Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D08
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: 65987480
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 223646 characters in sequence are not A, C, G, or T
File 79 of 211
Found at i:24497865 original size:11 final size:11
Alignment explanation
Indices: 24497849--24497874 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
24497839 CTTTTTCTTC
24497849 TTTCTCCCCTG
1 TTTCTCCCCTG
24497860 TTTCTCCCCTG
1 TTTCTCCCCTG
24497871 TTTC
1 TTTC
24497875 GTCTCTTCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.00, C:0.42, G:0.08, T:0.50
Consensus pattern (11 bp):
TTTCTCCCCTG
Found at i:24503642 original size:26 final size:26
Alignment explanation
Indices: 24503611--24503662 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
24503601 CGCTAAGTTT
24503611 GTCACTATGCCATTTAAAAATACATA
1 GTCACTATGCCATTTAAAAATACATA
24503637 GTCACTATGCCATTTAAAAATACATA
1 GTCACTATGCCATTTAAAAATACATA
24503663 AATTTATCCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.42, C:0.19, G:0.08, T:0.31
Consensus pattern (26 bp):
GTCACTATGCCATTTAAAAATACATA
Found at i:24504045 original size:14 final size:16
Alignment explanation
Indices: 24504012--24504049 Score: 53
Period size: 14 Copynumber: 2.5 Consensus size: 16
24504002 GGTAAGAAAA
24504012 AATTATTAAATTACTT
1 AATTATTAAATTACTT
*
24504028 AATT-TTAAA-TAGTT
1 AATTATTAAATTACTT
24504042 AATTATTA
1 AATTATTA
24504050 TGTTGTTAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
14 8 0.40
15 8 0.40
16 4 0.20
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.50
Consensus pattern (16 bp):
AATTATTAAATTACTT
Found at i:24504067 original size:24 final size:24
Alignment explanation
Indices: 24504039--24504093 Score: 110
Period size: 24 Copynumber: 2.3 Consensus size: 24
24504029 ATTTTAAATA
24504039 GTTAATTATTATGTTGTTAACATT
1 GTTAATTATTATGTTGTTAACATT
24504063 GTTAATTATTATGTTGTTAACATT
1 GTTAATTATTATGTTGTTAACATT
24504087 GTTAATT
1 GTTAATT
24504094 TTTCATGTCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.29, C:0.04, G:0.13, T:0.55
Consensus pattern (24 bp):
GTTAATTATTATGTTGTTAACATT
Found at i:24507947 original size:13 final size:13
Alignment explanation
Indices: 24507927--24507982 Score: 67
Period size: 13 Copynumber: 4.3 Consensus size: 13
24507917 TGATACTCTA
24507927 TTTTCAAGATATG
1 TTTTCAAGATATG
* *
24507940 TTTCCAAGTTATG
1 TTTTCAAGATATG
* *
24507953 TTTTTAAGCTATG
1 TTTTCAAGATATG
*
24507966 TTTTAAAGATATG
1 TTTTCAAGATATG
24507979 TTTT
1 TTTT
24507983 ATGCACAATT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
13 36 1.00
ACGTcount: A:0.27, C:0.07, G:0.14, T:0.52
Consensus pattern (13 bp):
TTTTCAAGATATG
Found at i:24508039 original size:14 final size:13
Alignment explanation
Indices: 24508004--24508052 Score: 53
Period size: 14 Copynumber: 3.6 Consensus size: 13
24507994 TATGTGAGCC
*
24508004 TATGATTTAAAAG
1 TATGTTTTAAAAG
*
24508017 CATGTTTTAAAAG
1 TATGTTTTAAAAG
*
24508030 TATAGTTTTATAAG
1 TAT-GTTTTAAAAG
24508044 CTATGTTTT
1 -TATGTTTT
24508053 TGCTAGCTCT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
13 13 0.43
14 14 0.47
15 3 0.10
ACGTcount: A:0.35, C:0.04, G:0.14, T:0.47
Consensus pattern (13 bp):
TATGTTTTAAAAG
Found at i:24525240 original size:43 final size:43
Alignment explanation
Indices: 24525192--24525328 Score: 120
Period size: 43 Copynumber: 3.2 Consensus size: 43
24525182 CAACCGAGGG
24525192 AGGCAAGGCTTTGTTTTTGATCTGCTTCGCTGTTAACGCAGGA
1 AGGCAAGGCTTTGTTTTTGATCTGCTTCGCTGTTAACGCAGGA
* * * * * * *
24525235 AGGCAA-GATCTGCTATCTTTGACCAGCTCCACTG-TAAC-C-GATA
1 AGGCAAGGCTTTG-T-T-TTTGATCTGCTTCGCTGTTAACGCAG-GA
**
24525278 GAGGCAAGGCTTTGTTTTCAATCTGCTTCGCTGTTAACGCAGGA
1 -AGGCAAGGCTTTGTTTTTGATCTGCTTCGCTGTTAACGCAGGA
24525322 AGGCAAG
1 AGGCAAG
24525329 ATCTGCTATC
Statistics
Matches: 69, Mismatches: 16, Indels: 18
0.67 0.16 0.17
Matches are distributed among these distances:
42 16 0.23
43 21 0.30
44 14 0.20
45 18 0.26
ACGTcount: A:0.23, C:0.22, G:0.26, T:0.29
Consensus pattern (43 bp):
AGGCAAGGCTTTGTTTTTGATCTGCTTCGCTGTTAACGCAGGA
Found at i:24525240 original size:87 final size:87
Alignment explanation
Indices: 24525120--24525427 Score: 420
Period size: 87 Copynumber: 3.5 Consensus size: 87
24525110 ACTTGTAATC
* * * * *
24525120 TTCGATCTGCTTCACTATTGATGCAGGAGGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAA
1 TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAA
**
24525185 CCGAGGGAGGCAAGGCTTTGTT
66 CCGATAGAGGCAAGGCTTTGTT
* * *
24525207 TTTGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTGACCAGCTCCACTGTAA
1 TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAA
24525272 CCGATAGAGGCAAGGCTTTGTT
66 CCGATAGAGGCAAGGCTTTGTT
* ** * * *
24525294 TTCAATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAAAGAACTCCATTACAA
1 TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAA
24525359 CCGATAGAGGCAAGGC-TTGTAT
66 CCGATAGAGGCAAGGCTTTGT-T
* * * *
24525381 CTCGATCTGCTTCGCTGTCAATGTAGGAAGGCAAGATCTGCTATCTT
1 TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTT
24525428 CACTGATCTG
Statistics
Matches: 196, Mismatches: 24, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
86 4 0.02
87 192 0.98
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.29
Consensus pattern (87 bp):
TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAA
CCGATAGAGGCAAGGCTTTGTT
Found at i:24525285 original size:44 final size:43
Alignment explanation
Indices: 24525144--24525285 Score: 112
Period size: 45 Copynumber: 3.2 Consensus size: 43
24525134 CTATTGATGC
* *
24525144 AGGAGGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCG
1 AGGA-GGCAAGATCTGCTATCTTTGACCAGCTCCACTGTAACCG
* * * * * *
24525188 AGGGAGGCAAGGCTTTG-T-T-TTTGATCTGCTTCGCTGTTAA-CG
1 A-GGAGGCAA-GATCTGCTATCTTTGACCAGCTCCACTG-TAACCG
24525230 CAGGAAGGCAAGATCTGCTATCTTTGACCAGCTCCACTGTAACCG
1 -AGG-AGGCAAGATCTGCTATCTTTGACCAGCTCCACTGTAACCG
*
24525275 ATAGAGGCAAG
1 A-GGAGGCAAG
24525286 GCTTTGTTTT
Statistics
Matches: 73, Mismatches: 15, Indels: 20
0.68 0.14 0.19
Matches are distributed among these distances:
42 20 0.27
43 11 0.15
44 19 0.26
45 23 0.32
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (43 bp):
AGGAGGCAAGATCTGCTATCTTTGACCAGCTCCACTGTAACCG
Found at i:24526668 original size:13 final size:14
Alignment explanation
Indices: 24526642--24526675 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
24526632 TTAGCCTCTC
*
24526642 CATTTTTACTTTTT
1 CATTTTTACATTTT
24526656 CATTTTT-CATTTT
1 CATTTTTACATTTT
24526669 CATTTTT
1 CATTTTT
24526676 TTTGAATTGG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 12 0.63
14 7 0.37
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.71
Consensus pattern (14 bp):
CATTTTTACATTTT
Found at i:24527571 original size:29 final size:27
Alignment explanation
Indices: 24527518--24527593 Score: 89
Period size: 28 Copynumber: 2.7 Consensus size: 27
24527508 TCTTTTCATA
*
24527518 TTTTATTTTGATTTTGATTGATTTCTCT
1 TTTTATTTTGATTTTGATTCATTTCT-T
* *
24527546 TTTTACTTTTGACTTTGATTCTTTTCTT
1 TTTTA-TTTTGATTTTGATTCATTTCTT
*
24527574 TTCTTTTTTTGATTTTGATT
1 TT-TTATTTTGATTTTGATT
24527594 TTGATTTTGA
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
28 21 0.51
29 20 0.49
ACGTcount: A:0.12, C:0.09, G:0.09, T:0.70
Consensus pattern (27 bp):
TTTTATTTTGATTTTGATTCATTTCTT
Found at i:24527603 original size:18 final size:17
Alignment explanation
Indices: 24527580--24527618 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 17
24527570 TCTTTTCTTT
24527580 TTTTGATTTTGATTTTGA
1 TTTTGATTTT-ATTTTGA
*
24527598 TTTTGATTTTTTTTTGA
1 TTTTGATTTTATTTTGA
24527615 TTTT
1 TTTT
24527619 TTTTTGTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 10 0.50
18 10 0.50
ACGTcount: A:0.13, C:0.00, G:0.13, T:0.74
Consensus pattern (17 bp):
TTTTGATTTTATTTTGA
Found at i:24527619 original size:12 final size:12
Alignment explanation
Indices: 24527586--24527623 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
24527576 CTTTTTTTGA
**
24527586 TTTTGATTTTGA
1 TTTTGATTTTTT
24527598 TTTTGA-TTTTT
1 TTTTGATTTTTT
24527609 TTTTGATTTTTT
1 TTTTGATTTTTT
24527621 TTT
1 TTT
24527624 GTTTTTTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
11 9 0.39
12 14 0.61
ACGTcount: A:0.11, C:0.00, G:0.11, T:0.79
Consensus pattern (12 bp):
TTTTGATTTTTT
Found at i:24527628 original size:10 final size:11
Alignment explanation
Indices: 24527586--24527630 Score: 65
Period size: 11 Copynumber: 4.1 Consensus size: 11
24527576 CTTTTTTTGA
*
24527586 TTTTGATTTTGA
1 TTTTGATTTT-T
24527598 TTTTGATTTTT
1 TTTTGATTTTT
24527609 TTTTGATTTTT
1 TTTTGATTTTT
24527620 TTTTG-TTTTT
1 TTTTGATTTTT
24527630 T
1 T
24527631 AATCTGAACC
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
10 6 0.19
11 16 0.50
12 10 0.31
ACGTcount: A:0.09, C:0.00, G:0.11, T:0.80
Consensus pattern (11 bp):
TTTTGATTTTT
Found at i:24527629 original size:6 final size:6
Alignment explanation
Indices: 24527580--24527618 Score: 62
Period size: 6 Copynumber: 6.7 Consensus size: 6
24527570 TCTTTTCTTT
*
24527580 TTTTGA TTTTGA TTTTGA TTTTGA TTTT-T TTTTGA TTTT
1 TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTT
24527619 TTTTTGTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
5 4 0.13
6 26 0.87
ACGTcount: A:0.13, C:0.00, G:0.13, T:0.74
Consensus pattern (6 bp):
TTTTGA
Found at i:24535549 original size:12 final size:12
Alignment explanation
Indices: 24535532--24535564 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
24535522 GGGCCACACA
*
24535532 CCCGTGTCCTTG
1 CCCGTGTCCTAG
24535544 CCCGTGTCCTAG
1 CCCGTGTCCTAG
24535556 CCCGTGTCC
1 CCCGTGTCC
24535565 AAACTAGTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.03, C:0.45, G:0.24, T:0.27
Consensus pattern (12 bp):
CCCGTGTCCTAG
Found at i:24541446 original size:20 final size:21
Alignment explanation
Indices: 24541404--24541446 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 21
24541394 TAGATTATTC
*
24541404 AACAGGTAAGAAAATGAACGG
1 AACAGGTAAGAAAATCAACGG
* *
24541425 AACA-GTAAGTAAATCAATGG
1 AACAGGTAAGAAAATCAACGG
24541445 AA
1 AA
24541447 ATATGCATGA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.53, C:0.09, G:0.23, T:0.14
Consensus pattern (21 bp):
AACAGGTAAGAAAATCAACGG
Found at i:24547908 original size:26 final size:24
Alignment explanation
Indices: 24547879--24547927 Score: 62
Period size: 26 Copynumber: 2.0 Consensus size: 24
24547869 CACTTTAATT
24547879 TGTCTAAACAATAGACACAATTAAAG
1 TGTCTAAACAA-AGAC-CAATTAAAG
* *
24547905 TGTCTGAACTAAGACCAATTAAA
1 TGTCTAAACAAAGACCAATTAAA
24547928 CACATAATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 8 0.38
25 4 0.19
26 9 0.43
ACGTcount: A:0.47, C:0.16, G:0.12, T:0.24
Consensus pattern (24 bp):
TGTCTAAACAAAGACCAATTAAAG
Found at i:24549866 original size:18 final size:20
Alignment explanation
Indices: 24549829--24549873 Score: 58
Period size: 18 Copynumber: 2.3 Consensus size: 20
24549819 ATTGAAGGTC
*
24549829 ATAAAATGTGAATAATAAAAT
1 ATAAAATGT-AATAAAAAAAT
24549850 -TAAAATGT-ATAAAAAAAT
1 ATAAAATGTAATAAAAAAAT
24549868 ATAAAA
1 ATAAAA
24549874 GAAAATTTAG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 9 0.41
19 5 0.23
20 8 0.36
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.27
Consensus pattern (20 bp):
ATAAAATGTAATAAAAAAAT
Found at i:24556525 original size:7 final size:7
Alignment explanation
Indices: 24556515--24556545 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
24556505 TTTTAATTTT
24556515 TTATAGA
1 TTATAGA
24556522 TTATAGA
1 TTATAGA
24556529 TTATAGA
1 TTATAGA
24556536 TTATAGA
1 TTATAGA
24556543 TTA
1 TTA
24556546 CAAATATAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.42, C:0.00, G:0.13, T:0.45
Consensus pattern (7 bp):
TTATAGA
Found at i:24564184 original size:15 final size:16
Alignment explanation
Indices: 24564146--24564192 Score: 51
Period size: 15 Copynumber: 2.9 Consensus size: 16
24564136 TAACAAAGTA
**
24564146 TAAAAATTATTATTTT
1 TAAAAATTATTAAATT
*
24564162 TAATAATT-TTAAATT
1 TAAAAATTATTAAATT
24564177 TAAAAATTAATTAAAT
1 TAAAAATT-ATTAAAT
24564193 GTTGACATGT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
15 12 0.48
16 7 0.28
17 6 0.24
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
TAAAAATTATTAAATT
Found at i:24565801 original size:10 final size:9
Alignment explanation
Indices: 24565779--24565812 Score: 59
Period size: 9 Copynumber: 3.7 Consensus size: 9
24565769 AACAAAACAG
24565779 AAAAATTTT
1 AAAAATTTT
24565788 AAAAATTTT
1 AAAAATTTT
24565797 AAAAATTTT
1 AAAAATTTT
24565806 AGAAAAT
1 A-AAAAT
24565813 AGGGGTCACA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 19 0.79
10 5 0.21
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (9 bp):
AAAAATTTT
Found at i:24568747 original size:198 final size:197
Alignment explanation
Indices: 24568407--24568798 Score: 667
Period size: 198 Copynumber: 2.0 Consensus size: 197
24568397 ACACCAAGAT
* * *
24568407 TAATATTTCTAACCTTTCTTTGGGTAGAATACCAAACGTTTATGCCATAAGTAAGCAGAATTTTC
1 TAATATTTCTAACCTTTCTTTGGGTACAAGACCAAACGTTTATGCCACAAGTAAGCAGAATTTTC
*
24568472 ATTTAGCATACTATGCTTAATTCCAACATGATATGATCAATAAGTAAGGATTCCACAAAGACATT
66 ATTTAGCATACTATGCTTAATTCCAACATGATATGATCAACAAGTAAGGATTCCACAAAGACATT
*
24568537 ATCAAGTTTCAATTTATATAAACCATCAATAAGACTTCCTGAACCTAAGAAAAGTATTATTCTTT
131 ATCAAGTTTCAATTTAGATAAACCATCAATAAGACTTCCTGAACCTAAGAAAAGTATTATTCTTT
24568602 AC
196 AC
* * *
24568604 TAATATTTTTAACCTTTCTTTGGGTACAAGACCCAAACGTTTATGCCACAAGTACGCGGAATTTT
1 TAATATTTCTAACCTTTCTTTGGGTACAAGA-CCAAACGTTTATGCCACAAGTAAGCAGAATTTT
* *
24568669 TATTTAGCATACTATGCTTAATTCCAACATGATATGATCAACAAGTAAGGATTCCATAAAGACAT
65 CATTTAGCATACTATGCTTAATTCCAACATGATATGATCAACAAGTAAGGATTCCACAAAGACAT
* *
24568734 TATCAATTTTCAATTTAGATAAACCATCAATAAGACTTCCTGAACCTAAGAAAATTATTATTCTT
130 TATCAAGTTTCAATTTAGATAAACCATCAATAAGACTTCCTGAACCTAAGAAAAGTATTATTCTT
24568799 AAATAAACTA
Statistics
Matches: 182, Mismatches: 12, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
197 28 0.15
198 154 0.85
ACGTcount: A:0.37, C:0.18, G:0.11, T:0.34
Consensus pattern (197 bp):
TAATATTTCTAACCTTTCTTTGGGTACAAGACCAAACGTTTATGCCACAAGTAAGCAGAATTTTC
ATTTAGCATACTATGCTTAATTCCAACATGATATGATCAACAAGTAAGGATTCCACAAAGACATT
ATCAAGTTTCAATTTAGATAAACCATCAATAAGACTTCCTGAACCTAAGAAAAGTATTATTCTTT
AC
Found at i:24570658 original size:73 final size:73
Alignment explanation
Indices: 24570556--24570741 Score: 230
Period size: 73 Copynumber: 2.5 Consensus size: 73
24570546 CTTTAAAAGT
* * * * *
24570556 AAAAGAATAAATAAGTGAA-TAAATAGATAAAACAAATGTAAACAATATTAAATTTAACCATTTG
1 AAAATAATAAATAAAT-AAGTAAATAGATAAAATAAATATAAACAATATTAAATTTAAACATTTG
24570620 AAAAGTAAA
65 AAAAGTAAA
* * * * *
24570629 AAAATAATAAATAAATAAGTAAATAGATAAAGTAAATATTAATAATATTAAATTTAAATATTTTA
1 AAAATAATAAATAAATAAGTAAATAGATAAAATAAATATAAACAATATTAAATTTAAACATTTGA
24570694 AAAGTAAA
66 AAAGTAAA
* * * *
24570702 AGAATGATAAATAAATGAGTAAATAAATAAAATAAATATA
1 AAAATAATAAATAAATAAGTAAATAGATAAAATAAATATA
24570742 TAGCATTAAA
Statistics
Matches: 96, Mismatches: 16, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
72 2 0.02
73 94 0.98
ACGTcount: A:0.62, C:0.02, G:0.08, T:0.28
Consensus pattern (73 bp):
AAAATAATAAATAAATAAGTAAATAGATAAAATAAATATAAACAATATTAAATTTAAACATTTGA
AAAGTAAA
Found at i:24570663 original size:13 final size:12
Alignment explanation
Indices: 24570622--24570666 Score: 56
Period size: 11 Copynumber: 3.8 Consensus size: 12
24570612 ACCATTTGAA
*
24570622 AAGTAAAAAAAT
1 AAGTAAATAAAT
24570634 AA-TAAATAAAT
1 AAGTAAATAAAT
*
24570645 AAGTAAATAGAT
1 AAGTAAATAAAT
24570657 AAAGTAAATA
1 -AAGTAAATA
24570667 TTAATAATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
11 10 0.34
12 10 0.34
13 9 0.31
ACGTcount: A:0.69, C:0.00, G:0.09, T:0.22
Consensus pattern (12 bp):
AAGTAAATAAAT
Found at i:24572523 original size:44 final size:43
Alignment explanation
Indices: 24572467--24572677 Score: 174
Period size: 44 Copynumber: 4.8 Consensus size: 43
24572457 AGAATTTGTC
* *
24572467 TCTTCAATCTACTCCACTACATCTTCAGGGAGATAAGATTAGTA
1 TCTTC-ATCTACTCCACTGCAACTTCAGGGAGATAAGATTAGTA
* * * *
24572511 ACTTCATCCTACTCCACTGCATCTTCAGAGAGATAAGGTTTA-TA
1 TCTTCAT-CTACTCCACTGCAACTTCAGGGAGATAA-GATTAGTA
* * * * ** * *
24572555 GCTTTAATCTGCTCTACTATAACTTCAGAGAGATAAGATTTGCTA
1 TC-TTCATCTACTCCACTGCAACTTCAGGGAGATAAGATTAG-TA
* *
24572600 TCTTCAGTCTTCTCCACTGCAACTTCAAGGAGATAAGACTT-GTA
1 TCTTCA-TCTACTCCACTGCAACTTCAGGGAGATAAGA-TTAGTA
* *
24572644 TCTTCAATCTGCCCCACTGCAACTTCAGGGAGAT
1 TCTTC-ATCTACTCCACTGCAACTTCAGGGAGAT
24572678 TCGATTGTAA
Statistics
Matches: 135, Mismatches: 24, Indels: 16
0.77 0.14 0.09
Matches are distributed among these distances:
43 5 0.04
44 90 0.67
45 38 0.28
46 2 0.01
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.32
Consensus pattern (43 bp):
TCTTCATCTACTCCACTGCAACTTCAGGGAGATAAGATTAGTA
Found at i:24572653 original size:89 final size:88
Alignment explanation
Indices: 24572440--24572677 Score: 232
Period size: 89 Copynumber: 2.7 Consensus size: 88
24572430 TCTAACCCAG
* * * * *
24572440 TGCAACTTCAGAG-G-TATAGAATTTGTCTCTTCAATCTACTCCACTACATCTTCAGGGAGATAA
1 TGCAACTTCAGAGAGATA-AG-ACTTGTATCTTCAATCTGCTCCACTACAACTTCAGAGAGATAA
24572503 GATTAGTAACTTCATCCTACTCCAC
64 GATTAGTAACTTCATCCTACTCCAC
* ** * * * * *
24572528 TGCATCTTCAGAGAGATAAGGTTTATAGCTTTAATCTGCTCTACTATAACTTCAGAGAGATAAGA
1 TGCAACTTCAGAGAGATAAGACTTGTATCTTCAATCTGCTCCACTACAACTTCAGAGAGATAAGA
* * *
24572593 TTTGCTATCTTCAGT-CTTCTCCAC
66 TTAG-TAACTTCA-TCCTACTCCAC
* * *
24572617 TGCAACTTCA-AGGAGATAAGACTTGTATCTTCAATCTGCCCCACTGCAACTTCAGGGAGAT
1 TGCAACTTCAGA-GAGATAAGACTTGTATCTTCAATCTGCTCCACTACAACTTCAGAGAGAT
24572678 TCGATTGTAA
Statistics
Matches: 120, Mismatches: 25, Indels: 9
0.78 0.16 0.06
Matches are distributed among these distances:
88 51 0.43
89 66 0.55
90 3 0.03
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.32
Consensus pattern (88 bp):
TGCAACTTCAGAGAGATAAGACTTGTATCTTCAATCTGCTCCACTACAACTTCAGAGAGATAAGA
TTAGTAACTTCATCCTACTCCAC
Found at i:24572817 original size:96 final size:95
Alignment explanation
Indices: 24572612--24572874 Score: 316
Period size: 96 Copynumber: 2.8 Consensus size: 95
24572602 TTCAGTCTTC
* * * * *
24572612 TCCACTGCAACTTCAAGGAGATAAGACTT-G-TATCTTCAATCTGCCCCACTGCAACTTCAGGGA
1 TCCACTGCAACTTTAGGGAAATAAGA-TTCGCTATCTTTAGTCTGCCCCACTGCAACTTCAGGGA
*
24572675 GATTCGATTGTAATTTGTAGCCTTAATTTGT
65 GATTCGATTGTAATTTGTAGCCTTAATCTGT
** * * *
24572706 TCTGCTGCAAGTTTAGGGAAATAAGATTCGCTATCTTTAGTCTGCCCCACTGCAACTTTAGGGGG
1 TCCACTGCAACTTTAGGGAAATAAGATTCGCTATCTTTAGTCTGCCCCACTGCAACTTCAGGGAG
24572771 ATTC-ATTTTGTAATTTGTAGCCTTAATCTGT
66 ATTCGA--TTGTAATTTGTAGCCTTAATCTGT
* * * * * * *
24572802 TCCACTGTAACTTTAGGGAAACAAGATTCACTATCTTTAGCCTGCTCCACTGTAACTTCAGAGAG
1 TCCACTGCAACTTTAGGGAAATAAGATTCGCTATCTTTAGTCTGCCCCACTGCAACTTCAGGGAG
24572867 ATTCGATT
66 ATTCGATT
24572875 TGTGGCTTTA
Statistics
Matches: 141, Mismatches: 23, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
93 2 0.01
94 22 0.16
95 36 0.26
96 80 0.57
97 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.34
Consensus pattern (95 bp):
TCCACTGCAACTTTAGGGAAATAAGATTCGCTATCTTTAGTCTGCCCCACTGCAACTTCAGGGAG
ATTCGATTGTAATTTGTAGCCTTAATCTGT
Found at i:24575390 original size:79 final size:81
Alignment explanation
Indices: 24575254--24575438 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
24575244 TTGAATGATG
* *
24575254 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
24575318 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
24575333 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
24575395 ATTGTGCGAGTTACTATA
64 ATTGTGCGAGATACTATA
* *
24575413 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
24575439 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.63
80 33 0.36
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCGAGATACTATA
Found at i:24575452 original size:40 final size:40
Alignment explanation
Indices: 24575255--24575438 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
24575245 TGAATGATGT
* * * *
24575255 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
24575295 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
24575335 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
24575373 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
24575414 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
24575439 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 35 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:24575460 original size:79 final size:79
Alignment explanation
Indices: 24575307--24575471 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
24575297 GGACTAAGAT
* * **
24575307 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
24575372 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
24575386 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
24575449 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
24575465 CCGAAGG
1 CCGAAGG
24575472 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:24583249 original size:79 final size:81
Alignment explanation
Indices: 24583113--24583297 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
24583103 TTGAATGATG
*
24583113 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
24583177 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
24583192 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
24583254 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
24583272 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
24583298 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:24583311 original size:40 final size:40
Alignment explanation
Indices: 24583114--24583297 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
24583104 TGAATGATGT
* * * *
24583114 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
24583154 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
24583194 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
24583232 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
24583273 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
24583298 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:24583319 original size:79 final size:79
Alignment explanation
Indices: 24583166--24583330 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
24583156 GGACTAAGAT
* **
24583166 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
24583231 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
24583245 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
24583308 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
24583324 CCGAAGG
1 CCGAAGG
24583331 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.64
80 25 0.33
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:24589566 original size:14 final size:14
Alignment explanation
Indices: 24589547--24589579 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
24589537 GCACGACAAT
24589547 CAACACACATTCTC
1 CAACACACATTCTC
24589561 CAACACACATTCTC
1 CAACACACATTCTC
24589575 CAACA
1 CAACA
24589580 ACCGCACAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.39, C:0.42, G:0.00, T:0.18
Consensus pattern (14 bp):
CAACACACATTCTC
Found at i:24592410 original size:25 final size:25
Alignment explanation
Indices: 24592367--24592416 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 25
24592357 AGGTAGGCAA
24592367 CTTTTTTTTTGCGCTTTTTGTTTTTT
1 CTTTTTTTTTGCGC-TTTTGTTTTTT
24592393 CTTTTTTTTTGCAG-TTTTGTTTTT
1 CTTTTTTTTTGC-GCTTTTGTTTTT
24592417 GCGCTTTTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 10 0.43
26 12 0.52
27 1 0.04
ACGTcount: A:0.02, C:0.10, G:0.12, T:0.76
Consensus pattern (25 bp):
CTTTTTTTTTGCGCTTTTGTTTTTT
Found at i:24592424 original size:26 final size:25
Alignment explanation
Indices: 24592369--24592425 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 25
24592359 GTAGGCAACT
* *
24592369 TTTTTTTTGCGCTTTTTGTTTTTTCT
1 TTTTTTTTGCGC-TTTTGTTTTTGCC
24592395 TTTTTTTTGCAG-TTTTGTTTTTGCGC
1 TTTTTTTTGC-GCTTTTGTTTTTGC-C
24592421 TTTTT
1 TTTTT
24592426 GCTTTTTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 11 0.41
26 15 0.56
27 1 0.04
ACGTcount: A:0.02, C:0.11, G:0.14, T:0.74
Consensus pattern (25 bp):
TTTTTTTTGCGCTTTTGTTTTTGCC
Found at i:24607352 original size:22 final size:23
Alignment explanation
Indices: 24607327--24607370 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
24607317 AAATATGCAT
*
24607327 ATGTATATATATATATA-AACAC
1 ATGTATATATATACATATAACAC
*
24607349 ATGTATATGTATACATATAACA
1 ATGTATATATATACATATAACA
24607371 AAGATTTCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.48, C:0.09, G:0.07, T:0.36
Consensus pattern (23 bp):
ATGTATATATATACATATAACAC
Found at i:24607356 original size:28 final size:29
Alignment explanation
Indices: 24607293--24607367 Score: 80
Period size: 28 Copynumber: 2.6 Consensus size: 29
24607283 TATAGGTACA
* *
24607293 TATATGTATATAGATAAATTATAAAAATATG
1 TATATGTATAT--ATATATTATAAAAACATG
* *
24607324 CATATGTATATATATA-TATAAACACATG
1 TATATGTATATATATATTATAAAAACATG
*
24607352 TATATGTATACATATA
1 TATATGTATATATATA
24607368 ACAAAGATTT
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
28 24 0.63
29 4 0.11
31 10 0.26
ACGTcount: A:0.48, C:0.05, G:0.08, T:0.39
Consensus pattern (29 bp):
TATATGTATATATATATTATAAAAACATG
Found at i:24607429 original size:19 final size:19
Alignment explanation
Indices: 24607405--24607441 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
24607395 TAAATGAACA
*
24607405 AATAATTACAATAATAATT
1 AATAATAACAATAATAATT
*
24607424 AATAATAACAGTAATAAT
1 AATAATAACAATAATAAT
24607442 ATCAAATTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.59, C:0.05, G:0.03, T:0.32
Consensus pattern (19 bp):
AATAATAACAATAATAATT
Found at i:24608567 original size:23 final size:22
Alignment explanation
Indices: 24608519--24608569 Score: 57
Period size: 23 Copynumber: 2.3 Consensus size: 22
24608509 CCTCTTTCCT
* ***
24608519 TTTTTATATTTTGGGCTTGTTG
1 TTTTTGTATTTTGGGCTTGAAA
24608541 TTTTTGTATTATTGGGCTTGAAA
1 TTTTTGTATT-TTGGGCTTGAAA
24608564 TTTTTG
1 TTTTTG
24608570 GGTTTGGTTG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
22 9 0.38
23 15 0.62
ACGTcount: A:0.14, C:0.04, G:0.22, T:0.61
Consensus pattern (22 bp):
TTTTTGTATTTTGGGCTTGAAA
Found at i:24611221 original size:72 final size:70
Alignment explanation
Indices: 24611139--24611388 Score: 195
Period size: 73 Copynumber: 3.5 Consensus size: 70
24611129 ATTGAAGTAT
* ** * *
24611139 TTAAAA-AATAAATAAATAAATAAATTGATAAAACCAATATGAATAATATCAAATTTAA-AATTT
1 TTAAAAGAATAAATAAATAAATAAATAGATAAAAAAAATATAAACAATATCAAATTTAAGAA--T
*
24611202 CTTTAAAA
64 -TTGAAAA
* * * *
24611210 TTAAAAGAATAAATAAGTGAATAAATAGATAAAAAAAATATAAACAATATTAAATTTAAGCATTT
1 TTAAAAGAATAAATAAATAAATAAATAGATAAAAAAAATATAAACAATATCAAATTTAAGAATTT
24611275 GAAAA
66 GAAAA
* * ** * *
24611280 GTAAAAGAAT-AATAAATAAATAAATAAATAAATAAAGTAAATATTCATAATATTAAATTTAA-A
1 TTAAAAGAATAAATAAATAAATAAATAGAT-AA-AAA--AAATATAAACAATATCAAATTTAAGA
*
24611343 TATTTTAAAA
62 -ATTTGAAAA
* * * * *
24611353 GTAAAAGAAT-GATAAATAAATGAGTAAATAAAAAAA
1 TTAAAAGAATAAATAAATAAATAAATAGATAAAAAAA
24611389 TAAATATATA
Statistics
Matches: 150, Mismatches: 22, Indels: 16
0.80 0.12 0.09
Matches are distributed among these distances:
69 18 0.12
70 17 0.11
71 13 0.09
72 46 0.31
73 56 0.37
ACGTcount: A:0.62, C:0.03, G:0.06, T:0.29
Consensus pattern (70 bp):
TTAAAAGAATAAATAAATAAATAAATAGATAAAAAAAATATAAACAATATCAAATTTAAGAATTT
GAAAA
Found at i:24611299 original size:4 final size:4
Alignment explanation
Indices: 24611290--24611322 Score: 57
Period size: 4 Copynumber: 8.0 Consensus size: 4
24611280 GTAAAAGAAT
24611290 AATA AATA AATA AATA AATA AATA AAGTA AATA
1 AATA AATA AATA AATA AATA AATA AA-TA AATA
24611323 TTCATAATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 24 0.86
5 4 0.14
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.24
Consensus pattern (4 bp):
AATA
Found at i:24611315 original size:73 final size:73
Alignment explanation
Indices: 24611217--24611396 Score: 236
Period size: 73 Copynumber: 2.5 Consensus size: 73
24611207 AAATTAAAAG
* * * *
24611217 AATAAATAAGTGAATAAATAGATAAAAAAAATATAAACAATATTAAATTTAAGCATTTGAAAAGT
1 AATAAATAAATGAATAAATAAATAAAATAAATATAAACAATATTAAATTTAAACATTTGAAAAGT
24611282 AAAAGAAT
66 AAAAGAAT
* * ** * * *
24611290 AATAAATAAATAAATAAATAAATAAAGTAAATATTCATAATATTAAATTTAAATATTTTAAAAGT
1 AATAAATAAATGAATAAATAAATAAAATAAATATAAACAATATTAAATTTAAACATTTGAAAAGT
24611355 AAAAGAAT
66 AAAAGAAT
* *
24611363 GATAAATAAATGAGTAAATAAA-AAAATAAATATA
1 AATAAATAAATGAATAAATAAATAAAATAAATATA
24611397 TAGTATTAAA
Statistics
Matches: 91, Mismatches: 16, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
72 10 0.11
73 81 0.89
ACGTcount: A:0.63, C:0.02, G:0.07, T:0.28
Consensus pattern (73 bp):
AATAAATAAATGAATAAATAAATAAAATAAATATAAACAATATTAAATTTAAACATTTGAAAAGT
AAAAGAAT
Found at i:24615071 original size:28 final size:27
Alignment explanation
Indices: 24615032--24615107 Score: 84
Period size: 28 Copynumber: 2.8 Consensus size: 27
24615022 TGATTGAATT
*
24615032 TATAT-TTTAAAATATAAAAATATTCAA
1 TATATATTTAAAA-ATAAAAATATTAAA
* *
24615059 TATATATTTAAAAATTAAGAATTTTAAA
1 TATATATTTAAAAA-TAAAAATATTAAA
*
24615087 AATA-ATTTAAAAATAAAAATA
1 TATATATTTAAAAATAAAAATA
24615108 ATTATTTTTG
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
26 6 0.15
27 15 0.37
28 20 0.49
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.38
Consensus pattern (27 bp):
TATATATTTAAAAATAAAAATATTAAA
Found at i:24626149 original size:5 final size:5
Alignment explanation
Indices: 24626139--24626166 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
24626129 ATTGTAATAT
24626139 TAAAA TAAAA TAAAA TAAAA TAAAA TAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAA
24626167 CATACATTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
TAAAA
Found at i:24630033 original size:22 final size:22
Alignment explanation
Indices: 24630003--24630046 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
24629993 TTTGGTATTT
24630003 GGGAATTGGTACGAAATGGTAA
1 GGGAATTGGTACGAAATGGTAA
*
24630025 GGGATTTGGTACGAAATGGTAA
1 GGGAATTGGTACGAAATGGTAA
24630047 TGGTTCAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.34, C:0.05, G:0.36, T:0.25
Consensus pattern (22 bp):
GGGAATTGGTACGAAATGGTAA
Found at i:24634168 original size:22 final size:22
Alignment explanation
Indices: 24634125--24634165 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
24634115 ATAAATGTTA
* *
24634125 TATATATATATTAACTTTAATG
1 TATATATATAATAACTTAAATG
24634147 TATATATATAATAA-TTAAA
1 TATATATATAATAACTTAAA
24634166 ATGAATGTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.46
Consensus pattern (22 bp):
TATATATATAATAACTTAAATG
Found at i:24634172 original size:26 final size:26
Alignment explanation
Indices: 24634118--24634176 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
24634108 AATAAATATA
** *
24634118 AATGT-TATATATATATATTAACTTT
1 AATGTATATATATATATATTAAAATG
24634143 AATGTATATATATA-ATAATTAAAATG
1 AATGTATATATATATAT-ATTAAAATG
24634169 AATGTATA
1 AATGTATA
24634177 ATAAAAGAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
25 7 0.24
26 22 0.76
ACGTcount: A:0.47, C:0.02, G:0.07, T:0.44
Consensus pattern (26 bp):
AATGTATATATATATATATTAAAATG
Found at i:24634691 original size:18 final size:19
Alignment explanation
Indices: 24634655--24634695 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
24634645 AGAATAAGCA
24634655 AAATATAATGTGAAAATTG
1 AAATATAATGTGAAAATTG
*
24634674 AAATTTAATGTG-AAATTG
1 AAATATAATGTGAAAATTG
24634692 AAAT
1 AAAT
24634696 GTGTAGTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 10 0.48
19 11 0.52
ACGTcount: A:0.51, C:0.00, G:0.15, T:0.34
Consensus pattern (19 bp):
AAATATAATGTGAAAATTG
Found at i:24646121 original size:35 final size:36
Alignment explanation
Indices: 24646066--24646141 Score: 118
Period size: 35 Copynumber: 2.1 Consensus size: 36
24646056 AGGTAAGTTC
* *
24646066 ATATAGTGTAATTATGTTTAAGTCCTTATGTATGTT
1 ATATTGTGTAATTATGTTTAAATCCTTATGTATGTT
*
24646102 ATATTGTG-AATTATGTTTAAATGCTTATGTATGTT
1 ATATTGTGTAATTATGTTTAAATCCTTATGTATGTT
24646137 ATATT
1 ATATT
24646142 TTTCCAGGTA
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
35 30 0.81
36 7 0.19
ACGTcount: A:0.29, C:0.04, G:0.16, T:0.51
Consensus pattern (36 bp):
ATATTGTGTAATTATGTTTAAATCCTTATGTATGTT
Found at i:24648252 original size:21 final size:21
Alignment explanation
Indices: 24648228--24648276 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
24648218 TGGGTGGATT
*
24648228 AACTCTTATGAGCTTCTGTTC
1 AACTCTTACGAGCTTCTGTTC
24648249 AACTCTTACGAGCTTCTGTTC
1 AACTCTTACGAGCTTCTGTTC
*
24648270 AGCTCTT
1 AACTCTT
24648277 TCAAGTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.18, C:0.27, G:0.14, T:0.41
Consensus pattern (21 bp):
AACTCTTACGAGCTTCTGTTC
Found at i:24652734 original size:39 final size:38
Alignment explanation
Indices: 24652645--24652736 Score: 121
Period size: 38 Copynumber: 2.4 Consensus size: 38
24652635 TTTAAGTCTA
* * *
24652645 TAATTATGTCATAATTTGAACATCATTAATATGAGTTT
1 TAATTATGTCATAGTCTGAACATCATTAATAAGAGTTT
* * *
24652683 TAATCATGTCATAGTCTGAACATCTTTAATAAGGGTTTT
1 TAATTATGTCATAGTCTGAACATCATTAATAAGAG-TTT
24652722 TAATTATGTCATAGT
1 TAATTATGTCATAGT
24652737 TTAGGACATT
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
38 29 0.63
39 17 0.37
ACGTcount: A:0.34, C:0.10, G:0.13, T:0.43
Consensus pattern (38 bp):
TAATTATGTCATAGTCTGAACATCATTAATAAGAGTTT
Found at i:24652750 original size:39 final size:38
Alignment explanation
Indices: 24652645--24652789 Score: 134
Period size: 39 Copynumber: 3.8 Consensus size: 38
24652635 TTTAAGTCTA
* * *
24652645 TAATTATGTCATAATTTGAACATCATTAATATGAGTTT
1 TAATTATGTCATAGTTTGAACATCTTTAATAAGAGTTT
* * *
24652683 TAATCATGTCATAGTCTGAACATCTTTAATAAGGGTTTT
1 TAATTATGTCATAGTTTGAACATCTTTAATAAGAG-TTT
* *
24652722 TAATTATGTCATAGTTTAGGACAT-TTTAAATATA-TGTTT
1 TAATTATGTCATAGTTT-GAACATCTTT-AATA-AGAGTTT
* *
24652761 TAAATATGTCCTAGTTT-AGACATCTTTAA
1 TAATTATGTCATAGTTTGA-ACATCTTTAA
24652790 CACAAGTCTT
Statistics
Matches: 88, Mismatches: 13, Indels: 12
0.78 0.12 0.11
Matches are distributed among these distances:
38 35 0.40
39 42 0.48
40 10 0.11
41 1 0.01
ACGTcount: A:0.34, C:0.10, G:0.12, T:0.44
Consensus pattern (38 bp):
TAATTATGTCATAGTTTGAACATCTTTAATAAGAGTTT
Found at i:24652770 original size:78 final size:77
Alignment explanation
Indices: 24652645--24652789 Score: 172
Period size: 78 Copynumber: 1.9 Consensus size: 77
24652635 TTTAAGTCTA
24652645 TAATTATGTCATAATTTGAACATCATTAATATGAGTTTTAATCATGTCATAGTCTGA-ACATCTT
1 TAATTATGTCATAATTTGAACATCATTAATATGAGTTTTAATCATGTCATAGT-TGAGACATCTT
24652709 TAATAAGGGTTTT
65 TAATAAGGGTTTT
* * * * *
24652722 TAATTATGTCATAGTTTAGGACAT-TTTAAATAT-ATGTTTTAAAT-ATGTCCTAGTTTAGACAT
1 TAATTATGTCATAATTT-GAACATCATT-AATATGA-GTTTT-AATCATGTCATAGTTGAGACAT
24652784 CTTTAA
62 CTTTAA
24652790 CACAAGTCTT
Statistics
Matches: 58, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
77 21 0.36
78 34 0.59
79 3 0.05
ACGTcount: A:0.34, C:0.10, G:0.12, T:0.44
Consensus pattern (77 bp):
TAATTATGTCATAATTTGAACATCATTAATATGAGTTTTAATCATGTCATAGTTGAGACATCTTT
AATAAGGGTTTT
Found at i:24663683 original size:4 final size:4
Alignment explanation
Indices: 24663674--24663700 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
24663664 AAGTTTTATT
24663674 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
24663701 TACTTAGTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:24666846 original size:38 final size:39
Alignment explanation
Indices: 24666788--24666877 Score: 128
Period size: 38 Copynumber: 2.3 Consensus size: 39
24666778 TTTAAGTCTA
* *
24666788 TAATTATGTCATAATTTGAACATCATTAATATGAG-TTT
1 TAATTATGTCATAATCTGAACATCATTAATAAGAGTTTT
* * *
24666826 TAATCATGTCATAATCTGAACATCTTTAATAAGGGTTTT
1 TAATTATGTCATAATCTGAACATCATTAATAAGAGTTTT
24666865 TAATTATGTCATA
1 TAATTATGTCATA
24666878 GTTCAGGACA
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
38 30 0.67
39 15 0.33
ACGTcount: A:0.36, C:0.10, G:0.11, T:0.43
Consensus pattern (39 bp):
TAATTATGTCATAATCTGAACATCATTAATAAGAGTTTT
Found at i:24666905 original size:39 final size:39
Alignment explanation
Indices: 24666862--24666936 Score: 107
Period size: 39 Copynumber: 1.9 Consensus size: 39
24666852 TAATAAGGGT
*
24666862 TTTTAATTATGTCATAGTTCAGGACAT-TTTAAATATATG
1 TTTTAAATATGTCATAGTTCA-GACATCTTTAAATATATG
* *
24666901 TTTTAAATATGTCCTAGTTTAGACATCTTTAAATAT
1 TTTTAAATATGTCATAGTTCAGACATCTTTAAATAT
24666937 GTCCTTAGTT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
38 5 0.16
39 27 0.84
ACGTcount: A:0.33, C:0.09, G:0.11, T:0.47
Consensus pattern (39 bp):
TTTTAAATATGTCATAGTTCAGACATCTTTAAATATATG
Found at i:24666958 original size:26 final size:25
Alignment explanation
Indices: 24666903--24666965 Score: 65
Period size: 26 Copynumber: 2.4 Consensus size: 25
24666893 AATATATGTT
* *
24666903 TTAAATATGTCCTAGTTTAGACATCT
1 TTAAATATGTCCTAGTTCAGACA-CA
24666929 TTAAATATGTCCTTAGTTCAGAC-CAA
1 TTAAATATGTCC-TAGTTCAGACAC-A
24666955 TTAAATTATGT
1 TTAAA-TATGT
24666966 TTAAGCTGTG
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
25 1 0.03
26 17 0.53
27 14 0.44
ACGTcount: A:0.33, C:0.14, G:0.11, T:0.41
Consensus pattern (25 bp):
TTAAATATGTCCTAGTTCAGACACA
Found at i:24673765 original size:31 final size:31
Alignment explanation
Indices: 24673725--24673797 Score: 83
Period size: 31 Copynumber: 2.4 Consensus size: 31
24673715 ACTAACGAGA
* * **
24673725 GAGTAACTAAACTATTCAATTTTGAAAAGGT
1 GAGTGACTAAAATATTCAATTTCAAAAAGGT
* * *
24673756 GAGTGACTAAAATGTTTAATTTCAAAAAGTT
1 GAGTGACTAAAATATTCAATTTCAAAAAGGT
24673787 GAGTGACTAAA
1 GAGTGACTAAA
24673798 TGAAAAAAAT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.42, C:0.08, G:0.18, T:0.32
Consensus pattern (31 bp):
GAGTGACTAAAATATTCAATTTCAAAAAGGT
Found at i:24674770 original size:30 final size:29
Alignment explanation
Indices: 24674734--24674850 Score: 91
Period size: 27 Copynumber: 4.1 Consensus size: 29
24674724 ATCATACGGA
24674734 TATTCCTTCAACGTTCGCCATATTTACCAT
1 TATTCCTTCAA-GTTCGCCATATTTACCAT
** *
24674764 TATTCCTTCAAGGTTCGTTATATTTATCAT
1 TATTCCTTCAA-GTTCGCCATATTTACCAT
* **
24674794 TCTT--TTGGAGTTCGCCATATTTACCAT
1 TATTCCTTCAAGTTCGCCATATTTACCAT
* * *
24674821 TCTT--TT-AGAGTTTGCTATATTTACCAT
1 TATTCCTTCA-AGTTCGCCATATTTACCAT
24674848 TAT
1 TAT
24674851 GCCCTTTCAG
Statistics
Matches: 72, Mismatches: 14, Indels: 5
0.79 0.15 0.05
Matches are distributed among these distances:
27 40 0.56
28 3 0.04
30 29 0.40
ACGTcount: A:0.22, C:0.21, G:0.10, T:0.47
Consensus pattern (29 bp):
TATTCCTTCAAGTTCGCCATATTTACCAT
Found at i:24674806 original size:27 final size:27
Alignment explanation
Indices: 24674776--24674848 Score: 101
Period size: 27 Copynumber: 2.7 Consensus size: 27
24674766 TTCCTTCAAG
* * *
24674776 GTTCGTTATATTTATCATTCTTTTGGA
1 GTTCGCTATATTTACCATTCTTTTAGA
*
24674803 GTTCGCCATATTTACCATTCTTTTAGA
1 GTTCGCTATATTTACCATTCTTTTAGA
*
24674830 GTTTGCTATATTTACCATT
1 GTTCGCTATATTTACCATT
24674849 ATGCCCTTTC
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.21, C:0.16, G:0.12, T:0.51
Consensus pattern (27 bp):
GTTCGCTATATTTACCATTCTTTTAGA
Found at i:24674934 original size:25 final size:25
Alignment explanation
Indices: 24674906--24674986 Score: 67
Period size: 25 Copynumber: 3.2 Consensus size: 25
24674896 CTCAAAAACT
*
24674906 TTCCTTTAGAATGCACCACGAAGGC
1 TTCCTTTAGAATGCACCACAAAGGC
* ** *
24674931 TTCCATTTCATATAT-TTCCATAAAGTG-
1 TTCC-TTT-AGA-ATGCACCACAAAG-GC
24674958 TTCCTTTAGAATGCACCACAAAGGC
1 TTCCTTTAGAATGCACCACAAAGGC
24674983 TTCC
1 TTCC
24674987 ATTTCATAGA
Statistics
Matches: 41, Mismatches: 9, Indels: 12
0.66 0.15 0.19
Matches are distributed among these distances:
24 3 0.07
25 17 0.41
26 6 0.15
27 12 0.29
28 3 0.07
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (25 bp):
TTCCTTTAGAATGCACCACAAAGGC
Found at i:24677751 original size:23 final size:23
Alignment explanation
Indices: 24677736--24677779 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
24677726 ATTGACTATG
*
24677736 TAATATCCCAAAAATTACTACTA
1 TAATACCCCAAAAATTACTACTA
*
24677759 TAATACCCCGAAAATTACTAC
1 TAATACCCCAAAAATTACTAC
24677780 AGTAAGAAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.45, C:0.25, G:0.02, T:0.27
Consensus pattern (23 bp):
TAATACCCCAAAAATTACTACTA
Found at i:24680289 original size:22 final size:21
Alignment explanation
Indices: 24680250--24680290 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
24680240 TATATTATAT
* *
24680250 ATATATATTTTTATTTTTAAA
1 ATATATAGTTTTAGTTTTAAA
24680271 ATATACTAGTTTTAGTTTTA
1 ATATA-TAGTTTTAGTTTTA
24680291 TTTTAAGTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.29
22 12 0.71
ACGTcount: A:0.34, C:0.02, G:0.05, T:0.59
Consensus pattern (21 bp):
ATATATAGTTTTAGTTTTAAA
Found at i:24687035 original size:37 final size:37
Alignment explanation
Indices: 24686989--24687065 Score: 127
Period size: 37 Copynumber: 2.1 Consensus size: 37
24686979 AAATAATGAG
24686989 TAAAACTATTATTTTTGATTTATTTATAATCTATTTT
1 TAAAACTATTATTTTTGATTTATTTATAATCTATTTT
* * *
24687026 TAAACCTATTGTTTTTTATTTATTTATAATCTATTTT
1 TAAAACTATTATTTTTGATTTATTTATAATCTATTTT
24687063 TAA
1 TAA
24687066 CTAAATAGAA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.31, C:0.06, G:0.03, T:0.60
Consensus pattern (37 bp):
TAAAACTATTATTTTTGATTTATTTATAATCTATTTT
Found at i:24689219 original size:29 final size:29
Alignment explanation
Indices: 24689173--24689241 Score: 79
Period size: 29 Copynumber: 2.4 Consensus size: 29
24689163 AACGGTAAAA
*
24689173 TCTAGAAAACTGGGGTAAAATTGTAAAGT
1 TCTAGAAAACTGGGGTAAAACTGTAAAGT
* *
24689202 TCTA-AAAACTAGTGGTAAAACTGTAAAAT
1 TCTAGAAAACT-GGGGTAAAACTGTAAAGT
*
24689231 T-TGGAAAACTG
1 TCTAGAAAACTG
24689242 TAACGACCCG
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
28 8 0.24
29 26 0.76
ACGTcount: A:0.43, C:0.09, G:0.20, T:0.28
Consensus pattern (29 bp):
TCTAGAAAACTGGGGTAAAACTGTAAAGT
Found at i:24690783 original size:70 final size:70
Alignment explanation
Indices: 24690680--24690812 Score: 194
Period size: 70 Copynumber: 1.9 Consensus size: 70
24690670 AACTATTATT
* * ** * *
24690680 GGTTATCCGACTAGCGTTGGGCGCAATAATTTGTCGTTTTGTTCGACTAGTGGTGGACACAACTA
1 GGTTATCCGACTAGCGCTGGGCACAATAATTTGTCAATTCGTTCGACTAGTGCTGGACACAACTA
24690745 TCGTC
66 TCGTC
* *
24690750 GGTTATCCGATTAGCGCTGGGCACAATAATTTGTCAATTCGTTCGACTAGTGCTGGGCACAAC
1 GGTTATCCGACTAGCGCTGGGCACAATAATTTGTCAATTCGTTCGACTAGTGCTGGACACAAC
24690813 AATGATTTTG
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
70 55 1.00
ACGTcount: A:0.22, C:0.21, G:0.26, T:0.31
Consensus pattern (70 bp):
GGTTATCCGACTAGCGCTGGGCACAATAATTTGTCAATTCGTTCGACTAGTGCTGGACACAACTA
TCGTC
Found at i:24698218 original size:70 final size:70
Alignment explanation
Indices: 24698101--24698241 Score: 183
Period size: 70 Copynumber: 2.0 Consensus size: 70
24698091 TCGATTGAGT
* * *
24698101 AACTATCATCGATTATCGGACTAGAGTTAGGCGCAATAATTTTTCGATTCGTTCGACTAGTGGTG
1 AACTATCATCGATTATCGGACTAGAGCTAGGCGCAATAATTTGTCGATTCGTTCGACTAGTGCTG
24698166 GACAC
66 GACAC
* * * * * * *
24698171 AACTATCGTCGGTTATCTGACTAGTGCTGGGCGTAATAATTTGTCGATTCGTTCGTCTAGTGCTG
1 AACTATCATCGATTATCGGACTAGAGCTAGGCGCAATAATTTGTCGATTCGTTCGACTAGTGCTG
*
24698236 GGCAC
66 GACAC
24698241 A
1 A
24698242 CCAATGATTT
Statistics
Matches: 60, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
70 60 1.00
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.33
Consensus pattern (70 bp):
AACTATCATCGATTATCGGACTAGAGCTAGGCGCAATAATTTGTCGATTCGTTCGACTAGTGCTG
GACAC
Found at i:24698931 original size:18 final size:18
Alignment explanation
Indices: 24698908--24698942 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
24698898 TTTGTTTTGA
24698908 TATGGT-TTTGAGATGTTT
1 TATGGTATTTG-GATGTTT
24698926 TATGGTATTTGGATGTT
1 TATGGTATTTGGATGTT
24698943 GCTTAAGGTC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.17, C:0.00, G:0.29, T:0.54
Consensus pattern (18 bp):
TATGGTATTTGGATGTTT
Found at i:24698993 original size:11 final size:11
Alignment explanation
Indices: 24698977--24699014 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
24698967 GTTGTTTATG
24698977 GTTTTGAGCAT
1 GTTTTGAGCAT
*
24698988 GTTTTGA-TAT
1 GTTTTGAGCAT
24698998 GGTTTTGAGCAT
1 -GTTTTGAGCAT
24699010 GTTTT
1 GTTTT
24699015 ATTCTTGTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
10 2 0.09
11 19 0.83
12 2 0.09
ACGTcount: A:0.16, C:0.05, G:0.26, T:0.53
Consensus pattern (11 bp):
GTTTTGAGCAT
Found at i:24698998 original size:22 final size:22
Alignment explanation
Indices: 24698973--24699014 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
24698963 TGTGGTTGTT
24698973 TATGGTTTTGAGCATGTTTTGA
1 TATGGTTTTGAGCATGTTTTGA
24698995 TATGGTTTTGAGCATGTTTT
1 TATGGTTTTGAGCATGTTTT
24699015 ATTCTTGTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.17, C:0.05, G:0.26, T:0.52
Consensus pattern (22 bp):
TATGGTTTTGAGCATGTTTTGA
Found at i:24699699 original size:28 final size:29
Alignment explanation
Indices: 24699653--24699708 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 29
24699643 GGTGTTACAA
24699653 AACTAGTGGCAAAACTATAAAATTTGGAG
1 AACTAGTGGCAAAACTATAAAATTTGGAG
24699682 AACTAGTGG-AAAACTATAAAATTTGGA
1 AACTAGTGGCAAAACTATAAAATTTGGA
24699709 AAAGAAAAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
28 18 0.67
29 9 0.33
ACGTcount: A:0.46, C:0.09, G:0.20, T:0.25
Consensus pattern (29 bp):
AACTAGTGGCAAAACTATAAAATTTGGAG
Found at i:24700192 original size:17 final size:18
Alignment explanation
Indices: 24700159--24700193 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
24700149 TAGGGAGTTA
*
24700159 AATTCTTTTTGGAATTTT
1 AATTCTATTTGGAATTTT
24700177 AATTCTATTT-GAATTTT
1 AATTCTATTTGGAATTTT
24700194 GAAAAGTAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.26, C:0.06, G:0.09, T:0.60
Consensus pattern (18 bp):
AATTCTATTTGGAATTTT
Found at i:24701708 original size:12 final size:12
Alignment explanation
Indices: 24701691--24701715 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
24701681 CTAGACATAG
24701691 AGTCACAATCAT
1 AGTCACAATCAT
24701703 AGTCACAATCAT
1 AGTCACAATCAT
24701715 A
1 A
24701716 CAAAAGGAAC
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:0.44, C:0.24, G:0.08, T:0.24
Consensus pattern (12 bp):
AGTCACAATCAT
Found at i:24709895 original size:29 final size:30
Alignment explanation
Indices: 24709818--24709896 Score: 76
Period size: 29 Copynumber: 2.7 Consensus size: 30
24709808 AGCATGCATT
*
24709818 ATGTAACTTTCATGTTAGTTAAGTTTGCATC
1 ATGTAACTTTCATGTTAGTT-AGTTTGAATC
* * *
24709849 AT-TAA-ATT-AAGTCAAGTTAGTTT-AATC
1 ATGTAACTTTCATGT-TAGTTAGTTTGAATC
24709876 ATGTAACTTTCATGTTAGTTA
1 ATGTAACTTTCATGTTAGTTA
24709897 AATTTGCATT
Statistics
Matches: 37, Mismatches: 7, Indels: 10
0.69 0.13 0.19
Matches are distributed among these distances:
27 5 0.14
28 11 0.30
29 13 0.35
30 6 0.16
31 2 0.05
ACGTcount: A:0.32, C:0.10, G:0.14, T:0.44
Consensus pattern (30 bp):
ATGTAACTTTCATGTTAGTTAGTTTGAATC
Found at i:24712589 original size:38 final size:40
Alignment explanation
Indices: 24712538--24712644 Score: 112
Period size: 43 Copynumber: 2.6 Consensus size: 40
24712528 TTTTATCCTA
*
24712538 GAAAAAATAATTTAAAAAGAAGATAAT-T-TTGGGTCGTT
1 GAAAAAAGAATTTAAAAAGAAGATAATATATTGGGTCGTT
*
24712576 GAAAAAAGAATTTAAAAAGAGGAGA-AGATGATATTGGGTTGTT
1 GAAAAAAGAATTTAAAAAGA--AGATA-AT-ATATTGGGTCGTT
* * *
24712619 AAAAAAAGAACTTAAAAAGAGGATAA
1 GAAAAAAGAATTTAAAAAGAAGATAA
24712645 GATAAACATG
Statistics
Matches: 57, Mismatches: 5, Indels: 11
0.78 0.07 0.15
Matches are distributed among these distances:
38 19 0.33
39 1 0.02
40 5 0.09
41 3 0.05
42 2 0.04
43 27 0.47
ACGTcount: A:0.52, C:0.02, G:0.21, T:0.24
Consensus pattern (40 bp):
GAAAAAAGAATTTAAAAAGAAGATAATATATTGGGTCGTT
Found at i:24712603 original size:43 final size:43
Alignment explanation
Indices: 24712555--24712649 Score: 136
Period size: 43 Copynumber: 2.2 Consensus size: 43
24712545 TAATTTAAAA
* * *
24712555 AGAAGATAATTTTGGGTCGTTGAAAAAAGAATTTAAAAAGAGG
1 AGAAGATAATATTGGGTCGTTAAAAAAAGAACTTAAAAAGAGG
* *
24712598 AGAAGATGATATTGGGTTGTTAAAAAAAGAACTTAAAAAGAGG
1 AGAAGATAATATTGGGTCGTTAAAAAAAGAACTTAAAAAGAGG
*
24712641 ATAAGATAA
1 AGAAGATAA
24712650 ACATGGGTTG
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.49, C:0.02, G:0.24, T:0.24
Consensus pattern (43 bp):
AGAAGATAATATTGGGTCGTTAAAAAAAGAACTTAAAAAGAGG
Found at i:24712657 original size:43 final size:43
Alignment explanation
Indices: 24712567--24712661 Score: 120
Period size: 43 Copynumber: 2.2 Consensus size: 43
24712557 AAGATAATTT
* * * * *
24712567 TGGGTCGTTGAAAAAAGAATTTAAAAAGAGGAGAAGATGATAT
1 TGGGTTGTTAAAAAAAGAACTTAAAAAGAGGAGAAGATGAAAA
*
24712610 TGGGTTGTTAAAAAAAGAACTTAAAAAGAGGATAAGAT-AAACA
1 TGGGTTGTTAAAAAAAGAACTTAAAAAGAGGAGAAGATGAAA-A
24712653 TGGGTTGTT
1 TGGGTTGTT
24712662 GGATTTACCC
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
42 2 0.04
43 43 0.96
ACGTcount: A:0.45, C:0.03, G:0.26, T:0.25
Consensus pattern (43 bp):
TGGGTTGTTAAAAAAAGAACTTAAAAAGAGGAGAAGATGAAAA
Found at i:24718652 original size:34 final size:34
Alignment explanation
Indices: 24718609--24718677 Score: 111
Period size: 34 Copynumber: 2.0 Consensus size: 34
24718599 GAATTTTGGT
* * *
24718609 TATAATACATATGGAATTTGATTACAGGTATCAC
1 TATAATACATAAGGAATTTAATTACAAGTATCAC
24718643 TATAATACATAAGGAATTTAATTACAAGTATCAC
1 TATAATACATAAGGAATTTAATTACAAGTATCAC
24718677 T
1 T
24718678 TAAATGATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.35
Consensus pattern (34 bp):
TATAATACATAAGGAATTTAATTACAAGTATCAC
Found at i:24719276 original size:27 final size:27
Alignment explanation
Indices: 24719246--24719300 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
24719236 GGTTTCTTTA
*
24719246 TCATAAATAGCCACAAAGGCTTCATTT
1 TCATAAAGAGCCACAAAGGCTTCATTT
* * *
24719273 TCATAGAGCGCCACAAAGGCTTCTTTT
1 TCATAAAGAGCCACAAAGGCTTCATTT
24719300 T
1 T
24719301 TATAGATCAC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.31
Consensus pattern (27 bp):
TCATAAAGAGCCACAAAGGCTTCATTT
Found at i:24719305 original size:27 final size:27
Alignment explanation
Indices: 24719255--24719306 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
24719245 ATCATAAATA
24719255 GCCACAAAGGCTTCATTTTCATAGAGC
1 GCCACAAAGGCTTCATTTTCATAGAGC
* *
24719282 GCCACAAAGGCTTCTTTTTTATAGA
1 GCCACAAAGGCTTCATTTTCATAGA
24719307 TCACGACAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (27 bp):
GCCACAAAGGCTTCATTTTCATAGAGC
Found at i:24719315 original size:27 final size:27
Alignment explanation
Indices: 24719256--24719318 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
24719246 TCATAAATAG
*
24719256 CCACAAAGGCTTCATTTTCATAGAGCG
1 CCACAAAGGCTTCATTTTCATAGAGCA
* * *
24719283 CCACAAAGGCTTCTTTTTTATAGATCA
1 CCACAAAGGCTTCATTTTCATAGAGCA
*
24719310 CGACAAAGG
1 CCACAAAGG
24719319 TTTCCCTTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (27 bp):
CCACAAAGGCTTCATTTTCATAGAGCA
Found at i:24730204 original size:5 final size:5
Alignment explanation
Indices: 24730194--24730218 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
24730184 GTTTCGTTAA
24730194 AAAAT AAAAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT
24730219 CTGATGATTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:24730473 original size:15 final size:15
Alignment explanation
Indices: 24730453--24730484 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
24730443 ATTCTTAAAC
*
24730453 AAAATAATAATAATA
1 AAAATAATAAAAATA
24730468 AAAATAATAAAAATA
1 AAAATAATAAAAATA
24730483 AA
1 AA
24730485 TAGGAGCGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (15 bp):
AAAATAATAAAAATA
Found at i:24730732 original size:27 final size:27
Alignment explanation
Indices: 24730694--24730745 Score: 104
Period size: 27 Copynumber: 1.9 Consensus size: 27
24730684 GCTGAAAGCA
24730694 AGCAACTATATTGATTTCATGGCGCAC
1 AGCAACTATATTGATTTCATGGCGCAC
24730721 AGCAACTATATTGATTTCATGGCGC
1 AGCAACTATATTGATTTCATGGCGC
24730746 GCATTCGACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (27 bp):
AGCAACTATATTGATTTCATGGCGCAC
Found at i:24733407 original size:22 final size:23
Alignment explanation
Indices: 24733382--24733428 Score: 78
Period size: 22 Copynumber: 2.1 Consensus size: 23
24733372 ATTAAAATGT
24733382 TTAATTTTAATTAATTTT-ATTA
1 TTAATTTTAATTAATTTTGATTA
*
24733404 TTAATTTTTATTAATTTTGATTA
1 TTAATTTTAATTAATTTTGATTA
24733427 TT
1 TT
24733429 TTCGACAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 17 0.74
23 6 0.26
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (23 bp):
TTAATTTTAATTAATTTTGATTA
Found at i:24733414 original size:13 final size:12
Alignment explanation
Indices: 24733382--24733428 Score: 57
Period size: 10 Copynumber: 4.2 Consensus size: 12
24733372 ATTAAAATGT
24733382 TTAATTTTA--A
1 TTAATTTTATTA
24733392 TTAATTTTATTA
1 TTAATTTTATTA
24733404 TTAA-TTT-TTA
1 TTAATTTTATTA
24733414 TTAATTTTGATTA
1 TTAATTTT-ATTA
24733427 TT
1 TT
24733429 TTCGACAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
10 16 0.50
11 6 0.19
12 5 0.16
13 5 0.16
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (12 bp):
TTAATTTTATTA
Found at i:24737904 original size:139 final size:139
Alignment explanation
Indices: 24737651--24737927 Score: 448
Period size: 139 Copynumber: 2.0 Consensus size: 139
24737641 TAACATGATT
*
24737651 TAATAGAAATCTCACTCAATGTATTATGCCAATATCATTTCTGTCATAAATATGGTTTTTAGCCT
1 TAATAGAAATCTCACTCAATGTATTATGCCAATATCATTTCTGTCATAAATATGGTTTTTAGCCA
*
24737716 TTTTGTAACACCCCAAACCCAACCTAGACGTTATGGCCAGATTTAAAGGTGTTACCATAAATCAA
66 TTTTGTAACACCCCAAACCCAACCTAGACGTTATGGCCAGATCTAAAGGTGTTACCATAAATCAA
24737781 TTGAAAACA
131 TTGAAAACA
24737790 TAATAGAAATCTCACTTC-ATGTATTATGCCAATATCATTTCTGTCATAAATATGGTTTTTAGCC
1 TAATAGAAATCTCAC-TCAATGTATTATGCCAATATCATTTCTGTCATAAATATGGTTTTTAGCC
* * ** * * * *
24737854 ATTTTGTAACACCCCATACTCGGCCTAGATGTTATGGCCAGATCTGAAGGTGTTGCCGTAAATCA
65 ATTTTGTAACACCCCAAACCCAACCTAGACGTTATGGCCAGATCTAAAGGTGTTACCATAAATCA
24737919 ATTGAAAAC
130 ATTGAAAAC
24737928 CTAGAATTCG
Statistics
Matches: 127, Mismatches: 10, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
139 125 0.98
140 2 0.02
ACGTcount: A:0.33, C:0.20, G:0.14, T:0.33
Consensus pattern (139 bp):
TAATAGAAATCTCACTCAATGTATTATGCCAATATCATTTCTGTCATAAATATGGTTTTTAGCCA
TTTTGTAACACCCCAAACCCAACCTAGACGTTATGGCCAGATCTAAAGGTGTTACCATAAATCAA
TTGAAAACA
Found at i:24741469 original size:69 final size:70
Alignment explanation
Indices: 24741337--24741469 Score: 214
Period size: 69 Copynumber: 1.9 Consensus size: 70
24741327 TAGTTTATTA
* * * * *
24741337 CTAATTAATTTGCTGCTGTAATGCTGTAAATTATTGGCTGTCCAAATTAGGACAAATTTATGGTA
1 CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGTA
24741402 CTTAG
66 CTTAG
24741407 CTAATTAATATGCTGCTGTAATACT-TAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGT
1 CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGT
24741470 GTTATGTGCT
Statistics
Matches: 58, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
69 35 0.60
70 23 0.40
ACGTcount: A:0.32, C:0.14, G:0.17, T:0.37
Consensus pattern (70 bp):
CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGTA
CTTAG
Found at i:24742907 original size:47 final size:47
Alignment explanation
Indices: 24742853--24743070 Score: 364
Period size: 47 Copynumber: 4.6 Consensus size: 47
24742843 GTATATTTGA
*
24742853 ATGAATGTGAAAGTATATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
24742900 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
24742947 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
* * * * *
24742994 ATGAATGTGAAAGTGTATATATGTGATAGGGCCGAGTGGCCAACGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
* *
24743041 ATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGAATGTGAAAGTGTATATATGTGATAAG
24743071 TCCCGAAGGG
Statistics
Matches: 162, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 162 1.00
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
Found at i:24744939 original size:13 final size:14
Alignment explanation
Indices: 24744923--24744955 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
24744913 GAAAATGAAG
*
24744923 AAATGAGAA-AGGA
1 AAATGAGAAGAGAA
24744936 AAATGAGAAGAGAA
1 AAATGAGAAGAGAA
24744950 AAATGA
1 AAATGA
24744956 CATGAATAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 9 0.50
14 9 0.50
ACGTcount: A:0.64, C:0.00, G:0.27, T:0.09
Consensus pattern (14 bp):
AAATGAGAAGAGAA
Found at i:24746904 original size:17 final size:17
Alignment explanation
Indices: 24746875--24746909 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
24746865 TATCTTTTAC
24746875 ATATATAATTTATTTTT
1 ATATATAATTTATTTTT
24746892 ATATCATAA-TTATTTTT
1 ATAT-ATAATTTATTTTT
24746909 A
1 A
24746910 AACATATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (17 bp):
ATATATAATTTATTTTT
Found at i:24751102 original size:6 final size:6
Alignment explanation
Indices: 24751091--24751120 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
24751081 CAGAATTGTA
24751091 TGCCAT TGCCAT TGCCAT TGCCAT TGCCAT
1 TGCCAT TGCCAT TGCCAT TGCCAT TGCCAT
24751121 GCTGGTGTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.17, C:0.33, G:0.17, T:0.33
Consensus pattern (6 bp):
TGCCAT
Found at i:24751956 original size:5 final size:5
Alignment explanation
Indices: 24751946--24751971 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
24751936 TGATAGACAA
24751946 AAAAG AAAAG AAAAG AAAAG AAAAG A
1 AAAAG AAAAG AAAAG AAAAG AAAAG A
24751972 CAAACCATGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:24752583 original size:24 final size:24
Alignment explanation
Indices: 24752554--24752607 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
24752544 TATGATTTAA
*
24752554 TCAAAGAATTTTAATTGATACTAT
1 TCAAAGAAATTTAATTGATACTAT
*
24752578 TTAAAGAAATTTAATTGATACTAT
1 TCAAAGAAATTTAATTGATACTAT
24752602 TCAAAG
1 TCAAAG
24752608 TATAATGTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.44, C:0.07, G:0.09, T:0.39
Consensus pattern (24 bp):
TCAAAGAAATTTAATTGATACTAT
Found at i:24759161 original size:26 final size:27
Alignment explanation
Indices: 24759100--24759163 Score: 94
Period size: 27 Copynumber: 2.4 Consensus size: 27
24759090 TTTACTCTAG
* *
24759100 TAAAATTTTGAAGATTTTATCCTCTGA
1 TAAAATTTTGAAGATTTTATCCCCCGA
*
24759127 TAAAATTTTGATGATTTTA-CCCCCGA
1 TAAAATTTTGAAGATTTTATCCCCCGA
24759153 TAAAATTTTGA
1 TAAAATTTTGA
24759164 GAAAATTCGT
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
26 16 0.47
27 18 0.53
ACGTcount: A:0.34, C:0.12, G:0.11, T:0.42
Consensus pattern (27 bp):
TAAAATTTTGAAGATTTTATCCCCCGA
Found at i:24759330 original size:18 final size:18
Alignment explanation
Indices: 24759304--24759339 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
24759294 AGATTGCAAG
*
24759304 TTTCCATTTTCATTTTCA
1 TTTCCATTTCCATTTTCA
*
24759322 TTTCTATTTCCATTTTCA
1 TTTCCATTTCCATTTTCA
24759340 AAAACCTACA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.22, G:0.00, T:0.61
Consensus pattern (18 bp):
TTTCCATTTCCATTTTCA
Found at i:24760852 original size:25 final size:24
Alignment explanation
Indices: 24760815--24760862 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
24760805 TTAAAAATAA
*
24760815 GAAAAATATCTTTAGAAATTTTTT
1 GAAAAATATCTTTAGAAAATTTTT
*
24760839 GAAATAATTTCTTTAGAAAATTTT
1 GAAA-AATATCTTTAGAAAATTTT
24760863 CTCTCTACAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 4 0.19
25 17 0.81
ACGTcount: A:0.42, C:0.04, G:0.08, T:0.46
Consensus pattern (24 bp):
GAAAAATATCTTTAGAAAATTTTT
Found at i:24761095 original size:31 final size:29
Alignment explanation
Indices: 24761039--24761096 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 29
24761029 ATTTATCTAC
24761039 AAGATAAACTTTAAATTAAATTTAATATT
1 AAGATAAACTTTAAATTAAATTTAATATT
24761068 AAGATAATCACTTTAATATTAAA-TTAATA
1 AAGATAA--ACTTTAA-ATTAAATTTAATA
24761097 AAATACTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
29 7 0.27
31 13 0.50
32 6 0.23
ACGTcount: A:0.52, C:0.05, G:0.03, T:0.40
Consensus pattern (29 bp):
AAGATAAACTTTAAATTAAATTTAATATT
Found at i:24762165 original size:415 final size:415
Alignment explanation
Indices: 24761390--24762223 Score: 1472
Period size: 415 Copynumber: 2.0 Consensus size: 415
24761380 TTTGAGTTAA
*
24761390 ATTCATACAATCCTATTTTATCTCATTGTCACCATTGTGTCTTTTTAATGATTAATATGACCACT
1 ATTCATACAATCCTATTTTATCTCATTGTCACCATTGTGTCTTCTTAATGATTAATATGACCACT
*
24761455 GTCAACAAATAACTATGATAAATTGCTCATTCGAGAACAGGCAACCTGTTGCCACGTTCCATATT
66 GTCAACAAATAACTATGATAAATTGCTCATTCGAGAACAAGCAACCTGTTGCCACGTTCCATATT
* *
24761520 TATCAATCCACACAATGCCAATGAAAGGATATCATCAACTCTTTCATAGAGCTATGAATTTCATT
131 TATCAATCCACACAATGCCAATGAAAGGATATCATCAACTCTTTCATAGAGCTATGAATTCCACT
* *
24761585 GTTGCTAGTAAAGTCATGCCATACACAAGTCATGTACCCAACATACCAGCTATGGGCTCGATTAT
196 GTTGCTAGTAAAGTAATGCCATACACAAGTCATGTACCCAACATACCAGCTATGGACTCGATTAT
*
24761650 CTTTAGAGCATAAGCCTCCACTTATATCAAAGCACCTGAGTAGCATACGCATGGTCAGCGATTAA
261 CTTTAGAGCATAAGCCTCCACTTATATCAAAGCACCTGAATAGCATACGCATGGTCAGCGATTAA
*
24761715 CTCAAGATTTAGGTAAATTACACCATGAACATCACAAGTATTCACAAACGGATTCAAAATTAATT
326 CTCAAGATTTAGGTAAATTACACCATGAACATCACAAGTATTCACAAACAGATTCAAAATTAATT
24761780 CATCTTAGG-TCCAATCCAATGTATC
391 CATCTT-GGATCCAATCCAATGTATC
* *
24761805 ATTCGTACAATCCTATTTTATCTTATTGTCACCATTGTGTCTTCTTAATGATTAATATGACCACT
1 ATTCATACAATCCTATTTTATCTCATTGTCACCATTGTGTCTTCTTAATGATTAATATGACCACT
* * *
24761870 GTCAACAAATAACTGTGATAAATTTCTCATTCGAGAATAAGCAACCTGTTGCCACGTTCCATATT
66 GTCAACAAATAACTATGATAAATTGCTCATTCGAGAACAAGCAACCTGTTGCCACGTTCCATATT
*
24761935 TATCAATCCACACTATGCCAATGAAAGGATATCATCAACTCTTTCATAGAGCTATGAATTCCACT
131 TATCAATCCACACAATGCCAATGAAAGGATATCATCAACTCTTTCATAGAGCTATGAATTCCACT
24762000 GTTGCTAGTAAAGTAATGCCATACACAAGTCATGTACCCAACATACCAGCTATGGACTCGATTAT
196 GTTGCTAGTAAAGTAATGCCATACACAAGTCATGTACCCAACATACCAGCTATGGACTCGATTAT
* *
24762065 CTTTAGAGCATAAGCTTCCACTTATATCAAAGCACCTGAATTGCATACGCATGGTCAGCGATTAA
261 CTTTAGAGCATAAGCCTCCACTTATATCAAAGCACCTGAATAGCATACGCATGGTCAGCGATTAA
* *
24762130 CTCAGGATTTAGGTAAATTACACCATGAACATCACAAGTATTCATAAACAGATTCAAAATTAATT
326 CTCAAGATTTAGGTAAATTACACCATGAACATCACAAGTATTCACAAACAGATTCAAAATTAATT
* *
24762195 CATCTTGGATCCAGTCTAATGTATC
391 CATCTTGGATCCAATCCAATGTATC
24762220 ATTC
1 ATTC
24762224 TACCAATGAA
Statistics
Matches: 398, Mismatches: 20, Indels: 2
0.95 0.05 0.00
Matches are distributed among these distances:
414 2 0.01
415 396 0.99
ACGTcount: A:0.34, C:0.22, G:0.13, T:0.31
Consensus pattern (415 bp):
ATTCATACAATCCTATTTTATCTCATTGTCACCATTGTGTCTTCTTAATGATTAATATGACCACT
GTCAACAAATAACTATGATAAATTGCTCATTCGAGAACAAGCAACCTGTTGCCACGTTCCATATT
TATCAATCCACACAATGCCAATGAAAGGATATCATCAACTCTTTCATAGAGCTATGAATTCCACT
GTTGCTAGTAAAGTAATGCCATACACAAGTCATGTACCCAACATACCAGCTATGGACTCGATTAT
CTTTAGAGCATAAGCCTCCACTTATATCAAAGCACCTGAATAGCATACGCATGGTCAGCGATTAA
CTCAAGATTTAGGTAAATTACACCATGAACATCACAAGTATTCACAAACAGATTCAAAATTAATT
CATCTTGGATCCAATCCAATGTATC
Found at i:24767473 original size:47 final size:47
Alignment explanation
Indices: 24767403--24767903 Score: 772
Period size: 47 Copynumber: 10.6 Consensus size: 47
24767393 GATAATTGTG
24767403 ATGTG-AA-TGTATATAATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATAT-ATGTGATAAGGCCTAATGGCCGATGTGATGA
* * *
24767449 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGTCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
24767496 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
24767545 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
24767592 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
24767639 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
24767688 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
24767737 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
24767784 ATGTGAAAGTGTATATATGTGATTAGGTCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * *
24767831 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
24767878 ATGTGAATGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
24767904 TCCCGAAGGG
Statistics
Matches: 422, Mismatches: 27, Indels: 11
0.92 0.06 0.02
Matches are distributed among these distances:
46 5 0.01
47 272 0.64
48 7 0.02
49 138 0.33
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.30
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:24767532 original size:96 final size:96
Alignment explanation
Indices: 24767403--24767903 Score: 777
Period size: 96 Copynumber: 5.3 Consensus size: 96
24767393 GATAATTGTG
24767403 ATGTG-AA-TGTATATA-ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
* * *
24767465 ATGTGATAAGGCCGAATGGTCAATGTGATGA
66 ATGTGATAAGGCCTAATGGCCGATGTGATGA
24767496 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
24767561 ATGTGATAAGGCCTAATGGCCGATGTGATGA
66 ATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
24767592 ATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TAT
24767655 ATATGTGATAAGGCCTAATGGCCGATGTGATGA
64 ATATGTGATAAGGCCTAATGGCCGATGTGATGA
24767688 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
*
24767753 ATGTGATAAGGCCTAATAGCCGATGTGATGA
66 ATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
24767784 ATGTGAAAGTG--TATATATGTGATTAGGTCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
* * * * * * *
24767847 ATGTGACAGGGCCGAGTGGCCAACGTGATGG
66 ATGTGATAAGGCCTAATGGCCGATGTGATGA
*
24767878 ATGTGAATGTGTATA-A-ATGTGATAAG
1 ATGTGAAAGTGTATATATATGTGATAAG
24767904 TCCCGAAGGG
Statistics
Matches: 379, Mismatches: 20, Indels: 17
0.91 0.05 0.04
Matches are distributed among these distances:
93 5 0.01
94 139 0.37
95 9 0.02
96 181 0.48
98 45 0.12
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.30
Consensus pattern (96 bp):
ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
ATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:24767676 original size:143 final size:143
Alignment explanation
Indices: 24767403--24767903 Score: 812
Period size: 143 Copynumber: 3.5 Consensus size: 143
24767393 GATAATTGTG
24767403 ATGTG-AA-TGTATATAATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 ATGTGAAAGTGTATAT-ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
*
24767466 TGTGATAAGGCCGAATGGTCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAAT
65 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAAT
24767531 GGCCGATGTGATGA
130 GGCCGATGTGATGA
24767545 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
24767610 GTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATG
66 GTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATG
24767675 GCCGATGTGATGA
131 GCCGATGTGATGA
24767688 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
* * * * *
24767753 ATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATTAGGTCTAA
64 ATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAA
24767816 TGGCCGATGTGATGA
129 TGGCCGATGTGATGA
* * * * * * * * *
24767831 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAATGTGTATAAAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
24767896 GTGATAAG
66 GTGATAAG
24767904 TCCCGAAGGG
Statistics
Matches: 340, Mismatches: 15, Indels: 9
0.93 0.04 0.02
Matches are distributed among these distances:
141 53 0.16
142 5 0.01
143 184 0.54
144 7 0.02
145 91 0.27
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.30
Consensus pattern (143 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
GTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATG
GCCGATGTGATGA
Found at i:24769751 original size:24 final size:24
Alignment explanation
Indices: 24769724--24769771 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
24769714 TTTACTGCAA
*
24769724 TATTGAGTGGTTTGGGCACAACGT
1 TATTGAGTGGTTTGGCCACAACGT
*
24769748 TATTGAGTGGTTTGTCCACAACGT
1 TATTGAGTGGTTTGGCCACAACGT
24769772 ACAGCTTGAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.21, C:0.15, G:0.29, T:0.35
Consensus pattern (24 bp):
TATTGAGTGGTTTGGCCACAACGT
Found at i:24777953 original size:18 final size:18
Alignment explanation
Indices: 24777930--24778004 Score: 82
Period size: 18 Copynumber: 4.3 Consensus size: 18
24777920 TATTTAAATT
24777930 ATTATAGAACGTGTAAAA
1 ATTATAGAACGTGTAAAA
*
24777948 ATTATAAAACGTGTAAAA
1 ATTATAGAACGTGTAAAA
** ***
24777966 ATTATA-AAAATG-ATTT
1 ATTATAGAACGTGTAAAA
24777982 ATTATAGAACGTGTAAAA
1 ATTATAGAACGTGTAAAA
24778000 ATTAT
1 ATTAT
24778005 TATGAAAATT
Statistics
Matches: 44, Mismatches: 11, Indels: 4
0.75 0.19 0.07
Matches are distributed among these distances:
16 7 0.16
17 8 0.18
18 29 0.66
ACGTcount: A:0.51, C:0.04, G:0.12, T:0.33
Consensus pattern (18 bp):
ATTATAGAACGTGTAAAA
Found at i:24777985 original size:52 final size:49
Alignment explanation
Indices: 24777925--24778061 Score: 159
Period size: 52 Copynumber: 2.7 Consensus size: 49
24777915 CCCTTTATTT
* * *
24777925 AAATTATTATAGAACGTGTAAAAATTATAAAACGTGTAAAAATTA-TAAA
1 AAATTATTATAGAACGTGTAAAAATTATAAAAAGTATAAAAAATACT-AA
* *
24777974 AATGATTTATTATAGAACGTGTAAAAATTATTATGAAAATTATAAAAAATACTAT
1 AA--A-TTATTATAGAACGTGTAAAAATTA-TA--AAAAGTATAAAAAATACTAA
24778029 AAATTATTATAGAACGTGTAAAAATTATAAAAA
1 AAATTATTATAGAACGTGTAAAAATTATAAAAA
24778062 TAATTTAAAA
Statistics
Matches: 76, Mismatches: 5, Indels: 14
0.80 0.05 0.15
Matches are distributed among these distances:
49 6 0.08
51 3 0.04
52 48 0.63
53 3 0.04
55 15 0.20
56 1 0.01
ACGTcount: A:0.54, C:0.04, G:0.09, T:0.33
Consensus pattern (49 bp):
AAATTATTATAGAACGTGTAAAAATTATAAAAAGTATAAAAAATACTAA
Found at i:24778062 original size:49 final size:51
Alignment explanation
Indices: 24777924--24778080 Score: 148
Period size: 52 Copynumber: 3.1 Consensus size: 51
24777914 ACCCTTTATT
* * *
24777924 TAAATTATTATAGAACGTGTAAAAATTA-TA-AAACGT--GTAAAAATTATAA
1 TAAATTATTATAGAACGTGTAAAAATTATTAGAAA-ATAATTAAAAAATAT-A
* *
24777973 AAATGATTTATTATAGAACGTGTAAAAATTATTATGAAAATTA-TAAAAAATACTA
1 TAA--A-TTATTATAGAACGTGTAAAAATTATTA-GAAAATAATTAAAAAATA-TA
*
24778028 TAAATTATTATAGAACGTGTAAAAATTA-TA-AAAATAATTTAAAAATATA
1 TAAATTATTATAGAACGTGTAAAAATTATTAGAAAATAATTAAAAAATATA
24778077 TAAA
1 TAAA
24778081 AAAATTTATT
Statistics
Matches: 92, Mismatches: 6, Indels: 20
0.78 0.05 0.17
Matches are distributed among these distances:
49 14 0.15
50 8 0.09
51 3 0.03
52 48 0.52
53 3 0.03
54 1 0.01
55 14 0.15
56 1 0.01
ACGTcount: A:0.55, C:0.03, G:0.08, T:0.34
Consensus pattern (51 bp):
TAAATTATTATAGAACGTGTAAAAATTATTAGAAAATAATTAAAAAATATA
Found at i:24778072 original size:21 final size:20
Alignment explanation
Indices: 24778047--24778088 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
24778037 ATAGAACGTG
24778047 TAAAAAT-TATAAAAATAATT
1 TAAAAATATATAAAAA-AATT
24778067 TAAAAATATATAAAAAAATT
1 TAAAAATATATAAAAAAATT
24778087 TA
1 TA
24778089 TTTGATCCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (20 bp):
TAAAAATATATAAAAAAATT
Found at i:24780741 original size:15 final size:14
Alignment explanation
Indices: 24780720--24780755 Score: 63
Period size: 15 Copynumber: 2.5 Consensus size: 14
24780710 ATAATCCTTA
24780720 ATAATTATCTTAAT
1 ATAATTATCTTAAT
24780734 ATTAATTATCTTAAT
1 A-TAATTATCTTAAT
24780749 ATAATTA
1 ATAATTA
24780756 AAATAGAGTC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 7 0.33
15 14 0.67
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (14 bp):
ATAATTATCTTAAT
Found at i:24781360 original size:17 final size:16
Alignment explanation
Indices: 24781320--24781367 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
24781310 TTTTTTTCGT
24781320 TTTTATTTATTT-TGA
1 TTTTATTTATTTATGA
*
24781335 TTTTGATTTATTTATTA
1 TTTT-ATTTATTTATGA
*
24781352 TTTATATTTTTTTATG
1 TTT-TATTTATTTATG
24781368 CTTTAGGAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
15 4 0.15
16 8 0.30
17 14 0.52
18 1 0.04
ACGTcount: A:0.21, C:0.00, G:0.06, T:0.73
Consensus pattern (16 bp):
TTTTATTTATTTATGA
Found at i:24782432 original size:8 final size:7
Alignment explanation
Indices: 24782402--24782474 Score: 52
Period size: 6 Copynumber: 11.0 Consensus size: 7
24782392 TTAATATCCA
*
24782402 AATAAGT
1 AATAAAT
24782409 AATAAAT
1 AATAAAT
24782416 AAT-AA-
1 AATAAAT
24782421 AATAAAGT
1 AATAAA-T
24782429 AATAAAT
1 AATAAAT
*
24782436 AAAGTAAAG
1 -AA-TAAAT
24782445 AA-AAA-
1 AATAAAT
24782450 AATAAA-
1 AATAAAT
24782456 AATAAA-
1 AATAAAT
24782462 AATAAAT
1 AATAAAT
24782469 AA-AAAT
1 AATAAAT
24782475 TGGGTTGCCT
Statistics
Matches: 57, Mismatches: 2, Indels: 15
0.77 0.03 0.20
Matches are distributed among these distances:
5 5 0.09
6 26 0.46
7 12 0.21
8 10 0.18
9 4 0.07
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (7 bp):
AATAAAT
Found at i:24782438 original size:17 final size:16
Alignment explanation
Indices: 24782416--24782472 Score: 62
Period size: 17 Copynumber: 3.4 Consensus size: 16
24782406 AGTAATAAAT
24782416 AATAAAATAAAGTAATA
1 AATAAAATAAAG-AATA
* *
24782433 AATAAAGTAAAGAAAAA
1 AATAAAATAAAG-AATA
24782450 AATAAAAATAAA-AATA
1 AAT-AAAATAAAGAATA
24782466 AATAAAA
1 AATAAAA
24782473 ATTGGGTTGC
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
15 4 0.12
16 6 0.18
17 17 0.50
18 7 0.21
ACGTcount: A:0.77, C:0.00, G:0.05, T:0.18
Consensus pattern (16 bp):
AATAAAATAAAGAATA
Found at i:24782473 original size:17 final size:17
Alignment explanation
Indices: 24782409--24782473 Score: 55
Period size: 20 Copynumber: 3.7 Consensus size: 17
24782399 CCAAATAAGT
24782409 AATAAATAATAAAATAAA
1 AATAAATAA-AAAATAAA
*
24782427 GTAATAAATAAAGTAAA-GAA
1 --AATAAATAAA--AAATAAA
24782447 AA-AAAT-AAAAATAAA
1 AATAAATAAAAAATAAA
24782462 AATAAATAAAAA
1 AATAAATAAAAA
24782474 TTGGGTTGCC
Statistics
Matches: 38, Mismatches: 2, Indels: 13
0.72 0.04 0.25
Matches are distributed among these distances:
14 3 0.08
15 4 0.11
16 6 0.16
17 8 0.21
18 2 0.05
19 1 0.03
20 11 0.29
21 3 0.08
ACGTcount: A:0.77, C:0.00, G:0.05, T:0.18
Consensus pattern (17 bp):
AATAAATAAAAAATAAA
Found at i:24787553 original size:39 final size:40
Alignment explanation
Indices: 24787508--24787732 Score: 233
Period size: 40 Copynumber: 5.7 Consensus size: 40
24787498 GCTCCTCGTT
* * * *
24787508 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
24787548 C-AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
24787587 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
24787627 CAAAGGCCTTCGGGGCTTAACCCGGAACTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * * *
24787667 CAAATGCCTTC-GGATCTTATTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
24787708 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
24787733 CAGCATTCAA
Statistics
Matches: 156, Mismatches: 23, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
39 38 0.24
40 104 0.67
41 14 0.09
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:24791875 original size:15 final size:14
Alignment explanation
Indices: 24791854--24791889 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
24791844 ATAATCCTTA
*
24791854 ATAATTATCTTAAT
1 ATAATTATCCTAAT
24791868 ATTAATTATCCTAAT
1 A-TAATTATCCTAAT
24791883 ATAATTA
1 ATAATTA
24791890 AAATAGGGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.47
Consensus pattern (14 bp):
ATAATTATCCTAAT
Found at i:24796661 original size:34 final size:35
Alignment explanation
Indices: 24796605--24796671 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
24796595 CAAACACCAG
* *
24796605 AAAATATTTTCCAGTAAGTCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
* *
24796640 AAAACATTTTTCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
24796672 CATTTTACTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 16 0.57
35 12 0.43
ACGTcount: A:0.45, C:0.12, G:0.10, T:0.33
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:24796663 original size:14 final size:14
Alignment explanation
Indices: 24796640--24796679 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
24796630 ACAGAAAAGT
*
24796640 AAAACATTTTTCAG
1 AAAACATTTTACAG
* *
24796654 AAATCATTTTACGG
1 AAAACATTTTACAG
24796668 AAAACATTTTAC
1 AAAACATTTTAC
24796680 TGCCAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.15, G:0.07, T:0.35
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:24797838 original size:29 final size:29
Alignment explanation
Indices: 24797797--24797859 Score: 67
Period size: 29 Copynumber: 2.2 Consensus size: 29
24797787 GAAAATTTGG
*
24797797 ATTTAATTATTATAT-TTTT-ATTTTTAGAA
1 ATTTAATTATTAT-TCTTTTAAATTTTA-AA
* *
24797826 ATTTATTTTTTATTCTTTTAAATTTTAAA
1 ATTTAATTATTATTCTTTTAAATTTTAAA
24797855 ATTTA
1 ATTTA
24797860 GATTTAATTA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
28 1 0.03
29 22 0.76
30 6 0.21
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (29 bp):
ATTTAATTATTATTCTTTTAAATTTTAAA
Found at i:24808737 original size:49 final size:49
Alignment explanation
Indices: 24808644--24808740 Score: 126
Period size: 49 Copynumber: 2.0 Consensus size: 49
24808634 ATCTATTTAT
* * * *
24808644 AGGTTGAAAAACCTTATTCTAATCAATCATGAATAGATACAGTATAGTA
1 AGGTTGAAAAACCTTAATCTAATCAATCATAAATAGAAAAAGTATAGTA
24808693 AGGTTGAAAAACCTTAATCTAATCAAT-ATAAAATA-AAAGAAGTATAGT
1 AGGTTGAAAAACCTTAATCTAATCAATCAT-AAATAGAAA-AAGTATAGT
24808741 TCTATATAGA
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
48 4 0.10
49 38 0.90
ACGTcount: A:0.47, C:0.10, G:0.13, T:0.29
Consensus pattern (49 bp):
AGGTTGAAAAACCTTAATCTAATCAATCATAAATAGAAAAAGTATAGTA
Done.