Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D04
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: 52479919
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Warning! 336953 characters in sequence are not A, C, G, or T
File 122 of 173
Found at i:37476998 original size:5 final size:5
Alignment explanation
Indices: 37476988--37477017 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
37476978 TAGTCTCTAC
37476988 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
37477018 GCTAATGTGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:37477979 original size:12 final size:12
Alignment explanation
Indices: 37477972--37478042 Score: 70
Period size: 12 Copynumber: 5.9 Consensus size: 12
37477962 AATATTATCT
37477972 TTATTATTATTG
1 TTATTATTATTG
* *
37477984 TTACTATTATTA
1 TTATTATTATTG
* *
37477996 TTCTTATTATTC
1 TTATTATTATTG
**
37478008 TTATTATTGCTG
1 TTATTATTATTG
37478020 TTATTATTATTG
1 TTATTATTATTG
**
37478032 GAATTATTATT
1 TTATTATTATT
37478043 ACATTTATTT
Statistics
Matches: 46, Mismatches: 13, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
12 46 1.00
ACGTcount: A:0.25, C:0.06, G:0.07, T:0.62
Consensus pattern (12 bp):
TTATTATTATTG
Found at i:37478043 original size:3 final size:3
Alignment explanation
Indices: 37477972--37478030 Score: 55
Period size: 3 Copynumber: 19.7 Consensus size: 3
37477962 AATATTATCT
* * * * * * *
37477972 TTA TTA TTA TTG TTA CTA TTA TTA TTC TTA TTA TTC TTA TTA TTG CTG
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
37478020 TTA TTA TTA TT
1 TTA TTA TTA TT
37478031 GGAATTATTA
Statistics
Matches: 44, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.24, C:0.07, G:0.05, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:37478135 original size:24 final size:24
Alignment explanation
Indices: 37478108--37478163 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
37478098 TATCATGTAC
* *
37478108 TATTATTTTA-AGTTTTTCATATAT
1 TATTATTTTAGA-TTTATCACATAT
*
37478132 TATTATTTTGGATTTATCACATAT
1 TATTATTTTAGATTTATCACATAT
37478156 TATTATTT
1 TATTATTT
37478164 AATTTCATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 27 0.96
25 1 0.04
ACGTcount: A:0.29, C:0.05, G:0.05, T:0.61
Consensus pattern (24 bp):
TATTATTTTAGATTTATCACATAT
Found at i:37490582 original size:27 final size:27
Alignment explanation
Indices: 37490161--37490570 Score: 455
Period size: 27 Copynumber: 15.2 Consensus size: 27
37490151 AGAGGTCTAT
*
37490161 AAATGACCGAAATACCCCCATAAGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
37490188 AAATGACCGAAATACCCCCATAGGGT-
1 AAATGACCGAAATACCCCCATAGGGTA
* ** ** *
37490214 AAATAACTAAAATACCCTTATAAGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
**
37490241 AAATGATTGAAATACCCTCCATAGGGTA
1 AAATGACCGAAATACCC-CCATAGGGTA
* ** * *
37490269 GAATGATAGAAATACCCCTATATGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* *
37490296 GAATGACCGAAATACACCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
*
37490323 GAATGACCGAAATACCCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* * *
37490350 GAATGATCGAAATA-CCCCATAAGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* * *
37490376 AATTGACCGAAATACCCCTATAAGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* * * *
37490403 AAATGACTGAAATACTCCTATAGGGTT
1 AAATGACCGAAATACCCCCATAGGGTA
* *
37490430 AAATAATCGAAATACCCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* *
37490457 GAATGACCGAAATACCCTCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* * * *
37490484 AAATGACCAAAATGCCCTCATAGGATA
1 AAATGACCGAAATACCCCCATAGGGTA
**
37490511 AAATGATTGAAATACCCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
*
37490538 AAATAACCGAAATACCCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
37490565 AAATGA
1 AAATGA
37490571 TTGTTATACC
Statistics
Matches: 322, Mismatches: 58, Indels: 6
0.83 0.15 0.02
Matches are distributed among these distances:
26 42 0.13
27 258 0.80
28 22 0.07
ACGTcount: A:0.42, C:0.21, G:0.17, T:0.20
Consensus pattern (27 bp):
AAATGACCGAAATACCCCCATAGGGTA
Found at i:37491007 original size:29 final size:31
Alignment explanation
Indices: 37490965--37491031 Score: 93
Period size: 29 Copynumber: 2.2 Consensus size: 31
37490955 AACTACATAT
* *
37490965 CTGCACTGATTAATGATATT-GTACTG-TTA
1 CTGCATTGATTAATGATATTAATACTGTTTA
37490994 CTGCATTGATTAATGATATTACATACTGTTTA
1 CTGCATTGATTAATGATATTA-ATACTGTTTA
37491026 CTGCAT
1 CTGCAT
37491032 GACTGATATC
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
29 19 0.58
31 5 0.15
32 9 0.27
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.42
Consensus pattern (31 bp):
CTGCATTGATTAATGATATTAATACTGTTTA
Found at i:37502711 original size:22 final size:20
Alignment explanation
Indices: 37502675--37502733 Score: 57
Period size: 21 Copynumber: 2.8 Consensus size: 20
37502665 GACCCGGCCC
37502675 ATTT-TTTTAATAAATACCAAAA
1 ATTTATTTTAA-AAATA--AAAA
37502697 ATTTATTTTAAAAATTAAAAA
1 ATTTATTTTAAAAA-TAAAAA
**
37502718 AAGTATTTTAAAAATA
1 ATTTATTTTAAAAATA
37502734 TTTTAAAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
20 2 0.06
21 16 0.48
22 7 0.21
23 8 0.24
ACGTcount: A:0.54, C:0.03, G:0.02, T:0.41
Consensus pattern (20 bp):
ATTTATTTTAAAAATAAAAA
Found at i:37502735 original size:11 final size:11
Alignment explanation
Indices: 37502715--37502781 Score: 63
Period size: 11 Copynumber: 6.4 Consensus size: 11
37502705 TAAAAATTAA
37502715 AAAAAGTATTTT
1 AAAAA-TATTTT
37502727 AAAAATATTTT
1 AAAAATATTTT
*
37502738 --AAA-A-TTA
1 AAAAATATTTT
37502745 AAAAAT-TTTT
1 AAAAATATTTT
*
37502755 GAAAAGTATTTT
1 -AAAAATATTTT
37502767 AAAAATATTTT
1 AAAAATATTTT
37502778 AAAA
1 AAAA
37502782 TTAAAAAAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 13
0.73 0.06 0.21
Matches are distributed among these distances:
7 2 0.04
8 1 0.02
9 6 0.13
10 2 0.04
11 25 0.56
12 9 0.20
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.40
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:37503295 original size:17 final size:17
Alignment explanation
Indices: 37503273--37503307 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
37503263 ATTTTTATAG
37503273 TTTAATAATAATTTTAA
1 TTTAATAATAATTTTAA
* *
37503290 TTTAATACTTATTTTAA
1 TTTAATAATAATTTTAA
37503307 T
1 T
37503308 AGTATTTTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (17 bp):
TTTAATAATAATTTTAA
Found at i:37505998 original size:17 final size:18
Alignment explanation
Indices: 37505962--37506000 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
37505952 CCATCGTCCT
* *
37505962 CTAAGGGGAAATAGATAA
1 CTAAGGGAAAAAAGATAA
37505980 CTAAGGGAAAAAAGA-AA
1 CTAAGGGAAAAAAGATAA
37505997 CTAA
1 CTAA
37506001 CTAAGTCTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.56, C:0.08, G:0.23, T:0.13
Consensus pattern (18 bp):
CTAAGGGAAAAAAGATAA
Found at i:37508886 original size:16 final size:15
Alignment explanation
Indices: 37508851--37508886 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
37508841 CATTCATTCA
*
37508851 TGCATTTAGATTATT
1 TGCATTTAGATTAAT
37508866 TGCATTTAGATTTAAT
1 TGCATTTAGA-TTAAT
37508882 TGCAT
1 TGCAT
37508887 AGGGATCATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.53
16 9 0.47
ACGTcount: A:0.28, C:0.08, G:0.14, T:0.50
Consensus pattern (15 bp):
TGCATTTAGATTAAT
Found at i:37512279 original size:41 final size:41
Alignment explanation
Indices: 37512177--37512285 Score: 119
Period size: 41 Copynumber: 2.7 Consensus size: 41
37512167 ACCGGCTTTT
* * * * * * *
37512177 AGCCTGCTAGACCTATAGTCCGAAATGTATCACCGGCATTA
1 AGCCTGCTAGACATAAAGTCTGAATTATTTCACCGGCATCA
*
37512218 AGCCTGTTAGACATAAAGTCTGAATTATTTCACCGGCATCA
1 AGCCTGCTAGACATAAAGTCTGAATTATTTCACCGGCATCA
* * *
37512259 AGTCTGCTAGACGTAAAGTCTGTATTA
1 AGCCTGCTAGACATAAAGTCTGAATTA
37512286 CATTCGATCA
Statistics
Matches: 56, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
41 56 1.00
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.28
Consensus pattern (41 bp):
AGCCTGCTAGACATAAAGTCTGAATTATTTCACCGGCATCA
Found at i:37515261 original size:27 final size:26
Alignment explanation
Indices: 37515222--37515400 Score: 171
Period size: 27 Copynumber: 6.6 Consensus size: 26
37515212 AGAGGCCAGT
*
37515222 AAATGA-CATAAATACCTCCATATGGTA
1 AAATGACCA-AAATACC-CCATAGGGTA
*
37515249 AAATGACCAAAATACCCTCATAGGGAA
1 AAATGACCAAAATACCC-CATAGGGTA
* * *
37515276 AAATAACCGAAATACCTCCATAGGATA
1 AAATGACCAAAATACC-CCATAGGGTA
* *
37515303 AAATGACCAAAATACCCCCATAAGATA
1 AAATGACCAAAATA-CCCCATAGGGTA
**
37515330 AAATGACTGAAATACCCTCATAGGGTA
1 AAATGACCAAAATACCC-CATAGGGTA
* *
37515357 AAATAACTAAAATACCCCTTATAGGGTA
1 AAATGACCAAAATACCCC--ATAGGGTA
*
37515385 AAATGACCGAAATACC
1 AAATGACCAAAATACC
37515401 TCTAGGAGAT
Statistics
Matches: 127, Mismatches: 18, Indels: 13
0.80 0.11 0.08
Matches are distributed among these distances:
26 5 0.04
27 96 0.76
28 26 0.20
ACGTcount: A:0.47, C:0.21, G:0.12, T:0.20
Consensus pattern (26 bp):
AAATGACCAAAATACCCCATAGGGTA
Found at i:37515313 original size:54 final size:53
Alignment explanation
Indices: 37515222--37515402 Score: 204
Period size: 54 Copynumber: 3.3 Consensus size: 53
37515212 AGAGGCCAGT
**
37515222 AAATGACATAAATACCTCCATATGGTAAAATGACCAAAATACCCTCATAGGGAA
1 AAATGACCGAAATACCTCCATA-GGTAAAATGACCAAAATACCCTCATAGGGAA
* * *
37515276 AAATAACCGAAATACCTCCATAGGATAAAATGACCAAAATACCCCCATA-AGATA
1 AAATGACCGAAATACCTCCATAGG-TAAAATGACCAAAATACCCTCATAGGGA-A
* * * * *
37515330 AAATGACTGAAATACC-CTCATAGGGTAAAATAACTAAAATACCCCTTATAGGGTA
1 AAATGACCGAAATACCTC-CATA-GGTAAAATGACCAAAATA-CCCTCATAGGGAA
37515385 AAATGACCGAAATACCTC
1 AAATGACCGAAATACCTC
37515403 TAGGAGATGA
Statistics
Matches: 106, Mismatches: 14, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
53 5 0.05
54 75 0.71
55 24 0.23
56 2 0.02
ACGTcount: A:0.46, C:0.22, G:0.12, T:0.20
Consensus pattern (53 bp):
AAATGACCGAAATACCTCCATAGGTAAAATGACCAAAATACCCTCATAGGGAA
Found at i:37515360 original size:81 final size:81
Alignment explanation
Indices: 37515222--37515400 Score: 227
Period size: 81 Copynumber: 2.2 Consensus size: 81
37515212 AGAGGCCAGT
* * * *
37515222 AAATGA-CATAAATACCTCCATATGGTAAAATGACCAAAATACCCTCATAGGGAAAAATAACCGA
1 AAATGACCA-AAATACCCCCATAAGATAAAATGACCAAAATACCCTCATAGGGAAAAATAACCAA
37515286 AATACCTCC-ATAGGATA
65 AATACC-CCTATAGGATA
** * *
37515303 AAATGACCAAAATACCCCCATAAGATAAAATGACTGAAATACCCTCATAGGGTAAAATAACTAAA
1 AAATGACCAAAATACCCCCATAAGATAAAATGACCAAAATACCCTCATAGGGAAAAATAACCAAA
*
37515368 ATACCCCTTATAGGGTA
66 ATACCCC-TATAGGATA
*
37515385 AAATGACCGAAATACC
1 AAATGACCAAAATACC
37515401 TCTAGGAGAT
Statistics
Matches: 85, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
80 2 0.02
81 59 0.69
82 24 0.28
ACGTcount: A:0.47, C:0.21, G:0.12, T:0.20
Consensus pattern (81 bp):
AAATGACCAAAATACCCCCATAAGATAAAATGACCAAAATACCCTCATAGGGAAAAATAACCAAA
ATACCCCTATAGGATA
Found at i:37515420 original size:82 final size:81
Alignment explanation
Indices: 37515247--37515420 Score: 215
Period size: 81 Copynumber: 2.1 Consensus size: 81
37515237 CTCCATATGG
** *
37515247 TAAAATGACCAAAATACCCTCATAGGGAAAAATAACCGAAATACCTCCATAGGATAAAATGACCA
1 TAAAATGACTGAAATACCCTCATAGGGAAAAATAACCAAAATACCTCCATAGGATAAAATGACCA
*
37515312 AAATACCCCCATAAGA
66 AAATACCCCCAGAAGA
* * *
37515328 TAAAATGACTGAAATACCCTCATAGGGTAAAATAACTAAAATACC-CCTTATAGGGTAAAATGAC
1 TAAAATGACTGAAATACCCTCATAGGGAAAAATAACCAAAATACCTCC--ATAGGATAAAATGAC
* * * *
37515392 CGAAATACCTCTAGGAGA
64 CAAAATACCCCCAGAAGA
*
37515410 TGAAATGACTG
1 TAAAATGACTG
37515421 TTATGGCCTT
Statistics
Matches: 79, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
80 2 0.03
81 40 0.51
82 37 0.47
ACGTcount: A:0.46, C:0.20, G:0.14, T:0.20
Consensus pattern (81 bp):
TAAAATGACTGAAATACCCTCATAGGGAAAAATAACCAAAATACCTCCATAGGATAAAATGACCA
AAATACCCCCAGAAGA
Found at i:37515611 original size:26 final size:26
Alignment explanation
Indices: 37515582--37515635 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 26
37515572 TTGCCACATT
*
37515582 TACTGTTACTGGCAGCTTCGCTGCGA
1 TACTATTACTGGCAGCTTCGCTGCGA
*
37515608 TACTATTACTGGCAGCTTTGCTGCGA
1 TACTATTACTGGCAGCTTCGCTGCGA
37515634 TA
1 TA
37515636 TTGGTGTGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.19, C:0.24, G:0.24, T:0.33
Consensus pattern (26 bp):
TACTATTACTGGCAGCTTCGCTGCGA
Found at i:37515784 original size:28 final size:28
Alignment explanation
Indices: 37515743--37515831 Score: 115
Period size: 28 Copynumber: 3.2 Consensus size: 28
37515733 ACTGTACTGA
*
37515743 TACTGTATTTGGCTAAGGCTCACACTAT
1 TACTGTATTGGGCTAAGGCTCACACTAT
* * * *
37515771 TACTGTATTGGGCTAAAGCCCACATTGT
1 TACTGTATTGGGCTAAGGCTCACACTAT
* *
37515799 TACTGTATTGGGCTCAGGCTCAGACTAT
1 TACTGTATTGGGCTAAGGCTCACACTAT
37515827 TACTG
1 TACTG
37515832 CATGTCGTAT
Statistics
Matches: 50, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 50 1.00
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.34
Consensus pattern (28 bp):
TACTGTATTGGGCTAAGGCTCACACTAT
Found at i:37519918 original size:17 final size:18
Alignment explanation
Indices: 37519888--37519930 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
37519878 TCCCTCACCT
**
37519888 TTTCTTTTTTGTTCT-TC
1 TTTCTTTTCGGTTCTCTC
37519905 TTTCTTTTCGGTTCTCTC
1 TTTCTTTTCGGTTCTCTC
37519923 TTCTCTTT
1 TT-TCTTT
37519931 GATTGTCGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 13 0.59
18 4 0.18
19 5 0.23
ACGTcount: A:0.00, C:0.23, G:0.07, T:0.70
Consensus pattern (18 bp):
TTTCTTTTCGGTTCTCTC
Found at i:37521790 original size:9 final size:9
Alignment explanation
Indices: 37521756--37521825 Score: 77
Period size: 9 Copynumber: 7.6 Consensus size: 9
37521746 TTAGGTTAAA
*
37521756 AATTACTCG
1 AATTACCCG
*
37521765 AATTACCTG
1 AATTACCCG
37521774 AATTACCCG
1 AATTACCCG
*
37521783 AATTACCCAAA
1 AATTACCC--G
*
37521794 AATTACCCA
1 AATTACCCG
*
37521803 AATTACCAG
1 AATTACCCG
37521812 AATTACCCG
1 AATTACCCG
37521821 AATTA
1 AATTA
37521826 AATCACTACA
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
9 44 0.85
11 8 0.15
ACGTcount: A:0.41, C:0.26, G:0.07, T:0.26
Consensus pattern (9 bp):
AATTACCCG
Found at i:37521795 original size:38 final size:38
Alignment explanation
Indices: 37521753--37521825 Score: 119
Period size: 38 Copynumber: 1.9 Consensus size: 38
37521743 ATTTTAGGTT
* * *
37521753 AAAAATTACTCGAATTACCTGAATTACCCGAATTACCC
1 AAAAATTACCCAAATTACCAGAATTACCCGAATTACCC
37521791 AAAAATTACCCAAATTACCAGAATTACCCGAATTA
1 AAAAATTACCCAAATTACCAGAATTACCCGAATTA
37521826 AATCACTACA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 32 1.00
ACGTcount: A:0.44, C:0.25, G:0.07, T:0.25
Consensus pattern (38 bp):
AAAAATTACCCAAATTACCAGAATTACCCGAATTACCC
Found at i:37524916 original size:62 final size:57
Alignment explanation
Indices: 37524832--37524964 Score: 178
Period size: 62 Copynumber: 2.3 Consensus size: 57
37524822 TCCAAAAATA
* * *
37524832 ATATTATTTTAAT-TGTTTAATATTAAATTTAATTTAATGTTTATCTTGTAGATAAATATT
1 ATATTATTTTAATATATTTAATATTAAATTTAATCTAAT-ATTATC-T-T-GATAAATATT
37524892 ATATTATTTTAATAATATTTAATATTAAATTTAATCTAATATTATCTTGATAAATATT
1 ATATTATTTTAAT-ATATTTAATATTAAATTTAATCTAATATTATCTTGATAAATATT
*
37524950 ATATTAATTTAATAT
1 ATATTATTTTAATAT
37524965 TAAAGTGATT
Statistics
Matches: 67, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
57 2 0.03
58 22 0.33
59 1 0.01
60 14 0.21
61 5 0.07
62 23 0.34
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.53
Consensus pattern (57 bp):
ATATTATTTTAATATATTTAATATTAAATTTAATCTAATATTATCTTGATAAATATT
Found at i:37524961 original size:58 final size:62
Alignment explanation
Indices: 37524847--37524963 Score: 179
Period size: 58 Copynumber: 2.0 Consensus size: 62
37524837 ATTTTAATTG
* * *
37524847 TTTAATATTAAATTTAATTTAATGTTTATCTTGTAGATAAATATTATATTATTTTAATAATA
1 TTTAATATTAAATTTAATCTAATGATTATCTTGTAGATAAATATTATATTAATTTAATAATA
37524909 TTTAATATTAAATTTAATCTAAT-ATTATC-T-T-GATAAATATTATATTAATTTAATA
1 TTTAATATTAAATTTAATCTAATGATTATCTTGTAGATAAATATTATATTAATTTAATA
37524964 TTAAAGTGAT
Statistics
Matches: 52, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
58 23 0.44
59 1 0.02
60 1 0.02
61 5 0.10
62 22 0.42
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.52
Consensus pattern (62 bp):
TTTAATATTAAATTTAATCTAATGATTATCTTGTAGATAAATATTATATTAATTTAATAATA
Found at i:37526090 original size:9 final size:9
Alignment explanation
Indices: 37526076--37526127 Score: 59
Period size: 9 Copynumber: 5.6 Consensus size: 9
37526066 TTTGGTTAAA
37526076 AATTACCCG
1 AATTACCCG
37526085 AATTACCCG
1 AATTACCCG
*
37526094 AAAATTACCCA
1 --AATTACCCG
*
37526105 AAATACCCG
1 AATTACCCG
*
37526114 AATTACCCA
1 AATTACCCG
37526123 AATTA
1 AATTA
37526128 AATCACTACA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
9 28 0.78
11 8 0.22
ACGTcount: A:0.44, C:0.29, G:0.06, T:0.21
Consensus pattern (9 bp):
AATTACCCG
Found at i:37526099 original size:20 final size:20
Alignment explanation
Indices: 37526074--37526127 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
37526064 TTTTTGGTTA
*
37526074 AAAATTACCCGAATTACCCG
1 AAAATTACCCAAATTACCCG
*
37526094 AAAATTACCCAAAATACCCG
1 AAAATTACCCAAATTACCCG
37526114 --AATTACCCAAATTA
1 AAAATTACCCAAATTA
37526128 AATCACTACA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
18 13 0.42
20 18 0.58
ACGTcount: A:0.46, C:0.28, G:0.06, T:0.20
Consensus pattern (20 bp):
AAAATTACCCAAATTACCCG
Found at i:37527276 original size:16 final size:16
Alignment explanation
Indices: 37527251--37527290 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
37527241 CCTAAGAAAA
*
37527251 AAATTAGGCT-GGATTT
1 AAATTGGGCTAGG-TTT
37527267 AAATTGGGCTAGGTTT
1 AAATTGGGCTAGGTTT
37527283 AAATTGGG
1 AAATTGGG
37527291 AGGGAGTAGG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 20 0.91
17 2 0.09
ACGTcount: A:0.30, C:0.05, G:0.30, T:0.35
Consensus pattern (16 bp):
AAATTGGGCTAGGTTT
Found at i:37528212 original size:16 final size:16
Alignment explanation
Indices: 37528188--37528218 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
37528178 CTTTATATAT
*
37528188 TAAATTATTATATTAA
1 TAAAATATTATATTAA
37528204 TAAAATATTATATTA
1 TAAAATATTATATTA
37528219 TGTTAATTAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
TAAAATATTATATTAA
Found at i:37532211 original size:26 final size:27
Alignment explanation
Indices: 37532156--37532215 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 27
37532146 TATTTTCTTG
*
37532156 AAATTTTACCAAATGGCAAAATCATCA
1 AAATTTTACCAAAGGGCAAAATCATCA
* * *
37532183 AAATTTTACC-AAGGGTAAAATCGTTA
1 AAATTTTACCAAAGGGCAAAATCATCA
37532209 AAATTTT
1 AAATTTT
37532216 GATGGGATAA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 19 0.66
27 10 0.34
ACGTcount: A:0.45, C:0.13, G:0.10, T:0.32
Consensus pattern (27 bp):
AAATTTTACCAAAGGGCAAAATCATCA
Found at i:37541798 original size:3 final size:3
Alignment explanation
Indices: 37541790--37541842 Score: 97
Period size: 3 Copynumber: 17.7 Consensus size: 3
37541780 TAGTCACCTT
37541790 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
37541838 CTA TT
1 TTA TT
37541843 TTGGCATTTG
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:37551441 original size:2 final size:2
Alignment explanation
Indices: 37551434--37551481 Score: 87
Period size: 2 Copynumber: 24.0 Consensus size: 2
37551424 ATTTCATTGG
*
37551434 CT CT CT CT CT CT TT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
37551476 CT CT CT
1 CT CT CT
37551482 TTATTATTCA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
CT
Found at i:37554898 original size:28 final size:28
Alignment explanation
Indices: 37554867--37554923 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
37554857 GAAGTAACTG
37554867 CTAAAAAGAATAAGGCAAAGTCTAAGGA
1 CTAAAAAGAATAAGGCAAAGTCTAAGGA
37554895 CTAAAAAGAATAAGGCAAAGTCTAAGGA
1 CTAAAAAGAATAAGGCAAAGTCTAAGGA
37554923 C
1 C
37554924 ACACGTAGGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.53, C:0.12, G:0.21, T:0.14
Consensus pattern (28 bp):
CTAAAAAGAATAAGGCAAAGTCTAAGGA
Found at i:37563860 original size:23 final size:23
Alignment explanation
Indices: 37563834--37563913 Score: 72
Period size: 23 Copynumber: 3.3 Consensus size: 23
37563824 GCAGGCTACT
37563834 ACATGTATCGGATAGTGATGGTC
1 ACATGTATCGGATAGTGATGGTC
* * *
37563857 ACATGTGTAGTACTATGTGCA-GGCTAC
1 ACATGTATCGGA-TA-GTG-ATGG-T-C
37563884 TACATGTATCGGATAGTGATGGTC
1 -ACATGTATCGGATAGTGATGGTC
37563908 ACATGT
1 ACATGT
37563914 GTAGTACTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 14
0.69 0.09 0.22
Matches are distributed among these distances:
23 15 0.34
24 3 0.07
25 7 0.16
26 7 0.16
27 3 0.07
28 9 0.20
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (23 bp):
ACATGTATCGGATAGTGATGGTC
Found at i:37563869 original size:101 final size:102
Alignment explanation
Indices: 37563746--37563936 Score: 287
Period size: 101 Copynumber: 1.9 Consensus size: 102
37563736 TGAAAGTGAA
* * ***
37563746 AGTGATGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGA-A-TGATAGGTTGTA
1 AGTGATGGTCACATGTGTAGTACTATGTGCAGGCTACTACATGTACCAGATAGTGAT-GGTCACA
37563809 TGTGTAGTACTATGTGCAGGCTACTACATGTATCGGAT
65 TGTGTAGTACTATGTGCAGGCTACTACATGTATCGGAT
* *
37563847 AGTGATGGTCACATGTGTAGTACTATGTGCAGGCTACTACATGTATCGGATAGTGATGGTCACAT
1 AGTGATGGTCACATGTGTAGTACTATGTGCAGGCTACTACATGTACCAGATAGTGATGGTCACAT
*
37563912 GTGTAGTACTATGTGTAGGCTACTA
66 GTGTAGTACTATGTGCAGGCTACTA
37563937 TGTGAACCAG
Statistics
Matches: 80, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
101 46 0.57
102 30 0.38
103 4 0.05
ACGTcount: A:0.25, C:0.15, G:0.28, T:0.32
Consensus pattern (102 bp):
AGTGATGGTCACATGTGTAGTACTATGTGCAGGCTACTACATGTACCAGATAGTGATGGTCACAT
GTGTAGTACTATGTGCAGGCTACTACATGTATCGGAT
Found at i:37563884 original size:51 final size:51
Alignment explanation
Indices: 37563746--37563936 Score: 287
Period size: 51 Copynumber: 3.8 Consensus size: 51
37563736 TGAAAGTGAA
* * * *
37563746 AGTGATGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGA-
1 AGTGATGGTCACATGTGTAGTACTATGTGCAGGCTACTACATGTATCGGAT
***
37563796 A-TGATAGGTTGTATGTGTAGTACTATGTGCAGGCTACTACATGTATCGGAT
1 AGTGAT-GGTCACATGTGTAGTACTATGTGCAGGCTACTACATGTATCGGAT
37563847 AGTGATGGTCACATGTGTAGTACTATGTGCAGGCTACTACATGTATCGGAT
1 AGTGATGGTCACATGTGTAGTACTATGTGCAGGCTACTACATGTATCGGAT
*
37563898 AGTGATGGTCACATGTGTAGTACTATGTGTAGGCTACTA
1 AGTGATGGTCACATGTGTAGTACTATGTGCAGGCTACTA
37563937 TGTGAACCAG
Statistics
Matches: 127, Mismatches: 11, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
49 4 0.03
50 38 0.30
51 81 0.64
52 4 0.03
ACGTcount: A:0.25, C:0.15, G:0.28, T:0.32
Consensus pattern (51 bp):
AGTGATGGTCACATGTGTAGTACTATGTGCAGGCTACTACATGTATCGGAT
Found at i:37564015 original size:46 final size:44
Alignment explanation
Indices: 37563947--37564034 Score: 115
Period size: 46 Copynumber: 2.0 Consensus size: 44
37563937 TGTGAACCAG
*
37563947 TATCATTAATTATAAAGTGGTTGCTATGTGCTG-ATCTCACCGGA
1 TATCATTAATTACAAAGTGGTTGCTATGTGCTGAATC-CACCGGA
* *
37563991 TATCATTGATTACAAAGGGTGGTTGCTGTGTGCTGAATCCACCG
1 TATCATTAATTACAAA--GTGGTTGCTATGTGCTGAATCCACCG
37564035 TGTATCTGTT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
44 14 0.37
46 21 0.55
47 3 0.08
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (44 bp):
TATCATTAATTACAAAGTGGTTGCTATGTGCTGAATCCACCGGA
Found at i:37564210 original size:37 final size:38
Alignment explanation
Indices: 37564142--37564213 Score: 92
Period size: 37 Copynumber: 1.9 Consensus size: 38
37564132 TGTGTGGAAC
* **
37564142 TGAATTCAATATTGACTTGAAAATGGTAAAGTGAATTT
1 TGAATTCAATACTGACTTGAAAATGAAAAAGTGAATTT
* *
37564180 TGAATTGAATACTGA-TTGAAAGTGAAAAAGTGAA
1 TGAATTCAATACTGACTTGAAAATGAAAAAGTGAA
37564214 ATTAAGAAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
37 16 0.55
38 13 0.45
ACGTcount: A:0.43, C:0.04, G:0.21, T:0.32
Consensus pattern (38 bp):
TGAATTCAATACTGACTTGAAAATGAAAAAGTGAATTT
Found at i:37569325 original size:17 final size:16
Alignment explanation
Indices: 37569303--37569334 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
37569293 AATTTTTAGG
37569303 ATGTAATTATTATTTTT
1 ATGTAATTATT-TTTTT
37569320 ATGTAATTATTTTTT
1 ATGTAATTATTTTTT
37569335 AATTATATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.66
Consensus pattern (16 bp):
ATGTAATTATTTTTTT
Found at i:37569760 original size:14 final size:15
Alignment explanation
Indices: 37569743--37569775 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
37569733 GTTTATTGAC
*
37569743 TTATGTTTT-TTCAT
1 TTATATTTTGTTCAT
37569757 TTATATTTTGTTCAT
1 TTATATTTTGTTCAT
37569772 TTAT
1 TTAT
37569776 TTGATATTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.18, C:0.06, G:0.06, T:0.70
Consensus pattern (15 bp):
TTATATTTTGTTCAT
Found at i:37577414 original size:20 final size:17
Alignment explanation
Indices: 37577374--37577406 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
37577364 AGACCAAATA
*
37577374 CAAATAATAAATAAAAC
1 CAAAAAATAAATAAAAC
37577391 CAAAAAATAAATAAAA
1 CAAAAAATAAATAAAA
37577407 AGTCCAAATA
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:0.76, C:0.09, G:0.00, T:0.15
Consensus pattern (17 bp):
CAAAAAATAAATAAAAC
Found at i:37578713 original size:18 final size:19
Alignment explanation
Indices: 37578690--37578730 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
37578680 TTACAATACA
37578690 TTTATTTTA-TTATATCAT
1 TTTATTTTATTTATATCAT
*
37578708 TTTA-TTTATTTATATCTT
1 TTTATTTTATTTATATCAT
37578726 TTTAT
1 TTTAT
37578731 ATATTTTCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 4 0.20
18 16 0.80
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (19 bp):
TTTATTTTATTTATATCAT
Found at i:37578735 original size:18 final size:18
Alignment explanation
Indices: 37578699--37578736 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
37578689 ATTTATTTTA
*
37578699 TTATATCATTTTATTTAT
1 TTATATCATTTTATATAT
*
37578717 TTATATCTTTTTATATAT
1 TTATATCATTTTATATAT
37578735 TT
1 TT
37578737 TCAAACTCTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.68
Consensus pattern (18 bp):
TTATATCATTTTATATAT
Found at i:37578769 original size:3 final size:3
Alignment explanation
Indices: 37578748--37578831 Score: 116
Period size: 3 Copynumber: 27.7 Consensus size: 3
37578738 CAAACTCTAG
37578748 ATT ATTT ATT ATT CA-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT A-TT ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
** *
37578794 ATT ATT ATT ATT ATT ATT ATT ACC ATT ATC ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
37578832 CTTTTTAATT
Statistics
Matches: 72, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
2 1 0.01
3 67 0.93
4 4 0.06
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:37584639 original size:24 final size:20
Alignment explanation
Indices: 37584610--37584674 Score: 62
Period size: 19 Copynumber: 3.1 Consensus size: 20
37584600 AGATTACAAA
37584610 ATCATATCTTCCAAGATTGCATAT
1 ATCATATCTT--AAGATTGC--AT
37584634 ATCATATC-TAAGATTGCAT
1 ATCATATCTTAAGATTGCAT
* *
37584653 ATCATATC-TAGGATTTCAT
1 ATCATATCTTAAGATTGCAT
37584672 ATC
1 ATC
37584675 CTTGAAGATT
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
19 22 0.56
21 8 0.21
23 1 0.03
24 8 0.21
ACGTcount: A:0.34, C:0.18, G:0.09, T:0.38
Consensus pattern (20 bp):
ATCATATCTTAAGATTGCAT
Found at i:37584648 original size:21 final size:20
Alignment explanation
Indices: 37584596--37584667 Score: 74
Period size: 19 Copynumber: 3.5 Consensus size: 20
37584586 AAATTAAATC
* *
37584596 TCTAAGATTACAAAATCATA
1 TCTAAGATTGCAATATCATA
37584616 TCTTCCAAGATTGCATATATCATA
1 TC-T--AAGATTGCA-ATATCATA
37584640 TCTAAGATTGC-ATATCATA
1 TCTAAGATTGCAATATCATA
*
37584659 TCTAGGATT
1 TCTAAGATT
37584668 TCATATCCTT
Statistics
Matches: 45, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
19 16 0.36
20 2 0.04
21 9 0.20
23 9 0.20
24 9 0.20
ACGTcount: A:0.38, C:0.17, G:0.10, T:0.36
Consensus pattern (20 bp):
TCTAAGATTGCAATATCATA
Found at i:37584654 original size:19 final size:19
Alignment explanation
Indices: 37584622--37584674 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
37584612 CATATCTTCC
37584622 AAGATTGCATATATCATATCT
1 AAGATTGC--ATATCATATCT
37584643 AAGATTGCATATCATATCT
1 AAGATTGCATATCATATCT
* *
37584662 AGGATTTCATATC
1 AAGATTGCATATC
37584675 CTTGAAGATT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 22 0.73
21 8 0.27
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (19 bp):
AAGATTGCATATCATATCT
Found at i:37585097 original size:44 final size:43
Alignment explanation
Indices: 37585043--37585275 Score: 126
Period size: 44 Copynumber: 5.3 Consensus size: 43
37585033 TGCTGCAACT
*
37585043 CAGGGAGGCAAGACTGGTGTCTTCGATCTGCTTCGCTATCGGTG
1 CAGGAAGGCAAGACTGGTGTCTTCGATCTGCTTCGCT-TCGGTG
* * * ** * * ****
37585087 CAGTAAGGCAAGATCTGCTAT-TTTTATCTTGCTCCGCTGCAACC
1 CAGGAAGGCAAGA-CTGGTGTCTTCGATC-TGCTTCGCTTCGGTG
* *
37585131 CAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTG
1 CAGGAAGGCAAGACTGGTGTCTTCGATCTGCTTCGCT-TCGGTG
* * * * ** * * * ****
37585175 CAGGAAGACAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACC
1 CAGGAAGGCAAGA-CTGGTGTCTTCGATCTGCTTCGCTTCGGTG
* * * *
37585219 CAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCAGTA
1 CAGGAAGGCAAGACTGGTGTCTTCGATCTGCTTCGCT-TCGGTG
37585263 CAGGAAGGCAAGA
1 CAGGAAGGCAAGA
37585276 TCTGCTATTT
Statistics
Matches: 127, Mismatches: 56, Indels: 12
0.65 0.29 0.06
Matches are distributed among these distances:
43 30 0.24
44 67 0.53
45 30 0.24
ACGTcount: A:0.20, C:0.24, G:0.29, T:0.26
Consensus pattern (43 bp):
CAGGAAGGCAAGACTGGTGTCTTCGATCTGCTTCGCTTCGGTG
Found at i:37585187 original size:88 final size:88
Alignment explanation
Indices: 37585034--37586065 Score: 1153
Period size: 88 Copynumber: 11.8 Consensus size: 88
37585024 AACTTGATCT
* * * * * * *
37585034 GCTGCAACTCAGGGAGGCAAGACTGGTGTCTTCGATCTGCTTCGCTATCGGTGCAGTAAGGCAAG
1 GCTGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAG
* *
37585099 ATCTGCTATTTTTATCTTGCTCC
66 ATCTGCTATTTTTAACCTGCTCC
* * * *
37585122 GCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGACAAG
1 GCTGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAG
37585187 ATCTGCTATTTTTAACCTGCTCC
66 ATCTGCTATTTTTAACCTGCTCC
*
37585210 GCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAG
1 GCTGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAG
37585275 ATCTGCTATTTTTAACCTGCTCC
66 ATCTGCTATTTTTAACCTGCTCC
* *
37585298 GCTGCAACCCAGGGAGGCAAGGCTAGTGTCTTCAATCTGCTTCACTGTCAGTACAGGAAGGCAAG
1 GCTGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAG
*
37585363 ATCTGCTATCTTTAACCTGCTCC
66 ATCTGCTATTTTTAACCTGCTCC
* * * * ** * * *
37585386 GTTGCCACCGAGGGAGGCAACGCTAGTGTCTTTAATCTGCTTCACTGTTA-TACAGGAGGGCAAG
1 GCTGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAG
*
37585450 ATCTGCTATCTTTAACCTGCTCC
66 ATCTGCTATTTTTAACCTGCTCC
* * * ** * * * * *
37585473 ACTACCACTAAGGGAGGCAAGGCTGGTGTCTTCAATCTGCTTCACTATCAGTACAGAAAGGCAAG
1 GCTGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAG
* *
37585538 ATCTGCTATCTTTAACCTGCTTC
66 ATCTGCTATTTTTAACCTGCTCC
* * * * * * * *
37585561 GCTGCCACCGAGAGAGGCAAGGCTAGT-TCTTCAATCTGTTTCACTGTCAGTACAGGAAGGCGAT
1 GCTGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAG
* *
37585625 ATCTGCTATCTTTAACCTGCTTC
66 ATCTGCTATTTTTAACCTGCTCC
* * * * * * * * * **
37585648 GCTGCCACCGAGGGAGGCAAGGCTA---TCTTCGATCTACTCCACTACTC-CT-TAGGGAGATAA
1 GCTGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCGCT-GTCAGTACAGGAAGGCAA
* * * *
37585708 GATATG-TAATTTTCAACATGCTCT
65 GATCTGCT-ATTTTTAACCTGCTCC
* * * * * * *
37585732 GCTGTAACCCAAGGAGGCAAGGCTAGAGTCTTTGATCTGCTTCGTTGCCGGTACAGGAAGGCAAG
1 GCTGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAG
* *
37585797 ATCTGCTATTTTTAACCTACTCT
66 ATCTGCTATTTTTAACCTGCTCC
* * * * *
37585820 GCTGCAACCTAGGGAGTCTAGGCTAGTGTCTTCGATCTGCTTCGTTGTTAGTACAGGAAGGCAAG
1 GCTGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAG
*
37585885 ATCTGCTATTTTCAACCTGCTCC
66 ATCTGCTATTTTTAACCTGCTCC
* * * * * *
37585908 GCTGCAACCCAGTGAGGCAAGGTTAGTGTCTTCGATCTGCTTTGCTGTCGGTGCAGGAAGACAAG
1 GCTGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAG
* * *
37585973 AACTGCTATTTTTAATCTGTTCC
66 ATCTGCTATTTTTAACCTGCTCC
* * * * *
37585996 GCTACAACCCAGGGAGGCAAGGTTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAG
1 GCTGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAG
37586061 ATCTG
66 ATCTG
37586066 TTATCTTCAC
Statistics
Matches: 817, Mismatches: 118, Indels: 18
0.86 0.12 0.02
Matches are distributed among these distances:
83 1 0.00
84 42 0.05
85 15 0.02
86 3 0.00
87 169 0.21
88 586 0.72
89 1 0.00
ACGTcount: A:0.22, C:0.25, G:0.25, T:0.28
Consensus pattern (88 bp):
GCTGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAG
ATCTGCTATTTTTAACCTGCTCC
Found at i:37585316 original size:44 final size:44
Alignment explanation
Indices: 37585092--37585668 Score: 197
Period size: 44 Copynumber: 13.2 Consensus size: 44
37585082 CGGTGCAGTA
* * *
37585092 AGGCAAGATCTGCTATTTTTATCTTGCTCCGCTGCAACCCAGGG
1 AGGCAAGATCTGCTATCTTTAACCTGCTCCGCTGCAACCCAGGG
* * * ** * * **** *
37585136 AGGCAAG-GCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGA
1 AGGCAAGATCTGCTATCTTTAACCTGCTCCGCTG-CAACCCAGGG
* *
37585180 AGACAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCAGGG
1 AGGCAAGATCTGCTATCTTTAACCTGCTCCGCTGCAACCCAGGG
* * * ** * * *** *
37585224 AGGCAAG-GCTGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGA
1 AGGCAAGATCTGCTATCTTTAACCTGCTCCGCTG-CAACCCAGGG
*
37585268 AGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCAGGG
1 AGGCAAGATCTGCTATCTTTAACCTGCTCCGCTGCAACCCAGGG
* * * * * * *** *
37585312 AGGCAAG-GCTAG-TGTCTTCAATCTGCTTCACTGTCAGTACAGGA
1 AGGCAAGATCT-GCTATCTTTAACCTGCTCCGCTG-CAACCCAGGG
* * *
37585356 AGGCAAGATCTGCTATCTTTAACCTGCTCCGTTGCCACCGAGGG
1 AGGCAAGATCTGCTATCTTTAACCTGCTCCGCTGCAACCCAGGG
* * * * ** **
37585400 AGGCAACG--CTAG-TGTCTTTAATCTGCTTCACTGTTATACA-GG
1 AGGCAA-GATCT-GCTATCTTTAACCTGCTCCGCTGCAACCCAGGG
* * * **
37585442 AGGGCAAGATCTGCTATCTTTAACCTGCTCCACTACCACTAAGGG
1 A-GGCAAGATCTGCTATCTTTAACCTGCTCCGCTGCAACCCAGGG
* * * * * * * * *** **
37585487 AGGCAAG-GCTGGTGTCTTCAATCTGCTTCACTATCAGTACAGAA
1 AGGCAAGATCTGCTATCTTTAACCTGCTCCGCT-GCAACCCAGGG
* * * *
37585531 AGGCAAGATCTGCTATCTTTAACCTGCTTCGCTGCCACCGAGAG
1 AGGCAAGATCTGCTATCTTTAACCTGCTCCGCTGCAACCCAGGG
* * * * * * *** *
37585575 AGGCAAG-GCTAG-T-TCTTCAATCTGTTTCACTGTCAGTACAGGA
1 AGGCAAGATCT-GCTATCTTTAACCTGCTCCGCTG-CAACCCAGGG
* * * * *
37585618 AGGCGATATCTGCTATCTTTAACCTGCTTCGCTGCCACCGAGGG
1 AGGCAAGATCTGCTATCTTTAACCTGCTCCGCTGCAACCCAGGG
37585662 AGGCAAG
1 AGGCAAG
37585669 GCTATCTTCG
Statistics
Matches: 360, Mismatches: 151, Indels: 44
0.65 0.27 0.08
Matches are distributed among these distances:
42 19 0.05
43 108 0.30
44 142 0.39
45 91 0.25
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.27
Consensus pattern (44 bp):
AGGCAAGATCTGCTATCTTTAACCTGCTCCGCTGCAACCCAGGG
Found at i:37595199 original size:4 final size:4
Alignment explanation
Indices: 37595192--37595225 Score: 68
Period size: 4 Copynumber: 8.5 Consensus size: 4
37595182 TTTATTTGTG
37595192 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT AT
1 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT AT
37595226 ATATATATAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.26, C:0.24, G:0.00, T:0.50
Consensus pattern (4 bp):
ATCT
Found at i:37599838 original size:110 final size:110
Alignment explanation
Indices: 37599577--37599979 Score: 627
Period size: 110 Copynumber: 3.7 Consensus size: 110
37599567 ATATTTGGCA
37599577 TTTGGAAATAT-GAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTTCTCGTTCAACCAAATA
1 TTTGGAAAT-TCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTTCTCGTTCAACCAAATA
*
37599641 GCTAAATATCCTTTTTTAAAAATTTCAAAATAAGGCAATGTTTTGCG
65 GCTAAATATCC-TTTTAAAAAATTTCAAAATAAGGCAATGTTTTGCG
37599688 TTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTTCTCGTTCAACCAAATAG
1 TTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTTCTCGTTCAACCAAATAG
37599753 CTAAATATCCTTTTAAAAAATTTCAAAATAAGGCAATGTTTTGCG
66 CTAAATATCCTTTTAAAAAATTTCAAAATAAGGCAATGTTTTGCG
* * *
37599798 TTTGGGAATTCAAGAAAACGTTCCCTAATGTGCTGGGTTTCGATTTTTCTCGTTCAACCAAATAG
1 TTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTTCTCGTTCAACCAAATAG
**
37599863 CTAAATATCC-TTCCAAAAATTTCAAAATAAGGCAATGTTTTGCG
66 CTAAATATCCTTTTAAAAAATTTCAAAATAAGGCAATGTTTTGCG
* * * * * * *
37599907 TTTAGAAATTTGAG-GAACGTGCCCTAATATGCTGGGTTTC-A-ATTTCTCGTTGAACCAAATTG
1 TTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTTCTCGTTCAACCAAATAG
*
37599969 CCAAATATCCT
66 CTAAATATCCT
37599980 CTTGAATTTT
Statistics
Matches: 273, Mismatches: 17, Indels: 8
0.92 0.06 0.03
Matches are distributed among these distances:
106 27 0.10
107 1 0.00
108 23 0.08
109 42 0.15
110 107 0.39
111 73 0.27
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.35
Consensus pattern (110 bp):
TTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTTCTCGTTCAACCAAATAG
CTAAATATCCTTTTAAAAAATTTCAAAATAAGGCAATGTTTTGCG
Found at i:37605189 original size:44 final size:43
Alignment explanation
Indices: 37605053--37605193 Score: 203
Period size: 43 Copynumber: 3.3 Consensus size: 43
37605043 AAAAGGGCGG
37605053 CTCAAATTTTGGAACAAAATGGGGCACGAAGTGATCAGAGCGA
1 CTCAAATTTTGGAACAAAATGGGGCACGAAGTGATCAGAGCGA
37605096 CTCAAATTTTGGAACAAAATGGGGCACGAAGTGATCAGAGCGA
1 CTCAAATTTTGGAACAAAATGGGGCACGAAGTGATCAGAGCGA
* * * * * *
37605139 CTCAAATTTTGGATCAAATTGGGGTATGATGGTGATCAGAAC-A
1 CTCAAATTTTGGAACAAAATGGGGCACGA-AGTGATCAGAGCGA
37605182 GCTCAAATTTTG
1 -CTCAAATTTTG
37605194 ATCAGATCGG
Statistics
Matches: 90, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
43 69 0.77
44 21 0.23
ACGTcount: A:0.35, C:0.15, G:0.26, T:0.24
Consensus pattern (43 bp):
CTCAAATTTTGGAACAAAATGGGGCACGAAGTGATCAGAGCGA
Found at i:37606496 original size:50 final size:49
Alignment explanation
Indices: 37606339--37606773 Score: 321
Period size: 50 Copynumber: 8.7 Consensus size: 49
37606329 TTTTCAATTT
* * * * *
37606339 AAAATATTGAAGCCACAACGGCGAATCTTATTTCCTAGGCAATGCAGCAG
1 AAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGC-ATGCAACTG
* * * * * * ** * *
37606389 AACAGATTGAAGTCACAACAGCAAATCTTGCTTCCCCGATATTGCAATTC
1 AAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCA-TGCAACTG
* *
37606439 AAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCGG
1 AAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGC-ATGCAACTG
* * * * * * * * * *
37606489 AACAGATTGAAGCTACGACGGTGAATCTCACTTCCCCGACATCGTAATTT
1 AAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCAT-GCAACTG
* * *
37606539 AAAATATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCGG
1 AAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGC-ATGCAACTG
* * * * * * * * *
37606589 AACAGATTGAAGCTACGATGGCGAATCTCACTTCCCCGACATTGCAATTC
1 AAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCA-TGCAACTG
* * *
37606639 AAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCAGGCGATGCAGCAG
1 AAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGC-ATGCAACTG
* * * * * * * * *
37606689 AACAGATTGAAGCTACGACGACGAATCTCACTTCCCCGACATTGCAATTT
1 AAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCA-TGCAACTG
**
37606739 AAAAGATTGAAGCCACAACAACGAATCTTACTTCC
1 AAAAGATTGAAGCCACAACGGCGAATCTTACTTCC
37606774 TCGGCGAACA
Statistics
Matches: 285, Mismatches: 93, Indels: 14
0.73 0.24 0.04
Matches are distributed among these distances:
49 5 0.02
50 276 0.97
51 4 0.01
ACGTcount: A:0.33, C:0.26, G:0.19, T:0.22
Consensus pattern (49 bp):
AAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCATGCAACTG
Found at i:37606516 original size:100 final size:100
Alignment explanation
Indices: 37606333--37606773 Score: 659
Period size: 100 Copynumber: 4.4 Consensus size: 100
37606323 CCATAGTTTT
* * * *
37606333 CAATTTAAAATATTGAAGCCACAACGGCGAATCTTATTTCCTAGGCAATGCAGCAGAACAGATTG
1 CAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCAGAACAGATTG
* * * ** *
37606398 AAG-TCACAACAGCAAATCTTGCTTCCCCGATATTG
66 AAGCT-ACGACGGCGAATCTCACTTCCCCGACATTG
* *
37606433 CAATTCAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCGGAACAGATTG
1 CAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCAGAACAGATTG
* *
37606498 AAGCTACGACGGTGAATCTCACTTCCCCGACATCG
66 AAGCTACGACGGCGAATCTCACTTCCCCGACATTG
* * *
37606533 TAATTTAAAATATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCGGAACAGATTG
1 CAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCAGAACAGATTG
*
37606598 AAGCTACGATGGCGAATCTCACTTCCCCGACATTG
66 AAGCTACGACGGCGAATCTCACTTCCCCGACATTG
* *
37606633 CAATTCAAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCAGGCGATGCAGCAGAACAGATTG
1 CAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCAGAACAGATTG
*
37606698 AAGCTACGACGACGAATCTCACTTCCCCGACATTG
66 AAGCTACGACGGCGAATCTCACTTCCCCGACATTG
**
37606733 CAATTTAAAAGATTGAAGCCACAACAACGAATCTTACTTCC
1 CAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCC
37606774 TCGGCGAACA
Statistics
Matches: 309, Mismatches: 31, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
100 308 1.00
101 1 0.00
ACGTcount: A:0.33, C:0.26, G:0.19, T:0.22
Consensus pattern (100 bp):
CAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCAGAACAGATTG
AAGCTACGACGGCGAATCTCACTTCCCCGACATTG
Found at i:37609724 original size:111 final size:110
Alignment explanation
Indices: 37609529--37609938 Score: 659
Period size: 110 Copynumber: 3.8 Consensus size: 110
37609519 AGAGGGAATA
*
37609529 TTTTGCATTTGGAAATAT-GAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTTCTCGTTCAA
1 TTTTGCGTTTGGAAAT-TCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTTCTCGTTCAA
37609593 CCAAATAGCTAAATATCCTTTTTAAAAAATTTCAAAATAAGGCAATG
65 CCAAATAGCTAAATATCC-TTTTAAAAAATTTCAAAATAAGGCAATG
* *
37609640 TTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGTTGGGTTTCAATTTTTCTCGTTCAAC
1 TTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTTCTCGTTCAAC
*
37609705 CAAATAGCTAAATACCCTTTTAAAAAATTTCAAAATAAGGCAATG
66 CAAATAGCTAAATATCCTTTTAAAAAATTTCAAAATAAGGCAATG
*
37609750 TTTTGCGTTTGGGAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTTCTCGTTCAAC
1 TTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTTCTCGTTCAAC
**
37609815 CAAATAGCTAAATATCC-TTCCAAAAATTTCAAAATAAGGCAATG
66 CAAATAGCTAAATATCCTTTTAAAAAATTTCAAAATAAGGCAATG
* * *
37609859 CTTTGCGTTTGGAAATTCGAG-GAACGTGCCCTAATGTGCTGGGTTTCGA--TTTCTCGTTGAAC
1 TTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTTCTCGTTCAAC
* *
37609921 CAAATTGCCAAATATCCT
66 CAAATAGCTAAATATCCT
37609939 CTTGAATTTT
Statistics
Matches: 281, Mismatches: 16, Indels: 8
0.92 0.05 0.03
Matches are distributed among these distances:
106 27 0.10
108 27 0.10
109 44 0.16
110 107 0.38
111 76 0.27
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (110 bp):
TTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTTCTCGTTCAAC
CAAATAGCTAAATATCCTTTTAAAAAATTTCAAAATAAGGCAATG
Found at i:37609804 original size:221 final size:216
Alignment explanation
Indices: 37609529--37609934 Score: 652
Period size: 221 Copynumber: 1.9 Consensus size: 216
37609519 AGAGGGAATA
37609529 TTTTGCATTTGGAAATATGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTTCTCGTTCAAC
1 TTTTGCATTTGGAAATATGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTTCTCGTTCAAC
* *
37609594 CAAATAGCTAAATATCCTTTTTAAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCG
66 CAAATAGCTAAATATCC--TTCAAAAAATTTCAAAATAAGGCAATGCTTTGCGTTTGGAAATTCG
* *
37609659 AGAAAACGTGCCCTAATGTGTTGGGTTTCAATTTTTCTCGTTCAACCAAATAGCTAAATACCCTT
129 AG-AAACGTGCCCTAATGTGCTGGGTTTCAA--TTTCTCGTTCAACCAAATAGCCAAATACCCTT
37609724 TTAAAAAATTTCAAAATAAGGCAATG
191 TTAAAAAATTTCAAAATAAGGCAATG
* *
37609750 TTTTGCGTTTGGGAAT-TCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTTCTCGTTCAA
1 TTTTGCATTTGGAAATAT-GAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTTCTCGTTCAA
*
37609814 CCAAATAGCTAAATATCCTTCCAAAAATTTCAAAATAAGGCAATGCTTTGCGTTTGGAAATTCGA
65 CCAAATAGCTAAATATCCTTCAAAAAATTTCAAAATAAGGCAATGCTTTGCGTTTGGAAATTCGA
* * * *
37609879 GGAACGTGCCCTAATGTGCTGGGTTTCGATTTCTCGTTGAACCAAATTGCCAAATA
130 GAAACGTGCCCTAATGTGCTGGGTTTCAATTTCTCGTTCAACCAAATAGCCAAATA
37609935 TCCTCTTGAA
Statistics
Matches: 173, Mismatches: 11, Indels: 7
0.91 0.06 0.04
Matches are distributed among these distances:
216 24 0.14
218 25 0.14
219 45 0.26
220 1 0.01
221 78 0.45
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Consensus pattern (216 bp):
TTTTGCATTTGGAAATATGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTTCTCGTTCAAC
CAAATAGCTAAATATCCTTCAAAAAATTTCAAAATAAGGCAATGCTTTGCGTTTGGAAATTCGAG
AAACGTGCCCTAATGTGCTGGGTTTCAATTTCTCGTTCAACCAAATAGCCAAATACCCTTTTAAA
AAATTTCAAAATAAGGCAATG
Found at i:37614765 original size:11 final size:11
Alignment explanation
Indices: 37614752--37614853 Score: 58
Period size: 11 Copynumber: 9.6 Consensus size: 11
37614742 AATAAAAAAA
37614752 TTTAAAAAGTAT
1 TTTAAAAA-TAT
* *
37614764 TTTAAAAACAC
1 TTTAAAAATAT
37614775 TTTAAAAATA-
1 TTTAAAAATAT
37614785 ---AAAAAGTAT
1 TTTAAAAA-TAT
37614794 TTTAAAAATAT
1 TTTAAAAATAT
37614805 TTT--AAA-A-
1 TTTAAAAATAT
* *
37614812 TTAAAAAATAAA
1 TTTAAAAAT-AT
**
37614824 AATAAAAAGTAT
1 TTTAAAAA-TAT
37614836 TTTAAAAATAT
1 TTTAAAAATAT
37614847 TTTAAAA
1 TTTAAAA
37614854 TTAAAAAATA
Statistics
Matches: 69, Mismatches: 10, Indels: 23
0.68 0.10 0.23
Matches are distributed among these distances:
7 7 0.10
8 3 0.04
9 6 0.09
11 27 0.39
12 25 0.36
13 1 0.01
ACGTcount: A:0.60, C:0.02, G:0.03, T:0.35
Consensus pattern (11 bp):
TTTAAAAATAT
Found at i:37614791 original size:30 final size:30
Alignment explanation
Indices: 37614755--37614819 Score: 103
Period size: 30 Copynumber: 2.2 Consensus size: 30
37614745 AAAAAAATTT
37614755 AAAAAGTATTTTAAAAACACTTTAAAAATA
1 AAAAAGTATTTTAAAAACACTTTAAAAATA
* * *
37614785 AAAAAGTATTTTAAAAATATTTTAAAATTA
1 AAAAAGTATTTTAAAAACACTTTAAAAATA
37614815 AAAAA
1 AAAAA
37614820 TAAAAATAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (30 bp):
AAAAAGTATTTTAAAAACACTTTAAAAATA
Found at i:37614819 original size:37 final size:37
Alignment explanation
Indices: 37614739--37614912 Score: 203
Period size: 42 Copynumber: 4.5 Consensus size: 37
37614729 ATTTTATTTT
*
37614739 AAAAATAAAAAA--A-TTTAAAAAGTATTTTAAAAACACTTT
1 AAAAATAAAAAAGTATTTTAAAAA-TATTTT--AAA-A-TTA
37614778 AAAAATAAAAAAGTATTTTAAAAATATTTTAAAATTA
1 AAAAATAAAAAAGTATTTTAAAAATATTTTAAAATTA
37614815 AAAAATAAAAATAAAAAGTATTTTAAAAATATTTTAAAATTA
1 AAAAAT----A-AAAAAGTATTTTAAAAATATTTTAAAATTA
*
37614857 AAAAATAAAAAAGTATTTTTAAAATATTTTAAAATTAA
1 AAAAATAAAAAAGTATTTTAAAAATATTTTAAAATT-A
37614895 AAAAATAAAAAA-TATTTT
1 AAAAATAAAAAAGTATTTT
37614913 TTATATTCGG
Statistics
Matches: 124, Mismatches: 2, Indels: 20
0.85 0.01 0.14
Matches are distributed among these distances:
37 42 0.34
38 15 0.12
39 15 0.12
41 8 0.06
42 44 0.35
ACGTcount: A:0.63, C:0.01, G:0.02, T:0.34
Consensus pattern (37 bp):
AAAAATAAAAAAGTATTTTAAAAATATTTTAAAATTA
Found at i:37614874 original size:79 final size:82
Alignment explanation
Indices: 37614738--37614905 Score: 247
Period size: 79 Copynumber: 2.1 Consensus size: 82
37614728 AATTTTATTT
*
37614738 TAAAAATAAAAAAATTTAAAAAGTATTTTAAAAACACTTTAAAAATAAAAAAGTATTTTAAAAAT
1 TAAAAATAAAAAAATTTAAAAAGTATTTT-AAAACACTTAAAAAATAAAAAAGTATTTTAAAAAT
37614803 ATTTTAAAATT-AAAAAA
65 ATTTTAAAATTAAAAAAA
* *
37614820 TAAAAATAAAAAGTATTTTAAAAA-TATTTT-AAA-A-TTAAAAAATAAAAAAGTATTTTTAAAA
1 TAAAAATAAAAA--AATTTAAAAAGTATTTTAAAACACTTAAAAAATAAAAAAGTATTTTAAAAA
37614881 TATTTTAAAATTAAAAAAA
64 TATTTTAAAATTAAAAAAA
37614900 TAAAAA
1 TAAAAA
37614906 ATATTTTTTA
Statistics
Matches: 80, Mismatches: 3, Indels: 8
0.88 0.03 0.09
Matches are distributed among these distances:
79 37 0.46
80 13 0.16
81 3 0.04
82 12 0.15
83 6 0.08
84 9 0.11
ACGTcount: A:0.64, C:0.01, G:0.02, T:0.33
Consensus pattern (82 bp):
TAAAAATAAAAAAATTTAAAAAGTATTTTAAAACACTTAAAAAATAAAAAAGTATTTTAAAAATA
TTTTAAAATTAAAAAAA
Found at i:37614913 original size:37 final size:38
Alignment explanation
Indices: 37614778--37614912 Score: 202
Period size: 37 Copynumber: 3.5 Consensus size: 38
37614768 AAAACACTTT
37614778 AAAAATAAAAAAGTATTTTAAAAATATTTTAAAATTAAAA
1 AAAAATAAAAAAGTATTTTAAAAATATTTTAAAATT--AA
*
37614818 AATAAAAATAAAAAGTATTTTAAAAATATTTTAAAATT-A
1 AA-AAATA-AAAAAGTATTTTAAAAATATTTTAAAATTAA
*
37614857 AAAAATAAAAAAGTATTTTTAAAATATTTTAAAATTAA
1 AAAAATAAAAAAGTATTTTAAAAATATTTTAAAATTAA
37614895 AAAAATAAAAAA-TATTTT
1 AAAAATAAAAAAGTATTTT
37614913 TTATATTCGG
Statistics
Matches: 89, Mismatches: 3, Indels: 9
0.88 0.03 0.09
Matches are distributed among these distances:
37 34 0.38
38 17 0.19
39 3 0.03
40 2 0.02
41 4 0.04
42 29 0.33
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (38 bp):
AAAAATAAAAAAGTATTTTAAAAATATTTTAAAATTAA
Found at i:37616727 original size:16 final size:16
Alignment explanation
Indices: 37616706--37616774 Score: 120
Period size: 16 Copynumber: 4.2 Consensus size: 16
37616696 TTTGGTTCGC
37616706 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
37616722 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
37616738 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
*
37616755 TGTATTGGATTAGTGG
1 TGTATTGGATTAGAGG
37616771 TGTA
1 TGTA
37616775 ATAGCTAATC
Statistics
Matches: 51, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
16 35 0.69
17 16 0.31
ACGTcount: A:0.23, C:0.00, G:0.38, T:0.39
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:37616752 original size:33 final size:32
Alignment explanation
Indices: 37616706--37616774 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 32
37616696 TTTGGTTCGC
37616706 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
*
37616738 TGTATTGGGATTAGAGGTGTATTGGATTAGTGG
1 TGTATT-GGATTAGAGGTGTATTGGATTAGAGG
37616771 TGTA
1 TGTA
37616775 ATAGCTAATC
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 6 0.17
33 29 0.83
ACGTcount: A:0.23, C:0.00, G:0.38, T:0.39
Consensus pattern (32 bp):
TGTATTGGATTAGAGGTGTATTGGATTAGAGG
Found at i:37625124 original size:56 final size:57
Alignment explanation
Indices: 37625006--37625136 Score: 165
Period size: 56 Copynumber: 2.3 Consensus size: 57
37624996 TAATTCATAT
* * * * * *
37625006 AATAATTATATTAAGGATGTTATTAAATTATATATTATTTTATTAAATTGTATTTAAT
1 AATAATTATATTAA-AATATGATTAAATTATATATTATTTTATTAAAATATATTTAAC
* *
37625064 AATAATTATGTTAAAATATGATTAAATTATTTATTA-TTTATTAAAATATATTTAAC
1 AATAATTATATTAAAATATGATTAAATTATATATTATTTTATTAAAATATATTTAAC
*
37625120 AATAATTTTATTAAAAT
1 AATAATTATATTAAAAT
37625137 TTAATAACAA
Statistics
Matches: 63, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
56 32 0.51
57 18 0.29
58 13 0.21
ACGTcount: A:0.45, C:0.01, G:0.05, T:0.50
Consensus pattern (57 bp):
AATAATTATATTAAAATATGATTAAATTATATATTATTTTATTAAAATATATTTAAC
Found at i:37625144 original size:25 final size:26
Alignment explanation
Indices: 37625100--37625149 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
37625090 TTATTTATTA
*
37625100 TTTATTAAAATATATTTAACAATAAT
1 TTTATTAAAATATATATAACAATAAT
*
37625126 TTTATTAAAATTTA-ATAACAATAA
1 TTTATTAAAATATATATAACAATAA
37625150 CAATAATCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 9 0.41
26 13 0.59
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (26 bp):
TTTATTAAAATATATATAACAATAAT
Found at i:37625330 original size:16 final size:16
Alignment explanation
Indices: 37625309--37625360 Score: 70
Period size: 16 Copynumber: 3.2 Consensus size: 16
37625299 TAAATTACTG
37625309 ATTACAGCTCTATTTC
1 ATTACAGCTCTATTTC
*
37625325 ATTACAACTCTA-TTC
1 ATTACAGCTCTATTTC
*
37625340 AATTACAGCTCTATTCC
1 -ATTACAGCTCTATTTC
37625357 ATTA
1 ATTA
37625361 GATTGAACCA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
15 3 0.10
16 26 0.84
17 2 0.06
ACGTcount: A:0.31, C:0.25, G:0.04, T:0.40
Consensus pattern (16 bp):
ATTACAGCTCTATTTC
Found at i:37630535 original size:228 final size:228
Alignment explanation
Indices: 37630138--37631485 Score: 2153
Period size: 228 Copynumber: 5.9 Consensus size: 228
37630128 CTCTCCAAAG
* * * *
37630138 ATGCAGATCTTCGTCAAAACCCTT-ACCGGCAAGACCATCACCCTCGAGGTTGAGAGTTCTGACA
1 ATGCAGATCTTCGTCAAAA-CCTTAACCGGCAAGACCATCACCCTCGAAGTCGAGAGCTCCGACA
* *
37630202 CCATCGACAATGTGAAGTCTAAAATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAGCGTCTC
65 CCATCGATAATGTGAAGTCTAAAATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAGCGTCTT
37630267 ATCTTCGCCGGAAAACAGCTCGAGGACGGCCGTACCTTGGCCGATTACAACATCCAGAAGGAATC
130 ATCTTCGCCGGAAAACAGCTCGAGGACGGCCGTACCTTGGCCGATTACAACATCCAGAAGGAATC
37630332 TACCCTCCACCTTGTCCTCCGTCTTCGTGGGGGT
195 TACCCTCCACCTTGTCCTCCGTCTTCGTGGGGGT
37630366 ATGCAGATCTTCGTCAAAACCTTAACCGGCAAGACCATCACCCTCGAAGTCGAGAGCTCCGACAC
1 ATGCAGATCTTCGTCAAAACCTTAACCGGCAAGACCATCACCCTCGAAGTCGAGAGCTCCGACAC
37630431 CATCGATAATGTGAAGTCTAAAATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAGCGTCTTA
66 CATCGATAATGTGAAGTCTAAAATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAGCGTCTTA
37630496 TCTTCGCCGGAAAACAGCTCGAGGACGGCCGTACCTTGGCCGATTACAACATCCAGAAGGAATCT
131 TCTTCGCCGGAAAACAGCTCGAGGACGGCCGTACCTTGGCCGATTACAACATCCAGAAGGAATCT
37630561 ACCCTCCACCTTGTCCTCCGTCTTCGTGGGGGT
196 ACCCTCCACCTTGTCCTCCGTCTTCGTGGGGGT
37630594 ATGCAGATCTTCGTCAAAACCTTAACCGGCAAGACCATCACCCTCGAAGTCGAGAGCTCCGACAC
1 ATGCAGATCTTCGTCAAAACCTTAACCGGCAAGACCATCACCCTCGAAGTCGAGAGCTCCGACAC
37630659 CATCGATAATGTGAAGTCTAAAATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAGCGTCTTA
66 CATCGATAATGTGAAGTCTAAAATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAGCGTCTTA
37630724 TCTTCGCCGGAAAACAGCTCGAGGACGGCCGTACCTTGGCCGATTACAACATCCAGAAGGAATCT
131 TCTTCGCCGGAAAACAGCTCGAGGACGGCCGTACCTTGGCCGATTACAACATCCAGAAGGAATCT
37630789 ACCCTCCACCTTGTCCTCCGTCTTCGT-GGGGT
196 ACCCTCCACCTTGTCCTCCGTCTTCGTGGGGGT
37630821 ATGCAGATCTTCGTCAAAACCTTAACCGGCAAGACCATCACCCTCGAAGTCGAGAGCTCCGACAC
1 ATGCAGATCTTCGTCAAAACCTTAACCGGCAAGACCATCACCCTCGAAGTCGAGAGCTCCGACAC
37630886 CATCGATAATGTGAAGTCTAAAATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAGCGTCTTA
66 CATCGATAATGTGAAGTCTAAAATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAGCGTCTTA
*
37630951 TCTTCGCCGGAAAACAGCTCGAGGACGGCCGTACCTTGGCCGATTACAACATCCAGAAGGAATCC
131 TCTTCGCCGGAAAACAGCTCGAGGACGGCCGTACCTTGGCCGATTACAACATCCAGAAGGAATCT
* *
37631016 ACCCTCCACCTTGTCTTACGTCTTCGTGGGGGT
196 ACCCTCCACCTTGTCCTCCGTCTTCGTGGGGGT
* *
37631049 ATGCAGATCTTCGTCAAAACTTTAACCGGCAAGACCATCACCCTCGAAGTCGAGAGCTCTGACAC
1 ATGCAGATCTTCGTCAAAACCTTAACCGGCAAGACCATCACCCTCGAAGTCGAGAGCTCCGACAC
* *
37631114 CATCGATAATGTAAAGTCTAAAATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAGCGTCTCA
66 CATCGATAATGTGAAGTCTAAAATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAGCGTCTTA
* * * * * * * * *
37631179 TCTTCGCCGGCAAACAGCTCGAAGATGGCCGTACCCTGGCCGATTATAATATCGAGAAGGAAGCC
131 TCTTCGCCGGAAAACAGCTCGAGGACGGCCGTACCTTGGCCGATTACAACATCCAGAAGGAATCT
* * *
37631244 ACCCTCCACCTCGTCCTCCGTCTTCGCGGGGGA
196 ACCCTCCACCTTGTCCTCCGTCTTCGTGGGGGT
* * * * * * * *
37631277 ATGCAGATCTTCGTGAAAACCTTGACCGGCAAGACCATCACCTTGGAGGTGGAGAGTTCGGACAC
1 ATGCAGATCTTCGTCAAAACCTTAACCGGCAAGACCATCACCCTCGAAGTCGAGAGCTCCGACAC
* * * * * * * * * *
37631342 CATCGACAATGTAAAGGCGAAGATTCAGGACAAGGAAGGGATCCCGCCAGACCAACAACGT-TTG
66 CATCGATAATGTGAAGTCTAAAATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAGCGTCTT-
* * * * * * ** * * *
37631406 ATCTTTGCAGGGAAGCAGCTTGAGGATGGGAGGACCTTGGCTGATTATAACATCCAGAAGGAATC
130 ATCTTCGCCGGAAAACAGCTCGAGGACGGCCGTACCTTGGCCGATTACAACATCCAGAAGGAATC
* *
37631471 GACCCTTCACCTTGT
195 TACCCTCCACCTTGT
37631486 TTTGAGGCTT
Statistics
Matches: 1055, Mismatches: 62, Indels: 6
0.94 0.06 0.01
Matches are distributed among these distances:
227 229 0.22
228 826 0.78
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.20
Consensus pattern (228 bp):
ATGCAGATCTTCGTCAAAACCTTAACCGGCAAGACCATCACCCTCGAAGTCGAGAGCTCCGACAC
CATCGATAATGTGAAGTCTAAAATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAGCGTCTTA
TCTTCGCCGGAAAACAGCTCGAGGACGGCCGTACCTTGGCCGATTACAACATCCAGAAGGAATCT
ACCCTCCACCTTGTCCTCCGTCTTCGTGGGGGT
Found at i:37631024 original size:455 final size:455
Alignment explanation
Indices: 37630138--37631485 Score: 2160
Period size: 455 Copynumber: 3.0 Consensus size: 455
37630128 CTCTCCAAAG
* * *
37630138 ATGCAGATCTTCGTCAAAACCCTT-ACCGGCAAGACCATCACCCTCGAGGTTGAGAGTTCTGACA
1 ATGCAGATCTTCGTCAAAA-CCTTAACCGGCAAGACCATCACCCTCGAAGTCGAGAGCTCTGACA
*
37630202 CCATCGACAATGTGAAGTCTAAAATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAGCGTCTC
65 CCATCGATAATGTGAAGTCTAAAATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAGCGTCTC
37630267 ATCTTCGCCGGAAAACAGCTCGAGGACGGCCGTACCTTGGCCGATTACAACATCCAGAAGGAATC
130 ATCTTCGCCGGAAAACAGCTCGAGGACGGCCGTACCTTGGCCGATTACAACATCCAGAAGGAATC
37630332 TACCCTCCACCTTGTCCTCCGTCTTCGTGGGGGTATGCAGATCTTCGTCAAAACCTTAACCGGCA
195 TACCCTCCACCTTGTCCTCCGTCTTCGT-GGGGTATGCAGATCTTCGTCAAAACCTTAACCGGCA
37630397 AGACCATCACCCTCGAAGTCGAGAGCTCCGACACCATCGATAATGTGAAGTCTAAAATTCAAGAC
259 AGACCATCACCCTCGAAGTCGAGAGCTCCGACACCATCGATAATGTGAAGTCTAAAATTCAAGAC
37630462 AAGGAAGGCATCCCACCAGACCAGCAGCGTCTTATCTTCGCCGGAAAACAGCTCGAGGACGGCCG
324 AAGGAAGGCATCCCACCAGACCAGCAGCGTCTTATCTTCGCCGGAAAACAGCTCGAGGACGGCCG
* *
37630527 TACCTTGGCCGATTACAACATCCAGAAGGAATCTACCCTCCACCTTGTCCTCCGTCTTCGTGGGG
389 TACCTTGGCCGATTACAACATCCAGAAGGAATCCACCCTCCACCTTGTCCTACGTCTTCGTGGGG
37630592 GT
454 GT
*
37630594 ATGCAGATCTTCGTCAAAACCTTAACCGGCAAGACCATCACCCTCGAAGTCGAGAGCTCCGACAC
1 ATGCAGATCTTCGTCAAAACCTTAACCGGCAAGACCATCACCCTCGAAGTCGAGAGCTCTGACAC
*
37630659 CATCGATAATGTGAAGTCTAAAATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAGCGTCTTA
66 CATCGATAATGTGAAGTCTAAAATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAGCGTCTCA
37630724 TCTTCGCCGGAAAACAGCTCGAGGACGGCCGTACCTTGGCCGATTACAACATCCAGAAGGAATCT
131 TCTTCGCCGGAAAACAGCTCGAGGACGGCCGTACCTTGGCCGATTACAACATCCAGAAGGAATCT
37630789 ACCCTCCACCTTGTCCTCCGTCTTCGTGGGGTATGCAGATCTTCGTCAAAACCTTAACCGGCAAG
196 ACCCTCCACCTTGTCCTCCGTCTTCGTGGGGTATGCAGATCTTCGTCAAAACCTTAACCGGCAAG
37630854 ACCATCACCCTCGAAGTCGAGAGCTCCGACACCATCGATAATGTGAAGTCTAAAATTCAAGACAA
261 ACCATCACCCTCGAAGTCGAGAGCTCCGACACCATCGATAATGTGAAGTCTAAAATTCAAGACAA
37630919 GGAAGGCATCCCACCAGACCAGCAGCGTCTTATCTTCGCCGGAAAACAGCTCGAGGACGGCCGTA
326 GGAAGGCATCCCACCAGACCAGCAGCGTCTTATCTTCGCCGGAAAACAGCTCGAGGACGGCCGTA
*
37630984 CCTTGGCCGATTACAACATCCAGAAGGAATCCACCCTCCACCTTGTCTTACGTCTTCGTGGGGGT
391 CCTTGGCCGATTACAACATCCAGAAGGAATCCACCCTCCACCTTGTCCTACGTCTTCGTGGGGGT
*
37631049 ATGCAGATCTTCGTCAAAACTTTAACCGGCAAGACCATCACCCTCGAAGTCGAGAGCTCTGACAC
1 ATGCAGATCTTCGTCAAAACCTTAACCGGCAAGACCATCACCCTCGAAGTCGAGAGCTCTGACAC
*
37631114 CATCGATAATGTAAAGTCTAAAATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAGCGTCTCA
66 CATCGATAATGTGAAGTCTAAAATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAGCGTCTCA
* * * * * * * * *
37631179 TCTTCGCCGGCAAACAGCTCGAAGATGGCCGTACCCTGGCCGATTATAATATCGAGAAGGAAGCC
131 TCTTCGCCGGAAAACAGCTCGAGGACGGCCGTACCTTGGCCGATTACAACATCCAGAAGGAATCT
* * * * *
37631244 ACCCTCCACCTCGTCCTCCGTCTTCGCGGGGGAATGCAGATCTTCGTGAAAACCTTGACCGGCAA
196 ACCCTCCACCTTGTCCTCCGTCTTCG-TGGGGTATGCAGATCTTCGTCAAAACCTTAACCGGCAA
* * * * * * * * * * * *
37631309 GACCATCACCTTGGAGGTGGAGAGTTCGGACACCATCGACAATGTAAAGGCGAAGATTCAGGACA
260 GACCATCACCCTCGAAGTCGAGAGCTCCGACACCATCGATAATGTGAAGTCTAAAATTCAAGACA
* * * * * * * * * * **
37631374 AGGAAGGGATCCCGCCAGACCAACAACGT-TTGATCTTTGCAGGGAAGCAGCTTGAGGATGGGAG
325 AGGAAGGCATCCCACCAGACCAGCAGCGTCTT-ATCTTCGCCGGAAAACAGCTCGAGGACGGCCG
* * * * *
37631438 GACCTTGGCTGATTATAACATCCAGAAGGAATCGACCCTTCACCTTGT
389 TACCTTGGCCGATTACAACATCCAGAAGGAATCCACCCTCCACCTTGT
37631486 TTTGAGGCTT
Statistics
Matches: 833, Mismatches: 56, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
455 443 0.53
456 390 0.47
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.20
Consensus pattern (455 bp):
ATGCAGATCTTCGTCAAAACCTTAACCGGCAAGACCATCACCCTCGAAGTCGAGAGCTCTGACAC
CATCGATAATGTGAAGTCTAAAATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAGCGTCTCA
TCTTCGCCGGAAAACAGCTCGAGGACGGCCGTACCTTGGCCGATTACAACATCCAGAAGGAATCT
ACCCTCCACCTTGTCCTCCGTCTTCGTGGGGTATGCAGATCTTCGTCAAAACCTTAACCGGCAAG
ACCATCACCCTCGAAGTCGAGAGCTCCGACACCATCGATAATGTGAAGTCTAAAATTCAAGACAA
GGAAGGCATCCCACCAGACCAGCAGCGTCTTATCTTCGCCGGAAAACAGCTCGAGGACGGCCGTA
CCTTGGCCGATTACAACATCCAGAAGGAATCCACCCTCCACCTTGTCCTACGTCTTCGTGGGGGT
Found at i:37631445 original size:683 final size:683
Alignment explanation
Indices: 37630138--37631485 Score: 2160
Period size: 683 Copynumber: 2.0 Consensus size: 683
37630128 CTCTCCAAAG
* * * *
37630138 ATGCAGATCTTCGTCAAAACCCTTACCGGCAAGACCATCACCCTCGAGGTTGAGAGTTCTGACAC
1 ATGCAGATCTTCGTCAAAACCCTTACCGGCAAGACCATCACCCTCGAAGTCGAGAGCTCCGACAC
37630203 CATCGACAATGTGAAGTCTAAAATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAGCGTCTCA
66 CATCGACAATGTGAAGTCTAAAATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAGCGTCTCA
*
37630268 TCTTCGCCGGAAAACAGCTCGAGGACGGCCGTACCTTGGCCGATTACAACATCCAGAAGGAATCT
131 TCTTCGCCGGAAAACAGCTCGAGGACGGCCGTACCTTGGCCGATTACAACATCCAGAAGGAATCC
*
37630333 ACCCTCCACCTTGTCCTCCGTCTTCGTGGGGGTATGCAGATCTTCGTCAAAACCTTAACCGGCAA
196 ACCCTCCACCTTGTCCTACGTCTTCGTGGGGGTATGCAGATCTTCGTCAAAACCTTAACCGGCAA
*
37630398 GACCATCACCCTCGAAGTCGAGAGCTCCGACACCATCGATAATGTGAAGTCTAAAATTCAAGACA
261 GACCATCACCCTCGAAGTCGAGAGCTCCGACACCATCGATAATGTAAAGTCTAAAATTCAAGACA
* *
37630463 AGGAAGGCATCCCACCAGACCAGCAGCGTCTTATCTTCGCCGGAAAACAGCTCGAGGACGGCCGT
326 AGGAAGGCATCCCACCAGACCAGCAGCGTCTCATCTTCGCCGGAAAACAGCTCGAAGACGGCCGT
* * * * *
37630528 ACCTTGGCCGATTACAACATCCAGAAGGAATCTACCCTCCACCTTGTCCTCCGTCTTCGTGGGGG
391 ACCCTGGCCGATTACAACATCCAGAAGGAAGCCACCCTCCACCTCGTCCTCCGTCTTCGCGGGGG
*
37630593 TATGCAGATCTTCGTCAAAACCTTAACCGGCAAGACCATCACCCTCGAAGTCGAGAGCTCCGACA
456 AATGCAGATCTTCGTCAAAACCTTAACCGGCAAGACCATCACCCTCGAAGTCGAGAGCTCCGACA
* * * * * *
37630658 CCATCGATAATGTGAAGTCTAAAATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAGCGTCTT
521 CCATCGACAATGTAAAGGCGAAAATTCAAGACAAGGAAGGCATCCCACCAGACCAACAACGTCTT
* * *
37630723 ATCTTCGCCGGAAAACAGCTCGAGGACGGCCGTACCTTGGCCGATTACAACATCCAGAAGGAATC
586 ATCTTCGCAGGAAAACAGCTCGAGGACGGCAGGACCTTGGCCGATTACAACATCCAGAAGGAATC
*
37630788 TACCCTCCACCTTGTCCTCCGTCTTCGTGGGGT
651 GACCCTCCACCTTGTCCTCCGTCTTCGTGGGGT
37630821 ATGCAGATCTTCGTCAAAA-CCTTAACCGGCAAGACCATCACCCTCGAAGTCGAGAGCTCCGACA
1 ATGCAGATCTTCGTCAAAACCCTT-ACCGGCAAGACCATCACCCTCGAAGTCGAGAGCTCCGACA
* *
37630885 CCATCGATAATGTGAAGTCTAAAATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAGCGTCTT
65 CCATCGACAATGTGAAGTCTAAAATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAGCGTCTC
37630950 ATCTTCGCCGGAAAACAGCTCGAGGACGGCCGTACCTTGGCCGATTACAACATCCAGAAGGAATC
130 ATCTTCGCCGGAAAACAGCTCGAGGACGGCCGTACCTTGGCCGATTACAACATCCAGAAGGAATC
* *
37631015 CACCCTCCACCTTGTCTTACGTCTTCGTGGGGGTATGCAGATCTTCGTCAAAACTTTAACCGGCA
195 CACCCTCCACCTTGTCCTACGTCTTCGTGGGGGTATGCAGATCTTCGTCAAAACCTTAACCGGCA
*
37631080 AGACCATCACCCTCGAAGTCGAGAGCTCTGACACCATCGATAATGTAAAGTCTAAAATTCAAGAC
260 AGACCATCACCCTCGAAGTCGAGAGCTCCGACACCATCGATAATGTAAAGTCTAAAATTCAAGAC
* *
37631145 AAGGAAGGCATCCCACCAGACCAGCAGCGTCTCATCTTCGCCGGCAAACAGCTCGAAGATGGCCG
325 AAGGAAGGCATCCCACCAGACCAGCAGCGTCTCATCTTCGCCGGAAAACAGCTCGAAGACGGCCG
* * *
37631210 TACCCTGGCCGATTATAATATCGAGAAGGAAGCCACCCTCCACCTCGTCCTCCGTCTTCGCGGGG
390 TACCCTGGCCGATTACAACATCCAGAAGGAAGCCACCCTCCACCTCGTCCTCCGTCTTCGCGGGG
* * * * * * * *
37631275 GAATGCAGATCTTCGTGAAAACCTTGACCGGCAAGACCATCACCTTGGAGGTGGAGAGTTCGGAC
455 GAATGCAGATCTTCGTCAAAACCTTAACCGGCAAGACCATCACCCTCGAAGTCGAGAGCTCCGAC
* * * *
37631340 ACCATCGACAATGTAAAGGCGAAGATTCAGGACAAGGAAGGGATCCCGCCAGACCAACAACGT-T
520 ACCATCGACAATGTAAAGGCGAAAATTCAAGACAAGGAAGGCATCCCACCAGACCAACAACGTCT
* * * * * * * *
37631404 TGATCTTTGCAGGGAAGCAGCTTGAGGATGGGAGGACCTTGGCTGATTATAACATCCAGAAGGAA
585 T-ATCTTCGCAGGAAAACAGCTCGAGGACGGCAGGACCTTGGCCGATTACAACATCCAGAAGGAA
*
37631469 TCGACCCTTCACCTTGT
649 TCGACCCTCCACCTTGT
37631486 TTTGAGGCTT
Statistics
Matches: 607, Mismatches: 56, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
682 6 0.01
683 601 0.99
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.20
Consensus pattern (683 bp):
ATGCAGATCTTCGTCAAAACCCTTACCGGCAAGACCATCACCCTCGAAGTCGAGAGCTCCGACAC
CATCGACAATGTGAAGTCTAAAATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAGCGTCTCA
TCTTCGCCGGAAAACAGCTCGAGGACGGCCGTACCTTGGCCGATTACAACATCCAGAAGGAATCC
ACCCTCCACCTTGTCCTACGTCTTCGTGGGGGTATGCAGATCTTCGTCAAAACCTTAACCGGCAA
GACCATCACCCTCGAAGTCGAGAGCTCCGACACCATCGATAATGTAAAGTCTAAAATTCAAGACA
AGGAAGGCATCCCACCAGACCAGCAGCGTCTCATCTTCGCCGGAAAACAGCTCGAAGACGGCCGT
ACCCTGGCCGATTACAACATCCAGAAGGAAGCCACCCTCCACCTCGTCCTCCGTCTTCGCGGGGG
AATGCAGATCTTCGTCAAAACCTTAACCGGCAAGACCATCACCCTCGAAGTCGAGAGCTCCGACA
CCATCGACAATGTAAAGGCGAAAATTCAAGACAAGGAAGGCATCCCACCAGACCAACAACGTCTT
ATCTTCGCAGGAAAACAGCTCGAGGACGGCAGGACCTTGGCCGATTACAACATCCAGAAGGAATC
GACCCTCCACCTTGTCCTCCGTCTTCGTGGGGT
Found at i:37631580 original size:228 final size:227
Alignment explanation
Indices: 37630138--37631728 Score: 1585
Period size: 228 Copynumber: 7.0 Consensus size: 227
37630128 CTCTCCAAAG
* * * * *
37630138 ATGCAGATCTTCGTCAAAACCCTT-ACCGGCAAGACCATCACCCTCGAGGTTGAGAGTTCTGACA
1 ATGCAGATCTTCGTCAAAA-CATTGACCGGCAAGACCATCACCTTGGAGGTGGAGAGTTCGGACA
* * *
37630202 CCATCGACAATGTGAAGTCTAAA-ATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAGCGTCT
65 CCATCGACAATGTAAAGGC-AAAGATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAACGTCT
* * * * *
37630266 CATCTTCGCCGGAAAACAGCTCGAGGACGGCCGTACCTTGGCCGATTACAACATCCAGAAGGAAT
129 CATCTTCGCCGGCAAACAGCTCGAGGATGGCAGGACCTTGGCCGATTATAACATCCAGAAGGAAT
* ** *
37630331 CTACCCTCCACCTTGTCCTCCGTCTTCGTGGGGGT
194 CCACCCTCCACCTTGT-CTTAGTCTTCGTGGGGGA
* * * * * * * *
37630366 ATGCAGATCTTCGTCAAAACCTTAACCGGCAAGACCATCACCCTCGAAGTCGAGAGCTCCGACAC
1 ATGCAGATCTTCGTCAAAACATTGACCGGCAAGACCATCACCTTGGAGGTGGAGAGTTCGGACAC
* * * * *
37630431 CATCGATAATGTGAAGTCTAAA-ATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAGCGTCTT
66 CATCGACAATGTAAAGGC-AAAGATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAACGTCTC
* * * * *
37630495 ATCTTCGCCGGAAAACAGCTCGAGGACGGCCGTACCTTGGCCGATTACAACATCCAGAAGGAATC
130 ATCTTCGCCGGCAAACAGCTCGAGGATGGCAGGACCTTGGCCGATTATAACATCCAGAAGGAATC
* ** *
37630560 TACCCTCCACCTTGTCCTCCGTCTTCGTGGGGGT
195 CACCCTCCACCTTGT-CTTAGTCTTCGTGGGGGA
* * * * * * * *
37630594 ATGCAGATCTTCGTCAAAACCTTAACCGGCAAGACCATCACCCTCGAAGTCGAGAGCTCCGACAC
1 ATGCAGATCTTCGTCAAAACATTGACCGGCAAGACCATCACCTTGGAGGTGGAGAGTTCGGACAC
* * * * *
37630659 CATCGATAATGTGAAGTCTAAA-ATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAGCGTCTT
66 CATCGACAATGTAAAGGC-AAAGATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAACGTCTC
* * * * *
37630723 ATCTTCGCCGGAAAACAGCTCGAGGACGGCCGTACCTTGGCCGATTACAACATCCAGAAGGAATC
130 ATCTTCGCCGGCAAACAGCTCGAGGATGGCAGGACCTTGGCCGATTATAACATCCAGAAGGAATC
* ** *
37630788 TACCCTCCACCTTGTCCTCCGTCTTCGT-GGGGT
195 CACCCTCCACCTTGT-CTTAGTCTTCGTGGGGGA
* * * * * * * *
37630821 ATGCAGATCTTCGTCAAAACCTTAACCGGCAAGACCATCACCCTCGAAGTCGAGAGCTCCGACAC
1 ATGCAGATCTTCGTCAAAACATTGACCGGCAAGACCATCACCTTGGAGGTGGAGAGTTCGGACAC
* * * * *
37630886 CATCGATAATGTGAAGTCTAAA-ATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAGCGTCTT
66 CATCGACAATGTAAAGGC-AAAGATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAACGTCTC
* * * * *
37630950 ATCTTCGCCGGAAAACAGCTCGAGGACGGCCGTACCTTGGCCGATTACAACATCCAGAAGGAATC
130 ATCTTCGCCGGCAAACAGCTCGAGGATGGCAGGACCTTGGCCGATTATAACATCCAGAAGGAATC
*
37631015 CACCCTCCACCTTGTCTTACGTCTTCGTGGGGGT
195 CACCCTCCACCTTGTCTTA-GTCTTCGTGGGGGA
* * * * * * * *
37631049 ATGCAGATCTTCGTCAAAACTTTAACCGGCAAGACCATCACCCTCGAAGTCGAGAGCTCTGACAC
1 ATGCAGATCTTCGTCAAAACATTGACCGGCAAGACCATCACCTTGGAGGTGGAGAGTTCGGACAC
* * *
37631114 CATCGATAATGTAAAGTCTAAA-ATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAGCGTCTC
66 CATCGACAATGTAAAGGC-AAAGATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAACGTCTC
* * * * * * *
37631178 ATCTTCGCCGGCAAACAGCTCGAAGATGGCCGTACCCTGGCCGATTATAATATCGAGAAGGAAGC
130 ATCTTCGCCGGCAAACAGCTCGAGGATGGCAGGACCTTGGCCGATTATAACATCCAGAAGGAATC
* ** *
37631243 CACCCTCCACCTCGTCCTCCGTCTTCGCGGGGGA
195 CACCCTCCACCTTGT-CTTAGTCTTCGTGGGGGA
* *
37631277 ATGCAGATCTTCGTGAAAACCTTGACCGGCAAGACCATCACCTTGGAGGTGGAGAGTTCGGACAC
1 ATGCAGATCTTCGTCAAAACATTGACCGGCAAGACCATCACCTTGGAGGTGGAGAGTTCGGACAC
* * * * * * *
37631342 CATCGACAATGTAAAGGCGAAGATTCAGGACAAGGAAGGGATCCCGCCAGACCAACAACGTTTGA
66 CATCGACAATGTAAAGGCAAAGATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAACGTCTCA
* * * * * * * *
37631407 TCTTTGCAGGGAAGCAGCTTGAGGATGGGAGGACCTTGGCTGATTATAACATCCAGAAGGAATCG
131 TCTTCGCCGGCAAACAGCTCGAGGATGGCAGGACCTTGGCCGATTATAACATCCAGAAGGAATCC
* * * * *
37631472 ACCCTTCACCTTGTTTTGAGGCTTCGTGGAGGC
196 ACCCTCCACCTTGTCTT-AGTCTTCGTGGGGGA
* * * * * * * * * *
37631505 ATGCAGATTTTCGTTAAGACATTGACTGGGAAAACAATCACATTGGAGGTGGAAAGTTCGGATAC
1 ATGCAGATCTTCGTCAAAACATTGACCGGCAAGACCATCACCTTGGAGGTGGAGAGTTCGGACAC
* * * * * * * * *
37631570 AATTGACAATGTGAAGGCAAAGATTCAGGACAAGGAAGGTATCCCCCCAGATCAGCAAAGGCTCA
66 CATCGACAATGTAAAGGCAAAGATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAACGTCTCA
* * * ** * * * * * * * *
37631635 TCTTTGCTGGCAAGCAATTGGAGGATGGGAGGACTTTAGCTGATTATAACATTCAGAAAGAGTCC
131 TCTTCGCCGGCAAACAGCTCGAGGATGGCAGGACCTTGGCCGATTATAACATCCAGAAGGAATCC
* * *
37631700 ACCCTTCACCTTGTTCTTCGTCTCCGTGG
196 ACCCTCCACCTTG-TCTTAGTCTTCGTGG
37631729 TGGGCAGTGA
Statistics
Matches: 1249, Mismatches: 107, Indels: 14
0.91 0.08 0.01
Matches are distributed among these distances:
226 2 0.00
227 228 0.18
228 1014 0.81
229 5 0.00
ACGTcount: A:0.28, C:0.28, G:0.23, T:0.21
Consensus pattern (227 bp):
ATGCAGATCTTCGTCAAAACATTGACCGGCAAGACCATCACCTTGGAGGTGGAGAGTTCGGACAC
CATCGACAATGTAAAGGCAAAGATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAACGTCTCA
TCTTCGCCGGCAAACAGCTCGAGGATGGCAGGACCTTGGCCGATTATAACATCCAGAAGGAATCC
ACCCTCCACCTTGTCTTAGTCTTCGTGGGGGA
Found at i:37633262 original size:19 final size:20
Alignment explanation
Indices: 37633224--37633266 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
37633214 AAATTGGATC
37633224 AAATCAAAATTTCATATATA
1 AAATCAAAATTTCATATATA
* *
37633244 AAATCGAAA-TTCATCTATA
1 AAATCAAAATTTCATATATA
37633263 AAAT
1 AAAT
37633267 TACATATTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 13 0.62
20 8 0.38
ACGTcount: A:0.53, C:0.12, G:0.02, T:0.33
Consensus pattern (20 bp):
AAATCAAAATTTCATATATA
Found at i:37646334 original size:29 final size:29
Alignment explanation
Indices: 37646287--37646348 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 29
37646277 TGTAATGTTG
* *
37646287 TACATGAACTTTGATTTTG-TTCAATTTT
1 TACATGAAATTTGAATTTGATTCAATTTT
*
37646315 ATACATGAAATTTTAATTTGATTCAATTTT
1 -TACATGAAATTTGAATTTGATTCAATTTT
37646345 TACA
1 TACA
37646349 AACAACTAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 20 0.69
30 9 0.31
ACGTcount: A:0.32, C:0.10, G:0.08, T:0.50
Consensus pattern (29 bp):
TACATGAAATTTGAATTTGATTCAATTTT
Found at i:37647585 original size:20 final size:20
Alignment explanation
Indices: 37647560--37647604 Score: 74
Period size: 20 Copynumber: 2.2 Consensus size: 20
37647550 AAAATAACGT
37647560 ATATGTATATAAATGTAT-AG
1 ATATGTATATAAAT-TATAAG
37647580 ATATGTATATAAATTATAAG
1 ATATGTATATAAATTATAAG
37647600 ATATG
1 ATATG
37647605 AAAAATATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 3 0.12
20 21 0.88
ACGTcount: A:0.47, C:0.00, G:0.13, T:0.40
Consensus pattern (20 bp):
ATATGTATATAAATTATAAG
Found at i:37653176 original size:17 final size:18
Alignment explanation
Indices: 37653150--37653192 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
37653140 ATTTGATTAG
37653150 TTTT-AATTTCAA-TACT
1 TTTTAAATTTCAACTACT
37653166 TTTTAAATTTCAAGCTACT
1 TTTTAAATTTCAA-CTACT
*
37653185 TGTTAAAT
1 TTTTAAAT
37653193 CTAGTAACTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 4 0.17
17 8 0.35
19 11 0.48
ACGTcount: A:0.33, C:0.12, G:0.05, T:0.51
Consensus pattern (18 bp):
TTTTAAATTTCAACTACT
Found at i:37654603 original size:14 final size:14
Alignment explanation
Indices: 37654584--37654620 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
37654574 GGCCCACTTG
37654584 TATTAATTTTTTTA
1 TATTAATTTTTTTA
*
37654598 TATTAA-CTTTTTA
1 TATTAATTTTTTTA
37654611 TA-TAATTTTT
1 TATTAATTTTT
37654621 AAAAAATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
12 3 0.15
13 11 0.55
14 6 0.30
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.68
Consensus pattern (14 bp):
TATTAATTTTTTTA
Found at i:37656059 original size:43 final size:43
Alignment explanation
Indices: 37656003--37656426 Score: 561
Period size: 43 Copynumber: 9.8 Consensus size: 43
37655993 TATTTATAAT
*
37656003 AAACGCCGCTATAGACCATGGTCTTTAGCGGCGCTTACCAAAC
1 AAACGCCGCTATAGACCATGGTCTTTAGCGGCGCTTACCCAAC
* * *
37656046 AAACGCTGCTATAGACCATGGTCTTTACCGGCGCTTACCAAAC
1 AAACGCCGCTATAGACCATGGTCTTTAGCGGCGCTTACCCAAC
* * *
37656089 AAACGCTGCTATAAACCATCGTCTTTAGCGGCGCTTACCCAAC
1 AAACGCCGCTATAGACCATGGTCTTTAGCGGCGCTTACCCAAC
* *
37656132 AAACGCCGCTATAGACCATGGTCTTTAGCGGCGCTTACCTAAA
1 AAACGCCGCTATAGACCATGGTCTTTAGCGGCGCTTACCCAAC
*
37656175 AAACGCCGCTATAGACCATGGTCTTTAGCAGCGCTTACCCAAC
1 AAACGCCGCTATAGACCATGGTCTTTAGCGGCGCTTACCCAAC
*
37656218 AAACGCCGCTATAGACCATGGTCTATAGCGGCGCTTACCCAAC
1 AAACGCCGCTATAGACCATGGTCTTTAGCGGCGCTTACCCAAC
* *
37656261 AAACGCCGCTATAGACCATGGTCTTTAGTGGCGCTTACCCAAT
1 AAACGCCGCTATAGACCATGGTCTTTAGCGGCGCTTACCCAAC
* * ** * *
37656304 AAACGCCGCGAAAG-CCAATGACCTTTAGCGGCGCTCACCGTGAA-
1 AAACGCCGCTATAGACC-ATGGTCTTTAGCGGCGCTTACC--CAAC
37656348 AAACGCCGCTATAGACCATGGTCTTTAGCGGCGCCTT-CACC-AC
1 AAACGCCGCTATAGACCATGGTCTTTAGCGGCG-CTTAC-CCAAC
* * *
37656391 AAACGCCGCTAAAG-CTCATGATTTTTAGCGGCGCTT
1 AAACGCCGCTATAGAC-CATGGTCTTTAGCGGCGCTT
37656427 TTAGAAAAAT
Statistics
Matches: 338, Mismatches: 35, Indels: 17
0.87 0.09 0.04
Matches are distributed among these distances:
42 7 0.02
43 297 0.88
44 27 0.08
45 7 0.02
ACGTcount: A:0.27, C:0.31, G:0.21, T:0.22
Consensus pattern (43 bp):
AAACGCCGCTATAGACCATGGTCTTTAGCGGCGCTTACCCAAC
Found at i:37656790 original size:21 final size:21
Alignment explanation
Indices: 37656741--37656797 Score: 78
Period size: 21 Copynumber: 2.7 Consensus size: 21
37656731 TTTAAGCTGT
37656741 TCTGCTTCCCTCGCTGCAGCC
1 TCTGCTTCCCTCGCTGCAGCC
* *
37656762 TCTACTTCCTTCGCTGCAGCC
1 TCTGCTTCCCTCGCTGCAGCC
* *
37656783 TTTGCTTCTCTCGCT
1 TCTGCTTCCCTCGCT
37656798 ACCGCATATT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.05, C:0.42, G:0.16, T:0.37
Consensus pattern (21 bp):
TCTGCTTCCCTCGCTGCAGCC
Found at i:37656870 original size:21 final size:21
Alignment explanation
Indices: 37656846--37656908 Score: 92
Period size: 21 Copynumber: 3.0 Consensus size: 21
37656836 CTTTCATTGA
37656846 ACCTCAGCTTCTCTCGCTGCT
1 ACCTCAGCTTCTCTCGCTGCT
* *
37656867 ACCTCTGCTTCTCTCGCTACT
1 ACCTCAGCTTCTCTCGCTGCT
37656888 ACCTCTA-CTTCTCTCGCTGCT
1 ACCTC-AGCTTCTCTCGCTGCT
37656909 GCATCTGCTT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.10, C:0.43, G:0.11, T:0.37
Consensus pattern (21 bp):
ACCTCAGCTTCTCTCGCTGCT
Found at i:37662478 original size:16 final size:16
Alignment explanation
Indices: 37662457--37662716 Score: 110
Period size: 16 Copynumber: 17.2 Consensus size: 16
37662447 TTATTATGTC
*
37662457 GTATTATGTAAGTTAT
1 GTATTATATAAGTTAT
*
37662473 GTATTA-AAAATGTTAT
1 GTATTATATAA-GTTAT
37662489 GTATTA-ATAAGTTAT
1 GTATTATATAAGTTAT
37662504 G-------TAAGTTAT
1 GTATTATATAAGTTAT
37662513 GTATTATATAAGTTAT
1 GTATTATATAAGTTAT
37662529 GTATTA-ATAAGTTAT
1 GTATTATATAAGTTAT
*
37662544 GTAAGTTATGT-A-TTAT
1 GT-A-TTATATAAGTTAT
37662560 -T-TTA-A-AA--TAT
1 GTATTATATAAGTTAT
*
37662570 ATATTA-ATAAGTTATGT
1 GTATTATATAAGTTA--T
37662587 CGTATTATATAAGTTAT
1 -GTATTATATAAGTTAT
*
37662604 GTATTA-AAAATGTTAT
1 GTATTATATAA-GTTAT
37662620 GTATTA-ATAAGTTAT
1 GTATTATATAAGTTAT
* *
37662635 GTAAGTTATGT-A-TCAT
1 GT-A-TTATATAAGTTAT
*
37662651 -T-TTA-A-AATATATAT
1 GTATTATATAA-GT-TAT
*
37662665 ATATTA-ATAAGTTATGT
1 GTATTATATAAGTTA--T
37662682 CGTATTATATAAGTTAT
1 -GTATTATATAAGTTAT
37662699 GTATTA-ATAAGTTAT
1 GTATTATATAAGTTAT
37662714 GTA
1 GTA
37662717 AGTTATGTAT
Statistics
Matches: 194, Mismatches: 14, Indels: 73
0.69 0.05 0.26
Matches are distributed among these distances:
9 9 0.05
10 3 0.02
11 3 0.02
12 10 0.05
13 3 0.02
14 2 0.01
15 48 0.25
16 74 0.38
17 14 0.07
18 12 0.06
19 16 0.08
ACGTcount: A:0.39, C:0.01, G:0.13, T:0.47
Consensus pattern (16 bp):
GTATTATATAAGTTAT
Found at i:37662501 original size:31 final size:30
Alignment explanation
Indices: 37662457--37662637 Score: 120
Period size: 31 Copynumber: 6.1 Consensus size: 30
37662447 TTATTATGTC
*
37662457 GTATTATGTAAGTTATGTATTAAAAATGTTAT
1 GTATTATATAAGTTATGTATT-AAAA-GTTAT
37662489 GTATTA-ATAAGTTATG---T--AAGTTAT
1 GTATTATATAAGTTATGTATTAAAAGTTAT
37662513 GTATTATATAAGTTATGTATTAATAAGTTAT
1 GTATTATATAAGTTATGTATTAA-AAGTTAT
*
37662544 GTAAGTTATGT-A-TTAT-T-TTAAAA--TAT
1 GT-A-TTATATAAGTTATGTATTAAAAGTTAT
*
37662570 ATATTA-ATAAGTTATGTCGTATTATATAAGTTAT
1 GTATTATATAAGTTA--T-GTATTA-A-AAGTTAT
*
37662604 GTATTA-AAAATGTTATGTATTAATAAGTTAT
1 GTATTATATAA-GTTATGTATTAA-AAGTTAT
37662635 GTA
1 GTA
37662638 AGTTATGTAT
Statistics
Matches: 122, Mismatches: 6, Indels: 43
0.71 0.04 0.25
Matches are distributed among these distances:
23 1 0.01
24 15 0.12
25 16 0.13
26 4 0.03
27 1 0.01
28 4 0.03
29 5 0.04
30 4 0.03
31 35 0.29
32 16 0.13
33 6 0.05
34 11 0.09
35 4 0.03
ACGTcount: A:0.39, C:0.01, G:0.14, T:0.47
Consensus pattern (30 bp):
GTATTATATAAGTTATGTATTAAAAGTTAT
Found at i:37662506 original size:40 final size:40
Alignment explanation
Indices: 37662460--37662622 Score: 182
Period size: 40 Copynumber: 4.2 Consensus size: 40
37662450 TTATGTCGTA
37662460 TTATGTAAGTTATGTATTA-AAAATGTTATGTATTAATAAG
1 TTATGTAAGTTATGTATTATAAAA-GTTATGTATTAATAAG
*
37662500 TTATGTAAGTTATGTATTATATAAGTTATGTATTAATAAG
1 TTATGTAAGTTATGTATTATAAAAGTTATGTATTAATAAG
*
37662540 TTATGTAAGTTATGTATTATTTTAAAA--TATATATTAATAAG
1 TTATGTAAGTTATGTATTA---TAAAAGTTATGTATTAATAAG
* *
37662581 TTATGT-CG-TAT-TA-TAT--AAGTTATGTATTAAAAATG
1 TTATGTAAGTTATGTATTATAAAAGTTATGTATTAATAA-G
37662616 TTATGTA
1 TTATGTA
37662623 TTAATAAGTT
Statistics
Matches: 109, Mismatches: 6, Indels: 20
0.81 0.04 0.15
Matches are distributed among these distances:
32 2 0.02
34 12 0.11
35 7 0.06
37 2 0.02
38 2 0.02
39 3 0.03
40 55 0.50
41 22 0.20
43 4 0.04
ACGTcount: A:0.39, C:0.01, G:0.13, T:0.47
Consensus pattern (40 bp):
TTATGTAAGTTATGTATTATAAAAGTTATGTATTAATAAG
Found at i:37662510 original size:9 final size:9
Alignment explanation
Indices: 37662496--37662555 Score: 67
Period size: 9 Copynumber: 7.2 Consensus size: 9
37662486 TATGTATTAA
37662496 TAAGTTATG
1 TAAGTTATG
37662505 TAAGTTATG
1 TAAGTTATG
*
37662514 T-A-TTATA
1 TAAGTTATG
37662521 TAAGTTATG
1 TAAGTTATG
*
37662530 T-A-TTA-A
1 TAAGTTATG
37662536 TAAGTTATG
1 TAAGTTATG
37662545 TAAGTTATG
1 TAAGTTATG
37662554 TA
1 TA
37662556 TTATTTTAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
6 1 0.02
7 9 0.21
8 6 0.14
9 26 0.62
ACGTcount: A:0.37, C:0.00, G:0.17, T:0.47
Consensus pattern (9 bp):
TAAGTTATG
Found at i:37662609 original size:91 final size:93
Alignment explanation
Indices: 37662500--37662716 Score: 359
Period size: 91 Copynumber: 2.3 Consensus size: 93
37662490 TATTAATAAG
* *
37662500 TTATGTAAGTTATGTATTATATAAGTTATGTATTAATAAGTTATGTAAGTTATGTATTATTTT-A
1 TTATATAAGTTATGTATTA-ATAAGTTATGTATTAATAAGTTATGTAAGTTATGTATCATTTTAA
37662564 A-A-ATATATATTAATAAGTTATGTCGTA
65 ATATATATATATTAATAAGTTATGTCGTA
*
37662591 TTATATAAGTTATGTATTAAAAATGTTATGTATTAATAAGTTATGTAAGTTATGTATCATTTTAA
1 TTATATAAGTTATGTATTAATAA-GTTATGTATTAATAAGTTATGTAAGTTATGTATCATTTT-A
37662656 AATATATATATATTAATAAGTTATGTCGTA
64 AATATATATATATTAATAAGTTATGTCGTA
37662686 TTATATAAGTTATGTATTAATAAGTTATGTA
1 TTATATAAGTTATGTATTAATAAGTTATGTA
37662717 AGTTATGTAT
Statistics
Matches: 117, Mismatches: 4, Indels: 7
0.91 0.03 0.05
Matches are distributed among these distances:
90 3 0.03
91 56 0.48
93 2 0.02
94 9 0.08
95 47 0.40
ACGTcount: A:0.39, C:0.01, G:0.12, T:0.47
Consensus pattern (93 bp):
TTATATAAGTTATGTATTAATAAGTTATGTATTAATAAGTTATGTAAGTTATGTATCATTTTAAA
TATATATATATTAATAAGTTATGTCGTA
Found at i:37662695 original size:19 final size:17
Alignment explanation
Indices: 37662666--37662715 Score: 68
Period size: 15 Copynumber: 2.9 Consensus size: 17
37662656 AATATATATA
37662666 TATTAATAAGTTATGTCG
1 TATTAATAAGTTATGT-G
37662684 TATTATATAAGTTA--TG
1 TATTA-ATAAGTTATGTG
37662700 TATTAATAAGTTATGT
1 TATTAATAAGTTATGT
37662716 AAGTTATGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
15 8 0.28
16 6 0.21
17 2 0.07
18 5 0.17
19 8 0.28
ACGTcount: A:0.36, C:0.02, G:0.14, T:0.48
Consensus pattern (17 bp):
TATTAATAAGTTATGTG
Found at i:37662698 original size:79 final size:77
Alignment explanation
Indices: 37662615--37662758 Score: 270
Period size: 79 Copynumber: 1.8 Consensus size: 77
37662605 TATTAAAAAT
37662615 GTTATGTATTAATAAGTTATGTAAGTTATGTATCATTTTAAAATATATATATATTAATAAGTTAT
1 GTTATGTATTAATAAGTTATGTAAGTTATGTATCATTTT-AAA-ATATATATATTAATAAGTTAT
37662680 GTCGTATTATATAA
64 GTCGTATTATATAA
37662694 GTTATGTATTAATAAGTTATGTAAGTTATGTATCATTTTAAAATATATATATTAATAAGTTATGT
1 GTTATGTATTAATAAGTTATGTAAGTTATGTATCATTTTAAAATATATATATTAATAAGTTATGT
37662759 AATGTATGTA
Statistics
Matches: 65, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
77 23 0.35
78 3 0.05
79 39 0.60
ACGTcount: A:0.39, C:0.02, G:0.12, T:0.47
Consensus pattern (77 bp):
GTTATGTATTAATAAGTTATGTAAGTTATGTATCATTTTAAAATATATATATTAATAAGTTATGT
CGTATTATATAA
Found at i:37666401 original size:74 final size:73
Alignment explanation
Indices: 37666280--37666601 Score: 491
Period size: 73 Copynumber: 4.4 Consensus size: 73
37666270 ATAACTATCA
* * *
37666280 TTTGCGGCGTTTGTACCAAAAACGCCGCTAATACCAATAAACAGTATAAAAAATGAAGTCGTTTT
1 TTTGCGGCGTTTTTACCAGAAACGCCGCTAATACCAATAAACAGTAT-AAAAACGAAGTCGTTTT
37666345 GGTTAAACT
65 GGTTAAACT
* *
37666354 TTTGCAGCGTTTGTACCAGAAACGCCGCTAATACCAATAAACAGTATACAAAACGAAGTCGTTTT
1 TTTGCGGCGTTTTTACCAGAAACGCCGCTAATACCAATAAACAGTATA-AAAACGAAGTCGTTTT
37666419 GGTTAAACT
65 GGTTAAACT
*
37666428 TTTGCGGCGTTTTTACCAGAAACGCCACTAATACCAATAAACAGTATAAAAACGAAGTCGTTTTG
1 TTTGCGGCGTTTTTACCAGAAACGCCGCTAATACCAATAAACAGTATAAAAACGAAGTCGTTTTG
37666493 GTTAAACT
66 GTTAAACT
* * * *
37666501 TTTGTGGCGTTTTTACAATAAACGCCACTAATACCAATAAACAGTATAAAAACGAAGTCGTTTTG
1 TTTGCGGCGTTTTTACCAGAAACGCCGCTAATACCAATAAACAGTATAAAAACGAAGTCGTTTTG
*
37666566 GTCAAACT
66 GTTAAACT
** * *
37666574 TTTGTTGCGTTTTTACAATAAACGCCGC
1 TTTGCGGCGTTTTTACCAGAAACGCCGC
37666602 AAATTCGTGC
Statistics
Matches: 235, Mismatches: 12, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
73 121 0.51
74 114 0.49
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.30
Consensus pattern (73 bp):
TTTGCGGCGTTTTTACCAGAAACGCCGCTAATACCAATAAACAGTATAAAAACGAAGTCGTTTTG
GTTAAACT
Found at i:37666548 original size:147 final size:147
Alignment explanation
Indices: 37666280--37666599 Score: 491
Period size: 147 Copynumber: 2.2 Consensus size: 147
37666270 ATAACTATCA
* * *
37666280 TTTGCGGCGTTTGTACCAAAAACGCCGCTAATACCAATAAACAGTATAAAAAATGAAGTCGTTTT
1 TTTGCGGCGTTTTTACCAAAAACGCCACTAATACCAATAAACAGTATAAAAAACGAAGTCGTTTT
* *
37666345 GGTTAAACTTTTGCAGCGTTTGTACCAGAAACGCCGCTAATACCAATAAACAGTATACAAAACGA
66 GGTTAAACTTTTGCAGCGTTTGTACAAGAAACGCCACTAATACCAATAAACAGTATA-AAAACGA
*
37666410 AGTCGTTTTGGTTAAACT
130 AGTCGTTTTGGTCAAACT
*
37666428 TTTGCGGCGTTTTTACCAGAAACGCCACTAATACCAATAAACAGTAT-AAAAACGAAGTCGTTTT
1 TTTGCGGCGTTTTTACCAAAAACGCCACTAATACCAATAAACAGTATAAAAAACGAAGTCGTTTT
** * *
37666492 GGTTAAACTTTTGTGGCGTTTTTACAATAAACGCCACTAATACCAATAAACAGTATAAAAACGAA
66 GGTTAAACTTTTGCAGCGTTTGTACAAGAAACGCCACTAATACCAATAAACAGTATAAAAACGAA
37666557 GTCGTTTTGGTCAAACT
131 GTCGTTTTGGTCAAACT
**
37666574 TTTGTTGCGTTTTTA-CAATAAACGCC
1 TTTGCGGCGTTTTTACCAA-AAACGCC
37666600 GCAAATTCGT
Statistics
Matches: 157, Mismatches: 14, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
145 2 0.01
146 44 0.28
147 67 0.43
148 44 0.28
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.30
Consensus pattern (147 bp):
TTTGCGGCGTTTTTACCAAAAACGCCACTAATACCAATAAACAGTATAAAAAACGAAGTCGTTTT
GGTTAAACTTTTGCAGCGTTTGTACAAGAAACGCCACTAATACCAATAAACAGTATAAAAACGAA
GTCGTTTTGGTCAAACT
Found at i:37667767 original size:41 final size:41
Alignment explanation
Indices: 37667679--37667769 Score: 105
Period size: 41 Copynumber: 2.2 Consensus size: 41
37667669 AGCTACAAAA
* **
37667679 CGCCGCTAATGCTCTGGTCTTTAGCGGCGTTTTCTAATATG
1 CGCCGCTAATGCTCTGGTCTTTAGCGGCGTTTTCTAAGAAC
* *
37667720 CACCGCTAATGCTGC-GGTTTTTAGCGGCGCTTTT-TAAGAAC
1 CGCCGCTAATGCT-CTGGTCTTTAGCGGCG-TTTTCTAAGAAC
37667761 CGCCGCTAA
1 CGCCGCTAA
37667770 AGACCTGAGC
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
41 37 0.88
42 5 0.12
ACGTcount: A:0.18, C:0.26, G:0.24, T:0.32
Consensus pattern (41 bp):
CGCCGCTAATGCTCTGGTCTTTAGCGGCGTTTTCTAAGAAC
Found at i:37667785 original size:41 final size:41
Alignment explanation
Indices: 37667740--37667952 Score: 250
Period size: 41 Copynumber: 5.2 Consensus size: 41
37667730 GCTGCGGTTT
** * *
37667740 TTAGCGGCGCTTTTTAAGAACCGCCGCTAAAGACCTGAGCA
1 TTAGCGGCGCTTCGTAAAAAACGCCGCTAAAGACCTGAGCA
* *
37667781 TTAGCGGCACTTCGTAAAAAATGCCGCTAAAGACCTGAGCA
1 TTAGCGGCGCTTCGTAAAAAACGCCGCTAAAGACCTGAGCA
* *
37667822 TTAGCGGCGCTTCGTAAAAAATGCCGCTAAAGACC-GTAGTA
1 TTAGCGGCGCTTCGTAAAAAACGCCGCTAAAGACCTG-AGCA
* ***
37667863 TTAGCGGCGCTTTGTAAAAAACGAATCTAAAGACCTGAGCA
1 TTAGCGGCGCTTCGTAAAAAACGCCGCTAAAGACCTGAGCA
* ** *
37667904 TTAGCGGCGCATATTAGAAAACGCCGCTAAAGACC-GCAGCA
1 TTAGCGGCGCTTCGTAAAAAACGCCGCTAAAGACCTG-AGCA
37667945 TTAGCGGC
1 TTAGCGGC
37667953 AATTATGTAA
Statistics
Matches: 148, Mismatches: 21, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
40 2 0.01
41 145 0.98
42 1 0.01
ACGTcount: A:0.32, C:0.24, G:0.24, T:0.20
Consensus pattern (41 bp):
TTAGCGGCGCTTCGTAAAAAACGCCGCTAAAGACCTGAGCA
Found at i:37668123 original size:41 final size:39
Alignment explanation
Indices: 37668017--37668168 Score: 121
Period size: 41 Copynumber: 3.8 Consensus size: 39
37668007 GGCGTTCGTG
* *
37668017 TTTTGCGGCGCTTATTT-GTAAACGCCGCTAATGATTGT-T
1 TTTTGCGGCG-TT-TTTCGTAAACGCCGCTAATGCTCGTAT
* * * * *
37668056 TTTAGCGGCGCTTTACATATATCGCCGCTAATGCTCGTAT
1 TTTTGCGGCGTTTTTCGTA-AACGCCGCTAATGCTCGTAT
37668096 CTTTTGCGGCGTTTTTCGTAAAGCGCCGCTAATGCTCG-ATT
1 -TTTTGCGGCGTTTTTCGTAAA-CGCCGCTAATGCTCGTA-T
* * *
37668137 TTTTGTGTCGTTTTTTGTCCAAACGCCGCTAA
1 TTTTGCGGCGTTTTTCGT--AAACGCCGCTAA
37668169 AAGCCTGTTT
Statistics
Matches: 90, Mismatches: 15, Indels: 14
0.76 0.13 0.12
Matches are distributed among these distances:
37 2 0.02
38 3 0.03
39 24 0.27
40 18 0.20
41 40 0.44
42 3 0.03
ACGTcount: A:0.17, C:0.22, G:0.22, T:0.39
Consensus pattern (39 bp):
TTTTGCGGCGTTTTTCGTAAACGCCGCTAATGCTCGTAT
Found at i:37671097 original size:22 final size:22
Alignment explanation
Indices: 37671069--37671115 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
37671059 GAAAACAAAA
* *
37671069 AAAAAATAATACTGATAATAAT
1 AAAAAATAATAATAATAATAAT
*
37671091 AAAAAATAGTAATAATAATAAT
1 AAAAAATAATAATAATAATAAT
37671113 AAA
1 AAA
37671116 GAAGTTCACG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.68, C:0.02, G:0.04, T:0.26
Consensus pattern (22 bp):
AAAAAATAATAATAATAATAAT
Found at i:37671964 original size:29 final size:29
Alignment explanation
Indices: 37671930--37671993 Score: 103
Period size: 29 Copynumber: 2.2 Consensus size: 29
37671920 ATAAAATACC
37671930 AAAAAAA-TATTTTAAAAATTAAAAAAATT
1 AAAAAAAGTATTTT-AAAATTAAAAAAATT
*
37671959 AAAAAAAGTATTTTAAAATTAAAAAATTT
1 AAAAAAAGTATTTTAAAATTAAAAAAATT
37671988 AAAAAA
1 AAAAAA
37671994 TAAATATATT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
29 27 0.82
30 6 0.18
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.30
Consensus pattern (29 bp):
AAAAAAAGTATTTTAAAATTAAAAAAATT
Found at i:37673210 original size:85 final size:85
Alignment explanation
Indices: 37673098--37673258 Score: 188
Period size: 85 Copynumber: 1.9 Consensus size: 85
37673088 TGTTGCTTCA
* * *
37673098 ATCTGCTCCATTGCATTCTCGGGGAGATACGA-T-T-GG-TTTATTCAGTCTGCTCCGCTGCAAC
1 ATCTGCTCCATTGCACTCTCGGAGAGATACGATTATCGGCTTTA---A-TCTGCTCCACTGCAAC
37673159 TTCAAGGAGATAAGACCTGATGAG
62 TTCAAGGAGATAAGACCTGATGAG
* *
37673183 ATCTGCTCTATTGCAACT-TCGGAGAGATAGGATTATCGGCTTTAATCTGCTCCACTGCAACTTC
1 ATCTGCTCCATTGC-ACTCTCGGAGAGATACGATTATCGGCTTTAATCTGCTCCACTGCAACTTC
*
37673247 AGGGAGATAAGA
65 AAGGAGATAAGA
37673259 TTCTCCATCT
Statistics
Matches: 65, Mismatches: 6, Indels: 10
0.80 0.07 0.12
Matches are distributed among these distances:
85 54 0.83
86 4 0.06
87 1 0.02
88 2 0.03
89 4 0.06
ACGTcount: A:0.25, C:0.22, G:0.24, T:0.29
Consensus pattern (85 bp):
ATCTGCTCCATTGCACTCTCGGAGAGATACGATTATCGGCTTTAATCTGCTCCACTGCAACTTCA
AGGAGATAAGACCTGATGAG
Found at i:37673411 original size:51 final size:50
Alignment explanation
Indices: 37673322--37673608 Score: 234
Period size: 51 Copynumber: 5.8 Consensus size: 50
37673312 CTTCAACTTT
* * * * *
37673322 AACGCCAGGGAGATAAGATTCGCTGCCTACAACATTAATCTACTCCGCTGC
1 AACGCCAAGGAAAT-AGATTCGCTGCCTTCAACTTTAATCTACTCCACTGC
**
37673373 AACGCCAAGGAAATACGATTAACTGCCTTCAACTTTAATCTACT--AC-G-
1 AACGCCAAGGAAATA-GATTCGCTGCCTTCAACTTTAATCTACTCCACTGC
* * * * **
37673420 -ATGCCAAGGAAATAAGATTTGCTGCCTTGAGCTTTAATCTGTTCCACTGC
1 AACGCCAAGGAAAT-AGATTCGCTGCCTTCAACTTTAATCTACTCCACTGC
* * * *
37673470 AACGCCAAAGAAATGATATTCGCTGTCTTCAGCTTTAATCTA-T----TGC
1 AACGCCAAGGAAAT-AGATTCGCTGCCTTCAACTTTAATCTACTCCACTGC
* * * * **
37673516 AATGCCAGGGAAACAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACTGC
1 AACGCCAAGGAAA-TAGATTCGCTGCCTTCAACTTTAATCTACTCCACTGC
*
37673567 AACGCCAAGGAAATGAGTTTCGCTGCCTTCAACTTTAATCTA
1 AACGCCAAGGAAAT-AGATTCGCTGCCTTCAACTTTAATCTA
37673609 TTTCAATGCC
Statistics
Matches: 187, Mismatches: 35, Indels: 28
0.75 0.14 0.11
Matches are distributed among these distances:
46 71 0.38
47 2 0.01
48 3 0.02
49 2 0.01
50 2 0.01
51 107 0.57
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (50 bp):
AACGCCAAGGAAATAGATTCGCTGCCTTCAACTTTAATCTACTCCACTGC
Found at i:37673445 original size:46 final size:46
Alignment explanation
Indices: 37673369--37673653 Score: 230
Period size: 46 Copynumber: 6.0 Consensus size: 46
37673359 ATCTACTCCG
* * ** *
37673369 CTGCAACGCCAAGGAAATACGATTAACTGCCTTCAACTTTAATCTA
1 CTGCAATGCCAAGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTA
* * * *
37673415 CTACGATGCCAAGGAAATAAGATTTGCTGCCTTGAGCTTTAATCTGTTCCA
1 CTGCAATGCCAAGGAAATAAGATTCGCTGCCTTCAGCTTTAATC---T--A
* * * * *
37673466 CTGCAACGCCAAAGAAATGATATTCGCTGTCTTCAGCTTTAATCTA
1 CTGCAATGCCAAGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTA
* * *
37673512 TTGCAATGCCAGGGAAACAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCA
1 CTGCAATGCCAAGGAAATAAGATTCGCTGCCTTCAGCTTTAATC---T--A
* * * *
37673563 CTGCAACGCCAAGGAAATGAGTTTCGCTGCCTTCAACTTTAATCTA
1 CTGCAATGCCAAGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTA
* * * * *
37673609 TTTCAATGCCAGGGAAACAAGATTCG-TCACCTTCAGCTTTAATCT
1 CTGCAATGCCAAGGAAATAAGATTCGCT-GCCTTCAGCTTTAATCT
37673654 GTTCCATTGT
Statistics
Matches: 187, Mismatches: 41, Indels: 22
0.75 0.16 0.09
Matches are distributed among these distances:
45 1 0.01
46 108 0.58
48 2 0.01
49 2 0.01
51 74 0.40
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (46 bp):
CTGCAATGCCAAGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTA
Found at i:37673500 original size:97 final size:97
Alignment explanation
Indices: 37673325--37673659 Score: 406
Period size: 97 Copynumber: 3.5 Consensus size: 97
37673315 CAACTTTAAC
* * * * * ** * *
37673325 GCCAGGGAGATAAGATTCGCTGCCTACAACATTAATCTACTCCGCTGCAACGCCAAGGAAAT-AC
1 GCCAGGGAAACAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACTGCAACGCCAAAGAAATGA-
* ** * *
37673389 GATTAACTGCCTTCAACTTTAATCTACTACGAT
65 GTTTCGCTGCCTTCAACTTTAATCTATTACAAT
* * * *
37673422 GCCAAGGAAATAAGATTTGCTGCCTTGAGCTTTAATCTGTTCCACTGCAACGCCAAAGAAATGA-
1 GCCAGGGAAACAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACTGCAACGCCAAAGAAATGAG
* * *
37673486 TATTCGCTGTCTTCAGCTTTAATCTATTGCAAT
66 T-TTCGCTGCCTTCAACTTTAATCTATTACAAT
*
37673519 GCCAGGGAAACAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACTGCAACGCCAAGGAAATGAG
1 GCCAGGGAAACAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACTGCAACGCCAAAGAAATGAG
*
37673584 TTTCGCTGCCTTCAACTTTAATCTATTTCAAT
66 TTTCGCTGCCTTCAACTTTAATCTATTACAAT
*
37673616 GCCAGGGAAACAAGATTCG-TCACCTTCAGCTTTAATCTGTTCCA
1 GCCAGGGAAACAAGATTCGCT-GCCTTCAGCTTTAATCTGTTCCA
37673660 TTGTAACTTT
Statistics
Matches: 206, Mismatches: 28, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
96 1 0.00
97 203 0.99
98 2 0.01
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (97 bp):
GCCAGGGAAACAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACTGCAACGCCAAAGAAATGAG
TTTCGCTGCCTTCAACTTTAATCTATTACAAT
Found at i:37673986 original size:24 final size:24
Alignment explanation
Indices: 37673959--37674014 Score: 94
Period size: 24 Copynumber: 2.3 Consensus size: 24
37673949 CAGATTGCCC
*
37673959 CCACTGTAATCTTCAAGGTTTAAT
1 CCACTGTAATCTTCAAGGTTCAAT
*
37673983 CCACTATAATCTTCAAGGTTCAAT
1 CCACTGTAATCTTCAAGGTTCAAT
37674007 CCACTGTA
1 CCACTGTA
37674015 CTTTTGGAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.30, C:0.25, G:0.11, T:0.34
Consensus pattern (24 bp):
CCACTGTAATCTTCAAGGTTCAAT
Found at i:37674527 original size:13 final size:13
Alignment explanation
Indices: 37674509--37674535 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
37674499 AGGAGAATAT
37674509 ATAAAAAAATAAA
1 ATAAAAAAATAAA
37674522 ATAAAAAAATAAA
1 ATAAAAAAATAAA
37674535 A
1 A
37674536 GGGAATTGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (13 bp):
ATAAAAAAATAAA
Found at i:37685155 original size:3 final size:3
Alignment explanation
Indices: 37685142--37685196 Score: 67
Period size: 3 Copynumber: 18.7 Consensus size: 3
37685132 TAATGAAAAC
* * * *
37685142 AAT AA- AAT AAT AAT ACT GAT AAT AAT AAA AAT AGT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
37685189 AAT AAT AA
1 AAT AAT AA
37685197 GTTCACGAAT
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
2 2 0.05
3 41 0.95
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:37686530 original size:11 final size:12
Alignment explanation
Indices: 37686510--37686542 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
37686500 GGACATTTAA
37686510 TTTTATTTTGGT
1 TTTTATTTTGGT
37686522 TTTTA-TTTGGT
1 TTTTATTTTGGT
*
37686533 TTTTTTTTTG
1 TTTTATTTTG
37686543 TCTTTGGTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.06, C:0.00, G:0.15, T:0.79
Consensus pattern (12 bp):
TTTTATTTTGGT
Found at i:37692332 original size:19 final size:19
Alignment explanation
Indices: 37692308--37692369 Score: 56
Period size: 19 Copynumber: 3.2 Consensus size: 19
37692298 ACACATCAGC
37692308 ATTTAATTAATTTTTTAAA
1 ATTTAATTAATTTTTTAAA
**
37692327 ATTTAAAAAATTTATTTAAA
1 ATTTAATTAATTT-TTTAAA
*
37692347 A--AAATATAATTTTTCTAAA
1 ATTTAAT-TAATTTTT-TAAA
37692366 ATTT
1 ATTT
37692370 TTTTAAAAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
18 4 0.12
19 21 0.66
20 7 0.22
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (19 bp):
ATTTAATTAATTTTTTAAA
Found at i:37693448 original size:48 final size:48
Alignment explanation
Indices: 37693369--37693462 Score: 138
Period size: 48 Copynumber: 2.0 Consensus size: 48
37693359 AGGGAATTCT
* *
37693369 GTTGAATCCTTTATTGTTGCGAGTTGAGCTGACTTAGGCGTTTTTACG
1 GTTGAATCCATTATTGGTGCGAGTTGAGCTGACTTAGGCGTTTTTACG
37693417 GTTGAATCCATTATTGGTG-GAAGTT-AGGCTGACTTAGGCGTTTTTA
1 GTTGAATCCATTATTGGTGCG-AGTTGA-GCTGACTTAGGCGTTTTTA
37693463 AGCCAAGAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
47 2 0.05
48 40 0.95
ACGTcount: A:0.19, C:0.13, G:0.28, T:0.40
Consensus pattern (48 bp):
GTTGAATCCATTATTGGTGCGAGTTGAGCTGACTTAGGCGTTTTTACG
Found at i:37699225 original size:19 final size:18
Alignment explanation
Indices: 37699193--37699231 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
37699183 AGTCCAAATA
37699193 CAAAAAAAAACTAAAAGCC
1 CAAAAAAAAACT-AAAGCC
**
37699212 CAAAAAAACCCTAAAGCC
1 CAAAAAAAAACTAAAGCC
37699230 CA
1 CA
37699232 CTACCTAAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.62, C:0.28, G:0.05, T:0.05
Consensus pattern (18 bp):
CAAAAAAAAACTAAAGCC
Found at i:37706147 original size:3 final size:3
Alignment explanation
Indices: 37706139--37706221 Score: 89
Period size: 3 Copynumber: 27.7 Consensus size: 3
37706129 ATATATAAAA
* *
37706139 AAT AAT AAT AAT AAT AAT GAT AGT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * *
37706187 AAT -AT CAAA AATT ATT AAT ATT AAT AAT AA- AAT AA
1 AAT AAT -AAT AA-T AAT AAT AAT AAT AAT AAT AAT AA
37706222 CCAAAATAAC
Statistics
Matches: 66, Mismatches: 10, Indels: 8
0.79 0.12 0.10
Matches are distributed among these distances:
2 4 0.06
3 60 0.91
4 2 0.03
ACGTcount: A:0.63, C:0.01, G:0.02, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:37709763 original size:21 final size:21
Alignment explanation
Indices: 37709718--37709765 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
37709708 TTTTTCTTGG
* **
37709718 GTCCAAGCTGATGTACTGTTG
1 GTCCAAGCTGATGTACTATCA
37709739 GTCCAAGCTGATGTACTATCA
1 GTCCAAGCTGATGTACTATCA
37709760 GTCCAA
1 GTCCAA
37709766 TCAATCATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.29
Consensus pattern (21 bp):
GTCCAAGCTGATGTACTATCA
Found at i:37711261 original size:83 final size:83
Alignment explanation
Indices: 37711163--37711331 Score: 266
Period size: 83 Copynumber: 2.0 Consensus size: 83
37711153 GGGGTGGGGT
*
37711163 GGGGTGGGGTGAGAATGAATGCACCAACATCCCATGGAAGTGATAATGATATTCAAAATTATACA
1 GGGGTGGGGTGAGAATGAATGCACCAACATCCCATGGAAGTGATAATGATATTCAAAATCATACA
* *
37711228 TCCATAGTGAAGTGGAGC
66 TCCATAATGAAGTAGAGC
* * * *
37711246 GGGGTGGGGTGAGAATGGATGCACGAACATCCCATGGAGGTGATAATGATTTTCAAAATCATACA
1 GGGGTGGGGTGAGAATGAATGCACCAACATCCCATGGAAGTGATAATGATATTCAAAATCATACA
*
37711311 TCTATAATGAAGTAGAGC
66 TCCATAATGAAGTAGAGC
37711329 GGG
1 GGG
37711332 TTGAGGTGGA
Statistics
Matches: 78, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
83 78 1.00
ACGTcount: A:0.34, C:0.14, G:0.30, T:0.23
Consensus pattern (83 bp):
GGGGTGGGGTGAGAATGAATGCACCAACATCCCATGGAAGTGATAATGATATTCAAAATCATACA
TCCATAATGAAGTAGAGC
Found at i:37719930 original size:42 final size:41
Alignment explanation
Indices: 37719884--37719989 Score: 158
Period size: 42 Copynumber: 2.5 Consensus size: 41
37719874 GAGACATTAA
*
37719884 ATTGGTGGATGGTGTTGTGGTGGGATCCATAGGAGTGGGAAG
1 ATTGGTGG-TGGTGTTGTGGTGGGATCCATAGGAGTAGGAAG
* *
37719926 ATTGGTGGGTGGTGTTGTGATGGGGTCCATAGGAGTAGGAAG
1 ATTGGT-GGTGGTGTTGTGGTGGGATCCATAGGAGTAGGAAG
37719968 ATTGGTAGGTGGTGTTGTGGTG
1 ATTGGT-GGTGGTGTTGTGGTG
37719990 TGACTCATAG
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
42 56 0.97
43 2 0.03
ACGTcount: A:0.17, C:0.04, G:0.48, T:0.31
Consensus pattern (41 bp):
ATTGGTGGTGGTGTTGTGGTGGGATCCATAGGAGTAGGAAG
Found at i:37725971 original size:22 final size:21
Alignment explanation
Indices: 37725946--37725986 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
37725936 TCTTCTTCTT
37725946 CTTTGAATCCTCTGCTTTCTAG
1 CTTTGAATCCTCTG-TTTCTAG
**
37725968 CTTTGTTTCCTCTGTTTCT
1 CTTTGAATCCTCTGTTTCT
37725987 TCTTCGTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.29
22 12 0.71
ACGTcount: A:0.07, C:0.27, G:0.12, T:0.54
Consensus pattern (21 bp):
CTTTGAATCCTCTGTTTCTAG
Found at i:37739298 original size:47 final size:47
Alignment explanation
Indices: 37739200--37739298 Score: 130
Period size: 47 Copynumber: 2.1 Consensus size: 47
37739190 AAAATTTTAA
* * *
37739200 AAAATGGAAAAATATTTTTTAAAAATAAAATAAAATAAACATTACTTT
1 AAAATGGAAAAAAACTTTTAAAAAATAAAATAAAATAAACATTA-TTT
37739248 AAAAT-GAAAAAAACTTTTAAAATAATAAAATAAAATTAAACATT-TTT
1 AAAATGGAAAAAAACTTTTAAAA-AATAAAATAAAA-TAAACATTATTT
37739295 AAAA
1 AAAA
37739299 AGTACATTAA
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
47 21 0.46
48 17 0.37
49 8 0.17
ACGTcount: A:0.62, C:0.04, G:0.03, T:0.31
Consensus pattern (47 bp):
AAAATGGAAAAAAACTTTTAAAAAATAAAATAAAATAAACATTATTT
Found at i:37745111 original size:47 final size:47
Alignment explanation
Indices: 37745059--37745750 Score: 1114
Period size: 47 Copynumber: 14.6 Consensus size: 47
37745049 GATAATTGTG
* * *
37745059 ATGTGAATGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
37745106 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
37745153 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
37745202 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
37745251 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
37745298 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
37745345 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
37745392 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGACCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
37745441 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
37745488 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
37745535 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
37745584 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
37745631 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * *
37745678 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
37745725 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
37745751 TCCCGAAGGG
Statistics
Matches: 606, Mismatches: 33, Indels: 12
0.93 0.05 0.02
Matches are distributed among these distances:
47 423 0.70
49 183 0.30
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:37745206 original size:143 final size:141
Alignment explanation
Indices: 37745059--37745750 Score: 1114
Period size: 143 Copynumber: 4.9 Consensus size: 141
37745049 GATAATTGTG
* * *
37745059 ATGTGAATGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
* * *
37745124 GTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATG
66 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATA
37745189 GCCGATGTGATGA
129 GCCGATGTGATGA
37745202 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
*
37745267 ATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATA
64 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATA
37745332 GCCGATGTGATGA
129 GCCGATGTGATGA
* *
37745345 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATAT
* *
37745410 ATGTGATAAGGCCTAATGACCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
64 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATA
37745475 GCCGATGTGATGA
129 GCCGATGTGATGA
* *
37745488 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATAT
37745553 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATA
64 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATA
37745618 GCCGATGTGATGA
129 GCCGATGTGATGA
*
37745631 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
* * * * * * * *
37745696 GTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
66 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
37745751 TCCCGAAGGG
Statistics
Matches: 520, Mismatches: 25, Indels: 10
0.94 0.05 0.02
Matches are distributed among these distances:
141 99 0.19
143 331 0.64
145 90 0.17
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (141 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGC
CGATGTGATGA
Found at i:37745451 original size:190 final size:191
Alignment explanation
Indices: 37745059--37745750 Score: 1169
Period size: 190 Copynumber: 3.6 Consensus size: 191
37745049 GATAATTGTG
* * *
37745059 ATGTGAATGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
37745124 GTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATG
66 GTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG-ATATATATGTGATAAGGCCTAATG
*
37745189 GCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
130 GCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGACCGATGTGATGA
*
37745251 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
* * * *
37745316 GTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG-TATATATGTGATAAGGCCGAATGG
66 GTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATGG
*
37745380 CCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGACCGATGTGATGA
131 CCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGACCGATGTGATGA
37745441 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
37745506 GTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATG
66 GTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG-ATATATATGTGATAAGGCCTAATG
37745571 GCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAAT-AGCCGATGTGATGA
130 GCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGA-CCGATGTGATGA
*
37745631 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
* * * * * *
37745696 GTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTG-TATAAATGTGATAAG
66 GTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGATATATATGTGATAAG
37745751 TCCCGAAGGG
Statistics
Matches: 474, Mismatches: 23, Indels: 10
0.93 0.05 0.02
Matches are distributed among these distances:
188 14 0.03
189 1 0.00
190 316 0.67
192 143 0.30
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (191 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
GTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATGG
CCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGACCGATGTGATGA
Found at i:37748220 original size:14 final size:14
Alignment explanation
Indices: 37748203--37748229 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
37748193 AAAATAAACC
37748203 GTACAAAAGAACAT
1 GTACAAAAGAACAT
37748217 GTACAAAAGAACA
1 GTACAAAAGAACA
37748230 GTGACTTGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.15, G:0.15, T:0.11
Consensus pattern (14 bp):
GTACAAAAGAACAT
Found at i:37762900 original size:46 final size:46
Alignment explanation
Indices: 37762810--37763037 Score: 271
Period size: 46 Copynumber: 4.9 Consensus size: 46
37762800 GAACAGCAGT
* * * *
37762810 AACAACATTCAGACATCATTGATTTG-TACAAAAATAGACAGCATTTA
1 AACAACATTCAGACAACA-TAATATGCTA-AAAAATGGACAGCATTTA
*
37762857 AACAACATTCAGACAGCATAATATGCTAAAAAATGGACAGCATTTA
1 AACAACATTCAGACAACATAATATGCTAAAAAATGGACAGCATTTA
* * * *
37762903 AACATCATTCGGACAACATAATATCCTCAAAAATGGACAGCATTTA
1 AACAACATTCAGACAACATAATATGCTAAAAAATGGACAGCATTTA
* * * *
37762949 AACAACATTCGGACAGCATAATATCCTAAAAAATGGACATCATTTA
1 AACAACATTCAGACAACATAATATGCTAAAAAATGGACAGCATTTA
* * *
37762995 AACATCATTC-GAATAACATAATATGCTCAAAAATGGACAGCAT
1 AACAACATTCAG-ACAACATAATATGCTAAAAAATGGACAGCAT
37763038 AATATCCTAA
Statistics
Matches: 160, Mismatches: 19, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
45 1 0.01
46 140 0.88
47 19 0.12
ACGTcount: A:0.46, C:0.19, G:0.11, T:0.24
Consensus pattern (46 bp):
AACAACATTCAGACAACATAATATGCTAAAAAATGGACAGCATTTA
Found at i:37762944 original size:92 final size:92
Alignment explanation
Indices: 37762838--37763037 Score: 337
Period size: 92 Copynumber: 2.2 Consensus size: 92
37762828 TTGATTTGTA
* *
37762838 CAAAAATAGACAGCATTTAAACAACATTCAGACAGCATAATATGCTAAAAAATGGACAGCATTTA
1 CAAAAATGGACAGCATTTAAACAACATTCAGACAGCATAATATCCTAAAAAATGGACAGCATTTA
*
37762903 AACATCATTCGGACAACATAATATCCT
66 AACATCATTCGAACAACATAATATCCT
* *
37762930 CAAAAATGGACAGCATTTAAACAACATTCGGACAGCATAATATCCTAAAAAATGGACATCATTTA
1 CAAAAATGGACAGCATTTAAACAACATTCAGACAGCATAATATCCTAAAAAATGGACAGCATTTA
* *
37762995 AACATCATTCGAATAACATAATATGCT
66 AACATCATTCGAACAACATAATATCCT
37763022 CAAAAATGGACAGCAT
1 CAAAAATGGACAGCAT
37763038 AATATCCTAA
Statistics
Matches: 101, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
92 101 1.00
ACGTcount: A:0.47, C:0.19, G:0.12, T:0.23
Consensus pattern (92 bp):
CAAAAATGGACAGCATTTAAACAACATTCAGACAGCATAATATCCTAAAAAATGGACAGCATTTA
AACATCATTCGAACAACATAATATCCT
Found at i:37763050 original size:24 final size:24
Alignment explanation
Indices: 37763011--37763059 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
37763001 ATTCGAATAA
* *
37763011 CATAATATGCTCAAAAATGGACAG
1 CATAATATCCTAAAAAATGGACAG
37763035 CATAATATCCTAAAAAATGGACAG
1 CATAATATCCTAAAAAATGGACAG
37763059 C
1 C
37763060 TTAAACAACA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.47, C:0.18, G:0.14, T:0.20
Consensus pattern (24 bp):
CATAATATCCTAAAAAATGGACAG
Found at i:37763094 original size:68 final size:69
Alignment explanation
Indices: 37762959--37763101 Score: 218
Period size: 68 Copynumber: 2.1 Consensus size: 69
37762949 AACAACATTC
* * * *
37762959 GGACAGCATAATATCCTAAAAAATGGACATCATTTAAACATCATTCGAATAACATAATATGCTCA
1 GGACAGCATAATATCCTAAAAAATGGACAGCA-TTAAACAACATTCGAACAACATAATATCCTCA
37763024 AAAAT
65 AAAAT
37763029 GGACAGCATAATATCCTAAAAAATGGACAGC-TTAAACAACATTC-AGACAACATAATATCCTCA
1 GGACAGCATAATATCCTAAAAAATGGACAGCATTAAACAACATTCGA-ACAACATAATATCCTCA
37763092 AAAAT
65 AAAAT
37763097 GGACA
1 GGACA
37763102 TCATTTAAAC
Statistics
Matches: 68, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
67 1 0.01
68 37 0.54
70 30 0.44
ACGTcount: A:0.48, C:0.19, G:0.11, T:0.22
Consensus pattern (69 bp):
GGACAGCATAATATCCTAAAAAATGGACAGCATTAAACAACATTCGAACAACATAATATCCTCAA
AAAT
Found at i:37763115 original size:114 final size:115
Alignment explanation
Indices: 37762913--37763151 Score: 374
Period size: 114 Copynumber: 2.1 Consensus size: 115
37762903 AACATCATTC
* * * *
37762913 GGACAACATAATATCCTCAAAAATGGACAGCATTTAAACAACATTCGGACAGCATAATATCCTAA
1 GGACAGCATAATATCCTAAAAAATGGACAGCA-TTAAACAACATTCAGACAACATAATATCCTAA
*
37762978 AAAATGGACATCATTTAAACATCATTCGAATAACATAATATGCTC-AAAAAT
65 AAAATGGACATCATTTAAACATCATTCGAACAACATAATATGC-CAAAAAAT
*
37763029 GGACAGCATAATATCCTAAAAAATGGACAGC-TTAAACAACATTCAGACAACATAATATCCTCAA
1 GGACAGCATAATATCCTAAAAAATGGACAGCATTAAACAACATTCAGACAACATAATATCCTAAA
*
37763093 AAATGGACATCATTTAAACATCATTCGGACAACATAATATGCCAAAAAAT
66 AAATGGACATCATTTAAACATCATTCGAACAACATAATATGCCAAAAAAT
*
37763143 GGATAGCAT
1 GGACAGCAT
37763152 TTTGTTATCA
Statistics
Matches: 114, Mismatches: 8, Indels: 4
0.90 0.06 0.03
Matches are distributed among these distances:
113 1 0.01
114 84 0.74
116 29 0.25
ACGTcount: A:0.46, C:0.19, G:0.11, T:0.23
Consensus pattern (115 bp):
GGACAGCATAATATCCTAAAAAATGGACAGCATTAAACAACATTCAGACAACATAATATCCTAAA
AAATGGACATCATTTAAACATCATTCGAACAACATAATATGCCAAAAAAT
Found at i:37763153 original size:46 final size:46
Alignment explanation
Indices: 37763029--37763153 Score: 166
Period size: 46 Copynumber: 2.8 Consensus size: 46
37763019 GCTCAAAAAT
*
37763029 GGACAGCATAATATCCTAAAAAATGGACAGC--TTAAACAACATTC
1 GGACAACATAATATCCTAAAAAATGGACAGCATTTAAACAACATTC
* * * *
37763073 AGACAACATAATATCCTCAAAAATGGACATCATTTAAACATCATTC
1 GGACAACATAATATCCTAAAAAATGGACAGCATTTAAACAACATTC
*
37763119 GGACAACATAATATGCC-AAAAAATGGATAGCATTT
1 GGACAACATAATAT-CCTAAAAAATGGACAGCATTT
37763154 TGTTATCACG
Statistics
Matches: 69, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
44 27 0.39
46 40 0.58
47 2 0.03
ACGTcount: A:0.46, C:0.19, G:0.12, T:0.23
Consensus pattern (46 bp):
GGACAACATAATATCCTAAAAAATGGACAGCATTTAAACAACATTC
Found at i:37763914 original size:44 final size:44
Alignment explanation
Indices: 37763762--37763914 Score: 147
Period size: 44 Copynumber: 3.5 Consensus size: 44
37763752 AGCTTGTACA
* * *
37763762 ATGCCAACGTCCCAGACGTGGTCTTACATGT-AATC-AAATATCAA
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAAATCTCAA-ATC-G
** * *
37763806 ATGCCATTGTCCCAGACAG-GGTCTTACAC--AAA-ATCATATACG
1 ATGCCAACGTCCCAGAC-GTGGTCTTACACGTAAATCTCAAAT-CG
* *
37763848 ATGCCAATGTCCCAGACATGGTCTTACACGTAAATCTCAAATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAAATCTCAAATCG
37763892 ATGCCAACGTCCCAGACGTGGTC
1 ATGCCAACGTCCCAGACGTGGTC
37763915 ATGACATATG
Statistics
Matches: 88, Mismatches: 13, Indels: 16
0.75 0.11 0.14
Matches are distributed among these distances:
42 28 0.32
43 4 0.05
44 50 0.57
45 6 0.07
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (44 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAAATCTCAAATCG
Found at i:37765468 original size:20 final size:19
Alignment explanation
Indices: 37765425--37765468 Score: 65
Period size: 17 Copynumber: 2.4 Consensus size: 19
37765415 CTTGAAAATA
37765425 AGCATTATTATTAGGTTTT
1 AGCATTATTATTAGGTTTT
37765444 A--ATTATTATTAGGATTTT
1 AGCATTATTATTAGG-TTTT
37765462 AGCATTA
1 AGCATTA
37765469 ACTTGTTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
17 12 0.55
18 5 0.23
19 1 0.05
20 4 0.18
ACGTcount: A:0.32, C:0.05, G:0.14, T:0.50
Consensus pattern (19 bp):
AGCATTATTATTAGGTTTT
Done.