Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr7
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: 55462051
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2780933 characters in sequence are not A, C, G, or T
File 98 of 163
Found at i:31606909 original size:31 final size:30
Alignment explanation
Indices: 31606873--31606931 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 30
31606863 TTTTATAATG
*
31606873 TATATAACTGAATTAAAATAAAAGATTTATA
1 TATATAACTGAATCAAAATAAAA-ATTTATA
**
31606904 TATATATTTGAATCAAAATAAAAATTTA
1 TATATAACTGAATCAAAATAAAAATTTA
31606932 ATGTGTATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 5 0.20
31 20 0.80
ACGTcount: A:0.54, C:0.03, G:0.05, T:0.37
Consensus pattern (30 bp):
TATATAACTGAATCAAAATAAAAATTTATA
Found at i:31617093 original size:22 final size:23
Alignment explanation
Indices: 31617052--31617095 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
31617042 GATTTTCGGA
31617052 TTTCTTTTTTTCTTCTTCTTTGT
1 TTTCTTTTTTTCTTCTTCTTTGT
31617075 TTTCTTTTGTTT-TTC-TCTTTG
1 TTTCTTTT-TTTCTTCTTCTTTG
31617096 CAAATAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 6 0.30
23 11 0.55
24 3 0.15
ACGTcount: A:0.00, C:0.16, G:0.07, T:0.77
Consensus pattern (23 bp):
TTTCTTTTTTTCTTCTTCTTTGT
Found at i:31617817 original size:18 final size:17
Alignment explanation
Indices: 31617790--31617823 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
31617780 ATTCCTGACA
31617790 TATTTTTTAAAATCTAG
1 TATTTTTTAAAATCTAG
*
31617807 TATTATTTTAATATCTA
1 TATT-TTTTAAAATCTA
31617824 AGCTTAACAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.35, C:0.06, G:0.03, T:0.56
Consensus pattern (17 bp):
TATTTTTTAAAATCTAG
Found at i:31617905 original size:22 final size:23
Alignment explanation
Indices: 31617827--31617965 Score: 106
Period size: 24 Copynumber: 6.0 Consensus size: 23
31617817 ATATCTAAGC
* *
31617827 TTAACATTGTTTTAAATTTATCA
1 TTAATATTATTTTAAATTTATCA
* * *
31617850 TTAGTATTATTTT-AATATATAA
1 TTAATATTATTTTAAATTTATCA
*
31617872 TATACTATTATTTTAAA-TTATCA
1 T-TAATATTATTTTAAATTTATCA
31617895 TTAATATTA-TTTAAATTTATCA
1 TTAATATTATTTTAAATTTATCA
* *
31617917 -TACATCATAATTTGAAATTTATCA
1 TTA-AT-ATTATTTTAAATTTATCA
* * * *
31617941 TGTACTGTAATTTTAAACTTATCA
1 T-TAATATTATTTTAAATTTATCA
31617965 T
1 T
31617966 ATCATTATTT
Statistics
Matches: 93, Mismatches: 15, Indels: 15
0.76 0.12 0.12
Matches are distributed among these distances:
21 8 0.09
22 23 0.25
23 29 0.31
24 30 0.32
25 1 0.01
26 2 0.02
ACGTcount: A:0.38, C:0.08, G:0.04, T:0.50
Consensus pattern (23 bp):
TTAATATTATTTTAAATTTATCA
Found at i:31617935 original size:45 final size:46
Alignment explanation
Indices: 31617840--31617941 Score: 118
Period size: 45 Copynumber: 2.2 Consensus size: 46
31617830 ACATTGTTTT
* * * * *
31617840 AAATTTATCATTAGTATTATTTTAATATATAATATACTATTATTTT
1 AAATTTATCATTAATATTATTTAAATATATAATACACTATAATTTG
* *
31617886 AAA-TTATCATTAATATTATTTAAATTTATCATACA-TCATAATTTG
1 AAATTTATCATTAATATTATTTAAATATATAATACACT-ATAATTTG
31617931 AAATTTATCAT
1 AAATTTATCAT
31617942 GTACTGTAAT
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
44 1 0.02
45 36 0.77
46 10 0.21
ACGTcount: A:0.41, C:0.07, G:0.02, T:0.50
Consensus pattern (46 bp):
AAATTTATCATTAATATTATTTAAATATATAATACACTATAATTTG
Found at i:31618010 original size:14 final size:15
Alignment explanation
Indices: 31617985--31618013 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
31617975 TAGATCTATC
31617985 GTATACTATTTTTAT
1 GTATACTATTTTTAT
31618000 GTATA-TATTTTTAT
1 GTATACTATTTTTAT
31618014 ATAAGCTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.28, C:0.03, G:0.07, T:0.62
Consensus pattern (15 bp):
GTATACTATTTTTAT
Found at i:31624391 original size:22 final size:22
Alignment explanation
Indices: 31624363--31624407 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
31624353 AGTAATTCTT
31624363 GTTGTTTTAAAGGTTTAGCCCG
1 GTTGTTTTAAAGGTTTAGCCCG
*
31624385 GTTGTTTTAAAGGTTTAGTCCG
1 GTTGTTTTAAAGGTTTAGCCCG
31624407 G
1 G
31624408 GCGGGTAACC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.18, C:0.11, G:0.29, T:0.42
Consensus pattern (22 bp):
GTTGTTTTAAAGGTTTAGCCCG
Found at i:31624613 original size:13 final size:13
Alignment explanation
Indices: 31624597--31624698 Score: 69
Period size: 13 Copynumber: 7.8 Consensus size: 13
31624587 CTATACAAAA
31624597 TGGTTATATGAAT
1 TGGTTATATGAAT
* *
31624610 TGGTTCTACGAAT
1 TGGTTATATGAAT
* *
31624623 TGGTTATGTGAAA
1 TGGTTATATGAAT
* *
31624636 TGATTATAAGAAT
1 TGGTTATATGAAT
*
31624649 TGGTTATATAGAAA
1 TGGTTATAT-GAAT
** * * *
31624663 CAGATATACGAAA
1 TGGTTATATGAAT
31624676 TGGTTATATGAAT
1 TGGTTATATGAAT
**
31624689 CAGTTATATG
1 TGGTTATATG
31624699 GAAACATATA
Statistics
Matches: 64, Mismatches: 24, Indels: 2
0.71 0.27 0.02
Matches are distributed among these distances:
13 56 0.88
14 8 0.12
ACGTcount: A:0.36, C:0.05, G:0.22, T:0.37
Consensus pattern (13 bp):
TGGTTATATGAAT
Found at i:31624626 original size:26 final size:26
Alignment explanation
Indices: 31624597--31624687 Score: 85
Period size: 26 Copynumber: 3.5 Consensus size: 26
31624587 CTATACAAAA
* * * *
31624597 TGGTTATATGAATTGGTTCTACGAAT
1 TGGTTATATGAAATGATTATAAGAAT
*
31624623 TGGTTATGTGAAATGATTATAAGAAT
1 TGGTTATATGAAATGATTATAAGAAT
* * *
31624649 TGGTTATATAGAAACAGA-TATACGAAA
1 TGGTTATAT-GAAA-TGATTATAAGAAT
31624676 TGGTTATATGAA
1 TGGTTATATGAA
31624688 TCAGTTATAT
Statistics
Matches: 54, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
26 32 0.59
27 20 0.37
28 2 0.04
ACGTcount: A:0.37, C:0.04, G:0.22, T:0.36
Consensus pattern (26 bp):
TGGTTATATGAAATGATTATAAGAAT
Found at i:31624670 original size:27 final size:26
Alignment explanation
Indices: 31624619--31624687 Score: 77
Period size: 27 Copynumber: 2.6 Consensus size: 26
31624609 TTGGTTCTAC
* *
31624619 GAATTGGTTATGTGAAATGATTATAA
1 GAATTGGTTATATGAAAAGATTATAA
*
31624645 GAATTGGTTATATAGAAACAGA-TATAC
1 GAATTGGTTATAT-GAAA-AGATTATAA
*
31624672 GAAATGGTTATATGAA
1 GAATTGGTTATATGAA
31624688 TCAGTTATAT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
26 15 0.41
27 20 0.54
28 2 0.05
ACGTcount: A:0.42, C:0.03, G:0.22, T:0.33
Consensus pattern (26 bp):
GAATTGGTTATATGAAAAGATTATAA
Found at i:31624683 original size:40 final size:40
Alignment explanation
Indices: 31624632--31624716 Score: 107
Period size: 40 Copynumber: 2.1 Consensus size: 40
31624622 TTGGTTATGT
** *
31624632 GAAATGATTATAAGAATTGGTTATATAGAAACAGATATAC
1 GAAATGATTATAAGAATCAGTTATATAGAAACAGATAAAC
* * * *
31624672 GAAATGGTTATATGAATCAGTTATATGGAAACATATAAAC
1 GAAATGATTATAAGAATCAGTTATATAGAAACAGATAAAC
31624712 GAAAT
1 GAAAT
31624717 AACTATATGA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.47, C:0.06, G:0.18, T:0.29
Consensus pattern (40 bp):
GAAATGATTATAAGAATCAGTTATATAGAAACAGATAAAC
Found at i:31624724 original size:40 final size:40
Alignment explanation
Indices: 31624651--31624727 Score: 100
Period size: 40 Copynumber: 1.9 Consensus size: 40
31624641 ATAAGAATTG
* ***
31624651 GTTATATAGAAACAGATATACGAAATGGTTATATGAATCA
1 GTTATATAGAAACAGATAAACGAAATAACTATATGAATCA
* *
31624691 GTTATATGGAAACATATAAACGAAATAACTATATGAA
1 GTTATATAGAAACAGATAAACGAAATAACTATATGAA
31624728 GTGACAATAT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 31 1.00
ACGTcount: A:0.48, C:0.08, G:0.16, T:0.29
Consensus pattern (40 bp):
GTTATATAGAAACAGATAAACGAAATAACTATATGAATCA
Found at i:31624763 original size:12 final size:13
Alignment explanation
Indices: 31624746--31624779 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
31624736 ATGAAAATAA
*
31624746 TTATATGAAGTG-
1 TTATATGAAATGT
31624758 TTATATGAAATGT
1 TTATATGAAATGT
31624771 TTATATGAA
1 TTATATGAA
31624780 TAGATATGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 11 0.55
13 9 0.45
ACGTcount: A:0.38, C:0.00, G:0.18, T:0.44
Consensus pattern (13 bp):
TTATATGAAATGT
Found at i:31626356 original size:46 final size:47
Alignment explanation
Indices: 31626254--31626573 Score: 529
Period size: 46 Copynumber: 6.9 Consensus size: 47
31626244 CCCTATTTGG
31626254 TTTATGCATCAAAATTGGACAGCATATATGTAATAAATTGGGCAGCA
1 TTTATGCATCAAAATTGGACAGCATATATGTAATAAATTGGGCAGCA
* * *
31626301 TTTAAGCATCAAAATTGGACAGCAT-TATGTAACAAATTGGGCAGCT
1 TTTATGCATCAAAATTGGACAGCATATATGTAATAAATTGGGCAGCA
31626347 TTTATGCATCAAAATTGGACAGCATATATGTAATAAATTGGGCAGCA
1 TTTATGCATCAAAATTGGACAGCATATATGTAATAAATTGGGCAGCA
* * *
31626394 TTTAAGCATCAAAATTGGACAGCAT-TATGTAACAAATTGGGCAGCT
1 TTTATGCATCAAAATTGGACAGCATATATGTAATAAATTGGGCAGCA
* *
31626440 TTTATGCATCAAAATTGGACAACATATATGTAATAAATTGGGTAGCA
1 TTTATGCATCAAAATTGGACAGCATATATGTAATAAATTGGGCAGCA
* *
31626487 TTTAAGCATCAAAATTGGACAGCAT-TATGTAACAAATTGGGCAGCA
1 TTTATGCATCAAAATTGGACAGCATATATGTAATAAATTGGGCAGCA
31626533 TTTATGCATCAAAATTGGACAGCATATATGTAATAAATTGG
1 TTTATGCATCAAAATTGGACAGCATATATGTAATAAATTGG
31626574 TTCAACTCAT
Statistics
Matches: 250, Mismatches: 20, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
46 128 0.51
47 122 0.49
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (47 bp):
TTTATGCATCAAAATTGGACAGCATATATGTAATAAATTGGGCAGCA
Found at i:31626367 original size:93 final size:93
Alignment explanation
Indices: 31626254--31626573 Score: 613
Period size: 93 Copynumber: 3.4 Consensus size: 93
31626244 CCCTATTTGG
31626254 TTTATGCATCAAAATTGGACAGCATATATGTAATAAATTGGGCAGCATTTAAGCATCAAAATTGG
1 TTTATGCATCAAAATTGGACAGCATATATGTAATAAATTGGGCAGCATTTAAGCATCAAAATTGG
31626319 ACAGCATTATGTAACAAATTGGGCAGCT
66 ACAGCATTATGTAACAAATTGGGCAGCT
31626347 TTTATGCATCAAAATTGGACAGCATATATGTAATAAATTGGGCAGCATTTAAGCATCAAAATTGG
1 TTTATGCATCAAAATTGGACAGCATATATGTAATAAATTGGGCAGCATTTAAGCATCAAAATTGG
31626412 ACAGCATTATGTAACAAATTGGGCAGCT
66 ACAGCATTATGTAACAAATTGGGCAGCT
* *
31626440 TTTATGCATCAAAATTGGACAACATATATGTAATAAATTGGGTAGCATTTAAGCATCAAAATTGG
1 TTTATGCATCAAAATTGGACAGCATATATGTAATAAATTGGGCAGCATTTAAGCATCAAAATTGG
*
31626505 ACAGCATTATGTAACAAATTGGGCAGCA
66 ACAGCATTATGTAACAAATTGGGCAGCT
31626533 TTTATGCATCAAAATTGGACAGCATATATGTAATAAATTGG
1 TTTATGCATCAAAATTGGACAGCATATATGTAATAAATTGG
31626574 TTCAACTCAT
Statistics
Matches: 223, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
93 223 1.00
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (93 bp):
TTTATGCATCAAAATTGGACAGCATATATGTAATAAATTGGGCAGCATTTAAGCATCAAAATTGG
ACAGCATTATGTAACAAATTGGGCAGCT
Found at i:31626695 original size:13 final size:13
Alignment explanation
Indices: 31626677--31626701 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
31626667 TATTTTAATA
31626677 TTATTTTGTGTGT
1 TTATTTTGTGTGT
31626690 TTATTTTGTGTG
1 TTATTTTGTGTG
31626702 CATTTGATTG
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:0.08, C:0.00, G:0.24, T:0.68
Consensus pattern (13 bp):
TTATTTTGTGTGT
Found at i:31633268 original size:143 final size:142
Alignment explanation
Indices: 31633011--31633299 Score: 456
Period size: 143 Copynumber: 2.0 Consensus size: 142
31633001 CTAATTCAGA
* **
31633011 TTTGTGGTCCCGAAACCACTGTTCCGATTAGAGTAAAAAAATCGCGCTGTTTCTCTTCCCCCCTT
1 TTTGTGGTCCCGAAACCACTATTCCGATTAGAGT-AAAAAATCGCGCTGTAACTCTTCCCCCCTT
31633076 TAGGGATTTTCGTCCCCGAAAATCTTACCGGTGAATAAGTGTGGATAACGTTCTTTCATTGTATC
65 TAGGGATTTTCGTCCCCGAAAATCTTACCGGTGAATAAGTGTGGATAACGTTCTTTCATTGTATC
31633141 CTCC-TTCCCAAG
130 CTCCGTTCCCAAG
* * * *
31633153 TTTGTGGTCCCGAAACCACTATTCTGATTAGGGT-CAAAATCGGGCTGGTACAACTCTTCCCCCC
1 TTTGTGGTCCCGAAACCACTATTCCGATTAGAGTAAAAAATCGCGCT-GT--AACTCTTCCCCCC
31633217 TTTAGGGATTTTCGTCCCCGAAAATCTTACCGGTGAATAAGTGTGGATAACGTTCTTTCATTGTA
63 TTTAGGGATTTTCGTCCCCGAAAATCTTACCGGTGAATAAGTGTGGATAACGTTCTTTCATTGTA
31633282 TCCTCCGGTTCCCAAG
128 TCCTCC-GTTCCCAAG
31633298 TT
1 TT
31633300 GCTTCTTCAA
Statistics
Matches: 135, Mismatches: 7, Indels: 7
0.91 0.05 0.05
Matches are distributed among these distances:
140 10 0.07
141 2 0.01
142 31 0.23
143 82 0.61
145 10 0.07
ACGTcount: A:0.22, C:0.26, G:0.19, T:0.33
Consensus pattern (142 bp):
TTTGTGGTCCCGAAACCACTATTCCGATTAGAGTAAAAAATCGCGCTGTAACTCTTCCCCCCTTT
AGGGATTTTCGTCCCCGAAAATCTTACCGGTGAATAAGTGTGGATAACGTTCTTTCATTGTATCC
TCCGTTCCCAAG
Found at i:31637949 original size:46 final size:47
Alignment explanation
Indices: 31637837--31638157 Score: 506
Period size: 46 Copynumber: 6.9 Consensus size: 47
31637827 ATAAAAGAGT
*
31637837 TTGGGCAGCATTTAAGCATCAAAATTGGACAACATATATGTAACAAA
1 TTGGGCAGCATTTAAGCATCAAAATTGGACAGCATATATGTAACAAA
*
31637884 TTGGGCAGCATTTAAGCATCAAAATTGGATAGCAT-TATGTAACAAA
1 TTGGGCAGCATTTAAGCATCAAAATTGGACAGCATATATGTAACAAA
* * *
31637930 TTGGGCAACTTTTATGCATCAAAATTGGACAGCAT-TATGTAACAAA
1 TTGGGCAGCATTTAAGCATCAAAATTGGACAGCATATATGTAACAAA
* * *
31637976 TTGGGCAGCTTTTATGCATCAAAATTGGACAGCATATATGTAATAAA
1 TTGGGCAGCATTTAAGCATCAAAATTGGACAGCATATATGTAACAAA
31638023 TTGGGCAGCATTTAAGCATCAAAATTGGACAGCAT-TATGTAACAAA
1 TTGGGCAGCATTTAAGCATCAAAATTGGACAGCATATATGTAACAAA
* *
31638069 TTGGGCAGCATTTAAGCATCAAAATTGGACAACATATATGTAATAAA
1 TTGGGCAGCATTTAAGCATCAAAATTGGACAGCATATATGTAACAAA
* *
31638116 TT-GGCAGCTTTTATGCATCAAAATTGGACAGCATATATGTAA
1 TTGGGCAGCATTTAAGCATCAAAATTGGACAGCATATATGTAA
31638158 NNNNNNNNNN
Statistics
Matches: 256, Mismatches: 16, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
46 168 0.66
47 88 0.34
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.29
Consensus pattern (47 bp):
TTGGGCAGCATTTAAGCATCAAAATTGGACAGCATATATGTAACAAA
Found at i:31638024 original size:93 final size:94
Alignment explanation
Indices: 31637837--31638157 Score: 515
Period size: 93 Copynumber: 3.5 Consensus size: 94
31637827 ATAAAAGAGT
*
31637837 TTGGGCAGCATTTAAGCATCAAAATTGGACAACATATATGTAACAAATTGGGCAGCATTTAAGCA
1 TTGGGCAGCATTTAAGCATCAAAATTGGACAGCATATATGTAACAAATTGGGCAGCATTTAAGCA
* *
31637902 TCAAAATTGGATAGCAT-TATGTAACAAA
66 TCAAAATTGGACAGCATATATGTAATAAA
* * * * *
31637930 TTGGGCAACTTTTATGCATCAAAATTGGACAGCAT-TATGTAACAAATTGGGCAGCTTTTATGCA
1 TTGGGCAGCATTTAAGCATCAAAATTGGACAGCATATATGTAACAAATTGGGCAGCATTTAAGCA
31637994 TCAAAATTGGACAGCATATATGTAATAAA
66 TCAAAATTGGACAGCATATATGTAATAAA
31638023 TTGGGCAGCATTTAAGCATCAAAATTGGACAGCAT-TATGTAACAAATTGGGCAGCATTTAAGCA
1 TTGGGCAGCATTTAAGCATCAAAATTGGACAGCATATATGTAACAAATTGGGCAGCATTTAAGCA
*
31638087 TCAAAATTGGACAACATATATGTAATAAA
66 TCAAAATTGGACAGCATATATGTAATAAA
* *
31638116 TT-GGCAGCTTTTATGCATCAAAATTGGACAGCATATATGTAA
1 TTGGGCAGCATTTAAGCATCAAAATTGGACAGCATATATGTAA
31638158 NNNNNNNNNN
Statistics
Matches: 210, Mismatches: 16, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
92 73 0.35
93 137 0.65
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.29
Consensus pattern (94 bp):
TTGGGCAGCATTTAAGCATCAAAATTGGACAGCATATATGTAACAAATTGGGCAGCATTTAAGCA
TCAAAATTGGACAGCATATATGTAATAAA
Found at i:31638046 original size:139 final size:140
Alignment explanation
Indices: 31637837--31638157 Score: 538
Period size: 139 Copynumber: 2.3 Consensus size: 140
31637827 ATAAAAGAGT
* * *
31637837 TTGGGCAGCATTTAAGCATCAAAATTGGACAACATATATGTAACAAATTGGGCAGCATTTAAGCA
1 TTGGGCAGCTTTTATGCATCAAAATTGGACAGCATATATGTAACAAATTGGGCAGCATTTAAGCA
* * * *
31637902 TCAAAATTGGATAGCATTATGTAACAAATTGGGCAACTTTTATGCATCAAAATTGGACAGCAT-T
66 TCAAAATTGGACAGCATTATGTAACAAATTGGGCAACATTTAAGCATCAAAATTGGACAACATAT
31637966 ATGTAACAAA
131 ATGTAACAAA
*
31637976 TTGGGCAGCTTTTATGCATCAAAATTGGACAGCATATATGTAATAAATTGGGCAGCATTTAAGCA
1 TTGGGCAGCTTTTATGCATCAAAATTGGACAGCATATATGTAACAAATTGGGCAGCATTTAAGCA
*
31638041 TCAAAATTGGACAGCATTATGTAACAAATTGGGCAGCATTTAAGCATCAAAATTGGACAACATAT
66 TCAAAATTGGACAGCATTATGTAACAAATTGGGCAACATTTAAGCATCAAAATTGGACAACATAT
*
31638106 ATGTAATAAA
131 ATGTAACAAA
31638116 TT-GGCAGCTTTTATGCATCAAAATTGGACAGCATATATGTAA
1 TTGGGCAGCTTTTATGCATCAAAATTGGACAGCATATATGTAA
31638158 NNNNNNNNNN
Statistics
Matches: 171, Mismatches: 10, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
139 159 0.93
140 12 0.07
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.29
Consensus pattern (140 bp):
TTGGGCAGCTTTTATGCATCAAAATTGGACAGCATATATGTAACAAATTGGGCAGCATTTAAGCA
TCAAAATTGGACAGCATTATGTAACAAATTGGGCAACATTTAAGCATCAAAATTGGACAACATAT
ATGTAACAAA
Found at i:31652472 original size:11 final size:11
Alignment explanation
Indices: 31652456--31652483 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
31652446 GGAGTTGGTA
31652456 TGTTTTAAATG
1 TGTTTTAAATG
31652467 TGTTTTAAATG
1 TGTTTTAAATG
31652478 TGTTTT
1 TGTTTT
31652484 GGTCATGTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.21, C:0.00, G:0.18, T:0.61
Consensus pattern (11 bp):
TGTTTTAAATG
Found at i:31655745 original size:10 final size:10
Alignment explanation
Indices: 31655702--31655746 Score: 63
Period size: 10 Copynumber: 4.5 Consensus size: 10
31655692 GAAAATAAGA
*
31655702 AAATAATGGG
1 AAATAAGGGG
*
31655712 AAACAAGGGG
1 AAATAAGGGG
*
31655722 AAACAAGGGG
1 AAATAAGGGG
31655732 AAATAAGGGG
1 AAATAAGGGG
31655742 AAATA
1 AAATA
31655747 GGATTACCTT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
10 32 1.00
ACGTcount: A:0.53, C:0.04, G:0.33, T:0.09
Consensus pattern (10 bp):
AAATAAGGGG
Found at i:31657640 original size:28 final size:28
Alignment explanation
Indices: 31657602--31657666 Score: 76
Period size: 28 Copynumber: 2.3 Consensus size: 28
31657592 GATGAAAACG
* * *
31657602 TATAGAAATGGATACCTTTGTGGTAATA
1 TATAAAAATGGATACCTTTATGGCAATA
* * *
31657630 TATGAAAATGGATGCCTTTATGGCAATC
1 TATAAAAATGGATACCTTTATGGCAATA
31657658 TATAAAAAT
1 TATAAAAAT
31657667 AGACGCTTTT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.38, C:0.09, G:0.18, T:0.34
Consensus pattern (28 bp):
TATAAAAATGGATACCTTTATGGCAATA
Found at i:31660995 original size:11 final size:12
Alignment explanation
Indices: 31660981--31661013 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
31660971 TTTCTACTCG
31660981 TTTTG-ATTTTT
1 TTTTGAATTTTT
31660992 TTTTGAATTTTT
1 TTTTGAATTTTT
*
31661004 TTTTGCATTT
1 TTTTGAATTT
31661014 ATAAGTTAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 5 0.25
12 15 0.75
ACGTcount: A:0.12, C:0.03, G:0.09, T:0.76
Consensus pattern (12 bp):
TTTTGAATTTTT
Found at i:31662397 original size:26 final size:27
Alignment explanation
Indices: 31662368--31662428 Score: 65
Period size: 26 Copynumber: 2.3 Consensus size: 27
31662358 CAATATAATC
*
31662368 AAAATTACAAT-TAATCTAAT-TAAT-AA
1 AAAATTA-AATATAATCAAATAT-ATCAA
*
31662394 AAAAATAAATATAATCAAATATATCAA
1 AAAATTAAATATAATCAAATATATCAA
31662421 AAAATTAA
1 AAAATTAA
31662429 CATAGTAACT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
25 3 0.10
26 16 0.55
27 10 0.34
ACGTcount: A:0.64, C:0.07, G:0.00, T:0.30
Consensus pattern (27 bp):
AAAATTAAATATAATCAAATATATCAA
Found at i:31664312 original size:67 final size:68
Alignment explanation
Indices: 31664203--31664377 Score: 221
Period size: 67 Copynumber: 2.6 Consensus size: 68
31664193 ATGGGTTGTA
* * * *
31664203 ATGGGGTATGAGGTGTGAGACCATAGTTCGGCTAT-GACAACCAATAGAGTTTACCAGGACACTA
1 ATGGGGTATGAGGTGTAAGACCATAGCTCGACTATGGACAACCAATAGAGTTCACCAGGACACTA
31664267 AAC
66 AAC
* * * *** *
31664270 ATGGGGTTTGAGGTGTAAGACCATAGCTCAACTATGGA-AACCAATTGAGTTCGTTAGGACATTA
1 ATGGGGTATGAGGTGTAAGACCATAGCTCGACTATGGACAACCAATAGAGTTCACCAGGACACTA
31664334 AAC
66 AAC
*
31664337 ATGGGGTATGATGTGTAAGACCATAGCTCGACTATGG-CAAC
1 ATGGGGTATGAGGTGTAAGACCATAGCTCGACTATGGACAAC
31664378 ATAGAGAGTC
Statistics
Matches: 92, Mismatches: 14, Indels: 4
0.84 0.13 0.04
Matches are distributed among these distances:
67 90 0.98
68 2 0.02
ACGTcount: A:0.32, C:0.17, G:0.27, T:0.25
Consensus pattern (68 bp):
ATGGGGTATGAGGTGTAAGACCATAGCTCGACTATGGACAACCAATAGAGTTCACCAGGACACTA
AAC
Found at i:31664440 original size:27 final size:27
Alignment explanation
Indices: 31664410--31664522 Score: 65
Period size: 27 Copynumber: 4.2 Consensus size: 27
31664400 AAATATGAGA
*
31664410 TAGTTC-CTTGGGACAATAAAAACGGGG
1 TAGTTCGC-TGGGACAATAAAAACGAGG
** * * **
31664437 TAG-TCTATTGGGATAATAAACATTAGG
1 TAGTTC-GCTGGGACAATAAAAACGAGG
*
31664464 TAGTTCGCTAGGACAATAAAAAC-AGG
1 TAGTTCGCTGGGACAATAAAAACGAGG
*
31664490 ATAGTCTAC-C-GGGACAATAAAAATGAGG
1 -TAGT-T-CGCTGGGACAATAAAAACGAGG
31664518 TAGTT
1 TAGTT
31664523 TATCAAGACA
Statistics
Matches: 65, Mismatches: 14, Indels: 15
0.69 0.15 0.16
Matches are distributed among these distances:
26 6 0.09
27 51 0.78
28 7 0.11
29 1 0.02
ACGTcount: A:0.38, C:0.12, G:0.25, T:0.25
Consensus pattern (27 bp):
TAGTTCGCTGGGACAATAAAAACGAGG
Found at i:31664478 original size:54 final size:54
Alignment explanation
Indices: 31664420--31664522 Score: 143
Period size: 54 Copynumber: 1.9 Consensus size: 54
31664410 TAGTTCCTTG
* * ** * * *
31664420 GGACAATAAAAACGGGGTAGTCTATTGGGATAATAAACATTAGGTAGTTCGCTA
1 GGACAATAAAAACAGGATAGTCTACCGGGACAATAAAAATGAGGTAGTTCGCTA
31664474 GGACAATAAAAACAGGATAGTCTACCGGGACAATAAAAATGAGGTAGTT
1 GGACAATAAAAACAGGATAGTCTACCGGGACAATAAAAATGAGGTAGTT
31664523 TATCAAGACA
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 42 1.00
ACGTcount: A:0.41, C:0.12, G:0.25, T:0.22
Consensus pattern (54 bp):
GGACAATAAAAACAGGATAGTCTACCGGGACAATAAAAATGAGGTAGTTCGCTA
Found at i:31664533 original size:54 final size:53
Alignment explanation
Indices: 31664421--31664550 Score: 127
Period size: 54 Copynumber: 2.4 Consensus size: 53
31664411 AGTTCCTTGG
* ** * * * * *
31664421 GACAATAAAAACGGGGTAGTCTATTGGGATAATAAACATTAGGTAGTTCGCTAG
1 GACAATAAAAAC-AGGTAGTCTACCGGGACAATAAAAATGAGGTAGTTAGCTAA
*
31664475 GACAATAAAAACAGGATAGTCTACCGGGACAATAAAAATGAGGTAGTTTATC-AA
1 GACAATAAAAACAGG-TAGTCTACCGGGACAATAAAAATGAGGTAG-TTAGCTAA
*
31664529 GACAATAAACACTAGGTAGTCT
1 GACAATAAAAAC-AGGTAGTCT
31664551 GCCAAAATGG
Statistics
Matches: 63, Mismatches: 10, Indels: 6
0.80 0.13 0.08
Matches are distributed among these distances:
53 2 0.03
54 55 0.87
55 6 0.10
ACGTcount: A:0.42, C:0.13, G:0.22, T:0.23
Consensus pattern (53 bp):
GACAATAAAAACAGGTAGTCTACCGGGACAATAAAAATGAGGTAGTTAGCTAA
Found at i:31678231 original size:33 final size:32
Alignment explanation
Indices: 31678194--31678270 Score: 84
Period size: 33 Copynumber: 2.3 Consensus size: 32
31678184 TGGCCTTGCC
* * *
31678194 ATGGTCTTACATCCGTAGTGCCATAA-CCCAGTT
1 ATGGTCTTACATCAG-AATGCCA-AAGCCCAGCT
31678227 ATGGTCTTATCATCAGAATGCCAAAGCCCAGCT
1 ATGGTCTTA-CATCAGAATGCCAAAGCCCAGCT
*
31678260 ATGGTATTACA
1 ATGGTCTTACA
31678271 CATATATATA
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
32 4 0.11
33 29 0.76
34 5 0.13
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.29
Consensus pattern (32 bp):
ATGGTCTTACATCAGAATGCCAAAGCCCAGCT
Found at i:31678381 original size:33 final size:34
Alignment explanation
Indices: 31678331--31678408 Score: 79
Period size: 35 Copynumber: 2.3 Consensus size: 34
31678321 ATAACACAAT
* * *
31678331 TATGGTCTTTTCATTAAA-A-TGCCATAGCCCAGC
1 TATGGTC-TTACATTAAACACTGACATAGCCCAAC
* *
31678364 TATGGTCTTACATTTAAACACTGACATGGTCCAAC
1 TATGGTCTTACA-TTAAACACTGACATAGCCCAAC
31678399 TATGGTCTTA
1 TATGGTCTTA
31678409 TCTGTCAGTT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
32 4 0.11
33 12 0.32
34 1 0.03
35 20 0.54
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.35
Consensus pattern (34 bp):
TATGGTCTTACATTAAACACTGACATAGCCCAAC
Found at i:31685319 original size:26 final size:27
Alignment explanation
Indices: 31685290--31685341 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 27
31685280 AATTTATACC
*
31685290 CCTCAATTTTTA-AAATTATACAATTA
1 CCTCAACTTTTACAAATTATACAATTA
* *
31685316 CCTCAACTTTTACAATTTTTACAATT
1 CCTCAACTTTTACAAATTATACAATT
31685342 TAGTCCCTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 11 0.50
27 11 0.50
ACGTcount: A:0.37, C:0.19, G:0.00, T:0.44
Consensus pattern (27 bp):
CCTCAACTTTTACAAATTATACAATTA
Found at i:31699595 original size:44 final size:44
Alignment explanation
Indices: 31699522--31699954 Score: 528
Period size: 44 Copynumber: 9.9 Consensus size: 44
31699512 ATCACAAAGC
* * * *
31699522 CCTATCTCCCTGACCAGTAGCGGAGTAGGTTGAAGATTGTAAGT
1 CCTATCTCCCTGAACAGCAGCGGAATAGGTGGAAGATTGTAAGT
* * *
31699566 CCTAGCTCCCTGAACAGCAGCGAAATAGGTGAAAGATTGTAAGT
1 CCTATCTCCCTGAACAGCAGCGGAATAGGTGGAAGATTGTAAGT
* * * *
31699610 CCTATCCCCCTGACCAGTAGCGGAGTAGGT-GAAGATTGTAAGT
1 CCTATCTCCCTGAACAGCAGCGGAATAGGTGGAAGATTGTAAGT
* * ** *
31699653 CCTAGCTCCCTGAACAGTAGCAAAATAGGTGGAAGATTATAAGT
1 CCTATCTCCCTGAACAGCAGCGGAATAGGTGGAAGATTGTAAGT
* * * *
31699697 CCTATCCCCCTGACCAGCAGCGGAGTAGGTGGAAGATTGTAAGC
1 CCTATCTCCCTGAACAGCAGCGGAATAGGTGGAAGATTGTAAGT
* * *
31699741 CCTATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGTAAGT
1 CCTATCTCCCTGAACAGCAGCGGAATAGGTGGAAGATTGTAAGT
* * *
31699785 CCTAGCTCCTTGAACAGCAGTGGAATAGGTGGAAGATTGTAAGT
1 CCTATCTCCCTGAACAGCAGCGGAATAGGTGGAAGATTGTAAGT
** * * * * *
31699829 CCTAGATCCTTGAACAGTAGTGGAATAGGTTGAAGATTGTATGT
1 CCTATCTCCCTGAACAGCAGCGGAATAGGTGGAAGATTGTAAGT
*
31699873 CCTATCTCCCT-TACTAGCAGCGGAATAGGTGGAAGATTGTAAGT
1 CCTATCTCCCTGAAC-AGCAGCGGAATAGGTGGAAGATTGTAAGT
*
31699917 CCTATCTCCCTGACCAGCAGCGGAATAGGTGGAAGATT
1 CCTATCTCCCTGAACAGCAGCGGAATAGGTGGAAGATT
31699955 CGAAGTAGAT
Statistics
Matches: 333, Mismatches: 53, Indels: 6
0.85 0.14 0.02
Matches are distributed among these distances:
43 38 0.11
44 294 0.88
45 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (44 bp):
CCTATCTCCCTGAACAGCAGCGGAATAGGTGGAAGATTGTAAGT
Found at i:31715979 original size:22 final size:21
Alignment explanation
Indices: 31715954--31715998 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
31715944 TTTGGTATTC
31715954 TTGTCTCTGT-TTTTTTGAAGTT
1 TTGTCTC-GTCTTTTTT-AAGTT
*
31715976 TTGTTTCGTCTTTTTTAAGTT
1 TTGTCTCGTCTTTTTTAAGTT
31715997 TT
1 TT
31715999 CTTTACATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 9 0.43
22 12 0.57
ACGTcount: A:0.09, C:0.09, G:0.16, T:0.67
Consensus pattern (21 bp):
TTGTCTCGTCTTTTTTAAGTT
Found at i:31721983 original size:58 final size:59
Alignment explanation
Indices: 31721913--31722032 Score: 233
Period size: 58 Copynumber: 2.1 Consensus size: 59
31721903 GACTTGGAAA
31721913 AATCATTAAAAATTGTACAAAAATAATTATGGGTTATAATTTATATG-TTAAAATCCTT
1 AATCATTAAAAATTGTACAAAAATAATTATGGGTTATAATTTATATGTTTAAAATCCTT
31721971 AATCATTAAAAATTGTACAAAAATAATTATGGGTTATAATTTATATGTTTAAAATCCTT
1 AATCATTAAAAATTGTACAAAAATAATTATGGGTTATAATTTATATGTTTAAAATCCTT
31722030 AAT
1 AAT
31722033 GAGTATATTT
Statistics
Matches: 61, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
58 47 0.77
59 14 0.23
ACGTcount: A:0.45, C:0.07, G:0.08, T:0.40
Consensus pattern (59 bp):
AATCATTAAAAATTGTACAAAAATAATTATGGGTTATAATTTATATGTTTAAAATCCTT
Found at i:31729671 original size:78 final size:78
Alignment explanation
Indices: 31729542--31729700 Score: 205
Period size: 78 Copynumber: 2.0 Consensus size: 78
31729532 TTGGAAAAGG
* * * *
31729542 AGGCCTTGAGCCGATGGTTATTTAGCTGGCCTTGAGCCGGTGTTTATTTAGCAGCCCTTGAGCCA
1 AGGCCTTGAGCAGATGGTTATTTAGCAGGCATTGAGCCGGTGTTTATTTAGCAGCCCTTAAGCCA
*
31729607 ATGTTTATTTAGC
66 ATGATTATTTAGC
* *
31729620 AGGCCTTGAGCTAG-TGGTTATTTATG-AGGCATTGAGCCGGTGTTTATTTAGCAGGCTTTAAGC
1 AGGCCTTGAGC-AGATGGTTATTTA-GCAGGCATTGAGCCGGTGTTTATTTAGCAGCCCTTAAGC
* *
31729683 CAGTGATTATTTATC
64 CAATGATTATTTAGC
31729698 AGG
1 AGG
31729701 TACTATGTAC
Statistics
Matches: 70, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
78 68 0.97
79 2 0.03
ACGTcount: A:0.20, C:0.17, G:0.28, T:0.35
Consensus pattern (78 bp):
AGGCCTTGAGCAGATGGTTATTTAGCAGGCATTGAGCCGGTGTTTATTTAGCAGCCCTTAAGCCA
ATGATTATTTAGC
Found at i:31729683 original size:26 final size:26
Alignment explanation
Indices: 31729542--31729700 Score: 169
Period size: 26 Copynumber: 6.1 Consensus size: 26
31729532 TTGGAAAAGG
*
31729542 AGGCCTTGAGCC-GATGGTTATTTAGC
1 AGGCCTTGAGCCAG-TGTTTATTTAGC
* *
31729568 TGGCCTTGAGCCGGTGTTTATTTAGC
1 AGGCCTTGAGCCAGTGTTTATTTAGC
* *
31729594 AGCCCTTGAGCCAATGTTTATTTAGC
1 AGGCCTTGAGCCAGTGTTTATTTAGC
* *
31729620 AGGCCTTGAGCTAGTGGTTATTTATG-
1 AGGCCTTGAGCCAGTGTTTATTTA-GC
* *
31729646 AGGCATTGAGCCGGTGTTTATTTAGC
1 AGGCCTTGAGCCAGTGTTTATTTAGC
* * * *
31729672 AGGCTTTAAGCCAGTGATTATTTATC
1 AGGCCTTGAGCCAGTGTTTATTTAGC
31729698 AGG
1 AGG
31729701 TACTATGTAC
Statistics
Matches: 111, Mismatches: 19, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
25 1 0.01
26 108 0.97
27 2 0.02
ACGTcount: A:0.20, C:0.17, G:0.28, T:0.35
Consensus pattern (26 bp):
AGGCCTTGAGCCAGTGTTTATTTAGC
Found at i:31737899 original size:89 final size:89
Alignment explanation
Indices: 31737796--31738479 Score: 1148
Period size: 89 Copynumber: 7.7 Consensus size: 89
31737786 CCTGTTTTTT
31737796 TTGAGTGCAAAAAAAGCAGGGGGCTTAGTTGTTTTTCTTGAAAAAGTTTGAGGGCCTTTTTGATG
1 TTGAGTGCAAAAAAAGCAGGGGGCTTAGTTGTTTTTCTTGAAAAAGTTTGAGGGCCTTTTTGATG
31737861 CATTTTGAAAGTTTAAGTACCTAA
66 CATTTTGAAAGTTTAAGTACCTAA
31737885 TTGAGTGCAAAAAAAGCAGGGGGCTTAGTTGTTTTTCTTGAAAAAGTTTGAGGGCCTTTTTGATG
1 TTGAGTGCAAAAAAAGCAGGGGGCTTAGTTGTTTTTCTTGAAAAAGTTTGAGGGCCTTTTTGATG
31737950 CATTTTGAAAGTTTAAGTACCTAA
66 CATTTTGAAAGTTTAAGTACCTAA
31737974 TTGAGTGCAAAAAAAGCAGGGGGCTTAGTTGTTTTTCTTGAAAAAGTTTGAGGGCCTTTTTGATG
1 TTGAGTGCAAAAAAAGCAGGGGGCTTAGTTGTTTTTCTTGAAAAAGTTTGAGGGCCTTTTTGATG
31738039 CATTTTGAAAGTTTAAGTACCTAA
66 CATTTTGAAAGTTTAAGTACCTAA
31738063 TTGAGTGCAAAAAAAGCAGGGGGCTTAGTTGTTTTTCTTGAAAAAGTTTGAGGGCCTTTTTGATG
1 TTGAGTGCAAAAAAAGCAGGGGGCTTAGTTGTTTTTCTTGAAAAAGTTTGAGGGCCTTTTTGATG
31738128 CATTTTGAAAGTTTAAGTACCTAA
66 CATTTTGAAAGTTTAAGTACCTAA
31738152 TTGAGTGCAAAAAAAGCAGGGGGCTTAGTTGTTTTTCTTGAAAAAGTTTGAGGGCCTTTTTGATG
1 TTGAGTGCAAAAAAAGCAGGGGGCTTAGTTGTTTTTCTTGAAAAAGTTTGAGGGCCTTTTTGATG
31738217 CATTTTGAAAGTTTAAGTACCTAA
66 CATTTTGAAAGTTTAAGTACCTAA
31738241 TTGAGTGCAAAAAAAGCAGGGGGCTTAGTTGTTTTTCTTGAAAAAGTTTGAGGGCCTTTTTGATG
1 TTGAGTGCAAAAAAAGCAGGGGGCTTAGTTGTTTTTCTTGAAAAAGTTTGAGGGCCTTTTTGATG
31738306 CATTTTGAAAGTTTAAGTACCTAA
66 CATTTTGAAAGTTTAAGTACCTAA
* * * * * * *
31738330 TTGAGTGCAAAAAAAAAGTAGGGGAC-TAATTACTTTTT-TTTAAAAGGTTTGAGGGTCTTTTTG
1 TTGAGTGC--AAAAAAAGCAGGGGGCTTAGTT-GTTTTTCTTGAAAAAGTTTGAGGGCCTTTTTG
* **
31738393 ATGCATTTTAAAAGTTTAAGT-GTTCAA
63 ATGCATTTTGAAAGTTTAAGTACCT-AA
* * *
31738420 TTGAATGCAAAAAAA--AGAGGGGCTTAATTGCTTTTT-TTGAAAAAGTTTAAGGG-CTTTTTG
1 TTGAGTGCAAAAAAAGCAG-GGGGCTTAGTTG-TTTTTCTTGAAAAAGTTTGAGGGCCTTTTTG
31738480 TACCCTCAAG
Statistics
Matches: 572, Mismatches: 16, Indels: 16
0.95 0.03 0.03
Matches are distributed among these distances:
86 2 0.00
87 11 0.02
88 31 0.05
89 454 0.79
90 55 0.10
91 19 0.03
ACGTcount: A:0.30, C:0.09, G:0.24, T:0.36
Consensus pattern (89 bp):
TTGAGTGCAAAAAAAGCAGGGGGCTTAGTTGTTTTTCTTGAAAAAGTTTGAGGGCCTTTTTGATG
CATTTTGAAAGTTTAAGTACCTAA
Found at i:31738681 original size:17 final size:19
Alignment explanation
Indices: 31738648--31738682 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
31738638 ATTATTTGGA
31738648 TATTGTATAACTTTTGTTT
1 TATTGTATAACTTTTGTTT
31738667 TATTGT-TAA-TTTTGTT
1 TATTGTATAACTTTTGTT
31738683 ACTATTTTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 3 0.19
19 6 0.38
ACGTcount: A:0.20, C:0.03, G:0.11, T:0.66
Consensus pattern (19 bp):
TATTGTATAACTTTTGTTT
Found at i:31741032 original size:24 final size:24
Alignment explanation
Indices: 31740982--31741033 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
31740972 TTTCTAGAAG
* **
31740982 ATTTAATATTTATTAATTTAATAT
1 ATTTAAAATTTATTAACATAATAT
* *
31741006 ATTTAAAATTTATTAACATGATTT
1 ATTTAAAATTTATTAACATAATAT
31741030 ATTT
1 ATTT
31741034 GACTTACGAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (24 bp):
ATTTAAAATTTATTAACATAATAT
Found at i:31741995 original size:23 final size:25
Alignment explanation
Indices: 31741944--31742000 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 25
31741934 ATAATCAACT
*
31741944 ATAAATATTAATACTTATATTATTCTAA
1 ATAAA-ATTAATAATTATATTA-T-TAA
31741972 A-AAAATTAATAATTATATTA-TAA
1 ATAAAATTAATAATTATATTATTAA
31741995 ATAAAA
1 ATAAAA
31742001 AAACATACAA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
23 4 0.15
24 4 0.15
26 15 0.56
27 3 0.11
28 1 0.04
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (25 bp):
ATAAAATTAATAATTATATTATTAA
Found at i:31742073 original size:23 final size:21
Alignment explanation
Indices: 31742037--31742122 Score: 75
Period size: 22 Copynumber: 3.9 Consensus size: 21
31742027 AACATATACT
31742037 AATGAATCAATAAATGAGCTTTA
1 AATGAAT--ATAAATGAGCTTTA
*
31742060 AAT-AATTTATTAAATGAGTTTTA
1 AATGAA--TA-TAAATGAGCTTTA
*
31742083 AATGAATATAAATGAGCTTGTT
1 AATGAATATAAATGAGCTT-TA
* *
31742105 TATGAACATAAATGAGCT
1 AATGAATATAAATGAGCT
31742123 GAACAAGCTT
Statistics
Matches: 53, Mismatches: 5, Indels: 11
0.77 0.07 0.16
Matches are distributed among these distances:
21 10 0.19
22 22 0.42
23 18 0.34
24 3 0.06
ACGTcount: A:0.44, C:0.06, G:0.14, T:0.36
Consensus pattern (21 bp):
AATGAATATAAATGAGCTTTA
Found at i:31745102 original size:21 final size:21
Alignment explanation
Indices: 31745056--31745111 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
31745046 ATAAAACTTC
*
31745056 TTTTAAATCGATTGCTCTTAT
1 TTTTAAATCGATTGATCTTAT
31745077 TTTTAAATCGATT-AT-TTAT
1 TTTTAAATCGATTGATCTTAT
*
31745096 GTGTTTAAATTGATTG
1 -T-TTTAAATCGATTG
31745112 TATCCTTGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
19 4 0.13
20 2 0.07
21 24 0.80
ACGTcount: A:0.27, C:0.07, G:0.12, T:0.54
Consensus pattern (21 bp):
TTTTAAATCGATTGATCTTAT
Found at i:31750422 original size:39 final size:38
Alignment explanation
Indices: 31750329--31750506 Score: 220
Period size: 39 Copynumber: 4.7 Consensus size: 38
31750319 AAAAATGGGA
31750329 TACTGATTCTACTGAAAGTATGCTCAATCGAG--A-AC
1 TACTGATTCTACTGAAAGTATGCTCAATCGAGCCATAC
* *
31750364 TACTGATTCTACTGAAAGTATGCTCAATCGGGTCATACC
1 TACTGATTCTACTGAAAGTATGCTCAATCGAGCCATA-C
* *
31750403 TACCGATTCTACGGAAAGTATGCTCAATCGAGCCATAC
1 TACTGATTCTACTGAAAGTATGCTCAATCGAGCCATAC
* *
31750441 TCACTAATTCTACTGAAAGTATGCTTAATCGAGCCATACC
1 T-ACTGATTCTACTGAAAGTATGCTCAATCGAGCCATA-C
* * *
31750481 CAATGATTGTACTGAAAGT-TGCTCAA
1 TACTGATTCTACTGAAAGTATGCTCAA
31750507 ACGAACATTA
Statistics
Matches: 123, Mismatches: 14, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
35 31 0.25
37 1 0.01
38 9 0.07
39 81 0.66
40 1 0.01
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (38 bp):
TACTGATTCTACTGAAAGTATGCTCAATCGAGCCATAC
Found at i:31752366 original size:46 final size:46
Alignment explanation
Indices: 31752262--31752367 Score: 119
Period size: 46 Copynumber: 2.3 Consensus size: 46
31752252 GTGTAACATG
* * *
31752262 CATAAAGCACTTAATACAACACACACAAGGCGTTAAGTATAATACA
1 CATAAAGCGCTAAATACAACACACACAAGGCGTTAAGTATAACACA
* *
31752308 CATATAA-TGCTAAATGA-AACACGCACAAGGCGTTGAA-TATAACACA
1 CATA-AAGCGCTAAAT-ACAACACACACAAGGCGTT-AAGTATAACACA
31752354 CATAAAGCGCTAAA
1 CATAAAGCGCTAAA
31752368 AATCTCACCT
Statistics
Matches: 50, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
45 2 0.04
46 43 0.86
47 5 0.10
ACGTcount: A:0.47, C:0.21, G:0.13, T:0.19
Consensus pattern (46 bp):
CATAAAGCGCTAAATACAACACACACAAGGCGTTAAGTATAACACA
Found at i:31754839 original size:33 final size:33
Alignment explanation
Indices: 31754802--31754867 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
31754792 GCTACCTCGT
* *
31754802 CGTGATGTTGGGATATCGACTCTTTCTTATCCC
1 CGTGACGTCGGGATATCGACTCTTTCTTATCCC
*
31754835 CGTGACGTCGGGATATCGACTCTTTGTTATCCC
1 CGTGACGTCGGGATATCGACTCTTTCTTATCCC
31754868 GACGTCAATC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.15, C:0.26, G:0.23, T:0.36
Consensus pattern (33 bp):
CGTGACGTCGGGATATCGACTCTTTCTTATCCC
Found at i:31764751 original size:17 final size:19
Alignment explanation
Indices: 31764731--31764771 Score: 59
Period size: 17 Copynumber: 2.3 Consensus size: 19
31764721 TAACTAAAAT
31764731 ACAAAATAA-AATAAG-AC
1 ACAAAATAATAATAAGAAC
*
31764748 ACAAAATAATAATATGAAC
1 ACAAAATAATAATAAGAAC
31764767 ACAAA
1 ACAAA
31764772 TACACGAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 9 0.43
18 5 0.24
19 7 0.33
ACGTcount: A:0.68, C:0.12, G:0.05, T:0.15
Consensus pattern (19 bp):
ACAAAATAATAATAAGAAC
Found at i:31774552 original size:6 final size:6
Alignment explanation
Indices: 31774518--31774545 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
31774508 TTTGTTTTGC
31774518 TTTTAT TTTTAT TTTTAT TTTTAT TTTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTT
31774546 TCTTTTTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTTAT
Found at i:31788630 original size:21 final size:21
Alignment explanation
Indices: 31788584--31788729 Score: 188
Period size: 21 Copynumber: 7.0 Consensus size: 21
31788574 GTACATCGTG
*
31788584 AACAGGAGCTCG-AA-AGCTA
1 AACAGAAGCTCGTAAGAGCTA
* *
31788603 AATAGAAGCTCGTAAGAGCTT
1 AACAGAAGCTCGTAAGAGCTA
* * *
31788624 AACAGAAACTCATAAGAGCTT
1 AACAGAAGCTCGTAAGAGCTA
*
31788645 AACAGAAGCTTGTAAGAGCTA
1 AACAGAAGCTCGTAAGAGCTA
31788666 AACAGAAGCTCGTAAGAGCTA
1 AACAGAAGCTCGTAAGAGCTA
*
31788687 AACAGAAGCTCGAAAGAGCTA
1 AACAGAAGCTCGTAAGAGCTA
* *
31788708 AACAGAAGCTCATAAAAGCTA
1 AACAGAAGCTCGTAAGAGCTA
31788729 A
1 A
31788730 GAAAAAAGTA
Statistics
Matches: 110, Mismatches: 15, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
19 10 0.09
20 2 0.02
21 98 0.89
ACGTcount: A:0.45, C:0.18, G:0.21, T:0.16
Consensus pattern (21 bp):
AACAGAAGCTCGTAAGAGCTA
Found at i:31788899 original size:21 final size:21
Alignment explanation
Indices: 31788875--31789030 Score: 118
Period size: 21 Copynumber: 7.4 Consensus size: 21
31788865 AAAGCTAAAT
*
31788875 AGAAGCTTGTAAGAGCTTAAC
1 AGAAGCTCGTAAGAGCTTAAC
* * *
31788896 AGAAACTCATAAGAG-TTGAAT
1 AGAAGCTCGTAAGAGCTT-AAC
* ** *
31788917 AGAAGCTTGTAAGAGCAGAAT
1 AGAAGCTCGTAAGAGCTTAAC
* *
31788938 AGAAACTCATAAGAG-TTGAAC
1 AGAAGCTCGTAAGAGCTT-AAC
* * * *
31788959 AGAAACTCATAAGAGTTTAAT
1 AGAAGCTCGTAAGAGCTTAAC
*
31788980 AGAAGCTCGTAAGAGCTAAAC
1 AGAAGCTCGTAAGAGCTTAAC
* * *
31789001 AGAAGCCCGAAAGAGCTAAAC
1 AGAAGCTCGTAAGAGCTTAAC
31789022 AGAAGCTCG
1 AGAAGCTCG
31789031 AAAAAGCTAA
Statistics
Matches: 107, Mismatches: 24, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
20 2 0.02
21 103 0.96
22 2 0.02
ACGTcount: A:0.44, C:0.15, G:0.22, T:0.19
Consensus pattern (21 bp):
AGAAGCTCGTAAGAGCTTAAC
Found at i:31788919 original size:42 final size:42
Alignment explanation
Indices: 31788872--31788994 Score: 156
Period size: 42 Copynumber: 2.9 Consensus size: 42
31788862 TCGAAAGCTA
*
31788872 AATAGAAGCTTGTAAGAGCTTAACAGAAACTCATAAGAGTTG
1 AATAGAAGCTTGTAAGAGCTTAATAGAAACTCATAAGAGTTG
**
31788914 AATAGAAGCTTGTAAGAGCAGAATAGAAACTCATAAGAGTTG
1 AATAGAAGCTTGTAAGAGCTTAATAGAAACTCATAAGAGTTG
* * ** * * *
31788956 AACAGAAACTCATAAGAGTTTAATAGAAGCTCGTAAGAG
1 AATAGAAGCTTGTAAGAGCTTAATAGAAACTCATAAGAG
31788995 CTAAACAGAA
Statistics
Matches: 69, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 69 1.00
ACGTcount: A:0.45, C:0.11, G:0.22, T:0.22
Consensus pattern (42 bp):
AATAGAAGCTTGTAAGAGCTTAATAGAAACTCATAAGAGTTG
Found at i:31789015 original size:63 final size:62
Alignment explanation
Indices: 31788867--31789025 Score: 187
Period size: 63 Copynumber: 2.5 Consensus size: 62
31788857 CAAACTCGAA
* * *
31788867 AGCTAAATAGAAGCTTGTAAGAGCTTAACAGAAACTCATAAGAGTTGAATAGAAGCTTGTAAG
1 AGCTAAATAGAAGCTCGAAAGAG-TTAACAGAAACTCATAAGAGTTGAATAGAAGCTCGTAAG
* *
31788930 AGC-AGAATAGAAACTC-ATAAGAGTTGAACAGAAACTCATAAGAGTTTAATAGAAGCTCGTAAG
1 AGCTA-AATAGAAGCTCGA-AAGAGTT-AACAGAAACTCATAAGAGTTGAATAGAAGCTCGTAAG
* * *
31788993 AGCTAAACAGAAGCCCGAAAGAGCTAAACAGAA
1 AGCTAAATAGAAGCTCGAAAGAG-TTAACAGAA
31789026 GCTCGAAAAA
Statistics
Matches: 81, Mismatches: 9, Indels: 12
0.79 0.09 0.12
Matches are distributed among these distances:
62 3 0.04
63 75 0.93
64 3 0.04
ACGTcount: A:0.46, C:0.14, G:0.21, T:0.19
Consensus pattern (62 bp):
AGCTAAATAGAAGCTCGAAAGAGTTAACAGAAACTCATAAGAGTTGAATAGAAGCTCGTAAG
Found at i:31789032 original size:21 final size:21
Alignment explanation
Indices: 31788867--31789043 Score: 101
Period size: 21 Copynumber: 8.4 Consensus size: 21
31788857 CAAACTCGAA
* * *
31788867 AGCTAAATAGAAGCTTGTAAG
1 AGCTAAACAGAAGCTCGAAAG
* *
31788888 AGCTTAACAGAAACTC-ATAAG
1 AGCTAAACAGAAGCTCGA-AAG
* * * * *
31788909 AGTTGAATAGAAGCTTGTAAG
1 AGCTAAACAGAAGCTCGAAAG
* *
31788930 AGC-AGAATAGAAACTC-ATAAG
1 AGCTA-AACAGAAGCTCGA-AAG
* * *
31788951 AGTTGAACAGAAACTC-ATAAG
1 AGCTAAACAGAAGCTCGA-AAG
* * * *
31788972 AGTTTAATAGAAGCTCGTAAG
1 AGCTAAACAGAAGCTCGAAAG
*
31788993 AGCTAAACAGAAGCCCGAAAG
1 AGCTAAACAGAAGCTCGAAAG
*
31789014 AGCTAAACAGAAGCTCGAAAA
1 AGCTAAACAGAAGCTCGAAAG
31789035 AGCTAAACA
1 AGCTAAACA
31789044 AAAAGTAAAA
Statistics
Matches: 120, Mismatches: 30, Indels: 12
0.74 0.19 0.07
Matches are distributed among these distances:
21 120 1.00
ACGTcount: A:0.46, C:0.15, G:0.21, T:0.18
Consensus pattern (21 bp):
AGCTAAACAGAAGCTCGAAAG
Found at i:31789049 original size:311 final size:311
Alignment explanation
Indices: 31788603--31789172 Score: 912
Period size: 311 Copynumber: 1.8 Consensus size: 311
31788593 TCGAAAGCTA
** * **
31788603 AATAGAAGCTCGTAAGAGCTTAACAGAAACTCATAAGAGCTTAACAGAAGCTTGTAAGAGCTAAA
1 AATAGAAGCTCGTAAGAGCAGAACAGAAACTCATAAGAGCTTAACAGAAACTCATAAGAGCTAAA
*
31788668 CAGAAGCTCGTAAGAGCTAAACAGAAGCTCGAAAGAGCTAAACAGAAGCTCATAAAAGCTAAGAA
66 CAGAAGCTCGTAAGAGCTAAACAGAAGCCCGAAAGAGCTAAACAGAAGCTCATAAAAGCTAAGAA
* * *
31788733 AAAAGTAAAACACGAGAGTTCGTAACAAATGTTGAACTCTGGTTTACTTTGGTAATTTTTTGATA
131 AAAAGTAAAACACGAGAGTTCGTAACAAATGTTGAACCCCGGTTTACTTCGGTAATTTTTTGATA
* *
31788798 TCATCCTCCAATACCGTCATACGCCAAATCACGAATGTACTCAAATTTCGCGTTACATTCAAACT
196 TCATCCTCCAATACCGTCATACGCCAAATCACGAATGTACTCAAATCTCGCATTACATTCAAACT
31788863 CGAAAGCTAAATAGAAGCTTGTAAGAGCTTAACAGAAACTCATAAGAGTTG
261 CGAAAGCTAAATAGAAGCTTGTAAGAGCTTAACAGAAACTCATAAGAGTTG
* * * *
31788914 AATAGAAGCTTGTAAGAGCAGAATAGAAACTCATAAGAG-TTGAACAGAAACTCATAAGAGTTTA
1 AATAGAAGCTCGTAAGAGCAGAACAGAAACTCATAAGAGCTT-AACAGAAACTCATAAGAGCTAA
*
31788978 ATAGAAGCTCGTAAGAGCTAAACAGAAGCCCGAAAGAGCTAAACAGAAGCTCGA-AAAAGCTAA-
65 ACAGAAGCTCGTAAGAGCTAAACAGAAGCCCGAAAGAGCTAAACAGAAGCTC-ATAAAAGCTAAG
31789041 ACAAAAAGTAAAACACGAGAGTTCGTAACAAATGTTGAACCCCGGTTTACTTCGGTAATTTTTTG
129 A-AAAAAGTAAAACACGAGAGTTCGTAACAAATGTTGAACCCCGGTTTACTTCGGTAATTTTTTG
* * * *
31789106 ATATCTTTCTCCAATACTGTCATACGCCAAATCACGAATGTACTCAAATCTCGCATTCCATTCAA
193 ATATCATCCTCCAATACCGTCATACGCCAAATCACGAATGTACTCAAATCTCGCATTACATTCAA
31789171 AC
258 AC
31789173 CAAATATCCA
Statistics
Matches: 236, Mismatches: 20, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
310 3 0.01
311 232 0.98
312 1 0.00
ACGTcount: A:0.41, C:0.19, G:0.18, T:0.23
Consensus pattern (311 bp):
AATAGAAGCTCGTAAGAGCAGAACAGAAACTCATAAGAGCTTAACAGAAACTCATAAGAGCTAAA
CAGAAGCTCGTAAGAGCTAAACAGAAGCCCGAAAGAGCTAAACAGAAGCTCATAAAAGCTAAGAA
AAAAGTAAAACACGAGAGTTCGTAACAAATGTTGAACCCCGGTTTACTTCGGTAATTTTTTGATA
TCATCCTCCAATACCGTCATACGCCAAATCACGAATGTACTCAAATCTCGCATTACATTCAAACT
CGAAAGCTAAATAGAAGCTTGTAAGAGCTTAACAGAAACTCATAAGAGTTG
Found at i:31790106 original size:44 final size:44
Alignment explanation
Indices: 31790043--31790218 Score: 352
Period size: 44 Copynumber: 4.0 Consensus size: 44
31790033 GCACATATTG
31790043 GTACATCTAAGTACATGATAAAATTATCAACTAAATAGGTTAGT
1 GTACATCTAAGTACATGATAAAATTATCAACTAAATAGGTTAGT
31790087 GTACATCTAAGTACATGATAAAATTATCAACTAAATAGGTTAGT
1 GTACATCTAAGTACATGATAAAATTATCAACTAAATAGGTTAGT
31790131 GTACATCTAAGTACATGATAAAATTATCAACTAAATAGGTTAGT
1 GTACATCTAAGTACATGATAAAATTATCAACTAAATAGGTTAGT
31790175 GTACATCTAAGTACATGATAAAATTATCAACTAAATAGGTTAGT
1 GTACATCTAAGTACATGATAAAATTATCAACTAAATAGGTTAGT
31790219 CACATTTACA
Statistics
Matches: 132, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 132 1.00
ACGTcount: A:0.43, C:0.11, G:0.14, T:0.32
Consensus pattern (44 bp):
GTACATCTAAGTACATGATAAAATTATCAACTAAATAGGTTAGT
Found at i:31790486 original size:30 final size:30
Alignment explanation
Indices: 31790396--31790488 Score: 132
Period size: 30 Copynumber: 3.1 Consensus size: 30
31790386 GAATAAGTTG
* * *
31790396 CTCACACAAGCTGACAGTATATCAAGGTTG
1 CTCACACAAGCTGACATTATATCGAGGTTA
* * *
31790426 CTCACACAAGCTAACATTATAACGAAGTTA
1 CTCACACAAGCTGACATTATATCGAGGTTA
31790456 CTCACACAAGCTGACATTATATCGAGGTTA
1 CTCACACAAGCTGACATTATATCGAGGTTA
31790486 CTC
1 CTC
31790489 GTCCAGGATG
Statistics
Matches: 54, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 54 1.00
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (30 bp):
CTCACACAAGCTGACATTATATCGAGGTTA
Found at i:31792650 original size:14 final size:15
Alignment explanation
Indices: 31792631--31792668 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
31792621 GTTTGGCAAT
31792631 AAAATG-TTTTTCGA
1 AAAATGATTTTTCGA
*
31792645 AAAATGATTTTT-GG
1 AAAATGATTTTTCGA
31792659 AAAATGATTT
1 AAAATGATTT
31792669 ACTGAAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 17 0.77
15 5 0.23
ACGTcount: A:0.39, C:0.03, G:0.16, T:0.42
Consensus pattern (15 bp):
AAAATGATTTTTCGA
Found at i:31798653 original size:13 final size:13
Alignment explanation
Indices: 31798635--31798660 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
31798625 TCATTATTCA
31798635 TATATCTCTCACT
1 TATATCTCTCACT
31798648 TATATCTCTCACT
1 TATATCTCTCACT
31798661 CCTAACCTGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.31, G:0.00, T:0.46
Consensus pattern (13 bp):
TATATCTCTCACT
Found at i:31798971 original size:15 final size:15
Alignment explanation
Indices: 31798947--31798976 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
31798937 AAATGTTTTC
31798947 TGGAACCTTCAACAA
1 TGGAACCTTCAACAA
*
31798962 TGGAAGCTTCAACAA
1 TGGAACCTTCAACAA
31798977 ACAATTTGGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.23, G:0.17, T:0.20
Consensus pattern (15 bp):
TGGAACCTTCAACAA
Found at i:31803204 original size:18 final size:18
Alignment explanation
Indices: 31803181--31803217 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
31803171 TGAAGTAGTA
31803181 TTGATACTCATATTAGGT
1 TTGATACTCATATTAGGT
31803199 TTGATACTCATATTAGGT
1 TTGATACTCATATTAGGT
31803217 T
1 T
31803218 AACTTTGTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.27, C:0.11, G:0.16, T:0.46
Consensus pattern (18 bp):
TTGATACTCATATTAGGT
Found at i:31806250 original size:19 final size:19
Alignment explanation
Indices: 31806226--31806264 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
31806216 GGGTAAGTAT
31806226 TTGATTGAATTGAGTCAAA
1 TTGATTGAATTGAGTCAAA
31806245 TTGATTGAATTGAGTCAAA
1 TTGATTGAATTGAGTCAAA
31806264 T
1 T
31806265 CGAGTGAAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.36, C:0.05, G:0.21, T:0.38
Consensus pattern (19 bp):
TTGATTGAATTGAGTCAAA
Found at i:31806272 original size:19 final size:19
Alignment explanation
Indices: 31806231--31806272 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
31806221 AGTATTTGAT
* *
31806231 TGAATTGAGTCAAATTGAT
1 TGAATTGAGTCAAATCGAG
31806250 TGAATTGAGTCAAATCGAG
1 TGAATTGAGTCAAATCGAG
31806269 TGAA
1 TGAA
31806273 AGAATTTCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.38, C:0.07, G:0.24, T:0.31
Consensus pattern (19 bp):
TGAATTGAGTCAAATCGAG
Found at i:31808666 original size:21 final size:21
Alignment explanation
Indices: 31808640--31808715 Score: 120
Period size: 21 Copynumber: 3.7 Consensus size: 21
31808630 AATGATATCT
31808640 TTTAAGATTGCATATATCATA
1 TTTAAGATTGCATATATCATA
*
31808661 TTTAAGATTACATATATCATA
1 TTTAAGATTGCATATATCATA
31808682 TTTAAGATTGC--ATATCATA
1 TTTAAGATTGCATATATCATA
*
31808701 TCTAAGATTGCATAT
1 TTTAAGATTGCATAT
31808716 TCTTGAAGGT
Statistics
Matches: 50, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
19 18 0.36
21 32 0.64
ACGTcount: A:0.38, C:0.11, G:0.09, T:0.42
Consensus pattern (21 bp):
TTTAAGATTGCATATATCATA
Found at i:31810467 original size:18 final size:18
Alignment explanation
Indices: 31810444--31810478 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
31810434 AAAAAGTCTA
*
31810444 AATTTGGGAAATGTTTAG
1 AATTTGGGAAATATTTAG
31810462 AATTTGGGAAATATTTA
1 AATTTGGGAAATATTTA
31810479 ACTTTTAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.37, C:0.00, G:0.23, T:0.40
Consensus pattern (18 bp):
AATTTGGGAAATATTTAG
Found at i:31818732 original size:21 final size:22
Alignment explanation
Indices: 31818698--31818738 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
31818688 TTTTGCTCCT
31818698 TTTTTCAGAAATATTTTTTTTA
1 TTTTTCAGAAATATTTTTTTTA
*
31818720 TTTTTCA-AGATATTTTTTT
1 TTTTTCAGAAATATTTTTTT
31818739 AGTTGTAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.24, C:0.05, G:0.05, T:0.66
Consensus pattern (22 bp):
TTTTTCAGAAATATTTTTTTTA
Found at i:31821263 original size:50 final size:50
Alignment explanation
Indices: 31821198--31821383 Score: 193
Period size: 50 Copynumber: 3.7 Consensus size: 50
31821188 AAAGTGAAAG
*
31821198 TGATGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAA-
1 TGATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAAC
*** *
31821247 TGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTATACGTACCGGATAAC
1 TGAT-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACC--AGAAC
* ** * * * *
31821300 T-TTAATCACGTGTGTAGTACTATGTGCAGG---CTACGTGTATCGGATAG
1 TGATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGA-AC
31821347 TGATGGTCACATGTGTAGTACTATGTGCAGGCTACTA
1 TGATGGTCACATGTGTAGTACTATGTGCAGGCTACTA
31821384 TGTGAACCGG
Statistics
Matches: 108, Mismatches: 20, Indels: 16
0.75 0.14 0.11
Matches are distributed among these distances:
46 1 0.01
47 2 0.02
48 32 0.30
49 4 0.04
50 37 0.34
51 27 0.25
52 4 0.04
53 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (50 bp):
TGATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAAC
Found at i:31821335 original size:25 final size:25
Alignment explanation
Indices: 31821307--31821381 Score: 68
Period size: 25 Copynumber: 3.1 Consensus size: 25
31821297 AACTTTAATC
31821307 ACGTGTGTAGTACTATGTGCAGGCT
1 ACGTGTGTAGTACTATGTGCAGGCT
* * *
31821332 ACGTGTATCGGA-TA-GTG-ATGG-T
1 ACGTGTGTAGTACTATGTGCA-GGCT
*
31821354 CACATGTGTAGTACTATGTGCAGGCT
1 -ACGTGTGTAGTACTATGTGCAGGCT
31821380 AC
1 AC
31821382 TATGTGAACC
Statistics
Matches: 37, Mismatches: 7, Indels: 12
0.66 0.12 0.21
Matches are distributed among these distances:
22 2 0.05
23 13 0.35
24 4 0.11
25 16 0.43
26 2 0.05
ACGTcount: A:0.23, C:0.16, G:0.31, T:0.31
Consensus pattern (25 bp):
ACGTGTGTAGTACTATGTGCAGGCT
Found at i:31821365 original size:48 final size:48
Alignment explanation
Indices: 31821196--31821381 Score: 198
Period size: 48 Copynumber: 3.8 Consensus size: 48
31821186 TGAAAGTGAA
* *
31821196 AGTGATGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGA-
1 AGTGATGGTCACATGTGTAGTACTATGTGCAGG---CTACGTGTACCGGAT
*
31821246 A-TGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTATACGTACCGGAT
1 AGTGAT-GGTCACATGTGTAGTACTATGTGCAGGCTAC-GT--GTACCGGAT
* * ** * *
31821297 AACT-TTAATCACGTGTGTAGTACTATGTGCAGGCTACGTGTATCGGAT
1 -AGTGATGGTCACATGTGTAGTACTATGTGCAGGCTACGTGTACCGGAT
31821345 AGTGATGGTCACATGTGTAGTACTATGTGCAGGCTAC
1 AGTGATGGTCACATGTGTAGTACTATGTGCAGGCTAC
31821382 TATGTGAACC
Statistics
Matches: 114, Mismatches: 14, Indels: 18
0.78 0.10 0.12
Matches are distributed among these distances:
47 6 0.05
48 38 0.33
49 4 0.04
50 35 0.31
51 28 0.25
52 2 0.02
53 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.30
Consensus pattern (48 bp):
AGTGATGGTCACATGTGTAGTACTATGTGCAGGCTACGTGTACCGGAT
Found at i:31821384 original size:99 final size:99
Alignment explanation
Indices: 31821204--31821384 Score: 294
Period size: 99 Copynumber: 1.8 Consensus size: 99
31821194 AAAGTGATGG
31821204 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAATGATAGGTCACATGTGTAGTAC
1 TCACGTGTGTAGTACTATGTGCAGG--ACTACGTGTACCAGAATGATAGGTCACATGTGTAGTAC
31821269 TATGTGCAGGCTACTATACGTACCGGATAACTTTAA
64 TATGTGCAGGCTACTATACGTACCGGATAACTTTAA
* *
31821305 TCACGTGTGTAGTACTATGTGCAGG-CTACGTGTATCGGATAGTGAT-GGTCACATGTGTAGTAC
1 TCACGTGTGTAGTACTATGTGCAGGACTACGTGTACCAGA-A-TGATAGGTCACATGTGTAGTAC
31821368 TATGTGCAGGCTACTAT
64 TATGTGCAGGCTACTAT
31821385 GTGAACCGGT
Statistics
Matches: 76, Mismatches: 2, Indels: 6
0.90 0.02 0.07
Matches are distributed among these distances:
98 12 0.16
99 35 0.46
100 4 0.05
101 25 0.33
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (99 bp):
TCACGTGTGTAGTACTATGTGCAGGACTACGTGTACCAGAATGATAGGTCACATGTGTAGTACTA
TGTGCAGGCTACTATACGTACCGGATAACTTTAA
Found at i:31821624 original size:16 final size:16
Alignment explanation
Indices: 31821603--31821634 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
31821593 TGATTGAAAG
*
31821603 TGAAAAAGTGAAATTA
1 TGAAAAAGTAAAATTA
31821619 TGAAAAAGTAAAATTA
1 TGAAAAAGTAAAATTA
31821635 ACAACAAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.16, T:0.25
Consensus pattern (16 bp):
TGAAAAAGTAAAATTA
Found at i:31827816 original size:17 final size:17
Alignment explanation
Indices: 31827781--31827813 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
31827771 TTAGGATAAG
*
31827781 TATTAAATTTAATTTAA
1 TATTAAATTTAATTAAA
31827798 TATTAAATTT-ATTAAA
1 TATTAAATTTAATTAAA
31827814 ATAATATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
TATTAAATTTAATTAAA
Found at i:31830172 original size:87 final size:86
Alignment explanation
Indices: 31830016--31830179 Score: 213
Period size: 87 Copynumber: 1.9 Consensus size: 86
31830006 TACATGCATA
* * *** * * * *
31830016 AGGTTGAATTCTTACTTTTTATGAATTCATATCTCAGGGTTTGGGTGTTCTTATTGAGACGGGCT
1 AGGTTGAATTCTTACTTTTAATGAATTCATATCCCAAAATTTGGGTGGTCTTATTGAGACAGACA
31830081 TGATGAATTCACTGACATGTG
66 TGATGAATTCACTGACATGTG
*
31830102 AGGTTGAATTTCTTA-TTCTTAATGAGTTCATATCCCAAAATTTGGGTGGTCTTATTGAGACAGA
1 AGGTTGAA-TTCTTACTT-TTAATGAATTCATATCCCAAAATTTGGGTGGTCTTATTGAGACAGA
31830166 CATGATGAATTCAC
64 CATGATGAATTCAC
31830180 CGAATTAAAA
Statistics
Matches: 66, Mismatches: 10, Indels: 3
0.84 0.13 0.04
Matches are distributed among these distances:
86 10 0.15
87 56 0.85
ACGTcount: A:0.26, C:0.13, G:0.22, T:0.39
Consensus pattern (86 bp):
AGGTTGAATTCTTACTTTTAATGAATTCATATCCCAAAATTTGGGTGGTCTTATTGAGACAGACA
TGATGAATTCACTGACATGTG
Found at i:31832564 original size:14 final size:13
Alignment explanation
Indices: 31832552--31832599 Score: 55
Period size: 13 Copynumber: 3.7 Consensus size: 13
31832542 ACTTAATATT
31832552 TAAGTAAATATATA
1 TAAGTAAATATA-A
*
31832566 TAA-TATA-ATAA
1 TAAGTAAATATAA
31832577 TAAAGTAAATATAA
1 T-AAGTAAATATAA
31832591 TAAGTAAAT
1 TAAGTAAAT
31832600 GAAATAAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
11 2 0.07
12 5 0.17
13 14 0.48
14 8 0.28
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.33
Consensus pattern (13 bp):
TAAGTAAATATAA
Found at i:31832587 original size:17 final size:18
Alignment explanation
Indices: 31832567--31832610 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
31832557 AAATATATAT
31832567 AATATAATAA-TAAA-GTA
1 AATATAATAAGTAAATG-A
31832584 AATATAATAAGTAAATGA
1 AATATAATAAGTAAATGA
31832602 AATA-AATAA
1 AATATAATAA
31832611 AGAAAAGAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
17 15 0.60
18 9 0.36
19 1 0.04
ACGTcount: A:0.66, C:0.00, G:0.07, T:0.27
Consensus pattern (18 bp):
AATATAATAAGTAAATGA
Found at i:31832607 original size:22 final size:21
Alignment explanation
Indices: 31832556--31832609 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 21
31832546 AATATTTAAG
*
31832556 TAAATATATATAATATAATAA
1 TAAATAAATATAATATAATAA
*
31832577 TAAAGTAAATATAATA-AGTAAA
1 TAAA-TAAATATAATATAAT-AA
31832599 TGAAATAAATA
1 T-AAATAAATA
31832610 AAGAAAAGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
21 6 0.21
22 19 0.68
23 3 0.11
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (21 bp):
TAAATAAATATAATATAATAA
Found at i:31849695 original size:115 final size:115
Alignment explanation
Indices: 31849492--31849713 Score: 390
Period size: 115 Copynumber: 1.9 Consensus size: 115
31849482 GGCAATAAGG
31849492 TCGGTCAGTTACTGGCCAAAGGTTTCAAGTCGGGCCTCAATGCGCTCTAAGCGTTGCTCAACGAT
1 TCGGTCAGTTACTGGCCAAAGGTTTCAAGTCGGGCCTCAATGCGCTCTAAGCGTTGCTCAACGAT
*
31849557 TTTCTTCGCATTTTCGCTCTGTTTTATCTAGGCAAAAAAAGACAATGAGC
66 TTTCTTCGCATTTTCGCTCTGTTTTATCTAAGCAAAAAAAGACAATGAGC
* * *
31849607 TCGGTCAGTTGCTGGCCAAAGGTTTCAAGTCGGGCCTCAATGCGCTCTAAGTGTTGCTCAACGGT
1 TCGGTCAGTTACTGGCCAAAGGTTTCAAGTCGGGCCTCAATGCGCTCTAAGCGTTGCTCAACGAT
* *
31849672 TTTCTTCGCATTTTCGCTTTGTTTTATCTAAGCAAAAGAAGA
66 TTTCTTCGCATTTTCGCTCTGTTTTATCTAAGCAAAAAAAGA
31849714 GAAATTTTTT
Statistics
Matches: 101, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
115 101 1.00
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.32
Consensus pattern (115 bp):
TCGGTCAGTTACTGGCCAAAGGTTTCAAGTCGGGCCTCAATGCGCTCTAAGCGTTGCTCAACGAT
TTTCTTCGCATTTTCGCTCTGTTTTATCTAAGCAAAAAAAGACAATGAGC
Found at i:31854753 original size:19 final size:19
Alignment explanation
Indices: 31854690--31854759 Score: 61
Period size: 19 Copynumber: 3.5 Consensus size: 19
31854680 ATTTTTATTT
*
31854690 TTATTTTTTAATTTTAAAA
1 TTATTTTTTACTTTTAAAA
***
31854709 -TATTTTTAAAATACTTTTATTT
1 TTATTTTT----TACTTTTAAAA
31854731 TTATTTTTTACTTTTAAAA
1 TTATTTTTTACTTTTAAAA
31854750 TTATTTTTTA
1 TTATTTTTTA
31854760 GTGTTTATTA
Statistics
Matches: 39, Mismatches: 7, Indels: 10
0.70 0.12 0.18
Matches are distributed among these distances:
18 7 0.18
19 18 0.46
22 7 0.18
23 7 0.18
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (19 bp):
TTATTTTTTACTTTTAAAA
Found at i:31856116 original size:19 final size:19
Alignment explanation
Indices: 31856053--31856122 Score: 61
Period size: 19 Copynumber: 3.5 Consensus size: 19
31856043 ATTTTTATTT
*
31856053 TTATTTTTTAATTTTAAAA
1 TTATTTTTTACTTTTAAAA
***
31856072 -TATTTTTAAAATACTTTTATTT
1 TTATTTTT----TACTTTTAAAA
31856094 TTATTTTTTACTTTTAAAA
1 TTATTTTTTACTTTTAAAA
31856113 TTATTTTTTA
1 TTATTTTTTA
31856123 GTGTTTATTA
Statistics
Matches: 39, Mismatches: 7, Indels: 10
0.70 0.12 0.18
Matches are distributed among these distances:
18 7 0.18
19 18 0.46
22 7 0.18
23 7 0.18
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (19 bp):
TTATTTTTTACTTTTAAAA
Found at i:31857846 original size:30 final size:29
Alignment explanation
Indices: 31857741--31857848 Score: 87
Period size: 29 Copynumber: 3.7 Consensus size: 29
31857731 CATTTAATTA
*
31857741 ATTTTTTAAATTTTAAAAATAT-TTTTTT
1 ATTTTTAAAATTTTAAAAATATATTTTTT
* * * * *
31857769 ATAATTTATACATTTATTACAATA-ATTTTAAT
1 AT-TTTTA-AAATTT-TAAAAATATATTTT-TT
*
31857801 ATTTTT-AATTTTTAAAAATATATTTTTT
1 ATTTTTAAAATTTTAAAAATATATTTTTT
31857829 AGTTTTTAAAATTTTAAAAA
1 A-TTTTTAAAATTTTAAAAA
31857849 ATTATTTAAA
Statistics
Matches: 59, Mismatches: 13, Indels: 14
0.69 0.15 0.16
Matches are distributed among these distances:
28 10 0.17
29 17 0.29
30 16 0.27
31 13 0.22
32 3 0.05
ACGTcount: A:0.41, C:0.02, G:0.01, T:0.56
Consensus pattern (29 bp):
ATTTTTAAAATTTTAAAAATATATTTTTT
Found at i:31866171 original size:14 final size:15
Alignment explanation
Indices: 31866142--31866173 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
31866132 AAAAACATCA
31866142 TAATTTTATCTATTT
1 TAATTTTATCTATTT
31866157 TAATTTTAT-TATTT
1 TAATTTTATCTATTT
31866171 TAA
1 TAA
31866174 CTATAACCAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (15 bp):
TAATTTTATCTATTT
Found at i:31866736 original size:13 final size:13
Alignment explanation
Indices: 31866682--31866745 Score: 83
Period size: 13 Copynumber: 4.9 Consensus size: 13
31866672 ATTTTAAACC
*
31866682 ACTTTTCAAAAGC
1 ACTTTTCAAAAGT
*
31866695 ACTTCTCAAAAGT
1 ACTTTTCAAAAGT
* *
31866708 ACTTTTCTACAGT
1 ACTTTTCAAAAGT
*
31866721 ACTTTTCAAAAAT
1 ACTTTTCAAAAGT
31866734 ACTTTTCAAAAG
1 ACTTTTCAAAAG
31866746 CAATGAAGAA
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
13 42 1.00
ACGTcount: A:0.38, C:0.20, G:0.06, T:0.36
Consensus pattern (13 bp):
ACTTTTCAAAAGT
Found at i:31874924 original size:19 final size:19
Alignment explanation
Indices: 31874900--31874950 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 19
31874890 AGCTTGGCTC
*
31874900 AATAATTAATTTTAAGGTT
1 AATAATTAATTTTAAGGGT
*
31874919 AATAA-TATATATTAAGGGT
1 AATAATTA-ATTTTAAGGGT
31874938 AATAATGTAATTT
1 AATAAT-TAATTT
31874951 AATAATATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
18 2 0.08
19 19 0.73
20 3 0.12
21 2 0.08
ACGTcount: A:0.45, C:0.00, G:0.12, T:0.43
Consensus pattern (19 bp):
AATAATTAATTTTAAGGGT
Found at i:31875360 original size:23 final size:21
Alignment explanation
Indices: 31875306--31875361 Score: 60
Period size: 23 Copynumber: 2.6 Consensus size: 21
31875296 AAAAATTCTG
31875306 AAATTTTATAA-TATATAAATA
1 AAATTTTA-AATTATATAAATA
**
31875327 AAATTAAAAATTATATAAAATTA
1 AAATTTTAAATTATAT-AAA-TA
31875350 AAATTTTAAATT
1 AAATTTTAAATT
31875362 TTACTTTTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
20 2 0.07
21 11 0.39
22 3 0.11
23 12 0.43
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (21 bp):
AAATTTTAAATTATATAAATA
Found at i:31876870 original size:14 final size:14
Alignment explanation
Indices: 31876853--31876891 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
31876843 AATCAATTTA
31876853 AAACCCTAAATTCT
1 AAACCCTAAATTCT
* *
31876867 AAACTCTAAAATCT
1 AAACCCTAAATTCT
*
31876881 TAACCCTAAAT
1 AAACCCTAAAT
31876892 CTTAACACAT
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.46, C:0.26, G:0.00, T:0.28
Consensus pattern (14 bp):
AAACCCTAAATTCT
Found at i:31895336 original size:36 final size:36
Alignment explanation
Indices: 31895289--31895360 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
31895279 TCTAAACAAA
31895289 GTGAATTATCCATCTCTATCACCTTTCCATTCGTGT
1 GTGAATTATCCATCTCTATCACCTTTCCATTCGTGT
*
31895325 GTGAATTATCCATTTCTATCACCTTTCCATTCGTGT
1 GTGAATTATCCATCTCTATCACCTTTCCATTCGTGT
31895361 ATCAATAATA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.19, C:0.26, G:0.11, T:0.43
Consensus pattern (36 bp):
GTGAATTATCCATCTCTATCACCTTTCCATTCGTGT
Found at i:31897395 original size:18 final size:18
Alignment explanation
Indices: 31897372--31897417 Score: 57
Period size: 13 Copynumber: 2.8 Consensus size: 18
31897362 ACATAGTTAT
31897372 TTGAAACTCAAATAATAC
1 TTGAAACTCAAATAATAC
31897390 TTG--A---AAATAATAC
1 TTGAAACTCAAATAATAC
31897403 TTGAAACTCAAATAA
1 TTGAAACTCAAATAA
31897418 CTATGGACTC
Statistics
Matches: 23, Mismatches: 0, Indels: 10
0.70 0.00 0.30
Matches are distributed among these distances:
13 12 0.52
15 1 0.04
16 1 0.04
18 9 0.39
ACGTcount: A:0.52, C:0.13, G:0.07, T:0.28
Consensus pattern (18 bp):
TTGAAACTCAAATAATAC
Found at i:31897429 original size:16 final size:16
Alignment explanation
Indices: 31897408--31897438 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
31897398 AATACTTGAA
31897408 ACTCAAATAACTATGG
1 ACTCAAATAACTATGG
31897424 ACTCAAATAACTATG
1 ACTCAAATAACTATG
31897439 TAAAAAATTG
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:0.45, C:0.19, G:0.10, T:0.26
Consensus pattern (16 bp):
ACTCAAATAACTATGG
Found at i:31907366 original size:21 final size:21
Alignment explanation
Indices: 31907342--31907390 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
31907332 AATAGAAGTT
31907342 GTGAATGACAG-GAAATTGACA
1 GTGAATGACAGAG-AATTGACA
*
31907363 GTGAATGATAGAGAATTGACA
1 GTGAATGACAGAGAATTGACA
31907384 -TGAATGA
1 GTGAATGA
31907391 TTTTATTTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 7 0.27
21 18 0.69
22 1 0.04
ACGTcount: A:0.43, C:0.06, G:0.29, T:0.22
Consensus pattern (21 bp):
GTGAATGACAGAGAATTGACA
Found at i:31908875 original size:13 final size:14
Alignment explanation
Indices: 31908857--31908885 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
31908847 AAGGGTTTTG
31908857 AAATTGG-AAGTTT
1 AAATTGGTAAGTTT
31908870 AAATTGGTAAGTTT
1 AAATTGGTAAGTTT
31908884 AA
1 AA
31908886 TTTAGTCCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.41, C:0.00, G:0.21, T:0.38
Consensus pattern (14 bp):
AAATTGGTAAGTTT
Found at i:31909575 original size:12 final size:14
Alignment explanation
Indices: 31909557--31909592 Score: 58
Period size: 12 Copynumber: 2.7 Consensus size: 14
31909547 ATCGTAAAAA
31909557 ATGATAAATTG-AT
1 ATGATAAATTGAAT
31909570 -TGATAAATTGAAT
1 ATGATAAATTGAAT
31909583 ATGATAAATT
1 ATGATAAATT
31909593 ACAATTTGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 10 0.48
13 2 0.10
14 9 0.43
ACGTcount: A:0.47, C:0.00, G:0.14, T:0.39
Consensus pattern (14 bp):
ATGATAAATTGAAT
Found at i:31911210 original size:24 final size:24
Alignment explanation
Indices: 31911178--31911225 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
31911168 AACCTGGGTT
31911178 CAGCATTTGTTGCGAACTCTCGTG
1 CAGCATTTGTTGCGAACTCTCGTG
31911202 CAGCATTTGTTGCGAACTCTCGTG
1 CAGCATTTGTTGCGAACTCTCGTG
31911226 TTTTACTTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.17, C:0.25, G:0.25, T:0.33
Consensus pattern (24 bp):
CAGCATTTGTTGCGAACTCTCGTG
Found at i:31911283 original size:21 final size:21
Alignment explanation
Indices: 31911257--31911304 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
31911247 ATTGGGTGGA
31911257 TCAGCTCTTACGAGCTTCTAT
1 TCAGCTCTTACGAGCTTCTAT
* *
31911278 TCAGCTCTTACGAGCTTTTGT
1 TCAGCTCTTACGAGCTTCTAT
31911299 TCAGCT
1 TCAGCT
31911305 TTTGAGTTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.17, C:0.27, G:0.17, T:0.40
Consensus pattern (21 bp):
TCAGCTCTTACGAGCTTCTAT
Found at i:31913864 original size:13 final size:14
Alignment explanation
Indices: 31913840--31913870 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
31913830 AAACATATAT
31913840 AATAAAGTTATAAA
1 AATAAAGTTATAAA
31913854 AATAAAG-TATAAA
1 AATAAAGTTATAAA
31913867 AATA
1 AATA
31913871 TGTATAGGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.59
14 7 0.41
ACGTcount: A:0.68, C:0.00, G:0.06, T:0.26
Consensus pattern (14 bp):
AATAAAGTTATAAA
Found at i:31915111 original size:17 final size:17
Alignment explanation
Indices: 31915086--31915118 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
31915076 CAGGGGCGGT
31915086 TGCTACGACGTGGGGCG
1 TGCTACGACGTGGGGCG
*
31915103 TGCTGCGACGTGGGGC
1 TGCTACGACGTGGGGC
31915119 ATGTGGCACC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.09, C:0.24, G:0.48, T:0.18
Consensus pattern (17 bp):
TGCTACGACGTGGGGCG
Found at i:31928376 original size:15 final size:15
Alignment explanation
Indices: 31928340--31928378 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
31928330 GCAAATATCG
*
31928340 TGATAACAAATACAA
1 TGATAATAAATACAA
31928355 T-AGTAATAAATACAA
1 TGA-TAATAAATACAA
31928370 TGATAATAA
1 TGATAATAA
31928379 TTTTAACGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
14 1 0.05
15 19 0.90
16 1 0.05
ACGTcount: A:0.59, C:0.08, G:0.08, T:0.26
Consensus pattern (15 bp):
TGATAATAAATACAA
Found at i:31929192 original size:20 final size:22
Alignment explanation
Indices: 31929153--31929193 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
31929143 CCTTTTTTAA
*
31929153 AATCGTAAATAAGTAAAAAAAT
1 AATCGTAAATAAGAAAAAAAAT
31929175 AATCG-AAA-AAGAAAAAAAA
1 AATCGTAAATAAGAAAAAAAA
31929194 ACAGTAAGCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 10 0.56
21 3 0.17
22 5 0.28
ACGTcount: A:0.71, C:0.05, G:0.10, T:0.15
Consensus pattern (22 bp):
AATCGTAAATAAGAAAAAAAAT
Found at i:31929399 original size:23 final size:22
Alignment explanation
Indices: 31929356--31929413 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
31929346 AAAGGATATC
* *
31929356 TACAAATAAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
31929377 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
31929400 TACATATCATATCT
1 TACAAATCATATCT
31929414 AAGATTGCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.09
22 18 0.56
23 11 0.34
ACGTcount: A:0.45, C:0.17, G:0.03, T:0.34
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:31929430 original size:21 final size:19
Alignment explanation
Indices: 31929392--31929466 Score: 114
Period size: 19 Copynumber: 3.8 Consensus size: 19
31929382 AATCATATCT
*
31929392 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
31929411 TCTAAGATTGCATTTATCATA
1 TCTAAGATTGCA--TATCATA
*
31929432 TCTAAGAATGCATATCATA
1 TCTAAGATTGCATATCATA
31929451 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
31929467 CTCGAAGATT
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
19 33 0.65
21 18 0.35
ACGTcount: A:0.37, C:0.16, G:0.09, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:31930100 original size:133 final size:129
Alignment explanation
Indices: 31929866--31930103 Score: 304
Period size: 133 Copynumber: 1.8 Consensus size: 129
31929856 TGAGTCTGCT
*
31929866 CCACTGCAACTTCAGGGAGATAAGACTCGATGTGATCTACTCTACTACAACTTCAGAGAGATAAG
1 CCACTGCAACTTCAGGGAGATAAGACTCGATGTCATCTACTCTACTACAACTTCAGAGAGATAAG
* *
31929931 AACTGTGGTTTTAATCTGCTCCACTGCAACTTCAGGGAGACAGGATTTGTTTATTTAGTATGCC
66 AACTGTGATTTTAATCTACTCCACTGCAACTTCAGGGAGACAGGATTTGTTTATTTAGTATGCC
* * * *
31929995 CCACTGCAACTTCAGGGAGATAAGATTCGCCATCTTCAGTCTGC-CTCACTAGAACTTCAG-GAG
1 CCACTGCAACTTCAGGGAGATAAGACTCG--AT-GTCA-TCTACTCT-ACTACAACTTCAGAGA-
*
31930058 GATAA-AACT-TGATTACTTAGTCTACTCCACTGCAACTTCAGGGAGA
60 GATAAGAACTGTGATT--TTAATCTACTCCACTGCAACTTCAGGGAGA
31930104 TAATACTAGA
Statistics
Matches: 93, Mismatches: 8, Indels: 12
0.82 0.07 0.11
Matches are distributed among these distances:
129 28 0.30
131 6 0.06
132 10 0.11
133 49 0.53
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (129 bp):
CCACTGCAACTTCAGGGAGATAAGACTCGATGTCATCTACTCTACTACAACTTCAGAGAGATAAG
AACTGTGATTTTAATCTACTCCACTGCAACTTCAGGGAGACAGGATTTGTTTATTTAGTATGCC
Found at i:31930144 original size:40 final size:40
Alignment explanation
Indices: 31930085--31930706 Score: 196
Period size: 44 Copynumber: 14.5 Consensus size: 40
31930075 TAGTCTACTC
* *
31930085 CACTGCAACTTCAGGGAGATAATACTAGATGCGATCTGCT
1 CACTGCAACTTCAGAGAGATAAGACTAGATGCGATCTGCT
* * ** **
31930125 CTCTGCAACTTCAGAGAGATAAGATCTAAGGTTTTGATCCACT
1 CACTGCAACTTCAGAGAGATAAGA-CT-A-GATGCGATCTGCT
* * * *
31930168 CCACTGCAACTTCAGGGAGATAAGATTTGTCAT-CTTCAGTCTGCCT
1 -CACTGCAACTTCAGAGAGATAAGACTAG--ATGC--GA-TCTG-CT
*
31930214 CACTGCAACTTCA-AGAAGATAAGACTTGATGCGATCTGCT
1 CACTGCAACTTCAGAG-AGATAAGACTAGATGCGATCTGCT
* * * *** **
31930254 CTCTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCACT
1 CACTGCAACTTCAGAGAGATAAGA--CTA-GATGCGATCTGCT
* * *** * *
31930297 CCACTGCAACTTTAG-GAAGATAAGATTATCGGCTTTAACATGCT
1 -CACTGCAACTTCAGAG-AGATAAGACTAGATGC--GATC-TGCT
* * * * * *
31930341 CCACTGCAACTTCAGGGAGACAAGATTTGCCATCTTCAATCTGCCT
1 -CACTGCAACTTCAGAGAGATAAGACTAG--A--TGCGATCTG-CT
* * *
31930387 CACTGCAACTTCAG-GAGGATAAGACTTGCTTGCTTAGTCTGCT
1 CACTGCAACTTCAGAGA-GATAAGACTAG-ATGC-GA-TCTGCT
* *
31930430 CCATTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCT
1 -CACTGCAACTTCAGAGAGATAAGACTAGATGCGATCTGCT
* * *** *
31930471 CTCTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCTGTT
1 CACTGCAACTTCAGAGAGATAAGA-CT-AGA-TGCGATCTGCT
* * * *
31930514 CCACTGCAACTTCAGGGAGATAGGA-TTG-TCGGCTTTAATCTGCT
1 -CACTGCAACTTCAGAGAGATAAGACTAGAT--GC---GATCTGCT
* * * * *
31930558 CCACTGCAACTTCAGGGAGACAAGATTTGCCAT-CTTCAGTCTGCCT
1 -CACTGCAACTTCAGAGAGATAAGACTAG--ATGC--GA-TCTG-CT
* *
31930604 CACTGCAACTTCAGGGAGATAAGACTAGATACGATCTGCT
1 CACTGCAACTTCAGAGAGATAAGACTAGATGCGATCTGCT
* * ***
31930644 CTCTGCAACTTCAGAGAGATAAGATCTAAAGTTTTAATCTGCT
1 CACTGCAACTTCAGAGAGATAAGA-CT--AGATGCGATCTGCT
31930687 CCACTGCAACTTCAGAGAGA
1 -CACTGCAACTTCAGAGAGA
31930707 CAAGGCTTGG
Statistics
Matches: 442, Mismatches: 88, Indels: 100
0.70 0.14 0.16
Matches are distributed among these distances:
39 1 0.00
40 88 0.20
41 25 0.06
42 11 0.02
43 47 0.11
44 173 0.39
45 87 0.20
46 8 0.02
48 2 0.00
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (40 bp):
CACTGCAACTTCAGAGAGATAAGACTAGATGCGATCTGCT
Found at i:31930185 original size:173 final size:172
Alignment explanation
Indices: 31929995--31930706 Score: 766
Period size: 173 Copynumber: 4.1 Consensus size: 172
31929985 TTAGTATGCC
* *
31929995 CCACTGCAACTTCAGGGAGATAAGATTCGCCATCTTCAGTCTGCCTCACTAG-AACTTCAGGAGG
1 CCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAATCTGCCTCACT-GCAACTTCAGGAGG
* * * *
31930059 ATAAAACTTGATTACTTAGTCTACTCCACTGCAACTTCAGGGAGATAATACTAGATGCGATCTGC
65 ATAAGACTTGA-TGCTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGC
*
31930124 TCTCTGCAACTTCAGAGAGATAAGATCTAAGGTTTTGATCCACT
129 TCTCTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATCCACT
* * * *
31930168 CCACTGCAACTTCAGGGAGATAAGATTTGTCATCTTCAGTCTGCCTCACTGCAACTTCAAGAAGA
1 CCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAATCTGCCTCACTGCAACTTCAGGAGGA
* * * * * *** **
31930233 TAAGACTTGATGC-GA-TCTGCT-CTCTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCA
66 TAAGACTTGATGCTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGA--CTA-GATGCGATCTG
* * * *
31930295 CTCCACTGCAACTTTAG-GAAGATAAGAT-TATCGGCTTTAA--CATGCT
128 CT-CTCTGCAACTTCAGAG-AGATAAGATCTA-AGGTTTTAATCCA--CT
*
31930341 CCACTGCAACTTCAGGGAGACAAGATTTGCCATCTTCAATCTGCCTCACTGCAACTTCAGGAGGA
1 CCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAATCTGCCTCACTGCAACTTCAGGAGGA
* *
31930406 TAAGACTTGCTTGCTTAGTCTGCTCCATTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCT
66 TAAGACTTG-ATGCTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCT
** * ***
31930471 CTCTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCTGTT
130 CTCTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATCCACT
* * ** *
31930514 CCACTGCAACTTCAGGGAGATAGGA-TTGTCGGCTTTAATCTG-CTCCACTGCAACTTCAGG-GA
1 CCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAATCTGCCT-CACTGCAACTTCAGGAG-
* * *
31930576 GACAAGATTTGCCAT-CTTCAGTCTGC-CTCACTGCAACTTCAGGGAGATAAGACTAGATACGAT
64 GATAAGACTTG--ATGCTT-AGTCTGCTC-CACTGCAACTTCAGGGAGATAAGACTAGATGCGAT
* **
31930639 CTGCTCTCTGCAACTTCAGAGAGATAAGATCTAAAGTTTTAATCTGCT
125 CTGCTCTCTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATCCACT
*
31930687 CCACTGCAACTTCAGAGAGA
1 CCACTGCAACTTCAGGGAGA
31930707 CAAGGCTTGG
Statistics
Matches: 451, Mismatches: 66, Indels: 44
0.80 0.12 0.08
Matches are distributed among these distances:
169 21 0.05
170 5 0.01
171 8 0.02
172 54 0.12
173 321 0.71
174 12 0.03
175 3 0.01
176 6 0.01
177 21 0.05
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.28
Consensus pattern (172 bp):
CCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAATCTGCCTCACTGCAACTTCAGGAGGA
TAAGACTTGATGCTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTC
TCTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATCCACT
Found at i:31930209 original size:129 final size:129
Alignment explanation
Indices: 31930076--31930706 Score: 579
Period size: 129 Copynumber: 4.9 Consensus size: 129
31930066 TTGATTACTT
* * *
31930076 AGTCTACTCCACTGCAACTTCAGGGAGATAATACTAGATGCGATCTGCTCTCTGCAACTTCAGAG
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGATGCGATCTGCTCTCTGCAACTTCAGAG
* **
31930141 AGATAAGATCTAAGGTTTTGATCCACTCCACTGCAACTTCAGGGAGATAAGATTTGTCATCTTC
66 AGATAAGATCTAAGGTTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTCATCTTC
* *
31930205 AGTCTGC-CTCACTGCAACTTCAAGAAGATAAGACTTGATGCGATCTGCTCTCTGCAACTTCAGA
1 AGTCTGCTC-CACTGCAACTTCAGGGAGATAAGACTTGATGCGATCTGCTCTCTGCAACTTCAGA
* ** * * * ** *
31930269 GAGATAAGATCCAAGGTTTTAATCCACTCCACTGCAACTTTAGGAAGATAAGA-TTATCGGCTTT
65 GAGATAAGATCTAAGGTTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTCATCTTC
* * * * * *
31930333 A-ACATGCTCCACTGCAACTTCAGGGAGACAAGATTTGCCATCTTCAATCTGCCTCACTGCAACT
1 AGTC-TGCTCCACTGCAACTTCAGGGAGATAAGACTTG--A--TGCGATCTG-CTCTCTGCAACT
* * * * * *
31930397 TCAG-GAGGATAAGA-CT-TGCTTGCTTAGTCTGCTCCATTGCAACTTCAGGGAGATAAGACTAG
60 TCAGAGA-GATAAGATCTAAGGTT--TTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG
*
31930459 --A--TGC
122 TCATCTTC
* * *** * *
31930463 -GATCTGCT-CTCTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCTGTTCCACTGCAACTT
1 AG-TCTGCTCCACTGCAACTTCAGGGAGATAAGA-CT-TGA-TGCGATCTGCT-CTCTGCAACTT
* * ** * * *
31930526 CAGGGAGATAGGAT-TGTCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGACAAGATTTGCCA
61 CAGAGAGATAAGATCT-AAGGTTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTCA
31930590 TCTTC
125 TCTTC
* *
31930595 AGTCTGC-CTCACTGCAACTTCAGGGAGATAAGACTAGATACGATCTGCTCTCTGCAACTTCAGA
1 AGTCTGCTC-CACTGCAACTTCAGGGAGATAAGACTTGATGCGATCTGCTCTCTGCAACTTCAGA
* *
31930659 GAGATAAGATCTAAAGTTTTAATCTGCTCCACTGCAACTTCAGAGAGA
65 GAGATAAGATCTAAGGTTTTAATCTGCTCCACTGCAACTTCAGGGAGA
31930707 CAAGGCTTGG
Statistics
Matches: 405, Mismatches: 68, Indels: 58
0.76 0.13 0.11
Matches are distributed among these distances:
127 2 0.00
128 99 0.24
129 184 0.45
130 18 0.04
131 8 0.02
132 19 0.05
133 74 0.18
134 1 0.00
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (129 bp):
AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGATGCGATCTGCTCTCTGCAACTTCAGAG
AGATAAGATCTAAGGTTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTCATCTTC
Found at i:31930652 original size:346 final size:346
Alignment explanation
Indices: 31929990--31930710 Score: 888
Period size: 346 Copynumber: 2.1 Consensus size: 346
31929980 TTTATTTAGT
* * *
31929990 ATGCCCCACTGCAACTTCAGGGAGATAAGATTCGCCATCTTCAGTCTGCCTCACTAGAACTTCAG
1 ATGCTCCACTGCAACTTCAGGGAGACAAGATTCGCCATCTTCAATCTGCCTCACTAGAACTTCAG
*
31930055 GAGGATAAAACTTGATTACTTAGTCTACTCCACTGCAACTTCAGGGAGATAATACTAGATGCGAT
66 GAGGATAAAACTTGATTACTTAGTCTACTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGAT
* *
31930120 CTGCTCTCTGCAACTTCAGAGAGATAAGATCTAAGGTTTTGATCCACTCCACTGCAACTTCAGGG
131 CTGCTCTCTGCAACTTCAGAGAGATAAGATCTAAGATTTTAATCCACTCCACTGCAACTTCAGGG
* * *
31930185 AGATAAGATTTGTCATCTTCAGTCTGCCTCACTGCAACTTCAAGAAGATAAGACTTGATGCGATC
196 AGATAAGATTTGTCAGCTTCAATCTGCCTCACTGCAACTTCAAGAAGACAAGACTTGATGCGATC
* * ** *
31930250 TGCTCTCTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCACTCCACTGCAACTTTAG-GA
261 TGCTCACTGCAACTTCAGAGAGATAAGA-CCAAGGATACAATCCACTCCACTGCAACTTCAGAG-
**
31930314 AGATAAGAT-TATCGGCTTTAA-C
324 AGATAAGATCTA-AAGCTTTAATC
*
31930336 ATGCTCCACTGCAACTTCAGGGAGACAAGATTTGCCATCTTCAATCTGCCTCACT-GCAACTTCA
1 ATGCTCCACTGCAACTTCAGGGAGACAAGATTCGCCATCTTCAATCTGCCTCACTAG-AACTTCA
* * * * *
31930400 GGAGGATAAGACTTGCTTGCTTAGTCTGCTCCATTGCAACTTCAGGGAGATAAGACTAGATGCGA
65 GGAGGATAAAACTTGATTACTTAGTCTACTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGA
** ***
31930465 TCTGCTCTCTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCTGTTCCACTGCAACTTCAGG
130 TCTGCTCTCTGCAACTTCAGAGAGATAAGATCTAAGATTTTAATCCACTCCACTGCAACTTCAGG
* * * * * *
31930530 GAGATAGGA-TTGTCGGCTTTAATCTG-CTCCACTGCAACTTCAGGGAGACAAGATTTGCCAT-C
195 GAGATAAGATTTGTCAGCTTCAATCTGCCT-CACTGCAACTTCAAGAAGACAAGACTTG--ATGC
* * * * ** *
31930592 TTCAGTCTGCCTCACTGCAACTTCAGGGAGATAAGA-CTA-GATACGATCTGCT-CTCTGCAACT
257 --GA-TCTG-CTCACTGCAACTTCAGAGAGATAAGACCAAGGATACAATCCACTCCACTGCAACT
*
31930654 TCAGAGAGATAAGATCTAAAGTTTTAATC
318 TCAGAGAGATAAGATCTAAAGCTTTAATC
*
31930683 -TGCTCCACTGCAACTTCAGAGAGACAAG
1 ATGCTCCACTGCAACTTCAGGGAGACAAG
31930711 GCTTGGTGGC
Statistics
Matches: 322, Mismatches: 42, Indels: 22
0.83 0.11 0.06
Matches are distributed among these distances:
344 2 0.01
345 38 0.12
346 238 0.74
347 13 0.04
348 3 0.01
349 4 0.01
350 24 0.07
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.28
Consensus pattern (346 bp):
ATGCTCCACTGCAACTTCAGGGAGACAAGATTCGCCATCTTCAATCTGCCTCACTAGAACTTCAG
GAGGATAAAACTTGATTACTTAGTCTACTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGAT
CTGCTCTCTGCAACTTCAGAGAGATAAGATCTAAGATTTTAATCCACTCCACTGCAACTTCAGGG
AGATAAGATTTGTCAGCTTCAATCTGCCTCACTGCAACTTCAAGAAGACAAGACTTGATGCGATC
TGCTCACTGCAACTTCAGAGAGATAAGACCAAGGATACAATCCACTCCACTGCAACTTCAGAGAG
ATAAGATCTAAAGCTTTAATC
Found at i:31930696 original size:217 final size:216
Alignment explanation
Indices: 31930169--31930706 Score: 637
Period size: 217 Copynumber: 2.5 Consensus size: 216
31930159 TGATCCACTC
* * *
31930169 CACTGCAACTTCAGG-GAGATAAGATTTGTCAT-CTTCAGTCTGC-CTCACTGCAACTTCA-AGA
1 CACTGCAACTTCAGGAG-GATAAGACTAG-CATAC-TGAGTCTGCTC-CA-TGCAACTTCAGAG-
* * *
31930230 AGATAAGACTTGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCA
60 AGATAAGACTAGATGCAATCTGCTCTCTGCAACTTCAGAGAGATAAGATCCAAGATTTTAATCCA
*
31930295 CTCCACTGCAACTTTAGGAAGATAAGATTATCGGCTTTAACATGCTCCACTGCAACTTCAGGGAG
125 CTCCACTGCAACTTCAGGAAGATAAGATTATCGGCTTTAACATGCTCCACTGCAACTTCAGGGAG
31930360 ACAAGATTTGCCATCTTCAATCTGCCT
190 ACAAGATTTGCCATCTTCAATCTGCCT
* * * * *
31930387 CACTGCAACTTCAGGAGGATAAGACTTGCTTGCTTAGTCTGCTCCATTGCAACTTCAGGGAGATA
1 CACTGCAACTTCAGGAGGATAAGACTAGCATACTGAGTCTGCTCCA-TGCAACTTCAGAGAGATA
* *** ***
31930452 AGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCTGTTCCA
65 AGACTAGATGCAATCTGCTCTCTGCAACTTCAGAGAGATAAGATCCAAGATTTTAATCCACTCCA
* * *
31930517 CTGCAACTTCAGGGAGATAGGATTGTCGGCTTTAATC-TGCTCCACTGCAACTTCAGGGAGACAA
130 CTGCAACTTCAGGAAGATAAGATTATCGGCTTTAA-CATGCTCCACTGCAACTTCAGGGAGACAA
*
31930581 GATTTGCCATCTTCAGTCTGCCT
194 GATTTGCCATCTTCAATCTGCCT
31930604 CACTGCAACTTCAGG-GAGATAAGACTAG-ATAC-GA-TCTGCTCTC-TGCAACTTCAGAGAGAT
1 CACTGCAACTTCAGGAG-GATAAGACTAGCATACTGAGTCTGCTC-CATGCAACTTCAGAGAGAT
* ** *
31930664 AAGATCTAAAGTTTTAATCTGCTCCACTGCAACTTCAGAGAGA
64 AAGA-CT--AGATGCAATCTGCT-CTCTGCAACTTCAGAGAGA
31930707 CAAGGCTTGG
Statistics
Matches: 281, Mismatches: 28, Indels: 23
0.85 0.08 0.07
Matches are distributed among these distances:
213 20 0.07
214 9 0.03
215 2 0.01
216 13 0.05
217 207 0.74
218 29 0.10
219 1 0.00
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.28
Consensus pattern (216 bp):
CACTGCAACTTCAGGAGGATAAGACTAGCATACTGAGTCTGCTCCATGCAACTTCAGAGAGATAA
GACTAGATGCAATCTGCTCTCTGCAACTTCAGAGAGATAAGATCCAAGATTTTAATCCACTCCAC
TGCAACTTCAGGAAGATAAGATTATCGGCTTTAACATGCTCCACTGCAACTTCAGGGAGACAAGA
TTTGCCATCTTCAATCTGCCT
Found at i:31932111 original size:6 final size:6
Alignment explanation
Indices: 31932100--31932127 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
31932090 GGCCTCTCCA
31932100 TTTTCT TTTTCT TTTTCT TTTTCT TTTT
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTT
31932128 ATCACTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTTCT
Found at i:31932137 original size:22 final size:20
Alignment explanation
Indices: 31932110--31932161 Score: 61
Period size: 22 Copynumber: 2.5 Consensus size: 20
31932100 TTTTCTTTTT
31932110 CTTTTTCTTTTTCTTTTTATCA
1 CTTTTTCTTTTT-TTTTT-TCA
* *
31932132 CTTTTTCTTCTTTTTTTTCT
1 CTTTTTCTTTTTTTTTTTCA
31932152 CTTTTT-TTTT
1 CTTTTTCTTTT
31932162 ATAATTTGAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 3 0.11
20 8 0.30
21 5 0.19
22 11 0.41
ACGTcount: A:0.04, C:0.17, G:0.00, T:0.79
Consensus pattern (20 bp):
CTTTTTCTTTTTTTTTTTCA
Found at i:31936512 original size:29 final size:30
Alignment explanation
Indices: 31936454--31936512 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
31936444 AAAATATGTG
* * *
31936454 TTAAAAATATAAATAGGTATTTAGGCATTT
1 TTAAAAATATAAATAGATATATACGCATTT
*
31936484 TTAAAAATA-AAATAGATATATACGTATTT
1 TTAAAAATATAAATAGATATATACGCATTT
31936513 ATAGATAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 16 0.64
30 9 0.36
ACGTcount: A:0.47, C:0.03, G:0.10, T:0.39
Consensus pattern (30 bp):
TTAAAAATATAAATAGATATATACGCATTT
Found at i:31936579 original size:19 final size:18
Alignment explanation
Indices: 31936557--31936597 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 18
31936547 ATACATGTAC
31936557 ATAA-TATATATATTAAATA
1 ATAATTATA-ATATTAAA-A
31936576 ATAATTATAATATTAAAA
1 ATAATTATAATATTAAAA
31936594 ATAA
1 ATAA
31936598 AAATAAATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 5 0.24
19 12 0.57
20 4 0.19
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (18 bp):
ATAATTATAATATTAAAA
Found at i:31936607 original size:19 final size:19
Alignment explanation
Indices: 31936566--31936603 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
31936556 CATAATATAT
**
31936566 ATATTAAATAATAATTATA
1 ATATTAAATAATAAAAATA
31936585 ATATTAAA-AATAAAAATA
1 ATATTAAATAATAAAAATA
31936603 A
1 A
31936604 ATATACGTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (19 bp):
ATATTAAATAATAAAAATA
Found at i:31937146 original size:19 final size:22
Alignment explanation
Indices: 31937110--31937149 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 22
31937100 CCTTTTTTAA
31937110 AATCGTAAATAAGTAAAAAAAT
1 AATCGTAAATAAGTAAAAAAAT
31937132 AATCG-AAA-AAG-AAAAAAA
1 AATCGTAAATAAGTAAAAAAA
31937150 CAGTAAGCCA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.39
20 3 0.17
21 3 0.17
22 5 0.28
ACGTcount: A:0.70, C:0.05, G:0.10, T:0.15
Consensus pattern (22 bp):
AATCGTAAATAAGTAAAAAAAT
Found at i:31937355 original size:23 final size:22
Alignment explanation
Indices: 31937311--31937368 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
31937301 AAAGGGTATC
* *
31937311 TACAAATAAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
*
31937332 TACAAAATCATATCTTCTAGGAT
1 TAC-AAATCATATCTTCTAAGAT
*
31937355 TACATATCATATCT
1 TACAAATCATATCT
31937369 AAGATTGTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.43, C:0.17, G:0.05, T:0.34
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:31937374 original size:19 final size:19
Alignment explanation
Indices: 31937324--31937421 Score: 88
Period size: 19 Copynumber: 4.8 Consensus size: 19
31937314 AAATAAAATC
*
31937324 TCTAAGATTACAAAATCATA
1 TCTAAGATTAC-ATATCATA
*
31937344 TCTTCTAGGATTACATATCATA
1 ---TCTAAGATTACATATCATA
*
31937366 TCTAAGATTGTATATATCATA
1 TCTAAGA-T-TACATATCATA
* *
31937387 TCTAAGAATGCATATCATA
1 TCTAAGATTACATATCATA
*
31937406 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
31937422 CTCGAAGATT
Statistics
Matches: 65, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
19 30 0.46
20 1 0.02
21 17 0.26
22 7 0.11
23 10 0.15
ACGTcount: A:0.39, C:0.15, G:0.09, T:0.37
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:31937384 original size:21 final size:20
Alignment explanation
Indices: 31937358--31937420 Score: 83
Period size: 21 Copynumber: 3.1 Consensus size: 20
31937348 CTAGGATTAC
31937358 ATATCATATCTAAGATTGTAT
1 ATATCATATCTAAGATTG-AT
* *
31937379 ATATCATATCTAAGAATG-C
1 ATATCATATCTAAGATTGAT
31937398 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTG-AT
31937419 AT
1 AT
31937421 CCTCGAAGAT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
19 17 0.47
21 19 0.53
ACGTcount: A:0.40, C:0.13, G:0.10, T:0.38
Consensus pattern (20 bp):
ATATCATATCTAAGATTGAT
Found at i:31938660 original size:20 final size:20
Alignment explanation
Indices: 31938625--31938671 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
31938615 CCTTTTCTTA
*
31938625 ACTTTCTTCTATTTCTATTTC
1 ACTTTCTTCAATTTCT-TTTC
31938646 ACTTT-TTCAATTTCTTTTC
1 ACTTTCTTCAATTTCTTTTC
31938665 -CTTTCTT
1 ACTTTCTT
31938672 AGGGCCAGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
18 4 0.17
19 6 0.25
20 9 0.38
21 5 0.21
ACGTcount: A:0.13, C:0.23, G:0.00, T:0.64
Consensus pattern (20 bp):
ACTTTCTTCAATTTCTTTTC
Found at i:31939333 original size:21 final size:21
Alignment explanation
Indices: 31939308--31939352 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
31939298 ATTGTTTGAT
31939308 TCATCGTCATCGTCACCATCA
1 TCATCGTCATCGTCACCATCA
* **
31939329 TCATCGTCGTCGTCGTCATCA
1 TCATCGTCATCGTCACCATCA
31939350 TCA
1 TCA
31939353 CTTTCTCGAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.20, C:0.36, G:0.13, T:0.31
Consensus pattern (21 bp):
TCATCGTCATCGTCACCATCA
Found at i:31940827 original size:71 final size:71
Alignment explanation
Indices: 31940737--31940911 Score: 235
Period size: 72 Copynumber: 2.5 Consensus size: 71
31940727 AAAATCATAT
* * *
31940737 ATAAACAACTATTGATAAAACTAATTTAGTATAAATAAGTAGAACATAAATTCAATA-TCCAAAG
1 ATAAACAACTATTGATAAAACTAATTTAGCATAAATAAGTAGAACATAAATTCAA-AGCCCAAAA
*
31940801 ACTAAAC
65 ACCAAAC
* * *
31940808 ATAAACAACTATTAATAAAACTAAATTACACATAAATAAGTAGAACATAAATTCAAAGCCCAAAA
1 ATAAACAACTATTGATAAAACTAATTTA-GCATAAATAAGTAGAACATAAATTCAAAGCCCAAAA
*
31940873 ACCAAAT
65 ACCAAAC
* *
31940880 ATAAATAACTATTGATAAAACTAGTTTAGCAT
1 ATAAACAACTATTGATAAAACTAATTTAGCAT
31940912 TGTTGTTTAG
Statistics
Matches: 89, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
71 30 0.34
72 59 0.66
ACGTcount: A:0.54, C:0.14, G:0.06, T:0.26
Consensus pattern (71 bp):
ATAAACAACTATTGATAAAACTAATTTAGCATAAATAAGTAGAACATAAATTCAAAGCCCAAAAA
CCAAAC
Found at i:31941373 original size:18 final size:18
Alignment explanation
Indices: 31941340--31941379 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
31941330 TTTGAACATA
* *
31941340 ATTTGAAATGTGAATATC
1 ATTTAAAATGTAAATATC
31941358 ATTTAAAATGTAAATATC
1 ATTTAAAATGTAAATATC
31941376 ATTT
1 ATTT
31941380 CTCATATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.42, C:0.05, G:0.10, T:0.42
Consensus pattern (18 bp):
ATTTAAAATGTAAATATC
Found at i:31943556 original size:114 final size:115
Alignment explanation
Indices: 31943341--31943553 Score: 289
Period size: 109 Copynumber: 1.9 Consensus size: 115
31943331 TCAAAACCTT
*
31943341 AAATTTATTTCCAATTTTGCATAAAAAAATTCATATTTTTTTCAAGGACAAAACACATGAAACAC
1 AAATTTATTCCCAATTTTGCATAAAAAAATTCATATTTTTTTCAAGGACAAAACACATGAAACAC
31943406 GAAATATAGCTAAATAAAACGACCCCAGAAGCTTACATTTCAATGCCTCC
66 GAAATATAGCTAAATAAAACGACCCCAGAAGCTTACATTTCAATGCCTCC
** * * *
31943456 AAATTTA-TCCCAATTTTGCAT-CGAAAATTCA-ATTTTTTT-AAGGATAAAACA-ATGAAATAT
1 AAATTTATTCCCAATTTTGCATAAAAAAATTCATATTTTTTTCAAGGACAAAACACATGAAACAC
*
31943516 G-AATATAGCTAAATTAAAA-GAACCCCA-AAGTTTACATT
66 GAAATATAGCTAAA-TAAAACG-ACCCCAGAAGCTTACATT
31943554 ACAGCAAAAA
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
109 23 0.26
110 19 0.21
111 11 0.12
112 8 0.09
113 8 0.09
114 13 0.15
115 7 0.08
ACGTcount: A:0.44, C:0.17, G:0.09, T:0.31
Consensus pattern (115 bp):
AAATTTATTCCCAATTTTGCATAAAAAAATTCATATTTTTTTCAAGGACAAAACACATGAAACAC
GAAATATAGCTAAATAAAACGACCCCAGAAGCTTACATTTCAATGCCTCC
Found at i:31946591 original size:15 final size:16
Alignment explanation
Indices: 31946571--31946600 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
31946561 TATTTAAAAT
31946571 TTAAAATT-ATTATTG
1 TTAAAATTCATTATTG
31946586 TTAAAATTCATTATT
1 TTAAAATTCATTATT
31946601 AAAATAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.53
Consensus pattern (16 bp):
TTAAAATTCATTATTG
Found at i:31956978 original size:31 final size:31
Alignment explanation
Indices: 31956910--31956979 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 31
31956900 ACTTAATAGC
* *
31956910 CTAATGACTTAAATAAAAACTTTTAAATAGT
1 CTAATGACTTAAATAAAAACTTTCAAATAAT
* * *
31956941 -TCAATGATTTAAATGAAAACTTTCGAATAAT
1 CT-AATGACTTAAATAAAAACTTTCAAATAAT
31956972 CTAATGAC
1 CTAATGAC
31956980 CAAACCGTAA
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
30 1 0.03
31 29 0.94
32 1 0.03
ACGTcount: A:0.46, C:0.11, G:0.09, T:0.34
Consensus pattern (31 bp):
CTAATGACTTAAATAAAAACTTTCAAATAAT
Done.