Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1
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: 8764944
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.31
Warning! 632878 characters in sequence are not A, C, G, or T
File 3 of 52
Found at i:308796 original size:165 final size:165
Alignment explanation
Indices: 308381--308816 Score: 581
Period size: 165 Copynumber: 2.6 Consensus size: 165
308371 AAATTCGATT
* * ** * *
308381 TTTTAGAAATAGAAATATTTCAAGGAAAAATTCAAAACTCATGAAAATAAATTAATTTTTCAAAA
1 TTTTAGAAATAAAAAAATTTCAAGGAAAAATGAAAAACTCATGAAAATGAATTAATTTTTAAAAA
* * * * *
308446 CCGATTTAGTATGAAATAAATAATAATAGTTGATGAATTTAAAAAAATAAAAACCAAGAAAAATC
66 CTGATTTAATATGAATTAAATAATAATATTTGATGAATTTTAAAAAATAAAAACCAAGAAAAATC
* *
308511 CCTTTGAAAATATTTATGGAGTAGAAAACTTAGTA
131 CCTTTGAAAATATTTATAGAGTAGAAAACTCAGTA
* ** * *
308546 TTTTAGAAACAAGGAAATTTCAAGGAAAAATGAAAAACTAATGAAAATGAATGAATTTTTAAAAA
1 TTTTAGAAATAAAAAAATTTCAAGGAAAAATGAAAAACTCATGAAAATGAATTAATTTTTAAAAA
* *
308611 CTGATTTACTATGAATTAAATAATAATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATC
66 CTGATTTAATATGAATTAAATAATAATATTTGATGAATTTTAAAAAATAAAAACCAAGAAAAATC
* *
308676 TCTTTGAAAATATTTATAGAGTAGAAAACTCCGTA
131 CCTTTGAAAATATTTATAGAGTAGAAAACTCAGTA
* * * *
308711 TTTT-GAAAATAAAAAAATTTTAAGAAAAAATGAAAAACTCATTAAAATGAATTAATTTTTGAAA
1 TTTTAG-AAATAAAAAAATTTCAAGGAAAAATGAAAAACTCATGAAAATGAATTAATTTTTAAAA
*
308775 ACTGATTTAATGATG-ATTAAATGATAATATTTAGA-GAATTTT
65 ACTGATTTAAT-ATGAATTAAATAATAATATTT-GATGAATTTT
308817 GATGTTCAAA
Statistics
Matches: 236, Mismatches: 32, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
164 1 0.00
165 230 0.97
166 5 0.02
ACGTcount: A:0.50, C:0.06, G:0.11, T:0.32
Consensus pattern (165 bp):
TTTTAGAAATAAAAAAATTTCAAGGAAAAATGAAAAACTCATGAAAATGAATTAATTTTTAAAAA
CTGATTTAATATGAATTAAATAATAATATTTGATGAATTTTAAAAAATAAAAACCAAGAAAAATC
CCTTTGAAAATATTTATAGAGTAGAAAACTCAGTA
Found at i:309790 original size:16 final size:16
Alignment explanation
Indices: 309769--309802 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
309759 TCTTTTTTAC
309769 TTTTAAGATTTAATTT
1 TTTTAAGATTTAATTT
**
309785 TTTTAATTTTTAATTT
1 TTTTAAGATTTAATTT
309801 TT
1 TT
309803 ACTAATTATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (16 bp):
TTTTAAGATTTAATTT
Found at i:309834 original size:41 final size:42
Alignment explanation
Indices: 309780--309861 Score: 107
Period size: 43 Copynumber: 2.0 Consensus size: 42
309770 TTTAAGATTT
*
309780 AATTTTTTTAA-TTTTTA-A-TTTTTACTAATTATATATTTTC
1 AATTTTTTCAATTTTTTATATTTTTTACTAA-TATATATTTTC
*
309820 AATTATTTTCAATTTTTTATATTTTTTACTCATATATATTTT
1 AATT-TTTTCAATTTTTTATATTTTTTACTAATATATATTTT
309862 TAAAATTCAA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
40 4 0.11
41 6 0.17
42 6 0.17
43 11 0.31
44 9 0.25
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (42 bp):
AATTTTTTCAATTTTTTATATTTTTTACTAATATATATTTTC
Found at i:310724 original size:31 final size:31
Alignment explanation
Indices: 310689--310804 Score: 112
Period size: 31 Copynumber: 3.8 Consensus size: 31
310679 AAAAGTCACA
* * *
310689 TTTTTACCTAGATGTATCTATGCATTCTATC
1 TTTTTACCCAGATGTATCGATACATTCTATC
310720 TTTTTACCCAGATGTATCGATACATTCT-TC
1 TTTTTACCCAGATGTATCGATACATTCTATC
** * * ** *
310750 AATGTA-TC-GATACATCGATACATTCTGTC
1 TTTTTACCCAGATGTATCGATACATTCTATC
*
310779 TTTTTTCCCAGATGTATCGATACATT
1 TTTTTACCCAGATGTATCGATACATT
310805 TTTCAATGTA
Statistics
Matches: 66, Mismatches: 16, Indels: 6
0.75 0.18 0.07
Matches are distributed among these distances:
28 16 0.24
29 5 0.08
30 6 0.09
31 39 0.59
ACGTcount: A:0.25, C:0.21, G:0.11, T:0.43
Consensus pattern (31 bp):
TTTTTACCCAGATGTATCGATACATTCTATC
Found at i:310803 original size:59 final size:59
Alignment explanation
Indices: 310711--310823 Score: 199
Period size: 59 Copynumber: 1.9 Consensus size: 59
310701 TGTATCTATG
310711 CATTCTATCTTTTTACCCAGATGTATCGATACATTCTTCAATGTATCGATACATCGATA
1 CATTCTATCTTTTTACCCAGATGTATCGATACATTCTTCAATGTATCGATACATCGATA
* * *
310770 CATTCTGTCTTTTTTCCCAGATGTATCGATACATTTTTCAATGTATCGATACAT
1 CATTCTATCTTTTTACCCAGATGTATCGATACATTCTTCAATGTATCGATACAT
310824 TCTTTAATGT
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
59 51 1.00
ACGTcount: A:0.27, C:0.21, G:0.11, T:0.42
Consensus pattern (59 bp):
CATTCTATCTTTTTACCCAGATGTATCGATACATTCTTCAATGTATCGATACATCGATA
Found at i:310815 original size:20 final size:20
Alignment explanation
Indices: 310790--310843 Score: 92
Period size: 20 Copynumber: 2.7 Consensus size: 20
310780 TTTTTCCCAG
310790 ATGTATCGATACATT-TTTCA
1 ATGTATCGATACATTCTTT-A
310810 ATGTATCGATACATTCTTTA
1 ATGTATCGATACATTCTTTA
310830 ATGTATCGATACAT
1 ATGTATCGATACAT
310844 CTAGTTAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 30 0.91
21 3 0.09
ACGTcount: A:0.31, C:0.15, G:0.11, T:0.43
Consensus pattern (20 bp):
ATGTATCGATACATTCTTTA
Found at i:324636 original size:1 final size:1
Alignment explanation
Indices: 324630--324709 Score: 52
Period size: 1 Copynumber: 80.0 Consensus size: 1
324620 TCTTTCGTAC
* ** * * ** * * *
324630 AAAAAAAAAACAAAAAAAAACCAAGAAAAAAACAAAAAACCAAAAACAAAAAAAAAACAAAAAAC
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* *
324695 AAACAAACAAAAAAA
1 AAAAAAAAAAAAAAA
324710 GGGTCCAGAT
Statistics
Matches: 59, Mismatches: 20, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 59 1.00
ACGTcount: A:0.85, C:0.14, G:0.01, T:0.00
Consensus pattern (1 bp):
A
Found at i:324644 original size:11 final size:11
Alignment explanation
Indices: 324628--324709 Score: 101
Period size: 11 Copynumber: 7.1 Consensus size: 11
324618 CGTCTTTCGT
324628 ACAAAAAAAAA
1 ACAAAAAAAAA
324639 ACAAAAAAAAA
1 ACAAAAAAAAA
* *
324650 CCAAGAAAAAA
1 ACAAAAAAAAA
324661 ACAAAAAACCAAAA
1 AC-AAAAA--AAAA
324675 ACAAAAAAAAA
1 ACAAAAAAAAA
*
324686 ACAAAAAACAA
1 ACAAAAAAAAA
324697 ACAAACAAAAAA
1 ACAAA-AAAAAA
324709 A
1 A
324710 GGGTCCAGAT
Statistics
Matches: 61, Mismatches: 6, Indels: 7
0.82 0.08 0.09
Matches are distributed among these distances:
11 40 0.66
12 10 0.16
13 5 0.08
14 6 0.10
ACGTcount: A:0.84, C:0.15, G:0.01, T:0.00
Consensus pattern (11 bp):
ACAAAAAAAAA
Found at i:325989 original size:28 final size:28
Alignment explanation
Indices: 325958--326295 Score: 432
Period size: 28 Copynumber: 12.0 Consensus size: 28
325948 CGTTCATCTC
325958 TTCAAAGCCCACATA-TCAGTGGCATCCT
1 TTCAAAGCCCACA-AGTCAGTGGCATCCT
*
325986 TTCAAAGCCCATAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
*
326014 TTCAAAGCCCACAAGTCAGTGACATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* *
326042 TTCAAAGCCCATAAGTGAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* * *
326070 TTTAAAGCCCACAAGTTAGTGCCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* * *
326098 TTGAAAGCCCACATGTTAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
*
326126 TTCAAAGCCCACATGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
326154 TTCAAAGCCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* * * * *
326182 TTCACAGCTCACAAGTCAGTGGTACCCC
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
*
326210 TTCAAAGCCCACAAGTCAGTGG-AACTCT
1 TTCAAAGCCCACAAGTCAGTGGCATC-CT
*
326238 TTCAAAGCCCACAAGTCGGTGGCATCTCT
1 TTCAAAGCCCACAAGTCAGTGGCATC-CT
*
326267 TT-AAAGCCCACATAAGTTAGTGGCA-CCT
1 TTCAAAGCCCAC--AAGTCAGTGGCATCCT
326295 T
1 T
326296 CTTTTTAAAA
Statistics
Matches: 276, Mismatches: 29, Indels: 10
0.88 0.09 0.03
Matches are distributed among these distances:
27 3 0.01
28 255 0.92
29 8 0.03
30 10 0.04
ACGTcount: A:0.28, C:0.30, G:0.18, T:0.25
Consensus pattern (28 bp):
TTCAAAGCCCACAAGTCAGTGGCATCCT
Found at i:326325 original size:34 final size:33
Alignment explanation
Indices: 326273--326337 Score: 80
Period size: 34 Copynumber: 1.9 Consensus size: 33
326263 CTCTTTAAAG
*
326273 CCCACATAAGTTAGTGGC-ACCTTCTTTTTAAAAT
1 CCCACATAAGTGAGTGGCAACC--CTTTTTAAAAT
326307 CCCACATAAGTCGA-TGGCAACCCTTTTTAAA
1 CCCACATAAGT-GAGTGGCAACCCTTTTTAAA
326338 TCACCACTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
33 9 0.32
34 15 0.54
35 4 0.14
ACGTcount: A:0.31, C:0.26, G:0.12, T:0.31
Consensus pattern (33 bp):
CCCACATAAGTGAGTGGCAACCCTTTTTAAAAT
Found at i:326518 original size:48 final size:48
Alignment explanation
Indices: 326402--326652 Score: 373
Period size: 48 Copynumber: 5.3 Consensus size: 48
326392 AGCACCTTTA
* * *
326402 TTAGCTCAATGTCACT-GCCTTGAATCAACACATTGTCCACTTTT--A
1 TTAGCTCAATGTCGCTGGCCTTGAATCAGCACATTGTCCACTTTTCCC
* * * *
326447 TTAGCTCAATGTTGTTGGCCTTGAATCAGCACGTTGTCCACTTTTCCT
1 TTAGCTCAATGTCGCTGGCCTTGAATCAGCACATTGTCCACTTTTCCC
326495 TTAGCTCAATGTCGCTGGCCTTGAATCAGCACATTGTCCACTTTTCCC
1 TTAGCTCAATGTCGCTGGCCTTGAATCAGCACATTGTCCACTTTTCCC
* * *
326543 TTAGCTCAATGTCGTTTGCCTTGAATCAGCACATTGTCCACTTTTCAC
1 TTAGCTCAATGTCGCTGGCCTTGAATCAGCACATTGTCCACTTTTCCC
*
326591 TTAGCTCAATGTCGCTAGCCTTGAATCAGCACATTGTCCACTTTTCCC
1 TTAGCTCAATGTCGCTGGCCTTGAATCAGCACATTGTCCACTTTTCCC
*
326639 TTAGCTCGATGTCG
1 TTAGCTCAATGTCG
326653 TTCGCTTTGA
Statistics
Matches: 186, Mismatches: 17, Indels: 3
0.90 0.08 0.01
Matches are distributed among these distances:
45 13 0.07
46 26 0.14
48 147 0.79
ACGTcount: A:0.20, C:0.28, G:0.16, T:0.36
Consensus pattern (48 bp):
TTAGCTCAATGTCGCTGGCCTTGAATCAGCACATTGTCCACTTTTCCC
Found at i:327469 original size:20 final size:20
Alignment explanation
Indices: 327444--327520 Score: 84
Period size: 20 Copynumber: 3.8 Consensus size: 20
327434 TTTTACTGAG
327444 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * *
327464 ATGTATTGATACAATGTATATGA
1 ATGTATCGATAC-AT-T-TTTCA
*
327487 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTTTTCA
327507 ATGTATC-ATACATT
1 ATGTATCGATACATT
327521 CTGTCTTTTT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
19 7 0.15
20 20 0.43
21 3 0.06
22 3 0.06
23 14 0.30
ACGTcount: A:0.34, C:0.13, G:0.12, T:0.42
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:331425 original size:20 final size:20
Alignment explanation
Indices: 331400--331472 Score: 137
Period size: 20 Copynumber: 3.6 Consensus size: 20
331390 GTTGGGCATG
*
331400 ATGTATCGATATAATTCTTC
1 ATGTATCGATACAATTCTTC
331420 ATGTATCGATACAATTCTTC
1 ATGTATCGATACAATTCTTC
331440 ATGTATCGATACAATTCTTC
1 ATGTATCGATACAATTCTTC
331460 ATGTATCGATACA
1 ATGTATCGATACA
331473 TTTCACTTAG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
20 52 1.00
ACGTcount: A:0.32, C:0.18, G:0.11, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACAATTCTTC
Found at i:336061 original size:27 final size:27
Alignment explanation
Indices: 336031--336086 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
336021 GTTTAATTCC
336031 TCTTGCATGGCCATAATCCAATTTTCA
1 TCTTGCATGGCCATAATCCAATTTTCA
*
336058 TCTTGTATGGCCATAATCCAATTTTCA
1 TCTTGCATGGCCATAATCCAATTTTCA
336085 TC
1 TC
336087 AAAAACAACA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.25, C:0.25, G:0.11, T:0.39
Consensus pattern (27 bp):
TCTTGCATGGCCATAATCCAATTTTCA
Found at i:339349 original size:20 final size:20
Alignment explanation
Indices: 339296--339352 Score: 80
Period size: 20 Copynumber: 2.9 Consensus size: 20
339286 GTTGGGCATG
* *
339296 ATGTATCGATACAATTCTTC
1 ATGTATCGATACATTTCTCC
339316 ATGTATCGATACATTATC-CC
1 ATGTATCGATACATT-TCTCC
339336 ATGTATCGATACATTTC
1 ATGTATCGATACATTTC
339353 ACTTAGGGTA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
19 2 0.06
20 30 0.88
21 2 0.06
ACGTcount: A:0.30, C:0.21, G:0.11, T:0.39
Consensus pattern (20 bp):
ATGTATCGATACATTTCTCC
Found at i:342057 original size:29 final size:28
Alignment explanation
Indices: 341996--342085 Score: 83
Period size: 29 Copynumber: 3.0 Consensus size: 28
341986 AAGGGCTTAC
*
341996 TTAGATATAAATTAAATATTAAAGGTTTATT
1 TTAG-TATAAATTAAA-ATTAAAAG-TTATT
*
342027 TTAGTATAAATTAAAAGTAAAAAGTTATT
1 TTAGTATAAATTAAAA-TTAAAAGTTATT
* *
342056 TTATTACT-AATTAAAATTTAAAACTTATT
1 TTAGTA-TAAATTAAAA-TTAAAAGTTATT
342085 T
1 T
342086 GAAGGGAAAA
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
29 30 0.59
30 17 0.33
31 4 0.08
ACGTcount: A:0.47, C:0.02, G:0.07, T:0.44
Consensus pattern (28 bp):
TTAGTATAAATTAAAATTAAAAGTTATT
Found at i:343374 original size:17 final size:16
Alignment explanation
Indices: 343332--343374 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
343322 TCCAGTTGTG
* *
343332 AAAGTCAAAGTACCTA
1 AAAGTCAAAATAACTA
*
343348 AAAGTTAAAATAACTA
1 AAAGTCAAAATAACTA
343364 AGAAGTCAAAA
1 A-AAGTCAAAA
343375 GTTAAACCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 14 0.64
17 8 0.36
ACGTcount: A:0.58, C:0.12, G:0.12, T:0.19
Consensus pattern (16 bp):
AAAGTCAAAATAACTA
Found at i:349049 original size:50 final size:49
Alignment explanation
Indices: 348978--349503 Score: 254
Period size: 50 Copynumber: 10.6 Consensus size: 49
348968 GCATAACTTA
*
348978 CCCACTAGGTGCTAA-TAAATTTGGACTTTAACTCTATAAGGCTT-ACTCTT
1 CCCACTAGGTGCCAACT-AATTTGGACTTTAACTCTATAAGGCTTAAC-C-T
* * *
349028 CCCACTAGGTGCCAACTAATTTGAAC-TTAGACTTTATAGGGCTTAACCTT
1 CCCACTAGGTGCCAACTAATTTGGACTTTA-ACTCTATAAGGCTTAACC-T
** * * ** *
349078 CGTATTAGGTGTCAACTAATTTATACTTTGACTCTAT-AGAGCTTAACCTT
1 CCCACTAGGTGCCAACTAATTTGGACTTTAACTCTATAAG-GCTTAACC-T
** * * * * * * * *
349128 CTTACCAAGTGCTAACTAACTTGGACTTTGACTCTAGAGGGCTTAAGCT
1 CCCACTAGGTGCCAACTAATTTGGACTTTAACTCTATAAGGCTTAACCT
* * * * ** * *
349177 TCCATTTGCTGCCAACTAATAAGGAC-TTAGACTCTATAAAGATTAACCT
1 CCCACTAGGTGCCAACTAATTTGGACTTTA-ACTCTATAAGGCTTAACCT
* * * * * ** *
349226 CCCTACTAGGTGCCAACTATTTTAGATTTTAAGTTTATAAGATTTAACCA
1 CCC-ACTAGGTGCCAACTAATTTGGACTTTAACTCTATAAGGCTTAACCT
* * * * * * * **
349276 CCTATTAAGTGCCAACTAACTTGGAC-TTAGATTTTATATGGCTTAAATT
1 CCCACTAGGTGCCAACTAATTTGGACTTTA-ACTCTATAAGGCTTAACCT
* * * * * * *
349325 CCTTACTAGGTGCTAATTAATTTGGATTTTGACTTTATATGGCTTAACCT
1 CC-CACTAGGTGCCAACTAATTTGGACTTTAACTCTATAAGGCTTAACCT
* *** * * * *
349375 CACTACTTCATGCCAACTAATTTGGACTTTGACTCTGTAGGGCTTAGCCT
1 C-CCACTAGGTGCCAACTAATTTGGACTTTAACTCTATAAGGCTTAACCT
* * * * * *
349425 CCCGACCAAGTGCCAACTAATTTTGACTTTGACTCTGTAGGGCTTAACCT
1 CCC-ACTAGGTGCCAACTAATTTGGACTTTAACTCTATAAGGCTTAACCT
* * *
349475 CCCGACCAAGTGCTAACTAATTTGGACTT
1 CCC-ACTAGGTGCCAACTAATTTGGACTT
349504 AGCTTTACCT
Statistics
Matches: 361, Mismatches: 101, Indels: 28
0.74 0.21 0.06
Matches are distributed among these distances:
48 5 0.01
49 67 0.19
50 277 0.77
51 12 0.03
ACGTcount: A:0.28, C:0.22, G:0.16, T:0.35
Consensus pattern (49 bp):
CCCACTAGGTGCCAACTAATTTGGACTTTAACTCTATAAGGCTTAACCT
Found at i:349099 original size:100 final size:99
Alignment explanation
Indices: 348955--349503 Score: 300
Period size: 100 Copynumber: 5.5 Consensus size: 99
348945 AATCTAGGCT
* * * *
348955 TTTG-CTTTATAGGGCATAA-CTTACCCACTAGGTGCTAA-TAAATTTGGACTTTAACTCTATAA
1 TTTGACTTTATAGGGCTTAACCTT-CCTATTAGGTGCCAACT-AATTTGGACTTTAACTCTATAA
349017 GGCTTACTCTTCCCACTAGGTGCCAACTAATTTGAAC
64 GGCTTAC-CTTCCCACTAGGTGCCAACTAATTTGAAC
* * * ** *
349054 TTAGACTTTATAGGGCTTAACCTTCGTATTAGGTGTCAACTAATTTATACTTTGACTCTAT-AGA
1 TTTGACTTTATAGGGCTTAACCTTCCTATTAGGTGCCAACTAATTTGGACTTTAACTCTATAAG-
** * * * * *
349118 GCTTAACCTTCTTACCAAGTGCTAACTAACTTGGAC
65 GCTT-ACCTTCCCACTAGGTGCCAACTAATTTGAAC
* * * * * ** *
349154 TTTGACTCTAGAGGGCTTAAGCTTCC-ATTTGCTGCCAACTAATAAGGAC-TTAGACTCTATAAA
1 TTTGACTTTATAGGGCTTAACCTTCCTATTAGGTGCCAACTAATTTGGACTTTA-ACTCTATAAG
* * *
349217 GATTAACC-TCCCTACTAGGTGCCAACT-ATTTTAGAT
65 GCTT-ACCTTCCC-ACTAGGTGCCAACTAATTTGA-AC
* * * ** * * * * * *
349253 TTTAAGTTTATAAGATTTAACC-ACCTATTAAGTGCCAACTAACTTGGAC-TTAGATTTTATATG
1 TTTGACTTTATAGGGCTTAACCTTCCTATTAGGTGCCAACTAATTTGGACTTTA-ACTCTATAAG
** * * * * *
349316 GCTTAAATTCCTTACTAGGTGCTAATTAATTTGGAT
65 GCTTACCTTCC-CACTAGGTGCCAACTAATTTGAAC
* * *
349352 TTTGACTTTATATGGCTTAACC-TCACTACTTCA--TGCCAACTAATTTGGACTTTGACTCTGTA
1 TTTGACTTTATAGGGCTTAACCTTC-CTA-TT-AGGTGCCAACTAATTTGGACTTTAACTCTATA
* * *
349414 GGGCTTAGCC-TCCCGACCAAGTGCCAACTAATTTTG-AC
63 AGGCTTA-CCTTCCC-ACTAGGTGCCAACTAA-TTTGAAC
* * * * ** * *
349452 TTTGACTCTGTAGGGCTTAACCTCCCGACCAAGTGCTAACTAATTTGGACTT
1 TTTGACTTTATAGGGCTTAACCTTCCTATTAGGTGCCAACTAATTTGGACTT
349504 AGCTTTACCT
Statistics
Matches: 331, Mismatches: 96, Indels: 45
0.70 0.20 0.10
Matches are distributed among these distances:
98 11 0.03
99 126 0.38
100 178 0.54
101 15 0.05
102 1 0.00
ACGTcount: A:0.28, C:0.21, G:0.16, T:0.35
Consensus pattern (99 bp):
TTTGACTTTATAGGGCTTAACCTTCCTATTAGGTGCCAACTAATTTGGACTTTAACTCTATAAGG
CTTACCTTCCCACTAGGTGCCAACTAATTTGAAC
Found at i:349244 original size:99 final size:100
Alignment explanation
Indices: 349027--349244 Score: 226
Period size: 99 Copynumber: 2.2 Consensus size: 100
349017 GGCTTACTCT
* * * * * *
349027 TCCC-ACTAGGTGCCAACTAATTTGAACTTAGACTTTATAGGGCTTAACCTTCGTATTAGGTGTC
1 TCCCTACTAGGTGCCAACTAACTTGAACTTAGACTCTAGAGGGCTTAACCTTCGCATTAGCTGCC
* * * * *
349091 AACTAATTTATACTTTGACTCTATAGAGCTTAACC
66 AACTAATTAAGACTTAGACTCTATAAAGATTAACC
* * * * * * * * *
349126 TTCTTACCAAGTGCTAACTAACTTGGACTTTGACTCTAGAGGGCTTAAGCTTC-CATTTGCTGCC
1 TCCCTACTAGGTGCCAACTAACTTGAACTTAGACTCTAGAGGGCTTAACCTTCGCATTAGCTGCC
349190 AACTAA-TAAGGACTTAGACTCTATAAAGATTAACC
66 AACTAATTAA-GACTTAGACTCTATAAAGATTAACC
349225 TCCCTACTAGGTGCCAACTA
1 TCCCTACTAGGTGCCAACTA
349245 TTTTAGATTT
Statistics
Matches: 92, Mismatches: 25, Indels: 4
0.76 0.21 0.03
Matches are distributed among these distances:
98 2 0.02
99 51 0.55
100 39 0.42
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.33
Consensus pattern (100 bp):
TCCCTACTAGGTGCCAACTAACTTGAACTTAGACTCTAGAGGGCTTAACCTTCGCATTAGCTGCC
AACTAATTAAGACTTAGACTCTATAAAGATTAACC
Found at i:349598 original size:50 final size:50
Alignment explanation
Indices: 349541--350149 Score: 348
Period size: 50 Copynumber: 12.3 Consensus size: 50
349531 ACTTAGACTC
* *
349541 TATAGGGCTTACCCTCCTTACCAGGTGCTAACTAACTTGGACTTTAACTT
1 TATAGGGCTTAACCTCCTTACCAGGTGCCAACTAACTTGGACTTTAACTT
* * * * * * * *
349591 TAGAGGGCTTAACCCCCTTACAAAGTGCCAACTAATTTGTACTTTGATTT
1 TATAGGGCTTAACCTCCTTACCAGGTGCCAACTAACTTGGACTTTAACTT
* * * * * * * *
349641 TACAAGACTTAACCTCCCTACCAGTTGCCAAATAACTTAGACTTAAACTT
1 TATAGGGCTTAACCTCCTTACCAGGTGCCAACTAACTTGGACTTTAACTT
* * * ** * * ** *
349691 TATTGGGCTTAACATCCCTATTAGGTGTCAA-TCAATTTGGGTTTTAACTC
1 TATAGGGCTTAACCTCCTTACCAGGTGCCAACT-AACTTGGACTTTAACTT
** * * * * ** * *
349741 TATAAAGATTAACCTTCCTT-TCAAGTGCTAGTTAATTTGGAC-TTAGACTC
1 TATAGGGCTTAACC-TCCTTACCAGGTGCCAACTAACTTGGACTTTA-ACTT
* * * * *
349791 TATAAGGCTTAATCTCCCTACCA---G----CTAATTTAGACTTTGAA-TT
1 TATAGGGCTTAACCTCCTTACCAGGTGCCAACTAACTTGGACTTT-AACTT
* ** * * * *
349834 TATAGAGCTTAATTTCCCTACCAAGTGCCAACTAACTTGGACTTTGACTC
1 TATAGGGCTTAACCTCCTTACCAGGTGCCAACTAACTTGGACTTTAACTT
** * * * * *
349884 TATAGGTTTTAACCTCCTTACCAAGTGCCAACTAAATTGAACCTTGACTT
1 TATAGGGCTTAACCTCCTTACCAGGTGCCAACTAACTTGGACTTTAACTT
* * * *
349934 TATAAGGCTTAACCTCCTTTCCAGGTGCTAACTAACTTGGACTTTCACTT
1 TATAGGGCTTAACCTCCTTACCAGGTGCCAACTAACTTGGACTTTAACTT
* * * *
349984 TATAGGGCTTAGCCT-CTCTACGAGGTGCCAACTAA-TATAGAC-TTAGACTC
1 TATAGGGCTTAACCTCCT-TACCAGGTGCCAACTAACT-TGGACTTTA-ACTT
* * ** * *
350034 TATAGGGCTTAATCTCCCTACCATTTGCCAACTAACTTAGACTTTGACTT
1 TATAGGGCTTAACCTCCTTACCAGGTGCCAACTAACTTGGACTTTAACTT
* * * * *
350084 TATAAGGCTTAACCTCCTTATCAGGTGCCAATTAATTTGGA-TTTAGACTC
1 TATAGGGCTTAACCTCCTTACCAGGTGCCAACTAACTTGGACTTTA-ACTT
*
350134 TATAAGGCTTAACCTC
1 TATAGGGCTTAACCTC
350150 TTTCTTAATT
Statistics
Matches: 422, Mismatches: 115, Indels: 44
0.73 0.20 0.08
Matches are distributed among these distances:
43 30 0.07
44 3 0.01
45 1 0.00
46 1 0.00
47 1 0.00
49 17 0.04
50 360 0.85
51 9 0.02
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.34
Consensus pattern (50 bp):
TATAGGGCTTAACCTCCTTACCAGGTGCCAACTAACTTGGACTTTAACTT
Found at i:349625 original size:131 final size:131
Alignment explanation
Indices: 349391--349634 Score: 303
Period size: 131 Copynumber: 1.9 Consensus size: 131
349381 TTCATGCCAA
** * * * * * *
349391 CTAATTTGGACTTTGACTCTGTAGGGCTTAGCCTCCCGACCAAGTGCCAACTAATTTTGACTTTG
1 CTAATTTAAACTTAGACTCTATAGGGCTTACCCTCCCGACCAAGTGCCAACTAACTTGGACTTTA
* *
349456 ACTCTGTAGGGCTTAACCTCCCGACCAAGTGCTAACTAATTTGGACTTAGCTTTACCTGGTGCTA
66 ACTCTGTAGGGCTTAACCTCCCGACAAAGTGCCAACTAATTTGGACTTAGCTTTACCTGGTGCTA
349521 G
131 G
** * *
349522 CTAATTTAAACTTAGACTCTATAGGGCTTACCCTCCTTACCAGGTGCTAACTAACTTGGACTTTA
1 CTAATTTAAACTTAGACTCTATAGGGCTTACCCTCCCGACCAAGTGCCAACTAACTTGGACTTTA
* * *
349587 ACTTTAG-AGGGCTTAACC-CCCTTACAAAGTGCCAACTAATTTGTACTT
66 ACTCT-GTAGGGCTTAACCTCCC-GACAAAGTGCCAACTAATTTGGACTT
349635 TGATTTTACA
Statistics
Matches: 94, Mismatches: 17, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
130 3 0.03
131 90 0.96
132 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (131 bp):
CTAATTTAAACTTAGACTCTATAGGGCTTACCCTCCCGACCAAGTGCCAACTAACTTGGACTTTA
ACTCTGTAGGGCTTAACCTCCCGACAAAGTGCCAACTAATTTGGACTTAGCTTTACCTGGTGCTA
G
Found at i:350166 original size:100 final size:98
Alignment explanation
Indices: 349862--350196 Score: 291
Period size: 100 Copynumber: 3.4 Consensus size: 98
349852 TACCAAGTGC
* * * * * *
349862 CAACTAACTTGGACTTTGACTCTAT-AGGTTTTAACCTCCTTACCAAGTGCCAACTAAATTGAAC
1 CAACTAACTTAGACTTTGACTTTATAAGG-CTTAACCTCCTTA-CAGGTGCCAACTAATTTGGA-
* ** *
349926 CTT-GACTTTATAAGGCTTAACCTCCTTTCCAGGTG
63 CTTAGACTCTATAAGGCTTAACCTCCTTTCCAATTA
* * * * * *
349961 CTAACTAACTTGGACTTTCACTTTATAGGGCTTAGCCT-CTCTACGAGGTGCCAACTAATATAGA
1 C-AACTAACTTAGACTTTGACTTTATAAGGCTTAACCTCCT-TAC-AGGTGCCAACTAATTTGGA
* * * * * *
350025 CTTAGACTCTATAGGGCTTAATCTCCCTACCATTTGC
63 CTTAGACTCTATAAGGCTTAACCTCCTTTCCAATT-A
* *
350062 CAACTAACTTAGACTTTGACTTTATAAGGCTTAACCTCCTTATCAGGTGCCAATTAATTTGGATT
1 CAACTAACTTAGACTTTGACTTTATAAGGCTTAACCTCCTTA-CAGGTGCCAACTAATTTGGACT
*
350127 TAGACTCTATAAGGCTTAACCT-CTTTCTTAATTAA
65 TAGACTCTATAAGGCTTAACCTCCTTTC-CAATT-A
* * * *
350162 CAACTAATTTAAACTTAGACTTTATAATGCTTAAC
1 CAACTAACTTAGACTTTGACTTTATAAGGCTTAAC
350197 ATTCTTTCTA
Statistics
Matches: 189, Mismatches: 38, Indels: 17
0.77 0.16 0.07
Matches are distributed among these distances:
99 10 0.05
100 173 0.92
101 6 0.03
ACGTcount: A:0.29, C:0.23, G:0.13, T:0.35
Consensus pattern (98 bp):
CAACTAACTTAGACTTTGACTTTATAAGGCTTAACCTCCTTACAGGTGCCAACTAATTTGGACTT
AGACTCTATAAGGCTTAACCTCCTTTCCAATTA
Found at i:350166 original size:150 final size:150
Alignment explanation
Indices: 349873--350196 Score: 341
Period size: 150 Copynumber: 2.2 Consensus size: 150
349863 AACTAACTTG
* ** *
349873 GACTTTGACTCTATAGGTTTTAACCTCCTTACCAAGTGCCAACTAAATTGAACCTTGACTTTATA
1 GACTTAGACTCTATAGGGCTTAACCTCCCTACCAAGTGCCAACTAAATTGAACCTTGACTTTATA
* * * *
349938 AGGCTTAACCTCCTTTCCAGGTGCTAACTAACTTGGACTTTCACTTTATAGGGCTTAGCCTCTCT
66 AGGCTTAACCTCCTTTCCAGGTGCCAACTAACTTGGACTTTCACTCTATAAGGCTTAACCTCTCT
* **
350003 ACGAGGTGCCAACTAATATA
131 ACGAAGTAACAACTAATATA
* ** * *
350023 GACTTAGACTCTATAGGGCTTAATCTCCCTACCATTTGCCAACTAACTT-AGACTTTGACTTTAT
1 GACTTAGACTCTATAGGGCTTAACCTCCCTACCAAGTGCCAACTAAATTGA-ACCTTGACTTTAT
* * *
350087 AAGGCTTAACCTCCTTAT-CAGGTGCCAATTAATTTGGA-TTTAGACTCTATAAGGCTTAACCTC
65 AAGGCTTAACCTCCTT-TCCAGGTGCCAACTAACTTGGACTTT-CACTCTATAAGGCTTAACCTC
* * * *
350150 T-TTCTTAATTAACAACTAATTTA
128 TCTAC-GAAGTAACAACTAATATA
* * **
350173 AACTTAGACTTTATAATGCTTAAC
1 GACTTAGACTCTATAGGGCTTAAC
350197 ATTCTTTCTA
Statistics
Matches: 142, Mismatches: 28, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
149 6 0.04
150 135 0.95
151 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.13, T:0.35
Consensus pattern (150 bp):
GACTTAGACTCTATAGGGCTTAACCTCCCTACCAAGTGCCAACTAAATTGAACCTTGACTTTATA
AGGCTTAACCTCCTTTCCAGGTGCCAACTAACTTGGACTTTCACTCTATAAGGCTTAACCTCTCT
ACGAAGTAACAACTAATATA
Found at i:352780 original size:17 final size:17
Alignment explanation
Indices: 352754--352787 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
352744 AAAGAATGAC
352754 CAAAAACCAAAGAAAAT
1 CAAAAACCAAAGAAAAT
* *
352771 CAAAAGCCAAATAAAAT
1 CAAAAACCAAAGAAAAT
352788 ACAACTAGTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.68, C:0.18, G:0.06, T:0.09
Consensus pattern (17 bp):
CAAAAACCAAAGAAAAT
Found at i:365138 original size:12 final size:11
Alignment explanation
Indices: 365121--365171 Score: 70
Period size: 11 Copynumber: 4.6 Consensus size: 11
365111 CTAATTTAAC
365121 TTCTTTTTTTCT
1 TTCTTTTTTT-T
365133 TTCTTTTTCTTT
1 TTCTTTTT-TTT
365145 TTC-TTTTTTT
1 TTCTTTTTTTT
365155 TTCTTTTTTTT
1 TTCTTTTTTTT
365166 TT-TTTT
1 TTCTTTT
365172 ATCATTTTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
10 10 0.27
11 13 0.35
12 12 0.32
13 2 0.05
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (11 bp):
TTCTTTTTTTT
Found at i:365143 original size:6 final size:6
Alignment explanation
Indices: 365121--365171 Score: 58
Period size: 6 Copynumber: 9.2 Consensus size: 6
365111 CTAATTTAAC
365121 TTCTTT TT-TTCT TTCTTT TTCTTT TTC-TT TT-TTT TTCTTT TT-TTT
1 TTCTTT TTCTT-T TTCTTT TTCTTT TTCTTT TTCTTT TTCTTT TTCTTT
365166 TT-TTT T
1 TTCTTT T
365172 ATCATTTTTT
Statistics
Matches: 41, Mismatches: 0, Indels: 9
0.82 0.00 0.18
Matches are distributed among these distances:
5 19 0.46
6 20 0.49
7 2 0.05
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (6 bp):
TTCTTT
Found at i:365153 original size:26 final size:27
Alignment explanation
Indices: 365124--365182 Score: 84
Period size: 26 Copynumber: 2.2 Consensus size: 27
365114 ATTTAACTTC
*
365124 TTTTTTTCTTTCTTTTTCTTTT-TCTT
1 TTTTTTTCTTTCTTTTTCTTTTATCAT
* *
365150 TTTTTTTCTTTTTTTTTTTTTTATCAT
1 TTTTTTTCTTTCTTTTTCTTTTATCAT
365177 TTTTTT
1 TTTTTT
365183 CAAAGCATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 20 0.69
27 9 0.31
ACGTcount: A:0.03, C:0.10, G:0.00, T:0.86
Consensus pattern (27 bp):
TTTTTTTCTTTCTTTTTCTTTTATCAT
Found at i:365171 original size:16 final size:16
Alignment explanation
Indices: 365121--365182 Score: 79
Period size: 16 Copynumber: 3.6 Consensus size: 16
365111 CTAATTTAAC
365121 TTCTTTTTTTCTTTCTTT
1 TTCTTTTTTT-TTT-TTT
*
365139 TTCTTTTTCTTTTTTT
1 TTCTTTTTTTTTTTTT
365155 TTCTTTTTTTTTTTTT
1 TTCTTTTTTTTTTTTT
365171 TATCATTTTTTT
1 T-TC-TTTTTTT
365183 CAAAGCATTT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
16 19 0.47
17 5 0.12
18 16 0.40
ACGTcount: A:0.03, C:0.11, G:0.00, T:0.85
Consensus pattern (16 bp):
TTCTTTTTTTTTTTTT
Found at i:365182 original size:1 final size:1
Alignment explanation
Indices: 365124--365171 Score: 51
Period size: 1 Copynumber: 48.0 Consensus size: 1
365114 ATTTAACTTC
* * * * *
365124 TTTTTTTCTTTCTTTTTCTTTTTCTTTTTTTTTCTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
365172 ATCATTTTTT
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 37 1.00
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (1 bp):
T
Found at i:367245 original size:30 final size:30
Alignment explanation
Indices: 367211--367268 Score: 116
Period size: 30 Copynumber: 1.9 Consensus size: 30
367201 AGAGAAAGAA
367211 TATGGGAGAGTTGTCATCTAAAGGAAGATG
1 TATGGGAGAGTTGTCATCTAAAGGAAGATG
367241 TATGGGAGAGTTGTCATCTAAAGGAAGA
1 TATGGGAGAGTTGTCATCTAAAGGAAGA
367269 GGTACTTACC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.34, C:0.07, G:0.33, T:0.26
Consensus pattern (30 bp):
TATGGGAGAGTTGTCATCTAAAGGAAGATG
Found at i:370191 original size:154 final size:153
Alignment explanation
Indices: 369911--370250 Score: 405
Period size: 154 Copynumber: 2.2 Consensus size: 153
369901 CAGTTCTAGG
* * * * **
369911 AAAATTACCAAAATGCCTTTAAGACATACCTTCAACGTGAAAGTATTTCGATAACCTTAAAAGAC
1 AAAATTATCAAAATGCCCTT-AGGCATACCTTTAACGTGAAAGTATCCCGATAACCTTAAAAGAC
* * *
369976 ATAAAAAGAGAATAAAAAGATGAACCTATCCTAAATGCACACCTTTGTCATAAAAATGACCCAAT
65 ACAAAAAGAGAATAAAAAGATGAACCTATCCTAAATGCACACCTTGGTCATAAAAACGACCCAAT
*
370041 AACGACCAAGGACTCAGTTTTAAA
130 AACGACCAAGGACTCAATTTTAAA
* * *
370065 GAAATTAT-AGAAATGCCCTTAGGCATACCTTTGACTTGAAAGTATCCCGATAACCTTAAAAGAC
1 AAAATTATCA-AAATGCCCTTAGGCATACCTTTAACGTGAAAGTATCCCGATAACCTTAAAAGAC
* * * *
370129 ACAAAAAGGATAATAAAATGATGAACCTATCCTAAATGCACACCATTGGT-ATAAAAGCGACCCG
65 ACAAAAA-GAGAATAAAAAGATGAACCTATCCTAAATGCACACC-TTGGTCATAAAAACGACCCA
* * * ** *
370193 GTGATGACTTAGGGCTCAATTTTAAA
128 ATAACGACCAAGGACTCAATTTTAAA
* *
370219 AAAATTATCAAAATGCCCTTAAGTATACCTTT
1 AAAATTATCAAAATGCCCTTAGGCATACCTTT
370251 TGTAGACATC
Statistics
Matches: 156, Mismatches: 26, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
153 45 0.29
154 106 0.68
155 5 0.03
ACGTcount: A:0.42, C:0.19, G:0.14, T:0.25
Consensus pattern (153 bp):
AAAATTATCAAAATGCCCTTAGGCATACCTTTAACGTGAAAGTATCCCGATAACCTTAAAAGACA
CAAAAAGAGAATAAAAAGATGAACCTATCCTAAATGCACACCTTGGTCATAAAAACGACCCAATA
ACGACCAAGGACTCAATTTTAAA
Found at i:370531 original size:8 final size:8
Alignment explanation
Indices: 370520--370578 Score: 61
Period size: 8 Copynumber: 7.8 Consensus size: 8
370510 AACATAATAA
370520 TAAAAAAT
1 TAAAAAAT
370528 T-AAAAAT
1 TAAAAAAT
370535 T-AAAAAT
1 TAAAAAAT
370542 TAAAAAAT
1 TAAAAAAT
370550 T-AAAAAT
1 TAAAAAAT
* *
370557 CAAGAAAT
1 TAAAAAAT
*
370565 TGAAAAAT
1 TAAAAAAT
*
370573 CAAAAA
1 TAAAAA
370579 TCAATCAAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
7 20 0.48
8 22 0.52
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.22
Consensus pattern (8 bp):
TAAAAAAT
Found at i:370534 original size:7 final size:7
Alignment explanation
Indices: 370522--370579 Score: 71
Period size: 7 Copynumber: 7.9 Consensus size: 7
370512 CATAATAATA
370522 AAAAATT
1 AAAAATT
370529 AAAAATT
1 AAAAATT
370536 AAAAATT
1 AAAAATT
370543 AAAAAATT
1 -AAAAATT
*
370551 AAAAATC
1 AAAAATT
370558 AAGAAATT
1 AA-AAATT
*
370566 GAAAAATC
1 -AAAAATT
370574 AAAAAT
1 AAAAAT
370580 CAATCAAAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
7 28 0.62
8 15 0.33
9 2 0.04
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.22
Consensus pattern (7 bp):
AAAAATT
Found at i:370540 original size:15 final size:15
Alignment explanation
Indices: 370529--370652 Score: 77
Period size: 15 Copynumber: 7.5 Consensus size: 15
370519 ATAAAAAATT
*
370529 AAAAATTAAAAATTA
1 AAAAATTAAAAATCA
370544 AAAAATTAAAAATCA
1 AAAAATTAAAAATCA
*
370559 AGAAATTGAAAAATCAA
1 AAAAATT-AAAAATC-A
*
370576 AAATCAATCAAAAAAATCA
1 AAA--AAT--TAAAAATCA
*
370595 TAAGAAATCAAAAATCAA
1 -AA-AAATTAAAAATC-A
370613 AAAAATTAAAATTATCA
1 AAAAATTAAAA--ATCA
* * *
370630 AAATTATCAAAAATAA
1 AAA-AATTAAAAATCA
370646 AAAAATT
1 AAAAATT
370653 CTTCAAAATA
Statistics
Matches: 86, Mismatches: 11, Indels: 24
0.71 0.09 0.20
Matches are distributed among these distances:
15 22 0.26
16 21 0.24
17 16 0.19
18 10 0.12
19 7 0.08
20 9 0.10
21 1 0.01
ACGTcount: A:0.69, C:0.07, G:0.02, T:0.22
Consensus pattern (15 bp):
AAAAATTAAAAATCA
Found at i:370580 original size:7 final size:7
Alignment explanation
Indices: 370522--370615 Score: 57
Period size: 7 Copynumber: 12.7 Consensus size: 7
370512 CATAATAATA
*
370522 AAAAATT
1 AAAAATC
*
370529 AAAAATT
1 AAAAATC
*
370536 AAAAATTA
1 AAAAA-TC
*
370544 AAAAATT
1 AAAAATC
370551 AAAAATC
1 AAAAATC
*
370558 AAGAAATTG
1 AA-AAA-TC
370567 AAAAATC
1 AAAAATC
370574 AAAAATC
1 AAAAATC
*
370581 AATCAA--
1 AA-AAATC
370587 AAAAATC
1 AAAAATC
370594 ATAAGAAATC
1 --AA-AAATC
370604 AAAAATC
1 AAAAATC
370611 AAAAA
1 AAAAA
370616 AATTAAAATT
Statistics
Matches: 71, Mismatches: 7, Indels: 18
0.74 0.07 0.19
Matches are distributed among these distances:
5 2 0.03
6 2 0.03
7 41 0.58
8 16 0.23
9 5 0.07
10 5 0.07
ACGTcount: A:0.70, C:0.07, G:0.03, T:0.19
Consensus pattern (7 bp):
AAAAATC
Found at i:370618 original size:9 final size:9
Alignment explanation
Indices: 370567--370642 Score: 57
Period size: 9 Copynumber: 8.3 Consensus size: 9
370557 CAAGAAATTG
370567 AAAAATCAA
1 AAAAATCAA
370576 AAATCAATCAA
1 AAA--AATCAA
370587 AAAAATCATA
1 AAAAATCA-A
*
370597 AGAAATC--
1 AAAAATCAA
370604 AAAAATCAA
1 AAAAATCAA
*
370613 AAAAATTAA
1 AAAAATCAA
**
370622 AATTATCAA
1 AAAAATCAA
**
370631 AATTATCAA
1 AAAAATCAA
370640 AAA
1 AAA
370643 TAAAAAAATT
Statistics
Matches: 55, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
7 6 0.11
9 33 0.60
10 7 0.13
11 9 0.16
ACGTcount: A:0.68, C:0.11, G:0.01, T:0.20
Consensus pattern (9 bp):
AAAAATCAA
Found at i:370642 original size:28 final size:28
Alignment explanation
Indices: 370607--370670 Score: 78
Period size: 28 Copynumber: 2.3 Consensus size: 28
370597 AGAAATCAAA
*
370607 AATCAAAAA-AATTAAAATT-ATCAAAAT
1 AATCAAAAATAA-AAAAATTCATCAAAAT
* *
370634 TATCAAAAATAAAAAAATTCTTCAAAAT
1 AATCAAAAATAAAAAAATTCATCAAAAT
370662 AATCAAAAA
1 AATCAAAAA
370671 GATTATTATT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
27 14 0.45
28 17 0.55
ACGTcount: A:0.66, C:0.09, G:0.00, T:0.25
Consensus pattern (28 bp):
AATCAAAAATAAAAAAATTCATCAAAAT
Found at i:370741 original size:20 final size:20
Alignment explanation
Indices: 370715--370816 Score: 108
Period size: 20 Copynumber: 5.4 Consensus size: 20
370705 GAAAGTTGTG
*
370715 AAAGCATGAAATGAAGATGC
1 AAAGCATGAAATGATGATGC
* *
370735 TAAGCATGAAA-GTTG-TG-
1 AAAGCATGAAATGATGATGC
370752 AAAGCATGAAATGATGATGC
1 AAAGCATGAAATGATGATGC
*
370772 AAAGCATGAAA-GTTG-TG-
1 AAAGCATGAAATGATGATGC
*
370789 AAAGCTTGAAATGATGATGC
1 AAAGCATGAAATGATGATGC
*
370809 AAAACATG
1 AAAGCATG
370817 TAACGTGGAT
Statistics
Matches: 66, Mismatches: 10, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
17 20 0.30
18 10 0.15
19 9 0.14
20 27 0.41
ACGTcount: A:0.44, C:0.09, G:0.25, T:0.22
Consensus pattern (20 bp):
AAAGCATGAAATGATGATGC
Found at i:370745 original size:37 final size:37
Alignment explanation
Indices: 370703--370816 Score: 192
Period size: 37 Copynumber: 3.1 Consensus size: 37
370693 AGATGAATGA
* *
370703 ATGAAAGTTGTGAAAGCATGAAATGAAGATGCTAAGC
1 ATGAAAGTTGTGAAAGCATGAAATGATGATGCAAAGC
370740 ATGAAAGTTGTGAAAGCATGAAATGATGATGCAAAGC
1 ATGAAAGTTGTGAAAGCATGAAATGATGATGCAAAGC
* *
370777 ATGAAAGTTGTGAAAGCTTGAAATGATGATGCAAAAC
1 ATGAAAGTTGTGAAAGCATGAAATGATGATGCAAAGC
370814 ATG
1 ATG
370817 TAACGTGGAT
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 73 1.00
ACGTcount: A:0.43, C:0.08, G:0.26, T:0.23
Consensus pattern (37 bp):
ATGAAAGTTGTGAAAGCATGAAATGATGATGCAAAGC
Found at i:373863 original size:153 final size:154
Alignment explanation
Indices: 373409--374231 Score: 777
Period size: 157 Copynumber: 5.3 Consensus size: 154
373399 CAAAGGTTGA
* * * * * *
373409 CATTTAGGATAGGTTCATCCCTTTTTCTAGT-CTCTTTAGGTCCTTTAGGGTTGCCGAGGTACTT
1 CATTTAGGATAGGTTCATCCCTTTTT-TA-TCCTTTTTAAGTCCTTTAGGGGTACCAAGATACTT
* * * * * *
373473 TTACGTCGAAGGTATACCCCTAGGGGCATTTTTATAATTTTTTAGAACCGAGTCCTAAGTTATCA
64 TCACATCGAAAGTAT-CCCCTAGGGGCATTTTCAT-ATTTTTTAGAACCGAGTCCTAGGTAATCA
* * *
373538 CCAAGTCCGCTTTTCTGTT-GAAGGTGGG
127 TCGAGTCCGCTTTTAT-TTCGAAGGTGGG
* * *
373566 CATTTAGGATAGGTTCACCCCTTTTTTAATCCTTTTTAAGTCCATTAAGGGTACCAAGATACTTT
1 CATTTAGGATAGGTTCATCCCTTTTTT-ATCCTTTTTAAGTCCTTTAGGGGTACCAAGATACTTT
* * * * ** *
373631 CACATCGAAGGTATCCCCTAGAGGTATTTTCATATTTTTTTTCATAATTGAGTCCTAGGTAATCG
65 CACATCGAAAGTATCCCCTAGGGGCATTTTCATA--TTTTTT-AGAACCGAGTCCTAGGTAATCA
*
373696 TCGAGTCTGCTTTTATTTCGAAGGTGGG
127 TCGAGTCCGCTTTTATTTCGAAGGTGGG
* *
373724 TATTTAGGATAGGTTCA-CCCTTTTTTATCCTTTTTAAGTCCTTTAGGGGTATC-AGATACTTTC
1 CATTTAGGATAGGTTCATCCCTTTTTTATCCTTTTTAAGTCCTTTAGGGGTACCAAGATACTTTC
* * * * *
373787 ACATCAAAAGCATCCCCTAGGGGCATTTTCGTATTTTTTCATAACTGAGTCCTAGGTAATCATCG
66 ACATCGAAAGTATCCCCTAGGGGCATTTTCATATTTTTT-AGAACCGAGTCCTAGGTAATCATCG
* * *
373852 AGTCCGTTTTTATGTCGAATGTGGG
130 AGTCCGCTTTTATTTCGAAGGTGGG
* * *
373877 AATTTAGGAAAGGTTCA-CCCTTTTTCTATCCTTTTTAAGTCCTTTAGGGGTATC-AGATACTTT
1 CATTTAGGATAGGTTCATCCCTTTTT-TATCCTTTTTAAGTCCTTTAGGGGTACCAAGATACTTT
* * ** * *
373940 CACATCGAAAGTATTCCCTAAGGGCATTTTTGTATTTTTTAGAACCGAGTCCTA-GTTATTATCG
65 CACATCGAAAGTATCCCCTAGGGGCATTTTCATATTTTTTAGAACCGAGTCCTAGGTAATCATCG
** *
374004 AGTCTACTTTTA-TGCTGAAGGTGGG
130 AGTCCGCTTTTATTTC-GAAGGTGGG
* ** *
374029 CATTTAGGATAGGTTCATCCCTTTTGTGAGT-CTTTTTAAGTCCTTTAGGATTACCAGGATACTT
1 CATTTAGGATAGGTTCATCCCTTTT-TTA-TCCTTTTTAAGTCCTTTAGGGGTACCAAGATACTT
* * ** * * * * * *
374093 TTACGTC-AAAGGTATAATCGTAGGGACATTTTCATAATTTTCTAGAACCAACTCCTAGGTCATC
64 TCACATCGAAA-GTAT-CCCCTAGGGGCATTTTCAT-ATTTTTTAGAACCGAGTCCTAGGTAATC
* * **
374157 ACCG-GGCTCGCTTTTACATCGAAGGTGGG
126 ATCGAGTC-CGCTTTTATTTCGAAGGTGGG
* * * *
374186 CATTTAGGATAGGTTCATCCCATTTCTATCATTTTTAGGTCCTTTA
1 CATTTAGGATAGGTTCATCCCTTTTTTATCCTTTTTAAGTCCTTTA
374232 AAGGTATCAG
Statistics
Matches: 558, Mismatches: 89, Indels: 39
0.81 0.13 0.06
Matches are distributed among these distances:
151 1 0.00
152 40 0.07
153 118 0.21
154 90 0.16
155 51 0.09
156 77 0.14
157 127 0.23
158 54 0.10
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.39
Consensus pattern (154 bp):
CATTTAGGATAGGTTCATCCCTTTTTTATCCTTTTTAAGTCCTTTAGGGGTACCAAGATACTTTC
ACATCGAAAGTATCCCCTAGGGGCATTTTCATATTTTTTAGAACCGAGTCCTAGGTAATCATCGA
GTCCGCTTTTATTTCGAAGGTGGG
Found at i:374151 original size:309 final size:311
Alignment explanation
Indices: 373409--374289 Score: 955
Period size: 309 Copynumber: 2.8 Consensus size: 311
373399 CAAAGGTTGA
* * *
373409 CATTTAGGATAGGTTCATCCCTTTTTCTAGTCTCTTTAGGTCCTTTAGGGTTGCCGAGG-TACTT
1 CATTTAGGATAGGTTCATCCCTTTTT-TAGTCTTTTTAAGTCCTTTAGGGTTACC-AGGATACTT
* * * *
373473 TTACGTCGAAGGTATACCCCTAGGGGCATTTTTATAATTTTTTAGAACCGAGTCCTAAGTTATCA
64 TTACGTCAAAGGTATACCCCTAGGGGCATTTTCATAATTTTTTAGAACCGAGTCCTAGGTAATCA
* * *
373538 CCAAGTCCGCTTTTCTGTTGAAGGTGGGCATTTAGGATAGGTTCACCCCTTTTT-TAATCCTTTT
129 CCGAGTCCGCTTTTATGTCGAAGGTGGGCATTTAGGATAGGTTCACCCCTTTTTCT-ATCCTTTT
* * * * * *
373602 TAAGTCCATTAAGGGTACCAAGATACTTTCACATCGAAGGTATCCCCTAGAGGTATTTTCATATT
193 TAAGTCCTTTAAGGGTATC-AGATACTTTCACATCGAAGGTATTCCCTAGAGGCATTTT--TGTA
* ** * * *
373667 TTTTTTCATAATTGAGTCCTAGGTAATCGTCGAGTCTGCTTTTATTTCGAAGGTGGG
255 TTTTTTCAGAACCGAGTCCTAGGTAATCATCGAGTCTACTTTTATCTCGAAGGTGGG
* * *
373724 TATTTAGGATAGGTTCA-CCCTTTTTTA-TCCTTTTTAAGTCCTTTAGGGGTATCA-GATACTTT
1 CATTTAGGATAGGTTCATCCCTTTTTTAGT-CTTTTTAAGTCCTTTAGGGTTACCAGGATACTTT
* * * * * * *
373786 CACATCAAAAGCAT-CCCCTAGGGGCATTTTCGT-ATTTTTTCATAACTGAGTCCTAGGTAATCA
65 TACGTCAAAGGTATACCCCTAGGGGCATTTTCATAATTTTTT-AGAACCGAGTCCTAGGTAATCA
* * * * *
373849 TCGAGTCCGTTTTTATGTCGAATGTGGGAATTTAGGAAAGGTTCA-CCCTTTTTCTATCCTTTTT
129 CCGAGTCCGCTTTTATGTCGAAGGTGGGCATTTAGGATAGGTTCACCCCTTTTTCTATCCTTTTT
* *
373913 AAGTCCTTTAGGGGTATCAGATACTTTCACATCGAAAGTATTCCCTA-AGGGCATTTTTGTATTT
194 AAGTCCTTTAAGGGTATCAGATACTTTCACATCGAAGGTATTCCCTAGA-GGCATTTTTGTATTT
* *
373977 TTT-AGAACCGAGTCCTA-GTTATTATCGAGTCTACTTTTATGCT-GAAGGTGGG
258 TTTCAGAACCGAGTCCTAGGTAATCATCGAGTCTACTTTTAT-CTCGAAGGTGGG
* *
374029 CATTTAGGATAGGTTCATCCCTTTTGTGAGTCTTTTTAAGTCCTTTAGGATTACCAGGATACTTT
1 CATTTAGGATAGGTTCATCCCTTTT-TTAGTCTTTTTAAGTCCTTTAGGGTTACCAGGATACTTT
** * * * * * *
374094 TACGTCAAAGGTATAATCGTAGGGACATTTTCATAATTTTCTAGAACCAACTCCTAGGTCATCAC
65 TACGTCAAAGGTATACCCCTAGGGGCATTTTCATAATTTTTTAGAACCGAGTCCTAGGTAATCAC
* ** * * *
374159 CG-GGCTCGCTTTTACATCGAAGGTGGGCATTTAGGATAGGTTCATCCC-ATTTCTATCATTTTT
130 CGAGTC-CGCTTTTATGTCGAAGGTGGGCATTTAGGATAGGTTCACCCCTTTTTCTATCCTTTTT
* * ** * * * *
374222 AGGTCCTTTAAAGGTATCAGGCACTTTTACGTCGAAGGTA-TCCCTTAGAGACATTTTTGTAATT
194 AAGTCCTTTAAGGGTATCAGATACTTTCACATCGAAGGTATTCCC-TAGAGGCATTTTTGTATTT
374286 TTTC
258 TTTC
374290 TTGAACTTAG
Statistics
Matches: 468, Mismatches: 81, Indels: 39
0.80 0.14 0.07
Matches are distributed among these distances:
305 44 0.09
306 19 0.04
307 32 0.07
308 26 0.06
309 162 0.35
310 49 0.10
311 74 0.16
312 17 0.04
313 21 0.04
314 8 0.02
315 16 0.03
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.38
Consensus pattern (311 bp):
CATTTAGGATAGGTTCATCCCTTTTTTAGTCTTTTTAAGTCCTTTAGGGTTACCAGGATACTTTT
ACGTCAAAGGTATACCCCTAGGGGCATTTTCATAATTTTTTAGAACCGAGTCCTAGGTAATCACC
GAGTCCGCTTTTATGTCGAAGGTGGGCATTTAGGATAGGTTCACCCCTTTTTCTATCCTTTTTAA
GTCCTTTAAGGGTATCAGATACTTTCACATCGAAGGTATTCCCTAGAGGCATTTTTGTATTTTTT
CAGAACCGAGTCCTAGGTAATCATCGAGTCTACTTTTATCTCGAAGGTGGG
Found at i:377008 original size:17 final size:18
Alignment explanation
Indices: 376974--377009 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
376964 TTTCCCAAAG
*
376974 CATGATTCCTTAAAAGGC
1 CATGAATCCTTAAAAGGC
376992 CATGAATCCTT-AAAGGC
1 CATGAATCCTTAAAAGGC
377009 C
1 C
377010 TTTATTATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (18 bp):
CATGAATCCTTAAAAGGC
Found at i:377767 original size:42 final size:42
Alignment explanation
Indices: 377682--380920 Score: 1083
Period size: 42 Copynumber: 77.5 Consensus size: 42
377672 GTGAGGGATA
*
377682 GGCTTTGACCCTAGAGACTTT-TTCACCCTTAAGTCTGCTTGTC
1 GGCTTTGACCCTAGAGACTTTCTT-A-CCTTAAGTCTGCCTGTC
* * *
377725 AGCTTTGACCCTAGAGACTTTCTAACCTTAAGTCTACCTGTC
1 GGCTTTGACCCTAGAGACTTTCTTACCTTAAGTCTGCCTGTC
* * * *
377767 AGCTTTGACCTTGGAGACTTTCTTACCTTAAGTCTGCCTGTT
1 GGCTTTGACCCTAGAGACTTTCTTACCTTAAGTCTGCCTGTC
* * * * *
377809 GGCTTTAACCCTAGAGACTTTCTTACCATCAGTCTACTTGTC
1 GGCTTTGACCCTAGAGACTTTCTTACCTTAAGTCTGCCTGTC
* * * ** ** * * * * *
377851 GGCCTTGACCTTGGAGACTGCCACATCTAAAGTGTGCCGGTT
1 GGCTTTGACCCTAGAGACTTTCTTACCTTAAGTCTGCCTGTC
** * * * * * * *
377893 GGCTTTGACCCTAGAGACTGCCTCATCTCAAATCTACCTATT
1 GGCTTTGACCCTAGAGACTTTCTTACCTTAAGTCTGCCTGTC
* * * * *
377935 GACTTTAACCTTGGAGAC-TTCTTCACCCTTAAGTCTGCTTGTC
1 GGCTTTGACCCTAGAGACTTTCTT-A-CCTTAAGTCTGCCTGTC
* * * * * *
377978 GGCATTGACCTTGGAGACTTTCTTACCTTTAGTCTACCTATC
1 GGCTTTGACCCTAGAGACTTTCTTACCTTAAGTCTGCCTGTC
* * * ** * * * *
378020 GACTTTGACCTTGGAGACTGCCTCATCTCAAGTCTACCTGTC
1 GGCTTTGACCCTAGAGACTTTCTTACCTTAAGTCTGCCTGTC
* ** * *
378062 GGCTTTGACCCTAGGGACTACCTTATCTTAAGTCTGCCTATC
1 GGCTTTGACCCTAGAGACTTTCTTACCTTAAGTCTGCCTGTC
* * **
378104 GGCTTTGACCTTAGGGACTTT-TTACCTTTGGTCTG-CTAGTC
1 GGCTTTGACCCTAGAGACTTTCTTACCTTAAGTCTGCCT-GTC
** ** * *
378145 AACTTTGACCCT-GTTA-ACTGCCTTACCTTCAGTCTGCTTGTC
1 GGCTTTGACCCTAG--AGACTTTCTTACCTTAAGTCTGCCTGTC
* * * * * *
378187 AGCTTTGACCCTAGAGA-TTGCCTCATCTTAAGTCTACTTGTC
1 GGCTTTGACCCTAGAGACTT-TCTTACCTTAAGTCTGCCTGTC
* * * * **
378229 GACTTTGACCTTGGAGACTTTCTTCACCCTTAAATCCACCTGTC
1 GGCTTTGACCCTAGAGACTTTCTT-A-CCTTAAGTCTGCCTGTC
* * * * * *
378273 AG-TTGTAACCCTAAAGACTTTCTTACTTTATGTCTACCTGTC
1 GGCTT-TGACCCTAGAGACTTTCTTACCTTAAGTCTGCCTGTC
* * * ** * * * * *
378315 -GATTGTTACCCTGGAGACTGCCTAATCTCAAGTCTGCTTATC
1 GGCTT-TGACCCTAGAGACTTTCTTACCTTAAGTCTGCCTGTC
* * * **
378357 GGCTTTAACCCTTA-AGACTTTTTTAACCTAAAGTCTATCTGTC
1 GGCTTTGACCC-TAGAGACTTTCTT-ACCTTAAGTCTGCCTGTC
* * *
378400 GGCTTTGACCCTAGAGACTTTCTTACCTTCAGTTTGCCTGTA
1 GGCTTTGACCCTAGAGACTTTCTTACCTTAAGTCTGCCTGTC
* * ** * * * * * **
378442 GGCTTTTACCCTGGAGACTGCCTCATCTCAGGTTTATCTGTC
1 GGCTTTGACCCTAGAGACTTTCTTACCTTAAGTCTGCCTGTC
* * * * ** * * *
378484 AGCTTTGATCGTGGAGA-TGGCCTCATCTTATGTCTGCCTGTC
1 GGCTTTGACCCTAGAGACT-TTCTTACCTTAAGTCTGCCTGTC
* * * * * * *
378526 GGCTTTAACCATGGAGACTTTCTCACCTTAAGTTTACCTATC
1 GGCTTTGACCCTAGAGACTTTCTTACCTTAAGTCTGCCTGTC
* ** *
378568 GACTTTGACATTGGAGACTTTCTTACCTTCAA-TCTGCCTGTC
1 GGCTTTGACCCTAGAGACTTTCTTACCTT-AAGTCTGCCTGTC
** * * * ** * * *
378610 GGCTTCAACCTTGGAAACTGGCTTATCTCAAGTTTGCCTGTC
1 GGCTTTGACCCTAGAGACTTTCTTACCTTAAGTCTGCCTGTC
* * *
378652 AGCTTTGACCCTGGAGAC-TTCTTCACCCTTAAGTCTGCTTGTC
1 GGCTTTGACCCTAGAGACTTTCTT-A-CCTTAAGTCTGCCTGTC
* * *
378695 GGCTTTGACCCT-GAAGAC-TGC--A---TCA-TCT--C--AC
1 GGCTTTGACCCTAG-AGACTTTCTTACCTTAAGTCTGCCTGTC
* ** * * *
378726 GGCTTTGACCTTAGAGACTGCCTCATCTCAAGTCTGCCTGTC
1 GGCTTTGACCCTAGAGACTTTCTTACCTTAAGTCTGCCTGTC
* * * * * *
378768 GGCTTTGACCTTGGAGACTTTCTTACCTTCAGCCTACCTATC
1 GGCTTTGACCCTAGAGACTTTCTTACCTTAAGTCTGCCTGTC
** * **
378810 GATTTTGACCTTAGAGACTGCCTTACCTTCAA-TCTGCCTGTC
1 GGCTTTGACCCTAGAGACTTTCTTACCTT-AAGTCTGCCTGTC
* * * * * **
378852 AGCTTTGACCTTGGAGA-TTGC-CACATCTTAAGTCTGTTTGTC
1 GGCTTTGACCCTAGAGACTTTCTTAC--CTTAAGTCTGCCTGTC
* * * * *
378894 GACATTGACCCTAGAGACTTTCTTCACCCTCAAGTCTGCTTATC
1 GGCTTTGACCCTAGAGACTTTCTT-A-CCTTAAGTCTGCCTGTC
* * * * *
378938 GGCTGTGACTCTAAAGACTTTCTTAACTTAAGTCTGCTTGTC
1 GGCTTTGACCCTAGAGACTTTCTTACCTTAAGTCTGCCTGTC
* * * * * * ** *
378980 GCCTTTGACCTTAGAGA-TTGCCTCATCTCAAGTCTGTTTATC
1 GGCTTTGACCCTAGAGACTT-TCTTACCTTAAGTCTGCCTGTC
* *
379022 GGCTTTGACCCTTGAGAC-TTCTTTACCCTTAAGTCTGCCTGTT
1 GGCTTTGACCCTAGAGACTTTC-TTA-CCTTAAGTCTGCCTGTC
* * * * *
379065 AGTTTTGACCCTAAAGATTTTCTTACCTTCAA-TTTGCCTGTC
1 GGCTTTGACCCTAGAGACTTTCTTACCTT-AAGTCTGCCTGTC
* * * * * * **
379107 GGCTTTTACCCTGGAGACTGTCTCATCTTAAGTTTGTTTGTC
1 GGCTTTGACCCTAGAGACTTTCTTACCTTAAGTCTGCCTGTC
* * * * ** ** *
379149 GACTTTGATCCTGGAAACTGCCCCATCTTAAGTCTGCCTGTC
1 GGCTTTGACCCTAGAGACTTTCTTACCTTAAGTCTGCCTGTC
* * * * *
379191 AGCTTTAACCCTAGAGACTTTCTCACCTTAAGTCTACCTGTT
1 GGCTTTGACCCTAGAGACTTTCTTACCTTAAGTCTGCCTGTC
* * * * *
379233 GGCCTTGACACTGGAGAATTTCTTACCTTCAGTCCT-CCTGTC
1 GGCTTTGACCCTAGAGACTTTCTTACCTTAAGT-CTGCCTGTC
** ** * * *
379275 GGCTTTGGTCCTAGA-ACTGCCTCATCTTAAGTCTGCCCGTC
1 GGCTTTGACCCTAGAGACTTTCTTACCTTAAGTCTGCCTGTC
* * * * * *
379316 TGCTTTGA-CCTTGCAGA-GTTCTTCACCCTTAAGTTTGCTTATC
1 GGCTTTGACCCTAG-AGACTTTCTT-A-CCTTAAGTCTGCCTGTC
* ** * * * *
379359 GGATTTGACTTTTGAGACTTTCTGACCTTCAGTCTACCTGTC
1 GGCTTTGACCCTAGAGACTTTCTTACCTTAAGTCTGCCTGTC
** * * * ** * * * * * *
379401 AACTTTGACCCCAAAAACTGCCTCATCTCAAGTCTACTTGTT
1 GGCTTTGACCCTAGAGACTTTCTTACCTTAAGTCTGCCTGTC
* ** *
379443 GGTTTTGACCCTAGAGACTGCCTTACCTTAAGTCTGCCTATC
1 GGCTTTGACCCTAGAGACTTTCTTACCTTAAGTCTGCCTGTC
* * **
379485 GGCTTTGACCTTGGAGAC-TTCTTCACCCTTAAGTCTGTTTGTC
1 GGCTTTGACCCTAGAGACTTTCTT-A-CCTTAAGTCTGCCTGTC
* *
379528 GGCTTTGACCTTGGAGACATTT-TTACCTTCAA-TCTGCCTGAT-
1 GGCTTTGACCCTAGAGAC-TTTCTTACCTT-AAGTCTGCCTG-TC
* * ** * * *
379570 AGCTTTGACACTAGAGACTACCTCATCTCAAGTCTGCCTGTC
1 GGCTTTGACCCTAGAGACTTTCTTACCTTAAGTCTGCCTGTC
** * * *
379612 GATTTTGACCCTAGAGA----C-TGCC-TCA---T--CTATC
1 GGCTTTGACCCTAGAGACTTTCTTACCTTAAGTCTGCCTGTC
** * ** *
379643 AACTTTGACCCTAGAGACTTTTTTACCTTTGGTCTG-TTAGTC
1 GGCTTTGACCCTAGAGACTTTCTTACCTTAAGTCTGCCT-GTC
** * ** * *
379685 GATTTTGACCCTGGAGACTGCCTTACCTTTAGACTGCCTGTC
1 GGCTTTGACCCTAGAGACTTTCTTACCTTAAGTCTGCCTGTC
** * * * * *
379727 GATTTTGACCAT-GCAGA-TTACCT-CGTCTCAAGTTTGCCTGTC
1 GGCTTTGACCCTAG-AGACTTTCTTAC--CTTAAGTCTGCCTGTC
* * * *
379769 GACTTTGACCTTAGAGACTTTCTTTGTCCTTAAGTCTGCCTCTC
1 GGCTTTGACCCTAGAGACTTTC-TT-ACCTTAAGTCTGCCTGTC
* * * **
379813 GGCTGTGACCCTAAAAACTTTCTTACCTTAAGTCTATCTGTC
1 GGCTTTGACCCTAGAGACTTTCTTACCTTAAGTCTGCCTGTC
* ** ** * * * * * *
379855 GGCTTTAACCCGGGAGACTACCTCATCTCAAGTCTACTTATC
1 GGCTTTGACCCTAGAGACTTTCTTACCTTAAGTCTGCCTGTC
* * * * * * * *
379897 GACTTTTACCTTGGAGACTTGT-TCACCCTTCAGTCTACTTGTC
1 GGCTTTGACCCTAGAGACTT-TCTTA-CCTTAAGTCTGCCTGTC
* * * * * *
379940 AGCTTTGACCATGGAAACTTTCTTACCTTGAGGT-TACCTGTC
1 GGCTTTGACCCTAGAGACTTTCTTACCTT-AAGTCTGCCTGTC
* * * * *
379982 GGCTTTGACCTTGGAGACTTTTTTACCTTCAGTCTGCCTGAC
1 GGCTTTGACCCTAGAGACTTTCTTACCTTAAGTCTGCCTGTC
* * ** * * *
380024 AGCTTTGACACTAGAGACTACCTCATCTCAAGTCTGCCTGTC
1 GGCTTTGACCCTAGAGACTTTCTTACCTTAAGTCTGCCTGTC
** * * *
380066 GATTTTGACCCTAGAGA----C-TGCC-TCA---T--CTATC
1 GGCTTTGACCCTAGAGACTTTCTTACCTTAAGTCTGCCTGTC
* * * * ** *
380097 GACTTTGACCCCAGAGACTTTTTTCCCTTTGGTCTG-TTAGTC
1 GGCTTTGACCCTAGAGACTTTCTTACCTTAAGTCTGCCT-GTC
*** * ** *
380139 AATTTTGACCCTAAAGACTGCCTTACCTTCAA-ACTGCCTGTC
1 GGCTTTGACCCTAGAGACTTTCTTACCTT-AAGTCTGCCTGTC
* * * * * * *
380181 GGCTTTGACCTTTGAGA-TTACCTCATCTCAAGTTTGCCTGTC
1 GGCTTTGACCCTAGAGACTT-TCTTACCTTAAGTCTGCCTGTC
* * * * *
380223 -ACTTTGACCCTAGAGACTTTCTTTGCCCTTAAGTTTGCCTCTT
1 GGCTTTGACCCTAGAGACTTTC-TT-ACCTTAAGTCTGCCTGTC
* * * * *
380266 AGCTGTGACCCTAAAAACTTTCTTACCTTAAGTCTGTCTGTC
1 GGCTTTGACCCTAGAGACTTTCTTACCTTAAGTCTGCCTGTC
* * * ** * * * * *
380308 GGCTTTAACCCGATAGACTGCCTCATCTCAAGTCTACCTATC
1 GGCTTTGACCCTAGAGACTTTCTTACCTTAAGTCTGCCTGTC
* *** * * * * *
380350 GGCTTTTATGTTGGAGACTTGT-TCACCCTTCAGTCTACTTGTC
1 GGCTTTGACCCTAGAGACTT-TCTTA-CCTTAAGTCTGCCTGTC
* * * * * *
380393 AGCTTTGACCATGGAAACTTTCTTACCTTGAGGT-TACCTGTC
1 GGCTTTGACCCTAGAGACTTTCTTACCTT-AAGTCTGCCTGTC
** ** * * * *
380435 GAATTTGACCCTAGAGACTGCCTCATCTTAAGTCTCCCTATC
1 GGCTTTGACCCTAGAGACTTTCTTACCTTAAGTCTGCCTGTC
* * * ** * *
380477 TGCTTTGA-CCTTGAAAACTGCCTTATCTTAAGTCTGCTTGTC
1 GGCTTTGACCCTAG-AGACTTTCTTACCTTAAGTCTGCCTGTC
* * * *
380519 GACTTTGACCCTAGAGACTTTCTAACCTTAAGTCTACCTATC
1 GGCTTTGACCCTAGAGACTTTCTTACCTTAAGTCTGCCTGTC
* * * * * *
380561 GGCTTTGATCTTGGAGATTTTTTTACCTTCAA-TCGGCCTGTC
1 GGCTTTGACCCTAGAGACTTTCTTACCTT-AAGTCTGCCTGTC
* * * * * * *
380603 GACTTTGA-CCTTGAAGACTGTCTCATCTCAAGTCTGCTTGTC
1 GGCTTTGACCCTAG-AGACTTTCTTACCTTAAGTCTGCCTGTC
* * *
380645 AGCTTTGACCTTAGAGAC-TTCTTCACCCTTAAGTCTACCTGTC
1 GGCTTTGACCCTAGAGACTTTCTT-A-CCTTAAGTCTGCCTGTC
* * * * * *
380688 AGTTTTAACCCTAGAGACTTTCTTACCTTCAGGCTGCCTGTT
1 GGCTTTGACCCTAGAGACTTTCTTACCTTAAGTCTGCCTGTC
** * * *
380730 GGCTTTGACCCTAGAGAC-TTCATCGCCCTTAAATCTACTTGTC
1 GGCTTTGACCCTAGAGACTTTC-T-TACCTTAAGTCTGCCTGTC
* *
380773 GGCTTTGACCCTAGAGATTTTCTTACCTTAAGTCTGCCTATC
1 GGCTTTGACCCTAGAGACTTTCTTACCTTAAGTCTGCCTGTC
* ** * * * *
380815 GGCTTGAGACCCTAGAGACTACCTCATCTCAAGTCTACCTGTC
1 GGCTT-TGACCCTAGAGACTTTCTTACCTTAAGTCTGCCTGTC
* * * * * *
380858 AGTTTTGACCCTGGAGA-TCTCTTCACCCTTAAGTCTACCTATC
1 GGCTTTGACCCTAGAGACTTTCTT-A-CCTTAAGTCTGCCTGTC
**
380901 AACTTTGACCCTAGAGACTT
1 GGCTTTGACCCTAGAGACTT
380921 CCTCATCTTA
Statistics
Matches: 2312, Mismatches: 747, Indels: 273
0.69 0.22 0.08
Matches are distributed among these distances:
31 54 0.02
32 2 0.00
33 2 0.00
34 1 0.00
35 3 0.00
36 10 0.00
37 5 0.00
38 5 0.00
40 16 0.01
41 123 0.05
42 1523 0.66
43 428 0.19
44 135 0.06
45 3 0.00
46 2 0.00
ACGTcount: A:0.20, C:0.27, G:0.17, T:0.36
Consensus pattern (42 bp):
GGCTTTGACCCTAGAGACTTTCTTACCTTAAGTCTGCCTGTC
Found at i:378030 original size:169 final size:168
Alignment explanation
Indices: 377769--378131 Score: 426
Period size: 169 Copynumber: 2.2 Consensus size: 168
377759 TACCTGTCAG
* * *
377769 CTTTGACCTTGGAGACTTTCTTACCTTAAGTCTGCCTGTTGGCTTTAACCCTAGAGACTTTCTTA
1 CTTTAACCTTGGAGACTTTCTTACCTTAAGTCTGCCTGTCGGCATTAACCCTAGAGACTTTCTTA
* * * * * *
377834 CCATCAGTCTACTTGTCGGCCTTGACCTTGGAGACTGCCACATCTAAAGTGTGCCGGTTGGCTTT
66 CCATCAGTCTACCTATCGACCTTGACCTTGGAGACTGCCACATCTAAAGTCTACCGGTCGGCTTT
*
377899 GACCCTAGAGACTGCCTCATCTCAAATCTACCTATTGA
131 GACCCTAGAGACTACCTCATCTCAAATCTACCTATTGA
* * * *
377937 CTTTAACCTTGGAGAC-TTCTTCACCCTTAAGTCTGCTTGTCGGCATTGACCTTGGAGACTTTCT
1 CTTTAACCTTGGAGACTTTCTT-A-CCTTAAGTCTGCCTGTCGGCATTAACCCTAGAGACTTTCT
* * * * * *
378001 TACCTTTAGTCTACCTATCGACTTTGACCTTGGAGACTGCCTCATCTCAAGTCTACCTGTCGGCT
64 TACCATCAGTCTACCTATCGACCTTGACCTTGGAGACTGCCACATCTAAAGTCTACCGGTCGGCT
* * * * * * *
378066 TTGACCCTAGGGACTACCTTATCTTAAGTCTGCCTATCGG
129 TTGACCCTAGAGACTACCTCATCTCAAATCTACCTATTGA
*
378106 CTTTGACCTTAGG-GACTTT-TTACCTT
1 CTTTAACCTT-GGAGACTTTCTTACCTT
378132 TGGTCTGCTA
Statistics
Matches: 163, Mismatches: 28, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
167 9 0.06
168 17 0.10
169 133 0.82
170 4 0.02
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (168 bp):
CTTTAACCTTGGAGACTTTCTTACCTTAAGTCTGCCTGTCGGCATTAACCCTAGAGACTTTCTTA
CCATCAGTCTACCTATCGACCTTGACCTTGGAGACTGCCACATCTAAAGTCTACCGGTCGGCTTT
GACCCTAGAGACTACCTCATCTCAAATCTACCTATTGA
Found at i:378732 original size:31 final size:31
Alignment explanation
Indices: 378694--378755 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
378684 GTCTGCTTGT
378694 CGGCTTTGACCCTGA-AGACTGCATCATCTCA
1 CGGCTTTGA-CCTGAGAGACTGCATCATCTCA
* *
378725 CGGCTTTGACCTTAGAGACTGCCTCATCTCA
1 CGGCTTTGACCTGAGAGACTGCATCATCTCA
378756 AGTCTGCCTG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 4 0.14
31 24 0.86
ACGTcount: A:0.21, C:0.32, G:0.19, T:0.27
Consensus pattern (31 bp):
CGGCTTTGACCTGAGAGACTGCATCATCTCA
Found at i:378785 original size:242 final size:243
Alignment explanation
Indices: 378503--378956 Score: 597
Period size: 242 Copynumber: 1.9 Consensus size: 243
378493 CGTGGAGATG
* * **
378503 GCCTCATCTTATGTCTGCCTGTCGGCTTTAACCATGGAGACTTTCTCACCTTAAGTTTACCTATC
1 GCCTCATCTCAAGTCTGCCTGTCGGCTTTAACCATGGAGACTTTCTCACCTTAAGCCTACCTATC
* ** * * *
378568 GACTTTGACATTGGAGACTTTCTTACCTTCAATCTGCCTGTCGGCTTCAACCTTGGAAACTGGCT
66 GACTTTGACATTAGAGACTGCCTTACCTTCAATCTGCCTGTCAGCTTCAACCTTGGAAACTGCCA
* * * * * *
378633 TATCTCAAGTTTGCCTGTC-AGCTTTGACCCTGGAGAC-TTCTTCACCCTTAAGTCTGCTTGTCG
131 CATCTCAAGTCTGCCTGTCGA-CATTGACCCTAGAGACTTTCTTCACCCTCAAGTCTGCTTATCG
* *
378696 GCTTTGACCCTGAAGACTGCATCATCTCACGGCTTTGACCTTAGAGACT
195 GCTGTGACCCTAAAGACTGCATCATCTCACGGCTTTGACCTTAGAGACT
* * * *
378745 GCCTCATCTCAAGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTCTTACCTTCAGCCTACCTATC
1 GCCTCATCTCAAGTCTGCCTGTCGGCTTTAACCATGGAGACTTTCTCACCTTAAGCCTACCTATC
* * ** * *
378810 GATTTTGACCTTAGAGACTGCCTTACCTTCAATCTGCCTGTCAGCTTTGACCTTGGAGATTGCCA
66 GACTTTGACATTAGAGACTGCCTTACCTTCAATCTGCCTGTCAGCTTCAACCTTGGAAACTGCCA
* **
378875 CATCTTAAGTCTGTTTGTCGACATTGACCCTAGAGACTTTCTTCACCCTCAAGTCTGCTTATCGG
131 CATCTCAAGTCTGCCTGTCGACATTGACCCTAGAGACTTTCTTCACCCTCAAGTCTGCTTATCGG
*
378940 CTGTGACTCTAAAGACT
196 CTGTGACCCTAAAGACT
378957 TTCTTAACTT
Statistics
Matches: 178, Mismatches: 32, Indels: 3
0.84 0.15 0.01
Matches are distributed among these distances:
242 138 0.78
243 40 0.22
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.34
Consensus pattern (243 bp):
GCCTCATCTCAAGTCTGCCTGTCGGCTTTAACCATGGAGACTTTCTCACCTTAAGCCTACCTATC
GACTTTGACATTAGAGACTGCCTTACCTTCAATCTGCCTGTCAGCTTCAACCTTGGAAACTGCCA
CATCTCAAGTCTGCCTGTCGACATTGACCCTAGAGACTTTCTTCACCCTCAAGTCTGCTTATCGG
CTGTGACCCTAAAGACTGCATCATCTCACGGCTTTGACCTTAGAGACT
Found at i:379001 original size:128 final size:127
Alignment explanation
Indices: 378727--379156 Score: 368
Period size: 127 Copynumber: 3.4 Consensus size: 127
378717 TCATCTCACG
* ** * *
378727 GCTTTGACCTTAGAGACTGCCTCATCTCAAGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTCTT
1 GCTTTGACCTTAGAGATTGCCTCATCTCAAGTCTGTTTGTCGGCTTTGACCCTAGAGACTTTCTT
* * * * * * *
378792 ACCTTC-AGCCTACCTATCGATTTTGACCTTAGAGACTGCCTTACCTTCAATCTGCCTGTCA
66 ACCCTCAAGTCTGCCTATCGACTGTGACCTTAAAGACTGCCTTAACTTCAATCTGCCTGTCA
* * * * *
378853 GCTTTGACCTTGGAGATTGCCACATCTTAAGTCTGTTTGTCGACATTGACCCTAGAGACTTTCTT
1 GCTTTGACCTTAGAGATTGCCTCATCTCAAGTCTGTTTGTCGGCTTTGACCCTAGAGACTTTCTT
* * ** *
378918 CACCCTCAAGTCTGCTTATCGGCTGTGA-CTCTAAAGACTTTCTTAACTT-AAGTCTGCTTGTC-
66 -ACCCTCAAGTCTGCCTATCGACTGTGACCT-TAAAGACTGCCTTAACTTCAA-TCTGCCTGTCA
* *
378980 GCCTTTGACCTTAGAGATTGCCTCATCTCAAGTCTGTTTATCGGCTTTGACCCTTGAGAC-TTCT
1 G-CTTTGACCTTAGAGATTGCCTCATCTCAAGTCTGTTTGTCGGCTTTGACCCTAGAGACTTTC-
* * * * * * * ** * * *
379044 TTACCCTTAAGTCTGCCTGT-TAGTTTTGACCCTAAAGATTTTCTTACCTTCAATTTGCCTGTCG
64 TTACCCTCAAGTCTGCCTATCGA-CTGTGACCTTAAAGACTGCCTTAACTTCAATCTGCCTGTCA
* * * * * * * *
379108 GCTTTTACCCTGGAGACTGTCTCATCTTAAGTTTGTTTGTCGACTTTGA
1 GCTTTGACCTTAGAGATTGCCTCATCTCAAGTCTGTTTGTCGGCTTTGA
379157 TCCTGGAAAC
Statistics
Matches: 244, Mismatches: 50, Indels: 19
0.78 0.16 0.06
Matches are distributed among these distances:
126 55 0.23
127 95 0.39
128 94 0.39
ACGTcount: A:0.19, C:0.26, G:0.18, T:0.37
Consensus pattern (127 bp):
GCTTTGACCTTAGAGATTGCCTCATCTCAAGTCTGTTTGTCGGCTTTGACCCTAGAGACTTTCTT
ACCCTCAAGTCTGCCTATCGACTGTGACCTTAAAGACTGCCTTAACTTCAATCTGCCTGTCA
Found at i:379494 original size:169 final size:169
Alignment explanation
Indices: 379284--379636 Score: 433
Period size: 169 Copynumber: 2.1 Consensus size: 169
379274 CGGCTTTGGT
* * * *
379284 CCTAGA-ACTGCCTCATCTTAAGTCTGCCCGTCTGCTTTGACCTTGCAGAGTTCTTCACCCTTAA
1 CCTAGAGACTGCCTCACCTTAAGTCTGCCCATCGGCTTTGACCTTGCAGACTTCTTCACCCTTAA
* * * * *
379348 GTTTGCTTATCGGATTTGACTTTTGAGAC-TTTCTGACCTTCAGTCTACCTG-TCAACTTTGACC
66 GTCTGCTTATCGGATTTGACCTTGGAGACATTT-TGACCTTCAATCTACCTGAT-AACTTTGACA
* * * *
379411 CCAAAAACTGCCTCATCTCAAGTCTACTTGTTGGTTTTGAC
129 CCAAAAACTACCTCATCTCAAGTCTACCTGTCGATTTTGAC
* * *
379452 CCTAGAGACTGCCTTACCTTAAGTCTGCCTATCGGCTTTGACCTTGGAGACTTCTTCACCCTTAA
1 CCTAGAGACTGCCTCACCTTAAGTCTGCCCATCGGCTTTGACCTTGCAGACTTCTTCACCCTTAA
* * * * * * *
379517 GTCTGTTTGTCGGCTTTGACCTTGGAGACATTTTTACCTTCAATCTGCCTGATAGCTTTGACACT
66 GTCTGCTTATCGGATTTGACCTTGGAGACATTTTGACCTTCAATCTACCTGATAACTTTGACACC
* * *
379582 AGAGACTACCTCATCTCAAGTCTGCCTGTCGATTTTGAC
131 AAAAACTACCTCATCTCAAGTCTACCTGTCGATTTTGAC
379621 CCTAGAGACTGCCTCA
1 CCTAGAGACTGCCTCA
379637 TCTATCAACT
Statistics
Matches: 155, Mismatches: 27, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
168 6 0.04
169 145 0.94
170 4 0.03
ACGTcount: A:0.20, C:0.28, G:0.17, T:0.35
Consensus pattern (169 bp):
CCTAGAGACTGCCTCACCTTAAGTCTGCCCATCGGCTTTGACCTTGCAGACTTCTTCACCCTTAA
GTCTGCTTATCGGATTTGACCTTGGAGACATTTTGACCTTCAATCTACCTGATAACTTTGACACC
AAAAACTACCTCATCTCAAGTCTACCTGTCGATTTTGAC
Found at i:380379 original size:127 final size:127
Alignment explanation
Indices: 380248--380482 Score: 265
Period size: 127 Copynumber: 1.9 Consensus size: 127
380238 ACTTTCTTTG
* * * * ** **
380248 CCCTTAAGTTTGCCTCTTAGCTGTGACCCTAAAAACTTTCTTACCTT-AAGTCTGTCTGTCGGCT
1 CCCTTAAGTCTACCTCTCAGCTGTGACCATAAAAACTTTCTTACCTTGAAGT-TACCTGTCGAAT
*
380312 TTAACCCGATAGACTGCCTCATCTCAAGTCTACCTATCGGCTTTTATGTTGGAGACTTGTTCA
65 TTAACCCGAGAGACTGCCTCATCTCAAGTCTACCTATCGGCTTTTATGTTGGAGACTTGTTCA
* * * * ** *
380375 CCCTTCAGTCTACTTGTCAGCTTTGACCATGGAAACTTTCTTACCTTGAGGTTACCTGTCGAATT
1 CCCTTAAGTCTACCTCTCAGCTGTGACCATAAAAACTTTCTTACCTTGAAGTTACCTGTCGAATT
* * * * *
380440 TGACCCTAGAGACTGCCTCATCTTAAGTCTCCCTATCTGCTTT
66 TAACCCGAGAGACTGCCTCATCTCAAGTCTACCTATCGGCTTT
380483 GACCTTGAAA
Statistics
Matches: 86, Mismatches: 21, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
127 83 0.97
128 3 0.03
ACGTcount: A:0.20, C:0.28, G:0.16, T:0.36
Consensus pattern (127 bp):
CCCTTAAGTCTACCTCTCAGCTGTGACCATAAAAACTTTCTTACCTTGAAGTTACCTGTCGAATT
TAACCCGAGAGACTGCCTCATCTCAAGTCTACCTATCGGCTTTTATGTTGGAGACTTGTTCA
Found at i:380748 original size:127 final size:126
Alignment explanation
Indices: 380501--384247 Score: 1648
Period size: 127 Copynumber: 29.5 Consensus size: 126
380491 AAACTGCCTT
* * * * *
380501 ATCTTAAGTCTGCTTGTCGACTTTGACCCTAGAGACTT-TCTAACCTTAAGTCTACCTATCGGCT
1 ATCTCAAGTCTGCTTGTCGGCTTTGACCCTAGAGACTTCT-TCACCTTAAGTCTGCCTGTCGGCT
* * * * * * * * * *
380565 TTGATCTTGGAGATTTTTTTACCTTCAATCGGCCTGTCGACTTTGA-CCTTGAAGACTGTCTC
65 TTGACCCTAGAGACTTTCTTACCTTCAGTCTGCCTGTCGGCTTTGACCCTAG-AGACTATCTC
* * * * *
380627 ATCTCAAGTCTGCTTGTCAGCTTTGACCTTAGAGACTTCTTCACCCTTAAGTCTACCTGTCAGTT
1 ATCTCAAGTCTGCTTGTCGGCTTTGACCCTAGAGACTTCTTCA-CCTTAAGTCTGCCTGTCGGCT
* * *
380692 TTAACCCTAGAGACTTTCTTACCTTCAGGCTGCCTGTTGGCTTTGACCCTAGAGACT-TCATC
65 TTGACCCTAGAGACTTTCTTACCTTCAGTCTGCCTGTCGGCTTTGACCCTAGAGACTATC-TC
** * * * * *
380754 GCCCTTAAATCTACTTGTCGGCTTTGACCCTAGAGATTTTCTT-ACCTTAAGTCTGCCTATCGGC
1 -ATCTCAAGTCTGCTTGTCGGCTTTGACCCTAGAGA-CTTCTTCACCTTAAGTCTGCCTGTCGGC
* ** * * * * * * *
380818 TTGAGACCCTAGAGACTACCTCATC-TCAAGTCTACCTGTCAGTTTTGACCCTGGAGA-TCTCTT
64 TT-TGACCCTAGAGACTTTCTTACCTTC-AGTCTGCCTGTCGGCTTTGACCCTAGAGACTATC-T
380881 C
126 C
* * * * * ** * * **
380882 ACCCTTAAGTCTACCTATCAACTTTGACCCTAGAGACTTCCTCATCTTAAGACTTTTTCACCCTT
1 A-TCTCAAGTCTGCTTGTCGGCTTTGACCCTAGAGACTTCTTCACCTTAAG------TCTGCC-T
** * * * * *
380947 AAGTCTACCTGTCGGCTTTGACCCTGGAGACTTTTTTACCTTCAATCTGCCTGTCGGCTTTCACC
58 --G--T--C-G--GCTTTG-ACCCTAGAGACTTTCTTACCTTCAGTCTGCCTGTCGGCTTTGACC
* * *
381012 CAAGAGACTACCTT
113 CTAGAGACTATCTC
* ** * * ***
381026 ATCTCAAGTATGCTTGTCGGCTTTGACTTTGGAGACTTCTTCACCCTTAAGTCTGCCTATTAACT
1 ATCTCAAGTCTGCTTGTCGGCTTTGACCCTAGAGACTTCTTCA-CCTTAAGTCTGCCTGTCGGCT
* * * * * * * * **
381091 TTGA-CCTCGGAGACTTTTTTACCTTAAGTCTGCCTATCGACTTTGTCCTTGGAGACTGCCTC
65 TTGACCCT-AGAGACTTTCTTACCTTCAGTCTGCCTGTCGGCTTTGACCCTAGAGACTATCTC
* * * * *
381153 ATCTCAAGTCTG-TCTGTCGGCTTTGACCTTAGAGACTTCTTCATCCTTAAGTTTACCTATCGAC
1 ATCTCAAGTCTGCT-TGTCGGCTTTGACCCTAGAGACTTCTTCA-CCTTAAGTCTGCCTGTCGGC
* * * * * * * *
381217 TTTGACCCTGGAAAC-TTCTTTACCCTTAAGTCTACTTGTCGACTTTGACCCTAGAGACTTTCTT
64 TTTGACCCTAGAGACTTTC-TTA-CCTTCAGTCTGCCTGTCGGCTTTGACCCTAGAGACTATCTC
* * * * * * * * * * *
381281 ACTTTCAA-TCTACCTGTCAGCTTTGACCCTAGAGACTACCTCATCTCAAGTCTGTCTCTCGACT
1 A-TCTCAAGTCTGCTTGTCGGCTTTGACCCTAGAGACTTCTTCACCTTAAGTCTGCCTGTCGGCT
* * * ** * ** * * **
381345 TTGA-CCTAGGAGACTTTTTTACCTTAAGTCTACAAGTCGACTTTGACTTTGGAAACTGCCTC
65 TTGACCCTA-GAGACTTTCTTACCTTCAGTCTGCCTGTCGGCTTTGACCCTAGAGACTATCTC
* * * * * * ** *
381407 ATCTCAAGTTTGCCTGTTGGTTTTAACCCTAGAGACTTCTTTACCCTTAAGTCTATCTGTCGACT
1 ATCTCAAGTCTGCTTGTCGGCTTTGACCCTAGAGACTTCTTCA-CCTTAAGTCTGCCTGTCGGCT
* * * * * **** * * *
381472 TTAACCCTGGAGAC-TTCTTCACCTTTAAATTTGCCTGTTAAATTTGACCCTAGAGATTTTCTT
65 TTGACCCTAGAGACTTTCTT-ACC-TTCAGTCTGCCTGTCGGCTTTGACCCTAGAGACTATCTC
* ** * * * * **
381535 ACCTTTAGTCTGCTTGTCAGCTTTGACCCT-GAAGACTACCTCATCTTAAGTCTG-CTGTCAACT
1 ATCTCAAGTCTGCTTGTCGGCTTTGACCCTAG-AGACTTCTTCACCTTAAGTCTGCCTGTCGGCT
* * *
381598 TTGACCCTAGAGAC-TTCTT--CTT-A---------TCAGCTTTGA-CCTTGAAGACTACCTC
65 TTGACCCTAGAGACTTTCTTACCTTCAGTCTGCCTGTCGGCTTTGACCCTAG-AGACTATCTC
* * * * * **
381647 ATCTCAAGTCTG-TCTGTCAGCTTTGACCTTGGAGACTTC-TCTACCCTTAAGTCTACCTATAAG
1 ATCTCAAGTCTGCT-TGTCGGCTTTGACCCTAGAGACTTCTTC-A-CCTTAAGTCTGCCTGTCGG
** * * ** * *
381710 CTTTGACCCTAGAGACTTTCTTAATTTCAATTTGCCTGTTAGCTTTGACCCTGGAGACTACCTC
63 CTTTGACCCTAGAGACTTTCTTACCTTCAGTCTGCCTGTCGGCTTTGACCCTAGAGACTATCTC
* * * * * *
381774 ACCTCAAGTCTACTTATCGGCTTTGACCTTGGAGACATTCTTCACCCTTAAGTCCGCCTGTCGG-
1 ATCTCAAGTCTGCTTGTCGGCTTTGACCCTAGAGAC-TTCTTCA-CCTTAAGTCTGCCTGTCGGC
* * * * * * *
381838 TTGTGACCCTAAAGATTTTCTTTCCTT-ATGTCTGCCTGTTGGCTTTAACCCTAGAGACTAACTA
64 TT-TGACCCTAGAGACTTTCTTACCTTCA-GTCTGCCTGTCGGCTTTGACCCTAGAGACTATCTC
* * * * * * * * * *
381902 ATCTGAAGTCTGCCTATCGGCTTTGACCCTGGACACTTTTTTACTTTTAGTTTGCCTGTCGGCTT
1 ATCTCAAGTCTGCTTGTCGGCTTTGACCCTAGAGACTTCTTCACCTTAAGTCTGCCTGTCGGCTT
* * * * * * * *
381967 TAACCCT-G-GACTTT-TTCACCCTTAAGTCTACCTCTTGGCTTTAACCCTAGAGACTTTCTT
66 TGACCCTAGAGACTTTCTT-A-CCTTCAGTCTGCCTGTCGGCTTTGACCCTAGAGACTATCTC
* * * * * * * * * *
382027 ACCTTCAA-TATGCCTGTCGGCTTTAACCTTGGAGACTACCTT-ATCTCAAGTCTGCCTGTCAGC
1 ATC-TCAAGTCTGCTTGTCGGCTTTGACCCTAGAGACT-TCTTCACCTTAAGTCTGCCTGTCGGC
* * * * * * *
382090 TTTGA-CCTTGCAGACTTTCTTACCTTAAGTCTGCTTGTCGTCTTTGACCTTGGAGACTACCTC
64 TTTGACCCTAG-AGACTTTCTTACCTTCAGTCTGCCTGTCGGCTTTGACCCTAGAGACTATCTC
* * * * *
382153 ATCTCAAGTCTGCCTATCGGCTTTGACCCTTGAGACTTCTTCACCTTTAAGTCTGCCTATCGGTT
1 ATCTCAAGTCTGCTTGTCGGCTTTGACCCTAGAGACTTCTTCACC-TTAAGTCTGCCTGTCGGCT
* * * * * * *
382218 TTGACCTTGGAAACTTTCTTACCTTCAGTCTTCCTATCGGCTTTGACCCTAGAGACTTTCTT
65 TTGACCCTAGAGACTTTCTTACCTTCAGTCTGCCTGTCGGCTTTGACCCTAGAGACTATCTC
* * ** * * * * * **
382280 ACTTTCAA-TCTGCTTGTCGGCCTTGACTTTGGAGACTGCCTT-ATCTCT-AGTGTGCTTGTCAA
1 A-TCTCAAGTCTGCTTGTCGGCTTTGACCCTAGAGACT-TCTTCACCT-TAAGTCTGCCTGTCGG
** * * * * * * * * *
382342 CTTTGACCCTAGAGACTGCCTCATCTTAAGTCTTCCTATCAGCTTTGACCTTGGAGACT-TGTTC
63 CTTTGACCCTAGAGACTTTCTTACCTTCAGTCTGCCTGTCGGCTTTGACCCTAGAGACTAT-CTC
* * * * * * * * **
382406 ACCCTTAAGTCTACTTGTCGGCTTTGACCTTGGAAACTTTCTT-A-CTTCAGGT-TGCCTATCAT
1 A-TCTCAAGTCTGCTTGTCGGCTTTGACCCTAGAGAC-TTCTTCACCTT-AAGTCTGCCTGTCGG
* * * * * * * * * * *
382468 CTTTGACCTTAGA-AATTGCCT-CATATCAAGTCTACCTCTCGGCTTTGACCTTAAAAACTACCT
63 CTTTGACCCTAGAGACTTTCTTACCT-TC-AGTCTGCCTGTCGGCTTTGACCCTAGAGACTATCT
382531 C
126 C
* * * * * *
382532 ATCTTAAGTCTG-TCAGTTGGCTTTGACCCTAGAGACTT-TCTAACCTTAAGTCTACCTATCGGC
1 ATCTCAAGTCTGCT-TGTCGGCTTTGACCCTAGAGACTTCT-TCACCTTAAGTCTGCCTGTCGGC
*** * * * * * * * * **
382595 TTTGATTTTGGAGAATTTCTTACCTTCAGTCTGTCTATCAGCTTTAACCTTGGAGACTGCCTC
64 TTTGACCCTAGAGACTTTCTTACCTTCAGTCTGCCTGTCGGCTTTGACCCTAGAGACTATCTC
* * * * * *
382658 ATCTCAAGTCTGCTTGTCAGCTTTGACCTTGGAGATTTCTTCACCTTTAAGTCTGCCTATCGACT
1 ATCTCAAGTCTGCTTGTCGGCTTTGACCCTAGAGACTTCTTCACC-TTAAGTCTGCCTGTCGGCT
* *
382723 TTGACCCTCA-AGACTTTCTTACCTTCAGTCTACCTGTCGGCTTTGACCCTAGAGACTACCTC
65 TTGACCCT-AGAGACTTTCTTACCTTCAGTCTGCCTGTCGGCTTTGACCCTAGAGACTATCTC
* * * * **
382785 ATCTCAAGTCTGCCTATCAGCTTTGACCCTAGAAACTTCTTCACCCTTAAGTCTGCCTGTCAACT
1 ATCTCAAGTCTGCTTGTCGGCTTTGACCCTAGAGACTTCTTCA-CCTTAAGTCTGCCTGTCGGCT
* * ** * * * * * * * *
382850 TTGACCGTGGAGACTACCTCATC-TCAAGTTTGCCTATCGGTTTTGACCTTAAAGACT-TCTTT
65 TTGACCCTAGAGACTTTCTTACCTTC-AGTCTGCCTGTCGGCTTTGACCCTAGAGACTATC-TC
* * * * * * * * *
382912 ACCCTTAAGTCTGCTTGTCGGCTTTGACCCTGGAGATTTTCTT-ACCTTAAGTTTACTTATTGGC
1 A-TCTCAAGTCTGCTTGTCGGCTTTGACCCTAGAGA-CTTCTTCACCTTAAGTCTGCCTGTCGGC
* * * * ** * * * *
382976 TTTAACCTTAGAGACTTTCTTACCTTAAATCTGGTTGTCGGCTTTAACCCTAAAGACTTTCTT
64 TTTGACCCTAGAGACTTTCTTACCTTCAGTCTGCCTGTCGGCTTTGACCCTAGAGACTATCTC
* * * * * * * * *
383039 ACCTTCAA-TTTGCATATCGGCCTTGACCCTAGAGACTACCTT-ATCTTAAGTGTGCCTGTCGAC
1 ATC-TCAAGTCTGCTTGTCGGCTTTGACCCTAGAGACT-TCTTCACCTTAAGTCTGCCTGTCGGC
** * * * * * *
383102 TTTGACCCTAGAGACTGCCTCATC-TCAAGTCAGCCTGTCGGCTTGGACCCTGGAGACTTAT-TT
64 TTTGACCCTAGAGACTTTCTTACCTTC-AGTCTGCCTGTCGGCTTTGACCCTAGAGAC-TATCTC
* * * * * * * * **
383165 ACCCTTAAGTCTTCCTGTCGGCTTTGACCTTGGAGACTTTCTT-ACCTTCAA-TTTGCCTATCAA
1 A-TCTCAAGTCTGCTTGTCGGCTTTGACCCTAGAGAC-TTCTTCACCTT-AAGTCTGCCTGTCGG
** * * ** * * * * * **
383228 CTTTGACTTTGGACACTACCTCATC-TCAAGTCTGCCTATCGGCTTTGATCCTAGGGACTGCCTC
63 CTTTGACCCTAGAGACTTTCTTACCTTC-AGTCTGCCTGTCGGCTTTGACCCTAGAGACTATCTC
* * * *
383292 ATCTCAAGTCTG-TCTGTCAGCTTTAACCTTAGAGACTTCTTCACCCTTAAGTCTG-CTAATCGG
1 ATCTCAAGTCTGCT-TGTCGGCTTTGACCCTAGAGACTTCTTCA-CCTTAAGTCTGCCT-GTCGG
* * * * * *
383355 CTTTGACCCTGGAGACTTTCTTACGTTTAGTCTGCTTGTTGGCTTTGACCCT-GAAGACTACCTC
63 CTTTGACCCTAGAGACTTTCTTACCTTCAGTCTGCCTGTCGGCTTTGACCCTAG-AGACTATCTC
* * * * * * *
383419 ATCTCAATTCTCCCTGTCAGCTTTGACCTTAGAGACTTCTTCACCCTTAATTCTGCTTGTCGGCT
1 ATCTCAAGTCTGCTTGTCGGCTTTGACCCTAGAGACTTCTTCA-CCTTAAGTCTGCCTGTCGGCT
* * * * * * *
383484 TTGACCCTAGAGACTTTTTTACCTTAAGTCTACTTGTCGACTTTGA-CCTTGAAGACT-TCTTA
65 TTGACCCTAGAGACTTTCTTACCTTCAGTCTGCCTGTCGGCTTTGACCCTAG-AGACTATC-TC
* * * * * * * * *
383546 ACCCTTAAGTCTACTTGTCGGCTTTGACCCTAGGAGACTTTTTTATCTTCAGTCTGCGTGTCGGA
1 A-TCTCAAGTCTGCTTGTCGGCTTTGACCCTA-GAGACTTCTTCACCTTAAGTCTGCCTGTCGGC
* * ** * * * * *
383611 TTTGACCTTGGAGACTGCCTCATC-TCAAGTCTGCCTATTGGCTTTGACCTTAGAGACT-TCTTC
64 TTTGACCCTAGAGACTTTCTTACCTTC-AGTCTGCCTGTCGGCTTTGACCCTAGAGACTATC-TC
** * * * *
383674 ATCCTTGAGTCTGCTTGTCAGCTTGGACCCTGGAGACTTTCTT-ACCTTAAGTCTGCCTGTTGGC
1 AT-CTCAAGTCTGCTTGTCGGCTTTGACCCTAGAGAC-TTCTTCACCTTAAGTCTGCCTGTCGGC
* * * * *
383738 TTTGACCCTGGAGACTTTCTTACCTTCAGTCTGCATGTCGGCTTTGACCTTGGAGACTACCTC
64 TTTGACCCTAGAGACTTTCTTACCTTCAGTCTGCCTGTCGGCTTTGACCCTAGAGACTATCTC
* * * * * ** * * * * * **
383801 ATCTTAAATTTGCCTATCGATTTTGACCCTGGAGACTTTTTTATCTTCAGTCTGCCTGTCGAATT
1 ATCTCAAGTCTGCTTGTCGGCTTTGACCCTAGAGACTTCTTCACCTTAAGTCTGCCTGTCGGCTT
* * ** * * * * *
383866 TGACCTTGGAGACTGCCTCATC-TCAAGTCTGCCTATTGGCTTTGACCTTAGAGACT-TCTTC
66 TGACCCTAGAGACTTTCTTACCTTC-AGTCTGCCTGTCGGCTTTGACCCTAGAGACTATC-TC
** * * * * * *
383927 ATCCTTGAGTCTGCTTGTCAGCTTTGACCTTGGAGATTTCTTCACCTTTAAGTCTGCCTATCGAC
1 AT-CTCAAGTCTGCTTGTCGGCTTTGACCCTAGAGACTTCTTCACC-TTAAGTCTGCCTGTCGGC
* * * *
383992 TTTGACCCTCA-AGACTTTCTTACCTTAAGTCTGCCTGTCAGCTTTGACCCTAGAGACTTTCTT
64 TTTGACCCT-AGAGACTTTCTTACCTTCAGTCTGCCTGTCGGCTTTGACCCTAGAGACTATCTC
* * * * * * * * * * *
384055 ACCTTC-AGTCTGCCTGTCGGTTTTGACCATGGAGACTGCCTCATCTCAAGTCTGCCTGTCGACG
1 ATC-TCAAGTCTGCTTGTCGGCTTTGACCCTAGAGACTTCTTCACCTTAAGTCTGCCTGTCGGCT
** * * * * * *
384119 TTGACGTTAGAGACTTT-TTCACCCTTAAGTCTACCTATCAGCTTTAACCCTGGAGACTTAT-TC
65 TTGACCCTAGAGACTTTCTT-A-CCTTCAGTCTGCCTGTCGGCTTTGACCCTAGAGAC-TATCTC
* * * * * * * * * ** * *
384182 ACCCTTAAGTCTGCCTGCCAGCTTTGACCTTCGAGACTACCTCGTCTTAAGTTTGCCCGTCGGCT
1 A-TCTCAAGTCTGCTTGTCGGCTTTGACCCTAGAGACTTCTTCACCTTAAGTCTGCCTGTCGGCT
384247 T
65 T
384248 AGACTCCAAA
Statistics
Matches: 2747, Mismatches: 716, Indels: 314
0.73 0.19 0.08
Matches are distributed among these distances:
111 7 0.00
112 44 0.02
113 10 0.00
114 20 0.01
115 5 0.00
117 2 0.00
118 1 0.00
121 1 0.00
122 2 0.00
123 4 0.00
124 13 0.00
125 145 0.05
126 661 0.24
127 1091 0.40
128 614 0.22
129 33 0.01
133 1 0.00
134 4 0.00
135 1 0.00
137 1 0.00
138 4 0.00
139 1 0.00
141 1 0.00
142 1 0.00
143 30 0.01
144 46 0.02
145 4 0.00
ACGTcount: A:0.20, C:0.27, G:0.17, T:0.36
Consensus pattern (126 bp):
ATCTCAAGTCTGCTTGTCGGCTTTGACCCTAGAGACTTCTTCACCTTAAGTCTGCCTGTCGGCTT
TGACCCTAGAGACTTTCTTACCTTCAGTCTGCCTGTCGGCTTTGACCCTAGAGACTATCTC
Found at i:380925 original size:85 final size:84
Alignment explanation
Indices: 380271--380932 Score: 336
Period size: 85 Copynumber: 7.8 Consensus size: 84
380261 CTCTTAGCTG
* * * * * * * * *
380271 TGACCCTAAAAACTTTCTTACCTTAAGTCTGTCTGTCGGCTTTAACCCGATAGACTGCCTCATCT
1 TGACCCTAGAGACTTTCTTACCTTAAGTCTGCCTATCGGCTTTGACCCTAGAGACTTCCTCACCT
* * *
380336 CAAGTCTACCTATCGGCTTT
66 TAAGTCTACCTGTCAG-TTT
*** * * * * * * * * * * * *
380356 T-ATGTTGGAGACTTGT-TCACCCTTCAGTCTACTTGTCAGCTTTGACCATGGAAACTTTCTTAC
1 TGACCCTAGAGACTT-TCTTA-CCTTAAGTCTGCCTATCGGCTTTGACCCTAGAGACTTCCTCAC
* *
380419 CTTGAGGT-TACCTGTC-GAATT
64 CTT-AAGTCTACCTGTCAG-TTT
** * * * * * * * * *
380440 TGACCCTAGAGACTGCCTCATCTTAAGTCTCCCTATCTGCTTTGA-CCTTGAAAACTGCCTTATC
1 TGACCCTAGAGACTTTCTTACCTTAAGTCTGCCTATCGGCTTTGACCCTAG-AGACTTCCTCACC
* * *
380504 TTAAGTCTGCTTGTC-GACTT
65 TTAAGTCTACCTGTCAG-TTT
* * * * * * ** *
380524 TGACCCTAGAGACTTTCTAACCTTAAGTCTACCTATCGGCTTTGATCTTGGAGATTTTTTTACCT
1 TGACCCTAGAGACTTTCTTACCTTAAGTCTGCCTATCGGCTTTGACCCTAGAGACTTCCTCACCT
** *
380589 TCAA-TCGGCCTGTC-GACTT
66 T-AAGTCTACCTGTCAG-TTT
* * * * * * * * * *
380608 TGA-CCTTGAAGACTGTCTCATCTCAAGTCTGCTTGTCAGCTTTGACCTTAGAGACTTCTTCACC
1 TGACCCTAG-AGACTTTCTTACCTTAAGTCTGCCTATCGGCTTTGACCCTAGAGACTTCCTCA-C
380672 CTTAAGTCTACCTGTCAGTTT
64 CTTAAGTCTACCTGTCAGTTT
* * * * * * *
380693 TAACCCTAGAGACTTTCTTACCTTCAGGCTGCCTGTTGGCTTTGACCCTAGAGACTTCATCGCCC
1 TGACCCTAGAGACTTTCTTACCTTAAGTCTGCCTATCGGCTTTGACCCTAGAGACTTCCTC-ACC
* * * *
380758 TTAAATCTACTTGTCGGCTT
65 TTAAGTCTACCTGTCAGTTT
* * * *
380778 TGACCCTAGAGATTTTCTTACCTTAAGTCTGCCTATCGGCTTGAGACCCTAGAGACTACCTCATC
1 TGACCCTAGAGACTTTCTTACCTTAAGTCTGCCTATCGGCTT-TGACCCTAGAGACTTCCTCACC
*
380843 TCAAGTCTACCTGTCAGTTT
65 TTAAGTCTACCTGTCAGTTT
* * * ** *
380863 TGACCCTGGAGA-TCTCTTCACCCTTAAGTCTACCTATCAACTTTGACCCTAGAGACTTCCTCAT
1 TGACCCTAGAGACTTTCTT-A-CCTTAAGTCTGCCTATCGGCTTTGACCCTAGAGACTTCCTCAC
380927 CTTAAG
64 CTTAAG
380933 ACTTTTTCAC
Statistics
Matches: 436, Mismatches: 123, Indels: 36
0.73 0.21 0.06
Matches are distributed among these distances:
83 10 0.02
84 165 0.38
85 218 0.50
86 43 0.10
ACGTcount: A:0.21, C:0.28, G:0.16, T:0.35
Consensus pattern (84 bp):
TGACCCTAGAGACTTTCTTACCTTAAGTCTGCCTATCGGCTTTGACCCTAGAGACTTCCTCACCT
TAAGTCTACCTGTCAGTTT
Found at i:381094 original size:43 final size:42
Alignment explanation
Indices: 380931--384219 Score: 988
Period size: 42 Copynumber: 78.1 Consensus size: 42
380921 CCTCATCTTA
* * * * *
380931 AGACTTTTTCACCCTTAAGTCTACCTGTCGGCTTTGACCCTGG
1 AGACTTCTTCA-CCTTAAGTCTGCCTATCGACTTTGACCTTGG
* * * * * ***
380974 AGACTTTTTTACCTTCAA-TCTGCCTGTCGGCTTTCACCCAAG
1 AGACTTCTTCACCTT-AAGTCTGCCTATCGACTTTGACCTTGG
* * * * * * * *
381016 AGACTACCTT-ATCTCAAGTATGCTTGTCGGCTTTGACTTTGG
1 AGACT-TCTTCACCTTAAGTCTGCCTATCGACTTTGACCTTGG
** *
381058 AGACTTCTTCACCCTTAAGTCTGCCTATTAACTTTGACCTCGG
1 AGACTTCTTCA-CCTTAAGTCTGCCTATCGACTTTGACCTTGG
* * *
381101 AGACTTTTTTACCTTAAGTCTGCCTATCGACTTTGTCCTTGG
1 AGACTTCTTCACCTTAAGTCTGCCTATCGACTTTGACCTTGG
* * * * * * * *
381143 AGACTGCCTCATCTCAAGTCTGTCTGTCGGCTTTGACCTTAG
1 AGACTTCTTCACCTTAAGTCTGCCTATCGACTTTGACCTTGG
* * *
381185 AGACTTCTTCATCCTTAAGTTTACCTATCGACTTTGACCCTGG
1 AGACTTCTTCA-CCTTAAGTCTGCCTATCGACTTTGACCTTGG
* * * * * * *
381228 AAACTTCTTTACCCTTAAGTCTACTTGTCGACTTTGACCCTAG
1 AGACTTCTTCA-CCTTAAGTCTGCCTATCGACTTTGACCTTGG
* * * * *
381271 AGACTTTCTT-ACTTTCAA-TCTACCTGTC-AGCTTTGACCCTAG
1 AGAC-TTCTTCACCTT-AAGTCTGCCTATCGA-CTTTGACCTTGG
* * * * * * *
381313 AGACTACCTCATCTCAAGTCTGTCTCTCGACTTTGACCTAGG
1 AGACTTCTTCACCTTAAGTCTGCCTATCGACTTTGACCTTGG
* * * * *
381355 AGACTTTTTTACCTTAAGTCT-ACAAGTCGACTTTGACTTTGG
1 AGACTTCTTCACCTTAAGTCTGCCTA-TCGACTTTGACCTTGG
* * * * * * * * ** * * *
381397 AAACTGCCTCATCTCAAGTTTGCCTGTTGGTTTTAACCCTAG
1 AGACTTCTTCACCTTAAGTCTGCCTATCGACTTTGACCTTGG
* ** * * *
381439 AGACTTCTTTACCCTTAAGTCTATCTGTCGACTTTAACCCTGG
1 AGACTTCTTCA-CCTTAAGTCTGCCTATCGACTTTGACCTTGG
* * * ** * * *
381482 AGACTTCTTCACCTTTAAATTTGCCTGTTAAATTTGACCCTAG
1 AGACTTCTTCACC-TTAAGTCTGCCTATCGACTTTGACCTTGG
* * * * * *
381525 AGATTTTCTT-ACCTTTAGTCTGCTTGTC-AGCTTTGACCCTGA
1 AGA-CTTCTTCACCTTAAGTCTGCCTATCGA-CTTTGACCTTGG
* * * * * * *
381567 AGACTACCTCATCTTAAGTCTG-CTGTCAACTTTGACCCTAG
1 AGACTTCTTCACCTTAAGTCTGCCTATCGACTTTGACCTTGG
* * * *
381608 AGACTTCTT---CTT-A-TCAG-CT-TTGACCTTGA----AG
1 AGACTTCTTCACCTTAAGTCTGCCTATCGACTTTGACCTTGG
* * ** * * *
381639 ACTACCTCATCTCAAGTCT--GTCTGTCAGCT-TTGACCTTGGAGACTT--
1 A-GACTTC-T-TCACCT-TAAGTCTG-C--CTATCGA-CTTTGA-CCTTGG
* * * * *
381685 ---C-TCTAC-CCTTAAGTCTACCTAT-AAGCTTTGACCCTAG
1 AGACTTCTTCACCTTAAGTCTGCCTATCGA-CTTTGACCTTGG
** * * * *
381722 AGACTTTCTT-AATTTCAA-TTTGCCTGT-TAGCTTTGACCCTGG
1 AGAC-TTCTTCACCTT-AAGTCTGCCTATCGA-CTTTGACCTTGG
* * * * * *
381764 AGACTACCTCACCTCAAGTCTACTTATCGGCTTTGACCTTGG
1 AGACTTCTTCACCTTAAGTCTGCCTATCGACTTTGACCTTGG
* * * * **
381806 AGACATTCTTCACCCTTAAGTCCGCCTGTCG-GTTGTGACCCTAA
1 AGAC-TTCTTCA-CCTTAAGTCTGCCTATCGACTT-TGACCTTGG
* * * * * * * * *
381850 AGATTTTCTT-TCCTTATGTCTGCCTGTTGGCTTTAACCCTAG
1 AGA-CTTCTTCACCTTAAGTCTGCCTATCGACTTTGACCTTGG
* * * * * *
381892 AGACTAAC-TAATCTGAAGTCTGCCTATCGGCTTTGACCCTGG
1 AGACT-TCTTCACCTTAAGTCTGCCTATCGACTTTGACCTTGG
* * * * * * * * * *
381934 ACACTTTTTTACTTTTAGTTTGCCTGTCGGCTTTAACCCT-G
1 AGACTTCTTCACCTTAAGTCTGCCTATCGACTTTGACCTTGG
* * * * * * * *
381975 -GACTTTTTCACCCTTAAGTCTACCTCTTGGCTTTAACCCTAG
1 AGACTTCTTCA-CCTTAAGTCTGCCTATCGACTTTGACCTTGG
* * * *
382017 AGACTTTCTT-ACCTTCAA-TATGCCTGTCGGCTTTAACCTTGG
1 AGAC-TTCTTCACCTT-AAGTCTGCCTATCGACTTTGACCTTGG
* * * * *
382059 AGACTACCTT-ATCTCAAGTCTGCCTGTC-AGCTTTGACCTTGC
1 AGACT-TCTTCACCTTAAGTCTGCCTATCGA-CTTTGACCTTGG
* * *
382101 AGACTTTCTT-ACCTTAAGTCTGCTTGTCGTCTTTGACCTTGG
1 AGAC-TTCTTCACCTTAAGTCTGCCTATCGACTTTGACCTTGG
* * * * *
382143 AGACTACCTCATCTCAAGTCTGCCTATCGGCTTTGACCCTT-G
1 AGACTTCTTCACCTTAAGTCTGCCTATCGACTTTGA-CCTTGG
**
382185 AGACTTCTTCACCTTTAAGTCTGCCTATCGGTTTTGACCTTGG
1 AGACTTCTTCACC-TTAAGTCTGCCTATCGACTTTGACCTTGG
* * * * * *
382228 AAACTTTCTT-ACCTTCAGTCTTCCTATCGGCTTTGACCCTAG
1 AGAC-TTCTTCACCTTAAGTCTGCCTATCGACTTTGACCTTGG
* * * * * *
382270 AGACTTTCTT-ACTTTCAA-TCTGCTTGTCGGCCTTGACTTTGG
1 AGAC-TTCTTCACCTT-AAGTCTGCCTATCGACTTTGACCTTGG
* * * * * * * *
382312 AGACTGCCTT-ATCTCT-AGTGTGCTTGTCAACTTTGACCCTAG
1 AGACT-TCTTCACCT-TAAGTCTGCCTATCGACTTTGACCTTGG
* * * *
382354 AGACTGCCTCATCTTAAGTCTTCCTATC-AGCTTTGACCTTGG
1 AGACTTCTTCACCTTAAGTCTGCCTATCGA-CTTTGACCTTGG
* * * * *
382396 AGACTTGTTCACCCTTAAGTCTACTTGTCGGCTTTGACCTTGG
1 AGACTTCTTCA-CCTTAAGTCTGCCTATCGACTTTGACCTTGG
* * *
382439 AAACTTTCTT-A-CTTCAGGT-TGCCTATC-ATCTTTGACCTTAG
1 AGAC-TTCTTCACCTT-AAGTCTGCCTATCGA-CTTTGACCTTGG
* * ** * * * * **
382480 A-AATTGCCTCATATCAAGTCTACCTCTCGGCTTTGACCTTAA
1 AGACTT-CTTCACCTTAAGTCTGCCTATCGACTTTGACCTTGG
* * * * * * * * *
382522 AAACTACCTCATCTTAAGTCTGTC-AGTTGGCTTTGACCCTAG
1 AGACTTCTTCACCTTAAGTCTGCCTA-TCGACTTTGACCTTGG
* * * **
382564 AGACTT-TCTAACCTTAAGTCTACCTATCGGCTTTGATTTTGG
1 AGACTTCT-TCACCTTAAGTCTGCCTATCGACTTTGACCTTGG
* * * *
382606 AGAATTTCTT-ACCTTCAGTCTGTCTATC-AGCTTTAACCTTGG
1 AG-ACTTCTTCACCTTAAGTCTGCCTATCGA-CTTTGACCTTGG
* * * * * *
382648 AGACTGCCTCATCTCAAGTCTGCTTGTC-AGCTTTGACCTTGG
1 AGACTTCTTCACCTTAAGTCTGCCTATCGA-CTTTGACCTTGG
* * **
382690 AGATTTCTTCACCTTTAAGTCTGCCTATCGACTTTGACCCTCA
1 AGACTTCTTCACC-TTAAGTCTGCCTATCGACTTTGACCTTGG
* * * * * *
382733 AGACTTTCTT-ACCTTCAGTCTACCTGTCGGCTTTGACCCTAG
1 AGAC-TTCTTCACCTTAAGTCTGCCTATCGACTTTGACCTTGG
* * * * * *
382775 AGACTACCTCATCTCAAGTCTGCCTATC-AGCTTTGACCCTAG
1 AGACTTCTTCACCTTAAGTCTGCCTATCGA-CTTTGACCTTGG
* * * *
382817 AAACTTCTTCACCCTTAAGTCTGCCTGTCAACTTTGACCGTGG
1 AGACTTCTTCA-CCTTAAGTCTGCCTATCGACTTTGACCTTGG
* * * * * ** **
382860 AGACTACCTCATCTCAAGTTTGCCTATCGGTTTTGACCTTAA
1 AGACTTCTTCACCTTAAGTCTGCCTATCGACTTTGACCTTGG
* * * * *
382902 AGACTTCTTTACCCTTAAGTCTGCTTGTCGGCTTTGACCCTGG
1 AGACTTCTTCA-CCTTAAGTCTGCCTATCGACTTTGACCTTGG
* * * * * * * *
382945 AGATTTTCTT-ACCTTAAGTTTACTTATTGGCTTTAACCTTAG
1 AGA-CTTCTTCACCTTAAGTCTGCCTATCGACTTTGACCTTGG
* ** * * * * **
382987 AGACTTTCTT-ACCTTAAATCTGGTTGTCGGCTTTAACCCTAA
1 AGAC-TTCTTCACCTTAAGTCTGCCTATCGACTTTGACCTTGG
* * * * * *
383029 AGACTTTCTT-ACCTTCAA-TTTGCATATCGGCCTTGACCCTAG
1 AGAC-TTCTTCACCTT-AAGTCTGCCTATCGACTTTGACCTTGG
* * * * * *
383071 AGACTACCTT-ATCTTAAGTGTGCCTGTCGACTTTGACCCTAG
1 AGACT-TCTTCACCTTAAGTCTGCCTATCGACTTTGACCTTGG
* * * * * * * * *
383113 AGACTGCCTCATCTCAAGTCAGCCTGTCGGCTTGGACCCTGG
1 AGACTTCTTCACCTTAAGTCTGCCTATCGACTTTGACCTTGG
* * * * *
383155 AGACTTATTTACCCTTAAGTCTTCCTGTCGGCTTTGACCTTGG
1 AGACTTCTTCA-CCTTAAGTCTGCCTATCGACTTTGACCTTGG
* * *
383198 AGACTTTCTT-ACCTTCAA-TTTGCCTATCAACTTTGACTTTGG
1 AGAC-TTCTTCACCTT-AAGTCTGCCTATCGACTTTGACCTTGG
* * * * * * *
383240 ACACTACCTCATCTCAAGTCTGCCTATCGGCTTTGATCCTAGG
1 AGACTTCTTCACCTTAAGTCTGCCTATCGACTTTGA-CCTTGG
* * * * * * * *
383283 -GACTGCCTCATCTCAAGTCTGTCTGTC-AGCTTTAACCTTAG
1 AGACTTCTTCACCTTAAGTCTGCCTATCGA-CTTTGACCTTGG
* *
383324 AGACTTCTTCACCCTTAAGTCTG-CTAATCGGCTTTGACCCTGG
1 AGACTTCTTCA-CCTTAAGTCTGCCT-ATCGACTTTGACCTTGG
* * * * * * * *
383367 AGACTTTCTT-ACGTTTAGTCTGCTTGTTGGCTTTGACCCTGA
1 AGAC-TTCTTCACCTTAAGTCTGCCTATCGACTTTGACCTTGG
* * * * * * * *
383409 AGACTACCTCATCTCAATTCTCCCTGTC-AGCTTTGACCTTAG
1 AGACTTCTTCACCTTAAGTCTGCCTATCGA-CTTTGACCTTGG
* * * * * *
383451 AGACTTCTTCACCCTTAATTCTGCTTGTCGGCTTTGACCCTAG
1 AGACTTCTTCA-CCTTAAGTCTGCCTATCGACTTTGACCTTGG
* * * * * *
383494 AGACTTTTTTACCTTAAGTCTACTTGTCGACTTTGACCTTGA
1 AGACTTCTTCACCTTAAGTCTGCCTATCGACTTTGACCTTGG
* * * * * *
383536 AGACTTCTTAACCCTTAAGTCTACTTGTCGGCTTTGACCCTAGG
1 AGACTTCTTCA-CCTTAAGTCTGCCTATCGACTTTGA-CCTTGG
* * * * * *
383580 AGACTTTTTTATCTTCAGTCTGCGTGTCGGA-TTTGACCTTGG
1 AGACTTCTTCACCTTAAGTCTGCCTATC-GACTTTGACCTTGG
* * * * * * *
383622 AGACTGCCTCATCTCAAGTCTGCCTATTGGCTTTGACCTTAG
1 AGACTTCTTCACCTTAAGTCTGCCTATCGACTTTGACCTTGG
* * * * *
383664 AGACTTCTTCATCCTTGAGTCTGCTTGTC-AGCTTGGACCCTGG
1 AGACTTCTTCA-CCTTAAGTCTGCCTATCGA-CTTTGACCTTGG
* * * *
383707 AGACTTTCTT-ACCTTAAGTCTGCCTGTTGGCTTTGACCCTGG
1 AGAC-TTCTTCACCTTAAGTCTGCCTATCGACTTTGACCTTGG
* * * *
383749 AGACTTTCTT-ACCTTCAGTCTGCATGTCGGCTTTGACCTTGG
1 AGAC-TTCTTCACCTTAAGTCTGCCTATCGACTTTGACCTTGG
* * * * * * *
383791 AGACTACCTCATCTTAAATTTGCCTATCGATTTTGACCCTGG
1 AGACTTCTTCACCTTAAGTCTGCCTATCGACTTTGACCTTGG
* * * * * *
383833 AGACTTTTTTATCTTCAGTCTGCCTGTCGAATTTGACCTTGG
1 AGACTTCTTCACCTTAAGTCTGCCTATCGACTTTGACCTTGG
* * * * * * *
383875 AGACTGCCTCATCTCAAGTCTGCCTATTGGCTTTGACCTTAG
1 AGACTTCTTCACCTTAAGTCTGCCTATCGACTTTGACCTTGG
* * *
383917 AGACTTCTTCATCCTTGAGTCTGCTTGTC-AGCTTTGACCTTGG
1 AGACTTCTTCA-CCTTAAGTCTGCCTATCGA-CTTTGACCTTGG
* * **
383960 AGATTTCTTCACCTTTAAGTCTGCCTATCGACTTTGACCCTCA
1 AGACTTCTTCACC-TTAAGTCTGCCTATCGACTTTGACCTTGG
* * *
384003 AGACTTTCTT-ACCTTAAGTCTGCCTGTC-AGCTTTGACCCTAG
1 AGAC-TTCTTCACCTTAAGTCTGCCTATCGA-CTTTGACCTTGG
* * ** *
384045 AGACTTTCTT-ACCTTCAGTCTGCCTGTCGGTTTTGACCATGG
1 AGAC-TTCTTCACCTTAAGTCTGCCTATCGACTTTGACCTTGG
* * * * * * * *
384087 AGACTGCCTCATCTCAAGTCTGCCTGTCGACGTTGACGTTAG
1 AGACTTCTTCACCTTAAGTCTGCCTATCGACTTTGACCTTGG
* * * *
384129 AGACTTTTTCACCCTTAAGTCTACCTATC-AGCTTTAACCCTGG
1 AGACTTCTTCA-CCTTAAGTCTGCCTATCGA-CTTTGACCTTGG
* * * *
384172 AGACTTATTCACCCTTAAGTCTGCCT-GCCAGCTTTGACCTTCG
1 AGACTTCTTCA-CCTTAAGTCTGCCTATCGA-CTTTGACCTTGG
384215 AGACT
1 AGACT
384220 ACCTCGTCTT
Statistics
Matches: 2420, Mismatches: 674, Indels: 304
0.71 0.20 0.09
Matches are distributed among these distances:
31 3 0.00
32 4 0.00
33 1 0.00
34 1 0.00
35 9 0.00
36 13 0.01
37 4 0.00
38 9 0.00
39 7 0.00
40 13 0.01
41 138 0.06
42 1493 0.62
43 628 0.26
44 97 0.04
ACGTcount: A:0.19, C:0.27, G:0.17, T:0.37
Consensus pattern (42 bp):
AGACTTCTTCACCTTAAGTCTGCCTATCGACTTTGACCTTGG
Found at i:381106 original size:186 final size:187
Alignment explanation
Indices: 380755--381096 Score: 476
Period size: 186 Copynumber: 1.8 Consensus size: 187
380745 GACTTCATCG
*
380755 CCCTTAAATCTACTTGTCGGCTTTGACCCTAGAGATTTTCTTACCTTAAGTCTGCCTATCGGCTT
1 CCCTTAAATCTACCTGTCGGCTTTGACCCTAGAGATTTTCTTACCTTAAGTCTGCCTATCGGCTT
* * * *
380820 GAGACCCTAGAGACTACCTCATCTCAAGTCTACCTGTCAGTTTTGACCCTGGAGATCTCTTCACC
66 GACACCCAAGAGACTACCTCATCTCAAGTATACCTGTCAGCTTTGACCCTGGAGATCTCTTCACC
380885 CTTAAGTCTACCTATCAACTTTGACCCTAGAGACTTCCTCATCTTAAGACTTTTTCA
131 CTTAAGTCTACCTATCAACTTTGACCCTAGAGACTTCCTCATCTTAAGACTTTTTCA
* * *
380942 CCCTTAAGTCTACCTGTCGGCTTTGACCCTGGAGACTTTT-TTACCTTCAA-TCTGCCTGTCGGC
1 CCCTTAAATCTACCTGTCGGCTTTGACCCTAGAGA-TTTTCTTACCTT-AAGTCTGCCTATCGGC
* * * * * **
381005 TT-TCACCCAAGAGACTACCTTATCTCAAGTATGCTTGTCGGCTTTGACTTTGGAGA-CTTCTTC
64 TTGACACCCAAGAGACTACCTCATCTCAAGTATACCTGTCAGCTTTGACCCTGGAGATC-TCTTC
* *
381068 ACCCTTAAGTCTGCCTATTAACTTTGACC
128 ACCCTTAAGTCTACCTATCAACTTTGACC
381097 TCGGAGACTT
Statistics
Matches: 135, Mismatches: 17, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
185 1 0.01
186 75 0.56
187 53 0.39
188 6 0.04
ACGTcount: A:0.21, C:0.29, G:0.15, T:0.35
Consensus pattern (187 bp):
CCCTTAAATCTACCTGTCGGCTTTGACCCTAGAGATTTTCTTACCTTAAGTCTGCCTATCGGCTT
GACACCCAAGAGACTACCTCATCTCAAGTATACCTGTCAGCTTTGACCCTGGAGATCTCTTCACC
CTTAAGTCTACCTATCAACTTTGACCCTAGAGACTTCCTCATCTTAAGACTTTTTCA
Found at i:381143 original size:85 final size:86
Alignment explanation
Indices: 380931--381617 Score: 245
Period size: 85 Copynumber: 8.1 Consensus size: 86
380921 CCTCATCTTA
* * * * * * *
380931 AGACTTTTTCACCCTTAAGTCTACCTGTCGGCTTTGACCCTGGAGACTTTTTTA-CCTTCAA-TC
1 AGACTTCTTCATCCTTAAGTCTACCTATCGACTTTGACCTTGGAGACTTCTTCACCCTT-AAGTC
* ** *
380994 TGCCTGTCGGCTTTCACC-CAAG
65 TGCCTATCAACTTTGACCTC-AG
* * * * * * * *
381016 AGACTACCTT-AT-CTCAAGTATGCTTGTCGGCTTTGACTTTGGAGACTTCTTCACCCTTAAGTC
1 AGACT-TCTTCATCCTTAAGTCTACCTATCGACTTTGACCTTGGAGACTTCTTCACCCTTAAGTC
* *
381079 TGCCTATTAACTTTGACCTCGG
65 TGCCTATCAACTTTGACCTCAG
* * * * * * * *
381101 AGACTTTTTTA-CCTTAAGTCTGCCTATCGACTTTGTCCTTGGAGACTGCCTCA-TCTCAAGTCT
1 AGACTTCTTCATCCTTAAGTCTACCTATCGACTTTGACCTTGGAGACTTCTTCACCCTTAAGTCT
* * ** *
381164 GTCTGTCGGCTTTGACCTTAG
66 GCCTATCAACTTTGACCTCAG
* * * *
381185 AGACTTCTTCATCCTTAAGTTTACCTATCGACTTTGACCCTGGAAACTTCTTTACCCTTAAGTCT
1 AGACTTCTTCATCCTTAAGTCTACCTATCGACTTTGACCTTGGAGACTTCTTCACCCTTAAGTCT
* * * *
381250 ACTTGTCGACTTTGACC-CTAG
66 GCCTATCAACTTTGACCTC-AG
* * * * * * * *
381271 AGACTTTCTT-A-CTTTCAA-TCTACCTGTC-AGCTTTGACCCTAGAGACTACCTCA-TCTCAAG
1 AGAC-TTCTTCATCCTT-AAGTCTACCTATCGA-CTTTGACCTTGGAGACTTCTTCACCCTTAAG
* * *
381331 TCTGTCTCTCGACTTTGACCT-AGG
63 TCTGCCTATCAACTTTGACCTCA-G
* * * * * * * * * *
381355 AGACTTTTTTA-CCTTAAGTCTA-CAAGTCGACTTTGACTTTGGAAACTGCCTCA-TCTCAAGTT
1 AGACTTCTTCATCCTTAAGTCTACCTA-TCGACTTTGACCTTGGAGACTTCTTCACCCTTAAGTC
* **** *
381417 TGCCTGTTGGTTTTAACC-CTAG
65 TGCCTATCAACTTTGACCTC-AG
* * * * * * * * *
381439 AGACTTCTTTACCCTTAAGTCTATCTGTCGACTTTAACCCTGGAGACTTCTTCACCTTTAAATTT
1 AGACTTCTTCATCCTTAAGTCTACCTATCGACTTTGACCTTGGAGACTTCTTCACCCTTAAGTCT
* * *
381504 GCCTGTTAAATTTGACC-CTAG
66 GCCTATCAACTTTGACCTC-AG
* * * * * * * * * *
381525 AGA-TT-TTCTTACCTTTAGTCTGCTTGTC-AGCTTTGACCCTGAAGACTACCTCA-TCTTAAGT
1 AGACTTCTTCAT-CCTTAAGTCTACCTATCGA-CTTTGACCTTGGAGACTTCTTCACCCTTAAGT
*
381586 CTG-CTGTCAACTTTGACC-CTAG
64 CTGCCTATCAACTTTGACCTC-AG
381608 AGACTTCTTC
1 AGACTTCTTC
381618 TTATCAGCTT
Statistics
Matches: 457, Mismatches: 118, Indels: 54
0.73 0.19 0.09
Matches are distributed among these distances:
83 28 0.06
84 166 0.36
85 198 0.43
86 60 0.13
87 5 0.01
ACGTcount: A:0.21, C:0.27, G:0.16, T:0.37
Consensus pattern (86 bp):
AGACTTCTTCATCCTTAAGTCTACCTATCGACTTTGACCTTGGAGACTTCTTCACCCTTAAGTCT
GCCTATCAACTTTGACCTCAG
Found at i:381188 original size:84 final size:84
Alignment explanation
Indices: 381100--381613 Score: 380
Period size: 85 Copynumber: 6.1 Consensus size: 84
381090 TTTGACCTCG
* * * *
381100 GAGACTTTTTTACCTTAAGTCTGCCTATCGACTTTGTCCTTGGAGACTGCCTCATCTCAAGTCTG
1 GAGACTTTTTTACCTTAAGTCTACCTATCGACTTTGACCCTGGAAACTGCCTCATCTCAAGTCTG
* *
381165 TCTGTCGGCTTTGACCTTA
66 TCTGTCGACTTTGACCCTA
* * * * * * * *
381184 GAGACTTCTTCATCCTTAAGTTTACCTATCGACTTTGACCCTGGAAACTTCTTTACCCTTAAGTC
1 GAGACTTTTTTA-CCTTAAGTCTACCTATCGACTTTGACCCTGGAAACTGCCTCA-TCTCAAGTC
*
381249 T-ACTTGTCGACTTTGACCCTA
64 TGTC-TGTCGACTTTGACCCTA
* * * * * *
381270 GAGACTTTCTTACTTTCAA-TCTACCTGTC-AGCTTTGACCCTAGAGACTACCTCATCTCAAGTC
1 GAGACTTTTTTACCTT-AAGTCTACCTATCGA-CTTTGACCCTGGAAACTGCCTCATCTCAAGTC
*
381333 TGTCTCTCGACTTTGA-CCTA
64 TGTCTGTCGACTTTGACCCTA
* ** *
381353 GGAGACTTTTTTACCTTAAGTCTA-CAAGTCGACTTTGACTTTGGAAACTGCCTCATCTCAAGTT
1 -GAGACTTTTTTACCTTAAGTCTACCTA-TCGACTTTGACCCTGGAAACTGCCTCATCTCAAGTC
* * ** *
381417 TGCCTGTTGGTTTTAACCCTA
64 TGTCTGTCGACTTTGACCCTA
* * * * * * * * * * *
381438 GAGACTTCTTTACCCTTAAGTCTATCTGTCGACTTTAACCCTGGAGACTTCTTCACCTTTAAATT
1 GAGACTTTTTTA-CCTTAAGTCTACCTATCGACTTTGACCCTGGAAACTGCCTCATC-TCAAGTC
* ** *
381503 TGCCTGTTAAATTTGACCCTA
64 TGTCTGTCGACTTTGACCCTA
* * * * * *
381524 GAGA-TTTTCTTACCTTTAGTCTGCTTGTC-AGCTTTGACCCT-GAAGACTACCTCATCTTAAGT
1 GAGACTTTT-TTACCTTAAGTCTACCTATCGA-CTTTGACCCTGGAA-ACTGCCTCATCTCAAGT
*
381586 CTG-CTGTCAACTTTGACCCTA
63 CTGTCTGTCGACTTTGACCCTA
381607 GAGACTT
1 GAGACTT
381614 CTTCTTATCA
Statistics
Matches: 336, Mismatches: 76, Indels: 36
0.75 0.17 0.08
Matches are distributed among these distances:
83 27 0.08
84 109 0.32
85 136 0.40
86 64 0.19
ACGTcount: A:0.21, C:0.26, G:0.15, T:0.37
Consensus pattern (84 bp):
GAGACTTTTTTACCTTAAGTCTACCTATCGACTTTGACCCTGGAAACTGCCTCATCTCAAGTCTG
TCTGTCGACTTTGACCCTA
Found at i:381264 original size:170 final size:169
Alignment explanation
Indices: 381041--381401 Score: 408
Period size: 170 Copynumber: 2.1 Consensus size: 169
381031 AAGTATGCTT
* * * * *
381041 GTCGGCTTTGACTTTGGAGACTTCTTCACCCTTAAGTCTGCCTATTAACTTTGA-CCTCGGAGAC
1 GTCGACTTTGACTTTGGAAACTTCTTCACCCTTAAGTCTACCTATCAACTTTGACCCT-AGAGAC
* * * * * *
381105 TTTTTTACCTT-AAGTCTGCCTATC-GACTTTGTCCTTGGAGACTGCCTCATCTCAAGTCTGTCT
65 TTTCTTACCTTCAA-TCTACCTATCAG-CTTTGACCCTAGAGACTACCTCATCTCAAGTCTGTCT
* * * *
381168 GTCGGCTTTGACCTTA-GAGACTTCTTCATCCTTAAGTTTACCTA
128 CTCGACTTTGACC-TAGGAGACTTCTTCA-CCTTAAGTCTA-CAA
** * * * *
381212 -TCGACTTTGACCCTGGAAACTTCTTTACCCTTAAGTCTACTTGTCGACTTTGACCCTAGAGACT
1 GTCGACTTTGACTTTGGAAACTTCTTCACCCTTAAGTCTACCTATCAACTTTGACCCTAGAGACT
* *
381276 TTCTTACTTTCAATCTACCTGTCAGCTTTGACCCTAGAGACTACCTCATCTCAAGTCTGTCTCTC
66 TTCTTACCTTCAATCTACCTATCAGCTTTGACCCTAGAGACTACCTCATCTCAAGTCTGTCTCTC
* *
381341 GACTTTGACCTAGGAGACTTTTTTACCTTAAGTCTACAA
131 GACTTTGACCTAGGAGACTTCTTCACCTTAAGTCTACAA
381380 GTCGACTTTGACTTTGGAAACT
1 GTCGACTTTGACTTTGGAAACT
381402 GCCTCATCTC
Statistics
Matches: 158, Mismatches: 27, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
168 2 0.01
169 31 0.20
170 119 0.75
171 6 0.04
ACGTcount: A:0.20, C:0.27, G:0.16, T:0.37
Consensus pattern (169 bp):
GTCGACTTTGACTTTGGAAACTTCTTCACCCTTAAGTCTACCTATCAACTTTGACCCTAGAGACT
TTCTTACCTTCAATCTACCTATCAGCTTTGACCCTAGAGACTACCTCATCTCAAGTCTGTCTCTC
GACTTTGACCTAGGAGACTTCTTCACCTTAAGTCTACAA
Found at i:382366 original size:211 final size:211
Alignment explanation
Indices: 381954--382838 Score: 585
Period size: 211 Copynumber: 4.2 Consensus size: 211
381944 ACTTTTAGTT
* * * * * * * *
381954 TGCCTGTCGGCTTTAACCC-TG-GACTTTTTCACCCTTAAGTCTACCTCTTGGCTTTAACCCTAG
1 TGCCTATCGGCTTTGACCCTTGAGACTTCTTCACCCTTAAGTCTACCTATCGGCTTTGACCTTGG
* * * * *
382017 AGACTTTCTTACCTTCAATATGCCTGTCGGCTTTAACCTTGGAGACTACCTTATCTCAAGTCTGC
66 AAACTTTCTTACCTTCAGTATGCCTATCGGCTTTAACCCTAGAGACTACCTTATCTCAAGTCTGC
* ** ** * *
382082 CTGTCAGCTTTGACCTTGCAGACTTTCTTACCTTAAGTCTGCTTGTCGTCTTTGACCTTGGAGAC
131 CTGTCAGCCTTGACCTTGCAGACTGCCTTACCTTAAGTCTGCTTGTCAACTTTGACCCTAGAGAC
382147 TACCTCATCTCAAGTC
196 TACCTCATCTCAAGTC
* * *
382163 TGCCTATCGGCTTTGACCCTTGAGACTTCTTCACCTTTAAGTCTGCCTATCGGTTTTGACCTTGG
1 TGCCTATCGGCTTTGACCCTTGAGACTTCTTCACCCTTAAGTCTACCTATCGGCTTTGACCTTGG
* * * ** *
382228 AAACTTTCTTACCTTCAGTCTTCCTATCGGCTTTGACCCTAGAGACTTTCTTACTTTCAA-TCTG
66 AAACTTTCTTACCTTCAGTATGCCTATCGGCTTTAACCCTAGAGACTACCTTA-TCTCAAGTCTG
* * * * * *
382292 CTTGTCGGCCTTGACTTTGGAGACTGCCTTATCTCT-AGTGTGCTTGTCAACTTTGACCCTAGAG
130 CCTGTCAGCCTTGACCTTGCAGACTGCCTTACCT-TAAGTCTGCTTGTCAACTTTGACCCTAGAG
* *
382356 ACTGCCTCATCTTAAGTC
194 ACTACCTCATCTCAAGTC
* * * * *
382374 TTCCTATCAGCTTTGA-CCTTGGAGACTTGTTCACCCTTAAGTCTACTTGTCGGCTTTGACCTTG
1 TGCCTATCGGCTTTGACCCTT-GAGACTTCTTCACCCTTAAGTCTACCTATCGGCTTTGACCTTG
** * * * * * * *
382438 GAAACTTTCTTA-CTTCAGGT-TGCCTATCATCTTTGACCTTAGAAATTGCCTCATATCAAGTCT
65 GAAACTTTCTTACCTTCA-GTATGCCTATCGGCTTTAACCCTAGAGACTACCTTATCTCAAGTCT
* * * * ** * * * * * ***
382501 ACCTCTCGGCTTTGACCTTAAAAACTACCTCATCTTAAGTCTG-TCAGTTGGCTTTGACCCTAGA
129 GCCTGTCAGCCTTGACCTTGCAGACTGCCTTACCTTAAGTCTGCT-TGTCAACTTTGACCCTAGA
** * * *
382565 GACTTTCTAACCTTAAGTC
193 GACTACCTCATCTCAAGTC
* ** * * ** * *
382584 TACCTATCGGCTTTGA-TTTTGGAGAATTTCTT-A-CCTTCAGTCTGTCTATCAGCTTTAACCTT
1 TGCCTATCGGCTTTGACCCTT-GAG-ACTTCTTCACCCTTAAGTCTACCTATCGGCTTTGACCTT
* ** * * * * * * * * * ** * *
382646 GGAGACTGCCTCATC-TCAAGTCTGCTTGTCAGCTTTGACCTTGGAGA-TTTCTTCACCTTTAAG
64 GGAAACTTTCTTACCTTC-AGTATGCCTATCGGCTTTAACCCTAGAGACTACCTT-ATC-TCAAG
* * * ** * * * **
382709 TCTGCCTATC-GACTTTGACCCT-CAAGACTTTCTTACCTTCAGTCTACCTGTCGGCTTTGACCC
126 TCTGCCTGTCAG-CCTTGACCTTGC-AGACTGCCTTACCTTAAGTCTGCTTGTCAACTTTGACCC
382772 TAGAGACTACCTCATCTCAAGTC
189 TAGAGACTACCTCATCTCAAGTC
* * *
382795 TGCCTATCAGCTTTGACCCTAGAAACTTCTTCACCCTTAAGTCT
1 TGCCTATCGGCTTTGACCCTTGAGACTTCTTCACCCTTAAGTCT
382839 GCCTGTCAAC
Statistics
Matches: 526, Mismatches: 129, Indels: 39
0.76 0.19 0.06
Matches are distributed among these distances:
209 62 0.12
210 149 0.28
211 299 0.57
212 16 0.03
ACGTcount: A:0.19, C:0.28, G:0.16, T:0.37
Consensus pattern (211 bp):
TGCCTATCGGCTTTGACCCTTGAGACTTCTTCACCCTTAAGTCTACCTATCGGCTTTGACCTTGG
AAACTTTCTTACCTTCAGTATGCCTATCGGCTTTAACCCTAGAGACTACCTTATCTCAAGTCTGC
CTGTCAGCCTTGACCTTGCAGACTGCCTTACCTTAAGTCTGCTTGTCAACTTTGACCCTAGAGAC
TACCTCATCTCAAGTC
Found at i:382804 original size:169 final size:169
Alignment explanation
Indices: 381619--384219 Score: 1167
Period size: 169 Copynumber: 15.4 Consensus size: 169
381609 GACTTCTTCT
* * * * *
381619 TATCAGCTTTGACCTT-GAAGACTACCTCATCTCAAGTCTG-TCTGTCAGCTTTGACCTTGGAGA
1 TATCGGCTTTGACCTTAG-AGACTTCCTCACCTTAAGTCTGCT-TGTCGGCTTTGACCTTGGAGA
* * ** ** * *
381682 CTTC-TCTACCCTTAAGTCTACCTATAAGCTTTGACCCT-AGAGACTTTCTTAATTTCAATTTGC
64 CTTCTTC-ACCTTTAAGTCTGCCTATCGGCTTTGACCCTGA-AGACTTTCTTACCTTCAGTCTGC
** * * * * *
381745 CTGTTAGCTTTGACCCTGGAGACTACCTCACCTCAAGTCTACT
127 CTGTCGGCTTTGACCCTAGAGACTTCCTCATCTCAAGTCTGCC
* * * * * **
381788 TATCGGCTTTGACCTTGGAGACATTCTTCACCCTTAAGTCCGCCTGTCGG-TTGTGACCCTAAAG
1 TATCGGCTTTGACCTTAGAGAC-TTCCTCA-CCTTAAGTCTGCTTGTCGGCTT-TGACCTTGGAG
* * * * * * ** * * **
381852 ATTTTCTT-TCC-TTATGTCTGCCTGTTGGCTTTAACCCT-AGAGACTAACTAATCTGAAGTCTG
63 A-CTTCTTCACCTTTAAGTCTGCCTATCGGCTTTGACCCTGA-AGACTTTCTTACCTTCAGTCTG
* * * ** * ** *
381914 CCTATCGGCTTTGACCCTGGACACTTTTTTA-CTTTTAGTTTGCC
126 CCTGTCGGCTTTGACCCTAGAGACTTCCTCATC-TCAAGTCTGCC
* * * ** * * * * * * *
381958 TGTCGGCTTTAACCCT-G-GACTTTTTCACCCTTAAGTCTACCTCTTGGCTTTAACCCTAGAGAC
1 TATCGGCTTTGACCTTAGAGACTTCCTCA-CCTTAAGTCTGCTTGTCGGCTTTGACCTTGGAGAC
* * * * * * ** *
382021 TTTCTT-ACCTTCAA-TATGCCTGTCGGCTTTAACCTTGGAGACTACCTTATC-TCAAGTCTGCC
65 -TTCTTCACCTTTAAGTCTGCCTATCGGCTTTGACCCTGAAGACTTTCTTACCTTC-AGTCTGCC
* * * * * * *
382083 TGTCAGCTTTGA-CCTTGCAGACTTTCTTACCTTAAGTCTGCT
128 TGTCGGCTTTGACCCTAG-AGACTTCCTCATCTCAAGTCTGCC
* * * * * * * *
382125 TGTCGTCTTTGACCTTGGAGACTACCTCATCTCAAGTCTGCCTATCGGCTTTGACCCTT-GAGAC
1 TATCGGCTTTGACCTTAGAGACTTCCTCACCTTAAGTCTGCTTGTCGGCTTTGA-CCTTGGAGAC
* * *
382189 TTCTTCACCTTTAAGTCTGCCTATCGGTTTTGACCTTGGAA-ACTTTCTTACCTTCAGTCTTCCT
65 TTCTTCACCTTTAAGTCTGCCTATCGGCTTTGACCCT-GAAGACTTTCTTACCTTCAGTCTGCCT
* * * * *
382253 ATCGGCTTTGACCCTAGAGACTTTCTTACTTTCAA-TCTGCT
129 GTCGGCTTTGACCCTAGAGACTTCCTCA-TCTCAAGTCTGCC
* * * * * * * * ** * *
382294 TGTCGGCCTTGACTTTGGAGACTGCCTTATCTCT-AGTGTGCTTGTCAACTTTGACCCTAGAGAC
1 TATCGGCTTTGACCTTAGAGACTTCCTCACCT-TAAGTCTGCTTGTCGGCTTTGACCTTGGAGAC
* * * * * * * * * * *
382358 TGCCTCATC-TTAAGTCTTCCTATCAGCTTTGACCTTGGAGACTTGT-TCACCCTTAAGTCTACT
65 TTCTTCACCTTTAAGTCTGCCTATCGGCTTTGACCCTGAAGACTT-TCTTA-CCTTCAGTCTGCC
* * * * * *
382421 TGTCGGCTTTGACCTTGGAAACTTTCTTA-CTTCAGGT-TGCC
128 TGTCGGCTTTGACCCTAGAGACTTCCTCATC-TCAAGTCTGCC
** * ** * * * * ** *
382462 TATCATCTTTGACCTTAGA-AATTGCCTCATATCAAGTCTACCTCTCGGCTTTGACCTTAAAAAC
1 TATCGGCTTTGACCTTAGAGACTT-CCTCACCTTAAGTCTGCTTGTCGGCTTTGACCTTGGAGAC
* * * * * * * *
382526 TACCTCATC-TTAAGTCTGTC-AGTTGGCTTTGACCCT-AGAGACTTTCTAACCTTAAGTCTACC
65 TTCTTCACCTTTAAGTCTGCCTA-TCGGCTTTGACCCTGA-AGACTTTCTTACCTTCAGTCTGCC
* *** * * * * * *
382588 TATCGGCTTTGATTTTGGAGAATTTCTTACCTTC-AGTCTGTC
128 TGTCGGCTTTGACCCTAGAGACTTCCTCATC-TCAAGTCTGCC
* * * * * * * *
382630 TATCAGCTTTAACCTTGGAGACTGCCTCATCTCAAGTCTGCTTGTCAGCTTTGACCTTGGAGATT
1 TATCGGCTTTGACCTTAGAGACTTCCTCACCTTAAGTCTGCTTGTCGGCTTTGACCTTGGAGACT
* * *
382695 TCTTCACCTTTAAGTCTGCCTATCGACTTTGACCCTCAAGACTTTCTTACCTTCAGTCTACCTGT
66 TCTTCACCTTTAAGTCTGCCTATCGGCTTTGACCCTGAAGACTTTCTTACCTTCAGTCTGCCTGT
*
382760 CGGCTTTGACCCTAGAGACTACCTCATCTCAAGTCTGCC
131 CGGCTTTGACCCTAGAGACTTCCTCATCTCAAGTCTGCC
* * * * * ** *
382799 TATCAGCTTTGACCCTAGAAACTTCTTCACCCTTAAGTCTGCCTGTCAACTTTGACCGTGGAGAC
1 TATCGGCTTTGACCTTAGAGACTTCCTCA-CCTTAAGTCTGCTTGTCGGCTTTGACCTTGGAGAC
* * * * * * * * * *
382864 TACCTCATC-TCAAGTTTGCCTATCGGTTTTGACCTTAAAGAC-TTCTTTACCCTTAAGTCTGCT
65 TTCTTCACCTTTAAGTCTGCCTATCGGCTTTGACCCTGAAGACTTTC-TTA-CCTTCAGTCTGCC
* * * * * * * * *
382927 TGTCGGCTTTGACCCTGGAGATTTTCTTACCTTAAGTTTACT
128 TGTCGGCTTTGACCCTAGAGACTTCCTCATCTCAAGTCTGCC
* * * * * * * * **
382969 TATTGGCTTTAACCTTAGAGACTTTCTTACCTTAAATCTGGTTGTCGGCTTTAACCCTAAAGACT
1 TATCGGCTTTGACCTTAGAGACTTCCTCACCTTAAGTCTGCTTGTCGGCTTTGACCTTGGAGAC-
* * * * ** * * *
383034 TTCTT-ACCTTCAA-TTTGCATATCGGCCTTGACCCT-AGAGACTACCTTATCTTAAGTGTGCCT
65 TTCTTCACCTTTAAGTCTGCCTATCGGCTTTGACCCTGA-AGACTTTCTTACCTTCAGTCTGCCT
* * *
383096 GTCGACTTTGACCCTAGAGACTGCCTCATCTCAAGTCAGCC
129 GTCGGCTTTGACCCTAGAGACTTCCTCATCTCAAGTCTGCC
* * * * ** * * *
383137 TGTCGGCTTGGACCCTGGAGACTTATTTACCCTTAAGTCTTCCTGTCGGCTTTGACCTTGGAGAC
1 TATCGGCTTTGACCTTAGAGACTTCCTCA-CCTTAAGTCTGCTTGTCGGCTTTGACCTTGGAGAC
* * ** ** * * ** * *
383202 TTTCTT-ACCTTCAA-TTTGCCTATCAACTTTGACTTTGGACACTACCTCATC-TCAAGTCTGCC
65 -TTCTTCACCTTTAAGTCTGCCTATCGGCTTTGACCCTGAAGACTTTCTTACCTTC-AGTCTGCC
* * * * *
383264 TATCGGCTTTGATCCTAGGGACTGCCTCATCTCAAGTCTGTC
128 TGTCGGCTTTGACCCTAGAGACTTCCTCATCTCAAGTCTGCC
* * * * ** *
383306 TGTCAGCTTTAACCTTAGAGACTTCTTCACCCTTAAGTCTGCTAATCGGCTTTGACCCTGGAGAC
1 TATCGGCTTTGACCTTAGAGACTTCCTCA-CCTTAAGTCTGCTTGTCGGCTTTGACCTTGGAGAC
* * * * ** * * * *
383371 TTTCTT-ACGTTT-AGTCTGCTTGTTGGCTTTGACCCTGAAGACTACCTCATC-TCAATTCTCCC
65 -TTCTTCACCTTTAAGTCTGCCTATCGGCTTTGACCCTGAAGACTTTCTTACCTTC-AGTCTGCC
* * * * * * *
383433 TGTCAGCTTTGACCTTAGAGACTTCTTCACCCTTAATTCTGCT
128 TGTCGGCTTTGACCCTAGAGACTTCCTCA-TCTCAAGTCTGCC
* * ** * * * *
383476 TGTCGGCTTTGACCCTAGAGACTTTTTTACCTTAAGTCTACTTGTCGACTTTGACCTTGAAGACT
1 TATCGGCTTTGACCTTAGAGACTTCCTCACCTTAAGTCTGCTTGTCGGCTTTGACCTTGGAGACT
* * * * * * * * *
383541 TCTTAACCCTTAAGTCTACTTGTCGGCTTTGACCCTAGGAGACTTTTTTATCTTCAGTCTGCGTG
66 TCTTCACCTTTAAGTCTGCCTATCGGCTTTGACCCT-GAAGACTTTCTTACCTTCAGTCTGCCTG
* * * *
383606 TCGGATTTGACCTTGGAGACTGCCTCATCTCAAGTCTGCC
130 TCGGCTTTGACCCTAGAGACTTCCTCATCTCAAGTCTGCC
* * * * * *
383646 TATTGGCTTTGACCTTAGAGACTTCTTCATCCTTGAGTCTGCTTGTCAGCTTGGACCCTGGAGAC
1 TATCGGCTTTGACCTTAGAGACTTCCTCA-CCTTAAGTCTGCTTGTCGGCTTTGACCTTGGAGAC
* * * *
383711 TTTCTT-ACC-TTAAGTCTGCCTGTTGGCTTTGACCCTGGAGACTTTCTTACCTTCAGTCTGCAT
65 -TTCTTCACCTTTAAGTCTGCCTATCGGCTTTGACCCTGAAGACTTTCTTACCTTCAGTCTGCCT
* * * * * *
383774 GTCGGCTTTGACCTTGGAGACTACCTCATCTTAAATTTGCC
129 GTCGGCTTTGACCCTAGAGACTTCCTCATCTCAAGTCTGCC
** * * ** * * * * **
383815 TATCGATTTTGACCCTGGAGACTTTTTTATCTTCAGTCTGCCTGTCGAATTTGACCTTGGAGACT
1 TATCGGCTTTGACCTTAGAGACTTCCTCACCTTAAGTCTGCTTGTCGGCTTTGACCTTGGAGACT
* * * * * * * *
383880 GCCTCATC-TCAAGTCTGCCTATTGGCTTTGA-CCTTAGAGAC-TTCTTCATCCTTGAGTCTGCT
66 TCTTCACCTTTAAGTCTGCCTATCGGCTTTGACCCTGA-AGACTTTCTT-A-CCTTCAGTCTGCC
* * * * * * *
383942 TGTCAGCTTTGACCTTGGAGATTTCTTCACCTTTAAGTCTGCC
128 TGTCGGCTTTGACCCTAGAGACTTCCTCATC-TCAAGTCTGCC
* * * * * * * *
383985 TATCGACTTTGACCCTCA-AGACTTTCTTACCTTAAGTCTGCCTGTCAGCTTTGACCCTAGAGAC
1 TATCGGCTTTGA-CCTTAGAGACTTCCTCACCTTAAGTCTGCTTGTCGGCTTTGACCTTGGAGAC
* * * * * ** * *
384049 TTTCTT-ACC-TTCAGTCTGCCTGTCGGTTTTGACCATGGAGACTGCCTCATC-TCAAGTCTGCC
65 -TTCTTCACCTTTAAGTCTGCCTATCGGCTTTGACCCTGAAGACTTTCTTACCTTC-AGTCTGCC
* * ** ** * * *
384111 TGTCGACGTTGACGTTAGAGACTTTTTCACCCTTAAGTCTACC
128 TGTCGGCTTTGACCCTAGAGACTTCCTCA-TCTCAAGTCTGCC
* * * * ** * * * *
384154 TATCAGCTTTAACCCTGGAGACTTATTCACCCTTAAGTCTGCCTGCCAGCTTTGACCTTCGAGAC
1 TATCGGCTTTGACCTTAGAGACTTCCTCA-CCTTAAGTCTGCTTGTCGGCTTTGACCTTGGAGAC
384219 T
65 T
384220 ACCTCGTCTT
Statistics
Matches: 1878, Mismatches: 480, Indels: 148
0.75 0.19 0.06
Matches are distributed among these distances:
166 4 0.00
167 177 0.09
168 347 0.18
169 803 0.43
170 433 0.23
171 103 0.05
172 10 0.01
173 1 0.00
ACGTcount: A:0.19, C:0.27, G:0.17, T:0.36
Consensus pattern (169 bp):
TATCGGCTTTGACCTTAGAGACTTCCTCACCTTAAGTCTGCTTGTCGGCTTTGACCTTGGAGACT
TCTTCACCTTTAAGTCTGCCTATCGGCTTTGACCCTGAAGACTTTCTTACCTTCAGTCTGCCTGT
CGGCTTTGACCCTAGAGACTTCCTCATCTCAAGTCTGCC
Found at i:384280 original size:212 final size:208
Alignment explanation
Indices: 383168--384247 Score: 622
Period size: 212 Copynumber: 5.1 Consensus size: 208
383158 CTTATTTACC
* * * * * *
383168 CTTAAGTCTT-CCTGTCGGCTTTGACCTTGGAGACTTTCTTACCTTCAATTTGCCTATC-AACTT
1 CTTAAGT-TTGCCTGTCGGCTTTGACCCTAGAGAC-TTCTTATCTTCAGTCTGCCTGTCGAA-TT
** * * * * * *** *
383231 TGACTTTGGACACTACCTCATCTCAAGTCTGCCTATCGGCTTTGATCC-TAGGGACTGCCTCATC
63 TGACCATGGAGACTGCCTCATCTCAAGTCTGCCTATCGACGTTGA-CCTTAGAGACTTTTTCACC
* * * * * *
383295 TCAAGTCTGTCTGTCAGCTTTAACCTTAGAGACTTCTTCACCCTTAAGTCTG-CTAATCGGCTTT
127 TTAAGTCTGCCTGTCAGCTTTGACCCTGGAGACTT-TTCACCCTTAAGTCTGCCT-GTC-GCTTT
* * ** *
383359 GACCCTGGAGACTTTCTTA-
189 GACCTTCGAGACTACCTCAT
* * * * * * * * *
383378 CGTTTAGTCTGCTTGTTGGCTTTGACCCT-GAAGACTACCTCATC-TCAATTCTCCCTGTC-AGC
1 C-TTAAGTTTGCCTGTCGGCTTTGACCCTAG-AGACT-TCTTATCTTC-AGTCTGCCTGTCGA-A
* * * * * * * * * * * * *
383440 TTTGACCTTAGAGACTTCTTCACCCTTAATTCTGCTTGTCGGCTTTGACCCTAGAGACTTTTTTA
61 TTTGACCATGGAGACTGCCTCA-TCTCAAGTCTGCCTATCGACGTTGACCTTAGAGACTTTTTCA
* * * * * * *
383505 CCTTAAGTCTACTTGTC-GACTTTGACCTTGAAGACTTCTTAACCCTTAAGTCTACTTGTCGGCT
125 CCTTAAGTCTGCCTGTCAG-CTTTGACCCTGGAGACTT-TTCACCCTTAAGTCTGCCTGTC-GCT
** *** *
383569 TTGACCCTAGGAGACTTTTTTAT
187 TTGA-CCTTCGAGACTACCTCAT
* * * * * * * * * * **
383592 CTTCAGTCTGCGTGTCGGATTTGACCTTGGAGACTGCCTCATC-TCAAGTCTGCCTATTGGCTTT
1 CTTAAGTTTGCCTGTCGGCTTTGACCCTAGAGACT-TCTTATCTTC-AGTCTGCCTGTCGAATTT
* * * * ** * * * *
383656 GACCTTAGAGACTTCTTCATCCTTGAGTCTGCTTGTC-A-GCTTGGACCCTGGAGACTTTCTT-A
64 GACCATGGAGACTGCCTCAT-CTCAAGTCTGCCTATCGACG-TT-GACCTTAGAGACTTT-TTCA
** * * *
383718 CCTTAAGTCTGCCTGTTGGCTTTGACCCTGGAGACTTTCTTA-CCTTCAGTCTGCATGTCGGCTT
125 CCTTAAGTCTGCCTGTCAGCTTTGACCCTGGAGACTTT-TCACCCTTAAGTCTGCCTGTC-GCTT
*
383782 TGACCTTGGAGACTACCTCAT
188 TGACCTTCGAGACTACCTCAT
* * ** * *
383803 CTTAAATTTGCCTATCGATTTTGACCCTGGAGACTTTTTTATCTTCAGTCTGCCTGTCGAATTTG
1 CTTAAGTTTGCCTGTCGGCTTTGACCCTAGAGAC-TTCTTATCTTCAGTCTGCCTGTCGAATTTG
* * * * *
383868 ACCTTGGAGACTGCCTCATCTCAAGTCTGCCTATTGGCTTTGACCTTAGAGACTTCTTCATCCTT
65 ACCATGGAGACTGCCTCATCTCAAGTCTGCCTATCGACGTTGACCTTAGAGACTTTTTCA-CCTT
* * * * * *
383933 GAGTCTGCTTGTCAGCTTTGACCTTGGAGATTTCTTCACCTTTAAGTCTGCCTATCGACTTTGAC
129 AAGTCTGCCTGTCAGCTTTGACCCTGGAGACTT-TTCACCCTTAAGTCTGCCTGTCG-CTTTGAC
* * ** * *
383998 CCTCAAGACTTTCTTAC
192 CTTCGAGACTACCTCAT
* * * **
384015 CTTAAGTCTGCCTGTCAGCTTTGACCCTAGAGACTTTCTTACCTTCAGTCTGCCTGTCGGTTTTG
1 CTTAAGTTTGCCTGTCGGCTTTGACCCTAGAGAC-TTCTTATCTTCAGTCTGCCTGTCGAATTTG
* *
384080 ACCATGGAGACTGCCTCATCTCAAGTCTGCCTGTCGACGTTGACGTTAGAGACTTTTTCACCCTT
65 ACCATGGAGACTGCCTCATCTCAAGTCTGCCTATCGACGTTGACCTTAGAGACTTTTTCA-CCTT
* * * *
384145 AAGTCTACCTATCAGCTTTAACCCTGGAGACTTATTCACCCTTAAGTCTGCCTGCCAGCTTTGAC
129 AAGTCTGCCTGTCAGCTTTGACCCTGGAGACTT-TTCACCCTTAAGTCTGCCTGTC-GCTTTGAC
*
384210 CTTCGAGACTACCTCGT
192 CTTCGAGACTACCTCAT
*
384227 CTTAAGTTTGCCCGTCGGCTT
1 CTTAAGTTTGCCTGTCGGCTT
384248 AGACTCCAAA
Statistics
Matches: 680, Mismatches: 160, Indels: 58
0.76 0.18 0.06
Matches are distributed among these distances:
209 2 0.00
210 30 0.04
211 167 0.25
212 331 0.49
213 145 0.21
214 5 0.01
ACGTcount: A:0.18, C:0.27, G:0.18, T:0.36
Consensus pattern (208 bp):
CTTAAGTTTGCCTGTCGGCTTTGACCCTAGAGACTTCTTATCTTCAGTCTGCCTGTCGAATTTGA
CCATGGAGACTGCCTCATCTCAAGTCTGCCTATCGACGTTGACCTTAGAGACTTTTTCACCTTAA
GTCTGCCTGTCAGCTTTGACCCTGGAGACTTTTCACCCTTAAGTCTGCCTGTCGCTTTGACCTTC
GAGACTACCTCAT
Found at i:384846 original size:44 final size:44
Alignment explanation
Indices: 384677--384933 Score: 193
Period size: 44 Copynumber: 6.0 Consensus size: 44
384667 TTTATCCTCG
* * * ** * * *
384677 GTCAACTTTTCTTA-CCTTTGGTGACCTGTTAGCTTTGTCCTCG
1 GTCAACCTTTCTTACCCTTTGTTTACCTGTCGGCTATGTCCCCA
* * *
384720 GTCAACCATTCTTACCCTTTCTTTATCTGTCGGCTATGTCCCCA
1 GTCAACCTTTCTTACCCTTTGTTTACCTGTCGGCTATGTCCCCA
* * * * * *
384764 GT-AAAC-TTCTTACCCCTTGGTGACCTGTCGGCTTTGTCCCTA
1 GTCAACCTTTCTTACCCTTTGTTTACCTGTCGGCTATGTCCCCA
* * * *
384806 GTCAACCTTTCTTAGCCTTTGTTTACATGTCGACTATGTCCCCG
1 GTCAACCTTTCTTACCCTTTGTTTACCTGTCGGCTATGTCCCCA
* * * * * * *
384850 GT-AA-ATTTCTT-CCCTATTGGTGACCTATCGACTTTGTCCCCG
1 GTCAACCTTTCTTACCCT-TTGTTTACCTGTCGGCTATGTCCCCA
* *
384892 GTCAGCCTTTCTTACCCTTTGTTTCCCTGTCGGCTATGTCCC
1 GTCAACCTTTCTTACCCTTTGTTTACCTGTCGGCTATGTCCC
384934 TGATAAATTT
Statistics
Matches: 163, Mismatches: 44, Indels: 13
0.74 0.20 0.06
Matches are distributed among these distances:
41 3 0.02
42 60 0.37
43 21 0.13
44 75 0.46
45 4 0.02
ACGTcount: A:0.14, C:0.31, G:0.16, T:0.39
Consensus pattern (44 bp):
GTCAACCTTTCTTACCCTTTGTTTACCTGTCGGCTATGTCCCCA
Found at i:384941 original size:86 final size:84
Alignment explanation
Indices: 384684--384973 Score: 296
Period size: 86 Copynumber: 3.4 Consensus size: 84
384674 TCGGTCAACT
* * * * * *
384684 TTTCTTACCTTTGGTGACCTGT-TAGCTTTGTCCTCGGTCAACCATTCTTACCCTTTCTTTATCT
1 TTTCTTCCCTTTGGTGACCTGTCGA-CTTTGTCCCCGGTCAACCTTTCTTACCCTTTGTTTACCT
*
384748 GTCGGCTATGTCCCCAGTAAA
65 GTCGGCTATGTCCCGA-TAAA
* * * ** * *
384769 CTTCTTACCCCTTGGTGACCTGTCGGCTTTGTCCCTAGTCAACCTTTCTTAGCCTTTGTTTACAT
1 TTTCTT-CCCTTTGGTGACCTGTCGACTTTGTCCCCGGTCAACCTTTCTTACCCTTTGTTTACCT
* *
384834 GTCGACTATGTCCCCGGTAAA
65 GTCGGCTATGT-CCCGATAAA
* * *
384855 TTTCTTCCCTATTGGTGACCTATCGACTTTGTCCCCGGTCAGCCTTTCTTACCCTTTGTTTCCCT
1 TTTCTTCCCT-TTGGTGACCTGTCGACTTTGTCCCCGGTCAACCTTTCTTACCCTTTGTTTACCT
384920 GTCGGCTATGTCCCTGATAAA
65 GTCGGCTATGTCCC-GATAAA
** *
384941 TTTCTTACTCC-TAAGTGACTTGTCGACTTTGTC
1 TTTCTT-C-CCTTTGGTGACCTGTCGACTTTGTC
384974 TCTAGGTAAC
Statistics
Matches: 166, Mismatches: 32, Indels: 13
0.79 0.15 0.06
Matches are distributed among these distances:
85 11 0.07
86 149 0.90
87 4 0.02
88 2 0.01
ACGTcount: A:0.14, C:0.29, G:0.16, T:0.40
Consensus pattern (84 bp):
TTTCTTCCCTTTGGTGACCTGTCGACTTTGTCCCCGGTCAACCTTTCTTACCCTTTGTTTACCTG
TCGGCTATGTCCCGATAAA
Found at i:384948 original size:42 final size:42
Alignment explanation
Indices: 384728--384948 Score: 151
Period size: 42 Copynumber: 5.2 Consensus size: 42
384718 CGGTCAACCA
* * *
384728 TTCTTACCCTTTCTTTATCTGTCGGCTATGTCCCC-AGTAAAC
1 TTCTTACCCTTTGTTTACCTGTCGGCTATGTCCCCGA-TAAAT
* * * * * *
384770 TTCTTACCCCTTGGTGACCTGTCGGCTTTGT-CCCTAGTCAACCT
1 TTCTTACCCTTTGTTTACCTGTCGGCTATGTCCCCGA-T-AA-AT
* * * *
384814 TTCTTAGCCTTTGTTTACATGTCGACTATGTCCCCGGTAAAT
1 TTCTTACCCTTTGTTTACCTGTCGGCTATGTCCCCGATAAAT
* * * * * * **
384856 TTCTT-CCCTATTGGTGACCTATCGACTTTGTCCCCGGTCAGCCT
1 TTCTTACCCT-TTGTTTACCTGTCGGCTATGTCCCCGAT-A-AAT
* *
384900 TTCTTACCCTTTGTTTCCCTGTCGGCTATGTCCCTGATAAAT
1 TTCTTACCCTTTGTTTACCTGTCGGCTATGTCCCCGATAAAT
384942 TTCTTAC
1 TTCTTAC
384949 TCCTAAGTGA
Statistics
Matches: 135, Mismatches: 36, Indels: 16
0.72 0.19 0.09
Matches are distributed among these distances:
41 6 0.04
42 65 0.48
43 6 0.04
44 51 0.38
45 7 0.05
ACGTcount: A:0.14, C:0.30, G:0.15, T:0.40
Consensus pattern (42 bp):
TTCTTACCCTTTGTTTACCTGTCGGCTATGTCCCCGATAAAT
Found at i:385569 original size:8 final size:8
Alignment explanation
Indices: 385556--385593 Score: 62
Period size: 7 Copynumber: 5.0 Consensus size: 8
385546 ATCATAATAA
385556 TAAAAAAT
1 TAAAAAAT
385564 T-AAAAAT
1 TAAAAAAT
385571 TAAAAAAT
1 TAAAAAAT
385579 TAAAAAA-
1 TAAAAAAT
385586 TAAAAAAT
1 TAAAAAAT
385594 CAATCAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
7 14 0.50
8 14 0.50
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
TAAAAAAT
Found at i:385576 original size:15 final size:15
Alignment explanation
Indices: 385554--385593 Score: 71
Period size: 15 Copynumber: 2.7 Consensus size: 15
385544 TTATCATAAT
385554 AATAAAAAATTAAAA
1 AATAAAAAATTAAAA
*
385569 ATTAAAAAATTAAAA
1 AATAAAAAATTAAAA
385584 AATAAAAAAT
1 AATAAAAAAT
385594 CAATCAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.23
Consensus pattern (15 bp):
AATAAAAAATTAAAA
Found at i:385592 original size:7 final size:7
Alignment explanation
Indices: 385554--385663 Score: 60
Period size: 8 Copynumber: 14.3 Consensus size: 7
385544 TTATCATAAT
385554 AATAAAA
1 AATAAAA
385561 AATTAAAA
1 AA-TAAAA
*
385569 ATTAAAA
1 AATAAAA
385576 AATTAAAA
1 AA-TAAAA
385584 AATAAAA
1 AATAAAA
385591 AATCAATCAA
1 AAT-AA--AA
*
385601 AA-AAAT
1 AATAAAA
* *
385607 CATAAGA
1 AATAAAA
385614 AATCAAAAA
1 AAT--AAAA
385623 TAATAAAA
1 -AATAAAA
385631 TAATAAAA
1 -AATAAAA
385639 AATCAAAA
1 AAT-AAAA
* *
385647 TTATCAAA
1 -AATAAAA
385655 AATAAAA
1 AATAAAA
385662 AA
1 AA
385664 AAATTCTTCA
Statistics
Matches: 80, Mismatches: 12, Indels: 22
0.70 0.11 0.19
Matches are distributed among these distances:
6 2 0.03
7 30 0.38
8 36 0.45
9 5 0.06
10 7 0.09
ACGTcount: A:0.74, C:0.05, G:0.01, T:0.20
Consensus pattern (7 bp):
AATAAAA
Found at i:385602 original size:25 final size:23
Alignment explanation
Indices: 385554--385667 Score: 81
Period size: 22 Copynumber: 4.8 Consensus size: 23
385544 TTATCATAAT
* * *
385554 AATAAAAA-ATTAAAAATTAAAA
1 AATAAAAATAATAAAAAATCAAA
* *
385576 AATTAAAA-AATAAAAAATCAATC
1 AATAAAAATAATAAAAAATCAA-A
* *
385599 AA-AAAAATCATAAGAAATCAAA
1 AATAAAAATAATAAAAAATCAAA
385621 AATAATAAAATAATAAAAAATCAAA
1 AAT-A-AAAATAATAAAAAATCAAA
*
385646 ATTATCAAAAATAAAAAAAAAT
1 A--AT-AAAAATAATAAAAAAT
385668 TCTTCAAAAT
Statistics
Matches: 72, Mismatches: 13, Indels: 10
0.76 0.14 0.11
Matches are distributed among these distances:
22 23 0.32
23 13 0.18
24 1 0.01
25 18 0.25
26 14 0.19
27 3 0.04
ACGTcount: A:0.74, C:0.05, G:0.01, T:0.20
Consensus pattern (23 bp):
AATAAAAATAATAAAAAATCAAA
Found at i:385621 original size:18 final size:19
Alignment explanation
Indices: 385571--385656 Score: 60
Period size: 17 Copynumber: 4.8 Consensus size: 19
385561 AATTAAAAAT
*
385571 TAAAA-AATTAAAAAAT-A
1 TAAAATAATCAAAAAATCA
*
385588 AAAAATCAATCAAAAAAATCA
1 TAAAAT-AATC-AAAAAATCA
* *
385609 TAAGA-AATC-AAAAATAA
1 TAAAATAATCAAAAAATCA
385626 TAAAATAAT-AAAAAATC-
1 TAAAATAATCAAAAAATCA
*
385643 -AAAATTATCAAAAA
1 TAAAATAATCAAAAA
385657 TAAAAAAAAA
Statistics
Matches: 54, Mismatches: 8, Indels: 14
0.71 0.11 0.18
Matches are distributed among these distances:
16 7 0.13
17 20 0.37
18 9 0.17
19 7 0.13
20 7 0.13
21 4 0.07
ACGTcount: A:0.72, C:0.07, G:0.01, T:0.20
Consensus pattern (19 bp):
TAAAATAATCAAAAAATCA
Found at i:385638 original size:16 final size:15
Alignment explanation
Indices: 385551--385661 Score: 61
Period size: 15 Copynumber: 7.1 Consensus size: 15
385541 TTATTATCAT
385551 AATAATAAAAAATTAA
1 AATAATAAAAAA-TAA
*
385567 AA-ATTAAAAAATTAA
1 AATAATAAAAAA-TAA
*
385582 AA-AATAAAAAAT-C
1 AATAATAAAAAATAA
385595 AATCAA-AAAAATCATAAGA
1 AAT-AATAAAAA--AT-A-A
*
385614 AATCAA-AAATAATAA
1 AAT-AATAAAAAATAA
385629 AATAATAAAAAATCAA
1 AATAATAAAAAAT-AA
* *
385645 AATTATCAAAAATAA
1 AATAATAAAAAATAA
385660 AA
1 AA
385662 AAAAATTCTT
Statistics
Matches: 78, Mismatches: 8, Indels: 19
0.74 0.08 0.18
Matches are distributed among these distances:
13 2 0.03
14 8 0.10
15 38 0.49
16 18 0.23
17 2 0.03
19 10 0.13
ACGTcount: A:0.73, C:0.05, G:0.01, T:0.21
Consensus pattern (15 bp):
AATAATAAAAAATAA
Found at i:385664 original size:8 final size:9
Alignment explanation
Indices: 385580--385656 Score: 52
Period size: 9 Copynumber: 8.4 Consensus size: 9
385570 TTAAAAAATT
*
385580 AAAAAATAA
1 AAAAAATCA
385589 AAAATCAATCA
1 AAAA--AATCA
385600 AAAAAATCA
1 AAAAAATCA
*
385609 TAAGAAATCA
1 -AAAAAATCA
385619 AAAATAAT-A
1 AAAA-AATCA
*
385628 AAATAAT--
1 AAAAAATCA
385635 AAAAAATCA
1 AAAAAATCA
**
385644 AAATTATCA
1 AAAAAATCA
385653 AAAA
1 AAAA
385657 TAAAAAAAAA
Statistics
Matches: 54, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
7 6 0.11
8 3 0.06
9 26 0.48
10 11 0.20
11 8 0.15
ACGTcount: A:0.73, C:0.08, G:0.01, T:0.18
Consensus pattern (9 bp):
AAAAAATCA
Found at i:385686 original size:10 final size:10
Alignment explanation
Indices: 385588--385686 Score: 54
Period size: 10 Copynumber: 10.5 Consensus size: 10
385578 TTAAAAAATA
385588 AAAAATCAATC
1 AAAAAT-AATC
385599 AAAAA-AATC
1 AAAAATAATC
*
385608 ATAAGA-AATC
1 A-AAAATAATC
385618 AAAAATAAT-
1 AAAAATAATC
385627 -AAAATAAT-
1 AAAAATAATC
385635 -AAAA-AATC
1 AAAAATAATC
*
385643 -AAAATTATC
1 AAAAATAATC
**
385652 AAAAATAAAA
1 AAAAATAATC
**
385662 AAAAATTCTTC
1 AAAAA-TAATC
385673 -AAAATAATC
1 AAAAATAATC
385682 AAAAA
1 AAAAA
385687 GATTATTATT
Statistics
Matches: 69, Mismatches: 12, Indels: 15
0.72 0.12 0.16
Matches are distributed among these distances:
7 3 0.04
8 16 0.23
9 14 0.20
10 30 0.43
11 6 0.09
ACGTcount: A:0.70, C:0.09, G:0.01, T:0.20
Consensus pattern (10 bp):
AAAAATAATC
Found at i:385736 original size:17 final size:17
Alignment explanation
Indices: 385716--385775 Score: 75
Period size: 17 Copynumber: 3.4 Consensus size: 17
385706 TAATGAATGA
385716 ATGAAAGTTGTGAAAGC
1 ATGAAAGTTGTGAAAGC
**
385733 ATGAAATGAAGATGCAAAGC
1 ATGAAA-GTTG-TG-AAAGC
385753 ATGAAAGTTGTGAAAGC
1 ATGAAAGTTGTGAAAGC
385770 ATGAAA
1 ATGAAA
385776 TGATGATGCA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
17 17 0.47
18 4 0.11
19 4 0.11
20 11 0.31
ACGTcount: A:0.47, C:0.07, G:0.27, T:0.20
Consensus pattern (17 bp):
ATGAAAGTTGTGAAAGC
Found at i:385753 original size:20 final size:20
Alignment explanation
Indices: 385728--385792 Score: 91
Period size: 20 Copynumber: 3.4 Consensus size: 20
385718 GAAAGTTGTG
*
385728 AAAGCATGAAATGAAGATGC
1 AAAGCATGAAATGATGATGC
*
385748 AAAGCATGAAA-GTTG-TG-
1 AAAGCATGAAATGATGATGC
385765 AAAGCATGAAATGATGATGC
1 AAAGCATGAAATGATGATGC
385785 AAAGCATG
1 AAAGCATG
385793 TAACGTGGAT
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
17 11 0.28
18 5 0.13
19 4 0.10
20 19 0.49
ACGTcount: A:0.46, C:0.09, G:0.26, T:0.18
Consensus pattern (20 bp):
AAAGCATGAAATGATGATGC
Found at i:385766 original size:37 final size:37
Alignment explanation
Indices: 385716--385792 Score: 145
Period size: 37 Copynumber: 2.1 Consensus size: 37
385706 TAATGAATGA
385716 ATGAAAGTTGTGAAAGCATGAAATGAAGATGCAAAGC
1 ATGAAAGTTGTGAAAGCATGAAATGAAGATGCAAAGC
*
385753 ATGAAAGTTGTGAAAGCATGAAATGATGATGCAAAGC
1 ATGAAAGTTGTGAAAGCATGAAATGAAGATGCAAAGC
385790 ATG
1 ATG
385793 TAACGTGGAT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.44, C:0.08, G:0.27, T:0.21
Consensus pattern (37 bp):
ATGAAAGTTGTGAAAGCATGAAATGAAGATGCAAAGC
Found at i:386443 original size:22 final size:22
Alignment explanation
Indices: 386418--386490 Score: 65
Period size: 22 Copynumber: 3.2 Consensus size: 22
386408 GAACAGCTCA
*
386418 AGCAATCGAAAAGAAAAACAAC
1 AGCAATAGAAAAGAAAAACAAC
* * *
386440 AGCAAGAGAAAATGAAACAATAGC
1 AGCAATAGAAAA-GAAA-AACAAC
* *
386464 AACAATTGAAAAGAAAAACAAC
1 AGCAATAGAAAAGAAAAACAAC
*
386486 TGCAA
1 AGCAA
386491 AGAGCTACAA
Statistics
Matches: 38, Mismatches: 11, Indels: 4
0.72 0.21 0.08
Matches are distributed among these distances:
22 17 0.45
23 8 0.21
24 13 0.34
ACGTcount: A:0.62, C:0.15, G:0.15, T:0.08
Consensus pattern (22 bp):
AGCAATAGAAAAGAAAAACAAC
Found at i:388593 original size:155 final size:154
Alignment explanation
Indices: 388310--389315 Score: 879
Period size: 154 Copynumber: 6.5 Consensus size: 154
388300 TGTAGCATCA
* * * * * * * *
388310 TTTTAAGTCATTTAGGGTTGCCGTGATACTTTTACGTCGAAGGTATATCCATAAGGGCATTTTCA
1 TTTTAAGTCCTTTAGGGTTACC-AGATACTTTCACGTCGAAGGTATACCCCTAGGGGCATTTTCG
* * * * * *
388375 TAATTTTTTAGAACTGAGTCTTAGATTGTCACCGGGTCCGC-TTTATG-CTGAAGGTTGGCATTT
65 TAATTTTTTAGAACCGAGTCCTAGGTTATCACC-GGTCCACTTTTATGTC-GAAGGTGGGCATTT
* *
388438 AAGATAGGTTCATCCCTTTTCTAGT-CT
128 AGGATAGGTTCACCCCTTTTCTA-TCCT
* * * * * *
388465 TTTTAGGTCCTTTAGGGTTGCCGAGGTACTTTTACGTCGAA-GTATACCCCTAGGGGTATTTTTG
1 TTTTAAGTCCTTTAGGGTTACC-AGATACTTTCACGTCGAAGGTATACCCCTAGGGGCATTTTCG
* * * * *
388529 TAATTTTGTAAAATCGAGTCCTAGGTTATCACCAGGTCCGCTTTTATG-CTGAAGGTGGGTATTT
65 TAATTTTTTAGAACCGAGTCCTAGGTTATCACC-GGTCCACTTTTATGTC-GAAGGTGGGCATTT
* *
388593 ATGATAGGTTCACCCCTTTTTCTATCAT
128 AGGATAGGTTCACCCC-TTTTCTATCCT
* * * *
388621 TTTTAAGTCCTTTAGGGATACCAAGATACTTTCACGTCGAAGGTAT-CCCTTAGGAGCATTTTCA
1 TTTTAAGTCCTTTAGGGTTACC-AGATACTTTCACGTCGAAGGTATACCCCTAGGGGCATTTTCG
* * * ** * *
388685 TATTTTTTTTCATAACCGAGTCCTAGGTAATCATTGAGTCCACTTTTATGTCAAAGGTGGGTATT
65 TA-ATTTTTT-AGAACCGAGTCCTAGGTTATCACCG-GTCCACTTTTATGTCGAAGGTGGGCATT
388750 TAGGATAGGTTCACCCCTTTTCTATCCT
127 TAGGATAGGTTCACCCCTTTTCTATCCT
* * * * *
388778 TTTTAAGTCCTTTAGGGGTACCAGATACTTTCACATCAAAAGTAT-CCCCTAGGGGCATTTTTGT
1 TTTTAAGTCCTTTAGGGTTACCAGATACTTTCACGTCGAAGGTATACCCCTAGGGGCATTTTCGT
* * * * *
388842 -ATTTTTTCGTAACCGAGTCCTAGGTAATCATCGAGTCCGCTTTTATG-CTGAAGGTGGGTATTT
66 AATTTTTTAG-AACCGAGTCCTAGGTTATCACCG-GTCCACTTTTATGTC-GAAGGTGGGCATTT
*
388905 AGGGTAGGTTCACCCCTTTCTCTATCCT
128 AGGATAGGTTCACCCCTTT-TCTATCCT
* * * * *
388933 TTTTAAGTCTTTTAGGGGTACCAGATACTTTCACATCGAAAGTATA-CCCTAGAGGCATTTTCGT
1 TTTTAAGTCCTTTAGGGTTACCAGATACTTTCACGTCGAAGGTATACCCCTAGGGGCATTTTCGT
* * * * *
388997 ACTTTTTT-GGACCGAGTCCTAGGTTATTATCGGGTCTACTTTTATGTCGAAGGTGGGCATTTAG
66 AATTTTTTAGAACCGAGTCCTAGGTTATCA-CCGGTCCACTTTTATGTCGAAGGTGGGCATTTAG
* *
389061 GATAGGTTCATCCCTTTTGTAAGT-CT
130 GATAGGTTCACCCCTTTTCT-A-TCCT
* * * * * ** * *** *
389087 TTTTAAGTCTTTTAGAGTTGCCAGGATACTTTTACGTCGAAGGTATCATCAGTAAGAATATTTTT
1 TTTTAAGTCCTTTAGGGTTACCA-GATACTTTCACGTCGAAGGTAT-ACCCCTAGGGGCATTTTC
* * ** ** * *
389152 GTAATTTTTTAGAACCAACTTGTAGGTCGTCACCGGGCTCACTTATTATGTCAAAGGTGGGCATT
64 GTAATTTTTTAGAACCGAGTCCTAGGTTATCACCGGTC-CACTT-TTATGTCGAAGGTGGGCATT
* *
389217 TAGGATAGGTTCATCCCATTTCTATCCT
127 TAGGATAGGTTCACCCCTTTTCTATCCT
* * * * * *
389245 TTTTAGGTCCTTTAGGGGTATCAGACACTTGT-ACGTCGAAGGTAT-CCCTTAGAGGCATTTTCG
1 TTTTAAGTCCTTTAGGGTTACCAGATACTT-TCACGTCGAAGGTATACCCCTAGGGGCATTTTCG
389308 TAATTTTT
65 TAATTTTT
389316 CTTGAACTTA
Statistics
Matches: 705, Mismatches: 121, Indels: 50
0.80 0.14 0.06
Matches are distributed among these distances:
153 3 0.00
154 203 0.29
155 179 0.25
156 100 0.14
157 82 0.12
158 97 0.14
159 41 0.06
ACGTcount: A:0.23, C:0.18, G:0.21, T:0.38
Consensus pattern (154 bp):
TTTTAAGTCCTTTAGGGTTACCAGATACTTTCACGTCGAAGGTATACCCCTAGGGGCATTTTCGT
AATTTTTTAGAACCGAGTCCTAGGTTATCACCGGTCCACTTTTATGTCGAAGGTGGGCATTTAGG
ATAGGTTCACCCCTTTTCTATCCT
Found at i:389152 original size:312 final size:307
Alignment explanation
Indices: 388310--389315 Score: 982
Period size: 312 Copynumber: 3.2 Consensus size: 307
388300 TGTAGCATCA
* * * * * * *
388310 TTTTAAGTCATTTAGGGTTGCCGTGATACTTTTACGTCGAAGGTATATCCATA-AGGGCATTTTC
1 TTTTAAGTCCTTTAGGGGTACC-AGATACTTTCACGTCGAAGGTAT-CCCTTAGA-GGCATTTTC
* * * * ** * * * *
388374 ATAATTTTTTAGAACTGAGTCTTAGATTGTCACCGGGTCCGC-TTTATG-CTGAAGGTTGGCATT
63 GTAATTTTTTAGAACCGAGTCCTAGGTAATCATCGAGTCCACTTTTATGTC-GAAGGTGGGCATT
* *
388437 TAAGATAGGTTCATCCCTTTTCTAGTCTTTTTAGGTCCTTTAGGGTTGCCGAGG-TACTTTTACG
127 TAGGATAGGTTCATCCCTTTTCTAGTCTTTTTAAGTCCTTTAGGGTTGCC-AGGATACTTTTACG
* * * *
388501 TCGAAGTAT-ACCCCTAGGGGTATTTTTGTA-ATTTTGTAAAATCGAGTCCTAGGTTATCACCAG
191 TCGAAGTATCA-CCCTAGGGGTATTTTTGTATTTTTTGT--AACCGAGTCCTAGGTAATCACGA-
* *
388564 GTCCGCTTTTATGCTGAAGGTGGGTATTTATGATAGGTTCACCCCTTTTTCTATCAT
252 GTCCGCTTTTATGCTGAAGGTGGGTATTTAGGATAGGTTCACCCC-TTTTCTATCCT
* *
388621 TTTTAAGTCCTTTAGGGATACCAAGATACTTTCACGTCGAAGGTATCCCTTAG-GAGCATTTTCA
1 TTTTAAGTCCTTTAGGGGTACC-AGATACTTTCACGTCGAAGGTATCCCTTAGAG-GCATTTTCG
* * * * *
388685 TATTTTTTTTCATAACCGAGTCCTAGGTAATCATTGAGTCCACTTTTATGTCAAAGGTGGGTATT
64 TA-ATTTTTT-AGAACCGAGTCCTAGGTAATCATCGAGTCCACTTTTATGTCGAAGGTGGGCATT
* * * * *
388750 TAGGATAGGTTCACCCCTTTTCTA-TCCTTTTTAAGTCCTTTAGGGGTACCA-GATACTTTCACA
127 TAGGATAGGTTCATCCCTTTTCTAGT-CTTTTTAAGTCCTTTAGGGTTGCCAGGATACTTTTACG
* *
388813 TCAAAAGTATC-CCCTAGGGGCATTTTTGTATTTTTTCGTAACCGAGTCCTAGGTAATCATCGAG
191 TC-GAAGTATCACCCTAGGGGTATTTTTGTATTTTTT-GTAACCGAGTCCTAGGTAATCA-CGAG
*
388877 TCCGCTTTTATGCTGAAGGTGGGTATTTAGGGTAGGTTCACCCCTTTCTCTATCCT
253 TCCGCTTTTATGCTGAAGGTGGGTATTTAGGATAGGTTCACCCCTTT-TCTATCCT
* * *
388933 TTTTAAGTCTTTTAGGGGTACCAGATACTTTCACATCGAAAGTATACCC-TAGAGGCATTTTCGT
1 TTTTAAGTCCTTTAGGGGTACCAGATACTTTCACGTCGAAGGTAT-CCCTTAGAGGCATTTTCGT
* * * * * *
388997 ACTTTTTT-GGACCGAGTCCTAGGTTATTATCGGGTCTACTTTTATGTCGAAGGTGGGCATTTAG
65 AATTTTTTAGAACCGAGTCCTAGGTAATCATCGAGTCCACTTTTATGTCGAAGGTGGGCATTTAG
* * *
389061 GATAGGTTCATCCCTTTTGTAAGTCTTTTTAAGTCTTTTAGAGTTGCCAGGATACTTTTACGTCG
130 GATAGGTTCATCCCTTTTCT-AGTCTTTTTAAGTCCTTTAGGGTTGCCAGGATACTTTTACGTCG
** * ** * * ** ** *
389126 AAGGTATCATCAGTAAGAATATTTTTGTAATTTTTTAG-AACCAACTTGTAGGTCGTCACCG-GG
194 AA-GTATCA-CCCTAGGGGTATTTTTGT-ATTTTTT-GTAACCGAGTCCTAGGTAATCA-CGAGT
* * * * *
389189 CTCACTTATTATG-TCAAAGGTGGGCATTTAGGATAGGTTCATCCCATTTCTATCCT
254 C-CGCTT-TTATGCT-GAAGGTGGGTATTTAGGATAGGTTCACCCCTTTTCTATCCT
* * *
389245 TTTTAGGTCCTTTAGGGGTATCAGACACTTGT-ACGTCGAAGGTATCCCTTAGAGGCATTTTCGT
1 TTTTAAGTCCTTTAGGGGTACCAGATACTT-TCACGTCGAAGGTATCCCTTAGAGGCATTTTCGT
389309 AATTTTT
65 AATTTTT
389316 CTTGAACTTA
Statistics
Matches: 577, Mismatches: 90, Indels: 55
0.80 0.12 0.08
Matches are distributed among these distances:
308 65 0.11
309 25 0.04
310 39 0.07
311 89 0.15
312 243 0.42
313 113 0.20
314 3 0.01
ACGTcount: A:0.23, C:0.18, G:0.21, T:0.38
Consensus pattern (307 bp):
TTTTAAGTCCTTTAGGGGTACCAGATACTTTCACGTCGAAGGTATCCCTTAGAGGCATTTTCGTA
ATTTTTTAGAACCGAGTCCTAGGTAATCATCGAGTCCACTTTTATGTCGAAGGTGGGCATTTAGG
ATAGGTTCATCCCTTTTCTAGTCTTTTTAAGTCCTTTAGGGTTGCCAGGATACTTTTACGTCGAA
GTATCACCCTAGGGGTATTTTTGTATTTTTTGTAACCGAGTCCTAGGTAATCACGAGTCCGCTTT
TATGCTGAAGGTGGGTATTTAGGATAGGTTCACCCCTTTTCTATCCT
Found at i:399355 original size:51 final size:51
Alignment explanation
Indices: 399296--399414 Score: 238
Period size: 51 Copynumber: 2.3 Consensus size: 51
399286 CATGAAAAAT
399296 TGTATCGATACATTATGCCTAATGGCTATAAACAGCTATAATTCAAAGCAA
1 TGTATCGATACATTATGCCTAATGGCTATAAACAGCTATAATTCAAAGCAA
399347 TGTATCGATACATTATGCCTAATGGCTATAAACAGCTATAATTCAAAGCAA
1 TGTATCGATACATTATGCCTAATGGCTATAAACAGCTATAATTCAAAGCAA
399398 TGTATCGATACATTATG
1 TGTATCGATACATTATG
399415 AAAAGTATCG
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 68 1.00
ACGTcount: A:0.38, C:0.17, G:0.14, T:0.31
Consensus pattern (51 bp):
TGTATCGATACATTATGCCTAATGGCTATAAACAGCTATAATTCAAAGCAA
Found at i:403939 original size:16 final size:16
Alignment explanation
Indices: 403883--403939 Score: 53
Period size: 16 Copynumber: 3.6 Consensus size: 16
403873 GTTTAAATTA
*
403883 AGTTATTTTAAGTTCG
1 AGTTATTTTAAGTTTG
* * *
403899 AGTTATATCAGGTTTG
1 AGTTATTTTAAGTTTG
*
403915 -GATTTTTTTAAGTTTG
1 AG-TTATTTTAAGTTTG
403931 AGTTATTTT
1 AGTTATTTT
403940 TATTTAAGTC
Statistics
Matches: 30, Mismatches: 9, Indels: 4
0.70 0.21 0.09
Matches are distributed among these distances:
15 1 0.03
16 28 0.93
17 1 0.03
ACGTcount: A:0.23, C:0.04, G:0.19, T:0.54
Consensus pattern (16 bp):
AGTTATTTTAAGTTTG
Found at i:405451 original size:43 final size:41
Alignment explanation
Indices: 405354--405454 Score: 123
Period size: 43 Copynumber: 2.4 Consensus size: 41
405344 ATGGGGACAA
*
405354 ATACTTTATTTCCTTTTTTCCTTTGTCCTCAAAGAGCAAGAC
1 ATACTTT-TTTCCTTTTTTCCTTTATCCTCAAAGAGCAAGAC
* *
405396 ACA-TTTAATTTCCTTCTTTTCCTTTATCCTCGAAGAGCAAGAC
1 ATACTTT--TTTCCTT-TTTTCCTTTATCCTCAAAGAGCAAGAC
405439 ATACTTCTTTTCCTTT
1 ATACTT-TTTTCCTTT
405455 GTCATCAAAG
Statistics
Matches: 51, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
41 3 0.06
42 11 0.22
43 34 0.67
44 2 0.04
45 1 0.02
ACGTcount: A:0.23, C:0.25, G:0.08, T:0.45
Consensus pattern (41 bp):
ATACTTTTTTCCTTTTTTCCTTTATCCTCAAAGAGCAAGAC
Found at i:405529 original size:61 final size:61
Alignment explanation
Indices: 405459--406388 Score: 834
Period size: 61 Copynumber: 15.3 Consensus size: 61
405449 TCCTTTGTCA
* * * * *
405459 TCAAAGAGCAGGATGCCTTTTCCTTTTAAAACCCATATAAGTTGGAGGCAACTTTTAGTCC
1 TCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCC
* * * *
405520 TCAAAGAGCAGGATGACATTTT-CTATTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCC
1 TCAAAGAGCAGGATG-CCTTTTCCT-TTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCC
* * * * * * *
405582 TCAAATAGCGGGATGCCTTTTTCTTTTCAAAGCCTACACGAG-T--T-G-A---TATA-CCC
1 TCAAAGAGCAGGATGCCTTTTCCTTTT-AAAGCCCACACAAGTTGGTGGCACCTTTTAGTCC
* * * * * *
405635 TCAAAGAGCAGGATTCCTTTTTCATTTAAAAGCCCACACGAGATGGTGGCACTTTTTAGTCC
1 TCAAAGAGCAGGATGCC-TTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCC
* * * * * *
405697 TTAAAGAGGAGGACGCCTTTTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCTTTCAGTCC
1 TCAAAGAGCAGGATGCC---TTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCC
** * * * * * * *
405761 TCAAAGAGCAGGACACTTTTTTCTTTTCAAAGCTCACACTAGTCGGTGGCACCTTTCAATCC
1 TCAAAGAGCAGGATGCCTTTTCCTTTT-AAAGCCCACACAAGTTGGTGGCACCTTTTAGTCC
** * * *
405823 TCAAAGAGCAGGACACCTTTTTCTTTTCAAGCCCACACGAGTTGGTGGCACC-TTTAGTCC
1 TCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCC
* * * *
405883 TCAAAAAGCAGGATGCCATTTT-CTTTTCAAAGCCCACACAAGTTGGTGGCACCCTTCAGTCT
1 TCAAAGAGCAGGATGCC-TTTTCCTTTT-AAAGCCCACACAAGTTGGTGGCACCTTTTAGTCC
* * * *
405945 TCAAGGAGCAGGATGCCTTTTTCTTTTAAAGCCTACACAAGTTGGCGGCACCTTTTAGTCC
1 TCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCC
* ** * *
406006 TCAAAGAGCAGGA--CATTTTCCTTTCGAAGCCCACACAAGCTGGTGGCACCTTCTAGTCC
1 TCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCC
* * ** * * * *
406065 TCAAAAAGGAGGACACCTTTTCCTTTTAAAGCCCACATAAATTGGTGGCACATTTCAGTCC
1 TCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCC
* * ** *
406126 TCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCTACACAAGTTTATGGCACCTTTCAGTCC
1 TCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCC
* * * **
406187 TCAAAAAGAAGGATGCATTTTCCTTTTAAAGCCCAC-CAAGTTGGTGGCACCTTCCAGTCC
1 TCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCC
* * * * * *
406247 TCAAAGAGTAGGA--CGTTTCTCCTTTCAAAGCCCATACAAGTTGGTGGCACATTCTAGTCC
1 TCAAAGAGCAGGATGCCTTT-TCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCC
* * ** * * *
406307 TCAAAGAGCATGACG-CTTTCTCCTTGCAAAGCCCATAAAAGTTGGTGGCACCTTCTAGTCC
1 TCAAAGAGCAGGATGCCTTT-TCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCC
*
406368 TCAAAGAGTAGGATGCACTTT
1 TCAAAGAGCAGGATGC-CTTT
406389 ATTTCCTTTT
Statistics
Matches: 722, Mismatches: 118, Indels: 56
0.81 0.13 0.06
Matches are distributed among these distances:
53 29 0.04
54 11 0.02
56 1 0.00
57 2 0.00
58 6 0.01
59 64 0.09
60 90 0.12
61 303 0.42
62 159 0.22
63 4 0.01
64 53 0.07
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.29
Consensus pattern (61 bp):
TCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCC
Found at i:406112 original size:242 final size:238
Alignment explanation
Indices: 405459--406388 Score: 910
Period size: 242 Copynumber: 3.8 Consensus size: 238
405449 TCCTTTGTCA
* * * * * *
405459 TCAAAGAGCAGGATGCCTTTTCCTTTTAAAACCCATATAAGTTGGAGGCAACTTTTAGTCCTCAA
1 TCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAA
* *
405524 AGAGCAGGATGACATTTT-CTATTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAT
66 AGAGCA-G--GACATTTTCCT-TTCAAAGCCCACACAAGTTGGTGGCA-CCTTTAGTCCTCAAAG
* ** * * ** * * *
405588 AGCGGGATGCCTTTTTCTTTTCAAAGCCTACACGA---GTTG-A--TATA-CCCTCAAAGAGCAG
126 AGCAGGACACCTTTTCCTTTT-AAAGCCCACAAAATTGGTGGCACCTTTAGTCCTCAAAGAGCAG
* * * * * *
405646 GATTCCTTTTTCATTTAAAAGCCCACACGAGATGGTGGCACTTTTTAGTCCT
190 GATGCC-TTTTC-TTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGT-CT
* * * *
405698 T-AAAGAGGAGGACGCCTTTTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCTTTCAGTCCT
1 TCAAAGAGCAGGATGCC---TTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCT
* * * * *
405762 CAAAGAGCAGGACACTTTTTTCTTTTCAAAGCTCACACTAGTCGGTGGCACCTTTCAATCCTCAA
63 CAAAGAGCAGGACA---TTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTT-AGTCCTCAA
* * * * *
405827 AGAGCAGGACACCTTTTTCTTTTCAAGCCCACACGAGTTGGTGGCACCTTTAGTCCTCAAAAAGC
124 AGAGCAGGACACCTTTTCCTTTTAAAGCCCACA-AAATTGGTGGCACCTTTAGTCCTCAAAGAGC
*
405892 AGGATGCCATTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCCTTCAGTCT
188 AGGATGCC-TTTTCTTTT-AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCT
* * * * *
405945 TCAAGGAGCAGGATGCCTTTTTCTTTTAAAGCCTACACAAGTTGGCGGCACCTTTTAGTCCTCAA
1 TCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAA
* * * *
406010 AGAGCAGGACATTTTCCTTTCGAAGCCCACACAAGCTGGTGGCACCTTCTAGTCCTCAAAAAGGA
66 AGAGCAGGACATTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTT-TAGTCCTCAAAGAGCA
* *
406075 GGACACCTTTTCCTTTTAAAGCCCACATAAATTGGTGGCACATTTCAGTCCTCAAAGAGCAGGAC
130 GGACACCTTTTCCTTTTAAAGCCCACA-AAATTGGTGGCACCTTT-AGTCCTCAAAGAGCAGGAT
* ** *
406140 GCCTTTTCCTTTTAAAGCCTACACAAGTTTATGGCACCTTTCAGTCC
193 GCCTTTT-CTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCT
* * * *
406187 TCAAAAAGAAGGATGCATTTTCCTTTTAAAGCCCAC-CAAGTTGGTGGCACCTTCCAGTCCTCAA
1 TCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAA
* * * *
406251 AGAGTAGGACGTTTCTCCTTTCAAAGCCCATACAAGTTGGTGGCACATTCTAGTCCTCAAAGAGC
66 AGAGCAGGACATTT-TCCTTTCAAAGCCCACACAAGTTGGTGGCACCTT-TAGTCCTCAAAGAGC
* * ** * *
406316 ATGAC-GCTTTCTCCTTGCAAAGCCCATAAAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGTAGG
129 AGGACACCTTT-TCCTTTTAAAGCCCACAAAA-TTGGTGGCACCTT-TAGTCCTCAAAGAGCAGG
406380 ATGCACTTT
191 ATGC-CTTT
406389 ATTTCCTTTT
Statistics
Matches: 573, Mismatches: 92, Indels: 48
0.80 0.13 0.07
Matches are distributed among these distances:
238 17 0.03
239 1 0.00
240 14 0.02
241 144 0.25
242 239 0.42
243 31 0.05
244 3 0.01
245 54 0.09
247 9 0.02
248 61 0.11
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.29
Consensus pattern (238 bp):
TCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAA
AGAGCAGGACATTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTAGTCCTCAAAGAGCAG
GACACCTTTTCCTTTTAAAGCCCACAAAATTGGTGGCACCTTTAGTCCTCAAAGAGCAGGATGCC
TTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCT
Found at i:406383 original size:181 final size:181
Alignment explanation
Indices: 405459--406384 Score: 799
Period size: 181 Copynumber: 5.1 Consensus size: 181
405449 TCCTTTGTCA
* * * * * * *
405459 TCAAAGAGCAGGATGCCTTTTCCTTTTAAAACCCATATAAGTTGGAGGCAACTTTTAGTCCTCAA
1 TCAAAGAGCAGGATGCATTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAA
* * *
405524 AGAGCAGGATGACATTTT-CTATTCAAAGCCCACACGAGTTGGTGGCACCCTTT-AGTCCTCAAA
66 AAAGCA-G--GACATTTTCCT-TTCAAAGCCCACACAAGTTGGTGGCA-CATTTCAGTCCTCAAA
* * * * * * * *
405587 TAGCGGGATGCCTTTTTCTTTTCAAAGCCTACACGAG-T--T-G-A--TAT-A-CCC
126 GAGCAGGACGCC-TTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCC
* * * * * * * * *
405635 TCAAAGAGCAGGATTCCTTTTTCATTTAAAAGCCCACACGAGATGGTGGCACTTTTTAGTCCTTA
1 TCAAAGAGCAGGA-TGCATTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCA
* * * * * * *
405700 AAGAGGAGGACGCCTTTTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCTTTCAGTCCTCAA
65 AAAAGCAGGA---C--ATTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACATTTCAGTCCTCAA
* * * * * * *
405765 AGAGCAGGACACTTTTTTCTTTTCAAAGCTCACACTAGTCGGTGGCACCTTTCAATCC
125 AGAGCAGGACGC-CTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCC
** * * * *
405823 TCAAAGAGCAGGACACCTTTTTCTTTTCAAGCCCACACGAGTTGGTGGCACCTT-TAGTCCTCAA
1 TCAAAGAGCAGGATGCATTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAA
* ** * *
405887 AAAGCAGGATGCCATTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCCTTCAGTCTTCAAGGA
66 AAAGCAGGA---CATTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACATTTCAGTCCTCAAAGA
* * * * * *
405952 GCAGGATGCCTTTTTCTTTTAAAGCCTACACAAGTTGGCGGCACCTTTTAGTCC
128 GCAGGACGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCC
** *
406006 TCAAAGAGCAGGA--CATTTTCCTTTCGAAGCCCACACAAGCTGGTGGCACCTTCTAGTCCTCAA
1 TCAAAGAGCAGGATGCATTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAA
* * * *
406069 AAAGGAGGACACCTTTTCCTTTTAAAGCCCACATAAATTGGTGGCACATTTCAGTCCTCAAAGAG
66 AAAGCAGGACA--TTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACATTTCAGTCCTCAAAGAG
* * **
406134 CAGGACGCCTTTTCCTTTTAAAGCCTACACAAGTTTATGGCACCTTTCAGTCC
129 CAGGACGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCC
* * *
406187 TCAAAAAGAAGGATGCATTTTCCTTTTAAAGCCCAC-CAAGTTGGTGGCACCTTCCAGTCCTCAA
1 TCAAAGAGCAGGATGCATTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAA
* * * *
406251 AGAGTAGGACGTTTCTCCTTTCAAAGCCCATACAAGTTGGTGGCACA-TTCTAGTCCTCAAAGAG
66 AAAGCAGGACATTT-TCCTTTCAAAGCCCACACAAGTTGGTGGCACATTTC-AGTCCTCAAAGAG
* * * *
406315 CATGACG-CTTTCTCCTTGCAAAGCCCATAAAAGTTGGTGGCACC-TTCTAGTCC
129 CAGGACGCCTTT-TCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC-AGTCC
*
406368 TCAAAGAGTAGGATGCA
1 TCAAAGAGCAGGATGCA
406385 CTTTATTTCC
Statistics
Matches: 619, Mismatches: 104, Indels: 49
0.80 0.13 0.06
Matches are distributed among these distances:
174 2 0.00
176 14 0.02
177 45 0.07
178 5 0.01
179 69 0.11
180 14 0.02
181 227 0.37
182 53 0.09
183 67 0.11
184 54 0.09
186 21 0.03
187 33 0.05
188 15 0.02
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.29
Consensus pattern (181 bp):
TCAAAGAGCAGGATGCATTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAA
AAAGCAGGACATTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACATTTCAGTCCTCAAAGAGCA
GGACGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCC
Found at i:409975 original size:42 final size:42
Alignment explanation
Indices: 409914--410037 Score: 162
Period size: 42 Copynumber: 2.9 Consensus size: 42
409904 CGTTGCGACA
*
409914 CCTTTGTCCTCAAAAAGCAGGACATACTTTATTTCCTTTTCT
1 CCTTTGTCCTCAAAGAGCAGGACATACTTTATTTCCTTTTCT
* *
409956 CCTTTGTCCTCAAAGAGCAGGACACA-TTTAATTTCCTTATTTT
1 CCTTTGTCCTCAAAGAGCAGGACATACTTT-ATTTCCTT-TTCT
* *
409999 CCTTTGTCCTTAAAGAGCAAGACATACTCTT-TTTCCTTT
1 CCTTTGTCCTCAAAGAGCAGGACATACT-TTATTTCCTTT
410038 GTCCTCAAAG
Statistics
Matches: 72, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
41 3 0.04
42 33 0.46
43 33 0.46
44 1 0.01
45 2 0.03
ACGTcount: A:0.24, C:0.25, G:0.10, T:0.40
Consensus pattern (42 bp):
CCTTTGTCCTCAAAGAGCAGGACATACTTTATTTCCTTTTCT
Found at i:418384 original size:62 final size:61
Alignment explanation
Indices: 418095--419279 Score: 925
Period size: 62 Copynumber: 19.4 Consensus size: 61
418085 TTTAGCCCTC
* * * *
418095 TAGTCCTCAAAGAGCAGGATGACTTTTCCTTTT-AAAGCCCATACAAGTTTGTGGCACCTTT
1 TAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACC-TT
* * *
418156 TCGTCCTCAAAGAGCAGGATGCCTTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCCCT
1 TAGTCCTCAAAGAGCAGGATGCC-TTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA-CCTT
* * * ** * * * *
418219 CAGTCCTTAAAGAGTAGGACACATTTTCCTTTT-AAAGCTCACACAAGTTAGTGGCACCTTT
1 TAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACC-TT
*
418280 TAGTCCTCAAAGAGCAGGATGCCATTTT-TTTTCAAAGCCCACACAAGTTGGTGGCACCCTT
1 TAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA-CCTT
* *
418341 TAGTCCTCAAAGAGC-GAGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTAGCACTCTT
1 TAGTCCTCAAAGAGCAG-GATGCCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCAC-CTT
* * ** * * *
418403 TAGTCCTAAAAAAATAGGATACCTTTTTCATTTCAAAGCCCAAACAAGTTGGTGGCACCTTT
1 TAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACC-TT
* * * * *
418465 TAGTCCTCAAAGAGTAGGACGCCATTTTCCTTTT-AAAACCCACACAAGTTGGTGGCACTTTT
1 TAGTCCTCAAAGAGCAGGATGCC-TTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCAC-CTT
* * **
418527 TAGTCCTCAAAGAGTAGGATGCCTTTTTTCTTTT-AAAGCCCACGCAAGTTGGTGGCAATTT
1 TAGTCCTCAAAGAGCAGGATGCC-TTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTT
* * ** * * *
418588 TCAATCCTCAAAGAGCAAGACACTTTTTTCTTTTCAAAGCCCACATAAGTTGGTGGCATCTT
1 T-AGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTT
* * * * *
418650 TCAGTCCTTAAAAAGCAGGA--CACTTTTT-TTTTC-AAGCCCAGATAAGTTGGTGGCACTTT
1 T-AGTCCTCAAAGAGCAGGATGC-CTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTT
* * * *
418709 TAGTCCTTAAAGAGCA-GA-ACATTATTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCCAT
1 TAGTCCTCAAAGAGCAGGATGC-CT-TTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA-CCTT
* * * * * * * *
418771 CAGTCCTCAAGGAGTAGGATGCCTTTTCCTTTT-AAATCCTATATAAGTTGGTGGCACCTT
1 TAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTT
* * * ** *
418831 CCAGTCCTCAAAGAGCAGGA---C--ATTCCTTTCAAAGCTTACACAAGTTGGTGGTACCTT
1 -TAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTT
* * ** * * *
418888 CTAGTCCTTAAAGAACAGGACACCTTTTTCCTTTT-AAAGCCCACACAAGTTGCTAGCACTTT
1 -TAGTCCTCAAAGAGCAGGATGCCTTTTT-CTTTTCAAAGCCCACACAAGTTGGTGGCACCTT
* * * * * * * *
418950 TCAGACCTCAAAGAGTAGGACGCC-TTTTCTTATGAAAGCCTACACAAATTGGTGGCACTTT
1 T-AGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTT
* * * * * * *
419011 TCAGTCCTCAAATAGCAGGACAGTCTTTTCCTTTT-AAGGCCCACACAAGTTTGTGGCATCTT
1 T-AGTCCTCAAAGAGCAGGA-TGCCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTT
* ** * * * *
419073 TCAGTCCTCAAAAAAAAAGACGCATTTTCCTTTT-AAAGCCCACACAAGTTGGTGGCACCTT
1 T-AGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTT
* * * * * * ** * * *
419134 CCAGTCCTCAATGAGCAGAACG-C--TTTCCTTTCAAAGTCCATTCAAGTTGGTGACATCTC
1 -TAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTT
* * * *
419193 TAGTCCTCAAAGAGCAGGA--CGTTTTCTCCTTGCAAAGCCCATACAAGTTGGTGGCACCTT
1 TAGTCCTCAAAGAGCAGGATGCCTTTT-TCTTTTCAAAGCCCACACAAGTTGGTGGCACCTT
419253 CTAGT-CTCCAAAGAGCA-GATGCACTTT
1 -TAGTCCT-CAAAGAGCAGGATGC-CTTT
419280 ATTTCCTTTT
Statistics
Matches: 906, Mismatches: 172, Indels: 90
0.78 0.15 0.08
Matches are distributed among these distances:
56 5 0.01
57 41 0.05
58 40 0.04
59 51 0.06
60 58 0.06
61 295 0.33
62 349 0.39
63 64 0.07
64 3 0.00
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (61 bp):
TAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTT
Found at i:419322 original size:41 final size:40
Alignment explanation
Indices: 419261--419394 Score: 137
Period size: 41 Copynumber: 3.2 Consensus size: 40
419251 TTCTAGTCTC
*
419261 CAAAGAGCAGATGCACTTTATTTCCTTTTCCCTTTGTCCT
1 CAAAGAGCAGACGCACTTTATTTCCTTTTCCCTTTGTCCT
* *
419301 CAAAGAGCATGACGCACTTTATTTCCTTTTCTCTTTTATCCT
1 CAAAGAGCA-GACGCACTTTATTTCCTTTTC-CCTTTGTCCT
* *
419343 CAAAGAGTAGGACACA-TTTAATTTTCGTCTTTT-CCTTTGTCCT
1 CAAAGAGCA-GACGCACTTT-A-TTTC--CTTTTCCCTTTGTCCT
*
419386 CGAAGAGCA
1 CAAAGAGCA
419395 AGACATATTC
Statistics
Matches: 78, Mismatches: 10, Indels: 9
0.80 0.10 0.09
Matches are distributed among these distances:
40 9 0.12
41 23 0.29
42 22 0.28
43 19 0.24
45 5 0.06
ACGTcount: A:0.23, C:0.25, G:0.13, T:0.39
Consensus pattern (40 bp):
CAAAGAGCAGACGCACTTTATTTCCTTTTCCCTTTGTCCT
Found at i:422830 original size:158 final size:156
Alignment explanation
Indices: 422485--423198 Score: 871
Period size: 158 Copynumber: 4.5 Consensus size: 156
422475 ATTTTTTAAA
* * *
422485 AAAACATCAATTTTTTACAATCGGGAATACTCCAACCTTATTATTTCTGAAGGGATACTCCAACC
1 AAAACACCAATTTTTCACAATCGGG-ATACTCCAACC-TGTTATTTCTGAAGGGATACTCCAACC
* * *
422550 CCAGTTTTATTTCCAAAACATCGATTTTTCCACAATC-GAGGATACTCTAACCCTGTTA-TTTCT
64 CCGGTTTTATTTCCAAAACATCGATTTTT-CACAATCGGA-GATACTCCAACCCCGTTATTTTC-
* *
422613 GAGGGGATACTCCAACCCCGGTTTTATTCCC
126 GAGGGGATACTCCAACCCCGATTTTATTTCC
* * * *
422644 AAAACATCAATTTTTCACGATTGGGGATACTCCAACTCTGTTATTTCTGAAGAGATACTCCAACC
1 AAAACACCAATTTTTCAC-AATCGGGATACTCCAAC-CTGTTATTTCTGAAGGGATACTCCAACC
* *
422709 CCGGTTTTATTTCCAAAACATTGATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTTCGAG
64 CCGGTTTTATTTCCAAAACATCGATTTTTCACAATCGGAGATACTCCAACCCCGTTATTTTCGAG
* * *
422774 GAGATACTTCAACCCCGATTTTATTTCT
129 GGGATACTCCAACCCCGATTTTATTTCC
* * * *
422802 AAAACACCAATTTTCCACAATCGAGGATACTCCAATCCTATTATTTCTGAGGGGATACTCCAAAC
1 AAAACACCAATTTTTCACAATCG-GGATACTCCAA-CCTGTTATTTCTGAAGGGATACTCCAACC
* * *
422867 CCAGTTTTATTTCCAAAACATCGATTTTTCACAACCGGAGATACTCTAACCCCGTTATTTTCGA-
64 CCGGTTTTATTTCCAAAACATCGATTTTTCACAATCGGAGATACTCCAACCCCGTTATTTTCGAG
** *
422931 GGGATACTCCAACCTAG-TTTTCTTTCC
129 GGGATACTCCAACCCCGATTTTATTTCC
* * *
422958 AAAACACCGATTTTTCACAATCGGGAATACTCCGACCCCGTTATTTCTGAAGGGATACTCCAACC
1 AAAACACCAATTTTTCACAATCGGG-ATACTCC-AACCTGTTATTTCTGAAGGGATACTCCAACC
* * * * * *
423023 CTGATTTTATTTCCAAAACATCGATTTTCCACAATCGGAGATACTTCGACCCCGTTATTTTCAAG
64 CCGGTTTTATTTCCAAAACATCGATTTTTCACAATCGGAGATACTCCAACCCCGTTATTTTCGAG
* *
423088 GGGATACTCCAATCCCGATTTTATTTCT
129 GGGATACTCCAACCCCGATTTTATTTCC
* * *
423116 AAAATACCGATTTTTCACAATCGAGGATACTCCAACCTCGTTATTT-TCGAGGGGATACTCCAAC
1 AAAACACCAATTTTTCACAATCG-GGATACTCCAACCT-GTTATTTCT-GAAGGGATACTCCAAC
* * *
423180 CCTGATTTTATCTCCAAAA
63 CCCGGTTTTATTTCCAAAA
423199 TATTAAACTT
Statistics
Matches: 482, Mismatches: 60, Indels: 27
0.85 0.11 0.05
Matches are distributed among these distances:
155 2 0.00
156 116 0.24
157 35 0.07
158 236 0.49
159 87 0.18
160 6 0.01
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.32
Consensus pattern (156 bp):
AAAACACCAATTTTTCACAATCGGGATACTCCAACCTGTTATTTCTGAAGGGATACTCCAACCCC
GGTTTTATTTCCAAAACATCGATTTTTCACAATCGGAGATACTCCAACCCCGTTATTTTCGAGGG
GATACTCCAACCCCGATTTTATTTCC
Found at i:423077 original size:314 final size:316
Alignment explanation
Indices: 422458--423198 Score: 980
Period size: 314 Copynumber: 2.4 Consensus size: 316
422448 TTTCACAATC
* *** * *
422458 GGAGATACTCTAACCCC-ATTTT-TTAAAAAAACATCAATTTTTTACAATCG-GGAATACTCCAA
1 GGAGATACTCCAACCCCGATTTTATTTCTAAAACACCAATTTTTCACAATCGAGG-ATACTCCAA
* *
422520 CCTTATTATTTCTGAAGGGATACTCCAACCCCAGTTTTATTTCCAAAACATCGATTTTTCCACAA
65 CC-TATTATTTCTGAGGGGATACTCCAAACCCAGTTTTATTTCCAAAACATCGATTTTTCCACAA
* * *
422585 TCGAGGATACTCTAACCCTGTTATTTCTGAGGGGATACTCCAACCCCGGTTTTATTCCCAAAACA
129 CCGAGGATACTCTAACCCCGTTATTTCTGAGGGGATACTCCAACCCCAGTTTTATTCCCAAAACA
* * * * * * *
422650 TCAATTTTTCACGATTGGGGATACTCCAACTCTGTTATTTCTGAAGAGATACTCCAACCCCGGTT
194 CCAATTTTTCACAATCGGGAATACTCCAACCCCGTTATTTCTGAAGAGATACTCCAACCCCGATT
* * * *
422715 TTATTTCCAAAACATTGATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTTCGA
259 TTATTTCCAAAACATCGATTTTCCACAATCGGAGATACTCCAACCCCGTTATTTTCAA
* *
422773 GGAGATACTTCAACCCCGATTTTATTTCTAAAACACCAATTTTCCACAATCGAGGATACTCCAAT
1 GGAGATACTCCAACCCCGATTTTATTTCTAAAACACCAATTTTTCACAATCGAGGATACTCCAA-
422838 CCTATTATTTCTGAGGGGATACTCCAAACCCAGTTTTATTTCCAAAACATCGATTTTT-CACAAC
65 CCTATTATTTCTGAGGGGATACTCCAAACCCAGTTTTATTTCCAAAACATCGATTTTTCCACAAC
* * *
422902 CG-GAGATACTCTAACCCCGTTATTT-TCGA-GGGATACTCCAA-CCTAGTTTTCTTTCCAAAAC
130 CGAG-GATACTCTAACCCCGTTATTTCT-GAGGGGATACTCCAACCCCAGTTTTATTCCCAAAAC
* * * *
422963 ACCGATTTTTCACAATCGGGAATACTCCGACCCCGTTATTTCTGAAGGGATACTCCAACCCTGAT
193 ACCAATTTTTCACAATCGGGAATACTCCAACCCCGTTATTTCTGAAGAGATACTCCAACCCCGAT
* *
423028 TTTATTTCCAAAACATCGATTTTCCACAATCGGAGATACTTCGACCCCGTTATTTTCAA
258 TTTATTTCCAAAACATCGATTTTCCACAATCGGAGATACTCCAACCCCGTTATTTTCAA
* * * *
423087 GGGGATACTCCAATCCCGATTTTATTTCTAAAATACCGATTTTTCACAATCGAGGATACTCCAAC
1 GGAGATACTCCAACCCCGATTTTATTTCTAAAACACCAATTTTTCACAATCGAGGATACTCCAAC
* * *
423152 CTCGTTATTT-TCGAGGGGATACTCC-AACCCTGATTTTATCTCCAAAA
66 CT-ATTATTTCT-GAGGGGATACTCCAAACCCAG-TTTTATTTCCAAAA
423199 TATTAAACTT
Statistics
Matches: 375, Mismatches: 42, Indels: 19
0.86 0.10 0.04
Matches are distributed among these distances:
313 10 0.03
314 213 0.57
315 29 0.08
316 34 0.09
317 85 0.23
318 4 0.01
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.32
Consensus pattern (316 bp):
GGAGATACTCCAACCCCGATTTTATTTCTAAAACACCAATTTTTCACAATCGAGGATACTCCAAC
CTATTATTTCTGAGGGGATACTCCAAACCCAGTTTTATTTCCAAAACATCGATTTTTCCACAACC
GAGGATACTCTAACCCCGTTATTTCTGAGGGGATACTCCAACCCCAGTTTTATTCCCAAAACACC
AATTTTTCACAATCGGGAATACTCCAACCCCGTTATTTCTGAAGAGATACTCCAACCCCGATTTT
ATTTCCAAAACATCGATTTTCCACAATCGGAGATACTCCAACCCCGTTATTTTCAA
Found at i:423200 original size:79 final size:78
Alignment explanation
Indices: 422485--423198 Score: 787
Period size: 79 Copynumber: 9.1 Consensus size: 78
422475 ATTTTTTAAA
* * *** *
422485 AAAACATCAATTTTTTACAATCGGGAATACTCCAACCTTATTATTTCTGAAGGGATACTCCAACC
1 AAAACATCGATTTTTCACAATCGGG-ATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACC
422550 CC-AGTTTTATTTCC
65 CCGA-TTTTATTTCC
* *
422564 AAAACATCGATTTTTCCACAATCGAGGATACTCTAACCCTGTTATTTCTGAGGGGATACTCCAAC
1 AAAACATCGATTTTT-CACAATCG-GGATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAAC
* *
422629 CCCGGTTTTATTCCC
64 CCCGATTTTATTTCC
* * * * * * *
422644 AAAACATCAATTTTTCACGATTGGGGATACTCCAACTCTGTTATTTCTGAAGAGATACTCCAACC
1 AAAACATCGATTTTTCAC-AATCGGGATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACC
*
422709 CCGGTTTTATTTCC
65 CCGATTTTATTTCC
* * *
422723 AAAACATTGATTTTTCACAATCGGGGATACTCCAACCCCGTTATTT-TCGAGGAGATACTTCAAC
1 AAAACATCGATTTTTCACAATC-GGGATACTCCAACCCCGTTATTTCT-GAGGGGATACTCCAAC
*
422787 CCCGATTTTATTTCT
64 CCCGATTTTATTTCC
* * * * ** *
422802 AAAACACCAATTTTCCACAATCGAGGATACTCCAATCCTATTATTTCTGAGGGGATACTCCAAAC
1 AAAACATCGATTTTTCACAATCG-GGATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACC
422867 CC-AGTTTTATTTCC
65 CCGA-TTTTATTTCC
* *
422881 AAAACATCGATTTTTCACAACCGGAGATACTCTAACCCCGTTATTT-TCGA-GGGATACTCCAAC
1 AAAACATCGATTTTTCACAATCGG-GATACTCCAACCCCGTTATTTCT-GAGGGGATACTCCAAC
** *
422944 CTAG-TTTTCTTTCC
64 CCCGATTTTATTTCC
* * *
422958 AAAACACCGATTTTTCACAATCGGGAATACTCCGACCCCGTTATTTCTGAAGGGATACTCCAACC
1 AAAACATCGATTTTTCACAATCGGG-ATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACC
*
423023 CTGATTTTATTTCC
65 CCGATTTTATTTCC
* * * * *
423037 AAAACATCGATTTTCCACAATCGGAGATACTTCGACCCCGTTATTT-TCAAGGGGATACTCCAAT
1 AAAACATCGATTTTTCACAATCGG-GATACTCCAACCCCGTTATTTCT-GAGGGGATACTCCAAC
*
423101 CCCGATTTTATTTCT
64 CCCGATTTTATTTCC
* * *
423116 AAAATACCGATTTTTCACAATCGAGGATACTCCAACCTCGTTATTT-TCGAGGGGATACTCCAAC
1 AAAACATCGATTTTTCACAATCG-GGATACTCCAACCCCGTTATTTCT-GAGGGGATACTCCAAC
* *
423180 CCTGATTTTATCTCC
64 CCCGATTTTATTTCC
423195 AAAA
1 AAAA
423199 TATTAAACTT
Statistics
Matches: 541, Mismatches: 75, Indels: 38
0.83 0.11 0.06
Matches are distributed among these distances:
76 1 0.00
77 51 0.09
78 37 0.07
79 377 0.70
80 73 0.13
81 2 0.00
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.32
Consensus pattern (78 bp):
AAAACATCGATTTTTCACAATCGGGATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCC
CGATTTTATTTCC
Found at i:428734 original size:69 final size:69
Alignment explanation
Indices: 428623--428761 Score: 242
Period size: 69 Copynumber: 2.0 Consensus size: 69
428613 CACACAAGAT
* * * *
428623 ACTTATAAGAAAATAAAAAATAACTTTGGCAGAGAATGACATGTGTACGTGCATCAAACATAAGA
1 ACTTAAAAGAAAATAAAAAATAACATTGGAAGAGAATGACATGTGTACATGCATCAAACATAAGA
428688 GTAG
66 GTAG
428692 ACTTAAAAGAAAATAAAAAATAACATTGGAAGAGAATGACATGTGTACATGCATCAAACATAAGA
1 ACTTAAAAGAAAATAAAAAATAACATTGGAAGAGAATGACATGTGTACATGCATCAAACATAAGA
428757 GTAG
66 GTAG
428761 A
1 A
428762 AGTAATTTAA
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
69 66 1.00
ACGTcount: A:0.50, C:0.11, G:0.18, T:0.22
Consensus pattern (69 bp):
ACTTAAAAGAAAATAAAAAATAACATTGGAAGAGAATGACATGTGTACATGCATCAAACATAAGA
GTAG
Found at i:431059 original size:55 final size:55
Alignment explanation
Indices: 430964--431073 Score: 141
Period size: 55 Copynumber: 2.0 Consensus size: 55
430954 AATTTAAGAA
* * *
430964 TCAGTTAAAAGTAATTTGACATAAGTACCTAGCAACGAGAACAAGTCTATATTCC
1 TCAGTTAAAAGTAATTTGACATAAGTACCTACCAAAGAGAACAAGTCCATATTCC
* * * *
431019 TCAGTTAAAAGT-TTTCTGTCATAAGTCCCTACCAAAGAGAACAATTCCATATTCC
1 TCAGTTAAAAGTAATT-TGACATAAGTACCTACCAAAGAGAACAAGTCCATATTCC
431074 CTCCTATACT
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
54 2 0.04
55 45 0.96
ACGTcount: A:0.37, C:0.21, G:0.13, T:0.29
Consensus pattern (55 bp):
TCAGTTAAAAGTAATTTGACATAAGTACCTACCAAAGAGAACAAGTCCATATTCC
Found at i:432260 original size:1 final size:1
Alignment explanation
Indices: 432254--432279 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
432244 CTGCAAAGTG
432254 AAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAA
432280 GACCAGCAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:432330 original size:40 final size:40
Alignment explanation
Indices: 432286--432368 Score: 166
Period size: 40 Copynumber: 2.1 Consensus size: 40
432276 AAAAGACCAG
432286 CAAGGAAAATAACAAAAGTGAAAAATCAGAACCAGCAAAC
1 CAAGGAAAATAACAAAAGTGAAAAATCAGAACCAGCAAAC
432326 CAAGGAAAATAACAAAAGTGAAAAATCAGAACCAGCAAAC
1 CAAGGAAAATAACAAAAGTGAAAAATCAGAACCAGCAAAC
432366 CAA
1 CAA
432369 CTCAAGGAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.60, C:0.18, G:0.14, T:0.07
Consensus pattern (40 bp):
CAAGGAAAATAACAAAAGTGAAAAATCAGAACCAGCAAAC
Found at i:432698 original size:17 final size:17
Alignment explanation
Indices: 432677--432719 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
432667 TTAAATTTTT
432677 AGGTCATTTTCAGGTTC
1 AGGTCATTTTCAGGTTC
* * *
432694 GGGTCATTATCGGGTTC
1 AGGTCATTTTCAGGTTC
432711 AGGTCATTT
1 AGGTCATTT
432720 CAATTTTGGG
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.16, C:0.16, G:0.28, T:0.40
Consensus pattern (17 bp):
AGGTCATTTTCAGGTTC
Found at i:433756 original size:214 final size:214
Alignment explanation
Indices: 433386--433773 Score: 598
Period size: 214 Copynumber: 1.8 Consensus size: 214
433376 TATTCAGAGT
*
433386 CAACAAATATCTAACAATACCTTCAGCCGTTCATTTTCAGCAGTAAGCGTATTCATTAATTCATC
1 CAACAAATATCTAACAATACCTTCAGCCGTTCATTTTCAGCAGTAAGCGTATTCATCAATTCATC
* * * * *
433451 ACTAATAACAGGGACCTCCTTAATCATAGGAAATTGTTCAGCAATGTTCTTAGCAGTTTCACTTT
66 ACTAATAACAGGGACCTCCTGAATCACAGGAAATTGCTCAGCAATGTTCTTAGCAGCTTCACTCT
* *
433516 CCTTGATTAGCAATTCTTTTGTTTCCTGAAACTCAAATTGCATCCAGAAGGCCTTCTAGTCAAAC
131 CCTTGACTAGCAATTCTTTAGTTTCCTGAAACTCAAATTGCATCCAGAAGGCCTTCTAGTCAAAC
433581 TTAAGGTTTTATTAAGAAG
196 TTAAGGTTTTATTAAGAAG
* * * **
433600 CAACAAATGTCTAACAATACCTTCATCTGTTCATTTTCAGCAGTAAGTTTATTCATCAATTCATC
1 CAACAAATATCTAACAATACCTTCAGCCGTTCATTTTCAGCAGTAAGCGTATTCATCAATTCATC
* * * *
433665 ATTAATAACAGGGACCTCCTGAATCACAGGAACTTGCTCAGGAATGTTCTTTGCAGCTTCA-TGC
66 ACTAATAACAGGGACCTCCTGAATCACAGGAAATTGCTCAGCAATGTTCTTAGCAGCTTCACT-C
*
433729 TCCTTGACTAGCAATTCTTTAGTTTCCTGAAACTCAAGTTGCATC
130 TCCTTGACTAGCAATTCTTTAGTTTCCTGAAACTCAAATTGCATC
433774 TTGTGCAAAG
Statistics
Matches: 155, Mismatches: 18, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
213 1 0.01
214 154 0.99
ACGTcount: A:0.30, C:0.22, G:0.14, T:0.34
Consensus pattern (214 bp):
CAACAAATATCTAACAATACCTTCAGCCGTTCATTTTCAGCAGTAAGCGTATTCATCAATTCATC
ACTAATAACAGGGACCTCCTGAATCACAGGAAATTGCTCAGCAATGTTCTTAGCAGCTTCACTCT
CCTTGACTAGCAATTCTTTAGTTTCCTGAAACTCAAATTGCATCCAGAAGGCCTTCTAGTCAAAC
TTAAGGTTTTATTAAGAAG
Found at i:444191 original size:2 final size:2
Alignment explanation
Indices: 444178--444216 Score: 55
Period size: 2 Copynumber: 20.5 Consensus size: 2
444168 CCATAGTCTA
*
444178 AT AT AT -T A- AT AT AT AT AT AT AT AT AG AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
444217 ACAAATGTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
1 2 0.06
2 31 0.94
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (2 bp):
AT
Found at i:445154 original size:23 final size:23
Alignment explanation
Indices: 445111--445175 Score: 67
Period size: 23 Copynumber: 2.8 Consensus size: 23
445101 CACTTATTCG
* *
445111 TGAATATATTCGGTTATATGTTCA
1 TGAAAATATTCGTTTA-ATGTTCA
** * *
445135 TGACTATGTTCGTTTAATGTTCC
1 TGAAAATATTCGTTTAATGTTCA
445158 TGAAAATATTCGTTTAAT
1 TGAAAATATTCGTTTAAT
445176 TTAAGTGAAT
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
23 21 0.62
24 13 0.38
ACGTcount: A:0.28, C:0.11, G:0.15, T:0.46
Consensus pattern (23 bp):
TGAAAATATTCGTTTAATGTTCA
Found at i:452098 original size:15 final size:16
Alignment explanation
Indices: 452062--452101 Score: 55
Period size: 15 Copynumber: 2.5 Consensus size: 16
452052 AGTAATATTT
*
452062 ATAAAATTTTTAATTAA
1 ATAAAA-TTATAATTAA
452079 ATAAAATTATAATT-A
1 ATAAAATTATAATTAA
452094 ATAAAATT
1 ATAAAATT
452102 TATTTAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 9 0.41
16 7 0.32
17 6 0.27
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
ATAAAATTATAATTAA
Found at i:452104 original size:16 final size:17
Alignment explanation
Indices: 452062--452104 Score: 63
Period size: 16 Copynumber: 2.6 Consensus size: 17
452052 AGTAATATTT
*
452062 ATAAAATTTTTAATTAA
1 ATAAAATTTATAATTAA
452079 ATAAAA-TTATAATT-A
1 ATAAAATTTATAATTAA
452094 ATAAAATTTAT
1 ATAAAATTTAT
452105 TTAAAATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
15 7 0.29
16 11 0.46
17 6 0.25
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
ATAAAATTTATAATTAA
Found at i:452184 original size:17 final size:17
Alignment explanation
Indices: 452120--452189 Score: 63
Period size: 17 Copynumber: 4.1 Consensus size: 17
452110 ATTATTTAAC
452120 AAATAAATTAAAAT-TA
1 AAATAAATTAAAATATA
* * *
452136 AAATTAAA-TCATATAAA
1 AAA-TAAATTAAAATATA
**
452153 AAATTTATATAAAATATA
1 AAATAAAT-TAAAATATA
452171 AAATAAATTAAAATATA
1 AAATAAATTAAAATATA
452188 AA
1 AA
452190 TTTTTATAAA
Statistics
Matches: 40, Mismatches: 10, Indels: 7
0.70 0.18 0.12
Matches are distributed among these distances:
16 9 0.22
17 19 0.47
18 12 0.30
ACGTcount: A:0.67, C:0.01, G:0.00, T:0.31
Consensus pattern (17 bp):
AAATAAATTAAAATATA
Found at i:452483 original size:8 final size:7
Alignment explanation
Indices: 452470--452526 Score: 78
Period size: 7 Copynumber: 7.7 Consensus size: 7
452460 AATACATAAA
452470 TTTTTCT
1 TTTTTCT
452477 CTTTTTCT
1 -TTTTTCT
452485 TTCTTTCT
1 TT-TTTCT
452493 TTTTTCT
1 TTTTTCT
452500 TTTTTCT
1 TTTTTCT
*
452507 CTTTTCT
1 TTTTTCT
452514 TTCTTTCT
1 TT-TTTCT
452522 TTTTT
1 TTTTT
452527 TCCAACCTTG
Statistics
Matches: 45, Mismatches: 2, Indels: 5
0.87 0.04 0.10
Matches are distributed among these distances:
7 24 0.53
8 21 0.47
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (7 bp):
TTTTTCT
Found at i:452489 original size:4 final size:4
Alignment explanation
Indices: 452480--452528 Score: 59
Period size: 4 Copynumber: 13.0 Consensus size: 4
452470 TTTTTCTCTT
* *
452480 TTTC TTTC TTTC TTT- TTTC TTT- TTTC TCT- TTTC TTTC TTTC TTTT
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC
452525 TTTC
1 TTTC
452529 CAACCTTGCC
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
3 8 0.21
4 30 0.79
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (4 bp):
TTTC
Found at i:452503 original size:22 final size:21
Alignment explanation
Indices: 452471--452526 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 21
452461 ATACATAAAT
452471 TTTTCTCTTTTTCTTTCTTTCTT
1 TTTTCTC-TTTTCTTT-TTTCTT
* *
452494 TTTTCTTTTTTCTCTTTTCTT
1 TTTTCTCTTTTCTTTTTTCTT
*
452515 TCTTTCTTTTTT
1 T-TTTCTCTTTT
452527 TCCAACCTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
21 7 0.23
22 17 0.57
23 6 0.20
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (21 bp):
TTTTCTCTTTTCTTTTTTCTT
Found at i:452528 original size:8 final size:8
Alignment explanation
Indices: 452470--452528 Score: 61
Period size: 8 Copynumber: 7.8 Consensus size: 8
452460 AATACATAAA
*
452470 TTTTTCTC
1 TTTTTCTT
452478 TTTTTCTT
1 TTTTTCTT
*
452486 TCTTTC-T
1 TTTTTCTT
452493 TTTTTC-T
1 TTTTTCTT
452500 TTTTTC-T
1 TTTTTCTT
*
452507 CTTTTCTT
1 TTTTTCTT
*
452515 TCTTTCTT
1 TTTTTCTT
452523 TTTTTC
1 TTTTTC
452529 CAACCTTGCC
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
7 19 0.44
8 24 0.56
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (8 bp):
TTTTTCTT
Found at i:452528 original size:30 final size:30
Alignment explanation
Indices: 452470--452526 Score: 107
Period size: 29 Copynumber: 1.9 Consensus size: 30
452460 AATACATAAA
452470 TTTTTCTCTTTTTCTTTCTTTCTTTTTTCT
1 TTTTTCTCTTTTTCTTTCTTTCTTTTTTCT
452500 TTTTTCTC-TTTTCTTTCTTTCTTTTTT
1 TTTTTCTCTTTTTCTTTCTTTCTTTTTT
452527 TCCAACCTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
29 19 0.70
30 8 0.30
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (30 bp):
TTTTTCTCTTTTTCTTTCTTTCTTTTTTCT
Found at i:453014 original size:20 final size:19
Alignment explanation
Indices: 452984--453047 Score: 85
Period size: 20 Copynumber: 3.3 Consensus size: 19
452974 ATACATAAGT
452984 TTTTTTC-TTTTTTATTTC
1 TTTTTTCTTTTTTTATTTC
453002 TTTTTTCTTTTTTTCATTTC
1 TTTTTTCTTTTTTT-ATTTC
* *
453022 TTTATTTCTTTATTTCTTTC
1 TTT-TTTCTTTTTTTATTTC
453042 TTTTTT
1 TTTTTT
453048 GATAGAAATA
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
18 7 0.17
19 9 0.22
20 15 0.37
21 10 0.24
ACGTcount: A:0.06, C:0.12, G:0.00, T:0.81
Consensus pattern (19 bp):
TTTTTTCTTTTTTTATTTC
Found at i:453043 original size:4 final size:4
Alignment explanation
Indices: 452987--453044 Score: 57
Period size: 4 Copynumber: 14.8 Consensus size: 4
452977 CATAAGTTTT
* * * *
452987 TTTC TTT- TTTA TTTC TTT- TTTC TTTT TTTC ATTTC TTTA TTTC TTTA
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC -TTTC TTTC TTTC TTTC
453034 TTTC TTTC TTT
1 TTTC TTTC TTT
453045 TTTGATAGAA
Statistics
Matches: 44, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
3 6 0.14
4 34 0.77
5 4 0.09
ACGTcount: A:0.07, C:0.14, G:0.00, T:0.79
Consensus pattern (4 bp):
TTTC
Found at i:453220 original size:57 final size:59
Alignment explanation
Indices: 453159--453279 Score: 140
Period size: 57 Copynumber: 2.1 Consensus size: 59
453149 ATAGGTAAAA
** * *
453159 AGATATAATTTTTTTAATTAAATAACTATA-ACAAATTAT-TAAAA-AAGTCACGAATTG
1 AGATATAATACTTTAAATTAAATAACTA-AGACAAATTATGTAAAATAAGTCACGAATAG
* * * *
453216 AGATATAATACTTTAAATTAAATTATTAAGACAAATTATGTAAAATATGTCATGAATAG
1 AGATATAATACTTTAAATTAAATAACTAAGACAAATTATGTAAAATAAGTCACGAATAG
453275 AGATA
1 AGATA
453280 CGATACGAAC
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
56 1 0.02
57 32 0.60
58 5 0.09
59 15 0.28
ACGTcount: A:0.50, C:0.06, G:0.09, T:0.36
Consensus pattern (59 bp):
AGATATAATACTTTAAATTAAATAACTAAGACAAATTATGTAAAATAAGTCACGAATAG
Found at i:454008 original size:4 final size:4
Alignment explanation
Indices: 453999--454039 Score: 57
Period size: 4 Copynumber: 10.5 Consensus size: 4
453989 TTTTTCTCTT
* *
453999 TTTC TTTC TTTC -TCC TGTC TTTC TTTC TTTC TTTC TTTC TT
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TT
454040 GTCCGAAATA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
3 2 0.06
4 30 0.94
ACGTcount: A:0.00, C:0.27, G:0.02, T:0.71
Consensus pattern (4 bp):
TTTC
Found at i:454445 original size:2 final size:2
Alignment explanation
Indices: 454440--454464 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
454430 ATTTTTCGTG
454440 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
454465 TCTACATATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:456032 original size:6 final size:6
Alignment explanation
Indices: 456021--456071 Score: 68
Period size: 6 Copynumber: 8.3 Consensus size: 6
456011 AAAAAGTTAT
*
456021 TAAAAA TAAAAA T-AAAA TAATAA TAAAAATA TAAAAA TAAAAA TAAAAA
1 TAAAAA TAAAAA TAAAAA TAAAAA T-AAAA-A TAAAAA TAAAAA TAAAAA
456070 TA
1 TA
456072 TTTTTGTCTT
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
5 5 0.12
6 26 0.65
7 7 0.17
8 2 0.05
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (6 bp):
TAAAAA
Found at i:456054 original size:14 final size:14
Alignment explanation
Indices: 456021--456069 Score: 55
Period size: 14 Copynumber: 3.4 Consensus size: 14
456011 AAAAAGTTAT
456021 TAAAAATAAAAATAAAA
1 TAAAAATAAAAAT---A
*
456038 TAATAATAAAAATA
1 TAAAAATAAAAATA
456052 TAAAAATAAAAATA
1 TAAAAATAAAAATA
456066 -AAAA
1 TAAAA
456070 TATTTTTGTC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
13 4 0.13
14 14 0.47
17 12 0.40
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (14 bp):
TAAAAATAAAAATA
Found at i:456059 original size:20 final size:20
Alignment explanation
Indices: 456021--456072 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
456011 AAAAAGTTAT
456021 TAAAAAT-AAAA-AT-AAAA
1 TAAAAATAAAAATATAAAAA
*
456038 TAATAATAAAAATATAAAAA
1 TAAAAATAAAAATATAAAAA
456058 TAAAAATAAAAATAT
1 TAAAAATAAAAATAT
456073 TTTTGTCTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
17 6 0.20
18 4 0.13
19 2 0.07
20 18 0.60
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (20 bp):
TAAAAATAAAAATATAAAAA
Found at i:458268 original size:2 final size:2
Alignment explanation
Indices: 458263--458290 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
458253 ACACACACAC
458263 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
458291 TGTGTTGTGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:462592 original size:19 final size:20
Alignment explanation
Indices: 462551--462595 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
462541 GAAAATAAAT
*
462551 AATTTTTATAATTAACATAA
1 AATTATTATAATTAACATAA
* *
462571 AATTATTAT-ATTAATATTA
1 AATTATTATAATTAACATAA
462590 AATTAT
1 AATTAT
462596 ATTATCATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 14 0.64
20 8 0.36
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (20 bp):
AATTATTATAATTAACATAA
Found at i:474794 original size:20 final size:21
Alignment explanation
Indices: 474755--474801 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
474745 TATATTTGTG
* *
474755 TTATTTTTTATGTTTAAAATA
1 TTATATTTTATGTGTAAAATA
*
474776 TTATATTTT-TGTGTAAAATT
1 TTATATTTTATGTGTAAAATA
474796 TTATAT
1 TTATAT
474802 ATTAATAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 15 0.65
21 8 0.35
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (21 bp):
TTATATTTTATGTGTAAAATA
Found at i:475707 original size:19 final size:20
Alignment explanation
Indices: 475683--475721 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
475673 CGTGTTTATA
475683 TTATTTTTCATAT-TATGTT
1 TTATTTTTCATATATATGTT
*
475702 TTATTTTTTATATATATGTT
1 TTATTTTTCATATATATGTT
475722 GAGTTTGTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.23, C:0.03, G:0.05, T:0.69
Consensus pattern (20 bp):
TTATTTTTCATATATATGTT
Found at i:478438 original size:18 final size:17
Alignment explanation
Indices: 478402--478445 Score: 58
Period size: 16 Copynumber: 2.7 Consensus size: 17
478392 ATACGTCATT
478402 TAAAAATATAATAAAAA
1 TAAAAATATAATAAAAA
478419 TAAAAAT-TAAT-AAAA
1 TAAAAATATAATAAAAA
478434 TAATAAA-ATAAT
1 TAA-AAATATAAT
478446 TTTTTATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
15 7 0.28
16 11 0.44
17 7 0.28
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (17 bp):
TAAAAATATAATAAAAA
Found at i:479098 original size:7 final size:7
Alignment explanation
Indices: 479080--479111 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
479070 ATCAAATTCA
479080 AATTTA-
1 AATTTAT
479086 AATTTAT
1 AATTTAT
479093 AATTTAT
1 AATTTAT
479100 AATTTAT
1 AATTTAT
479107 AATTT
1 AATTT
479112 TTTATATTAC
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 6 0.24
7 19 0.76
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (7 bp):
AATTTAT
Found at i:479369 original size:29 final size:28
Alignment explanation
Indices: 479295--479370 Score: 72
Period size: 27 Copynumber: 2.9 Consensus size: 28
479285 AGATATATAA
*
479295 TTTTAAA-AAATTAAAT-TAAA-AAATT
1 TTTTAAACTAATTAAATATAAATAAATT
* *
479320 TTTTAAATTAATT-GATA-AAATAATATT
1 TTTTAAACTAATTAAATATAAATAA-ATT
*
479347 TTTTTAACTAATTAAATATAAATA
1 TTTTAAACTAATTAAATATAAATA
479371 TCAAATTACT
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
25 12 0.30
26 6 0.15
27 14 0.35
28 3 0.08
29 5 0.12
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.45
Consensus pattern (28 bp):
TTTTAAACTAATTAAATATAAATAAATT
Done.