Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 206 of 433
Found at i:64941058 original size:143 final size:143
Alignment explanation
Indices: 64940611--64941050 Score: 502
Period size: 143 Copynumber: 3.1 Consensus size: 143
64940601 ATGAGATAAG
* *
64940611 GCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGA
1 GCCGAATGGCCAATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCAATGTGA
* * * * * * * *
64940676 TGAATGTGAG-CATGCATATGTATGATAAGGCCGAATGGCCAATGTG--GT-GA-ATATGA-ACA
66 TGAATATGAGATATGCATATG--TGGTAAAGCCGAATGGTCAATGTGAAATATATATATGAGATA
64940735 TGCATATATGTGGTAAA
129 TG--TATATGTGGTAAA
* * ** * * * * *
64940752 GCCTAATGGCTAATGTGAAAAATGTATGAGAAAGGTATATGTG-G-TAAAGCCGAATGGCTAATG
1 GCCGAATGGCCAATGTGATGAATG--TGAG-CATGCATATGTGTGATAAGGCCGAATGGCCAATG
* *
64940815 TGAAAT-ATGTATGAGATATGCATATGTGGTAAAGCTGAATGGTCAATGTGAAATATATATATGA
63 TG--ATGA-ATATGAGATATGCATATGTGGTAAAGCCGAATGGTCAATGTGAAATATATATATGA
* * *
64940879 GATATGCATATGTGATAAG
125 GATATGTATATGTGGTAAA
*
64940898 GCCGAATGGCCAATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCAATGTGG
1 GCCGAATGGCCAATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCAATGTGA
64940963 TGAATATGAGATATGCATATGTGGTAAAGCCGAATGGTCAATGTGAAATATATATATGAGATATG
66 TGAATATGAGATATGCATATGTGGTAAAGCCGAATGGTCAATGTGAAATATATATATGAGATATG
64941028 TATATGTGGTAAA
131 TATATGTGGTAAA
64941041 GCCGAATGGC
1 GCCGAATGGC
64941051 TAGTGTGAAA
Statistics
Matches: 245, Mismatches: 39, Indels: 28
0.79 0.12 0.09
Matches are distributed among these distances:
141 20 0.08
142 19 0.08
143 115 0.47
144 21 0.09
145 29 0.12
146 31 0.13
147 6 0.02
148 4 0.02
ACGTcount: A:0.35, C:0.10, G:0.28, T:0.27
Consensus pattern (143 bp):
GCCGAATGGCCAATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCAATGTGA
TGAATATGAGATATGCATATGTGGTAAAGCCGAATGGTCAATGTGAAATATATATATGAGATATG
TATATGTGGTAAA
Found at i:64941105 original size:240 final size:238
Alignment explanation
Indices: 64940646--64941107 Score: 678
Period size: 240 Copynumber: 1.9 Consensus size: 238
64940636 GAACATGCAT
64940646 ATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGCATGCATATGTATGATAAGGCCGAA
1 ATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGCATGCATATGTATGATAAGGCCGAA
* *
64940711 TGGCCAATGTGGTGAATATGAACATGCATATATGTGGTAAAGCCTAATGGCTAATGTGAAAAATG
66 TGGCCAATGTGGTGAATATGAACATGCA-ATATGTGGTAAAGCCGAATGGCTAATGTGAAAAATA
* *
64940776 TATGAGAAAGGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGCATATG
130 TATGAGAAAGGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTAGGAGATATGCATATA
* * **
64940841 TGGTAAAGCTGAATGGTCAATGTGAAATATATATATGAGATATGC
195 TGGT-AAGCCGAACGACCAATGTGAAATATATATATGAGATATGC
*
64940886 ATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAA
1 ATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGCATGCATATGTATGATAAGGCCGAA
*
64940951 TGGCCAATGTGGTGAATATGAGATATGC-ATATGTGGTAAAGCCGAATGG-TCAATGTGAAATAT
66 TGGCCAATGTGGTGAATATGA-ACATGCAATATGTGGTAAAGCCGAATGGCT-AATGTGAAA-A-
* * * * * *
64941014 ATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGCGATGTGCGT
127 ATATATGAGAAAGGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTAGGAGATATGCAT
* *
64941079 ATATTGT-GGCCGAACGACCAAATGTGAAA
192 ATATGGTAAGCCGAACGACC-AATGTGAAA
64941108 GGTGTGTATT
Statistics
Matches: 199, Mismatches: 18, Indels: 10
0.88 0.08 0.04
Matches are distributed among these distances:
238 1 0.01
239 36 0.18
240 95 0.48
241 67 0.34
ACGTcount: A:0.34, C:0.10, G:0.28, T:0.27
Consensus pattern (238 bp):
ATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGCATGCATATGTATGATAAGGCCGAA
TGGCCAATGTGGTGAATATGAACATGCAATATGTGGTAAAGCCGAATGGCTAATGTGAAAAATAT
ATGAGAAAGGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTAGGAGATATGCATATAT
GGTAAGCCGAACGACCAATGTGAAATATATATATGAGATATGC
Found at i:64941358 original size:37 final size:37
Alignment explanation
Indices: 64941213--64941357 Score: 245
Period size: 37 Copynumber: 3.9 Consensus size: 37
64941203 GGAAATATAT
64941213 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
64941250 TCCGGGTAAGACCCGATGACTACGTGTGGAGAGTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
64941287 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * *
64941324 TCCGGGTAAGACCCGATAACTTCGTGTGGTGATT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT
64941358 TCGTCTGAGC
Statistics
Matches: 102, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 102 1.00
ACGTcount: A:0.23, C:0.19, G:0.32, T:0.26
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:64948400 original size:40 final size:40
Alignment explanation
Indices: 64948356--64948518 Score: 159
Period size: 40 Copynumber: 4.1 Consensus size: 40
64948346 TCGAATTTAG
* * *
64948356 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACAACTAGCACAAATGCCTTCGGGTCTTAAC
* *** * *
64948396 CCGGATTTGGTAACTTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTAGCACAAATGCCTTCGGGTCTTAAC
* * * *
64948436 CCGGATATAACAACTCGCACGAATGCCTTCGGGTATT-AG
1 CCGGATATAACAACTAGCACAAATGCCTTCGGGTCTTAAC
* * *
64948475 CCGGATATAATC-ACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAA-CAACTAGCACAAATGCCTTCGGGTCTTAAC
64948515 CCGG
1 CCGG
64948519 GTATCATTCA
Statistics
Matches: 96, Mismatches: 25, Indels: 4
0.77 0.20 0.03
Matches are distributed among these distances:
39 30 0.31
40 66 0.69
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAACAACTAGCACAAATGCCTTCGGGTCTTAAC
Found at i:64950416 original size:36 final size:36
Alignment explanation
Indices: 64950376--64950446 Score: 133
Period size: 36 Copynumber: 2.0 Consensus size: 36
64950366 GGTGGTTCTT
64950376 TTGCTAGAGGTGGTGCTAGAAAGGGAAGTGATACTA
1 TTGCTAGAGGTGGTGCTAGAAAGGGAAGTGATACTA
*
64950412 TTGCTAGAGGTGGTTCTAGAAAGGGAAGTGATACT
1 TTGCTAGAGGTGGTGCTAGAAAGGGAAGTGATACT
64950447 GTTACTTGCC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.30, C:0.08, G:0.35, T:0.27
Consensus pattern (36 bp):
TTGCTAGAGGTGGTGCTAGAAAGGGAAGTGATACTA
Found at i:64952806 original size:40 final size:39
Alignment explanation
Indices: 64952762--64952936 Score: 181
Period size: 40 Copynumber: 4.4 Consensus size: 39
64952752 GATTGTCTTT
* * * *
64952762 GGGAAATAGCCCGGTTATAGTGATTCGCACAATTGCCTTC
1 GGGAATTAGCCCGGTT-TAGTAACTCGCACAAATGCCTTC
*
64952802 GGGAATTAGCCCGGATTTAGTAACTCGCATAAATGCCTTC
1 GGGAATTAGCCCGG-TTTAGTAACTCGCACAAATGCCTTC
* * *
64952842 GGGACTTAACCCGGTTTTGGTAACTCGCACAAATGCCTTC
1 GGGAATTAGCCCGG-TTTAGTAACTCGCACAAATGCCTTC
* * *
64952882 GGGAATT-GACCCGGATTTAGTCACTTAGCACAAAAGCCTTC
1 GGGAATTAG-CCCGG-TTTAGTAAC-TCGCACAAATGCCTTC
*
64952923 GGGACTTAGCCCGG
1 GGGAATTAGCCCGG
64952937 ATATCATTCG
Statistics
Matches: 113, Mismatches: 18, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
40 85 0.75
41 27 0.24
42 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.26
Consensus pattern (39 bp):
GGGAATTAGCCCGGTTTAGTAACTCGCACAAATGCCTTC
Found at i:64952857 original size:80 final size:81
Alignment explanation
Indices: 64952771--64952936 Score: 219
Period size: 80 Copynumber: 2.1 Consensus size: 81
64952761 TGGGAAATAG
* * * * *
64952771 CCCGGTTATAGTGATTCGCACAATTGCCTTCGGGAATT-AGCCCGGATTTAGTAAC-TCGCATAA
1 CCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAATTGA-CCCGGATTTAGTAACTTAGCACAA
*
64952834 ATGCCTTCGGGACTTAA
65 AAGCCTTCGGGACTTAA
* * *
64952851 CCCGGTTTTGGTAACTCGCACAAATGCCTTCGGGAATTGACCCGGATTTAGTCACTTAGCACAAA
1 CCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAATTGACCCGGATTTAGTAACTTAGCACAAA
*
64952916 AGCCTTCGGGACTTAG
66 AGCCTTCGGGACTTAA
64952932 CCCGG
1 CCCGG
64952937 ATATCATTCG
Statistics
Matches: 74, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
80 47 0.64
81 27 0.36
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (81 bp):
CCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAATTGACCCGGATTTAGTAACTTAGCACAAA
AGCCTTCGGGACTTAA
Found at i:64956495 original size:43 final size:43
Alignment explanation
Indices: 64956447--64956529 Score: 121
Period size: 43 Copynumber: 1.9 Consensus size: 43
64956437 GTGATTTATA
* *
64956447 TTGAAATGACAAAGATGAAAAATGAATATGAGATGAGAAAATG
1 TTGAAATGAAAAAGATGAAAAATGAATATGAAATGAGAAAATG
* * *
64956490 TTGAAATTAAAAAGATGAGAAATGATTATGAAATGAGAAA
1 TTGAAATGAAAAAGATGAAAAATGAATATGAAATGAGAAA
64956530 TGAAATATGA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 35 1.00
ACGTcount: A:0.54, C:0.01, G:0.22, T:0.23
Consensus pattern (43 bp):
TTGAAATGAAAAAGATGAAAAATGAATATGAAATGAGAAAATG
Found at i:64956527 original size:18 final size:19
Alignment explanation
Indices: 64956504--64956544 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
64956494 AATTAAAAAG
*
64956504 ATGAGAAATG-ATTATGAA
1 ATGAGAAATGAAATATGAA
64956522 ATGAGAAATGAAATATGAA
1 ATGAGAAATGAAATATGAA
64956541 ATGA
1 ATGA
64956545 TGAATTGAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 10 0.48
19 11 0.52
ACGTcount: A:0.54, C:0.00, G:0.22, T:0.24
Consensus pattern (19 bp):
ATGAGAAATGAAATATGAA
Found at i:64961614 original size:2 final size:2
Alignment explanation
Indices: 64961609--64961636 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
64961599 TGAAATTCGA
64961609 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
64961637 TTTATTTTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:64962172 original size:45 final size:45
Alignment explanation
Indices: 64962108--64962235 Score: 206
Period size: 45 Copynumber: 2.9 Consensus size: 45
64962098 TGTACAGTAC
* *
64962108 TATTCGGGCCTTTAAGCCTAGCAGGCTATAATGCTAGTGAGATAT
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCTGGTGAGATAT
64962153 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCTGGTGAGATAT
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCTGGTGAGATAT
* *
64962198 TATTCGGGCC-TCGAGCCTAGCAGGCGA-AATGCTGGTGA
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCTGGTGA
64962236 ATGAATTTGG
Statistics
Matches: 79, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
43 11 0.14
44 15 0.19
45 53 0.67
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (45 bp):
TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCTGGTGAGATAT
Found at i:64963934 original size:28 final size:28
Alignment explanation
Indices: 64963888--64963956 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
64963878 TTTAAAACCC
*
64963888 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
64963915 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
64963943 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
64963957 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:64965606 original size:20 final size:20
Alignment explanation
Indices: 64965583--64965620 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
64965573 CACATCCAAA
*
64965583 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
64965603 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
64965621 GCGAATAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:64971941 original size:28 final size:28
Alignment explanation
Indices: 64971895--64971963 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
64971885 TTTAAAACCC
*
64971895 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
64971922 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
64971950 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
64971964 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:64973607 original size:20 final size:20
Alignment explanation
Indices: 64973584--64973621 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
64973574 CACATCCAAA
*
64973584 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
64973604 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
64973622 GCGAATAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:64983894 original size:93 final size:93
Alignment explanation
Indices: 64983735--64983905 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
64983725 GCCCATAAGT
* * *
64983735 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATGAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
64983800 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
64983828 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
64983893 CGAGTTCGGATGC
66 CGAGTTCGGATGC
64983906 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:64983902 original size:46 final size:46
Alignment explanation
Indices: 64983727--64983902 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
64983717 TGTAACCCGC
* * * *
64983727 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
* * *
64983773 CCATGAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCAT
* *
64983823 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
64983866 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
64983903 TGCTCAACCA
Statistics
Matches: 110, Mismatches: 13, Indels: 14
0.80 0.09 0.10
Matches are distributed among these distances:
43 6 0.05
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
Found at i:64989442 original size:21 final size:20
Alignment explanation
Indices: 64989408--64989475 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 20
64989398 ACATTCTTGT
64989408 AAAGAGAAAA-CAAAGAAAAGA
1 AAAGA-AAAAGCAAA-AAAAGA
*
64989429 AAAGAAAAAGCAAAAGAAGAA
1 AAAGAAAAAGCAAAAAAAG-A
* *
64989450 AAAGAAAACGAAATAAAAAGA
1 AAAGAAAAAGCAA-AAAAAGA
64989471 AAAGA
1 AAAGA
64989476 GAGGCAAGAG
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
20 8 0.20
21 27 0.68
22 5 0.12
ACGTcount: A:0.76, C:0.04, G:0.18, T:0.01
Consensus pattern (20 bp):
AAAGAAAAAGCAAAAAAAGA
Found at i:64989443 original size:6 final size:5
Alignment explanation
Indices: 64989419--64989475 Score: 55
Period size: 5 Copynumber: 11.0 Consensus size: 5
64989409 AAGAGAAAAC
*
64989419 AAAGA AAAGA AAAGAA AAAGCA AAAGA AGA-A AAAGA AAACGA AATA-A
1 AAAGA AAAGA AAAG-A AAAG-A AAAGA AAAGA AAAGA AAA-GA AA-AGA
64989466 AAAGA AAAGA
1 AAAGA AAAGA
64989476 GAGGCAAGAG
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
4 4 0.09
5 25 0.57
6 14 0.32
7 1 0.02
ACGTcount: A:0.77, C:0.04, G:0.18, T:0.02
Consensus pattern (5 bp):
AAAGA
Found at i:64989450 original size:15 final size:14
Alignment explanation
Indices: 64989419--64989475 Score: 60
Period size: 16 Copynumber: 3.7 Consensus size: 14
64989409 AAGAGAAAAC
64989419 AAAGAAAAGAAAAGAA
1 AAAGAAAAG--AAGAA
64989435 AAAGCAAAAGAAGAA
1 AAAG-AAAAGAAGAA
*
64989450 AAAGAAAACGAAATAA
1 AAAGAAAA-G-AAGAA
64989466 AAAGAAAAGA
1 AAAGAAAAGA
64989476 GAGGCAAGAG
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
14 5 0.14
15 11 0.30
16 16 0.43
17 5 0.14
ACGTcount: A:0.77, C:0.04, G:0.18, T:0.02
Consensus pattern (14 bp):
AAAGAAAAGAAGAA
Found at i:64989597 original size:30 final size:29
Alignment explanation
Indices: 64989555--64989636 Score: 78
Period size: 30 Copynumber: 2.8 Consensus size: 29
64989545 CTTTGAAAAC
*
64989555 AAAAAG-GAAATGAAAAAGAAAATGAGATTG
1 AAAAAGAG-AATGAAAAA-AAAATGAGAGTG
***
64989585 AAAAAGAGAATGAAAAATAGTTTGAGAGTG
1 AAAAAGAGAATGAAAAA-AAAATGAGAGTG
64989615 AAAAAGA-AGATGAAAAAAAAAT
1 AAAAAGAGA-ATGAAAAAAAAAT
64989637 TGAAACAAAA
Statistics
Matches: 42, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
29 3 0.07
30 38 0.90
31 1 0.02
ACGTcount: A:0.63, C:0.00, G:0.22, T:0.15
Consensus pattern (29 bp):
AAAAAGAGAATGAAAAAAAAATGAGAGTG
Found at i:64991904 original size:30 final size:30
Alignment explanation
Indices: 64991870--64991957 Score: 88
Period size: 30 Copynumber: 2.9 Consensus size: 30
64991860 CTAGCTTATA
* *
64991870 TTCAGCTCACGAGCTAAACCTTAGCTCAAC
1 TTCAGCTTAAGAGCTAAACCTTAGCTCAAC
* * *
64991900 TTCAGCTTAGGAG-TATAATCTCAGCTCAAC
1 TTCAGCTTAAGAGCTA-AACCTTAGCTCAAC
* * *
64991930 TTTAGCTTAAGGGCTAAAGCTTAGCTCA
1 TTCAGCTTAAGAGCTAAACCTTAGCTCA
64991958 TTTTAGCTCA
Statistics
Matches: 47, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
29 2 0.04
30 43 0.91
31 2 0.04
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (30 bp):
TTCAGCTTAAGAGCTAAACCTTAGCTCAAC
Found at i:64994900 original size:40 final size:40
Alignment explanation
Indices: 64994856--64995052 Score: 315
Period size: 40 Copynumber: 4.9 Consensus size: 40
64994846 GGATATAGCT
* * *
64994856 ACTCGCTCAAATGCCTTCGGGACATAGCCCGG-TTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTA
* * *
64994896 ACTCGCACCAATGCCTTCGGGACTTAGCCCGGATTTGGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
64994936 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
*
64994976 ACTCGCACAAATGCCTTCGGGACTTAGCTCGGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
64995016 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTA
64995053 TCATCCGAAT
Statistics
Matches: 147, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
40 145 0.99
41 2 0.01
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
Found at i:65004029 original size:40 final size:40
Alignment explanation
Indices: 65003962--65004220 Score: 400
Period size: 40 Copynumber: 6.5 Consensus size: 40
65003952 CATTTGAATG
65003962 ATATCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
65004001 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
*
65004041 ATATCCGGGCTAAGACCCGAAGGCATTTGTGTGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
*
65004081 ATATCCGGGCTAAGA-CCGAAGGCATTTGTGTGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
*
65004120 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
* * * * * *
65004160 ATGTCCGGGTTAAGACCCGAAGGCAATTGGGCGTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
65004200 ATATCC-GGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGA-CCCGAAG
65004221 AAACTTGGGT
Statistics
Matches: 205, Mismatches: 12, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
38 1 0.00
39 65 0.32
40 139 0.68
ACGTcount: A:0.23, C:0.20, G:0.31, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
Found at i:65004109 original size:79 final size:80
Alignment explanation
Indices: 65003962--65004220 Score: 400
Period size: 79 Copynumber: 3.3 Consensus size: 80
65003952 CATTTGAATG
65003962 ATATCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
65004026 TTTGTGCGAGTTGTT
66 TTTGTGCGAGTTGTT
*
65004041 ATATCCGGGCTAAGACCCGAAGGCATTTGTGTGAGTTGTTATATCCGGGCTAAGA-CCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
*
65004105 TTTGTGTGAGTTGTT
66 TTTGTGCGAGTTGTT
* * *
65004120 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATGTCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
* * * *
65004185 ATTGGGCGTGTGGTT
66 TTTGTGCGAGTTGTT
65004200 ATATCC-GGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGA-CCCGAAG
65004221 AAACTTGGGT
Statistics
Matches: 166, Mismatches: 11, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
78 1 0.01
79 101 0.61
80 64 0.39
ACGTcount: A:0.23, C:0.20, G:0.31, T:0.27
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
TTTGTGCGAGTTGTT
Found at i:65004174 original size:119 final size:119
Alignment explanation
Indices: 65003962--65004211 Score: 403
Period size: 119 Copynumber: 2.1 Consensus size: 119
65003952 CATTTGAATG
*
65003962 ATATCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCAT
1 ATATCCGGGCTAAGACCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCAT
* * * * *
65004027 TTGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCATTTGTGTGAGTTGTT
66 TTGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCAATTGGGCGAGTGGTT
*
65004081 ATATCCGGGCTAAGACCGAAGGCATTTGTGTGAGTTGTTATATCCGGGCTAAGACCCGAAGGCAT
1 ATATCCGGGCTAAGACCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCAT
* * *
65004146 TTGTGCGAGTTGCTATGTCCGGGTTAAGACCCGAAGGCAATTGGGCGTGTGGTT
66 TTGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCAATTGGGCGAGTGGTT
65004200 ATATCC-GGCTAA
1 ATATCCGGGCTAA
65004212 ATCCCGAAGA
Statistics
Matches: 121, Mismatches: 10, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
118 6 0.05
119 115 0.95
ACGTcount: A:0.22, C:0.19, G:0.31, T:0.28
Consensus pattern (119 bp):
ATATCCGGGCTAAGACCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCAT
TTGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCAATTGGGCGAGTGGTT
Found at i:65006234 original size:40 final size:40
Alignment explanation
Indices: 65006190--65006386 Score: 306
Period size: 40 Copynumber: 4.9 Consensus size: 40
65006180 GGATATAGCT
* * * *
65006190 ACTCGCTCAAATGCCTTCGAGACATAGCCCGG-TTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTA
* * * *
65006230 ACTCGCACCAATGCCTTCGGGATTTAGCCCGGATTTGGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
65006270 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
65006310 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
65006350 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTA
65006387 TCATCTGAAT
Statistics
Matches: 146, Mismatches: 10, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
40 144 0.99
41 2 0.01
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
Found at i:65012265 original size:93 final size:93
Alignment explanation
Indices: 65012153--65012324 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
65012143 GCCCATAAGT
* *
65012153 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGAACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCAA
65012218 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
65012246 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCAA
65012311 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
65012325 CAAACATCCT
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:65012320 original size:46 final size:46
Alignment explanation
Indices: 65012145--65012320 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
65012135 TGTAACCCGC
* * *
65012145 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
65012191 CCATAAGTGAACTCGAACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
65012241 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
65012284 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
65012321 TGCCCAAACA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 28 0.25
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:65022190 original size:19 final size:19
Alignment explanation
Indices: 65022166--65022209 Score: 88
Period size: 19 Copynumber: 2.3 Consensus size: 19
65022156 AAGCTGAAGC
65022166 TGAGCTAAGGTTTAGCTCG
1 TGAGCTAAGGTTTAGCTCG
65022185 TGAGCTAAGGTTTAGCTCG
1 TGAGCTAAGGTTTAGCTCG
65022204 TGAGCT
1 TGAGCT
65022210 GAATATGAGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.20, C:0.16, G:0.32, T:0.32
Consensus pattern (19 bp):
TGAGCTAAGGTTTAGCTCG
Found at i:65024470 original size:40 final size:40
Alignment explanation
Indices: 65024425--65024592 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
65024415 CGGAATATAA
65024425 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
65024465 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
65024505 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
65024545 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
65024585 CCGGATAT
1 CCGGATAT
65024593 CATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:65030709 original size:21 final size:21
Alignment explanation
Indices: 65030684--65030728 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
65030674 TCATGCAGAG
65030684 TCAACCAATCCATGCCCAAGA
1 TCAACCAATCCATGCCCAAGA
65030705 TCAACCAATCCATGCCCAAGA
1 TCAACCAATCCATGCCCAAGA
65030726 TCA
1 TCA
65030729 CATCAAATTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.38, C:0.38, G:0.09, T:0.16
Consensus pattern (21 bp):
TCAACCAATCCATGCCCAAGA
Found at i:65034935 original size:28 final size:28
Alignment explanation
Indices: 65034866--65034966 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
65034856 GACAAGATTG
* * * *
65034866 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
65034896 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
65034924 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
65034953 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
65034967 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:65042860 original size:28 final size:28
Alignment explanation
Indices: 65042791--65042891 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
65042781 GACAAGATTG
* * * *
65042791 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
65042821 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
65042849 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
65042878 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
65042892 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:65045934 original size:33 final size:33
Alignment explanation
Indices: 65045895--65045958 Score: 128
Period size: 33 Copynumber: 1.9 Consensus size: 33
65045885 CAAGCAAAGA
65045895 TAGATGGCTGAATACTTCAAGCTATTCCCATGG
1 TAGATGGCTGAATACTTCAAGCTATTCCCATGG
65045928 TAGATGGCTGAATACTTCAAGCTATTCCCAT
1 TAGATGGCTGAATACTTCAAGCTATTCCCAT
65045959 TGATGTGATC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (33 bp):
TAGATGGCTGAATACTTCAAGCTATTCCCATGG
Found at i:65047307 original size:13 final size:12
Alignment explanation
Indices: 65047276--65047307 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
65047266 TTGAGAGAAC
65047276 TTGAAAAAGCCT
1 TTGAAAAAGCCT
65047288 TTGAAAAAGCCT
1 TTGAAAAAGCCT
65047300 TTGAAAAA
1 TTGAAAAA
65047308 TGAAAAAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.47, C:0.12, G:0.16, T:0.25
Consensus pattern (12 bp):
TTGAAAAAGCCT
Found at i:65047352 original size:24 final size:26
Alignment explanation
Indices: 65047299--65047372 Score: 66
Period size: 24 Copynumber: 3.0 Consensus size: 26
65047289 TGAAAAAGCC
*
65047299 TTTGAAAAATGAAAAAGAAAATGAGA
1 TTTGAAAAATGAAAAAGAAAATGAAA
* *
65047325 -TTGAAAAA-GAGAACGAAAA-GAAA
1 TTTGAAAAATGAAAAAGAAAATGAAA
* * *
65047348 TTTG-AGAGTGAAAAAGAAGATGAAA
1 TTTGAAAAATGAAAAAGAAAATGAAA
65047373 AAGAAATCGA
Statistics
Matches: 37, Mismatches: 8, Indels: 7
0.71 0.15 0.13
Matches are distributed among these distances:
23 5 0.14
24 20 0.54
25 12 0.32
ACGTcount: A:0.59, C:0.01, G:0.23, T:0.16
Consensus pattern (26 bp):
TTTGAAAAATGAAAAAGAAAATGAAA
Found at i:65047373 original size:30 final size:31
Alignment explanation
Indices: 65047309--65047379 Score: 85
Period size: 30 Copynumber: 2.4 Consensus size: 31
65047299 TTTGAAAAAT
*
65047309 GAAAAAGAAA-ATGAGATTGAAAAAGAGAAC
1 GAAAAAGAAATATGAGAGTGAAAAAGAGAAC
* *
65047339 G-AAAAGAAATTTGAGAGTGAAAAAGA-AGAT
1 GAAAAAGAAATATGAGAGTGAAAAAGAGA-AC
65047369 GAAAAAGAAAT
1 GAAAAAGAAAT
65047380 CGAAACAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
29 9 0.26
30 17 0.49
31 9 0.26
ACGTcount: A:0.62, C:0.01, G:0.24, T:0.13
Consensus pattern (31 bp):
GAAAAAGAAATATGAGAGTGAAAAAGAGAAC
Found at i:65049596 original size:20 final size:21
Alignment explanation
Indices: 65049554--65049598 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 21
65049544 AGCTCCGTCC
*
65049554 AGCTCAAATCCAGCTTATTTG
1 AGCTCAAATCCAGCTTATCTG
* *
65049575 AGCTC-AATCCATCTTGTCTG
1 AGCTCAAATCCAGCTTATCTG
65049595 AGCT
1 AGCT
65049599 AAACCGGGCT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 16 0.76
21 5 0.24
ACGTcount: A:0.24, C:0.27, G:0.16, T:0.33
Consensus pattern (21 bp):
AGCTCAAATCCAGCTTATCTG
Found at i:65049651 original size:30 final size:31
Alignment explanation
Indices: 65049615--65049711 Score: 101
Period size: 30 Copynumber: 3.2 Consensus size: 31
65049605 GGCTCACTCC
*
65049615 TAGCTC-ACTTTCAACTCACGAGCTAAACCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
* * * * *
65049645 TAGCTCAAC-TTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
* *
65049675 CAGCTCAACTTT-AGCTCACGAGCTAAAGCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
65049705 TAGCTCA
1 TAGCTCA
65049712 TTTTAGTTTA
Statistics
Matches: 51, Mismatches: 14, Indels: 4
0.74 0.20 0.06
Matches are distributed among these distances:
30 47 0.92
31 4 0.08
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.28
Consensus pattern (31 bp):
TAGCTCAACTTTCAGCTCACGAGCTAAACCT
Found at i:65051958 original size:93 final size:93
Alignment explanation
Indices: 65051846--65052016 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
65051836 GCCCATAAGT
* *
65051846 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
65051911 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
65051939 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
65052004 CGAGTTCGGATGC
66 CGAGTTCGGATGC
65052017 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:65052013 original size:46 final size:46
Alignment explanation
Indices: 65051838--65052013 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
65051828 TGTAACCCGC
* * *
65051838 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
65051884 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
65051934 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
65051977 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
65052014 TGCTCAACCA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 64 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:65054434 original size:30 final size:30
Alignment explanation
Indices: 65054390--65054478 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
65054380 CAAAGATAAC
65054390 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
65054419 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
65054449 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
65054479 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:65054438 original size:15 final size:15
Alignment explanation
Indices: 65054390--65054469 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
65054380 CAAAGATAAC
*
65054390 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
65054404 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
65054419 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
65054434 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
65054449 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
65054464 AAGAAA
1 AAGAAA
65054470 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:65054478 original size:15 final size:15
Alignment explanation
Indices: 65054401--65054478 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
65054391 AGAAAACCGA
65054401 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
65054416 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
65054430 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
65054445 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
65054461 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
65054476 ATA
1 ATA
65054479 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:65057536 original size:93 final size:93
Alignment explanation
Indices: 65057424--65057595 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
65057414 GCCCATAAGT
* *
65057424 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
65057489 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
65057517 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
65057582 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
65057596 CAAATCCTAG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:65057591 original size:46 final size:46
Alignment explanation
Indices: 65057416--65057591 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
65057406 TGTAACCCGC
* * *
65057416 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
65057462 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
65057512 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
65057555 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
65057592 TGCCCAAATC
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:65064353 original size:68 final size:70
Alignment explanation
Indices: 65064281--65064478 Score: 285
Period size: 71 Copynumber: 2.8 Consensus size: 70
65064271 ACACCCTGTA
* * * *
65064281 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
65064343 ATAAAT
65 ATAAAT
*
65064349 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
*
65064414 GTAAAT
65 ATAAAT
*
65064420 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
65064479 AGACAAATCG
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.03
70 1 0.01
71 92 0.77
ACGTcount: A:0.33, C:0.18, G:0.29, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:65064404 original size:71 final size:71
Alignment explanation
Indices: 65064315--65064478 Score: 319
Period size: 71 Copynumber: 2.3 Consensus size: 71
65064305 GAGATGTATC
65064315 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
65064380 AGGACA
66 AGGACA
*
65064386 CCATGTAGACAAGAGAGCTACGTGAAAGGTAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
65064451 AGGACA
66 AGGACA
65064457 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
65064479 AGACAAATCG
Statistics
Matches: 92, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 92 1.00
ACGTcount: A:0.35, C:0.18, G:0.29, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:65065878 original size:40 final size:40
Alignment explanation
Indices: 65065823--65065985 Score: 186
Period size: 40 Copynumber: 4.1 Consensus size: 40
65065813 TGAATGATAC
* * *
65065823 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
*
65065863 CCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCAATT-GTGCTAG-TGATTATAT
* * * * *
65065903 CCGGGTTAAGACCCGAAGGCAATTGTGCAAGTTACTAAAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
* * *
65065943 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
65065983 CCG
1 CCG
65065986 ATTAAATCCC
Statistics
Matches: 104, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
39 3 0.03
40 96 0.92
41 5 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
Found at i:65067684 original size:6 final size:6
Alignment explanation
Indices: 65067646--65067834 Score: 138
Period size: 6 Copynumber: 30.7 Consensus size: 6
65067636 AAGAAACATT
* * *
65067646 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAAA ATCAGA ATCAGA ATCAG-
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
* * * *
65067693 GTGACAGA ATCAAA ATCAAA ATCAGA ATCAGA ATTAGGTA A-CAGA ATCAGA
1 AT--CAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA
* * *
65067744 ATCAGT ATCAGGTA A-CAGA ATCAGA ATCAGA ACCAGA ATCAGA ATTAGGTA
1 ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A
*
65067795 A-CAGA ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAGA ATCA
1 ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCA
65067835 AAATGTGAAT
Statistics
Matches: 146, Mismatches: 20, Indels: 34
0.73 0.10 0.17
Matches are distributed among these distances:
5 10 0.07
6 115 0.79
7 14 0.10
8 7 0.05
ACGTcount: A:0.49, C:0.15, G:0.17, T:0.18
Consensus pattern (6 bp):
ATCAGA
Found at i:65067754 original size:37 final size:37
Alignment explanation
Indices: 65067667--65067747 Score: 135
Period size: 37 Copynumber: 2.2 Consensus size: 37
65067657 AATCAAAATG
*
65067667 AGAATCAAAATCAGAATCAGAATCAGGTGACAGAATC
1 AGAATCAAAATCAGAATCAGAATCAGGTAACAGAATC
* *
65067704 AAAATCAAAATCAGAATCAGAATTAGGTAACAGAATC
1 AGAATCAAAATCAGAATCAGAATCAGGTAACAGAATC
65067741 AGAATCA
1 AGAATCA
65067748 GTATCAGGTA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.52, C:0.15, G:0.16, T:0.17
Consensus pattern (37 bp):
AGAATCAAAATCAGAATCAGAATCAGGTAACAGAATC
Found at i:65067756 original size:62 final size:62
Alignment explanation
Indices: 65067675--65067838 Score: 283
Period size: 62 Copynumber: 2.6 Consensus size: 62
65067665 TGAGAATCAA
* * *
65067675 AATCAGAATCAGAATCAGGTGACAGAATCAAAATCAAAATCAGAATCAGAATTAGGTAACAG
1 AATCAGAATCAGTATCAGGTAACAGAATCAGAATCAAAATCAGAATCAGAATTAGGTAACAG
* *
65067737 AATCAGAATCAGTATCAGGTAACAGAATCAGAATCAGAACCAGAATCAGAATTAGGTAACAG
1 AATCAGAATCAGTATCAGGTAACAGAATCAGAATCAAAATCAGAATCAGAATTAGGTAACAG
65067799 AATCAGAATCAGTATCAGGTAACAGAATCAGAATCAAAAT
1 AATCAGAATCAGTATCAGGTAACAGAATCAGAATCAAAAT
65067839 GTGAATGCAA
Statistics
Matches: 95, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
62 95 1.00
ACGTcount: A:0.49, C:0.15, G:0.18, T:0.18
Consensus pattern (62 bp):
AATCAGAATCAGTATCAGGTAACAGAATCAGAATCAAAATCAGAATCAGAATTAGGTAACAG
Found at i:65067775 original size:37 final size:37
Alignment explanation
Indices: 65067734--65067829 Score: 131
Period size: 37 Copynumber: 2.6 Consensus size: 37
65067724 AATTAGGTAA
*
65067734 CAGAATCAGAATCAGTATCAGGTAACAGAATCAGAAT
1 CAGAATCAGAATCAGAATCAGGTAACAGAATCAGAAT
* *
65067771 CAGAACCAGAATCAGAATTAGGTAACAGAATCAGAAT
1 CAGAATCAGAATCAGAATCAGGTAACAGAATCAGAAT
*
65067808 CAGTATCAGGTAA-CAGAATCAG
1 CAGAATCA-G-AATCAGAATCAG
65067830 AATCAAAATG
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
37 40 0.78
38 9 0.18
39 2 0.04
ACGTcount: A:0.46, C:0.17, G:0.20, T:0.18
Consensus pattern (37 bp):
CAGAATCAGAATCAGAATCAGGTAACAGAATCAGAAT
Found at i:65067805 original size:25 final size:25
Alignment explanation
Indices: 65067675--65067834 Score: 129
Period size: 25 Copynumber: 6.4 Consensus size: 25
65067665 TGAGAATCAA
*
65067675 AATCAGAATCAGAATCAGGTGACAG
1 AATCAGAATCAGAATCAGGTAACAG
* *
65067700 AATCAAAATCAAAATCA-G-AATCAG
1 AATCAGAATCAGAATCAGGTAA-CAG
*
65067724 AATTAGGTAA-CAGAATCA-G-AATCAG
1 AATCA-G-AATCAGAATCAGGTAA-CAG
*
65067749 TATCAGGTAA-CAGAATCA-G-AATCAG
1 AATCA-G-AATCAGAATCAGGTAA-CAG
* *
65067774 AACCAGAATCAGAATTAGGTAACAG
1 AATCAGAATCAGAATCAGGTAACAG
*
65067799 AATCAGAATCAGTATCAGGTAACAG
1 AATCAGAATCAGAATCAGGTAACAG
65067824 AATCAGAATCA
1 AATCAGAATCA
65067835 AAATGTGAAT
Statistics
Matches: 115, Mismatches: 14, Indels: 12
0.82 0.10 0.09
Matches are distributed among these distances:
23 3 0.03
24 16 0.14
25 92 0.80
26 4 0.03
ACGTcount: A:0.48, C:0.16, G:0.18, T:0.18
Consensus pattern (25 bp):
AATCAGAATCAGAATCAGGTAACAG
Found at i:65067829 original size:19 final size:19
Alignment explanation
Indices: 65067678--65067810 Score: 121
Period size: 19 Copynumber: 6.8 Consensus size: 19
65067668 GAATCAAAAT
*
65067678 CAGAATCAGAATCAGGTGA
1 CAGAATCAGAATCAGGTAA
* *
65067697 CAGAATCAAAATCA--AAA
1 CAGAATCAGAATCAGGTAA
*
65067714 TCAGAATCAGAATTAGGTAA
1 -CAGAATCAGAATCAGGTAA
65067734 CAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAG----A--ATCAGGTAA
65067759 CAGAATCAGAATCA-G-AA
1 CAGAATCAGAATCAGGTAA
*
65067776 CCAGAATCAGAATTAGGTAA
1 -CAGAATCAGAATCAGGTAA
65067796 CAGAATCAGAATCAG
1 CAGAATCAGAATCAG
65067811 TATCAGGTAA
Statistics
Matches: 93, Mismatches: 9, Indels: 24
0.74 0.07 0.19
Matches are distributed among these distances:
17 3 0.03
18 26 0.28
19 41 0.44
20 4 0.04
21 1 0.01
23 1 0.01
25 17 0.18
ACGTcount: A:0.48, C:0.16, G:0.19, T:0.17
Consensus pattern (19 bp):
CAGAATCAGAATCAGGTAA
Found at i:65068112 original size:27 final size:26
Alignment explanation
Indices: 65068064--65068115 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
65068054 GCAAGGCTAC
*
65068064 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
65068090 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
65068116 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:65068417 original size:27 final size:27
Alignment explanation
Indices: 65068361--65068849 Score: 556
Period size: 27 Copynumber: 18.2 Consensus size: 27
65068351 GGGCAAAATG
* * * * *
65068361 GTAATTTTACCCCACA-AGGTATCTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
65068387 GTAATTCCACCCTACAGGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCA
65068414 GTAATTCTACCCTACAGGGGTATTTCTA
1 GTAATTCTACCCTACAGGGGTATTTC-A
*
65068442 -TAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
*
65068468 GTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
* * **
65068495 GTAATTCTACCTTACAAGGGTATTTTG
1 GTAATTCTACCCTACAGGGGTATTTCA
*
65068522 GTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
65068549 GTAATTTTACCCTACAGGGGTATTAT-G
1 GTAATTCTACCCTACAGGGGTATT-TCA
* *
65068576 GTAATTCTACCTTACAAGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
65068603 GTAATTCTACACTATAGGGGTA-TTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* * *
65068629 GTAATTCTACCTTACAAGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
65068656 GTAATTCTACCCTACAAGGGTATTT-G
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
65068682 GTAATTCTACCTTACAGGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCA
* * * *
65068709 GTAATTGTACCTTATAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
*
65068736 GTAATTCTACCTTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* * *
65068763 GTAATTCTACTCTATAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
* **
65068790 GTAATTTTACTTTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* * *
65068817 GTAATTCTACCTTACGGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
65068844 GTAATT
1 GTAATT
65068850 TTACAAATCG
Statistics
Matches: 402, Mismatches: 54, Indels: 13
0.86 0.12 0.03
Matches are distributed among these distances:
26 59 0.15
27 341 0.85
28 2 0.00
ACGTcount: A:0.25, C:0.18, G:0.20, T:0.37
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCA
Found at i:65068453 original size:54 final size:54
Alignment explanation
Indices: 65068378--65068849 Score: 619
Period size: 54 Copynumber: 8.8 Consensus size: 54
65068368 TACCCCACAA
* * * ** *
65068378 GGTATCTCGGTAATTCCACCCTACAGGGGTATTTTAGTAATTCTACCCTACAGG
1 GGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCTTACAGG
*
65068432 GGTATTTCTA-TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGG
1 GGTATTTC-AGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCTTACAGG
* * * * *
65068486 GGTATTTCGGTAATTCTACCTTACAAGGGTATTTTGGTAATTCTACCCTACAGG
1 GGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCTTACAGG
* * *
65068540 GGTATTTCGGTAATTTTACCCTACAGGGGTATTAT-GGTAATTCTACCTTACAAG
1 GGTATTTCAGTAATTCTACCCTACAGGGGTATT-TCGGTAATTCTACCTTACAGG
* * * *
65068594 GGTATTTCAGTAATTCTACACTATAGGGGTA-TTCAGTAATTCTACCTTACAAG
1 GGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCTTACAGG
* *
65068647 GGTATTTTAGTAATTCTACCCTACAAGGGTATTT-GGTAATTCTACCTTACAGG
1 GGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCTTACAGG
* * * *
65068700 GGTATTTTAGTAATTGTACCTTATAGGGGTATTTCGGTAATTCTACCTTACAGG
1 GGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCTTACAGG
* * * *
65068754 GGTATTTCAGTAATTCTACTCTATAGGGGTATTTCGGTAATTTTACTTTACAGG
1 GGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCTTACAGG
* *
65068808 GGTATTTCAGTAATTCTACCTTACGGGGGTATTTCGGTAATT
1 GGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTAATT
65068850 TTACAAATCG
Statistics
Matches: 373, Mismatches: 39, Indels: 12
0.88 0.09 0.03
Matches are distributed among these distances:
52 1 0.00
53 93 0.25
54 278 0.75
55 1 0.00
ACGTcount: A:0.25, C:0.17, G:0.20, T:0.38
Consensus pattern (54 bp):
GGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCTTACAGG
Found at i:65068868 original size:54 final size:55
Alignment explanation
Indices: 65068403--65068929 Score: 405
Period size: 54 Copynumber: 9.8 Consensus size: 55
65068393 CCACCCTACA
** * ** * *
65068403 GGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTCTA-TAATTCTACC-CTACA
1 GGGGTATTTCGGTAATTTTACATTACAGGGGTATTTC-AGTAATTCTACCTATACG
* ** * *
65068457 GGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCT-TACA
1 GGGGTATTTCGGTAATTTTACATTACAGGGGTATTTCAGTAATTCTACCTATACG
* * * ** * * * *
65068511 AGGGTATTTTGGTAATTCTACCCTACAGGGGTATTTCGGTAATTTTACC-CTACA
1 GGGGTATTTCGGTAATTTTACATTACAGGGGTATTTCAGTAATTCTACCTATACG
* * *
65068565 GGGGTATTAT-GGTAATTCTACCTTACAAGGGTATTTCAGTAATTCTACACTATA--
1 GGGGTATT-TCGGTAATTTTACATTACAGGGGTATTTCAGTAATTCTAC-CTATACG
* * * * * * *
65068619 GGGGTA-TTCAGTAATTCTACCTTACAAGGGTATTTTAGTAATTCTACC-CTACA
1 GGGGTATTTCGGTAATTTTACATTACAGGGGTATTTCAGTAATTCTACCTATACG
* * * * *
65068672 AGGGTATTT-GGTAATTCTACCTTACAGGGGTATTTTAGTAATTGTACCTTATA--
1 GGGGTATTTCGGTAATTTTACATTACAGGGGTATTTCAGTAATTCTACC-TATACG
* *
65068725 GGGGTATTTCGGTAATTCTACCTTACAGGGGTATTTCAGTAATTCTACTCTATA--
1 GGGGTATTTCGGTAATTTTACATTACAGGGGTATTTCAGTAATTCTAC-CTATACG
*
65068779 GGGGTATTTCGGTAATTTTACTTTACAGGGGTATTTCAGTAATTCTACCT-TACG
1 GGGGTATTTCGGTAATTTTACATTACAGGGGTATTTCAGTAATTCTACCTATACG
* * ** * *
65068833 GGGGTATTTCGGTAATTTTACA-AATC-GAGGATATTTGGGTAATTTTA--TAAACCG
1 GGGGTATTTCGGTAATTTTACATTA-CAG-GGGTATTTCAGTAATTCTACCTATA-CG
65068887 GGGGTACTTT-GGTAATTTTACA--ACTAGGGGTATTTCAGTAATT
1 GGGGTA-TTTCGGTAATTTTACATTAC-AGGGGTATTTCAGTAATT
65068930 TGGTAAACTA
Statistics
Matches: 415, Mismatches: 35, Indels: 47
0.84 0.07 0.09
Matches are distributed among these distances:
51 2 0.00
52 6 0.01
53 105 0.25
54 292 0.70
55 8 0.02
56 2 0.00
ACGTcount: A:0.26, C:0.16, G:0.21, T:0.38
Consensus pattern (55 bp):
GGGGTATTTCGGTAATTTTACATTACAGGGGTATTTCAGTAATTCTACCTATACG
Found at i:65068891 original size:81 final size:81
Alignment explanation
Indices: 65068400--65068929 Score: 357
Period size: 81 Copynumber: 6.6 Consensus size: 81
65068390 ATTCCACCCT
* * *** * *
65068400 ACAGGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTCTA-TAATTCTACCCTACAGGGGTAT
1 ACAGGGGTATTTCAGTAATTCTACCTTACAGGGGTATTTC-AGTAATTCTACTAAATAGGGATAT
* ***
65068464 TTCGGTAATTCTACCCT
65 TTCGGTAATTTTACTAA
* * ** *** * *
65068481 ACAGGGGTATTTCGGTAATTCTACCTTACAAGGGTATTTTGGTAATTCTACCCTACAGGGGTATT
1 ACAGGGGTATTTCAGTAATTCTACCTTACAGGGGTATTTCAGTAATTCTACTAAATAGGGATATT
***
65068546 TCGGTAATTTTACCCT
66 TCGGTAATTTTACTAA
* * * *
65068562 ACAGGGGTATTAT-GGTAATTCTACCTTACAAGGGTATTTCAGTAATTCTAC-ACTATAGGGGTA
1 ACAGGGGTATT-TCAGTAATTCTACCTTACAGGGGTATTTCAGTAATTCTACTA-AATAGGGATA
* * *
65068625 -TTCAGTAATTCTACCT-T
64 TTTCGGTAATTTTA-CTAA
* * * * * * * *
65068642 ACAAGGGTATTTTAGTAATTCTACCCTACAAGGGTATTT-GGTAATTCTACCT-TACAGGGGTAT
1 ACAGGGGTATTTCAGTAATTCTACCTTACAGGGGTATTTCAGTAATTCTA-CTAAATAGGGATAT
** * *
65068705 TTTAGTAATTGTACCT-T
65 TTCGGTAATTTTA-CTAA
* * ** *
65068722 ATAGGGGTATTTCGGTAATTCTACCTTACAGGGGTATTTCAGTAATTCTACTCTATAGGGGTATT
1 ACAGGGGTATTTCAGTAATTCTACCTTACAGGGGTATTTCAGTAATTCTACTAAATAGGGATATT
**
65068787 TCGGTAATTTTACTTT
66 TCGGTAATTTTACTAA
* * * *
65068803 ACAGGGGTATTTCAGTAATTCTACCTTACGGGGGTATTTCGGTAATTTTAC-AAATCGAGGATAT
1 ACAGGGGTATTTCAGTAATTCTACCTTACAGGGGTATTTCAGTAATTCTACTAAATAG-GGATAT
*
65068867 TTGGGTAATTTTA-TAA
65 TTCGGTAATTTTACTAA
* * * *
65068883 ACCGGGGGTACTTT-GGTAATTTTA-C-AACTAGGGGTATTTCAGTAATT
1 A-CAGGGGTA-TTTCAGTAATTCTACCTTAC-AGGGGTATTTCAGTAATT
65068930 TGGTAAACTA
Statistics
Matches: 384, Mismatches: 50, Indels: 31
0.83 0.11 0.07
Matches are distributed among these distances:
79 21 0.05
80 121 0.32
81 238 0.62
82 4 0.01
ACGTcount: A:0.26, C:0.16, G:0.21, T:0.38
Consensus pattern (81 bp):
ACAGGGGTATTTCAGTAATTCTACCTTACAGGGGTATTTCAGTAATTCTACTAAATAGGGATATT
TCGGTAATTTTACTAA
Found at i:65068916 original size:27 final size:27
Alignment explanation
Indices: 65068779--65068930 Score: 109
Period size: 27 Copynumber: 5.7 Consensus size: 27
65068769 CTACTCTATA
** *
65068779 GGGGTATTTCGGTAATTTTAC-TTTACA
1 GGGGTATTTCGGTAATTTTACAACT-CG
* *
65068806 GGGGTATTTCAGTAATTCTAC--CTTACG
1 GGGGTATTTCGGTAATTTTACAAC-T-CG
*
65068833 GGGGTATTTCGGTAATTTTACAAATCG
1 GGGGTATTTCGGTAATTTTACAACTCG
* * * *
65068860 AGGATATTTGGGTAATTTTATAAAC-CG
1 GGGGTATTTCGGTAATTTTA-CAACTCG
*
65068887 GGGGTACTTT-GGTAATTTTACAACT-A
1 GGGGTA-TTTCGGTAATTTTACAACTCG
*
65068913 GGGGTATTTCAGTAATTT
1 GGGGTATTTCGGTAATTT
65068931 GGTAAACTAA
Statistics
Matches: 101, Mismatches: 17, Indels: 15
0.76 0.13 0.11
Matches are distributed among these distances:
25 3 0.03
26 16 0.16
27 76 0.75
28 6 0.06
ACGTcount: A:0.26, C:0.11, G:0.24, T:0.39
Consensus pattern (27 bp):
GGGGTATTTCGGTAATTTTACAACTCG
Found at i:65071991 original size:27 final size:28
Alignment explanation
Indices: 65071934--65072003 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
65071924 AAACTTGTAC
*
65071934 AGCACTAAGTGTGCGAGTTTGATCATGT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
65071962 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
65071989 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
65072004 GACTCACTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 23 0.57
28 17 0.43
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:65072014 original size:27 final size:27
Alignment explanation
Indices: 65071934--65072015 Score: 69
Period size: 27 Copynumber: 3.0 Consensus size: 27
65071924 AAACTTGTAC
* * *
65071934 AGCACTAAGTGTGCGAGTTTGA-TCATGT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
65071962 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
65071989 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
65072016 GCTTTTGAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
26 1 0.02
27 29 0.60
28 18 0.38
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:65076381 original size:27 final size:28
Alignment explanation
Indices: 65076324--65076393 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
65076314 AAACTTGTAC
*
65076324 AGCACTAAGTGTGCGAGTTTGATCATGT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
65076352 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
65076379 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
65076394 GACACACTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 23 0.57
28 17 0.43
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:65085010 original size:17 final size:17
Alignment explanation
Indices: 65084988--65085041 Score: 90
Period size: 17 Copynumber: 3.1 Consensus size: 17
65084978 GGCCAATCTA
65084988 GGTGTGTGGGCCACATG
1 GGTGTGTGGGCCACATG
65085005 GGTGTGTGGGCCACATG
1 GGTGTGTGGGCCACATG
*
65085022 GGCGTGTGGGCCCACATG
1 GGTGTGTGGG-CCACATG
65085040 GG
1 GG
65085042 CAATCCATAC
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
17 26 0.74
18 9 0.26
ACGTcount: A:0.11, C:0.20, G:0.48, T:0.20
Consensus pattern (17 bp):
GGTGTGTGGGCCACATG
Found at i:65088776 original size:29 final size:29
Alignment explanation
Indices: 65088733--65088867 Score: 119
Period size: 29 Copynumber: 4.7 Consensus size: 29
65088723 AACGACGGTT
* * * *
65088733 GAAACCATTCTTTTTAACATTTGATGGTC
1 GAAACCATCCCTTTTCATATTTGATGGTC
*
65088762 GAAACCATCCCTTTTCATATTTGATAG-C
1 GAAACCATCCCTTTTCATATTTGATGGTC
* * *
65088790 CAAAGCTATCCCTTTTCATATTCGATGGTC
1 GAAA-CCATCCCTTTTCATATTTGATGGTC
** * *
65088820 GTCACCATCCTTTTTCATAGTTGATGGTC
1 GAAACCATCCCTTTTCATATTTGATGGTC
** *
65088849 GTCACTATCCCTTTTCATA
1 GAAACCATCCCTTTTCATA
65088868 ATCGGTAGCC
Statistics
Matches: 86, Mismatches: 18, Indels: 4
0.80 0.17 0.04
Matches are distributed among these distances:
28 4 0.05
29 80 0.93
30 2 0.02
ACGTcount: A:0.24, C:0.24, G:0.13, T:0.39
Consensus pattern (29 bp):
GAAACCATCCCTTTTCATATTTGATGGTC
Found at i:65092853 original size:31 final size:32
Alignment explanation
Indices: 65092815--65092874 Score: 95
Period size: 31 Copynumber: 1.9 Consensus size: 32
65092805 TAACAGTTAT
*
65092815 TGGGCCGAAGCCTTTTC-ATAAATCATATCAC
1 TGGGCCGAAGCCTTTACTATAAATCATATCAC
*
65092846 TGGGCCGAAGCCTTTACTATAAATGATAT
1 TGGGCCGAAGCCTTTACTATAAATCATAT
65092875 GGCCCATAGG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
31 16 0.62
32 10 0.38
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (32 bp):
TGGGCCGAAGCCTTTACTATAAATCATATCAC
Found at i:65093109 original size:25 final size:25
Alignment explanation
Indices: 65093081--65093150 Score: 122
Period size: 25 Copynumber: 2.8 Consensus size: 25
65093071 CTCTTTTAAT
*
65093081 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
65093106 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
65093131 AACTGGGGCAAAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
65093151 AGCACTTCCT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:65093393 original size:27 final size:27
Alignment explanation
Indices: 65093356--65093576 Score: 252
Period size: 27 Copynumber: 8.2 Consensus size: 27
65093346 GGGCAAAATG
* * *
65093356 GTAATTTTACCCCACAAGGG-TATCTCA
1 GTAATTCTACCCTAC-AGGGTTATTTCA
* * *
65093383 GTATTTCTACCCTACAGGGGTATTTTA
1 GTAATTCTACCCTACAGGGTTATTTCA
* * *
65093410 ATATTTCTACCCTACAAGGG-TATTTCG
1 GTAATTCTACCCTAC-AGGGTTATTTCA
65093437 GTAATTCTACCCTACAGGGTTATTTCA
1 GTAATTCTACCCTACAGGGTTATTTCA
*
65093464 GTAATTCTACCATACAGGGTTATTTCA
1 GTAATTCTACCCTACAGGGTTATTTCA
* *
65093491 GTAATTCTACCCTACAGGGATATTTCG
1 GTAATTCTACCCTACAGGGTTATTTCA
* *
65093518 GTAATTCTACCCTATAGAGG-TATTTCG
1 GTAATTCTACCCTACAG-GGTTATTTCA
*
65093545 GTAATTC-ACCCTACAAGGTTATTTCA
1 GTAATTCTACCCTACAGGGTTATTTCA
65093571 GTAATT
1 GTAATT
65093577 TTGTAAATTA
Statistics
Matches: 170, Mismatches: 19, Indels: 11
0.85 0.09 0.05
Matches are distributed among these distances:
25 2 0.01
26 27 0.16
27 135 0.79
28 6 0.04
ACGTcount: A:0.27, C:0.21, G:0.16, T:0.36
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGTTATTTCA
Found at i:65093499 original size:81 final size:80
Alignment explanation
Indices: 65093355--65093576 Score: 286
Period size: 81 Copynumber: 2.8 Consensus size: 80
65093345 GGGGCAAAAT
* * * * * * * *
65093355 GGTAATTTTACCCCACAAGGGTATCTCAGTATTTCTACCCTACAGGGGTATTTTAATATTTCTAC
1 GGTAATTCTACCCTAC-AGGGTATTTCAGTAATTCTACCCTACAGGGTTATTTCAGTAATTCTAC
65093420 CCTACAAGGG-TATTTC
65 CCTAC-AGGGATATTTC
*
65093436 GGTAATTCTACCCTACAGGGTTATTTCAGTAATTCTACCATACAGGGTTATTTCAGTAATTCTAC
1 GGTAATTCTACCCTACAGGG-TATTTCAGTAATTCTACCCTACAGGGTTATTTCAGTAATTCTAC
65093501 CCTACAGGGATATTTC
65 CCTACAGGGATATTTC
* * *
65093517 GGTAATTCTACCCTATAGAGGTATTTCGGTAATTC-ACCCTACAAGGTTATTTCAGTAATT
1 GGTAATTCTACCCTACAG-GGTATTTCAGTAATTCTACCCTACAGGGTTATTTCAGTAATT
65093577 TTGTAAATTA
Statistics
Matches: 125, Mismatches: 13, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
80 31 0.25
81 92 0.74
82 2 0.02
ACGTcount: A:0.27, C:0.21, G:0.16, T:0.36
Consensus pattern (80 bp):
GGTAATTCTACCCTACAGGGTATTTCAGTAATTCTACCCTACAGGGTTATTTCAGTAATTCTACC
CTACAGGGATATTTC
Found at i:65093602 original size:27 final size:27
Alignment explanation
Indices: 65093571--65093708 Score: 170
Period size: 27 Copynumber: 5.1 Consensus size: 27
65093561 GGTTATTTCA
* * *
65093571 GTAATTTTGTAAATTAAAGGTAAAACG
1 GTAATTCTGTAAATTGAAGGTAAAATG
* *
65093598 GTAATTCTGTAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATTGAAGGTAAAATG
*
65093625 GTAATTCTATAAATTGAAGGTAAAATG
1 GTAATTCTGTAAATTGAAGGTAAAATG
* *
65093652 GTAATTCTGTAAATCG-AGGATAAAATA
1 GTAATTCTGTAAATTGAAGG-TAAAATG
* *
65093679 GTAATTCTGTAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATTGAAGGTAAAATG
65093706 GTA
1 GTA
65093709 CTATAAATCG
Statistics
Matches: 96, Mismatches: 13, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
26 3 0.03
27 91 0.95
28 2 0.02
ACGTcount: A:0.41, C:0.06, G:0.22, T:0.31
Consensus pattern (27 bp):
GTAATTCTGTAAATTGAAGGTAAAATG
Found at i:65093645 original size:54 final size:54
Alignment explanation
Indices: 65093570--65093708 Score: 206
Period size: 54 Copynumber: 2.6 Consensus size: 54
65093560 AGGTTATTTC
* * * *
65093570 AGTAATTTTGTAAATTAAAGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATTGAAGGTAAAATGGTAATTCTGTAAATCGAGGATAAAAT
* *
65093624 GGTAATTCTATAAATTGAAGGTAAAATGGTAATTCTGTAAATCGAGGATAAAAT
1 AGTAATTCTGTAAATTGAAGGTAAAATGGTAATTCTGTAAATCGAGGATAAAAT
* *
65093678 AGTAATTCTGTAAATCGAGGGTAAAATGGTA
1 AGTAATTCTGTAAATTGAAGGTAAAATGGTA
65093709 CTATAAATCG
Statistics
Matches: 75, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 75 1.00
ACGTcount: A:0.42, C:0.06, G:0.22, T:0.31
Consensus pattern (54 bp):
AGTAATTCTGTAAATTGAAGGTAAAATGGTAATTCTGTAAATCGAGGATAAAAT
Found at i:65093752 original size:27 final size:27
Alignment explanation
Indices: 65093722--65093899 Score: 169
Period size: 27 Copynumber: 6.6 Consensus size: 27
65093712 TAAATCGAGA
* * * *
65093722 GTATTTCGTTAATTTCACAAATCAGGG
1 GTATTTTGGTAATTTTACAAACCAGGG
* * * *
65093749 GTATTTTGTTAAGTTTACAAGCCAGTG
1 GTATTTTGGTAATTTTACAAACCAGGG
*
65093776 GTAATTTGGTAATTTTACAAACCAGGG
1 GTATTTTGGTAATTTTACAAACCAGGG
*
65093803 GTATTTTAGTAATTTTACAAACCAGGG
1 GTATTTTGGTAATTTTACAAACCAGGG
** * *
65093830 GTATTTTGGTAATTTTACTGATC-GAAG
1 GTATTTTGGTAATTTTACAAACCAG-GG
** *
65093857 GTATTTTGGTAATTTTGTAAACCAAGG
1 GTATTTTGGTAATTTTACAAACCAGGG
**
65093884 GTATTTCAGTAATTTT
1 GTATTTTGGTAATTTT
65093900 GTAAACTAAA
Statistics
Matches: 122, Mismatches: 27, Indels: 4
0.80 0.18 0.03
Matches are distributed among these distances:
26 1 0.01
27 121 0.99
ACGTcount: A:0.29, C:0.10, G:0.20, T:0.40
Consensus pattern (27 bp):
GTATTTTGGTAATTTTACAAACCAGGG
Found at i:65093829 original size:81 final size:81
Alignment explanation
Indices: 65093722--65093899 Score: 207
Period size: 81 Copynumber: 2.2 Consensus size: 81
65093712 TAAATCGAGA
* * * *
65093722 GTATTTC-GTTAATTTCACAAATCAGGGGTATTTTGTTAAGTTTAC-AAGCCAGTGGTAATTTGG
1 GTATTTCAG-TAATTTTACAAACCAGGGGTATTTTGGTAAGTTTACTAAGCCA-AGGTAATTTGG
*
65093785 TAATTTTACAAACCAGGG
64 TAATTTTACAAACCAAGG
* * * * * *
65093803 GTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACTGATCGAAGGTATTTTGGTA
1 GTATTTCAGTAATTTTACAAACCAGGGGTATTTTGGTAAGTTTACTAAGCCAAGGTAATTTGGTA
**
65093868 ATTTTGTAAACCAAGG
66 ATTTTACAAACCAAGG
65093884 GTATTTCAGTAATTTT
1 GTATTTCAGTAATTTT
65093900 GTAAACTAAA
Statistics
Matches: 81, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
81 77 0.95
82 4 0.05
ACGTcount: A:0.29, C:0.10, G:0.20, T:0.40
Consensus pattern (81 bp):
GTATTTCAGTAATTTTACAAACCAGGGGTATTTTGGTAAGTTTACTAAGCCAAGGTAATTTGGTA
ATTTTACAAACCAAGG
Found at i:65098766 original size:12 final size:13
Alignment explanation
Indices: 65098748--65098789 Score: 52
Period size: 12 Copynumber: 3.3 Consensus size: 13
65098738 TACAAATATG
65098748 ATATTTAATAATA
1 ATATTTAATAATA
65098761 AT-TTTAA-AATA
1 ATATTTAATAATA
*
65098772 GTATTTAATATATA
1 ATATTTAATA-ATA
65098786 ATAT
1 ATAT
65098790 GTAAAAACAA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
11 5 0.21
12 10 0.42
13 3 0.12
14 6 0.25
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (13 bp):
ATATTTAATAATA
Found at i:65098954 original size:4 final size:4
Alignment explanation
Indices: 65098945--65098969 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
65098935 AATAACACAT
65098945 AATA AATA AATA AATA AATA AATA A
1 AATA AATA AATA AATA AATA AATA A
65098970 TATGTGAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AATA
Found at i:65099057 original size:12 final size:12
Alignment explanation
Indices: 65099040--65099064 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
65099030 TTTTAAAATT
65099040 ATGAATAATATA
1 ATGAATAATATA
65099052 ATGAATAATATA
1 ATGAATAATATA
65099064 A
1 A
65099065 AACATAAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.00, G:0.08, T:0.32
Consensus pattern (12 bp):
ATGAATAATATA
Found at i:65099134 original size:24 final size:24
Alignment explanation
Indices: 65099100--65099171 Score: 90
Period size: 24 Copynumber: 3.0 Consensus size: 24
65099090 TACGATATAC
*
65099100 ATAACATATAATAAAAAATAATAA
1 ATAATATATAATAAAAAATAATAA
*
65099124 GTAATATATAATAAAAATATAATAA
1 ATAATATATAATAAAAA-ATAATAA
** *
65099149 ATGTTATATAATAAAATATAATA
1 ATAATATATAATAAAAAATAATA
65099172 TAAATAAATA
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
24 21 0.51
25 20 0.49
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.32
Consensus pattern (24 bp):
ATAATATATAATAAAAAATAATAA
Found at i:65099136 original size:14 final size:13
Alignment explanation
Indices: 65099047--65099168 Score: 53
Period size: 14 Copynumber: 9.2 Consensus size: 13
65099037 ATTATGAATA
65099047 ATATAATGAATAAT
1 ATATAAT-AATAAT
65099061 ATA-AA-ACATAAAT
1 ATATAATA-AT-AAT
*
65099074 AATATAACAGATAAT
1 -ATATAATA-ATAAT
* *
65099089 ATACGATATACATAAC
1 ATA-TA-ATA-ATAAT
65099105 ATATAATAA-AA-
1 ATATAATAATAAT
65099116 A-ATAATAAGTAAT
1 ATATAATAA-TAAT
65099129 ATATAATAA-AA-
1 ATATAATAATAAT
**
65099140 ATATAATAAATGTT
1 ATATAAT-AATAAT
65099154 ATATAATAA-AAT
1 ATATAATAATAAT
65099166 ATA
1 ATA
65099169 ATATAAATAA
Statistics
Matches: 84, Mismatches: 10, Indels: 30
0.68 0.08 0.24
Matches are distributed among these distances:
10 7 0.08
11 9 0.11
12 14 0.17
13 9 0.11
14 26 0.31
15 7 0.08
16 12 0.14
ACGTcount: A:0.61, C:0.04, G:0.04, T:0.30
Consensus pattern (13 bp):
ATATAATAATAAT
Found at i:65099139 original size:22 final size:22
Alignment explanation
Indices: 65099105--65099181 Score: 54
Period size: 25 Copynumber: 3.5 Consensus size: 22
65099095 TATACATAAC
*
65099105 ATATAATAA-AAAATAATAAGTA
1 ATAT-ATAATAAAATAATAAATA
*
65099127 ATATATAATAAAAATATAATAAATG
1 ATATATAAT--AAA-ATAATAAATA
*
65099152 TTATATAATAAAAT-ATAATATA
1 ATATATAATAAAATAATAA-ATA
65099174 A-ATA-AATA
1 ATATATAATA
65099182 TAGGAAAATA
Statistics
Matches: 45, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
20 4 0.09
21 11 0.24
22 8 0.18
23 3 0.07
24 3 0.07
25 16 0.36
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (22 bp):
ATATATAATAAAATAATAAATA
Found at i:65099169 original size:10 final size:10
Alignment explanation
Indices: 65099094--65099181 Score: 52
Period size: 11 Copynumber: 7.8 Consensus size: 10
65099084 ATAATATACG
*
65099094 ATATACATAAC
1 ATATA-ATAAA
65099105 ATATAATAAAAA
1 ATATAAT--AAA
*
65099117 ATAATAAGTAAT
1 AT-ATAA-TAAA
65099129 ATATAATAAAA
1 ATATAAT-AAA
65099140 ATATAATAAA
1 ATATAATAAA
65099150 TGTTATATAATAAA
1 ----ATATAATAAA
65099164 ATATAATATAA
1 ATATAATA-AA
65099175 ATA-AATA
1 ATATAATA
65099182 TAGGAAAATA
Statistics
Matches: 64, Mismatches: 3, Indels: 21
0.73 0.03 0.24
Matches are distributed among these distances:
10 18 0.28
11 23 0.36
12 8 0.12
13 4 0.06
14 11 0.17
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (10 bp):
ATATAATAAA
Found at i:65099192 original size:14 final size:15
Alignment explanation
Indices: 65099171--65099207 Score: 51
Period size: 13 Copynumber: 2.6 Consensus size: 15
65099161 AAAATATAAT
65099171 ATAAATAAATATAGG
1 ATAAATAAATATAGG
*
65099186 A-AAAT-AATATATG
1 ATAAATAAATATAGG
65099199 ATAAATAAA
1 ATAAATAAA
65099208 AATTTTATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 4
0.79 0.04 0.17
Matches are distributed among these distances:
13 8 0.42
14 8 0.42
15 3 0.16
ACGTcount: A:0.65, C:0.00, G:0.08, T:0.27
Consensus pattern (15 bp):
ATAAATAAATATAGG
Found at i:65100655 original size:76 final size:77
Alignment explanation
Indices: 65100449--65100676 Score: 309
Period size: 76 Copynumber: 2.9 Consensus size: 77
65100439 TGAGCCAGTC
* * * * * *
65100449 ACTAGCACTAAGCCTGCGGGACTTTAAGCTCAGATATAATACCAGCACTAGGCCTGCGAGATTTA
1 ACTAGCACGAAGCCTGCGGGA-TTTAA-CCCGGATATAATTCCAGCACTAAGCCTGCGGGATTTA
65100514 ACCCGGATATAATT
64 ACCCGGATATAATT
*
65100528 -CTAGCACGAAGCCTGCGGGATTTAACCCGGATATAATTCCAGCACGAAGCCTGCGGGATTTAAC
1 ACTAGCACGAAGCCTGCGGGATTTAACCCGGATATAATTCCAGCACTAAGCCTGCGGGATTTAAC
65100592 CCGGATAT-ATT
66 CCGGATATAATT
**
65100603 ACTAGCACGAAGCCTGCGGGATTTAACCCGGATATAATTCCAGCA-TATAGCCTGCTGGTCTTTA
1 ACTAGCACGAAGCCTGCGGGATTTAACCCGGATATAATTCCAGCACTA-AGCCTGC-GGGATTTA
65100667 AGCCCGGATA
64 A-CCCGGATA
65100677 CACATCAAAT
Statistics
Matches: 135, Mismatches: 10, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
75 4 0.03
76 92 0.68
77 12 0.09
78 27 0.20
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.24
Consensus pattern (77 bp):
ACTAGCACGAAGCCTGCGGGATTTAACCCGGATATAATTCCAGCACTAAGCCTGCGGGATTTAAC
CCGGATATAATT
Found at i:65100655 original size:114 final size:118
Alignment explanation
Indices: 65100452--65100676 Score: 298
Period size: 114 Copynumber: 1.9 Consensus size: 118
65100442 GCCAGTCACT
* * * *
65100452 AGCACTAAGCCTGCGGGACTTTAAGCTCAGATATAATACCAGCACTAGGCCTGCGAGATTTAACC
1 AGCACGAAGCCTGCGGGACTTTAAGCCCAGATATAATACCAGCACGAAGCCTGCGAGATTTAACC
*
65100517 CGGATATAATTCTAGCACGAAGCCTGC-GGGATTTAA-CCCGGATATAATTCC
66 CGGATATAATTCCAGCACGAAGCCTGCTGGGATTTAAGCCCGGATATAATTCC
* * * *
65100568 AGCACGAAGCCTGCGGGA-TTTAA-CCCGGATATATTACTAGCACGAAGCCTGCGGGATTTAACC
1 AGCACGAAGCCTGCGGGACTTTAAGCCCAGATATAATACCAGCACGAAGCCTGCGAGATTTAACC
* **
65100631 CGGATATAATTCCAGCA-TATAGCCTGCTGGTCTTTAAGCCCGGATA
66 CGGATATAATTCCAGCACGA-AGCCTGCTGGGATTTAAGCCCGGATA
65100677 CACATCAAAT
Statistics
Matches: 94, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
113 1 0.01
114 56 0.60
115 12 0.13
116 25 0.27
ACGTcount: A:0.29, C:0.25, G:0.23, T:0.24
Consensus pattern (118 bp):
AGCACGAAGCCTGCGGGACTTTAAGCCCAGATATAATACCAGCACGAAGCCTGCGAGATTTAACC
CGGATATAATTCCAGCACGAAGCCTGCTGGGATTTAAGCCCGGATATAATTCC
Found at i:65100657 original size:38 final size:38
Alignment explanation
Indices: 65100452--65100647 Score: 277
Period size: 38 Copynumber: 5.1 Consensus size: 38
65100442 GCCAGTCACT
* * * *
65100452 AGCACTAAGCCTGCGGGACTTTAAGCTCAGATATAATACC
1 AGCACGAAGCCTGCGGGA-TTTAA-CCCGGATATAATTCC
* * * *
65100492 AGCACTAGGCCTGCGAGATTTAACCCGGATATAATTCT
1 AGCACGAAGCCTGCGGGATTTAACCCGGATATAATTCC
65100530 AGCACGAAGCCTGCGGGATTTAACCCGGATATAATTCC
1 AGCACGAAGCCTGCGGGATTTAACCCGGATATAATTCC
*
65100568 AGCACGAAGCCTGCGGGATTTAACCCGGATAT-ATTACT
1 AGCACGAAGCCTGCGGGATTTAACCCGGATATAATT-CC
65100606 AGCACGAAGCCTGCGGGATTTAACCCGGATATAATTCC
1 AGCACGAAGCCTGCGGGATTTAACCCGGATATAATTCC
65100644 AGCA
1 AGCA
65100648 TATAGCCTGC
Statistics
Matches: 142, Mismatches: 12, Indels: 6
0.89 0.08 0.04
Matches are distributed among these distances:
37 3 0.02
38 115 0.81
39 8 0.06
40 16 0.11
ACGTcount: A:0.30, C:0.25, G:0.22, T:0.22
Consensus pattern (38 bp):
AGCACGAAGCCTGCGGGATTTAACCCGGATATAATTCC
Found at i:65104852 original size:206 final size:206
Alignment explanation
Indices: 65104339--65105091 Score: 1195
Period size: 206 Copynumber: 3.7 Consensus size: 206
65104329 AAATCTATTT
* *
65104339 CTTCAATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
65104404 GCGAAAACCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GCGAAAACCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
*
65104469 GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCT-CAGTCGAA-AT
131 GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTACTATGTATCTGCTCTCCA-TCGAATAT
*
65104532 GGAGATGCCAGA
195 GGAGATGCCAAA
65104544 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
* *
65104609 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GCGAAAACCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* * * *
65104674 GGATCTGCTTCAGTCTAATCATCTGAAGGTTAGATCTACTATGTGTCTGCCCTCCATCGAATATG
131 GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTACTATGTATCTGCTCTCCATCGAATATG
65104739 GAGATGCCAAA
196 GAGATGCCAAA
* * * * *
65104750 CTTCGATTTGTTCTCTGAAAATACAAAGATGCCAAATCATCTCAGACTTGCTTCATCATAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
* * *
65104815 GCGAAAACCAAACCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAATCATCTT
66 GCGAAAACCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* * ** * * *
65104880 GGATCTACTTCAGTATAAACATCTAAAGGCCAGATTTACTATGTATCTGCTCGCCGTCGAATATG
131 GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTACTATGTATCTGCTCTCCATCGAATATG
*
65104945 GAGATGCAAAA
196 GAGATGCCAAA
*
65104956 CTTTGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
* * * * *
65105021 GTGAAAGCCAAATCAGCTATATCTTTGATTTGTTCCTTGTAAGCACAAGGATTCCAAACCATCTT
66 GCGAAAACCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
65105086 GGATCT
131 GGATCT
65105092 TCCTTCAGCC
Statistics
Matches: 500, Mismatches: 46, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
205 179 0.36
206 321 0.64
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.31
Consensus pattern (206 bp):
CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
GCGAAAACCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTACTATGTATCTGCTCTCCATCGAATATG
GAGATGCCAAA
Found at i:65110383 original size:196 final size:192
Alignment explanation
Indices: 65110018--65110404 Score: 711
Period size: 196 Copynumber: 2.0 Consensus size: 192
65110008 TGGCTAGAAG
*
65110018 CCCAAACCAAAGCGATCTTTCTTCTCAATTAGTTTTGGGATTTGAACCTCTCCTTGCAACTGTCT
1 CCCAAACCAAAGCGATCTTTCTTCTCAATTAGTTTTGGGATTTGAACCCCTCCTTGCAACTGTCT
*
65110083 TCCTAGTCCCTTTCCAGGCACTGCTTCCCCATCATCATTTGCAGGGCCATCCTTGTGGCTCTAGA
66 TCCTAGTCCATTTCCAGGCACTGCTTCCCCATCATCATTTGCAGGGCCATCCTTGTGGCTCTAGA
65110148 TATTTTGGGTACAAGCACCTCACTTCCTTCCAGAATGAAGGTTGCATTGATGATTTCTAAAT
131 TATTTTGGGTACAAGCACCTCACTTCCTTCCAGAATGAAGGTTGCATTGATGATTTCTAAAT
65110210 CCCAAACCAAAGCGATCTTTCTTCTCAATTAGTTTTGGGATTTGAACCCCTCCTTGCAACTGTCT
1 CCCAAACCAAAGCGATCTTTCTTCTCAATTAGTTTTGGGATTTGAACCCCTCCTTGCAACTGTCT
*
65110275 TCCTAGTCCATTTCCTGGCACTGCTCCCTTCCCCATCATCATTTGCAGGGCCATCCTTGTGGCTC
66 TCCTAGTCCATTTCCAGGCACTG----CTTCCCCATCATCATTTGCAGGGCCATCCTTGTGGCTC
65110340 TAGATATTTTGGGTACAAGCACCTCACTTCCTTCCAGAATGAAGGTTGCATTGATGATTTCTAAA
127 TAGATATTTTGGGTACAAGCACCTCACTTCCTTCCAGAATGAAGGTTGCATTGATGATTTCTAAA
65110405 GAGCGGAAAG
Statistics
Matches: 188, Mismatches: 3, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
192 85 0.45
196 103 0.55
ACGTcount: A:0.22, C:0.28, G:0.17, T:0.34
Consensus pattern (192 bp):
CCCAAACCAAAGCGATCTTTCTTCTCAATTAGTTTTGGGATTTGAACCCCTCCTTGCAACTGTCT
TCCTAGTCCATTTCCAGGCACTGCTTCCCCATCATCATTTGCAGGGCCATCCTTGTGGCTCTAGA
TATTTTGGGTACAAGCACCTCACTTCCTTCCAGAATGAAGGTTGCATTGATGATTTCTAAAT
Found at i:65115158 original size:40 final size:39
Alignment explanation
Indices: 65115073--65115218 Score: 139
Period size: 40 Copynumber: 3.7 Consensus size: 39
65115063 CCGCACCAAG
* * * * * *
65115073 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCAC-AAT
* *
65115113 GCCTTCGGGTCTTAGCCTGGATTTAACAACTTGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCAC-AAT
* * *
65115153 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAA-T
* * *
65115193 GCCTTCGGTTCTTAACCCGGTTATAA
1 GCCTTCGGGTCTTAGCCCGGATATAA
65115219 TTTCCAGCAT
Statistics
Matches: 87, Mismatches: 18, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
39 2 0.02
40 85 0.98
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.28
Consensus pattern (39 bp):
GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAT
Found at i:65115233 original size:40 final size:40
Alignment explanation
Indices: 65115073--65115256 Score: 127
Period size: 40 Copynumber: 4.6 Consensus size: 40
65115063 CCGCACCAAG
* * * * *** *
65115073 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAACCCGGATATAACTACCAGCACAATT
* * * * **
65115113 GCCTTCGGGTCTTAGCCTGGATTTAACAACTTGCACGAA-T
1 GCCTTCGGGTCTTAACCCGGATATAACTACCAGCAC-AATT
* * *
65115153 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAACCCGGATATAACTACCAGCACAATT
* * * * *
65115193 GCCTTCGGTTCTTAACCCGGTTATAATTTCCAGCATAATT
1 GCCTTCGGGTCTTAACCCGGATATAACTACCAGCACAATT
* * *
65115233 GTCTTCGGGGCTTAGCCCGGATAT
1 GCCTTCGGGTCTTAACCCGGATAT
65115257 CATTCAATTT
Statistics
Matches: 116, Mismatches: 26, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
39 2 0.02
40 112 0.97
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.29
Consensus pattern (40 bp):
GCCTTCGGGTCTTAACCCGGATATAACTACCAGCACAATT
Found at i:65124433 original size:30 final size:30
Alignment explanation
Indices: 65124389--65124477 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
65124379 CAAAGATAAC
65124389 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
65124418 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
65124448 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
65124478 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:65124437 original size:15 final size:15
Alignment explanation
Indices: 65124389--65124468 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
65124379 CAAAGATAAC
*
65124389 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
65124403 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
65124418 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
65124433 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
65124448 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
65124463 AAGAAA
1 AAGAAA
65124469 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:65124477 original size:15 final size:15
Alignment explanation
Indices: 65124400--65124477 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
65124390 AGAAAACCGA
65124400 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
65124415 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
65124429 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
65124444 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
65124460 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
65124475 ATA
1 ATA
65124478 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:65127536 original size:93 final size:93
Alignment explanation
Indices: 65127424--65127595 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
65127414 CGCCCATAAG
* *
65127424 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
65127489 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
65127517 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
65127582 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
65127596 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:65127592 original size:46 final size:46
Alignment explanation
Indices: 65127417--65127592 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
65127407 TGTAACCCGC
* * *
65127417 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
65127463 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
65127513 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
65127556 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
65127593 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:65132409 original size:30 final size:31
Alignment explanation
Indices: 65132338--65132409 Score: 87
Period size: 30 Copynumber: 2.4 Consensus size: 31
65132328 CTTTTGTTTC
* *
65132338 AATTTCTTTTTCATCTTCTTTTTTACTCTCA
1 AATTTCTTTTTCATCTTCTTTTTCAATCTCA
65132369 AATTTC-TTTTCAT-TCTCTTTTTCAATCTC-
1 AATTTCTTTTTCATCT-TCTTTTTCAATCTCA
*
65132398 ATTTTCTTTTTC
1 AATTTCTTTTTC
65132410 TTTTTGCTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
29 6 0.17
30 24 0.67
31 6 0.17
ACGTcount: A:0.15, C:0.22, G:0.00, T:0.62
Consensus pattern (31 bp):
AATTTCTTTTTCATCTTCTTTTTCAATCTCA
Found at i:65132432 original size:12 final size:12
Alignment explanation
Indices: 65132417--65132447 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
65132407 TTCTTTTTGC
65132417 TTTTCAAAGGCT
1 TTTTCAAAGGCT
65132429 TTTTCAAAGGCT
1 TTTTCAAAGGCT
65132441 TTTTCAA
1 TTTTCAA
65132448 GTTCTCTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.26, C:0.16, G:0.13, T:0.45
Consensus pattern (12 bp):
TTTTCAAAGGCT
Found at i:65132527 original size:15 final size:15
Alignment explanation
Indices: 65132497--65132540 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
65132487 CTTGCCTCTC
*
65132497 TTTTCTTTTTATTTCA
1 TTTTCTTTTT-CTTCA
65132513 TTTTCTTTTTCTTCA
1 TTTTCTTTTTCTTCA
*
65132528 TTTGCTTTTTCTT
1 TTTTCTTTTTCTT
65132541 TTCTTTTCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
15 16 0.62
16 10 0.38
ACGTcount: A:0.07, C:0.16, G:0.02, T:0.75
Consensus pattern (15 bp):
TTTTCTTTTTCTTCA
Found at i:65132561 original size:21 final size:22
Alignment explanation
Indices: 65132493--65132562 Score: 62
Period size: 20 Copynumber: 3.3 Consensus size: 22
65132483 GCCTCTTGCC
*
65132493 TCTCTTTTCTTTTTATTTCATTT
1 TCTCTTTTC-TTTTCTTTCATTT
65132516 TCT-TTTTC--TTCATTTGC-TTT
1 TCTCTTTTCTTTTC-TTT-CATTT
65132536 T-TCTTTTCTTTTCTTT-ATTT
1 TCTCTTTTCTTTTCTTTCATTT
65132556 TCTCTTT
1 TCTCTTT
65132563 ACAAGAATGT
Statistics
Matches: 39, Mismatches: 1, Indels: 16
0.70 0.02 0.29
Matches are distributed among these distances:
19 3 0.08
20 16 0.41
21 9 0.23
22 8 0.21
23 3 0.08
ACGTcount: A:0.06, C:0.19, G:0.01, T:0.74
Consensus pattern (22 bp):
TCTCTTTTCTTTTCTTTCATTT
Found at i:65134831 original size:30 final size:30
Alignment explanation
Indices: 65134737--65134833 Score: 88
Period size: 30 Copynumber: 3.2 Consensus size: 30
65134727 TAAACTAAAA
*
65134737 TGAGCTAAGCTTTAGCTCGTGAGCT-AAAG
1 TGAGCTAAGGTTTAGCTCGTGAGCTGAAAG
* * * * * * * *
65134766 TTAAGCTGAGGCTAAACTCCTAAGCTGAAAT
1 -TGAGCTAAGGTTTAGCTCGTGAGCTGAAAG
*
65134797 TGAGCTAAGGTTTAGCTCGTGAGTTGAAAG
1 TGAGCTAAGGTTTAGCTCGTGAGCTGAAAG
65134827 TGAGCTA
1 TGAGCTA
65134834 GGAGTGAGCT
Statistics
Matches: 48, Mismatches: 18, Indels: 2
0.71 0.26 0.03
Matches are distributed among these distances:
30 45 0.94
31 3 0.06
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGGTTTAGCTCGTGAGCTGAAAG
Found at i:65134875 original size:20 final size:21
Alignment explanation
Indices: 65134850--65134894 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 21
65134840 AGCTCGGTTT
*
65134850 AGCTCAGACAAGATGGA-TTG
1 AGCTCACACAAGATGGATTTG
* *
65134870 AGCTCACATAAGCTGGATTTG
1 AGCTCACACAAGATGGATTTG
65134891 AGCT
1 AGCT
65134895 GGACGGAGCT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 14 0.67
21 7 0.33
ACGTcount: A:0.31, C:0.18, G:0.27, T:0.24
Consensus pattern (21 bp):
AGCTCACACAAGATGGATTTG
Found at i:65136322 original size:6 final size:6
Alignment explanation
Indices: 65136311--65136530 Score: 161
Period size: 6 Copynumber: 36.2 Consensus size: 6
65136301 AACCAAAATG
* *
65136311 AGAATC AGAATC AGAATC A-ATAAC AGAATC AGAATC AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AGA-ATC AGAATC AGAATC AGAATC AGA-ATC
* *
65136359 AGTAA-C AGAATC AGAATC AGAATC AGAATT AG-GTGAC AGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
* * * *
65136408 AGAATC AG-TTAC AGAATC AGAATC AGAATC AGTATT AGTAA-A AGAATC
1 AGAATC AGAAT-C AGAATC AGAATC AGAATC AGAATC AG-AATC AGAATC
* *
65136456 AGAATC AGAATC AGAATT AG-GTGAC AGAATC AGAATC AGAATC A-ATATC
1 AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC AGA-ATC
* *
65136505 AGGTAA-C AGAATC AAAATC AAAATC A
1 A-G-AATC AGAATC AGAATC AGAATC A
65136531 ATATCAGGTA
Statistics
Matches: 173, Mismatches: 20, Indels: 42
0.74 0.09 0.18
Matches are distributed among these distances:
5 12 0.07
6 146 0.84
7 10 0.06
8 4 0.02
9 1 0.01
ACGTcount: A:0.50, C:0.14, G:0.16, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:65136326 original size:30 final size:30
Alignment explanation
Indices: 65136290--65136549 Score: 243
Period size: 31 Copynumber: 8.7 Consensus size: 30
65136280 AAGAAACATT
* *
65136290 ATCAGAATT-GGAACCAAAATGAGAATCAGA
1 ATCAGAATTAGGAA-CAGAATCAGAATCAGA
* **
65136320 ATCAGAATCAATAACAGAATCAGAATCAGA
1 ATCAGAATTAGGAACAGAATCAGAATCAGA
*
65136350 ATCA-ATATTAGTAACAGAATCAGAATCAGA
1 ATCAGA-ATTAGGAACAGAATCAGAATCAGA
*
65136380 ATCAGAATTAGGTGACAGAATCAGAATCAGA
1 ATCAGAATTAGG-AACAGAATCAGAATCAGA
65136411 ATCAG--TT----ACAGAATCAGAATCAGA
1 ATCAGAATTAGGAACAGAATCAGAATCAGA
* * *
65136435 ATCAGTATTAGTAAAAGAATCAGAATCAGA
1 ATCAGAATTAGGAACAGAATCAGAATCAGA
*
65136465 ATCAGAATTAGGTGACAGAATCAGAATCAGA
1 ATCAGAATTAGG-AACAGAATCAGAATCAGA
* * *
65136496 ATCA-ATATCAGGTAACAGAATCAAAATCAAA
1 ATCAGA-ATTAGG-AACAGAATCAGAATCAGA
*
65136527 ATCA-ATATCAGGTAACAGAATCA
1 ATCAGA-ATTAGG-AACAGAATCA
65136550 AAATGTGAAT
Statistics
Matches: 200, Mismatches: 18, Indels: 23
0.83 0.07 0.10
Matches are distributed among these distances:
24 22 0.11
26 2 0.01
29 3 0.01
30 84 0.42
31 89 0.44
ACGTcount: A:0.49, C:0.14, G:0.17, T:0.20
Consensus pattern (30 bp):
ATCAGAATTAGGAACAGAATCAGAATCAGA
Found at i:65136411 original size:85 final size:85
Alignment explanation
Indices: 65136311--65136525 Score: 351
Period size: 85 Copynumber: 2.5 Consensus size: 85
65136301 AACCAAAATG
*
65136311 AGAATCAGAATCAGAATCAATAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
1 AGAATCAGAATCAGAATCAATAACAGAATCAGAATCAGAATCAATATTAGTAAAAGAATCAGAAT
65136376 CAGAATCAGAATTAGGTGAC
66 CAGAATCAGAATTAGGTGAC
* * *
65136396 AGAATCAGAATCAGAATCAGTTACAGAATCAGAATCAGAATCAGTATTAGTAAAAGAATCAGAAT
1 AGAATCAGAATCAGAATCAATAACAGAATCAGAATCAGAATCAATATTAGTAAAAGAATCAGAAT
65136461 CAGAATCAGAATTAGGTGAC
66 CAGAATCAGAATTAGGTGAC
* *
65136481 AGAATCAGAATCAGAATCAATATCAGGTAA-CAGAATCAAAATCAA
1 AGAATCAGAATCAGAATCAATAACA-G-AATCAGAATCAGAATCAA
65136526 AATCAATATC
Statistics
Matches: 119, Mismatches: 9, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
85 103 0.87
86 14 0.12
87 2 0.02
ACGTcount: A:0.49, C:0.14, G:0.17, T:0.20
Consensus pattern (85 bp):
AGAATCAGAATCAGAATCAATAACAGAATCAGAATCAGAATCAATATTAGTAAAAGAATCAGAAT
CAGAATCAGAATTAGGTGAC
Found at i:65136516 original size:19 final size:19
Alignment explanation
Indices: 65136492--65136550 Score: 60
Period size: 19 Copynumber: 3.5 Consensus size: 19
65136482 GAATCAGAAT
65136492 CAGAATCAATATCAGGTAA
1 CAGAATCAATATCAGGTAA
65136511 CAGAATCAA-A--A--T--
1 CAGAATCAATATCAGGTAA
*
65136523 CAAAATCAATATCAGGTAA
1 CAGAATCAATATCAGGTAA
65136542 CAGAATCAA
1 CAGAATCAA
65136551 AATGTGAATG
Statistics
Matches: 31, Mismatches: 2, Indels: 14
0.66 0.04 0.30
Matches are distributed among these distances:
12 8 0.26
13 1 0.03
14 1 0.03
15 1 0.03
16 1 0.03
17 1 0.03
18 1 0.03
19 17 0.55
ACGTcount: A:0.53, C:0.17, G:0.12, T:0.19
Consensus pattern (19 bp):
CAGAATCAATATCAGGTAA
Found at i:65136553 original size:31 final size:31
Alignment explanation
Indices: 65136331--65136549 Score: 262
Period size: 31 Copynumber: 7.4 Consensus size: 31
65136321 TCAGAATCAA
65136331 TAACAGAATCAGAATCAGAATCAATATTA-G
1 TAACAGAATCAGAATCAGAATCAATATTAGG
65136361 TAACAGAATCAGAATCAGAATCAGA-ATTAGG
1 TAACAGAATCAGAATCAGAATCA-ATATTAGG
*
65136392 TGACAGAATCAGAATCAGAATC------A-G
1 TAACAGAATCAGAATCAGAATCAATATTAGG
* *
65136416 TTACAGAATCAGAATCAGAATCAGTATTA-G
1 TAACAGAATCAGAATCAGAATCAATATTAGG
*
65136446 TAAAAGAATCAGAATCAGAATCAGA-ATTAGG
1 TAACAGAATCAGAATCAGAATCA-ATATTAGG
* *
65136477 TGACAGAATCAGAATCAGAATCAATATCAGG
1 TAACAGAATCAGAATCAGAATCAATATTAGG
* * *
65136508 TAACAGAATCAAAATCAAAATCAATATCAGG
1 TAACAGAATCAGAATCAGAATCAATATTAGG
65136539 TAACAGAATCA
1 TAACAGAATCA
65136550 AAATGTGAAT
Statistics
Matches: 167, Mismatches: 11, Indels: 21
0.84 0.06 0.11
Matches are distributed among these distances:
24 22 0.13
25 1 0.01
30 55 0.33
31 89 0.53
ACGTcount: A:0.49, C:0.14, G:0.16, T:0.21
Consensus pattern (31 bp):
TAACAGAATCAGAATCAGAATCAATATTAGG
Found at i:65136753 original size:26 final size:27
Alignment explanation
Indices: 65136690--65136763 Score: 96
Period size: 27 Copynumber: 2.8 Consensus size: 27
65136680 GCTCAGTTAT
* * *
65136690 CAGATATTGTGACAGAGTCACTAGATA
1 CAGATATTGTGGCAGAGCCACCAGATA
65136717 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
* *
65136743 CAGATAATGTGGCAAAGCCAC
1 CAGATATTGTGGCAGAGCCAC
65136764 TTAACAGAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
26 20 0.48
27 22 0.52
ACGTcount: A:0.36, C:0.20, G:0.24, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:65136966 original size:22 final size:21
Alignment explanation
Indices: 65136922--65136981 Score: 57
Period size: 22 Copynumber: 2.8 Consensus size: 21
65136912 GCAAATACGT
*
65136922 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCAT-ATCAGG
* *
65136944 TTGGCACAGAGCCATATGTAGG
1 TTGGCACAAAGCCATAT-CAGG
**
65136966 TTAACACAAAGCCATA
1 TTGGCACAAAGCCATA
65136982 ATTAGAAGGC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
21 2 0.06
22 30 0.94
ACGTcount: A:0.35, C:0.23, G:0.22, T:0.20
Consensus pattern (21 bp):
TTGGCACAAAGCCATATCAGG
Found at i:65137590 original size:27 final size:27
Alignment explanation
Indices: 65137413--65137588 Score: 228
Period size: 27 Copynumber: 6.6 Consensus size: 27
65137403 GGGGCAAAAT
* * * *
65137413 GGTAATTTTACCCCACA-AGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
65137439 GGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
*
65137466 GGCAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
65137493 GGTAATTCTACCCTACAAGGGCATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
65137520 GGTAATTCTACCCTAAAGGGGTACTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
65137547 GATAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
65137574 GGTAATTCTACCCTA
1 GGTAATTCTACCCTA
65137589 TATTTCGATA
Statistics
Matches: 129, Mismatches: 20, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
26 15 0.12
27 114 0.88
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.32
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:65137627 original size:27 final size:27
Alignment explanation
Indices: 65137597--65137655 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
65137587 TATATTTCGA
65137597 TAATTCCACAAA-TCAGGGGTATTTTGG
1 TAATTCCACAAACT-AGGGGTATTTTGG
**
65137624 TAATTTTACAAACTAGGGGTATTTTGG
1 TAATTCCACAAACTAGGGGTATTTTGG
65137651 TAATT
1 TAATT
65137656 TTATTGATCG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 28 0.97
28 1 0.03
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.39
Consensus pattern (27 bp):
TAATTCCACAAACTAGGGGTATTTTGG
Found at i:65137656 original size:27 final size:27
Alignment explanation
Indices: 65137611--65137980 Score: 169
Period size: 27 Copynumber: 13.7 Consensus size: 27
65137601 TCCACAAATC
*
65137611 AGGGGTATTTTGGTAATTTTACAAACT
1 AGGGGTATTTTGGTAATTTTATAAACT
**
65137638 AGGGGTATTTTGGTAATTTTATTGA-T
1 AGGGGTATTTTGGTAATTTTATAAACT
* * *
65137664 CGAGGGTATTTTGGTAATTTTGTAAACC
1 AG-GGGTATTTTGGTAATTTTATAAACT
* **
65137692 AAGGGTATTTCAGTAATTTTATAAA-T
1 AGGGGTATTTTGGTAATTTTATAAACT
* *** *
65137718 CAAGGGTAAAATGGTAATTCTATAAA-T
1 -AGGGGTATTTTGGTAATTTTATAAACT
* *** * *
65137745 CGAGGGTAAAATGGTAATTCTGTAAA-T
1 AG-GGGTATTTTGGTAATTTTATAAACT
* *** * **
65137772 CGAGGGTAAAATGGTAATTCTATCTTAC-
1 AG-GGGTATTTTGGTAATTTTAT-AAACT
* * ** *
65137800 AAGAGTATTTCAGTAATTTTA-AAAAT
1 AGGGGTATTTTGGTAATTTTATAAACT
* *** * **
65137826 CGAGGGTATTTCAATAATTTTA-CAGGT
1 AG-GGGTATTTTGGTAATTTTATAAACT
* ** * * *
65137853 CGAGGGTATTTCAGTAATTTCACAAATT
1 AG-GGGTATTTTGGTAATTTTATAAACT
* *
65137881 AGGGATATTTTGGTAATTTTACAAACT
1 AGGGGTATTTTGGTAATTTTATAAACT
* *
65137908 AGGGGTATTTTGGTAATTTTACAAACC
1 AGGGGTATTTTGGTAATTTTATAAACT
*
65137935 AGGGGTATTTTGGTAATTTTACAAACT
1 AGGGGTATTTTGGTAATTTTATAAACT
*
65137962 AGGGATATTTTGGTAATTT
1 AGGGGTATTTTGGTAATTT
65137981 GGTAAATTAA
Statistics
Matches: 274, Mismatches: 60, Indels: 18
0.78 0.17 0.05
Matches are distributed among these distances:
25 1 0.00
26 2 0.01
27 267 0.97
28 4 0.01
ACGTcount: A:0.33, C:0.08, G:0.21, T:0.38
Consensus pattern (27 bp):
AGGGGTATTTTGGTAATTTTATAAACT
Found at i:65137672 original size:54 final size:54
Alignment explanation
Indices: 65137613--65137980 Score: 251
Period size: 54 Copynumber: 6.8 Consensus size: 54
65137603 CACAAATCAG
**
65137613 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTATTGATCGA
1 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTATAAATCGA
** * * ** *
65137667 GGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTCAGTAATTTTATAAATCAA
1 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTATAAATCGA
*** * * * *** * *
65137721 GGGTAAAATGGTAATTCTATAAA-TCGAGGGTAAAATGGTAATTCTGTAAATCGA
1 GGGTATTTTGGTAATTTTACAAACTAG-GGGTATTTTGGTAATTTTATAAATCGA
*** * ** * * ** *
65137775 GGGTAAAATGGTAATTCTATCTTAC-AAGAGTATTTCAGTAATTTTAAAAATCGA
1 GGGTATTTTGGTAATTTTA-CAAACTAGGGGTATTTTGGTAATTTTATAAATCGA
*** ** * ** * * *
65137829 GGGTATTTCAATAATTTTAC-AGGTCGAGGGTATTTCAGTAATTTCACAAAT-TA
1 GGGTATTTTGGTAATTTTACAAACTAG-GGGTATTTTGGTAATTTTATAAATCGA
* *
65137882 GGGATATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAA-CCA
1 GGG-TATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTATAAATCGA
*
65137936 GGGGTATTTTGGTAATTTTACAAACTAGGGATATTTTGGTAATTT
1 -GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTT
65137981 GGTAAATTAA
Statistics
Matches: 239, Mismatches: 66, Indels: 18
0.74 0.20 0.06
Matches are distributed among these distances:
53 5 0.02
54 227 0.95
55 7 0.03
ACGTcount: A:0.33, C:0.08, G:0.21, T:0.39
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTATAAATCGA
Found at i:65137708 original size:81 final size:81
Alignment explanation
Indices: 65137604--65137980 Score: 258
Period size: 81 Copynumber: 4.7 Consensus size: 81
65137594 CGATAATTCC
* * * **
65137604 ACAAATCAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTATTGATCGAGG
1 ACAAACCAAGGGTATTTCGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTATAAATCGAGG
65137669 GTATTTTGGTAATTTT
66 GTATTTTGGTAATTTT
** * * * *** *
65137685 GTAAACCAAGGGTATTTCAGTAATTTTATAAA-TCAAGGGTAAAATGGTAATTCTATAAATCGAG
1 ACAAACCAAGGGTATTTCGGTAATTTTACAAACT-AGGGGTATTTTGGTAATTTTATAAATCGAG
*** *
65137749 GGTAAAATGGTAATTCT
65 GGTATTTTGGTAATTTT
** * * ** * ** * * ** *
65137766 GTAAATCGAGGGTAAAAT-GGTAATTCTATCTTAC-AAGAGTATTTCAGTAATTTTAAAAATCGA
1 ACAAACCAAGGGT-ATTTCGGTAATTTTA-CAAACTAGGGGTATTTTGGTAATTTTATAAATCGA
***
65137829 GGGTATTTCAATAATTTT
64 GGGTATTTTGGTAATTTT
*** * * * * * * *
65137847 ACAGGTCGAGGGTATTTCAGTAATTTCACAAATTAGGGATATTTTGGTAATTTTACAAA-CTAGG
1 ACAAACCAAGGGTATTTCGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTATAAATCGA-G
65137911 GGTATTTTGGTAATTTT
65 GGTATTTTGGTAATTTT
* * *
65137928 ACAAACCAGGGGTATTTTGGTAATTTTACAAACTAGGGATATTTTGGTAATTT
1 ACAAACCAAGGGTATTTCGGTAATTTTACAAACTAGGGGTATTTTGGTAATTT
65137981 GGTAAATTAA
Statistics
Matches: 216, Mismatches: 73, Indels: 14
0.71 0.24 0.05
Matches are distributed among these distances:
80 7 0.03
81 206 0.95
82 3 0.01
ACGTcount: A:0.33, C:0.08, G:0.21, T:0.38
Consensus pattern (81 bp):
ACAAACCAAGGGTATTTCGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTATAAATCGAGG
GTATTTTGGTAATTTT
Found at i:65139941 original size:24 final size:24
Alignment explanation
Indices: 65139914--65139974 Score: 104
Period size: 24 Copynumber: 2.5 Consensus size: 24
65139904 TATTATGTTT
65139914 GCACACATAGTGCCATAGTAAACC
1 GCACACATAGTGCCATAGTAAACC
* *
65139938 GCACACATAGTGCTATAGTAAATC
1 GCACACATAGTGCCATAGTAAACC
65139962 GCACACATAGTGC
1 GCACACATAGTGC
65139975 ATTTGAGATT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.36, C:0.26, G:0.18, T:0.20
Consensus pattern (24 bp):
GCACACATAGTGCCATAGTAAACC
Found at i:65143002 original size:6 final size:6
Alignment explanation
Indices: 65142972--65143212 Score: 183
Period size: 6 Copynumber: 39.7 Consensus size: 6
65142962 AAGAAACATT
* * * *
65142972 ATCAGA ATTAGA ACCAAA ATGAGA ATCAGA ATCAGA ATCAGTA A-CAGA
1 ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAG-A ATCAGA
*
65143020 ATCAGA ATCAGA ATCA-A TATTAGTA A-CAGA ATCAGA ATCAGA ATCAGA
1 ATCAGA ATCAGA ATCAGA -ATCAG-A ATCAGA ATCAGA ATCAGA ATCAGA
* * *
65143068 ATTAG- GTGACAGA ATCAGA ATCAAA ATCAGTA A-CAGA ATCAGA ATCAGA
1 ATCAGA AT--CAGA ATCAGA ATCAGA ATCAG-A ATCAGA ATCAGA ATCAGA
* * * * *
65143117 ATCAGT ATTAGTA A-AAGA ATCAGA ATCAGA ATCAGA ATTAG- GTGACAGA
1 ATCAGA ATCAG-A ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* * *
65143166 ATCAGA ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAAA ATCA
1 ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCA
65143213 ATATCAGGTA
Statistics
Matches: 188, Mismatches: 28, Indels: 38
0.74 0.11 0.15
Matches are distributed among these distances:
5 13 0.07
6 158 0.84
7 13 0.07
8 4 0.02
ACGTcount: A:0.50, C:0.14, G:0.17, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:65143008 original size:30 final size:30
Alignment explanation
Indices: 65142972--65143231 Score: 277
Period size: 30 Copynumber: 8.7 Consensus size: 30
65142962 AAGAAACATT
* *
65142972 ATCAGAATTAG-AACCAAAATGAGAATCAGA
1 ATCAGAATTAGTAA-CAGAATCAGAATCAGA
*
65143002 ATCAGAATCAGTAACAGAATCAGAATCAGA
1 ATCAGAATTAGTAACAGAATCAGAATCAGA
65143032 ATCA-ATATTAGTAACAGAATCAGAATCAGA
1 ATCAGA-ATTAGTAACAGAATCAGAATCAGA
65143062 ATCAGAATTAGGT----G-A-CAGAATCAGA
1 ATCAGAATTA-GTAACAGAATCAGAATCAGA
* *
65143087 ATCAAAATCAGTAACAGAATCAGAATCAGA
1 ATCAGAATTAGTAACAGAATCAGAATCAGA
* *
65143117 ATCAGTATTAGTAAAAGAATCAGAATCAGA
1 ATCAGAATTAGTAACAGAATCAGAATCAGA
*
65143147 ATCAGAATTAGGTGACAGAATCAGAATCAGA
1 ATCAGAATTA-GTAACAGAATCAGAATCAGA
* * * *
65143178 ATCAGTATCAGGTAACAGAATCAAAATCAAA
1 ATCAGAATTA-GTAACAGAATCAGAATCAGA
*
65143209 ATCA-ATATCAGGTAACAGAATCA
1 ATCAGA-ATTA-GTAACAGAATCA
65143232 AAATGTGAAT
Statistics
Matches: 199, Mismatches: 19, Indels: 23
0.83 0.08 0.10
Matches are distributed among these distances:
24 2 0.01
25 18 0.09
26 1 0.01
27 1 0.01
28 1 0.01
29 2 0.01
30 104 0.52
31 70 0.35
ACGTcount: A:0.50, C:0.14, G:0.17, T:0.20
Consensus pattern (30 bp):
ATCAGAATTAGTAACAGAATCAGAATCAGA
Found at i:65143096 original size:85 final size:85
Alignment explanation
Indices: 65142993--65143231 Score: 352
Period size: 85 Copynumber: 2.7 Consensus size: 85
65142983 AACCAAAATG
*
65142993 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
1 AGAATCAGAATCAAAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
65143058 CAGAATCAGAATTAGGTGAC
66 CAGAATCAGAATTAGGTGAC
* *
65143078 AGAATCAGAATCAAAATCAGTAACAGAATCAGAATCAGAATCAGTATTAGTAAAAGAATCAGAAT
1 AGAATCAGAATCAAAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
65143143 CAGAATCAGAATTAGGTGAC
66 CAGAATCAGAATTAGGTGAC
* * *
65143163 AGAATCAGAATCAGAATCAGTATCAGGTAACAGAATCAAAATCAAAATCAATATCAGGTAACAGA
1 AGAATCAGAATC--AA--A--ATCA-GTAACAGAATCAGAATCAGAATCAATATTA-GTAACAGA
65143228 ATCA
58 ATCA
65143232 AAATGTGAAT
Statistics
Matches: 138, Mismatches: 8, Indels: 8
0.90 0.05 0.05
Matches are distributed among these distances:
85 94 0.68
87 2 0.01
89 1 0.01
91 4 0.03
92 26 0.19
93 11 0.08
ACGTcount: A:0.49, C:0.14, G:0.17, T:0.20
Consensus pattern (85 bp):
AGAATCAGAATCAAAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
CAGAATCAGAATTAGGTGAC
Found at i:65143232 original size:19 final size:19
Alignment explanation
Indices: 65143174--65143232 Score: 51
Period size: 19 Copynumber: 3.5 Consensus size: 19
65143164 GAATCAGAAT
*
65143174 CAGAATCAGTATCAGGTAA
1 CAGAATCAATATCAGGTAA
65143193 CAGAATCAA-A--A--T--
1 CAGAATCAATATCAGGTAA
*
65143205 CAAAATCAATATCAGGTAA
1 CAGAATCAATATCAGGTAA
65143224 CAGAATCAA
1 CAGAATCAA
65143233 AATGTGAATG
Statistics
Matches: 30, Mismatches: 3, Indels: 14
0.64 0.06 0.30
Matches are distributed among these distances:
12 8 0.27
13 1 0.03
14 1 0.03
15 1 0.03
16 1 0.03
17 1 0.03
18 1 0.03
19 16 0.53
ACGTcount: A:0.51, C:0.17, G:0.14, T:0.19
Consensus pattern (19 bp):
CAGAATCAATATCAGGTAA
Found at i:65143435 original size:26 final size:27
Alignment explanation
Indices: 65143372--65143445 Score: 96
Period size: 27 Copynumber: 2.8 Consensus size: 27
65143362 GCTCAGTTAT
* * *
65143372 CAGATATTGTGACAGAGTCACTAGATA
1 CAGATATTGTGGCAGAGCCACCAGATA
65143399 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
* *
65143425 CAGATAATGTGGCAAAGCCAC
1 CAGATATTGTGGCAGAGCCAC
65143446 TTAACAGAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
26 20 0.48
27 22 0.52
ACGTcount: A:0.36, C:0.20, G:0.24, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:65143648 original size:22 final size:21
Alignment explanation
Indices: 65143604--65143663 Score: 57
Period size: 22 Copynumber: 2.8 Consensus size: 21
65143594 GTAAATACGT
*
65143604 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCAT-ATCAGG
* *
65143626 TTGGCACAGAGCCATATGTAGG
1 TTGGCACAAAGCCATAT-CAGG
**
65143648 TTAACACAAAGCCATA
1 TTGGCACAAAGCCATA
65143664 ATTAGAAGGC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
21 2 0.06
22 30 0.94
ACGTcount: A:0.35, C:0.23, G:0.22, T:0.20
Consensus pattern (21 bp):
TTGGCACAAAGCCATATCAGG
Done.