Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1349
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: 45066
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
File 2 of 2
Found at i:34432 original size:122 final size:122
Alignment explanation
Indices: 34167--34430 Score: 377
Period size: 122 Copynumber: 2.2 Consensus size: 122
34157 CCCCCAATTT
* ** * * * *
34167 GTGTGGGCTTTGAAAAGAAAAGGCGTCTTGCTCTTTGAGGAATGAAAGGTGCCACCAATTTGCGT
1 GTGTGGGCTTTGAAAAGAAAAGGCATCCGGCTCTTTGAGGAATAAAAGCTGCCACCAACTTGCCT
* * * *
34232 GGGCTTTGAAAGAAAAAGACGTCCAGCTCTTTGAGGACTAAAAGGTGCCACCAACTC
66 GCGCGTTAAAAGAAAAAGACGTCCAGCTCTTTGAGCACTAAAAGGTGCCACCAACTC
* * * *
34289 GTGAGGGCTTTGAAAAGAAAAGGCATCCGGCTCTTTTAGGACTAAAAGCTGCCACTAACTTGCCT
1 GTGTGGGCTTTGAAAAGAAAAGGCATCCGGCTCTTTGAGGAATAAAAGCTGCCACCAACTTGCCT
34354 GCGCGTTAAAAGAAAAAGACGTCCAGCTCTTTGAGCACTAAAAGGTGCCACCAACTC
66 GCGCGTTAAAAGAAAAAGACGTCCAGCTCTTTGAGCACTAAAAGGTGCCACCAACTC
*
34411 GTGTGGGCCTTG-AAAGAAAA
1 GTGTGGGCTTTGAAAAGAAAA
34431 AGATGTCCTG
Statistics
Matches: 125, Mismatches: 17, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
121 8 0.06
122 117 0.94
ACGTcount: A:0.31, C:0.20, G:0.26, T:0.22
Consensus pattern (122 bp):
GTGTGGGCTTTGAAAAGAAAAGGCATCCGGCTCTTTGAGGAATAAAAGCTGCCACCAACTTGCCT
GCGCGTTAAAAGAAAAAGACGTCCAGCTCTTTGAGCACTAAAAGGTGCCACCAACTC
Found at i:34853 original size:61 final size:62
Alignment explanation
Indices: 34772--35085 Score: 332
Period size: 61 Copynumber: 5.1 Consensus size: 62
34762 TGGAAAGCTT
* * * ** * *
34772 TGCCCCCAATTTGTGTGGGCTTTGAAAAG-AAAAGGCGTCTTGCTCTTTGAGGAATGAAAGG
1 TGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGACGTCCAGCTCTTTGAGGACTAAAAGG
* *
34833 TGCCACCAATTTGCGTGGGCTTTG-AAAGAAAAAGACGTCCAGCTCTTTGAGGACTAAAAGG
1 TGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGACGTCCAGCTCTTTGAGGACTAAAAGG
* * * * * * *
34894 TGCCACCAACTCGTGAGGGCTTTGAAAAG-AAAAGGCATCCGGCTCTTTTAGGACTAAAAGC
1 TGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGACGTCCAGCTCTTTGAGGACTAAAAGG
* * ** * * *
34955 TACCACTAACTTGCCTGCGCGTT-AAAAGAAAAAGACGTCCAGCTCTTTGAGCACTAAAAGG
1 TGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGACGTCCAGCTCTTTGAGGACTAAAAGG
* * * * **
35016 TGCCACCAACTCGTGTGGGCCTTG-AAAGAAAAAGATGTCCTGCTCTTTGAGGACTGGAAGG
1 TGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGACGTCCAGCTCTTTGAGGACTAAAAGG
35077 TGCCACCAA
1 TGCCACCAA
35086 TTCGTCCCCA
Statistics
Matches: 207, Mismatches: 42, Indels: 8
0.81 0.16 0.03
Matches are distributed among these distances:
60 9 0.04
61 194 0.94
62 4 0.02
ACGTcount: A:0.30, C:0.22, G:0.25, T:0.23
Consensus pattern (62 bp):
TGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGACGTCCAGCTCTTTGAGGACTAAAAGG
Found at i:34933 original size:617 final size:619
Alignment explanation
Indices: 33638--35415 Score: 3073
Period size: 617 Copynumber: 2.9 Consensus size: 619
33628 GGCATCCTGG
* * *
33638 TCTTTGAGGACTAAAAAGTGCCACCAACTCGT-ATGGGCTTTGAAAAGAAAAGGCGTCCTGCTCT
1 TCTTTGAGGACTAAAAGGTGCCACCAACTCGTGA-GGGCTTTGAAAAGAAAAGGCATCCGGCTCT
* * ** * * * *
33702 TTGAGGACTAAAAGGTGAAACTAACTTGCGTGGGCTTTAAAAGAAAAAGACGTCCTGCTCTTTGA
65 TTTAGGACTAAAAGCTGCCACTAACTTGCCTGCGCGTTAAAAGAAAAAGACGTCCAGCTCTTTGA
* * * * * *
33767 GGACTAAAAGGTGCCACCAACTCATGTGGGCTTTGAAAGAAAAAGATGCCCCGCTCTTTAAGGAC
130 GCACTAAAAGGTGCCACCAACTCGTGTGGGCCTTGAAAGAAAAAGATGTCCTGCTCTTTGAGGAC
* * *
33832 TGGAAGGTGCCACCAATTCGTCCCCATACCTTTCAACCCCTCCATCTAGTAATGCTTTGGGATAC
195 TGGAAGGTGCCACCAATTCGTCCCCATACCTTTCGACCCCTCCATGTAGTAATGCTTTGGGTTAC
* * * * * * * *
33897 CGAAAAATTAACCC-AGACAAAGTGAGGTGTCTACAACTGCCCCTCTTTGGCTGTTTCTGAGTAT
260 CGAAAAATTAGCCCGA-ACAAAATGAGATTTCTACAGCTGCCTCTCTATGGTTGTTTCTGAGTAT
* * *
33961 CAGGAATAGGGCAAAAACAAAAGACACCATTTTGTCCATGAAG-GAAAAAAAGAATGCTTAGCTA
324 CAGGAATAGGGCAAAGACAAAAGACACCATTTTGTCCGTGAAGAAAAAAAAAGAATGCTTAGCTA
34025 AATGCTTGTAAAAAGATGACATTCAAATTTTTTTTTTTTTGATTTTATGGTTTTCCCTACTAGGT
389 AATGCTTGTAAAAAGATGACATTCAAA---TTTTTTTTTTGATTTTATGGTTTTCCCTACTAGGT
34090 TTTGAGATTTTCTAAAGCTTGACCTCCTTAGATAGGTGTTGGTTACTGTAGGCTTTGGAAAGCTT
451 TTTGAGATTTTCTAAAGCTTGACCTCCTTAGATAGGTGTTGGTTACTGTAGGCTTTGGAAAGCTT
34155 TGCCCCCAATTTGTGTGGGCTTTGAAAAGAAAAGGCGTCTTGCTCTTTGAGGAATGAAAGGTGCC
516 TGCCCCCAATTTGTGTGGGCTTTGAAAAGAAAAGGCGTCTTGCTCTTTGAGGAATGAAAGGTGCC
34220 ACCAATTTGCGTGGGCTTTGAAAGAAAAAGACGTCCAGC
581 ACCAATTTGCGTGGGCTTTGAAAGAAAAAGACGTCCAGC
34259 TCTTTGAGGACTAAAAGGTGCCACCAACTCGTGAGGGCTTTGAAAAGAAAAGGCATCCGGCTCTT
1 TCTTTGAGGACTAAAAGGTGCCACCAACTCGTGAGGGCTTTGAAAAGAAAAGGCATCCGGCTCTT
34324 TTAGGACTAAAAGCTGCCACTAACTTGCCTGCGCGTTAAAAGAAAAAGACGTCCAGCTCTTTGAG
66 TTAGGACTAAAAGCTGCCACTAACTTGCCTGCGCGTTAAAAGAAAAAGACGTCCAGCTCTTTGAG
34389 CACTAAAAGGTGCCACCAACTCGTGTGGGCCTTGAAAGAAAAAGATGTCCTGCTCTTTGAGGACT
131 CACTAAAAGGTGCCACCAACTCGTGTGGGCCTTGAAAGAAAAAGATGTCCTGCTCTTTGAGGACT
34454 GGAAGGTGCCACCAATTCGTCCCCATACCTTTCGACCCCTCCATGTAGTAATGCTTTGGGTTACC
196 GGAAGGTGCCACCAATTCGTCCCCATACCTTTCGACCCCTCCATGTAGTAATGCTTTGGGTTACC
34519 GAAAAATTAGCCCGAACAAAATGAGATTTCTACAGCTGCCTCTCTATGGTTGTTTCTGAGTATCA
261 GAAAAATTAGCCCGAACAAAATGAGATTTCTACAGCTGCCTCTCTATGGTTGTTTCTGAGTATCA
34584 GGAATAGGGCAAAGACAAAAGACACCATTTTGTCCGTGAAGAAAAAAAAAGAATGCTTAGCTAAA
326 GGAATAGGGCAAAGACAAAAGACACCATTTTGTCCGTGAAGAAAAAAAAAGAATGCTTAGCTAAA
34649 TGCTTGTAAAAAGATGACATTCAAA-TTTTTTTTT-ATTTTATGGTTTTCCCTACTAGGTTTTGA
391 TGCTTGTAAAAAGATGACATTCAAATTTTTTTTTTGATTTTATGGTTTTCCCTACTAGGTTTTGA
34712 GATTTTCTAAAGCTTGACCTCCTTAGATAGGTGTTGGTTACTGTAGGCTTTGGAAAGCTTTGCCC
456 GATTTTCTAAAGCTTGACCTCCTTAGATAGGTGTTGGTTACTGTAGGCTTTGGAAAGCTTTGCCC
34777 CCAATTTGTGTGGGCTTTGAAAAGAAAAGGCGTCTTGCTCTTTGAGGAATGAAAGGTGCCACCAA
521 CCAATTTGTGTGGGCTTTGAAAAGAAAAGGCGTCTTGCTCTTTGAGGAATGAAAGGTGCCACCAA
34842 TTTGCGTGGGCTTTGAAAGAAAAAGACGTCCAGC
586 TTTGCGTGGGCTTTGAAAGAAAAAGACGTCCAGC
34876 TCTTTGAGGACTAAAAGGTGCCACCAACTCGTGAGGGCTTTGAAAAGAAAAGGCATCCGGCTCTT
1 TCTTTGAGGACTAAAAGGTGCCACCAACTCGTGAGGGCTTTGAAAAGAAAAGGCATCCGGCTCTT
*
34941 TTAGGACTAAAAGCTACCACTAACTTGCCTGCGCGTTAAAAGAAAAAGACGTCCAGCTCTTTGAG
66 TTAGGACTAAAAGCTGCCACTAACTTGCCTGCGCGTTAAAAGAAAAAGACGTCCAGCTCTTTGAG
35006 CACTAAAAGGTGCCACCAACTCGTGTGGGCCTTGAAAGAAAAAGATGTCCTGCTCTTTGAGGACT
131 CACTAAAAGGTGCCACCAACTCGTGTGGGCCTTGAAAGAAAAAGATGTCCTGCTCTTTGAGGACT
35071 GGAAGGTGCCACCAATTCGTCCCCATACCTTTCGACCCCTCCATGTAGTAATGCTTTGGGTTACC
196 GGAAGGTGCCACCAATTCGTCCCCATACCTTTCGACCCCTCCATGTAGTAATGCTTTGGGTTACC
35136 GAAAAATTAGCCCGAACAAAATGAGATTTCTACAGCTGCCTCTCTATGGTTGTTTCTGAGTATCA
261 GAAAAATTAGCCCGAACAAAATGAGATTTCTACAGCTGCCTCTCTATGGTTGTTTCTGAGTATCA
*
35201 GGAATAGGGCAAAGACAAAAGACACCATTTTGTCCGTGAAGGAAAAAAAAAGAATGATTAGCTAA
326 GGAATAGGGCAAAGACAAAAGACACCATTTTGTCCGTGAA-GAAAAAAAAAGAATGCTTAGCTAA
* * *
35266 ATGCATGTAAAAGGA-CAGCATTCAAAATTTTTTTTTTGATTTTATGGTTTTCCCTACTAGGTTT
390 ATGCTTGTAAAAAGATGA-CATTC-AAATTTTTTTTTTGATTTTATGGTTTTCCCTACTAGGTTT
* * *
35330 TGAGATTTTCTAATGCTTGACCTCCTTAGATAGGTGTTGGTTACTTTAGGCTTTGGAAAGGTTTG
453 TGAGATTTTCTAAAGCTTGACCTCCTTAGATAGGTGTTGGTTACTGTAGGCTTTGGAAAGCTTTG
* *
35395 CCACCAACTTGTGTGGGCTTT
518 CCCCCAATTTGTGTGGGCTTT
35416 TTGGGTGCTA
Statistics
Matches: 1108, Mismatches: 41, Indels: 16
0.95 0.04 0.01
Matches are distributed among these distances:
617 558 0.50
618 50 0.05
619 3 0.00
620 9 0.01
621 439 0.40
622 49 0.04
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (619 bp):
TCTTTGAGGACTAAAAGGTGCCACCAACTCGTGAGGGCTTTGAAAAGAAAAGGCATCCGGCTCTT
TTAGGACTAAAAGCTGCCACTAACTTGCCTGCGCGTTAAAAGAAAAAGACGTCCAGCTCTTTGAG
CACTAAAAGGTGCCACCAACTCGTGTGGGCCTTGAAAGAAAAAGATGTCCTGCTCTTTGAGGACT
GGAAGGTGCCACCAATTCGTCCCCATACCTTTCGACCCCTCCATGTAGTAATGCTTTGGGTTACC
GAAAAATTAGCCCGAACAAAATGAGATTTCTACAGCTGCCTCTCTATGGTTGTTTCTGAGTATCA
GGAATAGGGCAAAGACAAAAGACACCATTTTGTCCGTGAAGAAAAAAAAAGAATGCTTAGCTAAA
TGCTTGTAAAAAGATGACATTCAAATTTTTTTTTTGATTTTATGGTTTTCCCTACTAGGTTTTGA
GATTTTCTAAAGCTTGACCTCCTTAGATAGGTGTTGGTTACTGTAGGCTTTGGAAAGCTTTGCCC
CCAATTTGTGTGGGCTTTGAAAAGAAAAGGCGTCTTGCTCTTTGAGGAATGAAAGGTGCCACCAA
TTTGCGTGGGCTTTGAAAGAAAAAGACGTCCAGC
Found at i:35578 original size:41 final size:40
Alignment explanation
Indices: 35479--35581 Score: 122
Period size: 41 Copynumber: 2.5 Consensus size: 40
35469 GTCCCACTTT
*
35479 TTGAGGACAAAGG-AAAAGAAAATGAAATAGGTCTCGCTCC
1 TTGAGGACAAAGGAAAAAGAAAAGGAAATA-GTCTCGCTCC
*
35519 TTGAGGACAAAGGAAAAAAGAAAAGGAAAGT-GTC-CTGCTTC
1 TTGAGGACAAAGG-AAAAAGAAAAGGAAA-TAGTCTC-GCTCC
35560 TTGAGGACAAAGTGAAAAAGAA
1 TTGAGGACAAAG-GAAAAAGAA
35582 CACGTCCTGC
Statistics
Matches: 56, Mismatches: 2, Indels: 9
0.84 0.03 0.13
Matches are distributed among these distances:
40 14 0.25
41 27 0.48
42 14 0.25
43 1 0.02
ACGTcount: A:0.46, C:0.12, G:0.26, T:0.17
Consensus pattern (40 bp):
TTGAGGACAAAGGAAAAAGAAAAGGAAATAGTCTCGCTCC
Found at i:35742 original size:41 final size:42
Alignment explanation
Indices: 35682--35781 Score: 107
Period size: 42 Copynumber: 2.4 Consensus size: 42
35672 GCATCCTGCA
*
35682 CTTTAAGGACAAAGGAGAAA-TGGAAAACGAAA-TGCGTCCC-ACT
1 CTTTAAGGACAAA--AGAAAGAGGAAAA-GAAAGTGCG-CCCTACT
* * *
35725 CTTTGAGGATAAAAGAAAGAGGAAAATAAAGTGCGCCCTACT
1 CTTTAAGGACAAAAGAAAGAGGAAAAGAAAGTGCGCCCTACT
35767 CTTTAAGGACAAAAG
1 CTTTAAGGACAAAAG
35782 GGAAAAGAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
41 11 0.23
42 26 0.54
43 11 0.23
ACGTcount: A:0.43, C:0.16, G:0.23, T:0.18
Consensus pattern (42 bp):
CTTTAAGGACAAAAGAAAGAGGAAAAGAAAGTGCGCCCTACT
Found at i:35949 original size:61 final size:62
Alignment explanation
Indices: 35843--36058 Score: 276
Period size: 61 Copynumber: 3.5 Consensus size: 62
35833 GGAAAAGGCA
* * *
35843 TCCTGGTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAG-AAAAGGCG
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGACG
** * * * *
35904 TCCTGCTCTTTGAGGACTAAAAGGTGAAACTAACTTGCGTCGGCTTT-AAAAGAAAAAGACG
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGACG
* * *
35965 TCGTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCATGTGGGCTTTG-AAAGAAAAAGATG
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGACG
* **
36026 TCCCGCTCTTTGAGGACTGGAAGGTGCCACCAA
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAA
36059 TTCATCCCCA
Statistics
Matches: 131, Mismatches: 22, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
60 5 0.04
61 126 0.96
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.24
Consensus pattern (62 bp):
TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGACG
Found at i:36626 original size:45 final size:45
Alignment explanation
Indices: 36545--36660 Score: 127
Period size: 45 Copynumber: 2.7 Consensus size: 45
36535 ATGCGTCCTG
* *
36545 CTCTTTGAGGATAAAA--G-AAAGAGGAAAATAAAGTACGCCCTA
1 CTCTTTGAGGACAAAAGGGAAAAGAGGAAAATAAAGTACGACCTA
* * *
36587 CTCTTTGAGGACAAAAGGGAAAAGAAGG-AAATGAAGTACGACTTG
1 CTCTTTGAGGACAAAAGGGAAAAG-AGGAAAATAAAGTACGACCTA
*
36632 CTCTTTGAGGACAAGAGGG--AAGAGGAAAA
1 CTCTTTGAGGACAAAAGGGAAAAGAGGAAAA
36661 GGCATCCTGG
Statistics
Matches: 63, Mismatches: 6, Indels: 9
0.81 0.08 0.12
Matches are distributed among these distances:
42 18 0.29
43 6 0.10
44 1 0.02
45 35 0.56
46 3 0.05
ACGTcount: A:0.43, C:0.12, G:0.28, T:0.17
Consensus pattern (45 bp):
CTCTTTGAGGACAAAAGGGAAAAGAGGAAAATAAAGTACGACCTA
Found at i:36768 original size:61 final size:62
Alignment explanation
Indices: 36665--36885 Score: 304
Period size: 61 Copynumber: 3.6 Consensus size: 62
36655 GGAAAAGGCA
* *
36665 TCCTGGTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAG-AAAAGACG
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGACG
** * * *
36726 TCCTGCTCTTTGAGGACTAAAAGGTGAAACTAACTTGCGTGGGCTTT-AAAAGAAAAAGACG
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGACG
* *
36787 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCATGTGGGCTTTG-AAAGAAAAAGATG
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGACG
* ** *
36848 TCCCGCTCTTTGAGGACTGGAAGGTGCCACCAATTCGT
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGT
36886 CCCCATACCT
Statistics
Matches: 139, Mismatches: 19, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
60 5 0.04
61 134 0.96
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.24
Consensus pattern (62 bp):
TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGACG
Found at i:37373 original size:41 final size:40
Alignment explanation
Indices: 37274--37376 Score: 122
Period size: 41 Copynumber: 2.5 Consensus size: 40
37264 GTCCCACTTT
*
37274 TTGAGGACAAAGG-AAAAGAAAATGAAATAGGTCTCGCTCC
1 TTGAGGACAAAGGAAAAAGAAAAGGAAATA-GTCTCGCTCC
*
37314 TTGAGGACAAAGGAAAAAAGAAAAGGAAAGT-GTC-CTGCTTC
1 TTGAGGACAAAGG-AAAAAGAAAAGGAAA-TAGTCTC-GCTCC
37355 TTGAGGACAAAGTGAAAAAGAA
1 TTGAGGACAAAG-GAAAAAGAA
37377 CACGTCCTGC
Statistics
Matches: 56, Mismatches: 2, Indels: 9
0.84 0.03 0.13
Matches are distributed among these distances:
40 14 0.25
41 27 0.48
42 14 0.25
43 1 0.02
ACGTcount: A:0.46, C:0.12, G:0.26, T:0.17
Consensus pattern (40 bp):
TTGAGGACAAAGGAAAAAGAAAAGGAAATAGTCTCGCTCC
Found at i:37453 original size:46 final size:44
Alignment explanation
Indices: 37379--37615 Score: 159
Period size: 43 Copynumber: 5.4 Consensus size: 44
37369 AAAAAGAACA
* **
37379 CGTCCTGCTTTTTGAAAACAAA-GAAAAAAAGGAAAATGAAATG
1 CGTCCTGCTCTTTGAGGACAAAGGAAAAAAAGGAAAATGAAATG
* *
37422 TGTCTTGCTCTTTGAGGACTAGAAGGGAAAAAAAGG-AAATGAAGA-G
1 CGTCCTGCTCTTTGAGGAC-A-AA-GGAAAAAAAGGAAAATGAA-ATG
* * * * * *
37468 CATCCTGCACTTTAAGGACAAAGG-AGAAATGGAAAACGAAATG
1 CGTCCTGCTCTTTGAGGACAAAGGAAAAAAAGGAAAATGAAATG
* * * *
37511 CGTCCTGCTCTTTGAGGATAAA--AGAAAGAGGAAAAT-AAAGTA
1 CGTCCTGCTCTTTGAGGACAAAGGAAAAAAAGGAAAATGAAA-TG
* * * *
37553 CGCCCTACTCTTTGAGGACAAAAGGGAAAAGAAA-G-AAATGAAGTA
1 CGTCCTGCTCTTTGAGGAC-AAA-GGAAAA-AAAGGAAAATGAAATG
*
37598 CGACCTGCTCTTTGAGGA
1 CGTCCTGCTCTTTGAGGA
37616 TAAGAGGGAA
Statistics
Matches: 148, Mismatches: 31, Indels: 28
0.71 0.15 0.14
Matches are distributed among these distances:
41 3 0.02
42 32 0.22
43 44 0.30
44 3 0.02
45 25 0.17
46 28 0.19
47 13 0.09
ACGTcount: A:0.42, C:0.14, G:0.24, T:0.20
Consensus pattern (44 bp):
CGTCCTGCTCTTTGAGGACAAAGGAAAAAAAGGAAAATGAAATG
Found at i:37741 original size:61 final size:62
Alignment explanation
Indices: 37638--37853 Score: 276
Period size: 61 Copynumber: 3.5 Consensus size: 62
37628 GGAAAAGGCA
* * *
37638 TCCTGGTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAG-AAAAGGCG
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGACG
* ** * * *
37699 TCCTACTCTTTGAGGACTAAAAGGTGAAACGAACTTGCGTGGGCTTT-AAAAGAAAAAGACG
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGACG
* * *
37760 TCGTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCATGTGGGCTTTG-AAAGAAAAAGATG
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGACG
* **
37821 TCCCGCTCTTTGAGGACTGGAAGGTGCCACCAA
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAA
37854 TTCATCCCCA
Statistics
Matches: 131, Mismatches: 22, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
60 5 0.04
61 126 0.96
ACGTcount: A:0.31, C:0.20, G:0.26, T:0.23
Consensus pattern (62 bp):
TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGACG
Found at i:38236 original size:61 final size:62
Alignment explanation
Indices: 38157--38472 Score: 279
Period size: 61 Copynumber: 5.2 Consensus size: 62
38147 TGGAAAGCTT
* * ** ** * *
38157 TGCCCCCAATTTGTGTGGGGTTTGAAAAG-AAAAGGTGTCTTGCTCTTTGAGGAATGAAAGG
1 TGCCACCAATTTGCGTGGGGTTTGAAAAGAAAAAGACGTCCAGCTCTTTGAGGACTAAAAGG
*
38218 TGCCACCAATTTGCGTGGGCTTTG-AAAGAAAAAGACGTCCAGCTCTTTGAGGACTAAAAGG
1 TGCCACCAATTTGCGTGGGGTTTGAAAAGAAAAAGACGTCCAGCTCTTTGAGGACTAAAAGG
* * * * * *
38279 TGCCACCAA-CT-CGTGAGGGCTTTGAAAAG-AAAAGGCATCCGGCTCTTTTAGGACTAAAAGC
1 TGCCACCAATTTGCGTG-GGG-TTTGAAAAGAAAAAGACGTCCAGCTCTTTGAGGACTAAAAGG
* * * * *
38340 TGCCACTAACTTGCCTGCGCG-TT-AAAAGAAAAAGACGTCCAGCTCTTTGAGCACTAAAAGG
1 TGCCACCAATTTGCGTG-GGGTTTGAAAAGAAAAAGACGTCCAGCTCTTTGAGGACTAAAAGG
* * * ** * * * **
38401 TGCCACCAACTCGTGTGGGCCTTG-AAAGAAAAAGATGTCCTGCTCTTCGAGGACTGGAAGG
1 TGCCACCAATTTGCGTGGGGTTTGAAAAGAAAAAGACGTCCAGCTCTTTGAGGACTAAAAGG
38462 TGCCACCAATT
1 TGCCACCAATT
38473 CATCCCCATA
Statistics
Matches: 206, Mismatches: 40, Indels: 18
0.78 0.15 0.07
Matches are distributed among these distances:
59 4 0.02
60 13 0.06
61 179 0.87
62 5 0.02
63 5 0.02
ACGTcount: A:0.29, C:0.21, G:0.26, T:0.23
Consensus pattern (62 bp):
TGCCACCAATTTGCGTGGGGTTTGAAAAGAAAAAGACGTCCAGCTCTTTGAGGACTAAAAGG
Found at i:38454 original size:122 final size:123
Alignment explanation
Indices: 38178--38470 Score: 360
Period size: 122 Copynumber: 2.4 Consensus size: 123
38168 TGTGTGGGGT
* * * * * * * * * *
38178 TTGAAAAG-AAAAGGTGTCTTGCTCTTTGAGGAATGAAAGGTGCCACCAATTTGCGTGGGCTTTG
1 TTGAAAAGAAAAAGATGTCCTGCTCTTTGAGGACTAAAAGCTGCCACCAACTTGCCTGCGCGTTA
* *
38242 AAAGAAAAAGACGTCCAGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGAGGGCT
66 AAAGAAAAAGACGTCCAGCTCTTTGAGCACTAAAAGGTGCCACCAACTCGTGAGGGCC
* * * *
38300 TTGAAAAGAAAAGGCA--TCCGGCTCTTTTAGGACTAAAAGCTGCCACTAACTTGCCTGCGCGTT
1 TTGAAAAGAAAAAG-ATGTCCTGCTCTTTGAGGACTAAAAGCTGCCACCAACTTGCCTGCGCGTT
*
38363 AAAAGAAAAAGACGTCCAGCTCTTTGAGCACTAAAAGGTGCCACCAACTCGTGTGGGCC
65 AAAAGAAAAAGACGTCCAGCTCTTTGAGCACTAAAAGGTGCCACCAACTCGTGAGGGCC
* ** *
38422 TTG-AAAGAAAAAGATGTCCTGCTCTTCGAGGACTGGAAGGTGCCACCAA
1 TTGAAAAGAAAAAGATGTCCTGCTCTTTGAGGACTAAAAGCTGCCACCAA
38471 TTCATCCCCA
Statistics
Matches: 142, Mismatches: 25, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
120 1 0.01
121 9 0.06
122 128 0.90
123 4 0.03
ACGTcount: A:0.31, C:0.21, G:0.26, T:0.22
Consensus pattern (123 bp):
TTGAAAAGAAAAAGATGTCCTGCTCTTTGAGGACTAAAAGCTGCCACCAACTTGCCTGCGCGTTA
AAAGAAAAAGACGTCCAGCTCTTTGAGCACTAAAAGGTGCCACCAACTCGTGAGGGCC
Found at i:38924 original size:42 final size:41
Alignment explanation
Indices: 38864--38963 Score: 100
Period size: 41 Copynumber: 2.4 Consensus size: 41
38854 GTCCCACTTT
*
38864 TTGAGGAGAAAGG--AAAAGAAAATGAAATAG-GT-CTCGCTCC
1 TTGAGGACAAAGGAAAAAAGAAAA-GAAA-AGTGTCCT-GCTCC
* * *
38904 TTGAGGACAAAGGAAAAAAGATAAGGAAAGTGTCCTGCTTC
1 TTGAGGACAAAGGAAAAAAGAAAAGAAAAGTGTCCTGCTCC
38945 TTGAGGACAAAGTGAAAAA
1 TTGAGGACAAAG-GAAAAA
38964 GAACACGTCC
Statistics
Matches: 51, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
40 14 0.27
41 21 0.41
42 16 0.31
ACGTcount: A:0.44, C:0.11, G:0.27, T:0.18
Consensus pattern (41 bp):
TTGAGGACAAAGGAAAAAAGAAAAGAAAAGTGTCCTGCTCC
Found at i:39042 original size:45 final size:43
Alignment explanation
Indices: 38969--39222 Score: 155
Period size: 42 Copynumber: 5.8 Consensus size: 43
38959 AAAAAGAACA
* ** *
38969 CGTCCTGCTTTTTGAAAACAAA-GAAAAAAGGAAAATGAAATG
1 CGTCCTGCTCTTTGAGGACAAAGGGAAAAAGGAAAATGAAATG
* *
39011 TGTCTTGCTCTTTGAGGACTAGAAGGGAAAAAAAGG-AAATGAAGA-G
1 CGTCCTGCTCTTTGAGGAC-A-AAGGG--AAAAAGGAAAATGAA-ATG
* * * * *
39057 CATCCTGCACTTTAAGGACAAA-GGAGAAATGGAAAACGAAATG
1 CGTCCTGCTCTTTGAGGACAAAGGGA-AAAAGGAAAATGAAATG
* * * *
39100 CGTCCTGCTCTTTGAGGATAAA-AGAAAGAGGAAAAT-AAAGTA
1 CGTCCTGCTCTTTGAGGACAAAGGGAAAAAGGAAAATGAAA-TG
* * * *
39142 CGCCCTACTCTTTGAGGACAAAAGGGAAAAGAAGG-AAATGAAGTA
1 CGTCCTGCTCTTTGAGGAC-AAAGGG-AAA-AAGGAAAATGAAATG
* * *
39187 CGACTTGCTCTTTGAGGACAAGAGGG-AAGAGGAAAA
1 CGTCCTGCTCTTTGAGGACAA-AGGGAAAAAGGAAAA
39223 GGCATCCTGG
Statistics
Matches: 163, Mismatches: 32, Indels: 33
0.71 0.14 0.14
Matches are distributed among these distances:
41 4 0.02
42 48 0.29
43 38 0.23
44 7 0.04
45 31 0.19
46 27 0.17
47 8 0.05
ACGTcount: A:0.42, C:0.13, G:0.26, T:0.19
Consensus pattern (43 bp):
CGTCCTGCTCTTTGAGGACAAAGGGAAAAAGGAAAATGAAATG
Found at i:39330 original size:61 final size:62
Alignment explanation
Indices: 39235--39447 Score: 288
Period size: 61 Copynumber: 3.5 Consensus size: 62
39225 CATCCTGGTT
* *
39235 TTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAG-AAAAGGCGTCCTGCTC
1 TTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGACGTCCTGCTC
** * * *
39296 TTTGAGGACTAAAAGGTGAAACTAACTTGCGTGGGCTTT-AAAAGAAAAAGACGTCCTGCTC
1 TTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGACGTCCTGCTC
* * *
39357 TTTGAGGACTAAAAGGTGCCACCAACTCATGTGGGCTTTG-AAAGAAAAAGATGTCCCGCTC
1 TTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGACGTCCTGCTC
** *
39418 TTTGAGGACTGGAAGGTGCCACCAATTCGT
1 TTTGAGGACTAAAAGGTGCCACCAACTCGT
39448 CCCCATACCT
Statistics
Matches: 131, Mismatches: 19, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
60 5 0.04
61 126 0.96
ACGTcount: A:0.31, C:0.20, G:0.26, T:0.24
Consensus pattern (62 bp):
TTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGACGTCCTGCTC
Found at i:39831 original size:61 final size:61
Alignment explanation
Indices: 39750--40063 Score: 333
Period size: 61 Copynumber: 5.1 Consensus size: 61
39740 TGGAAAGCTT
* * * * ** * *
39750 TGCCCCCAATTTGTGTGGGCTTTGAAAGGAAAAGGCGTCTTGCTCTTTGAGGAATGAAAGG
1 TGCCACCAACTTGTGTGGGCTTTGAAAGAAAAAGACGTCCAGCTCTTTGAGGACTAAAAGG
* *
39811 TGCCACCAATTTGCGTGGGCTTTGAAAGAAAAAGACGTCCAGCTCTTTGAGGACTAAAAGG
1 TGCCACCAACTTGTGTGGGCTTTGAAAGAAAAAGACGTCCAGCTCTTTGAGGACTAAAAGG
* * * * * * *
39872 TGCCACCAACTCGTGAGGGCTTTGAAA-AGAAAAGGCATCCGGCTCTTTTAGGACTAAAAGC
1 TGCCACCAACTTGTGTGGGCTTTGAAAGA-AAAAGACGTCCAGCTCTTTGAGGACTAAAAGG
* ** * * * * *
39933 TGCCACTAACTTGCCTGCGCGTTAAAAGAAAAAGACGTCCAGCTCTTTGAGCATTAAAAGG
1 TGCCACCAACTTGTGTGGGCTTTGAAAGAAAAAGACGTCCAGCTCTTTGAGGACTAAAAGG
* * * * **
39994 TGCCACCAACTCGTGTGGGCCTTGAAAGAAAAAGATGTCCTGCTCTTTGAGGACTGGAAGG
1 TGCCACCAACTTGTGTGGGCTTTGAAAGAAAAAGACGTCCAGCTCTTTGAGGACTAAAAGG
40055 TGCCACCAA
1 TGCCACCAA
40064 TTCGTCCCCA
Statistics
Matches: 206, Mismatches: 45, Indels: 4
0.81 0.18 0.02
Matches are distributed among these distances:
60 1 0.00
61 204 0.99
62 1 0.00
ACGTcount: A:0.29, C:0.21, G:0.26, T:0.23
Consensus pattern (61 bp):
TGCCACCAACTTGTGTGGGCTTTGAAAGAAAAAGACGTCCAGCTCTTTGAGGACTAAAAGG
Found at i:40557 original size:41 final size:40
Alignment explanation
Indices: 40458--40562 Score: 126
Period size: 41 Copynumber: 2.6 Consensus size: 40
40448 GTCCCACTTT
*
40458 TTGAGGACAAAGG-AAAAGAAAATGAAATAGGTCTCGCTCC
1 TTGAGGACAAAGGAAAAAGAAAAGGAAATA-GTCTCGCTCC
*
40498 TTGAGGACAAAGGAAAAAAGAAAAGGAAAGT-GTC-CTGCTTC
1 TTGAGGACAAAGG-AAAAAGAAAAGGAAA-TAGTCTC-GCTCC
40539 TTGAGGACAAAGTGAAAAAGAAAA
1 TTGAGGACAAAG-GAAAAAGAAAA
40563 CGTCTTGCTT
Statistics
Matches: 58, Mismatches: 2, Indels: 9
0.84 0.03 0.13
Matches are distributed among these distances:
40 14 0.24
41 29 0.50
42 14 0.24
43 1 0.02
ACGTcount: A:0.47, C:0.11, G:0.26, T:0.16
Consensus pattern (40 bp):
TTGAGGACAAAGGAAAAAGAAAAGGAAATAGTCTCGCTCC
Found at i:40781 original size:45 final size:45
Alignment explanation
Indices: 40718--40811 Score: 127
Period size: 45 Copynumber: 2.1 Consensus size: 45
40708 GAGGATAAAG
*
40718 AAAGAGGAAAATAAAGTACGCCCTACTCTTTGAGGACAAAAGGGA
1 AAAGAGGAAAATAAAGTACGACCTACTCTTTGAGGACAAAAGGGA
* * * *
40763 AAAGAAGG-AAATGAAGTACGACTTGCTCTTTGAGGACAAGAGGGA
1 AAAG-AGGAAAATAAAGTACGACCTACTCTTTGAGGACAAAAGGGA
40808 AAAG
1 AAAG
40812 GAAAAGGCAT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
45 40 0.93
46 3 0.07
ACGTcount: A:0.44, C:0.13, G:0.28, T:0.16
Consensus pattern (45 bp):
AAAGAGGAAAATAAAGTACGACCTACTCTTTGAGGACAAAAGGGA
Found at i:40924 original size:61 final size:62
Alignment explanation
Indices: 40806--41041 Score: 289
Period size: 61 Copynumber: 3.9 Consensus size: 62
40796 GGACAAGAGG
* * * * *
40806 GAAAAGGAAAAGGCATCCTGGTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTT
1 GAAAAGAAAAAGACGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTT
* ** * * *
40868 GAAAAG-AAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGAAACTAACTTGCGTGGGCTTT
1 GAAAAGAAAAAGACGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTT
*
40929 -AAAAGAAAAAGACGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCATGTGGGCTTT
1 GAAAAGAAAAAGACGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTT
* * * ** *
40990 G-AAAGAAAAAGATGTCCCGCTCTTTAAGGACTGGAAGGTGCCACCAATTCGT
1 GAAAAGAAAAAGACGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGT
41042 CCCCATACCT
Statistics
Matches: 150, Mismatches: 22, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
60 5 0.03
61 139 0.93
62 6 0.04
ACGTcount: A:0.32, C:0.19, G:0.26, T:0.23
Consensus pattern (62 bp):
GAAAAGAAAAAGACGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTT
Found at i:41425 original size:61 final size:62
Alignment explanation
Indices: 41344--41657 Score: 332
Period size: 61 Copynumber: 5.1 Consensus size: 62
41334 TGGAAAGCTT
* * * ** * *
41344 TGCCCCCAATTTGTGTGGGCTTTGAAAAG-AAAAGGCGTCTTGCTCTTTGAGGAATGAAAGG
1 TGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGACGTCCAGCTCTTTGAGGACTAAAAGG
* *
41405 TGCCACCAATTTGCGTGGGCTTTG-AAAGAAAAAGACGTCCAGCTCTTTGAGGACTAAAAGG
1 TGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGACGTCCAGCTCTTTGAGGACTAAAAGG
** * * * * * *
41466 TGCCACCAACTCATGAGGGCTTTGAAAAG-AAAAGGCATCCGGCTCTTTTAGGACTAAAAGC
1 TGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGACGTCCAGCTCTTTGAGGACTAAAAGG
* ** * * *
41527 TGCCACTAACTTGCCTGCGCGTT-AAAAGAAAAAGACGTCCAGCTCTTTGAGCACTAAAAGG
1 TGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGACGTCCAGCTCTTTGAGGACTAAAAGG
* * * * **
41588 TGCCACCAACTCGTGTGGGCCTTG-AAAGAAAAAGATGTCCTGCTCTTTGAGGACTGGAAGG
1 TGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGACGTCCAGCTCTTTGAGGACTAAAAGG
41649 TGCCACCAA
1 TGCCACCAA
41658 TTCGTCCCCA
Statistics
Matches: 207, Mismatches: 42, Indels: 8
0.81 0.16 0.03
Matches are distributed among these distances:
60 9 0.04
61 194 0.94
62 4 0.02
ACGTcount: A:0.30, C:0.22, G:0.25, T:0.23
Consensus pattern (62 bp):
TGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGACGTCCAGCTCTTTGAGGACTAAAAGG
Found at i:41621 original size:122 final size:122
Alignment explanation
Indices: 41356--41619 Score: 368
Period size: 122 Copynumber: 2.2 Consensus size: 122
41346 CCCCCAATTT
* ** * * * *
41356 GTGTGGGCTTTGAAAAGAAAAGGCGTCTTGCTCTTTGAGGAATGAAAGGTGCCACCAATTTGCGT
1 GTGTGGGCTTTGAAAAGAAAAGGCATCCGGCTCTTTGAGGAATAAAAGCTGCCACCAACTTGCCT
* * * *
41421 GGGCTTTGAAAGAAAAAGACGTCCAGCTCTTTGAGGACTAAAAGGTGCCACCAACTC
66 GCGCGTTAAAAGAAAAAGACGTCCAGCTCTTTGAGCACTAAAAGGTGCCACCAACTC
* * * * *
41478 ATGAGGGCTTTGAAAAGAAAAGGCATCCGGCTCTTTTAGGACTAAAAGCTGCCACTAACTTGCCT
1 GTGTGGGCTTTGAAAAGAAAAGGCATCCGGCTCTTTGAGGAATAAAAGCTGCCACCAACTTGCCT
41543 GCGCGTTAAAAGAAAAAGACGTCCAGCTCTTTGAGCACTAAAAGGTGCCACCAACTC
66 GCGCGTTAAAAGAAAAAGACGTCCAGCTCTTTGAGCACTAAAAGGTGCCACCAACTC
*
41600 GTGTGGGCCTTG-AAAGAAAA
1 GTGTGGGCTTTGAAAAGAAAA
41620 AGATGTCCTG
Statistics
Matches: 123, Mismatches: 19, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
121 8 0.07
122 115 0.93
ACGTcount: A:0.31, C:0.20, G:0.26, T:0.22
Consensus pattern (122 bp):
GTGTGGGCTTTGAAAAGAAAAGGCATCCGGCTCTTTGAGGAATAAAAGCTGCCACCAACTTGCCT
GCGCGTTAAAAGAAAAAGACGTCCAGCTCTTTGAGCACTAAAAGGTGCCACCAACTC
Found at i:42084 original size:61 final size:61
Alignment explanation
Indices: 41962--42275 Score: 317
Period size: 61 Copynumber: 5.1 Consensus size: 61
41952 TGGAAAGCTT
* * * * ** * *
41962 TGCCCCCAATTTGTGTGGGCTTTGAAAAGAAAAGGCCGTCTTGCTCTTTGAGGAATGAAAGG
1 TGCCACCAACTTGTGTGGGCTTTG-AAAGAAAAAGACGTCCAGCTCTTTGAGGACTAAAAGG
* * *
42024 TGCCACCAATTTGCGTGGGCTTTGAAAGAAAAAGACATCCAGCTCTTTGAGGACTAAAAGG
1 TGCCACCAACTTGTGTGGGCTTTGAAAGAAAAAGACGTCCAGCTCTTTGAGGACTAAAAGG
* * * * * *
42085 TGCCACCAACTCGTGAGGGCTTTGAAA-AGAAAAGGCATCCGGCTCTTT-AGGACTAAAAGC
1 TGCCACCAACTTGTGTGGGCTTTGAAAGA-AAAAGACGTCCAGCTCTTTGAGGACTAAAAGG
* ** * * * **
42145 TGCCACTAACTTGCCTGCGCGTTAAAAGAAAAAGACGTCCAGCTCTTTGAGCCCTAAAAGG
1 TGCCACCAACTTGTGTGGGCTTTGAAAGAAAAAGACGTCCAGCTCTTTGAGGACTAAAAGG
* * * * **
42206 TGCCACCAACTCGTGTGGGCCTTGAAAGAAAAAGATGTCCTGCTCTTTGAGGACTGGAAGG
1 TGCCACCAACTTGTGTGGGCTTTGAAAGAAAAAGACGTCCAGCTCTTTGAGGACTAAAAGG
42267 TGCCACCAA
1 TGCCACCAA
42276 TTCGTCCCCA
Statistics
Matches: 206, Mismatches: 43, Indels: 7
0.80 0.17 0.03
Matches are distributed among these distances:
60 47 0.23
61 137 0.67
62 22 0.11
ACGTcount: A:0.30, C:0.22, G:0.25, T:0.23
Consensus pattern (61 bp):
TGCCACCAACTTGTGTGGGCTTTGAAAGAAAAAGACGTCCAGCTCTTTGAGGACTAAAAGG
Found at i:42251 original size:121 final size:122
Alignment explanation
Indices: 41974--42275 Score: 367
Period size: 121 Copynumber: 2.5 Consensus size: 122
41964 CCCCCAATTT
* * * * * * *
41974 GTGTGGGCTTTGAAAAGAAAAGGCCGTCTTGCTCTTTGAGGAATGAAAGGTGCCACCAATTTGCG
1 GTGTGGGCTTTGAAAAGAAAAGG-AGTCCTGCTCTTTGAGGACTAAAAGCTGCCACCAACTTGCC
* * * *
42039 TGGGCTTTGAAAGAAAAAGACATCCAGCTCTTTGAGGACTAAAAGGTGCCACCAACTC
65 TGCGCGTTAAAAGAAAAAGACATCCAGCTCTTTGAGCACTAAAAGGTGCCACCAACTC
* * *
42097 GTGAGGGCTTTGAAAAGAAAAGGCA-TCCGGCTCTTT-AGGACTAAAAGCTGCCACTAACTTGCC
1 GTGTGGGCTTTGAAAAGAAAAGG-AGTCCTGCTCTTTGAGGACTAAAAGCTGCCACCAACTTGCC
* *
42160 TGCGCGTTAAAAGAAAAAGACGTCCAGCTCTTTGAGCCCTAAAAGGTGCCACCAACTC
65 TGCGCGTTAAAAGAAAAAGACATCCAGCTCTTTGAGCACTAAAAGGTGCCACCAACTC
* * ** *
42218 GTGTGGGCCTTG-AAAGAAAAAGATGTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAA
1 GTGTGGGCTTTGAAAAGAAAAGGA-GTCCTGCTCTTTGAGGACTAAAAGCTGCCACCAA
42276 TTCGTCCCCA
Statistics
Matches: 152, Mismatches: 24, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
119 1 0.01
120 9 0.06
121 93 0.61
122 26 0.17
123 23 0.15
ACGTcount: A:0.30, C:0.22, G:0.26, T:0.22
Consensus pattern (122 bp):
GTGTGGGCTTTGAAAAGAAAAGGAGTCCTGCTCTTTGAGGACTAAAAGCTGCCACCAACTTGCCT
GCGCGTTAAAAGAAAAAGACATCCAGCTCTTTGAGCACTAAAAGGTGCCACCAACTC
Found at i:42437 original size:619 final size:621
Alignment explanation
Indices: 40808--43225 Score: 4207
Period size: 621 Copynumber: 3.9 Consensus size: 621
40798 ACAAGAGGGA
* * * * * *
40808 AAAGGAAAAGGCATCCTGGTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAA
1 AAAGAAAAAGACATCCAGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGAGGGCTTTGAAAA
* * * * ** * * *
40873 GAAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGAAACTAACTTGCGTGGGCTTTAAAAGAAAA
66 GAAAAGGCATCCGGCTCTTTTAGGACTAAAAGCTGCCACTAACTTGCCTGCGCGTTAAAAGAAAA
* * * *
40938 AGACGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCATGTGGGCTTTGAAAGAAAAAGAT
131 AGACGTCCAGCTCTTTGAGCACTAAAAGGTGCCACCAACTCGTGTGGGCCTTGAAAGAAAAAGAT
* * * *
41003 GTCCCGCTCTTTAAGGACTGGAAGGTGCCACCAATTCGTCCCCATACCTTTCAACCCCTCCATCT
196 GTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAATTCGTCCCCATACCTTTCGACCCCTCCATGT
* * * * * *
41068 AGTAATGCTTTGGGTTACCGAAAAATTAACCC-AGACAAAGTGAGGTGTCTACAACTGCCCCTCT
261 AGTAATGCTTTGGGTTACCGAAAAATTAGCCCGA-ACAAAATGAGATTTCTACAGCTGCCTCTCT
* * *
41132 TTGGCTGTTTCTGAGTATCAGGAATAGGGCAAAAACAAAAGACAACCATTTTGTCCGTGAAGG-A
325 ATGGTTGTTTCTGAGTATCAGGAATAGGGCAAAGACAAAAGACAACCATTTTGTCCGTGAAGGAA
41196 AAAAAAGAATGCTTAGCTAAATGCTTGTAAAAAGATGACATTCAAATATTTTTTTTTTGATTTTA
390 AAAAAAGAATGCTTAGCTAAATGCTTGTAAAAAGATGACATTCAAATA-TTTTTTTTTGATTTTA
*
41261 TGGTTTTCCCTACTAGGTTTTCAGATTTTCTAAAGCTTGACCTCCTTAGATAGGTGTTGGTTACT
454 TGGTTTTCCCTACTAGGTTTTGAGATTTTCTAAAGCTTGACCTCCTTAGATAGGTGTTGGTTACT
41326 GTAGGCTTTGGAAAGCTTTGCCCCCAATTTGTGTGGGCTTTGAAAAGAAAAGGCGTCTTGCTCTT
519 GTAGGCTTTGGAAAGCTTTGCCCCCAATTTGTGTGGGCTTTGAAAAGAAAAGGCGTCTTGCTCTT
41391 TGAGGAATGAAAGGTGCCACCAATTTGCGTGGGCTTTG
584 TGAGGAATGAAAGGTGCCACCAATTTGCGTGGGCTTTG
* *
41429 AAAGAAAAAGACGTCCAGCTCTTTGAGGACTAAAAGGTGCCACCAACTCATGAGGGCTTTGAAAA
1 AAAGAAAAAGACATCCAGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGAGGGCTTTGAAAA
41494 GAAAAGGCATCCGGCTCTTTTAGGACTAAAAGCTGCCACTAACTTGCCTGCGCGTTAAAAGAAAA
66 GAAAAGGCATCCGGCTCTTTTAGGACTAAAAGCTGCCACTAACTTGCCTGCGCGTTAAAAGAAAA
41559 AGACGTCCAGCTCTTTGAGCACTAAAAGGTGCCACCAACTCGTGTGGGCCTTGAAAGAAAAAGAT
131 AGACGTCCAGCTCTTTGAGCACTAAAAGGTGCCACCAACTCGTGTGGGCCTTGAAAGAAAAAGAT
41624 GTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAATTCGTCCCCATACCTTTCGACCCCTCCATGT
196 GTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAATTCGTCCCCATACCTTTCGACCCCTCCATGT
41689 AGTAATGCTTTGGGTTACCGAAAAATTAGCCCGAACAAAATGAGATTTCTACAGCTGCCTCTCTA
261 AGTAATGCTTTGGGTTACCGAAAAATTAGCCCGAACAAAATGAGATTTCTACAGCTGCCTCTCTA
41754 TGGTTGTTTCTGAGTATCAGGAATAGGGCAAAGACAAAAGACAACCATTTTGTCCGTGAAGG-AA
326 TGGTTGTTTCTGAGTATCAGGAATAGGGCAAAGACAAAAGACAACCATTTTGTCCGTGAAGGAAA
41818 AAAAAGAATGCTTAGCTAAATGCTTGTAAAAAGATGACATTCAAATA-TTTTTTTT-ATTTTATG
391 AAAAAGAATGCTTAGCTAAATGCTTGTAAAAAGATGACATTCAAATATTTTTTTTTGATTTTATG
41881 GTTTTCCCTACTAGGTTTTGAGATTTTCTAAAGCTTGACCTCCTTAGATAGGTGTTGGTTACTGT
456 GTTTTCCCTACTAGGTTTTGAGATTTTCTAAAGCTTGACCTCCTTAGATAGGTGTTGGTTACTGT
41946 AGGCTTTGGAAAGCTTTGCCCCCAATTTGTGTGGGCTTTGAAAAGAAAAGGCCGTCTTGCTCTTT
521 AGGCTTTGGAAAGCTTTGCCCCCAATTTGTGTGGGCTTTGAAAAGAAAAGG-CGTCTTGCTCTTT
42011 GAGGAATGAAAGGTGCCACCAATTTGCGTGGGCTTTG
585 GAGGAATGAAAGGTGCCACCAATTTGCGTGGGCTTTG
42048 AAAGAAAAAGACATCCAGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGAGGGCTTTGAAAA
1 AAAGAAAAAGACATCCAGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGAGGGCTTTGAAAA
42113 GAAAAGGCATCCGGCTC-TTTAGGACTAAAAGCTGCCACTAACTTGCCTGCGCGTTAAAAGAAAA
66 GAAAAGGCATCCGGCTCTTTTAGGACTAAAAGCTGCCACTAACTTGCCTGCGCGTTAAAAGAAAA
*
42177 AGACGTCCAGCTCTTTGAGCCCTAAAAGGTGCCACCAACTCGTGTGGGCCTTGAAAGAAAAAGAT
131 AGACGTCCAGCTCTTTGAGCACTAAAAGGTGCCACCAACTCGTGTGGGCCTTGAAAGAAAAAGAT
42242 GTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAATTCGTCCCCATACCTTTCGACCCCTCCATGT
196 GTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAATTCGTCCCCATACCTTTCGACCCCTCCATGT
42307 AGTAATGCTTTGGGTTACCGAAAAATTAGCCCGAACAAAATGAGATTTTCTACAGCTGCCTCTCT
261 AGTAATGCTTTGGGTTACCGAAAAATTAGCCCGAACAAAATGAGA-TTTCTACAGCTGCCTCTCT
42372 ATGGTTGTTTCTGAGTATCAGGAATAGGGCAAAGACAAAAGACAACCATTTTGTCCGTGAAGGAA
325 ATGGTTGTTTCTGAGTATCAGGAATAGGGCAAAGACAAAAGACAACCATTTTGTCCGTGAAGGAA
42437 AAAAAAGAATGCTTAGCTAAATGCTTGTAAAAAGATGACATTCAAAT-TTTTTTTTT-ATTTTAT
390 AAAAAAGAATGCTTAGCTAAATGCTTGTAAAAAGATGACATTCAAATATTTTTTTTTGATTTTAT
42500 GGTTTTCCCTACTAGGTTTTGAGATTTTCTAAAGCTTGACCTCCTTAGTATAGGTGTTGGTTACT
455 GGTTTTCCCTACTAGGTTTTGAGATTTTCTAAAGCTTGACCTCCTTAG-ATAGGTGTTGGTTACT
42565 GTAGGCTTTGGAAAGGCTTTG-CCCCAATTTGTGTGGGCTTTG-AAAGAAAAGGCGTCTTGCTCT
519 GTAGGCTTTGGAAA-GCTTTGCCCCCAATTTGTGTGGGCTTTGAAAAGAAAAGGCGTCTTGCTCT
*
42628 TTGAGGAATGAAAGGTTGCCACCACTTTGCGTGGGCTTTG
583 TTGAGGAATGAAAGG-TGCCACCAATTTGCGTGGGCTTTG
*
42668 -AAGAAAAAGACGTCCAGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGAGGGCTTTGAAAA
1 AAAGAAAAAGACATCCAGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGAGGGCTTTGAAAA
42732 GAAAAGGCATCCGGCTCTTTTAGGACTAAAAGCTGCCACTAACTTGCCTGCGCGTTAAAAGAAAA
66 GAAAAGGCATCCGGCTCTTTTAGGACTAAAAGCTGCCACTAACTTGCCTGCGCGTTAAAAGAAAA
42797 AGACGTCCAGCTCTTTGAGCACTAAAAGGTGCCACCAACTCGTGTGGGCCTTGAAAGAAAAAGAT
131 AGACGTCCAGCTCTTTGAGCACTAAAAGGTGCCACCAACTCGTGTGGGCCTTGAAAGAAAAAGAT
*
42862 GTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAATTCGTCCCCATACCTTTCGACCCCTCAATGT
196 GTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAATTCGTCCCCATACCTTTCGACCCCTCCATGT
*
42927 AGTAATGCTTTGGGTTACCGAAAAATTAGCCCAAACAAAATGAGATTTCTACAGCTGCCTCTCTA
261 AGTAATGCTTTGGGTTACCGAAAAATTAGCCCGAACAAAATGAGATTTCTACAGCTGCCTCTCTA
42992 TGGTTGTTTCTGAGTATCAGGAATAGGGCAAAGACAAAAGAC-ACCATTTTGTCCGTGAAGGAAA
326 TGGTTGTTTCTGAGTATCAGGAATAGGGCAAAGACAAAAGACAACCATTTTGTCCGTGAAGG-AA
* * * *
43056 AAAAAAGAATGATTAGCTAAATGCATGTAAAAGGA-CAGCATTCAAA-ATTTGTTTTTTGATTTT
390 AAAAAAGAATGCTTAGCTAAATGCTTGTAAAAAGATGA-CATTCAAATATTT-TTTTTTGATTTT
*
43119 ATGGTTTTCCCTACTAGGTTTTGAGATTTTCTAATGCTTGACCTCCTTAGATAGGTGTTGGTTAC
453 ATGGTTTTCCCTACTAGGTTTTGAGATTTTCTAAAGCTTGACCTCCTTAGATAGGTGTTGGTTAC
* * * *
43184 TTTAGGCTTTGGAAAGGTTTGCCACCAACTTGTGTGGGCTTT
518 TGTAGGCTTTGGAAAGCTTTGCCCCCAATTTGTGTGGGCTTT
43226 TTGGGTGCTG
Statistics
Matches: 1730, Mismatches: 52, Indels: 31
0.95 0.03 0.02
Matches are distributed among these distances:
618 364 0.21
619 438 0.25
620 416 0.24
621 505 0.29
622 7 0.00
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.28
Consensus pattern (621 bp):
AAAGAAAAAGACATCCAGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGAGGGCTTTGAAAA
GAAAAGGCATCCGGCTCTTTTAGGACTAAAAGCTGCCACTAACTTGCCTGCGCGTTAAAAGAAAA
AGACGTCCAGCTCTTTGAGCACTAAAAGGTGCCACCAACTCGTGTGGGCCTTGAAAGAAAAAGAT
GTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAATTCGTCCCCATACCTTTCGACCCCTCCATGT
AGTAATGCTTTGGGTTACCGAAAAATTAGCCCGAACAAAATGAGATTTCTACAGCTGCCTCTCTA
TGGTTGTTTCTGAGTATCAGGAATAGGGCAAAGACAAAAGACAACCATTTTGTCCGTGAAGGAAA
AAAAAGAATGCTTAGCTAAATGCTTGTAAAAAGATGACATTCAAATATTTTTTTTTGATTTTATG
GTTTTCCCTACTAGGTTTTGAGATTTTCTAAAGCTTGACCTCCTTAGATAGGTGTTGGTTACTGT
AGGCTTTGGAAAGCTTTGCCCCCAATTTGTGTGGGCTTTGAAAAGAAAAGGCGTCTTGCTCTTTG
AGGAATGAAAGGTGCCACCAATTTGCGTGGGCTTTG
Found at i:42891 original size:122 final size:120
Alignment explanation
Indices: 42595--42892 Score: 366
Period size: 122 Copynumber: 2.5 Consensus size: 120
42585 GCCCCAATTT
* * * * * *
42595 GTGTGGGCTTTGAAAGAAAAGGCGTCTTGCTCTTTGAGGAATGAAAGGTTGCCACCACTTTGCGT
1 GTGTGGGCTTTGAAAGAAAAAGAGTCCTGCTCTTTGAGGACTGAAAGG-TGCCACAACTTTGCCT
* ** *
42660 GGGCTTTGAAGAAAAAGACGTCCAGCTCTTTGAGGACTAAAAGGTGCCACCAACTC
65 GCGCTTAAAAGAAAAAGACGTCCAGCTCTTTGAGCACTAAAAGGTGCCACCAACTC
* * * * * *
42716 GTGAGGGCTTTGAAAAGAAAAGGCA-TCCGGCTCTTTTAGGACTAAAAGCTGCCACTAAC-TTGC
1 GTGTGGGCTTTG-AAAGAAAAAG-AGTCCTGCTCTTTGAGGACTGAAAGGTGCCAC-AACTTTGC
42779 CTGCGCGTTAAAAGAAAAAGACGTCCAGCTCTTTGAGCACTAAAAGGTGCCACCAACTC
63 CTGCGC-TTAAAAGAAAAAGACGTCCAGCTCTTTGAGCACTAAAAGGTGCCACCAACTC
* *
42838 GTGTGGGCCTTGAAAGAAAAAGATGTCCTGCTCTTTGAGGACTGGAAGGTGCCAC
1 GTGTGGGCTTTGAAAGAAAAAGA-GTCCTGCTCTTTGAGGACTGAAAGGTGCCAC
42893 CAATTCGTCC
Statistics
Matches: 149, Mismatches: 22, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
120 1 0.01
121 34 0.23
122 114 0.77
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.23
Consensus pattern (120 bp):
GTGTGGGCTTTGAAAGAAAAAGAGTCCTGCTCTTTGAGGACTGAAAGGTGCCACAACTTTGCCTG
CGCTTAAAAGAAAAAGACGTCCAGCTCTTTGAGCACTAAAAGGTGCCACCAACTC
Found at i:42895 original size:61 final size:61
Alignment explanation
Indices: 42595--42900 Score: 314
Period size: 61 Copynumber: 5.0 Consensus size: 61
42585 GCCCCAATTT
* ** * * *
42595 GTGTGGGCTTTGAAAG-AAAAGGCGTCTTGCTCTTTGAGGAATGAAAGGTTGCCACC-ACTTT
1 GTGTGGGCTTTGAAAGAAAAAGACGTCCAGCTCTTTGAGGACTAAAAGG-TGCCACCAAC-TC
*
42656 GCGTGGGCTTTG-AAGAAAAAGACGTCCAGCTCTTTGAGGACTAAAAGGTGCCACCAACTC
1 GTGTGGGCTTTGAAAGAAAAAGACGTCCAGCTCTTTGAGGACTAAAAGGTGCCACCAACTC
* * * * * * * *
42716 GTGAGGGCTTTGAAA-AGAAAAGGCATCCGGCTCTTTTAGGACTAAAAGCTGCCACTAACTT
1 GTGTGGGCTTTGAAAGA-AAAAGACGTCCAGCTCTTTGAGGACTAAAAGGTGCCACCAACTC
** * * * *
42777 GCCTGCGCGTTAAAAGAAAAAGACGTCCAGCTCTTTGAGCACTAAAAGGTGCCACCAACTC
1 GTGTGGGCTTTGAAAGAAAAAGACGTCCAGCTCTTTGAGGACTAAAAGGTGCCACCAACTC
* * * ** *
42838 GTGTGGGCCTTGAAAGAAAAAGATGTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAATTC
1 GTGTGGGCTTTGAAAGAAAAAGACGTCCAGCTCTTTGAGGACTAAAAGGTGCCACCAACTC
42899 GT
1 GT
42901 CCCCATACCT
Statistics
Matches: 199, Mismatches: 41, Indels: 10
0.80 0.16 0.04
Matches are distributed among these distances:
60 22 0.11
61 176 0.88
62 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.26, T:0.24
Consensus pattern (61 bp):
GTGTGGGCTTTGAAAGAAAAAGACGTCCAGCTCTTTGAGGACTAAAAGGTGCCACCAACTC
Found at i:43333 original size:40 final size:41
Alignment explanation
Indices: 43289--43388 Score: 125
Period size: 41 Copynumber: 2.4 Consensus size: 41
43279 GTCCCACTTT
*
43289 TTGAGGACAAAGGAAAAGA-AAATGAAATAG-GT-CTCACTCC
1 TTGAGGACAAAGGAAAAAAGAAATGAAA-AGTGTCCT-ACTCC
* *
43329 TTGAGGACAAAGGAAAAAAGAAATGAAAAGTGTCCTGCTTC
1 TTGAGGACAAAGGAAAAAAGAAATGAAAAGTGTCCTACTCC
43370 TTGAGGACAAAGTGAAAAA
1 TTGAGGACAAAG-GAAAAA
43389 GAACACGTCC
Statistics
Matches: 53, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
40 20 0.38
41 25 0.47
42 8 0.15
ACGTcount: A:0.46, C:0.12, G:0.24, T:0.18
Consensus pattern (41 bp):
TTGAGGACAAAGGAAAAAAGAAATGAAAAGTGTCCTACTCC
Found at i:43467 original size:46 final size:43
Alignment explanation
Indices: 43394--43632 Score: 157
Period size: 42 Copynumber: 5.5 Consensus size: 43
43384 AAAAAGAACA
* **
43394 CGTCCTGCTTTTTGAAAACAAA-GAAAAAAGGAAAATGAAATG
1 CGTCCTGCTCTTTGAGGACAAAGGAAAAAAGGAAAATGAAATG
* *
43436 TGTCTTGCTCTTTGAGGACTAGAAGGGAAAAAAAGG-AAATGAAGA-G
1 CGTCCTGCTCTTTGAGGAC-A-AA-GG-AAAAAAGGAAAATGAA-ATG
* * * * * *
43482 CATCCTGCACTTTAAGGACAAAGGAGAAATGGAAAACGAAATG
1 CGTCCTGCTCTTTGAGGACAAAGGAAAAAAGGAAAATGAAATG
* * ** *
43525 CGTCCTGCTCTTTGAGGATAAAAG-AAAGTGGAAAAT-AAAGTA
1 CGTCCTGCTCTTTGAGGACAAAGGAAAAAAGGAAAATGAAA-TG
* * * *
43567 CGCCCTACTCTTTGAGGACAAAAGGGAAAAGAAGG-AAATGAAGTA
1 CGTCCTGCTCTTTGAGGAC-AAA-GGAAAA-AAGGAAAATGAAATG
* *
43612 CGACTTGCTCTTTGAGGACAA
1 CGTCCTGCTCTTTGAGGACAA
43633 GAGGGAAGAG
Statistics
Matches: 151, Mismatches: 32, Indels: 26
0.72 0.15 0.12
Matches are distributed among these distances:
41 3 0.02
42 47 0.31
43 32 0.21
44 7 0.05
45 26 0.17
46 27 0.18
47 9 0.06
ACGTcount: A:0.41, C:0.14, G:0.25, T:0.21
Consensus pattern (43 bp):
CGTCCTGCTCTTTGAGGACAAAGGAAAAAAGGAAAATGAAATG
Found at i:43626 original size:45 final size:44
Alignment explanation
Indices: 43441--43646 Score: 133
Period size: 45 Copynumber: 4.7 Consensus size: 44
43431 AAATGTGTCT
* *
43441 TGCTCTTTGAGGACTAGAAGGGAAAAAAAGGAAATGAAG-A-GCATCC
1 TGCTCTTTGAGGAC-AAAAGGG-AAAAGAGGAAATGAAGTACG-A-CC
* * * * * * * *
43487 TGCACTTTAAGGAC-AAAGGAGAAATG-GAAAACGAAATGCGTCC
1 TGCTCTTTGAGGACAAAAGG-GAAAAGAGGAAATGAAGTACGACC
* * * *
43530 TGCTCTTTGAGGATAAAA--G-AAAGTGGAAAATAAAGTACGCCC
1 TGCTCTTTGAGGACAAAAGGGAAAAGAGG-AAATGAAGTACGACC
* *
43572 TACTCTTTGAGGACAAAAGGGAAAAGAAGGAAATGAAGTACGACT
1 TGCTCTTTGAGGACAAAAGGGAAAAG-AGGAAATGAAGTACGACC
*
43617 TGCTCTTTGAGGACAAGAGGG--AAGAGGAAA
1 TGCTCTTTGAGGACAAAAGGGAAAAGAGGAAA
43647 AGGCATCCTG
Statistics
Matches: 122, Mismatches: 28, Indels: 24
0.70 0.16 0.14
Matches are distributed among these distances:
40 3 0.02
41 2 0.02
42 32 0.26
43 23 0.19
44 11 0.09
45 37 0.30
46 14 0.11
ACGTcount: A:0.41, C:0.13, G:0.28, T:0.18
Consensus pattern (44 bp):
TGCTCTTTGAGGACAAAAGGGAAAAGAGGAAATGAAGTACGACC
Found at i:43755 original size:61 final size:61
Alignment explanation
Indices: 43643--43871 Score: 282
Period size: 61 Copynumber: 3.8 Consensus size: 61
43633 GAGGGAAGAG
* * * *
43643 GAAAAGGCATCCTGGTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAA
1 GAAAAGACGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAA
* ** * * *
43704 GAAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGAAACTAACTTGCGTGGGCTTT-AAAA
1 GAAAAGACGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAA
*
43764 GAAAAAGACGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCATGTGGGCTTTG-AAA
1 G-AAAAGACGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAA
* * * ** *
43825 GAAAAGATGTCCCGCTCTTTAAGGACTGGAAGGTGCCACCAATTCGT
1 GAAAAGACGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGT
43872 CCCCATACCT
Statistics
Matches: 144, Mismatches: 22, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
60 44 0.31
61 100 0.69
ACGTcount: A:0.31, C:0.20, G:0.26, T:0.24
Consensus pattern (61 bp):
GAAAAGACGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAA
Found at i:44251 original size:61 final size:61
Alignment explanation
Indices: 44170--44482 Score: 344
Period size: 61 Copynumber: 5.1 Consensus size: 61
44160 TGGAAAGCTT
* * * ** * *
44170 TGCCCCCAATTTGTGTGGGCTTTGAAA-AGAAAAGGCGTCTTGCTCTTTGAGGAATGAAAGG
1 TGCCACCAACTTGTGTGGGCTTTGAAAGA-AAAAGACGTCCAGCTCTTTGAGGACTAAAAGG
* *
44231 TGCCACCAATTTGCGTGGGCTTTGAAAGAAAAAGACGTCCAGCTCTTTGAGGACTAAAAGG
1 TGCCACCAACTTGTGTGGGCTTTGAAAGAAAAAGACGTCCAGCTCTTTGAGGACTAAAAGG
* * * * * * *
44292 TGCCACCAACTCGTGAGGGCTTTGAAAGAAAAAGGCATCCGGCTCTTTTAGGACTAAAAGC
1 TGCCACCAACTTGTGTGGGCTTTGAAAGAAAAAGACGTCCAGCTCTTTGAGGACTAAAAGG
* ** * * *
44353 TGCCACTAACTTGCCTGCG-TGTTAAAAGAAAAAGACGTCCAGCTCTTTGAGCACTAAAAGG
1 TGCCACCAACTTGTGTGGGCT-TTGAAAGAAAAAGACGTCCAGCTCTTTGAGGACTAAAAGG
* * * **
44414 TGCCACCAACTCGTGTGGGCCTTGAAAGAAAAAGATGTCC-GCTCTTTGAGGACTGGAAGG
1 TGCCACCAACTTGTGTGGGCTTTGAAAGAAAAAGACGTCCAGCTCTTTGAGGACTAAAAGG
44474 TGCCACCAA
1 TGCCACCAA
44483 TTCGTCCCCA
Statistics
Matches: 209, Mismatches: 40, Indels: 7
0.82 0.16 0.03
Matches are distributed among these distances:
60 27 0.13
61 181 0.87
62 1 0.00
ACGTcount: A:0.30, C:0.21, G:0.26, T:0.23
Consensus pattern (61 bp):
TGCCACCAACTTGTGTGGGCTTTGAAAGAAAAAGACGTCCAGCTCTTTGAGGACTAAAAGG
Found at i:44970 original size:41 final size:41
Alignment explanation
Indices: 44871--44973 Score: 122
Period size: 41 Copynumber: 2.5 Consensus size: 41
44861 GTCCCACTTT
*
44871 TTGAGGACAAAGG-AAAAGAAAATGAAATAGGTCTCACTCC
1 TTGAGGACAAAGGAAAAAGAAAATGAAAAAGGTCTCACTCC
* * *
44911 TTGAGGACAAAGGAAAAAAGAAAA-GAAAAATGTC-CTGCTTC
1 TTGAGGACAAAGG-AAAAAGAAAATGAAAAAGGTCTC-ACTCC
44952 TTGAGGACAAAGTGAAAAAGAA
1 TTGAGGACAAAG-GAAAAAGAA
44974 CACGTCCTGC
Statistics
Matches: 55, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
40 14 0.25
41 31 0.56
42 10 0.18
ACGTcount: A:0.49, C:0.12, G:0.23, T:0.17
Consensus pattern (41 bp):
TTGAGGACAAAGGAAAAAGAAAATGAAAAAGGTCTCACTCC
Done.