Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 99 of 318
Found at i:32504463 original size:29 final size:29
Alignment explanation
Indices: 32504430--32504546 Score: 94
Period size: 30 Copynumber: 3.9 Consensus size: 29
32504420 TGTAATTTTT
*
32504430 AGAAAATTTAGGATTAAAATGAAATTTAA
1 AGAAAATTTAGGGTTAAAATGAAATTTAA
* * *
32504459 TGAAAGTTTAGGGGTCT-AAGTGAAATTTAA
1 AGAAAATTTA-GGGT-TAAAATGAAATTTAA
* *
32504489 AGAAAGTTTAAGGGTCAAAATGAAATTT-A
1 AGAAAATTT-AGGGTTAAAATGAAATTTAA
* * *
32504518 GGAAAAGTTTAGGGGTCAAAATGCAATTT
1 AGAAAA-TTTA-GGGTTAAAATGAAATTT
32504547 TTATTTTTAA
Statistics
Matches: 72, Mismatches: 10, Indels: 11
0.77 0.11 0.12
Matches are distributed among these distances:
29 14 0.19
30 56 0.78
31 2 0.03
ACGTcount: A:0.44, C:0.03, G:0.22, T:0.30
Consensus pattern (29 bp):
AGAAAATTTAGGGTTAAAATGAAATTTAA
Found at i:32504485 original size:30 final size:30
Alignment explanation
Indices: 32504445--32504546 Score: 134
Period size: 30 Copynumber: 3.4 Consensus size: 30
32504435 ATTTAGGATT
*
32504445 AAAATGAAATTTAATGAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
* * *
32504475 TAAGTGAAATTTAAAGAAAGTTTAAGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
*
32504505 AAAATGAAATTT-AGGAAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAG-AAAGTTTAGGGGTC
*
32504535 AAAATGCAATTT
1 AAAATGAAATTT
32504547 TTATTTTTAA
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
29 2 0.03
30 60 0.97
ACGTcount: A:0.44, C:0.04, G:0.23, T:0.29
Consensus pattern (30 bp):
AAAATGAAATTTAAAGAAAGTTTAGGGGTC
Found at i:32504758 original size:110 final size:110
Alignment explanation
Indices: 32504622--32504836 Score: 430
Period size: 110 Copynumber: 2.0 Consensus size: 110
32504612 AGTGCTTACA
32504622 GTACCAAAGCAATCTTAGCTAGACACTAGGTAAATTGAACATTTTACGACTAAATTTTAACATTT
1 GTACCAAAGCAATCTTAGCTAGACACTAGGTAAATTGAACATTTTACGACTAAATTTTAACATTT
32504687 AGAACTCATTAATGTCATTACTTATTTTTTGAAACATTACATTTG
66 AGAACTCATTAATGTCATTACTTATTTTTTGAAACATTACATTTG
32504732 GTACCAAAGCAATCTTAGCTAGACACTAGGTAAATTGAACATTTTACGACTAAATTTTAACATTT
1 GTACCAAAGCAATCTTAGCTAGACACTAGGTAAATTGAACATTTTACGACTAAATTTTAACATTT
32504797 AGAACTCATTAATGTCATTACTTATTTTTTGAAACATTAC
66 AGAACTCATTAATGTCATTACTTATTTTTTGAAACATTAC
32504837 CTATTAACAG
Statistics
Matches: 105, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
110 105 1.00
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.37
Consensus pattern (110 bp):
GTACCAAAGCAATCTTAGCTAGACACTAGGTAAATTGAACATTTTACGACTAAATTTTAACATTT
AGAACTCATTAATGTCATTACTTATTTTTTGAAACATTACATTTG
Found at i:32505028 original size:20 final size:20
Alignment explanation
Indices: 32505003--32505055 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
32504993 AACTTTATGT
32505003 AGGTATTGATACCTATGCC-A
1 AGGTATTGATACCT-TGCCTA
*
32505023 AGGTATTGATACCTTGCCTT
1 AGGTATTGATACCTTGCCTA
*
32505043 AGGTACTGATACC
1 AGGTATTGATACC
32505056 AAAGCATGGT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 4 0.13
20 26 0.87
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (20 bp):
AGGTATTGATACCTTGCCTA
Found at i:32507395 original size:3 final size:3
Alignment explanation
Indices: 32507387--32507412 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
32507377 CTGAAAACAT
32507387 ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT
32507413 TTAAGGTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:32507727 original size:15 final size:15
Alignment explanation
Indices: 32507704--32507752 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
32507694 GTATTTGGAA
*
32507704 TTTAATTTTTATATT
1 TTTATTTTTTATATT
* * *
32507719 TTTATTTTTAAGAAT
1 TTTATTTTTTATATT
*
32507734 TTTATTTTTTATTTT
1 TTTATTTTTTATATT
32507749 TTTA
1 TTTA
32507753 ATTTAAAATT
Statistics
Matches: 26, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.73
Consensus pattern (15 bp):
TTTATTTTTTATATT
Found at i:32507755 original size:21 final size:22
Alignment explanation
Indices: 32507704--32507756 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
32507694 GTATTTGGAA
32507704 TTTAATTTTTATATTTTTATTTT
1 TTTAA-TTTTATATTTTTATTTT
**
32507727 TAAGAATTTTAT-TTTTTATTTT
1 T-TTAATTTTATATTTTTATTTT
32507749 TTTAATTT
1 TTTAATTT
32507757 AAAATTTTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
21 5 0.20
22 11 0.44
23 7 0.28
24 2 0.08
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.74
Consensus pattern (22 bp):
TTTAATTTTATATTTTTATTTT
Found at i:32507757 original size:29 final size:29
Alignment explanation
Indices: 32507701--32507765 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
32507691 TTTGTATTTG
*
32507701 GAATTTAATTTTTATATTTTTATTTTTAA
1 GAATTTTATTTTTATATTTTTATTTTTAA
32507730 GAATTTTATTTTT-TATTTTT-TTAATTTAA
1 GAATTTTATTTTTATATTTTTATT--TTTAA
32507759 -AATTTTA
1 GAATTTTA
32507766 AGTTGTTGTA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
27 2 0.06
28 14 0.42
29 17 0.52
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (29 bp):
GAATTTTATTTTTATATTTTTATTTTTAA
Found at i:32515487 original size:25 final size:24
Alignment explanation
Indices: 32515458--32515506 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 24
32515448 AAATAAAAAA
*
32515458 ATTT-AAAATATAATAAATCAAATAT
1 ATTTAAAAACATAA-AAA-CAAATAT
32515483 ATTTAAAAACATAAAAACAAATAT
1 ATTTAAAAACATAAAAACAAATAT
32515507 TAAAACAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 7 0.32
25 7 0.32
26 8 0.36
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (24 bp):
ATTTAAAAACATAAAAACAAATAT
Found at i:32515518 original size:22 final size:21
Alignment explanation
Indices: 32515485--32515535 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
32515475 TCAAATATAT
*
32515485 TTAAAA-ACATAAAAACAAATA
1 TTAAAACAAATAAAAACAAA-A
**
32515506 TTAAAACAAATAAAAATGAAA
1 TTAAAACAAATAAAAACAAAA
32515527 TTAAAACAA
1 TTAAAACAA
32515536 TTCTTAAAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 16 0.62
22 10 0.38
ACGTcount: A:0.71, C:0.08, G:0.02, T:0.20
Consensus pattern (21 bp):
TTAAAACAAATAAAAACAAAA
Found at i:32521925 original size:39 final size:39
Alignment explanation
Indices: 32521896--32522081 Score: 264
Period size: 39 Copynumber: 4.7 Consensus size: 39
32521886 TAGTACCAAT
* * *
32521896 ACGAAGCCTACGGACCTTAAGTCCGGATATAGTACCAGC
1 ACGAAGCCTGCGGACCTTAAGTCCGGATACAGTTCCAGC
*
32521935 ACGAAGCCTGCGGATCTTAAGTCCGGATACAGTTCCAGC
1 ACGAAGCCTGCGGACCTTAAGTCCGGATACAGTTCCAGC
* * * *
32521974 ACGAAGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGC
1 ACGAAGCCTGC-GGACCTTAAGTCCGGATACAGTTCCAGC
* * *
32522014 ATGAAGCTTGCGGACCTTAAGTCCGGATACAATTCCAGC
1 ACGAAGCCTGCGGACCTTAAGTCCGGATACAGTTCCAGC
32522053 ACGAAGCCTGCGGACCTTAAGTCCGGATA
1 ACGAAGCCTGCGGACCTTAAGTCCGGATA
32522082 TACATCAAAT
Statistics
Matches: 130, Mismatches: 16, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
39 98 0.75
40 32 0.25
ACGTcount: A:0.27, C:0.28, G:0.25, T:0.20
Consensus pattern (39 bp):
ACGAAGCCTGCGGACCTTAAGTCCGGATACAGTTCCAGC
Found at i:32522001 original size:79 final size:78
Alignment explanation
Indices: 32521896--32522083 Score: 268
Period size: 79 Copynumber: 2.4 Consensus size: 78
32521886 TAGTACCAAT
* * *
32521896 ACGAAGCCTACGGACCTTAAGTCCGGATATAGTACCAGCACGAAGCCTGCGGATCTTAAGTCCGG
1 ACGAAGCCTGCGGACCTTAAGTCCGGATATAATACCAGCACGAAGCCTGCGGACCTTAAGTCCGG
*
32521961 ATACAGTTCCAGC
66 ATACAATTCCAGC
* * * * * * *
32521974 ACGAAGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCATGAAGCTTGCGGACCTTAAGTCCG
1 ACGAAGCCTGC-GGACCTTAAGTCCGGATATAATACCAGCACGAAGCCTGCGGACCTTAAGTCCG
32522039 GATACAATTCCAGC
65 GATACAATTCCAGC
32522053 ACGAAGCCTGCGGACCTTAAGTCCGGATATA
1 ACGAAGCCTGCGGACCTTAAGTCCGGATATA
32522084 CATCAAATAT
Statistics
Matches: 94, Mismatches: 15, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
78 26 0.28
79 68 0.72
ACGTcount: A:0.28, C:0.28, G:0.24, T:0.20
Consensus pattern (78 bp):
ACGAAGCCTGCGGACCTTAAGTCCGGATATAATACCAGCACGAAGCCTGCGGACCTTAAGTCCGG
ATACAATTCCAGC
Found at i:32522136 original size:24 final size:24
Alignment explanation
Indices: 32522119--32522164 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
32522109 ATATATTAAT
32522119 ACATCTCATTTAACATATCACAAC
1 ACATCTCATTTAACATATCACAAC
32522143 ACATCTCATTTAACATATCACA
1 ACATCTCATTTAACATATCACA
32522165 TTAGTAGTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.41, C:0.28, G:0.00, T:0.30
Consensus pattern (24 bp):
ACATCTCATTTAACATATCACAAC
Found at i:32522846 original size:24 final size:24
Alignment explanation
Indices: 32522834--32522925 Score: 148
Period size: 24 Copynumber: 3.8 Consensus size: 24
32522824 TTGACATTCC
32522834 AATCCGCACACATAGTGCCATACA
1 AATCCGCACACATAGTGCCATACA
32522858 AATCCGCACACATAGTGCCATACA
1 AATCCGCACACATAGTGCCATACA
** *
32522882 AATTTGCACACATAGTGCCATTCA
1 AATCCGCACACATAGTGCCATACA
*
32522906 AATTCGCACACATAGTGCCA
1 AATCCGCACACATAGTGCCA
32522926 AAATCATTTC
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 64 1.00
ACGTcount: A:0.36, C:0.30, G:0.13, T:0.21
Consensus pattern (24 bp):
AATCCGCACACATAGTGCCATACA
Found at i:32522871 original size:48 final size:48
Alignment explanation
Indices: 32522789--32522922 Score: 151
Period size: 48 Copynumber: 2.8 Consensus size: 48
32522779 CCATGTTAAC
* ** * * * * *
32522789 CCGCACACATAGTGCCTTAGTAATTCACATACATATTGACATTCCAAT
1 CCGCACACATAGTGCCATACAAATTCGCACACATAGTGACATACAAAT
* *
32522837 CCGCACACATAGTGCCATACAAATCCGCACACATAGTGCCATACAAAT
1 CCGCACACATAGTGCCATACAAATTCGCACACATAGTGACATACAAAT
** *
32522885 TTGCACACATAGTGCCATTCAAATTCGCACACATAGTG
1 CCGCACACATAGTGCCATACAAATTCGCACACATAGTG
32522923 CCAAAATCAT
Statistics
Matches: 72, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
48 72 1.00
ACGTcount: A:0.34, C:0.29, G:0.13, T:0.24
Consensus pattern (48 bp):
CCGCACACATAGTGCCATACAAATTCGCACACATAGTGACATACAAAT
Found at i:32522895 original size:72 final size:72
Alignment explanation
Indices: 32522789--32522925 Score: 184
Period size: 72 Copynumber: 1.9 Consensus size: 72
32522779 CCATGTTAAC
* ** * * *
32522789 CCGCACACATAGTGCCTTAGTAATTCACATACATATTGACATTCCAATCCGCACACATAGTGCCA
1 CCGCACACATAGTGCCATACAAATTCACACACATAGTGACATTCAAATCCGCACACATAGTGCCA
32522854 TACAAAT
66 TACAAAT
** * *
32522861 CCGCACACATAGTGCCATACAAATTTGCACACATAGTGCCATTCAAATTCGCACACATAGTGCCA
1 CCGCACACATAGTGCCATACAAATTCACACACATAGTGACATTCAAATCCGCACACATAGTGCCA
32522926 AAATCATTTC
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
72 55 1.00
ACGTcount: A:0.34, C:0.30, G:0.12, T:0.23
Consensus pattern (72 bp):
CCGCACACATAGTGCCATACAAATTCACACACATAGTGACATTCAAATCCGCACACATAGTGCCA
TACAAAT
Found at i:32524124 original size:17 final size:17
Alignment explanation
Indices: 32524102--32524135 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
32524092 CCCCACTTAA
*
32524102 TATATTATAACTTATTT
1 TATATTATAACATATTT
32524119 TATATTATAACATATTT
1 TATATTATAACATATTT
32524136 CAATTATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (17 bp):
TATATTATAACATATTT
Found at i:32527338 original size:19 final size:19
Alignment explanation
Indices: 32527314--32527360 Score: 76
Period size: 19 Copynumber: 2.5 Consensus size: 19
32527304 TGTTGTTTTC
32527314 CCTTTTGATTCATAGCCTT
1 CCTTTTGATTCATAGCCTT
*
32527333 CCTTTTGATTCGTAGCCTT
1 CCTTTTGATTCATAGCCTT
*
32527352 CTTTTTGAT
1 CCTTTTGAT
32527361 CTTGTTCTGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.13, C:0.23, G:0.13, T:0.51
Consensus pattern (19 bp):
CCTTTTGATTCATAGCCTT
Found at i:32535603 original size:17 final size:17
Alignment explanation
Indices: 32535581--32535617 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
32535571 TACCCTTTTC
32535581 TTTGAGATTTTTATGTT
1 TTTGAGATTTTTATGTT
32535598 TTTGAGATTTTTATGTT
1 TTTGAGATTTTTATGTT
32535615 TTT
1 TTT
32535618 CTGACTTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.16, C:0.00, G:0.16, T:0.68
Consensus pattern (17 bp):
TTTGAGATTTTTATGTT
Found at i:32535626 original size:17 final size:17
Alignment explanation
Indices: 32535589--32535627 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
32535579 TCTTTGAGAT
* *
32535589 TTTTATGTTTTTGAGAT
1 TTTTATGTTTTTCAGAC
*
32535606 TTTTATGTTTTTCTGAC
1 TTTTATGTTTTTCAGAC
32535623 TTTTA
1 TTTTA
32535628 CAATTAGGTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.15, C:0.05, G:0.13, T:0.67
Consensus pattern (17 bp):
TTTTATGTTTTTCAGAC
Found at i:32540599 original size:50 final size:50
Alignment explanation
Indices: 32540530--32540664 Score: 180
Period size: 50 Copynumber: 2.7 Consensus size: 50
32540520 GCAGATGTAA
* * *
32540530 AGCCTACGAGCTTAGCACTTGGTGCCTAGGTATGTTTTTAGAGGGATGTT
1 AGCCTACGGGCTTAGCACTTGGTGCCTAGGCATGTCTTTAGAGGGATGTT
* * *
32540580 AGCCTACGGGCTTGGCACTTGGTGCTTAGGCGTGTCTTTAGAGGGATGTT
1 AGCCTACGGGCTTAGCACTTGGTGCCTAGGCATGTCTTTAGAGGGATGTT
* * * *
32540630 AGTCTACGGGCTAAGCACTTGGTGCCCAAGCATGT
1 AGCCTACGGGCTTAGCACTTGGTGCCTAGGCATGT
32540665 TCTTGGTTAG
Statistics
Matches: 72, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
50 72 1.00
ACGTcount: A:0.19, C:0.19, G:0.32, T:0.30
Consensus pattern (50 bp):
AGCCTACGGGCTTAGCACTTGGTGCCTAGGCATGTCTTTAGAGGGATGTT
Found at i:32545992 original size:23 final size:23
Alignment explanation
Indices: 32545949--32546015 Score: 57
Period size: 23 Copynumber: 2.9 Consensus size: 23
32545939 ATCCCAATAT
* *
32545949 TTTTTTCGTTTTGA-GTAATTTAA
1 TTTTTTC-TTTTCATGTTATTTAA
*
32545972 TTTTTTCTTTTTATGTTATTTTAA
1 TTTTTTCTTTTCATGTTA-TTTAA
* *
32545996 CTTTTT-TTTTCATTTTATTT
1 TTTTTTCTTTTCATGTTATTT
32546016 TGCTTCTCCT
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
22 8 0.22
23 19 0.51
24 10 0.27
ACGTcount: A:0.16, C:0.06, G:0.06, T:0.72
Consensus pattern (23 bp):
TTTTTTCTTTTCATGTTATTTAA
Found at i:32546016 original size:23 final size:24
Alignment explanation
Indices: 32545967--32546016 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
32545957 TTTTGAGTAA
* *
32545967 TTTAATTTTTTCTTTTTATGTTAT
1 TTTAACTTTTTCTTTTCATGTTAT
*
32545991 TTTAACTTTTT-TTTTCATTTTAT
1 TTTAACTTTTTCTTTTCATGTTAT
32546014 TTT
1 TTT
32546017 GCTTCTCCTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 13 0.57
24 10 0.43
ACGTcount: A:0.16, C:0.06, G:0.02, T:0.76
Consensus pattern (24 bp):
TTTAACTTTTTCTTTTCATGTTAT
Found at i:32547380 original size:20 final size:20
Alignment explanation
Indices: 32547352--32547457 Score: 78
Period size: 18 Copynumber: 5.4 Consensus size: 20
32547342 AAAATAAAAA
*
32547352 TATAGAAAAATTATTAAATTT
1 TATA-AAAAATTATAAAATTT
32547373 TAATAAAAAATTA-AAAATTT
1 T-ATAAAAAATTATAAAATTT
* *
32547393 TAT-TAAAATTAT-AATTTT
1 TATAAAAAATTATAAAATTT
* * *
32547411 TTTATAAAAATCATAAAA--A
1 TATA-AAAAATTATAAAATTT
* *
32547430 AATAAAAAATTACAAAATTT
1 TATAAAAAATTATAAAATTT
32547450 TATAAAAA
1 TATAAAAA
32547458 TCATAAAAAA
Statistics
Matches: 64, Mismatches: 14, Indels: 15
0.69 0.15 0.16
Matches are distributed among these distances:
18 25 0.39
19 4 0.06
20 21 0.33
21 11 0.17
22 3 0.05
ACGTcount: A:0.59, C:0.02, G:0.01, T:0.38
Consensus pattern (20 bp):
TATAAAAAATTATAAAATTT
Found at i:32547381 original size:37 final size:35
Alignment explanation
Indices: 32547339--32547466 Score: 96
Period size: 37 Copynumber: 3.4 Consensus size: 35
32547329 TAAAAATTAG
*
32547339 AAAAAAATAAAAATATAGAAAAATTATTAAATTTTAAT
1 AAAAACATAAAAATATA-AAAAATTA-TAAATTTT-AT
* * *
32547377 AAAAA-ATTAAAAATTTTATTAAAATTATAATTTTTTTAT
1 AAAAACA-TAAAAA-TATA-AAAAATTATAA--ATTTTAT
* *
32547416 AAAAATCATAAAAAAATAAAAAATTACAAAATTTTAT
1 AAAAA-CATAAAAATATAAAAAATTA-TAAATTTTAT
32547453 AAAAATCATAAAAA
1 AAAAA-CATAAAAA
32547467 ATTAACGACT
Statistics
Matches: 74, Mismatches: 9, Indels: 15
0.76 0.09 0.15
Matches are distributed among these distances:
37 21 0.28
38 21 0.28
39 21 0.28
40 10 0.14
41 1 0.01
ACGTcount: A:0.63, C:0.02, G:0.01, T:0.34
Consensus pattern (35 bp):
AAAAACATAAAAATATAAAAAATTATAAATTTTAT
Found at i:32547383 original size:21 final size:20
Alignment explanation
Indices: 32547357--32547400 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
32547347 AAAAATATAG
*
32547357 AAAAATTATTAAATTTTAATA
1 AAAAATTA-AAAATTTTAATA
*
32547378 AAAAATTAAAAATTTTATTA
1 AAAAATTAAAAATTTTAATA
32547398 AAA
1 AAA
32547401 TTATAATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (20 bp):
AAAAATTAAAAATTTTAATA
Found at i:32547466 original size:20 final size:19
Alignment explanation
Indices: 32547367--32547466 Score: 64
Period size: 20 Copynumber: 5.2 Consensus size: 19
32547357 AAAAATTATT
32547367 AAATTTTAATAAAAA-ATTAA
1 AAATTTT-ATAAAAATA-TAA
*
32547387 AAATTTTATTAAAATTATAA
1 AAATTTTA-TAAAAATATAA
***
32547407 TTTTTTTATAAAAATCATAA
1 AAATTTTATAAAAAT-ATAA
**
32547427 AAA-AATA-AAAAAT-TACA
1 AAATTTTATAAAAATATA-A
32547444 AAATTTTATAAAAATCATAA
1 AAATTTTATAAAAAT-ATAA
32547464 AAA
1 AAA
32547467 ATTAACGACT
Statistics
Matches: 60, Mismatches: 12, Indels: 16
0.68 0.14 0.18
Matches are distributed among these distances:
16 2 0.03
17 4 0.07
18 8 0.13
19 15 0.25
20 28 0.47
21 3 0.05
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (19 bp):
AAATTTTATAAAAATATAA
Found at i:32548253 original size:49 final size:48
Alignment explanation
Indices: 32548194--32548297 Score: 129
Period size: 49 Copynumber: 2.1 Consensus size: 48
32548184 TTTTTTTATG
*
32548194 AAATTTATATTTCTTTACATTTTGTATAATTTTCTTACGA-CTTTATAA
1 AAATTTATATTTCTATACATTTTGTAT-ATTTTCTTACGATCTTTATAA
* * * *
32548242 AAATTCTATATTTCTATATATTTTTTATATTTTTTTACGATTTTTATAA
1 AAATT-TATATTTCTATACATTTTGTATATTTTCTTACGATCTTTATAA
*
32548291 AATTTTA
1 AAATTTA
32548298 CAATTTTTTT
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
48 18 0.38
49 30 0.62
ACGTcount: A:0.32, C:0.08, G:0.03, T:0.58
Consensus pattern (48 bp):
AAATTTATATTTCTATACATTTTGTATATTTTCTTACGATCTTTATAA
Found at i:32548285 original size:19 final size:19
Alignment explanation
Indices: 32548263--32548330 Score: 55
Period size: 19 Copynumber: 3.5 Consensus size: 19
32548253 TTCTATATAT
*
32548263 TTTTTATATTTTTTTACGA
1 TTTTTATATTTTTTTACAA
***
32548282 TTTTTATAAAATTTTACAA
1 TTTTTATATTTTTTTACAA
* *
32548301 TTTTTTTATATTTTCTTACTA
1 --TTTTTATATTTTTTTACAA
*
32548322 TTTATATAT
1 TTTTTATAT
32548331 ATATTTAATT
Statistics
Matches: 37, Mismatches: 10, Indels: 4
0.73 0.20 0.08
Matches are distributed among these distances:
19 23 0.62
21 14 0.38
ACGTcount: A:0.28, C:0.06, G:0.01, T:0.65
Consensus pattern (19 bp):
TTTTTATATTTTTTTACAA
Found at i:32556115 original size:86 final size:86
Alignment explanation
Indices: 32555968--32556125 Score: 244
Period size: 86 Copynumber: 1.8 Consensus size: 86
32555958 ATAAGCCCAA
* * * *
32555968 CTAGTTAGAAGTAGATCCTTTAAGTTTATTTTAGCTTCCTACTATTCACAAGAACAGTCCTTTGT
1 CTAGTTAGAAGCAGATCCTCTAAGTTCATTTTAGCTTCCTACTATTCACAAGAACAATCCTTTGT
32556033 AACATGAGATGATCAAAAAAG
66 AACATGAGATGATCAAAAAAG
* * *
32556054 CTAGTTAGAAGCAGATCCTCTAAGTTCGTTTTAGTTTCTTACTATTCACAAGAACAATCCTTTGT
1 CTAGTTAGAAGCAGATCCTCTAAGTTCATTTTAGCTTCCTACTATTCACAAGAACAATCCTTTGT
*
32556119 AATATGA
66 AACATGA
32556126 TATATCCATC
Statistics
Matches: 64, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
86 64 1.00
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (86 bp):
CTAGTTAGAAGCAGATCCTCTAAGTTCATTTTAGCTTCCTACTATTCACAAGAACAATCCTTTGT
AACATGAGATGATCAAAAAAG
Found at i:32558833 original size:37 final size:37
Alignment explanation
Indices: 32558783--32558857 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
32558773 CACATTAGTC
32558783 ATCATACATAATTCATGTATTTATGCAAATATAATTA
1 ATCATACATAATTCATGTATTTATGCAAATATAATTA
*
32558820 ATCATACATAATTCATGTTTTTATGCAAATATAATTA
1 ATCATACATAATTCATGTATTTATGCAAATATAATTA
32558857 A
1 A
32558858 ATACCACTCA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.43, C:0.11, G:0.05, T:0.41
Consensus pattern (37 bp):
ATCATACATAATTCATGTATTTATGCAAATATAATTA
Found at i:32562634 original size:27 final size:26
Alignment explanation
Indices: 32562574--32562642 Score: 95
Period size: 27 Copynumber: 2.7 Consensus size: 26
32562564 TAAAGGAAAC
*
32562574 AAATTATAAATAAATAAATTTAAAAG
1 AAATTATATATAAATAAATTTAAAAG
*
32562600 AAAATATATATATAATAAATTTAAAAG
1 AAATTATATATA-AATAAATTTAAAAG
*
32562627 AATTTATATA-AAATAA
1 AAATTATATATAAATAA
32562643 CACGAAATCA
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
25 5 0.13
26 11 0.29
27 22 0.58
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (26 bp):
AAATTATATATAAATAAATTTAAAAG
Found at i:32562640 original size:21 final size:26
Alignment explanation
Indices: 32562578--32562642 Score: 80
Period size: 25 Copynumber: 2.5 Consensus size: 26
32562568 GGAAACAAAT
*
32562578 TATAAATA-AATAAATTTAAAAGAAAA
1 TATATATATAATAAATTTAAAAG-AAA
32562604 TATATATATAATAAATTTAAAAG-AA
1 TATATATATAATAAATTTAAAAGAAA
* *
32562629 TTTATATAAAATAA
1 TATATATATAATAA
32562643 CACGAAATCA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
25 14 0.40
26 7 0.20
27 14 0.40
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (26 bp):
TATATATATAATAAATTTAAAAGAAA
Found at i:32562641 original size:25 final size:26
Alignment explanation
Indices: 32562585--32562642 Score: 82
Period size: 25 Copynumber: 2.2 Consensus size: 26
32562575 AATTATAAAT
32562585 AAATAAATTTAAAAGAAAATATATATA
1 AAATAAATTTAAAAG-AAATATATATA
* *
32562612 TAATAAATTTAAAAG-AATTTATATA
1 AAATAAATTTAAAAGAAATATATATA
32562637 AAATAA
1 AAATAA
32562643 CACGAAATCA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 14 0.50
27 14 0.50
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (26 bp):
AAATAAATTTAAAAGAAATATATATA
Found at i:32564543 original size:27 final size:27
Alignment explanation
Indices: 32564501--32564558 Score: 107
Period size: 27 Copynumber: 2.1 Consensus size: 27
32564491 ATTTTTACAG
*
32564501 TAAGATATTATTCTTGATATAGTAAAA
1 TAAGATATTATCCTTGATATAGTAAAA
32564528 TAAGATATTATCCTTGATATAGTAAAA
1 TAAGATATTATCCTTGATATAGTAAAA
32564555 TAAG
1 TAAG
32564559 GAAATAAAGT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.45, C:0.05, G:0.12, T:0.38
Consensus pattern (27 bp):
TAAGATATTATCCTTGATATAGTAAAA
Found at i:32564983 original size:20 final size:21
Alignment explanation
Indices: 32564949--32565002 Score: 67
Period size: 20 Copynumber: 2.6 Consensus size: 21
32564939 TGATGATATT
*
32564949 TTATGATTA-TTTAATTAGATA
1 TTAT-ATTATTTTAATGAGATA
32564970 -TATATTATTTTAATGAGATA
1 TTATATTATTTTAATGAGATA
*
32564990 TTTTATTATTTTA
1 TTATATTATTTTA
32565003 TTATTATTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 4 0.14
20 14 0.48
21 11 0.38
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.57
Consensus pattern (21 bp):
TTATATTATTTTAATGAGATA
Found at i:32565006 original size:3 final size:3
Alignment explanation
Indices: 32564988--32565036 Score: 52
Period size: 3 Copynumber: 17.3 Consensus size: 3
32564978 TTTAATGAGA
*
32564988 TAT T-T TAT TAT T-T TAT TAT TAT T-T CAT TAT TAT T-T TAT TAT TAAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT
32565033 TAT T
1 TAT T
32565037 TAGTATAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
2 7 0.18
3 29 0.74
4 3 0.08
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:32565008 original size:11 final size:11
Alignment explanation
Indices: 32564992--32565030 Score: 69
Period size: 11 Copynumber: 3.5 Consensus size: 11
32564982 ATGAGATATT
32564992 TTATTATTTTA
1 TTATTATTTTA
*
32565003 TTATTATTTCA
1 TTATTATTTTA
32565014 TTATTATTTTA
1 TTATTATTTTA
32565025 TTATTA
1 TTATTA
32565031 ATTATTTAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (11 bp):
TTATTATTTTA
Found at i:32565016 original size:19 final size:19
Alignment explanation
Indices: 32564988--32565029 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
32564978 TTTAATGAGA
*
32564988 TATTTTATTATT-TTATTAT
1 TATTTCATTATTATT-TTAT
32565007 TATTTCATTATTATTTTAT
1 TATTTCATTATTATTTTAT
32565026 TATT
1 TATT
32565030 AATTATTTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 19 0.90
20 2 0.10
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.71
Consensus pattern (19 bp):
TATTTCATTATTATTTTAT
Found at i:32573311 original size:18 final size:18
Alignment explanation
Indices: 32573285--32573319 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
32573275 ACTCAGAATA
*
32573285 GTTATTTATTCAGTAACG
1 GTTAGTTATTCAGTAACG
*
32573303 GTTAGTTATTCGGTAAC
1 GTTAGTTATTCAGTAAC
32573320 AATCAATTAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.11, G:0.20, T:0.43
Consensus pattern (18 bp):
GTTAGTTATTCAGTAACG
Found at i:32573396 original size:18 final size:18
Alignment explanation
Indices: 32573370--32573560 Score: 160
Period size: 18 Copynumber: 10.6 Consensus size: 18
32573360 AATTGATCGG
*
32573370 TTATCCAGTAACAGTCAA
1 TTATTCAGTAACAGTCAA
*
32573388 TTATTCAGTAA-AATCAGA
1 TTATTCAGTAACAGTCA-A
*
32573406 -TATTCAGTAACTA-TTAA
1 TTATTCAGTAAC-AGTCAA
*
32573423 GTTATTCAGTAGCAGTC-A
1 -TTATTCAGTAACAGTCAA
* * *
32573441 TTCATTCAGTGACAATCAG
1 TT-ATTCAGTAACAGTCAA
*
32573460 TTATTCAGTAA-TGATCAA
1 TTATTCAGTAACAG-TCAA
* * *
32573478 TTATTCAGTAATATTCAG
1 TTATTCAGTAACAGTCAA
32573496 TTATTCAGTAACAGTCTAA
1 TTATTCAGTAACAGTC-AA
*
32573515 -TATCCAGTAACAGTCAA
1 TTATTCAGTAACAGTCAA
* *
32573532 TTATCCGGTAACAGTCAA
1 TTATTCAGTAACAGTCAA
32573550 TTATTCAGTAA
1 TTATTCAGTAA
32573561 TAATCAGTTA
Statistics
Matches: 138, Mismatches: 23, Indels: 24
0.75 0.12 0.13
Matches are distributed among these distances:
17 19 0.14
18 104 0.75
19 15 0.11
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (18 bp):
TTATTCAGTAACAGTCAA
Found at i:32573505 original size:72 final size:71
Alignment explanation
Indices: 32573371--32573572 Score: 228
Period size: 72 Copynumber: 2.8 Consensus size: 71
32573361 ATTGATCGGT
* * *
32573371 TATCCAGTAACAGTCAATTATTCAGTAAAATCAGA-TATTCAGTAACTATTAAGTTATTCAGTAG
1 TATCCAGTAACAATCAATTATTCAGTAAAATCA-ATTATTCAGTAA-TATTCAGTTATTCAGTAA
*
32573435 CAGTC-AT
64 CAGTCTAA
* * * *
32573442 TCATTCAGTGACAATCAGTTATTCAGTAATGATCAATTATTCAGTAATATTCAGTTATTCAGTAA
1 T-ATCCAGTAACAATCAATTATTCAGTAA-AATCAATTATTCAGTAATATTCAGTTATTCAGTAA
32573507 CAGTCTAA
64 CAGTCTAA
* * * * *
32573515 TATCCAGTAACAGTCAATTATCCGGTAACAGTCAATTATTCAGTAATAATCAGTTATT
1 TATCCAGTAACAATCAATTATTCAGTAA-AATCAATTATTCAGTAATATTCAGTTATT
32573573 TTATACCTTT
Statistics
Matches: 109, Mismatches: 18, Indels: 7
0.81 0.13 0.05
Matches are distributed among these distances:
71 1 0.01
72 92 0.84
73 16 0.15
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.35
Consensus pattern (71 bp):
TATCCAGTAACAATCAATTATTCAGTAAAATCAATTATTCAGTAATATTCAGTTATTCAGTAACA
GTCTAA
Found at i:32573775 original size:45 final size:45
Alignment explanation
Indices: 32573734--32573883 Score: 183
Period size: 45 Copynumber: 3.3 Consensus size: 45
32573724 ATCTGAAATA
* * *
32573734 GTAACAGTAACAGTAATAGTATTCAACACACAAAGTGCTGAATCG
1 GTAACGGTAACAGTAACAATATTCAACACACAAAGTGCTGAATCG
* * *
32573779 GTAACGGTAACAGTAACAATATTCGACACACACAGTGCCGAATCG
1 GTAACGGTAACAGTAACAATATTCAACACACAAAGTGCTGAATCG
* * * * *
32573824 GTAACGGTAACAGTAACAATATTCGATACATACAGTGCCGAATCG
1 GTAACGGTAACAGTAACAATATTCAACACACAAAGTGCTGAATCG
* *
32573869 GTAACAGTAGCAGTA
1 GTAACGGTAACAGTA
32573884 GCGTTAATAG
Statistics
Matches: 95, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 95 1.00
ACGTcount: A:0.39, C:0.20, G:0.20, T:0.21
Consensus pattern (45 bp):
GTAACGGTAACAGTAACAATATTCAACACACAAAGTGCTGAATCG
Found at i:32574303 original size:5 final size:5
Alignment explanation
Indices: 32574292--32574338 Score: 58
Period size: 5 Copynumber: 9.2 Consensus size: 5
32574282 AATTAATCAT
* * *
32574292 AATTC CATTC CATTC CATTC AATTC AATTC AATTC AATTC AAATTC A
1 AATTC AATTC AATTC AATTC AATTC AATTC AATTC AATTC -AATTC A
32574339 CTTTTCCACT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
5 34 0.87
6 5 0.13
ACGTcount: A:0.36, C:0.26, G:0.00, T:0.38
Consensus pattern (5 bp):
AATTC
Found at i:32575736 original size:13 final size:13
Alignment explanation
Indices: 32575718--32575742 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
32575708 CATTTCTTTT
32575718 ATTTCTTTATTTC
1 ATTTCTTTATTTC
32575731 ATTTCTTTATTT
1 ATTTCTTTATTT
32575743 TATTATTAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.12, G:0.00, T:0.72
Consensus pattern (13 bp):
ATTTCTTTATTTC
Found at i:32575770 original size:23 final size:23
Alignment explanation
Indices: 32575741--32575793 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
32575731 ATTTCTTTAT
32575741 TTTATTA-TTAAACTAT-TATAATA
1 TTTATTATTTAAAC-ATGTAT-ATA
*
32575764 TTTATTATTTATACATGTATATA
1 TTTATTATTTAAACATGTATATA
32575787 TTTATTA
1 TTTATTA
32575794 ATACACATGT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
23 19 0.70
24 8 0.30
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.57
Consensus pattern (23 bp):
TTTATTATTTAAACATGTATATA
Found at i:32575804 original size:22 final size:23
Alignment explanation
Indices: 32575761--32575813 Score: 65
Period size: 22 Copynumber: 2.3 Consensus size: 23
32575751 AACTATTATA
* *
32575761 ATATTTATTATTTATACATGTAT
1 ATATTTATTATATACACATGTAT
32575784 ATATTTATTA-ATACACATGTAT
1 ATATTTATTATATACACATGTAT
32575806 -TAATTTAT
1 AT-ATTTAT
32575814 CACCTTACAC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
21 1 0.04
22 16 0.59
23 10 0.37
ACGTcount: A:0.38, C:0.06, G:0.04, T:0.53
Consensus pattern (23 bp):
ATATTTATTATATACACATGTAT
Found at i:32579561 original size:25 final size:25
Alignment explanation
Indices: 32579496--32579555 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 25
32579486 ACTATCGGGA
* *
32579496 AAGCTCACAAAGAGTCAATTTAATGGG
1 AAGCTCACCAAGAG-C-CTTTAATGGG
32579523 AAGCTCACCAAGAGCCTTTAATTGGG
1 AAGCTCACCAAGAGCCTTTAA-TGGG
*
32579549 ATGCTCA
1 AAGCTCA
32579556 TAAGAGTTGA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
25 5 0.17
26 11 0.38
27 13 0.45
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.23
Consensus pattern (25 bp):
AAGCTCACCAAGAGCCTTTAATGGG
Found at i:32581218 original size:21 final size:20
Alignment explanation
Indices: 32581181--32581219 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
32581171 GATAAAATAA
* *
32581181 TAAATAAATAATTTAAAACT
1 TAAAAAAATAATCTAAAACT
32581201 TAAAAAAATAAATCTAAAA
1 TAAAAAAAT-AATCTAAAA
32581220 TAAAACTACT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.28
Consensus pattern (20 bp):
TAAAAAAATAATCTAAAACT
Found at i:32590066 original size:38 final size:38
Alignment explanation
Indices: 32589977--32590065 Score: 115
Period size: 38 Copynumber: 2.3 Consensus size: 38
32589967 AAAAATTATA
* * **
32589977 TTTAATACAATAAAATATTTATTATATTTTTTTTGTTT
1 TTTAATATAATAAAATATTTATTATATTTGTAGTGTTT
32590015 TTTAATATAATAAAATATTTATTATATTTAAGGTAGTGTTT
1 TTTAATATAATAAAATATTTATTATATTT---GTAGTGTTT
32590056 TTTAATATAA
1 TTTAATATAA
32590066 ATATTTTTAA
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
38 28 0.64
41 16 0.36
ACGTcount: A:0.38, C:0.01, G:0.06, T:0.55
Consensus pattern (38 bp):
TTTAATATAATAAAATATTTATTATATTTGTAGTGTTT
Found at i:32593295 original size:42 final size:43
Alignment explanation
Indices: 32593236--32593318 Score: 114
Period size: 42 Copynumber: 2.0 Consensus size: 43
32593226 TGAAATTAAA
* * * *
32593236 GTGTAAGACCATGTCTGGGACATTGGTATC-ATATTTGATTTT
1 GTGTAAGACCATATCTGGAACAATGGCATCGATATTTGATTTT
*
32593278 GTGTAAGACCCTATCTGGAACAATGGCATCGATATTTGATT
1 GTGTAAGACCATATCTGGAACAATGGCATCGATATTTGATT
32593319 ACATGTAAGA
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
42 25 0.71
43 10 0.29
ACGTcount: A:0.27, C:0.14, G:0.23, T:0.36
Consensus pattern (43 bp):
GTGTAAGACCATATCTGGAACAATGGCATCGATATTTGATTTT
Found at i:32593326 original size:43 final size:42
Alignment explanation
Indices: 32593237--32593331 Score: 109
Period size: 42 Copynumber: 2.2 Consensus size: 42
32593227 GAAATTAAAG
* * * * ***
32593237 TGTAAGACCATGTCTGGGACATTGGTATCATATTTGATTTTG
1 TGTAAGACCATATCTGGAACAATGGCATCATATTTGATTACA
*
32593279 TGTAAGACCCTATCTGGAACAATGGCATCGATATTTGATTACA
1 TGTAAGACCATATCTGGAACAATGGCATC-ATATTTGATTACA
32593322 TGTAAGACCA
1 TGTAAGACCA
32593332 CGTCTAGGAC
Statistics
Matches: 43, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
42 24 0.56
43 19 0.44
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.34
Consensus pattern (42 bp):
TGTAAGACCATATCTGGAACAATGGCATCATATTTGATTACA
Found at i:32593348 original size:43 final size:43
Alignment explanation
Indices: 32593178--32593349 Score: 138
Period size: 43 Copynumber: 4.0 Consensus size: 43
32593168 TATAGGATCC
* * * *
32593178 CGATATGTGATTTCGTGTAAGACCACATCTAGGACGTTGGCAT
1 CGATATTTGATTACATGTAAGACCACATCTAGGACATTGGCAT
* ** * *
32593221 CG--ATTTGAAATTAAAGTGTAAGACCATGTCTGGGACATTGGTAT
1 CGATATTTG--ATTACA-TGTAAGACCACATCTAGGACATTGGCAT
*** *
32593265 C-ATATTTGATTTTGTGTAAGACC-CTATCT-GGAACAATGGCAT
1 CGATATTTGATTACATGTAAGACCAC-ATCTAGG-ACATTGGCAT
*
32593307 CGATATTTGATTACATGTAAGACCACGTCTAGGACATTGGCAT
1 CGATATTTGATTACATGTAAGACCACATCTAGGACATTGGCAT
32593350 TGTACGAGCT
Statistics
Matches: 98, Mismatches: 21, Indels: 20
0.71 0.15 0.14
Matches are distributed among these distances:
41 6 0.06
42 21 0.21
43 39 0.40
44 27 0.28
45 5 0.05
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.32
Consensus pattern (43 bp):
CGATATTTGATTACATGTAAGACCACATCTAGGACATTGGCAT
Found at i:32600350 original size:36 final size:36
Alignment explanation
Indices: 32600297--32600390 Score: 109
Period size: 36 Copynumber: 2.6 Consensus size: 36
32600287 TTCATTAACG
* * * * *
32600297 ATCAGTCAATCAG-AACAATTATTTATTTAATAATA
1 ATCAGTTATTCAGTAACAATCAATTATTCAATAATA
* *
32600332 GTCAGTTATTCGGTAACAATCAATTATTCAATAATA
1 ATCAGTTATTCAGTAACAATCAATTATTCAATAATA
*
32600368 ATCAGTTATTCAGTATCAATCAA
1 ATCAGTTATTCAGTAACAATCAA
32600391 CTGATCGGTT
Statistics
Matches: 48, Mismatches: 10, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
35 9 0.19
36 39 0.81
ACGTcount: A:0.41, C:0.14, G:0.09, T:0.36
Consensus pattern (36 bp):
ATCAGTTATTCAGTAACAATCAATTATTCAATAATA
Found at i:32600358 original size:18 final size:18
Alignment explanation
Indices: 32600337--32600390 Score: 63
Period size: 18 Copynumber: 3.0 Consensus size: 18
32600327 TAATAGTCAG
*
32600337 TTATTCGGTAACAATCAA
1 TTATTCAGTAACAATCAA
* * *
32600355 TTATTCAATAATAATCAG
1 TTATTCAGTAACAATCAA
*
32600373 TTATTCAGTATCAATCAA
1 TTATTCAGTAACAATCAA
32600391 CTGATCGGTT
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.41, C:0.15, G:0.07, T:0.37
Consensus pattern (18 bp):
TTATTCAGTAACAATCAA
Found at i:32600462 original size:19 final size:19
Alignment explanation
Indices: 32600415--32600464 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 19
32600405 AGTAACAGTC
*
32600415 AATTATTCAATAAAAATCA
1 AATTATTCAGTAAAAATCA
* * *
32600434 GA-TATACAGTAAAAATTA
1 AATTATTCAGTAAAAATCA
32600452 AATTATTCAGTAA
1 AATTATTCAGTAA
32600465 CAGTCGGTCT
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
18 14 0.58
19 10 0.42
ACGTcount: A:0.54, C:0.08, G:0.06, T:0.32
Consensus pattern (19 bp):
AATTATTCAGTAAAAATCA
Found at i:32600707 original size:45 final size:45
Alignment explanation
Indices: 32600635--32600743 Score: 157
Period size: 45 Copynumber: 2.4 Consensus size: 45
32600625 ACAAATCCGG
*
32600635 AACAGTAACAGTAACAGTATTCAACACACAAATTG-CTGAATCGAT
1 AACAGTAACAGTAACAGTATTCAACACACAAAGTGTC-GAATCGAT
* * *
32600680 AACGGTAACAGTAACAGTATTCGACACACAAAGTGTCGAATCGGT
1 AACAGTAACAGTAACAGTATTCAACACACAAAGTGTCGAATCGAT
*
32600725 AACAGTAACGGTAACAGTA
1 AACAGTAACAGTAACAGTA
32600744 ATAGTAGTCG
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
45 56 0.98
46 1 0.02
ACGTcount: A:0.42, C:0.19, G:0.18, T:0.20
Consensus pattern (45 bp):
AACAGTAACAGTAACAGTATTCAACACACAAAGTGTCGAATCGAT
Found at i:32601804 original size:4 final size:4
Alignment explanation
Indices: 32601791--32601834 Score: 56
Period size: 4 Copynumber: 11.2 Consensus size: 4
32601781 TGAATTTTCC
*
32601791 CTTT -TTT CTTT CTTT -TCTC CTTT CTTT CTTT CTTT CTTT CTTT C
1 CTTT CTTT CTTT CTTT CT-TT CTTT CTTT CTTT CTTT CTTT CTTT C
32601835 CCTGCTTTTC
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
3 4 0.11
4 30 0.86
5 1 0.03
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (4 bp):
CTTT
Found at i:32601820 original size:20 final size:18
Alignment explanation
Indices: 32601785--32601825 Score: 64
Period size: 20 Copynumber: 2.2 Consensus size: 18
32601775 AAACCTTGAA
32601785 TTTTCCCTTTTTTCTTTC
1 TTTTCCCTTTTTTCTTTC
32601803 TTTTCTCCTTTCTTTCTTTC
1 TTTTC-CCTTT-TTTCTTTC
32601823 TTT
1 TTT
32601826 CTTTCTTTCC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 5 0.24
19 5 0.24
20 11 0.52
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (18 bp):
TTTTCCCTTTTTTCTTTC
Found at i:32605146 original size:26 final size:23
Alignment explanation
Indices: 32605097--32605146 Score: 55
Period size: 23 Copynumber: 2.0 Consensus size: 23
32605087 TCCAAAAAAA
* *
32605097 AAAAAAAGAATCTGAATTCCATG
1 AAAAAAAGAATCTGAAATCAATG
32605120 AAAAAAAGAATCTAGAACATCTAATG
1 AAAAAAAGAATCT-GAA-ATC-AATG
32605146 A
1 A
32605147 CCTAGCCAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
23 13 0.59
24 3 0.14
25 2 0.09
26 4 0.18
ACGTcount: A:0.56, C:0.12, G:0.12, T:0.20
Consensus pattern (23 bp):
AAAAAAAGAATCTGAAATCAATG
Found at i:32610580 original size:18 final size:18
Alignment explanation
Indices: 32610557--32610597 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
32610547 TTTAGTTTGA
32610557 ATTTAAGTAA-AATAATCT
1 ATTTAA-TAATAATAATCT
*
32610575 ATTTAATAATAATAATTT
1 ATTTAATAATAATAATCT
32610593 ATTTA
1 ATTTA
32610598 TTTAAGTCCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 3 0.14
18 18 0.86
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.46
Consensus pattern (18 bp):
ATTTAATAATAATAATCT
Found at i:32615038 original size:13 final size:13
Alignment explanation
Indices: 32615020--32615048 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
32615010 GACGTCATCA
32615020 ACAAATTGAAGTC
1 ACAAATTGAAGTC
32615033 ACAAATTGAAGTC
1 ACAAATTGAAGTC
32615046 ACA
1 ACA
32615049 TGCCCGTGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.48, C:0.17, G:0.14, T:0.21
Consensus pattern (13 bp):
ACAAATTGAAGTC
Found at i:32616164 original size:42 final size:42
Alignment explanation
Indices: 32616045--32616164 Score: 116
Period size: 43 Copynumber: 2.8 Consensus size: 42
32616035 CACATAGTAC
* * * ****
32616045 CATACCAATGTCATATCCCGGATATAGTCTTACATGGGATCT
1 CATACCGATGTCATATCCCAGATATGGTCTTACACAAAATCT
** * *
32616087 CATTTCGATGCCAATAGT-CCAGTTATGGTCTTACACAAAATCT
1 CATACCGATGTC-ATA-TCCCAGATATGGTCTTACACAAAATCT
32616130 CATACCGATGTCATATCCCAGATATGGTCTTACAC
1 CATACCGATGTCATATCCCAGATATGGTCTTACAC
32616165 GTAAACTCAA
Statistics
Matches: 60, Mismatches: 15, Indels: 6
0.74 0.19 0.07
Matches are distributed among these distances:
41 1 0.02
42 28 0.47
43 30 0.50
44 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.31
Consensus pattern (42 bp):
CATACCGATGTCATATCCCAGATATGGTCTTACACAAAATCT
Found at i:32618216 original size:29 final size:30
Alignment explanation
Indices: 32618152--32618222 Score: 94
Period size: 29 Copynumber: 2.4 Consensus size: 30
32618142 TATTAATTTA
32618152 TAATTTCATTATTTTTGAAGGGGTTAAATAG
1 TAATTTCATTA-TTTTGAAGGGGTTAAATAG
*
32618183 -AATTTTATTATTTT-AAGGGGTTAAAGT-G
1 TAATTTCATTATTTTGAAGGGGTTAAA-TAG
32618211 TAATTTCATTAT
1 TAATTTCATTAT
32618223 ATTTTAATTT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
28 12 0.33
29 15 0.42
30 9 0.25
ACGTcount: A:0.32, C:0.03, G:0.17, T:0.48
Consensus pattern (30 bp):
TAATTTCATTATTTTGAAGGGGTTAAATAG
Found at i:32620224 original size:24 final size:23
Alignment explanation
Indices: 32620185--32620229 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 23
32620175 TTTTTTAATA
32620185 TTAAAAAATAGATACAGATTAACT
1 TTAAAAAATAGATACA-ATTAACT
32620209 TTAAAAAATA-ATTACAATTAA
1 TTAAAAAATAGA-TACAATTAA
32620230 AAAAAAAGTC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
23 6 0.30
24 14 0.70
ACGTcount: A:0.58, C:0.07, G:0.04, T:0.31
Consensus pattern (23 bp):
TTAAAAAATAGATACAATTAACT
Found at i:32623887 original size:31 final size:31
Alignment explanation
Indices: 32623846--32623916 Score: 83
Period size: 31 Copynumber: 2.3 Consensus size: 31
32623836 GATAATGTGA
*
32623846 TATAGTTTAGATAT-AATTT-TAAACAACGAAG
1 TATAATTTAGATATCAATTTATAAA-AACG-AG
* *
32623877 TATAATTTAGATATCCATTTATAAAAATGAG
1 TATAATTTAGATATCAATTTATAAAAACGAG
32623908 TATAATTTA
1 TATAATTTA
32623917 AAGGGTAAAC
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
31 24 0.69
32 7 0.20
33 4 0.11
ACGTcount: A:0.45, C:0.06, G:0.10, T:0.39
Consensus pattern (31 bp):
TATAATTTAGATATCAATTTATAAAAACGAG
Found at i:32629683 original size:49 final size:49
Alignment explanation
Indices: 32629611--32629708 Score: 196
Period size: 49 Copynumber: 2.0 Consensus size: 49
32629601 ACACATGATA
32629611 GTATGTTTGTCGCATTAGATTCTAAAAGTAGTAAAATTTTAACTTAATG
1 GTATGTTTGTCGCATTAGATTCTAAAAGTAGTAAAATTTTAACTTAATG
32629660 GTATGTTTGTCGCATTAGATTCTAAAAGTAGTAAAATTTTAACTTAATG
1 GTATGTTTGTCGCATTAGATTCTAAAAGTAGTAAAATTTTAACTTAATG
32629709 AATTTAACAG
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.35, C:0.08, G:0.16, T:0.41
Consensus pattern (49 bp):
GTATGTTTGTCGCATTAGATTCTAAAAGTAGTAAAATTTTAACTTAATG
Found at i:32631713 original size:113 final size:113
Alignment explanation
Indices: 32631515--32632068 Score: 858
Period size: 114 Copynumber: 4.9 Consensus size: 113
32631505 CAATAAGCAA
* * * *
32631515 TAGCGGCGTTTTTTAAAAAGCGCCGCAAAAAACCTAATCCAAAACAATGCAGTTTTGTGAGCTTT
1 TAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAATCCAAAACGACGCAGTTTTGTGAGCTTT
32631580 GTGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCAGGGCTT
66 GTGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCAGGGCTT
*
32631628 TAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACATAATCCAAAACGACGCAGTTTTGTGAGCTTT
1 TAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAATCCAAAACGACGCAGTTTTGTGAGCTTT
* * * * * *
32631693 GTGGATTTAGCGGCATTTTTAAGGAAGCGCCGCTAAAGCCCTGAGCAT
66 GTGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCAGGGCTT
*
32631741 TAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAATCCAAAACGATGCAGTTTTGTGAGCTT
1 TAGCGGCGTTTTTGAGAAAGCGCCGC-AAAAAACCTAATCCAAAACGACGCAGTTTTGTGAGCTT
*
32631806 TGTGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCACGGCTT
65 TGTGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCAGGGCTT
* **
32631855 TAGCGGCGTTTTTGAGATAGCGCCGCAAAAAACCTAATGTAAAACGACGCAGTTTTTGTGAGCTT
1 TAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAATCCAAAACGACGCAG-TTTTGTGAGCTT
* *
32631920 TCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTT
65 T-GTGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCAGGGCTT
* *
32631970 TAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAACCTAATCCAAAACGACGCCGTTTTGTGAGCTTT
1 TAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAATCCAAAACGACGCAGTTTTGTGAGCTTT
* *
32632035 CG-GAGATTTAGCGGCGTTTTTTAGAAAGCGCCGC
66 -GTG-GATTTAGCGGCGTTTTTAAGGAAGCGCCGC
32632069 AAAAAACCTA
Statistics
Matches: 404, Mismatches: 33, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
113 152 0.38
114 160 0.40
115 92 0.23
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.27
Consensus pattern (113 bp):
TAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAATCCAAAACGACGCAGTTTTGTGAGCTTT
GTGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCAGGGCTT
Found at i:32631909 original size:227 final size:228
Alignment explanation
Indices: 32631510--32632068 Score: 872
Period size: 227 Copynumber: 2.5 Consensus size: 228
32631500 GCTAACAATA
* * * *
32631510 AGCAATAGCGGCGTTTTTTAAAAAGCGCCGCAAAAAACCTAATCCAAAACAATGCAGTTTTGTGA
1 AGCATTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAATCCAAAACGATGCAGTTTTGTGA
*
32631575 GCTTTGTGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTT
66 GCTTTGTGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCACGGCTTTAGCGGCGTTTT
*
32631640 TGAGAAAGCGCCGCAAAAAACATAATCCAAAACGACGCAG-TTTTGTGAGCTTT-GTGGATTTAG
131 TGAGAAAGCGCCGCAAAAAACATAATCCAAAACGACGCAGTTTTTGTGAGCTTTCGGGGATTTAG
* *
32631703 CGGCATTTTTAAGGAAGCGCCGCTAAAGCCCTG
196 CGGCATTTTTAAGAAAGCGCCGCTAAAGCCCAG
32631736 AGCATTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAATCCAAAACGATGCAGTTTTGTG
1 AGCATTAGCGGCGTTTTTGAGAAAGCGCCGC-AAAAAACCTAATCCAAAACGATGCAGTTTTGTG
32631801 AGCTTTGTGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCACGGCTTTAGCGGCGTTT
65 AGCTTTGTGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCACGGCTTTAGCGGCGTTT
* * **
32631866 TTGAGATAGCGCCGCAAAAAACCTAATGTAAAACGACGCAGTTTTTGTGAGCTTTCGGGGATTTA
130 TTGAGAAAGCGCCGCAAAAAACATAATCCAAAACGACGCAGTTTTTGTGAGCTTTCGGGGATTTA
* * *
32631931 GCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAG
195 GCGGCATTTTTAAGAAAGCGCCGCTAAAGCCCAG
* * * * *
32631965 GGCTTTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAACCTAATCCAAAACGACGCCGTTTTGTGA
1 AGCATTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAATCCAAAACGATGCAGTTTTGTGA
* *
32632030 GCTTTCG-GAGATTTAGCGGCGTTTTTTAGAAAGCGCCGC
66 GCTTT-GTG-GATTTAGCGGCGTTTTTAAGGAAGCGCCGC
32632069 AAAAAACCTA
Statistics
Matches: 306, Mismatches: 22, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
226 28 0.09
227 133 0.43
228 51 0.17
229 94 0.31
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.26
Consensus pattern (228 bp):
AGCATTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAATCCAAAACGATGCAGTTTTGTGA
GCTTTGTGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCACGGCTTTAGCGGCGTTTT
TGAGAAAGCGCCGCAAAAAACATAATCCAAAACGACGCAGTTTTTGTGAGCTTTCGGGGATTTAG
CGGCATTTTTAAGAAAGCGCCGCTAAAGCCCAG
Found at i:32632053 original size:73 final size:72
Alignment explanation
Indices: 32631968--32632125 Score: 226
Period size: 73 Copynumber: 2.2 Consensus size: 72
32631958 TGCTCAGGGC
* * *
32631968 TTTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAACCTAATCCAAAACGACGCCGTTTTGTGAGCT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCAAAACGACACCGTTTTGTGAGCT
32632033 TTCGGAGA
66 TTCGG-GA
* * * * *
32632041 TTTAGCGGCGTTTTTTAGAAAGCGCCGCAAAAAACCTAAGCCAAAACTACACCTTTTTTTGCGCT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCAAAACGACACCGTTTTGTGAGCT
32632106 TTCGGGA
66 TTCGGGA
*
32632113 TTTAGCGGTGTTT
1 TTTAGCGGCGTTT
32632126 AATTGATTTA
Statistics
Matches: 76, Mismatches: 9, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
72 14 0.18
73 62 0.82
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (72 bp):
TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCAAAACGACACCGTTTTGTGAGCT
TTCGGGA
Found at i:32632509 original size:17 final size:17
Alignment explanation
Indices: 32632478--32632521 Score: 65
Period size: 17 Copynumber: 2.7 Consensus size: 17
32632468 TAGGGAGTAT
32632478 TTATGGATT--TAGGGA
1 TTATGGATTAATAGGGA
32632493 TTATGGATTAATAGGGA
1 TTATGGATTAATAGGGA
*
32632510 TTATGGTTTAAT
1 TTATGGATTAAT
32632522 TAAGGGTTGG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
15 9 0.35
17 17 0.65
ACGTcount: A:0.30, C:0.00, G:0.27, T:0.43
Consensus pattern (17 bp):
TTATGGATTAATAGGGA
Found at i:32632829 original size:14 final size:15
Alignment explanation
Indices: 32632799--32632836 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
32632789 GACTACTATA
32632799 TATGGATTTAGGGAT
1 TATGGATTTAGGGAT
*
32632814 TATGGA-TTAGGTAT
1 TATGGATTTAGGGAT
32632828 TATGG-TTTA
1 TATGGATTTA
32632837 ATTAAGGGAC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 15 0.71
15 6 0.29
ACGTcount: A:0.26, C:0.00, G:0.29, T:0.45
Consensus pattern (15 bp):
TATGGATTTAGGGAT
Found at i:32632884 original size:15 final size:14
Alignment explanation
Indices: 32632859--32632890 Score: 55
Period size: 15 Copynumber: 2.2 Consensus size: 14
32632849 TGGTCGAGAT
32632859 TTAAGGTTTAGGGG
1 TTAAGGTTTAGGGG
32632873 TTAAGAGTTTAGGGG
1 TTAAG-GTTTAGGGG
32632888 TTA
1 TTA
32632891 GACGTTAGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (14 bp):
TTAAGGTTTAGGGG
Found at i:32632927 original size:29 final size:30
Alignment explanation
Indices: 32632856--32632927 Score: 69
Period size: 29 Copynumber: 2.5 Consensus size: 30
32632846 CGTTGGTCGA
* *
32632856 GATTTAAGGTTTAGGGGTTAAGAGTTTAGG
1 GATTTAGGGTTTAGGGGCTAAGAGTTTAGG
* * *
32632886 G-GTTAGACG-TTAGTGGCTAAGAG-TTAGG
1 GATTTAG-GGTTTAGGGGCTAAGAGTTTAGG
32632914 GATTTAGGGTTTAG
1 GATTTAGGGTTTAG
32632928 AGTTTTAGGG
Statistics
Matches: 32, Mismatches: 7, Indels: 7
0.70 0.15 0.15
Matches are distributed among these distances:
28 7 0.22
29 23 0.72
30 2 0.06
ACGTcount: A:0.25, C:0.03, G:0.38, T:0.35
Consensus pattern (30 bp):
GATTTAGGGTTTAGGGGCTAAGAGTTTAGG
Found at i:32633398 original size:47 final size:46
Alignment explanation
Indices: 32633333--32633433 Score: 157
Period size: 47 Copynumber: 2.2 Consensus size: 46
32633323 AATAATGAAA
* *
32633333 TAAAAACACTAAACTTTTAATTTTATCTAATTTTTATAAATATTACT
1 TAAAAA-ACTAAACTTTTAAATTTATCTAATTTTTATAAATATAACT
*
32633380 TAAAAAACTAAAATTTTTAAATTTATCTAATTTTTATAAATATAACT
1 TAAAAAACT-AAACTTTTAAATTTATCTAATTTTTATAAATATAACT
32633427 TAAAAAA
1 TAAAAAA
32633434 ACCTATGTAT
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
46 3 0.06
47 47 0.94
ACGTcount: A:0.49, C:0.08, G:0.00, T:0.44
Consensus pattern (46 bp):
TAAAAAACTAAACTTTTAAATTTATCTAATTTTTATAAATATAACT
Found at i:32636567 original size:14 final size:14
Alignment explanation
Indices: 32636548--32636577 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
32636538 ACATAAAGCA
32636548 ACTAACCTTTTCCC
1 ACTAACCTTTTCCC
32636562 ACTAACCTTTTCCC
1 ACTAACCTTTTCCC
32636576 AC
1 AC
32636578 ACCTAATCTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.23, C:0.43, G:0.00, T:0.33
Consensus pattern (14 bp):
ACTAACCTTTTCCC
Found at i:32637760 original size:15 final size:15
Alignment explanation
Indices: 32637740--32637769 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
32637730 GAGTTGAAAG
32637740 TGAAGAAGAAGATGA
1 TGAAGAAGAAGATGA
*
32637755 TGAAGATGAAGATGA
1 TGAAGAAGAAGATGA
32637770 AGATGATCCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.33, T:0.17
Consensus pattern (15 bp):
TGAAGAAGAAGATGA
Found at i:32638013 original size:23 final size:23
Alignment explanation
Indices: 32637986--32638041 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 23
32637976 ACTAAAAGTA
*
32637986 TATATTTAATACTAATTAATTTT
1 TATATTTAATAATAATTAATTTT
** *
32638009 TATA-TTAATAATGTTTTATTTT
1 TATATTTAATAATAATTAATTTT
*
32638031 AATATTTAATA
1 TATATTTAATA
32638042 TTTCTAAATG
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
22 17 0.63
23 10 0.37
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (23 bp):
TATATTTAATAATAATTAATTTT
Found at i:32638020 original size:15 final size:16
Alignment explanation
Indices: 32638002--32638034 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
32637992 TAATACTAAT
32638002 TAAT-TTTTATATTAA
1 TAATGTTTTATATTAA
*
32638017 TAATGTTTTATTTTAA
1 TAATGTTTTATATTAA
32638033 TA
1 TA
32638035 TTTAATATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (16 bp):
TAATGTTTTATATTAA
Found at i:32638175 original size:44 final size:43
Alignment explanation
Indices: 32638123--32638267 Score: 157
Period size: 43 Copynumber: 3.3 Consensus size: 43
32638113 GTTTGTAATC
* * *
32638123 AAAGCGTCGCTAAAGGTCTTTGATATATAGTGTCGTTTG-TGGTA
1 AAAGCGTCGCTAAAGGTC-TTGAGATATAGTGGCGTTTGTTAG-A
*
32638167 AAAGCGTCGCTAAAGGTCTTGAGCTATAGTGGCGTTTGTTAGA
1 AAAGCGTCGCTAAAGGTCTTGAGATATAGTGGCGTTTGTTAGA
* * *** * *
32638210 AAAGCGCCGCTAAAGATCCCAAGTTATAGCGGCGTTTGTTAGA
1 AAAGCGTCGCTAAAGGTCTTGAGATATAGTGGCGTTTGTTAGA
*
32638253 AAAGCGCCGCTAAAG
1 AAAGCGTCGCTAAAG
32638268 ATCCTGATCT
Statistics
Matches: 89, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
43 69 0.78
44 20 0.22
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.28
Consensus pattern (43 bp):
AAAGCGTCGCTAAAGGTCTTGAGATATAGTGGCGTTTGTTAGA
Found at i:32638213 original size:43 final size:43
Alignment explanation
Indices: 32638166--32638289 Score: 176
Period size: 43 Copynumber: 2.9 Consensus size: 43
32638156 CGTTTGTGGT
* * * *
32638166 AAAAGCGTCGCTAAAGGTCTTGAGCTATAGTGGCGTTTGTTAG
1 AAAAGCGCCGCTAAAGATCCTGAGCTATAGCGGCGTTTGTTAG
** *
32638209 AAAAGCGCCGCTAAAGATCCCAAGTTATAGCGGCGTTTGTTAG
1 AAAAGCGCCGCTAAAGATCCTGAGCTATAGCGGCGTTTGTTAG
*
32638252 AAAAGCGCCGCTAAAGATCCTGATCTATAGCGGCGTTT
1 AAAAGCGCCGCTAAAGATCCTGAGCTATAGCGGCGTTT
32638290 ATTTCTAAAA
Statistics
Matches: 70, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 70 1.00
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.26
Consensus pattern (43 bp):
AAAAGCGCCGCTAAAGATCCTGAGCTATAGCGGCGTTTGTTAG
Found at i:32639168 original size:20 final size:20
Alignment explanation
Indices: 32639126--32639164 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
32639116 TTTATGTGTG
*
32639126 TAAAAATCATATATTTAGAA
1 TAAAAATCATATATTTAAAA
32639146 TAAAAAT-ATATATTTAAAA
1 TAAAAATCATATATTTAAAA
32639165 ATAACATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.36
Consensus pattern (20 bp):
TAAAAATCATATATTTAAAA
Found at i:32639173 original size:17 final size:19
Alignment explanation
Indices: 32639126--32639174 Score: 57
Period size: 17 Copynumber: 2.6 Consensus size: 19
32639116 TTTATGTGTG
32639126 TAAAAATCATATATTTAGAA
1 TAAAAA-CATATATTTAGAA
*
32639146 TAAAAATATATATTTA-AA
1 TAAAAACATATATTTAGAA
*
32639164 -AATAACATATA
1 TAAAAACATATA
32639175 ATAAATAATG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
17 9 0.35
18 2 0.08
19 9 0.35
20 6 0.23
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.35
Consensus pattern (19 bp):
TAAAAACATATATTTAGAA
Found at i:32640167 original size:18 final size:18
Alignment explanation
Indices: 32640104--32640167 Score: 58
Period size: 18 Copynumber: 3.4 Consensus size: 18
32640094 TAATAAAGTG
*
32640104 TGTACAATAAAATTAAAA
1 TGTATAATAAAATTAAAA
*
32640122 TGTATAA-AAATATCTAGAGTA
1 TGTATAATAAA-AT-TA-A-AA
*
32640143 TGCATAATAAAATTAAAA
1 TGTATAATAAAATTAAAA
32640161 TGTATAA
1 TGTATAA
32640168 AATTATTAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 10
0.71 0.10 0.20
Matches are distributed among these distances:
17 3 0.08
18 15 0.42
19 3 0.08
20 3 0.08
21 9 0.25
22 3 0.08
ACGTcount: A:0.55, C:0.05, G:0.09, T:0.31
Consensus pattern (18 bp):
TGTATAATAAAATTAAAA
Found at i:32641331 original size:19 final size:20
Alignment explanation
Indices: 32641290--32641336 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
32641280 CAAAGGGAAG
32641290 GAATTTTTGTTTAAATATAT
1 GAATTTTTGTTTAAATATAT
* * *
32641310 GAATTTTTTTTTTAAT-TTT
1 GAATTTTTGTTTAAATATAT
32641329 GAATTTTT
1 GAATTTTT
32641337 AAATAATTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
19 10 0.42
20 14 0.58
ACGTcount: A:0.28, C:0.00, G:0.09, T:0.64
Consensus pattern (20 bp):
GAATTTTTGTTTAAATATAT
Found at i:32643732 original size:21 final size:22
Alignment explanation
Indices: 32643708--32643754 Score: 55
Period size: 21 Copynumber: 2.2 Consensus size: 22
32643698 CATTGTTTAG
*
32643708 AATTAGAT-G-AATTAGGCTTGA
1 AATTAGATAGAAATTAAGCTT-A
32643729 AATT-GATAGAAATTAAGCTTA
1 AATTAGATAGAAATTAAGCTTA
32643750 AATTA
1 AATTA
32643755 TGAAAATGAC
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
20 3 0.14
21 10 0.45
22 9 0.41
ACGTcount: A:0.45, C:0.04, G:0.17, T:0.34
Consensus pattern (22 bp):
AATTAGATAGAAATTAAGCTTA
Found at i:32645898 original size:24 final size:26
Alignment explanation
Indices: 32645865--32645919 Score: 71
Period size: 24 Copynumber: 2.2 Consensus size: 26
32645855 GATATTGCAC
*
32645865 AAAATGTTAACATAATATG-ACAAA-A
1 AAAATGTTAAAATAAT-TGCACAAATA
32645890 AAAAT-TTAAAATAATTGCACAAATA
1 AAAATGTTAAAATAATTGCACAAATA
32645915 AAAAT
1 AAAAT
32645920 AAAGCAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
23 2 0.07
24 14 0.52
25 11 0.41
ACGTcount: A:0.62, C:0.07, G:0.05, T:0.25
Consensus pattern (26 bp):
AAAATGTTAAAATAATTGCACAAATA
Found at i:32647620 original size:44 final size:43
Alignment explanation
Indices: 32647552--32648024 Score: 365
Period size: 44 Copynumber: 10.6 Consensus size: 43
32647542 TTTTTTATCT
* * *
32647552 TGCTCTACTGCAACTTTAGAGAGATAAGGATTGTGACTTCGATC
1 TGCTCCACTGCAACTTCAGGGAGATAA-GATTGTGACTTCGATC
* *
32647596 TGCTCCACTGCAACTTCAGGGAGATAAGATCTACTAACTTC-AGTC
1 TGCTCCACTGCAACTTCAGGGAGATAAGAT-T-GTGACTTCGA-TC
* ** **
32647641 TGCTCCACTGTAACTTCAGAAAGATAAGGATTGTGGTTTCGATC
1 TGCTCCACTGCAACTTCAGGGAGATAA-GATTGTGACTTCGATC
* * *
32647685 TGCTCTACTGCAACTTCAAGGAGATAAGATCTGCTAACTTC-AGTC
1 TGCTCCACTGCAACTTCAGGGAGATAAGAT-TG-TGACTTCGA-TC
* * * ** * **
32647730 TGCTCTACTGCAACTTTAGGGAGATAAAACTTAGAAAATTTTATCC
1 TGCTCCACTGCAACTTCAGGGAGATAAGA-TT-GTGACTTCGAT-C
* * *
32647776 TGCTCTACTGCAACTTCAGAGAGATAAGGATTGTGGCTTCGATC
1 TGCTCCACTGCAACTTCAGGGAGATAA-GATTGTGACTTCGATC
* * * * **
32647820 TGCTCCACTACAATTTTAGGGAGATAAGGGTTGTGGTTTCGATC
1 TGCTCCACTGCAACTTCAGGGAGATAA-GATTGTGACTTCGATC
* * * * *
32647864 TGCTCCATTGTAACTTCGGGGAGATAAGATCTGCTAACTTCAATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGAT-TG-TGACTTCGATC
* * * **
32647909 TACTCCACTGCAACTTCAGGGAGATAAGACTTGGGTAATTTTATCC
1 TGCTCCACTGCAACTTCAGGGAGATAAGA-TTGTG-ACTTCGAT-C
* * *
32647955 TGCTCTACTGCAACTTCAGAGAGATAAGGATTGTGGCTTCGATC
1 TGCTCCACTGCAACTTCAGGGAGATAA-GATTGTGACTTCGATC
*
32647999 TGCTCCACTGCGACTTCAGGGAGATA
1 TGCTCCACTGCAACTTCAGGGAGATA
32648025 GAACCTGCGG
Statistics
Matches: 337, Mismatches: 73, Indels: 38
0.75 0.16 0.08
Matches are distributed among these distances:
43 8 0.02
44 142 0.42
45 120 0.36
46 64 0.19
47 3 0.01
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.30
Consensus pattern (43 bp):
TGCTCCACTGCAACTTCAGGGAGATAAGATTGTGACTTCGATC
Found at i:32647669 original size:89 final size:89
Alignment explanation
Indices: 32647552--32648024 Score: 431
Period size: 89 Copynumber: 5.3 Consensus size: 89
32647542 TTTTTTATCT
* * * *
32647552 TGCTCTACTGCAACTTTAGAGAGATAAGGATTGTGACTTCGATCTGCTCCACTGCAACTTCAGGG
1 TGCTCCACTGCAACTTTAGGGAGATAAGGATTGTGAATTCGATCTGCTCTACTGCAACTTCAGGG
*
32647617 AGATAAGATCTACTAACTTCAGTC
66 AGATAAGATCTGCTAACTTCAGTC
* * ** ** *
32647641 TGCTCCACTGTAACTTCAGAAAGATAAGGATTGTGGTTTCGATCTGCTCTACTGCAACTTCAAGG
1 TGCTCCACTGCAACTTTAGGGAGATAAGGATTGTGAATTCGATCTGCTCTACTGCAACTTCAGGG
32647706 AGATAAGATCTGCTAACTTCAGTC
66 AGATAAGATCTGCTAACTTCAGTC
* * ** **
32647730 TGCTCTACTGCAACTTTAGGGAGATAA-AACTTAGAAAATTTTATCCTGCTCTACTGCAACTTCA
1 TGCTCCACTGCAACTTTAGGGAGATAAGGA-TT-GTGAATTCGAT-CTGCTCTACTGCAACTTCA
* **
32647794 GAGAGATAAGGAT-TG-TGGCTTC-GATC
63 GGGAGATAA-GATCTGCTAACTTCAG-TC
* * * ** * * * *
32647820 TGCTCCACTACAATTTTAGGGAGATAAGGGTTGTGGTTTCGATCTGCTCCATTGTAACTTCGGGG
1 TGCTCCACTGCAACTTTAGGGAGATAAGGATTGTGAATTCGATCTGCTCTACTGCAACTTCAGGG
*
32647885 AGATAAGATCTGCTAACTTCAATC
66 AGATAAGATCTGCTAACTTCAGTC
* * * **
32647909 TACTCCACTGCAACTTCAGGGAGATAA-GACTTGGGTAATTTTATCCTGCTCTACTGCAACTTCA
1 TGCTCCACTGCAACTTTAGGGAGATAAGGA-TTGTG-AATTCGAT-CTGCTCTACTGCAACTTCA
* **
32647973 GAGAGATAAGGAT-TG-TGGCTTC-GATC
63 GGGAGATAA-GATCTGCTAACTTCAG-TC
* *
32647999 TGCTCCACTGCGACTTCAGGGAGATA
1 TGCTCCACTGCAACTTTAGGGAGATA
32648025 GAACCTGCGG
Statistics
Matches: 306, Mismatches: 64, Indels: 27
0.77 0.16 0.07
Matches are distributed among these distances:
87 3 0.01
88 27 0.09
89 144 0.47
90 73 0.24
91 53 0.17
92 6 0.02
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.30
Consensus pattern (89 bp):
TGCTCCACTGCAACTTTAGGGAGATAAGGATTGTGAATTCGATCTGCTCTACTGCAACTTCAGGG
AGATAAGATCTGCTAACTTCAGTC
Found at i:32647934 original size:224 final size:225
Alignment explanation
Indices: 32647544--32647981 Score: 530
Period size: 224 Copynumber: 2.0 Consensus size: 225
32647534 TTCGTGTATT
* * *
32647544 TTTTATCTTGCTCTACTGCAACTTTAGAGAGATAAGGATTGTGACTTCGATCTGCTCCACTGCAA
1 TTTTATCCTGCTCTACTGCAACTTCAGAGAGATAAGGATTGTGACTTCGATCTGCTCCACTACAA
32647609 CTTCAGGGAGATAAGATCTACTAACTTCAGTCTGCTCCACTGTAACTTCAGAAAGATAAGGATTG
66 CTTCAGGGAGATAAGATCTACTAACTTCAGTCTGCTCCACTGTAACTTCAGAAAGATAAGGATTG
*** * * *
32647674 TGGTTTCGATCTGCTCTACTGCAACTTCAAGGAGATAAGA-TCT-GCTAACTTCAGT-CTGCTCT
131 TAACTTCAATCTACTCCACTGCAACTTCAAGGAGATAAGACT-TGGCTAACTTCA-TCCTGCTCT
* *
32647736 ACTGCAACTTTAGGGAGATAAAACTTAGAAAA
194 ACTGCAACTTCAGAGAGATAAAACTTAGAAAA
*
32647768 TTTTATCCTGCTCTACTGCAACTTCAGAGAGATAAGGATTGTGGCTTCGATCTGCTCCACTACAA
1 TTTTATCCTGCTCTACTGCAACTTCAGAGAGATAAGGATTGTGACTTCGATCTGCTCCACTACAA
* * * * *** * * **
32647833 TTTTAGGGAGATAAGGGT-T-GTGGTTTC-GATCTGCTCCATTGTAACTTCGGGGAGATAA-GAT
66 CTTCAGGGAGATAA-GATCTACTAACTTCAG-TCTGCTCCACTGTAACTTCAGAAAGATAAGGAT
* * * *
32647894 CTGCTAACTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGACTTGGGTAATTTTATCCTGCT
129 -TG-TAACTTCAATCTACTCCACTGCAACTTCAAGGAGATAAGACTTGGCTAACTTCATCCTGCT
32647959 CTACTGCAACTTCAGAGAGATAA
192 CTACTGCAACTTCAGAGAGATAA
32647982 GGATTGTGGC
Statistics
Matches: 180, Mismatches: 27, Indels: 13
0.82 0.12 0.06
Matches are distributed among these distances:
222 4 0.02
223 31 0.17
224 109 0.61
225 36 0.20
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (225 bp):
TTTTATCCTGCTCTACTGCAACTTCAGAGAGATAAGGATTGTGACTTCGATCTGCTCCACTACAA
CTTCAGGGAGATAAGATCTACTAACTTCAGTCTGCTCCACTGTAACTTCAGAAAGATAAGGATTG
TAACTTCAATCTACTCCACTGCAACTTCAAGGAGATAAGACTTGGCTAACTTCATCCTGCTCTAC
TGCAACTTCAGAGAGATAAAACTTAGAAAA
Found at i:32647958 original size:135 final size:136
Alignment explanation
Indices: 32647544--32648078 Score: 373
Period size: 135 Copynumber: 4.0 Consensus size: 136
32647534 TTCGTGTATT
* * * * *
32647544 TTTTATCTTGCTCTACTGCAACTTTAGAGAGATAAGGATTGTGACTTCGATCTGCTCCACTGCAA
1 TTTTATCCTGCTCCACTACAACTTCAGAGAGATAAGGATTGTGGCTTCGATCTGCTCCACTGCAA
* * * * ** **
32647609 CTTCAGGGAGATA-AGATCTAC-TAACTTCAGTCTGCTCCACTGTAACTTCAGAAAGATAAGGA-
66 CTTCAGGGAGATAGA-ACCTGCGTAACTTCAATCTACTCCACTACAACTTCAGGGAGATAA-GAC
32647671 TTGTGGT--
129 TTG-GGTAA
** * * ** *
32647678 TTCGAT-CTGCTCTACTGCAACTTCA-AGGAGATAA-GATCTGCTAACTTC-AGTCTGCTCTACT
1 TTTTATCCTGCTCCACTACAACTTCAGA-GAGATAAGGAT-TG-TGGCTTCGA-TCTGCTCCACT
* * ** * * ** * * * *
32647739 GCAACTTTAGGGAGATA-AAACTTAGAAAATTTTATCCTGCTCTACTGCAACTTCAGAGAGATAA
62 GCAACTTCAGGGAGATAGAACCTGCGTAACTTCAAT-CTACTCCACTACAACTTCAGGGAGATAA
*
32647803 GGA-TTGTGG--C
126 -GACTTG-GGTAA
** * * * * * * *
32647813 TTCGAT-CTGCTCCACTACAATTTTAGGGAGATAAGGGTTGTGGTTTCGATCTGCTCCATTGTAA
1 TTTTATCCTGCTCCACTACAACTTCAGAGAGATAAGGATTGTGGCTTCGATCTGCTCCACTGCAA
* * *
32647877 CTTCGGGGAGATA-AGATCTGC-TAACTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGACT
66 CTTCAGGGAGATAGA-ACCTGCGTAACTTCAATCTACTCCACTACAACTTCAGGGAGATAAGACT
32647940 TGGGTAA
130 TGGGTAA
* * *
32647947 TTTTATCCTGCTCTACTGCAACTTCAGAGAGATAAGGATTGTGGCTTCGATCTGCTCCACTGCGA
1 TTTTATCCTGCTCCACTACAACTTCAGAGAGATAAGGATTGTGGCTTCGATCTGCTCCACTGCAA
** * * *
32648012 CTTCAGGGAGATAGAACCTGCGGTTTCTTCAGTCTGCTCCACTACAACTTTAGGGAGATAAGACT
66 CTTCAGGGAGATAGAACCTGC-GTAACTTCAATCTACTCCACTACAACTTCAGGGAGATAAGACT
32648077 TG
130 TG
32648079 TTACTTTACT
Statistics
Matches: 320, Mismatches: 63, Indels: 33
0.77 0.15 0.08
Matches are distributed among these distances:
132 8 0.03
133 58 0.18
134 80 0.25
135 133 0.42
136 3 0.01
137 38 0.12
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (136 bp):
TTTTATCCTGCTCCACTACAACTTCAGAGAGATAAGGATTGTGGCTTCGATCTGCTCCACTGCAA
CTTCAGGGAGATAGAACCTGCGTAACTTCAATCTACTCCACTACAACTTCAGGGAGATAAGACTT
GGGTAA
Found at i:32648022 original size:179 final size:179
Alignment explanation
Indices: 32647595--32648024 Score: 585
Period size: 179 Copynumber: 2.4 Consensus size: 179
32647585 TGACTTCGAT
* * * ** *
32647595 CTGCTCCACTGCAACTTCAGGGAGATAA-GATCTACTAACTTC-AGTCTGCTCCACTGTAACTTC
1 CTGCTCTACTGCAACTTCAGAGAGATAAGGAT-T-GTGGCTTCGA-TCTGCTCCACTGCAACTTC
** *
32647658 AGAAAGATAAGGATTGTGGTTTCGATCTGCTCTACTGCAACTTCAAGGAGATAAGATCTGCTAAC
63 AGGGAGATAAGGATTGTGGTTTCGATCTGCTCCACTGCAACTTCAAGGAGATAAGATCTGCTAAC
* * * *
32647723 TTCAGTCTGCTCTACTGCAACTTTAGGGAGATAAAACTTAGAAAATTTTATC
128 TTCAATCTACTCCACTGCAACTTCAGGGAGATAAAACTTAGAAAATTTTATC
* * *
32647775 CTGCTCTACTGCAACTTCAGAGAGATAAGGATTGTGGCTTCGATCTGCTCCACTACAATTTTAGG
1 CTGCTCTACTGCAACTTCAGAGAGATAAGGATTGTGGCTTCGATCTGCTCCACTGCAACTTCAGG
* * * **
32647840 GAGATAAGGGTTGTGGTTTCGATCTGCTCCATTGTAACTTCGGGGAGATAAGATCTGCTAACTTC
66 GAGATAAGGATTGTGGTTTCGATCTGCTCCACTGCAACTTCAAGGAGATAAGATCTGCTAACTTC
* * **
32647905 AATCTACTCCACTGCAACTTCAGGGAGATAAGACTTGGGTAATTTTATC
131 AATCTACTCCACTGCAACTTCAGGGAGATAAAACTTAGAAAATTTTATC
*
32647954 CTGCTCTACTGCAACTTCAGAGAGATAAGGATTGTGGCTTCGATCTGCTCCACTGCGACTTCAGG
1 CTGCTCTACTGCAACTTCAGAGAGATAAGGATTGTGGCTTCGATCTGCTCCACTGCAACTTCAGG
32648019 GAGATA
66 GAGATA
32648025 GAACCTGCGG
Statistics
Matches: 219, Mismatches: 29, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
179 188 0.86
180 28 0.13
181 3 0.01
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.30
Consensus pattern (179 bp):
CTGCTCTACTGCAACTTCAGAGAGATAAGGATTGTGGCTTCGATCTGCTCCACTGCAACTTCAGG
GAGATAAGGATTGTGGTTTCGATCTGCTCCACTGCAACTTCAAGGAGATAAGATCTGCTAACTTC
AATCTACTCCACTGCAACTTCAGGGAGATAAAACTTAGAAAATTTTATC
Found at i:32659195 original size:26 final size:26
Alignment explanation
Indices: 32659159--32659211 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
32659149 TGCGGAGGTG
32659159 AAAACCTCACAAAAGCATAGTTTCTT
1 AAAACCTCACAAAAGCATAGTTTCTT
32659185 AAAACCTCACAAAAGCATAGTTTCTT
1 AAAACCTCACAAAAGCATAGTTTCTT
32659211 A
1 A
32659212 CTCCCACTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.43, C:0.23, G:0.08, T:0.26
Consensus pattern (26 bp):
AAAACCTCACAAAAGCATAGTTTCTT
Found at i:32661176 original size:20 final size:20
Alignment explanation
Indices: 32661151--32661189 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
32661141 TTTCATTATT
*
32661151 GAACACCAAAATTAAATTGG
1 GAACACCAAAAGTAAATTGG
*
32661171 GAACACCGAAAGTAAATTG
1 GAACACCAAAAGTAAATTG
32661190 AAACTACCTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.49, C:0.15, G:0.18, T:0.18
Consensus pattern (20 bp):
GAACACCAAAAGTAAATTGG
Found at i:32663415 original size:3 final size:3
Alignment explanation
Indices: 32663409--32663485 Score: 113
Period size: 3 Copynumber: 26.0 Consensus size: 3
32663399 GCAGCAGCAA
*
32663409 AAG AAG AA- AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAA AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
*
32663456 AA- AAG AAG AAG AAA AAG AAG AAG AATG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AA-G AAG
32663486 CCACTTCACC
Statistics
Matches: 67, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
2 4 0.06
3 60 0.90
4 3 0.04
ACGTcount: A:0.70, C:0.00, G:0.29, T:0.01
Consensus pattern (3 bp):
AAG
Found at i:32663530 original size:21 final size:21
Alignment explanation
Indices: 32663506--32663545 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
32663496 AACGTGGCAA
32663506 GTTAACTTGCCACATCAGCTG
1 GTTAACTTGCCACATCAGCTG
*
32663527 GTTAACTTGCCACGTCAGC
1 GTTAACTTGCCACATCAGC
32663546 AATCCAGTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.28
Consensus pattern (21 bp):
GTTAACTTGCCACATCAGCTG
Found at i:32664929 original size:23 final size:25
Alignment explanation
Indices: 32664899--32664947 Score: 68
Period size: 23 Copynumber: 2.0 Consensus size: 25
32664889 AGGTGATTCA
32664899 AGTTTTCAG-T-TT-TTTTTTCTTTT
1 AGTTTTCAGATCTTGTTTTTT-TTTT
32664922 AGTTTTCAGATCTTGTTTTTTTTTT
1 AGTTTTCAGATCTTGTTTTTTTTTT
32664947 A
1 A
32664948 ATATTTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
23 9 0.39
24 1 0.04
25 7 0.30
26 6 0.26
ACGTcount: A:0.12, C:0.08, G:0.10, T:0.69
Consensus pattern (25 bp):
AGTTTTCAGATCTTGTTTTTTTTTT
Found at i:32671448 original size:37 final size:37
Alignment explanation
Indices: 32671407--32671480 Score: 121
Period size: 37 Copynumber: 2.0 Consensus size: 37
32671397 TATGAAAAGA
32671407 TTTTCACGTAAAATCTATGCATATTTTATTTTTCTTT
1 TTTTCACGTAAAATCTATGCATATTTTATTTTTCTTT
* **
32671444 TTTTCATGTAAAATCTATGTGTATTTTATTTTTCTTT
1 TTTTCACGTAAAATCTATGCATATTTTATTTTTCTTT
32671481 CTCATTGCTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.23, C:0.11, G:0.07, T:0.59
Consensus pattern (37 bp):
TTTTCACGTAAAATCTATGCATATTTTATTTTTCTTT
Found at i:32674075 original size:31 final size:31
Alignment explanation
Indices: 32674040--32674102 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
32674030 CTCAAAAGAC
*
32674040 TTTATTATGATAGATCGTAATAATAGTGATA
1 TTTATTATGATAGATCATAATAATAGTGATA
32674071 TTTATTATGATAGATCATAATAATAGTGATA
1 TTTATTATGATAGATCATAATAATAGTGATA
32674102 T
1 T
32674103 ATTCGAGATA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.40, C:0.03, G:0.14, T:0.43
Consensus pattern (31 bp):
TTTATTATGATAGATCATAATAATAGTGATA
Found at i:32684949 original size:12 final size:12
Alignment explanation
Indices: 32684932--32684964 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
32684922 TTTCCTGTAA
32684932 AATAGTAAAAAT
1 AATAGTAAAAAT
32684944 AATAGTAAAAAT
1 AATAGTAAAAAT
32684956 AATAGTAAA
1 AATAGTAAA
32684965 GGGGAAGTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.67, C:0.00, G:0.09, T:0.24
Consensus pattern (12 bp):
AATAGTAAAAAT
Found at i:32685882 original size:10 final size:10
Alignment explanation
Indices: 32685854--32685901 Score: 53
Period size: 10 Copynumber: 4.9 Consensus size: 10
32685844 TAAATTCTAA
32685854 AAAGATAAAT
1 AAAGATAAAT
* **
32685864 ACATTTAAAT
1 AAAGATAAAT
32685874 AAAGATAAAT
1 AAAGATAAAT
*
32685884 AAAGATAATT
1 AAAGATAAAT
32685894 AAA-ATAAA
1 AAAGATAAA
32685902 ATCCTAAATT
Statistics
Matches: 30, Mismatches: 8, Indels: 1
0.77 0.21 0.03
Matches are distributed among these distances:
9 4 0.13
10 26 0.87
ACGTcount: A:0.67, C:0.02, G:0.06, T:0.25
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:32685945 original size:15 final size:15
Alignment explanation
Indices: 32685925--32685954 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
32685915 ATAATCCTAA
*
32685925 TAATTATCTTAATAT
1 TAATTATCCTAATAT
32685940 TAATTATCCTAATAT
1 TAATTATCCTAATAT
32685955 AAATAAAATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (15 bp):
TAATTATCCTAATAT
Found at i:32687850 original size:25 final size:27
Alignment explanation
Indices: 32687813--32687865 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
32687803 TCAAACATGC
32687813 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
32687839 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
32687865 A
1 A
32687866 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:32692886 original size:14 final size:14
Alignment explanation
Indices: 32692859--32692892 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
32692849 TGAAAATAAT
*
32692859 AAAT-AATAAGATA
1 AAATAAATAAAATA
32692872 AAATAAATAAAATA
1 AAATAAATAAAATA
32692886 AAATAAA
1 AAATAAA
32692893 AATAAAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 4 0.21
14 15 0.79
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (14 bp):
AAATAAATAAAATA
Found at i:32695159 original size:18 final size:18
Alignment explanation
Indices: 32695136--32695176 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
32695126 TTTTCGTTCT
32695136 GCAATCGCCGAAAAGTTG
1 GCAATCGCCGAAAAGTTG
32695154 GCAATCGCCGAAAAGTTG
1 GCAATCGCCGAAAAGTTG
32695172 GCAAT
1 GCAAT
32695177 AGTAGGATAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.34, C:0.22, G:0.27, T:0.17
Consensus pattern (18 bp):
GCAATCGCCGAAAAGTTG
Found at i:32695642 original size:12 final size:12
Alignment explanation
Indices: 32695625--32695657 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
32695615 TTCCCTGTAA
32695625 AATAGTAAAAAT
1 AATAGTAAAAAT
32695637 AATAGTAAAAAT
1 AATAGTAAAAAT
32695649 AATAGTAAA
1 AATAGTAAA
32695658 GGGGAAGTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.67, C:0.00, G:0.09, T:0.24
Consensus pattern (12 bp):
AATAGTAAAAAT
Found at i:32696585 original size:20 final size:20
Alignment explanation
Indices: 32696547--32696594 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
32696537 TAAATTCTAA
* **
32696547 AAAGATAAATACATTTAATT
1 AAAGATAAATAAAGATAATT
32696567 AAAGATAAATAAAGATAATT
1 AAAGATAAATAAAGATAATT
32696587 AAA-ATAAA
1 AAAGATAAA
32696595 ATCCTAAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (20 bp):
AAAGATAAATAAAGATAATT
Found at i:32696638 original size:15 final size:15
Alignment explanation
Indices: 32696618--32696647 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
32696608 ATAATCCTAA
*
32696618 TAATTATCTTAATAT
1 TAATTATCCTAATAT
32696633 TAATTATCCTAATAT
1 TAATTATCCTAATAT
32696648 AAATAAAATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (15 bp):
TAATTATCCTAATAT
Found at i:32698519 original size:20 final size:20
Alignment explanation
Indices: 32698496--32698533 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
32698486 GTGAAAAAAA
*
32698496 ATATATTTCTTTAAAAATTT
1 ATATATTTATTTAAAAATTT
*
32698516 ATATATTTATTTATAAAT
1 ATATATTTATTTAAAAAT
32698534 AATTATATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (20 bp):
ATATATTTATTTAAAAATTT
Found at i:32702881 original size:23 final size:24
Alignment explanation
Indices: 32702854--32702908 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 24
32702844 TGAAAAAGAA
* *
32702854 AAAAAAATGACAACTATTTATA-T
1 AAAAAAATAACAACTATTTACATT
*
32702877 AAAAAAA-AAGAACTATTTACATT
1 AAAAAAATAACAACTATTTACATT
32702900 AAAAAAATA
1 AAAAAAATA
32702909 CTGTTTGAGG
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
22 11 0.41
23 15 0.56
24 1 0.04
ACGTcount: A:0.64, C:0.07, G:0.04, T:0.25
Consensus pattern (24 bp):
AAAAAAATAACAACTATTTACATT
Found at i:32702890 original size:22 final size:22
Alignment explanation
Indices: 32702865--32702906 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
32702855 AAAAAATGAC
*
32702865 AACTATTTATATAAAAAAAAAG
1 AACTATTTACATAAAAAAAAAG
*
32702887 AACTATTTACATTAAAAAAA
1 AACTATTTACATAAAAAAAA
32702907 TACTGTTTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.62, C:0.07, G:0.02, T:0.29
Consensus pattern (22 bp):
AACTATTTACATAAAAAAAAAG
Found at i:32704466 original size:23 final size:24
Alignment explanation
Indices: 32704424--32704476 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 24
32704414 AATTAAATAA
**
32704424 TAAAATAAAATTACTAAAATGTAC
1 TAAAATAAAATTACTAAAATAAAC
* *
32704448 TAAAATTAACTTA-TAAAATAAAC
1 TAAAATAAAATTACTAAAATAAAC
32704471 TAAAAT
1 TAAAAT
32704477 CCTACTAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
23 14 0.56
24 11 0.44
ACGTcount: A:0.60, C:0.08, G:0.02, T:0.30
Consensus pattern (24 bp):
TAAAATAAAATTACTAAAATAAAC
Found at i:32705417 original size:88 final size:88
Alignment explanation
Indices: 32705252--32705468 Score: 260
Period size: 88 Copynumber: 2.5 Consensus size: 88
32705242 TTCAATTTCC
* * *
32705252 AACAGGCTGAAG-ATATAGATCTTATCACCCTAAGCAGTAGGGAAACAGATCAAAGGCAACGAGC
1 AACAAGCTGAAGTTTATAGATCTTATCACCCTAAGCAGTAGGGAAACAGATCAAAGACAACGAGC
*
32705316 TTTAACCCCCTAAGCAATAGGGT
66 TTTAACCCCCTAAGCAATAGAGT
* * ** *
32705339 AACAAGCTGAAGTTTATAGATCTTATCACCCTAAGCAGTAGGGAAATAGATCGAAGATGATGAGC
1 AACAAGCTGAAGTTTATAGATCTTATCACCCTAAGCAGTAGGGAAACAGATCAAAGACAACGAGC
* *
32705404 TTTAACCCTCTAAGCAGTAGAGT
66 TTTAACCCCCTAAGCAATAGAGT
* * * * *
32705427 AACAAGC-CAAATTTACAGACCTTGA-CCCCCTAAGCAGTAGGG
1 AACAAGCTGAAGTTTATAGATCTT-ATCACCCTAAGCAGTAGGG
32705469 TAATGGGCTG
Statistics
Matches: 112, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
87 39 0.35
88 73 0.65
ACGTcount: A:0.37, C:0.21, G:0.21, T:0.21
Consensus pattern (88 bp):
AACAAGCTGAAGTTTATAGATCTTATCACCCTAAGCAGTAGGGAAACAGATCAAAGACAACGAGC
TTTAACCCCCTAAGCAATAGAGT
Found at i:32705768 original size:86 final size:85
Alignment explanation
Indices: 32705667--32705909 Score: 310
Period size: 86 Copynumber: 2.8 Consensus size: 85
32705657 AATTTTCAAA
* *
32705667 CCTTAAACCCCTAAGCAATAGGGTAACAGGCTGAATTTCCAAAT-TTAACCCCTTAAGCAGTAGG
1 CCTTAAACCCCTAAGCAATAGGGTAACAGGCTAAATTTCCAGATCTTAACCCC-TAAGCAGTAGG
32705731 GAAACAAATCGAAGACGAAGGG
65 G-AACAAATCGAAGACGAAGGG
* * * * *
32705753 CCTTAAACCCCTAAGCAATAGGGTAACAGACCAAA-TTGCAGATCTTATCTCCCTAAGCAATAGT
1 CCTTAAACCCCTAAGCAATAGGGTAACAGGCTAAATTTCCAGATCTTAAC-CCCTAAGCAGTAG-
* * *
32705817 GGAGCAGATCGAAGATGAAGGG
64 GGAACAAATCGAAGACGAAGGG
* *
32705839 CCTTAAACCCCTAAGCAGTAGGGTAACAGGCTAAATTTCTAGATCTTAACCCCCTAAGCAGTAGG
1 CCTTAAACCCCTAAGCAATAGGGTAACAGGCTAAATTTCCAGATCTTAA-CCCCTAAGCAGTAGG
32705904 GTAACA
65 G-AACA
32705910 GACCAAATTG
Statistics
Matches: 133, Mismatches: 18, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
85 6 0.05
86 96 0.72
87 30 0.23
88 1 0.01
ACGTcount: A:0.36, C:0.23, G:0.21, T:0.20
Consensus pattern (85 bp):
CCTTAAACCCCTAAGCAATAGGGTAACAGGCTAAATTTCCAGATCTTAACCCCTAAGCAGTAGGG
AACAAATCGAAGACGAAGGG
Found at i:32705893 original size:43 final size:42
Alignment explanation
Indices: 32705577--32706127 Score: 242
Period size: 43 Copynumber: 12.8 Consensus size: 42
32705567 TGAAGATTTA
* * * *
32705577 CAGATC-TAACCCCCTAAGCAGTATGGAAACAGATCGAAAGTG
1 CAGATCTTAACCCCCTAAGCAGTAGGGTAACAGA-CCAAATTG
* * * * *
32705619 -ATAGGCTTCAACCCCCTGAGCAATAGGGTAACA-AGCCAAATTTT
1 CAGA-TCTT-AACCCCCTAAGCAGTAGGGTAACAGA-CCAAA-TTG
* * * * * * * *
32705663 CAAACCTTAAACCCCTAAGCAATAGGGTAACAGGCTGAATTTC
1 CAGATCTTAACCCCCTAAGCAGTAGGGTAACAGAC-CAAATTG
* * * * * *
32705706 CAAAT-TTAACCCCTTAAGCAGTAGGGAAACAAATCGAAGA-CG
1 CAGATCTTAACCCCCTAAGCAGTAGGGTAACAGA-CCAA-ATTG
* ** * *
32705748 AAGGGCCTTAAACCCCTAAGCAATAGGGTAACAGACCAAATTG
1 CA-GATCTTAACCCCCTAAGCAGTAGGGTAACAGACCAAATTG
* * * * *
32705791 CAGATCTTATCTCCCTAAGCAATAGTGG-AGCAGATCGAAGA-TG
1 CAGATCTTAACCCCCTAAGCAGTAG-GGTAACAGA-CCAA-ATTG
* ** * * * *
32705834 AAGGGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTAAATTT
1 CA-GATCTTAACCCCCTAAGCAGTAGGGTAACAGACCAAATTG
32705877 CTAGATCTTAACCCCCTAAGCAGTAGGGTAACAGACCAAATTG
1 C-AGATCTTAACCCCCTAAGCAGTAGGGTAACAGACCAAATTG
* * * ** * *
32705920 CAGATCTTATCTCCCTCAGCAGTAGTGG-AGTAGATCGAAGA-CG
1 CAGATCTTAACCCCCTAAGCAGTAG-GGTAACAGA-CCAA-ATTG
* * *
32705963 AAGGGTCTTGAACCCCCTAAGCAGTAGGGTAATAGACCAAATTG
1 CA-GATCTT-AACCCCCTAAGCAGTAGGGTAACAGACCAAATTG
* * * * *
32706007 CAGATCTTATCTCCCTAAGCAGTAGTGG-AGCAGATCGAAGA-CG
1 CAGATCTTAACCCCCTAAGCAGTAG-GGTAACAGA-CCAA-ATTG
* * * * * * *
32706050 AAAGGTCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTC
1 -CAGATCTTAACCCCCTAAGCAGTAGGGTAACAGAC-CAAATTG
*
32706094 CAGATCTTAACCCCCTAAGCAGTAGGGAAACAGA
1 CAGATCTTAACCCCCTAAGCAGTAGGGTAACAGA
32706128 TCGAAGACGA
Statistics
Matches: 373, Mismatches: 103, Indels: 65
0.69 0.19 0.12
Matches are distributed among these distances:
41 2 0.01
42 96 0.26
43 141 0.38
44 113 0.30
45 21 0.06
ACGTcount: A:0.35, C:0.23, G:0.22, T:0.20
Consensus pattern (42 bp):
CAGATCTTAACCCCCTAAGCAGTAGGGTAACAGACCAAATTG
Found at i:32706012 original size:129 final size:129
Alignment explanation
Indices: 32705754--32706031 Score: 414
Period size: 129 Copynumber: 2.2 Consensus size: 129
32705744 GACGAAGGGC
* *
32705754 CTTAAACCCCTAAGCAATAGGGTAACAGACCAAATTGCAGATCTTATCTCCCTAAGCAATAGTGG
1 CTTAACCCCCTAAGCAGTAGGGTAACAGACCAAATTGCAGATCTTATCTCCCTAAGCAATAGTGG
* * * *
32705819 AGCAGATCGAAGATGAAGGGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTAAATTTCTAGAT
66 AGCAGATCGAAGACGAAGGGCCTTAAACCCCTAAGCAGTAGGGTAACAGACCAAATTGCTAGAT
* *
32705883 CTTAACCCCCTAAGCAGTAGGGTAACAGACCAAATTGCAGATCTTATCTCCCTCAGCAGTAGTGG
1 CTTAACCCCCTAAGCAGTAGGGTAACAGACCAAATTGCAGATCTTATCTCCCTAAGCAATAGTGG
* * * *
32705948 AGTAGATCGAAGACGAAGGGTCTTGAACCCCCTAAGCAGTAGGGTAATAGACCAAATTGC-AGAT
66 AGCAGATCGAAGACGAAGGGCCTT-AAACCCCTAAGCAGTAGGGTAACAGACCAAATTGCTAGAT
* *
32706012 CTTATCTCCCTAAGCAGTAG
1 CTTAACCCCCTAAGCAGTAG
32706032 TGGAGCAGAT
Statistics
Matches: 134, Mismatches: 14, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
129 104 0.78
130 30 0.22
ACGTcount: A:0.33, C:0.23, G:0.22, T:0.22
Consensus pattern (129 bp):
CTTAACCCCCTAAGCAGTAGGGTAACAGACCAAATTGCAGATCTTATCTCCCTAAGCAATAGTGG
AGCAGATCGAAGACGAAGGGCCTTAAACCCCTAAGCAGTAGGGTAACAGACCAAATTGCTAGAT
Found at i:32706041 original size:216 final size:215
Alignment explanation
Indices: 32705738--32706127 Score: 672
Period size: 216 Copynumber: 1.8 Consensus size: 215
32705728 AGGGAAACAA
32705738 ATCGAAGACGAAGGGCCTTAAACCCCTAAGCAATAGGGTAACAGACCAAATTGCAGATCTTATCT
1 ATCGAAGACGAAGGGCCTTAAACCCCTAAGCAATAGGGTAACAGACCAAATTGCAGATCTTATCT
* *
32705803 CCCTAAGCAATAGTGGAGCAGATCGAAGATGAAGGGCCTTAAACCCCTAAGCAGTAGGGTAACAG
66 CCCTAAGCAATAGTGGAGCAGATCGAAGACGAAAGGCCTTAAACCCCTAAGCAGTAGGGTAACAG
* *
32705868 GCTAAATTTCTAGATCTTAACCCCCTAAGCAGTAGGGTAACAGACCAAATTGCAGATCTTATCTC
131 GCTAAATTTCCAGATCTTAACCCCCTAAGCAGTAGGGAAACAGACCAAATTGCAGATCTTATCTC
32705933 CCTCAGCAGTAGTGGAGTAG
196 CCTCAGCAGTAGTGGAGTAG
* * * *
32705953 ATCGAAGACGAAGGGTCTTGAACCCCCTAAGCAGTAGGGTAATAGACCAAATTGCAGATCTTATC
1 ATCGAAGACGAAGGGCCTT-AAACCCCTAAGCAATAGGGTAACAGACCAAATTGCAGATCTTATC
* *
32706018 TCCCTAAGCAGTAGTGGAGCAGATCGAAGACGAAAGGTCTTAAACCCCTAAGCAGTAGGGTAACA
65 TCCCTAAGCAATAGTGGAGCAGATCGAAGACGAAAGGCCTTAAACCCCTAAGCAGTAGGGTAACA
*
32706083 GGCTGAATTTCCAGATCTTAACCCCCTAAGCAGTAGGGAAACAGA
130 GGCTAAATTTCCAGATCTTAACCCCCTAAGCAGTAGGGAAACAGA
32706128 TCGAAGACGA
Statistics
Matches: 163, Mismatches: 11, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
215 18 0.11
216 145 0.89
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.20
Consensus pattern (215 bp):
ATCGAAGACGAAGGGCCTTAAACCCCTAAGCAATAGGGTAACAGACCAAATTGCAGATCTTATCT
CCCTAAGCAATAGTGGAGCAGATCGAAGACGAAAGGCCTTAAACCCCTAAGCAGTAGGGTAACAG
GCTAAATTTCCAGATCTTAACCCCCTAAGCAGTAGGGAAACAGACCAAATTGCAGATCTTATCTC
CCTCAGCAGTAGTGGAGTAG
Found at i:32706074 original size:44 final size:44
Alignment explanation
Indices: 32706019--32706164 Score: 138
Period size: 44 Copynumber: 3.3 Consensus size: 44
32706009 GATCTTATCT
*
32706019 CCCTAAGCAGTAGTGG-AGCAGATCGAAGACGAAAGGTCTTAAAC
1 CCCTAAGCAGTAG-GGAAACAGATCGAAGACGAAAGGTCTTAAAC
* * ** * * *
32706063 CCCTAAGCAGTAGGGTAACAG-GCTGAATTTC--CAGATCTTAACC
1 CCCTAAGCAGTAGGGAAACAGATC-GAA-GACGAAAGGTCTTAAAC
** *
32706106 CCCTAAGCAGTAGGGAAACAGATCGAAGACGATGGGCCTTAAAC
1 CCCTAAGCAGTAGGGAAACAGATCGAAGACGAAAGGTCTTAAAC
32706150 CCCTAAGCAGTAGGG
1 CCCTAAGCAGTAGGG
32706165 TACCAGGCTG
Statistics
Matches: 80, Mismatches: 16, Indels: 12
0.74 0.15 0.11
Matches are distributed among these distances:
42 1 0.01
43 35 0.44
44 43 0.54
45 1 0.01
ACGTcount: A:0.34, C:0.23, G:0.26, T:0.17
Consensus pattern (44 bp):
CCCTAAGCAGTAGGGAAACAGATCGAAGACGAAAGGTCTTAAAC
Found at i:32706176 original size:87 final size:86
Alignment explanation
Indices: 32705882--32706166 Score: 401
Period size: 87 Copynumber: 3.3 Consensus size: 86
32705872 AATTTCTAGA
* *
32705882 TCTTAACCCCCTAAGCAGTAGGGTAACAGACCAAATTGCAGATCTTATCTCCCTCAGCAGTAGTG
1 TCTTAAACCCCTAAGCAGTAGGGTAACAGACCAAATTGCAGATCTTATCTCCCTAAGCAGTAGTG
*
32705947 GAGTAGATCGAAGACGAAGGG
66 GAGCAGATCGAAGACGAAGGG
* *
32705968 TCTTGAACCCCCTAAGCAGTAGGGTAATAGACCAAATTGCAGATCTTATCTCCCTAAGCAGTAGT
1 TCTT-AAACCCCTAAGCAGTAGGGTAACAGACCAAATTGCAGATCTTATCTCCCTAAGCAGTAGT
*
32706033 GGAGCAGATCGAAGACGAAAGG
65 GGAGCAGATCGAAGACGAAGGG
* * * * * *
32706055 TCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTCCAGATCTTAACCCCCTAAGCAGTAG-
1 TCTTAAACCCCTAAGCAGTAGGGTAACAGAC-CAAATTGCAGATCTTATCTCCCTAAGCAGTAGT
* *
32706119 GGAAACAGATCGAAGACGATGGG
65 GG-AGCAGATCGAAGACGAAGGG
*
32706142 CCTTAAACCCCTAAGCAGTAGGGTA
1 TCTTAAACCCCTAAGCAGTAGGGTA
32706167 CCAGGCTGAA
Statistics
Matches: 180, Mismatches: 16, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
86 30 0.17
87 150 0.83
ACGTcount: A:0.33, C:0.23, G:0.24, T:0.20
Consensus pattern (86 bp):
TCTTAAACCCCTAAGCAGTAGGGTAACAGACCAAATTGCAGATCTTATCTCCCTAAGCAGTAGTG
GAGCAGATCGAAGACGAAGGG
Found at i:32707202 original size:20 final size:21
Alignment explanation
Indices: 32707177--32707221 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
32707167 GGTTTATTGT
32707177 TTTTTTATT-TCTTTTCTTCC
1 TTTTTTATTATCTTTTCTTCC
* *
32707197 TTTTTTATTATTTTTTCTTTC
1 TTTTTTATTATCTTTTCTTCC
32707218 TTTT
1 TTTT
32707222 CTAAACTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 9 0.41
21 13 0.59
ACGTcount: A:0.07, C:0.13, G:0.00, T:0.80
Consensus pattern (21 bp):
TTTTTTATTATCTTTTCTTCC
Done.