Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D10
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: 67973905
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 194 of 228
Found at i:57331065 original size:28 final size:30
Alignment explanation
Indices: 57330996--57331158 Score: 142
Period size: 26 Copynumber: 6.0 Consensus size: 30
57330986 ATATTTTAAT
* *
57330996 TTAATATATAATTTACATAACTTACAT-AA
1 TTAATATATAACTTACATAACTCACATAAA
*
57331025 CT--TA-ATAACTTACATAA-T-ACATAAA
1 TTAATATATAACTTACATAACTCACATAAA
*
57331050 TTAATATATAATTTACATAACTCACAT-AA
1 TTAATATATAACTTACATAACTCACATAAA
*
57331079 CT--TA-ATAACTTACATAA-T-ACATAAA
1 TTAATATATAACTTACATAACTCACATAAA
* *
57331104 TTAATATATAATTTACATAACTCACATAAC
1 TTAATATATAACTTACATAACTCACATAAA
*
57331134 TT-ATA-A-AACTTA-ATAACTTACATAA
1 TTAATATATAACTTACATAACTCACATAA
57331159 TACATAAATA
Statistics
Matches: 111, Mismatches: 11, Indels: 27
0.74 0.07 0.18
Matches are distributed among these distances:
24 8 0.07
25 8 0.07
26 36 0.32
27 13 0.12
28 25 0.23
29 9 0.08
30 12 0.11
ACGTcount: A:0.50, C:0.14, G:0.00, T:0.36
Consensus pattern (30 bp):
TTAATATATAACTTACATAACTCACATAAA
Found at i:57331292 original size:133 final size:138
Alignment explanation
Indices: 57331130--57331389 Score: 404
Period size: 133 Copynumber: 1.9 Consensus size: 138
57331120 ATAACTCACA
* *
57331130 TAACTTATAAAACTTAATAACTTACATAATACATAAATATATATCATATTATAACTCACATAACT
1 TAACTTACAAAACTTAATAACTTACATAATACATAAATATATATCATATCATAACTCACATAACT
*
57331195 TACATAACTTACAT-A-AC-T-T-TATATCTTATCAAAACATACATAACTTACATAATTTTTAAG
66 TACATAACTTACATAATACATATATATATCATATCAAAACATACATAACTTACATAATTTTTAAG
57331255 TGTTTGCT
131 TGTTTGCT
* *
57331263 TAACTTACATAACTTAATATCTTACATAATACATAAATATATATCATATCATAACTCACATAACT
1 TAACTTACAAAACTTAATAACTTACATAATACATAAATATATATCATATCATAACTCACATAACT
* *
57331328 TACATAACTTACATAATACATAAATATATATCATATCAAAACTTACATAATTTACATAATTT
66 TACATAACTTACATAATACAT--ATATATATCATATCAAAACATACATAACTTACATAATTT
57331390 ACATAACTCA
Statistics
Matches: 113, Mismatches: 7, Indels: 7
0.89 0.06 0.06
Matches are distributed among these distances:
133 75 0.66
134 1 0.01
135 2 0.02
136 1 0.01
139 1 0.01
140 33 0.29
ACGTcount: A:0.45, C:0.16, G:0.01, T:0.37
Consensus pattern (138 bp):
TAACTTACAAAACTTAATAACTTACATAATACATAAATATATATCATATCATAACTCACATAACT
TACATAACTTACATAATACATATATATATCATATCAAAACATACATAACTTACATAATTTTTAAG
TGTTTGCT
Found at i:57331342 original size:52 final size:52
Alignment explanation
Indices: 57331263--57331404 Score: 214
Period size: 52 Copynumber: 2.7 Consensus size: 52
57331253 AGTGTTTGCT
*
57331263 TAACTTACATAACTTA-ATATCTTACATAATACATAAATATATATCATATCA
1 TAACTTACATAACTTACATAACTTACATAATACATAAATATATATCATATCA
*
57331314 TAACTCACATAACTTACATAACTTACATAATACATAAATATATATCATATCA
1 TAACTTACATAACTTACATAACTTACATAATACATAAATATATATCATATCA
* * *
57331366 AAACTTACATAATTTACATAATTTACATAACTCACATAA
1 TAACTTACATAACTTACATAACTTACATAA-T-ACATAA
57331405 CTTACATAAC
Statistics
Matches: 82, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
51 15 0.18
52 60 0.73
53 1 0.01
54 6 0.07
ACGTcount: A:0.48, C:0.18, G:0.00, T:0.35
Consensus pattern (52 bp):
TAACTTACATAACTTACATAACTTACATAATACATAAATATATATCATATCA
Found at i:57337051 original size:21 final size:21
Alignment explanation
Indices: 57337027--57337066 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
57337017 AAGCAAAGAC
57337027 AGCAACGAGGGAAACAGAGGT
1 AGCAACGAGGGAAACAGAGGT
* *
57337048 AGCAGCGAGGGAAGCAGAG
1 AGCAACGAGGGAAACAGAG
57337067 CAGAGCAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.40, C:0.15, G:0.42, T:0.03
Consensus pattern (21 bp):
AGCAACGAGGGAAACAGAGGT
Found at i:57337409 original size:42 final size:43
Alignment explanation
Indices: 57337362--57337451 Score: 119
Period size: 43 Copynumber: 2.1 Consensus size: 43
57337352 TCTACCAAAG
* * * *
57337362 TTAGCAACGTTTGTGAAA-AAGCGCCGTTAAAGATGATGTTCT
1 TTAGCAACGTTTGTAAAATAAGCACCGCTAAAGATCATGTTCT
* *
57337404 TTAGCAGCGTTTGTAAAATAAGCACCGCTAAAGGTCATGTTCT
1 TTAGCAACGTTTGTAAAATAAGCACCGCTAAAGATCATGTTCT
57337447 TTAGC
1 TTAGC
57337452 GGTGCTTTTA
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
42 16 0.39
43 25 0.61
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (43 bp):
TTAGCAACGTTTGTAAAATAAGCACCGCTAAAGATCATGTTCT
Found at i:57337475 original size:43 final size:43
Alignment explanation
Indices: 57337428--57337666 Score: 119
Period size: 43 Copynumber: 5.6 Consensus size: 43
57337418 AAAATAAGCA
** * *
57337428 CCGCTAAAGGTCATGTTCTTTAGCGGTGCTTTTATAGAAAACG
1 CCGCTAAAGAACATGTCCTTTAGCGGCGCTTTTATAGAAAACG
** ** * * * * *
57337471 CCGCTAAAGATGATGTTTTTTAGCAGCGCCTTAATAAAAAATG
1 CCGCTAAAGAACATGTCCTTTAGCGGCGCTTTTATAGAAAACG
* * * *
57337514 CCACTAAAGAACATGACCTTTAGCGGCGTTTGTTAT-GAAAGCG
1 CCGCTAAAGAACATGTCCTTTAGCGGCGCTT-TTATAGAAAACG
* * * * * *
57337557 CTGCTAAAGGACATGGCCTTTAGCGGTG-TTTGT-TACCAAAGCG
1 CCGCTAAAGAACATGTCCTTTAGCGGCGCTTT-TATA-GAAAACG
* * * * * *
57337600 CCACTAAAGAATATAAT-CTTTAGCGGCGTTTGTTAT-GAAAGCA
1 CCGCTAAAGAACAT-GTCCTTTAGCGGCGCTT-TTATAGAAAACG
* *
57337643 CCGCTAAAGAACATGACATTTAGC
1 CCGCTAAAGAACATGTCCTTTAGC
57337667 AGTATTGATT
Statistics
Matches: 145, Mismatches: 42, Indels: 18
0.71 0.20 0.09
Matches are distributed among these distances:
41 2 0.01
42 3 0.02
43 132 0.91
44 6 0.04
45 2 0.01
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (43 bp):
CCGCTAAAGAACATGTCCTTTAGCGGCGCTTTTATAGAAAACG
Found at i:57337579 original size:86 final size:86
Alignment explanation
Indices: 57337489--57337668 Score: 200
Period size: 86 Copynumber: 2.1 Consensus size: 86
57337479 GATGATGTTT
* *
57337489 TTTAGCAGCGCCTTAATA-AAAAATGCCACTAAAGAACATGACCTTTAGCGGCGTTTGTTATGAA
1 TTTAGCAGCG-CTTAATACAAAAACGCCACTAAAGAACATAACCTTTAGCGGCGTTTGTTATGAA
* * * * *
57337553 AGCGCTGCTAAAGGACATGGCC
65 AGCACCGCTAAAGAACATGACA
* * * ** * * * *
57337575 TTTAGCGGTGTTTGTTACCAAAGCGCCACTAAAGAATATAATCTTTAGCGGCGTTTGTTATGAAA
1 TTTAGCAGCGCTTAATACAAAAACGCCACTAAAGAACATAACCTTTAGCGGCGTTTGTTATGAAA
57337640 GCACCGCTAAAGAACATGACA
66 GCACCGCTAAAGAACATGACA
57337661 TTTAGCAG
1 TTTAGCAG
57337669 TATTGATTGT
Statistics
Matches: 76, Mismatches: 17, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
85 4 0.05
86 72 0.95
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (86 bp):
TTTAGCAGCGCTTAATACAAAAACGCCACTAAAGAACATAACCTTTAGCGGCGTTTGTTATGAAA
GCACCGCTAAAGAACATGACA
Found at i:57346137 original size:24 final size:24
Alignment explanation
Indices: 57346081--57346126 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
57346071 AAGCCTAATT
*
57346081 CTAATTAATGTAAAATATATTATG
1 CTAATAAATGTAAAATATATTATG
*
57346105 CTAATAAATGTTAAATATATTA
1 CTAATAAATGTAAAATATATTA
57346127 GACTACTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.48, C:0.04, G:0.07, T:0.41
Consensus pattern (24 bp):
CTAATAAATGTAAAATATATTATG
Found at i:57346356 original size:24 final size:24
Alignment explanation
Indices: 57346329--57346375 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
57346319 CATACTAAAT
57346329 GTTTTAAATATTTTTAAAAAGTTA
1 GTTTTAAATATTTTTAAAAAGTTA
57346353 GTTTTAAATATTTTTAAAAAGTT
1 GTTTTAAATATTTTTAAAAAGTT
57346376 TATTGATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.51
Consensus pattern (24 bp):
GTTTTAAATATTTTTAAAAAGTTA
Found at i:57348920 original size:111 final size:111
Alignment explanation
Indices: 57348726--57348948 Score: 392
Period size: 111 Copynumber: 2.0 Consensus size: 111
57348716 AATTCTAAGA
* *
57348726 TCATTTGAATTTATCATTGTGAGCAAAGCTTTGCTCTTTTAGTTTATTTATTTGTCATCCTACCA
1 TCATTTGAATTTATAATTGTGAGCAAAGCTTTGATCTTTTAGTTTATTTATTTGTCATCCTACCA
*
57348791 TCATCAAATCTTGATTGTAGCTAAAATATCACTATATTTAGTAAAT
66 TCATCAAATATTGATTGTAGCTAAAATATCACTATATTTAGTAAAT
57348837 TCATTTGAATTTATAATTGTGAGCAAAGCTTTGATCTTTTAGTTTATTTATTTGTCATCCTACCA
1 TCATTTGAATTTATAATTGTGAGCAAAGCTTTGATCTTTTAGTTTATTTATTTGTCATCCTACCA
* * *
57348902 TCATTAAATATTGATTGTAGTTAAAATGTCACTATATTTAGTAAAT
66 TCATCAAATATTGATTGTAGCTAAAATATCACTATATTTAGTAAAT
57348948 T
1 T
57348949 AAAATTTTTG
Statistics
Matches: 106, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
111 106 1.00
ACGTcount: A:0.30, C:0.13, G:0.11, T:0.45
Consensus pattern (111 bp):
TCATTTGAATTTATAATTGTGAGCAAAGCTTTGATCTTTTAGTTTATTTATTTGTCATCCTACCA
TCATCAAATATTGATTGTAGCTAAAATATCACTATATTTAGTAAAT
Found at i:57350591 original size:16 final size:16
Alignment explanation
Indices: 57350570--57350603 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
57350560 TATTGTACAT
* *
57350570 ATATATATGTATTTGA
1 ATATATACGTATATGA
57350586 ATATATACGTATATGA
1 ATATATACGTATATGA
57350602 AT
1 AT
57350604 TTTCACGATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.41, C:0.03, G:0.12, T:0.44
Consensus pattern (16 bp):
ATATATACGTATATGA
Found at i:57351019 original size:18 final size:20
Alignment explanation
Indices: 57350979--57351019 Score: 50
Period size: 18 Copynumber: 2.1 Consensus size: 20
57350969 ACTATACATC
* *
57350979 AAGGTTATTTTCTTGATTTA
1 AAGGTTATTTTCTTGAATAA
57350999 AAGGTT-TTTT-TTGAATAA
1 AAGGTTATTTTCTTGAATAA
57351017 AAG
1 AAG
57351020 CATTATTTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
18 9 0.47
19 4 0.21
20 6 0.32
ACGTcount: A:0.32, C:0.02, G:0.17, T:0.49
Consensus pattern (20 bp):
AAGGTTATTTTCTTGAATAA
Found at i:57352137 original size:16 final size:16
Alignment explanation
Indices: 57352116--57352150 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
57352106 TTGTGTTTTG
*
57352116 TTTTGACTGCATGACA
1 TTTTGACTGCATAACA
*
57352132 TTTTGACTTCATAACA
1 TTTTGACTGCATAACA
57352148 TTT
1 TTT
57352151 CATTATAGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.26, C:0.17, G:0.11, T:0.46
Consensus pattern (16 bp):
TTTTGACTGCATAACA
Found at i:57352656 original size:19 final size:20
Alignment explanation
Indices: 57352617--57352656 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
57352607 TCTTTAGGCC
* *
57352617 TTCATTTCATGCATTTGCAT
1 TTCATTACATGCATATGCAT
57352637 TTCATTACAT-CATATGCAT
1 TTCATTACATGCATATGCAT
57352656 T
1 T
57352657 AGACACCGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.25, C:0.20, G:0.07, T:0.47
Consensus pattern (20 bp):
TTCATTACATGCATATGCAT
Found at i:57356982 original size:89 final size:89
Alignment explanation
Indices: 57356817--57357695 Score: 1276
Period size: 89 Copynumber: 9.9 Consensus size: 89
57356807 AAAAGCAGTG
* * * * * *
57356817 GATCCTGTCTTCCTATACTGGTGGCGAAGTAGGTCAAAGAAAGCAGATATTGTCTTCATGTACTG
1 GATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTACTG
* *
57356882 GCGTGAAGTAGATCAGAGATACCA
66 GCGTGAAGTAGATCAAAGATAACA
* * * * ** *
57356906 GATCTTGCCTTCTCATACTGGTGGCGAAGCAGGTAAAAGAAAGCAGATCTTGTCTTCATGTACTG
1 GATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTACTG
* * *
57356971 GCATAAAGTAGATCAAAGATACCA
66 GCGTGAAGTAGATCAAAGATAACA
* * **
57356995 GATCTTGTCTTCCCATACTGGTGGCGAAGTAGGTCAAAGAAAGTAGATCTTGTCTTCATGTACTG
1 GATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTACTG
* *
57357060 GCGTGAAGTAGATCAGAGATACCA
66 GCGTGAAGTAGATCAAAGATAACA
* * *
57357084 GACCTTGTCTTCCCATACTGGTGGCAAAGTAGATCGAAGAAAACAGATATTGTCTTCATGTACTG
1 GATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTACTG
*
57357149 GCGTGAAGTAGATCAAAGATACCA
66 GCGTGAAGTAGATCAAAGATAACA
*
57357173 GATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAACGGATCTTGTCTTCATGTACTG
1 GATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTACTG
* *
57357238 GCGTGAAGTAGAT-AAAAAAAACA
66 GCGTGAAGTAGATCAAAGATAACA
* *
57357261 GATCTTGTCTTCCCATACTTGTGGCGAAGTAGATCGAATG-AAGCAGATCTTGTCTTCATGTACT
1 GATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAA-GAAAACAGATCTTGTCTTCATGTACT
*
57357325 GGCGTGAAGTAGATCAAAGATAGCA
65 GGCGTGAAGTAGATCAAAGATAACA
* * *
57357350 GATCTTGCCTTCCCATACTGGTAGCGAAGCAGATCGAAGAAAACAGATCTTGTCTTCATGTACTG
1 GATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTACTG
* *
57357415 GCGTGAAGTAGATCAAAGAAAATA
66 GCGTGAAGTAGATCAAAGATAACA
57357439 GATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTACTG
1 GATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTACTG
*
57357504 GCGTGAAGTAGATCAAAGATAATA
66 GCGTGAAGTAGATCAAAGATAACA
* * *
57357528 GATCTTGCCTTCCCATACTGGTGGCGAAGTAGATTGAAGAAAATAGATCTTGTCTTCATGTACTG
1 GATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTACTG
* *
57357593 GCATGAAGTAGATCAAAGAAAACA
66 GCGTGAAGTAGATCAAAGATAACA
* * * * *
57357617 GATCTTGCCTTCCCATACTGGTGGCGAAGTAGATCGAAGGAAGCAGATATTGTCTTCATGTATTG
1 GATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTACTG
*
57357682 GCATGAAGTAGATC
66 GCGTGAAGTAGATC
57357696 GAAAAAATAA
Statistics
Matches: 724, Mismatches: 63, Indels: 6
0.91 0.08 0.01
Matches are distributed among these distances:
88 81 0.11
89 643 0.89
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (89 bp):
GATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTACTG
GCGTGAAGTAGATCAAAGATAACA
Found at i:57357651 original size:444 final size:444
Alignment explanation
Indices: 57356817--57357694 Score: 1362
Period size: 444 Copynumber: 2.0 Consensus size: 444
57356807 AAAAGCAGTG
* *
57356817 GATCCTGTCTTCCTATACTGGTGGCGAAGTAGGTCAAAGAAAGCAGATATTGTCTTCATGTACTG
1 GATCCTGTCTTCCCATACTGGTGGCGAAGTAGATCAAAGAAAGCAGATATTGTCTTCATGTACTG
* * * *
57356882 GCGTGAAGTAGATCAGAGATACCAGATCTTGCCTTCTCATACTGGTGGCGAAGCAGGTAAAAGAA
66 GCGTGAAGTAGATCAAAGATACCAGATCTTGCCTTCCCATACTGGTAGCGAAGCAGATAAAAGAA
* * *
57356947 AGCAGATCTTGTCTTCATGTACTGGCATAAAGTAGATCAAAGATACCAGATCTTGTCTTCCCATA
131 AACAGATCTTGTCTTCATGTACTGGCATAAAGTAGATCAAAGAAAACAGATCTTGTCTTCCCATA
* ** *
57357012 CTGGTGGCGAAGTAGGTCAAAGAAAGTAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAGA
196 CTGGTGGCGAAGTAGATCAAAGAAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAA
* *
57357077 GATACCAGACCTTGTCTTCCCATACTGGTGGCAAAGTAGATCGAAGAAAACAGATATTGTCTTCA
261 GATAACAGACCTTGCCTTCCCATACTGGTGGCAAAGTAGATCGAAGAAAACAGATATTGTCTTCA
* * * *
57357142 TGTACTGGCGTGAAGTAGATCAAAGATACCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGAT
326 TGTACTGGCATGAAGTAGATCAAAGAAAACAGATCTTGCCTTCCCATACTGGTGGCGAAGTAGAT
* * *
57357207 CGAAGAAAACGGATCTTGTCTTCATGTACTGGCGTGAAGTAGATAAAAAAAACA
391 CGAAGAAAACAGATATTGTCTTCATGTACTGGCATGAAGTAGATAAAAAAAACA
* * * *
57357261 GATCTTGTCTTCCCATACTTGTGGCGAAGTAGATCGAATG-AAGCAGATCTTGTCTTCATGTACT
1 GATCCTGTCTTCCCATACTGGTGGCGAAGTAGATC-AAAGAAAGCAGATATTGTCTTCATGTACT
* **
57357325 GGCGTGAAGTAGATCAAAGATAGCAGATCTTGCCTTCCCATACTGGTAGCGAAGCAGATCGAAGA
65 GGCGTGAAGTAGATCAAAGATACCAGATCTTGCCTTCCCATACTGGTAGCGAAGCAGATAAAAGA
* * *
57357390 AAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGAAAATAGATCTTGTCTTCCCAT
130 AAACAGATCTTGTCTTCATGTACTGGCATAAAGTAGATCAAAGAAAACAGATCTTGTCTTCCCAT
*
57357455 ACTGGTGGCGAAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAA
195 ACTGGTGGCGAAGTAGATCAAAGAAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAA
* * * * * *
57357520 AGATAATAGATCTTGCCTTCCCATACTGGTGGCGAAGTAGATTGAAGAAAATAGATCTTGTCTTC
260 AGATAACAGACCTTGCCTTCCCATACTGGTGGCAAAGTAGATCGAAGAAAACAGATATTGTCTTC
57357585 ATGTACTGGCATGAAGTAGATCAAAGAAAACAGATCTTGCCTTCCCATACTGGTGGCGAAGTAGA
325 ATGTACTGGCATGAAGTAGATCAAAGAAAACAGATCTTGCCTTCCCATACTGGTGGCGAAGTAGA
* * *
57357650 TCGAAGGAAGCAGATATTGTCTTCATGTATTGGCATGAAGTAGAT
390 TCGAAGAAAACAGATATTGTCTTCATGTACTGGCATGAAGTAGAT
57357695 CGAAAAAATA
Statistics
Matches: 391, Mismatches: 42, Indels: 2
0.90 0.10 0.00
Matches are distributed among these distances:
444 388 0.99
445 3 0.01
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (444 bp):
GATCCTGTCTTCCCATACTGGTGGCGAAGTAGATCAAAGAAAGCAGATATTGTCTTCATGTACTG
GCGTGAAGTAGATCAAAGATACCAGATCTTGCCTTCCCATACTGGTAGCGAAGCAGATAAAAGAA
AACAGATCTTGTCTTCATGTACTGGCATAAAGTAGATCAAAGAAAACAGATCTTGTCTTCCCATA
CTGGTGGCGAAGTAGATCAAAGAAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAA
GATAACAGACCTTGCCTTCCCATACTGGTGGCAAAGTAGATCGAAGAAAACAGATATTGTCTTCA
TGTACTGGCATGAAGTAGATCAAAGAAAACAGATCTTGCCTTCCCATACTGGTGGCGAAGTAGAT
CGAAGAAAACAGATATTGTCTTCATGTACTGGCATGAAGTAGATAAAAAAAACA
Found at i:57359327 original size:16 final size:16
Alignment explanation
Indices: 57359306--57359339 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
57359296 TATTGTACAT
* *
57359306 ATATATATGTATTTGA
1 ATATATACGTATATGA
57359322 ATATATACGTATATGA
1 ATATATACGTATATGA
57359338 AT
1 AT
57359340 TTTCACGATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.41, C:0.03, G:0.12, T:0.44
Consensus pattern (16 bp):
ATATATACGTATATGA
Found at i:57359754 original size:20 final size:20
Alignment explanation
Indices: 57359712--57359754 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
57359702 ACTATACATC
* *
57359712 AAGGTTATTTTCTTGATTTA
1 AAGGTTATTTTCTTGAATAA
* *
57359732 AAGGTTTTTTTTTTGAATAA
1 AAGGTTATTTTCTTGAATAA
57359752 AAG
1 AAG
57359755 CATTATTTGA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.30, C:0.02, G:0.16, T:0.51
Consensus pattern (20 bp):
AAGGTTATTTTCTTGAATAA
Found at i:57368596 original size:43 final size:43
Alignment explanation
Indices: 57368549--57368700 Score: 234
Period size: 43 Copynumber: 3.5 Consensus size: 43
57368539 CACTAAATGT
*
57368549 TATAGATCATGACCTTTAGCGGCTCTTCTTTCACAAATGCCGC
1 TATAGATCATGACCTTTAACGGCTCTTCTTTCACAAATGCCGC
* * * *
57368592 TATAGATCATGACCTTTAACGGCACTT-TTCCCACAAACGCCTC
1 TATAGATCATGACCTTTAACGGCTCTTCTT-TCACAAATGCCGC
*
57368635 TATAGATCATGACCTTTAGCGGCTCTTCTTTCACAAATGCCGC
1 TATAGATCATGACCTTTAACGGCTCTTCTTTCACAAATGCCGC
57368678 TATAGATCATGACCTTTAACGGC
1 TATAGATCATGACCTTTAACGGC
57368701 ACTTTTCCCA
Statistics
Matches: 96, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
42 2 0.02
43 92 0.96
44 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.15, T:0.31
Consensus pattern (43 bp):
TATAGATCATGACCTTTAACGGCTCTTCTTTCACAAATGCCGC
Found at i:57368661 original size:86 final size:86
Alignment explanation
Indices: 57368549--57368722 Score: 348
Period size: 86 Copynumber: 2.0 Consensus size: 86
57368539 CACTAAATGT
57368549 TATAGATCATGACCTTTAGCGGCTCTTCTTTCACAAATGCCGCTATAGATCATGACCTTTAACGG
1 TATAGATCATGACCTTTAGCGGCTCTTCTTTCACAAATGCCGCTATAGATCATGACCTTTAACGG
57368614 CACTTTTCCCACAAACGCCTC
66 CACTTTTCCCACAAACGCCTC
57368635 TATAGATCATGACCTTTAGCGGCTCTTCTTTCACAAATGCCGCTATAGATCATGACCTTTAACGG
1 TATAGATCATGACCTTTAGCGGCTCTTCTTTCACAAATGCCGCTATAGATCATGACCTTTAACGG
57368700 CACTTTTCCCACAAACGCCTC
66 CACTTTTCCCACAAACGCCTC
57368721 TA
1 TA
57368723 AAGAAACATA
Statistics
Matches: 88, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
86 88 1.00
ACGTcount: A:0.26, C:0.30, G:0.14, T:0.30
Consensus pattern (86 bp):
TATAGATCATGACCTTTAGCGGCTCTTCTTTCACAAATGCCGCTATAGATCATGACCTTTAACGG
CACTTTTCCCACAAACGCCTC
Found at i:57369096 original size:21 final size:21
Alignment explanation
Indices: 57369070--57369137 Score: 109
Period size: 21 Copynumber: 3.2 Consensus size: 21
57369060 TTCTGTCCTG
57369070 CTCTGCTTCCCTCGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
* *
57369091 CTCTGCTTCTCTCGCTGTAGC
1 CTCTGCTTCCCTCGCTGCAGC
*
57369112 CTCTGCTTCCCTCGCTGCTGC
1 CTCTGCTTCCCTCGCTGCAGC
57369133 CTCTG
1 CTCTG
57369138 ATTTAAGTTG
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.03, C:0.44, G:0.19, T:0.34
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCAGC
Found at i:57369507 original size:7 final size:7
Alignment explanation
Indices: 57369497--57369538 Score: 59
Period size: 7 Copynumber: 6.1 Consensus size: 7
57369487 TAACTAAACC
57369497 CTAATAT
1 CTAATAT
57369504 CTAATAT
1 CTAATAT
*
57369511 C-AATAC
1 CTAATAT
*
57369517 CAAATAT
1 CTAATAT
57369524 CTAATAT
1 CTAATAT
57369531 CTAATAT
1 CTAATAT
57369538 C
1 C
57369539 AAATTCACAT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
6 5 0.16
7 26 0.84
ACGTcount: A:0.45, C:0.19, G:0.00, T:0.36
Consensus pattern (7 bp):
CTAATAT
Found at i:57369524 original size:20 final size:21
Alignment explanation
Indices: 57369499--57369542 Score: 72
Period size: 20 Copynumber: 2.1 Consensus size: 21
57369489 ACTAAACCCT
57369499 AATATCTAATATC-AATACCA
1 AATATCTAATATCTAATACCA
*
57369519 AATATCTAATATCTAATATCA
1 AATATCTAATATCTAATACCA
57369540 AAT
1 AAT
57369543 TCACATCAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.50, C:0.16, G:0.00, T:0.34
Consensus pattern (21 bp):
AATATCTAATATCTAATACCA
Found at i:57369599 original size:7 final size:7
Alignment explanation
Indices: 57369587--57369628 Score: 50
Period size: 7 Copynumber: 6.1 Consensus size: 7
57369577 TAATCACAGC
57369587 CTAATAT
1 CTAATAT
57369594 CTAATAT
1 CTAATAT
*
57369601 C-AATAC
1 CTAATAT
*
57369607 CAAATAT
1 CTAATAT
*
57369614 CTAAAAT
1 CTAATAT
57369621 CTAATAT
1 CTAATAT
57369628 C
1 C
57369629 AAATTCACAT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
6 5 0.17
7 24 0.83
ACGTcount: A:0.48, C:0.19, G:0.00, T:0.33
Consensus pattern (7 bp):
CTAATAT
Found at i:57369612 original size:20 final size:21
Alignment explanation
Indices: 57369589--57369632 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
57369579 ATCACAGCCT
*
57369589 AATATCTAATATC-AATACCA
1 AATATCTAAAATCTAATACCA
*
57369609 AATATCTAAAATCTAATATCA
1 AATATCTAAAATCTAATACCA
57369630 AAT
1 AAT
57369633 TCACATAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 12 0.57
21 9 0.43
ACGTcount: A:0.52, C:0.16, G:0.00, T:0.32
Consensus pattern (21 bp):
AATATCTAAAATCTAATACCA
Found at i:57369625 original size:90 final size:90
Alignment explanation
Indices: 57369472--57369659 Score: 306
Period size: 90 Copynumber: 2.1 Consensus size: 90
57369462 AAAATGCAGA
* *
57369472 ACAGTAGCAAACATTTAACTAAACCCTAATATCTAATATCAATACCAAATATCTAATATCTAATA
1 ACAGTAGCAAACATGTAACTAAACCCTAATATCTAATATCAATACCAAATATCTAAAATCTAATA
* *
57369537 TCAAATTCACATCAAAGAACATTTG
66 TCAAATTCACATAAAAAAACATTTG
* *
57369562 ACAGTAGCAAACATGTAA-TCACAGCCTAATATCTAATATCAATACCAAATATCTAAAATCTAAT
1 ACAGTAGCAAACATGTAACT-AAACCCTAATATCTAATATCAATACCAAATATCTAAAATCTAAT
57369626 ATCAAATTCACATAAAAAAACATTTG
65 ATCAAATTCACATAAAAAAACATTTG
57369652 ACAGTAGC
1 ACAGTAGC
57369660 CTAAAGTTAG
Statistics
Matches: 91, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
89 1 0.01
90 90 0.99
ACGTcount: A:0.47, C:0.20, G:0.06, T:0.27
Consensus pattern (90 bp):
ACAGTAGCAAACATGTAACTAAACCCTAATATCTAATATCAATACCAAATATCTAAAATCTAATA
TCAAATTCACATAAAAAAACATTTG
Found at i:57369920 original size:7 final size:7
Alignment explanation
Indices: 57369908--57369949 Score: 50
Period size: 7 Copynumber: 6.1 Consensus size: 7
57369898 TAATCACAGC
57369908 CTAATAT
1 CTAATAT
57369915 CTAATAT
1 CTAATAT
**
57369922 C-AATGC
1 CTAATAT
*
57369928 CAAATAT
1 CTAATAT
57369935 CTAATAT
1 CTAATAT
57369942 CTAATAT
1 CTAATAT
57369949 C
1 C
57369950 AAATTCACAT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
6 4 0.14
7 25 0.86
ACGTcount: A:0.43, C:0.19, G:0.02, T:0.36
Consensus pattern (7 bp):
CTAATAT
Found at i:57370908 original size:84 final size:83
Alignment explanation
Indices: 57370767--57371017 Score: 369
Period size: 84 Copynumber: 3.0 Consensus size: 83
57370757 TAGTTCACTT
* * *
57370767 TTGCGGCGTTTTCCTAAAAATCGCCACTATTAGATTTTTTTCCAGTATAGAAACGGCGCCGCATT
1 TTGCGGCGTTTTCTTAAAAA-CGCCACTATCAGATTTTTTTCCAGTACAGAAACGGCGCCGCATT
57370832 GGGAAAATTTAATAAATCA
65 GGGAAAATTTAATAAATCA
*
57370851 TTGCGGCGTTTTCTTACAAAACGCCACTATCAAATTTTTTTCCAGTACAGAAACGGCGCCGCATT
1 TTGCGGCGTTTTCTTA-AAAACGCCACTATCAGATTTTTTTCCAGTACAGAAACGGCGCCGCATT
*
57370916 GGGAAAATTTAATAAATCT
65 GGGAAAATTTAATAAATCA
* * * *
57370935 TTGCGGCGTTTTCTTAAAAAATGCCACTATCAGATTTTATTCCAGTACAGAAACGACGCCTCATT
1 TTGCGGCGTTTTCTT-AAAAACGCCACTATCAGATTTTTTTCCAGTACAGAAACGGCGCCGCATT
*
57371000 GGCAAAATGTTAA-AAATC
65 GGGAAAAT-TTAATAAATC
57371018 CTTGTGACGC
Statistics
Matches: 153, Mismatches: 11, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
84 144 0.94
85 9 0.06
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.31
Consensus pattern (83 bp):
TTGCGGCGTTTTCTTAAAAACGCCACTATCAGATTTTTTTCCAGTACAGAAACGGCGCCGCATTG
GGAAAATTTAATAAATCA
Found at i:57371552 original size:21 final size:21
Alignment explanation
Indices: 57371528--57371572 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
57371518 TTAAACACTA
* *
57371528 AATCACTAACTCTAAACCTCT
1 AATCACTAACCCTAAACCCCT
*
57371549 AATCTCTAACCCTAAACCCCT
1 AATCACTAACCCTAAACCCCT
57371570 AAT
1 AAT
57371573 TAACCACTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.36, G:0.00, T:0.27
Consensus pattern (21 bp):
AATCACTAACCCTAAACCCCT
Found at i:57371681 original size:21 final size:20
Alignment explanation
Indices: 57371664--57371702 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
57371654 CCTTAACCTT
57371664 AAACCCTAAACCCCTAACCAC
1 AAACCCT-AACCCCTAACCAC
*
57371685 AACCCCTAACCCCTAACC
1 AAACCCTAACCCCTAACC
57371703 CCTAAACTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.38, C:0.51, G:0.00, T:0.10
Consensus pattern (20 bp):
AAACCCTAACCCCTAACCAC
Found at i:57371690 original size:13 final size:14
Alignment explanation
Indices: 57371672--57371707 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
57371662 TTAAACCCTA
57371672 AACCCCTAACCAC-
1 AACCCCTAACCACT
*
57371685 AACCCCTAACCCCT
1 AACCCCTAACCACT
57371699 AACCCCTAA
1 AACCCCTAA
57371708 ACTGTATTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
13 12 0.57
14 9 0.43
ACGTcount: A:0.36, C:0.53, G:0.00, T:0.11
Consensus pattern (14 bp):
AACCCCTAACCACT
Found at i:57371776 original size:25 final size:25
Alignment explanation
Indices: 57371748--57371812 Score: 112
Period size: 25 Copynumber: 2.6 Consensus size: 25
57371738 TAAATAATGT
*
57371748 AAACCTTAAACCCTAACCTAACACC
1 AAACCATAAACCCTAACCTAACACC
*
57371773 AAACCATAAACCATAACCTAACACC
1 AAACCATAAACCCTAACCTAACACC
57371798 AAACCATAAACCCTA
1 AAACCATAAACCCTA
57371813 TAAATCCCTA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.49, C:0.37, G:0.00, T:0.14
Consensus pattern (25 bp):
AAACCATAAACCCTAACCTAACACC
Found at i:57371783 original size:116 final size:118
Alignment explanation
Indices: 57371573--57371784 Score: 254
Period size: 116 Copynumber: 1.8 Consensus size: 118
57371563 AACCCCTAAT
* *
57371573 TAACCACTAACCCCTAAACCTTATTTAATATATATAAATTAAAAAACACTAATTAAATAAAATAT
1 TAACCACTAACCCCTAAACCTTATTTAATATATATAAATTAAAAAACACTAAATAAATAAAACAT
* * * * *
57371638 TATACTCTAACCCGACCCTTAACCTTAAACCCTAAACCCCTAACCACAACCCC
66 TAAACCCTAACCCAACCCTAAACCATAAACCCTAAACCCCTAACCACAACCCC
* * *
57371691 TAACCCCTAACCCCTAAA-CTGTATTT-A-ATATATAAATTAAAACACACTAAAT-AATGTAAAC
1 TAACCACTAACCCCTAAACCT-TATTTAATATATATAAATTAAAAAACACTAAATAAAT-AAAAC
* *
57371752 CTTAAACCCTAACCTAACACC-AAACCATAAACC
64 ATTAAACCCTAACCCAAC-CCTAAACCATAAACC
57371785 ATAACCTAAC
Statistics
Matches: 79, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
115 3 0.04
116 49 0.62
117 5 0.06
118 22 0.28
ACGTcount: A:0.45, C:0.29, G:0.01, T:0.25
Consensus pattern (118 bp):
TAACCACTAACCCCTAAACCTTATTTAATATATATAAATTAAAAAACACTAAATAAATAAAACAT
TAAACCCTAACCCAACCCTAAACCATAAACCCTAAACCCCTAACCACAACCCC
Found at i:57372628 original size:41 final size:41
Alignment explanation
Indices: 57372346--57372637 Score: 213
Period size: 41 Copynumber: 7.1 Consensus size: 41
57372336 CGAGTTTTCA
* * *
57372346 AAAAACGCCGCTAATACTAC-GAGCATTAGCGGCGCTT-TTAA
1 AAAAACGCCGCTAAAAC-CCTGAGCATTAGCGGCGCTTCTT-C
* * *
57372387 AAAAATGCCGCTAAAACCAC-AAGCATTAGTGGCGCTT-TTAC
1 AAAAACGCCGCTAAAACC-CTGAGCATTAGCGGCGCTTCTT-C
*
57372428 AAAAACGCCGCTAAAACCCTGAGCATTAGCGGCACTT-TTC
1 AAAAACGCCGCTAAAACCCTGAGCATTAGCGGCGCTTCTTC
* * *
57372468 TAAAAACACCGCTAAAACCCCGAGTATTAGCGGCGCTTCGTT-
1 -AAAAACGCCGCTAAAACCCTGAGCATTAGCGGCGCTTC-TTC
* * * * * * * * *
57372510 AAAGACGCCACCAAAGCTCTGAGCAATT-GCGTCACTTTTTA
1 AAAAACGCCGCTAAAACCCTGAGC-ATTAGCGGCGCTTCTTC
* *
57372551 AAAAACGCCGCTAAAA-CCTCGAACATTTGCGGCGCTTCTTC
1 AAAAACGCCGCTAAAACCCT-GAGCATTAGCGGCGCTTCTTC
* * * * * *
57372592 AAAAACACCGCTAAAGCTCTGAGCATTAGTGTCGCTTCTTT
1 AAAAACGCCGCTAAAACCCTGAGCATTAGCGGCGCTTCTTC
57372633 AAAAA
1 AAAAA
57372638 AGCTACTAAA
Statistics
Matches: 198, Mismatches: 43, Indels: 20
0.76 0.16 0.08
Matches are distributed among these distances:
40 9 0.05
41 182 0.92
42 5 0.03
43 2 0.01
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.23
Consensus pattern (41 bp):
AAAAACGCCGCTAAAACCCTGAGCATTAGCGGCGCTTCTTC
Found at i:57372647 original size:82 final size:81
Alignment explanation
Indices: 57372346--57372640 Score: 280
Period size: 82 Copynumber: 3.6 Consensus size: 81
57372336 CGAGTTTTCA
* * * *
57372346 AAAAACGCCGCTAATA-CTAC-GAGCATTAGCGGCGCTTTTAAAAAAATGCCGCTAAAACCAC-A
1 AAAAACGCCGCTAA-AGCT-CTGAGCATTAGCGTCACTTTTTAAAAAA-GCCGCTAAAACCCCGA
*
57372408 AGCATTAGTGGCGCTT-TTAC
63 A-CATTAGCGGCGCTTCTT-C
* * * *
57372428 AAAAACGCCGCTAAAACCCTGAGCATTAGCGGCACTTTTCTAAAAACA-CCGCTAAAACCCCGAG
1 AAAAACGCCGCTAAAGCTCTGAGCATTAGCGTCACTTTT-TAAAAA-AGCCGCTAAAACCCCGAA
*
57372492 TATTAGCGGCGCTTCGTT-
64 CATTAGCGGCGCTTC-TTC
* * * *
57372510 AAAGACGCCACCAAAGCTCTGAGCAATT-GCGTCACTTTTTAAAAAACGCCGCTAAAACCTCGAA
1 AAAAACGCCGCTAAAGCTCTGAGC-ATTAGCGTCACTTTTTAAAAAA-GCCGCTAAAACCCCGAA
*
57372574 CATTTGCGGCGCTTCTTC
64 CATTAGCGGCGCTTCTTC
* * *
57372592 AAAAACACCGCTAAAGCTCTGAGCATTAGTGTCGCTTCTTTAAAAAAGC
1 AAAAACGCCGCTAAAGCTCTGAGCATTAGCGTCACTT-TTTAAAAAAGC
57372641 TACTAAAGCT
Statistics
Matches: 177, Mismatches: 23, Indels: 26
0.78 0.10 0.12
Matches are distributed among these distances:
80 1 0.01
81 13 0.07
82 142 0.80
83 18 0.10
84 3 0.02
ACGTcount: A:0.33, C:0.27, G:0.18, T:0.22
Consensus pattern (81 bp):
AAAAACGCCGCTAAAGCTCTGAGCATTAGCGTCACTTTTTAAAAAAGCCGCTAAAACCCCGAACA
TTAGCGGCGCTTCTTC
Found at i:57372649 original size:123 final size:124
Alignment explanation
Indices: 57372422--57372650 Score: 293
Period size: 123 Copynumber: 1.9 Consensus size: 124
57372412 TTAGTGGCGC
*
57372422 TTTTACAAAAACGCCGCTAAAACCCTGAGCATTAGCGGCACTTTTCTAAAAACACCGCTAAAACC
1 TTTTACAAAAACGCCGCTAAAACCCTGAACATTAGCGGCACTTTTCTAAAAACACCGCTAAAACC
* * *
57372487 CCGAGTATTAGCGGCGCTTCGTTAAAGACGCCACCAAAGCTCTGAGCAATTGCGTCACT
66 CCGAGCATTAGCGGCGCTTCGTTAAAAAAGCCACCAAAGCTCTGAGCAATTGCGTCACT
* * *
57372546 TTTTA-AAAAACGCCGCTAAAA-CCTCGAACATTTGCGGCGCTTCTTC-AAAAACACCGCTAAAG
1 TTTTACAAAAACGCCGCTAAAACCCT-GAACATTAGCGGCACTT-TTCTAAAAACACCGCTAAAA
* * * * * * *
57372608 CTCTGAGCATTAGTGTCGCTTCTTTAAAAAAGCTACTAAAGCT
64 CCCCGAGCATTAGCGGCGCTTCGTTAAAAAAGCCACCAAAGCT
57372651 AAGTGCCGCT
Statistics
Matches: 89, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
122 3 0.03
123 78 0.88
124 8 0.09
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (124 bp):
TTTTACAAAAACGCCGCTAAAACCCTGAACATTAGCGGCACTTTTCTAAAAACACCGCTAAAACC
CCGAGCATTAGCGGCGCTTCGTTAAAAAAGCCACCAAAGCTCTGAGCAATTGCGTCACT
Found at i:57377374 original size:113 final size:111
Alignment explanation
Indices: 57376985--57377504 Score: 389
Period size: 115 Copynumber: 4.5 Consensus size: 111
57376975 GTAAAACAAG
* *
57376985 TATTAGCGGC-ATTTACTAAAAGCGCCGCAAA-ATATGATAACCAAAACGCAGAGTTTGGTCTTG
1 TATTAGCGGCGCTTT-CTAGAAGCGCCGCAAATATAT--TAACCAAAACGCAGAGTTTGGTCTTG
*
57377048 AGGTATATTAGGATTAGTGGCGC-TTACAGACAAACGCCGCTAAAG-AGTAC
63 AGGTATATTAGGATTAGTGGCGCTTTATAG--AAACGCCGCTAAAGTA-TAC
* * * * * * *
57377098 TATTAGCGGTGCGTTCGGAGAAGCGCCGCTATATTTCTTAACCAAAACTG-AGCGTTTTGGTCTT
1 TATTAGCGGCGCTTTC-TAGAAGCGCCGC-AAATATATTAACCAAAAC-GCAGAG-TTTGGTCTT
* * ** *
57377162 GATGTATAATATAATTAGTGGCGCTTATAATA-AAACGCCGCTAAA-TATCAG
62 GAGGTATATTAGGATTAGTGGCGCTT-T-ATAGAAACGCCGCTAAAGTAT-AC
* *
57377213 TATTAGCGGCGCTTT-TAGTTAAGCGCCGC-AATATATGCACACCAAAACGCAGAGTTTGGTATT
1 TATTAGCGGCGCTTTCTAG--AAGCGCCGCAAATATAT-TA-ACCAAAACGCAGAGTTTGGTCTT
*
57377276 GAGGTATATTAGGATTAGTGGCGCTTTTTAGAAACGCCGCTAAAGTATAC
62 GAGGTATATTAGGATTAGTGGCGCTTTATAGAAACGCCGCTAAAGTATAC
* * * **
57377326 TATTAGCGGCGCTTTCTCAGAAGCGCCGCAAGATATATTAACCGAAACGCTGCGTTTAAATCTTG
1 TATTAGCGGCGCTTTCT-AGAAGCGCCGCAA-ATATATTAACCAAAACGCAGAGTTT-GGTCTTG
* * * * * *
57377391 ATGTATACT-GGAATTAGTGGCG-TTCACGAGAAATCACCGCTAAA-TCATAT
63 AGGTATATTAGG-ATTAGTGGCGCTTTA-TAGAAA-CGCCGCTAAAGT-ATAC
* * * * * * *
57377441 TATTAGCGGCGCATTTTTATAAGCGCCGTAAAAGATCTTTACCAAAACGCACAGTTTTGGTCTT
1 TATTAGCGGCGC-TTTCTAGAAGCGCCG-CAAATATATTAACCAAAACGCAGAG-TTTGGTCTT
57377505 AACCATGCAT
Statistics
Matches: 321, Mismatches: 56, Indels: 58
0.74 0.13 0.13
Matches are distributed among these distances:
112 2 0.01
113 73 0.23
114 91 0.28
115 140 0.44
116 12 0.04
117 1 0.00
118 2 0.01
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.29
Consensus pattern (111 bp):
TATTAGCGGCGCTTTCTAGAAGCGCCGCAAATATATTAACCAAAACGCAGAGTTTGGTCTTGAGG
TATATTAGGATTAGTGGCGCTTTATAGAAACGCCGCTAAAGTATAC
Found at i:57377433 original size:228 final size:229
Alignment explanation
Indices: 57376935--57377497 Score: 578
Period size: 228 Copynumber: 2.5 Consensus size: 229
57376925 TTTTAGTATC
* * * * *
57376935 GATGTATATTAGAATTAGTGGCGCTTACAAAAAAACGCTAG-TAAAACA-AGTATTAGC-G-GCA
1 GATGTATAATAGAATTAGTGGCGCTTACAAGAAAACAC-CGCTAAATCATAGTATTAGCGGCGCA
* * *
57376996 -TTTACTAAAAGCGCCGCAAAATATGATAACCAAAACGCAGAGTTTGGTCTTGAGGTATATTAGG
65 TTTTAGT-TAAGCGCCGCAAAATATGATAACCAAAACGCAGAGTTTGGTATTGAGGTATATTAGG
* *
57377060 ATTAGTGGCGCTTACAGACAAACGCCGCTAAAGAGTACTATTAGCGGTGCGTTCGGAGAAGCGCC
129 ATTAGTGGCGCTTACAGA-AAACGCCGCTAAAGAGTACTATTAGCGGCGCGTTCGCAGAAGCGCC
* * * * ***
57377125 GCTATATTTCTTAACCAAAACTGAGCGTTTTGGTCTT
193 GCAAGATATATTAACCAAAACTGAGCGTTTAAATCTT
* * * *
57377162 GATGTATAATATAATTAGTGGCGCTTATAATAAAACGCCGCTAAAT-ATCAGTATTAGCGGCGC-
1 GATGTATAATAGAATTAGTGGCGCTTACAAGAAAACACCGCTAAATCAT-AGTATTAGCGGCGCA
* *
57377225 TTTTAGTTAAGCGCCGCAATATATGCA-CACCAAAACGCAGAGTTTGGTATTGAGGTATATTAGG
65 TTTTAGTTAAGCGCCGCAAAATATG-ATAACCAAAACGCAGAGTTTGGTATTGAGGTATATTAGG
** * *
57377289 ATTAGTGGCGCTTTTTAG-AAACGCCGCTAAAGTA-TACTATTAGCGGCGCTTTCTCAGAAGCGC
129 ATTAGTGGCGC-TTACAGAAAACGCCGCTAAAG-AGTACTATTAGCGGCGCGTTCGCAGAAGCGC
* *
57377352 CGCAAGATATATTAACCGAAAC-GCTGCGTTTAAATCTT
192 CGCAAGATATATTAACCAAAACTG-AGCGTTTAAATCTT
* * * * *
57377390 GATGTATACTGGAATTAGTGGCG-TTCACGAGAAATCACCGCTAAATCATATTATTAGCGGCGCA
1 GATGTATAATAGAATTAGTGGCGCTT-ACAAGAAAACACCGCTAAATCATAGTATTAGCGGCGCA
* * ** * *
57377454 TTTT--TATAAGCGCCGTAAAAGATCTTTACCAAAACGCACAGTTT
65 TTTTAGT-TAAGCGCCGCAAAATATGATAACCAAAACGCAGAGTTT
57377498 TGGTCTTAAC
Statistics
Matches: 279, Mismatches: 42, Indels: 29
0.80 0.12 0.08
Matches are distributed among these distances:
226 2 0.01
227 42 0.15
228 153 0.55
229 70 0.25
230 12 0.04
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (229 bp):
GATGTATAATAGAATTAGTGGCGCTTACAAGAAAACACCGCTAAATCATAGTATTAGCGGCGCAT
TTTAGTTAAGCGCCGCAAAATATGATAACCAAAACGCAGAGTTTGGTATTGAGGTATATTAGGAT
TAGTGGCGCTTACAGAAAACGCCGCTAAAGAGTACTATTAGCGGCGCGTTCGCAGAAGCGCCGCA
AGATATATTAACCAAAACTGAGCGTTTAAATCTT
Found at i:57377830 original size:7 final size:7
Alignment explanation
Indices: 57377816--57377869 Score: 56
Period size: 7 Copynumber: 7.7 Consensus size: 7
57377806 GTTATGGTGT
57377816 TTTA-GG
1 TTTAGGG
57377822 TTTAGGG
1 TTTAGGG
57377829 TTTAGGAG
1 TTTAGG-G
*
57377837 GTTAGGG
1 TTTAGGG
**
57377844 TTTAAAG
1 TTTAGGG
57377851 TTTAGGG
1 TTTAGGG
*
57377858 TTTGGGG
1 TTTAGGG
57377865 TTTAG
1 TTTAG
57377870 ACTGCTTTAG
Statistics
Matches: 38, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
6 4 0.11
7 28 0.74
8 6 0.16
ACGTcount: A:0.19, C:0.00, G:0.39, T:0.43
Consensus pattern (7 bp):
TTTAGGG
Found at i:57377845 original size:22 final size:21
Alignment explanation
Indices: 57377820--57377870 Score: 57
Period size: 22 Copynumber: 2.4 Consensus size: 21
57377810 TGGTGTTTTA
*
57377820 GGTTTAGGGTTTAGGAGGTTAG
1 GGTTTAGAGTTTAGG-GGTTAG
* * *
57377842 GGTTTAAAGTTTAGGGTTTGG
1 GGTTTAGAGTTTAGGGGTTAG
57377863 GGTTTAGA
1 GGTTTAGA
57377871 CTGCTTTAGT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 11 0.46
22 13 0.54
ACGTcount: A:0.20, C:0.00, G:0.41, T:0.39
Consensus pattern (21 bp):
GGTTTAGAGTTTAGGGGTTAG
Found at i:57377846 original size:29 final size:34
Alignment explanation
Indices: 57377785--57377860 Score: 90
Period size: 29 Copynumber: 2.4 Consensus size: 34
57377775 TAGAGTATTG
*
57377785 AGTTTAGGGTTTATGATGTAGGTTATGGTGTTTTA
1 AGTTTAGGGTTTATGA-GTAGGTTATGGTGTTTAA
*
57377820 GGTTTAGGGTTTA-G-G-AGGTTA-GG-GTTTAA
1 AGTTTAGGGTTTATGAGTAGGTTATGGTGTTTAA
57377849 AGTTTAGGGTTT
1 AGTTTAGGGTTT
57377861 GGGGTTTAGA
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
29 16 0.42
30 2 0.05
31 6 0.16
32 1 0.03
34 1 0.03
35 12 0.32
ACGTcount: A:0.20, C:0.00, G:0.36, T:0.45
Consensus pattern (34 bp):
AGTTTAGGGTTTATGAGTAGGTTATGGTGTTTAA
Found at i:57378284 original size:24 final size:23
Alignment explanation
Indices: 57378257--57378302 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
57378247 TTGAATAATA
*
57378257 TAAATAATTTATA-ATTTATAATTT
1 TAAAT-ATTGATATATTTA-AATTT
57378281 TAAATATTGATATATTTAAATT
1 TAAATATTGATATATTTAAATT
57378303 ATACAGAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 10 0.50
24 10 0.50
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (23 bp):
TAAATATTGATATATTTAAATTT
Found at i:57379100 original size:44 final size:44
Alignment explanation
Indices: 57379040--57379135 Score: 120
Period size: 44 Copynumber: 2.2 Consensus size: 44
57379030 AATTGTTGCG
* * * **
57379040 TCCTTCCTGCCCAATTTCTTGAATTCCCAAATCTGTAAATCACC
1 TCCTTCCTGCCAAATTTCTTAAAATCCCAAATCCCTAAATCACC
* **
57379084 TCCTTCTTGCCAAATTTCTTAAAATCTGAAATCCCTAAATCACC
1 TCCTTCCTGCCAAATTTCTTAAAATCCCAAATCCCTAAATCACC
57379128 TCCTTCCT
1 TCCTTCCT
57379136 CCTTCCAGAG
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.26, C:0.33, G:0.05, T:0.35
Consensus pattern (44 bp):
TCCTTCCTGCCAAATTTCTTAAAATCCCAAATCCCTAAATCACC
Found at i:57380812 original size:35 final size:34
Alignment explanation
Indices: 57380768--57380858 Score: 123
Period size: 32 Copynumber: 2.7 Consensus size: 34
57380758 TAAAGTTATA
* *
57380768 TTTTAAATATTTTATTTTATTTTAATCATGAATTT
1 TTTTAAATATTTTATTTT-TTTTAATCACGAATAT
57380803 TTTTAAATATTTTA--TTTTTTAATCACGAATAT
1 TTTTAAATATTTTATTTTTTTTAATCACGAATAT
**
57380835 TTTTAAATATTAAATTTTTTTTAA
1 TTTTAAATATTTTATTTTTTTTAA
57380859 AGTTCAAATT
Statistics
Matches: 50, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
32 26 0.52
33 2 0.04
34 8 0.16
35 14 0.28
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.60
Consensus pattern (34 bp):
TTTTAAATATTTTATTTTTTTTAATCACGAATAT
Found at i:57380896 original size:18 final size:17
Alignment explanation
Indices: 57380865--57380920 Score: 78
Period size: 16 Copynumber: 3.3 Consensus size: 17
57380855 TTAAAGTTCA
57380865 AATTTCATAACTTACGT
1 AATTTCATAACTTACGT
* *
57380882 AATTTACATATCTTACAT
1 AATTT-CATAACTTACGT
57380900 AA-TTCATAACTTACGT
1 AATTTCATAACTTACGT
57380916 AATTT
1 AATTT
57380921 AAATTTATAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
16 12 0.36
17 9 0.27
18 12 0.36
ACGTcount: A:0.38, C:0.16, G:0.04, T:0.43
Consensus pattern (17 bp):
AATTTCATAACTTACGT
Found at i:57380940 original size:29 final size:33
Alignment explanation
Indices: 57380870--57380942 Score: 91
Period size: 34 Copynumber: 2.3 Consensus size: 33
57380860 GTTCAAATTT
*
57380870 CATAACTTACGTAATTTACATATCTTACATAATT
1 CATAACTTACGTAATTTACATATCTTA-ATAATA
57380904 CATAACTTACGTAATTTA-A-AT-TT-ATAATA
1 CATAACTTACGTAATTTACATATCTTAATAATA
*
57380933 CTTAACTTAC
1 CATAACTTAC
57380943 ATATCTTATT
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
29 14 0.38
31 2 0.05
32 2 0.05
33 1 0.03
34 18 0.49
ACGTcount: A:0.40, C:0.16, G:0.03, T:0.41
Consensus pattern (33 bp):
CATAACTTACGTAATTTACATATCTTAATAATA
Found at i:57380992 original size:19 final size:19
Alignment explanation
Indices: 57380970--57381007 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
57380960 ATATATAGTT
57380970 TTTATATATATATTTAAAA
1 TTTATATATATATTTAAAA
*
57380989 TTTATATATATTTTTAAAA
1 TTTATATATATATTTAAAA
57381008 ATTGATACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
TTTATATATATATTTAAAA
Found at i:57381117 original size:10 final size:10
Alignment explanation
Indices: 57381102--57381137 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
57381092 TATCATAACT
57381102 TACATAATAA
1 TACATAATAA
57381112 TACATAATAA
1 TACATAATAA
*
57381122 TACATAA-CA
1 TACATAATAA
57381131 TACATAA
1 TACATAA
57381138 ATTAAATAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
9 8 0.32
10 17 0.68
ACGTcount: A:0.58, C:0.14, G:0.00, T:0.28
Consensus pattern (10 bp):
TACATAATAA
Found at i:57381211 original size:95 final size:95
Alignment explanation
Indices: 57381112--57381447 Score: 496
Period size: 95 Copynumber: 3.5 Consensus size: 95
57381102 TACATAATAA
* *
57381112 TACATAATAATACATAACATACATAAATTAAATAAGTTACATAATACACAAAAACAAAAACTTAC
1 TACATAATAATACATACCGTACATAAATTAAATAAGTTACATAATACACAAAAACAAAAACTTAC
*
57381177 ATAACTTACATAATATCCTACATCCCTACT
66 ATAACTTACATAATATCCTACATCACTACT
* * *
57381207 TACATAATAATACATACCGTACATAAATTTAATAAGTTACATAATATACAAAAACAAAAACTTGC
1 TACATAATAATACATACCGTACATAAATTAAATAAGTTACATAATACACAAAAACAAAAACTTAC
* *
57381272 ATAGCTTACATAATATCCTACATCTCTACT
66 ATAACTTACATAATATCCTACATCACTACT
*
57381302 TACATAATAATACATACCGTACATAAATTAAATAAGTTACATAATAAACAAAAACAAAAACTTAC
1 TACATAATAATACATACCGTACATAAATTAAATAAGTTACATAATACACAAAAACAAAAACTTAC
* * *
57381367 ATAACTTACATAATAACTTACAT-AATAAC-
66 ATAACTTACATAATATCCTACATCACT-ACT
* * * *
57381396 AATGATAATAATGCATACCCTACATAAATTAAATAAGTTACATAATACACAA
1 TA-CATAATAATACATACCGTACATAAATTAAATAAGTTACATAATACACAA
57381448 TAAGGTTAAA
Statistics
Matches: 219, Mismatches: 20, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
94 2 0.01
95 217 0.99
ACGTcount: A:0.51, C:0.18, G:0.03, T:0.28
Consensus pattern (95 bp):
TACATAATAATACATACCGTACATAAATTAAATAAGTTACATAATACACAAAAACAAAAACTTAC
ATAACTTACATAATATCCTACATCACTACT
Found at i:57381230 original size:52 final size:52
Alignment explanation
Indices: 57381174--57381336 Score: 130
Period size: 52 Copynumber: 3.3 Consensus size: 52
57381164 AACAAAAACT
*
57381174 TACATAACTTACATAATATCCTACATCCCTACTTACATAATAATACATACCG
1 TACATAACTTACATAATATCCTACATCACTACTTACATAATAATACATACCG
* * * * * * *
57381226 TACATAAATTTA-ATAA-GT--TACAT-AATA--TACA-AA-AACA-AAAACT
1 TACAT-AACTTACATAATATCCTACATCACTACTTACATAATAATACATACCG
* * *
57381269 TGCATAGCTTACATAATATCCTACATCTCTACTTACATAATAATACATACCG
1 TACATAACTTACATAATATCCTACATCACTACTTACATAATAATACATACCG
* *
57381321 TACATAAATTAAATAA
1 TACATAACTTACATAA
57381337 GTTACATAAT
Statistics
Matches: 78, Mismatches: 22, Indels: 22
0.64 0.18 0.18
Matches are distributed among these distances:
42 4 0.05
43 11 0.14
44 4 0.05
45 2 0.03
46 9 0.12
47 2 0.03
48 2 0.03
49 9 0.12
50 2 0.03
51 4 0.05
52 24 0.31
53 5 0.06
ACGTcount: A:0.46, C:0.20, G:0.03, T:0.31
Consensus pattern (52 bp):
TACATAACTTACATAATATCCTACATCACTACTTACATAATAATACATACCG
Found at i:57381384 original size:12 final size:12
Alignment explanation
Indices: 57381367--57381395 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
57381357 AAAAACTTAC
57381367 ATAACTTACATA
1 ATAACTTACATA
57381379 ATAACTTACATA
1 ATAACTTACATA
57381391 ATAAC
1 ATAAC
57381396 AATGATAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.52, C:0.17, G:0.00, T:0.31
Consensus pattern (12 bp):
ATAACTTACATA
Found at i:57381484 original size:12 final size:12
Alignment explanation
Indices: 57381467--57381493 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
57381457 AAACACAGTG
57381467 TAACTTACATAA
1 TAACTTACATAA
57381479 TAACTTACATAA
1 TAACTTACATAA
57381491 TAA
1 TAA
57381494 TACATACTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.15, G:0.00, T:0.33
Consensus pattern (12 bp):
TAACTTACATAA
Found at i:57381508 original size:19 final size:19
Alignment explanation
Indices: 57381478--57381544 Score: 88
Period size: 19 Copynumber: 3.7 Consensus size: 19
57381468 AACTTACATA
57381478 ATAACTTACATAATAATAC
1 ATAACTTACATAATAATAC
57381497 AT-ACTCTACATAATAATAC
1 ATAACT-TACATAATAATAC
*
57381516 ATAACTTAC---ATAAGAC
1 ATAACTTACATAATAATAC
57381532 ATAACTTACATAA
1 ATAACTTACATAA
57381545 GTTTCATAGT
Statistics
Matches: 42, Mismatches: 1, Indels: 10
0.79 0.02 0.19
Matches are distributed among these distances:
16 15 0.36
18 3 0.07
19 21 0.50
20 3 0.07
ACGTcount: A:0.51, C:0.18, G:0.01, T:0.30
Consensus pattern (19 bp):
ATAACTTACATAATAATAC
Found at i:57381525 original size:9 final size:9
Alignment explanation
Indices: 57381478--57381627 Score: 134
Period size: 9 Copynumber: 16.9 Consensus size: 9
57381468 AACTTACATA
57381478 ATAACTTAC
1 ATAACTTAC
57381487 ATAA-TAATAC
1 ATAACT--TAC
57381497 AT-ACTCTAC
1 ATAACT-TAC
57381506 ATAA-TAATAC
1 ATAACT--TAC
57381516 ATAACTTAC
1 ATAACTTAC
*
57381525 ATAA--GAC
1 ATAACTTAC
57381532 ATAACTTAC
1 ATAACTTAC
* *
57381541 ATAAGTTTC
1 ATAACTTAC
*
57381550 AT-A-GTAC
1 ATAACTTAC
*
57381557 ACAACTTAC
1 ATAACTTAC
*
57381566 ACAACTTAC
1 ATAACTTAC
*
57381575 ACAACTTAC
1 ATAACTTAC
*
57381584 ACAACTTAC
1 ATAACTTAC
57381593 ATAACTTAC
1 ATAACTTAC
57381602 ATAACTTAC
1 ATAACTTAC
57381611 ATAACTTAC
1 ATAACTTAC
57381620 ATAACTTA
1 ATAACTTA
57381628 TTCCTAAATC
Statistics
Matches: 120, Mismatches: 11, Indels: 20
0.79 0.07 0.13
Matches are distributed among these distances:
7 9 0.08
8 3 0.03
9 93 0.77
10 14 0.12
11 1 0.01
ACGTcount: A:0.46, C:0.22, G:0.02, T:0.30
Consensus pattern (9 bp):
ATAACTTAC
Found at i:57387108 original size:21 final size:20
Alignment explanation
Indices: 57387082--57387150 Score: 75
Period size: 21 Copynumber: 3.3 Consensus size: 20
57387072 CAACAACTTA
*
57387082 AAGCAGAGGTGGCAGCGAGGG
1 AAGCAGAGGT-GCAGCGAGAG
*
57387103 AAGCAGAGGCTACAGCGAGAG
1 AAGCAGAGG-TGCAGCGAGAG
* *
57387124 AAGCAAAGGCCGCAGCGAGAG
1 AAGCAGAGG-TGCAGCGAGAG
57387145 AAGCAG
1 AAGCAG
57387151 CGATAGAAGC
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
21 40 0.98
22 1 0.02
ACGTcount: A:0.36, C:0.19, G:0.42, T:0.03
Consensus pattern (20 bp):
AAGCAGAGGTGCAGCGAGAG
Found at i:57387644 original size:17 final size:17
Alignment explanation
Indices: 57387622--57387659 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
57387612 CGGCGTTTTA
*
57387622 AACAAGCGCCGCTATAG
1 AACAAGCGCCACTATAG
57387639 AACAAGCGCCACTATAG
1 AACAAGCGCCACTATAG
57387656 AACA
1 AACA
57387660 TTACTTTTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.42, C:0.29, G:0.18, T:0.11
Consensus pattern (17 bp):
AACAAGCGCCACTATAG
Found at i:57387739 original size:42 final size:42
Alignment explanation
Indices: 57387642--57387892 Score: 301
Period size: 42 Copynumber: 5.9 Consensus size: 42
57387632 GCTATAGAAC
* * * *
57387642 AAGCGCCACTATAGAACATTA-CTTTTAGAGGCGTTTTCTTCCA
1 AAGCGCCGCTAAAGAACATGATC-TTTAGCGGCGTTTT-TTCCA
*
57387685 AAGCGCCGCTAAAGAACATGATCTTTCGCGGCGTTTTTTCCA
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCA
** * *
57387727 AAGCGCTACTAAAGAACATGATCTTTAACGGCGTTTTTTTCGA
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCG-TTTTTTCCA
*
57387770 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCATTTTTT-CA
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCA
* * *
57387811 TAAGCGACGCTAAAGAAAATAATCTTTAGCGGCGTTTTTT-CA
1 -AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCA
* *
57387853 TAAGCGTCACTAAAGAACATGATCTTTAGCGGCGTTTTTT
1 -AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTT
57387893 TCTATAAGTA
Statistics
Matches: 182, Mismatches: 23, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
41 1 0.01
42 113 0.62
43 67 0.37
44 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (42 bp):
AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCA
Found at i:57387893 original size:85 final size:84
Alignment explanation
Indices: 57387665--57387900 Score: 298
Period size: 85 Copynumber: 2.8 Consensus size: 84
57387655 GAACATTACT
* * *
57387665 TTTAGAGGCGTTTTCTTCCAAAGCGCCGCTAAAGAACATGATCTTTCGCGGCGTTTTTTCCA-AA
1 TTTAGCGGCGTTTT-TT-CAAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCATAA
* *
57387729 GCGCTACTAAAGAACATGATC
64 GCGCTACTAAAGAAAATAATC
* *
57387750 TTTAACGGCGTTTTTTTCGAAAGCGCCGCTAAAGAACATGATCTTTAGCGGC-ATTTTTTCATAA
1 TTTAGCGGCG-TTTTTTC-AAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCATAA
*
57387814 GCGAC-GCTAAAGAAAATAATC
64 GCG-CTACTAAAGAAAATAATC
* *
57387835 TTTAGCGGCGTTTTTTCATAAGCGTCACTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTATAA
1 TTTAGCGGCGTTTTTTCA-AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTC-ATAA
57387900 G
64 G
57387901 TACCGTAAAA
Statistics
Matches: 132, Mismatches: 12, Indels: 13
0.84 0.08 0.08
Matches are distributed among these distances:
83 1 0.01
84 45 0.34
85 76 0.58
86 10 0.08
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (84 bp):
TTTAGCGGCGTTTTTTCAAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCATAAGC
GCTACTAAAGAAAATAATC
Found at i:57390779 original size:19 final size:20
Alignment explanation
Indices: 57390757--57390794 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
57390747 TTTTTTTATA
57390757 TTTTCCTT-ATTCTTTATCT
1 TTTTCCTTAATTCTTTATCT
*
57390776 TTTTCCTTAATTTTTTATC
1 TTTTCCTTAATTCTTTATC
57390795 CCTTCTCTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.13, C:0.18, G:0.00, T:0.68
Consensus pattern (20 bp):
TTTTCCTTAATTCTTTATCT
Found at i:57391258 original size:19 final size:19
Alignment explanation
Indices: 57391206--57391259 Score: 54
Period size: 21 Copynumber: 2.7 Consensus size: 19
57391196 AATTATATGC
* *
57391206 ATTTTTTAAATTATGTATAT
1 ATTTTTTATATT-TATATAT
*
57391226 ATTTTTTCTTTATTTATATAT
1 A-TTTTT-TATATTTATATAT
57391247 ATTTTTTATATTT
1 ATTTTTTATATTT
57391260 TTACAAATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
19 6 0.21
20 6 0.21
21 12 0.43
22 4 0.14
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.69
Consensus pattern (19 bp):
ATTTTTTATATTTATATAT
Found at i:57398358 original size:3 final size:3
Alignment explanation
Indices: 57398350--57398395 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
57398340 CATTTTTAAA
57398350 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
57398396 GAATTTGTTT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:57398469 original size:21 final size:22
Alignment explanation
Indices: 57398443--57398491 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
57398433 CACACATTAC
57398443 TTATTTTAAA-CGTTTTACATA
1 TTATTTTAAATCGTTTTACATA
* * *
57398464 TTATTTTAAATTGTTTTATATG
1 TTATTTTAAATCGTTTTACATA
57398486 TTATTT
1 TTATTT
57398492 ATTTTAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 10 0.42
22 14 0.58
ACGTcount: A:0.29, C:0.04, G:0.06, T:0.61
Consensus pattern (22 bp):
TTATTTTAAATCGTTTTACATA
Found at i:57398497 original size:26 final size:25
Alignment explanation
Indices: 57398464--57398543 Score: 72
Period size: 26 Copynumber: 3.1 Consensus size: 25
57398454 GTTTTACATA
57398464 TTATTTTAAATTGTTTTATATG-TTAT
1 TTATTTTAAATTGTTTTA-A-GATTAT
* *
57398490 TTATTTTAAAATGCTTTGAAGATTAT
1 TTATTTTAAATTG-TTTTAAGATTAT
* * *
57398516 TCATTTTAACTTGTTTTACACATTAT
1 TTATTTTAAATTGTTTTA-AGATTAT
57398542 TT
1 TT
57398544 TAATATGTAT
Statistics
Matches: 43, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
25 5 0.12
26 34 0.79
27 4 0.09
ACGTcount: A:0.29, C:0.06, G:0.07, T:0.57
Consensus pattern (25 bp):
TTATTTTAAATTGTTTTAAGATTAT
Found at i:57400097 original size:25 final size:25
Alignment explanation
Indices: 57400069--57400116 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
57400059 ATAGTCTATC
* *
57400069 TATAGTAGTCTCAGTATATACTACT
1 TATAGCAGTCTCAGGATATACTACT
*
57400094 TATAGCAGTGTCAGGATATACTA
1 TATAGCAGTCTCAGGATATACTA
57400117 TCAAAGACAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.35
Consensus pattern (25 bp):
TATAGCAGTCTCAGGATATACTACT
Found at i:57405127 original size:25 final size:26
Alignment explanation
Indices: 57405099--57405153 Score: 64
Period size: 25 Copynumber: 2.2 Consensus size: 26
57405089 TTTATTAGAG
57405099 TTTATTACA-TTTTTAT-TT-TATAATA
1 TTTATTA-ATTTTTTATCTTATATAA-A
57405124 TTTA-TAATTTTTTATCTTATATAAA
1 TTTATTAATTTTTTATCTTATATAAA
57405149 TTTAT
1 TTTAT
57405154 ATGTATTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
23 1 0.04
24 9 0.35
25 11 0.42
26 5 0.19
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.64
Consensus pattern (26 bp):
TTTATTAATTTTTTATCTTATATAAA
Found at i:57405143 original size:24 final size:23
Alignment explanation
Indices: 57405108--57405184 Score: 66
Period size: 24 Copynumber: 3.1 Consensus size: 23
57405098 GTTTATTACA
57405108 TTTTTATTTTATAATATTTATAAT
1 TTTTTA-TTTATAATATTTATAAT
*
57405132 TTTTTATCTTATATAAATTTAT-AT
1 TTTTTAT-TTATA-ATATTTATAAT
*
57405156 GTATTTATATTTAGTAATTTTTATAAT
1 -T-TTT-TATTTA-TAATATTTATAAT
57405183 TT
1 TT
57405185 GTATAGTCTT
Statistics
Matches: 43, Mismatches: 3, Indels: 13
0.73 0.05 0.22
Matches are distributed among these distances:
23 1 0.02
24 13 0.30
25 9 0.21
26 13 0.30
27 7 0.16
ACGTcount: A:0.32, C:0.01, G:0.03, T:0.64
Consensus pattern (23 bp):
TTTTTATTTATAATATTTATAAT
Found at i:57405154 original size:25 final size:24
Alignment explanation
Indices: 57405108--57405184 Score: 77
Period size: 25 Copynumber: 3.1 Consensus size: 24
57405098 GTTTATTACA
57405108 TTTTTATTTTATAATATTTATAAT
1 TTTTTATTTTATAATATTTATAAT
57405132 TTTTTATCTTATATAA-ATTTAT-AT
1 TTTTTAT-TT-TATAATATTTATAAT
* *
57405156 GTATTTATATTTAGTAATTTTTATAAT
1 -TTTTTAT-TTTA-TAATATTTATAAT
57405183 TT
1 TT
57405185 GTATAGTCTT
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
24 11 0.26
25 19 0.44
26 11 0.26
27 2 0.05
ACGTcount: A:0.32, C:0.01, G:0.03, T:0.64
Consensus pattern (24 bp):
TTTTTATTTTATAATATTTATAAT
Found at i:57410458 original size:15 final size:15
Alignment explanation
Indices: 57410440--57410470 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
57410430 AATTTTTTTT
57410440 AATCAAATCGAATCA
1 AATCAAATCGAATCA
*
57410455 AATCAAATCGAGTCA
1 AATCAAATCGAATCA
57410470 A
1 A
57410471 GTTAACGAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.52, C:0.19, G:0.10, T:0.19
Consensus pattern (15 bp):
AATCAAATCGAATCA
Found at i:57411236 original size:19 final size:19
Alignment explanation
Indices: 57411212--57411311 Score: 64
Period size: 19 Copynumber: 5.3 Consensus size: 19
57411202 TATAAAAAAC
57411212 TAAAAATCATAAAAATTTA
1 TAAAAATCATAAAAATTTA
*
57411231 TAAAAATAATAAAAGATATT-
1 TAAAAATCATAAAA-AT-TTA
* * * *
57411251 TAAAATTTGATGAACA-TTA
1 TAAAA-ATCATAAAAATTTA
* *
57411270 TAAAAGTCAT-AAAATAT-
1 TAAAAATCATAAAAATTTA
* *
57411287 TAAAAATGATATAAATTTA
1 TAAAAATCATAAAAATTTA
57411306 TAAAAA
1 TAAAAA
57411312 AATAAAAAAA
Statistics
Matches: 61, Mismatches: 13, Indels: 14
0.69 0.15 0.16
Matches are distributed among these distances:
17 11 0.18
18 11 0.18
19 24 0.39
20 8 0.13
21 7 0.11
ACGTcount: A:0.60, C:0.03, G:0.05, T:0.32
Consensus pattern (19 bp):
TAAAAATCATAAAAATTTA
Found at i:57411237 original size:10 final size:9
Alignment explanation
Indices: 57411153--57411447 Score: 97
Period size: 9 Copynumber: 31.4 Consensus size: 9
57411143 ATAAAATATT
57411153 AAAATTGATA
1 AAAATT-ATA
*
57411163 CAAATT-TA
1 AAAATTATA
* *
57411171 ATATTTATAA
1 AAAATTAT-A
57411181 AAAATTATA
1 AAAATTATA
*
57411190 AATATTAT-
1 AAAATTATA
57411198 AAAA-TATA
1 AAAATTATA
57411206 AAAA--ACTA
1 AAAATTA-TA
*
57411214 AAAATCATA
1 AAAATTATA
57411223 AAAATTTATA
1 AAAA-TTATA
*
57411233 AAAATAATA
1 AAAATTATA
*
57411242 AAAGATATTTA
1 AAA-AT-TATA
* *
57411253 AAATTTGATG
1 AAAATT-ATA
*
57411263 AACATTATA
1 AAAATTATA
* *
57411272 AAAGTCAT-
1 AAAATTATA
57411280 AAAA-TATTA
1 AAAATTA-TA
*
57411289 AAAATGATA
1 AAAATTATA
*
57411298 TAAATTTATAA
1 -AAAATTAT-A
* *
57411309 AAAAATAAA
1 AAAATTATA
57411318 AAAACTTATA
1 AAAA-TTATA
*
57411328 AATATTATA
1 AAAATTATA
*
57411337 AAAATAACTA
1 AAAATTA-TA
57411347 ATAAATCTA-A
1 A-AAAT-TATA
*
57411357 TAAATTATA
1 AAAATTATA
*
57411366 ATAGAATTAATTT
1 A-A-AATT-A-TA
*
57411379 AAAATAATTA
1 AAAATTA-TA
*
57411389 AAATCTTATTA
1 AAA-ATTA-TA
**
57411400 AATCTTATA
1 AAAATTATA
57411409 AACAA-TATA
1 AA-AATTATA
57411418 AAAATTATA
1 AAAATTATA
*
57411427 AAAA-AATA
1 AAAATTATA
57411435 AAAATTATA
1 AAAATTATA
57411444 AAAA
1 AAAA
57411448 GTCATTTAAA
Statistics
Matches: 210, Mismatches: 47, Indels: 57
0.67 0.15 0.18
Matches are distributed among these distances:
7 5 0.02
8 33 0.16
9 81 0.39
10 62 0.30
11 24 0.11
12 3 0.01
13 2 0.01
ACGTcount: A:0.61, C:0.04, G:0.02, T:0.33
Consensus pattern (9 bp):
AAAATTATA
Found at i:57411251 original size:75 final size:74
Alignment explanation
Indices: 57411180--57411318 Score: 185
Period size: 75 Copynumber: 1.9 Consensus size: 74
57411170 AATATTTATA
*
57411180 AAAAATT-ATAAATATTATAAAA-T-ATAAAAAACTAAAAATCATAAAAATTTATAAAAATAATA
1 AAAAATTGATAAACATTATAAAAGTCATAAAAAACTAAAAATCATAAAAATTTATAAAAA-AATA
57411242 AAAGATATTT
65 AAAGATATTT
* * * * * *
57411252 AAAATTTGATGAACATTATAAAAGTCATAAAATATTAAAAATGATATAAATTTATAAAAAAATAA
1 AAAAATTGATAAACATTATAAAAGTCATAAAAAACTAAAAATCATAAAAATTTATAAAAAAATAA
57411317 AA
66 AA
57411319 AAACTTATAA
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
72 6 0.11
73 13 0.23
74 8 0.14
75 30 0.53
ACGTcount: A:0.63, C:0.03, G:0.04, T:0.30
Consensus pattern (74 bp):
AAAAATTGATAAACATTATAAAAGTCATAAAAAACTAAAAATCATAAAAATTTATAAAAAAATAA
AAGATATTT
Found at i:57411359 original size:22 final size:21
Alignment explanation
Indices: 57411312--57411360 Score: 62
Period size: 22 Copynumber: 2.3 Consensus size: 21
57411302 TTTATAAAAA
*
57411312 AATAAAAAAACTTATAAATAT
1 AATAAAAAAACTAATAAATAT
* *
57411333 TATAAAAATAACTAATAAATCT
1 AATAAAAA-AACTAATAAATAT
57411355 AATAAA
1 AATAAA
57411361 TTATAATAGA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
21 7 0.30
22 16 0.70
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (21 bp):
AATAAAAAAACTAATAAATAT
Found at i:57411363 original size:29 final size:27
Alignment explanation
Indices: 57411297--57411366 Score: 68
Period size: 29 Copynumber: 2.4 Consensus size: 27
57411287 TAAAAATGAT
*
57411297 ATAAATTTATAAAAAAATAAAAAAACTT
1 ATAAA-TTATAAAAAAATAAAAAAACTA
* *
57411325 ATAAATATTATAAAAATAACTAATAAATCTA
1 AT-AA-ATTATAAAAA-AA-TAAAAAAACTA
57411356 ATAAATTATAA
1 ATAAATTATAA
57411367 TAGAATTAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
28 2 0.06
29 18 0.51
30 5 0.14
31 10 0.29
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.31
Consensus pattern (27 bp):
ATAAATTATAAAAAAATAAAAAAACTA
Found at i:57411437 original size:17 final size:17
Alignment explanation
Indices: 57411404--57411447 Score: 70
Period size: 17 Copynumber: 2.5 Consensus size: 17
57411394 TTATTAAATC
*
57411404 TTATAAACAATATAAAAA
1 TTATAAA-AAAATAAAAA
57411422 TTATAAAAAAATAAAAA
1 TTATAAAAAAATAAAAA
57411439 TTATAAAAA
1 TTATAAAAA
57411448 GTCATTTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
17 18 0.72
18 7 0.28
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.27
Consensus pattern (17 bp):
TTATAAAAAAATAAAAA
Found at i:57412792 original size:17 final size:16
Alignment explanation
Indices: 57412755--57412804 Score: 66
Period size: 17 Copynumber: 3.1 Consensus size: 16
57412745 TAAACAATGA
57412755 TTAAAAATCA-TAAAAT
1 TTAAAAAT-ATTAAAAT
*
57412771 ATAAAAATATTAAATAT
1 TTAAAAATATTAAA-AT
57412788 TTAAAAATATTAAAAT
1 TTAAAAATATTAAAAT
57412804 T
1 T
57412805 GACACAAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
15 1 0.03
16 14 0.47
17 15 0.50
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (16 bp):
TTAAAAATATTAAAAT
Found at i:57412797 original size:10 final size:9
Alignment explanation
Indices: 57412754--57412802 Score: 52
Period size: 8 Copynumber: 5.8 Consensus size: 9
57412744 ATAAACAATG
57412754 ATTAAAAAT
1 ATTAAAAAT
57412763 CA-T-AAAAT
1 -ATTAAAAAT
57412771 A-TAAAAAT
1 ATTAAAAAT
*
57412779 ATTAAATAT
1 ATTAAAAAT
57412788 -TTAAAAAT
1 ATTAAAAAT
57412796 ATTAAAA
1 ATTAAAA
57412803 TTGACACAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
7 2 0.06
8 18 0.53
9 13 0.38
10 1 0.03
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (9 bp):
ATTAAAAAT
Found at i:57412850 original size:29 final size:26
Alignment explanation
Indices: 57412815--57412885 Score: 70
Period size: 29 Copynumber: 2.6 Consensus size: 26
57412805 GACACAAATT
* **
57412815 TAAAAATTATAAAATCTTATAAATAGTA
1 TAAAAATTATAAAA-ATTATAAA-ACAA
*
57412843 TAAAAAATTCTAATAAATTATAAAACAA
1 T-AAAAATTATAA-AAATTATAAAACAA
57412871 TAAAAATTATAAAAA
1 TAAAAATTATAAAAA
57412886 GTGATTTAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
26 3 0.08
27 10 0.28
28 4 0.11
29 17 0.47
30 2 0.06
ACGTcount: A:0.63, C:0.04, G:0.01, T:0.31
Consensus pattern (26 bp):
TAAAAATTATAAAAATTATAAAACAA
Found at i:57412874 original size:37 final size:37
Alignment explanation
Indices: 57412810--57412885 Score: 93
Period size: 37 Copynumber: 2.1 Consensus size: 37
57412800 AAATTGACAC
* *
57412810 AAATTTAAAAATTATAAAATCTTATAAATAGTATAAA
1 AAATTTAAAAATTATAAAATCTAATAAAAAGTATAAA
*
57412847 AAATTCTAATAAATTATAAAA-C-AATAAAAATTATAAA
1 AAATT-TAA-AAATTATAAAATCTAATAAAAAGTATAAA
57412884 AA
1 AA
57412886 GTGATTTAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
37 19 0.56
38 4 0.12
39 11 0.32
ACGTcount: A:0.63, C:0.04, G:0.01, T:0.32
Consensus pattern (37 bp):
AAATTTAAAAATTATAAAATCTAATAAAAAGTATAAA
Found at i:57420876 original size:9 final size:9
Alignment explanation
Indices: 57420783--57420879 Score: 56
Period size: 10 Copynumber: 10.4 Consensus size: 9
57420773 TTAAATATTT
*
57420783 AAAATTATT
1 AAAATTATA
*
57420792 AAAATTGACA
1 AAAATT-ATA
*
57420802 CAAATT-TA
1 AAAATTATA
57420810 AAAATTATA
1 AAAATTATA
*
57420819 AAATTTTATA
1 AAA-ATTATA
* *
57420829 AATAGTGTAAA
1 AA-AAT-TATA
*
57420840 AAAATTCTA
1 AAAATTATA
57420849 ATAAATTATA
1 A-AAATTATA
57420859 AAACA--ATA
1 AAA-ATTATA
57420867 AAAATTATA
1 AAAATTATA
57420876 AAAA
1 AAAA
57420880 GTGATTTAAA
Statistics
Matches: 67, Mismatches: 12, Indels: 18
0.69 0.12 0.19
Matches are distributed among these distances:
7 1 0.01
8 12 0.18
9 23 0.34
10 25 0.37
11 6 0.09
ACGTcount: A:0.61, C:0.04, G:0.03, T:0.32
Consensus pattern (9 bp):
AAAATTATA
Found at i:57421643 original size:9 final size:9
Alignment explanation
Indices: 57421613--57421749 Score: 57
Period size: 9 Copynumber: 14.2 Consensus size: 9
57421603 ACAAATATTA
*
57421613 TTTTAAAAT
1 TTTTATAAT
* *
57421622 ATTTATAAG
1 TTTTATAAT
57421631 TTTTATAAT
1 TTTTATAAT
57421640 TTTT-T-AT
1 TTTTATAAT
*
57421647 CTTATATAAGT
1 -TTTTATAA-T
57421658 TTATGTA-AAT
1 TT-T-TATAAT
57421668 TTTAATATATAT
1 TTT--TATA-AT
57421680 TTTTATAAT
1 TTTTATAAT
*
57421689 TTGTATAGCAT
1 TTTTATA--AT
*
57421700 TTTCTGATTA-
1 TTT-T-ATAAT
57421710 TTTTATAAT
1 TTTTATAAT
57421719 TTTTAATAAT
1 TTTT-ATAAT
*
57421729 TTTTATGAGT
1 TTTTAT-AAT
*
57421739 TTTTATTAT
1 TTTTATAAT
57421748 TT
1 TT
57421750 ATATTTTTAA
Statistics
Matches: 97, Mismatches: 15, Indels: 32
0.67 0.10 0.22
Matches are distributed among these distances:
7 2 0.02
8 7 0.07
9 37 0.38
10 32 0.33
11 9 0.09
12 8 0.08
13 2 0.02
ACGTcount: A:0.32, C:0.02, G:0.06, T:0.60
Consensus pattern (9 bp):
TTTTATAAT
Found at i:57421749 original size:19 final size:19
Alignment explanation
Indices: 57421706--57421766 Score: 51
Period size: 19 Copynumber: 3.4 Consensus size: 19
57421696 GCATTTTCTG
57421706 ATTA-TTTTATAATTTTTA
1 ATTATTTTTATAATTTTTA
* *
57421724 ATAATTTTTATGAGTTTTT-
1 ATTATTTTTAT-AATTTTTA
57421743 ATTA--TTTAT-ATTTTTA
1 ATTATTTTTATAATTTTTA
*
57421759 AATATTTT
1 ATTATTTT
57421767 GTATGAAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 10
0.69 0.10 0.21
Matches are distributed among these distances:
15 5 0.15
16 3 0.09
17 5 0.15
18 5 0.15
19 9 0.27
20 6 0.18
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (19 bp):
ATTATTTTTATAATTTTTA
Found at i:57422690 original size:39 final size:39
Alignment explanation
Indices: 57422647--57422780 Score: 144
Period size: 39 Copynumber: 3.4 Consensus size: 39
57422637 GTTTGGGAAG
* * *
57422647 AAAACGCCGCTAAAAATCAAGCATTAGAGGCGCTTTTAA
1 AAAACGCCGCTAAAAATCAAGTATTAGCGGCGTTTTTAA
* * * **
57422686 AAAACGCCGCTAAAGATCATGTATTAGCGGTGATTTTTGG
1 AAAACGCCGCTAAAAATCAAGTATTAGCGGCG-TTTTTAA
* *
57422726 AAAACACCGCTAAAAAT-GAGTATTAGCGGCGTTTGTTAA
1 AAAACGCCGCTAAAAATCAAGTATTAGCGGCGTTT-TTAA
*
57422765 AAAGCGCCGCTAAAAA
1 AAAACGCCGCTAAAAA
57422781 CCTAAGACAA
Statistics
Matches: 76, Mismatches: 17, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
38 3 0.04
39 54 0.71
40 19 0.25
ACGTcount: A:0.38, C:0.18, G:0.21, T:0.23
Consensus pattern (39 bp):
AAAACGCCGCTAAAAATCAAGTATTAGCGGCGTTTTTAA
Found at i:57423894 original size:41 final size:40
Alignment explanation
Indices: 57423824--57424020 Score: 128
Period size: 41 Copynumber: 4.8 Consensus size: 40
57423814 TTTTGGGGGC
* * *
57423824 TTTAGCGGCGTTTTTTAAAAAACGTCGCTAATGGTCAAGGA
1 TTTAGCGGCG-TTTTTACAAAGCGCCGCTAATGGTCAAGGA
* * ***
57423865 TTTAGCGGCATTTTTACGAAAGCGCCGCTAATGATTGGGGA
1 TTTAGCGGCGTTTTTAC-AAAGCGCCGCTAATGGTCAAGGA
** * *
57423906 TTTAGCGGCGTTTTTGACAAAGCGTTGCTAATGCTCGCA-GA
1 TTTAGCGGCGTTTTT-ACAAAGCGCCGCTAATGGTC-AAGGA
* * * * * *
57423947 TTTAGAGGCGTTTCTAAAAAAGCGCCACTATTGGTCAGGGA
1 TTTAGCGGCGTTT-TTACAAAGCGCCGCTAATGGTCAAGGA
** *
57423988 TTTATTGGCGTTTTTGA-ACAAGCGCCGCAAATG
1 TTTAGCGGCGTTTTT-ACA-AAGCGCCGCTAATG
57424021 TTGGTTCTTT
Statistics
Matches: 118, Mismatches: 31, Indels: 14
0.72 0.19 0.09
Matches are distributed among these distances:
40 8 0.07
41 107 0.91
42 3 0.03
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.30
Consensus pattern (40 bp):
TTTAGCGGCGTTTTTACAAAGCGCCGCTAATGGTCAAGGA
Found at i:57423969 original size:82 final size:82
Alignment explanation
Indices: 57423819--57424005 Score: 187
Period size: 82 Copynumber: 2.3 Consensus size: 82
57423809 TATGTTTTTG
* * * * * **
57423819 GGGGCTTTAGCGGCGTTTTTTAAAAAACGTCGCTAATGGTCAAGGATTTAGCGGCATTTTTACGA
1 GGGGATTTAGCGGCGTTTTTGAAAAAACGTCGCTAATGCTCAAGGATTTAGAGGCATTTCTAAAA
* *
57423884 AAGCGCCGCTAATGATT
66 AAGCGCCACTAATGATC
* * * * *
57423901 GGGGATTTAGCGGCGTTTTTGACAAAGCGTTGCTAATGCTCGCA-GATTTAGAGGCGTTTCTAAA
1 GGGGATTTAGCGGCGTTTTTGAAAAAACGTCGCTAATGCTC-AAGGATTTAGAGGCATTTCTAAA
* *
57423965 AAAGCGCCACTATTGGTC
65 AAAGCGCCACTAATGATC
* **
57423983 AGGGATTTATTGGCGTTTTTGAA
1 GGGGATTTAGCGGCGTTTTTGAA
57424006 CAAGCGCCGC
Statistics
Matches: 84, Mismatches: 20, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
82 83 0.99
83 1 0.01
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.32
Consensus pattern (82 bp):
GGGGATTTAGCGGCGTTTTTGAAAAAACGTCGCTAATGCTCAAGGATTTAGAGGCATTTCTAAAA
AAGCGCCACTAATGATC
Found at i:57424801 original size:14 final size:14
Alignment explanation
Indices: 57424772--57424824 Score: 61
Period size: 14 Copynumber: 3.7 Consensus size: 14
57424762 CTTTTACGGA
*
57424772 TTGGGGTTTAGGGT
1 TTGGGGTTTAGTGT
*
57424786 TTGGGGTTTAATGTT
1 TTGGGGTTTAGTG-T
* *
57424801 TTGGGGTTTGGTTT
1 TTGGGGTTTAGTGT
57424815 TTGGGGTTTA
1 TTGGGGTTTA
57424825 TGATTTAGAA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
14 21 0.66
15 11 0.34
ACGTcount: A:0.08, C:0.00, G:0.42, T:0.51
Consensus pattern (14 bp):
TTGGGGTTTAGTGT
Found at i:57428046 original size:21 final size:21
Alignment explanation
Indices: 57428020--57428070 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
57428010 CTACAACTTA
* *
57428020 AAGCAGAGGCGGCAGCGAGGG
1 AAGCAGAGGCGACAGCGAGAG
*
57428041 AAGCAGAGGCTACAGCGAGAG
1 AAGCAGAGGCGACAGCGAGAG
57428062 AAGCAGAGG
1 AAGCAGAGG
57428071 TTCAAAAGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.35, C:0.18, G:0.45, T:0.02
Consensus pattern (21 bp):
AAGCAGAGGCGACAGCGAGAG
Found at i:57428120 original size:87 final size:87
Alignment explanation
Indices: 57427981--57428156 Score: 253
Period size: 87 Copynumber: 2.0 Consensus size: 87
57427971 ACCACAGTTA
* * * * * *
57427981 AGGTTCAAAAGAAATATGAAGAACTCCAACTACAACTTAAAGCAGAGGCGGCAGCGAGGGAAGCA
1 AGGTTCAAAAGAAATATGAAAAACTCCAACAACAACTTAAAACAAAGACGGCAGCGAGAGAAGCA
57428046 GAGGCTACAGCGAGAGAAGCAG
66 GAGGCTACAGCGAGAGAAGCAG
* * *
57428068 AGGTTCAAAAGAAATATGAAAAACTCCAGCAACAACTTAAAACAAATACGGCATCGAGAGAAGCA
1 AGGTTCAAAAGAAATATGAAAAACTCCAACAACAACTTAAAACAAAGACGGCAGCGAGAGAAGCA
* *
57428133 GAGGCTGCAGCGAGGGAAGCAG
66 GAGGCTACAGCGAGAGAAGCAG
57428155 AG
1 AG
57428157 CAGAGCAGAA
Statistics
Matches: 78, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
87 78 1.00
ACGTcount: A:0.43, C:0.18, G:0.28, T:0.11
Consensus pattern (87 bp):
AGGTTCAAAAGAAATATGAAAAACTCCAACAACAACTTAAAACAAAGACGGCAGCGAGAGAAGCA
GAGGCTACAGCGAGAGAAGCAG
Found at i:57428750 original size:43 final size:43
Alignment explanation
Indices: 57428504--57428742 Score: 282
Period size: 43 Copynumber: 5.5 Consensus size: 43
57428494 CATCAAACAA
* * * * **
57428504 TAGCGGCGTTTGTGGAAAAAACACCGCT-AAAGAACATGACCTT
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAG-TCATGTTCTT
* *
57428547 TAGCGGCATTTGTGGGAAAAAGCGCCGCTAAAAGTCATGTTCTA
1 TAGCGGCGTTTGTGGG-AAAAGCGCCGCTAAAAGTCATGTTCTT
* * *
57428591 TAGTGACGTTTGTGGGAAAAGCGCTGCTAAAAGTCATGTTCTT
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCATGTTCTT
* * *
57428634 TAGCGGAGTTTGTGGGAGAAGCGCCGTTAAAAGTCATGTTCTT
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCATGTTCTT
** **
57428677 TAGCGGCGTTTGTGGGAAAAGCATCGCTAAAAGTCATGACCTT
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCATGTTCTT
*
57428720 TAGCGGCGTTTGTAGGAAAAGCG
1 TAGCGGCGTTTGTGGGAAAAGCG
57428743 TCACTAAAGA
Statistics
Matches: 166, Mismatches: 28, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
43 133 0.80
44 29 0.17
45 4 0.02
ACGTcount: A:0.28, C:0.17, G:0.29, T:0.26
Consensus pattern (43 bp):
TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCATGTTCTT
Found at i:57428764 original size:26 final size:25
Alignment explanation
Indices: 57428728--57428778 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 25
57428718 TTTAGCGGCG
57428728 TTTGTAGGAAAAGCGTCACTAAAGAA
1 TTTGTAGGAAAAGCG-CACTAAAGAA
*
57428754 TTTGTAGGAAAAGCGCCCTAAAGAA
1 TTTGTAGGAAAAGCGCACTAAAGAA
57428779 CATGACCTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 9 0.38
26 15 0.62
ACGTcount: A:0.41, C:0.14, G:0.24, T:0.22
Consensus pattern (25 bp):
TTTGTAGGAAAAGCGCACTAAAGAA
Found at i:57433749 original size:12 final size:13
Alignment explanation
Indices: 57433729--57433762 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
57433719 AAAATGAATC
*
57433729 AAAACAAAACCG-
1 AAAAGAAAACCGA
57433741 AAAAGAAAACCGA
1 AAAAGAAAACCGA
57433754 AAAAGAAAA
1 AAAAGAAAA
57433763 AAGGAAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 11 0.55
13 9 0.45
ACGTcount: A:0.74, C:0.15, G:0.12, T:0.00
Consensus pattern (13 bp):
AAAAGAAAACCGA
Found at i:57434617 original size:20 final size:19
Alignment explanation
Indices: 57434592--57434631 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
57434582 CTAATAATTT
57434592 TCATAAACAATAATGAAAAA
1 TCATAAACAATAA-GAAAAA
**
57434612 TCATAAATGATAAGAAAAA
1 TCATAAACAATAAGAAAAA
57434631 T
1 T
57434632 ATTAAAATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.62, C:0.07, G:0.07, T:0.23
Consensus pattern (19 bp):
TCATAAACAATAAGAAAAA
Found at i:57434696 original size:17 final size:18
Alignment explanation
Indices: 57434659--57434700 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
57434649 GATACAATTT
57434659 TAAAAATTATAAAAACTTA
1 TAAAAATTATAAAAAC-TA
*
57434678 TAAATATTATAAAAA-TA
1 TAAAAATTATAAAAACTA
57434695 TAAAAA
1 TAAAAA
57434701 AAAACAAACA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 7 0.33
19 14 0.67
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (18 bp):
TAAAAATTATAAAAACTA
Found at i:57434701 original size:9 final size:9
Alignment explanation
Indices: 57434654--57434700 Score: 60
Period size: 9 Copynumber: 5.2 Consensus size: 9
57434644 AAATTGATAC
*
57434654 AATTTTAAA
1 AATTATAAA
57434663 AATTATAAA
1 AATTATAAA
57434672 AACTTATAAA
1 AA-TTATAAA
*
57434682 TATTATAAA
1 AATTATAAA
57434691 AA-TATAAA
1 AATTATAAA
57434699 AA
1 AA
57434701 AAAACAAACA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
8 8 0.24
9 18 0.53
10 8 0.24
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (9 bp):
AATTATAAA
Found at i:57434954 original size:77 final size:78
Alignment explanation
Indices: 57434732--57435552 Score: 929
Period size: 77 Copynumber: 10.7 Consensus size: 78
57434722 AAATTATAAT
* * * *
57434732 GCCTCGGG-CACACGCCGAGGTATTTTT-AAATTCATTTTTTTTC--AAAAATTAACTCATAATG
1 GCCTCGGGTCACATGCCGAGGTATTTTTCAATTTC--TGTTTTTCAAAAAAATCAACTCATAATG
* *
57434793 CAAGAGGTAAGTTGA
64 CGAGAGGTGAGTTGA
* * *
57434808 GCCTCGGG-CACATGCCAATGTATTTTTCAATTTATGTTTTTC-AAAAAATCAACTCATAATGCG
1 GCCTCGGGTCACATGCCGAGGTATTTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATAATGCG
57434871 AGAGGTGAGTTGA
66 AGAGGTGAGTTGA
* * * *
57434884 GCCTCGGGTCGCACGCTGAGGTA-TTTTCAATTTATGTTTTTCAAAAAAATCAACTCATAATGCG
1 GCCTCGGGTCACATGCCGAGGTATTTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATAATGCG
*
57434948 ATAGGTGAGTTGA
66 AGAGGTGAGTTGA
* * * *
57434961 GCCTC-AGACACATGCTGAGGTATTTTTTTAATTTCTGTTTTTC-AAAAAATCAACTCATAATGC
1 GCCTCGGGTCACATGCCGAGGTA-TTTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATAATGC
*
57435024 GATAGGTGAGTTGA
65 GAGAGGTGAGTTGA
* * * *
57435038 GCCTCGGCTCACATGCCGAGTTATTTTTCAATTTCTATTTTTCAAAAAAATCAACTCATGATGCG
1 GCCTCGGGTCACATGCCGAGGTATTTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATAATGCG
57435103 AGAGGTGAGTTGA
66 AGAGGTGAGTTGA
* * * *
57435116 GCCTCGGGTCGCATGCTGAGGTA-TTTTCAATTTCTATTTTTCAAAAAAATCAACTCATGATGCG
1 GCCTCGGGTCACATGCCGAGGTATTTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATAATGCG
57435180 AGAGGTGAGTTGA
66 AGAGGTGAGTTGA
* * * *
57435193 GCCTCGAGTCACACGCCGAGGTATTTTTCAATTTCTGTTTTTCAAAAAAATCAAACTCATATTAC
1 GCCTCGGGTCACATGCCGAGGTATTTTTCAATTTCTGTTTTTCAAAAAAATC-AACTCATAATGC
57435258 GAG-GGTGAGTTGA
65 GAGAGGTGAGTTGA
* * * ** * *
57435271 GTCTCAGGTCACACGTTGAGGTA-TTTTAAATTTCTGTTTTTTC-AAAAAATCAACTCATAATGT
1 GCCTCGGGTCACATGCCGAGGTATTTTTCAATTTCTG-TTTTTCAAAAAAATCAACTCATAATGC
* *
57435334 GAGGGGTGATTTGA
65 GAGAGGTGAGTTGA
* * ** * *
57435348 GCCTCAGGTCACACGTTGAGGTATTTTTCAATTTATGTTTTTCAAAAAAAATAAACTCATAATGC
1 GCCTCGGGTCACATGCCGAGGTATTTTTCAATTTCTGTTTTTC-AAAAAAATCAACTCATAATGC
*
57435413 AAGAGGTGAGTTGA
65 GAGAGGTGAGTTGA
* * * * *
57435427 GCCTTGGGTCACATACCGAGGTA-TTTTCAATTTTTGTTTTTC--AAAGATCAACTCATAATTCG
1 GCCTCGGGTCACATGCCGAGGTATTTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATAATGCG
* *
57435489 AGAGATGAGTTAA
66 AGAGGTGAGTTGA
* * * * *
57435502 GCTTCGGGTCGCATGCCAAGCTA-TTTTCGATTTCTGTTTTTCAATAAAAAT
1 GCCTCGGGTCACATGCCGAGGTATTTTTCAATTTCTGTTTTTCAA-AAAAAT
57435553 AAAGAATAAA
Statistics
Matches: 645, Mismatches: 82, Indels: 34
0.85 0.11 0.04
Matches are distributed among these distances:
75 68 0.11
76 106 0.16
77 238 0.37
78 175 0.27
79 58 0.09
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (78 bp):
GCCTCGGGTCACATGCCGAGGTATTTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATAATGCG
AGAGGTGAGTTGA
Found at i:57435122 original size:232 final size:227
Alignment explanation
Indices: 57434740--57435550 Score: 964
Period size: 232 Copynumber: 3.5 Consensus size: 227
57434730 ATGCCTCGGG
* * * * * *
57434740 CACACGCCGAGGTATTTTT-AAATTCATTTTTTTTCAAAAATTAACTCATAATGCAAGAGGTAAG
1 CACATGCCGAGGTATTTTTCAATTTC--TGTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAG
* * *
57434804 TTGAGCCTCGGGCACATGCC-AATGTATTTTTCAATTTATGTTTTTCAAAAAATCAACTCATAAT
64 TTGAGCCTCGGTCACATGCCGAGT-TA-TTTTCAATTTCTGTTTTTCAAAAAATCAACTCATAAT
57434868 GCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTTCAATTTATGTTTTTCAAAAAAA
127 GCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTTCAATTTATGTTTTTCAAAAAAA
* *
57434933 TCAACTCATAATGCGATAGGTGAGTTGAGCCTCAGA
192 TCAACTCATAATGCGAGAGGTGAGTTGAGCCTCAGT
* * *
57434969 CACATGCTGAGGTATTTTTTTAATTTCTGTTTTTCAAAAAATCAACTCATAATGCGATAGGTGAG
1 CACATGCCGAGGTA-TTTTTCAATTTCTGTTTTTC-AAAAATCAACTCATAATGCGAGAGGTGAG
* *
57435034 TTGAGCCTCGGCTCACATGCCGAGTTATTTTTCAATTTCTATTTTTCAAAAAAATCAACTCATGA
64 TTGAGCCTCGG-TCACATGCCGAGTTA-TTTTCAATTTCTGTTTTTC-AAAAAATCAACTCATAA
* * *
57435099 TGCGAGAGGTGAGTTGAGCCTCGGGTCGCATGCTGAGGTATTTTCAATTTCTATTTTTCAAAAAA
126 TGCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTTCAATTTATGTTTTTCAAAAAA
*
57435164 ATCAACTCATGATGCGAGAGGTGAGTTGAGCCTCGAGT
191 ATCAACTCATAATGCGAGAGGTGAGTTGAGCCTC-AGT
* * *
57435202 CACACGCCGAGGTATTTTTCAATTTCTGTTTTTCAAAAAAATCAAACTCATATTACGAG-GGTGA
1 CACATGCCGAGGTATTTTTCAATTTCTGTTTTTC--AAAAATC-AACTCATAATGCGAGAGGTGA
* * ** * *
57435266 GTTGAGTCTCAGGTCACACGTTGAGGTATTTTAAATTTCTGTTTTTTCAAAAAATCAACTCATAA
63 GTTGAGCCTC-GGTCACATGCCGAGTTATTTTCAATTTCTG-TTTTTCAAAAAATCAACTCATAA
* * * * * *
57435331 TGTGAGGGGTGATTTGAGCCTCAGGTCACACGTTGAGGTATTTTTCAATTTATGTTTTTCAAAAA
126 TGCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTA-TTTTCAATTTATGTTTTTC-AAAA
* * **
57435396 AAATAAACTCATAATGCAAGAGGTGAGTTGAGCCTTGGGT
189 AAATCAACTCATAATGCGAGAGGTGAGTTGAGCC-TCAGT
* * * * *
57435436 CACATACCGAGGTA-TTTTCAATTTTTGTTTTTCAAAGATCAACTCATAATTCGAGAGATGAGTT
1 CACATGCCGAGGTATTTTTCAATTTCTGTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTT
* * * * * *
57435500 AAGCTTCGGGTCGCATGCCAAGCTATTTTCGATTTCTGTTTTTCAATAAAA
66 GAGCCTC-GGTCACATGCCGAGTTATTTTCAATTTCTGTTTTTCAA-AAAA
57435551 ATAAAGAATA
Statistics
Matches: 500, Mismatches: 66, Indels: 30
0.84 0.11 0.05
Matches are distributed among these distances:
229 19 0.04
230 62 0.12
231 76 0.15
232 191 0.38
233 88 0.18
234 63 0.13
235 1 0.00
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (227 bp):
CACATGCCGAGGTATTTTTCAATTTCTGTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTT
GAGCCTCGGTCACATGCCGAGTTATTTTCAATTTCTGTTTTTCAAAAAATCAACTCATAATGCGA
GAGGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTTCAATTTATGTTTTTCAAAAAAATCAA
CTCATAATGCGAGAGGTGAGTTGAGCCTCAGT
Found at i:57435179 original size:155 final size:153
Alignment explanation
Indices: 57434732--57435552 Score: 958
Period size: 155 Copynumber: 5.3 Consensus size: 153
57434722 AAATTATAAT
* * * *
57434732 GCCTCGGGCACACGCCGAGGTATTTTT-AAATTCATTTTTTTTC--AAAAATTAACTCATAATGC
1 GCCTCGGTCACACGCCGAGGTATTTTTCAATTTC--TGTTTTTCAAAAAAATCAACTCATAATGC
* * ** * *
57434794 AAGAGGTAAGTTGAGCCTCGGG-CACATGCCAATGTATTTTTCAATTTATGTTTTTCAAAAAATC
64 GAGAGGTGAGTTGAGCCTCGGGTCACATGCTGAGGTA-TTTTCAATTTCTGTTTTTCAAAAAATC
57434858 AACTCATAATGCGAGAGGTGAGTTGA
128 AACTCATAATGCGAGAGGTGAGTTGA
* * *
57434884 GCCTCGGGTCGCACGCTGAGGTA-TTTTCAATTTATGTTTTTCAAAAAAATCAACTCATAATGCG
1 GCCTC-GGTCACACGCCGAGGTATTTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATAATGCG
* * * *
57434948 ATAGGTGAGTTGAGCCTC-AGACACATGCTGAGGTATTTTTTTAATTTCTGTTTTTCAAAAAATC
65 AGAGGTGAGTTGAGCCTCGGGTCACATGCTGAGGTA--TTTTCAATTTCTGTTTTTCAAAAAATC
*
57435012 AACTCATAATGCGATAGGTGAGTTGA
128 AACTCATAATGCGAGAGGTGAGTTGA
* * * *
57435038 GCCTCGGCTCACATGCCGAGTTATTTTTCAATTTCTATTTTTCAAAAAAATCAACTCATGATGCG
1 GCCTCGG-TCACACGCCGAGGTATTTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATAATGCG
* *
57435103 AGAGGTGAGTTGAGCCTCGGGTCGCATGCTGAGGTATTTTCAATTTCTATTTTTCAAAAAAATCA
65 AGAGGTGAGTTGAGCCTCGGGTCACATGCTGAGGTATTTTCAATTTCTGTTTTTC-AAAAAATCA
*
57435168 ACTCATGATGCGAGAGGTGAGTTGA
129 ACTCATAATGCGAGAGGTGAGTTGA
* *
57435193 GCCTCGAGTCACACGCCGAGGTATTTTTCAATTTCTGTTTTTCAAAAAAATCAAACTCATATTAC
1 GCCTCG-GTCACACGCCGAGGTATTTTTCAATTTCTGTTTTTCAAAAAAATC-AACTCATAATGC
* * * * *
57435258 GAG-GGTGAGTTGAGTCTCAGGTCACACGTTGAGGTATTTTAAATTTCTGTTTTTTCAAAAAATC
64 GAGAGGTGAGTTGAGCCTCGGGTCACATGCTGAGGTATTTTCAATTTCTG-TTTTTCAAAAAATC
* * *
57435322 AACTCATAATGTGAGGGGTGATTTGA
128 AACTCATAATGCGAGAGGTGAGTTGA
** * *
57435348 GCCTCAGGTCACACGTTGAGGTATTTTTCAATTTATGTTTTTCAAAAAAAATAAACTCATAATGC
1 GCCTC-GGTCACACGCCGAGGTATTTTTCAATTTCTGTTTTTC-AAAAAAATCAACTCATAATGC
* * * * * *
57435413 AAGAGGTGAGTTGAGCCTTGGGTCACATACCGAGGTATTTTCAATTTTTGTTTTTC-AAAGATCA
64 GAGAGGTGAGTTGAGCCTCGGGTCACATGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAATCA
* * *
57435477 ACTCATAATTCGAGAGATGAGTTAA
129 ACTCATAATGCGAGAGGTGAGTTGA
* * * * * *
57435502 GCTTCGGGTCGCATGCCAAGCTA-TTTTCGATTTCTGTTTTTCAATAAAAAT
1 GCCTC-GGTCACACGCCGAGGTATTTTTCAATTTCTGTTTTTCAA-AAAAAT
57435553 AAAGAATAAA
Statistics
Matches: 570, Mismatches: 82, Indels: 33
0.83 0.12 0.05
Matches are distributed among these distances:
151 7 0.01
152 12 0.02
153 88 0.15
154 125 0.22
155 259 0.45
156 79 0.14
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (153 bp):
GCCTCGGTCACACGCCGAGGTATTTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATAATGCGA
GAGGTGAGTTGAGCCTCGGGTCACATGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAATCAAC
TCATAATGCGAGAGGTGAGTTGA
Found at i:57435784 original size:30 final size:29
Alignment explanation
Indices: 57435719--57435856 Score: 152
Period size: 30 Copynumber: 4.7 Consensus size: 29
57435709 ACAAAAATTA
* *
57435719 AAAATTAAATTTTGACCCCTAAACTTT-T
1 AAAATTACATTTTAACCCCTAAACTTTCT
*
57435747 CAAAATTACATTTTAACCTCTAAACTTTCAT
1 -AAAATTACATTTTAACCCCTAAACTTTC-T
57435778 AAAATTACATTTTAACCCCTAAACTTTCCT
1 AAAATTACATTTTAACCCCTAAACTTT-CT
* * **
57435808 AAAATTACATTTTCACCCTTTGACTTTCT
1 AAAATTACATTTTAACCCCTAAACTTTCT
* *
57435837 AAAAGTTACACTTTATCCCC
1 AAAA-TTACATTTTAACCCC
57435857 AAAAGTTTTG
Statistics
Matches: 93, Mismatches: 12, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
29 30 0.32
30 61 0.66
31 2 0.02
ACGTcount: A:0.36, C:0.24, G:0.02, T:0.38
Consensus pattern (29 bp):
AAAATTACATTTTAACCCCTAAACTTTCT
Found at i:57436203 original size:3 final size:3
Alignment explanation
Indices: 57436197--57436225 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
57436187 AAAAGAAGAC
57436197 AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
57436226 AATACGAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:57436913 original size:17 final size:17
Alignment explanation
Indices: 57436891--57436945 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 17
57436881 GTAATTTATC
*
57436891 AAAATTTTCGTGTTTCA
1 AAAATTTTCGTGTTTAA
*
57436908 AAAATTTTCTTGTGTTAA
1 AAAATTTTCGTGT-TTAA
57436926 AAAATTCTT-GTGTTTTAA
1 AAAATT-TTCGTG-TTTAA
57436944 AA
1 AA
57436946 TAAAATATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
17 12 0.38
18 17 0.53
19 3 0.09
ACGTcount: A:0.35, C:0.07, G:0.11, T:0.47
Consensus pattern (17 bp):
AAAATTTTCGTGTTTAA
Found at i:57436930 original size:18 final size:18
Alignment explanation
Indices: 57436891--57436939 Score: 59
Period size: 17 Copynumber: 2.9 Consensus size: 18
57436881 GTAATTTATC
* *
57436891 AAAATTTTCGTGT-TTCA
1 AAAATTTTCTTGTGTTAA
57436908 AAAATTTTCTTGTGTTAA
1 AAAATTTTCTTGTGTTAA
57436926 AAAA--TTCTTGTGTT
1 AAAATTTTCTTGTGTT
57436940 TTAAAATAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
16 10 0.34
17 12 0.41
18 7 0.24
ACGTcount: A:0.31, C:0.08, G:0.12, T:0.49
Consensus pattern (18 bp):
AAAATTTTCTTGTGTTAA
Found at i:57445285 original size:25 final size:25
Alignment explanation
Indices: 57445209--57445285 Score: 66
Period size: 25 Copynumber: 3.1 Consensus size: 25
57445199 CTTTCTCTCA
* * *
57445209 AGCAATAT-ACAGGAAGCTCACATG
1 AGCAATATAACGGGAAGCTCATAAG
* * * * **
57445233 ATCCATGTAACGGGAAGCTTATCCG
1 AGCAATATAACGGGAAGCTCATAAG
57445258 AGCAATATAACGGGAAGCTCATAAG
1 AGCAATATAACGGGAAGCTCATAAG
57445283 AGC
1 AGC
57445286 CATAATTAGG
Statistics
Matches: 38, Mismatches: 14, Indels: 1
0.72 0.26 0.02
Matches are distributed among these distances:
24 5 0.13
25 33 0.87
ACGTcount: A:0.38, C:0.21, G:0.23, T:0.18
Consensus pattern (25 bp):
AGCAATATAACGGGAAGCTCATAAG
Found at i:57445446 original size:26 final size:25
Alignment explanation
Indices: 57445408--57445457 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 25
57445398 CGAAGAGTCA
57445408 TTAACAGGAAGCTCACAAAGAGCCT
1 TTAACAGGAAGCTCACAAAGAGCCT
**
57445433 TTAATCAGGAAGCTCATGAAGAGCC
1 TTAA-CAGGAAGCTCACAAAGAGCC
57445458 ATATAACGAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 4 0.18
26 18 0.82
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.18
Consensus pattern (25 bp):
TTAACAGGAAGCTCACAAAGAGCCT
Found at i:57446496 original size:17 final size:18
Alignment explanation
Indices: 57446458--57446498 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
57446448 AAAAAGATGA
57446458 TATTT-TCATCATTTAAT
1 TATTTATCATCATTTAAT
* *
57446475 CATTTATCATC-TTTTAT
1 TATTTATCATCATTTAAT
57446492 TATTTAT
1 TATTTAT
57446499 TCTTTCCAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 15 0.75
18 5 0.25
ACGTcount: A:0.27, C:0.12, G:0.00, T:0.61
Consensus pattern (18 bp):
TATTTATCATCATTTAAT
Found at i:57447089 original size:21 final size:21
Alignment explanation
Indices: 57447062--57447107 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
57447052 AATATTTTGA
*
57447062 ATTTAAAAATTTATTTTCA-T
1 ATTTTAAAATTTATTTTCATT
*
57447082 ATTTTAAAATTTATTTTTATT
1 ATTTTAAAATTTATTTTCATT
57447103 ATTTT
1 ATTTT
57447108 GTAATTTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 17 0.74
21 6 0.26
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (21 bp):
ATTTTAAAATTTATTTTCATT
Found at i:57460343 original size:21 final size:21
Alignment explanation
Indices: 57460319--57460359 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
57460309 TTATAGATGT
57460319 CTCTGTTCTC-TATTGAAAATC
1 CTCTGTTCTCAT-TTGAAAATC
*
57460340 CTCTGTTTTCATTTGAAAAT
1 CTCTGTTCTCATTTGAAAAT
57460360 AAACAGTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.24, C:0.20, G:0.10, T:0.46
Consensus pattern (21 bp):
CTCTGTTCTCATTTGAAAATC
Found at i:57462425 original size:24 final size:24
Alignment explanation
Indices: 57462398--57462443 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
57462388 TAATTTTACT
57462398 TTATCAATATTT-AAAATAAACACA
1 TTAT-AATATTTAAAAATAAACACA
* *
57462422 TTATTATTTTTAAAAATAAACA
1 TTATAATATTTAAAAATAAACA
57462444 GTTTATAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.52, C:0.09, G:0.00, T:0.39
Consensus pattern (24 bp):
TTATAATATTTAAAAATAAACACA
Found at i:57462650 original size:80 final size:79
Alignment explanation
Indices: 57462510--57462662 Score: 243
Period size: 80 Copynumber: 1.9 Consensus size: 79
57462500 TTTGAATCCC
* * * *
57462510 AAATTTAATCAATACTACCTCTTAATACTTATTATTTGAATCAATTAAGCTAAATTCAGAATATA
1 AAATTTAATCAATACCACCTCTTAATACTTACTATTTGAATCAATTAAACTAAAGTCAGAATATA
57462575 TATAATTTTTATCA
66 TATAATTTTTATCA
* *
57462589 AAATTTAATTAATACCACCTCTTAGTACTTTACTATTTGAATCAATTAAACTAAAGTCAGAATAT
1 AAATTTAATCAATACCACCTCTTAATAC-TTACTATTTGAATCAATTAAACTAAAGTCAGAATAT
57462654 ATATAATTT
65 ATATAATTT
57462663 CTATGAAATG
Statistics
Matches: 67, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
79 25 0.37
80 42 0.63
ACGTcount: A:0.42, C:0.13, G:0.05, T:0.41
Consensus pattern (79 bp):
AAATTTAATCAATACCACCTCTTAATACTTACTATTTGAATCAATTAAACTAAAGTCAGAATATA
TATAATTTTTATCA
Found at i:57473781 original size:20 final size:20
Alignment explanation
Indices: 57473743--57473793 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 20
57473733 TTTAATATTT
**
57473743 AAAAATTT-AAAATTTTTAA
1 AAAAATTTAAAAATCATTAA
57473762 AAAAATTTAAAAATCATTAA
1 AAAAATTTAAAAATCATTAA
**
57473782 AATTATTTAAAA
1 AAAAATTTAAAA
57473794 TATGGTTAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
19 8 0.30
20 19 0.70
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (20 bp):
AAAAATTTAAAAATCATTAA
Found at i:57473791 original size:10 final size:10
Alignment explanation
Indices: 57473738--57473794 Score: 50
Period size: 9 Copynumber: 6.0 Consensus size: 10
57473728 TGATTTTTAA
57473738 TATTTAAAA-
1 TATTTAAAAT
57473747 -ATTTAAAAT
1 TATTTAAAAT
*
57473756 T-TTTAAAAA
1 TATTTAAAAT
*
57473765 AATTTAAAAAT
1 TATTT-AAAAT
*
57473776 CA-TTAAAAT
1 TATTTAAAAT
57473785 TATTTAAAAT
1 TATTTAAAAT
57473795 ATGGTTAAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 9
0.73 0.10 0.17
Matches are distributed among these distances:
8 8 0.21
9 13 0.34
10 12 0.32
11 5 0.13
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (10 bp):
TATTTAAAAT
Found at i:57482685 original size:14 final size:14
Alignment explanation
Indices: 57482663--57482705 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
57482653 TTTCTTATGT
*
57482663 AAAAGATAAAATAA
1 AAAAAATAAAATAA
57482677 AAAAAATAAAATAA
1 AAAAAATAAAATAA
* *
57482691 AACAAACAAAA-AA
1 AAAAAATAAAATAA
57482704 AA
1 AA
57482706 GAGAAAAAGT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
13 4 0.15
14 22 0.85
ACGTcount: A:0.84, C:0.05, G:0.02, T:0.09
Consensus pattern (14 bp):
AAAAAATAAAATAA
Found at i:57483856 original size:100 final size:100
Alignment explanation
Indices: 57483753--57485107 Score: 1019
Period size: 100 Copynumber: 13.6 Consensus size: 100
57483743 CACCGTCGTG
* * * * * * * *
57483753 GCTTCAATCTATTTACTTGCAATGTCGGGGAAATGAGATTCACTGTCGTATCTTCAATCTGTTCC
1 GCTTCAATCTTTTTAATTGCAATGTCAGGGAAGTAAGATCCACTGTTGTAGCTTCAATCTGTTCC
* ** * * * ** *
57483818 GCTGCATTGCCT-GGGAAGTAAGTTTCGCCATTGTG
66 ACTGCAACG-CTAGGAAAGTAAGATCCGCTGTTGTA
* * * * * ** * * * **
57483853 GCTTCAACCTTTTGAGTTGCGATGTCGGGGAAGCGAGGTTCACCGTCATAGCTTCAATCTGTTCC
1 GCTTCAATCTTTTTAATTGCAATGTCAGGGAAGTAAGATCCACTGTTGTAGCTTCAATCTGTTCC
* * * * * ** *
57483918 GCTGCATCGCCT-GGGAAGTAAGTTTCGCCATTGTG
66 ACTGCAACG-CTAGGAAAGTAAGATCCGCTGTTGTA
* * * * * * * **
57483953 GATTCAATCTTTTGAGTTGCGATGTCGGGGAAGCAAGATTCA-TCGTCATAGCTTCAATCTGTTC
1 GCTTCAATCTTTTTAATTGCAATGTCAGGGAAGTAAGATCCACT-GTTGTAGCTTCAATCTGTTC
* * *
57484017 CGCTGCATCGCCT-GGGAAGTAAGATCCGCTGTTGTA
65 CACTGCAACG-CTAGGAAAGTAAGATCCGCTGTTGTA
* * * *
57484053 GCTTCAATCTTTTTAATTGAAATGTAAAGGAAGTAAGATCCACTGTTGTAGCTTCAATCTGCTCC
1 GCTTCAATCTTTTTAATTGCAATGTCAGGGAAGTAAGATCCACTGTTGTAGCTTCAATCTGTTCC
57484118 ACTGCAACGCTAGGAAAGTAAGATCCGCTGTTGTA
66 ACTGCAACGCTAGGAAAGTAAGATCCGCTGTTGTA
*
57484153 GCTTCAATCTTTTTAATTGCAATGTCAGGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCC
1 GCTTCAATCTTTTTAATTGCAATGTCAGGGAAGTAAGATCCACTGTTGTAGCTTCAATCTGTTCC
57484218 ACTGCAACGCTAGGAAAGTAAGATCCGCTGTTGTA
66 ACTGCAACGCTAGGAAAGTAAGATCCGCTGTTGTA
* * * *
57484253 GCTTCAATCTTTTTAATTGCAACGTCAGTGAAGTGAGATCCGCTGTTGTAGCTTCAATCTGTTCC
1 GCTTCAATCTTTTTAATTGCAATGTCAGGGAAGTAAGATCCACTGTTGTAGCTTCAATCTGTTCC
57484318 ACTGCAACGCTAGGAAAGTAAGATCCGCTGTTGTA
66 ACTGCAACGCTAGGAAAGTAAGATCCGCTGTTGTA
* * * * *
57484353 GCTTCAATC-TTTTAATTACAATGTTAGGAAAGTAAGATCCGCTATTGTAGCTTCAATCTGTTCC
1 GCTTCAATCTTTTTAATTGCAATGTCAGGGAAGTAAGATCCACTGTTGTAGCTTCAATCTGTTCC
*
57484417 ACTGCAATGCTAGGAAAGTAAGATCCGCTGTTGTA
66 ACTGCAACGCTAGGAAAGTAAGATCCGCTGTTGTA
* * * * * **
57484452 GCTTCAATCTTTTTAATTACAATGTCAGGGAAGTGAGATCCGCTGTTGTAGCTTCAATATTTTTA
1 GCTTCAATCTTTTTAATTGCAATGTCAGGGAAGTAAGATCCACTGTTGTAGCTTCAATCTGTTCC
* * * * *
57484517 ATTACAATG-TCAGGTAAGTGAGATCCGCTGTTGTA
66 ACTGCAACGCT-AGGAAAGTAAGATCCGCTGTTGTA
* ** * * * *
57484552 GCTTCAATCTGTTCCATTGCAACG-CTAGGAAAGTAAGATTCACTGTTGTAGCTTCAATCT-TTT
1 GCTTCAATCTTTTTAATTGCAATGTC-AGGGAAGTAAGATCCACTGTTGTAGCTTCAATCTGTTC
* * * * *
57484615 AATTGCAATG-TCAGGGAAGTAAGATCCGCTATTGTA
65 CACTGCAACGCT-AGGAAAGTAAGATCCGCTGTTGTA
* ** * * *
57484651 GCTTCAATCTGTTCCACTGCAATG-CTAGGAAAGTAAGATCCGCTGTTGTAGCTTCAATC--TTC
1 GCTTCAATCTTTTTAATTGCAATGTC-AGGGAAGTAAGATCCACTGTTGTAGCTTCAATCTGTTC
* * * * * *
57484713 TTATTTGCAATG-TCAGGGAAGTAAGATCTGTTGTTGTA
65 -CA-CTGCAACGCT-AGGAAAGTAAGATCCGCTGTTGTA
* ** * ** * * * **
57484751 GCTTCAATCTGTTCCACTGCAACCT-AGGAAAGTAAGATCCGCTGTTGTAGCTTCAATAT-TTTA
1 GCTTCAATCTTTTTAATTGCAATGTCAGGGAAGTAAGATCCACTGTTGTAGCTTCAATCTGTTCC
* * * * *
57484814 ATTGCAATG-TCGGGGAAGTAAGATCCGCTATTGTA
66 ACTGCAACGCT-AGGAAAGTAAGATCCGCTGTTGTA
* ** * * *
57484849 GCTTCAATCTATTCCACTGCAATG-CTAGGAAAGTAAGATCCGCTGTTGTAGCTTCAATC--TTC
1 GCTTCAATCTTTTTAATTGCAATGTC-AGGGAAGTAAGATCCACTGTTGTAGCTTCAATCTGTTC
* * * * * *
57484911 TTATTTGCAATG-TCAGGGAAGTAAGATCTGTTGTTGTA
65 -CA-CTGCAACGCT-AGGAAAGTAAGATCCGCTGTTGTA
* ** * * ** * *
57484949 GCTTCAATCTGTTCCACTGCAACG-CTAGAAAAGTAAGATCCGCTGTTGTAGCTTCAATAT-TCT
1 GCTTCAATCTTTTTAATTGCAATGTC-AGGGAAGTAAGATCCACTGTTGTAGCTTCAATCTGT-T
** * * * * *
57485012 TAATTGCAATGTTAGGGAAGTAAGATCTGCTGTTGTA
64 CCACTGCAACGCTAGGAAAGTAAGATCCGCTGTTGTA
* ** * * * *
57485049 GCTTCAATCTATTCCACTACAATG-CTAGGAAAGTAAGATCCGCTGTTGTAGCTTCAATC
1 GCTTCAATCTTTTTAATTGCAATGTC-AGGGAAGTAAGATCCACTGTTGTAGCTTCAATC
57485108 ATTTTAATTG
Statistics
Matches: 1118, Mismatches: 120, Indels: 34
0.88 0.09 0.03
Matches are distributed among these distances:
98 55 0.05
99 252 0.23
100 806 0.72
101 4 0.00
102 1 0.00
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.33
Consensus pattern (100 bp):
GCTTCAATCTTTTTAATTGCAATGTCAGGGAAGTAAGATCCACTGTTGTAGCTTCAATCTGTTCC
ACTGCAACGCTAGGAAAGTAAGATCCGCTGTTGTA
Found at i:57483858 original size:50 final size:50
Alignment explanation
Indices: 57483804--57485107 Score: 307
Period size: 50 Copynumber: 26.2 Consensus size: 50
57483794 ACTGTCGTAT
* * *
57483804 CTTCAATCTGTTCCGCTGCATTGCCTGGGAAGTAAGTTTCGCCATTGTGG
1 CTTCAATCTGTTCCGCTGCATTGCCTGGGAAGTAAGATTCGCCGTTGTAG
* * ** * * * ** * * **
57483854 CTTCAACCTTTTGAGTTGCGA-TGTCGGGGAAGCGAGGTTCACCGTCATAG
1 CTTCAATCTGTTCCGCTGC-ATTGCCTGGGAAGTAAGATTCGCCGTTGTAG
* * * *
57483904 CTTCAATCTGTTCCGCTGCATCGCCTGGGAAGTAAGTTTCGCCATTGTGG
1 CTTCAATCTGTTCCGCTGCATTGCCTGGGAAGTAAGATTCGCCGTTGTAG
* * ** * * * * ** **
57483954 ATTCAATCTTTTGAGTTGCGA-TGTCGGGGAAGCAAGATTCATCGTCATAG
1 CTTCAATCTGTTCCGCTGC-ATTGCCTGGGAAGTAAGATTCGCCGTTGTAG
* * *
57484004 CTTCAATCTGTTCCGCTGCATCGCCTGGGAAGTAAGATCCGCTGTTGTAG
1 CTTCAATCTGTTCCGCTGCATTGCCTGGGAAGTAAGATTCGCCGTTGTAG
* **** * * **** * * *
57484054 CTTCAATCTTTTTAATTGAAATGTAAAGGAAGTAAGATCCACTGTTGTAG
1 CTTCAATCTGTTCCGCTGCATTGCCTGGGAAGTAAGATTCGCCGTTGTAG
* * ** * * *
57484104 CTTCAATCTGCTCCACTGCAACG-CTAGGAAAGTAAGATCCGCTGTTGTAG
1 CTTCAATCTGTTCCGCTGCATTGCCT-GGGAAGTAAGATTCGCCGTTGTAG
* **** * * * * *
57484154 CTTCAATCTTTTTAATTGCAATGTCAGGGAAGTAAGATCCGCTGTTGTAG
1 CTTCAATCTGTTCCGCTGCATTGCCTGGGAAGTAAGATTCGCCGTTGTAG
* ** * * *
57484204 CTTCAATCTGTTCCACTGCAACG-CTAGGAAAGTAAGATCCGCTGTTGTAG
1 CTTCAATCTGTTCCGCTGCATTGCCT-GGGAAGTAAGATTCGCCGTTGTAG
* **** ** * * * * * *
57484254 CTTCAATCTTTTTAATTGCAACGTCAGTGAAGTGAGATCCGCTGTTGTAG
1 CTTCAATCTGTTCCGCTGCATTGCCTGGGAAGTAAGATTCGCCGTTGTAG
* ** * * *
57484304 CTTCAATCTGTTCCACTGCAACG-CTAGGAAAGTAAGATCCGCTGTTGTAG
1 CTTCAATCTGTTCCGCTGCATTGCCT-GGGAAGTAAGATTCGCCGTTGTAG
**** * * * * * **
57484354 CTTCAATCT-TTTAATTACAATG-TTAGGAAAGTAAGATCCGCTATTGTAG
1 CTTCAATCTGTTCCGCTGCATTGCCT-GGGAAGTAAGATTCGCCGTTGTAG
* * * * *
57484403 CTTCAATCTGTTCCACTGCAATG-CTAGGAAAGTAAGATCCGCTGTTGTAG
1 CTTCAATCTGTTCCGCTGCATTGCCT-GGGAAGTAAGATTCGCCGTTGTAG
* **** * * * * * * *
57484453 CTTCAATCTTTTTAATTACAATGTCAGGGAAGTGAGATCCGCTGTTGTAG
1 CTTCAATCTGTTCCGCTGCATTGCCTGGGAAGTAAGATTCGCCGTTGTAG
* * **** * * * * * * * *
57484503 CTTCAATATTTTTAATTACAATGTCAGGTAAGTGAGATCCGCTGTTGTAG
1 CTTCAATCTGTTCCGCTGCATTGCCTGGGAAGTAAGATTCGCCGTTGTAG
** ** * * *
57484553 CTTCAATCTGTTCCATTGCAACG-CTAGGAAAGTAAGATTCACTGTTGTAG
1 CTTCAATCTGTTCCGCTGCATTGCCT-GGGAAGTAAGATTCGCCGTTGTAG
**** * * * * **
57484603 CTTCAATCT-TTTAATTGCAATGTCAGGGAAGTAAGATCCGCTATTGTAG
1 CTTCAATCTGTTCCGCTGCATTGCCTGGGAAGTAAGATTCGCCGTTGTAG
* * * * *
57484652 CTTCAATCTGTTCCACTGCAATG-CTAGGAAAGTAAGATCCGCTGTTGTAG
1 CTTCAATCTGTTCCGCTGCATTGCCT-GGGAAGTAAGATTCGCCGTTGTAG
**** * * * **
57484702 CTTCAATCT-TCTTATTTGCAATGTCAGGGAAGTAAGA-TCTGTTGTTGTAG
1 CTTCAATCTGT-TCCGCTGCATTGCCTGGGAAGTAAGATTC-GCCGTTGTAG
* * * * *
57484752 CTTCAATCTGTTCCACTGCA--ACCTAGGAAAGTAAGATCCGCTGTTGTAG
1 CTTCAATCTGTTCCGCTGCATTGCCT-GGGAAGTAAGATTCGCCGTTGTAG
* **** * * * * **
57484801 CTTCAATAT-TTTAATTGCAATGTCGGGGAAGTAAGATCCGCTATTGTAG
1 CTTCAATCTGTTCCGCTGCATTGCCTGGGAAGTAAGATTCGCCGTTGTAG
* * * * * *
57484850 CTTCAATCTATTCCACTGCAATG-CTAGGAAAGTAAGATCCGCTGTTGTAG
1 CTTCAATCTGTTCCGCTGCATTGCCT-GGGAAGTAAGATTCGCCGTTGTAG
**** * * * **
57484900 CTTCAATCT-TCTTATTTGCAATGTCAGGGAAGTAAGA-TCTGTTGTTGTAG
1 CTTCAATCTGT-TCCGCTGCATTGCCTGGGAAGTAAGATTC-GCCGTTGTAG
* ** ** * *
57484950 CTTCAATCTGTTCCACTGCAACG-CTAGAAAAGTAAGATCCGCTGTTGTAG
1 CTTCAATCTGTTCCGCTGCATTGCCT-GGGAAGTAAGATTCGCCGTTGTAG
* **** * * *
57485000 CTTCAATAT-TCTTAATTGCAATG-TTAGGGAAGTAAGA-TCTGCTGTTGTAG
1 CTTCAATCTGT-TCCGCTGCATTGCCT-GGGAAGTAAGATTC-GCCGTTGTAG
* * * * * * *
57485050 CTTCAATCTATTCCACTACAATG-CTAGGAAAGTAAGATCCGCTGTTGTAG
1 CTTCAATCTGTTCCGCTGCATTGCCT-GGGAAGTAAGATTCGCCGTTGTAG
57485100 CTTCAATC
1 CTTCAATC
57485108 ATTTTAATTG
Statistics
Matches: 984, Mismatches: 235, Indels: 70
0.76 0.18 0.05
Matches are distributed among these distances:
48 8 0.01
49 152 0.15
50 812 0.83
51 12 0.01
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.33
Consensus pattern (50 bp):
CTTCAATCTGTTCCGCTGCATTGCCTGGGAAGTAAGATTCGCCGTTGTAG
Found at i:57484493 original size:249 final size:248
Alignment explanation
Indices: 57484031--57485120 Score: 1261
Period size: 249 Copynumber: 4.4 Consensus size: 248
57484021 GCATCGCCTG
* ** *
57484031 GGAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTTAATTGAAATG-TAAAGG-AAGTAAGATCC
1 GGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCATTGCAATGCT--AGGAAAGTAAGATCC
* * ** * * *
57484094 ACTGTTGTAGCTTCAATCTGCTCCACTGCAACGCTAGGAAAGTAAGATCCGCTGTTGTAGCTTCA
64 GCTGTTGTAGCTTCAATCT-TTTAATTGCAATGCTAGGAAAGTAAGATCCGCTATTGTAGCTTCA
* ** * * *
57484159 ATCTTTTTAATTGCAATGTCAGGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCA
128 ATCTGTTCCACTGCAATGTCAGGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCAACTGCA
*
57484224 ACGCTAGGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTTAATTGCAACGTCA
193 ACGCTAGGAAAGTAAGATCCGCTGTTGTAGCTTCAATATTTTTAATTGCAACGTCA
* * *
57484280 GTGAAGTGAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAACGCTAGGAAAGTAAGATCCG
1 G-GAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCATTGCAATGCTAGGAAAGTAAGATCCG
* *
57484345 CTGTTGTAGCTTCAATCTTTTAATTACAATGTTAGGAAAGTAAGATCCGCTATTGTAGCTTCAAT
65 CTGTTGTAGCTTCAATCTTTTAATTGCAATGCTAGGAAAGTAAGATCCGCTATTGTAGCTTCAAT
* * * *
57484410 CTGTTCCACTGCAATG-CTAGGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTTAATTACAA
130 CTGTTCCACTGCAATGTC-AGGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCAACTGCAA
* * * * *
57484474 TG-TCAGGGAAGTGAGATCCGCTGTTGTAGCTTCAATATTTTTAATTACAATGTCA
194 CGCT-AGGAAAGTAAGATCCGCTGTTGTAGCTTCAATATTTTTAATTGCAACGTCA
* * * *
57484529 GGTAAGTGAGATCCGCTGTTGTAGCTTCAATCTGTTCCATTGCAACGCTAGGAAAGTAAGATTCA
1 GG-AAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCATTGCAATGCTAGGAAAGTAAGATCCG
*
57484594 CTGTTGTAGCTTCAATCTTTTAATTGCAATG-TCAGGGAAGTAAGATCCGCTATTGTAGCTTCAA
65 CTGTTGTAGCTTCAATCTTTTAATTGCAATGCT-AGGAAAGTAAGATCCGCTATTGTAGCTTCAA
* **
57484658 TCTGTTCCACTGCAATG-CTAGGAAAGTAAGATCCGCTGTTGTAGCTTCAATCT-TCTTATTTGC
129 TCTGTTCCACTGCAATGTC-AGGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTGT-TCAACTGC
* * * * * * ** * *
57484721 AATG-TCAGGGAAGTAAGATCTGTTGTTGTAGCTTCAATCTGTTCCACTGCAACCT-A
192 AACGCT-AGGAAAGTAAGATCCGCTGTTGTAGCTTCAATATTTTTAATTGCAACGTCA
* ** * *
57484777 GGAAAGTAAGATCCGCTGTTGTAGCTTCAATAT-TTTAATTGCAATG-TCGGGGAAGTAAGATCC
1 GG-AAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCATTGCAATGCT-AGGAAAGTAAGATCC
* ** * *
57484840 GCTATTGTAGCTTCAATCTATTCCACTGCAATGCTAGGAAAGTAAGATCCGCTGTTGTAGCTTCA
64 GCTGTTGTAGCTTCAATCT-TTTAATTGCAATGCTAGGAAAGTAAGATCCGCTATTGTAGCTTCA
* * * * * *
57484905 ATC--TTCTTATTTGCAATGTCAGGGAAGTAAGATCTGTTGTTGTAGCTTCAATCTGTTCCACTG
128 ATCTGTTC-CA-CTGCAATGTCAGGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCAACTG
* * * *
57484968 CAACGCTAGAAAAGTAAGATCCGCTGTTGTAGCTTCAATATTCTTAATTGCAATGTTA
191 CAACGCTAGGAAAGTAAGATCCGCTGTTGTAGCTTCAATATTTTTAATTGCAACGTCA
* * * *
57485026 GGGAAGTAAGATCTGCTGTTGTAGCTTCAATCTATTCCACTACAATGCTAGGAAAGTAAGATCCG
1 -GGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCATTGCAATGCTAGGAAAGTAAGATCCG
57485091 CTGTTGTAGCTTCAATCATTTTAATTGCAA
65 CTGTTGTAGCTTCAATC-TTTTAATTGCAA
57485121 ACTATGGTTT
Statistics
Matches: 720, Mismatches: 100, Indels: 41
0.84 0.12 0.05
Matches are distributed among these distances:
246 4 0.01
247 40 0.06
248 159 0.22
249 398 0.55
250 116 0.16
251 3 0.00
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.33
Consensus pattern (248 bp):
GGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCATTGCAATGCTAGGAAAGTAAGATCCGC
TGTTGTAGCTTCAATCTTTTAATTGCAATGCTAGGAAAGTAAGATCCGCTATTGTAGCTTCAATC
TGTTCCACTGCAATGTCAGGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCAACTGCAACG
CTAGGAAAGTAAGATCCGCTGTTGTAGCTTCAATATTTTTAATTGCAACGTCA
Found at i:57485115 original size:100 final size:99
Alignment explanation
Indices: 57484030--57485120 Score: 1243
Period size: 100 Copynumber: 10.9 Consensus size: 99
57484020 TGCATCGCCT
* ** *
57484030 GGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTTAATTGAAATG-TAAAGG-AAGTAAGATC
1 GGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCATTGCAATGCT--AGGAAAGTAAGATC
* * ** * *
57484093 CACTGTTGTAGCTTCAATCTGCTCCACTGCAACG-CTA
64 CGCTGTTGTAGCTTCAATCT-TTTAATTGCAATGTC-A
* * ** *
57484130 GGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTTAATTGCAATG-TCAGGGAAGTAAGATCC
1 GGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCATTGCAATGCT-AGGAAAGTAAGATCC
** * *
57484194 GCTGTTGTAGCTTCAATCTGTTCCACTGCAACG-CTA
65 GCTGTTGTAGCTTCAATCT-TTTAATTGCAATGTC-A
* * ** * *
57484230 GGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTTAATTGCAACG-TCAGTG-AAGTGAGATC
1 GGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCATTGCAATGCT-AG-GAAAGTAAGATC
** * *
57484293 CGCTGTTGTAGCTTCAATCTGTTCCACTGCAACG-CTA
64 CGCTGTTGTAGCTTCAATCT-TTTAATTGCAATGTC-A
* ** * *
57484330 GGAAAGTAAGATCCGCTGTTGTAGCTTCAATCT-TTTAATTACAATGTTAGGAAAGTAAGATCCG
1 GGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCATTGCAATGCTAGGAAAGTAAGATCCG
* ** *
57484394 CTATTGTAGCTTCAATCTGTTCCACTGCAATG-CTA
66 CTGTTGTAGCTTCAATCT-TTTAATTGCAATGTC-A
* * ** * * *
57484429 GGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTTAATTACAATG-TCAGGGAAGTGAGATCC
1 GGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCATTGCAATGCT-AGGAAAGTAAGATCC
* *
57484493 GCTGTTGTAGCTTCAATATTTTTAATTACAATGTCA
65 GCTGTTGTAGCTTCAAT-CTTTTAATTGCAATGTCA
* * * * *
57484529 GGTAAGTGAGATCCGCTGTTGTAGCTTCAATCTGTTCCATTGCAACGCTAGGAAAGTAAGATTCA
1 GGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCATTGCAATGCTAGGAAAGTAAGATCCG
57484594 CTGTTGTAGCTTCAATCTTTTAATTGCAATGTCA
66 CTGTTGTAGCTTCAATCTTTTAATTGCAATGTCA
* *
57484628 GGGAAGTAAGATCCGCTATTGTAGCTTCAATCTGTTCCACTGCAATGCTAGGAAAGTAAGATCCG
1 GGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCATTGCAATGCTAGGAAAGTAAGATCCG
*
57484693 CTGTTGTAGCTTCAATCTTCTTATTTGCAATGTCA
66 CTGTTGTAGCTTCAATCTT-TTAATTGCAATGTCA
* * * *
57484728 GGGAAGTAAGATCTGTTGTTGTAGCTTCAATCTGTTCCACTGCAA-CCTAGGAAAGTAAGATCCG
1 GGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCATTGCAATGCTAGGAAAGTAAGATCCG
* *
57484792 CTGTTGTAGCTTCAATATTTTAATTGCAATGTCG
66 CTGTTGTAGCTTCAATCTTTTAATTGCAATGTCA
* * *
57484826 GGGAAGTAAGATCCGCTATTGTAGCTTCAATCTATTCCACTGCAATGCTAGGAAAGTAAGATCCG
1 GGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCATTGCAATGCTAGGAAAGTAAGATCCG
*
57484891 CTGTTGTAGCTTCAATCTTCTTATTTGCAATGTCA
66 CTGTTGTAGCTTCAATCTT-TTAATTGCAATGTCA
* * * * *
57484926 GGGAAGTAAGATCTGTTGTTGTAGCTTCAATCTGTTCCACTGCAACGCTAGAAAAGTAAGATCCG
1 GGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCATTGCAATGCTAGGAAAGTAAGATCCG
* *
57484991 CTGTTGTAGCTTCAATATTCTTAATTGCAATGTTA
66 CTGTTGTAGCTTCAATCTT-TTAATTGCAATGTCA
* * * *
57485026 GGGAAGTAAGATCTGCTGTTGTAGCTTCAATCTATTCCACTACAATGCTAGGAAAGTAAGATCCG
1 GGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCATTGCAATGCTAGGAAAGTAAGATCCG
57485091 CTGTTGTAGCTTCAATCATTTTAATTGCAA
66 CTGTTGTAGCTTCAATC-TTTTAATTGCAA
57485121 ACTATGGTTT
Statistics
Matches: 907, Mismatches: 71, Indels: 26
0.90 0.07 0.03
Matches are distributed among these distances:
98 55 0.06
99 259 0.29
100 587 0.65
101 6 0.01
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.33
Consensus pattern (99 bp):
GGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCATTGCAATGCTAGGAAAGTAAGATCCG
CTGTTGTAGCTTCAATCTTTTAATTGCAATGTCA
Found at i:57485194 original size:200 final size:198
Alignment explanation
Indices: 57484381--57485123 Score: 801
Period size: 198 Copynumber: 3.7 Consensus size: 198
57484371 CAATGTTAGG
* * ** * *
57484381 AAAGTAAGATCCGCTATTGTAGCTTCAATCTGTTCCACTGCAATG-CTAGGAAAGTAAGATCCGC
1 AAAGTAAGATCCGCTGTTGTAGCTTCAATAT-TTTAATTGCAATGTC-AGGGAAGTAAGATCCGC
* * ** * * *
57484445 TGTTGTAGCTTCAATCTTTTTAATTACAATG-TCAGGGAAGTGAGATCCGCTGTTGTAGCTTCAA
64 TATTGTAGCTTCAATCTATTCCACTACAATGCT-AGGAAAGTAAGATCCGCTGTTGTAGCTTCAA
* * * ** * * * * * * * *** **
57484509 TATTTTTAATTACAATGTCAGGTAAGTGAGATCCGCTGTTGTAGCTTCAATCTGTTCCATTGCAA
128 TCTTCTTAATTGCAAACTCAGGGAACTAAGATCTGTTGCTGTAGCTACAAGAAG-TCCACAGCAA
**
57484574 CGCTAGG
192 CGCTACA
* * *
57484581 AAAGTAAGATTCACTGTTGTAGCTTCAATCTTTTAATTGCAATGTCAGGGAAGTAAGATCCGCTA
1 AAAGTAAGATCCGCTGTTGTAGCTTCAATATTTTAATTGCAATGTCAGGGAAGTAAGATCCGCTA
* *
57484646 TTGTAGCTTCAATCTGTTCCACTGCAATGCTAGGAAAGTAAGATCCGCTGTTGTAGCTTCAATCT
66 TTGTAGCTTCAATCTATTCCACTACAATGCTAGGAAAGTAAGATCCGCTGTTGTAGCTTCAATCT
* ** * * * *** *
57484711 TCTTATTTGCAATGTCAGGGAAGTAAGATCTGTTGTTGTAGCTTCAATCTGTTCCACTGCAAC-C
131 TCTTAATTGCAAACTCAGGGAACTAAGATCTGTTGCTGTAGCTACAAGAAG-TCCACAGCAACGC
**
57484775 TAGG
195 TACA
*
57484779 AAAGTAAGATCCGCTGTTGTAGCTTCAATATTTTAATTGCAATGTCGGGGAAGTAAGATCCGCTA
1 AAAGTAAGATCCGCTGTTGTAGCTTCAATATTTTAATTGCAATGTCAGGGAAGTAAGATCCGCTA
*
57484844 TTGTAGCTTCAATCTATTCCACTGCAATGCTAGGAAAGTAAGATCCGCTGTTGTAGCTTCAATCT
66 TTGTAGCTTCAATCTATTCCACTACAATGCTAGGAAAGTAAGATCCGCTGTTGTAGCTTCAATCT
* ** * * * *** *
57484909 TCTTATTTGCAATGTCAGGGAAGTAAGATCTGTTGTTGTAGCTTCAATCTGTTCCACTGCAACGC
131 TCTTAATTGCAAACTCAGGGAACTAAGATCTGTTGCTGTAGCTACAAGAAG-TCCACAGCAACGC
*
57484974 TAGA
195 TACA
* *
57484978 AAAGTAAGATCCGCTGTTGTAGCTTCAATATTCTTAATTGCAATGTTAGGGAAGTAAGATCTGCT
1 AAAGTAAGATCCGCTGTTGTAGCTTCAATATT-TTAATTGCAATGTCAGGGAAGTAAGATCCGCT
*
57485043 GTTGTAGCTTCAATCTATTCCACTACAATGCTAGGAAAGTAAGATCCGCTGTTGTAGCTTCAATC
65 ATTGTAGCTTCAATCTATTCCACTACAATGCTAGGAAAGTAAGATCCGCTGTTGTAGCTTCAATC
57485108 ATT-TTAATTGCAAACT
130 -TTCTTAATTGCAAACT
57485124 ATGGTTTCTT
Statistics
Matches: 500, Mismatches: 38, Indels: 10
0.91 0.07 0.02
Matches are distributed among these distances:
198 193 0.39
199 173 0.35
200 132 0.26
201 2 0.00
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (198 bp):
AAAGTAAGATCCGCTGTTGTAGCTTCAATATTTTAATTGCAATGTCAGGGAAGTAAGATCCGCTA
TTGTAGCTTCAATCTATTCCACTACAATGCTAGGAAAGTAAGATCCGCTGTTGTAGCTTCAATCT
TCTTAATTGCAAACTCAGGGAACTAAGATCTGTTGCTGTAGCTACAAGAAGTCCACAGCAACGCT
ACA
Found at i:57485238 original size:44 final size:45
Alignment explanation
Indices: 57485125--57485240 Score: 137
Period size: 45 Copynumber: 2.6 Consensus size: 45
57485115 TTGCAAACTA
* * * *
57485125 TGGTTTCTTCGATCTGCTTCGCTGTTAGTACAAGAAGGCAAGATC
1 TGGTATCTTCGATCTGCTTCGCTGTCAGTACAAAAAGGCAAGAGC
* *
57485170 TGCTATCTTC-ATTCTGCTCCGCTGTCAGTACAAAAAGGCAAG-GC
1 TGGTATCTTCGA-TCTGCTTCGCTGTCAGTACAAAAAGGCAAGAGC
* *
57485214 TGGTGTCTTCGATCTGCTTTGCTGTCA
1 TGGTATCTTCGATCTGCTTCGCTGTCA
57485241 AGGCAGGAAG
Statistics
Matches: 59, Mismatches: 10, Indels: 5
0.80 0.14 0.07
Matches are distributed among these distances:
44 23 0.39
45 36 0.61
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.34
Consensus pattern (45 bp):
TGGTATCTTCGATCTGCTTCGCTGTCAGTACAAAAAGGCAAGAGC
Found at i:57485326 original size:88 final size:88
Alignment explanation
Indices: 57485205--57485877 Score: 1114
Period size: 88 Copynumber: 7.6 Consensus size: 88
57485195 CAGTACAAAA
* * * * * * *
57485205 AGGCAAGGCTGGTGTCTTCGATCTGCTTTGCTGTCAAGGCAGGAAGGCTAGATCTGTTGTCTTCA
1 AGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCA
57485270 ACCAGCTCCA-CTACAACCGAGAG
66 ACCAGCTCCATC-ACAACCGAGAG
*
57485293 AGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCA
1 AGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCA
*
57485358 ACCAGCTCCATCACAATCGAGAG
66 ACCAGCTCCATCACAACCGAGAG
57485381 AGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCA
1 AGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCA
* *
57485446 ACCAGCTCTATCACAAACGAGAG
66 ACCAGCTCCATCACAACCGAGAG
*
57485469 AGGCAAGGTTTGTGTCTTTGACCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCA
1 AGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCA
*
57485534 ACCAGCTCCATCACAACTGAGAG
66 ACCAGCTCCATCACAACCGAGAG
* * * *
57485557 AGGCAAGGTTTGTGTCTTCGATCTACTTCGCTGTTAATACAGGAAGGCAAGATCTTTTGTCTTCA
1 AGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCA
57485622 ACCAGCTCCATCACAACCGAGAG
66 ACCAGCTCCATCACAACCGAGAG
** * *
57485645 AGGCAAGGTTTGTGTCTTCGACCTGCTTCATTGTTAATGCAGGAAGGCAAGATCTGTTGTCTTCA
1 AGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCA
57485710 ACCAGCTCCATCACAACCGAGAG
66 ACCAGCTCCATCACAACCGAGAG
*
57485733 AGGCAAGGTTTGTGTCTTCGACCTACTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCA
1 AGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCA
*
57485798 ACCAGTTCCATCACAACCGAGAG
66 ACCAGCTCCATCACAACCGAGAG
*
57485821 AGGCAAGGTTTGTGTCTTCGACCTACTTCGCTGTCAATGCAGGAAGGCAAGATCTTT
1 AGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTT
57485878 AACTTCGTTG
Statistics
Matches: 552, Mismatches: 32, Indels: 2
0.94 0.05 0.00
Matches are distributed among these distances:
88 551 1.00
89 1 0.00
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.28
Consensus pattern (88 bp):
AGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCA
ACCAGCTCCATCACAACCGAGAG
Found at i:57485884 original size:44 final size:44
Alignment explanation
Indices: 57485305--57485877 Score: 217
Period size: 44 Copynumber: 13.0 Consensus size: 44
57485295 GCAAGGTTTG
* *
57485305 TGTCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTT
1 TGTCTTCGACCTACTTCGCTGTCAATGCAGGAAGGCAAGATC-TT
* ** *
57485350 TGTCTTCAACC-AGC-TC-CATCACAAT-C-GAGAGAGGCAAGGT-TT
1 TGTCTTCGACCTA-CTTCGC-TGTCAATGCAG-GA-AGGCAAGATCTT
*
57485392 GTGTCTTCGACCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTT
1 -TGTCTTCGACCTACTTCGCTGTCAATGCAGGAAGGCAAGATC-TT
* * ** *
57485438 TGTCTTCAACC-AGC-T--CTATCACAAAC-GAGAGAGGCAAGGT-TT
1 TGTCTTCGACCTA-CTTCGCTGTCA-ATGCAG-GA-AGGCAAGATCTT
* *
57485480 GTGTCTTTGACCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTT
1 -TGTCTTCGACCTACTTCGCTGTCAATGCAGGAAGGCAAGATC-TT
* ** *
57485526 TGTCTTCAACC-AGC-TC-CATCACAACTG-A-GAGAGGCAAGGT-TT
1 TGTCTTCGACCTA-CTTCGC-TGTCAA-TGCAGGA-AGGCAAGATCTT
* * *
57485568 GTGTCTTCGATCTACTTCGCTGTTAATACAGGAAGGCAAGATCTTT
1 -TGTCTTCGACCTACTTCGCTGTCAATGCAGGAAGGCAAGATC-TT
* * * * *
57485614 TGTCTTCAACC-AGC-TC-C-ATCACA-ACCGAGAGAGGCAAGGT-TT
1 TGTCTTCGACCTA-CTTCGCTGTCA-ATGCAG-GA-AGGCAAGATCTT
* ** *
57485656 GTGTCTTCGACCTGCTTCATTGTTAATGCAGGAAGGCAAGATCTGT
1 -TGTCTTCGACCTACTTCGCTGTCAATGCAGGAAGGCAAGATCT-T
* * * * *
57485702 TGTCTTCAACC-AGC-TC-C-ATCACA-ACCGAGAGAGGCAAGGT-TT
1 TGTCTTCGACCTA-CTTCGCTGTCA-ATGCAG-GA-AGGCAAGATCTT
57485744 GTGTCTTCGACCTACTTCGCTGTCAATGCAGGAAGGCAAGATCTTT
1 -TGTCTTCGACCTACTTCGCTGTCAATGCAGGAAGGCAAGATC-TT
* * * * * *
57485790 TGTCTTCAACC-AGTTC-C-ATCACA-ACCGAGAGAGGCAAGGT-TT
1 TGTCTTCGACCTACTTCGCTGTCA-ATGCAG-GA-AGGCAAGATCTT
57485832 GTGTCTTCGACCTACTTCGCTGTCAATGCAGGAAGGCAAGATCTT
1 -TGTCTTCGACCTACTTCGCTGTCAATGCAGGAAGGCAAGATCTT
57485877 T
1 T
57485878 AACTTCGTTG
Statistics
Matches: 383, Mismatches: 76, Indels: 139
0.64 0.13 0.23
Matches are distributed among these distances:
42 32 0.08
43 87 0.23
44 145 0.38
45 89 0.23
46 30 0.08
ACGTcount: A:0.25, C:0.24, G:0.23, T:0.28
Consensus pattern (44 bp):
TGTCTTCGACCTACTTCGCTGTCAATGCAGGAAGGCAAGATCTT
Found at i:57488335 original size:17 final size:16
Alignment explanation
Indices: 57488313--57488346 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
57488303 TTGACTTTGA
57488313 GTTTTTCGATTTTTTTT
1 GTTTTT-GATTTTTTTT
*
57488330 GTTTTTGTTTTTTTTT
1 GTTTTTGATTTTTTTT
57488346 G
1 G
57488347 AATCGGAACT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.03, C:0.03, G:0.15, T:0.79
Consensus pattern (16 bp):
GTTTTTGATTTTTTTT
Found at i:57490499 original size:31 final size:31
Alignment explanation
Indices: 57490461--57490523 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
57490451 CCACTTAAGA
*
57490461 AGGTGTGACCAACAGTCATGCAATGCAATGC
1 AGGTGTGACCAACAGTCATGCAACGCAATGC
*
57490492 AGGTGTGACCAACAGTCATGTAACGCAATGC
1 AGGTGTGACCAACAGTCATGCAACGCAATGC
57490523 A
1 A
57490524 AAAAGGCATA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.33, C:0.22, G:0.25, T:0.19
Consensus pattern (31 bp):
AGGTGTGACCAACAGTCATGCAACGCAATGC
Done.