Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr5
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: 65570391
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1216948 characters in sequence are not A, C, G, or T
File 157 of 203
Found at i:49880867 original size:28 final size:28
Alignment explanation
Indices: 49880815--49880894 Score: 74
Period size: 28 Copynumber: 2.8 Consensus size: 28
49880805 ATTATTTGTT
49880815 TATATATATATGTA-ATTATCTTTTTTATAA
1 TATATATATATGTATA-TA-C-TTTTTATAA
* * *
49880845 TCTATATATATGTATATACTTTTTTTTA
1 TATATATATATGTATATACTTTTTATAA
* *
49880873 TATATGTACATGTATATA-TTTT
1 TATATATATATGTATATACTTTT
49880895 GTACCTTTTT
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
27 4 0.09
28 22 0.51
29 1 0.02
30 15 0.35
31 1 0.02
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.57
Consensus pattern (28 bp):
TATATATATATGTATATACTTTTTATAA
Found at i:49880869 original size:30 final size:27
Alignment explanation
Indices: 49880815--49880894 Score: 81
Period size: 30 Copynumber: 2.8 Consensus size: 27
49880805 ATTATTTGTT
49880815 TATATATATATGTA-ATTATCTTTTTTATAA
1 TATATATATATGTATA-TAT-TTTTTT-T-A
*
49880845 TCTATATATATGTATATACTTTTTTTTA
1 TATATATATATGTATATA-TTTTTTTTA
* *
49880873 TATATGTACATGTATATATTTT
1 TATATATATATGTATATATTTT
49880895 GTACCTTTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
27 4 0.09
28 16 0.36
29 1 0.02
30 21 0.48
31 2 0.05
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.57
Consensus pattern (27 bp):
TATATATATATGTATATATTTTTTTTA
Found at i:49900527 original size:21 final size:19
Alignment explanation
Indices: 49900503--49900541 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 19
49900493 TGAGTAAAAA
49900503 ATAAATTTCATTAAAACAATT
1 ATAAATTT-A-TAAAACAATT
*
49900524 ATAAGTTTATAAAACAAT
1 ATAAATTTATAAAACAAT
49900542 CGCAATATCT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 1 0.06
21 7 0.41
ACGTcount: A:0.54, C:0.08, G:0.03, T:0.36
Consensus pattern (19 bp):
ATAAATTTATAAAACAATT
Found at i:49901151 original size:24 final size:24
Alignment explanation
Indices: 49901109--49901166 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 24
49901099 AAGTGGTGCT
* *
49901109 GGTGGTGGTGGACGCACATGGGGA
1 GGTGGTGGAGGACGCACATGAGGA
* * *
49901133 GGTGGTGGAGGATGTACATGAGGT
1 GGTGGTGGAGGACGCACATGAGGA
*
49901157 GGCGGTGGAG
1 GGTGGTGGAG
49901167 TGATTGGATG
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.17, C:0.09, G:0.55, T:0.19
Consensus pattern (24 bp):
GGTGGTGGAGGACGCACATGAGGA
Found at i:49907779 original size:22 final size:23
Alignment explanation
Indices: 49907745--49907791 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
49907735 GATTTTGATT
49907745 TTATCTTTCTTTATT-TCATTTAC
1 TTATCTTTCTTTATTAT-ATTTAC
*
49907768 TTAT-TTTTTTTATTATATTTAC
1 TTATCTTTCTTTATTATATTTAC
49907790 TT
1 TT
49907792 TATTATATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 17 0.77
23 5 0.23
ACGTcount: A:0.19, C:0.11, G:0.00, T:0.70
Consensus pattern (23 bp):
TTATCTTTCTTTATTATATTTAC
Found at i:49917431 original size:10 final size:10
Alignment explanation
Indices: 49917413--49917444 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
49917403 TGTCATCCCC
49917413 ATCATTATAT
1 ATCATTATAT
*
49917423 ATTATTATAT
1 ATCATTATAT
49917433 ATCATTATAT
1 ATCATTATAT
49917443 AT
1 AT
49917445 AATTTTAAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.53
Consensus pattern (10 bp):
ATCATTATAT
Found at i:49917437 original size:29 final size:29
Alignment explanation
Indices: 49917382--49917437 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
49917372 TGAGCATGAG
* *
49917382 CCATCATTATATATCATTATGTGTCATCC
1 CCATCATTATATATCATTATATATCATCC
*
49917411 CCATCATTATATATTATTATATATCAT
1 CCATCATTATATATCATTATATATCAT
49917438 TATATATAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.32, C:0.20, G:0.04, T:0.45
Consensus pattern (29 bp):
CCATCATTATATATCATTATATATCATCC
Found at i:49920996 original size:16 final size:16
Alignment explanation
Indices: 49920975--49921008 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
49920965 GGTGACAGGA
49920975 TAAAATTAAGTATGTT
1 TAAAATTAAGTATGTT
49920991 TAAAATTAAGTATGTT
1 TAAAATTAAGTATGTT
49921007 TA
1 TA
49921009 TTGCTATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.12, T:0.44
Consensus pattern (16 bp):
TAAAATTAAGTATGTT
Found at i:49921267 original size:52 final size:52
Alignment explanation
Indices: 49921189--49921290 Score: 195
Period size: 52 Copynumber: 2.0 Consensus size: 52
49921179 TCCTTTTAAT
*
49921189 TGTTTAATAGAAAGAGACCCAAGTGATTCAATGTCCAGTGAATAGGATGGTG
1 TGTTTAATAGAAAGAGACCCAAGTGATTCAATGTCCAGTGAACAGGATGGTG
49921241 TGTTTAATAGAAAGAGACCCAAGTGATTCAATGTCCAGTGAACAGGATGG
1 TGTTTAATAGAAAGAGACCCAAGTGATTCAATGTCCAGTGAACAGGATGG
49921291 ACCCAAGTGA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 49 1.00
ACGTcount: A:0.35, C:0.13, G:0.26, T:0.25
Consensus pattern (52 bp):
TGTTTAATAGAAAGAGACCCAAGTGATTCAATGTCCAGTGAACAGGATGGTG
Found at i:49921294 original size:34 final size:34
Alignment explanation
Indices: 49921256--49921324 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
49921246 AATAGAAAGA
49921256 GACCCAAGTGATTCAATGTCCAGTGAACAGGATG
1 GACCCAAGTGATTCAATGTCCAGTGAACAGGATG
*
49921290 GACCCAAGTGATTCAATGTCCCGTGAACAGGATG
1 GACCCAAGTGATTCAATGTCCAGTGAACAGGATG
49921324 G
1 G
49921325 TGAACATGCA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.30, C:0.22, G:0.28, T:0.20
Consensus pattern (34 bp):
GACCCAAGTGATTCAATGTCCAGTGAACAGGATG
Found at i:49921509 original size:16 final size:16
Alignment explanation
Indices: 49921490--49921530 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
49921480 AATTTGATAC
49921490 AATTTTAATAACAATT
1 AATTTTAATAACAATT
*
49921506 AATTTTGATAACAATT
1 AATTTTAATAACAATT
*
49921522 AGTTTTAAT
1 AATTTTAAT
49921531 TTTATTACAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.46
Consensus pattern (16 bp):
AATTTTAATAACAATT
Found at i:49922129 original size:41 final size:41
Alignment explanation
Indices: 49922071--49922148 Score: 111
Period size: 41 Copynumber: 1.9 Consensus size: 41
49922061 GTCCCAGTTC
* * *
49922071 AGCTCTTTTGAGCTTCAGTTTAACCCTAATAGGTTTCATTT
1 AGCTCTTCTGAGATTCAGATTAACCCTAATAGGTTTCATTT
* *
49922112 AGCTCTTCTGAGATTCAGATTAACCCTTATGGGTTTC
1 AGCTCTTCTGAGATTCAGATTAACCCTAATAGGTTTC
49922149 CGTTCAGCTC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 32 1.00
ACGTcount: A:0.22, C:0.21, G:0.17, T:0.41
Consensus pattern (41 bp):
AGCTCTTCTGAGATTCAGATTAACCCTAATAGGTTTCATTT
Found at i:49922145 original size:83 final size:83
Alignment explanation
Indices: 49922022--49922180 Score: 203
Period size: 83 Copynumber: 1.9 Consensus size: 83
49922012 TGTCATAAGC
* * * * *
49922022 TTCATTTAACTCATATGAGTTTTAGATTAACCCTTCTGGG-TCCCAGTTCAGCTCTTTTGAGCTT
1 TTCATTTAACTCATATGAGATTCAGATTAACCCTTATGGGTTCCC-GTTCAGCTCCTATGAGCTT
*
49922086 CAGTTTAACCCTAATAGGT
65 CAGTTCAACCCTAATAGGT
* * * *
49922105 TTCATTTAGCTCTTCTGAGATTCAGATTAACCCTTATGGGTTTCCGTTCAGCTCCTATGAGCTTC
1 TTCATTTAACTCATATGAGATTCAGATTAACCCTTATGGGTTCCCGTTCAGCTCCTATGAGCTTC
*
49922170 TGTTCAACCCT
66 AGTTCAACCCT
49922181 TACGGGTTTT
Statistics
Matches: 64, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
83 61 0.95
84 3 0.05
ACGTcount: A:0.21, C:0.24, G:0.16, T:0.40
Consensus pattern (83 bp):
TTCATTTAACTCATATGAGATTCAGATTAACCCTTATGGGTTCCCGTTCAGCTCCTATGAGCTTC
AGTTCAACCCTAATAGGT
Found at i:49922179 original size:42 final size:41
Alignment explanation
Indices: 49922048--49922211 Score: 134
Period size: 42 Copynumber: 4.0 Consensus size: 41
49922038 GAGTTTTAGA
* * *
49922048 TTAACCCTTCTGGG-TCCCAGTTCAGCTCTTTTGAGCTTCAG
1 TTAACCCTTATGGGTTTCC-GTTCAGCTCTTATGAGCTTCAG
* * * * * *
49922089 TTTAACCCTAATAGGTTT-CATTTAGCTCTTCTGAGATTCAG
1 -TTAACCCTTATGGGTTTCCGTTCAGCTCTTATGAGCTTCAG
* *
49922130 ATTAACCCTTATGGGTTTCCGTTCAGCTCCTATGAGCTTCTG
1 -TTAACCCTTATGGGTTTCCGTTCAGCTCTTATGAGCTTCAG
* * * * *
49922172 TTCAACCCTTACGGGTTTTCGTTTAGCACTTATGTGCTTC
1 TT-AACCCTTATGGGTTTCCGTTCAGCTCTTATGAGCTTC
49922212 TGTGTAGCCT
Statistics
Matches: 96, Mismatches: 23, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
41 35 0.36
42 60 0.62
43 1 0.01
ACGTcount: A:0.18, C:0.25, G:0.18, T:0.40
Consensus pattern (41 bp):
TTAACCCTTATGGGTTTCCGTTCAGCTCTTATGAGCTTCAG
Found at i:49922189 original size:83 final size:84
Alignment explanation
Indices: 49922022--49922198 Score: 196
Period size: 83 Copynumber: 2.1 Consensus size: 84
49922012 TGTCATAAGC
* * * * * *
49922022 TTCATTTAACTCATATGAGTTTTAGATTAACCCTTCTGGGTCCCAGTTCAGCTCTTTTGAGCTTC
1 TTCATTTAGCTCATATGAGATTCAGATTAACCCTTATGGGTCCCAGTTCAGCTCCTATGAGCTTC
* *
49922087 AGTTTAACCCTAATAGG-T
66 AGTTCAACCCTAACAGGTT
* * *
49922105 TTCATTTAGCTCTTCTGAGATTCAGATTAACCCTTATGGGTTTCC-GTTCAGCTCCTATGAGCTT
1 TTCATTTAGCTCATATGAGATTCAGATTAACCCTTATGGG-TCCCAGTTCAGCTCCTATGAGCTT
* * *
49922169 CTGTTCAACCCTTACGGGTT
65 CAGTTCAACCCTAACAGGTT
*
49922189 TTCGTTTAGC
1 TTCATTTAGC
49922199 ACTTATGTGC
Statistics
Matches: 77, Mismatches: 15, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
83 64 0.83
84 13 0.17
ACGTcount: A:0.20, C:0.23, G:0.17, T:0.40
Consensus pattern (84 bp):
TTCATTTAGCTCATATGAGATTCAGATTAACCCTTATGGGTCCCAGTTCAGCTCCTATGAGCTTC
AGTTCAACCCTAACAGGTT
Found at i:49926497 original size:18 final size:19
Alignment explanation
Indices: 49926465--49926511 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
49926455 GTTCGATTAA
49926465 ATAAATCATT-AAAAAT-TT
1 ATAAAT-ATTAAAAAATATT
49926483 ATAAATATTAAAAAATATT
1 ATAAATATTAAAAAATATT
*
49926502 AAAAAT-TTAA
1 ATAAATATTAA
49926512 TTCAATTTGT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
17 3 0.12
18 16 0.62
19 7 0.27
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (19 bp):
ATAAATATTAAAAAATATT
Found at i:49926687 original size:34 final size:34
Alignment explanation
Indices: 49926619--49926688 Score: 106
Period size: 34 Copynumber: 2.1 Consensus size: 34
49926609 AAACCATCCT
* *
49926619 AAATATAAAATAACTCAACCCAATTTCATTACCC
1 AAATATAAAATAACTCAACACAATTTAATTACCC
49926653 AAATATAAAATAACTCAACACAA-TTAATTAACCC
1 AAATATAAAATAACTCAACACAATTTAATT-ACCC
49926687 AA
1 AA
49926689 TTCTATTAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
33 5 0.15
34 28 0.85
ACGTcount: A:0.53, C:0.23, G:0.00, T:0.24
Consensus pattern (34 bp):
AAATATAAAATAACTCAACACAATTTAATTACCC
Found at i:49932553 original size:20 final size:20
Alignment explanation
Indices: 49932528--49932579 Score: 63
Period size: 19 Copynumber: 2.6 Consensus size: 20
49932518 TAAGTGTTTG
49932528 GAAATAAATTTTAAAAAATT
1 GAAATAAATTTTAAAAAATT
*
49932548 GAAAT-AATTTAAAAAAATT
1 GAAATAAATTTTAAAAAATT
*
49932567 TAAA-ATAATTTTA
1 GAAATA-AATTTTA
49932580 GAAATTAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 16 0.59
20 11 0.41
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.37
Consensus pattern (20 bp):
GAAATAAATTTTAAAAAATT
Found at i:49932566 original size:10 final size:10
Alignment explanation
Indices: 49932533--49932609 Score: 54
Period size: 10 Copynumber: 8.1 Consensus size: 10
49932523 GTTTGGAAAT
*
49932533 AAATTTTAAA
1 AAATTTAAAA
*
49932543 AAA-TTGAAA
1 AAATTTAAAA
*
49932552 TAATTTAAAA
1 AAATTTAAAA
49932562 AAATTTAAAA
1 AAATTTAAAA
* * *
49932572 TAATTT-TAG
1 AAATTTAAAA
49932581 AAA-TT-AAA
1 AAATTTAAAA
* *
49932589 AAATGTATAA
1 AAATTTAAAA
49932599 AAATTTAAAA
1 AAATTTAAAA
49932609 A
1 A
49932610 TCTATATTTT
Statistics
Matches: 50, Mismatches: 14, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
8 6 0.12
9 11 0.22
10 33 0.66
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (10 bp):
AAATTTAAAA
Found at i:49932584 original size:19 final size:19
Alignment explanation
Indices: 49932529--49932608 Score: 74
Period size: 20 Copynumber: 4.2 Consensus size: 19
49932519 AAGTGTTTGG
* *
49932529 AAATAAATTTTAAAAAATTG
1 AAAT-AATTTTAAAAATTTA
*
49932549 AAATAATTTAAAAAAATTTA
1 AAATAATTT-TAAAAATTTA
*
49932569 AAATAATTTTAGAAA-TTA
1 AAATAATTTTAAAAATTTA
*
49932587 AAA-AATGTATAAAAATTTA
1 AAATAAT-TTTAAAAATTTA
49932606 AAA
1 AAA
49932609 ATCTATATTT
Statistics
Matches: 50, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
17 3 0.06
18 12 0.24
19 15 0.30
20 20 0.40
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (19 bp):
AAATAATTTTAAAAATTTA
Found at i:49932602 original size:18 final size:17
Alignment explanation
Indices: 49932541--49932615 Score: 51
Period size: 18 Copynumber: 4.1 Consensus size: 17
49932531 ATAAATTTTA
* *
49932541 AAAAATTGAAATAATTTAA
1 AAAAATT-AAA-AAATTAT
*
49932560 AAAAATTTAAAATAATTTT
1 AAAAA-TTAAAA-AATTAT
*
49932579 AGAAATTAAAAAATGTAT
1 AAAAATTAAAAAAT-TAT
*
49932597 AAAAATTTAAAAATCTAT
1 AAAAATTAAAAAAT-TAT
49932615 A
1 A
49932616 TTTTTAACAA
Statistics
Matches: 45, Mismatches: 8, Indels: 7
0.75 0.13 0.12
Matches are distributed among these distances:
17 3 0.07
18 25 0.56
19 15 0.33
20 2 0.04
ACGTcount: A:0.61, C:0.01, G:0.04, T:0.33
Consensus pattern (17 bp):
AAAAATTAAAAAATTAT
Found at i:49932609 original size:19 final size:18
Alignment explanation
Indices: 49932541--49932609 Score: 59
Period size: 19 Copynumber: 3.7 Consensus size: 18
49932531 ATAAATTTTA
* * *
49932541 AAAAATTGAAATAATTTAA
1 AAAAATTTAAA-AAATTAT
*
49932560 AAAAATTTAAAATAATTTT
1 AAAAATTTAAAA-AATTAT
*
49932579 AGAAA-TTAAAAAATGTAT
1 AAAAATTTAAAAAAT-TAT
49932597 AAAAATTTAAAAA
1 AAAAATTTAAAAA
49932610 TCTATATTTT
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
17 3 0.08
18 13 0.32
19 24 0.60
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (18 bp):
AAAAATTTAAAAAATTAT
Found at i:49932814 original size:21 final size:20
Alignment explanation
Indices: 49932782--49932822 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
49932772 TAAATGATTT
* *
49932782 TAAATTTATATATTTTTATA
1 TAAAATTATATATTATTATA
49932802 TAAAATTATTATATTATTATA
1 TAAAATTA-TATATTATTATA
49932823 ATATTTTAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
TAAAATTATATATTATTATA
Found at i:49933910 original size:16 final size:18
Alignment explanation
Indices: 49933891--49933923 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
49933881 TCTTTTACCA
49933891 TTTCACG-TTTT-TCATG
1 TTTCACGATTTTATCATG
49933907 TTTCACGATTTTATCAT
1 TTTCACGATTTTATCAT
49933924 AGATTTGAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 4 0.27
18 4 0.27
ACGTcount: A:0.18, C:0.18, G:0.09, T:0.55
Consensus pattern (18 bp):
TTTCACGATTTTATCATG
Found at i:49936542 original size:27 final size:27
Alignment explanation
Indices: 49936509--49936573 Score: 103
Period size: 27 Copynumber: 2.4 Consensus size: 27
49936499 TAAGTTTCAT
49936509 TGCTTGTGCTAAATAGTGCCTCATGAA
1 TGCTTGTGCTAAATAGTGCCTCATGAA
* * *
49936536 TGTTTGTGCTAAATATTGCCTTATGAA
1 TGCTTGTGCTAAATAGTGCCTCATGAA
49936563 TGCTTGTGCTA
1 TGCTTGTGCTA
49936574 GGTCTCTCCA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.23, C:0.15, G:0.22, T:0.40
Consensus pattern (27 bp):
TGCTTGTGCTAAATAGTGCCTCATGAA
Found at i:49943609 original size:13 final size:13
Alignment explanation
Indices: 49943582--49943616 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
49943572 GTTTAGATTC
49943582 AAAAAACAAAAAAG
1 AAAAAA-AAAAAAG
*
49943596 AAAAAAAAAGAAG
1 AAAAAAAAAAAAG
49943609 AAAAAAAA
1 AAAAAAAA
49943617 GGAATGAGAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 14 0.70
14 6 0.30
ACGTcount: A:0.89, C:0.03, G:0.09, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAAAAG
Found at i:49945080 original size:88 final size:88
Alignment explanation
Indices: 49944926--49945160 Score: 344
Period size: 88 Copynumber: 2.7 Consensus size: 88
49944916 AGCAGTAGTG
* * *
49944926 GAGCAGGTTGAAGATAGCAAATATTGCCTTCCTGCATCGACAGCGAAGCAGATCGAAGACATAAG
1 GAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGCGAAGCAGATCGAAGACACAAG
49944991 CCTTGCCTCCATCGGTTGTAATA
66 CCTTGCCTCCATCGGTTGTAATA
*
49945014 GAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGCGAAGCAGATTGAAGACACAAG
1 GAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGCGAAGCAGATCGAAGACACAAG
* * *
49945079 CCTTGCCTCCCTCGGTTGTAGTG
66 CCTTGCCTCCATCGGTTGTAATA
* * * * * * *
49945102 GATCAGGTTGAAAATAGTAGATCTTGCCCTCCTGCATCGACAGTGGAGTAGATCGAAGA
1 GAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGCGAAGCAGATCGAAGA
49945161 TGACAGATTT
Statistics
Matches: 132, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
88 132 1.00
ACGTcount: A:0.29, C:0.23, G:0.26, T:0.23
Consensus pattern (88 bp):
GAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGCGAAGCAGATCGAAGACACAAG
CCTTGCCTCCATCGGTTGTAATA
Found at i:49945084 original size:44 final size:44
Alignment explanation
Indices: 49944949--49945086 Score: 115
Period size: 44 Copynumber: 3.1 Consensus size: 44
49944939 ATAGCAAATA
* *
49944949 TTGCCTTCCTGCATCGACAGCGAAGCAGATCGAAGACATAAGCC
1 TTGCCTTCCTGCATCGACAGCGAAGCAGATTGAAGACACAAGCC
* * ** * * *
49944993 TTGCC-TCCAT-CGGTTGTA-ATAG-AGCAGGTTGAAGATAGC-AGATC
1 TTGCCTTCC-TGC-ATCG-ACAGCGAAGCAGATTGAAGACA-CAAG-CC
49945037 TTGCCTTCCTGCATCGACAGCGAAGCAGATTGAAGACACAAGCC
1 TTGCCTTCCTGCATCGACAGCGAAGCAGATTGAAGACACAAGCC
49945081 TTGCCT
1 TTGCCT
49945087 CCCTCGGTTG
Statistics
Matches: 68, Mismatches: 16, Indels: 20
0.65 0.15 0.19
Matches are distributed among these distances:
43 19 0.28
44 29 0.43
45 20 0.29
ACGTcount: A:0.28, C:0.26, G:0.24, T:0.22
Consensus pattern (44 bp):
TTGCCTTCCTGCATCGACAGCGAAGCAGATTGAAGACACAAGCC
Found at i:49945564 original size:44 final size:43
Alignment explanation
Indices: 49945347--49945566 Score: 133
Period size: 44 Copynumber: 5.0 Consensus size: 43
49945337 CCATAAATTC
* * * **
49945347 TATCTCCCTAAGCAGCAGTGGAATAGATTGAGGATTACAGATAT
1 TATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGATGGCAGAT-T
* *
49945391 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGC-GAATTT
1 TATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGATGGCAG-A-TT
* * * * *** *
49945435 TACCTCACT--GTAGTTACAGTGGAGTACATTGAAGCCAG-AAATT
1 TATCTCCCTAAGCAG-T--AGTGGAGTAGATTGAAGATGGCAGATT
* * * * **
49945478 CTATATCCCTAGGCAGTAGTGGAATAGATTGAATATTACAGATCT
1 -TATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGATGGCAGAT-T
* *
49945523 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAGATT
1 TATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGATGGCAGATT
49945566 T
1 T
49945567 TACCTTCCTG
Statistics
Matches: 128, Mismatches: 37, Indels: 23
0.68 0.20 0.12
Matches are distributed among these distances:
42 3 0.02
43 20 0.16
44 84 0.66
45 18 0.14
46 3 0.02
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27
Consensus pattern (43 bp):
TATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGATGGCAGATT
Found at i:49945613 original size:264 final size:264
Alignment explanation
Indices: 49945143--49945632 Score: 729
Period size: 264 Copynumber: 1.9 Consensus size: 264
49945133 CTGCATCGAC
* *
49945143 AGTGGAGTAGATCGAAGATGACAGATTTTACCTCCCTGTGATTACAGTGGAGTACATTGAAGCCA
1 AGTGGAGCAGATCGAAGATGACAGATTTTACCTCACTGTGATTACAGTGGAGTACATTGAAGCCA
* * ** *
49945208 GTAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTAAAGATTTCAGATCTTATCTCCCTAAACA
66 GAAATTCTATATCCCTGGTCAGCAGTGGAATAGATTAAAGATTACAGATCTTATCTCCCTAAACA
* * *
49945273 GTCGTAGAGCAGATCGAAGATGGAGGGTTTTACCTCCCTGTGGTTACAGTGGAGTATATTGAAGC
131 GTAGTAGAGCAGATCGAAGATGGAGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGC
*
49945338 CATAAATTCTATCTCCCTAAGCAGCAGTGGAATAGATTGAGGATTACAGATATTATCTCCCTAAG
196 CATAAATTCTATCCCCCTAAGCAGCAGTGGAATAGATTGAGGATTACAGATATTATCTCCCTAAG
49945403 CAGT
261 CAGT
*
49945407 AGTGGAGCAGATCGAAGATGGC-GAATTTTACCTCACTGT-AGTTACAGTGGAGTACATTGAAGC
1 AGTGGAGCAGATCGAAGATGACAG-ATTTTACCTCACTGTGA-TTACAGTGGAGTACATTGAAGC
* * *
49945470 CAGAAATTCTATATCCCTAGG-CAGTAGTGGAATAGATTGAATATTACAGATCTTATCTCCCTAA
64 CAGAAATTCTATATCCCT-GGTCAGCAGTGGAATAGATTAAAGATTACAGATCTTATCTCCCTAA
* * *
49945534 GCAGTAGTGGAGCAGATCGAAGATGGCA-GATTTTACCTTCCTGTGGTTACAGTGGAGTACATTG
128 ACAGTAGTAGAGCAGATCGAAGATGG-AGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTG
*
49945598 AAGCCAGT-AATTCTATCCCCCTAAGCAGTAGTGGA
192 AAGCCA-TAAATTCTATCCCCCTAAGCAGCAGTGGA
49945633 GCAAATCGAA
Statistics
Matches: 202, Mismatches: 19, Indels: 10
0.87 0.08 0.04
Matches are distributed among these distances:
263 2 0.01
264 196 0.97
265 4 0.02
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (264 bp):
AGTGGAGCAGATCGAAGATGACAGATTTTACCTCACTGTGATTACAGTGGAGTACATTGAAGCCA
GAAATTCTATATCCCTGGTCAGCAGTGGAATAGATTAAAGATTACAGATCTTATCTCCCTAAACA
GTAGTAGAGCAGATCGAAGATGGAGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGC
CATAAATTCTATCCCCCTAAGCAGCAGTGGAATAGATTGAGGATTACAGATATTATCTCCCTAAG
CAGT
Found at i:49945659 original size:132 final size:131
Alignment explanation
Indices: 49945143--49945632 Score: 657
Period size: 132 Copynumber: 3.7 Consensus size: 131
49945133 CTGCATCGAC
* * *
49945143 AGTGGAGTAGATCGAAGATGACAGATTTTACCTCCCTGTGATTACAGTGGAGTACATTGAAGCCA
1 AGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCA
* ** * * * *
49945208 GTAATTCTATCTCCCT-GGTTGGCAGTGGAATAGATTAAAGATTTCAGATCTTATCTCCCTAAAC
66 GTAATTCTATCTCCCTAAG-CAGCAGTGGAATAGATTGAATA-TACAGATCTTATCTCCCTAAGC
49945272 AGT
129 AGT
* * * *
49945275 CGTAGAGCAGATCGAAGATGG-AGGGTTTTACCTCCCTGTGGTTACAGTGGAGTATATTGAAGCC
1 AGTGGAGCAGATCGAAGATGGCA-GATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCC
*
49945339 A-TAAATTCTATCTCCCTAAGCAGCAGTGGAATAGATTGAGGAT-TACAGATATTATCTCCCTAA
65 AGT-AATTCTATCTCCCTAAGCAGCAGTGGAATAGATTGA--ATATACAGATCTTATCTCCCTAA
49945402 GCAGT
127 GCAGT
* *
49945407 AGTGGAGCAGATCGAAGATGGC-GAATTTTACCTCACTGTAGTTACAGTGGAGTACATTGAAGCC
1 AGTGGAGCAGATCGAAGATGGCAG-ATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCC
* * * *
49945471 AGAAATTCTATATCCCTAGGCAGTAGTGGAATAGATTGAATATTACAGATCTTATCTCCCTAAGC
65 AGTAATTCTATCTCCCTAAGCAGCAGTGGAATAGATTGAATA-TACAGATCTTATCTCCCTAAGC
49945536 AGT
129 AGT
*
49945539 AGTGGAGCAGATCGAAGATGGCAGATTTTACCTTCCTGTGGTTACAGTGGAGTACATTGAAGCCA
1 AGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCA
* *
49945604 GTAATTCTATCCCCCTAAGCAGTAGTGGA
66 GTAATTCTATCTCCCTAAGCAGCAGTGGA
49945633 GCAAATCGAA
Statistics
Matches: 314, Mismatches: 33, Indels: 22
0.85 0.09 0.06
Matches are distributed among these distances:
130 2 0.01
131 3 0.01
132 306 0.97
133 2 0.01
134 1 0.00
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (131 bp):
AGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCA
GTAATTCTATCTCCCTAAGCAGCAGTGGAATAGATTGAATATACAGATCTTATCTCCCTAAGCAG
T
Found at i:49948054 original size:31 final size:31
Alignment explanation
Indices: 49948016--49948074 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
49948006 TGTTTTTTTG
*
49948016 AAATCTAACATGGTTGTACTAAACTTTACTT
1 AAATCTAACATGGTTGTACTAAAATTTACTT
*
49948047 AAATCTAACATGGTTGTAGTAAAATTTA
1 AAATCTAACATGGTTGTACTAAAATTTA
49948075 GTGAGTTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.37
Consensus pattern (31 bp):
AAATCTAACATGGTTGTACTAAAATTTACTT
Found at i:49949782 original size:30 final size:29
Alignment explanation
Indices: 49949748--49949808 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
49949738 AATAATAATT
49949748 AAATTACACTTTAATCTT-TCAAAAATGATA
1 AAATTACA-TTTAATCTTGT-AAAAATGATA
** *
49949778 AAATTTGATTTAATCTTGTAAAAATTATA
1 AAATTACATTTAATCTTGTAAAAATGATA
49949807 AA
1 AA
49949809 GATATAAACT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
29 20 0.74
30 7 0.26
ACGTcount: A:0.48, C:0.08, G:0.05, T:0.39
Consensus pattern (29 bp):
AAATTACATTTAATCTTGTAAAAATGATA
Found at i:49952531 original size:31 final size:28
Alignment explanation
Indices: 49952494--49952567 Score: 80
Period size: 26 Copynumber: 2.6 Consensus size: 28
49952484 CGTTTTGCTC
49952494 TCTGTTTCTTTCTCTGTTTCGTCTCTTCTAT
1 TCTGTTTCTTT-TCT-TTTC-TCTCTTCTAT
* *
49952525 TCTGTTTCTTTTCTTTTCTTTTTTCTAT
1 TCTGTTTCTTTTCTTTTCTCTCTTCTAT
*
49952553 TC--TTTCTTTTGTTTT
1 TCTGTTTCTTTTCTTTT
49952568 ATGTATATAT
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
26 12 0.30
28 10 0.25
29 4 0.10
30 3 0.08
31 11 0.28
ACGTcount: A:0.03, C:0.20, G:0.07, T:0.70
Consensus pattern (28 bp):
TCTGTTTCTTTTCTTTTCTCTCTTCTAT
Found at i:49952555 original size:17 final size:16
Alignment explanation
Indices: 49952529--49952562 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
49952519 TTCTATTCTG
*
49952529 TTTCTTTTCTTTTCTTT
1 TTTCTATTC-TTTCTTT
49952546 TTTCTATTCTTTCTTT
1 TTTCTATTCTTTCTTT
49952562 T
1 T
49952563 GTTTTATGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (16 bp):
TTTCTATTCTTTCTTT
Found at i:49952584 original size:5 final size:5
Alignment explanation
Indices: 49952571--49952642 Score: 62
Period size: 5 Copynumber: 14.4 Consensus size: 5
49952561 TTGTTTTATG
49952571 TATATA TATAA TATAA TATAA TAT-A T-TAA TGATAA TATAA TATAA -A-AA
1 TATA-A TATAA TATAA TATAA TATAA TATAA T-ATAA TATAA TATAA TATAA
* *
49952619 CATAA TCATTAC TATAA TATAA TA
1 TATAA T-A-TAA TATAA TATAA TA
49952643 ATATTTTTTT
Statistics
Matches: 56, Mismatches: 3, Indels: 15
0.76 0.04 0.20
Matches are distributed among these distances:
3 3 0.05
4 6 0.11
5 34 0.61
6 10 0.18
7 3 0.05
ACGTcount: A:0.56, C:0.04, G:0.01, T:0.39
Consensus pattern (5 bp):
TATAA
Found at i:49952596 original size:19 final size:19
Alignment explanation
Indices: 49952572--49952614 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
49952562 TGTTTTATGT
49952572 ATATATATAAT-ATAATATA
1 ATATAT-TAATGATAATATA
49952591 ATATATTAATGATAATATA
1 ATATATTAATGATAATATA
49952610 ATATA
1 ATATA
49952615 AAAACATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 4 0.17
19 19 0.83
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (19 bp):
ATATATTAATGATAATATA
Found at i:49952624 original size:24 final size:24
Alignment explanation
Indices: 49952578--49952643 Score: 71
Period size: 24 Copynumber: 2.7 Consensus size: 24
49952568 ATGTATATAT
* * *
49952578 ATAATATAATATAATATATTAATG
1 ATAATATAATATAATAAAATAATC
49952602 ATAATATAATATAA-AAACATAATC
1 ATAATATAATATAATAAA-ATAATC
*
49952626 ATTACTATAATATAATAA
1 A-TAATATAATATAATAA
49952644 TATTTTTTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
23 2 0.06
24 19 0.54
25 12 0.34
26 2 0.06
ACGTcount: A:0.58, C:0.05, G:0.02, T:0.36
Consensus pattern (24 bp):
ATAATATAATATAATAAAATAATC
Found at i:49959080 original size:13 final size:13
Alignment explanation
Indices: 49959064--49959099 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
49959054 ATCTAGTCTG
*
49959064 GTTTATATTATTT
1 GTTTAAATTATTT
49959077 GTTTAAATTATTT
1 GTTTAAATTATTT
49959090 GTTTAAATTA
1 GTTTAAATTA
49959100 AATTACGAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.61
Consensus pattern (13 bp):
GTTTAAATTATTT
Found at i:49959226 original size:24 final size:24
Alignment explanation
Indices: 49959180--49959224 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
49959170 ATTCTTTTTA
* *
49959180 TTTTATTTTTTAGAAATTTAAATC
1 TTTTACTTTTTAGAAATTAAAATC
49959204 TTTTACTTTTTA-AAATTAAAA
1 TTTTACTTTTTAGAAATTAAAA
49959225 ATTCAAGTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 8 0.42
24 11 0.58
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.56
Consensus pattern (24 bp):
TTTTACTTTTTAGAAATTAAAATC
Found at i:49960156 original size:28 final size:27
Alignment explanation
Indices: 49960125--49960177 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
49960115 TAAATTCAAG
*
49960125 ATTCAAAGTTTAGAGTTCAAGGTTCACA
1 ATTCAAAGTTTAG-GGTCAAGGTTCACA
*
49960153 ATTCAAAGTTTCGGGTCAAGGTTCA
1 ATTCAAAGTTTAGGGTCAAGGTTCA
49960178 GGGTCAGGCG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 11 0.48
28 12 0.52
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.32
Consensus pattern (27 bp):
ATTCAAAGTTTAGGGTCAAGGTTCACA
Found at i:49960237 original size:7 final size:7
Alignment explanation
Indices: 49960225--49960284 Score: 50
Period size: 7 Copynumber: 8.7 Consensus size: 7
49960215 TTAGGGTTCA
49960225 AGGTTTG
1 AGGTTTG
* *
49960232 ATGTTTA
1 AGGTTTG
49960239 AGGTTTG
1 AGGTTTG
*
49960246 ACGTTTG
1 AGGTTTG
*
49960253 AGGTTTA
1 AGGTTTG
*
49960260 AGG-TTC
1 AGGTTTG
*
49960266 AAGTTTG
1 AGGTTTG
49960273 AGGTTTG
1 AGGTTTG
*
49960280 GGGTT
1 AGGTT
49960285 CAAAGTTCGA
Statistics
Matches: 40, Mismatches: 12, Indels: 2
0.74 0.22 0.04
Matches are distributed among these distances:
6 4 0.10
7 36 0.90
ACGTcount: A:0.18, C:0.03, G:0.35, T:0.43
Consensus pattern (7 bp):
AGGTTTG
Found at i:49960287 original size:20 final size:20
Alignment explanation
Indices: 49960213--49960278 Score: 78
Period size: 21 Copynumber: 3.2 Consensus size: 20
49960203 GAGGTCTAAA
* *
49960213 GTTTAGGGTTCAAGGTTTGAT
1 GTTTAAGGTTCAA-GTTTGAG
* *
49960234 GTTTAAGGTTTGACGTTTGAG
1 GTTTAAGG-TTCAAGTTTGAG
49960255 GTTTAAGGTTCAAGTTTGAG
1 GTTTAAGGTTCAAGTTTGAG
49960275 GTTT
1 GTTT
49960279 GGGGTTCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
20 14 0.37
21 21 0.55
22 3 0.08
ACGTcount: A:0.20, C:0.05, G:0.32, T:0.44
Consensus pattern (20 bp):
GTTTAAGGTTCAAGTTTGAG
Found at i:49960292 original size:27 final size:27
Alignment explanation
Indices: 49960241--49960292 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
49960231 GATGTTTAAG
* *
49960241 GTTTGACGTTTGAGGTTTAAGGTTCAA
1 GTTTGACGTTTGAGGTTCAAAGTTCAA
* *
49960268 GTTTGAGGTTTGGGGTTCAAAGTTC
1 GTTTGACGTTTGAGGTTCAAAGTTC
49960293 GAGATTCAAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.19, C:0.08, G:0.33, T:0.40
Consensus pattern (27 bp):
GTTTGACGTTTGAGGTTCAAAGTTCAA
Found at i:49963481 original size:41 final size:41
Alignment explanation
Indices: 49963415--49963495 Score: 126
Period size: 41 Copynumber: 2.0 Consensus size: 41
49963405 CTTAATTGAC
49963415 TCGTAACACCAACTTAACTAAAAACATAATACACACAATTA
1 TCGTAACACCAACTTAACTAAAAACATAATACACACAATTA
** * *
49963456 TCGTAACACCAACTTAGTTAGAAACATAATATACACAATT
1 TCGTAACACCAACTTAACTAAAAACATAATACACACAATT
49963496 GTTGTTCCAC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.48, C:0.22, G:0.05, T:0.25
Consensus pattern (41 bp):
TCGTAACACCAACTTAACTAAAAACATAATACACACAATTA
Found at i:49973980 original size:21 final size:19
Alignment explanation
Indices: 49973939--49973981 Score: 50
Period size: 21 Copynumber: 2.2 Consensus size: 19
49973929 GTTACAATTG
* *
49973939 AGTTAAACATTTTTAATCA
1 AGTTAAACATTTTAAAACA
49973958 AGTTAAAACTATTTTAAAACA
1 AGTT-AAAC-ATTTTAAAACA
49973979 AGT
1 AGT
49973982 CAGCGTTGCT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 4 0.20
20 4 0.20
21 12 0.60
ACGTcount: A:0.47, C:0.09, G:0.07, T:0.37
Consensus pattern (19 bp):
AGTTAAACATTTTAAAACA
Found at i:50004175 original size:18 final size:19
Alignment explanation
Indices: 50004149--50004191 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
50004139 AAATTATAAA
*
50004149 AAAATTAT-AAGAATCT-T
1 AAAATTATAAAGAAACTGT
50004166 AAAATATATAAAGAAACTGT
1 AAAAT-TATAAAGAAACTGT
50004186 AAAATT
1 AAAATT
50004192 TTGTAAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 5 0.23
18 3 0.14
19 8 0.36
20 6 0.27
ACGTcount: A:0.58, C:0.05, G:0.07, T:0.30
Consensus pattern (19 bp):
AAAATTATAAAGAAACTGT
Found at i:50004539 original size:4 final size:4
Alignment explanation
Indices: 50004523--50004560 Score: 58
Period size: 4 Copynumber: 9.5 Consensus size: 4
50004513 CTATAGTGAA
* *
50004523 TATG TATG CATG TATG TATG TGTG TATG TATG TATG TA
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TA
50004561 ATACTCCCCA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.24, C:0.03, G:0.26, T:0.47
Consensus pattern (4 bp):
TATG
Found at i:50004720 original size:9 final size:9
Alignment explanation
Indices: 50004622--50004764 Score: 60
Period size: 10 Copynumber: 14.9 Consensus size: 9
50004612 CTCTACTTGA
50004622 TTTTATAATT
1 TTTTATAA-T
50004632 TTTTATAAT
1 TTTTATAAT
* *
50004641 ATCTTTTTACAA
1 -T-TTTATA-AT
50004653 TTTTAT-AT
1 TTTTATAAT
* *
50004661 ATTTACAA-
1 TTTTATAAT
50004669 TTTTATAAAT
1 TTTTAT-AAT
50004679 TATTTA-AGATT
1 T-TTTATA-A-T
50004690 TTTTATAAT
1 TTTTATAAT
* *
50004699 TTTTGTGATT
1 TTTTAT-AAT
50004709 TTTTATAAT
1 TTTTATAAT
50004718 TTTT-TCAAT
1 TTTTAT-AAT
*
50004727 TTTTAATAAA
1 TTTT-ATAAT
* *
50004737 ATTTAAATAT
1 TTTTATA-AT
50004747 TTTATATAAT
1 TTT-TATAAT
50004757 TTTTATAA
1 TTTTATAA
50004765 AATTTTAATA
Statistics
Matches: 99, Mismatches: 18, Indels: 33
0.66 0.12 0.22
Matches are distributed among these distances:
8 10 0.10
9 31 0.31
10 40 0.40
11 17 0.17
12 1 0.01
ACGTcount: A:0.35, C:0.03, G:0.02, T:0.60
Consensus pattern (9 bp):
TTTTATAAT
Found at i:50004728 original size:19 final size:19
Alignment explanation
Indices: 50004687--50004735 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
50004677 ATTATTTAAG
*
50004687 ATTTTTTATAATTTTTGTG
1 ATTTTTTATAATTTTTGTA
50004706 ATTTTTTATAATTTTT-TCA
1 ATTTTTTATAATTTTTGT-A
*
50004725 ATTTTTAATAA
1 ATTTTTTATAA
50004736 AATTTAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
18 1 0.04
19 26 0.96
ACGTcount: A:0.29, C:0.02, G:0.04, T:0.65
Consensus pattern (19 bp):
ATTTTTTATAATTTTTGTA
Found at i:50004748 original size:29 final size:29
Alignment explanation
Indices: 50004724--50004792 Score: 102
Period size: 30 Copynumber: 2.3 Consensus size: 29
50004714 TAATTTTTTC
50004724 AATTTTTAATAAAATTTAAATATTTTATAT
1 AATTTTT-ATAAAATTTAAATATTTTATAT
*
50004754 AATTTTTATAAAATTTTAATATTTTAATAT
1 AATTTTTATAAAATTTAAATATTTT-ATAT
*
50004784 AAATTTTAT
1 AATTTTTAT
50004793 TGATTTTTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
29 17 0.47
30 19 0.53
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (29 bp):
AATTTTTATAAAATTTAAATATTTTATAT
Found at i:50004760 original size:30 final size:31
Alignment explanation
Indices: 50004724--50004791 Score: 104
Period size: 29 Copynumber: 2.3 Consensus size: 31
50004714 TAATTTTTTC
50004724 AATTTTTAATAAAATTTAAATATTTT-ATAT
1 AATTTTTAATAAAATTTAAATATTTTAATAT
*
50004754 AATTTTT-ATAAAATTTTAATATTTTAATAT
1 AATTTTTAATAAAATTTAAATATTTTAATAT
*
50004784 AAATTTTA
1 AATTTTTA
50004792 TTGATTTTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
29 17 0.50
30 17 0.50
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (31 bp):
AATTTTTAATAAAATTTAAATATTTTAATAT
Found at i:50006931 original size:18 final size:18
Alignment explanation
Indices: 50006908--50006944 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
50006898 AAATAATGTT
50006908 GTAGGGGTAGAAGTAGGG
1 GTAGGGGTAGAAGTAGGG
*
50006926 GTAGGGGTAGAGGTAGGG
1 GTAGGGGTAGAAGTAGGG
50006944 G
1 G
50006945 CCTCTTTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.24, C:0.00, G:0.59, T:0.16
Consensus pattern (18 bp):
GTAGGGGTAGAAGTAGGG
Found at i:50007627 original size:66 final size:66
Alignment explanation
Indices: 50007521--50007653 Score: 266
Period size: 66 Copynumber: 2.0 Consensus size: 66
50007511 CTTTTTCTTG
50007521 AGGGACGTGTGAGAAAAGTTATGTAAGAGTTCTGAGATAAAAAACCAAGAGATACACTTGTGAGG
1 AGGGACGTGTGAGAAAAGTTATGTAAGAGTTCTGAGATAAAAAACCAAGAGATACACTTGTGAGG
50007586 T
66 T
50007587 AGGGACGTGTGAGAAAAGTTATGTAAGAGTTCTGAGATAAAAAACCAAGAGATACACTTGTGAGG
1 AGGGACGTGTGAGAAAAGTTATGTAAGAGTTCTGAGATAAAAAACCAAGAGATACACTTGTGAGG
50007652 T
66 T
50007653 A
1 A
50007654 TTGAGGAAAA
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
66 67 1.00
ACGTcount: A:0.40, C:0.09, G:0.29, T:0.23
Consensus pattern (66 bp):
AGGGACGTGTGAGAAAAGTTATGTAAGAGTTCTGAGATAAAAAACCAAGAGATACACTTGTGAGG
T
Found at i:50008818 original size:37 final size:38
Alignment explanation
Indices: 50008738--50008818 Score: 87
Period size: 37 Copynumber: 2.2 Consensus size: 38
50008728 TTACAATCTC
* * * *
50008738 CCTT-AAGATTTCTACCCAAAATCTTAAGATTGCAACT
1 CCTTCAAGGTTTCTACCCAAAACCTTAAGACTGCAACA
50008775 CCTTCAAGGTTTCTACCC-AAACCTTAAGACT-CAAACA
1 CCTTCAAGGTTTCTACCCAAAACCTTAAGACTGC-AACA
*
50008812 CTTTCAA
1 CCTTCAA
50008819 AGAGTAAATA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
36 1 0.03
37 24 0.65
38 12 0.32
ACGTcount: A:0.35, C:0.28, G:0.07, T:0.30
Consensus pattern (38 bp):
CCTTCAAGGTTTCTACCCAAAACCTTAAGACTGCAACA
Found at i:50014708 original size:26 final size:26
Alignment explanation
Indices: 50014676--50014730 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
50014666 CATCTTTCCT
50014676 TAAATTATTTTCATGGAAACCCTAGC
1 TAAATTATTTTCATGGAAACCCTAGC
50014702 TAAATTATTTTCATGGAAACCCTAGC
1 TAAATTATTTTCATGGAAACCCTAGC
50014728 TAA
1 TAA
50014731 GGGAAAAGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.36, C:0.18, G:0.11, T:0.35
Consensus pattern (26 bp):
TAAATTATTTTCATGGAAACCCTAGC
Found at i:50020585 original size:22 final size:23
Alignment explanation
Indices: 50020557--50020609 Score: 60
Period size: 21 Copynumber: 2.5 Consensus size: 23
50020547 TTCGTGTAAC
50020557 TAAATTGTATAT-TTATATGTTT
1 TAAATTGTATATGTTATATGTTT
*
50020579 TAAATTG-A-ATGTTATGTGTTT
1 TAAATTGTATATGTTATATGTTT
*
50020600 GAAA-TGTATA
1 TAAATTGTATA
50020610 AGTGCCATGT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
20 4 0.15
21 14 0.54
22 8 0.31
ACGTcount: A:0.34, C:0.00, G:0.15, T:0.51
Consensus pattern (23 bp):
TAAATTGTATATGTTATATGTTT
Found at i:50021100 original size:25 final size:25
Alignment explanation
Indices: 50021046--50021108 Score: 65
Period size: 25 Copynumber: 2.5 Consensus size: 25
50021036 ATGGCTTTTT
* *
50021046 AGAGCTTCCCATTACATGGCTCACA
1 AGAGCTTCCCGTTACAAGGCTCACA
* *
50021071 TGAGCTTCCCGTTATAAGGCTCGA-A
1 AGAGCTTCCCGTTACAAGGCTC-ACA
*
50021096 AGAGCTTTCCGTT
1 AGAGCTTCCCGTT
50021109 TATATGCTCA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
25 30 0.97
26 1 0.03
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.29
Consensus pattern (25 bp):
AGAGCTTCCCGTTACAAGGCTCACA
Found at i:50028168 original size:45 final size:45
Alignment explanation
Indices: 50028104--50028193 Score: 171
Period size: 45 Copynumber: 2.0 Consensus size: 45
50028094 AATCAACACA
*
50028104 AGCTTGACTGAATGCTCCCTCTTATCTAATGGTTATTTTTAGGTT
1 AGCTTGACTAAATGCTCCCTCTTATCTAATGGTTATTTTTAGGTT
50028149 AGCTTGACTAAATGCTCCCTCTTATCTAATGGTTATTTTTAGGTT
1 AGCTTGACTAAATGCTCCCTCTTATCTAATGGTTATTTTTAGGTT
50028194 TTGAAACAAG
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.21, C:0.18, G:0.17, T:0.44
Consensus pattern (45 bp):
AGCTTGACTAAATGCTCCCTCTTATCTAATGGTTATTTTTAGGTT
Found at i:50028616 original size:17 final size:18
Alignment explanation
Indices: 50028594--50028628 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
50028584 TAAAAGCGGA
50028594 CTATTA-CAGAACCTATG
1 CTATTATCAGAACCTATG
*
50028611 CTATTATCCGAACCTATG
1 CTATTATCAGAACCTATG
50028629 TTGTTGCGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.31, C:0.26, G:0.11, T:0.31
Consensus pattern (18 bp):
CTATTATCAGAACCTATG
Found at i:50029940 original size:23 final size:23
Alignment explanation
Indices: 50029914--50029963 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
50029904 ACTCAATAAA
*
50029914 TTTTTCT-AAAAAATTTGAATAG
1 TTTTTCTCAAAAAATATGAATAG
*
50029936 TTTTTCTCAAAGAATATGAATAG
1 TTTTTCTCAAAAAATATGAATAG
50029959 TTTTT
1 TTTTT
50029964 ATATATATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 7 0.28
23 18 0.72
ACGTcount: A:0.36, C:0.06, G:0.10, T:0.48
Consensus pattern (23 bp):
TTTTTCTCAAAAAATATGAATAG
Found at i:50030520 original size:27 final size:28
Alignment explanation
Indices: 50030484--50030543 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 28
50030474 TTAACAAAAG
* *
50030484 TTAATTTA-TTATTTACAAAT-AAATAAT
1 TTAATCTATTTATTT-CAAATAAAATAAA
*
50030511 TTAATCTATTTATTTTAAATAAAATAAA
1 TTAATCTATTTATTTCAAATAAAATAAA
50030539 TTAAT
1 TTAAT
50030544 ACAATTATCT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 11 0.39
28 17 0.61
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (28 bp):
TTAATCTATTTATTTCAAATAAAATAAA
Found at i:50030523 original size:28 final size:27
Alignment explanation
Indices: 50030484--50030566 Score: 69
Period size: 28 Copynumber: 2.9 Consensus size: 27
50030474 TTAACAAAAG
* *
50030484 TTAATTTATTATTTACAAAT-AAATAAT
1 TTAATCTATTATTT-CAAATAAAATAAA
*
50030511 TTAATCTATTTATTTTAAATAAAATAAA
1 TTAATCTA-TTATTTCAAATAAAATAAA
* *
50030539 TTAATACAATTATCTCAAAATTAAAATA
1 TTAAT-CTATTATTTC-AAA-TAAAATA
50030567 TGAATATTTT
Statistics
Matches: 45, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
27 11 0.24
28 22 0.49
29 5 0.11
30 7 0.16
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (27 bp):
TTAATCTATTATTTCAAATAAAATAAA
Found at i:50030691 original size:19 final size:20
Alignment explanation
Indices: 50030656--50030693 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
50030646 ATAATAAAAA
50030656 TAAATAAAAGAATAATTTTT
1 TAAATAAAAGAATAATTTTT
50030676 TAAA-AAAA-AATCAATTTT
1 TAAATAAAAGAAT-AATTTT
50030694 AACTTTTCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 3 0.18
19 10 0.59
20 4 0.24
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.37
Consensus pattern (20 bp):
TAAATAAAAGAATAATTTTT
Found at i:50040370 original size:18 final size:18
Alignment explanation
Indices: 50040347--50040389 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
50040337 ACCCAATCTA
**
50040347 AACCCAAGTATTCAACCC
1 AACCCAAGTACCCAACCC
*
50040365 AACCCAATTACCCAACCC
1 AACCCAAGTACCCAACCC
50040383 AACCCAA
1 AACCCAA
50040390 TCATAAAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.42, C:0.44, G:0.02, T:0.12
Consensus pattern (18 bp):
AACCCAAGTACCCAACCC
Found at i:50040532 original size:27 final size:27
Alignment explanation
Indices: 50040497--50040572 Score: 116
Period size: 27 Copynumber: 2.8 Consensus size: 27
50040487 GTAGTGATTC
* *
50040497 AATTTGGTTAATTCGGGTAATTCAGTT
1 AATTCGGTTAATTTGGGTAATTCAGTT
*
50040524 AATTCGGTTAATTTGGGTAATTCGGTT
1 AATTCGGTTAATTTGGGTAATTCAGTT
*
50040551 AATTCGGTTAATTTGGTTAATT
1 AATTCGGTTAATTTGGGTAATT
50040573 TTTAACCAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 45 1.00
ACGTcount: A:0.25, C:0.07, G:0.22, T:0.46
Consensus pattern (27 bp):
AATTCGGTTAATTTGGGTAATTCAGTT
Found at i:50040573 original size:9 final size:9
Alignment explanation
Indices: 50040497--50040572 Score: 98
Period size: 9 Copynumber: 8.4 Consensus size: 9
50040487 GTAGTGATTC
*
50040497 AATTTGGTT
1 AATTCGGTT
*
50040506 AATTCGGGT
1 AATTCGGTT
*
50040515 AATTCAGTT
1 AATTCGGTT
50040524 AATTCGGTT
1 AATTCGGTT
* *
50040533 AATTTGGGT
1 AATTCGGTT
50040542 AATTCGGTT
1 AATTCGGTT
50040551 AATTCGGTT
1 AATTCGGTT
*
50040560 AATTTGGTT
1 AATTCGGTT
50040569 AATT
1 AATT
50040573 TTTAACCAAA
Statistics
Matches: 57, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 57 1.00
ACGTcount: A:0.25, C:0.07, G:0.22, T:0.46
Consensus pattern (9 bp):
AATTCGGTT
Found at i:50042491 original size:32 final size:32
Alignment explanation
Indices: 50042455--50042519 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
50042445 GTGAGCTCAA
50042455 TTCTCACATATTTCTTGTAATTTTTATGTTTT
1 TTCTCACATATTTCTTGTAATTTTTATGTTTT
50042487 TTCTCACATATTTCTTGTAATTTTTATGTTTT
1 TTCTCACATATTTCTTGTAATTTTTATGTTTT
50042519 T
1 T
50042520 GAGATCGTTG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.18, C:0.12, G:0.06, T:0.63
Consensus pattern (32 bp):
TTCTCACATATTTCTTGTAATTTTTATGTTTT
Found at i:50043176 original size:40 final size:40
Alignment explanation
Indices: 50043132--50043316 Score: 219
Period size: 40 Copynumber: 4.6 Consensus size: 40
50043122 TAATTATTAT
*
50043132 CTGAATGCACATACGTGCCCCTGTTTGTATTTCGATACCC
1 CTGAATGCACATACGTGCCCTTGTTTGTATTTCGATACCC
* * * * * *
50043172 CTGAATGTACATATGTGTCATTGTTTGTACTTT-GGTAACC
1 CTGAATGCACATACGTGCCCTTGTTTGTA-TTTCGATACCC
* * *
50043212 CTGAATGCACATATGTGCCCCTGTTTGTATTTCGGTACCC
1 CTGAATGCACATACGTGCCCTTGTTTGTATTTCGATACCC
* * * * *
50043252 TTGAATGCACATACATGTCCTTGTTTGTACTTCGATACCA
1 CTGAATGCACATACGTGCCCTTGTTTGTATTTCGATACCC
50043292 CTGAATGCACATACGTGCCCTTGTT
1 CTGAATGCACATACGTGCCCTTGTT
50043317 AGTACTTTGG
Statistics
Matches: 120, Mismatches: 23, Indels: 4
0.82 0.16 0.03
Matches are distributed among these distances:
39 3 0.03
40 114 0.95
41 3 0.03
ACGTcount: A:0.21, C:0.24, G:0.18, T:0.36
Consensus pattern (40 bp):
CTGAATGCACATACGTGCCCTTGTTTGTATTTCGATACCC
Found at i:50043224 original size:80 final size:80
Alignment explanation
Indices: 50043132--50043316 Score: 264
Period size: 80 Copynumber: 2.3 Consensus size: 80
50043122 TAATTATTAT
* **
50043132 CTGAATGCACATACGTGCCCCTGTTTGTATTTCGATACCCCTGAATGTACATATGTGTCATTGTT
1 CTGAATGCACATACGTGCCCCTGTTTGTATTTCGATACCCCTGAATGCACATACATGTCATTGTT
* *
50043197 TGTACTTTGGTAACC-
66 TGTACTTCGAT-ACCA
* * * *
50043212 CTGAATGCACATATGTGCCCCTGTTTGTATTTCGGTACCCTTGAATGCACATACATGTCCTTGTT
1 CTGAATGCACATACGTGCCCCTGTTTGTATTTCGATACCCCTGAATGCACATACATGTCATTGTT
50043277 TGTACTTCGATACCA
66 TGTACTTCGATACCA
*
50043292 CTGAATGCACATACGTGCCCTTGTT
1 CTGAATGCACATACGTGCCCCTGTT
50043317 AGTACTTTGG
Statistics
Matches: 93, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
79 3 0.03
80 90 0.97
ACGTcount: A:0.21, C:0.24, G:0.18, T:0.36
Consensus pattern (80 bp):
CTGAATGCACATACGTGCCCCTGTTTGTATTTCGATACCCCTGAATGCACATACATGTCATTGTT
TGTACTTCGATACCA
Found at i:50044108 original size:54 final size:54
Alignment explanation
Indices: 50044017--50044140 Score: 151
Period size: 54 Copynumber: 2.3 Consensus size: 54
50044007 AGCGTTCAAG
** *
50044017 TCAGTGAGTTACACAGCCAAGCACACGGCCTGGCACACGGGCGTGT-GTGGCAAC
1 TCAGTGAGTTACACAGCCAAGCACACGGCCTAACACACGAGCGTGTAG-GGCAAC
* * * * * *
50044071 TCAGAGAGTTACACGGTCTAGCACACGGCCTAACACACGAGTGTGTAGGGCATC
1 TCAGTGAGTTACACAGCCAAGCACACGGCCTAACACACGAGCGTGTAGGGCAAC
50044125 TCAGTGAGTTACACAG
1 TCAGTGAGTTACACAG
50044141 GTGAAGACAC
Statistics
Matches: 58, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
54 57 0.98
55 1 0.02
ACGTcount: A:0.27, C:0.27, G:0.29, T:0.18
Consensus pattern (54 bp):
TCAGTGAGTTACACAGCCAAGCACACGGCCTAACACACGAGCGTGTAGGGCAAC
Found at i:50047014 original size:12 final size:11
Alignment explanation
Indices: 50046997--50047035 Score: 51
Period size: 12 Copynumber: 3.4 Consensus size: 11
50046987 TAAATTGTTA
50046997 TATTAATAATAT
1 TATTAATAA-AT
50047009 TATTAATTAAAT
1 TATTAA-TAAAT
*
50047021 TATTATTAAAT
1 TATTAATAAAT
50047032 TATT
1 TATT
50047036 TCATTTGCAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
11 9 0.36
12 13 0.52
13 3 0.12
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (11 bp):
TATTAATAAAT
Found at i:50047030 original size:11 final size:11
Alignment explanation
Indices: 50046997--50047035 Score: 51
Period size: 11 Copynumber: 3.4 Consensus size: 11
50046987 TAAATTGTTA
*
50046997 TATTAATAATAT
1 TATTATTAA-AT
50047009 TATTAATTAAAT
1 TATT-ATTAAAT
50047021 TATTATTAAAT
1 TATTATTAAAT
50047032 TATT
1 TATT
50047036 TCATTTGCAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
11 11 0.44
12 10 0.40
13 4 0.16
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (11 bp):
TATTATTAAAT
Found at i:50054174 original size:28 final size:26
Alignment explanation
Indices: 50054134--50054185 Score: 77
Period size: 28 Copynumber: 1.9 Consensus size: 26
50054124 CTGAACTTGA
50054134 TTTTTTTTTCAATTTGATACCTAAGT
1 TTTTTTTTTCAATTTGATACCTAAGT
*
50054160 TTTTTTTGGTTCAATTTGATATCTAA
1 TTTTTTT--TTCAATTTGATACCTAA
50054186 ATTTATTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 7 0.30
28 16 0.70
ACGTcount: A:0.23, C:0.10, G:0.10, T:0.58
Consensus pattern (26 bp):
TTTTTTTTTCAATTTGATACCTAAGT
Found at i:50054662 original size:30 final size:30
Alignment explanation
Indices: 50054618--50054680 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
50054608 ACTCAACAAG
*
50054618 CAAATGTCTCTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
*
50054648 CAAATGCCTTTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
50054678 CAA
1 CAA
50054681 TAAAATAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.57, C:0.14, G:0.03, T:0.25
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAACAAAATTAA
Found at i:50054735 original size:22 final size:22
Alignment explanation
Indices: 50054710--50054752 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
50054700 TATCCAAATA
50054710 ATAACA-ACAAAATAGTAGCAAC
1 ATAACAGA-AAAATAGTAGCAAC
*
50054732 ATAATAGAAAAATAGTAGCAA
1 ATAACAGAAAAATAGTAGCAA
50054753 AATAGGGAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 18 0.95
23 1 0.05
ACGTcount: A:0.60, C:0.12, G:0.12, T:0.16
Consensus pattern (22 bp):
ATAACAGAAAAATAGTAGCAAC
Found at i:50054756 original size:11 final size:11
Alignment explanation
Indices: 50054717--50054757 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
50054707 ATAATAACAA
50054717 CAAAATAGTAG
1 CAAAATAGTAG
* *
50054728 CAACATAATAG
1 CAAAATAGTAG
*
50054739 AAAAATAGTAG
1 CAAAATAGTAG
50054750 CAAAATAG
1 CAAAATAG
50054758 GGAGAAAACA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.59, C:0.10, G:0.15, T:0.17
Consensus pattern (11 bp):
CAAAATAGTAG
Found at i:50054765 original size:22 final size:22
Alignment explanation
Indices: 50054718--50054765 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
50054708 TAATAACAAC
* *
50054718 AAAATAGTAGCAACATAATAGA
1 AAAATAGTAGCAAAATAAGAGA
*
50054740 AAAATAGTAGCAAAATAGGGAGA
1 AAAATAGTAGCAAAATA-AGAGA
50054763 AAA
1 AAA
50054766 CAACAAGAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 16 0.73
23 6 0.27
ACGTcount: A:0.60, C:0.06, G:0.19, T:0.15
Consensus pattern (22 bp):
AAAATAGTAGCAAAATAAGAGA
Found at i:50058210 original size:5 final size:5
Alignment explanation
Indices: 50058202--50058227 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
50058192 CCGGCCCTTT
50058202 AATAA AATAA AATAA AATAA AATAA A
1 AATAA AATAA AATAA AATAA AATAA A
50058228 CAATTAAACA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:50059511 original size:3 final size:3
Alignment explanation
Indices: 50059505--50059564 Score: 111
Period size: 3 Copynumber: 20.0 Consensus size: 3
50059495 TATTAACCTT
*
50059505 TTA TTA TTA TTA TTA TTA TTA TTA CTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
50059553 TTA TTA TTA TTA
1 TTA TTA TTA TTA
50059565 CTTACTAACT
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:50061259 original size:15 final size:15
Alignment explanation
Indices: 50061233--50061267 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
50061223 ATTTTAGTCT
50061233 ATTTTTTAATTTTAA
1 ATTTTTTAATTTTAA
50061248 ACTTTTTT-ATTTTAA
1 A-TTTTTTAATTTTAA
50061263 ATTTT
1 ATTTT
50061268 CAAAATTTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
14 4 0.21
15 9 0.47
16 6 0.32
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.69
Consensus pattern (15 bp):
ATTTTTTAATTTTAA
Found at i:50063879 original size:16 final size:18
Alignment explanation
Indices: 50063853--50063885 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
50063843 ATTAATTAAC
50063853 TAAATTAA-TTTCTCAAT
1 TAAATTAATTTTCTCAAT
50063870 TAAA-TAATTTTCTCAA
1 TAAATTAATTTTCTCAA
50063886 CCCAATTCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.45
Consensus pattern (18 bp):
TAAATTAATTTTCTCAAT
Found at i:50068928 original size:33 final size:33
Alignment explanation
Indices: 50068885--50068947 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
50068875 TATACATATA
*
50068885 TAATACATAATAAA-TAATC-TTTCACAAATTAAG
1 TAATAAATAATAAACTAA-CATTT-ACAAATTAAG
50068918 TAATAAATAATAAACTAACATTTACAAATT
1 TAATAAATAATAAACTAACATTTACAAATT
50068948 TATATAATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
33 21 0.78
34 6 0.22
ACGTcount: A:0.54, C:0.11, G:0.02, T:0.33
Consensus pattern (33 bp):
TAATAAATAATAAACTAACATTTACAAATTAAG
Found at i:50069647 original size:16 final size:17
Alignment explanation
Indices: 50069628--50069673 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
50069618 ATTTTCAAAA
50069628 TTTTGAA-TTTTAATTT
1 TTTTGAATTTTTAATTT
*
50069644 TTTTGAATTTTTTATTT
1 TTTTGAATTTTTAATTT
50069661 TTTT-AATCTTTTA
1 TTTTGAAT-TTTTA
50069674 GAATAACTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
16 10 0.38
17 16 0.62
ACGTcount: A:0.22, C:0.02, G:0.04, T:0.72
Consensus pattern (17 bp):
TTTTGAATTTTTAATTT
Found at i:50069660 original size:17 final size:17
Alignment explanation
Indices: 50069628--50069673 Score: 60
Period size: 16 Copynumber: 2.8 Consensus size: 17
50069618 ATTTTCAAAA
*
50069628 TTTTGAA-TTTTAATTT
1 TTTTGAATTTTTTATTT
50069644 TTTTGAATTTTTTATTT
1 TTTTGAATTTTTTATTT
*
50069661 TTTT-AATCTTTTA
1 TTTTGAATTTTTTA
50069674 GAATAACTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
16 15 0.56
17 12 0.44
ACGTcount: A:0.22, C:0.02, G:0.04, T:0.72
Consensus pattern (17 bp):
TTTTGAATTTTTTATTT
Found at i:50086680 original size:49 final size:47
Alignment explanation
Indices: 50086623--50086717 Score: 147
Period size: 49 Copynumber: 2.0 Consensus size: 47
50086613 TTTAATATGT
*
50086623 TTAGTTTAATTAATTCAGTTGTTTT-AATTTTCTTTAGTTGCTTAAATAC
1 TTAGTTTAATTAATTAAGTTGTTTTGAA--TT-TTTAGTTGCTTAAATAC
50086672 TTAGTTTAATTAATTAAGTTGTTTTGAATTTTTAGTTGCTTAAATA
1 TTAGTTTAATTAATTAAGTTGTTTTGAATTTTTAGTTGCTTAAATA
50086718 ATTTTGGCAT
Statistics
Matches: 44, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
47 16 0.36
48 2 0.05
49 24 0.55
50 2 0.05
ACGTcount: A:0.28, C:0.05, G:0.12, T:0.55
Consensus pattern (47 bp):
TTAGTTTAATTAATTAAGTTGTTTTGAATTTTTAGTTGCTTAAATAC
Found at i:50099251 original size:15 final size:14
Alignment explanation
Indices: 50099230--50099265 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
50099220 ACAATCCTTA
*
50099230 ATAATTATCTTAAT
1 ATAATTATCCTAAT
50099244 ATTAATTATCCTAAT
1 A-TAATTATCCTAAT
50099259 ATAATTA
1 ATAATTA
50099266 AAATAGAGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.47
Consensus pattern (14 bp):
ATAATTATCCTAAT
Found at i:50115949 original size:29 final size:29
Alignment explanation
Indices: 50115906--50115964 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
50115896 TCTTCTTACT
*
50115906 ATAAAATTTTTAGAATTTTTGGTTTAGCC
1 ATAAAATTTTCAGAATTTTTGGTTTAGCC
50115935 ATAAAATTTTCAGAATTTTTGGTTTAGCC
1 ATAAAATTTTCAGAATTTTTGGTTTAGCC
50115964 A
1 A
50115965 ATAAGTACAG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.32, C:0.08, G:0.14, T:0.46
Consensus pattern (29 bp):
ATAAAATTTTCAGAATTTTTGGTTTAGCC
Found at i:50123759 original size:33 final size:33
Alignment explanation
Indices: 50123722--50123863 Score: 109
Period size: 33 Copynumber: 4.2 Consensus size: 33
50123712 TTCCGCACTT
50123722 AGCAACCACCAATGAATCGGGGAATCAGCACAC
1 AGCAACCACCAATGAATCGGGGAATCAGCACAC
*
50123755 AGCAACC-CC--T---TGGGGGAATCAGCAC-C
1 AGCAACCACCAATGAATCGGGGAATCAGCACAC
* **
50123781 TAGCAACCACCTTCACATTTCAGATGCGGTGGAATCAGCACTT
1 -AGCAACCA-C--CA-A--TGA-AT-CGG-GGAATCAGCACAC
50123824 AGCAACCACCAATGAATCGGGGAATCAGCACAC
1 AGCAACCACCAATGAATCGGGGAATCAGCACAC
50123857 AGCAACC
1 AGCAACC
50123864 CCTTTATATG
Statistics
Matches: 86, Mismatches: 6, Indels: 34
0.68 0.05 0.27
Matches are distributed among these distances:
26 1 0.01
27 21 0.24
29 1 0.01
30 1 0.01
31 1 0.01
32 2 0.02
33 25 0.29
34 3 0.03
35 2 0.02
36 3 0.03
38 1 0.01
39 2 0.02
40 1 0.01
41 3 0.03
42 19 0.22
ACGTcount: A:0.34, C:0.31, G:0.21, T:0.14
Consensus pattern (33 bp):
AGCAACCACCAATGAATCGGGGAATCAGCACAC
Found at i:50123774 original size:27 final size:28
Alignment explanation
Indices: 50123740--50123793 Score: 85
Period size: 27 Copynumber: 2.0 Consensus size: 28
50123730 CCAATGAATC
50123740 GGGGAATCAGCACAC-AGCAACC-CCTTG
1 GGGGAATCAGCAC-CTAGCAACCACCTTG
50123767 GGGGAATCAGCACCTAGCAACCACCTT
1 GGGGAATCAGCACCTAGCAACCACCTT
50123794 CACATTTCAG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
26 1 0.04
27 20 0.80
28 4 0.16
ACGTcount: A:0.30, C:0.33, G:0.24, T:0.13
Consensus pattern (28 bp):
GGGGAATCAGCACCTAGCAACCACCTTG
Found at i:50126754 original size:114 final size:113
Alignment explanation
Indices: 50126562--50127133 Score: 376
Period size: 114 Copynumber: 5.1 Consensus size: 113
50126552 CGCAAAATAT
* * * * * *
50126562 AAGCAATAGCGGCGCTTCCCCAAAAGCACCGCAAAAGAGTTAAGCCAAATGATGTCGTTTTCTTG
1 AAGCATTAGCGGCGCTTTCTCAAAAGC-GCGCAAAAGAGTTAAGCCAAACGATGTCGTTTACTTG
**
50126627 TTGCGCTTCAAAGACATTAGTGGTGCCTTT-AAAAAAAGCCACAAAAGTC
65 TTAAGCTTCAAAGACATTAGTGGTG-CTTTCAAAAAAAGCCACAAAAGTC
*
50126676 AAGCATTAGCGGCGCTTTCTCAAAAGCGTCGCAAAAGAGTTAAGCCAAACGATGTTGTTTACTTG
1 AAGCATTAGCGGCGCTTTCTCAAAAGCG-CGCAAAAGAGTTAAGCCAAACGATGTCGTTTACTTG
* * * *
50126741 TTAAGCTTCAAAGACGTTAGTGGTGCTTTCAAGAAACGCCGCAAAAGTC
65 TTAAGCTTCAAAGACATTAGTGGTGCTTTCAAAAAAAGCCACAAAAGTC
* * * **
50126790 AAGTATTAGCGGCACTTTCTCAAAAGCGCTGCAAAAG-TTCTAAG-CAAACGACATCGTTT--TT
1 AAGCATTAGCGGCGCTTTCTCAAAAGCGC-GCAAAAGAGT-TAAGCCAAACGATGTCGTTTACTT
* * ** * * *
50126851 -TT-AGCTTTAGAGACATTAGTGGCACTTTTTAGAAAACGTCGCA-AAAAGTC
64 GTTAAGCTTCAAAGACATTAGTGGTGC-TTTCAAAAAAAG-C-CACAAAAGTC
* * * ** * **
50126901 AAGTATTA-----G----C-AAAAAGCGTCACAAAAGTTTTAAG-CAAGCGATGTCGTTTTTTTG
1 AAGCATTAGCGGCGCTTTCTCAAAAGCG-CGCAAAAGAGTTAAGCCAAACGATGTCGTTTACTTG
* * ** * *
50126955 TTAAGCTTTAGAGACATTAGTGGCCCTTTTCAAAAAACGCCGCAAAAGTC
65 TTAAGCTTCAAAGACATTAGTGGTGC-TTTCAAAAAAAGCCACAAAAGTC
* * * * * * **
50127005 AAGCAGTAGCGGCCCTTTCCCTAACGCGCCGCAAAAGTGTTAAG-CAAACGACATCGTTTTA-TT
1 AAGCATTAGCGGCGCTTTCTCAAAAGCG-CGCAAAAGAGTTAAGCCAAACGATGTCG-TTTACTT
* * * * * * * *
50127068 TTTTAGCTTTAGAGACATTAGTGGCGCTTTCTAGAAAATGCCGCAAAAGTC
64 GTTAAGCTTCAAAGACATTAGTGGTGCTTTC-AAAAAAAGCCACAAAAGTC
*
50127119 AAGCACTAGCGGCGC
1 AAGCATTAGCGGCGC
50127134 CTTTTGGGTA
Statistics
Matches: 374, Mismatches: 58, Indels: 52
0.77 0.12 0.11
Matches are distributed among these distances:
101 29 0.08
102 4 0.01
103 3 0.01
104 16 0.04
105 33 0.09
109 18 0.05
110 11 0.03
111 18 0.05
112 1 0.00
113 23 0.06
114 215 0.57
115 3 0.01
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (113 bp):
AAGCATTAGCGGCGCTTTCTCAAAAGCGCGCAAAAGAGTTAAGCCAAACGATGTCGTTTACTTGT
TAAGCTTCAAAGACATTAGTGGTGCTTTCAAAAAAAGCCACAAAAGTC
Found at i:50126993 original size:105 final size:100
Alignment explanation
Indices: 50126821--50127007 Score: 257
Period size: 105 Copynumber: 1.8 Consensus size: 100
50126811 AAAAGCGCTG
* *
50126821 CAAAAGTTCTAAGCAAACGACATCGTTTTTTTAGCTTTAGAGACATTAGTGGCACTTTTTAGAAA
1 CAAAAGTTCTAAGCAAACGACATCGTTTTTTTAGCTTTAGAGACATTAGTGGCACTTTTCAAAAA
*
50126886 ACGTCGCAAAAAGTCAAGTATTAGCAAAAAGCGTCA
66 ACGCCGC-AAAAGTCAAGTATTAGCAAAAAGCGTCA
* * ** *
50126922 CAAAAGTTTTAAGCAAGCGATGTCGTTTTTTTGTTAAGCTTTAGAGACATTAGTGGCCCTTTTCA
1 CAAAAGTTCTAAGCAAACGACATCG--TTTTT-TT-AGCTTTAGAGACATTAGTGGCACTTTTCA
50126987 AAAAACGCCGCAAAAGTCAAG
62 AAAAACGCCGCAAAAGTCAAG
50127008 CAGTAGCGGC
Statistics
Matches: 74, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
101 21 0.28
103 5 0.07
104 12 0.16
105 36 0.49
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.29
Consensus pattern (100 bp):
CAAAAGTTCTAAGCAAACGACATCGTTTTTTTAGCTTTAGAGACATTAGTGGCACTTTTCAAAAA
ACGCCGCAAAAGTCAAGTATTAGCAAAAAGCGTCA
Found at i:50127017 original size:215 final size:216
Alignment explanation
Indices: 50126697--50127121 Score: 561
Period size: 215 Copynumber: 2.0 Consensus size: 216
50126687 GCGCTTTCTC
* * *
50126697 AAAAGCGTCGCAAAAGAGTTAAGCCAAACGATGTTGTTTACTTGTTAAGCTTCAAAGACGTTAGT
1 AAAAGCGTCACAAAAGAGTTAAGCCAAACGATGTCGTTTACTTGTTAAGCTTCAAAGACATTAGT
** * * * * *
50126762 GGTGCTTTCAAGAAACGCCGCAAAAGTCAAGTATTAGCGGCACTTTCTCAAAAGCGCTGCAAAAG
66 GGCCCTTTCAAAAAACGCCGCAAAAGTCAAGCAGTAGCGGCACTTTCCCAAAAGCGCCGCAAAAG
*
50126827 T-TCTAAGCAAACGACATCG-T-TTTTTTAGCTTTAGAGACATTAGTGGCACTTTTTAGAAAACG
131 TGT-TAAGCAAACGACATCGTTATTTTTTAGCTTTAGAGACATTAGTGGCACTTTCTAGAAAACG
*
50126889 TCGCAAAAAGTCAAGTATTAGCA
195 CCGC-AAAAGTCAAGTATTAGCA
** * ** * *
50126912 AAAAGCGTCACAAAAGTTTTAAG-CAAGCGATGTCGTTTTTTTGTTAAGCTTTAGAGACATTAGT
1 AAAAGCGTCACAAAAGAGTTAAGCCAAACGATGTCGTTTACTTGTTAAGCTTCAAAGACATTAGT
* * *
50126976 GGCCCTTTTCAAAAAACGCCGCAAAAGTCAAGCAGTAGCGGCCCTTTCCCTAACGCGCCGCAAAA
66 GGCCC-TTTCAAAAAACGCCGCAAAAGTCAAGCAGTAGCGGCACTTTCCCAAAAGCGCCGCAAAA
*
50127041 GTGTTAAGCAAACGACATCGTTTTATTTTTTAGCTTTAGAGACATTAGTGGCGCTTTCTAGAAAA
130 GTGTTAAGCAAACGACATCG--TTATTTTTTAGCTTTAGAGACATTAGTGGCACTTTCTAGAAAA
*
50127106 TGCCGCAAAAGTCAAG
193 CGCCGCAAAAGTCAAG
50127122 CACTAGCGGC
Statistics
Matches: 180, Mismatches: 24, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
214 37 0.21
215 89 0.49
216 1 0.01
218 11 0.06
219 42 0.23
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.27
Consensus pattern (216 bp):
AAAAGCGTCACAAAAGAGTTAAGCCAAACGATGTCGTTTACTTGTTAAGCTTCAAAGACATTAGT
GGCCCTTTCAAAAAACGCCGCAAAAGTCAAGCAGTAGCGGCACTTTCCCAAAAGCGCCGCAAAAG
TGTTAAGCAAACGACATCGTTATTTTTTAGCTTTAGAGACATTAGTGGCACTTTCTAGAAAACGC
CGCAAAAGTCAAGTATTAGCA
Found at i:50127148 original size:114 final size:112
Alignment explanation
Indices: 50126922--50127241 Score: 342
Period size: 114 Copynumber: 2.8 Consensus size: 112
50126912 AAAAGCGTCA
* ** * *
50126922 CAAAAGTTTTAAGCAAGCGATGTCGTTTTTTTGTTAAGCTTTAGAGACATTAGTGGCCCTTTTCA
1 CAAAAGTTTTAAGCAAACGACATCGTTTTTTT-TTTAGCTTTAGAGACATTAGTGGCGCTTTT-A
* *
50126987 AAAAACGCCGCAAAAGTCAAGCAGTAGCGGCCCTTTCCCTAACGCGCCG
64 GAAAACGCCGCAAAAGTCAAGCACTAGCGGCCCTTTCCCTAACGCGCCG
*
50127036 CAAAAGTGTTAAGCAAACGACATCGTTTTATTTTTTAGCTTTAGAGACATTAGTGGCGCTTTCTA
1 CAAAAGTTTTAAGCAAACGACATCGTTTT-TTTTTTAGCTTTAGAGACATTAGTGGCGCTTT-TA
* ***
50127101 GAAAATGCCGCAAAAGTCAAGCACTAGCGGCGCCTTTTGGGT-A-GCGCCG
64 GAAAACGCCGCAAAAGTCAAGCACTAGCGGC-CC-TTTCCCTAACGCGCCG
* * * * * *
50127150 CAGAAGTTTTTAAGCGAACGACGA-C-ATTTTTTTTTAACTTTAGACACATTAATGGCGCTTTTA
1 CAAAAG-TTTTAAGCAAACGAC-ATCGTTTTTTTTTTAGCTTTAGAGACATTAGTGGCGCTTTTA
* * *
50127213 GAAAAACGCCGTAGAAGTCAAGCATTAGC
64 G-AAAACGCCGCAAAAGTCAAGCACTAGC
50127242 TGTGCTTTTT
Statistics
Matches: 176, Mismatches: 23, Indels: 15
0.82 0.11 0.07
Matches are distributed among these distances:
112 3 0.02
113 52 0.30
114 95 0.54
115 21 0.12
116 5 0.03
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (112 bp):
CAAAAGTTTTAAGCAAACGACATCGTTTTTTTTTTAGCTTTAGAGACATTAGTGGCGCTTTTAGA
AAACGCCGCAAAAGTCAAGCACTAGCGGCCCTTTCCCTAACGCGCCG
Found at i:50127420 original size:39 final size:39
Alignment explanation
Indices: 50127377--50127462 Score: 129
Period size: 39 Copynumber: 2.2 Consensus size: 39
50127367 ATTTAAGGAA
* *
50127377 GGTTT-AGAGTTTAGAGTTTATATATGTTTTATGATTTAG
1 GGTTTAAG-GTTTAGAGTTTATATATGTTCTATGATTCAG
*
50127416 GGTTTAAGGTTTATAGTTTATATATGTTCTATGATTCAG
1 GGTTTAAGGTTTAGAGTTTATATATGTTCTATGATTCAG
50127455 GGTTTAAG
1 GGTTTAAG
50127463 TGATATGGGT
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
39 41 0.95
40 2 0.05
ACGTcount: A:0.26, C:0.02, G:0.23, T:0.49
Consensus pattern (39 bp):
GGTTTAAGGTTTAGAGTTTATATATGTTCTATGATTCAG
Found at i:50127482 original size:22 final size:22
Alignment explanation
Indices: 50127453--50127502 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
50127443 TCTATGATTC
50127453 AGGGTTTAAGTGA-TATGGGTTA
1 AGGGTTTAAG-GATTATGGGTTA
* *
50127475 GGGGTTTAAGGATTATGGTTTA
1 AGGGTTTAAGGATTATGGGTTA
50127497 AGGGTT
1 AGGGTT
50127503 AGGGTTTAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 2 0.08
22 22 0.92
ACGTcount: A:0.24, C:0.00, G:0.38, T:0.38
Consensus pattern (22 bp):
AGGGTTTAAGGATTATGGGTTA
Found at i:50127519 original size:14 final size:14
Alignment explanation
Indices: 50127476--50127512 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
50127466 TATGGGTTAG
50127476 GGGTTTAAGGATTA
1 GGGTTTAAGGATTA
* *
50127490 TGGTTTAAGGGTTA
1 GGGTTTAAGGATTA
50127504 GGGTTTAAG
1 GGGTTTAAG
50127513 TTTTAGGTGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.24, C:0.00, G:0.38, T:0.38
Consensus pattern (14 bp):
GGGTTTAAGGATTA
Found at i:50127660 original size:121 final size:124
Alignment explanation
Indices: 50127415--50127665 Score: 289
Period size: 121 Copynumber: 2.0 Consensus size: 124
50127405 TTATGATTTA
* * **
50127415 GGGTTTAAGGTTTATAGTTTATATATGTTCTATGATTCAGGGTTTAAGTGATATGGGTTAGGGGT
1 GGGTTTAAGGTTTATAG-TTATATATGTTCTATGATTCAAGGTTTAAGGGATATGGGTTAAAGGT
* * * ** *
50127480 TTAAGGATTATGGTTTAAGGGTTAGGGTTTAAGTTTTAGGTGCTGGAGGTTAAGGGTTAG
65 TTAAGAAATATAGTTTAAGGGTTAGGGTTTAAGGGTTAGGTACTGGAGGTTAAGGGTTAG
* * * *
50127540 GGGTTTAGGGTTTATAG-T-TA-ATGTTTTATGATTCAAGGTTTAGGGGATATGGGTTAAAGTTT
1 GGGTTTAAGGTTTATAGTTATATATGTTCTATGATTCAAGGTTTAAGGGATATGGGTTAAAGGTT
*
50127602 TAAGAAATATAGTTT-AGGGTTTAGGGTTTAAGGGTTA-GTACTTGG-GGTTTAGGTGTTAG
66 TAAGAAATATAGTTTAAGGG-TTAGGGTTTAAGGGTTAGGTAC-TGGAGGTTAAGG-GTTAG
50127661 GGGTT
1 GGGTT
50127666 AAGAGTTAAG
Statistics
Matches: 108, Mismatches: 15, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
120 14 0.13
121 75 0.69
122 2 0.02
123 1 0.01
125 16 0.15
ACGTcount: A:0.24, C:0.02, G:0.33, T:0.41
Consensus pattern (124 bp):
GGGTTTAAGGTTTATAGTTATATATGTTCTATGATTCAAGGTTTAAGGGATATGGGTTAAAGGTT
TAAGAAATATAGTTTAAGGGTTAGGGTTTAAGGGTTAGGTACTGGAGGTTAAGGGTTAG
Found at i:50127678 original size:14 final size:14
Alignment explanation
Indices: 50127656--50127693 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
50127646 GGGTTTAGGT
50127656 GTTAGGGGTTAAGA
1 GTTAGGGGTTAAGA
* *
50127670 GTTAAGGGTTAAGG
1 GTTAGGGGTTAAGA
50127684 GTTAGGGGTT
1 GTTAGGGGTT
50127694 TATAATTTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.45, T:0.32
Consensus pattern (14 bp):
GTTAGGGGTTAAGA
Found at i:50130990 original size:66 final size:66
Alignment explanation
Indices: 50130884--50131021 Score: 249
Period size: 66 Copynumber: 2.1 Consensus size: 66
50130874 ATCAAAAAAG
* *
50130884 GAGGCAGCATCAAGAGAAGCTGAGGTTCAAAGAAAATATGAAGCACTCCAGCTACAACTTAAAGT
1 GAGGCAACATCAAGAGAAGCTGAGGTTCAAAGAAAATATGAAGCACTCCAGCTACAACTTAAAGC
50130949 A
66 A
*
50130950 GAGGCAACATCGAGAGAAGCTGAGGTTCAAAGAAAATATGAAGCACTCCAGCTACAACTTAAAGC
1 GAGGCAACATCAAGAGAAGCTGAGGTTCAAAGAAAATATGAAGCACTCCAGCTACAACTTAAAGC
50131015 A
66 A
50131016 GAGGCA
1 GAGGCA
50131022 GCAGCGTGGG
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
66 69 1.00
ACGTcount: A:0.42, C:0.19, G:0.24, T:0.15
Consensus pattern (66 bp):
GAGGCAACATCAAGAGAAGCTGAGGTTCAAAGAAAATATGAAGCACTCCAGCTACAACTTAAAGC
A
Found at i:50131035 original size:21 final size:21
Alignment explanation
Indices: 50131011--50131060 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
50131001 CTACAACTTA
*
50131011 AAGCAGAGGCAGCAGCGTGGG
1 AAGCAGAGGCAGCAGCGAGGG
*
50131032 AAGCAAAGGCAGCAGCGAGGG
1 AAGCAGAGGCAGCAGCGAGGG
50131053 AAGCAGAG
1 AAGCAGAG
50131061 CAGAGCAGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.36, C:0.18, G:0.44, T:0.02
Consensus pattern (21 bp):
AAGCAGAGGCAGCAGCGAGGG
Found at i:50131431 original size:43 final size:43
Alignment explanation
Indices: 50131384--50131721 Score: 290
Period size: 43 Copynumber: 7.8 Consensus size: 43
50131374 AGAACATTAC
* *
50131384 CTTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTGATGTT
1 CTTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCATGAT
* * * * *
50131427 CTTTAGCGGTGATTGTGGTAAAAAGCGCCGCTAAATGTCATGGT
1 CTTTAGCGGCGTTTGTGAT-AAAAGCGCCGCTAAAGGTCATGAT
* * ***
50131471 CTTTAGCGGCGTTTATGGTGAAAAGCGCCGCTAAAAAACATGA-
1 CTTTAGCGGCGTTTGTGAT-AAAAGCGCCGCTAAAGGTCATGAT
* * * ** * *
50131514 CATTTAGCGGCGTTTGTAACAATAGCGCCGCTAAAGAACATCAC
1 C-TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCATGAT
* * * *
50131558 CTTTAGCGGCATGTATGA-AAAAGCGCCGCTAAAGGTCATGTT
1 CTTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCATGAT
* **
50131600 CTTTAGCGGCG-TT-TGAAAAATTAGCGCCGCTAAAGAACATGAT
1 CTTTAGCGGCGTTTGTGATAAA--AGCGCCGCTAAAGGTCATGAT
* * *
50131643 CTTTAGCGGCGTTTGTGATATAAGCACCGCTAAAGAGGTCATGCT
1 CTTTAGCGGCGTTTGTGATAAAAGCGCCGCT-AA-AGGTCATGAT
*
50131688 CTTTAGCGACGTTTATGTGA-AAAAGCGCCGCTAA
1 CTTTAGCGGCG-TT-TGTGATAAAAGCGCCGCTAA
50131722 TAGCCTGTTT
Statistics
Matches: 238, Mismatches: 45, Indels: 22
0.78 0.15 0.07
Matches are distributed among these distances:
40 3 0.01
41 4 0.02
42 28 0.12
43 87 0.37
44 75 0.32
45 24 0.10
46 12 0.05
47 5 0.02
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.27
Consensus pattern (43 bp):
CTTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCATGAT
Found at i:50131607 original size:85 final size:85
Alignment explanation
Indices: 50131371--50131721 Score: 352
Period size: 85 Copynumber: 4.0 Consensus size: 85
50131361 TAAAGCACTG
* * *
50131371 TAAAGAACATTACCTTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTGATGTTCTTTAGCGG
1 TAAAGAACATGACCTTTAGCGGCGTTTATGATAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGG
*
50131436 TGATTGTGGTAAAA-AGCGCCGC
66 CG-TT-T-GTAAAATAGCGCCGC
* ** * *** *
50131458 TAAATG-TCATGGTCTTTAGCGGCGTTTATGGTGAAAAGCGCCGCTAAAAAACATG-ACATTTAG
1 TAAA-GAACATGACCTTTAGCGGCGTTTATGAT-AAAAGCGCCGCTAAAGGTCATGTTC-TTTAG
50131521 CGGCGTTTGTAACAATAGCGCCGC
63 CGGCGTTTGTAA-AATAGCGCCGC
* * *
50131545 TAAAGAACATCACCTTTAGCGGCATGTATGA-AAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGG
1 TAAAGAACATGACCTTTAGCGGCGTTTATGATAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGG
*
50131609 CGTTTGAAAAATTAGCGCCGC
66 CGTTTGTAAAA-TAGCGCCGC
* * * * *
50131630 TAAAGAACATGATCTTTAGCGGCGTTTGTGATATAAGCACCGCTAAAGAGGTCATGCTCTTTAGC
1 TAAAGAACATGACCTTTAGCGGCGTTTATGATAAAAGCGCCGCT-AA-AGGTCATGTTCTTTAGC
*
50131695 GACGTTTATGTGAAAA-AGCGCCGC
64 GGCG-TT-TGT-AAAATAGCGCCGC
50131719 TAA
1 TAA
50131722 TAGCCTGTTT
Statistics
Matches: 216, Mismatches: 34, Indels: 26
0.78 0.12 0.09
Matches are distributed among these distances:
84 2 0.01
85 74 0.34
86 15 0.07
87 59 0.27
88 47 0.22
89 13 0.06
90 2 0.01
91 4 0.02
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.26
Consensus pattern (85 bp):
TAAAGAACATGACCTTTAGCGGCGTTTATGATAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGG
CGTTTGTAAAATAGCGCCGC
Found at i:50143635 original size:11 final size:11
Alignment explanation
Indices: 50143619--50143648 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
50143609 GTTTGCTTTT
50143619 TAAAAAATAAA
1 TAAAAAATAAA
*
50143630 TTAAAAATAAA
1 TAAAAAATAAA
50143641 TAAAAAAT
1 TAAAAAAT
50143649 TTAAAGGGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (11 bp):
TAAAAAATAAA
Found at i:50147184 original size:30 final size:29
Alignment explanation
Indices: 50147150--50147218 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
50147140 TTTAGATTCC
* * *
50147150 TTAAAAGTTGATAAAAAAAATTTTGGACCT
1 TTAAAAGTT-AAAAAAAAAACTTAGGACCT
* *
50147180 TTAAAAGCTAAAAAAAAAACTTAGGCCCT
1 TTAAAAGTTAAAAAAAAAACTTAGGACCT
50147209 TTAAAAGTTA
1 TTAAAAGTTA
50147219 GTACATTTTT
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
29 25 0.76
30 8 0.24
ACGTcount: A:0.49, C:0.10, G:0.12, T:0.29
Consensus pattern (29 bp):
TTAAAAGTTAAAAAAAAAACTTAGGACCT
Found at i:50162644 original size:13 final size:13
Alignment explanation
Indices: 50162626--50162650 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
50162616 TTTATTAGTG
50162626 AAAGAGTACATAT
1 AAAGAGTACATAT
50162639 AAAGAGTACATA
1 AAAGAGTACATA
50162651 CAAATTTGAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.08, G:0.16, T:0.20
Consensus pattern (13 bp):
AAAGAGTACATAT
Found at i:50162731 original size:20 final size:20
Alignment explanation
Indices: 50162669--50162731 Score: 51
Period size: 20 Copynumber: 3.1 Consensus size: 20
50162659 ATACTAATAT
50162669 ATAATTATGTTCAACCTTTA
1 ATAATTATGTTCAACCTTTA
* *
50162689 ATTGATATTA--TTCAA-ATAATA
1 A-T-A-ATTATGTTCAACCT-TTA
50162710 ATAATTATGTTCAACCTTTA
1 ATAATTATGTTCAACCTTTA
50162730 AT
1 AT
50162732 TATGTTCAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 14
0.64 0.08 0.28
Matches are distributed among these distances:
18 4 0.12
19 1 0.03
20 12 0.38
21 10 0.31
22 1 0.03
23 4 0.12
ACGTcount: A:0.40, C:0.11, G:0.05, T:0.44
Consensus pattern (20 bp):
ATAATTATGTTCAACCTTTA
Found at i:50166721 original size:13 final size:13
Alignment explanation
Indices: 50166703--50166727 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
50166693 TTTATTAGTG
50166703 AAAGAGTACATAT
1 AAAGAGTACATAT
50166716 AAAGAGTACATA
1 AAAGAGTACATA
50166728 CAAATTTGAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.08, G:0.16, T:0.20
Consensus pattern (13 bp):
AAAGAGTACATAT
Found at i:50166808 original size:20 final size:20
Alignment explanation
Indices: 50166746--50166808 Score: 51
Period size: 20 Copynumber: 3.1 Consensus size: 20
50166736 ATACTAATAT
50166746 ATAATTATGTTCAACCTTTA
1 ATAATTATGTTCAACCTTTA
* *
50166766 ATTGATATTA--TTCAA-ATAATA
1 A-T-A-ATTATGTTCAACCT-TTA
50166787 ATAATTATGTTCAACCTTTA
1 ATAATTATGTTCAACCTTTA
50166807 AT
1 AT
50166809 TATGTTCAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 14
0.64 0.08 0.28
Matches are distributed among these distances:
18 4 0.12
19 1 0.03
20 12 0.38
21 10 0.31
22 1 0.03
23 4 0.12
ACGTcount: A:0.40, C:0.11, G:0.05, T:0.44
Consensus pattern (20 bp):
ATAATTATGTTCAACCTTTA
Found at i:50170223 original size:92 final size:91
Alignment explanation
Indices: 50170066--50170274 Score: 278
Period size: 92 Copynumber: 2.3 Consensus size: 91
50170056 TTGATTTTAG
* * *
50170066 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCACTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTATATATAACTATTAAATTAT
* *
50170131 ATTTAAT-ATTAATTATTTTAAATTGTA
65 ATGTAATAATT-ATTATTTTAAATTATA
*
50170158 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATT-TAATATTAATTATTAAATTA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTAT-ATA-TAACTATTAAATTA
50170222 TATGTAATAATTATTATTTTAAATTATA
64 TATGTAATAATTATTATTTTAAATTATA
* * * *
50170250 CAAATTCATAAAATATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
50170275 GTTATAATTA
Statistics
Matches: 104, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
90 1 0.01
91 29 0.28
92 71 0.68
93 3 0.03
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATAACTATTAAATTATA
TGTAATAATTATTATTTTAAATTATA
Found at i:50170237 original size:24 final size:25
Alignment explanation
Indices: 50170202--50170249 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
50170192 TTATGAAATT
50170202 TAATATTAATTA-TTAAATTATATG
1 TAATATTAATTATTTAAATTATATG
50170226 TAATAATT-ATTATTTTAAATTATA
1 TAAT-ATTAATTA-TTTAAATTATA
50170250 CAAATTCATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 8 0.38
25 3 0.14
26 10 0.48
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (25 bp):
TAATATTAATTATTTAAATTATATG
Found at i:50170414 original size:66 final size:62
Alignment explanation
Indices: 50170328--50170541 Score: 176
Period size: 66 Copynumber: 3.4 Consensus size: 62
50170318 AAATATATTT
*
50170328 AATATTAATTATTTCAAATTTTCTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
1 AATATTAATTA-TT-AAAATTT-TTTTA-AGTATCATATATTATGATTTGAGTAAATTCATATAA
50170393 G
62 G
* * * * **
50170394 AATATTAATTATTAAGAATTTTATTAA--ATTATATATT-TTAATT-A-T-AA-T-ATAT-TT
1 AATATTAATTATTAA-AATTTTTTTAAGTATCATATATTATGATTTGAGTAAATTCATATAAG
* * *
50170448 AATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTCATATAA
1 AATATTAATTAT-TAAAATT-T-TTTTA-AGTATCATATATTATGATTTGAGTAAATTCATATAA
50170513 G
62 G
50170514 AATATTAATTATTAAGAATTTTTATTAA
1 AATATTAATTATTAA-AATTTTT-TTAA
50170542 ATTATATATT
Statistics
Matches: 113, Mismatches: 19, Indels: 34
0.68 0.11 0.20
Matches are distributed among these distances:
54 14 0.12
55 7 0.06
56 5 0.04
57 3 0.03
58 1 0.01
59 10 0.09
60 8 0.07
61 10 0.09
62 1 0.01
63 3 0.03
64 10 0.09
65 16 0.14
66 25 0.22
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.49
Consensus pattern (62 bp):
AATATTAATTATTAAAATTTTTTTAAGTATCATATATTATGATTTGAGTAAATTCATATAAG
Found at i:50170428 original size:120 final size:120
Alignment explanation
Indices: 50170290--50170583 Score: 502
Period size: 120 Copynumber: 2.4 Consensus size: 120
50170280 AATTATTTTA
* * * *
50170290 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTT-TCTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT--AATTTATATT
*
50170353 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
64 TTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
50170410 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
50170475 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
50170530 AATTTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
1 AA-TTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
50170584 TAAATATGAT
Statistics
Matches: 166, Mismatches: 5, Indels: 5
0.94 0.03 0.03
Matches are distributed among these distances:
119 5 0.03
120 108 0.65
121 53 0.32
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:50170450 original size:15 final size:15
Alignment explanation
Indices: 50170415--50170466 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
50170405 TTAAGAATTT
*
50170415 TATTAAATTAT-ATA
1 TATTTAATTATAATA
50170429 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
50170443 TATTTAATAATAAT-
1 TATTTAATTATAATA
50170457 TATGTTAATT
1 TAT-TTAATT
50170467 TATATTTTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:50170566 original size:16 final size:16
Alignment explanation
Indices: 50170545--50170586 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
50170535 TTATTAAATT
*
50170545 ATATATTTTAATTATA
1 ATATATTTTAATAATA
50170561 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
50170576 AT-TATGTTTAA
1 ATATAT-TTTAA
50170587 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:50170571 original size:15 final size:15
Alignment explanation
Indices: 50170536--50170577 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
50170526 TAAGAATTTT
*
50170536 TATTAAATTAT-ATA
1 TATTTAATTATAATA
50170550 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
50170564 TATTTAATAATAAT
1 TATTTAATTATAAT
50170578 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:50170707 original size:157 final size:158
Alignment explanation
Indices: 50170519--50170836 Score: 593
Period size: 157 Copynumber: 2.0 Consensus size: 158
50170509 ATAAGAATAT
*
50170519 TAATTATTAAGAATTTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
1 TAATTATTAAGAATTTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT
*
50170584 TAAATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACA
66 TAAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACA
*
50170649 ATAATAATTTACCAAAACAAATTTCTGC
131 ATAATAATTTACCAAAACAAATTTATGC
50170677 TAATTATTAAGAA-TTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT
1 TAATTATTAAGAATTTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT
50170741 TAAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACA
66 TAAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACA
*
50170806 ATAATCATTTACCAAAACAAATTTATGC
131 ATAATAATTTACCAAAACAAATTTATGC
50170834 TAA
1 TAA
50170837 GAGTATTCTA
Statistics
Matches: 156, Mismatches: 4, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
157 143 0.92
158 13 0.08
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (158 bp):
TAATTATTAAGAATTTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT
TAAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACA
ATAATAATTTACCAAAACAAATTTATGC
Found at i:50170717 original size:18 final size:17
Alignment explanation
Indices: 50170689--50170723 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
50170679 ATTATTAAGA
*
50170689 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
50170706 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
50170724 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:50170969 original size:16 final size:16
Alignment explanation
Indices: 50170920--50170971 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
50170910 GATTTGCTAT
* *
50170920 TACACCTCTATTCCAT
1 TACACCTCTAATCCAA
50170936 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
50170952 TACACCTCTAATCTAA
1 TACACCTCTAATCCAA
50170968 TACA
1 TACA
50170972 GCGAACCAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.35, C:0.35, G:0.00, T:0.31
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:50172562 original size:28 final size:27
Alignment explanation
Indices: 50172512--50172564 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 27
50172502 ACAAAATACC
*
50172512 AATAATAATGAAAGCATAAATAAAATG
1 AATAATAATGAAAGCAAAAATAAAATG
50172539 AATAACTAATGAAAG-AAAACATAAAA
1 AATAA-TAATGAAAGCAAAA-ATAAAA
50172565 AATGGAAGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
27 8 0.35
28 15 0.65
ACGTcount: A:0.66, C:0.06, G:0.09, T:0.19
Consensus pattern (27 bp):
AATAATAATGAAAGCAAAAATAAAATG
Done.