Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D10
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 67973905
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 87 of 228
Found at i:25704852 original size:81 final size:80
Alignment explanation
Indices: 25704704--25705036 Score: 321
Period size: 81 Copynumber: 4.1 Consensus size: 80
25704694 CCCCAAAATA
* * * * * * * *
25704704 GGTAAAATAACCAAAATACCTCATAAGATAAAATGACCAAAATA-CTCCATAGGGTAGAATAATC
1 GGTAAAATGACCAAAATACCCCATAAGGTAAAATAACCGAAATACCCCCATAGGGTAAAATAACC
*
25704768 GAAATACCCTTATAG
66 GAAATACCCTCATAG
**
25704783 GGTAAAATGACCAAAATACCTTTATAAGGTAAAATAACCGAAATACCCCCATAGGGTAAAATAAC
1 GGTAAAATGACCAAAATACC-CCATAAGGTAAAATAACCGAAATACCCCCATAGGGTAAAATAAC
25704848 CGAAATACCCTCATAG
65 CGAAATACCCTCATAG
*** * * * ** **
25704864 GGTAAAATGATTGAAATACGCCCATAGGGTAAAATGAA-TGAAATACCCCCACAGGGTAGTATTG
1 GGTAAAATGACCAAAATAC-CCCATAAGGTAAAAT-AACCGAAATACCCCCATAGGGTAAAATAA
* * *
25704928 CCAAAAGACCCCCATAG
64 CCGAAATACCCTCATAG
* * * * * **
25704945 GGTAAAATGACCAAAATACCCCCACAGGGTAGAATGACTGAAATACCATCATAGGGTAAAATAAC
1 GGTAAAATGACCAAAATA-CCCCATAAGGTAAAATAACCGAAATACCCCCATAGGGTAAAATAAC
25705010 CGAAATA-CCTCCATAG
65 CGAAATACCCT-CATAG
25705026 GGTAAAATGAC
1 GGTAAAATGAC
25705037 TGTTATACCC
Statistics
Matches: 207, Mismatches: 40, Indels: 12
0.80 0.15 0.05
Matches are distributed among these distances:
79 19 0.09
80 23 0.11
81 161 0.78
82 4 0.02
ACGTcount: A:0.44, C:0.20, G:0.17, T:0.19
Consensus pattern (80 bp):
GGTAAAATGACCAAAATACCCCATAAGGTAAAATAACCGAAATACCCCCATAGGGTAAAATAACC
GAAATACCCTCATAG
Found at i:25705045 original size:27 final size:27
Alignment explanation
Indices: 25704704--25705036 Score: 275
Period size: 27 Copynumber: 12.4 Consensus size: 27
25704694 CCCCAAAATA
* * *
25704704 GGTAAAATAACCAAAATACCT-CATAA
1 GGTAAAATGACCGAAATACCTCCATAG
* *
25704730 GATAAAATGACCAAAATA-CTCCATAG
1 GGTAAAATGACCGAAATACCTCCATAG
* * * *
25704756 GGTAGAATAATCGAAATACC-CTTATAG
1 GGTAAAATGACCGAAATACCTC-CATAG
* ** *
25704783 GGTAAAATGACCAAAATACCTTTATAA
1 GGTAAAATGACCGAAATACCTCCATAG
* *
25704810 GGTAAAATAACCGAAATACCCCCATAG
1 GGTAAAATGACCGAAATACCTCCATAG
*
25704837 GGTAAAATAACCGAAATACC-CTCATAG
1 GGTAAAATGACCGAAATACCTC-CATAG
**
25704864 GGTAAAATGATTGAAATACGC-CCATAG
1 GGTAAAATGACCGAAATAC-CTCCATAG
** * *
25704891 GGTAAAATGAATGAAATACCCCCACAG
1 GGTAAAATGACCGAAATACCTCCATAG
* * * * *
25704918 GGTAGTATTG-CCAAAAGACCCCCATAG
1 GGTA-AAATGACCGAAATACCTCCATAG
* * *
25704945 GGTAAAATGACCAAAATACCCCCACAG
1 GGTAAAATGACCGAAATACCTCCATAG
* *
25704972 GGTAGAATGACTGAAATACCAT-CATAG
1 GGTAAAATGACCGAAATACC-TCCATAG
*
25704999 GGTAAAATAACCGAAATACCTCCATAG
1 GGTAAAATGACCGAAATACCTCCATAG
25705026 GGTAAAATGAC
1 GGTAAAATGAC
25705037 TGTTATACCC
Statistics
Matches: 250, Mismatches: 46, Indels: 21
0.79 0.15 0.07
Matches are distributed among these distances:
25 2 0.01
26 40 0.16
27 203 0.81
28 5 0.02
ACGTcount: A:0.44, C:0.20, G:0.17, T:0.19
Consensus pattern (27 bp):
GGTAAAATGACCGAAATACCTCCATAG
Found at i:25717707 original size:19 final size:20
Alignment explanation
Indices: 25717683--25717728 Score: 85
Period size: 19 Copynumber: 2.4 Consensus size: 20
25717673 CATCCAAACA
25717683 CCAGAAAAGTAAATCA-TTT
1 CCAGAAAAGTAAATCATTTT
25717702 CCAGAAAAGTAAATCATTTT
1 CCAGAAAAGTAAATCATTTT
25717722 CCAGAAA
1 CCAGAAA
25717729 TCATTTTTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 16 0.62
20 10 0.38
ACGTcount: A:0.48, C:0.17, G:0.11, T:0.24
Consensus pattern (20 bp):
CCAGAAAAGTAAATCATTTT
Found at i:25718327 original size:26 final size:26
Alignment explanation
Indices: 25718289--25718348 Score: 93
Period size: 26 Copynumber: 2.3 Consensus size: 26
25718279 CTGTAAGTGC
*
25718289 TCTGAAACTGATACATGTTATGATAT
1 TCTGAAACGGATACATGTTATGATAT
*
25718315 TCTGAAACGGATATATGTTATGATAT
1 TCTGAAACGGATACATGTTATGATAT
*
25718341 TCTAAAAC
1 TCTGAAAC
25718349 TACTGTAGGT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.37
Consensus pattern (26 bp):
TCTGAAACGGATACATGTTATGATAT
Found at i:25720281 original size:16 final size:16
Alignment explanation
Indices: 25720260--25720291 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
25720250 ATTGCTTCCA
25720260 TTCCTAACTGGTGGTG
1 TTCCTAACTGGTGGTG
25720276 TTCCTAACTGGTGGTG
1 TTCCTAACTGGTGGTG
25720292 GTCGAGGATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.12, C:0.19, G:0.31, T:0.38
Consensus pattern (16 bp):
TTCCTAACTGGTGGTG
Found at i:25721175 original size:27 final size:27
Alignment explanation
Indices: 25720834--25721257 Score: 367
Period size: 27 Copynumber: 15.7 Consensus size: 27
25720824 ATACCTTTGA
* * * *
25720834 AGGGTAAAATAATCGAAATACCCTCGAT
1 AGGGTAAAATGACCGTAATACCC-CTAT
* * * *
25720862 -GGGTAAAATGACTGAAATACCATCGAT
1 AGGGTAAAATGACCGTAATACC-CCTAT
* * * *
25720889 -GGGTAAAATAACCGAAATACTCTCGAT
1 AGGGTAAAATGACCGTAATAC-CCCTAT
* * *
25720916 A-GGTAAAATGACTGAAATACCCTCAAT
1 AGGGTAAAATGACCGTAATACCC-CTAT
** *
25720943 -GGGTAAAATGACCAAAATACCCTTGAT
1 AGGGTAAAATGACCGTAATACCCCT-AT
*** *
25720970 -GGGTAAAATGACTAAAATACCCTTGAT
1 AGGGTAAAATGACCGTAATACCCCT-AT
*
25720997 -GGGTAAAATGACCGAAATACCCCTAT
1 AGGGTAAAATGACCGTAATACCCCTAT
* *
25721023 AGGGTAAAATGACCGTAATACCCTTGT
1 AGGGTAAAATGACCGTAATACCCCTAT
* * *
25721050 AGGGTAAAATAACTGTAATACCCTTAT
1 AGGGTAAAATGACCGTAATACCCCTAT
* * *
25721077 AGGGTAAAATGACCGTAATGCTCCTGT
1 AGGGTAAAATGACCGTAATACCCCTAT
* * *
25721104 AGGGTAAAATGATCGTAATATCCCTGT
1 AGGGTAAAATGACCGTAATACCCCTAT
25721131 AGGGTAAAATGACCGTAATACCCCTAT
1 AGGGTAAAATGACCGTAATACCCCTAT
* * * *
25721158 AGGGTAAAATTACTGTAATGCCTCTATT
1 AGGGTAAAATGACCGTAATACCCCTA-T
*
25721186 A-GGTAAAATGACCGTAATGCCCCTAT
1 AGGGTAAAATGACCGTAATACCCCTAT
*
25721212 AGGATAAAATGACCGTAATACCCCTAT
1 AGGGTAAAATGACCGTAATACCCCTAT
*
25721239 AGGGTAAAATGACCATAAT
1 AGGGTAAAATGACCGTAAT
25721258 GCCCTGGTGG
Statistics
Matches: 339, Mismatches: 48, Indels: 19
0.83 0.12 0.05
Matches are distributed among these distances:
26 5 0.01
27 331 0.98
28 3 0.01
ACGTcount: A:0.38, C:0.18, G:0.19, T:0.25
Consensus pattern (27 bp):
AGGGTAAAATGACCGTAATACCCCTAT
Found at i:25721286 original size:26 final size:26
Alignment explanation
Indices: 25721257--25721308 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
25721247 ATGACCATAA
* *
25721257 TGCCCTGGTGGGTAAATGACTATTTT
1 TGCCCTCGTGAGTAAATGACTATTTT
* *
25721283 TGCCCTCGTGATTAAATGATTATTTT
1 TGCCCTCGTGAGTAAATGACTATTTT
25721309 GTCTGTGGTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.21, C:0.15, G:0.21, T:0.42
Consensus pattern (26 bp):
TGCCCTCGTGAGTAAATGACTATTTT
Found at i:25721324 original size:23 final size:23
Alignment explanation
Indices: 25721294--25721350 Score: 78
Period size: 23 Copynumber: 2.4 Consensus size: 23
25721284 GCCCTCGTGA
*
25721294 TTAAATGATTATTTTGTCTGTGG
1 TTAAATGATTAATTTGTCTGTGG
* *
25721317 TTAAATGACTAATTTGTCTGTGT
1 TTAAATGATTAATTTGTCTGTGG
25721340 TTAATATGATT
1 TTAA-ATGATT
25721351 GATGTGTTTG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
23 24 0.83
24 5 0.17
ACGTcount: A:0.26, C:0.05, G:0.18, T:0.51
Consensus pattern (23 bp):
TTAAATGATTAATTTGTCTGTGG
Found at i:25721491 original size:27 final size:27
Alignment explanation
Indices: 25721442--25721506 Score: 73
Period size: 27 Copynumber: 2.4 Consensus size: 27
25721432 ATGGAAGAAG
*
25721442 TACTA-TACTGGTGGCTCTACCACA-A
1 TACTATTACTGGTGGCTATACCACATA
*
25721467 TCACTGTTACTGGTGGC-ATAGCCACATA
1 T-ACTATTACTGGTGGCTATA-CCACATA
25721495 TACTATTACTGG
1 TACTATTACTGG
25721507 CAACTTTGCT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
25 1 0.03
26 5 0.15
27 25 0.76
28 2 0.06
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.31
Consensus pattern (27 bp):
TACTATTACTGGTGGCTATACCACATA
Found at i:25721526 original size:26 final size:26
Alignment explanation
Indices: 25721494--25721547 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 26
25721484 ATAGCCACAT
25721494 ATACTATTACTGGCAACTTTGCTGCG
1 ATACTATTACTGGCAACTTTGCTGCG
* *
25721520 ATACTATTGCTGGCAGCTTTGCTGCG
1 ATACTATTACTGGCAACTTTGCTGCG
25721546 AT
1 AT
25721548 GCTACTGATG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.35
Consensus pattern (26 bp):
ATACTATTACTGGCAACTTTGCTGCG
Found at i:25721559 original size:26 final size:26
Alignment explanation
Indices: 25721504--25721559 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 26
25721494 ATACTATTAC
* *
25721504 TGGCAACTTTGCTGCGATACTATTGC
1 TGGCAACTTTGCTGCGATACTACTGA
* *
25721530 TGGCAGCTTTGCTGCGATGCTACTGA
1 TGGCAACTTTGCTGCGATACTACTGA
25721556 TGGC
1 TGGC
25721560 TTTGTGTTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.16, C:0.23, G:0.29, T:0.32
Consensus pattern (26 bp):
TGGCAACTTTGCTGCGATACTACTGA
Found at i:25721805 original size:32 final size:32
Alignment explanation
Indices: 25721550--25721802 Score: 197
Period size: 32 Copynumber: 7.9 Consensus size: 32
25721540 GCTGCGATGC
** *
25721550 TACTGATGGCTTTGTGTTAATCATAGTACCGT
1 TACTGATGGCTTTGTGCCAATCATATTACCGT
*
25721582 TACTGATGGCTTTGTGCCAATCATAGTACCGT
1 TACTGATGGCTTTGTGCCAATCATATTACCGT
* * *
25721614 TACTGATGACTTTATGCCGATCATATTACCGT
1 TACTGATGGCTTTGTGCCAATCATATTACCGT
* * * * *
25721646 TA-TCGATGACTATGTGCCGATTAT-TTCACTGT
1 TACT-GATGGCTTTGTGCCAATCATATT-ACCGT
* * * * *
25721678 TACTGATGGCTGTGTG-TAGATCATATCACTGC
1 TACTGATGGCTTTGTGCCA-ATCATATTACCGT
* * * * *
25721710 CACTAATGGCTTTGTACCGATCATGTTACCGT
1 TACTGATGGCTTTGTGCCAATCATATTACCGT
* * * * *
25721742 TACTGATGGCTATATGCCGATCATATCACTGT
1 TACTGATGGCTTTGTGCCAATCATATTACCGT
* *
25721774 TACTGATGGCTTTGTGCTAATCACATTAC
1 TACTGATGGCTTTGTGCCAATCATATTAC
25721803 TGTACGTATG
Statistics
Matches: 174, Mismatches: 41, Indels: 12
0.77 0.18 0.05
Matches are distributed among these distances:
31 3 0.02
32 169 0.97
33 2 0.01
ACGTcount: A:0.23, C:0.21, G:0.20, T:0.37
Consensus pattern (32 bp):
TACTGATGGCTTTGTGCCAATCATATTACCGT
Found at i:25734452 original size:29 final size:29
Alignment explanation
Indices: 25734413--25734484 Score: 90
Period size: 29 Copynumber: 2.4 Consensus size: 29
25734403 ATAATTGCAG
*
25734413 AAAATCTACCAAATAAATAATAAATGCGAT
1 AAAATC-ACCAAATAAAGAATAAATGCGAT
* *
25734443 AAAATCACCAAATAACGAATAAATGTGAT
1 AAAATCACCAAATAAAGAATAAATGCGAT
* *
25734472 AAGATCGCCAAAT
1 AAAATCACCAAAT
25734485 CTCGTTCAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
29 31 0.84
30 6 0.16
ACGTcount: A:0.54, C:0.15, G:0.10, T:0.21
Consensus pattern (29 bp):
AAAATCACCAAATAAAGAATAAATGCGAT
Found at i:25735230 original size:41 final size:41
Alignment explanation
Indices: 25735171--25735454 Score: 363
Period size: 41 Copynumber: 6.9 Consensus size: 41
25735161 TTCTGAACTT
25735171 TCGGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGC
* * **
25735212 TTGGGGCTTTAGCGGCGTTTTTGGAAAAGTGTAAG-TAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGGAAAAGCG-CCGCTAATGC
*
25735253 TCGGGGCTTTAGCGGCGTTTTTGCAAAAGCGCCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGC
* *
25735294 TCGGGGCTTTAGCAGCATTTTTGGAAAAGCGCCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGC
**
25735335 TAAGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGC
* ** * * * *
25735376 TAGGGATTTTAGTGGTGTTTTTCGAAAAGCGTCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGC
* * ** *
25735417 TCGGGGTTTTACCGGCGTTTTTCCAAAAACGCCGCTAA
1 TCGGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAA
25735455 AAATATTTTA
Statistics
Matches: 210, Mismatches: 31, Indels: 4
0.86 0.13 0.02
Matches are distributed among these distances:
40 1 0.00
41 208 0.99
42 1 0.00
ACGTcount: A:0.20, C:0.19, G:0.31, T:0.30
Consensus pattern (41 bp):
TCGGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGC
Found at i:25735851 original size:15 final size:14
Alignment explanation
Indices: 25735799--25735847 Score: 62
Period size: 14 Copynumber: 3.4 Consensus size: 14
25735789 ACTATTTAAA
*
25735799 GGTTTAGGGAGTAT
1 GGTTTAGGGATTAT
*
25735813 GGATTTAAGGATTAT
1 GG-TTTAGGGATTAT
*
25735828 GGATTAGGGATTAT
1 GGTTTAGGGATTAT
25735842 GGTTTA
1 GGTTTA
25735848 AGGGTTGGGA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
14 17 0.59
15 12 0.41
ACGTcount: A:0.27, C:0.00, G:0.35, T:0.39
Consensus pattern (14 bp):
GGTTTAGGGATTAT
Found at i:25735981 original size:15 final size:15
Alignment explanation
Indices: 25735947--25735977 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
25735937 TTTTGAGGCA
25735947 TAGGGATTATGTGTT
1 TAGGGATTATGTGTT
25735962 TAGGGATTATG-GTT
1 TAGGGATTATGTGTT
25735976 TA
1 TA
25735978 AGGGTTGGGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.23, C:0.00, G:0.32, T:0.45
Consensus pattern (15 bp):
TAGGGATTATGTGTT
Found at i:25736024 original size:22 final size:22
Alignment explanation
Indices: 25735961--25736053 Score: 66
Period size: 22 Copynumber: 4.2 Consensus size: 22
25735951 GATTATGTGT
* *
25735961 TTAGGGATTAT-GGTTTAAGGG
1 TTAGGGGTTATGGGTTTAGGGG
*
25735982 TT-GGGGTTTAAGCAGGTTTAGGGG
1 TTAGGGG-TTATG--GGTTTAGGGG
*
25736006 TTAGGGGTTATGGGTTTAGGAGA
1 TTAGGGGTTATGGGTTTAGG-GG
* * *
25736029 TT-GGAGTTAGGGGTTTAGGGT
1 TTAGGGGTTATGGGTTTAGGGG
25736050 TTAG
1 TTAG
25736054 ATTAATTGGT
Statistics
Matches: 57, Mismatches: 8, Indels: 13
0.73 0.10 0.17
Matches are distributed among these distances:
20 3 0.05
21 8 0.14
22 24 0.42
23 3 0.05
24 15 0.26
25 4 0.07
ACGTcount: A:0.19, C:0.01, G:0.43, T:0.37
Consensus pattern (22 bp):
TTAGGGGTTATGGGTTTAGGGG
Found at i:25738461 original size:6 final size:6
Alignment explanation
Indices: 25738430--25738460 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
25738420 AACTACTTCA
25738430 TTCTTT TTCTTT TTCTTT TTCTTT TT-TTT TT
1 TTCTTT TTCTTT TTCTTT TTCTTT TTCTTT TT
25738461 TGTGAAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 5 0.20
6 20 0.80
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (6 bp):
TTCTTT
Found at i:25741384 original size:42 final size:43
Alignment explanation
Indices: 25741300--25741389 Score: 130
Period size: 42 Copynumber: 2.1 Consensus size: 43
25741290 CTTTGAGTTC
* *
25741300 ATTA-CAAGATTTCCTTGATTAAGTAAATGTATTATATCTTTT
1 ATTACCAAGATTTACTTGATTAAGTAAATGCATTATATCTTTT
* *
25741342 ATTACCAAGATTTACTTGATTAAG-AAATGCATTGTATTTTTT
1 ATTACCAAGATTTACTTGATTAAGTAAATGCATTATATCTTTT
25741384 ATTACC
1 ATTACC
25741390 TTGCAATGTG
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
42 25 0.58
43 18 0.42
ACGTcount: A:0.33, C:0.11, G:0.10, T:0.46
Consensus pattern (43 bp):
ATTACCAAGATTTACTTGATTAAGTAAATGCATTATATCTTTT
Found at i:25741870 original size:85 final size:84
Alignment explanation
Indices: 25741769--25742054 Score: 335
Period size: 85 Copynumber: 3.4 Consensus size: 84
25741759 CGTTTTTGCG
* * * *
25741769 AAAAGCGTCGCTAAAGGT-TTGTTCTATAGCGGCATTTGTGGGAAAAGCGCCGCTAAAGGTCTTA
1 AAAAGCGCCGCTAAAGGTCTTGATCTATAGCGGC-TTTGTGGGAAAAGCACCGCTAAAGGTCTTG
25741833 AGCTATAGCGACGTTTGTGAA
65 AGCTATAGCGACGTTTGTG-A
* *
25741854 AAAAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTGTGGGAAAAGCTCCGCTAGAA-GTCTTG
1 AAAAGCGCCGCTAAAGGTCTTGATCTATAGCGGCTTTGTGGGAAAAGCACCGCTA-AAGGTCTTG
*
25741918 AGCTATAGCGGA-GTTTGTGC
65 AGCTATAGC-GACGTTTGTGA
* * * * *
25741938 AAAAGCGCCGCTAAAGGTCCTGATCTATAGCGACGTTTGTGGAAAAATCACCGCTAAAGGTCCTG
1 AAAAGCGCCGCTAAAGGTCTTGATCTATAGCGGC-TTTGTGGGAAAAGCACCGCTAAAGGTCTTG
* * * *
25742003 ATCTACAGCGGCGTTTGTGGG
65 AGCTATAGCGACGTTTGT-GA
* *
25742024 AAAAGCGCTGCTAAAGGTCATGATCTATAGC
1 AAAAGCGCCGCTAAAGGTCTTGATCTATAGC
25742055 AGCGTTTATT
Statistics
Matches: 175, Mismatches: 19, Indels: 13
0.85 0.09 0.06
Matches are distributed among these distances:
84 35 0.20
85 92 0.53
86 48 0.27
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (84 bp):
AAAAGCGCCGCTAAAGGTCTTGATCTATAGCGGCTTTGTGGGAAAAGCACCGCTAAAGGTCTTGA
GCTATAGCGACGTTTGTGA
Found at i:25741984 original size:127 final size:129
Alignment explanation
Indices: 25741792--25742029 Score: 365
Period size: 127 Copynumber: 1.9 Consensus size: 129
25741782 AAGGTTTGTT
* *
25741792 CTATAGCGGCATTTGTGGGAAAAGCGCCGCTAAAGGTCTTAAGCTATAGCGACGTTTGTGAAAAA
1 CTATAGCGGCATTTGTGGCAAAAGCGCCGCTAAAGGTCCTAAGCTATAGCGACGTTTGTGAAAAA
* * *
25741857 AGCGCCGCTAAAGGTCTTGATCTATAGCGGCG-TTGTGGGAAAAGCTCCGCTAGAAGTCTTGAG
66 AGCACCGCTAAAGGTCCTGATCTACAGCGGCGTTTGTGGGAAAAGCTCCGCTAGAAGTCTTGAG
* * *
25741920 CTATAGCGG-AGTTTGT-GCAAAAGCGCCGCTAAAGGTCCTGATCTATAGCGACGTTTGTGGAAA
1 CTATAGCGGCA-TTTGTGGCAAAAGCGCCGCTAAAGGTCCTAAGCTATAGCGACGTTTGTGAAAA
*
25741983 AATCACCGCTAAAGGTCCTGATCTACAGCGGCGTTTGTGGGAAAAGC
65 AAGCACCGCTAAAGGTCCTGATCTACAGCGGCGTTTGTGGGAAAAGC
25742030 GCTGCTAAAG
Statistics
Matches: 99, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
127 72 0.73
128 27 0.27
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (129 bp):
CTATAGCGGCATTTGTGGCAAAAGCGCCGCTAAAGGTCCTAAGCTATAGCGACGTTTGTGAAAAA
AGCACCGCTAAAGGTCCTGATCTACAGCGGCGTTTGTGGGAAAAGCTCCGCTAGAAGTCTTGAG
Found at i:25742060 original size:43 final size:43
Alignment explanation
Indices: 25741757--25742061 Score: 357
Period size: 43 Copynumber: 7.2 Consensus size: 43
25741747 TGTTTTTAGT
* * * *
25741757 GGCGTTTTTGCGAAAAGCGTCGCTAAAGGT-TTGTTCTATAGC
1 GGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGATCTATAGC
* * *
25741799 GGCATTTGTGGGAAAAGCGCCGCTAAAGGTCTTAAGCTATAGC
1 GGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGATCTATAGC
* **
25741842 GACGTTTGTGAAAAAAGCGCCGCTAAAGGTCTTGATCTATAGC
1 GGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGATCTATAGC
* *
25741885 GGCG-TTGTGGGAAAAGCTCCGCTAGAA-GTCTTGAGCTATAGC
1 GGCGTTTGTGGGAAAAGCGCCGCTA-AAGGTCTTGATCTATAGC
* * *
25741927 GGAGTTTGT-GCAAAAGCGCCGCTAAAGGTCCTGATCTATAGC
1 GGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGATCTATAGC
* * * * * *
25741969 GACGTTTGTGGAAAAATCACCGCTAAAGGTCCTGATCTACAGC
1 GGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGATCTATAGC
* *
25742012 GGCGTTTGTGGGAAAAGCGCTGCTAAAGGTCATGATCTATAGC
1 GGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGATCTATAGC
*
25742055 AGCGTTT
1 GGCGTTT
25742062 ATTTCTAAAA
Statistics
Matches: 221, Mismatches: 37, Indels: 9
0.83 0.14 0.03
Matches are distributed among these distances:
41 2 0.01
42 93 0.42
43 126 0.57
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (43 bp):
GGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGATCTATAGC
Found at i:25749871 original size:27 final size:26
Alignment explanation
Indices: 25749831--25749887 Score: 69
Period size: 27 Copynumber: 2.2 Consensus size: 26
25749821 TGGAGGCGGT
* *
25749831 ATATAACCACTTCATACATCTATTTCC
1 ATATAAACACTTCATACATCCATTT-C
* *
25749858 ATATAAACATTTCATATATCCATTTC
1 ATATAAACACTTCATACATCCATTTC
25749884 ATAT
1 ATAT
25749888 TACAATTTCT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 5 0.19
27 21 0.81
ACGTcount: A:0.37, C:0.23, G:0.00, T:0.40
Consensus pattern (26 bp):
ATATAAACACTTCATACATCCATTTC
Found at i:25751703 original size:20 final size:20
Alignment explanation
Indices: 25751678--25751723 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
25751668 TTCTCTCTAT
25751678 TTTTGGCGT-TGGCTCCTTGA
1 TTTTGG-GTGTGGCTCCTTGA
*
25751698 TTTTGGGTGGTGGTTCCTTGA
1 TTTTGGGT-GTGGCTCCTTGA
25751719 TTTTG
1 TTTTG
25751724 TCCATGTTGG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 2 0.09
20 6 0.26
21 15 0.65
ACGTcount: A:0.04, C:0.13, G:0.33, T:0.50
Consensus pattern (20 bp):
TTTTGGGTGTGGCTCCTTGA
Found at i:25755398 original size:3 final size:3
Alignment explanation
Indices: 25755390--25755468 Score: 92
Period size: 3 Copynumber: 27.3 Consensus size: 3
25755380 TAAATATAGA
*
25755390 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT GAT -AT AAT -AT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * *
25755436 GAT AAT AAC ATT AAA AAT AAT AAT AAT AA- AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
25755469 GCTAAGAAAA
Statistics
Matches: 64, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
2 6 0.09
3 58 0.91
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:25757078 original size:45 final size:45
Alignment explanation
Indices: 25757019--25757486 Score: 246
Period size: 44 Copynumber: 10.7 Consensus size: 45
25757009 TTGTTTATTT
** * *
25757019 AGTCTGC-CCTACTGCAGTTTCAGGGGGATAAGACTTGATTTCTTG
1 AGTCTGCTCC-ACTGCAACTTCAGGGAGATAAGACTCGATTTCTTG
*
25757064 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTCGCTTTCTTG
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTCGATTTCTTG
* * *
25757109 GGTCTGCTCCACTGCAACTTCAGGGAGATAAGACCCGA-TGC--G
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTCGATTTCTTG
* * *
25757151 A-TCTGCT-CTCTGCAACTTCAGAGAGATAAGATCTGTGA-TT-TT-
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGA-CT-CGATTTCTTG
* * * * * * *
25757193 AATCTACTCCACTGTAACTTCAGGGAGATAGGA-T-TATTGGCTTT
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTCGATT-TCTTG
* * * * *** *
25757237 AATCTGCTCCAGTGTAACTTCAGGGAGATAAGATTCGCCATCTTC
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTCGATTTCTTG
* * * * * *
25757282 AGTCTGC-CTTACTACAACTTCA-GGAGGATAAGGCTTGCTTACTT-
1 AGTCTGCTC-CACTGCAACTTCAGGGA-GATAAGACTCGATTTCTTG
* * *
25757326 AGTCTGCGCCACTGCAACTTCAGGGAGATAAGACTAGA-TGC---
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTCGATTTCTTG
* * ** * *
25757367 AATCTACT-CTTTGCAACTTCAGAGAGATAAGATCTGTGA-TT-TT-
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGA-CT-CGATTTCTTG
* * * * * * *
25757410 AATCCGCTCCACTGCGACTTCAGGGAGATAGGA-TTG-TTGGCTTT
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTCGATT-TCTTG
*
25757454 AATCTGCTCCACTGCAACTTCAGGGAGATAAGA
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGA
25757487 TTCGCCATCT
Statistics
Matches: 330, Mismatches: 67, Indels: 53
0.73 0.15 0.12
Matches are distributed among these distances:
40 44 0.13
41 18 0.05
42 10 0.03
43 17 0.05
44 132 0.40
45 107 0.32
46 2 0.01
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (45 bp):
AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTCGATTTCTTG
Found at i:25757167 original size:40 final size:43
Alignment explanation
Indices: 25757066--25757222 Score: 140
Period size: 45 Copynumber: 3.7 Consensus size: 43
25757056 ATTTCTTGAG
* * * *
25757066 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTCGCTTTCTTGGG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACCCGCATGC-T-GA
25757111 TCTGCTCCACTGCAACTTCAGGGAGATAAGACCCG-ATGC-GA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACCCGCATGCTGA
* * * * * ** *
25757152 TCTGCT-CTCTGCAACTTCAGAGAGATAAGATCTGTGATTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACCCG-CATGCTGA
* *
25757195 TCTACTCCACTGTAACTTCAGGGAGATA
1 TCTGCTCCACTGCAACTTCAGGGAGATA
25757223 GGATTATTGG
Statistics
Matches: 93, Mismatches: 15, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
40 24 0.26
41 7 0.08
42 2 0.02
43 6 0.06
44 20 0.22
45 34 0.37
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.28
Consensus pattern (43 bp):
TCTGCTCCACTGCAACTTCAGGGAGATAAGACCCGCATGCTGA
Found at i:25757398 original size:217 final size:218
Alignment explanation
Indices: 25756969--25757497 Score: 665
Period size: 217 Copynumber: 2.4 Consensus size: 218
25756959 ATTTCAGAGA
* * * * *** *
25756969 GATTCTAATCCACTCCACTACAACTTTAGGGAGATGGGATT-TGTTTATTTAGTCTGC-CCTACT
1 GATTTTAATCCACTCCACTGCAACTTCAGGGAGATAGGATTAT-TGGCTTTAATCTGCTCC-ACT
** * *** * * *
25757032 GCAGTTTCAGGGGGATAAGACTT-GATTTCTTGAGTCTG-CTCCACTGCAACTTCAGGGAGATAA
64 GCAACTTCAGGGAGATAAGA-TTCGCCATCTTCAGTCTGCCT-TACTACAACTTCAGGGAGATAA
* * * * * *
25757095 GACTCGCTTTCTTGGGTCTGCTCCACTGCAACTTCAGGGAGATAAGACCCGATGCGATCTGCTCT
127 GACTCGCTTACTTGAGTCTGCGCCACTGCAACTTCAGGGAGATAAGACCAGATGCAATCTACTCT
25757160 CTGCAACTTCAGAGAGATAAGATCTGT
192 CTGCAACTTCAGAGAGATAAGATCTGT
* * * *
25757187 GATTTTAATCTACTCCACTGTAACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCAGTGT
1 GATTTTAATCCACTCCACTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACTGC
*
25757252 AACTTCAGGGAGATAAGATTCGCCATCTTCAGTCTGCCTTACTACAACTTCA-GGAGGATAAGGC
66 AACTTCAGGGAGATAAGATTCGCCATCTTCAGTCTGCCTTACTACAACTTCAGGGA-GATAAGAC
* * *
25757316 TTGCTTACTT-AGTCTGCGCCACTGCAACTTCAGGGAGATAAGACTAGATGCAATCTACTCTTTG
130 TCGCTTACTTGAGTCTGCGCCACTGCAACTTCAGGGAGATAAGACCAGATGCAATCTACTCTCTG
25757380 CAACTTCAGAGAGATAAGATCTGT
195 CAACTTCAGAGAGATAAGATCTGT
* * *
25757404 GATTTTAATCCGCTCCACTGCGACTTCAGGGAGATAGGATTGTTGGCTTTAATCTGCTCCACTGC
1 GATTTTAATCCACTCCACTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACTGC
25757469 AACTTCAGGGAGATAAGATTCGCCATCTT
66 AACTTCAGGGAGATAAGATTCGCCATCTT
25757498 TGGTCTTTTA
Statistics
Matches: 268, Mismatches: 38, Indels: 11
0.85 0.12 0.03
Matches are distributed among these distances:
217 163 0.61
218 100 0.37
219 5 0.02
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.30
Consensus pattern (218 bp):
GATTTTAATCCACTCCACTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACTGC
AACTTCAGGGAGATAAGATTCGCCATCTTCAGTCTGCCTTACTACAACTTCAGGGAGATAAGACT
CGCTTACTTGAGTCTGCGCCACTGCAACTTCAGGGAGATAAGACCAGATGCAATCTACTCTCTGC
AACTTCAGAGAGATAAGATCTGT
Found at i:25757969 original size:44 final size:44
Alignment explanation
Indices: 25757852--25757973 Score: 149
Period size: 44 Copynumber: 2.8 Consensus size: 44
25757842 ATCTGCTATT
* * *
25757852 TTCAACCTACTCCACTGTTGCTC-AGGTAAATAGGATTCACAATC
1 TTCAACCTATTCCACTGTTGATCAAGG-AGATAGGATTCACAATC
* * *
25757896 TTCAACCTATTCCATTGTTGACCAGGGAGATAGGACTT-ACAATC
1 TTCAACCTATTCCACTGTTGATCAAGGAGATAGGA-TTCACAATC
*
25757940 TTCAACCTATTCCACTGTTGTTCAAGGAGATAGG
1 TTCAACCTATTCCACTGTTGATCAAGGAGATAGG
25757974 GCTAAGGTCA
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
44 62 0.94
45 4 0.06
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (44 bp):
TTCAACCTATTCCACTGTTGATCAAGGAGATAGGATTCACAATC
Found at i:25758043 original size:45 final size:44
Alignment explanation
Indices: 25757992--25758123 Score: 122
Period size: 44 Copynumber: 3.0 Consensus size: 44
25757982 CATCGATCTG
*
25757992 CTTCGCTGTCGATGCAGGAAGGTAAGATATGCTATTTTTAACCTA
1 CTTCGCTGTCGATGCAGGAAGGCAAGAT-TGCTATTTTTAACCTA
* ** * * * * * * * *
25758037 CTTCGCTG-CAACCCAGGGAGGCAAGGTTGGTGTCTTCAATCTG
1 CTTCGCTGTCGATGCAGGAAGGCAAGATTGCTATTTTTAACCTA
*
25758080 CTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCT
1 CTTCGCTGTCGATGCAGGAAGGCAAGAT-TGCTATTTTTAACCT
25758124 GCTCCGCTAC
Statistics
Matches: 62, Mismatches: 23, Indels: 4
0.70 0.26 0.04
Matches are distributed among these distances:
43 18 0.29
44 26 0.42
45 18 0.29
ACGTcount: A:0.22, C:0.22, G:0.26, T:0.30
Consensus pattern (44 bp):
CTTCGCTGTCGATGCAGGAAGGCAAGATTGCTATTTTTAACCTA
Found at i:25758087 original size:43 final size:43
Alignment explanation
Indices: 25758037--25758171 Score: 126
Period size: 44 Copynumber: 3.1 Consensus size: 43
25758027 TTTTAACCTA
25758037 CTTCGCTGCAACCCAGGGAGGCAAGGTTGGTGTCTTCAATCTG
1 CTTCGCTGCAACCCAGGGAGGCAAGGTTGGTGTCTTCAATCTG
**** * * * * * * *
25758080 CTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTG
1 CTTCGCTG-CAACCCAGGGAGGCAAGGT-TGGTGTCTTCAATCTG
* * *
25758125 CTCCGCTACAACCCAGGGAGGCAAGGTTGGTGTCTTCGATCTG
1 CTTCGCTGCAACCCAGGGAGGCAAGGTTGGTGTCTTCAATCTG
25758168 CTTC
1 CTTC
25758172 ACTGTCGGTG
Statistics
Matches: 64, Mismatches: 26, Indels: 4
0.68 0.28 0.04
Matches are distributed among these distances:
43 21 0.33
44 26 0.41
45 17 0.27
ACGTcount: A:0.19, C:0.26, G:0.28, T:0.27
Consensus pattern (43 bp):
CTTCGCTGCAACCCAGGGAGGCAAGGTTGGTGTCTTCAATCTG
Found at i:25758097 original size:88 final size:88
Alignment explanation
Indices: 25757984--25758550 Score: 900
Period size: 88 Copynumber: 6.4 Consensus size: 88
25757974 GCTAAGGTCA
* * * * * *
25757984 TCGATCTGCTTCGCTGTCGATGCAGGAAGGTAAGATATGCTATTTTTAACCTACTTCGCTGCAAC
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAAC
*
25758049 CCAGGGAGGCAAGGTTGGTGTCT
66 CCAGGGAGGCAAGGCTGGTGTCT
*
25758072 TCAATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAAC
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAAC
*
25758137 CCAGGGAGGCAAGGTTGGTGTCT
66 CCAGGGAGGCAAGGCTGGTGTCT
* * *
25758160 TCGATCTGCTTCACTGTCGGTGCAGGAAGGCAAGATCTACTATTTTTAACCTGCTCCCCTACAAC
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAAC
*
25758225 CCAGAGAGGCAAGGCTGGTGTCT
66 CCAGGGAGGCAAGGCTGGTGTCT
* * * *
25758248 TCGATCTGCTTCTCTGTCGGTGCAGGAAGGCAAGATCTGCAATTTTTAACCTGCACCGCTGCAAC
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAAC
*
25758313 CTAGGGAGGCAAGGCTGGTGTCT
66 CCAGGGAGGCAAGGCTGGTGTCT
*
25758336 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTACTCCGCTACAAC
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAAC
* * *
25758401 CTAGGGAGGCAAGGCTAGTGTCC
66 CCAGGGAGGCAAGGCTGGTGTCT
* *
25758424 TCGATCTCCTTCACTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAAC
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAAC
*
25758489 CCAGGGAGGCAAGGTTGGTGTCT
66 CCAGGGAGGCAAGGCTGGTGTCT
*
25758512 TCGATCTGCTTCGCTGTCGGTGTAGGAAGGCAAGATCTG
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTG
25758551 TTGTCTTCAC
Statistics
Matches: 441, Mismatches: 38, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
88 441 1.00
ACGTcount: A:0.21, C:0.25, G:0.27, T:0.27
Consensus pattern (88 bp):
TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAAC
CCAGGGAGGCAAGGCTGGTGTCT
Found at i:25762552 original size:16 final size:16
Alignment explanation
Indices: 25762531--25762561 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
25762521 CCATTGGATA
25762531 TAGTGCCCTAAGTATC
1 TAGTGCCCTAAGTATC
25762547 TAGTGCCCTAAGTAT
1 TAGTGCCCTAAGTAT
25762562 AGTATTTTCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (16 bp):
TAGTGCCCTAAGTATC
Found at i:25763957 original size:25 final size:26
Alignment explanation
Indices: 25763919--25763975 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
25763909 CATTTTCTCG
* * *
25763919 AATTTTTTCAAGGG-AAAATTGTTAT
1 AATTTTATCAAGGGTAAAATTGTCAA
*
25763944 AATTTTATCGAGGGTAAAATTGTCAA
1 AATTTTATCAAGGGTAAAATTGTCAA
25763970 AATTTT
1 AATTTT
25763976 GGTGAGAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
25 12 0.44
26 15 0.56
ACGTcount: A:0.37, C:0.05, G:0.16, T:0.42
Consensus pattern (26 bp):
AATTTTATCAAGGGTAAAATTGTCAA
Found at i:25768597 original size:17 final size:17
Alignment explanation
Indices: 25768575--25768610 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
25768565 CCTAGACAAC
25768575 CTCCTTAACAGGCAGCT
1 CTCCTTAACAGGCAGCT
25768592 CTCCTTAACAGGCAGCT
1 CTCCTTAACAGGCAGCT
25768609 CT
1 CT
25768611 AGAAGAGCAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.22, C:0.36, G:0.17, T:0.25
Consensus pattern (17 bp):
CTCCTTAACAGGCAGCT
Found at i:25769122 original size:10 final size:10
Alignment explanation
Indices: 25769087--25769129 Score: 50
Period size: 10 Copynumber: 4.1 Consensus size: 10
25769077 AAACAATTCT
25769087 ATAACAAAAA
1 ATAACAAAAA
*
25769097 GATAACAAAAC
1 -ATAACAAAAA
*
25769108 TTAACAAAAA
1 ATAACAAAAA
25769118 ATAACAACAAA
1 ATAACAA-AAA
25769129 A
1 A
25769130 GCAAAATGCT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
10 14 0.52
11 13 0.48
ACGTcount: A:0.72, C:0.14, G:0.02, T:0.12
Consensus pattern (10 bp):
ATAACAAAAA
Found at i:25769402 original size:14 final size:14
Alignment explanation
Indices: 25769385--25769423 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
25769375 ATTTTACAAG
25769385 ATATATTTTTGTTT
1 ATATATTTTTGTTT
25769399 ATATATTATTT-TTT
1 ATATATT-TTTGTTT
*
25769413 AAATATTTTTG
1 ATATATTTTTG
25769424 AACTTTTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
13 3 0.14
14 16 0.73
15 3 0.14
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (14 bp):
ATATATTTTTGTTT
Found at i:25770097 original size:5 final size:5
Alignment explanation
Indices: 25770065--25770124 Score: 81
Period size: 5 Copynumber: 12.4 Consensus size: 5
25770055 AAAAACTTTA
*
25770065 AATAT -ATAT AAT-T ATTA- AATATT AATAT AATAT AATAT AATAT AATAT
1 AATAT AATAT AATAT AATAT AATA-T AATAT AATAT AATAT AATAT AATAT
25770113 AATAT AATAT AA
1 AATAT AATAT AA
25770125 ATATTTTTAA
Statistics
Matches: 49, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
4 10 0.20
5 35 0.71
6 4 0.08
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
AATAT
Found at i:25770363 original size:24 final size:26
Alignment explanation
Indices: 25770316--25770382 Score: 93
Period size: 24 Copynumber: 2.6 Consensus size: 26
25770306 AAAAATAAAA
25770316 ATTTACCAAAATATTATAACTTTTTTT
1 ATTTACCAAAATA-TATAACTTTTTTT
25770343 ATTTACCAAAATATAT-A-TTTTTTT
1 ATTTACCAAAATATATAACTTTTTTT
**
25770367 ATTTGTCAAAATATAT
1 ATTTACCAAAATATAT
25770383 CAAAAAAACT
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
24 21 0.55
25 1 0.03
26 3 0.08
27 13 0.34
ACGTcount: A:0.39, C:0.09, G:0.01, T:0.51
Consensus pattern (26 bp):
ATTTACCAAAATATATAACTTTTTTT
Found at i:25770538 original size:4 final size:4
Alignment explanation
Indices: 25770529--25770663 Score: 77
Period size: 4 Copynumber: 33.2 Consensus size: 4
25770519 GGGCAGAAGG
* * *
25770529 AGAA AGAA AGAA AGAA AGAA AGGAGA GGAA AGAA AG-A A-AA AGAA GGAC
1 AGAA AGAA AGAA AGAA AGAA A-GA-A AGAA AGAA AGAA AGAA AGAA AGAA
* * *
25770577 AGAAA AGGAA AG-G AGAA GAGAA AAAA AGAA CGAA AG-A AG-A AG-A AGAAA
1 AG-AA A-GAA AGAA AGAA -AGAA AGAA AGAA AGAA AGAA AGAA AGAA AG-AA
*
25770625 AGGAAA AGAGA AGAA A-AA AGAA AGAA AGAA GGAA AGAA A
1 A-G-AA AGA-A AGAA AGAA AGAA AGAA AGAA AGAA AGAA A
25770664 AGGAAAGGAG
Statistics
Matches: 104, Mismatches: 14, Indels: 26
0.72 0.10 0.18
Matches are distributed among these distances:
3 18 0.17
4 59 0.57
5 20 0.19
6 7 0.07
ACGTcount: A:0.69, C:0.01, G:0.30, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:25770575 original size:18 final size:18
Alignment explanation
Indices: 25770531--25770663 Score: 74
Period size: 18 Copynumber: 6.8 Consensus size: 18
25770521 GCAGAAGGAG
*
25770531 AAAGAAAGAAAGAAAG-A
1 AAAGAAGGAAAGAAAGAA
*
25770548 AAGGAGAGGAAAGAAAGAA
1 AAAGA-AGGAAAGAAAGAA
*
25770567 AAAGAAGGACAGAAAAGGAA
1 AAAGAAGGAAAG-AAA-GAA
* *
25770587 AGGAGAAGAGAAAAAAAGAA
1 A-AAGAAG-GAAAGAAAGAA
*
25770607 CGAAAGAAGAAGAAGAAAAGGAA
1 --AAAGAAGGA-AAG-AAA-GAA
25770630 AAGAGAA-GAAA-AAAGAAA
1 AA-AGAAGGAAAGAAAG-AA
25770648 GAAAGAAGGAAAGAAA
1 -AAAGAAGGAAAGAAA
25770664 AGGAAAGGAG
Statistics
Matches: 89, Mismatches: 11, Indels: 29
0.69 0.09 0.22
Matches are distributed among these distances:
17 5 0.06
18 25 0.28
19 14 0.16
20 13 0.15
21 18 0.20
22 11 0.12
23 3 0.03
ACGTcount: A:0.69, C:0.02, G:0.29, T:0.00
Consensus pattern (18 bp):
AAAGAAGGAAAGAAAGAA
Found at i:25770665 original size:82 final size:81
Alignment explanation
Indices: 25770557--25770727 Score: 240
Period size: 82 Copynumber: 2.1 Consensus size: 81
25770547 AAAGGAGAGG
*
25770557 AAAGAAAGAAAAAGAAGGACAGAAAAGGAAAGGAGAAGAGAAAAAAAGAACGAAAGAAGAAGA-A
1 AAAGAAAG-AAAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAAAAAA-AA-GAAA-AAGAAGAGA
*
25770621 GAA-AAGGAAAAGAGAAGAAA
62 GAAGAAGGAAAA-AAAAGAAA
*
25770641 AAAGAAAG-AAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAAAAAAAAGAAAAAGAAGAGGGAAG
1 AAAGAAAGAAAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAAAAAAAAGAAAAAGAAGAGAGAA-
25770705 GAAGGAAAAAAAAGAAA
65 GAAGGAAAAAAAAGAAA
25770722 AAAGAA
1 AAAGAA
25770728 GAAGGTAATT
Statistics
Matches: 81, Mismatches: 3, Indels: 9
0.87 0.03 0.10
Matches are distributed among these distances:
79 7 0.09
80 7 0.09
81 15 0.19
82 44 0.54
84 8 0.10
ACGTcount: A:0.70, C:0.01, G:0.29, T:0.00
Consensus pattern (81 bp):
AAAGAAAGAAAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAAAAAAAAGAAAAAGAAGAGAGAAG
AAGGAAAAAAAAGAAA
Found at i:25770672 original size:44 final size:44
Alignment explanation
Indices: 25770557--25770691 Score: 165
Period size: 44 Copynumber: 3.2 Consensus size: 44
25770547 AAAGGAGAGG
*
25770557 AAAGAAAGAAAAAGAAGGACAGAAAAGGAAAGGAGAAGAG-A-AAA
1 AAAGAAAG--AAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAGAAA
* * *
25770601 AAAGAACGAAAGAA-G-AAG--AAGAAAAGGAAAAGAGAAGAAA
1 AAAGAAAGAAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAGAAA
*
25770641 AAAGAAAGAAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAAAAA
1 AAAGAAAGAAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAGAAA
25770685 AAAGAAA
1 AAAGAAA
25770692 AAGAAGAGGG
Statistics
Matches: 77, Mismatches: 8, Indels: 12
0.79 0.08 0.12
Matches are distributed among these distances:
38 14 0.18
39 1 0.01
40 18 0.23
41 2 0.03
42 9 0.12
44 33 0.43
ACGTcount: A:0.70, C:0.01, G:0.28, T:0.00
Consensus pattern (44 bp):
AAAGAAAGAAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAGAAA
Found at i:25770695 original size:34 final size:33
Alignment explanation
Indices: 25770613--25770732 Score: 102
Period size: 39 Copynumber: 3.5 Consensus size: 33
25770603 AGAACGAAAG
* *
25770613 AAGAAGAAGAAAAGGAAAAGAGAAGAAAAAAGAAAGA
1 AAGAAAAAGAAAAGG-AAAGAGAAG-AGAAA-AAA-A
25770650 AAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAAAAAA
1 AAGAA--AAAGAAAAGGAAA-GAGAAGAGAAAAAAA
* *
25770686 AAGAAAAAGAAGAGGGAAG-GAAG-G-AAAAAA
1 AAGAAAAAGAAAAGGAAAGAGAAGAGAAAAAAA
25770716 AAGAAAAAAGAAGAAGG
1 AAG-AAAAAGAA-AAGG
25770733 TAATTTTATT
Statistics
Matches: 73, Mismatches: 5, Indels: 15
0.78 0.05 0.16
Matches are distributed among these distances:
30 9 0.12
31 9 0.12
32 7 0.10
33 1 0.01
34 11 0.15
36 6 0.08
37 8 0.11
38 7 0.10
39 15 0.21
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (33 bp):
AAGAAAAAGAAAAGGAAAGAGAAGAGAAAAAAA
Found at i:25770727 original size:110 final size:112
Alignment explanation
Indices: 25770529--25770731 Score: 249
Period size: 110 Copynumber: 1.8 Consensus size: 112
25770519 GGGCAGAAGG
* *
25770529 AGAAAGAAAGAAAGAAAGAAAGGAGAGGAAAGAAAGAAAAAGAAGGACAGAAAAGGAAAGGAGAA
1 AGAAAGAAAGAAAGAAAGAAAGGAAAGGAAAG-AAGAAAAAGAA-GACAGAAAAAGAAAGGAGAA
* *
25770594 GAGAAAAAAAGAACGAAAGAAGAAGAAGAAAAGGAAAAGAGAAGAAAAA
64 GAGAAAAAAAGAAAGAAAAAAGAAGAAGAAAAGGAAAAGAGAAGAAAAA
*
25770643 AGAAAGAAAGAAGGAAAGAAAAGGAAAGGAGAAG-AGAAAAA-AA-A-AGAAAAAGAAGAGG-GA
1 AGAAAGAAAGAAAGAAAG-AAAGGAAAGGA-AAGAAGAAAAAGAAGACAGAAAAAGAA-AGGAGA
25770703 AG-GAAGGAAAAA-AAAGAAAAAAGAAGAAG
63 AGAGAA--AAAAAGAAAGAAAAAAGAAGAAG
25770732 GTAATTTTAT
Statistics
Matches: 79, Mismatches: 5, Indels: 14
0.81 0.05 0.14
Matches are distributed among these distances:
109 3 0.04
110 28 0.35
111 9 0.11
113 2 0.03
114 24 0.30
115 10 0.13
116 3 0.04
ACGTcount: A:0.69, C:0.01, G:0.30, T:0.00
Consensus pattern (112 bp):
AGAAAGAAAGAAAGAAAGAAAGGAAAGGAAAGAAGAAAAAGAAGACAGAAAAAGAAAGGAGAAGA
GAAAAAAAGAAAGAAAAAAGAAGAAGAAAAGGAAAAGAGAAGAAAAA
Found at i:25775267 original size:27 final size:22
Alignment explanation
Indices: 25775202--25775245 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
25775192 TTTGGTTTTT
*
25775202 TATACATTTTAGTAAATAAAAA
1 TATATATTTTAGTAAATAAAAA
*
25775224 TATATATATTAGTAAATAAAAA
1 TATATATTTTAGTAAATAAAAA
25775246 AAGTTATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.57, C:0.02, G:0.05, T:0.36
Consensus pattern (22 bp):
TATATATTTTAGTAAATAAAAA
Found at i:25808107 original size:20 final size:20
Alignment explanation
Indices: 25808082--25808121 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
25808072 CGGAAAATAA
*
25808082 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
25808102 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
25808122 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:25808317 original size:22 final size:24
Alignment explanation
Indices: 25808292--25808342 Score: 56
Period size: 26 Copynumber: 2.2 Consensus size: 24
25808282 TTATTTATAA
25808292 ATAAATAA-A-TCAA-ATT-AAAT
1 ATAAATAATACTCAATATTAAAAT
25808312 ATATAATAATACTCAATTATTAAAAT
1 ATA-AATAATACTCAA-TATTAAAAT
25808338 ATAAA
1 ATAAA
25808343 AGCATTGCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
20 3 0.12
21 5 0.20
22 1 0.04
23 4 0.16
25 5 0.20
26 7 0.28
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (24 bp):
ATAAATAATACTCAATATTAAAAT
Found at i:25821821 original size:23 final size:23
Alignment explanation
Indices: 25821794--25821869 Score: 116
Period size: 23 Copynumber: 3.3 Consensus size: 23
25821784 AGTGTTATTG
*
25821794 ATCAGTGGTAGCTTTGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
25821817 TTCAGTGGTAGCTACGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
25821840 ATCAGTGGTAGCTTCGGCTGCAT
1 ATCAGTGGTAGCTTCGGCTACAT
25821863 ATCAGTG
1 ATCAGTG
25821870 TGGCACTTAT
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 47 1.00
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:25830568 original size:27 final size:27
Alignment explanation
Indices: 25830530--25830884 Score: 319
Period size: 27 Copynumber: 13.2 Consensus size: 27
25830520 ATTCGTGGGC
* *
25830530 AAATGACCAAAATACCCCTGAAGAGTA
1 AAATTACCAAAATACCCCTGAAGGGTA
* * *
25830557 AAATTACCAAAATACCCCTAAAAGGCA
1 AAATTACCAAAATACCCCTGAAGGGTA
* * * * *
25830584 AATTTATCGAAATACCCTTGATGGGTA
1 AAATTACCAAAATACCCCTGAAGGGTA
* * *
25830611 AAATTACAAAAATGCCCCCGAAGGGTA
1 AAATTACCAAAATACCCCTGAAGGGTA
*
25830638 AAATTACCAAAATA-CCCTCGATGGGTA
1 AAATTACCAAAATACCCCT-GAAGGGTA
* * *
25830665 AAATTATCAAAATACCCTTGATGGGTA
1 AAATTACCAAAATACCCCTGAAGGGTA
* * *
25830692 AAATTATCGAAATA-CCCTCAAAGGGTA
1 AAATTACCAAAATACCCCT-GAAGGGTA
*
25830719 AAATTACCAAAATA-CCCTCAATGGGTA
1 AAATTACCAAAATACCCCTGAA-GGGTA
* *
25830746 AAATTACTAAAATACCCCCGAAGGGTA
1 AAATTACCAAAATACCCCTGAAGGGTA
* *
25830773 AAATTACTAAAATA-CCCTCGATGGGTA
1 AAATTACCAAAATACCCCT-GAAGGGTA
* **
25830800 AAATCATGAAAATA-CCCTCGAAGGGTA
1 AAATTACCAAAATACCCCT-GAAGGGTA
* * **
25830827 AAATGACTAAAATACCCCCAAAGGGTA
1 AAATTACCAAAATACCCCTGAAGGGTA
*
25830854 AAATAACCAAAATACCCCTG--GGGTA
1 AAATTACCAAAATACCCCTGAAGGGTA
25830879 AAATTA
1 AAATTA
25830885 TCGTTTTACC
Statistics
Matches: 268, Mismatches: 53, Indels: 16
0.80 0.16 0.05
Matches are distributed among these distances:
25 10 0.04
26 11 0.04
27 236 0.88
28 11 0.04
ACGTcount: A:0.44, C:0.20, G:0.15, T:0.21
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGAAGGGTA
Found at i:25838107 original size:40 final size:40
Alignment explanation
Indices: 25838049--25838282 Score: 211
Period size: 40 Copynumber: 5.9 Consensus size: 40
25838039 AAACGCACCT
*
25838049 AACAGAAGCTCATAAGAGCTGATCCAACTGAAACACGCCA
1 AACAGAAGCTCATAAGAGCTGATCCAACCGAAACACGCCA
* ** *
25838089 AAGAGAAGCTTGTAAGAGCTGATCCAACCGAAACATGCCA
1 AACAGAAGCTCATAAGAGCTGATCCAACCGAAACACGCCA
* * * * * * ***
25838129 AAAAGAAGCTCGTAAGAGTTTATCCAGCTGAAACAATTCA
1 AACAGAAGCTCATAAGAGCTGATCCAACCGAAACACGCCA
* * *
25838169 AACAGAAGCTCACAAGAGCT-AGTCCAACCGAAACATGCTA
1 AACAGAAGCTCATAAGAGCTGA-TCCAACCGAAACACGCCA
** * * *
25838209 AGTAGAAGCTCATAAGAGCTGGTCCACCCAAAACACGCC-
1 AACAGAAGCTCATAAGAGCTGATCCAACCGAAACACGCCA
* * * *
25838248 AACAGAAGCTCGTAAGAGTTGATCTACCCGAAACA
1 AACAGAAGCTCATAAGAGCTGATCCAACCGAAACA
25838283 ATCCCAAAAA
Statistics
Matches: 153, Mismatches: 39, Indels: 5
0.78 0.20 0.03
Matches are distributed among these distances:
39 29 0.19
40 124 0.81
ACGTcount: A:0.41, C:0.25, G:0.19, T:0.15
Consensus pattern (40 bp):
AACAGAAGCTCATAAGAGCTGATCCAACCGAAACACGCCA
Found at i:25858659 original size:15 final size:15
Alignment explanation
Indices: 25858636--25858669 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
25858626 CTCATGCTTT
* *
25858636 TATTTTTTCTTATTA
1 TATTATTTCATATTA
25858651 TATTATTTCATATTA
1 TATTATTTCATATTA
25858666 TATT
1 TATT
25858670 TATGTAGTGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.68
Consensus pattern (15 bp):
TATTATTTCATATTA
Found at i:25869804 original size:31 final size:31
Alignment explanation
Indices: 25869769--25869836 Score: 104
Period size: 31 Copynumber: 2.2 Consensus size: 31
25869759 TACACTGGTA
25869769 GTCACCCAACTATT-AGTAAA-TTTCATTTTTG
1 GTCACCCAACTATTCA--AAATTTTCATTTTTG
25869800 GTCACCCAACTATTCAAAATTTTCATTTTTG
1 GTCACCCAACTATTCAAAATTTTCATTTTTG
25869831 GTCACC
1 GTCACC
25869837 AACCGTTCAA
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
30 3 0.09
31 31 0.89
32 1 0.03
ACGTcount: A:0.28, C:0.24, G:0.09, T:0.40
Consensus pattern (31 bp):
GTCACCCAACTATTCAAAATTTTCATTTTTG
Found at i:25869846 original size:30 final size:31
Alignment explanation
Indices: 25869789--25869846 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
25869779 TATTAGTAAA
*
25869789 TTTCATTTTTGGTCACCCAACTATTCAAAAT
1 TTTCATTTTTGGTCACCCAACCATTCAAAAT
*
25869820 TTTCATTTTTGGTCA-CCAACCGTTCAA
1 TTTCATTTTTGGTCACCCAACCATTCAA
25869847 GTACTGATGG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 10 0.40
31 15 0.60
ACGTcount: A:0.26, C:0.24, G:0.09, T:0.41
Consensus pattern (31 bp):
TTTCATTTTTGGTCACCCAACCATTCAAAAT
Found at i:25878784 original size:11 final size:11
Alignment explanation
Indices: 25878768--25878806 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
25878758 TAATATTGAA
25878768 TTTTTATATAT
1 TTTTTATATAT
*
25878779 TTTTTA-AAAT
1 TTTTTATATAT
*
25878789 TTTTCATATAT
1 TTTTTATATAT
25878800 TTTTTAT
1 TTTTTAT
25878807 TTTTAGAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
10 8 0.35
11 15 0.65
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (11 bp):
TTTTTATATAT
Found at i:25878797 original size:21 final size:20
Alignment explanation
Indices: 25878766--25878805 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 20
25878756 AATAATATTG
25878766 AATTTTTATATATTTTTTAA
1 AATTTTTATATATTTTTTAA
25878786 AATTTTTCATATATTTTTTA
1 AATTTTT-ATATATTTTTTA
25878806 TTTTTAGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.65
Consensus pattern (20 bp):
AATTTTTATATATTTTTTAA
Found at i:25879288 original size:23 final size:23
Alignment explanation
Indices: 25879257--25879335 Score: 92
Period size: 23 Copynumber: 3.4 Consensus size: 23
25879247 AACTTTGGAG
25879257 TTTTT-TTTTATATTTTTAAGTT
1 TTTTTATTTTATATTTTTAAGTT
*
25879279 TTTTTATTTTGA-ATTTTAAAGATT
1 TTTTTATTTT-ATATTTTTAAG-TT
*
25879303 TTTTTATTTT-TATTTTTATGTAT
1 TTTTTATTTTATATTTTTAAGT-T
25879326 TTTTTATTTT
1 TTTTTATTTT
25879336 TAAAAATATA
Statistics
Matches: 49, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
22 6 0.12
23 30 0.61
24 13 0.27
ACGTcount: A:0.20, C:0.00, G:0.05, T:0.75
Consensus pattern (23 bp):
TTTTTATTTTATATTTTTAAGTT
Found at i:25879352 original size:23 final size:22
Alignment explanation
Indices: 25879326--25879384 Score: 73
Period size: 23 Copynumber: 2.5 Consensus size: 22
25879316 TTTTATGTAT
25879326 TTTTTATTTTTAAAAATATAAAA
1 TTTTTATTTTTAAAAATAT-AAA
* *
25879349 TTTTGATTTTTTTAAAATATAAA
1 TTTTTA-TTTTTAAAAATATAAA
25879372 TTTTTATGTTTTA
1 TTTTTAT-TTTTA
25879385 TTTAAAAAAG
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
22 1 0.03
23 17 0.57
24 12 0.40
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.59
Consensus pattern (22 bp):
TTTTTATTTTTAAAAATATAAA
Found at i:25879620 original size:18 final size:18
Alignment explanation
Indices: 25879581--25879620 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
25879571 CTTTTATAAT
* *
25879581 TTTTTAATATTTTTTTTA
1 TTTTTAATAATTTATTTA
*
25879599 TTTTTAATAATTTATTTG
1 TTTTTAATAATTTATTTA
25879617 TTTT
1 TTTT
25879621 GAACCGGTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.75
Consensus pattern (18 bp):
TTTTTAATAATTTATTTA
Found at i:25879877 original size:17 final size:16
Alignment explanation
Indices: 25879830--25879884 Score: 51
Period size: 17 Copynumber: 3.4 Consensus size: 16
25879820 AGTTTTTGGA
*
25879830 AATTTTTATTTTTTTT
1 AATTTTTATGTTTTTT
*
25879846 AA-TTTTAGAGTTTTTTT
1 AATTTTTA-TG-TTTTTT
25879863 AATTTTTCATGTTTTTT
1 AATTTTT-ATGTTTTTT
25879880 -ATTTT
1 AATTTT
25879885 ATTTAAAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
15 5 0.16
16 7 0.22
17 14 0.44
18 5 0.16
19 1 0.03
ACGTcount: A:0.20, C:0.02, G:0.05, T:0.73
Consensus pattern (16 bp):
AATTTTTATGTTTTTT
Found at i:25879939 original size:25 final size:26
Alignment explanation
Indices: 25879874--25879940 Score: 84
Period size: 25 Copynumber: 2.6 Consensus size: 26
25879864 ATTTTTCATG
*
25879874 TTTTTTATTTTATTTAAAAAATTATAA
1 TTTTTTATATT-TTTAAAAAATTATAA
25879901 TTTTTTGA-ATTTTTAAAAAA-TATAA
1 TTTTTT-ATATTTTTAAAAAATTATAA
*
25879926 TTTTTTATGTTTTTA
1 TTTTTTATATTTTTA
25879941 TTTAAAATAT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
24 1 0.03
25 17 0.47
26 9 0.25
27 8 0.22
28 1 0.03
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (26 bp):
TTTTTTATATTTTTAAAAAATTATAA
Found at i:25879939 original size:26 final size:27
Alignment explanation
Indices: 25879874--25879939 Score: 77
Period size: 26 Copynumber: 2.5 Consensus size: 27
25879864 ATTTTTCATG
25879874 TTTTTTAT-TTTATTTAAAAAATTATAA
1 TTTTTTATGTTT-TTTAAAAAATTATAA
*
25879901 -TTTTT-TGAATTTTTAAAAAA-TATAA
1 TTTTTTATG-TTTTTTAAAAAATTATAA
25879926 TTTTTTATGTTTTT
1 TTTTTTATGTTTTT
25879940 ATTTAAAATA
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
25 6 0.18
26 23 0.70
27 4 0.12
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (27 bp):
TTTTTTATGTTTTTTAAAAAATTATAA
Found at i:25880985 original size:15 final size:15
Alignment explanation
Indices: 25880926--25880985 Score: 57
Period size: 15 Copynumber: 3.8 Consensus size: 15
25880916 TACTTTTTTC
25880926 TCCAAAACCCTAAAAA
1 TCCAAAACCCT-AAAA
*
25880942 TCCTAAAATTCCTAAAA
1 TCC-AAAA-CCCTAAAA
**
25880959 TCTTAAACCCTAAAA
1 TCCAAAACCCTAAAA
*
25880974 TCCAAAAACCTA
1 TCCAAAACCCTA
25880986 CAAGTCAGGA
Statistics
Matches: 35, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
15 16 0.46
16 6 0.17
17 10 0.29
18 3 0.09
ACGTcount: A:0.50, C:0.28, G:0.00, T:0.22
Consensus pattern (15 bp):
TCCAAAACCCTAAAA
Found at i:25885073 original size:35 final size:35
Alignment explanation
Indices: 25885022--25885092 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
25885012 CATTAGTTTC
*
25885022 TAGGCATAATGTCAAAATTAGTCTTAATTTTCGGT
1 TAGGCATAATGTCAAAATTAGTCTTAAATTTCGGT
*
25885057 TAGGTATAATGTCAAAATTAGTCTTAAATTTCGGT
1 TAGGCATAATGTCAAAATTAGTCTTAAATTTCGGT
25885092 T
1 T
25885093 GTTTGGTCAC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.32, C:0.10, G:0.17, T:0.41
Consensus pattern (35 bp):
TAGGCATAATGTCAAAATTAGTCTTAAATTTCGGT
Found at i:25888011 original size:13 final size:13
Alignment explanation
Indices: 25887993--25888017 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25887983 AAATTCAATG
25887993 TCAATTTCATATA
1 TCAATTTCATATA
25888006 TCAATTTCATAT
1 TCAATTTCATAT
25888018 CCAAACAGAT
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:0.36, C:0.16, G:0.00, T:0.48
Consensus pattern (13 bp):
TCAATTTCATATA
Found at i:25891093 original size:21 final size:21
Alignment explanation
Indices: 25891064--25891118 Score: 76
Period size: 21 Copynumber: 2.6 Consensus size: 21
25891054 AACAGCGGTG
*
25891064 GCAGTGAGATTAGTTACTGTA
1 GCAGTGAGATTAGGTACTGTA
*
25891085 GC-GATGAGATTGGGTACTGTA
1 GCAG-TGAGATTAGGTACTGTA
25891106 GCAGTGAGATTAG
1 GCAGTGAGATTAG
25891119 CGGTGGAGTG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 1 0.03
21 27 0.93
22 1 0.03
ACGTcount: A:0.27, C:0.09, G:0.35, T:0.29
Consensus pattern (21 bp):
GCAGTGAGATTAGGTACTGTA
Found at i:25891797 original size:11 final size:12
Alignment explanation
Indices: 25891768--25891800 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
25891758 TTCAGCTAGG
*
25891768 ATGCTGGTCTGC
1 ATGCTGGTTTGC
25891780 ATGCTGGTTTGC
1 ATGCTGGTTTGC
25891792 -TGCTGGTTT
1 ATGCTGGTTT
25891801 CCTGTTACAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 9 0.45
12 11 0.55
ACGTcount: A:0.06, C:0.18, G:0.33, T:0.42
Consensus pattern (12 bp):
ATGCTGGTTTGC
Found at i:25899180 original size:63 final size:63
Alignment explanation
Indices: 25899061--25899181 Score: 165
Period size: 63 Copynumber: 1.9 Consensus size: 63
25899051 CCCGTGTCTA
* * * *
25899061 TGGCTCGTGTGACACTAATTCACAAACAGTGAGTTACATGGCATGGACACGCGCCTATGTCCC
1 TGGCCCGTGTGACACTAATTCACAAACAATGAATTACATGGCATGCACACGCGCCTATGTCCC
*
25899124 TGGCCCGTGTGA-ACCTAATTCACAAACAATGAATTACATGGCCTGTCACACG-GCCTAT
1 TGGCCCGTGTGACA-CTAATTCACAAACAATGAATTACATGGCATG-CACACGCGCCTAT
25899182 CACACGGCCT
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
62 1 0.02
63 45 0.88
64 5 0.10
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (63 bp):
TGGCCCGTGTGACACTAATTCACAAACAATGAATTACATGGCATGCACACGCGCCTATGTCCC
Found at i:25899184 original size:12 final size:12
Alignment explanation
Indices: 25899163--25899209 Score: 58
Period size: 12 Copynumber: 3.9 Consensus size: 12
25899153 TGAATTACAT
*
25899163 GGCCTGTCACAC
1 GGCCTATCACAC
25899175 GGCCTATCACAC
1 GGCCTATCACAC
*
25899187 GGCCTGTCACAC
1 GGCCTATCACAC
* *
25899199 AGCCTACCACA
1 GGCCTATCACA
25899210 TGACCTGGCA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 30 1.00
ACGTcount: A:0.23, C:0.43, G:0.19, T:0.15
Consensus pattern (12 bp):
GGCCTATCACAC
Found at i:25899191 original size:24 final size:24
Alignment explanation
Indices: 25899163--25899223 Score: 77
Period size: 24 Copynumber: 2.5 Consensus size: 24
25899153 TGAATTACAT
*
25899163 GGCCTGTCACACGGCCTATCACAC
1 GGCCTGTCACACGGCCTACCACAC
* *
25899187 GGCCTGTCACACAGCCTACCACAT
1 GGCCTGTCACACGGCCTACCACAC
* *
25899211 GACCTGGCACACG
1 GGCCTGTCACACG
25899224 ATCGTGTGGC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.23, C:0.41, G:0.21, T:0.15
Consensus pattern (24 bp):
GGCCTGTCACACGGCCTACCACAC
Found at i:25909152 original size:22 final size:22
Alignment explanation
Indices: 25909106--25909170 Score: 78
Period size: 22 Copynumber: 2.9 Consensus size: 22
25909096 TCTGTACTGG
25909106 ATTGCAAATAATTAAAATTTCA
1 ATTGCAAATAATTAAAATTTCA
*
25909128 ATTGCGAATAATTAAAATTAT-A
1 ATTGCAAATAATTAAAATT-TCA
* *
25909150 ATTGTAAATACATAAAAATTT
1 ATTGCAAATA-ATTAAAATTT
25909171 AACACAAAGA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
22 28 0.76
23 9 0.24
ACGTcount: A:0.51, C:0.06, G:0.06, T:0.37
Consensus pattern (22 bp):
ATTGCAAATAATTAAAATTTCA
Found at i:25909580 original size:20 final size:20
Alignment explanation
Indices: 25909542--25909581 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
25909532 TTTCTCAACC
* *
25909542 TCAAAATCTTCCATAAACAT
1 TCAAAAACTTCAATAAACAT
*
25909562 TCAAAAACTTCAATTAACAT
1 TCAAAAACTTCAATAAACAT
25909582 AAATGGTAAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.47, C:0.23, G:0.00, T:0.30
Consensus pattern (20 bp):
TCAAAAACTTCAATAAACAT
Found at i:25920850 original size:22 final size:21
Alignment explanation
Indices: 25920812--25920861 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 21
25920802 TGAAGAATGT
*
25920812 AATTTTATGCTATTTTACATTA
1 AATTTTATGCTAATTTA-ATTA
25920834 AATTTT-TGCATAATTTAATT-
1 AATTTTATGC-TAATTTAATTA
25920854 -ATTTTATG
1 AATTTTATG
25920862 TGACATATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
19 5 0.20
20 2 0.08
21 6 0.24
22 12 0.48
ACGTcount: A:0.32, C:0.06, G:0.06, T:0.56
Consensus pattern (21 bp):
AATTTTATGCTAATTTAATTA
Found at i:25924612 original size:33 final size:33
Alignment explanation
Indices: 25924570--25924633 Score: 128
Period size: 33 Copynumber: 1.9 Consensus size: 33
25924560 ATTCAAGTAA
25924570 ATCATCCCCATCAGTAGGAGATTCCAAAACCTC
1 ATCATCCCCATCAGTAGGAGATTCCAAAACCTC
25924603 ATCATCCCCATCAGTAGGAGATTCCAAAACC
1 ATCATCCCCATCAGTAGGAGATTCCAAAACC
25924634 CCTTCCACAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.34, C:0.33, G:0.12, T:0.20
Consensus pattern (33 bp):
ATCATCCCCATCAGTAGGAGATTCCAAAACCTC
Found at i:25925608 original size:8 final size:8
Alignment explanation
Indices: 25925595--25925635 Score: 50
Period size: 8 Copynumber: 5.1 Consensus size: 8
25925585 ACAAAAAAAT
25925595 AAATATAA
1 AAATATAA
25925603 AAATATAA
1 AAATATAA
25925611 AAATA-AA
1 AAATATAA
25925618 TAAATATAGA
1 -AAATATA-A
25925628 AAAT-TAA
1 AAATATAA
25925635 A
1 A
25925636 GTGGAAGATG
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
7 4 0.13
8 20 0.67
9 5 0.17
10 1 0.03
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.24
Consensus pattern (8 bp):
AAATATAA
Found at i:25925619 original size:24 final size:23
Alignment explanation
Indices: 25925587--25925635 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 23
25925577 ATTCGAGAAC
25925587 AAAAAAATAAATATA-AAAATATA
1 AAAAAAATAAATATAGAAAAT-TA
25925610 AAAATAAATAAATATAGAAAATTA
1 AAAA-AAATAAATATAGAAAATTA
25925634 AA
1 AA
25925636 GTGGAAGATG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
23 4 0.17
24 15 0.62
25 5 0.21
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (23 bp):
AAAAAAATAAATATAGAAAATTA
Found at i:25932305 original size:18 final size:17
Alignment explanation
Indices: 25932282--25932338 Score: 51
Period size: 18 Copynumber: 3.2 Consensus size: 17
25932272 GCCTAAAATG
* *
25932282 AATTTTAATCTTTTTTTT
1 AATTTTAAT-TTATTTTC
25932300 AATTTTGAATTTATTTTC
1 AATTTT-AATTTATTTTC
* *
25932318 AATTTTATTTTTATGTTC
1 AATTTTA-ATTTATTTTC
25932336 AAT
1 AAT
25932339 AAGAAGGTCA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
17 1 0.03
18 29 0.88
19 3 0.09
ACGTcount: A:0.26, C:0.05, G:0.04, T:0.65
Consensus pattern (17 bp):
AATTTTAATTTATTTTC
Found at i:25935107 original size:211 final size:211
Alignment explanation
Indices: 25934743--25935213 Score: 843
Period size: 211 Copynumber: 2.2 Consensus size: 211
25934733 GTGGGGCCAG
* * * **
25934743 GCCGTGTGCCTCACACAACTGAGACACACGTTTGTGTCTCAGGCCGTGTAACATTTGAACTAGGG
1 GCCGTGTGCCACACACGACTGAGTCACACGTCCGTGTCTCAGGCCGTGTAACATTTGAACTAGGG
* *
25934808 ACACACGACCATGTCCCTGCTCGTGTCCTTACCCGTGTAACTCTAGAAGTAGGGTCACATGCCCA
66 ACACACGACCATGTCCCTGCTCGTGTCCTCACCCGTGTAACTCTAAAAGTAGGGTCACATGCCCA
25934873 CGTGCTAAGCCATGTGTTAGGCCATGTAACTTACTAACTACCATAAAAAGGAACCCTTAAATGAC
131 CGTGCTAAGCCATGTGTTAGGCCATGTAACTTACTAACTACCATAAAAAGGAACCCTTAAATGAC
25934938 ACAACCGTGTCACCAA
196 ACAACCGTGTCACCAA
* *
25934954 GCCGTGTGCCACACACGGCTGAGTCACACGCCCGTGTCTCAGGCCGTGTAACATTTGAACTAGGG
1 GCCGTGTGCCACACACGACTGAGTCACACGTCCGTGTCTCAGGCCGTGTAACATTTGAACTAGGG
*
25935019 ACACACGACCATGTCCCTGCTCGTGTCCTCACCCGTGTAACTCTAAAAGTAGGGTCACATGCCCG
66 ACACACGACCATGTCCCTGCTCGTGTCCTCACCCGTGTAACTCTAAAAGTAGGGTCACATGCCCA
25935084 CGTGCTAAGCCATGTGTTAGGCCATGTAACTTACTAACTACCATAAAAAGGAACCCTTAAATGAC
131 CGTGCTAAGCCATGTGTTAGGCCATGTAACTTACTAACTACCATAAAAAGGAACCCTTAAATGAC
25935149 ACAACCGTGTCACCAA
196 ACAACCGTGTCACCAA
*
25935165 GTCGTGTGCCACACACGACTGAGTCACACGTCCGTGTCTCAGGCCGTGT
1 GCCGTGTGCCACACACGACTGAGTCACACGTCCGTGTCTCAGGCCGTGT
25935214 GGACCTAAAT
Statistics
Matches: 247, Mismatches: 13, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
211 247 1.00
ACGTcount: A:0.26, C:0.30, G:0.22, T:0.22
Consensus pattern (211 bp):
GCCGTGTGCCACACACGACTGAGTCACACGTCCGTGTCTCAGGCCGTGTAACATTTGAACTAGGG
ACACACGACCATGTCCCTGCTCGTGTCCTCACCCGTGTAACTCTAAAAGTAGGGTCACATGCCCA
CGTGCTAAGCCATGTGTTAGGCCATGTAACTTACTAACTACCATAAAAAGGAACCCTTAAATGAC
ACAACCGTGTCACCAA
Found at i:25935696 original size:92 final size:92
Alignment explanation
Indices: 25935534--25935732 Score: 335
Period size: 92 Copynumber: 2.2 Consensus size: 92
25935524 GCATCGCAAG
*
25935534 TTAACCAAAATGACACAATCTAGCAAGGTATCAAATGGTACCAAGCCAAGATAACATCCATAACT
1 TTAA-CAAAATGACACAATCTAGCAAGGTATCAAATGGTACCAAACCAAGATAACATCCATAACT
*
25935599 TATACAAGCCAATTCACCAACTAACTAT
65 TATACAAGCCAATTCACCAACTAACCAT
* * * *
25935627 TTAACAAAATGACACCATTTAGCAAGGTATCAAATGGTACTAAACCAAGATAACATCTATAACTT
1 TTAACAAAATGACACAATCTAGCAAGGTATCAAATGGTACCAAACCAAGATAACATCCATAACTT
25935692 ATACAAGCCAATTCACCAACTAACCAT
66 ATACAAGCCAATTCACCAACTAACCAT
25935719 TTAACAAAATGACA
1 TTAACAAAATGACA
25935733 TTACAATTCA
Statistics
Matches: 100, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
92 96 0.96
93 4 0.04
ACGTcount: A:0.45, C:0.23, G:0.09, T:0.23
Consensus pattern (92 bp):
TTAACAAAATGACACAATCTAGCAAGGTATCAAATGGTACCAAACCAAGATAACATCCATAACTT
ATACAAGCCAATTCACCAACTAACCAT
Found at i:25940810 original size:12 final size:12
Alignment explanation
Indices: 25940793--25940818 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
25940783 TTCATTCAGA
25940793 TTTCACTATAAC
1 TTTCACTATAAC
25940805 TTTCACTATAAC
1 TTTCACTATAAC
25940817 TT
1 TT
25940819 ATGTTCCTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.23, G:0.00, T:0.46
Consensus pattern (12 bp):
TTTCACTATAAC
Found at i:25944048 original size:16 final size:19
Alignment explanation
Indices: 25944005--25944043 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
25943995 CAAAAACCTT
*
25944005 TTCTTAAAATTTTTGTATA
1 TTCTTAAAATTTATGTATA
25944024 TTCTTAAAATTTAT-TATA
1 TTCTTAAAATTTATGTATA
25944042 TT
1 TT
25944044 TAAAAAAACT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 6 0.32
19 13 0.68
ACGTcount: A:0.33, C:0.05, G:0.03, T:0.59
Consensus pattern (19 bp):
TTCTTAAAATTTATGTATA
Found at i:25952303 original size:12 final size:12
Alignment explanation
Indices: 25952286--25952314 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
25952276 ACATGCCTAC
25952286 ACATGTATATCT
1 ACATGTATATCT
25952298 ACATGTATATCT
1 ACATGTATATCT
25952310 ACATG
1 ACATG
25952315 GAGGAGAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.34, C:0.17, G:0.10, T:0.38
Consensus pattern (12 bp):
ACATGTATATCT
Found at i:25958831 original size:25 final size:25
Alignment explanation
Indices: 25958802--25958855 Score: 90
Period size: 25 Copynumber: 2.2 Consensus size: 25
25958792 AATAGTTTTA
*
25958802 TAAACCATATTAAGAAGAATTATTT
1 TAAACCATATTAAGAAGAACTATTT
*
25958827 TAAACCATATTAAGAGGAACTATTT
1 TAAACCATATTAAGAAGAACTATTT
25958852 TAAA
1 TAAA
25958856 TTGTAAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.48, C:0.09, G:0.09, T:0.33
Consensus pattern (25 bp):
TAAACCATATTAAGAAGAACTATTT
Found at i:25964276 original size:21 final size:22
Alignment explanation
Indices: 25964192--25964276 Score: 77
Period size: 21 Copynumber: 3.9 Consensus size: 22
25964182 ATTAAAGCTT
*
25964192 CTAATACGGTGTAGGTAAACCA
1 CTAATACGGTGTAGATAAACCA
*
25964214 CTAAT-CGGTGTAGATAAA-AA
1 CTAATACGGTGTAGATAAACCA
* * *
25964234 TTGCTAATACAGTATGGATAAACCA
1 ---CTAATACGGTGTAGATAAACCA
25964259 CTAA-ACGGTGTAGATAAA
1 CTAATACGGTGTAGATAAA
25964277 AGTTGTTAAT
Statistics
Matches: 49, Mismatches: 9, Indels: 11
0.71 0.13 0.16
Matches are distributed among these distances:
20 1 0.02
21 23 0.47
22 9 0.18
23 5 0.10
24 10 0.20
25 1 0.02
ACGTcount: A:0.41, C:0.14, G:0.20, T:0.25
Consensus pattern (22 bp):
CTAATACGGTGTAGATAAACCA
Found at i:25964400 original size:34 final size:34
Alignment explanation
Indices: 25964362--25964442 Score: 108
Period size: 34 Copynumber: 2.4 Consensus size: 34
25964352 AGTATTTAAT
* *
25964362 TATGCTTTTAACAAAACAATATAGTAGCAATCAA
1 TATGCTTATAACAAAACAATACAGTAGCAATCAA
*** *
25964396 TATGCTTATAACAGTTCAATACAGTAGCAATTAA
1 TATGCTTATAACAAAACAATACAGTAGCAATCAA
25964430 TATGCTTATAACA
1 TATGCTTATAACA
25964443 GTTCAACTCA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 41 1.00
ACGTcount: A:0.43, C:0.15, G:0.10, T:0.32
Consensus pattern (34 bp):
TATGCTTATAACAAAACAATACAGTAGCAATCAA
Found at i:25964443 original size:34 final size:34
Alignment explanation
Indices: 25964378--25964448 Score: 124
Period size: 34 Copynumber: 2.1 Consensus size: 34
25964368 TTTAACAAAA
*
25964378 CAATATAGTAGCAATCAATATGCTTATAACAGTT
1 CAATACAGTAGCAATCAATATGCTTATAACAGTT
*
25964412 CAATACAGTAGCAATTAATATGCTTATAACAGTT
1 CAATACAGTAGCAATCAATATGCTTATAACAGTT
25964446 CAA
1 CAA
25964449 CTCAATAGCA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.42, C:0.15, G:0.11, T:0.31
Consensus pattern (34 bp):
CAATACAGTAGCAATCAATATGCTTATAACAGTT
Found at i:25964458 original size:34 final size:34
Alignment explanation
Indices: 25964386--25964459 Score: 114
Period size: 34 Copynumber: 2.2 Consensus size: 34
25964376 AACAATATAG
*
25964386 TAGCAATCAATATGCTTATAACAGTTCAATACAG
1 TAGCAATCAATATGCTTATAACAGTTCAATACAA
*
25964420 TAGCAATTAATATGCTTATAACAGTTCAACT-CAA
1 TAGCAATCAATATGCTTATAACAGTTCAA-TACAA
25964454 TAGCAA
1 TAGCAA
25964460 AAGTCGTGTT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
34 36 0.97
35 1 0.03
ACGTcount: A:0.42, C:0.18, G:0.11, T:0.30
Consensus pattern (34 bp):
TAGCAATCAATATGCTTATAACAGTTCAATACAA
Found at i:25969108 original size:15 final size:15
Alignment explanation
Indices: 25969090--25969147 Score: 80
Period size: 16 Copynumber: 3.7 Consensus size: 15
25969080 CATAATTATT
25969090 ATTAAATATATTTTA
1 ATTAAATATATTTTA
25969105 ATTAAAATATATTTTA
1 ATT-AAATATATTTTA
*
25969121 ATTAAATATAATTTA
1 ATTAAATATATTTTA
*
25969136 ATAATAATATAT
1 ATTA-AATATAT
25969148 AATTTCATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
15 17 0.45
16 21 0.55
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTAAATATATTTTA
Found at i:25969149 original size:18 final size:18
Alignment explanation
Indices: 25969095--25969157 Score: 57
Period size: 18 Copynumber: 3.8 Consensus size: 18
25969085 TTATTATTAA
*
25969095 ATATATTTTAATTAA-AAT
1 ATATAATTTAA-TAATAAT
25969113 ATAT--TTTAAT--TAA-
1 ATATAATTTAATAATAAT
25969126 ATATAATTTAATAATAAT
1 ATATAATTTAATAATAAT
*
25969144 ATATAATTTCATAA
1 ATATAATTTAATAA
25969158 AATTCTTGAT
Statistics
Matches: 38, Mismatches: 1, Indels: 12
0.75 0.02 0.24
Matches are distributed among these distances:
13 4 0.11
14 2 0.05
15 7 0.18
16 5 0.13
17 3 0.08
18 17 0.45
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.48
Consensus pattern (18 bp):
ATATAATTTAATAATAAT
Found at i:25969174 original size:47 final size:46
Alignment explanation
Indices: 25969123--25969267 Score: 156
Period size: 47 Copynumber: 3.2 Consensus size: 46
25969113 ATATTTTAAT
*
25969123 TAAATATAATTTAATAATAATATATAATTTCATAAAATTCTTGATAA
1 TAAATATAATTTAATAAT-ATATATAATTTCATAAAATTCTTAATAA
* * ** *
25969170 TAAAT-T-TTCTTATATGAATTTATATAA-TT--TAAAATAATTAATAT
1 TAAATATAAT-TTA-AT-AATATATATAATTTCATAAAATTCTTAATAA
25969214 TAAATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAA
1 TAAATATAATTTAATAAT-ATATATAATTTCATAAAATTCTTAATAA
25969261 TAAATAT
1 TAAATAT
25969268 TCTTATATAA
Statistics
Matches: 78, Mismatches: 11, Indels: 18
0.73 0.10 0.17
Matches are distributed among these distances:
43 3 0.04
44 25 0.32
45 7 0.09
46 7 0.09
47 33 0.42
48 3 0.04
ACGTcount: A:0.50, C:0.03, G:0.02, T:0.45
Consensus pattern (46 bp):
TAAATATAATTTAATAATATATATAATTTCATAAAATTCTTAATAA
Found at i:25969238 original size:44 final size:43
Alignment explanation
Indices: 25969121--25969243 Score: 106
Period size: 44 Copynumber: 2.7 Consensus size: 43
25969111 ATATATTTTA
** *
25969121 ATTAAATATAATTTAATAATAATATATAATTTCATAAAATTCTTGAT
1 ATTAAATATAATTTAATAAT-ATATATAA-TT--TAAAATAATTAAT
* * *
25969168 AATAAAT-T-TTCTTATATGAATTTATATAATTTAAAATAATTAAT
1 ATTAAATATAAT-TTA-AT-AATATATATAATTTAAAATAATTAAT
25969212 ATTAAATATAATTTAATAATGATATATAATTT
1 ATTAAATATAATTTAATAAT-ATATATAATTT
25969244 CATAAAATTC
Statistics
Matches: 61, Mismatches: 9, Indels: 15
0.72 0.11 0.18
Matches are distributed among these distances:
43 3 0.05
44 28 0.46
45 5 0.08
46 7 0.11
47 15 0.25
48 3 0.05
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.46
Consensus pattern (43 bp):
ATTAAATATAATTTAATAATATATATAATTTAAAATAATTAAT
Found at i:25969271 original size:16 final size:16
Alignment explanation
Indices: 25969245--25969278 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
25969235 ATATAATTTC
25969245 ATAAAATTCTTA-ATA
1 ATAAAATTCTTATATA
25969260 ATAAATATTCTTATATA
1 ATAAA-ATTCTTATATA
25969277 AT
1 AT
25969279 TTACTAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.29
16 7 0.41
17 5 0.29
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (16 bp):
ATAAAATTCTTATATA
Found at i:25969625 original size:66 final size:66
Alignment explanation
Indices: 25969519--25969649 Score: 226
Period size: 66 Copynumber: 2.0 Consensus size: 66
25969509 TGCAAATGTG
* *
25969519 ATTTGAGTTCAAATTAGATTCATAGTAAGCTCAAATTTTTATTAATGCCAATGCCAACACTACCA
1 ATTTGAGTTCAAATTAGACTCATAGTAAGCTCAAACTTTTATTAATGCCAATGCCAACACTACCA
25969584 C
66 C
* *
25969585 ATTTGGGTTCAAATTATACTCATAGTAAGCTCAAACTTTTATTAATGCCAATGCCAACACTACCA
1 ATTTGAGTTCAAATTAGACTCATAGTAAGCTCAAACTTTTATTAATGCCAATGCCAACACTACCA
25969650 AAACCTTTTG
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
66 61 1.00
ACGTcount: A:0.36, C:0.21, G:0.11, T:0.33
Consensus pattern (66 bp):
ATTTGAGTTCAAATTAGACTCATAGTAAGCTCAAACTTTTATTAATGCCAATGCCAACACTACCA
C
Found at i:25976025 original size:14 final size:15
Alignment explanation
Indices: 25976006--25976042 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
25975996 AACGAAAGAT
25976006 AAAAGAAGGAAAAA-
1 AAAAGAAGGAAAAAC
*
25976020 AAAAG-AGAAAAAAC
1 AAAAGAAGGAAAAAC
25976034 AAAAGAAGG
1 AAAAGAAGG
25976043 GGAACGAGAG
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
13 7 0.37
14 10 0.53
15 2 0.11
ACGTcount: A:0.76, C:0.03, G:0.22, T:0.00
Consensus pattern (15 bp):
AAAAGAAGGAAAAAC
Found at i:25979618 original size:47 final size:48
Alignment explanation
Indices: 25979567--25979678 Score: 127
Period size: 47 Copynumber: 2.4 Consensus size: 48
25979557 TTATCAGCTT
* * * *
25979567 GACCAATTGTTTATCCATAATGTATCCTAGTCGGTAGTT-ATCTACTC
1 GACCAATGGTTTATCCACAACGTATCCTAGTCGATAGTTCATCTACTC
* * *
25979614 GACCAGTGGTTTATCCACAACGTATTCTAGTCGATAGTTCATTTACTC
1 GACCAATGGTTTATCCACAACGTATCCTAGTCGATAGTTCATCTACTC
* * *
25979662 GACTAGTGGTTCATCCA
1 GACCAATGGTTTATCCA
25979679 TAACATGTTA
Statistics
Matches: 55, Mismatches: 9, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
47 33 0.60
48 22 0.40
ACGTcount: A:0.25, C:0.22, G:0.17, T:0.36
Consensus pattern (48 bp):
GACCAATGGTTTATCCACAACGTATCCTAGTCGATAGTTCATCTACTC
Found at i:25979678 original size:48 final size:47
Alignment explanation
Indices: 25979579--25979678 Score: 128
Period size: 47 Copynumber: 2.1 Consensus size: 47
25979569 CCAATTGTTT
* * * *
25979579 ATCCATAATGTATCCTAGTCGGTAGTTATCTACTCGACCAGTGGTTT
1 ATCCACAACGTATCCTAGTCGATAGTTATCTACTCGACCAGTGGTTC
* * *
25979626 ATCCACAACGTATTCTAGTCGATAGTTCATTTACTCGACTAGTGGTTC
1 ATCCACAACGTATCCTAGTCGATAGTT-ATCTACTCGACCAGTGGTTC
25979674 ATCCA
1 ATCCA
25979679 TAACATGTTA
Statistics
Matches: 45, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
47 23 0.51
48 22 0.49
ACGTcount: A:0.25, C:0.23, G:0.17, T:0.35
Consensus pattern (47 bp):
ATCCACAACGTATCCTAGTCGATAGTTATCTACTCGACCAGTGGTTC
Found at i:25983470 original size:3 final size:3
Alignment explanation
Indices: 25983462--25983492 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
25983452 ATCATCGTTG
25983462 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
25983493 GCTAAAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:25987251 original size:46 final size:44
Alignment explanation
Indices: 25987184--25987269 Score: 109
Period size: 46 Copynumber: 1.9 Consensus size: 44
25987174 GAATAGAGAC
* * * *
25987184 GTAATGGAATAGATGCGTAATAGGTAATACTTTTGTTTGGTTCGCT
1 GTAATAGAATAGAAGAGTAATA-GT-ATACTTGTGTTTGGTTCGCT
*
25987230 GTAATAGAATAGAAGAGTAATAGTATTCTTGTGTTTGGTT
1 GTAATAGAATAGAAGAGTAATAGTATACTTGTGTTTGGTT
25987270 GAATGGAATA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
44 14 0.40
45 2 0.06
46 19 0.54
ACGTcount: A:0.29, C:0.06, G:0.26, T:0.40
Consensus pattern (44 bp):
GTAATAGAATAGAAGAGTAATAGTATACTTGTGTTTGGTTCGCT
Found at i:25987696 original size:120 final size:120
Alignment explanation
Indices: 25987413--25988011 Score: 992
Period size: 120 Copynumber: 5.0 Consensus size: 120
25987403 TAATTTAATA
* * * * *
25987413 ATAATTTAAAATAACTATTGTTAAATAT-TATTTAA-TAAAGATATATAATTTAATAAAATTCTT
1 ATAATTTGAAATAATTATTATTAAATATAT-TTTAATTAAA-ATATATAATCTAATAAAATTATT
*
25987476 AATATTAAATATTCTTATATGAATTTACTAAAATCAT-ATATA--ATACTATAAAAT
64 AATAATAAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAAT
* * * * * *
25987530 ATAATTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTTTTAG
1 ATAATTTGAAATAATTATTATTAAATATATTTTAATTAAAATATATAATCTAATAAAATTATTAA
* *
25987595 TATTAAATATTCATATATGAATTTACTAAAATCATAATATATGATACTATAAAAT
66 TAATAAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAAT
25987650 ATAATTTGAAATAATTATTATTAAATATATTTTAATTAAAATATATAATCTAATAAAATTATTAA
1 ATAATTTGAAATAATTATTATTAAATATATTTTAATTAAAATATATAATCTAATAAAATTATTAA
*
25987715 TAATAAATATTCTTATATGAATTTACTAAGATCATAATATATGATACTATAAAAT
66 TAATAAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAAT
25987770 ATAATTTGAAATAATTATTATTAAATATATTTTAATTAAAATATATAATCTAATAAAATTATTAA
1 ATAATTTGAAATAATTATTATTAAATATATTTTAATTAAAATATATAATCTAATAAAATTATTAA
*
25987835 TAATAAATATTCTTATATGAATTTACTAAAATCACAATATATGATACTATAAAAT
66 TAATAAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAAT
25987890 ATAATTTGAAATAATTATTATTAAATATATTTTAATTAAAATATATAATCTAATAAAATTATTAA
1 ATAATTTGAAATAATTATTATTAAATATATTTTAATTAAAATATATAATCTAATAAAATTATTAA
*
25987955 TAATAAATATTCTTATATGAAATTACTAAAATCATAATATATGATACTATAAAAT
66 TAATAAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAAT
25988010 AT
1 AT
25988012 TTTTAATTAA
Statistics
Matches: 457, Mismatches: 20, Indels: 7
0.94 0.04 0.01
Matches are distributed among these distances:
117 88 0.19
118 8 0.02
120 361 0.79
ACGTcount: A:0.51, C:0.04, G:0.03, T:0.42
Consensus pattern (120 bp):
ATAATTTGAAATAATTATTATTAAATATATTTTAATTAAAATATATAATCTAATAAAATTATTAA
TAATAAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAAT
Found at i:25990195 original size:6 final size:6
Alignment explanation
Indices: 25990182--25990225 Score: 61
Period size: 6 Copynumber: 7.2 Consensus size: 6
25990172 ACCCTTCTTC
* *
25990182 TCCCCTT TCCCTT TCCCCT TCCCCT TCCCTT TCCCCT TCCCCT T
1 TCCCC-T TCCCCT TCCCCT TCCCCT TCCCCT TCCCCT TCCCCT T
25990226 GGTTTGCAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
6 29 0.88
7 4 0.12
ACGTcount: A:0.00, C:0.59, G:0.00, T:0.41
Consensus pattern (6 bp):
TCCCCT
Found at i:25990211 original size:18 final size:18
Alignment explanation
Indices: 25990182--25990225 Score: 79
Period size: 18 Copynumber: 2.4 Consensus size: 18
25990172 ACCCTTCTTC
25990182 TCCCCTTTCCCTTTCCCCT
1 TCCCC-TTCCCTTTCCCCT
25990201 TCCCCTTCCCTTTCCCCT
1 TCCCCTTCCCTTTCCCCT
25990219 TCCCCTT
1 TCCCCTT
25990226 GGTTTGCAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 20 0.80
19 5 0.20
ACGTcount: A:0.00, C:0.59, G:0.00, T:0.41
Consensus pattern (18 bp):
TCCCCTTCCCTTTCCCCT
Found at i:25993395 original size:59 final size:59
Alignment explanation
Indices: 25993331--25993529 Score: 210
Period size: 59 Copynumber: 3.3 Consensus size: 59
25993321 AATACTAAGA
25993331 ATTTTATTAAT-TTATATATTTTTGTTAAATTATATTTAATAATAATTATTTTAAATTAT
1 ATTTTA-TAATATTATATATTTTTGTTAAATTATATTTAATAATAATTATTTTAAATTAT
* * ** * * * * * *
25993390 ATTTTATAGTATTATATA-TTATGATTTTAGTAAATTCATATAAGAA-TA-TTTAATACTAAGA
1 ATTTTATAATATTATATATTTTTG-TTAAATTATATTTA-ATAATAATTATTTTAA-A-TTA-T
25993451 ATTTTATTAA-ATTATATATTTTTGTTAAATTATATTTAATAATAATTATTTTAAATTAT
1 ATTTTA-TAATATTATATATTTTTGTTAAATTATATTTAATAATAATTATTTTAAATTAT
25993510 ATTTTATAATATTATATATT
1 ATTTTATAATATTATATATT
25993530 ATAATTTTAG
Statistics
Matches: 109, Mismatches: 20, Indels: 22
0.72 0.13 0.15
Matches are distributed among these distances:
58 15 0.14
59 41 0.38
60 16 0.15
61 26 0.24
62 11 0.10
ACGTcount: A:0.41, C:0.01, G:0.04, T:0.55
Consensus pattern (59 bp):
ATTTTATAATATTATATATTTTTGTTAAATTATATTTAATAATAATTATTTTAAATTAT
Found at i:25993473 original size:18 final size:17
Alignment explanation
Indices: 25993451--25993585 Score: 95
Period size: 18 Copynumber: 8.0 Consensus size: 17
25993441 AATACTAAGA
25993451 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
*
25993468 ATTTTTGTTAAA-T-TAT
1 A-TTTTATTAAATTATAT
* *
25993484 A-TTTAAT-AATAAT-T
1 ATTTTATTAAATTATAT
* *
25993498 ATTTTAAATTATATTTTAT
1 ATTTT--ATTAAATTATAT
* *
25993517 AATATTA-TATATTATA-
1 -ATTTTATTAAATTATAT
*
25993533 ATTTTAGTAAATTCATAT
1 ATTTTATTAAATT-ATAT
25993551 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
25993568 ATTTTTATTAAATTATAT
1 A-TTTTATTAAATTATAT
25993586 TTAATAATAA
Statistics
Matches: 92, Mismatches: 13, Indels: 25
0.71 0.10 0.19
Matches are distributed among these distances:
13 2 0.02
14 6 0.07
15 9 0.10
16 9 0.10
17 20 0.22
18 41 0.45
19 1 0.01
20 4 0.04
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.57
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:25993481 original size:120 final size:120
Alignment explanation
Indices: 25993309--25993551 Score: 450
Period size: 120 Copynumber: 2.0 Consensus size: 120
25993299 TGATACAATC
*
25993309 ATAAAAATATTTAATACTAAGAATTTTATTAATTTATATATTTTTGTTAAATTATATTTAATAAT
1 ATAAAAATATTTAATACTAAGAATTTTATTAAATTATATATTTTTGTTAAATTATATTTAATAAT
* *
25993374 AATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCAT
66 AATTATTTTAAATTATATTTTATAATATTATATATTATAATTTTAGTAAATTCAT
*
25993429 ATAAGAATATTTAATACTAAGAATTTTATTAAATTATATATTTTTGTTAAATTATATTTAATAAT
1 ATAAAAATATTTAATACTAAGAATTTTATTAAATTATATATTTTTGTTAAATTATATTTAATAAT
25993494 AATTATTTTAAATTATATTTTATAATATTATATATTATAATTTTAGTAAATTCAT
66 AATTATTTTAAATTATATTTTATAATATTATATATTATAATTTTAGTAAATTCAT
25993549 ATA
1 ATA
25993552 TTTTATTAAA
Statistics
Matches: 119, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
120 119 1.00
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.52
Consensus pattern (120 bp):
ATAAAAATATTTAATACTAAGAATTTTATTAAATTATATATTTTTGTTAAATTATATTTAATAAT
AATTATTTTAAATTATATTTTATAATATTATATATTATAATTTTAGTAAATTCAT
Found at i:25993504 original size:26 final size:25
Alignment explanation
Indices: 25993466--25993524 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 25
25993456 ATTAAATTAT
*
25993466 ATATTTTTGTTAAATTATATTTAATA
1 ATATTATT-TTAAATTATATTTAATA
*
25993492 ATAATTATTTTAAATTATATTTTATA
1 AT-ATTATTTTAAATTATATTTAATA
25993518 ATATTAT
1 ATATTAT
25993525 ATATTATAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
25 5 0.17
26 20 0.67
27 5 0.17
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.58
Consensus pattern (25 bp):
ATATTATTTTAAATTATATTTAATA
Found at i:25993523 original size:15 final size:15
Alignment explanation
Indices: 25993479--25993534 Score: 57
Period size: 15 Copynumber: 4.0 Consensus size: 15
25993469 TTTTTGTTAA
*
25993479 ATTATATTTAATAAT
1 ATTATATTTTATAAT
*
25993494 AAT-TA-TTT-TAA-
1 ATTATATTTTATAAT
25993505 ATTATATTTTATAAT
1 ATTATATTTTATAAT
*
25993520 ATTATATATTATAAT
1 ATTATATTTTATAAT
25993535 TTTAGTAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
11 2 0.06
12 5 0.15
13 5 0.15
14 5 0.15
15 16 0.48
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
ATTATATTTTATAAT
Found at i:25993552 original size:41 final size:40
Alignment explanation
Indices: 25993387--25993570 Score: 118
Period size: 41 Copynumber: 4.6 Consensus size: 40
25993377 TATTTTAAAT
* *
25993387 TATATTTTATAGTATTATATATTATGATTTTAGTAAATTCA
1 TATATTTTATAATATTATATATTATAATTTTAGTAAATT-A
* * * *
25993428 TATA----AGAATATT-TAATACTAAGAATTTTATTAAATTA
1 TATATTTTATAATATTAT-ATA-TTATAATTTTAGTAAATTA
* **
25993465 TATATTTTTGTTAA-ATTATAT-TTAATAATAATTATTTTAAA-T-
1 TATA-TTTT-ATAATATTATATATT-ATAAT--TT-TAGTAAATTA
25993507 TATATTTTATAATATTATATATTATAATTTTAGTAAATTCA
1 TATATTTTATAATATTATATATTATAATTTTAGTAAATT-A
25993548 TATATTTTATTAA-ATTATATATT
1 TATATTTTA-TAATATTATATATT
25993571 TTTATTAAAT
Statistics
Matches: 110, Mismatches: 14, Indels: 38
0.68 0.09 0.23
Matches are distributed among these distances:
36 1 0.01
37 14 0.13
38 19 0.17
39 3 0.03
40 4 0.04
41 43 0.39
42 14 0.13
43 6 0.05
44 6 0.05
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.53
Consensus pattern (40 bp):
TATATTTTATAATATTATATATTATAATTTTAGTAAATTA
Found at i:25993775 original size:21 final size:21
Alignment explanation
Indices: 25993749--25993803 Score: 85
Period size: 21 Copynumber: 2.6 Consensus size: 21
25993739 ACCGCTGTTT
*
25993749 CTAATCTCACTGCTACAGTAAC
1 CTAATCTCACCGCTACAGT-AC
25993771 C-AATCTCACCGCTACAGTAC
1 CTAATCTCACCGCTACAGTAC
25993791 CTAATCTCACCGC
1 CTAATCTCACCGC
25993804 CATCGCTATT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
20 3 0.10
21 27 0.87
22 1 0.03
ACGTcount: A:0.29, C:0.38, G:0.09, T:0.24
Consensus pattern (21 bp):
CTAATCTCACCGCTACAGTAC
Found at i:25996997 original size:50 final size:51
Alignment explanation
Indices: 25996874--25997059 Score: 207
Period size: 50 Copynumber: 3.7 Consensus size: 51
25996864 AAAGTGATGG
* * * * * *
25996874 TCACGTGTGTAGTACTATGTGCAAGCTACTATGTGTGCCAGA-A-TGATAGG
1 TCACATGTATAGTACTATGTGCAGGCTACTATGTGTACCAGATAGT-ATTGA
* *
25996924 TCGCATGTATAGTACTATGTGCAGGCTACTATGTGTACCAGATAGTTTTGA
1 TCACATGTATAGTACTATGTGCAGGCTACTATGTGTACCAGATAGTATTGA
* * * * * * *
25996975 TCACGTGTGTAGTACTAT-TGCAGGCTACTACGTGTATCGGATGGTAATGA
1 TCACATGTATAGTACTATGTGCAGGCTACTATGTGTACCAGATAGTATTGA
25997025 TCACATGTATAGTACTATGTGCAGGCTACTATGTG
1 TCACATGTATAGTACTATGTGCAGGCTACTATGTG
25997060 AACTGAACAT
Statistics
Matches: 113, Mismatches: 20, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
50 79 0.70
51 33 0.29
52 1 0.01
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.33
Consensus pattern (51 bp):
TCACATGTATAGTACTATGTGCAGGCTACTATGTGTACCAGATAGTATTGA
Found at i:25997032 original size:101 final size:101
Alignment explanation
Indices: 25996874--25997059 Score: 268
Period size: 101 Copynumber: 1.8 Consensus size: 101
25996864 AAAGTGATGG
* * * *
25996874 TCACGTGTGTAGTACTATGTGCAAGCTACTATGTGTGCCAGAATGATAGGTCGCATGTATAGTAC
1 TCACGTGTGTAGTACTATGTGCAAGCTACTACGTGTACCAGAATGATAGATCACATGTATAGTAC
25996939 TATGTGCAGGCTACTATGTGTACCAGATAGTTTTGA
66 TATGTGCAGGCTACTATGTGTACCAGATAGTTTTGA
* * * *
25996975 TCACGTGTGTAGTACTAT-TGCAGGCTACTACGTGTATC-GGATGGTAATGATCACATGTATAGT
1 TCACGTGTGTAGTACTATGTGCAAGCTACTACGTGTACCAGAATGAT-A-GATCACATGTATAGT
25997038 ACTATGTGCAGGCTACTATGTG
64 ACTATGTGCAGGCTACTATGTG
25997060 AACTGAACAT
Statistics
Matches: 75, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
99 5 0.07
100 17 0.23
101 53 0.71
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.33
Consensus pattern (101 bp):
TCACGTGTGTAGTACTATGTGCAAGCTACTACGTGTACCAGAATGATAGATCACATGTATAGTAC
TATGTGCAGGCTACTATGTGTACCAGATAGTTTTGA
Found at i:25997152 original size:45 final size:45
Alignment explanation
Indices: 25997066--25997153 Score: 140
Period size: 45 Copynumber: 2.0 Consensus size: 45
25997056 TGTGAACTGA
* * *
25997066 ACATCATTGATTAGTAAGGTGGTTGCTATGTACTGATTCCACCGG
1 ACATCATTGATTAATAAGGTGGTTGCTATGTACTAAATCCACCGG
*
25997111 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTAAATCCACC
1 ACATCATTGATTAATAAGGTGGTTGCTATGTACTAAATCCACC
25997154 TAGTATCTGT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.33
Consensus pattern (45 bp):
ACATCATTGATTAATAAGGTGGTTGCTATGTACTAAATCCACCGG
Found at i:26002586 original size:51 final size:51
Alignment explanation
Indices: 26002527--26002651 Score: 162
Period size: 51 Copynumber: 2.5 Consensus size: 51
26002517 TGGTCACGTA
* * *
26002527 TGTAGTACTATGTGCAGACTACTATGCATATCAGATAGT-TTCGATCACATG
1 TGTAGTACTATGTGCAGGCTACTACGCATATCAGATAGTAAT-GATCACATG
** * * *
26002578 TGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGGTAATGGTCACATG
1 TGTAGTACTATGTGCAGGCTACTACGCATATCAGATAGTAATGATCACATG
26002629 TGTAGTACTATGTGCAGGCTACT
1 TGTAGTACTATGTGCAGGCTACT
26002652 GTGTGAACTG
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
51 64 0.98
52 1 0.02
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.33
Consensus pattern (51 bp):
TGTAGTACTATGTGCAGGCTACTACGCATATCAGATAGTAATGATCACATG
Found at i:26002822 original size:23 final size:22
Alignment explanation
Indices: 26002796--26002839 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
26002786 AATTGACTAA
26002796 GTGT-AATTGAATAATGAATATAG
1 GTGTGAATTGAAT--TGAATATAG
26002819 GTGTGGAATTGAATTGAATAT
1 GTGT-GAATTGAATTGAATAT
26002840 CAACTTAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.39, C:0.00, G:0.25, T:0.36
Consensus pattern (22 bp):
GTGTGAATTGAATTGAATATAG
Found at i:26009165 original size:43 final size:43
Alignment explanation
Indices: 26009104--26009312 Score: 292
Period size: 43 Copynumber: 4.9 Consensus size: 43
26009094 TTATGTGGAA
*
26009104 AAACGCCGCTATAGAACATGACCTTTAGCGGCACTTTCCCCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCACTTTCCCCAC
* *** * * *
26009147 AAACGCTGCTAAAGAACATGACCTTTAGCGTTGCTTTTCCTAT
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCACTTTCCCCAC
* *
26009190 AAACGCCGCTAAAGAACATGACCTTTAGTGGCGCTTTCCCCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCACTTTCCCCAC
* * *
26009233 AGATGCCACTAAAGAACATGACCTTTAGCGGCACTTTCCCCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCACTTTCCCCAC
*
26009276 AAACGCTGCTAAAGAACATGACCTTTAGCGGCACTTT
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCACTTT
26009313 TTCCAAAAAT
Statistics
Matches: 142, Mismatches: 24, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 142 1.00
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.24
Consensus pattern (43 bp):
AAACGCCGCTAAAGAACATGACCTTTAGCGGCACTTTCCCCAC
Found at i:26009795 original size:66 final size:65
Alignment explanation
Indices: 26009689--26009818 Score: 174
Period size: 66 Copynumber: 2.0 Consensus size: 65
26009679 ATTCTGAAGC
* * *
26009689 TGTAGCTGGAGTTCATCATATTTTCTACTTGCCTTTGCTTCCCTC-ACTGCTGCCTCTGCTTTAA
1 TGTAGCTGGAGTTCATCATATTTTCTA-TTGCCTCTGCTTCCCTCGA-TGCTACCTCCGCTTTAA
26009753 CT
64 CT
*
26009755 TGTAGCTGGAGTTCATCATATTTTCT-TTAAGCCTCTGCTTCTCTCGATGCTACCTCCGCTTTAA
1 TGTAGCTGGAGTTCATCATATTTTCTATT--GCCTCTGCTTCCCTCGATGCTACCTCCGCTTTAA
26009819 GTTGAGCAGT
Statistics
Matches: 57, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
64 2 0.04
66 54 0.95
67 1 0.02
ACGTcount: A:0.15, C:0.28, G:0.15, T:0.42
Consensus pattern (65 bp):
TGTAGCTGGAGTTCATCATATTTTCTATTGCCTCTGCTTCCCTCGATGCTACCTCCGCTTTAACT
Found at i:26015488 original size:35 final size:35
Alignment explanation
Indices: 26015449--26015515 Score: 116
Period size: 35 Copynumber: 1.9 Consensus size: 35
26015439 TTTTTTTATT
26015449 CTTTAAATATTTATGTAAGTTATGATAATCATAAA
1 CTTTAAATATTTATGTAAGTTATGATAATCATAAA
* *
26015484 CTTTAAATGTTTATGTAAGTTATGATTATCAT
1 CTTTAAATATTTATGTAAGTTATGATAATCAT
26015516 CTTTAAATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.37, C:0.06, G:0.10, T:0.46
Consensus pattern (35 bp):
CTTTAAATATTTATGTAAGTTATGATAATCATAAA
Found at i:26016698 original size:99 final size:99
Alignment explanation
Indices: 26016516--26016701 Score: 284
Period size: 99 Copynumber: 1.9 Consensus size: 99
26016506 ATAATTGAAC
* * **
26016516 TAAACGGTTCTACTTAATATCAAAATTCAATAAATTGAACTAAATTAATTTTTTTAAAAACGCAT
1 TAAACGGTTCCACTTAATATCAAAACTCAATAAATTGAACTAAATTAACCTTTTTAAAAACGCAT
*
26016581 AATTGAACAAGCAGTTTTACTTTGTATAACAGAA
66 AATTGAACAAACAGTTTTACTTTGTATAACAGAA
* **
26016615 TAAATGGTTCCACTTAATATCAAAACTCAATAAATTGAACTAAATTAACCTTTTTAAAAATTCAT
1 TAAACGGTTCCACTTAATATCAAAACTCAATAAATTGAACTAAATTAACCTTTTTAAAAACGCAT
26016680 AATTGAACAAAC-GTTTTTACTT
66 AATTGAACAAACAG-TTTTACTT
26016702 AATATCAAAT
Statistics
Matches: 78, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
98 1 0.01
99 77 0.99
ACGTcount: A:0.43, C:0.13, G:0.08, T:0.36
Consensus pattern (99 bp):
TAAACGGTTCCACTTAATATCAAAACTCAATAAATTGAACTAAATTAACCTTTTTAAAAACGCAT
AATTGAACAAACAGTTTTACTTTGTATAACAGAA
Found at i:26016709 original size:72 final size:72
Alignment explanation
Indices: 26016626--26016848 Score: 225
Period size: 72 Copynumber: 3.1 Consensus size: 72
26016616 AAATGGTTCC
*
26016626 ACTTAATATCAAAACTCAATAAATTGAACTAAATTAACCTTTTTAAAAATTCATAATTGAACAAA
1 ACTTAATATCAAAACTCAATAAATTGAACTAAATTAACCTTTTTAAAAATTCATAATTAAACAAA
*
26016691 CGTTTTT
66 CGATTTT
** ** * ** * *
26016698 ACTTAATATCAAATTTCAATAAATCAAACTAAATTAAGC-TTTTGGAAATGT-ATAACTAAATAA
1 ACTTAATATCAAAACTCAATAAATTGAACTAAATTAACCTTTTTAAAAAT-TCATAATTAAACAA
* ** *
26016761 ATGGGTTC
65 ACGATTTT
* * * * **
26016769 GCGTAATATAAAAACTTAATAAATTGAACTAAATTAACCTTTTTAAAAACACATAATTAAACAAA
1 ACTTAATATCAAAACTCAATAAATTGAACTAAATTAACCTTTTTAAAAATTCATAATTAAACAAA
*
26016834 CAATTTT
66 CGATTTT
26016841 ACTTAATA
1 ACTTAATA
26016849 ATTAATCGAA
Statistics
Matches: 112, Mismatches: 36, Indels: 6
0.73 0.23 0.04
Matches are distributed among these distances:
71 51 0.46
72 61 0.54
ACGTcount: A:0.48, C:0.13, G:0.06, T:0.34
Consensus pattern (72 bp):
ACTTAATATCAAAACTCAATAAATTGAACTAAATTAACCTTTTTAAAAATTCATAATTAAACAAA
CGATTTT
Found at i:26018931 original size:38 final size:38
Alignment explanation
Indices: 26018880--26019014 Score: 128
Period size: 41 Copynumber: 3.4 Consensus size: 38
26018870 AAAATGATAC
*
26018880 TTTGCGGCCTTTTTCTCAGT-GCTGCTAATGCTTGACCT
1 TTTGCGGCATTTTTCTCA-TAGCTGCTAATGCTTGACCT
**
26018918 TTTGCGGTGTTTTTCTCATAAACGCTGCTAATGCTTGACCT
1 TTTGCGGCATTTTTCTCAT--A-GCTGCTAATGCTTGACCT
* * *
26018959 TTTGAGGCATTTTTCTCATAAATGCTGCTACTGCTTTACCT
1 TTTGCGGCATTTTTCTCAT--A-GCTGCTAATGCTTGACCT
* *
26019000 ATTGCGACATTTTTC
1 TTTGCGGCATTTTTC
26019015 CGTCCAAACG
Statistics
Matches: 82, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
37 1 0.01
38 16 0.20
41 65 0.79
ACGTcount: A:0.16, C:0.23, G:0.18, T:0.43
Consensus pattern (38 bp):
TTTGCGGCATTTTTCTCATAGCTGCTAATGCTTGACCT
Found at i:26018956 original size:41 final size:41
Alignment explanation
Indices: 26018900--26019014 Score: 158
Period size: 41 Copynumber: 2.8 Consensus size: 41
26018890 TTTTCTCAGT
**
26018900 GCTGCTAATGCTTGACCTTTTGCGGTGTTTTTCTCATAAAC
1 GCTGCTAATGCTTGACCTTTTGCGGCATTTTTCTCATAAAC
* *
26018941 GCTGCTAATGCTTGACCTTTTGAGGCATTTTTCTCATAAAT
1 GCTGCTAATGCTTGACCTTTTGCGGCATTTTTCTCATAAAC
* * * *
26018982 GCTGCTACTGCTTTACCTATTGCGACATTTTTC
1 GCTGCTAATGCTTGACCTTTTGCGGCATTTTTC
26019015 CGTCCAAACG
Statistics
Matches: 65, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 65 1.00
ACGTcount: A:0.18, C:0.23, G:0.17, T:0.42
Consensus pattern (41 bp):
GCTGCTAATGCTTGACCTTTTGCGGCATTTTTCTCATAAAC
Done.