Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168270.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_5, whole genome shotgun sequence
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: 27802247
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 124000 characters in sequence are not A, C, G, or T
File 125 of 147
Found at i:22520513 original size:13 final size:13
Alignment explanation
Indices: 22520497--22520546 Score: 52
Period size: 13 Copynumber: 3.9 Consensus size: 13
22520487 TATAGTATTT
22520497 TATTAAATAAATA
1 TATTAAATAAATA
*
22520510 TATTAAAT-AATT
1 TATTAAATAAATA
22520522 TATT-AATATAATA
1 TATTAAATA-AATA
22520535 TA-TAAATTAAAT
1 TATTAAA-TAAAT
22520547 TAAATAAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
11 3 0.10
12 8 0.26
13 18 0.58
14 2 0.06
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
TATTAAATAAATA
Found at i:22520534 original size:25 final size:24
Alignment explanation
Indices: 22520495--22520561 Score: 72
Period size: 25 Copynumber: 2.9 Consensus size: 24
22520485 ATTATAGTAT
22520495 TTTATTAAATAAATATATTAAATAA
1 TTTATTAAATAAATATA-TAAATAA
22520520 TTTATT-AATATAATATATAAATTAA
1 TTTATTAAATA-AATATATAAA-TAA
22520545 ---ATTAAATAAATA-ATAAA
1 TTTATTAAATAAATATATAAA
22520562 ATATATATTA
Statistics
Matches: 39, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
21 5 0.13
22 7 0.18
23 4 0.10
24 8 0.21
25 15 0.38
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (24 bp):
TTTATTAAATAAATATATAAATAA
Found at i:22520569 original size:2 final size:2
Alignment explanation
Indices: 22520562--22520601 Score: 55
Period size: 2 Copynumber: 20.5 Consensus size: 2
22520552 AAATAATAAA
* *
22520562 AT AT AT AT -T AT AT TT AT AT AT AT AT AT AT AT TT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
22520602 CCCAAATGAG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
AT
Found at i:22521173 original size:21 final size:19
Alignment explanation
Indices: 22521143--22521185 Score: 50
Period size: 21 Copynumber: 2.2 Consensus size: 19
22521133 TAAAAATTAC
*
22521143 ATTTTAATTATATATAAATAT
1 ATTTTAATTA-AAATAAA-AT
*
22521164 ATTTTTATTAAAATAAAAT
1 ATTTTAATTAAAATAAAAT
22521183 ATT
1 ATT
22521186 AAATAATAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 5 0.25
20 6 0.30
21 9 0.45
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
ATTTTAATTAAAATAAAAT
Found at i:22527405 original size:10 final size:10
Alignment explanation
Indices: 22527392--22527425 Score: 50
Period size: 10 Copynumber: 3.2 Consensus size: 10
22527382 AAAAAGCATT
22527392 AAAAAAAGAA
1 AAAAAAAGAA
22527402 AAAAAAAGGGAA
1 AAAAAAA--GAA
22527414 AAAAAAAGAA
1 AAAAAAAGAA
22527424 AA
1 AA
22527426 GAGAGTTCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
10 12 0.55
12 10 0.45
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (10 bp):
AAAAAAAGAA
Found at i:22527999 original size:19 final size:20
Alignment explanation
Indices: 22527959--22527996 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
22527949 ATTTATCTAA
22527959 AAAAACACAAAAATAAAAAC
1 AAAAACACAAAAATAAAAAC
22527979 AAAAACGACAAAAA-AAAA
1 AAAAAC-ACAAAAATAAAA
22527997 CAAGTTTCCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.82, C:0.13, G:0.03, T:0.03
Consensus pattern (20 bp):
AAAAACACAAAAATAAAAAC
Found at i:22528391 original size:12 final size:12
Alignment explanation
Indices: 22528376--22528401 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
22528366 TTAAAATAAT
22528376 TAATTATATATA
1 TAATTATATATA
22528388 TAATTATATATA
1 TAATTATATATA
22528400 TA
1 TA
22528402 CTTGGGGCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (12 bp):
TAATTATATATA
Found at i:22529085 original size:16 final size:15
Alignment explanation
Indices: 22529064--22529093 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
22529054 TATCTAATTT
22529064 AAAAAACACAAAAAAG
1 AAAAAAC-CAAAAAAG
22529080 AAAAAACCAAAAAA
1 AAAAAACCAAAAAA
22529094 TAGGAAAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.83, C:0.13, G:0.03, T:0.00
Consensus pattern (15 bp):
AAAAAACCAAAAAAG
Found at i:22529244 original size:22 final size:23
Alignment explanation
Indices: 22529206--22529253 Score: 64
Period size: 22 Copynumber: 2.1 Consensus size: 23
22529196 ATAGATTTAG
22529206 AAAGACAAAAATTAAAAAA-AAA
1 AAAGACAAAAATTAAAAAAGAAA
*
22529228 AAAGA-AAAGATTGAAAAAAGAAA
1 AAAGACAAAAATT-AAAAAAGAAA
22529251 AAA
1 AAA
22529254 AAATCAACTC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 6 0.26
22 11 0.48
23 6 0.26
ACGTcount: A:0.79, C:0.02, G:0.10, T:0.08
Consensus pattern (23 bp):
AAAGACAAAAATTAAAAAAGAAA
Found at i:22529246 original size:21 final size:22
Alignment explanation
Indices: 22529206--22529256 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
22529196 ATAGATTTAG
22529206 AAAGACAAAAATTAAAAAAA-AA
1 AAAGA-AAAAATTAAAAAAAGAA
* *
22529228 AAAGAAAAGATTGAAAAAAGAA
1 AAAGAAAAAATTAAAAAAAGAA
22529250 AAA-AAAA
1 AAAGAAAA
22529257 TCAACTCCTG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
21 16 0.62
22 10 0.38
ACGTcount: A:0.80, C:0.02, G:0.10, T:0.08
Consensus pattern (22 bp):
AAAGAAAAAATTAAAAAAAGAA
Found at i:22529464 original size:15 final size:15
Alignment explanation
Indices: 22529423--22529457 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
22529413 TTATATATTT
22529423 TAAAAA-GAAAAAAG
1 TAAAAAGGAAAAAAG
*
22529437 TAAATAGGAAAAAAG
1 TAAAAAGGAAAAAAG
22529452 TAAAAA
1 TAAAAA
22529458 TGTAAAACTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
14 5 0.28
15 13 0.72
ACGTcount: A:0.74, C:0.00, G:0.14, T:0.11
Consensus pattern (15 bp):
TAAAAAGGAAAAAAG
Found at i:22530134 original size:14 final size:14
Alignment explanation
Indices: 22530108--22530150 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
22530098 TTTTTATAAT
22530108 TAAAAAAATTAAAAA
1 TAAAAAAA-TAAAAA
** *
22530123 TTTAAAAATAAAAG
1 TAAAAAAATAAAAA
22530137 TAAAAAAATAAAAA
1 TAAAAAAATAAAAA
22530151 CATAGAAAAA
Statistics
Matches: 22, Mismatches: 6, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
14 16 0.73
15 6 0.27
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (14 bp):
TAAAAAAATAAAAA
Found at i:22530801 original size:16 final size:16
Alignment explanation
Indices: 22530780--22530815 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
22530770 TGCTTATAAA
*
22530780 TTAATATATATTTTAT
1 TTAATATAAATTTTAT
22530796 TTAATATAAATTTTAT
1 TTAATATAAATTTTAT
22530812 TTAA
1 TTAA
22530816 ATTATATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
TTAATATAAATTTTAT
Found at i:22531550 original size:17 final size:16
Alignment explanation
Indices: 22531528--22531574 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
22531518 TATAAATTTG
22531528 AAAAAAAATAAAAAAT
1 AAAAAAAATAAAAAAT
**
22531544 AAAAAAAATAAAGACTT
1 AAAAAAAATAAA-AAAT
*
22531561 GAAAAAAATAAAAA
1 AAAAAAAATAAAAA
22531575 GAAGCTAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
16 13 0.50
17 13 0.50
ACGTcount: A:0.81, C:0.02, G:0.04, T:0.13
Consensus pattern (16 bp):
AAAAAAAATAAAAAAT
Found at i:22531773 original size:13 final size:12
Alignment explanation
Indices: 22531757--22531818 Score: 51
Period size: 11 Copynumber: 5.2 Consensus size: 12
22531747 TAAAAAAGAA
22531757 AAAGTGAAAAAAG
1 AAAG-GAAAAAAG
22531770 AAA-GAAAAAA-
1 AAAGGAAAAAAG
22531780 AAA-GAAGAAAAGG
1 AAAGGAA-AAAA-G
22531793 AAAGGAAAAAA-
1 AAAGGAAAAAAG
* *
22531804 AAAAGAAAAACG
1 AAAGGAAAAAAG
22531816 AAA
1 AAA
22531819 ATGAGAGAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
10 6 0.14
11 20 0.48
12 3 0.07
13 10 0.24
14 3 0.07
ACGTcount: A:0.77, C:0.02, G:0.19, T:0.02
Consensus pattern (12 bp):
AAAGGAAAAAAG
Found at i:22531782 original size:24 final size:26
Alignment explanation
Indices: 22531749--22531808 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 26
22531739 TGCGAGAGTA
22531749 AAAAAGAAAAAGTGAA-AAAA-GAAA-G
1 AAAAA-AAAAAG-GAAGAAAAGGAAAGG
22531774 -AAAAAAAAA-GAAGAAAAGGAAAGG
1 AAAAAAAAAAGGAAGAAAAGGAAAGG
22531798 AAAAAAAAAAG
1 AAAAAAAAAAG
22531809 AAAAACGAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 9
0.77 0.00 0.23
Matches are distributed among these distances:
21 3 0.10
22 4 0.13
23 9 0.30
24 5 0.17
25 9 0.30
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (26 bp):
AAAAAAAAAAGGAAGAAAAGGAAAGG
Found at i:22531809 original size:22 final size:23
Alignment explanation
Indices: 22531764--22531818 Score: 76
Period size: 23 Copynumber: 2.4 Consensus size: 23
22531754 GAAAAAGTGA
22531764 AAAAAGAAAGAAAAAAAAAGAAG
1 AAAAAGAAAGAAAAAAAAAGAAG
* *
22531787 AAAAGGAAAGGAAAAAAAA-AAG
1 AAAAAGAAAGAAAAAAAAAGAAG
22531809 AAAAACGAAA
1 AAAAA-GAAA
22531819 ATGAGAGAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
22 7 0.25
23 21 0.75
ACGTcount: A:0.80, C:0.02, G:0.18, T:0.00
Consensus pattern (23 bp):
AAAAAGAAAGAAAAAAAAAGAAG
Found at i:22536349 original size:26 final size:26
Alignment explanation
Indices: 22536260--22536349 Score: 119
Period size: 26 Copynumber: 3.5 Consensus size: 26
22536250 TTCGGACCTA
*
22536260 ATTAGGTCCATTGACATCTAGGCCCA
1 ATTAGGTCCATTGACATCTAGGCCCG
* *
22536286 ATTAGGCCCATTAACATCTAGGCCCG
1 ATTAGGTCCATTGACATCTAGGCCCG
*
22536312 ATTAAGGT-CATTGACATCTAGGCCTG
1 ATT-AGGTCCATTGACATCTAGGCCCG
*
22536338 ACTAGGTCCATT
1 ATTAGGTCCATT
22536350 TGTGCCTGGA
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
25 4 0.07
26 48 0.87
27 3 0.05
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.28
Consensus pattern (26 bp):
ATTAGGTCCATTGACATCTAGGCCCG
Found at i:22536431 original size:16 final size:17
Alignment explanation
Indices: 22536410--22536451 Score: 61
Period size: 16 Copynumber: 2.6 Consensus size: 17
22536400 TTTTTAATTG
22536410 TTATTATTATATTAT-A
1 TTATTATTATATTATCA
*
22536426 TTATTATTATCTTATCA
1 TTATTATTATATTATCA
22536443 -TATTATTAT
1 TTATTATTAT
22536452 TTTTTATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 23 0.96
17 1 0.04
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (17 bp):
TTATTATTATATTATCA
Found at i:22536434 original size:19 final size:19
Alignment explanation
Indices: 22536410--22536452 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
22536400 TTTTTAATTG
*
22536410 TTATTAT-TATATTATATTA
1 TTATTATCT-TATCATATTA
22536429 TTATTATCTTATCATATTA
1 TTATTATCTTATCATATTA
22536448 TTATT
1 TTATT
22536453 TTTTATTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 21 0.95
20 1 0.05
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.63
Consensus pattern (19 bp):
TTATTATCTTATCATATTA
Found at i:22537323 original size:6 final size:6
Alignment explanation
Indices: 22537314--22537354 Score: 50
Period size: 6 Copynumber: 6.8 Consensus size: 6
22537304 CTCTTTTTGA
22537314 TTTTAT TTTTAT TTTTAT TTTT-T GATTTTA- TTTTAT TTTTA
1 TTTTAT TTTTAT TTTTAT TTTTAT --TTTTAT TTTTAT TTTTA
22537355 ACCTATTTTC
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
5 6 0.19
6 21 0.68
7 4 0.13
ACGTcount: A:0.17, C:0.00, G:0.02, T:0.80
Consensus pattern (6 bp):
TTTTAT
Found at i:22537335 original size:13 final size:13
Alignment explanation
Indices: 22537307--22537347 Score: 59
Period size: 13 Copynumber: 3.2 Consensus size: 13
22537297 AGGTTTTCTC
22537307 TTTTTGATTTTA-
1 TTTTTGATTTTAT
22537319 TTTTT-ATTTTTAT
1 TTTTTGA-TTTTAT
22537332 TTTTTGATTTTAT
1 TTTTTGATTTTAT
22537345 TTT
1 TTT
22537348 ATTTTTAACC
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
11 1 0.04
12 10 0.38
13 14 0.54
14 1 0.04
ACGTcount: A:0.15, C:0.00, G:0.05, T:0.80
Consensus pattern (13 bp):
TTTTTGATTTTAT
Found at i:22537335 original size:25 final size:24
Alignment explanation
Indices: 22537307--22537354 Score: 87
Period size: 25 Copynumber: 2.0 Consensus size: 24
22537297 AGGTTTTCTC
22537307 TTTTTGATTTTATTTTTATTTTTAT
1 TTTTTGATTTTA-TTTTATTTTTAT
22537332 TTTTTGATTTTATTTTATTTTTA
1 TTTTTGATTTTATTTTATTTTTA
22537355 ACCTATTTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 11 0.48
25 12 0.52
ACGTcount: A:0.17, C:0.00, G:0.04, T:0.79
Consensus pattern (24 bp):
TTTTTGATTTTATTTTATTTTTAT
Found at i:22537477 original size:28 final size:25
Alignment explanation
Indices: 22537437--22537494 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 25
22537427 CTAAAAAAAG
22537437 AAAAAAGAAAAAAAATGAAGTTCTAAA
1 AAAAAAGAAAAAAAAT--AGTTCTAAA
* *
22537464 AAAAAAGGGAAAAAAATAGTTCTACA
1 AAAAAA-GAAAAAAAATAGTTCTAAA
22537490 AAAAA
1 AAAAA
22537495 TGATAAATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
26 13 0.46
27 6 0.21
28 9 0.32
ACGTcount: A:0.69, C:0.05, G:0.12, T:0.14
Consensus pattern (25 bp):
AAAAAAGAAAAAAAATAGTTCTAAA
Found at i:22538890 original size:48 final size:48
Alignment explanation
Indices: 22538838--22538932 Score: 154
Period size: 48 Copynumber: 2.0 Consensus size: 48
22538828 ATCTTTCAAT
* *
22538838 ATCTTTTAATAAATATTGATAAGTTATTTATAAAATTACAGTCCCACG
1 ATCTTTTAATAAATATTGATAAGCTATTTATAAAATTACAATCCCACG
* *
22538886 ATCTTTTAATAGATATTGATAAGCTATTTGTAAAATTACAATCCCAC
1 ATCTTTTAATAAATATTGATAAGCTATTTATAAAATTACAATCCCAC
22538933 AATCAGGTAA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 43 1.00
ACGTcount: A:0.39, C:0.14, G:0.08, T:0.39
Consensus pattern (48 bp):
ATCTTTTAATAAATATTGATAAGCTATTTATAAAATTACAATCCCACG
Found at i:22539159 original size:24 final size:24
Alignment explanation
Indices: 22539126--22539174 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
22539116 TACTTTACGA
*
22539126 GTAGAACCCAC-AGTTACATATTGT
1 GTAGAACCCACGA-TCACATATTGT
*
22539150 GTAGACCCCACGATCACATATTGT
1 GTAGAACCCACGATCACATATTGT
22539174 G
1 G
22539175 ACTGTCCCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 21 0.95
25 1 0.05
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (24 bp):
GTAGAACCCACGATCACATATTGT
Found at i:22546077 original size:25 final size:25
Alignment explanation
Indices: 22546041--22546098 Score: 82
Period size: 25 Copynumber: 2.3 Consensus size: 25
22546031 TTTTACACAA
22546041 TTTTGTAT-ATACTTTCAGATTGATC
1 TTTT-TATCATACTTTCAGATTGATC
**
22546066 TTTTTATCATACTTTCTTATTGATC
1 TTTTTATCATACTTTCAGATTGATC
22546091 TTTTTATC
1 TTTTTATC
22546099 TTATTTGCAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
24 3 0.10
25 27 0.90
ACGTcount: A:0.21, C:0.14, G:0.07, T:0.59
Consensus pattern (25 bp):
TTTTTATCATACTTTCAGATTGATC
Found at i:22549764 original size:15 final size:15
Alignment explanation
Indices: 22549744--22549774 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
22549734 TAAATTAAAC
22549744 AAAAAAACAATAGTA
1 AAAAAAACAATAGTA
*
22549759 AAAAAAATAATAGTA
1 AAAAAAACAATAGTA
22549774 A
1 A
22549775 TTATGAAGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.74, C:0.03, G:0.06, T:0.16
Consensus pattern (15 bp):
AAAAAAACAATAGTA
Found at i:22549968 original size:20 final size:20
Alignment explanation
Indices: 22549943--22549981 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
22549933 TGACACCTTC
22549943 AAAATAATAGGAATGATATA
1 AAAATAATAGGAATGATATA
*
22549963 AAAATAATAGGCATGATAT
1 AAAATAATAGGAATGATAT
22549982 TAGATGTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.56, C:0.03, G:0.15, T:0.26
Consensus pattern (20 bp):
AAAATAATAGGAATGATATA
Found at i:22553619 original size:22 final size:21
Alignment explanation
Indices: 22553579--22553620 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
22553569 ATATTAAACT
*
22553579 TTAAATAAAAATAATATATAA
1 TTAAATAAAAATAAAATATAA
22553600 TTAAATAAATAATAAAATATA
1 TTAAATAAA-AATAAAATATA
22553621 TATTTTTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (21 bp):
TTAAATAAAAATAAAATATAA
Found at i:22554357 original size:13 final size:13
Alignment explanation
Indices: 22554309--22554369 Score: 56
Period size: 13 Copynumber: 4.7 Consensus size: 13
22554299 TAGTTTTTAT
22554309 TAAAT-TAATATA
1 TAAATATAATATA
*
22554321 TTAAATAATAATTTTA
1 -TAAAT-ATAA-TATA
*
22554337 TTAATATAATATA
1 TAAATATAATATA
22554350 TAAATATAA-ATA
1 TAAATATAATATA
22554362 TAAA-ATAA
1 TAAATATAA
22554370 ATAATTATCA
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
11 4 0.10
12 7 0.17
13 16 0.39
14 4 0.10
15 7 0.17
16 3 0.07
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
TAAATATAATATA
Found at i:22554358 original size:6 final size:6
Alignment explanation
Indices: 22554339--22554372 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
22554329 TAATTTTATT
22554339 AATATA ATATATA AATATA AATATA AA-ATA AATA
1 AATATA A-ATATA AATATA AATATA AATATA AATA
22554373 ATTATCAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
5 5 0.19
6 15 0.58
7 6 0.23
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (6 bp):
AATATA
Found at i:22554358 original size:27 final size:27
Alignment explanation
Indices: 22554285--22554358 Score: 82
Period size: 29 Copynumber: 2.7 Consensus size: 27
22554275 ATTACATCTT
*
22554285 AATT-ATATATAAA-ATAGTTTTTATTA
1 AATTAATATATAAATATA-ATTTTATTA
22554311 AATTAATATATTAAATAATAATTTTATT-
1 AATTAATATA-TAAAT-ATAATTTTATTA
22554339 AATATAATATATAAATATAA
1 AAT-TAATATATAAATATAA
22554359 ATATAAAATA
Statistics
Matches: 42, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
26 4 0.10
27 9 0.21
28 12 0.29
29 14 0.33
30 3 0.07
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (27 bp):
AATTAATATATAAATATAATTTTATTA
Found at i:22554368 original size:21 final size:21
Alignment explanation
Indices: 22554344--22554387 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
22554334 TTATTAATAT
*
22554344 AATATATAAATAT-AAATATAA
1 AATAAATAAATATCAAAT-TAA
*
22554365 AATAAATAATTATCAAATTAA
1 AATAAATAAATATCAAATTAA
22554386 AA
1 AA
22554388 AGAAAAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (21 bp):
AATAAATAAATATCAAATTAA
Found at i:22554371 original size:11 final size:12
Alignment explanation
Indices: 22554339--22554372 Score: 52
Period size: 11 Copynumber: 2.8 Consensus size: 12
22554329 TAATTTTATT
22554339 AATATAATATATA
1 AATATAA-ATATA
22554352 AATATAAATATA
1 AATATAAATATA
22554364 AA-ATAAATA
1 AATATAAATA
22554373 ATTATCAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 7 0.33
12 7 0.33
13 7 0.33
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AATATAAATATA
Found at i:22554403 original size:16 final size:15
Alignment explanation
Indices: 22554384--22554414 Score: 53
Period size: 15 Copynumber: 2.0 Consensus size: 15
22554374 TTATCAAATT
22554384 AAAAAGAAAAATAATA
1 AAAAAG-AAAATAATA
22554400 AAAAAGAAAATAATA
1 AAAAAGAAAATAATA
22554415 TATAGTTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.81, C:0.00, G:0.06, T:0.13
Consensus pattern (15 bp):
AAAAAGAAAATAATA
Found at i:22555917 original size:3 final size:3
Alignment explanation
Indices: 22555909--22555944 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
22555899 GACTTGTGGC
22555909 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
22555945 CCAGAACATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:22566162 original size:22 final size:20
Alignment explanation
Indices: 22566136--22566180 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 20
22566126 TTGCTTATAT
22566136 ATTTATTGATTAAATTGAAATC
1 ATTTATTGATTAAATT-AAA-C
* *
22566158 ATTTATTTATTTAATTAAAC
1 ATTTATTGATTAAATTAAAC
22566178 ATT
1 ATT
22566181 CTTTAATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 4 0.19
21 3 0.14
22 14 0.67
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.51
Consensus pattern (20 bp):
ATTTATTGATTAAATTAAAC
Found at i:22566269 original size:59 final size:58
Alignment explanation
Indices: 22566197--22566560 Score: 348
Period size: 58 Copynumber: 6.2 Consensus size: 58
22566187 TTTTCAATGA
*
22566197 TTTT-TTGAAAAT-AAAATTTAAAAAAATGTATTTTTGAAGAAAAGTTAAAAGTATCAAT
1 TTTTCTTGAAAATAAAAATTT-AAAAAA-GTATTTTTGAAGAAAAGTTGAAAGTATCAAT
* * *
22566255 TTTTCTTGAAAATAAAAAATTTTCAAAAAA-TATTTTTGAGGAAAAGTTGAAGGTACCAA-
1 TTTTCTTGAAAAT-AAAAA-TTT-AAAAAAGTATTTTTGAAGAAAAGTTGAAAGTATCAAT
* * * * * * *
22566314 TTTTCTTTGAAAATAAAGATTTCAAAAAGCATTTTTTAGGAAAAATTAAAAGTATCAAT
1 TTTTC-TTGAAAATAAAAATTTAAAAAAGTATTTTTGAAGAAAAGTTGAAAGTATCAAT
* * * *
22566373 TTTTCTTGGAAATAAAAATTTCAAAAAGCATGTTTG-AGAAAAAGTTGAAAGTATCAAT
1 TTTTCTTGAAAATAAAAATTTAAAAAAGTATTTTTGAAG-AAAAGTTGAAAGTATCAAT
* *
22566431 TTTTCTTGAAAATAAAAAATTTCAAAAAA-TATTTTTG-TGAAAAAGTTGAAAGTATTAAT
1 TTTTCTTGAAAAT-AAAAATTT-AAAAAAGTATTTTTGAAG-AAAAGTTGAAAGTATCAAT
* * * * * *
22566490 TTTTCTTGAAAATAAAAAAATTTCAAAAAGCATTTTTGAGGAAAAATTGAAAATATTAA-
1 TTTTCTTGAAAAT--AAAAATTTAAAAAAGTATTTTTGAAGAAAAGTTGAAAGTATCAAT
*
22566549 TTTTCCTGAAAA
1 TTTTCTTGAAAA
22566561 AAATATATTT
Statistics
Matches: 261, Mismatches: 32, Indels: 25
0.82 0.10 0.08
Matches are distributed among these distances:
57 6 0.02
58 86 0.33
59 85 0.33
60 70 0.27
61 5 0.02
62 9 0.03
ACGTcount: A:0.47, C:0.05, G:0.12, T:0.36
Consensus pattern (58 bp):
TTTTCTTGAAAATAAAAATTTAAAAAAGTATTTTTGAAGAAAAGTTGAAAGTATCAAT
Found at i:22566373 original size:58 final size:58
Alignment explanation
Indices: 22566197--22566842 Score: 539
Period size: 59 Copynumber: 11.1 Consensus size: 58
22566187 TTTTCAATGA
* * *
22566197 TTTT-TTGAAAAT-AAAATTTAAAAAAATGTATTTTTGAAGAAAAGTTAAAAGTATCAAT
1 TTTTCTTGAAAATAAAAATTT-CAAAAA-GTATTTTTGAGGAAAAATTAAAAGTATCAAT
* * * * *
22566255 TTTTCTTGAAAATAAAAAATTTTCAAAAAATATTTTTGAGGAAAAGTTGAAGGTACCAA-
1 TTTTCTTGAAAAT-AAAAA-TTTCAAAAAGTATTTTTGAGGAAAAATTAAAAGTATCAAT
* * *
22566314 TTTTCTTTGAAAATAAAGATTTCAAAAAGCATTTTTTAGGAAAAATTAAAAGTATCAAT
1 TTTTC-TTGAAAATAAAAATTTCAAAAAGTATTTTTGAGGAAAAATTAAAAGTATCAAT
* * * *
22566373 TTTTCTTGGAAATAAAAATTTCAAAAAGCATGTTTGA-GAAAAAGTTGAAAGTATCAAT
1 TTTTCTTGAAAATAAAAATTTCAAAAAGTATTTTTGAGGAAAAA-TTAAAAGTATCAAT
* * * *
22566431 TTTTCTTGAAAATAAAAAATTTCAAAAAATATTTTTG-TGAAAAAGTTGAAAGTATTAAT
1 TTTTCTTGAAAAT-AAAAATTTCAAAAAGTATTTTTGAGGAAAAA-TTAAAAGTATCAAT
* *
22566490 TTTTCTTGAAAATAAAAAAATTTCAAAAAGCATTTTTGAGGAAAAATTGAAAA-TATTAA-
1 TTTTCTTGAAAAT--AAAAATTTCAAAAAGTATTTTTGAGGAAAAATT-AAAAGTATCAAT
* * * *
22566549 TTTTCCTG--AA-AAAAA--T-----A-TATTTTTGAAGAAAAGTTGAATA-TATCAAT
1 TTTTCTTGAAAATAAAAATTTCAAAAAGTATTTTTGAGGAAAAATT-AAAAGTATCAAT
* * * * * * *
22566596 TTTCCTTGCAAATAAAGATTTCAAAAAGTATTTTTAAGGAAAAGTTGAAGGTATCAAT
1 TTTTCTTGAAAATAAAAATTTCAAAAAGTATTTTTGAGGAAAAATTAAAAGTATCAAT
* * * * *
22566654 TTTTCTT-AGAAATAAAAATTTTTTAAAAAGCA-TTTTGAGAAAAAATTGAAAGTATTAAT
1 TTTTCTTGA-AAATAAAAA--TTTCAAAAAGTATTTTTGAGGAAAAATTAAAAGTATCAAT
* * *
22566713 TTTTCTT-AAAATTAAAAATTTCAAAAAAATATTTTTGAGGAAAAGTTTAAAGTATCAATT
1 TTTTCTTGAAAA-TAAAAATTTC-AAAAAGTATTTTTGAGGAAAAATTAAAAGTATCAA-T
*
22566773 TTTTCTTAAAAAT-AAAATTTCAATGAAAAAGTATTTTTGA-GAAAAAGTTGAAAAGTATCAAT
1 TTTTCTTGAAAATAAAAATTTC----AAAAAGTATTTTTGAGGAAAAA-TT-AAAAGTATCAAT
22566835 TTTTCTTG
1 TTTTCTTG
22566843 CATAAAGACA
Statistics
Matches: 486, Mismatches: 64, Indels: 72
0.78 0.10 0.12
Matches are distributed among these distances:
46 24 0.05
47 7 0.01
49 2 0.00
50 4 0.01
52 2 0.00
54 5 0.01
57 13 0.03
58 135 0.28
59 148 0.30
60 82 0.17
61 27 0.06
62 27 0.06
63 10 0.02
ACGTcount: A:0.46, C:0.05, G:0.11, T:0.37
Consensus pattern (58 bp):
TTTTCTTGAAAATAAAAATTTCAAAAAGTATTTTTGAGGAAAAATTAAAAGTATCAAT
Found at i:22566657 original size:164 final size:164
Alignment explanation
Indices: 22566412--22566841 Score: 438
Period size: 164 Copynumber: 2.5 Consensus size: 164
22566402 ATGTTTGAGA
* **
22566412 AAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAAAATTTCAAAAAATATTTTTGTGAAAAAGT
1 AAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAAAATTTCAAAAAATATTTTTAAGAAAAAGT
* *
22566477 TGAAAGTATTAATTTTTCTT-GAAAATAAAAAAATTTCAAAAAGCATTTTTGAGGAAAAATTGAA
66 TGAAAGTATCAATTTTTCTTAG-AAATAAAAAAATTTCAAAAAGCA-TTTTGAGAAAAAATTGAA
22566541 AATATTAATTTTCCTGAAAAAAATATATTTTTGAAG
129 AATATTAATTTTCCTGAAAAAAATATATTTTTGAAG
* * * *
22566577 AAAAGTTGAATA-TATCAATTTTCCTTGCAAAT-AAAGATTTCAAAAAGTATTTTTAAGGAAAAG
1 AAAAGTTGAA-AGTATCAATTTTCCTTGAAAATAAAAAATTTCAAAAAATATTTTTAAGAAAAAG
* ** *
22566640 TTGAAGGTATCAATTTTTCTTAGAAATAAAAATTTTTTAAAAAGCATTTTGAGAAAAAATTGAAA
65 TTGAAAGTATCAATTTTTCTTAGAAATAAAAAAATTTCAAAAAGCATTTTGAGAAAAAATTGAAA
* * * *
22566705 GTATTAATTTTTCTTAAAATTAAAAATTTCAAAAAAATATTTTTGAGG
130 ATATTAA-TTTTCCT-GAA--AAAAA--T-------ATATTTTTGAAG
* * * *
22566753 AAAAGTTTAAAGTATCAATTTTTTCTT-AAAA-ATAAAATTTCAATGAAAAAGTATTTTTGAGAA
1 AAAAGTTGAAAGTATCAA-TTTTCCTTGAAAATAAAAAATTTC-A--AAAAA-TATTTTTAAGAA
22566816 AAAGTTGAAAAGTATCAATTTTTCTT
61 AAAGTTG-AAAGTATCAATTTTTCTT
22566842 GCATAAAGAC
Statistics
Matches: 216, Mismatches: 26, Indels: 30
0.79 0.10 0.11
Matches are distributed among these distances:
163 24 0.11
164 71 0.33
165 31 0.14
166 1 0.00
167 5 0.02
169 1 0.00
175 1 0.00
176 36 0.17
177 8 0.04
179 4 0.02
180 17 0.08
181 17 0.08
ACGTcount: A:0.46, C:0.05, G:0.11, T:0.37
Consensus pattern (164 bp):
AAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAAAATTTCAAAAAATATTTTTAAGAAAAAGT
TGAAAGTATCAATTTTTCTTAGAAATAAAAAAATTTCAAAAAGCATTTTGAGAAAAAATTGAAAA
TATTAATTTTCCTGAAAAAAATATATTTTTGAAG
Found at i:22566676 original size:104 final size:105
Alignment explanation
Indices: 22566454--22566656 Score: 254
Period size: 104 Copynumber: 2.0 Consensus size: 105
22566444 AAAAAATTTC
* *
22566454 AAAAAATAT-TTTTGTG-A-AAAAGTTGAAAGTATTAATTTTTCTTGAAAATAAAAAAATTTCAA
1 AAAAAATATATTTT-TGAAGAAAAGTTGAAAGTATCAATTTTCCTTGAAAAT-AAAAAATTTCAA
* *
22566516 AAAGCATTTTTGAGGAAAAATTGAAAATATTAATTTTCCTGA
64 AAAGCATTTTTAAGGAAAAATTGAAAATATCAATTTTCCTGA
* *
22566558 AAAAAATATATTTTTGAAGAAAAGTTGAATA-TATCAATTTTCCTTGCAAAT-AAAGATTTCAAA
1 AAAAAATATATTTTTGAAGAAAAGTTGAA-AGTATCAATTTTCCTTGAAAATAAAAAATTTCAAA
* * **
22566621 AAGTATTTTTAAGGAAAAGTTGAAGGTATCAATTTT
65 AAGCATTTTTAAGGAAAAATTGAAAATATCAATTTT
22566657 TCTTAGAAAT
Statistics
Matches: 85, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
104 52 0.61
105 5 0.06
106 27 0.32
107 1 0.01
ACGTcount: A:0.46, C:0.05, G:0.12, T:0.36
Consensus pattern (105 bp):
AAAAAATATATTTTTGAAGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAAAATTTCAAAA
AGCATTTTTAAGGAAAAATTGAAAATATCAATTTTCCTGA
Found at i:22576774 original size:47 final size:47
Alignment explanation
Indices: 22576720--22576971 Score: 202
Period size: 49 Copynumber: 5.1 Consensus size: 47
22576710 TTTTCTTAAC
* *
22576720 AAAAAAAAAAGAGCTCAAATTAAAAACCCATAAAGGGCTGTTTAAGTTT
1 AAAAAAAAAA-AGCTCAAATTAAAAACCCATAAAGGGCAGTTTGAG-TT
*
22576769 AAAAAAAAAAAAAAAGATCAAATTAAAAACCCATAAAGGGCAGTTTGAGTT
1 ----AAAAAAAAAAAGCTCAAATTAAAAACCCATAAAGGGCAGTTTGAGTT
* * * *
22576820 CAAAAAAAAAAA-CACAAATTGAAAACCCATAAAAGACAGTTTGAGTT
1 -AAAAAAAAAAAGCTCAAATTAAAAACCCATAAAGGGCAGTTTGAGTT
* * *
22576867 CAAAAAAAAAAAAGCTCAAATTGAAAACCCGTAAGGGGC-GATTTGAGTT
1 --AAAAAAAAAAAGCTCAAATTAAAAACCCATAAAGGGCAG-TTTGAGTT
* **** * * * *
22576916 CCAAAAATAGGGGGCTAAAATTAAAAACCCACAAAGAGTAGTTTGAGTT
1 --AAAAAAAAAAAGCTCAAATTAAAAACCCATAAAGGGCAGTTTGAGTT
*
22576965 AAGAAAA
1 AAAAAAA
22576972 GATATCTAAG
Statistics
Matches: 165, Mismatches: 30, Indels: 14
0.79 0.14 0.07
Matches are distributed among these distances:
47 35 0.21
48 23 0.14
49 62 0.38
50 1 0.01
51 2 0.01
52 32 0.19
53 10 0.06
ACGTcount: A:0.53, C:0.13, G:0.16, T:0.19
Consensus pattern (47 bp):
AAAAAAAAAAAGCTCAAATTAAAAACCCATAAAGGGCAGTTTGAGTT
Found at i:22576790 original size:52 final size:52
Alignment explanation
Indices: 22576715--22576879 Score: 187
Period size: 52 Copynumber: 3.3 Consensus size: 52
22576705 AGTACTTTTC
* * * *
22576715 TTAACAAAAAAAAAAGAGCTCAAATTAAAAACCCATAAAGGGCTGTTTAAGT
1 TTAAAAAAAAAAAAAAAGATCAAATTAAAAACCCATAAAGGGCAGTTTAAGT
*
22576767 TTAAAAAAAAAAAAAAAGATCAAATTAAAAACCCATAAAGGGCAGTTTGAG-
1 TTAAAAAAAAAAAAAAAGATCAAATTAAAAACCCATAAAGGGCAGTTTAAGT
* * * * * *
22576818 TT---CAAAAAAAAAAACA-CAAATTGAAAACCCATAAAAGACAGTTTGAGT
1 TTAAAAAAAAAAAAAAAGATCAAATTAAAAACCCATAAAGGGCAGTTTAAGT
*
22576866 TCAAAAAAAAAAAA
1 TTAAAAAAAAAAAA
22576880 GCTCAAATTG
Statistics
Matches: 97, Mismatches: 12, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
47 28 0.29
48 13 0.13
51 10 0.10
52 46 0.47
ACGTcount: A:0.58, C:0.12, G:0.12, T:0.18
Consensus pattern (52 bp):
TTAAAAAAAAAAAAAAAGATCAAATTAAAAACCCATAAAGGGCAGTTTAAGT
Found at i:22578187 original size:258 final size:257
Alignment explanation
Indices: 22577705--22578435 Score: 844
Period size: 258 Copynumber: 2.8 Consensus size: 257
22577695 CTAAAATATG
* * * * * * * *
22577705 TTGGCTTAGTCCAGATTATTCTTTTCAGACTTCGATTCTATTC-AGGTCATTTTATTTTTGGATT
1 TTGGTTTAGTCCA-ATTATTCATTTCAAACTTTGGTTC-AGTCTAGGTCATTTTGTTTTTAGATT
* * * *
22577769 TTGACTTATGTCAAAT-TTTTTTTGACTCAGTCTAAGTTATTCATTTCAA-ACTTCGATTCAATC
64 TTGACTTATGTCAAATCCTTCTTTGGCTCAGTCTAAGTTATTCATTT-AAGACTTCGGTTCAATC
* * * * * * *
22577832 CAGGTTA-TTCAGTTTTCAGATTTTGGCTTATGCCAAATCTTTTTTTAGCTCAATCCAATTTATT
128 CAGGTTATTTTA-TTTTCAGATTTTGACTTATGTCAAATCTTTCTTTGGCTCAGTCCAAGTTATT
* ** * * * * * * *
22577896 CATTTCAAACCTCAATTCAGTTCAGGTCATTCTATTTTTGAATTTTGG-TCTATGTCAGATCCTT
192 CATTTCAAACTTTGATTCAATCCAAGCCATTCTATTTTCGAATTTTGGCT-TATGCCAAATCCTT
22577960 CT
256 CT
*
22577962 TTGGTTTAGTCCAACTTATTCATTTCAAACTTTGGTTCAGTCTAGGTCATTTTGTTTTTAAATTT
1 TTGGTTTAGTCCAA-TTATTCATTTCAAACTTTGGTTCAGTCTAGGTCATTTTGTTTTTAGATTT
* * *
22578027 TGACTTATGTCAAATCCTTCTTTGGCTCAGTCTAAGTTATTCATTTTAGACTTCGGTTTAGTCCA
65 TGACTTATGTCAAATCCTTCTTTGGCTCAGTCTAAGTTATTCATTTAAGACTTCGGTTCAATCCA
* * * *
22578092 GGTTATTTTATTTTCAAATTTTGACTTAAGTTAAATCTTTCTTTGGTTCAGTCCAAGTTATTCAT
130 GGTTATTTTATTTTCAGATTTTGACTTATGTCAAATCTTTCTTTGGCTCAGTCCAAGTTATTCAT
* * * *
22578157 TTCAAACTTTGGTTTAATCCAAGCCATTCTATTTTCGGATTTTGGCTTATGCCAAATCTTTCT
195 TTCAAACTTTGATTCAATCCAAGCCATTCTATTTTCGAATTTTGGCTTATGCCAAATCCTTCT
* * * * * *
22578220 TTGGTTCAGTCTAAGTTATTCATTT-AAGACTTTAGTTCAGTATAGGTAATTTTGTTTTCAGATT
1 TTGGTTTAGTCCAA-TTATTCATTTCAA-ACTTTGGTTCAGTCTAGGTCATTTTGTTTTTAGATT
** * * * *
22578284 TTGACTTATGTCAAATCCTTCTTCAGCTCAGTCCAAGTTATTTATTTAAGACTTCCGTTCAATTC
64 TTGACTTATGTCAAATCCTTCTTTGGCTCAGTCTAAGTTATTCATTTAAGACTTCGGTTCAATCC
* *
22578349 AGGTCATTTTATTTTCAGATTTTGACTTATGTCAAATCTTTCTTTGGCTCAGTCCAGGTTATTCA
129 AGGTTATTTTATTTTCAGATTTTGACTTATGTCAAATCTTTCTTTGGCTCAGTCCAAGTTATTCA
*
22578414 TTTCAGACTTTGATTCAATCCA
194 TTTCAAACTTTGATTCAATCCA
22578436 TGTCGTTTTG
Statistics
Matches: 400, Mismatches: 67, Indels: 13
0.83 0.14 0.03
Matches are distributed among these distances:
256 4 0.01
257 68 0.17
258 324 0.81
259 4 0.01
ACGTcount: A:0.23, C:0.17, G:0.13, T:0.46
Consensus pattern (257 bp):
TTGGTTTAGTCCAATTATTCATTTCAAACTTTGGTTCAGTCTAGGTCATTTTGTTTTTAGATTTT
GACTTATGTCAAATCCTTCTTTGGCTCAGTCTAAGTTATTCATTTAAGACTTCGGTTCAATCCAG
GTTATTTTATTTTCAGATTTTGACTTATGTCAAATCTTTCTTTGGCTCAGTCCAAGTTATTCATT
TCAAACTTTGATTCAATCCAAGCCATTCTATTTTCGAATTTTGGCTTATGCCAAATCCTTCT
Found at i:22578505 original size:86 final size:86
Alignment explanation
Indices: 22577705--22578506 Score: 727
Period size: 86 Copynumber: 9.3 Consensus size: 86
22577695 CTAAAATATG
* * * * **
22577705 TTGGCTTAGTCC-AGATTATTCTTTTCAGACTTCGATTCTATTCAGGTCATTTTATTTTTGGATT
1 TTGGCTCAGTCCAAG-TTATTCATTTCAGACTTCGATTCAATCCAGGTCATTTTATTTTCAGATT
*
22577769 TTGACTTATGTCAAAT-TTTTT
65 TTGACTTATGTCAAATCTTTCT
* * * * *
22577790 TTGACTCAGTCTAAGTTATTCATTTCAAACTTCGATTCAATCCAGGTTA-TTCAGTTTTCAGATT
1 TTGGCTCAGTCCAAGTTATTCATTTCAGACTTCGATTCAATCCAGGTCATTTTA-TTTTCAGATT
* * *
22577854 TTGGCTTATGCCAAATCTTTTT
65 TTGACTTATGTCAAATCTTTCT
* * * * * * * * * *
22577876 TTAGCTCAATCCAATTTATTCATTTCAAACCTCAATTCAGTTCAGGTCATTCTATTTT-TGAATT
1 TTGGCTCAGTCCAAGTTATTCATTTCAGACTTCGATTCAATCCAGGTCATTTTATTTTCAG-ATT
* * *
22577940 TTG-GTCTATGTCAGATCCTTCT
65 TTGACT-TATGTCAAATCTTTCT
* * * * * * * * * * *
22577962 TTGGTTTAGTCCAACTTATTCATTTCAAACTTTGGTTCAGTCTAGGTCATTTTGTTTTTAAATTT
1 TTGGCTCAGTCCAAGTTATTCATTTCAGACTTCGATTCAATCCAGGTCATTTTATTTTCAGATTT
*
22578027 TGACTTATGTCAAATCCTTCT
66 TGACTTATGTCAAATCTTTCT
* * * * * * *
22578048 TTGGCTCAGTCTAAGTTATTCATTTTAGACTTCGGTTTAGTCCAGGTTATTTTATTTTCAAATTT
1 TTGGCTCAGTCCAAGTTATTCATTTCAGACTTCGATTCAATCCAGGTCATTTTATTTTCAGATTT
* *
22578113 TGACTTAAGTTAAATCTTTCT
66 TGACTTATGTCAAATCTTTCT
* * * * * * * * *
22578134 TTGGTTCAGTCCAAGTTATTCATTTCAAACTTTGGTTTAATCCAAGCCATTCTATTTTCGGATTT
1 TTGGCTCAGTCCAAGTTATTCATTTCAGACTTCGATTCAATCCAGGTCATTTTATTTTCAGATTT
* *
22578199 TGGCTTATGCCAAATCTTTCT
66 TGACTTATGTCAAATCTTTCT
* * * * * ** * *
22578220 TTGGTTCAGTCTAAGTTATTCATTTAAGACTT-TAGTTCAGTATAGGTAATTTTGTTTTCAGATT
1 TTGGCTCAGTCCAAGTTATTCATTTCAGACTTCGA-TTCAATCCAGGTCATTTTATTTTCAGATT
*
22578284 TTGACTTATGTCAAATCCTTCT
65 TTGACTTATGTCAAATCTTTCT
** * * *
22578306 TCAGCTCAGTCCAAGTTATTTATTTAAGACTTCCG-TTCAATTCAGGTCATTTTATTTTCAGATT
1 TTGGCTCAGTCCAAGTTATTCATTTCAGACTT-CGATTCAATCCAGGTCATTTTATTTTCAGATT
22578370 TTGACTTATGTCAAATCTTTCT
65 TTGACTTATGTCAAATCTTTCT
* * * * * *
22578392 TTGGCTCAGTCCAGGTTATTCATTTCAGACTTTGATTCAATCCATGTCGTTTTGTTTTCAAATTT
1 TTGGCTCAGTCCAAGTTATTCATTTCAGACTTCGATTCAATCCAGGTCATTTTATTTTCAGATTT
*
22578457 TAACTTATGTCAAATCTTTCT
66 TGACTTATGTCAAATCTTTCT
*** *
22578478 TCAACTCAGTCTAAGTTATTCATTTCAGA
1 TTGGCTCAGTCCAAGTTATTCATTTCAGA
22578507 TTATGATCAG
Statistics
Matches: 579, Mismatches: 126, Indels: 23
0.80 0.17 0.03
Matches are distributed among these distances:
84 3 0.01
85 63 0.11
86 510 0.88
87 3 0.01
ACGTcount: A:0.23, C:0.17, G:0.13, T:0.47
Consensus pattern (86 bp):
TTGGCTCAGTCCAAGTTATTCATTTCAGACTTCGATTCAATCCAGGTCATTTTATTTTCAGATTT
TGACTTATGTCAAATCTTTCT
Found at i:22579601 original size:22 final size:20
Alignment explanation
Indices: 22579575--22579619 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 20
22579565 TTGCTTATGT
22579575 ATTTATTGATTAAATTGAAATC
1 ATTTATTGATTAAATT-AAA-C
* *
22579597 ATTTATTTATTTAATTAAAC
1 ATTTATTGATTAAATTAAAC
22579617 ATT
1 ATT
22579620 CTTTAATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 4 0.19
21 3 0.14
22 14 0.67
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.51
Consensus pattern (20 bp):
ATTTATTGATTAAATTAAAC
Found at i:22579814 original size:58 final size:58
Alignment explanation
Indices: 22579636--22580287 Score: 694
Period size: 58 Copynumber: 11.1 Consensus size: 58
22579626 TTTTCAATGA
* * * * *
22579636 TTTCCTGAAAATAAAATTTTAAAAAAATGTATTTTTGAGAAAAAGTTAAAAGTATTAATT
1 TTTCTTGAAAATAAAAATTTCAAAAAA--TATTTTTGAGAAAAAGTTGAAAGTATCAATT
* * *
22579696 TTCCTTGAAAATAAAAAATTTTCAAAAAATATTTTTGAGGAAAAGTTGAAGGTATCAATT
1 TTTCTTGAAAAT-AAAAA-TTTCAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATT
* * * * *
22579756 TTTCTTGAAAATAAAGATCTCAAAAAATATTTTTGAGAAAAAATTAAAAGTATTAA-T
1 TTTCTTGAAAATAAAAATTTCAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATT
* ** *
22579813 TTTCTTTGAAAATAAAAATTTTAAAAAGCATTTTTGAGGAAAAGTTGAAAGTATCAATT
1 TTTC-TTGAAAATAAAAATTTCAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATT
* * *
22579872 TTCCTTGAAAATAAAAATTT-ACAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATT
1 TTTCTTGAAAATAAAAATTTCAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATT
* * * * *
22579929 TTTCTTGCAAATAAAGATTTCAAAAAGTATTTTTGAAAAAAAGTTGAAGGTATCAATT
1 TTTCTTGAAAATAAAAATTTCAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATT
* * *
22579987 TTTCTTTG-AAATAAAAATTTCAAAAAA-AGCATTTTGGGAAAAAGTTGCAAGTATCAATT
1 TTTC-TTGAAAATAAAAATTTCAAAAAATA--TTTTTGAGAAAAAGTTGAAAGTATCAATT
* *
22580046 TTTCTTGAAATTAAAAATTTCAAAAAAGGTATTTTTGAGGAAAAGTTGAAAGTATCAATT
1 TTTCTTGAAAATAAAAATTTCAAAAAA--TATTTTTGAGAAAAAGTTGAAAGTATCAATT
* * *
22580106 TTTCCTGAAAATATAAATTTCAAAAAAGGTA-TTTTGAGGAAAAA-TTGAAAGTATCAAAT
1 TTTCTTGAAAATAAAAATTTCAAAAAA--TATTTTTGA-GAAAAAGTTGAAAGTATCAATT
* *
22580165 TTTCTTGAAAAT-AAAATTTCAATAAAAAAGATATTTTGAGAAAAAGTTGAAAGTATTAATT
1 TTTCTTGAAAATAAAAATTTC---AAAAAATAT-TTTTGAGAAAAAGTTGAAAGTATCAATT
* * * * ** *
22580226 TTTTTTTAAGATAAAAATTTC-ACAAAT-GCTTT-AAAAAAAGTTGAAAGTATCAATT
1 TTTCTTGAAAATAAAAATTTCAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATT
*
22580281 TTCCTTG
1 TTTCTTG
22580288 CATAAAGGCA
Statistics
Matches: 501, Mismatches: 71, Indels: 45
0.81 0.12 0.07
Matches are distributed among these distances:
55 25 0.05
56 3 0.01
57 57 0.11
58 159 0.32
59 89 0.18
60 112 0.22
61 38 0.08
62 18 0.04
ACGTcount: A:0.46, C:0.06, G:0.12, T:0.36
Consensus pattern (58 bp):
TTTCTTGAAAATAAAAATTTCAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATT
Found at i:22590817 original size:12 final size:13
Alignment explanation
Indices: 22590783--22590821 Score: 55
Period size: 12 Copynumber: 3.2 Consensus size: 13
22590773 TTTGTTCATT
*
22590783 TAAAATAAATTAA
1 TAAAATAATTTAA
22590796 -AAAATAATTTAA
1 TAAAATAATTTAA
22590808 TAAAAT-ATTTAA
1 TAAAATAATTTAA
22590820 TA
1 TA
22590822 TCCTAATATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
12 19 0.79
13 5 0.21
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
TAAAATAATTTAA
Found at i:22591069 original size:13 final size:13
Alignment explanation
Indices: 22591046--22591079 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
22591036 ATTTTATTTA
22591046 ATAAAAATAAAAT
1 ATAAAAATAAAAT
22591059 -TAAAGAATAAAAT
1 ATAAA-AATAAAAT
22591072 ATAAAAAT
1 ATAAAAAT
22591080 TAAAGTTGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
12 4 0.21
13 11 0.58
14 4 0.21
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.24
Consensus pattern (13 bp):
ATAAAAATAAAAT
Found at i:22593223 original size:51 final size:50
Alignment explanation
Indices: 22593137--22593287 Score: 189
Period size: 51 Copynumber: 3.0 Consensus size: 50
22593127 TGGACAAGAA
* * *
22593137 GACTTGCAAAAGAAGAATTCCAAGAGAAAGAGGATTCTTAATAGGTAAGTT
1 GACTTGCAAGAGAAGAATTCTAAAAGAAAG-GGATTCTTAATAGGTAAGTT
22593188 GACTTGCAAGAGAAGAATTCTAAAAGGAAAGGGATTCTTAATAGGTAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAAA-GAAAGGGATTCTTAATAGGTAAG-TT
* * * * *
22593240 GACTTACAGGAGAAGAATTCT--AAGAGAGGGATTCTTAATGGGCAAGTT
1 GACTTGCAAGAGAAGAATTCTAAAAGAAAGGGATTCTTAATAGGTAAGTT
22593288 TGTATGGTTA
Statistics
Matches: 90, Mismatches: 8, Indels: 7
0.86 0.08 0.07
Matches are distributed among these distances:
48 2 0.02
49 20 0.22
50 2 0.02
51 40 0.44
52 26 0.29
ACGTcount: A:0.40, C:0.09, G:0.26, T:0.25
Consensus pattern (50 bp):
GACTTGCAAGAGAAGAATTCTAAAAGAAAGGGATTCTTAATAGGTAAGTT
Found at i:22593856 original size:25 final size:26
Alignment explanation
Indices: 22593822--22593927 Score: 69
Period size: 25 Copynumber: 4.2 Consensus size: 26
22593812 AAGTGGTATC
22593822 AGAGCTGAAGGTTCGAA-ATGTGAAA
1 AGAGCTGAAGGTTCGAACATGTGAAA
* * * **
22593847 AGAGTTGAAGATTC-AAGATGTGGGA
1 AGAGCTGAAGGTTCGAACATGTGAAA
* *
22593872 AGAGCCGATGGTTCGAGACATG-GAAA
1 AGAGCTGAAGGTTCGA-ACATGTGAAA
* * * *
22593898 A-AGTTGACGGTTCG-AGATATGAAA
1 AGAGCTGAAGGTTCGAACATGTGAAA
22593922 AGAGCT
1 AGAGCT
22593928 TGGTTTGAGA
Statistics
Matches: 59, Mismatches: 17, Indels: 10
0.69 0.20 0.12
Matches are distributed among these distances:
23 3 0.05
24 7 0.12
25 41 0.69
26 4 0.07
27 4 0.07
ACGTcount: A:0.37, C:0.09, G:0.33, T:0.21
Consensus pattern (26 bp):
AGAGCTGAAGGTTCGAACATGTGAAA
Found at i:22594295 original size:51 final size:50
Alignment explanation
Indices: 22594209--22594359 Score: 198
Period size: 51 Copynumber: 3.0 Consensus size: 50
22594199 TGGACAAGAA
* *
22594209 GACTTGCAAAAGAAGAATTCTAAGAGAAAGAGGATTCTTAATAGGTAAGTT
1 GACTTGCAAGAGAAGAATTCTAAAAGAAAG-GGATTCTTAATAGGTAAGTT
22594260 GACTTGCAAGAGAAGAATTCTAAAAGGAAAGGGATTCTTAATAGGTAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAAA-GAAAGGGATTCTTAATAGGTAAG-TT
* * * * *
22594312 GACTTACAGGAGAAGAATTCT--AAGAGAGGGATTCTTAATGGGCAAGTT
1 GACTTGCAAGAGAAGAATTCTAAAAGAAAGGGATTCTTAATAGGTAAGTT
22594360 TGTATGGTTA
Statistics
Matches: 91, Mismatches: 7, Indels: 7
0.87 0.07 0.07
Matches are distributed among these distances:
48 2 0.02
49 20 0.22
50 2 0.02
51 41 0.45
52 26 0.29
ACGTcount: A:0.40, C:0.09, G:0.26, T:0.26
Consensus pattern (50 bp):
GACTTGCAAGAGAAGAATTCTAAAAGAAAGGGATTCTTAATAGGTAAGTT
Found at i:22594928 original size:25 final size:26
Alignment explanation
Indices: 22594894--22594999 Score: 69
Period size: 25 Copynumber: 4.2 Consensus size: 26
22594884 AAGTGGTATC
22594894 AGAGCTGAAGGTTCGAA-ATGTGAAA
1 AGAGCTGAAGGTTCGAACATGTGAAA
* * * **
22594919 AGAGTTGAAGATTC-AAGATGTGGGA
1 AGAGCTGAAGGTTCGAACATGTGAAA
* *
22594944 AGAGCCGATGGTTCGAGACATG-GAAA
1 AGAGCTGAAGGTTCGA-ACATGTGAAA
* * * *
22594970 A-AGTTGACGGTTCG-AGATATGAAA
1 AGAGCTGAAGGTTCGAACATGTGAAA
22594994 AGAGCT
1 AGAGCT
22595000 TGGTTTGAGA
Statistics
Matches: 59, Mismatches: 17, Indels: 10
0.69 0.20 0.12
Matches are distributed among these distances:
23 3 0.05
24 7 0.12
25 41 0.69
26 4 0.07
27 4 0.07
ACGTcount: A:0.37, C:0.09, G:0.33, T:0.21
Consensus pattern (26 bp):
AGAGCTGAAGGTTCGAACATGTGAAA
Found at i:22595367 original size:51 final size:50
Alignment explanation
Indices: 22595281--22595431 Score: 198
Period size: 51 Copynumber: 3.0 Consensus size: 50
22595271 TGGACAAGAA
* *
22595281 GACTTGCAAAAGAAGAATTCTAAGAGAAAGAGGATTCTTAATAGGTAAGTT
1 GACTTGCAAGAGAAGAATTCTAAAAGAAAG-GGATTCTTAATAGGTAAGTT
22595332 GACTTGCAAGAGAAGAATTCTAAAAGGAAAGGGATTCTTAATAGGTAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAAA-GAAAGGGATTCTTAATAGGTAAG-TT
* * * * *
22595384 GACTTACAGGAGAAGAATTCT--AAGAGAGGGATTCTTAATGGGCAAGTT
1 GACTTGCAAGAGAAGAATTCTAAAAGAAAGGGATTCTTAATAGGTAAGTT
22595432 TGTATGGTTA
Statistics
Matches: 91, Mismatches: 7, Indels: 7
0.87 0.07 0.07
Matches are distributed among these distances:
48 2 0.02
49 20 0.22
50 2 0.02
51 41 0.45
52 26 0.29
ACGTcount: A:0.40, C:0.09, G:0.26, T:0.26
Consensus pattern (50 bp):
GACTTGCAAGAGAAGAATTCTAAAAGAAAGGGATTCTTAATAGGTAAGTT
Found at i:22596941 original size:2 final size:2
Alignment explanation
Indices: 22596934--22596962 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
22596924 AGTTAAAGAA
22596934 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
22596963 ACAAAACAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:22600508 original size:24 final size:24
Alignment explanation
Indices: 22600481--22600532 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
22600471 TTATTATTTG
22600481 TTTTGTAAAACTAT-TTTTTTTCTT
1 TTTTGTAAAACT-TCTTTTTTTCTT
* *
22600505 TTTTTTAAAACTTCTTTTTTTTTT
1 TTTTGTAAAACTTCTTTTTTTCTT
22600529 TTTT
1 TTTT
22600533 ACTTTTTTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 1 0.04
24 24 0.96
ACGTcount: A:0.17, C:0.08, G:0.02, T:0.73
Consensus pattern (24 bp):
TTTTGTAAAACTTCTTTTTTTCTT
Found at i:22600665 original size:19 final size:19
Alignment explanation
Indices: 22600638--22600678 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
22600628 AAATAAAATC
* *
22600638 AAATCAAATCAAAAAATAA
1 AAATAAAATCAAAAAAGAA
*
22600657 AAATAAAATGAAAAAAGAA
1 AAATAAAATCAAAAAAGAA
22600676 AAA
1 AAA
22600679 CTTACGATTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.78, C:0.05, G:0.05, T:0.12
Consensus pattern (19 bp):
AAATAAAATCAAAAAAGAA
Found at i:22600965 original size:19 final size:18
Alignment explanation
Indices: 22600943--22600983 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
22600933 ACCAAAAACC
22600943 AAAAAATCCACAGTTTCTG
1 AAAAAATCC-CAGTTTCTG
* *
22600962 AAAACATGCCAGTTTCTG
1 AAAAAATCCCAGTTTCTG
22600980 AAAA
1 AAAA
22600984 TCTTATCGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 13 0.65
19 7 0.35
ACGTcount: A:0.44, C:0.20, G:0.12, T:0.24
Consensus pattern (18 bp):
AAAAAATCCCAGTTTCTG
Found at i:22601622 original size:3 final size:3
Alignment explanation
Indices: 22601614--22601662 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
22601604 AAAGAAAAAT
22601614 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
22601662 A
1 A
22601663 CAAAATACAG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:22602167 original size:114 final size:113
Alignment explanation
Indices: 22601994--22602587 Score: 502
Period size: 114 Copynumber: 5.2 Consensus size: 113
22601984 CGTGAGTCAA
* * * * * ** * * *
22601994 AAAATGATCTGACTTGAGTCGAGATCAAATGACTAAGACGATACCGTGAGTCTGAAGGTGACTAA
1 AAAATGATCTAAC-TAAGTCGAGATCGAATGATTGAGACGATGTCATAAGTCTGAAGGTGACCAA
* * *
22602059 GATCGAGTCGAGATCGTAAATAAATGATCAGGCTGGTGTTGCGAGTCTG
65 GATCGAGTCGAGATCATAAATAAATGATCAAGCTGGTGTCGCGAGTCTG
* * * *
22602108 AAAATGATCTAATCTAAGTTGAGATCGAATGACTGGGATGATGCTGC-T-AGTCTGAAGGTGACC
1 AAAATGATCTAA-CTAAGTCGAGATCGAATGATTGAGACGATG-T-CATAAGTCTGAAGGTGACC
* * * ** *
22602171 AAGATTGAGTTGAGATCATAAATAAATGATCGAGCTGGTGTCATGAGTTTG
63 AAGATCGAGTCGAGATCATAAATAAATGATCAAGCTGGTGTCGCGAGTCTG
* * * * *
22602222 AAAATGATCTAACTTAAGTCGAGATCAAATGATTGAAACGATGTCATGAGTTTGAAGGTGATCAA
1 AAAATGATCTAAC-TAAGTCGAGATCGAATGATTGAGACGATGTCATAAGTCTGAAGGTGACCAA
* * * * * *
22602287 GATCGAGTTGAGGTCATATATAAATGATCAAGTTGGTGTCGTGAGTCTA
65 GATCGAGTCGAGATCATAAATAAATGATCAAGCTGGTGTCGCGAGTCTG
* * * * *
22602336 AAAATGATCTAACCTAAGTCAAAATCGGATGATTGAGACGACGTCGTAAGTCTGAAGGTGACCAA
1 AAAATGATCTAA-CTAAGTCGAGATCGAATGATTGAGACGATGTCATAAGTCTGAAGGTGACCAA
* * *
22602401 -AACTGAGTCGA-AGTCATAAATAAATGACCAAGCTGGTGTCGCAAGTCTG
65 GATC-GAGTCGAGA-TCATAAATAAATGATCAAGCTGGTGTCGCGAGTCTG
* * * * *
22602450 AAAATGATCTAACTTACA-TCGAGAT-TAGATGATTGGGACGATATCGTGAGTCTGAAGGTGACC
1 AAAATGATCTAAC-TA-AGTCGAGATCGA-ATGATTGAGACGATGTCATAAGTCTGAAGGTGACC
* * * * * * *
22602513 AAGATTGAGTCGAG-TCGTTAATAAATAAT-TAGACTAGTGTCACGAGTCTG
63 AAGATCGAGTCGAGATCATAAATAAATGATCAAG-CTGGTGTCGCGAGTCTG
* * *
22602563 AAGATAATCTGACCTAAGTCGAGAT
1 AAAATGATCT-AACTAAGTCGAGAT
22602588 TGGATAATTG
Statistics
Matches: 388, Mismatches: 75, Indels: 35
0.78 0.15 0.07
Matches are distributed among these distances:
112 4 0.01
113 48 0.12
114 330 0.85
115 5 0.01
116 1 0.00
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.27
Consensus pattern (113 bp):
AAAATGATCTAACTAAGTCGAGATCGAATGATTGAGACGATGTCATAAGTCTGAAGGTGACCAAG
ATCGAGTCGAGATCATAAATAAATGATCAAGCTGGTGTCGCGAGTCTG
Found at i:22602280 original size:228 final size:227
Alignment explanation
Indices: 22601994--22602582 Score: 616
Period size: 228 Copynumber: 2.6 Consensus size: 227
22601984 CGTGAGTCAA
* * * *
22601994 AAAATGATCTGACTTGAGTCGAGATCAAATGACT-AAGACGATACCGTGAGTCTGAAGGTGACTA
1 AAAATGATCTAACTTAAGTCGAGATCAAATGATTGAA-ACGATATCGTGAGTCTGAAGGTGACTA
* * * *
22602058 AGATCGAGTCGAGATCGTAAATAAATGATCAGGCTGGTGTTGCGAGTCTGAAAATGATCTAATCT
65 AGATCGAGTCGAG-TCGTAAATAAATGATCAAGCTGGTGTCGCGAGTCTAAAAATGATCTAACCT
** * * * * * * *
22602123 AAGTTGAGATCGAATGACTGGGATGATG-CTGCT-AGTCTGAAGGTGACCAAGATTGAGTTG-AG
129 AAGTCAAAATCGAATGACTGAGACGACGTC-G-TAAGTCTGAAGGTGACCAAAACTGAGTCGAAG
* * ** *
22602185 ATCATAAATAAATGATCGAGCTGGTGTCATGAGTTTG
192 -TCATAAATAAATGACCAAGCTGGTGTCACAAGTCTG
* * *
22602222 AAAATGATCTAACTTAAGTCGAGATCAAATGATTGAAACGATGTCATGAGTTTGAAGGTGA-TCA
1 AAAATGATCTAACTTAAGTCGAGATCAAATGATTGAAACGATATCGTGAGTCTGAAGGTGACT-A
* * * * *
22602286 AGATCGAGTTGAGGTCATATATAAATGATCAAGTTGGTGTCGTGAGTCTAAAAATGATCTAACCT
65 AGATCGAGTCGA-GTCGTAAATAAATGATCAAGCTGGTGTCGCGAGTCTAAAAATGATCTAACCT
* *
22602351 AAGTCAAAATCGGATGATTGAGACGACGTCGTAAGTCTGAAGGTGACCAAAACTGAGTCGAAGTC
129 AAGTCAAAATCGAATGACTGAGACGACGTCGTAAGTCTGAAGGTGACCAAAACTGAGTCGAAGTC
*
22602416 ATAAATAAATGACCAAGCTGGTGTCGCAAGTCTG
194 ATAAATAAATGACCAAGCTGGTGTCACAAGTCTG
* * ** *
22602450 AAAATGATCTAACTTACA-TCGAGATTAGATGATTGGGACGATATCGTGAGTCTGAAGGTGACCA
1 AAAATGATCTAACTTA-AGTCGAGATCAAATGATTGAAACGATATCGTGAGTCTGAAGGTGACTA
* * * * * * * * * *
22602514 AGATTGAGTCGAGTCGTTAATAAATAAT-TAGACTAGTGTCACGAGTCTGAAGATAATCTGACCT
65 AGATCGAGTCGAGTCGTAAATAAATGATCAAG-CTGGTGTCGCGAGTCTAAAAATGATCTAACCT
22602578 AAGTC
129 AAGTC
22602583 GAGATTGGAT
Statistics
Matches: 296, Mismatches: 56, Indels: 19
0.80 0.15 0.05
Matches are distributed among these distances:
226 2 0.01
227 43 0.15
228 244 0.82
229 7 0.02
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.27
Consensus pattern (227 bp):
AAAATGATCTAACTTAAGTCGAGATCAAATGATTGAAACGATATCGTGAGTCTGAAGGTGACTAA
GATCGAGTCGAGTCGTAAATAAATGATCAAGCTGGTGTCGCGAGTCTAAAAATGATCTAACCTAA
GTCAAAATCGAATGACTGAGACGACGTCGTAAGTCTGAAGGTGACCAAAACTGAGTCGAAGTCAT
AAATAAATGACCAAGCTGGTGTCACAAGTCTG
Found at i:22602800 original size:41 final size:41
Alignment explanation
Indices: 22602755--22602851 Score: 122
Period size: 41 Copynumber: 2.4 Consensus size: 41
22602745 AAAAAATATC
* * * *
22602755 TTTCATTAACATGAATGCACGTCCTTGGTAAAGAAACCATT
1 TTTCATCAACTTGAATGCACATCCTTGGCAAAGAAACCATT
* * * *
22602796 TTTCACCAATTTGAATGCACATCTTTGGCAAAGCAACCATT
1 TTTCATCAACTTGAATGCACATCCTTGGCAAAGAAACCATT
22602837 TTTCATCAACTTGAA
1 TTTCATCAACTTGAA
22602852 GATGATCTTC
Statistics
Matches: 46, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
41 46 1.00
ACGTcount: A:0.33, C:0.22, G:0.12, T:0.33
Consensus pattern (41 bp):
TTTCATCAACTTGAATGCACATCCTTGGCAAAGAAACCATT
Found at i:22613089 original size:2 final size:2
Alignment explanation
Indices: 22613082--22613106 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
22613072 TGAATGATAG
22613082 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
22613107 CAAATAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:22613781 original size:22 final size:21
Alignment explanation
Indices: 22613750--22613792 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
22613740 GTTTAGATGA
* *
22613750 TAAAATTATTTTTTTGTTTATT
1 TAAAAATATTTCTTT-TTTATT
22613772 TAAAAATATTTCTTTTTTATT
1 TAAAAATATTTCTTTTTTATT
22613793 GGAAGGATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.65
Consensus pattern (21 bp):
TAAAAATATTTCTTTTTTATT
Found at i:22613861 original size:19 final size:17
Alignment explanation
Indices: 22613839--22613889 Score: 59
Period size: 16 Copynumber: 2.9 Consensus size: 17
22613829 TATTTTCTTT
22613839 CTTTTTCTTTTTTTTATAA
1 CTTTTT-TTTTTTTTAT-A
*
22613858 CTTTATTTTTTTTT-TA
1 CTTTTTTTTTTTTTATA
22613874 CTTTTTTTCTTTTTTA
1 CTTTTTTT-TTTTTTA
22613890 GAAATAAAGG
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
16 8 0.29
17 7 0.25
18 8 0.29
19 5 0.18
ACGTcount: A:0.12, C:0.10, G:0.00, T:0.78
Consensus pattern (17 bp):
CTTTTTTTTTTTTTATA
Found at i:22616374 original size:24 final size:22
Alignment explanation
Indices: 22616329--22616381 Score: 63
Period size: 23 Copynumber: 2.4 Consensus size: 22
22616319 TTATTTATTA
*
22616329 TTTTGTTTTGTAAAACTATTTT
1 TTTTTTTTTGTAAAACTATTTT
* *
22616351 TTTCTTTTTTTTAAAACT-TCTT
1 TTT-TTTTTTGTAAAACTATTTT
22616373 TTTTTTTTT
1 TTTTTTTTT
22616382 ACTTTTTTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 6 0.22
22 9 0.33
23 12 0.44
ACGTcount: A:0.17, C:0.08, G:0.04, T:0.72
Consensus pattern (22 bp):
TTTTTTTTTGTAAAACTATTTT
Found at i:22616513 original size:19 final size:19
Alignment explanation
Indices: 22616486--22616526 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
22616476 AAATAAAATC
* *
22616486 AAATCAAATCAAAAAATAA
1 AAATAAAATCAAAAAAGAA
*
22616505 AAATAAAATGAAAAAAGAA
1 AAATAAAATCAAAAAAGAA
22616524 AAA
1 AAA
22616527 CTTACGATTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.78, C:0.05, G:0.05, T:0.12
Consensus pattern (19 bp):
AAATAAAATCAAAAAAGAA
Found at i:22616812 original size:19 final size:18
Alignment explanation
Indices: 22616790--22616830 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
22616780 ACCAAAAACC
22616790 AAAAAATCCACAGTTTCTG
1 AAAAAATCC-CAGTTTCTG
* *
22616809 AAAACATGCCAGTTTCTG
1 AAAAAATCCCAGTTTCTG
22616827 AAAA
1 AAAA
22616831 TCTTATCGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 13 0.65
19 7 0.35
ACGTcount: A:0.44, C:0.20, G:0.12, T:0.24
Consensus pattern (18 bp):
AAAAAATCCCAGTTTCTG
Found at i:22617469 original size:3 final size:3
Alignment explanation
Indices: 22617461--22617521 Score: 122
Period size: 3 Copynumber: 20.3 Consensus size: 3
22617451 AAAGAAAAAT
22617461 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
22617509 ATA ATA ATA ATA A
1 ATA ATA ATA ATA A
22617522 CAAAATACAG
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:22618144 original size:114 final size:113
Alignment explanation
Indices: 22617841--22618329 Score: 355
Period size: 114 Copynumber: 4.3 Consensus size: 113
22617831 CAAGACAATA
** * * * * ** **
22617841 TCGTGAGTCAAAAAATGATCTGACTTGAGTCGAGATCAAATGACT-AAGACGATACCGTGAGTCT
1 TCGTGAGTCTGAAAATGATCTAACTTAAGTGGAGATCGAATGACTGAA-ACGATGTCACGAGTCT
* *
22617905 GAAGGTGACTAAGA-CGAG-TCAGATCGTAAATAAATGATCAGACTGGTG
65 GAAGGTGACTAAGATCGAGTTGAGATCATAAATAAATGATCAG-CTGGTG
* * * * * ** **
22617953 TTGCGAGTTTGAAGATGATCTAA-TCTAAGTTGAGATCGAATGACTGGGACGATGTTGCGAGTCT
1 TCGTGAGTCTGAAAATGATCTAACT-TAAGTGGAGATCGAATGACTGAAACGATGTCACGAGTCT
* *
22618017 AAAGGTGACTAAGATTGAGTTGAGATCATAAATAAATGATCGAGCTGGTG
65 GAAGGTGACTAAGATCGAGTTGAGATCATAAATAAATGATC-AGCTGGTG
* * * * *
22618067 TCATGAGTCTGAAAATGATTTAACTTAAGTGGAGAATTGAATGATTGAAACGATGTCACGAGTTT
1 TCGTGAGTCTGAAAATGATCTAACTTAAGTGGAG-ATCGAATGACTGAAACGATGTCACGAGTCT
* * * *
22618132 GAAGGTGA-TAAGATCGAGTTGAGGTCATAAATAAATGACCAAGTTAGTG
65 GAAGGTGACTAAGATCGAGTTGAGATCATAAATAAATGATC-AGCTGGTG
* * ** * * * * * * *** *
22618181 TCGTGAGTCTAAAAATGATCTAACCTAAGTCAAAATCGGATGATTGAGACAACGTCGTAATTCT-
1 TCGTGAGTCTGAAAATGATCTAACTTAAGTGGAGATCGAATGACTGAAACGATGTCACGAGTCTG
* * * *
22618245 AAGGTGACCAA-AACTGAGTCGA-AGTCATAAATAAATGACCAAGCTGGTG
66 AAGGTGACTAAGATC-GAGTTGAGA-TCATAAATAAATGATC-AGCTGGTG
* * * *
22618294 TCGTAAGTCTGAAAATGATCCAACTTACGTCGAGAT
1 TCGTGAGTCTGAAAATGATCTAACTTAAGTGGAGAT
22618330 GATGATTGGG
Statistics
Matches: 296, Mismatches: 71, Indels: 19
0.77 0.18 0.05
Matches are distributed among these distances:
111 1 0.00
112 67 0.23
113 83 0.28
114 112 0.38
115 33 0.11
ACGTcount: A:0.35, C:0.13, G:0.25, T:0.26
Consensus pattern (113 bp):
TCGTGAGTCTGAAAATGATCTAACTTAAGTGGAGATCGAATGACTGAAACGATGTCACGAGTCTG
AAGGTGACTAAGATCGAGTTGAGATCATAAATAAATGATCAGCTGGTG
Found at i:22629608 original size:23 final size:23
Alignment explanation
Indices: 22629575--22629620 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
22629565 GTTTAGATGA
22629575 TAAAAATTATTT-TTTGTTTATT
1 TAAAAATTATTTCTTTGTTTATT
*
22629597 TAAAAATATATTTCTTTTTTTATT
1 TAAAAAT-TATTTCTTTGTTTATT
22629621 GGAAGGATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 7 0.33
23 5 0.24
24 9 0.43
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (23 bp):
TAAAAATTATTTCTTTGTTTATT
Found at i:22629689 original size:19 final size:17
Alignment explanation
Indices: 22629667--22629717 Score: 59
Period size: 16 Copynumber: 2.9 Consensus size: 17
22629657 TATTTTCTTT
22629667 CTTTTTCTTTTTTTTATAA
1 CTTTTT-TTTTTTTTAT-A
*
22629686 CTTTATTTTTTTTT-TA
1 CTTTTTTTTTTTTTATA
22629702 CTTTTTTTCTTTTTTA
1 CTTTTTTT-TTTTTTA
22629718 GAAATAAAGG
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
16 8 0.29
17 7 0.25
18 8 0.29
19 5 0.18
ACGTcount: A:0.12, C:0.10, G:0.00, T:0.78
Consensus pattern (17 bp):
CTTTTTTTTTTTTTATA
Found at i:22630694 original size:3 final size:3
Alignment explanation
Indices: 22630688--22630732 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
22630678 AAAAGAAAAT
22630688 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
22630733 TAGAGGAAAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:22633019 original size:20 final size:22
Alignment explanation
Indices: 22632981--22633020 Score: 57
Period size: 20 Copynumber: 1.9 Consensus size: 22
22632971 GATTATTTAT
*
22632981 TTTTTATATATTTATTTATCTC
1 TTTTTATATATTTAATTATCTC
22633003 TTTTTAT-T-TTTAATTATC
1 TTTTTATATATTTAATTATC
22633021 ATAAAAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 9 0.53
21 1 0.06
22 7 0.41
ACGTcount: A:0.23, C:0.07, G:0.00, T:0.70
Consensus pattern (22 bp):
TTTTTATATATTTAATTATCTC
Found at i:22634330 original size:13 final size:14
Alignment explanation
Indices: 22634290--22634349 Score: 54
Period size: 13 Copynumber: 4.4 Consensus size: 14
22634280 TTTGTTGATT
*
22634290 TAAAATAAATTAAA
1 TAAAATAATTTAAA
22634304 -AAAATAATTT-AA
1 TAAAATAATTTAAA
22634316 TAAAAT-ATTTAAA
1 TAAAATAATTTAAA
**
22634329 TATTATAATATTAAA
1 TAAAATAAT-TTAAA
22634344 TTAAAA
1 -TAAAA
22634350 ATTCTAATAA
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
12 6 0.17
13 20 0.56
14 2 0.06
15 5 0.14
16 3 0.08
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (14 bp):
TAAAATAATTTAAA
Found at i:22634786 original size:13 final size:13
Alignment explanation
Indices: 22634760--22634793 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
22634750 TTCAACTTTA
22634760 ATTTTTATATTTT
1 ATTTTTATATTTT
22634773 ATTCTTTA-ATTTT
1 ATT-TTTATATTTT
22634786 ATTTTTAT
1 ATTTTTAT
22634794 TAAGTAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
12 4 0.21
13 11 0.58
14 4 0.21
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.74
Consensus pattern (13 bp):
ATTTTTATATTTT
Found at i:22636204 original size:40 final size:40
Alignment explanation
Indices: 22636160--22636244 Score: 134
Period size: 40 Copynumber: 2.1 Consensus size: 40
22636150 CCCTACTTTT
* * *
22636160 AAAAATGTCTTAATATTTTGATTTCCCTTTGTAGCAGAAA
1 AAAAATGTCTTAATATTTTGATTTCCCTCTGTAACAAAAA
*
22636200 AAAAATGTCTTAGTATTTTGATTTCCCTCTGTAACAAAAA
1 AAAAATGTCTTAATATTTTGATTTCCCTCTGTAACAAAAA
22636240 AAAAA
1 AAAAA
22636245 AAGGGGGGCA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.40, C:0.13, G:0.11, T:0.36
Consensus pattern (40 bp):
AAAAATGTCTTAATATTTTGATTTCCCTCTGTAACAAAAA
Found at i:22642571 original size:13 final size:13
Alignment explanation
Indices: 22642534--22642584 Score: 54
Period size: 13 Copynumber: 4.2 Consensus size: 13
22642524 CTGAAAATTT
22642534 TTTTAA-AAATAA
1 TTTTAATAAATAA
*
22642546 -TTTAACAAA-AA
1 TTTTAATAAATAA
22642557 TTTTAATAAATAA
1 TTTTAATAAATAA
**
22642570 TTCAAATAAATAA
1 TTTTAATAAATAA
22642583 TT
1 TT
22642585 GACAGAGTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
11 7 0.21
12 11 0.33
13 15 0.45
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (13 bp):
TTTTAATAAATAA
Found at i:22643998 original size:104 final size:101
Alignment explanation
Indices: 22643851--22644041 Score: 265
Period size: 104 Copynumber: 1.9 Consensus size: 101
22643841 TTCGACTAAC
* * **
22643851 CTTATCCTTAAAATGTAGAAAAATCATGAAATCATGCATGATTTTCTCAAATTGTGTATGAAAAA
1 CTTATCCTTAAAATGCACAAAAATCATGAAATCATGCATGATTTTCTCAAATCATGTATG--AAA
*
22643916 TCCCTAATATATCTGTTATCATTCTTGTTTCAACCAGT
64 TCCCTAATATATCTGATATCATTCTTGTTTCAACCAGT
* ** *
22643954 CTTATCCTTAAAAATGCACATAAATCATGAAATTGTGTATGATTTTCTCAAATCATGTATGAAAT
1 CTTATCCTT-AAAATGCACAAAAATCATGAAATCATGCATGATTTTCTCAAATCATGTATGAAAT
*
22644019 CCCTAATATGTCTGATATCATTC
65 CCCTAATATATCTGATATCATTC
22644042 CCATTTCAAC
Statistics
Matches: 77, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
102 25 0.32
103 9 0.12
104 43 0.56
ACGTcount: A:0.35, C:0.17, G:0.10, T:0.38
Consensus pattern (101 bp):
CTTATCCTTAAAATGCACAAAAATCATGAAATCATGCATGATTTTCTCAAATCATGTATGAAATC
CCTAATATATCTGATATCATTCTTGTTTCAACCAGT
Found at i:22646339 original size:3 final size:3
Alignment explanation
Indices: 22646331--22646372 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
22646321 AATTTAGAAC
22646331 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
22646373 CTGGACAACT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:22648067 original size:24 final size:23
Alignment explanation
Indices: 22648040--22648087 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 23
22648030 ATTATTTATT
22648040 TAAT-TTTTATAATAAAATTATTAA
1 TAATATTTT-TAATAAAA-TATTAA
22648064 TAATAATTTTTAATAAAATATTAA
1 TAAT-ATTTTTAATAAAATATTAA
22648088 ATTGATTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
24 10 0.45
25 8 0.36
26 4 0.18
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (23 bp):
TAATATTTTTAATAAAATATTAA
Found at i:22648076 original size:13 final size:12
Alignment explanation
Indices: 22648044--22648082 Score: 51
Period size: 13 Copynumber: 3.1 Consensus size: 12
22648034 TTTATTTAAT
22648044 TTTTATAATAAAA
1 TTTT-TAATAAAA
*
22648057 TTATTAATAATAA
1 TTTTTAATAA-AA
22648070 TTTTTAATAAAA
1 TTTTTAATAAAA
22648082 T
1 T
22648083 ATTAAATTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
12 9 0.39
13 14 0.61
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (12 bp):
TTTTTAATAAAA
Found at i:22650750 original size:21 final size:21
Alignment explanation
Indices: 22650724--22650765 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
22650714 TCCATCAAGA
22650724 GTAACACTTTTAGGAGGGAAG
1 GTAACACTTTTAGGAGGGAAG
*
22650745 GTAACATTTTTAGGAGGGAAG
1 GTAACACTTTTAGGAGGGAAG
22650766 TGGAAAAAGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.33, C:0.07, G:0.33, T:0.26
Consensus pattern (21 bp):
GTAACACTTTTAGGAGGGAAG
Found at i:22657558 original size:12 final size:12
Alignment explanation
Indices: 22657543--22657585 Score: 52
Period size: 12 Copynumber: 3.5 Consensus size: 12
22657533 TTTAATTTTA
22657543 TATTAATAAAAT
1 TATTAATAAAAT
*
22657555 TATTAATAATAT
1 TATTAATAAAAT
22657567 T-TTAAATTAAAAT
1 TATT-AA-TAAAAT
22657580 TATTAA
1 TATTAA
22657586 ATTGATTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
11 2 0.08
12 14 0.54
13 8 0.31
14 2 0.08
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (12 bp):
TATTAATAAAAT
Found at i:22657583 original size:25 final size:25
Alignment explanation
Indices: 22657549--22657598 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
22657539 TTTATATTAA
22657549 TAAAATTATTAATAAT-ATTTTAAAT
1 TAAAATTATTAA-AATGATTTTAAAT
*
22657574 TAAAATTATTAAATTGATTTTAAAT
1 TAAAATTATTAAAATGATTTTAAAT
22657599 ACGATAGAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 2 0.09
25 21 0.91
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (25 bp):
TAAAATTATTAAAATGATTTTAAAT
Found at i:22660235 original size:21 final size:21
Alignment explanation
Indices: 22660209--22660250 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
22660199 TCCATCAAGA
*
22660209 GTAACACTTTTAGGAGGGAAG
1 GTAACACTTTTAGCAGGGAAG
* *
22660230 GTAACATTTTTATCAGGGAAG
1 GTAACACTTTTAGCAGGGAAG
22660251 TGGAAAAAAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.10, G:0.29, T:0.29
Consensus pattern (21 bp):
GTAACACTTTTAGCAGGGAAG
Found at i:22672151 original size:15 final size:16
Alignment explanation
Indices: 22672131--22672160 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
22672121 TTTATACATT
22672131 AAAAATTC-TAAAATA
1 AAAAATTCATAAAATA
22672146 AAAAATTCATAAAAT
1 AAAAATTCATAAAAT
22672161 GTTAAAAAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.27
Consensus pattern (16 bp):
AAAAATTCATAAAATA
Found at i:22673052 original size:15 final size:16
Alignment explanation
Indices: 22673022--22673061 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
22673012 AATCTCGTCA
*
22673022 TATTACTTTTATTATT
1 TATTATTTTTATTATT
22673038 TATTATTTTTA-TATT
1 TATTATTTTTATTATT
*
22673053 TGTTATTTT
1 TATTATTTT
22673062 AACAAAACGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 12 0.55
16 10 0.45
ACGTcount: A:0.23, C:0.03, G:0.03, T:0.72
Consensus pattern (16 bp):
TATTATTTTTATTATT
Found at i:22673385 original size:3 final size:3
Alignment explanation
Indices: 22673379--22673413 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
22673369 CTTTAAAATC
**
22673379 ATT ATT ATT ATT ATT ATT GCT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
22673414 GCATAAATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:22673982 original size:3 final size:3
Alignment explanation
Indices: 22673974--22674006 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
22673964 TAAATTGCAT
22673974 CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA
1 CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA
22674007 TAATAATAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.33, G:0.00, T:0.00
Consensus pattern (3 bp):
CAA
Found at i:22675066 original size:23 final size:23
Alignment explanation
Indices: 22675040--22675090 Score: 77
Period size: 22 Copynumber: 2.2 Consensus size: 23
22675030 TTGCTTCCAG
22675040 TCTCTTATCCTTTTCTTTTAT-TT
1 TCTCTT-TCCTTTTCTTTTATCTT
*
22675063 TCTCTTTTCTTTTCTTTTATCTT
1 TCTCTTTCCTTTTCTTTTATCTT
22675086 TCTCT
1 TCTCT
22675091 CTTAACTTCC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 13 0.50
23 13 0.50
ACGTcount: A:0.06, C:0.24, G:0.00, T:0.71
Consensus pattern (23 bp):
TCTCTTTCCTTTTCTTTTATCTT
Found at i:22675071 original size:17 final size:17
Alignment explanation
Indices: 22675044--22675086 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
22675034 TTCCAGTCTC
22675044 TTATCCTTTTCTTTTATT
1 TTAT-CTTTTCTTTTATT
* *
22675062 TTCTCTTTTCTTTTCTT
1 TTATCTTTTCTTTTATT
22675079 TTATCTTT
1 TTATCTTT
22675087 CTCTCTTAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 19 0.86
18 3 0.14
ACGTcount: A:0.07, C:0.19, G:0.00, T:0.74
Consensus pattern (17 bp):
TTATCTTTTCTTTTATT
Found at i:22676117 original size:69 final size:69
Alignment explanation
Indices: 22676018--22676203 Score: 189
Period size: 69 Copynumber: 2.7 Consensus size: 69
22676008 CAAGTCGAAG
* * *
22676018 AATAAATATGATTGAGACTGAG-TCACAAGTCAAAAAATGAAA-ATGATAGGGATTGAATCGTAA
1 AATAAATATGACTAAGACTGAGCT-ACAAGTCAAAAAAT-AAAGATGATA-GGATTGAATCGCAA
22676081 AT-AAAA
63 ATCAAAA
* * * * *
22676087 AATAAATATGACTAAGACTGAGCTATAAGTCAGAGAATAAAGATGACTAGGATTGAATTGCAAGT
1 AATAAATATGACTAAGACTGAGCTACAAGTCAAAAAATAAAGATGA-TAGGATTGAATCGCAAAT
*
22676152 CAAAG
65 CAAAA
* * * * *
22676157 GATAAAAATGACTAGGATTGAGCTGCAAGTCAAAAAATAAAGATGAT
1 AATAAATATGACTAAGACTGAGCTACAAGTCAAAAAATAAAGATGAT
22676204 CAAGATTTAA
Statistics
Matches: 96, Mismatches: 17, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
68 3 0.03
69 49 0.51
70 44 0.46
ACGTcount: A:0.48, C:0.09, G:0.20, T:0.23
Consensus pattern (69 bp):
AATAAATATGACTAAGACTGAGCTACAAGTCAAAAAATAAAGATGATAGGATTGAATCGCAAATC
AAAA
Found at i:22676152 original size:35 final size:35
Alignment explanation
Indices: 22675974--22676202 Score: 128
Period size: 35 Copynumber: 6.6 Consensus size: 35
22675964 ATCAAACCAT
* * * * *
22675974 AAGTCGAAGAATAAAAATAACTAAGATTAAACTGC
1 AAGTCAAAGAATAAAGATGACTAGGATTGAACTGC
* * * * * *
22676009 AAGTCGAAGAATAAATATGA-TTGAGACTG-AGTCAC
1 AAGTCAAAGAATAAAGATGACTAG-GATTGAACT-GC
* *
22676044 AAGTCAAAAAATGAAA-ATGA-TAGGGATTGAA-TCGT
1 AAGTCAAAGAAT-AAAGATGACTA-GGATTGAACT-GC
* * * * * * **
22676079 AAAT-AAAAAATAAATATGACTAAGACTGAGCTAT
1 AAGTCAAAGAATAAAGATGACTAGGATTGAACTGC
* *
22676113 AAGTCAGAGAATAAAGATGACTAGGATTGAATTGC
1 AAGTCAAAGAATAAAGATGACTAGGATTGAACTGC
* * *
22676148 AAGTCAAAGGATAAAAATGACTAGGATTGAGCTGC
1 AAGTCAAAGAATAAAGATGACTAGGATTGAACTGC
*
22676183 AAGTCAAAAAATAAAGATGA
1 AAGTCAAAGAATAAAGATGA
22676203 TCAAGATTTA
Statistics
Matches: 148, Mismatches: 37, Indels: 18
0.73 0.18 0.09
Matches are distributed among these distances:
33 3 0.02
34 23 0.16
35 117 0.79
36 5 0.03
ACGTcount: A:0.49, C:0.09, G:0.20, T:0.21
Consensus pattern (35 bp):
AAGTCAAAGAATAAAGATGACTAGGATTGAACTGC
Found at i:22676179 original size:70 final size:70
Alignment explanation
Indices: 22676086--22676273 Score: 175
Period size: 70 Copynumber: 2.7 Consensus size: 70
22676076 CGTAAATAAA
* * * * ***
22676086 AAATAAATATGACTAAGACTGAGCTATAAGTCAGAGAATAAAGATGA-CTAGGATTGAATTGCAA
1 AAATAAAAATGACTAGGATTGAGCTATAAGTCAGAGAATAAAGATGATC-AAGATTGAACAACAA
22676150 G-TCA-
65 GTTCAG
** * * *
22676154 AAGGATAAAAATGACTAGGATTGAGCTGCAAGTCAAAAAATAAAGATGATCAAGATTTAACAACA
1 AA--ATAAAAATGACTAGGATTGAGCTATAAGTCAGAGAATAAAGATGATCAAGATTGAACAACA
*
22676219 AGTTGAG
64 AGTTCAG
* * * *
22676226 AAATGAAAATAACTGGGATTGAACTATAAGTCAGAGAATAAAGATGAT
1 AAATAAAAATGACTAGGATTGAGCTATAAGTCAGAGAATAAAGATGAT
22676274 TGAGTTTGAG
Statistics
Matches: 94, Mismatches: 21, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
68 2 0.02
70 87 0.93
71 3 0.03
72 2 0.02
ACGTcount: A:0.48, C:0.09, G:0.21, T:0.22
Consensus pattern (70 bp):
AAATAAAAATGACTAGGATTGAGCTATAAGTCAGAGAATAAAGATGATCAAGATTGAACAACAAG
TTCAG
Found at i:22688401 original size:3 final size:3
Alignment explanation
Indices: 22688395--22688423 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
22688385 TTTCTTTAAA
22688395 ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
22688424 TATTATTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.31, G:0.00, T:0.34
Consensus pattern (3 bp):
ATC
Found at i:22688428 original size:3 final size:3
Alignment explanation
Indices: 22688422--22688459 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
22688412 CATCATCATC
22688422 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
22688460 GCATAAATTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:22693515 original size:15 final size:16
Alignment explanation
Indices: 22693495--22693524 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
22693485 TTTATACATT
22693495 AAAAATTC-TAAAATA
1 AAAAATTCATAAAATA
22693510 AAAAATTCATAAAAT
1 AAAAATTCATAAAAT
22693525 GTTAAAAAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.27
Consensus pattern (16 bp):
AAAAATTCATAAAATA
Found at i:22694402 original size:8 final size:8
Alignment explanation
Indices: 22694383--22694423 Score: 50
Period size: 8 Copynumber: 5.2 Consensus size: 8
22694373 ATCTCACTCC
22694383 TATTACTTT
1 TATTA-TTT
22694392 TATTATTT
1 TATTATTT
22694400 TATTATTT
1 TATTATTT
22694408 TA-TA-TT
1 TATTATTT
*
22694414 TGTTATTT
1 TATTATTT
22694422 TA
1 TA
22694424 ACAAAACAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
6 3 0.11
7 4 0.14
8 16 0.57
9 5 0.18
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.71
Consensus pattern (8 bp):
TATTATTT
Found at i:22694754 original size:3 final size:3
Alignment explanation
Indices: 22694748--22694782 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
22694738 CTTTAAAATC
**
22694748 ATT ATT ATT ATT ATT ATT GCT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
22694783 GCATAAATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:22695367 original size:3 final size:3
Alignment explanation
Indices: 22695361--22695387 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
22695351 CAACAACAAC
22695361 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
22695388 TTATGACATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:22696427 original size:23 final size:23
Alignment explanation
Indices: 22696401--22696451 Score: 77
Period size: 22 Copynumber: 2.2 Consensus size: 23
22696391 TTGCTTCCAG
22696401 TCTCTTATCCTTTTCTTTTAT-TT
1 TCTCTT-TCCTTTTCTTTTATCTT
*
22696424 TCTCTTTTCTTTTCTTTTATCTT
1 TCTCTTTCCTTTTCTTTTATCTT
22696447 TCTCT
1 TCTCT
22696452 CTTAACTTCC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 13 0.50
23 13 0.50
ACGTcount: A:0.06, C:0.24, G:0.00, T:0.71
Consensus pattern (23 bp):
TCTCTTTCCTTTTCTTTTATCTT
Found at i:22696432 original size:17 final size:17
Alignment explanation
Indices: 22696405--22696447 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
22696395 TTCCAGTCTC
22696405 TTATCCTTTTCTTTTATT
1 TTAT-CTTTTCTTTTATT
* *
22696423 TTCTCTTTTCTTTTCTT
1 TTATCTTTTCTTTTATT
22696440 TTATCTTT
1 TTATCTTT
22696448 CTCTCTTAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 19 0.86
18 3 0.14
ACGTcount: A:0.07, C:0.19, G:0.00, T:0.74
Consensus pattern (17 bp):
TTATCTTTTCTTTTATT
Found at i:22697511 original size:35 final size:35
Alignment explanation
Indices: 22697472--22697561 Score: 126
Period size: 35 Copynumber: 2.6 Consensus size: 35
22697462 ACTGAGCTAT
* *
22697472 AAGTCAGAGAATAAAGATGACTAGGATTGAATTGC
1 AAGTCAAAGAATAAAGATGACTAGGATTGAACTGC
* * *
22697507 AAGTCAAAGGATAAAAATGACTAGGATTGAGCTGC
1 AAGTCAAAGAATAAAGATGACTAGGATTGAACTGC
*
22697542 AAGTCAAAAAATAAAGATGA
1 AAGTCAAAGAATAAAGATGA
22697562 TCAAGATTTA
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 47 1.00
ACGTcount: A:0.48, C:0.09, G:0.23, T:0.20
Consensus pattern (35 bp):
AAGTCAAAGAATAAAGATGACTAGGATTGAACTGC
Found at i:22697538 original size:70 final size:70
Alignment explanation
Indices: 22697445--22697632 Score: 175
Period size: 70 Copynumber: 2.7 Consensus size: 70
22697435 CGTAAATAAA
* * * * ***
22697445 AAATAAATATGACTAAGACTGAGCTATAAGTCAGAGAATAAAGATGA-CTAGGATTGAATTGCAA
1 AAATAAAAATGACTAGGATTGAGCTATAAGTCAGAGAATAAAGATGATC-AAGATTGAACAACAA
22697509 G-TCA-
65 GTTCAG
** * * *
22697513 AAGGATAAAAATGACTAGGATTGAGCTGCAAGTCAAAAAATAAAGATGATCAAGATTTAACAACA
1 AA--ATAAAAATGACTAGGATTGAGCTATAAGTCAGAGAATAAAGATGATCAAGATTGAACAACA
*
22697578 AGTTGAG
64 AGTTCAG
* * * *
22697585 AAATGAAAATAACTGGGATTGAACTATAAGTCAGAGAATAAAGATGAT
1 AAATAAAAATGACTAGGATTGAGCTATAAGTCAGAGAATAAAGATGAT
22697633 TGAGTTTGAG
Statistics
Matches: 94, Mismatches: 21, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
68 2 0.02
70 87 0.93
71 3 0.03
72 2 0.02
ACGTcount: A:0.48, C:0.09, G:0.21, T:0.22
Consensus pattern (70 bp):
AAATAAAAATGACTAGGATTGAGCTATAAGTCAGAGAATAAAGATGATCAAGATTGAACAACAAG
TTCAG
Found at i:22709747 original size:3 final size:3
Alignment explanation
Indices: 22709741--22709781 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
22709731 TTTCTTTAAA
22709741 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
22709782 TATTATTATT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.34, C:0.32, G:0.00, T:0.34
Consensus pattern (3 bp):
ATC
Found at i:22719454 original size:25 final size:24
Alignment explanation
Indices: 22719400--22719456 Score: 71
Period size: 24 Copynumber: 2.3 Consensus size: 24
22719390 TGCCAAATTC
*
22719400 TTTCTTTATTTTTTTTTCTTTCGA
1 TTTCTTTTTTTTTTTTTCTTTCGA
*
22719424 TCTCTTTTTTTTTTTTATCTTCTC-A
1 TTTCTTTTTTTTTTTT-TCTT-TCGA
22719449 TTTCTTTT
1 TTTCTTTT
22719457 ATCTTTTCCT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 14 0.50
25 12 0.43
26 2 0.07
ACGTcount: A:0.07, C:0.16, G:0.02, T:0.75
Consensus pattern (24 bp):
TTTCTTTTTTTTTTTTTCTTTCGA
Found at i:22719463 original size:25 final size:25
Alignment explanation
Indices: 22719400--22719463 Score: 69
Period size: 25 Copynumber: 2.6 Consensus size: 25
22719390 TGCCAAATTC
*
22719400 TTTC-TTTATTTTTTTTTCTTTCGA
1 TTTCTTTTATTTTTTTATCTTTCGA
* *
22719424 TCTCTTTTTTTTTTTTATCTTCTC-A
1 TTTCTTTTATTTTTTTATCTT-TCGA
*
22719449 TTTCTTTTATCTTTT
1 TTTCTTTTATTTTTT
22719464 CCTCTTAACT
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
24 3 0.09
25 27 0.84
26 2 0.06
ACGTcount: A:0.08, C:0.16, G:0.02, T:0.75
Consensus pattern (25 bp):
TTTCTTTTATTTTTTTATCTTTCGA
Found at i:22726122 original size:42 final size:42
Alignment explanation
Indices: 22726063--22726197 Score: 200
Period size: 42 Copynumber: 3.2 Consensus size: 42
22726053 AAAGAAAAAT
22726063 GGATCGATCTATTTGGTTATGAGATCGATCAGGTAAGGGAAG
1 GGATCGATCTATTTGGTTATGAGATCGATCAGGTAAGGGAAG
*
22726105 GGATCAATCTATTTGGTTATGAGATTC-ATCAGGTAAGGGAAG
1 GGATCGATCTATTTGGTTATGAGA-TCGATCAGGTAAGGGAAG
* * * *
22726147 GGATCGATCCATTTAGTTATGAGATCGATCAGATAAGGGAAA
1 GGATCGATCTATTTGGTTATGAGATCGATCAGGTAAGGGAAG
*
22726189 TGATCGATC
1 GGATCGATC
22726198 CATTCTCTTA
Statistics
Matches: 84, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
41 2 0.02
42 80 0.95
43 2 0.02
ACGTcount: A:0.31, C:0.11, G:0.29, T:0.29
Consensus pattern (42 bp):
GGATCGATCTATTTGGTTATGAGATCGATCAGGTAAGGGAAG
Found at i:22729799 original size:23 final size:23
Alignment explanation
Indices: 22729773--22729824 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
22729763 TGATTTAAAA
*
22729773 TAAAA-AAATATCTTATCTCAATT
1 TAAAATAAAT-TCATATCTCAATT
* *
22729796 TAAAATACATTCATATCTTAATT
1 TAAAATAAATTCATATCTCAATT
22729819 TAAAAT
1 TAAAAT
22729825 TATACAAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 22 0.88
24 3 0.12
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.40
Consensus pattern (23 bp):
TAAAATAAATTCATATCTCAATT
Found at i:22730795 original size:64 final size:64
Alignment explanation
Indices: 22730727--22730852 Score: 225
Period size: 64 Copynumber: 2.0 Consensus size: 64
22730717 CAAGCCTTCC
*
22730727 CGTTTTAAACTATATATATGATTATATTTTCTTATTTATCTTTCTCAATTGTGATGGTTATTCA
1 CGTTTTAAACTATATATATGATTATATTCTCTTATTTATCTTTCTCAATTGTGATGGTTATTCA
* *
22730791 CGTTTTGAACTTTATATATGATTATATTCTCTTATTTATCTTTCTCAATTGTGATGGTTATT
1 CGTTTTAAACTATATATATGATTATATTCTCTTATTTATCTTTCTCAATTGTGATGGTTATT
22730853 TAGGATTGTT
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 59 1.00
ACGTcount: A:0.25, C:0.11, G:0.10, T:0.54
Consensus pattern (64 bp):
CGTTTTAAACTATATATATGATTATATTCTCTTATTTATCTTTCTCAATTGTGATGGTTATTCA
Found at i:22731556 original size:15 final size:16
Alignment explanation
Indices: 22731526--22731557 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
22731516 TAATTAACTT
22731526 TTATCTCAATTCATAA
1 TTATCTCAATTCATAA
22731542 TTATCTCAA-TCATAA
1 TTATCTCAATTCATAA
22731557 T
1 T
22731558 CAATTCAAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.38, C:0.19, G:0.00, T:0.44
Consensus pattern (16 bp):
TTATCTCAATTCATAA
Found at i:22737204 original size:131 final size:131
Alignment explanation
Indices: 22737061--22737324 Score: 483
Period size: 131 Copynumber: 2.0 Consensus size: 131
22737051 TAGAAAAGAA
*
22737061 TAATGATTTTGGGTCCGTTACTATGATTTTATTTTCTTTCGTTATTTTATTTTATGATATTTATT
1 TAATAATTTTGGGTCCGTTACTATGATTTTATTTTCTTTCGTTATTTTATTTTATGATATTTATT
* *
22737126 TTCCCAATGTTTACAAATTTTGATAAATATATAAAATTAAATCTTTTTAGAAATAAAATTAGAAA
66 TTCCCAATGTTTACAAATTTTGATAAATATATAAAATTAAATCTTATTAAAAATAAAATTAGAAA
22737191 T
131 T
* *
22737192 TAATAATTTTGGGTCTGTTACTTTGATTTTATTTTCTTTCGTTATTTTATTTTATGATATTTATT
1 TAATAATTTTGGGTCCGTTACTATGATTTTATTTTCTTTCGTTATTTTATTTTATGATATTTATT
22737257 TTCCCAATGTTTACAAATTTTGATAAATATATAAAATTAAATCTTATTAAAAATAAAATTAGAAA
66 TTCCCAATGTTTACAAATTTTGATAAATATATAAAATTAAATCTTATTAAAAATAAAATTAGAAA
22737322 T
131 T
22737323 TA
1 TA
22737325 TTTTTAAGAG
Statistics
Matches: 128, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
131 128 1.00
ACGTcount: A:0.34, C:0.07, G:0.08, T:0.50
Consensus pattern (131 bp):
TAATAATTTTGGGTCCGTTACTATGATTTTATTTTCTTTCGTTATTTTATTTTATGATATTTATT
TTCCCAATGTTTACAAATTTTGATAAATATATAAAATTAAATCTTATTAAAAATAAAATTAGAAA
T
Found at i:22744696 original size:19 final size:19
Alignment explanation
Indices: 22744664--22744702 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
22744654 TGTGCCTTAG
** *
22744664 TTATTTTTCTTATCATTAT
1 TTATTTTTAATATCAATAT
22744683 TTATTTTTAATATCAATAT
1 TTATTTTTAATATCAATAT
22744702 T
1 T
22744703 GTTCAATACT
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:0.28, C:0.08, G:0.00, T:0.64
Consensus pattern (19 bp):
TTATTTTTAATATCAATAT
Found at i:22748507 original size:21 final size:21
Alignment explanation
Indices: 22748451--22748508 Score: 55
Period size: 21 Copynumber: 2.8 Consensus size: 21
22748441 TATTTTTAGT
* * *
22748451 TTGGATCTATTGATTGAAAGC
1 TTGGATATGTTGATTTAAAGC
*
22748472 TTGGATATGTAGATTTAAAGC
1 TTGGATATGTTGATTTAAAGC
*
22748493 TT-GAGTGTGTTGATTT
1 TTGGA-TATGTTGATTT
22748509 TAAATTTAGG
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
20 2 0.07
21 28 0.93
ACGTcount: A:0.26, C:0.05, G:0.26, T:0.43
Consensus pattern (21 bp):
TTGGATATGTTGATTTAAAGC
Found at i:22752542 original size:21 final size:21
Alignment explanation
Indices: 22752517--22752561 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
22752507 TTTCATTTAA
* *
22752517 AATTATCTGAAATTAA-ATTTT
1 AATTAT-TAAAATTAAGAATTT
22752538 AATTATTAAAATTAAGAATTT
1 AATTATTAAAATTAAGAATTT
22752559 AAT
1 AAT
22752562 ATTTTATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 8 0.38
21 13 0.62
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.44
Consensus pattern (21 bp):
AATTATTAAAATTAAGAATTT
Found at i:22752897 original size:18 final size:17
Alignment explanation
Indices: 22752885--22752932 Score: 69
Period size: 18 Copynumber: 2.7 Consensus size: 17
22752875 AATAATGATG
22752885 TGATAATTTATAATATA
1 TGATAATTTATAATATA
22752902 CTGATAATATTATAATATA
1 -TGATAAT-TTATAATATA
*
22752921 TAATAATTTATA
1 TGATAATTTATA
22752933 TACCGAGAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
17 5 0.18
18 13 0.46
19 10 0.36
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46
Consensus pattern (17 bp):
TGATAATTTATAATATA
Found at i:22753697 original size:16 final size:15
Alignment explanation
Indices: 22753671--22753700 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
22753661 TATAATTTAA
22753671 AAATTAAAAATATTC
1 AAATTAAAAATATTC
22753686 AAATTCAAAAATATT
1 AAATT-AAAAATATT
22753701 AAAAATATCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (15 bp):
AAATTAAAAATATTC
Found at i:22757547 original size:2 final size:2
Alignment explanation
Indices: 22757540--22757569 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
22757530 TCTTAATCAC
22757540 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
22757570 GAGAGAGAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Done.