Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D07
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: 58101237
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1550000 characters in sequence are not A, C, G, or T
File 95 of 199
Found at i:26641837 original size:12 final size:12
Alignment explanation
Indices: 26641794--26641843 Score: 55
Period size: 12 Copynumber: 3.9 Consensus size: 12
26641784 TATCTCTTCA
26641794 AAAAAAAAAAAG
1 AAAAAAAAAAAG
* *
26641806 AAAGAAAGAAAG
1 AAAAAAAAAAAG
26641818 AAAGAAAAACAAAG
1 AAA-AAAAA-AAAG
26641832 AAAAAATAAAAA
1 AAAAAA-AAAAA
26641844 AAGAGAGCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
12 13 0.42
13 9 0.29
14 9 0.29
ACGTcount: A:0.84, C:0.02, G:0.12, T:0.02
Consensus pattern (12 bp):
AAAAAAAAAAAG
Found at i:26641843 original size:8 final size:8
Alignment explanation
Indices: 26641793--26641847 Score: 51
Period size: 8 Copynumber: 6.9 Consensus size: 8
26641783 TTATCTCTTC
26641793 AAAAA-AA
1 AAAAAGAA
26641800 AAAAAGAA
1 AAAAAGAA
*
26641808 AGAAAGAA
1 AAAAAGAA
*
26641816 AGAAAGAA
1 AAAAAGAA
26641824 AAACAA-AGA
1 AAA-AAGA-A
*
26641833 AAAAATAA
1 AAAAAGAA
26641841 AAAAAGA
1 AAAAAGA
26641848 GAGCATATGT
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
7 5 0.12
8 29 0.71
9 7 0.17
ACGTcount: A:0.84, C:0.02, G:0.13, T:0.02
Consensus pattern (8 bp):
AAAAAGAA
Found at i:26642578 original size:10 final size:11
Alignment explanation
Indices: 26642540--26642581 Score: 52
Period size: 10 Copynumber: 3.8 Consensus size: 11
26642530 TAACATGTTG
26642540 AATTTTGATTA
1 AATTTTGATTA
26642551 AATTTT-ATAATA
1 AATTTTGAT--TA
26642563 AATTTTGATT-
1 AATTTTGATTA
26642573 AATTTTGAT
1 AATTTTGAT
26642582 CATTTTCGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
10 11 0.39
11 7 0.25
12 8 0.29
13 2 0.07
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (11 bp):
AATTTTGATTA
Found at i:26648551 original size:34 final size:34
Alignment explanation
Indices: 26648508--26648575 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
26648498 TTGCTTCGTC
26648508 ATATGTGAGTGGGTCATTATCTTCCTGTTTCGCA
1 ATATGTGAGTGGGTCATTATCTTCCTGTTTCGCA
26648542 ATATGTGAGTGGGTCATTATCTTCCTGTTTCGCA
1 ATATGTGAGTGGGTCATTATCTTCCTGTTTCGCA
26648576 GACTTAGTGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.18, C:0.18, G:0.24, T:0.41
Consensus pattern (34 bp):
ATATGTGAGTGGGTCATTATCTTCCTGTTTCGCA
Found at i:26659243 original size:26 final size:26
Alignment explanation
Indices: 26659204--26659264 Score: 81
Period size: 26 Copynumber: 2.4 Consensus size: 26
26659194 TTACCCCAGC
26659204 AAAA-TTTGAAGA-TTTTACCCTGGGT
1 AAAATTTTGAAGATTTTTACCCT-GGT
* *
26659229 AAAATTTTGATGATTTTTCCCCTGGT
1 AAAATTTTGAAGATTTTTACCCTGGT
26659255 AAAATTTTGA
1 AAAATTTTGA
26659265 GAAAATATGT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
25 4 0.12
26 20 0.62
27 8 0.25
ACGTcount: A:0.31, C:0.11, G:0.16, T:0.41
Consensus pattern (26 bp):
AAAATTTTGAAGATTTTTACCCTGGT
Found at i:26674827 original size:40 final size:40
Alignment explanation
Indices: 26674715--26674820 Score: 160
Period size: 40 Copynumber: 2.6 Consensus size: 40
26674705 TTGAATGATG
26674715 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
26674755 TCCAGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
26674796 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
26674821 AACGAGTAGC
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
40 56 0.97
41 2 0.03
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:26697423 original size:343 final size:343
Alignment explanation
Indices: 26696797--26697454 Score: 1271
Period size: 343 Copynumber: 1.9 Consensus size: 343
26696787 TATTAGTCAT
*
26696797 CCAACTTATAGTGAGTTTGAAAATGCACAAGTTTGGTTGCAATGTTAATGAAATAATAAGAAATA
1 CCAACTTATAGTGAGTTTGAAAATGCACAAGTTTGGTTGCAATGCTAATGAAATAATAAGAAATA
*
26696862 GTAAAGAATAAGAAGCAGATGAGACAATGAATTGATTATGTAGTTCACTTCAACAACCTATTTCT
66 GTAAAGAATAAGAAGCAGAGGAGACAATGAATTGATTATGTAGTTCACTTCAACAACCTATTTCT
26696927 GTAGAATCTTATTCAGAGAATGAATCCACTATATAATTTTCATAGTACAACCTTTCATAACCAAC
131 GTAGAATCTTATTCAGAGAATGAATCCACTATATAATTTTCATAGTACAACCTTTCATAACCAAC
26696992 CTAATCTATCCAAACACGCCAAGGATATTTGTTGCCTCAAAGTTGCACAATTTGTTTACATTCAC
196 CTAATCTATCCAAACACGCCAAGGATATTTGTTGCCTCAAAGTTGCACAATTTGTTTACATTCAC
*
26697057 TCACCCTTAAAACTACTATTTCAAGCAAAGATAAATATCACTCTCCTATAAAATGCACAAGTTTG
261 TCACCCTTAAAACTACCATTTCAAGCAAAGATAAATATCACTCTCCTATAAAATGCACAAGTTTG
26697122 AAAGTGAGTTTGAAACTA
326 AAAGTGAGTTTGAAACTA
*
26697140 CCAACTTATAGTGAGTTTGAAAGTGCACAAGTTTGGTTGCAATGCTAATGAAATAATAAGAAATA
1 CCAACTTATAGTGAGTTTGAAAATGCACAAGTTTGGTTGCAATGCTAATGAAATAATAAGAAATA
26697205 GTAAAGAATAAGAAGCAGAGGAGACAATGAATTGATTATGTAGTTCACTTCAACAACCTATTTCT
66 GTAAAGAATAAGAAGCAGAGGAGACAATGAATTGATTATGTAGTTCACTTCAACAACCTATTTCT
26697270 GTAGAATCTTATTCAGAGAATGAATCCACTATATAATTTTCATAGTACAACCTTTCATAACCAAC
131 GTAGAATCTTATTCAGAGAATGAATCCACTATATAATTTTCATAGTACAACCTTTCATAACCAAC
26697335 CTAATCTATCCAAACACGCCAAGGATATTTGTTGCCTCAAAGTTGCACAATTTGTTTACATTCAC
196 CTAATCTATCCAAACACGCCAAGGATATTTGTTGCCTCAAAGTTGCACAATTTGTTTACATTCAC
*
26697400 TCTCCCTTAAAACTACCATTTCAAGCAAAGATAAATATCACTCTCCTATAAAATG
261 TCACCCTTAAAACTACCATTTCAAGCAAAGATAAATATCACTCTCCTATAAAATG
26697455 AAAATAACAA
Statistics
Matches: 310, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
343 310 1.00
ACGTcount: A:0.38, C:0.18, G:0.13, T:0.30
Consensus pattern (343 bp):
CCAACTTATAGTGAGTTTGAAAATGCACAAGTTTGGTTGCAATGCTAATGAAATAATAAGAAATA
GTAAAGAATAAGAAGCAGAGGAGACAATGAATTGATTATGTAGTTCACTTCAACAACCTATTTCT
GTAGAATCTTATTCAGAGAATGAATCCACTATATAATTTTCATAGTACAACCTTTCATAACCAAC
CTAATCTATCCAAACACGCCAAGGATATTTGTTGCCTCAAAGTTGCACAATTTGTTTACATTCAC
TCACCCTTAAAACTACCATTTCAAGCAAAGATAAATATCACTCTCCTATAAAATGCACAAGTTTG
AAAGTGAGTTTGAAACTA
Found at i:26697748 original size:38 final size:38
Alignment explanation
Indices: 26697614--26697748 Score: 101
Period size: 38 Copynumber: 3.4 Consensus size: 38
26697604 TTCCAACATG
* * ** *
26697614 TATTATCTTCAATTTAATTTCTCTTTAAAATAATCAAA
1 TATTATCTTCAATTTAATTACTATACAAAATAATAAAA
* * * * *
26697652 TATAATCTTCAATTCAATTCCTGTCCAAAATAATCCCCAATAAA
1 TATTATCTTCAATTTAATTACTATACAAAATAAT-----A-AAA
*
26697696 TTTTAT-TTGCAATTTAATTACTATACAAAATAATAAAA
1 TATTATCTT-CAATTTAATTACTATACAAAATAATAAAA
26697734 TATTATCTTCAATTT
1 TATTATCTTCAATTT
26697749 CATTCCTCTA
Statistics
Matches: 75, Mismatches: 14, Indels: 16
0.71 0.13 0.15
Matches are distributed among these distances:
38 42 0.56
39 3 0.04
43 2 0.03
44 28 0.37
ACGTcount: A:0.41, C:0.16, G:0.01, T:0.42
Consensus pattern (38 bp):
TATTATCTTCAATTTAATTACTATACAAAATAATAAAA
Found at i:26699014 original size:13 final size:11
Alignment explanation
Indices: 26698986--26699028 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
26698976 AGTTAAATAT
26698986 TATTTTATTAA
1 TATTTTATTAA
26698997 TATTTTACTTAGA
1 TATTTTA-TTA-A
*
26699010 TA-TTTATTAT
1 TATTTTATTAA
26699020 TATTTTATT
1 TATTTTATT
26699029 TAGAAAATGG
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
10 2 0.07
11 16 0.57
12 7 0.25
13 3 0.11
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.65
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:26699015 original size:23 final size:23
Alignment explanation
Indices: 26698989--26699032 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
26698979 TAAATATTAT
26698989 TTTATTAATATTTTACTTAGATA
1 TTTATTAATATTTTACTTAGATA
* *
26699012 TTTATTATTATTTTATTTAGA
1 TTTATTAATATTTTACTTAGA
26699033 AAATGGTAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.61
Consensus pattern (23 bp):
TTTATTAATATTTTACTTAGATA
Found at i:26702451 original size:16 final size:16
Alignment explanation
Indices: 26702432--26702463 Score: 55
Period size: 16 Copynumber: 1.9 Consensus size: 16
26702422 AAATTTATTT
26702432 AAAATTGAAAAAAATTA
1 AAAATT-AAAAAAATTA
26702449 AAAATTAAAAAAATT
1 AAAATTAAAAAAATT
26702464 GCACTTGATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (16 bp):
AAAATTAAAAAAATTA
Found at i:26702782 original size:17 final size:18
Alignment explanation
Indices: 26702746--26702799 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 18
26702736 ATGCAAACTC
* * *
26702746 TTTTTACATAATTTTAAA
1 TTTTTATATTATTTTTAA
26702764 TTCTTTA-ATT-TTTTTAA
1 TT-TTTATATTATTTTTAA
26702781 TTTTTATATTATTTTTAA
1 TTTTTATATTATTTTTAA
26702799 T
1 T
26702800 ACGGTTTAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
16 4 0.13
17 11 0.35
18 12 0.39
19 4 0.13
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTTTATATTATTTTTAA
Found at i:26702834 original size:7 final size:7
Alignment explanation
Indices: 26702822--26702852 Score: 53
Period size: 7 Copynumber: 4.3 Consensus size: 7
26702812 TTTTATAATT
26702822 ATTTTAA
1 ATTTTAA
26702829 ATTTTAA
1 ATTTTAA
26702836 ATTTTAA
1 ATTTTAA
26702843 ATTTTTAA
1 A-TTTTAA
26702851 AT
1 AT
26702853 ATTTTTCTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 16 0.70
8 7 0.30
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (7 bp):
ATTTTAA
Found at i:26702850 original size:8 final size:8
Alignment explanation
Indices: 26702757--26702857 Score: 53
Period size: 9 Copynumber: 11.5 Consensus size: 8
26702747 TTTTACATAA
26702757 TTTTAAAT
1 TTTTAAAT
*
26702765 TCTTTAATT
1 T-TTTAAAT
*
26702774 TTTTTAAT
1 TTTTAAAT
26702782 TTTTATATTAT
1 TTTTA-A--AT
*
26702793 TTTTAATACG
1 TTTTAA-A-T
*
26702803 GTTTAATAT
1 TTTTAA-AT
26702812 TTTTATAATT
1 TTTTA-AA-T
26702822 ATTTTAAA-
1 -TTTTAAAT
26702830 TTTTAAA-
1 TTTTAAAT
26702837 TTTTAAAT
1 TTTTAAAT
26702845 TTTTAAAT
1 TTTTAAAT
26702853 ATTTT
1 -TTTT
26702858 TCTATTATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 19
0.74 0.08 0.19
Matches are distributed among these distances:
7 14 0.19
8 18 0.24
9 19 0.25
10 12 0.16
11 12 0.16
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (8 bp):
TTTTAAAT
Found at i:26704768 original size:17 final size:17
Alignment explanation
Indices: 26704746--26704779 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
26704736 CCCATTAGTG
*
26704746 AAATAAACCAAATAAAA
1 AAATAAACAAAATAAAA
*
26704763 AAATAAATAAAATAAAA
1 AAATAAACAAAATAAAA
26704780 CCAAATTAAA
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:0.79, C:0.06, G:0.00, T:0.15
Consensus pattern (17 bp):
AAATAAACAAAATAAAA
Found at i:26704783 original size:27 final size:26
Alignment explanation
Indices: 26704746--26704796 Score: 75
Period size: 27 Copynumber: 1.9 Consensus size: 26
26704736 CCCATTAGTG
26704746 AAATAAACCAAATAAAAAAATAAATA
1 AAATAAACCAAATAAAAAAATAAATA
* *
26704772 AAATAAAACCAAATTAAAAATTAAA
1 AAAT-AAACCAAATAAAAAAATAAA
26704797 GGTCCACAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 4 0.18
27 18 0.82
ACGTcount: A:0.75, C:0.08, G:0.00, T:0.18
Consensus pattern (26 bp):
AAATAAACCAAATAAAAAAATAAATA
Found at i:26719583 original size:5 final size:5
Alignment explanation
Indices: 26719573--26719610 Score: 60
Period size: 5 Copynumber: 7.6 Consensus size: 5
26719563 TTTGTTTGGA
26719573 TTTAT TTTAT TTTAT TTTA- TTTATT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTA-T TTTAT TTTAT TTT
26719611 GTAAATAGAC
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
4 4 0.13
5 23 0.74
6 4 0.13
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:26722819 original size:19 final size:19
Alignment explanation
Indices: 26722795--26722864 Score: 72
Period size: 19 Copynumber: 3.6 Consensus size: 19
26722785 AAAATTATAA
*
26722795 AAAATTCAAATTAATTTTC
1 AAAATTCAAAATAATTTTC
*
26722814 AAAATTTTAAAATAATATTTC
1 AAAA-TTCAAAATAAT-TTTC
*
26722835 -AAATTCAAAAT-ATTTATA
1 AAAATTCAAAATAATTT-TC
26722853 AAAATTCAAAAT
1 AAAATTCAAAAT
26722865 TTTATATTTT
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
17 2 0.05
18 3 0.07
19 22 0.51
20 12 0.28
21 4 0.09
ACGTcount: A:0.54, C:0.07, G:0.00, T:0.39
Consensus pattern (19 bp):
AAAATTCAAAATAATTTTC
Found at i:26722870 original size:18 final size:19
Alignment explanation
Indices: 26722835--26722870 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
26722825 ATAATATTTC
26722835 AAATTCAAAATATTTATAA
1 AAATTCAAAATATTTATAA
26722854 AAATTCAAAAT-TTTATA
1 AAATTCAAAATATTTATA
26722871 TTTTTTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.39
Consensus pattern (19 bp):
AAATTCAAAATATTTATAA
Found at i:26722885 original size:20 final size:20
Alignment explanation
Indices: 26722873--26722941 Score: 77
Period size: 20 Copynumber: 3.4 Consensus size: 20
26722863 ATTTTATATT
26722873 TTTTAAAAAAATTATAATAA
1 TTTTAAAAAAATTATAATAA
26722893 TTTTAAAAAAATTATAAATAA
1 TTTTAAAAAAATTAT-AATAA
* ** *
26722914 TATATAAAGGAATTTTAA-AA
1 T-TTTAAAAAAATTATAATAA
26722934 TTTTAAAA
1 TTTTAAAA
26722942 TTTTCTAAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
19 5 0.12
20 18 0.44
21 8 0.20
22 10 0.24
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (20 bp):
TTTTAAAAAAATTATAATAA
Found at i:26723063 original size:16 final size:16
Alignment explanation
Indices: 26723044--26723074 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
26723034 TTGAAAAATT
26723044 TTTCAAATATATATGA
1 TTTCAAATATATATGA
*
26723060 TTTCAAATTTATATG
1 TTTCAAATATATATG
26723075 CTCTAACATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.06, G:0.06, T:0.48
Consensus pattern (16 bp):
TTTCAAATATATATGA
Found at i:26725957 original size:4 final size:4
Alignment explanation
Indices: 26725948--26725986 Score: 78
Period size: 4 Copynumber: 9.8 Consensus size: 4
26725938 ATCATAAATT
26725948 CATA CATA CATA CATA CATA CATA CATA CATA CATA CAT
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CAT
26725987 CCAATATCAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 35 1.00
ACGTcount: A:0.49, C:0.26, G:0.00, T:0.26
Consensus pattern (4 bp):
CATA
Found at i:26737197 original size:80 final size:80
Alignment explanation
Indices: 26737060--26737248 Score: 263
Period size: 80 Copynumber: 2.4 Consensus size: 80
26737050 AGTGTCATTG
* * * *
26737060 TTTGTACTTCGGTACCCCTGAATGCACATCTGTGCCATTGCTTGTACTTTGGCACCCCTGAATGC
1 TTTGTACTTCAGTACCCCTGAATGCACATCTGTGCCACTGCTTGTACTTCGGCACCCCTAAATGC
26737125 ACATCTGTGCCCCTA
66 ACATCTGTGCCCCTA
* * *
26737140 TTTGTACTTCAGTACCCCTGAATGCACATCTGTGCCCCTGTTTGTACTTCGGTACCCCTAAATGC
1 TTTGTACTTCAGTACCCCTGAATGCACATCTGTGCCACTGCTTGTACTTCGGCACCCCTAAATGC
*
26737205 ACATTTGTGCCCCTA
66 ACATCTGTGCCCCTA
* * *
26737220 ATTGCACTTCAGTGCCCCTG-ATCGCACAT
1 TTTGTACTTCAGTACCCCTGAAT-GCACAT
26737249 GAGTATAATT
Statistics
Matches: 97, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
79 2 0.02
80 95 0.98
ACGTcount: A:0.19, C:0.32, G:0.17, T:0.32
Consensus pattern (80 bp):
TTTGTACTTCAGTACCCCTGAATGCACATCTGTGCCACTGCTTGTACTTCGGCACCCCTAAATGC
ACATCTGTGCCCCTA
Found at i:26737216 original size:40 final size:40
Alignment explanation
Indices: 26737058--26737218 Score: 241
Period size: 40 Copynumber: 4.0 Consensus size: 40
26737048 GAAGTGTCAT
**
26737058 TGTTTGTACTTCGGTACCCCTGAATGCACATCTGTGCCAT
1 TGTTTGTACTTCGGTACCCCTGAATGCACATCTGTGCCCC
* * *
26737098 TGCTTGTACTTTGGCACCCCTGAATGCACATCTGTGCCCC
1 TGTTTGTACTTCGGTACCCCTGAATGCACATCTGTGCCCC
* *
26737138 TATTTGTACTTCAGTACCCCTGAATGCACATCTGTGCCCC
1 TGTTTGTACTTCGGTACCCCTGAATGCACATCTGTGCCCC
* *
26737178 TGTTTGTACTTCGGTACCCCTAAATGCACATTTGTGCCCC
1 TGTTTGTACTTCGGTACCCCTGAATGCACATCTGTGCCCC
26737218 T
1 T
26737219 AATTGCACTT
Statistics
Matches: 107, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 107 1.00
ACGTcount: A:0.17, C:0.31, G:0.18, T:0.34
Consensus pattern (40 bp):
TGTTTGTACTTCGGTACCCCTGAATGCACATCTGTGCCCC
Found at i:26737229 original size:40 final size:40
Alignment explanation
Indices: 26737060--26737248 Score: 236
Period size: 40 Copynumber: 4.7 Consensus size: 40
26737050 AGTGTCATTG
** *
26737060 TTTGTACTTCGGTACCCCTGAATGCACATCTGTGCCATTG
1 TTTGTACTTCGGTACCCCTGAATGCACATCTGTGCCCCTA
* * *
26737100 CTTGTACTTTGGCACCCCTGAATGCACATCTGTGCCCCTA
1 TTTGTACTTCGGTACCCCTGAATGCACATCTGTGCCCCTA
* *
26737140 TTTGTACTTCAGTACCCCTGAATGCACATCTGTGCCCCTG
1 TTTGTACTTCGGTACCCCTGAATGCACATCTGTGCCCCTA
* *
26737180 TTTGTACTTCGGTACCCCTAAATGCACATTTGTGCCCCTA
1 TTTGTACTTCGGTACCCCTGAATGCACATCTGTGCCCCTA
* * * *
26737220 ATTGCACTTCAGTGCCCCTG-ATCGCACAT
1 TTTGTACTTCGGTACCCCTGAAT-GCACAT
26737249 GAGTATAATT
Statistics
Matches: 128, Mismatches: 20, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
39 2 0.02
40 126 0.98
ACGTcount: A:0.19, C:0.32, G:0.17, T:0.32
Consensus pattern (40 bp):
TTTGTACTTCGGTACCCCTGAATGCACATCTGTGCCCCTA
Found at i:26737234 original size:20 final size:20
Alignment explanation
Indices: 26737131--26737238 Score: 76
Period size: 20 Copynumber: 5.4 Consensus size: 20
26737121 ATGCACATCT
* *
26737131 GTGCCCCTATTTGTACTTCA
1 GTGCCCCTAATTGCACTTCA
* * *
26737151 GTACCCCTGAA-TGCACATCT
1 GTGCCCCT-AATTGCACTTCA
** * *
26737171 GTGCCCCTGTTTGTACTTCG
1 GTGCCCCTAATTGCACTTCA
* * *
26737191 GTACCCCTAAATGCACATT-T
1 GTGCCCCTAATTGCAC-TTCA
26737211 GTGCCCCTAATTGCACTTCA
1 GTGCCCCTAATTGCACTTCA
26737231 GTGCCCCT
1 GTGCCCCT
26737239 GATCGCACAT
Statistics
Matches: 64, Mismatches: 20, Indels: 8
0.70 0.22 0.09
Matches are distributed among these distances:
19 2 0.03
20 59 0.92
21 3 0.05
ACGTcount: A:0.18, C:0.33, G:0.17, T:0.32
Consensus pattern (20 bp):
GTGCCCCTAATTGCACTTCA
Found at i:26737648 original size:20 final size:19
Alignment explanation
Indices: 26737623--26737688 Score: 62
Period size: 20 Copynumber: 3.3 Consensus size: 19
26737613 AGAAACATTT
26737623 GTGCCCTTGATTGCACTTCG
1 GTGCCCTTGATT-CACTTCG
*
26737643 GTGCCCCTGATCTCACATTC-
1 GTGCCCTTGAT-TCAC-TTCG
* *
26737663 GTGCTCTTGATTTCACTTTG
1 GTGCCCTTGA-TTCACTTCG
26737683 GTGCCC
1 GTGCCC
26737689 CTATTATGCA
Statistics
Matches: 37, Mismatches: 5, Indels: 8
0.74 0.10 0.16
Matches are distributed among these distances:
19 2 0.05
20 30 0.81
21 5 0.14
ACGTcount: A:0.11, C:0.32, G:0.21, T:0.36
Consensus pattern (19 bp):
GTGCCCTTGATTCACTTCG
Found at i:26738505 original size:15 final size:15
Alignment explanation
Indices: 26738485--26738518 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
26738475 TAAGCATTTT
26738485 TGGCTAAGGTTATAA
1 TGGCTAAGGTTATAA
26738500 TGGCTAAGGTTATAA
1 TGGCTAAGGTTATAA
26738515 TGGC
1 TGGC
26738519 ATGTATTGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.29, C:0.09, G:0.29, T:0.32
Consensus pattern (15 bp):
TGGCTAAGGTTATAA
Found at i:26742515 original size:19 final size:16
Alignment explanation
Indices: 26742473--26742519 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 16
26742463 ATTGAGCTTT
26742473 GAATGCTCCTTTTGAA
1 GAATGCTCCTTTTGAA
26742489 -AA-GCTCCTTTTACGTAA
1 GAATGCTCCTTTT--G-AA
26742506 GAATGCTCCTTTTG
1 GAATGCTCCTTTTG
26742520 TTGGACTGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 9
0.74 0.00 0.26
Matches are distributed among these distances:
14 9 0.35
15 2 0.08
16 1 0.04
17 3 0.12
18 2 0.08
19 9 0.35
ACGTcount: A:0.23, C:0.21, G:0.17, T:0.38
Consensus pattern (16 bp):
GAATGCTCCTTTTGAA
Found at i:26747248 original size:26 final size:26
Alignment explanation
Indices: 26747201--26747262 Score: 79
Period size: 26 Copynumber: 2.4 Consensus size: 26
26747191 CATTAGGGTG
* ** *
26747201 TAGCAGGCTTGGTGTTGGTGTATATT
1 TAGCAGGCTTCGAATTGATGTATATT
26747227 TAGCAGGCTTCGAATTGATGTATATT
1 TAGCAGGCTTCGAATTGATGTATATT
*
26747253 TAGTAGGCTT
1 TAGCAGGCTT
26747263 TGTGCTGGTG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.21, C:0.10, G:0.29, T:0.40
Consensus pattern (26 bp):
TAGCAGGCTTCGAATTGATGTATATT
Found at i:26749897 original size:3 final size:3
Alignment explanation
Indices: 26749889--26749930 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
26749879 TGATTGCTGT
26749889 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
26749931 AAGACAACCG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:26750302 original size:16 final size:16
Alignment explanation
Indices: 26750283--26750314 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
26750273 ATAACATTCT
26750283 TTTTAAACTCGTGTAA
1 TTTTAAACTCGTGTAA
26750299 TTTTAAACTCGTGTAA
1 TTTTAAACTCGTGTAA
26750315 CCCATATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.44
Consensus pattern (16 bp):
TTTTAAACTCGTGTAA
Found at i:26763773 original size:44 final size:44
Alignment explanation
Indices: 26763698--26764089 Score: 266
Period size: 44 Copynumber: 8.7 Consensus size: 44
26763688 CGTGGAAAAT
* * * *
26763698 CTTATCTCTCTGAAGTTACAGTAGAGTAGATTAAAGCTACAAAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAAC
* * * *
26763742 CTTATCTCCCTGAAGTTGCAATGGAGCAGATTGAAGATAGCAAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTA-CAAAC
* * * * * *
26763787 CTTCTCTCTCTGAAGTTTCAGTAGAGTAGGTTAAAGCTACAAAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAAC
* * * * *
26763831 CTTATCTCCCTGAAGATGTAGTGGAGCAGGATTGAAGATAGCAAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCA-GATTAAAGCTA-CAAAC
** ** * * * **
26763877 CTTATCTCTTTGAAGTTGCAGTAAAGTATATTAAAGCTATAAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAAC
* * * ** *
26763921 CTTATCTCCCTGAAGTTCCAGTAGAGCAGATTGAATATAGCGAAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTA-CAAAC
* * * * *
26763966 CTTTTTTCCTTGAAGTTGCAGTGTAACAGATTAAAGCTACAAGTTAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAA---AC
* * * *
26764013 AAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGCTTGAAG-TCACAAAT
1 ----CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCT-ACAAAC
26764061 CTTATCT-CCTCGAAGTTGCAGTGGAGCAG
1 CTTATCTCCCT-GAAGTTGCAGTGGAGCAG
26764090 GTTGAAGCGA
Statistics
Matches: 260, Mismatches: 75, Indels: 26
0.72 0.21 0.07
Matches are distributed among these distances:
43 3 0.01
44 116 0.45
45 80 0.31
46 25 0.10
47 2 0.01
48 1 0.00
50 1 0.00
51 32 0.12
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.30
Consensus pattern (44 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAAC
Found at i:26763809 original size:89 final size:89
Alignment explanation
Indices: 26763694--26764082 Score: 419
Period size: 89 Copynumber: 4.3 Consensus size: 89
26763684 TCATCGTGGA
*
26763694 AAATCTTATCTCTCTGAAGTTACAGTAGAGTAGATTAAAGCTACAAACCTTATCTCCCTGAAGTT
1 AAATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATTAAAGCTACAAACCTTATCTCCCTGAAGTT
*
26763759 GCAATGGAGCAGATTGAAGATAGC
66 GCAGTGGAGCAGATTGAAGATAGC
* * * *
26763783 AAATCTTCTCTCTCTGAAGTTTCAGTAGAGTAGGTTAAAGCTACAAACCTTATCTCCCTGAAGAT
1 AAATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATTAAAGCTACAAACCTTATCTCCCTGAAGTT
*
26763848 GTAGTGGAGCAGGATTGAAGATAGC
66 GCAGTGGAGCA-GATTGAAGATAGC
* * * * **
26763873 AAATCTTATCTCTTTGAAGTTGCAGTAAAGTATATTAAAGCTATAAGTCTTATCTCCCTGAAGTT
1 AAATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATTAAAGCTACAAACCTTATCTCCCTGAAGTT
* * *
26763938 CCAGTAGAGCAGATTGAATATAGC
66 GCAGTGGAGCAGATTGAAGATAGC
* * * * **
26763962 GAACCTTTTTTC-CTTGAAGTTGCAGT-GTAACAGATTAAAGCTACAAGTTACAAATCTTATCTC
1 AAATCTTATCTCTC-TGAAGTTGCAGTAG-AGTAGATTAAAGCTACAA---AC----CTTATCTC
* *
26764025 CCTGAAGTTGTAGTGGAGCAGCTTGAAG-TCA-C
57 CCTGAAGTTGCAGTGGAGCAGATTGAAGAT-AGC
26764057 AAATCTTATCTC-CTCGAAGTTGCAGT
1 AAATCTTATCTCTCT-GAAGTTGCAGT
26764083 GGAGCAGGTT
Statistics
Matches: 247, Mismatches: 41, Indels: 18
0.81 0.13 0.06
Matches are distributed among these distances:
89 116 0.47
90 76 0.31
94 1 0.00
95 22 0.09
96 32 0.13
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.31
Consensus pattern (89 bp):
AAATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATTAAAGCTACAAACCTTATCTCCCTGAAGTT
GCAGTGGAGCAGATTGAAGATAGC
Found at i:26764002 original size:179 final size:179
Alignment explanation
Indices: 26763694--26764082 Score: 446
Period size: 179 Copynumber: 2.1 Consensus size: 179
26763684 TCATCGTGGA
* * *
26763694 AAATCTTATCTCTCTGAAGTTACAGTAGAGTAGATTAAAGCTACAAACCTTATCTCCCTGAAGTT
1 AAATCTTATCTCTTTGAAGTTGCAGTAAAGTAGATTAAAGCTACAAACCTTATCTCCCTGAAGTT
* * * * ** *
26763759 GCAATGGAGCAGATTGAAGATAGCAAATCTTCTCTCTCTGAAGTTTCAGTAGAGTAGGTTAAAGC
66 CCAATAGAGCAGATTGAAGATAGCAAACCTTCTCTCTCTGAAGTTGCAGTAGAACAGATTAAAGC
26763824 TACAA-AC-CTTATCTCCCTGAAGATGTAGTGGAGCAGGATTGAAGAT-AGC
131 TACAATACACTTATCTCCCTGAAGATGTAGTGGAGCA-GATTGAAG-TCA-C
* * **
26763873 AAATCTTATCTCTTTGAAGTTGCAGTAAAGTATATTAAAGCTATAAGTCTTATCTCCCTGAAGTT
1 AAATCTTATCTCTTTGAAGTTGCAGTAAAGTAGATTAAAGCTACAAACCTTATCTCCCTGAAGTT
* * * * *
26763938 CCAGTAGAGCAGATTGAATATAGCGAACCTTTTTTC-CTTGAAGTTGCAGT-GTAACAGATTAAA
66 CCAATAGAGCAGATTGAAGATAGCAAACCTTCTCTCTC-TGAAGTTGCAGTAG-AACAGATTAAA
* *
26764001 GCTACAAGTTACAAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGCTTGAAGTCAC
129 GCTACAA--TAC--A-CTTATCTCCCTGAAGATGTAGTGGAGCAGATTGAAGTCAC
* *
26764057 AAATCTTATCTCCTCGAAGTTGCAGT
1 AAATCTTATCTCTTTGAAGTTGCAGT
26764083 GGAGCAGGTT
Statistics
Matches: 177, Mismatches: 23, Indels: 15
0.82 0.11 0.07
Matches are distributed among these distances:
178 2 0.01
179 112 0.63
182 2 0.01
184 26 0.15
185 8 0.05
186 27 0.15
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.31
Consensus pattern (179 bp):
AAATCTTATCTCTTTGAAGTTGCAGTAAAGTAGATTAAAGCTACAAACCTTATCTCCCTGAAGTT
CCAATAGAGCAGATTGAAGATAGCAAACCTTCTCTCTCTGAAGTTGCAGTAGAACAGATTAAAGC
TACAATACACTTATCTCCCTGAAGATGTAGTGGAGCAGATTGAAGTCAC
Found at i:26764120 original size:44 final size:43
Alignment explanation
Indices: 26764006--26764128 Score: 113
Period size: 44 Copynumber: 2.8 Consensus size: 43
26763996 TTAAAGCTAC
* ** *
26764006 AAGTTACAAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGCTTG
1 AAGTCACAAATCCCATC-CCCTGAAGTTGCAGTGGAGCAGCTTG
** * *
26764050 AAGTCACAAATCTTATCTCCTCGAAGTTGCAGTGGAGCAGGTTG
1 AAGTCACAAATCCCATCCCCT-GAAGTTGCAGTGGAGCAGCTTG
* *
26764094 AAG-CGACAATTCCCATACCCCTGAAGTTACAGTGG
1 AAGTC-ACAAATCCCAT-CCCCTGAAGTTGCAGTGG
26764129 GTTAGAACAG
Statistics
Matches: 67, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
43 4 0.06
44 59 0.88
45 4 0.06
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (43 bp):
AAGTCACAAATCCCATCCCCTGAAGTTGCAGTGGAGCAGCTTG
Found at i:26772843 original size:47 final size:47
Alignment explanation
Indices: 26772791--26772957 Score: 199
Period size: 47 Copynumber: 3.6 Consensus size: 47
26772781 GATAATTGTG
*
26772791 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * *
26772838 ATGTGAAAGTGTACATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * * *
26772885 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * *
26772932 ATGTGAAACTGTATAAATGTGATAAG
1 ATGTGAAAGTATATATATGTGATAAG
26772958 TCCCGAAGGG
Statistics
Matches: 103, Mismatches: 17, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
47 103 1.00
ACGTcount: A:0.33, C:0.10, G:0.29, T:0.28
Consensus pattern (47 bp):
ATGTGAAAGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:26774963 original size:91 final size:91
Alignment explanation
Indices: 26774803--26775073 Score: 497
Period size: 91 Copynumber: 3.0 Consensus size: 91
26774793 GAAAACTATT
* * * *
26774803 TTCCTACCCATTATCATAACTTTTATAGACAATCTTTTCTACCAAACAAAACTACTACCACTAAT
1 TTCCGACCCATTATGATGACTTTTATAGACAATCTTTTCTACCAAACACAACTACTACCACTAAT
26774868 CAATTGACTAAGTTGTAAAGCATTTC
66 CAATTGACTAAGTTGTAAAGCATTTC
26774894 TTCCGACCCATTATGATGACTTTTATAGACAATCTTTTCTACCAAACACAACTACTACCACTAAT
1 TTCCGACCCATTATGATGACTTTTATAGACAATCTTTTCTACCAAACACAACTACTACCACTAAT
26774959 CAATTGACTAAGTTGTAAAGCATTTC
66 CAATTGACTAAGTTGTAAAGCATTTC
*
26774985 TTCCGACCCATTACGATGACTTTTATAGACAATCTTTTCTACCAAACACAACTACTACCACTAAT
1 TTCCGACCCATTATGATGACTTTTATAGACAATCTTTTCTACCAAACACAACTACTACCACTAAT
26775050 CAATTGACTAAGTTGTAAAGCATT
66 CAATTGACTAAGTTGTAAAGCATT
26775074 GCTTGTACTC
Statistics
Matches: 175, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
91 175 1.00
ACGTcount: A:0.35, C:0.24, G:0.08, T:0.33
Consensus pattern (91 bp):
TTCCGACCCATTATGATGACTTTTATAGACAATCTTTTCTACCAAACACAACTACTACCACTAAT
CAATTGACTAAGTTGTAAAGCATTTC
Found at i:26777223 original size:23 final size:20
Alignment explanation
Indices: 26777177--26777224 Score: 60
Period size: 22 Copynumber: 2.3 Consensus size: 20
26777167 CGAATCTGTC
*
26777177 AAAAATAATTAAATTTCACT
1 AAAAATAATTAAAATTCACT
*
26777197 AAAAATAATTGTAAAATTGACT
1 AAAAATAA-T-TAAAATTCACT
26777219 AAAAAT
1 AAAAAT
26777225 TAACATGTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 8 0.33
21 1 0.04
22 15 0.62
ACGTcount: A:0.58, C:0.06, G:0.04, T:0.31
Consensus pattern (20 bp):
AAAAATAATTAAAATTCACT
Found at i:26786215 original size:18 final size:16
Alignment explanation
Indices: 26786192--26786227 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 16
26786182 AGGAAACTAA
26786192 TGATTTTTTTGTAATATT
1 TGATTTTTTT-TAAT-TT
26786210 TGATTTTTTTTAATTT
1 TGATTTTTTTTAATTT
26786226 TG
1 TG
26786228 TAAAATGTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 4 0.22
17 4 0.22
18 10 0.56
ACGTcount: A:0.19, C:0.00, G:0.11, T:0.69
Consensus pattern (16 bp):
TGATTTTTTTTAATTT
Found at i:26796157 original size:21 final size:22
Alignment explanation
Indices: 26796128--26796177 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
26796118 AATGGTATAA
*
26796128 AAATGAATTTA-TAGAAA-TTAT
1 AAATAAATTTATTA-AAATTTAT
26796149 AAATAAA-TTATTAAAATTTAT
1 AAATAAATTTATTAAAATTTAT
26796170 AAATAAAT
1 AAATAAAT
26796178 AAATAACTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 6 0.24
21 19 0.76
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (22 bp):
AAATAAATTTATTAAAATTTAT
Found at i:26796328 original size:18 final size:18
Alignment explanation
Indices: 26796300--26796357 Score: 62
Period size: 18 Copynumber: 3.1 Consensus size: 18
26796290 ATTTTCTAAT
26796300 TTATAATTATTTTAAAAAA
1 TTATAA-TATTTTAAAAAA
* *
26796319 TTATAATATTTTAATAAT
1 TTATAATATTTTAAAAAA
* *
26796337 TTCTAATAATTTTTAAAAA
1 TTATAAT-ATTTTAAAAAA
26796356 TT
1 TT
26796358 GTTTTATAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
18 16 0.50
19 16 0.50
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (18 bp):
TTATAATATTTTAAAAAA
Found at i:26796366 original size:21 final size:21
Alignment explanation
Indices: 26796319--26796366 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
26796309 TTTTAAAAAA
*
26796319 TTATAATATTTTAATAATTTC
1 TTATAATATTTTAAAAATTTC
* *
26796340 TAATAAT-TTTTAAAAATTGTT
1 TTATAATATTTTAAAAATT-TC
26796361 TTATAA
1 TTATAA
26796367 AAATTTACTA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 10 0.45
21 12 0.55
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (21 bp):
TTATAATATTTTAAAAATTTC
Found at i:26800617 original size:22 final size:22
Alignment explanation
Indices: 26800570--26800706 Score: 84
Period size: 22 Copynumber: 6.2 Consensus size: 22
26800560 TTATCATATT
* * **
26800570 TACTATTCTACATTTTGGTGGT
1 TACTGTTCTACATTTCGGTGCC
*
26800592 TACTGTTCTACATTTCGATGCC
1 TACTGTTCTACATTTCGGTGCC
* * *
26800614 TACTGTTTTGCACTAT-GGTGCC
1 TACTGTTCTACA-TTTCGGTGCC
* *
26800636 TACTGTTCTACAGTACGGTGCC
1 TACTGTTCTACATTTCGGTGCC
* * *
26800658 TACTAATT-TACACTACGGTGCC
1 TACT-GTTCTACATTTCGGTGCC
*
26800680 TACTGATTC-GCACTTT-GGTGCC
1 TACTG-TTCTACA-TTTCGGTGCC
26800702 TACTG
1 TACTG
26800707 ATGTGGTGTA
Statistics
Matches: 89, Mismatches: 20, Indels: 12
0.74 0.17 0.10
Matches are distributed among these distances:
22 84 0.94
23 5 0.06
ACGTcount: A:0.18, C:0.24, G:0.19, T:0.39
Consensus pattern (22 bp):
TACTGTTCTACATTTCGGTGCC
Found at i:26800658 original size:44 final size:44
Alignment explanation
Indices: 26800592--26800684 Score: 123
Period size: 44 Copynumber: 2.1 Consensus size: 44
26800582 TTTTGGTGGT
* * ** * *
26800592 TACTGTTCTACATTTCGATGCCTACTGTTTTGCACTATGGTGCC
1 TACTGTTCTACAGTACGATGCCTACTAATTTACACTACGGTGCC
*
26800636 TACTGTTCTACAGTACGGTGCCTACTAATTTACACTACGGTGCC
1 TACTGTTCTACAGTACGATGCCTACTAATTTACACTACGGTGCC
26800680 TACTG
1 TACTG
26800685 ATTCGCACTT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.19, C:0.26, G:0.18, T:0.37
Consensus pattern (44 bp):
TACTGTTCTACAGTACGATGCCTACTAATTTACACTACGGTGCC
Found at i:26800707 original size:22 final size:22
Alignment explanation
Indices: 26800610--26800708 Score: 92
Period size: 22 Copynumber: 4.5 Consensus size: 22
26800600 TACATTTCGA
* ** *
26800610 TGCCTACTGTTTTGCACTATGG
1 TGCCTACTGATTCACACTACGG
*
26800632 TGCCTACTG-TTCTACAGTACGG
1 TGCCTACTGATTC-ACACTACGG
* *
26800654 TGCCTACTAATTTACACTACGG
1 TGCCTACTGATTCACACTACGG
* **
26800676 TGCCTACTGATTCGCACTTTGG
1 TGCCTACTGATTCACACTACGG
26800698 TGCCTACTGAT
1 TGCCTACTGAT
26800709 GTGGTGTAGC
Statistics
Matches: 63, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
21 2 0.03
22 59 0.94
23 2 0.03
ACGTcount: A:0.18, C:0.26, G:0.20, T:0.35
Consensus pattern (22 bp):
TGCCTACTGATTCACACTACGG
Found at i:26805131 original size:24 final size:24
Alignment explanation
Indices: 26805069--26805120 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
26805059 TTCTTAGAAG
* * *
26805069 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATTAGCATAATAT
26805093 ATTTAGCATTTATTAGCATAATAT
1 ATTTAGCATTTATTAGCATAATAT
26805117 ATTT
1 ATTT
26805121 GACTTTAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.04, G:0.10, T:0.50
Consensus pattern (24 bp):
ATTTAGCATTTATTAGCATAATAT
Found at i:26809318 original size:24 final size:24
Alignment explanation
Indices: 26809286--26809337 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
26809276 TTCTTAGAAG
*
26809286 ATTTAGCATTTATGAGTATAATAT
1 ATTTAGCATTTATGAGCATAATAT
* *
26809310 ATTTTGCATTTATTAGCATAATAT
1 ATTTAGCATTTATGAGCATAATAT
26809334 ATTT
1 ATTT
26809338 GACTTTGATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.35, C:0.06, G:0.10, T:0.50
Consensus pattern (24 bp):
ATTTAGCATTTATGAGCATAATAT
Found at i:26812503 original size:11 final size:11
Alignment explanation
Indices: 26812489--26812557 Score: 79
Period size: 11 Copynumber: 6.3 Consensus size: 11
26812479 TTTCAATTTA
*
26812489 CTCTCAACTCT
1 CTCTCAATTCT
26812500 CTCTCAATTCAT
1 CTCTCAATTC-T
26812512 -TCTCAA-TCTT
1 CTCTCAATTC-T
26812522 CTCTCAATTCT
1 CTCTCAATTCT
*
26812533 CTCTTAATTCT
1 CTCTCAATTCT
*
26812544 CACTCAATTCT
1 CTCTCAATTCT
26812555 CTC
1 CTC
26812558 AGTTCACTCT
Statistics
Matches: 49, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
10 3 0.06
11 43 0.88
12 3 0.06
ACGTcount: A:0.20, C:0.36, G:0.00, T:0.43
Consensus pattern (11 bp):
CTCTCAATTCT
Found at i:26812515 original size:22 final size:21
Alignment explanation
Indices: 26812481--26812553 Score: 67
Period size: 22 Copynumber: 3.3 Consensus size: 21
26812471 TCTTACCTTT
* *
26812481 TCAATTTACTCTCAACTCTCTC
1 TCAATTCATTCTCAA-TCTCTC
26812503 TCAATTCATTCTCAATCTTCTC
1 TCAATTCATTCTCAATC-TCTC
* *
26812525 TCAATTC-TCTCTTAATTCTCAC
1 TCAATTCAT-TCTCAA-TCTCTC
26812547 TCAATTC
1 TCAATTC
26812554 TCTCAGTTCA
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
21 3 0.07
22 39 0.89
23 2 0.05
ACGTcount: A:0.23, C:0.33, G:0.00, T:0.44
Consensus pattern (21 bp):
TCAATTCATTCTCAATCTCTC
Found at i:26812550 original size:33 final size:32
Alignment explanation
Indices: 26812481--26812569 Score: 92
Period size: 33 Copynumber: 2.8 Consensus size: 32
26812471 TCTTACCTTT
* *
26812481 TCAATTTACTCTCAACTCTCTCTCAATTCATTC
1 TCAATTT-CTCTCAATTCTCTCTCAATTCATAC
*
26812514 TCAATCTTCTCTCAATTCTCTCTTAATTC-TCAC
1 TCAAT-TTCTCTCAATTCTCTCTCAATTCAT-AC
* *
26812547 TCAA-TTCTCTCAGTTCACTCTCA
1 TCAATTTCTCTCAATTCTCTCTCA
26812570 TTTTTTTTAT
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
31 16 0.33
32 1 0.02
33 29 0.60
34 2 0.04
ACGTcount: A:0.22, C:0.34, G:0.01, T:0.43
Consensus pattern (32 bp):
TCAATTTCTCTCAATTCTCTCTCAATTCATAC
Found at i:26813358 original size:38 final size:38
Alignment explanation
Indices: 26813307--26813380 Score: 148
Period size: 38 Copynumber: 1.9 Consensus size: 38
26813297 AAGGTGACTG
26813307 CTAAAACTCGTGAACTTTAGAGAATCAAGTCGACTCTA
1 CTAAAACTCGTGAACTTTAGAGAATCAAGTCGACTCTA
26813345 CTAAAACTCGTGAACTTTAGAGAATCAAGTCGACTC
1 CTAAAACTCGTGAACTTTAGAGAATCAAGTCGACTC
26813381 AGTTGAACGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.36, C:0.22, G:0.16, T:0.26
Consensus pattern (38 bp):
CTAAAACTCGTGAACTTTAGAGAATCAAGTCGACTCTA
Found at i:26820814 original size:3 final size:3
Alignment explanation
Indices: 26820808--26820851 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
26820798 GCCTCCCCTC
26820808 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CT
26820852 CCTAGTTATT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
CTT
Found at i:26828098 original size:8 final size:8
Alignment explanation
Indices: 26828085--26828109 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
26828075 TAATTGAGAA
26828085 GAAATTGT
1 GAAATTGT
26828093 GAAATTGT
1 GAAATTGT
26828101 GAAATTGT
1 GAAATTGT
26828109 G
1 G
26828110 CCCTCGTGGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.28, T:0.36
Consensus pattern (8 bp):
GAAATTGT
Found at i:26828284 original size:123 final size:128
Alignment explanation
Indices: 26828029--26828327 Score: 448
Period size: 123 Copynumber: 2.3 Consensus size: 128
26828019 TTATTTCGAG
* *
26828029 TTGACGTTTCTG-GTCAAATAGTATAAAATCGCGCCATCGAGGATGCTAATTGAGAAGAAATTGT
1 TTGACGTTTCTGAGT-AAATAGTATAAAATCGCGCCCTCGTGGATGCTAATT-AGAAGAAA---T
* * *
26828093 GAAATTGTGAAATTGTGCCCTCGTGGACGCGATTTCGCTACAGTTGGTCATGTAAGAAAT-AATT
61 GAAATTGTGAAATCGTGCCCTCGTGGACGCGATTTCGCTACAATTGGTCATGTAAGAAATAAAAT
26828157 TTT
126 TTT
26828160 TTGACGTTTCTGAGTAAATAGTATAAAATCGCGCCCTCGTGGATGCTAATT-G-AG-AA-GAAAT
1 TTGACGTTTCTGAGTAAATAGTATAAAATCGCGCCCTCGTGGATGCTAATTAGAAGAAATGAAAT
26828221 TGTGAAATCGTGCCCTCGTGGACGCGATTTCGCTACAATTGGTCATGTAAGAAATAAAATTTTT
66 TGTGAAATCGTGCCCTCGTGGACGCGATTTCGCTACAATTGGTCATGTAAGAAATAAAA-TTTT
*
26828285 TTGACGTTTCTGAGCAAATAGTATAAAATCGCGCCCTCGTGGA
1 TTGACGTTTCTGAGTAAATAGTATAAAATCGCGCCCTCGTGGA
26828328 CGTGATTTTG
Statistics
Matches: 159, Mismatches: 6, Indels: 12
0.90 0.03 0.07
Matches are distributed among these distances:
123 58 0.36
124 2 0.01
125 46 0.29
127 2 0.01
128 2 0.01
129 1 0.01
131 46 0.29
132 2 0.01
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.31
Consensus pattern (128 bp):
TTGACGTTTCTGAGTAAATAGTATAAAATCGCGCCCTCGTGGATGCTAATTAGAAGAAATGAAAT
TGTGAAATCGTGCCCTCGTGGACGCGATTTCGCTACAATTGGTCATGTAAGAAATAAAATTTT
Found at i:26831560 original size:56 final size:56
Alignment explanation
Indices: 26831472--26831595 Score: 178
Period size: 56 Copynumber: 2.2 Consensus size: 56
26831462 ATGTAAAACT
* ** *
26831472 ATGTAAAATTATTAAGCCCAATAACTTTTGTTAATGGTTAGTAA-ATTTATCAAATA
1 ATGTAAAATTATTAAGCCCAAAAAAGTGTGTTAATGGTTAGTAAGA-TTATCAAATA
*
26831528 ATGTAAAATTATTAAGCCCAAAAAAGTGTGTTAATGGTTAGTAAGATTATCAAATT
1 ATGTAAAATTATTAAGCCCAAAAAAGTGTGTTAATGGTTAGTAAGATTATCAAATA
*
26831584 AGGTAAAATTAT
1 ATGTAAAATTAT
26831596 GTTATGGTTT
Statistics
Matches: 61, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
56 60 0.98
57 1 0.02
ACGTcount: A:0.43, C:0.07, G:0.14, T:0.36
Consensus pattern (56 bp):
ATGTAAAATTATTAAGCCCAAAAAAGTGTGTTAATGGTTAGTAAGATTATCAAATA
Found at i:26831641 original size:18 final size:19
Alignment explanation
Indices: 26831620--26831667 Score: 53
Period size: 23 Copynumber: 2.4 Consensus size: 19
26831610 ATAAATTAGG
26831620 TTAGGGT-TTTTAATTAAA
1 TTAGGGTGTTTTAATTAAA
26831638 TTAGGGTAGGGATTTTAATTAAA
1 TTAGGGT---G-TTTTAATTAAA
26831661 TTAGGGT
1 TTAGGGT
26831668 AGGGTTAGGG
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
18 7 0.28
23 18 0.72
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (19 bp):
TTAGGGTGTTTTAATTAAA
Found at i:26831686 original size:29 final size:29
Alignment explanation
Indices: 26831618--26832314 Score: 955
Period size: 29 Copynumber: 25.3 Consensus size: 29
26831608 AAATAAATTA
26831618 GGTTAGGGTTTTTAATT-AA--A--TTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
* *
26831642 GG-TAGGGATTTTAATTAAATTAGGGTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
*
26831670 GGTTAGGGTTTTTAATTAAATTAGGTTAA
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
26831699 GGTTAGGGTTTTTAATT-AA--A--TTA-
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
*
26831722 GGTTAGGGTTTTTAAATAAATTAGGTTA-
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
26831750 -G--A--GTTTTTAATT-AA--A--TTA-
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
*
26831768 GGTTAGGGTTTTTAATTAAATTAGGGTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
*
26831797 GGTTAGGGTTTTTAATTAAATTAGGTTAA
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
26831826 GGTTAGGGTTTTTAATT-AA--A--TTA-
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
*
26831849 GGTTAGGGTTTTTAATTAAATTAGGGTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
*
26831878 GGTTAGGGTTTTTAATTAAATTAGGTTAA
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
26831907 GGTTAGGGTTTTTAATTAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
26831936 GGTTAGGGTTTTTAATT-AA--A--TTA-
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
*
26831959 GGTTAGGGTTTTTAATTAAATTAGGGTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
26831988 GGTTAGGGTTTTTAATTAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
*
26832017 GGTTAGGGTTTTTAAATAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
* *
26832046 GGTTAGGGTTTTTAAATAAATTAGGTTAA
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
*
26832075 GGTTAGGGTTTTTAATTAAATTAGGGTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
*
26832104 GGTTAGGG-TTTTAATTAAATTAGGTTAA
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
* * *
26832132 GGTTAGGGGTTTTAATTAAGTTAGGTTAA
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
* *
26832161 GGTTAGGGGTTTTAATTAAGTTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
26832190 GGTTAGGGTTTTTAATTAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
*
26832219 GGTTAGGGTTTTTAATTAAATTAGGTTAA
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
26832248 GGTTAGGGTTTTTAATTAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
26832277 GGTTAGGGTTTTTAATTAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
26832306 GGTTAGGGT
1 GGTTAGGGT
26832315 ATGAAATAAA
Statistics
Matches: 609, Mismatches: 29, Indels: 65
0.87 0.04 0.09
Matches are distributed among these distances:
18 3 0.00
19 1 0.00
20 1 0.00
21 1 0.00
22 2 0.00
23 82 0.13
24 21 0.03
25 1 0.00
26 8 0.01
27 1 0.00
28 46 0.08
29 442 0.73
ACGTcount: A:0.29, C:0.00, G:0.27, T:0.43
Consensus pattern (29 bp):
GGTTAGGGTTTTTAATTAAATTAGGTTAG
Found at i:26831718 original size:81 final size:81
Alignment explanation
Indices: 26831618--26832309 Score: 838
Period size: 81 Copynumber: 8.4 Consensus size: 81
26831608 AAATAAATTA
* * *
26831618 GGTTAGGGTTTTTAATTAAATTAGGGTAGGGATTTTAATTAAATTAGGGTAGGGTTAGGGTTTTT
1 GGTTAGGGTTTTTAATTAAATTAGGGTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGGTTTTT
*
26831683 AATTAAATTAGGTTAA
66 AATTAAATTAGGTTAG
* *
26831699 GGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAAATAAATTAGGTT-A-G--A--GTTTTT
1 GGTTAGGGTTTTTAATTAAATTAGGGTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGGTTTTT
26831758 AATTAAATTAGGTTAG
66 AATTAAATTAGGTTAG
***
26831774 GGTT----TTTAATTAAATTAGGGTAGGGTTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGGT
1 GGTTAGGGTTT--TT-AATTAAATTAGGG-TAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGGT
26831835 TTTTAATTAAATTAGGTTAG
62 TTTTAATTAAATTAGGTTAG
***
26831855 GGTT----TTTAATTAAATTAGGGTAGGGTTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGGT
1 GGTTAGGGTTT--TT-AATTAAATTAGGG-TAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGGT
26831916 TTTTAATTAAATTAGGTTAG
62 TTTTAATTAAATTAGGTTAG
* * *
26831936 GGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAATTAGGGTAGGGTTAGGGTTTTT
1 GGTTAGGGTTTTTAATTAAATTAGGGTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGGTTTTT
26832001 AATTAAATTAGGTTAG
66 AATTAAATTAGGTTAG
* *
26832017 GGTTAGGGTTTTTAAATAAATTAGGTTAGGGTTAGGGTTTTTAAATAAATTAGGTTAAGGTTAGG
1 GGTTAGGGTTTTT-AATTAA--A--TTAGGG-TAGGGTTTTTAATTAAATTAGGTTAAGGTTAGG
*
26832082 GTTTTTAATTAAATTAGGGTAG
60 GTTTTTAATTAAATTAGGTTAG
* *
26832104 GGTTAGGG-TTTTAATTAAATTAGGTTAAGGTTAGGGGTTTTAATTAAGTTAGGTTAAGGTTAGG
1 GGTTAGGGTTTTTAATTAAATTA-G----GG-TAGGGTTTTTAATTAAATTAGGTTAAGGTTAGG
* *
26832168 GGTTTTAATTAAGTTAGGTTAG
60 GTTTTTAATTAAATTAGGTTAG
26832190 GGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGG
1 GGTTAGGGTTTTTAATT-AA--A--TTAGGG-TAGGGTTTTTAATTAAATTAGGTTAAGGTTAGG
26832255 GTTTTTAATTAAATTAGGTTAG
60 GTTTTTAATTAAATTAGGTTAG
*
26832277 GGTTAGGGTTTTTAATTAAATTAGGTTAGGGTT
1 GGTTAGGGTTTTTAATTAAATTAGGGTAGGGTT
26832310 AGGGTATGAA
Statistics
Matches: 545, Mismatches: 35, Indels: 62
0.85 0.05 0.10
Matches are distributed among these distances:
71 3 0.01
73 2 0.00
74 9 0.02
75 48 0.09
76 1 0.00
77 2 0.00
79 2 0.00
81 229 0.42
82 20 0.04
83 3 0.01
84 2 0.00
85 8 0.01
86 71 0.13
87 138 0.25
88 2 0.00
90 1 0.00
91 1 0.00
92 3 0.01
ACGTcount: A:0.29, C:0.00, G:0.27, T:0.44
Consensus pattern (81 bp):
GGTTAGGGTTTTTAATTAAATTAGGGTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGGTTTTT
AATTAAATTAGGTTAG
Found at i:26831768 original size:18 final size:20
Alignment explanation
Indices: 26831705--26831791 Score: 84
Period size: 23 Copynumber: 3.9 Consensus size: 20
26831695 TTAAGGTTAG
26831705 GGTTTTTAATTAAATTAGGTTA
1 GGTTTTTAATTAAATTA-G-TA
*
26831727 GGGTTTTTAAATAAATTAGGTTA
1 -GGTTTTTAATTAAATTA-G-TA
26831750 GAGTTTTTAATTAAATTAGGTTA
1 G-GTTTTTAATTAAATTA-G-TA
26831773 GGGTTTTTAATTAAATTAG
1 -GGTTTTTAATTAAATTAG
26831792 GGTAGGGTTA
Statistics
Matches: 60, Mismatches: 2, Indels: 5
0.90 0.03 0.07
Matches are distributed among these distances:
22 2 0.03
23 57 0.95
24 1 0.02
ACGTcount: A:0.33, C:0.00, G:0.20, T:0.47
Consensus pattern (20 bp):
GGTTTTTAATTAAATTAGTA
Found at i:26831875 original size:18 final size:21
Alignment explanation
Indices: 26831827--26831869 Score: 68
Period size: 23 Copynumber: 2.0 Consensus size: 21
26831817 TTAGGTTAAG
26831827 GTTAGGGTTTTTAATTAAATTA
1 GTTAGGGTTTTTAATTAAA-TA
26831849 GGTTAGGGTTTTTAATTAAAT
1 -GTTAGGGTTTTTAATTAAAT
26831870 TAGGGTAGGG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 1 0.05
23 19 0.95
ACGTcount: A:0.30, C:0.00, G:0.21, T:0.49
Consensus pattern (21 bp):
GTTAGGGTTTTTAATTAAATA
Found at i:26831985 original size:18 final size:21
Alignment explanation
Indices: 26831937--26831979 Score: 68
Period size: 23 Copynumber: 2.0 Consensus size: 21
26831927 TTAGGTTAGG
26831937 GTTAGGGTTTTTAATTAAATTA
1 GTTAGGGTTTTTAATTAAA-TA
26831959 GGTTAGGGTTTTTAATTAAAT
1 -GTTAGGGTTTTTAATTAAAT
26831980 TAGGGTAGGG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 1 0.05
23 19 0.95
ACGTcount: A:0.30, C:0.00, G:0.21, T:0.49
Consensus pattern (21 bp):
GTTAGGGTTTTTAATTAAATA
Found at i:26833770 original size:20 final size:20
Alignment explanation
Indices: 26833729--26833770 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
26833719 ACTTTTATTC
*
26833729 TTACAAAATCTACATAACAA
1 TTACAAAATCTACATAAAAA
*
26833749 TTACAAAATGTA-ATATAAAA
1 TTACAAAATCTACATA-AAAA
26833769 TT
1 TT
26833771 TACCTCGTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
19 3 0.16
20 16 0.84
ACGTcount: A:0.55, C:0.12, G:0.02, T:0.31
Consensus pattern (20 bp):
TTACAAAATCTACATAAAAA
Found at i:26834673 original size:30 final size:30
Alignment explanation
Indices: 26834639--26834703 Score: 105
Period size: 30 Copynumber: 2.2 Consensus size: 30
26834629 GCCATTGATG
26834639 AAAATAT-AAAAAATTTAAAATTATTTTAAA
1 AAAATATAAAAAAATTTAAAATTA-TTTAAA
*
26834669 AAAATATAAAAAAATTTGAAATTATTTAAA
1 AAAATATAAAAAAATTTAAAATTATTTAAA
26834699 AAAAT
1 AAAAT
26834704 GAAATTGAGG
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
30 18 0.55
31 15 0.45
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.34
Consensus pattern (30 bp):
AAAATATAAAAAAATTTAAAATTATTTAAA
Found at i:26834685 original size:21 final size:21
Alignment explanation
Indices: 26834646--26834685 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
26834636 ATGAAAATAT
* **
26834646 AAAAAATTTAAAATTATTTTA
1 AAAAAATATAAAAAAATTTTA
26834667 AAAAAATATAAAAAAATTT
1 AAAAAATATAAAAAAATTT
26834686 GAAATTATTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (21 bp):
AAAAAATATAAAAAAATTTTA
Found at i:26834762 original size:22 final size:22
Alignment explanation
Indices: 26834737--26834808 Score: 119
Period size: 22 Copynumber: 3.3 Consensus size: 22
26834727 TAATATGGAT
*
26834737 TTGAGA-GATTTTTGGAATGAAA
1 TTGAGAGGA-TTTTGGAAGGAAA
26834759 TTGAGAGGATTTTGGAAGGAAA
1 TTGAGAGGATTTTGGAAGGAAA
26834781 TTGAGAGGATTTTGGAAGGAAA
1 TTGAGAGGATTTTGGAAGGAAA
26834803 TTGAGA
1 TTGAGA
26834809 TAAGATTTGT
Statistics
Matches: 48, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
22 46 0.96
23 2 0.04
ACGTcount: A:0.36, C:0.00, G:0.33, T:0.31
Consensus pattern (22 bp):
TTGAGAGGATTTTGGAAGGAAA
Found at i:26846802 original size:39 final size:40
Alignment explanation
Indices: 26846707--26846929 Score: 266
Period size: 39 Copynumber: 5.7 Consensus size: 40
26846697 TTGAATGATG
*
26846707 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
26846745 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
26846786 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
26846825 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
26846864 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
26846903 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
26846930 AACGAGGAGC
Statistics
Matches: 164, Mismatches: 11, Indels: 17
0.85 0.06 0.09
Matches are distributed among these distances:
39 93 0.57
40 59 0.36
41 11 0.07
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:26846893 original size:79 final size:81
Alignment explanation
Indices: 26846707--26846929 Score: 282
Period size: 79 Copynumber: 2.8 Consensus size: 81
26846697 TTGAATGATG
* * *
26846707 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATATCCGGACTAAGATCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGT-ACTAATATCCGGGCTAAGACCCGAAGGCAT
*
26846769 TTGTGCGAGATACTAAT
65 TTGTGCGAGATACTAAA
26846786 TCCGGGCTAAG-CCCGAAGGCATTTGTGCG-AGATACTAAT-TCCGGGCTAAG-CCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAG-TACTAATATCCGGGCTAAGACCCGAAGGCAT
*
26846847 TTGTGCGAGTTACTAAA
65 TTGTGCGAGATACTAAA
* * * * *
26846864 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATATCCGGGCTAAGACCCGAAGGCATT
26846928 TG
66 TG
26846930 AACGAGGAGC
Statistics
Matches: 127, Mismatches: 9, Indels: 15
0.84 0.06 0.10
Matches are distributed among these distances:
78 46 0.36
79 56 0.44
80 25 0.20
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATATCCGGGCTAAGACCCGAAGGCATT
TGTGCGAGATACTAAA
Found at i:26846951 original size:79 final size:79
Alignment explanation
Indices: 26846707--26846962 Score: 217
Period size: 79 Copynumber: 3.3 Consensus size: 79
26846697 TTGAATGATG
* * * *
26846707 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AATATCCGGACTAAGATCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATA-CCGGGCTAAG-CCCGAAGGCA
** *
26846768 TTTGTGCGAGAT-ACTAAT
62 TTTGAACGAG-TGACTAAA
* *
26846786 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
** *
26846850 TGCGAGTTACTAAA
66 AACGAGTGACTAAA
*
26846864 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCAT
*
26846927 TTGAACGAG-GAGCTATA
63 TTGAACGAGTGA-CTAAA
* *
26846944 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
26846963 TACGTGATTT
Statistics
Matches: 153, Mismatches: 14, Indels: 20
0.82 0.07 0.11
Matches are distributed among these distances:
77 1 0.01
78 46 0.30
79 69 0.45
80 36 0.24
81 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
AACGAGTGACTAAA
Found at i:26854788 original size:39 final size:40
Alignment explanation
Indices: 26854693--26854954 Score: 328
Period size: 39 Copynumber: 6.7 Consensus size: 40
26854683 TTGAATGATG
*
26854693 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
26854731 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
26854772 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
26854811 TCCGGGCTAAG-CCCGAAGGCATTTGTACGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
26854850 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
26854889 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
26854928 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
26854955 AACGAGGAGC
Statistics
Matches: 201, Mismatches: 13, Indels: 17
0.87 0.06 0.07
Matches are distributed among these distances:
39 130 0.65
40 59 0.29
41 11 0.05
42 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:26861695 original size:56 final size:56
Alignment explanation
Indices: 26861609--26861716 Score: 216
Period size: 56 Copynumber: 1.9 Consensus size: 56
26861599 TATAAAAGAA
26861609 AACCTATAGTACATTTTGCACCAATATATACAGGTAATTAGATAAGAAAATCGATG
1 AACCTATAGTACATTTTGCACCAATATATACAGGTAATTAGATAAGAAAATCGATG
26861665 AACCTATAGTACATTTTGCACCAATATATACAGGTAATTAGATAAGAAAATC
1 AACCTATAGTACATTTTGCACCAATATATACAGGTAATTAGATAAGAAAATC
26861717 TCATCGAATA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 52 1.00
ACGTcount: A:0.44, C:0.15, G:0.13, T:0.29
Consensus pattern (56 bp):
AACCTATAGTACATTTTGCACCAATATATACAGGTAATTAGATAAGAAAATCGATG
Found at i:26861876 original size:29 final size:29
Alignment explanation
Indices: 26861843--26861903 Score: 122
Period size: 29 Copynumber: 2.1 Consensus size: 29
26861833 ATGAAAAATA
26861843 TTGGTGGATCATAGTATTCTGCCTCTATC
1 TTGGTGGATCATAGTATTCTGCCTCTATC
26861872 TTGGTGGATCATAGTATTCTGCCTCTATC
1 TTGGTGGATCATAGTATTCTGCCTCTATC
26861901 TTG
1 TTG
26861904 CAATAACAAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.16, C:0.20, G:0.21, T:0.43
Consensus pattern (29 bp):
TTGGTGGATCATAGTATTCTGCCTCTATC
Found at i:26865785 original size:68 final size:68
Alignment explanation
Indices: 26865660--26865792 Score: 160
Period size: 68 Copynumber: 2.0 Consensus size: 68
26865650 AGTCTTGGTG
* * * *
26865660 GACTATATTGGTTGCCATAACCGAGCTATAGTCTTACAGTTTGTAATCCTGTGTTTAATGTCCTG
1 GACTATATTGGTTGCCATAACCCAGCTATAGTCTTACACTTTGTAATCCTATGTTTAATATCCTG
26865725 ACA
66 ACA
* * * * * *
26865728 GACTATATTGGTTGTCATAGCCCATCTATGGTCTTACACTTTGCT-ATCTTATTTTTAATATCCT
1 GACTATATTGGTTGCCATAACCCAGCTATAGTCTTACACTTTG-TAATCCTATGTTTAATATCCT
26865792 G
65 G
26865793 GTGAACTCTA
Statistics
Matches: 54, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
68 53 0.98
69 1 0.02
ACGTcount: A:0.23, C:0.20, G:0.17, T:0.41
Consensus pattern (68 bp):
GACTATATTGGTTGCCATAACCCAGCTATAGTCTTACACTTTGTAATCCTATGTTTAATATCCTG
ACA
Found at i:26871426 original size:16 final size:16
Alignment explanation
Indices: 26871402--26871442 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
26871392 AATTATAATT
26871402 ACATGCATAACCCAAA
1 ACATGCATAACCCAAA
*
26871418 ACATACATAACCCAAA
1 ACATGCATAACCCAAA
26871434 ACATGCATA
1 ACATGCATA
26871443 TAATTACAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.51, C:0.29, G:0.05, T:0.15
Consensus pattern (16 bp):
ACATGCATAACCCAAA
Found at i:26874418 original size:7 final size:7
Alignment explanation
Indices: 26874406--26874436 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
26874396 TCATGAGCAT
26874406 TCTCTTA
1 TCTCTTA
26874413 TCTCTTA
1 TCTCTTA
26874420 TCTCTTA
1 TCTCTTA
26874427 TCTCTTA
1 TCTCTTA
26874434 TCT
1 TCT
26874437 TTTAATCTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.13, C:0.29, G:0.00, T:0.58
Consensus pattern (7 bp):
TCTCTTA
Found at i:26876599 original size:14 final size:14
Alignment explanation
Indices: 26876580--26876606 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
26876570 ATTCAATCAA
26876580 AAAAAAATAAAAAT
1 AAAAAAATAAAAAT
26876594 AAAAAAATAAAAA
1 AAAAAAATAAAAA
26876607 GCAAAAGAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (14 bp):
AAAAAAATAAAAAT
Found at i:26876618 original size:32 final size:31
Alignment explanation
Indices: 26876577--26876650 Score: 78
Period size: 32 Copynumber: 2.3 Consensus size: 31
26876567 CAGATTCAAT
26876577 CAAAAAAAAATAAAAAT-AAAAAAATAAAAAG
1 CAAAAAAAAATAAAAATCAAAAAAA-AAAAAG
* * *
26876608 CAAAAGAAAAATCAAGATCAAAACAAAAAAAG
1 CAAAA-AAAAATAAAAATCAAAAAAAAAAAAG
*
26876640 AAAAATAAAAA
1 CAAAA-AAAAA
26876651 ATCAAGGTCA
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
31 5 0.14
32 25 0.69
33 6 0.17
ACGTcount: A:0.80, C:0.07, G:0.05, T:0.08
Consensus pattern (31 bp):
CAAAAAAAAATAAAAATCAAAAAAAAAAAAG
Found at i:26878543 original size:44 final size:44
Alignment explanation
Indices: 26878488--26878583 Score: 104
Period size: 44 Copynumber: 2.2 Consensus size: 44
26878478 TTTGAGGTCA
* * *
26878488 CAGTGGGGCAGACTGAAGAAGCA-AATCTTATCTCCCTGAGGTTG
1 CAGTGGAGCAGACTGAAGAAG-ATAATCCTATCTCCCTGAAGTTG
* ***
26878532 CAGTGGAGCAGATTGAATTCGATAATCCTATCTCCCTGAAGTTG
1 CAGTGGAGCAGACTGAAGAAGATAATCCTATCTCCCTGAAGTTG
*
26878576 TAGTGGAG
1 CAGTGGAG
26878584 TGGATCGAAG
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
43 1 0.02
44 42 0.98
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.26
Consensus pattern (44 bp):
CAGTGGAGCAGACTGAAGAAGATAATCCTATCTCCCTGAAGTTG
Found at i:26880093 original size:25 final size:25
Alignment explanation
Indices: 26880059--26880109 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
26880049 ACTATTATTG
26880059 TTATCATTATAATTAAATTTCATTA
1 TTATCATTATAATTAAATTTCATTA
* * * *
26880084 TTATTATTATTATTATATTTGATTA
1 TTATCATTATAATTAAATTTCATTA
26880109 T
1 T
26880110 ATTTCTACTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.59
Consensus pattern (25 bp):
TTATCATTATAATTAAATTTCATTA
Found at i:26881462 original size:14 final size:15
Alignment explanation
Indices: 26881433--26881462 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
26881423 CAAATTTATT
26881433 AATGAATTATTTAAA
1 AATGAATTATTTAAA
26881448 AATGAATTA-TTAAA
1 AATGAATTATTTAAA
26881462 A
1 A
26881463 TATAACATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.37
Consensus pattern (15 bp):
AATGAATTATTTAAA
Found at i:26883215 original size:22 final size:22
Alignment explanation
Indices: 26883197--26883250 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 22
26883187 CATCACTTTT
*
26883197 GTGCTCTCTGTTTAGCACTTCA
1 GTGCTCTCTGCTTAGCACTTCA
*
26883219 GTACTCTCTGCTTAGCACTTCA
1 GTGCTCTCTGCTTAGCACTTCA
26883241 GTGCTCTCTG
1 GTGCTCTCTG
26883251 GTGTGGTGTA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.13, C:0.30, G:0.19, T:0.39
Consensus pattern (22 bp):
GTGCTCTCTGCTTAGCACTTCA
Found at i:26888498 original size:20 final size:22
Alignment explanation
Indices: 26888449--26888500 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
26888439 TTTCTATTCT
26888449 ATATATGTATATATTGTTTTTA
1 ATATATGTATATATTGTTTTTA
*
26888471 ATTAATATGT-TTTATT-TTTTTA
1 A-T-ATATGTATATATTGTTTTTA
26888493 ATATATGT
1 ATATATGT
26888501 CAAATTTATT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
20 6 0.22
21 1 0.04
22 8 0.30
23 6 0.22
24 6 0.22
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (22 bp):
ATATATGTATATATTGTTTTTA
Found at i:26890304 original size:17 final size:17
Alignment explanation
Indices: 26890271--26890314 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 17
26890261 AGTTTTAAAA
26890271 TAATTTATTTATATTTTA-
1 TAATTT-TTT-TATTTTAC
26890289 TAAGTTTTTTTATTTTAC
1 TAA-TTTTTTTATTTTAC
26890307 TAATTTTT
1 TAATTTTT
26890315 AAATTTTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
17 12 0.50
18 9 0.38
19 3 0.12
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.68
Consensus pattern (17 bp):
TAATTTTTTTATTTTAC
Found at i:26890320 original size:17 final size:17
Alignment explanation
Indices: 26890278--26890337 Score: 61
Period size: 17 Copynumber: 3.6 Consensus size: 17
26890268 AAATAATTTA
26890278 TTTATATTTTATAAGTT
1 TTTATATTTTATAAGTT
*
26890295 TTTTTATTTTACTAA-TT
1 TTTATATTTTA-TAAGTT
* *
26890312 TTTAAATTTT-TAAATT
1 TTTATATTTTATAAGTT
*
26890328 TTTAGATTTT
1 TTTATATTTT
26890338 TTATAAATTT
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
15 3 0.08
16 11 0.30
17 20 0.54
18 3 0.08
ACGTcount: A:0.28, C:0.02, G:0.03, T:0.67
Consensus pattern (17 bp):
TTTATATTTTATAAGTT
Found at i:26890338 original size:17 final size:18
Alignment explanation
Indices: 26890301--26890355 Score: 62
Period size: 17 Copynumber: 3.2 Consensus size: 18
26890291 AGTTTTTTTA
*
26890301 TTTTACTAATTTTTA-AAT
1 TTTTA-TAATTTTTAGATT
26890319 TTTTA-AATTTTTAGATT
1 TTTTATAATTTTTAGATT
*
26890336 TTTTATAA-ATTTAGATT
1 TTTTATAATTTTTAGATT
26890353 TTT
1 TTT
26890356 ATCTATTTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
16 8 0.24
17 18 0.55
18 7 0.21
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.64
Consensus pattern (18 bp):
TTTTATAATTTTTAGATT
Found at i:26890356 original size:8 final size:8
Alignment explanation
Indices: 26890308--26890338 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
26890298 TTATTTTACT
26890308 AATTTTTA
1 AATTTTTA
26890316 AATTTTTA
1 AATTTTTA
26890324 AATTTTTA
1 AATTTTTA
*
26890332 GATTTTT
1 AATTTTT
26890339 TATAAATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (8 bp):
AATTTTTA
Found at i:26894245 original size:23 final size:22
Alignment explanation
Indices: 26894218--26894302 Score: 82
Period size: 23 Copynumber: 3.7 Consensus size: 22
26894208 TAAAAGAGAA
26894218 ACAAATCCCTAAAGTTGTGGAAG
1 ACAAATCCCTAAA-TTGTGGAAG
* * *
26894241 ACAAATGCCTACAATT-TAGACAA
1 ACAAATCCCTA-AATTGTGGA-AG
26894264 ACAAATCCCTAAAATTGTGGAAG
1 ACAAATCCCT-AAATTGTGGAAG
*
26894287 ACAAATACCTAGAATT
1 ACAAATCCCTA-AATT
26894303 TAGCCAAAGA
Statistics
Matches: 50, Mismatches: 7, Indels: 10
0.75 0.10 0.15
Matches are distributed among these distances:
22 4 0.08
23 40 0.80
24 6 0.12
ACGTcount: A:0.45, C:0.19, G:0.14, T:0.22
Consensus pattern (22 bp):
ACAAATCCCTAAATTGTGGAAG
Found at i:26894269 original size:46 final size:46
Alignment explanation
Indices: 26894216--26894336 Score: 181
Period size: 46 Copynumber: 2.6 Consensus size: 46
26894206 GATAAAAGAG
* *
26894216 AAACAAATCCCTAAAGTTGTGGAAGACAAATGCCTACAATTTAGAC
1 AAACAAATCCCTAAAATTGTGGAAGACAAATACCTACAATTTAGAC
* *
26894262 AAACAAATCCCTAAAATTGTGGAAGACAAATACCTAGAATTTAGCC
1 AAACAAATCCCTAAAATTGTGGAAGACAAATACCTACAATTTAGAC
*
26894308 AAAGAAAT-CCTAAAAATTGTGGAAGACAA
1 AAACAAATCCCT-AAAATTGTGGAAGACAA
26894337 CTTGACTTGA
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
45 3 0.04
46 66 0.96
ACGTcount: A:0.47, C:0.17, G:0.15, T:0.21
Consensus pattern (46 bp):
AAACAAATCCCTAAAATTGTGGAAGACAAATACCTACAATTTAGAC
Found at i:26896485 original size:38 final size:38
Alignment explanation
Indices: 26896443--26896518 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
26896433 GCTAAGCATG
26896443 GTATAAATATTAAACTAAGTGGAGAAAGATGATAATTC
1 GTATAAATATTAAACTAAGTGGAGAAAGATGATAATTC
*
26896481 GTATAAATATTAAAGTAAGTGGAGAAAGATGATAATTC
1 GTATAAATATTAAACTAAGTGGAGAAAGATGATAATTC
26896519 ATCATCTTCT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.47, C:0.04, G:0.20, T:0.29
Consensus pattern (38 bp):
GTATAAATATTAAACTAAGTGGAGAAAGATGATAATTC
Found at i:26902912 original size:114 final size:114
Alignment explanation
Indices: 26902712--26902935 Score: 394
Period size: 114 Copynumber: 2.0 Consensus size: 114
26902702 TATAAACTTC
26902712 AAATACATAAACTGTAACAACCTAATTTTCAGTGGTGTCAAAAATAGTGGTTCAAGACCACCAAA
1 AAATACATAAACTGTAACAACCTAATTTTCAGTGGTGTCAAAAATAGTGGTTCAAGACCACCAAA
26902777 ATCTGCCGAGTAAGCTCGTAAATTTTATTATTTAGTATTAACGAGTCAT
66 ATCTGCCGAGTAAGCTCGTAAATTTTATTATTTAGTATTAACGAGTCAT
** ** *
26902826 AAATACATAAACTGTAATGACCTAATTTTCAGTGGTGTCAAAAATAGTTTTTCGAGACCACCAAA
1 AAATACATAAACTGTAACAACCTAATTTTCAGTGGTGTCAAAAATAGTGGTTCAAGACCACCAAA
*
26902891 ATCTGGCGAGTAAGCTCGTAAATTTTATTATTTAGTATTAACGAG
66 ATCTGCCGAGTAAGCTCGTAAATTTTATTATTTAGTATTAACGAG
26902936 ACAAATATGG
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
114 104 1.00
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.32
Consensus pattern (114 bp):
AAATACATAAACTGTAACAACCTAATTTTCAGTGGTGTCAAAAATAGTGGTTCAAGACCACCAAA
ATCTGCCGAGTAAGCTCGTAAATTTTATTATTTAGTATTAACGAGTCAT
Found at i:26904149 original size:24 final size:25
Alignment explanation
Indices: 26904094--26904167 Score: 107
Period size: 24 Copynumber: 3.0 Consensus size: 25
26904084 TCATTCTGTG
* *
26904094 GCAAAGGATTAATTGATGATAAAAT
1 GCAAAGGATGAATTGATGGTAAAAT
*
26904119 GCAAAGGATGAATTGATGGT-ATAT
1 GCAAAGGATGAATTGATGGTAAAAT
26904143 GCAAAGGATGAATTGATGG-AAAAT
1 GCAAAGGATGAATTGATGGTAAAAT
26904167 G
1 G
26904168 TATCCAAGTA
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
24 26 0.59
25 18 0.41
ACGTcount: A:0.43, C:0.04, G:0.27, T:0.26
Consensus pattern (25 bp):
GCAAAGGATGAATTGATGGTAAAAT
Found at i:26916094 original size:24 final size:25
Alignment explanation
Indices: 26916035--26916097 Score: 74
Period size: 24 Copynumber: 2.6 Consensus size: 25
26916025 TCGTTCTGTG
* *
26916035 GCAAATGATGAATTGACGGTAAAAT
1 GCAAAGGATGAATTGACGATAAAAT
* * *
26916060 GTACAGAATGAATTGACGAT-AAAT
1 GCAAAGGATGAATTGACGATAAAAT
26916084 GCAAAGGATGAATT
1 GCAAAGGATGAATT
26916098 AACATCAAAT
Statistics
Matches: 30, Mismatches: 8, Indels: 1
0.77 0.21 0.03
Matches are distributed among these distances:
24 15 0.50
25 15 0.50
ACGTcount: A:0.44, C:0.08, G:0.24, T:0.24
Consensus pattern (25 bp):
GCAAAGGATGAATTGACGATAAAAT
Found at i:26916801 original size:14 final size:14
Alignment explanation
Indices: 26916782--26916810 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
26916772 ATGTATGAAG
26916782 TATGCTTAAAATGT
1 TATGCTTAAAATGT
26916796 TATGCTTAAAATGT
1 TATGCTTAAAATGT
26916810 T
1 T
26916811 TAGATGAGGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.07, G:0.14, T:0.45
Consensus pattern (14 bp):
TATGCTTAAAATGT
Found at i:26926506 original size:40 final size:40
Alignment explanation
Indices: 26926433--26926659 Score: 316
Period size: 40 Copynumber: 5.7 Consensus size: 40
26926423 GCTACTCGTT
* *
26926433 CAAATGCCTTCGGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTC-GGGACTTAACCCGGATT-TAGTAACTCGCA
26926474 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
26926514 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
26926554 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
26926594 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
26926635 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
26926660 CATCATTCAA
Statistics
Matches: 173, Mismatches: 9, Indels: 9
0.91 0.05 0.05
Matches are distributed among these distances:
39 3 0.02
40 146 0.84
41 24 0.14
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:26929689 original size:11 final size:12
Alignment explanation
Indices: 26929663--26929687 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
26929653 TAGATTAATT
26929663 AATTGAAAGAAA
1 AATTGAAAGAAA
26929675 AATTGAAAGAAA
1 AATTGAAAGAAA
26929687 A
1 A
26929688 TTATGGTAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.68, C:0.00, G:0.16, T:0.16
Consensus pattern (12 bp):
AATTGAAAGAAA
Found at i:26933234 original size:7 final size:7
Alignment explanation
Indices: 26933222--26933246 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
26933212 TGATATAAAC
26933222 AAGGGTA
1 AAGGGTA
26933229 AAGGGTA
1 AAGGGTA
26933236 AAGGGTA
1 AAGGGTA
26933243 AAGG
1 AAGG
26933247 CAAGGCAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.44, T:0.12
Consensus pattern (7 bp):
AAGGGTA
Found at i:26933676 original size:3 final size:3
Alignment explanation
Indices: 26933668--26933705 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
26933658 CCCTATGGTA
26933668 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
26933706 ATTCAGATAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.32, T:0.34
Consensus pattern (3 bp):
ATG
Found at i:26935636 original size:3 final size:3
Alignment explanation
Indices: 26935628--26935658 Score: 53
Period size: 3 Copynumber: 10.0 Consensus size: 3
26935618 GTTGTAAGGT
26935628 TGG TGG TGGG TGG TGG TGG TGG TGG TGG TGG
1 TGG TGG T-GG TGG TGG TGG TGG TGG TGG TGG
26935659 GCATAGTGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 24 0.89
4 3 0.11
ACGTcount: A:0.00, C:0.00, G:0.68, T:0.32
Consensus pattern (3 bp):
TGG
Found at i:26937210 original size:12 final size:12
Alignment explanation
Indices: 26937193--26937235 Score: 59
Period size: 12 Copynumber: 3.5 Consensus size: 12
26937183 CTCTATTTAT
26937193 TTATAAATAAAA
1 TTATAAATAAAA
*
26937205 TTATAATTAATAA
1 TTATAAATAA-AA
*
26937218 TTATAAATTAAA
1 TTATAAATAAAA
26937230 TTATAA
1 TTATAA
26937236 TTATTTTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
12 17 0.63
13 10 0.37
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (12 bp):
TTATAAATAAAA
Found at i:26937223 original size:6 final size:6
Alignment explanation
Indices: 26937193--26937239 Score: 51
Period size: 6 Copynumber: 7.7 Consensus size: 6
26937183 CTCTATTTAT
* *
26937193 TTATAA ATAAAA TTATAA TTAATAA TTATAAA TTA-AA TTATAA TTAT
1 TTATAA TTATAA TTATAA TT-ATAA TTAT-AA TTATAA TTATAA TTAT
26937240 TTTTAAATAC
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
5 5 0.15
6 18 0.53
7 11 0.32
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (6 bp):
TTATAA
Found at i:26937237 original size:18 final size:19
Alignment explanation
Indices: 26937193--26937239 Score: 62
Period size: 18 Copynumber: 2.5 Consensus size: 19
26937183 CTCTATTTAT
*
26937193 TTATAAATA-AAATTATAA
1 TTATAATTATAAATTATAA
26937211 TTAATAATTATAAATTA-AA
1 TT-ATAATTATAAATTATAA
26937230 TTATAATTAT
1 TTATAATTAT
26937240 TTTTAAATAC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
18 10 0.38
19 10 0.38
20 6 0.23
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
TTATAATTATAAATTATAA
Found at i:26940749 original size:19 final size:19
Alignment explanation
Indices: 26940725--26940768 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
26940715 CACATATCAC
26940725 ATTTTATTCACTTTAGCAT
1 ATTTTATTCACTTTAGCAT
26940744 ATTTTATTCACTTTAGCAT
1 ATTTTATTCACTTTAGCAT
*
26940763 GTTTTA
1 ATTTTA
26940769 ATATAGTTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.25, C:0.14, G:0.07, T:0.55
Consensus pattern (19 bp):
ATTTTATTCACTTTAGCAT
Found at i:26948157 original size:10 final size:11
Alignment explanation
Indices: 26948130--26948154 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
26948120 AAAACACATA
26948130 TTTTAAATTTT
1 TTTTAAATTTT
26948141 TTTTAAATTTT
1 TTTTAAATTTT
26948152 TTT
1 TTT
26948155 AAAAATTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTTAAATTTT
Found at i:26948292 original size:31 final size:29
Alignment explanation
Indices: 26948219--26948295 Score: 86
Period size: 29 Copynumber: 2.6 Consensus size: 29
26948209 TTTACCTCTG
*
26948219 GTTACATTTTAGTTACTTATGTTTGAAAT
1 GTTACATTTTAGTCACTTATGTTTGAAAT
*
26948248 GTTACGTTTTAGTCACTTATG-TT-AATAT
1 GTTACATTTTAGTCACTTATGTTTGAA-AT
26948276 GTTGTAACATTTTAGTCACT
1 G-T-T-ACATTTTAGTCACT
26948296 GAGCCATTAA
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
27 2 0.05
28 5 0.12
29 20 0.49
30 1 0.02
31 13 0.32
ACGTcount: A:0.26, C:0.10, G:0.14, T:0.49
Consensus pattern (29 bp):
GTTACATTTTAGTCACTTATGTTTGAAAT
Found at i:26949000 original size:19 final size:18
Alignment explanation
Indices: 26948978--26949013 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
26948968 AAAGGGTAAG
*
26948978 AAGAAAAGGAAAATAAAGA
1 AAGAAAAAGAAAA-AAAGA
26948997 AAGAAAAAGAAAAAAAG
1 AAGAAAAAGAAAAAAAG
26949014 TTAAATTCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.78, C:0.00, G:0.19, T:0.03
Consensus pattern (18 bp):
AAGAAAAAGAAAAAAAGA
Found at i:26963025 original size:26 final size:30
Alignment explanation
Indices: 26962962--26963035 Score: 84
Period size: 31 Copynumber: 2.6 Consensus size: 30
26962952 TTAATCACTT
*
26962962 TAATATTAAATTAATATAATACTATTAAGA
1 TAATATTAAATTAATATAATAATATTAAGA
*
26962992 TAAGTATTAAATTAA-AT-TTAATATTAA-A
1 TAA-TATTAAATTAATATAATAATATTAAGA
*
26963020 T-ATATTAAAATAATAT
1 TAATATTAAATTAATAT
26963036 TATTTTTAGA
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
26 10 0.26
27 3 0.08
28 2 0.05
29 8 0.21
30 5 0.13
31 11 0.28
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.42
Consensus pattern (30 bp):
TAATATTAAATTAATATAATAATATTAAGA
Found at i:26965935 original size:20 final size:19
Alignment explanation
Indices: 26965910--26965951 Score: 66
Period size: 20 Copynumber: 2.2 Consensus size: 19
26965900 TTATATTTTT
*
26965910 AAAAATATTAGTTATTATAA
1 AAAAATATTAG-TATGATAA
26965930 AAAAATATTAGTATGATAA
1 AAAAATATTAGTATGATAA
26965949 AAA
1 AAA
26965952 TAATTTCTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 10 0.48
20 11 0.52
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (19 bp):
AAAAATATTAGTATGATAA
Found at i:26967199 original size:29 final size:29
Alignment explanation
Indices: 26967166--26967224 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
26967156 TCCACCTTGA
* * *
26967166 CACGAATTCTCAACGAACAAGTTCTTCAC
1 CACGAACTCTCAACAAACAAGTTCTCCAC
*
26967195 CACGAACTCTCAACAAATAAGTTCTCCAC
1 CACGAACTCTCAACAAACAAGTTCTCCAC
26967224 C
1 C
26967225 TCTTCCACGA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.36, C:0.34, G:0.08, T:0.22
Consensus pattern (29 bp):
CACGAACTCTCAACAAACAAGTTCTCCAC
Found at i:26970983 original size:125 final size:125
Alignment explanation
Indices: 26970752--26971175 Score: 586
Period size: 125 Copynumber: 3.4 Consensus size: 125
26970742 ACATGGATGG
* * *
26970752 GAAGAATTTGTGAAATCGCACCCTCTTGGACGCGCTTTTGCTACAGTTGGTCCTGGAAGAAATAA
1 GAAGAATTTGTGAAATCGCACCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGGAAGAAATAA
* *
26970817 TTTCGAGTTGACGTTTCTGAGTAAATAGTATAAAATCGCTTCTACCAGGATGATTTATGA
66 TTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAAGATGATTTATGA
* * *
26970877 GAAGAATTTGTTAAATCGCACCCACGTGGACGCGCTTTTGCTACAGTAGGTCCT-GAAAAAATTA
1 GAAGAATTTGTGAAATCGCACCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGGAAGAAATAA
* * *
26970941 TTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAAAT-GCTTCAAGCAAGATGCTATT-TGA
66 TTTCGAGTTGACGTTTCTGAGCAAATAGTAT--AAAATCGCTTCTACCAAGATGAT-TTATGA
* * ** * * *
26971002 GAAGAATTTCTGAAATTGCGGCCTCGTGGATGCGCTTTTGCTACAGTTA-GTCTTGGAAGAAATA
1 GAAGAATTTGTGAAATCGCACCCACGTGGACGCGCTTTTGCTACAG-TAGGTCCTGGAAGAAATA
* *
26971066 ATTTTGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAAGATGGTTTATGA
65 ATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAAGATGATTTATGA
* *
26971127 GAAGAATTTATGAAATCGCACCCACGTGGACGCGATTTTGCTACAGTAG
1 GAAGAATTTGTGAAATCGCACCCACGTGGACGCGCTTTTGCTACAGTAG
26971176 CATGTTTGGG
Statistics
Matches: 259, Mismatches: 32, Indels: 16
0.84 0.10 0.05
Matches are distributed among these distances:
124 47 0.18
125 165 0.64
126 47 0.18
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (125 bp):
GAAGAATTTGTGAAATCGCACCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGGAAGAAATAA
TTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAAGATGATTTATGA
Found at i:26974399 original size:25 final size:25
Alignment explanation
Indices: 26974371--26974421 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
26974361 TCAAAATAAC
*
26974371 TCAAAAAAATTTCTATTTTATTACA
1 TCAAAAAAACTTCTATTTTATTACA
*
26974396 TCAAATAAACTTCTATTTTATTACA
1 TCAAAAAAACTTCTATTTTATTACA
26974421 T
1 T
26974422 AAATAATATC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.41, C:0.14, G:0.00, T:0.45
Consensus pattern (25 bp):
TCAAAAAAACTTCTATTTTATTACA
Found at i:26974436 original size:69 final size:70
Alignment explanation
Indices: 26974343--26974472 Score: 226
Period size: 69 Copynumber: 1.9 Consensus size: 70
26974333 TAAGCTCATG
* * *
26974343 TTATTACATCAAATAATATCAAAATAACTCAAAAAAATTTCTATTTTATTACATCAAATAAACTT
1 TTATTACATCAAATAATATCAAAATAAATCAAAAAAAATTCTATTTTATTACATAAAATAAACTT
26974408 CTATT
66 CTATT
26974413 TTATTACAT-AAATAATATCAAAATAAATCAAAAAAAATTCTATTTTATTACATAAAATAA
1 TTATTACATCAAATAATATCAAAATAAATCAAAAAAAATTCTATTTTATTACATAAAATAA
26974473 TATCAAAATA
Statistics
Matches: 57, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
69 48 0.84
70 9 0.16
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.37
Consensus pattern (70 bp):
TTATTACATCAAATAATATCAAAATAAATCAAAAAAAATTCTATTTTATTACATAAAATAAACTT
CTATT
Found at i:26974458 original size:44 final size:45
Alignment explanation
Indices: 26974395--26974482 Score: 151
Period size: 44 Copynumber: 2.0 Consensus size: 45
26974385 ATTTTATTAC
* *
26974395 ATCAAATAAACTTCTATTTTATTACAT-AAATAATATCAAAATAA
1 ATCAAAAAAAATTCTATTTTATTACATAAAATAATATCAAAATAA
26974439 ATCAAAAAAAATTCTATTTTATTACATAAAATAATATCAAAATA
1 ATCAAAAAAAATTCTATTTTATTACATAAAATAATATCAAAATA
26974483 TTCAAAATAT
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
44 25 0.61
45 16 0.39
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.35
Consensus pattern (45 bp):
ATCAAAAAAAATTCTATTTTATTACATAAAATAATATCAAAATAA
Found at i:26976822 original size:51 final size:51
Alignment explanation
Indices: 26976767--26976864 Score: 130
Period size: 51 Copynumber: 1.9 Consensus size: 51
26976757 AATTCTTTAA
26976767 AAATAGGGATTT--AAGAGAAATTT-AAGAAGAACTTGAGAGCAAATTGAAATT
1 AAATAGGGATTTGAAAGA-AAATTTGAAG--GAACTTGAGAGCAAATTGAAATT
* *
26976818 AAATATGGATTTGAAAGAAAATTTGAAGGAATTTGAGAGCAAATTGA
1 AAATAGGGATTTGAAAGAAAATTTGAAGGAACTTGAGAGCAAATTGA
26976865 GAGCAAATTG
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
51 29 0.69
52 6 0.14
53 7 0.17
ACGTcount: A:0.48, C:0.03, G:0.22, T:0.27
Consensus pattern (51 bp):
AAATAGGGATTTGAAAGAAAATTTGAAGGAACTTGAGAGCAAATTGAAATT
Found at i:26976862 original size:12 final size:12
Alignment explanation
Indices: 26976826--26976890 Score: 66
Period size: 11 Copynumber: 5.8 Consensus size: 12
26976816 TTAAATATGG
* *
26976826 ATTTGAAAGAAA
1 ATTTGAGAGCAA
*
26976838 ATTTGA-AG-GA
1 ATTTGAGAGCAA
26976848 ATTTGAGAGCAA
1 ATTTGAGAGCAA
26976860 A-TTGAGAGCAA
1 ATTTGAGAGCAA
*
26976871 A-TTGAGAGGAA
1 ATTTGAGAGCAA
26976882 ATTTGAGAG
1 ATTTGAGAG
26976891 AGGATTAGTT
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
10 7 0.15
11 25 0.53
12 15 0.32
ACGTcount: A:0.45, C:0.03, G:0.28, T:0.25
Consensus pattern (12 bp):
ATTTGAGAGCAA
Found at i:26977145 original size:42 final size:42
Alignment explanation
Indices: 26977097--26977193 Score: 158
Period size: 42 Copynumber: 2.3 Consensus size: 42
26977087 CGCGCAGACG
26977097 TGGAAGCGATTTCCTAGAACGTCCCCTGACATCCCGCTGACA
1 TGGAAGCGATTTCCTAGAACGTCCCCTGACATCCCGCTGACA
* * *
26977139 TGGAAGCGATTTCCTGGAACGTCCCCTGACATCGCGCTGACG
1 TGGAAGCGATTTCCTAGAACGTCCCCTGACATCCCGCTGACA
*
26977181 TGGACGCGATTTC
1 TGGAAGCGATTTC
26977194 AGGGAAAAGA
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 51 1.00
ACGTcount: A:0.21, C:0.31, G:0.26, T:0.23
Consensus pattern (42 bp):
TGGAAGCGATTTCCTAGAACGTCCCCTGACATCCCGCTGACA
Found at i:26978985 original size:27 final size:26
Alignment explanation
Indices: 26978947--26979008 Score: 83
Period size: 25 Copynumber: 2.4 Consensus size: 26
26978937 ATAAAAATTA
26978947 ACCAAAATATTATAAC-TTTTTTTATTT
1 ACCAAAATATT-T-ACTTTTTTTTATTT
26978974 ACCAAAATA-TTACTTTTTTTTATTT
1 ACCAAAATATTTACTTTTTTTTATTT
*
26978999 ACGAAAATAT
1 ACCAAAATAT
26979009 ACCAAAAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
24 2 0.06
25 20 0.62
26 1 0.03
27 9 0.28
ACGTcount: A:0.39, C:0.11, G:0.02, T:0.48
Consensus pattern (26 bp):
ACCAAAATATTTACTTTTTTTTATTT
Found at i:26979108 original size:27 final size:27
Alignment explanation
Indices: 26979078--26979129 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
26979068 GGCCAATCAC
26979078 ATTGGCGGCACCAAAT-GTGCCAAAGTG
1 ATTGGCGGCACC-AATGGTGCCAAAGTG
*
26979105 ATTGGTGGCACCAATGGTGCCAAAG
1 ATTGGCGGCACCAATGGTGCCAAAG
26979130 GACTAAAATG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 3 0.13
27 20 0.87
ACGTcount: A:0.29, C:0.21, G:0.31, T:0.19
Consensus pattern (27 bp):
ATTGGCGGCACCAATGGTGCCAAAGTG
Found at i:26979171 original size:18 final size:19
Alignment explanation
Indices: 26979148--26979194 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 19
26979138 TGTGGCTAAT
* *
26979148 TTAAATGAGAATAG-TTTA
1 TTAAATGAAAATAGAGTTA
*
26979166 TTAAATTAAAATAGAGTTA
1 TTAAATGAAAATAGAGTTA
26979185 TTAAAT-AAAA
1 TTAAATGAAAA
26979195 AAATGAGTTG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 16 0.64
19 9 0.36
ACGTcount: A:0.53, C:0.00, G:0.11, T:0.36
Consensus pattern (19 bp):
TTAAATGAAAATAGAGTTA
Found at i:26979202 original size:20 final size:19
Alignment explanation
Indices: 26979163--26979203 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
26979153 TGAGAATAGT
* *
26979163 TTATTAAATTAAAATAGAG
1 TTATTAAATAAAAAAAGAG
26979182 TTATTAAATAAAAAAATGAG
1 TTATTAAATAAAAAAA-GAG
26979202 TT
1 TT
26979204 GAAGGGGAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.54, C:0.00, G:0.10, T:0.37
Consensus pattern (19 bp):
TTATTAAATAAAAAAAGAG
Found at i:26979390 original size:19 final size:19
Alignment explanation
Indices: 26979368--26979428 Score: 72
Period size: 19 Copynumber: 3.2 Consensus size: 19
26979358 GAATTCTCTC
26979368 ATTTAATAACTCTATTTTA
1 ATTTAATAACTCTATTTTA
* *
26979387 ATTTAATAA-ACTA-TTAA
1 ATTTAATAACTCTATTTTA
26979404 GTATTTAATAACTCTATTTTA
1 --ATTTAATAACTCTATTTTA
26979425 ATTT
1 ATTT
26979429 TAAAAAATTA
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
17 3 0.09
18 3 0.09
19 22 0.65
20 3 0.09
21 3 0.09
ACGTcount: A:0.39, C:0.08, G:0.02, T:0.51
Consensus pattern (19 bp):
ATTTAATAACTCTATTTTA
Done.