTTAAAAATGCGTCTAAAGCAAAAAAGTATGAAAAATTAAAATCATGCAAATGGTT
* * * *
11161756 TTTAAATCACAATTTGAAAGCTGTGCGAATGGCTTTTATGTCCATAATTGTTCGGAAGCAGATTT
193 TTTATATCACAATTTGAAAGCTGTGCGAATGGTTTTTATGCCCATAATTGTTCGGAAACAGATTT
* * * *
11161821 TGACATTTTAGGCTCCAAAATCTTTCAAAAAGAGCATACACCTAACGTTATGTAAAAATTAAAAC
258 TGACATTTTAGGCTCCAAAATCTTTCAAAAACAGCTTACACCTAACGCTGTG-AAAAATTAAAAC
* *
11161886 CAACGCAAGTTATCATCATTCTTTGTTTGCGCAAGTTTAAAAAACATTGGATTCAACGATATTCA
322 CAACGCAAGTTATCATCGTTCTTTGTTTGAGCAAGTTT--AAAACATTGGATTCAACGATATTCA
* * * * *
11161951 AATT-ATTTCCATTTCAAAACCTATTGAAACAGTGTTTCATACTTTAAAGCTCGACTCTAGCAAA
385 AATTCGTTTCCATTTCAAAACCTGTTAAAACAGTGTTTCACACTTTAAAGCTTGACTCTAGCAAA
* * * *
11162015 AATAGTTTTCAAAGTAAAACATATAAACTTCAAAAACATTAAACGTTTGAGTTTGTGCATAATAT
450 AATAGTTTTCAAAGCAAAACATAAAAACTTCAAAAACATTAAGCTTTTGAGTTTGTGCATAATAT
* * * * **
11162080 ATATAAAAACAAGTTAGCGCACA-TAGTTAATCACATGAAGCGCCAATAACAATTACATGAATGA
515 ATATAAAAACAAGTTAGCACACAGTAGTTAATCACATCAAGCGCCAATAACGATTTCACAAATGA
* * *
11162144 TATCCAAGTATCAAGAGCATCCCACAAATTCCTTAGAGCGTTCATGAATTCTCCTAAAAATGTGT
580 TATCCAAGTATCAAGAGCATCCCACAAATTCCTTAGAGCATTCACGAATTCTCCTAAAAATGCGT
*
11162209 CTAAAGCAAAAAAGTATGAAAAATTAAAACCGTGTGAATGGTTTCTT-TATCACAATTTGAAAGC
645 CTAAAGCAAAAAAGTATGAAAAATTAAAACCGTGCGAATGGTTT-TTATATCACAATTTGAAAGC
* ** *
11162273 TAAGTGAATGGTTTTTATGCCCATAAGAGTTCGAAAACAGATTTTGACATTTTAGGCTCTAAAAT
709 TGAGTGAATGGTTTTTATGCCCATAATTGTTCGAAAACAGATTTTGACATTTTAGGCTCCAAAAT
* * * * * * * *
11162338 CCTTTGAAAAACAGCGTACACCTAACGCTATG-AAAATTAAAACGAACATTAGTTATTATTGTTC
774 CC-TTCAAAAACAGCTTACACCTAATGCTATGAAAAATTAAAACCAACGTAAGTTATCATCGTTC
* * **
11162402 ATTGTTTGAGCAAGTTTAAAACATTGGATTCAACGATATTCAAATTTGTTTCTATTTCAAAACTA
838 TTTGTTTGAGCAAGTTTAAAACATTGGATTCAACGATATTCAAATTCGTTTCCGTTTCAAAACT-
** * * * * * *
11162467 GCTAAAACAGCATTTCTTACCTTAAAGCTCGACTCTAGCAAAAATCATTTTCAAACCAAAACATC
902 GCTAAAACAGTGTTTCATACTTTAAAGCTCAACTCTAGCAAAAATCATTTTCAAAGCAAAATATA
11162532 GAAACTTCAAAAACATTAATAAGCTT
967 GAAACTTCAAAAACA-T--TAAGCTT
* *
11162558 TTGAGTTTTTGCATAATATATATAAAAACAAGTTAGCACAC---AGTTAATCACATCAAG-AGCC
1 TTGAGTTTGTGCATAATATATATAAAAACAAGTTAGCACACAGTAGTTAATCACATCAAGCA-CA
* **
11162619 AATAACAATTTCACAAATGATATCCAA-GAGTCAAGAGCATCTTACAAATTCCTT-GAGCATTCA
65 AATAACGATTTCACAAATGATATCCAAGGA-TCAAGAGCATCCCACAAATTCCTTAGAGCATTCA
* * **
11162682 C-ATATTCTCTTAAAAATGCCTCTAAAGCAAAAAAGTATGAAAAATTAAAA-CTGTGTGAATGG-
129 CGA-ATTCTCTTAAAAATGCGTCTAAAGCAAAAAAGTATGAAAAATTAAAATC-ATGCAAATGGT
* * * * *
11162744 TTTTATATCAAAATTTGAAAGCTATGCGAATGATTTTTATGCCCATAATTGTTTGAAAACAGATT
192 TTTTATATCACAATTTGAAAGCTGTGCGAATGGTTTTTATGCCCATAATTGTTCGGAAACAGATT
* * * * * * *
11162809 TTGGCATTTTCGGATCCAAAATCTTTCAAAAACAGTTTATACCTAATGCTGTGGAAAATTAAAAC
257 TTGACATTTTAGGCTCCAAAATCTTTCAAAAACAGCTTACACCTAACGCTGTGAAAAATTAAAAC
* * * * * * *
11162874 CAACGCAATTTACCATTGTTCTTTGTTTAAGCAAGTTTAAAATATTGGATTTAATGATATTCAAA
322 CAACGCAAGTTATCATCGTTCTTTGTTTGAGCAAGTTTAAAACATTGGATTCAACGATATTCAAA
* * * * * * *
11162939 TTCGTTTCCATTTCAAAACCTGCTAAAACAATGATTCACATTTTAAAACTTGGCTTTTAGCAAAA
387 TTCGTTTCCATTTCAAAACCTGTTAAAACAGTGTTTCACACTTTAAAGCTTGAC-TCTAGCAAAA
* * *
11163004 ATCA-TTTTCAAAGTAAAATATAAAAATTTCAAAAACATTAAGCTTTTGAGTTTGTGCATAATAT
451 AT-AGTTTTCAAAGCAAAACATAAAAACTTCAAAAACATTAAGCTTTTGAGTTTGTGCAT-A-AT
* *
11163068 ATATATAAAAACAAGTTAGTACACACAAATAGTTAATCACATCAAGCACCAATAACGATTTCACA
513 ATATATAAAAACAAGTTAG--CACAC-AGTAGTTAATCACATCAAGCGCCAATAACGATTTCACA
* * * * *
11163133 AATGATAGCCAAGTATCAAGAGCATCCTACAAATTCGTTAGAACATTCACGAATTCTCCTAGAAA
575 AATGATATCCAAGTATCAAGAGCATCCCACAAATTCCTTAGAGCATTCACGAATTCTCCTAAAAA
* ** *
11163198 TGCGTTTAAAGCAAAAAAGTATGAAAAAATTAAAACTC-CACGAATGGTTTTTATACCACAATTT
640 TGCGTCTAAAGCAAAAAAGTATG-AAAAATTAAAAC-CGTGCGAATGGTTTTTATATCACAATTT
* * * * * *
11163262 GAAAGGTGGGAGAATGGTTTTTATGCCCATAATTGTTTGAAAATAGAGTTTGACATTTTAGGCTC
703 GAAAGCTGAGTGAATGGTTTTTATGCCCATAATTGTTCGAAAACAGATTTTGACATTTTAGGCTC
* *
11163327 CAATATCCTTCAAAAACAGCTTACACATAATGCTATGAAAAATTAAAACCAACGTAAGTTATCAT
768 CAAAATCCTTCAAAAACAGCTTACACCTAATGCTATGAAAAATTAAAACCAACGTAAGTTATCAT
* * * ** * *
11163392 TGTTCTTTGTTAGAGTAAGTTTAAAACATTGGATTCAAAAATATTCAAATTCATTTCCGTTTCAC
833 CGTTCTTTGTTTGAGCAAGTTTAAAACATTGGATTCAACGATATTCAAATTCGTTTCCGTTTCAA
* * * *
11163457 AACTGGCTAAAACAGTGTCTCATAGTTTAAAGCTCAACTCTAGCAAAAACCGTTTTCAAAGCAAA
898 AACT-GCTAAAACAGTGTTTCATACTTTAAAGCTCAACTCTAGCAAAAATCATTTTCAAAGCAAA
11163522 ATATAGAAACTTCAAAAACATTATTAGGCTT
962 ATATAGAAACTTCAAAAACATTA--A-GCTT
* * * *
11163553 TTGGGTTTGTGCATAATATATATAAAAGCAAGTTAGCGCACA-CAGTTAATCACATCAAG-AGCA
1 TTGAGTTTGTGCATAATATATATAAAAACAAGTTAGCACACAGTAGTTAATCACATCAAGCA-CA
* * * * * * *
11163616 AATAACGATTTCATAAATGATATCCAAGTATCAAGTGCATCGCACAAATTCCTTAAAACATTAAC
65 AATAACGATTTCACAAATGATATCCAAGGATCAAGAGCATCCCACAAATTCCTTAGAGCATTCAC
* * * *
11163681 GAATTCTCCTAAAAATGCGTTTAAACCAAAAAAGTATGAAAAATTATAATCATGCAAATGGTTTT
130 GAATTCTCTTAAAAATGCGTCTAAAGCAAAAAAGTATGAAAAATTAAAATCATGCAAATGGTTTT
11163746 TAT
195 TAT
11163749 GCCCATAATT
Statistics
Matches: 3548, Mismatches: 547, Indels: 201
0.83 0.13 0.05
Matches are distributed among these distances:
986 26 0.01
987 40 0.01
988 105 0.03
989 131 0.04
990 77 0.02
991 199 0.06
992 153 0.04
993 455 0.13
994 746 0.21
995 350 0.10
996 265 0.07
997 94 0.03
998 78 0.02
999 291 0.08
1000 6 0.00
1001 103 0.03
1002 1 0.00
1005 7 0.00
1006 3 0.00
1030 12 0.00
1036 4 0.00
1037 122 0.03
1038 84 0.02
1039 1 0.00
1040 195 0.05
ACGTcount: A:0.39, C:0.16, G:0.13, T:0.32
Consensus pattern (989 bp):
TTGAGTTTGTGCATAATATATATAAAAACAAGTTAGCACACAGTAGTTAATCACATCAAGCACAA
ATAACGATTTCACAAATGATATCCAAGGATCAAGAGCATCCCACAAATTCCTTAGAGCATTCACG
AATTCTCTTAAAAATGCGTCTAAAGCAAAAAAGTATGAAAAATTAAAATCATGCAAATGGTTTTT
ATATCACAATTTGAAAGCTGTGCGAATGGTTTTTATGCCCATAATTGTTCGGAAACAGATTTTGA
CATTTTAGGCTCCAAAATCTTTCAAAAACAGCTTACACCTAACGCTGTGAAAAATTAAAACCAAC
GCAAGTTATCATCGTTCTTTGTTTGAGCAAGTTTAAAACATTGGATTCAACGATATTCAAATTCG
TTTCCATTTCAAAACCTGTTAAAACAGTGTTTCACACTTTAAAGCTTGACTCTAGCAAAAATAGT
TTTCAAAGCAAAACATAAAAACTTCAAAAACATTAAGCTTTTGAGTTTGTGCATAATATATATAA
AAACAAGTTAGCACACAGTAGTTAATCACATCAAGCGCCAATAACGATTTCACAAATGATATCCA
AGTATCAAGAGCATCCCACAAATTCCTTAGAGCATTCACGAATTCTCCTAAAAATGCGTCTAAAG
CAAAAAAGTATGAAAAATTAAAACCGTGCGAATGGTTTTTATATCACAATTTGAAAGCTGAGTGA
ATGGTTTTTATGCCCATAATTGTTCGAAAACAGATTTTGACATTTTAGGCTCCAAAATCCTTCAA
AAACAGCTTACACCTAATGCTATGAAAAATTAAAACCAACGTAAGTTATCATCGTTCTTTGTTTG
AGCAAGTTTAAAACATTGGATTCAACGATATTCAAATTCGTTTCCGTTTCAAAACTGCTAAAACA
GTGTTTCATACTTTAAAGCTCAACTCTAGCAAAAATCATTTTCAAAGCAAAATATAGAAACTTCA
AAAACATTAAGCTT
Found at i:11164387 original size:443 final size:440
Alignment explanation
Indices: 11163339--11164629 Score: 1677
Period size: 443 Copynumber: 2.9 Consensus size: 440
11163329 ATATCCTTCA
* *
11163339 AAAAC-AGCTTACACATAATGCTATGAAAAATTAAAACCAACGTAAGTTATCATTGTTCTTTGTT
1 AAAACGAGCTTACAC-TAATGCTATAAAAAATTAAAACCAACGCAAGTTATCATTGTTCTTTGTT
* * * * * *
11163403 AGAGTAAGTTTAAAACATTGGATTCAAAAATATTCAAATTCATTTCCGTTTCACAA-CTGGCTAA
65 CGAGCAAGTTTAAAACATTGGATTCAACAATATTCAAATTCTTTTCCATTTCA-AACCT-GATAA
* * * * * *
11163467 AACAGTGTCTCATAGTTTAAAGCTCAACTCTAGCAAAAACCGTTTTCAAAGCAAAATATAGAAAC
128 AACAGTATCTCATACTTTAAAGCTCGACTCTAGCAAAAATCATTTTCAAAGCAAAACATAGAAAC
* * * *
11163532 TTCAAAAACATTATTAGGCTTTTGGGTTTGTGCATAATATATATAAAAGCAAGTTAGCGCACACA
193 TTCAAAAACATTATTAAGCTTTTGAGTTTGTGCATAATATATATAAAAACAAGTTAGCACACACA
* *
11163597 GTTAATCACATCAAGAGCAAATAACGATTTCATAAATGATATCCAAGTATCAAGT-GCATCGCAC
258 GTTAATCACATCAAGCGCCAATAACGATTTCATAAATGATATCCAAGTATCAA-TAGCATC-CAC
* * *
11163661 AAATTCCTTAAAACATTAACGAATTCTCCTAAAAATGCGTTTAAACCAAAAAAGTATGAAAAATT
321 AAACTCCTTAAAACATTCACGAATTCTCCTAAAAATGCGTCTAAACCAAAAAAGTATG-AAAATT
* * *
11163726 ATAATCATGCAAATGGTTTTTATGCCCATAATTGCTCAAAAATAAATTTTGACATT
385 AAAACCATGCAAATGGTTTTTATGCCCATAATTGCTCAAAAACAAATTTTGACATT
* * * * * **
11163782 -ATA-G-GC-TCCA-AAATTG-TGTAAAAAATTAAAACCAACGCAAGTTATCGTTGCCCTTTGTT
1 AAAACGAGCTTACACTAA-TGCTATAAAAAATTAAAACCAACGCAAGTTATCATTGTTCTTTGTT
* * *
11163841 CGAGCAAGTTTAAAACATTGGATTTAACGATATTCAAATTCGTTTT-CATTTCAAAACCTAATAA
65 CGAGCAAGTTTAAAACATTGGATTCAACAATATTCAAATTC-TTTTCCATTTC-AAACCTGATAA
* * *
11163905 AATAGTATGTCATACTTTAAAGCTCGACTCTAGCAAAAATCATTTTCAAAGCAAAACCTAGAAAC
128 AACAGTATCTCATACTTTAAAGCTCGACTCTAGCAAAAATCATTTTCAAAGCAAAACATAGAAAC
* * * * *
11163970 TTCAAAAATATTATTAAGCTTTTGAGTTTATGCATAATAGATATAAAACCAAGTTAGCACATACA
193 TTCAAAAACATTATTAAGCTTTTGAGTTTGTGCATAATATATATAAAAACAAGTTAGCACACACA
* *
11164035 GTTTAATCACATTAAGCGCCAATAATGATTTCATAAATGATATCCAAGTATCAATAGCATCCACA
258 G-TTAATCACATCAAGCGCCAATAACGATTTCATAAATGATATCCAAGTATCAATAGCATCCACA
* * *
11164100 AACTCCTTAGACCATTCACAAATTCTCCTAAAAATGCGTCTAAA-CAAAAAAGTATGACAAATTA
322 AACTCCTTAAAACATTCACGAATTCTCCTAAAAATGCGTCTAAACCAAAAAAGTATGA-AAATTA
* * * * * *
11164164 AAACCATGCGAATGGTTTTTATGCCTATAGTTGTTCGAAAACAGATTTTGACATT
386 AAACCATGCAAATGGTTTTTATGCCCATAATTGCTCAAAAACAAATTTTGACATT
* * * *
11164219 AAAACGAGCTTACATCTAACGCTATAAAAAATTAAAACCAATGCAAGTTATTATCGTTCTTTGTT
1 AAAACGAGCTTACA-CTAATGCTATAAAAAATTAAAACCAACGCAAGTTATCATTGTTCTTTGTT
* * *
11164284 CGAGCAAGTTTAAAACATTGGATTCAACTATATTTAATTTCTTTTCCATTTCAAATCCTGATAAA
65 CGAGCAAGTTTAAAACATTGGATTCAACAATATTCAAATTCTTTTCCATTTCAAA-CCTGATAAA
* * * * *
11164349 ACAGTATTTCATACTTTAAAACTCGACTCTAACAAAAATCAGTTTCAAAGCAAAACATAAAAACT
129 ACAGTATCTCATACTTTAAAGCTCGACTCTAGCAAAAATCATTTTCAAAGCAAAACATAGAAACT
* *
11164414 TCAAAAACAATACTAAGCTTTTGAGTTTGTGCATAATATATATAAAAACAAGTTAGCACACACAG
194 TCAAAAACATTATTAAGCTTTTGAGTTTGTGCATAATATATATAAAAACAAGTTAGCACACACAG
* * * *
11164479 TTAATCACATCAAGCGCCCATAACAATTTCACAAATGATATCCAAGTATCAAGAGCATCCTACAA
259 TTAATCACATCAAGCGCCAATAACGATTTCATAAATGATATCCAAGTATCAATAGCATCC-ACAA
* *
11164544 ACTCCTTAAAGCATTCACGAATTCTCCTAAAAATGCGTCTAAAGCAAAAAAGTATGAAAAGTTAA
323 ACTCCTTAAAACATTCACGAATTCTCCTAAAAATGCGTCTAAACCAAAAAAGTATGAAAA-TTAA
* *
11164609 ATCCATACAAATGGTTTTTAT
387 AACCATGCAAATGGTTTTTAT
11164630 ATCACAATTT
Statistics
Matches: 732, Mismatches: 96, Indels: 39
0.84 0.11 0.04
Matches are distributed among these distances:
436 1 0.00
437 64 0.09
438 244 0.33
439 62 0.08
440 5 0.01
441 5 0.01
442 64 0.09
443 252 0.34
444 35 0.05
ACGTcount: A:0.41, C:0.18, G:0.11, T:0.30
Consensus pattern (440 bp):
AAAACGAGCTTACACTAATGCTATAAAAAATTAAAACCAACGCAAGTTATCATTGTTCTTTGTTC
GAGCAAGTTTAAAACATTGGATTCAACAATATTCAAATTCTTTTCCATTTCAAACCTGATAAAAC
AGTATCTCATACTTTAAAGCTCGACTCTAGCAAAAATCATTTTCAAAGCAAAACATAGAAACTTC
AAAAACATTATTAAGCTTTTGAGTTTGTGCATAATATATATAAAAACAAGTTAGCACACACAGTT
AATCACATCAAGCGCCAATAACGATTTCATAAATGATATCCAAGTATCAATAGCATCCACAAACT
CCTTAAAACATTCACGAATTCTCCTAAAAATGCGTCTAAACCAAAAAAGTATGAAAATTAAAACC
ATGCAAATGGTTTTTATGCCCATAATTGCTCAAAAACAAATTTTGACATT
Found at i:11165168 original size:496 final size:493
Alignment explanation
Indices: 11164219--11167936 Score: 4502
Period size: 496 Copynumber: 7.5 Consensus size: 493
11164209 TTTTGACATT
* * * * *
11164219 AAAACGAGCTTACATCTAACGCTATAAAAAATTAAAACCAATGCAAGTTATTATCGTTCTTTGTT
1 AAAAC-AGCTTACACCTAATGCTATGAAAAATTAAAACCAACGCAAGTTATCATCGTTCTTTGTT
* * * * * *
11164284 CGAGCAAGTTTAAAACATTGGATTCAACT-ATATTTAATTTCTTTTCCATTTCAAATCCTGATAA
65 TGAGCAAGTTTAAAACATTGGATTCAA-TGATATTCAAATTCGTTTCCATTTCAAAACCTGCTAA
* * * * * * *
11164348 AACAGTATTTCATACTTTAAAACTCGACTCTAACAAAAATCAGTTTCAAAGCAAAACATAAAAAC
129 AACAGTGTTTCACACTTTAAAGCTAGACTCTAAGAAAAATCACTTTCAAAGCAAAACATAGAAAC
11164413 TTCAAAAACAATACTAAGCTTTTGAGTTTGTGCATAATATATATAAAAACAAGTTAGCACACACA
194 TTCAAAAAC-AT--TAAGCTTTTGAGTTTGTGCATAATATATATAAAAACAAGTTAGCACACACA
* * *
11164478 GTTAATCACATCAAGCGCCCATAACAATTTCACAAATGATATCCAAGTATCAAGAGCATCCTACA
256 GTTAATCACATCAAGCGCCAATAACGATTTCACAAATGATATCCAAGTATCAAGAGCATCCCACA
* * * * *
11164543 AACTCCTTAAAGCATTCACGAATTCTCCTAAAAATGCGTCTAAAGCAAAAAAGTATGAAAAGTTA
321 AATTCCTTAGAGCATTCACGAATTCTCTTTAAAATGCGTCTAAAGCAAAAAAGTATGAAAAATTA
* * * * *
11164608 AATCCATACAAATGGTTTTTATATCACAATTTGAAAGCTGTGCGAATGG-TTTTATTCCCATAAT
386 AAACCGTGCGAATGGTTTTTATATCACAATTTGAAAGCTGTGCGAATGGTTTTTA-TGCCATAAT
* * *
11164672 TATTCGAAAACAGATTTTGACATTTTAAGCTGCAAAATCCTTCA
450 TGTTCGAAAACAGATTTTGACATTTTAGGCTCCAAAATCCTTCA
* * ** * * * *
11164716 AAAATAGCTTACACCTGACACAATGAAAAATTAAAATCAACACAAGTTATCATTGTTCTTTGTTT
1 AAAACAGCTTACACCTAATGCTATGAAAAATTAAAACCAACGCAAGTTATCATCGTTCTTTGTTT
* * *
11164781 GAGCACGTTTAAAACATTGGAATCAATGATATTCAAATTCATTTCCATTTCAAAACCTGCTAAAA
66 GAGCAAGTTTAAAACATTGGATTCAATGATATTCAAATTCGTTTCCATTTCAAAACCTGCTAAAA
* * * * * * * * *
11164846 CAGTATTTTAGAATTTAAAACTTGACTCTAAGAAAAATCATTTTCAAAACAGAACATAGAAACTT
131 CAGTGTTTCACACTTTAAAGCTAGACTCTAAGAAAAATCACTTTCAAAGCAAAACATAGAAACTT
* * *
11164911 CAAAAACATTATTAAGCTTTTGAGTTTGTGCATAATATATATGAAAA-AAGATAGCACATACAGT
196 CAAAAAC---ATTAAGCTTTTGAGTTTGTGCATAATATATATAAAAACAAGTTAGCACACACAGT
* * *
11164975 TAATCACAACAAGCGCCAATAACGATTTCACAAATGATATCCAAGTATCAAGAGTATCCAACAAA
258 TAATCACATCAAGCGCCAATAACGATTTCACAAATGATATCCAAGTATCAAGAGCATCCCACAAA
* ** * * *
11165040 TTCCTTGGAG-ATTCATAAAATTCTCTTTAAAATGCATCTAAAGCAAAAATGCATGAAAAATTAA
323 TTCCTTAGAGCATTCA-CGAATTCTCTTTAAAATGCGTCTAAAGCAAAAAAGTATGAAAAATTAA
* * * *
11165104 AACCGTGCGAATGGTTTTTATATCGCAATTTGAAAGCTGTTCAAATGGTTTTTGTGCACATAATT
387 AACCGTGCGAATGGTTTTTATATCACAATTTGAAAGCTGTGCGAATGGTTTTTATGC-CATAATT
* * *
11165169 GTTCGGAAACAAATTTTGATATTTTAGGCTCCAAAATCCTTCA
451 GTTCGAAAACAGATTTTGACATTTTAGGCTCCAAAATCCTTCA
* * *
11165212 AAAACAGCTTACACCTAATGCTGTGAAAAATTAAAACCAACGCAACTTATCATCATTCTTTGTTT
1 AAAACAGCTTACACCTAATGCTATGAAAAATTAAAACCAACGCAAGTTATCATCGTTCTTTGTTT
* * * * * *
11165277 GAGCAAGTTTCAAACATTGGATTCAACGATAATCAAATTTGTTTCCGA-CTCAAATCCTGCTAAA
66 GAGCAAGTTTAAAACATTGGATTCAATGATATTCAAATTCGTTTCC-ATTTCAAAACCTGCTAAA
* * * * * *
11165341 ACAGTATTTCAGACTTTAAAGCTTGACTCT-AGCAAAAATCGCTTTCAAAGGAAAATATAGAAAC
130 ACAGTGTTTCACACTTTAAAGCTAGACTCTAAG-AAAAATCACTTTCAAAGCAAAACATAGAAAC
* *
11165405 TTCAAAAACCTTAAGCTTTTGAGTTTGTCCATAATATATATAAAAACAAGTTAGCACACACAGTA
194 TTCAAAAACATTAAGCTTTTGAGTTTGTGCATAATATATATAAAAACAAGTTAGCACACAC---A
* * * * *
11165470 GTTATTCACATCAAGCCCCAAAAATGATTTCACAAATGATATCCAAGTATAAAGAGCATCCCACA
256 GTTAATCACATCAAGCGCCAATAACGATTTCACAAATGATATCCAAGTATCAAGAGCATCCCACA
* * *
11165535 AATTCCTTAGAGCATGCACGAATTCT-TTTAAAAGTGCGTCTAAAG--GATAAGTATGAAAAATT
321 AATTCCTTAGAGCATTCACGAATTCTCTTTAAAA-TGCGTCTAAAGCAAAAAAGTATGAAAAATT
* ** * *
11165597 AAAACTGTGAAAATGGTTTTTAAATCACAATTTGAAAGCTATGCGAATGGTTTTTATGCCATAAT
385 AAAACCGTGCGAATGGTTTTTATATCACAATTTGAAAGCTGTGCGAATGGTTTTTATGCCATAAT
** *
11165662 TGTTTCG-AAACAGATTTTGACATTTTAGGCTCTGAAAGCCTTCA
450 TG-TTCGAAAACAGATTTTGACATTTTAGGCTCCAAAATCCTTCA
* *
11165706 AAAACAGCTTACACCTAATACTATGAAAAATTAAAAGCAACGCAAGTTATCATCGTTCTTTGTTT
1 AAAACAGCTTACACCTAATGCTATGAAAAATTAAAACCAACGCAAGTTATCATCGTTCTTTGTTT
* * *
11165771 GAGCAAGTTTTAAACATTGTATTCAATGATATTCAAATTCGTTTTCC-TTTCAGAACCTGCTAAA
66 GAGCAAGTTTAAAACATTGGATTCAATGATATTCAAATTCG-TTTCCATTTCAAAACCTGCTAAA
* * * * *
11165835 ACAGTGTTCCATACTTTAAAGCTAGACTCTAACAAAAATCACTTTCAAACCAAAACATAGAAACG
130 ACAGTGTTTCACACTTTAAAGCTAGACTCTAAGAAAAATCACTTTCAAAGCAAAACATAGAAACT
* * * *
11165900 ACAAAAACATTACGC-TTTGAGTTTGTGCACAATATATATAAAAACAAGTTAGAACATACAGCAG
195 TCAAAAACATTAAGCTTTTGAGTTTGTGCATAATATATATAAAAACAAGTTAG--CACACA-CAG
* * *
11165964 TTAATCACATCAAGTGCCAATAAC-ACTTTCATAAATGATATCCAAGTATCAAGAGCATCCCATA
257 TTAATCACATCAAGCGCCAATAACGA-TTTCACAAATGATATCCAAGTATCAAGAGCATCCCACA
* * * *
11166028 AATTCCTTAGAACATTCACGAATTCT-TCTAAAAGTGCGTCTAAAGCAAAAAAGAAAGAAAAATT
321 AATTCCTTAGAGCATTCACGAATTCTCTTTAAAA-TGCGTCTAAAGCAAAAAAGTATGAAAAATT
* * *
11166092 AAAACCGTGGGAATGGTTTTCATATCACAATTTGAAAGCTATGCGAATGGTTTTTATGCCTATAA
385 AAAACCGTGCGAATGGTTTTTATATCACAATTTGAAAGCTGTGCGAATGGTTTTTATGCC-ATAA
* **
11166157 TTGTTTGAAAACCTATTTTGACATTTTAGGCTCCAAAATCCTTCA
449 TTGTTCGAAAACAGATTTTGACATTTTAGGCTCCAAAATCCTTCA
* * * *
11166202 AAAACTG-TATACACCTAATGTTGTGAAAAATTAAAACCAACACAAGTTATCATCGTTCTTTGTT
1 AAAACAGCT-TACACCTAATGCTATGAAAAATTAAAACCAACGCAAGTTATCATCGTTCTTTGTT
* * *
11166266 TGAGCAAGTTTAAAGCATTGGATTCAACGATATTCAAATTTGTTTCCATTTCAAAACCTGCTAAA
65 TGAGCAAGTTTAAAACATTGGATTCAATGATATTCAAATTCGTTTCCATTTCAAAACCTGCTAAA
* * * *
11166331 AAAGTGTTTCACACTTTAAAGCTAGACTCTAGGAAAAATCACTTTCAATGCAACACATAGAAACT
130 ACAGTGTTTCACACTTTAAAGCTAGACTCTAAGAAAAATCACTTTCAAAGCAAAACATAGAAACT
11166396 TCAAAAACATTAAGCTTTTGAGTTTGTGCATAATATATATATAAAAACAAGTTAGCACACACAGT
195 TCAAAAACATTAAGCTTTTGAGTTTGTGCAT-A-ATATATATAAAAACAAGTTAGCACACAC---
* * * * * *
11166461 AGTTAATCACATCAAGTGCCAAAAATGATTTCACAAATGATTTCTAAGTAACAAGAGCATCCCAC
255 AGTTAATCACATCAAGCGCCAATAACGATTTCACAAATGATATCCAAGTATCAAGAGCATCCCAC
* * * ** *
11166526 AAATTTCTTTA-AGCATTCACAAATTCT-TCTAAAAGTGTATCTAAAGCAAAAAAATATGAAAAA
320 AAA-TTCCTTAGAGCATTCACGAATTCTCTTTAAAA-TGCGTCTAAAGCAAAAAAGTATGAAAAA
* * **
11166589 TTAAAACCGTGTGAATGGTTTTTATATCACAATTTGAAAGCTGTACGAATTATATCACAATTTTA
383 TTAAAACCGTGCGAATGGTTTTTATATCACAATTTGAAAGCTGTGCGAA-T-GGT-----TTTTA
* * * * *
11166654 TGCCCGTAATTGTTC-AGAAACTGATTTTGACATTTTAGGCTCCAAAAGCTTTAA
441 TG-CCATAATTGTTCGA-AAACAGATTTTGACATTTTAGGCTCCAAAATCCTTCA
* * * * * * *
11166708 AAAAAAACTTACACTTAATGCTGTTAAAAATTAAAACTAACGCAAGTTATCATTGTTCTTTGTTT
1 AAAACAGCTTACACCTAATGCTATGAAAAATTAAAACCAACGCAAGTTATCATCGTTCTTTGTTT
* * * *
11166773 GAGCAAGTTTAAAATATTGGATTCAACGATATTCAAATTTGTTT-CAGTTTCAAAACCTGGTAAA
66 GAGCAAGTTTAAAACATTGGATTCAATGATATTCAAATTCGTTTCCA-TTTCAAAACCTGCTAAA
* * * * *
11166837 ATAGTGTTTCACACTTTAAAGCTCGACTCTAGGCAAAATCACTTTCAAAGCAAAACATAGAAAAT
130 ACAGTGTTTCACACTTTAAAGCTAGACTCTAAGAAAAATCACTTTCAAAGCAAAACATAGAAACT
* * *
11166902 TCAAAAACATTAAGCTTTTGAGTTTGTGCATAATATATATCAAAACAAGTTAAAAACACACAGTA
195 TCAAAAACATTAAGCTTTTGAGTTTGTGCATAATATATATAAAAACAAGTT---AGCACACA-CA
* * *
11166967 GTTAATCACATCAAG-GTCAAATAATGATTTCACAAATGATATCCAAGTATCAAGAGCTTCCCAC
256 GTTAATCACATCAAGCG-CCAATAACGATTTCACAAATGATATCCAAGTATCAAGAGCATCCCAC
* * * **
11167031 AAATTCCTTAGAGCAATCACGAATTCTCCTAAAAATGTATCTAAAGCAAAAAAGTATGAAAAATT
320 AAATTCCTTAGAGCATTCACGAATTCTCTTTAAAATGCGTCTAAAGCAAAAAAGTATGAAAAATT
* *
11167096 AAAACCGTGCGAATGGATTTTATATCACAATTTGAAAGCTGTGCAAATGGTTTTTATGCCCATAA
385 AAAACCGTGCGAATGGTTTTTATATCACAATTTGAAAGCTGTGCGAATGGTTTTTATG-CCATAA
* *
11167161 TTGTTCGGAAATAGATTTTGACATTTTAGGCTCCAAAATCCTTCA
449 TTGTTCGAAAACAGATTTTGACATTTTAGGCTCCAAAATCCTTCA
* * *** * *
11167206 AAAACAGTTTATACCTAACATTATGAAAAATTAAAACCAAAGCAAGTTATCATCATTCTTT-TCT
1 AAAACAGCTTACACCTAATGCTATGAAAAATTAAAACCAACGCAAGTTATCATCGTTCTTTGT-T
* * * * * *
11167270 TAAGCAAGTTTAAAACATTGGATTGAATGAAATTCAAATTCGTTTCCGTTTTAAAACCTACTAAA
65 TGAGCAAGTTTAAAACATTGGATTCAATGATATTCAAATTCGTTTCCATTTCAAAACCTGCTAAA
* * * * *
11167335 ACAGTTTTTCACACTTTAAAGCTCGACTTTAGGAAAAATCACTTTCAAAGCAGAACATAGAAACT
130 ACAGTGTTTCACACTTTAAAGCTAGACTCTAAGAAAAATCACTTTCAAAGCAAAACATAGAAACT
*
11167400 TAAAAAACATTAAGCTTTTGAGTTTGTGCATAATATATATAAAAACAAGTTAGCACATTCAGCAG
195 TCAAAAACATTAAGCTTTTGAGTTTGTGCATAATATATATAAAAACAAGTTAGCACA--CA-CAG
* * * * *
11167465 TTAATCACATGAAGTGCAAATAACGATTTCACAAATGATATCCAAGTCTCAAGAGCATCCCATAA
257 TTAATCACATCAAGCGCCAATAACGATTTCACAAATGATATCCAAGTATCAAGAGCATCCCACAA
* * * * * **
11167530 ATTCCTTAGACCACTCAAGAATTCTCCTAAAAATATGTCTAAAGCAAAAATA-TATGAAAAATTA
322 ATTCCTTAGAGCATTCACGAATTCTCTTTAAAATGCGTCTAAAGCAAAAA-AGTATGAAAAATTA
* * *
11167594 AAACCGTGCAAATGGTTATTATATCACAATTTGAAAGTTGTGCGAATGGTTTTTATGCCAATAAT
386 AAACCGTGCGAATGGTTTTTATATCACAATTTGAAAGCTGTGCGAATGGTTTTTATGCC-ATAAT
* * *
11167659 TGTTTCG-AAACAGATTTTGACATTTTGGGCTCCAAAAGCCTT-T
450 TG-TTCGAAAACAGATTTTGACATTTTAGGCTCCAAAATCCTTCA
* *
11167702 AAAACAACTTACACCTAATGCTATGAAAAATTAAAAGCAACGCAAGTTATCATCGTTCTTTGTTT
1 AAAACAGCTTACACCTAATGCTATGAAAAATTAAAACCAACGCAAGTTATCATCGTTCTTTGTTT
* * *
11167767 GAGCAAGTTTTAAACATTGGATTCAATGATATTCAAATTTGTTTTCC-TTTCAAAACCTTCTAAA
66 GAGCAAGTTTAAAACATTGGATTCAATGATATTCAAATTCG-TTTCCATTTCAAAACCTGCTAAA
* * * *
11167831 ACAGTGTTCCATACTTTAAAGCTAGACT-TTAGCAAAAATCACTTTCAAACCAAAACATAGAAA-
130 ACAGTGTTTCACACTTTAAAGCTAGACTCTAAG-AAAAATCACTTTCAAAGCAAAACATAGAAAC
* * * *
11167894 TGACAAAAGCATTAAGTTTTTGAGTTTGTGCACAATATATATA
194 T-TCAAAAACATTAAGCTTTTGAGTTTGTGCATAATATATATA
11167937 TATATATATA
Statistics
Matches: 2789, Mismatches: 365, Indels: 135
0.85 0.11 0.04
Matches are distributed among these distances:
492 1 0.00
493 167 0.06
494 231 0.08
495 331 0.12
496 839 0.30
497 327 0.12
498 273 0.10
499 171 0.06
500 8 0.00
501 1 0.00
503 1 0.00
504 26 0.01
505 150 0.05
506 253 0.09
507 10 0.00
ACGTcount: A:0.40, C:0.17, G:0.12, T:0.31
Consensus pattern (493 bp):
AAAACAGCTTACACCTAATGCTATGAAAAATTAAAACCAACGCAAGTTATCATCGTTCTTTGTTT
GAGCAAGTTTAAAACATTGGATTCAATGATATTCAAATTCGTTTCCATTTCAAAACCTGCTAAAA
CAGTGTTTCACACTTTAAAGCTAGACTCTAAGAAAAATCACTTTCAAAGCAAAACATAGAAACTT
CAAAAACATTAAGCTTTTGAGTTTGTGCATAATATATATAAAAACAAGTTAGCACACACAGTTAA
TCACATCAAGCGCCAATAACGATTTCACAAATGATATCCAAGTATCAAGAGCATCCCACAAATTC
CTTAGAGCATTCACGAATTCTCTTTAAAATGCGTCTAAAGCAAAAAAGTATGAAAAATTAAAACC
GTGCGAATGGTTTTTATATCACAATTTGAAAGCTGTGCGAATGGTTTTTATGCCATAATTGTTCG
AAAACAGATTTTGACATTTTAGGCTCCAAAATCCTTCA
Found at i:11166146 original size:990 final size:987
Alignment explanation
Indices: 11164219--11167936 Score: 4677
Period size: 990 Copynumber: 3.7 Consensus size: 987
11164209 TTTTGACATT
* * * * *
11164219 AAAACGAGCTTACATCTAACGCTATAAAAAATTAAAACCAATGCAAGTTATTATCGTTCTTTGTT
1 AAAAC-AGCTTACACCTAACGCTATGAAAAATTAAAACCAACGCAAGTTATCATCATTCTTTGTT
* * ** * * *
11164284 CGAGCAAGTTTAAAACATTGGATTCAACTAT-ATTTAATTTCTTTTCCATTTCAAATCCTGATAA
65 TGAGCAAGTTTAAAACATTGGATTCAACGATAATCAAATTT-GTTTCCATTTCAAAACCTGCTAA
* * * * *
11164348 AACAGTATTTCATACTTTAAAACTCGACTCTAACAAAAATCAGTTTCAAAGCAAAACATAAAAAC
129 AACAGTATTTCACACTTTAAAGCTCGACTCTAGCAAAAATCACTTTCAAAGCAAAACATAGAAAC
11164413 TTCAAAAACAATACTAAGCTTTTGAGTTTGTGCATAATATATATAAAAACAAGTTAGCACACAC-
194 TTCAAAAAC-AT--TAAGCTTTTGAGTTTGTGCATAATATATATAAAAACAAGTTAGCACACACA
* *
11164477 --AGTTAATCACATCAAGCGCCCATAACA--ATTTCACAAATGATATCCAAGTATCAAGAGCATC
256 GTAGTTAATCACATCAAGC-CCCA-AAAATGATTTCACAAATGATATCCAAGTATAAAGAGCATC
* * *
11164538 CTACAAACTCCTTAAAGCATTCACGAATTCTCCTAAAAATGCGTCTAAAGCAAAAAAGTATGAAA
319 CCACAAATTCCTTAGAGCATTCACGAATTCTCCTAAAAATGCGTCTAAAGCAAAAAA-TATGAAA
* * * *
11164603 AGTTAAATCCAT-ACAAATGGTTTTTATATCACAATTTGAAAGCTGTGCGAATGG-TTTTATTCC
383 AATTAAAACCGTGA-AAATGGTTTTTATATCACAATTTGAAAGCTGTGCGAATGGTTTTTA-TGC
* * * * * *
11164666 CATAATT-ATTCGAAAACAGATTTTGACATTTTAAGCTGCAAAATCCTTCAAAAATAGCTTACAC
446 CATAATTGTTTCG-AAACAGATTTTGACATTTTAGGCTCCAAAAGCCTTCAAAAACAACTTACAC
* * * * * * *
11164730 CTGACACAATGAAAAATTAAAATCAACACAAGTTATCATTGTTCTTTGTTTGAGCACGTTTAAAA
510 CTAATACTATGAAAAATTAAAAGCAACGCAAGTTATCATCGTTCTTTGTTTGAGCAAGTTTAAAA
* * * ** * *
11164795 CATTGGAATCAATGATATTCAAATTC-ATTTCCATTTCAAAACCTGCTAAAACAGTATTTTAGAA
575 CATTGGATTCAATGATATTCAAATTCGTTTTCC-TTTCAAAACCTGCTAAAACAGTGTTCCATAC
* * * * * * **
11164859 TTTAAAACTTGACTCTAAGAAAAATCATTTTCAAAACAGAACATAGAAACTTCAAAAACATTATT
639 TTTAAAGCTAGACTCTAACAAAAATCACTTTCAAACCAAAACATAGAAACGACAAAAAC---ATT
* * * * *
11164924 AAGCTTTTGAGTTTGTGCATAATATATATGAAAA-AAGATAGCACAT--A-CAGTTAATCACAAC
701 AAGCTTTTGAGTTTGTGCACAATATATATAAAAACAAGTTAGAACATACAGCAGTTAATCACATC
* * *
11164985 AAGCGCCAATAACGATTTCACAAATGATATCCAAGTATCAAGAGTATCCAACAAATTCCTT-GGA
766 AAG-GCCAATAAC-ATTTCACAAATGATATCCAAGTATCAAGAGCATCCCACAAATTCCTTAGAA
* ** * * *
11165049 GATTCATAAAATTCTCTTTAAAATGCATCTAAAGCAAAAATGCATGAAAAATTAAAACCGTGCGA
829 CATTCA-CGAATTCT-TCTAAAATGCATCTAAAGCAAAAAAGAATGAAAAATTAAAACCGTGCGA
* * *
11165114 ATGGTTTTTATATCGCAATTTGAAAGCTGTTCAAATGGTTTTTGTGCACATAATTGTTCGGAAAC
892 ATGG-TTTTATATCACAATTTGAAAGCTGTGCAAATGGTTTTTATGC-CATAATTGTTCGGAAAC
*
11165179 AAATTTTGATATTTTAGGCTCCAAAATCCTTCA
955 AAATTTTGACATTTTAGGCTCCAAAATCCTTCA
* * *
11165212 AAAACAGCTTACACCTAATGCTGTGAAAAATTAAAACCAACGCAACTTATCATCATTCTTTGTTT
1 AAAACAGCTTACACCTAACGCTATGAAAAATTAAAACCAACGCAAGTTATCATCATTCTTTGTTT
* * *
11165277 GAGCAAGTTTCAAACATTGGATTCAACGATAATCAAATTTGTTTCCGA-CTCAAATCCTGCTAAA
66 GAGCAAGTTTAAAACATTGGATTCAACGATAATCAAATTTGTTTCC-ATTTCAAAACCTGCTAAA
* * * * *
11165341 ACAGTATTTCAGACTTTAAAGCTTGACTCTAGCAAAAATCGCTTTCAAAGGAAAATATAGAAACT
130 ACAGTATTTCACACTTTAAAGCTCGACTCTAGCAAAAATCACTTTCAAAGCAAAACATAGAAACT
* *
11165406 TCAAAAACCTTAAGCTTTTGAGTTTGTCCATAATATATATAAAAACAAGTTAGCACACACAGTAG
195 TCAAAAACATTAAGCTTTTGAGTTTGTGCATAATATATATAAAAACAAGTTAGCACACACAGTAG
*
11165471 TTATTCACATCAAGCCCCAAAAATGATTTCACAAATGATATCCAAGTATAAAGAGCATCCCACAA
260 TTAATCACATCAAGCCCCAAAAATGATTTCACAAATGATATCCAAGTATAAAGAGCATCCCACAA
* ** * * * *
11165536 ATTCCTTAGAGCATGCACGAATTCTTTTAAAAGTGCGTCTAAAG-GATAAGTATGAAAAATTAAA
325 ATTCCTTAGAGCATTCACGAATTCTCCTAAAAATGCGTCTAAAGCAAAAAATATGAAAAATTAAA
* * *
11165600 ACTGTGAAAATGGTTTTTAAATCACAATTTGAAAGCTATGCGAATGGTTTTTATGCCATAATTGT
390 ACCGTGAAAATGGTTTTTATATCACAATTTGAAAGCTGTGCGAATGGTTTTTATGCCATAATTGT
** *
11165665 TTCGAAACAGATTTTGACATTTTAGGCTCTGAAAGCCTTCAAAAACAGCTTACACCTAATACTAT
455 TTCGAAACAGATTTTGACATTTTAGGCTCCAAAAGCCTTCAAAAACAACTTACACCTAATACTAT
* *
11165730 GAAAAATTAAAAGCAACGCAAGTTATCATCGTTCTTTGTTTGAGCAAGTTTTAAACATTGTATTC
520 GAAAAATTAAAAGCAACGCAAGTTATCATCGTTCTTTGTTTGAGCAAGTTTAAAACATTGGATTC
*
11165795 AATGATATTCAAATTCGTTTTCCTTTCAGAACCTGCTAAAACAGTGTTCCATACTTTAAAGCTAG
585 AATGATATTCAAATTCGTTTTCCTTTCAAAACCTGCTAAAACAGTGTTCCATACTTTAAAGCTAG
*
11165860 ACTCTAACAAAAATCACTTTCAAACCAAAACATAGAAACGACAAAAACATTACGC-TTTGAGTTT
650 ACTCTAACAAAAATCACTTTCAAACCAAAACATAGAAACGACAAAAACATTAAGCTTTTGAGTTT
11165924 GTGCACAATATATATAAAAACAAGTTAGAACATACAGCAGTTAATCACATCAAGTGCCAATAACA
715 GTGCACAATATATATAAAAACAAGTTAGAACATACAGCAGTTAATCACATCAAG-GCCAATAACA
* *
11165989 CTTTCATAAATGATATCCAAGTATCAAGAGCATCCCATAAATTCCTTAGAACATTCACGAATTCT
779 -TTTCACAAATGATATCCAAGTATCAAGAGCATCCCACAAATTCCTTAGAACATTCACGAATTCT
* * *
11166054 TCTAAAAGTGCGTCTAAAGCAAAAAAGAAAGAAAAATTAAAACCGTGGGAATGGTTTTCATATCA
843 TCTAAAA-TGCATCTAAAGCAAAAAAGAATGAAAAATTAAAACCGTGCGAATGGTTTT-ATATCA
* * * * **
11166119 CAATTTGAAAGCTATGCGAATGGTTTTTATGCCTATAATTGTTTGAAAACCTATTTTGACATTTT
906 CAATTTGAAAGCTGTGCAAATGGTTTTTATGCC-ATAATTGTTCGGAAACAAATTTTGACATTTT
11166184 AGGCTCCAAAATCCTTCA
970 AGGCTCCAAAATCCTTCA
* * * * * *
11166202 AAAACTG-TATACACCTAATGTTGTGAAAAATTAAAACCAACACAAGTTATCATCGTTCTTTGTT
1 AAAACAGCT-TACACCTAACGCTATGAAAAATTAAAACCAACGCAAGTTATCATCATTCTTTGTT
* *
11166266 TGAGCAAGTTTAAAGCATTGGATTCAACGATATTCAAATTTGTTTCCATTTCAAAACCTGCTAAA
65 TGAGCAAGTTTAAAACATTGGATTCAACGATAATCAAATTTGTTTCCATTTCAAAACCTGCTAAA
* * * * * *
11166331 AAAGTGTTTCACACTTTAAAGCTAGACTCTAGGAAAAATCACTTTCAATGCAACACATAGAAACT
130 ACAGTATTTCACACTTTAAAGCTCGACTCTAGCAAAAATCACTTTCAAAGCAAAACATAGAAACT
11166396 TCAAAAACATTAAGCTTTTGAGTTTGTGCATAATATATATATAAAAACAAGTTAGCACACACAGT
195 TCAAAAACATTAAGCTTTTGAGTTTGTGCAT-A-ATATATATAAAAACAAGTTAGCACACACAGT
** * *
11166461 AGTTAATCACATCAAGTGCCAAAAATGATTTCACAAATGATTTCTAAGTA-ACAAGAGCATCCCA
258 AGTTAATCACATCAAGCCCCAAAAATGATTTCACAAATGATATCCAAGTATA-AAGAGCATCCCA
* * * * **
11166525 CAAATTTCTTTA-AGCATTCACAAATTCTTCTAAAAGTGTATCTAAAGCAAAAAAATATGAAAAA
322 CAAA-TTCCTTAGAGCATTCACGAATTCTCCTAAAAATGCGTCTAAAGC-AAAAAATATGAAAAA
** * **
11166589 TTAAAACCGTGTGAATGGTTTTTATATCACAATTTGAAAGCTGTACGAATTATATCACAATTTTA
385 TTAAAACCGTGAAAATGGTTTTTATATCACAATTTGAAAGCTGTGCGAA-T-GGT-----TTTTA
* * * * *
11166654 TGCCCGTAATTG-TTCAGAAACTGATTTTGACATTTTAGGCTCCAAAAGCTTTAAAAAAAAACTT
443 TG-CCATAATTGTTTC-GAAACAGATTTTGACATTTTAGGCTCCAAAAGCCTTCAAAAACAACTT
* * * * *
11166718 ACACTTAATGCTGTTAAAAATTAAAA-CTAACGCAAGTTATCATTGTTCTTTGTTTGAGCAAGTT
506 ACACCTAATACTATGAAAAATTAAAAGC-AACGCAAGTTATCATCGTTCTTTGTTTGAGCAAGTT
* * * * * * *
11166782 TAAAATATTGGATTCAACGATATTCAAATTTG-TTTCAGTTTCAAAACCTGGTAAAATAGTGTTT
570 TAAAACATTGGATTCAATGATATTCAAATTCGTTTTC-CTTTCAAAACCTGCTAAAACAGTGTTC
* * * * ***
11166846 CACACTTTAAAGCTCGACTCTAGGC-AAAATCACTTTCAAAGCAAAACATAGAAAATTCAAAAAC
634 CATACTTTAAAGCTAGACTCTA-ACAAAAATCACTTTCAAACCAAAACATAGAAACGACAAAAAC
* * * * *
11166910 ATTAAGCTTTTGAGTTTGTGCATAATATATATCAAAACAAGTTAAAAACACACAGTAGTTAATCA
698 ATTAAGCTTTTGAGTTTGTGCACAATATATATAAAAACAAGTT-AGAACATACAGCAGTTAATCA
* * *
11166975 CATCAAGGTCAAATAATGATTTCACAAATGATATCCAAGTATCAAGAGCTTCCCACAAATTCCTT
762 CATCAAGG-CCAATAA-CATTTCACAAATGATATCCAAGTATCAAGAGCATCCCACAAATTCCTT
* * * * *
11167040 AGAGCAATCACGAATTCTCCTAAAAATGTATCTAAAGCAAAAAAGTATGAAAAATTAAAACCGTG
825 AGAACATTCACGAATTCTTCT-AAAATGCATCTAAAGCAAAAAAGAATGAAAAATTAAAACCGTG
11167105 CGAATGGATTTTATATCACAATTTGAAAGCTGTGCAAATGGTTTTTATGCCCATAATTGTTCGGA
889 CGAATGG-TTTTATATCACAATTTGAAAGCTGTGCAAATGGTTTTTATG-CCATAATTGTTCGGA
* *
11167170 AATAGATTTTGACATTTTAGGCTCCAAAATCCTTCA
952 AACAAATTTTGACATTTTAGGCTCCAAAATCCTTCA
* * ** *
11167206 AAAACAGTTTATACCTAACATTATGAAAAATTAAAACCAAAGCAAGTTATCATCATTCTTT-TCT
1 AAAACAGCTTACACCTAACGCTATGAAAAATTAAAACCAACGCAAGTTATCATCATTCTTTGT-T
* * * * * * *
11167270 TAAGCAAGTTTAAAACATTGGATTGAATGA-AATTCAAATTCGTTTCCGTTTTAAAACCTACTAA
65 TGAGCAAGTTTAAAACATTGGATTCAACGATAA-TCAAATTTGTTTCCATTTCAAAACCTGCTAA
* * * *
11167334 AACAGTTTTTCACACTTTAAAGCTCGACTTTAGGAAAAATCACTTTCAAAGCAGAACATAGAAAC
129 AACAGTATTTCACACTTTAAAGCTCGACTCTAGCAAAAATCACTTTCAAAGCAAAACATAGAAAC
* ** *
11167399 TTAAAAAACATTAAGCTTTTGAGTTTGTGCATAATATATATAAAAACAAGTTAGCACATTCAGCA
194 TTCAAAAACATTAAGCTTTTGAGTTTGTGCATAATATATATAAAAACAAGTTAGCACACACAGTA
* ** * * * *
11167464 GTTAATCACATGAAG-TGCAAATAACGATTTCACAAATGATATCCAAGTCTCAAGAGCATCCCAT
259 GTTAATCACATCAAGCCCCAAA-AATGATTTCACAAATGATATCCAAGTATAAAGAGCATCCCAC
* * * **
11167528 AAATTCCTTAGACCACTCAAGAATTCTCCTAAAAATATGTCTAAAGCAAAAATATATGAAAAATT
323 AAATTCCTTAGAGCATTCACGAATTCTCCTAAAAATGCGTCTAAAGCAAAAA-ATATGAAAAATT
* * *
11167593 AAAACCGTGCAAATGGTTATTATATCACAATTTGAAAGTTGTGCGAATGGTTTTTATGCCAATAA
387 AAAACCGTGAAAATGGTTTTTATATCACAATTTGAAAGCTGTGCGAATGGTTTTTATGCC-ATAA
* * *
11167658 TTGTTTCGAAACAGATTTTGACATTTTGGGCTCCAAAAGCCTT-TAAAACAACTTACACCTAATG
451 TTGTTTCGAAACAGATTTTGACATTTTAGGCTCCAAAAGCCTTCAAAAACAACTTACACCTAATA
*
11167722 CTATGAAAAATTAAAAGCAACGCAAGTTATCATCGTTCTTTGTTTGAGCAAGTTTTAAACATTGG
516 CTATGAAAAATTAAAAGCAACGCAAGTTATCATCGTTCTTTGTTTGAGCAAGTTTAAAACATTGG
* *
11167787 ATTCAATGATATTCAAATTTGTTTTCCTTTCAAAACCTTCTAAAACAGTGTTCCATACTTTAAAG
581 ATTCAATGATATTCAAATTCGTTTTCCTTTCAAAACCTGCTAAAACAGTGTTCCATACTTTAAAG
* * * * *
11167852 CTAGACTTTAGCAAAAATCACTTTCAAACCAAAACATAGAAATGACAAAAGCATTAAGTTTTTGA
646 CTAGACTCTAACAAAAATCACTTTCAAACCAAAACATAGAAACGACAAAAACATTAAGCTTTTGA
11167917 GTTTGTGCACAATATATATA
711 GTTTGTGCACAATATATATA
11167937 TATATATATA
Statistics
Matches: 2374, Mismatches: 292, Indels: 117
0.85 0.10 0.04
Matches are distributed among these distances:
986 27 0.01
987 16 0.01
989 64 0.03
990 657 0.28
991 32 0.01
992 376 0.16
993 21 0.01
994 258 0.11
995 52 0.02
996 4 0.00
1000 1 0.00
1001 31 0.01
1002 379 0.16
1003 38 0.02
1004 406 0.17
1005 12 0.01
ACGTcount: A:0.40, C:0.17, G:0.12, T:0.31
Consensus pattern (987 bp):
AAAACAGCTTACACCTAACGCTATGAAAAATTAAAACCAACGCAAGTTATCATCATTCTTTGTTT
GAGCAAGTTTAAAACATTGGATTCAACGATAATCAAATTTGTTTCCATTTCAAAACCTGCTAAAA
CAGTATTTCACACTTTAAAGCTCGACTCTAGCAAAAATCACTTTCAAAGCAAAACATAGAAACTT
CAAAAACATTAAGCTTTTGAGTTTGTGCATAATATATATAAAAACAAGTTAGCACACACAGTAGT
TAATCACATCAAGCCCCAAAAATGATTTCACAAATGATATCCAAGTATAAAGAGCATCCCACAAA
TTCCTTAGAGCATTCACGAATTCTCCTAAAAATGCGTCTAAAGCAAAAAATATGAAAAATTAAAA
CCGTGAAAATGGTTTTTATATCACAATTTGAAAGCTGTGCGAATGGTTTTTATGCCATAATTGTT
TCGAAACAGATTTTGACATTTTAGGCTCCAAAAGCCTTCAAAAACAACTTACACCTAATACTATG
AAAAATTAAAAGCAACGCAAGTTATCATCGTTCTTTGTTTGAGCAAGTTTAAAACATTGGATTCA
ATGATATTCAAATTCGTTTTCCTTTCAAAACCTGCTAAAACAGTGTTCCATACTTTAAAGCTAGA
CTCTAACAAAAATCACTTTCAAACCAAAACATAGAAACGACAAAAACATTAAGCTTTTGAGTTTG
TGCACAATATATATAAAAACAAGTTAGAACATACAGCAGTTAATCACATCAAGGCCAATAACATT
TCACAAATGATATCCAAGTATCAAGAGCATCCCACAAATTCCTTAGAACATTCACGAATTCTTCT
AAAATGCATCTAAAGCAAAAAAGAATGAAAAATTAAAACCGTGCGAATGGTTTTATATCACAATT
TGAAAGCTGTGCAAATGGTTTTTATGCCATAATTGTTCGGAAACAAATTTTGACATTTTAGGCTC
CAAAATCCTTCA
Found at i:11168247 original size:335 final size:333
Alignment explanation
Indices: 11167613--11168285 Score: 1042
Period size: 335 Copynumber: 2.0 Consensus size: 333
11167603 AAATGGTTAT
* ** * *
11167613 TATATCACAATTTGAAAGTTGTGCGAATGGTTTTTATGCCAATAATTGTTTCGAAACAGATTTTG
1 TATATCACAATTTGAAAGCTGACCAAATGGTTTTTACGCCAATAATTGTTTCGAAACAGATTTTG
* * * *
11167678 ACATTTTGGGCTCCAAAAGCCTTTAAAACAACTTACACCTAATGCTATGAAAAATTAAAAGCAAC
66 ACATTTTAGGCTCCAAAAGCCTTAAAAACAACTTACAACTAATGCTATGAAAAATTAAAACCAAC
* ** *
11167743 GCAAGTTATCATCGTTCTTTGTTTGAGCAAGTTTTAAACATTGGATTCAATGATATTCAAATTTG
131 GCAAGTTATCATCGTTCTTTGTTTGAGCAAGTTTAAAACATTGGAACCAATGATATTCAAATTAG
* * * *
11167808 TTTTCCTTTCAAAACCTTCTAAAACAGTGTTCCATACTTTAAAGCTAGACTTTAGCAAAAATCAC
196 TTTTCCATTCAAAACCTGCTAAAACAGTGTTCCACACTTTAAAGCTAGACTCTAGCAAAAATCAC
11167873 TTTCAAACCAAAACATAGAAATGACAAAAGCATTAAGTTTTTGAGTTTGTGCACAATATATATAT
261 TTTCAAACCAAAACATAGAAATGACAAAAGCATTAAGTTTTTGAGTTTGTGCACAATATATATAT
11167938 -ATATATA
326 AATATATA
* *
11167945 TATATCACAATTTTGAAAGCTGCACCAAATGGTTTTTACGCCCATAATTGTTTGGAAACAGATTT
1 TATATCACAA-TTTGAAAGCTG-ACCAAATGGTTTTTACGCCAATAATTGTTTCGAAACAGATTT
* * *
11168010 TGACATTTTAGGCTCCAAAATCCTTCAAAAACAGCTTACAACTAATGCTGTGAAAAATTAAAACC
64 TGACATTTTAGGCTCCAAAAGCCTT-AAAAACAACTTACAACTAATGCTATGAAAAATTAAAACC
* ** *
11168075 AATGCATTTTATCATCGTTTTTTGTTTGAGCAAGTTTAAAACATTGGAACCAATGATATTCAAAT
128 AACGCAAGTTATCATCGTTCTTTGTTTGAGCAAGTTTAAAACATTGGAACCAATGATATTCAAAT
** * *
11168140 TAGTTTTTGATTCCAAACCTGCTAAAACAGTGTTTCACACTTTAAAGCTAGACTCTAGCAAAAAT
193 TAGTTTTCCATTCAAAACCTGCTAAAACAGTGTTCCACACTTTAAAGCTAGACTCTAGCAAAAAT
11168205 CACTTTCAAACCAAAACATAGAAATGACAAAAGCATTAAGTTTTTGAGTTTGTGCACAATATATA
258 CACTTTCAAACCAAAACATAGAAATGACAAAAGCATTAAGTTTTTGAGTTTGTGCACAATATATA
11168270 TATAATATATA
323 TATAATATATA
11168281 TATAT
1 TATAT
11168286 AAACAAGTTA
Statistics
Matches: 307, Mismatches: 30, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
332 10 0.03
333 10 0.03
334 59 0.19
335 216 0.70
336 12 0.04
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.34
Consensus pattern (333 bp):
TATATCACAATTTGAAAGCTGACCAAATGGTTTTTACGCCAATAATTGTTTCGAAACAGATTTTG
ACATTTTAGGCTCCAAAAGCCTTAAAAACAACTTACAACTAATGCTATGAAAAATTAAAACCAAC
GCAAGTTATCATCGTTCTTTGTTTGAGCAAGTTTAAAACATTGGAACCAATGATATTCAAATTAG
TTTTCCATTCAAAACCTGCTAAAACAGTGTTCCACACTTTAAAGCTAGACTCTAGCAAAAATCAC
TTTCAAACCAAAACATAGAAATGACAAAAGCATTAAGTTTTTGAGTTTGTGCACAATATATATAT
AATATATA
Found at i:11168281 original size:13 final size:13
Alignment explanation
Indices: 11168263--11168287 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11168253 TTTGTGCACA
11168263 ATATATATATAAT
1 ATATATATATAAT
11168276 ATATATATATAA
1 ATATATATATAA
11168288 ACAAGTTAGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
ATATATATATAAT
Found at i:11169609 original size:502 final size:498
Alignment explanation
Indices: 11168448--11170946 Score: 2809
Period size: 496 Copynumber: 5.0 Consensus size: 498
11168438 AAACTATGGG
** * * * *
11168448 AATGGTTTTTATGCATATAATTGTTTGAAAATAAAATTTGACATTTTAGGCTCCAAAATCCATTA
1 AATGGTTTTTATGCCCATAATTGTTTGGAAATAGATTTTGACATTTTAGGCTCCAAAATCCTTTA
* * * * * *
11168513 AAAATAGCTTACACCTAACACAGTGAAAAATTAAATTCAACGTAAGTTATCATCGTTCATTGTTT
66 AAAACAGCTTACACCTAACGCAGTGAAAAATTAAA-ACAATGCAAGTTATCATCGTTCTTTGTTT
* * * *
11168578 CAGCAAGATTAAAACAATTG-ATTCAATGATATTCAAATTCATTTCCATCTCAAAACTTGCTAAA
130 CAGCAAGTTTAAAAC-ATTGAATTCAATGATATTCAAATTCGTTTCCATTTCAAAACCTGCTAAA
* * * *
11168642 ATAGTATTTCATACTTTAAAGCTCGACTCTAGCAAAAATCATTTTCAAAGCAAAACGTAGAAACT
194 ACAGTGTTTCATACTTTAAAGCTCGACTCTAGCAAAAATC-GTTTCAAAGCAAAACATAGAAACT
* *
11168707 CCAAAAACATTATTAAGCTTTTGAGTTTGTGCATAATATATATAAAAACAAATTAGCACA-A-A-
258 TCAAAAACATTATTAAGCTTTTGAGTTTGTGCATAATATATATAAAAACAAGTTAGCACACACAG
** *
11168769 TAGTTAATCATGTCAAGCGCCAATAACAATTTCACAAATGATATCCAAGTATCAAGAGCATCCCA
323 TAGTTAATCACATCAAGCGCCAATAACGATTTCACAAATGATATCCAAGTATCAAGAGCATCCCA
* * * * * * * *
11168834 TAAATTCGTTACAACATTCACGAATTCTCCTAAAAATGTGTTTAAAGCAAAAAAATATG-AAAAA
388 CAAATTCCTTAGAGCATTCATGAATTCTCCTAAAAATGCGTCTAAAGCAAAAAAGTATGAAAAAA
*** * *
11168898 TTCAAACTGTGC-AAAGGTTTTTATATCACAATTTGAAAGCTGGGCA
453 TT-AAACCACGCGAATGGTTTTTATATCACAATTTGAAAGCTGTGCA
* ** * *
11168944 AATGGTTTTTATGCCCATAACTG-TTCAAAATTAGATTTTGACATTTCAGGCTCCAAAATCCTTC
1 AATGGTTTTTATGCCCATAATTGTTTGGAAA-TAGATTTTGACATTTTAGGCTCCAAAATCCTTT
* *
11169008 AAAAACAGCTTACACATAACGCAGTGAAAAATTAAAACCAATGCAAGTTGTCATCGTTCTTTGTT
65 AAAAACAGCTTACACCTAACGCAGTGAAAAATTAAAA-CAATGCAAGTTATCATCGTTCTTTGTT
** * *
11169073 AGAGCAAGTTTAAAACATTGGATTCAATGATATTCAAATTCGTTTCCATTTCAAAACCTGTTAAA
129 TCAGCAAGTTTAAAACATTGAATTCAATGATATTCAAATTCGTTTCCATTTCAAAACCTGCTAAA
* *
11169138 ACAGTGTTTCATACTTTAAAGCTCAACTCTAGCAAAAATCGTTTCCAAAGCAAAATATAGAAACT
194 ACAGTGTTTCATACTTTAAAGCTCGACTCTAGCAAAAATCGTTT-CAAAGCAAAACATAGAAACT
* *
11169203 TCAAAAACATTATTAGGCTTTTTGAGTTTGTGCATAATATATATAAAACCAAGTTAGCACACACA
258 TCAAAAACATTATTAAGC-TTTTGAGTTTGTGCATAATATATATAAAAACAAGTTAGCACACACA
* * *
11169268 GTAGTTAATCACATCAAGCACCAATAACGATTTCATAAATGATATCCAAGTATTAAGAGCATCCC
322 GTAGTTAATCACATCAAGCGCCAATAACGATTTCACAAATGATATCCAAGTATCAAGAGCATCCC
* * * *
11169333 ACAAACTCCTT-GAGCTTTCATGAATTCTCCTAAAAATGCGTCTAACGCAAAAAAGTATGAAAAT
387 ACAAATTCCTTAGAGCATTCATGAATTCTCCTAAAAATGCGTCTAAAGCAAAAAAGTATGAAAAA
* * *
11169397 TTTAAACCACGCGATTGGTTTTTATATCACAATTTGAAAGCTGTGCG
452 ATTAAACCACGCGAATGGTTTTTATATCACAATTTGAAAGCTGTGCA
* * *
11169444 AATGGTTTTTTTATTCCCATAATTGTTTGGAAAGAGATTTTGACATTTTAGGCTCTAAAATCCTT
1 AATGG--TTTTTATGCCCATAATTGTTTGGAAATAGATTTTGACATTTTAGGCTCCAAAATCCTT
* * * * *
11169509 TAAAAACAACTTACACCTAATGCCGTTAAAAATTAAAACGAATGCAAGTTATCATCGTTTTTTGT
64 TAAAAACAGCTTACACCTAACGCAGTGAAAAATTAAAAC-AATGCAAGTTATCATCGTTCTTTGT
* ** * * * * *
11169574 TTGAAAAAGTTTAAAACATTGAATTCAACGATATTCATATTCG-TTACAGTTTTAAAACTTGCTA
128 TTCAGCAAGTTTAAAACATTGAATTCAATGATATTCAAATTCGTTTCCA-TTTCAAAACCTGCTA
*
11169638 AAACAGTGTTTCATACTTTAAAGCTCGACTCTAGAAAAAATCGCTTTCAAAGCAAAACATAGAAA
192 AAACAGTGTTTCATACTTTAAAGCTCGACTCTAGCAAAAATCG-TTTCAAAGCAAAACATAGAAA
11169703 CTTCAAAAACA--A-TAAGCTTTTGAGTTTGTGCATAATATATATATATATATATATATATTTAA
256 CTTCAAAAACATTATTAAGCTTTTGAGTTTGTGC-----------ATA-ATATATATA-A---AA
* * * * * *
11169765 ACAGGTTAGCACACACAGTAGTTAATCACATCAAGGGCCATTAATGATTTAACAAATGAAATCCA
305 ACAAGTTAGCACACACAGTAGTTAATCACATCAAGCGCCAATAACGATTTCACAAATGATATCCA
11169830 AGTATCAAGAGCATCCCACAAATTCCTTAGAGCATTCATGAATTCTCCTAAAAATGCGTCTAAAG
370 AGTATCAAGAGCATCCCACAAATTCCTTAGAGCATTCATGAATTCTCCTAAAAATGCGTCTAAAG
* ** *
11169895 CAAAAAAGTATG-AAAAATTAAAACGTGCGAATGGTTTTTATATCACAATTTGAAAGCTGCGCA
435 CAAAAAAGTATGAAAAAATTAAACCACGCGAATGGTTTTTATATCACAATTTGAAAGCTGTGCA
* *
11169958 AATGGCTTTTT-TGCCCATAATTGTTCGGAAAAAGATTTTGACATTTTAGGCTCCAAAATCCTTT
1 AATGG-TTTTTATGCCCATAATTGTTTGGAAATAGATTTTGACATTTTAGGCTCCAAAATCCTTT
* * * * *
11170022 AAAAATAGCTTATACCTAATGCTA-TGAAAAATTAAAACCATCGTAAGTTATCATCGTTCTTTGT
65 AAAAACAGCTTACACCTAACGC-AGTGAAAAATTAAAACAAT-GCAAGTTATCATCGTTCTTTGT
* * *
11170086 TTCAGCAAGTTTAAAACATTGGATTCAAAGATATTCAAATTCGTTTCAATTTCAAAACCTGCTAA
128 TTCAGCAAGTTTAAAACATTGAATTCAATGATATTCAAATTCGTTTCCATTTCAAAACCTGCTAA
* * * * * * *
11170151 AAGAGTGTTTCATACTTTAAAGCTTGACTTTAGCAAAAATTGCTTTCAGACCAAAATATAGAAAC
193 AACAGTGTTTCATACTTTAAAGCTCGACTCTAGCAAAAATCG-TTTCAAAGCAAAACATAGAAAC
* * *
11170216 TTCAAAAAC---ATTAAGCTTTTGAGTTTGTGCACAATCTATATAAAAAACAAGTTAGCACACAA
257 TTCAAAAACATTATTAAGCTTTTGAGTTTGTGCATAATATATAT-AAAAACAAGTTAGCACACAC
* * * *
11170278 AGTACTTAATCACATCAAACTCAAATAACGATTAT-ACAAATGA-ATCCAAGTATCAAGAGCATC
321 AGTAGTTAATCACATCAAGCGCCAATAACGATT-TCACAAATGATATCCAAGTATCAAGAGCATC
* * ** * * *
11170341 GCACAAATTCATTAGAGCATTCATGAATTCTAATAAAAGTGCGTCTAAAGCAAAAAAGGA-CAAA
385 CCACAAATTCCTTAGAGCATTCATGAATTCTCCTAAAAATGCGTCTAAAGCAAAAAAGTATGAAA
** * * *
11170405 AAATTAAATAACGTGAATGGTTTTTATATCACAATTTGAAAGTTGTGCG
450 AAATTAAACCACGCGAATGGTTTTTATATCACAATTTGAAAGCTGTGCA
* * * * * * *
11170454 AATAGTTTTTATGCCCAAAATTATTTGGAAATAAAATTTGACATTTGAGGCTCCAAAATCCTTCA
1 AATGGTTTTTATGCCCATAATTGTTTGGAAATAGATTTTGACATTTTAGGCTCCAAAATCCTTTA
* * * *
11170519 AAGACAGCTTACACCTAACACTA-TTAAAAATTAAAACTAACGCAAGTTATCATCGTTCTTTGTT
66 AAAACAGCTTACACCTAACGC-AGTGAAAAATTAAAAC-AATGCAAGTTATCATCGTTCTTTGTT
* * * * ** * *
11170583 TAAGCAAGATTAAAACATT-AGATTTAATGATATTCAAATTTGTTTCTGTTACAAAACCTGCTAC
129 TCAGCAAGTTTAAAACATTGA-ATTCAATGATATTCAAATTCGTTTCCATTTCAAAACCTGCTAA
* * * * * *
11170647 AACAGTGTTTCACACTTTCAAAGCTCGGCTATGGTAAAAATCATTTTCAAAGCAAAACATAGAAA
193 AACAGTGTTTCATACTTT-AAAGCTCGACTCTAGCAAAAATC-GTTTCAAAGCAAAACATAGAAA
* * **
11170712 CTTCAAAAACATTAAGATTTAGAG-TTTGTGCATAACATATATATATATAACATATATATATATA
256 CTTCAAAAACATT---A-TTA-AGCTTT-TG----A-GT-T-TGTGCAT-A-ATATATATA-A-A
* * * *
11170776 AACAAGTTAGCATACACAGTAGTTAATCACATCAAGCGCCAATAACAATTTCACAAATAATATTC
304 AACAAGTTAGCACACACAGTAGTTAATCACATCAAGCGCCAATAACGATTTCACAAATGATATCC
* *
11170841 AAGTATCAATAGCATCCCACAAATTCCTTAGAGCATTCATGAATTCTCCTAAAAATACGTCTAAA
369 AAGTATCAAGAGCATCCCACAAATTCCTTAGAGCATTCATGAATTCTCCTAAAAATGCGTCTAAA
* * *
11170906 TCAAAAAAGTATG-GAAAATGAACACCATC-CGAATGGTTTTT
434 GCAAAAAAGTATGAAAAAATTAA-ACCA-CGCGAATGGTTTTT
11170947 TAGGTACATA
Statistics
Matches: 1696, Mismatches: 237, Indels: 119
0.83 0.12 0.06
Matches are distributed among these distances:
495 18 0.01
496 517 0.30
497 136 0.08
498 16 0.01
499 51 0.03
500 115 0.07
501 8 0.00
502 218 0.13
503 9 0.01
504 6 0.00
505 4 0.00
509 4 0.00
510 10 0.01
511 5 0.00
512 240 0.14
513 10 0.01
514 141 0.08
515 97 0.06
516 77 0.05
517 13 0.01
518 1 0.00
ACGTcount: A:0.40, C:0.17, G:0.12, T:0.31
Consensus pattern (498 bp):
AATGGTTTTTATGCCCATAATTGTTTGGAAATAGATTTTGACATTTTAGGCTCCAAAATCCTTTA
AAAACAGCTTACACCTAACGCAGTGAAAAATTAAAACAATGCAAGTTATCATCGTTCTTTGTTTC
AGCAAGTTTAAAACATTGAATTCAATGATATTCAAATTCGTTTCCATTTCAAAACCTGCTAAAAC
AGTGTTTCATACTTTAAAGCTCGACTCTAGCAAAAATCGTTTCAAAGCAAAACATAGAAACTTCA
AAAACATTATTAAGCTTTTGAGTTTGTGCATAATATATATAAAAACAAGTTAGCACACACAGTAG
TTAATCACATCAAGCGCCAATAACGATTTCACAAATGATATCCAAGTATCAAGAGCATCCCACAA
ATTCCTTAGAGCATTCATGAATTCTCCTAAAAATGCGTCTAAAGCAAAAAAGTATGAAAAAATTA
AACCACGCGAATGGTTTTTATATCACAATTTGAAAGCTGTGCA
Found at i:11170763 original size:15 final size:15
Alignment explanation
Indices: 11170743--11170776 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
11170733 GAGTTTGTGC
11170743 ATAACATATATATAT
1 ATAACATATATATAT
11170758 ATAACATATATATAT
1 ATAACATATATATAT
11170773 ATAA
1 ATAA
11170777 ACAAGTTAGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (15 bp):
ATAACATATATATAT
Found at i:11172123 original size:359 final size:359
Alignment explanation
Indices: 11171457--11172144 Score: 1008
Period size: 359 Copynumber: 1.9 Consensus size: 359
11171447 GAATGATTTG
*
11171457 TATATCACAATTTGAAAGCTGTGCGAATAGTTTTTAATGCCATAACTATTCGAAAAACAGATTTT
1 TATATCACAATTTCAAAGCTGTGCGAATAGTTTTTAATGCCATAACTATTCGAAAAACAGATTTT
* * *
11171522 GACATTTTAGGCTCCAAAATCCTTCAAAAACATCTTACACCTAACGTTGTGAAAAATTAAAACCA
66 GACATTTCAAGCTCCAAAATCCTTCAAAAACATCTTACACCTAACGCTGTGAAAAATTAAAACCA
* * * * *
11171587 ACGCAAGTTTTCATCATTCTTTGTTTGAGCAAGTTTAAAACATTGGATTCAATGATATTCAAATT
131 ACGCAAGTTATCATCATTCTTTGGTTGAACAAGTTTAAAACATTCGACTCAATGATATTCAAATT
* * *** **
11171652 CGTTTCCGTTTTAAAACCTGCTAAAACAGTTTTCACGTTTTAAAGCTTAACTCTAGCAAAAATCG
196 CGTTTCCATTTCAAAACCTGCTAAAACAGTTTTCACACCTTAAAGCTTAACTCTAGCAAAAATAA
* *
11171717 TTTTCAAAGCAAAACAAAGAAACTTCAAAAACGTTAAGCTGTTGAGTTTGTGCACAATATATATA
261 TTTTCAAAGCAAAACAAAGAAACATCAAAAACATTAAGCTGTTGAGTTTGTGCACAATATATATA
11171782 TATACATAAAAATTGAAACCATGCGATTGGTTTT
326 TATACATAAAAATTGAAACCATGCGATTGGTTTT
* * * *
11171816 TATATCACAATTTCAAAGCTGTGCGAAATAGTTTTT-GTGCCCATAATTGTTC-AAAAATAGATT
1 TATATCACAATTTCAAAGCTGTGCG-AATAGTTTTTAATG-CCATAACTATTCGAAAAACAGATT
*
11171879 TTGACATTTCAAGCTTCAAAATCCTTCAAAAACAGT-TTACACCTAACGCTGTGAAAAATTAAAA
64 TTGACATTTCAAGCTCCAAAATCCTTCAAAAACA-TCTTACACCTAACGCTGTGAAAAATTAAAA
*
11171943 CCAACGCAAGTTATCATCATTCTTTGGTTGAACAGGTTTAAAACATTCGACTCAATGATATTCAA
128 CCAACGCAAGTTATCATCATTCTTTGGTTGAACAAGTTTAAAACATTCGACTCAATGATATTCAA
* * * * *
11172008 ATTCGTTTTCATTTCAAAACTTGCTAAAATA-TTGTTGCATACCTTAAAGCTTGACTCTAGCAAA
193 ATTCGTTTCCATTTCAAAACCTGCTAAAACAGTT-TT-CACACCTTAAAGCTTAACTCTAGCAAA
* * *
11172072 AATAATTTTCAAA-CAAAACATAGAAACATCAAAAACATTAAGCTTTTGAGTTTGTGCATAATAT
256 AATAATTTTCAAAGCAAAACAAAGAAACATCAAAAACATTAAGCTGTTGAGTTTGTGCACAATAT
11172136 ATATATATA
321 ATATATATA
11172145 TATATATATA
Statistics
Matches: 292, Mismatches: 32, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
358 2 0.01
359 236 0.81
360 54 0.18
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.33
Consensus pattern (359 bp):
TATATCACAATTTCAAAGCTGTGCGAATAGTTTTTAATGCCATAACTATTCGAAAAACAGATTTT
GACATTTCAAGCTCCAAAATCCTTCAAAAACATCTTACACCTAACGCTGTGAAAAATTAAAACCA
ACGCAAGTTATCATCATTCTTTGGTTGAACAAGTTTAAAACATTCGACTCAATGATATTCAAATT
CGTTTCCATTTCAAAACCTGCTAAAACAGTTTTCACACCTTAAAGCTTAACTCTAGCAAAAATAA
TTTTCAAAGCAAAACAAAGAAACATCAAAAACATTAAGCTGTTGAGTTTGTGCACAATATATATA
TATACATAAAAATTGAAACCATGCGATTGGTTTT
Found at i:11172139 original size:2 final size:2
Alignment explanation
Indices: 11172132--11172160 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
11172122 TTTGTGCATA
11172132 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
11172161 AAGAAGTTAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:11173509 original size:498 final size:498
Alignment explanation
Indices: 11172381--11174469 Score: 1957
Period size: 498 Copynumber: 4.2 Consensus size: 498
11172371 TAATTGCTCG
* * * * * * *
11172381 AAAATTAAAACCAACGTAAGTTATCATTGTTCCTTGTTTGAACAAGTTCAAAATATTTGATTCAA
1 AAAATTAAAACCAACGCAAGTTATCATCGTTCTTTGTTTGAGCAAGTTTAAAACATTGGATTCAA
* * * *
11172446 CGATATTCAAGTTCGTTTCCATTTCAAAA--TTGGTTAAAACAGTCTCTCACACTTTAAAACTCG
66 CGATATTCAAATTTGTTTCCATTTCAAAACCTT--CTAAAACAGT-TTTCACACTTTAAAACTCG
* ** *
11172509 ACTCTAGCAAAAATCATTTTCAAAGCAAAATGTAGAAACTTCAAAAACATTAAGCTTTTGACTTT
128 ACTCTAGCAAAAATCGTTTTCAAAGCAAAACATAGAAACTTCAAAAACATTAAGCTTTTGA-GTT
* * *
11172574 GTGTGTAATATATCTTTATATATATACATAAAAACAAGTTAGCACACACAGTAGTTAATCACATC
192 -TGTG--------C--TATATATATATATAAAAACAAATTAGCACACACAATAGTTAATCACATC
* * ***
11172639 AAGCGCCAATAATGATTTGACAAATGGCATCCAAGTATCAAGAGCA-CCCTACAAATTCCTTAGA
246 AAGCGCCAATAACGATTTCACAAATAATATCCAAGTATCAAGAGCATCCC-ACAAATTCCTTAGA
* * * * * * *
11172703 GCATTTACGAATTCTCTTAAAAATGCATCGAAAGTAAAAAAGTATGGAAAATTAAAACAATGCGA
310 GCATTCACGAATTCTCCTAAAAATGCAGCTAAAGCAAAAAAGTATGAAAAATTAAAACCATGCGA
* * * * * * *
11172768 ATGCTTTTT-TATCACAATTTGAAAGTTGAGCGAATGGTTTATCTGCCCATAATTGTTCGAAAGC
375 ATGGTTTTTATATCACAATTTGAAAGCTGTGCAAATGGTTTCTATGCCCATAATTGTTCGAAAAC
* * * *
11172832 AGATTTTGACATTTAAGGCTCCAAAATCCTTCAAAAAAAGCTTACACCTAACGTTATGA
440 AGATTTTGACATTTCAGGCACCAAAATCCTTCAAAAACAGCTTACACCTAACGATATGA
* * * * * *
11172891 AAAATTAAAACCAACGCAACTTTTCATCGTTTTTTTTTTTAGCAAGTTTAAAACATTTGATTCAA
1 AAAATTAAAACCAACGCAAGTTATCATCGTTCTTTGTTTGAGCAAGTTTAAAACATTGGATTCAA
** * * * * * *
11172956 TAATTTTCAAATTCGGTTCCATTTCAAAACCTGCTGAAACAGTGTTTCACACTTTAAAGCTCGAC
66 CGATATTCAAATTTGTTTCCATTTCAAAACCTTCTAAAACAGT-TTTCACACTTTAAAACTCGAC
* * *
11173021 TCTAGCAAAAATCGTTTTCAAGGCAAAACATAGAAAATT-AAACAACCTTAAGCTTTTGAGTTTG
130 TCTAGCAAAAATCGTTTTCAAAGCAAAACATAGAAACTTCAAA-AACATTAAGCTTTTGAGTTTG
*
11173085 TGC-ATA-ATATATATAAAAACAAATTAGCACACACAATAGTTAATCAGATCAAGCGCCAATAAC
194 TGCTATATATATATATAAAAACAAATTAGCACACACAATAGTTAATCACATCAAGCGCCAATAAC
* **
11173148 GATTTCACAAATGATATCCAAGTATCAAGAGCATCCCACAAATTCCTTTTAGCATTCACGAATTC
259 GATTTCACAAATAATATCCAAGTATCAAGAGCATCCCACAAATTCCTTAGAGCATTCACGAATTC
* * *
11173213 TCCTAAAAATGCAGCTACAGCAAAAAAGGTATGAAAAATTAAAACCGTGTGAATGGTTTTTATAT
324 TCCTAAAAATGCAGCTAAAGCAAAAAA-GTATGAAAAATTAAAACCATGCGAATGGTTTTTATAT
* * * * * *
11173278 TACAATTTGAAAGCTGTGCGAATTGTTTCTATACTCATAAGTT-TCCGAAAACAGATTTTGACAT
388 CACAATTTGAAAGCTGTGCAAATGGTTTCTATGCCCATAA-TTGTTCGAAAACAGATTTTGACAT
* * * * * * * *
11173342 TTTAGGC-TCAAAATCCTCCAAAAAATAGCTTGCCCCTAATGATGTGA
452 TTCAGGCACCAAAATCCTTC-AAAAACAGCTTACACCTAACGATATGA
* * *
11173389 AAAATTAAAACCAACGCAAGTTCTCATCGTTCCTTGTTTGAGCAAGTTTAAAACATTGGATTGAA
1 AAAATTAAAACCAACGCAAGTTATCATCGTTCTTTGTTTGAGCAAGTTTAAAACATTGGATTCAA
* *
11173454 CGATATTCAAATTTGATTCCATTTCAAAACCTTCTAAAACTGTTTTTCACACTTTAAAACTCGAC
66 CGATATTCAAATTTGTTTCCATTTCAAAACCTTCTAAAACAG-TTTTCACACTTTAAAACTCGAC
* * ** *
11173519 TCTAGCAAAAATAGTTTTCAAAGTAAAATGTAGAAACTTCAAAAACATTAAG-TATTTGATTTTG
130 TCTAGCAAAAATCGTTTTCAAAGCAAAACATAGAAACTTCAAAAACATTAAGCT-TTTGAGTTTG
** * * * * *
11173583 TGC-ATA-ATATATATAAAAACATGTCAGCACACA-GA-AGTTAATCACATCAAGTGCTAATAAT
194 TGCTATATATATATATAAAAACAAATTAGCACACACAATAGTTAATCACATCAAGCGCCAATAAC
* * * * * *
11173644 GATTTCACAAATAATATCCAAGTATTAAGAGTATCCCCCAAATTCCTTAGAGGATTCACTAACTC
259 GATTTCACAAATAATATCCAAGTATCAAGAGCATCCCACAAATTCCTTAGAGCATTCACGAATTC
* * * *
11173709 TACTAAAAATGC-GTCTAAAAC-AAAAAGTTATGAAAAATTAGAACCATGCGAATGGTTTTTACA
324 TCCTAAAAATGCAG-CTAAAGCAAAAAAG-TATGAAAAATTAAAACCATGCGAATGGTTTTTATA
***** * * *
11173772 TCACAAAAACCACGCTGTGCAAATGGTTTTTATGCCCATAATTGTTCGAAAATAGATTTTGACAT
387 TCACAATTTGAAAGCTGTGCAAATGGTTTCTATGCCCATAATTGTTCGAAAACAGATTTTGACAT
* *
11173837 TTCAGGCGCCAAAATCCTTCAAAAACAGATTACACCTAAC-ACTATGA
452 TTCAGGCACCAAAATCCTTCAAAAACAGCTTACACCTAACGA-TATGA
* * * * * *
11173884 AAAATT--AA--AACGAAACTTATCTTTGTTCTTTGTTCGAGAAAGTTTAAAACATTGGATTCAA
1 AAAATTAAAACCAACGCAAGTTATCATCGTTCTTTGTTTGAGCAAGTTTAAAACATTGGATTCAA
*
11173945 TGATATTCAAATTTGTTTCCATTTCAAAA-C--CT------G----------TTAAAACTCGACT
66 CGATATTCAAATTTGTTTCCATTTCAAAACCTTCTAAAACAGTTTTCACACTTTAAAACTCGACT
* * * * *
11173991 CTAGCAAAAATTGTTTTGAAAGCAAAACATAGAAACGTAAAAAACATTAAGCTATTGAGTTTGTG
131 CTAGCAAAAATCGTTTTCAAAGCAAAACATAGAAACTTCAAAAACATTAAGCTTTTGAGTTTGTG
* **
11174056 CATAATATATATATATATATATATATATACATAAAAACAAGTTAGCACAAACAGCAGTTAATCAC
196 C------TATATATATATATA-A-A-A-AC------A-AA-TTAGCACACACAATAGTTAATCAC
* * * * * * *
11174121 ATCAAGCGCCAATAACAATTTCACAAATAATATCCAATTATAAAGAACATCCTACAAATTCTTTG
243 ATCAAGCGCCAATAACGATTTCACAAATAATATCCAAGTATCAAGAGCATCCCACAAATTCCTTA
* * * * *
11174186 GAGCATTCTCGAATTCTCCTAAAAATGCATCAAAAGCAAAAAAGTATGAAAAATTAAAACCGTGT
308 GAGCATTCACGAATTCTCCTAAAAATGCAGCTAAAGCAAAAAAGTATGAAAAATTAAAACCATGC
* * * ** ** * *
11174251 GAATGGTTTTTATATCTCAA---AAAAG-TATAAAAAT-GCATCAAATGCCCATAATTGTTTGAA
373 GAATGGTTTTTATATCACAATTTGAAAGCTGTGCAAATGGTTTC-TATGCCCATAATTGTTCGAA
* * * *
11174311 AACAGATTTTTACATTTCAGGCACCAAAATCCTTCAAAAACAGCTTACATCTAACGCTGTGA
437 AACAGATTTTGACATTTCAGGCACCAAAATCCTTCAAAAACAGCTTACACCTAACGATATGA
* * * * *
11174373 CAAATTAAAACGAACGCAAGTTCTCATCATTCTTTGTTTGAGCAAGCTTAACAA-ATTGGATTCA
1 AAAATTAAAACCAACGCAAGTTATCATCGTTCTTTGTTTGAGCAAGTTTAA-AACATTGGATTCA
* * **
11174437 ACGATGTTCAAATTTTTTTCTGTTTCAAAACCT
65 ACGATATTCAAATTTGTTTCCATTTCAAAACCT
11174470 ACTAGAGATT
Statistics
Matches: 1304, Mismatches: 225, Indels: 115
0.79 0.14 0.07
Matches are distributed among these distances:
471 68 0.05
472 1 0.00
478 3 0.00
479 9 0.01
480 1 0.00
481 1 0.00
482 2 0.00
483 2 0.00
488 4 0.00
489 84 0.06
490 3 0.00
491 81 0.06
493 194 0.15
494 13 0.01
495 116 0.09
496 233 0.18
497 46 0.04
498 272 0.21
499 6 0.00
500 1 0.00
508 4 0.00
509 5 0.00
510 154 0.12
512 1 0.00
ACGTcount: A:0.39, C:0.18, G:0.12, T:0.31
Consensus pattern (498 bp):
AAAATTAAAACCAACGCAAGTTATCATCGTTCTTTGTTTGAGCAAGTTTAAAACATTGGATTCAA
CGATATTCAAATTTGTTTCCATTTCAAAACCTTCTAAAACAGTTTTCACACTTTAAAACTCGACT
CTAGCAAAAATCGTTTTCAAAGCAAAACATAGAAACTTCAAAAACATTAAGCTTTTGAGTTTGTG
CTATATATATATATAAAAACAAATTAGCACACACAATAGTTAATCACATCAAGCGCCAATAACGA
TTTCACAAATAATATCCAAGTATCAAGAGCATCCCACAAATTCCTTAGAGCATTCACGAATTCTC
CTAAAAATGCAGCTAAAGCAAAAAAGTATGAAAAATTAAAACCATGCGAATGGTTTTTATATCAC
AATTTGAAAGCTGTGCAAATGGTTTCTATGCCCATAATTGTTCGAAAACAGATTTTGACATTTCA
GGCACCAAAATCCTTCAAAAACAGCTTACACCTAACGATATGA
Found at i:11174067 original size:2 final size:2
Alignment explanation
Indices: 11174060--11174084 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
11174050 TTTGTGCATA
11174060 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
11174085 CATAAAAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:11175002 original size:2 final size:2
Alignment explanation
Indices: 11174995--11175023 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
11174985 TTTATGCATA
11174995 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
11175024 CACACATAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:11176471 original size:2 final size:2
Alignment explanation
Indices: 11176466--11176492 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
11176456 TTTGTGTGTA
11176466 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
11176493 AGTTAGCACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:11177131 original size:511 final size:508
Alignment explanation
Indices: 11175669--11177491 Score: 2346
Period size: 510 Copynumber: 3.6 Consensus size: 508
11175659 TAAAACCATT
* * * * *
11175669 TGAAAGGTTTTTATGCCCATAATTGTTTGACAACAGATTTTGAGATTT-AGGCTCCGAAAT-CTT
1 TGAATGGTTTTTATGCCCATAATTGTTCGAAAACAGATTTTGACATTTCAGGCTCCAAAATCCTT
** * * * * * *
11175732 TTAAAATTAGCTTACACCTAATGCTGTGAAAAATTAAAACTAATGCAAGTTCTCATCGTTCTTTG
66 CAAAAACT-GCATACACCTAACGCTGTGAAAAATTAAAACCAACGCAAGTTATCATCGTTCTTTG
* * *
11175797 TTTGAGCAAGTTTAAAACATTGGATTCAACAATATTCAAATTTGTTTCCATTTCAAAACCTGCTA
130 TTTGAGCAAGTTTAAAACATTGGATTCAACGATATTCAAATTCGTTTTCATTTCAAAACCTGCTA
* * * *
11175862 AAACAGTGTTTAACAATTT-AAAGCT-TAGCTCTAGCAAATATCATTTTAAAAGCAAAACATAGA
195 AAACAGTGTTTCACACTTTAAAAGCTCGA-CTCTAGCAAAAATCATTTTAAAAGCAAAACATAGA
11175925 AACTTCAAAAACATTAAGCTTTTGAGTTTGTGC---ATA-ATATATATATATATATATAAACAAG
259 AACTTCAAAAACATTAAGCTTTTGAGTTTGTGCATAATATATATATATATATATATATAAACAAG
* * ** *
11175986 TTATCACACACAGTAGTTAATCTCATCAATTGCCAAT-ATCGATTTCTCAAATGATATCCAAGTA
324 TTAGCACACACAGTAGTTAATCACATCAAGCGCCAATAAT-GATTTCACAAATGATATCCAAGTA
* * * ** *
11176050 TCTAGAGCATCCCACAAATGCTTTAGACTATTCACGAATTCTCTTAAAAATGAGTCTAAAGC-AA
388 TCAAGAGCATCTCACAAATTCCATAGAC-ATTCACGAATTCTCCTAAAAATGAGTCTAAAGCAAA
* * * *
11176114 AAAGTATCAAAAATTAAAATCATGTGAATGGCTTTTATATCCCAATTTGAAAGCTGTG
452 AAAGTATGAAAAATTAAAATCATATGAATGGCTTTTATATCACAATTTTAAA-CTGTG
* * * * * *
11176172 TGATTAGTTTTTATGCCCATAGTTGTTCGAAAACAGATTTTGACATTTCAAGTTGCAAAATCCTT
1 TGAATGGTTTTTATGCCCATAATTGTTCGAAAACAGATTTTGACATTTCAGGCTCCAAAATCCTT
* * * * *
11176237 CAAAAACTGCATACACCTAATGCTGTGAAAAATGAAAACCAACCCAAGTTATCATCATTCTTTCT
66 CAAAAACTGCATACACCTAACGCTGTGAAAAATTAAAACCAACGCAAGTTATCATCGTTCTTTGT
* * * * * *
11176302 TGGAGTAAGTTTAAAACATTGGTTTCAACGATATTCAAATTC-ATTTCTGTTTCAAAACCAGCTA
131 TTGAGCAAGTTTAAAACATTGGATTCAACGATATTCAAATTCGTTTTC-ATTTCAAAACCTGCTA
* * * *
11176366 AAACAGTGTTTCACACTTTGAAAGCTCGACTCTAGCAAAAATCATTTTCGATA-CTAAACATAGA
195 AAACAGTGTTTCACACTTTAAAAGCTCGACTCTAGCAAAAATCATTTT-AAAAGCAAAACATAGA
** * *
11176430 AACTTCAAAAACATTAAGCTTTTGAGTTTGTGTGTAATATATATATATATATATATATATATAAG
259 AACTTCAAAAACATTAAGCTTTTGAGTTTGTGCATAATATATATATATATATATATATAAACAAG
* * * * * * *
11176495 TTAGCACACACAGTAGTTAATCACACCAAGCACCAATAACGATTTAACAAATTAGATCCATGTAT
324 TTAGCACACACAGTAGTTAATCACATCAAGCGCCAATAATGATTTCACAAATGATATCCAAGTAT
** * *
11176560 CAAGAGCGCCTCACAAATTCCATAGAGCATTCACAAATTCTCCTAAAAATGAATCTAAAGCAAAA
389 CAAGAGCATCTCACAAATTCCATAGA-CATTCACGAATTCTCCTAAAAATGAGTCTAAAGCAAAA
*
11176625 AAGTATGAAAAATTAAAACCATATGAATGGCTTTTATATCACAATTTTTAAACTGTG
453 AAGTATGAAAAATTAAAATCATATGAATGGCTTTTATATCACAA-TTTTAAACTGTG
* *
11176682 TGAATGGTTTTTATGCCCGTAATTGTTCGAAAATAGATTTTGACATTTCAGGCTCCAAAATCCTT
1 TGAATGGTTTTTATGCCCATAATTGTTCGAAAACAGATTTTGACATTTCAGGCTCCAAAATCCTT
* *
11176747 CAAAAACTGCATACACCTAACGCTGTGAAAAATTAAAACCAACGTAAGTTATCACCGTTCTTTGT
66 CAAAAACTGCATACACCTAACGCTGTGAAAAATTAAAACCAACGCAAGTTATCATCGTTCTTTGT
* * * *
11176812 TAGAGTAAGTTTAAAACATTGGATTCAATGATATTCAAATTCGTTTTCATTTCACAACCTGCTAA
131 TTGAGCAAGTTTAAAACATTGGATTCAACGATATTCAAATTCGTTTTCATTTCAAAACCTGCT-A
** * * *
11176877 AAACAGTGTTTCACACTTTAAAAGCTCGACTAC-AGCAAAAATTGTTTTCAAAA-CTAAACGTAC
195 AAACAGTGTTTCACACTTTAAAAGCTCGACT-CTAGCAAAAATCATTTT-AAAAGCAAAACATAG
* **
11176940 AAACTTCAAAAACATTAATCTTTTGAGTTTACGCATAATATATATATATATATATATATAAACAA
258 AAACTTCAAAAACATTAAGCTTTTGAGTTTGTGCATAATATATATATATATATATATATAAACAA
* *
11177005 GTTAGCACACACAGTAGTTAATCAAATCAAGCGCTAATAATGATTTCACAAATGATATCCAAGTA
323 GTTAGCACACACAGTAGTTAATCACATCAAGCGCCAATAATGATTTCACAAATGATATCCAAGTA
* *
11177070 TCAAGAGCATCTCACAAATTCCATAGATCATTCACGAATTCTCCTAAAAATGTGCCTAAAGCAAA
388 TCAAGAGCATCTCACAAATTCCATAGA-CATTCACGAATTCTCCTAAAAATGAGTCTAAAGCAAA
* * **
11177135 AAAGTATGAAAAATTAAAATCGTGA-GAATGGTTTTTATATCACAATTTTAATGTTGTG
452 AAAGTATGAAAAATTAAAATCAT-ATGAATGGCTTTTATATCACAATTTTAA-ACTGTG
* * * *
11177193 TGAATGGGTTTTATGCCCATAATTGTTCG-AAACACATTTTGACATTTCAGGCTCCAAAATGCTA
1 TGAATGGTTTTTATGCCCATAATTGTTCGAAAACAGATTTTGACATTTCAGGCTCCAAAATCCTT
* * * * * *
11177257 CAAAAACAGCTTACACCTAACGCTGTGAAAAAGTAAAACCAACACAAGTTATCTTTGTTCTTTGT
66 CAAAAACTGCATACACCTAACGCTGTGAAAAATTAAAACCAACGCAAGTTATCATCGTTCTTTGT
* * * * *
11177322 TTGAGCAAGTTTAACAACATTGGATTCAACGATATTGAAATTCGTTCTCGTTTCATAACCTACTA
131 TTGAGCAAGTTTAA-AACATTGGATTCAACGATATTCAAATTCGTTTTCATTTCAAAACCTGCTA
* *
11177387 AAACAGTGTTTCAGACTTTAAAAGCTCGACTCTAGCAAAAATCATTTTAAAAGCAAAACATATAA
195 AAACAGTGTTTCACACTTTAAAAGCTCGACTCTAGCAAAAATCATTTTAAAAGCAAAACATAGAA
* **
11177452 ACTTTAAAAACATTAAGCCCTTGAGTTTGTGCATAATATA
260 ACTTCAAAAACATTAAGCTTTTGAGTTTGTGCATAATATA
11177492 AGCAACTTAG
Statistics
Matches: 1139, Mismatches: 159, Indels: 37
0.85 0.12 0.03
Matches are distributed among these distances:
503 44 0.04
504 125 0.11
505 74 0.06
506 3 0.00
508 3 0.00
509 128 0.11
510 409 0.36
511 351 0.31
512 2 0.00
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.32
Consensus pattern (508 bp):
TGAATGGTTTTTATGCCCATAATTGTTCGAAAACAGATTTTGACATTTCAGGCTCCAAAATCCTT
CAAAAACTGCATACACCTAACGCTGTGAAAAATTAAAACCAACGCAAGTTATCATCGTTCTTTGT
TTGAGCAAGTTTAAAACATTGGATTCAACGATATTCAAATTCGTTTTCATTTCAAAACCTGCTAA
AACAGTGTTTCACACTTTAAAAGCTCGACTCTAGCAAAAATCATTTTAAAAGCAAAACATAGAAA
CTTCAAAAACATTAAGCTTTTGAGTTTGTGCATAATATATATATATATATATATATAAACAAGTT
AGCACACACAGTAGTTAATCACATCAAGCGCCAATAATGATTTCACAAATGATATCCAAGTATCA
AGAGCATCTCACAAATTCCATAGACATTCACGAATTCTCCTAAAAATGAGTCTAAAGCAAAAAAG
TATGAAAAATTAAAATCATATGAATGGCTTTTATATCACAATTTTAAACTGTG
Found at i:11178881 original size:471 final size:472
Alignment explanation
Indices: 11177973--11178904 Score: 1261
Period size: 471 Copynumber: 2.0 Consensus size: 472
11177963 TAGCACATAC
*
11177973 AGTAGTTAATCACATCAAGCACCAATAATGATTTTCACAAATGATATCCAAGTATCAAGAGCATC
1 AGTAGTTAATCACATCAAGCACCAATAACGATTTTCACAAATGATATCCAAGTATCAAGAGCATC
* *
11178038 CCACAAATTCCTTACAGCATTCACTAATTCTCATAAAAATGCACCTAAAGCAAAAAAGTATGAAA
66 CCACAAATTCCTTACACCATTCACTAATTCTCATAAAAATGCACCTAAAGCAAAAAAGTATAAAA
* ** * * * *
11178103 AATTAAAATCGTGTGAATCGTTTTTATATCACAATTTTAAAGTTGTGCGAATGGTTTTTATGCCA
131 AATAAAAATCGTACGAATCGTTTGTAGATCACAATTTTAAAGCTATGCGAATGGTTTTTATGCCA
*
11178168 ATACTTGTTCGAAAACAGATTTTGACATTTTAGGCTCCAAAATCCTTAAAAAACAGCTTACACCT
196 ATAATTGTTCGAAAACAGATTTTGACATTTTAGGCTCCAAAATCCTTAAAAAACAGCTTACACCT
* *
11178233 AATGCTGTGAAAATTTAAAACAAGCGCAAGTTATCATCGTTCTTTGTTTGAGCAAGTTTAAAACA
261 AATGCTATGAAAAATTAAAACAAGCGCAAGTTATCATCGTTCTTTGTTTGAGCAAGTTTAAAACA
*
11178298 TTGGATTCAATGATATTCAAATTCGTTTCTGTTTCAAAACCAATTAAACAATGTTTCACACTTTA
326 TTGGATTCAATGATATTCAAATTCGTTTCTGTTTCAAAACCAATAAAACAATGTTTCACACTTTA
*
11178363 AAACTAGACTCTAGCAAAAATCATTTTCAAAGCAAAACATAGAAACTTGAAAAACATTAAGCTTT
391 AAACTAGACTCTAGCAAAAATCATTTTCAAAGCAAAACATAGAAACTTGAAAAACATTAAGCGTT
11178428 TGAGTTTGTGCATAAGT
456 TGAGTTTGTGCATAAGT
*
11178445 AGTAGTTAATCACATTAAG-AGCCAATAACGA-TTTCACAAATGATATCCAAGTATCAAGAGCAT
1 AGTAGTTAATCACATCAAGCA-CCAATAACGATTTTCACAAATGATATCCAAGTATCAAGAGCAT
* * * * ***
11178508 CTCACAAATTCCTTAGACCATTCA-TGAATTTTCCTAAAAATGTGTCTAAAGCAAAAAAGTATTA
65 CCCACAAATTCCTTACACCATTCACT-AATTCTCATAAAAATGCACCTAAAGCAAAAAAGTA-TA
* * * *
11178572 AAAAATAAAAAT-GTACGAATGGTTTGTGGATCACAATTTTAAAGCTATGCGAATTGTTTTTATT
128 AAAAATAAAAATCGTACGAATCGTTTGTAGATCACAATTTTAAAGCTATGCGAATGGTTTTTATG
* * * ** * *
11178636 CCCATAATTGTTTGAAAACATATTTTGACATTTTAGGCTCCAAAATTTTTCAAAAACAGCTTCCA
193 CCAATAATTGTTCGAAAACAGATTTTGACATTTTAGGCTCCAAAATCCTTAAAAAACAGCTTACA
* * * ***
11178701 CCTAATGCTATGAAAAATTAAAACTAA-TGCAAGTTATCGTTGTTCTTTGTTTGATTTAGTTTAA
258 CCTAATGCTATGAAAAATTAAAAC-AAGCGCAAGTTATCATCGTTCTTTGTTTGAGCAAGTTTAA
* ***
11178765 AACATTGGATTCAATGATATTCAAATTTGTTT-TCGTTTCAAAAACTGCTAAAACAGAAT-TTT-
322 AACATTGGATTCAATGATATTCAAATTCGTTTCT-GTTTC-AAAACCAATAAAAC--AATGTTTC
* * * * * * * *
11178827 ACACTTTAAAGCTTGACTCTAGCAAAATTCGTTTTCAAAGCAAAA-GTGGAAACTTTAAAAGCAT
383 ACACTTTAAAACTAGACTCTAGCAAAAATCATTTTCAAAGCAAAACATAGAAACTTGAAAAACAT
11178891 TAAGCGTTTGAGTT
448 TAAGCGTTTGAGTT
11178905 CGCTCATAAT
Statistics
Matches: 400, Mismatches: 52, Indels: 17
0.85 0.11 0.04
Matches are distributed among these distances:
470 2 0.00
471 300 0.75
472 92 0.23
473 3 0.01
474 3 0.01
ACGTcount: A:0.38, C:0.16, G:0.13, T:0.33
Consensus pattern (472 bp):
AGTAGTTAATCACATCAAGCACCAATAACGATTTTCACAAATGATATCCAAGTATCAAGAGCATC
CCACAAATTCCTTACACCATTCACTAATTCTCATAAAAATGCACCTAAAGCAAAAAAGTATAAAA
AATAAAAATCGTACGAATCGTTTGTAGATCACAATTTTAAAGCTATGCGAATGGTTTTTATGCCA
ATAATTGTTCGAAAACAGATTTTGACATTTTAGGCTCCAAAATCCTTAAAAAACAGCTTACACCT
AATGCTATGAAAAATTAAAACAAGCGCAAGTTATCATCGTTCTTTGTTTGAGCAAGTTTAAAACA
TTGGATTCAATGATATTCAAATTCGTTTCTGTTTCAAAACCAATAAAACAATGTTTCACACTTTA
AAACTAGACTCTAGCAAAAATCATTTTCAAAGCAAAACATAGAAACTTGAAAAACATTAAGCGTT
TGAGTTTGTGCATAAGT
Found at i:11180782 original size:2 final size:2
Alignment explanation
Indices: 11180775--11180799 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
11180765 TTTGTGCATA
11180775 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
11180800 AACAAGTTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:11181288 original size:2 final size:2
Alignment explanation
Indices: 11181281--11181324 Score: 70
Period size: 2 Copynumber: 22.0 Consensus size: 2
11181271 GTTTTTGCAT
* *
11181281 TA TA TA TA TA AA TA TA TA TA TG TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
11181323 TA
1 TA
11181325 CACACGAAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (2 bp):
TA
Found at i:11182203 original size:462 final size:455
Alignment explanation
Indices: 11181585--11182506 Score: 1238
Period size: 462 Copynumber: 2.0 Consensus size: 455
11181575 CACCTAACGC
* * *
11181585 TGTGAAAAATTTAAACCAATACGAGTTATCATCGTTCTACGTTTGAGCAAGTTTAAAACATTAGA
1 TGTGAAAAATTAAAACCAATACAACTTATCATCGTTCTACGTTTGAGCAAGTTTAAAACATTAGA
11181650 TTCAACAATAATTCAAATTCGTTCCCATTTCAAAACCAGCTAAAACAACGTTTCACACTTTAAAG
66 TTCAACAATAATTCAAATTCGTTCCCATTTCAAAACCAGCTAAAACAACGTTTCACACTTTAAAG
*
11181715 CTCGACTCTAGCAAAAATAATTTTCAAAGCAAAACATAGAAACTTAAAAAACATTAAGCTTTTGA
131 CTCGACTCTAGAAAAAATAATTTTCAAAGCAAAACATAGAAACTTAAAAAACATTAAGCTTTTGA
* * * *
11181780 GTTTGTGC-ATA-ATATATATATGTATA-A-AAACAAGTTAGCACACACAGTTGTTAATCACATC
196 GTATGTGCAATATATATATATATATATATATAAACAAGTTAGCACACACACTAGTTAATCACATC
* * *
11181841 AACCGCCAATAACGATTTAATAAATGATATCCAAGTATCAAGAGCATCCCACCAATTCCTTAGAG
261 AACCACCAATAACGATTTAATAAATGATATCCAAGTATCAAGAGCATCCCACAAAATCCTTAGAG
* * *
11181906 CATTAACGAATTCGCCTAAAAATGTGTCTAAAGCAAAAAA-TAATGAAAAATT-AAAACCATGCG
326 CATTAACCAATT--CC-----A-----CTAAAGCAAAAAAGT-ATGAAAAATTAAAAAACATGCA
* * *
11181969 AATGGTGT-TTATATCACAATTTGAAAGCTATGGGAA-TGGCTTTTATCCCCATAATTGCTCTAA
378 AATGGT-TATTATATCACAATTTGAAAGCTAT-GCAATTGGCTTTTATCCCCAAAATTGCTCGAA
*
11182032 ATCAGATTTTGACAT
441 AACAGATTTTGACAT
*
11182047 TGTGAAAAATTAAAACCAATGCAACTTATCATCGTTCT-CTGTTTGAGCAAGTTTAAAAACATT-
1 TGTGAAAAATTAAAACCAATACAACTTATCATCGTTCTAC-GTTTGAGCAAGTTT-AAAACATTA
* * * **
11182110 GTATTCAACGAT-ATTCAAATTCGTTTCCATTTCAAAACCTA-CTAAAAGAGTGTTTCACACTTT
64 G-ATTCAACAATAATTCAAATTCGTTCCCATTTCAAAACC-AGCTAAAACAACGTTTCACACTTT
**
11182173 AAAGCTCGACTCTAGAAAAAATTGTTTTCAAAGCAAAACATAGAAACTTAAAAAACATTAAGCTT
127 AAAGCTCGACTCTAGAAAAAATAATTTTCAAAGCAAAACATAGAAACTTAAAAAACATTAAGCTT
* * *
11182238 TTGAGTATGTGCAATATATATATATATATATATATATATAAACAAGTTGGCAGACATACTAGTTA
192 TTGAGTATGTGC---A-ATATATATATATATATATATATAAACAAGTTAGCACACACACTAGTTA
* *
11182303 ATCACATCAAGCACCAATAACGATTTCATAAATGATATCCAAGTATCAAGAGCATCCCACAAAAT
253 ATCACATCAACCACCAATAACGATTTAATAAATGATATCCAAGTATCAAGAGCATCCCACAAAAT
* *
11182368 CCTTAGAGCATTCACCAATTCCACTAAAGCAAAAAAGTATGAAAAATTAAAAAACGTGCAAATGG
318 CCTTAGAGCATTAACCAATTCCACTAAAGCAAAAAAGTATGAAAAATTAAAAAACATGCAAATGG
* *
11182433 TTATTATATCACAATTTGAAAGCTATGCAATTGGCTTTTATGCCCAAAATTGTTCGAAAACAGAT
383 TTATTATATCACAATTTGAAAGCTATGCAATTGGCTTTTATCCCCAAAATTGCTCGAAAACAGAT
11182498 TTTGACAT
448 TTTGACAT
11182506 T
1 T
11182507 TTAGGCTCCA
Statistics
Matches: 409, Mismatches: 35, Indels: 35
0.85 0.07 0.07
Matches are distributed among these distances:
458 27 0.07
459 76 0.19
461 1 0.00
462 167 0.41
463 19 0.05
467 3 0.01
468 16 0.04
469 1 0.00
470 99 0.24
ACGTcount: A:0.41, C:0.17, G:0.12, T:0.30
Consensus pattern (455 bp):
TGTGAAAAATTAAAACCAATACAACTTATCATCGTTCTACGTTTGAGCAAGTTTAAAACATTAGA
TTCAACAATAATTCAAATTCGTTCCCATTTCAAAACCAGCTAAAACAACGTTTCACACTTTAAAG
CTCGACTCTAGAAAAAATAATTTTCAAAGCAAAACATAGAAACTTAAAAAACATTAAGCTTTTGA
GTATGTGCAATATATATATATATATATATATAAACAAGTTAGCACACACACTAGTTAATCACATC
AACCACCAATAACGATTTAATAAATGATATCCAAGTATCAAGAGCATCCCACAAAATCCTTAGAG
CATTAACCAATTCCACTAAAGCAAAAAAGTATGAAAAATTAAAAAACATGCAAATGGTTATTATA
TCACAATTTGAAAGCTATGCAATTGGCTTTTATCCCCAAAATTGCTCGAAAACAGATTTTGACAT
Found at i:11182258 original size:2 final size:2
Alignment explanation
Indices: 11182251--11182277 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
11182241 AGTATGTGCA
11182251 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
11182278 AACAAGTTGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:11183478 original size:2 final size:2
Alignment explanation
Indices: 11183471--11183518 Score: 71
Period size: 2 Copynumber: 24.0 Consensus size: 2
11183461 GTTTGTGCAT
*
11183471 TA TA TA TA TA TA AA TA TA TA TA TA TA TA TCA T- TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA
11183513 TA TA TA
1 TA TA TA
11183519 AACAAGTTAG
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
1 1 0.02
2 39 0.93
3 2 0.05
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:11185503 original size:496 final size:497
Alignment explanation
Indices: 11183949--11186048 Score: 2244
Period size: 496 Copynumber: 4.2 Consensus size: 497
11183939 CACAAATTAC
* *** * *
11183949 ATCCAAGTATCAAGAGCATGT-CGCAAATTCCTTAGAGCATTTTTGAATTCTCCTAAAAATGCTT
1 ATCCAAGTATCAAGAGCAT-TCCACAAATTCCTTAGAGCATTCACGAATTCTACTAAAAATGCGT
* * *
11184013 CTAAGGC-AAAAAGTATGAAAAATT-AAAATGTGCGAATGGTTTTTATATGACAATTTGAAAGCT
65 CTAAAGCAAAAAAGTATGAAAAATTAAAAATATGCGAATGGTTTTTATATCACAATTTGAAAGCT
* * * * **
11184076 GTGGGAATGGTTTTTATCCCCAGAATTGTT-----ACAGATTTTGACATTTTATGCTAAAAAATC
130 GTGTGAATGGTTTTTATGCCCATAATTGTTCGAAAACAGATTTTGACATTTTAGGCTCCAAAATC
* * *
11184136 CTTCAAAAACAGCTTACACCTAATGCTGTGAAAAATTTAAACCAACACAAGTTATCATCATTCAA
195 CTTCAAAAACAGCTTACACCTAACGCTGTGAAAAATTAAAACCAACACAAGTTATCATCATTCTA
* * * * *** **
11184201 TATTTGAGCAAGTTTAAAACA-TCGATTCAACGATACTCAAATTCATTTTTGTTTCAATTCCTGC
260 TATTTGAGCAAGTTTAAAACATTGGATTCAATGATATTCAAATTCGTTTCCATTTCAAAACCTGC
* * * * *
11184265 TAAAACAGCATTTCACACTTTAAAGCTCAACTCTAGCAAAAATTGTTCTCAAAGCGAAACGTAGA
325 TAAAACAGCGTTTCACACTTTAAAGCTCAACTCTAGCAAAAATAGTTTTCAAAGCAAAACATAGA
11184330 AACTTCAAAAACATTAAGCTTTTGAGTTTGTGCAATATATATATATATATATATATGTTTATAAA
390 AACTTCAAAAACATTAAGCTTTTGAGTTTGTGCAATATATATATATATATA-A-A-G--------
* * * * *
11184395 CAAGTTAGCACACATAGTCGTTAATCACATCAGGCGCCAAAAACTATTTCAAAAATGAT
444 CAAGTTGGCACAC--A--C-TTAATCACATCAAGCGCCAATAACAATTTCATAAATGAT
* *
11184454 ATCCAAGTATCAAGAGCA-TCACACAAATTCCTTAGAGCATTAACGAATTCTCCTAAAAATGCGT
1 ATCCAAGTATCAAGAGCATTC-CACAAATTCCTTAGAGCATTCACGAATTCTACTAAAAATGCGT
* * *
11184518 CTAAAGCAAAAAAGTTTGAAAAATTAAAAATGTGCGAATGGTTTTTATATCCCAATTTGAAAGCT
65 CTAAAGCAAAAAAGTATGAAAAATTAAAAATATGCGAATGGTTTTTATATCACAATTTGAAAGCT
* * * * *
11184583 GTGTGAATGGTTTTTAAGCCCATAATTCTTCTAAAATAGATTTTGACGTTTTAGGCT-CAAAATC
130 GTGTGAATGGTTTTTATGCCCATAATTGTTCGAAAACAGATTTTGACATTTTAGGCTCCAAAATC
* ** ** *
11184647 CTTCAAAAACAGCTTACACCTAACGCTATGAAAAATTAAAAAAAAGGCAAGTTATCATCATTCTT
195 CTTCAAAAACAGCTTACACCTAACGCTGTGAAAAATTAAAACCAACACAAGTTATCATCATTCTA
* * *
11184712 TGTTTGAGCAAGTTTAAAACATT---TTCAATGATATTCAAATTTGCTTCCATTTCAAAACCTGC
260 TATTTGAGCAAGTTTAAAACATTGGATTCAATGATATTCAAATTCGTTTCCATTTCAAAACCTGC
* * * * *
11184774 TAAAATAGTGTCTCATC-CTTTAAAGTTCAACTCTAGTAAAAATCA-TTTTCAAAGCAAAACATA
325 TAAAACAGCGTTTCA-CACTTTAAAGCTCAACTCTAGCAAAAAT-AGTTTTCAAAGCAAAACATA
*
11184837 GAAACTTCAAAAACATTAAGCTTTTGAGTTTGTGCAAAATATATATATATATAAAG-AAGTTGGC
388 GAAACTTCAAAAACATTAAGCTTTTGAGTTTGTGCAATATATATATATATATAAAGCAAGTTGGC
* * * **
11184901 ACACATAGTAGTTAATCGCATCAAGTGCCAATAATGATTTCATAAATGAT
453 ACAC-----ACTTAATCACATCAAGCGCCAATAACAATTTCATAAATGAT
* * * *
11184951 TTCCAAGTAACAAGAGCATGCCACAAATTCCTTAGGGCATTCACGAATTCTACTAAAAATGCGTC
1 ATCCAAGTATCAAGAGCATTCCACAAATTCCTTAGAGCATTCACGAATTCTACTAAAAATGCGTC
*
11185016 TAAAGCAAAAAAGTATGAAAAGTTTAAAAATATGCGAATGGTTTTTATATCACAATTTGAAAGCT
66 TAAAGCAAAAAAGTATGAAAA-ATTAAAAATATGCGAATGGTTTTTATATCACAATTTGAAAGCT
* * * *
11185081 GTGTGATTGGCTTTTTATGTCCATAATTGTTCGAAAACAGATTTTCACATTTTAGGCGCCAAAAT
130 GTGTGAATGG-TTTTTATGCCCATAATTGTTCGAAAACAGATTTTGACATTTTAGGCTCCAAAAT
* * * * **
11185146 CCTTCAAAAACAGCTTACACCTAACTCTGTGAAAAATTTAAACCATCACAAGTTATTATTGTTCT
194 CCTTCAAAAACAGCTTACACCTAACGCTGTGAAAAATTAAAACCAACACAAGTTATCATCATTCT
* * *
11185211 ACATTTGAGCAAGTTTAAAACATTGGATTCAACT-ATATTCAAATTCGTTTCCATTGCAAAA-CA
259 ATATTTGAGCAAGTTTAAAACATTGGATTCAA-TGATATTCAAATTCGTTTCCATTTCAAAACCT
** ** *
11185274 GTCTAAAACAGCGTTTCACACTTTAAAAG-TTGACTCTAGCCGAAATAGTTTTCGAAGCAAAACA
323 G-CTAAAACAGCGTTTCACACTTT-AAAGCTCAACTCTAGCAAAAATAGTTTTCAAAGCAAAACA
* *
11185338 TAGAAACTTCAAAAACATT-AGCTTTTGAGTATGTGCAATATATATATATATA-AAAGCAAGTGG
386 TAGAAACTTCAAAAACATTAAGCTTTTGAGTTTGTGCAATATATATATATATATAAAGCAAGTTG
* *
11185401 GCACAC-CTTAATCACATCAAGCACCAATAACAATTTCATAAATCAT
451 GCACACACTTAATCACATCAAGCGCCAATAACAATTTCATAAATGAT
* * *
11185447 ATCCAAGTATGAAGAGCATTCCACAAATTCCTTAGAGCATTCACAAATTCTACTAAAAATGCATC
1 ATCCAAGTATCAAGAGCATTCCACAAATTCCTTAGAGCATTCACGAATTCTACTAAAAATGCGTC
* * *
11185512 TACAGCAAAAAAGTATGAAAAATTAAAAAAATGGCCAAATGGTTTTTATATCACAATTTGCAAA-
66 TAAAGCAAAAAAGTATGAAAAATTAAAAATAT-G-CGAATGGTTTTTATATCACAATTTG-AAAG
* * * *
11185576 CTGTGCGATTGGTTTTTATACCCATAATTGTTCGAAAACAGATTTTGACATTTTAGGCTCTAAAA
128 CTGTGTGAATGGTTTTTATGCCCATAATTGTTCGAAAACAGATTTTGACATTTTAGGCTCCAAAA
* * *
11185641 TCCTTCAAAAACAGCTAAAATCCT-ACGCTGTGAAAAATTAAAACCAACACAAGTTATCATCGTT
193 TCCTTCAAAAACAGCTTACA-CCTAACGCTGTGAAAAATTAAAACCAACACAAGTTATCATCATT
* * * * * *
11185705 ATTTGTTTGAG--TGTTTAAAACACTGGATTCAATGATATTTAAATTCGTTT-CAGTTTCAAAA-
257 CTATATTTGAGCAAGTTTAAAACATTGGATTCAATGATATTCAAATTCGTTTCCA-TTTCAAAAC
* * * * * *
11185766 CTCGGTAAAATAGTGTTTCAAACTTTAAAGCTCGACTCTAGCAAAAAAACGTTTTCAAAGCAAAA
321 CT-GCTAAAACAGCGTTTCACACTTTAAAGCTCAACTCTAGCAAAAATA-GTTTTCAAAGCAAAA
* * *
11185831 CGTAGAAACTTCAAAAACATTTAAGCTTATGAGTTTGTGTATTATATATATATATATATATATAT
384 CATAGAAACTTCAAAAACA-TTAAGCTTTTGAGTTTGTG-------------CA-ATATATATAT
* * * * * * *
11185896 ATATATATAAACAAGTTAGCACACACAATAGTTAATCACATCAAGCACCAAAAACGATTTTACAA
434 ATATATA-AAGCAAGTTGGCACACAC-----TTAATCACATCAAGCGCCAATAACAATTTCATAA
11185961 ATGAT
493 ATGAT
* * * * *
11185966 ATCCAAAGTATCAAGAGCATCCCACAAATTACTCAGAGCATTCATGAATTCTCCTGAAAAA-GCG
1 ATCC-AAGTATCAAGAGCATTCCACAAATTCCTTAGAGCATTCACGAATTCTACT-AAAAATGCG
11186030 TCTAAAGCAAAAAAGTATG
64 TCTAAAGCAAAAAAGTATG
11186049 TAACCTGTGT
Statistics
Matches: 1354, Mismatches: 178, Indels: 111
0.82 0.11 0.07
Matches are distributed among these distances:
493 7 0.01
494 74 0.05
495 42 0.03
496 222 0.16
497 172 0.13
498 53 0.04
499 39 0.03
500 83 0.06
501 4 0.00
502 46 0.03
503 93 0.07
504 5 0.00
505 62 0.05
506 17 0.01
507 63 0.05
508 1 0.00
509 131 0.10
510 2 0.00
511 97 0.07
512 21 0.02
513 13 0.01
514 1 0.00
519 38 0.03
520 63 0.05
521 5 0.00
ACGTcount: A:0.39, C:0.17, G:0.13, T:0.31
Consensus pattern (497 bp):
ATCCAAGTATCAAGAGCATTCCACAAATTCCTTAGAGCATTCACGAATTCTACTAAAAATGCGTC
TAAAGCAAAAAAGTATGAAAAATTAAAAATATGCGAATGGTTTTTATATCACAATTTGAAAGCTG
TGTGAATGGTTTTTATGCCCATAATTGTTCGAAAACAGATTTTGACATTTTAGGCTCCAAAATCC
TTCAAAAACAGCTTACACCTAACGCTGTGAAAAATTAAAACCAACACAAGTTATCATCATTCTAT
ATTTGAGCAAGTTTAAAACATTGGATTCAATGATATTCAAATTCGTTTCCATTTCAAAACCTGCT
AAAACAGCGTTTCACACTTTAAAGCTCAACTCTAGCAAAAATAGTTTTCAAAGCAAAACATAGAA
ACTTCAAAAACATTAAGCTTTTGAGTTTGTGCAATATATATATATATATAAAGCAAGTTGGCACA
CACTTAATCACATCAAGCGCCAATAACAATTTCATAAATGAT
Found at i:11185880 original size:2 final size:2
Alignment explanation
Indices: 11185873--11185904 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
11185863 GTTTGTGTAT
11185873 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
11185905 AACAAGTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:11186328 original size:2 final size:2
Alignment explanation
Indices: 11186321--11186349 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
11186311 TTTGTCATTA
11186321 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
11186350 AACCAGTTAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:11188161 original size:422 final size:418
Alignment explanation
Indices: 11187356--11188148 Score: 1119
Period size: 422 Copynumber: 1.9 Consensus size: 418
11187346 AGTTATCCTT
* * *
11187356 GTTCTTTGTTTGAGCACGTTTAAACATTAGATTCAACGATATTCAAATTCATTTCCGTTTCAAAA
1 GTTCTTTGTTTGAGCAAGTTTAAACATTAGATTCAACAATATTCAAATTCATTTCCATTTCAAAA
* * * *
11187421 CCTGCTAAAACAGTATTTCATAGTTTGAAGCTCGACCCTAGCAAAAATCATTTTTTCAAAGCAAA
66 CCTGCTAAAACAGCATTTCACACTTTAAAGCTCGACCCTAGCAAAAATCA-TTTTTCAAAGCAAA
11187486 ACATAGAAACTTCAAAAACATTAAGCTTTGGAGTTTGTGCATAATATATGAAAAACAAGTTAACA
130 ACATAGAAACTTCAAAAACATTAAGCTTTGGAGTTTGTGCATAATATATGAAAAACAAGTTAACA
* * * *
11187551 CACACAGGTAATCACATCAAGTGTCAATAACGATTTCACAAATGATATCTAAGTATCAAGAGCAT
195 CACACAGGTAATCACATCAAGCGCCAATAACGATTTCACAAATGATATCCAAGAATCAAGAGCAT
11187616 CACACAAATTCCTTAGAGCATTCACTAATTCTCCTAAAAATGAGCCTAAAACAAAAAAGTATGAA
260 CACACAAATTCCTTAGAGCATTCACTAATTCTCCTAAAAATGAGCCTAAAACAAAAAAGTATGAA
* * *
11187681 AAAGTAAAATCGTGCAAATGGTTTTAATATCACAATTTGAGAGCTGTCTGAATGGTTTTAATTGT
325 AAAGTAAAACCGTGCAAATGGTTTTAATATCACAAATTGAAAGCTGTCTGAATGGTTTTAATTGT
11187746 TTGAAAACCGATTTTGACATTTTATCATC
390 TTGAAAACCGATTTTGACATTTTATCATC
* *
11187775 GTTCTTTGTTTGAGCAAGTTTAAAACATTGGATTCAACAATATTCAAATTCCTTTCCATTTCAAA
1 GTTCTTTGTTTGAGCAAGTTT-AAACATTAGATTCAACAATATTCAAATTCATTTCCATTTCAAA
* *
11187840 ACCTGCTAAAACAGCATTTCACACTTTAAAGCTTGACTCC-AGCAAAAATCA-TTTTCAATGCAA
65 ACCTGCTAAAACAGCATTTCACACTTTAAAGCTCGAC-CCTAGCAAAAATCATTTTTCAAAGCAA
** *
11187903 AACATAGAAACTTTGAAAACATTAAGCTTTTGAGTTTGTGCATAAAGTATAT-AAAAACAAGTTA
129 AACATAGAAACTTCAAAAACATTAAGCTTTGGAGTTTGTGCAT-AA-TATATGAAAAACAAGTTA
* * * ** * *
11187967 GCACACATAGTACTTAATCACATTGAGCGCCAATAACGTTTTCACAAATGGTATCCAAGAATCAA
192 ACACACACAG---GTAATCACATCAAGCGCCAATAACGATTTCACAAATGATATCCAAGAATCAA
* * * * * * *
11188032 GAGCATCCCACAAATTCCTTAGTGCATTCA-TGAATTCTCCTGAAAATGCGTCTAAAGCAAAAAT
254 GAGCATCACACAAATTCCTTAGAGCATTCACT-AATTCTCCTAAAAATGAGCCTAAAACAAAAAA
* * *
11188096 GTATGAAAAATTAAAACCGTGCGAATGGATTTT-ATATTACAAATTGAAAGCTG
318 GTATGAAAAAGTAAAACCGTGCAAATGG-TTTTAATATCACAAATTGAAAGCTG
11188149 CGCAAATGGT
Statistics
Matches: 327, Mismatches: 38, Indels: 15
0.86 0.10 0.04
Matches are distributed among these distances:
418 51 0.16
419 42 0.13
420 87 0.27
421 3 0.01
422 140 0.43
423 4 0.01
ACGTcount: A:0.39, C:0.18, G:0.13, T:0.31
Consensus pattern (418 bp):
GTTCTTTGTTTGAGCAAGTTTAAACATTAGATTCAACAATATTCAAATTCATTTCCATTTCAAAA
CCTGCTAAAACAGCATTTCACACTTTAAAGCTCGACCCTAGCAAAAATCATTTTTCAAAGCAAAA
CATAGAAACTTCAAAAACATTAAGCTTTGGAGTTTGTGCATAATATATGAAAAACAAGTTAACAC
ACACAGGTAATCACATCAAGCGCCAATAACGATTTCACAAATGATATCCAAGAATCAAGAGCATC
ACACAAATTCCTTAGAGCATTCACTAATTCTCCTAAAAATGAGCCTAAAACAAAAAAGTATGAAA
AAGTAAAACCGTGCAAATGGTTTTAATATCACAAATTGAAAGCTGTCTGAATGGTTTTAATTGTT
TGAAAACCGATTTTGACATTTTATCATC
Found at i:11190522 original size:492 final size:490
Alignment explanation
Indices: 11188785--11190904 Score: 2154
Period size: 491 Copynumber: 4.4 Consensus size: 490
11188775 TCATTTCACA
* *** * * * * *
11188785 CTTTAAAGCTTGGCTCTTTTAAAAATCATTCTCAAAGCAAAACATAGAAACGTCAAAACCATTAA
1 CTTTAAAGCTTGACTCTAGCAAAAATCGTTTTAAAAGCAAAACATAGAAACTTCAAAAACATTAA
* * * *
11188850 ACTTTTGAGTTTGTGCATATTATATATAAAAACAAGTTAGCACACACAATAGTTAATGACATCAA
66 GCTTTCGAGTTTGTGCATAATATATATAAAAACAAGTTAGCACACAC-A-AGTTAATCACATCAA
* * * *
11188915 GCACCAATGATGATTTCC---T-ATATCCAAGTATCAAGAGCAT-GACACAAATTCCTTAGAACA
129 GCACCAATAACGATTTCCAAATGATATCCAAGTATCAAGAGCATCCA-ACAAATTCCTTAGAGCA
* * * ** * * *
11188975 TTCACGAAATCTCCTAAAAATGTGTCTAAAGCAAAATGCGTGAAAAGTTAAAACCGTGAAAATGG
193 TTCACGAATTCTCCTAAAAATGCGTCTAAAGGAAAATGTATGAAAAATTAAAACCATGCAAATGG
* * * * *** * *
11189040 CTTTTATAACATAATTTGAAAGCTGTGCGAATGGTTTTTATATACAGAATTGTTTGAAAACACAT
258 TTTTTATATCACAATTTGAAAGCTGTACGAATGGTTTTTATGCCCAGAATTGTTTGAAAATAGAT
*
11189105 TTTAACATTTTAGGCTCCAAAATCCTTCAAAAACAGCTTACACCTAACGCTGTTAAAAATTAAAA
323 TTTAACATTTTAGGCTCCAAAATCCTTCAAAAACAGCTTACACCTAACGCTGTAAAAAATTAAAA
* * *
11189170 CAAACGCAAGTTATCGCCGTTCTTTGTCTAAGCAAATTTAAAACATTGGATTCGATGATATTCAA
388 C-AACGCAAGTTATCGCCGTTCTTTGTTTGAGCAAATTTAAAACATTGGATTCAATGATATTCAA
* * * * **
11189235 TTTCGTTTTCATTTCGAAACCTGCTAACACAGTGTTTCACA
452 ATTAGTTTT-ATTTCAAAACCTGCTAA-ACAGTGTTTTATG
* * ** * * *
11189276 CTTTAAAGCTTTACTTTAGCAAAAATTATTTTCAAAGCAAAACATAGAAACTTCAAAACCGTTAA
1 CTTTAAAGCTTGACTCTAGCAAAAATCGTTTTAAAAGCAAAACATAGAAACTTCAAAAACATTAA
* * *
11189341 GCTTTTGAGTTTGTGCATAATATATATAAAAACAAGTTAGCACACACAGTAGTTAATGAAATCAA
66 GCTTTCGAGTTTGTGCATAATATATATAAAAACAAGTTAGCACACACA--AGTTAATCACATCAA
* * * * *
11189406 GCACCAATGACGATCTCCTAAATGATATCCTAGTATCAAGAGCATCCCACAAATTCCTTATAGCA
129 GCACCAATAACGATTTCC-AAATGATATCCAAGTATCAAGAGCATCCAACAAATTCCTTAGAGCA
* * * * *
11189471 TTCATGAATTCTCTTACAAATGCGCCTGAAGGAAAATGTATGAAAAATTAAAACCATGCAAATGG
193 TTCACGAATTCTCCTAAAAATGCGTCTAAAGGAAAATGTATGAAAAATTAAAACCATGCAAATGG
* * *
11189536 TTTTTATATCACAATTTGAAGGCTGTGCGAATGGTTTTTATGCCCATAATTGTTTGAAAATAGAT
258 TTTTTATATCACAATTTGAAAGCTGTACGAATGGTTTTTATGCCCAGAATTGTTTGAAAATAGAT
* * *
11189601 TTTGAA-ATTTTAGGCTCCCAAATCCTT---AAACAGCTTACACCTAACGCTATGAAAAATTAAA
323 TTT-AACATTTTAGGCTCCAAAATCCTTCAAAAACAGCTTACACCTAACGCTGTAAAAAATTAAA
* * * * ** * *
11189662 ACCAATGCAAGTTATCACCGTTCTTTGATTGAGTAGGTTTAAAACATTGGATTGAACGATATTCA
387 A-CAACGCAAGTTATCGCCGTTCTTTGTTTGAGCAAATTTAAAACATTGGATTCAATGATATTCA
** * *
11189727 AATTTTTTTGTGTTTCAAAACCTGTTAAAACAGTGTTTCT-TG
451 AATTAGTTT-TATTTCAAAACCTGCT-AAACAGTGTTT-TATG
* *
11189769 CTTTAAAGCTCGACTCTAGCAAAAATCGTTTTAAAAGCAAAAGATAGAAACTTCAAAAAC---AA
1 CTTTAAAGCTTGACTCTAGCAAAAATCGTTTTAAAAGCAAAACATAGAAACTTCAAAAACATTAA
* * *
11189831 GCTTTCGAGTTTGTGCATAATATATAAAAAAACAAGTTAGCACACAC-AGTTAATCACATCATGG
66 GCTTTCGAGTTTGTGCATAATATATATAAAAACAAGTTAGCACACACAAGTTAATCACATCAAGC
* * * *
11189895 GCCAATAACGATTTTACAAATGATATCCAAGTATCAAGAGCATCCCACAAATTCATTAGAGCATT
131 ACCAATAACGA-TTTCCAAATGATATCCAAGTATCAAGAGCATCCAACAAATTCCTTAGAGCATT
* * * * *
11189960 CACGAATTCT-CTCAAAAATGCATCTAAAGAAAAAATGTATGAAAAATTAAAACCATTCGAATTG
195 CACGAATTCTCCT-AAAAATGCGTCTAAAG-GAAAATGTATGAAAAATTAAAACCATGCAAATGG
* *
11190024 TTTTTATATCACAATTTCAAAGCTGTACGAATGATTTTTATGCCCAGAATTGTTTGAAAATAGAT
258 TTTTTATATCACAATTTGAAAGCTGTACGAATGGTTTTTATGCCCAGAATTGTTTGAAAATAGAT
* * *
11190089 TTTAACATTTTAGGCTCCAAAATCGTTCAAAAATAGCTTACACCTAATGCTGTAAAAAATTAAAA
323 TTTAACATTTTAGGCTCCAAAATCCTTCAAAAACAGCTTACACCTAACGCTGTAAAAAATTAAAA
* * *
11190154 TCAACGCAAGTTATCGTCATTTTTTGTTTGAGCAAATTTAAAACATTGGATTCAATGATATTCAA
388 -CAACGCAAGTTATCGCCGTTCTTTGTTTGAGCAAATTTAAAACATTGGATTCAATGATATTCAA
*
11190219 ATTAGTTTCTATTTCAAAACCTGCTGAAATAGTGTTTTATG
452 ATTAGTTT-TATTTCAAAACCTGCT-AAACAGTGTTTTATG
* *
11190260 CTTTAAAGCTTGACTCTAGCAAAAATCGCTTT-AAAGCAAAAGATAGAAACTTCAAAAACATTAA
1 CTTTAAAGCTTGACTCTAGCAAAAATCGTTTTAAAAGCAAAACATAGAAACTTCAAAAACATTAA
* *
11190324 GCTTTCCAGTTTGTGCATAATATATA-AAAAAGAAGTTAGCACACAC-AGTTAATCACATCAAGC
66 GCTTTCGAGTTTGTGCATAATATATATAAAAACAAGTTAGCACACACAAGTTAATCACATCAAGC
* * * * *
11190387 ACCAATAACAATTTCACAAATGATATCCGAGTATCAAGAGAATCCAAAAAATTCCTTAGACCATT
131 ACCAATAACGATTTC-CAAATGATATCCAAGTATCAAGAGCATCCAACAAATTCCTTAGAGCATT
* * * * *
11190452 TACGAATTCTCCTAAAAATGCGTCTAAAGTGAAAAGGTATGAAAAATTAAAACCGTGCGAATGAT
195 CACGAATTCTCCTAAAAATGCGTCTAAAG-GAAAATGTATGAAAAATTAAAACCATGCAAATGGT
* *
11190517 TTTTATACCACAATTTGAAAGCTGTAGGAATGGTTTTTATG--C---------------------
259 TTTTATATCACAATTTGAAAGCTGTACGAATGGTTTTTATGCCCAGAATTGTTTGAAAATAGATT
* **
11190559 ---ACATTTTAGGCCCCAAAATCCTTCAAAAACAGCTTACACCTAACGCTACAAAAAATTAAAAC
324 TTAACATTTTAGGCTCCAAAATCCTTCAAAAACAGCTTACACCTAACGCTGTAAAAAATTAAAA-
* * * * * * *
11190621 CAACGCAAGTTATAC-TCGTTCTTTGTTTAAGCAAGTTTCAAACATTAGATTCAATTATATTTAA
388 CAACGCAAGTTAT-CGCCGTTCTTTGTTTGAGCAAATTTAAAACATTGGATTCAATGATATTCAA
* * ** * * * *
11190685 GTTGGTTTCCCTTTCAAAACCTGCTCTAACAGTATTTCATA
452 ATTAGTTT-TATTTCAAAACCTGCT-AAACAGTGTTTTATG
* *
11190726 CTTT--A-----A----AGC-----TC------AAAGCAAAACAGAGAAACTTAAAAAACATTAA
1 CTTTAAAGCTTGACTCTAGCAAAAATCGTTTTAAAAGCAAAACATAGAAACTTCAAAAACATTAA
* * *
11190769 GCTTTCGAGTTTGTGCATAATACATA-AAAAA-AAGTTAG--CACA-GAGTTAATCACATCAAGT
66 GCTTTCGAGTTTGTGCATAATATATATAAAAACAAGTTAGCACACACAAGTTAATCACATCAAGC
* *
11190829 GCCAATAACGATTTCAAAAATGATATCCAAGTATCAAGAGCAT-CACACAAATTCCTTAGAGCAT
131 ACCAATAACGATTTC-CAAATGATATCCAAGTATCAAGAGCATCCA-ACAAATTCCTTAGAGCAT
*
11190893 TCACTAATTCTC
194 TCACGAATTCTC
11190905 TTCAAAATCA
Statistics
Matches: 1406, Mismatches: 195, Indels: 105
0.82 0.11 0.06
Matches are distributed among these distances:
441 2 0.00
442 84 0.06
444 7 0.00
445 58 0.04
450 2 0.00
455 3 0.00
459 1 0.00
464 1 0.00
466 144 0.10
467 1 0.00
486 1 0.00
487 90 0.06
488 115 0.08
490 77 0.05
491 280 0.20
492 176 0.13
493 192 0.14
494 4 0.00
495 1 0.00
496 165 0.12
497 2 0.00
ACGTcount: A:0.39, C:0.18, G:0.13, T:0.30
Consensus pattern (490 bp):
CTTTAAAGCTTGACTCTAGCAAAAATCGTTTTAAAAGCAAAACATAGAAACTTCAAAAACATTAA
GCTTTCGAGTTTGTGCATAATATATATAAAAACAAGTTAGCACACACAAGTTAATCACATCAAGC
ACCAATAACGATTTCCAAATGATATCCAAGTATCAAGAGCATCCAACAAATTCCTTAGAGCATTC
ACGAATTCTCCTAAAAATGCGTCTAAAGGAAAATGTATGAAAAATTAAAACCATGCAAATGGTTT
TTATATCACAATTTGAAAGCTGTACGAATGGTTTTTATGCCCAGAATTGTTTGAAAATAGATTTT
AACATTTTAGGCTCCAAAATCCTTCAAAAACAGCTTACACCTAACGCTGTAAAAAATTAAAACAA
CGCAAGTTATCGCCGTTCTTTGTTTGAGCAAATTTAAAACATTGGATTCAATGATATTCAAATTA
GTTTTATTTCAAAACCTGCTAAACAGTGTTTTATG
Found at i:11195937 original size:21 final size:21
Alignment explanation
Indices: 11195911--11195951 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
11195901 TGATATCCAA
11195911 AGCATTCCACAAATT-TCTTAG
1 AGCATT-CACAAATTCTCTTAG
*
11195932 AGCATTCACGAATTCTCTTA
1 AGCATTCACAAATTCTCTTA
11195952 AAAATACGTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.32, C:0.24, G:0.10, T:0.34
Consensus pattern (21 bp):
AGCATTCACAAATTCTCTTAG
Found at i:11196755 original size:488 final size:489
Alignment explanation
Indices: 11195829--11197376 Score: 1983
Period size: 488 Copynumber: 3.2 Consensus size: 489
11195819 CAAAAACAGC
* *
11195829 TTGTGCATATTATAT-AAAAACAAGTTAGCATACACAGTTAATCACACCAAGCGCCAATAACGAC
1 TTGTGCATATTATATAAAAAACAAGTTAGCACACACAGTTAATCACACCAAGCGCCAATAACGAT
* * * *
11195893 TTCACAAATGATATCCAA--AGCATTCCACAAATTTCTTAGAGCATTCACGAATTCTCTTAAAAA
66 TTCACAAATGATATCCAAGTAGCATCCCACAAATTTCTTAGAGCAATCACAAATTCTCCTAAAAA
* * * * *
11195956 TACGTCTAAAGCATAAAGTATGAAAAATTAAAACTGTGTGAGTGGTTTTTATATCACAATTTCAA
131 TACGTCTAAAGCATAAAGTATGAAAAAATAAAACTATGCGAATGGTTTTTATATCACAATTTGAA
* * *
11196021 ATCTGTGCGAATGGTTTTTATGCCTATAATCGTTCGAAAACAGATTTTGGCATTTTAGGCTCCAA
196 ATCTGTGCAAATGGTTTTTATG-CTATAATTGTTCGAAAACAGATTTTGACATTTTAGGCTCCAA
* * * * *
11196086 AATCATTCGAAAAAGAGCTTACACCTAACGCTATGAAAGAAAAAA-AAAAACCAACGCAAGTTAT
260 AATCCTTC-AAAAACAGCTTACACCTAATGCTATGAAA-AAAAAATTAAAACCAATGCAAGTTAT
* * * * * ** * *
11196150 CGTTGCTCTTCGTTTGAGCAAGTTT-AAGCATTGGATTCAACGATATTCAAATTCATTTTTGTTT
323 CGTTGATCTTTGTTTGAGCAAGTTTAAAACATTGGATTCAATGATATTTAAATTTGTTTCTATTT
** * * *
11196214 CAAAAGTTGCTAAAACAGTATTTCATAGTTTAAAGCTTGACCCTGGCAAAAATCGTTTTTAAAGC
388 CAAAACCTGCTAAAACAGTATTTCATAGTTTAAAGCTTGACTCTGGAAAAAATCGTTTTCAAAGC
11196279 AAAACATAGAAACTTCAAAAACATTAAGCTTTTGAGT
453 AAAACATAGAAACTTCAAAAACATTAAGCTTTTGAGT
* * *
11196316 TTGTGTATATTATAT-AAAAACAAGTTAGCATACATAGTTAATCACACCAAGCGCCAATAACGAT
1 TTGTGCATATTATATAAAAAACAAGTTAGCACACACAGTTAATCACACCAAGCGCCAATAACGAT
* * * * * * *
11196380 TTCAGAAAT-AAATCCAAGTAGCCTCCCACAAATTTCTTAGAACACTCACAAATTTTCGTAAAAA
66 TTCACAAATGATATCCAAGTAGCATCCCACAAATTTCTTAGAGCAATCACAAATTCTCCTAAAAA
*
11196444 TATGTCTAAAGCATAAAGTATGAAAAAATAAAACTATGCGAATGGTTTTTATATCACAATTTGAA
131 TACGTCTAAAGCATAAAGTATGAAAAAATAAAACTATGCGAATGGTTTTTATATCACAATTTGAA
* * ** * *
11196509 ATTTGTGCTAATGGTTTTTACACATATAATTGTTCGAAAACAGATTTTGATAGTTTAGGCTCCAA
196 ATCTGTGCAAATGGTTTTTATGC-TATAATTGTTCGAAAACAGATTTTGACATTTTAGGCTCCAA
* *
11196574 ACTCCTTCAAAAACAGCATACACCTAATGCTATGAAAAAAAAATTAAAACCAATGCAAGTTATCG
260 AATCCTTCAAAAACAGCTTACACCTAATGCTATGAAAAAAAAATTAAAACCAATGCAAGTTATCG
* * *
11196639 TTGATGTTTGTTTGAGCGAGTTTAAAACATTGGATTCAATGATATTTGAATTTGTTTCTATTTCA
325 TTGATCTTTGTTTGAGCAAGTTTAAAACATTGGATTCAATGATATTTAAATTTGTTTCTATTTCA
* * * * *
11196704 AAACCTGCTAAAATAGTATTTCATAGTTTAAAGCTAGACTTTGGGAAAAATCGTTTTCAAAGGAA
390 AAACCTGCTAAAACAGTATTTCATAGTTTAAAGCTTGACTCTGGAAAAAATCGTTTTCAAAGCAA
* *
11196769 AACATAGAAACTTCAAAAACATTCAGCTTTCGAGT
455 AACATAGAAACTTCAAAAACATTAAGCTTTTGAGT
* * * * * *
11196804 ATGTGCATAATACATAAAAAACAAGTTAGTACACACAGTTAATCACATCAAGCCCCAATAACGAT
1 TTGTGCATATTATATAAAAAACAAGTTAGCACACACAGTTAATCACACCAAGCGCCAATAACGAT
* * * *
11196869 TTCACAAATGATATTCAAGTATCAATATCCCACAAATTCCTTAGAGCAATCACAAATTCTCCTAG
66 TTCACAAATGATATCCAAGTAGC---ATCCCACAAATTTCTTAGAGCAATCACAAATTCTCCTAA
* * * * * *
11196934 AAATGCATCTAAAGCAAAAAAGTATGAAAAAGTAAAACCATGC-AAGTGGTTTTTACATCACAAT
128 AAATACGTCTAAAGC-ATAAAGTATGAAAAAATAAAACTATGCGAA-TGGTTTTTATATCACAAT
* * * *
11196998 TTGAAAGCTATGCAAATGGTTTTTATGCCATAATTGTTCAAAAACAGATTTTGACATTTTAGGCT
191 TTGAAATCTGTGCAAATGGTTTTTATGCTATAATTGTTCGAAAACAGATTTTGACATTTTAGGCT
*
11197063 CCAAAATCCTTCAAAAATAGCTTACACCTAATGCTATG----AAAAATTAAAACCAATGCAAGTT
256 CCAAAATCCTTCAAAAACAGCTTACACCTAATGCTATGAAAAAAAAATTAAAACCAATGCAAGTT
* * * * * *
11197124 ATCGTCGTTCTTTATTTGAGCAAGTTTAAAACATTGGATTGAATGAT-TTTCAAATTTGCTTCCA
321 ATCGTTGATCTTTGTTTGAGCAAGTTTAAAACATTGGATTCAATGATATTT-AAATTTGTTTCTA
* * *
11197188 TTTCAAAACCTGTTAAAACAGTATTTCATAGTTTAAAGCTTGACTCTAGAAAAAATCATTTTCAA
385 TTTCAAAACCTGCTAAAACAGTATTTCATAGTTTAAAGCTTGACTCTGGAAAAAATCGTTTTCAA
*
11197253 AGCAAAACATAGAAACTTCAAAAACTTTAAGCTTTCAT-A-T
450 AGCAAAACATAGAAACTTCAAAAACATTAAGCTTT--TGAGT
* * *
11197293 TTGTGCATAATATATATATAAAAAAAAAGTTAGCACACACAGTTAATCACATCAAGCACCAATAA
1 TTGTGC---ATAT-TATATAAAAAACAAGTTAGCACACACAGTTAATCACACCAAGCGCCAATAA
11197358 CGATTTCACAAATGATATC
62 CGATTTCACAAATGATATC
11197377 TAACTATCAA
Statistics
Matches: 919, Mismatches: 123, Indels: 32
0.86 0.11 0.03
Matches are distributed among these distances:
486 13 0.01
487 134 0.15
488 294 0.32
489 222 0.24
490 11 0.01
492 3 0.00
493 179 0.19
494 63 0.07
ACGTcount: A:0.40, C:0.17, G:0.13, T:0.31
Consensus pattern (489 bp):
TTGTGCATATTATATAAAAAACAAGTTAGCACACACAGTTAATCACACCAAGCGCCAATAACGAT
TTCACAAATGATATCCAAGTAGCATCCCACAAATTTCTTAGAGCAATCACAAATTCTCCTAAAAA
TACGTCTAAAGCATAAAGTATGAAAAAATAAAACTATGCGAATGGTTTTTATATCACAATTTGAA
ATCTGTGCAAATGGTTTTTATGCTATAATTGTTCGAAAACAGATTTTGACATTTTAGGCTCCAAA
ATCCTTCAAAAACAGCTTACACCTAATGCTATGAAAAAAAAATTAAAACCAATGCAAGTTATCGT
TGATCTTTGTTTGAGCAAGTTTAAAACATTGGATTCAATGATATTTAAATTTGTTTCTATTTCAA
AACCTGCTAAAACAGTATTTCATAGTTTAAAGCTTGACTCTGGAAAAAATCGTTTTCAAAGCAAA
ACATAGAAACTTCAAAAACATTAAGCTTTTGAGT
Found at i:11198946 original size:498 final size:494
Alignment explanation
Indices: 11197408--11199120 Score: 1924
Period size: 498 Copynumber: 3.4 Consensus size: 494
11197398 AATTTCTTAG
* * ** *
11197408 AGCAAAAAA-TATAAAAAATTAAAACCGTGAGAATAAATTTTATATCACAATTTGAAAGTTGTGC
1 AGCAAAAAAGTATGAAAAATTAAAACCGTGCGAATAGTTTTTATATCACAATTTGAAAGCTGTGC
** * * *
11197472 GAATGGTTTTTATGCCCATAATAATCCAAAAACATATTTTGACATTTTAGGC-ACCAAAATCCTT
66 GAATGGTTTTTATGCCCATAATTGTTCGAAAACAGATTTTGACATTTTAGGCTA-CAAAATCCTT
** * * * * *
11197536 CAAAATTAGCTTACACCTAATGCTATGAAAAGTTAAAACAAATGCAAGTTATTGTCGTTCTTTGT
130 CAAAAACAGCTCACACCTAATGCTATGAAAAATTAAAACCAACGCAAGTTATCGTCGTTCTTTGT
* * * * * ** * *
11197601 TTGAGCAAGTTTAAAACTTTGTATTCAATGATATGCAAATTTTTTTTTGTTTTGAAAACATGCTA
195 TTGAGCAAGTTTAAAACATTGGATTCAACGATATTCAAA-TTTATTTTCATTTCAAAACCTGCTA
* * * * * ** *
11197666 AAACAGTATTTCATAGTTTAAAGCTCGACCCCAGAAAAAATTATTTTTAAAGCAAAACATAGAAA
259 AAACAGTATTTCATACTTTAAAGCTCAACTCTAGCAAAAATCGTTTTCAAAGCAAAACATAGAAA
* * * * * *
11197731 CTTTAAAAACTTTAAGCTTTCATGTTAGTGCATATAATATATATATATAAAAAAAAGTTAGCACA
324 CTTAAAAAAC-TAAAGCTTTTAAGTTTGTGC--ATAATATATATA-AAAAAAAAAAGTTAG--CA
* * *
11197796 CATAGTTAATCACATCAAGCACCAATAGCGATTTCACAAATGATATCTAACTATCAAGAGCATCC
383 CATAGTTAATCACATCAAGCACCAATAACGATTTCACAAATGATATCCAAGTATCAAGAGCATCC
* * *
11197861 CACAAATTACTTAGAGCATTCACGAATTCTCTTAAAAAT-AAGTCTAA
448 CACAAATTACTTAGGGCATTCACGAATTCTCCTAAAATTGAA-TCTAA
* *
11197908 AG-AAAAAAATATGAAAAATTAAAACCGTGCGAATAGTTTTCATATCACAATTTGAAAGCTGTGC
1 AGCAAAAAAGTATGAAAAATTAAAACCGTGCGAATAGTTTTTATATCACAATTTGAAAGCTGTGC
** * * * * * * *
11197972 GGTTGGTTTTTATGCCTATAGTTGCTCGAAAATAGA-TTTGACATTTTAGACTCCAAAATCCATC
66 GAATGGTTTTTATGCCCATAATTGTTCGAAAACAGATTTTGACATTTTAGGCTACAAAATCCTTC
* * * * * * *
11198036 AAAAACAGCTCACACTTAACGCTGTGAAAAATTAAAACCAACGTAAGTTATCCTCGTTCTCTATT
131 AAAAACAGCTCACACCTAATGCTATGAAAAATTAAAACCAACGCAAGTTATCGTCGTTCTTTGTT
* * * * *
11198101 TGAGCAAATTCAAAACATTGGTTTCAGCGATATTCAAATTTATTTTCATTTCAAAACCTGATAAA
196 TGAGCAAGTTTAAAACATTGGATTCAACGATATTCAAATTTATTTTCATTTCAAAACCTGCTAAA
* * * * * * * * *
11198166 ATACTGTTTCGTACTTTACAGCTCTACTCTAGCAAAAACCCGTTTTCAAAGCGAAACGTAGAAAC
261 ACAGTATTTCATACTTTAAAGCTCAACTCTAGCAAAAA-TCGTTTTCAAAGCAAAACATAGAAAC
* * * * *
11198231 TTCAAAAACATTAAA-CATTTGAGTTTGTGC---ATA-ATAT-AAAAAAATAAGTTAGCACACAG
325 TT-AAAAA-ACTAAAGCTTTTAAGTTTGTGCATAATATATATAAAAAAAAAAAGTTAGCACATAG
* * *
11198290 TAAATCACATCAAGCTCCAATAACAATTTCACAAATGATATCCAAGTATCAAGAGCATCCCACAA
388 TTAATCACATCAAGCACCAATAACGATTTCACAAATGATATCCAAGTATCAAGAGCATCCCACAA
* * *
11198355 ATTCCTTAGGGCATTCATGAATTCTCCTAAAATTGCATCTAA
453 ATTACTTAGGGCATTCACGAATTCTCCTAAAATTGAATCTAA
* * * *
11198397 AGCAAAAAAGTATGAAATATAAAAACCGTGCGAATGGCTTTTATATCACAATTTGAAAGCTGTGC
1 AGCAAAAAAGTATGAAAAATTAAAACCGTGCGAATAGTTTTTATATCACAATTTGAAAGCTGTGC
* * *
11198462 GAATGTTTTTTATGCCCATACTTGTTTGAAAACAGATTTTGACATTTTAGGCTACAAAATCCTTC
66 GAATGGTTTTTATGCCCATAATTGTTCGAAAACAGATTTTGACATTTTAGGCTACAAAATCCTTC
* * * *
11198527 GAAAACAGCTCGCACCTAATGTTATGAAAAATTAAAACCAACGCAAGTTATCATCGTTCTTTGTT
131 AAAAACAGCTCACACCTAATGCTATGAAAAATTAAAACCAACGCAAGTTATCGTCGTTCTTTGTT
* * * *
11198592 TGAGCAAGTTTAAAACATTGGATCCAACAATATTCAAATTCATTTCCATTTCAAAACCTGCTAAA
196 TGAGCAAGTTTAAAACATTGGATTCAACGATATTCAAATTTATTTTCATTTCAAAACCTGCTAAA
* *
11198657 ACAGTATTTCATATTTTTTAAAGCTCAACTCTAGCAGAAATCGTTTTCAAAGCAAAACATAGAAA
261 ACAGTATTTCATA--CTTTAAAGCTCAACTCTAGCAAAAATCGTTTTCAAAGCAAAACATAGAAA
*
11198722 CTTAAAAAACTAAAGCTTTTAAGTTTGTGCATAATATATATAAAAAAAAACAAGTTAGCATCGTA
324 CTTAAAAAACTAAAGCTTTTAAGTTTGTGCATAATATATATAAAAAAAAA-AAGTTAGCA-CATA
** * **
11198787 GTTAATCACGCCAAGCACCAAAAACGATTTCACAAATGATATCCAAGTATCAAGAGCAAACCACA
387 GTTAATCACATCAAGCACCAATAACGATTTCACAAATGATATCCAAGTATCAAGAGCATCCCACA
* *
11198852 AATTTCTTAGGGCATTCACGAATTCTCCTAAAATTGGATCTAA
452 AATTACTTAGGGCATTCACGAATTCTCCTAAAATTGAATCTAA
* * * * *
11198895 AGCAAAAAAGTACGAAATATTAAAACCGTGCGAATGGTTTTTATATCACAATTTTAAAGCTAT-C
1 AGCAAAAAAGTATGAAAAATTAAAACCGTGCGAATAGTTTTTATATCACAATTTGAAAGCTGTGC
* * * * * * * *
11198959 TGAATGATCTTTGTGCCCATAATTGTTTGAAAACCGATTTTGATATTTTAGGCTGCAAAATCTTT
66 -GAATGGTTTTTATGCCCATAATTGTTCGAAAACAGATTTTGACATTTTAGGCTACAAAATCCTT
* ** *
11199024 CAAAAACAGCTTC-CACCTATCATGGTAAAAAAAAAAATTAAAACCAACGCAAGTTATCGTTGTT
130 CAAAAACAGC-TCACACCTA--ATGCT---ATGAAAAATTAAAACCAACGCAAGTTATCGTCGTT
* *
11199088 ATTT-TTTGAGAAAGTTTAAAACATTGGATTCAA
189 CTTTGTTTGAGCAAGTTTAAAACATTGGATTCAA
11199121 TCACACCAAG
Statistics
Matches: 1015, Mismatches: 173, Indels: 48
0.82 0.14 0.04
Matches are distributed among these distances:
489 101 0.10
490 90 0.09
491 176 0.17
492 25 0.02
493 25 0.02
494 6 0.01
495 4 0.00
496 7 0.01
497 10 0.01
498 277 0.27
499 145 0.14
500 87 0.09
501 1 0.00
502 27 0.03
503 34 0.03
ACGTcount: A:0.40, C:0.17, G:0.12, T:0.31
Consensus pattern (494 bp):
AGCAAAAAAGTATGAAAAATTAAAACCGTGCGAATAGTTTTTATATCACAATTTGAAAGCTGTGC
GAATGGTTTTTATGCCCATAATTGTTCGAAAACAGATTTTGACATTTTAGGCTACAAAATCCTTC
AAAAACAGCTCACACCTAATGCTATGAAAAATTAAAACCAACGCAAGTTATCGTCGTTCTTTGTT
TGAGCAAGTTTAAAACATTGGATTCAACGATATTCAAATTTATTTTCATTTCAAAACCTGCTAAA
ACAGTATTTCATACTTTAAAGCTCAACTCTAGCAAAAATCGTTTTCAAAGCAAAACATAGAAACT
TAAAAAACTAAAGCTTTTAAGTTTGTGCATAATATATATAAAAAAAAAAAGTTAGCACATAGTTA
ATCACATCAAGCACCAATAACGATTTCACAAATGATATCCAAGTATCAAGAGCATCCCACAAATT
ACTTAGGGCATTCACGAATTCTCCTAAAATTGAATCTAA
Found at i:11199530 original size:738 final size:735
Alignment explanation
Indices: 11198430--11199756 Score: 1824
Period size: 738 Copynumber: 1.8 Consensus size: 735
11198420 AACCGTGCGA
* **
11198430 ATGGCTTTTATATCACAATTTGAAAGCTGTGCGAATGTTTTTTATGCCCATACTTGTTTGAAAAC
1 ATGGCTTTTATATCACAATTTGAAAGCTGTGCGAATGTTTTTTATGCCCATAATTGTCCGAAAAC
* * * **
11198495 AGATTTTGACATTTTAGGCTACAAAATCCTTCGAAAACAGCTCGCACCTAATGTTATGAAAAATT
66 AGATTTTGACATTTTAGGCAACAAAATCCCTCGAAAACAGCTCGCAACTAATGCAATGAAAAATT
* * * * *
11198560 AAAACCAACGCAAGTTATCATCGTTCTTTGTTTGAGCAAGTTTAAAACATTGGATCCAACAATAT
131 AAAACCAACGCAAGATAGCATCATTCTTTGTTTGAACAAGTTTAAAACATTAGATCCAACAATAT
* * *
11198625 TCAAATTCATTTCCATTTCAAAACCTGCTAAAACAGTATTTCATATTTTTTAAAGCTCAACTCTA
196 TCAAATTCACTTCCATTTCAAAACCTGCTAAAACAGTATTTCATA-TCTTTAAAACTCAACTCTA
* *
11198690 GCAGAAATCGTTTTCAAAGCAAAACATAGAAACTTAAAAAACTAAAGCTTTTAAGTTTGTGCATA
260 GCAAAAATCGTTTTCAAAGCAAAACATAAAAACTTAAAAAACTAAAGCTTTTAAGTTTGTGCATA
** *
11198755 ATATATATAAAAAAAAACAAGTTAGCATCGTAGTTAATCACGCCAAGCACCAAAAACGATTTCAC
325 ATATATATAAAAAAAAACAAGTTAGCATCACAGTTAATCACACCAAGCACCAAAAACGATTTCAC
* * *
11198820 AAATGATATCCAAGTATCAAGAGCAAACCACAAATTTCTTAGGGCATTCACGAATTCTC-CTAAA
390 AAATGATATCCAAATATCAAGAGCAAACCACAAATTCCTTAGAGCATTCACGAATTCTCTCTAAA
** * *
11198884 ATTGGATCTAAAGCAAAAAAGTACGAAATATTAAAACCGTGCGAATGGTTTTTATATCACAATTT
455 ATACG-TCTAAA-C-AAAAAGTACGAAAAATTAAAACCGTACGAATGGTTTTTATATCACAATTT
* * * * * *
11198949 TAAAGCTAT-CTGAATGATCTTTGTGCCCATAATTGTTTGAAAACCGATTTTGATATTTTAGGCT
517 GAAAGCTATGC-GAATGATCTTTATGCCCATAATTGTTCGAAAACAGATTTTGACAATTTAGGCT
*
11199013 GCAAAATCTTTCAAAAACAGCTTCCACCTATCATGGTAAAAAAAAAAATTAAAACCAACGCAAGT
581 CCAAAATCTTTCAAAAACAGCTTCCACCTATCATGGTAAAAAAAAAAATTAAAACCAACGCAAGT
11199078 TATCGTTGTTATTTTTTGAGAAAGTTTAAAACATTGGATTCAATCACACCAAGCACCAATAACGA
646 TATCGTTGTTATTTTTTGAGAAAGTTTAAAACATTGGATTCAATCACACCAAGCACCAATAACGA
11199143 TTTCACAAATGATATCCAAGTGTGC
711 TTTCACAAATGATATCCAAGTGTGC
* *
11199168 ATGGTTTTTATATCACAATTTGAAAGCTGTGCGATTGTTTTTTATGCCCATAATTGTCCGAAAAC
1 ATGGCTTTTATATCACAATTTGAAAGCTGTGCGAATGTTTTTTATGCCCATAATTGTCCGAAAAC
*
11199233 AGATTTTGACATTTTAGGCAACAAAATCCCT-GAAAAACAGCTTGCAACTAATGCAATGAAAAAT
66 AGATTTTGACATTTTAGGCAACAAAATCCCTCG-AAAACAGCTCGCAACTAATGCAATGAAAAAT
** * * *
11199297 TAAAACCATTGCAAGATAGCGTCATTCTTTGTTTGAACAAGTTTAAAACATTAGATCCAATGATT
130 TAAAACCAACGCAAGATAGCATCATTCTTTGTTTGAACAAGTTTAAAACATTAGATCCAA-CA-A
* * * * * ** *
11199362 TATTCAAATTCGCTTCCGTTTCAAAACTTGTTGAAGTAGTATTTCATA-CTTTAAAACTCGACTC
193 TATTCAAATTCACTTCCATTTCAAAACCTGCTAAAACAGTATTTCATATCTTTAAAACTCAACTC
* * *
11199426 TAGCAAAAATCGTTTTTAAAGCAAAACATAAAAACTTCAAAAAGA-TTAAGCTTTTGAGTTTGTG
258 TAGCAAAAATCGTTTTCAAAGCAAAACATAAAAACTT-AAAAA-ACTAAAGCTTTTAAGTTTGTG
** *
11199490 CATAATATATAT-AAAAAAAA-AAGTTAGTACA-CACAGTTAATCACATTAAGCACCAACAACGA
321 CATAATATATATAAAAAAAAACAAGTTAG--CATCACAGTTAATCACACCAAGCACCAAAAACGA
* * * ** *
11199552 TTTCACAAATGATATCTAAATTTCAATAGCATCCCACAAATTCCTTAGAGCATTCATGAATTCTC
384 TTTCACAAATGATATCCAAATATCAAGAGCAAACCACAAATTCCTTAGAGCATTCACGAATTCTC
* * * * *
11199617 TTTAAAATACGTCTAAACAAAAAGTATGAAAAATTAGAACTGTATGAATGGTTTTTATATCACAA
449 TCTAAAATACGTCTAAACAAAAAGTACGAAAAATTAAAACCGTACGAATGGTTTTTATATCACAA
* * * * * *
11199682 TTTGAATGCTGTGCGAATGGTTTTTATGCTCATAATTGTTCGAAAAGAGATTTTGACAATTTAGG
514 TTTGAAAGCTATGCGAATGATCTTTATGCCCATAATTGTTCGAAAACAGATTTTGACAATTTAGG
11199747 CTCCAAAATC
579 CTCCAAAATC
11199757 CCCAGAAAAC
Statistics
Matches: 506, Mismatches: 74, Indels: 20
0.84 0.12 0.03
Matches are distributed among these distances:
736 101 0.20
737 10 0.02
738 310 0.61
739 44 0.09
740 41 0.08
ACGTcount: A:0.38, C:0.17, G:0.13, T:0.32
Consensus pattern (735 bp):
ATGGCTTTTATATCACAATTTGAAAGCTGTGCGAATGTTTTTTATGCCCATAATTGTCCGAAAAC
AGATTTTGACATTTTAGGCAACAAAATCCCTCGAAAACAGCTCGCAACTAATGCAATGAAAAATT
AAAACCAACGCAAGATAGCATCATTCTTTGTTTGAACAAGTTTAAAACATTAGATCCAACAATAT
TCAAATTCACTTCCATTTCAAAACCTGCTAAAACAGTATTTCATATCTTTAAAACTCAACTCTAG
CAAAAATCGTTTTCAAAGCAAAACATAAAAACTTAAAAAACTAAAGCTTTTAAGTTTGTGCATAA
TATATATAAAAAAAAACAAGTTAGCATCACAGTTAATCACACCAAGCACCAAAAACGATTTCACA
AATGATATCCAAATATCAAGAGCAAACCACAAATTCCTTAGAGCATTCACGAATTCTCTCTAAAA
TACGTCTAAACAAAAAGTACGAAAAATTAAAACCGTACGAATGGTTTTTATATCACAATTTGAAA
GCTATGCGAATGATCTTTATGCCCATAATTGTTCGAAAACAGATTTTGACAATTTAGGCTCCAAA
ATCTTTCAAAAACAGCTTCCACCTATCATGGTAAAAAAAAAAATTAAAACCAACGCAAGTTATCG
TTGTTATTTTTTGAGAAAGTTTAAAACATTGGATTCAATCACACCAAGCACCAATAACGATTTCA
CAAATGATATCCAAGTGTGC
Found at i:11200268 original size:490 final size:492
Alignment explanation
Indices: 11199170--11200289 Score: 1369
Period size: 496 Copynumber: 2.3 Consensus size: 492
11199160 AAGTGTGCAT
* * *
11199170 GGTTTTTATATCACAATTTGAAAGCTGTGCGATTGTTTTTTATGCCCATAATTGTCCGAAAACAG
1 GGTTTTTATATCACAATTTGAAAGCTGTGCGAATGGTTTTTATG-CCATAATTGTTCGAAAACAG
** * * * **
11199235 ATTTTGACATTTTAGGCAACAAAATCCCTGAAAAACAGCTTGCAACTAATGCAATGAAAAATTAA
65 ATTTTGACATTTTAGGCTCCAAAAT-CCTCAAAAACAGCTTACACCTAATGCTGTGAAAAATTAA
* ** * * *
11199300 AACCATTGCAAGATAGCGTCATTCTTTGTTTGAACAAGTTTAAAACATTAGATCCAATGATTTAT
129 AACAACCGCAAGATAGCCTCATTCTTTGTTTGAACAAATTTAAAACATTAAATCCAATGA-TTAT
* * * * * *
11199365 TCAAATTCGCTTCCGTTTCAAAACTTGTTGAAGTAGTATTTCATACTTTAAAACTCGACTCTAGC
193 TCAAATTAGCTTCCGTTTCAAAACATGCTAAAATAGTATTTCAAACTTTAAAACTCGACTCTAGC
* * *
11199430 AAAAATCGTTTTTAAAGCAAAACATAAAAACTTCAAAAAGATTAAGCTTTTGAGTTTGTGCATAA
258 AAAAATCGTTTTCAAAGCAAAACATAAAAACTTCAAAAACATTAAGCTTTTGAGTTTGAGCATAA
*
11199495 TATATATAAAAAAAAAAGTTAGTACACACAGTTAATCACATTAAGCACCAACAACGATTTCACAA
323 TATATATAAAAAAAAAAGTTAGTACACACAGTTAATCACATCAAGCACCAACAAC-ATTTCACAA
* * * ** * * *
11199560 ATGATATCTAAATTTCAATAGCATCCCACAAATTCCTTAGAGCATTCATGAATTCTCTTTAAAAT
387 ATGATATCCAAATATCAAGAGCATCCCACAAATTCCTTAGAGCATTCACAAATTATCTCTAAAAA
** * * ** *
11199625 ACGTCTAAACAAAAAGTATGAAAAATTAGAACTGTATGAAT
452 ACGTCTAAACAAAAAGTAAAAAAAATTAAAACAGTACAAAC
* *
11199666 GGTTTTTATATCACAATTTGAATGCTGTGCGAATGGTTTTTATGCTCATAATTGTTCGAAAAGAG
1 GGTTTTTATATCACAATTTGAAAGCTGTGCGAATGGTTTTTATGC-CATAATTGTTCGAAAACAG
* * * *
11199731 ATTTTGACAATTTAGGCTCCAAAATCCCCAGAAAACAGCTCACACCTAATGCTGTGAAAAATTCA
65 ATTTTGACATTTTAGGCTCCAAAATCCTCA-AAAACAGCTTACACCTAATGCTGTGAAAAATTAA
* * * * **
11199796 AACAACCGCAAGTTATCCTCGTTCTTTGTTTGAGCAAATTTAAAACATTAAATTGAATGA-TATT
129 AACAACCGCAAGATAGCCTCATTCTTTGTTTGAACAAATTTAAAACATTAAATCCAATGATTATT
* ** * *
11199860 CAAATTAGTTTTTGTTTCAGAAA-ATGCTAAAATAGTGTTTCAAACTTTAAAACTCGACTTTAGC
194 CAAATTAGCTTCCGTTTCA-AAACATGCTAAAATAGTATTTCAAACTTTAAAACTCGACTCTAGC
* * *
11199924 AAAAATCGTTTTCAGAGCAAAACATAGAAACTTCAAAAACATTAAGCTTTTGAGTTTGAGTAT-A
258 AAAAATCGTTTTCAAAGCAAAACATAAAAACTTCAAAAACATTAAGCTTTTGAGTTTGAGCATAA
* * *
11199988 -ATATATAAAAAAACATGTTAGCT-CACACAGTTAATCACATCAAGCACCAA-TA-ATTTCAC-A
323 TATATATAAAAAAAAAAGTTAG-TACACACAGTTAATCACATCAAGCACCAACAACATTTCACAA
* * * *
11200048 ATTATATCCAAGTATCAAGAGCGTCCTACAAATTCCTTAGCA-CATTCACAAATTATC-CTAAAA
387 ATGATATCCAAATATCAAGAGCATCCCACAAATTCCTTAG-AGCATTCACAAATTATCTCTAAAA
*
11200111 AAGCGTCTAAAGCAAAAAGTAAAAAAAAATTAAAACAGTGCAAAC
451 AA-CGTCTAAA-CAAAAAGT-AAAAAAAATTAAAACAGTACAAAC
* * * *
11200156 GGTTTTTATTTTACAATTTGAAAGCTGTGCGAATGGTTTTTATGCCATAGTTGTTCGAAAAACAT
1 GGTTTTTATATCACAATTTGAAAGCTGTGCGAATGGTTTTTATGCCATAATTGTTCG-AAAACAG
* *
11200221 ATTTTGACATTTTAGGCTCCAAAATCCTTCAAAAACAGCTTACACCTAGTGCTGTGAAGAATTAA
65 ATTTTGACATTTTAGGCTCCAAAATCC-TCAAAAACAGCTTACACCTAATGCTGTGAAAAATTAA
11200286 AACA
129 AACA
11200290 TAGAAACTTC
Statistics
Matches: 533, Mismatches: 81, Indels: 26
0.83 0.13 0.04
Matches are distributed among these distances:
487 6 0.01
488 54 0.10
489 27 0.05
490 123 0.23
491 3 0.01
492 45 0.08
493 2 0.00
494 110 0.21
495 7 0.01
496 156 0.29
ACGTcount: A:0.39, C:0.17, G:0.13, T:0.31
Consensus pattern (492 bp):
GGTTTTTATATCACAATTTGAAAGCTGTGCGAATGGTTTTTATGCCATAATTGTTCGAAAACAGA
TTTTGACATTTTAGGCTCCAAAATCCTCAAAAACAGCTTACACCTAATGCTGTGAAAAATTAAAA
CAACCGCAAGATAGCCTCATTCTTTGTTTGAACAAATTTAAAACATTAAATCCAATGATTATTCA
AATTAGCTTCCGTTTCAAAACATGCTAAAATAGTATTTCAAACTTTAAAACTCGACTCTAGCAAA
AATCGTTTTCAAAGCAAAACATAAAAACTTCAAAAACATTAAGCTTTTGAGTTTGAGCATAATAT
ATATAAAAAAAAAAGTTAGTACACACAGTTAATCACATCAAGCACCAACAACATTTCACAAATGA
TATCCAAATATCAAGAGCATCCCACAAATTCCTTAGAGCATTCACAAATTATCTCTAAAAAACGT
CTAAACAAAAAGTAAAAAAAATTAAAACAGTACAAAC
Found at i:11201470 original size:490 final size:488
Alignment explanation
Indices: 11200494--11201939 Score: 1914
Period size: 489 Copynumber: 3.0 Consensus size: 488
11200484 TCAACATGCA
* *
11200494 AATGGTTTTTATGCCCATAATTGATCGAAAACAGATTTTGACATTTTAGGCTCCAAAATCCTTCA
1 AATGGTTTTTATGCCCATAATTGTTTGAAAACAGATTTTGACATTTTAGGCTCCAAAATCCTTC-
* * * * * * * *
11200559 AAAACAGCTTGCACCTAACACTATTAAAAACTAAAACCAACCCAGGTTACCGTCGTTCTTTGTTT
65 AAAACAGGTTGCACCTAACGCTATGAAAAATTAAAACCAACGCAAGTTATCATCGTTCTTTGTTT
* * * * *
11200624 GAGCAAGTTTAAAACATT-GATCCAATGATATTAAAATTCGTTTCTGTTTCAAAACCTACCAAAA
130 GAGCAAGTTTAAAACATTGGATCCAATGATATTCAAATTAGTTTCTGTTTGAAAACCTGCTAAAA
* * *
11200688 CAGTATTTCATAG-TTAAAGCTCCA-TTCTAGCAAAAAATCATTTTCAAAACAAAACATAGAAAC
195 -GGTATTTCATAGTTTAAAGCTCAACTT-TAGC-AAAAATCATTTTCAAAGCAAAACATAGAAAC
* *
11200751 CTCAAAAACATTAAGCTTTTGAGTTTGTGCATAACATATAAAAACAAGTTAGCACACACAGTTAA
257 TTCAAAAACATTAAGCTTTTGAGTTTGTGCATAATATATAAAAACAAGTTAGCACACACAGTTAA
* * * * *
11200816 ACACACCAAGC-ACAATAAAGATTTCACAAATGATATCCAAGTATCAAGAGCATCCCACAAATTC
322 TCA-ACAAAGCTCCAATAACGATTTCACAAATGATATCCAAGTATCATGAGCATCCCACAAATTC
* * * * * * * *
11200880 CTTAGCGCCTTCATGAATTCTCCTAAAATTACATCTACATCAAAAAAGTATGAAATATTAAAAAA
386 CTTAGAGCATTCACGAATTCTCCTAAAAATACATCTAAAGC-ATAAAGTATGAAAAATTAAAAAA
* *
11200945 ATGCGAATGGTTTTTATATCACAATTTGCAAGCTGTGAG
450 GTGCGAATGGTTTTTATATCACAATTTGAAAGCTGTGAG
* *
11200984 AATGGTTTTTATGCCCATAATTGTTTGATAACAGATTTTGACATTTTAGGCTCCAAAATACTTCA
1 AATGGTTTTTATGCCCATAATTGTTTGAAAACAGATTTTGACATTTTAGGCTCCAAAATCCTTCA
* ** *
11201049 AAACAGGTTGCACC-AACCGCTATGAACAATTAAAACCAGTGCAAGTTATAATCGTTCTTTGTTT
66 AAACAGGTTGCACCTAA-CGCTATGAAAAATTAAAACCAACGCAAGTTATCATCGTTCTTTGTTT
* ** * **
11201113 GAACAAGTTTAAAACATTGGATCCAACAATATTCAAATTTGTTTCCATTTGAAAACCTGCTAAAA
130 GAGCAAGTTTAAAACATTGGATCCAATGATATTCAAATTAGTTTCTGTTTGAAAACCTGCTAAAA
11201178 TGGTATTTCATAGTTTAAAGCTCAACTTTAGCAAAAATCATTTTCAAAGCAAAACATAGAAACTT
195 -GGTATTTCATAGTTTAAAGCTCAACTTTAGCAAAAATCATTTTCAAAGCAAAACATAGAAACTT
11201243 CAAAAACATTAAGCTTTTGAGTTTGTGCATAATATATAAAAACAAGTTAGCACACACAGTTAATC
259 CAAAAACATTAAGCTTTTGAGTTTGTGCATAATATATAAAAACAAGTTAGCACACACAGTTAATC
11201308 AACAAAGCTCCAATAACGATTTCACAAATGATATCCAAGTATCATGAGCATCCCACAAATTCCTT
324 AACAAAGCTCCAATAACGATTTCACAAATGATATCCAAGTATCATGAGCATCCCACAAATTCCTT
* ***
11201373 AGAGCATAT-ACGAATTCTCCTAAAAATACGTCTAAAGCATAAAGTATGAAAAATTAAATTGGTG
389 AGAGCAT-TCACGAATTCTCCTAAAAATACATCTAAAGCATAAAGTATGAAAAATTAAAAAAGTG
*
11201437 CGAATGGTTTTTATATCACAATTTTGAAAGCTGTGTG
453 CGAATGGTTTTTATATCACAA-TTTGAAAGCTGTGAG
* ** *
11201474 AATGGATTTTATAACCATAATTGTTTGAAAACAG-TTTTGACATTTTAGGCTCCAAAATCCATCA
1 AATGGTTTTTATGCCCATAATTGTTTGAAAACAGATTTTGACATTTTAGGCTCCAAAATCCTTCA
* * * ** * * *
11201538 AAA-AGAGCTTACACCTAAAGCTGTGAAAAATT-TTACCAACGCAAGTTATCCTTGTTATTTGTT
66 AAACAG-G-TTGCACCTAACGCTATGAAAAATTAAAACCAACGCAAGTTATCATCGTTCTTTGTT
* *
11201601 TGAGCAAATTTAAAACATTGGATTCAATGATATTCAAATTAGTTTCTGTTTCG-AAACCTGCTAG
129 TGAGCAAGTTTAAAACATTGGATCCAATGATATTCAAATTAGTTTCTGTTT-GAAAACCTGCTA-
* * * * *
11201665 ACAGTGT-TTT-ATACTTTAAAGCTCGACTCTAGCAAAAATCGTTTTCAAAGCAAAACATAGAAA
192 AAAG-GTATTTCATAGTTTAAAGCTCAACTTTAGCAAAAATCATTTTCAAAGCAAAACATAGAAA
* * *
11201728 CTTCAAAAACATTAAGCTTTTGAGTTTGTGCATATTATATAAAAACAAGATAGCAAACACAGTTA
256 CTTCAAAAACATTAAGCTTTTGAGTTTGTGCATAATATATAAAAACAAGTTAGCACACACAGTTA
11201793 ATC-ACATCAAG-TGCCAATAACGATTTCACAAATGATATCCAAGTATCAAT-AGCATCCCACAA
321 ATCAACA--AAGCT-CCAATAACGATTTCACAAATGATATCCAAGTATC-ATGAGCATCCCACAA
*
11201855 ATTCCTCAGAGCATTCACGAATTCTCCTAAAAATACATCTAAAGCATAAAGTATGAAAAATTAAA
382 ATTCCTTAGAGCATTCACGAATTCTCCTAAAAATACATCTAAAGCATAAAGTATGAAAAATTAAA
** *
11201920 ACCGTGTGAATGGTTTTTAT
447 AAAGTGCGAATGGTTTTTAT
11201940 GCCTATAATT
Statistics
Matches: 846, Mismatches: 92, Indels: 37
0.87 0.09 0.04
Matches are distributed among these distances:
487 3 0.00
488 120 0.14
489 352 0.42
490 352 0.42
491 17 0.02
492 2 0.00
ACGTcount: A:0.39, C:0.18, G:0.13, T:0.30
Consensus pattern (488 bp):
AATGGTTTTTATGCCCATAATTGTTTGAAAACAGATTTTGACATTTTAGGCTCCAAAATCCTTCA
AAACAGGTTGCACCTAACGCTATGAAAAATTAAAACCAACGCAAGTTATCATCGTTCTTTGTTTG
AGCAAGTTTAAAACATTGGATCCAATGATATTCAAATTAGTTTCTGTTTGAAAACCTGCTAAAAG
GTATTTCATAGTTTAAAGCTCAACTTTAGCAAAAATCATTTTCAAAGCAAAACATAGAAACTTCA
AAAACATTAAGCTTTTGAGTTTGTGCATAATATATAAAAACAAGTTAGCACACACAGTTAATCAA
CAAAGCTCCAATAACGATTTCACAAATGATATCCAAGTATCATGAGCATCCCACAAATTCCTTAG
AGCATTCACGAATTCTCCTAAAAATACATCTAAAGCATAAAGTATGAAAAATTAAAAAAGTGCGA
ATGGTTTTTATATCACAATTTGAAAGCTGTGAG
Found at i:11201812 original size:489 final size:491
Alignment explanation
Indices: 11200494--11203389 Score: 3217
Period size: 490 Copynumber: 6.0 Consensus size: 491
11200484 TCAACATGCA
** *
11200494 AATGGTTTTTATGCCCATAATTGATCGAAAACAGATTTTGACATTTTAGGCTCCAAAATCCTTCA
1 AATGGTTTTTATAACCATAATTGTTCGAAAACAGATTTTGACATTTTAGGCTCCAAAATCCTTCA
* * * * * * *
11200559 AAAACAGCTTGCACCTAACACTATTAAAAACTAAAACCAACCCAGGTTACCGTCGTTCTTTGTTT
66 AAAACAGCTTACACCTAACACTATGAAAAA-TTAAACCAACGCAAGTTATCATCGTTCTTTGTTT
* * * * ** * *
11200624 GAGCAAGTTTAAAACATT-GATCCAATGATATTAAAATTCGTTTCTGTTTCAAAACCTACCAAAA
130 GAGCAAGTTTAAAACATTGGATTCAACGATATTCAAATTTGTTTCCATTTCAAAACCTGCTAAAA
* * * *
11200688 CAGTATTTCATAG-TTAAAGCTCCATTCTAGCAAAAAATCATTTTCAAAACAAAACATAGAAACC
195 CAGTATTTCATAGTTTAAAGCTCGACTCTAGC-AAAAATCATTTTCAAAGCAAAACATAGAAACT
* *
11200752 TCAAAAACATTAAGCTTTTGAGTTTGTGCATAACATATAAAAACAAGTTAGCACACACAGTTAAA
259 TCAAAAACATTAAGCTTTTGAGTTTGTGCATAATATATAAAAACAAGTTAGCACACACAGTTAAT
* * *
11200817 CACACCAAGC-ACAATAAAGATTTCACAAATGATATCCAAGTATCAAGAGCATCCCACAAATTCC
324 CACATCAAGCGCCAATAACGATTTCACAAATGATATCCAAGTATCAAGAGCATCCCACAAATTCC
* * * * * * * *
11200881 TTAGCGCCTTCATGAATTCTCCTAAAATTACATCTACATCAAAAAAGTATGAAATATTAAAAAAA
389 TTAGAGCATTCACGAATTCTCCTAAAAATACATCTAAAGCAAAAAAGTATGAAAAATTAAAAACA
* * *
11200946 TGCGAATGGTTTTTATATCACAATTTGCAAGCTGTGAG
454 TGCGAATGGTTTTTATATCACAATTTGAAAGCTATGTG
** * * *
11200984 AATGGTTTTTATGCCCATAATTGTTTGATAACAGATTTTGACATTTTAGGCTCCAAAATACTTC-
1 AATGGTTTTTATAACCATAATTGTTCGAAAACAGATTTTGACATTTTAGGCTCCAAAATCCTTCA
* * * * ** *
11201048 AAAACAGGTTGCACC-AACCGCTATGAACAATTAAAACCAGTGCAAGTTATAATCGTTCTTTGTT
66 AAAACAGCTTACACCTAA-CACTATGAAAAATT-AAACCAACGCAAGTTATCATCGTTCTTTGTT
* * * *
11201112 TGAACAAGTTTAAAACATTGGATCCAACAATATTCAAATTTGTTTCCATTTGAAAACCTGCTAAA
129 TGAGCAAGTTTAAAACATTGGATTCAACGATATTCAAATTTGTTTCCATTTCAAAACCTGCTAAA
** * *
11201177 ATGGTATTTCATAGTTTAAAGCTCAACTTTAGCAAAAATCATTTTCAAAGCAAAACATAGAAACT
194 ACAGTATTTCATAGTTTAAAGCTCGACTCTAGCAAAAATCATTTTCAAAGCAAAACATAGAAACT
11201242 TCAAAAACATTAAGCTTTTGAGTTTGTGCATAATATATAAAAACAAGTTAGCACACACAGTTAAT
259 TCAAAAACATTAAGCTTTTGAGTTTGTGCATAATATATAAAAACAAGTTAGCACACACAGTTAAT
* *
11201307 CA-A-CAAAGCTCCAATAACGATTTCACAAATGATATCCAAGTATCATGAGCATCCCACAAATTC
324 CACATC-AAGCGCCAATAACGATTTCACAAATGATATCCAAGTATCAAGAGCATCCCACAAATTC
* * **
11201370 CTTAGAGCATAT-ACGAATTCTCCTAAAAATACGTCTAAAGC-ATAAAGTATGAAAAATTAAATT
388 CTTAGAGCAT-TCACGAATTCTCCTAAAAATACATCTAAAGCAAAAAAGTATGAAAAATTAAAAA
** *
11201433 GGTGCGAATGGTTTTTATATCACAATTTTGAAAGCTGTGTG
452 CATGCGAATGGTTTTTATATCACAA-TTTGAAAGCTATGTG
* * *
11201474 AATGGATTTTATAACCATAATTGTTTGAAAACAG-TTTTGACATTTTAGGCTCCAAAATCCATCA
1 AATGGTTTTTATAACCATAATTGTTCGAAAACAGATTTTGACATTTTAGGCTCCAAAATCCTTCA
* * ** * * *
11201538 AAAAGAGCTTACACCTAA-AGCTGTGAAAAATTTTACCAACGCAAGTTATCCTTGTTATTTGTTT
66 AAAACAGCTTACACCTAACA-CTATGAAAAATTAAACCAACGCAAGTTATCATCGTTCTTTGTTT
* * * ** * *
11201602 GAGCAAATTTAAAACATTGGATTCAATGATATTCAAATTAGTTTCTGTTTCGAAACCTGCT-AGA
130 GAGCAAGTTTAAAACATTGGATTCAACGATATTCAAATTTGTTTCCATTTCAAAACCTGCTAAAA
* * * *
11201666 CAGTGTTTTATACTTTAAAGCTCGACTCTAGCAAAAATCGTTTTCAAAGCAAAACATAGAAACTT
195 CAGTATTTCATAGTTTAAAGCTCGACTCTAGCAAAAATCATTTTCAAAGCAAAACATAGAAACTT
* * *
11201731 CAAAAACATTAAGCTTTTGAGTTTGTGCATATTATATAAAAACAAGATAGCAAACACAGTTAATC
260 CAAAAACATTAAGCTTTTGAGTTTGTGCATAATATATAAAAACAAGTTAGCACACACAGTTAATC
* *
11201796 ACATCAAGTGCCAATAACGATTTCACAAATGATATCCAAGTATCAATAGCATCCCACAAATTCCT
325 ACATCAAGCGCCAATAACGATTTCACAAATGATATCCAAGTATCAAGAGCATCCCACAAATTCCT
* * * *
11201861 CAGAGCATTCACGAATTCTCCTAAAAATACATCTAAAGC-ATAAAGTATGAAAAATTAAAACCGT
390 TAGAGCATTCACGAATTCTCCTAAAAATACATCTAAAGCAAAAAAGTATGAAAAATTAAAAACAT
* *
11201925 GTGAATGG--TTT-T-T----A--TG---CCTA--T-
455 GCGAATGGTTTTTATATCACAATTTGAAAGCTATGTG
* * * * * *** ** * * **
11201946 AATTG-TTTGA-AAACA-GATT-TT-G---AC--ATTTTAGGC-TCAAAATCCTTCAAAA-ACAG
1 AATGGTTTTTATAACCATAATTGTTCGAAAACAGATTTT-GACAT-TTTAGGCTCCAAAATCCTT
* * * * * * * * *
11201999 C--TAACACCTAACGCTGTGAA-A--AAG--AAATTAAAACCAACGCAAGTTGTCGTTC-CTCTT
64 CAAAAACAGCTTACAC-CT-AACACTATGAAAAATT-AAACCAACGCAAGTTATC-ATCGTTCTT
* *
11202056 TGTTTGAGCAAGTTTAAAACATTGAATTCAACGATATTCAAATTTGTTTCTATTTCAAAACCTGC
125 TGTTTGAGCAAGTTTAAAACATTGGATTCAACGATATTCAAATTTGTTTCCATTTCAAAACCTGC
* * ** * *
11202121 TAAAATAGTATTTCATAGTTTAAAAGCTCGACTCTGGCAAAAATTGTTTTCAATGGAAAACATAG
190 TAAAACAGTATTTCATAGTTT-AAAGCTCGACTCTAGCAAAAATCATTTTCAAAGCAAAACATAG
* ** * * *
11202186 AAACTTCAAAAACGTTAAGCTTTCAAGTTTGTGCATAATACATAAAAAACAAGCTAGTACAC-CT
254 AAACTTCAAAAACATTAAGCTTTTGAGTTTGTGCATAATATAT-AAAAACAAGTTAGCACACAC-
* *
11202250 AGTTAATCACATCAAGCGCCAATAACGATTTCATAAATTATATCCAAGTATCAAGAGCATCCCAC
317 AGTTAATCACATCAAGCGCCAATAACGATTTCACAAATGATATCCAAGTATCAAGAGCATCCCAC
* * *
11202315 AAATTCCTTAGAACATTTGACGAATTCTCCTAAAAATGCATCTAAAGCAAAAAAGTATGAAAAA-
382 AAATTCCTTAGAGCA-TTCACGAATTCTCCTAAAAATACATCTAAAGCAAAAAAGTATGAAAAAT
* * *
11202379 TAAAAACCATGC-AAGTGGTTTTTACATCACAATTTGAACGCTATGCG
446 TAAAAA-CATGCGAA-TGGTTTTTATATCACAATTTGAAAGCTATGTG
* *** * * * *
11202426 AATGGTTTTTTTTGTCATAATTGTTCAAAAACAGATTTTGTCAATTTAGGCTCCAAAATCCTTTA
1 AATGGTTTTTATAACCATAATTGTTCGAAAACAGATTTTGACATTTTAGGCTCCAAAATCCTTCA
* * * * * *
11202491 GAAACAGCTTAGAGCTAACACTATGAAAAATTAAACCAACGTAAGTTATCATCATTCTCTGTTTG
66 AAAACAGCTTACACCTAACACTATGAAAAATTAAACCAACGCAAGTTATCATCGTTCTTTGTTTG
*
11202556 AGCAAGTTTAAAACATTGGATTCAATGATATTCAAATTTGTTTCCATTTCAAAACCTGCTAAAAC
131 AGCAAGTTTAAAACATTGGATTCAACGATATTCAAATTTGTTTCCATTTCAAAACCTGCTAAAAC
* * *
11202621 AGTATTTCATAGTTTAAAGCTTGACTCTAG-AAAAACTCATGTTCAAAGCAAAACATATAAACTT
196 AGTATTTCATAGTTTAAAGCTCGACTCTAGCAAAAA-TCATTTTCAAAGCAAAACATAGAAACTT
* * * *
11202685 C-AAAACTTTAAGC-TTTCATGTTTCTGCATAATATATATATATATAAAAAAAACAAGTTACCAC
260 CAAAAACATTAAGCTTTTGA-GTTTGTGC-------ATA-ATATAT---AAAAACAAGTTAGCAC
* *
11202748 ACACAGTTAATCACATCAAGCGCCACTAACGATTTCACAAATGATATCCAAGTATCAAGAGTATC
313 ACACAGTTAATCACATCAAGCGCCAATAACGATTTCACAAATGATATCCAAGTATCAAGAGCATC
* * *
11202813 CCACAAA-TCACTTTA-AGCATTCATGAATTCTCCTAAAAATGCGTCTAAAGCAAAAAA--A--A
378 CCACAAATTC-C-TTAGAGCATTCACGAATTCTCCTAAAAATACATCTAAAGCAAAAAAGTATGA
*** * * *
11202872 AAAATT-AAAA-ATTAAAAAGGCTTTTAAATCACAATTTGAAAGCTATGTG
441 AAAATTAAAAACATGCGAATGGTTTTTATATCACAATTTGAAAGCTATGTG
* * * *
11202921 AATGGTTTGTAT-GCCATAATTGTTCGAAAACAGATTTTGACAATTTAGGGTCCAAAATCCTTCA
1 AATGGTTTTTATAACCATAATTGTTCGAAAACAGATTTTGACATTTTAGGCTCCAAAATCCTTCA
* *
11202985 AAAACAGCTTACACCTAATACTATGAAAAATTAAACCAACGCAAGTTATCATCGTTCTCTGTTTG
66 AAAACAGCTTACACCTAACACTATGAAAAATTAAACCAACGCAAGTTATCATCGTTCTTTGTTTG
* *
11203050 AGCAAGTTTAAAACATTGGATTCAACGATATTC-AATTTGTTTCCGTTTCAAAATCTGCTAAAAC
131 AGCAAGTTTAAAACATTGGATTCAACGATATTCAAATTTGTTTCCATTTCAAAACCTGCTAAAAC
*
11203114 AGTATTTCATAGTTTAAAGCTCGACTCTAGAAAAAATCATTTTCAAAGCAAAACATAGAAACTTC
196 AGTATTTCATAGTTTAAAGCTCGACTCTAGCAAAAATCATTTTCAAAGCAAAACATAGAAACTTC
* * *
11203179 AAAAACTTTAAGC-TTTCACGTTTGTGTATAATATATAAAAAAACAAGTTAGCACACACAGTTAA
261 AAAAACATTAAGCTTTTGA-GTTTGTGCATAATATAT--AAAAACAAGTTAGCACACACAGTTAA
*
11203243 TCACATCAAGCGCCAATAATGATTTCACAAATGATATCCAAGTATCAAGAGCATCCCACAAATTC
323 TCACATCAAGCGCCAATAACGATTTCACAAATGATATCCAAGTATCAAGAGCATCCCACAAATTC
* *** *
11203308 CTTTA-AGCATTCACGAATTCACCTAAAAATGTGTCTAAAGCAAAAAAGTATGAAAAATTAAAAG
388 C-TTAGAGCATTCACGAATTCTCCTAAAAATACATCTAAAGCAAAAAAGTATGAAAAATTAAAAA
11203372 CATGCGAATGGTTTTTAT
452 CATGCGAATGGTTTTTAT
11203390 GCCCATAATT
Statistics
Matches: 2038, Mismatches: 277, Indels: 181
0.82 0.11 0.07
Matches are distributed among these distances:
458 5 0.00
459 78 0.04
460 16 0.01
461 86 0.04
462 90 0.04
463 48 0.02
464 32 0.02
466 3 0.00
467 1 0.00
468 3 0.00
469 3 0.00
470 4 0.00
471 4 0.00
472 5 0.00
473 1 0.00
474 2 0.00
475 2 0.00
477 3 0.00
478 2 0.00
480 4 0.00
481 4 0.00
482 2 0.00
483 3 0.00
484 2 0.00
485 131 0.06
486 9 0.00
487 7 0.00
488 129 0.06
489 351 0.17
490 362 0.18
491 34 0.02
492 30 0.01
493 125 0.06
494 267 0.13
495 44 0.02
496 2 0.00
497 9 0.00
498 1 0.00
499 4 0.00
500 5 0.00
501 37 0.02
502 84 0.04
503 4 0.00
ACGTcount: A:0.40, C:0.18, G:0.12, T:0.30
Consensus pattern (491 bp):
AATGGTTTTTATAACCATAATTGTTCGAAAACAGATTTTGACATTTTAGGCTCCAAAATCCTTCA
AAAACAGCTTACACCTAACACTATGAAAAATTAAACCAACGCAAGTTATCATCGTTCTTTGTTTG
AGCAAGTTTAAAACATTGGATTCAACGATATTCAAATTTGTTTCCATTTCAAAACCTGCTAAAAC
AGTATTTCATAGTTTAAAGCTCGACTCTAGCAAAAATCATTTTCAAAGCAAAACATAGAAACTTC
AAAAACATTAAGCTTTTGAGTTTGTGCATAATATATAAAAACAAGTTAGCACACACAGTTAATCA
CATCAAGCGCCAATAACGATTTCACAAATGATATCCAAGTATCAAGAGCATCCCACAAATTCCTT
AGAGCATTCACGAATTCTCCTAAAAATACATCTAAAGCAAAAAAGTATGAAAAATTAAAAACATG
CGAATGGTTTTTATATCACAATTTGAAAGCTATGTG
Found at i:11202956 original size:494 final size:490
Alignment explanation
Indices: 11201924--11203375 Score: 1914
Period size: 494 Copynumber: 2.9 Consensus size: 490
11201914 ATTAAAACCG
* *
11201924 TGTGAATGGTTTTTATGCCTATAATTGTTTGAAAACAGATTTTGACATTTTAGGCT-CAAAATCC
1 TGTGAATGGTTTTTATGCC-ATAATTGTTCGAAAACAGATTTTGACAATTTAGGCTCCAAAATCC
* * * * * *
11201988 TTCAAAAACAGCTAACACCTAACGCTGTGAAAAAGAAATTAAAACCAACGCAAGTTGTCGTTCCT
65 TTCAAAAACAGCTTACACCTAACACTATG---AA-AAATT-AAACCAACGCAAGTTATC-ATCTT
* * *
11202053 CTTTGTTTGAGCAAGTTTAAAACATTGAATTCAACGATATTCAAATTTGTTTCTATTTCAAAACC
124 CTCTGTTTGAGCAAGTTTAAAACATTGGATTCAACGATATTCAAATTTGTTTCCATTTCAAAACC
* * ** * *
11202118 TGCTAAAATAGTATTTCATAGTTTAAAAGCTCGACTCTGGCAAAAATTGTTTTCAATGGAAAACA
189 TGCTAAAACAGTATTTCATAGTTT-AAAGCTCGACTCTAG-AAAAATCATTTTCAAAGCAAAACA
* * * *
11202183 TAGAAACTTCAAAAACGTTAAGCTTTCAAGTTTGTGCATA-ATACATA-A-AAAACAAGCTAG-T
252 TAGAAACTTCAAAAACTTTAAGCTTTCAAGTTT-TGCATATATA-ATATATAAAAAAAACAAGTT
* * *
11202244 ACAC-C-TAGTTAATCACATCAAGCGCCAATAACGATTTCATAAATTATATCCAAGTATCAAGAG
315 ACACACACAGTTAATCACATCAAGCGCCAATAACGATTTCACAAATGATATCCAAGTATCAAGAG
* * *
11202307 CATCCCACAAATTCC-TTAGAACATTTGACGAATTCTCCTAAAAATGCATCTAAAGCAAAAAAGT
380 CATCCCACAAATTCCTTTA-AGCA-TTCACGAATTCTCCTAAAAATGCGTCTAAAGCAAAAAAG-
* ** * * *
11202371 ATGAAAAATAAAAACCATGCAAGTGGTTTTTACATCACAATTTGAACGCTA
442 A-GAAAAATAAAAA-CATGAAAAAGGCTTTTAAATCACAATTTGAAAGCTA
* * * * *
11202422 TGCGAATGGTTTTTTTTGTCATAATTGTTCAAAAACAGATTTTGTCAATTTAGGCTCCAAAATCC
1 TGTGAATGG-TTTTTATGCCATAATTGTTCGAAAACAGATTTTGACAATTTAGGCTCCAAAATCC
* * * * *
11202487 TTTAGAAACAGCTTAGAGCTAACACTATGAAAAATTAAACCAACGTAAGTTATCATCATTCTCTG
65 TTCAAAAACAGCTTACACCTAACACTATGAAAAATTAAACCAACGCAAGTTATCATC-TTCTCTG
*
11202552 TTTGAGCAAGTTTAAAACATTGGATTCAATGATATTCAAATTTGTTTCCATTTCAAAACCTGCTA
129 TTTGAGCAAGTTTAAAACATTGGATTCAACGATATTCAAATTTGTTTCCATTTCAAAACCTGCTA
* * *
11202617 AAACAGTATTTCATAGTTTAAAGCTTGACTCTAGAAAAACTCATGTTCAAAGCAAAACATATAAA
194 AAACAGTATTTCATAGTTTAAAGCTCGACTCTAGAAAAA-TCATTTTCAAAGCAAAACATAGAAA
*
11202682 CTTC-AAAACTTTAAGCTTTCATGTTTCTGCATAATATATATATATATAAAAAAAACAAGTTACC
258 CTTCAAAAACTTTAAGCTTTCAAGTTT-TGC---ATATATA-ATATATAAAAAAAACAAGTTA-C
* *
11202746 ACACACAGTTAATCACATCAAGCGCCACTAACGATTTCACAAATGATATCCAAGTATCAAGAGTA
317 ACACACAGTTAATCACATCAAGCGCCAATAACGATTTCACAAATGATATCCAAGTATCAAGAGCA
*
11202811 TCCCACAAA-TCACTTTAAGCATTCATGAATTCTCCTAAAAATGCGTCTAAAGCAAAAAA-A-AA
382 TCCCACAAATTC-CTTTAAGCATTCACGAATTCTCCTAAAAATGCGTCTAAAGCAAAAAAGAGAA
* *
11202873 AAATTAAAA-ATTAAAAAGGCTTTTAAATCACAATTTGAAAGCTA
446 AAATAAAAACATGAAAAAGGCTTTTAAATCACAATTTGAAAGCTA
* *
11202917 TGTGAATGGTTTGTATGCCATAATTGTTCGAAAACAGATTTTGACAATTTAGGGTCCAAAATCCT
1 TGTGAATGGTTTTTATGCCATAATTGTTCGAAAACAGATTTTGACAATTTAGGCTCCAAAATCCT
*
11202982 TCAAAAACAGCTTACACCTAATACTATGAAAAATTAAACCAACGCAAGTTATCATCGTTCTCTGT
66 TCAAAAACAGCTTACACCTAACACTATGAAAAATTAAACCAACGCAAGTTATCATC-TTCTCTGT
* *
11203047 TTGAGCAAGTTTAAAACATTGGATTCAACGATATTC-AATTTGTTTCCGTTTCAAAATCTGCTAA
130 TTGAGCAAGTTTAAAACATTGGATTCAACGATATTCAAATTTGTTTCCATTTCAAAACCTGCTAA
11203111 AACAGTATTTCATAGTTTAAAGCTCGACTCTAGAAAAAATCATTTTCAAAGCAAAACATAGAAAC
195 AACAGTATTTCATAGTTTAAAGCTCGACTCTAG-AAAAATCATTTTCAAAGCAAAACATAGAAAC
* *
11203176 TTCAAAAACTTTAAGCTTTCACG-TTTG--TGTATAATATAT-AAAAAAACAAGTTAGCACACAC
259 TTCAAAAACTTTAAGCTTTCAAGTTTTGCATATATAATATATAAAAAAAACAAGTTA-CACACAC
*
11203237 AGTTAATCACATCAAGCGCCAATAATGATTTCACAAATGATATCCAAGTATCAAGAGCATCCCAC
323 AGTTAATCACATCAAGCGCCAATAACGATTTCACAAATGATATCCAAGTATCAAGAGCATCCCAC
* *
11203302 AAATTCCTTTAAGCATTCACGAATTCACCTAAAAATGTGTCTAAAGCAAAAAAGTATGAAAAATT
388 AAATTCCTTTAAGCATTCACGAATTCTCCTAAAAATGCGTCTAAAGCAAAAAAG-A-GAAAAA-T
*
11203367 AAAAGCATG
450 AAAAACATG
11203376 CGAATGGTTT
Statistics
Matches: 842, Mismatches: 87, Indels: 57
0.85 0.09 0.06
Matches are distributed among these distances:
485 130 0.15
486 8 0.01
487 6 0.01
489 5 0.01
490 4 0.00
491 2 0.00
492 30 0.04
493 125 0.15
494 267 0.32
495 44 0.05
496 8 0.01
497 11 0.01
498 49 0.06
499 41 0.05
500 3 0.00
501 38 0.05
502 68 0.08
503 3 0.00
ACGTcount: A:0.40, C:0.18, G:0.12, T:0.30
Consensus pattern (490 bp):
TGTGAATGGTTTTTATGCCATAATTGTTCGAAAACAGATTTTGACAATTTAGGCTCCAAAATCCT
TCAAAAACAGCTTACACCTAACACTATGAAAAATTAAACCAACGCAAGTTATCATCTTCTCTGTT
TGAGCAAGTTTAAAACATTGGATTCAACGATATTCAAATTTGTTTCCATTTCAAAACCTGCTAAA
ACAGTATTTCATAGTTTAAAGCTCGACTCTAGAAAAATCATTTTCAAAGCAAAACATAGAAACTT
CAAAAACTTTAAGCTTTCAAGTTTTGCATATATAATATATAAAAAAAACAAGTTACACACACAGT
TAATCACATCAAGCGCCAATAACGATTTCACAAATGATATCCAAGTATCAAGAGCATCCCACAAA
TTCCTTTAAGCATTCACGAATTCTCCTAAAAATGCGTCTAAAGCAAAAAAGAGAAAAATAAAAAC
ATGAAAAAGGCTTTTAAATCACAATTTGAAAGCTA
Found at i:11205162 original size:493 final size:489
Alignment explanation
Indices: 11203776--11206730 Score: 3671
Period size: 493 Copynumber: 6.1 Consensus size: 489
11203766 ATTCCTTAGG
* ** * * * *
11203776 GCAAAAACGTATGAAATATTAAAACCATG-TAAAGGTTTTTGTATCACAATTTGAAAGCTGTGTG
1 GCAAAAA-GTATGAAAAATTAAAACTGTGCGAATGGTTTTTATATCACAATTTGAAAGCTGTGCG
*
11203840 AATGGTTTTTATGCCCATAATTGTTCAAAAACAGATTTTGACATTTTAGGCTCCAAAATCCTTCA
65 AATGGTTTTTATG-CCATAATTGTTCGAAAACAGATTTTGACATTTTAGGCTCCAAAATCCTTCA
* * * * *
11203905 AAAACAGCTTGCACCTAACGCTAT-AAACAATTAAAACAAATGCATGTTATCGTCGTTCTTTGTT
129 AAAACAGCTTACACCTAACGCTATGAAA-AATT-AAACCAACGCAAGTTATCGTCGTTCTCTGTT
* **
11203969 TGAGCAAGTTTAAAACATTGGATCCAACAATATTCAAATTCT-TTTCCATTTCAAAACCTGCTAA
192 TGAGCAAGTTTAAAACATTGGATTCAATGATATTCAAATT-TGTTTCCATTTCAAAACCTGCTAA
* * * ** *
11204033 AACAATATTTCATACTTTAAAGCTCAACTCTAGCAAAAATTGTTTTCAAAGCAAAACGTAGAAAC
256 AACAGTATTTCATAGTTTAAAGCTCGACTCTAGCAAAAATCATTTTCAAAGCAAAACATAGAAAC
** * *
11204098 TTCAAAAACATTAAGCTTTTGAGTTTGTGCATAATATATAAAAACAAGTT-A-GCACACAGTTAA
321 TTCAAAAACATTAAGCTTTCAAGTTTGTGCATAATATAAAAAAACAAGTTAACACACACAGTTAA
* * *
11204161 TCACACCAAGCTCCAATAACAATTTCACAAATGATATCCAAGTAT-AATGAGCATCCCACAAATT
386 TCACATCAAGCACCAATAACGATTTCACAAATGATATCCAAGTATCAA-GAGCATCCCACAAATT
* *
11204225 CC-TTAGAGCATTCACGAATTCTCCTAAAAATACGTCTAAA
450 CCTTTA-AGCATTCACGAATTCTCCTAAAAATGCATCTAAA
* *
11204265 GCATAAAGTATGAAAAATTAAAA-TGATGCGAATGGTTTTTATATAACAATTTGAAAGCTGTGCG
1 GCAAAAAGTATGAAAAATTAAAACTG-TGCGAATGGTTTTTATATCACAATTTGAAAGCTGTGCG
*** * *
11204329 AACAATTTTTATACCCATAATTGTTCGAAAACAGATTTTGACATTTTAGGCTCCAAAATCCATCA
65 AATGGTTTTTAT-GCCATAATTGTTCGAAAACAGATTTTGACATTTTAGGCTCCAAAATCCTTCA
* * ** * ** * *
11204394 AAAACAGCTTA-ATCCTAATGCTGTGAAAAATTTTATCATTGCAAGTTAT-GCTCGTTTTATGTT
129 AAAACAGCTTACA-CCTAACGCTATGAAAAATTAAACCAACGCAAGTTATCG-TCGTTCTCTGTT
* * * *
11204457 TGAACAAATTTAATACATTGGATTCAATGATATTCAAATTTGTTTCCATTTCAAAACCTCCT-AA
192 TGAGCAAGTTTAAAACATTGGATTCAATGATATTCAAATTTGTTTCCATTTCAAAACCTGCTAAA
* * * * * *
11204521 ACAGTGTTTTCATACTTTAAAGCTCGACTCTTGCAAAAATCGTTTTCAAGGCAAAACATAGAAAT
257 ACAGT-ATTTCATAGTTTAAAGCTCGACTCTAGCAAAAATCATTTTCAAAGCAAAACATAGAAAC
** * * * * * *
11204586 TTCAAAAACATTAAGCTTTTGAGTTTGTGCATATTATATAAAAATAGGTTAGCATACACAGTTAA
321 TTCAAAAACATTAAGCTTTCAAGTTTGTGCATAATATAAAAAAACAAGTTAACACACACAGTTAA
** * * *
11204651 TCACGCCAAGCGCCAATAACGATTTCACAAATGATATCCAAGTATCAATAGCGTCCCACAAATTC
386 TCACATCAAGCACCAATAACGATTTCACAAATGATATCCAAGTATCAAGAGCATCCCACAAATTC
* *
11204716 C-TTAGAGCATTCACAAATTCTCCTAAAAATACATCTAAA
451 CTTTA-AGCATTCACGAATTCTCCTAAAAATGCATCTAAA
* * * * *
11204755 GCATAAAGTATGAAAAATTAAAACTGTGCGGATGGTTTTTATATCATAATTTGAAATCTATGCGA
1 GCAAAAAGTATGAAAAATTAAAACTGTGCGAATGGTTTTTATATCACAATTTGAAAGCTGTGCGA
*
11204820 ATGGTTTTTATGCCTATAATTGTTCGAAAACAGATTTTCACA-TTTAGGCTCCAAAATCCTTCAA
66 ATGGTTTTTATGCC-ATAATTGTTCGAAAACAGATTTTGACATTTTAGGCTCCAAAATCCTTCAA
* * * *** *
11204884 AAACAGCTTACACCTAACTCTGTGAAAAAAAAATAAAACCAACGCAAGTTATCGTTACTCTTTGT
130 AAACAGCTTACACCTAACGCTATG----AAAAATTAAACCAACGCAAGTTATCGTCGTTCTCTGT
* *
11204949 TTGAGCAAGTTTAAAACATTGGATTCAACGATATTCAAATTTGTTTCTATTTCAAAACCTGCTAA
191 TTGAGCAAGTTTAAAACATTGGATTCAATGATATTCAAATTTGTTTCCATTTCAAAACCTGCTAA
* * * *
11205014 AATAGTATTTCATAGTTTAAAGCTTGACTCTGGCAAAAATCATTTTCAAAGGAAAACATAGAAAC
256 AACAGTATTTCATAGTTTAAAGCTCGACTCTAGCAAAAATCATTTTCAAAGCAAAACATAGAAAC
* * * * *
11205079 TTCAAAAACATTAAGCTTTCAAGTTTGTGCATAATACAGAAAACCATGTTAATACACACAGTTAA
321 TTCAAAAACATTAAGCTTTCAAGTTTGTGCATAATATAAAAAAACAAGTTAACACACACAGTTAA
11205144 TCACATCAAGCACCAATAACGATTTCACAAATGATATCCAAGTATCAAGA-C-T-------A-TC
386 TCACATCAAGCACCAATAACGATTTCACAAATGATATCCAAGTATCAAGAGCATCCCACAAATTC
*
11205199 C------CA--CA--AATTC-CTTAAAAATGCATCTAAA
451 CTTTAAGCATTCACGAATTCTCCTAAAAATGCATCTAAA
* ** * * * **
11205227 GGAAAAAAGTATGAAAAATTAAAACCATAC-AAGTGGTTTTTACATCACAATTTGAAAGCTATTT
1 -GCAAAAAGTATGAAAAATTAAAACTGTGCGAA-TGGTTTTTATATCACAATTTGAAAGCTGTGC
* *
11205291 GAATGGTTTTTATGCCATAATTGTTCGAAAACAGATTTTGACAATATAGGCTCCAAAATCCTTCA
64 GAATGGTTTTTATGCCATAATTGTTCGAAAACAGATTTTGACATTTTAGGCTCCAAAATCCTTCA
* * *
11205356 GAAACAGCTTACAGCTAACGTTATGAAAAATTAAACCAACGCAAGTTATCGTCGTTCTCTGTTTG
129 AAAACAGCTTACACCTAACGCTATGAAAAATTAAACCAACGCAAGTTATCGTCGTTCTCTGTTTG
* * *
11205421 AGCCAGTTTAAATCATTGGATTCAATTATATTCAAATTTGTTTCCATTTCAAAACCTGCTAAAAC
194 AGCAAGTTTAAAACATTGGATTCAATGATATTCAAATTTGTTTCCATTTCAAAACCTGCTAAAAC
* * * * *
11205486 AGTATTTCATAGTTTAAAGCTCGACTCTAGAAAAAAACTTTTTCAAAGCAAAACATATAAACTTG
259 AGTATTTCATAGTTTAAAGCTCGACTCTAGCAAAAATCATTTTCAAAGCAAAACATAGAAACTTC
* ** * *
11205551 AAAAACTTTAAGCTTTCATTTTTGTGCATAATAGATAAAAAAAAACATGTTAGA-ACACATAGTT
324 AAAAACATTAAGCTTTCAAGTTTGTGCATAAT--AT--AAAAAAACAAGTTA-ACACACACAGTT
*
11205615 AATCACATCAAGCACCAATAACGATTTCACAAATGATATCCAAGTATTAAGAGCATCCCACAAAT
384 AATCACATCAAGCACCAATAACGATTTCACAAATGATATCCAAGTATCAAGAGCATCCCACAAAT
11205680 TCCTTTAAGCATTCACGAATTCTCCT-AAAATGCATCTAAA
449 TCCTTTAAGCATTCACGAATTCTCCTAAAAATGCATCTAAA
* * * *
11205720 GCAAAAACGTGTGAAAAATCAAAACTGTGCGAATGGTTTTTATATCATAATTTGAAATCTGTGCG
1 GCAAAAA-GTATGAAAAATTAAAACTGTGCGAATGGTTTTTATATCACAATTTGAAAGCTGTGCG
* * *
11205785 AATGGTTTGTATGCCTATAATTGTTCGAAAATAGATTTTGACAATTTAGGCTCCAAAATCCTTCA
65 AATGGTTTTTATGCC-ATAATTGTTCGAAAACAGATTTTGACATTTTAGGCTCCAAAATCCTTCA
* * *
11205850 AAAACAGCTTATAGCTAACGCTATGAAAAATTAAACCAACGCAAGTTCTCGTCGTTCTCTGTTTG
129 AAAACAGCTTACACCTAACGCTATGAAAAATTAAACCAACGCAAGTTATCGTCGTTCTCTGTTTG
*
11205915 AGCAAGTTTAAAACATTGGATTCAATGATATTCAAATTTGTTTTCATTTCAAAACCTGCTAAAAC
194 AGCAAGTTTAAAACATTGGATTCAATGATATTCAAATTTGTTTCCATTTCAAAACCTGCTAAAAC
*
11205980 AGTATTTCATAGTTTAAAGCTCGACTCTAGAAAAAATCATTTTCAAAGCAAAACATAGAAACTTC
259 AGTATTTCATAGTTTAAAGCTCGACTCTAGCAAAAATCATTTTCAAAGCAAAACATAGAAACTTC
* * * *
11206045 AAAAACTTTAAGCTTTC-A-------C-----ATAAAAAAACAAGTTAGCACACATAGTTAATTA
324 AAAAACATTAAGCTTTCAAGTTTGTGCATAATATAAAAAAACAAGTTAACACACACAGTTAATCA
* * *
11206097 CATCAAGCGCAAATAACGATTTCACAAATGATATCCAAGTATCAAGATCATCCCACAAATTCCTT
389 CATCAAGCACCAATAACGATTTCACAAATGATATCCAAGTATCAAGAGCATCCCACAAATTCCTT
* *
11206162 TAAGCATTCACGAATTCT--TCAAAATGCGTCTAAA
454 TAAGCATTCACGAATTCTCCTAAAAATGCATCTAAA
* * *
11206196 GCAAAAAAGTATGAAAAATTAAAAATATGC-AAGTGGTTTTTACATCACAATTTGAAAGCTGTGC
1 GC-AAAAAGTATGAAAAATTAAAACTGTGCGAA-TGGTTTTTATATCACAATTTGAAAGCTGTGC
*
11206260 GAATGGTTTTTATGCCATAATTGTTCAAAAACAGATTTTGACATTTTAGGCTCCAAAATCCTTCA
64 GAATGGTTTTTATGCCATAATTGTTCGAAAACAGATTTTGACATTTTAGGCTCCAAAATCCTTCA
* * * * *
11206325 AAAACAGCTTACAGCTAACGCTATGAAAAATTAAATCAATGCAAGTTATCATTGTTCTCTGTTTG
129 AAAACAGCTTACACCTAACGCTATGAAAAATTAAACCAACGCAAGTTATCGTCGTTCTCTGTTTG
* * *
11206390 AGTAAGTTTAAAACATTGGATTCAATGGTATTCAAATTTGTTTCCATTTCAAAACTTGCTAAAAC
194 AGCAAGTTTAAAACATTGGATTCAATGATATTCAAATTTGTTTCCATTTCAAAACCTGCTAAAAC
* * *
11206455 TGTATTTTATAGTTTAAAGCTCGACTCTAG-AATAAATCATTTTCAAAGCAAAGCATAGAAACTT
259 AGTATTTCATAGTTTAAAGCTCGACTCTAGCAA-AAATCATTTTCAAAGCAAAACATAGAAACTT
* * * *
11206519 CAAAATCTTTAAGCTTTCACGTTTGTGCATAATATATAAAAAAACAAGTTAGCACACACAGTTAA
323 CAAAAACATTAAGCTTTCAAGTTTGTGCAT-A-ATATAAAAAAACAAGTTAACACACACAGTTAA
*
11206584 TCACATCAAGCACCAATAACGATTTCACAAATGATATCCAATTATCAAGAGCATCCCACAAATTC
386 TCACATCAAGCACCAATAACGATTTCACAAATGATATCCAAGTATCAAGAGCATCCCACAAATTC
* * * **
11206649 CTTTAAGCAATCACGAATTCACCTCAAAATGTGTCTAAA
451 CTTTAAGCATTCACGAATTCTCCTAAAAATGCATCTAAA
* *
11206688 GCAAAAAAGTGTGAAAAATAAAAAGC-GTGCGAATGGTTTTTAT
1 GC-AAAAAGTATGAAAAATTAAAA-CTGTGCGAATGGTTTTTAT
11206731 GCCCATAATT
Statistics
Matches: 2158, Mismatches: 232, Indels: 149
0.85 0.09 0.06
Matches are distributed among these distances:
469 180 0.08
471 1 0.00
472 43 0.02
473 183 0.08
474 4 0.00
475 247 0.11
476 76 0.04
477 113 0.05
479 2 0.00
482 1 0.00
483 7 0.00
484 1 0.00
486 1 0.00
487 8 0.00
488 191 0.09
489 162 0.08
490 307 0.14
491 7 0.00
492 56 0.03
493 310 0.14
494 258 0.12
ACGTcount: A:0.39, C:0.18, G:0.12, T:0.31
Consensus pattern (489 bp):
GCAAAAAGTATGAAAAATTAAAACTGTGCGAATGGTTTTTATATCACAATTTGAAAGCTGTGCGA
ATGGTTTTTATGCCATAATTGTTCGAAAACAGATTTTGACATTTTAGGCTCCAAAATCCTTCAAA
AACAGCTTACACCTAACGCTATGAAAAATTAAACCAACGCAAGTTATCGTCGTTCTCTGTTTGAG
CAAGTTTAAAACATTGGATTCAATGATATTCAAATTTGTTTCCATTTCAAAACCTGCTAAAACAG
TATTTCATAGTTTAAAGCTCGACTCTAGCAAAAATCATTTTCAAAGCAAAACATAGAAACTTCAA
AAACATTAAGCTTTCAAGTTTGTGCATAATATAAAAAAACAAGTTAACACACACAGTTAATCACA
TCAAGCACCAATAACGATTTCACAAATGATATCCAAGTATCAAGAGCATCCCACAAATTCCTTTA
AGCATTCACGAATTCTCCTAAAAATGCATCTAAA
Found at i:11206481 original size:475 final size:478
Alignment explanation
Indices: 11205204--11206711 Score: 2137
Period size: 494 Copynumber: 3.1 Consensus size: 478
11205194 CTATCCCACA
* * ** *
11205204 AATTCCTTAAAAATGCATCTAAAGGAAAAAAGTATGAAAAATTAAAACCATACAAGTGGTTTTTA
1 AATTCCTTCAAAATGCATCTAAAGCAAAAAAGTATGAAAAATTAAAAATATGCAAGTGGTTTTTA
* **
11205269 CATCACAATTTGAAAGCTATTTGAATGGTTTTTATGCCATAATTGTTCGAAAACAGATTTTGACA
66 CATCACAATTTGAAAGCTGTGCGAATGGTTTTTATGCCATAATTGTTCGAAAACAGATTTTGACA
* * *
11205334 ATATAGGCTCCAAAATCCTTCAGAAACAGCTTACAGCTAACGTTATGAAAAATTAAACCAACGCA
131 ATTTAGGCTCCAAAATCCTTCAAAAACAGCTTACAGCTAACGCTATGAAAAATTAAACCAACGCA
* * *
11205399 AGTTATCGTCGTTCTCTGTTTGAGCCAGTTTAAATCATTGGATTCAATTATATTCAAATTTGTTT
196 AGTTATCGTCGTTCTCTGTTTGAGCAAGTTTAAAACATTGGATTCAATGATATTCAAATTTGTTT
* *
11205464 CCATTTCAAAACCTGCTAAAACAGTATTTCATAGTTTAAAGCTCGACTCTAGAAAAAAACTTTTT
261 CCATTTCAAAACCTGCTAAAACAGTATTTCATAGTTTAAAGCTCGACTCTAGAAAAAATCATTTT
* *
11205529 CAAAGCAAAACATATAAACTTGAAAAACTTTAAGCTTTCATTTTTGTGCATAATAGATAAAAAAA
326 CAAAGCAAAACATAGAAACTTCAAAAACTTTAAGCTTTCA------T-C-----A-AT--AAAAA
* *
11205594 AACATGTTAGAACACATAGTTAATCACATCAAGCACCAATAACGATTTCACAAATGATATCCAAG
376 AACAAGTTAGCACACATAGTTAATCACATCAAGCACCAATAACGATTTCACAAATGATATCCAAG
*
11205659 TATTAAGAGCATCCCACAAATTCCTTTAAGCATTCACG
441 TATCAAGAGCATCCCACAAATTCCTTTAAGCATTCACG
* * * * * *
11205697 AATT-CTCCTAAAATGCATCTAAAGCAAAAACGTGTGAAAAATCAAAACTGTGCGAA-TGGTTTT
1 AATTCCTTC-AAAATGCATCTAAAGCAAAAAAGTATGAAAAATTAAAAATATGC-AAGTGGTTTT
* * * * *
11205760 TATATCATAATTTGAAATCTGTGCGAATGGTTTGTATGCCTATAATTGTTCGAAAATAGATTTTG
64 TACATCACAATTTGAAAGCTGTGCGAATGGTTTTTATGCC-ATAATTGTTCGAAAACAGATTTTG
*
11205825 ACAATTTAGGCTCCAAAATCCTTCAAAAACAGCTTATAGCTAACGCTATGAAAAATTAAACCAAC
128 ACAATTTAGGCTCCAAAATCCTTCAAAAACAGCTTACAGCTAACGCTATGAAAAATTAAACCAAC
*
11205890 GCAAGTTCTCGTCGTTCTCTGTTTGAGCAAGTTTAAAACATTGGATTCAATGATATTCAAATTTG
193 GCAAGTTATCGTCGTTCTCTGTTTGAGCAAGTTTAAAACATTGGATTCAATGATATTCAAATTTG
*
11205955 TTTTCATTTCAAAACCTGCTAAAACAGTATTTCATAGTTTAAAGCTCGACTCTAGAAAAAATCAT
258 TTTCCATTTCAAAACCTGCTAAAACAGTATTTCATAGTTTAAAGCTCGACTCTAGAAAAAATCAT
11206020 TTTCAAAGCAAAACATAGAAACTTCAAAAACTTTAAGCTTTCA-C-ATAAAAAAACAAGTTAGCA
323 TTTCAAAGCAAAACATAGAAACTTCAAAAACTTTAAGCTTTCATCAATAAAAAAACAAGTTAGCA
* * * *
11206083 CACATAGTTAATTACATCAAGCGCAAATAACGATTTCACAAATGATATCCAAGTATCAAGATCAT
388 CACATAGTTAATCACATCAAGCACCAATAACGATTTCACAAATGATATCCAAGTATCAAGAGCAT
11206148 CCCACAAATTCCTTTAAGCATTCACG
453 CCCACAAATTCCTTTAAGCATTCACG
*
11206174 AATT-CTTCAAAATGCGTCTAAAGCAAAAAAGTATGAAAAATTAAAAATATGCAAGTGGTTTTTA
1 AATTCCTTCAAAATGCATCTAAAGCAAAAAAGTATGAAAAATTAAAAATATGCAAGTGGTTTTTA
*
11206238 CATCACAATTTGAAAGCTGTGCGAATGGTTTTTATGCCATAATTGTTCAAAAACAGATTTTGACA
66 CATCACAATTTGAAAGCTGTGCGAATGGTTTTTATGCCATAATTGTTCGAAAACAGATTTTGACA
* * *
11206303 TTTTAGGCTCCAAAATCCTTCAAAAACAGCTTACAGCTAACGCTATGAAAAATTAAATCAATGCA
131 ATTTAGGCTCCAAAATCCTTCAAAAACAGCTTACAGCTAACGCTATGAAAAATTAAACCAACGCA
* * * *
11206368 AGTTATCATTGTTCTCTGTTTGAGTAAGTTTAAAACATTGGATTCAATGGTATTCAAATTTGTTT
196 AGTTATCGTCGTTCTCTGTTTGAGCAAGTTTAAAACATTGGATTCAATGATATTCAAATTTGTTT
* * * *
11206433 CCATTTCAAAACTTGCTAAAACTGTATTTTATAGTTTAAAGCTCGACTCTAGAATAAATCATTTT
261 CCATTTCAAAACCTGCTAAAACAGTATTTCATAGTTTAAAGCTCGACTCTAGAAAAAATCATTTT
* *
11206498 CAAAGCAAAGCATAGAAACTTCAAAATCTTTAAGCTTTCACGTTTGTGCATAATATATAAAAAAA
326 CAAAGCAAAACATAGAAACTTCAAAAACTTTAAGCTTTCA------T-C-----A-ATAAAAAAA
* *
11206563 CAAGTTAGCACACACAGTTAATCACATCAAGCACCAATAACGATTTCACAAATGATATCCAATTA
378 CAAGTTAGCACACATAGTTAATCACATCAAGCACCAATAACGATTTCACAAATGATATCCAAGTA
*
11206628 TCAAGAGCATCCCACAAATTCCTTTAAGCAATCACG
443 TCAAGAGCATCCCACAAATTCCTTTAAGCATTCACG
* ** *
11206664 AATTCACCTCAAAATGTGTCTAAAGCAAAAAAGTGTGAAAAA-TAAAAA
1 AATTC-CTTCAAAATGCATCTAAAGCAAAAAAGTATGAAAAATTAAAAA
11206712 GCGTGCGAAT
Statistics
Matches: 918, Mismatches: 76, Indels: 44
0.88 0.07 0.04
Matches are distributed among these distances:
475 246 0.27
476 81 0.09
477 108 0.12
479 2 0.00
483 1 0.00
486 1 0.00
490 107 0.12
491 6 0.01
492 35 0.04
493 81 0.09
494 250 0.27
ACGTcount: A:0.40, C:0.17, G:0.12, T:0.31
Consensus pattern (478 bp):
AATTCCTTCAAAATGCATCTAAAGCAAAAAAGTATGAAAAATTAAAAATATGCAAGTGGTTTTTA
CATCACAATTTGAAAGCTGTGCGAATGGTTTTTATGCCATAATTGTTCGAAAACAGATTTTGACA
ATTTAGGCTCCAAAATCCTTCAAAAACAGCTTACAGCTAACGCTATGAAAAATTAAACCAACGCA
AGTTATCGTCGTTCTCTGTTTGAGCAAGTTTAAAACATTGGATTCAATGATATTCAAATTTGTTT
CCATTTCAAAACCTGCTAAAACAGTATTTCATAGTTTAAAGCTCGACTCTAGAAAAAATCATTTT
CAAAGCAAAACATAGAAACTTCAAAAACTTTAAGCTTTCATCAATAAAAAAACAAGTTAGCACAC
ATAGTTAATCACATCAAGCACCAATAACGATTTCACAAATGATATCCAAGTATCAAGAGCATCCC
ACAAATTCCTTTAAGCATTCACG
Found at i:11208396 original size:491 final size:490
Alignment explanation
Indices: 11206718--11208599 Score: 2546
Period size: 491 Copynumber: 3.8 Consensus size: 490
11206708 AAAAGCGTGC
*
11206718 GAATGGTTTTTATGCCCATAATTGTTCGAAAGCAGATTTTGACATTTTAGGCTCCAAAATCCTCC
1 GAATGGTTTTTATGCCCATAATTGTTCGAAAACAGATTTTGACATTTTAGGCTCCAAAATCCTCC
* * * *
11206783 AAAAATAGCTTGCACCTAATGCTATGAAAAATTAAAACCAACCCAGGTTA-CAGTCGTTCTTTGT
66 AAAAACAGCTTGCACCTAAAGCTATGAAAAATTAAAACCAACGCAAGTTATC-GTCGTTCTTTGT
***
11206847 TTGAGCAAGTTTAAAACATTGGATCCAACAATATTCAAATTCGTTTCTGCTTCAAAACCTGCTAA
130 TTGAGCAAGTTTAAAACATTGGATCCAACAATATTCAAATTCGTTTCCATTTCAAAACCTGCTAA
** *
11206912 AACAGTATTTCATACTTTAAAGCTCAACTCTAGCGTAAATCATTTTCAAAGCAGAACATAGAAAC
195 AACAGTATTTCATACTTTAAAGCTCAACTCTAGCAAAAATCATTTTCAAAGCAAAACATAGAAAC
* *
11206977 CTCAAAAACATTAAGCTTTTGAGTTTGTG-AATAATATATAAAAACAAGTTA--ACACAGTTAAT
260 TTCAAAAACATTAAGCTTTTGAGTTTGTGCAAAAATATATAAAAACAAGTTAGCACACAGTTAAT
* * * *
11207039 CACACCAAGCACCAATAATGATTTCACAAATGATATCCAAGTATCAATAGCATCCCACAAATTCC
325 CACACCAAGCGCCAATAACGATTTCACAAATGATATCCAAGTATCAAGAGCATCCCACAAAATCC
* * * * * *
11207104 TTAGAGCATTCACAAATTCTCCTAAAAATGCTTCTAAAGCAAAAAAGTATGAAAAATTAAAA-CA
390 TTAGAGCATTCACGAATTCTCCTAAAATTGCATCAAAAG-AAAAAAGTATGAAATATTAAAACCG
* *
11207168 TGCGAATGGTTTTTATATCACAATTTGAAAGCTTGTGCA
454 TGTGAATGGTTTTTATATCACAATTTGAAAG-ATGTG-A
* * * * * *
11207207 -AAAGGTTTTTTTGCCAATAATTGTTCAAAAACAGATTTTGACATGTTAGGCTCCAAAATCCTTC
1 GAATGGTTTTTATGCCCATAATTGTTCGAAAACAGATTTTGACATTTTAGGCTCCAAAATCCTCC
* * * *
11207271 AAAAACAGCTAGTACCT-AA-C-ATTGTAAAGAATTAAAACCAATGCAAGTTATCCTCGTTCTTT
66 AAAAACAGCTTGCACCTAAAGCTA-TG-AAA-AATTAAAACCAACGCAAGTTATCGTCGTTCTTT
* * * * * *
11207333 GTTTGAGCAAATTTAAAACATTGGATTCTACGATATTTAAATTCGTTTCCATTTCAAAACCTGCG
128 GTTTGAGCAAGTTTAAAACATTGGATCCAACAATATTCAAATTCGTTTCCATTTCAAAACCTGCT
* * *
11207398 AAAACAGT-TTTTATACTTTAAAGCTCGACTCTAGCAAAAATCATTTTCAAAGCAAAACATATAA
193 AAAACAGTATTTCATACTTTAAAGCTCAACTCTAGCAAAAATCATTTTCAAAGCAAAACATAGAA
*
11207462 ACTTCAAAAACATTAAGCTTTTGAGTTTGTGC-ATAATATATAAAAACAAGTTAGCACAAACAGT
258 ACTTCAAAAACATTAAGCTTTTGAGTTTGTGCAAAAATATATAAAAACAAGTTAGCAC--ACAGT
* *
11207526 TAATCACACCAAGCGCCAATAACAATTTCACAAATGATATCCAAGTTTCAAGAGCATCCCAC-AA
321 TAATCACACCAAGCGCCAATAACGATTTCACAAATGATATCCAAGTATCAAGAGCATCCCACAAA
* * *
11207590 ATACCTTTGGGCATTCACGAATTCTCCTAAAATTGCATCAAAAGCAAAAA--A-G---TATTAAA
386 AT-CCTTAGAGCATTCACGAATTCTCCTAAAATTGCATCAAAAGAAAAAAGTATGAAATATTAAA
* * *
11207649 ACTGTGTGAATGGTTTTTATATCACAATTTGAAAGCTGTGT
450 ACCGTGTGAATGGTTTTTATATCACAATTTGAAAGATGTGA
* *
11207690 GAATGGTTTTTATGCCCATAATTGTTCGAAAATAGATTTTGACATTTTAGGCTCCAAAATCCTTC
1 GAATGGTTTTTATGCCCATAATTGTTCGAAAACAGATTTTGACATTTTAGGCTCCAAAATCCTCC
* * * * *
11207755 AAAAACAGCTTGCACCTAACGCTACGAAAAATTAAAACTAACGCAAGTTATCATCTTTCTTTGTT
66 AAAAACAGCTTGCACCTAAAGCTATGAAAAATTAAAACCAACGCAAGTTATCGTCGTTCTTTGTT
* ** * * * *
11207820 TGAGCAAGTTTAAAACATTGGATCGAATGATATTCAAATTTGTTTCCGTTTCAAAGCCTACTAAA
131 TGAGCAAGTTTAAAACATTGGATCCAACAATATTCAAATTCGTTTCCATTTCAAAACCTGCTAAA
* * * *
11207885 ACAGTATTTCATACTTTAAAGATCAACTCTAGTAAAAATGATTTTCAAAACAAAACATAGAAACT
196 ACAGTATTTCATACTTTAAAGCTCAACTCTAGCAAAAATCATTTTCAAAGCAAAACATAGAAACT
*
11207950 TCAAAAACATTATGCTTTTGAGTTTGTGCAAAATATATATAAAAACAAGTTAGCACACAGTTAAT
261 TCAAAAACATTAAGCTTTTGAGTTTGTGCAAAA-ATATATAAAAACAAGTTAGCACACAGTTAAT
** * *
11208015 CATGTCTAA-CGCCAATAACGATTTCACAAATGATATCCAAGTATCAATAGCATCCCACAAAATC
325 CA-CACCAAGCGCCAATAACGATTTCACAAATGATATCCAAGTATCAAGAGCATCCCACAAAATC
* * *
11208079 CCTAGAGAATTCATGAATTCTCCTAAAATTGCATCAAAAGAAAAAAAGTATGAAATATTAAAACC
389 CTTAGAGCATTCACGAATTCTCCTAAAATTGCATCAAAAG-AAAAAAGTATGAAATATTAAAACC
11208144 GTGTGAATGGTTTTTATATCACAATTTGAAAGATGTGA
453 GTGTGAATGGTTTTTATATCACAATTTGAAAGATGTGA
* ** *
11208182 GATTGG-TTTTATGCCCATAATCATTCGAAAACAGATTTTGACATTTTAGGATCCAAAATCCTCC
1 GAATGGTTTTTATGCCCATAATTGTTCGAAAACAGATTTTGACATTTTAGGCTCCAAAATCCTCC
* * *
11208246 AAAAACAGCTTGCACCTAAAGCTATGAACAATTAAAACCGAA-GAAAGTTATCGTCGTTTTTTGT
66 AAAAACAGCTTGCACCTAAAGCTATGAAAAATTAAAACC-AACGCAAGTTATCGTCGTTCTTTGT
* *
11208310 TTGAGCAAGTTTAAAACATTGGATCCAACAATATTCAAATTTGTTTCCATTTCAGAACCTGCTAA
130 TTGAGCAAGTTTAAAACATTGGATCCAACAATATTCAAATTCGTTTCCATTTCAAAACCTGCTAA
* * * * *
11208375 AACAATAATTCATACTTTAAAGTTCAACCCTTGCAAAAATCATTTTCAAAGCAAAACATAGAAAC
195 AACAGTATTTCATACTTTAAAGCTCAACTCTAGCAAAAATCATTTTCAAAGCAAAACATAGAAAC
* * *
11208440 TTCAAAAACATTAAGCTTTTGAGTTTGTGTATAATATATAAAAAAACAAGTTAGCACACGTAGTT
260 TTCAAAAACATTAAGCTTTTGAGTTTGTGCA-AAAATATATAAAAACAAGTTAGCACAC--AGTT
* * * *
11208505 AATCACATCAAGCGCCAATAACGATTTCACAAATTATATCAAAGTATCAAGAGCATCCCACAAAT
322 AATCACACCAAGCGCCAATAACGATTTCACAAATGATATCCAAGTATCAAGAGCATCCCACAAAA
* *
11208570 TCATTAAAGCATTCACGAATTCTCCTAAAA
387 TCCTTAGAGCATTCACGAATTCTCCTAAAA
11208600 ATCCGTCTAA
Statistics
Matches: 1216, Mismatches: 145, Indels: 60
0.86 0.10 0.04
Matches are distributed among these distances:
484 175 0.14
485 208 0.17
486 19 0.02
487 129 0.11
488 164 0.13
489 4 0.00
490 8 0.01
491 370 0.30
492 56 0.05
493 83 0.07
ACGTcount: A:0.39, C:0.18, G:0.12, T:0.30
Consensus pattern (490 bp):
GAATGGTTTTTATGCCCATAATTGTTCGAAAACAGATTTTGACATTTTAGGCTCCAAAATCCTCC
AAAAACAGCTTGCACCTAAAGCTATGAAAAATTAAAACCAACGCAAGTTATCGTCGTTCTTTGTT
TGAGCAAGTTTAAAACATTGGATCCAACAATATTCAAATTCGTTTCCATTTCAAAACCTGCTAAA
ACAGTATTTCATACTTTAAAGCTCAACTCTAGCAAAAATCATTTTCAAAGCAAAACATAGAAACT
TCAAAAACATTAAGCTTTTGAGTTTGTGCAAAAATATATAAAAACAAGTTAGCACACAGTTAATC
ACACCAAGCGCCAATAACGATTTCACAAATGATATCCAAGTATCAAGAGCATCCCACAAAATCCT
TAGAGCATTCACGAATTCTCCTAAAATTGCATCAAAAGAAAAAAGTATGAAATATTAAAACCGTG
TGAATGGTTTTTATATCACAATTTGAAAGATGTGA
Found at i:11212856 original size:20 final size:21
Alignment explanation
Indices: 11212815--11212856 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
11212805 TAAAAGTAAG
*
11212815 AAAGAAATGAATAAATAGTTA
1 AAAGAAATGAATAAAGAGTTA
11212836 AAAGAAA-GAATATAAGA-TTA
1 AAAGAAATGAATA-AAGAGTTA
11212856 A
1 A
11212857 TATAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.64, C:0.00, G:0.14, T:0.21
Consensus pattern (21 bp):
AAAGAAATGAATAAAGAGTTA
Found at i:11216072 original size:15 final size:16
Alignment explanation
Indices: 11216052--11216085 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
11216042 ATTCTTTTTA
11216052 CTAGTTTC-AAAATAT
1 CTAGTTTCAAAAATAT
11216067 CTAGTTTCGAAAAATAT
1 CTAGTTTC-AAAAATAT
11216084 CT
1 CT
11216086 CGAACACAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.47
17 9 0.53
ACGTcount: A:0.38, C:0.15, G:0.09, T:0.38
Consensus pattern (16 bp):
CTAGTTTCAAAAATAT
Found at i:11219397 original size:21 final size:22
Alignment explanation
Indices: 11219367--11219411 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 22
11219357 TTGCAAGGGA
* *
11219367 CCGCATCGAGTAG-CTGAATGC
1 CCGCACCGAGGAGCCTGAATGC
11219388 CCGCACCGAGGAGCCCTGAATGC
1 CCGCACCGAGGAG-CCTGAATGC
11219411 C
1 C
11219412 TTAAGGACCT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 11 0.55
23 9 0.45
ACGTcount: A:0.22, C:0.36, G:0.29, T:0.13
Consensus pattern (22 bp):
CCGCACCGAGGAGCCTGAATGC
Found at i:11227363 original size:17 final size:17
Alignment explanation
Indices: 11227321--11227363 Score: 54
Period size: 16 Copynumber: 2.5 Consensus size: 17
11227311 ACTCAATCAG
11227321 CCAAGAAATACTCAAAAC
1 CCAA-AAATACTCAAAAC
11227339 CC-AAAATA-TCTAAAAC
1 CCAAAAATACTC-AAAAC
11227355 CCAAAAATA
1 CCAAAAATA
11227364 GGCAATCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
15 2 0.09
16 12 0.52
17 7 0.30
18 2 0.09
ACGTcount: A:0.58, C:0.26, G:0.02, T:0.14
Consensus pattern (17 bp):
CCAAAAATACTCAAAAC
Found at i:11227745 original size:15 final size:15
Alignment explanation
Indices: 11227727--11227757 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
11227717 ATCTTTGTTT
*
11227727 TAAAAATAATAATAA
1 TAAAAATAAAAATAA
11227742 TAAAAATAAAAATAA
1 TAAAAATAAAAATAA
11227757 T
1 T
11227758 TTCAAAACTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (15 bp):
TAAAAATAAAAATAA
Found at i:11227979 original size:109 final size:112
Alignment explanation
Indices: 11227790--11228005 Score: 282
Period size: 110 Copynumber: 2.0 Consensus size: 112
11227780 AAGAATAAAT
11227790 TTTTCTTAAAAATAAAAATTTTCAAAAAAAGTTTTAAGAAAAAGTTATAAGTATAAATTTTCCTT
1 TTTTCTTAAAAATAAAAATTTTCAAAAAAAGTTTTAAGAAAAAGTTATAAGTATAAATTTTCCTT
*
11227855 AAAATAAAAATTTTCAAAAA-ATATTGAAG-AAAAGTTGAAAGGTTAA
66 AAAATAAAAATTTTCAAAAATAT-TTGAAGAAAAAGTTAAAAGGTTAA
*** * * * *
11227901 TTTTCTT-AAAATAAAAAATTTT-AAAAGGTGTTTTGAGCAAAAGTT-TAAGTATCAATTTTTCT
1 TTTTCTTAAAAAT-AAAAATTTTCAAAAAAAGTTTTAAGAAAAAGTTATAAGTATAAATTTTCCT
*
11227963 T-AAATAAATATATTTCAAAAATATTTGAAGAAAAAGTTAAAAG
65 TAAAATAAAAAT-TTTCAAAAATATTTGAAGAAAAAGTTAAAAG
11228006 TATCAATTTT
Statistics
Matches: 92, Mismatches: 9, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
108 9 0.10
109 31 0.34
110 36 0.39
111 16 0.17
ACGTcount: A:0.50, C:0.05, G:0.10, T:0.36
Consensus pattern (112 bp):
TTTTCTTAAAAATAAAAATTTTCAAAAAAAGTTTTAAGAAAAAGTTATAAGTATAAATTTTCCTT
AAAATAAAAATTTTCAAAAATATTTGAAGAAAAAGTTAAAAGGTTAA
Found at i:11228009 original size:56 final size:56
Alignment explanation
Indices: 11227771--11228023 Score: 238
Period size: 55 Copynumber: 4.5 Consensus size: 56
11227761 AAAACTTTGA
* * *
11227771 AAAAAGTT-AAAGAATAAATTTTTCTTAAAAATAAAAATTTTCAAAAAAAGTTTTAAG
1 AAAAAGTTAAAAGTATAAATTTTTCTT-AAAATAAAAATTTTCAAAAATA-TTTGAAG
* *
11227828 AAAAAGTTATAAGTATAAATTTTCCTTAAAATAAAAATTTTCAAAAA-ATATTGAAG
1 AAAAAGTTAAAAGTATAAATTTTTCTTAAAATAAAAATTTTCAAAAATAT-TTGAAG
* * *
11227884 -AAAAGTTGAAAGGT-T-AA-TTTTCTTAAAATAAAAAATTTT-AAAAGGTGTTTTG-AG
1 AAAAAGTT-AAAAGTATAAATTTTTCTTAAAAT-AAAAATTTTCAAAA-AT-ATTTGAAG
* * * *
11227938 CAAAAGTT-TAAGTATCAATTTTTCTT-AAATAAATATATTTCAAAAATATTTGAAG
1 AAAAAGTTAAAAGTATAAATTTTTCTTAAAATAAAAAT-TTTCAAAAATATTTGAAG
*
11227993 AAAAAGTTAAAAGTATCAATTTTTTCTTAAA
1 AAAAAGTTAAAAGTAT-AAATTTTTCTTAAA
11228024 TAATGCACCC
Statistics
Matches: 161, Mismatches: 18, Indels: 33
0.76 0.08 0.16
Matches are distributed among these distances:
53 18 0.11
54 23 0.14
55 38 0.24
56 28 0.17
57 37 0.23
58 17 0.11
ACGTcount: A:0.50, C:0.05, G:0.09, T:0.36
Consensus pattern (56 bp):
AAAAAGTTAAAAGTATAAATTTTTCTTAAAATAAAAATTTTCAAAAATATTTGAAG
Found at i:11234285 original size:5 final size:5
Alignment explanation
Indices: 11234275--11234299 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
11234265 CACATATAAA
11234275 AATAT AATAT AATAT AATAT AATAT
1 AATAT AATAT AATAT AATAT AATAT
11234300 TTATTTATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
AATAT
Found at i:11238995 original size:2 final size:2
Alignment explanation
Indices: 11238985--11239034 Score: 91
Period size: 2 Copynumber: 25.0 Consensus size: 2
11238975 TCTCATCCTT
*
11238985 TC TC CC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
11239027 TC TC TC TC
1 TC TC TC TC
11239035 CTTATACATA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
TC
Found at i:11246630 original size:15 final size:15
Alignment explanation
Indices: 11246610--11246643 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
11246600 ATAATATTGT
* *
11246610 ATAAAAATTATACAA
1 ATAAAAAATATAAAA
11246625 ATAAAAAATATAAAA
1 ATAAAAAATATAAAA
11246640 ATAA
1 ATAA
11246644 TATAATTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (15 bp):
ATAAAAAATATAAAA
Found at i:11246685 original size:22 final size:22
Alignment explanation
Indices: 11246657--11246698 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
11246647 AATTTAAAAT
11246657 TTTAATAAAAATT-ATAAATAAA
1 TTTAAT-AAAATTAATAAATAAA
11246679 TTTAATAAAATTAATAAATA
1 TTTAATAAAATTAATAAATA
11246699 CTTTTTATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (22 bp):
TTTAATAAAATTAATAAATAAA
Found at i:11247928 original size:29 final size:30
Alignment explanation
Indices: 11247895--11247962 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 30
11247885 ATTTTAAATA
* *
11247895 AAATATTAATTTATG-TTAAGAGTTTATTT
1 AAATATTAATTAATGATTAAGAATTTATTT
* *
11247924 AAATATAAATTAATGATTAAGAATTTTTTT
1 AAATATTAATTAATGATTAAGAATTTATTT
11247954 ATAA-ATTAA
1 A-AATATTAA
11247963 AATTTAAAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
29 13 0.41
30 17 0.53
31 2 0.06
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.47
Consensus pattern (30 bp):
AAATATTAATTAATGATTAAGAATTTATTT
Found at i:11247981 original size:25 final size:25
Alignment explanation
Indices: 11247920--11248054 Score: 89
Period size: 26 Copynumber: 5.2 Consensus size: 25
11247910 TTAAGAGTTT
* *
11247920 ATTTAAATATAAATTAATGA-TTAAGA
1 ATTTTAATATAAATTAA-AATTTAA-A
**
11247946 ATTTTTTTATAAATTAAAATTTAAA
1 ATTTTAATATAAATTAAAATTTAAA
* *
11247971 ATTTTAATATAAATCAAAGATTAAAA
1 ATTTTAATATAAATTAAA-ATTTAAA
*
11247997 ATTTATTTAA-ATATAATAAAAATTTAAA
1 A--T-TTTAATATA-AATTAAAATTTAAA
* *
11248025 ATTTT-ATCTAAA-TAAAATAATAAA
1 ATTTTAATATAAATTAAAAT-TTAAA
11248049 ATTTTA
1 ATTTTA
11248055 TTATTTTAAT
Statistics
Matches: 87, Mismatches: 13, Indels: 19
0.73 0.11 0.16
Matches are distributed among these distances:
23 5 0.06
24 12 0.14
25 22 0.25
26 26 0.30
28 11 0.13
29 11 0.13
ACGTcount: A:0.54, C:0.01, G:0.02, T:0.42
Consensus pattern (25 bp):
ATTTTAATATAAATTAAAATTTAAA
Found at i:11247993 original size:51 final size:54
Alignment explanation
Indices: 11247920--11248056 Score: 147
Period size: 51 Copynumber: 2.6 Consensus size: 54
11247910 TTAAGAGTTT
* * * * * *
11247920 ATTTAAATATAAATTAATGATTAAGAATTT-TTT-TATA-AATTAAAATTTAAA
1 ATTTTAATATAAATCAAAGATTAAAAATTTATTTAAATATAATAAAAATTTAAA
11247971 ATTTTAATATAAATCAAAGATTAAAAATTTATTTAAATATAATAAAAATTTAAA
1 ATTTTAATATAAATCAAAGATTAAAAATTTATTTAAATATAATAAAAATTTAAA
* * * * *
11248025 ATTTT-ATCTAAATAAAATAATAAAATTTTATT
1 ATTTTAATATAAATCAAAGATTAAAAATTTATT
11248057 ATTTTAATAA
Statistics
Matches: 72, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
51 26 0.36
52 3 0.04
53 25 0.35
54 18 0.25
ACGTcount: A:0.53, C:0.01, G:0.02, T:0.43
Consensus pattern (54 bp):
ATTTTAATATAAATCAAAGATTAAAAATTTATTTAAATATAATAAAAATTTAAA
Found at i:11248012 original size:30 final size:30
Alignment explanation
Indices: 11247917--11248044 Score: 84
Period size: 29 Copynumber: 4.6 Consensus size: 30
11247907 ATGTTAAGAG
** *
11247917 TTTATTTAAATATAAATTAATGA-TTAAGAA
1 TTTATTTAAATATAAA-TAAAAATTTAAAAA
*
11247947 TTT-TTT---TATAAATTAAAATTT-AAAA
1 TTTATTTAAATATAAATAAAAATTTAAAAA
*
11247972 --T-TTT-AATATAAATCAAAGA-TTAAAAA
1 TTTATTTAAATATAAAT-AAAAATTTAAAAA
*
11247998 TTTATTTAAATAT-AATAAAAATTTAAAAT
1 TTTATTTAAATATAAATAAAAATTTAAAAA
*
11248027 TTTATCTAAATA-AAATAA
1 TTTATTTAAATATAAATAA
11248045 TAAAATTTTA
Statistics
Matches: 78, Mismatches: 9, Indels: 23
0.71 0.08 0.21
Matches are distributed among these distances:
23 4 0.05
25 15 0.19
26 15 0.19
28 5 0.06
29 31 0.40
30 8 0.10
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (30 bp):
TTTATTTAAATATAAATAAAAATTTAAAAA
Found at i:11248038 original size:24 final size:24
Alignment explanation
Indices: 11247948--11248055 Score: 83
Period size: 24 Copynumber: 4.2 Consensus size: 24
11247938 GATTAAGAAT
* *
11247948 TTTTTTATAAATTAAAATTTAAAA
1 TTTTATATAAATAAAAATTTAAAA
* *
11247972 TTTTAATATAAATCAAAGATTAAAAA
1 TTTT-ATATAAAT-AAAAATTTAAAA
*
11247998 TTTATTTAAATATAATAAAAATTTAAAA
1 --T-TTTATATA-AATAAAAATTTAAAA
* *
11248026 TTTTATCTAAAT-AAAATAATAAAA
1 TTTTATATAAATAAAAAT-TTAAAA
11248050 TTTTAT
1 TTTTAT
11248056 TATTTTAATA
Statistics
Matches: 67, Mismatches: 10, Indels: 14
0.74 0.11 0.15
Matches are distributed among these distances:
23 5 0.07
24 18 0.27
25 13 0.19
26 10 0.15
28 15 0.22
29 6 0.09
ACGTcount: A:0.54, C:0.02, G:0.01, T:0.44
Consensus pattern (24 bp):
TTTTATATAAATAAAAATTTAAAA
Found at i:11265746 original size:20 final size:20
Alignment explanation
Indices: 11265721--11265768 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
11265711 CCAATTACCG
11265721 ACCCATAATAGGGGCCCATA
1 ACCCATAATAGGGGCCCATA
11265741 ACCCATAATAGGGGCCCATA
1 ACCCATAATAGGGGCCCATA
*
11265761 GCCCATAA
1 ACCCATAA
11265769 AGACACATGT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.35, C:0.31, G:0.19, T:0.15
Consensus pattern (20 bp):
ACCCATAATAGGGGCCCATA
Found at i:11276438 original size:20 final size:20
Alignment explanation
Indices: 11276413--11276466 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
11276403 ATATCACTCA
11276413 ATCGATGCTTGCATTGCTCG
1 ATCGATGCTTGCATTGCTCG
*
11276433 ATCGATG-TTCACATTGCTCG
1 ATCGATGCTT-GCATTGCTCG
*
11276453 ATTGATGCTTGCAT
1 ATCGATGCTTGCAT
11276467 CGTAACCCCC
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
19 2 0.07
20 25 0.86
21 2 0.07
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.37
Consensus pattern (20 bp):
ATCGATGCTTGCATTGCTCG
Found at i:11302344 original size:6 final size:7
Alignment explanation
Indices: 11302326--11302355 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
11302316 AAGATGACTC
11302326 ATTTTTT
1 ATTTTTT
11302333 ATTTTTT
1 ATTTTTT
11302340 ATTTTTT
1 ATTTTTT
11302347 ATTTTTT
1 ATTTTTT
11302354 AT
1 AT
11302356 GATTTTTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (7 bp):
ATTTTTT
Found at i:11303542 original size:181 final size:179
Alignment explanation
Indices: 11302919--11304893 Score: 925
Period size: 181 Copynumber: 11.1 Consensus size: 179
11302909 AGCATGGTAC
** * * * *
11302919 ACTATTTGAACTTATTCGATAAATAGATTCATTTTTTAGATCTCTTACTTATTAATTTTCAAAAT
1 ACTATTTGAACTGGTTCGA-AAATAAATTTATTTTTTAAATCTCTTAGTTATTAATTTTC-AAAT
** * ** * * * * * *
11302984 ATTAATAAATTAGA-ATTACGTTATTTCGAATTAGCTTGTACGAATAGAAACAGTTATTTTGTGA
64 ATTAATAAATTA-ATATTATTTTATTTCAAACAAACTTGTATGAACAAAAACAATTATTTTATGA
* * * * * ***
11303048 TAAAAAAAAATGTCATAACGTTTTGAAATAAATAATTA-TCAAACAATTATA
128 TAAAATAAAATGTCATAATGATTTGAAATAGATAATTATTCAAATAGCCATA
* ** * * * * *
11303099 ACTATTT-ATACT-GATCAGGCCAATAGATTTATTTTTTAAATATGTTATTTATTAATTTTTAAA
1 ACTATTTGA-ACTGGTTC--GAAAATAAATTTATTTTTTAAATCTCTTAGTTATTAA-TTTTCAA
** * * * * *
11303162 ATATTAATAAATTAGCATTACTTTATTCTGAATA-AAAC-TGTATCAATAAAAATAATTATTTTA
62 ATATTAATAAATTAATATTATTTTATT-TCAA-ACAAACTTGTATGAACAAAAACAATTATTTTA
* * * * * * **
11303225 TAACAAAA-CAAATGATCATAACGATTTGAAA-AAATAATTGTTCAAACT-GTTATA
125 TGATAAAATAAAATG-TCATAATGATTTGAAATAGATAATTATTCAAA-TAGCCATA
* ** * * * * *
11303279 ATTATTTGAACTATTTGGTAAACAAATTTATTTTTTAAATCTGTTAG-TA--ATTTTTCAAATAT
1 ACTATTTGAACTGGTTCGAAAATAAATTTATTTTTTAAATCTCTTAGTTATTAATTTTCAAATAT
* * * * *
11303341 TAATAAATTTATTTTATTTTATTTCAAACAAACTTGTATGAACAAAAACATTTGTTTTATGACAA
66 TAATAAATTAATATTATTTTATTTCAAACAAACTTGTATGAACAAAAACAATTATTTTATGATAA
* * *
11303406 AATAAAATGTCATAACGATTTGAAATAGATAATTATTCATATAGCCTTA
131 AATAAAATGTCATAATGATTTGAAATAGATAATTATTCAAATAGCCATA
*
11303455 ACTATTTGAATTGGTTCGAAAATTAAATTTATTTTTTAAATCTCTTAGTTATTAATTTTCATAAT
1 ACTATTTGAACTGGTTCGAAAA-TAAATTTATTTTTTAAATCTCTTAGTTATTAATTTTCA-AAT
* * * * * * * *
11303520 ATTATTATATTAATACTATTTTATTCCAAATAAGCTTGTATGAACATAAATAATTATTTTATGAT
64 ATTAATAAATTAATATTATTTTATTTCAAACAAACTTGTATGAACAAAAACAATTATTTTATGAT
* * * * * * *
11303585 AAAACAAAAGGTTATAATGATTTGAAATATATAATTGTTTAAATAGTCATA
129 AAAATAAAATGTCATAATGATTTGAAATAGATAATTATTCAAATAGCCATA
* * * * * *
11303636 A-TAATTTGAACTGATT-TAATAAGCATATTTATTTTTTAAATCTAC-TACTTATTAATTTTTGA
1 ACT-ATTTGAACTGGTTCGAA-AA-TAAATTTATTTTTTAAATCT-CTTAGTTATTAA-TTTTCA
* * * ** * * * * ***
11303698 AATAATAATAAATTACTATTATTTAATTTTGAATAAACTGGTA-CAATGAAAATTTATTATTTTA
61 AATATTAATAAATTAATATTATTTTATTTCAAACAAACTTGTATGAA-CAAAAACAATTATTTTA
* * * * *
11303762 TGATAAAACAAAAAT-TAATAATAATTTAAAATAGATAATTATTCAAAGAGCCATA
125 TGATAAAA-TAAAATGTCATAATGATTTGAAATAGATAATTATTCAAATAGCCATA
* * * ** * * * **
11303817 ATTATTTGAACTGATTTC-ATAAACT-AATTTATTTTTCAAATCTCCAACTTCTCAATTTTTGTA
1 ACTATTTGAACTG-GTTCGA-AAA-TAAATTTATTTTTTAAATCTCTTAGTTATTAA-TTTTCAA
* *** ** * ** *
11303880 ATATTAATAAAATAATATTATTTTATTTTGGACAAGTTTTTATGAACTGAAACAATTGTTTTATG
62 ATATTAATAAATTAATATTATTTTATTTCAAACAAACTTGTATGAACAAAAACAATTATTTTATG
* * **
11303945 ATAAAATAAAATATCATAATGATTTTAAATAGATAATTATTCAAATATTCATA
127 ATAAAATAAAATGTCATAATGATTTGAAATAGATAATTATTCAAATAGCCATA
* * * * * *
11303998 ACTATTTGAACTTGTCCGGTAAATAAATTTATTTTTTAAAATTTCTTGGTTATTAATTTTCTATA
1 ACTATTTGAACTGGTTC-GAAAATAAATTTATTTTTT-AAATCTCTTAGTTATTAATTTTC-AAA
* * * * ** *
11304063 TGTTAATAAAATAGTATTATTTTACTT----CAAA----TATGAACTGAAACAATTATTTTATAA
63 TATTAATAAATTAATATTATTTTATTTCAAACAAACTTGTATGAACAAAAACAATTATTTTATGA
* *** ** * * * *
11304120 CT-AATTAAAA-GTTGGAATGATTTGAAAT-TTTAATTGTTCTAATAGTCTTA
128 -TAAAATAAAATGTCATAATGATTTGAAATAGATAATTATTCAAATAGCCATA
* * * * *
11304170 AATATTTAAACTGGTTCGATAAACACATTTATTTTTTAAATCTC----TTATTAATTTTTAGAAT
1 ACTATTTGAACTGGTTCGA-AAATAAATTTATTTTTTAAATCTCTTAGTTATTAATTTTCA-AAT
* ** * * * * * * * ** * * *
11304231 ATTATTAGTTTAACAATATTTTACTCCGAATAAGCTTGTACAAACAAAAACAATTGTTTTATAAC
64 ATTAATAAATTAATATTATTTTATTTCAAACAAACTTGTATGAACAAAAACAATTATTTTATGAT
* ** * * *
11304296 AAAA-CAAA-GATCATAACAATTTGAGATAGATAATTATTCAAAGAGTCATA
129 AAAATAAAATG-TCATAATGATTTGAAATAGATAATTATTCAAATAGCCATA
* * * * * * * * *
11304346 ATTATTTAAACTGGTTTAGTAAACAGATTTAGTTTTTAAGTCTCTTA---A-TAATTTTTGAAAT
1 ACTATTTGAACTGG-TTCGAAAATAAATTTATTTTTTAAATCTCTTAGTTATTAA-TTTTCAAAT
* * * ** * * *
11304407 ATTAATAAATTAGTTTTATTTTA-TTCTAAATAATTTTATATGAATAAAAATAATTATTTTATGA
64 ATTAATAAATTAATATTATTTTATTTC-AAACAAACTTGTATGAACAAAAACAATTATTTTATGA
* * * * * ** *
11304471 TAAAACAAAATATCA-AAGCGATTTGAAATATATAA-TAGTTCAAATGGTTATG
128 TAAAATAAAATGTCATAA-TGATTTGAAATAGATAATTA-TTCAAATAGCCATA
* * * * * * * *
11304523 ACTATTTGAACTTGTTTGATAAACAGATTTGTTTTTTAAATCTCTAACTTATTAATTTTTAAAAT
1 ACTATTTGAACTGGTTCGA-AAATAAATTTATTTTTTAAATCTCTTAGTTATTAA-TTTTCAAAT
* * * * * * * *
11304588 ATTAATAAATTAACATTATTATATTTCGAATAAACTTGTATGAATAAAAATAGTTGTTTTATGAT
64 ATTAATAAATTAATATTATTTTATTTCAAACAAACTTGTATGAACAAAAACAATTATTTTATGAT
** * * * * * * *
11304653 AAAGCACAA-GATCAGAACGATTTAAAATAAATAA-TATTTAAATAGTCATA
129 AAAATAAAATG-TCATAATGATTTGAAATAGATAATTATTCAAATAGCCATA
* * * * * * * * *
11304703 ACTATTTGAGCTCGTTCAGTAAACAGATTTAATTCTTAAATCT-TTAATTTATTAATTTTTTAAA
1 ACTATTTGAACTGGTTC-GAAAATAAATTTATTTTTTAAATCTCTT-AGTTATTAA-TTTTCAAA
* * * * * **
11304767 TTTTAATAAATTAATATTATTTTATTCCAAATAAGCATT-TATGAATATAAAA-AATTGGTTTAT
63 TATTAATAAATTAATATTATTTTATTTCAAACAAAC-TTGTATGAACA-AAAACAATTATTTTAT
* * * * * * * * * *
11304830 AACAAAGT-AGATGGTTATAACGATTTAAAATATATTATTATTCAAATAGTCATA
126 GATAAAATAAAAT-GTCATAATGATTTGAAATAGATAATTATTCAAATAGCCATA
*
11304884 ATTATTTGAA
1 ACTATTTGAA
11304894 TAAATTCAGA
Statistics
Matches: 1387, Mismatches: 329, Indels: 157
0.74 0.18 0.08
Matches are distributed among these distances:
166 1 0.00
167 30 0.02
171 9 0.01
172 44 0.03
173 14 0.01
174 42 0.03
175 109 0.08
176 147 0.11
177 96 0.07
178 7 0.01
179 42 0.03
180 277 0.20
181 508 0.37
182 60 0.04
183 1 0.00
ACGTcount: A:0.41, C:0.08, G:0.08, T:0.42
Consensus pattern (179 bp):
ACTATTTGAACTGGTTCGAAAATAAATTTATTTTTTAAATCTCTTAGTTATTAATTTTCAAATAT
TAATAAATTAATATTATTTTATTTCAAACAAACTTGTATGAACAAAAACAATTATTTTATGATAA
AATAAAATGTCATAATGATTTGAAATAGATAATTATTCAAATAGCCATA
Found at i:11303619 original size:17 final size:18
Alignment explanation
Indices: 11303597--11303645 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
11303587 AACAAAAGGT
11303597 TATAATGATTTGAAATA-
1 TATAATGATTTGAAATAG
11303614 TATAATTG-TTT-AAATAG
1 TATAA-TGATTTGAAATAG
*
11303631 TCATAATAATTTGAA
1 T-ATAATGATTTGAA
11303646 CTGATTTAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
16 5 0.19
17 10 0.38
18 9 0.35
19 2 0.08
ACGTcount: A:0.45, C:0.02, G:0.10, T:0.43
Consensus pattern (18 bp):
TATAATGATTTGAAATAG
Found at i:11304457 original size:20 final size:20
Alignment explanation
Indices: 11304434--11304475 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
11304424 ATTTTATTCT
11304434 AAATAATT-TTATATGAATAA
1 AAATAATTATTATATG-ATAA
*
11304454 AAATAATTATTTTATGATAA
1 AAATAATTATTATATGATAA
11304474 AA
1 AA
11304476 CAAAATATCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (20 bp):
AAATAATTATTATATGATAA
Found at i:11304854 original size:180 final size:180
Alignment explanation
Indices: 11304160--11304893 Score: 524
Period size: 180 Copynumber: 4.1 Consensus size: 180
11304150 TAATTGTTCT
* * * * * * * *
11304160 AATAGTCTTAAATATTTAAACTGGTTCGATAAACACATTTATTTTTTAAA--TCT--CTTATTAA
1 AATAGTCATAACTATTTGAACTCGTTAGATAAACAGATTTAATTCTTAAATCTCTAACTTATTAA
* * ** * * * * * ** * *
11304221 TTTTTAGAATATTATTAGTTTAACAATATTTTACTCCGAATAAGCTTGTACAAACAAAAACAATT
66 TTTTTAAAATATTAATAAATTAACATTATTATATTCCAAATAAACTTGTATGAATAAAAATAATT
* * * * * * *
11304286 GTTTTATAACAAAACA-AAGATCATAACAATTTGAGATAGATAATTATTCA
131 GGTTTATAACAAAGCACAAGATCAGAACGATTTAAAATAAATAA-TATTCA
* * * * * * * *
11304336 AAGAGTCATAATTATTTAAACTGGTTTAG-TAAACAGATTTAGTT-TTTAA-GTCT--CTTAATA
1 AATAGTCATAACTATTTGAACTCG-TTAGATAAACAGATTTAATTCTTAAATCTCTAACTTATTA
* *** * * ** *
11304396 ATTTTTGAAATATTAATAAATTAGTTTTATTTTATTCTAAATAATTTTATATGAATAAAAATAAT
65 ATTTTTAAAATATTAATAAATTAACATTATTATATTCCAAATAAACTTGTATGAATAAAAATAAT
** * * * * * * *
11304461 TATTTTATGATAAAACAAAATATCA-AAGCGATTTGAAATATATAATAGTTCA
130 TGGTTTATAACAAAGCACAAGATCAGAA-CGATTTAAAATAAATAATA-TTCA
* * * * * ** *
11304513 AATGGTTATGACTATTTGAACTTGTTTGATAAACAGATTTGTTTTTTAAATCTCTAACTTATTAA
1 AATAGTCATAACTATTTGAACTCGTTAGATAAACAGATTTAATTCTTAAATCTCTAACTTATTAA
* * *
11304578 TTTTTAAAATATTAATAAATTAACATTATTATATTTCGAATAAACTTGTATGAATAAAAATAGTT
66 TTTTTAAAATATTAATAAATTAACATTATTATATTCCAAATAAACTTGTATGAATAAAAATAATT
* * * *
11304643 GTTTTATGATAAAGCACAAGATCAGAACGATTTAAAATAAATAATATTTA
131 GGTTTATAACAAAGCACAAGATCAGAACGATTTAAAATAAATAATATTCA
* * *
11304693 AATAGTCATAACTATTTGAGCTCGTTCAG-TAAACAGATTTAATTCTTAAATCTTTAATTTATTA
1 AATAGTCATAACTATTTGAACTCGTT-AGATAAACAGATTTAATTCTTAAATCTCTAACTTATTA
* * * * *
11304757 ATTTTTTAAATTTTAATAAATTAATATTATTTTATTCCAAATAAGCATT-TATGAATATAAAA-A
65 ATTTTTAAAATATTAATAAATTAACATTATTATATTCCAAATAAAC-TTGTATGAATA-AAAATA
* * * * * * * *
11304820 ATTGGTTTATAACAAAGTAGATGGTTATAACGATTTAAAATATATTATTATTCA
128 ATTGGTTTATAACAAAGCACAAGATCAGAACGATTTAAAATA-AATAATATTCA
*
11304874 AATAGTCATAATTATTTGAA
1 AATAGTCATAACTATTTGAA
11304894 TAAATTCAGA
Statistics
Matches: 444, Mismatches: 99, Indels: 25
0.78 0.17 0.04
Matches are distributed among these distances:
175 4 0.01
176 110 0.25
177 57 0.13
178 4 0.01
179 3 0.01
180 134 0.30
181 130 0.29
182 2 0.00
ACGTcount: A:0.42, C:0.08, G:0.09, T:0.41
Consensus pattern (180 bp):
AATAGTCATAACTATTTGAACTCGTTAGATAAACAGATTTAATTCTTAAATCTCTAACTTATTAA
TTTTTAAAATATTAATAAATTAACATTATTATATTCCAAATAAACTTGTATGAATAAAAATAATT
GGTTTATAACAAAGCACAAGATCAGAACGATTTAAAATAAATAATATTCA
Found at i:11309292 original size:15 final size:15
Alignment explanation
Indices: 11309251--11309292 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
11309241 TTTTAAATGT
*
11309251 TTTG-GATTTTAAGGT
1 TTTGAGATTTT-AGGG
11309266 TTTGA-ATTTTAGGG
1 TTTGAGATTTTAGGG
11309280 TTTGAGATTTTAG
1 TTTGAGATTTTAG
11309293 ATTTTAAGGT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
14 8 0.33
15 16 0.67
ACGTcount: A:0.21, C:0.00, G:0.26, T:0.52
Consensus pattern (15 bp):
TTTGAGATTTTAGGG
Found at i:11309357 original size:13 final size:13
Alignment explanation
Indices: 11309339--11309363 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11309329 AGTTTAGGTT
11309339 TTTGATTTTAGGG
1 TTTGATTTTAGGG
11309352 TTTGATTTTAGG
1 TTTGATTTTAGG
11309364 ATTTAAGGTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.00, G:0.28, T:0.56
Consensus pattern (13 bp):
TTTGATTTTAGGG
Found at i:11309397 original size:21 final size:21
Alignment explanation
Indices: 11309338--11309404 Score: 68
Period size: 21 Copynumber: 3.2 Consensus size: 21
11309328 GAGTTTAGGT
*
11309338 TTTTGATTTTAGGGTTT-GA-
1 TTTTGATTTTAAGGTTTGGAG
11309357 TTTTAGGA-TTTAAGGTTTGGAG
1 TTTT--GATTTTAAGGTTTGGAG
*
11309379 TTTTGATTTTATGGTTTGGAG
1 TTTTGATTTTAAGGTTTGGAG
11309400 ATTTT
1 -TTTT
11309405 ATAATTTTGA
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
19 4 0.10
20 11 0.28
21 17 0.43
22 8 0.20
ACGTcount: A:0.18, C:0.00, G:0.27, T:0.55
Consensus pattern (21 bp):
TTTTGATTTTAAGGTTTGGAG
Found at i:11309496 original size:28 final size:27
Alignment explanation
Indices: 11309345--11309507 Score: 125
Period size: 28 Copynumber: 5.7 Consensus size: 27
11309335 GGTTTTTGAT
*
11309345 TTTAGGG-TTTGATTTTAGGATTTAAGG
1 TTTAGGGTTTTGATTTTAGG-TTTGAGG
*
11309372 TTT-GGAGTTTTGATTTTATGGTTTGGAGAT
1 TTTAGG-GTTTTGATTTTA-GGTTT-GAG-G
***
11309402 TTTATAATTTTGATTTTAGAGTTTGAGG
1 TTTAGGGTTTTGATTTTAG-GTTTGAGG
* *
11309430 TTTAAGATTTTGATTTTACGGTTTGGAAGG
1 TTTAGGGTTTTGATTTTA-GGTTT-G-AGG
* *
11309460 TGTAGGGTTTTTATTTTAGTGTTTGAGG
1 TTTAGGGTTTTGATTTTAG-GTTTGAGG
11309488 TTTAGGGTTTT-AGTTTTAGG
1 TTTAGGGTTTTGA-TTTTAGG
11309508 GTTTCAAGCG
Statistics
Matches: 111, Mismatches: 13, Indels: 24
0.75 0.09 0.16
Matches are distributed among these distances:
26 2 0.02
27 6 0.05
28 52 0.47
29 12 0.11
30 39 0.35
ACGTcount: A:0.20, C:0.01, G:0.28, T:0.52
Consensus pattern (27 bp):
TTTAGGGTTTTGATTTTAGGTTTGAGG
Found at i:11309555 original size:14 final size:14
Alignment explanation
Indices: 11309488--11309578 Score: 58
Period size: 14 Copynumber: 6.3 Consensus size: 14
11309478 GTGTTTGAGG
* *
11309488 TTTAGGGTTTTAGT
1 TTTAGGGTTTCAAT
*
11309502 TTTAGGGTTTCAAGCG
1 TTTAGGGTTTCAA--T
* *
11309518 TTT-GGGTTTAAAAA
1 TTTAGGGTTT-CAAT
11309532 TTTAGGGTTTCAAT
1 TTTAGGGTTTCAAT
* * *
11309546 TTTAGAGTTTTGAAA
1 TTTAG-GGTTTCAAT
*
11309561 TTTAGGGTTTCGAT
1 TTTAGGGTTTCAAT
11309575 TTTA
1 TTTA
11309579 AGATTTAAAG
Statistics
Matches: 58, Mismatches: 14, Indels: 10
0.71 0.17 0.12
Matches are distributed among these distances:
14 30 0.52
15 23 0.40
16 5 0.09
ACGTcount: A:0.23, C:0.04, G:0.24, T:0.48
Consensus pattern (14 bp):
TTTAGGGTTTCAAT
Found at i:11309704 original size:4 final size:4
Alignment explanation
Indices: 11309695--11309750 Score: 63
Period size: 4 Copynumber: 15.8 Consensus size: 4
11309685 TTTTATGAAC
11309695 ATTT ATTT ATTT ATTT ATTT ATTT ATTT A-TT A-TT A-TT A-TT A-TT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT
11309738 A-TT A-TT ATTT ATT
1 ATTT ATTT ATTT ATT
11309751 ATTATTATTA
Statistics
Matches: 51, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 21 0.41
4 30 0.59
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (4 bp):
ATTT
Found at i:11309712 original size:12 final size:11
Alignment explanation
Indices: 11309695--11309764 Score: 73
Period size: 9 Copynumber: 6.8 Consensus size: 11
11309685 TTTTATGAAC
11309695 ATTTATTTATTT
1 ATTTA-TTATTT
11309707 ATTTATTTATTT
1 ATTTA-TTATTT
11309719 ATTTATTA-TT
1 ATTTATTATTT
11309729 A-TTATTA-TT
1 ATTTATTATTT
11309738 A-TTATTATTT
1 ATTTATTATTT
11309748 A-TTATTA-TT
1 ATTTATTATTT
11309757 A-TTATTAT
1 ATTTATTAT
11309765 CCTTTTATAC
Statistics
Matches: 56, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
9 24 0.43
10 12 0.21
11 3 0.05
12 17 0.30
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (11 bp):
ATTTATTATTT
Found at i:11309729 original size:3 final size:3
Alignment explanation
Indices: 11309721--11309764 Score: 79
Period size: 3 Copynumber: 14.3 Consensus size: 3
11309711 ATTTATTTAT
11309721 TTA TTA TTA TTA TTA TTA TTA TTA TTTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA T
11309765 CCTTTTATAC
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 37 0.93
4 3 0.08
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:11309745 original size:25 final size:25
Alignment explanation
Indices: 11309717--11309764 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
11309707 ATTTATTTAT
11309717 TTATTTATTATTATTATTATTATTA
1 TTATTTATTATTATTATTATTATTA
11309742 TTATTTATTATTATTATTATTAT
1 TTATTTATTATTATTATTATTAT
11309765 CCTTTTATAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (25 bp):
TTATTTATTATTATTATTATTATTA
Found at i:11310002 original size:15 final size:16
Alignment explanation
Indices: 11309982--11310011 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
11309972 ATTTTATCTT
11309982 TATTTTTT-ATTTTTG
1 TATTTTTTCATTTTTG
11309997 TATTTTTTCATTTTT
1 TATTTTTTCATTTTT
11310012 ATTATTATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.13, C:0.03, G:0.03, T:0.80
Consensus pattern (16 bp):
TATTTTTTCATTTTTG
Found at i:11310124 original size:22 final size:21
Alignment explanation
Indices: 11310091--11310139 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
11310081 AGTAAAACTC
*
11310091 AAAATAA-CAAAAATAATAATA
1 AAAATAATAAAAAATAATAA-A
*
11310112 TAAATAATAAAAAATAATAAA
1 AAAATAATAAAAAATAATAAA
11310133 AAAATAA
1 AAAATAA
11310140 ATCGGACCGG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 13 0.54
22 11 0.46
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (21 bp):
AAAATAATAAAAAATAATAAA
Found at i:11311637 original size:22 final size:22
Alignment explanation
Indices: 11311609--11311675 Score: 82
Period size: 22 Copynumber: 3.0 Consensus size: 22
11311599 AAAAATATTT
*
11311609 TGCCCAGAGGTCTTCA-AAGTTA
1 TGCCCAGAGGTCTT-AGAAATTA
11311631 TGCCCAGAGGTCTTAGAAATTA
1 TGCCCAGAGGTCTTAGAAATTA
* * *
11311653 TGCCCAAATGTCTTAAAAATTA
1 TGCCCAGAGGTCTTAGAAATTA
11311675 T
1 T
11311676 AAAATTTTTG
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
21 1 0.03
22 39 0.98
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.30
Consensus pattern (22 bp):
TGCCCAGAGGTCTTAGAAATTA
Found at i:11311642 original size:106 final size:106
Alignment explanation
Indices: 11311447--11311651 Score: 279
Period size: 106 Copynumber: 1.9 Consensus size: 106
11311437 CAAGTTGTGC
* * * *
11311447 CTTTGAATGCTCCTTCTAATCAAAGGCAATGAAACTTTAAAAATTTAAAAATCTTTTGCTCGGAG
1 CTTTGAATGCTCCTTCTAATCAAAGGCAATGAAACTTTAAAAATTGAAAAATATTTTGCCCAGAG
* * *
11311512 GTCTTGAAAGTTGTGCTCGAAGGTCTTACAAATTTTAAAAT
66 GTCTTCAAAGTTATGCCCGAAGGTCTTACAAATTTTAAAAT
* * *
11311553 CTTTGAATGCTCTTTCTAATTAGAA-GCAATGAAACTTTGAAAATTGAAAAATATTTTGCCCAGA
1 CTTTGAATGCTCCTTCTAATCA-AAGGCAATGAAACTTTAAAAATTGAAAAATATTTTGCCCAGA
*
11311617 GGTCTTCAAAGTTATGCCC-AGAGGTCTTAGAAATT
65 GGTCTTCAAAGTTATGCCCGA-AGGTCTTACAAATT
11311652 ATGCCCAAAT
Statistics
Matches: 86, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
105 1 0.01
106 83 0.97
107 2 0.02
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Consensus pattern (106 bp):
CTTTGAATGCTCCTTCTAATCAAAGGCAATGAAACTTTAAAAATTGAAAAATATTTTGCCCAGAG
GTCTTCAAAGTTATGCCCGAAGGTCTTACAAATTTTAAAAT
Found at i:11311749 original size:129 final size:127
Alignment explanation
Indices: 11311531--11311911 Score: 423
Period size: 129 Copynumber: 3.0 Consensus size: 127
11311521 GTTGTGCTCG
* * *
11311531 AAGGTCTTACAAATTTTAAAATCTTTGAATGCT-CTTTCTA-ATTAGAAGCAATGAAACTTTGAA
1 AAGGTCTTA-AAAATTTAAAATCTTTGAATGCTCCTTAC-ACATTAG-AGCATTGAAACTTTGAA
* * * * *
11311594 AATTGAAAAATATTTTGCCCAGAGGTCTTCAAAGTTATGCCCAGAGGTCTTAGAAATTATGCCCA
63 AATTTAAAAATCTTTTGCCTAGAGGTCTTGAAAGTTATGCCCAGAGGTCTTAGAAATTATACCCA
* * *
11311659 AATGTCTTAAAAATTATAAAATTTTTGAATGCTCCTTACACATTTGAGCCATTGAAACTTTGAAA
1 AAGGTCTTAAAAATT-TAAAATCTTTGAATGCTCCTTACACATTAGAG-CATTGAAACTTTGAAA
* * * *
11311724 ATTTAAAAATCTTTTGCCTAGAGGTCTTGAAAATTATGCCTAAAGGTCTTAGAAATTATATCCA
64 ATTTAAAAATCTTTTGCCTAGAGGTCTTGAAAGTTATGCCCAGAGGTCTTAGAAATTATACCCA
* * * * *
11311788 AAGGTCTTATAAATCTTAAAATCTTTGAATGCTCATCTA-ATCA--AAAGCATAGACACTTTGAA
1 AAGGTCTTAAAAAT-TTAAAATCTTTGAATGCTCCT-TACA-CATTAGAGCATTGAAACTTTGAA
** * *
11311850 AATTTAAAAATCTTTTGCCT-GAAGGTCTTGAAAGTTATGGTCGGAGGTCTTAGAGATTATAC
63 AATTTAAAAATCTTTTGCCTAG-AGGTCTTGAAAGTTATGCCCAGAGGTCTTAGAAATTATAC
11311912 ATGTAGGTTT
Statistics
Matches: 214, Mismatches: 31, Indels: 17
0.82 0.12 0.06
Matches are distributed among these distances:
126 1 0.00
127 70 0.33
128 29 0.14
129 109 0.51
130 5 0.02
ACGTcount: A:0.36, C:0.14, G:0.15, T:0.34
Consensus pattern (127 bp):
AAGGTCTTAAAAATTTAAAATCTTTGAATGCTCCTTACACATTAGAGCATTGAAACTTTGAAAAT
TTAAAAATCTTTTGCCTAGAGGTCTTGAAAGTTATGCCCAGAGGTCTTAGAAATTATACCCA
Found at i:11311764 original size:22 final size:22
Alignment explanation
Indices: 11311738--11311801 Score: 69
Period size: 22 Copynumber: 2.9 Consensus size: 22
11311728 AAAAATCTTT
*
11311738 TGCCTAGAGGTCTT-GAAAATTA
1 TGCCTAAAGGTCTTAG-AAATTA
11311760 TGCCTAAAGGTCTTAGAAATTA
1 TGCCTAAAGGTCTTAGAAATTA
* *
11311782 TATCC-AAAGGTCTTATAAAT
1 T-GCCTAAAGGTCTTAGAAAT
11311802 CTTAAAATCT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
22 34 0.92
23 3 0.08
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.33
Consensus pattern (22 bp):
TGCCTAAAGGTCTTAGAAATTA
Found at i:11314122 original size:9 final size:9
Alignment explanation
Indices: 11314110--11314143 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
11314100 TTTTTGTTTT
11314110 TTTTTTTAA
1 TTTTTTTAA
11314119 TTTTTTTAA
1 TTTTTTTAA
*
11314128 -TTTTTTAT
1 TTTTTTTAA
11314136 TTTTTTTA
1 TTTTTTTA
11314144 TGATGTCCCA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
8 7 0.30
9 16 0.70
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (9 bp):
TTTTTTTAA
Found at i:11314133 original size:17 final size:17
Alignment explanation
Indices: 11314111--11314143 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
11314101 TTTTGTTTTT
11314111 TTTTTTAATTTTTTTAA
1 TTTTTTAATTTTTTTAA
*
11314128 TTTTTTATTTTTTTTA
1 TTTTTTAATTTTTTTA
11314144 TGATGTCCCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (17 bp):
TTTTTTAATTTTTTTAA
Found at i:11320771 original size:15 final size:15
Alignment explanation
Indices: 11320743--11320792 Score: 64
Period size: 15 Copynumber: 3.3 Consensus size: 15
11320733 AAATTTGGTG
11320743 TTTTAAGTGTTTTGGA
1 TTTTAAG-GTTTTGGA
*
11320759 TTTTAAGGTTTTGAA
1 TTTTAAGGTTTTGGA
* *
11320774 TTTTAGGGTTTGGGA
1 TTTTAAGGTTTTGGA
11320789 TTTT
1 TTTT
11320793 GGATTTTAAG
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
15 23 0.77
16 7 0.23
ACGTcount: A:0.18, C:0.00, G:0.26, T:0.56
Consensus pattern (15 bp):
TTTTAAGGTTTTGGA
Found at i:11320849 original size:14 final size:13
Alignment explanation
Indices: 11320830--11320999 Score: 90
Period size: 14 Copynumber: 12.1 Consensus size: 13
11320820 CAAAGTGTGG
*
11320830 GATTTTAGGTTTCT
1 GATTTTAGGGTT-T
11320844 GATTTTAGGGTTT
1 GATTTTAGGGTTT
*
11320857 GATTTTAGGATTT
1 GATTTTAGGGTTT
** *
11320870 GAGGTTCGGAGTTTT
1 GATTTTAGG-G-TTT
*
11320885 GATTTTAAGGTTT
1 GATTTTAGGGTTT
*
11320898 GGAGGCTTT-GGGTTTT
1 -GA--TTTTAGGG-TTT
11320914 GATTTTAGGGTTT
1 GATTTTAGGGTTT
*
11320927 AAAGGTTTTAGGGTTT
1 ---GATTTTAGGGTTT
* **
11320943 GAGGTTCGGGGTTTT
1 GA-TTTTAGGG-TTT
*
11320958 GATTTTAGGCTTT
1 GATTTTAGGGTTT
*
11320971 GAGGTTTAGGGTTTT
1 GA-TTTTAGGG-TTT
11320986 GATTTTAGGGTTT
1 GATTTTAGGGTTT
11320999 G
1 G
11321000 GAGGGTGTAG
Statistics
Matches: 117, Mismatches: 25, Indels: 29
0.68 0.15 0.17
Matches are distributed among these distances:
13 38 0.32
14 39 0.33
15 22 0.19
16 18 0.15
ACGTcount: A:0.15, C:0.03, G:0.33, T:0.49
Consensus pattern (13 bp):
GATTTTAGGGTTT
Found at i:11320944 original size:29 final size:29
Alignment explanation
Indices: 11320830--11320942 Score: 94
Period size: 29 Copynumber: 4.0 Consensus size: 29
11320820 CAAAGTGTGG
*
11320830 GATTTTAGGTTTCTGA--TTTTAGGG-TTT
1 GATTTTAGGGTT-TGAGGTTTTAGGGTTTT
* *
11320857 GATTTTAGGATTTGAGG--TTCGGAGTTTT
1 GATTTTAGGGTTTGAGGTTTTAGG-GTTTT
* *
11320885 GATTTTAAGGTTTGGAGGCTTT-GGGTTTT
1 GATTTTAGGGTTT-GAGGTTTTAGGGTTTT
*
11320914 GATTTTAGGGTTTAAAGGTTTTAGGGTTT
1 GATTTTAGGGTTT-GAGGTTTTAGGGTTT
11320943 GAGGTTCGGG
Statistics
Matches: 70, Mismatches: 8, Indels: 13
0.77 0.09 0.14
Matches are distributed among these distances:
26 7 0.10
27 12 0.17
28 14 0.20
29 27 0.39
30 8 0.11
31 2 0.03
ACGTcount: A:0.17, C:0.03, G:0.31, T:0.50
Consensus pattern (29 bp):
GATTTTAGGGTTTGAGGTTTTAGGGTTTT
Found at i:11320963 original size:101 final size:100
Alignment explanation
Indices: 11320854--11321042 Score: 256
Period size: 101 Copynumber: 1.9 Consensus size: 100
11320844 GATTTTAGGG
* *
11320854 TTTGATTTTAGGATTTGAGG-TTCGGAGTTTTGATTTTAAGGTTTGGAGGCT-TTGGGTTTTGAT
1 TTTGATTTTAGGATTTGAGGTTTAGG-GTTTTGATTTTAAGGTTTGGAGGCTGTAGGGTTTTGAT
11320917 TTTAGGGTTTAAAGGTTTTAGGGTTTGAGGTTCGGGGT
65 TTTA-GGTTTAAAGG-TTTAGGGTTTGAGGTTCGGGGT
* * * * *
11320955 TTTGATTTTAGGCTTTGAGGTTTAGGGTTTTGATTTTAGGGTTTGGAGGGTGTAGGTTTTTTATT
1 TTTGATTTTAGGATTTGAGGTTTAGGGTTTTGATTTTAAGGTTTGGAGGCTGTAGGGTTTTGATT
**
11321020 TTAGGTTTTGAGGTTTAGGGTTT
66 TTAGGTTTAAAGGTTTAGGGTTT
11321043 TGTTTTAGGA
Statistics
Matches: 77, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
100 10 0.13
101 50 0.65
102 17 0.22
ACGTcount: A:0.15, C:0.02, G:0.34, T:0.49
Consensus pattern (100 bp):
TTTGATTTTAGGATTTGAGGTTTAGGGTTTTGATTTTAAGGTTTGGAGGCTGTAGGGTTTTGATT
TTAGGTTTAAAGGTTTAGGGTTTGAGGTTCGGGGT
Found at i:11320972 original size:28 final size:28
Alignment explanation
Indices: 11320932--11321051 Score: 152
Period size: 28 Copynumber: 4.2 Consensus size: 28
11320922 GGTTTAAAGG
**
11320932 TTTTAGGGTTTGAGGTTCGGGGTTTTGA
1 TTTTAGGGTTTGAGGTTTAGGGTTTTGA
*
11320960 TTTTAGGCTTTGAGGTTTAGGGTTTTGA
1 TTTTAGGGTTTGAGGTTTAGGGTTTTGA
* * *
11320988 TTTTAGGGTTTGGAGGGTGTAGGTTTTTTA
1 TTTTAGGGTTT-GA-GGTTTAGGGTTTTGA
*
11321018 TTTTAGGTTTTGAGGTTTAGGGTTTTG-
1 TTTTAGGGTTTGAGGTTTAGGGTTTTGA
11321045 TTTTAGG
1 TTTTAGG
11321052 ATTTCAATGG
Statistics
Matches: 79, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
27 7 0.09
28 46 0.58
29 4 0.05
30 22 0.28
ACGTcount: A:0.12, C:0.02, G:0.35, T:0.51
Consensus pattern (28 bp):
TTTTAGGGTTTGAGGTTTAGGGTTTTGA
Found at i:11320979 original size:58 final size:58
Alignment explanation
Indices: 11320917--11321051 Score: 152
Period size: 58 Copynumber: 2.3 Consensus size: 58
11320907 GGGTTTTGAT
* *
11320917 TTTAGGGTTTAAAGGTTTTAGGGTTT-GA-GGT-TCGGGGTTTTGATTTTAGGCTTTGAGG
1 TTTAGGGTTT--AGATTTTAGGGTTTGGAGGGTGT-AGGGTTTTGATTTTAGGCTTTGAGG
* * * *
11320975 TTTAGGGTTTTGATTTTAGGGTTTGGAGGGTGTAGGTTTTTTATTTTAGGTTTTGAGG
1 TTTAGGGTTTAGATTTTAGGGTTTGGAGGGTGTAGGGTTTTGATTTTAGGCTTTGAGG
*
11321033 TTTAGGGTTTTG-TTTTAGG
1 TTTAGGGTTTAGATTTTAGG
11321052 ATTTCAATGG
Statistics
Matches: 68, Mismatches: 6, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
56 12 0.18
57 9 0.13
58 46 0.68
59 1 0.01
ACGTcount: A:0.14, C:0.01, G:0.35, T:0.50
Consensus pattern (58 bp):
TTTAGGGTTTAGATTTTAGGGTTTGGAGGGTGTAGGGTTTTGATTTTAGGCTTTGAGG
Found at i:11321226 original size:3 final size:3
Alignment explanation
Indices: 11321220--11321245 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
11321210 ATTATTATTA
11321220 TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TT
11321246 TTATTATTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:11321387 original size:2 final size:2
Alignment explanation
Indices: 11321380--11321406 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
11321370 TCATAAGCAT
11321380 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
11321407 TATTTTGTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:11321490 original size:7 final size:7
Alignment explanation
Indices: 11321480--11321509 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
11321470 TCATTTTATC
11321480 TTTATTT
1 TTTATTT
11321487 TTTATTT
1 TTTATTT
11321494 TTTATTT
1 TTTATTT
11321501 TTTATTT
1 TTTATTT
11321508 TT
1 TT
11321510 ATTATTATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (7 bp):
TTTATTT
Found at i:11321491 original size:13 final size:13
Alignment explanation
Indices: 11321473--11321512 Score: 62
Period size: 13 Copynumber: 3.0 Consensus size: 13
11321463 TCATTACTCA
*
11321473 TTTTATCTTTATT
1 TTTTATTTTTATT
11321486 TTTTATTTTTTATT
1 TTTTA-TTTTTATT
11321500 TTTTATTTTTATT
1 TTTTATTTTTATT
11321513 ATTATTAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 13 0.52
14 12 0.48
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (13 bp):
TTTTATTTTTATT
Found at i:11330091 original size:21 final size:21
Alignment explanation
Indices: 11330067--11330106 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
11330057 TAAATATGAT
11330067 AATATGATAATCATTCTATAC
1 AATATGATAATCATTCTATAC
11330088 AATATGATAATCATTCTAT
1 AATATGATAATCATTCTAT
11330107 GTTATGTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.42, C:0.12, G:0.05, T:0.40
Consensus pattern (21 bp):
AATATGATAATCATTCTATAC
Found at i:11336298 original size:30 final size:30
Alignment explanation
Indices: 11336258--11336324 Score: 75
Period size: 30 Copynumber: 2.2 Consensus size: 30
11336248 ACCTCTCTAC
11336258 TAATATTACATCCAAATAAGCTT-TTGAAC-TT
1 TAAT-TTACATCCAAATAAG-TTCTT-AACATT
**
11336289 TAATTTACATTTAAATAAGTTCTTAACATT
1 TAATTTACATCCAAATAAGTTCTTAACATT
11336319 TAATTT
1 TAATTT
11336325 GTATCTAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
29 5 0.16
30 23 0.72
31 4 0.12
ACGTcount: A:0.39, C:0.12, G:0.04, T:0.45
Consensus pattern (30 bp):
TAATTTACATCCAAATAAGTTCTTAACATT
Found at i:11336345 original size:30 final size:30
Alignment explanation
Indices: 11336311--11336374 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 30
11336301 AAATAAGTTC
* * * *
11336311 TTAACATTTAATTTGTATCTAAATAAACCT
1 TTAACATATAATTTATACCCAAATAAACCT
* *
11336341 TTAACCTATACTTTATACCCAAATAAACCT
1 TTAACATATAATTTATACCCAAATAAACCT
11336371 TTAA
1 TTAA
11336375 TATAAATCAA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.41, C:0.19, G:0.02, T:0.39
Consensus pattern (30 bp):
TTAACATATAATTTATACCCAAATAAACCT
Found at i:11339705 original size:17 final size:15
Alignment explanation
Indices: 11339676--11339720 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
11339666 TTTATTTCTT
11339676 TGTTTTTTCTTTTCA
1 TGTTTTTTCTTTTCA
*
11339691 TGTTTTTTCGTTTTTTA
1 TGTTTTTTC--TTTTCA
*
11339708 TGTTTTTACTTTT
1 TGTTTTTTCTTTT
11339721 TTTTATTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
15 13 0.50
17 13 0.50
ACGTcount: A:0.07, C:0.09, G:0.09, T:0.76
Consensus pattern (15 bp):
TGTTTTTTCTTTTCA
Found at i:11339721 original size:15 final size:15
Alignment explanation
Indices: 11339658--11339721 Score: 53
Period size: 15 Copynumber: 4.3 Consensus size: 15
11339648 CTTTATAAGA
11339658 TTTTAT-TTTTTA-T
1 TTTTATGTTTTTACT
*
11339671 TTCTT-TGTTTTTTCT
1 TT-TTATGTTTTTACT
* *
11339686 TTTCATGTTTTTTCGTT
1 TTTTATGTTTTTAC--T
11339703 TTTTATGTTTTTACT
1 TTTTATGTTTTTACT
11339718 TTTT
1 TTTT
11339722 TTTATTTTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
13 3 0.07
14 8 0.20
15 17 0.41
17 13 0.32
ACGTcount: A:0.08, C:0.08, G:0.06, T:0.78
Consensus pattern (15 bp):
TTTTATGTTTTTACT
Found at i:11339721 original size:17 final size:18
Alignment explanation
Indices: 11339685--11339732 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 18
11339675 TTGTTTTTTC
* *
11339685 TTTTCATGTTTTTTC-GT
1 TTTTTATGTTTTTACTGT
*
11339702 TTTTTATGTTTTTACTTT
1 TTTTTATGTTTTTACTGT
11339720 TTTTTAT-TTTTTA
1 TTTTTATGTTTTTA
11339733 AAATTAGATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
17 19 0.70
18 8 0.30
ACGTcount: A:0.10, C:0.06, G:0.06, T:0.77
Consensus pattern (18 bp):
TTTTTATGTTTTTACTGT
Found at i:11340238 original size:16 final size:18
Alignment explanation
Indices: 11340216--11340259 Score: 58
Period size: 16 Copynumber: 2.6 Consensus size: 18
11340206 ATAATTTTAT
11340216 TAATTTAATATAA-ATAA
1 TAATTTAATATAATATAA
*
11340233 -AATTTATTATAATATAA
1 TAATTTAATATAATATAA
11340250 TAA-TTAATAT
1 TAATTTAATAT
11340260 GTATTATTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
16 11 0.48
17 10 0.43
18 2 0.09
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
TAATTTAATATAATATAA
Found at i:11345397 original size:17 final size:18
Alignment explanation
Indices: 11345377--11345420 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 18
11345367 TTCTTAATAT
11345377 AAATAAATTTTTATTT-G
1 AAATAAATTTTTATTTGG
**
11345394 AAATAAAAGTTTATTTGG
1 AAATAAATTTTTATTTGG
*
11345412 ATATAAATT
1 AAATAAATT
11345421 AAAGGTTAAA
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
17 14 0.67
18 7 0.33
ACGTcount: A:0.45, C:0.00, G:0.09, T:0.45
Consensus pattern (18 bp):
AAATAAATTTTTATTTGG
Found at i:11345437 original size:30 final size:30
Alignment explanation
Indices: 11345397--11345503 Score: 88
Period size: 30 Copynumber: 3.6 Consensus size: 30
11345387 TTATTTGAAA
**
11345397 TAAAAGTTTATTTGGATATAAATTAAAGGT
1 TAAAAGTTTATTTAAATATAAATTAAAGGT
* **
11345427 TAAAATTTTATTTAAATATAAATTAAAAAT
1 TAAAAGTTTATTTAAATATAAATTAAAGGT
* * * * * * **
11345457 TAAAAATATATTTGAGTATTAATTCAATAT
1 TAAAAGTTTATTTAAATATAAATTAAAGGT
*
11345487 TAAGAGTTTATTTAAAT
1 TAAAAGTTTATTTAAAT
11345504 GTAATAAAAA
Statistics
Matches: 60, Mismatches: 17, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
30 60 1.00
ACGTcount: A:0.48, C:0.01, G:0.08, T:0.43
Consensus pattern (30 bp):
TAAAAGTTTATTTAAATATAAATTAAAGGT
Found at i:11348957 original size:18 final size:18
Alignment explanation
Indices: 11348913--11348958 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
11348903 ACTGATTTTA
*
11348913 AAATTAATTTTATTATTT
1 AAATTAATTTAATTATTT
*
11348931 AATTTAATTTAATTATTT
1 AAATTAATTTAATTATTT
*
11348949 AAATAAATTT
1 AAATTAATTT
11348959 TTTTTGTGAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
AAATTAATTTAATTATTT
Found at i:11355237 original size:2 final size:2
Alignment explanation
Indices: 11355230--11355277 Score: 51
Period size: 2 Copynumber: 24.0 Consensus size: 2
11355220 GTTGGAGCAC
* * * * *
11355230 AT AT AT AT CT AT AC AT AT AG AT AT AG AT AT AG AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11355272 AT AT AT
1 AT AT AT
11355278 TTAAGTTTCT
Statistics
Matches: 36, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.48, C:0.04, G:0.06, T:0.42
Consensus pattern (2 bp):
AT
Found at i:11357365 original size:2 final size:2
Alignment explanation
Indices: 11357352--11357397 Score: 74
Period size: 2 Copynumber: 23.0 Consensus size: 2
11357342 CCTTTTCCTC
* *
11357352 TA TA TC TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA GA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
11357394 TA TA
1 TA TA
11357398 ACTATAGAAG
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (2 bp):
TA
Found at i:11358791 original size:18 final size:18
Alignment explanation
Indices: 11358770--11358805 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
11358760 AACGTAGGCT
11358770 CTGTTTCACTTGTAGGAG
1 CTGTTTCACTTGTAGGAG
11358788 CTGTTTCACTTGTAGGAG
1 CTGTTTCACTTGTAGGAG
11358806 GAGAAGCCCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.17, C:0.17, G:0.28, T:0.39
Consensus pattern (18 bp):
CTGTTTCACTTGTAGGAG
Found at i:11363086 original size:145 final size:145
Alignment explanation
Indices: 11362823--11363114 Score: 548
Period size: 145 Copynumber: 2.0 Consensus size: 145
11362813 CATTGATTGA
11362823 CATTCTATTCACTCCATATGTAACATATAATATTTCAGTAGTAGCTTATTAATGCAGAGAACATT
1 CATTCTATTCACTCCATATGTAACATATAATATTTCAGTAGTAGCTTATTAATGCAGAGAACATT
11362888 TTAGCTAAGTTGACACAGCTACACTCATGAAGAGAAATGGCATAGTCACACGTTGTGTTAACATT
66 TTAGCTAAGTTGACACAGCTACACTCATGAAGAGAAATGGCATAGTCACACGTTGTGTTAACATT
11362953 GAGTAAGCAGTTGTG
131 GAGTAAGCAGTTGTG
* * *
11362968 CATTCTATTCGCTCCATATGTAACATATAATATTTCGGTAGTAGCTTATTAATGCAGGGAACATT
1 CATTCTATTCACTCCATATGTAACATATAATATTTCAGTAGTAGCTTATTAATGCAGAGAACATT
*
11363033 TTAGCTAAGTTGACACAGCTACACTCATGAAGAGATATGGCATAGTCACACGTTGTGTTAACATT
66 TTAGCTAAGTTGACACAGCTACACTCATGAAGAGAAATGGCATAGTCACACGTTGTGTTAACATT
11363098 GAGTAAGCAGTTGTG
131 GAGTAAGCAGTTGTG
11363113 CA
1 CA
11363115 GGAAAAAAAT
Statistics
Matches: 143, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
145 143 1.00
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.32
Consensus pattern (145 bp):
CATTCTATTCACTCCATATGTAACATATAATATTTCAGTAGTAGCTTATTAATGCAGAGAACATT
TTAGCTAAGTTGACACAGCTACACTCATGAAGAGAAATGGCATAGTCACACGTTGTGTTAACATT
GAGTAAGCAGTTGTG
Found at i:11363300 original size:12 final size:12
Alignment explanation
Indices: 11363283--11363307 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
11363273 TATGTCAATT
11363283 TTATATGAAATA
1 TTATATGAAATA
11363295 TTATATGAAATA
1 TTATATGAAATA
11363307 T
1 T
11363308 AAGAAAGGAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (12 bp):
TTATATGAAATA
Found at i:11384327 original size:7 final size:7
Alignment explanation
Indices: 11384315--11384350 Score: 58
Period size: 7 Copynumber: 5.4 Consensus size: 7
11384305 GGATATCACA
11384315 AAAAAAT
1 AAAAAAT
11384322 AAAAAAT
1 AAAAAAT
11384329 AAAAAAT
1 AAAAAAT
11384336 -AAAAAT
1 AAAAAAT
11384342 -AAAAAT
1 AAAAAAT
11384348 AAA
1 AAA
11384351 GAAAGAAAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 12 0.43
7 16 0.57
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (7 bp):
AAAAAAT
Found at i:11384332 original size:6 final size:6
Alignment explanation
Indices: 11384316--11384350 Score: 52
Period size: 6 Copynumber: 5.5 Consensus size: 6
11384306 GATATCACAA
11384316 AAAAAT AAAAAAT AAAAAAT AAAAAT AAAAAT AAA
1 AAAAAT -AAAAAT -AAAAAT AAAAAT AAAAAT AAA
11384351 GAAAGAAAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 15 0.54
7 13 0.46
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:11384359 original size:20 final size:20
Alignment explanation
Indices: 11384316--11384359 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
11384306 GATATCACAA
*
11384316 AAAAATAAAAAATAAAAAAT
1 AAAAATAAAAAATAAAAAAG
11384336 AAAAAT-AAAAATAAAGAAAG
1 AAAAATAAAAAATAAA-AAAG
11384356 AAAA
1 AAAA
11384360 GAACAGGGGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 9 0.41
20 13 0.59
ACGTcount: A:0.84, C:0.00, G:0.05, T:0.11
Consensus pattern (20 bp):
AAAAATAAAAAATAAAAAAG
Found at i:11384895 original size:18 final size:18
Alignment explanation
Indices: 11384869--11384909 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
11384859 ACTAAGAACA
* *
11384869 ACCCCTCACTACCGCTCC
1 ACCCATCACTACCACTCC
11384887 ACCCATCACTACCACTCC
1 ACCCATCACTACCACTCC
11384905 ACCCA
1 ACCCA
11384910 AAACACACAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.24, C:0.59, G:0.02, T:0.15
Consensus pattern (18 bp):
ACCCATCACTACCACTCC
Found at i:11388462 original size:2 final size:2
Alignment explanation
Indices: 11388449--11388489 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
11388439 ACCATTTCAT
*
11388449 AC AC AC AA AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
11388490 TATATATGTA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.54, C:0.46, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:11388501 original size:4 final size:4
Alignment explanation
Indices: 11388494--11388518 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
11388484 CACACATATA
11388494 TATG TATG TATG TATG TATG TATG T
1 TATG TATG TATG TATG TATG TATG T
11388519 CCTTCTGTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.52
Consensus pattern (4 bp):
TATG
Done.