Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 48 of 318
Found at i:13426535 original size:25 final size:27
Alignment explanation
Indices: 13426460--13426549 Score: 80
Period size: 27 Copynumber: 3.4 Consensus size: 27
13426450 AAACGAGCAC
* * *
13426460 TATCGGGAAGCTCAT-AAAGAGCTAATT
1 TATCGAGAAGCTCATGAAAGAGC-CATA
* * *
13426487 TAACAAGAAGCTCATGAAAGAGCCCT-
1 TATCGAGAAGCTCATGAAAGAGCCATA
13426513 TAATCGAGAAGCTC-T-AAAGAGCCATA
1 T-ATCGAGAAGCTCATGAAAGAGCCATA
13426539 TATCGAGAAGC
1 TATCGAGAAGC
13426550 CTGAGAGGGC
Statistics
Matches: 52, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
25 19 0.37
26 3 0.06
27 23 0.44
28 7 0.13
ACGTcount: A:0.40, C:0.19, G:0.21, T:0.20
Consensus pattern (27 bp):
TATCGAGAAGCTCATGAAAGAGCCATA
Found at i:13427074 original size:5 final size:5
Alignment explanation
Indices: 13427064--13427111 Score: 96
Period size: 5 Copynumber: 9.6 Consensus size: 5
13427054 AAAATAGAAG
13427064 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATT
13427112 AATTTAGGAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 43 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
ATTTT
Found at i:13429736 original size:18 final size:18
Alignment explanation
Indices: 13429709--13429754 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
13429699 GCCCGTACTT
* *
13429709 GACACAAGTCGCGGCCAC
1 GACACTAGTCGCGCCCAC
*
13429727 GACACTAGTCGCGCCCAT
1 GACACTAGTCGCGCCCAC
13429745 GACACTAGTC
1 GACACTAGTC
13429755 AAGATAGGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.26, C:0.37, G:0.24, T:0.13
Consensus pattern (18 bp):
GACACTAGTCGCGCCCAC
Found at i:13432769 original size:16 final size:16
Alignment explanation
Indices: 13432748--13432785 Score: 76
Period size: 16 Copynumber: 2.4 Consensus size: 16
13432738 ATTTTCGATA
13432748 TATGGGGCATTGATTT
1 TATGGGGCATTGATTT
13432764 TATGGGGCATTGATTT
1 TATGGGGCATTGATTT
13432780 TATGGG
1 TATGGG
13432786 CCCATTTGTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.18, C:0.05, G:0.34, T:0.42
Consensus pattern (16 bp):
TATGGGGCATTGATTT
Found at i:13434152 original size:12 final size:12
Alignment explanation
Indices: 13434135--13434178 Score: 61
Period size: 12 Copynumber: 3.5 Consensus size: 12
13434125 ATTGACCCAA
13434135 AGAAAAAAAAAG
1 AGAAAAAAAAAG
13434147 AGAAAAAAAAAG
1 AGAAAAAAAAAG
*
13434159 AGAGAAAAAGAAAA
1 AGA-AAAAA-AAAG
13434173 AGAAAA
1 AGAAAA
13434179 TTAAACACCC
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
12 15 0.52
13 8 0.28
14 6 0.21
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (12 bp):
AGAAAAAAAAAG
Found at i:13434156 original size:14 final size:14
Alignment explanation
Indices: 13434137--13434175 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
13434127 TGACCCAAAG
13434137 AAAAAAAAAGAGAA
1 AAAAAAAAAGAGAA
*
13434151 AAAAAAAGAGAGAA
1 AAAAAAAAAGAGAA
*
13434165 AAAGAAAAAGA
1 AAAAAAAAAGA
13434176 AAATTAAACA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAGAGAA
Found at i:13437033 original size:13 final size:13
Alignment explanation
Indices: 13437017--13437060 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
13437007 TTATTTTGTT
13437017 TTATTTAATTTTA
1 TTATTTAATTTTA
13437030 TTATTT-A-TTT-
1 TTATTTAATTTTA
13437040 TTATTTAATTTTA
1 TTATTTAATTTTA
13437053 TTAATTTA
1 TT-ATTTA
13437061 GGATTAGGCT
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
10 6 0.22
11 4 0.15
12 4 0.15
13 8 0.30
14 5 0.19
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (13 bp):
TTATTTAATTTTA
Found at i:13437034 original size:23 final size:23
Alignment explanation
Indices: 13437005--13437060 Score: 87
Period size: 23 Copynumber: 2.4 Consensus size: 23
13436995 AAATAGAAGA
13437005 TATTATTT-TGTTTTATTTAATTT
1 TATTATTTAT-TTTTATTTAATTT
13437028 TATTATTTATTTTTATTTAATTT
1 TATTATTTATTTTTATTTAATTT
13437051 TATTAATTTA
1 TATT-ATTTA
13437061 GGATTAGGCT
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
23 25 0.81
24 6 0.19
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (23 bp):
TATTATTTATTTTTATTTAATTT
Found at i:13439269 original size:5 final size:5
Alignment explanation
Indices: 13439259--13439297 Score: 71
Period size: 5 Copynumber: 8.0 Consensus size: 5
13439249 TTATTTTTTT
13439259 ATTTA ATTTA ATTTA ATTTA ATTTA ATTTA A-TTA ATTTA
1 ATTTA ATTTA ATTTA ATTTA ATTTA ATTTA ATTTA ATTTA
13439298 GGATTATGCT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 4 0.12
5 29 0.88
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
ATTTA
Found at i:13441159 original size:40 final size:40
Alignment explanation
Indices: 13441104--13441313 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
13441094 GAACATTGAA
13441104 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
13441144 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
13441184 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
13441224 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
13441263 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
13441304 CTATATCCGG
1 ATATATCCGG
13441314 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:13443688 original size:40 final size:40
Alignment explanation
Indices: 13443633--13443842 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
13443623 AACATTGGAA
13443633 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
13443673 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
13443713 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
13443753 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
13443792 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
13443833 CTATATCCGG
1 ATATATCCGG
13443843 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:13451823 original size:40 final size:40
Alignment explanation
Indices: 13451768--13451977 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
13451758 AACATTGGAA
13451768 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
13451808 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
13451848 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
13451888 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
13451927 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
13451968 CTATATCCGG
1 ATATATCCGG
13451978 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:13456627 original size:23 final size:22
Alignment explanation
Indices: 13456564--13456627 Score: 60
Period size: 23 Copynumber: 2.9 Consensus size: 22
13456554 ACTTAAAACC
*
13456564 AATTGAATTC-AATTTTAAATTT
1 AATT-AATTCAAAATTTAAATTT
* *
13456586 AAATAATTCAAACA-CTAAATTT
1 AATTAATTCAAA-ATTTAAATTT
13456608 GAATTAATTCAAAATTTAAA
1 -AATTAATTCAAAATTTAAA
13456628 AATTTAAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
21 5 0.15
22 13 0.39
23 15 0.45
ACGTcount: A:0.50, C:0.08, G:0.03, T:0.39
Consensus pattern (22 bp):
AATTAATTCAAAATTTAAATTT
Found at i:13456645 original size:40 final size:40
Alignment explanation
Indices: 13456566--13456647 Score: 96
Period size: 39 Copynumber: 2.0 Consensus size: 40
13456556 TTAAAACCAA
** *
13456566 TTGAATTCAATTTTAAATTTAAATAATTCAAACACTAAAT
1 TTGAATTCAATTCAAAATTTAAATAATTCAAAAACTAAAT
*
13456606 TTGAATT-AATTCAAAATTTAAA-AATTTAAAAATCATAAAT
1 TTGAATTCAATTCAAAATTTAAATAATTCAAAAA-C-TAAAT
13456646 TT
1 TT
13456648 ATAAATGATT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
38 8 0.22
39 14 0.39
40 14 0.39
ACGTcount: A:0.50, C:0.07, G:0.02, T:0.40
Consensus pattern (40 bp):
TTGAATTCAATTCAAAATTTAAATAATTCAAAAACTAAAT
Found at i:13456978 original size:29 final size:27
Alignment explanation
Indices: 13456886--13457031 Score: 71
Period size: 28 Copynumber: 5.0 Consensus size: 27
13456876 TACATTTTAT
* *
13456886 TAATTTTGTTTTAAATCTAAAAATTAAA
1 TAATTTAGTTTTAATTCTAAAAATT-AA
* *
13456914 TAAATTTAGCTTTCAATAT-TACAAAATTTA
1 T-AATTTAG-TTTTAAT-TCTA-AAAATTAA
*
13456944 TTATTTAGTTTTAATTCTAAAATATTCAA
1 TAATTTAGTTTTAATTCTAAAA-ATT-AA
* *
13456973 TAATTTTAGTCTTCAGCATT-TACAAAATTTA
1 TAA-TTTAGT-TTTA--ATTCTA-AAAATTAA
* * *
13457004 TCAATTTAATTATAATTCTAAAAGTTAA
1 T-AATTTAGTTTTAATTCTAAAAATTAA
13457032 AAAAAAGGAA
Statistics
Matches: 89, Mismatches: 15, Indels: 28
0.67 0.11 0.21
Matches are distributed among these distances:
27 4 0.04
28 21 0.24
29 17 0.19
30 17 0.19
31 17 0.19
32 7 0.08
33 6 0.07
ACGTcount: A:0.42, C:0.08, G:0.04, T:0.46
Consensus pattern (27 bp):
TAATTTAGTTTTAATTCTAAAAATTAA
Found at i:13457433 original size:19 final size:19
Alignment explanation
Indices: 13457391--13457431 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
13457381 TTCTTACTAT
*
13457391 AAAA-TTCATTTTTATTAA
1 AAAATTTCATTTTTAATAA
13457409 AAAATTTCATTTTTGAATAA
1 AAAATTTCATTTTT-AATAA
13457429 AAA
1 AAA
13457432 TTATTTAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 4 0.20
19 9 0.45
20 7 0.35
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (19 bp):
AAAATTTCATTTTTAATAA
Found at i:13457656 original size:60 final size:60
Alignment explanation
Indices: 13457548--13457725 Score: 189
Period size: 60 Copynumber: 3.0 Consensus size: 60
13457538 CCTTTTCAAC
* * * ** *
13457548 TTTTAGAATTAGAATTAAATTGATCAATTTTGTAAATGTTTCAGGCTAAATTTATTGAATT
1 TTTTAGAATTAGAACTAAATTGATAAATTTTGTAAATATTAAAGGCTAAATTTATT-AAAT
* * * *
13457609 TTTTAAAATTAGAACTAAA-TGATAAATTTTGTAAACATTGAAGGCTAAATTTGTTAAAT
1 TTTTAGAATTAGAACTAAATTGATAAATTTTGTAAATATTAAAGGCTAAATTTATTAAAT
* * * *
13457668 TTTTAGATTTAAGATC-AAATTGATAAAATTTGTAAATATTAAAAGGATAAATTTATTA
1 TTTTAGAATT-AGAACTAAATTGATAAATTTTGTAAATATT-AAAGGCTAAATTTATTA
13457726 TTAGGCCAAT
Statistics
Matches: 97, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
59 14 0.14
60 52 0.54
61 31 0.32
ACGTcount: A:0.42, C:0.04, G:0.12, T:0.42
Consensus pattern (60 bp):
TTTTAGAATTAGAACTAAATTGATAAATTTTGTAAATATTAAAGGCTAAATTTATTAAAT
Found at i:13461436 original size:24 final size:24
Alignment explanation
Indices: 13461409--13461458 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
13461399 GAAAGGTCAA
13461409 TATTAATAACGAAAAATAAGTTTT
1 TATTAATAACGAAAAATAAGTTTT
13461433 TATTAATAACGAAAAATAAGTTTT
1 TATTAATAACGAAAAATAAGTTTT
13461457 TA
1 TA
13461459 GTATCTAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.50, C:0.04, G:0.08, T:0.38
Consensus pattern (24 bp):
TATTAATAACGAAAAATAAGTTTT
Found at i:13462995 original size:70 final size:71
Alignment explanation
Indices: 13462916--13463061 Score: 188
Period size: 70 Copynumber: 2.1 Consensus size: 71
13462906 TTTCACATAT
* *
13462916 AAAAATAATGACATTTAAAATAATTAATTAATTTT-T-ATATTAAAATTTGCTATACCCACAGTG
1 AAAAATAATGACATTTAAAATAATTAATTAATTTTATAATATTAAAATTTACTATA-CCACAATG
**
13462979 TAGGTGA
65 TACATGA
* * * * *
13462986 AAAAATAATGACATTTGAAATGATTATTTGATTTTATAATATTAGAATTTACTATACCACAATGT
1 AAAAATAATGACATTTAAAATAATTAATTAATTTTATAATATTAAAATTTACTATACCACAATGT
13463051 ACATGA
66 ACATGA
13463057 AAAAA
1 AAAAA
13463062 ATAAATATTT
Statistics
Matches: 65, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
70 31 0.48
71 18 0.28
72 16 0.25
ACGTcount: A:0.46, C:0.08, G:0.10, T:0.36
Consensus pattern (71 bp):
AAAAATAATGACATTTAAAATAATTAATTAATTTTATAATATTAAAATTTACTATACCACAATGT
ACATGA
Found at i:13470993 original size:46 final size:46
Alignment explanation
Indices: 13470943--13471118 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
13470933 TGGTTGAGCA
13470943 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
13470989 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
13471034 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
13471082 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
13471119 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:13471099 original size:93 final size:93
Alignment explanation
Indices: 13470940--13471111 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
13470930 GGATGGTTGA
* *
13470940 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
13471005 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
13471033 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
13471098 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
13471112 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:13475197 original size:21 final size:21
Alignment explanation
Indices: 13475171--13475219 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
13475161 AACTGATTTG
*
13475171 TAACTAACTATAACAGAGTAC
1 TAACTAACTATAACAAAGTAC
13475192 TAACTAACTATAACAAAGTAC
1 TAACTAACTATAACAAAGTAC
13475213 TAACTAA
1 TAACTAA
13475220 TATTGTTACT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.51, C:0.18, G:0.06, T:0.24
Consensus pattern (21 bp):
TAACTAACTATAACAAAGTAC
Found at i:13485803 original size:24 final size:24
Alignment explanation
Indices: 13485771--13485819 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
13485761 TAGCATCTAG
13485771 TAAGCATAAAAATAAAGTAGAACC
1 TAAGCATAAAAATAAAGTAGAACC
13485795 TAAGCATAAAAATAAAGTAGAACC
1 TAAGCATAAAAATAAAGTAGAACC
13485819 T
1 T
13485820 TACTTATTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.57, C:0.12, G:0.12, T:0.18
Consensus pattern (24 bp):
TAAGCATAAAAATAAAGTAGAACC
Found at i:13488782 original size:1 final size:1
Alignment explanation
Indices: 13488776--13488800 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
13488766 TGATTGCAGA
13488776 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
13488801 GGGCGTTAGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:13494416 original size:21 final size:22
Alignment explanation
Indices: 13494392--13494450 Score: 59
Period size: 21 Copynumber: 2.7 Consensus size: 22
13494382 TATTATTGAA
**
13494392 AAATATTAATATTTTAA-TTAT
1 AAATATTAATATTAAAATTTAT
*
13494413 AAATA-TATTATTAAAATTTAT
1 AAATATTAATATTAAAATTTAT
13494434 AAATATTTAATAATTAA
1 AAATA-TTAAT-ATTAA
13494451 TGTTTTATAG
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
20 8 0.27
21 14 0.47
23 3 0.10
24 5 0.17
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
AAATATTAATATTAAAATTTAT
Found at i:13498791 original size:14 final size:14
Alignment explanation
Indices: 13498768--13498800 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
13498758 AGTGAGGGAA
*
13498768 ATTTTGGGAAATAT
1 ATTTTAGGAAATAT
13498782 ATTTTAGGAAATAT
1 ATTTTAGGAAATAT
13498796 ATTTT
1 ATTTT
13498801 GATCTCTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.48
Consensus pattern (14 bp):
ATTTTAGGAAATAT
Found at i:13501137 original size:43 final size:44
Alignment explanation
Indices: 13501089--13501238 Score: 171
Period size: 43 Copynumber: 3.5 Consensus size: 44
13501079 ATCCCATATC
* *
13501089 TGGTCTTACATGTTATCACATAT-CGATGCCACTGTCCCAGACA
1 TGGTCTTACATGTAATCACATATACGATGCCAATGTCCCAGACA
* * * * * *
13501132 AGGTCTTATATGAAATC-GATTTACGAGGCCAATGTCCCAGACA
1 TGGTCTTACATGTAATCACATATACGATGCCAATGTCCCAGACA
* * *
13501175 TGGTCTTACACGTAATCTCA-ATACAATGCCAATGTCCCAGACA
1 TGGTCTTACATGTAATCACATATACGATGCCAATGTCCCAGACA
*
13501218 TGGTCTTACATCTAATCACAT
1 TGGTCTTACATGTAATCACAT
13501239 CTCAGTAACC
Statistics
Matches: 85, Mismatches: 19, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
42 3 0.04
43 81 0.95
44 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (44 bp):
TGGTCTTACATGTAATCACATATACGATGCCAATGTCCCAGACA
Found at i:13507499 original size:40 final size:39
Alignment explanation
Indices: 13507454--13507661 Score: 211
Period size: 40 Copynumber: 5.2 Consensus size: 39
13507444 CGGAATACAA
*
13507454 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
13507494 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
13507534 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** *
13507574 CCGGATGTAGTCACTAGCAC-AATGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAAT-GCCTTCGGGTCTTAGC
** * * *
13507614 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
13507654 CCGGATAT
1 CCGGATAT
13507662 CATTCAATTG
Statistics
Matches: 143, Mismatches: 22, Indels: 6
0.84 0.13 0.04
Matches are distributed among these distances:
39 4 0.03
40 136 0.95
41 3 0.02
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:13507594 original size:80 final size:81
Alignment explanation
Indices: 13507454--13507659 Score: 240
Period size: 80 Copynumber: 2.6 Consensus size: 81
13507444 CGGAATACAA
* * *
13507454 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGA-TAGAACGACTTGCACAAAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCAC-AAT
*
13507518 -GCCTTCGGGTATTAGC
65 GGCCTTCGGGTATTAAC
* *
13507534 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAG-TC-ACTAGCACAAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-TAGAACGACTAGCACAAT
*
13507597 GGCCTTCGGGTCTTAAC
65 GGCCTTCGGGTATTAAC
** * ** * *
13507614 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT
13507660 ATCATTCAAT
Statistics
Matches: 108, Mismatches: 15, Indels: 6
0.84 0.12 0.05
Matches are distributed among these distances:
79 3 0.03
80 101 0.94
81 1 0.01
82 3 0.03
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.25
Consensus pattern (81 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAATG
GCCTTCGGGTATTAAC
Found at i:13514911 original size:40 final size:39
Alignment explanation
Indices: 13514866--13515072 Score: 202
Period size: 40 Copynumber: 5.2 Consensus size: 39
13514856 CGGAATACAA
*
13514866 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
13514906 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
13514946 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** *
13514986 CCGGATGTAGTCACTAGCAC-AATGGCCTTCGGGTCTTA-A
1 CCGGATATAACCACT-GCACAAAT-GCCTTCGGGTCTTAGC
** * * *
13515025 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
13515065 CCGGATAT
1 CCGGATAT
13515073 CATTCAATTG
Statistics
Matches: 141, Mismatches: 22, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
39 32 0.23
40 109 0.77
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.26
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:13515006 original size:80 final size:80
Alignment explanation
Indices: 13514864--13515070 Score: 233
Period size: 80 Copynumber: 2.6 Consensus size: 80
13514854 TTCGGAATAC
* * *
13514864 AACCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGA-TAGAACGACTTGCACAA
1 AACCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCAC-A
13514928 AT-GCCTTCGGGTATT
65 ATGGCCTTCGGGTATT
* * *
13514943 AGCCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAG-TC-ACTAGCAC
1 A-ACCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-TAGAACGACTAGCAC
*
13515006 AATGGCCTTCGGGTCTT
64 AATGGCCTTCGGGTATT
** * ** * *
13515023 AACCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGAT
1 AACCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT
13515071 ATCATTCAAT
Statistics
Matches: 108, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
79 42 0.39
80 62 0.57
81 1 0.01
82 3 0.03
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (80 bp):
AACCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAA
TGGCCTTCGGGTATT
Found at i:13523189 original size:46 final size:46
Alignment explanation
Indices: 13523136--13523311 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
13523126 TATTTGGGCA
13523136 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
13523182 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
13523229 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
13523275 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
13523312 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:13523291 original size:93 final size:93
Alignment explanation
Indices: 13523132--13523303 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
13523122 GGGATATTTG
* *
13523132 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
13523197 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
13523225 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
13523290 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
13523304 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:13526301 original size:15 final size:15
Alignment explanation
Indices: 13526262--13526340 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
13526252 GTATCTTGGG
*
13526262 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
13526277 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
13526292 TTTCTTTATTC-GGG
1 TTTCTTTATTCTGGA
*
13526306 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
13526321 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
13526335 TTTCTT
1 TTTCTT
13526341 GTTATCTTTG
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
13 2 0.04
14 17 0.32
15 32 0.60
16 2 0.04
ACGTcount: A:0.10, C:0.18, G:0.14, T:0.58
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:13526325 original size:29 final size:29
Alignment explanation
Indices: 13526253--13526339 Score: 95
Period size: 29 Copynumber: 3.0 Consensus size: 29
13526243 CATAGTATCG
* * * *
13526253 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTC-GGATTTCTC
*
13526283 TAT-TCTGGATTTCTTTATTCGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCGGATTTCTC
*
13526312 TATCTTGGATTTCTTTATTCGGTTTTCT
1 TATCTTGGATTTCTTTATTCGGATTTCT
13526340 TGTTATCTTT
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 32 0.65
30 17 0.35
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.56
Consensus pattern (29 bp):
TATCTTGGATTTCTTTATTCGGATTTCTC
Found at i:13528773 original size:46 final size:46
Alignment explanation
Indices: 13528720--13528895 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
13528710 TATTTGGGCA
13528720 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
13528766 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
13528813 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
13528859 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
13528896 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:13528875 original size:93 final size:93
Alignment explanation
Indices: 13528716--13528887 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
13528706 GGGATATTTG
* *
13528716 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
13528781 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
13528809 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
13528874 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
13528888 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:13534883 original size:68 final size:66
Alignment explanation
Indices: 13534811--13534982 Score: 170
Period size: 67 Copynumber: 2.6 Consensus size: 66
13534801 CATCATGTGT
* * * *
13534811 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCA
13534874 TGTAG
62 TGTAG
** * *
13534879 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCA-GTGAAGGACACCATGT
13534944 AG
65 AG
* * * *
13534946 ACAAGAGAGCTACGAGATAAAT-TGGCTAGGTCACATG
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATG
13534983 GGTGGTACTG
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
64 24 0.27
65 3 0.03
66 17 0.19
67 32 0.36
68 13 0.15
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.22
Consensus pattern (66 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATGTA
G
Found at i:13534916 original size:64 final size:64
Alignment explanation
Indices: 13534835--13535018 Score: 203
Period size: 67 Copynumber: 2.8 Consensus size: 64
13534825 AGACATTATG
* * *
13534835 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
13534899 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
13534964 AA
63 AA
* * *
13534966 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGC
13535019 CGAACTATAT
Statistics
Matches: 99, Mismatches: 16, Indels: 11
0.79 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 25 0.25
66 21 0.21
67 33 0.33
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:13546613 original size:40 final size:39
Alignment explanation
Indices: 13546502--13546652 Score: 142
Period size: 40 Copynumber: 3.8 Consensus size: 39
13546492 TTAATCACGT
* * *
13546502 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* * *
13546542 GCACGAATGCCTTCGGGCCTTAGCCCGGATATAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* *** *
13546582 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* *
13546622 GCATAATTGTCTTCGGG-CTTAGCCCGGATAT
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATAT
13546653 CATTCAATTT
Statistics
Matches: 93, Mismatches: 17, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
39 15 0.16
40 78 0.84
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
Found at i:13546636 original size:80 final size:79
Alignment explanation
Indices: 13546502--13546652 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
13546492 TTAATCACGT
*
13546502 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
13546567 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
13546582 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
13546645 CCGGATAT
64 CCGGATAT
13546653 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:13554520 original size:40 final size:40
Alignment explanation
Indices: 13554475--13554641 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
13554465 CGGAATATAA
13554475 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
13554515 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
13554555 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
13554595 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
13554634 CCGGATAT
1 CCGGATAT
13554642 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:13554625 original size:80 final size:79
Alignment explanation
Indices: 13554491--13554641 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
13554481 ATAATCACGT
*
13554491 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
13554556 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
13554571 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
13554634 CCGGATAT
64 CCGGATAT
13554642 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:13559508 original size:40 final size:40
Alignment explanation
Indices: 13559425--13559632 Score: 184
Period size: 40 Copynumber: 5.2 Consensus size: 40
13559415 CGGGATTTAA
* * * * * *
13559425 CCGGATATAGCGACTCGCTCGATTGTCTTCGGGACCTAGC
1 CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
* ** * * *
13559465 CCGGTTATAGTGATTCGCACGATTGCCTTCGGGTCTTAAC
1 CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * *
13559505 CCGGATTTGGTAACTTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
*
13559545 CCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
*** * * *
13559585 CCGGATATAATTACTAGCA-TAATTGCCTTCGGGACTTAGC
1 CCGGATATAGCAACTCGCACGAA-TGCCTTCGGGTCTTAGC
13559625 CCGGATAT
1 CCGGATAT
13559633 CATTCCAATG
Statistics
Matches: 139, Mismatches: 28, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
39 2 0.01
40 137 0.99
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:13559545 original size:80 final size:80
Alignment explanation
Indices: 13559451--13559632 Score: 220
Period size: 80 Copynumber: 2.3 Consensus size: 80
13559441 GCTCGATTGT
* * *** * * * **
13559451 CTTCGGGACCTAGCCCGGTTATAGTGATTCGCACGATTGCCTTCGGGTCTTAACCCGGATTTGGT
1 CTTCGGGACTTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAACCCGGATATAAT
*
13559516 AACTTGCACAAATGC
66 AACTAGCACAAATGC
* *
13559531 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATAAT
1 CTTCGGGACTTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAACCCGGATATAAT
* * *
13559596 TACTAGCATAATTGC
66 AACTAGCACAAATGC
13559611 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
13559633 CATTCCAATG
Statistics
Matches: 85, Mismatches: 17, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
80 85 1.00
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAACCCGGATATAAT
AACTAGCACAAATGC
Found at i:13567545 original size:40 final size:40
Alignment explanation
Indices: 13567462--13567669 Score: 184
Period size: 40 Copynumber: 5.2 Consensus size: 40
13567452 CGGGATTTAA
* * * * * *
13567462 CCGGATATAGCGACTCGCTCGATTGTCTTCGGGACCTAGC
1 CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
* ** * * *
13567502 CCGGTTATAGTGATTCGCACGATTGCCTTCGGGTCTTAAC
1 CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * *
13567542 CCGGATTTGGTAACTTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
*
13567582 CCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
*** * * *
13567622 CCGGATATAATTACTAGCA-TAATTGCCTTCGGGACTTAGC
1 CCGGATATAGCAACTCGCACGAA-TGCCTTCGGGTCTTAGC
13567662 CCGGATAT
1 CCGGATAT
13567670 CATTCCAATG
Statistics
Matches: 139, Mismatches: 28, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
39 2 0.01
40 137 0.99
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:13567582 original size:80 final size:80
Alignment explanation
Indices: 13567488--13567669 Score: 220
Period size: 80 Copynumber: 2.3 Consensus size: 80
13567478 GCTCGATTGT
* * *** * * * **
13567488 CTTCGGGACCTAGCCCGGTTATAGTGATTCGCACGATTGCCTTCGGGTCTTAACCCGGATTTGGT
1 CTTCGGGACTTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAACCCGGATATAAT
*
13567553 AACTTGCACAAATGC
66 AACTAGCACAAATGC
* *
13567568 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATAAT
1 CTTCGGGACTTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAACCCGGATATAAT
* * *
13567633 TACTAGCATAATTGC
66 AACTAGCACAAATGC
13567648 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
13567670 CATTCCAATG
Statistics
Matches: 85, Mismatches: 17, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
80 85 1.00
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAACCCGGATATAAT
AACTAGCACAAATGC
Found at i:13575270 original size:85 final size:85
Alignment explanation
Indices: 13575136--13575326 Score: 210
Period size: 85 Copynumber: 2.2 Consensus size: 85
13575126 TGAAATATCG
* * * *
13575136 TGTAAGACCGTGTCTGGGACACAGGCCTCGATTGAGATTTATGTATAAGACCATGTCTGGGACAT
1 TGTAAGACCATGTCTGGGACACAGGCATCGATTGAGATTCATG-ATAAGACCATGTCTGGGACAG
* * * *
13575201 TGTCATTG-TATCTG-ATTTCA
65 AGGCATCGATAT-TGAATTACA
* * *
13575221 TGTAAGACCCTGTCTGGGACAGAGGCATCGATATTGA-ATTACATG-TAAGACCCTGTCTGGGAC
1 TGTAAGACCATGTCTGGGACACAGGCATCG--ATTGAGATT-CATGATAAGACCATGTCTGGGAC
13575284 AGAGGCATCGATATTGAATTACA
63 AGAGGCATCGATATTGAATTACA
13575307 TGTAAGACCATGTCTGGGAC
1 TGTAAGACCATGTCTGGGAC
13575327 GTTGGCATTG
Statistics
Matches: 90, Mismatches: 11, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
85 52 0.58
86 30 0.33
87 8 0.09
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (85 bp):
TGTAAGACCATGTCTGGGACACAGGCATCGATTGAGATTCATGATAAGACCATGTCTGGGACAGA
GGCATCGATATTGAATTACA
Found at i:13575334 original size:43 final size:43
Alignment explanation
Indices: 13575136--13575326 Score: 212
Period size: 43 Copynumber: 4.5 Consensus size: 43
13575126 TGAAATATCG
* * * *
13575136 TGTAAGACCGTGTCTGGGACACAGGCCTCG--ATTGAGATT-TA
1 TGTAAGACCATGTCTGGGACAGAGGCATCGATATTGA-ATTACA
** * * *
13575177 TGTATAAGACCATGTCTGGGACATTGTCATTG-TATCTG-ATTTCA
1 TG--TAAGACCATGTCTGGGACAGAGGCATCGATAT-TGAATTACA
*
13575221 TGTAAGACCCTGTCTGGGACAGAGGCATCGATATTGAATTACA
1 TGTAAGACCATGTCTGGGACAGAGGCATCGATATTGAATTACA
*
13575264 TGTAAGACCCTGTCTGGGACAGAGGCATCGATATTGAATTACA
1 TGTAAGACCATGTCTGGGACAGAGGCATCGATATTGAATTACA
13575307 TGTAAGACCATGTCTGGGAC
1 TGTAAGACCATGTCTGGGAC
13575327 GTTGGCATTG
Statistics
Matches: 129, Mismatches: 14, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
41 2 0.02
42 25 0.19
43 95 0.74
44 5 0.04
45 2 0.02
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACAGAGGCATCGATATTGAATTACA
Found at i:13587862 original size:28 final size:29
Alignment explanation
Indices: 13587803--13587864 Score: 99
Period size: 28 Copynumber: 2.2 Consensus size: 29
13587793 AAGATCACAG
*
13587803 ATGTTCTCTGGTATAAAAAAGAAAGATAA
1 ATGTTCTCTGGTATAAAAAAGAAAGACAA
*
13587832 ATGTTCTCTGGTAT-AAAAAGAAAGACGA
1 ATGTTCTCTGGTATAAAAAAGAAAGACAA
13587860 ATGTT
1 ATGTT
13587865 GGGAGTTCCA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
28 17 0.55
29 14 0.45
ACGTcount: A:0.44, C:0.08, G:0.19, T:0.29
Consensus pattern (29 bp):
ATGTTCTCTGGTATAAAAAAGAAAGACAA
Found at i:13591839 original size:61 final size:61
Alignment explanation
Indices: 13591744--13591865 Score: 226
Period size: 61 Copynumber: 2.0 Consensus size: 61
13591734 AATACACCTC
*
13591744 ATCAAGGGGCAACACTTTGCATGGTTATAATCAACTCTCTTTTAGATGACCTGGACATGAT
1 ATCAAGGGGCAACACTTTGCATGGCTATAATCAACTCTCTTTTAGATGACCTGGACATGAT
*
13591805 ATCAAGGGTCAACACTTTGCATGGCTATAATCAACTCTCTTTTAGATGACCTGGACATGAT
1 ATCAAGGGGCAACACTTTGCATGGCTATAATCAACTCTCTTTTAGATGACCTGGACATGAT
13591866 CAAATTGCTA
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
61 59 1.00
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.31
Consensus pattern (61 bp):
ATCAAGGGGCAACACTTTGCATGGCTATAATCAACTCTCTTTTAGATGACCTGGACATGAT
Found at i:13595734 original size:15 final size:15
Alignment explanation
Indices: 13595705--13595745 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 15
13595695 GCTGTGTCCA
13595705 TCACACGG-C-TGAG
1 TCACACGGCCGTGAG
*
13595718 TCACATGGCCGTGAG
1 TCACACGGCCGTGAG
13595733 TCACACGGCCGTG
1 TCACACGGCCGTG
13595746 TCTCTGCCAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 7 0.29
14 1 0.04
15 16 0.67
ACGTcount: A:0.20, C:0.32, G:0.32, T:0.17
Consensus pattern (15 bp):
TCACACGGCCGTGAG
Found at i:13597149 original size:30 final size:30
Alignment explanation
Indices: 13597115--13597173 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
13597105 AAATTCATAT
* *
13597115 CTTTGGTAAAACGACCATTTTGCCCCTAGA
1 CTTTGATAAAACAACCATTTTGCCCCTAGA
*
13597145 CTTTGATAAAATAACCATTTTGCCCCTAG
1 CTTTGATAAAACAACCATTTTGCCCCTAG
13597174 GCTCGAAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.32
Consensus pattern (30 bp):
CTTTGATAAAACAACCATTTTGCCCCTAGA
Found at i:13604237 original size:46 final size:46
Alignment explanation
Indices: 13604130--13604298 Score: 159
Period size: 46 Copynumber: 3.6 Consensus size: 46
13604120 GTATATTTTT
* *
13604130 GCCGATGCCATGTCCCAGACATTGTCTTGCACT-GACACAC--CTCATA-
1 GCCGATG-CATGTCCCAGACA-TGTCTTACACTAG-CACTCGTCTCA-AG
* * * * *
13604176 GTCGATGCATGTCCCAGACATATCTTACACTGGC-TTACGTCTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCACT-CGTCTCAAG
*
13604222 GCCGATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCTCAAG
*
13604268 GTCGATGCCATGTCCCAGACATGGTCTTACA
1 GCCGATG-CATGTCCCAGACAT-GTCTTACA
13604299 TTGGTTCTCA
Statistics
Matches: 102, Mismatches: 13, Indels: 14
0.79 0.10 0.11
Matches are distributed among these distances:
44 11 0.11
45 15 0.15
46 53 0.52
47 15 0.15
48 8 0.08
ACGTcount: A:0.23, C:0.31, G:0.20, T:0.26
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCTCAAG
Found at i:13615118 original size:25 final size:25
Alignment explanation
Indices: 13615084--13615133 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
13615074 AGTTATTCGG
13615084 ACTTACTAAGCATGTAAATGCTTAC
1 ACTTACTAAGCATGTAAATGCTTAC
13615109 ACTTACTAAGCATGTAAATGCTTAC
1 ACTTACTAAGCATGTAAATGCTTAC
13615134 CCCTCTTTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.36, C:0.20, G:0.12, T:0.32
Consensus pattern (25 bp):
ACTTACTAAGCATGTAAATGCTTAC
Found at i:13616003 original size:40 final size:42
Alignment explanation
Indices: 13615959--13616039 Score: 112
Period size: 41 Copynumber: 2.0 Consensus size: 42
13615949 TTGGGTTTTT
13615959 GGACACGGGCGA-TGACACAGGCGTGT-CTAGGCTATGTGAG
1 GGACACGGGCGAGTGACACAGGCGTGTGCTAGGCTATGTGAG
* * * *
13615999 GGACACGGGCTAGTGACACAGGTGTGTGCTTGGCTGTGTGA
1 GGACACGGGCGAGTGACACAGGCGTGTGCTAGGCTATGTGA
13616040 AAACCCCTGT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
40 11 0.31
41 13 0.37
42 11 0.31
ACGTcount: A:0.20, C:0.19, G:0.41, T:0.21
Consensus pattern (42 bp):
GGACACGGGCGAGTGACACAGGCGTGTGCTAGGCTATGTGAG
Found at i:13617955 original size:24 final size:24
Alignment explanation
Indices: 13617881--13617972 Score: 89
Period size: 24 Copynumber: 3.8 Consensus size: 24
13617871 TATCAAGCTG
* *
13617881 AAACAGTAAGCTCTAACT-AACTGA
1 AAACAGTAAGCTCTAA-TGAGCTAA
* * *
13617905 GAACAGTAAACTCCAATGAGCTAA
1 AAACAGTAAGCTCTAATGAGCTAA
*
13617929 AAACTA-TAAGCTCTAATGAGCTGA
1 AAAC-AGTAAGCTCTAATGAGCTAA
*
13617953 AAACAGTAAGCTCTTATGAG
1 AAACAGTAAGCTCTAATGAG
13617973 TTGATATATC
Statistics
Matches: 55, Mismatches: 10, Indels: 6
0.77 0.14 0.08
Matches are distributed among these distances:
23 2 0.04
24 52 0.95
25 1 0.02
ACGTcount: A:0.43, C:0.18, G:0.16, T:0.22
Consensus pattern (24 bp):
AAACAGTAAGCTCTAATGAGCTAA
Found at i:13617972 original size:48 final size:48
Alignment explanation
Indices: 13617848--13617972 Score: 114
Period size: 48 Copynumber: 2.6 Consensus size: 48
13617838 TAAGGTCCTC
* * *
13617848 CTGAGCTGATAAACAATAAGCT-TTATCAAGCTGAAACAGTAAGCTCTAA
1 CTGAGCTGA-AAACAGTAAGCTCTTAT-GAGCTAAAACAGTAAGCTCTAA
* * * **
13617897 CT-AACTGAGAACAGTAAACTCCAATGAGCTAAAAACTA-TAAGCTCTAA
1 CTGAGCTGAAAACAGTAAGCTCTTATGAGCT-AAAAC-AGTAAGCTCTAA
13617945 -TGAGCTGAAAACAGTAAGCTCTTATGAG
1 CTGAGCTGAAAACAGTAAGCTCTTATGAG
13617973 TTGATATATC
Statistics
Matches: 59, Mismatches: 13, Indels: 9
0.73 0.16 0.11
Matches are distributed among these distances:
47 14 0.24
48 42 0.71
49 3 0.05
ACGTcount: A:0.42, C:0.18, G:0.17, T:0.23
Consensus pattern (48 bp):
CTGAGCTGAAAACAGTAAGCTCTTATGAGCTAAAACAGTAAGCTCTAA
Found at i:13619154 original size:8 final size:9
Alignment explanation
Indices: 13619127--13619158 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
13619117 ATTAAACATT
13619127 AAAATTTTC
1 AAAATTTTC
13619136 AAAATTTTC
1 AAAATTTTC
13619145 AAAA-TTTC
1 AAAATTTTC
13619153 AAAATT
1 AAAATT
13619159 ACCTAGCCAC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 8 0.36
9 14 0.64
ACGTcount: A:0.50, C:0.09, G:0.00, T:0.41
Consensus pattern (9 bp):
AAAATTTTC
Found at i:13627102 original size:26 final size:25
Alignment explanation
Indices: 13627063--13627170 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 25
13627053 TGATACAAAT
13627063 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAAT-GGTTAGGTAAATGTTCCA
*
13627089 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGG-TTAGGTAAATGTTCCA
13627115 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAAT-GGTTAGGTAAATGTTCCA
13627141 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGG-TTAGGTAAATGTTCCA
13627167 TGAT
1 TGAT
13627171 GGGAATTTCA
Statistics
Matches: 77, Mismatches: 2, Indels: 6
0.91 0.02 0.07
Matches are distributed among these distances:
25 4 0.05
26 71 0.92
27 2 0.03
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.36
Consensus pattern (25 bp):
TGATAATGGTTAGGTAAATGTTCCA
Found at i:13627120 original size:52 final size:52
Alignment explanation
Indices: 13627063--13627170 Score: 189
Period size: 52 Copynumber: 2.1 Consensus size: 52
13627053 TGATACAAAT
13627063 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
* * *
13627115 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
13627167 TGAT
1 TGAT
13627171 GGGAATTTCA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.36
Consensus pattern (52 bp):
TGATAATAGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
Found at i:13630324 original size:12 final size:12
Alignment explanation
Indices: 13630304--13630334 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
13630294 ACTTGGGGAA
*
13630304 GAGGTCGTGGTC
1 GAGGCCGTGGTC
13630316 GAGGCCGTGGTC
1 GAGGCCGTGGTC
13630328 GAGGCCG
1 GAGGCCG
13630335 AGGTAGTACT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.10, C:0.23, G:0.52, T:0.16
Consensus pattern (12 bp):
GAGGCCGTGGTC
Found at i:13635073 original size:26 final size:26
Alignment explanation
Indices: 13635044--13635150 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
13635034 TGATACAAAT
13635044 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
13635070 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
13635096 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
13635122 TGATAAT-GGTTATGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
13635147 TGAT
1 TGAT
13635151 GGGAATTTCA
Statistics
Matches: 76, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
25 21 0.28
26 55 0.72
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:13636633 original size:26 final size:26
Alignment explanation
Indices: 13636604--13636653 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
13636594 TACAGTTTTA
13636604 CCCTAGGAGATAAATT-ACCGAAATAC
1 CCCTAGG-GATAAATTGACCGAAATAC
* *
13636630 CCCTAGGGTTAAATTGACCTAAAT
1 CCCTAGGGATAAATTGACCGAAAT
13636654 GCATGTTTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 7 0.33
26 14 0.67
ACGTcount: A:0.38, C:0.22, G:0.16, T:0.24
Consensus pattern (26 bp):
CCCTAGGGATAAATTGACCGAAATAC
Found at i:13638516 original size:30 final size:30
Alignment explanation
Indices: 13638432--13638521 Score: 114
Period size: 29 Copynumber: 3.0 Consensus size: 30
13638422 CCAGACGGGT
*
13638432 AACCTCGATATAATGTCAACTTGTGTGAGC
1 AACCTTGATATAATGTCAACTTGTGTGAGC
*
13638462 AA-CTATGTTA-AATGT-AAGCTTGTGTGAGC
1 AACCT-TGATATAATGTCAA-CTTGTGTGAGC
*
13638491 AACCTTGATATATTGTCAACTTGTGTGAGC
1 AACCTTGATATAATGTCAACTTGTGTGAGC
13638521 A
1 A
13638522 TTATATTCTG
Statistics
Matches: 51, Mismatches: 4, Indels: 10
0.78 0.06 0.15
Matches are distributed among these distances:
28 2 0.04
29 24 0.47
30 23 0.45
31 2 0.04
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.33
Consensus pattern (30 bp):
AACCTTGATATAATGTCAACTTGTGTGAGC
Found at i:13645407 original size:17 final size:17
Alignment explanation
Indices: 13645361--13645410 Score: 55
Period size: 18 Copynumber: 2.9 Consensus size: 17
13645351 TATTATAACC
* *
13645361 CATCTTACCTTATTAGG
1 CATCTCACCTTATTAGA
* *
13645378 CAACCCTACCTTATTAGA
1 CATCTC-ACCTTATTAGA
13645396 CATCTCACCTTATTA
1 CATCTCACCTTATTA
13645411 AGCACTTTAC
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
17 12 0.46
18 14 0.54
ACGTcount: A:0.28, C:0.30, G:0.06, T:0.36
Consensus pattern (17 bp):
CATCTCACCTTATTAGA
Found at i:13650833 original size:3 final size:3
Alignment explanation
Indices: 13650825--13650867 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
13650815 TTGATAAAAT
13650825 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
13650868 AAAAATAAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:13650880 original size:12 final size:12
Alignment explanation
Indices: 13650818--13650875 Score: 73
Period size: 12 Copynumber: 4.8 Consensus size: 12
13650808 TAATTAATTG
13650818 ATAAAATATAATA
1 ATAAAA-ATAATA
*
13650831 ATAATAATAATA
1 ATAAAAATAATA
*
13650843 ATAATAATAATA
1 ATAAAAATAATA
*
13650855 ATAATAATAATA
1 ATAAAAATAATA
13650867 A-AAAAATAA
1 ATAAAAATAA
13650876 ATAAATAAAT
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
11 7 0.16
12 31 0.72
13 5 0.12
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (12 bp):
ATAAAAATAATA
Found at i:13654707 original size:31 final size:31
Alignment explanation
Indices: 13654672--13654735 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
13654662 CCTTTTCATG
*
13654672 TTTCATATTCCATAACACTGGGCCGAAGGCT
1 TTTCATATTCCATAACACTGGGCCGAAGCCT
* **
13654703 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTCCATAACACTGGGCCGAAGCCT
13654734 TT
1 TT
13654736 ACTGTAAATG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.36
Consensus pattern (31 bp):
TTTCATATTCCATAACACTGGGCCGAAGCCT
Found at i:13654978 original size:24 final size:24
Alignment explanation
Indices: 13654927--13655069 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
13654917 GCTTTATCAT
*
13654927 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
13654952 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
13654976 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
13654999 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
13655023 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
13655047 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
13655070 TCACTTCCTC
Statistics
Matches: 111, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
23 23 0.21
24 76 0.68
25 12 0.11
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:13655006 original size:47 final size:48
Alignment explanation
Indices: 13654927--13655068 Score: 207
Period size: 47 Copynumber: 3.0 Consensus size: 48
13654917 GCTTTATCAT
* *
13654927 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTCA
**
13654976 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
*
13655023 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTT
13655069 TTCACTTCCT
Statistics
Matches: 87, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
47 44 0.51
48 31 0.36
49 12 0.14
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.28
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
Found at i:13655027 original size:71 final size:72
Alignment explanation
Indices: 13654926--13655069 Score: 220
Period size: 71 Copynumber: 2.0 Consensus size: 72
13654916 TGCTTTATCA
*
13654926 TATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
1 TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
13654991 GCCCTTT
66 GCCCTTT
* * **
13654998 TATAACTGG-GGCATAAGCC-CTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATA
1 TATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATA
13655061 AGCCCTTT
65 AGCCCTTT
13655069 T
1 T
13655070 TCACTTCCTC
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
71 53 0.80
72 13 0.20
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.29
Consensus pattern (72 bp):
TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
GCCCTTT
Found at i:13655144 original size:20 final size:20
Alignment explanation
Indices: 13655119--13655179 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
13655109 TTATGATTAC
13655119 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
13655139 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
* *
13655159 GTCATGTGCATCTCATACAT
1 ATCATGTGCATATCATACAT
13655179 A
1 A
13655180 CCATATTTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:13655254 original size:25 final size:25
Alignment explanation
Indices: 13655222--13655269 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
13655212 ATACATAAAC
* * *
13655222 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
13655247 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
13655270 CATGGTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:13659907 original size:31 final size:31
Alignment explanation
Indices: 13659872--13659935 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
13659862 CCTTTTCATG
13659872 TTTCATATTCCATAACACTGGGCCGAAGCCT
1 TTTCATATTCCATAACACTGGGCCGAAGCCT
* **
13659903 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTCCATAACACTGGGCCGAAGCCT
13659934 TT
1 TT
13659936 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCATATTCCATAACACTGGGCCGAAGCCT
Found at i:13660203 original size:47 final size:48
Alignment explanation
Indices: 13660140--13660244 Score: 158
Period size: 47 Copynumber: 2.2 Consensus size: 48
13660130 CCGGAGGCCT
*
13660140 AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATA
1 AGCC-CTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTAGGGCATA
* **
13660189 AGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTGATAACTAGGGCATA
1 AGCCCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTAGGGCATA
13660236 AGCCCTTTT
1 AGCCCTTTT
13660245 TTACTTCCTC
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
47 43 0.83
48 5 0.10
49 4 0.08
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.30
Consensus pattern (48 bp):
AGCCCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTAGGGCATA
Found at i:13660205 original size:23 final size:24
Alignment explanation
Indices: 13660140--13660244 Score: 158
Period size: 24 Copynumber: 4.4 Consensus size: 24
13660130 CCGGAGGCCT
*
13660140 AGCCTCTTTTAATAACTGGGGCAAA
1 AGCC-CTTTTAATAACTGGGGCATA
*
13660165 AGCCCTTTCAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
13660189 AGCCCTTTT-ATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
* *
13660212 AGCCCTTTTGATAACTAGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
13660236 AGCCCTTTT
1 AGCCCTTTT
13660245 TTACTTCCTC
Statistics
Matches: 75, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
23 23 0.31
24 48 0.64
25 4 0.05
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.30
Consensus pattern (24 bp):
AGCCCTTTTAATAACTGGGGCATA
Found at i:13660319 original size:20 final size:20
Alignment explanation
Indices: 13660294--13660354 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
13660284 TTATGATTAC
13660294 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
13660314 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
* *
13660334 GTCATGTGCATCTCATACAT
1 ATCATGTGCATATCATACAT
13660354 A
1 A
13660355 CCATATTTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:13660429 original size:25 final size:25
Alignment explanation
Indices: 13660397--13660444 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
13660387 ATACATAAAC
* * *
13660397 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
13660422 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
13660445 CATGGTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:13664933 original size:21 final size:22
Alignment explanation
Indices: 13664886--13664927 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
13664876 TTAGTCCTCT
*
13664886 AATCAATTTTAATCAATGATTC
1 AATCAATTTTAATCAATAATTC
*
13664908 AATCAA-TTTAATCCATAATT
1 AATCAATTTTAATCAATAATT
13664928 TCATCATTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.43, C:0.14, G:0.02, T:0.40
Consensus pattern (22 bp):
AATCAATTTTAATCAATAATTC
Found at i:13665120 original size:19 final size:21
Alignment explanation
Indices: 13665096--13665139 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
13665086 CTAATTTCTC
*
13665096 CTTTTTCTTT-TCTTTT-TTT
1 CTTTTTCTTTCTATTTTGTTT
13665115 CTTTTTTCTTTCTATTTTGTTT
1 C-TTTTTCTTTCTATTTTGTTT
13665137 CTT
1 CTT
13665140 CTCTGTAACT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
19 1 0.05
20 9 0.43
21 7 0.33
22 4 0.19
ACGTcount: A:0.02, C:0.16, G:0.02, T:0.80
Consensus pattern (21 bp):
CTTTTTCTTTCTATTTTGTTT
Found at i:13665339 original size:3 final size:3
Alignment explanation
Indices: 13665324--13665375 Score: 86
Period size: 3 Copynumber: 17.3 Consensus size: 3
13665314 TTAATTATTG
* *
13665324 ATA ATA ATT ATA ATA ATA ATA ATA ATA ATA GTA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
13665372 ATA A
1 ATA A
13665376 ATAAATTAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:13666553 original size:2 final size:2
Alignment explanation
Indices: 13666546--13666587 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
13666536 ATTCTAAGAC
13666546 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13666588 CAAAGATAAG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13668019 original size:25 final size:25
Alignment explanation
Indices: 13667990--13668039 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
13667980 TGGTTTGCTA
13667990 GATGAAGATCTGAATGCTTATTTGG
1 GATGAAGATCTGAATGCTTATTTGG
* *
13668015 GATGAAGATTTGAATTCTTATTTGG
1 GATGAAGATCTGAATGCTTATTTGG
13668040 CTAATTTCTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.28, C:0.06, G:0.26, T:0.40
Consensus pattern (25 bp):
GATGAAGATCTGAATGCTTATTTGG
Found at i:13670805 original size:6 final size:6
Alignment explanation
Indices: 13670794--13670891 Score: 58
Period size: 6 Copynumber: 15.8 Consensus size: 6
13670784 AACTAAAATT
* * *
13670794 AGAATC AGAATC AGAATT AG-GTGAC AGAATC AGAATC AGTATC AGGTAA-C
1 AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC A-G-AATC
* * * *
13670844 AGAATC AAAATC AGAATC GGTATC AGGTAA-C AGAATC AAAATC AGAAT
1 AGAATC AGAATC AGAATC AGAATC A-G-AATC AGAATC AGAATC AGAAT
13670892 GTGAATGCAA
Statistics
Matches: 69, Mismatches: 14, Indels: 18
0.68 0.14 0.18
Matches are distributed among these distances:
5 5 0.07
6 53 0.77
7 8 0.12
8 3 0.04
ACGTcount: A:0.47, C:0.14, G:0.19, T:0.19
Consensus pattern (6 bp):
AGAATC
Found at i:13670825 original size:25 final size:25
Alignment explanation
Indices: 13670794--13670888 Score: 104
Period size: 25 Copynumber: 3.8 Consensus size: 25
13670784 AACTAAAATT
* *
13670794 AGAATCAGAATCAGAATTAGGTGAC
1 AGAATCAGAATCAGAATCAGGTAAC
*
13670819 AGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAGGTAAC
* *
13670844 AGAATCAAAATCAGAATC-GGTATC
1 AGAATCAGAATCAGAATCAGGTAAC
*
13670868 AGGTAA-CAGAATCAAAATCAG
1 A-G-AATCAGAATCAGAATCAG
13670889 AATGTGAATG
Statistics
Matches: 59, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
24 6 0.10
25 50 0.85
26 3 0.05
ACGTcount: A:0.46, C:0.15, G:0.20, T:0.19
Consensus pattern (25 bp):
AGAATCAGAATCAGAATCAGGTAAC
Found at i:13670832 original size:31 final size:29
Alignment explanation
Indices: 13670821--13670891 Score: 106
Period size: 31 Copynumber: 2.3 Consensus size: 29
13670811 TAGGTGACAG
13670821 AATCAGAATCAGTATCAGGTAACAGAATCAA
1 AATCAGAATC-G-ATCAGGTAACAGAATCAA
13670852 AATCAGAATCGGTATCAGGTAACAGAATCAA
1 AATCAGAATC-G-ATCAGGTAACAGAATCAA
13670883 AATCAGAAT
1 AATCAGAAT
13670892 GTGAATGCAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.48, C:0.15, G:0.17, T:0.20
Consensus pattern (29 bp):
AATCAGAATCGATCAGGTAACAGAATCAA
Found at i:13671323 original size:27 final size:27
Alignment explanation
Indices: 13671293--13671487 Score: 275
Period size: 27 Copynumber: 7.3 Consensus size: 27
13671283 GGGGCAAAAT
* * * *
13671293 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
13671320 GGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
13671347 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
13671374 GGTCATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
13671401 GATAATTCTACCCTACAGGGGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
13671428 GGTTATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
13671455 GGT-ATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
13671481 GGTAATT
1 GGTAATT
13671488 ACATAAAGCA
Statistics
Matches: 149, Mismatches: 18, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
26 25 0.17
27 124 0.83
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.34
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:13671539 original size:54 final size:54
Alignment explanation
Indices: 13671469--13671595 Score: 148
Period size: 54 Copynumber: 2.4 Consensus size: 54
13671459 TTCTACCCTA
13671469 CAAGGGTATTTCGGTAATTACATAAAGC-AGGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTCGGTAATTACATAAAGCGA-GGGTATTTTGGTAATTTTACAAAC
* * ** ** * **
13671523 CAATGGTATTTTGGTAATTTTATTGATCGAGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTCGGTAATTACATAAAGCGAGGGTATTTTGGTAATTTTACAAAC
*
13671577 CAAGGGTATTTCAGTAATT
1 CAAGGGTATTTCGGTAATT
13671596 TTTTACATTG
Statistics
Matches: 60, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
54 59 0.98
55 1 0.02
ACGTcount: A:0.30, C:0.09, G:0.22, T:0.39
Consensus pattern (54 bp):
CAAGGGTATTTCGGTAATTACATAAAGCGAGGGTATTTTGGTAATTTTACAAAC
Found at i:13671542 original size:27 final size:27
Alignment explanation
Indices: 13671469--13671597 Score: 132
Period size: 27 Copynumber: 4.8 Consensus size: 27
13671459 TTCTACCCTA
* ** *
13671469 CAAGGGTATTTCGGTAATTACATAAAG
1 CAAGGGTATTTTGGTAATTTTATAAAC
* *
13671496 CAGGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* ** *
13671523 CAATGGTATTTTGGTAATTTTATTGAT
1 CAAGGGTATTTTGGTAATTTTATAAAC
* *
13671550 CGAGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
**
13671577 CAAGGGTATTTCAGTAATTTT
1 CAAGGGTATTTTGGTAATTTT
13671598 TTACATTGAG
Statistics
Matches: 81, Mismatches: 21, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 81 1.00
ACGTcount: A:0.29, C:0.09, G:0.22, T:0.40
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTATAAAC
Found at i:13671609 original size:54 final size:54
Alignment explanation
Indices: 13671499--13671638 Score: 147
Period size: 54 Copynumber: 2.6 Consensus size: 54
13671489 CATAAAGCAG
** * ** *
13671499 GGGTATTTTGGTAATTTTACAAACCAATGGTATTTTGGTAATTTTATTGATCGA
1 GGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTCAGTAATTTTATTCATCGA
*
13671553 GGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTCAGTAATTTT-TTACATTGA
1 GGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTCAGTAATTTTATT-CATCGA
*** * * *
13671607 GGGTAAAATGGTAATTCTGTAAATCGAGGGTA
1 GGGTATTTTGGTAATTTTGTAAACCAAGGGTA
13671639 AGACGGTAAT
Statistics
Matches: 72, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
53 2 0.03
54 70 0.97
ACGTcount: A:0.29, C:0.07, G:0.23, T:0.41
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTCAGTAATTTTATTCATCGA
Found at i:13671620 original size:27 final size:27
Alignment explanation
Indices: 13671605--13671858 Score: 355
Period size: 27 Copynumber: 9.4 Consensus size: 27
13671595 TTTTTACATT
* *
13671605 GAGGGTAAAATGGTAATTCTGTAAATC
1 GAGGGTAAAATAGTAATTCTATAAATC
* ** *
13671632 GAGGGTAAGACGGTAATTCTGTAAATC
1 GAGGGTAAAATAGTAATTCTATAAATC
13671659 GAGGGTAAAATAGTAATTCTATAAATC
1 GAGGGTAAAATAGTAATTCTATAAATC
* *
13671686 GAGGGTAAAACAGTAATTTTATAAATC
1 GAGGGTAAAATAGTAATTCTATAAATC
13671713 GAGGGTAAAATAGTAATTCTATAAATC
1 GAGGGTAAAATAGTAATTCTATAAATC
** *
13671740 GAGGGTAAAACGGTAATTCTGTAAATC
1 GAGGGTAAAATAGTAATTCTATAAATC
13671767 GAGGGTAAAATAGTAATTCTATAAATC
1 GAGGGTAAAATAGTAATTCTATAAATC
* ** *
13671794 GAGGATAAAACGGTAATTCTGTAAATC
1 GAGGGTAAAATAGTAATTCTATAAATC
13671821 GAGGGTAAAAATAGTAATTCTATAAATC
1 GAGGGT-AAAATAGTAATTCTATAAATC
*
13671849 GAAGGTAAAA
1 GAGGGTAAAA
13671859 CGATAATTGG
Statistics
Matches: 201, Mismatches: 25, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
27 178 0.89
28 23 0.11
ACGTcount: A:0.42, C:0.08, G:0.22, T:0.28
Consensus pattern (27 bp):
GAGGGTAAAATAGTAATTCTATAAATC
Found at i:13671647 original size:81 final size:81
Alignment explanation
Indices: 13671562--13671858 Score: 355
Period size: 81 Copynumber: 3.7 Consensus size: 81
13671552 AGGGTATTTT
* * * ** * * * * * *
13671562 GGTAATTTTGTAAACCAAGGGTATTTCAGTAATTTTTTACATTGAGGGTAAAATGGTAATTCTGT
1 GGTAATTCTGTAAATCGAGGGTAAATCAGTAATTCTATAAATCGAGGGTAAAATAGTAATTCTAT
*
13671627 AAATCGAGGGTAAGAC
66 AAATCGAGGGTAAAAC
* *
13671643 GGTAATTCTGTAAATCGAGGGTAAAAT-AGTAATTCTATAAATCGAGGGTAAAACAGTAATTTTA
1 GGTAATTCTGTAAATCGAGGGT-AAATCAGTAATTCTATAAATCGAGGGTAAAATAGTAATTCTA
*
13671707 TAAATCGAGGGTAAAAT
65 TAAATCGAGGGTAAAAC
* * * * *
13671724 AGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTAT
1 GGTAATTCTGTAAATCGAGGGTAAATCAGTAATTCTATAAATCGAGGGTAAAATAGTAATTCTAT
*
13671789 AAATCGAGGATAAAAC
66 AAATCGAGGGTAAAAC
*
13671805 GGTAATTCTGTAAATCGAGGGTAAAAAT-AGTAATTCTATAAATCGAAGGTAAAA
1 GGTAATTCTGTAAATCGAGGGT--AAATCAGTAATTCTATAAATCGAGGGTAAAA
13671859 CGATAATTGG
Statistics
Matches: 182, Mismatches: 30, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
80 3 0.02
81 151 0.83
82 25 0.14
83 3 0.02
ACGTcount: A:0.40, C:0.08, G:0.21, T:0.30
Consensus pattern (81 bp):
GGTAATTCTGTAAATCGAGGGTAAATCAGTAATTCTATAAATCGAGGGTAAAATAGTAATTCTAT
AAATCGAGGGTAAAAC
Found at i:13671648 original size:54 final size:54
Alignment explanation
Indices: 13671605--13671866 Score: 434
Period size: 54 Copynumber: 4.8 Consensus size: 54
13671595 TTTTTACATT
* * *
13671605 GAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAGACGGTAATTCTGTAAATC
1 GAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATC
* * *
13671659 GAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACAGTAATTTTATAAATC
1 GAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATC
13671713 GAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATC
1 GAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATC
*
13671767 GAGGGTAAAATAGTAATTCTATAAATCGAGGATAAAACGGTAATTCTGTAAATC
1 GAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATC
* *
13671821 GAGGGTAAAAATAGTAATTCTATAAATCGAAGGTAAAACGATAATT
1 GAGGGT-AAAATAGTAATTCTATAAATCGAGGGTAAAACGGTAATT
13671867 GGGTAATTTT
Statistics
Matches: 194, Mismatches: 13, Indels: 1
0.93 0.06 0.00
Matches are distributed among these distances:
54 158 0.81
55 36 0.19
ACGTcount: A:0.42, C:0.08, G:0.22, T:0.28
Consensus pattern (54 bp):
GAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATC
Found at i:13671908 original size:27 final size:27
Alignment explanation
Indices: 13671869--13672010 Score: 153
Period size: 27 Copynumber: 5.3 Consensus size: 27
13671859 CGATAATTGG
13671869 GTAATTTTACAAATCGAGGGTATTTTA
1 GTAATTTTACAAATCGAGGGTATTTTA
*
13671896 GTAATTTTGCAAA-CTGAGGGTATTTCT-
1 GTAATTTTACAAATC-GAGGGTATTT-TA
* **
13671923 GTAATTTTACAAATCGAGGATATTTGG
1 GTAATTTTACAAATCGAGGGTATTTTA
* * * *
13671950 GTAATTTTATAAATCGGGGGTACTTTG
1 GTAATTTTACAAATCGAGGGTATTTTA
* * *
13671977 GTAATTTTACAAGTTGAGGGTATTTCA
1 GTAATTTTACAAATCGAGGGTATTTTA
13672004 GTAATTT
1 GTAATTT
13672011 GGTAAACTGA
Statistics
Matches: 95, Mismatches: 16, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
26 1 0.01
27 92 0.97
28 2 0.02
ACGTcount: A:0.30, C:0.08, G:0.22, T:0.41
Consensus pattern (27 bp):
GTAATTTTACAAATCGAGGGTATTTTA
Found at i:13672000 original size:81 final size:81
Alignment explanation
Indices: 13671860--13672010 Score: 221
Period size: 81 Copynumber: 1.9 Consensus size: 81
13671850 AAGGTAAAAC
* * *
13671860 GATAATTGGGTAATTTTACAAATCGAGGGTATTTTAGTAATTTTGCAAACTGAGGGTATTTCTGT
1 GATAATTGGGTAATTTTACAAATCGAGGGTACTTTAGTAATTTTACAAACTGAGGGTATTTCAGT
13671925 AATTTTACAAATCGAG
66 AATTTTACAAATCGAG
* * * * **
13671941 GATATTTGGGTAATTTTATAAATCGGGGGTACTTTGGTAATTTTACAAGTTGAGGGTATTTCAGT
1 GATAATTGGGTAATTTTACAAATCGAGGGTACTTTAGTAATTTTACAAACTGAGGGTATTTCAGT
13672006 AATTT
66 AATTT
13672011 GGTAAACTGA
Statistics
Matches: 61, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
81 61 1.00
ACGTcount: A:0.30, C:0.07, G:0.23, T:0.40
Consensus pattern (81 bp):
GATAATTGGGTAATTTTACAAATCGAGGGTACTTTAGTAATTTTACAAACTGAGGGTATTTCAGT
AATTTTACAAATCGAG
Found at i:13678341 original size:47 final size:46
Alignment explanation
Indices: 13678236--13678406 Score: 125
Period size: 47 Copynumber: 3.7 Consensus size: 46
13678226 GAGTAAGCTA
* * * * *
13678236 CCAATGACATGTCCCAAACATGGTCTTATACTGGCTCAT-ATCTCAAT
1 CCAATGACATGTCCCAGACAT-GTCTTACACTGACT-ATCATCTGAAG
* * *
13678283 TCAATGTCATGTCCCAGACATGGTCTTACACTGACTATCATCTTGTAG
1 CCAATGACATGTCCCAGACAT-GTCTTACACTGACTATCATC-TGAAG
** * * * *
13678331 CCAATG-CATGTCTTAGACATGTTTTACACTGGCT-TACGTCTCGAGG
1 CCAATGACATGTCCCAGACATGTCTTACACTGACTAT-CATCT-GAAG
*
13678377 CCGATG-CATGTCCCAGACATGTCTTACACT
1 CCAATGACATGTCCCAGACATGTCTTACACT
13678407 AGCTTTCGTC
Statistics
Matches: 100, Mismatches: 20, Indels: 9
0.78 0.16 0.07
Matches are distributed among these distances:
45 2 0.02
46 45 0.45
47 46 0.46
48 7 0.07
ACGTcount: A:0.25, C:0.27, G:0.17, T:0.31
Consensus pattern (46 bp):
CCAATGACATGTCCCAGACATGTCTTACACTGACTATCATCTGAAG
Found at i:13678481 original size:47 final size:45
Alignment explanation
Indices: 13678334--13678503 Score: 157
Period size: 46 Copynumber: 3.7 Consensus size: 45
13678324 CTTGTAGCCA
** * * * * *
13678334 ATGCATGTCTTAGACATGTTTTACACTGGCTTACGTCTCGAGGCCG
1 ATGCATGTCCAAGACATGTCTTACACTAGCTT-CGTCTCAATGTCG
*
13678380 ATGCATGTCCCAGACATGTCTTACACTAGCTTTCGTCTCAATGTCG
1 ATGCATGTCCAAGACATGTCTTACACTAGC-TTCGTCTCAATGTCG
13678426 ATGCCATGTCCAAGACATGGTCTTACACTAGC-TC-TCAT-AATGTAGCAG
1 ATG-CATGTCCAAGACAT-GTCTTACACTAGCTTCGTC-TCAATGT--C-G
* *
13678474 ATGCATGTCCTAGATATGTCTTACACTAGC
1 ATGCATGTCCAAGACATGTCTTACACTAGC
13678504 CCACACACAA
Statistics
Matches: 107, Mismatches: 10, Indels: 14
0.82 0.08 0.11
Matches are distributed among these distances:
45 7 0.07
46 55 0.51
47 28 0.26
48 17 0.16
ACGTcount: A:0.24, C:0.25, G:0.19, T:0.31
Consensus pattern (45 bp):
ATGCATGTCCAAGACATGTCTTACACTAGCTTCGTCTCAATGTCG
Found at i:13689823 original size:47 final size:48
Alignment explanation
Indices: 13689750--13690015 Score: 237
Period size: 47 Copynumber: 5.7 Consensus size: 48
13689740 TGAGTGAGCT
13689750 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCAT-ATCTCAA-
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCT-ATCATCTCAAG
* * * *
13689797 GTCAATGCCATGTCCCAGACATGGTCTTACTCTGACTATCATCTCATA-
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATCTCA-AG
* * * * * * *
13689845 GCCGATG-CATGTTCCTGACA-CGTATTACACTGGCTTTCGTCTTAAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATCTCAAG
* * * * * *
13689891 GTCGATG-CATGCCCCAGACAT-GTCTTACACTAGCTTTCGTCTCAAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATCTCAAG
* * * **
13689937 GCCGATGCCATGCCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCAT-CTCAAG
13689985 GCCGATG-CATGTCCCAGACAT-GTCTTACACT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACT
13690016 ATCTCGCACA
Statistics
Matches: 180, Mismatches: 32, Indels: 15
0.79 0.14 0.07
Matches are distributed among these distances:
45 1 0.01
46 72 0.40
47 77 0.43
48 29 0.16
49 1 0.01
ACGTcount: A:0.22, C:0.30, G:0.19, T:0.29
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATCTCAAG
Found at i:13690015 original size:140 final size:141
Alignment explanation
Indices: 13689752--13690015 Score: 320
Period size: 140 Copynumber: 1.9 Consensus size: 141
13689742 AGTGAGCTGC
* * * *
13689752 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATATCTCAAGTCAATGCCATGTCCCAGAC
1 CGATGCCATGCCCCAGACATGGTCTTACACTAGCTCATATCTCAAGCCAATGCCATGCCCCAGAC
* * * *
13689817 ATGGTCTTACTCTGACTATCATCTCATAGCCGATGCATGTTCCTGACACGTATTACACTGGCTTT
66 ATGGTCTTACACTGACTATCATATCATAGCCGATGCATGTCCCAGACACGTATTACACTGGCTTT
13689882 CGTCTTAAGGT
131 CGTCTTAAGGT
* * *
13689893 CGATG-CATGCCCCAGACAT-GTCTTACACTAGCT-TTCGTCTCAATGCCGATGCCATGCCCCAG
1 CGATGCCATGCCCCAGACATGGTCTTACACTAGCTCAT-ATCTCAA-GCCAATGCCATGCCCCAG
* * * * * *
13689955 ACATGGTCTTACACTGGCTCTCATAAT-GTGGCCGATGCATGTCCCAGACATGTCTTACACT
64 ACATGGTCTTACACTGACTATCAT-ATCATAGCCGATGCATGTCCCAGACACGTATTACACT
13690016 ATCTCGCACA
Statistics
Matches: 103, Mismatches: 17, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
138 1 0.01
139 19 0.18
140 77 0.75
141 6 0.06
ACGTcount: A:0.22, C:0.30, G:0.19, T:0.29
Consensus pattern (141 bp):
CGATGCCATGCCCCAGACATGGTCTTACACTAGCTCATATCTCAAGCCAATGCCATGCCCCAGAC
ATGGTCTTACACTGACTATCATATCATAGCCGATGCATGTCCCAGACACGTATTACACTGGCTTT
CGTCTTAAGGT
Found at i:13691726 original size:49 final size:49
Alignment explanation
Indices: 13691671--13691842 Score: 190
Period size: 49 Copynumber: 3.5 Consensus size: 49
13691661 TAAAGTCGAA
* * *
13691671 GCCATGTTCC-AGACAGGTCTTACAGTGACTTTCATATATCGAGGGCGAT
1 GCCATG-TCCTAGACAGGTCTTACACTGACTTTCATATATTGAGGCCGAT
* * * *
13691720 GCCATGTCCTAGACAGGTCTTACACTGGCTCTCATCTATTG-GTGTCGAT
1 GCCATGTCCTAGACAGGTCTTACACTGACTTTCATATATTGAG-GCCGAT
* * *
13691769 GCCATGTCCCAGACAGGTCTTACACTAACTTGT-ATATCTTGAGGCCGAT
1 GCCATGTCCTAGACAGGTCTTACACTGACTT-TCATATATTGAGGCCGAT
*
13691818 G-CATGTCCTAGACATGTCTTACACT
1 GCCATGTCCTAGACAGGTCTTACACT
13691843 AGCTCTCGTC
Statistics
Matches: 104, Mismatches: 15, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
48 26 0.25
49 76 0.73
50 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.30
Consensus pattern (49 bp):
GCCATGTCCTAGACAGGTCTTACACTGACTTTCATATATTGAGGCCGAT
Found at i:13691818 original size:98 final size:97
Alignment explanation
Indices: 13691665--13691849 Score: 264
Period size: 98 Copynumber: 1.9 Consensus size: 97
13691655 GCACATTAAA
* * * *
13691665 GTCGAAGCCATGTTCCAGACAGGTCTTACAGTGACTTTCATATATCGAGGGCGATGCCATGTCCT
1 GTCGAAGCCATGTCCCAGACAGGTCTTACACTAACTTTCATATATCGAGGCCGATG-CATGTCCT
*
13691730 AGACAGGTCTTACACTGGCTCTCATCTATTGGT
65 AGACAGGTCTTACACTAGCTCTCATCTATTGGT
* * *
13691763 GTCGATGCCATGTCCCAGACAGGTCTTACACTAACTTGT-ATATCTTGAGGCCGATGCATGTCCT
1 GTCGAAGCCATGTCCCAGACAGGTCTTACACTAACTT-TCATATATCGAGGCCGATGCATGTCCT
*
13691827 AGACATGTCTTACACTAGCTCTC
65 AGACAGGTCTTACACTAGCTCTC
13691850 GTCTCAATGT
Statistics
Matches: 77, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
97 29 0.38
98 47 0.61
99 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.30
Consensus pattern (97 bp):
GTCGAAGCCATGTCCCAGACAGGTCTTACACTAACTTTCATATATCGAGGCCGATGCATGTCCTA
GACAGGTCTTACACTAGCTCTCATCTATTGGT
Found at i:13695867 original size:46 final size:46
Alignment explanation
Indices: 13695814--13695989 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
13695804 TATTTGGGCA
13695814 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
13695860 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
13695907 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
13695953 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
13695990 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:13695969 original size:93 final size:93
Alignment explanation
Indices: 13695810--13695981 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
13695800 GGGATATTTG
* *
13695810 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
13695875 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
13695903 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
13695968 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
13695982 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:13697526 original size:25 final size:24
Alignment explanation
Indices: 13697493--13697579 Score: 106
Period size: 24 Copynumber: 3.6 Consensus size: 24
13697483 TTGAAAGTCT
13697493 GCACACATAGTGCTCTTAC-TTAT-TC
1 GCACACATAGTGC-C--ACGTTATCTC
*
13697518 GCACACATAGTGCCACGTTTTCTC
1 GCACACATAGTGCCACGTTATCTC
* *
13697542 GCACACATAGTGCCATGTAATCTC
1 GCACACATAGTGCCACGTTATCTC
13697566 GCACACATAGTGCC
1 GCACACATAGTGCC
13697580 GCATAGCCTT
Statistics
Matches: 56, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
22 2 0.04
23 3 0.05
24 38 0.68
25 13 0.23
ACGTcount: A:0.25, C:0.31, G:0.16, T:0.28
Consensus pattern (24 bp):
GCACACATAGTGCCACGTTATCTC
Found at i:13700338 original size:18 final size:18
Alignment explanation
Indices: 13700315--13700350 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
13700305 TCACCGGGTG
13700315 ATAGTCGATTATCAACTC
1 ATAGTCGATTATCAACTC
**
13700333 ATAGTCTTTTATCAACTC
1 ATAGTCGATTATCAACTC
13700351 TAACCATATC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.22, G:0.08, T:0.39
Consensus pattern (18 bp):
ATAGTCGATTATCAACTC
Found at i:13703755 original size:21 final size:20
Alignment explanation
Indices: 13703721--13703760 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
13703711 CACTTAAAGT
*
13703721 AGGGCACACGCCCGTGTGGA
1 AGGGCACACACCCGTGTGGA
13703741 AGGGCAACACACCCGTGTGG
1 AGGGC-ACACACCCGTGTGG
13703761 CCATTATGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.23, C:0.30, G:0.38, T:0.10
Consensus pattern (20 bp):
AGGGCACACACCCGTGTGGA
Found at i:13705063 original size:50 final size:50
Alignment explanation
Indices: 13705001--13705221 Score: 189
Period size: 50 Copynumber: 4.6 Consensus size: 50
13704991 ACATTATAGT
*
13705001 CGATGCCGTGTCCCAGACAGGTCTTACACTGA-CTTTCATATATCGAGGCC
1 CGATGCCATGTCCCAGACAGGTCTTACACTGAGCTTTCATATATCGAGG-C
* * * * *
13705051 CGATGCCATGTCCCAGACAAGTCTTACACT-AGCTCTCATCTATTG-GTGT
1 CGATGCCATGTCCCAGACAGGTCTTACACTGAGCTTTCATATATCGAG-GC
* * * *
13705100 CGATGCCATGTCCCAAACAGGTCTTACACTGA-C--ACATA-A-CAAAGC
1 CGATGCCATGTCCCAGACAGGTCTTACACTGAGCTTTCATATATCGAGGC
* * *
13705145 TGATGCCATGTCCCAGAC--GTCTTACACT-AGCTTGT-ATATCTTGAGGC
1 CGATGCCATGTCCCAGACAGGTCTTACACTGAGCTT-TCATATATCGAGGC
* *
13705192 GGATG-CATGTCCCAGACATGTCTTACACTG
1 CGATGCCATGTCCCAGACAGGTCTTACACTG
13705222 GCTCATATAC
Statistics
Matches: 136, Mismatches: 22, Indels: 27
0.74 0.12 0.15
Matches are distributed among these distances:
42 1 0.01
43 11 0.08
45 20 0.15
46 13 0.10
47 10 0.07
48 10 0.07
49 31 0.23
50 40 0.29
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.27
Consensus pattern (50 bp):
CGATGCCATGTCCCAGACAGGTCTTACACTGAGCTTTCATATATCGAGGC
Found at i:13705128 original size:99 final size:92
Alignment explanation
Indices: 13704999--13705176 Score: 239
Period size: 99 Copynumber: 1.9 Consensus size: 92
13704989 GCACATTATA
* * * * *
13704999 GTCGATGCCGTGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAGGCCCGATGCCATGTCC
1 GTCGATGCCATGTCCCAAACAGGTCTTACACTGAC--ACATA-A-CAAAG-CCGATGCCATGTCC
13705064 CAGACAAGTCTTACACTAGCTCTCATCTATTGGT
61 CAGAC--GTCTTACACTAGCTCTCATCTATTGGT
*
13705098 GTCGATGCCATGTCCCAAACAGGTCTTACACTGACACATAACAAAGCTGATGCCATGTCCCAGAC
1 GTCGATGCCATGTCCCAAACAGGTCTTACACTGACACATAACAAAGCCGATGCCATGTCCCAGAC
13705163 GTCTTACACTAGCT
66 GTCTTACACTAGCT
13705177 TGTATATCTT
Statistics
Matches: 73, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
92 14 0.19
94 18 0.25
95 3 0.04
96 1 0.01
97 4 0.05
99 33 0.45
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (92 bp):
GTCGATGCCATGTCCCAAACAGGTCTTACACTGACACATAACAAAGCCGATGCCATGTCCCAGAC
GTCTTACACTAGCTCTCATCTATTGGT
Found at i:13708300 original size:3 final size:3
Alignment explanation
Indices: 13708294--13708323 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
13708284 TATTATTATC
13708294 GTT GTT GTT GTT GTT GTT GTT GTT GTT GTT
1 GTT GTT GTT GTT GTT GTT GTT GTT GTT GTT
13708324 TAATCTTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.33, T:0.67
Consensus pattern (3 bp):
GTT
Found at i:13709864 original size:13 final size:14
Alignment explanation
Indices: 13709843--13709882 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
13709833 ATTTGATTGG
13709843 AAAATGAATTAAA-
1 AAAATGAATTAAAT
*
13709856 AATATGAATTAAAT
1 AAAATGAATTAAAT
13709870 AAAAGTGAATTAA
1 AAAA-TGAATTAA
13709883 TTTATGAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
13 12 0.52
14 3 0.13
15 8 0.35
ACGTcount: A:0.62, C:0.00, G:0.10, T:0.28
Consensus pattern (14 bp):
AAAATGAATTAAAT
Found at i:13710139 original size:17 final size:18
Alignment explanation
Indices: 13710117--13710150 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
13710107 AAAGTGATCT
13710117 TGAATTG-GAAATAAAAG
1 TGAATTGAGAAATAAAAG
*
13710134 TGAATTGAGAATTAAAA
1 TGAATTGAGAAATAAAA
13710151 TACCCTATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.53, C:0.00, G:0.21, T:0.26
Consensus pattern (18 bp):
TGAATTGAGAAATAAAAG
Found at i:13710318 original size:21 final size:21
Alignment explanation
Indices: 13710236--13710320 Score: 80
Period size: 21 Copynumber: 4.0 Consensus size: 21
13710226 GCTTTGCCGA
* *
13710236 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACCTCATGTGTCG--TT
* *
13710259 TCAGGCACCTCGTGTGTCGTA
1 TCAGGCACCTCATGTGTCGTT
* *
13710280 TCAGGCACCTCCTATGTCGTT
1 TCAGGCACCTCATGTGTCGTT
* *
13710301 TCAGGCACTTTATGTGTCGT
1 TCAGGCACCTCATGTGTCGT
13710321 GTACTGCTTC
Statistics
Matches: 51, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
21 35 0.69
23 16 0.31
ACGTcount: A:0.15, C:0.25, G:0.24, T:0.36
Consensus pattern (21 bp):
TCAGGCACCTCATGTGTCGTT
Found at i:13710615 original size:13 final size:13
Alignment explanation
Indices: 13710597--13710635 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
13710587 ATTGATATTG
*
13710597 AAATCAATTGAAT
1 AAATCAAATGAAT
13710610 AAATCAAATGAGA-
1 AAATCAAATGA-AT
13710623 AAATCAAATGAAT
1 AAATCAAATGAAT
13710636 TTAATCGATT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
12 1 0.04
13 21 0.91
14 1 0.04
ACGTcount: A:0.59, C:0.08, G:0.10, T:0.23
Consensus pattern (13 bp):
AAATCAAATGAAT
Found at i:13710687 original size:13 final size:13
Alignment explanation
Indices: 13710669--13710701 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
13710659 TATGATAAAG
13710669 TGAAATTATGAAT
1 TGAAATTATGAAT
13710682 TGAAATTATGAAT
1 TGAAATTATGAAT
13710695 TGAAATT
1 TGAAATT
13710702 GAGATATCGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.45, C:0.00, G:0.15, T:0.39
Consensus pattern (13 bp):
TGAAATTATGAAT
Found at i:13712568 original size:64 final size:64
Alignment explanation
Indices: 13712494--13712710 Score: 152
Period size: 64 Copynumber: 3.3 Consensus size: 64
13712484 CTAGGCCAGA
* *
13712494 GCCCTTTTCAAATTACAATAAACTGGGCCTTAGCGCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAAAATACAATAAACTGGGCCTTAGCGCCTTATTCAGATAACAGTATGGCCCATAG
***** * * ** *
13712558 GCCCATTTCAAAATAC-ATGCAACATCAATAACATATGCAAGCC-CATTTGGGTAACAGTGGTAC
1 GCCCATTTCAAAATACAAT--AA-A-CTGGGCCTTA-GC--GCCTTATTCAGATAACA---GTA-
* *
13712621 TGGGCCAGA-
55 TGGCCCATAG
* * * *
13712630 GCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAAAATACAATAAACTGGGCCTTAGCGCCTTATTCAGATAACAGTATGGCCCATAG
13712694 GCCCATTTCAAAATACA
1 GCCCATTTCAAAATACA
13712711 TCCAACATCA
Statistics
Matches: 106, Mismatches: 33, Indels: 28
0.63 0.20 0.17
Matches are distributed among these distances:
63 9 0.08
64 31 0.29
65 2 0.02
66 3 0.03
67 13 0.12
68 4 0.04
69 13 0.12
70 4 0.04
71 2 0.02
72 16 0.15
73 9 0.08
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (64 bp):
GCCCATTTCAAAATACAATAAACTGGGCCTTAGCGCCTTATTCAGATAACAGTATGGCCCATAG
Found at i:13712704 original size:136 final size:137
Alignment explanation
Indices: 13712460--13712745 Score: 502
Period size: 136 Copynumber: 2.1 Consensus size: 137
13712450 TATTGGGCCT
**
13712460 AAGCCCATTCAGGTAACAGTGGTACTAGGCCAGAGCCCTTTTCAAATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTAGGCCAGAGCCCTTTTCAAATTACAATAAACTGGGCCTT
* *
13712525 AGCGCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAAT-AA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATCCAACATCAATAAA
13712589 CATATGC
131 CATATGC
* *
13712596 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTAGGCCAGAGCCCTTTTCAAATTACAATAAACTGGGCCTT
*
13712661 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATCCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATCCAACATCAATAAA
13712726 CATATGC
131 CATATGC
13712733 AAGCCCATTTGGG
1 AAGCCCATTTGGG
13712746 GAGACTACTC
Statistics
Matches: 142, Mismatches: 7, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
136 120 0.85
137 22 0.15
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.24
Consensus pattern (137 bp):
AAGCCCATTTGGGTAACAGTGGTACTAGGCCAGAGCCCTTTTCAAATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATCCAACATCAATAAA
CATATGC
Found at i:13714569 original size:26 final size:26
Alignment explanation
Indices: 13714533--13714668 Score: 227
Period size: 26 Copynumber: 5.2 Consensus size: 26
13714523 CATGATATTC
13714533 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
13714559 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
13714585 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
13714611 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* * *
13714637 TTATCATGGAACATTTACCTAGCCTA
1 TTATCATGAAACATTTACCTAACCCA
13714663 TTATCA
1 TTATCA
13714669 ATTTGTATCA
Statistics
Matches: 103, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 103 1.00
ACGTcount: A:0.36, C:0.25, G:0.06, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:13718684 original size:3 final size:3
Alignment explanation
Indices: 13718676--13718705 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
13718666 TTATAATTAG
13718676 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
13718706 TATTATTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:13721743 original size:42 final size:43
Alignment explanation
Indices: 13721667--13721778 Score: 129
Period size: 42 Copynumber: 2.6 Consensus size: 43
13721657 GATTTGAGAT
*
13721667 TTACATGTAAGACCATGTTTAGGACATCGACATCG-TATATGA
1 TTACATGTAAGACCATGTTTAGGACATAGACATCGATATATGA
* * * * *
13721709 TTTCGTGTAAGACCCTGTTTAGGATAGTAG-CATCGATATTTGA
1 TTACATGTAAGACCATGTTTAGGACA-TAGACATCGATATATGA
* *
13721752 TTACATGTAAGACCACGTTTGGGACAT
1 TTACATGTAAGACCATGTTTAGGACAT
13721779 TGGCATTGTA
Statistics
Matches: 56, Mismatches: 12, Indels: 4
0.78 0.17 0.06
Matches are distributed among these distances:
42 28 0.50
43 28 0.50
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.33
Consensus pattern (43 bp):
TTACATGTAAGACCATGTTTAGGACATAGACATCGATATATGA
Done.