Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr2
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: 50190067
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Warning! 915496 characters in sequence are not A, C, G, or T
File 18 of 161
Found at i:6069738 original size:169 final size:169
Alignment explanation
Indices: 6069551--6070174 Score: 1018
Period size: 169 Copynumber: 3.7 Consensus size: 169
6069541 TGTTCTATTG
* * * * * *
6069551 TAATGCCAAAGAGATAGGATTCCCTTCCCACAGCTTTAATCTGCTTCTCTTCAGCTACTTCAAGT
1 TAATGCCAAAGAGATAGGATTCGCTGCCCACAGCTTTAATCCGCTCCACTTCAGCTATTTCAAGT
*
6069616 CTTAACGCCAGGGAGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTCCGCTGCAATGCTAGGGA
66 CTTAACGCCAGGGAGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTCCGCTGCAACGCTAGGGA
6069681 AACAAGATTCGCTACCTTTAGCTTTAATCTATTCCACCA
131 AACAAGATTCGCTACCTTTAGCTTTAATCTATTCCACCA
*
6069720 TAATGCCAAAGAGATAGGATTCGCTGCCCATAGCTTTAATCCGCTCCACTTCAGCTATTTCAAGT
1 TAATGCCAAAGAGATAGGATTCGCTGCCCACAGCTTTAATCCGCTCCACTTCAGCTATTTCAAGT
*
6069785 GTTAACGCCAGGGAGATAAGATTCGCTG-CCTCCAGCTTTAATCTGCTCCGCTGCAACGCTAGGG
66 CTTAACGCCAGGGAGATAAGATTCGCTGCCCT-CAGCTTTAATCTGCTCCGCTGCAACGCTAGGG
6069849 AAACAAGATTCGCTACCTTTAGCTTTAATCTATTCCACTC-
130 AAACAAGATTCGCTACCTTTAGCTTTAATCTATTCCAC-CA
* *
6069889 TAATGCGAAAGAGATAGGATTCGCTGCCCACAGCTTTATTCCGCTCCACTTCAGCTATTTCAAGT
1 TAATGCCAAAGAGATAGGATTCGCTGCCCACAGCTTTAATCCGCTCCACTTCAGCTATTTCAAGT
* *
6069954 CTTAACGCCAGAGAGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTCCACTGCAACGCTAGGGA
66 CTTAACGCCAGGGAGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTCCGCTGCAACGCTAGGGA
* * * *
6070019 AACAATATTCGCTACCTTTAGCTTTAATTTGTTCCACTA
131 AACAAGATTCGCTACCTTTAGCTTTAATCTATTCCACCA
* *
6070058 TAATGCCAAAGAGATAGGATTTGCTACCCACAGCTTTAATCCGCTCCACTTCAGCTATTTCAAGT
1 TAATGCCAAAGAGATAGGATTCGCTGCCCACAGCTTTAATCCGCTCCACTTCAGCTATTTCAAGT
* * *
6070123 CTTAACGCCAAGGAGATAAAATTCGCTGCCCTCAGCCTTAATCTGCTCCGCT
66 CTTAACGCCAGGGAGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTCCGCT
6070175 ATAACATCAG
Statistics
Matches: 423, Mismatches: 28, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
168 3 0.01
169 416 0.98
170 4 0.01
ACGTcount: A:0.26, C:0.28, G:0.17, T:0.29
Consensus pattern (169 bp):
TAATGCCAAAGAGATAGGATTCGCTGCCCACAGCTTTAATCCGCTCCACTTCAGCTATTTCAAGT
CTTAACGCCAGGGAGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTCCGCTGCAACGCTAGGGA
AACAAGATTCGCTACCTTTAGCTTTAATCTATTCCACCA
Found at i:6070297 original size:34 final size:34
Alignment explanation
Indices: 6070208--6070311 Score: 109
Period size: 34 Copynumber: 3.0 Consensus size: 34
6070198 GCAATCTTCA
* * * *
6070208 ACCTATTCCACTGTTAACCAAGGAGATAGGATTCAC
1 ACCTATTCCACTGCTGACCAGGGAGATAGGA--CTC
* *
6070244 AACCTATTCCACTGTTGACCAGGGAGATATGACTC
1 -ACCTATTCCACTGCTGACCAGGGAGATAGGACTC
* *
6070279 ACCTATTCTATTGCTGACCAGGGAGATAGGACT
1 ACCTATTCCACTGCTGACCAGGGAGATAGGACT
6070312 TATAATATTC
Statistics
Matches: 59, Mismatches: 8, Indels: 3
0.84 0.11 0.04
Matches are distributed among these distances:
34 29 0.49
35 2 0.03
37 28 0.47
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (34 bp):
ACCTATTCCACTGCTGACCAGGGAGATAGGACTC
Found at i:6070342 original size:44 final size:43
Alignment explanation
Indices: 6070293--6070440 Score: 208
Period size: 44 Copynumber: 3.4 Consensus size: 43
6070283 ATTCTATTGC
* *
6070293 TGACCAGGGAGATAGGACTTATAATATTCAACCTATTCCACTA
1 TGACCAGGGAGATAGGACTTACAATCTTCAACCTATTCCACTA
*
6070336 TTGACCAGGGAGATAGGACTCACAATCTTCAACCTATTCCACTA
1 -TGACCAGGGAGATAGGACTTACAATCTTCAACCTATTCCACTA
*
6070380 CTGACCAGGGAGATAGGA-TTCACAATCTTCAGCCTATTCCACTGA
1 -TGACCAGGGAGATAGGACTT-ACAATCTTCAACCTATTCCACT-A
*
6070425 TGTCCAGGGAGATAGG
1 TGACCAGGGAGATAGG
6070441 GCTGGGGTTA
Statistics
Matches: 95, Mismatches: 7, Indels: 4
0.90 0.07 0.04
Matches are distributed among these distances:
43 1 0.01
44 93 0.98
45 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (43 bp):
TGACCAGGGAGATAGGACTTACAATCTTCAACCTATTCCACTA
Found at i:6072711 original size:12 final size:12
Alignment explanation
Indices: 6072696--6072726 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
6072686 ATTTTTTCAA
6072696 TTTTTTTCTTTC
1 TTTTTTTCTTTC
6072708 TTTTTTTCTTTC
1 TTTTTTTCTTTC
6072720 TTTTTTT
1 TTTTTTT
6072727 AATGCATCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (12 bp):
TTTTTTTCTTTC
Found at i:6078280 original size:9 final size:10
Alignment explanation
Indices: 6078248--6078286 Score: 53
Period size: 9 Copynumber: 3.8 Consensus size: 10
6078238 TAGAAATAAT
6078248 ATAAACAAATAA
1 ATAAAC-AA-AA
6078260 ATAAACAAAA
1 ATAAACAAAA
6078270 ATAAA-AAAA
1 ATAAACAAAA
6078279 ATAAACAA
1 ATAAACAA
6078287 TCACAATGCA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
9 9 0.35
10 9 0.35
11 2 0.08
12 6 0.23
ACGTcount: A:0.79, C:0.08, G:0.00, T:0.13
Consensus pattern (10 bp):
ATAAACAAAA
Found at i:6078751 original size:28 final size:31
Alignment explanation
Indices: 6078719--6078776 Score: 86
Period size: 28 Copynumber: 2.0 Consensus size: 31
6078709 TTTTTTTAAA
*
6078719 TGTATGTATAT-TATTATAA-AA-AATAATG
1 TGTATGTATATATATAATAATAATAATAATG
6078747 TGTATGTATATATATAATAATAATAATAAT
1 TGTATGTATATATATAATAATAATAATAAT
6078777 AATAATAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 11 0.42
29 7 0.27
30 2 0.08
31 6 0.23
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.43
Consensus pattern (31 bp):
TGTATGTATATATATAATAATAATAATAATG
Found at i:6078768 original size:3 final size:3
Alignment explanation
Indices: 6078760--6078787 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
6078750 ATGTATATAT
6078760 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
6078788 CTTAATAACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:6080217 original size:13 final size:13
Alignment explanation
Indices: 6080199--6080223 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6080189 CAAATAAAAA
6080199 ATAAATAAATATG
1 ATAAATAAATATG
6080212 ATAAATAAATAT
1 ATAAATAAATAT
6080224 AACAATAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (13 bp):
ATAAATAAATATG
Found at i:6080262 original size:12 final size:12
Alignment explanation
Indices: 6080245--6080269 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6080235 AAAGATTGGA
6080245 AAAATAAAGAAG
1 AAAATAAAGAAG
6080257 AAAATAAAGAAG
1 AAAATAAAGAAG
6080269 A
1 A
6080270 TAGATGGAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.16, T:0.08
Consensus pattern (12 bp):
AAAATAAAGAAG
Found at i:6085040 original size:21 final size:21
Alignment explanation
Indices: 6085014--6085053 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
6085004 ATGTATAATT
*
6085014 TATTT-AGATATTTTTAATATA
1 TATTTAAGA-ATTTTAAATATA
6085035 TATTTAAGAATTTTAAATA
1 TATTTAAGAATTTTAAATA
6085054 AAATATATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (21 bp):
TATTTAAGAATTTTAAATATA
Found at i:6085722 original size:23 final size:23
Alignment explanation
Indices: 6085692--6085736 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
6085682 AAACGCTATT
6085692 AAAATAAAATTTTAAAAAATGAG
1 AAAATAAAATTTTAAAAAATGAG
6085715 AAAATAAAATTTTAAAAAATGA
1 AAAATAAAATTTTAAAAAATGA
6085737 CACTTACTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.27
Consensus pattern (23 bp):
AAAATAAAATTTTAAAAAATGAG
Found at i:6085977 original size:2 final size:2
Alignment explanation
Indices: 6085970--6085997 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
6085960 CCTTTTCTAC
6085970 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
6085998 ATATATATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:6096628 original size:14 final size:13
Alignment explanation
Indices: 6096609--6096651 Score: 52
Period size: 14 Copynumber: 3.2 Consensus size: 13
6096599 TTCAAAAAAT
6096609 ATATATAATATATA
1 ATATATAATAT-TA
6096623 ATATATAACTATTA
1 ATATATAA-TATTA
*
6096637 ATAGA-AATATTA
1 ATATATAATATTA
6096649 ATA
1 ATA
6096652 CGTATATAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
12 8 0.30
13 2 0.07
14 14 0.52
15 3 0.11
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (13 bp):
ATATATAATATTA
Found at i:6105879 original size:10 final size:10
Alignment explanation
Indices: 6105851--6105886 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
6105841 TTACAAAACT
6105851 AATACAAAAA
1 AATACAAAAA
6105861 AATA-AAAAA
1 AATACAAAAA
*
6105870 AATACCAAAA
1 AATACAAAAA
6105880 AATACAA
1 AATACAA
6105887 GCATTTTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
9 9 0.39
10 14 0.61
ACGTcount: A:0.78, C:0.11, G:0.00, T:0.11
Consensus pattern (10 bp):
AATACAAAAA
Found at i:6105995 original size:27 final size:27
Alignment explanation
Indices: 6105930--6106001 Score: 81
Period size: 27 Copynumber: 2.7 Consensus size: 27
6105920 GAGTGGAGGG
* * *
6105930 ACTGCCACAAGTGGCACCAAAGGTGCT
1 ACTGCCACAGGCGGCACCAAAGGTGCC
* ** *
6105957 AGTGGTAGAGGCGGCACCAAAGGTGCC
1 ACTGCCACAGGCGGCACCAAAGGTGCC
6105984 ACTGCCACAGGCGGCACC
1 ACTGCCACAGGCGGCACC
6106002 GCCCCCCTTA
Statistics
Matches: 34, Mismatches: 11, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.26, C:0.31, G:0.32, T:0.11
Consensus pattern (27 bp):
ACTGCCACAGGCGGCACCAAAGGTGCC
Found at i:6106461 original size:42 final size:40
Alignment explanation
Indices: 6106415--6106663 Score: 146
Period size: 39 Copynumber: 6.5 Consensus size: 40
6106405 AAAACACACT
6106415 TAACAAATAAATTAAATAAAATAATAAAACATAGAATGTACA
1 TAACAAATAAA-T-AATAAAATAATAAAACATAGAATGTACA
*
6106457 TAAC--ATAAATAATAAAACATAAATAATAACATA-AA--TAAA
1 TAACAAATAAATAAT-AAA-AT-AATAA-AACATAGAATGTACA
* * *
6106496 TAATAACATAAATAATAAAATAATAAGACATAGTATGTACA
1 TAACAA-ATAAATAATAAAATAATAAAACATAGAATGTACA
6106537 TAAC---------AT-AAATAATAAAACATAGAATGTACA
1 TAACAAATAAATAATAAAATAATAAAACATAGAATGTACA
* * *
6106567 TAACATAA-ATGATAA-AACATAAATAATAACATA-AA--TAAA
1 TAACA-AATA-AATAATAAAAT-AATAA-AACATAGAATGTACA
* * *
6106606 TAATAACATAAATAATAAAATAATAAGACATAGTATGTACA
1 TAACAA-ATAAATAATAAAATAATAAAACATAGAATGTACA
6106647 TAAC--ATAAATAATAAAA
1 TAACAAATAAATAATAAAA
6106664 CATAGAATGT
Statistics
Matches: 161, Mismatches: 17, Indels: 62
0.67 0.07 0.26
Matches are distributed among these distances:
30 26 0.16
31 2 0.01
38 27 0.17
39 34 0.21
40 18 0.11
41 29 0.18
42 25 0.16
ACGTcount: A:0.63, C:0.08, G:0.04, T:0.24
Consensus pattern (40 bp):
TAACAAATAAATAATAAAATAATAAAACATAGAATGTACA
Found at i:6106467 original size:30 final size:30
Alignment explanation
Indices: 6106433--6106693 Score: 257
Period size: 30 Copynumber: 9.4 Consensus size: 30
6106423 AAATTAAATA
6106433 AAATAATAAAACATAGAATGTACATAACAT
1 AAATAATAAAACATAGAATGTACATAACAT
6106463 AAATAATAAAACATA-AA--TA-ATAACAT
1 AAATAATAAAACATAGAATGTACATAACAT
6106489 AAATAAATAATAACATA-AA--TA-AT---A-
1 AAAT-AATAA-AACATAGAATGTACATAACAT
* *
6106513 AAATAATAAGACATAGTATGTACATAACAT
1 AAATAATAAAACATAGAATGTACATAACAT
6106543 AAATAATAAAACATAGAATGTACATAACAT
1 AAATAATAAAACATAGAATGTACATAACAT
*
6106573 AAATGATAAAACATA-AA--TA-ATAACAT
1 AAATAATAAAACATAGAATGTACATAACAT
6106599 AAATAAATAATAACATA-AA--TA-AT---A-
1 AAAT-AATAA-AACATAGAATGTACATAACAT
* *
6106623 AAATAATAAGACATAGTATGTACATAACAT
1 AAATAATAAAACATAGAATGTACATAACAT
6106653 AAATAATAAAACATAGAATGTACATAACAT
1 AAATAATAAAACATAGAATGTACATAACAT
6106683 AAA-AATTAAAA
1 AAATAA-TAAAA
6106694 TCAAAACCAA
Statistics
Matches: 200, Mismatches: 10, Indels: 42
0.79 0.04 0.17
Matches are distributed among these distances:
22 10 0.05
23 12 0.06
24 8 0.04
25 6 0.03
26 26 0.13
27 13 0.06
28 24 0.12
29 8 0.04
30 93 0.47
ACGTcount: A:0.63, C:0.08, G:0.05, T:0.24
Consensus pattern (30 bp):
AAATAATAAAACATAGAATGTACATAACAT
Found at i:6106487 original size:12 final size:12
Alignment explanation
Indices: 6106456--6106628 Score: 89
Period size: 12 Copynumber: 12.8 Consensus size: 12
6106446 TAGAATGTAC
6106456 ATAACATAAATA
1 ATAACATAAATA
6106468 ATAAAACATAAATA
1 AT--AACATAAATA
6106482 ATAACATAAATAAATA
1 ATAAC----ATAAATA
6106498 ATAACATAAATA
1 ATAACATAAATA
*
6106510 ATAAAAT-AATA
1 ATAACATAAATA
* *
6106521 A-GACATAGTATGTA
1 ATAACATA--A-ATA
6106535 CATAACATAAATA
1 -ATAACATAAATA
6106548 ATAAAACATAGAATGTA
1 AT--AACATA-AA--TA
6106565 CATAACATAAATGA
1 -ATAACATAAAT-A
*
6106579 TAAAACATAAATA
1 -ATAACATAAATA
6106592 ATAACATAAATAAATA
1 ATAAC----ATAAATA
6106608 ATAACATAAATA
1 ATAACATAAATA
*
6106620 ATAAAATAA
1 ATAACATAA
6106629 TAAGACATAG
Statistics
Matches: 128, Mismatches: 10, Indels: 46
0.70 0.05 0.25
Matches are distributed among these distances:
10 3 0.02
11 5 0.04
12 39 0.30
13 5 0.04
14 32 0.25
15 5 0.04
16 35 0.27
17 2 0.02
18 2 0.02
ACGTcount: A:0.65, C:0.08, G:0.03, T:0.24
Consensus pattern (12 bp):
ATAACATAAATA
Found at i:6106514 original size:80 final size:81
Alignment explanation
Indices: 6106429--6106667 Score: 287
Period size: 80 Copynumber: 3.0 Consensus size: 81
6106419 AAATAAATTA
6106429 AATAAAATAATAAAACATAGAATGTACATAACATAAATAATAAAACATA-AA-TA-ATAACATAA
1 AATAAAATAATAAAACATAGAATGTACATAACATAAATAATAAAACATAGAAGTACATAACATAA
6106491 ATAAATAATAACATAAAT
66 AT-AATAA-AACATAAAT
* *
6106509 AATAAAATAATAAGACATAGTATGTACATAACATAAATAATAAAACATAGAATGTACATAACATA
1 AATAAAATAATAAAACATAGAATGTACATAACATAAATAATAAAACATAGAA-GTACATAACATA
*
6106574 AATGATAAAACATAAAT
65 AATAATAAAACATAAAT
* * * * *
6106591 AATAACATAAATAAATA-ATA-ACA--TAAATAATA-AAATAATAAGACATAGTATGTACATAAC
1 AATAAAAT-AATAAA-ACATAGA-ATGTACATAACATAAATAATAAAACATAG-AAGTACATAAC
6106651 ATAAATAATAAAACATA
62 ATAAATAATAAAACATA
6106668 GAATGTACAT
Statistics
Matches: 140, Mismatches: 11, Indels: 16
0.84 0.07 0.10
Matches are distributed among these distances:
80 87 0.62
81 10 0.07
82 16 0.11
83 15 0.11
84 12 0.09
ACGTcount: A:0.63, C:0.08, G:0.05, T:0.24
Consensus pattern (81 bp):
AATAAAATAATAAAACATAGAATGTACATAACATAAATAATAAAACATAGAAGTACATAACATAA
ATAATAAAACATAAAT
Found at i:6106555 original size:110 final size:110
Alignment explanation
Indices: 6106433--6106693 Score: 497
Period size: 110 Copynumber: 2.4 Consensus size: 110
6106423 AAATTAAATA
6106433 AAATAATAAAACATAGAATGTACATAACATAAATAATAAAACATAAATAATAACATAAATAAATA
1 AAATAATAAAACATAGAATGTACATAACATAAATAATAAAACATAAATAATAACATAAATAAATA
6106498 ATAACATAAATAATAAAATAATAAGACATAGTATGTACATAACAT
66 ATAACATAAATAATAAAATAATAAGACATAGTATGTACATAACAT
*
6106543 AAATAATAAAACATAGAATGTACATAACATAAATGATAAAACATAAATAATAACATAAATAAATA
1 AAATAATAAAACATAGAATGTACATAACATAAATAATAAAACATAAATAATAACATAAATAAATA
6106608 ATAACATAAATAATAAAATAATAAGACATAGTATGTACATAACAT
66 ATAACATAAATAATAAAATAATAAGACATAGTATGTACATAACAT
6106653 AAATAATAAAACATAGAATGTACATAACATAAA-AATTAAAA
1 AAATAATAAAACATAGAATGTACATAACATAAATAA-TAAAA
6106694 TCAAAACCAA
Statistics
Matches: 148, Mismatches: 2, Indels: 2
0.97 0.01 0.01
Matches are distributed among these distances:
109 1 0.01
110 147 0.99
ACGTcount: A:0.63, C:0.08, G:0.05, T:0.24
Consensus pattern (110 bp):
AAATAATAAAACATAGAATGTACATAACATAAATAATAAAACATAAATAATAACATAAATAAATA
ATAACATAAATAATAAAATAATAAGACATAGTATGTACATAACAT
Found at i:6106683 original size:16 final size:16
Alignment explanation
Indices: 6106633--6106683 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 16
6106623 AAATAATAAG
*
6106633 ACATAGTATGTACATA
1 ACATAGAATGTACATA
*
6106649 ACATA-AATAATA-A-A
1 ACATAGAAT-GTACATA
6106663 ACATAGAATGTACATA
1 ACATAGAATGTACATA
6106679 ACATA
1 ACATA
6106684 AAAATTAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 8
0.72 0.08 0.21
Matches are distributed among these distances:
14 8 0.29
15 7 0.25
16 13 0.46
ACGTcount: A:0.55, C:0.12, G:0.08, T:0.25
Consensus pattern (16 bp):
ACATAGAATGTACATA
Found at i:6106934 original size:27 final size:27
Alignment explanation
Indices: 6106886--6106977 Score: 148
Period size: 27 Copynumber: 3.4 Consensus size: 27
6106876 GTAAGGGGGG
* * * *
6106886 TGGTGCCACCTGTGGCAGTGGCACCTT
1 TGGTGCCGCCTCTGCCACTGGCACCTT
6106913 TGGTGCCGCCTCTGCCACTGGCACCTT
1 TGGTGCCGCCTCTGCCACTGGCACCTT
6106940 TGGTGCCGCCTCTGCCACTGGCACCTT
1 TGGTGCCGCCTCTGCCACTGGCACCTT
6106967 TGGTGCCGCCT
1 TGGTGCCGCCT
6106978 GTGGCAGTCC
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 61 1.00
ACGTcount: A:0.08, C:0.37, G:0.29, T:0.26
Consensus pattern (27 bp):
TGGTGCCGCCTCTGCCACTGGCACCTT
Found at i:6107051 original size:11 final size:10
Alignment explanation
Indices: 6107028--6107075 Score: 53
Period size: 11 Copynumber: 4.6 Consensus size: 10
6107018 TAATAAAATG
6107028 TTTGTATTATT
1 TTTGTATT-TT
*
6107039 TTGGTATTTT
1 TTTGTATTTT
6107049 TTT-TAATTTT
1 TTTGT-ATTTT
6107059 TTTGTATTATT
1 TTTGTATT-TT
6107070 TTTGTA
1 TTTGTA
6107076 AAAAACCCCA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
9 1 0.03
10 15 0.47
11 16 0.50
ACGTcount: A:0.17, C:0.00, G:0.10, T:0.73
Consensus pattern (10 bp):
TTTGTATTTT
Found at i:6128329 original size:50 final size:50
Alignment explanation
Indices: 6128226--6128464 Score: 162
Period size: 50 Copynumber: 4.7 Consensus size: 50
6128216 ATGAGATCCG
*
6128226 ATGTAAGACCATGTCTGGGACATGG-GATTGGCATTATTGAAGTTATGAGAGGTCCC
1 ATGTAAGACCATGTCTGGGACATGGCG-TTGGC---ATCG-AG--ATGAGAGGTCCC
*
6128282 ATGTAAGACCATGTCTGGGACATGGCGTTGGCATCGAGATGTGAGGTCCC
1 ATGTAAGACCATGTCTGGGACATGGCGTTGGCATCGAGATGAGAGGTCCC
** * * * * * * **
6128332 CGGTAAGACCATGGCTGGGACAGGGCATGGGCACCGATATGAGAACTCCC
1 ATGTAAGACCATGTCTGGGACATGGCGTTGGCATCGAGATGAGAGGTCCC
* * * * * * **
6128382 ATGTAAGACCATATATGGGATATGACATTGGCAGTAC-A-A-GAAACATCCC
1 ATGTAAGACCATGTCTGGGACATGGCGTTGGCA-T-CGAGATGAGAGGTCCC
* * *
6128431 ATGTAAGACCATATTTGGGACATGGCTTTGGCAT
1 ATGTAAGACCATGTCTGGGACATGGCGTTGGCAT
6128465 GTTGTTATCA
Statistics
Matches: 150, Mismatches: 30, Indels: 14
0.77 0.15 0.07
Matches are distributed among these distances:
48 1 0.01
49 36 0.24
50 75 0.50
51 1 0.01
52 3 0.02
53 3 0.02
56 30 0.20
57 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (50 bp):
ATGTAAGACCATGTCTGGGACATGGCGTTGGCATCGAGATGAGAGGTCCC
Found at i:6136030 original size:82 final size:81
Alignment explanation
Indices: 6135939--6136188 Score: 177
Period size: 82 Copynumber: 3.1 Consensus size: 81
6135929 CATATAAGAA
*
6135939 TATTAATTATTAAGAATTTTATTAAATTATATATTTTAAGTATAATATATTTAATAATAATTATG
1 TATTTATTATTAAGAATTTTATTAAATTATATATTTTAA-TATAATATATTTAATAATAATTATG
6136004 TTTAAATATGATTAAAT
65 TTTAAATATGATTAAAT
* * * * * * * *
6136021 TATTTATTATT---CATATTAATAATCTTATCAAAATTTAA-ATAACA-A--TAACAATAA-TA-
1 TATTTATTATTAAGAATTTTATTAA-ATTAT-ATATTTTAATATAATATATTTAATAATAATTAT
* *
6136077 ATTTACCAA-A--A-CAAAT
64 GTTTA--AATATGATTAAAT
* *
6136093 T-TCTGGTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATGTTTAATAATAAT
1 TAT-T--T-ATTATTAAGAATTTTATTAAATTATATATTTTAA-TATAATATATTTAATAATAAT
*
6136157 TATGTTTAAATATGATTAAAA
61 TATGTTTAAATATGATTAAAT
*
6136178 TATTCATTATT
1 TATTTATTATT
6136189 GATAATAATA
Statistics
Matches: 120, Mismatches: 25, Indels: 46
0.63 0.13 0.24
Matches are distributed among these distances:
71 1 0.01
72 6 0.05
73 1 0.01
74 5 0.04
75 9 0.08
76 17 0.14
77 4 0.03
78 13 0.11
79 13 0.11
80 4 0.03
81 17 0.14
82 19 0.16
83 4 0.03
84 1 0.01
85 5 0.04
86 1 0.01
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (81 bp):
TATTTATTATTAAGAATTTTATTAAATTATATATTTTAATATAATATATTTAATAATAATTATGT
TTAAATATGATTAAAT
Found at i:6136108 original size:157 final size:157
Alignment explanation
Indices: 6135942--6136251 Score: 530
Period size: 157 Copynumber: 2.0 Consensus size: 157
6135932 ATAAGAATAT
*
6135942 TAATTATTAAGAATTTTATTAAATTATATATTTTAAGTATAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAAGTAAAATATATTTAATAATAATTATGTTT
* * *
6136007 AAATATGATTAAATTATTTATTATTCATATTAATAATCTTATCAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTCATTATTCATAATAATAATCTTATCAAAATTTAAATAACAATAACAA
6136072 TAATAATTTACCAAAACAAATTTCTGG
131 TAATAATTTACCAAAACAAATTTCTGG
* *
6136099 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATGTTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAAGTAAAATATATTTAATAATAATTATGTTT
* *
6136164 AAATATGATTAAAATATTCATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTCATTATTCATAATAATAATCTTATCAAAATTTAAATAACAATAACAA
* *
6136229 TAATCATTTACCAAAATAAATTT
131 TAATAATTTACCAAAACAAATTT
6136252 ATGCTAAGGG
Statistics
Matches: 143, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
157 143 1.00
ACGTcount: A:0.47, C:0.05, G:0.04, T:0.44
Consensus pattern (157 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAAGTAAAATATATTTAATAATAATTATGTTT
AAATATGATTAAAATATTCATTATTCATAATAATAATCTTATCAAAATTTAAATAACAATAACAA
TAATAATTTACCAAAACAAATTTCTGG
Found at i:6136402 original size:16 final size:16
Alignment explanation
Indices: 6136381--6136448 Score: 118
Period size: 16 Copynumber: 4.2 Consensus size: 16
6136371 GATTTGCTAT
6136381 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
6136397 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
6136413 TACACTTCTAATCCAA
1 TACACCTCTAATCCAA
*
6136429 TACATCTCTAATCCAA
1 TACACCTCTAATCCAA
6136445 TACA
1 TACA
6136449 GCGAACCAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.38, C:0.34, G:0.00, T:0.28
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:6145862 original size:49 final size:49
Alignment explanation
Indices: 6145768--6145863 Score: 129
Period size: 49 Copynumber: 2.0 Consensus size: 49
6145758 CTTCTATTTA
* * * *
6145768 TAGGTTGAAAAACCTTATTCTAATCAATGTTAAATAGAAGCAGTGTAGT
1 TAGGTTGAAAAACATTATTCTAATCAATATCAAATAGAAGAAGTGTAGT
** *
6145817 TAGGTTGAAGCACATTATTCTAATCAATATCAAATAGAATAAGTGTA
1 TAGGTTGAAAAACATTATTCTAATCAATATCAAATAGAAGAAGTGTA
6145864 CTTCTATATG
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
49 40 1.00
ACGTcount: A:0.41, C:0.10, G:0.17, T:0.32
Consensus pattern (49 bp):
TAGGTTGAAAAACATTATTCTAATCAATATCAAATAGAAGAAGTGTAGT
Found at i:6148728 original size:23 final size:23
Alignment explanation
Indices: 6148678--6148729 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
6148668 ATGGTTCACA
6148678 TAAT-ATATAGGGTTCAAATACT
1 TAATCATATAGGGTTCAAATACT
* *
6148700 TTATCATATAGGGTTCACAT-CT
1 TAATCATATAGGGTTCAAATACT
6148722 TAAATCAT
1 T-AATCAT
6148730 GTACTAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
22 6 0.24
23 19 0.76
ACGTcount: A:0.37, C:0.13, G:0.12, T:0.38
Consensus pattern (23 bp):
TAATCATATAGGGTTCAAATACT
Found at i:6149283 original size:17 final size:16
Alignment explanation
Indices: 6149243--6149291 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
6149233 TTCTCTAAGT
6149243 GTCCGCA-ATACAGGGG
1 GTCCGCATA-ACAGGGG
*
6149259 GT-CACATAACATGGGG
1 GTCCGCATAACA-GGGG
6149275 GTCCGCATAACAGGGG
1 GTCCGCATAACAGGGG
6149291 G
1 G
6149292 CTTGCACACA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
15 6 0.21
16 14 0.50
17 8 0.29
ACGTcount: A:0.27, C:0.22, G:0.37, T:0.14
Consensus pattern (16 bp):
GTCCGCATAACAGGGG
Found at i:6150044 original size:3 final size:3
Alignment explanation
Indices: 6150036--6150078 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
6150026 CAACAAGCTC
6150036 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
6150079 AGGCCTTCTA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:6150712 original size:30 final size:29
Alignment explanation
Indices: 6150673--6150729 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
6150663 TCACTATCAT
* * *
6150673 TTATAAAATTATTGATATTTTATTTAGACA
1 TTATAAAATT-TTCAAATTTTAGTTAGACA
*
6150703 TTATGAAATTTTCAAATTTTAGTTAGA
1 TTATAAAATTTTCAAATTTTAGTTAGA
6150730 AATTTTTTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
29 14 0.61
30 9 0.39
ACGTcount: A:0.39, C:0.04, G:0.09, T:0.49
Consensus pattern (29 bp):
TTATAAAATTTTCAAATTTTAGTTAGACA
Found at i:6151451 original size:14 final size:15
Alignment explanation
Indices: 6151424--6151466 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 15
6151414 AAACTTCTTG
6151424 ATTA-AAAATAAATA
1 ATTATAAAATAAATA
6151438 ATTATAAAAT-AATA
1 ATTATAAAATAAATA
*
6151452 A-TATATAATAAATA
1 ATTATAAAATAAATA
6151466 A
1 A
6151467 CAAATTAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
13 7 0.27
14 14 0.54
15 5 0.19
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
ATTATAAAATAAATA
Found at i:6154790 original size:99 final size:99
Alignment explanation
Indices: 6154619--6154818 Score: 382
Period size: 99 Copynumber: 2.0 Consensus size: 99
6154609 TAAAAGAAGG
* *
6154619 AAATAAGAAAATAAATCCATTTTGGTATCAATTTGTGCGTGAAAGTGGGATTTTCTTTAACATTT
1 AAATAAGAAAATAAATCCATTTTAGTATCAATTTGTGCGCGAAAGTGGGATTTTCTTTAACATTT
6154684 GCAACGATAACTTCAATTGCAATTGGAATCCAAA
66 GCAACGATAACTTCAATTGCAATTGGAATCCAAA
6154718 AAATAAGAAAATAAATCCATTTTAGTATCAATTTGTGCGCGAAAGTGGGATTTTCTTTAACATTT
1 AAATAAGAAAATAAATCCATTTTAGTATCAATTTGTGCGCGAAAGTGGGATTTTCTTTAACATTT
6154783 GCAACGATAACTTCAATTGCAATTGGAATCCAAA
66 GCAACGATAACTTCAATTGCAATTGGAATCCAAA
6154817 AA
1 AA
6154819 TAAATAAAGA
Statistics
Matches: 99, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
99 99 1.00
ACGTcount: A:0.39, C:0.14, G:0.15, T:0.33
Consensus pattern (99 bp):
AAATAAGAAAATAAATCCATTTTAGTATCAATTTGTGCGCGAAAGTGGGATTTTCTTTAACATTT
GCAACGATAACTTCAATTGCAATTGGAATCCAAA
Found at i:6155854 original size:17 final size:18
Alignment explanation
Indices: 6155832--6155866 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
6155822 TATTTTTTTA
6155832 ATTTAT-ATTTCTTATTT
1 ATTTATAATTTCTTATTT
*
6155849 ATTTATAATTTTTTATTT
1 ATTTATAATTTCTTATTT
6155867 GTTCTTTGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (18 bp):
ATTTATAATTTCTTATTT
Found at i:6157171 original size:2 final size:2
Alignment explanation
Indices: 6157164--6157206 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
6157154 ATACATACAT
*
6157164 AG AG AG AG AG TG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
6157206 A
1 A
6157207 TCTCACCAGA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.49, T:0.02
Consensus pattern (2 bp):
AG
Found at i:6159027 original size:12 final size:13
Alignment explanation
Indices: 6158989--6159030 Score: 50
Period size: 12 Copynumber: 3.1 Consensus size: 13
6158979 AAGAATTAAG
6158989 AGAAGAGAGAGAGA
1 AGAAGAGAGA-AGA
6159003 GAGAGAGAGAGAAGA
1 -AGA-AGAGAGAAGA
6159018 AGAAGA-AGAAGA
1 AGAAGAGAGAAGA
6159030 A
1 A
6159031 AGCAAAGCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
12 7 0.27
13 3 0.12
14 3 0.12
15 6 0.23
16 7 0.27
ACGTcount: A:0.60, C:0.00, G:0.40, T:0.00
Consensus pattern (13 bp):
AGAAGAGAGAAGA
Found at i:6159030 original size:6 final size:7
Alignment explanation
Indices: 6158987--6159029 Score: 54
Period size: 8 Copynumber: 6.1 Consensus size: 7
6158977 TTAAGAATTA
6158987 AGAGAAG
1 AGAGAAG
6158994 AGAGAGAG
1 AGAGA-AG
6159002 AGAGAGAG
1 AGAGA-AG
6159010 AGAGAAG
1 AGAGAAG
6159017 A-AGAAG
1 AGAGAAG
6159023 A-AGAAG
1 AGAGAAG
6159029 A
1 A
6159030 AAGCAAAGCA
Statistics
Matches: 35, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
6 12 0.34
7 8 0.23
8 15 0.43
ACGTcount: A:0.58, C:0.00, G:0.42, T:0.00
Consensus pattern (7 bp):
AGAGAAG
Found at i:6159207 original size:6 final size:6
Alignment explanation
Indices: 6159196--6159239 Score: 72
Period size: 6 Copynumber: 7.3 Consensus size: 6
6159186 TTATTCTCTC
6159196 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTTT TTTCTT TTT-TT TT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTC-TT TTTCTT TTTCTT TT
6159240 ATATTAACAA
Statistics
Matches: 37, Mismatches: 0, Indels: 3
0.93 0.00 0.08
Matches are distributed among these distances:
5 4 0.11
6 27 0.73
7 6 0.16
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTCTT
Found at i:6161443 original size:38 final size:38
Alignment explanation
Indices: 6161400--6161569 Score: 236
Period size: 38 Copynumber: 4.5 Consensus size: 38
6161390 TTACCGATTG
*
6161400 CATGTTCAA-CATGCCTACTGTTACTGTTGAACCGAGA-A
1 CATGTT-AAGCATGTCTACTGTTACTGTTGAACCGA-ATA
*
6161438 CATGTTAAGCATGTCTACTGTTACTGTTGAACTGAATA
1 CATGTTAAGCATGTCTACTGTTACTGTTGAACCGAATA
* * *
6161476 CATGTTAAACATGTCTACTATTACTGTTGAACCCAATA
1 CATGTTAAGCATGTCTACTGTTACTGTTGAACCGAATA
* **
6161514 CATGTTAAGCATGTCTACTGCTACTGTTGAATTGAATA
1 CATGTTAAGCATGTCTACTGTTACTGTTGAACCGAATA
6161552 CATGTTAAGCATGTCTAC
1 CATGTTAAGCATGTCTAC
6161570 AATTTTTACA
Statistics
Matches: 118, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
37 3 0.03
38 115 0.97
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.34
Consensus pattern (38 bp):
CATGTTAAGCATGTCTACTGTTACTGTTGAACCGAATA
Found at i:6161494 original size:76 final size:76
Alignment explanation
Indices: 6161400--6161569 Score: 261
Period size: 76 Copynumber: 2.2 Consensus size: 76
6161390 TTACCGATTG
* * * * *
6161400 CATGTTCAACATGCCTACTGTTACTGTTGAACCGAGA-ACATGTTAAGCATGTCTACTGTTACTG
1 CATGTTAAACATGTCTACTATTACTGTTGAACCCA-ATACATGTTAAGCATGTCTACTGCTACTG
6161464 TTGAACTGAATA
65 TTGAACTGAATA
6161476 CATGTTAAACATGTCTACTATTACTGTTGAACCCAATACATGTTAAGCATGTCTACTGCTACTGT
1 CATGTTAAACATGTCTACTATTACTGTTGAACCCAATACATGTTAAGCATGTCTACTGCTACTGT
*
6161541 TGAATTGAATA
66 TGAACTGAATA
*
6161552 CATGTTAAGCATGTCTAC
1 CATGTTAAACATGTCTAC
6161570 AATTTTTACA
Statistics
Matches: 86, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
75 1 0.01
76 85 0.99
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.34
Consensus pattern (76 bp):
CATGTTAAACATGTCTACTATTACTGTTGAACCCAATACATGTTAAGCATGTCTACTGCTACTGT
TGAACTGAATA
Found at i:6162614 original size:4 final size:4
Alignment explanation
Indices: 6162605--6162633 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
6162595 TATATCTAGA
6162605 ATTT ATTT ATTT ATTT ATTT ATTT ATTT A
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT A
6162634 ACTCATAACT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (4 bp):
ATTT
Found at i:6170536 original size:5 final size:5
Alignment explanation
Indices: 6170526--6170688 Score: 164
Period size: 5 Copynumber: 31.0 Consensus size: 5
6170516 AGCATATCTT
6170526 ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATATC
1 ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATATC
* * * * * *
6170576 ATATT ATATC ATATC GAATTTC ATATC ATGTC GTAGCAC ATTTC ATATC
1 ATATC ATATC ATATC --ATATC ATATC ATATC ATA--TC ATATC ATATC
* * *
6170625 ATATCTC ATATC ATATC ACATT ATATCTC TTATC ATATC ATATC ATATC
1 ATA--TC ATATC ATATC ATATC ATA--TC ATATC ATATC ATATC ATATC
*
6170674 ATATC ATATC CTATC
1 ATATC ATATC ATATC
6170689 TCATCTACTA
Statistics
Matches: 131, Mismatches: 19, Indels: 16
0.79 0.11 0.10
Matches are distributed among these distances:
5 117 0.89
7 14 0.11
ACGTcount: A:0.36, C:0.21, G:0.02, T:0.41
Consensus pattern (5 bp):
ATATC
Found at i:6170653 original size:22 final size:22
Alignment explanation
Indices: 6170518--6170683 Score: 100
Period size: 22 Copynumber: 7.8 Consensus size: 22
6170508 TATATCGAAG
* *
6170518 CATATCTTATATCATATCATAT
1 CATATCTCATATCATATCACAT
*
6170540 CATA--TCATATCATATCATAT
1 CATATCTCATATCATATCACAT
*
6170560 CATA--TCATATCATATCATAT
1 CATATCTCATATCATATCACAT
* * *
6170580 --TATATCATATCGAATTTCATAT
1 CATATCTCATATC--ATATCACAT
* * * *
6170602 CATGTCGT-AGCA-CATTTCATAT
1 CATATC-TCA-TATCATATCACAT
6170624 CATATCTCATATCATATCACAT
1 CATATCTCATATCATATCACAT
* * *
6170646 TATATCTCTTATCATATCATAT
1 CATATCTCATATCATATCACAT
6170668 CATA--TCATATCATATC
1 CATATCTCATATCATATC
6170684 CTATCTCATC
Statistics
Matches: 120, Mismatches: 14, Indels: 22
0.77 0.09 0.14
Matches are distributed among these distances:
18 2 0.02
20 53 0.44
21 2 0.02
22 57 0.47
24 4 0.03
25 2 0.02
ACGTcount: A:0.36, C:0.20, G:0.02, T:0.42
Consensus pattern (22 bp):
CATATCTCATATCATATCACAT
Found at i:6175068 original size:44 final size:45
Alignment explanation
Indices: 6175018--6175307 Score: 239
Period size: 44 Copynumber: 6.7 Consensus size: 45
6175008 ATCTGCTATT
* * *
6175018 TTCAACCTACTCCACTACTG-CTCAGGGAGATAGGGTTCACGATC
1 TTCAACCTATTCCACTACTGACTCAGGGAGATAGGATTCACAATC
* *
6175062 TTCAACCTATTCCACTACTGAC-CAGGGAGATATGA-CCTACAATC
1 TTCAACCTATTCCACTACTGACTCAGGGAGATAGGATTC-ACAATC
* * * * *
6175106 TTCAATCTATTCCACTGCTG-CCCAGGGAGATAGAATTCTCAATC
1 TTCAACCTATTCCACTACTGACTCAGGGAGATAGGATTCACAATC
* * *
6175150 TTCAACCTATTCCACTATTGACT-AGGGAGATAAGATTCACGATC
1 TTCAACCTATTCCACTACTGACTCAGGGAGATAGGATTCACAATC
* ** * *
6175194 TTTAACCTATTCCACTGTTGTC-CAAGGAGATAGGATT--C--T-
1 TTCAACCTATTCCACTACTGACTCAGGGAGATAGGATTCACAATC
* * * * * *
6175233 TT-AATCTATTCCACTGCAG-CCCAGGGAGATAGAATTCTCAATC
1 TTCAACCTATTCCACTACTGACTCAGGGAGATAGGATTCACAATC
* *
6175276 TTCAACCTATTCCACTTCTGAC-CAAGGAGATA
1 TTCAACCTATTCCACTACTGACTCAGGGAGATA
6175308 AGGCTGGTAT
Statistics
Matches: 199, Mismatches: 33, Indels: 28
0.77 0.13 0.11
Matches are distributed among these distances:
37 1 0.01
38 27 0.14
39 2 0.01
40 2 0.01
42 2 0.01
43 4 0.02
44 157 0.79
45 4 0.02
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (45 bp):
TTCAACCTATTCCACTACTGACTCAGGGAGATAGGATTCACAATC
Found at i:6175132 original size:88 final size:88
Alignment explanation
Indices: 6175018--6175307 Score: 272
Period size: 88 Copynumber: 3.4 Consensus size: 88
6175008 ATCTGCTATT
* * * * *
6175018 TTCAACCTACTCCACTACTGCTCAGGGAGATAGGGTTCACGATCTTCAACCTATTCCACTACTGA
1 TTCAACCTATTCCACTGCTGCCCAGGGAGATAGGATTCACAATCTTCAACCTATTCCACTACTGA
*
6175083 CCAGGGAGATATGAC-CTACAATC
66 CCAGGGAGATAAGACTC-ACAATC
* * * *
6175106 TTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTCTCAATCTTCAACCTATTCCACTATTGA
1 TTCAACCTATTCCACTGCTGCCCAGGGAGATAGGATTCACAATCTTCAACCTATTCCACTACTGA
* * *
6175171 CTAGGGAGATAAGATTCACGATC
66 CCAGGGAGATAAGACTCACAATC
* * * * * * * *
6175194 TTTAACCTATTCCACTGTTGTCCAAGGAGATAGGATT--C--T-TT-AATCTATTCCACTGCAGC
1 TTCAACCTATTCCACTGCTGCCCAGGGAGATAGGATTCACAATCTTCAACCTATTCCACTACTGA
* *
6175253 CCAGGGAGAT-AGAATTCTCAATC
66 CCAGGGAGATAAG-ACTCACAATC
* * *
6175276 TTCAACCTATTCCACTTCTGACCAAGGAGATA
1 TTCAACCTATTCCACTGCTGCCCAGGGAGATA
6175308 AGGCTGGTAT
Statistics
Matches: 169, Mismatches: 31, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
81 2 0.01
82 58 0.34
83 2 0.01
84 1 0.01
86 1 0.01
88 104 0.62
89 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (88 bp):
TTCAACCTATTCCACTGCTGCCCAGGGAGATAGGATTCACAATCTTCAACCTATTCCACTACTGA
CCAGGGAGATAAGACTCACAATC
Found at i:6175261 original size:38 final size:38
Alignment explanation
Indices: 6175192--6175270 Score: 104
Period size: 38 Copynumber: 2.1 Consensus size: 38
6175182 AGATTCACGA
** * *
6175192 TCTTTAACCTATTCCACTGTTGTCCAAGGAGATAGGAT
1 TCTTTAACCTATTCCACTGCAGCCCAAGGAGATAGAAT
* *
6175230 TCTTTAATCTATTCCACTGCAGCCCAGGGAGATAGAAT
1 TCTTTAACCTATTCCACTGCAGCCCAAGGAGATAGAAT
6175268 TCT
1 TCT
6175271 CAATCTTCAA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.33
Consensus pattern (38 bp):
TCTTTAACCTATTCCACTGCAGCCCAAGGAGATAGAAT
Found at i:6175290 original size:126 final size:128
Alignment explanation
Indices: 6175018--6175309 Score: 376
Period size: 126 Copynumber: 2.3 Consensus size: 128
6175008 ATCTGCTATT
* * * *
6175018 TTCAACCTACTCCACTACTG-CTCAGGGAGATAGGGTTCACGATCTTCAACCTATTCCACTACTG
1 TTCAACCTATTCCACTATTGACT-AGGGAGATAAGATTCACGATCTTCAACCTATTCCACTACTG
* * *
6175082 ACCAGGGAGATATGACCTACAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTCTCA
65 ACCAAGGAGATAGGA-CT---ATCTTCAATCTATTCCACTGCAGCCCAGGGAGATAGAATTCTCA
6175147 ATC
126 ATC
* ** *
6175150 TTCAACCTATTCCACTATTGACTAGGGAGATAAGATTCACGATCTTTAACCTATTCCACTGTTGT
1 TTCAACCTATTCCACTATTGACTAGGGAGATAAGATTCACGATCTTCAACCTATTCCACTACTGA
*
6175215 CCAAGGAGATAGGA-T-TCTTTAATCTATTCCACTGCAGCCCAGGGAGATAGAATTCTCAATC
66 CCAAGGAGATAGGACTATCTTCAATCTATTCCACTGCAGCCCAGGGAGATAGAATTCTCAATC
* *
6175276 TTCAACCTATTCCACT-TCTGACCAAGGAGATAAG
1 TTCAACCTATTCCACTAT-TGACTAGGGAGATAAG
6175310 GCTGGTATCT
Statistics
Matches: 144, Mismatches: 14, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
125 1 0.01
126 74 0.51
130 1 0.01
132 66 0.46
133 2 0.01
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.28
Consensus pattern (128 bp):
TTCAACCTATTCCACTATTGACTAGGGAGATAAGATTCACGATCTTCAACCTATTCCACTACTGA
CCAAGGAGATAGGACTATCTTCAATCTATTCCACTGCAGCCCAGGGAGATAGAATTCTCAATC
Found at i:6175422 original size:88 final size:88
Alignment explanation
Indices: 6175307--6175807 Score: 696
Period size: 88 Copynumber: 5.7 Consensus size: 88
6175297 CCAAGGAGAT
* * *
6175307 AAGGCTGGTATCTTCGATTTGCTTCACTGTCGGTACAGGAAAGCAAGATCTGCTATCTTCAACTT
1 AAGGCTGGTATCTTCGATCTGCTTCACTGTCGGTACAGGAAGGCAAGATCTGCTATCTTCAACCT
*
6175372 GCTCCACTACGACCCAGGGAGGC
66 GCTCCACTACAACCCAGGGAGGC
* * *
6175395 AAGGCTGGTATTTTTGATCTGCTTCACTGTCGGTACAGGAAGGCAAGATCTACTATCTTCAACCT
1 AAGGCTGGTATCTTCGATCTGCTTCACTGTCGGTACAGGAAGGCAAGATCTGCTATCTTCAACCT
* *
6175460 GCTCCACTACGACCCAGGCAGGC
66 GCTCCACTACAACCCAGGGAGGC
* * *
6175483 AAGGCCGGTATCTTCAATCTGCTTCATTGTCGGTACAGGAAGGCAAGATCTGCTATCTTCAACCT
1 AAGGCTGGTATCTTCGATCTGCTTCACTGTCGGTACAGGAAGGCAAGATCTGCTATCTTCAACCT
* *
6175548 ACTCCACTACAACCCTGGGAGGC
66 GCTCCACTACAACCCAGGGAGGC
* *
6175571 AAGGCTGGTATCTTCGATCTACTTCACTGTCGGTACAGGAAGGCAAGATCTACTATCTTCAACCT
1 AAGGCTGGTATCTTCGATCTGCTTCACTGTCGGTACAGGAAGGCAAGATCTGCTATCTTCAACCT
6175636 GCTCCACTACAACCCAGGGAGGC
66 GCTCCACTACAACCCAGGGAGGC
* * * * * * * * *
6175659 AAGACTGGTATCTTCGATCTGCTTCGCTGTTGATGCAGAAAGACAAAATTTGCTATCTTCAACCT
1 AAGGCTGGTATCTTCGATCTGCTTCACTGTCGGTACAGGAAGGCAAGATCTGCTATCTTCAACCT
6175724 GCTCCACTACAACCCAGGGAGGC
66 GCTCCACTACAACCCAGGGAGGC
* * * ** * * * *
6175747 AAGGCTGGTGTCTTTGATCTGTTTTGCTGCCAGTACAGGAAGGCAGGATCTGTTATCTTCA
1 AAGGCTGGTATCTTCGATCTGCTTCACTGTCGGTACAGGAAGGCAAGATCTGCTATCTTCA
6175808 CTGATCTACT
Statistics
Matches: 362, Mismatches: 51, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
88 362 1.00
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.27
Consensus pattern (88 bp):
AAGGCTGGTATCTTCGATCTGCTTCACTGTCGGTACAGGAAGGCAAGATCTGCTATCTTCAACCT
GCTCCACTACAACCCAGGGAGGC
Found at i:6175483 original size:44 final size:44
Alignment explanation
Indices: 6175342--6175749 Score: 230
Period size: 44 Copynumber: 9.3 Consensus size: 44
6175332 ACTGTCGGTA
* *
6175342 CAGGAAAGCAAGATCTGCTATCTTCAACTTGCTCCACTACGACC
1 CAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACGACC
* * * * ** * * * ***
6175386 CAGGGAGGCAAG-GCTGGTATTTTTGATCTGCTTCACTGTCGGTA
1 CAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACT-ACGACC
*
6175430 CAGGAAGGCAAGATCTACTATCTTCAACCTGCTCCACTACGACC
1 CAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACGACC
* * * * * * * * ***
6175474 CAGGCAGGCAAG-GCCGGTATCTTCAATCTGCTTCATTGTCGGTA
1 CAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACT-ACGACC
* *
6175518 CAGGAAGGCAAGATCTGCTATCTTCAACCTACTCCACTACAACC
1 CAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACGACC
* * * * * * * * * ***
6175562 CTGGGAGGCAAG-GCTGGTATCTTCGATCTACTTCACTGTCGGTA
1 CAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACT-ACGACC
* *
6175606 CAGGAAGGCAAGATCTACTATCTTCAACCTGCTCCACTACAACC
1 CAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACGACC
* * * * * * ** **
6175650 CAGGGAGGCAAGA-CTGGTATCTTCGATCTGCTTCGCTGTTGATG
1 CAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACT-ACGACC
* * * * *
6175694 CAGAAAGACAAAATTTGCTATCTTCAACCTGCTCCACTACAACC
1 CAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACGACC
*
6175738 CAGGGAGGCAAG
1 CAGGAAGGCAAG
6175750 GCTGGTGTCT
Statistics
Matches: 247, Mismatches: 109, Indels: 16
0.66 0.29 0.04
Matches are distributed among these distances:
43 73 0.30
44 103 0.42
45 71 0.29
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (44 bp):
CAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACGACC
Found at i:6177088 original size:17 final size:16
Alignment explanation
Indices: 6177052--6177087 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
6177042 GGCCTCTCTA
6177052 TTTTCTTTCTTCTTTT
1 TTTTCTTTCTTCTTTT
6177068 TTTTCTTT-TCTCTTTT
1 TTTTCTTTCT-TCTTTT
6177084 TTTT
1 TTTT
6177088 TTTGAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 1 0.05
16 18 0.95
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (16 bp):
TTTTCTTTCTTCTTTT
Found at i:6181028 original size:3 final size:3
Alignment explanation
Indices: 6181020--6181057 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
6181010 AACAAAAATA
6181020 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
6181058 ACATCCTTTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:6186357 original size:6 final size:6
Alignment explanation
Indices: 6186348--6186402 Score: 96
Period size: 6 Copynumber: 9.5 Consensus size: 6
6186338 TTTTGATAGA
6186348 TTTTAG TTTTAG TTTTAG TTTTAG TTTTAG TTTTAG TTTTAG -TTTAG
1 TTTTAG TTTTAG TTTTAG TTTTAG TTTTAG TTTTAG TTTTAG TTTTAG
6186395 -TTTAG TTT
1 TTTTAG TTT
6186403 GTTTTTCTTT
Statistics
Matches: 48, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
5 10 0.21
6 38 0.79
ACGTcount: A:0.16, C:0.00, G:0.16, T:0.67
Consensus pattern (6 bp):
TTTTAG
Found at i:6193147 original size:59 final size:56
Alignment explanation
Indices: 6193075--6193225 Score: 196
Period size: 59 Copynumber: 2.6 Consensus size: 56
6193065 CTGCTAGTTG
6193075 TTTTATACTTAAGAAAATTTTGAAAGATAACACA-AATGGGAATGTTACTCCAAGAGCTA
1 TTTTATACTTAAGAAAATTTTGAAA-ATAACACACAA-GGG-ATGTTACTCCAAGAG-TA
* ** *
6193134 TTTTATACTTAAGAAAATTTTGACAAATAACACAGCCAGGGATGTTACTCCGTGAGTT
1 TTTTATACTTAAGAAAATTTTGA-AAATAACACA-CAAGGGATGTTACTCCAAGAGTA
6193192 TTTTATACTTAAGAAAATTTTGAAATATAACACA
1 TTTTATACTTAAGAAAATTTTGAAA-ATAACACA
6193226 GCTGAGAGTT
Statistics
Matches: 84, Mismatches: 4, Indels: 9
0.87 0.04 0.09
Matches are distributed among these distances:
57 2 0.02
58 32 0.38
59 44 0.52
60 5 0.06
61 1 0.01
ACGTcount: A:0.40, C:0.13, G:0.14, T:0.33
Consensus pattern (56 bp):
TTTTATACTTAAGAAAATTTTGAAAATAACACACAAGGGATGTTACTCCAAGAGTA
Found at i:6193222 original size:58 final size:57
Alignment explanation
Indices: 6193021--6193227 Score: 222
Period size: 58 Copynumber: 3.6 Consensus size: 57
6193011 AAGCTGTTTC
* * * * * * *
6193021 ATACTTAAGAAAATCTCGAAAGATAATATAGCTGAGATGTTACTCTGCT-AGTTGTTTT
1 ATACTTAAGAAAATTTTGAAAGATAACACAGCAGGGATGTTACTCCG-TGAGTT-TTTT
* ** *
6193079 ATACTTAAGAAAATTTTGAAAGATAACACA-AATGGGAATGTTACTCCAAGAGCTATTTT
1 ATACTTAAGAAAATTTTGAAAGATAACACAGCA-GGG-ATGTTACTCCGTGAG-TTTTTT
6193138 ATACTTAAGAAAATTTTGACAA-ATAACACAGCCAGGGATGTTACTCCGTGAGTTTTTT
1 ATACTTAAGAAAATTTTGA-AAGATAACACAG-CAGGGATGTTACTCCGTGAGTTTTTT
*
6193196 ATACTTAAGAAAATTTTGAAATATAACACAGC
1 ATACTTAAGAAAATTTTGAAAGATAACACAGC
6193228 TGAGAGTTTT
Statistics
Matches: 126, Mismatches: 15, Indels: 17
0.80 0.09 0.11
Matches are distributed among these distances:
57 3 0.02
58 61 0.48
59 55 0.44
60 6 0.05
61 1 0.01
ACGTcount: A:0.39, C:0.13, G:0.15, T:0.32
Consensus pattern (57 bp):
ATACTTAAGAAAATTTTGAAAGATAACACAGCAGGGATGTTACTCCGTGAGTTTTTT
Found at i:6200180 original size:16 final size:15
Alignment explanation
Indices: 6200155--6200186 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
6200145 CTATTTCGTA
6200155 GATTGTTGGAAGCTT
1 GATTGTTGGAAGCTT
6200170 GATTAGTTGGAAGCTT
1 GATT-GTTGGAAGCTT
6200186 G
1 G
6200187 TCGAAGATCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.22, C:0.06, G:0.34, T:0.38
Consensus pattern (15 bp):
GATTGTTGGAAGCTT
Found at i:6203148 original size:16 final size:16
Alignment explanation
Indices: 6203127--6203160 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
6203117 CGCGGCCTAT
6203127 CTGGTCCTTGAATGTC
1 CTGGTCCTTGAATGTC
6203143 CTGGTCCTTGAATGTC
1 CTGGTCCTTGAATGTC
6203159 CT
1 CT
6203161 ATTTACCAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.12, C:0.26, G:0.24, T:0.38
Consensus pattern (16 bp):
CTGGTCCTTGAATGTC
Found at i:6204516 original size:20 final size:21
Alignment explanation
Indices: 6204479--6204517 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
6204469 TATTTACCTC
**
6204479 TAAAGTTAAAAGTCAAAACAT
1 TAAAGTTAAAAGGAAAAACAT
6204500 TAAA-TTAAAAGGAAAAAC
1 TAAAGTTAAAAGGAAAAAC
6204518 TACATCATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.62, C:0.08, G:0.10, T:0.21
Consensus pattern (21 bp):
TAAAGTTAAAAGGAAAAACAT
Found at i:6207569 original size:27 final size:27
Alignment explanation
Indices: 6207538--6207715 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
6207528 TAAATTGTAC
6207538 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
6207565 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
6207591 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
6207619 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
6207647 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
6207674 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
6207701 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
6207716 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:6207652 original size:82 final size:81
Alignment explanation
Indices: 6207539--6207694 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
6207529 AAATTGTACA
* *
6207539 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
6207603 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
6207620 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
6207685 TGCGAGTTGA
65 TGCGAATTGA
6207695 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:6207706 original size:82 final size:81
Alignment explanation
Indices: 6207535--6207715 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
6207525 GATTAAATTG
* *
6207535 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
6207600 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
6207616 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
6207680 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
6207698 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
6207716 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:6211010 original size:20 final size:19
Alignment explanation
Indices: 6210987--6211025 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
6210977 ATATTTTACT
*
6210987 AAAATATTACAAAATCAATA
1 AAAAAATTACAAAAT-AATA
*
6211007 AAAAAATTCCAAAATAATA
1 AAAAAATTACAAAATAATA
6211026 TAACTTTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.67, C:0.10, G:0.00, T:0.23
Consensus pattern (19 bp):
AAAAAATTACAAAATAATA
Found at i:6211387 original size:154 final size:151
Alignment explanation
Indices: 6211107--6211759 Score: 863
Period size: 152 Copynumber: 4.3 Consensus size: 151
6211097 CAATTGTTCG
* * ** *
6211107 TATTTTGGCCCTTTTTTCGTATTTTTTT--TGGATTTTATTACTTTAAAAAATATACTATTTTTT
1 TATTTCGGCCCTTTGTTCGTATTTTTTTCCCAGATTTTATTACTTTAAAAAATATACTATTTTCT
* *
6211170 AATTTT-TTAATTTTACATTATTTTAGTACATTATATTTGAAATGTATTAATTTACTATTTTTTT
66 AATTTTATT-ATTTTAAATTATTTTAGTACATTATATTTGAAATGTATTAATTTACTATGTTTTT
6211234 TAAATAAATTTAAAAAAAAATC-T
130 TAAATAAATTT--AAAAAAATCAT
* * * *
6211257 TATTTCTGCCCTATGTTCGTATTTTTTTCTCAGATTTTATTACTTTTAAAAAA-ATACTATTTTT
1 TATTTCGGCCCTTTGTTCGTATTTTTTTCCCAGATTTTATTAC-TTTAAAAAATATACTATTTTC
* * * *
6211321 TAATTTTTTTTTATTTTACATTATTTTAGTACATTATATTTGAAATGTATTAATTTAGTGTGTTT
65 TAA--TTTTATTATTTTAAATTATTTTAGTACATTATATTTGAAATGTATTAATTTACTATGTTT
6211386 TTTAAATAAA-TT-AAAAAATCAT
128 TTTAAATAAATTTAAAAAAATCAT
* *
6211408 TATTTCGGCCCTTTGTTCGTATTTTTTCCCCAGAGTTTATTACTTTAAACAAATATACTATTTTC
1 TATTTCGGCCCTTTGTTCGTATTTTTTTCCCAGATTTTATTACTTTAAA-AAATATACTATTTTC
* * *
6211473 TAATTTTATTATTTTAAATTATTTTAGTACATCATGTTTGAAATGTATTAATTTACTGTGTTTTT
65 TAATTTTATTATTTTAAATTATTTTAGTACATTATATTTGAAATGTATTAATTTACTATGTTTTT
* *
6211538 TAAATAAATTTAGAAAAATCTT
130 TAAATAAATTTAAAAAAATCAT
* * *
6211560 TATTTCGGCCATTTGTTCGTATTTTTTCCCCAGAGTTTATTACTTTAAACAAATATACTATTTTC
1 TATTTCGGCCCTTTGTTCGTATTTTTTTCCCAGATTTTATTACTTTAAA-AAATATACTATTTTC
* * *
6211625 TAATTTTATTATTTTAAATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTATGTTTTT
65 TAATTTTATTATTTTAAATTATTTTAGTACATTATATTTGAAATGTATTAATTTACTATGTTTTT
6211690 TAAATAAATTTTAAAAAAAACTC-T
130 TAAATAAA-TTT-AAAAAAA-TCAT
* * * *
6211714 TATTTCGGCCTTTTGTTCATATTTTTTTCCCGGATTTTCTTACTTT
1 TATTTCGGCCCTTTGTTCGTATTTTTTTCCCAGATTTTATTACTTT
6211760 CAATAAAAAA
Statistics
Matches: 455, Mismatches: 34, Indels: 24
0.89 0.07 0.05
Matches are distributed among these distances:
150 103 0.23
151 44 0.10
152 179 0.39
153 14 0.03
154 111 0.24
155 4 0.01
ACGTcount: A:0.30, C:0.10, G:0.07, T:0.53
Consensus pattern (151 bp):
TATTTCGGCCCTTTGTTCGTATTTTTTTCCCAGATTTTATTACTTTAAAAAATATACTATTTTCT
AATTTTATTATTTTAAATTATTTTAGTACATTATATTTGAAATGTATTAATTTACTATGTTTTTT
AAATAAATTTAAAAAAATCAT
Found at i:6212100 original size:150 final size:151
Alignment explanation
Indices: 6211765--6212183 Score: 614
Period size: 150 Copynumber: 2.8 Consensus size: 151
6211755 ACTTTCAATA
*
6211765 AAAAAACACACTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAA-T
1 AAAAAACACACTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAAAAAAATT
* * * *
6211829 TAGAAAATAATATATTTTTTAAAAGTAATAAAATCCGAG--AAAAATACGAACAAATGGTCAAAA
66 TA-AAAATAATATATTTTTTAAAAGTAATAAAATTCGAGAAAAAAATACGAATAAAGGGCCAAAA
6211892 TAAGGATTTTTTTAATTTATTT
130 TAAGGATTTTTTTAATTTATTT
*
6211914 AAAAAACACACTAAATTAATACATTTCATACATAATGTACTAAAATAATGTAAAATAAAAAAATT
1 AAAAAACACACTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAAAAAAATT
* * * *
6211979 TAAAAATAGTAT-TTTTTTAGAAGTAATAAAATTCGAGAAAAAAATACGAATATAGGGCCGAAAT
66 TAAAAATAATATATTTTTTAAAAGTAATAAAATTCGAGAAAAAAATACGAATAAAGGGCCAAAAT
6212043 AA-GAGTTTTTTTAATTTATTT
131 AAGGA-TTTTTTTAATTTATTT
* * * * **
6212064 AAAAAATACAATAAATTAATATATTTCAAATATAATGTACTAAAATAATGTAAAATTTAAAAATT
1 AAAAAACACACTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAAAAAAATT
* * *
6212129 TAAAAATAATATATTTTTTAAAAATAATAAAATTTGAGAAAAAAATACAAATAAA
66 TAAAAATAATATATTTTTTAAAAGTAATAAAATTCGAGAAAAAAATACGAATAAA
6212184 ATGTCAAAAT
Statistics
Matches: 242, Mismatches: 23, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
148 23 0.10
149 72 0.30
150 110 0.45
151 37 0.15
ACGTcount: A:0.54, C:0.06, G:0.07, T:0.32
Consensus pattern (151 bp):
AAAAAACACACTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAAAAAAATT
TAAAAATAATATATTTTTTAAAAGTAATAAAATTCGAGAAAAAAATACGAATAAAGGGCCAAAAT
AAGGATTTTTTTAATTTATTT
Found at i:6212556 original size:10 final size:10
Alignment explanation
Indices: 6212541--6212657 Score: 50
Period size: 10 Copynumber: 11.5 Consensus size: 10
6212531 TTTTTATTTT
6212541 AAAAATTTAA
1 AAAAATTTAA
*
6212551 AAAAATTAAAA
1 AAAAATT-TAA
6212562 AAAAGTATTTTAA
1 AAAA--A-TTTAA
*
6212575 AAATATTT--
1 AAAAATTTAA
*
6212583 TAAAA-TTAA
1 AAAAATTTAA
6212592 AAAAATTTAAAA
1 AAAAATTT--AA
6212604 AAAAGTATTTTAA
1 AAAA--A-TTTAA
*
6212617 AAATATTT--
1 AAAAATTTAA
*
6212625 TAAAA-TTAA
1 AAAAATTTAA
*
6212634 AAAAAATTAA
1 AAAAATTTAA
6212644 AAAAA-TTAA
1 AAAAATTTAA
6212653 AAAAA
1 AAAAA
6212658 GTATGTAAAA
Statistics
Matches: 82, Mismatches: 10, Indels: 31
0.67 0.08 0.25
Matches are distributed among these distances:
7 4 0.05
8 6 0.07
9 17 0.21
10 24 0.29
11 8 0.10
12 6 0.07
13 11 0.13
14 3 0.04
15 3 0.04
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.31
Consensus pattern (10 bp):
AAAAATTTAA
Found at i:6212576 original size:32 final size:32
Alignment explanation
Indices: 6212535--6212596 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 32
6212525 GGCCCATTTT
6212535 TATTTTAAAAAT-TTAAAAAAATTAAAAAAAAG
1 TATTTTAAAAATATT-AAAAAATTAAAAAAAAG
**
6212567 TATTTTAAAAATATTTTAAAATTAAAAAAA
1 TATTTTAAAAATATTAAAAAATTAAAAAAA
6212597 TTTAAAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
32 25 0.93
33 2 0.07
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (32 bp):
TATTTTAAAAATATTAAAAAATTAAAAAAAAG
Found at i:6212595 original size:42 final size:42
Alignment explanation
Indices: 6212535--6212648 Score: 201
Period size: 42 Copynumber: 2.7 Consensus size: 42
6212525 GGCCCATTTT
*
6212535 TATTTTAAAAATTTAAAAAAATTAAAAAAAAGTATTTTAAAAA
1 TATTTT-AAAATTAAAAAAAATTAAAAAAAAGTATTTTAAAAA
*
6212578 TATTTTAAAATTAAAAAAATTTAAAAAAAAGTATTTTAAAAA
1 TATTTTAAAATTAAAAAAAATTAAAAAAAAGTATTTTAAAAA
6212620 TATTTTAAAATTAAAAAAAATTAAAAAAA
1 TATTTTAAAATTAAAAAAAATTAAAAAAA
6212649 TTAAAAAAAG
Statistics
Matches: 68, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
42 62 0.91
43 6 0.09
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (42 bp):
TATTTTAAAATTAAAAAAAATTAAAAAAAAGTATTTTAAAAA
Found at i:6212657 original size:9 final size:9
Alignment explanation
Indices: 6212626--6212657 Score: 55
Period size: 9 Copynumber: 3.4 Consensus size: 9
6212616 AAAATATTTT
6212626 AAAATTAAAA
1 AAAATT-AAA
6212636 AAAATTAAA
1 AAAATTAAA
6212645 AAAATTAAA
1 AAAATTAAA
6212654 AAAA
1 AAAA
6212658 GTATGTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 16 0.73
10 6 0.27
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (9 bp):
AAAATTAAA
Found at i:6212675 original size:49 final size:52
Alignment explanation
Indices: 6212584--6212689 Score: 182
Period size: 49 Copynumber: 2.1 Consensus size: 52
6212574 AAAATATTTT
*
6212584 AAAATTAAAAAAATTTAAAAAAAAGTATTTTAAAAATATTTTAAAATTAAAA
1 AAAATTAAAAAAATTTAAAAAAAAGTATTGTAAAAATATTTTAAAATTAAAA
6212636 AAAATTAAAAAAA-TT-AAAAAAAGTA-TGTAAAAATATTTTAAAATTAAAA
1 AAAATTAAAAAAATTTAAAAAAAAGTATTGTAAAAATATTTTAAAATTAAAA
6212685 AAAAT
1 AAAAT
6212690 AATTTATTAT
Statistics
Matches: 53, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
49 28 0.53
50 10 0.19
51 2 0.04
52 13 0.25
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (52 bp):
AAAATTAAAAAAATTTAAAAAAAAGTATTGTAAAAATATTTTAAAATTAAAA
Found at i:6218715 original size:41 final size:42
Alignment explanation
Indices: 6218636--6218724 Score: 103
Period size: 40 Copynumber: 2.1 Consensus size: 42
6218626 TAATAATATG
* **
6218636 ATTTT-TATAATTTCTTTTACAATTTTTTACAATTTCTAA-T
1 ATTTTATATAATTTCTTTTACAATTTTTTAAAAACTCTAACT
*
6218676 ATTTTATATAGTTT-TTTTACAATTTTTTAAAAAACTCTAACCT
1 ATTTTATATAATTTCTTTTACAATTTTTT-AAAAACTCTAA-CT
6218719 ATTTTA
1 ATTTTA
6218725 ATTTTTTAGA
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
40 19 0.46
41 15 0.37
43 7 0.17
ACGTcount: A:0.33, C:0.10, G:0.01, T:0.56
Consensus pattern (42 bp):
ATTTTATATAATTTCTTTTACAATTTTTTAAAAACTCTAACT
Found at i:6219255 original size:6 final size:6
Alignment explanation
Indices: 6219224--6219254 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
6219214 AGATTTAAAA
6219224 TTGATT TTGATT TTGATT TTGATT TTG-TT TT
1 TTGATT TTGATT TTGATT TTGATT TTGATT TT
6219255 TATTAATTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 4 0.16
6 21 0.84
ACGTcount: A:0.13, C:0.00, G:0.16, T:0.71
Consensus pattern (6 bp):
TTGATT
Found at i:6220705 original size:15 final size:15
Alignment explanation
Indices: 6220669--6220707 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
6220659 GCAAATATCG
*
6220669 TGATAACAAATACAA
1 TGATAATAAATACAA
6220684 T-AGTAATAAATACAA
1 TGA-TAATAAATACAA
6220699 TGATAATAA
1 TGATAATAA
6220708 TTTTAACGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
14 1 0.05
15 19 0.90
16 1 0.05
ACGTcount: A:0.59, C:0.08, G:0.08, T:0.26
Consensus pattern (15 bp):
TGATAATAAATACAA
Found at i:6222615 original size:44 final size:44
Alignment explanation
Indices: 6222567--6222788 Score: 165
Period size: 44 Copynumber: 5.0 Consensus size: 44
6222557 GAGACAGGAT
6222567 TTGTTCATTCAGTCTGC-CGCACTGCAACTTCAAGAGGATAAGAC
1 TTGTTCATTCAGTCTGCTC-CACTGCAACTTCAAGAGGATAAGAC
* * *
6222611 TTGTTTACTT-AGTCTGCTCCACTGCAACTTC-AGGGAGATAGGA-
1 TTGTTCA-TTCAGTCTGCTCCACTGCAACTTCAAGAG-GATAAGAC
* * * * * *
6222654 TT-ATCGGCTTTAATCTGCTCCACTGCAACTTCAAGAAGATAAGAT
1 TTGTTC--ATTCAGTCTGCTCCACTGCAACTTCAAGAGGATAAGAC
* * *
6222699 TTG-CCATCTTCAGTCTGC-CTCACTGCAACTTCAGGAGAATAAGAC
1 TTGTTCA--TTCAGTCTGCTC-CACTGCAACTTCAAGAGGATAAGAC
* *
6222744 TTGCTT-ATTTAGTCTTCTCCACTGCAACTTCAAG-GAGATAAGAC
1 TTG-TTCATTCAGTCTGCTCCACTGCAACTTCAAGAG-GATAAGAC
6222788 T
1 T
6222789 AAATGCAATC
Statistics
Matches: 139, Mismatches: 23, Indels: 32
0.72 0.12 0.16
Matches are distributed among these distances:
42 1 0.01
43 8 0.06
44 88 0.63
45 41 0.29
46 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (44 bp):
TTGTTCATTCAGTCTGCTCCACTGCAACTTCAAGAGGATAAGAC
Found at i:6222765 original size:89 final size:88
Alignment explanation
Indices: 6222586--6223437 Score: 351
Period size: 89 Copynumber: 9.8 Consensus size: 88
6222576 CAGTCTGCCG
* **
6222586 CACTGCAACTTCAAGAGGATAAGACTTGTTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATA
1 CACTGCAACTTCAAGAAGATAAGACTTGCATACTTAGTCTGCTCCACTGCAACTTCAGGGAGATA
* * *
6222651 GGATTATCGGCTTTAATCTGCTC
66 AGATTAGCGGATTTAATCTGCTC
*
6222674 CACTGCAACTTCAAGAAGATAAGATTTGCCAT-CTTCAGTCTGC-CTCACTGCAACTTCA-GGAG
1 CACTGCAACTTCAAGAAGATAAGACTTG-CATACTT-AGTCTGCTC-CACTGCAACTTCAGGGAG
** * *
6222736 AATAAGACTT-GCTTATTTAGTCTTCTC
63 -ATAAGA-TTAGCGGATTTAATCTGCTC
* ** * * * * *
6222763 CACTGCAACTTCAAGGAGATAAGAC-TAAATGC--AATCTACT-CTCTGCAACTTCAGAGAGATA
1 CACTGCAACTTCAAGAAGATAAGACTTGCATACTTAGTCTGCTCCACTGCAACTTCAGGGAGATA
* * * *
6222824 AGATCCA-AGGTTTTAATCCGCTC
66 AGAT-TAGCGGATTTAATCTGCTC
* * * * * * * *
6222847 CACTGCAACTTCAGGGAGATAGGA-TT--ATCGGCTTTAATCTGCTCCACTGCAATTTCAAGAAG
1 CACTGCAACTTCAAGAAGATAAGACTTGCAT--AC-TTAGTCTGCTCCACTGCAACTTCAGGGAG
* * **
6222909 ATAAGATTTGC-CATCTTTAGCCTGC-C
63 ATAAGATTAGCGGA--TTTAATCTGCTC
* * * *
6222935 TCACTGCAACTTC-AGGAGAATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTTAGAGAGA
1 -CACTGCAACTTCAAGAAG-ATAAGACTTGCATACTTAGTCTGCTCCACTGCAACTTCAGGGAGA
* * ***
6222999 TAAGACTA---AATGCGATCTGCT-
64 TAAGATTAGCGGATTTAATCTGCTC
* * * * * *
6223020 CTCTGCAACTTC-AGAGAGATAAGA--TCCA-AGGTTTTAATCCGCTCCACTGTAACTTCAGGGA
1 CACTGCAACTTCAAGA-AGATAAGACTTGCATA---CTTAGTCTGCTCCACTGCAACTTCAGGGA
* * * *
6223081 GATAGGATTATCAGCTTTAATCTGCTC
62 GATAAGATTAGCGGATTTAATCTGCTC
* * *
6223108 CACTGCAACTTCAGGGAGATAAGATTTGCCAT-CTTCAGTCTGC-CTCACTGCAACTTCA-GGAG
1 CACTGCAACTTCAAGAAGATAAGACTTG-CATACTT-AGTCTGCTC-CACTGCAACTTCAGGGAG
** * *
6223170 AATAAGACTT-GCTTACTTAGTCTGCTC
63 -ATAAGA-TTAGCGGATTTAATCTGCTC
* ** * * * *
6223197 CACTGCAACTT-TAGAGAGATAAGAC-TAAATGC-GA-TCTGCT-CTCTGCAACTTCAGAGAGAT
1 CACTGCAACTTCAAGA-AGATAAGACTTGCATACTTAGTCTGCTCCACTGCAACTTCAGGGAGAT
* * *
6223257 AAGATTCA-AGGTTTTAATCCGCTC
65 AAGATT-AGCGGATTTAATCTGCTC
* * * * * * * * * *
6223281 TACTGCAACTTCAGGGAGATAGGA-TT--ATCGGCTTTAATATTCTCTACTGCAACTTCAGGGAA
1 CACTGCAACTTCAAGAAGATAAGACTTGCAT--AC-TTAGTCTGCTCCACTGCAACTTCAGGGAG
* *
6223343 ATAAGATTTGAC--ATCTCCAATCTGC-C
63 ATAAGATTAG-CGGAT-T-TAATCTGCTC
* * * * * *
6223369 TCACTGCAACTTTAGGAGGATAAGACTTGCTTGCTTAGTTTGCTCCACTGCAACTTCAGGGAGAT
1 -CACTGCAACTTCAAGAAGATAAGACTTGCATACTTAGTCTGCTCCACTGCAACTTCAGGGAGAT
6223434 AAGA
65 AAGA
6223438 CTAAATGCAA
Statistics
Matches: 562, Mismatches: 137, Indels: 129
0.68 0.17 0.16
Matches are distributed among these distances:
81 1 0.00
82 6 0.01
83 3 0.01
84 149 0.27
85 24 0.04
86 2 0.00
87 25 0.04
88 114 0.20
89 222 0.40
90 12 0.02
91 2 0.00
92 2 0.00
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (88 bp):
CACTGCAACTTCAAGAAGATAAGACTTGCATACTTAGTCTGCTCCACTGCAACTTCAGGGAGATA
AGATTAGCGGATTTAATCTGCTC
Found at i:6222879 original size:217 final size:217
Alignment explanation
Indices: 6222626--6223525 Score: 1428
Period size: 217 Copynumber: 4.1 Consensus size: 217
6222616 TACTTAGTCT
6222626 GCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTCCACTGCAACTTCAAGAA
1 GCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTCCACTGCAACTTCAAGAA
*
6222691 GATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGAATAAGACTTGCTTATTTAG
66 GATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGAATAAGACTTGCTTACTTAG
* *
6222756 TCTTCTCCACTGCAACTTCAAG-GAGATAAGACTAAATGCAATCTACTCTCTGCAACTTCAGAGA
131 TCTGCTCCACTGCAACTT-AAGAGAGATAAGACTAAATGCAATCTGCTCTCTGCAACTTCAGAGA
6222820 GATAAGATCCAAGGTTTTAATCC
195 GATAAGATCCAAGGTTTTAATCC
*
6222843 GCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTCCACTGCAATTTCAAGAA
1 GCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTCCACTGCAACTTCAAGAA
* *
6222908 GATAAGATTTGCCATCTTTAGCCTGCCTCACTGCAACTTCAGGAGAATAAGACTTGCTTACTTAG
66 GATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGAATAAGACTTGCTTACTTAG
* *
6222973 TCTGCTCCACTGCAACTTTAGAGAGATAAGACTAAATGCGATCTGCTCTCTGCAACTTCAGAGAG
131 TCTGCTCCACTGCAACTTAAGAGAGATAAGACTAAATGCAATCTGCTCTCTGCAACTTCAGAGAG
6223038 ATAAGATCCAAGGTTTTAATCC
196 ATAAGATCCAAGGTTTTAATCC
* * * *
6223060 GCTCCACTGTAACTTCAGGGAGATAGGATTATCAGCTTTAATCTGCTCCACTGCAACTTCAGGGA
1 GCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTCCACTGCAACTTCAAGAA
6223125 GATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGAATAAGACTTGCTTACTTAG
66 GATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGAATAAGACTTGCTTACTTAG
* *
6223190 TCTGCTCCACTGCAACTTTAGAGAGATAAGACTAAATGCGATCTGCTCTCTGCAACTTCAGAGAG
131 TCTGCTCCACTGCAACTTAAGAGAGATAAGACTAAATGCAATCTGCTCTCTGCAACTTCAGAGAG
*
6223255 ATAAGATTCAAGGTTTTAATCC
196 ATAAGATCCAAGGTTTTAATCC
* * * * *
6223277 GCTCTACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATATTCTCTACTGCAACTTCAGGGA
1 GCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTCCACTGCAACTTCA-AGA
* * * * * *
6223342 A-ATAAGATTTGACATCTCCAATCTGCCTCACTGCAACTTTAGGAGGATAAGACTTGCTTGCTTA
65 AGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGAATAAGACTTGCTTACTTA
* * *
6223406 GTTTGCTCCACTGCAACTTCAGGGAGATAAGACTAAATGCAATCTGCTCTCTGCAACTTCAGAGA
130 GTCTGCTCCACTGCAACTTAAGAGAGATAAGACTAAATGCAATCTGCTCTCTGCAACTTCAGAGA
* * * *
6223471 GATAATATCTGTAA-TTTTTAACCC
195 GATAAGATC--CAAGGTTTTAATCC
* *
6223495 ACTCCACTGCAACTTCAGGGAGATAAGATTA
1 GCTCCACTGCAACTTCAGGGAGATAGGATTA
6223526 CTGGCTACCG
Statistics
Matches: 638, Mismatches: 41, Indels: 7
0.93 0.06 0.01
Matches are distributed among these distances:
216 2 0.00
217 595 0.93
218 39 0.06
219 2 0.00
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (217 bp):
GCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTCCACTGCAACTTCAAGAA
GATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGAATAAGACTTGCTTACTTAG
TCTGCTCCACTGCAACTTAAGAGAGATAAGACTAAATGCAATCTGCTCTCTGCAACTTCAGAGAG
ATAAGATCCAAGGTTTTAATCC
Found at i:6223028 original size:173 final size:173
Alignment explanation
Indices: 6222849--6223178 Score: 379
Period size: 173 Copynumber: 1.9 Consensus size: 173
6222839 ATCCGCTCCA
* * * * * *
6222849 CTGCAACTTCAGGGAGATAGGAT-TATCGGCTTTAATCTGCTCCACTGCAATTTCAAGAAGATAA
1 CTGCAACTTCAGAGAGATAAGATCCA-AGGCTTTAATCCGCTCCACTGCAACTTCAAGAAGATAA
* * *
6222913 GATT-TGCCATCTTTAGCCTGC-CTCACTGCAACTTCA-GGAGAATAAGACTTG-CTTACTT-AG
65 GATTAT--CAGCTTTAACCTGCTC-CACTGCAACTTCAGGGAG-ATAAGACTTGCCAT-CTTCAG
*
6222973 TCTG-CTCCACTGCAACTTTA-GAGAGATAAGACTAAATGCGATCTGCTCT
125 TCTGCCT-CACTGCAACTTCAGGAGA-ATAAGACTAAATGCGATCTGCTCT
* * * * *
6223022 CTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGG
1 CTGCAACTTCAGAGAGATAAGATCCAAGGCTTTAATCCGCTCCACTGCAACTTCAAGAAGATAAG
* *
6223087 ATTATCAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCC
66 ATTATCAGCTTTAACCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCCATCTTCAGTCTGCC
6223152 TCACTGCAACTTCAGGAGAATAAGACT
131 TCACTGCAACTTCAGGAGAATAAGACT
6223179 TGCTTACTTA
Statistics
Matches: 132, Mismatches: 17, Indels: 16
0.80 0.10 0.10
Matches are distributed among these distances:
172 36 0.27
173 88 0.67
174 8 0.06
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.28
Consensus pattern (173 bp):
CTGCAACTTCAGAGAGATAAGATCCAAGGCTTTAATCCGCTCCACTGCAACTTCAAGAAGATAAG
ATTATCAGCTTTAACCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCCATCTTCAGTCTGCC
TCACTGCAACTTCAGGAGAATAAGACTAAATGCGATCTGCTCT
Found at i:6223317 original size:44 final size:44
Alignment explanation
Indices: 6222623--6223525 Score: 406
Period size: 44 Copynumber: 20.8 Consensus size: 44
6222613 GTTTACTTAG
* *
6222623 TCTGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTATAGGCTTTAA
* * * *
6222667 TCTGCTCCACTGCAACTTCAAGAAGATAAGATT-T-GCCATCTTCAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTATAGGC-T-TT-AA
* *
6222712 TCTGC-CTCACTGCAACTTCA-GGAGAATAAGACT-T--GCTTATTTAG
1 TCTGCTC-CACTGCAACTTCAGGGAG-ATAAGATTATAGGC---TTTAA
* * * * *
6222756 TCTTCTCCACTGCAACTTCAAGGAGATAAGACTAAATGC---AA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTATAGGCTTTAA
* * * * *
6222797 TCTACT-CTCTGCAACTTCAGAGAGATAAGATCCA-AGGTTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TATAGGCTTTAA
* * *
6222840 TCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTATAGGCTTTAA
* * * * *
6222884 TCTGCTCCACTGCAATTTCAAGAAGATAAGATT-T-GCCATCTTTAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTATAG---GCTTTAA
* * *
6222929 CCTGC-CTCACTGCAACTTCA-GGAGAATAAGACT-T--GCTTACTTAG
1 TCTGCTC-CACTGCAACTTCAGGGAG-ATAAGATTATAGGC-T--TTAA
* * * * * *
6222973 TCTGCTCCACTGCAACTTTAGAGAGATAAGACTAAATGC---GA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTATAGGCTTTAA
* * * *
6223014 TCTGCT-CTCTGCAACTTCAGAGAGATAAGATCCA-AGGTTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TATAGGCTTTAA
* * *
6223057 TCCGCTCCACTGTAACTTCAGGGAGATAGGATTATCA-GCTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTAT-AGGCTTTAA
* *
6223101 TCTGCTCCACTGCAACTTCAGGGAGATAAGATT-T-GCCATCTTCAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTATAGGC-T-TT-AA
* *
6223146 TCTGC-CTCACTGCAACTTCA-GGAGAATAAGACT-T--GCTTACTTAG
1 TCTGCTC-CACTGCAACTTCAGGGAG-ATAAGATTATAGGC-T--TTAA
* * * * * *
6223190 TCTGCTCCACTGCAACTTTAGAGAGATAAGACTAAATGC---GA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTATAGGCTTTAA
* * *
6223231 TCTGCT-CTCTGCAACTTCAGAGAGATAAGATTCA-AGGTTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATT-ATAGGCTTTAA
* * * *
6223274 TCCGCTCTACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTATAGGCTTTAA
* * * * * *
6223318 TATTCTCTACTGCAACTTCAGGGAAATAAGATT-T-GACATCTCCAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTATAGGC-T-T-TAA
* * * *
6223363 TCTGC-CTCACTGCAACTTTA-GGAGGATAAGACTTGCT-TGC-TTAG
1 TCTGCTC-CACTGCAACTTCAGGGA-GATAAGA-TT-ATAGGCTTTAA
* * * *
6223407 TTTGCTCCACTGCAACTTCAGGGAGATAAGACTAAATGC---AA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTATAGGCTTTAA
* * * * ***
6223448 TCTGCT-CTCTGCAACTTCAGAGAGATAATATCTGTAATTTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TATAGGCTTTAA
* **
6223492 CCCACTCCACTGCAACTTCAGGGAGATAAGATTA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTA
6223526 CTGGCTACCG
Statistics
Matches: 663, Mismatches: 124, Indels: 144
0.71 0.13 0.15
Matches are distributed among these distances:
40 93 0.14
41 30 0.05
42 7 0.01
43 32 0.05
44 338 0.51
45 151 0.23
46 4 0.01
47 6 0.01
48 2 0.00
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.29
Consensus pattern (44 bp):
TCTGCTCCACTGCAACTTCAGGGAGATAAGATTATAGGCTTTAA
Found at i:6235489 original size:15 final size:15
Alignment explanation
Indices: 6235453--6235491 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
6235443 GCAAATATTG
*
6235453 TGATAACAAATACAA
1 TGATAATAAATACAA
6235468 T-AGTAATAAATACAA
1 TGA-TAATAAATACAA
6235483 TGATAATAA
1 TGATAATAA
6235492 TTTTAACGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
14 1 0.05
15 19 0.90
16 1 0.05
ACGTcount: A:0.59, C:0.08, G:0.08, T:0.26
Consensus pattern (15 bp):
TGATAATAAATACAA
Found at i:6241429 original size:16 final size:16
Alignment explanation
Indices: 6241408--6241453 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
6241398 AAATGGGTTG
6241408 AGAAAATTATTTAATT
1 AGAAAATTATTTAATT
*
6241424 AGAAAATTAATTAATT
1 AGAAAATTATTTAATT
6241440 --AAAATTAATTTAAT
1 AGAAAATT-ATTTAAT
6241454 AACTAATATT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
14 6 0.22
15 6 0.22
16 15 0.56
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.41
Consensus pattern (16 bp):
AGAAAATTATTTAATT
Found at i:6243151 original size:24 final size:24
Alignment explanation
Indices: 6243122--6243183 Score: 79
Period size: 24 Copynumber: 2.6 Consensus size: 24
6243112 TCGAAGAAGT
** **
6243122 TGATAGTAATAGTGGGAGTTATGA
1 TGATAGTAATAGTGCAAACTATGA
6243146 TGATAGTAATAGTGCAAACTATGA
1 TGATAGTAATAGTGCAAACTATGA
*
6243170 TGATAGTGATAGTG
1 TGATAGTAATAGTG
6243184 AACTTTGTGA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.35, C:0.03, G:0.29, T:0.32
Consensus pattern (24 bp):
TGATAGTAATAGTGCAAACTATGA
Found at i:6244111 original size:42 final size:42
Alignment explanation
Indices: 6244052--6244142 Score: 155
Period size: 42 Copynumber: 2.2 Consensus size: 42
6244042 GTTTGCAGCG
*
6244052 TTTTTCTCTAAGCGCCGCTAAAGAACATGGTCTTTAGCGGCA
1 TTTTTTTCTAAGCGCCGCTAAAGAACATGGTCTTTAGCGGCA
* *
6244094 TTTTTTTCTAAGCGCCGCTAAAGAACATGTTCTTTAGCGGCG
1 TTTTTTTCTAAGCGCCGCTAAAGAACATGGTCTTTAGCGGCA
6244136 TTTTTTT
1 TTTTTTT
6244143 ACAAAAACGT
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.21, C:0.21, G:0.20, T:0.38
Consensus pattern (42 bp):
TTTTTTTCTAAGCGCCGCTAAAGAACATGGTCTTTAGCGGCA
Found at i:6244495 original size:21 final size:21
Alignment explanation
Indices: 6244461--6244522 Score: 79
Period size: 21 Copynumber: 3.0 Consensus size: 21
6244451 GCTCTGCTCT
*
6244461 GCTTCTCTCGCTGCAGCCTCC
1 GCTTCCCTCGCTGCAGCCTCC
* * *
6244482 GCTTCCCTCACTGCAGCCGCT
1 GCTTCCCTCGCTGCAGCCTCC
*
6244503 GCTTCCCTCGCTGCCGCCTC
1 GCTTCCCTCGCTGCAGCCTC
6244523 TTCTTTAAGT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.05, C:0.50, G:0.19, T:0.26
Consensus pattern (21 bp):
GCTTCCCTCGCTGCAGCCTCC
Found at i:6250048 original size:9 final size:9
Alignment explanation
Indices: 6250034--6250239 Score: 109
Period size: 9 Copynumber: 24.2 Consensus size: 9
6250024 TTTTTATGTA
6250034 TTATGTAAG
1 TTATGTAAG
6250043 TTATGTAAG
1 TTATGTAAG
*
6250052 TTATGT--C
1 TTATGTAAG
6250059 TTATGT-A-
1 TTATGTAAG
6250066 TTATGTAAG
1 TTATGTAAG
6250075 -TACTGTAAG
1 TTA-TGTAAG
*
6250084 TAATGTAAG
1 TTATGTAAG
6250093 TTATGTAAG
1 TTATGTAAG
* * *
6250102 -AAAGTTA-
1 TTATGTAAG
6250109 TTATGTAAG
1 TTATGTAAG
*
6250118 TTGTGTATA-
1 TTATGTA-AG
*
6250127 ATAT-TAA-
1 TTATGTAAG
*
6250134 TTATGTGAG
1 TTATGTAAG
**
6250143 TCGTGT-A-
1 TTATGTAAG
*
6250150 TAATGTAAG
1 TTATGTAAG
*
6250159 TTAAG-AAGG
1 TTATGTAA-G
6250168 TTATGT-A-
1 TTATGTAAG
*
6250175 TAATGTAAG
1 TTATGTAAG
6250184 TTATGTAAG
1 TTATGTAAG
* * *
6250193 TAATTTAAT
1 TTATGTAAG
6250202 TTATGTAAG
1 TTATGTAAG
6250211 TTATGTAAG
1 TTATGTAAG
* *
6250220 TTATTTAAT
1 TTATGTAAG
*
6250229 TTATGTCAG
1 TTATGTAAG
6250238 TT
1 TT
6250240 TCTATATATG
Statistics
Matches: 147, Mismatches: 34, Indels: 32
0.69 0.16 0.15
Matches are distributed among these distances:
7 25 0.17
8 20 0.14
9 100 0.68
10 2 0.01
ACGTcount: A:0.34, C:0.02, G:0.19, T:0.45
Consensus pattern (9 bp):
TTATGTAAG
Found at i:6250063 original size:32 final size:32
Alignment explanation
Indices: 6250027--6250089 Score: 101
Period size: 32 Copynumber: 2.0 Consensus size: 32
6250017 TGATATATTT
*
6250027 TTATGTATTATGTAAGTTA-TGTAAGTTATGTC
1 TTATGTATTATGTAAG-TACTGTAAGTAATGTC
6250059 TTATGTATTATGTAAGTACTGTAAGTAATGT
1 TTATGTATTATGTAAGTACTGTAAGTAATGT
6250090 AAGTTATGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
31 2 0.07
32 27 0.93
ACGTcount: A:0.30, C:0.03, G:0.19, T:0.48
Consensus pattern (32 bp):
TTATGTATTATGTAAGTACTGTAAGTAATGTC
Found at i:6250356 original size:22 final size:21
Alignment explanation
Indices: 6250310--6250361 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 21
6250300 AGTGGTGTAT
* * *
6250310 TAAGTTATGGAAGTTATTATG
1 TAAGTTATGCAAGTTATAATA
6250331 TAAGTTATGCAAGATTATAATA
1 TAAGTTATGCAAG-TTATAATA
6250353 TAAGTTATG
1 TAAGTTATG
6250362 TATTATGTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
21 12 0.44
22 15 0.56
ACGTcount: A:0.38, C:0.02, G:0.19, T:0.40
Consensus pattern (21 bp):
TAAGTTATGCAAGTTATAATA
Found at i:6250375 original size:8 final size:7
Alignment explanation
Indices: 6250357--6250394 Score: 53
Period size: 7 Copynumber: 5.6 Consensus size: 7
6250347 ATAATATAAG
6250357 TTATGTA
1 TTATGTA
6250364 TTATGTTA
1 TTATG-TA
6250372 TTATGTA
1 TTATGTA
6250379 TTATGTA
1 TTATGTA
6250386 --ATGTA
1 TTATGTA
6250391 TTAT
1 TTAT
6250395 CAGATTATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
5 5 0.18
7 16 0.57
8 7 0.25
ACGTcount: A:0.29, C:0.00, G:0.13, T:0.58
Consensus pattern (7 bp):
TTATGTA
Found at i:6250375 original size:27 final size:26
Alignment explanation
Indices: 6250342--6250414 Score: 74
Period size: 27 Copynumber: 2.7 Consensus size: 26
6250332 AAGTTATGCA
*
6250342 AGATTATAATATAAGTTATGTATTATG
1 AGATTAT-ATATAAGTTATGTATTATC
** * * *
6250369 TTATTATGTATTATGTAATGTATTATC
1 AGATTATATA-TAAGTTATGTATTATC
6250396 AGATTATATATAAGTTATG
1 AGATTATATATAAGTTATG
6250415 AAAGTTATTA
Statistics
Matches: 34, Mismatches: 11, Indels: 3
0.71 0.23 0.06
Matches are distributed among these distances:
26 9 0.26
27 25 0.74
ACGTcount: A:0.37, C:0.01, G:0.14, T:0.48
Consensus pattern (26 bp):
AGATTATATATAAGTTATGTATTATC
Found at i:6250431 original size:21 final size:22
Alignment explanation
Indices: 6250406--6250491 Score: 67
Period size: 21 Copynumber: 4.0 Consensus size: 22
6250396 AGATTATATA
6250406 TAAGTTATGA-AAGTTATTATG
1 TAAGTTATGATAAGTTATTATG
* *
6250427 TAAGTTAT-ACAAGCTTA-TATA
1 TAAGTTATGATAAG-TTATTATG
*
6250448 TAAGTTATGTATTATGTTATTATG
1 TAAGTTATG-A-TAAGTTATTATG
*
6250472 T-A-TTATG-TAATTTATTATG
1 TAAGTTATGATAAGTTATTATG
6250491 T
1 T
6250492 TATTATATAT
Statistics
Matches: 53, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
19 11 0.21
20 1 0.02
21 22 0.42
22 8 0.15
23 5 0.09
24 6 0.11
ACGTcount: A:0.35, C:0.02, G:0.14, T:0.49
Consensus pattern (22 bp):
TAAGTTATGATAAGTTATTATG
Found at i:6250450 original size:42 final size:42
Alignment explanation
Indices: 6250399--6250542 Score: 119
Period size: 50 Copynumber: 3.2 Consensus size: 42
6250389 TATTATCAGA
6250399 TTATATATAAGTTATGAAAGTTATTATGTAAGTTATACAAGC
1 TTATATATAAGTTATGAAAGTTATTATGTAAGTTATACAAGC
* * * *
6250441 TTATATATAAGTTATGTATTATGTTATTATGTATTATGTAATTTATTATG-
1 TTATATATAAGTTATG-A--AAGTTATTATGTA--A-GT--TATA-CAAGC
* *
6250491 TTATTATATATACGTTATGGAAGTTATTATGTAAGTTATGCAAGC
1 TTA-TATATA-A-GTTATGAAAGTTATTATGTAAGTTATACAAGC
6250536 TTATATA
1 TTATATA
6250543 CCAATTATGC
Statistics
Matches: 79, Mismatches: 10, Indels: 24
0.70 0.09 0.21
Matches are distributed among these distances:
42 16 0.20
43 1 0.01
44 6 0.08
45 17 0.22
47 3 0.04
48 3 0.04
50 18 0.23
51 8 0.10
52 1 0.01
53 6 0.08
ACGTcount: A:0.35, C:0.03, G:0.14, T:0.47
Consensus pattern (42 bp):
TTATATATAAGTTATGAAAGTTATTATGTAAGTTATACAAGC
Found at i:6250470 original size:8 final size:7
Alignment explanation
Indices: 6250452--6250497 Score: 51
Period size: 7 Copynumber: 6.6 Consensus size: 7
6250442 TATATATAAG
6250452 TTATGTA
1 TTATGTA
6250459 TTATGTTA
1 TTATG-TA
6250467 TTATGTA
1 TTATGTA
6250474 TTATGTA
1 TTATGTA
*
6250481 --ATTTA
1 TTATGTA
6250486 TTATGTTA
1 TTATG-TA
6250494 TTAT
1 TTAT
6250498 ATATACGTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
5 4 0.12
7 16 0.48
8 13 0.39
ACGTcount: A:0.28, C:0.00, G:0.11, T:0.61
Consensus pattern (7 bp):
TTATGTA
Found at i:6250471 original size:95 final size:95
Alignment explanation
Indices: 6250310--6250576 Score: 401
Period size: 95 Copynumber: 2.8 Consensus size: 95
6250300 AGTGGTGTAT
*
6250310 TAAGTTATGGAAGTTATTATGTAAGTTATGCAAGATTATAATATAAGTTATGTATTATGTTATTA
1 TAAGTTATGGAAGTTATTATGTAAGTTATGCAAGCTTAT-ATATAAGTTATGTATTATGTTATTA
6250375 TGTATTATGTAATGTATTATCAGATTATATA
65 TGTATTATGTAATGTATTATCAGATTATATA
* *
6250406 TAAGTTATGAAAGTTATTATGTAAGTTATACAAGCTTATATATAAGTTATGTATTATGTTATTAT
1 TAAGTTATGGAAGTTATTATGTAAGTTATGCAAGCTTATATATAAGTTATGTATTATGTTATTAT
* ***
6250471 GTATTATGTAATTTATTATGTTATTATATA
66 GTATTATGTAATGTATTATCAGATTATATA
* * * *
6250501 TACGTTATGGAAGTTATTATGTAAGTTATGCAAGCTTATATACCAA-TTATGCATTGTGTTATTA
1 TAAGTTATGGAAGTTATTATGTAAGTTATGCAAGCTTATATA-TAAGTTATGTATTATGTTATTA
*
6250565 TGTATTAAGTAA
65 TGTATTATGTAA
6250577 GCAAATGATT
Statistics
Matches: 156, Mismatches: 14, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
95 118 0.76
96 38 0.24
ACGTcount: A:0.35, C:0.04, G:0.15, T:0.46
Consensus pattern (95 bp):
TAAGTTATGGAAGTTATTATGTAAGTTATGCAAGCTTATATATAAGTTATGTATTATGTTATTAT
GTATTATGTAATGTATTATCAGATTATATA
Found at i:6250472 original size:15 final size:15
Alignment explanation
Indices: 6250452--6250497 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
6250442 TATATATAAG
6250452 TTATGTATTATGTTA
1 TTATGTATTATGTTA
6250467 TTATGTATTATG-TA
1 TTATGTATTATGTTA
*
6250481 --ATTTATTATGTTA
1 TTATGTATTATGTTA
6250494 TTAT
1 TTAT
6250498 ATATACGTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
12 9 0.33
13 2 0.07
14 2 0.07
15 14 0.52
ACGTcount: A:0.28, C:0.00, G:0.11, T:0.61
Consensus pattern (15 bp):
TTATGTATTATGTTA
Found at i:6250730 original size:19 final size:20
Alignment explanation
Indices: 6250694--6250735 Score: 52
Period size: 19 Copynumber: 2.1 Consensus size: 20
6250684 TTATATAAAT
*
6250694 AAAATATTTAAATTTTTA-A
1 AAAATATATAAATTTTTACA
6250713 AAAATATAT-AATTATTTACA
1 AAAATATATAAATT-TTTACA
6250733 AAA
1 AAA
6250736 CGTGTAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
18 4 0.20
19 12 0.60
20 4 0.20
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (20 bp):
AAAATATATAAATTTTTACA
Found at i:6250813 original size:61 final size:61
Alignment explanation
Indices: 6250722--6250869 Score: 174
Period size: 61 Copynumber: 2.4 Consensus size: 61
6250712 AAAAATATAT
* * * *
6250722 AATTATTTACAAAACGTGTAAAATTGATACTTA-TAAA-TTTTATTAATAATAAATCTAGAAC
1 AATTATTTACAAAACTTATAAATTTAATAC-TACTAAATTTTTA-TAATAATAAATCTAGAAC
* * * * * *
6250783 ACTTTTTTAGAAAACTTATAAATTTAATACTACTAAATTTTTATACTAATAAATTTAGAAT
1 AATTATTTACAAAACTTATAAATTTAATACTACTAAATTTTTATAATAATAAATCTAGAAC
6250844 AATTATTTACAAAACTTATAAATTTA
1 AATTATTTACAAAACTTATAAATTTA
6250870 GAAAACTTAT
Statistics
Matches: 72, Mismatches: 13, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
60 2 0.03
61 65 0.90
62 5 0.07
ACGTcount: A:0.47, C:0.08, G:0.04, T:0.41
Consensus pattern (61 bp):
AATTATTTACAAAACTTATAAATTTAATACTACTAAATTTTTATAATAATAAATCTAGAAC
Found at i:6250821 original size:15 final size:15
Alignment explanation
Indices: 6250800--6250839 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
6250790 TAGAAAACTT
6250800 ATAAATTTAATACTA
1 ATAAATTTAATACTA
* *
6250815 CTAAATTTTTATACTA
1 ATAAA-TTTAATACTA
6250831 ATAAATTTA
1 ATAAATTTA
6250840 GAATAATTAT
Statistics
Matches: 20, Mismatches: 4, Indels: 2
0.77 0.15 0.08
Matches are distributed among these distances:
15 7 0.35
16 13 0.65
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.45
Consensus pattern (15 bp):
ATAAATTTAATACTA
Found at i:6250874 original size:17 final size:17
Alignment explanation
Indices: 6250848--6250880 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
6250838 TAGAATAATT
6250848 ATTTACAAAACTTATAA
1 ATTTACAAAACTTATAA
*
6250865 ATTTAGAAAACTTATA
1 ATTTACAAAACTTATA
6250881 TAGAAAATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.52, C:0.09, G:0.03, T:0.36
Consensus pattern (17 bp):
ATTTACAAAACTTATAA
Found at i:6252579 original size:22 final size:20
Alignment explanation
Indices: 6252525--6252564 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
6252515 AAGAGATGAA
6252525 GAAAGGATGAGGGGAAATCG
1 GAAAGGATGAGGGGAAATCG
6252545 GAAAGGATGAGGGGAAATCG
1 GAAAGGATGAGGGGAAATCG
6252565 TAGAAAGACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.05, G:0.45, T:0.10
Consensus pattern (20 bp):
GAAAGGATGAGGGGAAATCG
Found at i:6255766 original size:114 final size:112
Alignment explanation
Indices: 6255510--6255767 Score: 306
Period size: 113 Copynumber: 2.3 Consensus size: 112
6255500 TATCCCAATA
* * * * * *
6255510 TTTTGCGGCGTTTTTTAATAAGCGCCACTAACTCTAATCTACCTCAAGACCAAACGGTGCGTTTT
1 TTTTACGGCGTTTTTTAATAAACGCCACTAACTCTAATATACCTCAAAACCAAACGCTGCATTTT
** * *
6255575 GGTTAAGATATTTGCGGCGCTTTTTGTAATACGCCGCTAATACTGTT
66 GGTTAAGATATTTGCGGCGCTTCATATAATACGCCACTAATACTGTT
* **
6255622 TTTTAGCGGCGTTTTCTCGTAAACGCCACTAA-TACTAATATACCTCAAAACCAAACGCTGCATT
1 TTTTA-CGGCGTTTTTTAATAAACGCCACTAACT-CTAATATACCTCAAAACCAAACGCTGCATT
*
6255686 TTGGTTAAGGTATTTTGCGGCGCTTACATATAA-ACGCCACTAATGA-TGTT
64 TTGGTTAAGATA-TTTGCGGCGCTT-CATATAATACGCCACTAAT-ACTGTT
*
6255736 CTTTTACGGCGTTTTTTAAAAAACGCCACTAA
1 -TTTTACGGCGTTTTTTAATAAACGCCACTAA
6255768 ATGTTTAGGT
Statistics
Matches: 122, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
112 5 0.04
113 59 0.48
114 48 0.39
115 10 0.08
ACGTcount: A:0.27, C:0.22, G:0.17, T:0.34
Consensus pattern (112 bp):
TTTTACGGCGTTTTTTAATAAACGCCACTAACTCTAATATACCTCAAAACCAAACGCTGCATTTT
GGTTAAGATATTTGCGGCGCTTCATATAATACGCCACTAATACTGTT
Found at i:6257433 original size:7 final size:7
Alignment explanation
Indices: 6257393--6257418 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
6257383 ATAACTCCAA
6257393 AAAATTT
1 AAAATTT
6257400 AAAATTT
1 AAAATTT
6257407 AAAATTT
1 AAAATTT
6257414 AAAAT
1 AAAAT
6257419 AATAATTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (7 bp):
AAAATTT
Found at i:6268620 original size:16 final size:17
Alignment explanation
Indices: 6268599--6268637 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
6268589 ATATATGAAG
6268599 ATTATTATTTA-AAATT
1 ATTATTATTTATAAATT
*
6268615 ATTATT-TTTATAATTT
1 ATTATTATTTATAAATT
6268631 ATTATTA
1 ATTATTA
6268638 AAATAAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
15 4 0.20
16 16 0.80
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
ATTATTATTTATAAATT
Found at i:6276601 original size:28 final size:28
Alignment explanation
Indices: 6276553--6276606 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 28
6276543 TGGCCATGCC
6276553 ATGGTCTTACACTCATAATGCCATAGTT
1 ATGGTCTTACACTCATAATGCCATAGTT
6276581 ATGGTCTTATCA-TCA-AGATGCCATAG
1 ATGGTCTTA-CACTCATA-ATGCCATAG
6276607 CCCAACTATG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
27 1 0.04
28 21 0.88
29 2 0.08
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (28 bp):
ATGGTCTTACACTCATAATGCCATAGTT
Found at i:6276740 original size:106 final size:101
Alignment explanation
Indices: 6276577--6276763 Score: 250
Period size: 106 Copynumber: 1.8 Consensus size: 101
6276567 ATAATGCCAT
* * * * *
6276577 AGTTATGGTCTTATCATCAAGATGCCATAGCCCAACTATGGTCTTACACGTATACATTTACTGCC
1 AGTTATGGTCTTATCATAAAAATACCATAGCCCAAATATGGTCTTACACGTAAACA-TT--T-CC
6276642 ATGGTCCAACCATGGTCTTACGTTCAAGGTGCCATAACCC
62 ATGGTCCAACCATGGTCTTACGTTCAAGGTGCCATAACCC
* *
6276682 AGTTATGGTCTTTTCATTAAAAATACCATAGCCCAAATATGGTCTTACA-TTCAAACATTTCCAT
1 AGTTATGGTCTTATCA-TAAAAATACCATAGCCCAAATATGGTCTTACACGT-AAACATTTCCAT
6276746 GGTCCAACCATGGTCTTA
64 GGTCCAACCATGGTCTTA
6276764 TCTATCAATT
Statistics
Matches: 73, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
102 22 0.30
103 1 0.01
105 18 0.25
106 32 0.44
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.32
Consensus pattern (101 bp):
AGTTATGGTCTTATCATAAAAATACCATAGCCCAAATATGGTCTTACACGTAAACATTTCCATGG
TCCAACCATGGTCTTACGTTCAAGGTGCCATAACCC
Found at i:6277878 original size:53 final size:53
Alignment explanation
Indices: 6277817--6277918 Score: 168
Period size: 53 Copynumber: 1.9 Consensus size: 53
6277807 TTTCTAACAA
* *
6277817 AATTTTAATATTAACTCCATGACACTCCGTATTCATATACTAAGTTGGTCTAG
1 AATTTTAATACTAACTCAATGACACTCCGTATTCATATACTAAGTTGGTCTAG
**
6277870 AATTTTAATACTAACTCAATGACACTTTGTATTCATATACTAAGTTGGT
1 AATTTTAATACTAACTCAATGACACTCCGTATTCATATACTAAGTTGGT
6277919 TTTAAATTTC
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
53 45 1.00
ACGTcount: A:0.33, C:0.17, G:0.11, T:0.39
Consensus pattern (53 bp):
AATTTTAATACTAACTCAATGACACTCCGTATTCATATACTAAGTTGGTCTAG
Found at i:6284899 original size:20 final size:20
Alignment explanation
Indices: 6284874--6284918 Score: 58
Period size: 19 Copynumber: 2.3 Consensus size: 20
6284864 AATATATAAA
*
6284874 TTTGAAATTTCTATAAA-TAT
1 TTTGAAATTT-TAAAAATTAT
6284894 TTTG-AATTTTAAAAATTAT
1 TTTGAAATTTTAAAAATTAT
6284913 TTTGAA
1 TTTGAA
6284919 TTATTTTGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 5 0.23
19 12 0.55
20 5 0.23
ACGTcount: A:0.40, C:0.02, G:0.07, T:0.51
Consensus pattern (20 bp):
TTTGAAATTTTAAAAATTAT
Found at i:6285911 original size:12 final size:12
Alignment explanation
Indices: 6285894--6285918 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6285884 GCCGCTACTG
6285894 ACAACGCCGCTA
1 ACAACGCCGCTA
6285906 ACAACGCCGCTA
1 ACAACGCCGCTA
6285918 A
1 A
6285919 AGGTCATGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.40, G:0.16, T:0.08
Consensus pattern (12 bp):
ACAACGCCGCTA
Found at i:6285969 original size:43 final size:43
Alignment explanation
Indices: 6285908--6286068 Score: 225
Period size: 43 Copynumber: 3.7 Consensus size: 43
6285898 CGCCGCTAAC
* * *
6285908 AACGCCGCTAAAGGTCATGTTCTTTAGCGACGCTTTTTCAACA
1 AACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTTTTCCACA
6285951 AACGCCGCTAAAGATCATGTT-TCTTAGCGGCGCTTTTTCCACA
1 AACGCCGCTAAAGATCATGTTCT-TTAGCGGCGCTTTTTCCACA
* *
6285994 AACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTCTTCCGCA
1 AACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTTTTCCACA
* * *
6286037 AATGCCACTAAAGGTCATGTTCTTTTAGCGGC
1 AACGCCGCTAAAGATCATGTTC-TTTAGCGGC
6286069 ATTTGTGTTG
Statistics
Matches: 107, Mismatches: 8, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
42 1 0.01
43 96 0.90
44 10 0.09
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.30
Consensus pattern (43 bp):
AACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTTTTCCACA
Found at i:6293297 original size:114 final size:112
Alignment explanation
Indices: 6292993--6293373 Score: 503
Period size: 114 Copynumber: 3.3 Consensus size: 112
6292983 AGAAAAATAA
* * * *
6292993 TTTTTTTGCAGCGCTTTCCCAAAAACGCCGCTAAATCCTAAAGCATTAGCGGCGCTGTATTAAAA
1 TTTTTTT-CGGCGCTTTCTCAAAAACGCCGCTAAATCCTTAAGCATTAGCGGCGCT-TCTTAAAA
* *
6293058 ACGCCACTAAATCCCCCGAAAGGTCAGAAAACGGCGTCGTTGGGCTTATG
64 ACGCCACTAAAT-CCCCGAAAGATCAGAAAACGGCGTCGTTGGGCTTAGG
* * * *
6293108 TCTTTTTGCGGCGCTTTAC-CAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAA
1 T-TTTTTTCGGCGCTTT-CTCAAAAACGCCGCTAAATCCTTAAGCATTAGCGGCGC-TTCTTAAA
*
6293172 AACGCCACTAAATCCCTGAAAAGATCAGAAAACGGCGTCGTTGGGCTTAGG
63 AACGCCACTAAATCCCCG-AAAGATCAGAAAACGGCGTCGTTGGGCTTAGG
* *
6293223 TTTTTTTCGGTGCTTTCTCAAAAACGCCGCTAAATCCTTAAGCATTAGCGGCGCTTCCTAAAAAA
1 TTTTTTTCGGCGCTTTCTCAAAAACGCCGCTAAATCCTTAAGCATTAGCGGCGCTT-CTTAAAAA
* * * * *
6293288 CACCGCTAAATCCCCGAATGCTCAGAAAACGGCGTCGTTGGGGTTAGG
65 CGCCACTAAATCCCCGAAAGATCAGAAAACGGCGTCGTTGGGCTTAGG
*
6293336 TTTTTTTGCGGCGCTTTCTCAAAATCGCCGCTAAATCC
1 TTTTTTT-CGGCGCTTTCTCAAAAACGCCGCTAAATCC
6293374 CCGAATGCTC
Statistics
Matches: 235, Mismatches: 24, Indels: 15
0.86 0.09 0.05
Matches are distributed among these distances:
113 39 0.17
114 98 0.42
115 91 0.39
116 7 0.03
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (112 bp):
TTTTTTTCGGCGCTTTCTCAAAAACGCCGCTAAATCCTTAAGCATTAGCGGCGCTTCTTAAAAAC
GCCACTAAATCCCCGAAAGATCAGAAAACGGCGTCGTTGGGCTTAGG
Found at i:6293372 original size:73 final size:72
Alignment explanation
Indices: 6293270--6293442 Score: 265
Period size: 73 Copynumber: 2.4 Consensus size: 72
6293260 TTAAGCATTA
* * * * * *
6293270 GCGGCGCTTCCTAAAAAACACCGCTAAATCCCCGAATGCTCAGAAAACGGCGTCGTTGGGGTTAG
1 GCGGCGCTTTCTCAAAAACGCCGCTAAATCCCCGAATGCTCAGAAAACAGCGTCATTGGGCTTAG
6293335 GTTTTTTT
66 G-TTTTTT
*
6293343 GCGGCGCTTTCTCAAAATCGCCGCTAAATCCCCGAATGCTCAGAAAACAGCGTCATTGGGCTTAG
1 GCGGCGCTTTCTCAAAAACGCCGCTAAATCCCCGAATGCTCAGAAAACAGCGTCATTGGGCTTAG
6293408 GTTTTTT
66 GTTTTTT
*
6293415 GCGGCGCTTTCTCAAAAACGTCGCTAAA
1 GCGGCGCTTTCTCAAAAACGCCGCTAAA
6293443 ACCCTGAGCA
Statistics
Matches: 91, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
72 32 0.35
73 59 0.65
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (72 bp):
GCGGCGCTTTCTCAAAAACGCCGCTAAATCCCCGAATGCTCAGAAAACAGCGTCATTGGGCTTAG
GTTTTTT
Found at i:6293409 original size:186 final size:186
Alignment explanation
Indices: 6293156--6293602 Score: 660
Period size: 186 Copynumber: 2.4 Consensus size: 186
6293146 CTGAGCATTA
* * * * *
6293156 GCGGCGCTTTCTTAAAAACGCCACTAAATCCCTGAAAAGATCAGAAAACGGCGTCGTTGGGCTTA
1 GCGGCGCTTTCTCAAAAACGCCGCTAAATCCCCG-AATGCTCAGAAAACGGCGTCGTTGGGCTTA
* * * **
6293221 GGTTTTTTTCGGTGCTTTCTCAAAAACGCCGCTAAATCCTTAAGCATTAGCGGCGCTTCCTAAAA
65 GGTTTTTTTCGGCGCTTTCTCAAAAACGCCGCTAAAACCCTAAGCATTAGCAACGCTTCCTAAAA
* * *
6293286 AACACCGCTAAATCCCCGAATGCTCAGAAAACGGCGTCGTTGGGGTTAGGTTTTTTT
130 AACACCGCTAAATCCCCGAATGCTCAGAAAACAGCGTCATTGGGCTTAGGTTTTTTT
* * *
6293343 GCGGCGCTTTCTCAAAATCGCCGCTAAATCCCCGAATGCTCAGAAAACAGCGTCATTGGGCTTAG
1 GCGGCGCTTTCTCAAAAACGCCGCTAAATCCCCGAATGCTCAGAAAACGGCGTCGTTGGGCTTAG
* * * *
6293408 GTTTTTTGCGGCGCTTTCTCAAAAACGTCGCTAAAACCCTGAGCATTAGCAACGCTTCCTCAAAA
66 GTTTTTTTCGGCGCTTTCTCAAAAACGCCGCTAAAACCCTAAGCATTAGCAACGCTTCCTAAAAA
* *
6293473 ACGCCGCTAAATCCCCGAATGCTCAGAAAACAGTGTCATTGGGCTTAGGTTTTTTT
131 ACACCGCTAAATCCCCGAATGCTCAGAAAACAGCGTCATTGGGCTTAGGTTTTTTT
* *
6293529 GCGACGCTTTCTCAATAAACGCCGCTAAATCCCCGAATGCTCAGAAAACGGCGTCGTTGAGCTTA
1 GCGGCGCTTTCTCAA-AAACGCCGCTAAATCCCCGAATGCTCAGAAAACGGCGTCGTTGGGCTTA
6293594 GGTTTTTTT
65 GGTTTTTTT
6293603 GTGGCGTTTT
Statistics
Matches: 231, Mismatches: 28, Indels: 2
0.89 0.11 0.01
Matches are distributed among these distances:
186 148 0.64
187 83 0.36
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.27
Consensus pattern (186 bp):
GCGGCGCTTTCTCAAAAACGCCGCTAAATCCCCGAATGCTCAGAAAACGGCGTCGTTGGGCTTAG
GTTTTTTTCGGCGCTTTCTCAAAAACGCCGCTAAAACCCTAAGCATTAGCAACGCTTCCTAAAAA
ACACCGCTAAATCCCCGAATGCTCAGAAAACAGCGTCATTGGGCTTAGGTTTTTTT
Found at i:6293437 original size:113 final size:115
Alignment explanation
Indices: 6293347--6293557 Score: 345
Period size: 113 Copynumber: 1.9 Consensus size: 115
6293337 TTTTTTGCGG
* *
6293347 CGCTTTCTCAAAATCGCCGCTAAATCCCCGAATGCTCAGAAAACAGCGTCATTGGGCTTAGG-TT
1 CGCTTCCTCAAAAACGCCGCTAAATCCCCGAATGCTCAGAAAACAGCGTCATTGGGCTTAGGTTT
* **
6293411 TTTTGCGGCGCTTTCTCAA-AAACGTCGCTAAAACCCTGAGCATTAGCAA
66 TTTTGCGACGCTTTCTCAATAAACGTCGCTAAAACCAGGAGCATTAGCAA
*
6293460 CGCTTCCTCAAAAACGCCGCTAAATCCCCGAATGCTCAGAAAACAGTGTCATTGGGCTTAGGTTT
1 CGCTTCCTCAAAAACGCCGCTAAATCCCCGAATGCTCAGAAAACAGCGTCATTGGGCTTAGGTTT
*
6293525 TTTTGCGACGCTTTCTCAATAAACGCCGCTAAA
66 TTTTGCGACGCTTTCTCAATAAACGTCGCTAAA
6293558 TCCCCGAATG
Statistics
Matches: 91, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
113 59 0.65
114 20 0.22
115 12 0.13
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.26
Consensus pattern (115 bp):
CGCTTCCTCAAAAACGCCGCTAAATCCCCGAATGCTCAGAAAACAGCGTCATTGGGCTTAGGTTT
TTTTGCGACGCTTTCTCAATAAACGTCGCTAAAACCAGGAGCATTAGCAA
Found at i:6293555 original size:74 final size:73
Alignment explanation
Indices: 6293459--6293714 Score: 307
Period size: 85 Copynumber: 3.3 Consensus size: 73
6293449 AGCATTAGCA
* *
6293459 ACGCTTCCTCAAAAACGCCGCTAAATCCCCGAATGCTCAGAAAACAGTGTCATTGGGCTTAGGTT
1 ACGCTTCCTCAAAAACGCCGCTAAATCCCCGAATGCTCAGAAAACAGCGTCGTTGGGCTTAGGTT
6293524 TTTTTGCG
66 TTTTTGCG
* * *
6293532 ACGCTTTCTCAATAAACGCCGCTAAATCCCCGAATGCTCAGAAAACGGCGTCGTTGAGCTTAGGT
1 ACGCTTCCTCAA-AAACGCCGCTAAATCCCCGAATGCTCAGAAAACAGCGTCGTTGGGCTTAGG-
6293597 TTTTTTGTGGCGTTTTTGGCG
64 -----T-T----TTTTT-GCG
* *
6293618 GCGCTTCCTCAAAAATGCCGCTAAATCCCCGAATGCTCAGAAAACAGCGTCGTTGGGCTTAGG-T
1 ACGCTTCCTCAAAAACGCCGCTAAATCCCCGAATGCTCAGAAAACAGCGTCGTTGGGCTTAGGTT
6293682 TTTTTGCG
66 TTTTTGCG
* *
6293690 GCGCTTTCTCAAAAACGCCGCTAAA
1 ACGCTTCCTCAAAAACGCCGCTAAA
6293715 GCCCTGAACA
Statistics
Matches: 158, Mismatches: 12, Indels: 27
0.80 0.06 0.14
Matches are distributed among these distances:
72 26 0.16
73 16 0.10
74 47 0.30
77 1 0.01
80 1 0.01
81 1 0.01
85 53 0.34
86 13 0.08
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (73 bp):
ACGCTTCCTCAAAAACGCCGCTAAATCCCCGAATGCTCAGAAAACAGCGTCGTTGGGCTTAGGTT
TTTTTGCG
Found at i:6293818 original size:113 final size:113
Alignment explanation
Indices: 6293615--6293826 Score: 370
Period size: 113 Copynumber: 1.9 Consensus size: 113
6293605 GGCGTTTTTG
* *
6293615 GCGGCGCTTCCTCAAAAATGCCGCTAAATCCCCGAATGCTCAGAAAACAGCGTCGTTGGGCTTAG
1 GCGGCGCTTCCTCAAAAACGCCGCTAAATCCCCGAATGCTCAGAAAACAGCATCGTTGGGCTTAG
6293680 GTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAACATTA
66 GTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAACATTA
* *
6293728 GCGGCGCTTCCTCAAAAACGCCGCTAAATCCCTGAATGCTCAGAAAACGGCATCGTTGGGCTTAG
1 GCGGCGCTTCCTCAAAAACGCCGCTAAATCCCCGAATGCTCAGAAAACAGCATCGTTGGGCTTAG
**
6293793 GTTTTTTGCGGCGCTTTCTGGAAAACGCCGCTAA
66 GTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAA
6293827 TGCTTATTTT
Statistics
Matches: 93, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
113 93 1.00
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.24
Consensus pattern (113 bp):
GCGGCGCTTCCTCAAAAACGCCGCTAAATCCCCGAATGCTCAGAAAACAGCATCGTTGGGCTTAG
GTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAACATTA
Found at i:6302015 original size:27 final size:28
Alignment explanation
Indices: 6301975--6302057 Score: 78
Period size: 27 Copynumber: 2.9 Consensus size: 28
6301965 CATTTTATTT
*
6301975 AAAAATTAAAATACTTTAGAAATTTA-G
1 AAAAATTATAATACTTTAGAAATTTATG
* * *
6302002 AAAAATTATTATACATTATTAATATGTTATG
1 AAAAATTATAATACTTTA-GAA-AT-TTATG
*
6302033 AAAATATTATAATATTTTAGAAATT
1 AAAA-ATTATAATACTTTAGAAATT
6302058 ATATAGAATA
Statistics
Matches: 43, Mismatches: 8, Indels: 8
0.73 0.14 0.14
Matches are distributed among these distances:
27 15 0.35
28 2 0.05
29 3 0.07
30 5 0.12
31 7 0.16
32 11 0.26
ACGTcount: A:0.51, C:0.02, G:0.06, T:0.41
Consensus pattern (28 bp):
AAAAATTATAATACTTTAGAAATTTATG
Found at i:6302045 original size:21 final size:21
Alignment explanation
Indices: 6302016--6302055 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
6302006 ATTATTATAC
6302016 ATTATTAATATGTTATGAAAAT
1 ATTATTAATATGTTA-GAAAAT
*
6302038 ATTA-TAATATTTTAGAAA
1 ATTATTAATATGTTAGAAA
6302056 TTATATAGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 9 0.53
22 4 0.24
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.45
Consensus pattern (21 bp):
ATTATTAATATGTTAGAAAAT
Found at i:6302062 original size:19 final size:20
Alignment explanation
Indices: 6302016--6302062 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
6302006 ATTATTATAC
6302016 ATTAT-TAATATGTTATGAA
1 ATTATATAATATGTTATGAA
* *
6302035 AATATTATAATATTTTA-GAA
1 ATTA-TATAATATGTTATGAA
6302055 ATTATATA
1 ATTATATA
6302063 GAATACTATA
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
19 7 0.30
20 7 0.30
21 9 0.39
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (20 bp):
ATTATATAATATGTTATGAA
Found at i:6302137 original size:10 final size:10
Alignment explanation
Indices: 6302053--6302173 Score: 53
Period size: 10 Copynumber: 12.4 Consensus size: 10
6302043 AATATTTTAG
6302053 AAATTATATA
1 AAATTATATA
*
6302063 GAA-TACTATA
1 AAATTA-TATA
*
6302073 AAACTATATA
1 AAATTATATA
*
6302083 AATATT-T-TT
1 AA-ATTATATA
6302092 AAA-TATATA
1 AAATTATATA
6302101 AAA-TACTATA
1 AAATTA-TATA
* *
6302111 AAAGGTCATAGA
1 AAA--TTATATA
6302123 AAATTATATA
1 AAATTATATA
6302133 AAATT-TATTA
1 AAATTATA-TA
*
6302143 AAATGATA-A
1 AAATTATATA
* *
6302152 AAA-TAAAAA
1 AAATTATATA
6302161 AAATTATA-A
1 AAATTATATA
6302170 AAAT
1 AAAT
6302174 CATAAACATT
Statistics
Matches: 85, Mismatches: 13, Indels: 27
0.68 0.10 0.22
Matches are distributed among these distances:
7 1 0.01
8 4 0.05
9 26 0.31
10 41 0.48
11 6 0.07
12 6 0.07
13 1 0.01
ACGTcount: A:0.60, C:0.03, G:0.04, T:0.33
Consensus pattern (10 bp):
AAATTATATA
Found at i:6302171 original size:9 final size:9
Alignment explanation
Indices: 6302122--6302179 Score: 53
Period size: 9 Copynumber: 6.2 Consensus size: 9
6302112 AAGGTCATAG
6302122 AAAATTATA
1 AAAATTATA
*
6302131 TAAAATTTATT
1 -AAAA-TTATA
*
6302142 AAAATGATA
1 AAAATTATA
* *
6302151 AAAATAAAA
1 AAAATTATA
6302160 AAAATTATA
1 AAAATTATA
*
6302169 AAAATCATA
1 AAAATTATA
6302178 AA
1 AA
6302180 CATTTTTTTT
Statistics
Matches: 39, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
9 27 0.69
10 8 0.21
11 4 0.10
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (9 bp):
AAAATTATA
Found at i:6302876 original size:16 final size:16
Alignment explanation
Indices: 6302844--6302877 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
6302834 ACAATTTAAT
* *
6302844 ATATTTTTTCATTTTA
1 ATATTTTTTAATATTA
6302860 ATATTTTTTAATATTA
1 ATATTTTTTAATATTA
6302876 AT
1 AT
6302878 TAGTTTCAAA
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:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (16 bp):
ATATTTTTTAATATTA
Found at i:6304598 original size:14 final size:15
Alignment explanation
Indices: 6304569--6304602 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
6304559 TTGGAACCCT
*
6304569 ATTTAGATAGATTAG
1 ATTTAGAGAGATTAG
6304584 ATTTAGAGA-ATTAG
1 ATTTAGAGAGATTAG
6304598 ATTTA
1 ATTTA
6304603 CATTAAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.41, C:0.00, G:0.18, T:0.41
Consensus pattern (15 bp):
ATTTAGAGAGATTAG
Found at i:6310915 original size:26 final size:26
Alignment explanation
Indices: 6310866--6310918 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
6310856 TGAAATATTA
* *
6310866 TCAAATCGAGTCGAGTAAAATGAAAT
1 TCAAATCGAATCGAATAAAATGAAAT
* *
6310892 TCAAATCGAATCGAATTAAGTGAAAT
1 TCAAATCGAATCGAATAAAATGAAAT
6310918 T
1 T
6310919 GTTCTAGTTA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.45, C:0.11, G:0.17, T:0.26
Consensus pattern (26 bp):
TCAAATCGAATCGAATAAAATGAAAT
Done.