Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 273 of 325
Found at i:89325932 original size:31 final size:31
Alignment explanation
Indices: 89325894--89326072 Score: 288
Period size: 31 Copynumber: 5.8 Consensus size: 31
89325884 ACAAATAACA
89325894 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
89325925 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
89325956 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
89325987 AGTGAAAAGTGGTAGCTCCGGCTACCTAATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
89326018 AGTGAAAAATGGTAGC-TCTGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTC-GGCTACCTGATC
*
89326049 AGTGAATAGTGGTAGCTTCGGCTA
1 AGTGAAAAGTGGTAGCTTCGGCTA
89326073 TATGTGACAA
Statistics
Matches: 137, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
30 1 0.01
31 134 0.98
32 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.26
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:89326208 original size:45 final size:47
Alignment explanation
Indices: 89326092--89326212 Score: 156
Period size: 47 Copynumber: 2.6 Consensus size: 47
89326082 AGTGATTTCC
* *
89326092 GTATAAGACCATATCTGGGATATGGCATCGGTGTGATATATGCTACT
1 GTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATACT
* * *
89326139 GTATAAGATCATATCTGGGATATGGCATC-GTGAGATATGTGATTC-
1 GTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATACT
* * *
89326184 GTGTAAGACCATAGCTGGGCTATGGCATC
1 GTATAAGACCATATCTGGGATATGGCATC
89326213 ATTATCTGAA
Statistics
Matches: 65, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
45 25 0.38
46 12 0.18
47 28 0.43
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.31
Consensus pattern (47 bp):
GTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATACT
Found at i:89336150 original size:25 final size:25
Alignment explanation
Indices: 89336116--89336301 Score: 203
Period size: 25 Copynumber: 7.4 Consensus size: 25
89336106 AACTCGAGAC
89336116 TTCTTTGGAAAGCCTTTGTGGCGAA
1 TTCTTTGGAAAGCCTTTGTGGCGAA
* *
89336141 TTCTCTGGAAAGCCTTTGTGGTGAA
1 TTCTTTGGAAAGCCTTTGTGGCGAA
* * *
89336166 TTCTCTAGAAAGCCTTTGTGGCGTA
1 TTCTTTGGAAAGCCTTTGTGGCGAA
* *
89336191 -TCATTTGGAAAACCTTTGTGGCAAA
1 TTC-TTTGGAAAGCCTTTGTGGCGAA
* *
89336216 TTCTTTGGAAAGCCCTTGTGGCGTA
1 TTCTTTGGAAAGCCTTTGTGGCGAA
* * *
89336241 TTATTTGGAAAGCCCTTGTGGCGTA
1 TTCTTTGGAAAGCCTTTGTGGCGAA
* * *
89336266 TTATTTGGAAAGCCTTTTTGGCTAA
1 TTCTTTGGAAAGCCTTTGTGGCGAA
* *
89336291 TTATCTGGAAA
1 TTCTTTGGAAA
89336302 TTCATTATGG
Statistics
Matches: 139, Mismatches: 20, Indels: 4
0.85 0.12 0.02
Matches are distributed among these distances:
24 2 0.01
25 135 0.97
26 2 0.01
ACGTcount: A:0.23, C:0.16, G:0.25, T:0.37
Consensus pattern (25 bp):
TTCTTTGGAAAGCCTTTGTGGCGAA
Found at i:89336252 original size:75 final size:75
Alignment explanation
Indices: 89336119--89336301 Score: 240
Period size: 75 Copynumber: 2.4 Consensus size: 75
89336109 TCGAGACTTC
* * * * *
89336119 TTTGGAAAGCCTTTGTGGCGAATTCTCTGGAAAGCCTTTGTGGTGAATTCTCTAGAAAGCCTTTG
1 TTTGGAAAGCCTTTGTGGCAAATTCTCTGGAAAGCCCTTGTGGCGAATTATCTAGAAAGCCCTTG
89336184 TGGCGTATCA
66 TGGCGTATCA
* * * * *
89336194 TTTGGAAAACCTTTGTGGCAAATTCTTTGGAAAGCCCTTGTGGCGTATTATTTGGAAAGCCCTTG
1 TTTGGAAAGCCTTTGTGGCAAATTCTCTGGAAAGCCCTTGTGGCGAATTATCTAGAAAGCCCTTG
*
89336259 TGGCGTATTA
66 TGGCGTATCA
* * *
89336269 TTTGGAAAGCCTTTTTGGCTAATTATCTGGAAA
1 TTTGGAAAGCCTTTGTGGCAAATTCTCTGGAAA
89336302 TTCATTATGG
Statistics
Matches: 92, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
75 92 1.00
ACGTcount: A:0.23, C:0.16, G:0.25, T:0.36
Consensus pattern (75 bp):
TTTGGAAAGCCTTTGTGGCAAATTCTCTGGAAAGCCCTTGTGGCGAATTATCTAGAAAGCCCTTG
TGGCGTATCA
Found at i:89337596 original size:9 final size:9
Alignment explanation
Indices: 89337582--89337612 Score: 62
Period size: 9 Copynumber: 3.4 Consensus size: 9
89337572 TTTTGAAATA
89337582 TAAAATTAT
1 TAAAATTAT
89337591 TAAAATTAT
1 TAAAATTAT
89337600 TAAAATTAT
1 TAAAATTAT
89337609 TAAA
1 TAAA
89337613 TAATTTTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (9 bp):
TAAAATTAT
Found at i:89339581 original size:14 final size:14
Alignment explanation
Indices: 89339562--89339591 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
89339552 AATTATCTTC
*
89339562 ATTTTAGAAAAGAT
1 ATTTTAAAAAAGAT
89339576 ATTTTAAAAAAGAT
1 ATTTTAAAAAAGAT
89339590 AT
1 AT
89339592 GTATCTAAAA
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:0.53, C:0.00, G:0.10, T:0.37
Consensus pattern (14 bp):
ATTTTAAAAAAGAT
Found at i:89340566 original size:134 final size:134
Alignment explanation
Indices: 89340356--89340629 Score: 435
Period size: 134 Copynumber: 2.0 Consensus size: 134
89340346 CCCTTGCCAA
*
89340356 AACTTCATTTCTTTTGTTTTGATTCAATGAACTTGGTCACAGTTAACCAAGCTTACCAATCCCAT
1 AACTTCATTTCTTTTGTTTTGATTCAATGAACCTGGTCACAGTTAACCAAGCTTACCAATCCCAT
** * *
89340421 TGTTGTCTCTACCTCCTTCATTGTCCCATATTCCTTTTTTTTTCATTTCTTTCACCTCTATTTTC
66 TGTCATCTCTACCTCCTTCATTGTCCCATATTCCCTTTTTTTTCATTTCTTTCACCTCCATTTTC
89340486 TCTC
131 TCTC
* * * *
89340490 AACTTC-TTGTCTTTT-TTTGTGATTCAATGAACCTGGTCATAGTTAACCAAGCTTACTACTCCT
1 AACTTCATT-TCTTTTGTTT-TGATTCAATGAACCTGGTCACAGTTAACCAAGCTTACCAATCCC
89340553 ATTGTCATCTCTACCTCCTTCATTGTCCCATATTCCCTTTTTTTTCATTTCTTTCACCTCCATTT
64 ATTGTCATCTCTACCTCCTTCATTGTCCCATATTCCCTTTTTTTTCATTTCTTTCACCTCCATTT
89340618 TCTCTC
129 TCTCTC
89340624 AACTTC
1 AACTTC
89340630 GAAAAAAGAA
Statistics
Matches: 129, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
133 5 0.04
134 124 0.96
ACGTcount: A:0.19, C:0.28, G:0.07, T:0.46
Consensus pattern (134 bp):
AACTTCATTTCTTTTGTTTTGATTCAATGAACCTGGTCACAGTTAACCAAGCTTACCAATCCCAT
TGTCATCTCTACCTCCTTCATTGTCCCATATTCCCTTTTTTTTCATTTCTTTCACCTCCATTTTC
TCTC
Found at i:89343060 original size:25 final size:24
Alignment explanation
Indices: 89343032--89343091 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 24
89343022 ACTATCGATT
89343032 AGGATGCTCGCAG-GAACTATATAAC
1 AGGATGCTCG-AGTGAACT-TATAAC
**
89343057 AGGATGCTCGAGTGGGCTTATAAC
1 AGGATGCTCGAGTGAACTTATAAC
89343081 AGGATTGCTCG
1 AGGA-TGCTCG
89343092 TCCAAGCTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
24 12 0.39
25 19 0.61
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.23
Consensus pattern (24 bp):
AGGATGCTCGAGTGAACTTATAAC
Found at i:89345441 original size:22 final size:22
Alignment explanation
Indices: 89345416--89345458 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
89345406 TTATGTGGCA
89345416 GTTTATCTG-CAATTATATGGTC
1 GTTTATC-GACAATTATATGGTC
*
89345438 GTTTATCGACAATTATGTGGT
1 GTTTATCGACAATTATATGGT
89345459 AGCTTGTCCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 1 0.05
22 18 0.95
ACGTcount: A:0.23, C:0.12, G:0.21, T:0.44
Consensus pattern (22 bp):
GTTTATCGACAATTATATGGTC
Found at i:89350677 original size:17 final size:18
Alignment explanation
Indices: 89350639--89350678 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
89350629 TGATAATTTT
*
89350639 GAAATTTCTTTTAAATTA
1 GAAATTGCTTTTAAATTA
*
89350657 GAAATTGCTTTTACA-TA
1 GAAATTGCTTTTAAATTA
89350674 GAAAT
1 GAAAT
89350679 GTTAAATTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.40, C:0.07, G:0.10, T:0.42
Consensus pattern (18 bp):
GAAATTGCTTTTAAATTA
Found at i:89352556 original size:15 final size:15
Alignment explanation
Indices: 89352538--89352587 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
89352528 GAAGAAGAAA
*
89352538 TGTCTGAAACTGATG
1 TGTCTGAAAGTGATG
**
89352553 TGTCTGGTAGTGATG
1 TGTCTGAAAGTGATG
* *
89352568 TATCTAAAAGTGATG
1 TGTCTGAAAGTGATG
89352583 TGTCT
1 TGTCT
89352588 AATAGGATAA
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.24, C:0.10, G:0.28, T:0.38
Consensus pattern (15 bp):
TGTCTGAAAGTGATG
Found at i:89354344 original size:77 final size:77
Alignment explanation
Indices: 89354252--89354427 Score: 228
Period size: 77 Copynumber: 2.3 Consensus size: 77
89354242 TTTAGTGAGA
* * * *
89354252 ATTTTTTTATATGCATGTAGTATTTTTTATTTTATCTGTGTATGATTGTTGGTAAGGCTGGT-AG
1 ATTTTTTAATATGCATGTAGTATTTTTTAATTTATCTGTATATGATTGTTGGTAAGGATGGTCA-
89354316 CATGCTATTGACT
65 CATGCTATTGACT
* * * * *
89354329 ATTTTTTAATATGCATGTAGTGTTTTTTAATTTGTTTGTATATGATTGTTGGTAGGGATGGTCAT
1 ATTTTTTAATATGCATGTAGTATTTTTTAATTTATCTGTATATGATTGTTGGTAAGGATGGTCAC
* *
89354394 ATGTTGTTGACT
66 ATGCTATTGACT
*
89354406 ATTTTTTAATATGCATGCAGTA
1 ATTTTTTAATATGCATGTAGTA
89354428 ACTTTTTTTA
Statistics
Matches: 85, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
77 84 0.99
78 1 0.01
ACGTcount: A:0.22, C:0.06, G:0.21, T:0.51
Consensus pattern (77 bp):
ATTTTTTAATATGCATGTAGTATTTTTTAATTTATCTGTATATGATTGTTGGTAAGGATGGTCAC
ATGCTATTGACT
Found at i:89355196 original size:20 final size:21
Alignment explanation
Indices: 89355158--89355214 Score: 64
Period size: 20 Copynumber: 2.8 Consensus size: 21
89355148 AGCAGGAGGC
* *
89355158 TGCCCTAACTCAACTACAA-A
1 TGCCCTAACTCATCAACAATA
*
89355178 CTGCCC-GACTCATCAACAATA
1 -TGCCCTAACTCATCAACAATA
89355199 TGCCCTAACTCATCAA
1 TGCCCTAACTCATCAA
89355215 AAAAGATGTT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
20 15 0.50
21 15 0.50
ACGTcount: A:0.35, C:0.37, G:0.07, T:0.21
Consensus pattern (21 bp):
TGCCCTAACTCATCAACAATA
Found at i:89355211 original size:21 final size:21
Alignment explanation
Indices: 89355157--89355214 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
89355147 CAGCAGGAGG
* *
89355157 CTGCCCTAACTCAACTACAAA
1 CTGCCCTAACTCATCAACAAA
*
89355178 CTGCCC-GACTCATCAACAATA
1 CTGCCCTAACTCATCAACAA-A
89355199 -TGCCCTAACTCATCAA
1 CTGCCCTAACTCATCAA
89355215 AAAAGATGTT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
20 15 0.48
21 16 0.52
ACGTcount: A:0.34, C:0.38, G:0.07, T:0.21
Consensus pattern (21 bp):
CTGCCCTAACTCATCAACAAA
Found at i:89356009 original size:63 final size:63
Alignment explanation
Indices: 89355939--89356073 Score: 216
Period size: 63 Copynumber: 2.1 Consensus size: 63
89355929 ATACTAGCAG
* * **
89355939 CCATGTATAACAACATAAGGAACAATATGCCAACAACAACATTACAAAACATAAGCTGGTTTT
1 CCATGTATAACAACATAAGCAACAATATACCAACAACAACATTACAAAACATAAGCTGGTTAA
* *
89356002 CCATGTATAACAACATAAGCAACAATATACCAGCAACAATATTACAAAACATAAGCTGGTTAA
1 CCATGTATAACAACATAAGCAACAATATACCAACAACAACATTACAAAACATAAGCTGGTTAA
89356065 CCATGTATA
1 CCATGTATA
89356074 CCAGTAGCCA
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
63 66 1.00
ACGTcount: A:0.47, C:0.21, G:0.10, T:0.22
Consensus pattern (63 bp):
CCATGTATAACAACATAAGCAACAATATACCAACAACAACATTACAAAACATAAGCTGGTTAA
Found at i:89358486 original size:23 final size:22
Alignment explanation
Indices: 89358459--89358511 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
89358449 CAAATAGTTG
89358459 CTTATTTTAAATATTGA-TTTCTA
1 CTTATTTTAAA-ATT-ACTTTCTA
*
89358482 CTTATCTTTTAAATTACTTTCTA
1 CTTAT-TTTAAAATTACTTTCTA
*
89358505 TTTATTT
1 CTTATTT
89358512 AAGAGTATCT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
22 3 0.12
23 18 0.69
24 5 0.19
ACGTcount: A:0.26, C:0.11, G:0.02, T:0.60
Consensus pattern (22 bp):
CTTATTTTAAAATTACTTTCTA
Found at i:89358622 original size:37 final size:35
Alignment explanation
Indices: 89358553--89358630 Score: 86
Period size: 37 Copynumber: 2.1 Consensus size: 35
89358543 ATATTTGTTT
* * *
89358553 AATTCTAGTCTTGTTTCTTTGTTCAAAAATAAAATAA
1 AATTCTAGTCTTGTTTC-TAGTCCAAAAAT-AAAGAA
89358590 AATTCTAGTCTTGTTTC-AGTCCGAAAATATAAAGAA
1 AATTCTAGTCTTGTTTCTAGTCC-AAAA-ATAAAGAA
89358626 AATTC
1 AATTC
89358631 AGGGAAAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
35 3 0.08
36 14 0.39
37 19 0.53
ACGTcount: A:0.38, C:0.13, G:0.10, T:0.38
Consensus pattern (35 bp):
AATTCTAGTCTTGTTTCTAGTCCAAAAATAAAGAA
Found at i:89364704 original size:27 final size:27
Alignment explanation
Indices: 89364662--89364713 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
89364652 GAAATGTGAA
*
89364662 AGGGGTTGCTATGTGCTGATTCCCCCG
1 AGGGGTTGCTAAGTGCTGATTCCCCCG
89364689 AGGGGTTGCTAAGTGCTGATTCCCC
1 AGGGGTTGCTAAGTGCTGATTCCCC
89364714 GGTTCATTGG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.13, C:0.25, G:0.33, T:0.29
Consensus pattern (27 bp):
AGGGGTTGCTAAGTGCTGATTCCCCCG
Found at i:89364801 original size:26 final size:26
Alignment explanation
Indices: 89364766--89364815 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
89364756 AAATAAAAAG
*
89364766 GGGGTTGCTATGTGCTGATTCCCCAA
1 GGGGTTGCTAAGTGCTGATTCCCCAA
89364792 GGGGTTGCTAAGTGCTGATTCCCC
1 GGGGTTGCTAAGTGCTGATTCCCC
89364816 GATTAAGTGG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.14, C:0.24, G:0.32, T:0.30
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTGATTCCCCAA
Found at i:89364836 original size:102 final size:103
Alignment explanation
Indices: 89364585--89364840 Score: 390
Period size: 103 Copynumber: 2.5 Consensus size: 103
89364575 GTTGTACATA
** * *
89364585 AAGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGATATCCACCGTATCT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATACACCGTATCT
* **
89364650 TTGAAATGTGAAAGGGGTTGCTATGTGCTGATTCCCCC
66 CTGAAATGAAAAAGGGGTTGCTATGTGCTGATTCCCCC
* *
89364688 GAGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATACACCGTATCT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATACACCGTATCT
89364753 CTGAAAT-AAAAAGGGGGTTGCTATGTGCTGATT-CCCC
66 CTGAAATGAAAAA-GGGGTTGCTATGTGCTGATTCCCCC
* *
89364790 AAGGGGTTGCTAAGTGCTGATTCCCCGATTAAGTGGTGGTGCTAAGTGCGA
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGA
89364841 GATCCACCAA
Statistics
Matches: 139, Mismatches: 13, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
102 54 0.39
103 85 0.61
ACGTcount: A:0.20, C:0.19, G:0.30, T:0.30
Consensus pattern (103 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATACACCGTATCT
CTGAAATGAAAAAGGGGTTGCTATGTGCTGATTCCCCC
Found at i:89374366 original size:12 final size:12
Alignment explanation
Indices: 89374349--89374373 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
89374339 CATTTTAGTT
89374349 TCTCTCATTGTA
1 TCTCTCATTGTA
89374361 TCTCTCATTGTA
1 TCTCTCATTGTA
89374373 T
1 T
89374374 TATCAATGTA
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:0.16, C:0.24, G:0.08, T:0.52
Consensus pattern (12 bp):
TCTCTCATTGTA
Found at i:89375257 original size:18 final size:17
Alignment explanation
Indices: 89375234--89375276 Score: 54
Period size: 18 Copynumber: 2.6 Consensus size: 17
89375224 TGCAATGAAG
89375234 AATAAAAGAAGAGAGAAA
1 AATAAAAGAAGA-AGAAA
*
89375252 AATAAAAG-GGAAGAAA
1 AATAAAAGAAGAAGAAA
89375268 AA-AAAAGAA
1 AATAAAAGAA
89375277 CAAAAAAAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 5 0.23
16 7 0.32
17 2 0.09
18 8 0.36
ACGTcount: A:0.74, C:0.00, G:0.21, T:0.05
Consensus pattern (17 bp):
AATAAAAGAAGAAGAAA
Found at i:89375281 original size:12 final size:12
Alignment explanation
Indices: 89375266--89375294 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
89375256 AAAGGGAAGA
89375266 AAAAAAAAGAAC
1 AAAAAAAAGAAC
89375278 AAAAAAAAGAAC
1 AAAAAAAAGAAC
89375290 AAAAA
1 AAAAA
89375295 TTTAAATTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.86, C:0.07, G:0.07, T:0.00
Consensus pattern (12 bp):
AAAAAAAAGAAC
Found at i:89376349 original size:20 final size:20
Alignment explanation
Indices: 89376326--89376373 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
89376316 TAAATTCTAA
*
89376326 AAAGATAAATACAA-TTAATT
1 AAAGATAAATA-AAGATAATT
89376346 AAAGATAAATAAAGATAATT
1 AAAGATAAATAAAGATAATT
89376366 AAA-ATAAA
1 AAAGATAAA
89376374 ATCTTAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 7 0.27
20 19 0.73
ACGTcount: A:0.67, C:0.02, G:0.06, T:0.25
Consensus pattern (20 bp):
AAAGATAAATAAAGATAATT
Found at i:89378844 original size:26 final size:26
Alignment explanation
Indices: 89378787--89378845 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
89378777 TGTTTTAATA
*
89378787 TTTATTT-TTATGTTTTTAAATATAT
1 TTTATTTATTATATTTTTAAATATAT
* * *
89378812 TTGATTTATTATATTTTTAAATTTTT
1 TTTATTTATTATATTTTTAAATATAT
89378838 TTTATTTA
1 TTTATTTA
89378846 ATGAAATAAG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
25 6 0.21
26 22 0.79
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.69
Consensus pattern (26 bp):
TTTATTTATTATATTTTTAAATATAT
Found at i:89379025 original size:21 final size:20
Alignment explanation
Indices: 89378995--89379035 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
89378985 ATTTTGTCTG
*
89378995 GGCCCAGCCCGAACCTAACCC
1 GGCCCAGCCCG-ACCCAACCC
*
89379016 GGCCCGGCCCGACCCAACCC
1 GGCCCAGCCCGACCCAACCC
89379036 ATGATCACCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.20, C:0.56, G:0.22, T:0.02
Consensus pattern (20 bp):
GGCCCAGCCCGACCCAACCC
Found at i:89379300 original size:23 final size:23
Alignment explanation
Indices: 89379274--89379318 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
89379264 GATTAACATA
89379274 ATAGAAAAGAAA-AGAAGGAGAAG
1 ATAGAAAAGAAAGA-AAGGAGAAG
*
89379297 ATAGAAGAGAAAGAAAGGAGAA
1 ATAGAAAAGAAAGAAAGGAGAA
89379319 AAAATGAGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 19 0.95
24 1 0.05
ACGTcount: A:0.64, C:0.00, G:0.31, T:0.04
Consensus pattern (23 bp):
ATAGAAAAGAAAGAAAGGAGAAG
Found at i:89382176 original size:16 final size:16
Alignment explanation
Indices: 89382154--89382222 Score: 120
Period size: 16 Copynumber: 4.2 Consensus size: 16
89382144 TTTGGTTCGC
89382154 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
89382170 CGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
89382186 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
89382203 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
89382219 TGTA
1 TGTA
89382223 ATAGCTAATC
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
16 34 0.68
17 16 0.32
ACGTcount: A:0.25, C:0.01, G:0.38, T:0.36
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:89382200 original size:33 final size:32
Alignment explanation
Indices: 89382154--89382222 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 32
89382144 TTTGGTTCGC
89382154 TGTATTGGATTAGAGGCGTATTGGATTAGAGG
1 TGTATTGGATTAGAGGCGTATTGGATTAGAGG
*
89382186 TGTATTGGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATT-GGATTAGAGGCGTATTGGATTAGAGG
89382219 TGTA
1 TGTA
89382223 ATAGCTAATC
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 6 0.17
33 29 0.83
ACGTcount: A:0.25, C:0.01, G:0.38, T:0.36
Consensus pattern (32 bp):
TGTATTGGATTAGAGGCGTATTGGATTAGAGG
Found at i:89382287 original size:44 final size:45
Alignment explanation
Indices: 89382203--89382293 Score: 123
Period size: 45 Copynumber: 2.0 Consensus size: 45
89382193 GGATTAGAGG
* * *
89382203 TGTATTGGATTAGAGGTGTAATAGCTAATCCATTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCATTGTTTGGTTGAA
*
89382248 TGTAATGGAATAGAGGCGTAATAG-TAAT-CTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCAT-TGTTTGGTTGAA
89382292 TG
1 TG
89382294 GAATAGAGGT
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
43 2 0.05
44 18 0.44
45 21 0.51
ACGTcount: A:0.27, C:0.05, G:0.29, T:0.38
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCTAATCCATTGTTTGGTTGAA
Found at i:89382480 original size:18 final size:17
Alignment explanation
Indices: 89382459--89382493 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
89382449 TTATTATTAA
*
89382459 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
89382477 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
89382494 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:89382721 original size:18 final size:17
Alignment explanation
Indices: 89382700--89382734 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
89382690 TTATTATTAA
*
89382700 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
89382718 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
89382735 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:89382838 original size:120 final size:120
Alignment explanation
Indices: 89382442--89383066 Score: 1146
Period size: 120 Copynumber: 5.2 Consensus size: 120
89382432 ATCATATTTA
89382442 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
89382507 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
* *
89382562 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGA-T
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAA-T-AATT
89382626 AATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
64 AATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
89382683 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
89382748 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
* *
89382803 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGA-T
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAA-T-AATT
89382867 AATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
64 AATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
89382924 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
89382989 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
89383044 AACATAATTATTATTAAATATAT
1 AACATAATTATTATTAAATATAT
89383067 AACTTGAAAA
Statistics
Matches: 488, Mismatches: 11, Indels: 12
0.95 0.02 0.02
Matches are distributed among these distances:
119 2 0.00
120 253 0.52
121 231 0.47
122 2 0.00
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.44
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
Found at i:89382865 original size:241 final size:241
Alignment explanation
Indices: 89382442--89383066 Score: 1241
Period size: 241 Copynumber: 2.6 Consensus size: 241
89382432 ATCATATTTA
89382442 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
89382507 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTA
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTA
89382572 TTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGATAATATTCTTAT
131 TTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGATAATATTCTTAT
89382637 ATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
196 ATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
89382683 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
89382748 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTA
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTA
89382813 TTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGATAATATTCTTAT
131 TTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGATAATATTCTTAT
89382878 ATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
196 ATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
89382924 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
89382989 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTA
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTA
89383054 TTATTAAATATAT
131 TTATTAAATATAT
89383067 AACTTGAAAA
Statistics
Matches: 383, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
241 383 1.00
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.44
Consensus pattern (241 bp):
AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTA
TTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGATAATATTCTTAT
ATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
Found at i:89382962 original size:18 final size:17
Alignment explanation
Indices: 89382941--89382975 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
89382931 TTATTATTAA
*
89382941 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
89382959 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
89382976 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:89386138 original size:33 final size:33
Alignment explanation
Indices: 89386089--89386197 Score: 127
Period size: 33 Copynumber: 3.3 Consensus size: 33
89386079 ATTATAAAGC
89386089 ATGTATAA-TGACCTAAAATTAATTGTTGGTGT
1 ATGTATAATTGACCTAAAATTAATTGTTGGTGT
* *
89386121 ATGTATAATTGACCTAAAATTACTTGTTGGTTT
1 ATGTATAATTGACCTAAAATTAATTGTTGGTGT
* *
89386154 AATGT-T-ATTGTCCCTAAAA-AACATTGTTGGTGT
1 -ATGTATAATTG-ACCTAAAATTA-ATTGTTGGTGT
89386187 ATGTATAATTG
1 ATGTATAATTG
89386198 TTGGTTTAAT
Statistics
Matches: 65, Mismatches: 6, Indels: 10
0.80 0.07 0.12
Matches are distributed among these distances:
32 17 0.26
33 40 0.62
34 8 0.12
ACGTcount: A:0.32, C:0.08, G:0.17, T:0.42
Consensus pattern (33 bp):
ATGTATAATTGACCTAAAATTAATTGTTGGTGT
Found at i:89386204 original size:51 final size:49
Alignment explanation
Indices: 89386144--89386245 Score: 170
Period size: 51 Copynumber: 2.0 Consensus size: 49
89386134 CTAAAATTAC
89386144 TTGTTGGTTTAATGTTATTGT-CCCTAAAAAACATTGTTGGTGTATGTATAA
1 TTGTTGGTTTAATGTTATT-TACCCTAAAAAA-ATTGTTGGTGTATG-ATAA
89386195 TTGTTGGTTTAATGTTATTTACCCTAAAAAAATTGTTGGTGTATGATAA
1 TTGTTGGTTTAATGTTATTTACCCTAAAAAAATTGTTGGTGTATGATAA
89386244 TT
1 TT
89386246 TTTACGTATA
Statistics
Matches: 50, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
49 6 0.12
50 15 0.30
51 29 0.58
ACGTcount: A:0.28, C:0.07, G:0.19, T:0.46
Consensus pattern (49 bp):
TTGTTGGTTTAATGTTATTTACCCTAAAAAAATTGTTGGTGTATGATAA
Found at i:89386419 original size:86 final size:86
Alignment explanation
Indices: 89386312--89386492 Score: 346
Period size: 86 Copynumber: 2.1 Consensus size: 86
89386302 TTCTCTCCAC
89386312 ATAA-AATTATATCAACATTAATACTTAACAAACAGGTTTCATGTTTATTATTAATTTCAAATTA
1 ATAATAATTATATCAACATTAATACTTAACAAACAGGTTTCATGTTTATTATTAATTTCAAATTA
89386376 TTAATATTAAAGATAAAAATT
66 TTAATATTAAAGATAAAAATT
*
89386397 ATAATAATTATATCAACATTAATACTTAACAAACATGTTTCATGTTTATTATTAATTTCAAATTA
1 ATAATAATTATATCAACATTAATACTTAACAAACAGGTTTCATGTTTATTATTAATTTCAAATTA
89386462 TTAATATTAAAGATAAAAATT
66 TTAATATTAAAGATAAAAATT
89386483 ATAATAATTA
1 ATAATAATTA
89386493 CAATTATATT
Statistics
Matches: 94, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
85 4 0.04
86 90 0.96
ACGTcount: A:0.48, C:0.08, G:0.04, T:0.41
Consensus pattern (86 bp):
ATAATAATTATATCAACATTAATACTTAACAAACAGGTTTCATGTTTATTATTAATTTCAAATTA
TTAATATTAAAGATAAAAATT
Found at i:89391001 original size:17 final size:17
Alignment explanation
Indices: 89390961--89390994 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
89390951 TTATATAAAA
* *
89390961 TTATTATTATTATGGTT
1 TTATAATTATTATGATT
89390978 TTATAATTATTATGATT
1 TTATAATTATTATGATT
89390995 ATTTAATGGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.09, T:0.62
Consensus pattern (17 bp):
TTATAATTATTATGATT
Found at i:89391532 original size:18 final size:18
Alignment explanation
Indices: 89391497--89391532 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
89391487 CGAAACAGGG
*
89391497 GAAAGAAAAGAAGAAAAA
1 GAAAGAAAAAAAGAAAAA
89391515 GAAAGAAAAAAAGGAAAA
1 GAAAGAAAAAAA-GAAAA
89391533 TATAGTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (18 bp):
GAAAGAAAAAAAGAAAAA
Found at i:89395818 original size:79 final size:80
Alignment explanation
Indices: 89395717--89395899 Score: 221
Period size: 79 Copynumber: 2.3 Consensus size: 80
89395707 TACTCGTTCA
* * *
89395717 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATACCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATACCTTC-AGATCTTAACCCGG
* *
89395780 ATTTAGTAAC-TCGCACC
64 ATATAGTAACTTAGCA-C
* **
89395797 AATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCAGATCTTAGTCCGGAT
1 AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATACCTTCAGATCTTAACCCGGAT
*
89395861 ATAGTCACTTAGCAC
66 ATAGTAACTTAGCAC
*
89395876 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
89395900 CATCATTCGG
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 2 0.02
79 59 0.66
80 28 0.31
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATACCTTCAGATCTTAACCCGGAT
ATAGTAACTTAGCAC
Found at i:89395899 original size:40 final size:40
Alignment explanation
Indices: 89395696--89395899 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
89395686 CGGAATTTAA
** *
89395696 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
89395736 CCGGTTATAGTAACTCGCACAAATACCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
89395776 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
89395815 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-AGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* *
89395855 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
89395895 CCGGA
1 CCGGA
89395900 CATCATTCGG
Statistics
Matches: 138, Mismatches: 19, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 1 0.01
39 33 0.24
40 93 0.67
41 11 0.08
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:89411372 original size:13 final size:13
Alignment explanation
Indices: 89411354--89411378 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
89411344 AGTAAGTGAT
89411354 TTTGATGATTTTC
1 TTTGATGATTTTC
89411367 TTTGATGATTTT
1 TTTGATGATTTT
89411379 TGCACTTTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.04, G:0.16, T:0.64
Consensus pattern (13 bp):
TTTGATGATTTTC
Found at i:89412157 original size:46 final size:44
Alignment explanation
Indices: 89412085--89412199 Score: 169
Period size: 46 Copynumber: 2.5 Consensus size: 44
89412075 TTTGTACTCT
89412085 AGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGATGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGG-CTACGAGATGT-A-CC
* *
89412131 AGTGTAAGACATGTCTGGGACTTGCATCGGCTATGAGATGTACC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGTACC
89412175 AGTGTAAGATCATGTCTGGGACATG
1 AGTGTAAGA-CATGTCTGGGACATG
89412200 GCATTAGCAC
Statistics
Matches: 64, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
44 11 0.17
45 17 0.27
46 36 0.56
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.25
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGTACC
Found at i:89412345 original size:47 final size:48
Alignment explanation
Indices: 89412273--89412393 Score: 156
Period size: 55 Copynumber: 2.4 Consensus size: 48
89412263 TTTCTATAGT
89412273 CAGTGTAAGACCATGTCTTGG--ACATGGCATCGACTTAATGGATGAGC
1 CAGTGTAAGACCATGTC-TGGACACATGGCATCGACTTAATGGATGAGC
89412320 CAGTGTAAGACCATGTCTGGAACATGGCCACATGGCATCGACTTAATGGATGAGC
1 CAGTGTAAGACCATGTCTGG---A----CACATGGCATCGACTTAATGGATGAGC
89412375 CAGTGTAAGACCATGTCTG
1 CAGTGTAAGACCATGTCTG
89412394 AGACGTGACA
Statistics
Matches: 65, Mismatches: 0, Indels: 10
0.87 0.00 0.13
Matches are distributed among these distances:
46 3 0.05
47 17 0.26
55 45 0.69
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.24
Consensus pattern (48 bp):
CAGTGTAAGACCATGTCTGGACACATGGCATCGACTTAATGGATGAGC
Found at i:89419923 original size:46 final size:46
Alignment explanation
Indices: 89419802--89419962 Score: 202
Period size: 46 Copynumber: 3.5 Consensus size: 46
89419792 TTTGTGCGCT
* * *
89419802 AGTGTAAGACATGTCTGGGACATGCATCGACCTCAAGATGTAAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTAAGCC
* * *
89419848 AGTGTAAGACATGACAGGGACATGCATCGGCCTCGTGATGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTAAGCC
* *
89419894 AGTGTAAGACATGTCTGGGACATGCATCGG-CTATGAGATGT--GTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGATGTAAGCC
*
89419938 AGTGTAAGACCATGTCTAGGACATG
1 AGTGTAAGA-CATGTCTGGGACATG
89419963 GAATCGGCAC
Statistics
Matches: 101, Mismatches: 12, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
44 11 0.11
45 16 0.16
46 74 0.73
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTAAGCC
Found at i:89419999 original size:50 final size:50
Alignment explanation
Indices: 89419799--89420078 Score: 166
Period size: 46 Copynumber: 5.7 Consensus size: 50
89419789 TCATTTGTGC
* * * *
89419799 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGACCTCA-AGATGT-A-A
1 GCTAGTGTAAGACCATGTCTAGGACATGGCATCG-GCACAGATATGTGAGA
* *
89419845 GCTAGTGTAAGA-CATGAC-AGGGACAT-GCATCGGC-CTCG-TGATGT-A-A
1 GCTAGTGTAAGACCATGTCTA-GGACATGGCATCGGCAC-AGAT-ATGTGAGA
* * * *
89419891 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTA-TGAGATGT--G-
1 GCTAGTGTAAGACCATGTCTAGGACATGGCATCGGC-ACAGATATGTGAGA
* *
89419936 TC-AGTGTAAGACCATGTCTAGGACATGGAATCGGCACAGATATGTGAGA
1 GCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCACAGATATGTGAGA
*
89419985 GCTAGTGTAAGACCATGTCCTTACATGTCTGGGACATGGCATCGGCACGGATATGTGAGA
1 GCTAGTGTAAGACCATGT-C-T--A------GGACATGGCATCGGCACAGATATGTGAGA
*
89420045 GCTAGTGTAAGACCATGTCTGGGACATGGCATCG
1 GCTAGTGTAAGACCATGTCTAGGACATGGCATCG
89420079 ACTTAATGGA
Statistics
Matches: 189, Mismatches: 19, Indels: 48
0.74 0.07 0.19
Matches are distributed among these distances:
44 10 0.05
45 16 0.08
46 83 0.44
48 1 0.01
49 1 0.01
50 28 0.15
51 1 0.01
52 1 0.01
54 1 0.01
58 1 0.01
59 1 0.01
60 45 0.24
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.24
Consensus pattern (50 bp):
GCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCACAGATATGTGAGA
Found at i:89420041 original size:60 final size:60
Alignment explanation
Indices: 89419948--89420063 Score: 205
Period size: 60 Copynumber: 1.9 Consensus size: 60
89419938 AGTGTAAGAC
89419948 CATGTCTAGGACATGGAATCGGCACAGATATGTGAGAGCTAGTGTAAGACCATGTCCTTA
1 CATGTCTAGGACATGGAATCGGCACAGATATGTGAGAGCTAGTGTAAGACCATGTCCTTA
* * *
89420008 CATGTCTGGGACATGGCATCGGCACGGATATGTGAGAGCTAGTGTAAGACCATGTC
1 CATGTCTAGGACATGGAATCGGCACAGATATGTGAGAGCTAGTGTAAGACCATGTC
89420064 TGGGACATGG
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
60 53 1.00
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (60 bp):
CATGTCTAGGACATGGAATCGGCACAGATATGTGAGAGCTAGTGTAAGACCATGTCCTTA
Found at i:89431279 original size:46 final size:45
Alignment explanation
Indices: 89431224--89431537 Score: 185
Period size: 46 Copynumber: 6.6 Consensus size: 45
89431214 TGTGTGTGCT
*
89431224 AGTGTAAGACATGTTTGGGACATGCATCGGCCACATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCC-CATTATGAGAGCC
* * *
89431270 AATGTAAGACCATGTCTGGGACATGGCATCGG--CATTGAGACGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCCATT---ATGAGAGCC
*
89431318 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GATGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCC-C-ATTATG-AGAGCC
* * **
89431364 AGTGTAAGACATGTCTGGGACATGCATC-G---ACTACGAGATTTGTT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCCATTATGAGA---GCC
* * *
89431408 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGGATATGTGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-C-CAT-TATGAGAGCC
* * * * ** *
89431458 AGTCTAAGACCATGTCTGGGGCATGGCATCAGCCTCGATTTTGATTGTC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCC-C-ATTATGAGAGCC
*
89431507 AGTGTAAAACCATGTCTGGGACATGGCATCG
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCG
89431538 ACTTGATGGA
Statistics
Matches: 213, Mismatches: 30, Indels: 47
0.73 0.10 0.16
Matches are distributed among these distances:
40 2 0.01
41 3 0.01
44 10 0.05
45 19 0.09
46 53 0.25
47 29 0.14
48 22 0.10
49 34 0.16
50 35 0.16
52 1 0.00
53 5 0.02
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCCATTATGAGAGCC
Found at i:89432739 original size:21 final size:20
Alignment explanation
Indices: 89432715--89432753 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
89432705 ATAGAAGAGT
*
89432715 AAAAAGAGCGAGAAATGGGCC
1 AAAAAGAGAGA-AAATGGGCC
*
89432736 AAAAATAGAGAAAATGGG
1 AAAAAGAGAGAAAATGGG
89432754 TCAACGTGGG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.54, C:0.08, G:0.31, T:0.08
Consensus pattern (20 bp):
AAAAAGAGAGAAAATGGGCC
Found at i:89441423 original size:40 final size:40
Alignment explanation
Indices: 89441223--89441409 Score: 308
Period size: 40 Copynumber: 4.7 Consensus size: 40
89441213 ATTCGGATTG
* *
89441223 ATAACCAGGCTAAG-CCCGTAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
89441262 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
89441302 ATAACCGGG-TCAAGTCCCGAAGGCA-TTGTGCGAGTTACT
1 ATAACCGGGCT-AAGTCCCGAAGGCATTTGTGCGAGTTACT
*
89441341 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
89441381 ATAACCGGGCTAAGTCCCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
89441410 AGTGAGTAGC
Statistics
Matches: 139, Mismatches: 5, Indels: 7
0.92 0.03 0.05
Matches are distributed among these distances:
39 50 0.36
40 89 0.64
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:89441431 original size:79 final size:80
Alignment explanation
Indices: 89441223--89441441 Score: 315
Period size: 79 Copynumber: 2.8 Consensus size: 80
89441213 ATTCGGATTG
* *
89441223 ATAACCAGGCTAAG-CCCGTAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
*
89441287 TTTGTGCGAGTTACT
66 ATTGTGCGAGTTACT
*
89441302 ATAACCGGG-TCAAGTCCCGAAGGCA-TTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGC
1 ATAACCGGGCT-AAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGC
89441365 AATTGTGCGAGTTACT
65 AATTGTGCGAGTTACT
* * *
89441381 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGTGAG-TAGCTATATCC-GGCTAA-ACCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGGGCTAAGTCCCGAAGG
89441442 TACTTGGTTT
Statistics
Matches: 127, Mismatches: 8, Indels: 11
0.87 0.05 0.08
Matches are distributed among these distances:
78 9 0.07
79 94 0.74
80 24 0.19
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.23
Consensus pattern (80 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
ATTGTGCGAGTTACT
Found at i:89449397 original size:40 final size:40
Alignment explanation
Indices: 89449331--89449442 Score: 154
Period size: 40 Copynumber: 2.8 Consensus size: 40
89449321 ATTCGGATTG
* **
89449331 ATAACTGGGCTAAG-CCCGAAGGCATTTGTGTGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* *
89449370 ATATCCGGGCTAAGTCCCGAAGACATTTGTGCAAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
89449410 ATAACCGGGCCAAGTCCCGAAAGGCATTTGTGC
1 ATAACCGGGCTAAGTCCCG-AAGGCATTTGTGC
89449443 GAGCCAAGTC
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
39 12 0.19
40 39 0.62
41 12 0.19
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:89449466 original size:26 final size:27
Alignment explanation
Indices: 89449418--89449471 Score: 83
Period size: 26 Copynumber: 2.0 Consensus size: 27
89449408 CTATAACCGG
*
89449418 GCCAAGTCCCGAAAGGCATTTGTGCGA
1 GCCAAGTCCCGAAAGGCAATTGTGCGA
*
89449445 GCCAAGTCCCG-AAGGTAATTGTGCGA
1 GCCAAGTCCCGAAAGGCAATTGTGCGA
89449471 G
1 G
89449472 TTACTATAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 14 0.56
27 11 0.44
ACGTcount: A:0.26, C:0.24, G:0.31, T:0.19
Consensus pattern (27 bp):
GCCAAGTCCCGAAAGGCAATTGTGCGA
Found at i:89449492 original size:67 final size:66
Alignment explanation
Indices: 89449381--89449511 Score: 199
Period size: 67 Copynumber: 2.0 Consensus size: 66
89449371 TATCCGGGCT
* *
89449381 AAGTCCCGAAGACATTTGTGCAAGTTACTATAACCGGGCCAAGTCCCGAAAGGCATTTGTGCGAG
1 AAGTCCCGAAGACAATTGTGCAAGTTACTATAACCGGGCCAAGTCCC-AAAGGCATTTGAGCGAG
89449446 CC
65 CC
** * *
89449448 AAGTCCCGAAGGTAATTGTGCGAGTTACTATAACCGGGCTAAGTCCCAAAGGCATTTGAGCGAG
1 AAGTCCCGAAGACAATTGTGCAAGTTACTATAACCGGGCCAAGTCCCAAAGGCATTTGAGCGAG
89449512 TAGCTATATC
Statistics
Matches: 58, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
66 16 0.28
67 42 0.72
ACGTcount: A:0.29, C:0.23, G:0.27, T:0.21
Consensus pattern (66 bp):
AAGTCCCGAAGACAATTGTGCAAGTTACTATAACCGGGCCAAGTCCCAAAGGCATTTGAGCGAGC
C
Found at i:89449511 original size:40 final size:39
Alignment explanation
Indices: 89449448--89449528 Score: 92
Period size: 40 Copynumber: 2.1 Consensus size: 39
89449438 TGTGCGAGCC
* * *
89449448 AAGTCCCGAAGGTAATTGTGCGAGTTA-CTATAACCGGGCT
1 AAGTCCCAAAGGCAATTGAGCGAG-TAGCTATAACC-GGCT
* *
89449488 AAGTCCCAAAGGCATTTGAGCGAGTAGCTATATCCGGCT
1 AAGTCCCAAAGGCAATTGAGCGAGTAGCTATAACCGGCT
89449527 AA
1 AA
89449529 ACCCCGAAGG
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
39 8 0.23
40 27 0.77
ACGTcount: A:0.30, C:0.21, G:0.26, T:0.23
Consensus pattern (39 bp):
AAGTCCCAAAGGCAATTGAGCGAGTAGCTATAACCGGCT
Found at i:89453966 original size:53 final size:54
Alignment explanation
Indices: 89453886--89454092 Score: 200
Period size: 53 Copynumber: 3.8 Consensus size: 54
89453876 TTCCTTTTTA
* * * *
89453886 AACTTACCATTGTCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-G
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * * * * *
89453939 AACTCACCATTGACATGCCTTGGCATGGTCTTACATGGGATCTTTGCCTTATAG
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
** ** * * * * *
89453993 TAGTTTATAAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTGTAA
1 -AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * *
89454048 AACTTACCAATGCCATGCCTTGGCATGGTCCTACTTGGTATCCTT
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTT
89454093 AAACTCTAAT
Statistics
Matches: 120, Mismatches: 32, Indels: 3
0.77 0.21 0.02
Matches are distributed among these distances:
53 45 0.38
54 36 0.30
55 39 0.32
ACGTcount: A:0.21, C:0.23, G:0.18, T:0.37
Consensus pattern (54 bp):
AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
Found at i:89454041 original size:55 final size:53
Alignment explanation
Indices: 89453899--89454092 Score: 154
Period size: 55 Copynumber: 3.6 Consensus size: 53
89453889 TTACCATTGT
* * *
89453899 CATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTATGAACTCACCATTGA
1 CATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACAAATGA
* * * * ** * * *
89453952 CATGCCTTGGCATGGTCTTACATGGGATCTTTGCCTTATAGTAGTTTATAAATGC
1 CATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-G-AACTCACAAATGA
* * * * * * *
89454007 CATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTGTAAAACTTACCAATGC
1 CATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-GAACTCACAAATGA
* * * *
89454061 CATGCCTTGGCATGGTCCTACTTGGTATCCTT
1 CATGTCTTGACATGGTCTTACATGGTATCCTT
89454093 AAACTCTAAT
Statistics
Matches: 109, Mismatches: 30, Indels: 3
0.77 0.21 0.02
Matches are distributed among these distances:
53 34 0.31
54 36 0.33
55 39 0.36
ACGTcount: A:0.21, C:0.23, G:0.19, T:0.37
Consensus pattern (53 bp):
CATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACAAATGA
Found at i:89456138 original size:8 final size:8
Alignment explanation
Indices: 89456127--89456162 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
89456117 GTAAAACGGT
89456127 AAAAGCTG
1 AAAAGCTG
89456135 AAAAGCTG
1 AAAAGCTG
*
89456143 AAAAGTTG
1 AAAAGCTG
*
89456151 AAAAGCCG
1 AAAAGCTG
89456159 AAAA
1 AAAA
89456163 ATAGGCTGTC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.56, C:0.11, G:0.22, T:0.11
Consensus pattern (8 bp):
AAAAGCTG
Found at i:89460752 original size:18 final size:18
Alignment explanation
Indices: 89460729--89460811 Score: 114
Period size: 18 Copynumber: 4.6 Consensus size: 18
89460719 TGGCCCATTA
*
89460729 CAGTAACAATAATCAGTG
1 CAGTAACAGTAATCAGTG
*
89460747 CAGTAACAGTAA-CCGATG
1 CAGTAACAGTAATCAG-TG
*
89460765 TAGTAACAGTAATCAGTG
1 CAGTAACAGTAATCAGTG
89460783 CAGTAACAGTAATCAGTG
1 CAGTAACAGTAATCAGTG
*
89460801 TAGTAACAGTA
1 CAGTAACAGTA
89460812 TACAAGTCTT
Statistics
Matches: 57, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
17 2 0.04
18 53 0.93
19 2 0.04
ACGTcount: A:0.41, C:0.16, G:0.20, T:0.23
Consensus pattern (18 bp):
CAGTAACAGTAATCAGTG
Found at i:89460778 original size:36 final size:36
Alignment explanation
Indices: 89460730--89460811 Score: 130
Period size: 36 Copynumber: 2.3 Consensus size: 36
89460720 GGCCCATTAC
*
89460730 AGTAACAATAATCAGTGCAGTAACAGTAACC-GATGT
1 AGTAACAGTAATCAGTGCAGTAACAGTAACCAG-TGT
*
89460766 AGTAACAGTAATCAGTGCAGTAACAGTAATCAGTGT
1 AGTAACAGTAATCAGTGCAGTAACAGTAACCAGTGT
89460802 AGTAACAGTA
1 AGTAACAGTA
89460812 TACAAGTCTT
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
36 42 0.98
37 1 0.02
ACGTcount: A:0.41, C:0.15, G:0.21, T:0.23
Consensus pattern (36 bp):
AGTAACAGTAATCAGTGCAGTAACAGTAACCAGTGT
Found at i:89462758 original size:19 final size:19
Alignment explanation
Indices: 89462731--89462771 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
89462721 TTTTTAAGGA
*
89462731 TTTTTTTTAAATTAATAAG
1 TTTTATTTAAATTAATAAG
89462750 TTTTATTTAAATTAATAAG
1 TTTTATTTAAATTAATAAG
89462769 TTT
1 TTT
89462772 GCATATTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.59
Consensus pattern (19 bp):
TTTTATTTAAATTAATAAG
Found at i:89462878 original size:50 final size:52
Alignment explanation
Indices: 89462824--89462940 Score: 141
Period size: 50 Copynumber: 2.3 Consensus size: 52
89462814 AATAAAGTAA
** *
89462824 TGCATTATGTAACTTTCATGTTAG-TTAATTATGCATCA-TAAA-TAATGACT
1 TGCATTATGTAACTCCCATGTTAGTTTAAGTATGCATCATTAAATTAA-GACT
* * *
89462874 TGCATTATGTAACTCCCATGTTAGTTTAAGTCTGCATTATTAAATTAAGTCT
1 TGCATTATGTAACTCCCATGTTAGTTTAAGTATGCATCATTAAATTAAGACT
*
89462926 TGCATTAAGTAACTC
1 TGCATTATGTAACTC
89462941 ATCTGTTTAT
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
50 22 0.39
51 11 0.19
52 21 0.37
53 3 0.05
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.41
Consensus pattern (52 bp):
TGCATTATGTAACTCCCATGTTAGTTTAAGTATGCATCATTAAATTAAGACT
Found at i:89463257 original size:24 final size:24
Alignment explanation
Indices: 89463230--89463279 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
89463220 TTCAAGTGAT
*
89463230 TTTCGATTAAATACAAGGGAGGCA
1 TTTCGATTAAATACAAGGGAGACA
* *
89463254 TTTCGGTTACATACAAGGGAGACA
1 TTTCGATTAAATACAAGGGAGACA
89463278 TT
1 TT
89463280 ATACATCATT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (24 bp):
TTTCGATTAAATACAAGGGAGACA
Found at i:89468497 original size:76 final size:75
Alignment explanation
Indices: 89468359--89468502 Score: 218
Period size: 75 Copynumber: 1.9 Consensus size: 75
89468349 CTGCCTTTCA
* * *
89468359 AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAAT
1 AAAAAAAATCAACTCATATTGCGAGACGCGAGTTGAGCCTCAGGACACGCCGAGGTAATTTCAAT
89468424 TTCTGTTGTC
66 TTCTGTTGTC
* *
89468434 AAAAAAAATCAACTCGTATTGCGAG-CGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCA
1 AAAAAAAATCAACTCATATTGCGAGACGCGAGTTGAGCCTCAGG--ACACGCCGAGGTAATTTCA
89468498 ATTTC
64 ATTTC
89468503 CGTTTTTCAA
Statistics
Matches: 62, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
74 16 0.26
75 24 0.39
76 22 0.35
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.26
Consensus pattern (75 bp):
AAAAAAAATCAACTCATATTGCGAGACGCGAGTTGAGCCTCAGGACACGCCGAGGTAATTTCAAT
TTCTGTTGTC
Found at i:89468587 original size:93 final size:90
Alignment explanation
Indices: 89468417--89468605 Score: 220
Period size: 93 Copynumber: 2.1 Consensus size: 90
89468407 GCTGAGGTAA
* *
89468417 TTTCAATTTCTGTTGTCAAAAAAAATCAACTCGTATTGCGAGCGCGAGTTGAGCCTCAGGTCACA
1 TTTCAATTTCTGTTGTCAAAAAAAATCAACTCATATTGCGAGCGCGAGTTAAGCCTCAGGTCACA
* *
89468482 CGCCGAGGTATTTTCAATTTCCGTT
66 CGCCGAGCTATTTTCAATTTCCGTC
* * * *
89468507 TTTCAATTTCTGCCTT-TCAAAAAAAAATCGACTCATATTGCGAGAGGTGAGTTAAGCCT-TGGC
1 TTTCAATTTCTG--TTGTC-AAAAAAAATCAACTCATATTGCGAG-CGCGAGTTAAGCCTCAGG-
* * *
89468570 TCACGCGCTGAGCTATTTTCAATTTCTGTC
61 TCACACGCCGAGCTATTTTCAATTTCCGTC
89468600 TTTCAA
1 TTTCAA
89468606 AAAAAATCAA
Statistics
Matches: 83, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
90 12 0.14
91 2 0.02
92 27 0.33
93 42 0.51
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.34
Consensus pattern (90 bp):
TTTCAATTTCTGTTGTCAAAAAAAATCAACTCATATTGCGAGCGCGAGTTAAGCCTCAGGTCACA
CGCCGAGCTATTTTCAATTTCCGTC
Found at i:89468592 original size:169 final size:169
Alignment explanation
Indices: 89468025--89468826 Score: 1096
Period size: 170 Copynumber: 4.8 Consensus size: 169
89468015 GAATAACCTT
* *
89468025 ATCAACTCATATTGCGCGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTT
1 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTT
*
89468090 GTCGAAAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGTCGAGGTAT
66 GTC--AAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTAT
*
89468155 TTTCAATTTTCGTTTTTCAAATTTCTGCCTTTCAAAAAAAA
129 TTTCAATTTCCGTTTTTCAAATTTCTGCCTTTCAAAAAAAA
89468196 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTT
1 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTT
* *
89468261 GTAAAAAAAAAATCAACTCGTATTGCGAGCGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATT
66 GT-CAAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATT
* * *
89468326 TTCATTTTTCATTTTTCAAATTTCTGCCTTTCAAAAAAAA
130 TTCAATTTCCGTTTTTCAAATTTCTGCCTTTCAAAAAAAA
89468366 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTT
1 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTT
*
89468431 GTCAAAAAAAATCAACTCGTATTGCGAG-CGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTT
66 GTCAAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTT
89468495 TCAATTTCCGTTTTTC-AATTTCTGCCTTTCAAAAAAAA
131 TCAATTTCCGTTTTTCAAATTTCTGCCTTTCAAAAAAAA
* * * * * *
89468533 ATCGACTCATATTGCGAGAGGTGAGTTAAGCCT-TGGCTCACGCGCTGAGCTATTTTCAATTTCT
1 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTAATTTCAATTTCT
* * * * *
89468597 GTCTTTCAAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGATCACACGCCGAGGT
63 GT-TGTCAAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGT
89468662 ATTTTCAATTTCCCG-TTTTC-AATTTCTGCCTTTC--AAAAAA
127 ATTTTCAATTT-CCGTTTTTCAAATTTCTGCCTTTCAAAAAAAA
* * * * * *
89468702 ATCGACTCATATTACGAGAGGTGAGTTGAGCCT-TGGCTCACGCGCTGAGCT-ATTTC--TGTC-
1 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTAATTTCAATTTCT
* * * * * *
89468762 -TT-TC--AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGAGGTA
63 GTTGTCAAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTA
89468823 TTTT
128 TTTT
89468827 TTTTTCAATT
Statistics
Matches: 592, Mismatches: 32, Indels: 25
0.91 0.05 0.04
Matches are distributed among these distances:
160 57 0.10
162 2 0.00
163 1 0.00
164 1 0.00
166 5 0.01
167 53 0.09
168 52 0.09
169 104 0.18
170 190 0.32
171 124 0.21
172 3 0.01
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (169 bp):
ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTT
GTCAAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTT
TCAATTTCCGTTTTTCAAATTTCTGCCTTTCAAAAAAAA
Found at i:89468636 original size:78 final size:79
Alignment explanation
Indices: 89468506--89468673 Score: 239
Period size: 78 Copynumber: 2.1 Consensus size: 79
89468496 CAATTTCCGT
* * ** *
89468506 TTTTCAATTTCTGCCTTTCAAAAAAAAATCGACTCATATTGCGAGAGGTGAGTTAAGCCTTGGCT
1 TTTTCAATTTCTGCCTTTCAAAAAAAAATCAACTCATATTACGAGAGGTGAGTTAAGCCTCAGAT
* *
89468571 CACGCGCTGAGCTA
66 CACACGCCGAGCTA
* *
89468585 TTTTCAATTTCTGTCTTTC-AAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGAT
1 TTTTCAATTTCTGCCTTTCAAAAAAAAATCAACTCATATTACGAGAGGTGAGTTAAGCCTCAGAT
*
89468649 CACACGCCGAGGTA
66 CACACGCCGAGCTA
89468663 TTTTCAATTTC
1 TTTTCAATTTC
89468674 CCGTTTTCAA
Statistics
Matches: 79, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
78 61 0.77
79 18 0.23
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (79 bp):
TTTTCAATTTCTGCCTTTCAAAAAAAAATCAACTCATATTACGAGAGGTGAGTTAAGCCTCAGAT
CACACGCCGAGCTA
Found at i:89468654 original size:339 final size:337
Alignment explanation
Indices: 89468025--89468734 Score: 1097
Period size: 339 Copynumber: 2.1 Consensus size: 337
89468015 GAATAACCTT
*
89468025 ATCAACTCATATTGCGCGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTT
1 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTT
* *
89468090 GTCGAAAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGTCGAGGTAT
66 GTC-AAAAAAAAATCAACTCGTATTGCGAGACGCGAGTTGAGCCTCAGGTCACACGCCGAGGTAT
*
89468155 TTTCAATTTTCGTTTTTCAAATTTCTGCCTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGA
130 TTTCAATTTCCGTTTTTCAAATTTCTGCCTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGA
* * *
89468220 GTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTGTAAAAAAAAAATCAACTCGTATT
195 GTTAAGCCTCAGGACACGCTGAGCTAATTTCAATTTCTGTTGTAAAAAAAAAATCAACTCATATT
* * * * * *
89468285 GCGAGCGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCATTTTTCATTTTTCAAATTTC
260 ACGAGAGGCGAGTTGAGCCTCAGATCACACGCCGAGGTATTTTCAATTTCCAGTTTTC-AATTTC
89468350 TGCCTTTCAAAAAAAA
324 TGCCTTTC--AAAAAA
*
89468366 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTT
1 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTT
89468431 GTC-AAAAAAAATCAACTCGTATTGCGAG-CGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATT
66 GTCAAAAAAAAATCAACTCGTATTGCGAGACGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATT
*
89468494 TTCAATTTCCGTTTTTC-AATTTCTGCCTTTCAAAAAAAAATCGACTCATATTGCGAGAGGTGAG
131 TTCAATTTCCGTTTTTCAAATTTCTGCCTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAG
* * * **
89468558 TTAAGCCT-TGGCTCACGCGCTGAGCTATTTTCAATTTCTGTCT-TTCAAAAAAAATCAACTCAT
196 TTAAGCCTCAGG---ACACGCTGAGCTAATTTCAATTTCTGT-TGTAAAAAAAAAATCAACTCAT
* *
89468621 ATTACGAGAGGTGAGTTGAGCCTCAGATCACACGCCGAGGTATTTTCAATTTCCCGTTTTCAATT
257 ATTACGAGAGGCGAGTTGAGCCTCAGATCACACGCCGAGGTATTTTCAATTTCCAGTTTTCAATT
89468686 TCTGCCTTTCAAAAAA
322 TCTGCCTTTCAAAAAA
* *
89468702 ATCGACTCATATTACGAGAGGTGAGTTGAGCCT
1 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
89468735 TGGCTCACGC
Statistics
Matches: 341, Mismatches: 24, Indels: 13
0.90 0.06 0.03
Matches are distributed among these distances:
336 39 0.11
337 53 0.16
338 63 0.18
339 119 0.35
340 1 0.00
341 66 0.19
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (337 bp):
ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTT
GTCAAAAAAAAATCAACTCGTATTGCGAGACGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATT
TTCAATTTCCGTTTTTCAAATTTCTGCCTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAG
TTAAGCCTCAGGACACGCTGAGCTAATTTCAATTTCTGTTGTAAAAAAAAAATCAACTCATATTA
CGAGAGGCGAGTTGAGCCTCAGATCACACGCCGAGGTATTTTCAATTTCCAGTTTTCAATTTCTG
CCTTTCAAAAAA
Found at i:89468819 original size:69 final size:70
Alignment explanation
Indices: 89468683--89468825 Score: 191
Period size: 69 Copynumber: 2.1 Consensus size: 70
89468673 CCCGTTTTCA
* * * * *
89468683 ATTTCTGCCTTTCAAAAAAATCGACTCATATTACGAGAGGTGAGTTGAGCCTTGGCTCACGCGCT
1 ATTTCTGCCTTTCAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTTAGATCACACACT
89468748 GAGCT
66 GAGCT
* *
89468753 ATTTCTGTCTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-CTTCAGATCACACAC
1 ATTTCTGCCTTTCAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTT-AGATCACACAC
*
89468816 TGAGGT
65 TGAGCT
89468822 ATTT
1 ATTT
89468826 TTTTTTCAAT
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
68 3 0.05
69 49 0.77
70 12 0.19
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.31
Consensus pattern (70 bp):
ATTTCTGCCTTTCAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTTAGATCACACACT
GAGCT
Found at i:89468906 original size:80 final size:83
Alignment explanation
Indices: 89468762--89468969 Score: 250
Period size: 80 Copynumber: 2.5 Consensus size: 83
89468752 TATTTCTGTC
*
89468762 TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-CTTCAGATCACACACTGAGGTA-TT
1 TTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTCAGATCACACACTGAGGCATTT
* *
89468825 T-T-T-TTTTCAATTTATATT
65 TATCTCTTTTCAAGTTA-A-G
* *
89468843 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGAG-TCACATA-TCGAGGCATTT
1 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTCAGATCACACACT-GAGGCATTT
89468906 TCAAAATCTCTTTTCAAGTTAAG
65 T----ATCTCTTTTCAAGTTAAG
89468929 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
1 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
89468970 CAAAACACGT
Statistics
Matches: 112, Mismatches: 5, Indels: 15
0.85 0.04 0.11
Matches are distributed among these distances:
79 1 0.01
80 45 0.40
81 12 0.11
86 42 0.38
87 2 0.02
88 10 0.09
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.34
Consensus pattern (83 bp):
TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTCAGATCACACACTGAGGCATTTT
ATCTCTTTTCAAGTTAAG
Found at i:89469081 original size:74 final size:75
Alignment explanation
Indices: 89468933--89469074 Score: 205
Period size: 76 Copynumber: 1.9 Consensus size: 75
89468923 GTTAAGTTTC
* *
89468933 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTC-AAACACGCTGAGGTATTTTCAATTTC
89468998 TGTCTTTCAAA
65 TGTCTTTCAAA
* * * * *
89469009 AAAAATTAGCTCATATTGCGAGAGGTGAGTTGAACCTC-AAGACGCTGAGGTGTTTTCCATTTCT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAACACGCTGAGGTATTTTCAATTTCT
89469073 GT
66 GT
89469075 TCTTCAATTT
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
74 24 0.41
76 35 0.59
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (75 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAACACGCTGAGGTATTTTCAATTTCT
GTCTTTCAAA
Found at i:89469289 original size:87 final size:86
Alignment explanation
Indices: 89468987--89469489 Score: 450
Period size: 87 Copynumber: 5.7 Consensus size: 86
89468977 CGTTGAGGTA
* * * *
89468987 TTTTCAATTTCTGTCTTTCAAAAAAAATTAGCTCATATTGCGAGAGGTGAGTTGAACCTCA--AG
1 TTTTCAATTT-TGT-TTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
* *
89469050 ACGCTGAGGTGTTTTC-CATTTCTGT
63 ACGCTGAGGTATTTTCAAATTT-T-T
* * * * **
89469075 TCTTCAATTTCTGTGTTTCAAAAAAATCAGCTCATATTGCGAGTGGTGAGTTGAGCCTTGACTCA
1 TTTTCAATTT-TGT-TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-TCA-GGA
*
89469140 CACGCTGAGGTATTTTCAAATTCTGT
62 CACGCTGAGGTATTTTCAAATT-TTT
*
89469166 TTTTCAAATTTT-TTTTCCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTCAGCCTCAGGAC
1 TTTTC-AATTTTGTTTT-C-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
89469230 ACGCTGAGGTATTTTC-AATTTTT
63 ACGCTGAGGTATTTTCAAATTTTT
*
89469253 TTTTCAATTTATGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAATTGAGCCTCAGGCCA
1 TTTTCAATTT-TGTTT-TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--A
*
89469318 CACGCCGAGGTATTTTCAATTGATGTTTT
62 CACGCTGAGGTATTTTCAA---AT-TTTT
* * * * * *
89469347 TTTTTAATTTATGCTTTGC--AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCTTCGGGTCA
1 TTTTCAATTT-TG-TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
** *
89469410 CATATCGAGGTATTTTCATAATTTGT
64 C-GCT-GAGGTATTTTCA-AATTTTT
* *
89469436 TTTACAAATTTTGTTTT---AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
1 TTTTC-AATTTTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
89469490 TGGCTCACGT
Statistics
Matches: 353, Mismatches: 38, Indels: 49
0.80 0.09 0.11
Matches are distributed among these distances:
86 5 0.01
87 118 0.33
88 30 0.08
89 47 0.13
90 15 0.04
91 57 0.16
92 57 0.16
93 4 0.01
94 17 0.05
95 3 0.01
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.37
Consensus pattern (86 bp):
TTTTCAATTTTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
CTGAGGTATTTTCAAATTTTT
Found at i:89469309 original size:178 final size:178
Alignment explanation
Indices: 89468987--89469526 Score: 541
Period size: 178 Copynumber: 3.0 Consensus size: 178
89468977 CGTTGAGGTA
* * * *
89468987 TTTTC-AATTTCTGTCTTT-CAAAAAAAATTAGCTCATATTGCGAGAGGTGAGTTGAACCTCA--
1 TTTTCAAATTTATG-CTTTCCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
* * * * *
89469048 AGACGCTGAGGTGTTTTCCATTTCTGTTCTTCAATTTCTGTGTTTCAAAAAAATCAGCTCATATT
65 ACACGCTGAGGTATTTTCAATTT-T-TTTTTCAATTT-TGT-TTTCAAAAAAATCAACTCATATT
* *
89469113 GCGAGTGGTGAGTTGAGCCTTGACTCACACGCTGAGGTATTTTCAAATTCTGT
126 GCGAGAGGTGAGTTGAGCCTTGGCTCACACGCTGAGGTATTTTCAAATTCTGT
* *
89469166 TTTTCAAATTT-T-TTTTCCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTCAGCCTCAGGA
1 TTTTCAAATTTATGCTTTCCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA
89469229 CACGCTGAGGTATTTTCAATTTTTTTTTCAATTTATGTTTGTCAAAAAAATCAACTCATATTGCG
66 CACGCTGAGGTATTTTCAATTTTTTTTTCAATTT-TGTTT-TCAAAAAAATCAACTCATATTGCG
* * * *
89469294 AGAGGTGAATTGAGCCTCAGGC-CACACGCCGAGGTATTTTC-AATTGATGTTT
129 AGAGGTGAGTTGAGCCT-TGGCTCACACGCTGAGGTATTTTCAAATT-CTG--T
** * * * * *
89469346 TTTTTTAATTTATGCTTTGC---AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCTTCGGGT
1 TTTTCAAATTTATGCTTTCCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA
** * *
89469408 CACATATCGAGGTATTTTCATAATTTGTTTTACAAATTTTGTTTT---AAAAATCAACTCATATT
66 CAC-GCT-GAGGTATTTTC--AATTTTTTTTTC-AATTTTGTTTTCAAAAAAATCAACTCATATT
* ** * *
89469470 GCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAATTTCTGT
126 GCGAGAGGTGAGTTGAGCCTTGGCTCACACGCTGAGGTATTTTCAAATTCTGT
89469523 TTTT
1 TTTT
89469527 AATGTCTAGT
Statistics
Matches: 304, Mismatches: 39, Indels: 38
0.80 0.10 0.10
Matches are distributed among these distances:
177 14 0.05
178 113 0.37
179 101 0.33
180 39 0.13
181 12 0.04
182 5 0.02
183 15 0.05
184 5 0.02
ACGTcount: A:0.27, C:0.16, G:0.19, T:0.38
Consensus pattern (178 bp):
TTTTCAAATTTATGCTTTCCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA
CACGCTGAGGTATTTTCAATTTTTTTTTCAATTTTGTTTTCAAAAAAATCAACTCATATTGCGAG
AGGTGAGTTGAGCCTTGGCTCACACGCTGAGGTATTTTCAAATTCTGT
Found at i:89469511 original size:87 final size:86
Alignment explanation
Indices: 89469009--89469563 Score: 388
Period size: 87 Copynumber: 6.3 Consensus size: 86
89468999 GTCTTTCAAA
* * * * * * * *
89469009 AAAAATTAGCTCATATTGCGAGAGGTGAGTTGAACC-T--C-AAGACGCTGAGGTGTTTTCCATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACACGCTGAGGTATTTTCAAAT
*
89469070 TCTGTTCTTC-AATTTCTGTGTTT
66 T-TGTTTTTCAAATTT-TGT-TTT
* * *
89469093 CAAAAAAATCAGCTCATATTGCGAGTGGTGAGTTGAGCCTTGACTCACACGCTGAGGTATTTTCA
1 ---AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACACGCTGAGGTATTTTCA
89469158 AATTCTGTTTTTCAAATTTT-TTTT
63 AATT-TGTTTTTCAAATTTTGTTTT
* *
89469182 CCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTCAGCCTCAGG---ACACGCTGAGGTATTT
1 -----AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGCTCACACGCTGAGGTATTT
*
89469244 TC-AATTTTTTTTTC-AATTTATGTTTGT
60 TCAAATTTGTTTTTCAAATTT-TGTTT-T
* * *
89469271 CAAAAAAATCAACTCATATTGCGAGAGGTGAATTGAGCCTCAGGC-CACACGCCGAGGTATTTTC
1 ---AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGCTCACACGCTGAGGTATTTTC
** *
89469335 -AATTGATGTTTTTTTTTAATTTATGCTTTGC
62 AAATT--TG--TTTTTCAAATTT-TG-TTT-T
* * **
89469366 AAAAATCAACTCATATTACGAGAGGTGAGTTGAG-CTTCGGGTCACA-TATCGAGGTATTTTCAT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT-GGCTCACACGCT-GAGGTATTTTCA-
*
89469429 AATTTGTTTTACAAATTTTGTTTT
63 AATTTGTTTTTCAAATTTTGTTTT
* ** * *
89469453 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACACGCTGAGGTATTTTCAAAT
*
89469518 TCTGTTTTT--AATGTCTAGTTTT
66 T-TGTTTTTCAAAT-T-TTGTTTT
* *
89469540 AAAGAGTCAATTCATATTGCGAGA
1 AAA-AATCAACTCATATTGCGAGA
89469564 AATGAGTTAA
Statistics
Matches: 392, Mismatches: 46, Indels: 59
0.79 0.09 0.12
Matches are distributed among these distances:
85 3 0.01
86 9 0.02
87 146 0.37
88 33 0.08
89 45 0.11
90 11 0.03
91 69 0.18
92 55 0.14
93 5 0.01
94 12 0.03
95 4 0.01
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.37
Consensus pattern (86 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACACGCTGAGGTATTTTCAAAT
TTGTTTTTCAAATTTTGTTTT
Found at i:89470358 original size:18 final size:17
Alignment explanation
Indices: 89470318--89470356 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
89470308 CCTAAAGGTG
*
89470318 ATTTTATCTTCTTTATT
1 ATTTTATCTTATTTATT
89470335 ATTTTACTCTTATTT-TT
1 ATTTTA-TCTTATTTATT
89470352 ATTTT
1 ATTTT
89470357 TATTTTTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.18, C:0.10, G:0.00, T:0.72
Consensus pattern (17 bp):
ATTTTATCTTATTTATT
Found at i:89470870 original size:22 final size:22
Alignment explanation
Indices: 89470845--89470889 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
89470835 AATAGTTCTT
* *
89470845 TATTATATGTGTATATTGTATA
1 TATTATATATGTATATTATATA
*
89470867 TATTATATATTTATATTATATA
1 TATTATATATGTATATTATATA
89470889 T
1 T
89470890 TCTTAATGTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.58
Consensus pattern (22 bp):
TATTATATATGTATATTATATA
Found at i:89470883 original size:13 final size:13
Alignment explanation
Indices: 89470865--89470890 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
89470855 GTATATTGTA
89470865 TATATTATATATT
1 TATATTATATATT
89470878 TATATTATATATT
1 TATATTATATATT
89470891 CTTAATGTTA
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:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
TATATTATATATT
Found at i:89471298 original size:16 final size:15
Alignment explanation
Indices: 89471274--89471308 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
89471264 TAATTATTAT
89471274 TATTCTAATATTTTGA
1 TATTCTAATATTTT-A
*
89471290 TATTTTAATATTTTA
1 TATTCTAATATTTTA
89471305 TATT
1 TATT
89471309 ATTCACATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (15 bp):
TATTCTAATATTTTA
Found at i:89474653 original size:21 final size:21
Alignment explanation
Indices: 89474627--89474689 Score: 74
Period size: 21 Copynumber: 3.0 Consensus size: 21
89474617 TAGAGTAGAT
*
89474627 GCAGCAGCGATGGAGGCAGCG
1 GCAGCAGCGATGGAGGCAGAG
*
89474648 GCAGCAGCGAGGGAGGCAGAG
1 GCAGCAGCGATGGAGGCAGAG
* *
89474669 GTAGCAGCAATGGCA-GCAGAG
1 GCAGCAGCGATGG-AGGCAGAG
89474690 CAGAGCAGAA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
21 35 0.97
22 1 0.03
ACGTcount: A:0.29, C:0.21, G:0.46, T:0.05
Consensus pattern (21 bp):
GCAGCAGCGATGGAGGCAGAG
Found at i:89475704 original size:56 final size:56
Alignment explanation
Indices: 89475618--89475734 Score: 216
Period size: 56 Copynumber: 2.1 Consensus size: 56
89475608 TGCAAATATA
89475618 TAAATTTCATTAATTATCTCTATGTTGGAATGTCCACAATGAATTAACATTTAAAG
1 TAAATTTCATTAATTATCTCTATGTTGGAATGTCCACAATGAATTAACATTTAAAG
*
89475674 TAAATTTTATTAATTATCTCTATGTTGGAATGTCCACAATGAATTAACATTTAAAG
1 TAAATTTCATTAATTATCTCTATGTTGGAATGTCCACAATGAATTAACATTTAAAG
*
89475730 CAAAT
1 TAAAT
89475735 GATTAAGTAA
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 59 1.00
ACGTcount: A:0.38, C:0.12, G:0.10, T:0.39
Consensus pattern (56 bp):
TAAATTTCATTAATTATCTCTATGTTGGAATGTCCACAATGAATTAACATTTAAAG
Found at i:89491995 original size:27 final size:27
Alignment explanation
Indices: 89491957--89492010 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
89491947 GGCAGATCGA
*
89491957 GGTTGTGCCTCTAGCAGAGGTGGCACC
1 GGTTGTGCCTCTAGCAGAGGCGGCACC
* *
89491984 GGTTGTGCCTCTGGTAGAGGCGGCACC
1 GGTTGTGCCTCTAGCAGAGGCGGCACC
89492011 TTGATGGGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.13, C:0.26, G:0.39, T:0.22
Consensus pattern (27 bp):
GGTTGTGCCTCTAGCAGAGGCGGCACC
Found at i:89492220 original size:27 final size:27
Alignment explanation
Indices: 89492175--89492241 Score: 107
Period size: 27 Copynumber: 2.5 Consensus size: 27
89492165 AAAAAAACGA
*
89492175 GGTGCCGCCTTTGCCAGAGGCACAACC
1 GGTGCCGCCTCTGCCAGAGGCACAACC
* *
89492202 GGTGCCACCTCTGCTAGAGGCACAACC
1 GGTGCCGCCTCTGCCAGAGGCACAACC
89492229 GGTGCCGCCTCTG
1 GGTGCCGCCTCTG
89492242 GCACCCCCTC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.16, C:0.37, G:0.30, T:0.16
Consensus pattern (27 bp):
GGTGCCGCCTCTGCCAGAGGCACAACC
Found at i:89492690 original size:30 final size:29
Alignment explanation
Indices: 89492656--89492721 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 29
89492646 CAACTTAACA
*
89492656 AACAATTACTTCTAAAATAATAAAAAAATT
1 AACAATGACTT-TAAAATAATAAAAAAATT
* *
89492686 AACAAATGCCTTTAAAATAATAAGAAAATT
1 AAC-AATGACTTTAAAATAATAAAAAAATT
89492716 AACAAT
1 AACAAT
89492722 AAAATAAATT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
29 3 0.09
30 23 0.72
31 6 0.19
ACGTcount: A:0.59, C:0.11, G:0.03, T:0.27
Consensus pattern (29 bp):
AACAATGACTTTAAAATAATAAAAAAATT
Found at i:89514390 original size:6 final size:6
Alignment explanation
Indices: 89514379--89514404 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
89514369 CCATAGATCA
89514379 AAATCT AAATCT AAATCT AAATCT AA
1 AAATCT AAATCT AAATCT AAATCT AA
89514405 GGCTATAGGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.54, C:0.15, G:0.00, T:0.31
Consensus pattern (6 bp):
AAATCT
Found at i:89539531 original size:26 final size:26
Alignment explanation
Indices: 89539501--89539551 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
89539491 ACCAATGAAC
*
89539501 CGGGGAATCAGCACTTAGCAACCCCT
1 CGGGGAATCAGCACATAGCAACCCCT
89539527 CGGGGAATCAGCACATAGCAACCCC
1 CGGGGAATCAGCACATAGCAACCCC
89539552 CTTTTCACAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.29, C:0.35, G:0.24, T:0.12
Consensus pattern (26 bp):
CGGGGAATCAGCACATAGCAACCCCT
Found at i:89539558 original size:104 final size:104
Alignment explanation
Indices: 89539364--89539630 Score: 439
Period size: 104 Copynumber: 2.6 Consensus size: 104
89539354 TAACCGTTAT
* **
89539364 TGGTGGATCTCGCACTTAGCACCACCGCTGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
89539429 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
*
89539468 TGGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTC-GGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
89539532 AATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCC-TTTCACATTTCAAAGATA
* **
89539572 TGGTGGATCA-CGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 TGGTGGAT-ATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
89539631 TTATATACAA
Statistics
Matches: 153, Mismatches: 8, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
103 25 0.16
104 127 0.83
105 1 0.01
ACGTcount: A:0.30, C:0.31, G:0.21, T:0.19
Consensus pattern (104 bp):
TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
Found at i:89547960 original size:79 final size:81
Alignment explanation
Indices: 89547824--89548006 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
89547814 TCGAATGATG
* *
89547824 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
89547888 TGTGCGAGTTACTA-A
66 TGTGCGAGTTACTATA
* * * **
89547903 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
89547965 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGTTACTATA
* *
89547983 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
89548007 TGAACGAGTA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 59 0.66
80 30 0.33
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:89548022 original size:40 final size:40
Alignment explanation
Indices: 89547825--89548008 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
89547815 CGAATGATGT
* * * *
89547825 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* *
89547865 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
89547905 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
89547943 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
89547984 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
89548009 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:89548030 original size:79 final size:79
Alignment explanation
Indices: 89547877--89548041 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
89547867 GGACTAAGAT
* **
89547877 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
89547942 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
89547956 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
89548019 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
89548035 CCGAAGG
1 CCGAAGG
89548042 TACGTGATTC
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 49 0.65
80 24 0.32
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:89558935 original size:40 final size:40
Alignment explanation
Indices: 89558871--89559131 Score: 368
Period size: 40 Copynumber: 6.6 Consensus size: 40
89558861 ATTTGGATTG
**
89558871 ATAACCGGGCTAAG-CTTGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * *
89558910 ATATCTGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
89558950 ATAACCGGGCCAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
89558990 ATAACCGGG-TCAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCT-AAGTCCCGAAGGCATTTGTGCGAGTTACT
*
89559030 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
89559070 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
* **
89559110 ATATCC-GGCTAAACCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
89559132 TACTTGGTTT
Statistics
Matches: 202, Mismatches: 16, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
39 28 0.14
40 173 0.86
41 1 0.00
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:89570028 original size:26 final size:25
Alignment explanation
Indices: 89569966--89570029 Score: 60
Period size: 27 Copynumber: 2.4 Consensus size: 25
89569956 CTTTTATCTT
*
89569966 TATTTATCTTTTTAAATTACTTTTC
1 TATTTATCTTTTTAAATAACTTTTC
89569991 -ATTTTATTTCTTTTT-AATAACTATTTC
1 TA-TTTA--TCTTTTTAAATAACT-TTTC
89570018 TATTTCATCTTT
1 TATTT-ATCTTT
89570030 AGGTTTTACA
Statistics
Matches: 32, Mismatches: 1, Indels: 11
0.73 0.02 0.25
Matches are distributed among these distances:
24 1 0.03
25 4 0.12
26 11 0.34
27 14 0.44
28 2 0.06
ACGTcount: A:0.23, C:0.12, G:0.00, T:0.64
Consensus pattern (25 bp):
TATTTATCTTTTTAAATAACTTTTC
Found at i:89572089 original size:13 final size:13
Alignment explanation
Indices: 89572071--89572095 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
89572061 AGCCACCCCA
89572071 CACGGGCGTGTCG
1 CACGGGCGTGTCG
89572084 CACGGGCGTGTC
1 CACGGGCGTGTC
89572096 CCTGTCGAGC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.32, G:0.44, T:0.16
Consensus pattern (13 bp):
CACGGGCGTGTCG
Found at i:89578404 original size:50 final size:49
Alignment explanation
Indices: 89578244--89578475 Score: 232
Period size: 49 Copynumber: 4.9 Consensus size: 49
89578234 GGCCACATTA
* * *
89578244 TGAGAGCCAGTGTAAGACCATGTCTGGGA-TTGGCATCGGCATTGAGAC
1 TGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACTGAGAC
89578292 -GAGAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTA-TGAGA-
1 TGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC-ACTGAGAC
* * * * *
89578337 TGTG-TC-AGTGTAAGACCATGTCTAGGACATGGCATCGGCACGGATAC
1 TGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACTGAGAC
* ***
89578384 TTGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCACCGGC-CTTGATTT
1 -TGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-TGAGAC
* *
89578434 TGATAG-TCAGTGTAAGACCATGTCTGGGATATGGCATCGGCA
1 TGAGAGCT-AGTGTAAGACCATGTCTGGGACATGGCATCGGCA
89578476 TTATACACTA
Statistics
Matches: 154, Mismatches: 17, Indels: 24
0.79 0.09 0.12
Matches are distributed among these distances:
44 9 0.06
45 15 0.10
46 37 0.24
47 17 0.11
48 4 0.03
49 38 0.25
50 34 0.22
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.25
Consensus pattern (49 bp):
TGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACTGAGAC
Found at i:89578449 original size:99 final size:91
Alignment explanation
Indices: 89578251--89578475 Score: 281
Period size: 99 Copynumber: 2.4 Consensus size: 91
89578241 TTATGAGAGC
* **
89578251 CAGTGTAAGACCATGTCTGGGATTGGCATCGGCATTGAGACGAGAGCTAGTGTAAGACATGTCTG
1 CAGTGTAAGACCATGTCTGGGAATGGCATCGGCACGGAGACGAGAGCTAGTGTAAGACATGTCTG
*
89578316 GGACATGCATCGGCTATGAGATGTGT
66 GGACATGCACCGGCTATGAGATGTGT
* *
89578342 CAGTGTAAGACCATGTCTAGGACATGGCATCGGCACGGATACTTGAGAGCTAGTGTAAGACCATG
1 CAGTGTAAGACCATGTCTGGGA-ATGGCATCGGCACGGAGAC--GAGAGCTAGTGTAAGA-CATG
**
89578407 TCTGGGACATGGCACCGGCCT-TGATTTTGATAGT
62 TCTGGGACAT-GCACCGG-CTATGA-GATG-T-GT
89578441 CAGTGTAAGACCATGTCTGGGATATGGCATCGGCA
1 CAGTGTAAGACCATGTCTGGGA-ATGGCATCGGCA
89578476 TTATACACTA
Statistics
Matches: 115, Mismatches: 10, Indels: 10
0.85 0.07 0.07
Matches are distributed among these distances:
91 21 0.18
92 15 0.13
94 16 0.14
95 14 0.12
96 9 0.08
97 4 0.03
98 1 0.01
99 35 0.30
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.25
Consensus pattern (91 bp):
CAGTGTAAGACCATGTCTGGGAATGGCATCGGCACGGAGACGAGAGCTAGTGTAAGACATGTCTG
GGACATGCACCGGCTATGAGATGTGT
Found at i:89581537 original size:28 final size:29
Alignment explanation
Indices: 89581497--89581552 Score: 89
Period size: 28 Copynumber: 2.0 Consensus size: 29
89581487 AGACAGGCTA
89581497 GGACACGGGCGTGT-T-ATGGCCGTGTGAG
1 GGACACGGGCGTGTGTCA-GGCCGTGTGAG
89581525 GGACACGGGCGTGTGTCAGGCCGTGTGA
1 GGACACGGGCGTGTGTCAGGCCGTGTGA
89581553 AAACCCCTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
28 14 0.54
29 11 0.42
30 1 0.04
ACGTcount: A:0.14, C:0.20, G:0.46, T:0.20
Consensus pattern (29 bp):
GGACACGGGCGTGTGTCAGGCCGTGTGAG
Found at i:89582625 original size:28 final size:28
Alignment explanation
Indices: 89582584--89582637 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
89582574 TACTTCTTTA
* *
89582584 AGAAAATCCTATTCGACATGGTCGTACG
1 AGAAAATCCCATTCGACACGGTCGTACG
89582612 AGAAAATCCCATTCGACACGGTCGTA
1 AGAAAATCCCATTCGACACGGTCGTA
89582638 GGCTTTGCTC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.22
Consensus pattern (28 bp):
AGAAAATCCCATTCGACACGGTCGTACG
Found at i:89582881 original size:21 final size:21
Alignment explanation
Indices: 89582856--89582899 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
89582846 CTGCATAAGC
89582856 TGATAGGGCGAAAGTTAGATA
1 TGATAGGGCGAAAGTTAGATA
89582877 TGATAGGGCGAAAGTTAGATA
1 TGATAGGGCGAAAGTTAGATA
89582898 TG
1 TG
89582900 TCTTTGGGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.36, C:0.05, G:0.34, T:0.25
Consensus pattern (21 bp):
TGATAGGGCGAAAGTTAGATA
Found at i:89588788 original size:46 final size:46
Alignment explanation
Indices: 89588645--89588814 Score: 141
Period size: 46 Copynumber: 3.7 Consensus size: 46
89588635 AGTATATATA
* * **
89588645 TGCCGATGCCATGTCCCAAACATGGTCTTACACTGACAC--ATCTTGT
1 TGCCGATG-CATGTCCCAGACAT-GTCTTACACTAACACTTATCTCAT
* * * * * *
89588691 AGCTGATGCATGTCTCAGACATGTCTTATACTAGC-TTATATCTCGA-
1 TGCCGATGCATGTCCCAGACATGTCTTACACTAACACT-TATCTC-AT
* *
89588737 GGCCGATGCATGTCCCAGACATGTCTTACACTAACACTTGTCTCAT
1 TGCCGATGCATGTCCCAGACATGTCTTACACTAACACTTATCTCAT
*
89588783 TGCCGATGCCATGTCCCAAACATGGTCTTACA
1 TGCCGATG-CATGTCCCAGACAT-GTCTTACA
89588815 TTGGCTCTCG
Statistics
Matches: 97, Mismatches: 19, Indels: 14
0.75 0.15 0.11
Matches are distributed among these distances:
44 10 0.10
45 13 0.13
46 52 0.54
47 14 0.14
48 8 0.08
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.29
Consensus pattern (46 bp):
TGCCGATGCATGTCCCAGACATGTCTTACACTAACACTTATCTCAT
Found at i:89596260 original size:46 final size:44
Alignment explanation
Indices: 89596176--89596396 Score: 142
Period size: 46 Copynumber: 4.8 Consensus size: 44
89596166 ATATCCATGC
* * *
89596176 CGATGCCATGTCCCAGGCATGGTCTTACA-TTGACACATCTCGTAGT
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAG-CTCATCTCGTAGT
*
89596222 CGATGCATGTCCCAGACATGTCTTACACTAGCTTACATCTCG-AGG
1 CGATGCATGTCCCAGACATGTCTTACACTAGC-T-CATCTCGTAGT
* * * * * *
89596267 CTGATACATGTCCCGGACATGTCTCACACTAGCACTCGTCTCATTG-
1 C-GATGCATGTCCCAGACATGTCTTACACTAG--CTCATCTCGTAGT
* * * * * *
89596313 CTGATGCCATGTCCCAGACATGGTCTTACATTGGCTCTTGTAATGTGGT
1 C-GATG-CATGTCCCAGACAT-GTCTTACACTAGCTCATCT--CGTAGT
* *
89596362 CGATACATGTCCCAGACATGTCTAACACTAGCTCA
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTCA
89596397 CACAAGTGAC
Statistics
Matches: 138, Mismatches: 25, Indels: 24
0.74 0.13 0.13
Matches are distributed among these distances:
44 9 0.07
45 18 0.13
46 66 0.48
47 29 0.21
48 15 0.11
49 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.29
Consensus pattern (44 bp):
CGATGCATGTCCCAGACATGTCTTACACTAGCTCATCTCGTAGT
Found at i:89597910 original size:38 final size:38
Alignment explanation
Indices: 89597859--89597939 Score: 146
Period size: 38 Copynumber: 2.2 Consensus size: 38
89597849 TTTTTAATTT
*
89597859 TCCCTTTTTATTCTTTTATTTACCAAATGACTAAAATG
1 TCCCTTTTTATTCTTTTATTTACCAAATAACTAAAATG
89597897 TCCCTTTTTATTCTTTTATTTACCAAATAACTAAAATG
1 TCCCTTTTTATTCTTTTATTTACCAAATAACTAAAATG
89597935 -CCCTT
1 TCCCTT
89597940 AAGGCCTTTC
Statistics
Matches: 42, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
37 5 0.12
38 37 0.88
ACGTcount: A:0.28, C:0.21, G:0.04, T:0.47
Consensus pattern (38 bp):
TCCCTTTTTATTCTTTTATTTACCAAATAACTAAAATG
Found at i:89599073 original size:29 final size:29
Alignment explanation
Indices: 89599041--89599164 Score: 187
Period size: 29 Copynumber: 4.3 Consensus size: 29
89599031 TCGACTAATA
89599041 AAAAAGGATAGCTTCGGCTATCAATTATG
1 AAAAAGGATAGCTTCGGCTATCAATTATG
89599070 AAAAAGGATAGCTTCGGCTATCAATTATG
1 AAAAAGGATAGCTTCGGCTATCAATTATG
* * *
89599099 AAAAAGGATAACTTTGGCTTTCAATTATG
1 AAAAAGGATAGCTTCGGCTATCAATTATG
* *
89599128 -AAAATGATAGCTTCGGCTATCGATTATG
1 AAAAAGGATAGCTTCGGCTATCAATTATG
*
89599156 AAAAGGGAT
1 AAAAAGGAT
89599165 GGTGACGACC
Statistics
Matches: 84, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
28 23 0.27
29 61 0.73
ACGTcount: A:0.38, C:0.12, G:0.21, T:0.29
Consensus pattern (29 bp):
AAAAAGGATAGCTTCGGCTATCAATTATG
Found at i:89599156 original size:57 final size:58
Alignment explanation
Indices: 89599041--89599164 Score: 187
Period size: 57 Copynumber: 2.2 Consensus size: 58
89599031 TCGACTAATA
*
89599041 AAAAAGGATAGCTTCGGCTATCAATTATGAAAAAGGATAGCTTCGGCTATCAATTATG
1 AAAAAGGATAACTTCGGCTATCAATTATGAAAAAGGATAGCTTCGGCTATCAATTATG
* * * *
89599099 AAAAAGGATAACTTTGGCTTTCAATTATG-AAAATGATAGCTTCGGCTATCGATTATG
1 AAAAAGGATAACTTCGGCTATCAATTATGAAAAAGGATAGCTTCGGCTATCAATTATG
*
89599156 AAAAGGGAT
1 AAAAAGGAT
89599165 GGTGACGACC
Statistics
Matches: 60, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
57 34 0.57
58 26 0.43
ACGTcount: A:0.38, C:0.12, G:0.21, T:0.29
Consensus pattern (58 bp):
AAAAAGGATAACTTCGGCTATCAATTATGAAAAAGGATAGCTTCGGCTATCAATTATG
Found at i:89599194 original size:29 final size:29
Alignment explanation
Indices: 89599146--89599230 Score: 118
Period size: 29 Copynumber: 2.9 Consensus size: 29
89599136 AGCTTCGGCT
*
89599146 ATCGATTATGAAAAGGGATGGTGACGACC
1 ATCGAATATGAAAAGGGATGGTGACGACC
* *
89599175 ATC-AACTATGAAAAGGGATGGTGATGATC
1 ATCGAA-TATGAAAAGGGATGGTGACGACC
*
89599204 ATCGAATATGAAAAGGGATGTTGACGA
1 ATCGAATATGAAAAGGGATGGTGACGA
89599231 AAAAAGATAG
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
28 1 0.02
29 46 0.94
30 2 0.04
ACGTcount: A:0.38, C:0.11, G:0.29, T:0.22
Consensus pattern (29 bp):
ATCGAATATGAAAAGGGATGGTGACGACC
Found at i:89599317 original size:103 final size:103
Alignment explanation
Indices: 89599128--89599325 Score: 265
Period size: 103 Copynumber: 1.9 Consensus size: 103
89599118 TTCAATTATG
* **
89599128 AAAATGATAGCTTCGGCTATCGATTATGAAAAGGGATGGTGACGACCATCAACTATGAAAAGGGA
1 AAAAAGATAGCTTCGGCTATCGATTATGAAAAGGGATGGTGAAAACCATCAACTATGAAAAGGGA
* * * *
89599193 TGGTGATGATCATCGAATATGAAAAGGGATGTTGACGA
66 TGATCATCAGCATCGAATATGAAAAGGGATGTTGACGA
* *
89599231 AAAAAGATAGCTTCGGCTATTGATTATGAAAAGGGATGGTGAAAACCATTGAA-TATGAAAAGGG
1 AAAAAGATAGCTTCGGCTATCGATTATGAAAAGGGATGGTGAAAACCA-TCAACTATGAAAAGGG
* *
89599295 AT-ATCTTCAGCTATCGATTATGAAAAGGGAT
65 ATGATCATCAGC-ATCGAATATGAAAAGGGAT
89599326 AGTTTTGGCT
Statistics
Matches: 82, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
102 4 0.05
103 75 0.91
104 3 0.04
ACGTcount: A:0.38, C:0.11, G:0.26, T:0.25
Consensus pattern (103 bp):
AAAAAGATAGCTTCGGCTATCGATTATGAAAAGGGATGGTGAAAACCATCAACTATGAAAAGGGA
TGATCATCAGCATCGAATATGAAAAGGGATGTTGACGA
Found at i:89599336 original size:29 final size:29
Alignment explanation
Indices: 89599284--89599361 Score: 86
Period size: 29 Copynumber: 2.7 Consensus size: 29
89599274 AACCATTGAA
*
89599284 TATGAAAAGGGATA-TCTTCAGCTATCGAT
1 TATGAAAAGGGATAGT-TTCAGCTATCAAT
**
89599313 TATGAAAAGGGATAGTTTTGGCTATCAAT
1 TATGAAAAGGGATAGTTTCAGCTATCAAT
* *
89599342 TAAAGAAAAGGGATGGTTTC
1 T-ATGAAAAGGGATAGTTTC
89599362 GACCATTGAC
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
29 25 0.61
30 16 0.39
ACGTcount: A:0.36, C:0.09, G:0.24, T:0.31
Consensus pattern (29 bp):
TATGAAAAGGGATAGTTTCAGCTATCAAT
Found at i:89602862 original size:5 final size:5
Alignment explanation
Indices: 89602852--89602878 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
89602842 AAGGATGTGA
89602852 AAAAT AAAAT AAAAT AAAAT AAAAT AA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AA
89602879 TAAAAAACAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:89602885 original size:15 final size:14
Alignment explanation
Indices: 89602851--89602885 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
89602841 AAAGGATGTG
89602851 AAAAATAAAATAAA
1 AAAAATAAAATAAA
89602865 ATAAAATAAAATAATA
1 A-AAAATAAAATAA-A
89602881 AAAAA
1 AAAAA
89602886 CACAAAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
14 1 0.05
15 16 0.84
16 2 0.11
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (14 bp):
AAAAATAAAATAAA
Found at i:89608404 original size:31 final size:31
Alignment explanation
Indices: 89608366--89608428 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
89608356 ACAGGAAAAA
89608366 AACTACTACATGAAACCCTACTAGAAAACCT
1 AACTACTACATGAAACCCTACTAGAAAACCT
89608397 AACTACTACATGAAACCCTACTAGAAAACCT
1 AACTACTACATGAAACCCTACTAGAAAACCT
89608428 A
1 A
89608429 TGTAAAAAGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.46, C:0.29, G:0.06, T:0.19
Consensus pattern (31 bp):
AACTACTACATGAAACCCTACTAGAAAACCT
Found at i:89608419 original size:18 final size:17
Alignment explanation
Indices: 89608367--89608419 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 17
89608357 CAGGAAAAAA
89608367 ACTACTACATGAAACC-
1 ACTACTACATGAAACCT
*
89608383 -CTACTAGA--AAACCT
1 ACTACTACATGAAACCT
89608397 AACTACTACATGAAACCCT
1 -ACTACTACATGAAA-CCT
89608416 ACTA
1 ACTA
89608420 GAAAACCTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
13 5 0.17
15 7 0.24
16 7 0.24
18 7 0.24
19 3 0.10
ACGTcount: A:0.43, C:0.30, G:0.06, T:0.21
Consensus pattern (17 bp):
ACTACTACATGAAACCT
Found at i:89615317 original size:79 final size:79
Alignment explanation
Indices: 89615180--89615329 Score: 201
Period size: 79 Copynumber: 1.9 Consensus size: 79
89615170 TTCTATTTGT
* * ** * * * *
89615180 AAATAGAAATCAATTGAATAATTCTATTTTAGGATTTTATTCTTGTTGTTCAACAGAATTTGTTT
1 AAATAGAAATCAATTGAACAATTCTATTTCAGGATTCCATTCCTATAGTTCAACAGAATTTATTT
89615245 TATTTTCTGTTTCC
66 TATTTTCTGTTTCC
* * *
89615259 AAATAGAAATCAATTGAACAATTCTGTTTCAGGATTCCATTCCTATAGTTTAATAGAATTTATTT
1 AAATAGAAATCAATTGAACAATTCTATTTCAGGATTCCATTCCTATAGTTCAACAGAATTTATTT
89615324 TATTTT
66 TATTTT
89615330 TGATTCTTAA
Statistics
Matches: 60, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
79 60 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.47
Consensus pattern (79 bp):
AAATAGAAATCAATTGAACAATTCTATTTCAGGATTCCATTCCTATAGTTCAACAGAATTTATTT
TATTTTCTGTTTCC
Found at i:89617471 original size:17 final size:19
Alignment explanation
Indices: 89617451--89617487 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 19
89617441 AAATTACATG
89617451 TGTAACAA-TAT-TATACT
1 TGTAACAATTATATATACT
*
89617468 TGTAATAATTATATATACT
1 TGTAACAATTATATATACT
89617487 T
1 T
89617488 ACTTATAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 7 0.41
18 3 0.18
19 7 0.41
ACGTcount: A:0.41, C:0.08, G:0.05, T:0.46
Consensus pattern (19 bp):
TGTAACAATTATATATACT
Found at i:89617515 original size:5 final size:5
Alignment explanation
Indices: 89617505--89617532 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
89617495 ATTTAAGAAA
89617505 ATATT ATATT ATATT ATATT ATATT ATA
1 ATATT ATATT ATATT ATATT ATATT ATA
89617533 ATTAAAGTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (5 bp):
ATATT
Found at i:89619653 original size:44 final size:43
Alignment explanation
Indices: 89619603--89619761 Score: 148
Period size: 43 Copynumber: 3.7 Consensus size: 43
89619593 TATGTGTGAC
89619603 CGTGTAAGACCACGTCTGGGACATTGGCATC-AACTTATGATTTA
1 CGTGTAAGACCACGTCTGGGACATTGGCATCGAA-TT-TGATTTA
* * * * *
89619647 CGTGTAAGACCATGTCTAGGACATCT-ACATCGTATTTAATTT-
1 CGTGTAAGACCACGTCTGGGACAT-TGGCATCGAATTTGATTTA
* * *
89619689 TGTGTAAGACC-CTGTCTGAGACAATGGCATCGATATTTG-TTTA
1 CGTGTAAGACCAC-GTCTGGGACATTGGCATCGA-ATTTGATTTA
* *
89619732 CATGTAAGACCACGTCTGGTACATTGGCAT
1 CGTGTAAGACCACGTCTGGGACATTGGCAT
89619762 TGTACGAGCT
Statistics
Matches: 90, Mismatches: 18, Indels: 15
0.73 0.15 0.12
Matches are distributed among these distances:
41 1 0.01
42 26 0.29
43 32 0.36
44 29 0.32
45 2 0.02
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.32
Consensus pattern (43 bp):
CGTGTAAGACCACGTCTGGGACATTGGCATCGAATTTGATTTA
Found at i:89621845 original size:43 final size:43
Alignment explanation
Indices: 89621781--89621953 Score: 140
Period size: 43 Copynumber: 4.0 Consensus size: 43
89621771 CATAGGATTT
* * * *
89621781 TCGATATCTG-TTCTCGTGTAAGACCACGTTTAGGACATTGGCA
1 TCGATATGTGATT-TCGAGTAAGACCACGTCTGGGACATTGGCA
* * *
89621824 TCGATATATGATTTCGAGTAAGACCATGTCTGGAACATTGGCA
1 TCGATATGTGATTTCGAGTAAGACCACGTCTGGGACATTGGCA
* * *
89621867 TC-ATAATTGTGA-TTCGTGTAAGACC-CTGTTTGGGACAGTGGCA
1 TCGAT-A-TGTGATTTCGAGTAAGACCAC-GTCTGGGACATTGGCA
* * * *
89621910 TCGACATGTGATTAC-ATGTAAGGCCACGTCTGGGACGTTGGCA
1 TCGATATGTGATTTCGA-GTAAGACCACGTCTGGGACATTGGCA
89621953 T
1 T
89621954 TGTACGATAT
Statistics
Matches: 103, Mismatches: 19, Indels: 16
0.75 0.14 0.12
Matches are distributed among these distances:
42 7 0.07
43 88 0.85
44 8 0.08
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (43 bp):
TCGATATGTGATTTCGAGTAAGACCACGTCTGGGACATTGGCA
Found at i:89621941 original size:86 final size:86
Alignment explanation
Indices: 89621794--89621953 Score: 207
Period size: 86 Copynumber: 1.9 Consensus size: 86
89621784 ATATCTGTTC
* * * *
89621794 TCGTGTAAGACCACGTTTAGGACATTGGCATCGATATATGATTTCGAGTAAGACCATGTCTGGAA
1 TCGTGTAAGACCACGTTTAGGACAGTGGCATCGACATATGATTACGAGTAAGACCACGTCTGGAA
89621859 CATTGGCATCATAATTGTGAT
66 CATTGGCATCATAATTGTGAT
* * *
89621880 TCGTGTAAGACC-CTGTTTGGGACAGTGGCATCGACATGTGATTAC-ATGTAAGGCCACGTCTGG
1 TCGTGTAAGACCAC-GTTTAGGACAGTGGCATCGACATATGATTACGA-GTAAGACCACGTCTGG
* *
89621943 GACGTTGGCAT
64 AACATTGGCAT
89621954 TGTACGATAT
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
85 2 0.03
86 61 0.97
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (86 bp):
TCGTGTAAGACCACGTTTAGGACAGTGGCATCGACATATGATTACGAGTAAGACCACGTCTGGAA
CATTGGCATCATAATTGTGAT
Found at i:89625502 original size:14 final size:14
Alignment explanation
Indices: 89625485--89625515 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
89625475 TATATACAAA
89625485 TATATATATGTGTT
1 TATATATATGTGTT
*
89625499 TATATATGTGTGTT
1 TATATATATGTGTT
89625513 TAT
1 TAT
89625516 TTGAAGTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.26, C:0.00, G:0.16, T:0.58
Consensus pattern (14 bp):
TATATATATGTGTT
Found at i:89625970 original size:24 final size:24
Alignment explanation
Indices: 89625943--89626040 Score: 135
Period size: 24 Copynumber: 4.1 Consensus size: 24
89625933 GAAATAACTT
89625943 TGGCACTATGTGTGCGGATTTGAA
1 TGGCACTATGTGTGCGGATTTGAA
*
89625967 TGGCACTATGTGTGCAGG-TTTGTA
1 TGGCACTATGTGTGC-GGATTTGAA
* * *
89625991 TGGCACTCTGTGTGCAGATTTGTA
1 TGGCACTATGTGTGCGGATTTGAA
*
89626015 TGGCACTATGTGTACGGATTTGAA
1 TGGCACTATGTGTGCGGATTTGAA
89626039 TG
1 TG
89626041 TCAATACGAG
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
23 1 0.02
24 62 0.95
25 2 0.03
ACGTcount: A:0.19, C:0.13, G:0.32, T:0.36
Consensus pattern (24 bp):
TGGCACTATGTGTGCGGATTTGAA
Found at i:89626078 original size:24 final size:24
Alignment explanation
Indices: 89626051--89626096 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
89626041 TCAATACGAG
*
89626051 TGTGGATTACTAA-GGCACTATGTC
1 TGTGGATTA-AAATGGCACTATGTC
*
89626075 TGTGGGTTAAAATGGCACTATG
1 TGTGGATTAAAATGGCACTATG
89626097 GGTGCGAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 2 0.11
24 17 0.89
ACGTcount: A:0.26, C:0.13, G:0.28, T:0.33
Consensus pattern (24 bp):
TGTGGATTAAAATGGCACTATGTC
Found at i:89626809 original size:18 final size:18
Alignment explanation
Indices: 89626782--89626816 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
89626772 AATGAGGTTA
89626782 TTTTTCTTTTTCTTTTTT
1 TTTTTCTTTTTCTTTTTT
* *
89626800 TTTTTGTTTTTGTTTTT
1 TTTTTCTTTTTCTTTTT
89626817 ATGAGCTAAA
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:0.00, C:0.06, G:0.06, T:0.89
Consensus pattern (18 bp):
TTTTTCTTTTTCTTTTTT
Done.