Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 154 of 311
Found at i:52353522 original size:41 final size:40
Alignment explanation
Indices: 52353424--52353614 Score: 177
Period size: 43 Copynumber: 4.6 Consensus size: 40
52353414 TTTTATCAAA
* *
52353424 TCACCGGCATTTAGCCTGCTAGGTTTTAAACCCGAATTCA-
1 TCACCGGCATTTAGCCTGCTAGGCTTTAAGCCCGAA-TCAT
** * * * *
52353464 TCACCGGCATGAAGCCTGTTAGACTTTAAGTCTGAACTCAT
1 TCACCGGCATTTAGCCTGCTAGGCTTTAAGCCCGAA-TCAT
* *
52353505 TCACCGGCATTTCGCCTGCTAGGCTTGAAGCCCGATATCATT
1 TCACCGGCATTTAGCCTGCTAGGCTTTAAGCCCGA-ATCA-T
*** *
52353547 TCACCGGCATTATAGCCTGCTAGGCCAGAAGCCCGATATTAT
1 TCACCGGCATT-TAGCCTGCTAGGCTTTAAGCCCGA-ATCAT
52353589 CTCACCGGCATTATAGCCTGCTAGGC
1 -TCACCGGCATT-TAGCCTGCTAGGC
52353615 CCGAAGCCCG
Statistics
Matches: 125, Mismatches: 21, Indels: 7
0.82 0.14 0.05
Matches are distributed among these distances:
40 31 0.25
41 30 0.24
42 14 0.11
43 50 0.40
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (40 bp):
TCACCGGCATTTAGCCTGCTAGGCTTTAAGCCCGAATCAT
Found at i:52353578 original size:43 final size:42
Alignment explanation
Indices: 52353504--52353674 Score: 186
Period size: 43 Copynumber: 4.0 Consensus size: 42
52353494 TCTGAACTCA
* *
52353504 TTCACCGGCATT-TCGCCTGCTAGGCTTGAAGCCCGATATCAT
1 TTCACCGGCATTATAGCCTGCTAGGC-CGAAGCCCGATATCAT
*
52353546 TTCACCGGCATTATAGCCTGCTAGGCCAGAAGCCCGATATTAT
1 TTCACCGGCATTATAGCCTGCTAGGCC-GAAGCCCGATATCAT
*
52353589 CTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATAAT-ATT
1 TTCACCGGCATTATAGCCTGCTAGG-CCGAAGCCCGAT-ATCA-T
* * * *
52353633 ATTCACCAGC-TTAAAGCTTGCTAGGCCGAGGCCCGAATATCA
1 -TTCACCGGCATTATAGCCTGCTAGGCCGAAGCCCG-ATATCA
52353675 CATTTTGATA
Statistics
Matches: 112, Mismatches: 9, Indels: 14
0.83 0.07 0.10
Matches are distributed among these distances:
42 12 0.11
43 72 0.64
44 21 0.19
45 7 0.06
ACGTcount: A:0.25, C:0.30, G:0.21, T:0.25
Consensus pattern (42 bp):
TTCACCGGCATTATAGCCTGCTAGGCCGAAGCCCGATATCAT
Found at i:52353667 original size:86 final size:85
Alignment explanation
Indices: 52353505--52353668 Score: 208
Period size: 86 Copynumber: 1.9 Consensus size: 85
52353495 CTGAACTCAT
* ** * *
52353505 TCACCGGCATTTCGCCTGCTAGGCTTGAAGCCCGATATCATTTCACCGGCATTATAGCCTGCTAG
1 TCACCGGCATTTAGCCTGCTAGGCCCGAAGCCCGATATCATTTCACCAGCATTAAAGCCTGCTAG
52353570 GCCAGAAGCCCGATATTATC
66 GCCAGAAGCCCGATATTATC
*
52353590 TCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATAAT-ATTATTCACCAGC-TTAAAGCTTG
1 TCACCGGCATT-TAGCCTGCTAGGCCCGAAGCCCGAT-ATCA-T-TTCACCAGCATTAAAGCCTG
*
52353653 CTAGGCC-GAGGCCCGA
62 CTAGGCCAGAAGCCCGA
52353669 ATATCACATT
Statistics
Matches: 68, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
85 11 0.16
86 31 0.46
87 18 0.26
88 8 0.12
ACGTcount: A:0.24, C:0.30, G:0.22, T:0.24
Consensus pattern (85 bp):
TCACCGGCATTTAGCCTGCTAGGCCCGAAGCCCGATATCATTTCACCAGCATTAAAGCCTGCTAG
GCCAGAAGCCCGATATTATC
Found at i:52355582 original size:14 final size:15
Alignment explanation
Indices: 52355553--52355582 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
52355543 CAAAATTTAG
52355553 ACATGATACTTTCAC
1 ACATGATACTTTCAC
52355568 ACATGATAC-TTCAC
1 ACATGATACTTTCAC
52355582 A
1 A
52355583 TATAATAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.37, C:0.27, G:0.07, T:0.30
Consensus pattern (15 bp):
ACATGATACTTTCAC
Found at i:52357953 original size:31 final size:30
Alignment explanation
Indices: 52357918--52357987 Score: 106
Period size: 31 Copynumber: 2.3 Consensus size: 30
52357908 GAAACAAAGC
*
52357918 AAAAAGAAAGTGAAAAATAAAAATGA-AATTG
1 AAAAAGAAAGTGAAAAATAAAAA-GAGAA-GG
52357949 AAAAAGAAAGTGAAAAATAAAAAGAGAAGG
1 AAAAAGAAAGTGAAAAATAAAAAGAGAAGG
52357979 AAAAAGAAA
1 AAAAAGAAA
52357988 AAAAGATCGA
Statistics
Matches: 37, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
30 12 0.32
31 25 0.68
ACGTcount: A:0.71, C:0.00, G:0.19, T:0.10
Consensus pattern (30 bp):
AAAAAGAAAGTGAAAAATAAAAAGAGAAGG
Found at i:52358357 original size:36 final size:36
Alignment explanation
Indices: 52358308--52358382 Score: 114
Period size: 36 Copynumber: 2.1 Consensus size: 36
52358298 CCAAAAGGTA
* * * *
52358308 AGCAATGTCTGAGTTTTGAAGTTTTTAAAACATATC
1 AGCAAGGTATGAGTTTTAAAGTTTTTAAAACACATC
52358344 AGCAAGGTATGAGTTTTAAAGTTTTTAAAACACATC
1 AGCAAGGTATGAGTTTTAAAGTTTTTAAAACACATC
52358380 AGC
1 AGC
52358383 CTCATTCGAT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.36, C:0.12, G:0.17, T:0.35
Consensus pattern (36 bp):
AGCAAGGTATGAGTTTTAAAGTTTTTAAAACACATC
Found at i:52363394 original size:50 final size:50
Alignment explanation
Indices: 52363329--52363424 Score: 147
Period size: 50 Copynumber: 1.9 Consensus size: 50
52363319 ACCGAGGTTC
* *
52363329 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCTATCAA
* * *
52363379 TCTGGTACACGTAGTAGCTTGCACTTAGTACTACACACGTGACCTA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCTA
52363425 AACCCATCTT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 41 1.00
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (50 bp):
TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCTATCAA
Found at i:52364506 original size:69 final size:68
Alignment explanation
Indices: 52364326--52364516 Score: 238
Period size: 69 Copynumber: 2.8 Consensus size: 68
52364316 ATTTTTGGAA
* * * *
52364326 AGCACATTAAGCATTTAAAATGGATGTAAATGAACACATTTTCAAGACAACAAATTAGCCCTTTA
1 AGCACATTAAGCATTT-AAATGAATGTAAATGAACACATTTTTAAGATAACAAATTAGCACTTTA
*
52364391 CAGC
65 CAAC
* * * *
52364395 AGCACATTAAGCATCTAAAATTAATGTGAGTGAACACATTTTTAAGATAACAAATTAGCACTTTA
1 AGCACATTAAGCAT-TTAAATGAATGTAAATGAACACATTTTTAAGATAACAAATTAGCACTTTA
52364460 CAAC
65 CAAC
* * * *
52364464 ATCACATTAAGCATTTAAATCGAACGTAAATGAAGACATTTTTAATATAACAA
1 AGCACATTAAGCATTTAAAT-GAATGTAAATGAACACATTTTTAAGATAACAA
52364517 CTCATCAATT
Statistics
Matches: 103, Mismatches: 17, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
68 5 0.05
69 97 0.94
70 1 0.01
ACGTcount: A:0.44, C:0.16, G:0.12, T:0.28
Consensus pattern (68 bp):
AGCACATTAAGCATTTAAATGAATGTAAATGAACACATTTTTAAGATAACAAATTAGCACTTTAC
AAC
Found at i:52364844 original size:68 final size:68
Alignment explanation
Indices: 52364713--52364869 Score: 183
Period size: 68 Copynumber: 2.3 Consensus size: 68
52364703 TTAACTGTGA
* * * * *
52364713 AATC-AACAGATTCGGACAACTACATTTACTAAATAAAACAACATATATGGTAGTGCATCGAACA
1 AATCTAACACATTCGGACAGCTACATTTACCAAATAAAACAACATAAATGATAGTGCATCGAACA
52364777 ATG
66 ATG
* * ** * *
52364780 AATTTAACACATTCGGACAGCTACATTTACCAAATAAAATAGTATAAATGAT-GATGCTTTGAAC
1 AATCTAACACATTCGGACAGCTACATTTACCAAATAAAACAACATAAATGATAG-TGCATCGAAC
52364844 AATG
65 AATG
*
52364848 AATCTAACACATTCGAACAGCT
1 AATCTAACACATTCGGACAGCT
52364870 TAATTTTAAG
Statistics
Matches: 75, Mismatches: 13, Indels: 3
0.82 0.14 0.03
Matches are distributed among these distances:
67 4 0.05
68 71 0.95
ACGTcount: A:0.43, C:0.18, G:0.13, T:0.26
Consensus pattern (68 bp):
AATCTAACACATTCGGACAGCTACATTTACCAAATAAAACAACATAAATGATAGTGCATCGAACA
ATG
Found at i:52379268 original size:43 final size:42
Alignment explanation
Indices: 52379202--52379319 Score: 146
Period size: 43 Copynumber: 2.8 Consensus size: 42
52379192 TCACATGTAT
* *
52379202 CACATCCATTATGAACTCGGACCACTCAACGAGCTCGGATGC
1 CACATCCATAATGAACTCAGACCACTCAACGAGCTCGGATGC
* *
52379244 TCGCATCCATAATGAACTCAGACCACTCAACGAGCTTGGATGC
1 -CACATCCATAATGAACTCAGACCACTCAACGAGCTCGGATGC
** * * *
52379287 CACATATATCACGAACCCAGACCACTCAACGAG
1 CACATCCATAATGAACTCAGACCACTCAACGAG
52379320 TTCAGGCTTT
Statistics
Matches: 65, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
42 27 0.42
43 38 0.58
ACGTcount: A:0.32, C:0.33, G:0.17, T:0.18
Consensus pattern (42 bp):
CACATCCATAATGAACTCAGACCACTCAACGAGCTCGGATGC
Found at i:52384436 original size:32 final size:31
Alignment explanation
Indices: 52384316--52384446 Score: 88
Period size: 32 Copynumber: 3.9 Consensus size: 31
52384306 ACAAATTATG
* *
52384316 TGCATGGGCTTTATTGTATGTAAAATATATTTATA
1 TGCAT-GG-TTTATTGTATATATAATATA--TATA
*
52384351 TGCATGGACTTTATTATTATATATAATATATATA
1 TGCATGG--TTTATT-GTATATATAATATATATA
* *
52384385 --CGTGGTTTTTGGTGTTATATATAATATATATA
1 TGCATGGTTTAT--TG-TATATATAATATATATA
52384417 TGCATGGTTCTATTGTATATAGT-ATATATA
1 TGCATGGTT-TATTGTATATA-TAATATATA
52384447 ATTATGGGTA
Statistics
Matches: 79, Mismatches: 8, Indels: 21
0.73 0.07 0.19
Matches are distributed among these distances:
30 4 0.05
32 35 0.44
33 3 0.04
34 12 0.15
35 14 0.18
36 11 0.14
ACGTcount: A:0.32, C:0.05, G:0.15, T:0.47
Consensus pattern (31 bp):
TGCATGGTTTATTGTATATATAATATATATA
Found at i:52384474 original size:31 final size:30
Alignment explanation
Indices: 52384402--52384485 Score: 82
Period size: 31 Copynumber: 2.8 Consensus size: 30
52384392 TTTGGTGTTA
* * *
52384402 TATATAATATATAT-ATGCATGGTTCTATTG
1 TATATAATATATATAAT-TATGGGTATATTG
* *
52384432 TATATAGTATATATAATTATGGGTATAGTTT
1 TATATAATATATATAATTATGGGTATA-TTG
52384463 TATATAATATATA-AATTTATGGG
1 TATATAATATATATAA-TTATGGG
52384486 ACTTTTAATG
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
30 22 0.49
31 23 0.51
ACGTcount: A:0.37, C:0.02, G:0.14, T:0.46
Consensus pattern (30 bp):
TATATAATATATATAATTATGGGTATATTG
Found at i:52387010 original size:21 final size:21
Alignment explanation
Indices: 52386968--52387011 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
52386958 GTAAAGTTTG
**
52386968 TAATTTTACATAATTAGGTGT
1 TAATTTTACATAATTACATGT
* *
52386989 TAATTTTACATCATTTCATGT
1 TAATTTTACATAATTACATGT
52387010 TA
1 TA
52387012 TTATGCTACA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.32, C:0.09, G:0.09, T:0.50
Consensus pattern (21 bp):
TAATTTTACATAATTACATGT
Found at i:52392379 original size:47 final size:47
Alignment explanation
Indices: 52392310--52392429 Score: 213
Period size: 47 Copynumber: 2.6 Consensus size: 47
52392300 ATGCCAATGA
52392310 CATGTCCCAAACATGGTCTTACACTGGCTCATCCATTAAGTCGATGC
1 CATGTCCCAAACATGGTCTTACACTGGCTCATCCATTAAGTCGATGC
* *
52392357 CATGTACCAAACATGGTCTTACACTGGCTTATCCATTAAGTCGATGC
1 CATGTCCCAAACATGGTCTTACACTGGCTCATCCATTAAGTCGATGC
*
52392404 CATGTCCCAGACATGGTCTTACACTG
1 CATGTCCCAAACATGGTCTTACACTG
52392430 ACTATCGAAA
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 69 1.00
ACGTcount: A:0.26, C:0.28, G:0.17, T:0.28
Consensus pattern (47 bp):
CATGTCCCAAACATGGTCTTACACTGGCTCATCCATTAAGTCGATGC
Found at i:52395577 original size:15 final size:15
Alignment explanation
Indices: 52395542--52395571 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
52395532 AGTGTTAATG
*
52395542 GAATCTATTGGTTGT
1 GAATCTACTGGTTGT
52395557 GAATCTACTGGTTGT
1 GAATCTACTGGTTGT
52395572 ATATCTTACG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.20, C:0.10, G:0.27, T:0.43
Consensus pattern (15 bp):
GAATCTACTGGTTGT
Found at i:52399365 original size:49 final size:49
Alignment explanation
Indices: 52399278--52399408 Score: 145
Period size: 49 Copynumber: 2.7 Consensus size: 49
52399268 TATTGTGTGT
* * * * * *
52399278 CAGTATAAGACTTGTCTAGGATATGGCATCGACATCGATAAATGAGAGC
1 CAGTGTAAGACCTGTCTAGGACACGACATCGACATCGATAAATGAAAGC
* * * * **
52399327 CAGTGTAAGACCTGTTTGGGACACGACATCGACCTCGATATATGAAATT
1 CAGTGTAAGACCTGTCTAGGACACGACATCGACATCGATAAATGAAAGC
*
52399376 CAGTGTAAGACCTGTCTAGGACATGACATCGAC
1 CAGTGTAAGACCTGTCTAGGACACGACATCGAC
52399409 TTTGATGTGC
Statistics
Matches: 67, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
49 67 1.00
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.24
Consensus pattern (49 bp):
CAGTGTAAGACCTGTCTAGGACACGACATCGACATCGATAAATGAAAGC
Found at i:52403391 original size:16 final size:17
Alignment explanation
Indices: 52403357--52403392 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
52403347 ATAATAGCGA
52403357 AAACATAAATAGATAAG
1 AAACATAAATAGATAAG
52403374 AAACATAAATAG-TAAG
1 AAACATAAATAGATAAG
52403390 AAA
1 AAA
52403393 ATATATATAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.67, C:0.06, G:0.11, T:0.17
Consensus pattern (17 bp):
AAACATAAATAGATAAG
Found at i:52403402 original size:17 final size:16
Alignment explanation
Indices: 52403364--52403420 Score: 64
Period size: 16 Copynumber: 3.5 Consensus size: 16
52403354 CGAAAACATA
52403364 AATAGATAAGAAACATA-
1 AATAG-TAAGAAA-ATAT
52403381 AATAGTAAGAAAATAT
1 AATAGTAAGAAAATAT
*
52403397 ATATAG-ATGAAAATAT
1 A-ATAGTAAGAAAATAT
52403413 AATAGTAA
1 AATAGTAA
52403421 TAATAATACG
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
15 7 0.20
16 19 0.54
17 9 0.26
ACGTcount: A:0.61, C:0.02, G:0.12, T:0.25
Consensus pattern (16 bp):
AATAGTAAGAAAATAT
Found at i:52403557 original size:15 final size:15
Alignment explanation
Indices: 52403532--52403571 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
52403522 TATTATATTG
52403532 ATAATAAATAAAAGGA
1 ATAA-AAATAAAAGGA
* *
52403548 ATAAAAATAATAGTA
1 ATAAAAATAAAAGGA
52403563 ATAAAAATA
1 ATAAAAATA
52403572 TTAACAATAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 18 0.82
16 4 0.18
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.23
Consensus pattern (15 bp):
ATAAAAATAAAAGGA
Found at i:52403590 original size:3 final size:3
Alignment explanation
Indices: 52403547--52403867 Score: 156
Period size: 3 Copynumber: 105.7 Consensus size: 3
52403537 AAATAAAAGG
* * * * * * * *
52403547 AAT AAA AAT AAT AGT AAT AAA AAT ATT AAC AAT AGT AAT AAT AAC GAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
52403595 AAT -AT AAAT ACT AAT ATAT ACAT GAAT AAT AAT AAT AAT AGT AAT AAT
1 AAT AAT -AAT AAT AAT A-AT A-AT -AAT AAT AAT AAT AAT AAT AAT AAT
* * *
52403643 AAT AAT AAC AAT AAT AAT AAC AAT ACATT AAT ATAT GAT AAT -AT CAAT
1 AAT AAT AAT AAT AAT AAT AAT AAT A-A-T AAT A-AT AAT AAT AAT -AAT
* * * * * *
52403691 AAT ATT AGT AAGT AA- AAA AAGGG AAT AAT AAT AGT AGT AAT AAT AAT
1 AAT AAT AAT AA-T AAT AAT AA--T AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * *
52403738 AAC AAT AGT AAG AAT AAT AAT GAT AAT -AT AAC AA- ACAT AGT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT
* * ** * **
52403782 -AT AAT CAAT AA- AAT -AT AAT AGT AAT AAA AAT AAT GCT AAC GGT
1 AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
52403825 AAT AAT AAT AAT AAT GAT AGT AAT -AT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
52403868 GTAAAATGAT
Statistics
Matches: 234, Mismatches: 63, Indels: 42
0.69 0.19 0.12
Matches are distributed among these distances:
2 17 0.07
3 190 0.81
4 22 0.09
5 5 0.02
ACGTcount: A:0.59, C:0.04, G:0.07, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:52414002 original size:24 final size:24
Alignment explanation
Indices: 52413952--52414005 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 24
52413942 AATCGAATTT
*
52413952 GCACACATAGTGCTCGTCACACTC
1 GCACACATAGTGCTAGTCACACTC
52413976 GCACACATAGTGCCATAGT-ACAC-C
1 GCACACATAGTG-C-TAGTCACACTC
52414000 GCACAC
1 GCACAC
52414006 TCAGTGCATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
24 19 0.70
25 5 0.19
26 3 0.11
ACGTcount: A:0.30, C:0.37, G:0.17, T:0.17
Consensus pattern (24 bp):
GCACACATAGTGCTAGTCACACTC
Found at i:52421929 original size:24 final size:24
Alignment explanation
Indices: 52421879--52421932 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 24
52421869 AATCGAATTT
*
52421879 GCACACATAGTGCTCGTCACACTC
1 GCACACATAGTGCTAGTCACACTC
52421903 GCACACATAGTGCCATAGT-ACAC-C
1 GCACACATAGTG-C-TAGTCACACTC
52421927 GCACAC
1 GCACAC
52421933 TCAGTGCATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
24 19 0.70
25 5 0.19
26 3 0.11
ACGTcount: A:0.30, C:0.37, G:0.17, T:0.17
Consensus pattern (24 bp):
GCACACATAGTGCTAGTCACACTC
Found at i:52426766 original size:48 final size:46
Alignment explanation
Indices: 52426636--52426806 Score: 175
Period size: 46 Copynumber: 3.7 Consensus size: 46
52426626 TCATCTCGTA
* * * *
52426636 GCCGATTCATGTCCCAGACATGTCTCACACTGGCT-TACGTCTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCT-CATCTCAAG
* * * *
52426682 GCCGATGCATGTCCTATACATGTCTTACACTAGCTCTCATCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTCAAG
* * * **
52426728 GCTGATGCCATGTCCCAGACATGGTCTTACATTGGCTCTCATAAT-GTG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCAT-CTCAAG
52426776 GCCGATGCATGTCCCAGACATGTCTTACACT
1 GCCGATGCATGTCCCAGACATGTCTTACACT
52426807 AGCCAACAAT
Statistics
Matches: 102, Mismatches: 19, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
46 51 0.50
47 27 0.26
48 23 0.23
49 1 0.01
ACGTcount: A:0.22, C:0.30, G:0.19, T:0.29
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTCAAG
Found at i:52435949 original size:41 final size:43
Alignment explanation
Indices: 52435843--52435957 Score: 128
Period size: 42 Copynumber: 2.7 Consensus size: 43
52435833 ACGTATCAAT
* * * *
52435843 GCCATACCCCAGATATGGTCTTACATGAAAT-ATCATATCGAC
1 GCCATATCCCAGATATGGTCTTATACGAAATCATCATACCGAC
* * * *
52435885 GCCATGTCCCTGACATGGTCTTATACGAAATCA-CATACCGAT
1 GCCATATCCCAGATATGGTCTTATACGAAATCATCATACCGAC
*
52435927 G-CATATCCCAGATATGGTCTTATACGGAATC
1 GCCATATCCCAGATATGGTCTTATACGAAATC
52435958 TCGGTAGTAC
Statistics
Matches: 60, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
41 26 0.43
42 33 0.55
43 1 0.02
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (43 bp):
GCCATATCCCAGATATGGTCTTATACGAAATCATCATACCGAC
Found at i:52440294 original size:68 final size:67
Alignment explanation
Indices: 52440222--52440371 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
52440212 CATCATGTGT
* * * *
52440222 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
52440284 ATGTAG
62 ATGTAG
** * *
52440290 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
52440355 AG
66 AG
52440357 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
52440372 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:52440327 original size:64 final size:64
Alignment explanation
Indices: 52440246--52440429 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
52440236 AGACATTATG
* *
52440246 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
52440310 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
52440375 AA
63 AA
* * * *
52440377 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
52440430 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:52442761 original size:20 final size:20
Alignment explanation
Indices: 52442728--52442768 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
52442718 AGCTCAATAC
52442728 ATAAGCTAGATGAATGGACA
1 ATAAGCTAGATGAATGGACA
* *
52442748 ATAAGTTAGCTGAATGGACA
1 ATAAGCTAGATGAATGGACA
52442768 A
1 A
52442769 CTTGTGTTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.44, C:0.10, G:0.24, T:0.22
Consensus pattern (20 bp):
ATAAGCTAGATGAATGGACA
Found at i:52443315 original size:40 final size:39
Alignment explanation
Indices: 52443260--52443337 Score: 129
Period size: 40 Copynumber: 2.0 Consensus size: 39
52443250 TTAACTCAAC
* *
52443260 CAGCTAATTAAGTTGTAATGAGCTAAGACATACTTAAATT
1 CAGCTAATTAAGTTGTAATAAGCTAAGACA-AATTAAATT
52443300 CAGCTAATTAAGTTGTAATAAGCTAAGACAAATTAAAT
1 CAGCTAATTAAGTTGTAATAAGCTAAGACAAATTAAAT
52443338 AGCTGTACTA
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
39 7 0.19
40 29 0.81
ACGTcount: A:0.44, C:0.12, G:0.14, T:0.31
Consensus pattern (39 bp):
CAGCTAATTAAGTTGTAATAAGCTAAGACAAATTAAATT
Found at i:52443395 original size:47 final size:46
Alignment explanation
Indices: 52443323--52443479 Score: 233
Period size: 47 Copynumber: 3.3 Consensus size: 46
52443313 TGTAATAAGC
* * *
52443323 TAAGACAAATTAAATAGCTGTACTAACTAAAACATATTAAATTAACT
1 TAAGACAAATTAAATAGCTGAACTAA-TAGAACATATTAAATAAACT
*
52443370 TAGGACAAATTAAATAGCTGAACTAATTAGAACATATTAAATAAACT
1 TAAGACAAATTAAATAGCTGAACTAA-TAGAACATATTAAATAAACT
* *
52443417 TAAGACAAATTAAATTGCTGAACTAATCAGAACACATTAAATAAACT
1 TAAGACAAATTAAATAGCTGAACTAAT-AGAACATATTAAATAAACT
52443464 TAAGACAAATTAAATA
1 TAAGACAAATTAAATA
52443480 CTTAAGCTAA
Statistics
Matches: 100, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
46 1 0.01
47 99 0.99
ACGTcount: A:0.52, C:0.12, G:0.08, T:0.27
Consensus pattern (46 bp):
TAAGACAAATTAAATAGCTGAACTAATAGAACATATTAAATAAACT
Found at i:52446490 original size:49 final size:49
Alignment explanation
Indices: 52446430--52446606 Score: 180
Period size: 49 Copynumber: 3.6 Consensus size: 49
52446420 TGTTGTTTGT
*
52446430 TAGTGTAAGACCTGTCTGGGACATGGCATCGACATCGATAGATGAGAGC
1 TAGTGTAAGACCTGTCTGGGACATGGCATCGACATCGATAGATGAAAGC
* * * *
52446479 TAGTGTAAGACCTGCCTGTGACATGGCATCGACCTCGATATATGAAAG-
1 TAGTGTAAGACCTGTCTGGGACATGGCATCGACATCGATAGATGAAAGC
* * * * ** **
52446527 TCAGTGTAAGACCTGTCTGAGACTTTGCATCGACTTTAAT-G-TGCTAGC
1 T-AGTGTAAGACCTGTCTGGGACATGGCATCGACATCGATAGATGAAAGC
* *
52446575 CAGTGTAAGACCATGTCTGGGACATGACATCG
1 TAGTGTAAGACC-TGTCTGGGACATGGCATCG
52446607 GCATTTTATC
Statistics
Matches: 105, Mismatches: 20, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
47 15 0.14
48 16 0.15
49 74 0.70
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (49 bp):
TAGTGTAAGACCTGTCTGGGACATGGCATCGACATCGATAGATGAAAGC
Found at i:52456568 original size:43 final size:43
Alignment explanation
Indices: 52456487--52456572 Score: 104
Period size: 43 Copynumber: 2.0 Consensus size: 43
52456477 AAATCATATA
* **
52456487 ATGCCAATGTCCTAGATGTGGTCTTACATGTAGCCACATATCG
1 ATGCCAATGTCCCAGATGTGGTCTTACATGTAAACACATATCG
*
52456530 ATGCCACTGTCCCAGATAG-GGTCTTAC-TCGTAAACACATATCG
1 ATGCCAATGTCCCAGAT-GTGGTCTTACAT-GTAAACACATATCG
52456573 GAATCACAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
42 1 0.03
43 35 0.95
44 1 0.03
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.28
Consensus pattern (43 bp):
ATGCCAATGTCCCAGATGTGGTCTTACATGTAAACACATATCG
Found at i:52465121 original size:13 final size:13
Alignment explanation
Indices: 52465103--52465131 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
52465093 AATAGTTGTG
52465103 TGTTATTTAATTA
1 TGTTATTTAATTA
52465116 TGTTATTTAATTA
1 TGTTATTTAATTA
52465129 TGT
1 TGT
52465132 AGGTTAGCCG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.28, C:0.00, G:0.10, T:0.62
Consensus pattern (13 bp):
TGTTATTTAATTA
Found at i:52469482 original size:10 final size:10
Alignment explanation
Indices: 52469469--52469514 Score: 56
Period size: 10 Copynumber: 4.5 Consensus size: 10
52469459 AGCTCACTTG
52469469 AGCTCGTTTT
1 AGCTCGTTTT
*
52469479 AGCTCGTTTG
1 AGCTCGTTTT
*
52469489 AGCTCGAATTT
1 AGCTCG-TTTT
*
52469500 AGCTCGTTTC
1 AGCTCGTTTT
52469510 AGCTC
1 AGCTC
52469515 ATTCCTTTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
10 22 0.73
11 8 0.27
ACGTcount: A:0.15, C:0.24, G:0.22, T:0.39
Consensus pattern (10 bp):
AGCTCGTTTT
Found at i:52469502 original size:21 final size:20
Alignment explanation
Indices: 52469466--52469514 Score: 71
Period size: 21 Copynumber: 2.4 Consensus size: 20
52469456 ATCAGCTCAC
*
52469466 TTGAGCTCGTTTTAGCTCGT
1 TTGAGCTCGATTTAGCTCGT
52469486 TTGAGCTCGAATTTAGCTCGT
1 TTGAGCTCG-ATTTAGCTCGT
*
52469507 TTCAGCTC
1 TTGAGCTC
52469515 ATTCCTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
20 9 0.35
21 17 0.65
ACGTcount: A:0.14, C:0.22, G:0.22, T:0.41
Consensus pattern (20 bp):
TTGAGCTCGATTTAGCTCGT
Found at i:52469757 original size:13 final size:13
Alignment explanation
Indices: 52469739--52469767 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
52469729 AATAGTTGTG
52469739 TGTTATTTAATTA
1 TGTTATTTAATTA
52469752 TGTTATTTAATTA
1 TGTTATTTAATTA
52469765 TGT
1 TGT
52469768 AGGTTAGCTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.28, C:0.00, G:0.10, T:0.62
Consensus pattern (13 bp):
TGTTATTTAATTA
Found at i:52472085 original size:46 final size:45
Alignment explanation
Indices: 52472029--52472196 Score: 180
Period size: 46 Copynumber: 3.6 Consensus size: 45
52472019 TGGTTGAGCA
52472029 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAA-G
* ** * *
52472075 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCAT-TTATG-GA-T-GCGAAG
* *
52472122 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAA-G
*
52472168 -CCCAAGCTCGTTGAGTTGAGTCCGAGTTC
1 TCCGAA-CTCGTTGAGTTGAGTCCGAGTTC
52472197 GCTTATGGGC
Statistics
Matches: 100, Mismatches: 14, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 4 0.04
46 56 0.56
47 31 0.31
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAAG
Found at i:52472185 original size:93 final size:93
Alignment explanation
Indices: 52472026--52472197 Score: 292
Period size: 93 Copynumber: 1.8 Consensus size: 93
52472016 GGATGGTTGA
* * *
52472026 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCCAACTCGTTGAGT
52472091 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
52472119 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCCAAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCCAA-CTCGTTGAG
52472183 TTGAGTCCGAGTTCG
65 TTGAGTCCGAGTTCG
52472198 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
92 4 0.05
93 70 0.95
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCCAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:52481005 original size:40 final size:39
Alignment explanation
Indices: 52480916--52481013 Score: 115
Period size: 40 Copynumber: 2.5 Consensus size: 39
52480906 CTAAGTCGGT
* *
52480916 ACCGCACACTTAGTGCCCTCTATAGCCGAAGCTATGCCA
1 ACCGCACACTTAGTGCCATCTATAGCCGAAGCTATGCAA
* * * **
52480955 ACTCGTACACTTAGTGCCATTTGTAGCCGAAGCTATATTAA
1 AC-CGCACACTTAGTGCCATCTATAGCCGAAGCTAT-GCAA
52480996 ACCGCACACTTAGTGCCA
1 ACCGCACACTTAGTGCCA
52481014 ATCATAGTCG
Statistics
Matches: 49, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
39 2 0.04
40 44 0.90
41 3 0.06
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.24
Consensus pattern (39 bp):
ACCGCACACTTAGTGCCATCTATAGCCGAAGCTATGCAA
Found at i:52482931 original size:46 final size:46
Alignment explanation
Indices: 52482862--52482990 Score: 163
Period size: 46 Copynumber: 2.8 Consensus size: 46
52482852 GGTGGTAGGT
*
52482862 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACAT-CATGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCA-ATACACGA
* * * * *
52482908 GTGCTAGTGTAAGACATGTCTGGGATATGCTTCGG-CATTGAGACGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCAAT-ACACGA
*
52482954 GAGCTAGTGTAATACATGTCTGGGACATGCATCGGCC
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCC
52482991 TCGGGATATA
Statistics
Matches: 70, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
44 1 0.01
45 2 0.03
46 66 0.94
47 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (46 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCAATACACGA
Found at i:52483782 original size:21 final size:21
Alignment explanation
Indices: 52483735--52483775 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
52483725 GGCTAATATT
**
52483735 AAAATTTTTTTTATGAATGCA
1 AAAATTTTTTCCATGAATGCA
52483756 AGAAATTTTTTCCATGAATG
1 A-AAATTTTTTCCATGAATG
52483776 TGAAAATGGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 1 0.06
22 16 0.94
ACGTcount: A:0.37, C:0.07, G:0.12, T:0.44
Consensus pattern (21 bp):
AAAATTTTTTCCATGAATGCA
Found at i:52484406 original size:21 final size:20
Alignment explanation
Indices: 52484376--52484415 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
52484366 GTCATGATGG
52484376 CCACACGGGCGTGTTGCCCTT
1 CCACACGGGCGTGTT-CCCTT
*
52484397 CCACATGGGCGTGTTCCCT
1 CCACACGGGCGTGTTCCCT
52484416 GCTTCAAGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.10, C:0.38, G:0.28, T:0.25
Consensus pattern (20 bp):
CCACACGGGCGTGTTCCCTT
Found at i:52485967 original size:21 final size:22
Alignment explanation
Indices: 52485941--52485998 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 22
52485931 CAGCTTGTCT
52485941 GAGCTTACTATT-AACTCGATA-
1 GAGCTTACTATTCAACTCG-TAC
*
52485962 GAGCTTACCATTTCAACTCGTAC
1 GAGCTTACTA-TTCAACTCGTAC
*
52485985 GAACTTACTATTCA
1 GAGCTTACTATTCA
52485999 TCAACTCAGG
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
21 9 0.29
22 8 0.26
23 14 0.45
ACGTcount: A:0.31, C:0.24, G:0.12, T:0.33
Consensus pattern (22 bp):
GAGCTTACTATTCAACTCGTAC
Found at i:52506713 original size:24 final size:25
Alignment explanation
Indices: 52506686--52506743 Score: 82
Period size: 24 Copynumber: 2.4 Consensus size: 25
52506676 AGCTCCCGTT
*
52506686 ATATGGCTCTTTGTGAGCTTCCT-A
1 ATATGGCTCTTTGTGAACTTCCTGA
*
52506710 ATATGGTTCTTTGTGAACTTCCTGA
1 ATATGGCTCTTTGTGAACTTCCTGA
*
52506735 CTATGGCTC
1 ATATGGCTC
52506744 GTATGAGTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
24 21 0.72
25 8 0.28
ACGTcount: A:0.17, C:0.21, G:0.21, T:0.41
Consensus pattern (25 bp):
ATATGGCTCTTTGTGAACTTCCTGA
Found at i:52509015 original size:42 final size:44
Alignment explanation
Indices: 52508915--52509062 Score: 117
Period size: 42 Copynumber: 3.4 Consensus size: 44
52508905 TGCAATTTCA
** * * *
52508915 TGTAAGACCACATCTAGGACGTTGGCATCGATTTGAGATTTACG
1 TGTAAGACCATGTCTGGGACATCGGCATCGATTTGAGATTTACG
52508959 TGTAAGACCATGTCTGGGACATCGGCATCGTATTT-A-ATTT-CG
1 TGTAAGACCATGTCTGGGACATCGGCATCG-ATTTGAGATTTACG
* * * * * * * *
52509001 TGTATGGCCTTGTCTGGGATAGT-GGCATTGATATGTGA-TTACA
1 TGTAAGACCATGTCTGGGACA-TCGGCATCGATTTGAGATTTACG
*
52509044 TGTAAGACCACGTCTGGGA
1 TGTAAGACCATGTCTGGGA
52509063 TGTTGGCATT
Statistics
Matches: 82, Mismatches: 17, Indels: 11
0.75 0.15 0.10
Matches are distributed among these distances:
41 3 0.04
42 27 0.33
43 22 0.27
44 26 0.32
45 4 0.05
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (44 bp):
TGTAAGACCATGTCTGGGACATCGGCATCGATTTGAGATTTACG
Found at i:52510389 original size:21 final size:20
Alignment explanation
Indices: 52510357--52510395 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
52510347 CCTCTGTAAC
52510357 TTTGAAAATTTGT-TAAGTA
1 TTTGAAAATTTGTATAAGTA
52510376 TTTGAGAAATTTTGTATAAG
1 TTTGA-AAA-TTTGTATAAG
52510396 CTCGGTTTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 5 0.29
20 3 0.18
21 5 0.29
22 4 0.24
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.46
Consensus pattern (20 bp):
TTTGAAAATTTGTATAAGTA
Found at i:52516630 original size:42 final size:41
Alignment explanation
Indices: 52516519--52516663 Score: 132
Period size: 42 Copynumber: 3.4 Consensus size: 41
52516509 TCCGATATGA
*
52516519 AATTTCATGTAAGACCAC-GTCTGGGACATTGGCATC-AATTT
1 AATTTCATGTAAGACC-CTGTCTGGGACA-TGGCATCGTATTT
* * *
52516560 GATATTTACGTGTAAGACCATGTTTGGGACATCGGCATCGTATTT
1 -A-ATTT-CATGTAAGACCCTGTCTGGGACAT-GGCATCGTATTT
* *
52516605 AATTTCGTGTAAGACCCTGTCTGGGATAGTGGCATCGATATTT
1 AATTTCATGTAAGACCCTGTCTGGGACA-TGGCATCG-TATTT
* *
52516648 GATTACATGTAAGACC
1 AATTTCATGTAAGACC
52516664 AGGTCTAGGA
Statistics
Matches: 86, Mismatches: 10, Indels: 13
0.79 0.09 0.12
Matches are distributed among these distances:
42 28 0.33
43 28 0.33
44 26 0.30
45 4 0.05
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.33
Consensus pattern (41 bp):
AATTTCATGTAAGACCCTGTCTGGGACATGGCATCGTATTT
Found at i:52518547 original size:46 final size:46
Alignment explanation
Indices: 52518412--52518585 Score: 158
Period size: 46 Copynumber: 3.7 Consensus size: 46
52518402 GTTATTGTGA
* * ** *
52518412 GCTAGTGTAAGACATGTCTAGGACATGCATCGGCCAC-ATTATAAGA
1 GCTAGTGTAAGACATGTCTAGGACATGCATCGGCCTCGA-GACGAGT
* * * * *
52518458 GCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCATTGAGACGAGT
1 GCTAGTGTAAGA-CATGTCTAGGACAT-GCATCGGCCTCGAGACGAGT
*
52518506 GCTAGTGTAAGACATGT-TTGGAACATGCATCGGCCTCGAGACGTAAGT
1 GCTAGTGTAAGACATGTCTAGG-ACATGCATCGGCCTCGAGACG--AGT
*
52518554 -C-AGTGTAAGATATGTCTAGGACATGCATCGGC
1 GCTAGTGTAAGACATGTCTAGGACATGCATCGGC
52518586 TATGAGATGT
Statistics
Matches: 104, Mismatches: 17, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
46 53 0.51
47 26 0.25
48 24 0.23
49 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.24
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTAGGACATGCATCGGCCTCGAGACGAGT
Found at i:52518628 original size:46 final size:45
Alignment explanation
Indices: 52518415--52518630 Score: 120
Period size: 46 Copynumber: 4.7 Consensus size: 45
52518405 ATTGTGAGCT
* * * * *
52518415 AGTGTAAGACATGTCTAGGACATGCATCGGCCACATTATAAG-AGC-C
1 AGTGTAAGACATGTCTGGGACAGGCATCGG-C-TATGAGAAGTA-CTC
* *
52518461 AGTGTAAGACCATGTCTGGGACATGGCATCAGC-ATTGAGACGAGTGCT-
1 AGTGTAAGA-CATGTCTGGGACA-GGCATCGGCTA-TGAGA--AGTACTC
* * * * * *
52518509 AGTGTAAGACATGTTTGGAACATGCATCGGCCT-CGAGACGTAAGTC
1 AGTGTAAGACATGTCTGGGACAGGCATCGG-CTATGAGAAGT-ACTC
* * * *
52518555 AGTGTAAGATATGTCTAGGACATGCATCGGCTATGAGATGT-CTC
1 AGTGTAAGACATGTCTGGGACAGGCATCGGCTATGAGAAGTACTC
*
52518599 AGTGTAAGACCATGTTTGGGACACGGCATCGG
1 AGTGTAAGA-CATGTCTGGGACA-GGCATCGG
52518631 AACAGATATG
Statistics
Matches: 131, Mismatches: 25, Indels: 28
0.71 0.14 0.15
Matches are distributed among these distances:
44 13 0.10
45 14 0.11
46 61 0.47
47 25 0.19
48 18 0.14
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACAGGCATCGGCTATGAGAAGTACTC
Found at i:52530057 original size:38 final size:38
Alignment explanation
Indices: 52530006--52530081 Score: 134
Period size: 38 Copynumber: 2.0 Consensus size: 38
52529996 AGTGTTGTTG
*
52530006 CTTTAATTGACCTGCGGTTGACATATTCATATATCTGT
1 CTTTAATTGACCTGCGGTCGACATATTCATATATCTGT
*
52530044 CTTTAATTGACCTGGGGTCGACATATTCATATATCTGT
1 CTTTAATTGACCTGCGGTCGACATATTCATATATCTGT
52530082 ATGAGATTGG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.24, C:0.18, G:0.17, T:0.41
Consensus pattern (38 bp):
CTTTAATTGACCTGCGGTCGACATATTCATATATCTGT
Found at i:52545890 original size:44 final size:44
Alignment explanation
Indices: 52545820--52546210 Score: 159
Period size: 44 Copynumber: 8.5 Consensus size: 44
52545810 TACTATGGCG
* *
52545820 AATCTTATCTCCTTGAAGTT-TCAGTGGAGCAAGA-TAAAGCTACA
1 AATCTTATATCCCTGAAGTTGT-AGTGGAGC-AGATTAAAGCTACA
* * *
52545864 AATCTTATATCCCTGAAATTGTAGTGGATCAGATTGAAGCTACA
1 AATCTTATATCCCTGAAGTTGTAGTGGAGCAGATTAAAGCTACA
* * * * * *
52545908 ATTCATATACCCCTGAAGTTGCAGTGG-GTCAGAATGAAA-CTATGAGGGTA
1 AATCTTATATCCCTGAAGTTGTAGTGGAG-CAG-ATTAAAGC--T-A---CA
* * * *
52545958 AATCTTATCTCCCTGATGTTGCAGTGGAGCAAGA-TGAAGCTACA
1 AATCTTATATCCCTGAAGTTGTAGTGGAGC-AGATTAAAGCTACA
* * ** ** * *
52546002 AATCTTATACCCCTAAAGTTACAGTGG-GTTGGAATAAAACTACGATAGCA
1 AATCTTATATCCCTGAAGTTGTAGTGGAG-CAG-AT-TAA--A-GCTA-CA
* * ** * *
52546052 AATCTTATCTCCCTAAAGTTGTAGTAAAGTAAGA-TGAAGCTACA
1 AATCTTATATCCCTGAAGTTGTAGTGGAG-CAGATTAAAGCTACA
* * *
52546096 AATCCTATACCCCTGAAGTTGTAGT-GAGTCAGATTGAATCTACCATAGCA
1 AATCTTATATCCCTGAAGTTGTAGTGGAG-CAGATT-AA---AGC-TA-CA
* * *
52546146 AATCTTATCTCCTTGAAGTTGTAGTGGAGCAGATTGAAGCTACA
1 AATCTTATATCCCTGAAGTTGTAGTGGAGCAGATTAAAGCTACA
**
52546190 AATCTTATCCCCCTGAAGTTG
1 AATCTTATATCCCTGAAGTTG
52546211 CAGTAGGTTG
Statistics
Matches: 258, Mismatches: 59, Indels: 60
0.68 0.16 0.16
Matches are distributed among these distances:
43 11 0.04
44 128 0.50
45 11 0.04
46 5 0.02
47 2 0.01
48 5 0.02
49 8 0.03
50 79 0.31
51 9 0.03
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (44 bp):
AATCTTATATCCCTGAAGTTGTAGTGGAGCAGATTAAAGCTACA
Found at i:52545971 original size:94 final size:94
Alignment explanation
Indices: 52545862--52546402 Score: 550
Period size: 94 Copynumber: 5.8 Consensus size: 94
52545852 GATAAAGCTA
* * * *
52545862 CAAATCTTATATCCCTGAAATTGTAGTGGATCAGATTGAAGCTACAATTCATATACCCCTGAAGT
1 CAAATCTTATCTCCCTGAAATTGTAGTGGAGCAGATTGAAGCTACAAATCTTATACCCCTGAAGT
* **
52545927 TGCAGTGGGTCAGAATGAAACTATGAGGG
66 TGCAGTGGGTCAGAATGAAACTACGATAG
* ** * *
52545956 TAAATCTTATCTCCCTGATGTTGCAGTGGAGCAAGA-TGAAGCTACAAATCTTATACCCCTAAAG
1 CAAATCTTATCTCCCTGAAATTGTAGTGGAGC-AGATTGAAGCTACAAATCTTATACCCCTGAAG
* ** *
52546020 TTACAGTGGGTTGGAATAAAACTACGATAG
65 TTGCAGTGGGTCAGAATGAAACTACGATAG
** * *
52546050 CAAATCTTATCTCCCT-AAAGTTGTAGTAAAGTAAGA-TGAAGCTACAAATCCTATACCCCTGAA
1 CAAATCTTATCTCCCTGAAA-TTGTAGTGGAG-CAGATTGAAGCTACAAATCTTATACCCCTGAA
* * * * *
52546113 GTTGTAGTGAGTCAGATTGAATCTACCATAG
64 GTTGCAGTGGGTCAGAATGAAACTACGATAG
* * *
52546144 CAAATCTTATCTCCTTGAAGTTGTAGTGGAGCAGATTGAAGCTACAAATCTTATCCCCCTGAAGT
1 CAAATCTTATCTCCCTGAAATTGTAGTGGAGCAGATTGAAGCTACAAATCTTATACCCCTGAAGT
* ** * * *
52546209 TGCAGTAGGTTGGATTGAATCTACTATAG
66 TGCAGTGGGTCAGAATGAAACTACGATAG
* ** **
52546238 CAAATCTTATCTCCCTGAAATTGTAGTAGAGCAGATTGAAATTACAAATCTTATACATCTGAAGT
1 CAAATCTTATCTCCCTGAAATTGTAGTGGAGCAGATTGAAGCTACAAATCTTATACCCCTGAAGT
** **
52546303 TGCAGTGGGTCA-AATTGATTCTAATATAG
66 TGCAGTGGGTCAGAA-TGAAACTACGATAG
* * * * * * * * *
52546332 CAAACCTTATCTCCTTGAAGTTGCAATGGAGCAAATTAAACCTACAAATCTTATACCCTTGAAGT
1 CAAATCTTATCTCCCTGAAATTGTAGTGGAGCAGATTGAAGCTACAAATCTTATACCCCTGAAGT
52546397 TGCAGT
66 TGCAGT
52546403 AGATTAGATG
Statistics
Matches: 367, Mismatches: 74, Indels: 12
0.81 0.16 0.03
Matches are distributed among these distances:
93 5 0.01
94 357 0.97
95 5 0.01
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.30
Consensus pattern (94 bp):
CAAATCTTATCTCCCTGAAATTGTAGTGGAGCAGATTGAAGCTACAAATCTTATACCCCTGAAGT
TGCAGTGGGTCAGAATGAAACTACGATAG
Found at i:52546028 original size:138 final size:138
Alignment explanation
Indices: 52545775--52546028 Score: 350
Period size: 138 Copynumber: 1.8 Consensus size: 138
52545765 AAACAAATCC
* * * * * * *
52545775 TATACCCTTGAAGTTGCAGTGGGTCGGATTGAACCTACTATGGCGAATCTTATCTCCTTGAAGTT
1 TATACCCCTGAAGTTGCAGTGGGTCAGAATGAAACTACTAGGGCAAATCTTATCTCCCTGAAGTT
* * **
52545840 TCAGTGGAGCAAGATAAAGCTACAAATCTTATATCCCTGAAATTGTAGTGGATCAGATTGAAGCT
66 GCAGTGGAGCAAGATAAAGCTACAAATCTTATACCCCTGAAATTACAGTGGATCAGATTGAAGCT
52545905 ACAATTCA
131 ACAATTCA
* *
52545913 TATACCCCTGAAGTTGCAGTGGGTCAGAATGAAACTA-TGAGGGTAAATCTTATCTCCCTGATGT
1 TATACCCCTGAAGTTGCAGTGGGTCAGAATGAAACTACT-AGGGCAAATCTTATCTCCCTGAAGT
*
52545977 TGCAGTGGAGCAAGATGAAGCTACAAATCTTATACCCCT-AAAGTTACAGTGG
65 TGCAGTGGAGCAAGATAAAGCTACAAATCTTATACCCCTGAAA-TTACAGTGG
52546029 GTTGGAATAA
Statistics
Matches: 100, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
137 4 0.04
138 96 0.96
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.29
Consensus pattern (138 bp):
TATACCCCTGAAGTTGCAGTGGGTCAGAATGAAACTACTAGGGCAAATCTTATCTCCCTGAAGTT
GCAGTGGAGCAAGATAAAGCTACAAATCTTATACCCCTGAAATTACAGTGGATCAGATTGAAGCT
ACAATTCA
Found at i:52546107 original size:188 final size:189
Alignment explanation
Indices: 52545862--52546404 Score: 643
Period size: 188 Copynumber: 2.9 Consensus size: 189
52545852 GATAAAGCTA
* * *
52545862 CAAATCTTATATCCCTGAAATTGTAGTGGA-TCAGATTGAAGCTACAATTCATATACCCCTGAAG
1 CAAATCTTATCTCCCTGAAATTGTAGTAGAGTCAGATTGAAGCTACAAATCATATACCCCTGAAG
* ** * * *
52545926 TTGCAGTGGGTCAGAATGAAACTATGAGGGTAAATCTTATCTCCCTGATGTTGCAGTGGAGCAAG
66 TTGCAGTGGGTCAGAATGAATCTAT-ATAGCAAATCTTATCTCCTTGAAGTTGCAGTGGAGCAAG
*
52545991 A-TGAAGCTACAAATCTTATACCCCTAAAGTTACAGTGGGTTGGAATAAAACTACGATAG
130 ATTGAAGCTACAAATCTTATACCCCTAAAGTTACAGTAGGTTGGAATAAAACTACGATAG
* * *
52546050 CAAATCTTATCTCCCT-AAAGTTGTAGTAAAGTAAGA-TGAAGCTACAAATCCTATACCCCTGAA
1 CAAATCTTATCTCCCTGAAA-TTGTAGTAGAGTCAGATTGAAGCTACAAATCATATACCCCTGAA
* * * * *
52546113 GTTGTAGTGAGTCAGATTGAATCTACCATAGCAAATCTTATCTCCTTGAAGTTGTAGTGGAGC-A
65 GTTGCAGTGGGTCAGAATGAATCTA-TATAGCAAATCTTATCTCCTTGAAGTTGCAGTGGAGCAA
* * * * * * *
52546177 GATTGAAGCTACAAATCTTATCCCCCTGAAGTTGCAGTAGGTTGGATTGAATCTACTATAG
129 GATTGAAGCTACAAATCTTATACCCCTAAAGTTACAGTAGGTTGGAATAAAACTACGATAG
** * **
52546238 CAAATCTTATCTCCCTGAAATTGTAGTAGAG-CAGATTGAAATTACAAATCTTATACATCTGAAG
1 CAAATCTTATCTCCCTGAAATTGTAGTAGAGTCAGATTGAAGCTACAAATCATATACCCCTGAAG
* * *
52546302 TTGCAGTGGGTCA-AATTGATTCTAATATAGCAAACCTTATCTCCTTGAAGTTGCAATGGAGCAA
66 TTGCAGTGGGTCAGAA-TGAATCT-ATATAGCAAATCTTATCTCCTTGAAGTTGCAGTGGAGCAA
* * * * *
52546366 -ATTAAACCTACAAATCTTATACCCTTGAAGTTGCAGTAG
129 GATTGAAGCTACAAATCTTATACCCCTAAAGTTACAGTAG
52546405 ATTAGATGCA
Statistics
Matches: 302, Mismatches: 44, Indels: 18
0.83 0.12 0.05
Matches are distributed among these distances:
187 10 0.03
188 283 0.94
189 9 0.03
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.30
Consensus pattern (189 bp):
CAAATCTTATCTCCCTGAAATTGTAGTAGAGTCAGATTGAAGCTACAAATCATATACCCCTGAAG
TTGCAGTGGGTCAGAATGAATCTATATAGCAAATCTTATCTCCTTGAAGTTGCAGTGGAGCAAGA
TTGAAGCTACAAATCTTATACCCCTAAAGTTACAGTAGGTTGGAATAAAACTACGATAG
Found at i:52546169 original size:50 final size:50
Alignment explanation
Indices: 52546106--52546277 Score: 182
Period size: 50 Copynumber: 3.6 Consensus size: 50
52546096 AATCCTATAC
52546106 CCCTGAAGTTGTAGTGAGTCAGATTGAATCTACCATAGCAAATCTTATCT
1 CCCTGAAGTTGTAGTGAGTCAGATTGAATCTACCATAGCAAATCTTATCT
* * *
52546156 CCTTGAAGTTGTAGTGGAG-CAGATTG-A---AGC-TA-CAAATCTTATCC
1 CCCTGAAGTTGTAGT-GAGTCAGATTGAATCTACCATAGCAAATCTTATCT
* ** *
52546200 CCCTGAAGTTGCAGT-AGGTTGGATTGAATCTACTATAGCAAATCTTATCT
1 CCCTGAAGTTGTAGTGA-GTCAGATTGAATCTACCATAGCAAATCTTATCT
*
52546250 CCCTGAAATTGTAGTAGAG-CAGATTGAA
1 CCCTGAAGTTGTAGT-GAGTCAGATTGAA
52546278 ATTACAAATC
Statistics
Matches: 97, Mismatches: 14, Indels: 22
0.73 0.11 0.17
Matches are distributed among these distances:
42 1 0.01
43 1 0.01
44 29 0.30
45 3 0.03
46 2 0.02
48 1 0.01
49 3 0.03
50 52 0.54
51 4 0.04
52 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.31
Consensus pattern (50 bp):
CCCTGAAGTTGTAGTGAGTCAGATTGAATCTACCATAGCAAATCTTATCT
Found at i:52546379 original size:282 final size:282
Alignment explanation
Indices: 52545862--52546398 Score: 614
Period size: 282 Copynumber: 1.9 Consensus size: 282
52545852 GATAAAGCTA
* *
52545862 CAAATCTTATATCCCTGAAATTGTAGTGGATCAGATTGAAGCTACAATTCATATACCCCTGAAGT
1 CAAATCTTATATCCCTGAAATTGTAGTGGAGCAGATTGAAGCTACAAATCATATACCCCTGAAGT
* * * ** *
52545927 TGCAGTGGGTCAGAATGAAACTATGAGGGTAAATCTTATCTCCCTGATGTTGCAGTGGAGCAAGA
66 TGCAGTAGGTCAGAATGAAACTATGAGAGCAAATCTTATCTCCCTGAAATTGCAGTAGAGCAAGA
* * ** * *
52545992 TGAAGCTACAAATCTTATACCCCTAAAGTTACAGTGGGTTGGAATAAAACTACGATAGCAAATCT
131 TGAAACTACAAATCTTATACACCTAAAGTTACAGTGGGTTCAAATAAAACTAAGATAGCAAACCT
* * * * *
52546057 TATCTCCCTAAAGTTGTAGTAAAGTAAGATGAAGCTACAAATCCTATACCCCTGAAGTTGTAGTG
196 TATCTCCCTAAAGTTGCAATAAAGCAAGATAAACCTACAAATCCTATACCCCTGAAGTTGTAGTG
52546122 AGTCAGATTGAATCTACCATAG
261 AGTCAGATTGAATCTACCATAG
* * * * *
52546144 CAAATCTTATCTCCTTGAAGTTGTAGTGGAGCAGATTGAAGCTACAAATCTTATCCCCCTGAAGT
1 CAAATCTTATATCCCTGAAATTGTAGTGGAGCAGATTGAAGCTACAAATCATATACCCCTGAAGT
** * * * *
52546209 TGCAGTAGGTTGGATTGAATCTACT-ATAGCAAATCTTATCTCCCTGAAATTGTAGTAGAGC-AG
66 TGCAGTAGGTCAGAATGAAACTA-TGAGAGCAAATCTTATCTCCCTGAAATTGCAGTAGAGCAAG
* * * * * ** *
52546272 ATTGAAATTACAAATCTTATACATCTGAAGTTGCAGTGGG-TCAAATTGATTCTAATATAGCAAA
130 A-TGAAACTACAAATCTTATACACCTAAAGTTACAGTGGGTTCAAA-TAAAACTAAGATAGCAAA
* * ** * *
52546336 CCTTATCTCCTTGAAGTTGCAATGGAGCAA-ATTAAACCTACAAATCTTATACCCTTGAAGTTG
193 CCTTATCTCCCTAAAGTTGCAATAAAGCAAGA-TAAACCTACAAATCCTATACCCCTGAAGTTG
52546399 CAGTAGATTA
Statistics
Matches: 207, Mismatches: 44, Indels: 8
0.80 0.17 0.03
Matches are distributed among these distances:
281 7 0.03
282 199 0.96
283 1 0.00
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.30
Consensus pattern (282 bp):
CAAATCTTATATCCCTGAAATTGTAGTGGAGCAGATTGAAGCTACAAATCATATACCCCTGAAGT
TGCAGTAGGTCAGAATGAAACTATGAGAGCAAATCTTATCTCCCTGAAATTGCAGTAGAGCAAGA
TGAAACTACAAATCTTATACACCTAAAGTTACAGTGGGTTCAAATAAAACTAAGATAGCAAACCT
TATCTCCCTAAAGTTGCAATAAAGCAAGATAAACCTACAAATCCTATACCCCTGAAGTTGTAGTG
AGTCAGATTGAATCTACCATAG
Found at i:52548862 original size:40 final size:40
Alignment explanation
Indices: 52548786--52549000 Score: 328
Period size: 40 Copynumber: 5.4 Consensus size: 40
52548776 GATGACATCT
*
52548786 GGGCTAAGTCCCGAAGGCA-TGGTGCTAGTGACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCC
*
52548825 GGGCTAAGTCCCGAAGGCAGTTGTGCTAGTGACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCC
* *
52548865 GGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTATATTC
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCC
*
52548905 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCT
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCC
*
52548945 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTG-CTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACTATATCC
* *
52548985 -GGCTAAATCCTGAAGG
1 GGGCTAAGTCCCGAAGG
52549001 TACTTGGGTT
Statistics
Matches: 163, Mismatches: 11, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
39 33 0.20
40 128 0.79
41 2 0.01
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCC
Found at i:52553325 original size:14 final size:14
Alignment explanation
Indices: 52553306--52553332 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
52553296 AATTTTTATA
52553306 AAAAATTATTTTCT
1 AAAAATTATTTTCT
52553320 AAAAATTATTTTC
1 AAAAATTATTTTC
52553333 AATAAAACAA
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:0.44, C:0.07, G:0.00, T:0.48
Consensus pattern (14 bp):
AAAAATTATTTTCT
Found at i:52553339 original size:15 final size:14
Alignment explanation
Indices: 52553305--52553339 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
52553295 CAATTTTTAT
52553305 AAAAAATTATTTTC
1 AAAAAATTATTTTC
*
52553319 TAAAAATTATTTTC
1 AAAAAATTATTTTC
52553333 AATAAAA
1 AA-AAAA
52553340 CAATCATAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
14 14 0.78
15 4 0.22
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.40
Consensus pattern (14 bp):
AAAAAATTATTTTC
Found at i:52562564 original size:18 final size:19
Alignment explanation
Indices: 52562541--52562583 Score: 54
Period size: 18 Copynumber: 2.3 Consensus size: 19
52562531 CAACTAAAAT
52562541 TTTTAATATTT-TTAT-ACA
1 TTTTAAT-TTTATTATCACA
52562559 TTTTAATTTTATTATGCACA
1 TTTTAATTTTATTAT-CACA
52562579 TTTTA
1 TTTTA
52562584 TTATCTTCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 3 0.14
18 11 0.50
20 8 0.36
ACGTcount: A:0.30, C:0.07, G:0.02, T:0.60
Consensus pattern (19 bp):
TTTTAATTTTATTATCACA
Found at i:52564944 original size:11 final size:9
Alignment explanation
Indices: 52564902--52564961 Score: 61
Period size: 9 Copynumber: 6.6 Consensus size: 9
52564892 GCCATCCTTC
52564902 TTTT-GTTT
1 TTTTAGTTT
52564910 TTTTAG-TT
1 TTTTAGTTT
* *
52564918 TTTAACTTT
1 TTTTAGTTT
52564927 TTTTAGTTT
1 TTTTAGTTT
52564936 TATTATAGTTAT
1 T-TT-TAGTT-T
52564948 TTTTAGTTT
1 TTTTAGTTT
52564957 TTTTA
1 TTTTA
52564962 AAAATTTTTA
Statistics
Matches: 43, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
8 10 0.23
9 17 0.40
10 7 0.16
11 7 0.16
12 2 0.05
ACGTcount: A:0.17, C:0.02, G:0.08, T:0.73
Consensus pattern (9 bp):
TTTTAGTTT
Found at i:52567041 original size:39 final size:40
Alignment explanation
Indices: 52566916--52567100 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
52566906 GCTACTCGTT
*
52566916 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
52566956 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * *
52566996 CCAATGCCTTCGGG-CTTAGCCGGGAATTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
52567035 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
52567076 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
52567101 CATCATTCGA
Statistics
Matches: 123, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
38 2 0.02
39 31 0.25
40 78 0.63
41 12 0.10
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:52567060 original size:79 final size:80
Alignment explanation
Indices: 52566918--52567100 Score: 212
Period size: 79 Copynumber: 2.3 Consensus size: 80
52566908 TACTCGTTCA
* * *
52566918 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATGCCTTCGGGACTTAACCCGGAT
* *
52566983 TTAGTAAC-TCGCACC
66 ATAGTAACTTAGCA-C
* **
52566998 AATGCCTTCGGG-CTTAGCCGGGA-ATTAGTAACTCACACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCACACAAATGCCTTCGGGA-CTTAACCCGG
* *
52567060 ATATGGTCACTTAGCAC
64 ATATAGTAACTTAGCAC
*
52567077 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
52567101 CATCATTCGA
Statistics
Matches: 87, Mismatches: 12, Indels: 8
0.81 0.11 0.07
Matches are distributed among these distances:
78 4 0.05
79 57 0.66
80 26 0.30
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCAC
Found at i:52574543 original size:90 final size:92
Alignment explanation
Indices: 52574343--52574556 Score: 290
Period size: 90 Copynumber: 2.3 Consensus size: 92
52574333 CGCTAAAAAG
52574343 AATGGCTCCACCAAATAAAATATTATTTTTATATTTAAATTAAAAAAAACAAGTTTACAAAAAAA
1 AATGGCTCCACCAAATAAAATATTATTTTTATATTTAAATTAAAAAAAACAAG-TTA-AAAAAAA
* **
52574408 ATGTACAATACACTTGTGGCACCATTCTT
64 AGGTACAATACACCAGTGGCACCATTCTT
* * *
52574437 AATGTCTCCACAAAATAAAATATTATTTTTATATTTAAATT-AAAAAATCACA-TT-AAAAAAAA
1 AATGGCTCCACCAAATAAAATATTATTTTTATATTTAAATTAAAAAAAACA-AGTTAAAAAAAAA
**
52574499 GGTACAATACACCAGTGGTGCCATTCTT
65 GGTACAATACACCAGTGGCACCATTCTT
* *
52574527 AATGGCTTCACCAAATAAAATATGATTTTT
1 AATGGCTCCACCAAATAAAATATTATTTTT
52574557 TTAATTTTTA
Statistics
Matches: 107, Mismatches: 12, Indels: 6
0.86 0.10 0.05
Matches are distributed among these distances:
90 57 0.53
92 2 0.02
93 8 0.07
94 40 0.37
ACGTcount: A:0.45, C:0.14, G:0.08, T:0.33
Consensus pattern (92 bp):
AATGGCTCCACCAAATAAAATATTATTTTTATATTTAAATTAAAAAAAACAAGTTAAAAAAAAAG
GTACAATACACCAGTGGCACCATTCTT
Found at i:52578542 original size:14 final size:13
Alignment explanation
Indices: 52578509--52578549 Score: 57
Period size: 12 Copynumber: 3.2 Consensus size: 13
52578499 TTTAAAACTC
52578509 CTTTAAAAGAAAA
1 CTTTAAAAGAAAA
*
52578522 C-TTAAAAGAAATT
1 CTTTAAAAGAAA-A
52578535 CTTTAAAAGAAAA
1 CTTTAAAAGAAAA
52578548 CT
1 CT
52578550 CAAAGAGAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
12 10 0.42
13 4 0.17
14 10 0.42
ACGTcount: A:0.56, C:0.10, G:0.07, T:0.27
Consensus pattern (13 bp):
CTTTAAAAGAAAA
Found at i:52581334 original size:40 final size:42
Alignment explanation
Indices: 52581290--52581384 Score: 106
Period size: 41 Copynumber: 2.3 Consensus size: 42
52581280 TTATAAATAG
52581290 CACTATGTGTGCGA-AATG-GAATAGCTTCAGCTATATGAGA-
1 CACTATGTGTGCGATAATGAG-ATAGCTTCAGCTATATGAGAT
* * * *
52581330 CACTAGGTGTGCGATACTGAGGTAGCTTCAGCTATTTGAGATGT
1 CACTATGTGTGCGATAATGAGATAGCTTCAGCTATATGAGA--T
52581374 CACTATGTGTG
1 CACTATGTGTG
52581385 TGGAATCATT
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
40 13 0.29
41 21 0.47
42 1 0.02
44 10 0.22
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.31
Consensus pattern (42 bp):
CACTATGTGTGCGATAATGAGATAGCTTCAGCTATATGAGAT
Found at i:52585888 original size:93 final size:93
Alignment explanation
Indices: 52585779--52585949 Score: 252
Period size: 93 Copynumber: 1.8 Consensus size: 93
52585769 GCCCCTAAGT
** *
52585779 GAACTCGAACTCAACTCAACAAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGAACTCAACTCAACAAGCTCGAACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
52585844 CGAGTTCGAATGCCTAGTTACATCTCAC
66 CGAGTTCGAATGCCTAGTTACATCTCAC
* * * * * *
52585872 GAACTCGGACTCAACTCAACGAGTTTGAACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGAACTCAACTCAACAAGCTCGAACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
*
52585937 CGAGTTCGGATGC
66 CGAGTTCGAATGC
52585950 TCAACCATCC
Statistics
Matches: 68, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
93 68 1.00
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (93 bp):
GAACTCGAACTCAACTCAACAAGCTCGAACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGAATGCCTAGTTACATCTCAC
Found at i:52585939 original size:46 final size:46
Alignment explanation
Indices: 52585774--52585944 Score: 168
Period size: 46 Copynumber: 3.7 Consensus size: 46
52585764 AACCCGCCCC
* * * ** * *
52585774 TAAGTGAACTCGAACTCAACTCAACAAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGAACATTTGCATCCA
* * *
52585820 TAAATGAACTCGGACTCAACTCAACGAGTTCGAATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGAA---C-ATTTGCATCCA
* * *
52585868 TCA-CGAACTCGGACTCAACTCAACGAGTTTGAACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGAACATTTGCATCCA
52585913 TAAGTGAACTCGGACTCAACTCAACGAGTTCG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCG
52585945 GATGCTCAAC
Statistics
Matches: 100, Mismatches: 18, Indels: 14
0.76 0.14 0.11
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 54 0.54
47 28 0.28
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGAACATTTGCATCCA
Found at i:52588384 original size:15 final size:15
Alignment explanation
Indices: 52588327--52588406 Score: 67
Period size: 15 Copynumber: 5.4 Consensus size: 15
52588317 CAAAGATAAC
*
52588327 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
52588341 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
52588356 GAGAAA-CCTGGAATA
1 AAGAAATCC-AGAATA
*
52588371 AAGAAATTCAGAATA
1 AAGAAATCCAGAATA
* *
52588386 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
52588401 AAGAAA
1 AAGAAA
52588407 CCCAAGATAC
Statistics
Matches: 51, Mismatches: 10, Indels: 9
0.73 0.14 0.13
Matches are distributed among these distances:
14 11 0.22
15 38 0.75
16 2 0.04
ACGTcount: A:0.57, C:0.11, G:0.19, T:0.12
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:52588415 original size:15 final size:15
Alignment explanation
Indices: 52588338--52588415 Score: 61
Period size: 15 Copynumber: 5.2 Consensus size: 15
52588328 AGAAAACCGA
52588338 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* **
52588353 ATAGAGAAA-CCTGG
1 ATAAAGAAATCCAAG
*
52588367 AATAAAGAAATTC-AG
1 -ATAAAGAAATCCAAG
* *
52588382 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
52588398 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
52588413 ATA
1 ATA
52588416 CGATACTATG
Statistics
Matches: 48, Mismatches: 12, Indels: 6
0.73 0.18 0.09
Matches are distributed among these distances:
14 3 0.06
15 43 0.90
16 2 0.04
ACGTcount: A:0.55, C:0.13, G:0.18, T:0.14
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:52601236 original size:18 final size:19
Alignment explanation
Indices: 52601213--52601248 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
52601203 AACTTGGCAC
*
52601213 CATAA-TCATTTAATTTAA
1 CATAATTCAATTAATTTAA
52601231 CATAATTCAATTAATTTA
1 CATAATTCAATTAATTTA
52601249 CTAAATTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.44, C:0.11, G:0.00, T:0.44
Consensus pattern (19 bp):
CATAATTCAATTAATTTAA
Found at i:52605037 original size:42 final size:41
Alignment explanation
Indices: 52604874--52605038 Score: 123
Period size: 42 Copynumber: 3.9 Consensus size: 41
52604864 AATCATACCA
** * * *
52604874 ATGCCATATCCCAGATATGGTCTTTTATGGGATCTCATATCG
1 ATGCCATATCCCAGATATGGTCTTACA-CGAAACTCATATCG
* * * * * **
52604916 ATGCCAATAGCCTAGCTATAGTCTTACAAGATTCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACACGAAACTCATATCG
* * * * * *
52604958 ACGCCATGTCCCAGACATGGTCCTACACAAAATCTCATAGCG
1 ATGCCATATCCCAGATATGGTCTTACACGAAA-CTCATATCG
*
52605000 ATGCCATATCCCAGATATGGTCTTATACGTAAACTCATA
1 ATGCCATATCCCAGATATGGTCTTACACG-AAACTCATA
52605039 ACCCTAATAT
Statistics
Matches: 92, Mismatches: 28, Indels: 6
0.73 0.22 0.05
Matches are distributed among these distances:
41 16 0.17
42 57 0.62
43 19 0.21
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (41 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAACTCATATCG
Found at i:52606911 original size:13 final size:13
Alignment explanation
Indices: 52606893--52606918 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
52606883 TTAATACTTG
52606893 ACTGAAAATTGTT
1 ACTGAAAATTGTT
52606906 ACTGAAAATTGTT
1 ACTGAAAATTGTT
52606919 GTTATAGGCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.38
Consensus pattern (13 bp):
ACTGAAAATTGTT
Found at i:52620204 original size:42 final size:42
Alignment explanation
Indices: 52620051--52620215 Score: 158
Period size: 42 Copynumber: 3.9 Consensus size: 42
52620041 AATCATACCA
* * **
52620051 ATGCCATATCCCAGATATGGTTTTACATGGGATCTCATATCG
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATCG
* * *
52620093 ATGCCAATAGCGCAGCTATGGTCTTACA--AAATTCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACACGAAA-TCTCATATCG
* * * * *
52620135 ATGCCATGTCCCAGACATGGTCCTACACGAAACCTCAT-TAGG
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATAT-CG
52620177 ATGCCATATCCCAGATATGGTCTTACACGTAAA-CTCATA
1 ATGCCATATCCCAGATATGGTCTTACACG-AAATCTCATA
52620216 ACCCTAATGT
Statistics
Matches: 99, Mismatches: 17, Indels: 13
0.77 0.13 0.10
Matches are distributed among these distances:
41 18 0.18
42 57 0.58
43 24 0.24
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATCG
Found at i:52622680 original size:20 final size:21
Alignment explanation
Indices: 52622655--52622694 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
52622645 CTCTTGAAAC
52622655 AGGGC-ACACCCCCGTGTGGA
1 AGGGCAACACCCCCGTGTGGA
* *
52622675 AGGGCAACACGCCTGTGTGG
1 AGGGCAACACCCCCGTGTGG
52622695 TTATTATAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.20, C:0.30, G:0.38, T:0.12
Consensus pattern (21 bp):
AGGGCAACACCCCCGTGTGGA
Found at i:52624017 original size:48 final size:46
Alignment explanation
Indices: 52623939--52624059 Score: 154
Period size: 48 Copynumber: 2.6 Consensus size: 46
52623929 CTCGTAGTCA
* *
52623939 ATGCATGTCCTAGACATGTCTTACACTGGCTTACAT-TTGGAGGCCG
1 ATGCATGTCCCAGACATGTCTTACACTGGCTTACATAAT-GAGGCCG
* * * *
52623985 ATGCCTTGTCCCAGACATGGTCTTACATTGGCTTTCATAATGTGGCCG
1 ATG-CATGTCCCAGACAT-GTCTTACACTGGCTTACATAATGAGGCCG
52624033 ATGCATGTCCCAGACATGTCTTACACT
1 ATGCATGTCCCAGACATGTCTTACACT
52624060 AGCACACAAA
Statistics
Matches: 64, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
46 12 0.19
47 25 0.39
48 26 0.41
49 1 0.02
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.31
Consensus pattern (46 bp):
ATGCATGTCCCAGACATGTCTTACACTGGCTTACATAATGAGGCCG
Found at i:52624055 original size:94 final size:92
Alignment explanation
Indices: 52623890--52624059 Score: 234
Period size: 92 Copynumber: 1.8 Consensus size: 92
52623880 CATATCCGTA
* *
52623890 CCGATGCCATGTCCCAGACATGGTCTTACATTGACATATCTCGTAGTCAATGCATGTCCTAGACA
1 CCGATGCCATGTCCCAGACATGGTCTTACATTGACATATCTCGTAGCCAATGCATGTCCCAGACA
52623955 TGTCTTACACTGGCTTACATTTGGAGG
66 TGTCTTACACTGGCTTACATTTGGAGG
* * * * * *
52623982 CCGATGCCTTGTCCCAGACATGGTCTTACATTGGC-TTTCATAATGTGGCCGATGCATGTCCCAG
1 CCGATGCCATGTCCCAGACATGGTCTTACATTGACATATC-T--CGTAGCCAATGCATGTCCCAG
52624046 ACATGTCTTACACT
63 ACATGTCTTACACT
52624060 AGCACACAAA
Statistics
Matches: 67, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
91 3 0.04
92 34 0.51
94 30 0.45
ACGTcount: A:0.22, C:0.26, G:0.21, T:0.31
Consensus pattern (92 bp):
CCGATGCCATGTCCCAGACATGGTCTTACATTGACATATCTCGTAGCCAATGCATGTCCCAGACA
TGTCTTACACTGGCTTACATTTGGAGG
Found at i:52628633 original size:37 final size:37
Alignment explanation
Indices: 52628583--52628661 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
52628573 TTATTACGAA
* * *
52628583 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
52628620 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
52628657 GTCTT
1 GTCTT
52628662 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:52628883 original size:46 final size:47
Alignment explanation
Indices: 52628780--52628923 Score: 191
Period size: 47 Copynumber: 3.1 Consensus size: 47
52628770 CCCTTCGGGA
* * * * * * *
52628780 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
52628827 CCTGTCACATATATACACTTTCACATTCA-CACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
52628873 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
52628920 CTTA
1 CTTA
52628924 CTATCATTTC
Statistics
Matches: 84, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
46 40 0.48
47 44 0.52
ACGTcount: A:0.26, C:0.31, G:0.10, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:52632825 original size:40 final size:40
Alignment explanation
Indices: 52632768--52632990 Score: 238
Period size: 40 Copynumber: 5.6 Consensus size: 40
52632758 CCAGCATGAT
* *
52632768 TGCTCTTCGGGATTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * *
52632808 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
52632848 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * * * * *
52632888 TGCTCTTCAGGACTTAGCTCGGATTTAGTAACTCGCACCAA
1 TGCTCTTCGGGACTTAGCCCGGATATA-TCACTAGCACGAA
* *
52632929 TGC-CTTC-GGATCTTAGTCCGGATATGGTCACTTAGCAC-AA
1 TGCTCTTCGGGA-CTTAGCCCGGATAT-ATCAC-TAGCACGAA
*
52632969 AGC-CTTCGGGACTTAGCCCGGA
1 TGCTCTTCGGGACTTAGCCCGGA
52632991 CATCATTCGA
Statistics
Matches: 156, Mismatches: 22, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
39 3 0.02
40 133 0.85
41 20 0.13
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
Found at i:52632976 original size:120 final size:120
Alignment explanation
Indices: 52632755--52632990 Score: 289
Period size: 120 Copynumber: 2.0 Consensus size: 120
52632745 CGAATACACG
* * * * *
52632755 TCACCAGCATGATTGCTCTTCGGGATTTAGCACGGATATATCACTAGCACGAATGCTCTTCGGAA
1 TCACCAGCATGAATGCTCTTCAGGACTTAGCACGGATATATAACTAGCACCAATGCTCTTCGGAA
* *
52632820 CTTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
66 CTTAGCCCGGATACATCACTAGCATCAAAGCTCTTCGGGACTTAGCCCGGATACA
* * * *
52632875 TCACTAGCATGAATGCTCTTCAGGACTTAGCTCGGATTTAGTAACTCGCACCAATGC-CTTCGGA
1 TCACCAGCATGAATGCTCTTCAGGACTTAGCACGGATATA-TAACTAGCACCAATGCTCTTCGGA
* * **
52632939 TCTTAGTCCGGATATGGTCACTTAGCA-CAAAGC-CTTCGGGACTTAGCCCGGA
65 ACTTAGCCCGGATA-CATCAC-TAGCATCAAAGCTCTTCGGGACTTAGCCCGGA
52632991 CATCATTCGA
Statistics
Matches: 98, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
120 72 0.73
121 21 0.21
122 5 0.05
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (120 bp):
TCACCAGCATGAATGCTCTTCAGGACTTAGCACGGATATATAACTAGCACCAATGCTCTTCGGAA
CTTAGCCCGGATACATCACTAGCATCAAAGCTCTTCGGGACTTAGCCCGGATACA
Found at i:52633335 original size:29 final size:29
Alignment explanation
Indices: 52633296--52633374 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
52633286 CTTAATAATC
*
52633296 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
52633326 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
52633355 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
52633375 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:52633421 original size:43 final size:43
Alignment explanation
Indices: 52633356--52633501 Score: 274
Period size: 43 Copynumber: 3.4 Consensus size: 43
52633346 TGCATTTCAA
52633356 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
*
52633399 GCCCGCACACTTAGTGCAAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
*
52633442 TCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
52633485 GCCCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
52633502 TGAAAACCAA
Statistics
Matches: 99, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 99 1.00
ACGTcount: A:0.27, C:0.35, G:0.14, T:0.23
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:52635406 original size:37 final size:37
Alignment explanation
Indices: 52635356--52635434 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
52635346 TTATTACGAA
* * *
52635356 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
52635393 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
52635430 GTCTT
1 GTCTT
52635435 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:52635656 original size:46 final size:47
Alignment explanation
Indices: 52635553--52635696 Score: 191
Period size: 47 Copynumber: 3.1 Consensus size: 47
52635543 CCCTTCGGGA
* * * * * * *
52635553 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
52635600 CCTGTCACATATATACACTTTCACATTCA-CACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
52635646 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
52635693 CTTA
1 CTTA
52635697 CTATCATTTC
Statistics
Matches: 84, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
46 40 0.48
47 44 0.52
ACGTcount: A:0.26, C:0.31, G:0.10, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:52641459 original size:40 final size:40
Alignment explanation
Indices: 52641415--52641602 Score: 263
Period size: 40 Copynumber: 4.7 Consensus size: 40
52641405 GCTACTTGCT
*
52641415 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAAGTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
52641455 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* ** *
52641495 CAAATGCCTTTGAAACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * * **
52641535 CAAATGCCTTCAGG-CTTAGCCCGG-AATTAGTCACGAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
52641574 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
52641603 CATCCGAATA
Statistics
Matches: 130, Mismatches: 15, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
38 1 0.01
39 32 0.25
40 96 0.74
41 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:52651083 original size:49 final size:49
Alignment explanation
Indices: 52651019--52651193 Score: 244
Period size: 49 Copynumber: 3.5 Consensus size: 49
52651009 CTGGTACGCA
* * *
52651019 TAGTAGCCTACACTTAGTACTATACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCAGGTACACG
* * * * *
52651068 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCAGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGCGA-CCAA-TTATCAGGTACACG
52651119 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTAT-ATGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCA-GGTACACG
52651168 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
52651194 CGTGACCTCA
Statistics
Matches: 110, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
48 1 0.01
49 63 0.57
50 6 0.05
51 40 0.36
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCAGGTACACG
Found at i:52651125 original size:51 final size:49
Alignment explanation
Indices: 52651006--52651200 Score: 239
Period size: 49 Copynumber: 3.9 Consensus size: 49
52650996 TAGCCGAAGC
* * * * *
52651006 TATCTGGTACGCATAGTAGCCTACACTTAGTACTATACATGCGACCAAT
1 TATCAGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
* * * *
52651055 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGT
1 TATCAGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-T
* *
52651106 TATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCAGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
* *
52651155 TAT-ATGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TATCA-GGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC
52651201 TCACAATAGC
Statistics
Matches: 125, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
48 1 0.01
49 78 0.62
50 6 0.05
51 40 0.32
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (49 bp):
TATCAGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
Found at i:52651173 original size:100 final size:100
Alignment explanation
Indices: 52651000--52651198 Score: 344
Period size: 100 Copynumber: 2.0 Consensus size: 100
52650990 CACTTGTAGC
* * *
52651000 CGAAGCTATCTGGTACGCATAGTAGCCTACACTTAGTACTATACATGCGACCAATTATCCGGTAC
1 CGAAGCTATCAGGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCAATTATACGGTAC
52651065 ACGTAGTAGCCTGCACTTAGTACTACACACGTGAT
66 ACGTAGTAGCCTGCACTTAGTACTACACACGTGAT
* * *
52651100 CGAAGTTATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATATGGTAC
1 CGAAGCTATCAGGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCAATTATACGGTAC
52651165 ACGTAGTAGCCTGCACTTAGTACTACACACGTGA
66 ACGTAGTAGCCTGCACTTAGTACTACACACGTGA
52651199 CCTCACAATA
Statistics
Matches: 93, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
100 93 1.00
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.26
Consensus pattern (100 bp):
CGAAGCTATCAGGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCAATTATACGGTAC
ACGTAGTAGCCTGCACTTAGTACTACACACGTGAT
Found at i:52655370 original size:6 final size:6
Alignment explanation
Indices: 52655352--52655410 Score: 59
Period size: 6 Copynumber: 9.7 Consensus size: 6
52655342 AAGAAACATT
* *
52655352 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATCAG- GTGACAGA ATTAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
52655401 ATCAGA ATCA
1 ATCAGA ATCA
52655411 ATATCAGGTA
Statistics
Matches: 44, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
5 2 0.05
6 37 0.84
7 4 0.09
8 1 0.02
ACGTcount: A:0.47, C:0.15, G:0.19, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:52655396 original size:31 final size:31
Alignment explanation
Indices: 52655361--52655439 Score: 97
Period size: 31 Copynumber: 2.5 Consensus size: 31
52655351 TATCAGAACT
*
52655361 AGAATCAGAATCAGAATCAGA-ATCAGGTGAC
1 AGAATCAGAATCAGAATCA-ATATCAGGTAAC
* *
52655392 AGAATTAGAATCAGAATCAATATCAGGTAAT
1 AGAATCAGAATCAGAATCAATATCAGGTAAC
* *
52655423 AGAATCAAAACCAGAAT
1 AGAATCAGAATCAGAAT
52655440 GTGAATGCAA
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
30 1 0.02
31 40 0.98
ACGTcount: A:0.49, C:0.14, G:0.18, T:0.19
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAATATCAGGTAAC
Found at i:52655969 original size:27 final size:27
Alignment explanation
Indices: 52655833--52655975 Score: 178
Period size: 27 Copynumber: 5.3 Consensus size: 27
52655823 GGGGCAAAAT
* * * *
52655833 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
52655860 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
52655887 GGTAATTATATCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
52655914 AGTAATTCTACCCATACAAGGGTATTTC
1 GGTAATTCTACCC-TACAGGGGTATTTC
52655942 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
52655969 GATAATT
1 GGTAATT
52655976 TCACAAATTA
Statistics
Matches: 98, Mismatches: 17, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
27 74 0.76
28 24 0.24
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.34
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:52655975 original size:55 final size:54
Alignment explanation
Indices: 52655833--52655968 Score: 191
Period size: 55 Copynumber: 2.5 Consensus size: 54
52655823 GGGGCAAAAT
* * * * *
52655833 GGTAATTTTACCCCACAAGGGTATCTCAGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTATACCCTACAGGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTC
* *
52655887 GGTAATTATATCCTATAGGGGTATTTCAGTAATTCTACCCATACAAGGGTATTTC
1 GGTAATTATACCCTACAGGGGTATTTCAGTAATTCTACCC-TACAAGGGTATTTC
*
52655942 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTATACCCTACAGGGGTATTTC
52655969 GATAATTTCA
Statistics
Matches: 71, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
54 34 0.48
55 37 0.52
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.34
Consensus pattern (54 bp):
GGTAATTATACCCTACAGGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTC
Found at i:52656001 original size:82 final size:81
Alignment explanation
Indices: 52655832--52656002 Score: 220
Period size: 82 Copynumber: 2.1 Consensus size: 81
52655822 AGGGGCAAAA
* *
52655832 TGGTAATTTTACCCCACAAGGGTATCTCAGTAATTCTACCCTACAGGGGTATTTCGGTAATTATA
1 TGGTAATTCTACCCCACAAGGGTATCTCAGTAATTCTACCCTACAGGGGTATTTCGATAATTATA
**
52655897 TCCTATAGGGGTATTT
66 TCAAATAGGGGTATTT
** * * *
52655913 CAGTAATTCTACCCATACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGATAATT-T
1 TGGTAATTCTACCC-CACAAGGGTATCTCAGTAATTCTACCCTACAGGGGTATTTCGATAATTAT
52655977 CA-CAAATTAGGGGTATTT
65 -ATCAAA-TAGGGGTATTT
52655995 TGGTAATT
1 TGGTAATT
52656003 TATTAATCGA
Statistics
Matches: 76, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
81 14 0.18
82 62 0.82
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.36
Consensus pattern (81 bp):
TGGTAATTCTACCCCACAAGGGTATCTCAGTAATTCTACCCTACAGGGGTATTTCGATAATTATA
TCAAATAGGGGTATTT
Found at i:52656057 original size:27 final size:27
Alignment explanation
Indices: 52655987--52656264 Score: 144
Period size: 27 Copynumber: 10.6 Consensus size: 27
52655977 CACAAATTAG
52655987 GGGTATTTTGGTAA-TTTATTAATCGA
1 GGGTATTTTGGTAATTTTATTAATCGA
*
52656013 GGGTATTTTGGTAATTTTATTGATCGA
1 GGGTATTTTGGTAATTTTATTAATCGA
*** * *
52656040 GGGTATTTTGGTAATTTTGCAAACCAA
1 GGGTATTTTGGTAATTTTATTAATCGA
** *
52656067 GGGTATTTCAGTAATTTTATAAATCGA
1 GGGTATTTTGGTAATTTTATTAATCGA
* *** * * * *
52656094 GAGTAAAATGGTAATTCTGTAAATTGA
1 GGGTATTTTGGTAATTTTATTAATCGA
*** * *
52656121 GGGTAAAATGGTAATTCTATAAATCGA
1 GGGTATTTTGGTAATTTTATTAATCGA
*** *
52656148 GGGTAAAATGGTAA--TT-CT-ATC--
1 GGGTATTTTGGTAATTTTATTAATCGA
* * **
52656169 --TTATTTCGGTAATTTTACAAATCGA
1 GGGTATTTTGGTAATTTTATTAATCGA
* * * *
52656194 GGATATTTGGGTAATTTTATAAATCGG
1 GGGTATTTTGGTAATTTTATTAATCGA
* *
52656221 GGGTACTTTGGTAATTTTA-CAAGTCGA
1 GGGTATTTTGGTAATTTTATTAA-TCGA
*
52656248 GGGTATTTTAGTAATTT
1 GGGTATTTTGGTAATTT
52656265 GATAAACTAA
Statistics
Matches: 197, Mismatches: 45, Indels: 19
0.75 0.17 0.07
Matches are distributed among these distances:
19 7 0.04
21 2 0.01
22 1 0.01
23 6 0.03
25 1 0.01
26 16 0.08
27 164 0.83
ACGTcount: A:0.31, C:0.07, G:0.22, T:0.40
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTATTAATCGA
Found at i:52667008 original size:46 final size:45
Alignment explanation
Indices: 52666958--52667133 Score: 194
Period size: 46 Copynumber: 3.8 Consensus size: 45
52666948 TGGTTGAGCA
52666958 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
52667004 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
* *
52667051 TCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * *
52667097 CCCGAGCTCGTTGAGTTGGGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
52667134 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 67 0.62
47 31 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:52667114 original size:93 final size:93
Alignment explanation
Indices: 52666955--52667125 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
52666945 GGATGGTTGA
* *
52666955 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
52667020 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
* * *
52667048 GCATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
*
52667113 TGGGTCCGAGTTC
66 TGAGTCCGAGTTC
52667126 ACTTATGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:52673224 original size:20 final size:20
Alignment explanation
Indices: 52673199--52673237 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
52673189 CAAATTTCAA
52673199 TTATTTCACACA-TTTACAAC
1 TTATTTCACA-ATTTTACAAC
*
52673219 TTATTTTACAATTTTACAA
1 TTATTTCACAATTTTACAA
52673238 AATAGCCTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 1 0.06
20 16 0.94
ACGTcount: A:0.36, C:0.18, G:0.00, T:0.46
Consensus pattern (20 bp):
TTATTTCACAATTTTACAAC
Found at i:52680302 original size:43 final size:43
Alignment explanation
Indices: 52680236--52680317 Score: 110
Period size: 43 Copynumber: 1.9 Consensus size: 43
52680226 CATGAATTGC
* * *
52680236 ATCCATTATGAACCCGGACCTCTCAACAAGCTTGGATGCTCGT
1 ATCCATAATGAACCCGAACCTCTCAACAAGCTCGGATGCTCGT
* * *
52680279 ATCCATAATGAACTCGAAGCTCTCAACGAGCTCGGATGC
1 ATCCATAATGAACCCGAACCTCTCAACAAGCTCGGATGC
52680318 CACATATATC
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 33 1.00
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.23
Consensus pattern (43 bp):
ATCCATAATGAACCCGAACCTCTCAACAAGCTCGGATGCTCGT
Found at i:52682590 original size:72 final size:72
Alignment explanation
Indices: 52682441--52682617 Score: 198
Period size: 72 Copynumber: 2.5 Consensus size: 72
52682431 CGCATTTGAA
* * * *
52682441 CTACTCACGGGTCTATACACAAAGTTAGCACCCGGACCCCAAAACATTATCATGTAATGGCCGTT
1 CTACTCACGGGTCTATACACAAAGTCAGCACCCGGAACCCAAAACATTAACATGTAATGGCCGCT
*
52682506 CATTGAG
66 CAGTGAG
* * *
52682513 CTACTCACGGGTTTATACACAAAGTCAGTACCCGGAACCCAAAGCATTAACATG-ATAT-GCTCG
1 CTACTCACGGGTCTATACACAAAGTCAGCACCCGGAACCCAAAACATTAACATGTA-ATGGC-CG
52682576 CTCAGTGAG
64 CTCAGTGAG
* * * *
52682585 TTACTCACGGGCCTGAT-CACATAGTCAACACCC
1 CTACTCACGGGTCT-ATACACAAAGTCAGCACCC
52682618 AGACCCACAT
Statistics
Matches: 88, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
71 3 0.03
72 83 0.94
73 2 0.02
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.23
Consensus pattern (72 bp):
CTACTCACGGGTCTATACACAAAGTCAGCACCCGGAACCCAAAACATTAACATGTAATGGCCGCT
CAGTGAG
Found at i:52692855 original size:27 final size:27
Alignment explanation
Indices: 52692825--52692886 Score: 83
Period size: 26 Copynumber: 2.3 Consensus size: 27
52692815 ATTTACTAAA
52692825 ATACCCCTAAGTATG-AAAATTACCATT
1 ATACCCCTAAG-ATGCAAAATTACCATT
*
52692852 ATACCCCT-AGGTGCAAAATTACCATT
1 ATACCCCTAAGATGCAAAATTACCATT
*
52692878 TTACCCCTA
1 ATACCCCTA
52692887 GGGTAAATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
25 2 0.06
26 21 0.68
27 8 0.26
ACGTcount: A:0.35, C:0.27, G:0.08, T:0.29
Consensus pattern (27 bp):
ATACCCCTAAGATGCAAAATTACCATT
Found at i:52693030 original size:27 final size:27
Alignment explanation
Indices: 52692992--52693104 Score: 158
Period size: 27 Copynumber: 4.2 Consensus size: 27
52692982 GAGGAAGCAT
*
52692992 TCTGATGGCTCTGCCACAAATATCTG-A
1 TCTGGTGGCTCTGCCAC-AATATCTGTA
*
52693019 TCTGGTGGCTCTGCCACAAATATCTGTT
1 TCTGGTGGCTCTGCCAC-AATATCTGTA
*
52693047 TCTAGTGGCTCTGCCACAATATCTGTA
1 TCTGGTGGCTCTGCCACAATATCTGTA
*
52693074 TCTGGTGGCTCTGTCACAATATCTGT-
1 TCTGGTGGCTCTGCCACAATATCTGTA
52693100 TCTGG
1 TCTGG
52693105 AAGCCATGCT
Statistics
Matches: 79, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
26 5 0.06
27 58 0.73
28 16 0.20
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.35
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAATATCTGTA
Found at i:52693098 original size:54 final size:55
Alignment explanation
Indices: 52692997--52693100 Score: 176
Period size: 55 Copynumber: 1.9 Consensus size: 55
52692987 AGCATTCTGA
52692997 TGGCTCTGCCACAAATATCTGATCTGGTGGCTCTGCCACAAATATCTGTTTCTAG
1 TGGCTCTGCCACAAATATCTGATCTGGTGGCTCTGCCACAAATATCTGTTTCTAG
*
52693052 TGGCTCTGCCAC-AATATCTGTATCTGGTGGCTCTGTCAC-AATATCTGTT
1 TGGCTCTGCCACAAATATCTG-ATCTGGTGGCTCTGCCACAAATATCTGTT
52693101 CTGGAAGCCA
Statistics
Matches: 47, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
54 18 0.38
55 29 0.62
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.35
Consensus pattern (55 bp):
TGGCTCTGCCACAAATATCTGATCTGGTGGCTCTGCCACAAATATCTGTTTCTAG
Found at i:52699683 original size:40 final size:40
Alignment explanation
Indices: 52699613--52699869 Score: 358
Period size: 40 Copynumber: 6.5 Consensus size: 40
52699603 AAACCAAGTA
* * * *
52699613 CCTTCGGAATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGAAATAG-TAACTCGCACAAATG
* **
52699652 CCTTCGGGACTTGGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGAAATAGTAACTCGCACAAATG
*
52699692 CCTTCGGGACTTAGCCCGGACATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGAAATAGTAACTCGCACAAATG
* *
52699732 CCTTCGGG-CTTAGCCTGGAAATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGAAATAGTAACTCGCACAAATG
* *
52699771 CCTTCGGGACTTAGCCCGAAAATAGTAACTCGCACAAATA
1 CCTTCGGGACTTAGCCCGGAAATAGTAACTCGCACAAATG
* *
52699811 CCTTCAGGACTTAGCCCGGAAATAGTAATTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGAAATAGTAACTCGCACAAATG
52699851 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
52699870 TTATCATCCG
Statistics
Matches: 195, Mismatches: 20, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
39 48 0.25
40 147 0.75
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGAAATAGTAACTCGCACAAATG
Found at i:52699767 original size:79 final size:79
Alignment explanation
Indices: 52699613--52699869 Score: 347
Period size: 79 Copynumber: 3.2 Consensus size: 79
52699603 AAACCAAGTA
* * * * * **
52699613 CCTTCGGAATTTAG-CCGGATATAGCT-ACTCGCTCAAATGCCTTCGGGACTTGGCCCGGTTATA
1 CCTTCGGGACTTAGCCCGGAAATAG-TAACTCGCACAAATGCCTTCGGG-CTTAGCCCGGAAATA
52699676 GTAACTCGCACAAATG
64 GTAACTCGCACAAATG
* *
52699692 CCTTCGGGACTTAGCCCGGACATAGTAACTCGCACAAATGCCTTCGGGCTTAGCCTGGAAATAGT
1 CCTTCGGGACTTAGCCCGGAAATAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGAAATAGT
*
52699757 AACTCACACAAATG
66 AACTCGCACAAATG
* * *
52699771 CCTTCGGGACTTAGCCCGAAAATAGTAACTCGCACAAATACCTTCAGGACTTAGCCCGGAAATAG
1 CCTTCGGGACTTAGCCCGGAAATAGTAACTCGCACAAATGCCTTC-GGGCTTAGCCCGGAAATAG
*
52699836 TAATTCGCACAAATG
65 TAACTCGCACAAATG
52699851 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
52699870 TTATCATCCG
Statistics
Matches: 158, Mismatches: 17, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
79 81 0.51
80 77 0.49
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.23
Consensus pattern (79 bp):
CCTTCGGGACTTAGCCCGGAAATAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGAAATAGT
AACTCGCACAAATG
Found at i:52699824 original size:119 final size:120
Alignment explanation
Indices: 52699646--52699866 Score: 363
Period size: 119 Copynumber: 1.9 Consensus size: 120
52699636 GCTACTCGCT
* *** * *
52699646 CAAATGCCTTCGGGACTTGGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGAAAATAGTAACTCGCACAAATACCTTCAGGACTTAGCCCGG
*
52699711 ACATAGTAACTCGCACAAATGCCTTCGGG-CTTAGCCTGGAAATAGTAACTCACA
66 AAATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCTGGAAATAGTAACTCACA
52699765 CAAATGCCTTCGGGACTTAGCCCGAAAATAGTAACTCGCACAAATACCTTCAGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGAAAATAGTAACTCGCACAAATACCTTCAGGACTTAGCCCGG
*
52699830 AAATAGTAATTCGCACAAATGCCTTCGGGACTTAGCC
66 AAATAGTAACTCGCACAAATGCCTTCGGGACTTAGCC
52699867 CGGTTATCAT
Statistics
Matches: 93, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
119 86 0.92
120 7 0.08
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (120 bp):
CAAATGCCTTCGGGACTTAGCCCGAAAATAGTAACTCGCACAAATACCTTCAGGACTTAGCCCGG
AAATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCTGGAAATAGTAACTCACA
Found at i:52707278 original size:40 final size:40
Alignment explanation
Indices: 52707185--52707430 Score: 374
Period size: 40 Copynumber: 6.2 Consensus size: 40
52707175 CCTTCAGAAT
* *
52707185 TTAG-CCGGATATAGCT-ACTCGCTCAAATGCCTTC-GGAC
1 TTAGCCCGGAAATAG-TAACTCGCACAAATGCCTTCGGGAC
**
52707223 TTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAC
1 TTAGCCCGGAAATAGTAACTCGCACAAATGCCTTCGGGAC
* *
52707263 TTAGCCCGGACATAGTAACTAGCACAAATGCCTTCGGG-C
1 TTAGCCCGGAAATAGTAACTCGCACAAATGCCTTCGGGAC
52707302 TTAGCCCGGAAATAGTAACTCGCACAAATGCCTTCGGGAC
1 TTAGCCCGGAAATAGTAACTCGCACAAATGCCTTCGGGAC
*
52707342 TTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGAC
1 TTAGCCCGGAAATAGTAACTCGCACAAATGCCTTCGGGAC
* *
52707382 TTAGCCCGAAAATAGTAACTCGCACAAATGCCTTCGAGAC
1 TTAGCCCGGAAATAGTAACTCGCACAAATGCCTTCGGGAC
52707422 TTAGCCCGG
1 TTAGCCCGG
52707431 TTATCATCCG
Statistics
Matches: 192, Mismatches: 12, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
38 5 0.03
39 63 0.33
40 124 0.65
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (40 bp):
TTAGCCCGGAAATAGTAACTCGCACAAATGCCTTCGGGAC
Found at i:52707305 original size:79 final size:79
Alignment explanation
Indices: 52707208--52707430 Score: 367
Period size: 79 Copynumber: 2.8 Consensus size: 79
52707198 GCTACTCGCT
* **
52707208 CAAATGCCTTCGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGCTTAGCCCGGAAATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA
52707273 CA-TAGTAACTAGCA
66 -ATTAGTAACTAGCA
52707287 CAAATGCCTTCGGGCTTAGCCCGGAAATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGCTTAGCCCGGAAATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA
*
52707352 ATTAGTAACTCGCA
66 ATTAGTAACTAGCA
* *
52707366 CAAATGCCTTCGGGACTTAGCCCGAAAATAGTAACTCGCACAAATGCCTTCGAGACTTAGCCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGGAAATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
52707431 TTATCATCCG
Statistics
Matches: 136, Mismatches: 6, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
78 1 0.01
79 87 0.64
80 48 0.35
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (79 bp):
CAAATGCCTTCGGGCTTAGCCCGGAAATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA
ATTAGTAACTAGCA
Found at i:52707385 original size:119 final size:119
Alignment explanation
Indices: 52707185--52707430 Score: 374
Period size: 119 Copynumber: 2.1 Consensus size: 119
52707175 CCTTCAGAAT
* * *
52707185 TTAG-CCGGATATAGCTACTCGCTCAAATGCCTTCGGACTTAGCCCGGTTATAGTAACTCGCACA
1 TTAGCCCGGAAATAGCTACTCGCACAAATGCCTTCGGACTTAGCCCGGATATAGTAACTCGCACA
* * *
52707249 AATGCCTTCGGGACTTAGCCCGGACATAGTAACTAGCACAAATGCCTTCG-GGC
66 AATGCCTTCGGGACTTAGCCCGAAAATAGTAACTAGCACAAATGCCTTCGAGAC
52707302 TTAGCCCGGAAATAG-TAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA-ATTAGTAACTCGC
1 TTAGCCCGGAAATAGCT-ACTCGCACAAATGCCTTC-GGACTTAGCCCGGATA-TAGTAACTCGC
*
52707365 ACAAATGCCTTCGGGACTTAGCCCGAAAATAGTAACTCGCACAAATGCCTTCGAGAC
63 ACAAATGCCTTCGGGACTTAGCCCGAAAATAGTAACTAGCACAAATGCCTTCGAGAC
52707422 TTAGCCCGG
1 TTAGCCCGG
52707431 TTATCATCCG
Statistics
Matches: 117, Mismatches: 7, Indels: 7
0.89 0.05 0.05
Matches are distributed among these distances:
117 5 0.04
118 27 0.23
119 74 0.63
120 11 0.09
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (119 bp):
TTAGCCCGGAAATAGCTACTCGCACAAATGCCTTCGGACTTAGCCCGGATATAGTAACTCGCACA
AATGCCTTCGGGACTTAGCCCGAAAATAGTAACTAGCACAAATGCCTTCGAGAC
Found at i:52712214 original size:79 final size:81
Alignment explanation
Indices: 52712078--52712260 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 81
52712068 TCGAATGATG
* *
52712078 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
52712142 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
52712157 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
52712219 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
52712237 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
52712261 TGAACGAGTA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.65
80 30 0.34
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:52712276 original size:40 final size:40
Alignment explanation
Indices: 52712079--52712262 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
52712069 CGAATGATGT
* * * *
52712079 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
52712119 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
52712159 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
52712197 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
52712238 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
52712263 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 34 0.27
40 80 0.65
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:52712284 original size:79 final size:79
Alignment explanation
Indices: 52712131--52712295 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
52712121 GGACTAAGAT
* **
52712131 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
52712196 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
52712210 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
52712273 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
52712289 CCGAAGG
1 CCGAAGG
52712296 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.65
80 24 0.32
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:52719025 original size:40 final size:40
Alignment explanation
Indices: 52718981--52719111 Score: 192
Period size: 40 Copynumber: 3.3 Consensus size: 40
52718971 GGACTAAGAT
*
52718981 CCGAAGGTATTTGTGCGAGTTATTAATTCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTATTAATTCCGGGTTAAGTC
* * *
52719021 CCGAAGGCCTTTGTGCGAGATACTAATTCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTATTAATTCCGGGTTAAGTC
* *
52719061 CCGAAGGCATTCGTGCGAGTT-TTAAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTATT-AATTCCGGGTTAAGTC
52719101 CCGAAGGCATT
1 CCGAAGGCATT
52719112 GAATGAGTTA
Statistics
Matches: 81, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
39 1 0.01
40 80 0.99
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTATTAATTCCGGGTTAAGTC
Found at i:52719132 original size:39 final size:38
Alignment explanation
Indices: 52719009--52719158 Score: 131
Period size: 40 Copynumber: 3.8 Consensus size: 38
52718999 GTTATTAATT
* ** * *
52719009 CCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAATT
1 CCGGGTTAAGTCCCGAAGG-CATTGAACGAGTTACTAA-A
** *
52719049 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 CCGGGTTAAGTCCCGAAGGCATT-GAACGAGTTACT-AAA
*
52719088 TCCGGGTTAAGTCCCGAAGGCATTGAATGAGTTACTATAA
1 -CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTA-AA
* *
52719128 CCGGGCTATGTCCCGAAGGCACTTGAACGAG
1 CCGGGTTAAGTCCCGAAGGCA-TTGAACGAG
52719159 GAGCTATATC
Statistics
Matches: 93, Mismatches: 11, Indels: 12
0.80 0.09 0.10
Matches are distributed among these distances:
39 30 0.32
40 63 0.68
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (38 bp):
CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTAAA
Found at i:52719166 original size:40 final size:39
Alignment explanation
Indices: 52719049--52719171 Score: 97
Period size: 40 Copynumber: 3.1 Consensus size: 39
52719039 GATACTAATT
* ** ** *
52719049 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGT-TTTAAAA
1 CCGGGCTAAGTCCCGAAGGCATT-GAACGAGTGACTATAA
* * *
52719088 TCCGGGTTAAGTCCCGAAGGCATTGAATGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTGAACGAGTGACTATAA
* *
52719128 CCGGGCTATGTCCCGAAGGCACTTGAACGAG-GAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCA-TTGAACGAGTGA-CTATAA
52719168 CCGG
1 CCGG
52719172 TTAAATTCCG
Statistics
Matches: 69, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
39 25 0.36
40 44 0.64
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTGAACGAGTGACTATAA
Found at i:52726615 original size:40 final size:40
Alignment explanation
Indices: 52726531--52726714 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
52726521 TTGAATGCTG
* * * *
52726531 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
** *
52726570 ATCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
52726611 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
52726651 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
52726691 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
52726715 GAATGAGTTA
Statistics
Matches: 123, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
39 2 0.02
40 111 0.90
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:52726668 original size:80 final size:81
Alignment explanation
Indices: 52726531--52726711 Score: 221
Period size: 80 Copynumber: 2.3 Consensus size: 81
52726521 TTGAATGCTG
* * *
52726531 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGTATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
* *
52726595 TGTGCGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
**
52726611 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
52726672 ATTCGTGCGAGTTTTAAAA
63 ATTCGTGCGAGTTTTAAAA
52726691 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
52726712 ATTGAATGAG
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 4 0.04
80 76 0.85
81 9 0.10
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:52726735 original size:39 final size:38
Alignment explanation
Indices: 52726612--52726761 Score: 131
Period size: 40 Copynumber: 3.8 Consensus size: 38
52726602 GTTATTAATT
* ** * *
52726612 CCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAATT
1 CCGGGTTAAGTCCCGAAGG-CATTGAACGAGTTACTAA-A
** *
52726652 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 CCGGGTTAAGTCCCGAAGGCATT-GAACGAGTTACT-AAA
*
52726691 TCCGGGTTAAGTCCCGAAGGCATTGAATGAGTTACTATAA
1 -CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTA-AA
* *
52726731 CCGGGCTATGTCCCGAAGGCACTTGAACGAG
1 CCGGGTTAAGTCCCGAAGGCA-TTGAACGAG
52726762 GAGCTAAATC
Statistics
Matches: 93, Mismatches: 11, Indels: 12
0.80 0.09 0.10
Matches are distributed among these distances:
39 30 0.32
40 63 0.68
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (38 bp):
CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTAAA
Found at i:52730242 original size:22 final size:22
Alignment explanation
Indices: 52730207--52730258 Score: 72
Period size: 22 Copynumber: 2.4 Consensus size: 22
52730197 ATGCGTATTG
*
52730207 AGTTA-TAATATGTAATG-CATT
1 AGTTAGTAAAATGT-ATGCCATT
52730228 AGTTAGTAAAATGTATGCCATT
1 AGTTAGTAAAATGTATGCCATT
52730250 AGTTAGTAA
1 AGTTAGTAA
52730259 TATATTATCT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
21 8 0.29
22 20 0.71
ACGTcount: A:0.38, C:0.06, G:0.17, T:0.38
Consensus pattern (22 bp):
AGTTAGTAAAATGTATGCCATT
Found at i:52730509 original size:79 final size:81
Alignment explanation
Indices: 52730368--52730550 Score: 205
Period size: 79 Copynumber: 2.3 Consensus size: 81
52730358 TCGAATGATG
* *
52730368 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
52730432 TGTGCAAGATACTA-A
66 TGTGCAAGATACTATA
* * * ** *
52730447 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGACGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
* *
52730509 TTTGTGCGAGTTACTATA
64 TTTGTGCAAGATACTATA
* *
52730527 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
52730551 TGAACGAGTA
Statistics
Matches: 87, Mismatches: 12, Indels: 8
0.81 0.11 0.07
Matches are distributed among these distances:
78 1 0.01
79 56 0.64
80 30 0.34
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCAAGATACTATA
Found at i:52730559 original size:40 final size:40
Alignment explanation
Indices: 52730368--52730552 Score: 207
Period size: 40 Copynumber: 4.7 Consensus size: 40
52730358 TCGAATGATG
* * * *
52730368 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
52730408 TCCGGACTAAGAT-CCGAAGGCATTTGTGCAAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
52730448 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
52730487 TCCGGGTTAAGTCCCGACGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
52730528 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
52730553 AACGAGTAGC
Statistics
Matches: 123, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
39 33 0.27
40 80 0.65
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Done.