Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D06
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: 68668488
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1920000 characters in sequence are not A, C, G, or T
File 228 of 230
Found at i:67743523 original size:24 final size:26
Alignment explanation
Indices: 67743495--67743543 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
67743485 TATTAAAATT
*
67743495 TGTTTTTGCC-TT-TTTAAATATTGA
1 TGTTTTTACCATTCTTTAAATATTGA
67743519 TGTTTTTACCATTTCTTTAAATATT
1 TGTTTTTACCA-TTCTTTAAATATT
67743544 AAAATATTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 9 0.43
26 2 0.10
27 10 0.48
ACGTcount: A:0.22, C:0.10, G:0.08, T:0.59
Consensus pattern (26 bp):
TGTTTTTACCATTCTTTAAATATTGA
Found at i:67749622 original size:7 final size:7
Alignment explanation
Indices: 67749610--67749644 Score: 61
Period size: 7 Copynumber: 5.0 Consensus size: 7
67749600 CAAGAACTTC
67749610 AAATAAA
1 AAATAAA
67749617 AAATAAA
1 AAATAAA
67749624 AAATAAA
1 AAATAAA
67749631 AAATAAA
1 AAATAAA
*
67749638 AACTAAA
1 AAATAAA
67749645 TGCCAAGTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.83, C:0.03, G:0.00, T:0.14
Consensus pattern (7 bp):
AAATAAA
Found at i:67752707 original size:15 final size:15
Alignment explanation
Indices: 67752687--67752724 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
67752677 CAGAATCATA
67752687 TTTTTAACT-ATTTAT
1 TTTTTAA-TGATTTAT
67752702 TTTTTAATGATTTAT
1 TTTTTAATGATTTAT
67752717 TTATTTAA
1 TT-TTTAA
67752725 ATCGGATGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 1 0.05
15 15 0.71
16 5 0.24
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.66
Consensus pattern (15 bp):
TTTTTAATGATTTAT
Found at i:67753784 original size:55 final size:55
Alignment explanation
Indices: 67753700--67753811 Score: 224
Period size: 55 Copynumber: 2.0 Consensus size: 55
67753690 ATAAAATGTG
67753700 TTAATATCATACTTAAGTCTGATCCGAACCTGGTCTAGCTCATGAATACCTCTAT
1 TTAATATCATACTTAAGTCTGATCCGAACCTGGTCTAGCTCATGAATACCTCTAT
67753755 TTAATATCATACTTAAGTCTGATCCGAACCTGGTCTAGCTCATGAATACCTCTAT
1 TTAATATCATACTTAAGTCTGATCCGAACCTGGTCTAGCTCATGAATACCTCTAT
67753810 TT
1 TT
67753812 GAAACCAGTA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 57 1.00
ACGTcount: A:0.29, C:0.23, G:0.12, T:0.36
Consensus pattern (55 bp):
TTAATATCATACTTAAGTCTGATCCGAACCTGGTCTAGCTCATGAATACCTCTAT
Found at i:67763433 original size:48 final size:48
Alignment explanation
Indices: 67763380--67763503 Score: 142
Period size: 48 Copynumber: 2.6 Consensus size: 48
67763370 GAGGCATAGA
* *
67763380 TAAAAAATGGATAGCATTTAAGCACCAATTTGGACAACATTAATTTGC
1 TAAAAAATGGAAAGCATTTAAGCACCAATTTGGACAACATTAATATGC
* * * * *
67763428 TAAAAATTTGACAA-TATTTAAGCACTAATTTGGACAGCATTAATATGC
1 TAAAAAATGGA-AAGCATTTAAGCACCAATTTGGACAACATTAATATGC
* * *
67763476 TCAAAAATGAAAAGCATTTAAACACCAA
1 TAAAAAATGGAAAGCATTTAAGCACCAA
67763504 CCAAAAAAAT
Statistics
Matches: 60, Mismatches: 14, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
47 2 0.03
48 57 0.95
49 1 0.02
ACGTcount: A:0.45, C:0.15, G:0.12, T:0.28
Consensus pattern (48 bp):
TAAAAAATGGAAAGCATTTAAGCACCAATTTGGACAACATTAATATGC
Found at i:67765144 original size:23 final size:23
Alignment explanation
Indices: 67765101--67765146 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
67765091 GAAAAAGAAT
*
67765101 TAAAATAACAGTATATAATAAAA
1 TAAAATAACAGTACATAATAAAA
*
67765124 TAAAATAA-TGTACATACATAAAA
1 TAAAATAACAGTACATA-ATAAAA
67765147 ATAACTATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.63, C:0.07, G:0.04, T:0.26
Consensus pattern (23 bp):
TAAAATAACAGTACATAATAAAA
Found at i:67767438 original size:37 final size:36
Alignment explanation
Indices: 67767368--67767451 Score: 98
Period size: 37 Copynumber: 2.2 Consensus size: 36
67767358 CCCATGCTCA
*
67767368 AATTAATTTGGCAATACATATATATATCCATACATAC
1 AATTAATTTGGC-ATACATATATATATACATACATAC
*
67767405 AATTCAATTTGGC-TACATATGATATATATATACATAC
1 AATT-AATTTGGCATACATAT-ATATATACATACATAC
*
67767442 ACTTGAATTT
1 AATT-AATTT
67767452 AAAAACATTA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
36 7 0.17
37 26 0.63
38 8 0.20
ACGTcount: A:0.40, C:0.14, G:0.07, T:0.38
Consensus pattern (36 bp):
AATTAATTTGGCATACATATATATATACATACATAC
Found at i:67769394 original size:30 final size:30
Alignment explanation
Indices: 67769358--67769526 Score: 320
Period size: 30 Copynumber: 5.6 Consensus size: 30
67769348 CCCTGATTTG
67769358 GACAGCATTTAAACACCAACCAAAAAAATA
1 GACAGCATTTAAACACCAACCAAAAAAATA
67769388 GACAGCATTTAAACACCAACCAAAAAAATA
1 GACAGCATTTAAACACCAACCAAAAAAATA
*
67769418 GACAGCATTTAAATACCAACCAAAAAAATA
1 GACAGCATTTAAACACCAACCAAAAAAATA
67769448 GACAGCATTTAAACACCAACCAAAAAAATA
1 GACAGCATTTAAACACCAACCAAAAAAATA
*
67769478 GACAGCATTTAAATACCAACCAAAAAAATA
1 GACAGCATTTAAACACCAACCAAAAAAATA
67769508 GACAGCATTTAAACACCAA
1 GACAGCATTTAAACACCAA
67769527 ATGTGGACAG
Statistics
Matches: 135, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 135 1.00
ACGTcount: A:0.56, C:0.22, G:0.07, T:0.15
Consensus pattern (30 bp):
GACAGCATTTAAACACCAACCAAAAAAATA
Found at i:67772863 original size:29 final size:26
Alignment explanation
Indices: 67772820--67772877 Score: 64
Period size: 30 Copynumber: 2.1 Consensus size: 26
67772810 TTGAACTATT
*
67772820 ATTTTTTATATTAATCGAAATAAATAATAC
1 ATTTTTTATACTAAT--AAA-AAATAA-AC
67772850 ATTTTTTA-ACTAATAAAAAATAAAC
1 ATTTTTTATACTAATAAAAAATAAAC
67772875 ATT
1 ATT
67772878 AGCAATGTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
25 5 0.19
26 6 0.22
27 3 0.11
29 5 0.19
30 8 0.30
ACGTcount: A:0.50, C:0.07, G:0.02, T:0.41
Consensus pattern (26 bp):
ATTTTTTATACTAATAAAAAATAAAC
Found at i:67776163 original size:28 final size:28
Alignment explanation
Indices: 67776123--67776180 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 28
67776113 CATTTCATTC
*
67776123 TTTTTCTTTTTTGAATA-TTTATAAACTT
1 TTTTTCTTCTTTGAATATTTTATAAA-TT
*
67776151 TTTTTGTTCTTTGAATATTTTATAAATT
1 TTTTTCTTCTTTGAATATTTTATAAATT
67776179 TT
1 TT
67776181 AGATTATTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
28 19 0.70
29 8 0.30
ACGTcount: A:0.24, C:0.05, G:0.05, T:0.66
Consensus pattern (28 bp):
TTTTTCTTCTTTGAATATTTTATAAATT
Found at i:67778223 original size:19 final size:19
Alignment explanation
Indices: 67778195--67778233 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
67778185 AATAAACACC
*
67778195 AAAAATTTATTTTAAAAAT
1 AAAAAATTATTTTAAAAAT
67778214 AAAAAATTATTTTAAAAAT
1 AAAAAATTATTTTAAAAAT
67778233 A
1 A
67778234 TTTTAAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
AAAAAATTATTTTAAAAAT
Found at i:67779210 original size:14 final size:14
Alignment explanation
Indices: 67779191--67779220 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
67779181 AAGTGTTATG
67779191 AGTGTTCAGGAGGA
1 AGTGTTCAGGAGGA
*
67779205 AGTGTTCTGGAGGA
1 AGTGTTCAGGAGGA
67779219 AG
1 AG
67779221 AAAGGTGACT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.27, C:0.07, G:0.43, T:0.23
Consensus pattern (14 bp):
AGTGTTCAGGAGGA
Found at i:67785782 original size:15 final size:15
Alignment explanation
Indices: 67785759--67785793 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
67785749 AATCATTTAT
*
67785759 TTCATTTCATTTCAA
1 TTCATTTCAATTCAA
*
67785774 TTCAATTCAATTCAA
1 TTCATTTCAATTCAA
67785789 TTCAT
1 TTCAT
67785794 ATATATAATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.31, C:0.20, G:0.00, T:0.49
Consensus pattern (15 bp):
TTCATTTCAATTCAA
Found at i:67785811 original size:20 final size:19
Alignment explanation
Indices: 67785767--67785826 Score: 58
Period size: 20 Copynumber: 3.3 Consensus size: 19
67785757 ATTTCATTTC
67785767 ATTTCAATTCAAT-T--CA
1 ATTTCAATTCAATATCACA
*
67785783 A-TTCAATTCATATAT-ATA
1 ATTTCAATTCA-ATATCACA
67785801 ATTTCACATTCAATATCACA
1 ATTTCA-ATTCAATATCACA
67785821 ATTTCA
1 ATTTCA
67785827 TTCCAATTCA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
15 9 0.25
16 3 0.08
17 1 0.03
18 2 0.06
19 8 0.22
20 13 0.36
ACGTcount: A:0.40, C:0.18, G:0.00, T:0.42
Consensus pattern (19 bp):
ATTTCAATTCAATATCACA
Found at i:67788651 original size:21 final size:21
Alignment explanation
Indices: 67788625--67788667 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
67788615 TATATTCCAC
67788625 AAAAATACAAATTCTAGACAA
1 AAAAATACAAATTCTAGACAA
67788646 AAAAATACAAATTCTAGACAA
1 AAAAATACAAATTCTAGACAA
67788667 A
1 A
67788668 CTCGAGTGCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.63, C:0.14, G:0.05, T:0.19
Consensus pattern (21 bp):
AAAAATACAAATTCTAGACAA
Found at i:67798172 original size:12 final size:12
Alignment explanation
Indices: 67798155--67798180 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
67798145 ATTATAGTTG
67798155 GTTTACGTTATC
1 GTTTACGTTATC
67798167 GTTTACGTTATC
1 GTTTACGTTATC
67798179 GT
1 GT
67798181 CATTTTGCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.15, G:0.19, T:0.50
Consensus pattern (12 bp):
GTTTACGTTATC
Found at i:67799508 original size:163 final size:166
Alignment explanation
Indices: 67799263--67799585 Score: 401
Period size: 163 Copynumber: 2.0 Consensus size: 166
67799253 CCAGTATTGA
* * * * *
67799263 TTTTTTTTTACAATCGGGTCCATGTCCGTTTTATAGTTCATTTTCAAGTTCGAGGTTATCATTCT
1 TTTTTTTTTACAATCGAGTCCATATCCGTTTTATAATTCATGTTCAAGGTCGAGGTTATCATTCT
* * *
67799328 CAACAATCATGGTGTTTATCGTTTATTATCTTGATAC-AA-ACTAAAGCATTCC-ATC-CTCATC
66 CAACAATCATAGTGTTTATCCTTTATTATCTTGATACAAACACTAAACCA--CCGATCAC-CATC
67799389 AAAATCTAAACACCCAT-AAAGCTTCTTCAATAAGTAAT
128 AAAATCTAAACACCCATAAAAGCTTCTTCAATAAGTAAT
* *
67799427 TTTTTTTTTAC-ATCGAGTCCATATCCGTTTTATAATTTATGTTCAGGGTC-AGAGTTATTC-TT
1 TTTTTTTTTACAATCGAGTCCATATCCGTTTTATAATTCATGTTCAAGGTCGAG-GTTA-TCATT
* * *
67799489 GTCAATAATTATAGTGTTTATCCTTTATTATCTTGATACAAACACTAAACCACCGTATCACCATC
64 CTCAACAATCATAGTGTTTATCCTTTATTATCTTGATACAAACACTAAACCACCG-ATCACCATC
*
67799554 AAAATCTAAACACCTATAAAAAGCTTCTTCAA
128 AAAATCTAAACACCCAT-AAAAGCTTCTTCAA
67799586 CAAGCAATCA
Statistics
Matches: 136, Mismatches: 14, Indels: 15
0.82 0.08 0.09
Matches are distributed among these distances:
162 2 0.01
163 74 0.54
164 15 0.11
165 31 0.23
166 1 0.01
167 13 0.10
ACGTcount: A:0.31, C:0.20, G:0.10, T:0.39
Consensus pattern (166 bp):
TTTTTTTTTACAATCGAGTCCATATCCGTTTTATAATTCATGTTCAAGGTCGAGGTTATCATTCT
CAACAATCATAGTGTTTATCCTTTATTATCTTGATACAAACACTAAACCACCGATCACCATCAAA
ATCTAAACACCCATAAAAGCTTCTTCAATAAGTAAT
Found at i:67806051 original size:15 final size:15
Alignment explanation
Indices: 67806031--67806080 Score: 73
Period size: 15 Copynumber: 3.3 Consensus size: 15
67806021 TTCAGAGTCT
67806031 TCATCTCTTTCAACA
1 TCATCTCTTTCAACA
* *
67806046 TCATCTCTTTCCACC
1 TCATCTCTTTCAACA
*
67806061 TCATCTCTTTCAACT
1 TCATCTCTTTCAACA
67806076 TCATC
1 TCATC
67806081 AGCATCTTCT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 31 1.00
ACGTcount: A:0.20, C:0.38, G:0.00, T:0.42
Consensus pattern (15 bp):
TCATCTCTTTCAACA
Found at i:67809095 original size:31 final size:31
Alignment explanation
Indices: 67809057--67809121 Score: 121
Period size: 31 Copynumber: 2.1 Consensus size: 31
67809047 AAATTATAAG
*
67809057 TCATGACTATAAAGGAGAAAGAAAATATTCA
1 TCATGACTAAAAAGGAGAAAGAAAATATTCA
67809088 TCATGACTAAAAAGGAGAAAGAAAATATTCA
1 TCATGACTAAAAAGGAGAAAGAAAATATTCA
67809119 TCA
1 TCA
67809122 CTTATGATTA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.52, C:0.11, G:0.15, T:0.22
Consensus pattern (31 bp):
TCATGACTAAAAAGGAGAAAGAAAATATTCA
Found at i:67809207 original size:71 final size:71
Alignment explanation
Indices: 67809122--67809261 Score: 271
Period size: 71 Copynumber: 2.0 Consensus size: 71
67809112 ATATTCATCA
67809122 CTTATGATTAAGGTCAGGACATCATTTGCAAAATATTCTTACTCTCAAGCATTCTTTCTGCAAAA
1 CTTATGATTAAGGTCAGGACATCATTTGCAAAATATTCTTACTCTCAAGCATTCTTTCTGCAAAA
67809187 ACTTGT
66 ACTTGT
*
67809193 CTTATGATTAAGGTCAGGACATCATTTGCAAAATATTCTTACTCTCAAGTATTCTTTCTGCAAAA
1 CTTATGATTAAGGTCAGGACATCATTTGCAAAATATTCTTACTCTCAAGCATTCTTTCTGCAAAA
67809258 ACTT
66 ACTT
67809262 TTGTCTTCTT
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 68 1.00
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.37
Consensus pattern (71 bp):
CTTATGATTAAGGTCAGGACATCATTTGCAAAATATTCTTACTCTCAAGCATTCTTTCTGCAAAA
ACTTGT
Found at i:67812435 original size:163 final size:162
Alignment explanation
Indices: 67812260--67812736 Score: 590
Period size: 163 Copynumber: 3.0 Consensus size: 162
67812250 AGGACCCTGA
*
67812260 TTCTTTTTTTTTTTGTCTTTCATGACACAATTTACTAATTACTTAGCTATAAATTTAATTTAAAA
1 TTCTTTTTTTTTTTGTCTTTCATGACACAATTTACTAATTACTTAGCTGTAAATTTAATTTAAAA
* * * * * *
67812325 AGTGCATTTGTTAACTAGGAAAGCACACCCTACTAAATACGTTTTTGTTTAACGTCAGCCACCCA
66 AGTGCATTTGTTAACTAGGAAAGCACGCCTTACCAGATACGTTTTTGTATAACGTCAACCACCCA
* * *
67812390 GTCAGCATTGAGGACCCTAATTCTTTTTTCTTT
131 ATCAGCGTTAAGGACCCTAATTCTTTTTTC-TT
* *
67812423 TTCTTTTTTTTTTTGTCTTTCATGATACAAATTACTAATTACTTAGCTGTAAATTTAATTTAAAA
1 TTCTTTTTTTTTTTGTCTTTCATGACACAATTTACTAATTACTTAGCTGTAAATTTAATTTAAAA
* * *
67812488 AGTGCATTTGTTAATTAGTAAAGCACGCCTTACCAGATACGTTTTTGTCTAACGTCAACCACCCA
66 AGTGCATTTGTTAACTAGGAAAGCACGCCTTACCAGATACGTTTTTGTATAACGTCAACCACCCA
*
67812553 ATTAGCGTTAAGG------A--C-----TC--
131 ATCAGCGTTAAGGACCCTAATTCTTTTTTCTT
** * *
67812570 -TGGTTTTTTTTTTGTCTTTCATGACACAATTTACTTATTACTAAGCTGTAAATTTAATTTAAAA
1 TTCTTTTTTTTTTTGTCTTTCATGACACAATTTACTAATTACTTAGCTGTAAATTTAATTTAAAA
* * * *
67812634 AGTACATTTGTTAACTAGGAAAGCACGCTTTACCAGCTACGTTTTTGTATAACGTCAACCACTCA
66 AGTGCATTTGTTAACTAGGAAAGCACGCCTTACCAGATACGTTTTTGTATAACGTCAACCACCCA
* *
67812699 ATCAGCGTTAAGGACCCTAATTTTTTTTTGTCT
131 ATCAGCGTTAAGGACCCTAATTCTTTTTTCT-T
67812732 TTCTT
1 TTCTT
67812737 GACACAATTT
Statistics
Matches: 264, Mismatches: 33, Indels: 34
0.80 0.10 0.10
Matches are distributed among these distances:
146 128 0.48
150 2 0.01
152 1 0.00
155 1 0.00
157 1 0.00
159 1 0.00
163 130 0.49
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.42
Consensus pattern (162 bp):
TTCTTTTTTTTTTTGTCTTTCATGACACAATTTACTAATTACTTAGCTGTAAATTTAATTTAAAA
AGTGCATTTGTTAACTAGGAAAGCACGCCTTACCAGATACGTTTTTGTATAACGTCAACCACCCA
ATCAGCGTTAAGGACCCTAATTCTTTTTTCTT
Found at i:67812584 original size:146 final size:143
Alignment explanation
Indices: 67812425--67812902 Score: 645
Period size: 146 Copynumber: 3.3 Consensus size: 143
67812415 TTTTCTTTTT
* *
67812425 CTTTTTTTTTTTGTCTTTCATGATACAAATTACTAATTACTTAGCTGTAAATTTAATTTAAAAAG
1 CTTTTTTTTTTTGTCTTTCATGACACAATTTACTAATTACTTAGCTGTAAATTTAATTTAAAAAG
* * *
67812490 TGCATTTGTTAATTAGTAAAGCACGCCTTACCAGATACGTTTTTGTCTAACGTCAACCACCCAAT
66 TGCATTTGTTAACTAGAAAAGCACGCCTTACCAGATACGTTTTTGTCTAACGTCAACCACTCAAT
*
67812555 TAGCGTTAAGGAC
131 CAGCGTTAAGGAC
* *
67812568 TCTGGTTTTTTTTTTGTCTTTCATGACACAATTTACTTATTACTAAGCTGTAAATTTAATTTAAA
1 -CT--TTTTTTTTTTGTCTTTCATGACACAATTTACTAATTACTTAGCTGTAAATTTAATTTAAA
* * * * *
67812633 AAGTACATTTGTTAACTAGGAAAGCACGCTTTACCAGCTACGTTTTTGTATAACGTCAACCACTC
63 AAGTGCATTTGTTAACTAGAAAAGCACGCCTTACCAGATACGTTTTTGTCTAACGTCAACCACTC
67812698 AATCAGCGTTAAGGACC
128 AATCAGCGTTAAGGA-C
* * * *
67812715 CTAATTTTTTTTTGTCTTTCTTGACACAATTTACTAATTGCTTAGCTATAAATTTAATTTAAAAA
1 CT-TTTTTTTTTTGTCTTTCATGACACAATTTACTAATTACTTAGCTGTAAATTTAATTTAAAAA
* * * * * * *
67812780 GTGCATTTGTTAACTAAAAAAGTACACCCTACCAGATACATTTTTGTCTAATGTTAACCACTCAA
65 GTGCATTTGTTAACTAGAAAAGCACGCCTTACCAGATACGTTTTTGTCTAACGTCAACCACTCAA
*
67812845 TCAGCATTAAGGAC
130 TCAGCGTTAAGGAC
* * *
67812859 C--TTTTTTTTTATCTTTCATAACACAATTTACTAATTGCTTAGCT
1 CTTTTTTTTTTTGTCTTTCATGACACAATTTACTAATTACTTAGCT
67812903 ATATTCTAAC
Statistics
Matches: 296, Mismatches: 35, Indels: 9
0.87 0.10 0.03
Matches are distributed among these distances:
141 40 0.14
144 4 0.01
145 121 0.41
146 130 0.44
147 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.11, T:0.40
Consensus pattern (143 bp):
CTTTTTTTTTTTGTCTTTCATGACACAATTTACTAATTACTTAGCTGTAAATTTAATTTAAAAAG
TGCATTTGTTAACTAGAAAAGCACGCCTTACCAGATACGTTTTTGTCTAACGTCAACCACTCAAT
CAGCGTTAAGGAC
Found at i:67812720 original size:309 final size:289
Alignment explanation
Indices: 67812157--67812905 Score: 847
Period size: 309 Copynumber: 2.5 Consensus size: 289
67812147 ATATATTTTA
** * *
67812157 TGTAAATTTAATTTAAAAAGTATATTTGTTAACTAGGAAAGCACGCCCTACCAAATACATTTTTG
1 TGTAAATTTAATTTAAAAAGTGCATTTGTTAACTAGAAAAGCACGCCCTACCAGATACATTTTTG
* * *
67812222 TCTAACGTTAGCCACCCAGTCAGCGTTGAGGACCCTGATTCTTTTTTTTTTTGTCTTTCATGACA
66 TCTAACGTTAACCACCCAATCAGCGTTAAGGA-CCTG-----TTTTTTTTTTGTCTTTCATGACA
* *
67812287 CAATTTACTAATTACTTAGCTATAAATTTAATTTAAAAAGTGCATTTGTTAACTAGGAAAGCACA
125 CAATTTACTAATTACTAAGCTATAAATTTAATTTAAAAAGTACATTTGTTAACTAGGAAAGCACA
* * * * *
67812352 CCCTACTAAATACGTTTTTGTTTAACGTCAGCCACCCAGTCAGCATTGAGGACCCTAATTCTTTT
190 CCCTACCAAATACGTTTTTGTATAACGTCAACCACCCAATCAGCATTAAGGACCCTAA-------
*
67812417 TTCTTTTTCTTTTTTTTTTTGTCTTTCATGATACAAATTACTAATTACTTAGC
248 -----------TTTTTTTTTGTCTTTCATGACACAAATTACTAATTACTTAGC
* * * *
67812470 TGTAAATTTAATTTAAAAAGTGCATTTGTTAATTAGTAAAGCACGCCTTACCAGATACGTTTTTG
1 TGTAAATTTAATTTAAAAAGTGCATTTGTTAACTAGAAAAGCACGCCCTACCAGATACATTTTTG
* *
67812535 TCTAACGTCAACCACCCAATTAGCGTTAAGGACTCTGGTTTTTTTTTTGTCTTTCATGACACAAT
66 TCTAACGTTAACCACCCAATCAGCGTTAAGGAC-CT-GTTTTTTTTTTGTCTTTCATGACACAAT
* * * **
67812600 TTACTTATTACTAAGCTGTAAATTTAATTTAAAAAGTACATTTGTTAACTAGGAAAGCACGCTTT
129 TTACTAATTACTAAGCTATAAATTTAATTTAAAAAGTACATTTGTTAACTAGGAAAGCACACCCT
** * *
67812665 ACCAGCTACGTTTTTGTATAACGTCAACCACTCAATCAGCGTTAAGGACCCTAATTTTTTTTTGT
194 ACCAAATACGTTTTTGTATAACGTCAACCACCCAATCAGCATTAAGGACCCTAATTTTTTTTTGT
* * *
67812730 CTTTCTTGACACAATTTACTAATTGCTTAGC
259 CTTTCATGACACAAATTACTAATTACTTAGC
* * * *
67812761 TATAAATTTAATTTAAAAAGTGCATTTGTTAACTAAAAAAGTACACCCTACCAGATACATTTTTG
1 TGTAAATTTAATTTAAAAAGTGCATTTGTTAACTAGAAAAGCACGCCCTACCAGATACATTTTTG
* * * * *
67812826 TCTAATGTTAACCACTCAATCAGCATTAAGGACC---TTTTTTTTTATCTTTCATAACACAATTT
66 TCTAACGTTAACCACCCAATCAGCGTTAAGGACCTGTTTTTTTTTTGTCTTTCATGACACAATTT
* *
67812888 ACTAATTGCTTAGCTATA
131 ACTAATTACTAAGCTATA
67812906 TTCTAACTTA
Statistics
Matches: 383, Mismatches: 51, Indels: 31
0.82 0.11 0.07
Matches are distributed among these distances:
286 40 0.10
290 1 0.00
291 123 0.32
309 130 0.34
312 1 0.00
313 87 0.23
314 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.12, T:0.39
Consensus pattern (289 bp):
TGTAAATTTAATTTAAAAAGTGCATTTGTTAACTAGAAAAGCACGCCCTACCAGATACATTTTTG
TCTAACGTTAACCACCCAATCAGCGTTAAGGACCTGTTTTTTTTTTGTCTTTCATGACACAATTT
ACTAATTACTAAGCTATAAATTTAATTTAAAAAGTACATTTGTTAACTAGGAAAGCACACCCTAC
CAAATACGTTTTTGTATAACGTCAACCACCCAATCAGCATTAAGGACCCTAATTTTTTTTTGTCT
TTCATGACACAAATTACTAATTACTTAGC
Found at i:67813295 original size:24 final size:24
Alignment explanation
Indices: 67813265--67813312 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
67813255 ACTACTAAGT
*
67813265 TTGAAACTTGAAATTAGAGAAGAG
1 TTGAAACTTGAAATGAGAGAAGAG
67813289 TTGAAACTTGAAATGAGAGAAGAG
1 TTGAAACTTGAAATGAGAGAAGAG
67813313 CTAAAAAGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.46, C:0.04, G:0.27, T:0.23
Consensus pattern (24 bp):
TTGAAACTTGAAATGAGAGAAGAG
Found at i:67832136 original size:42 final size:42
Alignment explanation
Indices: 67832089--67832171 Score: 157
Period size: 42 Copynumber: 2.0 Consensus size: 42
67832079 AATATGTGTG
67832089 AAACGTTTGAAATTCAAACATTTGAACTATTGTTCTTATCCA
1 AAACGTTTGAAATTCAAACATTTGAACTATTGTTCTTATCCA
*
67832131 AAACGTTTGAAATTCAAACATTTGAACTCTTGTTCTTATCC
1 AAACGTTTGAAATTCAAACATTTGAACTATTGTTCTTATCC
67832172 CCTTGAATTT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.34, C:0.18, G:0.10, T:0.39
Consensus pattern (42 bp):
AAACGTTTGAAATTCAAACATTTGAACTATTGTTCTTATCCA
Found at i:67839143 original size:17 final size:17
Alignment explanation
Indices: 67839123--67839155 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
67839113 CAAATTCAAT
67839123 AAAGAAACAAA-AAAGAA
1 AAAGAAA-AAATAAAGAA
67839140 AAAGAAAAAATAAAGA
1 AAAGAAAAAATAAAGA
67839156 TTAATTATTC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.82, C:0.03, G:0.12, T:0.03
Consensus pattern (17 bp):
AAAGAAAAAATAAAGAA
Found at i:67844788 original size:15 final size:15
Alignment explanation
Indices: 67844770--67844810 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
67844760 TGATGAAGTT
67844770 GAAAGAGATGAGGTG
1 GAAAGAGATGAGGTG
* *
67844785 GAAAGAGATGATGTT
1 GAAAGAGATGAGGTG
67844800 GAAAGAGATGA
1 GAAAGAGATGA
67844811 AGACTCTGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.44, C:0.00, G:0.39, T:0.17
Consensus pattern (15 bp):
GAAAGAGATGAGGTG
Found at i:67848145 original size:18 final size:18
Alignment explanation
Indices: 67848103--67848137 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
67848093 CCGAAGCTAG
*
67848103 TTATGAAGATGACGATGC
1 TTATGAAGATGACAATGC
*
67848121 TTATGAAGATGATAATG
1 TTATGAAGATGACAATG
67848138 GCTTTGAACA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.37, C:0.06, G:0.26, T:0.31
Consensus pattern (18 bp):
TTATGAAGATGACAATGC
Found at i:67856575 original size:12 final size:12
Alignment explanation
Indices: 67856560--67856598 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
67856550 ATGTATACGT
67856560 ATATCCATATCC
1 ATATCCATATCC
67856572 ATATCCATATCC
1 ATATCCATATCC
* *
67856584 ATATACATATAC
1 ATATCCATATCC
67856596 ATA
1 ATA
67856599 ACAGCTCAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.41, C:0.26, G:0.00, T:0.33
Consensus pattern (12 bp):
ATATCCATATCC
Found at i:67856581 original size:18 final size:18
Alignment explanation
Indices: 67856560--67856598 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
67856550 ATGTATACGT
* *
67856560 ATATCCATATCCATATCC
1 ATATCCATATACATATAC
67856578 ATATCCATATACATATAC
1 ATATCCATATACATATAC
67856596 ATA
1 ATA
67856599 ACAGCTCAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.41, C:0.26, G:0.00, T:0.33
Consensus pattern (18 bp):
ATATCCATATACATATAC
Found at i:67857776 original size:2 final size:2
Alignment explanation
Indices: 67857765--67857797 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
67857755 ATTTTAAAAG
*
67857765 AT AT -T AT AT AT AT AT AT AG AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
67857798 GAAAGGTTGC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:67857983 original size:13 final size:14
Alignment explanation
Indices: 67857965--67857993 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
67857955 AATTGAACGA
67857965 TTTTTTAT-AATTT
1 TTTTTTATGAATTT
67857978 TTTTTTATGAATTT
1 TTTTTTATGAATTT
67857992 TT
1 TT
67857994 AATAATTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (14 bp):
TTTTTTATGAATTT
Found at i:67864723 original size:22 final size:21
Alignment explanation
Indices: 67864688--67864729 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
67864678 TAAACTTTCA
*
67864688 AAATTTTAAAAAATTTTAATT
1 AAATTTTAAAAAATCTTAATT
67864709 AAATTTTCAAAAAATCTTAAT
1 AAATTTT-AAAAAATCTTAAT
67864730 AACACCTACT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (21 bp):
AAATTTTAAAAAATCTTAATT
Found at i:67865802 original size:20 final size:21
Alignment explanation
Indices: 67865777--67865815 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
67865767 TGAGAAGAAG
*
67865777 AGAAAAA-AGAATTAAAATCT
1 AGAAAAATAGAATAAAAATCT
67865797 AGAAAAATAGAATAAAAAT
1 AGAAAAATAGAATAAAAAT
67865816 TTAAAAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.69, C:0.03, G:0.10, T:0.18
Consensus pattern (21 bp):
AGAAAAATAGAATAAAAATCT
Found at i:67873411 original size:31 final size:31
Alignment explanation
Indices: 67873376--67873439 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 31
67873366 TACAAAATGA
*
67873376 TCACTGAACTATTCA-ATAGTTTTCATTTAAG
1 TCACTGAACTATTCAGA-ACTTTTCATTTAAG
*
67873407 TCACTGAACTATTCAGAACTTTTTATTTAAG
1 TCACTGAACTATTCAGAACTTTTCATTTAAG
67873438 TC
1 TC
67873440 TTTGGGTTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 29 0.97
32 1 0.03
ACGTcount: A:0.31, C:0.17, G:0.09, T:0.42
Consensus pattern (31 bp):
TCACTGAACTATTCAGAACTTTTCATTTAAG
Found at i:67880848 original size:6 final size:6
Alignment explanation
Indices: 67880837--67880868 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
67880827 TGAATGTATG
*
67880837 ATATAC ATATAC AAATAC ATATAC ATATAC AT
1 ATATAC ATATAC ATATAC ATATAC ATATAC AT
67880869 GAAGTAAACC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.53, C:0.16, G:0.00, T:0.31
Consensus pattern (6 bp):
ATATAC
Found at i:67889920 original size:43 final size:43
Alignment explanation
Indices: 67889867--67889965 Score: 162
Period size: 43 Copynumber: 2.3 Consensus size: 43
67889857 CGAAACGAAA
*
67889867 GAACAAAGAAAAGGGGAAGTTGGGTCTTGAAAGCTAACAAGAG
1 GAACAAAGAAAAGGAGAAGTTGGGTCTTGAAAGCTAACAAGAG
* *
67889910 GAACAGAGAAAAGGAGAGGTTGGGTCTTGAAAGCTAACAAGAG
1 GAACAAAGAAAAGGAGAAGTTGGGTCTTGAAAGCTAACAAGAG
*
67889953 GCACAAAGAAAAG
1 GAACAAAGAAAAG
67889966 TTTTGGGGGG
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 51 1.00
ACGTcount: A:0.45, C:0.10, G:0.32, T:0.12
Consensus pattern (43 bp):
GAACAAAGAAAAGGAGAAGTTGGGTCTTGAAAGCTAACAAGAG
Found at i:67901495 original size:15 final size:15
Alignment explanation
Indices: 67901472--67901501 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
67901462 ATAGATCAGA
67901472 ATATAAATTTATTAT
1 ATATAAATTTATTAT
*
67901487 ATATTAATTTATTAT
1 ATATAAATTTATTAT
67901502 TTCATCATTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
ATATAAATTTATTAT
Found at i:67904568 original size:18 final size:17
Alignment explanation
Indices: 67904545--67904578 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
67904535 AATCAATTAT
*
67904545 TATATATAAAAAGTATAA
1 TATATA-AAAAAATATAA
67904563 TATATAAAAAAATATA
1 TATATAAAAAAATATA
67904579 TTCTATTCAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (17 bp):
TATATAAAAAAATATAA
Found at i:67915089 original size:22 final size:23
Alignment explanation
Indices: 67915057--67915106 Score: 75
Period size: 22 Copynumber: 2.2 Consensus size: 23
67915047 AATAAACACC
*
67915057 AAAAAATTATTTTAAAAA-ATTT
1 AAAAAAGTATTTTAAAAATATTT
67915079 AAAAAAGTATTTTAAAAATATTT
1 AAAAAAGTATTTTAAAAATATTT
*
67915102 TAAAA
1 AAAAA
67915107 TAAAAAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 17 0.68
23 8 0.32
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (23 bp):
AAAAAAGTATTTTAAAAATATTT
Found at i:67916798 original size:28 final size:28
Alignment explanation
Indices: 67916767--67916826 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 28
67916757 AAAAAGCCCT
67916767 TTTTTTTAA-ATTTACCGAAATAGGCCA
1 TTTTTTTAATATTTACCGAAATAGGCCA
* * *
67916794 CTTTTTTAATTATTTACCGGAATGGGCCA
1 TTTTTTTAA-TATTTACCGAAATAGGCCA
67916823 TTTT
1 TTTT
67916827 CCGCGAAATC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 8 0.30
29 19 0.70
ACGTcount: A:0.27, C:0.15, G:0.13, T:0.45
Consensus pattern (28 bp):
TTTTTTTAATATTTACCGAAATAGGCCA
Found at i:67918563 original size:16 final size:18
Alignment explanation
Indices: 67918524--67918557 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
67918514 TAAGTTTATA
67918524 ATATTT-TATATTATGTT
1 ATATTTATATATTATGTT
*
67918541 ATTTTTATATATTATGT
1 ATATTTATATATTATGT
67918558 AATTTAGAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (18 bp):
ATATTTATATATTATGTT
Found at i:67921001 original size:40 final size:39
Alignment explanation
Indices: 67920957--67921091 Score: 123
Period size: 40 Copynumber: 3.4 Consensus size: 39
67920947 ACCAGTTTGG
*
67920957 CACCCAGTGCCTCATCGGATAAT-TCGAAGTAATAATTTGA
1 CACCCAATGCCTCATCGGATAATCT-GAAGTAATAA-TTGA
** * *
67920997 CACCCAATATCTCATCGGCTAAACTGAAGT-A-AATTGA
1 CACCCAATGCCTCATCGGATAATCTGAAGTAATAATTGA
* * *
67921034 CACACAATGCCTCATTGAATTAATCTGAAGTAATAGATTGA
1 CACCCAATGCCTCATCGGA-TAATCTGAAGTAATA-ATTGA
* *
67921075 CACCCAGTGTCTCATCG
1 CACCCAATGCCTCATCG
67921092 ACTCGAAGTC
Statistics
Matches: 74, Mismatches: 16, Indels: 9
0.75 0.16 0.09
Matches are distributed among these distances:
37 17 0.23
38 12 0.16
39 2 0.03
40 24 0.32
41 19 0.26
ACGTcount: A:0.34, C:0.24, G:0.16, T:0.27
Consensus pattern (39 bp):
CACCCAATGCCTCATCGGATAATCTGAAGTAATAATTGA
Found at i:67925059 original size:9 final size:9
Alignment explanation
Indices: 67925038--67925080 Score: 52
Period size: 9 Copynumber: 4.8 Consensus size: 9
67925028 TTTGATGAAC
*
67925038 TTTTTTATA
1 TTTTTTAAA
67925047 -TTTTTAAA
1 TTTTTTAAA
67925055 TTTTTTATAA
1 TTTTTTA-AA
67925065 TTTTTTAAA
1 TTTTTTAAA
*
67925074 TTATTTA
1 TTTTTTA
67925081 TTGACATGGC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
8 7 0.23
9 14 0.47
10 9 0.30
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (9 bp):
TTTTTTAAA
Found at i:67925060 original size:19 final size:19
Alignment explanation
Indices: 67925038--67925081 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
67925028 TTTGATGAAC
67925038 TTTTTTAT-A-TTTTTAAA
1 TTTTTTATAATTTTTTAAA
67925055 TTTTTTATAATTTTTTAAA
1 TTTTTTATAATTTTTTAAA
*
67925074 TTATTTAT
1 TTTTTTAT
67925082 TGACATGGCG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 8 0.33
18 1 0.04
19 15 0.62
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (19 bp):
TTTTTTATAATTTTTTAAA
Found at i:67932105 original size:14 final size:15
Alignment explanation
Indices: 67932082--67932115 Score: 61
Period size: 14 Copynumber: 2.3 Consensus size: 15
67932072 GTTTATTTTG
67932082 TTTTGATTTTTGTTT
1 TTTTGATTTTTGTTT
67932097 TTTTG-TTTTTGTTT
1 TTTTGATTTTTGTTT
67932111 TTTTG
1 TTTTG
67932116 CAGGCAATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 14 0.74
15 5 0.26
ACGTcount: A:0.03, C:0.00, G:0.15, T:0.82
Consensus pattern (15 bp):
TTTTGATTTTTGTTT
Found at i:67941841 original size:6 final size:6
Alignment explanation
Indices: 67941830--67941859 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
67941820 ATTATAAACA
67941830 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
67941860 AAATTTCAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTAT
Found at i:67943387 original size:60 final size:60
Alignment explanation
Indices: 67943293--67943405 Score: 172
Period size: 60 Copynumber: 1.9 Consensus size: 60
67943283 CTAACTATGC
* * *
67943293 CCTTGCATAACAATGATTGATTGTTTCCATATGATCCTAGACTTAATTATTAGCGTACGA
1 CCTTGCATAACAATGATTAATTGCTTCCAGATGATCCTAGACTTAATTATTAGCGTACGA
* * *
67943353 CCTTGGATAACAATGATTAATTGCTTCTAGATGATTCTAGACTTAATTATTAG
1 CCTTGCATAACAATGATTAATTGCTTCCAGATGATCCTAGACTTAATTATTAG
67943406 TGTAAACTCT
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
60 47 1.00
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.38
Consensus pattern (60 bp):
CCTTGCATAACAATGATTAATTGCTTCCAGATGATCCTAGACTTAATTATTAGCGTACGA
Found at i:67945154 original size:22 final size:21
Alignment explanation
Indices: 67945118--67945159 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
67945108 CTTTCTCCCT
*
67945118 CTTTTTTTTTATTTTAATTTA
1 CTTTGTTTTTATTTTAATTTA
*
67945139 CTTTGTTTTTAGTTTTTATTT
1 CTTTGTTTTTA-TTTTAATTT
67945160 TAAAAGTTAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.14, C:0.05, G:0.05, T:0.76
Consensus pattern (21 bp):
CTTTGTTTTTATTTTAATTTA
Found at i:67945680 original size:29 final size:30
Alignment explanation
Indices: 67945634--67945704 Score: 72
Period size: 30 Copynumber: 2.3 Consensus size: 30
67945624 AAATATTTTT
* **
67945634 ATAATTTTAATA-AGTTTTATTTTTTAAAA
1 ATAATTTTTATATAGTTTTAAATTTTAAAA
**
67945663 ATAATTTTTATATTTTTTTAAATTTTAAAA
1 ATAATTTTTATATAGTTTTAAATTTTAAAA
67945693 ATTAATTATTTA
1 A-TAATT-TTTA
67945705 CTAACATGGC
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
29 11 0.32
30 14 0.41
31 5 0.15
32 4 0.12
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (30 bp):
ATAATTTTTATATAGTTTTAAATTTTAAAA
Found at i:67947379 original size:60 final size:60
Alignment explanation
Indices: 67947285--67947401 Score: 189
Period size: 60 Copynumber: 1.9 Consensus size: 60
67947275 CTAACTATGC
* * *
67947285 CCTTGCATAACAATGATTGATTGTTTCCATATGATCCTAGACTTAATTATTAGTGTACGG
1 CCTTGCATAACAATGATTAATTGCTTCCAGATGATCCTAGACTTAATTATTAGTGTACGG
* *
67947345 CCTTGGATAACAATGATTAATTGCTTCTAGATGATCCTAGACTTAATTATTAGTGTA
1 CCTTGCATAACAATGATTAATTGCTTCCAGATGATCCTAGACTTAATTATTAGTGTA
67947402 AACTCTAGTA
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
60 52 1.00
ACGTcount: A:0.30, C:0.15, G:0.16, T:0.38
Consensus pattern (60 bp):
CCTTGCATAACAATGATTAATTGCTTCCAGATGATCCTAGACTTAATTATTAGTGTACGG
Found at i:67948797 original size:6 final size:6
Alignment explanation
Indices: 67948786--67948821 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
67948776 CTAATAATTT
* *
67948786 AATATA AATATA AATATA AATATT AATATT AATATA
1 AATATA AATATA AATATA AATATA AATATA AATATA
67948822 TATAAATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (6 bp):
AATATA
Found at i:67951565 original size:14 final size:13
Alignment explanation
Indices: 67951542--67951577 Score: 54
Period size: 14 Copynumber: 2.7 Consensus size: 13
67951532 TTGGTATAGT
67951542 AAAAAAAAATGGA
1 AAAAAAAAATGGA
*
67951555 AAAATAAAAATTGA
1 AAAA-AAAAATGGA
67951569 AAAAAAAAA
1 AAAAAAAAA
67951578 GAAAATGTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 9 0.43
14 12 0.57
ACGTcount: A:0.81, C:0.00, G:0.08, T:0.11
Consensus pattern (13 bp):
AAAAAAAAATGGA
Found at i:67953272 original size:16 final size:17
Alignment explanation
Indices: 67953243--67953276 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
67953233 ATAAATTTTA
*
67953243 GTTTTTTCCTCAAAAAT
1 GTTTTGTCCTCAAAAAT
67953260 GTTTTGTCC-CAAAAAT
1 GTTTTGTCCTCAAAAAT
67953276 G
1 G
67953277 CTTCTTAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (17 bp):
GTTTTGTCCTCAAAAAT
Found at i:67954508 original size:18 final size:18
Alignment explanation
Indices: 67954475--67954525 Score: 77
Period size: 18 Copynumber: 2.9 Consensus size: 18
67954465 AAATATATTT
*
67954475 ATTTTTAAAT-TTTTTTA
1 ATTTTAAAATATTTTTTA
67954492 ATTTTAAAATATTTTTTA
1 ATTTTAAAATATTTTTTA
*
67954510 ATTTAAAAATATTTTT
1 ATTTTAAAATATTTTT
67954526 AAAATACTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
17 9 0.29
18 22 0.71
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (18 bp):
ATTTTAAAATATTTTTTA
Found at i:67954568 original size:18 final size:17
Alignment explanation
Indices: 67954465--67954527 Score: 74
Period size: 17 Copynumber: 3.7 Consensus size: 17
67954455 CCAATATAAT
* *
67954465 AAATATATTT-ATTTTT
1 AAATATTTTTAATTTTA
*
67954481 AAATTTTTTTAATTTTA
1 AAATATTTTTAATTTTA
*
67954498 AAATATTTTTTAATTTAA
1 AAATA-TTTTTAATTTTA
67954516 AAATATTTTTAA
1 AAATATTTTTAA
67954528 AATACTTTTT
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
16 8 0.20
17 16 0.40
18 16 0.40
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
AAATATTTTTAATTTTA
Found at i:67954578 original size:31 final size:32
Alignment explanation
Indices: 67954520--67954583 Score: 87
Period size: 31 Copynumber: 2.0 Consensus size: 32
67954510 ATTTAAAAAT
* *
67954520 ATTTTTAAAATACTTTTTTTTTAATTTTTTTA
1 ATTTTTAAAATACTTTTTTTGTAATTTTATTA
67954552 ATTTTTAAAATA-TTTTTTTGGT-ATTTTATTA
1 ATTTTTAAAATACTTTTTTT-GTAATTTTATTA
67954583 A
1 A
67954584 AAAATAGCTG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 16 0.55
32 13 0.45
ACGTcount: A:0.30, C:0.02, G:0.03, T:0.66
Consensus pattern (32 bp):
ATTTTTAAAATACTTTTTTTGTAATTTTATTA
Found at i:67963710 original size:312 final size:312
Alignment explanation
Indices: 67963138--67963751 Score: 943
Period size: 313 Copynumber: 2.0 Consensus size: 312
67963128 CTTAAAACTG
* *
67963138 AAAATAAGATTTCCAAACATGGATAATCATCTTATTTTAATCGAAAAGAAAAAGCAAAAAATAAA
1 AAAATAAGATTTCCAAACATGGATAATCATCTCATTTTAATCAAAAAGAAAAAGCAAAAAAT--A
* * *
67963203 AATAATAAAATTCCTATTCTTAAGTAAGTGAAAAAAAACAACAACTTACATCTACTAAATTATCC
64 AATAATAAAATTCATATTCCTAAGTAAGTGAAAAAAAAAAACAACTTACATCTACTAAATTATCC
**
67963268 ATCGCAAACAACATAGACAAACTTTATGACTTCAAATTTCATAATTTCACTCAAACTTGCAGAGT
129 ATCGCAAACAACATAGACAAACTTTATGACTTCAAATTTCATAATTTCACTCAAACTTGCAGAAC
* * *
67963333 ATATTTAATTTTTAAGAATACATAGAGGTTAACAACTAATTTTCAACTCAAGTAAGTAAGGAAAT
194 ATATTTAATTTTTAACAATACATAGAGATTAACAACTAATTTTCAACTCAAGTAAGCAAGGAAAT
67963398 GACCATAAAAAAAAAT-ATGAAGAATGCAACAATAACGTATCATCTAAAATAAA
259 GACCATAAAAAAAAATAATGAAGAATGCAACAATAACGTATCATCTAAAATAAA
*
67963451 AAAATAAGATTTCCAAACATGGATAATGATCTCATTTTAATCAAAAAGAAAAAGC-AAAAAT-AA
1 AAAATAAGATTTCCAAACATGGATAATCATCTCATTTTAATCAAAAAGAAAAAGCAAAAAATAAA
*
67963514 TAA-AAAATTTCATATTCCTAATTAAGTGAAAAACAATTAATAAACAACTTACATCTACTAAATT
66 TAATAAAA-TTCATATTCCTAAGTAAGTG-AAAA-AA--AA-AAACAACTTACATCTACTAAATT
*
67963578 ATCCATCGCAAACAACATAGACAAACTTTATGACTTCAAA-TTCATAATTTCACT-GAACTTGCA
125 ATCCATCGCAAACAACATAGACAAACTTTATGACTTCAAATTTCATAATTTCACTCAAACTTGCA
* * *
67963641 GAACATATTTAATTTTTAACAATATATAGAGATTAACAACTAATTTTGAACTCAAGTAAGCATGG
190 GAACATATTTAATTTTTAACAATACATAGAGATTAACAACTAATTTTCAACTCAAGTAAGCAAGG
* * *
67963706 AAATGACGATCAACAAAAATAATGAAGAATGCAACAATAACGTATC
255 AAATGACCATAAAAAAAAATAATGAAGAATGCAACAATAACGTATC
67963752 GTATAAACTG
Statistics
Matches: 275, Mismatches: 19, Indels: 14
0.89 0.06 0.05
Matches are distributed among these distances:
308 4 0.01
309 22 0.08
310 4 0.01
311 2 0.01
312 88 0.32
313 93 0.34
314 62 0.23
ACGTcount: A:0.49, C:0.15, G:0.09, T:0.28
Consensus pattern (312 bp):
AAAATAAGATTTCCAAACATGGATAATCATCTCATTTTAATCAAAAAGAAAAAGCAAAAAATAAA
TAATAAAATTCATATTCCTAAGTAAGTGAAAAAAAAAAACAACTTACATCTACTAAATTATCCAT
CGCAAACAACATAGACAAACTTTATGACTTCAAATTTCATAATTTCACTCAAACTTGCAGAACAT
ATTTAATTTTTAACAATACATAGAGATTAACAACTAATTTTCAACTCAAGTAAGCAAGGAAATGA
CCATAAAAAAAAATAATGAAGAATGCAACAATAACGTATCATCTAAAATAAA
Found at i:67965591 original size:40 final size:40
Alignment explanation
Indices: 67965537--67965638 Score: 170
Period size: 40 Copynumber: 2.5 Consensus size: 40
67965527 TAAATATATT
67965537 TATTTTTTAAAATTTTTTAAATTTTAAAATATTTTTAAAA
1 TATTTTTTAAAATTTTTTAAATTTTAAAATATTTTTAAAA
67965577 TATTTTTTAAAATTTTTTAAATTTTAAAATATTTTTAAAA
1 TATTTTTTAAAATTTTTTAAATTTTAAAATATTTTTAAAA
* *
67965617 TACTTTTTT-TAATTTTTAAAAT
1 TA-TTTTTTAAAATTTTTTAAAT
67965639 AAAATTTTAG
Statistics
Matches: 59, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
40 53 0.90
41 6 0.10
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (40 bp):
TATTTTTTAAAATTTTTTAAATTTTAAAATATTTTTAAAA
Found at i:67965618 original size:11 final size:11
Alignment explanation
Indices: 67965540--67965624 Score: 82
Period size: 11 Copynumber: 8.5 Consensus size: 11
67965530 ATATATTTAT
67965540 TTTTTAAAAT-
1 TTTTTAAAATA
67965550 TTTTT--AA-A
1 TTTTTAAAATA
67965558 -TTTTAAAATA
1 TTTTTAAAATA
67965568 TTTTTAAAATA
1 TTTTTAAAATA
67965579 TTTTTTAAAAT-
1 -TTTTTAAAATA
67965590 TTTTT--AA-A
1 TTTTTAAAATA
67965598 -TTTTAAAATA
1 TTTTTAAAATA
67965608 TTTTTAAAATA
1 TTTTTAAAATA
67965619 CTTTTT
1 -TTTTT
67965625 TTAATTTTTA
Statistics
Matches: 63, Mismatches: 0, Indels: 22
0.74 0.00 0.26
Matches are distributed among these distances:
7 8 0.13
8 4 0.06
9 4 0.06
10 12 0.19
11 20 0.32
12 15 0.24
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (11 bp):
TTTTTAAAATA
Found at i:67965646 original size:21 final size:21
Alignment explanation
Indices: 67965607--67965646 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
67965597 ATTTTAAAAT
***
67965607 ATTTTTAAAATACTTTTTTTA
1 ATTTTTAAAATAAAATTTTTA
67965628 ATTTTTAAAATAAAATTTT
1 ATTTTTAAAATAAAATTTT
67965647 AGTATTTATT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (21 bp):
ATTTTTAAAATAAAATTTTTA
Found at i:67979711 original size:12 final size:12
Alignment explanation
Indices: 67979694--67979718 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
67979684 AAAATGATGC
67979694 TATATTAATAAT
1 TATATTAATAAT
67979706 TATATTAATAAT
1 TATATTAATAAT
67979718 T
1 T
67979719 TATGAGAATT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
TATATTAATAAT
Found at i:67987868 original size:94 final size:93
Alignment explanation
Indices: 67987741--67988202 Score: 410
Period size: 94 Copynumber: 4.9 Consensus size: 93
67987731 AACAGCGGGG
67987741 AAAAAATCTAGATCCAGAAATTTGTTAATTTTC-AATTTTCCCCCTAATTTTCCCGTCTCAGAGA
1 AAAAAATCTAGATCCAGAAATTTGTTAATTTTCAAATTTTCCCCCTAATTTTCCCGTCTCAGAGA
*
67987805 AAAATATTACTACAAGAAAAACAACAGGGA
66 AAAATATTACTAAAAGAAAAACAACA--GA
* * * * * *
67987835 AAAGAATCGAAAGCCATAAATTTGTTAATTTTCAAAATTT-CCCCTAATTTTCCCGTCTCAGAGA
1 AAAAAATCTAGATCCAGAAATTTGTTAATTTTCAAATTTTCCCCCTAATTTTCCCGTCTCAGAG-
*
67987899 AAAAATATTACCAAAAGAAAAAC-A-AGA
65 AAAAATATTACTAAAAGAAAAACAACAGA
* * * *
67987926 AAAAAATACCCTAGATCCAGAATTTTGTTGATTTTC-GATTTTCCCCCCTAATTTTCCCGTCTTA
1 AAAAAAT---CTAGATCCAGAAATTTGTTAATTTTCAAATTTT-CCCCCTAATTTTCCCGTCTCA
67987990 GAGAAAAATA-T--T--AAGAAAAACATA-A-A
62 GAGAAAAATATTACTAAAAGAAAAACA-ACAGA
* * ** * * * *
67988016 AAAAAA-ATAGATCCAGAAATCTGTTGGTTTTCGATTTTTCCCCCTAATTTTCCCGTCTTAGACA
1 AAAAAATCTAGATCCAGAAATTTGTTAATTTTCAAATTTTCCCCCTAATTTTCCCGTCTCAGAGA
*
67988080 AAAATATTACTAAAAGAAAAACATGAAGAAGA
66 AAAATATTACTAAAAGAAAAAC---AA-CAGA
* * ** * *
67988112 AAAAAACCTCTAGATCCAGAAATCTGTTGATTTTCGAAATTTTTTTCCCTAATTTTCTCGTCCCA
1 AAAAAA--TCTAGATCCAGAAATTTGTTAATTTTC-AAA-TTTTCCCCCTAATTTTCCCGTCTCA
* *
67988177 GAAAAATAAATATTACCAAAAGAAAA
62 G-AGAA-AAATATTACTAAAAGAAAA
67988203 TATCAATGAT
Statistics
Matches: 303, Mismatches: 37, Indels: 47
0.78 0.10 0.12
Matches are distributed among these distances:
86 52 0.17
87 5 0.02
89 10 0.03
90 7 0.02
91 19 0.06
93 7 0.02
94 80 0.26
95 49 0.16
96 7 0.02
99 24 0.08
100 1 0.00
101 21 0.07
102 3 0.01
103 18 0.06
ACGTcount: A:0.42, C:0.18, G:0.10, T:0.30
Consensus pattern (93 bp):
AAAAAATCTAGATCCAGAAATTTGTTAATTTTCAAATTTTCCCCCTAATTTTCCCGTCTCAGAGA
AAAATATTACTAAAAGAAAAACAACAGA
Found at i:67988116 original size:99 final size:102
Alignment explanation
Indices: 67988013--67988202 Score: 242
Period size: 99 Copynumber: 1.9 Consensus size: 102
67988003 AGAAAAACAT
* **
67988013 AAAAAAAAAATAGATCCAGAAATCTGTTGGTTTTCG-ATTTTTCCCCCTAATTTTCCCGTCTTAG
1 AAAAAAAAAATAGATCCAGAAATCTGTTGATTTTCGAATTTTTCCCCCTAATTTTCCCGTCCCAG
* *
67988077 -ACAA-AAATATTACTAAAAGAAAAACATGAAGAAGA
66 AAAAATAAATATTACCAAAAGAAAAACATGAAGAAGA
**** ** *
67988112 AAAAAACCTCTAGATCCAGAAATCTGTTGATTTTCGAAATTTTTTTCCCTAATTTTCTCGTCCCA
1 AAAAAAAAAATAGATCCAGAAATCTGTTGATTTTCG-AATTTTTCCCCCTAATTTTCCCGTCCCA
67988177 GAAAAATAAATATTACCAAAAGAAAA
65 GAAAAATAAATATTACCAAAAGAAAA
67988203 TATCAATGAT
Statistics
Matches: 75, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
99 31 0.41
101 23 0.31
102 3 0.04
103 18 0.24
ACGTcount: A:0.42, C:0.17, G:0.11, T:0.30
Consensus pattern (102 bp):
AAAAAAAAAATAGATCCAGAAATCTGTTGATTTTCGAATTTTTCCCCCTAATTTTCCCGTCCCAG
AAAAATAAATATTACCAAAAGAAAAACATGAAGAAGA
Found at i:67990026 original size:9 final size:9
Alignment explanation
Indices: 67990012--67990060 Score: 55
Period size: 9 Copynumber: 5.4 Consensus size: 9
67990002 GCAGTGATTC
67990012 AATTCGGTT
1 AATTCGGTT
*
67990021 AATTCGGGT
1 AATTCGGTT
67990030 AATTC-GTGT
1 AATTCGGT-T
* *
67990039 AATCCGATT
1 AATTCGGTT
67990048 AATTCGGTT
1 AATTCGGTT
67990057 AATT
1 AATT
67990061 TTTAACCAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
8 1 0.03
9 30 0.94
10 1 0.03
ACGTcount: A:0.27, C:0.12, G:0.20, T:0.41
Consensus pattern (9 bp):
AATTCGGTT
Found at i:67992496 original size:96 final size:85
Alignment explanation
Indices: 67992458--67992619 Score: 188
Period size: 84 Copynumber: 1.9 Consensus size: 85
67992448 TGTTTTTTTT
* ** *
67992458 ATTCAAATGGACTATTGATTTGGGCATCTGGGTAGTGTTAAATTTT-TTATGGATTTTTGGAATT
1 ATTCAAATGGACTATTGATTTGGGCATCTGGGAAGTGTT-AATTTTGCGATGGATTTTT-GAAAT
*
67992522 TTG-ATGTAGATTCT-AGTATG
64 TTGAATGTAGATTCTAAATATG
* * *
67992542 ATTCAAACGGATTATTTATTTGGGCATCTGGGAAGTGTTAATTTTGCGATGGATTTTT-AAATTT
1 ATTCAAATGGACTATTGATTTGGGCATCTGGGAAGTGTTAATTTTGCGATGGATTTTTGAAATTT
* *
67992606 CAATCTAGATTCTA
66 GAATGTAGATTCTA
67992620 GCGTGAAACT
Statistics
Matches: 66, Mismatches: 9, Indels: 6
0.81 0.11 0.07
Matches are distributed among these distances:
82 5 0.08
83 16 0.24
84 45 0.68
ACGTcount: A:0.27, C:0.08, G:0.22, T:0.44
Consensus pattern (85 bp):
ATTCAAATGGACTATTGATTTGGGCATCTGGGAAGTGTTAATTTTGCGATGGATTTTTGAAATTT
GAATGTAGATTCTAAATATG
Found at i:67992502 original size:97 final size:96
Alignment explanation
Indices: 67992361--67992536 Score: 257
Period size: 96 Copynumber: 1.8 Consensus size: 96
67992351 TTCTAGTATG
67992361 ATTCAAATGGACTAGTGATTTTGGGCATCTGGGAAGTGTTAATTTTGCGATCGATTTTT-GAAAT
1 ATTCAAATGGACTAGTGATTTTGGGCATCTGGGAAGTGTTAATTTT-CGATCGATTTTTGGAAAT
67992425 TTGAATGTAGATTCTAACATGACTGTTTTTTTT
65 TTG-ATGTAGATTCTAACATGACTGTTTTTTTT
* * ** * *
67992458 ATTCAAATGGACTATTGA-TTTGGGCATCTGGGTAGTGTTAAATTTTTTATGGATTTTTGGAATT
1 ATTCAAATGGACTAGTGATTTTGGGCATCTGGGAAGTGTT-AATTTTCGATCGATTTTTGGAAAT
67992522 TTGATGTAGATTCTA
65 TTGATGTAGATTCTA
67992537 GTATGATTCA
Statistics
Matches: 71, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
96 41 0.58
97 30 0.42
ACGTcount: A:0.26, C:0.08, G:0.22, T:0.44
Consensus pattern (96 bp):
ATTCAAATGGACTAGTGATTTTGGGCATCTGGGAAGTGTTAATTTTCGATCGATTTTTGGAAATT
TGATGTAGATTCTAACATGACTGTTTTTTTT
Found at i:67992599 original size:180 final size:179
Alignment explanation
Indices: 67992293--67992619 Score: 494
Period size: 180 Copynumber: 1.8 Consensus size: 179
67992283 GCAAATTTAG
*
67992293 TGATTTGGGCATCTGGGTAATGTTAATTTTGCGGGGATTATTGAAATTTGGATGTAGATTCTAGT
1 TGATTTGGGCATCTGGGTAATGTTAATTTTGCAGGGATTATTGAAATTTGGATGTAGATTCTAGT
*
67992358 ATGATTCAAATGGACTAGTGATTTTGGGCATCTGGGAAGTGTTAATTTTGCGATCGATTTTTGAA
66 ATGATTCAAACGGACTAGTGATTTTGGGCATCTGGGAAGTGTTAATTTTGCGATCGATTTTT-AA
* *
67992423 ATTTGAATGTAGATTCTAACATGACTGTTTTTTTTATTCAAATGGACTAT
130 ATTTCAATCTAGATTCTAACATGACTGTTTTTTTTATTCAAATGGACTAT
* ** * * * *
67992473 TGATTTGGGCATCTGGGTAGTGTTAAATTTTTTATGGATTTTTGGAATTTTGATGTAGATTCTAG
1 TGATTTGGGCATCTGGGTAATGTT-AATTTTGCAGGGATTATTGAAATTTGGATGTAGATTCTAG
* * * *
67992538 TATGATTCAAACGGATTATTTA-TTTGGGCATCTGGGAAGTGTTAATTTTGCGATGGATTTTTAA
65 TATGATTCAAACGGACTAGTGATTTTGGGCATCTGGGAAGTGTTAATTTTGCGATCGATTTTTAA
67992602 ATTTCAATCTAGATTCTA
130 ATTTCAATCTAGATTCTA
67992620 GCGTGAAACT
Statistics
Matches: 131, Mismatches: 15, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
179 18 0.14
180 62 0.47
181 51 0.39
ACGTcount: A:0.26, C:0.08, G:0.23, T:0.43
Consensus pattern (179 bp):
TGATTTGGGCATCTGGGTAATGTTAATTTTGCAGGGATTATTGAAATTTGGATGTAGATTCTAGT
ATGATTCAAACGGACTAGTGATTTTGGGCATCTGGGAAGTGTTAATTTTGCGATCGATTTTTAAA
TTTCAATCTAGATTCTAACATGACTGTTTTTTTTATTCAAATGGACTAT
Found at i:67998062 original size:29 final size:29
Alignment explanation
Indices: 67998015--67998072 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
67998005 TTTGATTCTT
* *
67998015 TTTAATAGTATAGGGACTAAATTGATCCA
1 TTTAATAATAGAGGGACTAAATTGATCCA
* *
67998044 TTTAATAATAGAGGTACTAATTTGATCCA
1 TTTAATAATAGAGGGACTAAATTGATCCA
67998073 ATCTCTGTCA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (29 bp):
TTTAATAATAGAGGGACTAAATTGATCCA
Found at i:68001046 original size:18 final size:20
Alignment explanation
Indices: 68001011--68001051 Score: 59
Period size: 18 Copynumber: 2.1 Consensus size: 20
68001001 ATGTTACGTC
*
68001011 AAAAAAATGATTATAAAAAT
1 AAAAAAATGATTACAAAAAT
68001031 AAAAAAAT-ATT-CAAAAAT
1 AAAAAAATGATTACAAAAAT
68001049 AAA
1 AAA
68001052 TTATAAAAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 9 0.45
19 3 0.15
20 8 0.40
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.22
Consensus pattern (20 bp):
AAAAAAATGATTACAAAAAT
Found at i:68002799 original size:14 final size:15
Alignment explanation
Indices: 68002765--68002796 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
68002755 AATTTTCTAT
68002765 AATT-AAAAACCCTA
1 AATTCAAAAACCCTA
68002779 AATTCAAAAACCCTA
1 AATTCAAAAACCCTA
68002794 AAT
1 AAT
68002797 CAATTCCCTG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.24
15 13 0.76
ACGTcount: A:0.56, C:0.22, G:0.00, T:0.22
Consensus pattern (15 bp):
AATTCAAAAACCCTA
Found at i:68007217 original size:21 final size:20
Alignment explanation
Indices: 68007193--68007231 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
68007183 TTTGGAGATT
*
68007193 AAAACTTGGAATCTTTTTTAA
1 AAAAATTGG-ATCTTTTTTAA
*
68007214 AAAAATTGGGTCTTTTTT
1 AAAAATTGGATCTTTTTT
68007232 TTGGCAGGGA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.33, C:0.08, G:0.13, T:0.46
Consensus pattern (20 bp):
AAAAATTGGATCTTTTTTAA
Found at i:68007691 original size:186 final size:185
Alignment explanation
Indices: 68007328--68008103 Score: 1224
Period size: 192 Copynumber: 4.2 Consensus size: 185
68007318 ATTCCTCAAC
*
68007328 TAGCTGAAATTCAAGAACAAATGGTATCTTTCTTTCTTTCTGTTTTTGTTTATTAATTTTGATTT
1 TAGCTGAAATCCAAGAACAAATGGTATCTTTCTTTCTTTCTGTTTTTGTTTATTAATTTTGATTT
*
68007393 GATAATTATGGATAATTTGATCAATATTTTTACTCTTGTTTTAAGAATTTGAAGTTGTTTTAGTT
66 GATAATTATGGATAATTTGATCAATTTTTTTACTCTTGTTTTAAGAATTTGAAGTTGTTTTAGTT
*
68007458 CATATATATATATATTAGAAGTTAGCTATGCCCTATATG--ATAAATTTTTTTTCTAT
131 CATATATATA-A-ATTAGAAGTTAGCTATGCCCT-TATGTAAGAAATTTTTTTTCTAT
*
68007514 TAGCTGAAATCCAAGAACAAATGGTTTCTTTCTTTCTTTCTGTTTTTGTTTATTAATTTTGATTT
1 TAGCTGAAATCCAAGAACAAATGGTATCTTTCTTTCTTTCTGTTTTTGTTTATTAATTTTGATTT
*
68007579 GATAATTATGGACAATTTGATCAAATTTTTTTACTCTTGTTTTAAGAATTTGAAGTTGTTTTAGT
66 GATAATTATGGATAATTTGATC-AATTTTTTTACTCTTGTTTTAAGAATTTGAAGTTGTTTTAGT
68007644 TCATATATA-AAATTAGAAGTTAGCTATGCCCTTATGTCAAGAAATTTTTTTTTCTAT
130 TCATATATATAAATTAGAAGTTAGCTATGCCCTTATGT-AAGAAA-TTTTTTTTCTAT
* * *
68007701 TAGCTGAAATTCAAGAACAAAT-G-ATATAT-TTTCTTTCTGTTTTTGTTTATTAATTTTGATTT
1 TAGCTGAAATCCAAGAACAAATGGTATCTTTCTTTCTTTCTGTTTTTGTTTATTAATTTTGATTT
* * *
68007763 GATAACTGTGGATAATTTGATCAATCTTTTTACTCTTGTTTTAAGAATTTGAAGTTGTTTTAGTT
66 GATAATTATGGATAATTTGATCAATTTTTTTACTCTTGTTTTAAGAATTTGAAGTTGTTTTAGTT
* * *
68007828 CATATATA-AAATTAGAAGTTAGCTGTGCTCATAGGCCATATGTAAAGAATTTTTTTTTCTAT
131 CATATATATAAATTAGAAGTTA-----GCT-AT-GCCCTTATGT-AAGAAATTTTTTTTCTAT
68007890 TAGCTGAAATCCAAGAACAAATGGTATCTTTCTTTCTTTCTGTTTTTGTTTATTAATTTTGATTT
1 TAGCTGAAATCCAAGAACAAATGGTATCTTTCTTTCTTTCTGTTTTTGTTTATTAATTTTGATTT
* *
68007955 GATAATTATGGATAATTTGGTCAATTTATTTACTCTTGTTTTAAGAATTTGAAGTTGTTTTAGTT
66 GATAATTATGGATAATTTGATCAATTTTTTTACTCTTGTTTTAAGAATTTGAAGTTGTTTTAGTT
*
68008020 CATATATATAGATTAGAAGTTAGCTATGCCCTTATGTAAGAAATTTTTTTTCTAT
131 CATATATATAAATTAGAAGTTAGCTATGCCCTTATGTAAGAAATTTTTTTTCTAT
68008075 TAGCTGAAATCCAAGAACAAATGGTATCT
1 TAGCTGAAATCCAAGAACAAATGGTATCT
68008104 ATATAGATTA
Statistics
Matches: 545, Mismatches: 29, Indels: 33
0.90 0.05 0.05
Matches are distributed among these distances:
183 67 0.12
184 73 0.13
185 50 0.09
186 98 0.18
187 85 0.16
188 6 0.01
189 35 0.06
190 14 0.03
191 4 0.01
192 101 0.19
193 12 0.02
ACGTcount: A:0.29, C:0.10, G:0.14, T:0.48
Consensus pattern (185 bp):
TAGCTGAAATCCAAGAACAAATGGTATCTTTCTTTCTTTCTGTTTTTGTTTATTAATTTTGATTT
GATAATTATGGATAATTTGATCAATTTTTTTACTCTTGTTTTAAGAATTTGAAGTTGTTTTAGTT
CATATATATAAATTAGAAGTTAGCTATGCCCTTATGTAAGAAATTTTTTTTCTAT
Found at i:68008047 original size:376 final size:370
Alignment explanation
Indices: 68007328--68008097 Score: 1255
Period size: 376 Copynumber: 2.1 Consensus size: 370
68007318 ATTCCTCAAC
* *
68007328 TAGCTGAAATTCAAGAACAAATGGTATCTTTCTTTCTTTCTGTTTTTGTTTATTAATTTTGATTT
1 TAGCTGAAATTCAAGAACAAAT-GTATATATCTTTCTTTCTGTTTTTGTTTATTAATTTTGATTT
*
68007393 GATAATTATGGATAATTTGATCAATATTTTTACTCTTGTTTTAAGAATTTGAAGTTGTTTTAGTT
65 GATAACTATGGATAATTTGATCAATATTTTTACTCTTGTTTTAAGAATTTGAAGTTGTTTTAGTT
* *
68007458 CATATATATATATATTAGAAGTTAGCTATGCCCTATATGATAAATTTTTTTTCTATTAGCTGAAA
130 CATATATATATATATTAGAAGTTAGCTATGCCCCATATGAAAAATTTTTTTTCTATTAGCTGAAA
*
68007523 TCCAAGAACAAATGGTTTCTTTCTTTCTTTCTGTTTTTGTTTATTAATTTTGATTTGATAATTAT
195 TCCAAGAACAAATGGTATCTTTCTTTCTTTCTGTTTTTGTTTATTAATTTTGATTTGATAATTAT
*
68007588 GGACAATTTGATCAAATTTTTTTACTCTTGTTTTAAGAATTTGAAGTTGTTTTAGTTCATATATA
260 GGACAATTTGATCAAATTTATTTACTCTTGTTTTAAGAATTTGAAGTTGTTTTAGTTCATATATA
68007653 AAATTAGAAGTTAGCTATGCCCTTATGTCAAGAAATTTTTTTTTCTAT
325 AAATTAGAAGTTAGCTATGCCCTTATGT-AAGAAA-TTTTTTTTCTAT
68007701 TAGCTGAAATTCAAGAACAAATG-ATATAT-TTTCTTTCTGTTTTTGTTTATTAATTTTGATTTG
1 TAGCTGAAATTCAAGAACAAATGTATATATCTTTCTTTCTGTTTTTGTTTATTAATTTTGATTTG
* *
68007764 ATAACTGTGGATAATTTGATCAATCTTTTTACTCTTGTTTTAAGAATTTGAAGTTGTTTTAGTTC
66 ATAACTATGGATAATTTGATCAATATTTTTACTCTTGTTTTAAGAATTTGAAGTTGTTTTAGTTC
*
68007829 ATATATA-A-A-ATTAGAAGTTAGCTGTGCTCATAGGCCATATGTAAAGAATTTTTTTTTCTATT
131 ATATATATATATATTAGAAGTTAGCTATGC-C-----CCATATG-AAA-AA-TTTTTTTTCTATT
68007891 AGCTGAAATCCAAGAACAAATGGTATCTTTCTTTCTTTCTGTTTTTGTTTATTAATTTTGATTTG
187 AGCTGAAATCCAAGAACAAATGGTATCTTTCTTTCTTTCTGTTTTTGTTTATTAATTTTGATTTG
* *
68007956 ATAATTATGGATAATTTGGTC-AATTTATTTACTCTTGTTTTAAGAATTTGAAGTTGTTTTAGTT
252 ATAATTATGGACAATTTGATCAAATTTATTTACTCTTGTTTTAAGAATTTGAAGTTGTTTTAGTT
*
68008020 CATATATATAGATTAGAAGTTAGCTATGCCCTTATGTAAGAAATTTTTTTTCTAT
317 CATATATA-AAATTAGAAGTTAGCTATGCCCTTATGTAAGAAATTTTTTTTCTAT
*
68008075 TAGCTGAAATCCAAGAACAAATG
1 TAGCTGAAATTCAAGAACAAATG
68008098 GTATCTATAT
Statistics
Matches: 373, Mismatches: 14, Indels: 19
0.92 0.03 0.05
Matches are distributed among these distances:
367 17 0.05
368 2 0.01
369 1 0.00
370 103 0.28
371 4 0.01
372 1 0.00
373 28 0.08
374 36 0.10
375 58 0.16
376 123 0.33
ACGTcount: A:0.29, C:0.09, G:0.14, T:0.48
Consensus pattern (370 bp):
TAGCTGAAATTCAAGAACAAATGTATATATCTTTCTTTCTGTTTTTGTTTATTAATTTTGATTTG
ATAACTATGGATAATTTGATCAATATTTTTACTCTTGTTTTAAGAATTTGAAGTTGTTTTAGTTC
ATATATATATATATTAGAAGTTAGCTATGCCCCATATGAAAAATTTTTTTTCTATTAGCTGAAAT
CCAAGAACAAATGGTATCTTTCTTTCTTTCTGTTTTTGTTTATTAATTTTGATTTGATAATTATG
GACAATTTGATCAAATTTATTTACTCTTGTTTTAAGAATTTGAAGTTGTTTTAGTTCATATATAA
AATTAGAAGTTAGCTATGCCCTTATGTAAGAAATTTTTTTTCTAT
Found at i:68008218 original size:122 final size:122
Alignment explanation
Indices: 68008001--68008225 Score: 423
Period size: 122 Copynumber: 1.8 Consensus size: 122
68007991 TGTTTTAAGA
* *
68008001 ATTTGAAGTTGTTTTAGTTCATATATATAGATTAGAAGTTAGCTATGCCCTTATGTAAGAAATTT
1 ATTTGAAGTTGTTTTAGTTCATACATATAGATTAGAAGTTAGCTATGCCCTTATATAAGAAATTT
68008066 TTTTTCTATTAGCTGAAATCCAAGAACAAATGGTATCTATATAGATTAGAAGTTGTT
66 TTTTTCTATTAGCTGAAATCCAAGAACAAATGGTATCTATATAGATTAGAAGTTGTT
*
68008123 ATTTGAAGTTGTTTTAGTTCATACATATAGATTAGAAGTTAGCTATGCCTTTATATAAGAAATTT
1 ATTTGAAGTTGTTTTAGTTCATACATATAGATTAGAAGTTAGCTATGCCCTTATATAAGAAATTT
68008188 TTTTTCTATTAGCTGAAATCCAAGAACAAATGGTATCT
66 TTTTTCTATTAGCTGAAATCCAAGAACAAATGGTATCT
68008226 TTCTTTCTTT
Statistics
Matches: 100, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
122 100 1.00
ACGTcount: A:0.34, C:0.10, G:0.16, T:0.41
Consensus pattern (122 bp):
ATTTGAAGTTGTTTTAGTTCATACATATAGATTAGAAGTTAGCTATGCCCTTATATAAGAAATTT
TTTTTCTATTAGCTGAAATCCAAGAACAAATGGTATCTATATAGATTAGAAGTTGTT
Found at i:68008478 original size:181 final size:180
Alignment explanation
Indices: 68008123--68008530 Score: 667
Period size: 181 Copynumber: 2.2 Consensus size: 180
68008113 AGAAGTTGTT
* **
68008123 ATTTGAAGTTGTTTTAGTTCATACATATAGATTAGAAGTTAGCTATGCCTTTATATAAGAAATTT
1 ATTTGAAGTTGTTTTAGTTCAT--ATATAAATTAGAAGTTAGCTATGCCCATATATAAGAAATTT
68008188 TTTTTCTATTAGCTGAAATCCAAGAACAAATGGTATCTTTCTTTCTTTCTGTTTTTGTTTATTAA
64 TTTTTCTATTAGCTGAAATCCAAGAACAAATGGTA---TTCTTTCTTTCTGTTTTTGTTTATTAA
68008253 TTTTGATTTGATAATTGTGGATAATTTGATCAATTGTTTTACTCTTGTTTTAAGA
126 TTTTGATTTGATAATTGTGGATAATTTGATCAATTGTTTTACTCTTGTTTTAAGA
*
68008308 ATTTGAAATTGTTTTAGTTCATATATAAATTAGAAGTTAGCTATGCCCATATATAAAGAAATTCT
1 ATTTGAAGTTGTTTTAGTTCATATATAAATTAGAAGTTAGCTATGCCCATATAT-AAGAAATT-T
68008373 TTTTTCTATTAGCTGAAATCCAAGAACAAATGGTA-TCTTTCTTTCTGTTTTTGTTTATTAATTT
64 TTTTTCTATTAGCTGAAATCCAAGAACAAATGGTATTCTTTCTTTCTGTTTTTGTTTATTAATTT
68008437 TGATTTGATAATTGTGGATAATTTGATCAATCT-TTTTACTCTTGTTTTAAGA
129 TGATTTGATAATTGTGGATAATTTGATCAAT-TGTTTTACTCTTGTTTTAAGA
* *
68008489 ATTTGAAGTTGTTTTTGTTCATTTATAAAGTTAGAAGTTAGC
1 ATTTGAAGTTGTTTTAGTTCATATATAAA-TTAGAAGTTAGC
68008531 GGTGCTCATA
Statistics
Matches: 212, Mismatches: 7, Indels: 11
0.92 0.03 0.05
Matches are distributed among these distances:
181 105 0.50
182 13 0.06
183 29 0.14
184 8 0.04
185 57 0.27
ACGTcount: A:0.29, C:0.09, G:0.14, T:0.48
Consensus pattern (180 bp):
ATTTGAAGTTGTTTTAGTTCATATATAAATTAGAAGTTAGCTATGCCCATATATAAGAAATTTTT
TTTCTATTAGCTGAAATCCAAGAACAAATGGTATTCTTTCTTTCTGTTTTTGTTTATTAATTTTG
ATTTGATAATTGTGGATAATTTGATCAATTGTTTTACTCTTGTTTTAAGA
Found at i:68009336 original size:85 final size:84
Alignment explanation
Indices: 68009181--68009343 Score: 220
Period size: 85 Copynumber: 1.9 Consensus size: 84
68009171 TTTTTTCTGC
* ** * * *
68009181 TTTCTTTTCGTTGAAGTTTGCTAAGAAACACAATAGATTTCCTTTTAATGGAATATCGAAGGCAT
1 TTTCCTTTCGTTGAAGCATGCTAAGAAACACAATAGATTTCCTTTCAATGGAATATCAAAGCCAT
*
68009246 TGGAGGATTAGTTTATGCA
66 CGGAGGATTAGTTTATGCA
* *
68009265 TTTCCTTTCGTTGAAGCATGCATGAA-AAACATAATAGATTTCCTTTCGATGGAATATCAAAGCC
1 TTTCCTTTCGTTGAAGCATGC-T-AAGAAACACAATAGATTTCCTTTCAATGGAATATCAAAGCC
68009329 ATCGGAGGATTAGTT
64 ATCGGAGGATTAGTT
68009344 CGTAGGATGA
Statistics
Matches: 68, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
84 18 0.26
85 48 0.71
86 2 0.03
ACGTcount: A:0.31, C:0.14, G:0.20, T:0.36
Consensus pattern (84 bp):
TTTCCTTTCGTTGAAGCATGCTAAGAAACACAATAGATTTCCTTTCAATGGAATATCAAAGCCAT
CGGAGGATTAGTTTATGCA
Found at i:68011386 original size:17 final size:17
Alignment explanation
Indices: 68011364--68011397 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
68011354 GTCAAGTGCC
68011364 CCTTTGTATGTTTGATG
1 CCTTTGTATGTTTGATG
68011381 CCTTTGTATGTTTGATG
1 CCTTTGTATGTTTGATG
68011398 ATCATGCAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.12, C:0.12, G:0.24, T:0.53
Consensus pattern (17 bp):
CCTTTGTATGTTTGATG
Found at i:68013016 original size:15 final size:16
Alignment explanation
Indices: 68012993--68013025 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
68012983 CAATTTTATT
68012993 AAATAAAAAT-ATATA
1 AAATAAAAATAATATA
*
68013008 AAATTAAAATAATATA
1 AAATAAAAATAATATA
68013024 AA
1 AA
68013026 TGCATTTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (16 bp):
AAATAAAAATAATATA
Found at i:68014731 original size:42 final size:41
Alignment explanation
Indices: 68014665--68014769 Score: 174
Period size: 41 Copynumber: 2.5 Consensus size: 41
68014655 TATTGTTTTC
68014665 TCTTAGCTTATTTTTGCATTTTTATTCAATTTCTGAAGTTAGT
1 TCTTAGCTTA-TTTTGCATTTTTATTCAATTT-TGAAGTTAGT
*
68014708 TCTTAGCTTATTTTGCATTTTTATTTAATTTTGAAGTTAGT
1 TCTTAGCTTATTTTGCATTTTTATTCAATTTTGAAGTTAGT
*
68014749 TCGTAGCTTATTTTGCATTTT
1 TCTTAGCTTATTTTGCATTTT
68014770 ATTACGAATT
Statistics
Matches: 60, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
41 30 0.50
42 20 0.33
43 10 0.17
ACGTcount: A:0.20, C:0.10, G:0.12, T:0.57
Consensus pattern (41 bp):
TCTTAGCTTATTTTGCATTTTTATTCAATTTTGAAGTTAGT
Found at i:68016132 original size:13 final size:13
Alignment explanation
Indices: 68016114--68016139 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
68016104 TATTGATAGA
68016114 CTTCCTTAGCCTG
1 CTTCCTTAGCCTG
68016127 CTTCCTTAGCCTG
1 CTTCCTTAGCCTG
68016140 TATATGGACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.08, C:0.38, G:0.15, T:0.38
Consensus pattern (13 bp):
CTTCCTTAGCCTG
Found at i:68018935 original size:54 final size:55
Alignment explanation
Indices: 68018793--68018938 Score: 158
Period size: 54 Copynumber: 2.7 Consensus size: 55
68018783 ATTTCTGGAG
* * * *
68018793 ATCA-AATTTCTAGAAGGGAATCAACCTTCACTCCCGGTAGGATAATTGCTCGAA
1 ATCAGAATTTCTAGAAGGGAATCAACCTTCACTTCTGATAGGATAATTACTCGAA
* * ** *
68018847 ATCAGAA-TTCTAGAAAGGAATCAACCTTCGCTTCTGATAGGATCGTTAC-CATAA
1 ATCAGAATTTCTAGAAGGGAATCAACCTTCACTTCTGATAGGATAATTACTC-GAA
68018901 ATC-GAATTTCTAGAAGGGAATCAACC-TCTACTTCTGAT
1 ATCAGAATTTCTAGAAGGGAATCAACCTTC-ACTTCTGAT
68018939 GGGGTCATTA
Statistics
Matches: 77, Mismatches: 11, Indels: 8
0.80 0.11 0.08
Matches are distributed among these distances:
53 6 0.08
54 69 0.90
55 2 0.03
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (55 bp):
ATCAGAATTTCTAGAAGGGAATCAACCTTCACTTCTGATAGGATAATTACTCGAA
Found at i:68027087 original size:174 final size:174
Alignment explanation
Indices: 68026797--68027251 Score: 712
Period size: 174 Copynumber: 2.6 Consensus size: 174
68026787 GTTATTTTCA
* *
68026797 GATGGAAATGAAATTGTATCGATTCGAAATGGTGAAGGTAAGCTTGTTAATACTAGTATATTCCA
1 GATGGAAATGAAATTGTATCGTTTCGAAATGGTGAAGGTAAGCTTGTTAATACTAGTATAATCCA
* * * *
68026862 TGTCTAGGAGCTCATGGAACTTGAAAACTTAATGTGTGATCCTTAATTCATTAAGTGCTCGAATC
66 TGTCTATGAGCTCATAGAACTTGAAAACTTAATGTGTAATCCTTAATTCATTAAGTGCTCAAATC
* *
68026927 AGTACTAAATTTGGTTGCAATTACCTCGTTGTCATTGTTTTCTT
131 AGTACTAAATTTGGTTGCAATAACCTCGTTGTCATTGTTTTCTC
* * * * *
68026971 GATGGAAATGAAATTGTTTTGTTTCGAAATGGTGAAGGTAAGCTTGTTGATACCAGTATACTCCA
1 GATGGAAATGAAATTGTATCGTTTCGAAATGGTGAAGGTAAGCTTGTTAATACTAGTATAATCCA
* *
68027036 TGTCTATGAGCTCATAGAACATGAAAACTTGATGTGTAATCCTTAATTCATTAAGTGCTCAAATC
66 TGTCTATGAGCTCATAGAACTTGAAAACTTAATGTGTAATCCTTAATTCATTAAGTGCTCAAATC
68027101 AGTACTAAATTTGGTTGCAATAACCTCGTTGTCATTGTTTTCTC
131 AGTACTAAATTTGGTTGCAATAACCTCGTTGTCATTGTTTTCTC
* * * *
68027145 AATGGAAACGAAATTGTATCGTTTCAAAATGGTGAATGTAAGCTTGTTAATACTAGTATAATCCA
1 GATGGAAATGAAATTGTATCGTTTCGAAATGGTGAAGGTAAGCTTGTTAATACTAGTATAATCCA
* * *
68027210 AGTATGTGAGCTCATAGAACTTGAAAACTTAATGTGTAATCC
66 TGTCTATGAGCTCATAGAACTTGAAAACTTAATGTGTAATCC
68027252 GGTAAAAGTA
Statistics
Matches: 253, Mismatches: 28, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
174 253 1.00
ACGTcount: A:0.31, C:0.14, G:0.19, T:0.35
Consensus pattern (174 bp):
GATGGAAATGAAATTGTATCGTTTCGAAATGGTGAAGGTAAGCTTGTTAATACTAGTATAATCCA
TGTCTATGAGCTCATAGAACTTGAAAACTTAATGTGTAATCCTTAATTCATTAAGTGCTCAAATC
AGTACTAAATTTGGTTGCAATAACCTCGTTGTCATTGTTTTCTC
Found at i:68038093 original size:20 final size:21
Alignment explanation
Indices: 68038053--68038093 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
68038043 AATTCATAAC
*
68038053 AAAAAATATATATTTATCATA
1 AAAAAATACATATTTATCATA
*
68038074 AAAAAATACCTATTTA-CATA
1 AAAAAATACATATTTATCATA
68038094 TATTATGGTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.56, C:0.10, G:0.00, T:0.34
Consensus pattern (21 bp):
AAAAAATACATATTTATCATA
Found at i:68038381 original size:17 final size:17
Alignment explanation
Indices: 68038354--68038395 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
68038344 TATTTTTATT
68038354 TTTTATAATTTTAATG-AA
1 TTTT-TAATTTTAA-GAAA
*
68038372 TTTTTAATTTTCAGAAA
1 TTTTTAATTTTAAGAAA
68038389 TTTTTAA
1 TTTTTAA
68038396 AAATTTTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 1 0.05
17 17 0.77
18 4 0.18
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.57
Consensus pattern (17 bp):
TTTTTAATTTTAAGAAA
Found at i:68038381 original size:27 final size:29
Alignment explanation
Indices: 68038326--68038406 Score: 73
Period size: 26 Copynumber: 3.0 Consensus size: 29
68038316 ATTTTTCATG
*
68038326 TTTATAAATTTTAAAAAATATTTTTATTT
1 TTTATAAATTTTAAAAAATATTTTAATTT
**
68038355 TTTAT-AATTTTAATGAAT-TTTTAA-TT
1 TTTATAAATTTTAAAAAATATTTTAATTT
* * *
68038381 TTCAGAAATTTT-TAAAA-ATTTTAATT
1 TTTATAAATTTTAAAAAATATTTTAATT
68038407 GAAAATTCAA
Statistics
Matches: 41, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
26 13 0.32
27 12 0.29
28 11 0.27
29 5 0.12
ACGTcount: A:0.40, C:0.01, G:0.02, T:0.57
Consensus pattern (29 bp):
TTTATAAATTTTAAAAAATATTTTAATTT
Found at i:68046638 original size:19 final size:19
Alignment explanation
Indices: 68046614--68046655 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
68046604 AACAACTTTC
68046614 AAAAA-TTCAAAATATTTAT
1 AAAAATTTCAAAAT-TTTAT
*
68046633 AAAAATTTTAAAATTTTAT
1 AAAAATTTCAAAATTTTAT
68046652 AAAA
1 AAAA
68046656 TAATAATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (19 bp):
AAAAATTTCAAAATTTTAT
Found at i:68046896 original size:22 final size:22
Alignment explanation
Indices: 68046871--68046938 Score: 59
Period size: 21 Copynumber: 3.2 Consensus size: 22
68046861 AAAAATTGGT
68046871 TGGACAATCCGGTACGTTGGAA
1 TGGACAATCCGGTACGTTGGAA
* *** ** *
68046893 TGGAAAAT-CAAAAAATTGG-T
1 TGGACAATCCGGTACGTTGGAA
68046913 TGGACAATCCGGTACGTTGGAA
1 TGGACAATCCGGTACGTTGGAA
68046935 TGGA
1 TGGA
68046939 AAAAAAAATC
Statistics
Matches: 30, Mismatches: 14, Indels: 4
0.62 0.29 0.08
Matches are distributed among these distances:
20 7 0.23
21 12 0.40
22 11 0.37
ACGTcount: A:0.34, C:0.13, G:0.29, T:0.24
Consensus pattern (22 bp):
TGGACAATCCGGTACGTTGGAA
Found at i:68046915 original size:42 final size:42
Alignment explanation
Indices: 68046856--68046941 Score: 172
Period size: 42 Copynumber: 2.0 Consensus size: 42
68046846 ATTAAACTCG
68046856 AATCAAAAAATTGGTTGGACAATCCGGTACGTTGGAATGGAA
1 AATCAAAAAATTGGTTGGACAATCCGGTACGTTGGAATGGAA
68046898 AATCAAAAAATTGGTTGGACAATCCGGTACGTTGGAATGGAA
1 AATCAAAAAATTGGTTGGACAATCCGGTACGTTGGAATGGAA
68046940 AA
1 AA
68046942 AAAAATCACC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.40, C:0.12, G:0.26, T:0.23
Consensus pattern (42 bp):
AATCAAAAAATTGGTTGGACAATCCGGTACGTTGGAATGGAA
Found at i:68046921 original size:20 final size:20
Alignment explanation
Indices: 68046856--68046921 Score: 51
Period size: 21 Copynumber: 3.2 Consensus size: 20
68046846 ATTAAACTCG
68046856 AATCAAAAAATTGGTTGGAC
1 AATCAAAAAATTGGTTGGAC
*** ** * *
68046876 AATCCGGTACGTTGGAATGGAA
1 AAT-CAAAAAATTGG-TTGGAC
68046898 AATCAAAAAATTGGTTGGAC
1 AATCAAAAAATTGGTTGGAC
68046918 AATC
1 AATC
68046922 CGGTACGTTG
Statistics
Matches: 30, Mismatches: 14, Indels: 4
0.62 0.29 0.08
Matches are distributed among these distances:
20 11 0.37
21 12 0.40
22 7 0.23
ACGTcount: A:0.41, C:0.12, G:0.23, T:0.24
Consensus pattern (20 bp):
AATCAAAAAATTGGTTGGAC
Found at i:68051141 original size:78 final size:76
Alignment explanation
Indices: 68050981--68051595 Score: 452
Period size: 78 Copynumber: 7.8 Consensus size: 76
68050971 TATTGTGTCT
* * * * * * *
68050981 AAAAAGCAAATATGATTGGAATTTACAATGAGATTGTTTAAAAAAACATCTTAAATGTGTGGTTC
1 AAAAAACATATATGATTAGAACTTATAAAGAGATTGTTCAAAAAAA-ATCTTAAATG-GTGGTTC
68051046 TAGACATTATGTCA
64 TAGACATTATGT-A
* * * *
68051060 AAAAAA-ATAGATGATTAGAATTTATAAAGAGATTGTTCAAAAAAAATCTTGAATGCGTGGTTCA
1 AAAAAACATATATGATTAGAACTTATAAAGAGATTGTTCAAAAAAAATCTTAAATG-GTGGTTCT
*
68051124 AGATATTATGTAA
65 AGACATTATGT-A
* * **
68051137 AAAAAACAGATATGATTAAAACTTATAATTAGATTGTTCAAAAAATAATCTTAAATGGGTGGTTC
1 AAAAAACATATATGATTAGAACTTATAAAGAGATTGTTCAAAAAA-AATCTTAAAT-GGTGG---
* *
68051202 TTCTAGGCATTGTGTCA
61 TTCTAGACATTATGT-A
* *
68051219 AAAGAACATATATGATCAGAACTTATAATA-AGATTGTTCAAAAAAAATCTTAAATGGATGGTTC
1 AAAAAACATATATGATTAGAACTTATAA-AGAGATTGTTCAAAAAAAATCTTAAATGG-TGGTTC
* *
68051283 TAGTCATTGTGTCA
64 TAGACATTATGT-A
* * * * * * * * * *
68051297 AAAAGAGCAGATATGATCAAAACCTATAATGATATTGTTAAAAAAAAACTCTTGAAT--TTGTTC
1 AAAA-AACATATATGATTAGAACTTATAAAGAGATTGTTCAAAAAAAA-TCTTAAATGGTGGTTC
* *
68051360 TAGGCATTGTGTCA
64 TAGACATTATGT-A
* * *
68051374 AAAAATACATATATGATCAGAA-TCTATAATGAGATTGTT-AAAAAAAATGTTAAATGGGTGGTT
1 AAAAA-ACATATATGATTAGAACT-TATAAAGAGATTGTTCAAAAAAAATCTTAAAT-GGTGGTT
* *
68051437 CTAGCCATTGTGTTA
63 CTAGACATTATG-TA
* * * * * * *
68051452 AAAATAGCAGATATGATCAAAACCTATAATGAGATTGTTCAAAAAAAATATCTTAAATGGGTGAT
1 AAAA-AACATATATGATTAGAACTTATAAAGAGATTGTTC-AAAAAAA-ATCTTAAAT-GGTGGT
* *
68051517 TCTAGACGTTGTGTAA
62 TCTAGACATTATGT-A
* * * *
68051533 AAAAGAACAGATATGATCAGAA-TCTATGATGAGATTGTTCAAAAAAAATCTTAAATGAGTGGT
1 AAAA-AACATATATGATTAGAACT-TATAAAGAGATTGTTCAAAAAAAATCTTAAATG-GTGGT
68051596 ATGAGTCAAT
Statistics
Matches: 447, Mismatches: 64, Indels: 50
0.80 0.11 0.09
Matches are distributed among these distances:
75 6 0.01
76 9 0.02
77 82 0.18
78 133 0.30
79 68 0.15
80 25 0.06
81 73 0.16
82 51 0.11
ACGTcount: A:0.43, C:0.09, G:0.17, T:0.32
Consensus pattern (76 bp):
AAAAAACATATATGATTAGAACTTATAAAGAGATTGTTCAAAAAAAATCTTAAATGGTGGTTCTA
GACATTATGTA
Found at i:68051511 original size:236 final size:233
Alignment explanation
Indices: 68051007--68051589 Score: 649
Period size: 236 Copynumber: 2.5 Consensus size: 233
68050997 TGGAATTTAC
* * * * *
68051007 AATGAGATTGTTTAAAAAAACATCTTAAATGTGTGGTTCTAGACATTATGTCAAAAA-AAATAGA
1 AATGAGATTGTTCAAAAAAA-ATCTTAAATG-GTGGTTCTAGACATTGTGTCAAAAAGACAGATA
* * * *
68051071 TGATTAGAATTTATAAAGAGATTGTTCAAAAAAAATCTTGAATGCGTGGTTCAAGATATTATGTA
64 TGATCAGAATCTATAATGAGATTGTTCAAAAAAAATCTTGAAT--GTGGTTCAAGACATTATGTA
* *
68051136 AAAAAAACAGATATGATTAAAACTTATAATTAGATTGTTCAAAAAATAATCTTAAATGGGTGGTT
127 AAAAAAACAGATATGATCAAAACTTATAATGAGATTGTTCAAAAAATAATCTTAAATGGGTGG-T
* * * *
68051201 CTTCTAGGCATTGTGTCAAAAGAACATATATGATCAGAACTTAT
191 -TTCTAGCCATTGTGTCAAAAGAACAGATATGATCAAAACCTAT
* *
68051245 AATAAGATTGTTCAAAAAAAATCTTAAATGGATGGTTCTAGTCATTGTGTCAAAAAGAGCAGATA
1 AATGAGATTGTTCAAAAAAAATCTTAAATGG-TGGTTCTAGACATTGTGTCAAAAAGA-CAGATA
* * * * * * * *
68051310 TGATCAAAACCTATAATGATATTGTTAAAAAAAAACTCTTGAAT-TTGTTCTAGGCATTGTGTCA
64 TGATCAGAATCTATAATGAGATTGTTCAAAAAAAA-TCTTGAATGTGGTTCAAGACATTATGT-A
* * * *
68051374 AAAAATACATATATGATCAGAA-TCTATAATGAGATTGTT-AAAAAA-AATGTTAAATGGGTGG-
127 AAAAAAACAGATATGATCAAAACT-TATAATGAGATTGTTCAAAAAATAATCTTAAATGGGTGGT
*
68051435 TTCTAGCCATTGTGTTAAAA-ATAGCAGATATGATCAAAACCTAT
191 TTCTAGCCATTGTGTCAAAAGA-A-CAGATATGATCAAAACCTAT
* * *
68051479 AATGAGATTGTTCAAAAAAAATATCTTAAATGGGTGATTCTAGACGTTGTGTAAAAAAGAACAGA
1 AATGAGATTGTTC-AAAAAAA-ATCTTAAAT-GGTGGTTCTAGACATTGTGTCAAAAAG-ACAGA
* *
68051544 TATGATCAGAATCTATGATGAGATTGTTCAAAAAAAATCTTAAATG
62 TATGATCAGAATCTATAATGAGATTGTTCAAAAAAAATCTTGAATG
68051590 AGTGGTATGA
Statistics
Matches: 291, Mismatches: 41, Indels: 28
0.81 0.11 0.08
Matches are distributed among these distances:
232 1 0.00
233 19 0.07
234 29 0.10
235 14 0.05
236 82 0.28
237 55 0.19
238 52 0.18
239 31 0.11
240 8 0.03
ACGTcount: A:0.43, C:0.09, G:0.16, T:0.32
Consensus pattern (233 bp):
AATGAGATTGTTCAAAAAAAATCTTAAATGGTGGTTCTAGACATTGTGTCAAAAAGACAGATATG
ATCAGAATCTATAATGAGATTGTTCAAAAAAAATCTTGAATGTGGTTCAAGACATTATGTAAAAA
AAACAGATATGATCAAAACTTATAATGAGATTGTTCAAAAAATAATCTTAAATGGGTGGTTTCTA
GCCATTGTGTCAAAAGAACAGATATGATCAAAACCTAT
Found at i:68052597 original size:3 final size:3
Alignment explanation
Indices: 68052589--68052614 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
68052579 TAGCTTGCTT
68052589 TGA TGA TGA TGA TGA TGA TGA TGA TG
1 TGA TGA TGA TGA TGA TGA TGA TGA TG
68052615 GAGAAGAAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.35, T:0.35
Consensus pattern (3 bp):
TGA
Found at i:68054179 original size:20 final size:22
Alignment explanation
Indices: 68054133--68054181 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 22
68054123 TAAAAAATTT
*
68054133 AAAAATTATAAAGATATTCAAA
1 AAAAATTATAAAGATATCCAAA
68054155 AAAAATTAT-AAGA-ATCCATAA
1 AAAAATTATAAAGATATCCA-AA
68054176 AAAAAT
1 AAAAAT
68054182 CAGCATGAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 4 0.16
21 12 0.48
22 9 0.36
ACGTcount: A:0.65, C:0.06, G:0.04, T:0.24
Consensus pattern (22 bp):
AAAAATTATAAAGATATCCAAA
Found at i:68063436 original size:5 final size:6
Alignment explanation
Indices: 68063421--68063450 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
68063411 GGATTTTGTA
68063421 AAAAAT AAAAAT AAAAAT AAAAATT AAAAA
1 AAAAAT AAAAAT AAAAAT AAAAA-T AAAAA
68063451 AGGGGAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
AAAAAT
Found at i:68064263 original size:22 final size:21
Alignment explanation
Indices: 68064212--68064266 Score: 56
Period size: 24 Copynumber: 2.4 Consensus size: 21
68064202 ATATATAAAA
68064212 TTTTAATAAATATAAAAAATAT
1 TTTTAA-AAATATAAAAAATAT
* *
68064234 TAAATTAAAAATATAAATATATAT
1 T--TTTAAAAATATAAA-AAATAT
68064258 TTTTAAAAA
1 TTTTAAAAA
68064267 AATAGGCGGG
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
22 8 0.30
23 9 0.33
24 10 0.37
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
TTTTAAAAATATAAAAAATAT
Found at i:68064532 original size:30 final size:31
Alignment explanation
Indices: 68064457--68064533 Score: 86
Period size: 30 Copynumber: 2.5 Consensus size: 31
68064447 AAAAACCTGC
* *
68064457 TTAAAATTTTAATTAGGTCCTCTCAAAATTT
1 TTAAAATTTTAATTACGTCCTCTCAAAAGTT
* *
68064488 TTAAAAATTCTAATTACG-CCT-TCCAAAGGTT
1 TT-AAAATTTTAATTACGTCCTCT-CAAAAGTT
68064519 TTAAAATTTTAATTA
1 TTAAAATTTTAATTA
68064534 TATCCTTCAA
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
30 13 0.33
31 13 0.33
32 13 0.33
ACGTcount: A:0.38, C:0.13, G:0.06, T:0.43
Consensus pattern (31 bp):
TTAAAATTTTAATTACGTCCTCTCAAAAGTT
Found at i:68064541 original size:31 final size:31
Alignment explanation
Indices: 68064457--68064541 Score: 75
Period size: 31 Copynumber: 2.7 Consensus size: 31
68064447 AAAAACCTGC
* *
68064457 TTAAAATTTTAATTAGGTCC-TCTCAAAATTT
1 TTAAAATTTTAATTA-ATCCTTCTCAAAAGTT
* ** *
68064488 TTAAAAATTCTAATTACGCCTTC-CAAAGGTT
1 TT-AAAATTTTAATTAATCCTTCTCAAAAGTT
68064519 TTAAAATTTTAATTATATCCTTC
1 TTAAAATTTTAATTA-ATCCTTC
68064542 AAAATTTATT
Statistics
Matches: 43, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
30 12 0.28
31 17 0.40
32 14 0.33
ACGTcount: A:0.35, C:0.15, G:0.06, T:0.44
Consensus pattern (31 bp):
TTAAAATTTTAATTAATCCTTCTCAAAAGTT
Found at i:68067595 original size:17 final size:17
Alignment explanation
Indices: 68067557--68067597 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
68067547 TGATTTTTGA
68067557 ATTTTGAAATTTGAATAT
1 ATTTTG-AATTTGAATAT
68067575 -TTTTGAATTT-ACATAT
1 ATTTTGAATTTGA-ATAT
68067591 ATTTTGA
1 ATTTTGA
68067598 TTTTTTTGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
15 1 0.05
16 9 0.43
17 11 0.52
ACGTcount: A:0.34, C:0.02, G:0.10, T:0.54
Consensus pattern (17 bp):
ATTTTGAATTTGAATAT
Found at i:68070176 original size:16 final size:16
Alignment explanation
Indices: 68070155--68070194 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
68070145 TCAACTTATT
68070155 AGGCCCAAGCCCAACA
1 AGGCCCAAGCCCAACA
*
68070171 AGGCCCAAGCCCAATA
1 AGGCCCAAGCCCAACA
68070187 AGGCCCAA
1 AGGCCCAA
68070195 ATATATTTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.38, C:0.40, G:0.20, T:0.03
Consensus pattern (16 bp):
AGGCCCAAGCCCAACA
Found at i:68072180 original size:11 final size:11
Alignment explanation
Indices: 68072164--68072188 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
68072154 TCTTTAATTA
68072164 TAATATTTTTT
1 TAATATTTTTT
68072175 TAATATTTTTT
1 TAATATTTTTT
68072186 TAA
1 TAA
68072189 AAATTTATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
TAATATTTTTT
Found at i:68075567 original size:37 final size:38
Alignment explanation
Indices: 68075512--68075588 Score: 111
Period size: 37 Copynumber: 2.1 Consensus size: 38
68075502 GATCCAAGTT
* * *
68075512 TTCAGAGGGAATTAATGAGATGCATACATGT-GGGGTA
1 TTCAAAGGGAAATAATGAGATGCATACATGTCGGAGTA
*
68075549 TTCAAAGGGAAATAATGAGATGTATACATGTCGGAGTA
1 TTCAAAGGGAAATAATGAGATGCATACATGTCGGAGTA
68075587 TT
1 TT
68075589 ATGTGGGTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
37 28 0.80
38 7 0.20
ACGTcount: A:0.35, C:0.08, G:0.29, T:0.29
Consensus pattern (38 bp):
TTCAAAGGGAAATAATGAGATGCATACATGTCGGAGTA
Found at i:68080620 original size:10 final size:10
Alignment explanation
Indices: 68080605--68080662 Score: 57
Period size: 10 Copynumber: 5.8 Consensus size: 10
68080595 TTTAAAATAC
68080605 TTTTTTAAAA
1 TTTTTTAAAA
68080615 TTTTTTAAAA
1 TTTTTTAAAA
*
68080625 --TTTTAAAT
1 TTTTTTAAAA
68080633 TTTTTTAAAA
1 TTTTTTAAAA
**
68080643 TACTTTTTAATT
1 T--TTTTTAAAA
68080655 TTTTTTAA
1 TTTTTTAA
68080663 TTTTAAAATA
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
8 7 0.17
10 25 0.62
12 8 0.20
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (10 bp):
TTTTTTAAAA
Found at i:68080654 original size:28 final size:28
Alignment explanation
Indices: 68080575--68080656 Score: 80
Period size: 28 Copynumber: 2.9 Consensus size: 28
68080565 TAAATATTTT
* *
68080575 TATTTTTTTAAA-TTTTTACTTTTAAAA
1 TATTTTTTAAAATTTTTTAATTTTAAAA
68080602 TACTTTTTTAAAATTTTTTAAAATTTT-AAA
1 TA-TTTTTTAAAATTTTTT--AATTTTAAAA
68080632 T-TTTTTTAAAATACTTTTTAATTTT
1 TATTTTTTAAAAT--TTTTTAATTTT
68080657 TTTTAATTTT
Statistics
Matches: 47, Mismatches: 2, Indels: 11
0.78 0.03 0.18
Matches are distributed among these distances:
27 2 0.04
28 26 0.55
29 5 0.11
30 9 0.19
31 5 0.11
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (28 bp):
TATTTTTTAAAATTTTTTAATTTTAAAA
Found at i:68080693 original size:32 final size:31
Alignment explanation
Indices: 68080634--68080712 Score: 101
Period size: 33 Copynumber: 2.6 Consensus size: 31
68080624 ATTTTAAATT
*
68080634 TTTTTAAAAT--ACTTTTTAATTTTTTTTAA
1 TTTTTAAAATAAATTTTTTAATTTTTTTTAA
*
68080663 -TTTTAAAATATATTTTTTAATTTTTGTTTTAA
1 TTTTTAAAATAAATTTTTTAA-TTTT-TTTTAA
68080695 TTTTTAAAATAAATTTTT
1 TTTTTAAAATAAATTTTT
68080713 GATATTTATT
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
28 9 0.21
30 8 0.19
31 4 0.09
32 6 0.14
33 16 0.37
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.65
Consensus pattern (31 bp):
TTTTTAAAATAAATTTTTTAATTTTTTTTAA
Found at i:68096522 original size:26 final size:27
Alignment explanation
Indices: 68096477--68096533 Score: 71
Period size: 26 Copynumber: 2.1 Consensus size: 27
68096467 AATTTAAAAA
** * *
68096477 TATTTTTAAAATACTTTTTTTGTTTTT
1 TATTTTTAAAATACAATTTTTGGTGTT
68096504 TATTTTTAAAATA-AATTTTTGGTGTT
1 TATTTTTAAAATACAATTTTTGGTGTT
68096530 TATT
1 TATT
68096534 AAGAAAAGGG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 13 0.50
27 13 0.50
ACGTcount: A:0.26, C:0.02, G:0.07, T:0.65
Consensus pattern (27 bp):
TATTTTTAAAATACAATTTTTGGTGTT
Found at i:68100089 original size:16 final size:17
Alignment explanation
Indices: 68100053--68100093 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
68100043 TCGATACTCC
68100053 ATTGATCGACCATGGCG
1 ATTGATCGACCATGGCG
68100070 -TTGATCGA-C-TGGTCG
1 ATTGATCGACCATGG-CG
68100085 ATTGATCGA
1 ATTGATCGA
68100094 ATTCAAACCC
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 3 0.14
15 3 0.14
16 16 0.73
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (17 bp):
ATTGATCGACCATGGCG
Found at i:68112139 original size:15 final size:16
Alignment explanation
Indices: 68112113--68112144 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
68112103 CGGTAGCAGC
68112113 ACTGTCCGAAACCGCT
1 ACTGTCCGAAACCGCT
68112129 ACTGT-CGAAACCGCT
1 ACTGTCCGAAACCGCT
68112144 A
1 A
68112145 TTATATTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.28, C:0.34, G:0.19, T:0.19
Consensus pattern (16 bp):
ACTGTCCGAAACCGCT
Found at i:68115842 original size:16 final size:17
Alignment explanation
Indices: 68115806--68115845 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
68115796 TCGATACTTC
68115806 ATTGATCGACCATGGCG
1 ATTGATCGACCATGGCG
68115823 -TTGATCGA-C-TGGTCG
1 ATTGATCGACCATGG-CG
68115838 ATTGATCG
1 ATTGATCG
68115846 GATTCAAGCC
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 3 0.14
15 3 0.14
16 15 0.71
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (17 bp):
ATTGATCGACCATGGCG
Found at i:68123851 original size:22 final size:22
Alignment explanation
Indices: 68123826--68123870 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 22
68123816 AATAATAAAA
68123826 ATATATTTTTAT-ATTAATATTT
1 ATATATTTTTATAATTAA-ATTT
68123848 ATATATTTTTATAATTAAATTT
1 ATATATTTTTATAATTAAATTT
68123870 A
1 A
68123871 AATAAAGATA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 17 0.77
23 5 0.23
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
ATATATTTTTATAATTAAATTT
Found at i:68125398 original size:10 final size:11
Alignment explanation
Indices: 68125369--68125415 Score: 51
Period size: 12 Copynumber: 4.2 Consensus size: 11
68125359 AAAAAAATGT
*
68125369 TAAAATTTATA
1 TAAAAATTATA
68125380 TATAAAATTAT-
1 TA-AAAATTATA
68125391 TAAAAATTATA
1 TAAAAATTATA
*
68125402 TAAAGATATATA
1 TAAAAAT-TATA
68125414 TA
1 TA
68125416 GGCGGGCCTA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
10 8 0.26
11 10 0.32
12 13 0.42
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (11 bp):
TAAAAATTATA
Found at i:68136020 original size:15 final size:15
Alignment explanation
Indices: 68136000--68136032 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
68135990 CTTGAAAGGC
68136000 ATTCTCAATATAATA
1 ATTCTCAATATAATA
*
68136015 ATTCTCAATATACTA
1 ATTCTCAATATAATA
68136030 ATT
1 ATT
68136033 TATAGAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.42, C:0.15, G:0.00, T:0.42
Consensus pattern (15 bp):
ATTCTCAATATAATA
Found at i:68138800 original size:31 final size:31
Alignment explanation
Indices: 68138762--68138824 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
68138752 ATTTGATCAT
*
68138762 TGAACTATTCAGAAGTTTTCATTTAAGTCAC
1 TGAACTATTCAAAAGTTTTCATTTAAGTCAC
*
68138793 TGAACTATTCAAAAGTTTTTATTTAAGTCAC
1 TGAACTATTCAAAAGTTTTCATTTAAGTCAC
68138824 T
1 T
68138825 ACGATGGTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.33, C:0.14, G:0.11, T:0.41
Consensus pattern (31 bp):
TGAACTATTCAAAAGTTTTCATTTAAGTCAC
Found at i:68141905 original size:4 final size:4
Alignment explanation
Indices: 68141896--68141943 Score: 87
Period size: 4 Copynumber: 12.0 Consensus size: 4
68141886 GGCTAGTTTG
*
68141896 AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAAA AAGA
1 AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA
68141944 GGAATGCAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
4 42 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (4 bp):
AAGA
Found at i:68142110 original size:4 final size:4
Alignment explanation
Indices: 68142101--68142149 Score: 98
Period size: 4 Copynumber: 12.2 Consensus size: 4
68142091 GCCCTTTTTA
68142101 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
68142149 A
1 A
68142150 AGAGATGAAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 45 1.00
ACGTcount: A:0.27, C:0.00, G:0.24, T:0.49
Consensus pattern (4 bp):
ATGT
Found at i:68145501 original size:10 final size:9
Alignment explanation
Indices: 68145472--68145529 Score: 55
Period size: 9 Copynumber: 6.2 Consensus size: 9
68145462 TCATCGGTTT
68145472 AAATTA-AA
1 AAATTATAA
68145480 TAAATTATTAA
1 -AAATTA-TAA
68145491 AAATTCATAA
1 AAATT-ATAA
* *
68145501 AATTTTTAA
1 AAATTATAA
*
68145510 AAATTAAAA
1 AAATTATAA
68145519 AAATTATAA
1 AAATTATAA
68145528 AA
1 AA
68145530 TTTGTTTCAA
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
9 25 0.62
10 12 0.30
11 3 0.08
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (9 bp):
AAATTATAA
Found at i:68145503 original size:19 final size:19
Alignment explanation
Indices: 68145472--68145529 Score: 73
Period size: 19 Copynumber: 3.1 Consensus size: 19
68145462 TCATCGGTTT
*
68145472 AAATTAAATAAATTATTAA
1 AAATTAAAAAAATTATTAA
* * *
68145491 AAATTCATAAAATTTTTAA
1 AAATTAAAAAAATTATTAA
68145510 AAATTAAAAAAATTA-TAA
1 AAATTAAAAAAATTATTAA
68145528 AA
1 AA
68145530 TTTGTTTCAA
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
18 5 0.16
19 27 0.84
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (19 bp):
AAATTAAAAAAATTATTAA
Found at i:68147971 original size:34 final size:33
Alignment explanation
Indices: 68147899--68148006 Score: 101
Period size: 34 Copynumber: 3.2 Consensus size: 33
68147889 TTTAGGGGTT
* *
68147899 TTTTTAAAAAATTAATTAAAATAG-GTTTTTGAA
1 TTTTTAAAAAATTAATTAAATTAGAG-TTTAGAA
* **
68147932 ATTTTAAATAAATTAATTAAATTAGAGTTTAGGG
1 TTTTTAAA-AAATTAATTAAATTAGAGTTTAGAA
* * **
68147966 TTTTTAAGAAAATTATTTAAATTATAGTTTAGTT
1 TTTTTAA-AAAATTAATTAAATTAGAGTTTAGAA
68148000 TTTTTAA
1 TTTTTAA
68148007 TAATTTTGTG
Statistics
Matches: 62, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
33 7 0.11
34 53 0.85
35 2 0.03
ACGTcount: A:0.42, C:0.00, G:0.10, T:0.48
Consensus pattern (33 bp):
TTTTTAAAAAATTAATTAAATTAGAGTTTAGAA
Found at i:68148203 original size:126 final size:126
Alignment explanation
Indices: 68148070--68148702 Score: 1007
Period size: 126 Copynumber: 5.0 Consensus size: 126
68148060 TCTATAGTAT
* *
68148070 CTGAAAAAATAATTTTAAGAAGACGGTTCTGAA-AAGATAATGTAAAAAACGCTTCAAGCAGGAT
1 CTGAAAAAATAATTTTGAGAAGACGGTTCTGAACAA-ATAGTGTAAAAAACGCTTCAAGCAGGAT
* * * *
68148134 GCACTGTTAGCAAAATTACTGAAAAAAGCTCCCGCATGGATGCTCTTTTTCTACAATAGTTC
65 GCACTGTTAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTCTTTTTCTACAGTAGTTC
* *
68148196 CTGAAAAAATAATTTTGAGAAGACGGTTCTGAACAAATAGTTTAAAAAACGCTTCAAGTAGGATG
1 CTGAAAAAATAATTTTGAGAAGACGGTTCTGAACAAATAGTGTAAAAAACGCTTCAAGCAGGATG
* * *
68148261 CAATGTTAGCAAAATTACTAAAAAAAGCTCCCACGTGGACACTCTTTTTCTACAGTAGTTC
66 CACTGTTAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTCTTTTTCTACAGTAGTTC
* * ** *
68148322 CTGAAAAAATAATTTTGAGAAGACGGTTATGAACAAATAGTGTCAAAAACATTTCAAGTAGGATG
1 CTGAAAAAATAATTTTGAGAAGACGGTTCTGAACAAATAGTGTAAAAAACGCTTCAAGCAGGATG
* **
68148387 CACTGTCAATAAAATTACTGAAAAAAGCTCCCACGTGGACGCTCTTTTTCTACAGTAGTTC
66 CACTGTTAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTCTTTTTCTACAGTAGTTC
* *
68148448 CTGAAAAAATAATTTTGAGAAGACGGTTCTGAACAAATAGTGTCAAAAATGCTTCAAGCAGGATG
1 CTGAAAAAATAATTTTGAGAAGACGGTTCTGAACAAATAGTGTAAAAAACGCTTCAAGCAGGATG
* * *
68148513 CACTGTTAGCAAAATTACTGAAAAAAGCTCCCACGTGTATGCTGTTTTTCTACAGTAGTTC
66 CACTGTTAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTCTTTTTCTACAGTAGTTC
* *
68148574 CTGAAAAAATAATTTTGAGAAGACAGTTCTGAATAAATAGTGTAAAAAACGCTTCAAGCAGGATG
1 CTGAAAAAATAATTTTGAGAAGACGGTTCTGAACAAATAGTGTAAAAAACGCTTCAAGCAGGATG
*
68148639 CACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTCTTTTTCTACAGTAGTTC
66 CACTGTTAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTCTTTTTCTACAGTAGTTC
68148700 CTG
1 CTG
68148703 TTTGCCCTTA
Statistics
Matches: 465, Mismatches: 41, Indels: 2
0.92 0.08 0.00
Matches are distributed among these distances:
126 463 1.00
127 2 0.00
ACGTcount: A:0.38, C:0.17, G:0.18, T:0.27
Consensus pattern (126 bp):
CTGAAAAAATAATTTTGAGAAGACGGTTCTGAACAAATAGTGTAAAAAACGCTTCAAGCAGGATG
CACTGTTAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTCTTTTTCTACAGTAGTTC
Found at i:68151871 original size:24 final size:24
Alignment explanation
Indices: 68151815--68151871 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 24
68151805 AAGAACTTTT
*
68151815 ATTTTATTAAAAATATAAAAATAA
1 ATTTTATTAAAAATATAAAAACAA
*
68151839 ATTACTATT-AAAATATGAAAAACAA
1 ATT-TTATTAAAAATAT-AAAAACAA
*
68151864 CTTTTATT
1 ATTTTATT
68151872 TTATTAAATG
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
24 14 0.52
25 13 0.48
ACGTcount: A:0.54, C:0.05, G:0.02, T:0.39
Consensus pattern (24 bp):
ATTTTATTAAAAATATAAAAACAA
Done.