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 187 of 203
Found at i:59463897 original size:22 final size:23
Alignment explanation
Indices: 59463859--59463902 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
59463849 TTAACGGAAG
*
59463859 GAAATAAAAGGAAAAGAATAATA
1 GAAACAAAAGGAAAAGAATAATA
*
59463882 GAAACAAAA-GAAAAGAGTAAT
1 GAAACAAAAGGAAAAGAATAAT
59463903 GGTTGAATGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.68, C:0.02, G:0.18, T:0.11
Consensus pattern (23 bp):
GAAACAAAAGGAAAAGAATAATA
Found at i:59465253 original size:28 final size:28
Alignment explanation
Indices: 59465143--59465393 Score: 263
Period size: 28 Copynumber: 8.9 Consensus size: 28
59465133 CATGAAGGTG
59465143 TCCTTTGAACAGAGATAGCCACAAAGGCA
1 TCCTTT-AACAGAGATAGCCACAAAGGCA
* *
59465172 TCCTTTTTATAGAGATAGCCACAAAGGCA
1 TCC-TTTAACAGAGATAGCCACAAAGGCA
* * * *
59465201 TCCTTTTTATAGAGATATCTACAAAGGCA
1 TCC-TTTAACAGAGATAGCCACAAAGGCA
* * * *
59465230 TCCTTTAAGAAAGATAGTCACAAAGGCT
1 TCCTTTAACAGAGATAGCCACAAAGGCA
*
59465258 TCCTTTAACAAAGATAGCCACAAAGGCA
1 TCCTTTAACAGAGATAGCCACAAAGGCA
*
59465286 TCCTTTAACAGAGATAGCCATAAAGGCA
1 TCCTTTAACAGAGATAGCCACAAAGGCA
* * * * * *
59465314 TCCTTTAATAAAGATAACAACAACGGCT
1 TCCTTTAACAGAGATAGCCACAAAGGCA
* *
59465342 TCCTTTAACAGAGATAGCCATAAAGACA
1 TCCTTTAACAGAGATAGCCACAAAGGCA
* *
59465370 TCCTTT--TAGAGATAGCCATAAAGG
1 TCCTTTAACAGAGATAGCCACAAAGG
59465394 TCTATTTTTA
Statistics
Matches: 188, Mismatches: 33, Indels: 5
0.83 0.15 0.02
Matches are distributed among these distances:
26 16 0.09
28 116 0.62
29 53 0.28
30 3 0.02
ACGTcount: A:0.39, C:0.21, G:0.16, T:0.24
Consensus pattern (28 bp):
TCCTTTAACAGAGATAGCCACAAAGGCA
Found at i:59465327 original size:84 final size:83
Alignment explanation
Indices: 59465155--59465393 Score: 293
Period size: 84 Copynumber: 2.8 Consensus size: 83
59465145 CTTTGAACAG
* * * * *
59465155 AGATAGCCACAAAGGCATCCTTTTTATAGAGATAGCCACAAAGGCATCCTTTTTATAGAGATATC
1 AGATAGACACAAAGGCTTCC-TTTAACAGAGATAGCCACAAAGGCATCC--TTTATAGAGATAGC
* *
59465220 TACAAAGGCATCCTTTAAGAA
63 CATAAAGGCATCCTTTAAGAA
* * *
59465241 AGATAGTCACAAAGGCTTCCTTTAACAAAGATAGCCACAAAGGCATCCTTTAACAGAGATAGCCA
1 AGATAGACACAAAGGCTTCCTTTAACAGAGATAGCCACAAAGGCATCCTTT-ATAGAGATAGCCA
*
59465306 TAAAGGCATCCTTTAATAA
65 TAAAGGCATCCTTTAAGAA
* * *
59465325 AGATA-ACAACAACGGCTTCCTTTAACAGAGATAGCCATAAAGACATCCTTT-TAGAGATAGCCA
1 AGATAGAC-ACAAAGGCTTCCTTTAACAGAGATAGCCACAAAGGCATCCTTTATAGAGATAGCCA
59465388 TAAAGG
65 TAAAGG
59465394 TCTATTTTTA
Statistics
Matches: 135, Mismatches: 16, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
82 17 0.13
83 4 0.03
84 71 0.53
85 25 0.19
86 18 0.13
ACGTcount: A:0.39, C:0.21, G:0.16, T:0.24
Consensus pattern (83 bp):
AGATAGACACAAAGGCTTCCTTTAACAGAGATAGCCACAAAGGCATCCTTTATAGAGATAGCCAT
AAAGGCATCCTTTAAGAA
Found at i:59467485 original size:15 final size:16
Alignment explanation
Indices: 59467465--59467494 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
59467455 TCATAAGTTC
59467465 ATATGATTTA-ATTAG
1 ATATGATTTATATTAG
59467480 ATATGATTTATATTA
1 ATATGATTTATATTA
59467495 TTACATTGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (16 bp):
ATATGATTTATATTAG
Found at i:59489880 original size:19 final size:18
Alignment explanation
Indices: 59489844--59489883 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
59489834 TTTCCACTCG
*
59489844 TTTCTTTTTCAACTTCTC
1 TTTCTTTTTCAACATCTC
*
59489862 TTTCTTTTTCCACAATCTC
1 TTTCTTTTTCAAC-ATCTC
59489881 TTT
1 TTT
59489884 GTTTGTTGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.12, C:0.28, G:0.00, T:0.60
Consensus pattern (18 bp):
TTTCTTTTTCAACATCTC
Found at i:59489981 original size:19 final size:21
Alignment explanation
Indices: 59489940--59489982 Score: 54
Period size: 19 Copynumber: 2.1 Consensus size: 21
59489930 ACAACACTTG
* *
59489940 TTTCTCTCACTCTTTCTTTTC
1 TTTCTCTCAATCTTTCTTCTC
59489961 TTTCTC-CAATCTTT-TTCTC
1 TTTCTCTCAATCTTTCTTCTC
59489980 TTT
1 TTT
59489983 TTCAATTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 7 0.35
20 7 0.35
21 6 0.30
ACGTcount: A:0.07, C:0.30, G:0.00, T:0.63
Consensus pattern (21 bp):
TTTCTCTCAATCTTTCTTCTC
Found at i:59490833 original size:173 final size:173
Alignment explanation
Indices: 59490544--59491236 Score: 1269
Period size: 173 Copynumber: 4.0 Consensus size: 173
59490534 AATAATTCAG
59490544 GTTTGGGGGTGTGATAACTCTTGAAAAGAGTTATATTTTAGGCCTCTAGATGGAATTAAATGTTT
1 GTTTGGGGGTGTGATAACTCTTGAAAAGAGTTATATTTTAGGCCTCTAGATGGAATTAAATGTTT
59490609 ATAATTAAGTAAATACATCTGCATTTTTGGAATGATGGAAATGTGCAAGTGTATACAATCGCAAC
66 ATAATTAAGTAAATACATCTGCATTTTTGGAATGATGGAAATGTGCAAGTGTATACAATCGCAAC
*
59490674 AAGTAATAAAGTGACAAATAAATGTCGAGTAATCATACCTACA
131 AAGTAATAAAGTGACAAATAAATGTCGACTAATCATACCTACA
59490717 GTTTGGGGGTGTGATAACTCTTGAAAAGAGTTATATTTTAGGCCTCTAGATGGAATTAAATGTTT
1 GTTTGGGGGTGTGATAACTCTTGAAAAGAGTTATATTTTAGGCCTCTAGATGGAATTAAATGTTT
59490782 ATAATTAAGTAAATACATCTGCATTTTTGGAATGATGGAAATGTGCAAGTGTATACAATCGCAAC
66 ATAATTAAGTAAATACATCTGCATTTTTGGAATGATGGAAATGTGCAAGTGTATACAATCGCAAC
*
59490847 TAGTAATAAAGTGACAAATAAATGTCGACTAATCATACCTACA
131 AAGTAATAAAGTGACAAATAAATGTCGACTAATCATACCTACA
59490890 GTTTGGGGGTGTGATAACTCTTGAAAAGAGTTATATTTTAGGCCTCTAGATGGAATTAAATGTTT
1 GTTTGGGGGTGTGATAACTCTTGAAAAGAGTTATATTTTAGGCCTCTAGATGGAATTAAATGTTT
59490955 ATAATTAAGTAAATACATCTGCATTTTTGGAATGATGGAAATGTGCAAGTGTATACAATCGCAAC
66 ATAATTAAGTAAATACATCTGCATTTTTGGAATGATGGAAATGTGCAAGTGTATACAATCGCAAC
*
59491020 TAGTAATAAAGTGACAAATAAATGTCGACTAATCATACCTACA
131 AAGTAATAAAGTGACAAATAAATGTCGACTAATCATACCTACA
59491063 GTTTGGGGGTGTGATAACTCTTGAAAAGAGTTATATTTTAGGCCTCTAGATGGAATTAAATGTTT
1 GTTTGGGGGTGTGATAACTCTTGAAAAGAGTTATATTTTAGGCCTCTAGATGGAATTAAATGTTT
* * * * *
59491128 ATAATTAAGTAAATACATCTACAGTTTTGGAACGATGGAAATGTGCAAGTGTATACAATCACAAT
66 ATAATTAAGTAAATACATCTGCATTTTTGGAATGATGGAAATGTGCAAGTGTATACAATCGCAAC
* * * * *
59491193 AAGTAATAAAGAGACAAGTAAATGTCGAGTAATCGTACCCACA
131 AAGTAATAAAGTGACAAATAAATGTCGACTAATCATACCTACA
59491236 G
1 G
59491237 GGACTTTTTA
Statistics
Matches: 507, Mismatches: 13, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
173 507 1.00
ACGTcount: A:0.37, C:0.11, G:0.20, T:0.32
Consensus pattern (173 bp):
GTTTGGGGGTGTGATAACTCTTGAAAAGAGTTATATTTTAGGCCTCTAGATGGAATTAAATGTTT
ATAATTAAGTAAATACATCTGCATTTTTGGAATGATGGAAATGTGCAAGTGTATACAATCGCAAC
AAGTAATAAAGTGACAAATAAATGTCGACTAATCATACCTACA
Found at i:59499888 original size:6 final size:6
Alignment explanation
Indices: 59499877--59499909 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
59499867 TTTTATTTCA
59499877 TTTATT TTTATT TTTATT TTTATT TTTATT TTT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTT
59499910 TACGAATCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTATT
Found at i:59501178 original size:11 final size:11
Alignment explanation
Indices: 59501162--59501188 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
59501152 TTGCGATATA
59501162 CATTGTCATCC
1 CATTGTCATCC
59501173 CATTGTCATCC
1 CATTGTCATCC
59501184 CATTG
1 CATTG
59501189 CGTTTTATTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.19, C:0.33, G:0.11, T:0.37
Consensus pattern (11 bp):
CATTGTCATCC
Found at i:59505547 original size:27 final size:26
Alignment explanation
Indices: 59505517--59505586 Score: 68
Period size: 27 Copynumber: 2.7 Consensus size: 26
59505507 GAGGAGAGAG
**
59505517 AAAAAAATCAAAATCAAAATCAAAAC
1 AAAAAAAAAAAAATCAAAATCAAAAC
** *
59505543 AAAAAAGAAAAAAATCAACGTCAAAAG
1 AAAAAA-AAAAAAATCAAAATCAAAAC
* *
59505570 AAAAAAAGAGAAATCAA
1 AAAAAAAAAAAAATCAA
59505587 TTAAAGTCAA
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
26 15 0.42
27 21 0.58
ACGTcount: A:0.73, C:0.11, G:0.07, T:0.09
Consensus pattern (26 bp):
AAAAAAAAAAAAATCAAAATCAAAAC
Found at i:59507825 original size:43 final size:43
Alignment explanation
Indices: 59507776--59507912 Score: 111
Period size: 42 Copynumber: 3.2 Consensus size: 43
59507766 GATAGCAGAT
*
59507776 CTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGC
1 CTTGCCTTCCTGCGTTAACAGCGAAGCAGATCAAAAACAAAGC
* * * * * * * *
59507819 CTTGCC-TCCAT-CGATT-GCAGTGGAGCTGGTTAAAGATAGCAGA-T
1 CTTGCCTTCC-TGCG-TTAACAGCGAAGCAGATCAAA-A-A-CAAAGC
*
59507863 CTTGCCTTCCTGCGTTAATAGCGAAGCAGATCAAAAACAAAGC
1 CTTGCCTTCCTGCGTTAACAGCGAAGCAGATCAAAAACAAAGC
59507906 CTTGCCT
1 CTTGCCT
59507913 CCACCGATTG
Statistics
Matches: 67, Mismatches: 18, Indels: 18
0.65 0.17 0.17
Matches are distributed among these distances:
42 19 0.28
43 18 0.27
44 11 0.16
45 19 0.28
ACGTcount: A:0.29, C:0.26, G:0.22, T:0.23
Consensus pattern (43 bp):
CTTGCCTTCCTGCGTTAACAGCGAAGCAGATCAAAAACAAAGC
Found at i:59507862 original size:87 final size:87
Alignment explanation
Indices: 59507715--59508157 Score: 663
Period size: 87 Copynumber: 5.1 Consensus size: 87
59507705 AGATCAGTGA
*
59507715 AGATCGAAAACAAAGCCCTTGCCTCCATCGGTTGCAGTGGAGTTGGTTAAAGATAGCAGATCTTG
1 AGATCGAAAACAAAG-CCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTG
59507780 CCTTCCTGCGTTAACAGCGAAGC
65 CCTTCCTGCGTTAACAGCGAAGC
*
59507803 AGATCGAAAACAAAGCCTTGCCTCCATCGATTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
*
59507868 CTTCCTGCGTTAATAGCGAAGC
66 CTTCCTGCGTTAACAGCGAAGC
* * * * * *
59507890 AGATCAAAAACAAAGCCTTGCCTCCACCGATTGTAATGGAGCTGGTTAAAGATAGTAGATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
** * *
59507955 CTTCCTGTATTGACAGCGAAGA
66 CTTCCTGCGTTAACAGCGAAGC
* *
59507977 AGATCGAAAACAAAGCATTGCCTCCATCGGTTGCAGTGGAGCTGGTTGAAGATAGCAGATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
* * *
59508042 ATTCCTGTGTTAAAAGCGAA-C
66 CTTCCTGCGTTAACAGCGAAGC
*
59508063 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGTTGGTTAAAGATAGCAGATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
* ** *
59508128 CCTCCTGCGTCGACAGTGAAGC
66 CTTCCTGCGTTAACAGCGAAGC
59508150 AGATCGAA
1 AGATCGAA
59508158 GATTACAAGT
Statistics
Matches: 318, Mismatches: 36, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
86 75 0.24
87 228 0.72
88 15 0.05
ACGTcount: A:0.29, C:0.22, G:0.25, T:0.24
Consensus pattern (87 bp):
AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
CTTCCTGCGTTAACAGCGAAGC
Found at i:59508489 original size:44 final size:43
Alignment explanation
Indices: 59508338--59508609 Score: 226
Period size: 44 Copynumber: 6.1 Consensus size: 43
59508328 ATCGCATCAA
* * *
59508338 ATTGAAGCCAGAAATCTTATCTCCCAGAGATTACAGCGGAGCAG
1 ATTGAAGCTA-AAATCTTATCTCCCTGAGATTACAGTGGAGCAG
* *
59508382 ATTGAAGCT-AAATCTTATCTCCCTAAGATTACAGTAGAGCAG
1 ATTGAAGCTAAAATCTTATCTCCCTGAGATTACAGTGGAGCAG
* * * * *
59508424 ATTCAAGCTAGTAATCCTATCTCCCTGAGATTATAGTGGAGCGG
1 ATTGAAGCTA-AAATCTTATCTCCCTGAGATTACAGTGGAGCAG
* *
59508468 ATTGAA-ATAAAAGATCTTATCTCTCTGA-AGTTACAGTGTAGATCGCATCAG
1 ATTGAAGCT-AAA-ATCTTATCTCCCTGAGA-TTACAGTG--GA--G---CAG
* * * * *
59508519 ATTGAAACCAGAAACCTTATCACCCTGAGATTACAGCGGAGCAG
1 ATTGAAGCTA-AAATCTTATCTCCCTGAGATTACAGTGGAGCAG
* *
59508563 ATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCAG
1 ATTGAAGCTA-AAATCTTATCTCCCTGAGATTACAGTGGAGCAG
59508607 ATT
1 ATT
59508610 AAAATAGAGG
Statistics
Matches: 181, Mismatches: 32, Indels: 30
0.74 0.13 0.12
Matches are distributed among these distances:
42 37 0.20
43 3 0.02
44 104 0.57
46 2 0.01
47 1 0.01
48 1 0.01
49 2 0.01
51 28 0.15
52 3 0.02
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.26
Consensus pattern (43 bp):
ATTGAAGCTAAAATCTTATCTCCCTGAGATTACAGTGGAGCAG
Found at i:59508628 original size:44 final size:44
Alignment explanation
Indices: 59508534--59508687 Score: 122
Period size: 44 Copynumber: 3.6 Consensus size: 44
59508524 AACCAGAAAC
* * **
59508534 CTTATCACCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTA--AT
1 CTTATCTCCCTGAGATTACAGTGGAGCAGATT-AAAATAG-AGGAT
*
59508578 CCTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAGAGGAT
1 CTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAGAGGAT
* * * *** *
59508622 CTTATCTCTCTGA-AGTTACAGTAGAGTAGA-TCGCAT-CAGG-T
1 CTTATCTCCCTGAGA-TTACAGTGGAGCAGATTAAAATAGAGGAT
*
59508663 CTTATCTCCCTGAGATCACAGTGGA
1 CTTATCTCCCTGAGATTACAGTGGA
59508688 ATAGACCGAA
Statistics
Matches: 90, Mismatches: 16, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
41 21 0.23
42 5 0.06
43 9 0.10
44 55 0.61
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (44 bp):
CTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAGAGGAT
Found at i:59508795 original size:50 final size:49
Alignment explanation
Indices: 59508736--59508911 Score: 174
Period size: 50 Copynumber: 3.5 Consensus size: 49
59508726 GTAGTGGAAT
* * * *
59508736 AGATTAAAGCCACATCGATGAATCTTGCTTCCGCGACATTGCGGTTAAAA
1 AGATTAAAGCCACAACGATGAATCTTGCCTCC-CAACATTGCAGTTAAAA
* * * * * ** *
59508786 AGATTAAAGCTACAGC-AGCGAATCTTACCTCCCAAGCAGTGCAGTGGAAC
1 AGATTAAAGCCACAACGA-TGAATCTTGCCTCCCAA-CATTGCAGTTAAAA
*
59508836 AGATTAAAGCCACAACGGTGAATCTTGCCTCCCTAACATTGCAGTTAAAA
1 AGATTAAAGCCACAACGATGAATCTTGCCTCCC-AACATTGCAGTTAAAA
* *
59508886 AGATTAAAGCCACAATGACGAATCTT
1 AGATTAAAGCCACAACGATGAATCTT
59508912 ACTTTCCAAA
Statistics
Matches: 99, Mismatches: 23, Indels: 8
0.76 0.18 0.06
Matches are distributed among these distances:
49 3 0.03
50 94 0.95
51 2 0.02
ACGTcount: A:0.35, C:0.23, G:0.19, T:0.23
Consensus pattern (49 bp):
AGATTAAAGCCACAACGATGAATCTTGCCTCCCAACATTGCAGTTAAAA
Found at i:59508883 original size:100 final size:100
Alignment explanation
Indices: 59508707--59508895 Score: 274
Period size: 100 Copynumber: 1.9 Consensus size: 100
59508697 AGAATTACAG
* * * * * *
59508707 ATCTTATCTCCCAAGCGATGTAGTGGAATAGATTAAAGCCACATCGATGAATCTTGCTTCCGCGA
1 ATCTTACCTCCCAAGCGATGCAGTGGAACAGATTAAAGCCACAACGATGAATCTTGCCTCCGCAA
*
59508772 CATTGCGGTTAAAAAGATTAAAGCTACAGCAGCGA
66 CATTGCAGTTAAAAAGATTAAAGCTACAGCAGCGA
*
59508807 ATCTTACCTCCCAAGC-AGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCCTCC-CT
1 ATCTTACCTCCCAAGCGA-TGCAGTGGAACAGATTAAAGCCACAACGATGAATCTTGCCTCCGC-
59508870 AACATTGCAGTTAAAAAGATTAAAGC
64 AACATTGCAGTTAAAAAGATTAAAGC
59508896 CACAATGACG
Statistics
Matches: 79, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
99 2 0.03
100 77 0.97
ACGTcount: A:0.34, C:0.23, G:0.20, T:0.24
Consensus pattern (100 bp):
ATCTTACCTCCCAAGCGATGCAGTGGAACAGATTAAAGCCACAACGATGAATCTTGCCTCCGCAA
CATTGCAGTTAAAAAGATTAAAGCTACAGCAGCGA
Found at i:59509671 original size:22 final size:21
Alignment explanation
Indices: 59509646--59509691 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
59509636 GCCTTTTGGT
59509646 TTTCTCCGATTTATTCATTTTA
1 TTTCTCCGATTT-TTCATTTTA
** *
59509668 TTTCTCTTATTTTTCTTTTTA
1 TTTCTCCGATTTTTCATTTTA
59509689 TTT
1 TTT
59509692 TTTACGAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 11 0.52
22 10 0.48
ACGTcount: A:0.13, C:0.15, G:0.02, T:0.70
Consensus pattern (21 bp):
TTTCTCCGATTTTTCATTTTA
Found at i:59514064 original size:17 final size:16
Alignment explanation
Indices: 59514023--59514071 Score: 57
Period size: 18 Copynumber: 3.0 Consensus size: 16
59514013 GAAAAATCAT
59514023 GAAGGAAAAAGAAAAA
1 GAAGGAAAAAGAAAAA
59514039 -AGAGTGAAAATAGAAAAA
1 GA-AG-GAAAA-AGAAAAA
59514057 GAAGG-AAAAGAAAAA
1 GAAGGAAAAAGAAAAA
59514072 TGAGTGTGAG
Statistics
Matches: 29, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
15 8 0.28
16 5 0.17
17 6 0.21
18 9 0.31
19 1 0.03
ACGTcount: A:0.71, C:0.00, G:0.24, T:0.04
Consensus pattern (16 bp):
GAAGGAAAAAGAAAAA
Found at i:59522548 original size:26 final size:26
Alignment explanation
Indices: 59522488--59522556 Score: 68
Period size: 26 Copynumber: 2.7 Consensus size: 26
59522478 TACTGCACTG
* *
59522488 GCAGCTTTGCTGAAATACTGTTACTG
1 GCAGCTTTGCTGAAATACTATTACTA
* * *
59522514 GTAGGTTTGCT-ACGATACTATTACTA
1 GCAGCTTTGCTGA-AATACTATTACTA
*
59522540 GCAGCTTTGCTGCAATA
1 GCAGCTTTGCTGAAATA
59522557 TTGGTGTGTA
Statistics
Matches: 32, Mismatches: 9, Indels: 4
0.71 0.20 0.09
Matches are distributed among these distances:
25 1 0.03
26 31 0.97
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.35
Consensus pattern (26 bp):
GCAGCTTTGCTGAAATACTATTACTA
Found at i:59522695 original size:33 final size:33
Alignment explanation
Indices: 59522652--59522724 Score: 83
Period size: 33 Copynumber: 2.2 Consensus size: 33
59522642 TTGTATTATT
* * * *
59522652 ACACTGTACTGATATTGTATTGGGCTAAGGCCC
1 ACACTATACTGATACTGAATAGGGCTAAGGCCC
* *
59522685 ACACTATACTGTTACTGAATAGGGCTCAGGCCC
1 ACACTATACTGATACTGAATAGGGCTAAGGCCC
*
59522718 AGACTAT
1 ACACTAT
59522725 TATTGCATGT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.27
Consensus pattern (33 bp):
ACACTATACTGATACTGAATAGGGCTAAGGCCC
Found at i:59530844 original size:2 final size:2
Alignment explanation
Indices: 59530837--59530869 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
59530827 CTATTAGGTT
59530837 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
59530870 TATGCATTTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:59531317 original size:4 final size:4
Alignment explanation
Indices: 59531302--59531355 Score: 81
Period size: 4 Copynumber: 13.5 Consensus size: 4
59531292 ATATACGTAC
* * *
59531302 GTAT GTAG GTAT GTAT GTAT TTAT GTAT GTAT GTAT GTAT GTAC GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
59531350 GTAT GT
1 GTAT GT
59531356 TCCAATCCCA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
4 44 1.00
ACGTcount: A:0.24, C:0.02, G:0.26, T:0.48
Consensus pattern (4 bp):
GTAT
Found at i:59532051 original size:20 final size:20
Alignment explanation
Indices: 59532021--59532067 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
59532011 TGGTTGTGTT
59532021 AATAA-TAATTTAAATATAA
1 AATAAGTAATTTAAATATAA
* *
59532040 AATAAGTAATTTTAATATTA
1 AATAAGTAATTTAAATATAA
*
59532060 AATGAGTA
1 AATAAGTA
59532068 TTGAATATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
19 5 0.21
20 19 0.79
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.38
Consensus pattern (20 bp):
AATAAGTAATTTAAATATAA
Found at i:59533358 original size:31 final size:31
Alignment explanation
Indices: 59533316--59533395 Score: 142
Period size: 31 Copynumber: 2.6 Consensus size: 31
59533306 TAAAACTGCA
*
59533316 AGGGTCACACGGCCGTGTGGACATTCGAAGT
1 AGGGACACACGGCCGTGTGGACATTCGAAGT
59533347 AGGGACACACGGCCGTGTGGACATTCGAAGT
1 AGGGACACACGGCCGTGTGGACATTCGAAGT
*
59533378 AGGGACACACTGCCGTGT
1 AGGGACACACGGCCGTGT
59533396 CCCAGCCCGT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 47 1.00
ACGTcount: A:0.24, C:0.24, G:0.35, T:0.17
Consensus pattern (31 bp):
AGGGACACACGGCCGTGTGGACATTCGAAGT
Found at i:59539980 original size:128 final size:128
Alignment explanation
Indices: 59539629--59539958 Score: 561
Period size: 128 Copynumber: 2.6 Consensus size: 128
59539619 GACTCCAATT
*
59539629 TGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGAC
1 TGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTACTGCTTAGGGAGAC
* *
59539694 AAGATCTGTAATTTCCAACCTATTCCACTACTGGTCAGTGACATAGGACTTGTGGCTTAAATC
66 AAGATCTGTAATTTCCAACCTATTCCACTGCTGGTCAGGGACATAGGACTTGTGGCTTAAATC
* * *
59539757 TGCTTCCTTACACTTGAAGATAAGATTCACCGTCTTCGATCTGCTCCGCTACTACTTAGGGAGAT
1 TGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTACTGCTTAGGGAGAC
* *
59539822 AAGATTTATAATTTCCAACCTATTCCACTGCTGGTCAGGGACATAGGACTTGTGGCTTAAATC
66 AAGATCTGTAATTTCCAACCTATTCCACTGCTGGTCAGGGACATAGGACTTGTGGCTTAAATC
* * *
59539885 TTCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTATTGCTTAGGGGGAC
1 TGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTACTGCTTAGGGAGAC
59539950 AAGATCTGT
66 AAGATCTGT
59539959 CATCTTTAAC
Statistics
Matches: 186, Mismatches: 16, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
128 186 1.00
ACGTcount: A:0.24, C:0.24, G:0.19, T:0.32
Consensus pattern (128 bp):
TGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTACTGCTTAGGGAGAC
AAGATCTGTAATTTCCAACCTATTCCACTGCTGGTCAGGGACATAGGACTTGTGGCTTAAATC
Found at i:59540064 original size:87 final size:87
Alignment explanation
Indices: 59539949--59540446 Score: 784
Period size: 87 Copynumber: 5.7 Consensus size: 87
59539939 CTTAGGGGGA
* *
59539949 CAAGATCTG-TCATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAAGCTTTGTTTTCGACCT
1 CAAGATCTGCT-ATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCT
* * * *
59540013 GCTTTGCTATCAATGCAGGAAGG
65 GCTTCGCTGTTAACGCAGGAAGG
*
59540036 CAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGCTTTCGATCTG
1 CAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTG
59540101 CTTCGCTGTTAACGC-GGAAGG
66 CTTCGCTGTTAACGCAGGAAGG
* * * **
59540122 CAAGATCTGTTATTTTTAACCAGCTCCACTGCAACCGATGGAGGCAAAGCTTTGTTTTCGCCCTG
1 CAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTG
* * * *
59540187 CTTTGCTATCAATGCAGGAAGG
66 CTTCGCTGTTAACGCAGGAAGG
* *
59540209 CAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGTCAAGGCTTTGCTTTCGATCTG
1 CAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTG
59540274 CTTCGCTGTTAACGCAGGAAGG
66 CTTCGCTGTTAACGCAGGAAGG
*
59540296 CAAGATCTACTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTG
1 CAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTG
*
59540361 CTTCGCTGTTAACGAAGGAAGG
66 CTTCGCTGTTAACGCAGGAAGG
*
59540383 CAAGATCTACTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCT
1 CAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCT
59540447 TCACTGATTT
Statistics
Matches: 377, Mismatches: 32, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
86 76 0.20
87 300 0.80
88 1 0.00
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (87 bp):
CAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTG
CTTCGCTGTTAACGCAGGAAGG
Found at i:59540208 original size:173 final size:174
Alignment explanation
Indices: 59539949--59540446 Score: 854
Period size: 173 Copynumber: 2.9 Consensus size: 174
59539939 CTTAGGGGGA
*
59539949 CAAGATCTGTCATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAAGCTTTGTTTTCGACCTG
1 CAAGATCTGTTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAAGCTTTGTTTTCGACCTG
59540014 CTTTGCTATCAATGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAG
66 CTTTGCTATCAATGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAG
59540079 GCAAGGCTTTGCTTTCGATCTGCTTCGCTGTTAACGC-GGAAGG
131 GCAAGGCTTTGCTTTCGATCTGCTTCGCTGTTAACGCAGGAAGG
* *
59540122 CAAGATCTGTTATTTTTAACCAGCTCCACTGCAACCGATGGAGGCAAAGCTTTGTTTTCGCCCTG
1 CAAGATCTGTTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAAGCTTTGTTTTCGACCTG
59540187 CTTTGCTATCAATGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAG
66 CTTTGCTATCAATGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAG
*
59540252 TCAAGGCTTTGCTTTCGATCTGCTTCGCTGTTAACGCAGGAAGG
131 GCAAGGCTTTGCTTTCGATCTGCTTCGCTGTTAACGCAGGAAGG
** * *
59540296 CAAGATCTACTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTG
1 CAAGATCTGTTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAAGCTTTGTTTTCGACCTG
* * * * * *
59540361 CTTCGCTGTTAACGAAGGAAGGCAAGATCTACTATCTTTAACCAGCTCCACTGCAACCGATGGAG
66 CTTTGCTATCAATGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAG
*
59540426 GCAAGGCTTTGTTTTCGATCT
131 GCAAGGCTTTGCTTTCGATCT
59540447 TCACTGATTT
Statistics
Matches: 306, Mismatches: 18, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
173 163 0.53
174 143 0.47
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (174 bp):
CAAGATCTGTTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAAGCTTTGTTTTCGACCTG
CTTTGCTATCAATGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAG
GCAAGGCTTTGCTTTCGATCTGCTTCGCTGTTAACGCAGGAAGG
Found at i:59541796 original size:12 final size:11
Alignment explanation
Indices: 59541782--59541840 Score: 50
Period size: 12 Copynumber: 5.3 Consensus size: 11
59541772 TGCTTTTGAC
59541782 TTTGATTTTTT
1 TTTGATTTTTT
*
59541793 CTTT--TCTTTT
1 -TTTGATTTTTT
*
59541803 TTTGTTTTTTAT
1 TTTGATTTTT-T
*
59541815 TTTGATTTTGAT
1 TTTGATTTT-TT
59541827 TTTGATTTTTT
1 TTTGATTTTTT
59541838 TTT
1 TTT
59541841 TTGAATCTGA
Statistics
Matches: 38, Mismatches: 5, Indels: 9
0.73 0.10 0.17
Matches are distributed among these distances:
9 3 0.08
10 5 0.13
11 8 0.21
12 22 0.58
ACGTcount: A:0.08, C:0.03, G:0.08, T:0.80
Consensus pattern (11 bp):
TTTGATTTTTT
Found at i:59541841 original size:12 final size:12
Alignment explanation
Indices: 59541799--59541841 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
59541789 TTTTCTTTTC
59541799 TTTTTTTG-TTT
1 TTTTTTTGATTT
59541810 TTTATTTTGATTT
1 TTT-TTTTGATTT
**
59541823 TGATTTTGATTT
1 TTTTTTTGATTT
59541835 TTTTTTT
1 TTTTTTT
59541842 TGAATCTGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
11 3 0.12
12 19 0.73
13 4 0.15
ACGTcount: A:0.09, C:0.00, G:0.09, T:0.81
Consensus pattern (12 bp):
TTTTTTTGATTT
Found at i:59547389 original size:11 final size:11
Alignment explanation
Indices: 59547373--59547397 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
59547363 GGCATAAATG
59547373 AAAAAAGAAAA
1 AAAAAAGAAAA
59547384 AAAAAAGAAAA
1 AAAAAAGAAAA
59547395 AAA
1 AAA
59547398 CCCTAAGCTC
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:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (11 bp):
AAAAAAGAAAA
Found at i:59553951 original size:79 final size:80
Alignment explanation
Indices: 59553819--59554082 Score: 385
Period size: 79 Copynumber: 3.3 Consensus size: 80
59553809 TTGAATGATG
* * * *
59553819 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGACTAAGATCCGAAGGCATT
59553883 TGTGCGAGATACTAAT
65 TGTGCGAGATACTAAT
59553899 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTT
59553963 GTGCGAGATACTAAT
66 GTGCGAGATACTAAT
**
59553978 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGAT-CCGAAGGCATT
*
59554041 TGTGCGAGTTACT-AT
65 TGTGCGAGATACTAAT
* *
59554056 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
59554083 AACAAGTAGC
Statistics
Matches: 171, Mismatches: 9, Indels: 8
0.91 0.05 0.04
Matches are distributed among these distances:
78 3 0.02
79 136 0.80
80 32 0.19
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAAT
Found at i:59554096 original size:40 final size:40
Alignment explanation
Indices: 59553820--59554082 Score: 292
Period size: 40 Copynumber: 6.6 Consensus size: 40
59553810 TGAATGATGT
* * * *
59553820 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
59553860 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
59553900 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* * *
59553938 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 -CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
59553979 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
59554017 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
59554058 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
59554083 AACAAGTAGC
Statistics
Matches: 194, Mismatches: 17, Indels: 24
0.83 0.07 0.10
Matches are distributed among these distances:
39 69 0.36
40 115 0.59
41 10 0.05
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:59554101 original size:119 final size:119
Alignment explanation
Indices: 59553819--59554101 Score: 355
Period size: 119 Copynumber: 2.4 Consensus size: 119
59553809 TTGAATGATG
* *
59553819 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGT-GACCATATCCGGACTAAGATCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-AAGTAG-CTATATCCGGACTAAGACCCGAAGGCAT
*
59553882 TTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
64 TTGTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
59553938 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATA-CTA-ATTCCGGGCTAAG-CCCGAAGGCA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCAAG-TAGCTATA-TCCGGACTAAGACCCGAAGGCA
* *
59553999 TTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
63 TTTGTGCGAGATACTAAATCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
* **
59554058 -CCGGGCTATGTCCCGAAGGCATTTGAACAAGTAGCTATATCCGG
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAGCTATATCCGG
59554102 TTAAATTCCG
Statistics
Matches: 141, Mismatches: 13, Indels: 20
0.81 0.07 0.11
Matches are distributed among these distances:
118 39 0.28
119 90 0.64
120 12 0.09
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (119 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAGCTATATCCGGACTAAGACCCGAAGGCATTT
GTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:59572851 original size:25 final size:25
Alignment explanation
Indices: 59572790--59572859 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 25
59572780 CTGTACATGT
*
59572790 ATGCTCACATGAGCTGTGAATCAAA
1 ATGCTCACACGAGCTGTGAATCAAA
** *
59572815 ATTTTCACACGAGCTGTGAATCAGA
1 ATGCTCACACGAGCTGTGAATCAAA
*
59572840 ATGCTCATACGAGCTGTGAA
1 ATGCTCACACGAGCTGTGAA
59572860 AATAGGCCTG
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.26
Consensus pattern (25 bp):
ATGCTCACACGAGCTGTGAATCAAA
Found at i:59578002 original size:24 final size:24
Alignment explanation
Indices: 59577960--59578011 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
59577950 AATCAAAGTC
** *
59577960 AAATATATTATGTTAATAAATGCT
1 AAATATATTATACTAATAAATACT
*
59577984 AAATATATTATACTCATAAATACT
1 AAATATATTATACTAATAAATACT
59578008 AAAT
1 AAAT
59578012 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.50, C:0.08, G:0.04, T:0.38
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACT
Found at i:59585196 original size:138 final size:138
Alignment explanation
Indices: 59584946--59585502 Score: 812
Period size: 138 Copynumber: 4.0 Consensus size: 138
59584936 GAAAAAGGAG
* * *
59584946 TTATATTCTTTCCAAAAAAATATTAATTTCCATGTCTTTTATATTTTGATCGAAATTAATTAATA
1 TTATATTCTTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTTTGACCGAAATTAATTAATA
* * *
59585011 TAATTGTTTATATTAATAAATTTGGTAAAATATATACAATTAATATTTTTTATGAATCAAATTCA
66 TAACTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATTCA
59585076 TATATTAA
131 TATATTAA
* * *
59585084 TCATATTCTTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTTTAACCAAAATTAATTAATA
1 TTATATTCTTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTTTGACCGAAATTAATTAATA
* * * * ** *
59585149 CAACTGTTTATATGAATAAATCCAGTAAAATATATACACCTAGTATTTTGTATGAATCAAAATTC
66 TAACTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATC-AAATTC
59585214 ATATATTAA
130 ATATATTAA
* * * * *
59585223 TTATATTTTTTCCAAAAGAATATTTATTTACATGTC-TTTATATTTTGATCGAAATTGATTAATA
1 TTATATTCTTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTTTGACCGAAATTAATTAATA
* * *
59585287 TAACTGTTTATATTAATAAATTTGGAAAAATATATACAATTAATATTTTGTATTAATCAAATTCA
66 TAACTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATTCA
*
59585352 TCTATTAA
131 TATATTAA
* * *
59585360 TTATATT-TTTCCAAAAGAATATTAATTTTCATGTCATTTATATTTTGACTGAAAGTAATTAATA
1 TTATATTCTTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTTTGACCGAAATTAATTAATA
* * *
59585424 TAGCTGTTTATATTAATAAATTCGATAAAATATATACAATTAATATTTTTTATGAATCAAATTCA
66 TAACTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATTCA
59585489 TATATTAA
131 TATATTAA
59585497 TTATAT
1 TTATAT
59585503 CTATGTTCTT
Statistics
Matches: 369, Mismatches: 48, Indels: 5
0.87 0.11 0.01
Matches are distributed among these distances:
136 26 0.07
137 117 0.32
138 179 0.49
139 47 0.13
ACGTcount: A:0.40, C:0.08, G:0.06, T:0.45
Consensus pattern (138 bp):
TTATATTCTTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTTTGACCGAAATTAATTAATA
TAACTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATTCA
TATATTAA
Found at i:59591353 original size:51 final size:50
Alignment explanation
Indices: 59591232--59591474 Score: 233
Period size: 51 Copynumber: 4.8 Consensus size: 50
59591222 TATCATTTGA
* * * * *
59591232 TACACGTAGTAGCCTTCACATTGTACTACACACGTGATCA-AACTTTTCGG
1 TACACGTAGTAGCCTACACATAGTACTACACACGTGACCATAA-TATCCGG
* * **
59591282 TTCACGTAGTAGCCTGCACATAGTACTACACACGTGACCATTAATATCCAA
1 TACACGTAGTAGCCTACACATAGTACTACACACGTGACCA-TAATATCCGG
* *
59591333 TACACGTAGTAGCCTACACATAGTACTACACACGTGATCGA-AGCTATCCGG
1 TACACGTAGTAGCCTACACATAGTACTACACACGTGA-CCATA-ATATCCGG
* * * * * * *
59591384 TACGCATAGTAGCCTGCACATAGTACTACACATGCGA-CAT-TTCATTCTGG
1 TACACGTAGTAGCCTACACATAGTACTACACACGTGACCATAAT-A-TCCGG
*
59591434 TACACATAGTAGCCTACACATAGTACTACACACGTGACCAT
1 TACACGTAGTAGCCTACACATAGTACTACACACGTGACCAT
59591475 CACTTTCACT
Statistics
Matches: 159, Mismatches: 26, Indels: 15
0.80 0.13 0.08
Matches are distributed among these distances:
48 1 0.01
49 2 0.01
50 74 0.47
51 78 0.49
52 4 0.03
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.26
Consensus pattern (50 bp):
TACACGTAGTAGCCTACACATAGTACTACACACGTGACCATAATATCCGG
Found at i:59591370 original size:101 final size:101
Alignment explanation
Indices: 59591231--59591470 Score: 313
Period size: 101 Copynumber: 2.4 Consensus size: 101
59591221 TTATCATTTG
* * * * * *
59591231 ATACACGTAGTAGCCTTCACATTGTACTACACACGTGATC-AAACTTTTCGGTTCACGTAGTAGC
1 ATACACGTAGTAGCCTACACATAGTACTACACACGTGATCGAAACTATCCGGTACACATAGTAGC
*
59591295 CTGCACATAGTACTACACACGTGACCA-TTAATATCCA
66 CTGCACATAGTACTACACACGCGA-CATTTAAT-TCCA
* *
59591332 ATACACGTAGTAGCCTACACATAGTACTACACACGTGATCGAAGCTATCCGGTACGCATAGTAGC
1 ATACACGTAGTAGCCTACACATAGTACTACACACGTGATCGAAACTATCCGGTACACATAGTAGC
* * **
59591397 CTGCACATAGTACTACACATGCGACATTTCATTCTG
66 CTGCACATAGTACTACACACGCGACATTTAATTCCA
* *
59591433 GTACACATAGTAGCCTACACATAGTACTACACACGTGA
1 ATACACGTAGTAGCCTACACATAGTACTACACACGTGA
59591471 CCATCACTTT
Statistics
Matches: 122, Mismatches: 15, Indels: 4
0.87 0.11 0.03
Matches are distributed among these distances:
101 78 0.64
102 44 0.36
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.25
Consensus pattern (101 bp):
ATACACGTAGTAGCCTACACATAGTACTACACACGTGATCGAAACTATCCGGTACACATAGTAGC
CTGCACATAGTACTACACACGCGACATTTAATTCCA
Found at i:59591493 original size:101 final size:98
Alignment explanation
Indices: 59591224--59591494 Score: 285
Period size: 101 Copynumber: 2.7 Consensus size: 98
59591214 TTAACTATTA
* * * * *
59591224 TCATT-TGATACACGTAGTAGCCTTCACATTGTACTACACACGTGATCAAACTTTTCGGTTCACG
1 TCATTCTGATACACGTAGTAGCCTACACATAGTACTACACACGTGA-CCAAC-TTTCCGTTCACA
*
59591288 TAGTAGCCTGCACATAGTACTACACACGTGACCAT
64 TAGTAGCCTGCACATAGTACTACACACGCGACCAT
* ** * * * *
59591323 TAATATCCAATACACGTAGTAGCCTACACATAGTACTACACACGTGATCGAAGCTATCCGGTACG
1 TCAT-TCTGATACACGTAGTAGCCTACACATAGTACTACACACGTGA-CCAA-CTTTCC-GTTCA
*
59591388 CATAGTAGCCTGCACATAGTACTACACATGCGA-CATT
62 CATAGTAGCCTGCACATAGTACTACACACGCGACCA-T
* * *
59591425 TCATTCTGGTACACATAGTAGCCTACACATAGTACTACACACGTGACCATCACTTTCACTTTCAC
1 TCATTCTGATACACGTAGTAGCCTACACATAGTACTACACACGTGACCA--ACTTTC-CGTTCAC
59591490 ATAGT
63 ATAGT
59591495 GACCTACACA
Statistics
Matches: 141, Mismatches: 23, Indels: 14
0.79 0.13 0.08
Matches are distributed among these distances:
99 3 0.02
100 3 0.02
101 95 0.67
102 40 0.28
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.27
Consensus pattern (98 bp):
TCATTCTGATACACGTAGTAGCCTACACATAGTACTACACACGTGACCAACTTTCCGTTCACATA
GTAGCCTGCACATAGTACTACACACGCGACCAT
Found at i:59599706 original size:94 final size:95
Alignment explanation
Indices: 59599439--59599719 Score: 457
Period size: 94 Copynumber: 3.0 Consensus size: 95
59599429 TTTGAGTTGC
* *
59599439 GTTGTCATCGCATAAATGTAAAATATATTATTCTATTTAAATTCTTTTTT-AAAAACCTATAACT
1 GTTGTCATCGCATAAATGTAAAATATATTATTCCATTTAAATT-TTTTTTAAAAAAACTATAACT
*
59599503 TATAAATTTCATAG-GA---AAACTGTATGCTTA
65 TATAAATTTCATAGTTATTTAAA-T-T-TGCTTA
59599533 GTTGTCATCGCATAAATGTAAAATATATTATTCCATTTAAATTTTTTTTAAAAAAACTATAACTT
1 GTTGTCATCGCATAAATGTAAAATATATTATTCCATTTAAATTTTTTTTAAAAAAACTATAACTT
59599598 ATAAATTTCATAGTTATTTAAATTTG-TTA
66 ATAAATTTCATAGTTATTTAAATTTGCTTA
59599627 GTTGTCATCGCATAAATGTAAAATATATTATTCCATTTAAATTTTTTTTAAAAAAACTATAACTT
1 GTTGTCATCGCATAAATGTAAAATATATTATTCCATTTAAATTTTTTTTAAAAAAACTATAACTT
59599692 ATAAATTTCATAGTTATTTAAATTTGCT
66 ATAAATTTCATAGTTATTTAAATTTGCT
59599720 AGAGCCCGTA
Statistics
Matches: 178, Mismatches: 3, Indels: 11
0.93 0.02 0.06
Matches are distributed among these distances:
93 6 0.03
94 163 0.92
95 4 0.02
96 1 0.01
97 1 0.01
98 3 0.02
ACGTcount: A:0.39, C:0.10, G:0.07, T:0.44
Consensus pattern (95 bp):
GTTGTCATCGCATAAATGTAAAATATATTATTCCATTTAAATTTTTTTTAAAAAAACTATAACTT
ATAAATTTCATAGTTATTTAAATTTGCTTA
Found at i:59599716 original size:46 final size:46
Alignment explanation
Indices: 59599567--59599716 Score: 137
Period size: 46 Copynumber: 3.2 Consensus size: 46
59599557 ATATTATTCC
59599567 ATTTAAATTTTTTTTAAAAAAACTATAACTTATAAATTTCATAGTT
1 ATTTAAATTTTTTTTAAAAAAACTATAACTTATAAATTTCATAGTT
* *** *** * *
59599613 ATTTAAATTTGTTAGTTGTCATCGC-ATAAATGTA-AAATAT-ATTA-TT
1 ATTTAAATTT-TT-TTTAAAAAAACTATAACT-TATAAATTTCA-TAGTT
59599659 CCATTTAAATTTTTTTTAAAAAAACTATAACTTATAAATTTCATAGTT
1 --ATTTAAATTTTTTTTAAAAAAACTATAACTTATAAATTTCATAGTT
59599707 ATTTAAATTT
1 ATTTAAATTT
59599717 GCTAGAGCCC
Statistics
Matches: 76, Mismatches: 18, Indels: 20
0.67 0.16 0.18
Matches are distributed among these distances:
46 29 0.38
47 28 0.37
48 19 0.25
ACGTcount: A:0.41, C:0.07, G:0.05, T:0.47
Consensus pattern (46 bp):
ATTTAAATTTTTTTTAAAAAAACTATAACTTATAAATTTCATAGTT
Found at i:59599847 original size:23 final size:23
Alignment explanation
Indices: 59599821--59599868 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
59599811 ACCTCTGAAA
59599821 AAATTTAAATCCAAAATAAACCT
1 AAATTTAAATCCAAAATAAACCT
* *
59599844 AAATTTAAATCCAAAGTAAGCCT
1 AAATTTAAATCCAAAATAAACCT
59599867 AA
1 AA
59599869 TCAGAACCTG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.54, C:0.17, G:0.04, T:0.25
Consensus pattern (23 bp):
AAATTTAAATCCAAAATAAACCT
Found at i:59606517 original size:12 final size:12
Alignment explanation
Indices: 59606500--59606534 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
59606490 AAAGTAACTT
59606500 TAATAATAATGA
1 TAATAATAATGA
*
59606512 TAATAATAAAGA
1 TAATAATAATGA
59606524 TAATAA-AATGA
1 TAATAATAATGA
59606535 AAACATAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 4 0.19
12 17 0.81
ACGTcount: A:0.63, C:0.00, G:0.09, T:0.29
Consensus pattern (12 bp):
TAATAATAATGA
Found at i:59607273 original size:8 final size:8
Alignment explanation
Indices: 59607262--59607286 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
59607252 ATTGAGATGA
59607262 GTACTTGG
1 GTACTTGG
59607270 GTACTTGG
1 GTACTTGG
59607278 GTACTTGG
1 GTACTTGG
59607286 G
1 G
59607287 AATTGAATTA
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:0.12, C:0.12, G:0.40, T:0.36
Consensus pattern (8 bp):
GTACTTGG
Found at i:59607813 original size:43 final size:43
Alignment explanation
Indices: 59607752--59607838 Score: 129
Period size: 43 Copynumber: 2.0 Consensus size: 43
59607742 TTATGTGATT
*
59607752 AATATTGAAATGAAAAATATGATAAATGAATATGAGATGAGAA
1 AATATTGAAATGAAAAATATGAGAAATGAATATGAGATGAGAA
** * *
59607795 AATATTGAAATGGCAAATATGAGAAATGATTATGATATGAGAA
1 AATATTGAAATGAAAAATATGAGAAATGAATATGAGATGAGAA
59607838 A
1 A
59607839 TGAGATATGA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.53, C:0.01, G:0.20, T:0.26
Consensus pattern (43 bp):
AATATTGAAATGAAAAATATGAGAAATGAATATGAGATGAGAA
Found at i:59608844 original size:30 final size:30
Alignment explanation
Indices: 59608810--59608868 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
59608800 ACCGTGTAAA
*
59608810 GCACACGGCCTGGCCACATAGGTGTGTGAG
1 GCACACGGCCTGGCCACACAGGTGTGTGAG
*
59608840 GCACACGGCCTGGCCACACGGGTGTGTGA
1 GCACACGGCCTGGCCACACAGGTGTGTGA
59608869 TCCCTATAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.19, C:0.29, G:0.37, T:0.15
Consensus pattern (30 bp):
GCACACGGCCTGGCCACACAGGTGTGTGAG
Found at i:59613841 original size:27 final size:26
Alignment explanation
Indices: 59613811--59613982 Score: 129
Period size: 27 Copynumber: 6.5 Consensus size: 26
59613801 AATTGTACAG
59613811 CACTAAGTGTGCGATTTGACTATGTTA
1 CACTAAGTGTGCGATTTGACTATG-TA
* * *
59613838 CACTAAGTGTGCGAAATGGA-TATGATG
1 CACTAAGTGTGCG-ATTTGACTATG-TA
* **
59613865 CACTAAGTGTGCGA----ACCATGCGG
1 CACTAAGTGTGCGATTTGACTATG-TA
59613888 CACTAAGTGTGCGAGTTTGACTATGTA
1 CACTAAGTGTGCGA-TTTGACTATGTA
* *
59613915 GCACTAAGTGTGCGATTTGATTACGTA
1 -CACTAAGTGTGCGATTTGACTATGTA
* * *
59613942 GCACTAAGTGTGCGAGTTGATTATATA
1 -CACTAAGTGTGCGATTTGACTATGTA
*
59613969 GCACTGAGTGTGCG
1 -CACTAAGTGTGCG
59613983 GACTCAATAT
Statistics
Matches: 121, Mismatches: 16, Indels: 16
0.79 0.10 0.10
Matches are distributed among these distances:
22 1 0.01
23 18 0.15
26 1 0.01
27 78 0.64
28 23 0.19
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.30
Consensus pattern (26 bp):
CACTAAGTGTGCGATTTGACTATGTA
Found at i:59613946 original size:78 final size:77
Alignment explanation
Indices: 59613810--59613956 Score: 210
Period size: 78 Copynumber: 1.9 Consensus size: 77
59613800 AAATTGTACA
*
59613810 GCACTAAGTGTGCGATTTGACTATGTTACACTAAGTGTGCGAAATGGATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTTGACTATGTTACACTAAGTGTGCGAAATGGATACGATGCACTAAGTGT
59613875 GCGAACCATGCG
66 GCGAACCATGCG
* *
59613887 GCACTAAGTGTGCGAGTTTGACTATG-TAGCACTAAGTGTGCG-ATTTGATTACG-TAGCACTAA
1 GCACTAAGTGTGCGA-TTTGACTATGTTA-CACTAAGTGTGCGAAATGGA-TACGAT-GCACTAA
59613949 GTGTGCGA
62 GTGTGCGA
59613957 GTTGATTATA
Statistics
Matches: 63, Mismatches: 3, Indels: 7
0.86 0.04 0.10
Matches are distributed among these distances:
77 22 0.35
78 41 0.65
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (77 bp):
GCACTAAGTGTGCGATTTGACTATGTTACACTAAGTGTGCGAAATGGATACGATGCACTAAGTGT
GCGAACCATGCG
Found at i:59621988 original size:27 final size:27
Alignment explanation
Indices: 59621957--59622134 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
59621947 TAAATTGTAC
59621957 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
59621984 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
59622010 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
59622038 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
59622066 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
59622093 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
59622120 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
59622135 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:59622071 original size:82 final size:81
Alignment explanation
Indices: 59621958--59622113 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
59621948 AAATTGTACA
* *
59621958 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
59622022 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
59622039 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
59622104 TGCGAGTTGA
65 TGCGAATTGA
59622114 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:59622125 original size:82 final size:81
Alignment explanation
Indices: 59621954--59622134 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
59621944 GATTAAATTG
* *
59621954 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
59622019 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
59622035 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
59622099 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
59622117 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
59622135 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:59631734 original size:40 final size:40
Alignment explanation
Indices: 59631690--59631999 Score: 408
Period size: 40 Copynumber: 7.8 Consensus size: 40
59631680 TGGAGAAGTA
*
59631690 ATTCAGGCTTAGTGCCTAGTAGGCTTCGTGCTGGTGTGTT
1 ATTCAGGCTTAGTGCCTAGCAGGCTTCGTGCTGGTGTGTT
* ** * *
59631730 ATTCAGGCTTAGTGCCTAGCAAGCTTTATACTTGTGTGTT
1 ATTCAGGCTTAGTGCCTAGCAGGCTTCGTGCTGGTGTGTT
* *
59631770 ATTTAGGCTTAGTGCCTAGCAGGCTTCGTGCTGATGTGTT
1 ATTCAGGCTTAGTGCCTAGCAGGCTTCGTGCTGGTGTGTT
* * * *
59631810 ATTCAAGCTTAGTGCGTAGTAGGCTTCGTGCCGGTGTGTT
1 ATTCAGGCTTAGTGCCTAGCAGGCTTCGTGCTGGTGTGTT
*
59631850 ATTCAAGCTTAGTGCCTAGCAGGCTTCGTGCTGGTGTGTT
1 ATTCAGGCTTAGTGCCTAGCAGGCTTCGTGCTGGTGTGTT
* *
59631890 ATTCAAGCTTAGTGCCTAGTAGGCTTCGTGCTGGTGTGTT
1 ATTCAGGCTTAGTGCCTAGCAGGCTTCGTGCTGGTGTGTT
* *
59631930 ATTTAGGCTTAGCGCCTAGCAGGCTTCGTGCTGGTG-G-T
1 ATTCAGGCTTAGTGCCTAGCAGGCTTCGTGCTGGTGTGTT
* * * * *
59631968 ACTCAGGCTTAGTTCTTAGTAGGCTTTGTGCT
1 ATTCAGGCTTAGTGCCTAGCAGGCTTCGTGCT
59632000 AGTGAATCAA
Statistics
Matches: 236, Mismatches: 34, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
38 26 0.11
39 1 0.00
40 209 0.89
ACGTcount: A:0.15, C:0.18, G:0.30, T:0.37
Consensus pattern (40 bp):
ATTCAGGCTTAGTGCCTAGCAGGCTTCGTGCTGGTGTGTT
Found at i:59642543 original size:40 final size:39
Alignment explanation
Indices: 59642485--59642676 Score: 170
Period size: 40 Copynumber: 4.9 Consensus size: 39
59642475 TACCTTAAAA
* * *
59642485 TTATTCAGGCCTAGTGCCTAGCAGGCTTCGTGCCGTTGTG
1 TTATTCAAGCTTAATGCCTAGCAGGCTTCGTGCCG-TGTG
* *
59642525 TTATTCAAGTTTAATGCCTAGCAAGCTTCGTGCCGGTGTG
1 TTATTCAAGCTTAATGCCTAGCAGGCTTCGTGCC-GTGTG
* * *
59642565 ATATTCAAGCTTAGTGCCTAGCAGGCTTTGTGCCAGTGTG
1 TTATTCAAGCTTAATGCCTAGCAGGCTTCGTGCC-GTGTG
* ** * * *
59642605 TTATTCAGGCTTAGCGCCTAGTAGGCTTCTTACCG-GTG
1 TTATTCAAGCTTAATGCCTAGCAGGCTTCGTGCCGTGTG
* * * * * *
59642643 GTACTCAGGCTTAGTGCCTAGAAGGCTTTGTGCC
1 TTATTCAAGCTTAATGCCTAGCAGGCTTCGTGCC
59642677 AAGGAATCAA
Statistics
Matches: 126, Mismatches: 25, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
38 30 0.24
39 1 0.01
40 94 0.75
41 1 0.01
ACGTcount: A:0.17, C:0.22, G:0.28, T:0.33
Consensus pattern (39 bp):
TTATTCAAGCTTAATGCCTAGCAGGCTTCGTGCCGTGTG
Found at i:59642624 original size:80 final size:79
Alignment explanation
Indices: 59642486--59642677 Score: 235
Period size: 80 Copynumber: 2.4 Consensus size: 79
59642476 ACCTTAAAAT
* * * *
59642486 TATTCAGGCCTAGTGCCTAGCAGGCTTCGTGCC-GTTGTGTTATTCAAGTTTAATGCCTAGCAAG
1 TATTCAGGCTTAGTGCCTAGCAGGCTTTGTGCCAGTTGTGTTATTCAAGCTTAACGCCTAGCAAG
*
59642550 CTTCGTGCCGGTGTG
66 CTTCGTACCGGTG-G
* * * * *
59642565 ATATTCAAGCTTAGTGCCTAGCAGGCTTTGTGCCAG-TGTGTTATTCAGGCTTAGCGCCTAGTAG
1 -TATTCAGGCTTAGTGCCTAGCAGGCTTTGTGCCAGTTGTGTTATTCAAGCTTAACGCCTAGCAA
*
59642629 GCTTCTTACCGGTGG
65 GCTTCGTACCGGTGG
* *
59642644 TACTCAGGCTTAGTGCCTAGAAGGCTTTGTGCCA
1 TATTCAGGCTTAGTGCCTAGCAGGCTTTGTGCCA
59642678 AGGAATCAAG
Statistics
Matches: 97, Mismatches: 14, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
78 31 0.32
79 1 0.01
80 64 0.66
81 1 0.01
ACGTcount: A:0.18, C:0.22, G:0.28, T:0.32
Consensus pattern (79 bp):
TATTCAGGCTTAGTGCCTAGCAGGCTTTGTGCCAGTTGTGTTATTCAAGCTTAACGCCTAGCAAG
CTTCGTACCGGTGG
Found at i:59648311 original size:17 final size:18
Alignment explanation
Indices: 59648284--59648318 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
59648274 TTCTCCTAAA
*
59648284 TTTCAAATTTATTTAATT
1 TTTCAAATTTATTGAATT
59648302 TTTC-AATTTATTGAATT
1 TTTCAAATTTATTGAATT
59648319 GTTAATATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.31, C:0.06, G:0.03, T:0.60
Consensus pattern (18 bp):
TTTCAAATTTATTGAATT
Found at i:59652610 original size:15 final size:16
Alignment explanation
Indices: 59652581--59652610 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
59652571 CAAACATGCT
59652581 TTAACACATTATCAAA
1 TTAACACATTATCAAA
59652597 TTAACACA-TATCAA
1 TTAACACATTATCAA
59652611 CAAGGCTACA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAACACATTATCAAA
Found at i:59661620 original size:27 final size:27
Alignment explanation
Indices: 59661590--59662003 Score: 404
Period size: 27 Copynumber: 15.4 Consensus size: 27
59661580 TACTCTCGAT
*** *
59661590 GGGTAAAATGACTAAAATGCCCCTATA
1 GGGTAAAATGACCGTAATGCCCCTGTA
* * *
59661617 GGGTAAAATAACCGAAAT-ACCCTCGTA
1 GGGTAAAATGACCGTAATGCCCCT-GTA
* * * * *
59661644 GGGTAGAAT-ATCGAAATACCCCTATA
1 GGGTAAAATGACCGTAATGCCCCTGTA
* * * *
59661670 GGATAAAATGACCGTAATACCTCTATA
1 GGGTAAAATGACCGTAATGCCCCTGTA
* *
59661697 GGGTAAAATGACCGTAATACCCTTGTA
1 GGGTAAAATGACCGTAATGCCCCTGTA
* * **
59661724 GGGTAAAATGACCATAATACCATTGTA
1 GGGTAAAATGACCGTAATGCCCCTGTA
* * *
59661751 GGGTAAAATGATCGTAATACCCTTGTA
1 GGGTAAAATGACCGTAATGCCCCTGTA
* *
59661778 GGGTAAAATGACCGTAATGCACCTATA
1 GGGTAAAATGACCGTAATGCCCCTGTA
* * *
59661805 AGGTAAAATAACCATAATGCCCCTGTA
1 GGGTAAAATGACCGTAATGCCCCTGTA
*
59661832 GGGTAAAATGATCGTAATGCCCCTGTA
1 GGGTAAAATGACCGTAATGCCCCTGTA
**
59661859 GGGTAAAATGACCGTAATGCCTTTGTA
1 GGGTAAAATGACCGTAATGCCCCTGTA
*
59661886 GGGTAAAATGACTGTAATGCCCCTGTA
1 GGGTAAAATGACCGTAATGCCCCTGTA
** *
59661913 GGGTAAAATGACCGTAATATCCCTATA
1 GGGTAAAATGACCGTAATGCCCCTGTA
* * * *
59661940 GGGTAAAATGATCGTATTACCTCTGTA
1 GGGTAAAATGACCGTAATGCCCCTGTA
* *
59661967 GGGTAAAATGACCTTAATGCCCTTGT-
1 GGGTAAAATGACCGTAATGCCCCTGTA
59661993 GGGT-AAATGAC
1 GGGTAAAATGAC
59662004 AATTTTTCCC
Statistics
Matches: 326, Mismatches: 58, Indels: 8
0.83 0.15 0.02
Matches are distributed among these distances:
25 7 0.02
26 24 0.07
27 295 0.90
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.26
Consensus pattern (27 bp):
GGGTAAAATGACCGTAATGCCCCTGTA
Found at i:59662322 original size:32 final size:32
Alignment explanation
Indices: 59662281--59662547 Score: 202
Period size: 32 Copynumber: 8.3 Consensus size: 32
59662271 ACGGTGCTGT
* *
59662281 TGATGGCTTTGTACCGATCATAGTACCATTAA
1 TGATGGCTTTGTACCGATCATAGTACCGTTAC
*
59662313 TGATGGCTTTGTACCGATCATAGTATCGTTAC
1 TGATGGCTTTGTACCGATCATAGTACCGTTAC
* ** *
59662345 TAATGGCTTTGTGTCGATCATAGTACTGTTAC
1 TGATGGCTTTGTACCGATCATAGTACCGTTAC
*
59662377 TGATGGCTTTGT-GCGAATCATAGTACCGTTAC
1 TGATGGCTTTGTACCG-ATCATAGTACCGTTAC
* * * *
59662409 TGATGGCTTTGTGCTGATCAT-TTCACTGTTAC
1 TGATGGCTTTGTACCGATCATAGT-ACCGTTAC
* * * * * * *
59662441 TAATGGCTGTGTGCCGGTCATA-TCACTGCTGC
1 TGATGGCTTTGTACCGATCATAGT-ACCGTTAC
* * * *
59662473 TGCTAGCTTTGTGCCGATCAT-GTTACCGTTTC
1 TGATGGCTTTGTACCGATCATAG-TACCGTTAC
* * * * *
59662505 TGATGGCTGTGTGCCGATCAT-TTCACTGCTAC
1 TGATGGCTTTGTACCGATCATAGT-ACCGTTAC
59662537 TGATGGCTTTG
1 TGATGGCTTTG
59662548 AGCCAATCAC
Statistics
Matches: 191, Mismatches: 37, Indels: 14
0.79 0.15 0.06
Matches are distributed among these distances:
31 4 0.02
32 185 0.97
33 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.24, T:0.37
Consensus pattern (32 bp):
TGATGGCTTTGTACCGATCATAGTACCGTTAC
Found at i:59662445 original size:96 final size:95
Alignment explanation
Indices: 59662281--59662576 Score: 296
Period size: 96 Copynumber: 3.1 Consensus size: 95
59662271 ACGGTGCTGT
* * * * *
59662281 TGATGGCTTTGTACCGATCATAGTACCATTAATGATGGCTTTGTACCGATCATAGT-A-TCGTTA
1 TGATGGCTTTGT-GCGATCATAGTACCGTTACTGATGGCTTTGTGCCGATCAT-TTCACT-GTTA
* *
59662344 CTAATGGCTTTGTGTCGATCATAGT-ACTGTTAC
63 CTAATGGCTTTGTGCCGATCATA-TCACTGCTAC
*
59662377 TGATGGCTTTGTGCGAATCATAGTACCGTTACTGATGGCTTTGTGCTGATCATTTCACTGTTACT
1 TGATGGCTTTGTGCG-ATCATAGTACCGTTACTGATGGCTTTGTGCCGATCATTTCACTGTTACT
* * *
59662442 AATGGCTGTGTGCCGGTCATATCACTGCTGC
65 AATGGCTTTGTGCCGATCATATCACTGCTAC
* * * * *
59662473 TGCTAGCTTTGTGCCGATCAT-GTTACCGTTTCTGATGGCTGTGTGCCGATCATTTCACTGCTAC
1 TGATGGCTTTGTG-CGATCATAG-TACCGTTACTGATGGCTTTGTGCCGATCATTTCACTGTTAC
* * * * *
59662537 TGATGGCTTTGAGCCAATCACATTACTG-TAC
64 TAATGGCTTTGTGCCGATCATATCACTGCTAC
*
59662568 TTATGGCTT
1 TGATGGCTT
59662577 GTAGCCATTC
Statistics
Matches: 166, Mismatches: 28, Indels: 13
0.80 0.14 0.06
Matches are distributed among these distances:
95 13 0.08
96 150 0.90
97 3 0.02
ACGTcount: A:0.20, C:0.21, G:0.23, T:0.37
Consensus pattern (95 bp):
TGATGGCTTTGTGCGATCATAGTACCGTTACTGATGGCTTTGTGCCGATCATTTCACTGTTACTA
ATGGCTTTGTGCCGATCATATCACTGCTAC
Found at i:59662546 original size:64 final size:64
Alignment explanation
Indices: 59662281--59662556 Score: 240
Period size: 64 Copynumber: 4.3 Consensus size: 64
59662271 ACGGTGCTGT
* * * * * *
59662281 TGATGGCTTTGTACCGATCATAGTACCATTAATGATGGCTTTGTACCGATCATAGTA-TCGTTAC
1 TGATGGCTTTGTGCCGATCATAGTACCGTTACTGATGGCTGTGTGCCGATCATAGTACT-GCTAC
* * * * * *
59662345 TAATGGCTTTGTGTCGATCATAGTACTGTTACTGATGGCTTTGTG-CGAATCATAGTACCGTTAC
1 TGATGGCTTTGTGCCGATCATAGTACCGTTACTGATGGCTGTGTGCCG-ATCATAGTACTGCTAC
* * * * * *
59662409 TGATGGCTTTGTGCTGATCAT-TTCACTGTTACTAATGGCTGTGTGCCGGTCATA-TCACTGCTG
1 TGATGGCTTTGTGCCGATCATAGT-ACCGTTACTGATGGCTGTGTGCCGATCATAGT-ACTGCTA
59662472 C
64 C
* * * *
59662473 TGCTAGCTTTGTGCCGATCAT-GTTACCGTTTCTGATGGCTGTGTGCCGATCAT-TTCACTGCTA
1 TGATGGCTTTGTGCCGATCATAG-TACCGTTACTGATGGCTGTGTGCCGATCATAGT-ACTGCTA
59662536 C
64 C
* *
59662537 TGATGGCTTTGAGCCAATCA
1 TGATGGCTTTGTGCCGATCA
59662557 CATTACTGTA
Statistics
Matches: 174, Mismatches: 31, Indels: 14
0.79 0.14 0.06
Matches are distributed among these distances:
63 4 0.02
64 167 0.96
65 3 0.02
ACGTcount: A:0.20, C:0.21, G:0.23, T:0.37
Consensus pattern (64 bp):
TGATGGCTTTGTGCCGATCATAGTACCGTTACTGATGGCTGTGTGCCGATCATAGTACTGCTAC
Found at i:59662593 original size:22 final size:21
Alignment explanation
Indices: 59662568--59662631 Score: 65
Period size: 22 Copynumber: 2.9 Consensus size: 21
59662558 ATTACTGTAC
59662568 TTATGGCTTGTAGCCATTCTGT
1 TTATGGCTT-TAGCCATTCTGT
* * *
59662590 TTATAGCTTATAGCTATCCTGT
1 TTATGGCTT-TAGCCATTCTGT
*
59662612 TTACGGCTCTTAGCCATTCT
1 TTATGGCT-TTAGCCATTCT
59662632 AACTACTGGT
Statistics
Matches: 33, Mismatches: 8, Indels: 2
0.77 0.19 0.05
Matches are distributed among these distances:
22 32 0.97
23 1 0.03
ACGTcount: A:0.17, C:0.22, G:0.17, T:0.44
Consensus pattern (21 bp):
TTATGGCTTTAGCCATTCTGT
Found at i:59662655 original size:26 final size:26
Alignment explanation
Indices: 59662626--59662677 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
59662616 GGCTCTTAGC
* * *
59662626 CATTCTAACTACTGGTAGCTCTGCTG
1 CATTATAACTACTGGCAGCTATGCTG
*
59662652 CATTATTACTACTGGCAGCTATGCTG
1 CATTATAACTACTGGCAGCTATGCTG
59662678 TGATATTGGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.21, C:0.25, G:0.19, T:0.35
Consensus pattern (26 bp):
CATTATAACTACTGGCAGCTATGCTG
Found at i:59664331 original size:29 final size:28
Alignment explanation
Indices: 59664295--59664372 Score: 95
Period size: 29 Copynumber: 2.7 Consensus size: 28
59664285 TCATGAGATT
59664295 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
59664325 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
*
59664352 TGGCACTAAGTATGCGTGGTT
1 -GGCACTAAGTGTGCG-GGTT
59664373 GATTATTAAG
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
27 5 0.12
29 34 0.81
30 3 0.07
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.29
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:59664590 original size:174 final size:174
Alignment explanation
Indices: 59664325--59664686 Score: 688
Period size: 174 Copynumber: 2.1 Consensus size: 174
59664315 AAATTGTACA
59664325 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTATGCGTGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTATGCGTGGTTGATTATTAAGCACTATG
59664390 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACCTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACCTTACCGAGTCGA
59664455 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
* * *
59664499 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTTCGTGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTATGCGTGGTTGATTATTAAGCACTATG
*
59664564 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACCTTATCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACCTTACCGAGTCGA
59664629 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
59664673 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
59664687 CGGTTGATTA
Statistics
Matches: 183, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
174 183 1.00
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTATGCGTGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACCTTACCGAGTCGA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:59664770 original size:145 final size:145
Alignment explanation
Indices: 59664524--59664797 Score: 494
Period size: 145 Copynumber: 1.9 Consensus size: 145
59664514 GTTTAAAGTA
* *
59664524 CATGGCACTAAGTGTTCGTGGTTGATTATTAAGCACTATGTGTGCGAACCCAATATATATTTTCT
1 CATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATGTGTGCGAACCCAATATATATTTTCT
* * *
59664589 ATAAATTATTTACATTAAGGGTGCGACCTTATCGAGTCGATTTTGGACAGCGGAAAAGGTAAGTG
66 ATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAATTTTGGACAGCGGAAAAGGTAAGTG
59664654 TGCGAACTTGAAATG
131 TGCGAACTTGAAATG
59664669 CATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATGTGTGCGAACCCAATATATATTTTCT
1 CATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATGTGTGCGAACCCAATATATATTTTCT
*
59664734 ATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAATTTTGGACAGCGGAAAAGGTAAGT
66 ATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAATTTTGGACAGCGGAAAAGGTAAGT
59664798 ACCTTGAGTT
Statistics
Matches: 123, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
145 123 1.00
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.32
Consensus pattern (145 bp):
CATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATGTGTGCGAACCCAATATATATTTTCT
ATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAATTTTGGACAGCGGAAAAGGTAAGTG
TGCGAACTTGAAATG
Found at i:59673158 original size:28 final size:27
Alignment explanation
Indices: 59673103--59673167 Score: 76
Period size: 28 Copynumber: 2.3 Consensus size: 27
59673093 CATACTTGCA
* *
59673103 CCACACTGTTTCTGTATCGGGCTTAGG
1 CCACACTGTTTCTGTATCGGGATGAGG
* *
59673130 CTCACACTGTTTCTGTTTTGGGATGAGG
1 C-CACACTGTTTCTGTATCGGGATGAGG
59673158 CCAACACTGT
1 CC-ACACTGT
59673168 ACTGTTACTG
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
27 2 0.06
28 30 0.94
ACGTcount: A:0.17, C:0.25, G:0.25, T:0.34
Consensus pattern (27 bp):
CCACACTGTTTCTGTATCGGGATGAGG
Found at i:59677527 original size:54 final size:54
Alignment explanation
Indices: 59677460--59677763 Score: 296
Period size: 54 Copynumber: 5.6 Consensus size: 54
59677450 ACTCGTAGCC
* * * *
59677460 AAATGACCGAAATACCCCTGTAGGGTAAAATGA-TCGAAATACCCCCAAAGGGTA
1 AAATGACCAAAATACCCCCGAAGGGTAAAATGACT-AAAATACCCCCAAAGGGTA
* ** * * * *
59677514 AAATGATCAAAATACCCATGAAAGGTAAAATAACTTAAATATCCCCAAAGGGTA
1 AAATGACCAAAATACCCCCGAAGGGTAAAATGACTAAAATACCCCCAAAGGGTA
* * * *
59677568 AAATGATCGAAATACCCCCGAAGGGTAAAATGACTAAAATACCCCTTAAA-AGTA
1 AAATGACCAAAATACCCCCGAAGGGTAAAATGACTAAAATACCCC-CAAAGGGTA
* * * * **
59677622 AAATAACCGAAATACCCTCGAAGGGTAAAATGACTGAAATACCCTTGAAA-GGTA
1 AAATGACCAAAATACCCCCGAAGGGTAAAATGACTAAAATACCC-CCAAAGGGTA
* * *
59677676 AAATGACTAAAATACCCCCAAAAGGTAAAATGA-TCAAAATACCCCC-AAGGGTA
1 AAATGACCAAAATACCCCCGAAGGGTAAAATGACT-AAAATACCCCCAAAGGGTA
*
59677729 AAATGACCAAAATACCCCC-ATAGGATAAAATGACT
1 AAATGACCAAAATACCCCCGA-AGGGTAAAATGACT
59677764 GTTATACCTT
Statistics
Matches: 207, Mismatches: 36, Indels: 14
0.81 0.14 0.05
Matches are distributed among these distances:
52 3 0.01
53 33 0.16
54 167 0.81
55 4 0.02
ACGTcount: A:0.46, C:0.20, G:0.15, T:0.18
Consensus pattern (54 bp):
AAATGACCAAAATACCCCCGAAGGGTAAAATGACTAAAATACCCCCAAAGGGTA
Found at i:59677607 original size:81 final size:81
Alignment explanation
Indices: 59677481--59677763 Score: 321
Period size: 81 Copynumber: 3.5 Consensus size: 81
59677471 ATACCCCTGT
* * *
59677481 AGGGTAAAATGATCGAAATACCCCCAAAGGGTAAAATGA-TCAAAATACCCATGAAAGGTAAAAT
1 AGGGTAAAATGATCGAAATACCCCCGAAGGGTAAAATGACT-AAAATACCCCTAAAAGGTAAAAT
*
59677545 AACTTAAATATCCCCAA
65 AACTCAAATATCCCCAA
59677562 AGGGTAAAATGATCGAAATACCCCCGAAGGGTAAAATGACTAAAATACCCCTTAAAA-GTAAAAT
1 AGGGTAAAATGATCGAAATACCCCCGAAGGGTAAAATGACTAAAATACCCC-TAAAAGGTAAAAT
*
59677626 AAC-CGAAATA-CCCTCGA
65 AACTC-AAATATCCC-CAA
** * *
59677643 AGGGTAAAATGA-CTGAAATACCCTTGAAAGGTAAAATGACTAAAATACCCCCAAAAGGTAAAAT
1 AGGGTAAAATGATC-GAAATACCCCCGAAGGGTAAAATGACTAAAATACCCCTAAAAGGTAAAAT
* *
59677707 GA-TCAAA-ATACCCCCA
65 AACTCAAATAT-CCCCAA
* * *
59677723 AGGGTAAAATGACCAAAATACCCCC-ATAGGATAAAATGACT
1 AGGGTAAAATGATCGAAATACCCCCGA-AGGGTAAAATGACT
59677764 GTTATACCTT
Statistics
Matches: 175, Mismatches: 16, Indels: 23
0.82 0.07 0.11
Matches are distributed among these distances:
79 2 0.01
80 45 0.26
81 123 0.70
82 5 0.03
ACGTcount: A:0.47, C:0.20, G:0.16, T:0.18
Consensus pattern (81 bp):
AGGGTAAAATGATCGAAATACCCCCGAAGGGTAAAATGACTAAAATACCCCTAAAAGGTAAAATA
ACTCAAATATCCCCAA
Found at i:59677747 original size:27 final size:27
Alignment explanation
Indices: 59677460--59677762 Score: 268
Period size: 27 Copynumber: 11.3 Consensus size: 27
59677450 ACTCGTAGCC
* * *
59677460 AAATGACCGAAATACCCCTGTAGGGTA
1 AAATGACCAAAATACCCCCGAAGGGTA
* * *
59677487 AAATGATCGAAATACCCCCAAAGGGTA
1 AAATGACCAAAATACCCCCGAAGGGTA
* ** *
59677514 AAATGATCAAAATACCCATGAAAGGTA
1 AAATGACCAAAATACCCCCGAAGGGTA
* ** * *
59677541 AAATAACTTAAATATCCCCAAAGGGTA
1 AAATGACCAAAATACCCCCGAAGGGTA
* *
59677568 AAATGATCGAAATACCCCCGAAGGGTA
1 AAATGACCAAAATACCCCCGAAGGGTA
* ** **
59677595 AAATGACTAAAATACCCCTTAAAAGTA
1 AAATGACCAAAATACCCCCGAAGGGTA
* * *
59677622 AAATAACCGAAATACCCTCGAAGGGTA
1 AAATGACCAAAATACCCCCGAAGGGTA
** ** *
59677649 AAATGACTGAAATACCCTTGAAAGGTA
1 AAATGACCAAAATACCCCCGAAGGGTA
* * *
59677676 AAATGACTAAAATACCCCCAAAAGGTA
1 AAATGACCAAAATACCCCCGAAGGGTA
*
59677703 AAATGATCAAAATACCCCC-AAGGGTA
1 AAATGACCAAAATACCCCCGAAGGGTA
*
59677729 AAATGACCAAAATACCCCC-ATAGGATA
1 AAATGACCAAAATACCCCCGA-AGGGTA
59677756 AAATGAC
1 AAATGAC
59677763 TGTTATACCT
Statistics
Matches: 223, Mismatches: 52, Indels: 2
0.81 0.19 0.01
Matches are distributed among these distances:
26 25 0.11
27 198 0.89
ACGTcount: A:0.47, C:0.20, G:0.16, T:0.17
Consensus pattern (27 bp):
AAATGACCAAAATACCCCCGAAGGGTA
Found at i:59678947 original size:18 final size:17
Alignment explanation
Indices: 59678913--59678947 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
59678903 CTTAAATTAG
*
59678913 AGAAAACTGAGACTGTA
1 AGAAAACTGAAACTGTA
59678930 AGAAAACTGGAAACTGTA
1 AGAAAACT-GAAACTGTA
59678948 GGGAACTCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.49, C:0.11, G:0.23, T:0.17
Consensus pattern (17 bp):
AGAAAACTGAAACTGTA
Found at i:59685106 original size:27 final size:27
Alignment explanation
Indices: 59685068--59685613 Score: 477
Period size: 27 Copynumber: 20.3 Consensus size: 27
59685058 ATTCGTGGGC
* * *
59685068 AAATGACTGAAATACTCCTAAAGGATA
1 AAATGACCGAAATACCCCTAAAGGGTA
* * *
59685095 AAATGACCGAAATAGCCTTGAAGGGTA
1 AAATGACCGAAATACCCCTAAAGGGTA
*
59685122 AAATGACCGAAATACCACC-AAAGGATA
1 AAATGACCGAAATACC-CCTAAAGGGTA
* *
59685149 AAATGACCAAAATACCCTCGAAA-GGTA
1 AAATGACCGAAATACCC-CTAAAGGGTA
* * *
59685176 AAATAACCAAAATACCCCCAAAGGGTA
1 AAATGACCGAAATACCCCTAAAGGGTA
59685203 AAATGACCGAAATACCCC-AGAAGGGTA
1 AAATGACCGAAATACCCCTA-AAGGGTA
* * *
59685230 AAATGATCGAAATACCCCCAAAAGGTA
1 AAATGACCGAAATACCCCTAAAGGGTA
* * *
59685257 AAATAACCGAAATACCCCCAAAAGGTA
1 AAATGACCGAAATACCCCTAAAGGGTA
* *
59685284 AAATAATCGAAATACCCCTGAAA-GGTA
1 AAATGACCGAAATACCCCT-AAAGGGTA
* *
59685311 AAATGATCGAAATACCCCCTAAA-GATA
1 AAATGACCGAAATA-CCCCTAAAGGGTA
** *
59685338 AAATGACTAAAATATGCCC-AAAGGGTA
1 AAATGACCGAAATA-CCCCTAAAGGGTA
* * * *
59685365 AAATGATCGAAATACCCTTGAAGAGTA
1 AAATGACCGAAATACCCCTAAAGGGTA
* * *
59685392 AAATAATCGAAATACCCCTAAAAGGTA
1 AAATGACCGAAATACCCCTAAAGGGTA
* *
59685419 AAATGATCGAAATACCTCC-GAAGGGTA
1 AAATGACCGAAATACC-CCTAAAGGGTA
* * *
59685446 AAATGACAGAAATACCCCCT-TAGGGAA
1 AAATGACCGAAATA-CCCCTAAAGGGTA
* * *
59685473 AAATAACCGAAATAACCCTAATGGGTA
1 AAATGACCGAAATACCCCTAAAGGGTA
** *
59685500 AAATGACTAAAATACCCTCGAAA-GGTA
1 AAATGACCGAAATACCC-CTAAAGGGTA
59685527 AAATGACCGAAATACTCCC-AAAGGGTA
1 AAATGACCGAAATAC-CCCTAAAGGGTA
** *
59685554 AAATGACAAAAATACCCCCAAAGGGTA
1 AAATGACCGAAATACCCCTAAAGGGTA
**
59685581 AAATGACTAAAATACCCCGT--AGGGTA
1 AAATGACCGAAATACCCC-TAAAGGGTA
59685607 AAATGAC
1 AAATGAC
59685614 TATTATACCC
Statistics
Matches: 433, Mismatches: 67, Indels: 39
0.80 0.12 0.07
Matches are distributed among these distances:
26 34 0.08
27 377 0.87
28 22 0.05
ACGTcount: A:0.47, C:0.20, G:0.16, T:0.16
Consensus pattern (27 bp):
AAATGACCGAAATACCCCTAAAGGGTA
Found at i:59685818 original size:26 final size:25
Alignment explanation
Indices: 59685776--59685852 Score: 91
Period size: 26 Copynumber: 3.0 Consensus size: 25
59685766 TGGAGGAAGT
*
59685776 ATACTATTCTGGCAGCTTTGCTGCG
1 ATACTATACTGGCAGCTTTGCTGCG
* * *
59685801 ATACTGATACTGGTAGCTCTGCTGTG
1 ATACT-ATACTGGCAGCTTTGCTGCG
*
59685827 ATGCTACTACTGGCAGCTTTGCTGCG
1 ATACTA-TACTGGCAGCTTTGCTGCG
59685853 GTATTGGTAT
Statistics
Matches: 42, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
25 6 0.14
26 36 0.86
ACGTcount: A:0.17, C:0.23, G:0.26, T:0.34
Consensus pattern (25 bp):
ATACTATACTGGCAGCTTTGCTGCG
Found at i:59686023 original size:33 final size:33
Alignment explanation
Indices: 59685972--59686055 Score: 99
Period size: 28 Copynumber: 2.7 Consensus size: 33
59685962 ATATTGTATT
*
59685972 GGGCTAAGGCCCACACTGTTACTG-TA---TTA
1 GGGCTAAGGCCCACACTGATACTGTTACTTTTA
59686001 -GGCTAAGGCCCACACT-ATACTGTTACTTTTA
1 GGGCTAAGGCCCACACTGATACTGTTACTTTTA
* *
59686032 GGGCTTAGGCCCAGACTGATACTG
1 GGGCTAAGGCCCACACTGATACTG
59686056 CATGTCGTAT
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
27 5 0.11
28 18 0.39
31 3 0.07
32 14 0.30
33 6 0.13
ACGTcount: A:0.24, C:0.25, G:0.24, T:0.27
Consensus pattern (33 bp):
GGGCTAAGGCCCACACTGATACTGTTACTTTTA
Found at i:59690135 original size:30 final size:30
Alignment explanation
Indices: 59690094--59690155 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 30
59690084 ATTTCCGAGC
59690094 TTTGGGACAAAAGTGTAAATATGCAAAAGT
1 TTTGGGACAAAAGTGTAAATATGCAAAAGT
* * * * *
59690124 TTTGGGGCAAAATTGTAATTTTGCCAAAGT
1 TTTGGGACAAAAGTGTAAATATGCAAAAGT
59690154 TT
1 TT
59690156 GAGTTAATGA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.35, C:0.08, G:0.23, T:0.34
Consensus pattern (30 bp):
TTTGGGACAAAAGTGTAAATATGCAAAAGT
Found at i:59690528 original size:26 final size:26
Alignment explanation
Indices: 59690492--59690544 Score: 90
Period size: 26 Copynumber: 2.0 Consensus size: 26
59690482 TTGGATGAAA
59690492 AGGGGTCGCTAAGTG-TAGATTCCCTG
1 AGGGGTCGCTAAGTGCTA-ATTCCCTG
59690518 AGGGGTCGCTAAGTGCTAATTCCCTG
1 AGGGGTCGCTAAGTGCTAATTCCCTG
59690544 A
1 A
59690545 ATTATTGATT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
26 24 0.92
27 2 0.08
ACGTcount: A:0.21, C:0.21, G:0.32, T:0.26
Consensus pattern (26 bp):
AGGGGTCGCTAAGTGCTAATTCCCTG
Found at i:59690665 original size:43 final size:41
Alignment explanation
Indices: 59690525--59690704 Score: 186
Period size: 42 Copynumber: 4.3 Consensus size: 41
59690515 CTGAGGGGTC
* * * * *
59690525 GCTAAGTGCTAATTCCCTGAATTATTGATTCTAAAGGTGGTT
1 GCTAAGTGCTGATTCCCCGTATCACTGATT-TAAAGGTGGTT
*
59690567 GCTAAGTGCTGATTCCCCGTATCACTGAATATAAAGGTGGTT
1 GCTAAGTGCTGATTCCCCGTATCACTG-ATTTAAAGGTGGTT
* **
59690609 AG-TAAGTGTTGATTCCACCGTATCTTTGATTGTGAAAGG-GGTT
1 -GCTAAGTGCTGATTCC-CCGTATCACTGATT-T-AAAGGTGGTT
*
59690652 GCTATGTGCTGATTCCCCGTATCACTGAATTT-AAGGTGGTT
1 GCTAAGTGCTGATTCCCCGTATCACTG-ATTTAAAGGTGGTT
59690693 GCTAAGTGCTGA
1 GCTAAGTGCTGA
59690705 ATCCACCGAG
Statistics
Matches: 115, Mismatches: 15, Indels: 17
0.78 0.10 0.12
Matches are distributed among these distances:
40 4 0.03
41 15 0.13
42 59 0.51
43 32 0.28
44 5 0.04
ACGTcount: A:0.24, C:0.16, G:0.25, T:0.35
Consensus pattern (41 bp):
GCTAAGTGCTGATTCCCCGTATCACTGATTTAAAGGTGGTT
Found at i:59690669 original size:85 final size:84
Alignment explanation
Indices: 59690549--59690712 Score: 242
Period size: 85 Copynumber: 1.9 Consensus size: 84
59690539 CCCTGAATTA
59690549 TTGATTCTAAAGGTGGTTGCTAAGTGCTGATTCCCCGTATCACTGAATATAAAGGTGGTTAG-TA
1 TTGATTCTAAAGGTGGTTGCTAAGTGCTGATTCCCCGTATCACTGAAT-TAAAGGTGGTT-GCTA
* *
59690613 AGTGTTGATTCCACCGTATCT
64 AGTGCTGAATCCACCGTATCT
* * *
59690634 TTGATTGTGAAAGG-GGTTGCTATGTGCTGATTCCCCGTATCACTGAATTTAAGGTGGTTGCTAA
1 TTGATTCT-AAAGGTGGTTGCTAAGTGCTGATTCCCCGTATCACTGAATTAAAGGTGGTTGCTAA
59690698 GTGCTGAATCCACCG
65 GTGCTGAATCCACCG
59690713 AGTAACGGAT
Statistics
Matches: 72, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
83 1 0.01
84 26 0.36
85 40 0.56
86 5 0.07
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.34
Consensus pattern (84 bp):
TTGATTCTAAAGGTGGTTGCTAAGTGCTGATTCCCCGTATCACTGAATTAAAGGTGGTTGCTAAG
TGCTGAATCCACCGTATCT
Found at i:59691203 original size:18 final size:18
Alignment explanation
Indices: 59691180--59691215 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
59691170 AGAAACAAAC
59691180 AAGAACATATTTTGAATT
1 AAGAACATATTTTGAATT
59691198 AAGAACATATTTTGAATT
1 AAGAACATATTTTGAATT
59691216 CTGTACAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.06, G:0.11, T:0.39
Consensus pattern (18 bp):
AAGAACATATTTTGAATT
Found at i:59700467 original size:25 final size:25
Alignment explanation
Indices: 59700433--59700499 Score: 82
Period size: 25 Copynumber: 2.7 Consensus size: 25
59700423 TCTGACCCAC
*
59700433 AGCTCATGTGAGCATACCGAATT-AA
1 AGCTCGTGTGAGCATACCG-ATTCAA
* *
59700458 AGCTCGTGTGAGCATGCCGATTCAC
1 AGCTCGTGTGAGCATACCGATTCAA
*
59700483 AGTTCGTGTGAGCATAC
1 AGCTCGTGTGAGCATAC
59700500 ATGTATAGGA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
24 3 0.08
25 33 0.92
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.25
Consensus pattern (25 bp):
AGCTCGTGTGAGCATACCGATTCAA
Found at i:59705747 original size:27 final size:27
Alignment explanation
Indices: 59705671--59705755 Score: 82
Period size: 27 Copynumber: 3.1 Consensus size: 27
59705661 CAAATTTACT
** *
59705671 GAAACACCCCTGATGTGTAAAATTA-C
1 GAAACACCCCCAATCTGTAAAATTATC
* * * *
59705697 TAAAATACCCCCAGTTTGTAAAATTATC
1 -GAAACACCCCCAATCTGTAAAATTATC
*
59705725 GAAACACCCCCAATCTGTGAAATTATC
1 GAAACACCCCCAATCTGTAAAATTATC
59705752 GAAA
1 GAAA
59705756 TACGCTTGGT
Statistics
Matches: 46, Mismatches: 11, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
27 45 0.98
28 1 0.02
ACGTcount: A:0.40, C:0.24, G:0.12, T:0.25
Consensus pattern (27 bp):
GAAACACCCCCAATCTGTAAAATTATC
Found at i:59705748 original size:54 final size:54
Alignment explanation
Indices: 59705632--59705758 Score: 132
Period size: 54 Copynumber: 2.4 Consensus size: 54
59705622 ACCCTCTATT
* * * ** *
59705632 TGTGAAATTACCTAAATACCCTCGGTTTGCAAATTTACTGAAACACCCCTGATG
1 TGTGAAATTACCTAAATACCCCCAGTTTGCAAAATTACTGAAACACCCCCAATC
* *
59705686 TGTAAAATTA-CTAAAATACCCCCAGTTTGTAAAATTA-TCGAAACACCCCCAATC
1 TGTGAAATTACCT-AAATACCCCCAGTTTGCAAAATTACT-GAAACACCCCCAATC
* *
59705740 TGTGAAATTATCGAAATAC
1 TGTGAAATTACCTAAATAC
59705759 GCTTGGTTTT
Statistics
Matches: 60, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
53 3 0.05
54 56 0.93
55 1 0.02
ACGTcount: A:0.37, C:0.23, G:0.12, T:0.28
Consensus pattern (54 bp):
TGTGAAATTACCTAAATACCCCCAGTTTGCAAAATTACTGAAACACCCCCAATC
Found at i:59706282 original size:28 final size:28
Alignment explanation
Indices: 59706250--59706310 Score: 113
Period size: 28 Copynumber: 2.2 Consensus size: 28
59706240 TACTGCATAC
*
59706250 TGTTTCTGTATTGGGCTAAGGCCCACCT
1 TGTTTCTGTATTGGGCTAAAGCCCACCT
59706278 TGTTTCTGTATTGGGCTAAAGCCCACCT
1 TGTTTCTGTATTGGGCTAAAGCCCACCT
59706306 TGTTT
1 TGTTT
59706311 TGTTCTGTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.15, C:0.23, G:0.23, T:0.39
Consensus pattern (28 bp):
TGTTTCTGTATTGGGCTAAAGCCCACCT
Found at i:59712390 original size:26 final size:26
Alignment explanation
Indices: 59712359--59712413 Score: 92
Period size: 26 Copynumber: 2.1 Consensus size: 26
59712349 AAACTCAGCC
*
59712359 GCCGTATACCCCAACAGCAGCCACCA
1 GCCGTATACCCCAACAGCACCCACCA
*
59712385 GCCGTATACCCCAACAGCACCCCCCA
1 GCCGTATACCCCAACAGCACCCACCA
59712411 GCC
1 GCC
59712414 ACTGCCTTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.27, C:0.51, G:0.15, T:0.07
Consensus pattern (26 bp):
GCCGTATACCCCAACAGCACCCACCA
Found at i:59713495 original size:9 final size:8
Alignment explanation
Indices: 59713478--59713506 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
59713468 TAGACTCTAC
59713478 TTATTTTT
1 TTATTTTT
59713486 TTATTTTT
1 TTATTTTT
59713494 TTATTTTT
1 TTATTTTT
59713502 TTATT
1 TTATT
59713507 ACTATTTTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (8 bp):
TTATTTTT
Found at i:59713534 original size:18 final size:19
Alignment explanation
Indices: 59713513--59713550 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
59713503 TATTACTATT
59713513 TTCATT-ATGATTATTTTA
1 TTCATTAATGATTATTTTA
*
59713531 TTCATTAATTATTATTTTA
1 TTCATTAATGATTATTTTA
59713550 T
1 T
59713551 ATCCTTTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.29, C:0.05, G:0.03, T:0.63
Consensus pattern (19 bp):
TTCATTAATGATTATTTTA
Found at i:59713618 original size:3 final size:3
Alignment explanation
Indices: 59713612--59713638 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
59713602 CTACTACTAC
59713612 TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT
59713639 GACTCTTGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:59719122 original size:1 final size:1
Alignment explanation
Indices: 59719116--59719243 Score: 58
Period size: 1 Copynumber: 128.0 Consensus size: 1
59719106 AGTAGAGGAC
* * * * * * * * * * *
59719116 AAAAAAATAAAAAATAAAAAACAAAAAATAAAAAATAAAAACACAAAAAACACAAAAAACACAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * * * * * * * * *
59719181 AAAACACAAAATAAAAACAAAATAAAAACAAAATAAAAAAAGAACAAAAAAAAGAAACAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
59719244 CTTCTACCGA
Statistics
Matches: 83, Mismatches: 44, Indels: 0
0.65 0.35 0.00
Matches are distributed among these distances:
1 83 1.00
ACGTcount: A:0.83, C:0.10, G:0.02, T:0.05
Consensus pattern (1 bp):
A
Found at i:59719129 original size:7 final size:7
Alignment explanation
Indices: 59719117--59719220 Score: 72
Period size: 7 Copynumber: 14.9 Consensus size: 7
59719107 GTAGAGGACA
59719117 AAAAAAT
1 AAAAAAT
59719124 AAAAAAT
1 AAAAAAT
*
59719131 AAAAAAC
1 AAAAAAT
59719138 AAAAAAT
1 AAAAAAT
59719145 AAAAAAT
1 AAAAAAT
*
59719152 AAAAACAC
1 AAAAA-AT
*
59719160 AAAAAAC
1 AAAAAAT
*
59719167 ACAAAA-
1 AAAAAAT
* *
59719173 AACACA-
1 AAAAAAT
*
59719179 AAAAAAC
1 AAAAAAT
*
59719186 ACAAAAT
1 AAAAAAT
59719193 AAAAACA-
1 AAAAA-AT
59719200 AAATAAA-
1 AAA-AAAT
59719207 AACAAAAT
1 AA-AAAAT
59719215 AAAAAA
1 AAAAAA
59719221 AGAACAAAAA
Statistics
Matches: 79, Mismatches: 12, Indels: 12
0.77 0.12 0.12
Matches are distributed among these distances:
6 7 0.09
7 60 0.76
8 12 0.15
ACGTcount: A:0.83, C:0.11, G:0.00, T:0.07
Consensus pattern (7 bp):
AAAAAAT
Found at i:59719143 original size:21 final size:21
Alignment explanation
Indices: 59719117--59719243 Score: 97
Period size: 21 Copynumber: 6.2 Consensus size: 21
59719107 GTAGAGGACA
*
59719117 AAAAAATAAAAAATAAAAAAC
1 AAAAAACAAAAAATAAAAAAC
*
59719138 AAAAAATAAAAAATAAAAACAC
1 AAAAAACAAAAAATAAAAA-AC
* * *
59719160 AAAAAACACAAAA-AACACA-
1 AAAAAACAAAAAATAAAAAAC
*
59719179 AAAAAACACAAAAT-AAAAAC
1 AAAAAACAAAAAATAAAAAAC
*
59719199 AAAATAA-AAACAAA-ATAAAA-
1 AAAA-AACAAA-AAATAAAAAAC
* *
59719219 AAAGAACAAAAAA-AAGAAAC
1 AAAAAACAAAAAATAAAAAAC
59719239 AAAAA
1 AAAAA
59719244 CTTCTACCGA
Statistics
Matches: 86, Mismatches: 12, Indels: 17
0.75 0.10 0.15
Matches are distributed among these distances:
19 25 0.29
20 17 0.20
21 31 0.36
22 13 0.15
ACGTcount: A:0.83, C:0.10, G:0.02, T:0.06
Consensus pattern (21 bp):
AAAAAACAAAAAATAAAAAAC
Found at i:59719175 original size:18 final size:19
Alignment explanation
Indices: 59719152--59719191 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
59719142 AATAAAAAAT
59719152 AAAAACAC-AAAAAACACA
1 AAAAACACAAAAAAACACA
59719170 AAAAACACAAAAAAACACA
1 AAAAACACAAAAAAACACA
59719189 AAA
1 AAA
59719192 TAAAAACAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 8 0.38
19 13 0.62
ACGTcount: A:0.80, C:0.20, G:0.00, T:0.00
Consensus pattern (19 bp):
AAAAACACAAAAAAACACA
Found at i:59719194 original size:41 final size:38
Alignment explanation
Indices: 59719119--59719242 Score: 119
Period size: 41 Copynumber: 3.1 Consensus size: 38
59719109 AGAGGACAAA
* *
59719119 AAAATAAAAAATAAAAAACAAAAAATAAAAAATAAAAAC
1 AAAAT-AAAAACAAAAAACAAAAAAAAAAAAATAAAAAC
*
59719158 ACAAA-AAACACAAAAAACACAAAAAAACACAAAATAAAAAC
1 A-AAATAAAAACAAAAAACA-AAAAAAA-A-AAAATAAAAAC
59719199 AAAATAAAAACAAAATAA-AAAAAGAACAAAAAA-AAGAAAC
1 AAAATAAAAACAAAA-AACAAAAA-AA-AAAAAATAA-AAAC
59719239 AAAA
1 AAAA
59719243 ACTTCTACCG
Statistics
Matches: 72, Mismatches: 4, Indels: 17
0.77 0.04 0.18
Matches are distributed among these distances:
38 12 0.17
39 9 0.12
40 23 0.32
41 25 0.35
42 3 0.04
ACGTcount: A:0.82, C:0.10, G:0.02, T:0.06
Consensus pattern (38 bp):
AAAATAAAAACAAAAAACAAAAAAAAAAAAATAAAAAC
Found at i:59719219 original size:11 final size:10
Alignment explanation
Indices: 59719114--59719243 Score: 97
Period size: 11 Copynumber: 12.7 Consensus size: 10
59719104 GCAGTAGAGG
59719114 ACAAAAAAATA
1 ACAAAAAAA-A
*
59719125 AAAAATAAAAA
1 ACAAA-AAAAA
59719136 ACAAAAAATAA
1 ACAAAAAA-AA
*
59719147 A-AAATAAAA
1 ACAAAAAAAA
*
59719156 AC-ACAAAAA
1 ACAAAAAAAA
*
59719165 ACACAAAAAAC
1 ACA-AAAAAAA
*
59719176 ACAAAAAAAC
1 ACAAAAAAAA
59719186 ACAAAATAAAA
1 ACAAAA-AAAA
59719197 ACAAAATAAAA
1 ACAAAA-AAAA
59719208 ACAAAATAAAA
1 ACAAAA-AAAA
* *
59719219 A-AAGAACAA
1 ACAAAAAAAA
*
59719228 A-AAAAAGAA
1 ACAAAAAAAA
59719237 ACAAAAA
1 ACAAAAA
59719244 CTTCTACCGA
Statistics
Matches: 100, Mismatches: 12, Indels: 15
0.79 0.09 0.12
Matches are distributed among these distances:
9 21 0.21
10 29 0.29
11 46 0.46
12 4 0.04
ACGTcount: A:0.82, C:0.11, G:0.02, T:0.05
Consensus pattern (10 bp):
ACAAAAAAAA
Found at i:59719221 original size:48 final size:48
Alignment explanation
Indices: 59719131--59719232 Score: 120
Period size: 48 Copynumber: 2.1 Consensus size: 48
59719121 AATAAAAAAT
* *
59719131 AAAAAACAAAAAATAAAAAATAAAAACACAAAAAACACAAAAA-ACACA
1 AAAAAACAAAAAATAAAAAAAAAAAAAACAAAAAACACAAAAAGA-ACA
* *
59719179 AAAAAACACAAAATAAAAACAAAATAAAAACAAAATA-A-AAAAAGAACA
1 AAAAAACAAAAAATAAAAA-AAAA-AAAAACAAAAAACACAAAAAGAACA
59719227 AAAAAA
1 AAAAAA
59719233 AGAAACAAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
48 32 0.68
49 5 0.11
50 10 0.21
ACGTcount: A:0.82, C:0.12, G:0.01, T:0.05
Consensus pattern (48 bp):
AAAAAACAAAAAATAAAAAAAAAAAAAACAAAAAACACAAAAAGAACA
Found at i:59719242 original size:10 final size:9
Alignment explanation
Indices: 59719131--59719244 Score: 79
Period size: 10 Copynumber: 11.8 Consensus size: 9
59719121 AATAAAAAAT
59719131 AAAAAACAA
1 AAAAAACAA
*
59719140 AAAATAAAAA
1 AAAA-AACAA
59719150 ATAAAAACACA
1 A-AAAAACA-A
59719161 AAAAACACAA
1 AAAAA-ACAA
*
59719171 AAAACACAA
1 AAAAAACAA
59719180 AAAAACACAAA
1 AAAAA-AC-AA
59719191 ATAAAAACAA
1 A-AAAAACAA
59719201 AATAAAA-ACA
1 AA-AAAACA-A
*
59719211 AAATAA-AA
1 AAAAAACAA
*
59719219 AAAGAACAA
1 AAAAAACAA
*
59719228 AAAAAAGAA
1 AAAAAACAA
59719237 ACAAAAAC
1 A-AAAAAC
59719245 TTCTACCGAA
Statistics
Matches: 85, Mismatches: 9, Indels: 21
0.74 0.08 0.18
Matches are distributed among these distances:
8 6 0.07
9 28 0.33
10 34 0.40
11 13 0.15
12 4 0.05
ACGTcount: A:0.82, C:0.12, G:0.02, T:0.04
Consensus pattern (9 bp):
AAAAAACAA
Found at i:59719738 original size:46 final size:46
Alignment explanation
Indices: 59719666--59719783 Score: 182
Period size: 46 Copynumber: 2.5 Consensus size: 46
59719656 AAAGAAGAAG
* *
59719666 AAAGCACCAAGGTGAAAACTCGCAAAGGGAGCTTTGAGTCCTAAAAA
1 AAAG-ACCAAGGTGAAAACCCGCAAAGGGAGCCTTGAGTCCTAAAAA
* *
59719713 AGAGACCAAGGTGAAAACCCGCAAAGGGCGCCTTGAGTCCTAAAAA
1 AAAGACCAAGGTGAAAACCCGCAAAGGGAGCCTTGAGTCCTAAAAA
*
59719759 AAAGACCAAAGTGAAAACCCGCAAA
1 AAAGACCAAGGTGAAAACCCGCAAA
59719784 TGGCACTTTG
Statistics
Matches: 65, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
46 62 0.95
47 3 0.05
ACGTcount: A:0.44, C:0.22, G:0.23, T:0.11
Consensus pattern (46 bp):
AAAGACCAAGGTGAAAACCCGCAAAGGGAGCCTTGAGTCCTAAAAA
Found at i:59719804 original size:46 final size:46
Alignment explanation
Indices: 59719666--59719845 Score: 130
Period size: 46 Copynumber: 3.8 Consensus size: 46
59719656 AAAGAAGAAG
* * * * **
59719666 AAAGCACCAAGGTGAAAACTCGCAAAGGG-AGCTTTGAGTCCTAAAAA
1 AAAG-ACCAAAGTGAAAACCCGCAAAGGGCA-CCTTGAATCAAAAAAA
* * * * **
59719713 AGAGACCAAGGTGAAAACCCGCAAAGGGCGCCTTGAGTCCTAAAAA
1 AAAGACCAAAGTGAAAACCCGCAAAGGGCACCTTGAATCAAAAAAA
* * *
59719759 AAAGACCAAAGTGAAAACCCGCAAATGGCACTTTGAATTAAAAAAAA
1 AAAGACCAAAGTGAAAACCCGCAAAGGGCACCTTGAA-TCAAAAAAA
*
59719806 AAGGAGAGGCC-AAGTTGAAAACCCGCAAAGGGCGCCTTGA
1 AA--AGA--CCAAAG-TGAAAACCCGCAAAGGGCACCTTGA
59719846 GACCAAAGGG
Statistics
Matches: 110, Mismatches: 16, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
46 69 0.63
47 11 0.10
49 3 0.03
50 3 0.03
51 24 0.22
ACGTcount: A:0.43, C:0.21, G:0.24, T:0.13
Consensus pattern (46 bp):
AAAGACCAAAGTGAAAACCCGCAAAGGGCACCTTGAATCAAAAAAA
Found at i:59720739 original size:24 final size:24
Alignment explanation
Indices: 59720712--59720788 Score: 136
Period size: 24 Copynumber: 3.2 Consensus size: 24
59720702 CCAAAAGTAC
* *
59720712 AGTGGCTTGAACCTTAAAGATTAT
1 AGTGGATTGAACCTTGAAGATTAT
59720736 AGTGGATTGAACCTTGAAGATTAT
1 AGTGGATTGAACCTTGAAGATTAT
59720760 AGTGGATTGAACCTTGAAGATTAT
1 AGTGGATTGAACCTTGAAGATTAT
59720784 AGTGG
1 AGTGG
59720789 GGGCAATCTG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 51 1.00
ACGTcount: A:0.32, C:0.09, G:0.26, T:0.32
Consensus pattern (24 bp):
AGTGGATTGAACCTTGAAGATTAT
Found at i:59721181 original size:51 final size:51
Alignment explanation
Indices: 59721116--59722687 Score: 1158
Period size: 51 Copynumber: 31.9 Consensus size: 51
59721106 AGTTATTATG
* *
59721116 GCGAATCTT-TTTTCCTGGGCGTTGTAGTGGAACAGATTAAAGCTG-AGGACA
1 GCGAATCTTATTTCCCT-GGCGTTGCAGTGGAACAGATTAAAGCTGAAGG-CA
* *
59721167 GCGAATCTTATTTCCCAGGCATTGCAGTGGAACAGATTAAAGCTGAAGGCA
1 GCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCA
* * * * * * *
59721218 GCGAATCTTATTTCCTTAGCATTGCAATGGAATAAATTAAAGTTGAAGGCA
1 GCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCA
* * *
59721269 GCGAATCTTATTTCCCTGGCATTGAAGT-----AGATTAAAGCTAAAGGCA
1 GCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCA
* ** * *
59721315 GCAAATCTT-TTTCCCTTGGCAATGTAGTGGAATAGATTAAAGCTGAAGGCA
1 GCGAATCTTATTTCCC-TGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCA
* * * ** * * *
59721366 GCAAATCTTTTTTCCTTGGCAATGCAGTGGAACAGATTAAGGTTGAAGGTA
1 GCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCA
* * * * *
59721417 GTGAATCTTTTTTCCCTGGCATTCCAGT-----AGATTAAAGCTCAAGGCA
1 GCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCA
* * * * * **
59721463 GCGAATCTTATTTCCTTGGCATTGTAATAGAACAGATTAAAGCAAAAGGCA
1 GCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCA
** *
59721514 ATGAATCTTATTTCCCTAGCGTTGCAGT---A-A-ATTAAAGCTGAAGGCA
1 GCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCA
* *** *
59721560 GTGAATCTTATTTTGTTGGCGTTGCAATGGAACAGATTAAAGCTGAAGGCA
1 GCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCA
* * *
59721611 GCAAATCTTATTTCCCTAGCGTTGTAGT-----AGATTAAAGCTGAAGGCA
1 GCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCA
* * * * * * *
59721657 GTGAATCTTTTTTCCCAGGCGATGCAGTGGAATAGATTAAAGTTGAGGGCA
1 GCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCA
* * *
59721708 GCGAATCTCT-TTTCCCTGGCGTTGTAGT---A-A-ATTAAGGCTGAAAGCA
1 GCGAATCT-TATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCA
*** * * *
59721754 ATAAATCTTATTTCCCTGGCGTT--A---CAATAGATTAAAGATGAAGGCA
1 GCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCA
* * * * *
59721800 ACGAATCTTATTTGCTTGGCGTTACAGTGGAACAGATTAAAGCTGAAAGCA
1 GCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCA
* * * *
59721851 ACGAATCTTATTTCCCTGGTGTTGAAGT-----AGATTAAAGCTGAAAGCA
1 GCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCA
* * * *
59721897 GCGAATCTTATTTCCTTAGCATTGCAGTGGAACAGATTAAAGCTGAAGGCG
1 GCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCA
* * * * * *
59721948 GTGAATCTT-TTT-CCTAAGCATTGCAGTGGAATAGATTAAAGCTGAGGGTA
1 GCGAATCTTATTTCCCT-GGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCA
* * * * * *
59721998 GTGAATCTTTTTTCCCTGGCATTGC-----AATAGATTAAGGCTGGAGGCA
1 GCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCA
* ** *
59722044 GTGAATCTTATTTCCCTAACGTTGCAGTGGAACAAATTAAAGCTGAAGGCA
1 GCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCA
* *
59722095 GCGAATCTTATTTCCCTAGCGTTGCAGTGGACCAGATTAAAGCTGAAGGCA
1 GCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCA
* * * *
59722146 ACAAATCTTTTTTCCCTGGGGTTGCAGTGGAACAGATTAAAGCTGAAGGCA
1 GCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCA
* *
59722197 GCGAATCTGATTTCCCTGGCGTTGCAGTGGAATAGATTAAAGCTGAAGGCA
1 GCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCA
* * * * * **
59722248 ACGAATCTT-TTCTCCCTAGCATTGCAATGGAACAGATCAAAGCTACGAA-TTA
1 GCGAATCTTATT-TCCCTGGCGTTGCAGTGGAACAGATTAAAGCT--GAAGGCA
** * * * * * *
59722300 TGGCGAATCTTATCTT-CCTGAAGTTGCAATGGAGCAAATTGAAGC--CA-CCA
1 --GCGAATCTTAT-TTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCA
** *** * *
59722350 GC----CTTATCCCCCTAAAGTTGCAGTGGATCAG-----A-CTGAAGACA
1 GCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCA
** *
59722391 GCGAATCTTATTTTTCTGGCATTGCAGTGGAACAGATTAAAGCTGAAGGCA
1 GCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCA
* * * * * * * ***
59722442 ACAAATCTTATTTCTCTGGCATTGCAGCGGAACAAATTAAAGCTAAAATTTA
1 GCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCT-GAAGGCA
* ** *
59722494 TGGCGGATCTTATCTT-CCTGAAGTTGCAGT---A-A-ATTAAGGCTGAAGGCA
1 --GCGAATCTTAT-TTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCA
* * *
59722542 GCGAATCTTATTTCCCTAGCGTTGCAGTGG-ACTAGATTAAAGCTGTAGGTA
1 GCGAATCTTATTTCCCTGGCGTTGCAGTGGAAC-AGATTAAAGCTGAAGGCA
* * * * * *
59722593 GTGAATCTTTTTTTCCTGGCATTGTAGTGGAATAGATTAAAGCTGAAGGCA
1 GCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCA
59722644 GCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCT
1 GCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCT
59722688 ACAAATTTGG
Statistics
Matches: 1211, Mismatches: 230, Indels: 160
0.76 0.14 0.10
Matches are distributed among these distances:
38 1 0.00
39 1 0.00
40 1 0.00
41 4 0.00
44 24 0.02
45 30 0.02
46 305 0.25
47 2 0.00
48 9 0.01
49 11 0.01
50 50 0.04
51 697 0.58
52 22 0.02
53 3 0.00
54 46 0.04
55 4 0.00
56 1 0.00
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.29
Consensus pattern (51 bp):
GCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCA
Found at i:59721344 original size:148 final size:148
Alignment explanation
Indices: 59721149--59722687 Score: 1028
Period size: 148 Copynumber: 10.4 Consensus size: 148
59721139 GTAGTGGAAC
* *
59721149 AGATTAAAGCT-GAGGACAGCGAATCTTATTTCCCAGGCATTGCAGTGGAACAGATTAAAGCTGA
1 AGATTAAAGCTAAAGG-CAGCGAATCTTATTTCCCTGGCATTGCAGTGGAACAGATTAAAGCTGA
* * *
59721213 AGGCAGCGAATCTTATTTCCTTAGCATTGCAATGGAATAAATTAAAGTTGAAGGCAGCGAATCTT
65 AGGCAGCGAATCTTATTTCCTTAGCATTGCAGTGGAATAGATTAAAGCTGAAGGCAGCGAATCTT
*
59721278 ATTTCCCTGGCATTGAAGT
130 ATTTCCCTGGCGTTGAAGT
* * * *
59721297 AGATTAAAGCTAAAGGCAGCAAATCTT-TTTCCCTTGGCAATGTAGTGGAATAGATTAAAGCTGA
1 AGATTAAAGCTAAAGGCAGCGAATCTTATTTCCC-TGGCATTGCAGTGGAACAGATTAAAGCTGA
* * * * * * * * *
59721361 AGGCAGCAAATCTTTTTTCCTTGGCAATGCAGTGGAACAGATTAAGGTTGAAGGTAGTGAATCTT
65 AGGCAGCGAATCTTATTTCCTTAGCATTGCAGTGGAATAGATTAAAGCTGAAGGCAGCGAATCTT
* * **
59721426 TTTTCCCTGGCATTCCAGT
130 ATTTCCCTGGCGTTGAAGT
* * * * * **
59721445 AGATTAAAGCTCAAGGCAGCGAATCTTATTTCCTTGGCATTGTAATAGAACAGATTAAAGCAAAA
1 AGATTAAAGCTAAAGGCAGCGAATCTTATTTCCCTGGCATTGCAGTGGAACAGATTAAAGCTGAA
** * * *
59721510 GGCAATGAATCTTATTTCCCTAGCGTTGCAGT---A-A-ATTAAAGCTGAAGGCAGTGAATCTTA
66 GGCAGCGAATCTTATTTCCTTAGCATTGCAGTGGAATAGATTAAAGCTGAAGGCAGCGAATCTTA
*** *
59721570 TTTTGTTGGCGTTGCAATGGAAC
131 TTTCCCTGGCGTTG-AA--G--T
* * * * *
59721593 AGATTAAAGCTGAAGGCAGCAAATCTTATTTCCCTAGCGTTGTAGT-----AGATTAAAGCTGAA
1 AGATTAAAGCTAAAGGCAGCGAATCTTATTTCCCTGGCATTGCAGTGGAACAGATTAAAGCTGAA
* * * * *
59721653 GGCAGTGAATCTTTTTTCC-CAGGCGA-TGCAGTGGAATAGATTAAAGTTGAGGGCAGCGAATCT
66 GGCAGCGAATCTTATTTCCTTA-GC-ATTGCAGTGGAATAGATTAAAGCTGAAGGCAGCGAATCT
*
59721716 CT-TTTCCCTGGCGTTGTAGT
129 -TATTTCCCTGGCGTTGAAGT
* * *** * * * *
59721736 AAATTAAGGCTGAAA-GCAATAAATCTTATTTCCCTGGCGTT--A---CAATAGATTAAAGATGA
1 AGATTAAAGCT-AAAGGCAGCGAATCTTATTTCCCTGGCATTGCAGTGGAACAGATTAAAGCTGA
* * * * * * * *
59721795 AGGCAACGAATCTTATTTGCTTGGCGTTACAGTGGAACAGATTAAAGCTGAAAGCAACGAATCTT
65 AGGCAGCGAATCTTATTTCCTTAGCATTGCAGTGGAATAGATTAAAGCTGAAGGCAGCGAATCTT
*
59721860 ATTTCCCTGGTGTTGAAGT
130 ATTTCCCTGGCGTTGAAGT
* *
59721879 AGATTAAAGCTGAAA-GCAGCGAATCTTATTTCCTTAGCATTGCAGTGGAACAGATTAAAGCTGA
1 AGATTAAAGCT-AAAGGCAGCGAATCTTATTTCCCTGGCATTGCAGTGGAACAGATTAAAGCTGA
* * * * * *
59721943 AGGCGGTGAATCTT-TTTCCTAAGCATTGCAGTGGAATAGATTAAAGCTGAGGGTAGTGAATCTT
65 AGGCAGCGAATCTTATTTCCTTAGCATTGCAGTGGAATAGATTAAAGCTGAAGGCAGCGAATCTT
* *
59722007 TTTTCCCTGGCATTGCAA-T
130 ATTTCCCTGGCGTTG-AAGT
* ** * ** * *
59722026 AGATTAAGGCTGGAGGCAGTGAATCTTATTTCCCTAACGTTGCAGTGGAACAAATTAAAGCTGAA
1 AGATTAAAGCTAAAGGCAGCGAATCTTATTTCCCTGGCATTGCAGTGGAACAGATTAAAGCTGAA
* * ** * * *
59722091 GGCAGCGAATCTTATTTCCCTAGCGTTGCAGTGGACCAGATTAAAGCTGAAGGCAACAAATCTTT
66 GGCAGCGAATCTTATTTCCTTAGCATTGCAGTGGAATAGATTAAAGCTGAAGGCAGCGAATCTTA
* *
59722156 TTTCCCTGGGGTTGCAGT
131 TTTCCCTGGCGTTGAAGT
* * * *
59722174 GGAACAGATTAAAGCTGAAGGCAGCGAATCTGATTTCCCTGGCGTTGCAGTGGAATAGATTAAAG
1 -----AGATTAAAGCTAAAGGCAGCGAATCTTATTTCCCTGGCATTGCAGTGGAACAGATTAAAG
* * * * * **
59722239 CTGAAGGCAACGAATCTT-TTCTCCCTAGCATTGCAATGGAACAGATCAAAGCTACGAA-TTATG
61 CTGAAGGCAGCGAATCTTATT-TCCTTAGCATTGCAGTGGAATAGATTAAAGCT--GAAGGCA--
**
59722302 GCGAATCTTATCTT-CCTGAAGTTGCAA-T
121 GCGAATCTTAT-TTCCCTGGCGTTG-AAGT
* ** * * * * ** ** ** *
59722330 GGAGCAAA-TTGAAGCCA-CCAGCCTTATCCCCCT-AAAGTTGCAGTGGATCAG-----A-CTGA
1 AGATTAAAGCTAAAGGCAGCGAATCTTATTTCCCTGGCA-TTGCAGTGGAACAGATTAAAGCTGA
* * * * * *
59722386 AGACAGCGAATCTTATTT-TTCTGGCATTGCAGTGGAACAGATTAAAGCTGAAGGCAACAAATCT
65 AGGCAGCGAATCTTATTTCCT-TAGCATTGCAGTGGAATAGATTAAAGCTGAAGGCAGCGAATCT
* * **
59722450 TATTTCTCTGGCATTGCAGCGGAAC
129 TATTTCCCTGGCGTTG-A----AGT
* *** * * *
59722475 AAATTAAAGCTAAAATTTATGGCGGATCTTATCTT-CCT-GAAGTTGCAGT---A-A-ATTAAGG
1 AGATTAAAGCT-AAAGGCA--GCGAATCTTAT-TTCCCTGGCA-TTGCAGTGGAACAGATTAAAG
* * * * * *
59722533 CTGAAGGCAGCGAATCTTATTTCCCTAGCGTTGCAGTGGACTAGATTAAAGCTGTAGGTAGTGAA
61 CTGAAGGCAGCGAATCTTATTTCCTTAGCATTGCAGTGGAATAGATTAAAGCTGAAGGCAGCGAA
* *
59722598 TCTTTTTTTCCTGGCATTGTAGTGGAA-T
126 TCTTATTTCCCTGGC---GT--T-GAAGT
* *
59722626 AGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCT
1 AGATTAAAGCTAAAGGCAGCGAATCTTATTTCCCTGGCATTGCAGTGGAACAGATTAAAGCT
59722688 ACAAATTTGG
Statistics
Matches: 1073, Mismatches: 237, Indels: 157
0.73 0.16 0.11
Matches are distributed among these distances:
139 2 0.00
140 17 0.02
141 4 0.00
142 3 0.00
143 252 0.23
144 8 0.01
145 7 0.01
146 5 0.00
147 132 0.12
148 365 0.34
149 32 0.03
150 29 0.03
151 80 0.07
152 4 0.00
153 105 0.10
154 2 0.00
155 3 0.00
156 19 0.02
157 4 0.00
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.29
Consensus pattern (148 bp):
AGATTAAAGCTAAAGGCAGCGAATCTTATTTCCCTGGCATTGCAGTGGAACAGATTAAAGCTGAA
GGCAGCGAATCTTATTTCCTTAGCATTGCAGTGGAATAGATTAAAGCTGAAGGCAGCGAATCTTA
TTTCCCTGGCGTTGAAGT
Found at i:59721354 original size:97 final size:97
Alignment explanation
Indices: 59721116--59722271 Score: 690
Period size: 97 Copynumber: 11.8 Consensus size: 97
59721106 AGTTATTATG
* *
59721116 GCGAATCTT-TTTTCCTGGGCGTTGTAGTGGAACAGATTAAAGCTG-AGGACAGCGAATCTTATT
1 GCGAATCTTATTTCCCT-GGCGTTGTAGTGGAATAGATTAAAGCTGAAGG-CAGCGAATCTTATT
* *
59721179 TCCCAGGCATTGCAGTGGAACAGATTAAAGCTGAAGGCA
64 TCCCTGGCATTGAAGT-----AGATTAAAGCTGAAGGCA
* * * * * * *
59721218 GCGAATCTTATTTCCTTAGCATTGCAATGGAATAAATTAAAGTTGAAGGCAGCGAATCTTATTTC
1 GCGAATCTTATTTCCCTGGCGTTGTAGTGGAATAGATTAAAGCTGAAGGCAGCGAATCTTATTTC
*
59721283 CCTGGCATTGAAGTAGATTAAAGCTAAAGGCA
66 CCTGGCATTGAAGTAGATTAAAGCTGAAGGCA
* ** * *
59721315 GCAAATCTT-TTTCCCTTGGCAATGTAGTGGAATAGATTAAAGCTGAAGGCAGCAAATCTTTTTT
1 GCGAATCTTATTTCCC-TGGCGTTGTAGTGGAATAGATTAAAGCTGAAGGCAGCGAATCTTATTT
* * * * * *
59721379 CCTTGGCAATGCAGTGGAACAGATTAAGGTTGAAGGTA
65 CCCTGGCATTGAAGT-----AGATTAAAGCTGAAGGCA
* * * ** *
59721417 GTGAATCTTTTTTCCCTGGCATTCCA---G--TAGATTAAAGCTCAAGGCAGCGAATCTTATTTC
1 GCGAATCTTATTTCCCTGGCGTTGTAGTGGAATAGATTAAAGCTGAAGGCAGCGAATCTTATTTC
* * **
59721477 CTTGGCATTGTAATAGAACAGATTAAAGCAAAAGGCA
66 CCTGGCATTG--A-AG--TAGATTAAAGCTGAAGGCA
** * * * *
59721514 ATGAATCTTATTTCCCTAGCGTTGCAGT---A-A-ATTAAAGCTGAAGGCAGTGAATCTTATTTT
1 GCGAATCTTATTTCCCTGGCGTTGTAGTGGAATAGATTAAAGCTGAAGGCAGCGAATCTTATTTC
** * *
59721574 GTTGGCGTTGCAATGGAACAGATTAAAGCTGAAGGCA
66 CCTGGCATTG-AA--G--TAGATTAAAGCTGAAGGCA
* * * *
59721611 GCAAATCTTATTTCCCTAGCGTTGTA---G--TAGATTAAAGCTGAAGGCAGTGAATCTTTTTTC
1 GCGAATCTTATTTCCCTGGCGTTGTAGTGGAATAGATTAAAGCTGAAGGCAGCGAATCTTATTTC
* * *
59721671 CCAGGCGATGCAGTGGAA-TAGATTAAAGTTGAGGGCA
66 CCTGGC-AT----T-GAAGTAGATTAAAGCTGAAGGCA
* * ***
59721708 GCGAATCTCT-TTTCCCTGGCGTTGTAGT---A-A-ATTAAGGCTGAAAGCAATAAATCTTATTT
1 GCGAATCT-TATTTCCCTGGCGTTGTAGTGGAATAGATTAAAGCTGAAGGCAGCGAATCTTATTT
* * *
59721767 CCCTGGCGTT-ACAATAGATTAAAGATGAAGGCA
65 CCCTGGCATTGA-AGTAGATTAAAGCTGAAGGCA
* * * ** * * *
59721800 ACGAATCTTATTTGCTTGGCGTTACAGTGGAACAGATTAAAGCTGAAAGCAACGAATCTTATTTC
1 GCGAATCTTATTTCCCTGGCGTTGTAGTGGAATAGATTAAAGCTGAAGGCAGCGAATCTTATTTC
** *
59721865 CCTGGTGTTGAAGTAGATTAAAGCTGAAAGCA
66 CCTGGCATTGAAGTAGATTAAAGCTGAAGGCA
* * * * * * *
59721897 GCGAATCTTATTTCCTTAGCATTGCAGTGGAACAGATTAAAGCTGAAGGCGGTGAATCTT-TTT-
1 GCGAATCTTATTTCCCTGGCGTTGTAGTGGAATAGATTAAAGCTGAAGGCAGCGAATCTTATTTC
* * * *
59721960 CCTAAGCATTGCAGTGGAATAGATTAAAGCTGAGGGTA
66 CCT-GGCATTG-A----AGTAGATTAAAGCTGAAGGCA
* * * * * * *
59721998 GTGAATCTTTTTTCCCTGGC-----ATTGCAATAGATTAAGGCTGGAGGCAGTGAATCTTATTTC
1 GCGAATCTTATTTCCCTGGCGTTGTAGTGGAATAGATTAAAGCTGAAGGCAGCGAATCTTATTTC
* * *
59722058 CCTAACGTTGCAGTGGAA-CAAATTAAAGCTGAAGGCA
66 CCT---G--GCA-TTGAAGTAGATTAAAGCTGAAGGCA
* * ** * * *
59722095 GCGAATCTTATTTCCCTAGCGTTGCAGTGGACCAGATTAAAGCTGAAGGCAACAAATCTTTTTTC
1 GCGAATCTTATTTCCCTGGCGTTGTAGTGGAATAGATTAAAGCTGAAGGCAGCGAATCTTATTTC
** *
59722160 CCTGGGGTTGCAGTGGAACAGATTAAAGCTGAAGGCA
66 CCTGGCATTGAAGT-----AGATTAAAGCTGAAGGCA
* * *
59722197 GCGAATCTGATTTCCCTGGCGTTGCAGTGGAATAGATTAAAGCTGAAGGCAACGAATCTT-TTCT
1 GCGAATCTTATTTCCCTGGCGTTGTAGTGGAATAGATTAAAGCTGAAGGCAGCGAATCTTATT-T
*
59722261 CCCTAGCATTG
65 CCCTGGCATTG
59722272 CAATGGAACA
Statistics
Matches: 834, Mismatches: 154, Indels: 132
0.74 0.14 0.12
Matches are distributed among these distances:
90 1 0.00
91 2 0.00
92 39 0.05
95 5 0.01
96 48 0.06
97 467 0.56
98 9 0.01
99 2 0.00
100 2 0.00
101 35 0.04
102 207 0.25
103 17 0.02
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (97 bp):
GCGAATCTTATTTCCCTGGCGTTGTAGTGGAATAGATTAAAGCTGAAGGCAGCGAATCTTATTTC
CCTGGCATTGAAGTAGATTAAAGCTGAAGGCA
Found at i:59722430 original size:194 final size:194
Alignment explanation
Indices: 59722188--59722965 Score: 780
Period size: 194 Copynumber: 4.0 Consensus size: 194
59722178 CAGATTAAAG
* * * * *
59722188 CTGAAGGCAGCGAATCTGATTTCCCTGGCGTTGCAGTGGAATAGATTAAAGCTGAAGGCAACGAA
1 CTGAAGACAGCGAATCTTATTTCTCTGGCATTGCAGTGGAACAGATTAAAGCTGAAGGCAACGAA
** * * *
59722253 TCTT-TTCTCCCTAGCATTGCAATGGAACAGATCAAAGCTACGAA-TTATGGCGAATCTTATCTT
66 TCTTATT-TCCCTAGCATTGCAGCGGAACAAATTAAAGCTACAAATTTATGGCGAATCTTATCTT
* * *
59722316 CCTGAAGTTGCAATGGAGCAAATTGAAGCCACCAGCCTTATCCCCCTAAAGTTGCAGTGGATCAG
130 CCTGAAGTTGCAGTGAAGCAAATTGAAGCCACCAGCCTTATCTCCCTAAAGTTGCAGTGGA-CAG
59722381 A
194 A
* *
59722382 CTGAAGACAGCGAATCTTATTTTTCTGGCATTGCAGTGGAACAGATTAAAGCTGAAGGCAACAAA
1 CTGAAGACAGCGAATCTTATTTCTCTGGCATTGCAGTGGAACAGATTAAAGCTGAAGGCAACGAA
* * *
59722447 TCTTATTTCTCTGGCATTGCAGCGGAACAAATTAAAGCTA-AAATTTATGGCGGATCTTATCTTC
66 TCTTATTTCCCTAGCATTGCAGCGGAACAAATTAAAGCTACAAATTTATGGCGAATCTTATCTTC
* ** ** * * ** * **
59722511 CTGAAGTTGCAGTAAATTAAGGCTGAAGGCAGCGAATCTTATTTCCCTAGCGTTGCAGTGGACTA
131 CTGAAGTTGCAGTGAAGCAA-ATTGAAGCCA-CCAGCCTTATCTCCCTAAAGTTGCAGTGGAC-A
59722576 GATTAAA
193 G-----A
* ** * * * * *
59722583 GCTGTAGGTAGTGAATCTT-TTTTTCCTGGCATTGTAGTGGAATAGATTAAAGCTGAAGGCAGCG
1 -CTGAAGACAGCGAATCTTATTTCT-CTGGCATTGCAGTGGAACAGATTAAAGCTGAAGGCAACG
* * * * *
59722647 AATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTACAAA-TT-TGGCGGATCTTATCT
64 AATCTTATTTCCCTAGCATTGCAGCGGAACAAATTAAAGCTACAAATTTATGGCGAATCTTATCT
* * * * * * * *
59722710 TCCTGAAGTTGCAGTGGAGTAGATTGAAGCTACCAGCCTTATCTCCTTGAAGTTACACTGGAGCA
129 TCCTGAAGTTGCAGTGAAGCAAATTGAAGCCACCAGCCTTATCTCCCTAAAGTTGCAGTGGA-CA
59722775 GA
193 GA
* * * * ** * *
59722777 CTAAAGATAACGAATCTTATTTCTCTAGTGTTGCAGTGAAACAGATTAAAGCTGAAGGCAGCGAA
1 CTGAAGACAGCGAATCTTATTTCTCTGGCATTGCAGTGGAACAGATTAAAGCTGAAGGCAACGAA
* * *
59722842 TCTTATTTCCCTAGCGTTGCAGCGGAAGAAATTAAAGATAC-AATTTATGGCGAATCTTATCTTC
66 TCTTATTTCCCTAGCATTGCAGCGGAACAAATTAAAGCTACAAATTTATGGCGAATCTTATCTTC
* * * *
59722906 CTGAAGTTGCAGTGAAGCAGATTGAAGCCACCAATCC-TATCTCCCTGAAGTTGTAGTGGA
131 CTGAAGTTGCAGTGAAGCAAATTGAAGCCACC-AGCCTTATCTCCCTAAAGTTGCAGTGGA
59722966 GAGGATTAAA
Statistics
Matches: 480, Mismatches: 86, Indels: 36
0.80 0.14 0.06
Matches are distributed among these distances:
192 2 0.00
193 88 0.18
194 192 0.40
195 13 0.03
196 25 0.05
199 22 0.05
200 7 0.01
201 39 0.08
202 89 0.19
203 3 0.01
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.29
Consensus pattern (194 bp):
CTGAAGACAGCGAATCTTATTTCTCTGGCATTGCAGTGGAACAGATTAAAGCTGAAGGCAACGAA
TCTTATTTCCCTAGCATTGCAGCGGAACAAATTAAAGCTACAAATTTATGGCGAATCTTATCTTC
CTGAAGTTGCAGTGAAGCAAATTGAAGCCACCAGCCTTATCTCCCTAAAGTTGCAGTGGACAGA
Found at i:59722867 original size:395 final size:399
Alignment explanation
Indices: 59722026--59722920 Score: 1137
Period size: 395 Copynumber: 2.3 Consensus size: 399
59722016 GCATTGCAAT
* * * * * *
59722026 AGATTAAGGCTGGAGGCAGTGAATCTTATTTCCCTAACGTTGCAGTGGAACAAATTAAAGCT-GA
1 AGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTAGCGTTGCAGCGGAACAAATTAAAGCTAAA
*** *
59722090 AGGCA--GCGAATCTTAT-TTCCCT-AGCGTTGCAGTGGACCAGATTAAAGCTGAAGGCAACAAA
66 ATTTATGGCGAATCTTATCTT-CCTGA-AGTTGCAGT-GA-CAGATTAAAGCTGAAGGCAACAAA
* * *
59722151 TCTTTTTTCCCTGGGGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTGATTTCCCTGG
127 TCTTATTTCCCTAGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTGATTTCCCTGG
*
59722216 CGTTGCAGTGGAATAGATTAAAGCTGAAGGCAACGAATCTTTTCTCCCTAGCATTGCAATGGAAC
192 CATTGCAGTGGAATAGATTAAAGCTGAAGGCAACGAATCTTTTCTCCCTAGCATTGCAATGGAAC
*
59722281 AGATCAAAGCTACGAATTATGGCGAATCTTATCTTCCTGAAGTTGCAATGGAGCAAATTGAAGCC
257 AGATCAAAGCTACAAATTATGGCGAATCTTATCTTCCTGAAGTTGCAATGGAGCAAATTGAAGCC
* * * * * * *
59722346 ACCAGCCTTATCCCCCTAAAGTTGCAGTGGATCAGACTGAAGACAGCGAATCTTATTTTTCTGGC
322 ACCAGCCTTATCCCCCTAAAGTTACACTGGAGCAGACTAAAGACAACGAATCTTATTTCTCTAGC
*
59722411 ATTGCAGTGGAAC
387 ATTGCAGTGAAAC
* * * * *
59722424 AGATTAAAGCTGAAGGCAACAAATCTTATTTCTCTGGCATTGCAGCGGAACAAATTAAAGCTAAA
1 AGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTAGCGTTGCAGCGGAACAAATTAAAGCTAAA
* * * *
59722489 ATTTATGGCGGATCTTATCTTCCTGAAGTTGCAGT-A-A-ATTAAGGCTGAAGGCAGCGAATCTT
66 ATTTATGGCGAATCTTATCTTCCTGAAGTTGCAGTGACAGATTAAAGCTGAAGGCAACAAATCTT
* * * ** *
59722551 ATTTCCCTAGCGTTGCAGTGG-ACTAGATTAAAGCTGTAGGTAGTGAATCTTTTTTTCCTGGCAT
131 ATTTCCCTAGCGTTGCAGTGGAAC-AGATTAAAGCTGAAGGCAGCGAATCTGATTTCCCTGGCAT
* * * * *
59722615 TGTAGTGGAATAGATTAAAGCTGAAGGCAGCGAATCTTATT-TCCCTGGCGTTGCAGTGGAACAG
195 TGCAGTGGAATAGATTAAAGCTGAAGGCAACGAATCTT-TTCTCCCTAGCATTGCAATGGAACAG
* * * * * *
59722679 ATTAAAGCTACAAATT-TGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGTAGATTGAAGCTAC
259 ATCAAAGCTACAAATTATGGCGAATCTTATCTTCCTGAAGTTGCAATGGAGCAAATTGAAGCCAC
* * * * **
59722743 CAGCCTTATCTCCTTGAAGTTACACTGGAGCAGACTAAAGATAACGAATCTTATTTCTCTAGTGT
324 CAGCCTTATCCCCCTAAAGTTACACTGGAGCAGACTAAAGACAACGAATCTTATTTCTCTAGCAT
59722808 TGCAGTGAAAC
389 TGCAGTGAAAC
* * *
59722819 AGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTAGCGTTGCAGCGGAAGAAATTAAAGATACA
1 AGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTAGCGTTGCAGCGGAACAAATTAAAGCTAAA
59722884 ATTTATGGCGAATCTTATCTTCCTGAAGTTGCAGTGA
66 ATTTATGGCGAATCTTATCTTCCTGAAGTTGCAGTGA
59722921 AGCAGATTGA
Statistics
Matches: 425, Mismatches: 64, Indels: 18
0.84 0.13 0.04
Matches are distributed among these distances:
395 198 0.47
396 144 0.34
397 3 0.01
398 52 0.12
399 4 0.01
401 21 0.05
402 3 0.01
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.28
Consensus pattern (399 bp):
AGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTAGCGTTGCAGCGGAACAAATTAAAGCTAAA
ATTTATGGCGAATCTTATCTTCCTGAAGTTGCAGTGACAGATTAAAGCTGAAGGCAACAAATCTT
ATTTCCCTAGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTGATTTCCCTGGCATT
GCAGTGGAATAGATTAAAGCTGAAGGCAACGAATCTTTTCTCCCTAGCATTGCAATGGAACAGAT
CAAAGCTACAAATTATGGCGAATCTTATCTTCCTGAAGTTGCAATGGAGCAAATTGAAGCCACCA
GCCTTATCCCCCTAAAGTTACACTGGAGCAGACTAAAGACAACGAATCTTATTTCTCTAGCATTG
CAGTGAAAC
Found at i:59724482 original size:9 final size:8
Alignment explanation
Indices: 59724459--59724487 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
59724449 ATAGACTCTA
59724459 TTTA-TTT
1 TTTATTTT
59724466 TTTATTTT
1 TTTATTTT
59724474 TTTATTTT
1 TTTATTTT
59724482 TTTATT
1 TTTATT
59724488 ACTATTTTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
7 4 0.19
8 17 0.81
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (8 bp):
TTTATTTT
Found at i:59724515 original size:18 final size:19
Alignment explanation
Indices: 59724494--59724531 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
59724484 TATTACTATT
59724494 TTCATT-ATGATTATTTTA
1 TTCATTAATGATTATTTTA
*
59724512 TTCATTAATTATTATTTTA
1 TTCATTAATGATTATTTTA
59724531 T
1 T
59724532 ATCCTTTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.29, C:0.05, G:0.03, T:0.63
Consensus pattern (19 bp):
TTCATTAATGATTATTTTA
Found at i:59724802 original size:4 final size:4
Alignment explanation
Indices: 59724783--59724817 Score: 52
Period size: 4 Copynumber: 8.8 Consensus size: 4
59724773 TTTCTTTTCT
* *
59724783 TTTA TTTG TTTG TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
59724818 TTACCTATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.17, C:0.00, G:0.06, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:59743837 original size:34 final size:34
Alignment explanation
Indices: 59743789--59743856 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
59743779 ATGGAGAAAT
59743789 CACAAAACTACCTTCGTTTTCGCGACACAGACTA
1 CACAAAACTACCTTCGTTTTCGCGACACAGACTA
*
59743823 CACAAAACTCCCTTCGTTTTCGCGACACAGACTA
1 CACAAAACTACCTTCGTTTTCGCGACACAGACTA
59743857 AGGGTTTCAC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.31, C:0.34, G:0.12, T:0.24
Consensus pattern (34 bp):
CACAAAACTACCTTCGTTTTCGCGACACAGACTA
Found at i:59744658 original size:37 final size:36
Alignment explanation
Indices: 59744608--59744680 Score: 119
Period size: 37 Copynumber: 2.0 Consensus size: 36
59744598 AAATCCTGCT
59744608 AGGATAGCGACTAGTTAAATGACGAGGAACCAGAAG
1 AGGATAGCGACTAGTTAAATGACGAGGAACCAGAAG
* *
59744644 NAGGATAGCGACTAGTTAATTGACGAGGAACCCGAAG
1 -AGGATAGCGACTAGTTAAATGACGAGGAACCAGAAG
59744681 TGACAATCGA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.38, C:0.15, G:0.30, T:0.15
Consensus pattern (36 bp):
AGGATAGCGACTAGTTAAATGACGAGGAACCAGAAG
Found at i:59745409 original size:45 final size:45
Alignment explanation
Indices: 59745345--59745434 Score: 171
Period size: 45 Copynumber: 2.0 Consensus size: 45
59745335 TCCATTGTTT
*
59745345 GGCGACATTGACGAAAAATCTCTAGGAAATCCACCAGCACCACCA
1 GGCGACATTGACGAAAAATCTCTAGCAAATCCACCAGCACCACCA
59745390 GGCGACATTGACGAAAAATCTCTAGCAAATCCACCAGCACCACCA
1 GGCGACATTGACGAAAAATCTCTAGCAAATCCACCAGCACCACCA
59745435 CCACTACCTG
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:0.38, C:0.32, G:0.17, T:0.13
Consensus pattern (45 bp):
GGCGACATTGACGAAAAATCTCTAGCAAATCCACCAGCACCACCA
Found at i:59750156 original size:32 final size:32
Alignment explanation
Indices: 59750115--59750180 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
59750105 GACTACTAAG
*
59750115 TTCTATACATTACACCGTAGATAGGTATTAAA
1 TTCTATACATTACACCGTAGATAGGCATTAAA
59750147 TTCTATACATTACACCGTAGATAGGCATTAAA
1 TTCTATACATTACACCGTAGATAGGCATTAAA
59750179 TT
1 TT
59750181 TATGCATATT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.35
Consensus pattern (32 bp):
TTCTATACATTACACCGTAGATAGGCATTAAA
Found at i:59753218 original size:37 final size:37
Alignment explanation
Indices: 59753168--59753241 Score: 130
Period size: 37 Copynumber: 2.0 Consensus size: 37
59753158 TATAGTACCA
59753168 TGACTATTGGCCCCAATCTGAGCACCCCCCACCCACT
1 TGACTATTGGCCCCAATCTGAGCACCCCCCACCCACT
* *
59753205 TGACTATTGGCCCCAATCTGAGCACCCGCCACTCACT
1 TGACTATTGGCCCCAATCTGAGCACCCCCCACCCACT
59753242 CTAACACTCG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.22, C:0.43, G:0.15, T:0.20
Consensus pattern (37 bp):
TGACTATTGGCCCCAATCTGAGCACCCCCCACCCACT
Found at i:59754317 original size:34 final size:34
Alignment explanation
Indices: 59754279--59754346 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
59754269 CTCGAATTTT
*
59754279 TTTACAACAATTTTAACATGTGGCATGTTTTTCC
1 TTTACAACAATTTTAACATGGGGCATGTTTTTCC
59754313 TTTACAACAATTTTAACATGGGGCATGTTTTTCC
1 TTTACAACAATTTTAACATGGGGCATGTTTTTCC
59754347 CAAAATACCC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.26, C:0.18, G:0.13, T:0.43
Consensus pattern (34 bp):
TTTACAACAATTTTAACATGGGGCATGTTTTTCC
Found at i:59755649 original size:42 final size:42
Alignment explanation
Indices: 59755590--59755675 Score: 163
Period size: 42 Copynumber: 2.0 Consensus size: 42
59755580 TCTATAGTTT
*
59755590 TCAAATCTAAAGAACACTTACCTCAAATCGGCTTCGGGAGTC
1 TCAAATCTAAAGAACACTTACCTCAAATCAGCTTCGGGAGTC
59755632 TCAAATCTAAAGAACACTTACCTCAAATCAGCTTCGGGAGTC
1 TCAAATCTAAAGAACACTTACCTCAAATCAGCTTCGGGAGTC
59755674 TC
1 TC
59755676 GAATTTTTTT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.34, C:0.27, G:0.15, T:0.24
Consensus pattern (42 bp):
TCAAATCTAAAGAACACTTACCTCAAATCAGCTTCGGGAGTC
Found at i:59758476 original size:6 final size:6
Alignment explanation
Indices: 59758465--59758744 Score: 560
Period size: 6 Copynumber: 46.7 Consensus size: 6
59758455 TTGTATGGAT
59758465 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
59758513 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
59758561 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
59758609 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
59758657 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
59758705 TATATG TATATG TATATG TATATG TATATG TATATG TATA
1 TATATG TATATG TATATG TATATG TATATG TATATG TATA
59758745 GCATGGTAAG
Statistics
Matches: 274, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 274 1.00
ACGTcount: A:0.34, C:0.00, G:0.16, T:0.50
Consensus pattern (6 bp):
TATATG
Found at i:59760177 original size:21 final size:21
Alignment explanation
Indices: 59760153--59760193 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
59760143 ATACCTGATA
59760153 AAAGGTATCGACACATTTTGG
1 AAAGGTATCGACACATTTTGG
59760174 AAAGGTATCGACACATTTTG
1 AAAGGTATCGACACATTTTG
59760194 TAAATCATTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.29
Consensus pattern (21 bp):
AAAGGTATCGACACATTTTGG
Found at i:59760503 original size:93 final size:91
Alignment explanation
Indices: 59760335--59760621 Score: 405
Period size: 93 Copynumber: 3.1 Consensus size: 91
59760325 TTTACTTCAT
* * *
59760335 TTTATCAATTTTGTCTAATTTTGTTCAACTTTAACTTTTCTCAAAAATATTTTAATTTGTTATAT
1 TTTAACAATTTTGTCAAATTTTGTTCAACTTTAACTTTTATCAAAAATA-TTTAATTTGTTATAT
59760400 CAAAACATATTATCAAATAAAGCTTAG
65 CAAAACATATTATCAAATAAAGCTTAG
* * * *
59760427 TTTAACAATTTTGCCCAATTTTTTTCAACTTTAACTTTTATGCAAAAACATTATAATTTGTTATA
1 TTTAACAATTTTGTCAAATTTTGTTCAACTTTAACTTTTAT-CAAAAATATT-TAATTTGTTATA
*
59760492 TCAAAACATATTATCAAATGAAGCTTAG
64 TCAAAACATATTATCAAATAAAGCTTAG
* *
59760520 TTTAATAATTTTGTCAAATTTTGTTCAACTTTAACTTTTATTCAAAAATACGTTAATTTGTTATA
1 TTTAACAATTTTGTCAAATTTTGTTCAACTTTAACTTTTA-TCAAAAATA-TTTAATTTGTTATA
* * *
59760585 TCTAAACATACTATCAAA-AAAACTTAG
64 TCAAAACATATTATCAAATAAAGCTTAG
59760612 TTTAACAATT
1 TTTAACAATT
59760622 ATATAATGTT
Statistics
Matches: 173, Mismatches: 18, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
92 54 0.31
93 117 0.68
94 2 0.01
ACGTcount: A:0.38, C:0.13, G:0.06, T:0.44
Consensus pattern (91 bp):
TTTAACAATTTTGTCAAATTTTGTTCAACTTTAACTTTTATCAAAAATATTTAATTTGTTATATC
AAAACATATTATCAAATAAAGCTTAG
Found at i:59764563 original size:29 final size:28
Alignment explanation
Indices: 59764527--59764604 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
59764517 TCATGAGATT
59764527 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
59764557 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
59764584 TGGCACTAAGTGTGCGTGGTT
1 -GGCACTAAGTGTGCG-GGTT
59764605 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.14, G:0.31, T:0.29
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:59764822 original size:174 final size:174
Alignment explanation
Indices: 59764557--59764884 Score: 602
Period size: 174 Copynumber: 1.9 Consensus size: 174
59764547 AAATTGTACA
*
59764557 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
* *
59764622 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACCTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
59764687 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
* *
59764731 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
*
59764796 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
59764861 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
59764885 ACCTTGAGTT
Statistics
Matches: 148, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
174 148 1.00
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:59789385 original size:20 final size:20
Alignment explanation
Indices: 59789360--59789410 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
59789350 AGCTTATGCT
59789360 AAGTAAATGGAATGGAAAGC
1 AAGTAAATGGAATGGAAAGC
* *
59789380 AAGTAAATGAAATGGAAAGT
1 AAGTAAATGGAATGGAAAGC
59789400 AAGTAAATGGA
1 AAGTAAATGGA
59789411 GTGGTTCATA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.53, C:0.02, G:0.27, T:0.18
Consensus pattern (20 bp):
AAGTAAATGGAATGGAAAGC
Found at i:59791388 original size:22 final size:21
Alignment explanation
Indices: 59791348--59791393 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 21
59791338 ATTATGAAGA
59791348 TTGATATGTTGAGATTTATATT
1 TTGATATGTTGAGATTTAT-TT
*
59791370 TTGATATGTATGTGA-TTATTT
1 TTGATATGT-TGAGATTTATTT
59791391 TTG
1 TTG
59791394 TGATGGTCTC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 5 0.23
22 13 0.59
23 4 0.18
ACGTcount: A:0.24, C:0.00, G:0.20, T:0.57
Consensus pattern (21 bp):
TTGATATGTTGAGATTTATTT
Found at i:59793395 original size:7 final size:7
Alignment explanation
Indices: 59793383--59793416 Score: 52
Period size: 7 Copynumber: 4.9 Consensus size: 7
59793373 GCTACTCTTT
59793383 TTTTTTC
1 TTTTTTC
59793390 TTTTTTC
1 TTTTTTC
59793397 TTTTTTTC
1 -TTTTTTC
59793405 TTTTTT-
1 TTTTTTC
59793411 TTTTTT
1 TTTTTT
59793417 GGCTTTGAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
6 6 0.23
7 13 0.50
8 7 0.27
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (7 bp):
TTTTTTC
Done.