Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 ID=Chr13-JGI_221_v2.0
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: 58321163
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 747533 characters in sequence are not A, C, G, or T
File 20 of 199
Found at i:5987100 original size:15 final size:15
Alignment explanation
Indices: 5987076--5987107 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
5987066 TATGCATGCA
*
5987076 AAATATAAAAGACAT
1 AAATACAAAAGACAT
5987091 AAATACAAAAGACAT
1 AAATACAAAAGACAT
5987106 AA
1 AA
5987108 TAGTGAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.69, C:0.09, G:0.06, T:0.16
Consensus pattern (15 bp):
AAATACAAAAGACAT
Found at i:5990683 original size:22 final size:22
Alignment explanation
Indices: 5990634--5990686 Score: 63
Period size: 23 Copynumber: 2.4 Consensus size: 22
5990624 TAAGAAGCAA
*
5990634 ATAGGGTTTGCATATTACTACAT
1 ATAGGGTTTGCATAATAC-ACAT
*
5990657 GTAGGGTTTGCATAAATA-ACAT
1 ATAGGGTTTGCAT-AATACACAT
5990679 ATAGGGTT
1 ATAGGGTT
5990687 CACATGTATA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
22 11 0.42
23 12 0.46
24 3 0.12
ACGTcount: A:0.32, C:0.09, G:0.23, T:0.36
Consensus pattern (22 bp):
ATAGGGTTTGCATAATACACAT
Found at i:5990721 original size:24 final size:23
Alignment explanation
Indices: 5990634--5990722 Score: 65
Period size: 24 Copynumber: 3.9 Consensus size: 23
5990624 TAAGAAGCAA
* *
5990634 ATAGGGTTTGCAT-ATTACTACAT
1 ATAGGGTTCGCATAAATA-TACAT
* *
5990657 GTAGGGTTTGCATAAATA-ACAT
1 ATAGGGTTCGCATAAATATACAT
* ** *
5990679 ATAGGGTTCACATGTATATTCAT
1 ATAGGGTTCGCATAAATATACAT
*
5990702 CCTAGGGTTCGCATAAATATA
1 -ATAGGGTTCGCATAAATATA
5990723 TAAAAAGATC
Statistics
Matches: 50, Mismatches: 13, Indels: 5
0.74 0.19 0.07
Matches are distributed among these distances:
22 17 0.34
23 15 0.30
24 18 0.36
ACGTcount: A:0.33, C:0.13, G:0.19, T:0.35
Consensus pattern (23 bp):
ATAGGGTTCGCATAAATATACAT
Found at i:5992650 original size:22 final size:23
Alignment explanation
Indices: 5992604--5992650 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
5992594 ATTAATTTCT
**
5992604 ATAATAGATGTTTTAATTCTTTA
1 ATAATAGATGTTTTAATTCAATA
*
5992627 ATAATAG-TGTTTTATTTCAATA
1 ATAATAGATGTTTTAATTCAATA
5992649 AT
1 AT
5992651 TTCACCTAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 14 0.67
23 7 0.33
ACGTcount: A:0.36, C:0.04, G:0.09, T:0.51
Consensus pattern (23 bp):
ATAATAGATGTTTTAATTCAATA
Found at i:5993627 original size:27 final size:27
Alignment explanation
Indices: 5993597--5993650 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
5993587 AATTTTAGAT
5993597 TCTTAATTTTTAT-TTTCAAGAATCTAA
1 TCTTAATTTTTATATTTCAA-AATCTAA
** *
5993624 TCTTTTTTTTTATATTTTAAAATCTAA
1 TCTTAATTTTTATATTTCAAAATCTAA
5993651 GTTTAATAGT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 18 0.78
28 5 0.22
ACGTcount: A:0.31, C:0.09, G:0.02, T:0.57
Consensus pattern (27 bp):
TCTTAATTTTTATATTTCAAAATCTAA
Found at i:5999754 original size:25 final size:23
Alignment explanation
Indices: 5999700--5999742 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
5999690 AATGCTTGAG
5999700 TTATATA-GTTTTGGTCATGATA
1 TTATATATGTTTTGGTCATGATA
5999722 TATATATATGTTTTGG-CATGA
1 T-TATATATGTTTTGGTCATGA
5999743 AGTAATTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 1 0.05
23 11 0.58
24 7 0.37
ACGTcount: A:0.28, C:0.05, G:0.19, T:0.49
Consensus pattern (23 bp):
TTATATATGTTTTGGTCATGATA
Found at i:6004899 original size:17 final size:17
Alignment explanation
Indices: 6004847--6004899 Score: 61
Period size: 19 Copynumber: 3.0 Consensus size: 17
6004837 TATGAAAACA
* *
6004847 TAATCTTCGAGGATATG
1 TAATCTTAGAAGATATG
*
6004864 CAATCTTAGATATGATATG
1 TAATCTTAGA-A-GATATG
6004883 TAATCTTAGAAGATATG
1 TAATCTTAGAAGATATG
6004900 ATTTTGTAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
17 14 0.47
18 1 0.03
19 15 0.50
ACGTcount: A:0.36, C:0.09, G:0.19, T:0.36
Consensus pattern (17 bp):
TAATCTTAGAAGATATG
Found at i:6004899 original size:22 final size:23
Alignment explanation
Indices: 6004871--6004915 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
6004861 ATGCAATCTT
6004871 AGATATGA-TATGTAATCTTAGA
1 AGATATGATTATGTAATCTTAGA
*
6004893 AGATATGATTTTGTAATCTTAGA
1 AGATATGATTATGTAATCTTAGA
6004916 GATTTAACTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.38, C:0.04, G:0.18, T:0.40
Consensus pattern (23 bp):
AGATATGATTATGTAATCTTAGA
Found at i:6005124 original size:19 final size:21
Alignment explanation
Indices: 6005100--6005138 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
6005090 TACTGTTTTC
*
6005100 TTTTTTTCTT-TTT-CGATTA
1 TTTTTTACTTATTTACGATTA
6005119 TTTTTTACTTATTTACGATT
1 TTTTTTACTTATTTACGATT
6005139 TTAAAAAAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 3 0.18
21 5 0.29
ACGTcount: A:0.15, C:0.10, G:0.05, T:0.69
Consensus pattern (21 bp):
TTTTTTACTTATTTACGATTA
Found at i:6030563 original size:17 final size:17
Alignment explanation
Indices: 6030541--6030583 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
6030531 CAAAAATCCC
6030541 ACACGCCCGTGTGGCCA
1 ACACGCCCGTGTGGCCA
*
6030558 ACACGCCCGTGTGGCCC
1 ACACGCCCGTGTGGCCA
6030575 ACACAGCCC
1 ACAC-GCCC
6030584 AATTCGGTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 20 0.83
18 4 0.17
ACGTcount: A:0.19, C:0.47, G:0.26, T:0.09
Consensus pattern (17 bp):
ACACGCCCGTGTGGCCA
Found at i:6034435 original size:18 final size:17
Alignment explanation
Indices: 6034398--6034434 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
6034388 CATACAAATT
*
6034398 AAAGAATTATTAGAAAA
1 AAAGAATTAATAGAAAA
*
6034415 AAAGGATTAATAGAAAA
1 AAAGAATTAATAGAAAA
6034432 AAA
1 AAA
6034435 ACTACTAATC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.68, C:0.00, G:0.14, T:0.19
Consensus pattern (17 bp):
AAAGAATTAATAGAAAA
Found at i:6039673 original size:16 final size:16
Alignment explanation
Indices: 6039652--6039703 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
6039642 TTTGGTTCGC
6039652 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
6039668 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
* *
6039684 TGTAATGGAATAGAGG
1 TGTATTGGATTAGAGG
6039700 TGTA
1 TGTA
6039704 ATAGCAAATC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.29, C:0.00, G:0.37, T:0.35
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:6040494 original size:91 final size:90
Alignment explanation
Indices: 6040409--6040588 Score: 261
Period size: 91 Copynumber: 2.0 Consensus size: 90
6040399 AATTTAAAGT
* * * *
6040409 AATTATACCTAATAAATTTTCTTATATGAATTTGTATAATTTAAAATAATTATTATTCAATAAAA
1 AATTATACATAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATAAAA
*
6040474 TTTAATAATAATCTATAATTTCATAA
66 TTTAATAATAATATATAATTT-ATAA
* ** *
6040500 AATTCTTGATAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAA
1 AATTATACATAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATAAAA
*
6040565 TTTAATAATGATATATAATTTATA
66 TTTAATAATAATATATAATTTATA
6040589 CGTTTAACCA
Statistics
Matches: 79, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
90 3 0.04
91 76 0.96
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.46
Consensus pattern (90 bp):
AATTATACATAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATAAAA
TTTAATAATAATATATAATTTATAA
Found at i:6040502 original size:28 final size:26
Alignment explanation
Indices: 6040446--6040503 Score: 73
Period size: 28 Copynumber: 2.2 Consensus size: 26
6040436 GAATTTGTAT
*
6040446 AATTTAAAATAATTATTATTCAATAA
1 AATTTAAAATAATTATAATTCAATAA
6040472 AATTTAATAATAATCTATAATTTC-ATAA
1 AATTTAA-AATAAT-TATAA-TTCAATAA
6040500 AATT
1 AATT
6040504 CTTGATAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
26 7 0.25
27 6 0.21
28 12 0.43
29 3 0.11
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (26 bp):
AATTTAAAATAATTATAATTCAATAA
Found at i:6040580 original size:44 final size:43
Alignment explanation
Indices: 6040443--6040586 Score: 112
Period size: 44 Copynumber: 3.2 Consensus size: 43
6040433 TATGAATTTG
* * * *
6040443 TATAATTTAAAATAATTATTATTCAATAAAATTTAATAATAATC
1 TATAATTTAAAATAATTAATATTAAATATAATTTAATAAT-ATA
** * * * *
6040487 TATAATTTCATAAAATTCTTGATAATAAAT-T-TTCTTATATGAATTTA
1 TATAA-TT--TAAAATAATTAATATTAAATATAAT-TTA-AT-AATATA
6040534 TATAATTTAAAATAATTAATATTAAATATAATTTAATAATGATA
1 TATAATTTAAAATAATTAATATTAAATATAATTTAATAAT-ATA
6040578 TATAATTTA
1 TATAATTTA
6040587 TACGTTTAAC
Statistics
Matches: 75, Mismatches: 16, Indels: 18
0.69 0.15 0.17
Matches are distributed among these distances:
43 3 0.04
44 34 0.45
45 7 0.09
46 6 0.08
47 22 0.29
48 3 0.04
ACGTcount: A:0.49, C:0.03, G:0.02, T:0.46
Consensus pattern (43 bp):
TATAATTTAAAATAATTAATATTAAATATAATTTAATAATATA
Found at i:6042680 original size:30 final size:30
Alignment explanation
Indices: 6042646--6042706 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
6042636 CCATTGCTGT
* * *
6042646 TGATGTTGTTGCTGTTGCAAATGATGATGA
1 TGATGTTGCTGCTGTTGAAAATCATGATGA
*
6042676 TGATGTTGCTGTTGTTGAAAATCATGATGA
1 TGATGTTGCTGCTGTTGAAAATCATGATGA
6042706 T
1 T
6042707 TCTGCACCAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.25, C:0.07, G:0.28, T:0.41
Consensus pattern (30 bp):
TGATGTTGCTGCTGTTGAAAATCATGATGA
Found at i:6043532 original size:16 final size:16
Alignment explanation
Indices: 6043507--6043540 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
6043497 GGGAAAAATC
*
6043507 AAGAAGAAGAAGGAAA
1 AAGAAAAAGAAGGAAA
*
6043523 AAGAAAAAGATGGAAA
1 AAGAAAAAGAAGGAAA
6043539 AA
1 AA
6043541 CTCACAGAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.71, C:0.00, G:0.26, T:0.03
Consensus pattern (16 bp):
AAGAAAAAGAAGGAAA
Found at i:6054119 original size:23 final size:23
Alignment explanation
Indices: 6054093--6054148 Score: 76
Period size: 23 Copynumber: 2.4 Consensus size: 23
6054083 AAAAACATAT
**
6054093 TAAATAATATATAGGAAATTAAA
1 TAAATAATATATAAAAAATTAAA
6054116 TAAATAATATATAAAAAATTAAA
1 TAAATAATATATAAAAAATTAAA
*
6054139 AAAAGTAATA
1 TAAA-TAATA
6054149 ATGCATGGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
23 24 0.83
24 5 0.17
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (23 bp):
TAAATAATATATAAAAAATTAAA
Found at i:6054380 original size:11 final size:10
Alignment explanation
Indices: 6054360--6054385 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
6054350 AACAGAATTG
6054360 AAAGAAAAAA
1 AAAGAAAAAA
6054370 AAAGAAAAAA
1 AAAGAAAAAA
6054380 AAAGAA
1 AAAGAA
6054386 GTAAAGGGGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (10 bp):
AAAGAAAAAA
Found at i:6055889 original size:45 final size:44
Alignment explanation
Indices: 6055828--6056033 Score: 138
Period size: 44 Copynumber: 4.7 Consensus size: 44
6055818 ACTTGTTATG
* *
6055828 GTCTGCTCTACTGCAACTTCAGAAAGATAAGACCCGCTATCTTCA
1 GTCTGCTCCACTGCAACTTCAGAGAGATAAGA-CCGCTATCTTCA
* * * * *
6055873 GTCTGCTCCACTGCAACTTTAGGGAGATAAGACTGGTGTCTTCA
1 GTCTGCTCCACTGCAACTTCAGAGAGATAAGACCGCTATCTTCA
* ** * **** *
6055917 ATCCACTCCACTGCAACTTCAGAGAGATAGGATTATTGTCTAT-A
1 GTCTGCTCCACTGCAACTTCAGAGAGATAAGACCGCTATCT-TCA
* * *
6055961 ATCTGCTCCTCTGCAACTTCAGGGAGATAAGA----T-T-TTCCA
1 GTCTGCTCCACTGCAACTTCAGAGAGATAAGACCGCTATCTT-CA
*
6056000 TGATCTGCTCTACTGCAACTTCAGAGAGATAAGA
1 -G-TCTGCTCCACTGCAACTTCAGAGAGATAAGA
6056034 TTTGTGATTT
Statistics
Matches: 131, Mismatches: 25, Indels: 14
0.77 0.15 0.08
Matches are distributed among these distances:
37 1 0.01
38 1 0.01
39 2 0.02
40 1 0.01
41 28 0.21
44 69 0.53
45 29 0.22
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (44 bp):
GTCTGCTCCACTGCAACTTCAGAGAGATAAGACCGCTATCTTCA
Found at i:6056191 original size:223 final size:224
Alignment explanation
Indices: 6055831--6056349 Score: 713
Period size: 223 Copynumber: 2.3 Consensus size: 224
6055821 TGTTATGGTC
* * ** *
6055831 TGCTCTACTGCAACTTCA-GAAAGATAAGACCCGCTATCTTCAGTCTGCTCCACTGCAACTTTAG
1 TGCTCCACTGCAACTTCAGGGAA-ATAAGATTCGCTATCTTCAGTCTGCTCCACTGCAACTTCAG
* * *
6055895 GGAGATAAGACTGGTGTCTTCAATCCACTCCACTGCAACTTCAGAGAGATAGGATTATTGTCTAT
65 GGAGATAAAACT-GTATCTTCAATCCACTCCACTGCAACTTCAGAGAGATAGGATTATTGGCTAT
* * * *
6055960 AATCTGCTCCTCTGCAACTTCAGGGAGATAAGATTTTCCATGATCTGCTCTACTGCAACTTCAGA
129 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATGATCTACTCTACTACAACTTCAGA
* * *
6056025 GAGATAAGATTTGTGATTTATAGCTTTAATC
194 GAGATAAGATCTGTAATTTATAGCTTTAATA
* * * *
6056056 TGTTTCACTGCAGCTTCAGGGAAATAAGATTCGCTATCATT-AGTCTGCTCCACTGCAACTTCAA
1 TGCTCCACTGCAACTTCAGGGAAATAAGATTCGCTATC-TTCAGTCTGCTCCACTGCAACTTCAG
* * * * *
6056120 GGAGATAAAACT-TCAT-TTCAATCCGCTCTACTGCAACTTTAGGGAGATAGGATTATTGGCTTT
65 GGAGATAAAACTGT-ATCTTCAATCCACTCCACTGCAACTTCAGAGAGATAGGATTATTGGCTAT
* *
6056183 ATTCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATGATGTACTCTACTACAACTTCAGA
129 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATGATCTACTCTACTACAACTTCAGA
6056248 GAGATAAGATCTGTAATTTATAGCTTTAATA
194 GAGATAAGATCTGTAATTTATAGCTTTAATA
* **
6056279 TGCTCCACTGCAACTTTAGGGAAATAAGATTCATTATCTTCAGTCTGCTCCACTGCAACTTCAGG
1 TGCTCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAGTCTGCTCCACTGCAACTTCAGG
6056344 GAGATA
66 GAGATA
6056350 CAATTATTAG
Statistics
Matches: 257, Mismatches: 33, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
222 2 0.01
223 190 0.74
224 1 0.00
225 59 0.23
226 5 0.02
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (224 bp):
TGCTCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAGTCTGCTCCACTGCAACTTCAGG
GAGATAAAACTGTATCTTCAATCCACTCCACTGCAACTTCAGAGAGATAGGATTATTGGCTATAA
TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATGATCTACTCTACTACAACTTCAGAGA
GATAAGATCTGTAATTTATAGCTTTAATA
Found at i:6056200 original size:44 final size:44
Alignment explanation
Indices: 6055874--6056398 Score: 318
Period size: 44 Copynumber: 11.8 Consensus size: 44
6055864 CTATCTTCAG
* * ** *
6055874 TCTGCTCCACTGCAACTTTAGGGAGATAAGACTGGT-GTCTTCAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTATTAG-CTTTAA
** * * *
6055918 TCCACTCCACTGCAACTTCAGAGAGATAGGATTATT-GTCTATAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTATTAG-CTTTAA
* ** *
6055962 TCTGCTCCTCTGCAACTTCAGGGAGATAAGATT-TT--CCATGA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTATTAGCTTTAA
* *
6056003 TCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGTGATTTATAGCTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGA--T-T-A--T-TAGCTTTAA
* * * * ** * * *
6056054 TCTGTTTCACTGCAGCTTCAGGGAAATAAGATTCGCTATCATTAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATT-ATTAGCTTTAA
* * * *
6056099 TCTGCTCCACTGCAACTTCAAGGAGATAAAACT-TCA--TTTCAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTATTAGCTTT-AA
* * * * * *
6056141 TCCGCTCTACTGCAACTTTAGGGAGATAGGATTATTGGCTTTAT
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTATTAGCTTTAA
** *
6056185 TCTGCTCCACTGCAACTTCAGGGAGATAAGA-T-TT-GCCATGA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTATTAGCTTTAA
* * * * *
6056226 TGTACTCTACTACAACTTCAGAGAGATAAGATCTGTAATTTATAGCTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGA--T-T-A--T-TAGCTTTAA
* * * * * *
6056277 TATGCTCCACTGCAACTTTAGGGAAATAAGATTCATTATCTTCAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATT-ATTAGCTTTAA
*
6056322 TCTGCTCCACTGCAACTTCAGGGAGATACA-ATTATTAGCTGTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATA-AGATTATTAGCTTTAA
* *
6056366 TCTGCTCGACTGCAACTTCCGGGAGATAAGATT
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATT
6056399 TGTCATGATC
Statistics
Matches: 363, Mismatches: 92, Indels: 52
0.72 0.18 0.10
Matches are distributed among these distances:
41 63 0.17
42 29 0.08
43 7 0.02
44 127 0.35
45 70 0.19
46 2 0.01
48 4 0.01
49 4 0.01
50 1 0.00
51 56 0.15
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (44 bp):
TCTGCTCCACTGCAACTTCAGGGAGATAAGATTATTAGCTTTAA
Found at i:6056380 original size:181 final size:181
Alignment explanation
Indices: 6056144--6056497 Score: 487
Period size: 181 Copynumber: 2.0 Consensus size: 181
6056134 ATTTCAATCC
* * ** * * *
6056144 GCTCTACTGCAACTTTAGGGAGATAGGATTATTGGCTTTATTCTGCTCCACTGCAACTTCAGGGA
1 GCTCCACTGCAACTTCAGGGAGATACAATTATTAGCTGTAATCTGCTCCACTGCAACTTCAGGGA
* *
6056209 GATAAGATTTGCCATGATGTACTCTACTACAACTTCAGA-GAGATAAGATCTGTAATTTATAGCT
66 GATAAGATTTGCCATGATCTACTCTACTACAACTTCAGATG-GATAAGACCTGTAATTTATAGCT
*
6056273 TTAATATGCTCC-ACTGCAACTTTAGGGAAATAAGATTCATTATCTTCAGTCT
130 TTAATATGCTCCAAC-GCAACTTCAGGGAAATAAGATTCATTATCTTCAGTCT
* *
6056325 GCTCCACTGCAACTTCAGGGAGATACAATTATTAGCTGTAATCTGCTCGACTGCAACTTCCGGGA
1 GCTCCACTGCAACTTCAGGGAGATACAATTATTAGCTGTAATCTGCTCCACTGCAACTTCAGGGA
* * * * *
6056390 GATAAGATTTGTCATGATCTGCTTTACTGCAACTTCAGATGGATAAGACCTGTGATTTATAGCTT
66 GATAAGATTTGCCATGATCTACTCTACTACAACTTCAGATGGATAAGACCTGTAATTTATAGCTT
* * * *
6056455 TAATCTGTTCCAACGCAGCTTCAGGGAAATAAGATTCGTTATC
131 TAATATGCTCCAACGCAACTTCAGGGAAATAAGATTCATTATC
6056498 ATTAGGTGCA
Statistics
Matches: 150, Mismatches: 21, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
181 147 0.98
182 3 0.02
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (181 bp):
GCTCCACTGCAACTTCAGGGAGATACAATTATTAGCTGTAATCTGCTCCACTGCAACTTCAGGGA
GATAAGATTTGCCATGATCTACTCTACTACAACTTCAGATGGATAAGACCTGTAATTTATAGCTT
TAATATGCTCCAACGCAACTTCAGGGAAATAAGATTCATTATCTTCAGTCT
Found at i:6056568 original size:22 final size:22
Alignment explanation
Indices: 6056540--6056692 Score: 225
Period size: 22 Copynumber: 7.0 Consensus size: 22
6056530 TGTTGATAGT
*
6056540 ACGTACTAAGCTCTCATGTTTC
1 ACGTACTAAGCTCTCATGTTTA
6056562 ACGTACTAAGCTCTCATGTTTA
1 ACGTACTAAGCTCTCATGTTTA
6056584 ACGTACTAAGCTCTCATGTTTA
1 ACGTACTAAGCTCTCATGTTTA
* * * **
6056606 ACGAACTAAACCCTCATGGCTA
1 ACGTACTAAGCTCTCATGTTTA
**
6056628 ACGTACTAAGCTCTCATGGCTA
1 ACGTACTAAGCTCTCATGTTTA
*
6056650 ACGTACTAAGCTCTCATGTTTC
1 ACGTACTAAGCTCTCATGTTTA
6056672 ACGTACTAAGCTCTCATGTTT
1 ACGTACTAAGCTCTCATGTTT
6056693 GAACAATAAA
Statistics
Matches: 119, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 119 1.00
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.33
Consensus pattern (22 bp):
ACGTACTAAGCTCTCATGTTTA
Found at i:6057002 original size:44 final size:44
Alignment explanation
Indices: 6056953--6057247 Score: 258
Period size: 44 Copynumber: 6.7 Consensus size: 44
6056943 TTCTTTAGTT
* *
6056953 TGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAAATTTAATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGAATTGTAACTTTAATC
* * *
6056997 TGCTCCACTGCAACTTCAGGGAGATAGGATTATTG--GCTTTAATT
1 TGCTCCACTGCAACTTCAGGGAGATAAGA--ATTGTAACTTTAATC
* * * * * *
6057041 TGCTTCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTC
1 TGCTCCACTGCAACTTCAGGGAGATAAGAATTG-TAACTTTAATC
* * * ** * *
6057086 TGCCCCACTGTAACTTCAGGGGGATAA-AACTTGCTTTCTTCAGTC
1 TGCTCCACTGCAACTTCAGGGAGATAAGAA-TTG-TAACTTTAATC
* * *
6057131 TGCTCCACTACAACTTCAGAGAAATAAGAATTGTAACTTTAATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGAATTGTAACTTTAATC
** *
6057175 CACTCCACTGCAACTTCAGGGAGATAGGATTATTGT--CTTTAATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGA--ATTGTAACTTTAATC
* *
6057219 TGCTCCACTACAACTTTAGGGAGATAAGA
1 TGCTCCACTGCAACTTCAGGGAGATAAGA
6057248 TTTACCATCT
Statistics
Matches: 202, Mismatches: 40, Indels: 18
0.78 0.15 0.07
Matches are distributed among these distances:
42 3 0.01
44 124 0.61
45 65 0.32
46 10 0.05
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.31
Consensus pattern (44 bp):
TGCTCCACTGCAACTTCAGGGAGATAAGAATTGTAACTTTAATC
Found at i:6057232 original size:88 final size:88
Alignment explanation
Indices: 6056944--6057247 Score: 331
Period size: 88 Copynumber: 3.4 Consensus size: 88
6056934 NGACTTGCTT
* * * * *
6056944 TCTTTAGTTTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAAATTTAATCTGCTCCACTGCA
1 TCTTTAATCTGCTCCACTACAACTTCAGGGAGATAAGAATTGTAACTTTAATCTGCTCCACTGCA
6057009 ACTTCAGGGAGATAGGATTATTG
66 ACTTCAGGGAGATAGGATTATTG
* * * * * * * * * * *
6057032 GCTTTAATTTGCTTCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCCCACTGT
1 TCTTTAATCTGCTCCACTACAACTTCAGGGAGATAAGAATTG-TAACTTTAATCTGCTCCACTGC
* ** *
6057097 AACTTCAGGGGGATAAAACTTGCTT-
65 AACTTCAGGGAGATAGGA-TT-ATTG
* * * * **
6057122 TCTTCAGTCTGCTCCACTACAACTTCAGAGAAATAAGAATTGTAACTTTAATCCACTCCACTGCA
1 TCTTTAATCTGCTCCACTACAACTTCAGGGAGATAAGAATTGTAACTTTAATCTGCTCCACTGCA
6057187 ACTTCAGGGAGATAGGATTATTG
66 ACTTCAGGGAGATAGGATTATTG
*
6057210 TCTTTAATCTGCTCCACTACAACTTTAGGGAGATAAGA
1 TCTTTAATCTGCTCCACTACAACTTCAGGGAGATAAGA
6057248 TTTACCATCT
Statistics
Matches: 171, Mismatches: 41, Indels: 8
0.78 0.19 0.04
Matches are distributed among these distances:
87 2 0.01
88 73 0.43
89 59 0.35
90 35 0.20
91 2 0.01
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (88 bp):
TCTTTAATCTGCTCCACTACAACTTCAGGGAGATAAGAATTGTAACTTTAATCTGCTCCACTGCA
ACTTCAGGGAGATAGGATTATTG
Found at i:6057242 original size:178 final size:178
Alignment explanation
Indices: 6056936--6057259 Score: 513
Period size: 178 Copynumber: 1.8 Consensus size: 178
6056926 NNNNNNNNNG
* * * * * * **
6056936 ACTTGCTTTCTTTAGTTTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAAATTTAATCTGCT
1 ACTTGCTTTCTTCAGTCTGCTCCACTACAACTTCAGAGAAATAAGAATTGTAAATTTAATCCACT
* * *
6057001 CCACTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATTTGCTTCACTGCAACTTCAGGGAGAT
66 CCACTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACTACAACTTCAGGGAGAT
*
6057066 AAGATTTGCCATCTTCAGTCTGCCCCACTGTAACTTCAGGGGGATAAA
131 AAGATTTACCATCTTCAGTCTGCCCCACTGTAACTTCAGGGGGATAAA
*
6057114 ACTTGCTTTCTTCAGTCTGCTCCACTACAACTTCAGAGAAATAAGAATTGTAACTTTAATCCACT
1 ACTTGCTTTCTTCAGTCTGCTCCACTACAACTTCAGAGAAATAAGAATTGTAAATTTAATCCACT
* *
6057179 CCACTGCAACTTCAGGGAGATAGGATTATTGTCTTTAATCTGCTCCACTACAACTTTAGGGAGAT
66 CCACTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACTACAACTTCAGGGAGAT
6057244 AAGATTTACCATCTTC
131 AAGATTTACCATCTTC
6057260 TTTGATTCAT
Statistics
Matches: 131, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
178 131 1.00
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.33
Consensus pattern (178 bp):
ACTTGCTTTCTTCAGTCTGCTCCACTACAACTTCAGAGAAATAAGAATTGTAAATTTAATCCACT
CCACTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACTACAACTTCAGGGAGAT
AAGATTTACCATCTTCAGTCTGCCCCACTGTAACTTCAGGGGGATAAA
Found at i:6058565 original size:57 final size:51
Alignment explanation
Indices: 6058470--6058604 Score: 164
Period size: 50 Copynumber: 2.5 Consensus size: 51
6058460 TGGTCTTAAG
* *
6058470 GCGCCTTTTGCGGGTTTTCACCTTGGCCTCTCCATTTTTTTTGTTTTAGGACTCAAA
1 GCGCCCTTTGCGGGTTTTCACCTTGGTC-CTCC----TTTTT-TTTTAGGACTCAAA
* *
6058527 GCGCCCTTTGCTGGTTTTCACCTTGGTCGT-CTTTTTTTTTAGGACTCAAA
1 GCGCCCTTTGCGGGTTTTCACCTTGGTCCTCCTTTTTTTTTAGGACTCAAA
*
6058577 GTGCCCTTTGCGGGTTTTCACCTTGGTC
1 GCGCCCTTTGCGGGTTTTCACCTTGGTC
6058605 AATTCTCCTT
Statistics
Matches: 72, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
50 40 0.56
51 5 0.07
55 1 0.01
56 1 0.01
57 25 0.35
ACGTcount: A:0.10, C:0.25, G:0.21, T:0.43
Consensus pattern (51 bp):
GCGCCCTTTGCGGGTTTTCACCTTGGTCCTCCTTTTTTTTTAGGACTCAAA
Found at i:6058583 original size:50 final size:51
Alignment explanation
Indices: 6058507--6058604 Score: 171
Period size: 50 Copynumber: 1.9 Consensus size: 51
6058497 CTCTCCATTT
*
6058507 TTTTTGTTTTAGGACTCAAAGCGCCCTTTGCTGGTTTTCACCTTGGTCGTC
1 TTTTTGTTTTAGGACTCAAAGCGCCCTTTGCGGGTTTTCACCTTGGTCGTC
*
6058558 TTTTT-TTTTAGGACTCAAAGTGCCCTTTGCGGGTTTTCACCTTGGTC
1 TTTTTGTTTTAGGACTCAAAGCGCCCTTTGCGGGTTTTCACCTTGGTC
6058605 AATTCTCCTT
Statistics
Matches: 45, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
50 40 0.89
51 5 0.11
ACGTcount: A:0.12, C:0.22, G:0.21, T:0.44
Consensus pattern (51 bp):
TTTTTGTTTTAGGACTCAAAGCGCCCTTTGCGGGTTTTCACCTTGGTCGTC
Found at i:6059560 original size:12 final size:11
Alignment explanation
Indices: 6059541--6059573 Score: 50
Period size: 12 Copynumber: 3.0 Consensus size: 11
6059531 TTTCTTTCCT
6059541 TTTCTTTTTTC
1 TTTCTTTTTTC
6059552 TTCTCTTTTTTC
1 TT-TCTTTTTTC
6059564 TTT-TTTTTTC
1 TTTCTTTTTTC
6059574 ATCATTATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 7 0.33
11 3 0.14
12 11 0.52
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (11 bp):
TTTCTTTTTTC
Found at i:6059638 original size:31 final size:30
Alignment explanation
Indices: 6059583--6059650 Score: 111
Period size: 31 Copynumber: 2.2 Consensus size: 30
6059573 CATCATTATC
6059583 ATTTTTTCATTTTATTATTATTTTTGAAAT
1 ATTTTTTCATTTTATTATTATTTTTGAAAT
6059613 ATTTTTTCA-TTTATTATTATTTTTTTGAAAT
1 ATTTTTTCATTTTATTATTA--TTTTTGAAAT
6059644 ATTTTTT
1 ATTTTTT
6059651 GATTGGATCT
Statistics
Matches: 36, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
29 10 0.28
30 9 0.25
31 17 0.47
ACGTcount: A:0.25, C:0.03, G:0.03, T:0.69
Consensus pattern (30 bp):
ATTTTTTCATTTTATTATTATTTTTGAAAT
Found at i:6063571 original size:4 final size:4
Alignment explanation
Indices: 6063562--6063592 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
6063552 AACAATATAT
6063562 TATG TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TAT
6063593 AGTGAAAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.52
Consensus pattern (4 bp):
TATG
Found at i:6063812 original size:23 final size:21
Alignment explanation
Indices: 6063761--6063816 Score: 58
Period size: 23 Copynumber: 2.5 Consensus size: 21
6063751 TTACATGAAA
*
6063761 AACATATTAAATAATATATAT
1 AACAAATTAAATAATATATAT
**
6063782 ATGGAAATTAAATTAATAATATAT
1 A-ACAAATTAAA-TAAT-ATATAT
6063806 AACAAATTAAA
1 AACAAATTAAA
6063817 AAAAGGAATA
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
21 1 0.04
22 7 0.26
23 12 0.44
24 7 0.26
ACGTcount: A:0.59, C:0.04, G:0.04, T:0.34
Consensus pattern (21 bp):
AACAAATTAAATAATATATAT
Found at i:6070531 original size:28 final size:28
Alignment explanation
Indices: 6070499--6070580 Score: 128
Period size: 28 Copynumber: 2.9 Consensus size: 28
6070489 GAAGGGACTT
6070499 TAAGTGTAGACTTCACAAATGTGTTTTC
1 TAAGTGTAGACTTCACAAATGTGTTTTC
* * *
6070527 TAAGTGTAGAGTTCACAGATGTATTTTC
1 TAAGTGTAGACTTCACAAATGTGTTTTC
*
6070555 TAAGTGTAGACTTCACAAATATGTTT
1 TAAGTGTAGACTTCACAAATGTGTTT
6070581 GATTTAAGTT
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 47 1.00
ACGTcount: A:0.30, C:0.12, G:0.18, T:0.39
Consensus pattern (28 bp):
TAAGTGTAGACTTCACAAATGTGTTTTC
Found at i:6074668 original size:44 final size:44
Alignment explanation
Indices: 6074620--6074962 Score: 234
Period size: 44 Copynumber: 7.8 Consensus size: 44
6074610 GGATTATCGA
* *
6074620 CTTCAATCTGCTCCACTGCAACCTCAAGGAGATAAGATTTGCTT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTT
* * ** * *
6074664 CTTCAGTCTGCCCCACTGTGACTTCAGGGGGATAAGACTTG-TT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTT
* * ** ** * *
6074707 TTCTCAATCTGCTCCACTGCAACCTCAATGAGATAAGACCTGATG
1 CT-TCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTT
* * ** * *
6074752 CGATCCA-CT-CT--ACTGCAACTTCAGATAGATAAGATAT-ATT
1 C-TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTT
* * * **
6074792 ACTTTAATCTGCTCCACTACAACTTCAGGGAGATAGGATTAT-CGG
1 -CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT-TGCTT
* * *
6074837 CTTCAATCTGCTCCATTGTAACTTCAGGGAGATAAGATTTGTCAT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG-CTT
* * * * **
6074882 CTTCGATCTGC-CACACTGTAACTTTAGGGGGATAAGACCTGCTT
1 CTTCAATCTGCTC-CACTGCAACTTCAGGGAGATAAGATTTGCTT
* *
6074926 CCTCAATCTGCTCCGCTGCAACTTCAGGGAGATAAGA
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
6074963 CCTGATGCGA
Statistics
Matches: 226, Mismatches: 60, Indels: 26
0.72 0.19 0.08
Matches are distributed among these distances:
40 4 0.02
41 23 0.10
42 2 0.01
43 6 0.03
44 151 0.67
45 40 0.18
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (44 bp):
CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTT
Found at i:6074993 original size:218 final size:217
Alignment explanation
Indices: 6074550--6075066 Score: 748
Period size: 218 Copynumber: 2.4 Consensus size: 217
6074540 TGCTCTATTG
* * * * *
6074550 CAACTTTAGAGAGATAAGATCTATTACTTTAATCCGCTCCATTATAACCTAAGGGAGATAGGATT
1 CAACTTCAGAGAGATAAGATCTATTACTTTAATCTGCTCCACTATAACTTCAGGGAGATAGGATT
* * *
6074615 ATCGACTTCAATCTGCTCCACTGCAACCTCAAGGAGATAAGATTTGCTTCTTCAGTCTGCCCCAC
66 ATCGGCTTCAATCTGCTCCACTGCAACCTCAAGGAGATAAGATTTGCATCTTCAGTCTGCCACAC
* * * * *
6074680 TGTGACTTCAGGGGGATAAGACTTGTTTTCTCAATCTGCTCCACTGCAACCTCAATGAGATAAGA
131 TGTAACTTCAGGGGGATAAGACCTGCTTCCTCAATCTGCTCCACTGCAACCTCAAGGAGATAAGA
*
6074745 CCTGATGCGATCCACTCTACTG
196 CCTGATGCGATCCACTCTACTA
* * *
6074767 CAACTTCAGATAGATAAGATATATTACTTTAATCTGCTCCACTACAACTTCAGGGAGATAGGATT
1 CAACTTCAGAGAGATAAGATCTATTACTTTAATCTGCTCCACTATAACTTCAGGGAGATAGGATT
* * * *
6074832 ATCGGCTTCAATCTGCTCCATTGTAACTTCAGGGAGATAAGATTTGTCATCTTC-GATCTGCCAC
66 ATCGGCTTCAATCTGCTCCACTGCAACCTCAAGGAGATAAGATTTG-CATCTTCAG-TCTGCCAC
* * * *
6074896 ACTGTAACTTTAGGGGGATAAGACCTGCTTCCTCAATCTGCTCCGCTGCAACTTCAGGGAGATAA
129 ACTGTAACTTCAGGGGGATAAGACCTGCTTCCTCAATCTGCTCCACTGCAACCTCAAGGAGATAA
*
6074961 GACCTGATGCGATCCACTCTGCTA
194 GACCTGATGCGATCCACTCTACTA
* *
6074985 CAACTTCAGAGAGATAAGATCTATTACTTTAATTTGCTTCACTATAACTTCAGGGAGATAGGATT
1 CAACTTCAGAGAGATAAGATCTATTACTTTAATCTGCTCCACTATAACTTCAGGGAGATAGGATT
*
6075050 ATCAGCTTCAATCTGCT
66 ATCGGCTTCAATCTGCT
6075067 TCCTTACACT
Statistics
Matches: 266, Mismatches: 32, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
217 99 0.37
218 167 0.63
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.30
Consensus pattern (217 bp):
CAACTTCAGAGAGATAAGATCTATTACTTTAATCTGCTCCACTATAACTTCAGGGAGATAGGATT
ATCGGCTTCAATCTGCTCCACTGCAACCTCAAGGAGATAAGATTTGCATCTTCAGTCTGCCACAC
TGTAACTTCAGGGGGATAAGACCTGCTTCCTCAATCTGCTCCACTGCAACCTCAAGGAGATAAGA
CCTGATGCGATCCACTCTACTA
Found at i:6075068 original size:44 final size:45
Alignment explanation
Indices: 6074601--6075066 Score: 181
Period size: 44 Copynumber: 10.7 Consensus size: 45
6074591 TTATAACCTA
* * *
6074601 AGGGAGATAGGA-TTATC-GACTTCAATCTGCTCCACTGCAACCTC
1 AGGGAGATAAGACTTATCAG-CTTCAATCTGCTCCACTGTAACTTC
* ** * * *
6074645 AAGGAGATAAGA-TT-TGCTTCTTCAGTCTGCCCCACTGTGACTTC
1 AGGGAGATAAGACTTAT-CAGCTTCAATCTGCTCCACTGTAACTTC
* * *** * *
6074689 AGGGGGATAAGACTTGTTTTC-TCAATCTGCTCCACTGCAACCTC
1 AGGGAGATAAGACTTATCAGCTTCAATCTGCTCCACTGTAACTTC
** * * * *
6074733 AATGAGATAAGACCTGAT--GCGATCCA-CT-CT--ACTGCAACTTC
1 AGGGAGATAAGA-CTTATCAGC-TTCAATCTGCTCCACTGTAACTTC
** * * **
6074774 AGATAGATAAGA-TATATTA-CTTTAATCTGCTCCACTACAACTTC
1 AGGGAGATAAGACT-TATCAGCTTCAATCTGCTCCACTGTAACTTC
* * *
6074818 AGGGAGATAGGA-TTATCGGCTTCAATCTGCTCCATTGTAACTTC
1 AGGGAGATAAGACTTATCAGCTTCAATCTGCTCCACTGTAACTTC
* * * * *
6074862 AGGGAGATAAGATTTGTCATCTTCGATCTGC-CACACTGTAACTTT
1 AGGGAGATAAGACTTATCAGCTTCAATCTGCTC-CACTGTAACTTC
* * * ** * * *
6074907 AGGGGGATAAGACCT-GCTTCCTCAATCTGCTCCGCTGCAACTTC
1 AGGGAGATAAGACTTATCAGCTTCAATCTGCTCCACTGTAACTTC
* * * *
6074951 AGGGAGATAAGACCTGATGC-GATCCACTCTGCT--AC---AACTTC
1 AGGGAGATAAGA-CTTAT-CAGCTTCAATCTGCTCCACTGTAACTTC
* * * * * *
6074992 AGAGAGATAAGA-TCTATTA-CTTTAATTTGCTTCACTATAACTTC
1 AGGGAGATAAGACT-TATCAGCTTCAATCTGCTCCACTGTAACTTC
*
6075036 AGGGAGATAGGA-TTATCAGCTTCAATCTGCT
1 AGGGAGATAAGACTTATCAGCTTCAATCTGCT
6075067 TCCTTACACT
Statistics
Matches: 312, Mismatches: 81, Indels: 58
0.69 0.18 0.13
Matches are distributed among these distances:
39 9 0.03
40 6 0.02
41 41 0.13
42 2 0.01
43 11 0.04
44 184 0.59
45 49 0.16
46 9 0.03
47 1 0.00
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.30
Consensus pattern (45 bp):
AGGGAGATAAGACTTATCAGCTTCAATCTGCTCCACTGTAACTTC
Found at i:6075194 original size:128 final size:127
Alignment explanation
Indices: 6075054--6075697 Score: 674
Period size: 128 Copynumber: 5.0 Consensus size: 127
6075044 AGGATTATCA
* ** *
6075054 GCTTCAATCTGCTTCCTTACACTTGAAGATAAGATTCACCGTCTTCGATCTACTCCGCTACTGCT
1 GCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTTGCCGTCTTCGATCTGCTCCGCTACTGCT
* * * *
6075119 GAGGGAGACAATATCTGTAATTTCCAACCTATTCCACTGCTGGC-CAGGGATATAGGACTT-GTG
66 TAGGGAGACAAGATCTATAATTT-CAACCTACTCCACTGCT-GCTCAGGGATATAGG-CTTGGTG
* * *
6075182 GCTTAAATCTGCTTCCTTACTCTTGAAGATAAGATTTGTCGTCTTTGATCTGCTCCGCTACTGCT
1 GCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTTGCCGTCTTCGATCTGCTCCGCTACTGCT
* * * *
6075247 TAGGGAGACAAGATCTATAATTTCCAACCTATTCCACTGCTGAC-CAAGGACATAGGACAT-GTG
66 TAGGGAGACAAGATCTATAATTT-CAACCTACTCCACTGCTG-CTCAGGGATATAGG-CTTGGTG
* * * *
6075310 GCTTAAATCTACTTCCTTACACTTGATGATAAGATTCGCCATCTTCGATCTGCTCCGCTACTGCT
1 GCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTTGCCGTCTTCGATCTGCTCCGCTACTGCT
* *
6075375 TAGGGAGACAA-ATTCTGTAATTTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGCTTGGTG
66 TAGGGAGACAAGA-TCTATAA-TTTCAACCTACTCCACTGCTGCTCAGGGATAT-AGGCTTGGTG
* * * * * * *
6075439 GCATAAACCTGCTTCC-CACTATCTTGGAAATATAAGATTTTCCGTCCTCGATCTGCTCCACTAC
1 GCTTAAATCTGCTTCCTTAC-A-CTT-G-AAGATAAGATTTGCCGTCTTCGATCTGCTCCGCTAC
* * *
6075503 TACTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAAGGAGATA-AGGCTT
62 TGCTTAGGGAGACAAGATCTATAAT-TTCAACCTACTCCACTGCTGCTC-AGG-GATATAGGCTT
6075567 GGTG
124 GGTG
* * * * * *
6075571 GCATAAATCTGCTTCC-CACTATCTTGGAAAGATAAGATTTTCCGTCCTCGATCTGCTCCACCAC
1 GCTTAAATCTGCTTCCTTAC-A-CTT-G-AAGATAAGATTTGCCGTCTTCGATCTGCTCCGCTAC
* * *
6075635 TGCTTAGGGAGATAAGATCTACAATATTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGCT
62 TGCTTAGGGAGACAAGATCTATAAT-TTCAACCTACTCCACTGCTGCTCAGGGATAT-AGGCT
6075698 AGCAATTTCA
Statistics
Matches: 453, Mismatches: 47, Indels: 28
0.86 0.09 0.05
Matches are distributed among these distances:
127 3 0.01
128 216 0.48
129 23 0.05
130 6 0.01
131 5 0.01
132 193 0.43
133 4 0.01
134 3 0.01
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (127 bp):
GCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTTGCCGTCTTCGATCTGCTCCGCTACTGCT
TAGGGAGACAAGATCTATAATTTCAACCTACTCCACTGCTGCTCAGGGATATAGGCTTGGTG
Found at i:6075513 original size:132 final size:129
Alignment explanation
Indices: 6075059--6075697 Score: 690
Period size: 132 Copynumber: 4.9 Consensus size: 129
6075049 TATCAGCTTC
* ** * *
6075059 AATCTGCTTCCTTAC-A-CTTGAAGATAAGATTCACCGTCTTCGATCTACTCCGCTACTGCTGAG
1 AATCTGCTTCC-CACTATCTTGAAGATAAGATTTTCCGTCTTCGATCTGCTCCGCTACTGCTTAG
* * * * * *
6075122 GGAGACAATATCTGTAATTTCCAACCTATTCCACTGCTGGC-CAGGGATAT-AGGACTTGTGGCT
65 GGAGACAAGATCTATAATTTTCAACCTACTCCACTGCT-GCTCAGGGAGATAAGG-CTTGTGGCA
6075185 TA
128 TA
* *
6075187 AATCTGCTT-CC-TTACTCTTGAAGATAAGATTTGT-CGTCTTTGATCTGCTCCGCTACTGCTTA
1 AATCTGCTTCCCACTA-TCTTGAAGATAAGATTT-TCCGTCTTCGATCTGCTCCGCTACTGCTTA
* * * * *
6075249 GGGAGACAAGATCTATAATTTCCAACCTATTCCACTGCTGAC-CAAGGACAT-AGGACATGTGGC
64 GGGAGACAAGATCTATAATTTTCAACCTACTCCACTGCTG-CTCAGGGAGATAAGG-CTTGTGGC
*
6075312 TTA
127 ATA
* * * ** *
6075315 AATCTACTTCCTTAC-A-CTTGATGATAAGATTCGCCATCTTCGATCTGCTCCGCTACTGCTTAG
1 AATCTGCTTCC-CACTATCTTGAAGATAAGATTTTCCGTCTTCGATCTGCTCCGCTACTGCTTAG
*
6075378 GGAGACAA-ATTCTGTAATTTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGCTTGGTGGCA
65 GGAGACAAGA-TCTATAATTTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGCTT-GTGGCA
6075442 TA
128 TA
* * * * *
6075444 AACCTGCTTCCCACTATCTTGGAAATATAAGATTTTCCGTCCTCGATCTGCTCCACTACTACTTA
1 AATCTGCTTCCCACTATCTT-G-AAGATAAGATTTTCCGTCTTCGATCTGCTCCGCTACTGCTTA
* * * *
6075509 GGGAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAAGGAGATAAGGCTTGGTGGCA
64 GGGAGACAAGATCTATAATTTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGCTT-GTGGCA
6075574 TA
128 TA
* * *
6075576 AATCTGCTTCCCACTATCTTGGAAAGATAAGATTTTCCGTCCTCGATCTGCTCCACCACTGCTTA
1 AATCTGCTTCCCACTATCTT-G-AAGATAAGATTTTCCGTCTTCGATCTGCTCCGCTACTGCTTA
* * *
6075641 GGGAGATAAGATCTACAATATTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGCT
64 GGGAGACAAGATCTATAATTTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGCT
6075698 AGCAATTTCA
Statistics
Matches: 444, Mismatches: 49, Indels: 32
0.85 0.09 0.06
Matches are distributed among these distances:
126 1 0.00
127 4 0.01
128 202 0.45
129 21 0.05
130 4 0.01
131 1 0.00
132 210 0.47
133 1 0.00
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (129 bp):
AATCTGCTTCCCACTATCTTGAAGATAAGATTTTCCGTCTTCGATCTGCTCCGCTACTGCTTAGG
GAGACAAGATCTATAATTTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGCTTGTGGCATA
Found at i:6075518 original size:44 final size:44
Alignment explanation
Indices: 6075470--6075652 Score: 102
Period size: 44 Copynumber: 4.2 Consensus size: 44
6075460 TCTTGGAAAT
*
6075470 ATAAGATTTTCCGTCCTCGATCTGCTCCACTACTACTTAGGGAG
1 ATAAGATTTTCCGTCCTCAATCTGCTCCACTACTACTTAGGGAG
* * ** * * * * * * *
6075514 ATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAAGGAG
1 ATAAGATTTTCCGTCCTCAATCTGCTCCACTACTACTTAGGGAG
** *** * * * *
6075558 ATAAGGCTTGGTGGCATAAATCTGCTTCC-C-ACTATCTT-GGAAAG
1 ATAAGATTTTCCGTCCTCAATCTGC-TCCACTACTA-CTTAGG-GAG
* * *
6075602 ATAAGATTTTCCGTCCTCGATCTGCTCCACCACTGCTTAGGGAG
1 ATAAGATTTTCCGTCCTCAATCTGCTCCACTACTACTTAGGGAG
6075646 ATAAGAT
1 ATAAGAT
6075653 CTACAATATT
Statistics
Matches: 93, Mismatches: 40, Indels: 12
0.64 0.28 0.08
Matches are distributed among these distances:
43 6 0.06
44 79 0.85
45 8 0.09
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.29
Consensus pattern (44 bp):
ATAAGATTTTCCGTCCTCAATCTGCTCCACTACTACTTAGGGAG
Found at i:6076935 original size:15 final size:15
Alignment explanation
Indices: 6076912--6076945 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
6076902 AGCCTATCCA
6076912 TTTTAATTTTTCATT
1 TTTTAATTTTTCATT
*
6076927 TTTTCATTTTTCATT
1 TTTTAATTTTTCATT
6076942 TTTT
1 TTTT
6076946 TCTTTGACTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTTAATTTTTCATT
Found at i:6080841 original size:108 final size:106
Alignment explanation
Indices: 6080654--6080853 Score: 328
Period size: 108 Copynumber: 1.9 Consensus size: 106
6080644 CGGATTAAAA
* *
6080654 TTTAAGAGGATATTTGGCTATTTGGTTAAACGAGAAATCGAAACCCAGCACATTAGGGCACATTT
1 TTTAAAAGGATATTTAGCTATTTGGTTAAACGAGAAATCGAAACCCAGCACATTAGGGCACATTT
6080719 CCTCGAATTTCCAAACGCAAAATATTGTCCTATTTCGAAAT
66 CCTCGAATTTCCAAACGCAAAATATTGTCCTATTTCGAAAT
* * * *
6080760 TTTAAAAGGATATTTAGCTATTTGGTTGAATGAGAAAAATCGAAACTCAGCACATTAGGGCACGT
1 TTTAAAAGGATATTTAGCTATTTGGTTAAACGAG--AAATCGAAACCCAGCACATTAGGGCACAT
6080825 TTCCTCGAATTTCCAAACGCAAAATATTG
64 TTCCTCGAATTTCCAAACGCAAAATATTG
6080854 CGTTNNNNNN
Statistics
Matches: 86, Mismatches: 6, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
106 30 0.35
108 56 0.65
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.30
Consensus pattern (106 bp):
TTTAAAAGGATATTTAGCTATTTGGTTAAACGAGAAATCGAAACCCAGCACATTAGGGCACATTT
CCTCGAATTTCCAAACGCAAAATATTGTCCTATTTCGAAAT
Found at i:6081822 original size:3 final size:3
Alignment explanation
Indices: 6081802--6081932 Score: 61
Period size: 3 Copynumber: 41.3 Consensus size: 3
6081792 AAATAGAAAT
* * * * * ** *
6081802 ATA ATG ATA ATA ACA ATA ATA TTA ATA CTA ATA ATA ATA GTA AGG ATG
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
6081850 ATA TATA TATA TATA ATA ATA ATA ATA TATA TATA TATGA CA-A AT- ATAA
1 ATA -ATA -ATA -ATA ATA ATA ATA ATA -ATA -ATA -AT-A -ATA ATA AT-A
* *
6081899 ATT ATA ATA ATA ATA ATA ATGA ACA A-A ATA ATA A
1 ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA A
6081933 AATTGCTAAA
Statistics
Matches: 102, Mismatches: 18, Indels: 16
0.75 0.13 0.12
Matches are distributed among these distances:
2 5 0.05
3 70 0.69
4 25 0.25
5 2 0.02
ACGTcount: A:0.58, C:0.03, G:0.05, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:6081867 original size:30 final size:28
Alignment explanation
Indices: 6081832--6081887 Score: 76
Period size: 30 Copynumber: 1.9 Consensus size: 28
6081822 ATTAATACTA
*
6081832 ATAATAATAGTAAGGATGATATATATATAT
1 ATAATAATAATAA-GAT-ATATATATATAT
*
6081862 ATAATAATAATAATATATATATATAT
1 ATAATAATAATAAGATATATATATAT
6081888 GACAAATATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 10 0.42
29 2 0.08
30 12 0.50
ACGTcount: A:0.54, C:0.00, G:0.07, T:0.39
Consensus pattern (28 bp):
ATAATAATAATAAGATATATATATATAT
Found at i:6081879 original size:24 final size:24
Alignment explanation
Indices: 6081850--6081918 Score: 76
Period size: 24 Copynumber: 3.1 Consensus size: 24
6081840 AGTAAGGATG
6081850 ATATATATATATATAATAATAATA
1 ATATATATATATATAATAATAATA
* *
6081874 ATATATATATATATGA-CA-AAT-
1 ATATATATATATATAATAATAATA
*
6081895 ATAAAT-TATA-ATAATAATAATA
1 ATATATATATATATAATAATAATA
6081917 AT
1 AT
6081919 GAACAAAATA
Statistics
Matches: 37, Mismatches: 5, Indels: 8
0.74 0.10 0.16
Matches are distributed among these distances:
19 3 0.08
20 5 0.14
21 8 0.22
22 5 0.14
23 1 0.03
24 15 0.41
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.39
Consensus pattern (24 bp):
ATATATATATATATAATAATAATA
Found at i:6081933 original size:34 final size:34
Alignment explanation
Indices: 6081858--6081929 Score: 89
Period size: 34 Copynumber: 2.2 Consensus size: 34
6081848 TGATATATAT
*
6081858 ATATATAATAATAATAATATATATATATATGACAA
1 ATATA-AATTATAATAATATATATATATATGACAA
6081893 ATATAAATTATAATAATA-ATA-ATA-ATGAACAA
1 ATATAAATTATAATAATATATATATATATG-ACAA
6081925 A-ATAA
1 ATATAA
6081930 TAAAATTGCT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
31 7 0.20
32 8 0.23
33 3 0.09
34 12 0.34
35 5 0.14
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.33
Consensus pattern (34 bp):
ATATAAATTATAATAATATATATATATATGACAA
Found at i:6082427 original size:11 final size:11
Alignment explanation
Indices: 6082411--6082436 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
6082401 AGAGCTGCCA
6082411 TCGCGCCATCG
1 TCGCGCCATCG
6082422 TCGCGCCATCG
1 TCGCGCCATCG
6082433 TCGC
1 TCGC
6082437 ACTATCGCGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.08, C:0.46, G:0.27, T:0.19
Consensus pattern (11 bp):
TCGCGCCATCG
Found at i:6083636 original size:51 final size:49
Alignment explanation
Indices: 6083558--6084288 Score: 364
Period size: 50 Copynumber: 14.7 Consensus size: 49
6083548 AATGTCAAGG
* * * * *
6083558 AAGTAAGATTCGCCGTCGTGGCTTCAATCTATTCCACTACACCGCTAGGGA
1 AAGTAAGATTCGCCGTTGTAGCCTCAATCT-TTCCACTGCAACGCT-GGGA
* * ** * * * *
6083609 AAGTAAGATTTGCCGTTGTTGCCTCAATCTTTTAATTGAAATGTCGGGGA
1 AAGTAAGATTCGCCGTTGTAGCCTCAATCTTTCCACTGCAACG-CTGGGA
* * * * * * *
6083659 AAGCAAGATTCACCATTGTAGCTTCAATCTGTTCCACTACACCGCCTAGGA
1 AAGTAAGATTCGCCGTTGTAGCCTCAATCT-TTCCACTGCAACG-CTGGGA
* * * ** * * *
6083710 AAGTAAGATTCACCGTTTTGGCCTCAATCTTTTAATTGCAATG-TCGGGG
1 AAGTAAGATTCGCCGTTGTAGCCTCAATCTTTCCACTGCAACGCT-GGGA
** * * * *
6083759 AAGCGAGATTCGCCGTTGTAGCTTTAATATGTTCCACTGCACCGCCTGGGA
1 AAGTAAGATTCGCCGTTGTAGCCTCAATCT-TTCCACTGCAACG-CTGGGA
* ** * * *
6083810 AAGTAAGATTCGCCGTTGTGGCCTCAATCTTTTAATTGCAATG-TCGGGG
1 AAGTAAGATTCGCCGTTGTAGCCTCAATCTTTCCACTGCAACGCT-GGGA
* * *
6083859 AAGTGAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCATCGCCTGGGA
1 AAGTAAGATTCGCCGTTGTAGCCTCAATCT-TTCCACTGCAACG-CTGGGA
* ** * ** *
6083910 AAGTAAGATTCGCCGTTGTGGCCTCAATCTTTTAATTGCAA-TTTCGGGG
1 AAGTAAGATTCGCCGTTGTAGCCTCAATCTTTCCACTGCAACGCT-GGGA
** * * * ***
6083959 AAGCGAGATTCACCGTTGTAGCTTTAATCTGTTCCACTGTGCCGTCTGGG-
1 AAGTAAGATTCGCCGTTGTAGCCTCAATCT-TTCCACTGCAACG-CTGGGA
* * * * * * *
6084009 AAGTAAGATTTGCCATTGAAGCTTCAATTTGTTCCACTGCACCCTCTGGG-
1 AAGTAAGATTCGCCGTTGTAGCCTCAATCT-TTCCACTGCA-ACGCTGGGA
* * ** * * *
6084059 AAGTAAGATTCACCGTTGTGGCCTCAATCTTTTAATTGCAATG-TCGGGG
1 AAGTAAGATTCGCCGTTGTAGCCTCAATCTTTCCACTGCAACGCT-GGGA
* * * *
6084108 AAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCACCGCCTGGG-
1 AAGTAAGATTCGCCGTTGTAGCCTCAATCT-TTCCACTGCAACG-CTGGGA
* * * * ** * * *
6084158 AGGTAAGATTCACCGTTGTGGCCACAATCTTTTAATTGCAATG-TCGGGG
1 AAGTAAGATTCGCCGTTGTAGCCTCAATCTTTCCACTGCAACGCT-GGGA
* * ** *
6084207 AAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCTGCTGCACCGCCTGGG-
1 AAGTAAGATTCGCCGTTGTAGCCTCAATCT-TTCCACTGCAACG-CTGGGA
* * *
6084257 AAGTAAGATTCGCCATTGTGGCTTCAATCTTT
1 AAGTAAGATTCGCCGTTGTAGCCTCAATCTTT
6084289 TTAATTGCAA
Statistics
Matches: 494, Mismatches: 161, Indels: 52
0.70 0.23 0.07
Matches are distributed among these distances:
47 2 0.00
48 9 0.02
49 147 0.30
50 201 0.41
51 130 0.26
52 5 0.01
ACGTcount: A:0.23, C:0.23, G:0.24, T:0.31
Consensus pattern (49 bp):
AAGTAAGATTCGCCGTTGTAGCCTCAATCTTTCCACTGCAACGCTGGGA
Found at i:6083820 original size:100 final size:100
Alignment explanation
Indices: 6083545--6084018 Score: 664
Period size: 100 Copynumber: 4.7 Consensus size: 100
6083535 TCTACTCCAC
** ** * * * *
6083545 TGCAATGTCAAGGAAGTAAGATTCGCCGTCGTGGCTTCAATCTATTCCACTACACCG-CTAGGGA
1 TGCAATGTCGGGGAAGCGAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCT-GGGA
* *
6083609 AAGTAAGATTTGCCGTTGTTGCCTCAATCTTTTAAT
65 AAGTAAGATTCGCCGTTGTGGCCTCAATCTTTTAAT
* * * * * *
6083645 TGAAATGTCGGGGAAAGCAAGATTCACCATTGTAGCTTCAATCTGTTCCACTACACCGCCTAGGA
1 TGCAATGTCGGGG-AAGCGAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCTGGGA
* *
6083710 AAGTAAGATTCACCGTTTTGGCCTCAATCTTTTAAT
65 AAGTAAGATTCGCCGTTGTGGCCTCAATCTTTTAAT
* *
6083746 TGCAATGTCGGGGAAGCGAGATTCGCCGTTGTAGCTTTAATATGTTCCACTGCACCGCCTGGGAA
1 TGCAATGTCGGGGAAGCGAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCTGGGAA
6083811 AGTAAGATTCGCCGTTGTGGCCTCAATCTTTTAAT
66 AGTAAGATTCGCCGTTGTGGCCTCAATCTTTTAAT
* *
6083846 TGCAATGTCGGGGAAGTGAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCATCGCCTGGGAA
1 TGCAATGTCGGGGAAGCGAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCTGGGAA
6083911 AGTAAGATTCGCCGTTGTGGCCTCAATCTTTTAAT
66 AGTAAGATTCGCCGTTGTGGCCTCAATCTTTTAAT
* * * ** *
6083946 TGCAATTTCGGGGAAGCGAGATTCACCGTTGTAGCTTTAATCTGTTCCACTGTGCCGTCTGGG-A
1 TGCAATGTCGGGGAAGCGAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCTGGGAA
6084010 AGTAAGATT
66 AGTAAGATT
6084019 TGCCATTGAA
Statistics
Matches: 336, Mismatches: 36, Indels: 5
0.89 0.10 0.01
Matches are distributed among these distances:
99 10 0.03
100 239 0.71
101 85 0.25
102 2 0.01
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.31
Consensus pattern (100 bp):
TGCAATGTCGGGGAAGCGAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCTGGGAA
AGTAAGATTCGCCGTTGTGGCCTCAATCTTTTAAT
Found at i:6084062 original size:200 final size:200
Alignment explanation
Indices: 6083589--6084088 Score: 610
Period size: 200 Copynumber: 2.5 Consensus size: 200
6083579 CTTCAATCTA
* * * ** * * **
6083589 TTCCACTACACCG-CTAGGGAAAGTAAGATTTGCCGTTGTTGCCTCAATCTTTTAATTGAAATGT
1 TTCCACTGCACCGCCT-GGGAAAGTAAGATTCGCCATTGAAGCCTCAATCTTTTAACTGCAACCT
* *
6083653 CGGGGAAAGCAAGATTCACCATTGTAGCTTCAATCTGTTCCACTACACCGCCTAGGAAAGTAAGA
65 CGGGG-AAGTAAGATTCACCGTTGTAGCTTCAATCTGTTCCACTACACCGCCTAGGAAAGTAAGA
* *
6083718 TTCACCGTTTTGGCCTCAATCTTTTAATTGCAATGTCGGGGAAGCGAGATTCGCCGTTGTAGCTT
129 TTCACCGTTGTGGCCTCAATCTTTTAATTGCAATGTCGGGGAAGCGAGATTCACCGTTGTAGCTT
6083783 TAATATG
194 TAATATG
* ** * **
6083790 TTCCACTGCACCGCCTGGGAAAGTAAGATTCGCCGTTGTGGCCTCAATCTTTTAATTGCAATGTC
1 TTCCACTGCACCGCCTGGGAAAGTAAGATTCGCCATTGAAGCCTCAATCTTTTAACTGCAACCTC
* * * * *
6083855 GGGGAAGTGAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCATCGCCTGGGAAAGTAAGATT
66 GGGGAAGTAAGATTCACCGTTGTAGCTTCAATCTGTTCCACTACACCGCCTAGGAAAGTAAGATT
* *
6083920 CGCCGTTGTGGCCTCAATCTTTTAATTGCAATTTCGGGGAAGCGAGATTCACCGTTGTAGCTTTA
131 CACCGTTGTGGCCTCAATCTTTTAATTGCAATGTCGGGGAAGCGAGATTCACCGTTGTAGCTTTA
*
6083985 ATCTG
196 ATATG
** * * * * *
6083990 TTCCACTGTGCCGTCTGGG-AAGTAAGATTTGCCATTGAAGCTTCAAT-TTGTTCCACTGCACCC
1 TTCCACTGCACCGCCTGGGAAAGTAAGATTCGCCATTGAAGCCTCAATCTT-TT-AACTGCAACC
* * *
6084053 TCTGGGAAGTAAGATTCACCGTTGTGGCCTCAATCT
64 TCGGGGAAGTAAGATTCACCGTTGTAGCTTCAATCT
6084089 TTTAATTGCA
Statistics
Matches: 262, Mismatches: 34, Indels: 7
0.86 0.11 0.02
Matches are distributed among these distances:
198 2 0.01
199 25 0.10
200 171 0.65
201 62 0.24
202 2 0.01
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.31
Consensus pattern (200 bp):
TTCCACTGCACCGCCTGGGAAAGTAAGATTCGCCATTGAAGCCTCAATCTTTTAACTGCAACCTC
GGGGAAGTAAGATTCACCGTTGTAGCTTCAATCTGTTCCACTACACCGCCTAGGAAAGTAAGATT
CACCGTTGTGGCCTCAATCTTTTAATTGCAATGTCGGGGAAGCGAGATTCACCGTTGTAGCTTTA
ATATG
Found at i:6084068 original size:100 final size:100
Alignment explanation
Indices: 6083556--6084286 Score: 546
Period size: 100 Copynumber: 7.3 Consensus size: 100
6083546 GCAATGTCAA
* * * * * *
6083556 GGAAGTAAGATTCGCCGTCGTGGCTTCAATCTATTCCACTACACCG-CTAGGGAAAGTAAGATTT
1 GGAAGTAAGATTCACCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCT-GGGAAAGTAAGATTC
* * * **
6083620 GCCGTTGTTGCCTCAATCTTTTAATTGAAATGTCGG
65 GCCGTTGTAGCCTCAATCTTTTAACTGCAACCTCGG
* * * *
6083656 GGAAAGCAAGATTCACCATTGTAGCTTCAATCTGTTCCACTACACCGCCTAGGAAAGTAAGATTC
1 GG-AAGTAAGATTCACCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCTGGGAAAGTAAGATTC
* * * * **
6083721 ACCGTTTTGGCCTCAATCTTTTAATTGCAATGTCGG
65 GCCGTTGTAGCCTCAATCTTTTAACTGCAACCTCGG
** * * *
6083757 GGAAGCGAGATTCGCCGTTGTAGCTTTAATATGTTCCACTGCACCGCCTGGGAAAGTAAGATTCG
1 GGAAGTAAGATTCACCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCTGGGAAAGTAAGATTCG
* * **
6083822 CCGTTGTGGCCTCAATCTTTTAATTGCAATGTCGG
66 CCGTTGTAGCCTCAATCTTTTAACTGCAACCTCGG
* * *
6083857 GGAAGTGAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCATCGCCTGGGAAAGTAAGATTCG
1 GGAAGTAAGATTCACCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCTGGGAAAGTAAGATTCG
* * **
6083922 CCGTTGTGGCCTCAATCTTTTAATTGCAATTTCGG
66 CCGTTGTAGCCTCAATCTTTTAACTGCAACCTCGG
** * ** * *
6083957 GGAAGCGAGATTCACCGTTGTAGCTTTAATCTGTTCCACTGTGCCGTCTGGG-AAGTAAGATTTG
1 GGAAGTAAGATTCACCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCTGGGAAAGTAAGATTCG
* * * * * *
6084021 CCATTGAAGCTTCAAT-TTGTTCCACTGCACCCTCTG
66 CCGTTGTAGCCTCAATCTT-TT-AACTGCAACCTCGG
* * ** * ** * * *
6084057 GGAAGTAAGATTCACCGTTGTGGCCTCAATCT-TTTAATTGCAATGTC-GGGGAAGCAAGATTCG
1 GGAAGTAAGATTCACCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCTGGGAAAGTAAGATTCG
* *** * *
6084120 CCGTTGTAGCTTCAATCTGTTCCGCTGC-ACCGCCTG
66 CCGTTGTAGCCTCAATCT-TTTAACTGCAACC-TCGG
* * ** ** * ** * * *
6084156 GGAGGTAAGATTCACCGTTGTGGCCACAATCT-TTTAATTGCAATGTC-GGGGAAGCAAGATTCG
1 GGAAGTAAGATTCACCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCTGGGAAAGTAAGATTCG
* * * *
6084219 CCGTTGTAGCTTCAATCTGTTCT-GCTGC-ACCGCCTG
66 CCGTTGTAGCCTCAATCT-TT-TAACTGCAACC-TCGG
* * *
6084255 GGAAGTAAGATTCGCCATTGTGGCTTCAATCT
1 GGAAGTAAGATTCACCGTTGTAGCTTCAATCT
6084287 TTTTAATTGC
Statistics
Matches: 550, Mismatches: 72, Indels: 19
0.86 0.11 0.03
Matches are distributed among these distances:
98 7 0.01
99 187 0.34
100 268 0.49
101 86 0.16
102 2 0.00
ACGTcount: A:0.23, C:0.23, G:0.24, T:0.31
Consensus pattern (100 bp):
GGAAGTAAGATTCACCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCTGGGAAAGTAAGATTCG
CCGTTGTAGCCTCAATCTTTTAACTGCAACCTCGG
Found at i:6084116 original size:99 final size:99
Alignment explanation
Indices: 6084006--6084298 Score: 453
Period size: 99 Copynumber: 2.9 Consensus size: 99
6083996 TGTGCCGTCT
* * * * * *
6084006 GGGAAGTAAGATTTGCCATTGAAGCTTCAATTTGTTCCACTGCACC-CTCTGGGAAGTAAGATTC
1 GGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCACCGC-CTGGGAAGTAAGATTC
6084070 ACCGTTGTGGCCTCAATCTTTTAATTGCAATGTCG
65 ACCGTTGTGGCCTCAATCTTTTAATTGCAATGTCG
*
6084105 GGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCACCGCCTGGGAGGTAAGATTCA
1 GGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCACCGCCTGGGAAGTAAGATTCA
*
6084170 CCGTTGTGGCCACAATCTTTTAATTGCAATGTCG
66 CCGTTGTGGCCTCAATCTTTTAATTGCAATGTCG
* *
6084204 GGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCTGCTGCACCGCCTGGGAAGTAAGATTCG
1 GGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCACCGCCTGGGAAGTAAGATTCA
* *
6084269 CCATTGTGGCTTCAATCTTTTTAATTGCAA
66 CCGTTGTGGCCTCAATC-TTTTAATTGCAA
6084299 ACTATGGTTT
Statistics
Matches: 178, Mismatches: 14, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
99 165 0.93
100 13 0.07
ACGTcount: A:0.23, C:0.23, G:0.24, T:0.31
Consensus pattern (99 bp):
GGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCACCGCCTGGGAAGTAAGATTCA
CCGTTGTGGCCTCAATCTTTTAATTGCAATGTCG
Found at i:6084157 original size:149 final size:150
Alignment explanation
Indices: 6083556--6084176 Score: 579
Period size: 149 Copynumber: 4.1 Consensus size: 150
6083546 GCAATGTCAA
* * * * * *
6083556 GGAAGTAAGATTCGCCGTCGTGGCTTCAATCTATTCCACTACACCGCT-AGGGAAAGTAAGATTT
1 GGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACC-CTCTGGGAAAGTAAGATTC
* * *
6083620 GCCGTTGTTGCCTCAATCTTTTAATTGAAATGTCGGGGAAAGCAAGATTCACCATTGTAGCTTCA
65 GCCGTTGTGGCCTCAATCTTTTAATTGCAATGTCGGGG-AAGCAAGATTCACCGTTGTAGCTTCA
*
6083685 ATCTGTTCCACTACACCGCCTAG
129 ATCTGTTCCACTGCACCGCCT-G
* * * * * ** * *** * **
6083708 GAAAGTAAGATTCACCGTTTTGGCCTCAATCT-TTTAATTGCAATGTC-GGGGAAGCGAGATTCG
1 GGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACCCTCTGGGAAAGTAAGATTCG
* * * * ** * ** * * * * * *
6083771 CCGTTGTAGCTTTAATATGTTCCACTGCACCGCCTGGGAAAGTAAGATTCGCCGTTGTGGCCTCA
66 CCGTTGTGGCCTCAATCT-TTTAATTGCAATGTC-GGGGAAGCAAGATTCACCGTTGTAGCTTCA
** * ** * *
6083836 ATCT-TTTAATTGCAATGTCGG
129 ATCTGTTCCACTGCACCGCCTG
* *
6083857 GGAAGTGAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCATCGC-CTGGGAAAGTAAGATTC
1 GGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCA-CCCTCTGGGAAAGTAAGATTC
* * *
6083921 GCCGTTGTGGCCTCAATCTTTTAATTGCAATTTCGGGGAAGCGAGATTCACCGTTGTAGCTTTAA
65 GCCGTTGTGGCCTCAATCTTTTAATTGCAATGTCGGGGAAGCAAGATTCACCGTTGTAGCTTCAA
** *
6083986 TCTGTTCCACTGTGCCGTCTG
130 TCTGTTCCACTGCACCGCCTG
* * * * *
6084007 GGAAGTAAGATTTGCCATTGAAGCTTCAATTTGTTCCACTGCACCCTCTGGG-AAGTAAGATTCA
1 GGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACCCTCTGGGAAAGTAAGATTCG
*
6084071 CCGTTGTGGCCTCAATCTTTTAATTGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTCAAT
66 CCGTTGTGGCCTCAATCTTTTAATTGCAATGTCGGGGAAGCAAGATTCACCGTTGTAGCTTCAAT
*
6084136 CTGTTCCGCTGCACCGCCTG
131 CTGTTCCACTGCACCGCCTG
* *
6084156 GGAGGTAAGATTCACCGTTGT
1 GGAAGTAAGATTCGCCGTTGT
6084177 GGCCACAATC
Statistics
Matches: 359, Mismatches: 102, Indels: 19
0.75 0.21 0.04
Matches are distributed among these distances:
149 160 0.45
150 103 0.29
151 66 0.18
152 30 0.08
ACGTcount: A:0.23, C:0.23, G:0.24, T:0.31
Consensus pattern (150 bp):
GGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACCCTCTGGGAAAGTAAGATTCG
CCGTTGTGGCCTCAATCTTTTAATTGCAATGTCGGGGAAGCAAGATTCACCGTTGTAGCTTCAAT
CTGTTCCACTGCACCGCCTG
Found at i:6084258 original size:149 final size:148
Alignment explanation
Indices: 6083613--6084286 Score: 519
Period size: 149 Copynumber: 4.5 Consensus size: 148
6083603 TAGGGAAAGT
* * * * * * * *
6083613 AAGATTTGCCGTTGTTGCCTCAATCTTTTAATTGAAATGTCGGGGAAAGCAAGATTCACCATTGT
1 AAGATTCGCCGTTGTAGCCTCAATCTTTTAACTGCAACGCCGGGG-AAGCAAGATTCGCCGTTGT
* * * *
6083678 AGCTTCAATCTGTTCCACTACACCGCCTAGGAAAGTAAGATTCACCGTTTTGGCCTCAATCTTTT
65 AGCTTCAATCTGTTCCACTGCACCGCCT-GGGAAGTAAGATTCACCGTTGTAGCCTCAATCTTTT
*
6083743 AATTGCAATGTCGGGGAAGC
129 AACTGCAATGTCGGGGAAGC
* * * * ** * * *
6083763 GAGATTCGCCGTTGTAGCTTTAATATGTTCCACTGCACCGCCTGGGAAAGTAAGATTCGCCGTTG
1 AAGATTCGCCGTTGTAGCCTCAATCT-TTTAACTGCAACGCC-GGGGAAGCAAGATTCGCCGTTG
* * ** * ** * * * * *
6083828 TGGCCTCAATCT-TTTAATTGCAATGTCGGGGAAGTGAGATTCGCCGTTGTAGCTTCAATCTGTT
64 TAGCTTCAATCTGTTCCACTGCACCGCCTGGGAAGTAAGATTCACCGTTGTAGCCTCAATCT-TT
** * * *
6083892 CCACTGC-ATCGCCTGGGAAAGT
128 TAACTGCAAT-GTC-GGGGAAGC
* * *** * *
6083914 AAGATTCGCCGTTGTGGCCTCAATCTTTTAATTGCAATTTCGGGGAAGCGAGATTCACCGTTGTA
1 AAGATTCGCCGTTGTAGCCTCAATCTTTTAACTGCAACGCCGGGGAAGCAAGATTCGCCGTTGTA
* ** * ** * * *
6083979 GCTTTAATCTGTTCCACTGTGCCGTCTGGGAAGTAAGATTTGCCATTGAAGCTTCAAT-TTGTTC
66 GCTTCAATCTGTTCCACTGCACCGCCTGGGAAGTAAGATTCACCGTTGTAGCCTCAATCTT-TT-
* *** * *
6084043 CACTGCACCCTCTGGGAAGT
129 AACTGCAATGTCGGGGAAGC
* * * * *
6084063 AAGATTCACCGTTGTGGCCTCAATCTTTTAATTGCAATGTCGGGGAAGCAAGATTCGCCGTTGTA
1 AAGATTCGCCGTTGTAGCCTCAATCTTTTAACTGCAACGCCGGGGAAGCAAGATTCGCCGTTGTA
* * * *
6084128 GCTTCAATCTGTTCCGCTGCACCGCCTGGGAGGTAAGATTCACCGTTGTGGCCACAATCTTTTAA
66 GCTTCAATCTGTTCCACTGCACCGCCTGGGAAGTAAGATTCACCGTTGTAGCCTCAATCTTTTAA
*
6084193 TTGCAATGTCGGGGAAGC
131 CTGCAATGTCGGGGAAGC
* * * * * *
6084211 AAGATTCGCCGTTGTAGCTTCAATCTGTTCT-GCTGCACCGCCTGGGAAGTAAGATTCGCCATTG
1 AAGATTCGCCGTTGTAGCCTCAATCT-TT-TAACTGCAACGCCGGGGAAGCAAGATTCGCCGTTG
*
6084275 TGGCTTCAATCT
64 TAGCTTCAATCT
6084287 TTTTAATTGC
Statistics
Matches: 399, Mismatches: 113, Indels: 25
0.74 0.21 0.05
Matches are distributed among these distances:
148 37 0.09
149 210 0.53
150 89 0.22
151 60 0.15
152 3 0.01
ACGTcount: A:0.23, C:0.23, G:0.24, T:0.31
Consensus pattern (148 bp):
AAGATTCGCCGTTGTAGCCTCAATCTTTTAACTGCAACGCCGGGGAAGCAAGATTCGCCGTTGTA
GCTTCAATCTGTTCCACTGCACCGCCTGGGAAGTAAGATTCACCGTTGTAGCCTCAATCTTTTAA
CTGCAATGTCGGGGAAGC
Found at i:6085606 original size:6 final size:6
Alignment explanation
Indices: 6085595--6085663 Score: 67
Period size: 6 Copynumber: 12.0 Consensus size: 6
6085585 TTGGCCTCTC
* *
6085595 CTTTTT CTTTTT CTTTTT -TATTTCT CTTTTT CTTCTT -TTCTT CTTTTT
1 CTTTTT CTTTTT CTTTTT CT-TTT-T CTTTTT CTTTTT CTTTTT CTTTTT
6085643 C--TTT CTTTTT CTTTTT -TTTTT
1 CTTTTT CTTTTT CTTTTT CTTTTT
6085664 TTGGTATGTT
Statistics
Matches: 55, Mismatches: 2, Indels: 13
0.79 0.03 0.19
Matches are distributed among these distances:
4 4 0.07
5 11 0.20
6 35 0.64
7 4 0.07
8 1 0.02
ACGTcount: A:0.01, C:0.17, G:0.00, T:0.81
Consensus pattern (6 bp):
CTTTTT
Found at i:6085624 original size:19 final size:18
Alignment explanation
Indices: 6085596--6085665 Score: 76
Period size: 17 Copynumber: 4.1 Consensus size: 18
6085586 TGGCCTCTCC
6085596 TTTT-TCTTTTTCTTTTT
1 TTTTCTCTTTTTCTTTTT
*
6085613 TATTTCTCTTTTTCTTCTT
1 T-TTTCTCTTTTTCTTTTT
* *
6085632 TTCT-TCTTTTTCTTTCT
1 TTTTCTCTTTTTCTTTTT
6085649 TTTTCT-TTTTT-TTTTT
1 TTTTCTCTTTTTCTTTTT
6085665 T
1 T
6085666 GGTATGTTTT
Statistics
Matches: 44, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
16 5 0.11
17 20 0.45
18 6 0.14
19 13 0.30
ACGTcount: A:0.01, C:0.16, G:0.00, T:0.83
Consensus pattern (18 bp):
TTTTCTCTTTTTCTTTTT
Found at i:6089530 original size:108 final size:106
Alignment explanation
Indices: 6089343--6089542 Score: 337
Period size: 108 Copynumber: 1.9 Consensus size: 106
6089333 TGGATTAAAA
* *
6089343 TTTAAGAGGATATTTGGCTATTTGGTTAAACGAGAAATCGAAACCCAGCACATTAGGGCACATTT
1 TTTAAAAGGATATTTAGCTATTTGGTTAAACGAGAAATCGAAACCCAGCACATTAGGGCACATTT
6089408 CCTCGAATTTCCAAACGCAAAATATTGTCTTATTTCGAAAT
66 CCTCGAATTTCCAAACGCAAAATATTGTCTTATTTCGAAAT
* * *
6089449 TTTAAAAGGATATTTAGCTATTTGGTTGAACGAGAAAAATCGAAACTCAGCACATTAGGGCACGT
1 TTTAAAAGGATATTTAGCTATTTGGTTAAACGAG--AAATCGAAACCCAGCACATTAGGGCACAT
6089514 TTCCTCGAATTTCCAAACGCAAAATATTG
64 TTCCTCGAATTTCCAAACGCAAAATATTG
6089543 CGTTTATTAT
Statistics
Matches: 87, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
106 31 0.36
108 56 0.64
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.30
Consensus pattern (106 bp):
TTTAAAAGGATATTTAGCTATTTGGTTAAACGAGAAATCGAAACCCAGCACATTAGGGCACATTT
CCTCGAATTTCCAAACGCAAAATATTGTCTTATTTCGAAAT
Found at i:6090505 original size:3 final size:3
Alignment explanation
Indices: 6090469--6090529 Score: 52
Period size: 3 Copynumber: 20.3 Consensus size: 3
6090459 AAATAGAAAT
* * * * *
6090469 ATA ATG ATA ATA ACA ATA ACA TTA ATA CTA ATA ATA ATA ATA ATA ATGA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A
*
6090518 ACA A-A ATA ATA A
1 ATA ATA ATA ATA A
6090530 AATTGCTAAA
Statistics
Matches: 45, Mismatches: 11, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
2 2 0.04
3 41 0.91
4 2 0.04
ACGTcount: A:0.62, C:0.07, G:0.03, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:6094845 original size:10 final size:10
Alignment explanation
Indices: 6094830--6094863 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
6094820 TTTTAAAACG
6094830 AAAAGAAAAA
1 AAAAGAAAAA
*
6094840 AAAAGATAAAT
1 AAAAGA-AAAA
6094851 AAAAGAAAAA
1 AAAAGAAAAA
6094861 AAA
1 AAA
6094864 GCCCAAATGC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.85, C:0.00, G:0.09, T:0.06
Consensus pattern (10 bp):
AAAAGAAAAA
Found at i:6098643 original size:29 final size:28
Alignment explanation
Indices: 6098590--6098689 Score: 68
Period size: 27 Copynumber: 3.5 Consensus size: 28
6098580 TAAAAAGATT
6098590 ATAAAAA-ATAAAAAT-TTATAGAATTTTA
1 ATAAAAATATAAAAATATTA-A-AATTTTA
6098618 ATAAAAATATAAAAATATTCAAAA--TTA
1 ATAAAAATATAAAAATATT-AAAATTTTA
* * *
6098645 GA-AAAATTATAAAAAAATTGTAACATTTT-
1 -ATAAAAATATAAAAATA-T-TAAAATTTTA
6098674 ATAAAAATCATAAAAA
1 ATAAAAAT-ATAAAAA
6098690 AAATTATAAA
Statistics
Matches: 58, Mismatches: 4, Indels: 18
0.73 0.05 0.22
Matches are distributed among these distances:
27 16 0.28
28 13 0.22
29 16 0.28
30 12 0.21
31 1 0.02
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (28 bp):
ATAAAAATATAAAAATATTAAAATTTTA
Found at i:6098711 original size:31 final size:30
Alignment explanation
Indices: 6098618--6098711 Score: 72
Period size: 31 Copynumber: 3.2 Consensus size: 30
6098608 TAGAATTTTA
* *
6098618 ATAAAAAT-ATAAAAATATT-CAA-AAT-T
1 ATAAAAATCATAAAAAAATTATAACAATGT
* * * * *
6098644 AGAAAAATTATAAAAAAATTGTAACATTTT
1 ATAAAAATCATAAAAAAATTATAACAATGT
6098674 ATAAAAATCATAAAAAAAATTATAA-AATGT
1 ATAAAAATCAT-AAAAAAATTATAACAATGT
6098704 ATCAAAAA
1 AT-AAAAA
6098712 GGTTCTTTAA
Statistics
Matches: 53, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
26 7 0.13
27 10 0.19
28 2 0.04
29 2 0.04
30 15 0.28
31 17 0.32
ACGTcount: A:0.64, C:0.04, G:0.03, T:0.29
Consensus pattern (30 bp):
ATAAAAATCATAAAAAAATTATAACAATGT
Found at i:6099038 original size:20 final size:21
Alignment explanation
Indices: 6099013--6099072 Score: 72
Period size: 20 Copynumber: 3.0 Consensus size: 21
6099003 TATATTTTAT
6099013 AATTTTTACAC-TTTTTATAA
1 AATTTTTACACATTTTTATAA
6099033 AA-TTTTACAGCATTTTTATAA
1 AATTTTTACA-CATTTTTATAA
**
6099054 TTTTTTTAC-CATTTTTATA
1 AATTTTTACACATTTTTATA
6099073 TTTTTTTTCT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
19 7 0.20
20 13 0.37
21 9 0.26
22 6 0.17
ACGTcount: A:0.32, C:0.10, G:0.02, T:0.57
Consensus pattern (21 bp):
AATTTTTACACATTTTTATAA
Found at i:6099080 original size:20 final size:20
Alignment explanation
Indices: 6099043--6099079 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
6099033 AATTTTACAG
6099043 CATTTTTATAATTTTTTTAC
1 CATTTTTATAATTTTTTTAC
6099063 CATTTTTAT-ATTTTTTT
1 CATTTTTATAATTTTTTT
6099080 TCTAATTTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.22, C:0.08, G:0.00, T:0.70
Consensus pattern (20 bp):
CATTTTTATAATTTTTTTAC
Found at i:6099088 original size:20 final size:20
Alignment explanation
Indices: 6098885--6099079 Score: 68
Period size: 19 Copynumber: 9.9 Consensus size: 20
6098875 TTGGTACGAT
*
6098885 AATTTCTATAATTTTTTTAC
1 AATTTTTATAATTTTTTTAC
* * *
6098905 AAATTTGAT-ATTTCTTTAC
1 AATTTTTATAATTTTTTTAC
**
6098924 -ATTTTT-TACATTTTTAAAC
1 AATTTTTATA-ATTTTTTTAC
* *
6098943 ATTTTTTATAATTTTCTTAC
1 AATTTTTATAATTTTTTTAC
* * * *
6098963 GA-CTTTATAAAATTTTATA-
1 AATTTTTAT-AATTTTTTTAC
* * * *
6098982 AATTTTTTTTCTATATTTCTA-
1 AA-TTTTTAT-AATTTTTTTAC
*
6099003 TATATTTTATAA--TTTTTAC
1 AAT-TTTTATAATTTTTTTAC
* **
6099022 ACTTTTTATAA-AATTTTAC
1 AATTTTTATAATTTTTTTAC
6099041 AGCATTTTTATAATTTTTTTAC
1 A--ATTTTTATAATTTTTTTAC
*
6099063 CATTTTTAT-ATTTTTTT
1 AATTTTTATAATTTTTTT
6099080 TCTAATTTTG
Statistics
Matches: 124, Mismatches: 38, Indels: 27
0.66 0.20 0.14
Matches are distributed among these distances:
17 1 0.01
18 17 0.14
19 38 0.31
20 35 0.28
21 27 0.22
22 6 0.05
ACGTcount: A:0.30, C:0.09, G:0.02, T:0.60
Consensus pattern (20 bp):
AATTTTTATAATTTTTTTAC
Found at i:6100861 original size:26 final size:26
Alignment explanation
Indices: 6100823--6100881 Score: 91
Period size: 26 Copynumber: 2.3 Consensus size: 26
6100813 GAAATAGTGA
*
6100823 TTTTTGTAAATTCACGATGGAGGTTT
1 TTTTTTTAAATTCACGATGGAGGTTT
* *
6100849 TTTTTTTAGATTCATGATGGAGGTTT
1 TTTTTTTAAATTCACGATGGAGGTTT
6100875 TTTTTTT
1 TTTTTTT
6100882 TTTAAGATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.19, C:0.05, G:0.20, T:0.56
Consensus pattern (26 bp):
TTTTTTTAAATTCACGATGGAGGTTT
Found at i:6102048 original size:24 final size:24
Alignment explanation
Indices: 6102021--6102104 Score: 117
Period size: 24 Copynumber: 3.8 Consensus size: 24
6102011 CTTTCCCTAA
6102021 ACCATCATTCCCAAGGCCATCCAT
1 ACCATCATTCCCAAGGCCATCCAT
6102045 ACCATCATT--C----CCATCCAT
1 ACCATCATTCCCAAGGCCATCCAT
*
6102063 ACCATCATTCCCAAAGCCATCCAT
1 ACCATCATTCCCAAGGCCATCCAT
6102087 ACCATCATTCCCAAGGCC
1 ACCATCATTCCCAAGGCC
6102105 TGGGGTGCTT
Statistics
Matches: 53, Mismatches: 1, Indels: 12
0.80 0.02 0.18
Matches are distributed among these distances:
18 17 0.32
20 1 0.02
22 1 0.02
24 34 0.64
ACGTcount: A:0.30, C:0.43, G:0.06, T:0.21
Consensus pattern (24 bp):
ACCATCATTCCCAAGGCCATCCAT
Found at i:6102060 original size:18 final size:18
Alignment explanation
Indices: 6102037--6102075 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
6102027 ATTCCCAAGG
6102037 CCATCCATACCATCATTC
1 CCATCCATACCATCATTC
6102055 CCATCCATACCATCATTC
1 CCATCCATACCATCATTC
6102073 CCA
1 CCA
6102076 AAGCCATCCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.28, C:0.46, G:0.00, T:0.26
Consensus pattern (18 bp):
CCATCCATACCATCATTC
Found at i:6103256 original size:31 final size:32
Alignment explanation
Indices: 6103218--6103282 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 32
6103208 TAAGACATAA
*
6103218 AGTGGTGCTTA-CTTTTTTTATATTGTCTTTG
1 AGTGGTGCTTATCTTTTTTTATAATGTCTTTG
*
6103249 AGTGGTGCTTATTTTTTTTTTATAATGTCTTTG
1 AGTGGTGCTTA-TCTTTTTTTATAATGTCTTTG
6103282 A
1 A
6103283 TTTCATTGAG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 11 0.37
33 19 0.63
ACGTcount: A:0.15, C:0.08, G:0.18, T:0.58
Consensus pattern (32 bp):
AGTGGTGCTTATCTTTTTTTATAATGTCTTTG
Found at i:6109774 original size:18 final size:20
Alignment explanation
Indices: 6109732--6109769 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
6109722 TGTTGAGTTT
*
6109732 ATTAATGAGTAATTTATATA
1 ATTAATGAATAATTTATATA
*
6109752 ATTAATGAATATTTTATA
1 ATTAATGAATAATTTATA
6109770 CTTAAAATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.08, T:0.47
Consensus pattern (20 bp):
ATTAATGAATAATTTATATA
Found at i:6110305 original size:29 final size:29
Alignment explanation
Indices: 6110259--6110314 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
6110249 TAACATTATT
* * *
6110259 TTATATTTATATATTATATAAATAAATAA
1 TTATATTTATACAATATAAAAATAAATAA
*
6110288 TTATATTTATCCAATATAAAAATAAAT
1 TTATATTTATACAATATAAAAATAAAT
6110315 TGAAGTATCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.45
Consensus pattern (29 bp):
TTATATTTATACAATATAAAAATAAATAA
Found at i:6111314 original size:21 final size:21
Alignment explanation
Indices: 6111272--6111314 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
6111262 TCAAATTTAA
6111272 GTCATTTCAAATTATTTTGTTT
1 GTCATTTCAAA-TATTTTGTTT
6111294 GTCATTTCAAA-ATTCTTGTTT
1 GTCATTTCAAATATT-TTGTTT
6111315 AAAACATTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 3 0.15
21 6 0.30
22 11 0.55
ACGTcount: A:0.23, C:0.12, G:0.09, T:0.56
Consensus pattern (21 bp):
GTCATTTCAAATATTTTGTTT
Found at i:6113513 original size:20 final size:20
Alignment explanation
Indices: 6113488--6113531 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
6113478 GGGTTTAAGG
*
6113488 TTTAAGGTTTTTT-TATATTT
1 TTTAA-GTTTTTTCTATATTC
6113508 TTTAAGTTTTTTCTATATTC
1 TTTAAGTTTTTTCTATATTC
6113528 TTTA
1 TTTA
6113532 TACTTTTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.20, C:0.05, G:0.07, T:0.68
Consensus pattern (20 bp):
TTTAAGTTTTTTCTATATTC
Found at i:6117389 original size:19 final size:17
Alignment explanation
Indices: 6117365--6117414 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
6117355 GGTGAGAAGT
6117365 AAAAGTTTAGGGGGGAATA
1 AAAAGTTT--GGGGGAATA
*
6117384 AAAAGTTTTGGGGAATA
1 AAAAGTTTGGGGGAATA
*
6117401 AAAA-TTTGAGGGAA
1 AAAAGTTTGGGGGAA
6117415 AGTAAATAGG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
16 8 0.29
17 12 0.43
19 8 0.29
ACGTcount: A:0.44, C:0.00, G:0.32, T:0.24
Consensus pattern (17 bp):
AAAAGTTTGGGGGAATA
Found at i:6117539 original size:30 final size:31
Alignment explanation
Indices: 6117500--6117559 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
6117490 AGAGGTGGGA
*
6117500 TGGGAAGGGAATAAAAGTTTTAAGGGAAAAG
1 TGGGAAGGGAATAAAAATTTTAAGGGAAAAG
* *
6117531 TGGG-AGGGAGTAAAAATTTTAGGGGAAAA
1 TGGGAAGGGAATAAAAATTTTAAGGGAAAA
6117560 TAAAAGGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.43, C:0.00, G:0.37, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTAAGGGAAAAG
Found at i:6119192 original size:25 final size:25
Alignment explanation
Indices: 6119164--6119253 Score: 78
Period size: 25 Copynumber: 3.6 Consensus size: 25
6119154 AACTGTCATT
* *
6119164 GATAGTATATCCTGAAACTGCTATA
1 GATAGTATATACTGAAACTACTATA
* *
6119189 GATAGTATATACTGAGACTATTATA
1 GATAGTATATACTGAAACTACTATA
*
6119214 GATAG-ACTATATTGAAAAC-ACT-TAA
1 GATAGTA-TATACTG-AAACTACTAT-A
*
6119239 AATAGTATATACTGA
1 GATAGTATATACTGA
6119254 GATTGTAGTA
Statistics
Matches: 52, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
24 3 0.06
25 45 0.87
26 4 0.08
ACGTcount: A:0.42, C:0.11, G:0.14, T:0.32
Consensus pattern (25 bp):
GATAGTATATACTGAAACTACTATA
Found at i:6124832 original size:28 final size:28
Alignment explanation
Indices: 6124792--6124848 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
6124782 AACATACAAC
* *
6124792 AACAGTGTGGGCCTTAGCCCAATACAGT
1 AACAATGTAGGCCTTAGCCCAATACAGT
6124820 AACAATGTAGGCCTTAGCCCAATACAGT
1 AACAATGTAGGCCTTAGCCCAATACAGT
6124848 A
1 A
6124849 TCGGTACTGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.33, C:0.25, G:0.21, T:0.21
Consensus pattern (28 bp):
AACAATGTAGGCCTTAGCCCAATACAGT
Found at i:6125071 original size:22 final size:21
Alignment explanation
Indices: 6125007--6125072 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 21
6124997 TGCTAGTAAT
*
6125007 CAGAATGGCTAAGAGCCGTAAA
1 CAGAATGGCTAA-AGCCATAAA
* * **
6125029 CAGGATAGCTATAAGTTATAAA
1 CAGAATGGCTA-AAGCCATAAA
6125051 CAGAATGGCTACAAGCCATAAA
1 CAGAATGGCTA-AAGCCATAAA
6125073 TATAGCAATA
Statistics
Matches: 33, Mismatches: 10, Indels: 2
0.73 0.22 0.04
Matches are distributed among these distances:
22 32 0.97
23 1 0.03
ACGTcount: A:0.44, C:0.17, G:0.21, T:0.18
Consensus pattern (21 bp):
CAGAATGGCTAAAGCCATAAA
Found at i:6125294 original size:16 final size:16
Alignment explanation
Indices: 6125273--6125303 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
6125263 TCCCAACCCC
*
6125273 ATGCAGTATGTCATGT
1 ATGCAGAATGTCATGT
6125289 ATGCAGAATGTCATG
1 ATGCAGAATGTCATG
6125304 CTCAAAATCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.13, G:0.26, T:0.32
Consensus pattern (16 bp):
ATGCAGAATGTCATGT
Found at i:6125367 original size:24 final size:24
Alignment explanation
Indices: 6125308--6125394 Score: 84
Period size: 24 Copynumber: 3.6 Consensus size: 24
6125298 GTCATGCTCA
** * *
6125308 AAATCAGTCATACAATTCACAGAA
1 AAATCAGTCATTTAAATCACAGAC
*
6125332 AAAACAGTCATTTAAATCACAGAC
1 AAATCAGTCATTTAAATCACAGAC
** **
6125356 AAATCAGTCATTTTCATCATGGAC
1 AAATCAGTCATTTAAATCACAGAC
*
6125380 AAATCAATCATTTAA
1 AAATCAGTCATTTAA
6125395 CCTCGAGGGG
Statistics
Matches: 50, Mismatches: 13, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
24 50 1.00
ACGTcount: A:0.46, C:0.20, G:0.08, T:0.26
Consensus pattern (24 bp):
AAATCAGTCATTTAAATCACAGAC
Found at i:6128365 original size:22 final size:22
Alignment explanation
Indices: 6128322--6128387 Score: 62
Period size: 22 Copynumber: 3.0 Consensus size: 22
6128312 TGATAGTAAT
* *
6128322 CAGAATGGCTA-AGAGCCGTAAA
1 CAGAATAGCTACA-AGCCATAAA
* * *
6128344 CAGGATAGCTATAAGCTATAAA
1 CAGAATAGCTACAAGCCATAAA
*
6128366 CAGAATGGCTACAAGCCATAAA
1 CAGAATAGCTACAAGCCATAAA
6128388 TATAGCAATA
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
22 34 0.97
23 1 0.03
ACGTcount: A:0.44, C:0.18, G:0.21, T:0.17
Consensus pattern (22 bp):
CAGAATAGCTACAAGCCATAAA
Found at i:6128433 original size:32 final size:32
Alignment explanation
Indices: 6128395--6128516 Score: 133
Period size: 32 Copynumber: 3.8 Consensus size: 32
6128385 AAATATAGCA
* * *
6128395 ATATGATTGGCCCAAAGCCATCAGTAGCAGTG
1 ATATGATCGGCACAAAGCCATCAGTAACAGTG
* * *
6128427 ATATGATCAGCACACAGCCATCAGTAAC-GATA
1 ATATGATCGGCACAAAGCCATCAGTAACAG-TG
6128459 ATATGATCGG-ATCAAAGCCATCAGTAACAGTG
1 ATATGATCGGCA-CAAAGCCATCAGTAACAGTG
*
6128491 ATATGATCGGTACACAA-CCATCAGTA
1 ATATGATCGGCACA-AAGCCATCAGTA
6128517 GTATCGCAGC
Statistics
Matches: 76, Mismatches: 9, Indels: 10
0.80 0.09 0.11
Matches are distributed among these distances:
31 2 0.03
32 70 0.92
33 4 0.05
ACGTcount: A:0.37, C:0.22, G:0.20, T:0.21
Consensus pattern (32 bp):
ATATGATCGGCACAAAGCCATCAGTAACAGTG
Found at i:6128673 original size:16 final size:16
Alignment explanation
Indices: 6128652--6128682 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
6128642 TACCAACCCC
*
6128652 ATGCAGTATGTCATGT
1 ATGCAGAATGTCATGT
6128668 ATGCAGAATGTCATG
1 ATGCAGAATGTCATG
6128683 CTCAAAATTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.13, G:0.26, T:0.32
Consensus pattern (16 bp):
ATGCAGAATGTCATGT
Found at i:6128720 original size:24 final size:24
Alignment explanation
Indices: 6128692--6128745 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
6128682 GCTCAAAATT
*
6128692 AGTCATACAATTCACAGACAAAAC
1 AGTCATACAAATCACAGACAAAAC
** * *
6128716 AGTCATTTAAATCACAGATAAATC
1 AGTCATACAAATCACAGACAAAAC
6128740 AGTCAT
1 AGTCAT
6128746 TTTCATCACG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.46, C:0.20, G:0.09, T:0.24
Consensus pattern (24 bp):
AGTCATACAAATCACAGACAAAAC
Found at i:6129033 original size:79 final size:79
Alignment explanation
Indices: 6128902--6129066 Score: 296
Period size: 79 Copynumber: 2.1 Consensus size: 79
6128892 AATTCGGTCA
* *
6128902 TTTTACCACGTATCGCACGTTAAGCTTATCACTCGAGCGCGAGCGCACTCGTGATGTCTCGAATG
1 TTTTAACACGTATCGCACGTTAAGCTTACCACTCGAGCGCGAGCGCACTCGTGATGTCTCGAATG
6128967 TC-GTGCTCATGACT
66 -CGGTGCTCATGACT
6128981 TTTTAACACGTATCGCACGTTAAGCTTACCACTCGAGCGCGAGCGCACTCGTGATGTCTCGAATG
1 TTTTAACACGTATCGCACGTTAAGCTTACCACTCGAGCGCGAGCGCACTCGTGATGTCTCGAATG
6129046 CGGTGCTCATGACT
66 CGGTGCTCATGACT
6129060 TTTTAAC
1 TTTTAAC
6129067 TTTTACCGCT
Statistics
Matches: 83, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
78 1 0.01
79 82 0.99
ACGTcount: A:0.21, C:0.27, G:0.22, T:0.29
Consensus pattern (79 bp):
TTTTAACACGTATCGCACGTTAAGCTTACCACTCGAGCGCGAGCGCACTCGTGATGTCTCGAATG
CGGTGCTCATGACT
Found at i:6136423 original size:15 final size:15
Alignment explanation
Indices: 6136400--6136431 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
6136390 TTTATTTGGT
*
6136400 TTTAGATCAAGTTAA
1 TTTAAATCAAGTTAA
6136415 TTTAAATCAAGTTAA
1 TTTAAATCAAGTTAA
6136430 TT
1 TT
6136432 AAGATTTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.41, C:0.06, G:0.09, T:0.44
Consensus pattern (15 bp):
TTTAAATCAAGTTAA
Found at i:6136640 original size:15 final size:15
Alignment explanation
Indices: 6136620--6136660 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
6136610 CTCTAATCAT
* *
6136620 TTTAAATTTAGATTA
1 TTTAAAATTAAATTA
6136635 TTTAAAATTAAATTA
1 TTTAAAATTAAATTA
6136650 TTTCAAAATTA
1 TTT-AAAATTA
6136661 TTTTAAATTC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 16 0.70
16 7 0.30
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.49
Consensus pattern (15 bp):
TTTAAAATTAAATTA
Found at i:6137335 original size:22 final size:21
Alignment explanation
Indices: 6137300--6137344 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
6137290 ATCTACTCAC
*
6137300 TTTTTTATGTTTGAATCTCTTT
1 TTTTTTATGCTTGAATC-CTTT
*
6137322 TTTTTTTTGCTTGAATCCTTT
1 TTTTTTATGCTTGAATCCTTT
6137343 TT
1 TT
6137345 ATTTCATTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 6 0.29
22 15 0.71
ACGTcount: A:0.11, C:0.11, G:0.09, T:0.69
Consensus pattern (21 bp):
TTTTTTATGCTTGAATCCTTT
Found at i:6146404 original size:23 final size:21
Alignment explanation
Indices: 6146353--6146394 Score: 66
Period size: 23 Copynumber: 1.9 Consensus size: 21
6146343 GATAGCACAT
6146353 AATAAATTGAAAATAATTTAAAA
1 AATAAATTGAAAATAA--TAAAA
6146376 AATAAATTGAAAATAATAA
1 AATAAATTGAAAATAATAA
6146395 TAATGATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 3 0.16
23 16 0.84
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.29
Consensus pattern (21 bp):
AATAAATTGAAAATAATAAAA
Found at i:6146428 original size:16 final size:17
Alignment explanation
Indices: 6146393--6146431 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
6146383 TGAAAATAAT
*
6146393 AATAATGATAAACTTAA
1 AATAATGATAAACCTAA
*
6146410 AATAATGAT-AGCCTAA
1 AATAATGATAAACCTAA
6146426 AATAAT
1 AATAAT
6146432 AATATATGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 11 0.55
17 9 0.45
ACGTcount: A:0.56, C:0.08, G:0.08, T:0.28
Consensus pattern (17 bp):
AATAATGATAAACCTAA
Found at i:6148643 original size:18 final size:17
Alignment explanation
Indices: 6148622--6148668 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 17
6148612 CTATTATAAC
6148622 TATTTATATATACCATCT
1 TATTTATATATA-CATCT
* *
6148640 TATTATATATTTATATCT
1 TATT-TATATATACATCT
6148658 TA-TTATATATA
1 TATTTATATATA
6148669 TCTATATATC
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
16 7 0.28
17 1 0.04
18 10 0.40
19 7 0.28
ACGTcount: A:0.36, C:0.09, G:0.00, T:0.55
Consensus pattern (17 bp):
TATTTATATATACATCT
Found at i:6148845 original size:30 final size:29
Alignment explanation
Indices: 6148809--6148865 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 29
6148799 ATATATATAT
*
6148809 ATATACATACTTACACTGTTTTATTTTACG
1 ATATACATACTTACA-TCTTTTATTTTACG
*
6148839 ATATACATACTTATATCTTTTATTTTA
1 ATATACATACTTACATCTTTTATTTTA
6148866 TGTAATATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 11 0.44
30 14 0.56
ACGTcount: A:0.32, C:0.14, G:0.04, T:0.51
Consensus pattern (29 bp):
ATATACATACTTACATCTTTTATTTTACG
Found at i:6154270 original size:49 final size:49
Alignment explanation
Indices: 6154217--6154315 Score: 189
Period size: 49 Copynumber: 2.0 Consensus size: 49
6154207 ATAATTTAAA
*
6154217 ATCATTGATAGATTATACAAATTAAATTATTATAAAAATAATATGATAC
1 ATCATTGATAGATTATACAAAATAAATTATTATAAAAATAATATGATAC
6154266 ATCATTGATAGATTATACAAAATAAATTATTATAAAAATAATATGATAC
1 ATCATTGATAGATTATACAAAATAAATTATTATAAAAATAATATGATAC
6154315 A
1 A
6154316 ATACGAATAC
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.53, C:0.06, G:0.06, T:0.35
Consensus pattern (49 bp):
ATCATTGATAGATTATACAAAATAAATTATTATAAAAATAATATGATAC
Found at i:6156222 original size:44 final size:45
Alignment explanation
Indices: 6156107--6156232 Score: 125
Period size: 44 Copynumber: 2.8 Consensus size: 45
6156097 GGATTATCGA
* **
6156107 CTTCAATCTGCTCCACTGCAACCTCAATGAGATAAGA-TTTGCTT
1 CTTCAGTCTGCTCCACTGCAACCTCAGGGAGATAAGACTTTGCTT
* ** * * *
6156151 CTTCAGTCTAC-CCTACTGTGACTTCAGGGGGATAAGACTTAT-TTT
1 CTTCAGTCTGCTCC-ACTGCAACCTCAGGGAGATAAGACTT-TGCTT
6156196 CTT-AGTCTGCTCCACTGCAACCTCAGGGAGATAAGAC
1 CTTCAGTCTGCTCCACTGCAACCTCAGGGAGATAAGAC
6156233 CTGATGCGAT
Statistics
Matches: 64, Mismatches: 14, Indels: 8
0.74 0.16 0.09
Matches are distributed among these distances:
43 2 0.03
44 52 0.81
45 9 0.14
46 1 0.02
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.30
Consensus pattern (45 bp):
CTTCAGTCTGCTCCACTGCAACCTCAGGGAGATAAGACTTTGCTT
Found at i:6156480 original size:218 final size:217
Alignment explanation
Indices: 6156011--6156553 Score: 694
Period size: 218 Copynumber: 2.5 Consensus size: 217
6156001 TCTAGTCGGC
* ** * * * *
6156011 AAGACTTGATGCGATCTGCTCTATTGCAACTTCAGAGAGATATGATCTATTAATTTAATCCGCTC
1 AAGACCTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCTGCTC
* * * * *
6156076 CATTATAACCTAAGGGAGATAGGATTATCGACTTCAATCTGCTCCACTGCAACCTCAATGAGATA
66 CACTATAACTTCAGGGAGATAGGATTATCGGCTTCAATCTGCTCCACTGCAACCTCAAGGAGATA
* ** * * * * *
6156141 AGATTTGCTTCTTCAGTCTACCCTACTGTGACTTCAGGGGGATAAGACTTATTTTCTTAGTCTGC
131 AGATTTGCATCTTCAGTCTACCCTACTGCAACTTCAGGGGGATAAGACCTACTTACTCAATCTGC
6156206 TCCACTGCAACCTCAGGGAGAT
196 TCCACTGCAACCTCAGGGAGAT
* *
6156228 AAGACCTGATGCGATCCACTCTACTGCAACTTCAGATAGATAAGATATATTACTTTAATCTGCTC
1 AAGACCTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCTGCTC
* * * * * *
6156293 CACTACAACTTCAGGGAGACAGGATTATCGGCTTCAATCTGCTCTACTGTAACTTCAGGGAGATA
66 CACTATAACTTCAGGGAGATAGGATTATCGGCTTCAATCTGCTCCACTGCAACCTCAAGGAGATA
* * *
6156358 AGATTTGTCATCTTC-GATCTGCCAC-ACTGCAACTTTAGGGGGATAAGACCTGCTTACTCAATC
131 AGATTTG-CATCTTCAG-TCTACC-CTACTGCAACTTCAGGGGGATAAGACCTACTTACTCAATC
* * ** *
6156421 TGCTTCGCTGCAATTTTAGGGAGAT
193 TGCTCCACTGCAACCTCAGGGAGAT
* *
6156446 AAGACCTGATGCGATCCACTCTGCTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCTGCTT
1 AAGACCTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCTGCTC
*
6156511 CACTATAACTTCAGGGAGATAGGATTATCAGCTTCAATCTGCT
66 CACTATAACTTCAGGGAGATAGGATTATCGGCTTCAATCTGCT
6156554 TCCTTACACT
Statistics
Matches: 280, Mismatches: 43, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
217 118 0.42
218 161 0.57
219 1 0.00
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.31
Consensus pattern (217 bp):
AAGACCTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCTGCTC
CACTATAACTTCAGGGAGATAGGATTATCGGCTTCAATCTGCTCCACTGCAACCTCAAGGAGATA
AGATTTGCATCTTCAGTCTACCCTACTGCAACTTCAGGGGGATAAGACCTACTTACTCAATCTGC
TCCACTGCAACCTCAGGGAGAT
Found at i:6156683 original size:128 final size:128
Alignment explanation
Indices: 6156541--6156836 Score: 466
Period size: 128 Copynumber: 2.3 Consensus size: 128
6156531 AGGATTATCA
*
6156541 GCTTCAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTACTGCT
1 GCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTACTGCT
* * * * * *
6156606 TAGGGAGACAATATCTGTAATTTCTAACCTATTCCACTGCTGGCCAGGGATATAGGACTTGTG
66 TAGGGAGACAAGATCTATAATTTCCAACCTATTCCACTGCTGACCAGGGACATAGGACATGTG
** * * *
6156669 GCTTAAATCTGCTTCCTTACTGTTGAAGATAAGATTTGTCGTCTTTGATCTGCTCCGCTACTGCT
1 GCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTACTGCT
6156734 TAGGGAGACAAGATCTATAATTTCCAACCTATTCCACTGCTGACCAGGGACATAGGACATGTG
66 TAGGGAGACAAGATCTATAATTTCCAACCTATTCCACTGCTGACCAGGGACATAGGACATGTG
* *
6156797 GCTTAAATCTACTTCCTTACACTTGATGATAAGATTCGCC
1 GCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCC
6156837 AGGGAGATAA
Statistics
Matches: 150, Mismatches: 18, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
128 150 1.00
ACGTcount: A:0.24, C:0.24, G:0.19, T:0.32
Consensus pattern (128 bp):
GCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTACTGCT
TAGGGAGACAAGATCTATAATTTCCAACCTATTCCACTGCTGACCAGGGACATAGGACATGTG
Found at i:6156935 original size:44 final size:44
Alignment explanation
Indices: 6156887--6157111 Score: 105
Period size: 44 Copynumber: 5.1 Consensus size: 44
6156877 TCTTGGAAAT
*
6156887 ATAAGATTTTCCATCCTCGATCTGCTCCACTACTACTTAGGGAG
1 ATAAGATTTTCCATCCTCAATCTGCTCCACTACTACTTAGGGAG
* * * * * * * * * *
6156931 ATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAAGGAG
1 ATAAGATTTTCCATCCTCAATCTGCTCCACTACTACTTAGGGAG
** ***** * * *
6156975 ATAAGGCTTGGTGGCATAAATCTGCTTCC-C-ACTATCTT-GGAAAG
1 ATAAGATTTTCCATCCTCAATCTGC-TCCACTACTA-CTTAGG-GAG
* * *
6157019 ATAAGATTTTCCATCCTCGATCTGTTCCACTACTGCTTAGGGAG
1 ATAAGATTTTCCATCCTCAATCTGCTCCACTACTACTTAGGGAG
* * * ** * * * *
6157063 ATAAGATCTACAATATTCAACCTACTCCACTGCTACTCAGGGAG
1 ATAAGATTTTCCATCCTCAATCTGCTCCACTACTACTTAGGGAG
6157107 ATAAG
1 ATAAG
6157112 GCTAGCAATT
Statistics
Matches: 122, Mismatches: 53, Indels: 12
0.65 0.28 0.06
Matches are distributed among these distances:
43 6 0.05
44 108 0.89
45 8 0.07
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (44 bp):
ATAAGATTTTCCATCCTCAATCTGCTCCACTACTACTTAGGGAG
Found at i:6156999 original size:132 final size:132
Alignment explanation
Indices: 6156839--6157114 Score: 498
Period size: 132 Copynumber: 2.1 Consensus size: 132
6156829 GATTCGCCAG
*
6156839 GGAGATAAGGCTTGGTGGCATAAATCTGCTTCCCACTATCTTGGAAATATAAGATTTTCCATCCT
1 GGAGATAAGGCTTGGTGGCATAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTTCCATCCT
* *
6156904 CGATCTGCTCCACTACTACTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTC
66 CGATCTGCTCCACTACTACTTAGGGAGATAAGATCTACAATATTCAACCTACTCCACTGCTACTC
6156969 AA
131 AA
6156971 GGAGATAAGGCTTGGTGGCATAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTTCCATCCT
1 GGAGATAAGGCTTGGTGGCATAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTTCCATCCT
* *
6157036 CGATCTGTTCCACTACTGCTTAGGGAGATAAGATCTACAATATTCAACCTACTCCACTGCTACTC
66 CGATCTGCTCCACTACTACTTAGGGAGATAAGATCTACAATATTCAACCTACTCCACTGCTACTC
*
6157101 AG
131 AA
6157103 GGAGATAAGGCT
1 GGAGATAAGGCT
6157115 AGCAATTTCA
Statistics
Matches: 138, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
132 138 1.00
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.29
Consensus pattern (132 bp):
GGAGATAAGGCTTGGTGGCATAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTTCCATCCT
CGATCTGCTCCACTACTACTTAGGGAGATAAGATCTACAATATTCAACCTACTCCACTGCTACTC
AA
Found at i:6158332 original size:15 final size:15
Alignment explanation
Indices: 6158309--6158342 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
6158299 AGCCTATCCA
6158309 TTTTAATTTTTCATT
1 TTTTAATTTTTCATT
*
6158324 TTTTCATTTTTCATT
1 TTTTAATTTTTCATT
6158339 TTTT
1 TTTT
6158343 TCTTTGACTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTTAATTTTTCATT
Found at i:6162250 original size:108 final size:105
Alignment explanation
Indices: 6162054--6162256 Score: 318
Period size: 108 Copynumber: 1.9 Consensus size: 105
6162044 ACATGGATTA
* *
6162054 AAATTTAAGAGGATATTTGGCTATTTGGTTAAACGAGAAATCGAAACCTAGCACATTAGGGCACA
1 AAATTTAAAAGGATATTTAGCTATTTGGTTAAACGAGAAATCGAAACCTAGCACATTAGGGCACA
6162119 TTTCCTCGAATTTCCAAACGCAAAATATTGTCTTATTTCG
66 TTTCCTCGAATTTCCAAACGCAAAATATTGTCTTATTTCG
* *
6162159 AAATTTGAAAAGGATATTTAGCTATTTGGTTGAATGAGAAAAATCGAAA-CTCAGCACATTAGGG
1 AAATTT-AAAAGGATATTTAGCTATTTGGTTAAACGAG--AAATCGAAACCT-AGCACATTAGGG
*
6162223 CACGTTTCCTCGAATTTCCAAACGCAAAATATTG
62 CACATTTCCTCGAATTTCCAAACGCAAAATATTG
6162257 CGTTTATTAT
Statistics
Matches: 89, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
105 6 0.07
106 27 0.30
107 2 0.02
108 54 0.61
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.30
Consensus pattern (105 bp):
AAATTTAAAAGGATATTTAGCTATTTGGTTAAACGAGAAATCGAAACCTAGCACATTAGGGCACA
TTTCCTCGAATTTCCAAACGCAAAATATTGTCTTATTTCG
Found at i:6163219 original size:3 final size:3
Alignment explanation
Indices: 6163192--6163278 Score: 86
Period size: 3 Copynumber: 29.0 Consensus size: 3
6163182 AATATAATGC
* * * * ** *
6163192 TAA TAA CAA TAA TAT TAA TAC TAA TAA TAA TAG TAA GGA TGA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
6163240 TAA TAA TAA TAA TAA TAA TAA TAA TGAA CAA -AA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA
6163279 AATTGCTAAA
Statistics
Matches: 69, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
2 2 0.03
3 65 0.94
4 2 0.03
ACGTcount: A:0.61, C:0.03, G:0.06, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:6164961 original size:50 final size:50
Alignment explanation
Indices: 6164899--6165592 Score: 356
Period size: 50 Copynumber: 13.9 Consensus size: 50
6164889 TACACCGCCA
* *
6164899 GGGAAAGTAAGATTTGCCGTTGTTGCCTCAATCTTTTAATTGCAATGTCG
1 GGGAAAGTAAGATTCGCCGTTGTAGCCTCAATCTTTTAATTGCAATGTCG
* * ** * * ** * *
6164949 GGGAAAGCAAGATTCGCCGTTGTAGCTTCAATCTATTCCACTACACCGCCT
1 GGGAAAGTAAGATTCGCCGTTGTAGCCTCAATCT-TTTAATTGCAATGTCG
* * * *
6165000 AGGAAAGTAAGATTCACTGTTGTGGCCTCAATCTTTTAATTGCAAATGTCG
1 GGGAAAGTAAGATTCGCCGTTGTAGCCTCAATCTTTTAATTGC-AATGTCG
* * * * ** * ** * *
6165051 GGG-AAGTGAGATTTGCCGTT-TAGCTTCAATATGTTCGACTGCACCGCCT
1 GGGAAAGTAAGATTCGCCGTTGTAGCCTCAATCT-TTTAATTGCAATGTCG
* *
6165100 GGGAAAGTAAGATTCGTCGTTGTGGCCTCAATCTTTTAATTGCAATGTCG
1 GGGAAAGTAAGATTCGCCGTTGTAGCCTCAATCTTTTAATTGCAATGTCG
* * ** * * *
6165150 GGG-AAGTGAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGC-ATCGCCT
1 GGGAAAGTAAGATTCGCCGTTGTAGCCTCAATCT-TTTAATTGCAAT-GTCG
* *
6165200 GGGAAAGTAAGATTCGCCGTTGTGGCCTCAATCTTTTAATTGCAATTTCG
1 GGGAAAGTAAGATTCGCCGTTGTAGCCTCAATCTTTTAATTGCAATGTCG
** * * * * * * *
6165250 GGG-AAGCGAGATTCGCCGTTGTAGCTTTAATATGTTCCACTGTGC--CGTCT
1 GGGAAAGTAAGATTCGCCGTTGTAGCCTCAATCT-TT-TAAT-TGCAATGTCG
* * * * * * *** *
6165300 GGG-AAGTAAGATTTGCCATTGAAGCTTCAAT-TTGTTCCACTGCACCCTCT
1 GGGAAAGTAAGATTCGCCGTTGTAGCCTCAATCTT-TT-AATTGCAATGTCG
* * *
6165350 GGG-AAGTAAGATTCACCGTTGTGGCCTCAATCTTTTAATTGCAATGTCA
1 GGGAAAGTAAGATTCGCCGTTGTAGCCTCAATCTTTTAATTGCAATGTCG
* * **** **** *
6165399 GGG-AAGCAAGATTCGCCGTTGTAGCTTCAATCTATTCCGCTGCACCACCT
1 GGGAAAGTAAGATTCGCCGTTGTAGCCTCAATCT-TTTAATTGCAATGTCG
* * * * * **
6165449 GGG-AGGTAAGATTCACCGTTGTGGCCACAATCTTTTAATTGCAAGGTTA
1 GGGAAAGTAAGATTCGCCGTTGTAGCCTCAATCTTTTAATTGCAATGTCG
* * * * ** * *
6165498 GGG-AAGCAAGATTCGCCGTCGTAGCTTCAATCTGTTCT-ACTGCACCGCCT
1 GGGAAAGTAAGATTCGCCGTTGTAGCCTCAATCT-TT-TAATTGCAATGTCG
* * *
6165548 GGG-AAGTAAGATTCGCCATTGTGGCTTCAATCTATTTAATTGCAA
1 GGGAAAGTAAGATTCGCCGTTGTAGCCTCAATCT-TTTAATTGCAA
6165593 ACTATGGTTT
Statistics
Matches: 468, Mismatches: 155, Indels: 42
0.70 0.23 0.06
Matches are distributed among these distances:
48 4 0.01
49 138 0.29
50 239 0.51
51 84 0.18
52 3 0.01
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.31
Consensus pattern (50 bp):
GGGAAAGTAAGATTCGCCGTTGTAGCCTCAATCTTTTAATTGCAATGTCG
Found at i:6165122 original size:100 final size:100
Alignment explanation
Indices: 6164858--6165312 Score: 644
Period size: 100 Copynumber: 4.5 Consensus size: 100
6164848 AAGGAAGTAT
* * * * * * *
6164858 GATTCGCCGTCGTGGCTTCAATCTATTCCACTACACCGCCAGGGAAAGTAAGATTTGCCGTTGTT
1 GATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCTGGGAAAGTAAGATTCGCCGTTGTG
*
6164923 GCCTCAATCTTTTAATTGCAATGTCGGGGAAAGCAA
66 GCCTCAATCTTTTAATTGCAATGTCGGGG-AAGCGA
* * * * *
6164959 GATTCGCCGTTGTAGCTTCAATCTATTCCACTACACCGCCTAGGAAAGTAAGATTCACTGTTGTG
1 GATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCTGGGAAAGTAAGATTCGCCGTTGTG
*
6165024 GCCTCAATCTTTTAATTGCAAATGTCGGGGAAGTGA
66 GCCTCAATCTTTTAATTGC-AATGTCGGGGAAGCGA
* * * *
6165060 GATTTGCCGTT-TAGCTTCAATATGTTCGACTGCACCGCCTGGGAAAGTAAGATTCGTCGTTGTG
1 GATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCTGGGAAAGTAAGATTCGCCGTTGTG
*
6165124 GCCTCAATCTTTTAATTGCAATGTCGGGGAAGTGA
66 GCCTCAATCTTTTAATTGCAATGTCGGGGAAGCGA
*
6165159 GATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCATCGCCTGGGAAAGTAAGATTCGCCGTTGTG
1 GATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCTGGGAAAGTAAGATTCGCCGTTGTG
*
6165224 GCCTCAATCTTTTAATTGCAATTTCGGGGAAGCGA
66 GCCTCAATCTTTTAATTGCAATGTCGGGGAAGCGA
* * ** *
6165259 GATTCGCCGTTGTAGCTTTAATATGTTCCACTGTGCCGTCTGGG-AAGTAAGATT
1 GATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCTGGGAAAGTAAGATT
6165313 TGCCATTGAA
Statistics
Matches: 320, Mismatches: 32, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
99 36 0.11
100 184 0.57
101 90 0.28
102 10 0.03
ACGTcount: A:0.23, C:0.22, G:0.24, T:0.31
Consensus pattern (100 bp):
GATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCTGGGAAAGTAAGATTCGCCGTTGTG
GCCTCAATCTTTTAATTGCAATGTCGGGGAAGCGA
Found at i:6165354 original size:100 final size:100
Alignment explanation
Indices: 6164850--6165380 Score: 467
Period size: 100 Copynumber: 5.3 Consensus size: 100
6164840 GCAATGTCAA
* * * * * * *
6164850 GGAAGT-ATGATTCGCCGTCGTGGCTTCAATCTATTCCACTACACCGCCAGGGAAAGTAAGATTT
1 GGAAGTGA-GATTCGCCGTTGTAGCTTCAATATGTTCCACTGCACCGCCTGGGAAAGTAAGATTC
* ** * **
6164914 GCCGTTGTTGCCTCAATCTTTTAATTGCAATGTCGG
65 GCCATTGAAGCCTCAATCTTTTAACTGCAACCTCGG
** * * * *
6164950 GGAAAGCAAGATTCGCCGTTGTAGCTTCAATCTATTCCACTACACCGCCTAGGAAAGTAAGATTC
1 GG-AAGTGAGATTCGCCGTTGTAGCTTCAATATGTTCCACTGCACCGCCTGGGAAAGTAAGATTC
* ** ** * **
6165015 ACTGTTGTGGCCTCAATCTTTTAATTGCAAATGTCGG
65 GCCATTGAAGCCTCAATCTTTTAACTGC-AACCTCGG
* *
6165052 GGAAGTGAGATTTGCCGTT-TAGCTTCAATATGTTCGACTGCACCGCCTGGGAAAGTAAGATTCG
1 GGAAGTGAGATTCGCCGTTGTAGCTTCAATATGTTCCACTGCACCGCCTGGGAAAGTAAGATTCG
* * ** * **
6165116 TCGTTGTGGCCTCAATCTTTTAATTGCAATGTCGG
66 CCATTGAAGCCTCAATCTTTTAACTGCAACCTCGG
* *
6165151 GGAAGTGAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCATCGCCTGGGAAAGTAAGATTCG
1 GGAAGTGAGATTCGCCGTTGTAGCTTCAATATGTTCCACTGCACCGCCTGGGAAAGTAAGATTCG
* ** * **
6165216 CCGTTGTGGCCTCAATCTTTTAATTGCAATTTCGG
66 CCATTGAAGCCTCAATCTTTTAACTGCAACCTCGG
* * ** * *
6165251 GGAAGCGAGATTCGCCGTTGTAGCTTTAATATGTTCCACTGTGCCGTCTGGG-AAGTAAGATTTG
1 GGAAGTGAGATTCGCCGTTGTAGCTTCAATATGTTCCACTGCACCGCCTGGGAAAGTAAGATTCG
* * * *
6165315 CCATTGAAGCTTCAAT-TTGTTCCACTGCACCCTCTG
66 CCATTGAAGCCTCAATCTT-TT-AACTGCAACCTCGG
* * * *
6165351 GGAAGTAAGATTCACCGTTGTGGCCTCAAT
1 GGAAGTGAGATTCGCCGTTGTAGCTTCAAT
6165381 CTTTTAATTG
Statistics
Matches: 375, Mismatches: 50, Indels: 12
0.86 0.11 0.03
Matches are distributed among these distances:
98 2 0.01
99 51 0.14
100 218 0.58
101 93 0.25
102 11 0.03
ACGTcount: A:0.23, C:0.22, G:0.24, T:0.31
Consensus pattern (100 bp):
GGAAGTGAGATTCGCCGTTGTAGCTTCAATATGTTCCACTGCACCGCCTGGGAAAGTAAGATTCG
CCATTGAAGCCTCAATCTTTTAACTGCAACCTCGG
Found at i:6165356 original size:200 final size:200
Alignment explanation
Indices: 6164858--6165382 Score: 588
Period size: 200 Copynumber: 2.6 Consensus size: 200
6164848 AAGGAAGTAT
* * * * * * * * **
6164858 GATTCGCCGTCGTGGCTTCAATCTATTCCACTACACCGCCAGGGAAAGTAAGATTTGCCGTTGTT
1 GATTCGCCGT-TTAGCTTCAATATGTTCCACTGCACCGCCTGGGAAAGTAAGATTCGCCATTGAA
* ** *
6164923 GCCTCAATCTTTTAATTGCAATGTCGGGGAAAGCAAGATTCGCCGTTGTAGCTTCAATCTATTCC
65 GCCTCAATCTTTTAACTGCAACCTCGGGG-AAGTAAGATTCGCCGTTGTAGCTTCAATCTATTCC
*
6164988 ACTACACCGCCTAGGAAAGTAAGATTCACTGTTGTGGCCTCAATCTTTTAATTGCAAATGTCGGG
129 ACTACACCGCCTAGGAAAGTAAGATTCACCGTTGTGGCCTCAATCTTTTAATTGCAAATGTCGGG
*
6165053 GAAGTGA
194 GAAGCGA
* * * * **
6165060 GATTTGCCGTTTAGCTTCAATATGTTCGACTGCACCGCCTGGGAAAGTAAGATTCGTCGTTGTGG
1 GATTCGCCGTTTAGCTTCAATATGTTCCACTGCACCGCCTGGGAAAGTAAGATTCGCCATTGAAG
* ** * *
6165125 CCTCAATCTTTTAATTGCAATGTCGGGGAAGTGAGATTCGCCGTTGTAGCTTCAATCTGTTCCAC
66 CCTCAATCTTTTAACTGCAACCTCGGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTATTCCAC
* * * * *
6165190 TGCATCGCCTGGGAAAGTAAGATTCGCCGTTGTGGCCTCAATCTTTTAATTGC-AATTTCGGGGA
131 TACACCGCCTAGGAAAGTAAGATTCACCGTTGTGGCCTCAATCTTTTAATTGCAAATGTCGGGGA
6165254 AGCGA
196 AGCGA
* ** * *
6165259 GATTCGCCGTTGTAGCTTTAATATGTTCCACTGTGCCGTCTGGG-AAGTAAGATTTGCCATTGAA
1 GATTCGCCGTT-TAGCTTCAATATGTTCCACTGCACCGCCTGGGAAAGTAAGATTCGCCATTGAA
* * * * * * *
6165323 GCTTCAAT-TTGTTCCACTGCACCCTCTGGGAAGTAAGATTCACCGTTGTGGCCTCAATCT
65 GCCTCAATCTT-TT-AACTGCAACCTCGGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCT
6165383 TTTAATTGCA
Statistics
Matches: 277, Mismatches: 43, Indels: 8
0.84 0.13 0.02
Matches are distributed among these distances:
198 2 0.01
199 48 0.17
200 145 0.52
201 73 0.26
202 9 0.03
ACGTcount: A:0.23, C:0.22, G:0.24, T:0.31
Consensus pattern (200 bp):
GATTCGCCGTTTAGCTTCAATATGTTCCACTGCACCGCCTGGGAAAGTAAGATTCGCCATTGAAG
CCTCAATCTTTTAACTGCAACCTCGGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTATTCCAC
TACACCGCCTAGGAAAGTAAGATTCACCGTTGTGGCCTCAATCTTTTAATTGCAAATGTCGGGGA
AGCGA
Found at i:6165404 original size:99 final size:99
Alignment explanation
Indices: 6165300--6165592 Score: 408
Period size: 99 Copynumber: 2.9 Consensus size: 99
6165290 TGTGCCGTCT
* * * * *
6165300 GGGAAGTAAGATTTGCCATTGAAGCTTCAATTTGTTCCACTGCACC-CTCTGGGAAGTAAGATTC
1 GGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACCAC-CTGGGAAGTAAGATTC
*
6165364 ACCGTTGTGGCCTCAATCTTTTAATTGCAATGTCA
65 ACCGTTGTGGCCTCAATCTTTTAATTGCAAGGTCA
* * *
6165399 GGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTATTCCGCTGCACCACCTGGGAGGTAAGATTCA
1 GGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACCACCTGGGAAGTAAGATTCA
* *
6165464 CCGTTGTGGCCACAATCTTTTAATTGCAAGGTTA
66 CCGTTGTGGCCTCAATCTTTTAATTGCAAGGTCA
* * * *
6165498 GGGAAGCAAGATTCGCCGTCGTAGCTTCAATCTGTTCTACTGCACCGCCTGGGAAGTAAGATTCG
1 GGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACCACCTGGGAAGTAAGATTCA
* *
6165563 CCATTGTGGCTTCAATCTATTTAATTGCAA
66 CCGTTGTGGCCTCAATCT-TTTAATTGCAA
6165593 ACTATGGTTT
Statistics
Matches: 171, Mismatches: 21, Indels: 3
0.88 0.11 0.02
Matches are distributed among these distances:
99 159 0.93
100 12 0.07
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.30
Consensus pattern (99 bp):
GGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACCACCTGGGAAGTAAGATTCA
CCGTTGTGGCCTCAATCTTTTAATTGCAAGGTCA
Found at i:6165451 original size:149 final size:150
Alignment explanation
Indices: 6164872--6165462 Score: 442
Period size: 149 Copynumber: 3.9 Consensus size: 150
6164862 CGCCGTCGTG
* * * ** *
6164872 GCTTCAATCTATTCCACTACA-CCGCCAGGGAAAGTAAGATTTGCCGTTGTTGCCTCAATCTTTT
1 GCTTCAATCTGTTCCACTGCATCC-CCTGGGAAAGTAAGATTCACCGTTGTGGCCTCAATCTTTT
* * * *
6164936 AATTGCAATGTCGGGGAAAGCAAGATTCGCCGTTGTAGCTTCAATCTATTCCACTACACCGCCTA
65 AATTGCAATGTCAGGG-AAGCAAGATTCGCCGTTGTAGCTTCAATATATTCCACTGCACCACCT-
* * ** **
6165001 GGAAAGTAAGATTCACTGTTGTG
128 GGGAAGTAAGATTCGCCATTGAA
* ** * ** * * ** * * *
6165024 GCCTCAATCT-TTTAATTGCAAAT-GTC-GGGGAAGTGAGATTTGCCGTT-TAGCTTCAATATGT
1 GCTTCAATCTGTTCCACTGC--ATCCCCTGGGAAAGTAAGATTCACCGTTGTGGCCTCAATCT-T
** * ** * * * * * * * ** * ****
6165085 TCGACTGCACCGCCTGGGAAAGTAAGATTCGTCGTTGTGGCCTCAATCT-TTTAATTGCAATGTC
63 TTAATTGCAATGTCAGGG-AAGCAAGATTCGCCGTTGTAGCTTCAATATATTCCACTGCACCACC
* * * *
6165149 GGGGAAGTGAGATTCGCCGTTGTA
127 TGGGAAGTAAGATTCGCCATTGAA
* *
6165173 GCTTCAATCTGTTCCACTGCATCGCCTGGGAAAGTAAGATTCGCCGTTGTGGCCTCAATCTTTTA
1 GCTTCAATCTGTTCCACTGCATCCCCTGGGAAAGTAAGATTCACCGTTGTGGCCTCAATCTTTTA
* * * * * ** **
6165238 ATTGCAATTTCGGGGAAGCGAGATTCGCCGTTGTAGCTTTAATATGTTCCACTGTGCCGTCTGGG
66 ATTGCAATGTCAGGGAAGCAAGATTCGCCGTTGTAGCTTCAATATATTCCACTGCACCACCTGGG
*
6165303 AAGTAAGATTTGCCATTGAA
131 AAGTAAGATTCGCCATTGAA
*
6165323 GCTTCAATTTGTTCCACTGCA-CCCTCTGGG-AAGTAAGATTCACCGTTGTGGCCTCAATCTTTT
1 GCTTCAATCTGTTCCACTGCATCCC-CTGGGAAAGTAAGATTCACCGTTGTGGCCTCAATCTTTT
* *
6165386 AATTGCAATGTCAGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTATTCCGCTGCACCACCTGG
65 AATTGCAATGTCAGGGAAGCAAGATTCGCCGTTGTAGCTTCAATATATTCCACTGCACCACCTGG
*
6165451 GAGGTAAGATTC
130 GAAGTAAGATTC
6165463 ACCGTTGTGG
Statistics
Matches: 339, Mismatches: 90, Indels: 23
0.75 0.20 0.05
Matches are distributed among these distances:
148 2 0.01
149 150 0.44
150 104 0.31
151 72 0.21
152 10 0.03
153 1 0.00
ACGTcount: A:0.24, C:0.22, G:0.23, T:0.31
Consensus pattern (150 bp):
GCTTCAATCTGTTCCACTGCATCCCCTGGGAAAGTAAGATTCACCGTTGTGGCCTCAATCTTTTA
ATTGCAATGTCAGGGAAGCAAGATTCGCCGTTGTAGCTTCAATATATTCCACTGCACCACCTGGG
AAGTAAGATTCGCCATTGAA
Found at i:6166898 original size:6 final size:6
Alignment explanation
Indices: 6166889--6166965 Score: 79
Period size: 6 Copynumber: 13.0 Consensus size: 6
6166879 TTGGCCTTTC
* * * *
6166889 CTTTTT CTTTTT CTTTTTT CTTTTT CATTTCT CTTCTT CTTCTT -TTCTT
1 CTTTTT CTTTTT C-TTTTT CTTTTT C-TTTTT CTTTTT CTTTTT CTTTTT
6166938 CTTTTT C--TTT CTTTTT CTTTTT CTTTTT
1 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT
6166966 TTGGTATGTT
Statistics
Matches: 62, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
4 4 0.06
5 5 0.08
6 42 0.68
7 11 0.18
ACGTcount: A:0.01, C:0.21, G:0.00, T:0.78
Consensus pattern (6 bp):
CTTTTT
Found at i:6166935 original size:16 final size:16
Alignment explanation
Indices: 6166906--6166966 Score: 54
Period size: 16 Copynumber: 3.8 Consensus size: 16
6166896 TTTTTCTTTT
* *
6166906 TTCTTTTTCATTTCTC
1 TTCTTCTTCTTTTCTC
6166922 TTCTTCTTCTTTTCTTC
1 TTCTTCTTCTTTTC-TC
*
6166939 TTTTTCTTTCTTTT-TC
1 TTCTTC-TTCTTTTCTC
*
6166955 TTTTTCTT-TTTT
1 TTCTTCTTCTTTT
6166967 TGGTATGTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
14 4 0.10
15 2 0.05
16 20 0.50
17 7 0.17
18 7 0.17
ACGTcount: A:0.02, C:0.21, G:0.00, T:0.77
Consensus pattern (16 bp):
TTCTTCTTCTTTTCTC
Found at i:6166966 original size:13 final size:13
Alignment explanation
Indices: 6166885--6166965 Score: 85
Period size: 13 Copynumber: 6.2 Consensus size: 13
6166875 CACCTTGGCC
*
6166885 TTTCCTTTTTCTT
1 TTTCTTTTTTCTT
6166898 TTTCTTTTTTCTT
1 TTTCTTTTTTCTT
* *
6166911 TTTCATTTCTCTT
1 TTTCTTTTTTCTT
*
6166924 CTTCTTCTTTTCTT
1 TTTCTT-TTTTCTT
*
6166938 CTTT-TTCTTTCTT
1 -TTTCTTTTTTCTT
6166951 TTTC-TTTTTCTT
1 TTTCTTTTTTCTT
6166963 TTT
1 TTT
6166966 TTGGTATGTT
Statistics
Matches: 56, Mismatches: 9, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
12 13 0.23
13 33 0.59
14 8 0.14
15 2 0.04
ACGTcount: A:0.01, C:0.21, G:0.00, T:0.78
Consensus pattern (13 bp):
TTTCTTTTTTCTT
Found at i:6170886 original size:108 final size:106
Alignment explanation
Indices: 6170694--6170893 Score: 310
Period size: 108 Copynumber: 1.9 Consensus size: 106
6170684 TGGATTAAAA
* *
6170694 TTTAAGAGGATATTTGGCTATATGGTTAAACGAGAAATCGAAACCCAGCACATTAGGGCACATTT
1 TTTAAAAGGATATTTAGCTATATGGTTAAACGAGAAATCGAAACCCAGCACATTAGGGCACATTT
*
6170759 CCTCGAATTTCCAACCGCAAAATATTGTCTTATTTCGAAAT
66 CCTCGAATTTCCAAACGCAAAATATTGTCTTATTTCGAAAT
* * * * *
6170800 TTTAAAAGGATATTTATCTATTTGGTTGAACGAGAAAAATCGAAACTCAGCACATTAGGGCACGT
1 TTTAAAAGGATATTTAGCTATATGGTTAAACGAG--AAATCGAAACCCAGCACATTAGGGCACAT
6170865 TTCCTCGAATTTCCAAACGCAAAATATTG
64 TTCCTCGAATTTCCAAACGCAAAATATTG
6170894 CGTTTATTAT
Statistics
Matches: 84, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
106 29 0.35
108 55 0.65
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.30
Consensus pattern (106 bp):
TTTAAAAGGATATTTAGCTATATGGTTAAACGAGAAATCGAAACCCAGCACATTAGGGCACATTT
CCTCGAATTTCCAAACGCAAAATATTGTCTTATTTCGAAAT
Found at i:6171929 original size:3 final size:3
Alignment explanation
Indices: 6171891--6171981 Score: 94
Period size: 3 Copynumber: 30.3 Consensus size: 3
6171881 AAATAGAAAT
* * * * * * *
6171891 ATA ATG ATA ATA ACA ATA ACA TTA ATA CTG ATA ATA ATA ATA GTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
6171939 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATGA ACA A-A ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA A
6171982 AATTGCTAAA
Statistics
Matches: 71, Mismatches: 15, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
2 2 0.03
3 67 0.94
4 2 0.03
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:6177065 original size:21 final size:21
Alignment explanation
Indices: 6177039--6177080 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
6177029 ACAATCAGTT
6177039 GGAAAGTCACTTTGCAAACTA
1 GGAAAGTCACTTTGCAAACTA
6177060 GGAAAGTCACTTTGCAAACTA
1 GGAAAGTCACTTTGCAAACTA
6177081 AGGCTTAGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.24
Consensus pattern (21 bp):
GGAAAGTCACTTTGCAAACTA
Found at i:6177941 original size:16 final size:15
Alignment explanation
Indices: 6177922--6177969 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 15
6177912 TATAAACTTC
6177922 AAATTTTAAAGTAAAA
1 AAATTTTAAA-TAAAA
*
6177938 AAATTAATAAATAAAA
1 AAATT-TTAAATAAAA
6177954 AAATTTATATAATAAA
1 AAATTT-TA-AATAAA
6177970 CAAGAAAAGG
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 17 0.63
17 10 0.37
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (15 bp):
AAATTTTAAATAAAA
Found at i:6177954 original size:17 final size:17
Alignment explanation
Indices: 6177933--6177969 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
6177923 AATTTTAAAG
6177933 TAAAAAAATTAATA-AA
1 TAAAAAAATTAATATAA
*
6177949 TAAAAAAATTTATATAA
1 TAAAAAAATTAATATAA
6177966 TAAA
1 TAAA
6177970 CAAGAAAAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 13 0.68
17 6 0.32
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (17 bp):
TAAAAAAATTAATATAA
Found at i:6177991 original size:5 final size:5
Alignment explanation
Indices: 6177981--6178005 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
6177971 AAGAAAAGGC
6177981 AAAAT AAAAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT
6178006 CCCTAAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:6179836 original size:29 final size:28
Alignment explanation
Indices: 6179783--6179882 Score: 68
Period size: 27 Copynumber: 3.5 Consensus size: 28
6179773 TAAAAAGATT
6179783 ATAAAAA-ATAAAAAT-TTATAGAATTTTA
1 ATAAAAATATAAAAATATTA-A-AATTTTA
6179811 ATAAAAATATAAAAATATTCAAAA--TTA
1 ATAAAAATATAAAAATATT-AAAATTTTA
* * *
6179838 GA-AAAATTATAAAAAAATTGTAACATTTT-
1 -ATAAAAATATAAAAATA-T-TAAAATTTTA
6179867 ATAAAAATCATAAAAA
1 ATAAAAAT-ATAAAAA
6179883 AAATTATAAA
Statistics
Matches: 58, Mismatches: 4, Indels: 18
0.73 0.05 0.22
Matches are distributed among these distances:
27 16 0.28
28 13 0.22
29 16 0.28
30 12 0.21
31 1 0.02
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (28 bp):
ATAAAAATATAAAAATATTAAAATTTTA
Found at i:6179904 original size:31 final size:30
Alignment explanation
Indices: 6179811--6179904 Score: 72
Period size: 31 Copynumber: 3.2 Consensus size: 30
6179801 TAGAATTTTA
* *
6179811 ATAAAAAT-ATAAAAATATT-CAA-AAT-T
1 ATAAAAATCATAAAAAAATTATAACAATGT
* * * * *
6179837 AGAAAAATTATAAAAAAATTGTAACATTTT
1 ATAAAAATCATAAAAAAATTATAACAATGT
6179867 ATAAAAATCATAAAAAAAATTATAA-AATGT
1 ATAAAAATCAT-AAAAAAATTATAACAATGT
6179897 ATCAAAAA
1 AT-AAAAA
6179905 GGTTCTTTAA
Statistics
Matches: 53, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
26 7 0.13
27 10 0.19
28 2 0.04
29 2 0.04
30 15 0.28
31 17 0.32
ACGTcount: A:0.64, C:0.04, G:0.03, T:0.29
Consensus pattern (30 bp):
ATAAAAATCATAAAAAAATTATAACAATGT
Found at i:6180232 original size:20 final size:21
Alignment explanation
Indices: 6180207--6180266 Score: 72
Period size: 20 Copynumber: 3.0 Consensus size: 21
6180197 TATATTTTAT
6180207 AATTTTTACAC-TTTTTATAA
1 AATTTTTACACATTTTTATAA
6180227 AA-TTTTACAGCATTTTTATAA
1 AATTTTTACA-CATTTTTATAA
**
6180248 TTTTTTTAC-CATTTTTATA
1 AATTTTTACACATTTTTATA
6180267 TTTTTTTTCT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
19 7 0.20
20 13 0.37
21 9 0.26
22 6 0.17
ACGTcount: A:0.32, C:0.10, G:0.02, T:0.57
Consensus pattern (21 bp):
AATTTTTACACATTTTTATAA
Found at i:6180274 original size:20 final size:20
Alignment explanation
Indices: 6180237--6180273 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
6180227 AATTTTACAG
6180237 CATTTTTATAATTTTTTTAC
1 CATTTTTATAATTTTTTTAC
6180257 CATTTTTAT-ATTTTTTT
1 CATTTTTATAATTTTTTT
6180274 TCTAATTTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.22, C:0.08, G:0.00, T:0.70
Consensus pattern (20 bp):
CATTTTTATAATTTTTTTAC
Found at i:6180282 original size:20 final size:20
Alignment explanation
Indices: 6180079--6180273 Score: 68
Period size: 19 Copynumber: 9.9 Consensus size: 20
6180069 TTGGTACGAT
*
6180079 AATTTCTATAATTTTTTTAC
1 AATTTTTATAATTTTTTTAC
* * *
6180099 AAATTTGAT-ATTTCTTTAC
1 AATTTTTATAATTTTTTTAC
**
6180118 -ATTTTT-TACATTTTTAAAC
1 AATTTTTATA-ATTTTTTTAC
* *
6180137 ATTTTTTATAATTTTCTTAC
1 AATTTTTATAATTTTTTTAC
* * * *
6180157 GA-CTTTATAAAATTTTATA-
1 AATTTTTAT-AATTTTTTTAC
* * * *
6180176 AATTTTTTTTCTATATTTCTA-
1 AA-TTTTTAT-AATTTTTTTAC
*
6180197 TATATTTTATAA--TTTTTAC
1 AAT-TTTTATAATTTTTTTAC
* **
6180216 ACTTTTTATAA-AATTTTAC
1 AATTTTTATAATTTTTTTAC
6180235 AGCATTTTTATAATTTTTTTAC
1 A--ATTTTTATAATTTTTTTAC
*
6180257 CATTTTTAT-ATTTTTTT
1 AATTTTTATAATTTTTTT
6180274 TCTAATTTTG
Statistics
Matches: 124, Mismatches: 38, Indels: 27
0.66 0.20 0.14
Matches are distributed among these distances:
17 1 0.01
18 17 0.14
19 38 0.31
20 35 0.28
21 27 0.22
22 6 0.05
ACGTcount: A:0.30, C:0.09, G:0.02, T:0.60
Consensus pattern (20 bp):
AATTTTTATAATTTTTTTAC
Done.