Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D10
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: 67973905
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 149 of 228
Found at i:44767007 original size:27 final size:28
Alignment explanation
Indices: 44766947--44767007 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
44766937 TAATATTGAA
*
44766947 TAGTAAATTTTAATTAAAAATTCAAAGT
1 TAGTAAAATTTAATTAAAAATTCAAAGT
* *
44766975 TGGTAAAATTTAA-T-AAAATTCAAAATT
1 TAGTAAAATTTAATTAAAAATTC-AAAGT
44767002 TAGTAA
1 TAGTAA
44767008 TAAAAATCAC
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
26 7 0.25
27 10 0.36
28 11 0.39
ACGTcount: A:0.51, C:0.03, G:0.08, T:0.38
Consensus pattern (28 bp):
TAGTAAAATTTAATTAAAAATTCAAAGT
Found at i:44769334 original size:16 final size:18
Alignment explanation
Indices: 44769308--44769340 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
44769298 TAAATGTAAA
44769308 TAAATTAA-TTTCTCAAT
1 TAAATTAATTTTCTCAAT
44769325 TAAA-TAATTTTCTCAA
1 TAAATTAATTTTCTCAA
44769341 CACAATTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.45
Consensus pattern (18 bp):
TAAATTAATTTTCTCAAT
Found at i:44783048 original size:24 final size:24
Alignment explanation
Indices: 44783021--44783103 Score: 100
Period size: 24 Copynumber: 3.6 Consensus size: 24
44783011 CAAGGGGCTA
*
44783021 TTACATCAATTAAAGGAGAGCATT
1 TTACATCATTTAAAGGAGAGCATT
*
44783045 TTACATCATTTAAA-G-GAGC-TG
1 TTACATCATTTAAAGGAGAGCATT
*
44783066 TTACGTCATTTAAAGGAGAGCATT
1 TTACATCATTTAAAGGAGAGCATT
* *
44783090 ATACATCCTTTAAA
1 TTACATCATTTAAA
44783104 ATTCGACAAC
Statistics
Matches: 49, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
21 14 0.29
22 5 0.10
23 5 0.10
24 25 0.51
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.33
Consensus pattern (24 bp):
TTACATCATTTAAAGGAGAGCATT
Found at i:44783080 original size:45 final size:45
Alignment explanation
Indices: 44783012--44783103 Score: 130
Period size: 45 Copynumber: 2.0 Consensus size: 45
44783002 GGTTACATAC
* *
44783012 AAGGGGCTATTACATCAATTAAAGGAGAGCATTTTACATCATTTA
1 AAGGAGCTATTACATCAATTAAAGGAGAGCATTATACATCATTTA
* * * *
44783057 AAGGAGCTGTTACGTCATTTAAAGGAGAGCATTATACATCCTTTA
1 AAGGAGCTATTACATCAATTAAAGGAGAGCATTATACATCATTTA
44783102 AA
1 AA
44783104 ATTCGACAAC
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.30
Consensus pattern (45 bp):
AAGGAGCTATTACATCAATTAAAGGAGAGCATTATACATCATTTA
Found at i:44783584 original size:23 final size:23
Alignment explanation
Indices: 44783540--44783584 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
44783530 TTGAACTTAT
* *
44783540 TACCTTTGGTGTGGTATTCATTA
1 TACCTTTGGTGTGCTATACATTA
44783563 TACCTTTGGT-TGCTATCACATT
1 TACCTTTGGTGTGCTAT-ACATT
44783585 TGATAGCGGG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.18, C:0.18, G:0.18, T:0.47
Consensus pattern (23 bp):
TACCTTTGGTGTGCTATACATTA
Found at i:44796790 original size:23 final size:24
Alignment explanation
Indices: 44796763--44796807 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
44796753 CCTTAGCTTG
44796763 ACACATTAAAACATT-ATTTAAGA
1 ACACATTAAAACATTGATTTAAGA
* *
44796786 ACACATTTAAACTTTGATTTAA
1 ACACATTAAAACATTGATTTAA
44796808 TTTGTTCAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.47, C:0.13, G:0.04, T:0.36
Consensus pattern (24 bp):
ACACATTAAAACATTGATTTAAGA
Found at i:44801455 original size:31 final size:31
Alignment explanation
Indices: 44801420--44801493 Score: 96
Period size: 31 Copynumber: 2.4 Consensus size: 31
44801410 TCATGCATGC
* * * *
44801420 ACCTTGCTAAATGAATCTCCACATTCGGCTA
1 ACCTTACTAAATGAACCCCCACATTCGGCCA
44801451 ACCTTACTAAATGAACCCCCACATTCGGCCA
1 ACCTTACTAAATGAACCCCCACATTCGGCCA
44801482 ACC-TACATAAAT
1 ACCTTAC-TAAAT
44801494 AGGATGAACT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
30 3 0.08
31 35 0.92
ACGTcount: A:0.34, C:0.32, G:0.09, T:0.24
Consensus pattern (31 bp):
ACCTTACTAAATGAACCCCCACATTCGGCCA
Found at i:44803521 original size:20 final size:20
Alignment explanation
Indices: 44803498--44803551 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
44803488 TAGTTTTTCC
*
44803498 AGCTCGATTTAGCTCATATG
1 AGCTCAATTTAGCTCATATG
* * *
44803518 AGCTTAATTTAGCTCGTTTG
1 AGCTCAATTTAGCTCATATG
44803538 AGCTCAATTTAGCT
1 AGCTCAATTTAGCT
44803552 TACTTTAGCT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.24, C:0.19, G:0.19, T:0.39
Consensus pattern (20 bp):
AGCTCAATTTAGCTCATATG
Found at i:44803532 original size:30 final size:30
Alignment explanation
Indices: 44803498--44803571 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 30
44803488 TAGTTTTTCC
44803498 AGCTCGATTT-AGCTCATA-TGAGCTTAATTT
1 AGCTCG-TTTGAGCTCA-ATTGAGCTTAATTT
* *
44803528 AGCTCGTTTGAGCTCAATTTAGCTTACTTT
1 AGCTCGTTTGAGCTCAATTGAGCTTAATTT
44803558 AGCTCGTTTGAGCT
1 AGCTCGTTTGAGCT
44803572 TGGCTTAAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
29 4 0.10
30 36 0.90
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.41
Consensus pattern (30 bp):
AGCTCGTTTGAGCTCAATTGAGCTTAATTT
Found at i:44813659 original size:13 final size:13
Alignment explanation
Indices: 44813627--44813659 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
44813617 AAAAATAATC
*
44813627 AAAAAAAATTCGA
1 AAAAAAAATTCAA
44813640 AAAAAAAATTCAA
1 AAAAAAAATTCAA
44813653 AAAAAAA
1 AAAAAAA
44813660 GTTTGTATTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.79, C:0.06, G:0.03, T:0.12
Consensus pattern (13 bp):
AAAAAAAATTCAA
Found at i:44815818 original size:7 final size:7
Alignment explanation
Indices: 44815806--44815835 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
44815796 ATTCAAATGA
44815806 TCAAAAG
1 TCAAAAG
*
44815813 TCAAAAA
1 TCAAAAG
44815820 TCAAAAG
1 TCAAAAG
44815827 TCAAAAG
1 TCAAAAG
44815834 TC
1 TC
44815836 CTTTACAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.57, C:0.17, G:0.10, T:0.17
Consensus pattern (7 bp):
TCAAAAG
Found at i:44816882 original size:30 final size:30
Alignment explanation
Indices: 44816848--44816944 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
44816838 TAAACTAAAA
*
44816848 TGAGCTAAGTTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
* * * * * * *
44816878 TGAGCTGAGGCTAAACTCCTAAGCTGAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
44816908 TGAGCTAAGGTTTAGCTCGTGAGCTAAA-T
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
44816937 ATGAGCTA
1 -TGAGCTA
44816945 GGAGTGAGCT
Statistics
Matches: 51, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
29 1 0.02
30 50 0.98
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
Found at i:44817570 original size:15 final size:14
Alignment explanation
Indices: 44817534--44817588 Score: 65
Period size: 15 Copynumber: 3.8 Consensus size: 14
44817524 TCTATTGAGC
44817534 GAGAAAAAGAAAAA
1 GAGAAAAAGAAAAA
*
44817548 GAGAAAAACAAAAA
1 GAGAAAAAGAAAAA
*
44817562 GAGTGAAAAGAAAAA
1 GAG-AAAAAGAAAAA
*
44817577 GAAAGAAAAGAA
1 GAGA-AAAAGAA
44817589 TGAGGAGAGT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
14 16 0.47
15 18 0.53
ACGTcount: A:0.75, C:0.02, G:0.22, T:0.02
Consensus pattern (14 bp):
GAGAAAAAGAAAAA
Found at i:44824117 original size:24 final size:23
Alignment explanation
Indices: 44824090--44824158 Score: 66
Period size: 26 Copynumber: 2.8 Consensus size: 23
44824080 ATTGGAGTAA
44824090 CAAAAAAAATAAAAAAAAAGAGTT
1 CAAAAAAAATAAAAAAAAA-AGTT
**
44824114 CAAAAAAAAAATTAAAAAAAAATTTT
1 C--AAAAAAAA-TAAAAAAAAAAGTT
* *
44824140 GAAAAAAAAGAAAAAAAAA
1 CAAAAAAAATAAAAAAAAA
44824159 TTGCATACGG
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
23 9 0.24
24 9 0.24
26 10 0.26
27 10 0.26
ACGTcount: A:0.78, C:0.03, G:0.06, T:0.13
Consensus pattern (23 bp):
CAAAAAAAATAAAAAAAAAAGTT
Found at i:44825244 original size:18 final size:18
Alignment explanation
Indices: 44825206--44825247 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
44825196 AAATCGAAAG
* **
44825206 AAAAGAAAAAGAGATTGA
1 AAAAGAAAAAGAAATCCA
44825224 AAAAGAAAAAGAAATCCA
1 AAAAGAAAAAGAAATCCA
44825242 AAAAGA
1 AAAAGA
44825248 GAGTGAGGTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.71, C:0.05, G:0.17, T:0.07
Consensus pattern (18 bp):
AAAAGAAAAAGAAATCCA
Found at i:44831175 original size:13 final size:13
Alignment explanation
Indices: 44831159--44831208 Score: 55
Period size: 13 Copynumber: 3.6 Consensus size: 13
44831149 AAAAAAAATC
44831159 AAAAAAAAATTTG
1 AAAAAAAAATTTG
44831172 AAAAAAAAATTTG
1 AAAAAAAAATTTG
* *
44831185 ATTGAAAAAAAAATTC
1 A---AAAAAAAATTTG
44831201 AAAAAAAA
1 AAAAAAAA
44831209 GTGAAAAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
13 21 0.66
16 11 0.34
ACGTcount: A:0.72, C:0.02, G:0.06, T:0.20
Consensus pattern (13 bp):
AAAAAAAAATTTG
Found at i:44832246 original size:18 final size:18
Alignment explanation
Indices: 44832208--44832249 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
44832198 AAATCGAAAG
* **
44832208 AAAAGAAAAAGAGATTGA
1 AAAAGAAAAAGAAATCCA
44832226 AAAAGAAAAAGAAATCCA
1 AAAAGAAAAAGAAATCCA
44832244 AAAAGA
1 AAAAGA
44832250 GAGTGAGGTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.71, C:0.05, G:0.17, T:0.07
Consensus pattern (18 bp):
AAAAGAAAAAGAAATCCA
Found at i:44835782 original size:15 final size:14
Alignment explanation
Indices: 44835762--44835808 Score: 60
Period size: 15 Copynumber: 3.3 Consensus size: 14
44835752 CTCATTTTCA
44835762 TCTTTTTCTTTTATT
1 TCTTTTTCTTTT-TT
*
44835777 TC-TTTTCTTTTTC
1 TCTTTTTCTTTTTT
44835790 TCTTATTTCTTTTTT
1 TCTT-TTTCTTTTTT
44835805 TCTT
1 TCTT
44835809 CTCTCAATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 3 0.11
14 10 0.36
15 15 0.54
ACGTcount: A:0.04, C:0.17, G:0.00, T:0.79
Consensus pattern (14 bp):
TCTTTTTCTTTTTT
Found at i:44835787 original size:20 final size:20
Alignment explanation
Indices: 44835762--44835812 Score: 77
Period size: 20 Copynumber: 2.5 Consensus size: 20
44835752 CTCATTTTCA
*
44835762 TCTTTTTCTTTTATTTCTTT
1 TCTTTTTCTCTTATTTCTTT
44835782 TCTTTTTCTCTTATTTCTTT
1 TCTTTTTCTCTTATTTCTTT
44835802 T-TTTCTTCTCT
1 TCTTT-TTCTCT
44835813 CAATTTCATT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 3 0.10
20 26 0.90
ACGTcount: A:0.04, C:0.20, G:0.00, T:0.76
Consensus pattern (20 bp):
TCTTTTTCTCTTATTTCTTT
Found at i:44836783 original size:10 final size:10
Alignment explanation
Indices: 44836770--44836802 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
44836760 CGTTTTTTCT
44836770 TTTTTTTCG-A
1 TTTTTTT-GAA
44836780 TTTTTTTGAA
1 TTTTTTTGAA
44836790 TTTTTTTGAA
1 TTTTTTTGAA
44836800 TTT
1 TTT
44836803 CTTCTCTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 1 0.05
10 21 0.95
ACGTcount: A:0.15, C:0.03, G:0.09, T:0.73
Consensus pattern (10 bp):
TTTTTTTGAA
Found at i:44836894 original size:11 final size:12
Alignment explanation
Indices: 44836878--44836907 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
44836868 CCAACTCAAA
44836878 TTTTTTTGA-TT
1 TTTTTTTGACTT
44836889 TTTTTTTGACTT
1 TTTTTTTGACTT
44836901 TTTTTTT
1 TTTTTTT
44836908 CGTTACGAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 9 0.50
12 9 0.50
ACGTcount: A:0.07, C:0.03, G:0.07, T:0.83
Consensus pattern (12 bp):
TTTTTTTGACTT
Found at i:44841080 original size:20 final size:21
Alignment explanation
Indices: 44841045--44841083 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
44841035 CAGCTCGTTG
44841045 AGCTCAATTCAGCTCATTTCC
1 AGCTCAATTCAGCTCATTTCC
*
44841066 AGCTC-ATTGAGCTCATTT
1 AGCTCAATTCAGCTCATTT
44841084 GCTTGTTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.23, C:0.28, G:0.13, T:0.36
Consensus pattern (21 bp):
AGCTCAATTCAGCTCATTTCC
Found at i:44841491 original size:13 final size:13
Alignment explanation
Indices: 44841473--44841498 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
44841463 TGTGTCCTAA
44841473 TATGAATTAAATT
1 TATGAATTAAATT
44841486 TATGAATTAAATT
1 TATGAATTAAATT
44841499 GCTTTCAGGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (13 bp):
TATGAATTAAATT
Found at i:44844653 original size:46 final size:46
Alignment explanation
Indices: 44844601--44844694 Score: 154
Period size: 46 Copynumber: 2.0 Consensus size: 46
44844591 GTAGTGTGGC
*
44844601 GTTCATCATAAACCAAGGTTCTTATCA-TCATTGATAGTGGGTCGAG
1 GTTCATCATAAACCAAGGTTCCTATCATTC-TTGATAGTGGGTCGAG
*
44844647 GTTCATCATATACCAAGGTTCCTATCATTCTTGATAGTGGGTCGAG
1 GTTCATCATAAACCAAGGTTCCTATCATTCTTGATAGTGGGTCGAG
44844693 GT
1 GT
44844695 CTTTTCTTTG
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
46 43 0.96
47 2 0.04
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.34
Consensus pattern (46 bp):
GTTCATCATAAACCAAGGTTCCTATCATTCTTGATAGTGGGTCGAG
Found at i:44845052 original size:14 final size:13
Alignment explanation
Indices: 44845011--44845056 Score: 51
Period size: 14 Copynumber: 3.5 Consensus size: 13
44845001 GTAGTTTCTC
*
44845011 AAAAAAACTCAAA
1 AAAAAAATTCAAA
44845024 AAAAAAATTTC--A
1 AAAAAAA-TTCAAA
44845036 AAAAAAATTCGAAA
1 AAAAAAATTC-AAA
44845050 AAAAAAA
1 AAAAAAA
44845057 CTAGTTTCCA
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
11 3 0.11
12 8 0.29
13 7 0.25
14 10 0.36
ACGTcount: A:0.76, C:0.09, G:0.02, T:0.13
Consensus pattern (13 bp):
AAAAAAATTCAAA
Found at i:44849535 original size:18 final size:18
Alignment explanation
Indices: 44849514--44849548 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
44849504 TTTTTCTTTT
44849514 TCAATTT-TTTTCTCAATC
1 TCAATTTCTTTT-TCAATC
44849532 TCAATTTCTTTTTCAAT
1 TCAATTTCTTTTTCAAT
44849549 TTTCTTTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.23, C:0.20, G:0.00, T:0.57
Consensus pattern (18 bp):
TCAATTTCTTTTTCAATC
Found at i:44849818 original size:13 final size:13
Alignment explanation
Indices: 44849800--44849898 Score: 55
Period size: 13 Copynumber: 7.5 Consensus size: 13
44849790 TTGGAGTAAC
44849800 AAAAAAAATCAAA
1 AAAAAAAATCAAA
*
44849813 AAAAAAATTCGAAA
1 AAAAAAAATC-AAA
44849827 AAAAAAATTGATTCAGAA
1 AAAAAAA---A-TCA-AA
*
44849845 AAAAAAATTC---
1 AAAAAAAATCAAA
*
44849855 AAAAAAAATCGAA
1 AAAAAAAATCAAA
*
44849868 AAAAAAAGT-AAA
1 AAAAAAAATCAAA
*
44849880 AGAAAAGAA-CAAA
1 A-AAAAAAATCAAA
44849893 AAAAAA
1 AAAAAA
44849899 GTGAAAAGTA
Statistics
Matches: 66, Mismatches: 9, Indels: 23
0.67 0.09 0.23
Matches are distributed among these distances:
10 9 0.14
12 7 0.11
13 26 0.39
14 12 0.18
17 1 0.02
18 11 0.17
ACGTcount: A:0.76, C:0.06, G:0.07, T:0.11
Consensus pattern (13 bp):
AAAAAAAATCAAA
Found at i:44849819 original size:14 final size:14
Alignment explanation
Indices: 44849800--44849862 Score: 67
Period size: 14 Copynumber: 4.4 Consensus size: 14
44849790 TTGGAGTAAC
44849800 AAAAAAAA-TC-AA
1 AAAAAAAATTCAAA
44849812 AAAAAAAATTCGAAA
1 AAAAAAAATTC-AAA
*
44849827 AAAAAAATTGATTCAGA
1 AAAAAAA---ATTCAAA
44849844 AAAAAAAATTCAAA
1 AAAAAAAATTCAAA
44849858 AAAAA
1 AAAAA
44849863 TCGAAAAAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 10
0.78 0.04 0.18
Matches are distributed among these distances:
12 8 0.19
13 2 0.05
14 11 0.26
15 9 0.21
17 9 0.21
18 4 0.09
ACGTcount: A:0.75, C:0.06, G:0.05, T:0.14
Consensus pattern (14 bp):
AAAAAAAATTCAAA
Found at i:44849885 original size:24 final size:25
Alignment explanation
Indices: 44849842--44849906 Score: 73
Period size: 24 Copynumber: 2.7 Consensus size: 25
44849832 AATTGATTCA
* * *
44849842 GAAAAAAAAATTCAAA-AAAA-ATC
1 GAAAAAAAAAGTAAAAGAAAAGAAC
44849865 GAAAAAAAAAGTAAAAGAAAAGAAC
1 GAAAAAAAAAGTAAAAGAAAAGAAC
44849890 -AAAAAAAAAGTGAAAAG
1 GAAAAAAAAAGT-AAAAG
44849907 TATTGTGAGT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
23 14 0.39
24 15 0.42
25 7 0.19
ACGTcount: A:0.75, C:0.05, G:0.12, T:0.08
Consensus pattern (25 bp):
GAAAAAAAAAGTAAAAGAAAAGAAC
Found at i:44850790 original size:12 final size:13
Alignment explanation
Indices: 44850754--44850795 Score: 50
Period size: 12 Copynumber: 3.2 Consensus size: 13
44850744 AATAGTGAGT
*
44850754 GAAAAGAAAATGAA
1 GAAAAGAAATTG-A
44850768 GAAAAGAAAATTGA
1 GAAAAG-AAATTGA
44850782 -AAAAGAAATTGA
1 GAAAAGAAATTGA
44850794 GA
1 GA
44850796 TTGAGAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
12 7 0.28
13 6 0.24
14 7 0.28
15 5 0.20
ACGTcount: A:0.67, C:0.00, G:0.21, T:0.12
Consensus pattern (13 bp):
GAAAAGAAATTGA
Found at i:44850798 original size:18 final size:18
Alignment explanation
Indices: 44850777--44850811 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
44850767 AGAAAAGAAA
44850777 ATTGA-AAAAGAAATTGAG
1 ATTGAGAAAA-AAATTGAG
44850795 ATTGAGAAAAAAATTGA
1 ATTGAGAAAAAAATTGA
44850812 AAAAGAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.57, C:0.00, G:0.20, T:0.23
Consensus pattern (18 bp):
ATTGAGAAAAAAATTGAG
Found at i:44855057 original size:46 final size:46
Alignment explanation
Indices: 44855005--44855098 Score: 154
Period size: 46 Copynumber: 2.0 Consensus size: 46
44854995 ATAGTGTGGC
*
44855005 GTTCATCATATACCAAGGTTCTTATCA-TCATTGATAGTGGGTCGAG
1 GTTCATCATATACCAAGGTTCCTATCATTC-TTGATAGTGGGTCGAG
*
44855051 GTTCATCGTATACCAAGGTTCCTATCATTCTTGATAGTGGGTCGAG
1 GTTCATCATATACCAAGGTTCCTATCATTCTTGATAGTGGGTCGAG
44855097 GT
1 GT
44855099 CTTTTCTTTG
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
46 43 0.96
47 2 0.04
ACGTcount: A:0.23, C:0.18, G:0.23, T:0.35
Consensus pattern (46 bp):
GTTCATCATATACCAAGGTTCCTATCATTCTTGATAGTGGGTCGAG
Found at i:44868075 original size:36 final size:36
Alignment explanation
Indices: 44868016--44868092 Score: 95
Period size: 36 Copynumber: 2.2 Consensus size: 36
44868006 AAATAGCATG
*
44868016 TGAAAAAGAAAACGAAAAAGAGTGCGAGCA-AGAAAA
1 TGAAAAAGAAAAAGAAAAAGAGTGCGAG-ATAGAAAA
* * *
44868052 TGAAAAAGAAAAAGAAGATGAGTGTGAGATAGAAAA
1 TGAAAAAGAAAAAGAAAAAGAGTGCGAGATAGAAAA
44868088 -GAAAA
1 TGAAAA
44868093 TTGAAAATGA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
35 6 0.17
36 30 0.83
ACGTcount: A:0.61, C:0.04, G:0.26, T:0.09
Consensus pattern (36 bp):
TGAAAAAGAAAAAGAAAAAGAGTGCGAGATAGAAAA
Found at i:44870140 original size:20 final size:20
Alignment explanation
Indices: 44870094--44870140 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
44870084 AGCTCGTTTC
*
44870094 CAGCTCACTCGAGCTCAAGT
1 CAGCTCACTCAAGCTCAAGT
* *
44870114 CAACTCACTCAAGCTCAATT
1 CAGCTCACTCAAGCTCAAGT
44870134 CAGCTCA
1 CAGCTCA
44870141 ATCTTAACCC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.30, C:0.36, G:0.13, T:0.21
Consensus pattern (20 bp):
CAGCTCACTCAAGCTCAAGT
Found at i:44875302 original size:37 final size:37
Alignment explanation
Indices: 44875252--44875330 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
44875242 TTATTATGAA
* * *
44875252 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
44875289 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
44875326 GTCTT
1 GTCTT
44875331 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:44875525 original size:49 final size:48
Alignment explanation
Indices: 44875448--44875605 Score: 264
Period size: 49 Copynumber: 3.2 Consensus size: 48
44875438 GCCCTTCGGG
44875448 ACTTATCACATTCATCACATCGGCCATTAGGCCCTATCACATATATACAC
1 ACTT-TCACATTCATCACATCGGCCATTAGGCCCTATCACATATATA-AC
44875498 ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATA-AC
* *
44875547 ACTTTCACATTCATCACATCGGCCATTAGGTCTTATCACATATAT-AC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATAAC
44875594 ACTTTCACATTC
1 ACTTTCACATTC
44875606 TCAAAGTAAG
Statistics
Matches: 105, Mismatches: 3, Indels: 3
0.95 0.03 0.03
Matches are distributed among these distances:
47 14 0.13
49 87 0.83
50 4 0.04
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (48 bp):
ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATAAC
Found at i:44880392 original size:21 final size:20
Alignment explanation
Indices: 44880329--44880392 Score: 60
Period size: 21 Copynumber: 3.2 Consensus size: 20
44880319 ACGAAAGCTC
*
44880329 TAAACGAACAGATCTAAAAAT
1 TAAACTAACAGATCT-AAAAT
* * *
44880350 TAAAATAA-AGAAC-AAGAT
1 TAAACTAACAGATCTAAAAT
44880368 TAAACTAATCAGATCTAAAAT
1 TAAACTAA-CAGATCTAAAAT
44880389 TAAA
1 TAAA
44880393 TCCCCAAATT
Statistics
Matches: 33, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
18 11 0.33
20 8 0.24
21 14 0.42
ACGTcount: A:0.59, C:0.11, G:0.08, T:0.22
Consensus pattern (20 bp):
TAAACTAACAGATCTAAAAT
Found at i:44890464 original size:23 final size:22
Alignment explanation
Indices: 44890412--44890464 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
44890402 TCCACGTCTT
*
44890412 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
44890434 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
44890457 TTTCTTTT
1 TTTCTTTT
44890465 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:44896666 original size:25 final size:23
Alignment explanation
Indices: 44896628--44896673 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 23
44896618 GTTTGACACA
44896628 AACAGCAAAGAAATTAAAAGAAACG
1 AACAGCAAAGAAA-T-AAAGAAACG
44896653 AACAGCAATA-AAATAAAGAAA
1 AACAGCAA-AGAAATAAAGAAA
44896674 AGTCCTAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 7 0.35
24 1 0.05
25 11 0.55
26 1 0.05
ACGTcount: A:0.67, C:0.11, G:0.13, T:0.09
Consensus pattern (23 bp):
AACAGCAAAGAAATAAAGAAACG
Found at i:44897093 original size:21 final size:21
Alignment explanation
Indices: 44897065--44897132 Score: 70
Period size: 21 Copynumber: 3.2 Consensus size: 21
44897055 TCCTAAAGTC
44897065 TAAA-AATTAAACTAGATATT
1 TAAACAATTAAACTAGATATT
44897085 TAAACAATTAAACTAG-T-TT
1 TAAACAATTAAACTAGATATT
* *
44897104 AAAATCTCATTTAAACTAGATATT
1 TAAA---CAATTAAACTAGATATT
44897128 TAAAC
1 TAAAC
44897133 TAGATATTTA
Statistics
Matches: 39, Mismatches: 3, Indels: 11
0.74 0.06 0.21
Matches are distributed among these distances:
19 5 0.13
20 5 0.13
21 12 0.31
22 11 0.28
23 1 0.03
24 5 0.13
ACGTcount: A:0.50, C:0.10, G:0.04, T:0.35
Consensus pattern (21 bp):
TAAACAATTAAACTAGATATT
Found at i:44897130 original size:13 final size:13
Alignment explanation
Indices: 44897112--44897145 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
44897102 TTAAAATCTC
44897112 ATTTAAACTAGAT
1 ATTTAAACTAGAT
44897125 ATTTAAACTAGAT
1 ATTTAAACTAGAT
44897138 ATTTAAAC
1 ATTTAAAC
44897146 AATTAAAGTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.47, C:0.09, G:0.06, T:0.38
Consensus pattern (13 bp):
ATTTAAACTAGAT
Found at i:44898384 original size:22 final size:21
Alignment explanation
Indices: 44898345--44898405 Score: 63
Period size: 21 Copynumber: 2.9 Consensus size: 21
44898335 TCCTTTTTGC
44898345 CTTTTTCATTTTCATTTTCTT
1 CTTTTTCATTTTCATTTTCTT
44898366 CTTTTTCACTTTT-ATTTT-TCT
1 CTTTTTCA-TTTTCATTTTCT-T
* * *
44898387 CTTCTTCTTTTTCTTTTTC
1 CTTTTTCATTTTCATTTTC
44898406 CTCACTTGTT
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
20 5 0.15
21 24 0.73
22 4 0.12
ACGTcount: A:0.07, C:0.21, G:0.00, T:0.72
Consensus pattern (21 bp):
CTTTTTCATTTTCATTTTCTT
Found at i:44900400 original size:20 final size:20
Alignment explanation
Indices: 44900354--44900400 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
44900344 AGCTCGTTTC
*
44900354 CAGCTCACTCGAGCTCAAGT
1 CAGCTCACTCAAGCTCAAGT
* *
44900374 CAACTCACTCAAGCTCAATT
1 CAGCTCACTCAAGCTCAAGT
44900394 CAGCTCA
1 CAGCTCA
44900401 ATCTTAACCC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.30, C:0.36, G:0.13, T:0.21
Consensus pattern (20 bp):
CAGCTCACTCAAGCTCAAGT
Found at i:44903035 original size:18 final size:17
Alignment explanation
Indices: 44902952--44903080 Score: 61
Period size: 18 Copynumber: 7.4 Consensus size: 17
44902942 GGAACAAGAA
*
44902952 ATTGAAAAAGAGAGTGAG
1 ATTGAAAAAGA-AATGAG
*
44902970 ATTGAAGAAAGAAACGAG
1 ATTGAA-AAAGAAATGAG
* * *
44902988 AGTGTAAAAGAAACGAGTG
1 ATTGAAAAAGAAATGA--G
*
44903007 TCATGGAAAAAGAAATTGAG
1 --ATTGAAAAAGAAA-TGAG
*
44903027 ATTGAAAAAG-GAT--G
1 ATTGAAAAAGAAATGAG
* *
44903041 --TGAAAAAGAGAAAGAA
1 ATTGAAAAAGA-AATGAG
44903057 ATTGAAAAAGAAATTGAG
1 ATTGAAAAAGAAA-TGAG
44903075 ATTGAA
1 ATTGAA
44903081 CAAAAGTGTA
Statistics
Matches: 83, Mismatches: 15, Indels: 26
0.67 0.12 0.21
Matches are distributed among these distances:
12 8 0.10
14 2 0.02
16 1 0.01
17 13 0.16
18 40 0.48
19 6 0.07
20 1 0.01
21 10 0.12
22 2 0.02
ACGTcount: A:0.53, C:0.02, G:0.27, T:0.17
Consensus pattern (17 bp):
ATTGAAAAAGAAATGAG
Found at i:44903070 original size:48 final size:46
Alignment explanation
Indices: 44903012--44903117 Score: 135
Period size: 48 Copynumber: 2.2 Consensus size: 46
44903002 GAGTGTCATG
*
44903012 GAAAAAGAAATTGAGATTGAA-AAAGGATGT-GAAAAAGAGAAAGAAATT
1 GAAAAAGAAATTGAGATTGAACAAAAG-TGTAGAAAAAGAG--A-AAATT
44903060 GAAAAAGAAATTGAGATTGAACAAAAGTGTAAGGAAAAAGAGAAAATT
1 GAAAAAGAAATTGAGATTGAACAAAAGTGT-A-GAAAAAGAGAAAATT
44903108 GAAAAAGAAA
1 GAAAAAGAAA
44903118 GAAAAGACAA
Statistics
Matches: 53, Mismatches: 1, Indels: 8
0.85 0.02 0.13
Matches are distributed among these distances:
48 39 0.74
49 5 0.09
51 9 0.17
ACGTcount: A:0.60, C:0.01, G:0.24, T:0.15
Consensus pattern (46 bp):
GAAAAAGAAATTGAGATTGAACAAAAGTGTAGAAAAAGAGAAAATT
Found at i:44904829 original size:20 final size:20
Alignment explanation
Indices: 44904783--44904829 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
44904773 AGCTCGTTTC
*
44904783 CAGCTCACTCGAGCTCAAGT
1 CAGCTCACTCAAGCTCAAGT
* *
44904803 CAACTCACTCAAGCTCAATT
1 CAGCTCACTCAAGCTCAAGT
44904823 CAGCTCA
1 CAGCTCA
44904830 ATCTTAACCC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.30, C:0.36, G:0.13, T:0.21
Consensus pattern (20 bp):
CAGCTCACTCAAGCTCAAGT
Found at i:44913842 original size:11 final size:12
Alignment explanation
Indices: 44913815--44913860 Score: 65
Period size: 12 Copynumber: 3.8 Consensus size: 12
44913805 ATAGGTACGT
* *
44913815 AAAAAAAAGTTC
1 AAAAAAAAATTG
44913827 AAAAAAAAATTG
1 AAAAAAAAATTG
44913839 AAAAAAAAATTG
1 AAAAAAAAATTG
44913851 AAAAGAAAAA
1 AAAA-AAAAA
44913861 AAAATTGCAT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
12 26 0.84
13 5 0.16
ACGTcount: A:0.76, C:0.02, G:0.09, T:0.13
Consensus pattern (12 bp):
AAAAAAAAATTG
Found at i:44916121 original size:18 final size:19
Alignment explanation
Indices: 44916081--44916122 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
44916071 GCGAAAATAC
* *
44916081 AAAAGAAAAGAAAAATGAT
1 AAAAAAAAAGAAAAATCAT
*
44916100 AAAAAAAAAGAAAATTCA-
1 AAAAAAAAAGAAAAATCAT
44916118 AAAAA
1 AAAAA
44916123 GAGAATGAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.79, C:0.02, G:0.10, T:0.10
Consensus pattern (19 bp):
AAAAAAAAAGAAAAATCAT
Found at i:44917938 original size:20 final size:21
Alignment explanation
Indices: 44917903--44917941 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
44917893 CAGCTCGTTG
44917903 AGCTCAATTCAGCTCATTTCT
1 AGCTCAATTCAGCTCATTTCT
*
44917924 AGCTC-ATTGAGCTCATTT
1 AGCTCAATTCAGCTCATTT
44917942 GCTTGTTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.23, C:0.26, G:0.13, T:0.38
Consensus pattern (21 bp):
AGCTCAATTCAGCTCATTTCT
Found at i:44918349 original size:13 final size:13
Alignment explanation
Indices: 44918331--44918356 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
44918321 TGTGTCCTAA
44918331 TATGAATTAAATT
1 TATGAATTAAATT
44918344 TATGAATTAAATT
1 TATGAATTAAATT
44918357 GCTTTCAGGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (13 bp):
TATGAATTAAATT
Found at i:44922598 original size:20 final size:20
Alignment explanation
Indices: 44922575--44922621 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
44922565 GGGTTAAGAT
*
44922575 TGAGCTGAATTGAGCTTGAG
1 TGAGCTGAATTGAGCTCGAG
* *
44922595 TGAGTTGACTTGAGCTCGAG
1 TGAGCTGAATTGAGCTCGAG
44922615 TGAGCTG
1 TGAGCTG
44922622 GAAACGAGCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.21, C:0.13, G:0.36, T:0.30
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAG
Found at i:44924346 original size:48 final size:48
Alignment explanation
Indices: 44924291--44924396 Score: 137
Period size: 48 Copynumber: 2.2 Consensus size: 48
44924281 TTGTCTTTTC
*
44924291 TTTCTTTTTCAATTT-TCTCT-TTTTCCTCACA-CTTTTGTTCAATCTCAA
1 TTTCTTTTTCAATTTCTCTCTCTTTT--TCACATCCTTT-TTCAATCTCAA
* *
44924339 TTTCTTTTTCGATTTCTTTCTCTTTTTCACATCCTTTTTCAATCTCAA
1 TTTCTTTTTCAATTTCTCTCTCTTTTTCACATCCTTTTTCAATCTCAA
44924387 TTTCTTTTTC
1 TTTCTTTTTC
44924397 CACGACACTC
Statistics
Matches: 52, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
48 40 0.77
49 8 0.15
50 4 0.08
ACGTcount: A:0.14, C:0.25, G:0.02, T:0.59
Consensus pattern (48 bp):
TTTCTTTTTCAATTTCTCTCTCTTTTTCACATCCTTTTTCAATCTCAA
Found at i:44925435 original size:11 final size:10
Alignment explanation
Indices: 44925413--44925456 Score: 54
Period size: 10 Copynumber: 4.4 Consensus size: 10
44925403 CTCACAAGAC
*
44925413 TTTTCACTTT
1 TTTTTACTTT
*
44925423 TTTTGTTC-TT
1 TTTT-TACTTT
44925433 TTTTTACTTT
1 TTTTTACTTT
44925443 TTTTTACTTT
1 TTTTTACTTT
44925453 TTTT
1 TTTT
44925457 GCTCACTTCT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
9 2 0.07
10 26 0.90
11 1 0.03
ACGTcount: A:0.07, C:0.11, G:0.02, T:0.80
Consensus pattern (10 bp):
TTTTTACTTT
Found at i:44925441 original size:20 final size:19
Alignment explanation
Indices: 44925413--44925456 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 19
44925403 CTCACAAGAC
* *
44925413 TTTTCACTTTTTTTGTTCTT
1 TTTTTACTTTTTTT-TACTT
44925433 TTTTTACTTTTTTTTACTT
1 TTTTTACTTTTTTTTACTT
44925452 TTTTT
1 TTTTT
44925457 GCTCACTTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 9 0.41
20 13 0.59
ACGTcount: A:0.07, C:0.11, G:0.02, T:0.80
Consensus pattern (19 bp):
TTTTTACTTTTTTTTACTT
Found at i:44926659 original size:20 final size:20
Alignment explanation
Indices: 44926613--44926659 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
44926603 AGCTCGTTTC
*
44926613 CAGCTCACTCGAGCTCAAGT
1 CAGCTCACTCAAGCTCAAGT
* *
44926633 CAACTCACTCAAGCTCAATT
1 CAGCTCACTCAAGCTCAAGT
44926653 CAGCTCA
1 CAGCTCA
44926660 ATTTAACCCA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.30, C:0.36, G:0.13, T:0.21
Consensus pattern (20 bp):
CAGCTCACTCAAGCTCAAGT
Found at i:44928193 original size:9 final size:9
Alignment explanation
Indices: 44928179--44928213 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
44928169 AGAAGTGAGC
44928179 AAAAAAAGA
1 AAAAAAAGA
*
44928188 AAAAAAAGT
1 AAAAAAAGA
44928197 AAAAAAAGA
1 AAAAAAAGA
44928206 ACAAAAAA
1 A-AAAAAA
44928214 AAGTGAAAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 17 0.74
10 6 0.26
ACGTcount: A:0.86, C:0.03, G:0.09, T:0.03
Consensus pattern (9 bp):
AAAAAAAGA
Found at i:44928222 original size:22 final size:21
Alignment explanation
Indices: 44928160--44928222 Score: 67
Period size: 21 Copynumber: 3.0 Consensus size: 21
44928150 ATCGAAATTC
* *
44928160 AAAAA-AAAAAGAAGTGAGCAA
1 AAAAACAAAAAAAAGTGA-AAA
*
44928181 AAAAAGAAAAAAAAGT-AAAA
1 AAAAACAAAAAAAAGTGAAAA
44928201 AAAGAACAAAAAAAAGTGAAAA
1 AAA-AACAAAAAAAAGTGAAAA
44928223 GTCTTGCGAG
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
20 5 0.14
21 18 0.50
22 13 0.36
ACGTcount: A:0.78, C:0.03, G:0.14, T:0.05
Consensus pattern (21 bp):
AAAAACAAAAAAAAGTGAAAA
Found at i:44929313 original size:48 final size:47
Alignment explanation
Indices: 44929236--44929339 Score: 131
Period size: 48 Copynumber: 2.2 Consensus size: 47
44929226 AGTGTCATGG
*
44929236 AAAAGAAATTGAGATTGAAAAAGGATGTGA-AAAAGAGAAAGAAATCGA
1 AAAAGAAATTGAGATTGAAAAAAGATGTGAGAAAA-AGAAA-AAATCGA
* *
44929284 AAAAGAAATTGAGATTGAACAAAAG-TGTGAGGAAAAAGAGAAAATTGA
1 AAAAGAAATTGAGATTGAA-AAAAGATGTGA-GAAAAAGAAAAAATCGA
44929332 AAAAGAAA
1 AAAAGAAA
44929340 GAAAGACAAT
Statistics
Matches: 50, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
48 38 0.76
49 8 0.16
50 4 0.08
ACGTcount: A:0.60, C:0.02, G:0.24, T:0.14
Consensus pattern (47 bp):
AAAAGAAATTGAGATTGAAAAAAGATGTGAGAAAAAGAAAAAATCGA
Found at i:44929754 original size:1 final size:1
Alignment explanation
Indices: 44929748--44929815 Score: 136
Period size: 1 Copynumber: 68.0 Consensus size: 1
44929738 AGATTCTTGC
44929748 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
44929813 TTT
1 TTT
44929816 AATTTGCTTT
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 67 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:44939049 original size:20 final size:20
Alignment explanation
Indices: 44939026--44939072 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
44939016 GGGTTAAGAT
*
44939026 TGAGCTGAATTGAGCTTGAG
1 TGAGCTGAATTGAGCTCGAG
* *
44939046 TGAGTTGACTTGAGCTCGAG
1 TGAGCTGAATTGAGCTCGAG
44939066 TGAGCTG
1 TGAGCTG
44939073 GAAACGAGCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.21, C:0.13, G:0.36, T:0.30
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAG
Found at i:44940907 original size:26 final size:26
Alignment explanation
Indices: 44940878--44940933 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 26
44940868 TCAAGCTCTC
*
44940878 TTTCAATTTCTTTTTC-GCTTTTTTTT
1 TTTCAATTT-TTTTTCTGCTTTTCTTT
*
44940904 TTTCAATTTTTTTTCTTCTTTTCTTT
1 TTTCAATTTTTTTTCTGCTTTTCTTT
44940930 TTTC
1 TTTC
44940934 TCTCACTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
25 6 0.22
26 21 0.78
ACGTcount: A:0.07, C:0.16, G:0.02, T:0.75
Consensus pattern (26 bp):
TTTCAATTTTTTTTCTGCTTTTCTTT
Found at i:44942071 original size:28 final size:26
Alignment explanation
Indices: 44942017--44942077 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 26
44942007 TAAACTTTGA
*
44942017 TTTTTTTTTGCTCACCTTTTTTTCTTT
1 TTTTTTTTTGCTCA-CTTTTTTACTTT
44942044 TCTTTTTTTTGCTCGA-TTTTTTCACTTT
1 T-TTTTTTTTGCTC-ACTTTTTT-ACTTT
44942072 TTTTTT
1 TTTTTT
44942078 GAATTTTTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
27 12 0.40
28 17 0.57
29 1 0.03
ACGTcount: A:0.05, C:0.16, G:0.05, T:0.74
Consensus pattern (26 bp):
TTTTTTTTTGCTCACTTTTTTACTTT
Found at i:44943638 original size:20 final size:20
Alignment explanation
Indices: 44943615--44943661 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
44943605 GGGTTAAGAT
*
44943615 TGAGCTGAATTGAGCTTGAG
1 TGAGCTGAATTGAGCTCGAG
* *
44943635 TGAGTTGACTTGAGCTCGAG
1 TGAGCTGAATTGAGCTCGAG
44943655 TGAGCTG
1 TGAGCTG
44943662 GAAACGAGCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.21, C:0.13, G:0.36, T:0.30
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAG
Found at i:44959917 original size:40 final size:40
Alignment explanation
Indices: 44959782--44960004 Score: 274
Period size: 40 Copynumber: 5.5 Consensus size: 40
44959772 TATTCGGATG
* *
44959782 ATATCCGGGCTAAGTCCCGAA-GCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
44959821 ATATCCGGGCTAAGTCCTGAAGGCATTTGTGCGAGTAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC---TAG-TGACT
*
44959864 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* **
44959904 ATATCCGGGCTAAGTCCCGAAAGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
44959944 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
* *
44959984 ATAT-CTGGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
44960005 ATACTTGGGT
Statistics
Matches: 160, Mismatches: 17, Indels: 14
0.84 0.09 0.07
Matches are distributed among these distances:
39 36 0.22
40 87 0.54
41 2 0.01
43 34 0.21
44 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:44964977 original size:39 final size:40
Alignment explanation
Indices: 44964773--44964995 Score: 227
Period size: 40 Copynumber: 5.6 Consensus size: 40
44964763 TTGAATCCTG
* * * * * *
44964773 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
** * * * *
44964813 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCAAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
*
44964853 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
**
44964893 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
44964933 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
44964972 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
44964996 TGAACGAGGA
Statistics
Matches: 161, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
39 35 0.22
40 118 0.73
41 8 0.05
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:44965015 original size:79 final size:80
Alignment explanation
Indices: 44964848--44965030 Score: 226
Period size: 79 Copynumber: 2.3 Consensus size: 80
44964838 GTGCAAGATA
* * *
44964848 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
44964913 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * *
44964928 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
44964992 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
44965007 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
44965031 TACGTGATTT
Statistics
Matches: 87, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
78 14 0.16
79 46 0.53
80 27 0.31
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:44972845 original size:39 final size:40
Alignment explanation
Indices: 44972641--44972863 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
44972631 TTGAATGCTG
* * * * * *
44972641 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
** * * *
44972681 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
*
44972721 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
**
44972761 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
44972801 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
44972840 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
44972864 TGAACGAGGA
Statistics
Matches: 161, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
39 35 0.22
40 118 0.73
41 8 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:44972883 original size:79 final size:80
Alignment explanation
Indices: 44972716--44972898 Score: 226
Period size: 79 Copynumber: 2.3 Consensus size: 80
44972706 GTGCGAGATA
* * *
44972716 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
44972781 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * *
44972796 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
44972860 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
44972875 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
44972899 TACGTGATTT
Statistics
Matches: 87, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
78 14 0.16
79 46 0.53
80 27 0.31
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:44977528 original size:17 final size:17
Alignment explanation
Indices: 44977489--44977547 Score: 59
Period size: 17 Copynumber: 3.6 Consensus size: 17
44977479 AAAACAAATA
*
44977489 GAGGCCCAAA-CCTA-T
1 GAGGCCCAAACCCAACT
*
44977504 GTGGCCCAAACCCAACT
1 GAGGCCCAAACCCAACT
* *
44977521 GAGGCCCAAACCAAACA
1 GAGGCCCAAACCCAACT
*
44977538 GAAGCCCAAA
1 GAGGCCCAAA
44977548 GCAGATTCAA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
15 9 0.25
16 3 0.08
17 24 0.67
ACGTcount: A:0.39, C:0.36, G:0.19, T:0.07
Consensus pattern (17 bp):
GAGGCCCAAACCCAACT
Found at i:44990824 original size:44 final size:44
Alignment explanation
Indices: 44990764--44991575 Score: 433
Period size: 44 Copynumber: 18.8 Consensus size: 44
44990754 TAGTGGCCGG
* *
44990764 GATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCTCA
1 GATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCTCA
* * * *
44990808 GATCTTATCTCGCTGAAGTTGCAG-AGAGCAGA-TCACATCT-A
1 GATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCTCA
* * *
44990849 G-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGC-AA
1 GATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAA--AATCTCA
* **
44990893 G-TCTTATC-CTCCTGAAGTTGCAGT-GACGCAGACTAAAGATGACA
1 GATCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGATTAAA-ATCTCA
* * *
44990937 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCGACA
1 GATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATC-TCA
* * * * *
44990982 -ATCCTATCTCCCTGAAGTTGCGGTGGAGCGGATTAAAATATTA
1 GATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCTCA
** * ** * *
44991025 GATCTTATCTTTCTGAAGTTACA-AAGAGCAGA-TCACATCT-A
1 GATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCTCA
* * * *
44991066 G-TCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTAAGTAAGC-AA
1 GATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAA--AATCTCA
* * **
44991110 G-TCTTATC-CTCCTGAAGTTGCAGT-GAGGCAGACTGAAGATGACA
1 GATCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGA-TTAAAATCTCA
* * * * *
44991154 AATCTTATCTCCCTGAATTTACAGTGGAGCAGATTAAAACCGACA
1 GATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATC-TCA
* *
44991199 -ATCCTATCTCCCTGAAGTTGCGGTGGAGC-GAATTAAAATCTCA
1 GATCTTATCTCCCTGAAGTTGCAGTGGAGCAG-ATTAAAATCTCA
** * * ***
44991242 GATCTTATCTTTCTGAAGCTGCAG-AGAGCAGA-TCGCATCT-A
1 GATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCTCA
* * * *
44991283 G-TCTTATCTCTCTGAAGTTTCAGTGGAGCAG-TCTAAGTAAGC-AA
1 GATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT-TAA--AATCTCA
* * ***
44991327 G-TCTTATCCTCCC-GAAGTTGCAGT-GAGGCAGACTGAAGATGGAA
1 GATCTTAT-CTCCCTGAAGTTGCAGTGGA-GCAGA-TTAAAATCTCA
* *
44991371 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAA-C-C-
1 GATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCTCA
* *
44991412 GATAATTCTATCTTCCTGAAGTTGCAGTGGAGC-GAATTAAAATCTCA
1 GAT--CT-TATCTCCCTGAAGTTGCAGTGGAGCAG-ATTAAAATCTCA
* ** * ****
44991459 AATCTTATCTCTTTGAAGTTGCA-TAGAGCAGA-TCGCGTCT-A
1 GATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCTCA
* * * *
44991500 G-TCTTGTCTCCCTGAAGTTGTAGTGGAGCAGACTAAGTAA--GCA
1 GATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAA--AATCTCA
** *
44991543 GATCTTATCTCCCT-AAGCAGTAGTGGAGCAGAT
1 GATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
44991576 CGAAGATGGC
Statistics
Matches: 587, Mismatches: 123, Indels: 117
0.71 0.15 0.14
Matches are distributed among these distances:
40 75 0.13
41 36 0.06
42 27 0.05
43 58 0.10
44 288 0.49
45 91 0.16
46 10 0.02
47 2 0.00
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (44 bp):
GATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCTCA
Found at i:44990961 original size:89 final size:87
Alignment explanation
Indices: 44990850--44991574 Score: 389
Period size: 89 Copynumber: 8.4 Consensus size: 87
44990840 TCACATCTAG
44990850 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATC-CTCCTGAAGTTGC
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAA--AAGCAAGTCTTATCTC-CCTGAAGTTGC
44990914 AGT-GACGCAGACTAAAGATGACAAA
63 AGTGGA-GCAGACTAAAGATGACAAA
* *
44990939 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCGACAA-TCCTATCTCCCTGAAGTTGC
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAA--G-CAAGTCTTATCTCCCTGAAGTTGC
* * * * *
44991003 GGTGGAGCGGATTAAA-AT-ATTAGA
63 AGTGGAGCAGACTAAAGATGA-CAAA
** * ** * * * *
44991027 TCTTATCTTTCTGAAGTTACA-AAGAGCAGA-TCACATCTAGTCTTATCTCCCTGAAGTTGCAGT
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAAGCAAGTCTTATCTCCCTGAAGTTGCAGT
* * *
44991090 GGAGTAGACT-AAG-TAAGCAAG
66 GGAGCAGACTAAAGATGA-CAAA
* * *
44991111 TCTTATC-CTCCTGAAGTTGCAGT-GAGGCAGACTGAAGATGACAAATCTTATCTCCCTGAATTT
1 TCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACT-AA-AAG-CAAGTCTTATCTCCCTGAAGTT
* * *
44991174 ACAGTGGAGCAGATTAAA-ACCGAC-AA
61 GCAGTGGAGCAGACTAAAGA-TGACAAA
* * * * * ** *
44991200 TCCTATCTCCCTGAAGTTGCGGTGGAGC-GAATTAAAATCTCAGATCTTATCTTTCTGAAGCTGC
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAG-ACTAAAAGC-AAG-TCTTATCTCCCTGAAGTTGC
* * * *
44991264 AG-AGAGCAGA-T--CGCAT--CTAG
63 AGTGGAGCAGACTAAAG-ATGACAAA
* * *
44991284 TCTTATCTCTCTGAAGTTTCAGTGGAGCAGTCTAAGTAAGCAAGTCTTATCCTCCC-GAAGTTGC
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAA--AAGCAAGTCTTAT-CTCCCTGAAGTTGC
*
44991348 AGT-GAGGCAGACTGAAGATGGA-AAA
63 AGTGGA-GCAGACTAAAGAT-GACAAA
* * * * *
44991373 TCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACCGATAAT-TCTATCTTCCTGAAGTTGC
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAAGC-A-AGTCT-TATCTCCCTGAAGTTGC
* **
44991437 AGTGGAGC-GAATTAAA-ATCTCAAA
63 AGTGGAGCAG-ACTAAAGATGACAAA
** * *** * * *
44991461 TCTTATCTCTTTGAAGTTGCA-TAGAGCAGA-T-CGCGTCTAGTCTTGTCTCCCTGAAGTTGTAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAAG-CAAGTCTTATCTCCCTGAAGTTGCAG
* *
44991523 TGGAGCAGACT-AAG-TAAGCAGA
65 TGGAGCAGACTAAAGATGA-CAAA
** *
44991545 TCTTATCTCCCT-AAGCAGTAGTGGAGCAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
44991575 TCGAAGATGG
Statistics
Matches: 478, Mismatches: 106, Indels: 109
0.69 0.15 0.16
Matches are distributed among these distances:
83 14 0.03
84 141 0.29
85 18 0.04
86 13 0.03
87 33 0.07
88 73 0.15
89 171 0.36
90 14 0.03
91 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (87 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAAGCAAGTCTTATCTCCCTGAAGTTGCAGT
GGAGCAGACTAAAGATGACAAA
Found at i:44991124 original size:217 final size:217
Alignment explanation
Indices: 44990765--44991551 Score: 1256
Period size: 217 Copynumber: 3.6 Consensus size: 217
44990755 AGTGGCCGGG
* **
44990765 ATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCTCAGATCTTATCTCGCTGAAGTTGC
1 ATCCTATCTCCCTGAAGTTGCAGTGGAGCGAATTAAAATCTCAGATCTTATCTTTCTGAAGTTGC
44990830 AGAGAGCAGATCACATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGT
66 AGAGAGCAGATCACATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGT
* * *
44990895 CTTATCCTCCTGAAGTTGCAGTGACGCAGACTAAAGATGACAAATCTTATCTCCCTGAAGTTGCA
131 CTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGACAAATCTTATCTCCCTGAAGTTACA
44990960 GTGGAGCAGATTAAAACCGACA
196 GTGGAGCAGATTAAAACCGACA
* * * * *
44990982 ATCCTATCTCCCTGAAGTTGCGGTGGAGCGGATTAAAATATTAGATCTTATCTTTCTGAAGTTAC
1 ATCCTATCTCCCTGAAGTTGCAGTGGAGCGAATTAAAATCTCAGATCTTATCTTTCTGAAGTTGC
* *
44991047 AAAGAGCAGATCACATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTAAGTAAGCAAGT
66 AGAGAGCAGATCACATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGT
*
44991112 CTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGACAAATCTTATCTCCCTGAATTTACA
131 CTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGACAAATCTTATCTCCCTGAAGTTACA
44991177 GTGGAGCAGATTAAAACCGACA
196 GTGGAGCAGATTAAAACCGACA
* *
44991199 ATCCTATCTCCCTGAAGTTGCGGTGGAGCGAATTAAAATCTCAGATCTTATCTTTCTGAAGCTGC
1 ATCCTATCTCCCTGAAGTTGCAGTGGAGCGAATTAAAATCTCAGATCTTATCTTTCTGAAGTTGC
* * * *
44991264 AGAGAGCAGATCGCATCTAGTCTTATCTCTCTGAAGTTTCAGTGGAGCAGTCTAAGTAAGCAAGT
66 AGAGAGCAGATCACATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGT
*
44991329 CTTATCCTCCCGAAGTTGCAGTGAGGCAGACTGAAGATGGA-AAATCTTATCTCCCTGAAGTTAC
131 CTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGAT-GACAAATCTTATCTCCCTGAAGTTAC
*
44991393 AGTGGAGCAGATTAAAACCGATA
195 AGTGGAGCAGATTAAAACCGACA
* * *
44991416 ATTCTATCTTCCTGAAGTTGCAGTGGAGCGAATTAAAATCTCAAATCTTATCTCTT-TGAAGTTG
1 ATCCTATCTCCCTGAAGTTGCAGTGGAGCGAATTAAAATCTCAGATCTTATCT-TTCTGAAGTTG
* * * * *
44991480 CATAGAGCAGATCGCGTCTAGTCTTGTCTCCCTGAAGTTGTAGTGGAGCAGACTAAGTAAGC-AG
65 CAGAGAGCAGATCACATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAG
44991544 ATCTTATC
130 -TCTTATC
44991552 TCCCTAAGCA
Statistics
Matches: 529, Mismatches: 38, Indels: 6
0.92 0.07 0.01
Matches are distributed among these distances:
216 2 0.00
217 523 0.99
218 4 0.01
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (217 bp):
ATCCTATCTCCCTGAAGTTGCAGTGGAGCGAATTAAAATCTCAGATCTTATCTTTCTGAAGTTGC
AGAGAGCAGATCACATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGT
CTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGACAAATCTTATCTCCCTGAAGTTACA
GTGGAGCAGATTAAAACCGACA
Found at i:44991216 original size:173 final size:173
Alignment explanation
Indices: 44990892--44991217 Score: 364
Period size: 173 Copynumber: 1.9 Consensus size: 173
44990882 TAAGTAAGCA
*
44990892 AGTCTTATCCTCCTGAAGTTGCAGTGACGCAGACTAAAGATGACAAATCTTATCTCCCTGAAGTT
1 AGTCTTATCCTCCTGAAGTTGCAGTGACGCAGACTAAAGAAGACAAATCTTATCTCCCTGAAGTT
* * * * *
44990957 GCAGTGGAGCAGATTAAAACCGACAATCCTATCTCCCTGAAGTTGCGGTGGAGCGGATTAAAATA
66 GCAGTGGAGCAGATGAAAACCGACAATCCTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAAGA
* * **
44991022 TTAGATCTTATCTTTCTGAAGTTACAAAGAGCAGATCACATCT
131 TCAGATCCTATCTCCCTGAAGTTACAAAGAGCAGATCACATCT
* *
44991065 AGTCTTAT-CTCCCTGAAGTTGCAGTGGA-GTAGACT-AAGTAAG-CAAGTCTTATC-CTCCTGA
1 AGTCTTATCCT-CCTGAAGTTGCAGT-GACGCAGACTAAAG-AAGACAAATCTTATCTC-CCTGA
* * * *
44991125 AGTTGCAGT-GAGGCAGACTGAAGA-TGACAAATCTTATCTCCCTGAATTTACAGTGGAGCAGAT
62 AGTTGCAGTGGA-GCAGA-TGAAAACCGAC-AATCCTATCTCCCTGAAGTTACAGTGGAGCAGAT
44991188 TAAAACCGA-CA-ATCCTATCTCCCTGAAGTT
124 TAAAA--GATCAGATCCTATCTCCCTGAAGTT
44991218 GCGGTGGAGC
Statistics
Matches: 128, Mismatches: 16, Indels: 18
0.79 0.10 0.11
Matches are distributed among these distances:
171 3 0.02
172 37 0.29
173 84 0.66
174 3 0.02
175 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.28
Consensus pattern (173 bp):
AGTCTTATCCTCCTGAAGTTGCAGTGACGCAGACTAAAGAAGACAAATCTTATCTCCCTGAAGTT
GCAGTGGAGCAGATGAAAACCGACAATCCTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAAGA
TCAGATCCTATCTCCCTGAAGTTACAAAGAGCAGATCACATCT
Found at i:44992074 original size:17 final size:17
Alignment explanation
Indices: 44992035--44992093 Score: 59
Period size: 17 Copynumber: 3.6 Consensus size: 17
44992025 AAAACAAATA
*
44992035 GAGGCCCAAA-CCTA-T
1 GAGGCCCAAACCCAACT
*
44992050 GTGGCCCAAACCCAACT
1 GAGGCCCAAACCCAACT
* *
44992067 GAGGCCCAAACCAAACA
1 GAGGCCCAAACCCAACT
*
44992084 GAAGCCCAAA
1 GAGGCCCAAA
44992094 GCAGATTCAG
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
15 9 0.25
16 3 0.08
17 24 0.67
ACGTcount: A:0.39, C:0.36, G:0.19, T:0.07
Consensus pattern (17 bp):
GAGGCCCAAACCCAACT
Found at i:45004393 original size:14 final size:15
Alignment explanation
Indices: 45004374--45004410 Score: 58
Period size: 16 Copynumber: 2.5 Consensus size: 15
45004364 TCCAAGTTTG
45004374 AATGCTA-TATAACA
1 AATGCTATTATAACA
45004388 AATGCTAATTATAACA
1 AATGCT-ATTATAACA
45004404 AATGCTA
1 AATGCTA
45004411 ATTAAAATGC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 6 0.29
15 2 0.10
16 13 0.62
ACGTcount: A:0.49, C:0.14, G:0.08, T:0.30
Consensus pattern (15 bp):
AATGCTATTATAACA
Found at i:45004402 original size:16 final size:16
Alignment explanation
Indices: 45004381--45004414 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
45004371 TTGAATGCTA
45004381 TATAACAAATGCTAAT
1 TATAACAAATGCTAAT
45004397 TATAACAAATGCTAAT
1 TATAACAAATGCTAAT
45004413 TA
1 TA
45004415 AAATGCCCTA
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:0.50, C:0.12, G:0.06, T:0.32
Consensus pattern (16 bp):
TATAACAAATGCTAAT
Found at i:45010249 original size:47 final size:47
Alignment explanation
Indices: 45010173--45010384 Score: 266
Period size: 47 Copynumber: 4.5 Consensus size: 47
45010163 CTTCGGGACT
* * * *
45010173 TATCACAT-TAATACACTTTCACATCCATCACGTTGGCCACTCGGCCC
1 TATCACATAT-ATACACTTTCACATTCATCACATCGGCCATTCGGCCC
* * *
45010220 TGTCACATATATACATTTTCACATTCATCACATCGGCCATTAGG-CC
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGCCC
* *
45010266 TCATCACATATATACACATTCACATTCATCACATCGGCCATTCGGCCT
1 T-ATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGCCC
* * *
45010314 TATCACATATATACACTTTCACATTCATCACACCGGCCATTAGGCCT
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGCCC
* *
45010361 TATCACATATATATACATTCACAT
1 TATCACATATATACACTTTCACAT
45010385 CACAATTATC
Statistics
Matches: 145, Mismatches: 17, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
46 3 0.02
47 139 0.96
48 3 0.02
ACGTcount: A:0.30, C:0.31, G:0.08, T:0.31
Consensus pattern (47 bp):
TATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGCCC
Found at i:45010294 original size:25 final size:25
Alignment explanation
Indices: 45010266--45010345 Score: 69
Period size: 25 Copynumber: 3.3 Consensus size: 25
45010256 CCATTAGGCC
45010266 TCATCACATATATACACATTCACAT
1 TCATCACATATATACACATTCACAT
*** * *
45010291 TCATCAC--ATCGGC-CATTCGGCCT
1 TCATCACATATATACACATTC-ACAT
*
45010314 T-ATCACATATATACACTTTCACAT
1 TCATCACATATATACACATTCACAT
45010338 TCATCACA
1 TCATCACA
45010346 CCGGCCATTA
Statistics
Matches: 39, Mismatches: 11, Indels: 10
0.65 0.18 0.17
Matches are distributed among these distances:
22 10 0.26
23 6 0.15
24 6 0.15
25 17 0.44
ACGTcount: A:0.33, C:0.31, G:0.05, T:0.31
Consensus pattern (25 bp):
TCATCACATATATACACATTCACAT
Found at i:45010335 original size:94 final size:94
Alignment explanation
Indices: 45010174--45010385 Score: 309
Period size: 94 Copynumber: 2.3 Consensus size: 94
45010164 TTCGGGACTT
* * * * *
45010174 ATCACAT-TAATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACATTT
1 ATCACATAT-ATACACATTCACATCCATCACATCGGCCACTCGGCCCTATCACATATATACACTT
*
45010238 TCACATTCATCACATCGGCCATTAGGCCTC
65 TCACATTCATCACACCGGCCATTAGGCCTC
* * *
45010268 ATCACATATATACACATTCACATTCATCACATCGGCCATTCGGCCTTATCACATATATACACTTT
1 ATCACATATATACACATTCACATCCATCACATCGGCCACTCGGCCCTATCACATATATACACTTT
*
45010333 CACATTCATCACACCGGCCATTAGGCCTT
66 CACATTCATCACACCGGCCATTAGGCCTC
*
45010362 ATCACATATATATACATTCACATC
1 ATCACATATATACACATTCACATC
45010386 ACAATTATCC
Statistics
Matches: 105, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
94 104 0.99
95 1 0.01
ACGTcount: A:0.30, C:0.32, G:0.08, T:0.30
Consensus pattern (94 bp):
ATCACATATATACACATTCACATCCATCACATCGGCCACTCGGCCCTATCACATATATACACTTT
CACATTCATCACACCGGCCATTAGGCCTC
Found at i:45023540 original size:29 final size:29
Alignment explanation
Indices: 45023507--45023724 Score: 154
Period size: 29 Copynumber: 7.5 Consensus size: 29
45023497 CCATCAACCA
* * *
45023507 ATGAAAAGGGATAGTTTCGGCTATCGATT
1 ATGAAAAGGGATGGTTTCGACCATCGATT
** * *
45023536 ATGAAAAGGGATGGTGGCGACCATCAACT
1 ATGAAAAGGGATGGTTTCGACCATCGATT
* ** * *
45023565 ATGAAGAGGGATGGTGACGACCATCAACT
1 ATGAAAAGGGATGGTTTCGACCATCGATT
* *
45023594 ATGAAAAGGGATGGTGAT-GACCATCGAAT
1 ATGAAAAGGGATGGT-TTCGACCATCGATT
* * * *
45023623 ATGAAAAGGGATAGCTTC-AGCTATTGATT
1 ATGAAAAGGGATGGTTTCGA-CCATCGATT
* * * *
45023652 ATGAAAAAGGATAGTTTC-AGCTATCAATT
1 ATGAAAAGGGATGGTTTCGA-CCATCGATT
* * *
45023681 AATGGAAAGGGATGGTTTTGACCATCGAAT
1 -ATGAAAAGGGATGGTTTCGACCATCGATT
45023711 ATGAAAAGGGATGG
1 ATGAAAAGGGATGG
45023725 CTACAACTAT
Statistics
Matches: 152, Mismatches: 32, Indels: 10
0.78 0.16 0.05
Matches are distributed among these distances:
28 2 0.01
29 129 0.85
30 20 0.13
31 1 0.01
ACGTcount: A:0.36, C:0.11, G:0.28, T:0.24
Consensus pattern (29 bp):
ATGAAAAGGGATGGTTTCGACCATCGATT
Found at i:45027407 original size:30 final size:30
Alignment explanation
Indices: 45027373--45027457 Score: 109
Period size: 30 Copynumber: 2.8 Consensus size: 30
45027363 TACCAAAAAA
*
45027373 TGGAAGCCTATGTGGCTATTCTCTAATAAC
1 TGGAAGCCTTTGTGGCTATTCTCTAATAAC
* **
45027403 TGGAAGCCTTTATGGCTGA-TCTCTAATATG
1 TGGAAGCCTTTGTGGCT-ATTCTCTAATAAC
*
45027433 TGGAAGCCTTTGTGTCTATTCTCTA
1 TGGAAGCCTTTGTGGCTATTCTCTA
45027458 TTCTTTGTGG
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
29 1 0.02
30 45 0.96
31 1 0.02
ACGTcount: A:0.22, C:0.19, G:0.21, T:0.38
Consensus pattern (30 bp):
TGGAAGCCTTTGTGGCTATTCTCTAATAAC
Found at i:45038124 original size:50 final size:50
Alignment explanation
Indices: 45038006--45038441 Score: 522
Period size: 50 Copynumber: 8.7 Consensus size: 50
45037996 TAATAATAAC
* * * * * *
45038006 ATGCCAAAGCCATGTCCCAAACATGGTCTTACATGAGA--TGT-TTCTTG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCG
* * ** * *
45038053 TACTGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCA
1 -A-TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCG
* *
45038105 ATGCCCATGCCATGTCCCAGACATGGTCTTAC-GGGGACCTCTCATCTCG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCG
*
45038154 ATGCCAACGCCATGTCCCAGACATGGTCTTACAT-GGACCTCTCATCTCG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCG
*
45038203 GTGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCG
* * * *
45038253 GTGTCAACGCCATGTCCCAGACATGGTCTTACATGGGAACTCTCATCTCG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCG
* * * * * *
45038303 GTGCCAACGTCATGTCCCAGACTTGGTCTTACATTGGACTTCTCATCTCG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCG
*
45038353 GTGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAATCTCAATG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC---ATCTC---G
45038409 ATGCCAATGCCATGTCCCAGACATGGTCTTACA
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACA
45038442 CTGGCTCACA
Statistics
Matches: 338, Mismatches: 38, Indels: 16
0.86 0.10 0.04
Matches are distributed among these distances:
48 1 0.00
49 121 0.36
50 173 0.51
51 3 0.01
52 2 0.01
53 5 0.01
56 33 0.10
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (50 bp):
ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCG
Found at i:45038349 original size:100 final size:100
Alignment explanation
Indices: 45038007--45038441 Score: 527
Period size: 99 Copynumber: 4.3 Consensus size: 100
45037997 AATAATAACA
* * * ** * * * * *
45038007 TGCCAAAGCCATGTCCCAAACATGGTCTTACATGAGATGTTTCTTGTAC--TGCCAATGCCATAT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCT-CGGTGCCAACGCCATGT
* ** * **
45038070 CCCAGATATGGTCTTACATGGGAGTTCTCATATCAA
65 CCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * *
45038106 TGCCCATGCCATGTCCCAGACATGGTCTTAC-GGGGACCTCTCATCTCGATGCCAACGCCATGTC
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTC
45038170 CCAGACATGGTCTTACAT-GGACCTCTCATCTCGG
66 CCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
45038204 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGTCAACGCCATGTC
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTC
*
45038269 CCAGACATGGTCTTACATGGGAACTCTCATCTCGG
66 CCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * * * * *
45038304 TGCCAACGTCATGTCCCAGACTTGGTCTTACATTGGACTTCTCATCTCGGTGCCAATGCCATGTC
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTC
*
45038369 CCAGACATGGTCTTACATGGGACCTCTCATAATCTCAATGA
66 CCAGACATGGTCTTACATGGGACCTCTC---ATCTC---GG
45038410 TGCCAATGCCATGTCCCAGACATGGTCTTACA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACA
45038442 CTGGCTCACA
Statistics
Matches: 291, Mismatches: 35, Indels: 13
0.86 0.10 0.04
Matches are distributed among these distances:
97 1 0.00
98 49 0.17
99 106 0.36
100 100 0.34
103 5 0.02
106 30 0.10
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (100 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTC
CCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:45042139 original size:40 final size:40
Alignment explanation
Indices: 45042088--45042839 Score: 1227
Period size: 40 Copynumber: 18.6 Consensus size: 40
45042078 CATTTGAATG
45042088 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
45042128 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
**
45042168 ATATCCGGGCTAAGACTTGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
45042208 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGATAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTG--AT
45042250 ATCCAGGATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 AT-----ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
45042295 ATGTCCGGGCTAAGACCTGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
45042335 ATATCCGGGCTAAGACCCGAAAGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
45042375 ATATCCGGGATAAGACCCGAAGGCATTTGTACGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
45042415 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
45042455 ATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
45042495 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
45042535 ATATCCGGGCTAAGACCTGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
45042575 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGATTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
45042615 ATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
45042655 ATATCCGGGATAAGACCCGAAGGCATTTGTGCGAACTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
45042695 ATATCCGGGCTAAGACCCGACGGCGTTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
45042735 ATATCCGGGCTAAGGCCCGAAGGCAATTGTGC-AAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAA-TTGAT
* * *
45042775 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
45042815 ATACCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCA
45042840 ATTGAGCTTG
Statistics
Matches: 666, Mismatches: 37, Indels: 18
0.92 0.05 0.02
Matches are distributed among these distances:
39 2 0.00
40 619 0.93
41 1 0.00
42 4 0.01
45 4 0.01
47 36 0.05
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
Found at i:45049229 original size:40 final size:40
Alignment explanation
Indices: 45049178--45049842 Score: 1143
Period size: 40 Copynumber: 16.6 Consensus size: 40
45049168 CATTTGAATG
45049178 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
45049218 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
45049258 ATATCCGGGCTAAGACCTGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
45049298 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
45049338 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
45049378 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
45049418 ATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
45049458 ATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
45049498 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
45049538 ATATCCGGGCTAAGACCTGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
45049578 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCCATTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
45049618 ATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* * *
45049658 ATATCCGGGATAAGACCCGAAAGCATTTGTGCGAACTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* * *
45049698 ATATCCGGGCTAAGACCCGACGGCGTTTGTGCAAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
45049738 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-AAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAA-TTGAT
* * *
45049778 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
45049818 ATACCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCA
45049843 ATTGAGCTTG
Statistics
Matches: 595, Mismatches: 28, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
39 2 0.00
40 592 0.99
41 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
Found at i:45057339 original size:50 final size:49
Alignment explanation
Indices: 45057280--45057403 Score: 122
Period size: 50 Copynumber: 2.5 Consensus size: 49
45057270 CATTGAGATT
* * ** * *
45057280 ATGAGAGGTCCAATGTAAGACCATGTTTGGGACATGGTGTTGGCACTGAG
1 ATGAGAGGTCC-ATGTAAGACCATGTCTAGGACATGGCATGGGCACCGAG
** *
45057330 ATGAGAGGTCTCCCGTAAGACCATGTCTAGGACATGGCATGGGCACCGAT
1 ATGAGAGGTC-CATGTAAGACCATGTCTAGGACATGGCATGGGCACCGAG
**
45057380 ATGAGAACTCCTATGTAAGACCAT
1 ATGAGAGGTCC-ATGTAAGACCAT
45057404 ATCTGGGATA
Statistics
Matches: 59, Mismatches: 13, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
49 1 0.02
50 57 0.97
51 1 0.02
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.23
Consensus pattern (49 bp):
ATGAGAGGTCCATGTAAGACCATGTCTAGGACATGGCATGGGCACCGAG
Found at i:45064820 original size:28 final size:28
Alignment explanation
Indices: 45064786--45064964 Score: 290
Period size: 28 Copynumber: 6.5 Consensus size: 28
45064776 TAAATTGTAC
45064786 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGCTTGATTATGT
45064814 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGCTTGATTATGT
*
45064842 AGCACTAAGTGTGCGA-ATTGATTATGT
1 AGCACTAAGTGTGCGAGCTTGATTATGT
*
45064869 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGCTTGATTATGT
* *
45064897 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGCTTGATTATGT
*
45064925 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGCTTGATTATGT
*
45064952 AGCACTGAGTGTG
1 AGCACTAAGTGTG
45064965 TGGACTTAAT
Statistics
Matches: 146, Mismatches: 4, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
27 48 0.33
28 98 0.67
ACGTcount: A:0.27, C:0.12, G:0.28, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGCTTGATTATGT
Found at i:45064874 original size:55 final size:55
Alignment explanation
Indices: 45064786--45064964 Score: 288
Period size: 55 Copynumber: 3.2 Consensus size: 55
45064776 TAAATTGTAC
*
45064786 AGCACTAAGTGTGCGAGCTTGATTATGTAGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGATTGATTATGTAGCACTAAGTGTGCGAG-TTGATTATGT
45064842 AGCACTAAGTGTGCGA-ATTGATTATGTAGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGATTGATTATGTAGCACTAAGTGTGCGAG-TTGATTATGT
* * *
45064897 AGCACTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGATTGATTATGTAGCACTAAGTGTGCGAGTTGATTATGT
*
45064952 AGCACTGAGTGTG
1 AGCACTAAGTGTG
45064965 TGGACTTAAT
Statistics
Matches: 116, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
55 74 0.64
56 42 0.36
ACGTcount: A:0.27, C:0.12, G:0.28, T:0.33
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGATTGATTATGTAGCACTAAGTGTGCGAGTTGATTATGT
Found at i:45064928 original size:83 final size:83
Alignment explanation
Indices: 45064786--45064964 Score: 304
Period size: 83 Copynumber: 2.2 Consensus size: 83
45064776 TAAATTGTAC
*
45064786 AGCACTAAGTGTGCGAGCTTGATTATGTAGCACTAAGTGTGCGAGCTTGATTATGTAGCACTAAG
1 AGCACTAAGTGTGCGAGCTTGATTATGTAGCACTAAGTGTGCGAGCTTGATTATATAGCACTAAG
*
45064851 TGTGCGAATTGATTATGT
66 TGTGCGAATTGATTATAT
* *
45064869 AGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAGTTTGATTATATAGCACTAAG
1 AGCACTAAGTGTGCGAGCTTGATTATGTAGCACTAAGTGTGCGAGCTTGATTATATAGCACTAAG
*
45064934 TGTGCGAGTTGATTATAT
66 TGTGCGAATTGATTATAT
*
45064952 AGCACTGAGTGTG
1 AGCACTAAGTGTG
45064965 TGGACTTAAT
Statistics
Matches: 90, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
83 90 1.00
ACGTcount: A:0.27, C:0.12, G:0.28, T:0.33
Consensus pattern (83 bp):
AGCACTAAGTGTGCGAGCTTGATTATGTAGCACTAAGTGTGCGAGCTTGATTATATAGCACTAAG
TGTGCGAATTGATTATAT
Found at i:45073074 original size:28 final size:28
Alignment explanation
Indices: 45073038--45073218 Score: 294
Period size: 28 Copynumber: 6.5 Consensus size: 28
45073028 TAAATTGTAC
*
45073038 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
45073066 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
45073094 AGCACTAAGTGTGCGAATTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
45073122 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
45073150 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
45073178 AGCACTAA-TGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
45073204 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
45073219 GACTTAATAT
Statistics
Matches: 147, Mismatches: 5, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
26 17 0.12
27 14 0.10
28 116 0.79
ACGTcount: A:0.27, C:0.13, G:0.28, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATGT
Found at i:45076538 original size:50 final size:50
Alignment explanation
Indices: 45076480--45076611 Score: 167
Period size: 50 Copynumber: 2.6 Consensus size: 50
45076470 AATTTAAATT
* *
45076480 ATGAGAGGTCCCATGTAAGACCATATCTGGGACATGGCGTTGGCACCGAG
1 ATGAGAGGTCCCATGTAAGACCATATCTGGGACATGGCATGGGCACCGAG
* * * *
45076530 ATGAGAGGTACCC-CGTAAGACCATGTCTAGGACATGGCATGGGCACCGAT
1 ATGAGAGGT-CCCATGTAAGACCATATCTGGGACATGGCATGGGCACCGAG
* **
45076580 ATGAAAACTCCCATGTAAGACCATATCTGGGA
1 ATGAGAGGTCCCATGTAAGACCATATCTGGGA
45076612 TTTGGAATTG
Statistics
Matches: 68, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
49 3 0.04
50 62 0.91
51 3 0.04
ACGTcount: A:0.30, C:0.23, G:0.28, T:0.20
Consensus pattern (50 bp):
ATGAGAGGTCCCATGTAAGACCATATCTGGGACATGGCATGGGCACCGAG
Found at i:45077556 original size:21 final size:21
Alignment explanation
Indices: 45077532--45077571 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
45077522 CTGACTATAT
*
45077532 AAAATCATTAAGACTTGTACA
1 AAAATAATTAAGACTTGTACA
* *
45077553 AAAATAATTATGAGTTGTA
1 AAAATAATTAAGACTTGTA
45077572 ATTTATATTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.47, C:0.07, G:0.12, T:0.33
Consensus pattern (21 bp):
AAAATAATTAAGACTTGTACA
Found at i:45081117 original size:39 final size:40
Alignment explanation
Indices: 45080926--45081135 Score: 262
Period size: 40 Copynumber: 5.3 Consensus size: 40
45080916 GGACTAAGAT
* * * *
45080926 CCGAAGGCATTTGTGCGAGATAC-AAATTCCAGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGTTACTAAA-TCCGGGTTAAGTC
* * * *
45080966 CCGAAGGCCTTTGTGTGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
*
45081006 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
* *
45081046 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
* * * *
45081086 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
45081125 CCGAAGGCATT
1 CCGAAGGCATT
45081136 TGAACGAGGA
Statistics
Matches: 155, Mismatches: 14, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
39 35 0.23
40 117 0.75
41 3 0.02
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
Found at i:45081155 original size:79 final size:80
Alignment explanation
Indices: 45080987--45081170 Score: 221
Period size: 79 Copynumber: 2.3 Consensus size: 80
45080977 TGTGTGAGAT
* * *
45080987 ACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAG
1 ACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAG
** *
45081052 GCATTCGTGCGAGTT
66 GCATTCGAACGAGTG
* * * *
45081067 ATTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAG
1 ACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAG
*
45081131 GCATTTGAACGAG-G
66 GCATTCGAACGAGTG
* *
45081145 AGCTATATCC-GGTTAAATCCCGAAGG
1 A-CTAAATCCGGGTTAAGTCCCGAAGG
45081171 TACGTGATTT
Statistics
Matches: 88, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
78 15 0.17
79 45 0.51
80 28 0.32
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.26
Consensus pattern (80 bp):
ACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAG
GCATTCGAACGAGTG
Found at i:45081155 original size:119 final size:120
Alignment explanation
Indices: 45080876--45081170 Score: 287
Period size: 120 Copynumber: 2.5 Consensus size: 120
45080866 AATGCTGTCT
* ** * * ** *
45080876 GGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGCATTCGAAC-GAGTGACTATATCCGGGTTAAG-TCCCGAAGGCATTCG
* *
45080939 TGCGAGATACAAATTCCAGGTTAAGCCCCGAAGGCCTTTGTGTGAGATACTAAATCC
64 TGCGAGATACAAATTCCAGGTTAAGCCCCGAAGGCCATTGTGTGAGATACTAAAACC
* ** * * *
45080996 GGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTG
1 GGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTATATCCGGGTTAAGTCCCGAAGGCATTCGTG
* * * * * *
45081061 CGAGTTATTAAA-TCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACC
66 CGAGATA-CAAATTCCAGGTTAAGCCCCGAAGGCCATTGTGTGAGATACTAAAACC
* * *
45081115 GGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATCCCGAAGG
1 GGGCTAAGTCCCGAAGGCATTCGAACGAGTGA-CTATATCCGGGTTAAGTCCCGAAGG
45081171 TACGTGATTT
Statistics
Matches: 145, Mismatches: 26, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
118 16 0.11
119 50 0.34
120 70 0.48
121 9 0.06
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.25
Consensus pattern (120 bp):
GGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTATATCCGGGTTAAGTCCCGAAGGCATTCGTG
CGAGATACAAATTCCAGGTTAAGCCCCGAAGGCCATTGTGTGAGATACTAAAACC
Found at i:45088581 original size:80 final size:79
Alignment explanation
Indices: 45088497--45088668 Score: 220
Period size: 79 Copynumber: 2.2 Consensus size: 79
45088487 GGACTAAGAT
*
45088497 CCGAAGGCATTTGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACT
1 CCGAAGGCATTTGTGCGAGATATCAAA-TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACT
* *
45088561 AAATCCGGGTTAAGTC
64 AAAACCGGGCTAAGTC
* * * * * * *
45088577 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
45088642 AACCGGGCTATGTC
66 AACCGGGCTAAGTC
45088656 CCGAAGGCATTTG
1 CCGAAGGCATTTG
45088669 AACGAGGAGC
Statistics
Matches: 79, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
79 38 0.48
80 38 0.48
81 3 0.04
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
AACCGGGCTAAGTC
Found at i:45088648 original size:39 final size:39
Alignment explanation
Indices: 45088444--45088666 Score: 209
Period size: 40 Copynumber: 5.6 Consensus size: 39
45088434 TTGAATGCTG
* * * * *
45088444 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTA-AGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGA-T-ACTAAA
**
45088484 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGATACTAAA
* *
45088523 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 -TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGATACTAAA
* *
45088564 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGATACTAAA
* * *
45088604 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
* * *
45088643 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
45088667 TGAACGAGGA
Statistics
Matches: 157, Mismatches: 18, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
39 40 0.25
40 103 0.66
41 13 0.08
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:45088686 original size:79 final size:80
Alignment explanation
Indices: 45088524--45088701 Score: 191
Period size: 79 Copynumber: 2.2 Consensus size: 80
45088514 AGATACAAAT
* * * *
45088524 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
45088589 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * * *
45088604 TCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
45088668 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
*
45088683 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
45088702 TACGTGATTT
Statistics
Matches: 81, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
78 15 0.19
79 48 0.59
80 18 0.22
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:45090815 original size:28 final size:28
Alignment explanation
Indices: 45090775--45090887 Score: 167
Period size: 28 Copynumber: 4.0 Consensus size: 28
45090765 CAGTATAGTT
45090775 TGGGCCTTAGCCCAATACAATAACAGTG
1 TGGGCCTTAGCCCAATACAATAACAGTG
* *
45090803 TGGGCCTTAGCCCAATATAGTAACAGTG
1 TGGGCCTTAGCCCAATACAATAACAGTG
45090831 TGGGCCTTAGCCCAATACAA-AACCAGTG
1 TGGGCCTTAGCCCAATACAATAA-CAGTG
*
45090859 TGGGCCTTATCCCAATA-AAGTAACAGTG
1 TGGGCCTTAGCCCAATACAA-TAACAGTG
45090887 T
1 T
45090888 AGTGCAATAA
Statistics
Matches: 77, Mismatches: 5, Indels: 6
0.88 0.06 0.07
Matches are distributed among these distances:
27 4 0.05
28 71 0.92
29 2 0.03
ACGTcount: A:0.31, C:0.24, G:0.22, T:0.23
Consensus pattern (28 bp):
TGGGCCTTAGCCCAATACAATAACAGTG
Found at i:45090829 original size:61 final size:59
Alignment explanation
Indices: 45090734--45090890 Score: 180
Period size: 56 Copynumber: 2.7 Consensus size: 59
45090724 CAGCATGCTG
* * * *
45090734 TAACAGTCTGGGCCTGAGCCCTAT-TCAGTGACAGTATAGTTTGGGCCTTAGCCCAATACAA
1 TAACAGTGTGGGCCTTAGCCCAATAT-AGTAACAGT-TAG-TTGGGCCTTAGCCCAATACAA
45090795 TAACAGTGTGGGCCTTAGCCCAATATAGTAACAG-T-G-TGGGCCTTAGCCCAATACAA
1 TAACAGTGTGGGCCTTAGCCCAATATAGTAACAGTTAGTTGGGCCTTAGCCCAATACAA
* *
45090851 -AACCAGTGTGGGCCTTATCCCAATAAAGTAACAGTGTAGT
1 TAA-CAGTGTGGGCCTTAGCCCAATATAGTAACAGT-TAGT
45090891 GCAATAATGC
Statistics
Matches: 84, Mismatches: 6, Indels: 13
0.82 0.06 0.13
Matches are distributed among these distances:
55 2 0.02
56 49 0.58
58 2 0.02
59 2 0.02
61 28 0.33
62 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.25
Consensus pattern (59 bp):
TAACAGTGTGGGCCTTAGCCCAATATAGTAACAGTTAGTTGGGCCTTAGCCCAATACAA
Found at i:45090858 original size:56 final size:56
Alignment explanation
Indices: 45090775--45090887 Score: 192
Period size: 56 Copynumber: 2.0 Consensus size: 56
45090765 CAGTATAGTT
*
45090775 TGGGCCTTAGCCCAATACAATAACAGTGTGGGCCTTAGCCCAATATAGTAACAGTG
1 TGGGCCTTAGCCCAATACAATAACAGTGTGGGCCTTAGCCCAATAAAGTAACAGTG
*
45090831 TGGGCCTTAGCCCAATACAA-AACCAGTGTGGGCCTTATCCCAATAAAGTAACAGTG
1 TGGGCCTTAGCCCAATACAATAA-CAGTGTGGGCCTTAGCCCAATAAAGTAACAGTG
45090887 T
1 T
45090888 AGTGCAATAA
Statistics
Matches: 54, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
55 2 0.04
56 52 0.96
ACGTcount: A:0.31, C:0.24, G:0.22, T:0.23
Consensus pattern (56 bp):
TGGGCCTTAGCCCAATACAATAACAGTGTGGGCCTTAGCCCAATAAAGTAACAGTG
Found at i:45091049 original size:26 final size:26
Alignment explanation
Indices: 45090985--45091067 Score: 96
Period size: 26 Copynumber: 3.2 Consensus size: 26
45090975 GCCAACACAC
*
45090985 CAGTATCGCAGCAAAGCTGCCGGTAAT
1 CAGTATCGCAGCAAAGCTGCCAGT-AT
* * *
45091012 -AGCATCACAGCAGAGCTGCCAGTAT
1 CAGTATCGCAGCAAAGCTGCCAGTAT
* *
45091037 CAGTATCGTAGCAAAGCTGCCAGTAA
1 CAGTATCGCAGCAAAGCTGCCAGTAT
45091063 CAGTA
1 CAGTA
45091068 CATGTGGCAA
Statistics
Matches: 46, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
25 2 0.04
26 44 0.96
ACGTcount: A:0.33, C:0.25, G:0.24, T:0.18
Consensus pattern (26 bp):
CAGTATCGCAGCAAAGCTGCCAGTAT
Found at i:45091509 original size:81 final size:81
Alignment explanation
Indices: 45091303--45091575 Score: 410
Period size: 81 Copynumber: 3.4 Consensus size: 81
45091293 AGTATAACAG
45091303 TCATTTTACCCTAT-GCGGGTATTTCGGTCATTTTACTCTATAGGGGTATTTCGGTCATTTTACC
1 TCATTTTACCCTATAG-GGGTATTTCGGTCATTTTACTCTATAGGGGTATTTCGGTCATTTTACC
*
45091367 CTAT-GGGGTATTTCAG
65 CTATCGGGGTATTTCAA
* * *
45091383 TCATTTTACCTTATGGGGGTATTTCGGTCATTTTACTCTATAGGGGTATTTTGGTCATTTTACCC
1 TCATTTTACCCTATAGGGGTATTTCGGTCATTTTACTCTATAGGGGTATTTCGGTCATTTTACCC
45091448 TATCGGGGTATTTCAA
66 TATCGGGGTATTTCAA
* * *
45091464 TCATTTTACCCTATAGTGGTATTTCGGTCATTTTAC-CTTACAGGGGTATTTCGATCATTTTACC
1 TCATTTTACCCTATAGGGGTATTTCGGTCATTTTACTC-TATAGGGGTATTTCGGTCATTTTACC
45091528 CTA-CGGGGGTATTTCAA
65 CTATC-GGGGTATTTCAA
* *
45091545 TCATTTTACCCTATAGGAGTATTTTGGTCAT
1 TCATTTTACCCTATAGGGGTATTTCGGTCAT
45091576 AACACTATAA
Statistics
Matches: 177, Mismatches: 12, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
80 66 0.37
81 111 0.63
ACGTcount: A:0.19, C:0.18, G:0.20, T:0.43
Consensus pattern (81 bp):
TCATTTTACCCTATAGGGGTATTTCGGTCATTTTACTCTATAGGGGTATTTCGGTCATTTTACCC
TATCGGGGTATTTCAA
Found at i:45091575 original size:27 final size:27
Alignment explanation
Indices: 45091302--45091575 Score: 354
Period size: 27 Copynumber: 10.2 Consensus size: 27
45091292 GAGTATAACA
45091302 GTCATTTTACCCTAT-GCGGGTATTTCG
1 GTCATTTTACCCTATAG-GGGTATTTCG
*
45091329 GTCATTTTACTCTATAGGGGTATTTCG
1 GTCATTTTACCCTATAGGGGTATTTCG
*
45091356 GTCATTTTACCCTAT-GGGGTATTTCA
1 GTCATTTTACCCTATAGGGGTATTTCG
* *
45091382 GTCATTTTACCTTATGGGGGTATTTCG
1 GTCATTTTACCCTATAGGGGTATTTCG
* *
45091409 GTCATTTTACTCTATAGGGGTATTTTG
1 GTCATTTTACCCTATAGGGGTATTTCG
* *
45091436 GTCATTTTACCCTATCGGGGTATTTCA
1 GTCATTTTACCCTATAGGGGTATTTCG
* *
45091463 ATCATTTTACCCTATAGTGGTATTTCG
1 GTCATTTTACCCTATAGGGGTATTTCG
* *
45091490 GTCATTTTACCTTACAGGGGTATTTCG
1 GTCATTTTACCCTATAGGGGTATTTCG
* ** *
45091517 ATCATTTTACCCTACGGGGGTATTTCA
1 GTCATTTTACCCTATAGGGGTATTTCG
* * *
45091544 ATCATTTTACCCTATAGGAGTATTTTG
1 GTCATTTTACCCTATAGGGGTATTTCG
45091571 GTCAT
1 GTCAT
45091576 AACACTATAA
Statistics
Matches: 214, Mismatches: 31, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
26 24 0.11
27 189 0.88
28 1 0.00
ACGTcount: A:0.19, C:0.18, G:0.20, T:0.43
Consensus pattern (27 bp):
GTCATTTTACCCTATAGGGGTATTTCG
Found at i:45091764 original size:19 final size:20
Alignment explanation
Indices: 45091742--45091783 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
45091732 AGCCCATTGA
45091742 GCCCA-CACGGCCCAACATG
1 GCCCATCACGGCCCAACATG
* *
45091761 GCCCATTACGGCCTAACATG
1 GCCCATCACGGCCCAACATG
45091781 GCC
1 GCC
45091784 ACTTACGTCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.24, C:0.43, G:0.21, T:0.12
Consensus pattern (20 bp):
GCCCATCACGGCCCAACATG
Found at i:45097337 original size:15 final size:16
Alignment explanation
Indices: 45097308--45097337 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
45097298 CAAACATGCT
45097308 TTAACACATTATCAAA
1 TTAACACATTATCAAA
45097324 TTAACACA-TATCAA
1 TTAACACATTATCAA
45097338 CAACGCACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAACACATTATCAAA
Found at i:45102996 original size:36 final size:36
Alignment explanation
Indices: 45102927--45102996 Score: 99
Period size: 36 Copynumber: 1.9 Consensus size: 36
45102917 AGAAAAGTAA
*
45102927 TTTTTACATATATTAATAAATTTATATTTTAAATTT
1 TTTTTACATATATTAATAAATTTATATTATAAATTT
45102963 TTTTTACATATATTACA-ATAATTTAT-TTATAAAT
1 TTTTTACATATATTA-ATA-AATTTATATTATAAAT
45102997 AAATAAATCA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
36 23 0.74
37 8 0.26
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (36 bp):
TTTTTACATATATTAATAAATTTATATTATAAATTT
Found at i:45108738 original size:48 final size:48
Alignment explanation
Indices: 45108670--45108769 Score: 182
Period size: 48 Copynumber: 2.1 Consensus size: 48
45108660 GAAACTACTT
*
45108670 CAAACAGACTTGGTGTGTAACACCTCTTACCTGTATTCATCATCGAAA
1 CAAACAGACTTGGTGTGTAACACCTCTTACCCGTATTCATCATCGAAA
*
45108718 CAAACAGACTTGGTGTGTAACACCTTTTACCCGTATTCATCATCGAAA
1 CAAACAGACTTGGTGTGTAACACCTCTTACCCGTATTCATCATCGAAA
45108766 CAAA
1 CAAA
45108770 GTAAGAAGTG
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 50 1.00
ACGTcount: A:0.33, C:0.25, G:0.14, T:0.28
Consensus pattern (48 bp):
CAAACAGACTTGGTGTGTAACACCTCTTACCCGTATTCATCATCGAAA
Found at i:45110227 original size:51 final size:50
Alignment explanation
Indices: 45110054--45110397 Score: 356
Period size: 51 Copynumber: 6.8 Consensus size: 50
45110044 ACTTTTATCA
* *
45110054 TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAG-TT
1 TTCGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGCTT
* *
45110103 TTACGGTTCACGTAGTAGCCTTCACATAGT-CTACACACGTGATCAAG-TT
1 TT-CGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGCTT
* *
45110152 TTACGGTTCACGTAGTACCCTTCACATAGTACTACACACGTGACCAAAGCTT
1 TT-CGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACC-AAGCTT
* * * *
45110204 TTCGGTACACATAGTAGCCTTCACTTAGTACTACACATGTGACC-ATCATT
1 TTCGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGC-TT
* * * *
45110254 TATCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACGAAAGCTT
1 T-TCGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGAC-CAAGCTT
* * * * * * *
45110306 CTCGGTACACATTGTAGCCTTCACTTAGTACTACACATGTGA-CTATCATT
1 TTCGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGC-TT
* ** *
45110356 GATCAATACACGTAGTAGCCTTCACACAGTACTACACACGTG
1 -TTCGGTACACGTAGTAGCCTTCACATAGTACTACACACGTG
45110398 TTCATCAATA
Statistics
Matches: 248, Mismatches: 37, Indels: 18
0.82 0.12 0.06
Matches are distributed among these distances:
49 54 0.22
50 43 0.17
51 143 0.58
52 6 0.02
53 2 0.01
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.28
Consensus pattern (50 bp):
TTCGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGCTT
Found at i:45110286 original size:102 final size:102
Alignment explanation
Indices: 45110055--45110397 Score: 460
Period size: 102 Copynumber: 3.4 Consensus size: 102
45110045 CTTTTATCAT
* * * *
45110055 TCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGATC-AAG-TTTTACGGTTCACGTAG
1 TCGATACACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTTT-CGGTACACATAG
* * * ***
45110118 TAGCCTTCACATAGT-CTACACACGTGATCAAGTTTTA
65 TAGCCTTCACTTAGTACTACACATGTGACCATCATTTA
* * * *
45110155 -CGGTTCACGTAGTACCCTTCACATAGTACTACACACGTGACCAAAGCTTTTCGGTACACATAGT
1 TCGATACACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTTTCGGTACACATAGT
45110219 AGCCTTCACTTAGTACTACACATGTGACCATCATTTA
66 AGCCTTCACTTAGTACTACACATGTGACCATCATTTA
* * * *
45110256 TCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACGAAAGCTTCTCGGTACACATTGT
1 TCGATACACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTTTCGGTACACATAGT
* *
45110321 AGCCTTCACTTAGTACTACACATGTGACTATCATTGA
66 AGCCTTCACTTAGTACTACACATGTGACCATCATTTA
*
45110358 TCAATACACGTAGTAGCCTTCACACAGTACTACACACGTG
1 TCGATACACGTAGTAGCCTTCACACAGTACTACACACGTG
45110398 TTCATCAATA
Statistics
Matches: 217, Mismatches: 22, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
99 38 0.18
100 27 0.12
101 21 0.10
102 131 0.60
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.28
Consensus pattern (102 bp):
TCGATACACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTTTCGGTACACATAGT
AGCCTTCACTTAGTACTACACATGTGACCATCATTTA
Found at i:45110404 original size:153 final size:149
Alignment explanation
Indices: 45110058--45110404 Score: 394
Period size: 153 Copynumber: 2.3 Consensus size: 149
45110048 TTATCATTCG
*** *
45110058 ATACACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACGGTTCACGTAGTAGCC
1 ATACACGTAGTAGCCTTCACATAGTACTACACACGTGATCATCATTTACGATTCACGTAGTAGCC
* * * *
45110123 TTCACATAGTCTACACACGTGATCAAGTTTTACGGTTCACGTAGTACCCTTCACATAGTACTACA
66 TTCACACAGTCTACACACGTGATCAAGTTCTACGGTACACATAGTACCCTTCACATAGTACTACA
* *
45110188 CACGTGACCAAAGCTTTTCG
131 CACGTGACCAAA-CTTATCA
* * * * *
45110208 GTACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCGATTCACGTAGTAGC
1 ATACACGTAGTAGCCTTCACATAGTACTACACACGTGATCATCATTTA-CGATTCACGTAGTAGC
* * *
45110273 CTTCACACAGTACTACACACGTGA-CGAAAGCTTCT-CGGTACACATTGTAGCCTTCACTTAGTA
65 CTTCACACAGT-CTACACACGTGATC--AAG-TTCTACGGTACACATAGTACCCTTCACATAGTA
* * *
45110336 CTACACATGTGA-CTATCATTGATCA
126 CTACACACGTGACCAAAC-TT-ATCA
* *
45110361 ATACACGTAGTAGCCTTCACACAGTACTACACACGTGTTCATCA
1 ATACACGTAGTAGCCTTCACATAGTACTACACACGTGATCATCA
45110405 ATACCTTATT
Statistics
Matches: 162, Mismatches: 28, Indels: 11
0.81 0.14 0.05
Matches are distributed among these distances:
150 40 0.25
151 27 0.17
152 16 0.10
153 76 0.47
154 3 0.02
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.29
Consensus pattern (149 bp):
ATACACGTAGTAGCCTTCACATAGTACTACACACGTGATCATCATTTACGATTCACGTAGTAGCC
TTCACACAGTCTACACACGTGATCAAGTTCTACGGTACACATAGTACCCTTCACATAGTACTACA
CACGTGACCAAACTTATCA
Found at i:45115446 original size:98 final size:100
Alignment explanation
Indices: 45115314--45115507 Score: 340
Period size: 98 Copynumber: 2.0 Consensus size: 100
45115304 AAAAAACAAA
45115314 CAAATTAACAATCAGATTGCGAAATCAATCGGAATTAGATCTAGGGATTTGGGAC-GACAAG-AA
1 CAAATTAACAATCAGATTGCGAAATCAATCGGAATTAGATCTAGGGATTTGGGACAGA-AAGAAA
*
45115377 AGAGGGATTTTGTGAATCAAAACGTTT-TTGTGAAT
65 AGAGCGATTTTGTGAATCAAAACGTTTCTTGTGAAT
*
45115412 CAAATTAACAATCAGATTGCGAAATCAATTGGAATTAGATCTAGGGATTTGGGACAGAAAGAAAA
1 CAAATTAACAATCAGATTGCGAAATCAATCGGAATTAGATCTAGGGATTTGGGACAGAAAGAAAA
45115477 GAGCGATTTTGTGAATCAAAACGTTTCTTGT
66 GAGCGATTTTGTGAATCAAAACGTTTCTTGT
45115508 TGGCCAAGGA
Statistics
Matches: 91, Mismatches: 2, Indels: 4
0.94 0.02 0.04
Matches are distributed among these distances:
98 57 0.63
99 30 0.33
100 4 0.04
ACGTcount: A:0.38, C:0.11, G:0.23, T:0.28
Consensus pattern (100 bp):
CAAATTAACAATCAGATTGCGAAATCAATCGGAATTAGATCTAGGGATTTGGGACAGAAAGAAAA
GAGCGATTTTGTGAATCAAAACGTTTCTTGTGAAT
Found at i:45131372 original size:33 final size:33
Alignment explanation
Indices: 45131334--45131396 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
45131324 GATTACTCAC
45131334 TTCACTCG-TTTCTTTT-ACAGACTCTCTTTCTTT
1 TTCACTCGATTTCTTTTCA-AG-CTCTCTTTCTTT
*
45131367 TTCACTTGATTTCTTTTCAAGCTCTCTTTC
1 TTCACTCGATTTCTTTTCAAGCTCTCTTTC
45131397 AATTTTTTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
33 16 0.59
34 10 0.37
35 1 0.04
ACGTcount: A:0.13, C:0.27, G:0.06, T:0.54
Consensus pattern (33 bp):
TTCACTCGATTTCTTTTCAAGCTCTCTTTCTTT
Found at i:45131429 original size:13 final size:12
Alignment explanation
Indices: 45131413--45131532 Score: 63
Period size: 12 Copynumber: 10.0 Consensus size: 12
45131403 TTTATTCGCT
45131413 TTTTCTTTTTCAA
1 TTTTCTTTTTC-A
45131426 TTTTCTTTTCTTCA
1 TTTTC-TTT-TTCA
45131440 TTTTCTTTTTC-
1 TTTTCTTTTTCA
**
45131451 TCTCACTTTTTCGA
1 T-TTTCTTTTTC-A
45131465 -TTTCTTTTTC-
1 TTTTCTTTTTCA
** *
45131475 TTTTGCAATTTCT
1 TTTT-CTTTTTCA
* *
45131488 TTTTCTTCTTCG
1 TTTTCTTTTTCA
*
45131500 TTTTCTTTTT-G
1 TTTTCTTTTTCA
45131511 TTTTC--TTTCA
1 TTTTCTTTTTCA
*
45131521 ATTTCTTTTTCA
1 TTTTCTTTTTCA
45131533 ATCTCTTTCT
Statistics
Matches: 83, Mismatches: 13, Indels: 23
0.70 0.11 0.19
Matches are distributed among these distances:
9 3 0.04
10 4 0.05
11 10 0.12
12 42 0.51
13 12 0.14
14 9 0.11
15 3 0.04
ACGTcount: A:0.08, C:0.19, G:0.03, T:0.69
Consensus pattern (12 bp):
TTTTCTTTTTCA
Found at i:45131442 original size:14 final size:14
Alignment explanation
Indices: 45131413--45131449 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
45131403 TTTATTCGCT
45131413 TTTTC-TTTTTCAA
1 TTTTCTTTTTTCAA
45131426 TTTTCTTTTCTTC-A
1 TTTTCTTTT-TTCAA
45131440 TTTTCTTTTT
1 TTTTCTTTTT
45131450 CTCTCACTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 6 0.27
14 13 0.59
15 3 0.14
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (14 bp):
TTTTCTTTTTTCAA
Found at i:45131477 original size:18 final size:18
Alignment explanation
Indices: 45131456--45131514 Score: 73
Period size: 18 Copynumber: 3.3 Consensus size: 18
45131446 TTTTCTCTCA
45131456 CTTTTTCGATTTCTTTTT
1 CTTTTTCGATTTCTTTTT
* *
45131474 CTTTTGCAATTTCTTTTT
1 CTTTTTCGATTTCTTTTT
* *
45131492 CTTCTTCGTTTTCTTTTT
1 CTTTTTCGATTTCTTTTT
*
45131510 GTTTT
1 CTTTT
45131515 CTTTCAATTT
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.05, C:0.17, G:0.07, T:0.71
Consensus pattern (18 bp):
CTTTTTCGATTTCTTTTT
Found at i:45131531 original size:6 final size:6
Alignment explanation
Indices: 45131411--45131518 Score: 65
Period size: 6 Copynumber: 17.7 Consensus size: 6
45131401 TTTTTATTCG
* * * **
45131411 CTTTTT CTTTTT CAATTTT CTTTTCTT CATTTT CTTTTT CTCTCA CTTTTT
1 CTTTTT CTTTTT C-TTTTT C-TTT-TT CTTTTT CTTTTT CTTTTT CTTTTT
** * ** * *
45131462 CGATTT CTTTTT CTTTTG CAATTT CTTTTT CTTCTT CGTTTT CTTTTT
1 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT
*
45131510 -GTTTT CTTT
1 CTTTTT CTTT
45131519 CAATTTCTTT
Statistics
Matches: 72, Mismatches: 27, Indels: 6
0.69 0.26 0.06
Matches are distributed among these distances:
5 4 0.06
6 56 0.78
7 9 0.12
8 3 0.04
ACGTcount: A:0.06, C:0.19, G:0.04, T:0.70
Consensus pattern (6 bp):
CTTTTT
Found at i:45132647 original size:19 final size:18
Alignment explanation
Indices: 45132623--45132667 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 18
45132613 TTTTTTTGAA
45132623 TTTTTTTTTCAATCAAAAT
1 TTTTTTTTTCAATC-AAAT
45132642 TTTTTTTTTCAATCAAAT
1 TTTTTTTTTCAATCAAAT
45132660 TTTTTTTT
1 TTTTTTTT
45132668 GATTTTTTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 12 0.46
19 14 0.54
ACGTcount: A:0.24, C:0.09, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTTTTTTTCAATCAAAT
Found at i:45135160 original size:30 final size:30
Alignment explanation
Indices: 45135126--45135222 Score: 115
Period size: 30 Copynumber: 3.2 Consensus size: 30
45135116 TAAACTAAAA
*
45135126 TGAGCTAAGTTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
* * * * * *
45135156 TGAGCTGAGGCTAAACTCCTAAGCTAAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
45135186 TGAGCTAAGGTTTAGCTCGTGAGCTAAA-T
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
45135215 ATGAGCTA
1 -TGAGCTA
45135223 GGAGTGAGCT
Statistics
Matches: 53, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
29 1 0.02
30 52 0.98
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (30 bp):
TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
Found at i:45137498 original size:6 final size:6
Alignment explanation
Indices: 45137482--45137531 Score: 50
Period size: 6 Copynumber: 8.2 Consensus size: 6
45137472 TTTCTTTTTA
*
45137482 TTTCAT TTTCTT TTTCTT CTCTTGCTT TTTCTT TTTC-T TTTC-T TTTCTT
1 TTTCTT TTTCTT TTTCTT -T-TT-CTT TTTCTT TTTCTT TTTCTT TTTCTT
45137531 T
1 T
45137532 GATTTTTTTT
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
5 10 0.26
6 20 0.51
7 3 0.08
8 3 0.08
9 3 0.08
ACGTcount: A:0.02, C:0.20, G:0.02, T:0.76
Consensus pattern (6 bp):
TTTCTT
Done.