Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr5
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: 43060996
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2186021 characters in sequence are not A, C, G, or T
File 41 of 128
Found at i:12818716 original size:27 final size:26
Alignment explanation
Indices: 12818617--12818721 Score: 97
Period size: 27 Copynumber: 3.9 Consensus size: 26
12818607 TCCAATGTTT
*
12818617 CATTTCATATATCTATTTCCATATAAC
1 CATTTCATATAACTATTT-CATATAAC
* *
12818644 CGA-TTCATATAAATATTTCATATATC
1 C-ATTTCATATAACTATTTCATATAAC
* *
12818670 TATTTTCATATAACCGA-TTCATATAAC
1 CA-TTTCATATAA-CTATTTCATATAAC
*
12818697 CATTTCATATATCTATATTCATATA
1 CATTTCATATAACTAT-TTCATATA
12818722 TTCATTTTCA
Statistics
Matches: 62, Mismatches: 10, Indels: 12
0.74 0.12 0.14
Matches are distributed among these distances:
25 3 0.05
26 16 0.26
27 41 0.66
28 2 0.03
ACGTcount: A:0.36, C:0.18, G:0.02, T:0.44
Consensus pattern (26 bp):
CATTTCATATAACTATTTCATATAAC
Found at i:12818731 original size:14 final size:14
Alignment explanation
Indices: 12818619--12818731 Score: 60
Period size: 13 Copynumber: 8.4 Consensus size: 14
12818609 CAATGTTTCA
12818619 TTTCATATATCTAT
1 TTTCATATATCTAT
* * *
12818633 TTCCATATAACCGA-
1 TTTCATAT-ATCTAT
**
12818647 -TTCATATAAATA-
1 TTTCATATATCTAT
12818659 TTTCATATATCTAT
1 TTTCATATATCTAT
* *
12818673 TTTCATATAACCGA-
1 TTTCATAT-ATCTAT
* *
12818687 -TTCATATAACCA-
1 TTTCATATATCTAT
12818699 TTTCATATATCTAT
1 TTTCATATATCTAT
*
12818713 ATTCATATAT-TCAT
1 TTTCATATATCT-AT
12818727 TTTCA
1 TTTCA
12818732 CACGATGAAC
Statistics
Matches: 75, Mismatches: 17, Indels: 14
0.71 0.16 0.13
Matches are distributed among these distances:
12 5 0.07
13 34 0.45
14 30 0.40
15 6 0.08
ACGTcount: A:0.35, C:0.18, G:0.02, T:0.46
Consensus pattern (14 bp):
TTTCATATATCTAT
Found at i:12821162 original size:23 final size:25
Alignment explanation
Indices: 12821135--12821186 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 25
12821125 TTTTTTTAGC
12821135 TATTTCATTATTTAGTTATT-TT-T
1 TATTTCATTATTTAGTTATTGTTAT
* * *
12821158 TATTTCTTTTTTTTGTTATTGTTAT
1 TATTTCATTATTTAGTTATTGTTAT
12821183 TATT
1 TATT
12821187 ATTATTGTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 17 0.71
24 2 0.08
25 5 0.21
ACGTcount: A:0.17, C:0.04, G:0.06, T:0.73
Consensus pattern (25 bp):
TATTTCATTATTTAGTTATTGTTAT
Found at i:12821233 original size:26 final size:23
Alignment explanation
Indices: 12821204--12821261 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 23
12821194 TTATTATTTC
*
12821204 TATATTTATACACGCATTTTTTA
1 TATATATATACACGCATTTTTTA
* *
12821227 TAGTATATATATATGCATTTTTTA
1 TA-TATATATACACGCATTTTTTA
12821251 TATATAATATA
1 TATAT-ATATA
12821262 TATATTTTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
23 5 0.17
24 25 0.83
ACGTcount: A:0.36, C:0.07, G:0.05, T:0.52
Consensus pattern (23 bp):
TATATATATACACGCATTTTTTA
Found at i:12821244 original size:24 final size:24
Alignment explanation
Indices: 12821217--12821264 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
12821207 ATTTATACAC
12821217 GCATTTTTTATAGTAT-ATATATAT
1 GCATTTTTTATA-TATAATATATAT
12821241 GCATTTTTTATATATAATATATAT
1 GCATTTTTTATATATAATATATAT
12821265 ATTTTTAACT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 3 0.13
24 20 0.87
ACGTcount: A:0.35, C:0.04, G:0.06, T:0.54
Consensus pattern (24 bp):
GCATTTTTTATATATAATATATAT
Found at i:12825592 original size:23 final size:25
Alignment explanation
Indices: 12825565--12825616 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 25
12825555 TTTTTTTAGC
12825565 TATTTCATTATTTAGTTATT-TT-T
1 TATTTCATTATTTAGTTATTGTTAT
* * *
12825588 TATTTCTTTTTTTTGTTATTGTTAT
1 TATTTCATTATTTAGTTATTGTTAT
12825613 TATT
1 TATT
12825617 ATTATTGTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 17 0.71
24 2 0.08
25 5 0.21
ACGTcount: A:0.17, C:0.04, G:0.06, T:0.73
Consensus pattern (25 bp):
TATTTCATTATTTAGTTATTGTTAT
Found at i:12825663 original size:26 final size:23
Alignment explanation
Indices: 12825634--12825691 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 23
12825624 TTATTATTTC
*
12825634 TATATTTATACACGCATTTTTTA
1 TATATATATACACGCATTTTTTA
* *
12825657 TAGTATATATATATGCATTTTTTA
1 TA-TATATATACACGCATTTTTTA
12825681 TATATAATATA
1 TATAT-ATATA
12825692 TATATTTTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
23 5 0.17
24 25 0.83
ACGTcount: A:0.36, C:0.07, G:0.05, T:0.52
Consensus pattern (23 bp):
TATATATATACACGCATTTTTTA
Found at i:12825674 original size:24 final size:24
Alignment explanation
Indices: 12825647--12825694 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
12825637 ATTTATACAC
12825647 GCATTTTTTATAGTAT-ATATATAT
1 GCATTTTTTATA-TATAATATATAT
12825671 GCATTTTTTATATATAATATATAT
1 GCATTTTTTATATATAATATATAT
12825695 ATTTTTAACT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 3 0.13
24 20 0.87
ACGTcount: A:0.35, C:0.04, G:0.06, T:0.54
Consensus pattern (24 bp):
GCATTTTTTATATATAATATATAT
Found at i:12830711 original size:6 final size:6
Alignment explanation
Indices: 12830700--12830739 Score: 73
Period size: 6 Copynumber: 6.8 Consensus size: 6
12830690 TGAAAGTGAT
12830700 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG -AAAAG AAAAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAA
12830740 TGGAGAGGCC
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 5 0.15
6 28 0.85
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:12840747 original size:34 final size:35
Alignment explanation
Indices: 12840613--12840766 Score: 93
Period size: 34 Copynumber: 4.5 Consensus size: 35
12840603 TTCAATTATG
* *
12840613 TCCCGCCATAATGCCAGAACTTCATT-TATCAATCA
1 TCCCGCCACAATGCCAGAACTTCATTCAATCAA-CA
* * ** *
12840648 TCCAGCCACAATGCCA-ATAATTTTTTCAATTAACA
1 TCCCGCCACAATGCCAGA-ACTTCATTCAATCAACA
* * * **
12840683 TTCTG-TACAACCCCA-ATACTTCATTCAATCAACA
1 TCCCGCCACAATGCCAGA-ACTTCATTCAATCAACA
* *
12840717 TCCCGCCACAATGCCAGAATTTCATT-AATCAATA
1 TCCCGCCACAATGCCAGAACTTCATTCAATCAACA
* * *
12840751 TCTCTCCACAACGCCA
1 TCCCGCCACAATGCCA
12840767 ATAGATCAAA
Statistics
Matches: 89, Mismatches: 26, Indels: 9
0.72 0.21 0.07
Matches are distributed among these distances:
34 46 0.52
35 38 0.43
36 5 0.06
ACGTcount: A:0.34, C:0.32, G:0.06, T:0.28
Consensus pattern (35 bp):
TCCCGCCACAATGCCAGAACTTCATTCAATCAACA
Found at i:12841009 original size:9 final size:9
Alignment explanation
Indices: 12840995--12841019 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
12840985 CACTCAATAG
12840995 AACAACATC
1 AACAACATC
12841004 AACAACATC
1 AACAACATC
12841013 AACAACA
1 AACAACA
12841020 ACAAAGTTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.60, C:0.32, G:0.00, T:0.08
Consensus pattern (9 bp):
AACAACATC
Found at i:12852927 original size:19 final size:19
Alignment explanation
Indices: 12852900--12852940 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
12852890 TAAAATAAGT
12852900 ATGTGATTACAATCATCTC
1 ATGTGATTACAATCATCTC
*
12852919 ATGTTATTACAATCATCTC
1 ATGTGATTACAATCATCTC
12852938 ATG
1 ATG
12852941 ATTAGTCTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.32, C:0.20, G:0.10, T:0.39
Consensus pattern (19 bp):
ATGTGATTACAATCATCTC
Found at i:12862241 original size:35 final size:34
Alignment explanation
Indices: 12862202--12862286 Score: 91
Period size: 34 Copynumber: 2.5 Consensus size: 34
12862192 TTAACATTTC
* **
12862202 GCCACAACCCCAATACTTAATTAAATTTACATCCT
1 GCCACAACACCAATACTTAATT-AATCAACATCCT
* *
12862237 GCCACAACACCAGA-ACTTTATTAATCAATATCCT
1 GCCACAACACCA-ATACTTAATTAATCAACATCCT
*
12862271 GCCACAACGCCAATAC
1 GCCACAACACCAATAC
12862287 GTCATAACAT
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
33 1 0.02
34 22 0.52
35 18 0.43
36 1 0.02
ACGTcount: A:0.38, C:0.33, G:0.06, T:0.24
Consensus pattern (34 bp):
GCCACAACACCAATACTTAATTAATCAACATCCT
Found at i:12872858 original size:87 final size:87
Alignment explanation
Indices: 12872706--12872868 Score: 231
Period size: 87 Copynumber: 1.9 Consensus size: 87
12872696 CATGTATAAC
* * *
12872706 GTTGAGTTCTTACTCTTGATGAATTCATAGCCCCCGAGTTTTGGTGATCACATTGAGACGAACTT
1 GTTGAGTTCTTACTCTTAATGAATTCATAGCCCCAGAGTTTGGGTGATCACATTGAGACGAACTT
12872771 GATGAATTCACCGACATGTGAG
66 GATGAATTCACCGACATGTGAG
* * * *
12872793 GTTGAGTTTCTTACTCTTAATGAGTTCATA-TCCCAGAGTTTGGGTGGTC-CTATTGAGACGTAC
1 GTTGAG-TTCTTACTCTTAATGAATTCATAGCCCCAGAGTTTGGGTGATCAC-ATTGAGACGAAC
12872856 TTGATGAATTCAC
64 TTGATGAATTCAC
12872869 TGAATTTAAA
Statistics
Matches: 67, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
86 1 0.01
87 45 0.67
88 21 0.31
ACGTcount: A:0.24, C:0.18, G:0.23, T:0.35
Consensus pattern (87 bp):
GTTGAGTTCTTACTCTTAATGAATTCATAGCCCCAGAGTTTGGGTGATCACATTGAGACGAACTT
GATGAATTCACCGACATGTGAG
Found at i:12873758 original size:24 final size:24
Alignment explanation
Indices: 12873730--12873782 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 24
12873720 CACATGTTTC
12873730 TTTTCAG-TATATTTTTCGATTAGT
1 TTTTCAGCTATATTTTTCGATTA-T
*
12873754 TTTTCAGCTCTATTTTTCGATTAT
1 TTTTCAGCTATATTTTTCGATTAT
12873778 TTTTC
1 TTTTC
12873783 TTTTCTTTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
24 13 0.48
25 14 0.52
ACGTcount: A:0.17, C:0.13, G:0.09, T:0.60
Consensus pattern (24 bp):
TTTTCAGCTATATTTTTCGATTAT
Found at i:12873780 original size:11 final size:11
Alignment explanation
Indices: 12873739--12873782 Score: 52
Period size: 11 Copynumber: 3.7 Consensus size: 11
12873729 CTTTTCAGTA
12873739 TATTTTTCGAT
1 TATTTTTCGAT
*
12873750 TAGTTTTTCAGCT
1 TA-TTTTTC-GAT
12873763 CTATTTTTCGAT
1 -TATTTTTCGAT
12873775 TATTTTTC
1 TATTTTTC
12873783 TTTTCTTTTC
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
11 10 0.36
12 8 0.29
13 8 0.29
14 2 0.07
ACGTcount: A:0.16, C:0.14, G:0.09, T:0.61
Consensus pattern (11 bp):
TATTTTTCGAT
Found at i:12874319 original size:20 final size:21
Alignment explanation
Indices: 12874281--12874319 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
12874271 AAATCTAAAA
*
12874281 AAAAAGAATAATAGCTAAATT
1 AAAAAGAATAAAAGCTAAATT
*
12874302 AAAAA-AATAAAAGTTAAA
1 AAAAAGAATAAAAGCTAAA
12874320 GGCTAAATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.69, C:0.03, G:0.08, T:0.21
Consensus pattern (21 bp):
AAAAAGAATAAAAGCTAAATT
Found at i:12877566 original size:23 final size:23
Alignment explanation
Indices: 12877539--12877583 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 23
12877529 CGAAAATATT
12877539 AAATATATATA-TTTTTATTTTTA
1 AAATATA-ATAGTTTTTATTTTTA
12877562 AAATATAATAGTTTTTTATTTT
1 AAATATAATAG-TTTTTATTTT
12877584 AAGTTTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 3 0.15
23 7 0.35
24 10 0.50
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (23 bp):
AAATATAATAGTTTTTATTTTTA
Found at i:12877780 original size:16 final size:16
Alignment explanation
Indices: 12877759--12877800 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
12877749 AATAATTTGA
*
12877759 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
12877775 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
12877791 TAGTTTTAAT
1 TAATTTTAAT
12877801 TTTATTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:12877784 original size:22 final size:22
Alignment explanation
Indices: 12877774--12877828 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
12877764 TTACTAACAA
* * *
12877774 TTAATTTTAATAACAATTAGTT
1 TTAATTTTAATAAAAAATAATT
*
12877796 TTAATTTTATTAAAAAATAATT
1 TTAATTTTAATAAAAAATAATT
12877818 TTAATTTTAAT
1 TTAATTTTAAT
12877829 TTTAATTTTA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (22 bp):
TTAATTTTAATAAAAAATAATT
Found at i:12877822 original size:6 final size:6
Alignment explanation
Indices: 12877813--12877841 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
12877803 TATTAAAAAA
12877813 TAATTT TAATTT TAATTT TAATTT TAATT
1 TAATTT TAATTT TAATTT TAATTT TAATT
12877842 AAAAACGGGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (6 bp):
TAATTT
Found at i:12894855 original size:19 final size:19
Alignment explanation
Indices: 12894831--12894870 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
12894821 GTAAATCGTT
12894831 TGATTGGAATAACGGAATA
1 TGATTGGAATAACGGAATA
12894850 TGATTGGAATAACGGAATA
1 TGATTGGAATAACGGAATA
12894869 TG
1 TG
12894871 TTGCTTGTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.40, C:0.05, G:0.28, T:0.28
Consensus pattern (19 bp):
TGATTGGAATAACGGAATA
Found at i:12897925 original size:50 final size:50
Alignment explanation
Indices: 12897834--12898053 Score: 194
Period size: 51 Copynumber: 4.4 Consensus size: 50
12897824 CGGGTTGCAA
* * * *
12897834 AGGCTTTCCAGATAACTTCACCACTAAGGCTTCCCAAATAATATGACACGT
1 AGGCTTTTCAGATAAC-TCACCACAAAGGCTTTCCAAATAATATGACACAT
* *
12897885 AGGCTTTTCAGATAACTCACCACAAAGGCTTTCCAGATAATATGCCACAT
1 AGGCTTTTCAGATAACTCACCACAAAGGCTTTCCAAATAATATGACACAT
* * * * * *
12897935 AGGC-CTTCAGATAACTCGCCATAAAGGCTTTCCAAATGACT-TGTCACAA
1 AGGCTTTTCAGATAACTCACCACAAAGGCTTTCCAAAT-AATATGACACAT
* * ** * * *
12897984 AGGCTTTCCAAATAACTTTGCCACTAAGGCTTCCCAAATAATATGTCACAT
1 AGGCTTTTCAGATAAC-TCACCACAAAGGCTTTCCAAATAATATGACACAT
* *
12898035 AGACCTTTT-AAATAACTCA
1 AG-GCTTTTCAGATAACTCA
12898054 ACATTAAGGC
Statistics
Matches: 138, Mismatches: 26, Indels: 11
0.79 0.15 0.06
Matches are distributed among these distances:
49 39 0.28
50 46 0.33
51 49 0.36
52 4 0.03
ACGTcount: A:0.34, C:0.26, G:0.13, T:0.27
Consensus pattern (50 bp):
AGGCTTTTCAGATAACTCACCACAAAGGCTTTCCAAATAATATGACACAT
Found at i:12897955 original size:24 final size:24
Alignment explanation
Indices: 12897891--12897962 Score: 74
Period size: 24 Copynumber: 3.0 Consensus size: 24
12897881 ACGTAGGCTT
* *
12897891 TTCAGATAACTCACCACAAAGGCT
1 TTCAGATAACTCGCCACAAAGGCC
* *
12897915 TTCCAGATAA-TATGCCACATAGGCC
1 TT-CAGATAACT-CGCCACAAAGGCC
*
12897940 TTCAGATAACTCGCCATAAAGGC
1 TTCAGATAACTCGCCACAAAGGC
12897963 TTTCCAAATG
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
24 19 0.50
25 19 0.50
ACGTcount: A:0.35, C:0.28, G:0.15, T:0.22
Consensus pattern (24 bp):
TTCAGATAACTCGCCACAAAGGCC
Found at i:12897963 original size:49 final size:50
Alignment explanation
Indices: 12897834--12898036 Score: 166
Period size: 50 Copynumber: 4.0 Consensus size: 50
12897824 CGGGTTGCAA
* *
12897834 AGGCT-TTCCAGATAACTTCACCACT-AAGGCTTCCCAAATAATATGACACGT
1 AGGCTCTT-CAGATAAC-TCACCA-TAAAGGCTTTCCAAATAATATGACACAT
* * * *
12897885 AGGCTTTTCAGATAACTCACCACAAAGGCTTTCCAGATAATATGCCACAT
1 AGGCTCTTCAGATAACTCACCATAAAGGCTTTCCAAATAATATGACACAT
* * * *
12897935 AGGC-CTTCAGATAACTCGCCATAAAGGCTTTCCAAATGACT-TGTCACAA
1 AGGCTCTTCAGATAACTCACCATAAAGGCTTTCCAAAT-AATATGACACAT
* ** * *
12897984 AGGCT-TTCCAAATAACTTTGCCACT-AAGGCTTCCCAAATAATATGTCACAT
1 AGGCTCTT-CAGATAAC-TCACCA-TAAAGGCTTTCCAAATAATATGACACAT
12898035 AG
1 AG
12898037 ACCTTTTAAA
Statistics
Matches: 127, Mismatches: 17, Indels: 16
0.79 0.11 0.10
Matches are distributed among these distances:
49 41 0.32
50 43 0.34
51 40 0.31
52 3 0.02
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.26
Consensus pattern (50 bp):
AGGCTCTTCAGATAACTCACCATAAAGGCTTTCCAAATAATATGACACAT
Found at i:12897985 original size:25 final size:26
Alignment explanation
Indices: 12897831--12898024 Score: 130
Period size: 25 Copynumber: 7.7 Consensus size: 26
12897821 ACTCGGGTTG
* **
12897831 CAAAGGCTTTCCAGATAACTTCACCA
1 CAAAGGCTTTCCAAATAACTTTGCCA
* * * *
12897857 CTAAGGCTTCCCAAATAA-TATGACA
1 CAAAGGCTTTCCAAATAACTTTGCCA
** * * **
12897882 CGTAGGCTTTTCAGATAAC-TCACCA
1 CAAAGGCTTTCCAAATAACTTTGCCA
* *
12897907 CAAAGGCTTTCCAGATAA-TATGCCA
1 CAAAGGCTTTCCAAATAACTTTGCCA
* * * *
12897932 CATAGGCCTT-CAGATAAC-TCGCCA
1 CAAAGGCTTTCCAAATAACTTTGCCA
* * *
12897956 TAAAGGCTTTCCAAATGAC-TTGTCA
1 CAAAGGCTTTCCAAATAACTTTGCCA
12897981 CAAAGGCTTTCCAAATAACTTTGCCA
1 CAAAGGCTTTCCAAATAACTTTGCCA
* *
12898007 CTAAGGCTTCCCAAATAA
1 CAAAGGCTTTCCAAATAA
12898025 TATGTCACAT
Statistics
Matches: 125, Mismatches: 38, Indels: 10
0.72 0.22 0.06
Matches are distributed among these distances:
24 18 0.14
25 71 0.57
26 36 0.29
ACGTcount: A:0.34, C:0.27, G:0.14, T:0.25
Consensus pattern (26 bp):
CAAAGGCTTTCCAAATAACTTTGCCA
Found at i:12904371 original size:48 final size:48
Alignment explanation
Indices: 12904302--12904500 Score: 254
Period size: 48 Copynumber: 4.1 Consensus size: 48
12904292 TCAGAATAAA
* * *
12904302 AACAGATTTCTCGGTGGCCTGCACACAGTCCATTCCACCTTTGTATAAT
1 AACAGA-TTCTCGGTGGCCTGCACACAGTCCATGCCACCCTTGTATCAT
* * *
12904351 AACAGATTCTCGGTGGCCTGCACATAGTCCGTGCCACCCTTGTATCTT
1 AACAGATTCTCGGTGGCCTGCACACAGTCCATGCCACCCTTGTATCAT
* * * * *
12904399 AACAGGTTGTTGGTGGCCTGCACACAGTCCGTGCCACCCTTATATCAT
1 AACAGATTCTCGGTGGCCTGCACACAGTCCATGCCACCCTTGTATCAT
* * * *
12904447 AACAGAATATCGGTGGTCTGCACACAGTCCATGCCACCCTTGTGTCAT
1 AACAGATTCTCGGTGGCCTGCACACAGTCCATGCCACCCTTGTATCAT
12904495 AACAGA
1 AACAGA
12904501 ATATCGGTAC
Statistics
Matches: 130, Mismatches: 20, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
48 124 0.95
49 6 0.05
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (48 bp):
AACAGATTCTCGGTGGCCTGCACACAGTCCATGCCACCCTTGTATCAT
Found at i:12905998 original size:15 final size:16
Alignment explanation
Indices: 12905978--12906012 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
12905968 ATTTAACGGT
12905978 AAATTTTATA-TTTGA
1 AAATTTTATATTTTGA
*
12905993 AAATTTTTTATTTTGA
1 AAATTTTATATTTTGA
12906009 AAAT
1 AAAT
12906013 GCCATTAGGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.54
Consensus pattern (16 bp):
AAATTTTATATTTTGA
Found at i:12906007 original size:16 final size:17
Alignment explanation
Indices: 12905981--12906012 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
12905971 TAACGGTAAA
12905981 TTTTATATTTGAAAATT
1 TTTTATATTTGAAAATT
12905998 TTTTAT-TTTGAAAAT
1 TTTTATATTTGAAAAT
12906013 GCCATTAGGC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.59
Consensus pattern (17 bp):
TTTTATATTTGAAAATT
Found at i:12913856 original size:23 final size:22
Alignment explanation
Indices: 12913817--12913859 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 22
12913807 GATTGAATTG
12913817 AATTTTTAATATCTTATTTTAT
1 AATTTTTAATATCTTATTTTAT
12913839 AATTTTATAATAAT-TTATTTT
1 AATTTT-TAAT-ATCTTATTTT
12913860 TATTGAACTG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 6 0.32
23 11 0.58
24 2 0.11
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (22 bp):
AATTTTTAATATCTTATTTTAT
Found at i:12916647 original size:32 final size:31
Alignment explanation
Indices: 12916593--12916652 Score: 75
Period size: 32 Copynumber: 1.9 Consensus size: 31
12916583 AATTATCACA
12916593 TGGCACATTTTCATCAGCCAAAATATGCCATG
1 TGGCACATTTTCATCAGCCAAAAT-TGCCATG
* ** *
12916625 TGGCACCTTTTCATTTGTCAAAATTGCC
1 TGGCACATTTTCATCAGCCAAAATTGCC
12916653 TAACAATTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
31 4 0.17
32 20 0.83
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.33
Consensus pattern (31 bp):
TGGCACATTTTCATCAGCCAAAATTGCCATG
Found at i:12917814 original size:19 final size:19
Alignment explanation
Indices: 12917752--12917820 Score: 52
Period size: 19 Copynumber: 3.5 Consensus size: 19
12917742 GACATTTTCC
*
12917752 ATTAAGTGTAATTAATGGTTGG
1 ATTAAGT-TAATTAA--GTTAG
* **
12917774 ATTATGTTAATTAA-CAATG
1 ATTAAGTTAATTAAGTTA-G
12917793 ATTAAGTTAATTAAGTTAG
1 ATTAAGTTAATTAAGTTAG
12917812 ATTAA-TTAA
1 ATTAAGTTAA
12917821 GTCTTAATCA
Statistics
Matches: 38, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
18 4 0.11
19 20 0.53
20 1 0.03
21 7 0.18
22 6 0.16
ACGTcount: A:0.41, C:0.01, G:0.16, T:0.42
Consensus pattern (19 bp):
ATTAAGTTAATTAAGTTAG
Found at i:12919674 original size:6 final size:6
Alignment explanation
Indices: 12919635--12919674 Score: 62
Period size: 6 Copynumber: 6.5 Consensus size: 6
12919625 CAAGTTTCCA
*
12919635 TTTCTAT TTTCAT TTTCAT TTTCAT TTCCAT TTTCAT TTT
1 TTTC-AT TTTCAT TTTCAT TTTCAT TTTCAT TTTCAT TTT
12919675 TGGAAACCTA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
6 27 0.87
7 4 0.13
ACGTcount: A:0.15, C:0.17, G:0.00, T:0.68
Consensus pattern (6 bp):
TTTCAT
Found at i:12923890 original size:30 final size:30
Alignment explanation
Indices: 12923867--12924127 Score: 380
Period size: 30 Copynumber: 8.7 Consensus size: 30
12923857 GTATATGTTT
* *
12923867 TATATATTGCCGAATTGA-TTGTATATGGG
1 TATACATTGCCGAATTGATTTGTATATGGA
*
12923896 TATACATTTCCGAATTGATTTGTATATGGA
1 TATACATTGCCGAATTGATTTGTATATGGA
* *
12923926 TATACATTGTCAAATTGATTTGTATATGGA
1 TATACATTGCCGAATTGATTTGTATATGGA
***
12923956 TATACATTGTTAAATTGATTTGTATATGGA
1 TATACATTGCCGAATTGATTTGTATATGGA
*
12923986 TATACATTGCCGAATTAATTTGTATATGGA
1 TATACATTGCCGAATTGATTTGTATATGGA
* *
12924016 TATACATTGCTGAATTGATTTGTATATCGA
1 TATACATTGCCGAATTGATTTGTATATGGA
* *
12924046 TATACATTGTCGAATTGATTTGTATATAGA
1 TATACATTGCCGAATTGATTTGTATATGGA
*
12924076 TATACATTGCCGAATTGATTTGTATATGTA
1 TATACATTGCCGAATTGATTTGTATATGGA
*
12924106 TATATATTGCCGAATTGATTTG
1 TATACATTGCCGAATTGATTTG
12924128 AGCATTGGAT
Statistics
Matches: 210, Mismatches: 21, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
29 16 0.08
30 194 0.92
ACGTcount: A:0.31, C:0.08, G:0.18, T:0.43
Consensus pattern (30 bp):
TATACATTGCCGAATTGATTTGTATATGGA
Found at i:12924354 original size:41 final size:42
Alignment explanation
Indices: 12924248--12924370 Score: 144
Period size: 43 Copynumber: 2.9 Consensus size: 42
12924238 GATGTGTGAT
*
12924248 TTCGTGTAAGACCATGTCTGGGACATTGGCATCAAAGTGAGAAA
1 TTCGTGTAAGACCATGTCTGGGACATTGGCATCATA-TGAG-AA
*
12924292 AT-GTGTAAGACCATGTCTGGGACATTGGCATCATAT-ATG-A
1 TTCGTGTAAGACCATGTCTGGGACATTGGCATCATATGA-GAA
* * *
12924332 TTCGTATAAGACCCTGTCTGGGACAGTGGCATCGATATG
1 TTCGTGTAAGACCATGTCTGGGACATTGGCATC-ATATG
12924371 CGTTAACATG
Statistics
Matches: 69, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
40 2 0.03
41 28 0.41
42 6 0.09
43 32 0.46
44 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (42 bp):
TTCGTGTAAGACCATGTCTGGGACATTGGCATCATATGAGAA
Found at i:12928073 original size:9 final size:9
Alignment explanation
Indices: 12928056--12928092 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
12928046 TGAGTTTTCG
12928056 AATTCGAAT
1 AATTCGAAT
*
12928065 AACTCGAAT
1 AATTCGAAT
12928074 AATTCGAAT
1 AATTCGAAT
12928083 AATTCGAAT
1 AATTCGAAT
12928092 A
1 A
12928093 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:12928169 original size:21 final size:21
Alignment explanation
Indices: 12928128--12928170 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
12928118 ACCCCAAACT
* *
12928128 CTCAAACCTTTTTACTTTTCC
1 CTCAAAACTTTTTACTCTTCC
12928149 CTCAAAAC-TTTTACTCCTTCC
1 CTCAAAACTTTTTACT-CTTCC
12928170 C
1 C
12928171 ACTTTCCCCC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.21, C:0.37, G:0.00, T:0.42
Consensus pattern (21 bp):
CTCAAAACTTTTTACTCTTCC
Found at i:12928903 original size:5 final size:5
Alignment explanation
Indices: 12928893--12928918 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
12928883 CTCGAAAATT
12928893 TTCGA TTCGA TTCGA TTCGA TTCGA T
1 TTCGA TTCGA TTCGA TTCGA TTCGA T
12928919 CGAATGCTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (5 bp):
TTCGA
Found at i:12935239 original size:77 final size:77
Alignment explanation
Indices: 12935151--12935294 Score: 227
Period size: 77 Copynumber: 1.9 Consensus size: 77
12935141 TTTTTAAACA
* * * *
12935151 TTTAAATTTTAAATTATTCTAAATACTTTTTGGG-ATATTTGAAATACAGTTTATAAATAAATAA
1 TTTAAAATTTAAATTATTCCAAATACTTTTTGGGAATATTTGAAATACAGTGTATAAAGAAA-AA
12935215 AAATTATATGTAT
65 AAATTATATGTAT
*
12935228 TTTAAAATTTAAATTATTCCAAATACTTTTTGGGAATATTTGAAATACGGTGTATAAAGAAAAAA
1 TTTAAAATTTAAATTATTCCAAATACTTTTTGGGAATATTTGAAATACAGTGTATAAAGAAAAAA
12935293 AA
66 AA
12935295 GTTGAAAAAA
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
77 37 0.61
78 24 0.39
ACGTcount: A:0.44, C:0.05, G:0.10, T:0.41
Consensus pattern (77 bp):
TTTAAAATTTAAATTATTCCAAATACTTTTTGGGAATATTTGAAATACAGTGTATAAAGAAAAAA
AATTATATGTAT
Found at i:12980419 original size:19 final size:20
Alignment explanation
Indices: 12980397--12980457 Score: 54
Period size: 19 Copynumber: 3.0 Consensus size: 20
12980387 TCAAAACAAG
12980397 TTCAAAATAATTTTTAAAA-
1 TTCAAAATAATTTTTAAAAT
* *
12980416 TTCATAAT-ATTTATAAAAAT
1 TTCAAAATAATTT-TTAAAAT
12980436 TTCAAAATTTATATTTTTAAAA
1 TTCAAAA--TA-ATTTTTAAAA
12980458 AATAAAGAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
18 4 0.12
19 12 0.38
20 6 0.19
22 1 0.03
23 5 0.16
24 4 0.12
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (20 bp):
TTCAAAATAATTTTTAAAAT
Found at i:12980597 original size:122 final size:123
Alignment explanation
Indices: 12980454--12980702 Score: 491
Period size: 122 Copynumber: 2.0 Consensus size: 123
12980444 TTATATTTTT
12980454 AAAAAATAAAGAATTCTAAAAATATATAAAGGGAGTTAAAATTTTAAAATTTTTCTAAAATAATA
1 AAAAAATAAAGAATTCTAAAAATATATAAAGGGAGTTAAAATTTTAAAATTTTTCTAAAATAATA
12980519 ATTTTGGAACCTAAATAAGTTAATTAATGATTCAAGTTTATCATTATTTTGCTTTGAA
66 ATTTTGGAACCTAAATAAGTTAATTAATGATTCAAGTTTATCATTATTTTGCTTTGAA
12980577 AAAAAATAAA-AATTCTAAAAATATATAAAGGGAGTTAAAATTTTAAAATTTTTCTAAAATAATA
1 AAAAAATAAAGAATTCTAAAAATATATAAAGGGAGTTAAAATTTTAAAATTTTTCTAAAATAATA
12980641 ATTTTGGAACCTAAATAAGTTAATTAATGATTCAAGTTTATCATTATTTTGCTTTGAA
66 ATTTTGGAACCTAAATAAGTTAATTAATGATTCAAGTTTATCATTATTTTGCTTTGAA
12980699 AAAA
1 AAAA
12980703 TTTTCAAATA
Statistics
Matches: 126, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
122 116 0.92
123 10 0.08
ACGTcount: A:0.47, C:0.06, G:0.09, T:0.38
Consensus pattern (123 bp):
AAAAAATAAAGAATTCTAAAAATATATAAAGGGAGTTAAAATTTTAAAATTTTTCTAAAATAATA
ATTTTGGAACCTAAATAAGTTAATTAATGATTCAAGTTTATCATTATTTTGCTTTGAA
Found at i:12984196 original size:21 final size:22
Alignment explanation
Indices: 12984159--12984201 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
12984149 ATTATTTTTA
*
12984159 ATTTTTAAAACTCAAAAAATAT
1 ATTTTTAAAAATCAAAAAATAT
12984181 ATTTTTAAAAAT-AAAAAATAT
1 ATTTTTAAAAATCAAAAAATAT
12984202 TAAATTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (22 bp):
ATTTTTAAAAATCAAAAAATAT
Found at i:12984209 original size:22 final size:22
Alignment explanation
Indices: 12984162--12984209 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
12984152 ATTTTTAATT
* **
12984162 TTTAAAACTCAAAAAATATATT
1 TTTAAAAATCAAAAAATATAAA
12984184 TTTAAAAAT-AAAAAATATTAAA
1 TTTAAAAATCAAAAAATA-TAAA
12984206 TTTA
1 TTTA
12984210 TTAAAGTTAG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
21 8 0.36
22 14 0.64
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (22 bp):
TTTAAAAATCAAAAAATATAAA
Found at i:12987279 original size:25 final size:25
Alignment explanation
Indices: 12987226--12987283 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 25
12987216 TTTTCTTTAG
* *
12987226 TTTTC-TTCTCTTCTTCTTCGTTAC
1 TTTTCTTTTTCTTCTTCTTCATTAC
*
12987250 CTTTCTTTTTCTTCTTCTTCATT-C
1 TTTTCTTTTTCTTCTTCTTCATTAC
12987274 TTTTTCTTTT
1 -TTTTCTTTT
12987284 CTTTTTATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
24 5 0.18
25 23 0.82
ACGTcount: A:0.03, C:0.26, G:0.02, T:0.69
Consensus pattern (25 bp):
TTTTCTTTTTCTTCTTCTTCATTAC
Found at i:13001035 original size:22 final size:22
Alignment explanation
Indices: 13001007--13001055 Score: 98
Period size: 22 Copynumber: 2.2 Consensus size: 22
13000997 AGAAGCTAAG
13001007 GTTTCTAGGGTAATCGGTGGAT
1 GTTTCTAGGGTAATCGGTGGAT
13001029 GTTTCTAGGGTAATCGGTGGAT
1 GTTTCTAGGGTAATCGGTGGAT
13001051 GTTTC
1 GTTTC
13001056 AACCTCCTAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.16, C:0.10, G:0.35, T:0.39
Consensus pattern (22 bp):
GTTTCTAGGGTAATCGGTGGAT
Found at i:13003969 original size:20 final size:20
Alignment explanation
Indices: 13003944--13003983 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
13003934 GATGCATAGT
* *
13003944 AGAGGCATCGAAGTGCAAAC
1 AGAGGCACCAAAGTGCAAAC
13003964 AGAGGCACCAAAGTGCAAAC
1 AGAGGCACCAAAGTGCAAAC
13003984 CTGTACAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.42, C:0.23, G:0.28, T:0.07
Consensus pattern (20 bp):
AGAGGCACCAAAGTGCAAAC
Found at i:13015354 original size:30 final size:29
Alignment explanation
Indices: 13015305--13015370 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 29
13015295 CAGTTGAATA
* *
13015305 TAAATTTTTAAATTCAAAAA-ATAGAGAGAC
1 TAAATTTTTAAAGTCAAAAATATACA-A-AC
13015335 TAAATTTTTAAAAGT-AAAAATATACAAAC
1 TAAATTTTT-AAAGTCAAAAATATACAAAC
13015364 TAAATTT
1 TAAATTT
13015371 CAAATATACA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
29 9 0.28
30 15 0.47
31 8 0.25
ACGTcount: A:0.55, C:0.06, G:0.06, T:0.33
Consensus pattern (29 bp):
TAAATTTTTAAAGTCAAAAATATACAAAC
Found at i:13016750 original size:75 final size:75
Alignment explanation
Indices: 13016670--13016820 Score: 230
Period size: 75 Copynumber: 2.0 Consensus size: 75
13016660 ATTTTAACTC
* * * * *
13016670 AATTAATTTTCATGTTTTGGGCTTTATCTTGTCCAAATATCTCCAAAATAGATAGCACAATGCTT
1 AATTAATTTTCATATTTTGAGCTTTAACTTGTCCAAATATCTCAAAAACAGATAGCACAATGCTT
13016735 TTACTTTAAA
66 TTACTTTAAA
* *
13016745 AATTAATTTTCATATTTTGAGTTTTAACTTGTCCAAATATCTCAAAAACAGATAGCCCAATGCTT
1 AATTAATTTTCATATTTTGAGCTTTAACTTGTCCAAATATCTCAAAAACAGATAGCACAATGCTT
*
13016810 TTATTTTAAA
66 TTACTTTAAA
13016820 A
1 A
13016821 TTTGCCAATT
Statistics
Matches: 68, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
75 68 1.00
ACGTcount: A:0.34, C:0.15, G:0.09, T:0.41
Consensus pattern (75 bp):
AATTAATTTTCATATTTTGAGCTTTAACTTGTCCAAATATCTCAAAAACAGATAGCACAATGCTT
TTACTTTAAA
Found at i:13018954 original size:186 final size:184
Alignment explanation
Indices: 13018626--13019039 Score: 643
Period size: 186 Copynumber: 2.2 Consensus size: 184
13018616 AAAGTGTATG
* ** * * *
13018626 GTAGATTTGGATTTTTCCAAAGTTATGGCCTGCCATGTGCATACAGATAGCCTTAGGGTTTAGTG
1 GTAGGTTTGGATTTTTGTAAACTTATGGTCTGCCATGTGCATACAGATAGCATTAGGGTTTAGTG
13018691 ACAAATCATTTTTTATTGAATTATTTGAAACTGTGTATGTCATTGAATTATTCAAATATGATTCA
66 ACAAATCATTTTTTATTGAATTATTTGAAACTGTGTATGTCATTGAATTATTCAAATATGATTCA
13018756 AAATATTTTTAAATGTTAATTGAAATATGATTTTATTGTTTGTATCAAACTGAATT
131 AAATATTTTTAAATGTTAATTGAAATATGA--TTATTGTTTGTATCAAACTGAATT
13018812 GTAGGTTTGGATTTTTGTAAACTTATGGTCTGCCATGTGCATACAGATAGCATTAGGGTTTAGTG
1 GTAGGTTTGGATTTTTGTAAACTTATGGTCTGCCATGTGCATACAGATAGCATTAGGGTTTAGTG
* *
13018877 ATAAATCATTTTTTATTGAATTATTTGAAACTGTGTATGTCATTGAATTATTCAAATATGATTTA
66 ACAAATCATTTTTTATTGAATTATTTGAAACTGTGTATGTCATTGAATTATTCAAATATGATTCA
* * *
13018942 TGAGTA-TTTTAAATGTTGATTGAAATATGATTATTGTTTGTATCAAACTGAATT
131 -AAATATTTTTAAATGTTAATTGAAATATGATTATTGTTTGTATCAAACTGAATT
* * * *
13018996 GTAGGTTTGGAATTATGTAAACTTATTGT-TCGCCATTTGCATAC
1 GTAGGTTTGGATTTTTGTAAACTTATGGTCT-GCCATGTGCATAC
13019040 TAATTGCCTT
Statistics
Matches: 211, Mismatches: 15, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
183 1 0.00
184 62 0.29
186 145 0.69
187 3 0.01
ACGTcount: A:0.30, C:0.09, G:0.18, T:0.43
Consensus pattern (184 bp):
GTAGGTTTGGATTTTTGTAAACTTATGGTCTGCCATGTGCATACAGATAGCATTAGGGTTTAGTG
ACAAATCATTTTTTATTGAATTATTTGAAACTGTGTATGTCATTGAATTATTCAAATATGATTCA
AAATATTTTTAAATGTTAATTGAAATATGATTATTGTTTGTATCAAACTGAATT
Found at i:13020877 original size:3 final size:3
Alignment explanation
Indices: 13020869--13020911 Score: 59
Period size: 3 Copynumber: 14.0 Consensus size: 3
13020859 ATAAATTTCA
* *
13020869 TAT TAT TAT TAT TAT TGT TGT TAT TAT TAT TAT TAT ATAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT
13020912 GATTCATATT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
3 34 0.92
4 3 0.08
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:13021321 original size:16 final size:16
Alignment explanation
Indices: 13021300--13021331 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
13021290 GAATGATTTG
13021300 TTTTTGCTCACATTAT
1 TTTTTGCTCACATTAT
13021316 TTTTTGCTCACATTAT
1 TTTTTGCTCACATTAT
13021332 CATATTTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.19, C:0.19, G:0.06, T:0.56
Consensus pattern (16 bp):
TTTTTGCTCACATTAT
Found at i:13021673 original size:108 final size:109
Alignment explanation
Indices: 13021401--13021702 Score: 570
Period size: 108 Copynumber: 2.8 Consensus size: 109
13021391 CTAATTGAGA
13021401 CAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGT
1 CAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGT
*
13021466 TCAACCAAATGGCTTAATATCCTTTTAAAAATTTTAAAATAAGG
66 TCAACCAAATAGCTTAATATCCTTTTAAAAATTTTAAAATAAGG
*
13021510 CAATGTTTTGCGTTTGGAAATTCGTGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGT
1 CAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGT
*
13021575 TCAACCAAATAGCTTAATATCCTTTT-AAATTTTTAAAATAAGG
66 TCAACCAAATAGCTTAATATCCTTTTAAAAATTTTAAAATAAGG
13021618 CAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGT
1 CAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGT
13021683 TCAACCAAATAGCTTAATAT
66 TCAACCAAATAGCTTAATAT
13021703 TTGAATTTTA
Statistics
Matches: 189, Mismatches: 4, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
108 100 0.53
109 89 0.47
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.35
Consensus pattern (109 bp):
CAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGT
TCAACCAAATAGCTTAATATCCTTTTAAAAATTTTAAAATAAGG
Found at i:13025373 original size:45 final size:45
Alignment explanation
Indices: 13025314--13025439 Score: 116
Period size: 44 Copynumber: 2.8 Consensus size: 45
13025304 GTGGTTTTAG
* * * * *
13025314 CCTGCTTCATTGCAACGTCAGGGAGATAAGACTTTGATGTTTTAA
1 CCTGCTCCACTGCAACCTCAGGGAGATAAGACTTTGATGCTTCAA
* ** *
13025359 TCTGCTCCACTGCAATTTCATGGAGATAAGAC-TT-ATTGCTTCAA
1 CCTGCTCCACTGCAACCTCAGGGAGATAAGACTTTGA-TGCTTCAA
*
13025403 CCTACTCC-CTTGCAACCTCAGGGAGATAAGA-TTTGAT
1 CCTGCTCCAC-TGCAACCTCAGGGAGATAAGACTTTGAT
13025440 ATGATAAGAT
Statistics
Matches: 64, Mismatches: 13, Indels: 9
0.74 0.15 0.10
Matches are distributed among these distances:
43 2 0.03
44 35 0.55
45 27 0.42
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (45 bp):
CCTGCTCCACTGCAACCTCAGGGAGATAAGACTTTGATGCTTCAA
Found at i:13025553 original size:44 final size:44
Alignment explanation
Indices: 13025505--13025603 Score: 155
Period size: 44 Copynumber: 2.2 Consensus size: 44
13025495 TAATCTACTT
* *
13025505 CACTGCAACTTTAGGGAGATAGG-ATTAGTAGCTTCAGCCTGCTC
1 CACTGCAACTTTAGGGAGATAGGAATT-GTAGCTTCAACCTGCCC
*
13025549 CACTGCAACTTTAGGGAGATAGGAATTGTATCTTCAACCTGCCC
1 CACTGCAACTTTAGGGAGATAGGAATTGTAGCTTCAACCTGCCC
13025593 CACTGCAACTT
1 CACTGCAACTT
13025604 CAGAGGGATA
Statistics
Matches: 51, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
44 48 0.94
45 3 0.06
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.27
Consensus pattern (44 bp):
CACTGCAACTTTAGGGAGATAGGAATTGTAGCTTCAACCTGCCC
Found at i:13025629 original size:44 final size:43
Alignment explanation
Indices: 13025537--13025669 Score: 144
Period size: 44 Copynumber: 3.0 Consensus size: 43
13025527 GATTAGTAGC
* * *
13025537 TTCAGCCTGCTCCACTGCAACTTTAG-GGAGAT-AGGAATTGTAT
1 TTCAACCTGCTCCACTGCAACTTCAGAGG-GATAAGG-TTTGTAT
*
13025580 CTTCAACCTGCCCCACTGCAACTTCAGAGGGATAAGGTTTGTTAT
1 -TTCAACCTGCTCCACTGCAACTTCAGAGGGATAAGGTTTG-TAT
* * *
13025625 TTCAACCTACTCTACTGCAACTTCAGAGAGATAAGGTTTGATAT
1 TTCAACCTGCTCCACTGCAACTTCAGAGGGATAAGGTTTG-TAT
13025669 T
1 T
13025670 ATCTTCTCTA
Statistics
Matches: 77, Mismatches: 9, Indels: 6
0.84 0.10 0.07
Matches are distributed among these distances:
44 69 0.90
45 8 0.10
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.31
Consensus pattern (43 bp):
TTCAACCTGCTCCACTGCAACTTCAGAGGGATAAGGTTTGTAT
Found at i:13026235 original size:85 final size:86
Alignment explanation
Indices: 13026140--13026439 Score: 299
Period size: 85 Copynumber: 3.4 Consensus size: 86
13026130 TTTAATCGGT
*
13026140 TCTACTGCAACTTCAG-GAAGATAAGA-CTCGTAAT-TTCAACCTGCCCCACTGCAACTTCAGGG
1 TCTACTGCAACTTCAGAG-AGATAAGATCT-GTAATCTTCAACCTGCCCCACTGCAACTTTAGGG
13026202 AGATGAGGTTTGATATGATCTGC
64 AGATGAGGTTTGATATGATCTGC
* **
13026225 TCTACTGCAACTTCAGAGAGATAAGATCTGTAATTTATAGCTTCAATCTGTTCCACTGCAACTTT
1 TCTACTGCAACTTCAGAGAGATAAGATCTGT-A---AT--CTTCAACCTGCCCCACTGCAACTTT
* * * * * *
13026290 AGGGAAAT-AAGATTCACTTCCTTCAGTCTGC
60 AGGGAGATGAGGTTTGA--T--ATGA-TCTGC
* * *
13026321 TCCACTGCAACTTCAGAGAGGTGAA-A-CTTGT-ATCTTCAACCTGCCCCACTGCAACTTTAGGA
1 TCTACTGCAACTTCAGAGAGAT-AAGATC-TGTAATCTTCAACCTGCCCCACTGCAACTTTAGGG
13026383 AGATGAGGTTTGATATGATCTGC
64 AGATGAGGTTTGATATGATCTGC
13026406 TCTACTGCAACTTCAGAGAGATAAGATCTGTAAT
1 TCTACTGCAACTTCAGAGAGATAAGATCTGTAAT
13026440 TTATAGCTTC
Statistics
Matches: 171, Mismatches: 24, Indels: 39
0.73 0.10 0.17
Matches are distributed among these distances:
84 2 0.01
85 55 0.32
86 9 0.05
88 1 0.01
89 30 0.18
90 5 0.03
91 7 0.04
92 27 0.16
93 1 0.01
95 3 0.02
96 29 0.17
97 2 0.01
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (86 bp):
TCTACTGCAACTTCAGAGAGATAAGATCTGTAATCTTCAACCTGCCCCACTGCAACTTTAGGGAG
ATGAGGTTTGATATGATCTGC
Found at i:13026566 original size:181 final size:181
Alignment explanation
Indices: 13026174--13026511 Score: 534
Period size: 181 Copynumber: 1.9 Consensus size: 181
13026164 GACTCGTAAT
* * *
13026174 TTCAACCTGCCCCACTGCAACTTCAGGGAGATGAGGTTTGATATGATCTGCTCTACTGCAACTTC
1 TTCAACCTACCCCACTGCAACTACAGGAAGATGAGGTTTGATATGATCTGCTCTACTGCAACTTC
*
13026239 AGAGAGATAAGATCTGTAATTTATAGCTTCAATCTGTTCCACTGCAACTTTAGGGAAATAAGATT
66 AGAGAGATAAGATCTGTAATTTATAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATT
* * * *
13026304 CACTTCCTTCAGTCTGCTCCACTGCAACTTCAGAGAGGTGAAACTTGTATC
131 CACTTCCTGCAGCCTGCTCCACTGCAACTTCAGAGAGGCGAAACTGGTATC
* **
13026355 TTCAACCTGCCCCACTGCAACTTTAGGAAGATGAGGTTTGATATGATCTGCTCTACTGCAACTTC
1 TTCAACCTACCCCACTGCAACTACAGGAAGATGAGGTTTGATATGATCTGCTCTACTGCAACTTC
13026420 AGAGAGATAAGATCTGTAATTTATAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATT
66 AGAGAGATAAGATCTGTAATTTATAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATT
* * *
13026485 CGCTAT-CTGCAGCCTGTTCCGCTGCAA
131 CACT-TCCTGCAGCCTGCTCCACTGCAA
13026512 ACTCAGGAAG
Statistics
Matches: 148, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
181 147 0.99
182 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (181 bp):
TTCAACCTACCCCACTGCAACTACAGGAAGATGAGGTTTGATATGATCTGCTCTACTGCAACTTC
AGAGAGATAAGATCTGTAATTTATAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATT
CACTTCCTGCAGCCTGCTCCACTGCAACTTCAGAGAGGCGAAACTGGTATC
Found at i:13027883 original size:5 final size:5
Alignment explanation
Indices: 13027864--13027920 Score: 66
Period size: 5 Copynumber: 11.8 Consensus size: 5
13027854 GGCCTCTACT
* *
13027864 TTTTC TTTT- TCTTC TTTTC TTTTC TTTTC TTTTTT TTTTC TTTTC -TTTC
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC -TTTTC TTTTC TTTTC TTTTC
13027913 TTTT- TTTT
1 TTTTC TTTT
13027921 AACATTCTTT
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
4 11 0.24
5 30 0.67
6 4 0.09
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (5 bp):
TTTTC
Found at i:13027898 original size:26 final size:24
Alignment explanation
Indices: 13027862--13027920 Score: 82
Period size: 26 Copynumber: 2.4 Consensus size: 24
13027852 TTGGCCTCTA
*
13027862 CTTTTTCTTTTTCTTCTTTTCTTTT
1 CTTTTTTTTTTTCTTCTTTTC-TTT
*
13027887 CTTTTCTTTTTTTTTTCTTTTCTTT
1 CTTTT-TTTTTTTCTTCTTTTCTTT
13027912 CTTTTTTTT
1 CTTTTTTTT
13027921 AACATTCTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
24 4 0.13
25 13 0.42
26 14 0.45
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (24 bp):
CTTTTTTTTTTTCTTCTTTTCTTT
Found at i:13027904 original size:21 final size:21
Alignment explanation
Indices: 13027864--13027920 Score: 80
Period size: 20 Copynumber: 2.6 Consensus size: 21
13027854 GGCCTCTACT
13027864 TTTTCTTTTTCTTCTTTTCTTTTC
1 TTTTC-TTTT-TT-TTTTCTTTTC
13027888 TTTTCTTTTTTTTTTCTTTTC
1 TTTTCTTTTTTTTTTCTTTTC
13027909 -TTTCTTTTTTTT
1 TTTTCTTTTTTTT
13027921 AACATTCTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 12 0.36
21 10 0.30
22 2 0.06
23 4 0.12
24 5 0.15
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (21 bp):
TTTTCTTTTTTTTTTCTTTTC
Found at i:13032299 original size:2 final size:2
Alignment explanation
Indices: 13032292--13032321 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
13032282 TGAAAAAGAG
*
13032292 AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13032322 TAAGTTTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13035242 original size:3 final size:3
Alignment explanation
Indices: 13035234--13035261 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
13035224 TCGCAGCAAG
13035234 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
13035262 CTATAATTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:13035876 original size:16 final size:15
Alignment explanation
Indices: 13035836--13035876 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
13035826 CCATATTGAA
* *
13035836 TATTTTTTATATATT
1 TATTTTTAATATAAT
13035851 TATTTTTAATATAAT
1 TATTTTTAATATAAT
13035866 TATTTTCTAAT
1 TATTTT-TAAT
13035877 TTTAAAAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 19 0.83
16 4 0.17
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (15 bp):
TATTTTTAATATAAT
Found at i:13037293 original size:15 final size:16
Alignment explanation
Indices: 13037273--13037306 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
13037263 GGAATTTACG
13037273 TTTTTGAAAAAT-AAA
1 TTTTTGAAAAATGAAA
*
13037288 TTTTTGGAAAATGAAA
1 TTTTTGAAAAATGAAA
13037304 TTT
1 TTT
13037307 GTACTCCAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.44, C:0.00, G:0.12, T:0.44
Consensus pattern (16 bp):
TTTTTGAAAAATGAAA
Found at i:13040383 original size:19 final size:19
Alignment explanation
Indices: 13040361--13040399 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
13040351 TTTTCATGTA
*
13040361 ATCATCATACATACTTATG
1 ATCACCATACATACTTATG
* *
13040380 ATCACCATGCATGCTTATG
1 ATCACCATACATACTTATG
13040399 A
1 A
13040400 ATATTCTCCA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.33, C:0.23, G:0.10, T:0.33
Consensus pattern (19 bp):
ATCACCATACATACTTATG
Found at i:13042276 original size:45 final size:45
Alignment explanation
Indices: 13042141--13042294 Score: 159
Period size: 45 Copynumber: 3.4 Consensus size: 45
13042131 ATATAGTACT
* * * *
13042141 CGGTGTAATCAGCACATAGCAACCACCTTTATACTCAATGGTA-C
1 CGGTGAAATCAGCACATAGCAATCACCTTTATAATCATTGGTATC
* * * *
13042185 CGGGTGAATTCAGCATATAACAATCA-CTTATATAACCATTGGTATC
1 C-GGTGAAATCAGCACATAGCAATCACCTT-TATAATCATTGGTATC
** **
13042231 CGGTGAAATCAGCACATAGCAATCACCTTTATTTTCATTAATATC
1 CGGTGAAATCAGCACATAGCAATCACCTTTATAATCATTGGTATC
*
13042276 CGGTGGAATCAGCACATAG
1 CGGTGAAATCAGCACATAG
13042295 TATCCACCTA
Statistics
Matches: 89, Mismatches: 17, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
44 4 0.04
45 80 0.90
46 5 0.06
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.28
Consensus pattern (45 bp):
CGGTGAAATCAGCACATAGCAATCACCTTTATAATCATTGGTATC
Found at i:13042320 original size:45 final size:45
Alignment explanation
Indices: 13042227--13042322 Score: 113
Period size: 45 Copynumber: 2.1 Consensus size: 45
13042217 TAACCATTGG
* * **
13042227 TATCCGGTGAAATCAGCACATAGCAATCACCTTTATTTTCATTAA
1 TATCCGGTGAAATCAGCACATAGCAATCACCTATATTTCCAACAA
* * *
13042272 TATCCGGTGGAATCAGCACATAG-TATCCACCTATATTTCCAACGA
1 TATCCGGTGAAATCAGCACATAGCAAT-CACCTATATTTCCAACAA
13042317 TATCCG
1 TATCCG
13042323 ATCCATTCCG
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
44 2 0.05
45 41 0.95
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30
Consensus pattern (45 bp):
TATCCGGTGAAATCAGCACATAGCAATCACCTATATTTCCAACAA
Found at i:13042725 original size:47 final size:48
Alignment explanation
Indices: 13042624--13042848 Score: 249
Period size: 50 Copynumber: 4.6 Consensus size: 48
13042614 CAATGTCATA
* * * *
13042624 TCCCAGATATGGTCTTACA-TGGGATCACAT-ATCGGTGCCGATGCCATG
1 TCCCAGACATGGTCTTACACTGGCA-CTCATCGTC-GTGCCGATGCCATG
* **
13042672 TCCCAGACATGGTCTTACAGTGGCACTCATC-TCGACCCGATGCCATG
1 TCCCAGACATGGTCTTACACTGGCACTCATCGTCGTGCCGATGCCATG
* * *
13042719 TCCCAGACATGGTCTTACACTGACTCTCCTCTGTTCGTGCCGATGCCATG
1 TCCCAGACATGGTCTTACACTGGCACTCATC-G-TCGTGCCGATGCCATG
* * *
13042769 TCCCAGACATGGTCTTAGACTAGCACTCCTCGGTCTGTGCCGATGCCATG
1 TCCCAGACATGGTCTTACACTGGCACTCATC-GTC-GTGCCGATGCCATG
*
13042819 TCCCAGACATGGTCTTACAGTGGCACTCAT
1 TCCCAGACATGGTCTTACACTGGCACTCAT
13042849 GGTCCAACAT
Statistics
Matches: 151, Mismatches: 20, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
47 39 0.26
48 24 0.16
49 6 0.04
50 82 0.54
ACGTcount: A:0.20, C:0.31, G:0.22, T:0.27
Consensus pattern (48 bp):
TCCCAGACATGGTCTTACACTGGCACTCATCGTCGTGCCGATGCCATG
Found at i:13042795 original size:97 final size:99
Alignment explanation
Indices: 13042658--13042837 Score: 283
Period size: 97 Copynumber: 1.8 Consensus size: 99
13042648 TCACATATCG
* *
13042658 GTGCCGATGCCATGTCCCAGACATGGTCTTACAGTGGCACTCATC-TC-GACCCGATGCCATGTC
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCATCGTCTGACCCGATGCCATGTC
13042721 CCAGACATGGTCTTACACTGACTCTCCTCTGTTC
66 CCAGACATGGTCTTACACTGACTCTCCTCTGTTC
* * **
13042755 GTGCCGATGCCATGTCCCAGACATGGTCTTAGACTAGCACTCCTCGGTCTGTGCCGATGCCATGT
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCATC-GTCTGACCCGATGCCATGT
13042820 CCCAGACATGGTCTTACA
65 CCCAGACATGGTCTTACA
13042838 GTGGCACTCA
Statistics
Matches: 74, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
97 41 0.55
99 2 0.03
100 31 0.42
ACGTcount: A:0.19, C:0.33, G:0.22, T:0.26
Consensus pattern (99 bp):
GTGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCATCGTCTGACCCGATGCCATGTC
CCAGACATGGTCTTACACTGACTCTCCTCTGTTC
Found at i:13046038 original size:43 final size:42
Alignment explanation
Indices: 13045952--13046049 Score: 142
Period size: 43 Copynumber: 2.3 Consensus size: 42
13045942 CCGAGATTAA
* * *
13045952 GTGTAAGACCATATCTGGGATATGACATCGATATGAGAATTC
1 GTGTAAGACCATGTCTGGGACATGACATCAATATGAGAATTC
* *
13045994 GTGTAAGACCATGTCTGGGACATTGACATCAATATGTGATTTC
1 GTGTAAGACCATGTCTGGGACA-TGACATCAATATGAGAATTC
13046037 GTGTAAGACCATG
1 GTGTAAGACCATG
13046050 GCTAGGCTAT
Statistics
Matches: 50, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
42 20 0.40
43 30 0.60
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.30
Consensus pattern (42 bp):
GTGTAAGACCATGTCTGGGACATGACATCAATATGAGAATTC
Found at i:13046085 original size:43 final size:43
Alignment explanation
Indices: 13045943--13046091 Score: 135
Period size: 43 Copynumber: 3.5 Consensus size: 43
13045933 TTAAGGTTAC
* *
13045943 CGAGATTA-AGTGTAAGACCATATCTGGGATA-TGACATCGATA
1 CGAGATTACA-TGTAAGACCATGTCTGGGCTATTGACATCGATA
* * *
13045985 TGAGAATT-CGTGTAAGACCATGTCTGGGAC-ATTGACATCAATA
1 CGAG-ATTACATGTAAGACCATGTCTGGG-CTATTGACATCGATA
* * * * * * *
13046028 TGTGATTTCGTGTAAGACCATGGCTAGGCTATTGGCATCGATA
1 CGAGATTACATGTAAGACCATGTCTGGGCTATTGACATCGATA
13046071 CGAGATTACATGTAAGACCAT
1 CGAGATTACATGTAAGACCAT
13046092 ATCTAGGATA
Statistics
Matches: 87, Mismatches: 14, Indels: 11
0.78 0.12 0.10
Matches are distributed among these distances:
42 25 0.29
43 62 0.71
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (43 bp):
CGAGATTACATGTAAGACCATGTCTGGGCTATTGACATCGATA
Found at i:13054182 original size:24 final size:25
Alignment explanation
Indices: 13054155--13054219 Score: 71
Period size: 23 Copynumber: 2.6 Consensus size: 25
13054145 TAGTTTTTTA
13054155 AATATATAAAAAAAATAAAGAG-AT
1 AATATATAAAAAAAATAAAGAGAAT
* * *
13054179 AATAAAT-AAATAAATAAATAGAAT
1 AATATATAAAAAAAATAAAGAGAAT
13054203 AACGTATATAAAAAAAA
1 AA--TATATAAAAAAAA
13054220 GTCTATAAAG
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
23 12 0.38
24 10 0.31
26 4 0.12
27 6 0.19
ACGTcount: A:0.71, C:0.02, G:0.06, T:0.22
Consensus pattern (25 bp):
AATATATAAAAAAAATAAAGAGAAT
Found at i:13056026 original size:44 final size:44
Alignment explanation
Indices: 13055996--13056355 Score: 247
Period size: 44 Copynumber: 8.1 Consensus size: 44
13055986 AGAGGTATAG
*
13055996 GATTTGTCGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATTA
1 GATTTGTCGCTTCAATCTACTCCACTGCAACTTCAGGGAGATTA
* * * * *
13056040 GATTTGTGGCTTTAATCTACTCCACTACAACTTCAAGGAGATAA
1 GATTTGTCGCTTCAATCTACTCCACTGCAACTTCAGGGAGATTA
* ** * * * * *
13056084 GATTTACTATCTTCAATTTGA-TTCAGTGTAACTTCAGGGAGATAA
1 GATTT-GTCGCTTCAATCT-ACTCCACTGCAACTTCAGGGAGATTA
* * * * * *
13056129 GATTTGTGGCTTTAATGTGCTCCACTGCAACTTCAAGGAGATAA
1 GATTTGTCGCTTCAATCTACTCCACTGCAACTTCAGGGAGATTA
** ** * * *
13056173 GATTCACTATCTTCAATCTGCTCCACTGTAACTTCAGGGAGATAA
1 GATT-TGTCGCTTCAATCTACTCCACTGCAACTTCAGGGAGATTA
* * * * ** *
13056218 GATTTGTGGCTTTAATCTTCTCTACTGCAACTTTTGGGAGATAA
1 GATTTGTCGCTTCAATCTACTCCACTGCAACTTCAGGGAGATTA
** * * * * * * *
13056262 GATTTGTCATTTCAATCTTCTCTACTGTAATTTTAGAGAGATAA
1 GATTTGTCGCTTCAATCTACTCCACTGCAACTTCAGGGAGATTA
* * * *
13056306 GATTTGTTGTTTCAATCTAC-CCTACTGCAACTTCAAGGAGATAA
1 GATTTGTCGCTTCAATCTACTCC-ACTGCAACTTCAGGGAGATTA
13056350 GATTTG
1 GATTTG
13056356 CTATAATGAC
Statistics
Matches: 250, Mismatches: 61, Indels: 10
0.78 0.19 0.03
Matches are distributed among these distances:
43 1 0.00
44 180 0.72
45 68 0.27
46 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.36
Consensus pattern (44 bp):
GATTTGTCGCTTCAATCTACTCCACTGCAACTTCAGGGAGATTA
Found at i:13056323 original size:88 final size:90
Alignment explanation
Indices: 13056005--13056359 Score: 425
Period size: 89 Copynumber: 4.0 Consensus size: 90
13055995 GGATTTGTCG
* * * * *
13056005 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATTAGATTTGTGGCTTTAATCTACTCCACTACAA
1 CTTCAATCTGCTCCACTGTAACTTCAGAGAGATAAGATTTGTGGCTTTAATCTACTCTACTGCAA
13056070 CTTCAAGGAGATAAGATTT-ACTAT
66 CTTCAAGGAGATAAGATTTGACTAT
* * * * * * * *
13056094 CTTCAATTTGATTCAGTGTAACTTCAGGGAGATAAGATTTGTGGCTTTAATGTGCTCCACTGCAA
1 CTTCAATCTGCTCCACTGTAACTTCAGAGAGATAAGATTTGTGGCTTTAATCTACTCTACTGCAA
*
13056159 CTTCAAGGAGATAAGA-TTCACTAT
66 CTTCAAGGAGATAAGATTTGACTAT
* *
13056183 CTTCAATCTGCTCCACTGTAACTTCAGGGAGATAAGATTTGTGGCTTTAATCTTCTCTACTGCAA
1 CTTCAATCTGCTCCACTGTAACTTCAGAGAGATAAGATTTGTGGCTTTAATCTACTCTACTGCAA
*** *
13056248 CTTTTGGGAGATAAGATTTGTC-AT
66 CTTCAAGGAGATAAGATTTGACTAT
* * * * * *
13056272 -TTCAATCTTCTCTACTGTAATTTTAGAGAGATAAGATTTGTTG-TTTCAATCTACCCTACTGCA
1 CTTCAATCTGCTCCACTGTAACTTCAGAGAGATAAGATTTGTGGCTTT-AATCTACTCTACTGCA
13056335 ACTTCAAGGAGATAAGATTTG-CTAT
65 ACTTCAAGGAGATAAGATTTGACTAT
13056360 AATGACTTCA
Statistics
Matches: 230, Mismatches: 32, Indels: 9
0.85 0.12 0.03
Matches are distributed among these distances:
87 4 0.02
88 73 0.32
89 150 0.65
90 3 0.01
ACGTcount: A:0.28, C:0.19, G:0.17, T:0.35
Consensus pattern (90 bp):
CTTCAATCTGCTCCACTGTAACTTCAGAGAGATAAGATTTGTGGCTTTAATCTACTCTACTGCAA
CTTCAAGGAGATAAGATTTGACTAT
Found at i:13061243 original size:7 final size:7
Alignment explanation
Indices: 13061199--13061227 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
13061189 AGTCGCGCTC
13061199 TTCTTCT
1 TTCTTCT
13061206 TTCTTCT
1 TTCTTCT
13061213 TTCTTCT
1 TTCTTCT
13061220 TTCTTCT
1 TTCTTCT
13061227 T
1 T
13061228 CAGCTCTTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (7 bp):
TTCTTCT
Found at i:13068247 original size:5 final size:5
Alignment explanation
Indices: 13068237--13068264 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
13068227 AGTCGTCACC
13068237 TTTCT TTTCT TTTCT TTTCT TTTCT TTT
1 TTTCT TTTCT TTTCT TTTCT TTTCT TTT
13068265 GGTTTAATGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTCT
Found at i:13069554 original size:20 final size:20
Alignment explanation
Indices: 13069529--13069569 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
13069519 TCAAGCTTGA
13069529 AGAGAGGTCTTAGGACCAAG
1 AGAGAGGTCTTAGGACCAAG
13069549 AGAGAGGTCTTAGGACCAAG
1 AGAGAGGTCTTAGGACCAAG
13069569 A
1 A
13069570 TAACTAGTAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.37, C:0.15, G:0.34, T:0.15
Consensus pattern (20 bp):
AGAGAGGTCTTAGGACCAAG
Found at i:13069600 original size:29 final size:29
Alignment explanation
Indices: 13069558--13069614 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
13069548 GAGAGAGGTC
13069558 TTAGGACCAAGATAACTAGTACCGCATTT
1 TTAGGACCAAGATAACTAGTACCGCATTT
*
13069587 TTAGTACCAAGATAACTAGTACCGCATT
1 TTAGGACCAAGATAACTAGTACCGCATT
13069615 AGTGAGTGCG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.35, C:0.21, G:0.16, T:0.28
Consensus pattern (29 bp):
TTAGGACCAAGATAACTAGTACCGCATTT
Found at i:13070152 original size:31 final size:27
Alignment explanation
Indices: 13070114--13070175 Score: 70
Period size: 31 Copynumber: 2.1 Consensus size: 27
13070104 CCCATATTAA
*
13070114 ATATATATTTTTAATATATATAAATATATAT
1 ATATATATATTTAAT-TA-A-AAATA-ATAT
*
13070145 ATATATATATTTGATTAAAAATAATAT
1 ATATATATATTTAATTAAAAATAATAT
13070172 ATAT
1 ATAT
13070176 TTAATATATA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
27 8 0.28
28 5 0.17
29 1 0.03
30 2 0.07
31 13 0.45
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (27 bp):
ATATATATATTTAATTAAAAATAATAT
Found at i:13070499 original size:20 final size:20
Alignment explanation
Indices: 13070474--13070512 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
13070464 GAGGGGAATT
*
13070474 TTTTAT-TTATTATAATTTAG
1 TTTTATATT-TTAAAATTTAG
13070494 TTTTATATTTTAAAATTTA
1 TTTTATATTTTAAAATTTA
13070513 AAGTTTGTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (20 bp):
TTTTATATTTTAAAATTTAG
Found at i:13072726 original size:16 final size:16
Alignment explanation
Indices: 13072700--13072737 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 16
13072690 TTACCGATTC
13072700 AAAACAAATAA-ATTATT
1 AAAA-AAATAAGATTA-T
13072717 AAAAAAATAAGATTAT
1 AAAAAAATAAGATTAT
13072733 AAAAA
1 AAAAA
13072738 TTGGTTTTAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 12 0.60
17 8 0.40
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.24
Consensus pattern (16 bp):
AAAAAAATAAGATTAT
Found at i:13072836 original size:77 final size:78
Alignment explanation
Indices: 13072697--13072846 Score: 207
Period size: 77 Copynumber: 1.9 Consensus size: 78
13072687 TGGTTACCGA
* *
13072697 TTCAAAACAAATAAATTATTAAAAAAATAAGATTATAAAAATTGGTTTTACTACCAATTCAAATG
1 TTCAAAACAAATAAATTATTAAAAAAATAAGA-TATAAAAATTGGTTTAACGACCAATTCAAATG
13072762 GTTTTTTAGCTTGG
65 GTTTTTTAGCTTGG
* * *
13072776 TTCAAATCAAATAAATTATTAAAAAATTGAA-A-ATAAAAATT-GTTTCAACGGCCAATTCAAAT
1 TTCAAAACAAATAAATTATTAAAAAAAT-AAGATATAAAAATTGGTTT-AACGACCAATTCAAAT
13072838 GGTTTTTTA
64 GGTTTTTTA
13072847 ACCCTATTCA
Statistics
Matches: 64, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
76 4 0.06
77 31 0.48
79 27 0.42
80 2 0.03
ACGTcount: A:0.45, C:0.09, G:0.09, T:0.36
Consensus pattern (78 bp):
TTCAAAACAAATAAATTATTAAAAAAATAAGATATAAAAATTGGTTTAACGACCAATTCAAATGG
TTTTTTAGCTTGG
Found at i:13082556 original size:9 final size:9
Alignment explanation
Indices: 13082539--13082584 Score: 83
Period size: 9 Copynumber: 5.1 Consensus size: 9
13082529 TGAGTTTTCG
13082539 AATTCGAAT
1 AATTCGAAT
*
13082548 AACTCGAAT
1 AATTCGAAT
13082557 AATTCGAAT
1 AATTCGAAT
13082566 AATTCGAAT
1 AATTCGAAT
13082575 AATTCGAAT
1 AATTCGAAT
13082584 A
1 A
13082585 NNNNNNNNNN
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 35 1.00
ACGTcount: A:0.46, C:0.13, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:13083013 original size:20 final size:20
Alignment explanation
Indices: 13082977--13083016 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
13082967 TTATTCCTCA
*
13082977 AAACTTTTTATTTTCCCCCT
1 AAACTTTTTATTCTCCCCCT
13082997 AAAC-TTTTACTTCTCCCCCT
1 AAACTTTTTA-TTCTCCCCCT
13083017 TTACTCTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.20, C:0.35, G:0.00, T:0.45
Consensus pattern (20 bp):
AAACTTTTTATTCTCCCCCT
Found at i:13083406 original size:5 final size:5
Alignment explanation
Indices: 13083354--13083404 Score: 93
Period size: 5 Copynumber: 10.2 Consensus size: 5
13083344 GAATAAATAT
*
13083354 ATTCG ATTCG ATTCG ATTCG ATTCG ATTCG ATTCG ATTCG ATTCG AATCG
1 ATTCG ATTCG ATTCG ATTCG ATTCG ATTCG ATTCG ATTCG ATTCG ATTCG
13083404 A
1 A
13083405 ATTCCATCTC
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
5 45 1.00
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.37
Consensus pattern (5 bp):
ATTCG
Found at i:13088109 original size:22 final size:22
Alignment explanation
Indices: 13088082--13088125 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
13088072 TGAAATTTTT
*
13088082 GGCTTTTCAGAAGTGCTTTTCA
1 GGCTTTTCAGAAGTACTTTTCA
13088104 GGCTTTTCAGAAGTACTTTTCA
1 GGCTTTTCAGAAGTACTTTTCA
13088126 AAAGCACTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.18, G:0.20, T:0.41
Consensus pattern (22 bp):
GGCTTTTCAGAAGTACTTTTCA
Found at i:13088335 original size:121 final size:122
Alignment explanation
Indices: 13088189--13088439 Score: 495
Period size: 121 Copynumber: 2.1 Consensus size: 122
13088179 GTACTTTTGG
13088189 TATTTAATTATTTTTTCACCCCTCCAATAATATAGTACTTTTCCTTTTTTTTCTTAGTGCTTTAT
1 TATTTAATTATTTTTTCACCCCTCCAATAATATAGTACTTTTCCTTTTTTTTCTTAGTGCTTTAT
13088254 TACAAATGTGTTAAAATCATTAATTAAAATTAAAAAAATTAAAATAGTAATTACAAA
66 TACAAATGTGTTAAAATCATTAATTAAAATTAAAAAAATTAAAATAGTAATTACAAA
13088311 TATTTAATTA-TTTTTCACCCCTCCAATAATATAGTACTTTTCCTTTTTTTTCTTAGTGCTTTAT
1 TATTTAATTATTTTTTCACCCCTCCAATAATATAGTACTTTTCCTTTTTTTTCTTAGTGCTTTAT
13088375 TACAAATGTGTTAAAATCATTAATTAAAATTAAAAAAATTAAAATAGTAATTACAAA
66 TACAAATGTGTTAAAATCATTAATTAAAATTAAAAAAATTAAAATAGTAATTACAAA
13088432 TATTTAAT
1 TATTTAAT
13088440 GGTTATACAT
Statistics
Matches: 129, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
121 119 0.92
122 10 0.08
ACGTcount: A:0.39, C:0.12, G:0.05, T:0.45
Consensus pattern (122 bp):
TATTTAATTATTTTTTCACCCCTCCAATAATATAGTACTTTTCCTTTTTTTTCTTAGTGCTTTAT
TACAAATGTGTTAAAATCATTAATTAAAATTAAAAAAATTAAAATAGTAATTACAAA
Found at i:13088560 original size:13 final size:13
Alignment explanation
Indices: 13088544--13088583 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
13088534 TTTAAACCAA
13088544 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
* * *
13088557 ACTTCTCCATAGC
1 ACTTTTCAAAAGC
13088570 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
13088583 A
1 A
13088584 TTGCCAAACT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.35, C:0.28, G:0.07, T:0.30
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:13090302 original size:16 final size:16
Alignment explanation
Indices: 13090281--13090314 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
13090271 TTTGGTTCGC
13090281 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
13090297 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
13090313 TG
1 TG
13090315 ATGCGGTCGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.24, C:0.00, G:0.38, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:13111417 original size:16 final size:17
Alignment explanation
Indices: 13111381--13111418 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
13111371 ATTTTTAAAT
*
13111381 TTAAAAAATATAATACA
1 TTAAAAAAAATAATACA
*
13111398 TTAAAAAAAATTATAC-
1 TTAAAAAAAATAATACA
13111414 TTAAA
1 TTAAA
13111419 TAGCACTAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 5 0.26
17 14 0.74
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (17 bp):
TTAAAAAAAATAATACA
Found at i:13121836 original size:702 final size:703
Alignment explanation
Indices: 13120482--13121996 Score: 2141
Period size: 702 Copynumber: 2.2 Consensus size: 703
13120472 ATATAATAAG
* * * * * *
13120482 CAACCGTTGAGAGATTTGTCGTTGTGCACGGTCAGAT-A-A-TACAACTCTTTGCAAAGTATCCT
1 CAACTGTTGAGAGATATGTCGTTGTGCATGGTAAGATAATACTACAACTCTTTGTAGAGTATCCT
* *
13120544 GATGAGGAGATTAAGAAGTGCACATTTGTTGTAGGCCTTGCACATAAAATGGAGGAGAGACACCA
66 GATGAGAAGATTAAGAAGTGCACATTTGTTGTAGGCCTTGCAAATAAAATGGAGGAGAGACACCA
*
13120609 TACAAAATGGTTATTTAAAAAGGACTAATTATGACTATTTCAATTTTAAGGACTAAATTGAATAA
131 TACAAAA--GTTAGTTAAAAAGGACTAATTATGACTATTTCAATTTTAAGGACTAAATTGAATAA
** * *
13120674 AATGTAAAACTTTAAGGGGAAAACGAATAATGAAATTGAATTGATAGATACATATAATAGATTTT
194 AATGTAAAACTTTAAGGGGAAAACGAATAATGAAATCAAACTGATACATACATATAATAGATTTT
* **
13120739 TATAAGATGTTTGGAATTGATAAATTGAACTGAATTGTTATATAGATCGGGAATTGAACCAAGAT
259 TATAAGATGTTTGGAATTAATAAATCAAACTGAATTGTTATATAGATCGGGAATTGAACCAAGAT
* * * *
13120804 GATTATGCTTTTATATCTACTAATCCAGCAGTTGTTGAGAGATGTGTCGTTGTGCATTGCTAGAT
324 GATCATGCTTTTATATCTACTAATCCAACAGTTGTTGAGAGATATGTCGTTGTGCATGGCTAGAT
* * * * *
13120869 AATATTACAACTTTTTGTAGAGTATCCTGATGAGAAGATAAGAAGTGCACATTTTTCGTAGGCCT
389 AATACTACAACTCTTTGTAGAGTATCCTAATGAGAAGATAAGAAGTACACATTTTTCGTAGGCCA
* *
13120934 TACAAATAAAATGGAGTAGAGACACCATGCAAAATGATTAGTTAAAAAGAACTAGTTATGACTAT
454 TACAAATAAAATGGAGTAGAAACACCATACAAAATGATTAGTTAAAAAGAACTAGTTATGACTAT
* **
13120999 TTTGATTTTAGAGACTAAATTGAATAAAATGTAAAACTTTAAGGGGCATATGAATAATAAAATTG
519 TTCGATTTTAGAGACTAAATTGAATAAAATGTAAAACTTTAAGGGGCATACAAATAATAAAATTG
* * *
13121064 AACTGATACATACATATAATGGATTGTTATAAGATGTTTGGAATTGATAAATTGAACTGAATTGT
584 AACTGATACATACATATAATAGATTGTTATAAGATGTTTGAAATTGATAAATCGAACTGAATTGT
* * ** * *
13121129 TATATAAATCGGGAACTGAACCAAGATGATCATGTTTTTATATCTATTAA-TCCAA
649 TATATAAATCGAGAACTGAACCAAGATGATCATGCTTTTATAAATACTAACT-AAA
** * *
13121184 CAGTTGTTGAGAGATATGTTGTTGTGCATGGTAAGATAATACTACAACTCTTTGTAGAGTATCTT
1 CAACTGTTGAGAGATATGTCGTTGTGCATGGTAAGATAATACTACAACTCTTTGTAGAGTATCCT
* * * *
13121249 AATGAGAAGATTAAGAAATGCACAATTGTCGTAGGCCTTGCAAATAAAATGGAGGAGAGACACCA
66 GATGAGAAGATTAAGAAGTGCACATTTGTTGTAGGCCTTGCAAATAAAATGGAGGAGAGACACCA
* * * * *
13121314 TGC-AAA-TTAGTTAAAAAGGACTAGTTATGACTATTTCGATTTTAAGTATTAAATTGAATAAAA
131 TACAAAAGTTAGTTAAAAAGGACTAATTATGACTATTTCAATTTTAAGGACTAAATTGAATAAAA
* * * * *
13121377 TGTAAAACTTTAAGGGGCATATGAATAATGAAATCAAACTGATACATACCTATAATAGATTTTTC
196 TGTAAAACTTTAAGGGGAAAACGAATAATGAAATCAAACTGATACATACATATAATAGATTTTTA
** * *
13121442 TAAGATGTTTTTAATTAATAAATCAAACTGAATTGTTATATAGATCGGGAATTTAACCAAGATTA
261 TAAGATGTTTGGAATTAATAAATCAAACTGAATTGTTATATAGATCGGGAATTGAACCAAGATGA
* * *
13121507 TCATGTTTTTATATCTACTAATTCAACAGTTGTTGAGATATATGTCGTTGTGCATGG-TCAGATA
326 TCATGCTTTTATATCTACTAATCCAACAGTTGTTGAGAGATATGTCGTTGTGCATGGCT-AGATA
13121571 ATACTACAACTCTTTGTAGAGTATCCTAATGAGAAGATTAAGAA-TAACACATTTTTCGTAGGCC
390 ATACTACAACTCTTTGTAGAGTATCCTAATGAGAAGA-TAAGAAGT-ACACATTTTTCGTAGGCC
* *
13121635 ATACAAATAAAATGGAAG-AGAAACACCATACAAAATGGTTAGTTAAAAAGGACTAGTTATGACT
453 ATACAAATAAAATGG-AGTAGAAACACCATACAAAATGATTAGTTAAAAAGAACTAGTTATGACT
* * *
13121699 ATTTCGATTTTAGGGACTAAATTGAATAAAATGTGAAACTTTAAGGGGCATACAAATAATGAAAT
517 ATTTCGATTTTAGAGACTAAATTGAATAAAATGTAAAACTTTAAGGGGCATACAAATAATAAAAT
* *
13121764 TGAATTGATACATATATATAATAGATTGTTATAAGATGTTTGAAATTGATAAATCGAACTGAATT
582 TGAACTGATACATACATATAATAGATTGTTATAAGATGTTTGAAATTGATAAATCGAACTGAATT
* * * *
13121829 GTTATATAGATCGAGAATTGAACCAAGATGATTATGCTTTTATAAATACTGACTAAA
647 GTTATATAAATCGAGAACTGAACCAAGATGATCATGCTTTTATAAATACTAACTAAA
* * * * *
13121886 CAACTATTGAAAGATATATCATTGTGTATGGTCAA-ATAATACTACAACTCTTTGTAGAGTATCC
1 CAACTGTTGAGAGATATGTCGTTGTGCATGGT-AAGATAATACTACAACTCTTTGTAGAGTATCC
* * *
13121950 TGATGAGAAGATTAATAAGTGCACATTTGTTGTAGACCTTACAAATA
65 TGATGAGAAGATTAAGAAGTGCACATTTGTTGTAGGCCTTGCAAATA
13121997 TCGTTCCAAC
Statistics
Matches: 713, Mismatches: 91, Indels: 18
0.87 0.11 0.02
Matches are distributed among these distances:
700 1 0.00
701 256 0.36
702 365 0.51
703 6 0.01
704 4 0.01
705 81 0.11
ACGTcount: A:0.39, C:0.11, G:0.18, T:0.33
Consensus pattern (703 bp):
CAACTGTTGAGAGATATGTCGTTGTGCATGGTAAGATAATACTACAACTCTTTGTAGAGTATCCT
GATGAGAAGATTAAGAAGTGCACATTTGTTGTAGGCCTTGCAAATAAAATGGAGGAGAGACACCA
TACAAAAGTTAGTTAAAAAGGACTAATTATGACTATTTCAATTTTAAGGACTAAATTGAATAAAA
TGTAAAACTTTAAGGGGAAAACGAATAATGAAATCAAACTGATACATACATATAATAGATTTTTA
TAAGATGTTTGGAATTAATAAATCAAACTGAATTGTTATATAGATCGGGAATTGAACCAAGATGA
TCATGCTTTTATATCTACTAATCCAACAGTTGTTGAGAGATATGTCGTTGTGCATGGCTAGATAA
TACTACAACTCTTTGTAGAGTATCCTAATGAGAAGATAAGAAGTACACATTTTTCGTAGGCCATA
CAAATAAAATGGAGTAGAAACACCATACAAAATGATTAGTTAAAAAGAACTAGTTATGACTATTT
CGATTTTAGAGACTAAATTGAATAAAATGTAAAACTTTAAGGGGCATACAAATAATAAAATTGAA
CTGATACATACATATAATAGATTGTTATAAGATGTTTGAAATTGATAAATCGAACTGAATTGTTA
TATAAATCGAGAACTGAACCAAGATGATCATGCTTTTATAAATACTAACTAAA
Found at i:13121838 original size:353 final size:353
Alignment explanation
Indices: 13120487--13121996 Score: 2060
Period size: 353 Copynumber: 4.3 Consensus size: 353
13120477 ATAAGCAACC
* * * *
13120487 GTTGAGAGATTTGTCGTTGTGCACGGTCAGAT-A-A-TACAACTCTTTGCAAAGTATCCTGATGA
1 GTTGAGAGATATGTCGTTGTGCATGGTCAGATAATACTACAACTCTTTGTAGAGTATCCTGATGA
* * * *
13120549 GGAGATTAAGAAGTGCACATTTGTT-GTAGGCCTTGCACATAAAATGGAGGAGAGACACCATACA
66 GAAGATTAAGAAGTGCACATTT-TTCGTAGGCCTTACAAATAAAATGGAAGAGAGACACCATACA
* * *
13120613 AAATGGTTATTTAAAAAGGACTAATTATGACTATTTCAATTTTAAGGACTAAATTGAATAAAATG
130 AAATGGTTAGTTAAAAAGGACTAGTTATGACTATTTCGATTTTAAGGACTAAATTGAATAAAATG
* * * * *
13120678 TAAAACTTTAAGGGGAAAACGAATAATGAAATTGAATTGATAGATACATATAATAGATTTTTATA
195 TAAAACTTTAAGGGGCATACGAATAATGAAATTGAACTGATACATACATATAATAGATTGTTATA
* *
13120743 AGATGTTTGGAATTGATAAATTGAACTGAATTGTTATATAGATCGGGAATTGAACCAAGATGATT
260 AGATGTTTGGAATTGATAAATCGAACTGAATTGTTATATAGATCGGGAATTGAACCAAGATGATC
*
13120808 ATGCTTTTATATCTACTAATCCAGCAGTT
325 ATGCTTTTATATCTACTAATCCAACAGTT
* * * *
13120837 GTTGAGAGATGTGTCGTTGTGCATTG-CTAGATAATATTACAACTTTTTGTAGAGTATCCTGATG
1 GTTGAGAGATATGTCGTTGTGCATGGTC-AGATAATACTACAACTCTTTGTAGAGTATCCTGATG
*
13120901 AGAAGA-TAAGAAGTGCACATTTTTCGTAGGCCTTACAAATAAAATGG-AGTAGAGACACCATGC
65 AGAAGATTAAGAAGTGCACATTTTTCGTAGGCCTTACAAATAAAATGGAAG-AGAGACACCATAC
* * *
13120964 AAAATGATTAGTTAAAAAGAACTAGTTATGACTATTTTGATTTT-AGAGACTAAATTGAATAAAA
129 AAAATGGTTAGTTAAAAAGGACTAGTTATGACTATTTCGATTTTAAG-GACTAAATTGAATAAAA
* * *
13121028 TGTAAAACTTTAAGGGGCATATGAATAATAAAATTGAACTGATACATACATATAATGGATTGTTA
193 TGTAAAACTTTAAGGGGCATACGAATAATGAAATTGAACTGATACATACATATAATAGATTGTTA
* * *
13121093 TAAGATGTTTGGAATTGATAAATTGAACTGAATTGTTATATAAATCGGGAACTGAACCAAGATGA
258 TAAGATGTTTGGAATTGATAAATCGAACTGAATTGTTATATAGATCGGGAATTGAACCAAGATGA
* *
13121158 TCATGTTTTTATATCTATTAATCCAACAGTT
323 TCATGCTTTTATATCTACTAATCCAACAGTT
* * * *
13121189 GTTGAGAGATATGTTGTTGTGCATGGTAAGATAATACTACAACTCTTTGTAGAGTATCTTAATGA
1 GTTGAGAGATATGTCGTTGTGCATGGTCAGATAATACTACAACTCTTTGTAGAGTATCCTGATGA
* * * * * *
13121254 GAAGATTAAGAAATGCACAATTGTCGTAGGCCTTGCAAATAAAATGGAGGAGAGACACCATGC-A
66 GAAGATTAAGAAGTGCACATTTTTCGTAGGCCTTACAAATAAAATGGAAGAGAGACACCATACAA
* *
13121318 AA---TTAGTTAAAAAGGACTAGTTATGACTATTTCGATTTTAAGTATTAAATTGAATAAAATGT
131 AATGGTTAGTTAAAAAGGACTAGTTATGACTATTTCGATTTTAAGGACTAAATTGAATAAAATGT
* ** * * *
13121380 AAAACTTTAAGGGGCATATGAATAATGAAATCAAACTGATACATACCTATAATAGATTTTTCTAA
196 AAAACTTTAAGGGGCATACGAATAATGAAATTGAACTGATACATACATATAATAGATTGTTATAA
** * * * *
13121445 GATGTTTTTAATTAATAAATCAAACTGAATTGTTATATAGATCGGGAATTTAACCAAGATTATCA
261 GATGTTTGGAATTGATAAATCGAACTGAATTGTTATATAGATCGGGAATTGAACCAAGATGATCA
* *
13121510 TGTTTTTATATCTACTAATTCAACAGTT
326 TGCTTTTATATCTACTAATCCAACAGTT
* *
13121538 GTTGAGATATATGTCGTTGTGCATGGTCAGATAATACTACAACTCTTTGTAGAGTATCCTAATGA
1 GTTGAGAGATATGTCGTTGTGCATGGTCAGATAATACTACAACTCTTTGTAGAGTATCCTGATGA
* * *
13121603 GAAGATTAAGAA-TAACACATTTTTCGTAGGCCATACAAATAAAATGGAAGAGAAACACCATACA
66 GAAGATTAAGAAGT-GCACATTTTTCGTAGGCCTTACAAATAAAATGGAAGAGAGACACCATACA
*
13121667 AAATGGTTAGTTAAAAAGGACTAGTTATGACTATTTCGATTTTAGGGACTAAATTGAATAAAATG
130 AAATGGTTAGTTAAAAAGGACTAGTTATGACTATTTCGATTTTAAGGACTAAATTGAATAAAATG
* * * *
13121732 TGAAACTTTAAGGGGCATACAAATAATGAAATTGAATTGATACATATATATAATAGATTGTTATA
195 TAAAACTTTAAGGGGCATACGAATAATGAAATTGAACTGATACATACATATAATAGATTGTTATA
* * *
13121797 AGATGTTTGAAATTGATAAATCGAACTGAATTGTTATATAGATCGAGAATTGAACCAAGATGATT
260 AGATGTTTGGAATTGATAAATCGAACTGAATTGTTATATAGATCGGGAATTGAACCAAGATGATC
** * * **
13121862 ATGCTTTTATAAATACTGA-CTAAACAACT
325 ATGCTTTTATATCTACTAATC-CAACAGTT
* * * * * *
13121891 ATTGAAAGATATATCATTGTGTATGGTCAAATAATACTACAACTCTTTGTAGAGTATCCTGATGA
1 GTTGAGAGATATGTCGTTGTGCATGGTCAGATAATACTACAACTCTTTGTAGAGTATCCTGATGA
* *
13121956 GAAGATTAATAAGTGCACATTTGTT-GTAGACCTTACAAATA
66 GAAGATTAAGAAGTGCACATTT-TTCGTAGGCCTTACAAATA
13121997 TCGTTCCAAC
Statistics
Matches: 1022, Mismatches: 119, Indels: 35
0.87 0.10 0.03
Matches are distributed among these distances:
348 1 0.00
349 308 0.30
350 32 0.03
351 6 0.01
352 315 0.31
353 356 0.35
354 4 0.00
ACGTcount: A:0.39, C:0.11, G:0.18, T:0.33
Consensus pattern (353 bp):
GTTGAGAGATATGTCGTTGTGCATGGTCAGATAATACTACAACTCTTTGTAGAGTATCCTGATGA
GAAGATTAAGAAGTGCACATTTTTCGTAGGCCTTACAAATAAAATGGAAGAGAGACACCATACAA
AATGGTTAGTTAAAAAGGACTAGTTATGACTATTTCGATTTTAAGGACTAAATTGAATAAAATGT
AAAACTTTAAGGGGCATACGAATAATGAAATTGAACTGATACATACATATAATAGATTGTTATAA
GATGTTTGGAATTGATAAATCGAACTGAATTGTTATATAGATCGGGAATTGAACCAAGATGATCA
TGCTTTTATATCTACTAATCCAACAGTT
Found at i:13123833 original size:25 final size:25
Alignment explanation
Indices: 13123779--13123833 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 25
13123769 AATAGTTGAT
*
13123779 TTGAAATGAATTGATTTTGTATATA
1 TTGAAATGAATTGATTATGTATATA
* **
13123804 ATGAAATGTGTTGATTATGTGA-ATA
1 TTGAAATGAATTGATTATGT-ATATA
13123829 TTGAA
1 TTGAA
13123834 TTGACTATAT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
25 23 0.96
26 1 0.04
ACGTcount: A:0.36, C:0.00, G:0.20, T:0.44
Consensus pattern (25 bp):
TTGAAATGAATTGATTATGTATATA
Found at i:13124232 original size:18 final size:18
Alignment explanation
Indices: 13124209--13124263 Score: 76
Period size: 18 Copynumber: 3.0 Consensus size: 18
13124199 GAGATGACAA
13124209 AGATGAGAAATGAATATG
1 AGATGAGAAATGAATATG
13124227 AGATGAGAAATGAAATATG
1 AGATGAGAAATG-AATATG
*
13124246 AAATGATGAAATG-ATATG
1 AGATGA-GAAATGAATATG
13124264 TGAATTGTGA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
18 17 0.50
19 11 0.32
20 6 0.18
ACGTcount: A:0.51, C:0.00, G:0.25, T:0.24
Consensus pattern (18 bp):
AGATGAGAAATGAATATG
Found at i:13124245 original size:19 final size:19
Alignment explanation
Indices: 13124209--13124282 Score: 80
Period size: 19 Copynumber: 3.9 Consensus size: 19
13124199 GAGATGACAA
13124209 AGATGAGAAATG-AATATG
1 AGATGAGAAATGAAATATG
13124227 AGATGAGAAATGAAATATG
1 AGATGAGAAATGAAATATG
* * *
13124246 AAATGATGAAATGATATGTG
1 AGATGA-GAAATGAAATATG
*
13124266 A-ATTGTGAAATGAAATA
1 AGA-TGAGAAATGAAATA
13124283 AGTATTGATC
Statistics
Matches: 47, Mismatches: 6, Indels: 5
0.81 0.10 0.09
Matches are distributed among these distances:
18 12 0.26
19 21 0.45
20 14 0.30
ACGTcount: A:0.50, C:0.00, G:0.24, T:0.26
Consensus pattern (19 bp):
AGATGAGAAATGAAATATG
Found at i:13125729 original size:19 final size:19
Alignment explanation
Indices: 13125705--13125743 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
13125695 CTAATGTATG
13125705 TAATTTCATATGCTATCAT
1 TAATTTCATATGCTATCAT
13125724 TAATTTCATATGCTATCAT
1 TAATTTCATATGCTATCAT
13125743 T
1 T
13125744 TGTCATGTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.31, C:0.15, G:0.05, T:0.49
Consensus pattern (19 bp):
TAATTTCATATGCTATCAT
Found at i:13127298 original size:25 final size:25
Alignment explanation
Indices: 13127264--13127333 Score: 131
Period size: 25 Copynumber: 2.8 Consensus size: 25
13127254 CAGGCCCATT
*
13127264 TTCACAGCTCATGTGAGCATTTTGA
1 TTCACAGCTCGTGTGAGCATTTTGA
13127289 TTCACAGCTCGTGTGAGCATTTTGA
1 TTCACAGCTCGTGTGAGCATTTTGA
13127314 TTCACAGCTCGTGTGAGCAT
1 TTCACAGCTCGTGTGAGCAT
13127334 ACATGTACAG
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
25 44 1.00
ACGTcount: A:0.21, C:0.21, G:0.23, T:0.34
Consensus pattern (25 bp):
TTCACAGCTCGTGTGAGCATTTTGA
Found at i:13129514 original size:69 final size:68
Alignment explanation
Indices: 13129378--13129588 Score: 314
Period size: 69 Copynumber: 3.0 Consensus size: 68
13129368 CAACATTTAT
* * * *
13129378 ATACGAAATTAAACAGCATTTATACACCAAAATTTGGATAGCTTATATACAACAAATGGGCAGCA
1 ATACCAAATTAAACAGCATTT-TACACCAAAATTT-AACAGCATATATACAACAAATGGGCAGCA
13129443 TATAC
64 TATAC
*
13129448 ATACCAAATTTAACAGCACTTTTACACCAAAATTTAACAGCATATATACAACAAATGGGCAGCAT
1 ATACCAAATTAAACAGCA-TTTTACACCAAAATTTAACAGCATATATACAACAAATGGGCAGCAT
13129513 ATAC
65 ATAC
* * *
13129517 ATACCAAATTGAGCAGCATTTTTACACCAAAATTTAACAGCATATATACAACAAATGGGTAGCAT
1 ATACCAAATTAAACAGCA-TTTTACACCAAAATTTAACAGCATATATACAACAAATGGGCAGCAT
13129582 ATAC
65 ATAC
13129586 ATA
1 ATA
13129589 ATACATAATA
Statistics
Matches: 131, Mismatches: 9, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
69 99 0.76
70 29 0.22
71 3 0.02
ACGTcount: A:0.45, C:0.19, G:0.11, T:0.26
Consensus pattern (68 bp):
ATACCAAATTAAACAGCATTTTACACCAAAATTTAACAGCATATATACAACAAATGGGCAGCATA
TAC
Found at i:13129545 original size:23 final size:23
Alignment explanation
Indices: 13129383--13129572 Score: 107
Period size: 24 Copynumber: 8.2 Consensus size: 23
13129373 TTTATATACG
* *
13129383 AAATTAAACAGCATTTATACACC
1 AAATTGAACAGCATATATACACC
* * * *
13129406 AAAATTTGGATAGCTTATATACAAC
1 -AAA-TTGAACAGCATATATACACC
** * *
13129431 AAA-TGGGCAGCATATACATACC
1 AAATTGAACAGCATATATACACC
* *
13129453 AAATTTAACAGCACT-TTTACACC
1 AAATTGAACAGCA-TATATACACC
* *
13129476 AAAATTTAACAGCATATATACAAC
1 -AAATTGAACAGCATATATACACC
** * *
13129500 AAA-TGGGCAGCATATACATACC
1 AAATTGAACAGCATATATACACC
* * *
13129522 AAATTGAGCAGCATTTTTACACC
1 AAATTGAACAGCATATATACACC
* *
13129545 AAAATTTAACAGCATATATACAAC
1 -AAATTGAACAGCATATATACACC
13129569 AAAT
1 AAAT
13129573 GGGTAGCATA
Statistics
Matches: 123, Mismatches: 36, Indels: 15
0.71 0.21 0.09
Matches are distributed among these distances:
22 32 0.26
23 33 0.27
24 44 0.36
25 14 0.11
ACGTcount: A:0.45, C:0.19, G:0.09, T:0.26
Consensus pattern (23 bp):
AAATTGAACAGCATATATACACC
Found at i:13129594 original size:7 final size:8
Alignment explanation
Indices: 13129580--13129622 Score: 54
Period size: 7 Copynumber: 5.5 Consensus size: 8
13129570 AATGGGTAGC
13129580 ATATACAT
1 ATATACAT
13129588 A-ATACAT
1 ATATACAT
13129595 A-ATACAT
1 ATATACAT
13129602 CATATACAT
1 -ATATACAT
*
13129611 ATATACAC
1 ATATACAT
13129619 ATAT
1 ATAT
13129623 TACTTTCAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
7 13 0.41
8 13 0.41
9 6 0.19
ACGTcount: A:0.51, C:0.16, G:0.00, T:0.33
Consensus pattern (8 bp):
ATATACAT
Found at i:13129601 original size:14 final size:17
Alignment explanation
Indices: 13129580--13129622 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 17
13129570 AATGGGTAGC
13129580 ATATACAT-A-ATACAT
1 ATATACATCATATACAT
13129595 A-ATACATCATATACAT
1 ATATACATCATATACAT
13129611 ATATACA-CATAT
1 ATATACATCATAT
13129623 TACTTTCAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
14 6 0.24
15 2 0.08
16 12 0.48
17 5 0.20
ACGTcount: A:0.51, C:0.16, G:0.00, T:0.33
Consensus pattern (17 bp):
ATATACATCATATACAT
Found at i:13130494 original size:41 final size:41
Alignment explanation
Indices: 13130419--13130566 Score: 188
Period size: 41 Copynumber: 3.6 Consensus size: 41
13130409 ACACTGGTAT
* * * *
13130419 AAAGCCTGCTAGGCACAAAGCCCGATACATTTCACCGGCAC
1 AAAGCCTGCTAGGCATAAAGCCTGATATAATTCACCGGCAC
* * *
13130460 AAAGCCTGCTAGACATAAAGTCTGATATAATTCACCGGCAT
1 AAAGCCTGCTAGGCATAAAGCCTGATATAATTCACCGGCAC
* *
13130501 AGAGCCTGCTAGGCATAAAGCTTGATATAATTCACCGGCAC
1 AAAGCCTGCTAGGCATAAAGCCTGATATAATTCACCGGCAC
** *
13130542 TGAGCTTGCTAGGCATAAAGCCTGA
1 AAAGCCTGCTAGGCATAAAGCCTGA
13130567 ACTTACGAAA
Statistics
Matches: 92, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 92 1.00
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.21
Consensus pattern (41 bp):
AAAGCCTGCTAGGCATAAAGCCTGATATAATTCACCGGCAC
Found at i:13139312 original size:43 final size:41
Alignment explanation
Indices: 13139239--13139366 Score: 132
Period size: 41 Copynumber: 3.0 Consensus size: 41
13139229 TTAGAAGGCT
* * *
13139239 CATACAATGCCATCGTCCCAGACGTGGTCTTACATGTAATCA
1 CATACAATGCCATTGTCCCAGAC-AGGTCTTACACGTAATCA
* *
13139281 CATATCAATGCCATTGTCCTAGACAGAGTCTTACACG-AATTA
1 CATA-CAATGCCATTGTCCCAGACAG-GTCTTACACGTAATCA
* * * *
13139323 AATACGATGCCAATGTCCCAGACATGGTCTTACACGTAAACA
1 CATACAATGCCATTGTCCCAGACA-GGTCTTACACGTAATCA
13139365 CA
1 CA
13139367 AATCGAAGGT
Statistics
Matches: 70, Mismatches: 12, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
41 27 0.39
42 17 0.24
43 26 0.37
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.25
Consensus pattern (41 bp):
CATACAATGCCATTGTCCCAGACAGGTCTTACACGTAATCA
Found at i:13140272 original size:28 final size:28
Alignment explanation
Indices: 13140241--13140296 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
13140231 GTTTGTCTTT
*
13140241 TATTATAATAA-GTTTATAATATAATATA
1 TATTATAATAACCTTTATAA-ATAATATA
*
13140269 TATTATTATAACCTTTATAAATAATATA
1 TATTATAATAACCTTTATAAATAATATA
13140297 AAAACTATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 18 0.72
29 7 0.28
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (28 bp):
TATTATAATAACCTTTATAAATAATATA
Found at i:13146165 original size:17 final size:19
Alignment explanation
Indices: 13146118--13146160 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
13146108 TAAAATATAA
13146118 ATTTTAGAAATTTTATAAAT
1 ATTTTA-AAATTTTATAAAT
*
13146138 ATTTTAAAATTTTA-AATT
1 ATTTTAAAATTTTATAAAT
13146156 ATTTT
1 ATTTT
13146161 GAATTATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 8 0.36
19 8 0.36
20 6 0.27
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (19 bp):
ATTTTAAAATTTTATAAAT
Found at i:13146260 original size:9 final size:9
Alignment explanation
Indices: 13146246--13146279 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
13146236 ATACCAATAT
13146246 GTTATTTGA
1 GTTATTTGA
13146255 GTTATTTGA
1 GTTATTTGA
* *
13146264 ATTATTCGA
1 GTTATTTGA
13146273 GTTATTT
1 GTTATTT
13146280 AAATTGTAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.24, C:0.03, G:0.18, T:0.56
Consensus pattern (9 bp):
GTTATTTGA
Found at i:13146274 original size:18 final size:18
Alignment explanation
Indices: 13146247--13146284 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
13146237 TACCAATATG
* *
13146247 TTATTTGAGTTATTTGAA
1 TTATTCGAGTTATTTAAA
13146265 TTATTCGAGTTATTTAAA
1 TTATTCGAGTTATTTAAA
13146283 TT
1 TT
13146285 GTAAAATTCA
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:0.29, C:0.03, G:0.13, T:0.55
Consensus pattern (18 bp):
TTATTCGAGTTATTTAAA
Found at i:13147642 original size:2 final size:2
Alignment explanation
Indices: 13147637--13147673 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
13147627 AGATATATAT
13147637 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
13147674 TGCTTCTTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:13150161 original size:17 final size:17
Alignment explanation
Indices: 13150141--13150177 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
13150131 AAAATAAAAG
13150141 AAATAAAAATATAATGA
1 AAATAAAAATATAATGA
13150158 AAATAAAAATATAATGA
1 AAATAAAAATATAATGA
13150175 AAA
1 AAA
13150178 CAAGAACTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.73, C:0.00, G:0.05, T:0.22
Consensus pattern (17 bp):
AAATAAAAATATAATGA
Found at i:13151269 original size:130 final size:128
Alignment explanation
Indices: 13151038--13151345 Score: 492
Period size: 130 Copynumber: 2.4 Consensus size: 128
13151028 ATATGATTCA
* * * *
13151038 TGGTTTTAATCCGCTCTACTGCAACTTCAAGGAGATAGGATTGG-TTTCTTTTGTCTGCTGCACT
1 TGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTTTTTTTGTCTGCTCCACT
* *
13151102 ACTGCTTAGAGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGAGAGATAAGATCTG
66 ACTGCTTAGAGAGATAAGAATTGATGCGATCTACTCCACTACTGCTTAGAGAGATAAGATCTG
13151165 TGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGCTTTTTTTTCTGTCTGCTCCA
1 TGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGG-TTTTTTTT-TGTCTGCTCCA
* * *
13151230 CTACTGCTTAGGGAGATAAGAATTGATGCGATCTACTCCACTACTGCTTAGGGATATAAGATCTG
64 CTACTGCTTAGAGAGATAAGAATTGATGCGATCTACTCCACTACTGCTTAGAGAGATAAGATCTG
* *
13151295 TGGTTTTAATCCGCTCCACTGCAACTTTAGGGAGATAGGATTGATTTTTTT
1 TGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTTTTT
13151346 CAAATTGACT
Statistics
Matches: 167, Mismatches: 11, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
127 42 0.25
129 13 0.08
130 112 0.67
ACGTcount: A:0.23, C:0.19, G:0.22, T:0.35
Consensus pattern (128 bp):
TGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTTTTTTTGTCTGCTCCACT
ACTGCTTAGAGAGATAAGAATTGATGCGATCTACTCCACTACTGCTTAGAGAGATAAGATCTG
Found at i:13151558 original size:99 final size:99
Alignment explanation
Indices: 13151353--13151576 Score: 256
Period size: 99 Copynumber: 2.3 Consensus size: 99
13151343 TTTCAAATTG
* * * *
13151353 ACTGTAATGTCAGGGAA-CAAGATTCACCGTTGTAGCTTTAATATGTTCCACTGCACCGCCAGGG
1 ACTGCAATGTC-GGGAAGCAAGATTCACCGTCGTAGCTTCAATATGCTCCACTGCACCGCCAGGG
*
13151417 AAGTAAGATTCGCCGTTGCGGCTTCAATCTTTTTA
65 AAGTAAGATTCGCCGTTGCAGCTTCAATCTTTTTA
* * * * * *
13151452 ATTGCAATGTTGAGGAAGCAAGATTTACCGTCGTAGCTTCAATCTGCTCCACTGCACTGCC-TGG
1 ACTGCAATGTCG-GGAAGCAAGATTCACCGTCGTAGCTTCAATATGCTCCACTGCACCGCCAGGG
* * * *
13151516 -AGATAAGATTTGCTGTTGTAGCTTTAATCTTTTTA
65 AAG-TAAGATTCGCCGTTGCAGCTTCAATCTTTTTA
13151551 ACTGCAATGTCGGGAAAGCAAGATTC
1 ACTGCAATGTCGGG-AAGCAAGATTC
13151577 GTTGTTATGG
Statistics
Matches: 103, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
98 5 0.05
99 61 0.59
100 37 0.36
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (99 bp):
ACTGCAATGTCGGGAAGCAAGATTCACCGTCGTAGCTTCAATATGCTCCACTGCACCGCCAGGGA
AGTAAGATTCGCCGTTGCAGCTTCAATCTTTTTA
Found at i:13151595 original size:99 final size:98
Alignment explanation
Indices: 13151353--13151627 Score: 249
Period size: 99 Copynumber: 2.8 Consensus size: 98
13151343 TTTCAAATTG
* * * * * *
13151353 ACTGTAATGTC-AGGGAA-CAAGATTCACCGTTGTAGCTTTAATATGTTCCACTGCACCGCCAGG
1 ACTGCAATGTCGA-GGAAGCAAGATTTA-CGTCGTAGCTTTAATCTGTTCCACTGCACTGCCTGG
*
13151416 -GAAGTAAGATTCGCCGTTGCGGCTTCAATCTTTTTA
64 AG-A-TAAGATTCGCCGTTGCAGCTTCAATCTTTTTA
* * * *
13151452 ATTGCAATGTTGAGGAAGCAAGATTTACCGTCGTAGCTTCAATCTGCTCCACTGCACTGCCTGGA
1 ACTGCAATGTCGAGGAAGCAAGATTTA-CGTCGTAGCTTTAATCTGTTCCACTGCACTGCCTGGA
* * * *
13151517 GATAAGATTTGCTGTTGTAGCTTTAATCTTTTTA
65 GATAAGATTCGCCGTTGCAGCTTCAATCTTTTTA
* *
13151551 ACTGCAATGTCG-GGAAAGCAAGA-TT-CGTTGTTATGGCTTTAATCTGTTCCACTACA-TCGCC
1 ACTGCAATGTCGAGG-AAGCAAGATTTACGTCG-TA--GCTTTAATCTGTTCCACTGCACT-GCC
13151612 TGGGAGATAAGATTCG
61 T-GGAGATAAGATTCG
13151628 ATGTTCTTAG
Statistics
Matches: 145, Mismatches: 22, Indels: 17
0.79 0.12 0.09
Matches are distributed among these distances:
96 4 0.03
97 2 0.01
98 5 0.03
99 79 0.54
100 54 0.37
101 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.32
Consensus pattern (98 bp):
ACTGCAATGTCGAGGAAGCAAGATTTACGTCGTAGCTTTAATCTGTTCCACTGCACTGCCTGGAG
ATAAGATTCGCCGTTGCAGCTTCAATCTTTTTA
Found at i:13151668 original size:45 final size:44
Alignment explanation
Indices: 13151613--13151713 Score: 114
Period size: 44 Copynumber: 2.3 Consensus size: 44
13151603 TACATCGCCT
* *
13151613 GGGAGATAAGA-TTCGATGTTCTTAGTCTGCCCCACTGCAACTTCA
1 GGGAGATAAGACTT-G-TGTTCTCAGTCTGCCCCACTGCAACCTCA
* * * * *
13151658 GGGGGATAAGACTTGTTTTCTCGGTCTGCTCCGCTGCAACCTCA
1 GGGAGATAAGACTTGTGTTCTCAGTCTGCCCCACTGCAACCTCA
13151702 GGGAGATAAGAC
1 GGGAGATAAGAC
13151714 CTGATGTGAT
Statistics
Matches: 47, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
44 34 0.72
45 11 0.23
46 2 0.04
ACGTcount: A:0.23, C:0.24, G:0.27, T:0.27
Consensus pattern (44 bp):
GGGAGATAAGACTTGTGTTCTCAGTCTGCCCCACTGCAACCTCA
Found at i:13151793 original size:44 final size:44
Alignment explanation
Indices: 13151735--13151986 Score: 183
Period size: 44 Copynumber: 5.8 Consensus size: 44
13151725 TACTCTGCTG
* *
13151735 CAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCCACTA
1 CAACTTCAGGGAGATAAGATCTATTACTTCAATCCGCTCCACTA
* ** *
13151779 CAATTTCAGGGAGATAAGAT-TATCGGCTTCAATCTGCTCCACTA
1 CAACTTCAGGGAGATAAGATCTAT-TACTTCAATCCGCTCCACTA
* * * ** * * *
13151823 CAACCTCAGGGGGATAAGATTTACCATCTTCGATCTGCCCCACTA
1 CAACTTCAGGGAGATAAGATCTATTA-CTTCAATCCGCTCCACTA
* * * * * * * *
13151868 CAACTTCAGGGGGATAAAACCTA--A-TGCGATCCACTCTACTG
1 CAACTTCAGGGAGATAAGATCTATTACTTCAATCCGCTCCACTA
* * *
13151909 CAACTTCAGAGAGATAAGATCTATTACTTTAATTCGCTCCAAC-A
1 CAACTTCAGGGAGATAAGATCTATTACTTCAATCCGCTCC-ACTA
* *
13151953 CAACTTCAGGGAGATAGGAT-TATCAGCTTCAATC
1 CAACTTCAGGGAGATAAGATCTATTA-CTTCAATC
13151987 TGCTTCATTA
Statistics
Matches: 160, Mismatches: 40, Indels: 16
0.74 0.19 0.07
Matches are distributed among these distances:
41 30 0.19
43 9 0.06
44 82 0.51
45 39 0.24
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.27
Consensus pattern (44 bp):
CAACTTCAGGGAGATAAGATCTATTACTTCAATCCGCTCCACTA
Found at i:13151870 original size:45 final size:44
Alignment explanation
Indices: 13151773--13151884 Score: 143
Period size: 45 Copynumber: 2.5 Consensus size: 44
13151763 TTAATCCGCT
* * * * *
13151773 CCACTACAATTTCAGGGAGATAAGATTATCGGCTTCAATCTGCT
1 CCACTACAACTTCAGGGGGATAAGATTACCAGCTTCAATCTGCC
* * *
13151817 CCACTACAACCTCAGGGGGATAAGATTTACCATCTTCGATCTGCC
1 CCACTACAACTTCAGGGGGATAAGA-TTACCAGCTTCAATCTGCC
13151862 CCACTACAACTTCAGGGGGATAA
1 CCACTACAACTTCAGGGGGATAA
13151885 AACCTAATGC
Statistics
Matches: 58, Mismatches: 9, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
44 22 0.38
45 36 0.62
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (44 bp):
CCACTACAACTTCAGGGGGATAAGATTACCAGCTTCAATCTGCC
Found at i:13152277 original size:129 final size:129
Alignment explanation
Indices: 13151978--13152571 Score: 983
Period size: 129 Copynumber: 4.6 Consensus size: 129
13151968 AGGATTATCA
* * *
13151978 GCTTCAATCTGCTTCATTACACTTGAAGATAAGATTCGCCGTCTTCGATCTACTCCGCTACTGCT
1 GCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTACTGCT
* ** * *
13152043 TAGAGAGACAAGATCTGTAATTT-CCAACCTATTCCACTACTGACCAAGGATATAGGACTTGTG
66 TAGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTGTTGACCAGGGATATAGGGCTTGTG
* *
13152106 TCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTACTCCGCTACTGCT
1 GCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTACTGCT
13152171 TAGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTGTTGACCAGGGATATAGGGCTTGTG
66 TAGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTGTTGACCAGGGATATAGGGCTTGTG
* *
13152235 GCTTAAATCTGCTTCCTTACACTTGAAGATAAGAGTCACCGTCTTCGATCTGCTCCGCTACTGCT
1 GCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTACTGCT
**
13152300 TAGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTGTTGGTCAGGGATATAGGGCTTGTG
66 TAGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTGTTGACCAGGGATATAGGGCTTGTG
* *
13152364 GCTTAAATCTGCTTCCTTACACTTGAAGATAATATTTGCCGTCTTCGATCTGCTCCGCTACTGCT
1 GCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTACTGCT
* * ** *
13152429 TAGGAAGACAAGATCTATAATTTCCCAACCTATTCCACTGTTGGTCAGAGATATAGGGCTTGTG
66 TAGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTGTTGACCAGGGATATAGGGCTTGTG
*
13152493 GCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGTTCCGCTACTGCT
1 GCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTACTGCT
13152558 TAGGGAGACAAGAT
66 TAGGGAGACAAGAT
13152572 ATGCTATCTT
Statistics
Matches: 440, Mismatches: 25, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
128 84 0.19
129 356 0.81
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (129 bp):
GCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTACTGCT
TAGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTGTTGACCAGGGATATAGGGCTTGTG
Found at i:13154765 original size:6 final size:6
Alignment explanation
Indices: 13154749--13154832 Score: 86
Period size: 6 Copynumber: 14.7 Consensus size: 6
13154739 CCTTCTCTCT
* * ** *
13154749 TTTTCA TTTTGA CTTTGA TTTTGA TTTTGA TTTTTC TTTT-- TTTTTA
1 TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA
*
13154795 TTTTTA TTTTGA TTTTGA TTTTGA TTTT-- TTTTGA TTTT
1 TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTT
13154833 TTTGTTTTTT
Statistics
Matches: 68, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
4 8 0.12
6 60 0.88
ACGTcount: A:0.13, C:0.04, G:0.10, T:0.74
Consensus pattern (6 bp):
TTTTGA
Found at i:13154797 original size:16 final size:16
Alignment explanation
Indices: 13154773--13154846 Score: 80
Period size: 16 Copynumber: 4.6 Consensus size: 16
13154763 TTGATTTTGA
*
13154773 TTTTGATTTTTCTTTT
1 TTTTGATTTTTATTTT
*
13154789 TTTTTATTTTTATTTT
1 TTTTGATTTTTATTTT
*
13154805 GATTTTGATTTTGATTTT
1 --TTTTGATTTTTATTTT
13154823 TTTTGATTTTT-TTGTT
1 TTTTGATTTTTATT-TT
13154839 TTTT-ATTT
1 TTTTGATTT
13154847 GAAAGGATCT
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
15 6 0.12
16 30 0.60
18 14 0.28
ACGTcount: A:0.11, C:0.01, G:0.08, T:0.80
Consensus pattern (16 bp):
TTTTGATTTTTATTTT
Found at i:13154798 original size:40 final size:40
Alignment explanation
Indices: 13154748--13154823 Score: 125
Period size: 40 Copynumber: 1.9 Consensus size: 40
13154738 TCCTTCTCTC
13154748 TTTTTCATTTTGACTTTGATTTTGATTTTGATTTTTCTTT
1 TTTTTCATTTTGACTTTGATTTTGATTTTGATTTTTCTTT
* * *
13154788 TTTTTTATTTTTATTTTGATTTTGATTTTGATTTTT
1 TTTTTCATTTTGACTTTGATTTTGATTTTGATTTTT
13154824 TTTGATTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.13, C:0.04, G:0.09, T:0.74
Consensus pattern (40 bp):
TTTTTCATTTTGACTTTGATTTTGATTTTGATTTTTCTTT
Found at i:13154806 original size:34 final size:34
Alignment explanation
Indices: 13154755--13154833 Score: 113
Period size: 34 Copynumber: 2.3 Consensus size: 34
13154745 CTCTTTTTCA
* * **
13154755 TTTTGACTTTGATTTTGATTTTGATTTTTCTTTT
1 TTTTGATTTTTATTTTGATTTTGATTTTGATTTT
*
13154789 TTTTTATTTTTATTTTGATTTTGATTTTGATTTT
1 TTTTGATTTTTATTTTGATTTTGATTTTGATTTT
13154823 TTTTGATTTTT
1 TTTTGATTTTT
13154834 TTGTTTTTTA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 39 1.00
ACGTcount: A:0.13, C:0.03, G:0.10, T:0.75
Consensus pattern (34 bp):
TTTTGATTTTTATTTTGATTTTGATTTTGATTTT
Done.