Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold190
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: 1396844
ACGTcount: A:0.19, C:0.10, G:0.11, T:0.19
Warning! 567192 characters in sequence are not A, C, G, or T
File 2 of 5
Found at i:127859 original size:39 final size:40
Alignment explanation
Indices: 127806--127896 Score: 114
Period size: 39 Copynumber: 2.3 Consensus size: 40
127796 GGAGATTTTT
* *
127806 TTTAGTAAAAGGGGAGAATGCATAAATTTGCTAAAATTA-
1 TTTAGTTAAGGGGGAGAATGCATAAATTTGCTAAAATTAC
* * *
127845 TCTTA-TTAAGGGGGAGAATGTATGAATTTGTTAAAATTAC
1 T-TTAGTTAAGGGGGAGAATGCATAAATTTGCTAAAATTAC
127885 TTTAGTTAAGGG
1 TTTAGTTAAGGG
127897 AGAAAGAAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
39 33 0.75
40 11 0.25
ACGTcount: A:0.37, C:0.04, G:0.23, T:0.35
Consensus pattern (40 bp):
TTTAGTTAAGGGGGAGAATGCATAAATTTGCTAAAATTAC
Found at i:128559 original size:13 final size:13
Alignment explanation
Indices: 128541--128566 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
128531 TACACAAAGT
128541 ATGTATCGATACA
1 ATGTATCGATACA
128554 ATGTATCGATACA
1 ATGTATCGATACA
128567 CAAAAAATTG
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:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:128564 original size:32 final size:33
Alignment explanation
Indices: 128523--128586 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
128513 TAGCCAAACT
**
128523 TGTATCGATACACAAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
128555 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
128587 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:130220 original size:3 final size:3
Alignment explanation
Indices: 130212--130246 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
130202 TTGTTTGTTT
*
130212 TTA TTA TTA TGA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
130247 TTTTGTTATG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:136438 original size:15 final size:15
Alignment explanation
Indices: 136414--136443 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
136404 TAAATGTATC
136414 ATAATCTAATATTAA
1 ATAATCTAATATTAA
*
136429 ATAATTTAATATTAA
1 ATAATCTAATATTAA
136444 TAGAAAGTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.43
Consensus pattern (15 bp):
ATAATCTAATATTAA
Found at i:136446 original size:168 final size:168
Alignment explanation
Indices: 136162--136493 Score: 529
Period size: 168 Copynumber: 2.0 Consensus size: 168
136152 TCATAACATT
*
136162 AAATTCAATCAAAAACTTTAATAATAGTATTGATAGATAAATTTTGTACTTACTTTTCTCAACAA
1 AAATTCAATCAAAAACTTCAATAATAGTATTGATAGATAAATTTTGTACTTACTTTTCTCAACAA
* *
136227 CCGACATAATAAGTGTATCATAAACTAATATAAAATAATTTAAAATTAATAGAAGGTTAACTTTT
66 CCGACATAATAAATGTATCATAAACTAATATAAAATAATTTAAAATTAATAGAAAGTTAACTTTT
136292 TTAATTACAATCATTTAAAAATATGTAGACACTTGTTC
131 TTAATTACAATCATTTAAAAATATGTAGACACTTGTTC
* * * * *
136330 AAATTTAATCAAAAACTTCAATAATAGTGTTGGTAGATAAATTTTTTACTTACTTTTCTCATCAA
1 AAATTCAATCAAAAACTTCAATAATAGTATTGATAGATAAATTTTGTACTTACTTTTCTCAACAA
* * *
136395 CCGACATAATAAATGTATCATAATCTAATATTAAATAATTTAATATTAATAGAAAGTTAACTTTT
66 CCGACATAATAAATGTATCATAAACTAATATAAAATAATTTAAAATTAATAGAAAGTTAACTTTT
* * * *
136460 TTAATTACAATTATTTAAATATGTGTAGATACTT
131 TTAATTACAATCATTTAAAAATATGTAGACACTT
136494 ATTTTTGGTC
Statistics
Matches: 149, Mismatches: 15, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
168 149 1.00
ACGTcount: A:0.43, C:0.11, G:0.08, T:0.39
Consensus pattern (168 bp):
AAATTCAATCAAAAACTTCAATAATAGTATTGATAGATAAATTTTGTACTTACTTTTCTCAACAA
CCGACATAATAAATGTATCATAAACTAATATAAAATAATTTAAAATTAATAGAAAGTTAACTTTT
TTAATTACAATCATTTAAAAATATGTAGACACTTGTTC
Found at i:141954 original size:52 final size:52
Alignment explanation
Indices: 141806--141934 Score: 204
Period size: 52 Copynumber: 2.5 Consensus size: 52
141796 CGAAATATGA
*
141806 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATATGGGC
* * * * *
141858 AAATTTGCTTGTAGGTATCGATACATTTTATAGTGTATCGATACATATGGGT
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATATGGGC
141910 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
141935 AAGATCAGTG
Statistics
Matches: 68, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
52 68 1.00
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATATGGGC
Found at i:142051 original size:19 final size:19
Alignment explanation
Indices: 142027--142103 Score: 85
Period size: 19 Copynumber: 4.4 Consensus size: 19
142017 AATTGTGTCA
142027 ATACAAAACTTATGTATCG
1 ATACAAAACTTATGTATCG
* *
142046 ATACAATACTTATGTATTG
1 ATACAAAACTTATGTATCG
142065 ATAC---A--T-TGTATCG
1 ATACAAAACTTATGTATCG
*
142078 ATACAACACTTATGTATCG
1 ATACAAAACTTATGTATCG
142097 ATACAAA
1 ATACAAA
142104 TCATTGAAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
13 10 0.21
14 1 0.02
16 2 0.04
18 1 0.02
19 34 0.71
ACGTcount: A:0.40, C:0.16, G:0.10, T:0.34
Consensus pattern (19 bp):
ATACAAAACTTATGTATCG
Found at i:142075 original size:32 final size:32
Alignment explanation
Indices: 142039--142101 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
142029 ACAAAACTTA
* *
142039 TGTATCGATACAATACTTATGTATTGATACAT
1 TGTATCGATACAACACTTATGTATCGATACAT
142071 TGTATCGATACAACACTTATGTATCGATACA
1 TGTATCGATACAACACTTATGTATCGATACA
142102 AATCATTGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.37
Consensus pattern (32 bp):
TGTATCGATACAACACTTATGTATCGATACAT
Found at i:147889 original size:59 final size:58
Alignment explanation
Indices: 147796--147995 Score: 198
Period size: 57 Copynumber: 3.5 Consensus size: 58
147786 TCCCATAATC
* * ** *
147796 TTTTCATGCATGTTAAGTACTATTATGCATTTTCATGCATTTTAGGGTTATTTACGGTAT
1 TTTTCATGCAT-TTAAGAACTATTATGCA-TTTCATGCATTTTAGGGTCATTTAAAGCAT
*
147856 TTTTCATGCATTTAAGAATTATTATGCCATTTCATGCATTTTA-GGTCATTTAAAGCAT
1 TTTTCATGCATTTAAGAACTATTATG-CATTTCATGCATTTTAGGGTCATTTAAAGCAT
* * * * *
147914 TTTCCATGTATTT-AGGACTATTATGTTATTTCATGCATTTTA-GGTCATTT-AAGGA-
1 TTTTCATGCATTTAAGAACTATTATG-CATTTCATGCATTTTAGGGTCATTTAAAGCAT
*
147969 ATTT-ATGCATTT-AGAGACTATTATGCA
1 TTTTCATGCATTTAAGA-ACTATTATGCA
147996 ATTTAATTTA
Statistics
Matches: 120, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
54 10 0.08
55 11 0.09
56 4 0.03
57 33 0.28
58 22 0.18
59 27 0.22
60 13 0.11
ACGTcount: A:0.27, C:0.12, G:0.15, T:0.46
Consensus pattern (58 bp):
TTTTCATGCATTTAAGAACTATTATGCATTTCATGCATTTTAGGGTCATTTAAAGCAT
Found at i:150744 original size:15 final size:15
Alignment explanation
Indices: 150724--150754 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
150714 ACAAGAGATT
150724 TGAGAGATAAAGGGG
1 TGAGAGATAAAGGGG
150739 TGAGAGATAAAGGGG
1 TGAGAGATAAAGGGG
150754 T
1 T
150755 AATTATTCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.45, T:0.16
Consensus pattern (15 bp):
TGAGAGATAAAGGGG
Found at i:154280 original size:11 final size:11
Alignment explanation
Indices: 154263--154292 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
154253 AAAAAAATCC
154263 AAAAAAATTAA
1 AAAAAAATTAA
*
154274 AATAAAATTAA
1 AAAAAAATTAA
154285 AAAAAAAT
1 AAAAAAAT
154293 CGAGTGCAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (11 bp):
AAAAAAATTAA
Found at i:154529 original size:22 final size:22
Alignment explanation
Indices: 154495--154542 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
154485 CCATTAAGCT
*
154495 AAAACATTGAAAAAAAATCCAA
1 AAAACATTCAAAAAAAATCCAA
* * *
154517 AAAAGATTCAAAAAAACTTCAA
1 AAAACATTCAAAAAAAATCCAA
154539 AAAA
1 AAAA
154543 ATAAAAAACA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.69, C:0.12, G:0.04, T:0.15
Consensus pattern (22 bp):
AAAACATTCAAAAAAAATCCAA
Found at i:154530 original size:12 final size:11
Alignment explanation
Indices: 154504--154543 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
154494 TAAAACATTG
*
154504 AAAAAAAATCC
1 AAAAAAAATTC
*
154515 AAAAAAGATTC
1 AAAAAAAATTC
*
154526 AAAAAAACTTC
1 AAAAAAAATTC
154537 AAAAAAA
1 AAAAAAA
154544 TAAAAAACAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.72, C:0.12, G:0.03, T:0.12
Consensus pattern (11 bp):
AAAAAAAATTC
Found at i:154614 original size:24 final size:24
Alignment explanation
Indices: 154581--154628 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
154571 ATAAGTAAGG
*
154581 TATTCCAAATGATTTCAAAAAGAA
1 TATTCAAAATGATTTCAAAAAGAA
154605 TATTCAAAATGATTTCAAAAAGAA
1 TATTCAAAATGATTTCAAAAAGAA
154629 AACTATCTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.52, C:0.10, G:0.08, T:0.29
Consensus pattern (24 bp):
TATTCAAAATGATTTCAAAAAGAA
Found at i:156088 original size:34 final size:35
Alignment explanation
Indices: 156050--156116 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
156040 CCTTACAACA
156050 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
156084 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
156117 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:156610 original size:21 final size:22
Alignment explanation
Indices: 156557--156631 Score: 95
Period size: 21 Copynumber: 3.5 Consensus size: 22
156547 TTAAATGGTG
156557 TGAACAGTGATGTATCGATAC-
1 TGAACAGTGATGTATCGATACA
**
156578 T-ATTTA-TGATGTATCGATACA
1 TGA-ACAGTGATGTATCGATACA
156599 TGAA-AGTGATGTATCGATACA
1 TGAACAGTGATGTATCGATACA
156620 TGAACAGTGATG
1 TGAACAGTGATG
156632 AATAGTGATG
Statistics
Matches: 46, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
20 16 0.35
21 22 0.48
22 8 0.17
ACGTcount: A:0.35, C:0.11, G:0.23, T:0.32
Consensus pattern (22 bp):
TGAACAGTGATGTATCGATACA
Found at i:156638 original size:10 final size:10
Alignment explanation
Indices: 156619--156649 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
156609 GTATCGATAC
156619 ATGAACAGTG
1 ATGAACAGTG
*
156629 ATGAATAGTG
1 ATGAACAGTG
156639 ATGAACAGTG
1 ATGAACAGTG
156649 A
1 A
156650 AAATGAGATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.42, C:0.06, G:0.29, T:0.23
Consensus pattern (10 bp):
ATGAACAGTG
Found at i:156737 original size:53 final size:53
Alignment explanation
Indices: 156673--156809 Score: 238
Period size: 53 Copynumber: 2.6 Consensus size: 53
156663 CTACTACCAA
*
156673 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAGTGACC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
* *
156726 TGTATCGATACATATTGTGTGTATCGATACAAATTTGGCTACTGCCAATGTCC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
156779 TGTATCGATACATATTTGTGTGTATCGATAC
1 TGTATCGATACATATTT-TGTGTATCGATAC
156810 TATGCAATCT
Statistics
Matches: 79, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
53 66 0.84
54 13 0.16
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.37
Consensus pattern (53 bp):
TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
Found at i:156916 original size:21 final size:21
Alignment explanation
Indices: 156890--156930 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
156880 GTCAACCTTG
156890 TGTATTAATACCAATA-GTATA
1 TGTATTAATA-CAATACGTATA
*
156911 TGTATTGATACAATACGTAT
1 TGTATTAATACAATACGTAT
156931 TTTTACTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (21 bp):
TGTATTAATACAATACGTATA
Found at i:157824 original size:56 final size:56
Alignment explanation
Indices: 157754--157859 Score: 151
Period size: 56 Copynumber: 1.9 Consensus size: 56
157744 GACCCTAGAG
* *
157754 TAACTAATAAGTTTCATCCTAATTGAAATTAACACCAAAAT-AAGAAAGCCTAAGAA
1 TAACTAATAAGTTTCATCCCAATTG-AATTAACACCAAAATGAAAAAAGCCTAAGAA
* * *
157810 TAACTTATAGGTTTCATCCCAGTTGAATTAACACCAAAATGAAAAAAGCC
1 TAACTAATAAGTTTCATCCCAATTGAATTAACACCAAAATGAAAAAAGCC
157860 AAAAGAAACT
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
55 15 0.34
56 29 0.66
ACGTcount: A:0.46, C:0.18, G:0.10, T:0.25
Consensus pattern (56 bp):
TAACTAATAAGTTTCATCCCAATTGAATTAACACCAAAATGAAAAAAGCCTAAGAA
Found at i:161409 original size:20 final size:20
Alignment explanation
Indices: 161384--161440 Score: 105
Period size: 20 Copynumber: 2.9 Consensus size: 20
161374 GTAAAAAGAT
161384 AGAATGTATCGATACATTGA
1 AGAATGTATCGATACATTGA
161404 AGAATGTATCGATACATTGA
1 AGAATGTATCGATACATTGA
*
161424 AAAATGTATCGATACAT
1 AGAATGTATCGATACAT
161441 CTGGGTACTT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.42, C:0.11, G:0.18, T:0.30
Consensus pattern (20 bp):
AGAATGTATCGATACATTGA
Found at i:162429 original size:28 final size:28
Alignment explanation
Indices: 162375--163302 Score: 1023
Period size: 28 Copynumber: 32.5 Consensus size: 28
162365 TTATCACTAG
* *
162375 CTTGTGGGCTTTGAAAAGAGTGCCACTAA
1 CTTGTGGGCTTTG-AAAGGGTGCCACTGA
*
162404 CTTATGGGCTTTGAAAGGGTGCCACTGA
1 CTTGTGGGCTTTGAAAGGGTGCCACTGA
* *
162432 CTTGTGGGCTTCGAAAGGGTGCCACTAA
1 CTTGTGGGCTTTGAAAGGGTGCCACTGA
*
162460 CTTGTGGGCTTTGAAAGGATGCCACTGA
1 CTTGTGGGCTTTGAAAGGGTGCCACTGA
162488 CTTGTGGGCTTTGAAAGGGTGCCACTGA
1 CTTGTGGGCTTTGAAAGGGTGCCACTGA
* * *
162516 TTTATGGGCTTTGAAAAGAGTGCCA-TGGA
1 CTTGTGGGCTTTG-AAAGGGTGCCACT-GA
* *
162545 CTTATGGGCTTTGAAAGAGTGCCACTGA
1 CTTGTGGGCTTTGAAAGGGTGCCACTGA
*** *
162573 CTTGTGGGCTTTGAAAAAATGCCACTAA
1 CTTGTGGGCTTTGAAAGGGTGCCACTGA
* * * *
162601 CTTGTAGGCTTTGAAAAGAGTTACCACCGA
1 CTTGTGGGCTTTG-AAAG-GGTGCCACTGA
* * *
162631 CTCGTGGGCTTTGAAAGGATGCCACTAA
1 CTTGTGGGCTTTGAAAGGGTGCCACTGA
* * *
162659 CTTGTAGGCTTTGAAAAGAGTTGCCACCGA
1 CTTGTGGGCTTTG-AAAG-GGTGCCACTGA
* * * *
162689 CTCGTAGGCTTTGAAAGGATGACACTGA
1 CTTGTGGGCTTTGAAAGGGTGCCACTGA
* * *
162717 TTTGTGGGCTTTAAAAAGAGTGCCACTGA
1 CTTGTGGGCTTT-GAAAGGGTGCCACTGA
162746 CTTGTGGGCTTTGAAAGGGTGCCACTGA
1 CTTGTGGGCTTTGAAAGGGTGCCACTGA
*
162774 CTTGTGGGCTTTGGAAAGAGTGCCACTGA
1 CTTGTGGGCTTT-GAAAGGGTGCCACTGA
* * *
162803 CTTATGGGCTTTGGAAAGAGTGCCACTAA
1 CTTGTGGGCTTT-GAAAGGGTGCCACTGA
* *
162832 CTTGTGGGCTTTGAAAAGGTGCCACTAA
1 CTTGTGGGCTTTGAAAGGGTGCCACTGA
*
162860 CTTGTGGGCTTTGAAAGGATGCCACTGA
1 CTTGTGGGCTTTGAAAGGGTGCCACTGA
162888 CTTGTGGGCTTTGAAAGGGTGCCACTGA
1 CTTGTGGGCTTTGAAAGGGTGCCACTGA
* * *
162916 TTTATGGGCTTTGAAAAGAGTGCCA-TGGA
1 CTTGTGGGCTTTG-AAAGGGTGCCACT-GA
* *
162945 CTTATGGGCTTTGAAAGAGTGCCACTGA
1 CTTGTGGGCTTTGAAAGGGTGCCACTGA
*** *
162973 CTTGTGGGCTTTGAAAAAATGCCACTAA
1 CTTGTGGGCTTTGAAAGGGTGCCACTGA
* * * *
163001 CTTGTAGGCTTTGAAAAGAGTTACCACCGA
1 CTTGTGGGCTTTG-AAAG-GGTGCCACTGA
* * *
163031 CTCGTGGGCTTTGAAAGGATGCCACTAA
1 CTTGTGGGCTTTGAAAGGGTGCCACTGA
* * *
163059 CTTGTAGGCTTTGAAAAGAGTTGCCACCGA
1 CTTGTGGGCTTTG-AAAG-GGTGCCACTGA
* * * *
163089 CTCGTAGGCTTTGAAAGGATGACACTGA
1 CTTGTGGGCTTTGAAAGGGTGCCACTGA
* * *
163117 TTTGTGGGCTTTAAAAAGAGTGCCACTGA
1 CTTGTGGGCTTT-GAAAGGGTGCCACTGA
*
163146 CTTGTGGGCTTTGAAAGGGTGCCACTAA
1 CTTGTGGGCTTTGAAAGGGTGCCACTGA
*
163174 CTTGTGGGCTTTGGAAAGAGTGCCACTGA
1 CTTGTGGGCTTT-GAAAGGGTGCCACTGA
* * *
163203 CTTATGGGCTTTGGAAAGAGTGCCACTAA
1 CTTGTGGGCTTT-GAAAGGGTGCCACTGA
* *
163232 CTTGTGGGCTTTGAAAAGGTGCCACTAA
1 CTTGTGGGCTTTGAAAGGGTGCCACTGA
163260 CTTGTGGGCTTTGAAAGGGTGCCACTGA
1 CTTGTGGGCTTTGAAAGGGTGCCACTGA
163288 CTTGTGGGCTTTGAA
1 CTTGTGGGCTTTGAA
163303 GAGATGAACG
Statistics
Matches: 771, Mismatches: 110, Indels: 37
0.84 0.12 0.04
Matches are distributed among these distances:
28 454 0.59
29 243 0.32
30 74 0.10
ACGTcount: A:0.25, C:0.18, G:0.30, T:0.28
Consensus pattern (28 bp):
CTTGTGGGCTTTGAAAGGGTGCCACTGA
Found at i:162567 original size:57 final size:57
Alignment explanation
Indices: 162347--163302 Score: 1064
Period size: 57 Copynumber: 16.7 Consensus size: 57
162337 CATCGACTCG
** *
162347 TGTGGGCTTTGAAAAGAGTTATCACT-AGCTTGTGGGCTTTGAAAAGAGTGCCACTAACT
1 TGTGGGCTTTGAAAAGAG-TGCCACTGA-CTTGTGGGCTTTG-AAAGAGTGCCACTGACT
* * * * *
162406 TATGGGCTTTG-AAAGGGTGCCACTGACTTGTGGGCTTCGAAAGGGTGCCACTAACT
1 TGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACT
* * *
162462 TGTGGGCTTTGAAAGGA-TGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGATT
1 TGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACT
* *
162518 TATGGGCTTTGAAAAGAGTGCCA-TGGACTTATGGGCTTTGAAAGAGTGCCACTGACT
1 TGTGGGCTTTGAAAAGAGTGCCACT-GACTTGTGGGCTTTGAAAGAGTGCCACTGACT
* * * * *
162575 TGTGGGCTTTGAAAA-AATGCCACTAACTTGTAGGCTTTGAAAAGAGTTACCACCGACT
1 TGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG-AAAGAG-TGCCACTGACT
* * * * *
162633 CGTGGGCTTTGAAAGGA-TGCCACTAACTTGTAGGCTTTGAAAAGAGTTGCCACCGACT
1 TGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG-AAAGAG-TGCCACTGACT
* * * * * *
162691 CGTAGGCTTTGAAAGGA-TGACACTGATTTGTGGGCTTTAAAAAGAGTGCCACTGACT
1 TGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTT-GAAAGAGTGCCACTGACT
*
162748 TGTGGGCTTTG-AAAGGGTGCCACTGACTTGTGGGCTTTGGAAAGAGTGCCACTGACT
1 TGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTT-GAAAGAGTGCCACTGACT
* * * *
162805 TATGGGCTTTGGAAAGAGTGCCACTAACTTGTGGGCTTTGAAA-AGGTGCCACTAACT
1 TGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGA-GTGCCACTGACT
* * *
162862 TGTGGGCTTTGAAAGGA-TGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGATT
1 TGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACT
* *
162918 TATGGGCTTTGAAAAGAGTGCCA-TGGACTTATGGGCTTTGAAAGAGTGCCACTGACT
1 TGTGGGCTTTGAAAAGAGTGCCACT-GACTTGTGGGCTTTGAAAGAGTGCCACTGACT
* * * * *
162975 TGTGGGCTTTGAAAA-AATGCCACTAACTTGTAGGCTTTGAAAAGAGTTACCACCGACT
1 TGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG-AAAGAG-TGCCACTGACT
* * * * *
163033 CGTGGGCTTTGAAAGGA-TGCCACTAACTTGTAGGCTTTGAAAAGAGTTGCCACCGACT
1 TGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG-AAAGAG-TGCCACTGACT
* * * * * *
163091 CGTAGGCTTTGAAAGGA-TGACACTGATTTGTGGGCTTTAAAAAGAGTGCCACTGACT
1 TGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTT-GAAAGAGTGCCACTGACT
* *
163148 TGTGGGCTTTG-AAAGGGTGCCACTAACTTGTGGGCTTTGGAAAGAGTGCCACTGACT
1 TGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTT-GAAAGAGTGCCACTGACT
* * * *
163205 TATGGGCTTTGGAAAGAGTGCCACTAACTTGTGGGCTTTGAAA-AGGTGCCACTAACT
1 TGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGA-GTGCCACTGACT
*
163262 TGTGGGCTTTG-AAAGGGTGCCACTGACTTGTGGGCTTTGAA
1 TGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAA
163303 GAGATGAACG
Statistics
Matches: 784, Mismatches: 90, Indels: 49
0.85 0.10 0.05
Matches are distributed among these distances:
56 200 0.26
57 313 0.40
58 259 0.33
59 12 0.02
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.28
Consensus pattern (57 bp):
TGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACT
Found at i:163162 original size:400 final size:400
Alignment explanation
Indices: 162369--163302 Score: 1780
Period size: 400 Copynumber: 2.3 Consensus size: 400
162359 AAAGAGTTAT
* * * * *
162369 CACTAGCTTGTGGGCTTTGAAAAGAGTGCCACTAACTTATGGGCTTT-GAAAGGGTGCCACTGAC
1 CACTAACTTGTGGGCTTTGGAAAGAGTGCCACTGACTTATGGGCTTTGGAAAGAGTGCCACTAAC
* *
162433 TTGTGGGCTTCGAAAGGGTGCCACTAACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCT
66 TTGTGGGCTTTGAAAAGGTGCCACTAACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCT
162498 TTGAAAGGGTGCCACTGATTTATGGGCTTTGAAAAGAGTGCCATGGACTTATGGGCTTTGAAAGA
131 TTGAAAGGGTGCCACTGATTTATGGGCTTTGAAAAGAGTGCCATGGACTTATGGGCTTTGAAAGA
162563 GTGCCACTGACTTGTGGGCTTTGAAAAAATGCCACTAACTTGTAGGCTTTGAAAAGAGTTACCAC
196 GTGCCACTGACTTGTGGGCTTTGAAAAAATGCCACTAACTTGTAGGCTTTGAAAAGAGTTACCAC
162628 CGACTCGTGGGCTTTGAAAGGATGCCACTAACTTGTAGGCTTTGAAAAGAGTTGCCACCGACTCG
261 CGACTCGTGGGCTTTGAAAGGATGCCACTAACTTGTAGGCTTTGAAAAGAGTTGCCACCGACTCG
162693 TAGGCTTTGAAAGGATGACACTGATTTGTGGGCTTTAAAAAGAGTGCCACTGACTTGTGGGCTTT
326 TAGGCTTTGAAAGGATGACACTGATTTGTGGGCTTTAAAAAGAGTGCCACTGACTTGTGGGCTTT
162758 GAAAGGGTGC
391 GAAAGGGTGC
*
162768 CACTGACTTGTGGGCTTTGGAAAGAGTGCCACTGACTTATGGGCTTTGGAAAGAGTGCCACTAAC
1 CACTAACTTGTGGGCTTTGGAAAGAGTGCCACTGACTTATGGGCTTTGGAAAGAGTGCCACTAAC
162833 TTGTGGGCTTTGAAAAGGTGCCACTAACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCT
66 TTGTGGGCTTTGAAAAGGTGCCACTAACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCT
162898 TTGAAAGGGTGCCACTGATTTATGGGCTTTGAAAAGAGTGCCATGGACTTATGGGCTTTGAAAGA
131 TTGAAAGGGTGCCACTGATTTATGGGCTTTGAAAAGAGTGCCATGGACTTATGGGCTTTGAAAGA
162963 GTGCCACTGACTTGTGGGCTTTGAAAAAATGCCACTAACTTGTAGGCTTTGAAAAGAGTTACCAC
196 GTGCCACTGACTTGTGGGCTTTGAAAAAATGCCACTAACTTGTAGGCTTTGAAAAGAGTTACCAC
163028 CGACTCGTGGGCTTTGAAAGGATGCCACTAACTTGTAGGCTTTGAAAAGAGTTGCCACCGACTCG
261 CGACTCGTGGGCTTTGAAAGGATGCCACTAACTTGTAGGCTTTGAAAAGAGTTGCCACCGACTCG
163093 TAGGCTTTGAAAGGATGACACTGATTTGTGGGCTTTAAAAAGAGTGCCACTGACTTGTGGGCTTT
326 TAGGCTTTGAAAGGATGACACTGATTTGTGGGCTTTAAAAAGAGTGCCACTGACTTGTGGGCTTT
163158 GAAAGGGTGC
391 GAAAGGGTGC
163168 CACTAACTTGTGGGCTTTGGAAAGAGTGCCACTGACTTATGGGCTTTGGAAAGAGTGCCACTAAC
1 CACTAACTTGTGGGCTTTGGAAAGAGTGCCACTGACTTATGGGCTTTGGAAAGAGTGCCACTAAC
*
163233 TTGTGGGCTTTGAAAAGGTGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCT
66 TTGTGGGCTTTGAAAAGGTGCCACTAACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCT
163298 TTGAA
131 TTGAA
163303 GAGATGAACG
Statistics
Matches: 524, Mismatches: 10, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
399 43 0.08
400 481 0.92
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.28
Consensus pattern (400 bp):
CACTAACTTGTGGGCTTTGGAAAGAGTGCCACTGACTTATGGGCTTTGGAAAGAGTGCCACTAAC
TTGTGGGCTTTGAAAAGGTGCCACTAACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCT
TTGAAAGGGTGCCACTGATTTATGGGCTTTGAAAAGAGTGCCATGGACTTATGGGCTTTGAAAGA
GTGCCACTGACTTGTGGGCTTTGAAAAAATGCCACTAACTTGTAGGCTTTGAAAAGAGTTACCAC
CGACTCGTGGGCTTTGAAAGGATGCCACTAACTTGTAGGCTTTGAAAAGAGTTGCCACCGACTCG
TAGGCTTTGAAAGGATGACACTGATTTGTGGGCTTTAAAAAGAGTGCCACTGACTTGTGGGCTTT
GAAAGGGTGC
Found at i:164512 original size:24 final size:24
Alignment explanation
Indices: 164485--164537 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
164475 CCCCTTTCTG
164485 TTTTTTTGTTATTTT-TTTCTTGGT
1 TTTTTTTGTT-TTTTGTTTCTTGGT
* *
164509 TTTTTTTGTTTTTTGTTTTTTTGT
1 TTTTTTTGTTTTTTGTTTCTTGGT
164533 TTTTT
1 TTTTT
164538 GGGTATGAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
23 4 0.15
24 22 0.85
ACGTcount: A:0.02, C:0.02, G:0.11, T:0.85
Consensus pattern (24 bp):
TTTTTTTGTTTTTTGTTTCTTGGT
Found at i:164527 original size:15 final size:15
Alignment explanation
Indices: 164486--164538 Score: 63
Period size: 15 Copynumber: 3.5 Consensus size: 15
164476 CCCTTTCTGT
164486 TTTTTTGTTATTTTT-
1 TTTTTTGTT-TTTTTG
* *
164501 TTCTTGGTTTTTTTTG
1 TTTTTTG-TTTTTTTG
164517 TTTTTTGTTTTTTTG
1 TTTTTTGTTTTTTTG
164532 TTTTTTG
1 TTTTTTG
164539 GGTATGAAGG
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
15 25 0.78
16 7 0.22
ACGTcount: A:0.02, C:0.02, G:0.13, T:0.83
Consensus pattern (15 bp):
TTTTTTGTTTTTTTG
Found at i:178526 original size:20 final size:20
Alignment explanation
Indices: 178482--178556 Score: 78
Period size: 20 Copynumber: 3.8 Consensus size: 20
178472 AAAAAGACAG
* * *
178482 AATGTATCGGTACATTGAAG
1 AATGTATCGATACATTCAAA
* * *
178502 AATGTACCGATACATTTATA
1 AATGTATCGATACATTCAAA
* *
178522 CATGTATTGATACATTCAAA
1 AATGTATCGATACATTCAAA
178542 AATGTATCGATACAT
1 AATGTATCGATACAT
178557 CTGGGTACTT
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.39, C:0.13, G:0.15, T:0.33
Consensus pattern (20 bp):
AATGTATCGATACATTCAAA
Found at i:179760 original size:20 final size:20
Alignment explanation
Indices: 179732--179782 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
179722 GTAGCTTAGA
*
179732 GTATCGATACATTTAGAGAT
1 GTATTGATACATTTAGAGAT
* *
179752 GTATTGATACATTTTGATAT
1 GTATTGATACATTTAGAGAT
*
179772 ATATTGATACA
1 GTATTGATACA
179783 AATAAGGGTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.35, C:0.08, G:0.16, T:0.41
Consensus pattern (20 bp):
GTATTGATACATTTAGAGAT
Found at i:180981 original size:54 final size:54
Alignment explanation
Indices: 180896--181004 Score: 182
Period size: 54 Copynumber: 2.0 Consensus size: 54
180886 CATTATTAAG
*
180896 TGTATTGATACATTCTAGAAATATATTGATACATTATTCAAAGTATCAATACAT
1 TGTATTGATACATTCTAGAAATATATCGATACATTATTCAAAGTATCAATACAT
* * *
180950 TGTATTGATATATTTTGGAAATATATCGATACATTATTCAAAGTATCAATACAT
1 TGTATTGATACATTCTAGAAATATATCGATACATTATTCAAAGTATCAATACAT
181004 T
1 T
181005 CTGGACAAAC
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 51 1.00
ACGTcount: A:0.39, C:0.10, G:0.10, T:0.40
Consensus pattern (54 bp):
TGTATTGATACATTCTAGAAATATATCGATACATTATTCAAAGTATCAATACAT
Found at i:181213 original size:39 final size:37
Alignment explanation
Indices: 181136--181226 Score: 119
Period size: 39 Copynumber: 2.4 Consensus size: 37
181126 TTTGAAATCG
* *
181136 TATAAATCTAAATATATACAAAAATCAATCAAATTCA
1 TATAAAACCAAATATATACAAAAATCAATCAAATTCA
* *
181173 TATAAAACCAAATATTTATCAAAAGATCGATCAAATTCA
1 TATAAAACCAAATATATA-CAAAA-ATCAATCAAATTCA
*
181212 TATAAAATCAAATAT
1 TATAAAACCAAATAT
181227 GCATTAAAAG
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
37 15 0.32
38 5 0.11
39 27 0.57
ACGTcount: A:0.55, C:0.13, G:0.02, T:0.30
Consensus pattern (37 bp):
TATAAAACCAAATATATACAAAAATCAATCAAATTCA
Found at i:181236 original size:39 final size:39
Alignment explanation
Indices: 181154--181237 Score: 116
Period size: 39 Copynumber: 2.2 Consensus size: 39
181144 TAAATATATA
**
181154 CAAAA-ATCAATCAAATTCATATAAAACCAAATATTTAT
1 CAAAAGATCAATCAAATTCATATAAAACCAAATATGCAT
* *
181192 CAAAAGATCGATCAAATTCATATAAAATCAAATATGCAT
1 CAAAAGATCAATCAAATTCATATAAAACCAAATATGCAT
*
181231 TAAAAGA
1 CAAAAGA
181238 CCATTATAAG
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
38 5 0.12
39 35 0.88
ACGTcount: A:0.55, C:0.14, G:0.05, T:0.26
Consensus pattern (39 bp):
CAAAAGATCAATCAAATTCATATAAAACCAAATATGCAT
Found at i:186392 original size:13 final size:13
Alignment explanation
Indices: 186374--186437 Score: 68
Period size: 13 Copynumber: 5.4 Consensus size: 13
186364 AAAATTCATC
*
186374 ATGTATCGATATA
1 ATGTATCGATACA
186387 ATGTATCGATACA
1 ATGTATCGATACA
186400 ATGTA-C----C-
1 ATGTATCGATACA
*
186407 ATGTATCGATATA
1 ATGTATCGATACA
186420 ATGTATCGATACA
1 ATGTATCGATACA
186433 ATGTA
1 ATGTA
186438 CCATGTATCG
Statistics
Matches: 42, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
7 5 0.12
8 2 0.05
12 1 0.02
13 34 0.81
ACGTcount: A:0.38, C:0.12, G:0.16, T:0.34
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:186395 original size:33 final size:33
Alignment explanation
Indices: 186353--186450 Score: 162
Period size: 33 Copynumber: 3.0 Consensus size: 33
186343 CGTTAGAAGC
* *
186353 AATGTATCGATAAAAT-TCATCATGTATCGATAT
1 AATGTATCGATACAATGT-ACCATGTATCGATAT
186386 AATGTATCGATACAATGTACCATGTATCGATAT
1 AATGTATCGATACAATGTACCATGTATCGATAT
186419 AATGTATCGATACAATGTACCATGTATCGATA
1 AATGTATCGATACAATGTACCATGTATCGATA
186451 CAAATAGTGG
Statistics
Matches: 62, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
33 61 0.98
34 1 0.02
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.34
Consensus pattern (33 bp):
AATGTATCGATACAATGTACCATGTATCGATAT
Found at i:186412 original size:20 final size:20
Alignment explanation
Indices: 186387--186453 Score: 85
Period size: 20 Copynumber: 3.7 Consensus size: 20
186377 TATCGATATA
186387 ATGTATCGATACAATGTACC
1 ATGTATCGATACAATGTACC
186407 ATGTATCGAT---A--TA--
1 ATGTATCGATACAATGTACC
186420 ATGTATCGATACAATGTACC
1 ATGTATCGATACAATGTACC
186440 ATGTATCGATACAA
1 ATGTATCGATACAA
186454 ATAGTGGTAG
Statistics
Matches: 40, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
13 10 0.25
15 2 0.05
16 1 0.03
17 1 0.03
18 2 0.05
20 24 0.60
ACGTcount: A:0.37, C:0.16, G:0.15, T:0.31
Consensus pattern (20 bp):
ATGTATCGATACAATGTACC
Found at i:197000 original size:16 final size:16
Alignment explanation
Indices: 196981--197037 Score: 53
Period size: 16 Copynumber: 3.6 Consensus size: 16
196971 CTGTCGCTGT
*
196981 TGGAAGCTGCTATTGG
1 TGGAAGCTGCTGTTGG
* * *
196997 TGGATGCTG-TCGCTGT
1 TGGAAGCTGCT-GTTGG
197013 TGGAAGCTGCTGTTGG
1 TGGAAGCTGCTGTTGG
*
197029 TGGATGCTG
1 TGGAAGCTG
197038 TCGTTGCTAG
Statistics
Matches: 31, Mismatches: 8, Indels: 4
0.72 0.19 0.09
Matches are distributed among these distances:
15 1 0.03
16 29 0.94
17 1 0.03
ACGTcount: A:0.12, C:0.14, G:0.40, T:0.33
Consensus pattern (16 bp):
TGGAAGCTGCTGTTGG
Found at i:197004 original size:32 final size:32
Alignment explanation
Indices: 196968--197040 Score: 137
Period size: 32 Copynumber: 2.3 Consensus size: 32
196958 TCATTATTCA
196968 ATGCTGTCGCTGTTGGAAGCTGCTATTGGTGG
1 ATGCTGTCGCTGTTGGAAGCTGCTATTGGTGG
*
197000 ATGCTGTCGCTGTTGGAAGCTGCTGTTGGTGG
1 ATGCTGTCGCTGTTGGAAGCTGCTATTGGTGG
197032 ATGCTGTCG
1 ATGCTGTCG
197041 TTGCTAGAGT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.11, C:0.16, G:0.38, T:0.34
Consensus pattern (32 bp):
ATGCTGTCGCTGTTGGAAGCTGCTATTGGTGG
Found at i:197023 original size:19 final size:19
Alignment explanation
Indices: 196969--197025 Score: 54
Period size: 19 Copynumber: 3.3 Consensus size: 19
196959 CATTATTCAA
196969 TGCTGTCGCTGTTGGAAGC
1 TGCTGTCGCTGTTGGAAGC
* *
196988 TGCTAT---TGGTGG-A--
1 TGCTGTCGCTGTTGGAAGC
197001 TGCTGTCGCTGTTGGAAGC
1 TGCTGTCGCTGTTGGAAGC
197020 TGCTGT
1 TGCTGT
197026 TGGTGGATGC
Statistics
Matches: 28, Mismatches: 4, Indels: 12
0.64 0.09 0.27
Matches are distributed among these distances:
13 5 0.18
15 1 0.04
16 10 0.36
17 1 0.04
19 11 0.39
ACGTcount: A:0.11, C:0.18, G:0.37, T:0.35
Consensus pattern (19 bp):
TGCTGTCGCTGTTGGAAGC
Found at i:197043 original size:16 final size:16
Alignment explanation
Indices: 196993--197043 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
196983 GAAGCTGCTA
196993 TTGGTGGATGCTGTCG
1 TTGGTGGATGCTGTCG
* * *
197009 CTGTTGGAAGCTG-CTG
1 TTGGTGGATGCTGTC-G
197025 TTGGTGGATGCTGTCG
1 TTGGTGGATGCTGTCG
197041 TTG
1 TTG
197044 CTAGAGTGCT
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
15 1 0.04
16 25 0.93
17 1 0.04
ACGTcount: A:0.08, C:0.14, G:0.41, T:0.37
Consensus pattern (16 bp):
TTGGTGGATGCTGTCG
Found at i:197191 original size:31 final size:31
Alignment explanation
Indices: 197156--197242 Score: 106
Period size: 31 Copynumber: 2.8 Consensus size: 31
197146 TGCTTGTTTA
* *
197156 TGGAAGCTGGAAAAGGCTTGA-GCTGCTGTCG
1 TGGAAGCTGGAAAAGGC-TCATGCTGCTGGCG
*
197187 TGGAAGCTGGAAGAGGCTCATGCTGCTGGCG
1 TGGAAGCTGGAAAAGGCTCATGCTGCTGGCG
*
197218 TGGAAGCTGGAAGAA-GCTCAAGCTG
1 TGGAAGCTGGAA-AAGGCTCATGCTG
197243 TTGGTTTTGG
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
30 2 0.04
31 46 0.94
32 1 0.02
ACGTcount: A:0.24, C:0.17, G:0.39, T:0.20
Consensus pattern (31 bp):
TGGAAGCTGGAAAAGGCTCATGCTGCTGGCG
Found at i:197944 original size:10 final size:10
Alignment explanation
Indices: 197899--197944 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
197889 GCATTTCATG
197899 ATTTTT-TTA
1 ATTTTTATTA
*
197908 ATTTCTATTA
1 ATTTTTATTA
197918 ATTTTTATTA
1 ATTTTTATTA
197928 TTATTTTT-TTA
1 --ATTTTTATTA
197939 ATTTTT
1 ATTTTT
197945 GATTTCTACT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
9 11 0.34
10 12 0.38
11 3 0.09
12 6 0.19
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (10 bp):
ATTTTTATTA
Found at i:198336 original size:20 final size:20
Alignment explanation
Indices: 198299--198350 Score: 50
Period size: 20 Copynumber: 2.5 Consensus size: 20
198289 ATAGATTCTA
* *
198299 GTATCGATACATTCACTTAT
1 GTATCGATACACTAACTTAT
* *
198319 GTATCGATATACTAACTTGTT
1 GTATCGATACACTAACTT-AT
*
198340 GTATTGATACA
1 GTATCGATACA
198351 AATTATAGAA
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
20 15 0.60
21 10 0.40
ACGTcount: A:0.31, C:0.15, G:0.13, T:0.40
Consensus pattern (20 bp):
GTATCGATACACTAACTTAT
Found at i:199158 original size:53 final size:51
Alignment explanation
Indices: 199064--199176 Score: 129
Period size: 53 Copynumber: 2.2 Consensus size: 51
199054 ATAGGAGTTG
* ** *
199064 GAGTATCCCCGAGATGAAAAATTCAATGTTTTGGAAGTAAAAACAAGGTTA
1 GAGTATCCCCGAGATAAAAAATTCAACATTTTAGAAGTAAAAACAAGGTTA
* * *
199115 GAGTATCCCCAGAGATAAAAAAATTCAACATTTTAGACA-TAAAAATAGGGTTG
1 GAGTATCCCC-GAGAT-AAAAAATTCAACATTTTAGA-AGTAAAAACAAGGTTA
199168 GAGTATCCC
1 GAGTATCCC
199177 TTCAAAGATG
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
51 10 0.19
52 5 0.10
53 36 0.69
54 1 0.02
ACGTcount: A:0.42, C:0.14, G:0.19, T:0.25
Consensus pattern (51 bp):
GAGTATCCCCGAGATAAAAAATTCAACATTTTAGAAGTAAAAACAAGGTTA
Found at i:202737 original size:19 final size:19
Alignment explanation
Indices: 202713--202775 Score: 75
Period size: 19 Copynumber: 3.6 Consensus size: 19
202703 TAGCCAAACT
202713 TGTATCGATACACAAAGTA
1 TGTATCGATACACAAAGTA
202732 TGTATCGAT--AC--A--A
1 TGTATCGATACACAAAGTA
*
202745 TGTATCAATACACAAAGTA
1 TGTATCGATACACAAAGTA
202764 TGTATCGATACA
1 TGTATCGATACA
202776 ATGTATCGAT
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
13 9 0.25
15 3 0.08
17 3 0.08
19 21 0.58
ACGTcount: A:0.41, C:0.16, G:0.14, T:0.29
Consensus pattern (19 bp):
TGTATCGATACACAAAGTA
Found at i:202749 original size:13 final size:13
Alignment explanation
Indices: 202731--202788 Score: 53
Period size: 13 Copynumber: 4.0 Consensus size: 13
202721 TACACAAAGT
202731 ATGTATCGATACA
1 ATGTATCGATACA
*
202744 ATGTATCAATACACAAA
1 ATGTATCGAT--AC--A
202761 GTATGTATCGATACA
1 --ATGTATCGATACA
202776 ATGTATCGATACA
1 ATGTATCGATACA
202789 CAAAAAATTG
Statistics
Matches: 37, Mismatches: 2, Indels: 12
0.73 0.04 0.24
Matches are distributed among these distances:
13 22 0.59
15 3 0.08
17 3 0.08
19 9 0.24
ACGTcount: A:0.41, C:0.16, G:0.14, T:0.29
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:202756 original size:32 final size:32
Alignment explanation
Indices: 202713--202808 Score: 156
Period size: 32 Copynumber: 3.0 Consensus size: 32
202703 TAGCCAAACT
202713 TGTATCGATACACAAAGTATGTATCGATACAA
1 TGTATCGATACACAAAGTATGTATCGATACAA
*
202745 TGTATCAATACACAAAGTATGTATCGATACAA
1 TGTATCGATACACAAAGTATGTATCGATACAA
**
202777 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAGTA-TGTATCGATACA
202809 TTGGCTTGTA
Statistics
Matches: 59, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
32 47 0.80
33 12 0.20
ACGTcount: A:0.43, C:0.16, G:0.14, T:0.28
Consensus pattern (32 bp):
TGTATCGATACACAAAGTATGTATCGATACAA
Found at i:211767 original size:19 final size:18
Alignment explanation
Indices: 211742--211799 Score: 80
Period size: 19 Copynumber: 3.1 Consensus size: 18
211732 TTGTATCGAT
*
211742 ACATTGTATCAATACATG
1 ACATTGTATCGATACATG
211760 ATCATTGTATCGATACATGG
1 A-CATTGTATCGATACAT-G
211780 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
211799 A
1 A
211800 GACTGGCAGT
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
18 1 0.03
19 18 0.50
20 17 0.47
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.33
Consensus pattern (18 bp):
ACATTGTATCGATACATG
Found at i:211771 original size:32 final size:33
Alignment explanation
Indices: 211713--211777 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 33
211703 CACACCCAGA
* *
211713 TGTATCAACACATTATGCTTTGTATCGATACAT
1 TGTATCAACACATGATGCATTGTATCGATACAT
*
211746 TGTATCAATACATGAT-CATTGTATCGATACAT
1 TGTATCAACACATGATGCATTGTATCGATACAT
211778 GGACAATTGT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 15 0.52
33 14 0.48
ACGTcount: A:0.32, C:0.17, G:0.12, T:0.38
Consensus pattern (33 bp):
TGTATCAACACATGATGCATTGTATCGATACAT
Found at i:211788 original size:20 final size:20
Alignment explanation
Indices: 211743--211798 Score: 80
Period size: 20 Copynumber: 2.9 Consensus size: 20
211733 TGTATCGATA
*
211743 CATTGTATCAATACAT-GAT
1 CATTGTATCGATACATGGAT
211762 CATTGTATCGATACATGGA-
1 CATTGTATCGATACATGGAT
211781 CAATTGTATCGATACATG
1 C-ATTGTATCGATACATG
211799 AGACTGGCAG
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
19 16 0.47
20 18 0.53
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (20 bp):
CATTGTATCGATACATGGAT
Found at i:211861 original size:13 final size:13
Alignment explanation
Indices: 211843--211895 Score: 55
Period size: 13 Copynumber: 4.5 Consensus size: 13
211833 CAATACATGG
211843 TACATTGTATCGA
1 TACATTGTATCGA
*
211856 TACATTGTATTGA
1 TACATTGTATCGA
211869 TACA-TG-AT-G-
1 TACATTGTATCGA
211878 -A-ATTGTATCGA
1 TACATTGTATCGA
211889 TACATTG
1 TACATTG
211896 CTTCTAACGG
Statistics
Matches: 33, Mismatches: 1, Indels: 12
0.72 0.02 0.26
Matches are distributed among these distances:
7 1 0.03
8 3 0.09
9 2 0.06
10 2 0.06
11 2 0.06
12 3 0.09
13 20 0.61
ACGTcount: A:0.32, C:0.11, G:0.17, T:0.40
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:213079 original size:21 final size:19
Alignment explanation
Indices: 213033--213085 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 19
213023 CATTGTAAGC
*
213033 ATGTATCATACATTCACTT
1 ATGTATCATACATTAACTT
213052 ATGTATCAATACATTAACTT
1 ATGTATC-ATACATTAACTT
213072 ATTGTATCGATACA
1 A-TGTATC-ATACA
213086 AATTGTAGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 7 0.23
20 12 0.40
21 11 0.37
ACGTcount: A:0.36, C:0.17, G:0.08, T:0.40
Consensus pattern (19 bp):
ATGTATCATACATTAACTT
Found at i:221264 original size:11 final size:11
Alignment explanation
Indices: 221248--221285 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
221238 GAATTTCATG
221248 AAAAATTTTGA
1 AAAAATTTTGA
221259 AAAAATGTTTG-
1 AAAAAT-TTTGA
221270 AAAAA-TTTGA
1 AAAAATTTTGA
221280 AAAAAT
1 AAAAAT
221286 CATATAGTGG
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
9 4 0.17
10 5 0.21
11 11 0.46
12 4 0.17
ACGTcount: A:0.58, C:0.00, G:0.11, T:0.32
Consensus pattern (11 bp):
AAAAATTTTGA
Found at i:223433 original size:51 final size:52
Alignment explanation
Indices: 223310--223449 Score: 201
Period size: 51 Copynumber: 2.7 Consensus size: 52
223300 ATTTAACTAG
* * * *
223310 ATGTATCGATACATTGAAGAATGTATCAATACATTTGGGTCAAAAACCAAGA
1 ATGTATCGATACAATGAAAAATGTATCGATACATTTTGGTCAAAAACCAAGA
* *
223362 ATGTATCGATGCAATGAAAAATGTATCGATACATTTTGGTC-AAAACCCAGA
1 ATGTATCGATACAATGAAAAATGTATCGATACATTTTGGTCAAAAACCAAGA
* *
223413 TTGTATCGATACAATAAAAAATGTATCGATACATTTT
1 ATGTATCGATACAATGAAAAATGTATCGATACATTTT
223450 CATTCTAGAA
Statistics
Matches: 79, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
51 43 0.54
52 36 0.46
ACGTcount: A:0.41, C:0.14, G:0.16, T:0.30
Consensus pattern (52 bp):
ATGTATCGATACAATGAAAAATGTATCGATACATTTTGGTCAAAAACCAAGA
Found at i:225683 original size:13 final size:13
Alignment explanation
Indices: 225662--225714 Score: 55
Period size: 13 Copynumber: 4.5 Consensus size: 13
225652 CGATATATGC
*
225662 TACAATGTATCGA
1 TACATTGTATCGA
225675 TACATTGTATCGA
1 TACATTGTATCGA
225688 TACA-TG-AT-G-
1 TACATTGTATCGA
225697 -A-ATTGTATCGA
1 TACATTGTATCGA
225708 TACATTG
1 TACATTG
225715 CTTGTAACGA
Statistics
Matches: 33, Mismatches: 1, Indels: 12
0.72 0.02 0.26
Matches are distributed among these distances:
7 1 0.03
8 3 0.09
9 2 0.06
10 2 0.06
11 2 0.06
12 3 0.09
13 20 0.61
ACGTcount: A:0.34, C:0.13, G:0.17, T:0.36
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:225683 original size:33 final size:33
Alignment explanation
Indices: 225646--225714 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 33
225636 CTACCACTAT
* *
225646 TTGTATCGATATATGCT-ACAATGTATCGATACA
1 TTGTATCGATACATGATGA-AATGTATCGATACA
*
225679 TTGTATCGATACATGATGAATTGTATCGATACA
1 TTGTATCGATACATGATGAAATGTATCGATACA
225712 TTG
1 TTG
225715 CTTGTAACGA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
33 31 0.97
34 1 0.03
ACGTcount: A:0.32, C:0.13, G:0.17, T:0.38
Consensus pattern (33 bp):
TTGTATCGATACATGATGAAATGTATCGATACA
Found at i:226837 original size:19 final size:19
Alignment explanation
Indices: 226813--226895 Score: 106
Period size: 19 Copynumber: 4.7 Consensus size: 19
226803 TTTCAACGAT
226813 TTGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
226832 TTGTATCGATAC--AA---
1 TTGTATCGATACATAAGTG
226846 -TGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
* *
226864 TTGTATTGATACATAAGTT
1 TTGTATCGATACATAAGTG
226883 TTGTATCGATACA
1 TTGTATCGATACA
226896 ATGTATCGCT
Statistics
Matches: 55, Mismatches: 3, Indels: 12
0.79 0.04 0.17
Matches are distributed among these distances:
13 11 0.20
15 2 0.04
17 2 0.04
19 40 0.73
ACGTcount: A:0.33, C:0.11, G:0.18, T:0.39
Consensus pattern (19 bp):
TTGTATCGATACATAAGTG
Found at i:226850 original size:32 final size:32
Alignment explanation
Indices: 226814--226876 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
226804 TTCAACGATT
226814 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
226846 TGTATCGATACATAAGTGTTGTATTGATACA
1 TGTATCGATACATAAGTGTTGTATCGATACA
226877 TAAGTTTTGT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:226851 original size:13 final size:13
Alignment explanation
Indices: 226833--226857 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
226823 ACATAAGTGT
226833 TGTATCGATACAA
1 TGTATCGATACAA
226846 TGTATCGATACA
1 TGTATCGATACA
226858 TAAGTGTTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:227024 original size:52 final size:52
Alignment explanation
Indices: 226981--227106 Score: 182
Period size: 52 Copynumber: 2.4 Consensus size: 52
226971 CACTGATCTT
* *
226981 TGAATCGATACATGCAGGCAAATTTTCCCAGATGTATCGATACACTATGAAA
1 TGAATCGATACATACAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
* *
227033 TGTATCGATACATACAGGCAAATTTGCCTAGATGTATCGATACACTATGAAA
1 TGAATCGATACATACAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
* *
227085 TGTATGGATACAT-CTAGGCAAA
1 TGAATCGATACATAC-AGGCAAA
227107 ATTTCATATT
Statistics
Matches: 68, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
51 1 0.01
52 67 0.99
ACGTcount: A:0.37, C:0.17, G:0.18, T:0.28
Consensus pattern (52 bp):
TGAATCGATACATACAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
Found at i:235556 original size:13 final size:13
Alignment explanation
Indices: 235538--235562 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
235528 CAACATTCCT
235538 TGTATCGATACAA
1 TGTATCGATACAA
235551 TGTATCGATACA
1 TGTATCGATACA
235563 TGGGTTACTA
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:237491 original size:21 final size:21
Alignment explanation
Indices: 237443--237516 Score: 69
Period size: 22 Copynumber: 3.4 Consensus size: 21
237433 TTTGACAAAT
* *
237443 GGGGAGAAATGCTTTGATT-AA
1 GGGGAGAAAT-TTTTAATTAAA
*
237464 GGAGGAGAAATTTTTTATTAAA
1 GG-GGAGAAATTTTTAATTAAA
**
237486 GGGGAGAAATTCTTTAATTATG
1 GGGGAGAAATT-TTTAATTAAA
237508 GGGGAGAAA
1 GGGGAGAAA
237517 AAAGAAAACT
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
21 17 0.38
22 28 0.62
ACGTcount: A:0.36, C:0.03, G:0.31, T:0.30
Consensus pattern (21 bp):
GGGGAGAAATTTTTAATTAAA
Found at i:238043 original size:19 final size:19
Alignment explanation
Indices: 238000--238072 Score: 67
Period size: 20 Copynumber: 3.7 Consensus size: 19
237990 AACCCTTGAA
*
238000 TGTATCGATACAT-TATGCTT
1 TGTATCGATACATGT-T-CAT
238020 TGTATCGATACATGTTCAT
1 TGTATCGATACATGTTCAT
* **
238039 TGTATCGGTACATGGACAAT
1 TGTATCGATACATGTTC-AT
*
238059 TCTATCGATACATG
1 TGTATCGATACATG
238073 AGATTGGCAG
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
19 16 0.36
20 28 0.62
21 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.38
Consensus pattern (19 bp):
TGTATCGATACATGTTCAT
Found at i:238144 original size:33 final size:33
Alignment explanation
Indices: 238101--238169 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 33
238091 CTACCATTGT
* *
238101 TTGTATCGATACATGCT-ACAATGTATCGATACA
1 TTGTACCGATACATGATGA-AATGTATCGATACA
*
238134 TTGTACCGATACATGATGAATTGTATCGATACA
1 TTGTACCGATACATGATGAAATGTATCGATACA
238167 TTG
1 TTG
238170 CTTGTAACGG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
33 31 0.97
34 1 0.03
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.35
Consensus pattern (33 bp):
TTGTACCGATACATGATGAAATGTATCGATACA
Found at i:240244 original size:167 final size:165
Alignment explanation
Indices: 240003--240501 Score: 572
Period size: 161 Copynumber: 3.0 Consensus size: 165
239993 AATTACCATC
* * * * * *
240003 AAATCTGTTTTAAAAAATTTATTTATTTTCATGAGTTTTGAATTTTTTCCTTAAAATTT-TCTTA
1 AAATATGTTTTAAAAAATTCATTCATTTTCATGATTTTTCATTTTTTTCCTTAAAATTTCTC-TA
* *
240067 TTTTCGAAATACGAAATTTTTTGCTCCGTAAATGTTTTCGGAGGGATTTTTCTTGGTTTGTAACT
65 TTTTCGAAATACGAAATTTTCTGCTCCGTAAATGTTTTCGGAGGGATTTTTCTTGGTTTTTAA-T
*
240132 TTTAAAATTCATCAAATATTATTATTTATTTCATATT
129 TTTAAAATTCATCAAATATTATTATTTAATTCATATT
* * *
240169 AAATTTGTTTTCAAAAATTCATTCATTTTCATTCATTTTTCATTTTTTTCCTTAAAATTTCTCTA
1 AAATATGTTTTAAAAAATTCATTCATTTTCA-TGATTTTTCATTTTTTTCCTTAAAATTTCTCTA
* * * * * *
240234 TTTTCGAAATAC-AAAGTTTTCTACTTCGAAAATATTTTCGAAGGG------CTTAGTTTTTAAT
65 TTTTCGAAATACGAAA-TTTTCTGCTCCGTAAATGTTTTCGGAGGGATTTTTCTTGGTTTTTAA-
*
240292 TTTTAAAATTTATCAAATATTATTATTTAATTCATATT
128 TTTTAAAATTCATCAAATATTATTATTTAATTCATATT
* * *
240330 AAATCAT-TTTTAAAAAATTCATTGATTTTAATGATTTTTTCATTTTTTTCCTTAAAA-TTCTGT
1 AAAT-ATGTTTTAAAAAATTCATTCATTTTCATGA-TTTTTCATTTTTTTCCTTAAAATTTCTCT
* * * * *
240393 -TGTTTCCAAAATACGGAGTTTTCTGCTCCCTAAATGTTTTAGGAGGGATTTTTCTTGGTTTTTA
64 AT-TTT-CGAAATACGAAATTTTCTGCTCCGTAAATGTTTTCGGAGGGATTTTTCTTGGTTTTTA
240457 ATTTTGAAAATTCATCATAA-ATTATTATTTAATTCATATT
127 ATTTT-AAAATTCATCA-AATATTATTATTTAATTCATATT
240497 AAATA
1 AAATA
240502 AAATTTGAAA
Statistics
Matches: 280, Mismatches: 37, Indels: 32
0.80 0.11 0.09
Matches are distributed among these distances:
159 1 0.00
160 10 0.04
161 122 0.44
162 2 0.01
166 35 0.12
167 106 0.38
168 4 0.01
ACGTcount: A:0.30, C:0.11, G:0.09, T:0.50
Consensus pattern (165 bp):
AAATATGTTTTAAAAAATTCATTCATTTTCATGATTTTTCATTTTTTTCCTTAAAATTTCTCTAT
TTTCGAAATACGAAATTTTCTGCTCCGTAAATGTTTTCGGAGGGATTTTTCTTGGTTTTTAATTT
TAAAATTCATCAAATATTATTATTTAATTCATATT
Found at i:240544 original size:167 final size:164
Alignment explanation
Indices: 240010--240544 Score: 539
Period size: 167 Copynumber: 3.2 Consensus size: 164
240000 ATCAAATCTG
* *
240010 TTTTAAAAAATTTATTTATTTTCATGAGTTTTGAA-TTTTTTCCTTAAAATTTTCTTATTTTCGA
1 TTTTAAAAAATTCATTTATTTTCATGAGTTTTGAATTTTTTTCCTTAAAATTCTC-T-TTTTCGA
* * *
240074 AATACGAAATTTTTTGCTCCGTAAATGTTTTCGGAGGGATTTTTCTTGGTTTGTAACTTTTAAAA
64 AATACGAAGTTTTCTGCTCCGTAAATGTTTTCGGAGGGATTTTTCTTGGTTTTTAA-TTTTAAAA
* ***
240139 TTCATCAAATATTATTATTTATTTCATATTAAATTTG
128 TTCATCAAATATTATTATTTAATTCATATTAAATAAA
* * * **
240176 TTTTCAAAAATTCATTCATTTTCATTCA-TTTTTCATTTTTTTCCTTAAAATTTCTCTATTTTCG
1 TTTTAAAAAATTCATTTATTTTCA-TGAGTTTTGAATTTTTTTCCTTAAAA-TTCTCT-TTTTCG
* * * * * * *
240240 AAATACAAAGTTTTCTACTTCGAAAATATTTTCGAAGGG------CTTAGTTTTTAATTTTTAAA
63 AAATACGAAGTTTTCTGCTCCGTAAATGTTTTCGGAGGGATTTTTCTTGGTTTTTAA-TTTTAAA
* * *
240299 ATTTATCAAATATTATTATTTAATTCATATTAAATCAT
127 ATTCATCAAATATTATTATTTAATTCATATTAAATAAA
* * * ** * *
240337 TTTTAAAAAATTCATTGATTTTAATGATTTTTTCATTTTTTTCCTTAAAATTCTGTTGTTTCCAA
1 TTTTAAAAAATTCATTTATTTTCATGAGTTTTGAATTTTTTTCCTTAAAATTCTCTT-TTT-CGA
* * *
240402 AATACGGAGTTTTCTGCTCCCTAAATGTTTTAGGAGGGATTTTTCTTGGTTTTTAATTTTGAAAA
64 AATACGAAGTTTTCTGCTCCGTAAATGTTTTCGGAGGGATTTTTCTTGGTTTTTAATTTT-AAAA
240467 TTCATCATAA-ATTATTATTTAATTCATATTAAATAAA
128 TTCATCA-AATATTATTATTTAATTCATATTAAATAAA
* * ** * * *
240504 ATTTGAAATTTTAATTTATTTTTAGGAGTTTTGAATTTTTT
1 TTTTAAAAAATTCATTTATTTTCATGAGTTTTGAATTTTTT
240545 CTTATATATT
Statistics
Matches: 302, Mismatches: 53, Indels: 27
0.79 0.14 0.07
Matches are distributed among these distances:
159 1 0.00
160 10 0.03
161 124 0.41
166 30 0.10
167 131 0.43
168 6 0.02
ACGTcount: A:0.30, C:0.10, G:0.09, T:0.51
Consensus pattern (164 bp):
TTTTAAAAAATTCATTTATTTTCATGAGTTTTGAATTTTTTTCCTTAAAATTCTCTTTTTCGAAA
TACGAAGTTTTCTGCTCCGTAAATGTTTTCGGAGGGATTTTTCTTGGTTTTTAATTTTAAAATTC
ATCAAATATTATTATTTAATTCATATTAAATAAA
Found at i:240889 original size:10 final size:10
Alignment explanation
Indices: 240874--240908 Score: 61
Period size: 10 Copynumber: 3.5 Consensus size: 10
240864 TAGAGAGAAT
240874 AAAAAGAAAG
1 AAAAAGAAAG
240884 AAAAAGAAAG
1 AAAAAGAAAG
*
240894 AAAAAGAGAG
1 AAAAAGAAAG
240904 AAAAA
1 AAAAA
240909 ATAAGGAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (10 bp):
AAAAAGAAAG
Found at i:250270 original size:130 final size:130
Alignment explanation
Indices: 250069--250367 Score: 331
Period size: 130 Copynumber: 2.3 Consensus size: 130
250059 TAACGGGGTA
* * ** * * **
250069 GGAGTATCTCC-TCAAAAATAACGGGGTTAAAGTATCCCCGATTGTGAAAAATTGATGATTTAGA
1 GGAGTATC-CCGTCGAAAATAATGGGGTTGGAGTATCCCCAATTATGAAAAATCAATGATTTAGA
* * *
250133 AATAAGGCAAGGGTTGAAGTGTCCCTGATTAT-AGAAAAT-AGATGTTTCAAAAATAAA-ATCGG
65 AATAAGGCAAGGGTTGAAGTATCCCTGATTATGAG-AAATCA-ATATTTCAAAAATAAAGCT-GG
250195 GATT
127 GATT
*
250199 GGAGTATCCCCGT-GAAAATAATGGGGTTGGAGTATCCCCAATTATGAGAAATCAAT-ATTTTAG
1 GGAGTAT-CCCGTCGAAAATAATGGGGTTGGAGTATCCCCAATTATGAAAAATCAATGA-TTTAG
** * *** *
250262 AAATAAGGCTGGGGTTGAAGTATCCCTGATTGTGAGAAATCAATATTTTGGAAATAAAGCTGGGG
64 AAATAAGGCAAGGGTTGAAGTATCCCTGATTATGAGAAATCAATATTTCAAAAATAAAGCTGGGA
250327 TT
129 TT
250329 GGAGTATCCCGTCGAAAATAATGGGGTTGGAGTATCCCC
1 GGAGTATCCCGTCGAAAATAATGGGGTTGGAGTATCCCC
250368 GATGAAATAA
Statistics
Matches: 143, Mismatches: 19, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
129 6 0.04
130 131 0.92
131 6 0.04
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.28
Consensus pattern (130 bp):
GGAGTATCCCGTCGAAAATAATGGGGTTGGAGTATCCCCAATTATGAAAAATCAATGATTTAGAA
ATAAGGCAAGGGTTGAAGTATCCCTGATTATGAGAAATCAATATTTCAAAAATAAAGCTGGGATT
Found at i:250287 original size:51 final size:51
Alignment explanation
Indices: 250220--250338 Score: 184
Period size: 51 Copynumber: 2.3 Consensus size: 51
250210 GTGAAAATAA
*
250220 TGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTAGAAATAAGGC
1 TGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTAGAAATAAAGC
* ** * *
250271 TGGGGTTGAAGTATCCCTGATTGTGAGAAATCAATATTTTGGAAATAAAGC
1 TGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTAGAAATAAAGC
250322 TGGGGTTGGAGTATCCC
1 TGGGGTTGGAGTATCCC
250339 GTCGAAAATA
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
51 61 1.00
ACGTcount: A:0.31, C:0.12, G:0.27, T:0.30
Consensus pattern (51 bp):
TGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTAGAAATAAAGC
Found at i:250398 original size:28 final size:30
Alignment explanation
Indices: 250323--250398 Score: 115
Period size: 28 Copynumber: 2.7 Consensus size: 30
250313 AAATAAAGCT
*
250323 GGGGTTGGAGTAT-CCCG-TCGAAAATAAT
1 GGGGTTGGAGTATCCCCGATCGAAAATAAC
250351 GGGGTTGGAGTATCCCCGAT-G-AAATAAC
1 GGGGTTGGAGTATCCCCGATCGAAAATAAC
250379 GGGGTTGGAGTATCCCCGAT
1 GGGGTTGGAGTATCCCCGAT
250399 TGTGAAAAAA
Statistics
Matches: 45, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
28 39 0.87
29 5 0.11
30 1 0.02
ACGTcount: A:0.25, C:0.17, G:0.34, T:0.24
Consensus pattern (30 bp):
GGGGTTGGAGTATCCCCGATCGAAAATAAC
Found at i:250438 original size:18 final size:18
Alignment explanation
Indices: 250417--250457 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
250407 AATTAGTGTT
250417 TTGGAAATAAAATCGGAG
1 TTGGAAATAAAATCGGAG
* *
250435 TTGGAAATAAAATTGGGG
1 TTGGAAATAAAATCGGAG
250453 TTGGA
1 TTGGA
250458 GTATCCCCTC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.39, C:0.02, G:0.32, T:0.27
Consensus pattern (18 bp):
TTGGAAATAAAATCGGAG
Found at i:250569 original size:79 final size:79
Alignment explanation
Indices: 250438--250702 Score: 314
Period size: 79 Copynumber: 3.4 Consensus size: 79
250428 ATCGGAGTTG
* * * * *
250438 GAAATAAAATTGGGGTTGGAGTATCCCCTCGGAAATAATGGGGATGGAGTATCCCCAATTATGAA
1 GAAATAAAATCGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAA
* *
250503 AAATTGATGTTTTA
66 AAATTAATATTTTA
* * * *
250517 GAAATAAAATCGGGGTTGGAGTATCCCCTCGAAAATGACAGGGTTGGAGTATCCCTGATTATGAG
1 GAAATAAAATCGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAA
250582 AAATTAATATTTTA
66 AAATTAATATTTTA
** ** * *
250596 GAAATAAAGCCGGGGTTGGAGTATCCCCTAAAAAATAACGGGGTTAGAGTATCCCCGATTAAGAA
1 GAAATAAAATCGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAA
* **
250661 AAATTAACATTTGG
66 AAATTAATATTTTA
** * *
250675 GAAATGGAACCGGGATTGGAGTATCCCC
1 GAAATAAAATCGGGGTTGGAGTATCCCC
250703 GAGATGAAAA
Statistics
Matches: 158, Mismatches: 28, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
79 158 1.00
ACGTcount: A:0.35, C:0.14, G:0.25, T:0.26
Consensus pattern (79 bp):
GAAATAAAATCGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAA
AAATTAATATTTTA
Found at i:253042 original size:13 final size:13
Alignment explanation
Indices: 253024--253049 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
253014 ATACAATAAG
253024 CAATGTATCGATA
1 CAATGTATCGATA
253037 CAATGTATCGATA
1 CAATGTATCGATA
253050 TTGTTAGGAT
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:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:253462 original size:13 final size:13
Alignment explanation
Indices: 253444--253469 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
253434 TACACAAAGT
253444 ATGTATCGATACA
1 ATGTATCGATACA
253457 ATGTATCGATACA
1 ATGTATCGATACA
253470 CAAAAAATTG
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:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:253467 original size:32 final size:33
Alignment explanation
Indices: 253426--253489 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
253416 TAGCCAAACT
**
253426 TGTATCGATACACAAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
253458 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
253490 TTGGCTTATA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:255114 original size:21 final size:21
Alignment explanation
Indices: 255088--255129 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
255078 AATCAATCGT
* *
255088 TCAAGATGATGATGAAGATGA
1 TCAAGAGGATGATGAAAATGA
*
255109 TCAAGAGGTTGATGAAAATGA
1 TCAAGAGGATGATGAAAATGA
255130 AGAAATGGAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.43, C:0.05, G:0.29, T:0.24
Consensus pattern (21 bp):
TCAAGAGGATGATGAAAATGA
Found at i:255656 original size:84 final size:84
Alignment explanation
Indices: 255518--255682 Score: 201
Period size: 84 Copynumber: 2.0 Consensus size: 84
255508 ACTCAAAGAA
* * *
255518 GAAAATAAATCAATAAGTGTAGAGAATGATATTCTTGAAAAAAAATTAAGTGAATTAGAGAAGAA
1 GAAAATAAATCAATAAGTGTAGAAAATGATATTCTTGAAAAAAAAATAAATGAATTAGAGAAGAA
*
255583 TATGAAA-GAGTTGCAAAAT
66 -AAGAAATGAGTTGCAAAAT
* * * * *
255602 GAAAGTAAATCAATGAGTTTAGAAAAT-A-ATTCTTTTAAAAAGAAAATAAATGAATTAGAGGAG
1 GAAAATAAATCAATAAGTGTAGAAAATGATATTC-TTGAAAAA-AAAATAAATGAATTAGAGAAG
255665 AAAAGAAATGAGTTGCAA
64 AAAAGAAATGAGTTGCAA
255683 GTGGAAAATG
Statistics
Matches: 69, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
82 4 0.06
83 13 0.19
84 52 0.75
ACGTcount: A:0.53, C:0.04, G:0.19, T:0.25
Consensus pattern (84 bp):
GAAAATAAATCAATAAGTGTAGAAAATGATATTCTTGAAAAAAAAATAAATGAATTAGAGAAGAA
AAGAAATGAGTTGCAAAAT
Found at i:257949 original size:43 final size:43
Alignment explanation
Indices: 257901--257986 Score: 163
Period size: 43 Copynumber: 2.0 Consensus size: 43
257891 TTGGTATAAA
257901 TTTGGTTTTATCAACTTAGCTTATGAACCAAAAAGGGGGAGAG
1 TTTGGTTTTATCAACTTAGCTTATGAACCAAAAAGGGGGAGAG
*
257944 TTTGGTTTTATCAACTTATCTTATGAACCAAAAAGGGGGAGAG
1 TTTGGTTTTATCAACTTAGCTTATGAACCAAAAAGGGGGAGAG
257987 ATTATTGTTT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.33, C:0.12, G:0.24, T:0.31
Consensus pattern (43 bp):
TTTGGTTTTATCAACTTAGCTTATGAACCAAAAAGGGGGAGAG
Found at i:260116 original size:34 final size:34
Alignment explanation
Indices: 260073--260141 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
260063 TCAGGAATAG
260073 GGCAAAGACAAAAGACGCCATTTTGTCCGTGAAA
1 GGCAAAGACAAAAGACGCCATTTTGTCCGTGAAA
260107 GGCAAAGACAAAAGACGCCATTTTGTCCGTGAAA
1 GGCAAAGACAAAAGACGCCATTTTGTCCGTGAAA
260141 G
1 G
260142 AAGAAAAATG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.38, C:0.20, G:0.25, T:0.17
Consensus pattern (34 bp):
GGCAAAGACAAAAGACGCCATTTTGTCCGTGAAA
Found at i:260545 original size:42 final size:42
Alignment explanation
Indices: 260498--260663 Score: 208
Period size: 42 Copynumber: 3.9 Consensus size: 42
260488 AAAGGAAAAA
*
260498 AGGAAAACAAAATGCGTCCTGCTCTTTGAGGACAAAAGAAAG
1 AGGAAAACAAAGTGCGTCCTGCTCTTTGAGGACAAAAGAAAG
*
260540 AGGAAAACAAAGTGCGTCCTGCTCTTTGAGGACAAAAGAGAAATTA
1 AGGAAAACAAAGTGCGTCCTGCTCTTTGAGGAC-AAA-AGAAA--G
* * * * *
260586 AGG-GAACGAAGTGTGTCCTGCTCTTTTAGGACAAAAGAGAG
1 AGGAAAACAAAGTGCGTCCTGCTCTTTGAGGACAAAAGAAAG
* *
260627 AGGAAAATAAAGTGCGTCCTGCTCTTTGACGACAAAA
1 AGGAAAACAAAGTGCGTCCTGCTCTTTGAGGACAAAA
260664 AAGTGCCACC
Statistics
Matches: 105, Mismatches: 14, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
41 3 0.03
42 59 0.56
43 7 0.07
44 8 0.08
45 25 0.24
46 3 0.03
ACGTcount: A:0.39, C:0.16, G:0.25, T:0.20
Consensus pattern (42 bp):
AGGAAAACAAAGTGCGTCCTGCTCTTTGAGGACAAAAGAAAG
Found at i:260874 original size:62 final size:62
Alignment explanation
Indices: 260635--260955 Score: 291
Period size: 61 Copynumber: 5.4 Consensus size: 62
260625 AGAGGAAAAT
* * * * * *
260635 AAAGTGCGTCCTGCTCTTTGACGAC-AAAAAAGTGCCACCAACTCGTGTGCGCTTTGAAAAAG
1 AAAG-GCGTCCTACTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGAG
* *
260697 AAAGGCGTCCTACTCTTTGAGGACT-GGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAGAG
1 AAAGGCGTCCTACTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTG-AAAGAG
* * * * * *
260759 AAA-GCATCCTGCTCTTTAAGGACTGGAAAA-TGCCACCAACTTGGGCGGGCTTTGAAAG-G
1 AAAGGCGTCCTACTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGAG
* *
260818 AAAAGGCGTCCTACTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTATGGACTTT------G
1 -AAAGGCGTCCTACTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGAG
* * * * * *
260875 AAAGGTGTCTTGCTCTTTGAGGA-TTGAAAGGTGCCACTAACTTGTGTGGGCTTT------G
1 AAAGGCGTCCTACTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGAG
260930 AAAGGCGTCCTACTCTTTGAGGACTA
1 AAAGGCGTCCTACTCTTTGAGGACTA
260956 AAGGGTGAAA
Statistics
Matches: 217, Mismatches: 35, Indels: 20
0.80 0.13 0.07
Matches are distributed among these distances:
55 47 0.22
56 21 0.10
57 1 0.00
59 1 0.00
60 7 0.03
61 106 0.49
62 34 0.16
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (62 bp):
AAAGGCGTCCTACTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGAG
Found at i:260929 original size:55 final size:56
Alignment explanation
Indices: 260819--260955 Score: 195
Period size: 55 Copynumber: 2.5 Consensus size: 56
260809 TTTGAAAGGA
260819 AAAGGCGTCCTACTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTATGGACTTTG
1 AAAGGCGTCCTACTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTATGGACTTTG
* * * * * * * *
260875 AAAGGTGTCTTGCTCTTTGAGGA-TTGAAAGGTGCCACTAACTTGTGTGGGCTTTG
1 AAAGGCGTCCTACTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTATGGACTTTG
260930 AAAGGCGTCCTACTCTTTGAGGACTA
1 AAAGGCGTCCTACTCTTTGAGGACTA
260956 AAGGGTGAAA
Statistics
Matches: 68, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
55 47 0.69
56 21 0.31
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (56 bp):
AAAGGCGTCCTACTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTATGGACTTTG
Found at i:261065 original size:61 final size:61
Alignment explanation
Indices: 260963--261151 Score: 238
Period size: 61 Copynumber: 3.1 Consensus size: 61
260953 CTAAAGGGTG
* * *
260963 AAAGGAG-AGAGCGTCTTACTCTTTGAGGACTAGGAAGTGCCACCGAA-TTGTGTGGGCTTTA
1 AAAGGAGAAG-GCGTCCTGCTCTTTGAGGACTAGGAAATGCCACC-AACTTGTGTGGGCTTTA
* * * *
261024 AAAGGAGAAGGCGTCCTGCTCTTAGAGGATTGGGAAATGCCACCAACTTGTGTGGGCTTTG
1 AAAGGAGAAGGCGTCCTGCTCTTTGAGGACTAGGAAATGCCACCAACTTGTGTGGGCTTTA
* * * *
261085 AAAGGAAAAGGTGCCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTA
1 AAAGGAGAAGGCGTCCTGCTCTTTGAGGACTAGGAAA-TGCCACCAACTTGTGTGGGCTTTA
261147 AAAGG
1 AAAGG
261152 CACCCTGCTC
Statistics
Matches: 110, Mismatches: 15, Indels: 5
0.85 0.12 0.04
Matches are distributed among these distances:
60 2 0.02
61 78 0.71
62 30 0.27
ACGTcount: A:0.28, C:0.17, G:0.31, T:0.24
Consensus pattern (61 bp):
AAAGGAGAAGGCGTCCTGCTCTTTGAGGACTAGGAAATGCCACCAACTTGTGTGGGCTTTA
Found at i:261172 original size:217 final size:214
Alignment explanation
Indices: 260756--261559 Score: 839
Period size: 217 Copynumber: 3.7 Consensus size: 214
260746 GCTTTGCAAA
* * * * * * * * *
260756 GAGAAAGCATCCTGCTCTTTAAGGACTGGAAAATGCCACCAACTTGGGCGGGCTTTGAAAGGAAA
1 GAGAGAGCGTCCTACTCTTTGAGGACTGG-AAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGA
* * * * *
260821 AGGCGTCCTACTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTATGGACTTTGAAAGG---TGT
65 AGGCGTCCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTTGAAAGGAAAGGT
* * * * * *
260883 -CTTGCTCTTTGAGGA-TTGAAAGGTGCCACTAACTTGTGTGGGCTTTGAAAGGCGTCCTACTCT
129 GCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCT
*
260946 TTGAGGACTAAAGGGTGAAAG
194 TTGAGGACTAAAGGGCGAAAG
*
260967 GAGAGAGCGTCTTACTCTTTGAGGACTAGGAAGTGCCACCGAA-TTGTGTGGGCTTTAAAAGGAG
1 GAGAGAGCGTCCTACTCTTTGAGGACT-GGAAGTGCCACC-AACTTGTGTGGGCTTTAAAAGGAG
* * *
261031 AAGGCGTCCTGCTCTTAGAGGATTGGGAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGG
64 AAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGG-AAAGG
**
261096 TGCCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCACCCTGCT
128 TG-CCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCT
*
261161 CTTTAAGGACTAAAGGGCGAAAG
192 CTTTGAGGACTAAAGGGCGAAAG
* *
261184 GAGAGAGCGTCCTGCACTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGA
1 GAGAGAGCGTCCTACTCTTTGAGGACT-GGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGA
* * * * *
261249 AAGCATCCTGCTCTTTGAGGACTGGAAAATGTCGCCAACTTGTGTGGGCTTTGAAAGG---CGT-
65 AGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAAAGGTG
* *
261310 CCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTTAAGAGGCGTCCTGCTCTT
130 CCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTT
*
261374 TGAGGACTGAAAGGTGCCACCAACTTGTG
195 TGAGGACT-AAAGG-GCGA--AA-----G
* * * * *
261403 TGGGCTTTAAGAGGCGTCCTGCTCTTTGAAGACTGAAAGGTGCTACCAACTTGTGTGGGCTTTAA
1 -GAG-----AGA-GCGTCCTACTCTTTGAGGACTGGAA-GTGCCACCAACTTGTGTGGGCTTTAA
* * * * *
261468 AAAGAAAAGGCGTCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGG
58 AAGGAGAAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGG
*
261533 -CA--T-CCTGCTCTTTGAGGACTA-AAAAGT
123 AAAGGTGCCTGCTCTTTGAGGACTAGAAAAGT
261560 TAAAGGAGAA
Statistics
Matches: 502, Mismatches: 61, Indels: 45
0.83 0.10 0.07
Matches are distributed among these distances:
210 72 0.14
211 100 0.20
212 7 0.01
213 2 0.00
214 4 0.01
216 16 0.03
217 169 0.34
219 1 0.00
220 2 0.00
225 10 0.02
226 119 0.24
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (214 bp):
GAGAGAGCGTCCTACTCTTTGAGGACTGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAA
GGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAAAGGTGC
CTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTT
GAGGACTAAAGGGCGAAAG
Found at i:261215 original size:156 final size:155
Alignment explanation
Indices: 261024--261326 Score: 432
Period size: 156 Copynumber: 1.9 Consensus size: 155
261014 GTGGGCTTTA
* * *
261024 AAAGGAGAAGGCGTCCTGCTCTTAGAGGATTGGGAAATGCCACCAACTTGTGTGGGCTTTGAAAG
1 AAAGGAGAAGGCGTCCTGCACTTAGAGGACTGGGAAATGCCACCAACTTGTGTGGGCTTTAAAAG
*
261089 GA-AAAG-GTGCCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGG
66 GAGAAAGCAT--CCTGCTCTTTGAGGACTAGAAAA-TGCCACCAACTTGTGTGGGCTTTAAAAGG
261152 CACCCTGCTCTTTAAGGACTAAAGGGCG
128 CACCCTGCTCTTTAAGGACTAAAGGGCG
* *
261180 AAAGGAG-AGAGCGTCCTGCACTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAA
1 AAAGGAGAAG-GCGTCCTGCACTTAGAGGACTGGGAAATGCCACCAACTTGTGTGGGCTTTAAAA
* * * * *
261244 GGAGAAAGCATCCTGCTCTTTGAGGACTGGAAAATGTCGCCAACTTGTGTGGGCTTTGAAAGGCG
65 GGAGAAAGCATCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCA
* *
261309 TCCTGCTCTTTGAGGACT
130 CCCTGCTCTTTAAGGACT
261327 GGAAAATGCC
Statistics
Matches: 131, Mismatches: 13, Indels: 7
0.87 0.09 0.05
Matches are distributed among these distances:
155 45 0.34
156 81 0.62
157 4 0.03
158 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (155 bp):
AAAGGAGAAGGCGTCCTGCACTTAGAGGACTGGGAAATGCCACCAACTTGTGTGGGCTTTAAAAG
GAGAAAGCATCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCAC
CCTGCTCTTTAAGGACTAAAGGGCG
Found at i:261330 original size:55 final size:54
Alignment explanation
Indices: 261254--261552 Score: 386
Period size: 55 Copynumber: 5.3 Consensus size: 54
261244 GGAGAAAGCA
* *
261254 TCCTGCTCTTTGAGGACTGGAAAATGTCGCCAACTTGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT-AAAGGCG
261309 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAGAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAA-AGGCG
*
261364 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGCG
1 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTAA-AGGCG
* * *
261419 TCCTGCTCTTTGAAGACT-GAAAGGTGCTACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTT-------AAAGGCG
* * *
261480 TCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCA
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT-AAAGGCG
261535 TCCTGCTCTTTGAGGACT
1 TCCTGCTCTTTGAGGACT
261553 AAAAAGTTAA
Statistics
Matches: 225, Mismatches: 9, Indels: 20
0.89 0.04 0.08
Matches are distributed among these distances:
54 6 0.03
55 169 0.75
61 45 0.20
62 5 0.02
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (54 bp):
TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAGGCG
Found at i:261479 original size:171 final size:168
Alignment explanation
Indices: 261185--261552 Score: 487
Period size: 171 Copynumber: 2.1 Consensus size: 168
261175 GGGCGAAAGG
* *
261185 AGAGAGCGTCCTGCACTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAA
1 AGAG-GCGTCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT-AAAGGAG--
* *
261250 AGCATCCTGCTCTTTGAGGACTGGAAAATGTCGCCAACTTGTGTGGGCTTTGAAAGGCGTCCTGC
62 AGCATCCTGCTCTTTGAAGACTGGAAAATGTCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGC
261315 TCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTA
127 TCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTA
261357 AGAGGCGTCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AA-GAG-GC
1 AGAGGCGTCCTGCTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTTAAAGGAGAGC
* *
261418 GTCCTGCTCTTTGAAGACT-G-AAAGGTGCTACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCGT
65 ATCCTGCTCTTTGAAGACTGGAAAATGT-C-ACCAACTTGTGTGGGCTTT-----G-AAAGGCGT
* *
261481 CCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTA
122 CCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTA
* *
261528 AAAGGCATCCTGCTCTTTGAGGACT
1 AGAGGCGTCCTGCTCTTTGAGGACT
261553 AAAAAGTTAA
Statistics
Matches: 177, Mismatches: 10, Indels: 19
0.86 0.05 0.09
Matches are distributed among these distances:
163 5 0.03
164 2 0.01
165 37 0.21
168 3 0.02
169 2 0.01
170 4 0.02
171 120 0.68
172 4 0.02
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (168 bp):
AGAGGCGTCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAGGAGAGCA
TCCTGCTCTTTGAAGACTGGAAAATGTCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTT
TGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTA
Found at i:261522 original size:116 final size:116
Alignment explanation
Indices: 261185--261552 Score: 504
Period size: 116 Copynumber: 3.2 Consensus size: 116
261175 GGGCGAAAGG
* * *
261185 AGAGAGCGTCCTGCACTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAA
1 AGAG-GCGTCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGA-AA
* * * *
261250 A-GCATCCTGCTCTTTGAGGACTGGAAAATGTCGCCAACTTGTGTGGGCTTTGA
64 AGGCGTCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT-A
*
261303 A-AGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT---AAG---AG
1 AGAGGCGTCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAG
261361 GCGTCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTA
66 GCGTCCTGCTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTTA
* *
261412 AGAGGCGTCCTGCTCTTTGAAGACT-GAAAGGTGCTACCAACTTGTGTGGGCTTTAAAAAGAAAA
1 AGAGGCGTCCTGCTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAA
*
261476 GGCGTCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTA
65 GGCGTCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTA
* *
261528 AAAGGCATCCTGCTCTTTGAGGACT
1 AGAGGCGTCCTGCTCTTTGAGGACT
261553 AAAAAGTTAA
Statistics
Matches: 224, Mismatches: 15, Indels: 24
0.85 0.06 0.09
Matches are distributed among these distances:
109 11 0.05
110 85 0.38
113 5 0.02
116 117 0.52
117 5 0.02
118 1 0.00
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (116 bp):
AGAGGCGTCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAG
GCGTCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTA
Found at i:262570 original size:19 final size:19
Alignment explanation
Indices: 262524--262587 Score: 69
Period size: 18 Copynumber: 3.4 Consensus size: 19
262514 AAGCAAATTC
* *
262524 TTTTTTTTTTCTCTTTTT-
1 TTTTTTTTTTGTTTTTTTG
* *
262542 TCTTTGTTTTG-TTTTTTG
1 TTTTTTTTTTGTTTTTTTG
262560 TTTTGTTTTTTGTTTTTTTG
1 TTTT-TTTTTTGTTTTTTTG
262580 TTTTTTTT
1 TTTTTTTT
262588 AAAAAAAGAA
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
17 5 0.14
18 11 0.30
19 10 0.27
20 11 0.30
ACGTcount: A:0.00, C:0.05, G:0.09, T:0.86
Consensus pattern (19 bp):
TTTTTTTTTTGTTTTTTTG
Found at i:262587 original size:12 final size:12
Alignment explanation
Indices: 262524--262587 Score: 67
Period size: 12 Copynumber: 5.2 Consensus size: 12
262514 AAGCAAATTC
*
262524 TTTTTTTTTTCT
1 TTTTTTTTTTGT
*
262536 CTTTTTTCTTTGT
1 -TTTTTTTTTTGT
*
262549 TTTGTTTTTTGT
1 TTTTTTTTTTGT
*
262561 TTTGTTTTTTGT
1 TTTTTTTTTTGT
262573 TTTTTTGTTTT-T
1 TTTTTT-TTTTGT
262585 TTT
1 TTT
262588 AAAAAAAGAA
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
12 31 0.69
13 14 0.31
ACGTcount: A:0.00, C:0.05, G:0.09, T:0.86
Consensus pattern (12 bp):
TTTTTTTTTTGT
Found at i:274582 original size:130 final size:130
Alignment explanation
Indices: 274372--274672 Score: 358
Period size: 130 Copynumber: 2.3 Consensus size: 130
274362 AACAACGGGG
* * * *
274372 TTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATCGATGATTTAG
1 TTGGAGTATCCCCTCGAAAATAATGGGGTTGGAGTATCCCCAATTATGAAAAATCAATGATTTAG
* * * *
274437 AAATAGGGCAAGGGTTGAAGTGTCCCCGATTAT-AGAAAAT-AGATGTTTCAAAAATAAAATCAG
66 AAATAAGGCAAGGGTTGAAGTATCCCCGATTATGAG-AAATCA-ATATTTCAAAAATAAAACCAG
274500 GA
129 GA
*
274502 TTGGAGTATCCCCGT-GAAAATAATGGGGTTGGAGTATCCCCAATTATGAGAAATCAAT-ATTTT
1 TTGGAGTATCCCC-TCGAAAATAATGGGGTTGGAGTATCCCCAATTATGAAAAATCAATGA-TTT
** * * *** *
274565 AGAAATAAGGCCGGGGTTGAAGTATCCCTGATTGTGAGAAATCAATATTTTGGAAATAAAGCCAG
64 AGAAATAAGGCAAGGGTTGAAGTATCCCCGATTATGAGAAATCAATATTTCAAAAATAAAACCAG
*
274630 GG
129 GA
* *
274632 TTGGAGTATCCCCTCGGAAATAATGAGGTTGGAGTATCCCC
1 TTGGAGTATCCCCTCGAAAATAATGGGGTTGGAGTATCCCC
274673 GATGAAATAA
Statistics
Matches: 146, Mismatches: 20, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
129 2 0.01
130 140 0.96
131 4 0.03
ACGTcount: A:0.34, C:0.15, G:0.25, T:0.27
Consensus pattern (130 bp):
TTGGAGTATCCCCTCGAAAATAATGGGGTTGGAGTATCCCCAATTATGAAAAATCAATGATTTAG
AAATAAGGCAAGGGTTGAAGTATCCCCGATTATGAGAAATCAATATTTCAAAAATAAAACCAGGA
Found at i:274592 original size:51 final size:51
Alignment explanation
Indices: 274526--274644 Score: 175
Period size: 51 Copynumber: 2.3 Consensus size: 51
274516 TGAAAATAAT
*
274526 GGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTAGAAATAAGGCC
1 GGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTAGAAATAAAGCC
* ** * *
274577 GGGGTTGAAGTATCCCTGATTGTGAGAAATCAATATTTTGGAAATAAAGCC
1 GGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTAGAAATAAAGCC
*
274628 AGGGTTGGAGTATCCCC
1 GGGGTTGGAGTATCCCC
274645 TCGGAAATAA
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
51 59 1.00
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (51 bp):
GGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTAGAAATAAAGCC
Found at i:274654 original size:31 final size:28
Alignment explanation
Indices: 274616--274700 Score: 89
Period size: 28 Copynumber: 2.9 Consensus size: 28
274606 TCAATATTTT
274616 GGAAATAAAGCCAGGGTTGGAGTATCCCCTC
1 GGAAATAAAG--A-GGTTGGAGTATCCCCTC
* **
274647 GGAAATAATGAGGTTGGAGTATCCCCGA
1 GGAAATAAAGAGGTTGGAGTATCCCCTC
* * *
274675 TGAAATAACGGGGTTGGAGTATCCCC
1 GGAAATAAAGAGGTTGGAGTATCCCC
274701 GATTGTGAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
28 38 0.79
29 1 0.02
31 9 0.19
ACGTcount: A:0.29, C:0.19, G:0.31, T:0.21
Consensus pattern (28 bp):
GGAAATAAAGAGGTTGGAGTATCCCCTC
Found at i:274703 original size:28 final size:28
Alignment explanation
Indices: 274629--274703 Score: 105
Period size: 28 Copynumber: 2.7 Consensus size: 28
274619 AATAAAGCCA
*** *
274629 GGGTTGGAGTATCCCCTCGGAAATAATG
1 GGGTTGGAGTATCCCCGATGAAATAACG
*
274657 AGGTTGGAGTATCCCCGATGAAATAACG
1 GGGTTGGAGTATCCCCGATGAAATAACG
274685 GGGTTGGAGTATCCCCGAT
1 GGGTTGGAGTATCCCCGAT
274704 TGTGAAAAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.25, C:0.19, G:0.32, T:0.24
Consensus pattern (28 bp):
GGGTTGGAGTATCCCCGATGAAATAACG
Found at i:274754 original size:51 final size:51
Alignment explanation
Indices: 274686--274802 Score: 164
Period size: 51 Copynumber: 2.3 Consensus size: 51
274676 GAAATAACGG
* *
274686 GGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTGGAAATAAAATCG-
1 GGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTAGAAATAAAACCGT
* * * *
274736 GAGTTGGAATATCCCCGATTGTGGAGAATTGGTGTTTTAGAAATAAAACCGT
1 G-GTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTAGAAATAAAACCGT
274788 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
274803 TCAAAAATAA
Statistics
Matches: 58, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
50 1 0.02
51 56 0.97
52 1 0.02
ACGTcount: A:0.29, C:0.13, G:0.27, T:0.31
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTAGAAATAAAACCGT
Found at i:274792 original size:158 final size:158
Alignment explanation
Indices: 274497--274830 Score: 372
Period size: 158 Copynumber: 2.1 Consensus size: 158
274487 AAAATAAAAT
* * *
274497 CAGGATTGGAGTATCCCCGTGAAAATAATGGGGTTGGAGTATCCCCAATTATGAGAAATCAATAT
1 CAGGGTTGGAGTATCCCCGTGAAAATAACGGGGTTGGAGTATCCCCAATTATGAAAAATCAATAT
** * * * *
274562 TTTAGAAATAAGGCCGGGGTTGAAGTATCCCTGATTGTGAGAAATCAATATTTTGGAAATAAAGC
66 TTTAGAAATAAAACCGGAGTTGAAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAAC
**
274627 CAGGGTTGGAGTATCCCCTCGGAAATAA
131 CAGGGTTGGAGTATCCCCTCAAAAATAA
* * * * *
274655 -TGAGGTTGGAGTATCCCCGATG-AAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTAGT
1 CAG-GGTTGGAGTATCCCCG-TGAAAATAACGGGGTTGGAGTATCCCCAATTATGAAAAATCAAT
* * * *** *
274718 GTTTTGGAAATAAAATCGGAGTTGGAA-TATCCCCGATTGTG-GAGAATTGGTGTTTTAGAAATA
64 ATTTTAGAAATAAAACCGGAGTT-GAAGTATCCCCGATTGTGAGA-AATCAATATTTTAGAAATA
274781 AAACC-GTGGTTGGAGTATCCCCTCAAAAATAA
127 AAACCAG-GGTTGGAGTATCCCCTCAAAAATAA
*
274813 CAGGGTTGAAGTATCCCC
1 CAGGGTTGGAGTATCCCC
274831 AATTATGAAA
Statistics
Matches: 145, Mismatches: 25, Indels: 12
0.80 0.14 0.07
Matches are distributed among these distances:
157 4 0.03
158 135 0.93
159 6 0.04
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.27
Consensus pattern (158 bp):
CAGGGTTGGAGTATCCCCGTGAAAATAACGGGGTTGGAGTATCCCCAATTATGAAAAATCAATAT
TTTAGAAATAAAACCGGAGTTGAAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAAC
CAGGGTTGGAGTATCCCCTCAAAAATAA
Found at i:274830 original size:79 final size:79
Alignment explanation
Indices: 274738--275036 Score: 408
Period size: 79 Copynumber: 3.8 Consensus size: 79
274728 TAAAATCGGA
* * * * * *
274738 GTTGGAATATCCCCGATTGTGGAGAATTGGTGTTTTAGAAATAAAACCGTGGTTGGAGTATCCCC
1 GTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCC
274803 TCAAAAATAACAGG
66 TCAAAAATAACAGG
* *
274817 GTTGAAGTATCCCCAATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCC
1 GTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCC
** *
274882 TCGGAAATGAC-GAG
66 TCAAAAATAACAG-G
* * * *
274896 GTTGGAGTATCCCCGATTATGAGAAATTAATATTTTAGAAATAAAGCCGGGGTTGGAGTATCCCC
1 GTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCC
274961 TCAAAAATAACAGG
66 TCAAAAATAACAGG
* *
274975 GTTGGAGTATCCCC-A--ATGAAAAATTGATGTTTTAGAAATAAAATCAGGGTTGGAGTATCCCC
1 GTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCC
275037 GAGATGGAAA
Statistics
Matches: 192, Mismatches: 26, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
76 41 0.21
78 2 0.01
79 148 0.77
80 1 0.01
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.27
Consensus pattern (79 bp):
GTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCC
TCAAAAATAACAGG
Found at i:275046 original size:158 final size:157
Alignment explanation
Indices: 274738--275036 Score: 469
Period size: 158 Copynumber: 1.9 Consensus size: 157
274728 TAAAATCGGA
* ** * *
274738 GTTGGAATATCCCCGATTGTGGAGAATTGGTGTTTTAGAAATAAAACCGTGGTTGGAGTATCCCC
1 GTTGGAATATCCCCGATTATGGAGAATTAATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCC
*
274803 TCAAAAATAACAGGGTTGAAGTATCCCCAATTATGAAAAATTGATGTTTTAGAAATAAAACCGGG
66 TCAAAAATAACAGGGTTGAAGTATCCCCAA-TATGAAAAATTGATGTTTTAGAAATAAAACCAGG
274868 GTTGGAGTATCCCCTCGGAAATGACGAG
130 GTTGGAGTATCCCCTCGGAAATGACGAG
* *
274896 GTTGGAGTATCCCCGATTAT-GAGAAATTAATATTTTAGAAATAAAGCCGGGGTTGGAGTATCCC
1 GTTGGAATATCCCCGATTATGGAG-AATTAATATTTTAGAAATAAAACCGGGGTTGGAGTATCCC
* *
274960 CTCAAAAATAACAGGGTTGGAGTATCCCC-A-ATGAAAAATTGATGTTTTAGAAATAAAATCAGG
65 CTCAAAAATAACAGGGTTGAAGTATCCCCAATATGAAAAATTGATGTTTTAGAAATAAAACCAGG
275023 GTTGGAGTATCCCC
130 GTTGGAGTATCCCC
275037 GAGATGGAAA
Statistics
Matches: 130, Mismatches: 10, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
155 45 0.35
157 4 0.03
158 81 0.62
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.27
Consensus pattern (157 bp):
GTTGGAATATCCCCGATTATGGAGAATTAATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCC
TCAAAAATAACAGGGTTGAAGTATCCCCAATATGAAAAATTGATGTTTTAGAAATAAAACCAGGG
TTGGAGTATCCCCTCGGAAATGACGAG
Found at i:277026 original size:20 final size:19
Alignment explanation
Indices: 277001--277074 Score: 94
Period size: 20 Copynumber: 3.7 Consensus size: 19
276991 AAAATGCTTG
*
277001 AATGTATCGATACATTGTAA
1 AATGTATCGATACAATG-AA
*
277021 AATGTATCGATACAATGAGC
1 AATGTATCGATACAATGA-A
277041 AATGTATCGATACAATGCAA
1 AATGTATCGATACAATG-AA
*
277061 AATGTATTGATACA
1 AATGTATCGATACA
277075 TCTAGGTAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
19 1 0.02
20 46 0.96
21 1 0.02
ACGTcount: A:0.42, C:0.12, G:0.16, T:0.30
Consensus pattern (19 bp):
AATGTATCGATACAATGAA
Found at i:277523 original size:13 final size:13
Alignment explanation
Indices: 277505--277530 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
277495 ACACCAAAGT
277505 ATGTATCGATACA
1 ATGTATCGATACA
277518 ATGTATCGATACA
1 ATGTATCGATACA
277531 CAAAAAATGG
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:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:277549 original size:33 final size:33
Alignment explanation
Indices: 277486--277550 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
277476 TAGCCAACCT
**
277486 TGTATCGATACACCAAAGTATGTATCGATACAA
1 TGTATCGATACACCAAAAAATGTATCGATACAA
*
277519 TGTATCGATACA-CAAAAAATGGTATTGATACA
1 TGTATCGATACACCAAAAAAT-GTATCGATACA
277551 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 6 0.21
33 22 0.79
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACCAAAAAATGTATCGATACAA
Found at i:277607 original size:19 final size:20
Alignment explanation
Indices: 277583--277622 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
277573 GGCTATATTT
277583 TCAAATA-TGTATCGATACA
1 TCAAATATTGTATCGATACA
*
277602 TCAAATATTGTATTGATACA
1 TCAAATATTGTATCGATACA
277622 T
1 T
277623 TCACACGGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 7 0.37
20 12 0.63
ACGTcount: A:0.40, C:0.12, G:0.10, T:0.38
Consensus pattern (20 bp):
TCAAATATTGTATCGATACA
Found at i:283725 original size:13 final size:13
Alignment explanation
Indices: 283707--283744 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
283697 CATTTTTCTT
283707 TGTATCGATACAA
1 TGTATCGATACAA
*
283720 TGTATCGATACAC
1 TGTATCGATACAA
283733 TGTATCGATACA
1 TGTATCGATACA
283745 GGGGGATTCT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:283899 original size:20 final size:20
Alignment explanation
Indices: 283856--283901 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
283846 AAATCTTTTG
283856 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
283877 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
283897 CAAAA
1 CAAAA
283902 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:291060 original size:332 final size:328
Alignment explanation
Indices: 290152--291289 Score: 1387
Period size: 332 Copynumber: 3.4 Consensus size: 328
290142 AATAACATAA
* ** * *
290152 GATGAGTTTTAAAAATTTTAAACCAAGAAAAATCCCCTCGAAAAAAA-TTACGGAGTAAAAAACA
1 GATGAATTTTAAAAATTGAAAACCAAGAAAAATCCCCTC-AAAAAAATTTACGAAGTAGAAAACA
* * * * ** * *
290216 TCGTATTTCA-AAAAAATGTGAGTTTCAAGGAAAAAAATCAAAACTGAATGAAAATGAACGAATT
65 ACGTATTTCAGAAAAAAGGGGAATTTCAAGGAAAAAAAAAAAAACT-CATGAAAATGAATGAATT
* *
290280 TTTGAAAATTGAATTAACATGAATCAAATAATGATGTTTTATGAATTTTAAAAATTGAAAACCAA
129 TTTGAAAACTGAATTAACATGAATCAAATAATGATGTTTCATGAATTTTAAAAATTGAAAACCAA
* * * * * *
290345 GAAAAATCCTCTTGAAAAAAATTACGGAGTAGAAAACACTACATTTAGAAAAAAGAGAAATTTCA
194 GAAAAATCC-CTCGAAAAAATTTACGAAGTAGAAAAAACT--ATTT-CAAAAAAGGGAAATTTCA
* * * * * * *
290410 CA-AAAAAAGCTCTAAAACTCATGAACATGATTGAATTTTTGAAAAGTGAATTAATATGAATTAA
255 -AGAAAAAA-AT-AAAAAATCATGAAAATGAATGAATTTTTGAAAACTGAATTAATATGAATCAA
*
290474 ATAATGATATTT
317 ATAATGATGTTT
* * * *
290486 GATGAATTTTAAAAGTTGAAAATCAAGAAAAATCCCTTCAAAAAAATTTAC-ATATTAGAAAACA
1 GATGAATTTTAAAAATTGAAAACCAAGAAAAATCCCCTCAAAAAAATTTACGA-AGTAGAAAACA
* * * * *
290550 CCATATTTCGGAAAAAAAGGGGAATTTCAAGGCAAAAAATAAAAAACTCATGAAAATAAATGAAT
65 ACGTATTTCAG-AAAAAAGGGGAATTTCAAGG-AAAAAAAAAAAAACTCATGAAAATGAATGAAT
* * * *
290615 TTTTGAAAATTGAATT-A-ATGCAAATCAAATAATGATATTTGATAAATTTTAAAAATTGAAAAC
128 TTTTGAAAACTGAATTAACATG--AATCAAATAATGATGTTTCATGAATTTTAAAAATTGAAAAC
* *
290678 CAAGAAAAATACCCTCGGAAAAATTTATGAAGTAGAAAACAACATATTTCAAAAAAGGGAAATTT
191 CAAGAAAAAT-CCCTCGAAAAAATTTACGAAGTAGAAAA-AAC-TATTTCAAAAAAGGGAAATTT
*
290743 CAAGAAAAAAATAAAAAATGAATGAAAATGAATGAATTTTTGAAAACTGAATTAATATGAATCAA
253 CAAGAAAAAAATAAAAAAT-CATGAAAATGAATGAATTTTTGAAAACTGAATTAATATGAATCAA
*
290808 ATAATAATGTTT
317 ATAATGATGTTT
*
290820 GATGAATTTTAAAAATTGAAAACCAAGAAAAATCCCCTCAAAAAAATTTACGAAGTAGAAAATAA
1 GATGAATTTTAAAAATTGAAAACCAAGAAAAATCCCCTCAAAAAAATTTACGAAGTAGAAAACAA
* * *
290885 TGTATTTTAGAAAAAA-GGGAATTTCTAGGAAAAAATAAAAAAACTCATGAAAATGAATGAATTT
66 CGTATTTCAGAAAAAAGGGGAATTTCAAGGAAAAAA-AAAAAAACTCATGAAAATGAATGAATTT
* *
290949 TTGAAAACTAAATTAACATGAATCAAATAATGATGTTTCATGAATTTTAAAAAATGAAAACCAAG
130 TTGAAAACTGAATTAACATGAATCAAATAATGATGTTTCATGAATTTTAAAAATTGAAAACCAAG
* *
291014 AAAAATCCCATCGAAAAAATTTACAAAATAGAAAATAACGTATTTCAAAAAAAGGG-AATTTCAA
195 AAAAATCCC-TCGAAAAAATTTACGAAGTAGAAAA-AAC-TATTTC-AAAAAAGGGAAATTTCAA
* * * * * * * *
291078 GGAAAACATAAAAAACTCATGAAAATAAATAAATTTTTAAAAACTAAATTACTATGAATCAAAAA
256 GAAAAAAATAAAAAA-TCATGAAAATGAATGAATTTTTGAAAACTGAATTAATATGAATCAAATA
291143 ATGATGTTT
320 ATGATGTTT
*
291152 GATGAATTTTAAAAATTGAAAACCAAGAAAAATCCCATCAAAAAAATTTACGAAGTAGAAAACAA
1 GATGAATTTTAAAAATTGAAAACCAAGAAAAATCCCCTCAAAAAAATTTACGAAGTAGAAAACAA
* * *
291217 CGTATTTCAG-AAAAAGGGAAATTTCAA-GAAAAAAATAAAAACTCATGAAAATGAATGACTTTT
66 CGTATTTCAGAAAAAAGGGGAATTTCAAGGAAAAAAAAAAAAACTCATGAAAATGAATGAATTTT
*
291280 TAAAAACTGA
131 TGAAAACTGA
291290 GTTACTATTA
Statistics
Matches: 697, Mismatches: 87, Indels: 44
0.84 0.11 0.05
Matches are distributed among these distances:
330 35 0.05
331 21 0.03
332 277 0.40
333 29 0.04
334 174 0.25
335 24 0.03
336 120 0.17
337 16 0.02
338 1 0.00
ACGTcount: A:0.52, C:0.09, G:0.12, T:0.26
Consensus pattern (328 bp):
GATGAATTTTAAAAATTGAAAACCAAGAAAAATCCCCTCAAAAAAATTTACGAAGTAGAAAACAA
CGTATTTCAGAAAAAAGGGGAATTTCAAGGAAAAAAAAAAAAACTCATGAAAATGAATGAATTTT
TGAAAACTGAATTAACATGAATCAAATAATGATGTTTCATGAATTTTAAAAATTGAAAACCAAGA
AAAATCCCTCGAAAAAATTTACGAAGTAGAAAAAACTATTTCAAAAAAGGGAAATTTCAAGAAAA
AAATAAAAAATCATGAAAATGAATGAATTTTTGAAAACTGAATTAATATGAATCAAATAATGATG
TTT
Found at i:291326 original size:165 final size:164
Alignment explanation
Indices: 290152--291297 Score: 1310
Period size: 167 Copynumber: 6.9 Consensus size: 164
290142 AATAACATAA
* ** * * *
290152 GATGAGTTTTAAAAATTTTAAACCAAGAAAAATCCCCTCGAAAAAAA-TTACGGAGTAAAAAACA
1 GATGAATTTTAAAAATTGAAAACCAAGAAAAATCCCATC-AAAAAAATTTACGAAGTAGAAAACA
* * * * * *
290216 TCGTATTTCAAAAAAATGTGAGTTTCAAGGAAAAAAATCAAAACTGAATGAAAATGAACGAATTT
65 ACGTATTTCAAAAAAA-GGGAATTTCAA-GAAAAAAATAAAAACT-CATGAAAATGAATGAATTT
*
290281 TTGAAAATTGAATTAAC-ATGAATCAAATAATGATGTTT
127 TTGAAAACTGAATT-ACTATGAATCAAATAATGATGTTT
* * * *
290319 TATGAATTTTAAAAATTGAAAACCAAGAAAAATCCTCTTGAAAAAAA-TTACGGAGTAGAAAAC-
1 GATGAATTTTAAAAATTGAAAACCAAGAAAAATCC-CATCAAAAAAATTTACGAAGTAGAAAACA
* * * * *
290382 AC-TACATTT-AGAAAAAAGAGAAATTTCACA-AAAAAAGCTCTAAAACTCATGAACATGATTGA
65 ACGT--ATTTCA-AAAAAAG-GGAATTTCA-AGAAAAAA-AT-AAAAACTCATGAAAATGAATGA
* * * *
290444 ATTTTTGAAAAGTGAATTAATATGAATTAAATAATGATATTT
123 ATTTTTGAAAACTGAATTACTATGAATCAAATAATGATGTTT
* * * *
290486 GATGAATTTTAAAAGTTGAAAATCAAGAAAAATCCCTTCAAAAAAATTTAC-ATATTAGAAAACA
1 GATGAATTTTAAAAATTGAAAACCAAGAAAAATCCCATCAAAAAAATTTACGA-AGTAGAAAACA
* * * *
290550 CCATATTTCGGAAAAAAAGGGGAATTTCAAGGCAAAAAATAAAAAACTCATGAAAATAAATGAAT
65 ACGTATTTC--AAAAAAA-GGGAATTTCAA-GAAAAAAAT-AAAAACTCATGAAAATGAATGAAT
* *
290615 TTTTGAAAATTGAATTA--ATGCAAATCAAATAATGATATTT
125 TTTTGAAAACTGAATTACTATG--AATCAAATAATGATGTTT
* ** *
290655 GATAAATTTTAAAAATTGAAAACCAAGAAAAATACCC-TCGGAAAAATTTATGAAGTAGAAAACA
1 GATGAATTTTAAAAATTGAAAACCAAGAAAAAT-CCCATCAAAAAAATTTACGAAGTAGAAAACA
* * *
290719 ACATATTTC-AAAAAAGGGAAATTTCAAGAAAAAAATAAAAAATGAATGAAAATGAATGAATTTT
65 ACGTATTTCAAAAAAAGGG-AATTTCAAGAAAAAAATAAAAACT-CATGAAAATGAATGAATTTT
* *
290783 TGAAAACTGAATTAATATGAATCAAATAATAATGTTT
128 TGAAAACTGAATTACTATGAATCAAATAATGATGTTT
* *
290820 GATGAATTTTAAAAATTGAAAACCAAGAAAAATCCCCTCAAAAAAATTTACGAAGTAGAAAATAA
1 GATGAATTTTAAAAATTGAAAACCAAGAAAAATCCCATCAAAAAAATTTACGAAGTAGAAAACAA
* * * *
290885 TGTATTTTAGAAAAAAGGGAATTTCTAGGAAAAAATAAAAAAACTCATGAAAATGAATGAATTTT
66 CGTATTTCA-AAAAAAGGGAATTTC-AAGAAAAAA-ATAAAAACTCATGAAAATGAATGAATTTT
*
290950 TGAAAACTAAATTAAC-ATGAATCAAATAATGATGTTT
128 TGAAAACTGAATT-ACTATGAATCAAATAATGATGTTT
* * * * * *
290987 CATGAATTTTAAAAAATGAAAACCAAGAAAAATCCCATCGAAAAAATTTACAAAATAGAAAATAA
1 GATGAATTTTAAAAATTGAAAACCAAGAAAAATCCCATCAAAAAAATTTACGAAGTAGAAAACAA
* * * * *
291052 CGTATTTCAAAAAAAGGGAATTTCAAGGAAAACATAAAAAACTCATGAAAATAAATAAATTTTTA
66 CGTATTTCAAAAAAAGGGAATTTCAAGAAAAAAAT-AAAAACTCATGAAAATGAATGAATTTTTG
* *
291117 AAAACTAAATTACTATGAATCAAAAAATGATGTTT
130 AAAACTGAATTACTATGAATCAAATAATGATGTTT
291152 GATGAATTTTAAAAATTGAAAACCAAGAAAAATCCCATCAAAAAAATTTACGAAGTAGAAAACAA
1 GATGAATTTTAAAAATTGAAAACCAAGAAAAATCCCATCAAAAAAATTTACGAAGTAGAAAACAA
* * *
291217 CGTATTTCAGAAAAAGGGAAATTTCAAGAAAAAAATAAAAACTCATGAAAATGAATGACTTTTTA
66 CGTATTTCAAAAAAAGGG-AATTTCAAGAAAAAAATAAAAACTCATGAAAATGAATGAATTTTTG
*
291282 AAAACTGAGTTACTAT
130 AAAACTGAATTACTAT
291298 TAAATAAATG
Statistics
Matches: 845, Mismatches: 98, Indels: 74
0.83 0.10 0.07
Matches are distributed among these distances:
164 12 0.01
165 299 0.35
166 70 0.08
167 306 0.36
168 19 0.02
169 128 0.15
170 11 0.01
ACGTcount: A:0.52, C:0.09, G:0.12, T:0.26
Consensus pattern (164 bp):
GATGAATTTTAAAAATTGAAAACCAAGAAAAATCCCATCAAAAAAATTTACGAAGTAGAAAACAA
CGTATTTCAAAAAAAGGGAATTTCAAGAAAAAAATAAAAACTCATGAAAATGAATGAATTTTTGA
AAACTGAATTACTATGAATCAAATAATGATGTTT
Found at i:291829 original size:20 final size:20
Alignment explanation
Indices: 291804--291860 Score: 78
Period size: 20 Copynumber: 2.9 Consensus size: 20
291794 TTTTACCCAG
*
291804 ATGTATCGATATATTTTTCA
1 ATGTATCGATACATTTTTCA
* * *
291824 ATGTATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
291844 ATGTATCGATACATTTT
1 ATGTATCGATACATTTT
291861 GTCTTTTTAC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.44
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:291836 original size:70 final size:71
Alignment explanation
Indices: 291723--291908 Score: 241
Period size: 70 Copynumber: 2.6 Consensus size: 71
291713 GAAGGTCACA
* * * * * *
291723 TTTTTACCTAGATGTATCGATAAATATATGAATGTATCGATACAT-TCTTTAATGTATCGAT-CA
1 TTTTTACCCAGATGTATCGATAAATTTTTCAATGTATCGATACATGT-ATGAATGTATCGATACA
*
291786 CTTTATT
65 CTTTATC
* *
291793 TTTTTACCCAGATGTATCGATATATTTTTCAATGTATCGATACATGTATGAATGTATCGATACAT
1 TTTTTACCCAGATGTATCGATAAATTTTTCAATGTATCGATACATGTATGAATGTATCGATACAC
*
291858 TTTGTC
66 TTTATC
* *
291864 TTTTTACCCAGATGTATCGATACATTTTTCAATGTATCAATACAT
1 TTTTTACCCAGATGTATCGATAAATTTTTCAATGTATCGATACAT
291909 CTAGTTAAAA
Statistics
Matches: 102, Mismatches: 12, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
70 52 0.51
71 50 0.49
ACGTcount: A:0.30, C:0.15, G:0.12, T:0.44
Consensus pattern (71 bp):
TTTTTACCCAGATGTATCGATAAATTTTTCAATGTATCGATACATGTATGAATGTATCGATACAC
TTTATC
Found at i:292363 original size:17 final size:17
Alignment explanation
Indices: 292341--292375 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
292331 AAACATCAAC
292341 ACAAAAACTCAACAAAA
1 ACAAAAACTCAACAAAA
292358 ACAAAAACTCAACAAAA
1 ACAAAAACTCAACAAAA
292375 A
1 A
292376 GTCCATTCCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.71, C:0.23, G:0.00, T:0.06
Consensus pattern (17 bp):
ACAAAAACTCAACAAAA
Found at i:296617 original size:166 final size:164
Alignment explanation
Indices: 296255--296795 Score: 683
Period size: 167 Copynumber: 3.2 Consensus size: 164
296245 AACAACATTA
* ** * * *
296255 GATGAGTTTTAAAAATTTTAAACCAAGAAAAA-CCCCTCCGAAAAAAATTACGGAGTAGAAAATA
1 GATGAATTTTAAAAATTGAAAACCAAGAAAAATCCCCT-CGAAAAAATTTACGGAATAGAAAACA
* * * *
296319 TCATATTT-TGAAAAAATGGGAGTTTCAAGGAACAAAATCAAAAA-TCAATGAAAATGAATGAAT
65 CCATATTTCAGAAAAAA-GAGAATTTCAAGGAA-AAAATCAAAAACTC-ATGAAAATG-ATGAAT
* *
296382 TTTTGAAAATTAAATTAACATGAATCAAATAATGATGTTT
126 TTTTG-AAATTGAATTAATATGAATCAAATAATGATGTTT
* * * *
296422 TATGAATTTTAAAAATTGAAAACCAAGAAAAATACCCTTGAAAAAATTTACGGAATAAAAAACAC
1 GATGAATTTTAAAAATTGAAAACCAAGAAAAATCCCCTCGAAAAAATTTACGGAATAGAAAACAC
* * *
296487 CGTATTTCAGAAAAAAGAGAATTTTAAGGAAAAAACTCAAAAACTCCTGAAAATGATGGAATTTT
66 CATATTTCAGAAAAAAGAGAATTTCAAGGAAAAAA-TCAAAAACTCATGAAAATGAT-GAATTTT
*
296552 TGAAATTGAATTAATATGAATTAAATAATGATGTTT
129 TGAAATTGAATTAATATGAATCAAATAATGATGTTT
* *
296588 GATGAATTTTAAAAATTGAAAATCAAGAAAAATCCACTCGAAAAAATTTACGGAATAGAAAACAC
1 GATGAATTTTAAAAATTGAAAACCAAGAAAAATCCCCTCGAAAAAATTTACGGAATAGAAAACAC
* * * * * *
296653 TATATTTCAAAAAAAAAAGAATTTCAAGGAAAAAATAAAAAAACGCATGAAAATAAATGAATTTT
66 CATATTTCAGAAAAAAGAGAATTTCAAGGAAAAAAT-CAAAAACTCATGAAAAT-GATGAA-TTT
* * *
296718 TTAAAACTGAATTACTATGAATCAAATAATGATGTTT
128 TTGAAATTGAATTAATATGAATCAAATAATGATGTTT
296755 GATGAATTTTAAAAATTGAAAACCAAGAAAAATCCCCTCGA
1 GATGAATTTTAAAAATTGAAAACCAAGAAAAATCCCCTCGA
296796 TTTACAAAGT
Statistics
Matches: 325, Mismatches: 41, Indels: 16
0.85 0.11 0.04
Matches are distributed among these distances:
165 1 0.00
166 143 0.44
167 168 0.52
168 13 0.04
ACGTcount: A:0.51, C:0.10, G:0.12, T:0.27
Consensus pattern (164 bp):
GATGAATTTTAAAAATTGAAAACCAAGAAAAATCCCCTCGAAAAAATTTACGGAATAGAAAACAC
CATATTTCAGAAAAAAGAGAATTTCAAGGAAAAAATCAAAAACTCATGAAAATGATGAATTTTTG
AAATTGAATTAATATGAATCAAATAATGATGTTT
Found at i:299821 original size:28 final size:28
Alignment explanation
Indices: 299790--299843 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
299780 CTCTAACATT
* * *
299790 GTTATTTTCGTGGGGATACTCCAACCCC
1 GTTATTTTCGAGGGAAAACTCCAACCCC
299818 GTTATTTTCGAGGGAAAACTCCAACC
1 GTTATTTTCGAGGGAAAACTCCAACC
299844 TCGATTTTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.30
Consensus pattern (28 bp):
GTTATTTTCGAGGGAAAACTCCAACCCC
Found at i:299919 original size:79 final size:80
Alignment explanation
Indices: 299801--300317 Score: 496
Period size: 79 Copynumber: 6.5 Consensus size: 80
299791 TTATTTTCGT
* * * * *
299801 GGGGATACTCCAACCCCGTTATTTT-CGAGGGAAAACTCCAACCTCGATTTTATTTCCAAAACAC
1 GGGGATACTCCAATCCTGTTATTTTCCAAGGGGATACTCCAACCTCGATTTTATTTCCAAAACAC
*
299865 CAATTTTTCATAATC
66 CAATTTTTCACAATC
* *
299880 GGGGATACTCTAATCCTGTT-TTTTCCAAGGGGATACTCCAACCCCGATTTTATTTCCAAAACAC
1 GGGGATACTCCAATCCTGTTATTTTCCAAGGGGATACTCCAACCTCGATTTTATTTCCAAAACAC
* *
299944 TAATTTTTCATAATC
66 CAATTTTTCACAATC
* ** * * * *
299959 GGGGACACTCCAA-CCTTGTTA-TTTCTGATGGGATACTCCAACCCCGATTTTATTTTCAAAATA
1 GGGGATACTCCAATCC-TGTTATTTTCCAAGGGGATACTCCAACCTCGATTTTATTTCCAAAACA
300022 CCAATTTTTCACAATC
65 CCAATTTTTCACAATC
** * * * *
300038 GGGGATACTCCAATCCCATTATTTT-CGAGGGGATACTCCAACCTTGGTTTTATTTCCAAAACAT
1 GGGGATACTCCAATCCTGTTATTTTCCAAGGGGATACTCCAACCTCGATTTTATTTCCAAAACAC
* *
300102 TAGTTTTTCACAATC
66 CAATTTTTCACAATC
* * ** * *
300117 GGGGATACTCCAA-CCTCGTTATTTT-CGAGGGGATGCTTTAACC-CTGATTTTATTTCTAAAAT
1 GGGGATACTCCAATCCT-GTTATTTTCCAAGGGGATACTCCAACCTC-GATTTTATTTCCAAAAC
* * *
300179 ATCGATTTTTTACAATC
64 ACCAATTTTTCACAATC
* * * * * ** *
300196 AGGGATACTCTAATCCTATTA-TTTCCAAAGGGATACTCCAACCTTGATTTTATTTTTAGAACAC
1 GGGGATACTCCAATCCTGTTATTTTCCAAGGGGATACTCCAACCTCGATTTTATTTCCAAAACAC
*
300260 CGATTTTTCACAATC
66 CAATTTTTCACAATC
* ** ** *
300275 GGGGATACTCTAGCCCTGTTATTTTTGAA-AGGATACTCCAACC
1 GGGGATACTCCAATCCTGTTATTTTCCAAGGGGATACTCCAACC
300318 CCTTCTTTAT
Statistics
Matches: 363, Mismatches: 64, Indels: 22
0.81 0.14 0.05
Matches are distributed among these distances:
78 11 0.03
79 339 0.93
80 13 0.04
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (80 bp):
GGGGATACTCCAATCCTGTTATTTTCCAAGGGGATACTCCAACCTCGATTTTATTTCCAAAACAC
CAATTTTTCACAATC
Found at i:300028 original size:158 final size:157
Alignment explanation
Indices: 299801--300319 Score: 603
Period size: 158 Copynumber: 3.3 Consensus size: 157
299791 TTATTTTCGT
* * * *
299801 GGGGATACTCCAACCCCGTTATTTTCGAGGGAAAACTCCAACCTCGATTTTATTTCCAAAACACC
1 GGGGATACTCCAACCCCGTTATTTTCGAGGG-ATACTCCAACCCCGATTTTATTTTCAAAATACC
* * **
299866 AATTTTTCATAATCGGGGATACTCTAATCCTGTTTTTTCCAAGGGGATACTCCAACCCCGATTTT
65 AATTTTTCACAATCGGGGATACTCTAATCCTATTTTTTCCAAGGGGATACTCCAACCTTGATTTT
*
299931 ATTTCCAAAACACTAATTTTTCATAATC
130 ATTTCCAAAACACTAATTTTTCACAATC
* **
299959 GGGGACACTCCAACCTTGTTA-TTTCTGATGGGATACTCCAACCCCGATTTTATTTTCAAAATAC
1 GGGGATACTCCAACCCCGTTATTTTC-GA-GGGATACTCCAACCCCGATTTTATTTTCAAAATAC
* * * *
300023 CAATTTTTCACAATCGGGGATACTCCAATCCCATTATTTT-CGAGGGGATACTCCAACCTTGGTT
64 CAATTTTTCACAATCGGGGATACTCTAATCCTATT-TTTTCCAAGGGGATACTCCAACCTTGATT
* *
300087 TTATTTCCAAAACATTAGTTTTTCACAATC
128 TTATTTCCAAAACACTAATTTTTCACAATC
* * ** * *
300117 GGGGATACTCCAACCTCGTTATTTTCGAGGGGATGCTTTAACCCTGATTTTA-TTTCTAAAATAT
1 GGGGATACTCCAACCCCGTTATTTTCGA-GGGATACTCCAACCCCGATTTTATTTTC-AAAATAC
* * * * *
300181 CGATTTTTTACAATCAGGGATACTCTAATCCTATTATTTCCAAAGGGATACTCCAACCTTGATTT
64 CAATTTTTCACAATCGGGGATACTCTAATCCTATTTTTTCCAAGGGGATACTCCAACCTTGATTT
** * **
300246 TATTTTTAGAACACCGATTTTTCACAATC
129 TATTTCCAAAACACTAATTTTTCACAATC
* * * * *
300275 GGGGATACTCTAGCCCTGTTATTTTTGAAAGGATACTCCAACCCC
1 GGGGATACTCCAACCCCGTTATTTTCG-AGGGATACTCCAACCCC
300320 TTCTTTATCT
Statistics
Matches: 302, Mismatches: 52, Indels: 14
0.82 0.14 0.04
Matches are distributed among these distances:
157 11 0.04
158 279 0.92
159 12 0.04
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.35
Consensus pattern (157 bp):
GGGGATACTCCAACCCCGTTATTTTCGAGGGATACTCCAACCCCGATTTTATTTTCAAAATACCA
ATTTTTCACAATCGGGGATACTCTAATCCTATTTTTTCCAAGGGGATACTCCAACCTTGATTTTA
TTTCCAAAACACTAATTTTTCACAATC
Found at i:300220 original size:237 final size:237
Alignment explanation
Indices: 299801--300284 Score: 598
Period size: 237 Copynumber: 2.0 Consensus size: 237
299791 TTATTTTCGT
*
299801 GGGGATACTCCAACCCCGTTATTTTCGAGGGAAAACTCCAACCTCGATTTTATTTCCAAAACACC
1 GGGGATACTCCAACCCCATTATTTTCGAGGGAAAACTCCAACCTCGATTTTATTTCCAAAACACC
* *
299866 AATTTTTCATAATCGGGGATACTCTAATCCTGTTTTTTCCAAGGGGATACTCCAACCCCGATTTT
66 AATTTTTCACAATCGGGGATACTCCAATCCTGTTTTTTCCAAGGGGATACTCCAACCCCGATTTT
* * * ** *
299931 ATTTCCAAAACACTAATTTTTCATAATCGGGGACACTCCAACCTTGTTATTTCTGATGGGATACT
131 ATTTCCAAAACACTAATTTTTCACAATCAGGGACACTCCAACCTTATTATTTCCAAAGGGATACT
*
299996 CCAACCCCGATTTTATTTTCAAAATACCAATTTTTCACAATC
196 CCAACCCCGATTTTATTTTCAAAACACCAATTTTTCACAATC
* * * * * **
300038 GGGGATACTCCAATCCCATTATTTTCGAGGGGATACTCCAACCTTGGTTTTATTTCCAAAACATT
1 GGGGATACTCCAACCCCATTATTTTCGAGGGAAAACTCCAACCTCGATTTTATTTCCAAAACACC
* * * ** *
300103 AGTTTTTCACAATCGGGGATACTCCAA-CCTCGTTATTTT-CGAGGGGATGCTTTAACCCTGATT
66 AATTTTTCACAATCGGGGATACTCCAATCCT-GTT-TTTTCCAAGGGGATACTCCAACCCCGATT
* * * * * *
300166 TTATTTCTAAAATA-TCGATTTTTTACAATCAGGGATACTCTAATCC-TATTATTTCCAAAGGGA
129 TTATTTCCAAAACACT-AATTTTTCACAATCAGGGACACTCCAA-CCTTATTATTTCCAAAGGGA
** * * *
300229 TACTCCAACCTTGATTTTATTTTTAGAACACCGATTTTTCACAATC
192 TACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTTCACAATC
300275 GGGGATACTC
1 GGGGATACTC
300285 TAGCCCTGTT
Statistics
Matches: 209, Mismatches: 34, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
236 4 0.02
237 199 0.95
238 6 0.03
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (237 bp):
GGGGATACTCCAACCCCATTATTTTCGAGGGAAAACTCCAACCTCGATTTTATTTCCAAAACACC
AATTTTTCACAATCGGGGATACTCCAATCCTGTTTTTTCCAAGGGGATACTCCAACCCCGATTTT
ATTTCCAAAACACTAATTTTTCACAATCAGGGACACTCCAACCTTATTATTTCCAAAGGGATACT
CCAACCCCGATTTTATTTTCAAAACACCAATTTTTCACAATC
Found at i:300335 original size:237 final size:235
Alignment explanation
Indices: 299801--300369 Score: 567
Period size: 237 Copynumber: 2.4 Consensus size: 235
299791 TTATTTTCGT
* * * * * * *
299801 GGGGATACTCCAACCCCGTTATTTTCG-AGGGAAAACTCCAACCTCGATTTTATTTCCAAAACAC
1 GGGGATACTCCAAGCCCATTATTTTCGAAAGG-ATACTCCAACCTTG-CTTTATTTCCAAAACAT
* * *
299865 CAATTTTTCATAATCGGGGATACTCTAATCCTGTTTTTTCCAAGGGGATACTCCAACCCCGATTT
64 TAATTTTTCACAATCGGGGATACTCCAA-CCTGTTTTTTCCAAGGGGATACTCCAACCCCGATTT
* * * ** *
299930 TATTTCCAAAACACTAATTTTTCATAATCGGGGACACTCCAACCTTGTTATTTCTGATGGGATAC
128 TATTTCCAAAACACTAATTTTTCACAATCAGGGACACTCCAACCTTATTATTTCCAAAGGGATAC
*
299995 TCCAACCCCGATTTTATTTTCAAAATACCAATTTTTCACAATC
193 TCCAACCCCGATTTTATTTTCAAAACACCAATTTTTCACAATC
* ** *
300038 GGGGATACTCCAATCCCATTATTTTCGAGGGGATACTCCAACCTTGGTTTTATTTCCAAAACATT
1 GGGGATACTCCAAGCCCATTATTTTCGAAAGGATACTCCAACCTT-GCTTTATTTCCAAAACATT
* * * ** *
300103 AGTTTTTCACAATCGGGGATACTCCAACCTCGTTATTTT-CGAGGGGATGCTTTAACCCTGATTT
65 AATTTTTCACAATCGGGGATACTCCAACCT-GTT-TTTTCCAAGGGGATACTCCAACCCCGATTT
* * * * * *
300167 TATTTCTAAAATA-TCGATTTTTTACAATCAGGGATACTCTAATCC-TATTATTTCCAAAGGGAT
128 TATTTCCAAAACACT-AATTTTTCACAATCAGGGACACTCCAA-CCTTATTATTTCCAAAGGGAT
** * * *
300230 ACTCCAACCTTGATTTTATTTTTAGAACACCGATTTTTCACAATC
191 ACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTTCACAATC
* * * * *
300275 GGGGATACT-CTAGCCCTGTTATTTTTGAAAGGATACTCCAACCCCTT-CTTTATCTCCAAAATA
1 GGGGATACTCCAAGCCC-ATTATTTTCGAAAGGATACTCCAA--CCTTGCTTTATTTCCAAAACA
* *
300338 TTAAATTTTTCATCAA-CGAGTATACTCCAACC
63 TT-AATTTTTCA-CAATCGGGGATACTCCAACC
300370 GCGTACCCTA
Statistics
Matches: 276, Mismatches: 45, Indels: 21
0.81 0.13 0.06
Matches are distributed among these distances:
236 9 0.03
237 228 0.83
238 32 0.12
239 7 0.03
ACGTcount: A:0.28, C:0.24, G:0.13, T:0.35
Consensus pattern (235 bp):
GGGGATACTCCAAGCCCATTATTTTCGAAAGGATACTCCAACCTTGCTTTATTTCCAAAACATTA
ATTTTTCACAATCGGGGATACTCCAACCTGTTTTTTCCAAGGGGATACTCCAACCCCGATTTTAT
TTCCAAAACACTAATTTTTCACAATCAGGGACACTCCAACCTTATTATTTCCAAAGGGATACTCC
AACCCCGATTTTATTTTCAAAACACCAATTTTTCACAATC
Found at i:313989 original size:21 final size:22
Alignment explanation
Indices: 313964--314010 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
313954 ACTAGCTTGG
313964 TTTTTCACTATTTT-TCTCTCT
1 TTTTTCACTATTTTCTCTCTCT
* *
313985 TTTTTCTCTATTTTCTTTCTCT
1 TTTTTCACTATTTTCTCTCTCT
314007 TTTT
1 TTTT
314011 CTTCTCACAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 13 0.57
22 10 0.43
ACGTcount: A:0.06, C:0.21, G:0.00, T:0.72
Consensus pattern (22 bp):
TTTTTCACTATTTTCTCTCTCT
Found at i:314005 original size:13 final size:12
Alignment explanation
Indices: 313976--314013 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
313966 TTTCACTATT
*
313976 TTTCTCTCTTT-
1 TTTCTCTTTTTC
313987 TTTCTCTATTTTC
1 TTTCTCT-TTTTC
314000 TTTCTCTTTTTC
1 TTTCTCTTTTTC
314012 TT
1 TT
314014 CTCACATTGC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
11 7 0.29
12 10 0.42
13 7 0.29
ACGTcount: A:0.03, C:0.24, G:0.00, T:0.74
Consensus pattern (12 bp):
TTTCTCTTTTTC
Found at i:314581 original size:165 final size:166
Alignment explanation
Indices: 314405--315011 Score: 546
Period size: 166 Copynumber: 3.6 Consensus size: 166
314395 ACATCGTTAA
* * * * *
314405 ATGAGTTTTAAAAATTTTAAACCAAGAAAAATCCTCCTAAAAAAATTTA-TGAAGTAAAAAATAT
1 ATGAATTTTAAAAATTTAAAACCAAGAAAAATCCTCCTAAAAAAATTTACGGAAGTAGAAAACA-
*
314469 CGTATTTCGAAAAAAAGGAGTTTCAAGGAAAAAAATACAAAATGAATGAAAATGAATGAATTTTT
65 CGTATTTCGAAAAAAAGGAATTTCAAGGAAAAAAATACAAAATGAATGAAAATGAATGAATTTTT
**
314534 GAAAACTGAATTAACGTGAATCAAATAAT-ATG-TTTG
130 GAAAACTGAATTAATATGAATCAAATAATGA-GATTTG
* ** *
314570 ATGAATTTTAAAAATTGAAAACCAAGAAAAATCC-CCTCGAAAAATTTACGGAA-TAGAAAATAC
1 ATGAATTTTAAAAATTTAAAACCAAGAAAAATCCTCCTAAAAAAATTTACGGAAGTAGAAAACA-
* * * *
314633 CGTATTTCGAAAAAAAAAAGAATTTTTAAGG--AAAAAT-CAAAAATGAATGCAAATGAATATAA
65 CGTATTTCG--AAAAAAAGGAA-TTTCAAGGAAAAAAATAC-AAAATGAATGAAAATGAAT-GAA
* * *
314695 TTTTTGAAAACTGAATTATTATG-ATTAAATAATGAGATTTT
125 TTTTTGAAAACTGAATTAATATGAATCAAATAATGAGATTTG
** *
314736 ATGAATTTTAAAAATTTACTATCAAGAAAAATGCCT-CT-AAAAAATTTACGGAGTAGTAGAAAA
1 ATGAATTTTAAAAATTTAAAACCAAGAAAAAT-CCTCCTAAAAAAATTTACGGA--AGTAGAAAA
*
314799 CACTGTATTTCAAAAAAAAGGAAAATTTCAATGGACAAAAACATA-AAATATGAATGTGAACAAT
63 CAC-GTATTTCGAAAAAAAGG--AATTTCAA-GGA-AAAAA-ATACAAA-ATGAA--TGAA-AAT
* * * *
314863 GAATGAATTTTTGAAAA-AGAATTAATTTTTAATCAAATAATGAAGTTTTG
118 GAATGAATTTTTGAAAACTGAATTAA-TATGAATCAAATAATG-AGATTTG
* *
314913 -TGAATTTTAAAAATTGAAAAACCAAGAAAAAAT-CTCCTTGATAAAAAA-TTAC-GAAATAGAA
1 ATGAATTTTAAAAATT-TAAAACCAAG-AAAAATCCTCC-T-A-AAAAAATTTACGGAAGTAGAA
* *
314974 AACAACGTATTTTGGAAAAAAAGGAATTTTAAGGAAAA
61 AAC-ACGTA-TTTCGAAAAAAAGGAATTTCAAGGAAAA
315012 CAAAATAAAA
Statistics
Matches: 360, Mismatches: 44, Indels: 67
0.76 0.09 0.14
Matches are distributed among these distances:
164 30 0.08
165 68 0.19
166 76 0.21
167 19 0.05
168 7 0.02
169 19 0.05
172 7 0.02
173 7 0.02
174 9 0.03
175 20 0.06
176 41 0.11
177 24 0.07
178 21 0.06
179 2 0.01
180 4 0.01
181 6 0.02
ACGTcount: A:0.51, C:0.08, G:0.13, T:0.28
Consensus pattern (166 bp):
ATGAATTTTAAAAATTTAAAACCAAGAAAAATCCTCCTAAAAAAATTTACGGAAGTAGAAAACAC
GTATTTCGAAAAAAAGGAATTTCAAGGAAAAAAATACAAAATGAATGAAAATGAATGAATTTTTG
AAAACTGAATTAATATGAATCAAATAATGAGATTTG
Found at i:314764 original size:166 final size:166
Alignment explanation
Indices: 314405--314943 Score: 471
Period size: 165 Copynumber: 3.2 Consensus size: 166
314395 ACATCGTTAA
* * * * *
314405 ATGAGTTTTAAAAATTTTAAACCAAGAAAAATCCTCCTAAAAAAATTTA-TGAAGTAAAAAATAT
1 ATGAATTTTAAAAA-TTTAAACCAAGAAAAATCC-CCTCAAAAAATTTACGGAAGTAGAAAATAC
*
314469 CGTATTTCG---AAAAAAAGGAGTTTCAAGGAAAAAAATACAAAATGAATGAAAATGAATGAATT
64 CGTATTTCGAAAAAAAAAAGAAGTTTCAAGG-AAAAAATACAAAATGAATGAAAATGAATGAATT
*
314531 TTTGAAAACTGAATTAACGTGAATCAAATAATATGTTTG
128 TTTGAAAACTGAATTAACATGAATCAAATAATATGTTTG
* *
314570 ATGAATTTTAAAAATTGAAAACCAAGAAAAATCCCCTCGAAAAATTTACGGAA-TAGAAAATACC
1 ATGAATTTTAAAAATT-TAAACCAAGAAAAATCCCCTCAAAAAATTTACGGAAGTAGAAAATACC
* * * *
314634 GTATTTCGAAAAAAAAAAGAATTTTTAAGG-AAAAAT-CAAAAATGAATGCAAATGAATATAATT
65 GTATTTCGAAAAAAAAAAGAAGTTTCAAGGAAAAAATAC-AAAATGAATGAAAATGAAT-GAATT
** * *
314697 TTTGAAAACTGAATTATTATG-ATTAAATAATGA-GATTTT
128 TTTGAAAACTGAATTAACATGAATCAAATAAT-ATG-TTTG
* * * *
314736 ATGAATTTTAAAAATTTACTATCAAGAAAAAT-GCCTCTAAAAAATTTACGGAGTAGTAGAAAAC
1 ATGAATTTTAAAAATTTA-AACCAAGAAAAATCCCCTC-AAAAAATTTACGGA--AGTAGAAAAT
*
314800 ACTGTATTTC-AAAAAAAAGGAA-AA-TTTCAATGGACAAAAACATA-AAATATGAATGTGAACA
62 ACCGTATTTCGAAAAAAAA--AAGAAGTTTCAA-GG--AAAAA-ATACAAA-ATGAA--TGAA-A
* ** * *
314861 ATGAATGAATTTTTGAAAA-AGAATTAATTTTTAATCAAATAATGAAGTTTTG
117 ATGAATGAATTTTTGAAAACTGAATTAA-CATGAATCAAATAAT-ATG-TTTG
*
314913 -TGAATTTTAAAAATTGAAAAACCAAGAAAAA
1 ATGAATTTTAAAAATT--TAAACCAAGAAAAA
314944 ATCTCCTTGA
Statistics
Matches: 306, Mismatches: 37, Indels: 50
0.78 0.09 0.13
Matches are distributed among these distances:
164 32 0.10
165 71 0.23
166 66 0.22
167 16 0.05
168 14 0.05
169 20 0.07
170 2 0.01
172 7 0.02
173 7 0.02
174 6 0.02
175 17 0.06
176 33 0.11
177 14 0.05
178 1 0.00
ACGTcount: A:0.51, C:0.08, G:0.13, T:0.29
Consensus pattern (166 bp):
ATGAATTTTAAAAATTTAAACCAAGAAAAATCCCCTCAAAAAATTTACGGAAGTAGAAAATACCG
TATTTCGAAAAAAAAAAGAAGTTTCAAGGAAAAAATACAAAATGAATGAAAATGAATGAATTTTT
GAAAACTGAATTAACATGAATCAAATAATATGTTTG
Found at i:885701 original size:27 final size:28
Alignment explanation
Indices: 885577--885702 Score: 136
Period size: 28 Copynumber: 4.5 Consensus size: 28
885567 CAAGCTAGTG
* *
885577 TGGGCTTT-AAAGCGGTGCCACT-ACCTCA
1 TGGGCTTTGAAA-AGGTGCCACTGA-CTTA
*
885605 TGGGCTTT-AAAAGGGTGCCACTGATTTA
1 TGGGCTTTGAAAA-GGTGCCACTGACTTA
*
885633 TGGGCTTTGAAAAGGTGCCA-TGAACTTG
1 TGGGCTTTGAAAAGGTGCCACTG-ACTTA
*
885661 TGGGCTTTGAAAAGGTGGCACTGACTTA
1 TGGGCTTTGAAAAGGTGCCACTGACTTA
885689 T-GGCTTTGAAAAGG
1 TGGGCTTTGAAAAGG
885703 ATTGGTAGTC
Statistics
Matches: 86, Mismatches: 7, Indels: 11
0.83 0.07 0.11
Matches are distributed among these distances:
27 15 0.17
28 64 0.74
29 7 0.08
ACGTcount: A:0.25, C:0.17, G:0.30, T:0.29
Consensus pattern (28 bp):
TGGGCTTTGAAAAGGTGCCACTGACTTA
Found at i:885767 original size:36 final size:36
Alignment explanation
Indices: 885679--886202 Score: 197
Period size: 36 Copynumber: 14.6 Consensus size: 36
885669 GAAAAGGTGG
* * *
885679 CACTGAC-T-TATGG-CTTTGAAAAGGATTGGTAGT
1 CACTGACTTGTATGGACTTTGAAAAGGTTTGGTTGC
* *
885712 CACCGACTTG-AGTGAACTTT-AGAAAGGTTTGGTTGC
1 CACTGACTTGTA-TGGACTTTGA-AAAGGTTTGGTTGC
* * * *
885748 CACTGAGTTGTACGGACTTTGAAAAAGGTCTGCTTGC
1 CACTGACTTGTATGGACTTTG-AAAAGGTTTGGTTGC
** *
885785 CACCAACTTGTTTGGACTTTGAAAAGGTTTGGTTGC
1 CACTGACTTGTATGGACTTTGAAAAGGTTTGGTTGC
* * * *
885821 AATTGACTTGTGTGGACTTTGAAAAGGTTTAGTTGC
1 CACTGACTTGTATGGACTTTGAAAAGGTTTGGTTGC
** * * * * *
885857 CACCAAGTTGTGTGGACTTTGAAAAAAGTCTGGTTAC
1 CACTGACTTGTATGGACTTTG-AAAAGGTTTGGTTGC
* * * * * * *
885894 CGCCGACTTATGTAGACTTTGAATAGGGTTCCACCACCTTG-TGC
1 CACTGACTTGTATGGACTTTGAA-AAGGTT--------TGGTTGC
* * *
885938 CA-TCGACTTCTGTAGACTTTGAAAAGGTTTGGTTGC
1 CACT-GACTTGTATGGACTTTGAAAAGGTTTGGTTGC
* * * * * *
885974 CACTAACTTATGTAGACTTTGAATA-G---GATT-C
1 CACTGACTTGTATGGACTTTGAAAAGGTTTGGTTGC
* *
886005 CA-TCCACTTGTGTGGACTTTTGAAAAGGTTTGGTTGC
1 CACT-GACTTGTATGGAC-TTTGAAAAGGTTTGGTTGC
*
886042 CACTGACTTGTGTGGACTTTGAAAAGGTTTGGTTGC
1 CACTGACTTGTATGGACTTTGAAAAGGTTTGGTTGC
* * ** *
886078 CA-TCAGTT-TATGTGGACTTTGAATGGGTTTAGTTGC
1 CACTGACTTGTA--TGGACTTTGAAAAGGTTTGGTTGC
* * * * * *
886114 CACTAACCTGTGTGGAATTTG-AATGG--GGGTAT--
1 CACTGACTTGTATGGACTTTGAAAAGGTTTGGT-TGC
** ** * *
886146 CACCAACTCATGTGGACTTTGAAAAGTTTTGGTTGC
1 CACTGACTTGTATGGACTTTGAAAAGGTTTGGTTGC
*
886182 CACTGACTTGTGTGGACTTTG
1 CACTGACTTGTATGGACTTTG
886203 GCTGGGGTGT
Statistics
Matches: 367, Mismatches: 85, Indels: 75
0.70 0.16 0.14
Matches are distributed among these distances:
30 1 0.00
31 13 0.04
32 26 0.07
33 12 0.03
34 5 0.01
35 16 0.04
36 185 0.50
37 78 0.21
38 3 0.01
43 5 0.01
44 21 0.06
45 2 0.01
ACGTcount: A:0.23, C:0.16, G:0.26, T:0.34
Consensus pattern (36 bp):
CACTGACTTGTATGGACTTTGAAAAGGTTTGGTTGC
Done.