Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr4
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: 37360634
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 908041 characters in sequence are not A, C, G, or T
File 41 of 115
Found at i:13239594 original size:6 final size:6
Alignment explanation
Indices: 13239583--13239608 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
13239573 GAATTATATT
13239583 CATTTC CATTTC CATTTC CATTTC CA
1 CATTTC CATTTC CATTTC CATTTC CA
13239609 ATTTTTGGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.19, C:0.35, G:0.00, T:0.46
Consensus pattern (6 bp):
CATTTC
Found at i:13245899 original size:23 final size:22
Alignment explanation
Indices: 13245873--13245941 Score: 97
Period size: 23 Copynumber: 3.1 Consensus size: 22
13245863 GTTTTTAATT
13245873 AAGAATGGTTCATAATAACTCA
1 AAGAATGGTTCATAATAACTCA
13245895 GAAGAATGGTTCATAATAACT-A
1 -AAGAATGGTTCATAATAACTCA
13245917 AATTGAA-GGTTCATAATAACTCA
1 AA--GAATGGTTCATAATAACTCA
13245940 AA
1 AA
13245942 AGAGCTCTAT
Statistics
Matches: 43, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
21 2 0.05
22 15 0.35
23 26 0.60
ACGTcount: A:0.46, C:0.12, G:0.14, T:0.28
Consensus pattern (22 bp):
AAGAATGGTTCATAATAACTCA
Found at i:13250796 original size:2 final size:2
Alignment explanation
Indices: 13250789--13250819 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
13250779 TGTGCTTAAA
13250789 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
13250820 AATTTCTATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:13252204 original size:25 final size:23
Alignment explanation
Indices: 13252162--13252222 Score: 63
Period size: 25 Copynumber: 2.6 Consensus size: 23
13252152 CTTCATTTCC
*
13252162 TTTCATCATTCACTAA-CCTCTCAT
1 TTTCCTCATTCA-TAACCCT-TCAT
13252186 TTTCTCTCATTCATAAACCCTTCAT
1 TTTC-CTCATTCAT-AACCCTTCAT
13252211 TTTCC-CATTCAT
1 TTTCCTCATTCAT
13252223 TTAGTTAGCA
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
23 7 0.21
24 6 0.18
25 17 0.52
26 3 0.09
ACGTcount: A:0.23, C:0.33, G:0.00, T:0.44
Consensus pattern (23 bp):
TTTCCTCATTCATAACCCTTCAT
Found at i:13258727 original size:20 final size:20
Alignment explanation
Indices: 13258702--13258742 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
13258692 AGCCCATGTA
*
13258702 TTTCATAAAATTTAGAATTT
1 TTTCATAAAATTTAAAATTT
*
13258722 TTTCATGAAATTTAAAATTT
1 TTTCATAAAATTTAAAATTT
13258742 T
1 T
13258743 ACAATTTAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.39, C:0.05, G:0.05, T:0.51
Consensus pattern (20 bp):
TTTCATAAAATTTAAAATTT
Found at i:13264388 original size:21 final size:21
Alignment explanation
Indices: 13264349--13264388 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
13264339 TCTTCTTGGG
*
13264349 TCTAGTCCAATGTACTGTCGA
1 TCTAGTCCAATATACTGTCGA
*
13264370 TCTAGTCCAATATATTGTC
1 TCTAGTCCAATATACTGTC
13264389 AGTCCAGTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.23, G:0.15, T:0.38
Consensus pattern (21 bp):
TCTAGTCCAATATACTGTCGA
Found at i:13267613 original size:21 final size:21
Alignment explanation
Indices: 13267589--13267628 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
13267579 TATAGTTTAC
13267589 TAAATAAATGTTGAAAGTTGT
1 TAAATAAATGTTGAAAGTTGT
* *
13267610 TAAATAAATTTTTAAAGTT
1 TAAATAAATGTTGAAAGTT
13267629 ATATATTTGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.45, C:0.00, G:0.12, T:0.42
Consensus pattern (21 bp):
TAAATAAATGTTGAAAGTTGT
Found at i:13273446 original size:16 final size:17
Alignment explanation
Indices: 13273422--13273454 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
13273412 GAGGAAGAAG
13273422 AAAGAAAAAAT-ATATA
1 AAAGAAAAAATAATATA
*
13273438 AAAGCAAAAATAATATA
1 AAAGAAAAAATAATATA
13273455 TATATAACCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.73, C:0.03, G:0.06, T:0.18
Consensus pattern (17 bp):
AAAGAAAAAATAATATA
Found at i:13273457 original size:21 final size:22
Alignment explanation
Indices: 13273431--13273475 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
13273421 GAAAGAAAAA
*
13273431 ATATATAAAAGC-AAAAATAAT
1 ATATATAAAACCAAAAAATAAT
*
13273452 ATATATATAACCAAAAAATAAT
1 ATATATAAAACCAAAAAATAAT
13273474 AT
1 AT
13273476 TGTCCTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 10 0.48
22 11 0.52
ACGTcount: A:0.64, C:0.07, G:0.02, T:0.27
Consensus pattern (22 bp):
ATATATAAAACCAAAAAATAAT
Found at i:13274987 original size:252 final size:252
Alignment explanation
Indices: 13274542--13275023 Score: 666
Period size: 252 Copynumber: 1.9 Consensus size: 252
13274532 GAACCATACC
* * * * *
13274542 ATAGTTCCACCAACCTACCGATTCAATTTCATATCAATTCATGCATTCACATTCCATATACTCAT
1 ATAGTTCCACAAACCTACCGATTCAATCTCATACCAAGTCATGCATTCACATTCCATATACTAAT
* * *
13274607 CAATAGGACATTGAAGCAATTTCATAAATCGATTTATTTTCGTTACAACCAAACGACTATACGGC
66 CAATAGGACATTGAAGCAATTTCATAAATCGATTTATTTTCGTTACAACCAAACAACTAAACGAC
* *
13274672 CTTTCACCCATCCTACGATAAATTTTTATGTACGTGACTTCAAGTATAGTTGTCACATAGGTTC-
131 CTTTCACCCATCCTACGATAAATTCTTATGTACGTGACTTCAAGTATAATTGTCACATAGGTTCA
* * *
13274736 AACTTACCGAGCTCAACACCAAGTATAAGCATAGCACATAATAGCCATGTACTCAAA
196 AACTTACCAAGCTCAACACCAAATATAAACATAGCACATAATAGCCATGTACTCAAA
* * *
13274793 NATAGTTCCTCAAACCTATCGGTTCAATCTCATACCAAGTCATGCATTCACATTCCATATACTAA
1 -ATAGTTCCACAAACCTACCGATTCAATCTCATACCAAGTCATGCATTCACATTCCATATACTAA
* * * * * *
13274858 TCAATAGGATATTCGAGGCATTTTCATACATC-ATTTTATTTTCGTTACAATCATACAACTAAAC
65 TCAATAGGACATT-GAAGCAATTTCATAAATCGA-TTTATTTTCGTTACAACCAAACAACTAAAC
* *
13274922 GACCTTTCACCTATTCC-ACGATAAA-TCTTATGTACGTGACTTCAATTATAATTGTCACATAGG
128 GACCTTTCACCCA-TCCTACGATAAATTCTTATGTACGTGACTTCAAGTATAATTGTCACATAGG
**
13274985 TTCAAACTTACCAAGCTCAACTTCAAATATAAACATAGC
192 TTCAAACTTACCAAGCTCAACACCAAATATAAACATAGC
13275024 GCCTATTAGT
Statistics
Matches: 200, Mismatches: 26, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
252 107 0.54
253 90 0.45
254 3 0.01
ACGTcount: A:0.34, C:0.24, G:0.10, T:0.32
Consensus pattern (252 bp):
ATAGTTCCACAAACCTACCGATTCAATCTCATACCAAGTCATGCATTCACATTCCATATACTAAT
CAATAGGACATTGAAGCAATTTCATAAATCGATTTATTTTCGTTACAACCAAACAACTAAACGAC
CTTTCACCCATCCTACGATAAATTCTTATGTACGTGACTTCAAGTATAATTGTCACATAGGTTCA
AACTTACCAAGCTCAACACCAAATATAAACATAGCACATAATAGCCATGTACTCAAA
Found at i:13275148 original size:27 final size:27
Alignment explanation
Indices: 13275131--13275254 Score: 122
Period size: 27 Copynumber: 4.6 Consensus size: 27
13275121 ATATTAAGTC
13275131 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* ** *
13275158 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTCAGTGCTATATAATCAACT
* * *
13275185 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
* * * * *
13275213 CGTACACTTAGTGCTACATATTCAATT
1 CGCACACTCAGTGCTATATAATCAACT
*
13275240 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
13275255 GCACAATTTA
Statistics
Matches: 85, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
27 61 0.72
28 24 0.28
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.28
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:13275224 original size:55 final size:54
Alignment explanation
Indices: 13275131--13275254 Score: 176
Period size: 55 Copynumber: 2.3 Consensus size: 54
13275121 ATATTAAGTC
* * *
13275131 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAAT
* * * *
13275185 CGCACACTTAGTGCTACATAGTCAAACTCGTACACTTAGTGCTACATATTCAATT
1 CGCACACTTAGTGCTACATAATC-AACTCGCACACTTAGTGCTACATAATCAAAT
13275240 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
13275255 GCACAATTTA
Statistics
Matches: 62, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
54 20 0.32
55 42 0.68
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.28
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAAT
Found at i:13287311 original size:18 final size:17
Alignment explanation
Indices: 13287284--13287317 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
13287274 ACGAATAATT
13287284 AATAAATACAAATAAGC
1 AATAAATACAAATAAGC
*
13287301 AATACAATACACATAAG
1 AATA-AATACAAATAAG
13287318 AGCAATAATC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.62, C:0.15, G:0.06, T:0.18
Consensus pattern (17 bp):
AATAAATACAAATAAGC
Found at i:13290434 original size:23 final size:23
Alignment explanation
Indices: 13290387--13290437 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
13290377 ACCTACTTTC
* *
13290387 TTACTGTAGTAATTTTTGAGGTA
1 TTACAGTAGTAATTTTCGAGGTA
13290410 TTACAGTAGTAATTTTCG-GGATA
1 TTACAGTAGTAATTTTCGAGG-TA
13290433 TTACA
1 TTACA
13290438 TGATATATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 2 0.08
23 23 0.92
ACGTcount: A:0.29, C:0.08, G:0.20, T:0.43
Consensus pattern (23 bp):
TTACAGTAGTAATTTTCGAGGTA
Found at i:13290461 original size:3 final size:3
Alignment explanation
Indices: 13290453--13290519 Score: 89
Period size: 3 Copynumber: 22.3 Consensus size: 3
13290443 TATAAAAAAT
* * * * *
13290453 ATA ATA ATA ATA CTA ACA ATA ATA ATA ATG ATA ATA ATG ATA ATG ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
13290501 ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA A
13290520 ATTAATATTA
Statistics
Matches: 54, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.61, C:0.03, G:0.04, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:13292054 original size:50 final size:51
Alignment explanation
Indices: 13291997--13292714 Score: 674
Period size: 50 Copynumber: 14.4 Consensus size: 51
13291987 GCAATGCTAG
* * *
13291997 GGAAGTAAGATTCGCTATTGTAGCTTTAATCTGTTCCACTGTAACGCCGGA
1 GGAAGTAAGATTCGCTGTTGTAGCTTTAATCTGTTTCACTGCAACGCCGGA
* * * * **
13292048 GG-AGTAAGATTCGTTGTCGTAGCTTTAATCTGTTTCACTACAATGCTAG-
1 GGAAGTAAGATTCGCTGTTGTAGCTTTAATCTGTTTCACTGCAACGCCGGA
* ** * **
13292097 GGAAATAAGATTCGCTGTTGTAGCTTTAATAAGTTTCACTGTAACGCTAGA
1 GGAAGTAAGATTCGCTGTTGTAGCTTTAATCTGTTTCACTGCAACGCCGGA
*
13292148 -GAAGTAAGATTCGCTGTTGTAGCTTTAATCTGTTTCACTGCAACACCGG-
1 GGAAGTAAGATTCGCTGTTGTAGCTTTAATCTGTTTCACTGCAACGCCGGA
* * * ** *
13292197 GGAAGTAAGATTTGCTGTTGTATCTTTAATCTATTTTGCCGCAACGCC-GA
1 GGAAGTAAGATTCGCTGTTGTAGCTTTAATCTGTTTCACTGCAACGCCGGA
* * * *
13292247 GGAAGTAAGATTCGTTGTTGTAGCTTTAATCTGTTTAACTGCAATGTCGG-
1 GGAAGTAAGATTCGCTGTTGTAGCTTTAATCTGTTTCACTGCAACGCCGGA
* * * *
13292297 GGAAGTAAGATTCGCTATTGTAGCTTTAATTTGTTCCACTGCACCGCC-GA
1 GGAAGTAAGATTCGCTGTTGTAGCTTTAATCTGTTTCACTGCAACGCCGGA
* * * * *
13292347 GGAAGTAAGATTTGCTGTTGTAGCTTCAATCTGTTTAACTGCAATGTCGG-
1 GGAAGTAAGATTCGCTGTTGTAGCTTTAATCTGTTTCACTGCAACGCCGGA
* ** * * *
13292397 GGAAGTAAGATTCGCCGTCATAGCTTTAATCTGTTCCACTGCATCGCC-AA
1 GGAAGTAAGATTCGCTGTTGTAGCTTTAATCTGTTTCACTGCAACGCCGGA
* * * * * * *
13292447 GGAAATAAGATTTGCTGTTGTAGCTTTAATCTGTTTAAGTGCAATGTC-AA
1 GGAAGTAAGATTCGCTGTTGTAGCTTTAATCTGTTTCACTGCAACGCCGGA
* * * * * * *
13292497 GGAACTAAGATTTGCCGTCGTAGCTTTAATCTGTTCCACTGCACCGCCAGA
1 GGAAGTAAGATTCGCTGTTGTAGCTTTAATCTGTTTCACTGCAACGCCGGA
* * * * * *
13292548 -GAAATAAGATTCTCTGTTGTAGCTTTAATCTGTTTAACTACAATGTCGG-
1 GGAAGTAAGATTCGCTGTTGTAGCTTTAATCTGTTTCACTGCAACGCCGGA
* * * * *
13292597 GGAAGTAAGATTCGTTGTTGGAGCTTTAATCTGTTCCACTAG-AACACCAG-
1 GGAAGTAAGATTCGCTGTTGTAGCTTTAATCTGTTTCACT-GCAACGCCGGA
* * * * *
13292647 GGAAGTAAGATTCGCTGTTGTAGCTTTAATATATTTAACTGCAATGTCGG-
1 GGAAGTAAGATTCGCTGTTGTAGCTTTAATCTGTTTCACTGCAACGCCGGA
*
13292697 GGAAGTAAGATTTGCTGT
1 GGAAGTAAGATTCGCTGT
13292715 GATGACTTCA
Statistics
Matches: 532, Mismatches: 123, Indels: 25
0.78 0.18 0.04
Matches are distributed among these distances:
49 5 0.01
50 522 0.98
51 5 0.01
ACGTcount: A:0.26, C:0.17, G:0.23, T:0.34
Consensus pattern (51 bp):
GGAAGTAAGATTCGCTGTTGTAGCTTTAATCTGTTTCACTGCAACGCCGGA
Found at i:13292111 original size:100 final size:99
Alignment explanation
Indices: 13291996--13292714 Score: 823
Period size: 100 Copynumber: 7.2 Consensus size: 99
13291986 TGCAATGCTA
* *
13291996 GGGAAGTAAGATTCGCTATTGTAGCTTTAATCTGTTCCACTGTAACGCCGGAGGAGTAAGATTCG
1 GGGAAGTAAGATTCGCTGTTGTAGCTTTAATCTGTTCCACTGCAACGCC-GAGGAGTAAGATTCG
* * * * *
13292061 TTGTCGTAGCTTTAATCTGTTTCACTACAATG-CTA
65 CTGTTGTAGCTTTAATCTGTTTAACTGCAATGTC-G
* ** * * * *
13292096 GGGAAATAAGATTCGCTGTTGTAGCTTTAATAAGTTTCACTGTAACGCTAGAGAAGTAAGATTCG
1 GGGAAGTAAGATTCGCTGTTGTAGCTTTAATCTGTTCCACTGCAACGC-CGAGGAGTAAGATTCG
* ***
13292161 CTGTTGTAGCTTTAATCTGTTTCACTGCAACACCG
65 CTGTTGTAGCTTTAATCTGTTTAACTGCAATGTCG
* * * *** *
13292196 GGGAAGTAAGATTTGCTGTTGTATCTTTAATCTATTTTGCCGCAACGCCGAGGAAGTAAGATTCG
1 GGGAAGTAAGATTCGCTGTTGTAGCTTTAATCTGTTCCACTGCAACGCCGAGG-AGTAAGATTCG
*
13292261 TTGTTGTAGCTTTAATCTGTTTAACTGCAATGTCG
65 CTGTTGTAGCTTTAATCTGTTTAACTGCAATGTCG
* * * *
13292296 GGGAAGTAAGATTCGCTATTGTAGCTTTAATTTGTTCCACTGCACCGCCGAGGAAGTAAGATTTG
1 GGGAAGTAAGATTCGCTGTTGTAGCTTTAATCTGTTCCACTGCAACGCCGAGG-AGTAAGATTCG
*
13292361 CTGTTGTAGCTTCAATCTGTTTAACTGCAATGTCG
65 CTGTTGTAGCTTTAATCTGTTTAACTGCAATGTCG
* ** * * * *
13292396 GGGAAGTAAGATTCGCCGTCATAGCTTTAATCTGTTCCACTGCATCGCCAAGGAAATAAGATTTG
1 GGGAAGTAAGATTCGCTGTTGTAGCTTTAATCTGTTCCACTGCAACGCCGAGG-AGTAAGATTCG
* *
13292461 CTGTTGTAGCTTTAATCTGTTTAAGTGCAATGTCA
65 CTGTTGTAGCTTTAATCTGTTTAACTGCAATGTCG
* * * * * * * * *
13292496 AGGAACTAAGATTTGCCGTCGTAGCTTTAATCTGTTCCACTGCACCGCCAGAGAAATAAGATTCT
1 GGGAAGTAAGATTCGCTGTTGTAGCTTTAATCTGTTCCACTGCAACGCC-GAGGAGTAAGATTCG
*
13292561 CTGTTGTAGCTTTAATCTGTTTAACTACAATGTCG
65 CTGTTGTAGCTTTAATCTGTTTAACTGCAATGTCG
* * *
13292596 GGGAAGTAAGATTCGTTGTTGGAGCTTTAATCTGTTCCACTAG-AACACC-AGGGAAGTAAGATT
1 GGGAAGTAAGATTCGCTGTTGTAGCTTTAATCTGTTCCACT-GCAACGCCGA-GG-AGTAAGATT
* *
13292659 CGCTGTTGTAGCTTTAATATATTTAACTGCAATGTCG
63 CGCTGTTGTAGCTTTAATCTGTTTAACTGCAATGTCG
*
13292696 GGGAAGTAAGATTTGCTGT
1 GGGAAGTAAGATTCGCTGT
13292715 GATGACTTCA
Statistics
Matches: 529, Mismatches: 83, Indels: 14
0.85 0.13 0.02
Matches are distributed among these distances:
98 1 0.00
99 4 0.01
100 520 0.98
101 4 0.01
ACGTcount: A:0.26, C:0.17, G:0.23, T:0.34
Consensus pattern (99 bp):
GGGAAGTAAGATTCGCTGTTGTAGCTTTAATCTGTTCCACTGCAACGCCGAGGAGTAAGATTCGC
TGTTGTAGCTTTAATCTGTTTAACTGCAATGTCG
Found at i:13297586 original size:11 final size:11
Alignment explanation
Indices: 13297554--13297586 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
13297544 AATGGGTACC
*
13297554 AAAGAATATAC
1 AAAGAATATAT
13297565 AAAGAATATAT
1 AAAGAATATAT
13297576 AAAGAATATAT
1 AAAGAATATAT
13297587 GAATTTATGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.64, C:0.03, G:0.09, T:0.24
Consensus pattern (11 bp):
AAAGAATATAT
Found at i:13299622 original size:19 final size:20
Alignment explanation
Indices: 13299598--13299644 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
13299588 TGGTGGACTT
* *
13299598 TAATGCATATG-ATGTAATG
1 TAATGCAAATGCATGAAATG
13299617 TAATGCAAATGCATGAAATG
1 TAATGCAAATGCATGAAATG
13299637 -AATGCAAA
1 TAATGCAAA
13299645 AAGGTGTTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.45, C:0.09, G:0.19, T:0.28
Consensus pattern (20 bp):
TAATGCAAATGCATGAAATG
Found at i:13301540 original size:18 final size:17
Alignment explanation
Indices: 13301513--13301546 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
13301503 AAAGCACGAT
13301513 AATAAATACAAATAAGC
1 AATAAATACAAATAAGC
*
13301530 AATACAATACACATAAG
1 AATA-AATACAAATAAG
13301547 AGCAATAATC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.62, C:0.15, G:0.06, T:0.18
Consensus pattern (17 bp):
AATAAATACAAATAAGC
Found at i:13301765 original size:32 final size:32
Alignment explanation
Indices: 13301698--13301763 Score: 82
Period size: 32 Copynumber: 2.1 Consensus size: 32
13301688 TAATTAAAAT
* *
13301698 AAATTTAAAATAAATAATATATACATATATTA
1 AAATTTAAAATAAATAATATAAAAATATATTA
*
13301730 AAATTTGAAATAAATAA-A-AAAAATATAGTTA
1 AAATTTAAAATAAATAATATAAAAATATA-TTA
13301761 AAA
1 AAA
13301764 ATACATACCA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
30 7 0.23
31 7 0.23
32 16 0.53
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.32
Consensus pattern (32 bp):
AAATTTAAAATAAATAATATAAAAATATATTA
Found at i:13302321 original size:3 final size:3
Alignment explanation
Indices: 13302313--13302361 Score: 71
Period size: 3 Copynumber: 16.3 Consensus size: 3
13302303 TATAAAAAAT
* * *
13302313 ATA ATA ATA CTA ACA ATA ATA ATA ATG ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
13302361 A
1 A
13302362 ATTAATATTA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:13307018 original size:104 final size:104
Alignment explanation
Indices: 13306838--13307065 Score: 334
Period size: 104 Copynumber: 2.2 Consensus size: 104
13306828 ACAACTCGCA
* * *
13306838 GACCTACACTCCTAGGTAATGTTTAAAGGTTACTTGAGTTATGCTTACAGCCTTCATTTATTTGA
1 GACCTACACTCCTAGCTAATGTTTAAAGGTTACTTGAGTTATGCTCACAGCCTTCATTTATTTAA
* *
13306903 GTTAGCTGAGTTAAGCTCGCAACTCTGAAACAGCTAGTG
66 GTTAGATGAGTTAAGCTCACAACTCTGAAACAGCTAGTG
* * *
13306942 GACCTACACT-CTCAGCTGATGTTTAAAGGTTAGTTGAGTTATGCTCATAGCCTTCATTTATTTA
1 GACCTACACTCCT-AGCTAATGTTTAAAGGTTACTTGAGTTATGCTCACAGCCTTCATTTATTTA
*
13307006 AGTTAGATGAGTTAAGCTCACAACTCTGAAACAGCTCA-CG
65 AGTTAGATGAGTTAAGCTCACAACTCTGAAACAGCT-AGTG
*
13307046 AACCTACACTCCTAGCTAAT
1 GACCTACACTCCTAGCTAAT
13307066 AAACTTTAAC
Statistics
Matches: 110, Mismatches: 11, Indels: 6
0.87 0.09 0.05
Matches are distributed among these distances:
103 2 0.02
104 105 0.95
105 3 0.03
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (104 bp):
GACCTACACTCCTAGCTAATGTTTAAAGGTTACTTGAGTTATGCTCACAGCCTTCATTTATTTAA
GTTAGATGAGTTAAGCTCACAACTCTGAAACAGCTAGTG
Found at i:13307091 original size:40 final size:39
Alignment explanation
Indices: 13307036--13307139 Score: 109
Period size: 40 Copynumber: 2.6 Consensus size: 39
13307026 CAACTCTGAA
* *
13307036 ACAGCTCACGAACCTACACTCCTAGCTAATAAACTTTAAC
1 ACAGCTC-CGGACCTACACTCCTAGCTAATAAACTTCAAC
** * *
13307076 ACAGCTCGCGGACCTATTCTCCTAGCTGATAAACTTCGAC
1 ACAGCTC-CGGACCTACACTCCTAGCTAATAAACTTCAAC
* * *
13307116 ATAGCTCCCGACCTACGCTCCTAG
1 ACAGCTCCGGACCTACACTCCTAG
13307140 TTGTTGTTTA
Statistics
Matches: 53, Mismatches: 11, Indels: 1
0.82 0.17 0.02
Matches are distributed among these distances:
39 14 0.26
40 39 0.74
ACGTcount: A:0.29, C:0.35, G:0.13, T:0.23
Consensus pattern (39 bp):
ACAGCTCCGGACCTACACTCCTAGCTAATAAACTTCAAC
Found at i:13322777 original size:42 final size:42
Alignment explanation
Indices: 13322652--13322877 Score: 187
Period size: 42 Copynumber: 5.4 Consensus size: 42
13322642 CTCGGTGGAT
* * *
13322652 TCAGCACTTAGCAACCACC-ATAAATTCAGTGATATGGGGAA
1 TCAGCACTTAGCAACCACCTTTAAATTCAATGATACGGGGAA
* * *
13322693 TCAGCACATAG-AACC-CCTTTCACAATT-AAGGATTCGGTGGAA
1 TCAGCACTTAGCAACCACCTTT-A-AATTCAATGATACGG-GGAA
* * *
13322735 TCAGCACTTAGCAACCACCTTTATATTCATTGATACAGGGAA
1 TCAGCACTTAGCAACCACCTTTAAATTCAATGATACGGGGAA
* **
13322777 TCAGCACTTAGCAACC-CCATTCACAATT-AAAAATACAGTGGG-A
1 TCAGCACTTAGCAACCACC-TTTA-AATTCAATGATAC-G-GGGAA
* * * *
13322820 TCAGCACTTAGCAACCACCTTTAGAGTCAATAATTCGGGGAA
1 TCAGCACTTAGCAACCACCTTTAAATTCAATGATACGGGGAA
*
13322862 TCAGTACTTAGCAACC
1 TCAGCACTTAGCAACC
13322878 CCTCGGGGAA
Statistics
Matches: 147, Mismatches: 24, Indels: 27
0.74 0.12 0.14
Matches are distributed among these distances:
39 2 0.01
40 5 0.03
41 22 0.15
42 68 0.46
43 40 0.27
44 10 0.07
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (42 bp):
TCAGCACTTAGCAACCACCTTTAAATTCAATGATACGGGGAA
Found at i:13322823 original size:85 final size:85
Alignment explanation
Indices: 13322646--13322879 Score: 283
Period size: 85 Copynumber: 2.8 Consensus size: 85
13322636 CCGTTACTCG
* * * * *
13322646 GTGGATTCAGCACTTAGCAACCACC-ATAAATTCAGTGATATGGGGAATCAGCACATAG-AACCC
1 GTGGAATCAGCACTTAGCAACCACCTTTAAATTCAATGATACGGGGAATCAGCACTTAGCAACCC
* ** * *
13322709 CTTTCACAATTAAGGATTCG
66 CATTCACAATTAAAAATACA
* * *
13322729 GTGGAATCAGCACTTAGCAACCACCTTTATATTCATTGATACAGGGAATCAGCACTTAGCAACCC
1 GTGGAATCAGCACTTAGCAACCACCTTTAAATTCAATGATACGGGGAATCAGCACTTAGCAACCC
13322794 CATTCACAATTAAAAATACA
66 CATTCACAATTAAAAATACA
* * * * * *
13322814 GTGGGATCAGCACTTAGCAACCACCTTTAGAGTCAATAATTCGGGGAATCAGTACTTAGCAACCC
1 GTGGAATCAGCACTTAGCAACCACCTTTAAATTCAATGATACGGGGAATCAGCACTTAGCAACCC
13322879 C
66 C
13322880 TCGGGGAATC
Statistics
Matches: 129, Mismatches: 20, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
83 24 0.19
84 27 0.21
85 78 0.60
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.24
Consensus pattern (85 bp):
GTGGAATCAGCACTTAGCAACCACCTTTAAATTCAATGATACGGGGAATCAGCACTTAGCAACCC
CATTCACAATTAAAAATACA
Found at i:13322883 original size:26 final size:26
Alignment explanation
Indices: 13322854--13322906 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
13322844 AGTCAATAAT
*
13322854 TCGGGGAATCAGTACTTAGCAACCCC
1 TCGGGGAATCAGCACTTAGCAACCCC
13322880 TCGGGGAATCAGCACTTAGCAACCCC
1 TCGGGGAATCAGCACTTAGCAACCCC
13322906 T
1 T
13322907 TTTTATTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.26, C:0.32, G:0.23, T:0.19
Consensus pattern (26 bp):
TCGGGGAATCAGCACTTAGCAACCCC
Found at i:13328720 original size:12 final size:12
Alignment explanation
Indices: 13328705--13328736 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
13328695 ATCGTGTGTC
*
13328705 AGGCCATGTGGT
1 AGGCCATGTAGT
13328717 AGGCCATGTAGT
1 AGGCCATGTAGT
13328729 AGGCCATG
1 AGGCCATG
13328737 GAACTCACTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.22, C:0.19, G:0.38, T:0.22
Consensus pattern (12 bp):
AGGCCATGTAGT
Found at i:13328837 original size:63 final size:62
Alignment explanation
Indices: 13328738--13328928 Score: 229
Period size: 63 Copynumber: 3.0 Consensus size: 62
13328728 TAGGCCATGG
* * * *
13328738 AACTCACTGTTTTAGATTTAGGGTCACACGGGCTAGGGACATAGGCTTGTGTCTAGCTCGTTT
1 AACTTACTGTTTTGGATTTAGGGTCACACGGGCTAGGGACAT-GGCTTGTGTCTAGCCCGTGT
* * * * * *
13328801 AACTTACTATTTTGGATTTAGGGTTACATGAGCTAGGGACATGGGCTTATCTCTAGCCCGTGT
1 AACTTACTGTTTTGGATTTAGGGTCACACGGGCTAGGGACAT-GGCTTGTGTCTAGCCCGTGT
* * * *
13328864 AACTTATTGTTTTGGATTTATGGTCACACGGGCTAGGTACATGGCCTTGTGTCCAGCCCGTGT
1 AACTTACTGTTTTGGATTTAGGGTCACACGGGCTAGGGACATGG-CTTGTGTCTAGCCCGTGT
13328927 AA
1 AA
13328929 TGTCCAGCCC
Statistics
Matches: 106, Mismatches: 21, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
62 2 0.02
63 104 0.98
ACGTcount: A:0.21, C:0.19, G:0.26, T:0.34
Consensus pattern (62 bp):
AACTTACTGTTTTGGATTTAGGGTCACACGGGCTAGGGACATGGCTTGTGTCTAGCCCGTGT
Found at i:13328934 original size:16 final size:16
Alignment explanation
Indices: 13328913--13328944 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
13328903 CATGGCCTTG
13328913 TGTCCAGCCCGTGTAA
1 TGTCCAGCCCGTGTAA
13328929 TGTCCAGCCCGTGTAA
1 TGTCCAGCCCGTGTAA
13328945 CTCACTGTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.19, C:0.31, G:0.25, T:0.25
Consensus pattern (16 bp):
TGTCCAGCCCGTGTAA
Found at i:13328994 original size:79 final size:79
Alignment explanation
Indices: 13328855--13329007 Score: 218
Period size: 79 Copynumber: 1.9 Consensus size: 79
13328845 GCTTATCTCT
* * * * * *
13328855 AGCCCGTGTAACTTATTGTTTTGGATTTATGGTCACACGGGCTAGGTACATGGCCTTGTGTCCAG
1 AGCCCGTGTAACTCACTGTTTTGGATTTAAGGTCACACAGGCTAGGGACATGGCCGTGTGTCCAG
13328920 CCCGTGTAATGTCC
66 CCCGTGTAATGTCC
*
13328934 AGCCCGTGTAACTCACTGTTTTGGATTTAAGGTCACACAGGCTAGGGACATAGG-CGTGTGTGCA
1 AGCCCGTGTAACTCACTGTTTTGGATTTAAGGTCACACAGGCTAGGGACAT-GGCCGTGTGTCCA
*
13328998 GGCCGTGTAA
65 GCCCGTGTAA
13329008 CTCATTGTTT
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
79 63 0.97
80 2 0.03
ACGTcount: A:0.20, C:0.22, G:0.29, T:0.29
Consensus pattern (79 bp):
AGCCCGTGTAACTCACTGTTTTGGATTTAAGGTCACACAGGCTAGGGACATGGCCGTGTGTCCAG
CCCGTGTAATGTCC
Found at i:13329041 original size:63 final size:63
Alignment explanation
Indices: 13328937--13329057 Score: 199
Period size: 63 Copynumber: 1.9 Consensus size: 63
13328927 AATGTCCAGC
* *
13328937 CCGTGTAACTCACTGTTTTGGATTTAAGGTCACACAGGCTAGGGACATAGGCGTGTGTGCAGG
1 CCGTGTAACTCACTGTTTTGGATTTAAGGTCACACAGGCTAGAGACACAGGCGTGTGTGCAGG
*
13329000 CCGTGTAACTCATTGTTTTGGATTTAAGGTCACACTA-GCTAGAGACACAGGCGTGTGT
1 CCGTGTAACTCACTGTTTTGGATTTAAGGTCACAC-AGGCTAGAGACACAGGCGTGTGT
13329058 CCAAGTCGTG
Statistics
Matches: 54, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
63 53 0.98
64 1 0.02
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.29
Consensus pattern (63 bp):
CCGTGTAACTCACTGTTTTGGATTTAAGGTCACACAGGCTAGAGACACAGGCGTGTGTGCAGG
Found at i:13329068 original size:63 final size:63
Alignment explanation
Indices: 13328929--13329068 Score: 194
Period size: 63 Copynumber: 2.2 Consensus size: 63
13328919 GCCCGTGTAA
* *
13328929 TGTCC-AGCCCGTGTAACTCACTGTTTTGGATTTAAGGTCACACAGGCTAGGGACATAGGCGTG
1 TGTCCAAG-CCGTGTAACTCACTGTTTTGGATTTAAGGTCACACAGGCTAGAGACACAGGCGTG
* * *
13328992 TGTGCAGGCCGTGTAACTCATTGTTTTGGATTTAAGGTCACACTA-GCTAGAGACACAGGCGTG
1 TGTCCAAGCCGTGTAACTCACTGTTTTGGATTTAAGGTCACAC-AGGCTAGAGACACAGGCGTG
*
13329055 TGTCCAAGTCGTGT
1 TGTCCAAGCCGTGT
13329069 GTGAGAAATT
Statistics
Matches: 67, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
63 65 0.97
64 2 0.03
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (63 bp):
TGTCCAAGCCGTGTAACTCACTGTTTTGGATTTAAGGTCACACAGGCTAGAGACACAGGCGTG
Found at i:13329337 original size:15 final size:16
Alignment explanation
Indices: 13329317--13329353 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
13329307 AACATTGAAA
13329317 CTGTTATCT-AACAAT
1 CTGTTATCTGAACAAT
*
13329332 CTGTTA-CTGAATAAT
1 CTGTTATCTGAACAAT
13329347 CTGTTAT
1 CTGTTAT
13329354 TCCGGTATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
14 2 0.11
15 17 0.89
ACGTcount: A:0.30, C:0.16, G:0.11, T:0.43
Consensus pattern (16 bp):
CTGTTATCTGAACAAT
Found at i:13331499 original size:27 final size:29
Alignment explanation
Indices: 13331469--13331525 Score: 75
Period size: 27 Copynumber: 2.0 Consensus size: 29
13331459 GTCTAAATAA
*
13331469 GTGTTTAAA-AAGTTGTTTGAA-AAG-GTT
1 GTGTTCAAACAAG-TGTTTGAACAAGAGTT
13331496 GTGTTCAAACAAGTGTTTGAACAAGAGTT
1 GTGTTCAAACAAGTGTTTGAACAAGAGTT
13331525 G
1 G
13331526 AGTCATCCAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
27 16 0.62
28 6 0.23
29 4 0.15
ACGTcount: A:0.33, C:0.05, G:0.26, T:0.35
Consensus pattern (29 bp):
GTGTTCAAACAAGTGTTTGAACAAGAGTT
Found at i:13336169 original size:17 final size:18
Alignment explanation
Indices: 13336111--13336171 Score: 61
Period size: 20 Copynumber: 3.3 Consensus size: 18
13336101 GCCATCTTAC
*
13336111 TATATTATATAATGTTATA
1 TATATTATATAGT-TTATA
* *
13336130 TCATATCATATAGTATATAA
1 T-ATATTATATAGTTTAT-A
13336150 TATATTA-ATAGTTTATA
1 TATATTATATAGTTTATA
13336167 TATAT
1 TATAT
13336172 GCATCGATGA
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
17 6 0.17
18 8 0.23
19 9 0.26
20 12 0.34
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.49
Consensus pattern (18 bp):
TATATTATATAGTTTATA
Found at i:13339823 original size:23 final size:22
Alignment explanation
Indices: 13339780--13339823 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
13339770 TTCTAAGTCG
13339780 ATATTCAATTCAATTCCACACCT
1 ATATTCAATTCAATT-CACACCT
13339803 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
13339824 TTAGTCAACT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACCT
Found at i:13341157 original size:101 final size:102
Alignment explanation
Indices: 13341042--13341226 Score: 293
Period size: 101 Copynumber: 1.8 Consensus size: 102
13341032 AAAGTGATGG
**
13341042 TCACGTATGTAGTACTATGTGCAGGCTACTACGTGTACCAGA-A-TGATAGGTTGCATGTGTAGT
1 TCACGTATGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAGTGAT-GGTCACATGTGTAGT
*
13341105 ACTATGTGCAGGCTACTATGCGTACTGGATAGCTTCGA
65 ACTATGTACAGGCTACTATGCGTACTGGATAGCTTCGA
* *
13341143 TCACGTATGTAGTACTATGTGCAGGCTACTACGTGTATCGGATAGTGATGGTCACATGTGTAGTA
1 TCACGTATGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAGTGATGGTCACATGTGTAGTA
*
13341208 CTATGTATAGGCTACTATG
66 CTATGTACAGGCTACTATG
13341227 TGATCCGGTA
Statistics
Matches: 76, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
101 40 0.53
102 32 0.42
103 4 0.05
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (102 bp):
TCACGTATGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAGTGATGGTCACATGTGTAGTA
CTATGTACAGGCTACTATGCGTACTGGATAGCTTCGA
Found at i:13341186 original size:51 final size:49
Alignment explanation
Indices: 13341041--13341224 Score: 162
Period size: 51 Copynumber: 3.7 Consensus size: 49
13341031 GAAAGTGATG
*
13341041 GTCACGTATGTAGTACTATGTGCAGGCTACTACGTGTACCAGAATGATAGGTT
1 GTCACGTATGTAGTACTATGTGCAGGCTACTACGTGTA-CAG---GATAGCTT
* * * *
13341094 G-CA--TGTGTAGTACTATGTGCAGGCTACTATGCGTACTGGATAGCTT
1 GTCACGTATGTAGTACTATGTGCAGGCTACTACGTGTACAGGATAGCTT
13341140 CGATCACGTATGTAGTACTATGTGCAGGCTACTACGTGTATC-GGATAG-TGAT
1 -G-TCACGTATGTAGTACTATGTGCAGGCTACTACGTGTA-CAGGATAGCT--T
* * **
13341192 GGTCACATGTGTAGTACTATGTATAGGCTACTA
1 -GTCACGTATGTAGTACTATGTGCAGGCTACTA
13341225 TGTGATCCGG
Statistics
Matches: 110, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
46 7 0.06
47 1 0.01
49 4 0.04
50 30 0.27
51 62 0.56
52 5 0.05
53 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.32
Consensus pattern (49 bp):
GTCACGTATGTAGTACTATGTGCAGGCTACTACGTGTACAGGATAGCTT
Found at i:13343313 original size:51 final size:50
Alignment explanation
Indices: 13343254--13343389 Score: 166
Period size: 50 Copynumber: 2.7 Consensus size: 50
13343244 GTTCGGTTCA
* * *
13343254 CATAGTAGCCTGCACATAATACTACACACGTGATCGGAAC-TATCCGGTACG
1 CATAGTAGCCTGCACATAGTACTACACACGTGA-CCGAACAT-TCCAGTACG
* * * * *
13343305 TATAGTAGCCTGCACATAGTACTACACATGCGACCTATCATTCCAGTACG
1 CATAGTAGCCTGCACATAGTACTACACACGTGACCGAACATTCCAGTACG
*
13343355 CGTAGTAGCCTGCACATAGTACTACACACGTGACC
1 CATAGTAGCCTGCACATAGTACTACACACGTGACC
13343390 ATCACTTTCA
Statistics
Matches: 72, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
50 42 0.58
51 30 0.42
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.23
Consensus pattern (50 bp):
CATAGTAGCCTGCACATAGTACTACACACGTGACCGAACATTCCAGTACG
Found at i:13370481 original size:25 final size:25
Alignment explanation
Indices: 13370453--13370556 Score: 97
Period size: 24 Copynumber: 4.2 Consensus size: 25
13370443 AAGCTCTTTC
13370453 GAGCCATATAACGGGAAGCTCATGT
1 GAGCCATATAACGGGAAGCTCATGT
* * *
13370478 GAGCCATGTAATGGGAAGCTCCA-GA
1 GAGCCATATAACGGGAAGCT-CATGT
* * *
13370503 GAACCAT-TAACGGGAAACTCATAT
1 GAGCCATATAACGGGAAGCTCATGT
* * *
13370527 GAGCCA-ATATCAGGAAGTTCATGT
1 GAGCCATATAACGGGAAGCTCATGT
13370551 GAGCCA
1 GAGCCA
13370557 ACATCGGAAA
Statistics
Matches: 62, Mismatches: 14, Indels: 7
0.75 0.17 0.08
Matches are distributed among these distances:
23 2 0.03
24 33 0.53
25 25 0.40
26 2 0.03
ACGTcount: A:0.35, C:0.20, G:0.26, T:0.19
Consensus pattern (25 bp):
GAGCCATATAACGGGAAGCTCATGT
Found at i:13370548 original size:24 final size:23
Alignment explanation
Indices: 13370521--13370565 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
13370511 AACGGGAAAC
*
13370521 TCATATGAGCCAATATCAGGAAGT
1 TCATATGAGCCAACATC-GGAAGT
*
13370545 TCATGTGAGCCAACATCGGAA
1 TCATATGAGCCAACATCGGAA
13370566 AACTCCAGAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 4 0.21
24 15 0.79
ACGTcount: A:0.36, C:0.20, G:0.22, T:0.22
Consensus pattern (23 bp):
TCATATGAGCCAACATCGGAAGT
Found at i:13374609 original size:31 final size:31
Alignment explanation
Indices: 13374568--13374629 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
13374558 AAGCACAAAG
*
13374568 ACTTATCACAAAGAGCTCGCACAAAGAGCTT
1 ACTTACCACAAAGAGCTCGCACAAAGAGCTT
*
13374599 ACTTACCACAAAGAGCTCGCATAAAGAGCTT
1 ACTTACCACAAAGAGCTCGCACAAAGAGCTT
13374630 GCTTGAAAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.39, C:0.26, G:0.16, T:0.19
Consensus pattern (31 bp):
ACTTACCACAAAGAGCTCGCACAAAGAGCTT
Found at i:13375532 original size:27 final size:27
Alignment explanation
Indices: 13375481--13375532 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
13375471 TTCGTCCAAG
*
13375481 CACTGGCGAACACCCATATCGCCGACA
1 CACTGGCGAACACCCATATCACCGACA
13375508 CACTGGCGAACACCCAGT-TCACCGA
1 CACTGGCGAACACCCA-TATCACCGA
13375533 AACATTAGTG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.29, C:0.40, G:0.19, T:0.12
Consensus pattern (27 bp):
CACTGGCGAACACCCATATCACCGACA
Found at i:13386348 original size:40 final size:39
Alignment explanation
Indices: 13386272--13386348 Score: 93
Period size: 40 Copynumber: 1.9 Consensus size: 39
13386262 GAATTAGTTT
**
13386272 GGGCCTTAGCCCATTCAGATACAGTCTCAGAAATACATTA
1 GGGCCTTAGCCCATTCAGATACAGAATCAG-AATACATTA
*
13386312 GGGCCTTGGCCCATATCAGATACAGAATGCAG-ATACA
1 GGGCCTTAGCCCAT-TCAGATACAGAAT-CAGAATACA
13386349 GTAAATCAGA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 18 0.56
41 11 0.34
42 3 0.09
ACGTcount: A:0.32, C:0.25, G:0.21, T:0.22
Consensus pattern (39 bp):
GGGCCTTAGCCCATTCAGATACAGAATCAGAATACATTA
Found at i:13397794 original size:28 final size:30
Alignment explanation
Indices: 13397762--13397826 Score: 73
Period size: 28 Copynumber: 2.2 Consensus size: 30
13397752 ACAAATTTTG
*
13397762 AATTTAATCTC-CGTA-TTTTT-ATTTTTAA
1 AATTTAATCTCTC-TACTTTTTAACTTTTAA
*
13397790 AATTTAGTCTCTCTACTTTTTAACTTTTAA
1 AATTTAATCTCTCTACTTTTTAACTTTTAA
*
13397820 AAGTTAA
1 AATTTAA
13397827 GTCTACTTTG
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
28 12 0.40
29 6 0.20
30 12 0.40
ACGTcount: A:0.31, C:0.12, G:0.05, T:0.52
Consensus pattern (30 bp):
AATTTAATCTCTCTACTTTTTAACTTTTAA
Found at i:13401181 original size:23 final size:23
Alignment explanation
Indices: 13401146--13401200 Score: 92
Period size: 23 Copynumber: 2.3 Consensus size: 23
13401136 TACCCGAACT
*
13401146 TTTTTCTGTCTACTAGTTTGGTAC
1 TTTTTCT-ACTACTAGTTTGGTAC
13401170 TTTTTCTACTACTAGTTTGGTAC
1 TTTTTCTACTACTAGTTTGGTAC
13401193 TTTTTCTA
1 TTTTTCTA
13401201 ACACCGTTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
23 23 0.77
24 7 0.23
ACGTcount: A:0.15, C:0.16, G:0.13, T:0.56
Consensus pattern (23 bp):
TTTTTCTACTACTAGTTTGGTAC
Found at i:13401303 original size:18 final size:17
Alignment explanation
Indices: 13401273--13401336 Score: 67
Period size: 18 Copynumber: 3.7 Consensus size: 17
13401263 GATGATGTCA
*
13401273 TTTTCTTTTTCCTTTTC
1 TTTTATTTTTCCTTTTC
13401290 TTTTATTATTTCCTTTTC
1 TTTTATT-TTTCCTTTTC
** *
13401308 TCGT-TTTTCCCTTTTC
1 TTTTATTTTTCCTTTTC
13401324 TTTTATTCTTTCC
1 TTTTATT-TTTCC
13401337 CATTTCTATT
Statistics
Matches: 37, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
16 11 0.30
17 10 0.27
18 16 0.43
ACGTcount: A:0.05, C:0.23, G:0.02, T:0.70
Consensus pattern (17 bp):
TTTTATTTTTCCTTTTC
Found at i:13401349 original size:34 final size:33
Alignment explanation
Indices: 13401271--13401365 Score: 108
Period size: 34 Copynumber: 2.9 Consensus size: 33
13401261 ATGATGATGT
*
13401271 CATTT-TC-TTTTTCCTTTTCTTTTATTATTTC
1 CATTTCTCATTTTTCCTTTTCTTTTATTCTTTC
* *
13401302 CTTTTCTCGTTTTTCCCTTTTCTTTTATTCTTTCC
1 CATTTCTCATTTTT-CCTTTTCTTTTATTCTTT-C
*
13401337 CATTTCT-ATTTTT-CTTTTCTTTTCTTCTT
1 CATTTCTCATTTTTCCTTTTCTTTTATTCTT
13401366 CTTCTCCACC
Statistics
Matches: 55, Mismatches: 5, Indels: 7
0.82 0.07 0.10
Matches are distributed among these distances:
31 4 0.07
32 17 0.31
33 5 0.09
34 22 0.40
35 7 0.13
ACGTcount: A:0.06, C:0.23, G:0.01, T:0.69
Consensus pattern (33 bp):
CATTTCTCATTTTTCCTTTTCTTTTATTCTTTC
Found at i:13408028 original size:13 final size:13
Alignment explanation
Indices: 13408012--13408041 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
13408002 AGTGCTGCAA
13408012 AAAAATGCTTATG
1 AAAAATGCTTATG
*
13408025 AAAAATGCTTTTG
1 AAAAATGCTTATG
13408038 AAAA
1 AAAA
13408042 GCTTGGTCTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.50, C:0.07, G:0.13, T:0.30
Consensus pattern (13 bp):
AAAAATGCTTATG
Found at i:13409640 original size:16 final size:18
Alignment explanation
Indices: 13409603--13409637 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
13409593 AATACTAAGA
13409603 ATTT-TATTAAATTATAT
1 ATTTATATTAAATTATAT
13409620 ATTTATATTAAATTATAT
1 ATTTATATTAAATTATAT
13409638 TTAATAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
ATTTATATTAAATTATAT
Found at i:13409649 original size:16 final size:17
Alignment explanation
Indices: 13409610--13409655 Score: 51
Period size: 18 Copynumber: 2.8 Consensus size: 17
13409600 AGAATTTTAT
* *
13409610 TAAATTATATATTTATAT
1 TAAATTATAT-TTAATAA
13409628 TAAATTATATTTAATAA
1 TAAATTATATTTAATAA
13409645 T-AATTAT-TTTA
1 TAAATTATATTTA
13409656 GATTATATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
15 4 0.15
16 6 0.23
17 6 0.23
18 10 0.38
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
TAAATTATATTTAATAA
Found at i:13409651 original size:26 final size:25
Alignment explanation
Indices: 13409622--13409799 Score: 77
Period size: 26 Copynumber: 7.2 Consensus size: 25
13409612 AATTATATAT
13409622 TTATATTAAATTATATTTAATAATAA
1 TTATATTAAATTATATTTAATAAT-A
* * * *
13409648 TTATTTTAGATTATATTTTATAGTA
1 TTATATTAAATTATATTTAATAATA
*
13409673 TTATA-T--ATTATGATTTTAGTAA-A
1 TTATATTAAATTAT-A-TTTAATAATA
* *
13409696 TTCATA-TAAGAATAT-TTTAATATTA
1 TT-ATATTAA-ATTATATTTAATAATA
** ** * * *
13409721 AGA-ATTTTATTA-AATT-ATATTT
1 TTATATTAAATTATATTTAATAATA
*
13409743 TTTTATTAAATTATATTTAATAATTA
1 TTATATTAAATTATATTTAATAA-TA
* * *
13409769 TTATTTTAAATTATATTTTATACTA
1 TTATATTAAATTATATTTAATAATA
13409794 TTATAT
1 TTATAT
13409800 ATTATAATTT
Statistics
Matches: 108, Mismatches: 31, Indels: 27
0.65 0.19 0.16
Matches are distributed among these distances:
22 10 0.09
23 17 0.16
24 21 0.19
25 16 0.15
26 40 0.37
27 4 0.04
ACGTcount: A:0.40, C:0.01, G:0.03, T:0.55
Consensus pattern (25 bp):
TTATATTAAATTATATTTAATAATA
Found at i:13409746 original size:18 final size:18
Alignment explanation
Indices: 13409725--13409760 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
13409715 ATATTAAGAA
13409725 TTTTATTAAATTATATTT
1 TTTTATTAAATTATATTT
13409743 TTTTATTAAATTATATTT
1 TTTTATTAAATTATATTT
13409761 AATAATTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTTATTAAATTATATTT
Found at i:13409767 original size:13 final size:13
Alignment explanation
Indices: 13409751--13409808 Score: 64
Period size: 13 Copynumber: 4.3 Consensus size: 13
13409741 TTTTTTATTA
*
13409751 AATTATATTTAAT
1 AATTATATTTTAT
13409764 AATTATTATTTTA-
1 AATTA-TATTTTAT
13409777 AATTATATTTTAT
1 AATTATATTTTAT
*
13409790 ACTATTATATATTAT
1 A--ATTATATTTTAT
13409805 AATT
1 AATT
13409809 TTAGTAAATT
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
12 7 0.18
13 14 0.36
14 6 0.15
15 12 0.31
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (13 bp):
AATTATATTTTAT
Found at i:13409768 original size:18 final size:18
Alignment explanation
Indices: 13409729--13409768 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
13409719 TAAGAATTTT
** *
13409729 ATTAAATTATATTTTTTT
1 ATTAAATTATATTTAATA
13409747 ATTAAATTATATTTAATA
1 ATTAAATTATATTTAATA
13409765 ATTA
1 ATTA
13409769 TTATTTTAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
ATTAAATTATATTTAATA
Found at i:13409784 original size:121 final size:120
Alignment explanation
Indices: 13409526--13409833 Score: 528
Period size: 121 Copynumber: 2.6 Consensus size: 120
13409516 CCACAAAATC
*
13409526 AATTATTTTAGATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCGTATAAGAATAT
1 AATTATTTTAGATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATAT
13409591 TTAATACTAAGAATTTTATTAAATTATATATTTATATTAAATTATATTTAATAAT
66 TTAATACTAAGAATTTTATTAAATTATATATTTATATTAAATTATATTTAATAAT
13409646 AATTATTTTAGATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATAT
1 AATTATTTTAGATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATA-
* * *
13409711 TTTAATATTAAGAATTTTATTAAATTATATTTTTTTATTAAATTATATTTAATAAT
65 TTTAATACTAAGAATTTTATTAAATTATATATTTATATTAAATTATATTTAATAAT
* * * *
13409767 TATTATTTTAAATTATATTTTATACTATTATATATTATAATTTTAGTAAATTCATATAAGAAT-T
1 AATTATTTTAGATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATAT
13409831 TTA
66 TTA
13409834 TTAAATTATA
Statistics
Matches: 179, Mismatches: 8, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
119 4 0.02
120 63 0.35
121 112 0.63
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.53
Consensus pattern (120 bp):
AATTATTTTAGATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATAT
TTAATACTAAGAATTTTATTAAATTATATATTTATATTAAATTATATTTAATAAT
Found at i:13410100 original size:45 final size:44
Alignment explanation
Indices: 13410014--13410104 Score: 119
Period size: 45 Copynumber: 2.0 Consensus size: 44
13410004 ACCTCTATTC
* *
13410014 CATTCAACCAAACACAAGATTACTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTACTATTACACCTCTAATCCATTA
*** *
13410058 CATTCAACCAAACAGTTGATTTGCTATTACACCTCTAATCCATTA
1 CATTCAACCAAACACAAGA-TTACTATTACACCTCTAATCCATTA
13410103 CA
1 CA
13410105 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 16 0.40
45 24 0.60
ACGTcount: A:0.35, C:0.29, G:0.05, T:0.31
Consensus pattern (44 bp):
CATTCAACCAAACACAAGATTACTATTACACCTCTAATCCATTA
Found at i:13410104 original size:16 final size:16
Alignment explanation
Indices: 13410083--13410152 Score: 113
Period size: 16 Copynumber: 4.4 Consensus size: 16
13410073 TTGATTTGCT
13410083 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
13410099 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
*
13410115 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
*
13410131 ATTACGCCTCTAATCC
1 ATTACACCTCTAATCC
*
13410147 AATACA
1 ATTACA
13410153 GCGAACCAAG
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.31, C:0.36, G:0.01, T:0.31
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:13411066 original size:21 final size:22
Alignment explanation
Indices: 13411026--13411067 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
13411016 GTTAAGTTGT
*
13411026 TTTTAAATTTGATTTGTTTAGG
1 TTTTAAATTTGATGTGTTTAGG
13411048 TTTTAAATTT-ATGTGTTTAG
1 TTTTAAATTTGATGTGTTTAG
13411068 ATCCAATTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.24, C:0.00, G:0.17, T:0.60
Consensus pattern (22 bp):
TTTTAAATTTGATGTGTTTAGG
Found at i:13414198 original size:3 final size:3
Alignment explanation
Indices: 13414190--13414252 Score: 108
Period size: 3 Copynumber: 21.0 Consensus size: 3
13414180 ATACTTTCAA
13414190 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
**
13414238 ATT GCT ATT ATT ATT
1 ATT ATT ATT ATT ATT
13414253 TACTCATTTA
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:13421041 original size:43 final size:43
Alignment explanation
Indices: 13420905--13421041 Score: 102
Period size: 43 Copynumber: 3.2 Consensus size: 43
13420895 GATAGCAGAT
*
13420905 CTTGCCTTCCTGCGTTAACAGAGAAGTAGATCGAAAACAAAGC
1 CTTGCCTTCCTGCGTTAACAGAGAAGCAGATCGAAAACAAAGC
** * * * * ** *
13420948 CTTGCC-TCCAT-CGGTT-GTAGTGGAGCTGGTTAAAGATAGCAAA-T
1 CTTGCCTTCC-TGC-GTTAACAGAGAAGCAGATCGAA-A-A-CAAAGC
*
13420992 CTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGC
1 CTTGCCTTCCTGCGTTAACAGAGAAGCAGATCGAAAACAAAGC
13421035 CTTGCCT
1 CTTGCCT
13421042 CCATCGGTTG
Statistics
Matches: 66, Mismatches: 19, Indels: 18
0.64 0.18 0.17
Matches are distributed among these distances:
42 17 0.26
43 19 0.29
44 12 0.18
45 18 0.27
ACGTcount: A:0.29, C:0.24, G:0.23, T:0.24
Consensus pattern (43 bp):
CTTGCCTTCCTGCGTTAACAGAGAAGCAGATCGAAAACAAAGC
Found at i:13421652 original size:87 final size:87
Alignment explanation
Indices: 13420845--13421641 Score: 1234
Period size: 87 Copynumber: 9.2 Consensus size: 87
13420835 AGATCAGTGA
* *
13420845 AGATCGAAAAAAAAGCCTTACCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
* *
13420910 CTTCCTGCGTTAACAGAGAAGT
66 CTTCCTGCGTTAACAGCGAAGC
* *
13420932 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATAGCAAATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
13420997 CTTCCTGCGTTAACAGCGAAGC
66 CTTCCTGCGTTAACAGCGAAGC
*
13421019 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
*
13421084 CTTCCTGCGTTAACAACGAAGC
66 CTTCCTGCGTTAACAGCGAAGC
* *
13421106 AGATCGAAAACAAAGTCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAACAGATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
* *
13421171 CTTCTTGCGTTAACAGCGAAAC
66 CTTCCTGCGTTAACAGCGAAGC
* * * *
13421193 AGACCAAAAACAAAGCCTTGCCTCCATCGATTGCAGTGGAGCTGGTTAAAGATAACAGATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
* *
13421258 CTTCTTGCGTTAACAGCGAAAC
66 CTTCCTGCGTTAACAGCGAAGC
* * * * *
13421280 AGACCAAAAACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATAGCAAATCTTAC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
*
13421345 CTTCCTGCATTAACAGCGAAGC
66 CTTCCTGCGTTAACAGCGAAGC
* * *
13421367 AAATCGAAAACAAAGTCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAACAGATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
**
13421432 CTTCCTGCGTTAACAGTAAAGC
66 CTTCCTGCGTTAACAGCGAAGC
* * * * *
13421454 AGACCGAAAATAAAGCATTGCCTCCATCGATTGCAGTGGAACTGGTTAAAGATAGCAGATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
**
13421519 CTTCCTGCGTTAACAGTAAAGC
66 CTTCCTGCGTTAACAGCGAAGC
* *
13421541 AGATCAAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGACCTGGTTAAAGATAGCAGATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
* *
13421606 CTTTCTGCGTTAATAGCGAAGC
66 CTTCCTGCGTTAACAGCGAAGC
13421628 AGATCGAAAACAAA
1 AGATCGAAAACAAA
13421642 ATCTTACCTC
Statistics
Matches: 654, Mismatches: 56, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
87 654 1.00
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.24
Consensus pattern (87 bp):
AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
CTTCCTGCGTTAACAGCGAAGC
Found at i:13421986 original size:88 final size:86
Alignment explanation
Indices: 13421886--13422164 Score: 230
Period size: 88 Copynumber: 3.2 Consensus size: 86
13421876 TCTGTCACCT
13421886 TAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAAGATAGTGGAGAAGCAGAT
1 TAAGCAGTAGTGGAGCAGATCGAAGAT-GTGAATCTTATCTTCCCAAGATAGTGGAGAAGCAGAT
* *
13421951 TTAAGCCATTAGTCCTATCTCCT
65 TTAAG-CATTAATCCTATCTCCC
* * * ** * * *
13421974 TAAACAGTAGTGGAGTAGGTTAAAGAT-TAAAGATCCTATC-TCCCTAAGCAGTAGTGGAGTAG-
1 TAAGCAGTAGTGGAGCAGATCGAAGATGT-GA-ATCTTATCTTCCC-AAG-A-TAGTGGAGAAGC
* * * *
13422036 -G-TTGAAG-ATTGTATATTCTGTCACCC
61 AGATTTAAGCA-T-TA-ATCCTATCTCCC
* *
13422062 TAAGCAGTAGTGGAGCAGATCGAATG-TGATGAACCTTATCTTCTCAAGATAGTGGAGAAGCAGA
1 TAAGCAGTAGTGGAGCAGATCGAA-GATG-TGAATCTTATCTTCCCAAGATAGTGGAGAAGCAGA
*
13422126 TTTAAGTCATTAACCCTATCTCCC
64 TTTAAG-CATTAATCCTATCTCCC
*
13422150 TGAGCAGTAGTGGAG
1 TAAGCAGTAGTGGAG
13422165 TAGGTTGAAT
Statistics
Matches: 144, Mismatches: 30, Indels: 34
0.69 0.14 0.16
Matches are distributed among these distances:
85 1 0.01
86 12 0.08
87 13 0.09
88 92 0.64
89 13 0.09
90 12 0.08
91 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (86 bp):
TAAGCAGTAGTGGAGCAGATCGAAGATGTGAATCTTATCTTCCCAAGATAGTGGAGAAGCAGATT
TAAGCATTAATCCTATCTCCC
Found at i:13422034 original size:176 final size:176
Alignment explanation
Indices: 13421831--13422222 Score: 552
Period size: 176 Copynumber: 2.2 Consensus size: 176
13421821 AAGCCACTAG
* *
13421831 TCCTATCTCCCTAAGCAGTAATGGAGTAGGTTGAAGATTGCAGATTCTGTCACCTTAAGCAGTAG
1 TCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAG
* *
13421896 TGGAGCAGATCGAA-GATGGTGAATCTTATCTTCCCAAGATAGTGGAGAAGCAGATTTAAGCCAT
66 TGGAGCAGATCGAATG-TGATGAACCTTATCTTCCCAAGATAGTGGAGAAGCAGATTTAAGCCAT
** *
13421960 TAGTCCTATCTCCTTAAACAGTAGTGGAGTAGGTTAAAGATTAAAGA
130 TAACCCTATCTCCCTAAACAGTAGTGGAGTAGGTTAAAGATTAAAGA
* *
13422007 TCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGTATATTCTGTCACCCTAAGCAGTAG
1 TCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAG
* *
13422072 TGGAGCAGATCGAATGTGATGAACCTTATCTTCTCAAGATAGTGGAGAAGCAGATTTAAGTCATT
66 TGGAGCAGATCGAATGTGATGAACCTTATCTTCCCAAGATAGTGGAGAAGCAGATTTAAGCCATT
* * * * **
13422137 AACCCTATCTCCCTGAGCAGTAGTGGAGTAGGTTGAATATTGCAGA
131 AACCCTATCTCCCTAAACAGTAGTGGAGTAGGTTAAAGATTAAAGA
** * * * * *
13422183 TTTTCTCACCCTAAGCAGTAGTGGAGCAGATCGAAGATTG
1 TCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTG
13422223 TGAATCTTAT
Statistics
Matches: 191, Mismatches: 24, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
176 190 0.99
177 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.28
Consensus pattern (176 bp):
TCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAG
TGGAGCAGATCGAATGTGATGAACCTTATCTTCCCAAGATAGTGGAGAAGCAGATTTAAGCCATT
AACCCTATCTCCCTAAACAGTAGTGGAGTAGGTTAAAGATTAAAGA
Found at i:13422044 original size:132 final size:132
Alignment explanation
Indices: 13421755--13422032 Score: 394
Period size: 132 Copynumber: 2.1 Consensus size: 132
13421745 TTCCTCTCCC
* * * * * *
13421755 AAGCAGTAGTGGAGCAAATCAAAGTTAGTGAATCTTATCTTCTCAATATAGTGGAGAAGCAAATT
1 AAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAAGATAGTGGAGAAGCAAATT
* * ** * *
13421820 TAAGCCACTAGTCCTATCTCCCTAAGCAGTAATGGAGTAGGTTGAAGATTGCAGATTCTGTCACC
66 TAAGCCACTAGTCCTATCTCCCTAAACAGTAATGGAGTAGGTTAAAGATTAAAGATCCTATCACC
*
13421885 TT
131 CT
*
13421887 AAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAAGATAGTGGAGAAGCAGATT
1 AAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAAGATAGTGGAGAAGCAAATT
* * * *
13421952 TAAGCCATTAGTCCTATCTCCTTAAACAGTAGTGGAGTAGGTTAAAGATTAAAGATCCTATCTCC
66 TAAGCCACTAGTCCTATCTCCCTAAACAGTAATGGAGTAGGTTAAAGATTAAAGATCCTATCACC
13422017 CT
131 CT
13422019 AAGCAGTAGTGGAG
1 AAGCAGTAGTGGAG
13422033 TAGGTTGAAG
Statistics
Matches: 128, Mismatches: 18, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
132 128 1.00
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (132 bp):
AAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAAGATAGTGGAGAAGCAAATT
TAAGCCACTAGTCCTATCTCCCTAAACAGTAATGGAGTAGGTTAAAGATTAAAGATCCTATCACC
CT
Found at i:13422063 original size:44 final size:44
Alignment explanation
Indices: 13421963--13422076 Score: 138
Period size: 44 Copynumber: 2.6 Consensus size: 44
13421953 AAGCCATTAG
* * *
13421963 TCCTATCTCCTTAAACAGTAGTGGAGTAGGTTAAAGATTAAAGA
1 TCCTATCACCCTAAGCAGTAGTGGAGTAGGTTAAAGATTAAAGA
* * ** *
13422007 TCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGTATA
1 TCCTATCACCCTAAGCAGTAGTGGAGTAGGTTAAAGATTAAAGA
* *
13422051 TTCTGTCACCCTAAGCAGTAGTGGAG
1 TCCTATCACCCTAAGCAGTAGTGGAG
13422077 CAGATCGAAT
Statistics
Matches: 61, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
44 61 1.00
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.30
Consensus pattern (44 bp):
TCCTATCACCCTAAGCAGTAGTGGAGTAGGTTAAAGATTAAAGA
Found at i:13422326 original size:308 final size:308
Alignment explanation
Indices: 13421755--13422339 Score: 886
Period size: 308 Copynumber: 1.9 Consensus size: 308
13421745 TTCCTCTCCC
* * *
13421755 AAGCAGTAGTGGAGCAAATCAAAGTTAGTGAATCTTATCTTCTCAATATAGTGGAGAAGCAAATT
1 AAGCAGTAGTGGAGCAAATCAAAGTGAGTGAACCTTATCTTCTCAAGATAGTGGAGAAGCAAATT
** *
13421820 TAAGCCACTAGTCCTATCTCCCTAAGCAGTAATGGAGTAGGTTGAAGATTGCAGATTCTGTCACC
66 TAAGCCACTAACCCTATCTCCCTAAGCAGTAATGGAGTAGGTTGAAGATTGCAGATTCTCTCACC
*
13421885 TTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAAGATAGTGGAGAAGCAGA
131 CTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAAGATAGTGGAGAAGCAGA
* * *
13421950 TTTAAGCCATTAGTCCTATCTCCTTAAACAGTAGTGGAGTAGGTTAAAGATTAAAGATCCTATCT
196 TTTAAGCCATTAGCCCTATCTCCCTAAACAGCAGTGGAGTAGGTTAAAGATTAAAGATCCTATCT
13422015 CCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGTATATTCTGTCACCCT
261 CCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGTATATTCTGTCACCCT
* * *
13422063 AAGCAGTAGTGGAGCAGATCGAATGTGA-TGAACCTTATCTTCTCAAGATAGTGGAGAAGCAGAT
1 AAGCAGTAGTGGAGCAAATC-AAAGTGAGTGAACCTTATCTTCTCAAGATAGTGGAGAAGCAAAT
* * * * * *
13422127 TTAAGTCATTAACCCTATCTCCCTGAGCAGTAGTGGAGTAGGTTGAATATTGCAGATTTTCTCAC
65 TTAAGCCACTAACCCTATCTCCCTAAGCAGTAATGGAGTAGGTTGAAGATTGCAGATTCTCTCAC
* *
13422192 CCTAAGCAGTAGTGGAGCAGATCGAAGATTGTGAATCTTATCTTCTCAAGATAGTGGAGAAGCAG
130 CCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAAGATAGTGGAGAAGCAG
* * * * ** *
13422257 ATTTAAGCCATTAGCCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGCAA-ATTTTGT
195 ATTTAAGCCATTAGCCCTATCTCCCTAAACAGCAGTGGAGTAGGTTAAAGATT-AAAGATCCTAT
13422321 CTCCCTAAGCAGTAGTGGA
259 CTCCCTAAGCAGTAGTGGA
13422340 ACAAATCAAA
Statistics
Matches: 247, Mismatches: 28, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
308 240 0.97
309 7 0.03
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (308 bp):
AAGCAGTAGTGGAGCAAATCAAAGTGAGTGAACCTTATCTTCTCAAGATAGTGGAGAAGCAAATT
TAAGCCACTAACCCTATCTCCCTAAGCAGTAATGGAGTAGGTTGAAGATTGCAGATTCTCTCACC
CTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAAGATAGTGGAGAAGCAGA
TTTAAGCCATTAGCCCTATCTCCCTAAACAGCAGTGGAGTAGGTTAAAGATTAAAGATCCTATCT
CCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGTATATTCTGTCACCCT
Found at i:13422394 original size:132 final size:132
Alignment explanation
Indices: 13422008--13422378 Score: 546
Period size: 132 Copynumber: 2.8 Consensus size: 132
13421998 GATTAAAGAT
* * * *
13422008 CCTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGTATATTCTGTCACCCTAAGCAGTAGT
1 CCTATCTCCCTGAGCAGTAGTGGAGTAGGTTGAAGATTGCAAATTTTGTCACCCTAAGCAGTAGT
* * * *
13422073 GGAGCAGATCGAATG-TGATGAACCTTATCTTCTCAAGATAGTGGAGAAGCAGATTTAAGTCATT
66 GGAGCAGATC-AAAGATGGTGAATCTTATCTTCTCAAGATAGTGGAGAAGCAGATTTAAGCCATT
13422137 AAC
130 AAC
* * *
13422140 CCTATCTCCCTGAGCAGTAGTGGAGTAGGTTGAATATTGCAGATTTTCTCACCCTAAGCAGTAGT
1 CCTATCTCCCTGAGCAGTAGTGGAGTAGGTTGAAGATTGCAAATTTTGTCACCCTAAGCAGTAGT
* *
13422205 GGAGCAGATCGAAGATTGTGAATCTTATCTTCTCAAGATAGTGGAGAAGCAGATTTAAGCCATTA
66 GGAGCAGATCAAAGATGGTGAATCTTATCTTCTCAAGATAGTGGAGAAGCAGATTTAAGCCATTA
*
13422270 GC
131 AC
* *
13422272 CCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGCAAATTTTGTCTCCCTAAGCAGTAGT
1 CCTATCTCCCTGAGCAGTAGTGGAGTAGGTTGAAGATTGCAAATTTTGTCACCCTAAGCAGTAGT
* * * *
13422337 GGAACAAATCAAAGATGGTGAATCTTATCTTCCCAAGGTAGT
66 GGAGCAGATCAAAGATGGTGAATCTTATCTTCTCAAGATAGT
13422379 AGGGAAGTTA
Statistics
Matches: 214, Mismatches: 24, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
131 2 0.01
132 212 0.99
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (132 bp):
CCTATCTCCCTGAGCAGTAGTGGAGTAGGTTGAAGATTGCAAATTTTGTCACCCTAAGCAGTAGT
GGAGCAGATCAAAGATGGTGAATCTTATCTTCTCAAGATAGTGGAGAAGCAGATTTAAGCCATTA
AC
Found at i:13424109 original size:3 final size:3
Alignment explanation
Indices: 13424101--13424161 Score: 95
Period size: 3 Copynumber: 20.3 Consensus size: 3
13424091 ACTTTCAAAA
*
13424101 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT CAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
**
13424149 TGC TAT TAT TAT T
1 TAT TAT TAT TAT T
13424162 TACTCATTTA
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.31, C:0.03, G:0.02, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:13436755 original size:45 final size:44
Alignment explanation
Indices: 13436686--13436901 Score: 166
Period size: 45 Copynumber: 4.8 Consensus size: 44
13436676 ATTGACATTA
*
13436686 GAAATGAGAAAGACCATGGTTGAAAGATACTATGGCATTATACCC
1 GAAATGA-AAAGACCATAGTTGAAAGATACTATGGCATTATACCC
* * * * * * * * *
13436731 GAAACGAGAAAGATCATAGTTGAAAAACACCATGGTATCAAACCG
1 GAAATGA-AAAGACCATAGTTGAAAGATACTATGGCATTATACCC
* * * * * * *
13436776 GAATAT-ATAATACCATAGTTGAAAGATATTATGACACTATATCG
1 GAA-ATGAAAAGACCATAGTTGAAAGATACTATGGCATTATACCC
* ** *
13436820 GAAATGAAAAAGACCATAGTTAAAAGATACTATGATATTA-ATTCC
1 GAAATG-AAAAGACCATAGTTGAAAGATACTATGGCATTATA-CCC
*
13436865 GAAATGAATAAGACCATAGTTGACAGATACTATGGCA
1 GAAATGAA-AAGACCATAGTTGAAAGATACTATGGCA
13436902 ATACATCGGG
Statistics
Matches: 131, Mismatches: 35, Indels: 10
0.74 0.20 0.06
Matches are distributed among these distances:
43 2 0.02
44 30 0.23
45 98 0.75
46 1 0.01
ACGTcount: A:0.44, C:0.14, G:0.18, T:0.24
Consensus pattern (44 bp):
GAAATGAAAAGACCATAGTTGAAAGATACTATGGCATTATACCC
Found at i:13438651 original size:25 final size:25
Alignment explanation
Indices: 13438623--13438730 Score: 126
Period size: 25 Copynumber: 4.3 Consensus size: 25
13438613 AATGAATCGT
* *
13438623 CACAAAGGATTTAAAGGTGACTCAC
1 CACAAAGGCTTTATAGGTGACTCAC
* *
13438648 CACAAAGGCTTTCTAGGTGATTCAC
1 CACAAAGGCTTTATAGGTGACTCAC
* * *
13438673 CACAAAGGCTTTACAGGTGATTCGC
1 CACAAAGGCTTTATAGGTGACTCAC
* **
13438698 CATAAAGGCTTTATAGGTGACTTGC
1 CACAAAGGCTTTATAGGTGACTCAC
13438723 CACAAAGG
1 CACAAAGG
13438731 TTGTAACGAC
Statistics
Matches: 71, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 71 1.00
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.24
Consensus pattern (25 bp):
CACAAAGGCTTTATAGGTGACTCAC
Found at i:13438672 original size:75 final size:75
Alignment explanation
Indices: 13438592--13438730 Score: 170
Period size: 75 Copynumber: 1.9 Consensus size: 75
13438582 CAGACTAACA
** * *
13438592 ATTCACCACTTAGGCTTTCCAAATGAATCGTCACAAAGGATTTAAAGGTGACTCACCACAAAGGC
1 ATTCACCACAAAGGCTTTACAAATGAATCGCCACAAAGGATTTAAAGGTGACTCACCACAAAGGC
13438657 TTTCTAGGTG
66 TTTCTAGGTG
** * * * * **
13438667 ATTCACCACAAAGGCTTTACAGGTGATTCGCCATAAAGGCTTTATAGGTGACTTGCCACAAAGG
1 ATTCACCACAAAGGCTTTACAAATGAATCGCCACAAAGGATTTAAAGGTGACTCACCACAAAGG
13438731 TTGTAACGAC
Statistics
Matches: 52, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
75 52 1.00
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.26
Consensus pattern (75 bp):
ATTCACCACAAAGGCTTTACAAATGAATCGCCACAAAGGATTTAAAGGTGACTCACCACAAAGGC
TTTCTAGGTG
Found at i:13440080 original size:25 final size:25
Alignment explanation
Indices: 13440045--13440103 Score: 91
Period size: 25 Copynumber: 2.4 Consensus size: 25
13440035 AAGGGTGTTT
* *
13440045 CAAAGGCTTTACAGTTGACTCGTCA
1 CAAAGGCTTTAAAGGTGACTCGTCA
*
13440070 TAAAGGCTTTAAAGGTGACTCGTCA
1 CAAAGGCTTTAAAGGTGACTCGTCA
13440095 CAAAGGCTT
1 CAAAGGCTT
13440104 CCCAATTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (25 bp):
CAAAGGCTTTAAAGGTGACTCGTCA
Found at i:13440896 original size:327 final size:326
Alignment explanation
Indices: 13440296--13441279 Score: 1754
Period size: 327 Copynumber: 3.0 Consensus size: 326
13440286 CATATCTGTC
13440296 ACATTAGCCTTTCTCATTTTTACTATCTCAGCGATTCTCGTGTTTATGGTCCCGATGGACTACAT
1 ACATTAGCCTTTCTCATTTTTACTATCTCAGCGATTCTCGTGTTTATGGTCCCGATGGACTACAT
* *
13440361 TTCACCATACTGGACTTCATGTTTACTGTCTTAGCGGATGTCATCAAAGCACCACCGCGAGGTCC
66 TTCACCATACTGGACTTCATGTTTACTGTCCTAGCGGAAGTCATCAAAGCACCACCGCG-GGTCC
* *
13440426 GTCATTGTATCACATACTTTCTCGACACTCTGCCTGAACCCCCTTATCATCAACCATACTTAGTC
130 GTCATTGTATCACATACTTTCTCGACACTCCGCCTGAACCCCCTTATCACCAACCATACTTAGTC
13440491 ATGCATCACTCAAATAACATAATGGACATATCTACATAGATTTTGCTTATAATCTTAATAGAATT
195 ATGCATCACTCAAATAACATAATGGACATATCTACATAGATTTTGCTTATAATCTTAATAGAATT
* *
13440556 ACACTTTCTAACACATAATTTCCCATGCATGTTTACCACACATCGTCATATTCATGCAGTGCATC
260 ATACTTCCTAACACATAATTTCCCATGCATGTTTACCACACATCGTCATATTCATGCAGTGCATC
13440621 GT
325 GT
*
13440623 ACATTAGCCTTTCTCATTTTTACTATCTCAGCGATTCTCGTGTTTATGGTCCCGATGGCCTACAT
1 ACATTAGCCTTTCTCATTTTTACTATCTCAGCGATTCTCGTGTTTATGGTCCCGATGGACTACAT
*
13440688 TTCACCATACTGGACTTCATGTTTACTGTCCTAGCGGACGTCATCAAAGCACCACCGCAGGGTCC
66 TTCACCATACTGGACTTCATGTTTACTGTCCTAGCGGAAGTCATCAAAGCACCACCGC-GGGTCC
* *
13440753 GTCATTGTATCACATACTTTCTCGACACTCCGCCTGAACCCCTTTAGCACCAACCATACTTAGTC
130 GTCATTGTATCACATACTTTCTCGACACTCCGCCTGAACCCCCTTATCACCAACCATACTTAGTC
*
13440818 ATGCATCACTCAAATAACATAATAGACATATCTACATAGATTTTGCTTATAATCTTAATAGAATT
195 ATGCATCACTCAAATAACATAATGGACATATCTACATAGATTTTGCTTATAATCTTAATAGAATT
*
13440883 ATACTTCCTAACACATAATTTCCCATGCATGTTTACCACACATCATCATATTCATGCAGTGCATC
260 ATACTTCCTAACACATAATTTCCCATGCATGTTTACCACACATCGTCATATTCATGCAGTGCATC
*
13440948 GC
325 GT
*
13440950 ACATTAGCCTTTCTCATTTTTACTATCTCAGCGATTCTCGTGTTTATTGTCCCGATGGACTACAT
1 ACATTAGCCTTTCTCATTTTTACTATCTCAGCGATTCTCGTGTTTATGGTCCCGATGGACTACAT
13441015 TTCACCATACTGGACTTCATGTTTACTGTCCTAGCGGAAGTCATCAAAGCACCACCATG-GGGTC
66 TTCACCATACTGGACTTCATGTTTACTGTCCTAGCGGAAGTCATCAAAGCACCACC--GCGGGTC
* *
13441079 CGTCATTATATCACATACTTTCTCGACAGTCCGCCTGAACCCCCTTATCACCAACCATACTTAGT
129 CGTCATTGTATCACATACTTTCTCGACACTCCGCCTGAACCCCCTTATCACCAACCATACTTAGT
13441144 CATGCATCACTCAAATAACATAATGGACATATCTACATAGATTTTGCTTATAATCTTAATAGAAT
194 CATGCATCACTCAAATAACATAATGGACATATCTACATAGATTTTGCTTATAATCTTAATAGAAT
* *
13441209 TATACTTCCTAACACATAATTTCCCATGCATGTTTACCAGACATCGTCATATTCATGCAATGCAT
259 TATACTTCCTAACACATAATTTCCCATGCATGTTTACCACACATCGTCATATTCATGCAGTGCAT
*
13441274 CCT
324 CGT
13441277 ACA
1 ACA
13441280 CTTCAATACA
Statistics
Matches: 629, Mismatches: 25, Indels: 6
0.95 0.04 0.01
Matches are distributed among these distances:
327 627 1.00
328 1 0.00
329 1 0.00
ACGTcount: A:0.28, C:0.27, G:0.12, T:0.33
Consensus pattern (326 bp):
ACATTAGCCTTTCTCATTTTTACTATCTCAGCGATTCTCGTGTTTATGGTCCCGATGGACTACAT
TTCACCATACTGGACTTCATGTTTACTGTCCTAGCGGAAGTCATCAAAGCACCACCGCGGGTCCG
TCATTGTATCACATACTTTCTCGACACTCCGCCTGAACCCCCTTATCACCAACCATACTTAGTCA
TGCATCACTCAAATAACATAATGGACATATCTACATAGATTTTGCTTATAATCTTAATAGAATTA
TACTTCCTAACACATAATTTCCCATGCATGTTTACCACACATCGTCATATTCATGCAGTGCATCG
T
Found at i:13441294 original size:4 final size:4
Alignment explanation
Indices: 13441285--13441333 Score: 89
Period size: 4 Copynumber: 12.2 Consensus size: 4
13441275 CTACACTTCA
*
13441285 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAT ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
13441333 A
1 A
13441334 AATTCTTCAA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
4 43 1.00
ACGTcount: A:0.51, C:0.22, G:0.00, T:0.27
Consensus pattern (4 bp):
ATAC
Found at i:13444821 original size:5 final size:5
Alignment explanation
Indices: 13444813--13444844 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
13444803 TAAGCATTCG
13444813 ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA AT
1 ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA AT
13444845 AAAAATTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.41, C:0.19, G:0.19, T:0.22
Consensus pattern (5 bp):
ATCGA
Found at i:13444950 original size:31 final size:31
Alignment explanation
Indices: 13444912--13444972 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
13444902 TGCAGTTTTC
*
13444912 TCGAATCGCGTCGAGTGAGATGGAATTCGAA
1 TCGAATCGAGTCGAGTGAGATGGAATTCGAA
13444943 TCGAATCGAGTCGAGTGAGATGGAATTCGA
1 TCGAATCGAGTCGAGTGAGATGGAATTCGA
13444973 GTTAAATTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.30, C:0.15, G:0.33, T:0.23
Consensus pattern (31 bp):
TCGAATCGAGTCGAGTGAGATGGAATTCGAA
Found at i:13444974 original size:16 final size:16
Alignment explanation
Indices: 13444922--13444974 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
13444912 TCGAATCGCG
13444922 TCGAGTGAGATGGAAT
1 TCGAGTGAGATGGAAT
* * *
13444938 TCGAATCGA-ATCG-AG
1 TCGAGT-GAGATGGAAT
13444953 TCGAGTGAGATGGAAT
1 TCGAGTGAGATGGAAT
13444969 TCGAGT
1 TCGAGT
13444975 TAAATTTTAA
Statistics
Matches: 28, Mismatches: 6, Indels: 6
0.70 0.15 0.15
Matches are distributed among these distances:
14 2 0.07
15 9 0.32
16 15 0.54
17 2 0.07
ACGTcount: A:0.30, C:0.11, G:0.34, T:0.25
Consensus pattern (16 bp):
TCGAGTGAGATGGAAT
Found at i:13445892 original size:9 final size:9
Alignment explanation
Indices: 13445878--13445914 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
13445868 TATAGTTTAA
13445878 TATTCGAAT
1 TATTCGAAT
13445887 TATTCGAAT
1 TATTCGAAT
*
13445896 TATTCGAGT
1 TATTCGAAT
13445905 TATTCGAAT
1 TATTCGAAT
13445914 T
1 T
13445915 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:13450696 original size:2 final size:2
Alignment explanation
Indices: 13450689--13450715 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
13450679 AACTAGATAC
13450689 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
13450716 TCTTGGTAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:13473724 original size:104 final size:104
Alignment explanation
Indices: 13473544--13473767 Score: 378
Period size: 104 Copynumber: 2.2 Consensus size: 104
13473534 TGTATATAAA
** * *
13473544 AGGGGTTGCTGTGTGCTGATTCCCCGATTTATGGGTGGTGCTATGTGCGTGATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGTGATCCACCATATCTT
13473609 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* *
13473648 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCG-TGATCCACCATATCT
13473712 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
13473752 AGGGGTTGCTAAGTGC
1 AGGGGTTGCTAAGTGC
13473768 GATATCCATT
Statistics
Matches: 113, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
104 112 0.99
105 1 0.01
ACGTcount: A:0.18, C:0.19, G:0.32, T:0.31
Consensus pattern (104 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGTGATCCACCATATCTT
TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:13473819 original size:71 final size:72
Alignment explanation
Indices: 13473686--13473837 Score: 252
Period size: 71 Copynumber: 2.1 Consensus size: 72
13473676 TCATTGGTGG
* *
13473686 TGCTAAGTGCGATATCCACCATATCTTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
13473751 GAGGGGT
66 GAGGGGT
***
13473758 TGCTAAGTGCGATATCCATTGTATATTTGAAATG-AAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
13473822 GAGGGGT
66 GAGGGGT
13473829 TGCTAAGTG
1 TGCTAAGTG
13473838 ATGATTCCCC
Statistics
Matches: 75, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
71 45 0.60
72 30 0.40
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (72 bp):
TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
GAGGGGT
Found at i:13492779 original size:100 final size:100
Alignment explanation
Indices: 13492595--13494219 Score: 2161
Period size: 100 Copynumber: 16.3 Consensus size: 100
13492585 CCCCTAAGGA
* * * * * *
13492595 TGCAATTAAAAAGATTAAAGCCACAACGGCGAATCTTACTTCCCTAGAGGTGCAGTAGAACAGAT
1 TGCAATTTAAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGAT
* * * *
13492660 TAAAGCTATAACGGCGAATCTTGCTACCCCGACAT
66 TGAAGCTACAACGGTGAATCTTGCTTCCCCGACAT
* * *
13492695 TGCAATTTAAAAGATTGAAGCCAAAACGGTGAATCTTACATCCCTGGCGGTGCAGTGGAATAGAT
1 TGCAATTTAAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGAT
*
13492760 TGAAGCTACAATGGTGAATCTTGCATT-CCCGACAT
66 TGAAGCTACAACGGTGAATCTTGC-TTCCCCGACAT
* * * ** *
13492795 TAG-AATTAAAAAGATTGAAGTCACAACGGCGAATCTTACTAACCTCGCGGTGCAGTGGAACAGA
1 T-GCAATTTAAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGA
*
13492859 TTGAAGCTACAACGGTGAATCTTACTTCCCCGACAT
65 TTGAAGCTACAACGGTGAATCTTGCTTCCCCGACAT
* * *
13492895 TGCAATTTAAAAGATTTAAGCCACAACGGTGAATATTACTTCCTTGGCGGTGCAGTGGAACAGAT
1 TGCAATTTAAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGAT
*
13492960 TGAAGCTACAACGGTGAATCTTACTTCCCCGACAT
66 TGAAGCTACAACGGTGAATCTTGCTTCCCCGACAT
* * *
13492995 TGCAATTTAAAAGATTTAAGCCACAACGGTGAATATTACTTCCTTGGCGGTGCAGTGGAACAGAT
1 TGCAATTTAAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGAT
*
13493060 TGAAGCTACAACGGTGAATCTTACTTCCCCGACAT
66 TGAAGCTACAACGGTGAATCTTGCTTCCCCGACAT
* * *
13493095 TGCAATTTAAAAGATTTAAGCCACAACGGTGAATATTACTTCCTTGGCGGTGCAGTGGAACAGAT
1 TGCAATTTAAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGAT
*
13493160 TGAAGCTACAACGGTGAATCTTACTTCCCCGACAT
66 TGAAGCTACAACGGTGAATCTTGCTTCCCCGACAT
* * *
13493195 TGCAATTTAAAAGATTTAAGCCACAACGGTGAATATTACTTCCTTGGCGGTGCAGTGGAACAGAT
1 TGCAATTTAAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGAT
* * *
13493260 TGAAGCTACAATGGTGAATTTTGCTTTCCCGACAT
66 TGAAGCTACAACGGTGAATCTTGCTTCCCCGACAT
* * * *
13493295 TGCAATTAAAAATATTGAAGCCACAACGGCGAATCTTACTTCCCTGGTGGTGCAGTGGAACAGAT
1 TGCAATTTAAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGAT
*
13493360 TGAAGCTACAACGGTGAATCTTGCTTCTCCGACAT
66 TGAAGCTACAACGGTGAATCTTGCTTCCCCGACAT
* * * *
13493395 TGCAATTTAAAAGATTGAAGCCACAACGGTGAATATTACTTCCTTGGTGGTGCAGTGGAACAAAT
1 TGCAATTTAAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGAT
* * *
13493460 TGAAGCTACAACGGAGAATCTTACTTTCCCGACAT
66 TGAAGCTACAACGGTGAATCTTGCTTCCCCGACAT
* * * * *
13493495 TGCAATTTAAAAGATTGAAGCCACAATGGTGAATTTTAGTTCCCTGGCGGTGTAGTGGAATAGAT
1 TGCAATTTAAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGAT
*
13493560 TGAAGCTACAACGGCGAATCTTGCTTCCCCGACAT
66 TGAAGCTACAACGGTGAATCTTGCTTCCCCGACAT
* * * * * *
13493595 TACAATTTAAAAGATTGAAGCCACAATGGTGAATTTTAGTTCCCTGGCGGTGTAGTGGAATAGAT
1 TGCAATTTAAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGAT
*
13493660 TGAAGCTACAACGGCGAATCTTGCTTCCCCGACAT
66 TGAAGCTACAACGGTGAATCTTGCTTCCCCGACAT
* * *
13493695 TGCAATTTAAAAGCTTGAAACCACAACGGTGAATCTTACTTCCCTGGCAGTGCAGTGGAACAGAT
1 TGCAATTTAAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGAT
* *
13493760 TGAAGTTACAACGGTGAATTTTGCTTCCCCGACAT
66 TGAAGCTACAACGGTGAATCTTGCTTCCCCGACAT
* * *
13493795 TGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTATTTCCCTGGTGGTGCAGTGGAACAGAT
1 TGCAATTTAAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGAT
* *
13493860 TGAAGCTACAACGGCGAATCTTTCTT-CCCGACAT
66 TGAAGCTACAACGGTGAATCTTGCTTCCCCGACAT
* ** * * * *
13493894 TGCAATTAAAAAGATTGAAGCCACAACTATGAATCTTACATCTCTGGCAGTGTAGTGGAACAGAT
1 TGCAATTTAAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGAT
* *
13493959 TGAAGCTACAACGGCGAATCTTTCTT-CCCGACAT
66 TGAAGCTACAACGGTGAATCTTGCTTCCCCGACAT
* ** * * * *
13493993 TGCAATTAAAAAGATTGAAGCCACAACTATGAATCTTACATCTCTGGCAGTGTAGTGGAACAGAT
1 TGCAATTTAAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGAT
* *
13494058 TGAAGCTACAACGGCGAATCTTACTTCCCCGACAT
66 TGAAGCTACAACGGTGAATCTTGCTTCCCCGACAT
* * * ** ** * *
13494093 T--AATGTTAAAAAGATTGAAGCTACAACAGTGAATCTTGCTTCTCC-AACATTGCAGT-TAATT
1 TGCAAT-TT-AAAAGATTGAAGCCACAACGGTGAATCTTACTTC-CCTGGCGGTGCAGTGGAA-C
* * * *
13494154 AGATTGAAGCTACAACAGCGAATCTTACCTCCCCGACAT
62 AGATTGAAGCTACAACGGTGAATCTTGCTTCCCCGACAT
* *
13494193 TACAA-TTAAATAGATTGAAGCTACAAC
1 TGCAATTTAAA-AGATTGAAGCCACAAC
13494220 ATCGAATCTT
Statistics
Matches: 1394, Mismatches: 119, Indels: 24
0.91 0.08 0.02
Matches are distributed among these distances:
98 3 0.00
99 196 0.14
100 1190 0.85
101 3 0.00
102 2 0.00
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (100 bp):
TGCAATTTAAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGAT
TGAAGCTACAACGGTGAATCTTGCTTCCCCGACAT
Found at i:13494425 original size:45 final size:45
Alignment explanation
Indices: 13494260--13494654 Score: 317
Period size: 44 Copynumber: 9.0 Consensus size: 45
13494250 GAGCAAATCG
* * *
13494260 AGACTGAAGATAGCAAATCTTATCTCTCTGAAGTTGCAATAGAGC
1 AGACTGAAGATAGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGC
* * * * *
13494305 AGA-T---TATATCAAACCTTATCTTCCTGAAGTTGCAGTGGAAC
1 AGACTGAAGATAGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGC
** * *
13494346 AGGTTGAAGCA-A-CAAGTCTTATCTCCCTAAAGTTGCAGTGGAGC
1 AGACTGAAG-ATAGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGC
* *
13494390 AAACTGAAGATAGCAAATCTTATCTCCCTGAAGTTGCAGTGGAAC
1 AGACTGAAGATAGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGC
*
13494435 AGACTGAAGATAGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGT
1 AGACTGAAGATAGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGC
* * * * * * *
13494480 AGATTAAAGCTA-CAAA-CATTATCTCTCTGAAGTTACAATAGAGC
1 AGACTGAAGATAGCAAATC-TTATCTCCCTGAAGTTGCAGTGGAGC
** ** * * * *
13494524 AGGTTGAAG-TAATAAACCTTATCCCCCTGAAGTTACAGTGGGGC
1 AGACTGAAGATAGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGC
** * * * * * *
13494568 AGGTTGAATAT-GCAAGTCTTATCTCCTTGAAGTTGGAATGGAAC
1 AGACTGAAGATAGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGC
* ** *
13494612 AGACTGAAGCTA-TTAATCCTATCTCCCTGAAGTTGCAGTGGAG
1 AGACTGAAGATAGCAAATCTTATCTCCCTGAAGTTGCAGTGGAG
13494655 TGAATTAAAA
Statistics
Matches: 274, Mismatches: 64, Indels: 25
0.75 0.18 0.07
Matches are distributed among these distances:
41 31 0.11
42 1 0.00
43 4 0.01
44 151 0.55
45 86 0.31
46 1 0.00
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (45 bp):
AGACTGAAGATAGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGC
Found at i:13496500 original size:12 final size:12
Alignment explanation
Indices: 13496483--13496508 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
13496473 CAAAACAGGC
13496483 TTTTAGCGGCGT
1 TTTTAGCGGCGT
13496495 TTTTAGCGGCGT
1 TTTTAGCGGCGT
13496507 TT
1 TT
13496509 GGATAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.15, G:0.31, T:0.46
Consensus pattern (12 bp):
TTTTAGCGGCGT
Found at i:13496640 original size:41 final size:41
Alignment explanation
Indices: 13496583--13496982 Score: 683
Period size: 41 Copynumber: 9.7 Consensus size: 41
13496573 TAAGCCCAAC
13496583 TTTTTGAGGAAGCGCCGCTAATGCTCAGGCCTTTAGCGGCG
1 TTTTTGAGGAAGCGCCGCTAATGCTCAGGCCTTTAGCGGCG
*
13496624 TTTTTGAGGAAGCGCCGCTAATGCTCAGGCCTTTAGCGGCA
1 TTTTTGAGGAAGCGCCGCTAATGCTCAGGCCTTTAGCGGCG
* *
13496665 TTTTTGAGGAAGCGCCGCTAATGCTCAGGACTTTAGCAGCG
1 TTTTTGAGGAAGCGCCGCTAATGCTCAGGCCTTTAGCGGCG
13496706 TTTTTTGAGGAAGCGCCGCTAATGCTCAGGCCTTTAGCGGCG
1 -TTTTTGAGGAAGCGCCGCTAATGCTCAGGCCTTTAGCGGCG
*
13496748 TTTTTGAGGAAGCGCCGCTAATGCTCAGGCCTTTAGCGGCA
1 TTTTTGAGGAAGCGCCGCTAATGCTCAGGCCTTTAGCGGCG
* *
13496789 TTTTTGAGGAAGCGCCGCTAATGCTCAGGACTTTAGCAGCG
1 TTTTTGAGGAAGCGCCGCTAATGCTCAGGCCTTTAGCGGCG
*
13496830 TTTTTTGAGGAAGCGCCGCTAATGCTCAGGCCTTTAGCGGCA
1 -TTTTTGAGGAAGCGCCGCTAATGCTCAGGCCTTTAGCGGCG
* *
13496872 TTTTTGAGGAAGCGCCGCTAATGCTCAGGACTTTAGCAGCG
1 TTTTTGAGGAAGCGCCGCTAATGCTCAGGCCTTTAGCGGCG
13496913 TTTTTTGAGGAAGCGCCGCTAATGCTCAGGCCTTTAGCGGCG
1 -TTTTTGAGGAAGCGCCGCTAATGCTCAGGCCTTTAGCGGCG
*
13496955 TTTTTTAGGAAGCGCCGCTAATGCTCAG
1 TTTTTGAGGAAGCGCCGCTAATGCTCAG
13496983 TGATTTAAAA
Statistics
Matches: 337, Mismatches: 19, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
41 221 0.66
42 116 0.34
ACGTcount: A:0.20, C:0.23, G:0.29, T:0.28
Consensus pattern (41 bp):
TTTTTGAGGAAGCGCCGCTAATGCTCAGGCCTTTAGCGGCG
Found at i:13496736 original size:124 final size:124
Alignment explanation
Indices: 13496583--13496982 Score: 730
Period size: 124 Copynumber: 3.2 Consensus size: 124
13496573 TAAGCCCAAC
13496583 TTTTTGAGGAAGCGCCGCTAATGCTCAGGCCTTTAGCGGCGTTTTTGAGGAAGCGCCGCTAATGC
1 TTTTTGAGGAAGCGCCGCTAATGCTCAGGCCTTTAGCGGCGTTTTTGAGGAAGCGCCGCTAATGC
13496648 TCAGGCCTTTAGCGGCATTTTTGAGGAAGCGCCGCTAATGCTCAGGACTTTAGCAGCGT
66 TCAGGCCTTTAGCGGCATTTTTGAGGAAGCGCCGCTAATGCTCAGGACTTTAGCAGCGT
13496707 TTTTTGAGGAAGCGCCGCTAATGCTCAGGCCTTTAGCGGCGTTTTTGAGGAAGCGCCGCTAATGC
1 TTTTTGAGGAAGCGCCGCTAATGCTCAGGCCTTTAGCGGCGTTTTTGAGGAAGCGCCGCTAATGC
13496772 TCAGGCCTTTAGCGGCATTTTTGAGGAAGCGCCGCTAATGCTCAGGACTTTAGCAGCGT
66 TCAGGCCTTTAGCGGCATTTTTGAGGAAGCGCCGCTAATGCTCAGGACTTTAGCAGCGT
*
13496831 TTTTTGAGGAAGCGCCGCTAATGCTCAGGCCTTTAGCGGCATTTTTGAGGAAGCGCCGCTAATGC
1 TTTTTGAGGAAGCGCCGCTAATGCTCAGGCCTTTAGCGGCGTTTTTGAGGAAGCGCCGCTAATGC
* * * * *
13496896 TCAGGACTTTAGCAGCGTTTTTTGAGGAAGCGCCGCTAATGCTCAGGCCTTTAGCGGCGT
66 TCAGGCCTTTAGCGGC-ATTTTTGAGGAAGCGCCGCTAATGCTCAGGACTTTAGCAGCGT
13496956 TTTTT-AGGAAGCGCCGCTAATGCTCAG
1 TTTTTGAGGAAGCGCCGCTAATGCTCAG
13496983 TGATTTAAAA
Statistics
Matches: 269, Mismatches: 6, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
124 224 0.83
125 45 0.17
ACGTcount: A:0.20, C:0.23, G:0.29, T:0.28
Consensus pattern (124 bp):
TTTTTGAGGAAGCGCCGCTAATGCTCAGGCCTTTAGCGGCGTTTTTGAGGAAGCGCCGCTAATGC
TCAGGCCTTTAGCGGCATTTTTGAGGAAGCGCCGCTAATGCTCAGGACTTTAGCAGCGT
Found at i:13496752 original size:83 final size:84
Alignment explanation
Indices: 13496583--13496982 Score: 677
Period size: 83 Copynumber: 4.8 Consensus size: 84
13496573 TAAGCCCAAC
13496583 TTTTTGAGGAAGCGCCGCTAATGCTCAGGCCTTTAGCGGCG-TTTTTGAGGAAGCGCCGCTAATG
1 TTTTTGAGGAAGCGCCGCTAATGCTCAGGCCTTTAGCGGCGATTTTTGAGGAAGCGCCGCTAATG
* * *
13496647 CTCAGGCCTTTAGCGGC-A
66 CTCAGGACTTTAGCAGCGT
* * *
13496665 TTTTTGAGGAAGCGCCGCTAATGCTCAGGACTTTAGCAGCGTTTTTTGAGGAAGCGCCGCTAATG
1 TTTTTGAGGAAGCGCCGCTAATGCTCAGGCCTTTAGCGGCGATTTTTGAGGAAGCGCCGCTAATG
* *
13496730 CTCAGGCCTTTAGCGGCG-
66 CTCAGGACTTTAGCAGCGT
13496748 TTTTTGAGGAAGCGCCGCTAATGCTCAGGCCTTTAGCGGC-ATTTTTGAGGAAGCGCCGCTAATG
1 TTTTTGAGGAAGCGCCGCTAATGCTCAGGCCTTTAGCGGCGATTTTTGAGGAAGCGCCGCTAATG
13496812 CTCAGGACTTTAGCAGCGT
66 CTCAGGACTTTAGCAGCGT
13496831 TTTTTGAGGAAGCGCCGCTAATGCTCAGGCCTTTAGCGGC-ATTTTTGAGGAAGCGCCGCTAATG
1 TTTTTGAGGAAGCGCCGCTAATGCTCAGGCCTTTAGCGGCGATTTTTGAGGAAGCGCCGCTAATG
13496895 CTCAGGACTTTAGCAGCGT
66 CTCAGGACTTTAGCAGCGT
*
13496914 TTTTTGAGGAAGCGCCGCTAATGCTCAGGCCTTTAGCGGCG-TTTTTTAGGAAGCGCCGCTAATG
1 TTTTTGAGGAAGCGCCGCTAATGCTCAGGCCTTTAGCGGCGATTTTTGAGGAAGCGCCGCTAATG
13496978 CTCAG
66 CTCAG
13496983 TGATTTAAAA
Statistics
Matches: 306, Mismatches: 8, Indels: 7
0.95 0.02 0.02
Matches are distributed among these distances:
82 78 0.25
83 228 0.75
ACGTcount: A:0.20, C:0.23, G:0.29, T:0.28
Consensus pattern (84 bp):
TTTTTGAGGAAGCGCCGCTAATGCTCAGGCCTTTAGCGGCGATTTTTGAGGAAGCGCCGCTAATG
CTCAGGACTTTAGCAGCGT
Found at i:13497252 original size:22 final size:21
Alignment explanation
Indices: 13497227--13497274 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
13497217 TTGTTACCAT
*
13497227 TTTAAGGTTTATGGATTATGGG
1 TTTAAGGGTTATGGATTAT-GG
* *
13497249 TTTAGGGGTTATGGTTTATGG
1 TTTAAGGGTTATGGATTATGG
13497270 TTTAA
1 TTTAA
13497275 AGGCTGGAGT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
21 6 0.27
22 16 0.73
ACGTcount: A:0.21, C:0.00, G:0.31, T:0.48
Consensus pattern (21 bp):
TTTAAGGGTTATGGATTATGG
Found at i:13497586 original size:14 final size:15
Alignment explanation
Indices: 13497557--13497594 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
13497547 AATAATTACA
*
13497557 TATGGATTTAGTGAT
1 TATGGATTTAGGGAT
13497572 TATGGA-TTAGGGAT
1 TATGGATTTAGGGAT
13497586 TATGG-TTTA
1 TATGGATTTA
13497595 AGGGTTGGGC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 15 0.71
15 6 0.29
ACGTcount: A:0.26, C:0.00, G:0.29, T:0.45
Consensus pattern (15 bp):
TATGGATTTAGGGAT
Found at i:13498133 original size:14 final size:14
Alignment explanation
Indices: 13498114--13498141 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
13498104 TTATCAAAAT
13498114 TTTAAATAATATTA
1 TTTAAATAATATTA
13498128 TTTAAATAATATTA
1 TTTAAATAATATTA
13498142 ATAATGATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
TTTAAATAATATTA
Found at i:13498413 original size:83 final size:74
Alignment explanation
Indices: 13498343--13498478 Score: 191
Period size: 74 Copynumber: 1.8 Consensus size: 74
13498333 ATTGACGAAA
* * * * * *
13498343 TAAATATTAGTGACGTTTTGTATACAAACGCCGCAAAAAATATATTAAAAATTTAATAAAATAGC
1 TAAATTTTAGGGACGTTTTGTATAAAAACGCCGCAAAAAATACATTAAAAATTTAACAAAACAGC
13498408 ACCGTTTAT
66 ACCGTTTAT
* * *
13498417 TAAATTTTAGGGGCGTTTTTTATAAAAACGCCGCAAAAAATACATTAATAATTTAACAAAAC
1 TAAATTTTAGGGACGTTTTGTATAAAAACGCCGCAAAAAATACATTAAAAATTTAACAAAAC
13498479 GGCGCTATTT
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
74 53 1.00
ACGTcount: A:0.45, C:0.12, G:0.11, T:0.32
Consensus pattern (74 bp):
TAAATTTTAGGGACGTTTTGTATAAAAACGCCGCAAAAAATACATTAAAAATTTAACAAAACAGC
ACCGTTTAT
Found at i:13503438 original size:13 final size:13
Alignment explanation
Indices: 13503420--13503449 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
13503410 TGCTTCTTTG
13503420 CTTGCAATCATAC
1 CTTGCAATCATAC
13503433 CTTGCAATCATAC
1 CTTGCAATCATAC
13503446 CTTG
1 CTTG
13503450 TTTATTTCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.27, C:0.30, G:0.10, T:0.33
Consensus pattern (13 bp):
CTTGCAATCATAC
Found at i:13505954 original size:43 final size:43
Alignment explanation
Indices: 13505906--13506152 Score: 345
Period size: 43 Copynumber: 5.8 Consensus size: 43
13505896 GATATGTTTT
* * *
13505906 TAGCGGTGTTTGTGGTAAAAGCGTCGCTAAAGGTCCTGATCTA
1 TAGCGGCGTTTGTGGTAAAAGCGCCGCTAAAGGTCCTGGTCTA
* * * *
13505949 TAGCGGCGTTTGTGGGAAAAGCGCTGCTAAAGGTCTTGATCTA
1 TAGCGGCGTTTGTGGTAAAAGCGCCGCTAAAGGTCCTGGTCTA
*
13505992 TAGCGGCGTTTGT-GTAAAAAGCGCCTCTAAAGGTCCTGGTCTA
1 TAGCGGCGTTTGTGGT-AAAAGCGCCGCTAAAGGTCCTGGTCTA
*
13506035 TAGCGGCGTTTGTGCTAAAAGCGCCGCTAAAGGTCCTGGTCTA
1 TAGCGGCGTTTGTGGTAAAAGCGCCGCTAAAGGTCCTGGTCTA
* * * *
13506078 TAACGGTGTTTGTGCTAAAAGCGCCGCTAAAGGTCTTGGTCTA
1 TAGCGGCGTTTGTGGTAAAAGCGCCGCTAAAGGTCCTGGTCTA
*
13506121 TAGCGGCATTTGTGG-AAAAGCGCCGCTAAAGG
1 TAGCGGCGTTTGTGGTAAAAGCGCCGCTAAAGG
13506153 CATAAAAAAA
Statistics
Matches: 183, Mismatches: 19, Indels: 5
0.88 0.09 0.02
Matches are distributed among these distances:
42 18 0.10
43 164 0.90
44 1 0.01
ACGTcount: A:0.23, C:0.19, G:0.30, T:0.27
Consensus pattern (43 bp):
TAGCGGCGTTTGTGGTAAAAGCGCCGCTAAAGGTCCTGGTCTA
Found at i:13515973 original size:20 final size:19
Alignment explanation
Indices: 13515916--13515973 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 19
13515906 TTTTTATTTA
*
13515916 TTTTTA-AACATTTTATTAG
1 TTTTTATAAC-TTTTATAAG
* *
13515935 TTTTTAGTAAATTTGATAAG
1 TTTTTA-TAACTTTTATAAG
13515955 TTTTTATAACTTCTTATAA
1 TTTTTATAACTT-TTATAA
13515974 TTATTAATAA
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
19 11 0.35
20 18 0.58
21 2 0.06
ACGTcount: A:0.33, C:0.05, G:0.07, T:0.55
Consensus pattern (19 bp):
TTTTTATAACTTTTATAAG
Found at i:13524764 original size:21 final size:21
Alignment explanation
Indices: 13524734--13524773 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
13524724 CTTGCCATCC
*
13524734 ACATCCTCTTACATAGTGATT
1 ACATCATCTTACATAGTGATT
13524755 ACATCATCTTACATAGTGA
1 ACATCATCTTACATAGTGA
13524774 AAAATCACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.23, G:0.10, T:0.35
Consensus pattern (21 bp):
ACATCATCTTACATAGTGATT
Found at i:13526048 original size:2 final size:2
Alignment explanation
Indices: 13526037--13526066 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
13526027 AAAATTAGTT
13526037 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
13526067 GAATGAATTG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:13529031 original size:27 final size:27
Alignment explanation
Indices: 13528992--13529045 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
13528982 TTTAACGATG
13528992 AATTTTTACATAATAATATTAAACTTCTT
1 AATTTTTA-ATAATAATATTAAA-TTCTT
* *
13529021 AATTTTT-ATAATTATTTTAAATTCT
1 AATTTTTAATAATAATATTAAATTCT
13529046 GGACTCATCG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
26 4 0.17
27 12 0.52
29 7 0.30
ACGTcount: A:0.39, C:0.07, G:0.00, T:0.54
Consensus pattern (27 bp):
AATTTTTAATAATAATATTAAATTCTT
Found at i:13532077 original size:31 final size:33
Alignment explanation
Indices: 13532039--13532099 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 33
13532029 TCAAAATTTA
*
13532039 AATAATTT-TACTA-TAAATATGAAATATTTGT
1 AATAATTTATACTAGTAAATATAAAATATTTGT
*
13532070 AATAATTTATGCTAGTAAATATAAAATATT
1 AATAATTTATACTAGTAAATATAAAATATT
13532100 ATAAACCATA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 8 0.31
32 4 0.15
33 14 0.54
ACGTcount: A:0.48, C:0.03, G:0.07, T:0.43
Consensus pattern (33 bp):
AATAATTTATACTAGTAAATATAAAATATTTGT
Found at i:13540364 original size:51 final size:51
Alignment explanation
Indices: 13540288--13540528 Score: 419
Period size: 51 Copynumber: 4.7 Consensus size: 51
13540278 CGGATCACAT
*
13540288 TTATCACTTGTTACTTGTCCCTGATCAGATAAGTGTAGCTAAAGCTACCAC
1 TTATCACTTGTTACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
*
13540339 TTATCACTTGTTACTTGTCCCTGATCAGATAAGTGTAGCTAAAGCTACCAC
1 TTATCACTTGTTACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
*
13540390 TTATCCCTTGTTACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
1 TTATCACTTGTTACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
* * *
13540441 TTATCCCTTGTTACTTGTCACTAATCAGATAAGTGTAGCTAAAGCTACCAT
1 TTATCACTTGTTACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
*
13540492 TTATCACTTGTCACTTGTCACTGATCAGATAAGTGTA
1 TTATCACTTGTTACTTGTCACTGATCAGATAAGTGTA
13540529 CTTATCACTT
Statistics
Matches: 183, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 183 1.00
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.34
Consensus pattern (51 bp):
TTATCACTTGTTACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
Found at i:13544786 original size:31 final size:31
Alignment explanation
Indices: 13544744--13544806 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
13544734 AGCACCCGAT
* * *
13544744 AATATAGTCACCAGTACATAGTACCTGATAA
1 AATATAATCACCAGCACATAATACCTGATAA
* *
13544775 AATATAATCACCGGCACATAATGCCTGATAA
1 AATATAATCACCAGCACATAATACCTGATAA
13544806 A
1 A
13544807 CCCAAATGAC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.43, C:0.21, G:0.13, T:0.24
Consensus pattern (31 bp):
AATATAATCACCAGCACATAATACCTGATAA
Found at i:13545351 original size:28 final size:28
Alignment explanation
Indices: 13545311--13545526 Score: 265
Period size: 28 Copynumber: 7.8 Consensus size: 28
13545301 CCTTTGTGGC
* * *
13545311 AATCTGTGAAATGGAAGTCTTCGTGGAG
1 AATCTATGAAATGGAAGCCTTCATGGAG
13545339 AATCTATGAAATGGAAGCCTTCATGGAG
1 AATCTATGAAATGGAAGCCTTCATGGAG
13545367 AATCTATGAAATGGAAGCCTTCATGGAG
1 AATCTATGAAATGGAAGCCTTCATGGAG
* *
13545395 AATCTATGAAATTGAAGCCTTCATGGCG
1 AATCTATGAAATGGAAGCCTTCATGGAG
* * * **
13545423 GATCTAAGAAATGGAAGGCTT--TGTGCC
1 AATCTATGAAATGGAAGCCTTCATG-GAG
* *
13545450 AATATATGAAATGGAAGCCTTCATGGAA
1 AATCTATGAAATGGAAGCCTTCATGGAG
* * *
13545478 AATCTATAAAATGAAAGCCTTCATGGTG
1 AATCTATGAAATGGAAGCCTTCATGGAG
*
13545506 AATCTTTGAAATGGAAGCCTT
1 AATCTATGAAATGGAAGCCTT
13545527 TGTGACGGAT
Statistics
Matches: 161, Mismatches: 24, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
26 2 0.01
27 19 0.12
28 138 0.86
29 2 0.01
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (28 bp):
AATCTATGAAATGGAAGCCTTCATGGAG
Found at i:13545482 original size:83 final size:83
Alignment explanation
Indices: 13545319--13545530 Score: 248
Period size: 83 Copynumber: 2.5 Consensus size: 83
13545309 GCAATCTGTG
* * * * * ** *
13545319 AAATGGAAGTCTTCGTGGAGAATCTATGAAATGGAAGCCTTCATG-GAGAATCTATGAAATGGAA
1 AAATGAAAGCCTTCATGGCGAATCTAAGAAATGGAAGCCTT--TGTGCCAATATATGAAATGGAA
*
13545383 GCCTTCATGGAGAATCTATGA
64 GCCTTCATGGAAAATCTAT-A
* * *
13545404 AATTG-AAGCCTTCATGGCGGATCTAAGAAATGGAAGGCTTTGTGCCAATATATGAAATGGAAGC
1 AAATGAAAGCCTTCATGGCGAATCTAAGAAATGGAAGCCTTTGTGCCAATATATGAAATGGAAGC
13545468 CTTCATGGAAAATCTATA
66 CTTCATGGAAAATCTATA
* **
13545486 AAATGAAAGCCTTCATGGTGAATCTTTGAAATGGAAGCCTTTGTG
1 AAATGAAAGCCTTCATGGCGAATCTAAGAAATGGAAGCCTTTGTG
13545531 ACGGATCTAA
Statistics
Matches: 108, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
82 7 0.06
83 68 0.63
84 29 0.27
85 4 0.04
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.27
Consensus pattern (83 bp):
AAATGAAAGCCTTCATGGCGAATCTAAGAAATGGAAGCCTTTGTGCCAATATATGAAATGGAAGC
CTTCATGGAAAATCTATA
Found at i:13545490 original size:111 final size:111
Alignment explanation
Indices: 13545343--13545545 Score: 316
Period size: 111 Copynumber: 1.8 Consensus size: 111
13545333 GTGGAGAATC
* * * *
13545343 TATGAAATGGAAGCCTTCATGGAGAATCTATGAAATGGAAGCCTTCATGGAGAATCTATGAAATT
1 TATGAAATGGAAGCCTTCATGGAAAATCTATAAAATGAAAGCCTTCATGGAGAATCTATGAAATG
* *
13545408 GAAGCCTTCATGGCGGATCTAAGAAATGGAAGGCTTTGTGCCAATA
66 GAAGCCTTCATGACGGATCTAAAAAATGGAAGGCTTTGTGCCAATA
* *
13545454 TATGAAATGGAAGCCTTCATGGAAAATCTATAAAATGAAAGCCTTCATGGTGAATCTTTGAAATG
1 TATGAAATGGAAGCCTTCATGGAAAATCTATAAAATGAAAGCCTTCATGGAGAATCTATGAAATG
**
13545519 GAAGCCTTTGTGACGGATCTAAAAAAT
66 GAAGCCTTCATGACGGATCTAAAAAAT
13545546 AGAAACCTTT
Statistics
Matches: 82, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
111 82 1.00
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.27
Consensus pattern (111 bp):
TATGAAATGGAAGCCTTCATGGAAAATCTATAAAATGAAAGCCTTCATGGAGAATCTATGAAATG
GAAGCCTTCATGACGGATCTAAAAAATGGAAGGCTTTGTGCCAATA
Found at i:13545538 original size:28 final size:27
Alignment explanation
Indices: 13545291--13545558 Score: 179
Period size: 28 Copynumber: 9.7 Consensus size: 27
13545281 ACAGGCTAGA
* *
13545291 GAAATGGAAACCTTTGTG-GCAATCTGT
1 GAAATGGAAGCCTTTGTGAG-AATCTAT
* *
13545318 GAAATGGAAGTCTTCGTGGAGAATCTAT
1 GAAATGGAAGCCTTTGT-GAGAATCTAT
13545346 GAAATGGAAGCCTTCATG-GAGAATCTAT
1 GAAATGGAAGCCTT--TGTGAGAATCTAT
13545374 GAAATGGAAGCCTTCATG-GAGAATCTAT
1 GAAATGGAAGCCTT--TGTGAGAATCTAT
* * * *
13545402 GAAATTGAAGCCTTCATG-GCGGATCTAA
1 GAAATGGAAGCCTT--TGTGAGAATCTAT
* ** *
13545430 GAAATGGAAGGCTTTGTGCCAATATAT
1 GAAATGGAAGCCTTTGTGAGAATCTAT
*
13545457 GAAATGGAAGCCTTCATG-GAAAATCTAT
1 GAAATGGAAGCCTT--TGTGAGAATCTAT
* * * *
13545485 AAAATGAAAGCCTTCATG-GTGAATCTTT
1 GAAATGGAAGCCTT--TGTGAGAATCTAT
* *
13545513 GAAATGGAAGCCTTTGTGACGGATCTAA
1 GAAATGGAAGCCTTTGTGA-GAATCTAT
* * *
13545541 AAAATAGAAACCTTTGTG
1 GAAATGGAAGCCTTTGTG
13545559 GTCATCTATG
Statistics
Matches: 198, Mismatches: 34, Indels: 17
0.80 0.14 0.07
Matches are distributed among these distances:
26 4 0.02
27 34 0.17
28 156 0.79
29 3 0.02
30 1 0.01
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (27 bp):
GAAATGGAAGCCTTTGTGAGAATCTAT
Found at i:13548734 original size:14 final size:15
Alignment explanation
Indices: 13548697--13548734 Score: 62
Period size: 14 Copynumber: 2.7 Consensus size: 15
13548687 TGAACATGCC
13548697 TATTGTGAAAGAGTT
1 TATTGTGAAAGAGTT
13548712 T-TTGTGAAAGAGTT
1 TATTGTGAAAGAGTT
13548726 TATTG-GAAA
1 TATTGTGAAA
13548735 CACAAAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 18 0.82
15 4 0.18
ACGTcount: A:0.34, C:0.00, G:0.26, T:0.39
Consensus pattern (15 bp):
TATTGTGAAAGAGTT
Found at i:13549740 original size:3 final size:3
Alignment explanation
Indices: 13549722--13549760 Score: 64
Period size: 3 Copynumber: 13.7 Consensus size: 3
13549712 ATATGAATAA
13549722 TTG TT- TTG TT- TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
13549761 CTAATTAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 4 0.12
3 30 0.88
ACGTcount: A:0.00, C:0.00, G:0.28, T:0.72
Consensus pattern (3 bp):
TTG
Found at i:13550917 original size:29 final size:29
Alignment explanation
Indices: 13550785--13551049 Score: 206
Period size: 29 Copynumber: 9.3 Consensus size: 29
13550775 GTATAGATGA
*
13550785 GCCTTTGTGGCTATCTC---TAAATGGAA-
1 GCCTTTGTGGCTATCTCTGTTAAA-AGAAT
*
13550811 GCCTTTGTGGCTATCTCTG--AAAGGAA-
1 GCCTTTGTGGCTATCTCTGTTAAAAGAAT
* * * *
13550837 GCCTTTGTAGCGATCTCTATTACAAGGAA-
1 GCCTTTGTGGCTATCTCTGTTA-AAAGAAT
* * * ** *
13550866 GTCTTTGTGTCGATCTAAGTTAAATGAAT
1 GCCTTTGTGGCTATCTCTGTTAAAAGAAT
* *
13550895 GCCTTTGTGGCTATATCTCTTAAAA-AGAT
1 GCCTTTGTGGCTATCTCTGTTAAAAGA-AT
* *
13550924 TCCTTTGTGGCTATCTCTGTTAAAAGGAT
1 GCCTTTGTGGCTATCTCTGTTAAAAGAAT
* *
13550953 GACTTTGTGGCTATCTCTGTTAAAAGGAT
1 GCCTTTGTGGCTATCTCTGTTAAAAGAAT
* * *
13550982 GACTTTGTGGCTATCTCTGTTAATAGGAT
1 GCCTTTGTGGCTATCTCTGTTAAAAGAAT
* * * * *
13551011 ACCTTTGTGACTAACTCTTTTAAAAGGAT
1 GCCTTTGTGGCTATCTCTGTTAAAAGAAT
13551040 GCCTTTGTGG
1 GCCTTTGTGG
13551050 TAAGACTCTG
Statistics
Matches: 198, Mismatches: 33, Indels: 13
0.81 0.14 0.05
Matches are distributed among these distances:
26 37 0.19
27 3 0.02
28 7 0.04
29 151 0.76
ACGTcount: A:0.24, C:0.17, G:0.22, T:0.37
Consensus pattern (29 bp):
GCCTTTGTGGCTATCTCTGTTAAAAGAAT
Found at i:13552262 original size:22 final size:22
Alignment explanation
Indices: 13552237--13552278 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
13552227 TATCCAAACA
13552237 ATAATA-ACAAAATAGTAGCAAT
1 ATAATAGA-AAAATAGTAGCAAT
*
13552259 ATAATAGAAAAATGGTAGCA
1 ATAATAGAAAAATAGTAGCA
13552279 GAACAACATC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 17 0.94
23 1 0.06
ACGTcount: A:0.57, C:0.07, G:0.14, T:0.21
Consensus pattern (22 bp):
ATAATAGAAAAATAGTAGCAAT
Found at i:13552292 original size:22 final size:21
Alignment explanation
Indices: 13552267--13552313 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
13552257 ATATAATAGA
* *
13552267 AAAATGGTAGCAGAACAACATC
1 AAAATGGCAGCA-AACAACAGC
*
13552289 AAAATGGCAGGAAACAACAGC
1 AAAATGGCAGCAAACAACAGC
13552310 AAAA
1 AAAA
13552314 CAATAATAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 12 0.55
22 10 0.45
ACGTcount: A:0.55, C:0.17, G:0.19, T:0.09
Consensus pattern (21 bp):
AAAATGGCAGCAAACAACAGC
Found at i:13552688 original size:16 final size:16
Alignment explanation
Indices: 13552667--13552714 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
13552657 TATACCTTAA
13552667 TTAATTAATTTAATCT
1 TTAATTAATTTAATCT
*
13552683 TTAATTAGTTT-A-CT
1 TTAATTAATTTAATCT
*
13552697 TTAATTATAGTTAATCT
1 TTAATTA-ATTTAATCT
13552714 T
1 T
13552715 ATTAGTGGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
14 9 0.35
15 3 0.12
16 11 0.42
17 3 0.12
ACGTcount: A:0.33, C:0.06, G:0.04, T:0.56
Consensus pattern (16 bp):
TTAATTAATTTAATCT
Found at i:13563494 original size:35 final size:35
Alignment explanation
Indices: 13563446--13563569 Score: 203
Period size: 35 Copynumber: 3.5 Consensus size: 35
13563436 ACATCATCAT
* **
13563446 TCCAACCGTAACACACTGATGCTCATAAGAGCTAA
1 TCCAACCGAAACACACCAATGCTCATAAGAGCTAA
*
13563481 TCCAATCGAAACACACCAATGCTCATAAGAGCTAA
1 TCCAACCGAAACACACCAATGCTCATAAGAGCTAA
13563516 TCCAACCGAAACACACCAATGCTCATAAGAGCTAA
1 TCCAACCGAAACACACCAATGCTCATAAGAGCTAA
*
13563551 TCCAACCGTAACACACCAA
1 TCCAACCGAAACACACCAA
13563570 ACAAAAAGTA
Statistics
Matches: 83, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
35 83 1.00
ACGTcount: A:0.41, C:0.31, G:0.11, T:0.16
Consensus pattern (35 bp):
TCCAACCGAAACACACCAATGCTCATAAGAGCTAA
Found at i:13568094 original size:16 final size:15
Alignment explanation
Indices: 13568070--13568100 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
13568060 CGATTTTTTA
13568070 AATTTCTGTGAAATT
1 AATTTCTGTGAAATT
13568085 AATTTACTGTGAAATT
1 AATTT-CTGTGAAATT
13568101 GATACCTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.35, C:0.06, G:0.13, T:0.45
Consensus pattern (15 bp):
AATTTCTGTGAAATT
Found at i:13586302 original size:44 final size:44
Alignment explanation
Indices: 13586254--13586358 Score: 122
Period size: 44 Copynumber: 2.4 Consensus size: 44
13586244 CCTAGTCAGC
* * * *
13586254 AGTGGAATAGATTGAAGATTATAGA-CTTTATCTCCCTAAGCAAT
1 AGTGGAGTAGATTGAAGATGACAAATC-TTATCTCCCTAAGCAAT
* * *
13586298 AGTGGAGTAGATCGAAGATGGCAAATCTTATCTCCCTAAGCAGT
1 AGTGGAGTAGATTGAAGATGACAAATCTTATCTCCCTAAGCAAT
*
13586342 AGTGGAGCAGATTGAAG
1 AGTGGAGTAGATTGAAG
13586359 CCAGTAGTCC
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
44 50 0.98
45 1 0.02
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.27
Consensus pattern (44 bp):
AGTGGAGTAGATTGAAGATGACAAATCTTATCTCCCTAAGCAAT
Found at i:13586507 original size:131 final size:131
Alignment explanation
Indices: 13585744--13586490 Score: 883
Period size: 131 Copynumber: 5.7 Consensus size: 131
13585734 GAGCAGGTTA
* *
13585744 AAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCAAAGACGGCGAATCTTATCTTC
1 AAGAGTACAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCAAAGACGGCAAATCTTATCTTC
* *
13585809 TCCAAGAGTAGGGAAACAGATTTAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTGGAATAGATT
66 CCCAGGAGTAGGGAAACAGATTTAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTGGAATAGATT
13585874 G
131 G
* * * * ** *
13585875 AAGAGTACAGATCTTATCTCCTTAAGCAGTAGTAGAGGAAATCAAAGACAACGAAA-CTCATCTT
1 AAGAGTACAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCAAAGACGGC-AAATCTTATCTT
* *
13585939 CCCCAGGAGTAGGGAAACAGATTTAAGCTAGTAATTCTATCTCCCTGGGCAGCAATGGAATAGAT
65 CCCCAGGAGTAGGGAAACAGATTTAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTGGAATAGAT
13586004 TG
130 TG
* * * * * * * *
13586006 AAGAGTACAGATCTTATCTCCTTAAGCAGTGGTAGAGCAAATCAAAGACAGCGAATCTCATCTTC
1 AAGAGTACAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCAAAGACGGCAAATCTTATCTTC
*
13586071 CCCAGGAGTAGGGAAACAGATTTAAGCCAGTAATTCTATCTCCCTGGGCAGCAATGGAATAGATT
66 CCCAGGAGTAGGGAAACAGATTTAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTGGAATAGATT
13586136 G
131 G
* * * * * ** *
13586137 AAGAGTACAGATCTTATCTCCCTATGGAGTAGCGGGGTAGATCGAAGACGGCGTATCATATCTTC
1 AAGAGTACAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCAAAGACGGCAAATCTTATCTTC
* * * * * * *
13586202 CTCAGGAGTAGGGAAATAGATTTAAGCCAGTAGTCCTATTTCCCTAGTCAGCAGTGGAATAGATT
66 CCCAGGAGTAGGGAAACAGATTTAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTGGAATAGATT
13586267 G
131 G
* * * * *
13586268 AAGATTATAGA-CTTTATCTCCCTAAGCAATAGTGGAGTAGATCGAAGATGGCAAATCTTATC-T
1 AAGAGTACAGATC-TTATCTCCCTAAGCAGTAGTGGAGTAGATCAAAGACGGCAAATCTTATCTT
* * * * * * * *
13586331 CCCTAAGCAGTAGTGG-AGCAGATTGAAGCCAGTAGTCCTATTTCCCTGGTCAGCAGTGGAATAG
65 CCC-CAGGAGTAG-GGAAACAGATTTAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTGGAATAG
*
13586395 GTTGG
128 ATT-G
* ** * * *
13586400 AA-ATTACAGATCTGGTCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGACGGCAAATCTTATCTTC
1 AAGAGTACAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCAAAGACGGCAAATCTTATCTTC
* *
13586464 CCCAGGAGAAGGGAAGCAGATTTAAGC
66 CCCAGGAGTAGGGAAACAGATTTAAGC
13586491 GATGAATCTT
Statistics
Matches: 537, Mismatches: 70, Indels: 18
0.86 0.11 0.03
Matches are distributed among these distances:
130 8 0.01
131 517 0.96
132 12 0.02
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.25
Consensus pattern (131 bp):
AAGAGTACAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCAAAGACGGCAAATCTTATCTTC
CCCAGGAGTAGGGAAACAGATTTAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTGGAATAGATT
G
Found at i:13588324 original size:27 final size:27
Alignment explanation
Indices: 13588294--13588352 Score: 68
Period size: 26 Copynumber: 2.2 Consensus size: 27
13588284 ATACGGAATT
*
13588294 ATTTTAATAT-ATGTATATGTTTATAAA
1 ATTTTAATATAATGTATA-ATTTATAAA
* *
13588321 A-TTTATTATAATTTATAATTTATAAA
1 ATTTTAATATAATGTATAATTTATAAA
13588347 ATTTTA
1 ATTTTA
13588353 TTTTATGTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
26 16 0.59
27 11 0.41
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.54
Consensus pattern (27 bp):
ATTTTAATATAATGTATAATTTATAAA
Found at i:13588372 original size:21 final size:22
Alignment explanation
Indices: 13588309--13588375 Score: 75
Period size: 21 Copynumber: 3.0 Consensus size: 22
13588299 AATATATGTA
13588309 TATGTTTATAAAATTTATTATAATT
1 TATGTTTATAAAATTT-TTAT--TT
*
13588334 TATAATTTATAAAA-TTTTATTT
1 TAT-GTTTATAAAATTTTTATTT
13588356 TATGTTT-TAAAATTTTTATT
1 TATGTTTATAAAATTTTTATT
13588376 CATTTCGATT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
20 5 0.13
21 10 0.26
22 5 0.13
24 4 0.11
25 5 0.13
26 9 0.24
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (22 bp):
TATGTTTATAAAATTTTTATTT
Found at i:13600976 original size:29 final size:28
Alignment explanation
Indices: 13600944--13601009 Score: 96
Period size: 29 Copynumber: 2.3 Consensus size: 28
13600934 CCTATAACCG
*
13600944 CATATATATTATATATAATAGAACTCACA
1 CATATATATTATATATAACAGAAC-CACA
* *
13600973 CATATATATTATGTATAACAGAACCGCA
1 CATATATATTATATATAACAGAACCACA
13601001 CATATATAT
1 CATATATAT
13601010 GTACTATGTA
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
28 12 0.35
29 22 0.65
ACGTcount: A:0.45, C:0.15, G:0.06, T:0.33
Consensus pattern (28 bp):
CATATATATTATATATAACAGAACCACA
Found at i:13604715 original size:11 final size:11
Alignment explanation
Indices: 13604699--13604809 Score: 63
Period size: 11 Copynumber: 9.8 Consensus size: 11
13604689 CTTAATGGCT
13604699 TTAATATTAAA
1 TTAATATTAAA
13604710 TTAATA-TAATA
1 TTAATATTAA-A
*
13604721 TTTATCATTAAA
1 TTAAT-ATTAAA
13604733 TTTAATATTAAA
1 -TTAATATTAAA
13604745 -T--TATTAAA
1 TTAATATTAAA
* *
13604753 ATACTATTAAA
1 TTAATATTAAA
*
13604764 ATAAGTATTAAA
1 TTAA-TATTAAA
13604776 TTAA-ATTTAATA
1 TTAATA-TTAA-A
13604788 TTAAACTATTCAAA
1 TT-AA-TATT-AAA
13604802 -TAATATTA
1 TTAATATTA
13604810 TTTTTGGAAT
Statistics
Matches: 82, Mismatches: 4, Indels: 29
0.71 0.03 0.25
Matches are distributed among these distances:
8 7 0.09
9 1 0.01
10 6 0.07
11 29 0.35
12 23 0.28
13 10 0.12
14 3 0.04
15 3 0.04
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.44
Consensus pattern (11 bp):
TTAATATTAAA
Done.