Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
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: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 107 of 250
Found at i:34478762 original size:58 final size:57
Alignment explanation
Indices: 34478642--34478767 Score: 154
Period size: 58 Copynumber: 2.2 Consensus size: 57
34478632 TTTTAATAAG
*
34478642 ATTATTATTGAAAATAATTTAATAAAAATAATAAATAATTTAACCATATTTTAACATA
1 ATTATTATTGAAAATAATTTAATAAAAATAATAAATAA-TTAACCATATCTTAACATA
*
34478700 ATTATTATT-AAATATAATTTAATAAAAA-ATATAAATTAA-TAA-CAT-TCTTAATATA
1 ATTATTATTGAAA-ATAATTTAATAAAAATA-ATAAA-TAATTAACCATATCTTAACATA
34478755 ATTATTATATGAA
1 ATTATTAT-TGAA
34478768 TTAAAAAAAT
Statistics
Matches: 61, Mismatches: 2, Indels: 11
0.82 0.03 0.15
Matches are distributed among these distances:
55 16 0.26
56 4 0.07
57 9 0.15
58 29 0.48
59 3 0.05
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.41
Consensus pattern (57 bp):
ATTATTATTGAAAATAATTTAATAAAAATAATAAATAATTAACCATATCTTAACATA
Found at i:34483196 original size:20 final size:21
Alignment explanation
Indices: 34483171--34483214 Score: 81
Period size: 20 Copynumber: 2.1 Consensus size: 21
34483161 TACTAATAAG
34483171 TTTAGTATGATGACATTAT-T
1 TTTAGTATGATGACATTATCT
34483191 TTTAGTATGATGACATTATCT
1 TTTAGTATGATGACATTATCT
34483212 TTT
1 TTT
34483215 TAAATAATGT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 19 0.83
21 4 0.17
ACGTcount: A:0.27, C:0.07, G:0.14, T:0.52
Consensus pattern (21 bp):
TTTAGTATGATGACATTATCT
Found at i:34485146 original size:47 final size:47
Alignment explanation
Indices: 34485084--34485211 Score: 177
Period size: 47 Copynumber: 2.7 Consensus size: 47
34485074 GTGTTAATAA
* * ** *
34485084 TACCTTGATTTGGCTACGAGCCATGATATAGGTATT-TTGAGAGGAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTATTCCAG-GAGAAGT
* *
34485131 TACCTTGATTTGGCTATGGGCCATGGTATAGGTATTCCAGGATAAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTATTCCAGGAGAAGT
34485178 TACCTTGATTTGGCTACGGGCCATGGTATAGGTA
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTA
34485212 CTTATCGATT
Statistics
Matches: 72, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
47 71 0.99
48 1 0.01
ACGTcount: A:0.23, C:0.15, G:0.28, T:0.34
Consensus pattern (47 bp):
TACCTTGATTTGGCTACGGGCCATGGTATAGGTATTCCAGGAGAAGT
Found at i:34497500 original size:28 final size:28
Alignment explanation
Indices: 34497460--34497522 Score: 99
Period size: 28 Copynumber: 2.2 Consensus size: 28
34497450 GTCATTATCA
34497460 ACCCCATAAGTTATAAAACTCTTCCTAT
1 ACCCCATAAGTTATAAAACTCTTCCTAT
* * *
34497488 ACCCCATAAGTTATGAGACTTTTCCTAT
1 ACCCCATAAGTTATAAAACTCTTCCTAT
34497516 ACCCCAT
1 ACCCCAT
34497523 TAATATGGGA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.32, C:0.30, G:0.06, T:0.32
Consensus pattern (28 bp):
ACCCCATAAGTTATAAAACTCTTCCTAT
Found at i:34499603 original size:22 final size:23
Alignment explanation
Indices: 34499578--34499623 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
34499568 CAACCAAATC
34499578 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
34499600 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
34499623 A
1 A
34499624 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:34499629 original size:23 final size:23
Alignment explanation
Indices: 34499585--34499629 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
34499575 ATCAATTCAA
*
34499585 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
34499608 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
34499630 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:34505339 original size:28 final size:28
Alignment explanation
Indices: 34505298--34505360 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 28
34505288 GTCATTATCA
*
34505298 ACCCCATAAGTTATAAAACTCTTCCTAT
1 ACCCCATAAATTATAAAACTCTTCCTAT
* * *
34505326 ACCCCATAAATTATGAGACTTTTCCTAT
1 ACCCCATAAATTATAAAACTCTTCCTAT
34505354 ACCCCAT
1 ACCCCAT
34505361 TAATATGGGA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.33, C:0.30, G:0.05, T:0.32
Consensus pattern (28 bp):
ACCCCATAAATTATAAAACTCTTCCTAT
Found at i:34509592 original size:18 final size:18
Alignment explanation
Indices: 34509566--34509628 Score: 53
Period size: 18 Copynumber: 3.7 Consensus size: 18
34509556 GTATTATTTT
*
34509566 TAAATTTTATTATTAAAA
1 TAAAATTTATTATTAAAA
*
34509584 TAAAATTTAATATT-AAA
1 TAAAATTTATTATTAAAA
*
34509601 T--AATTTATTA-AAATAA
1 TAAAATTTATTATTAA-AA
*
34509617 TAAAATATATTA
1 TAAAATTTATTA
34509629 ACAATTTATT
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
15 9 0.25
16 3 0.08
17 4 0.11
18 20 0.56
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
TAAAATTTATTATTAAAA
Found at i:34509627 original size:30 final size:29
Alignment explanation
Indices: 34509575--34509639 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 29
34509565 TTAAATTTTA
** *
34509575 TTATTAAAATAAAATTTAATATTAAATAAT
1 TTATTAAAATAAAAAATAATATT-AACAAT
34509605 TTATTAAAATAATAAAAT-ATATTAACAAT
1 TTATTAAAATAA-AAAATAATATTAACAAT
34509634 TTATTA
1 TTATTA
34509640 TATTATTAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
29 11 0.35
30 17 0.55
31 3 0.10
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (29 bp):
TTATTAAAATAAAAAATAATATTAACAAT
Found at i:34509649 original size:29 final size:29
Alignment explanation
Indices: 34509575--34509653 Score: 72
Period size: 30 Copynumber: 2.7 Consensus size: 29
34509565 TTAAATTTTA
* *
34509575 TTATTAAAATAA-AATTTAATATTAAATAAT
1 TTATTAAAATAATAA-AT-ATATTAAACAAT
34509605 TTATTAAAATAATAAAATATATT-AACAAT
1 TTATTAAAATAAT-AAATATATTAAACAAT
* * *
34509634 TTATTATATTATTAAATATA
1 TTATTAAAATAATAAATATA
34509654 AATAATTAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
28 7 0.17
29 15 0.36
30 17 0.40
31 1 0.02
32 2 0.05
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.44
Consensus pattern (29 bp):
TTATTAAAATAATAAATATATTAAACAAT
Found at i:34509660 original size:26 final size:27
Alignment explanation
Indices: 34509575--34509660 Score: 68
Period size: 28 Copynumber: 3.0 Consensus size: 27
34509565 TTAAATTTTA
34509575 TTATTAAAATAA-AATTTAATATTAAATAAT
1 TTATTAAAATAATAA---AATA-TAAATAAT
*
34509605 TTATTAAAATAATAAAATATATTAACAAT
1 TTATTAAAATAATAAAATATA--AATAAT
* * *
34509634 TTATT-ATATTATTAAATATAAATAAT
1 TTATTAAAATAATAAAATATAAATAAT
34509660 T
1 T
34509661 AAATATGTGT
Statistics
Matches: 48, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
26 6 0.12
27 2 0.04
28 16 0.33
29 10 0.21
30 12 0.25
31 2 0.04
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (27 bp):
TTATTAAAATAATAAAATATAAATAAT
Found at i:34509688 original size:28 final size:27
Alignment explanation
Indices: 34509657--34509719 Score: 72
Period size: 28 Copynumber: 2.3 Consensus size: 27
34509647 AAATATAAAT
*
34509657 AATTAAATATGTGTTTAATAATATTGAA
1 AATTAAATATGTG-ATAATAATATTGAA
* * *
34509685 AATTATAATATTTGATATTAATATTTAA
1 AATTA-AATATGTGATAATAATATTGAA
34509713 AATTAAA
1 AATTAAA
34509720 ATTAAAATTA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
27 2 0.07
28 21 0.70
29 7 0.23
ACGTcount: A:0.49, C:0.00, G:0.06, T:0.44
Consensus pattern (27 bp):
AATTAAATATGTGATAATAATATTGAA
Found at i:34509717 original size:13 final size:13
Alignment explanation
Indices: 34509675--34509730 Score: 51
Period size: 13 Copynumber: 4.2 Consensus size: 13
34509665 ATGTGTTTAA
*
34509675 TAATATTGAAAATT
1 TAATATTTAAAA-T
* *
34509689 ATAATATTTGATAT
1 -TAATATTTAAAAT
34509703 TAATATTTAAAAT
1 TAATATTTAAAAT
*
34509716 TAA-AATTAAAAT
1 TAATATTTAAAAT
34509728 TAA
1 TAA
34509731 AAATTTATTA
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
12 11 0.31
13 14 0.40
14 1 0.03
15 9 0.26
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.43
Consensus pattern (13 bp):
TAATATTTAAAAT
Found at i:34510209 original size:31 final size:31
Alignment explanation
Indices: 34510123--34510200 Score: 88
Period size: 31 Copynumber: 2.6 Consensus size: 31
34510113 ATGCGATTTG
* * * *
34510123 ATACATG-AACTTTAATT-TGGTGCAATTAT
1 ATACATGAAACTTTAATTGTAGTTCAAGTGT
* *
34510152 ATATATGAAACTTTGATTGTAGTTCAAGTGT
1 ATACATGAAACTTTAATTGTAGTTCAAGTGT
34510183 ATACATGAAACTTTAATT
1 ATACATGAAACTTTAATT
34510201 TTCATTCAAT
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
29 6 0.15
30 9 0.23
31 24 0.62
ACGTcount: A:0.36, C:0.09, G:0.14, T:0.41
Consensus pattern (31 bp):
ATACATGAAACTTTAATTGTAGTTCAAGTGT
Found at i:34512687 original size:30 final size:30
Alignment explanation
Indices: 34512651--34512710 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
34512641 AATAACAGGA
*
34512651 GGGATCATCCTAAAATATTTGTTAATGTTG
1 GGGATCATCCTAAAACATTTGTTAATGTTG
* *
34512681 GGGATCATCGTGAAACATTTGTTAATGTTG
1 GGGATCATCCTAAAACATTTGTTAATGTTG
34512711 TTCCTGTTAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.28, C:0.10, G:0.23, T:0.38
Consensus pattern (30 bp):
GGGATCATCCTAAAACATTTGTTAATGTTG
Found at i:34516519 original size:671 final size:673
Alignment explanation
Indices: 34515413--34516745 Score: 1814
Period size: 671 Copynumber: 2.0 Consensus size: 673
34515403 AATCATTCGG
* * * * * * * * * *
34515413 AGGCTAACTACTTAGGTAATAGGGGATCTAACCCGTACTCTAAAACCTATAATTCGGGGTGGCAA
1 AGGCCAACTACTGAGGTAATAGGGGATATAACCCATACCCCAAAACCAAAAATTCGAGGTAGCAA
* * *
34515478 GATCACCCCAATCTTAGGTGGGGAGGGAACCATAAGGGTCCCTCCAACCAAGGAGTACCCATGCA
66 GATCACCCCAATATTAAGTGGGGAGGGAACCATAAGGGTACCTCCAACCAAGGAGTACCCATGCA
* * * * * *
34515543 TGGCCCGTTTAAGCCCTCAATTATAGAAATGTTTAGTGGATTTGTATGTGCATGAATGGTGATTT
131 TGACCCGTTTAAGCCCTCAATTATAAAAAAGTTTAGTGGACTTGTATGTGCATGAACGGTGATTG
* * *
34515608 GTTAAAAAATAACTTATTTTTAATTTTCTTCCAGTATAAATTATACGGTGAAGGAAGACTCCATT
196 GTTAAAAAATAACTTATTTTAAATTTTCTTCAAGTATAAATTATACGGTGAAGGAAGACTACATT
* * * * * *
34515673 TTTCTTTTAGAATTTTGCCTTTGTTTCCGTTGACTAGTTTTGGGTGGTTGAAACTCCATTTTGCA
261 TTTCGTTCAGAATTTTGCCATTGTTTCCGATCACTAGTTTTGGGTGGTGGAAACTCCATTTTGCA
* * * **
34515738 TGTTAGAACAATTATGGTTTTGGCCTGCTTAAAGGCTATTCTTCAAATGGTAACGTTAAATTTCC
326 TGTTAGAAAAATTATGGTTTTGGCCTGCTTAAAGACTATTCTTCAAATGGAAACAATAAATTTCC
* * * *
34515803 TAAACACTCTTTTGGCCGTAGTTTGTTATTTAAGTTATGATTTGGAAATTGCTGTAGAGAAAGCT
391 TAAACACTCTTTTGGCCATAGCTTGTTATTTAAGTTATGATTTGGAAATTGCTATAAAGAAAGCT
* * * *
34515868 TATCTTAAAATTTTAAAGTAGATAAGAATCTCCCTTTCTGTTGTGAATGGTGCATGTTACAATAG
456 TATCTTAAAATTTTAAAGCAGATAAGAATCTCCCTTTCTATTGTAAATAGTGCATGTTACAATAG
* *
34515933 TTGTTAGATTCTTATCTATATTAAAGAAATTAGTTGATGTTGTGGCTGATCTCTTTGTATTTATG
521 TTGTTAGATTCTTATATACATTAAAGAAATTAGTTGATGTTGTGGCTGATCTCTTTGTATTTATG
* * *
34515998 AATATGGAATGTATATAGAAATGAGCTCGGCATGATCGCAAGCTCCCAATCAGCCCCTTCTAACC
586 AATATGGAATGTATATAGAAATGAGCTCAGCACGATCGCAAGCTCCCAATCAACCCCTTCTAACC
34516063 AGCTCAAATGTAGAGATAACATGA
651 A-CTCAAATGTAGAGATAACATGA
* *
34516087 AGGCCAACTACTGAGGTAATAGGGGATATAACCCATACCCCAAAA-CAAAAATTTGAGG-AGCGA
1 AGGCCAACTACTGAGGTAATAGGGGATATAACCCATACCCCAAAACCAAAAATTCGAGGTAGCAA
* * * * *
34516150 GATCACCCCAATATTAAGTGGGGAGGGAA-CA-AGGGGGTACCTTCGACCAATGAGTACCCGTGC
66 GATCACCCCAATATTAAGTGGGGAGGGAACCATA-AGGGTACCTCCAACCAAGGAGTACCCATGC
* * *
34516213 ATGACTCGTTTAAGCCCTCAATTATAAAAAAGTTTAGTGGACTTGTGTTTGCATGAACGGTGATT
130 ATGACCCGTTTAAGCCCTCAATTATAAAAAAGTTTAGTGGACTTGTATGTGCATGAACGGTGATT
* * * *
34516278 GGTTAAAGAATAATTTATTTTAAATTTTCTTTAAGTATAAATTATATGGTGAAGGAAGACTACAT
195 GGTTAAAAAATAACTTATTTTAAATTTTCTTCAAGTATAAATTATACGGTGAAGGAAGACTACAT
* * *
34516343 TTTTCGTTCAGAATTTTTCCATTGTTTCC-ATCACTAGTTTTGGGTGGTGGAAACTCCTTTTTTC
260 TTTTCGTTCAGAATTTTGCCATTGTTTCCGATCACTAGTTTTGGGTGGTGGAAACTCCATTTTGC
* * * * * *
34516407 ATTTTAGAAAAATTATGGTTTTGGCTTGCTTAGAGACTGTTCCTTTAAGTGGAAACAATAAATTT
325 ATGTTAGAAAAATTATGGTTTTGGCCTGCTTAAAGACTATT-CTTCAAATGGAAACAATAAATTT
* * * * *
34516472 CCTAAGCATTTCTTTT-GTCATAGCTTGTTATTTAATTTATGATTTGGACATTGCTATAAAGAAA
389 CCTAAACA-CTCTTTTGGCCATAGCTTGTTATTTAAGTTATGATTTGGAAATTGCTATAAAGAAA
* **
34516536 GCTTATCTTAAAGTTTTGGAGCAGATAAGAATCTCCCTTTCTATTGTAAATAGTGCATGTTACAA
453 GCTTATCTTAAAATTTTAAAGCAGATAAGAATCTCCCTTTCTATTGTAAATAGTGCATGTTACAA
* * * *
34516601 TAGTTGTTTGATTCTTATATACATTAAAGACATTAGTTGATGTTGTGGCTTATTTCTTTGTATTT
518 TAGTTGTTAGATTCTTATATACATTAAAGAAATTAGTTGATGTTGTGGCTGATCTCTTTGTATTT
* * * * *
34516666 TTTAATATGGAATGTATATAGAAATTAGCTCAGCACGATTGTAAGCTCCCAATCAACCCCTTCTA
583 ATGAATATGGAATGTATATAGAAATGAGCTCAGCACGATCGCAAGCTCCCAATCAACCCCTTCTA
34516731 ACCACTCAAATGTAG
648 ACCACTCAAATGTAG
34516746 GGCATGACGG
Statistics
Matches: 570, Mismatches: 86, Indels: 10
0.86 0.13 0.02
Matches are distributed among these distances:
670 77 0.14
671 409 0.72
672 36 0.06
673 9 0.02
674 39 0.07
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.35
Consensus pattern (673 bp):
AGGCCAACTACTGAGGTAATAGGGGATATAACCCATACCCCAAAACCAAAAATTCGAGGTAGCAA
GATCACCCCAATATTAAGTGGGGAGGGAACCATAAGGGTACCTCCAACCAAGGAGTACCCATGCA
TGACCCGTTTAAGCCCTCAATTATAAAAAAGTTTAGTGGACTTGTATGTGCATGAACGGTGATTG
GTTAAAAAATAACTTATTTTAAATTTTCTTCAAGTATAAATTATACGGTGAAGGAAGACTACATT
TTTCGTTCAGAATTTTGCCATTGTTTCCGATCACTAGTTTTGGGTGGTGGAAACTCCATTTTGCA
TGTTAGAAAAATTATGGTTTTGGCCTGCTTAAAGACTATTCTTCAAATGGAAACAATAAATTTCC
TAAACACTCTTTTGGCCATAGCTTGTTATTTAAGTTATGATTTGGAAATTGCTATAAAGAAAGCT
TATCTTAAAATTTTAAAGCAGATAAGAATCTCCCTTTCTATTGTAAATAGTGCATGTTACAATAG
TTGTTAGATTCTTATATACATTAAAGAAATTAGTTGATGTTGTGGCTGATCTCTTTGTATTTATG
AATATGGAATGTATATAGAAATGAGCTCAGCACGATCGCAAGCTCCCAATCAACCCCTTCTAACC
ACTCAAATGTAGAGATAACATGA
Found at i:34517945 original size:41 final size:40
Alignment explanation
Indices: 34517877--34518045 Score: 169
Period size: 41 Copynumber: 4.1 Consensus size: 40
34517867 GCAAAAATTG
* * * *
34517877 TAAAACACAAAGCAATAGTGGC-ATTTTTGTCAAAACGCCGC
1 TAAAA-ACAGAGCAATAGCGGCGCTTTTGGT-AAAACGCCGC
* * * *
34517918 TAAAAACTGAGCAATAGCGGCGTTTTTTTGTTAAAACGTCGC
1 TAAAAACAGAGCAATAGCGGCG--CTTTTGGTAAAACGCCGC
* *
34517960 TAAAAACAGAGCACTAGCGGCGCTTTTGGTGAAACGCCGC
1 TAAAAACAGAGCAATAGCGGCGCTTTTGGTAAAACGCCGC
* * *
34518000 TAAAGACCAGAGCATTAGCGGCGCTTTTGGTGAAACGCCGC
1 TAAA-AACAGAGCAATAGCGGCGCTTTTGGTAAAACGCCGC
34518041 TAAAA
1 TAAAA
34518046 GTCATGTAAC
Statistics
Matches: 109, Mismatches: 15, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
40 32 0.29
41 43 0.39
42 29 0.27
43 5 0.05
ACGTcount: A:0.33, C:0.21, G:0.23, T:0.22
Consensus pattern (40 bp):
TAAAAACAGAGCAATAGCGGCGCTTTTGGTAAAACGCCGC
Found at i:34518164 original size:54 final size:54
Alignment explanation
Indices: 34518090--34518221 Score: 230
Period size: 53 Copynumber: 2.5 Consensus size: 54
34518080 AAAAAACATA
*
34518090 AAACACTAATCTATAACCCCTAAAATGGTAAACCCCTAAACCTTAACAAGCCCT
1 AAACACTAAACTATAACCCCTAAAATGGTAAACCCCTAAACCTTAACAAGCCCT
* *
34518144 AAACAATAAACTATAACCCCT-AAATGGTAAGCCCCTAAACCTTAACAAGCCCT
1 AAACACTAAACTATAACCCCTAAAATGGTAAACCCCTAAACCTTAACAAGCCCT
34518197 AAACACTAAACTATAACCCCTAAAA
1 AAACACTAAACTATAACCCCTAAAA
34518222 CCCTAAACAC
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
53 51 0.70
54 22 0.30
ACGTcount: A:0.45, C:0.30, G:0.05, T:0.19
Consensus pattern (54 bp):
AAACACTAAACTATAACCCCTAAAATGGTAAACCCCTAAACCTTAACAAGCCCT
Found at i:34518377 original size:14 final size:14
Alignment explanation
Indices: 34518328--34518380 Score: 70
Period size: 14 Copynumber: 3.7 Consensus size: 14
34518318 TCAAATCATA
*
34518328 AACCCTTAAAACTCC
1 AACCCTT-AAACCCC
*
34518343 AACCCCTAAACCCC
1 AACCCTTAAACCCC
34518357 AACCCTTAAACCCC
1 AACCCTTAAACCCC
*
34518371 AAGCCTTAAA
1 AACCCTTAAA
34518381 ACTAGCCTCT
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
14 28 0.82
15 6 0.18
ACGTcount: A:0.40, C:0.43, G:0.02, T:0.15
Consensus pattern (14 bp):
AACCCTTAAACCCC
Found at i:34518429 original size:14 final size:14
Alignment explanation
Indices: 34518390--34518472 Score: 78
Period size: 14 Copynumber: 5.8 Consensus size: 14
34518380 AACTAGCCTC
34518390 TAAACCCATAAACTA
1 TAAACCC-TAAACTA
* * * *
34518405 TAGATCGTAAATTA
1 TAAACCCTAAACTA
34518419 TAAACCCTAAACTA
1 TAAACCCTAAACTA
*
34518433 TAAACCATAAA-TCA
1 TAAACCCTAAACT-A
*
34518447 TAAACTCTTAAACTA
1 TAAAC-CCTAAACTA
34518462 TAAACCCTAAA
1 TAAACCCTAAA
34518473 ATCTAAAAAA
Statistics
Matches: 54, Mismatches: 11, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
13 1 0.02
14 37 0.69
15 15 0.28
16 1 0.02
ACGTcount: A:0.51, C:0.22, G:0.02, T:0.25
Consensus pattern (14 bp):
TAAACCCTAAACTA
Found at i:34518432 original size:28 final size:28
Alignment explanation
Indices: 34518390--34518472 Score: 94
Period size: 29 Copynumber: 2.9 Consensus size: 28
34518380 AACTAGCCTC
* * * *
34518390 TAAACCCATAAACTATAGATCGTAAATTA
1 TAAACCC-TAAACTATAAACCATAAATCA
34518419 TAAACCCTAAACTATAAACCATAAATCA
1 TAAACCCTAAACTATAAACCATAAATCA
* *
34518447 TAAACTCTTAAACTATAAACCCTAAA
1 TAAAC-CCTAAACTATAAACCATAAA
34518473 ATCTAAAAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
28 22 0.47
29 25 0.53
ACGTcount: A:0.51, C:0.22, G:0.02, T:0.25
Consensus pattern (28 bp):
TAAACCCTAAACTATAAACCATAAATCA
Found at i:34518479 original size:14 final size:14
Alignment explanation
Indices: 34518412--34518479 Score: 57
Period size: 14 Copynumber: 4.8 Consensus size: 14
34518402 CTATAGATCG
*
34518412 TAAATTATAAACCC
1 TAAAATATAAACCC
* *
34518426 TAAACTATAAACCA
1 TAAAATATAAACCC
*
34518440 T-AAATCATAAACTCT
1 TAAAAT-ATAAAC-CC
*
34518455 TAAACTATAAACCC
1 TAAAATATAAACCC
*
34518469 TAAAATCTAAA
1 TAAAATATAAA
34518480 AAATAAATTT
Statistics
Matches: 43, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
13 3 0.07
14 29 0.67
15 8 0.19
16 3 0.07
ACGTcount: A:0.53, C:0.21, G:0.00, T:0.26
Consensus pattern (14 bp):
TAAAATATAAACCC
Found at i:34518567 original size:21 final size:21
Alignment explanation
Indices: 34518518--34518560 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
34518508 ATATATATTC
* *
34518518 ATGGTCTAGGATTTAGGGTTT
1 ATGGTTTAAGATTTAGGGTTT
34518539 ATGGTTTAAGATTTAGGGTTT
1 ATGGTTTAAGATTTAGGGTTT
34518560 A
1 A
34518561 ATTTTTAGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.23, C:0.02, G:0.30, T:0.44
Consensus pattern (21 bp):
ATGGTTTAAGATTTAGGGTTT
Found at i:34518982 original size:8 final size:8
Alignment explanation
Indices: 34518971--34519057 Score: 65
Period size: 8 Copynumber: 11.2 Consensus size: 8
34518961 AAAATATTCA
34518971 AAAAAATT
1 AAAAAATT
34518979 --AAAATT
1 AAAAAATT
* *
34518985 TAAAAATA
1 AAAAAATT
*
34518993 AAAAAAAT
1 AAAAAATT
34519001 -AAAAATT
1 AAAAAATT
*
34519008 TAAAAATT
1 AAAAAATT
*
34519016 TAAAAATT
1 AAAAAATT
*
34519024 TAAAAATT
1 AAAAAATT
*
34519032 TAAAAA-T
1 AAAAAATT
34519039 AAAAAACTT
1 AAAAAA-TT
*
34519048 AAAAATTT
1 AAAAAATT
34519056 AA
1 AA
34519058 TATTTAATAT
Statistics
Matches: 67, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
6 6 0.09
7 12 0.18
8 43 0.64
9 6 0.09
ACGTcount: A:0.70, C:0.01, G:0.00, T:0.29
Consensus pattern (8 bp):
AAAAAATT
Found at i:34518998 original size:16 final size:16
Alignment explanation
Indices: 34518946--34519053 Score: 87
Period size: 16 Copynumber: 6.7 Consensus size: 16
34518936 TTTATATGTT
34518946 AATTTAAAAATTATAAAA
1 AATTTAAAAA-TA-AAAA
* *
34518964 ATATTCAAAAA-AATTAA
1 A-ATTTAAAAATAA-AAA
34518981 AATTTAAAAATAAAAA
1 AATTTAAAAATAAAAA
* **
34518997 AA-ATAAAAATTTAAA
1 AATTTAAAAATAAAAA
**
34519012 AATTTAAAAATTTAAA
1 AATTTAAAAATAAAAA
34519028 AATTTAAAAAT-AAAA
1 AATTTAAAAATAAAAA
*
34519043 AACTTAAAAAT
1 AATTTAAAAAT
34519054 TTAATATTTA
Statistics
Matches: 76, Mismatches: 10, Indels: 11
0.78 0.10 0.11
Matches are distributed among these distances:
15 25 0.33
16 36 0.47
17 6 0.08
18 1 0.01
19 8 0.11
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.30
Consensus pattern (16 bp):
AATTTAAAAATAAAAA
Found at i:34519000 original size:23 final size:23
Alignment explanation
Indices: 34518970--34519057 Score: 124
Period size: 23 Copynumber: 3.8 Consensus size: 23
34518960 AAAAATATTC
34518970 AAAAAAATT-AAAATTTAAAAAT
1 AAAAAAATTAAAAATTTAAAAAT
*
34518992 AAAAAAAATAAAAATTTAAAAATT
1 AAAAAAATTAAAAATTTAAAAA-T
* *
34519016 TAAAAATTTAAAAATTTAAAAAT
1 AAAAAAATTAAAAATTTAAAAAT
*
34519039 AAAAAACTTAAAAATTTAA
1 AAAAAAATTAAAAATTTAA
34519058 TATTTAATAT
Statistics
Matches: 58, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
22 8 0.14
23 30 0.52
24 20 0.34
ACGTcount: A:0.70, C:0.01, G:0.00, T:0.28
Consensus pattern (23 bp):
AAAAAAATTAAAAATTTAAAAAT
Found at i:34519031 original size:47 final size:48
Alignment explanation
Indices: 34518950--34519057 Score: 148
Period size: 47 Copynumber: 2.2 Consensus size: 48
34518940 TATGTTAATT
34518950 TAAAAATTATAAAAATATTCAAAAAAATTAAAATTTAAAAATAAAAAAAA
1 TAAAAATT-TAAAAATATT-AAAAAAATTAAAATTTAAAAATAAAAAAAA
* **
34519000 TAAAAATTTAAAAAT-TT-AAAAATTTAAAAATTTAAAAATAAAAAACT
1 TAAAAATTTAAAAATATTAAAAAAATT-AAAATTTAAAAATAAAAAAAA
34519047 TAAAAATTTAA
1 TAAAAATTTAA
34519058 TATTTAATAT
Statistics
Matches: 54, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
46 7 0.13
47 30 0.56
48 2 0.04
49 7 0.13
50 8 0.15
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.30
Consensus pattern (48 bp):
TAAAAATTTAAAAATATTAAAAAAATTAAAATTTAAAAATAAAAAAAA
Found at i:34519194 original size:18 final size:17
Alignment explanation
Indices: 34519158--34519196 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
34519148 TTTGAAAGAA
**
34519158 AAAAATAAAAAAATGTT
1 AAAAATAAAAAAAAATT
34519175 AAAAATAAAAAAAAAATT
1 AAAAAT-AAAAAAAAATT
34519193 AAAA
1 AAAA
34519197 TTGAACAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (17 bp):
AAAAATAAAAAAAAATT
Found at i:34523480 original size:19 final size:21
Alignment explanation
Indices: 34523452--34523499 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
34523442 TTATTATTTA
34523452 TTTTAGTTTTGATTCTAA-AT
1 TTTTAGTTTTGATTCTAATAT
* *
34523472 TTTTA-TTTTTATTTTAATAT
1 TTTTAGTTTTGATTCTAATAT
34523492 TTTTAGTT
1 TTTTAGTT
34523500 AAAATTTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 10 0.42
20 12 0.50
21 2 0.08
ACGTcount: A:0.23, C:0.02, G:0.06, T:0.69
Consensus pattern (21 bp):
TTTTAGTTTTGATTCTAATAT
Found at i:34523684 original size:43 final size:43
Alignment explanation
Indices: 34523618--34523726 Score: 200
Period size: 43 Copynumber: 2.5 Consensus size: 43
34523608 TTTTTAAATT
*
34523618 TCATTACCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGG
1 TCATGACCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGG
34523661 TCATGACCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGG
1 TCATGACCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGG
*
34523704 TCATGACCTATAGCGGCGTTTGT
1 TCATGACCTTTAGCGGCGTTTGT
34523727 AGGCCTTTAG
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
43 64 1.00
ACGTcount: A:0.22, C:0.21, G:0.30, T:0.27
Consensus pattern (43 bp):
TCATGACCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGG
Found at i:34524187 original size:52 final size:52
Alignment explanation
Indices: 34524051--34524196 Score: 188
Period size: 52 Copynumber: 2.8 Consensus size: 52
34524041 ACATAAATTT
** *
34524051 TTTTGTGATGAAATGTATATGCAAGTTTTCATTGCATCAAATGCATTAACAG
1 TTTTGTGATGAAATGTATATGCAAGTTTTCATTGCATTGAATGCATGAACAG
*
34524103 TTTTGTGATGAAATGCATATGCCAA-TTTTCATTGCATTGAATGCATGAACTA-
1 TTTTGTGATGAAATGTATATG-CAAGTTTTCATTGCATTGAATGCATGAAC-AG
** * *
34524155 TTTTGTGATGAAATGTATATGTGAGTTGTCATTGTATTGAAT
1 TTTTGTGATGAAATGTATATGCAAGTTTTCATTGCATTGAAT
34524197 AAGTGAATTT
Statistics
Matches: 82, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
51 1 0.01
52 77 0.94
53 4 0.05
ACGTcount: A:0.30, C:0.10, G:0.19, T:0.41
Consensus pattern (52 bp):
TTTTGTGATGAAATGTATATGCAAGTTTTCATTGCATTGAATGCATGAACAG
Found at i:34524445 original size:28 final size:28
Alignment explanation
Indices: 34524413--34524474 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 28
34524403 TTAAGCATCC
** * *
34524413 ATGTGCAAAATGACTTCGTAATCTACTT
1 ATGTGCAAAACAACTTCGTAATATACAT
*
34524441 ATGTGCAAACCAACTTCGTAATATACAT
1 ATGTGCAAAACAACTTCGTAATATACAT
34524469 ATGTGC
1 ATGTGC
34524475 GATTCGAGAT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.34, C:0.19, G:0.15, T:0.32
Consensus pattern (28 bp):
ATGTGCAAAACAACTTCGTAATATACAT
Found at i:34527063 original size:23 final size:23
Alignment explanation
Indices: 34527033--34527196 Score: 222
Period size: 23 Copynumber: 7.1 Consensus size: 23
34527023 CATTGTAATA
* * **
34527033 TAGCCGAAGCTATCACTATAACG
1 TAGCCGAAGCTACCACTGTATTG
34527056 TAGCCGAAGCTACCACTGTATTG
1 TAGCCGAAGCTACCACTGTATTG
* *
34527079 TAGCTGAAGCTACCACTATATTG
1 TAGCCGAAGCTACCACTGTATTG
34527102 TAGCCGAAGCTACCACTGTATTG
1 TAGCCGAAGCTACCACTGTATTG
*
34527125 TAGCCCAAGCTACCACTGTATTG
1 TAGCCGAAGCTACCACTGTATTG
* *
34527148 TAGCCCAAGCTACCACTG-AGATG
1 TAGCCGAAGCTACCACTGTA-TTG
*
34527171 TAGCCAAAGCTACCACTGTATTG
1 TAGCCGAAGCTACCACTGTATTG
34527194 TAG
1 TAG
34527197 TCTATAGATT
Statistics
Matches: 127, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
22 1 0.01
23 125 0.98
24 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.25
Consensus pattern (23 bp):
TAGCCGAAGCTACCACTGTATTG
Found at i:34531666 original size:46 final size:46
Alignment explanation
Indices: 34531521--34531789 Score: 210
Period size: 46 Copynumber: 5.7 Consensus size: 46
34531511 GGTTATTTGT
* * * *
34531521 GAGCTAGTGTAAGACATGTCTGGAACATGCATCAGCCACATTATGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCATGATGA
* * * * *
34531567 GAGCCAGTGTAAGACTATGTCTGGGACATGGTATCGGCATTGA-GACGA
1 GAGCTAGTGTAAGAC-ATGTCTGGGACAT-GCATCGGC-CTCATGATGA
*
34531615 GAGCTAGTGTAAGACATGTTTGGGACATGCATCGGCCTCATGATGTA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCATGATG-A
* *
34531662 -AGCTAGTGTAAGACATGTTTGGGACATGCATCGG-CT-ACGA-GA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCATGATGA
* * * **
34531704 TGTG-TCAGTGTAAGACCATGTCTGGGACATGGAATTGGCACGGA-GATGTGA
1 -GAGCT-AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-CTCATGA--TGA
*
34531755 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATC
1 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATC
34531790 AACTTGATGG
Statistics
Matches: 181, Mismatches: 25, Indels: 30
0.77 0.11 0.13
Matches are distributed among these distances:
42 1 0.01
43 2 0.01
44 13 0.07
45 17 0.09
46 63 0.35
47 25 0.14
48 26 0.14
49 2 0.01
50 30 0.17
51 2 0.01
ACGTcount: A:0.28, C:0.17, G:0.31, T:0.24
Consensus pattern (46 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCATGATGA
Found at i:34531827 original size:38 final size:38
Alignment explanation
Indices: 34531776--34531851 Score: 134
Period size: 38 Copynumber: 2.0 Consensus size: 38
34531766 AGACCATGTC
*
34531776 TGGGACATGGCATCAACTTGATGGATGAGCGAGTGTAA
1 TGGGACATGGCATCAACTTGATGGATGAGCCAGTGTAA
*
34531814 TGGGACATGGCATCGACTTGATGGATGAGCCAGTGTAA
1 TGGGACATGGCATCAACTTGATGGATGAGCCAGTGTAA
34531852 GACCATGTCT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.28, C:0.14, G:0.34, T:0.24
Consensus pattern (38 bp):
TGGGACATGGCATCAACTTGATGGATGAGCCAGTGTAA
Found at i:34536802 original size:20 final size:20
Alignment explanation
Indices: 34536738--34536804 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
34536728 ATTTTGATAA
*
34536738 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
* *
34536758 ACATAAAATGTATGATATGC
1 ACATGATATGTATGATATGC
34536778 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
34536798 ACATGAT
1 ACATGAT
34536805 GTCTTCATAA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.37, C:0.10, G:0.19, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:34536882 original size:25 final size:24
Alignment explanation
Indices: 34536854--34536974 Score: 181
Period size: 24 Copynumber: 5.0 Consensus size: 24
34536844 GAGGAAGTGC
34536854 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
34536878 AAAAAGGGCTTATGCCCCAGTTATT
1 -AAAAGGGCTTATGCCCCAGTTATT
*
34536903 AAAAGGGCTTATGCCCTAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
34536927 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
34536951 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
34536975 ATGATAAAGT
Statistics
Matches: 89, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
24 54 0.61
25 35 0.39
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.29
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:34544780 original size:25 final size:25
Alignment explanation
Indices: 34544751--34544798 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
34544741 TTATGACATG
*
34544751 AAAATGACCGTT-TTGCCCCTAGGTA
1 AAAATGACCATTATT-CCCCTAGGTA
34544776 AAAATGACCATTATTCCCCTAGG
1 AAAATGACCATTATTCCCCTAGG
34544799 GTTTATATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 19 0.90
26 2 0.10
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (25 bp):
AAAATGACCATTATTCCCCTAGGTA
Found at i:34544901 original size:20 final size:20
Alignment explanation
Indices: 34544835--34544901 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
34544825 ATTTTGATAA
*
34544835 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
34544855 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
*
34544875 ACATGATATGTATGGTATGC
1 ACATGATATGTATGATATGC
34544895 ACATGAT
1 ACATGAT
34544902 GGCTTCATAA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.33, C:0.12, G:0.22, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:34544978 original size:24 final size:24
Alignment explanation
Indices: 34544951--34545033 Score: 148
Period size: 24 Copynumber: 3.4 Consensus size: 24
34544941 GAGGAAGTGC
34544951 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
34544975 AAAAAGGGCTTATGCCCCAGTTATT
1 -AAAAGGGCTTATGCCCCAGTTATT
34545000 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
34545024 AAAAGAGGCT
1 AAAAG-GGCT
34545034 AGGCCTCTAG
Statistics
Matches: 57, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
24 29 0.51
25 28 0.49
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:34544979 original size:25 final size:25
Alignment explanation
Indices: 34544951--34545027 Score: 147
Period size: 25 Copynumber: 3.1 Consensus size: 25
34544941 GAGGAAGTGC
34544951 AAAAGGGCTTATGCCCCAGTTATTA
1 AAAAGGGCTTATGCCCCAGTTATTA
34544976 AAAAGGGCTTATGCCCCAGTTATT-
1 AAAAGGGCTTATGCCCCAGTTATTA
34545000 AAAAGGGCTTATGCCCCAGTTATTA
1 AAAAGGGCTTATGCCCCAGTTATTA
34545025 AAA
1 AAA
34545028 GAGGCTAGGC
Statistics
Matches: 51, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
24 24 0.47
25 27 0.53
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.27
Consensus pattern (25 bp):
AAAAGGGCTTATGCCCCAGTTATTA
Found at i:34549012 original size:39 final size:40
Alignment explanation
Indices: 34548911--34549093 Score: 187
Period size: 40 Copynumber: 4.6 Consensus size: 40
34548901 TCGAATGATG
* * * *
34548911 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGC-GAGTTACTAAT
*
34548950 ATCCGGACTAAGAT-CCGAAGGCATTGGTGCGAGTTACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTGGTGCGAGTTACTAAT
*
34548991 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTAAT
* *
34549030 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTAAT
* ** *
34549069 AACTAGGCTATGTCCCGAAGGCATT
1 -TCCGGGCTAAGTCCCGAAGGCATT
34549094 TGAACGAGTA
Statistics
Matches: 122, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
39 37 0.30
40 76 0.62
41 9 0.07
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTAAT
Found at i:34549047 original size:79 final size:80
Alignment explanation
Indices: 34548911--34549067 Score: 203
Period size: 79 Copynumber: 2.0 Consensus size: 80
34548901 TCGAATGATG
* *
34548911 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTG
1 TCCGGGCTAAGTCCCGAAGGCTTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTG
34548976 GTGCGAGTTACTAAT
66 GTGCGAGTTACTAAT
* * * **
34548991 TCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGC-TTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
*
34549053 TTGTGCGAGTTACTA
64 TGGTGCGAGTTACTA
34549068 TAACTAGGCT
Statistics
Matches: 67, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
78 1 0.01
79 49 0.73
80 17 0.25
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCTTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTG
GTGCGAGTTACTAAT
Found at i:34549117 original size:79 final size:79
Alignment explanation
Indices: 34548964--34549128 Score: 183
Period size: 79 Copynumber: 2.1 Consensus size: 79
34548954 GGACTAAGAT
* * **
34548964 CCGAAGGCATTGGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTGGTGCGAGTTACTAATACCAGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
34549029 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * * *
34549043 CCGAAGGCATTTGTGCGAGTTACT-ATAACTAGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTGGTGCGAGTTACTAAT-ACCAGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
34549106 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
34549122 CCGAAGG
1 CCGAAGG
34549129 TACGTGATTC
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
78 2 0.03
79 46 0.64
80 24 0.33
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTGGTGCGAGTTACTAATACCAGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:34553843 original size:93 final size:93
Alignment explanation
Indices: 34553730--34553901 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
34553720 CGCCCATAAG
* *
34553730 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
34553795 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
34553823 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
34553888 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
34553902 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:34553898 original size:46 final size:46
Alignment explanation
Indices: 34553723--34553898 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
34553713 TGTAACCCGC
* * *
34553723 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
34553769 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
34553819 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
34553862 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
34553899 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:34555891 original size:12 final size:12
Alignment explanation
Indices: 34555874--34555898 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
34555864 TTGTAAGCAA
34555874 TTCCACCAACGG
1 TTCCACCAACGG
34555886 TTCCACCAACGG
1 TTCCACCAACGG
34555898 T
1 T
34555899 AAGTATCTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.40, G:0.16, T:0.20
Consensus pattern (12 bp):
TTCCACCAACGG
Found at i:34561327 original size:45 final size:46
Alignment explanation
Indices: 34561263--34561437 Score: 216
Period size: 45 Copynumber: 3.8 Consensus size: 46
34561253 TGTAACCCGC
*
34561263 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGG-CGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
* *
34561308 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C--GTTCGCAT
* *
34561358 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
*
34561401 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
34561438 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 9, Indels: 19
0.80 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 36 0.32
46 29 0.26
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
Found at i:34561428 original size:93 final size:92
Alignment explanation
Indices: 34561270--34561440 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 92
34561260 CGCCCATAAG
*
34561270 CGAACTCGGACTCAACTCAACGAGCTCGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 CGAACTCGGACTCAACTCAACGAGCTCGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
34561335 CGAGTTCGGATGCCTAGTTACATCTCA
66 CGAGTTCGGATGCCTAGTTACATCTCA
*
34561362 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGG-CATTCGCATCCATAAGTGAACTCGGACTCAACTCA
34561427 ACGAGTTCGGATGC
65 ACGAGTTCGGATGC
34561441 TCAACCATCC
Statistics
Matches: 76, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
92 28 0.37
93 48 0.63
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (92 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCA
Found at i:34568955 original size:93 final size:93
Alignment explanation
Indices: 34568826--34568997 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
34568816 CGCCCATAAG
* *
34568826 CGAACTCGGACTCAACTCAAGGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAAGGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
34568891 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* *
34568919 CGAACTCGGACTCAACTCAATGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAAGGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
34568984 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
34568998 TCAACCATCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAAGGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:34568994 original size:46 final size:46
Alignment explanation
Indices: 34568819--34568994 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
34568809 TGTAACCCGC
* * * *
34568819 CCATAAGCGAACTCGGACTCAACTCAAGGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
34568865 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
34568915 -C-TCA-CGAACTCGGACTCAACTCAATGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
34568958 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
34568995 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 61 0.56
47 28 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:34569013 original size:46 final size:46
Alignment explanation
Indices: 34568868--34569006 Score: 135
Period size: 47 Copynumber: 3.0 Consensus size: 46
34568858 TTCGCATCCA
34568868 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATC
* * * * * *
34568916 TCA-CGAACTCGGACTCAACTCAATGAGTTCGGACATTCGCATCCA--
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCTCAACCATC
34568961 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATC
34569007 CTAGTGACAT
Statistics
Matches: 73, Mismatches: 11, Indels: 16
0.73 0.11 0.16
Matches are distributed among these distances:
44 8 0.11
45 2 0.03
46 27 0.37
47 29 0.40
48 2 0.03
49 4 0.05
50 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATC
Found at i:34573106 original size:22 final size:23
Alignment explanation
Indices: 34573071--34573113 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
34573061 ATATGATATA
*
34573071 TAATCTTAGAAGATATGATTTTG
1 TAATATTAGAAGATATGATTTTG
*
34573094 TAATATTAG-AGATTTGATTT
1 TAATATTAGAAGATATGATTT
34573114 GTAGATGCCC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.35, C:0.02, G:0.16, T:0.47
Consensus pattern (23 bp):
TAATATTAGAAGATATGATTTTG
Found at i:34582780 original size:79 final size:81
Alignment explanation
Indices: 34582644--34582826 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 81
34582634 TCGAATGATG
* *
34582644 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
34582708 GGTGCGAGTTACTA-A
66 GGTGCGAGTTACTATA
* * * **
34582723 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
34582785 TTTGTGCGAGTTACTATA
64 TTGGTGCGAGTTACTATA
* *
34582803 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
34582827 TGAACGAGTA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.65
80 30 0.34
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
GGTGCGAGTTACTATA
Found at i:34582842 original size:40 final size:40
Alignment explanation
Indices: 34582645--34582828 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
34582635 CGAATGATGT
* * * *
34582645 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
34582685 CCGGACTAAGAT-CCGAAGGCATTGGTGCGAGTTACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
34582725 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
34582763 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
34582804 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
34582829 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 36 0.29
40 81 0.64
41 9 0.07
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:34582850 original size:79 final size:79
Alignment explanation
Indices: 34582697--34582861 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
34582687 GGACTAAGAT
* **
34582697 CCGAAGGCATTGGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTGGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
34582762 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
34582776 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTGGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
34582839 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
34582855 CCGAAGG
1 CCGAAGG
34582862 TACGTGATTC
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.65
80 24 0.32
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTGGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:34595654 original size:13 final size:13
Alignment explanation
Indices: 34595632--34595664 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
34595622 GTTTCAACTT
34595632 CATATA-TCAATA
1 CATATACTCAATA
34595644 CATATACTCAATA
1 CATATACTCAATA
34595657 CATATACT
1 CATATACT
34595665 TTTAGCATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 6 0.30
13 14 0.70
ACGTcount: A:0.45, C:0.21, G:0.00, T:0.33
Consensus pattern (13 bp):
CATATACTCAATA
Found at i:34597411 original size:44 final size:43
Alignment explanation
Indices: 34597328--34597438 Score: 118
Period size: 44 Copynumber: 2.6 Consensus size: 43
34597318 GGATCCAATA
* * ** * *
34597328 TATGTTTTCGTGTAAGACCACGTCTAGGATGTTGGCATCG-ACT
1 TATGATTTCGTGTAAGACCATGTCTAGGACATCGACATCGTA-T
*
34597371 TATGATTTACGTGTAAGACCATGTCTGGGACATCGACATCGTAT
1 TATGATTT-CGTGTAAGACCATGTCTAGGACATCGACATCGTAT
*
34597415 T-TGATTTCGTGTAAGACCCTGTCT
1 TATGATTTCGTGTAAGACCATGTCT
34597439 TGGATAGTGG
Statistics
Matches: 58, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
42 16 0.28
43 13 0.22
44 28 0.48
45 1 0.02
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.35
Consensus pattern (43 bp):
TATGATTTCGTGTAAGACCATGTCTAGGACATCGACATCGTAT
Found at i:34597453 original size:42 final size:42
Alignment explanation
Indices: 34597333--34597463 Score: 126
Period size: 42 Copynumber: 3.0 Consensus size: 42
34597323 CAATATATGT
34597333 TTTCGTGTAAGACCAC-GTCTAGGAT-GTTGGCATCG-ACTTATGA
1 TTTCGTGTAAGACC-CTGTCTAGGATAG-TGGCATCGTA-TT-TGA
* * * *
34597376 TTTACGTGTAAGACCATGTCTGGGACA-TCGACATCGTATTTGA
1 TTT-CGTGTAAGACCCTGTCTAGGATAGT-GGCATCGTATTTGA
*
34597419 TTTCGTGTAAGACCCTGTCTTGGATAGTGGCATCGATATTTGA
1 TTTCGTGTAAGACCCTGTCTAGGATAGTGGCATCG-TATTTGA
34597462 TT
1 TT
34597464 ACATGTAGGA
Statistics
Matches: 73, Mismatches: 8, Indels: 14
0.77 0.08 0.15
Matches are distributed among these distances:
42 26 0.36
43 20 0.27
44 26 0.36
45 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.35
Consensus pattern (42 bp):
TTTCGTGTAAGACCCTGTCTAGGATAGTGGCATCGTATTTGA
Found at i:34611051 original size:86 final size:85
Alignment explanation
Indices: 34610898--34611055 Score: 203
Period size: 86 Copynumber: 1.8 Consensus size: 85
34610888 AGCTTGTACA
* * * * *
34610898 ATGCCATATCCTAGATATGGTCTTACATGTTATCACATATCGATGCCATTGTCTCAGAAAGGGTC
1 ATGCCATATCCTAGACATGGTCTTACACGTAATCACATATCGATGCCAATGTCCCAGAAAGGGTC
34610963 TTACATGAAATTGATTAATG
66 TTACATGAAATTGATTAATG
* * *
34610983 ATGCCAATGTCCTAGACATGGTCTTACACGTAATCACA-ATAC-AGTGCCAATGTCCCAGACATG
1 ATGCC-ATATCCTAGACATGGTCTTACACGTAATCACATAT-CGA-TGCCAATGTCCCAGAAAGG
34611046 GTCTTACATG
63 GTCTTACATG
34611056 TAATCACATC
Statistics
Matches: 62, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
85 8 0.13
86 54 0.87
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (85 bp):
ATGCCATATCCTAGACATGGTCTTACACGTAATCACATATCGATGCCAATGTCCCAGAAAGGGTC
TTACATGAAATTGATTAATG
Found at i:34615667 original size:20 final size:20
Alignment explanation
Indices: 34615630--34615667 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
34615620 TGATGGGGAG
*
34615630 CAAGAATATCAAGTTGGATT
1 CAAGAATATCAAGCTGGATT
34615650 CAAGAA-ATCGAAGCTGGA
1 CAAGAATATC-AAGCTGGA
34615668 GGAGAGAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.42, C:0.13, G:0.24, T:0.21
Consensus pattern (20 bp):
CAAGAATATCAAGCTGGATT
Found at i:34617601 original size:46 final size:46
Alignment explanation
Indices: 34617549--34617774 Score: 330
Period size: 46 Copynumber: 4.9 Consensus size: 46
34617539 AGTGTGCTCT
*
34617549 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
34617595 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCA-GGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
34617640 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* ***
34617686 GTGATATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
34617732 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGC
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGC
34617775 GTCATGTCAA
Statistics
Matches: 166, Mismatches: 12, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
45 45 0.27
46 121 0.73
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:34617706 original size:91 final size:92
Alignment explanation
Indices: 34617549--34617774 Score: 330
Period size: 91 Copynumber: 2.5 Consensus size: 92
34617539 AGTGTGCTCT
* ***
34617549 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGCCTGATATGAAATGTGTAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGAACAAG
34617614 ACCATGGTTGAAAGATACCA-GGCAAC
66 ACCATGGTTGAAAGATACCATGGCAAC
*
34617640 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGAACAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGAACAAG
34617705 ACCATGGTTGAAAGATACCATGGCAAC
66 ACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
34617732 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGC
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGC
34617775 GTCATGTCAA
Statistics
Matches: 122, Mismatches: 11, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
91 81 0.66
92 41 0.34
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (92 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGAACAAG
ACCATGGTTGAAAGATACCATGGCAAC
Found at i:34620902 original size:20 final size:20
Alignment explanation
Indices: 34620865--34620902 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
34620855 TGATGGGGAG
*
34620865 CAAGAATATCAAGTTGGATT
1 CAAGAATATCAAGCTGGATT
34620885 CAAGAA-ATCGAAGCTGGA
1 CAAGAATATC-AAGCTGGA
34620903 GGAGAGAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.42, C:0.13, G:0.24, T:0.21
Consensus pattern (20 bp):
CAAGAATATCAAGCTGGATT
Found at i:34622847 original size:46 final size:46
Alignment explanation
Indices: 34622795--34623021 Score: 314
Period size: 46 Copynumber: 5.0 Consensus size: 46
34622785 AGTGTGCTCT
*
34622795 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
34622841 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCA-GGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
34622886 CTGATATGAAATGTGTAAGACCTTGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* ***
34622932 ATGATATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * * *
34622978 ATGACA-GAAAACGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
34623022 TCATGTCAAA
Statistics
Matches: 165, Mismatches: 14, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
45 44 0.27
46 121 0.73
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:34622952 original size:91 final size:92
Alignment explanation
Indices: 34622795--34623026 Score: 315
Period size: 91 Copynumber: 2.5 Consensus size: 92
34622785 AGTGTGCTCT
* * ***
34622795 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGCCTGATATGAAATGTGTAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGAACAAG
34622860 ACCATGGTTGAAAGATACCA-GGCAAC
66 ACCATGGTTGAAAGATACCATGGCAAC
*
34622886 CTGATATGAAATGTGTAAGACCTTGGTTGAAAGATACCATGGCAACATGATATGAAATGAACAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGAACAAG
34622951 ACCATGGTTGAAAGATACCATGGCAAC
66 ACCATGGTTGAAAGATACCATGGCAAC
* * * * * * * *
34622978 ATGACA-GAAAACGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATG
34623027 TCAAAGATAA
Statistics
Matches: 124, Mismatches: 15, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
91 80 0.65
92 44 0.35
ACGTcount: A:0.39, C:0.16, G:0.24, T:0.22
Consensus pattern (92 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGAACAAG
ACCATGGTTGAAAGATACCATGGCAAC
Found at i:34623042 original size:137 final size:136
Alignment explanation
Indices: 34622796--34623044 Score: 288
Period size: 137 Copynumber: 1.8 Consensus size: 136
34622786 GTGTGCTCTC
*** * * * * *
34622796 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGCCTGATATGAAATGTGTAAGA
1 TGATATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAACGAGTAAGA
* * * ***
34622861 CCATGGTTGAAAGATACCAGGCAACCTGATATGAAATGTGTAAGACCTTGGTTGAAAGATACCAT
66 CCATAGTTGAAAGACACCAGGCAACATGATA-GAAATAAATAAGACCTTGGTTGAAAGATACCAT
34622926 GGCAACA
130 GGCAACA
34622933 TGATATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAACGAGTAAG
1 TGATATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAACATGACATG-AAACGAGTAAG
* *
34622997 ACCATAGTTGAAAGACACTATGGCATCATG-TCA-AAGATAAATAAGACC
65 ACCATAGTTGAAAGACACCA-GGCAACATGAT-AGAA-ATAAATAAGACC
34623045 GTGGATGGGA
Statistics
Matches: 92, Mismatches: 16, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
136 3 0.03
137 81 0.88
138 8 0.09
ACGTcount: A:0.40, C:0.15, G:0.23, T:0.22
Consensus pattern (136 bp):
TGATATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAACGAGTAAGA
CCATAGTTGAAAGACACCAGGCAACATGATAGAAATAAATAAGACCTTGGTTGAAAGATACCATG
GCAACA
Found at i:34627179 original size:12 final size:11
Alignment explanation
Indices: 34627159--34627189 Score: 53
Period size: 12 Copynumber: 2.7 Consensus size: 11
34627149 TTACAACCCA
34627159 AAAAAATAAAT
1 AAAAAATAAAT
34627170 AAATAAATAAAT
1 AAA-AAATAAAT
34627182 AAAAAATA
1 AAAAAATA
34627190 CACCTACACT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 8 0.42
12 11 0.58
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (11 bp):
AAAAAATAAAT
Found at i:34629915 original size:29 final size:29
Alignment explanation
Indices: 34629855--34629943 Score: 144
Period size: 29 Copynumber: 3.1 Consensus size: 29
34629845 ACATACCTGC
*
34629855 ATATGGCCCACTAGGCCC-AATCACATTT
1 ATATGGCCCATTAGGCCCAAATCACATTT
34629883 ATATGGCCCATTAGGCCCAAATCACATTT
1 ATATGGCCCATTAGGCCCAAATCACATTT
* *
34629912 ATATGGCCCATCAGGCCCAATTCACATTT
1 ATATGGCCCATTAGGCCCAAATCACATTT
34629941 ATA
1 ATA
34629944 GTCATGCTCG
Statistics
Matches: 57, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
28 17 0.30
29 40 0.70
ACGTcount: A:0.30, C:0.29, G:0.13, T:0.27
Consensus pattern (29 bp):
ATATGGCCCATTAGGCCCAAATCACATTT
Found at i:34631643 original size:8 final size:8
Alignment explanation
Indices: 34631630--34631661 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
34631620 TCACAAATGC
34631630 CGGCTTTT
1 CGGCTTTT
34631638 CGGCTTTT
1 CGGCTTTT
34631646 CGGCTTTT
1 CGGCTTTT
*
34631654 CAGCTTTT
1 CGGCTTTT
34631662 ACCAATCTAG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.03, C:0.25, G:0.22, T:0.50
Consensus pattern (8 bp):
CGGCTTTT
Found at i:34635563 original size:60 final size:59
Alignment explanation
Indices: 34635443--34635579 Score: 152
Period size: 60 Copynumber: 2.3 Consensus size: 59
34635433 CAGTGTTAAC
* *
34635443 TGGGCCTTAGCCCATATCAATATTAATCTAGGCCATAGCCCCTTACAGTATCAGAGTATAT
1 TGGGCC-TAGCCCATATCAATATCAATCTAGGCCATAGCCCATTACAG-ATCAGAGTATAT
* * * *
34635504 TGGGCCTAGCCCATATCATTATCAATCTGGGCCGTAGCCTTATTACA-AGTC-GAGATATAT
1 TGGGCCTAGCCCATATCAATATCAATCTAGGCCATAGCC-CATTACAGA-TCAGAG-TATAT
*
34635564 TGGGCCTTGCCCATAT
1 TGGGCCTAGCCCATAT
34635580 TAACATAGTT
Statistics
Matches: 66, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
59 4 0.06
60 51 0.77
61 11 0.17
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (59 bp):
TGGGCCTAGCCCATATCAATATCAATCTAGGCCATAGCCCATTACAGATCAGAGTATAT
Found at i:34636986 original size:28 final size:28
Alignment explanation
Indices: 34636935--34636988 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
34636925 AAGAGATGAG
*
34636935 AGAAGGAAAGAAAAGAATAGAAAATAGA
1 AGAAGGAAAGAAAAGAATACAAAATAGA
*
34636963 AGAAGGAAA-AAAATGAATCCAAAATA
1 AGAAGGAAAGAAAA-GAATACAAAATA
34636989 TACGACATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 4 0.17
28 19 0.83
ACGTcount: A:0.67, C:0.04, G:0.20, T:0.09
Consensus pattern (28 bp):
AGAAGGAAAGAAAAGAATACAAAATAGA
Found at i:34637936 original size:15 final size:15
Alignment explanation
Indices: 34637899--34637927 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
34637889 ATTCCCTATC
34637899 TAATAATAATAATTA
1 TAATAATAATAATTA
34637914 TAATAATAATAATT
1 TAATAATAATAATT
34637928 TTATAAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
TAATAATAATAATTA
Found at i:34641553 original size:40 final size:40
Alignment explanation
Indices: 34641507--34641670 Score: 247
Period size: 40 Copynumber: 4.1 Consensus size: 40
34641497 AGTACAAATA
34641507 TGTGCGATTCGACATAGCTTCAGCTATATATGGCACTTAG
1 TGTGCGATTCGACATAGCTTCAGCTATATATGGCACTTAG
* * * *
34641547 TGTGCGATTCGATATAGTTTCGGCTATAAATGGCACTTAG
1 TGTGCGATTCGACATAGCTTCAGCTATATATGGCACTTAG
*
34641587 TGTGCAATTCGACATAGCTTCAGCTATATATGGCACTTAG
1 TGTGCGATTCGACATAGCTTCAGCTATATATGGCACTTAG
* * * *
34641627 TGTGCGATTTGAGATAGCTTCAGCTATGTATAGCACTTAG
1 TGTGCGATTCGACATAGCTTCAGCTATATATGGCACTTAG
34641667 TGTG
1 TGTG
34641671 TGAGATATCA
Statistics
Matches: 110, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 110 1.00
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (40 bp):
TGTGCGATTCGACATAGCTTCAGCTATATATGGCACTTAG
Found at i:34651796 original size:48 final size:48
Alignment explanation
Indices: 34651743--34651836 Score: 179
Period size: 48 Copynumber: 2.0 Consensus size: 48
34651733 ATTTTTTCTG
34651743 GTTTTTTCACTCCATGATATTTACAACTGCTATGGGAAAAAAAAACCA
1 GTTTTTTCACTCCATGATATTTACAACTGCTATGGGAAAAAAAAACCA
*
34651791 GTTTTTTCACTCCATGATATTTACACCTGCTATGGGAAAAAAAAAC
1 GTTTTTTCACTCCATGATATTTACAACTGCTATGGGAAAAAAAAAC
34651837 TAAGCACAAC
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.36, C:0.19, G:0.13, T:0.32
Consensus pattern (48 bp):
GTTTTTTCACTCCATGATATTTACAACTGCTATGGGAAAAAAAAACCA
Found at i:34653294 original size:16 final size:17
Alignment explanation
Indices: 34653238--34653294 Score: 57
Period size: 18 Copynumber: 3.4 Consensus size: 17
34653228 AGGGAAATAT
34653238 TAAAATAATAAAAATT-A
1 TAAAATAAT-AAAATTAA
34653255 TAAAA-AATAAAATTAAGA
1 TAAAATAATAAAATT-A-A
*
34653273 TGAAATAAT-AAATTAA
1 TAAAATAATAAAATTAA
34653289 TAAAAT
1 TAAAAT
34653295 TAGCACACTG
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
15 6 0.18
16 9 0.26
17 6 0.18
18 10 0.29
19 3 0.09
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.28
Consensus pattern (17 bp):
TAAAATAATAAAATTAA
Found at i:34654346 original size:31 final size:31
Alignment explanation
Indices: 34654308--34654386 Score: 140
Period size: 31 Copynumber: 2.5 Consensus size: 31
34654298 TTTAACAGCT
34654308 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
34654339 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
**
34654370 ACTGGGCTAAAGCCTTT
1 ACTGGGCCGAAGCCTTT
34654387 ACTGCAAACG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCATATC
Found at i:34654665 original size:25 final size:24
Alignment explanation
Indices: 34654595--34654676 Score: 94
Period size: 24 Copynumber: 3.4 Consensus size: 24
34654585 CTGGAGGCCT
* *
34654595 AGCCTCTTTTAAT-AACTGGGGGAA
1 AGCC-CTTTTGATAAACTGGGGCAA
34654619 AGCCCTTTTGATAAACTGGGGCAA
1 AGCCCTTTTGATAAACTGGGGCAA
* * *
34654643 AGCCCTTTTCGGTAAACTAGGGCAG
1 AGCCCTTTT-GATAAACTGGGGCAA
34654668 AGCCCTTTT
1 AGCCCTTTT
34654677 AGCACTTCCT
Statistics
Matches: 51, Mismatches: 5, Indels: 3
0.86 0.08 0.05
Matches are distributed among these distances:
23 7 0.14
24 23 0.45
25 21 0.41
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.28
Consensus pattern (24 bp):
AGCCCTTTTGATAAACTGGGGCAA
Found at i:34655706 original size:27 final size:27
Alignment explanation
Indices: 34655573--34655806 Score: 177
Period size: 27 Copynumber: 8.6 Consensus size: 27
34655563 CATCCTACAA
* * * *
34655573 GGGTGTTTTGGTAAATCTACAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
* ** *
34655600 GGGTATTTTAGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
* * * * *
34655627 TGGTATTTCT-ATAATTTTTAGAAAGTCAA
1 GGGTATTT-TGGTAA-TTTTACAAA-CCAG
** *
34655656 GGGTATTTCT-GTAATTTTGTAAATCAG
1 GGGTATTT-TGGTAATTTTACAAACCAG
**
34655683 GGGTATTTTGGTAATTTTACAAA-TTG
1 GGGTATTTTGGTAATTTTACAAACCAG
* * *
34655709 AGGGTATATCGGTAATTTCACAAACCAG
1 -GGGTATTTTGGTAATTTTACAAACCAG
* * *
34655737 TGGTATTTCGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
*
34655764 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
34655791 GGGTATTTTGGTAATT
1 GGGTATTTTGGTAATT
34655807 CGATCATATA
Statistics
Matches: 170, Mismatches: 31, Indels: 12
0.80 0.15 0.06
Matches are distributed among these distances:
26 2 0.01
27 137 0.81
28 16 0.09
29 15 0.09
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCAG
Found at i:34655742 original size:54 final size:54
Alignment explanation
Indices: 34655680--34655839 Score: 180
Period size: 54 Copynumber: 3.0 Consensus size: 54
34655670 TTTTGTAAAT
*
34655680 CAGGGGTATTTTGGTAATTTTACAAA-TTGAGGGTATATCGGTAATTTCACAAAC
1 CAGGGGTATTTTGGTAATTTTACAAACTAG-GGGTATATCGGTAATTTCACAAAC
* * * * *
34655734 CAGTGGTATTTCGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAAC
1 CAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATATCGGTAATTTCACAAAC
* ** * * *
34655788 TAGGGGTATTTTGGTAATTCGATCATA-TAGGGGTATTTCAGTAATTTCACAA
1 CAGGGGTATTTTGGTAATTTTA-CAAACTAGGGGTATATCGGTAATTTCACAA
34655840 TCGAGGGTAA
Statistics
Matches: 89, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
54 84 0.94
55 5 0.06
ACGTcount: A:0.30, C:0.11, G:0.22, T:0.38
Consensus pattern (54 bp):
CAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATATCGGTAATTTCACAAAC
Found at i:34655795 original size:81 final size:81
Alignment explanation
Indices: 34655657--34655806 Score: 214
Period size: 81 Copynumber: 1.9 Consensus size: 81
34655647 GAAAGTCAAG
* ** *
34655657 GGTATTTCTGTAATTTTGTAAATCAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATATCGGT
1 GGTATTTCGGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAATAGAGGGTATATCGGT
34655722 AATTTCACAAACCAGT
66 AATTTCACAAACCAGT
* *
34655738 GGTATTTCGGTAATTTTACAAA-CTAGGGGTATTTTGGTAATTTTACAAACTAG-GGGTATTTTG
1 GGTATTTCGGTAATTTTACAAATC-AGGGGTATTTTGGTAATTTTACAAA-TAGAGGGTATATCG
34655801 GTAATT
64 GTAATT
34655807 CGATCATATA
Statistics
Matches: 61, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
80 1 0.02
81 58 0.95
82 2 0.03
ACGTcount: A:0.29, C:0.09, G:0.22, T:0.41
Consensus pattern (81 bp):
GGTATTTCGGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAATAGAGGGTATATCGGT
AATTTCACAAACCAGT
Found at i:34655818 original size:27 final size:27
Alignment explanation
Indices: 34655681--34655825 Score: 125
Period size: 27 Copynumber: 5.4 Consensus size: 27
34655671 TTTGTAAATC
**
34655681 AGGGGTATTTTGGTAATTTTACAAA-T
1 AGGGGTATTTTGGTAATTCGACAAACT
* * * *
34655707 TGAGGGTATATCGGTAATTTC-ACAAACC
1 AG-GGGTATTTTGGTAA-TTCGACAAACT
* * **
34655735 AGTGGTATTTCGGTAATTTTACAAACT
1 AGGGGTATTTTGGTAATTCGACAAACT
**
34655762 AGGGGTATTTTGGTAATTTTACAAACT
1 AGGGGTATTTTGGTAATTCGACAAACT
*
34655789 AGGGGTATTTTGGTAATTCGATCATA-T
1 AGGGGTATTTTGGTAATTCGA-CAAACT
34655816 AGGGGTATTT
1 AGGGGTATTT
34655826 CAGTAATTTC
Statistics
Matches: 99, Mismatches: 15, Indels: 9
0.80 0.12 0.07
Matches are distributed among these distances:
26 3 0.03
27 90 0.91
28 6 0.06
ACGTcount: A:0.29, C:0.09, G:0.23, T:0.39
Consensus pattern (27 bp):
AGGGGTATTTTGGTAATTCGACAAACT
Found at i:34655823 original size:81 final size:81
Alignment explanation
Indices: 34655656--34655839 Score: 205
Period size: 81 Copynumber: 2.3 Consensus size: 81
34655646 AGAAAGTCAA
* ** *
34655656 GGGTATTTCTGTAATTTTGTAAATCAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATATCGG
1 GGGTATTTCAGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAATAGAGGGTATATCGG
34655721 TAATTTCACAAACCAG
66 TAATTTCACAAACCAG
* * * *
34655737 TGGTATTTCGGTAATTTTACAAA-CTAGGGGTATTTTGGTAATTTTACAAACTAG-GGGTATTTT
1 GGGTATTTCAGTAATTTTACAAATC-AGGGGTATTTTGGTAATTTTACAAA-TAGAGGGTATATC
* *
34655800 GGTAA-TTCGATCATA-TAG
64 GGTAATTTC-A-CAAACCAG
*
34655818 GGGTATTTCAGTAATTTCACAA
1 GGGTATTTCAGTAATTTTACAA
34655840 TCGAGGGTAA
Statistics
Matches: 87, Mismatches: 12, Indels: 8
0.81 0.11 0.07
Matches are distributed among these distances:
80 4 0.05
81 78 0.90
82 5 0.06
ACGTcount: A:0.29, C:0.10, G:0.22, T:0.39
Consensus pattern (81 bp):
GGGTATTTCAGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAATAGAGGGTATATCGG
TAATTTCACAAACCAG
Found at i:34655846 original size:27 final size:26
Alignment explanation
Indices: 34655677--34655846 Score: 121
Period size: 27 Copynumber: 6.3 Consensus size: 26
34655667 TAATTTTGTA
* *
34655677 AATCAGGGGTATTTTGGTAATTTTAC
1 AATCAGGGGTATTTCGGTAATTTCAC
* *
34655703 AAAT-TGAGGGTATATCGGTAATTTCAC
1 -AATCAG-GGGTATTTCGGTAATTTCAC
* * *
34655730 AAACCAGTGGTATTTCGGTAATTTTAC
1 -AATCAGGGGTATTTCGGTAATTTCAC
* * *
34655757 AAACTAGGGGTATTTTGGTAATTTTAC
1 AATC-AGGGGTATTTCGGTAATTTCAC
* *
34655784 AAACTAGGGGTATTTTGGTAA-TTCGATC
1 AATC-AGGGGTATTTCGGTAATTTC-A-C
*
34655812 ATAT-AGGGGTATTTCAGTAATTTCAC
1 A-ATCAGGGGTATTTCGGTAATTTCAC
34655838 AATCGAGGG
1 AATC-AGGG
34655847 TAAAATAGTA
Statistics
Matches: 118, Mismatches: 16, Indels: 18
0.78 0.11 0.12
Matches are distributed among these distances:
25 2 0.02
26 8 0.07
27 101 0.86
28 6 0.05
29 1 0.01
ACGTcount: A:0.30, C:0.11, G:0.23, T:0.36
Consensus pattern (26 bp):
AATCAGGGGTATTTCGGTAATTTCAC
Found at i:34655872 original size:27 final size:27
Alignment explanation
Indices: 34655842--34656002 Score: 205
Period size: 27 Copynumber: 6.0 Consensus size: 27
34655832 TTTCACAATC
* * * *
34655842 GAGGGTAAAATAGTAATTTTTTAAACT
1 GAGGGTAAAACAGTAATTCTATAAATT
**
34655869 GAGGGTAAAATGGTAATTCTATAAATT
1 GAGGGTAAAACAGTAATTCTATAAATT
*
34655896 GAGGGTAAAACGGTAATTCTATAAATT
1 GAGGGTAAAACAGTAATTCTATAAATT
* *
34655923 GAGGGTAAAACGGTAATTCTATAAATC
1 GAGGGTAAAACAGTAATTCTATAAATT
* *
34655950 GAGGGTAAAACAATAATTCTGTAAATT
1 GAGGGTAAAACAGTAATTCTATAAATT
* *
34655977 AAGGGTAAAACAGTAATTTTATAAAT
1 GAGGGTAAAACAGTAATTCTATAAAT
34656003 CGATGGTACT
Statistics
Matches: 120, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 120 1.00
ACGTcount: A:0.43, C:0.06, G:0.20, T:0.31
Consensus pattern (27 bp):
GAGGGTAAAACAGTAATTCTATAAATT
Found at i:34655912 original size:54 final size:54
Alignment explanation
Indices: 34655838--34656010 Score: 229
Period size: 54 Copynumber: 3.2 Consensus size: 54
34655828 GTAATTTCAC
* * * * *
34655838 AATCGAGGGTAAAATAGTAATTTTTTAAACTGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAACAGTAATTCTATAAATTGAGGGTAAAACGGTAATTCTATA
* *
34655892 AATTGAGGGTAAAACGGTAATTCTATAAATTGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACAGTAATTCTATAAATTGAGGGTAAAACGGTAATTCTATA
* * * * *
34655946 AATCGAGGGTAAAACAATAATTCTGTAAATTAAGGGTAAAACAGTAATTTTATA
1 AATCGAGGGTAAAACAGTAATTCTATAAATTGAGGGTAAAACGGTAATTCTATA
*
34656000 AATCGATGGTA
1 AATCGAGGGTA
34656011 CTTTGGTAAT
Statistics
Matches: 104, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 104 1.00
ACGTcount: A:0.42, C:0.07, G:0.20, T:0.31
Consensus pattern (54 bp):
AATCGAGGGTAAAACAGTAATTCTATAAATTGAGGGTAAAACGGTAATTCTATA
Found at i:34659231 original size:20 final size:19
Alignment explanation
Indices: 34659202--34659241 Score: 71
Period size: 20 Copynumber: 2.1 Consensus size: 19
34659192 CCTTGTTTGC
34659202 AAAATTTTCCTATTTTTCT
1 AAAATTTTCCTATTTTTCT
34659221 AAAACTTTTCCTATTTTTCT
1 AAAA-TTTTCCTATTTTTCT
34659241 A
1 A
34659242 TTTTTGCTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.28, C:0.17, G:0.00, T:0.55
Consensus pattern (19 bp):
AAAATTTTCCTATTTTTCT
Found at i:34663449 original size:40 final size:39
Alignment explanation
Indices: 34663359--34663509 Score: 196
Period size: 40 Copynumber: 3.8 Consensus size: 39
34663349 TGGATGATAA
* * * *
34663359 CCGGGCTAAGTCCCGAAGGCATCTGCGCTAGTGACTAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
34663398 CCGGGCTAAGTCCTGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AAT
*
34663438 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTCTAA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA--CTAAT
* *
34663478 CCGGGCTATGTCCCGAAGGCATTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
34663510 AGTTATATCC
Statistics
Matches: 99, Mismatches: 10, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
39 31 0.31
40 64 0.65
41 2 0.02
42 2 0.02
ACGTcount: A:0.23, C:0.25, G:0.29, T:0.23
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:34671467 original size:39 final size:40
Alignment explanation
Indices: 34671411--34671510 Score: 121
Period size: 39 Copynumber: 2.5 Consensus size: 40
34671401 TGGATGATAA
* * *
34671411 CCGGGCTAAGTCTCGAAGGCATCTGCGCTAGTGACT-AAT
1 CCGGGCTAAGTCCCGAAGGCATCTGCACGAGTGACTAAAT
* * ** *
34671450 CCGGGTTAAGTCCCGAAGGCATTTTTACGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATCTGCACGAGTGACTAAAT
34671490 CCGGGCTAAGTCCCGAAGGCA
1 CCGGGCTAAGTCCCGAAGGCA
34671511 ATTGTGCGAG
Statistics
Matches: 51, Mismatches: 9, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
39 28 0.55
40 23 0.45
ACGTcount: A:0.25, C:0.25, G:0.27, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATCTGCACGAGTGACTAAAT
Found at i:34671501 original size:40 final size:39
Alignment explanation
Indices: 34671411--34671561 Score: 160
Period size: 40 Copynumber: 3.8 Consensus size: 39
34671401 TGGATGATAA
* * * * *
34671411 CCGGGCTAAGTCTCGAAGGCATCTGCGCTAGTGACTAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* * *
34671450 CCGGGTTAAGTCCCGAAGGCATTTTTACGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AAT
*
34671490 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTCTAA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA--CTAAT
* * *
34671530 CCGGGCTATGTCCTGAAGGCATTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
34671562 AGCTATATCC
Statistics
Matches: 93, Mismatches: 16, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
39 28 0.30
40 61 0.66
41 2 0.02
42 2 0.02
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:34671573 original size:80 final size:79
Alignment explanation
Indices: 34671411--34671561 Score: 173
Period size: 79 Copynumber: 1.9 Consensus size: 79
34671401 TGGATGATAA
* * * *
34671411 CCGGGCTAAGTCTCGAAGGCATCTGCGCTAGTGACTAATCCGGGTTAAGTCCCGAAGGCATTTTT
1 CCGGGCTAAGTCCCGAAGGCATCTGCGCGAGTGACTAATCCGGGCTAAGTCCCGAAGGCATTTTG
34671476 ACGAGTTACTAAAT
66 ACGAGTTACTAAAT
* * * *
34671490 CCGGGCTAAGTCCCGAAGGCAAT-TGTGCGAGTTACTCTAA-CCGGGCTATGTCCTGAAGGCA-T
1 CCGGGCTAAGTCCCGAAGGC-ATCTGCGCGAGTGA--CTAATCCGGGCTAAGTCCCGAAGGCATT
34671552 TTGAGCGAGT
63 TTGA-CGAGT
34671562 AGCTATATCC
Statistics
Matches: 60, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
79 31 0.52
80 25 0.42
81 4 0.07
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATCTGCGCGAGTGACTAATCCGGGCTAAGTCCCGAAGGCATTTTG
ACGAGTTACTAAAT
Found at i:34707599 original size:20 final size:19
Alignment explanation
Indices: 34707555--34707599 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
34707545 AGCACATGTA
*
34707555 TTCATAAAATTTTAGAATT
1 TTCATAAAATTTTACAATT
*
34707574 TGTCATCAAATTTTACAACTT
1 T-TCATAAAATTTTACAA-TT
34707595 TTCAT
1 TTCAT
34707600 TTTAGTCCCT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
19 1 0.05
20 18 0.82
21 3 0.14
ACGTcount: A:0.36, C:0.13, G:0.04, T:0.47
Consensus pattern (19 bp):
TTCATAAAATTTTACAATT
Found at i:34713415 original size:28 final size:29
Alignment explanation
Indices: 34713383--34713437 Score: 69
Period size: 28 Copynumber: 1.9 Consensus size: 29
34713373 TACTTTTAAA
*
34713383 TAACAACTAATAT-ATCAA-ATTCATCATT
1 TAACAACTAAAATCA-CAAGATTCATCATT
*
34713411 TAACATCTAAAATCACAAGATTCATCA
1 TAACAACTAAAATCACAAGATTCATCA
34713438 ATGGAATCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
28 14 0.61
29 9 0.39
ACGTcount: A:0.47, C:0.20, G:0.02, T:0.31
Consensus pattern (29 bp):
TAACAACTAAAATCACAAGATTCATCATT
Found at i:34714292 original size:29 final size:29
Alignment explanation
Indices: 34714250--34714307 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
34714240 TAAATATATG
34714250 TATAATATCTCTTTGGAACTCACTAAGTT
1 TATAATATCTCTTTGGAACTCACTAAGTT
34714279 TATAATATCTCTTTGGAACTCACTAAGTT
1 TATAATATCTCTTTGGAACTCACTAAGTT
34714308 CATATGAACA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.31, C:0.17, G:0.10, T:0.41
Consensus pattern (29 bp):
TATAATATCTCTTTGGAACTCACTAAGTT
Found at i:34719416 original size:79 final size:79
Alignment explanation
Indices: 34719317--34719536 Score: 205
Period size: 79 Copynumber: 2.8 Consensus size: 79
34719307 CTCGTTCAAG
* * ** * *
34719317 TGCCTTCGGGACATAGCCCGGTCATAGTAACTCATTC-AATGCCTTCGGGACTTAACCCGGATTT
1 TGCCTTCGGGACATAACCCGG-AATAGTAACTCACACAAAGGCCTTCGGGACTTAACCCGGA-AT
*
34719381 TAA-AACTCGCACGAA
64 TAATAACTCGCACAAA
* * * *
34719396 TGCCTTCGGGACTTAACCCGGAATTGTATCTCGCACAAAGGCCTTCGGGACTTAACCCGGAATTA
1 TGCCTTCGGGACATAACCCGGAATAGTAACTCACACAAAGGCCTTCGGGACTTAACCCGGAATTA
34719461 ATAACTCGCACAAA
66 ATAACTCGCACAAA
* * ** * * *
34719475 TACCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 TGCCTTCGGGA-CATAACCCGGA-ATAGTAACTCA-CACAAAGGCCTTCGGGACTTAACCCGGA
34719537 CAGCATTCAA
Statistics
Matches: 116, Mismatches: 20, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
78 16 0.14
79 68 0.59
80 26 0.22
81 6 0.05
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
TGCCTTCGGGACATAACCCGGAATAGTAACTCACACAAAGGCCTTCGGGACTTAACCCGGAATTA
ATAACTCGCACAAA
Found at i:34719496 original size:40 final size:40
Alignment explanation
Indices: 34719354--34719536 Score: 187
Period size: 40 Copynumber: 4.6 Consensus size: 40
34719344 TAACTCATTC
* *
34719354 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
34719394 AATGCCTTCGGGACTTAACCCGGAATT-GTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
34719433 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
* ** * * *
34719473 AATACCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
34719514 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
34719537 CAGCATTCAA
Statistics
Matches: 120, Mismatches: 16, Indels: 13
0.81 0.11 0.09
Matches are distributed among these distances:
39 41 0.34
40 68 0.57
41 11 0.09
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:34721378 original size:80 final size:81
Alignment explanation
Indices: 34721228--34721474 Score: 218
Period size: 80 Copynumber: 3.1 Consensus size: 81
34721218 TAATAAAGAG
* * * * * *
34721228 AAATTATCAAAATACC-CCGATTTGTGAAATTACCGAAACACCGTCGATTTTTAGAATTACCGAA
1 AAATTACCGAAATACCACCGATTTGTAAAATTACCGAAAAACCGTCGATTATGAGAATTACCGAA
*
34721292 ACACCCTCGATTTGTA
66 ACACCCTCAATTTGTA
** *
34721308 AAATTACCGAAATACCATTGATTTGTAAAATTACTGAAATAACC-TCGATTATGA-AATTA-CGA
1 AAATTACCGAAATACCACCGATTTGTAAAATTACCGAAA-AACCGTCGATTATGAGAATTACCG-
* *
34721370 AAATACCCTTAATTTGTA
64 AAACACCCTCAATTTGTA
* * * * * * **
34721388 AAATTATCGAAATACCCCCAATTTGTAAAATTACC-AAAACACCCTTGATT-TGTAAAATTAATG
1 AAATTACCGAAATACCACCGATTTGTAAAATTACCGAAAA-ACCGTCGATTATG-AGAATTACCG
* *
34721451 GAACACCCTCGATTTGTA
64 AAACACCCTCAATTTGTA
34721469 AAATTA
1 AAATTA
34721475 TTGGAACACC
Statistics
Matches: 135, Mismatches: 24, Indels: 15
0.78 0.14 0.09
Matches are distributed among these distances:
78 1 0.01
79 10 0.07
80 69 0.51
81 51 0.38
82 4 0.03
ACGTcount: A:0.40, C:0.19, G:0.11, T:0.30
Consensus pattern (81 bp):
AAATTACCGAAATACCACCGATTTGTAAAATTACCGAAAAACCGTCGATTATGAGAATTACCGAA
ACACCCTCAATTTGTA
Found at i:34721593 original size:27 final size:27
Alignment explanation
Indices: 34721228--34721621 Score: 318
Period size: 27 Copynumber: 14.7 Consensus size: 27
34721218 TAATAAAGAG
* *
34721228 AAATTATCAAAATACCC-CGATTTGTG
1 AAATTATCGAAATACCCTCGATTTGTA
* * * *
34721254 AAATTACCGAAACACCGTCGATTTTTA
1 AAATTATCGAAATACCCTCGATTTGTA
* * *
34721281 GAATTACCGAAACACCCTCGATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
* * *
34721308 AAATTACCGAAATACCATTGATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
*
34721335 AAATTA-CTGAAATAACCTCGATTATG--
1 AAATTATC-GAAATACCCTCGATT-TGTA
**
34721361 AAATTA-CGAAAATACCCTTAATTTGTA
1 AAATTATCG-AAATACCCTCGATTTGTA
* *
34721388 AAATTATCGAAATACCCCCAATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
* * * *
34721415 AAATTACCAAAACACCCTTGATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
* *
34721442 AAATTAAT-GGAACACCCTCGATTTGTA
1 AAATT-ATCGAAATACCCTCGATTTGTA
* * *
34721469 AAATTATTGGAACACCCTCGATTTG-A
1 AAATTATCGAAATACCCTCGATTTGTA
* **
34721495 AAATTTATCGAAATACTCTCGATCGGTA
1 AAA-TTATCGAAATACCCTCGATTTGTA
*
34721523 AAATTATCGAAATACCCTCGATTCGTA
1 AAATTATCGAAATACCCTCGATTTGTA
* * * * *
34721550 AAATCACCGAAACACCCCCTATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
* ** *
34721577 AAATTATCAAAATACCCTTTTAGTT-TA
1 AAATTATCGAAATACCC-TCGATTTGTA
*
34721604 AAATTATCAAAATACCCT
1 AAATTATCGAAATACCCT
34721622 TGTAGTGTAA
Statistics
Matches: 303, Mismatches: 53, Indels: 24
0.80 0.14 0.06
Matches are distributed among these distances:
25 3 0.01
26 39 0.13
27 248 0.82
28 13 0.04
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.30
Consensus pattern (27 bp):
AAATTATCGAAATACCCTCGATTTGTA
Found at i:34721622 original size:27 final size:27
Alignment explanation
Indices: 34721573--34721634 Score: 106
Period size: 27 Copynumber: 2.3 Consensus size: 27
34721563 ACCCCCTATT
*
34721573 TGTAAAATTATCAAAATACCCTTTTAG
1 TGTAAAATTATCAAAATACCCTTGTAG
*
34721600 TTTAAAATTATCAAAATACCCTTGTAG
1 TGTAAAATTATCAAAATACCCTTGTAG
34721627 TGTAAAAT
1 TGTAAAAT
34721635 GACTGACATA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.42, C:0.13, G:0.08, T:0.37
Consensus pattern (27 bp):
TGTAAAATTATCAAAATACCCTTGTAG
Found at i:34724494 original size:28 final size:28
Alignment explanation
Indices: 34724454--34724517 Score: 101
Period size: 28 Copynumber: 2.3 Consensus size: 28
34724444 TTGGAAGTTG
* * *
34724454 TTGGGCCTGATGGGCCATTTGAATGTGA
1 TTGGGCCTGATGGGCCATGTGAACGAGA
34724482 TTGGGCCTGATGGGCCATGTGAACGAGA
1 TTGGGCCTGATGGGCCATGTGAACGAGA
34724510 TTGGGCCT
1 TTGGGCCT
34724518 AAAGGGGCCA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.17, C:0.17, G:0.38, T:0.28
Consensus pattern (28 bp):
TTGGGCCTGATGGGCCATGTGAACGAGA
Found at i:34725260 original size:27 final size:27
Alignment explanation
Indices: 34724834--34725305 Score: 447
Period size: 27 Copynumber: 17.6 Consensus size: 27
34724824 TAATAAAGAT
* *
34724834 AAATTACCGAAATACCC-CTAATTTGTA
1 AAATTATCGAAATACCCTC-GATTTGTA
* *
34724861 AAATTA-CTGAAACA-CCTCGATTTCTA
1 AAATTATC-GAAATACCCTCGATTTGTA
*
34724887 AAATTATCGAAACACCCTCGATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
*
34724914 AAATTATCGAAATACCCTCAATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
* *
34724941 AAATTATTGAAATACCCTCGA-TTGTG
1 AAATTATCGAAATACCCTCGATTTGTA
*
34724967 AAATTATTGAAATACCCTCGATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
* * *
34724994 AAATTA-CTAAAATACCCTCAATTTGTG
1 AAATTATC-GAAATACCCTCGATTTGTA
* * * *
34725021 AAATTATCAAAACACCCTTGATTTGTC
1 AAATTATCGAAATACCCTCGATTTGTA
* * * *
34725048 AAATTATCGAAACACTCTCAATTTGAA
1 AAATTATCGAAATACCCTCGATTTGTA
*
34725075 AAATTATCGAAATACCCTCGATTTATA
1 AAATTATCGAAATACCCTCGATTTGTA
*
34725102 AAATTATCGAAATACCCTTGATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
* *
34725129 AAATTATCAAAATACCCTCGATTTGTG
1 AAATTATCGAAATACCCTCGATTTGTA
* *
34725156 AAATTA-CTAAAACACCCTCGATTTGTA
1 AAATTATC-GAAATACCCTCGATTTGTA
* * *
34725183 AAATTATTGAAACACCCTTGATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
* * * * *
34725210 ATATTA-CAGGAACACCCTCTACTTGTA
1 AAATTATC-GAAATACCCTCGATTTGTA
* * *
34725237 AAATTATCGAAATACCTTTGACTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
** * * *
34725264 AAACCACCGAAACACCC-CATATTTGTA
1 AAATTATCGAAATACCCTC-GATTTGTA
*
34725291 AAATTATCAAAATAC
1 AAATTATCGAAATAC
34725306 GCTTGTCGTG
Statistics
Matches: 369, Mismatches: 64, Indels: 24
0.81 0.14 0.05
Matches are distributed among these distances:
26 47 0.13
27 320 0.87
28 2 0.01
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (27 bp):
AAATTATCGAAATACCCTCGATTTGTA
Found at i:34725353 original size:27 final size:27
Alignment explanation
Indices: 34725300--34725361 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
34725290 AAAATTATCA
* * *
34725300 AAATACGCTTGTCGTGAAAACTTACCG
1 AAATACCCTTGTAGTGAAAACTGACCG
34725327 AAATACCCTTGTAGTGTAAAA-TGACCG
1 AAATACCCTTGTAGTG-AAAACTGACCG
*
34725354 ACATACCC
1 AAATACCC
34725362 CTATAGGGTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
27 26 0.87
28 4 0.13
ACGTcount: A:0.35, C:0.24, G:0.16, T:0.24
Consensus pattern (27 bp):
AAATACCCTTGTAGTGAAAACTGACCG
Found at i:34725376 original size:27 final size:27
Alignment explanation
Indices: 34725323--34725378 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 27
34725313 GTGAAAACTT
* * *
34725323 ACCGAAATACCCTTGTAGTGTAAAATG
1 ACCGAAATACCCCTATAGGGTAAAATG
* *
34725350 ACCGACATACCCCTATAGGGTACAATG
1 ACCGAAATACCCCTATAGGGTAAAATG
34725377 AC
1 AC
34725379 TGTTTTGCCT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.21
Consensus pattern (27 bp):
ACCGAAATACCCCTATAGGGTAAAATG
Found at i:34727367 original size:28 final size:28
Alignment explanation
Indices: 34727327--34727412 Score: 136
Period size: 28 Copynumber: 3.1 Consensus size: 28
34727317 GAAGCAGTTA
34727327 GGCCTGATGGGCCATATGAATGTGATTG
1 GGCCTGATGGGCCATATGAATGTGATTG
*
34727355 GGCCTGATGGGCCATATGAATGTGTTTG
1 GGCCTGATGGGCCATATGAATGTGATTG
* * *
34727383 GGCCTGATGGGCCATGTGAACGAGATTG
1 GGCCTGATGGGCCATATGAATGTGATTG
34727411 GG
1 GG
34727413 ACTAAAGGGG
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 53 1.00
ACGTcount: A:0.20, C:0.15, G:0.38, T:0.27
Consensus pattern (28 bp):
GGCCTGATGGGCCATATGAATGTGATTG
Found at i:34727789 original size:27 final size:27
Alignment explanation
Indices: 34727732--34728097 Score: 274
Period size: 27 Copynumber: 13.7 Consensus size: 27
34727722 TAATAAAGAG
* * * *
34727732 AAATTACTGAAATACCC-CGATTTGTG
1 AAATTACCGAAACACCCTCAATTTGTA
* * *
34727758 AAATTACCGAAACACCATCGATTTTTA
1 AAATTACCGAAACACCCTCAATTTGTA
* * *
34727785 GAATTATCGAAACACCCTCGATTTGTA
1 AAATTACCGAAACACCCTCAATTTGTA
* * **
34727812 AAATTACCGAAATACCATTGATTTGTA
1 AAATTACCGAAACACCCTCAATTTGTA
* * *
34727839 AAATTACTGAAATAACCTCAATTATG--
1 AAATTACCGAAACACCCTCAATT-TGTA
** * *
34727865 AAATTACAAAAATACCTTCAATTTGTA
1 AAATTACCGAAACACCCTCAATTTGTA
* * * * *
34727892 AAATTACCGAAATACCCCCGATTTTTG
1 AAATTACCGAAACACCCTCAATTTGTA
**
34727919 AAATTATTGAAACACCCTCAATTTGTA
1 AAATTACCGAAACACCCTCAATTTGTA
* * *
34727946 AAATTATCGAAACACCCTAAATTTTTA
1 AAATTACCGAAACACCCTCAATTTGTA
*
34727973 AAATTACCGAAATACCCTCAATTTGTA
1 AAATTACCGAAACACCCTCAATTTGTA
* * * *
34728000 AAATTATCAAAATACCCTCGATTTGTA
1 AAATTACCGAAACACCCTCAATTTGTA
* * *
34728027 AAATCACCAAAACACCC-CTATTTGTA
1 AAATTACCGAAACACCCTCAATTTGTA
* * ** *
34728053 AAATTATCGAAATACCCT-TGTAGTGTA
1 AAATTACCGAAACACCCTCAAT-TTGTA
*
34728080 AAATTACCGAAATACCCT
1 AAATTACCGAAACACCCT
34728098 TATAGTGTAA
Statistics
Matches: 276, Mismatches: 58, Indels: 11
0.80 0.17 0.03
Matches are distributed among these distances:
25 2 0.01
26 56 0.20
27 216 0.78
28 2 0.01
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (27 bp):
AAATTACCGAAACACCCTCAATTTGTA
Found at i:34727816 original size:54 final size:54
Alignment explanation
Indices: 34727732--34728091 Score: 329
Period size: 54 Copynumber: 6.7 Consensus size: 54
34727722 TAATAAAGAG
* * *
34727732 AAATTA-CTGAAATACCC-CGATTTGTGAAATTACCGAAACACCATCGATTTTTA
1 AAATTATC-GAAATACCCTCGATTTGTAAAATTACCGAAACACCATCAATTTGTA
* * * **
34727785 GAATTATCGAAACACCCTCGATTTGTAAAATTACCGAAATACCATTGATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTAAAATTACCGAAACACCATCAATTTGTA
* * ** * *
34727839 AAATTA-CTGAAATAACCTCAATTATG--AAATTACAAAAATACCTTCAATTTGTA
1 AAATTATC-GAAATACCCTCGATT-TGTAAAATTACCGAAACACCATCAATTTGTA
* * * * ** *
34727892 AAATTACCGAAATACCCCCGATTTTTGAAATTATTGAAACACCCTCAATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTAAAATTACCGAAACACCATCAATTTGTA
* ** * * *
34727946 AAATTATCGAAACACCCTAAATTTTTAAAATTACCGAAATACCCTCAATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTAAAATTACCGAAACACCATCAATTTGTA
* * * * *
34728000 AAATTATCAAAATACCCTCGATTTGTAAAATCACCAAAACACC-CCTATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTAAAATTACCGAAACACCATCAATTTGTA
* *
34728053 AAATTATCGAAATACCCTTG-TAGTGTAAAATTACCGAAA
1 AAATTATCGAAATACCCTCGAT-TTGTAAAATTACCGAAA
34728092 TACCCTTATA
Statistics
Matches: 251, Mismatches: 48, Indels: 16
0.80 0.15 0.05
Matches are distributed among these distances:
52 2 0.01
53 94 0.37
54 153 0.61
55 2 0.01
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.31
Consensus pattern (54 bp):
AAATTATCGAAATACCCTCGATTTGTAAAATTACCGAAACACCATCAATTTGTA
Found at i:34727870 original size:80 final size:80
Alignment explanation
Indices: 34727732--34728097 Score: 330
Period size: 80 Copynumber: 4.6 Consensus size: 80
34727722 TAATAAAGAG
* * * * * * * * *
34727732 AAATTACTGAAATACCC-CGATTTGTGAAATTACCGAAACACCATCGATTTTTAGAATTATCGAA
1 AAATTACCGAAATACCCTCGATTTGTAAAATTACTGAAATACCCTC-AATTTGAAAATTATCAAA
*
34727796 ACACCCTCGATTTGTA
65 ACACCCTCAATTTGTA
* * *
34727812 AAATTACCGAAATACCATTGATTTGTAAAATTACTGAAATAACCTCAATTATG-AAATTA-CAAA
1 AAATTACCGAAATACCCTCGATTTGTAAAATTACTGAAATACCCTCAATT-TGAAAATTATC-AA
* *
34727875 AATACCTTCAATTTGTA
64 AACACCCTCAATTTGTA
* * * * * *
34727892 AAATTACCGAAATACCCCCGATTTTTGAAATTATTGAAACACCCTCAATTTGTAAAATTATCGAA
1 AAATTACCGAAATACCCTCGATTTGTAAAATTACTGAAATACCCTCAATTTG-AAAATTATCAAA
* *
34727957 ACACCCTAAATTTTTA
65 ACACCCTCAATTTGTA
* * * * *
34727973 AAATTACCGAAATACCCTCAATTTGTAAAATTA-TCAAAATACCCTCGATTTGTAAAATCACCAA
1 AAATTACCGAAATACCCTCGATTTGTAAAATTACT-GAAATACCCTCAATTTG-AAAATTATCAA
*
34728037 AACACCC-CTATTTGTA
64 AACACCCTCAATTTGTA
* * * *
34728053 AAATTATCGAAATACCCTTG-TAGTGTAAAATTACCGAAATACCCT
1 AAATTACCGAAATACCCTCGAT-TTGTAAAATTACTGAAATACCCT
34728098 TATAGTGTAA
Statistics
Matches: 230, Mismatches: 47, Indels: 18
0.78 0.16 0.06
Matches are distributed among these distances:
79 4 0.02
80 123 0.53
81 102 0.44
82 1 0.00
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (80 bp):
AAATTACCGAAATACCCTCGATTTGTAAAATTACTGAAATACCCTCAATTTGAAAATTATCAAAA
CACCCTCAATTTGTA
Found at i:34728052 original size:161 final size:161
Alignment explanation
Indices: 34727732--34728069 Score: 414
Period size: 161 Copynumber: 2.1 Consensus size: 161
34727722 TAATAAAGAG
* * * *
34727732 AAATTACTGAAATA-CCCCGATTTGTGAAATTACCGAAACACCATCGATTTTTAGAATTATCGAA
1 AAATTACCGAAATACCCCCGATTTGTGAAATTACCGAAACACCATCAATTTGTAAAATTATCGAA
** ** *
34727796 ACACCCTCGATTTGTAAAATTACCGAAATACCATTGATTTGTAAAATTACTGAAATAACCTCAAT
66 ACACCCTAAATTTGTAAAATTACCGAAATACCATCAATTTGTAAAATTACTAAAATAACCTCAAT
* * *
34727861 TATGAAATTACAAAAATACCTTCAATTTGTA
131 TATGAAATCACAAAAACACCTCCAATTTGTA
* ** *
34727892 AAATTACCGAAATACCCCCGATTTTTGAAATTATTGAAACACCCTCAATTTGTAAAATTATCGAA
1 AAATTACCGAAATACCCCCGATTTGTGAAATTACCGAAACACCATCAATTTGTAAAATTATCGAA
* * * *
34727957 ACACCCTAAATTTTTAAAATTACCGAAATACCCTCAATTTGTAAAATTA-TCAAAATACCCTCGA
66 ACACCCTAAATTTGTAAAATTACCGAAATACCATCAATTTGTAAAATTACT-AAAATAACCTCAA
* *
34728021 TT-TGTAAAATCACCAAAACACC-CCTATTTGTA
130 TTATG--AAATCACAAAAACACCTCCAATTTGTA
*
34728053 AAATTATCGAAATACCC
1 AAATTACCGAAATACCC
34728070 TTGTAGTGTA
Statistics
Matches: 151, Mismatches: 23, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
160 16 0.11
161 122 0.81
162 13 0.09
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.30
Consensus pattern (161 bp):
AAATTACCGAAATACCCCCGATTTGTGAAATTACCGAAACACCATCAATTTGTAAAATTATCGAA
ACACCCTAAATTTGTAAAATTACCGAAATACCATCAATTTGTAAAATTACTAAAATAACCTCAAT
TATGAAATCACAAAAACACCTCCAATTTGTA
Found at i:34728098 original size:27 final size:27
Alignment explanation
Indices: 34727971--34728137 Score: 115
Period size: 27 Copynumber: 6.2 Consensus size: 27
34727961 CCTAAATTTT
** *
34727971 TAAAATTACCGAAATACCC-TCAATTTG
1 TAAAATTACCGAAATACCCTTGTA-GTG
* * * *
34727998 TAAAATTATCAAAATACCCTCG-ATTTG
1 TAAAATTACCGAAATACCCTTGTA-GTG
* * * * * *
34728025 TAAAATCACCAAAACACCCCTAT-TTG
1 TAAAATTACCGAAATACCCTTGTAGTG
*
34728051 TAAAATTATCGAAATACCCTTGTAGTG
1 TAAAATTACCGAAATACCCTTGTAGTG
*
34728078 TAAAATTACCGAAATACCCTTATAGTG
1 TAAAATTACCGAAATACCCTTGTAGTG
* * * * *
34728105 TAAAATGACCGACATACCTTTGTTGGG
1 TAAAATTACCGAAATACCCTTGTAGTG
34728132 TAAAAT
1 TAAAAT
34728138 GACTATTTTT
Statistics
Matches: 112, Mismatches: 25, Indels: 6
0.78 0.17 0.04
Matches are distributed among these distances:
26 20 0.18
27 92 0.82
ACGTcount: A:0.40, C:0.20, G:0.11, T:0.30
Consensus pattern (27 bp):
TAAAATTACCGAAATACCCTTGTAGTG
Found at i:34728109 original size:134 final size:133
Alignment explanation
Indices: 34727731--34728122 Score: 402
Period size: 134 Copynumber: 2.9 Consensus size: 133
34727721 ATAATAAAGA
** * * * *
34727731 GAAATTACTGAAATACCC-CGATTTGTGAAATTACCGAAACACCATCGATTTTTAGAATTATCGA
1 GAAATTACAAAAATACCCTCGATTTGTAAAATTACCAAAACACC-CCGATTTTTAAAATTATCGA
* * * *
34727795 AACACCCTCGATTTGTAAAATTACCGAAATACCATTGAT-TTGTAAAATTACTGAAATAACCTCA
65 AACACCCTTGATTTGTAAAATTACCGAAATACCCTT-ATATTGTAAAATTACCGAAATACCCTCA
34727859 ATTAT
129 ATTAT
* * * *
34727864 GAAATTACAAAAATACCTTCAATTTGTAAAATTACCGAAATAC-CCCCGATTTTTGAAATTATTG
1 GAAATTACAAAAATACCCTCGATTTGTAAAATTACC-AAA-ACACCCCGATTTTTAAAATTATCG
** * * * *
34727928 AAACACCCTCAATTTGTAAAATTATCGAAACACCC-TAAATTTTTAAAATTACCGAAATACCCTC
64 AAACACCCTTGATTTGTAAAATTACCGAAATACCCTTATA-TTGTAAAATTACCGAAATACCCTC
34727992 AATT-T
128 AATTAT
* * *
34727997 GTAAAATTATC-AAAATACCCTCGATTTGTAAAATCACCAAAACACCCCTATTTGTAAAATTATC
1 G--AAATTA-CAAAAATACCCTCGATTTGTAAAATTACCAAAACACCCCGATTTTTAAAATTATC
* * * * *
34728061 GAAATACCCTTG-TAGTGTAAAATTACCGAAATACCCTTATAGTGTAAAATGACCGACATACC
63 GAAACACCCTTGAT-TTGTAAAATTACCGAAATACCCTTATATTGTAAAATTACCGAAATACC
34728123 TTTGTTGGGT
Statistics
Matches: 212, Mismatches: 36, Indels: 21
0.79 0.13 0.08
Matches are distributed among these distances:
132 1 0.00
133 21 0.10
134 150 0.71
135 37 0.17
136 3 0.01
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.30
Consensus pattern (133 bp):
GAAATTACAAAAATACCCTCGATTTGTAAAATTACCAAAACACCCCGATTTTTAAAATTATCGAA
ACACCCTTGATTTGTAAAATTACCGAAATACCCTTATATTGTAAAATTACCGAAATACCCTCAAT
TAT
Found at i:34728122 original size:107 final size:108
Alignment explanation
Indices: 34727798--34728114 Score: 266
Period size: 107 Copynumber: 3.0 Consensus size: 108
34727788 TTATCGAAAC
* * * * ** * * *
34727798 ACCCTCGATTTGTAAAATTACCGAAATACCATTGATTTGTAAAATTA-CTGAAATAACCTCAAT-
1 ACCCTCGATTTGTAAAATCACCAAAACACCCTCAATTTGTAAAATTATC-GAAACACCCTAAATG
* * ** * * * *
34727861 TATGAAATTACAAAAATACCTTCAATTTGTAAAATTACCGAAAT
65 TGTAAAATTACCGAAATACCCTCAATGTGTAAAATGACCAAAAT
* * * * *** *
34727905 ACCCCCGATTTTTGAAATTATTGAAACACCCTCAATTTGTAAAATTATCGAAACACCCTAAATTT
1 ACCCTCGATTTGTAAAATCACCAAAACACCCTCAATTTGTAAAATTATCGAAACACCCTAAATGT
* * * *
34727970 TTAAAATTACCGAAATACCCTCAATTTGTAAAATTATCAAAAT
66 GTAAAATTACCGAAATACCCTCAATGTGTAAAATGACCAAAAT
* * **
34728013 ACCCTCGATTTGTAAAATCACCAAAACACCC-CTATTTGTAAAATTATCGAAATACCCT-TGTAG
1 ACCCTCGATTTGTAAAATCACCAAAACACCCTCAATTTGTAAAATTATCGAAACACCCTAAAT-G
*
34728076 TGTAAAATTACCGAAATACCCT-TATAGTGTAAAATGACC
65 TGTAAAATTACCGAAATACCCTCAAT-GTGTAAAATGACC
34728115 GACATACCTT
Statistics
Matches: 170, Mismatches: 36, Indels: 8
0.79 0.17 0.04
Matches are distributed among these distances:
106 3 0.02
107 105 0.62
108 62 0.36
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.31
Consensus pattern (108 bp):
ACCCTCGATTTGTAAAATCACCAAAACACCCTCAATTTGTAAAATTATCGAAACACCCTAAATGT
GTAAAATTACCGAAATACCCTCAATGTGTAAAATGACCAAAAT
Found at i:34728593 original size:27 final size:26
Alignment explanation
Indices: 34728555--34728670 Score: 124
Period size: 27 Copynumber: 4.3 Consensus size: 26
34728545 AAGCATGTCT
*
34728555 ACCAGAACAGATATTGTGACAGAGTC
1 ACCAGAACAGATATTGTGACAGAGCC
*
34728581 ACCAGATACAGATATTGTGGCAGAGCC
1 ACCAGA-ACAGATATTGTGACAGAGCC
* * *
34728608 ACCAGAACAGATATTTGTGGCATAGCT
1 ACCAGAACAGATA-TTGTGACAGAGCC
* * *
34728635 ACCAAAAACAGATATTTGTGGCATAGCC
1 ACC-AGAACAGATA-TTGTGACAGAGCC
34728663 ACCAGAAC
1 ACCAGAAC
34728671 GCTTCCTCCA
Statistics
Matches: 80, Mismatches: 7, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
26 13 0.16
27 42 0.52
28 25 0.31
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.20
Consensus pattern (26 bp):
ACCAGAACAGATATTGTGACAGAGCC
Found at i:34728665 original size:55 final size:53
Alignment explanation
Indices: 34728555--34728670 Score: 153
Period size: 54 Copynumber: 2.2 Consensus size: 53
34728545 AAGCATGTCT
* *
34728555 ACCAGAACAGATATTGTGACAGAGTCACCAGATACAGATATTGTGGCAGAGCC
1 ACCAGAACAGATATTGTGACAGAGTCACCAAAAACAGATATTGTGGCAGAGCC
* * *
34728608 ACCAGAACAGATATTTGTGGCATAG-CTACCAAAAACAGATATTTGTGGCATAGCC
1 ACCAGAACAGATA-TTGTGACAGAGTC-ACCAAAAACAGATA-TTGTGGCAGAGCC
34728663 ACCAGAAC
1 ACCAGAAC
34728671 GCTTCCTCCA
Statistics
Matches: 55, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
53 14 0.25
54 21 0.38
55 20 0.36
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.20
Consensus pattern (53 bp):
ACCAGAACAGATATTGTGACAGAGTCACCAAAAACAGATATTGTGGCAGAGCC
Found at i:34728801 original size:26 final size:26
Alignment explanation
Indices: 34728772--34728860 Score: 151
Period size: 26 Copynumber: 3.4 Consensus size: 26
34728762 CAAAATTAAC
34728772 CCTAGGGGTATAATGGTAATTTTACA
1 CCTAGGGGTATAATGGTAATTTTACA
34728798 CCTAGGGGTATAATGGTAATTTTACA
1 CCTAGGGGTATAATGGTAATTTTACA
*
34728824 CCTAGGGGTATAATGGTAATTTTCATA
1 CCTAGGGGTATAATGGTAATTTT-ACA
*
34728851 CTTAGGGGTA
1 CCTAGGGGTA
34728861 GTTTAGTAAA
Statistics
Matches: 60, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
26 49 0.82
27 11 0.18
ACGTcount: A:0.29, C:0.11, G:0.25, T:0.35
Consensus pattern (26 bp):
CCTAGGGGTATAATGGTAATTTTACA
Found at i:34729812 original size:16 final size:16
Alignment explanation
Indices: 34729781--34729812 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
34729771 GGGTTCGGCT
34729781 ATGGAGAAAAGAAAAA
1 ATGGAGAAAAGAAAAA
34729797 ATGGAAGAAAAGAAAA
1 ATGG-AGAAAAGAAAA
34729813 GGTGAGAAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.69, C:0.00, G:0.25, T:0.06
Consensus pattern (16 bp):
ATGGAGAAAAGAAAAA
Found at i:34732271 original size:27 final size:26
Alignment explanation
Indices: 34732235--34732349 Score: 95
Period size: 27 Copynumber: 4.3 Consensus size: 26
34732225 AGCATGGCTG
*
34732235 CCAGAACAGATATTGTGACAGAGTCA
1 CCAGAACAGATATTGTGACAGAGCCA
* *
34732261 CCAGATACAGATATCGTGGCAGAGCCA
1 CCAGA-ACAGATATTGTGACAGAGCCA
* * * *
34732288 CCAGAATAGATATTTGTGGCATAGCTA
1 CCAGAACAGATA-TTGTGACAGAGCCA
* * *
34732315 CCAAAAACAGATATTTGTGGCATAGCCA
1 CC-AGAACAGATA-TTGTGACAGAGCCA
*
34732343 CTAGAAC
1 CCAGAAC
34732350 GCTTCCTCCA
Statistics
Matches: 74, Mismatches: 12, Indels: 5
0.81 0.13 0.05
Matches are distributed among these distances:
26 11 0.15
27 40 0.54
28 23 0.31
ACGTcount: A:0.37, C:0.21, G:0.22, T:0.21
Consensus pattern (26 bp):
CCAGAACAGATATTGTGACAGAGCCA
Found at i:34733777 original size:50 final size:51
Alignment explanation
Indices: 34733702--34733936 Score: 180
Period size: 50 Copynumber: 4.7 Consensus size: 51
34733692 TGAGTACACG
* * *
34733702 TGTGTAGTACTAAGTGCAGACTACTACGTGTAAC-ATACTGTTAAGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAATACTGTTAAGTCACA
* * * ** *
34733752 TGTGTAGCACTAAGTGCAGGCTACTATGCGTACTCAATGACT-TCGA-TCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA-TCAAT-ACTGTTAAGTCACA
* * * *
34733803 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGAT--GGTGAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCA-ATACTGTTAAGTCACA
* * * * *
34733853 TGTGTAGTACTAAGTGCAAGCTACTATGTGTACCGAAT--TGTT-GGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATC-AATACTGTTAAGTCACA
* * * *
34733902 TGTGTAGTACTAAGCGCAAGCTACTATGCGTATCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCA
34733937 GATAGCTTCG
Statistics
Matches: 152, Mismatches: 26, Indels: 16
0.78 0.13 0.08
Matches are distributed among these distances:
48 1 0.01
49 37 0.24
50 71 0.47
51 36 0.24
52 4 0.03
53 3 0.02
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (51 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAATACTGTTAAGTCACA
Found at i:34733876 original size:101 final size:101
Alignment explanation
Indices: 34733698--34733885 Score: 270
Period size: 101 Copynumber: 1.9 Consensus size: 101
34733688 ATTGTGAGTA
* * *
34733698 CACGTGTGTAGTACTAAGTGCAGACTACTACGTGTAACATACTGTTAAGTCGCATGTGTAGCACT
1 CACGTGTGTAGTACTAAGTGCAGACTACTACGTGTAACAGACTGTGAAGTCACATGTGTAGCACT
*
34733763 AAGTGCAGGCTACTATGCGTACTCAATGACTTCGAT
66 AAGTGCAAGCTACTATGCGTACTCAATGACTTCGAT
* * * * *
34733799 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGA-TGGTGAGGTCACGTGTGTAGTAC
1 CACGTGTGTAGTACTAAGTGCAGACTACTACGTGTAACAGACT-GTGAAGTCACATGTGTAGCAC
*
34733863 TAAGTGCAAGCTACTATGTGTAC
65 TAAGTGCAAGCTACTATGCGTAC
34733886 CGAATTGTTG
Statistics
Matches: 76, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
100 1 0.01
101 75 0.99
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.29
Consensus pattern (101 bp):
CACGTGTGTAGTACTAAGTGCAGACTACTACGTGTAACAGACTGTGAAGTCACATGTGTAGCACT
AAGTGCAAGCTACTATGCGTACTCAATGACTTCGAT
Found at i:34735995 original size:16 final size:17
Alignment explanation
Indices: 34735974--34736006 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
34735964 TGGGTTCGGC
34735974 TATGG-AGAAAAGAAAA
1 TATGGAAGAAAAGAAAA
34735990 TATGGAAGAAAAGAAAA
1 TATGGAAGAAAAGAAAA
34736007 GGTGAGAAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.64, C:0.00, G:0.24, T:0.12
Consensus pattern (17 bp):
TATGGAAGAAAAGAAAA
Found at i:34743399 original size:22 final size:22
Alignment explanation
Indices: 34743369--34743416 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
34743359 AAAAAATTTA
34743369 TTTA-ATATAAATATATTGAAG
1 TTTATATATAAATATATTGAAG
*
34743390 TTTATATATAAATATATTGAAT
1 TTTATATATAAATATATTGAAG
34743412 TTTAT
1 TTTAT
34743417 CTTTGGGAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
21 4 0.16
22 21 0.84
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (22 bp):
TTTATATATAAATATATTGAAG
Done.