Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168159.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_4, 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: 33012953
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 65000 characters in sequence are not A, C, G, or T
File 7 of 160
Found at i:2044384 original size:12 final size:12
Alignment explanation
Indices: 2044369--2044395 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
2044359 ATCATGTTCA
2044369 CACTTCACACTT
1 CACTTCACACTT
2044381 CACTTCACACTT
1 CACTTCACACTT
2044393 CAC
1 CAC
2044396 GTCAAATAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.26, C:0.44, G:0.00, T:0.30
Consensus pattern (12 bp):
CACTTCACACTT
Found at i:2053558 original size:21 final size:20
Alignment explanation
Indices: 2053525--2053563 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
2053515 AAAACTTTTA
*
2053525 ATTTTTATTTATTGATGATT
1 ATTTTAATTTATTGATGATT
*
2053545 ATTTTAATATTATTTATGA
1 ATTTTAAT-TTATTGATGA
2053564 AAATCAATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (20 bp):
ATTTTAATTTATTGATGATT
Found at i:2054431 original size:5 final size:5
Alignment explanation
Indices: 2054421--2054448 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
2054411 GTGCAAGCTC
2054421 TAGAA TAGAA TAGAA TAGAA TAGAA TAG
1 TAGAA TAGAA TAGAA TAGAA TAGAA TAG
2054449 CAATTACATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.57, C:0.00, G:0.21, T:0.21
Consensus pattern (5 bp):
TAGAA
Found at i:2070055 original size:12 final size:12
Alignment explanation
Indices: 2070038--2070071 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
2070028 AAATAGTGAT
*
2070038 ATATATATTACA
1 ATATATATTAAA
2070050 ATATATATTAAA
1 ATATATATTAAA
*
2070062 AAATATATTA
1 ATATATATTA
2070072 TAATTTTAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (12 bp):
ATATATATTAAA
Found at i:2074645 original size:23 final size:24
Alignment explanation
Indices: 2074619--2074663 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
2074609 TTTTTTTATA
*
2074619 TCCATTAAA-AATTTTTGAAAACT
1 TCCAATAAATAATTTTTGAAAACT
*
2074642 TCCAATAAATAATTTTTTAAAA
1 TCCAATAAATAATTTTTGAAAA
2074664 TTTTAAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 8 0.42
24 11 0.58
ACGTcount: A:0.47, C:0.11, G:0.02, T:0.40
Consensus pattern (24 bp):
TCCAATAAATAATTTTTGAAAACT
Found at i:2076010 original size:13 final size:13
Alignment explanation
Indices: 2075991--2076023 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
2075981 AAAAATTAAA
2075991 AAATTTAAA-ATT
1 AAATTTAAATATT
2076003 ATAATTTAAATATT
1 A-AATTTAAATATT
2076017 AAATTTA
1 AAATTTA
2076024 TTAAATAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 1 0.05
13 14 0.74
14 4 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (13 bp):
AAATTTAAATATT
Found at i:2086096 original size:23 final size:22
Alignment explanation
Indices: 2086041--2086097 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
2086031 TTTACTTGAT
2086041 AAAAAATTAGTTAATCAATGAAA
1 AAAAAATTA-TTAATCAATGAAA
* * *
2086064 AATAATTTATTGATCAATGAAA
1 AAAAAATTATTAATCAATGAAA
2086086 AACAAAATTATT
1 AA-AAAATTATT
2086098 TTTTTAAAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
22 14 0.50
23 14 0.50
ACGTcount: A:0.56, C:0.05, G:0.07, T:0.32
Consensus pattern (22 bp):
AAAAAATTATTAATCAATGAAA
Found at i:2086264 original size:38 final size:36
Alignment explanation
Indices: 2086208--2086322 Score: 100
Period size: 38 Copynumber: 3.3 Consensus size: 36
2086198 TTATATGAAT
*
2086208 AAATAAAAATATTATAATATATTCATAAATAATATTAC
1 AAATAAATATA-TATAATATATT-ATAAATAATATTAC
* *
2086246 AAATAAATATATACTAATATA-T-T-AAT-AT-TAAT
1 AAATAAATATATA-TAATATATTATAAATAATATTAC
*
2086278 AAATTAATAT-TATAATATATTAATAAATAATA-TAC
1 AAATAAATATATATAATATATT-ATAAATAATATTAC
*
2086313 TAATAAATAT
1 AAATAAATAT
2086323 TATTAATTTA
Statistics
Matches: 62, Mismatches: 8, Indels: 17
0.71 0.09 0.20
Matches are distributed among these distances:
30 7 0.11
31 3 0.05
32 11 0.18
33 3 0.05
34 6 0.10
35 12 0.19
37 3 0.05
38 17 0.27
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.39
Consensus pattern (36 bp):
AAATAAATATATATAATATATTATAAATAATATTAC
Found at i:2086271 original size:8 final size:8
Alignment explanation
Indices: 2086254--2086375 Score: 62
Period size: 8 Copynumber: 16.0 Consensus size: 8
2086244 ACAAATAAAT
*
2086254 ATATACTA
1 ATATATTA
2086262 ATATATT-
1 ATATATTA
2086269 A-ATATTA
1 ATATATTA
*
2086276 ATAAATTA
1 ATATATTA
2086284 ATAT-TATA
1 ATATAT-TA
2086292 ATATATTA
1 ATATATTA
*
2086300 ATA-AATA
1 ATATATTA
*
2086307 ATATACTA
1 ATATATTA
*
2086315 ATA-AAT-
1 ATATATTA
2086321 AT-TATTA
1 ATATATTA
*
2086328 ATTTAATTA
1 ATAT-ATTA
* *
2086337 ATAAAATA
1 ATATATTA
* *
2086345 TTATAATA
1 ATATATTA
*
2086353 ATATATGA
1 ATATATTA
*
2086361 ATA-AATA
1 ATATATTA
2086368 ATATATTA
1 ATATATTA
2086376 TTAATAAATA
Statistics
Matches: 86, Mismatches: 18, Indels: 20
0.69 0.15 0.16
Matches are distributed among these distances:
6 9 0.10
7 18 0.21
8 52 0.60
9 7 0.08
ACGTcount: A:0.55, C:0.02, G:0.01, T:0.43
Consensus pattern (8 bp):
ATATATTA
Found at i:2086278 original size:28 final size:27
Alignment explanation
Indices: 2086247--2086467 Score: 94
Period size: 26 Copynumber: 8.3 Consensus size: 27
2086237 TAATATTACA
*
2086247 AATAAATATATACTAATATATTAATATT
1 AATAAATATATACTAATATAAT-ATATT
*
2086275 AATAAAT-TA-A-TATTATAATATATT
1 AATAAATATATACTAATATAATATATT
2086299 AATAAATAATATACTAATA-AATATTATT
1 AATAAAT-ATATACTAATATAATA-TATT
* * * *
2086327 AATTTAAT-TA-A-TAAAATATTATAAT
1 AA-TAAATATATACTAATATAATATATT
* *
2086352 AATATATGA-ATAAATAATAT-AT-TATT
1 AATAAAT-ATAT-ACTAATATAATATATT
* *
2086378 AATAAATAATGTACTATTAATATACTATATT
1 AATAAAT-A--TA-TACTAATATAATATATT
* *
2086409 AATAACTAT-TATTAATA-AATAGTATT
1 AATAAATATATACTAATATAATA-TATT
* * *
2086435 -AT-AATATATTAATAATATAA-AGAAT
1 AATAAATATA-TACTAATATAATATATT
2086460 AATAAATA
1 AATAAATA
2086468 ATTTTATTTT
Statistics
Matches: 147, Mismatches: 22, Indels: 49
0.67 0.10 0.22
Matches are distributed among these distances:
24 19 0.13
25 24 0.16
26 39 0.27
27 17 0.12
28 23 0.16
29 12 0.08
30 3 0.02
31 10 0.07
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (27 bp):
AATAAATATATACTAATATAATATATT
Found at i:2086346 original size:23 final size:26
Alignment explanation
Indices: 2086313--2086381 Score: 74
Period size: 28 Copynumber: 2.7 Consensus size: 26
2086303 AATAATATAC
2086313 TAAT-AAATATTATTAAT-T-T-AAT
1 TAATAAAATATTATTAATATATGAAT
2086335 TAATAAAATATTATAATAATATATGAAT
1 TAATAAAATATTAT--TAATATATGAAT
* *
2086363 AAATAATATATTATTAATA
1 TAATAAAATATTATTAATA
2086382 AATAATGTAC
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
22 4 0.10
23 9 0.23
25 4 0.10
26 6 0.15
27 1 0.03
28 15 0.38
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.43
Consensus pattern (26 bp):
TAATAAAATATTATTAATATATGAAT
Found at i:2086352 original size:58 final size:60
Alignment explanation
Indices: 2086261--2086372 Score: 160
Period size: 58 Copynumber: 1.9 Consensus size: 60
2086251 AATATATACT
*
2086261 AATATATTAATATTAATAAATTAATATTATAAT-ATAT-T-AATAAATAATATACTAATA
1 AATATATTAATATTAATAAATAAATATTATAATAATATATGAATAAATAATATACTAATA
*
2086318 AATATTATTAAT-TTAATTAATAAAATATTATAATAATATATGAATAAATAATATA
1 AATA-TATTAATATTAATAAAT-AAATATTATAATAATATATGAATAAATAATATA
2086373 TTATTAATAA
Statistics
Matches: 48, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
57 12 0.25
58 18 0.38
59 4 0.08
60 1 0.02
61 13 0.27
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.42
Consensus pattern (60 bp):
AATATATTAATATTAATAAATAAATATTATAATAATATATGAATAAATAATATACTAATA
Found at i:2086395 original size:18 final size:18
Alignment explanation
Indices: 2086347--2086399 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 18
2086337 ATAAAATATT
*
2086347 ATAATAATA-TATGAATAA
1 ATAAT-ATACTATTAATAA
*
2086365 ATAATATATTATTAATAA
1 ATAATATACTATTAATAA
*
2086383 ATAATGTACTATTAATA
1 ATAATATACTATTAATA
2086400 TACTATATTA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
17 3 0.10
18 28 0.90
ACGTcount: A:0.55, C:0.02, G:0.04, T:0.40
Consensus pattern (18 bp):
ATAATATACTATTAATAA
Found at i:2086445 original size:49 final size:48
Alignment explanation
Indices: 2086182--2086453 Score: 146
Period size: 44 Copynumber: 5.8 Consensus size: 48
2086172 AATCATAATT
* * * *
2086182 TTATTTATAAATAATATTAT-ATGA-ATAAATAAAAATATT-AT-AATA
1 TTATTAATAAATAATATTATAAT-ATATTAATATATATATTAATAAATA
* * * *
2086227 -TATTCATAAATAATATTA-CA-A-A-TAA-ATATATACTAATATATTA
1 TTATTAATAAATAATATTATAATATATTAATATATATATTAATA-AATA
* *
2086270 ATATTAATAAATTAATATTATAATATATTAATAAATAATATACTAATAAATA
1 TTATTAATAAA-TAATATTATAATATATTAAT--AT-ATATATTAATAAATA
* ** * * *
2086322 TTATTAATTTAATTAATAAAATATTATAATAATATATGA-ATAAATAATATA
1 TTATTAA--TAAATAATATTATAATATATTAATATAT-ATATTAATAA-ATA
* * *
2086373 TTATTAATAAAT-A-A-TGT-A-CTATTAATATACTATATTAATAACTA
1 TTATTAATAAATAATATTATAATATATTAATATA-TATATTAATAAATA
*
2086417 TTATTAATAAATAGTATTATAATATATTAATA-ATATA
1 TTATTAATAAATAATATTATAATATATTAATATATATA
2086454 AAGAATAATA
Statistics
Matches: 174, Mismatches: 28, Indels: 48
0.70 0.11 0.19
Matches are distributed among these distances:
40 6 0.03
41 4 0.02
42 2 0.01
43 3 0.02
44 51 0.29
45 16 0.09
46 3 0.02
47 8 0.05
48 4 0.02
49 15 0.09
50 8 0.05
51 13 0.07
52 11 0.06
53 27 0.16
54 3 0.02
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (48 bp):
TTATTAATAAATAATATTATAATATATTAATATATATATTAATAAATA
Found at i:2086724 original size:14 final size:14
Alignment explanation
Indices: 2086692--2086725 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
2086682 AAAATATAAA
2086692 CATTTTCCAAAAAT
1 CATTTTCCAAAAAT
* *
2086706 TATTTTCCAAAACT
1 CATTTTCCAAAAAT
2086720 CATTTT
1 CATTTT
2086726 TTGTGAATGG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.35, C:0.21, G:0.00, T:0.44
Consensus pattern (14 bp):
CATTTTCCAAAAAT
Found at i:2098845 original size:7 final size:7
Alignment explanation
Indices: 2098833--2098858 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
2098823 TTCCTTTAAC
2098833 TTTTTAT
1 TTTTTAT
2098840 TTTTTAT
1 TTTTTAT
2098847 TTTTTAT
1 TTTTTAT
2098854 TTTTT
1 TTTTT
2098859 CCAAAATAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTAT
Found at i:2114477 original size:15 final size:15
Alignment explanation
Indices: 2114457--2114486 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
2114447 GCTAGAGCTT
2114457 TAACTATGAAAGAAG
1 TAACTATGAAAGAAG
2114472 TAACTATGAAAGAAG
1 TAACTATGAAAGAAG
2114487 GAAGATGGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.53, C:0.07, G:0.20, T:0.20
Consensus pattern (15 bp):
TAACTATGAAAGAAG
Found at i:2114611 original size:22 final size:22
Alignment explanation
Indices: 2114567--2114611 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
2114557 AGGATTTCTT
* * *
2114567 TCTTGATGCTTTCTTGGAGAAG
1 TCTTGATACTTTCTTGAAAAAG
*
2114589 TCTTGATATTTTCTTGAAAAAG
1 TCTTGATACTTTCTTGAAAAAG
2114611 T
1 T
2114612 AGCATCCTAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.24, C:0.11, G:0.20, T:0.44
Consensus pattern (22 bp):
TCTTGATACTTTCTTGAAAAAG
Found at i:2115439 original size:365 final size:361
Alignment explanation
Indices: 2114770--2115497 Score: 1123
Period size: 365 Copynumber: 2.0 Consensus size: 361
2114760 AAAGTTGATA
* *
2114770 AAGACTTGACATAAAGTTATCTTGATGTGGAGGTATCATAATAAACCTTTTAGAGTTTTTTGAAA
1 AAGACTTGACATAAAGTTATCTTGATGTGGAGGCATCATAATAAACCTTTTAGAGTCTTTTGAAA
* *
2114835 AAATTGAAATTATCACGTAATTATATATAATTGGACTGGAACAGGAAATCTTCTGTCTTAGAGCA
66 AAATTGAAATTATCACGTAATTATACATAATTGGACAGGAACAGGAAATCTTCTGTCTTAGAGCA
* * * *
2114900 CCATGAGTGTCTTTTTTACATGAGCATCATTTGAGAGAATGATAAGTGTGTTCTGAAGAGAGGTT
131 CCATGAGTGTCTTTCTTACATGAGCATCATTTAAGAGAACGATAAGTGTGTTCTGAAGAGAAGTT
2114965 GAGGTGTGAATTGTCTACTCTTGGTGTGAAATCATAGCCTATGATTTCTAACCATTGATCTAGAT
196 GAGGTGTGAATTGTCTACTCTTGGTGTGAAATCATAGCCTATGATTTCTAACCATTGATCTAGAT
* * * *
2115030 CAAAATCTTTAAAAAGGTCTTGGGATTTTTGTCATTCTATTTGTGGTAAAATTTCAGGAGAAAAA
261 CAAAATCTTCAAAAAGGTCTTGGGATTCTTGTCATTCCATTTGTGAT-AAATTTCAGGAGAAAAA
*
2115095 TTGTGAACTGGAAAGACTAGTTGGAAATTCAGATATG
325 CTGTGAACTGGAAAGACTAGTTGGAAATTCAGATATG
* * *
2115132 AAGACTTGACATAAAGTTATCTTGATGTGGAGGCATCATAATCAACTTTTTGGAGTCTTTTGAAA
1 AAGACTTGACATAAAGTTATCTTGATGTGGAGGCATCATAATAAACCTTTTAGAGTCTTTTGAAA
* * * *
2115197 AAATTGAAATTATCACACGTAATTATACATAATTGGACAGGAATAGGAAATTTTTTTGTCTTGGA
66 AAATTGAAATTAT--CACGTAATTATACATAATTGGACAGGAACAGGAAA-TCTTCTGTCTTAGA
* * *
2115262 GCATCATGAGTGTCTTTCTTACATGAGCATCATTTAAGATAACGATAAGTGTGTTCTGGAGAGAA
128 GCACCATGAGTGTCTTTCTTACATGAGCATCATTTAAGAGAACGATAAGTGTGTTCTGAAGAGAA
* ** *
2115327 GTTGAGGTGTGAGTTGTCTGTTCTTGGTGTGAAATCATAGCCTATGATTTCTAACCATTGATCTG
193 GTTGAGGTGTGAATTGTCTACTCTTGGTGTGAAATCATAGCCTATGATTTCTAACCATTGATCTA
*
2115392 GATCAAAATCTTCAAAAGGGTCTTGGGATTCTTGTCATTCCATTTGTGATAAATTTCAGGAGAAA
258 GATCAAAATCTTCAAAAAGGTCTTGGGATTCTTGTCATTCCATTTGTGATAAATTTCAGGAGAAA
* * * * *
2115457 AGCTGTGAACTGGAAAGATTGGTTGGAAATTCGGATCTG
323 AACTGTGAACTGGAAAGACTAGTTGGAAATTCAGATATG
2115496 AA
1 AA
2115498 ACAAAAGGTT
Statistics
Matches: 330, Mismatches: 33, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
362 73 0.22
364 82 0.25
365 175 0.53
ACGTcount: A:0.32, C:0.12, G:0.22, T:0.35
Consensus pattern (361 bp):
AAGACTTGACATAAAGTTATCTTGATGTGGAGGCATCATAATAAACCTTTTAGAGTCTTTTGAAA
AAATTGAAATTATCACGTAATTATACATAATTGGACAGGAACAGGAAATCTTCTGTCTTAGAGCA
CCATGAGTGTCTTTCTTACATGAGCATCATTTAAGAGAACGATAAGTGTGTTCTGAAGAGAAGTT
GAGGTGTGAATTGTCTACTCTTGGTGTGAAATCATAGCCTATGATTTCTAACCATTGATCTAGAT
CAAAATCTTCAAAAAGGTCTTGGGATTCTTGTCATTCCATTTGTGATAAATTTCAGGAGAAAAAC
TGTGAACTGGAAAGACTAGTTGGAAATTCAGATATG
Found at i:2121673 original size:22 final size:22
Alignment explanation
Indices: 2121645--2121689 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
2121635 AGGATTTCTT
*
2121645 TCTTGATGCTTTCTTGGTGAAG
1 TCTTGATGCTTTCTTGGAGAAG
**
2121667 TCTTGATTTTTTCTTGGAGAAG
1 TCTTGATGCTTTCTTGGAGAAG
2121689 T
1 T
2121690 AGCATCCTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.16, C:0.11, G:0.24, T:0.49
Consensus pattern (22 bp):
TCTTGATGCTTTCTTGGAGAAG
Found at i:2124822 original size:39 final size:39
Alignment explanation
Indices: 2124768--2124847 Score: 151
Period size: 39 Copynumber: 2.1 Consensus size: 39
2124758 TGAAGGGTAA
*
2124768 CAAGGTTACTGATAAAGTTTGTAGAGAATACATTTCCAT
1 CAAGGTTACTGATAAAGTCTGTAGAGAATACATTTCCAT
2124807 CAAGGTTACTGATAAAGTCTGTAGAGAATACATTTCCAT
1 CAAGGTTACTGATAAAGTCTGTAGAGAATACATTTCCAT
2124846 CA
1 CA
2124848 GTGATTTTGA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.31
Consensus pattern (39 bp):
CAAGGTTACTGATAAAGTCTGTAGAGAATACATTTCCAT
Found at i:2136207 original size:22 final size:22
Alignment explanation
Indices: 2136182--2136225 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
2136172 TAGGATGTTT
* *
2136182 CTTCTCCAAGAAGGTATCAAGA
1 CTTCTCCAAGAAAGCATCAAGA
2136204 CTTCTCCAAGAAAGCATCAAGA
1 CTTCTCCAAGAAAGCATCAAGA
2136226 AAGAAATTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.39, C:0.25, G:0.16, T:0.20
Consensus pattern (22 bp):
CTTCTCCAAGAAAGCATCAAGA
Found at i:2140672 original size:22 final size:22
Alignment explanation
Indices: 2140630--2140674 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
2140620 ATAGGATGCT
* **
2140630 ACTTCTTCAAGAAGGTGTCAAG
1 ACTTCTTCAAGAAAGCATCAAG
2140652 ACTTCTTCAAGAAAGCATCAAG
1 ACTTCTTCAAGAAAGCATCAAG
2140674 A
1 A
2140675 AAAAAATCTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.24
Consensus pattern (22 bp):
ACTTCTTCAAGAAAGCATCAAG
Found at i:2145857 original size:13 final size:14
Alignment explanation
Indices: 2145834--2145862 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
2145824 TTTATGTCAA
2145834 ATAAGTGATGAGTC
1 ATAAGTGATGAGTC
2145848 ATAA-TGATGAGTC
1 ATAAGTGATGAGTC
2145861 AT
1 AT
2145863 CTTACTTTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.38, C:0.07, G:0.24, T:0.31
Consensus pattern (14 bp):
ATAAGTGATGAGTC
Found at i:2146002 original size:22 final size:22
Alignment explanation
Indices: 2145974--2146018 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
2145964 ATAGGATGCT
*
2145974 ACTTCTCTAAGAAGGCATCAAG
1 ACTTCTCCAAGAAGGCATCAAG
2145996 ACTTCTCCAAGAAGGCATCAAG
1 ACTTCTCCAAGAAGGCATCAAG
2146018 A
1 A
2146019 AAGAAACATC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.38, C:0.24, G:0.18, T:0.20
Consensus pattern (22 bp):
ACTTCTCCAAGAAGGCATCAAG
Found at i:2149083 original size:14 final size:15
Alignment explanation
Indices: 2149064--2149096 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
2149054 GAAAATTTTT
2149064 TAAAT-AATCAATCA
1 TAAATAAATCAATCA
2149078 TAAATAAATCAATCA
1 TAAATAAATCAATCA
2149093 -AAAT
1 TAAAT
2149097 CAATTCAGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.61, C:0.12, G:0.00, T:0.27
Consensus pattern (15 bp):
TAAATAAATCAATCA
Found at i:2150459 original size:16 final size:15
Alignment explanation
Indices: 2150438--2150480 Score: 50
Period size: 16 Copynumber: 2.8 Consensus size: 15
2150428 TTAATATAAG
2150438 ATTTTTAAAAATACAA
1 ATTTTTAAAAATAC-A
* *
2150454 ATTTTTAACAATACT
1 ATTTTTAAAAATACA
*
2150469 TTTTTTAAAAAT
1 ATTTTTAAAAAT
2150481 TTATTATTCA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
15 10 0.43
16 13 0.57
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.47
Consensus pattern (15 bp):
ATTTTTAAAAATACA
Found at i:2152522 original size:17 final size:17
Alignment explanation
Indices: 2152496--2152538 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
2152486 AATTTGTCAT
* *
2152496 ATTTTGATTTTTTATTA
1 ATTTTTATTTTATATTA
*
2152513 ATTTTTATTTTATATTT
1 ATTTTTATTTTATATTA
2152530 ATTATTTAT
1 ATT-TTTAT
2152539 AAAAATGTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 17 0.77
18 5 0.23
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (17 bp):
ATTTTTATTTTATATTA
Found at i:2153179 original size:21 final size:20
Alignment explanation
Indices: 2153154--2153234 Score: 63
Period size: 23 Copynumber: 3.6 Consensus size: 20
2153144 CAAAAAATAA
2153154 AAAATTACAAAAAATAATTTT
1 AAAATTA-AAAAAATAATTTT
* *
2153175 AAAATATAAAAAAAGAGTTTT
1 AAAAT-TAAAAAAATAATTTT
*
2153196 AGATATTAAAAAAAAATAATTTT
1 A-AAATT--AAAAAAATAATTTT
2153219 AGAATATCTAAAAAAA
1 A-AA-AT-TAAAAAAA
2153235 ATGAATAAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
21 18 0.38
22 5 0.10
23 22 0.46
24 2 0.04
25 1 0.02
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.30
Consensus pattern (20 bp):
AAAATTAAAAAAATAATTTT
Found at i:2153664 original size:20 final size:18
Alignment explanation
Indices: 2153618--2153666 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 18
2153608 ATTATATTTA
2153618 ATTTATATTAAAAAATAAT
1 ATTT-TATTAAAAAATAAT
*
2153637 ATAATTATTAAAAAATTAAT
1 AT-TTTATTAAAAAA-TAAT
2153657 CATTTTATTA
1 -ATTTTATTA
2153667 GTATAAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
19 12 0.48
20 11 0.44
21 2 0.08
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (18 bp):
ATTTTATTAAAAAATAAT
Found at i:2153877 original size:27 final size:26
Alignment explanation
Indices: 2153845--2153903 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 26
2153835 AAAATAATAA
* * *
2153845 TATAATAATATTTTATTTTATTTTAT
1 TATAATAATATCTTATTATATTCTAT
*
2153871 TCATAATATTATCTTATTATATTCTAT
1 T-ATAATAATATCTTATTATATTCTAT
2153898 TATAAT
1 TATAAT
2153904 TTTATGTATT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 6 0.21
27 22 0.79
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (26 bp):
TATAATAATATCTTATTATATTCTAT
Found at i:2157258 original size:17 final size:17
Alignment explanation
Indices: 2157233--2157268 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
2157223 CAAATAATTA
2157233 TTTAATAAGAATTATGT
1 TTTAATAAGAATTATGT
*
2157250 TTTATTAAGAATTATGT
1 TTTAATAAGAATTATGT
2157267 TT
1 TT
2157269 ATATATATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.36, C:0.00, G:0.11, T:0.53
Consensus pattern (17 bp):
TTTAATAAGAATTATGT
Found at i:2171959 original size:21 final size:21
Alignment explanation
Indices: 2171909--2171959 Score: 50
Period size: 21 Copynumber: 2.4 Consensus size: 21
2171899 AATTTGTTTG
*
2171909 TAAAATATTAAATTTTTAATTT
1 TAAAA-ATTAAATATTTAATTT
**
2171931 TAGTAATTAAA-ATTTAATTTT
1 TAAAAATTAAATATTTAA-TTT
2171952 TAAAAATT
1 TAAAAATT
2171960 TTAAATATAA
Statistics
Matches: 23, Mismatches: 5, Indels: 3
0.74 0.16 0.10
Matches are distributed among these distances:
20 5 0.22
21 15 0.65
22 3 0.13
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (21 bp):
TAAAAATTAAATATTTAATTT
Found at i:2173007 original size:16 final size:16
Alignment explanation
Indices: 2172986--2173018 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
2172976 CTTGCCGTCC
2172986 AAAAAAA-TTAGTCAAA
1 AAAAAAAGTTA-TCAAA
2173002 AAAAAAAGTTATCAAA
1 AAAAAAAGTTATCAAA
2173018 A
1 A
2173019 CATTTATGGC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 13 0.81
17 3 0.19
ACGTcount: A:0.70, C:0.06, G:0.06, T:0.18
Consensus pattern (16 bp):
AAAAAAAGTTATCAAA
Found at i:2178525 original size:11 final size:12
Alignment explanation
Indices: 2178504--2178529 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
2178494 GTCCTTTCTC
2178504 TTTTTCTTTTTT
1 TTTTTCTTTTTT
2178516 TTTTTCTTTTTT
1 TTTTTCTTTTTT
2178528 TT
1 TT
2178530 AATGGCGGAA
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:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (12 bp):
TTTTTCTTTTTT
Found at i:2183673 original size:26 final size:27
Alignment explanation
Indices: 2183623--2183679 Score: 82
Period size: 26 Copynumber: 2.2 Consensus size: 27
2183613 AATCAATAAT
*
2183623 AAAA-ATTATTATAATTGTGATTTAAA
1 AAAATATTATTATAATTGTGAATTAAA
*
2183649 AAAATATTATTTTAATTGT-AATTAAA
1 AAAATATTATTATAATTGTGAATTAAA
2183675 AAAAT
1 AAAAT
2183680 TTAATGAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 15 0.54
27 13 0.46
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (27 bp):
AAAATATTATTATAATTGTGAATTAAA
Found at i:2190094 original size:90 final size:91
Alignment explanation
Indices: 2189925--2190099 Score: 282
Period size: 90 Copynumber: 1.9 Consensus size: 91
2189915 AGAAAGAATA
*
2189925 AATATATGTAAACAAATGGCATCATTTTCATTGCAACTTCAAGATCTAGTAATAATAATCATATA
1 AATATATGTAAACAAATAGCATCATTTTCATTGCAACTTCAAGATC-AGTAATAATAATCATATA
*
2189990 ATAAATTCCTAGTAATTCTTGAAGATG
65 ATAAATTCCAAGTAATTCTTGAAGATG
* *
2190017 AATATATGTAAACAAATAGCATCGATTTTCATTGCAACTTTAAGA-C-GTAGTAATAATCATATA
1 AATATATGTAAACAAATAGCATC-ATTTTCATTGCAACTTCAAGATCAGTAATAATAATCATATA
2190080 ATAAATTCCAAGTAATTCTT
65 ATAAATTCCAAGTAATTCTT
2190100 CTTCTAGAGC
Statistics
Matches: 78, Mismatches: 4, Indels: 4
0.91 0.05 0.05
Matches are distributed among these distances:
90 35 0.45
92 23 0.29
93 20 0.26
ACGTcount: A:0.42, C:0.13, G:0.10, T:0.35
Consensus pattern (91 bp):
AATATATGTAAACAAATAGCATCATTTTCATTGCAACTTCAAGATCAGTAATAATAATCATATAA
TAAATTCCAAGTAATTCTTGAAGATG
Found at i:2194563 original size:3 final size:3
Alignment explanation
Indices: 2194555--2194601 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
2194545 CATTTATTAG
2194555 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
2194602 TTTTGAAATA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:2195178 original size:29 final size:30
Alignment explanation
Indices: 2195129--2195185 Score: 82
Period size: 29 Copynumber: 1.9 Consensus size: 30
2195119 ATTACCATTC
2195129 TTTTAATTATATTTCATTACTAATTAAAAA
1 TTTTAATTATATTTCATTACTAATTAAAAA
*
2195159 TTTTAATATATATTT-A-TACTTATTAAA
1 TTTTAAT-TATATTTCATTACTAATTAAA
2195186 TTCGGTGGGC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
29 10 0.40
30 8 0.32
31 7 0.28
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (30 bp):
TTTTAATTATATTTCATTACTAATTAAAAA
Found at i:2195897 original size:19 final size:21
Alignment explanation
Indices: 2195854--2195899 Score: 55
Period size: 19 Copynumber: 2.4 Consensus size: 21
2195844 CAAATTTTAA
*
2195854 AAATTTAAAATATTATATATT
1 AAATTTAAAAAATTATATATT
2195875 --ATTTAAAAAATTA-A-ATT
1 AAATTTAAAAAATTATATATT
2195892 AAATTTAA
1 AAATTTAA
2195900 TCCAATTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 6
0.76 0.03 0.21
Matches are distributed among these distances:
17 3 0.14
18 1 0.05
19 18 0.82
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (21 bp):
AAATTTAAAAAATTATATATT
Found at i:2196725 original size:12 final size:13
Alignment explanation
Indices: 2196710--2196765 Score: 53
Period size: 14 Copynumber: 4.3 Consensus size: 13
2196700 ATTTTTAATA
2196710 TAAATATA-AAAT
1 TAAATATATAAAT
*
2196722 TAAATATATATAT
1 TAAATATATAAAT
*
2196735 ATAAATATATATAAA
1 -TAAATATATA-AAT
*
2196750 TAATTATA-AAAT
1 TAAATATATAAAT
2196762 TAAA
1 TAAA
2196766 AAATAATTAA
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
12 13 0.37
13 4 0.11
14 17 0.49
15 1 0.03
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
TAAATATATAAAT
Found at i:2196739 original size:14 final size:14
Alignment explanation
Indices: 2196707--2196757 Score: 61
Period size: 14 Copynumber: 3.8 Consensus size: 14
2196697 ATTATTTTTA
*
2196707 ATATAAATATA-AA
1 ATATAAATATATAT
2196720 AT-TAAATATATAT
1 ATATAAATATATAT
2196733 ATATAAATATATAT
1 ATATAAATATATAT
* *
2196747 AAATAATTATA
1 ATATAAATATA
2196758 AAATTAAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
12 8 0.24
13 5 0.15
14 20 0.61
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (14 bp):
ATATAAATATATAT
Found at i:2202035 original size:29 final size:26
Alignment explanation
Indices: 2202002--2202054 Score: 70
Period size: 29 Copynumber: 1.9 Consensus size: 26
2201992 GAAAACTAGT
*
2202002 TAAAAATTTCTTATATATATATATTTTTA
1 TAAAAATTTATTA-ATA-ATA-ATTTTTA
2202031 TAAAAATTTATTAATAATAATTTT
1 TAAAAATTTATTAATAATAATTTT
2202055 CCAACATCTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 5 0.22
27 3 0.13
28 3 0.13
29 12 0.52
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (26 bp):
TAAAAATTTATTAATAATAATTTTTA
Found at i:2202195 original size:12 final size:11
Alignment explanation
Indices: 2202172--2202221 Score: 50
Period size: 12 Copynumber: 4.5 Consensus size: 11
2202162 TTTTAAAATA
*
2202172 TATTATTTTTT
1 TATTATTATTT
2202183 TAGTTATTATTT
1 TA-TTATTATTT
2202195 TA-TATTATTT
1 TATTATTATTT
2202205 TCATT-TTATTAT
1 T-ATTATTATT-T
2202217 TATTA
1 TATTA
2202222 ATAACAATTA
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
10 9 0.27
11 11 0.33
12 13 0.39
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (11 bp):
TATTATTATTT
Found at i:2203347 original size:23 final size:23
Alignment explanation
Indices: 2203321--2203367 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
2203311 CTGAAAAGGA
* *
2203321 GCTGGTCAGGAGGCTGGCAGGGG
1 GCTGATCAGGAGGCTGACAGGGG
*
2203344 GCTGATCGGGAGGCTGACAGGGG
1 GCTGATCAGGAGGCTGACAGGGG
2203367 G
1 G
2203368 GCAACAGCGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.15, C:0.17, G:0.55, T:0.13
Consensus pattern (23 bp):
GCTGATCAGGAGGCTGACAGGGG
Found at i:2203434 original size:17 final size:17
Alignment explanation
Indices: 2203414--2203446 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
2203404 TCATTTCTTT
*
2203414 TTTTTTTTAATTTTTAA
1 TTTTATTTAATTTTTAA
2203431 TTTTATTTAATTTTTA
1 TTTTATTTAATTTTTA
2203447 TATATTTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTTATTTAATTTTTAA
Found at i:2218597 original size:12 final size:13
Alignment explanation
Indices: 2218575--2218603 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
2218565 CACGCAATGC
2218575 TTTTTCTTTTTTT
1 TTTTTCTTTTTTT
2218588 TTTTTCTTTTTTT
1 TTTTTCTTTTTTT
2218601 TTT
1 TTT
2218604 CAATTTGATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (13 bp):
TTTTTCTTTTTTT
Found at i:2226282 original size:14 final size:14
Alignment explanation
Indices: 2226263--2226292 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
2226253 AATAATTTAA
2226263 TTTTATATTTATAT
1 TTTTATATTTATAT
2226277 TTTTATATTTATAT
1 TTTTATATTTATAT
2226291 TT
1 TT
2226293 ATTTTAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (14 bp):
TTTTATATTTATAT
Found at i:2235306 original size:28 final size:29
Alignment explanation
Indices: 2235275--2235329 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
2235265 AGTTCATTTT
2235275 TTTTA-TTATACTCAAATAAATTTTTATA
1 TTTTATTTATACTCAAATAAATTTTTATA
* * *
2235303 TTTTATTTGTATTGAAATAAATTTTTA
1 TTTTATTTATACTCAAATAAATTTTTA
2235330 CATCAAATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 5 0.22
29 18 0.78
ACGTcount: A:0.36, C:0.04, G:0.04, T:0.56
Consensus pattern (29 bp):
TTTTATTTATACTCAAATAAATTTTTATA
Found at i:2235393 original size:30 final size:31
Alignment explanation
Indices: 2235355--2235427 Score: 112
Period size: 30 Copynumber: 2.4 Consensus size: 31
2235345 GATTTAAGTC
*
2235355 AAAGATTTATTTAAGTACAAATTAAAAATTA
1 AAAGATTTATTTAAATACAAATTAAAAATTA
* *
2235386 AAA-ATTTATTTAAATATAAATTAAAAGTTA
1 AAAGATTTATTTAAATACAAATTAAAAATTA
2235416 AAAGATTTATTT
1 AAAGATTTATTT
2235428 GATCAGTGTT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
30 27 0.71
31 11 0.29
ACGTcount: A:0.53, C:0.01, G:0.05, T:0.40
Consensus pattern (31 bp):
AAAGATTTATTTAAATACAAATTAAAAATTA
Found at i:2236263 original size:30 final size:30
Alignment explanation
Indices: 2236229--2236303 Score: 89
Period size: 30 Copynumber: 2.5 Consensus size: 30
2236219 ATTTATTTAT
* *
2236229 GTTAAAAATTTATTTCCG-TGTAAATTAAAA
1 GTTAAAAATTTATTT-AGATATAAATTAAAA
**
2236259 GTTAAAAGCTTATTTAGATATAAATTAAAA
1 GTTAAAAATTTATTTAGATATAAATTAAAA
*
2236289 ATTAAAAATTTATTT
1 GTTAAAAATTTATTT
2236304 GAAAACAAAT
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
29 1 0.03
30 36 0.97
ACGTcount: A:0.47, C:0.04, G:0.08, T:0.41
Consensus pattern (30 bp):
GTTAAAAATTTATTTAGATATAAATTAAAA
Found at i:2257059 original size:22 final size:23
Alignment explanation
Indices: 2257034--2257078 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
2257024 ATATTATTAT
*
2257034 TATTAAAAAATTATATT-TAATA
1 TATTAAAAAATTAAATTGTAATA
* *
2257056 TATTTAAAATTTAAATTGTAATA
1 TATTAAAAAATTAAATTGTAATA
2257079 CCTATAATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (23 bp):
TATTAAAAAATTAAATTGTAATA
Found at i:2258483 original size:32 final size:32
Alignment explanation
Indices: 2258444--2258511 Score: 91
Period size: 32 Copynumber: 2.1 Consensus size: 32
2258434 TCGAACGAGT
* * *
2258444 TCGAGTAGCTTAAATTCGATCCTGAATCGAAC
1 TCGAGTAGCTCAAATTCGATCATAAATCGAAC
* *
2258476 TCGAGTAGCTCGAATTCGATCATAAATCGAAT
1 TCGAGTAGCTCAAATTCGATCATAAATCGAAC
2258508 TCGA
1 TCGA
2258512 ACTTAAAAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.28
Consensus pattern (32 bp):
TCGAGTAGCTCAAATTCGATCATAAATCGAAC
Found at i:2258518 original size:17 final size:17
Alignment explanation
Indices: 2258485--2258518 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
2258475 CTCGAGTAGC
*
2258485 TCGAATTCGATCATAAA
1 TCGAATTCGAACATAAA
*
2258502 TCGAATTCGAACTTAAA
1 TCGAATTCGAACATAAA
2258519 AAATAAAATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.41, C:0.18, G:0.12, T:0.29
Consensus pattern (17 bp):
TCGAATTCGAACATAAA
Found at i:2271949 original size:5 final size:5
Alignment explanation
Indices: 2271939--2271963 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
2271929 GCAAACACAA
2271939 AAAAT AAAAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT
2271964 CTAAGAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:2272331 original size:2 final size:2
Alignment explanation
Indices: 2272324--2272348 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2272314 TTTAATCAGA
2272324 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
2272349 AAAAAAAAAA
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:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:2276318 original size:2 final size:2
Alignment explanation
Indices: 2276311--2276338 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
2276301 TTCCATCCAA
2276311 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
2276339 ACAATCACTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:2279592 original size:24 final size:23
Alignment explanation
Indices: 2279538--2279593 Score: 67
Period size: 24 Copynumber: 2.4 Consensus size: 23
2279528 TTATATCATA
* *
2279538 AAAAAATTTAAAAATATTCTTTT
1 AAAATATTTAAAAATAATCTTTT
**
2279561 AATTTATTTATAAAATAATCTTTT
1 AAAATATTTA-AAAATAATCTTTT
2279585 AAAATATTT
1 AAAATATTT
2279594 TTATACAGAA
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
23 7 0.27
24 19 0.73
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (23 bp):
AAAATATTTAAAAATAATCTTTT
Found at i:2279835 original size:54 final size:56
Alignment explanation
Indices: 2279720--2279836 Score: 132
Period size: 56 Copynumber: 2.1 Consensus size: 56
2279710 TATTAACCCT
* * * * * *
2279720 AAAATATAAAAAGATTAGTTCATATATTAATATTTATTTTCAATGATTATTTTATT
1 AAAATATAAAAAGATTAATCCATATATTAATATTTATTTTAAATAATCATTTTATA
* *
2279776 TAAATATAAAAAGTTTAATCCATATGATT-AT-TTTA-TTTAAATAATCATTTTATA
1 AAAATATAAAAAGATTAATCCATAT-ATTAATATTTATTTTAAATAATCATTTTATA
2279830 AAAATAT
1 AAAATAT
2279837 TAACCATAAA
Statistics
Matches: 51, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
54 21 0.41
55 4 0.08
56 23 0.45
57 3 0.06
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.46
Consensus pattern (56 bp):
AAAATATAAAAAGATTAATCCATATATTAATATTTATTTTAAATAATCATTTTATA
Found at i:2286596 original size:2 final size:2
Alignment explanation
Indices: 2286589--2286619 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
2286579 CCAAAGTGAT
*
2286589 TA TA TA TA TA CA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2286620 CTCTTTTCCC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:2304197 original size:6 final size:6
Alignment explanation
Indices: 2304186--2304210 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
2304176 AATTGTTTGT
2304186 TTGCCG TTGCCG TTGCCG TTGCCG T
1 TTGCCG TTGCCG TTGCCG TTGCCG T
2304211 ACTTATGCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.32, G:0.32, T:0.36
Consensus pattern (6 bp):
TTGCCG
Found at i:2308639 original size:28 final size:29
Alignment explanation
Indices: 2308608--2308663 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
2308598 ATGGATGGAT
*
2308608 ATTGAAAT-TGTCATTAT-ATTCTTATTTG
1 ATTGAAATCTGTCACTATAATT-TTATTTG
2308636 ATTGAAATCTGTCACTATAATTTTATTT
1 ATTGAAATCTGTCACTATAATTTTATTT
2308664 TTGATGATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 8 0.32
29 14 0.56
30 3 0.12
ACGTcount: A:0.30, C:0.09, G:0.09, T:0.52
Consensus pattern (29 bp):
ATTGAAATCTGTCACTATAATTTTATTTG
Found at i:2310885 original size:2 final size:2
Alignment explanation
Indices: 2310878--2310902 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2310868 ACATTTAGTT
2310878 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
2310903 GCGAAAATTT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2313234 original size:2 final size:2
Alignment explanation
Indices: 2313229--2313264 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
2313219 ATATGACCTT
*
2313229 TA TA TA TA TA TA TA TA TA TA TA TA TA TA CA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2313265 GTAATTAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:2325358 original size:6 final size:6
Alignment explanation
Indices: 2325349--2325382 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
2325339 AAAATAAAAG
* *
2325349 AAAATC AAAATC AAAACC AAAACC AAAACC AAAA
1 AAAACC AAAACC AAAACC AAAACC AAAACC AAAA
2325383 TGTCAACATT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.71, C:0.24, G:0.00, T:0.06
Consensus pattern (6 bp):
AAAACC
Found at i:2327258 original size:14 final size:14
Alignment explanation
Indices: 2327239--2327267 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
2327229 AAAGCAAATT
2327239 TAAATAATATAAAA
1 TAAATAATATAAAA
2327253 TAAATAATATAAAA
1 TAAATAATATAAAA
2327267 T
1 T
2327268 TACTCAATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (14 bp):
TAAATAATATAAAA
Found at i:2327466 original size:2 final size:2
Alignment explanation
Indices: 2327459--2327484 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2327449 TACATTGCCA
2327459 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
2327485 TTTAAAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2329050 original size:13 final size:11
Alignment explanation
Indices: 2329030--2329077 Score: 53
Period size: 11 Copynumber: 4.3 Consensus size: 11
2329020 TAATAATTTA
2329030 AAATATAATAT
1 AAATATAATAT
*
2329041 AATTATATAATAC
1 AA--ATATAATAT
2329054 AAATATAATAT
1 AAATATAATAT
*
2329065 AAA-ATAAAAT
1 AAATATAATAT
2329075 AAA
1 AAA
2329078 AAAATAAGAC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
10 9 0.28
11 13 0.41
13 10 0.31
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (11 bp):
AAATATAATAT
Found at i:2340689 original size:6 final size:6
Alignment explanation
Indices: 2340680--2340730 Score: 95
Period size: 6 Copynumber: 8.7 Consensus size: 6
2340670 AGGTGGAGGT
2340680 GGTGAG GGTGAG GGTGAG GGTGAG GGTGAG GGTGAG GGTGAG GGTG-G
1 GGTGAG GGTGAG GGTGAG GGTGAG GGTGAG GGTGAG GGTGAG GGTGAG
2340727 GGTG
1 GGTG
2340731 GAGGTGGTGG
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
5 5 0.11
6 40 0.89
ACGTcount: A:0.14, C:0.00, G:0.69, T:0.18
Consensus pattern (6 bp):
GGTGAG
Found at i:2340818 original size:27 final size:27
Alignment explanation
Indices: 2340754--2340811 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
2340744 GAAAGTAAAA
* * *
2340754 GGTGGATGTGGGGTAGAGTTGCTTGGT
1 GGTGGAGGTGGAGTAAAGTTGCTTGGT
2340781 GGTGGAGGTGGAGTAAAGTT-CTTAGGT
1 GGTGGAGGTGGAGTAAAGTTGCTT-GGT
2340808 GGTG
1 GGTG
2340812 ATGGTGGTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 3 0.11
27 24 0.89
ACGTcount: A:0.16, C:0.03, G:0.50, T:0.31
Consensus pattern (27 bp):
GGTGGAGGTGGAGTAAAGTTGCTTGGT
Found at i:2340844 original size:27 final size:27
Alignment explanation
Indices: 2340814--2340873 Score: 70
Period size: 27 Copynumber: 2.2 Consensus size: 27
2340804 AGGTGGTGAT
2340814 GGTGGTAA-AGGTGAGCGT-AGGGGTGGA
1 GGTGG-AAGAGGTGAGCGTGA-GGGTGGA
* *
2340841 GGTGGAAGGGGTGAGTGTGAGGGTGGA
1 GGTGGAAGAGGTGAGCGTGAGGGTGGA
2340868 GGTGGA
1 GGTGGA
2340874 GGCCGGGTAG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
26 2 0.07
27 26 0.90
28 1 0.03
ACGTcount: A:0.20, C:0.02, G:0.60, T:0.18
Consensus pattern (27 bp):
GGTGGAAGAGGTGAGCGTGAGGGTGGA
Found at i:2340984 original size:51 final size:51
Alignment explanation
Indices: 2340895--2341003 Score: 139
Period size: 51 Copynumber: 2.1 Consensus size: 51
2340885 GTTCCTTGGA
* ** *
2340895 GGTGGTGGTTGGAATGTAGGAGGTGGAGGCGAGGTAAAGTTCCTAGGTGGT
1 GGTGGTGGTGGGAATGTAAAAGGTAGAGGCGAGGTAAAGTTCCTAGGTGGT
* *
2340946 GGTGGTGGTGGGAATGTAAAAGGTAGAGGTG-GGATAAAGTTCTTAGGTGGT
1 GGTGGTGGTGGGAATGTAAAAGGTAGAGGCGAGG-TAAAGTTCCTAGGTGGT
*
2340997 GGAGGTG
1 GGTGGTG
2341004 TGGTAGAGTT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
50 2 0.04
51 48 0.96
ACGTcount: A:0.22, C:0.04, G:0.49, T:0.26
Consensus pattern (51 bp):
GGTGGTGGTGGGAATGTAAAAGGTAGAGGCGAGGTAAAGTTCCTAGGTGGT
Found at i:2341001 original size:27 final size:27
Alignment explanation
Indices: 2340971--2341031 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
2340961 GTAAAAGGTA
2340971 GAGGTG-GGATAAAG-TTCTTAGGTGGTG
1 GAGGTGTGG-TAAAGTTTC-TAGGTGGTG
*
2340998 GAGGTGTGGTAGAGTTTCTAGGTGGTG
1 GAGGTGTGGTAAAGTTTCTAGGTGGTG
2341025 GAGGTGT
1 GAGGTGT
2341032 TGAAAGTGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
27 26 0.84
28 5 0.16
ACGTcount: A:0.18, C:0.03, G:0.48, T:0.31
Consensus pattern (27 bp):
GAGGTGTGGTAAAGTTTCTAGGTGGTG
Found at i:2341071 original size:15 final size:15
Alignment explanation
Indices: 2341048--2341081 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
2341038 TGAACGTGGA
* *
2341048 GGTGGGGGTGGAGGG
1 GGTGAGGGTGAAGGG
2341063 GGTGAGGGTGAAGGG
1 GGTGAGGGTGAAGGG
2341078 GGTG
1 GGTG
2341082 GTGGGGTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.12, C:0.00, G:0.74, T:0.15
Consensus pattern (15 bp):
GGTGAGGGTGAAGGG
Found at i:2341097 original size:24 final size:24
Alignment explanation
Indices: 2341051--2341097 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
2341041 ACGTGGAGGT
* *
2341051 GGGGGTGGAGGGGGTGAGGGTGAA
1 GGGGGTGGAGGGGGTAAGAGTGAA
* *
2341075 GGGGGTGGTGGGGTTAAGAGTGA
1 GGGGGTGGAGGGGGTAAGAGTGA
2341098 GGGAGGAGGT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.17, C:0.00, G:0.66, T:0.17
Consensus pattern (24 bp):
GGGGGTGGAGGGGGTAAGAGTGAA
Found at i:2341131 original size:24 final size:25
Alignment explanation
Indices: 2341084--2341131 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
2341074 AGGGGGTGGT
* *
2341084 GGGGTTAAGAGTGAGGGAGGAGGTA
1 GGGGTGAAGAGTGAGGGAGAAGGTA
*
2341109 GGGGTGAA-AGTGAGGGTGAAGGT
1 GGGGTGAAGAGTGAGGGAGAAGGT
2341132 GGAGGTGGAG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 13 0.65
25 7 0.35
ACGTcount: A:0.27, C:0.00, G:0.56, T:0.17
Consensus pattern (25 bp):
GGGGTGAAGAGTGAGGGAGAAGGTA
Found at i:2341401 original size:267 final size:265
Alignment explanation
Indices: 2341128--2341618 Score: 638
Period size: 267 Copynumber: 1.8 Consensus size: 265
2341118 GTGAGGGTGA
*
2341128 AGGTGGAGGTGGAGGTCGA-GTAGAGTTCTTTA-GAGGTGGTGGTGGGAATGTAAGAGGTGGA-G
1 AGGTGGAGGTGGAGG-CGAGGTAGAGTTC-CTAGGAGGTGGTGGTGGGAATGTAAGAGGTGGAGG
*
2341190 ACAAGGT-A-G-AGTTCCTAGGTGGTGGTGGTGGTAG-AGGTGAAAGTGGGGGT-AGAGGTGGAG
64 ACAAGGTGATGAAGTTCCTAGGTGGTGGTGGT-GTAGAAGGTGAAAGTGGGGATAAG-GGTGGAG
* * *
2341250 AGGGTAAAGGTGAAGGTGAAGGGGGCGGTGGGGGTGAGGGTGAAAATGGAGGTGTAGGCCGGGTA
127 AGGGT-AAGGTGAA--AGAA---GGCGGTGGGGGTGAGGGTGAAAATGGAGGTGGAGGCCGAGTA
2341315 GAGTTTTTTGGAGGTGGTGGTGGGAATGTAGGAGGTGGAGATGAGGTAAAGTTCTTAGGTGGTGG
186 GAGTTTTTTGGAGGTGGTGGTGGGAATGTAGGAGGTGGAGATGAGGTAAAGTTCTTAGGTGGTGG
2341380 TGGTGGGAATGTAGG
251 TGGTGGGAATGTAGG
* * * * **
2341395 AGGTGGAGGTGGAGGCGAGGTCGAGTTCCTAGGTGGTGGTGGTGGGAATTTAGGAGGTGGAGGTG
1 AGGTGGAGGTGGAGGCGAGGTAGAGTTCCTAGGAGGTGGTGGTGGGAATGTAAGAGGTGGAGGAC
* * * *** *
2341460 GAGGTGATGTAAAGTTTCTAGGTGGTGGTGGTGTTGAAGGTGAGCTTGGGGATAAGGGTGGAGGG
66 AAGGTGATG--AAGTTCCTAGGTGGTGGTGGTGTAGAAGGTGAAAGTGGGGATAAGGGTGGAGAG
* *
2341525 GGTGAGGTTAAAGAAGGCGGTGGGGGTGAGGGTGAAAATGGAGGTGGAGGCCGAGTAGAGTTTTT
129 GGTAAGGTGAAAGAAGGCGGTGGGGGTGAGGGTGAAAATGGAGGTGGAGGCCGAGTAGAGTTTTT
2341590 TGGAGGTGGTGGTGGGAATGTAGGAGGTG
194 TGGAGGTGGTGGTGGGAATGTAGGAGGTG
2341619 AAGTTGGAGG
Statistics
Matches: 194, Mismatches: 20, Indels: 20
0.83 0.09 0.09
Matches are distributed among these distances:
266 5 0.03
267 126 0.65
268 5 0.03
269 1 0.01
270 4 0.02
272 9 0.05
273 42 0.22
274 2 0.01
ACGTcount: A:0.21, C:0.04, G:0.51, T:0.24
Consensus pattern (265 bp):
AGGTGGAGGTGGAGGCGAGGTAGAGTTCCTAGGAGGTGGTGGTGGGAATGTAAGAGGTGGAGGAC
AAGGTGATGAAGTTCCTAGGTGGTGGTGGTGTAGAAGGTGAAAGTGGGGATAAGGGTGGAGAGGG
TAAGGTGAAAGAAGGCGGTGGGGGTGAGGGTGAAAATGGAGGTGGAGGCCGAGTAGAGTTTTTTG
GAGGTGGTGGTGGGAATGTAGGAGGTGGAGATGAGGTAAAGTTCTTAGGTGGTGGTGGTGGGAAT
GTAGG
Found at i:2341403 original size:54 final size:54
Alignment explanation
Indices: 2341327--2341492 Score: 220
Period size: 54 Copynumber: 3.2 Consensus size: 54
2341317 GTTTTTTGGA
2341327 GGTGGTGGTGGGAATGTAGGAGGTGGA----GA--TGAGGTAAAGTTCTTAGGT
1 GGTGGTGGTGGGAATGTAGGAGGTGGAGGTGGAGGTGAGGTAAAGTTCTTAGGT
* ** *
2341375 GGTGGTGGTGGGAATGTAGGAGGTGGAGGTGGAGGCGAGGTCGAGTTCCTAGGT
1 GGTGGTGGTGGGAATGTAGGAGGTGGAGGTGGAGGTGAGGTAAAGTTCTTAGGT
* *
2341429 GGTGGTGGTGGGAATTTAGGAGGTGGAGGTGGAGGTGATGTAAAGTT-TCTAGGT
1 GGTGGTGGTGGGAATGTAGGAGGTGGAGGTGGAGGTGAGGTAAAGTTCT-TAGGT
2341483 GGTGGTGGTG
1 GGTGGTGGTG
2341493 TTGAAGGTGA
Statistics
Matches: 101, Mismatches: 10, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
48 27 0.27
52 2 0.02
54 72 0.71
ACGTcount: A:0.19, C:0.04, G:0.51, T:0.27
Consensus pattern (54 bp):
GGTGGTGGTGGGAATGTAGGAGGTGGAGGTGGAGGTGAGGTAAAGTTCTTAGGT
Found at i:2341653 original size:3 final size:3
Alignment explanation
Indices: 2341645--2341678 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
2341635 AGAGTTCTTA
2341645 GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT G
1 GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT G
2341679 ATGGAGGTGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.00, C:0.00, G:0.68, T:0.32
Consensus pattern (3 bp):
GGT
Found at i:2346281 original size:29 final size:29
Alignment explanation
Indices: 2346218--2346274 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
2346208 TTTTACGAAT
* *
2346218 CAAATATAAAAGTCTTATATTCTGTAAAC
1 CAAACATAAAAGTCTTACATTCTGTAAAC
* *
2346247 CAAACATAAAATTCTTACATTCTTTAAA
1 CAAACATAAAAGTCTTACATTCTGTAAA
2346275 GTCAACAGGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.46, C:0.16, G:0.04, T:0.35
Consensus pattern (29 bp):
CAAACATAAAAGTCTTACATTCTGTAAAC
Found at i:2347886 original size:15 final size:15
Alignment explanation
Indices: 2347863--2347998 Score: 107
Period size: 15 Copynumber: 8.6 Consensus size: 15
2347853 ACTTATAAAT
*
2347863 AATATTATATTAATA
1 AATAATATATTAATA
*
2347878 AATAATATA-CAATTA
1 AATAATATATTAA-TA
2347893 ATATAATATATTAATA
1 A-ATAATATATTAATA
2347909 AATAATATATTAATA
1 AATAATATATTAATA
2347924 AATAACATACTATTAATA
1 AAT-A-ATA-TATTAATA
2347942 CAAT-ATATTATTAAATA
1 -AATAATA-TATT-AATA
** *
2347959 TTTTAATA-AATAATA
1 -AATAATATATTAATA
*
2347974 TTATAATATATTAATA
1 -AATAATATATTAATA
2347990 AATAATATA
1 AATAATATA
2347999 GAGAATAAGA
Statistics
Matches: 100, Mismatches: 11, Indels: 20
0.76 0.08 0.15
Matches are distributed among these distances:
14 2 0.02
15 47 0.47
16 27 0.27
17 10 0.10
18 11 0.11
19 3 0.03
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (15 bp):
AATAATATATTAATA
Found at i:2347892 original size:23 final size:22
Alignment explanation
Indices: 2347868--2347998 Score: 94
Period size: 23 Copynumber: 5.9 Consensus size: 22
2347858 TAAATAATAT
2347868 TATATTAATAAATAATATACAA
1 TATATTAATAAATAATATACAA
* * *
2347890 T-TAATATAATATATTAATAAATAA
1 TAT-AT-TAATA-AATAATATACAA
*
2347914 TATATTAATAAATAACATAC--
1 TATATTAATAAATAATATACAA
2347934 --TATTAATACAATATATTATTA-AA
1 TATATTAATA-AATA-A-TA-TACAA
* *
2347957 TATTTTAATAAATAATATTATAA
1 TATATTAATAAATAATA-TACAA
2347980 TATATTAATAAATAATATA
1 TATATTAATAAATAATATA
2347999 GAGAATAAGA
Statistics
Matches: 86, Mismatches: 10, Indels: 26
0.70 0.08 0.21
Matches are distributed among these distances:
18 8 0.09
19 4 0.05
20 1 0.01
21 2 0.02
22 18 0.21
23 29 0.34
24 16 0.19
25 8 0.09
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (22 bp):
TATATTAATAAATAATATACAA
Found at i:2347925 original size:46 final size:46
Alignment explanation
Indices: 2347863--2347974 Score: 158
Period size: 46 Copynumber: 2.5 Consensus size: 46
2347853 ACTTATAAAT
* *
2347863 AATATTATATTAATAAATAATATACAATTAATATAATATATTAATA
1 AATAATATATTAATAAATAATATACAATTAATACAATATATTAATA
* * *
2347909 AATAATATATTAATAAATAACATACTATTAATACAATATATTATTA
1 AATAATATATTAATAAATAATATACAATTAATACAATATATTAATA
2347955 AAT-AT-T-TTAATAAATAATAT
1 AATAATATATTAATAAATAATAT
2347975 TATAATATAT
Statistics
Matches: 60, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
43 13 0.22
44 1 0.02
45 2 0.03
46 44 0.73
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (46 bp):
AATAATATATTAATAAATAATATACAATTAATACAATATATTAATA
Found at i:2348128 original size:10 final size:9
Alignment explanation
Indices: 2348088--2348162 Score: 59
Period size: 9 Copynumber: 8.6 Consensus size: 9
2348078 AGTTATTTTT
*
2348088 TAATGTTAA
1 TAATTTTAA
2348097 TAATTTTAA
1 TAATTTTAA
*
2348106 TAA--TAAA
1 TAATTTTAA
2348113 TAATTTTAA
1 TAATTTTAA
2348122 TATATTTTAA
1 TA-ATTTTAA
* *
2348132 TAA-ATAAA
1 TAATTTTAA
*
2348140 TAACTTTGAA
1 TAA-TTTTAA
2348150 T-ATTTTAA
1 TAATTTTAA
2348158 TAATT
1 TAATT
2348163 ATATTAATAT
Statistics
Matches: 52, Mismatches: 8, Indels: 12
0.72 0.11 0.17
Matches are distributed among these distances:
7 6 0.12
8 12 0.23
9 21 0.40
10 13 0.25
ACGTcount: A:0.48, C:0.01, G:0.03, T:0.48
Consensus pattern (9 bp):
TAATTTTAA
Found at i:2348134 original size:26 final size:26
Alignment explanation
Indices: 2348088--2348161 Score: 98
Period size: 26 Copynumber: 2.9 Consensus size: 26
2348078 AGTTATTTTT
*
2348088 TAATGTTAATA-ATTTTAATAATAAA
1 TAATTTTAATATATTTTAATAATAAA
2348113 TAATTTTAATATATTTTAATAAATAAA
1 TAATTTTAATATATTTTAAT-AATAAA
* *
2348140 TAACTTTGA-ATATTTTAATAAT
1 TAATTTTAATATATTTTAATAAT
2348162 TATATTAATA
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
25 13 0.30
26 18 0.41
27 13 0.30
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.47
Consensus pattern (26 bp):
TAATTTTAATATATTTTAATAATAAA
Found at i:2352288 original size:13 final size:13
Alignment explanation
Indices: 2352252--2352289 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
2352242 TATAAAAGCG
*
2352252 CATATATAAAAAA
1 CATATATAAAGAA
*
2352265 CATATGTAAAGAA
1 CATATATAAAGAA
2352278 CATATATAAAGA
1 CATATATAAAGA
2352290 CATTAAGAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.61, C:0.08, G:0.08, T:0.24
Consensus pattern (13 bp):
CATATATAAAGAA
Found at i:2356337 original size:39 final size:39
Alignment explanation
Indices: 2356278--2356357 Score: 151
Period size: 39 Copynumber: 2.1 Consensus size: 39
2356268 ATATAAATAA
2356278 ATTACATGAAAATGAACATGTCAAATACTTAATTATACT
1 ATTACATGAAAATGAACATGTCAAATACTTAATTATACT
*
2356317 ATTATATGAAAATGAACATGTCAAATACTTAATTATACT
1 ATTACATGAAAATGAACATGTCAAATACTTAATTATACT
2356356 AT
1 AT
2356358 GTATTAAACC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.35
Consensus pattern (39 bp):
ATTACATGAAAATGAACATGTCAAATACTTAATTATACT
Found at i:2357178 original size:62 final size:62
Alignment explanation
Indices: 2357009--2357809 Score: 326
Period size: 62 Copynumber: 12.9 Consensus size: 62
2356999 TTATTTAATG
* **
2357009 AAAAATGCATTCAATAATC-CCATCTAATTTTTTAAAA-AATATTATTGAAAATATTTTT--TT
1 AAAAATGCCTTCAATAATCTCC-TCTAATTTTTTAAAAGAA-ATTATTGAAGGTATTTTTGATT
* * * * * * * * * *
2357069 ACAGAAAAAGCCTTCAATAATC-CTTTTAAATTTTGATGAGGAGATTATTAAATGTATTTTTGAT
1 --A-AAAATGCCTTCAATAATCTCCTCTAATTTTTTA-AAAGAAATTATTGAAGGTATTTTTGAT
2357133 T
62 T
* *
2357134 AAAAATGCCATT-AATAATCTCCTCTAATTTTTTAAAAGAAATTATTAAAGGTATTTTTTGCA-G
1 AAAAATGCC-TTCAATAATCTCCTCTAATTTTTTAAAAGAAATTATTGAAGGTA-TTTTTG-ATT
* * *
2357197 AAAACA--CATTCAATAATCTCCT-TCAAATTTTTAAAAGAAATTATTGAATGTGTTTTTTTTG-
1 AAAA-ATGCCTTCAATAATCTCCTCT-AATTTTTTAAAAGAAATTATTGAA-G-G-TATTTTTGA
*
2357258 TA
61 TT
* * * * * * *
2357260 AAAAATGTCTTCAATAATTCTCTTC-AATTTTTT-AAAGAAAAATATTCAATGTGTTTTT-TTT
1 AAAAATGCCTTCAATAA-TCTCCTCTAATTTTTTAAAAG-AAATTATTGAAGGTATTTTTGATT
* * * * *
2357321 GCAGCAAATGCCTTTAATAAT-TCTTTTAAATTTTT-AAAGAAAATTATTGAAGGTATTTTTTTG
1 --A-AAAATGCCTTCAATAATCTCCTCTAATTTTTTAAAAG-AAATTATTGAAGGTA--TTTTTG
* *
2357384 GTA
60 ATT
* * * * * * * * *
2357387 AAAAATGACTTCAATAA--TCCTCTAAAATTTTGACGAGGAGATTATTAAAAGTATTTTTGACT
1 AAAAATGCCTTCAATAATCTCCTCT-AATTTTTTA-AAAGAAATTATTGAAGGTATTTTTGATT
* * * * * * *
2357449 AAAAATACATTTAATAATATCCT-TCAATTTTTTAAAAAAAATTATTGAAGGCATTTTTCTGCAA
1 AAAAATGCCTTCAATAATCTCCTCT-AATTTTTTAAAAGAAATTATTGAAGGTA-TTTT-TG-AT
*
2357513 A
62 T
* * * * * * **
2357514 AAAAAAGCCTTCAATATTTTTCTCTAATTTTTT-AAAGAAAATTATTAAAGGTATTTTTTACA
1 AAAAATGCCTTCAATAATCTCCTCTAATTTTTTAAAAG-AAATTATTGAAGGTATTTTTGATT
* * * * * * * * *
2357576 AAAAATACCTTCAATAATCCCCT-TAAATTTTGATGAGGATATTATTGAAGGCATTTTT-AGT
1 AAAAATGCCTTCAATAATCTCCTCTAATTTTTTA-AAAGAAATTATTGAAGGTATTTTTGATT
** **
2357637 AAAAATGTATTCAATAATCTCCTCTAATTTTTT-AAAGAAAATTATTGAAGGTATTTTATGCGT
1 AAAAATGCCTTCAATAATCTCCTCTAATTTTTTAAAAG-AAATTATTGAAGGTATTTT-TGATT
* * * *
2357700 AAAACA--CCTTCAATAATCTCCT-T-A------AATAG--ATTATTGAAAGTATTTTTTTACT
1 AAAA-ATGCCTTCAATAATCTCCTCTAATTTTTTAAAAGAAATTATTGAAGGTA-TTTTTGATT
* *
2357752 AAAAATGCC-TCTAATAATC-CCTTTTAATTTTTTAAAAGAAATTATTGAAGATATTTTT
1 AAAAATGCCTTC-AATAATCTCC-TCTAATTTTTTAAAAGAAATTATTGAAGGTATTTTT
2357810 AATTTTTTTA
Statistics
Matches: 552, Mismatches: 125, Indels: 124
0.69 0.16 0.15
Matches are distributed among these distances:
51 1 0.00
52 22 0.04
53 14 0.03
54 1 0.00
55 4 0.01
60 3 0.01
61 59 0.11
62 177 0.32
63 142 0.26
64 74 0.13
65 53 0.10
66 2 0.00
ACGTcount: A:0.39, C:0.11, G:0.09, T:0.41
Consensus pattern (62 bp):
AAAAATGCCTTCAATAATCTCCTCTAATTTTTTAAAAGAAATTATTGAAGGTATTTTTGATT
Found at i:2357292 original size:64 final size:64
Alignment explanation
Indices: 2357162--2357685 Score: 252
Period size: 64 Copynumber: 8.3 Consensus size: 64
2357152 CTCCTCTAAT
* * * *
2357162 TTTTTAAA-AGAAATTATT-AAAG-GTATTTTTTGCAGAAAA-CACATTCAATAA-TCTCCTTCA
1 TTTTTAAAGA-AAATTATTGAATGTGTTTTTTTTGCAAAAAATGAC-TTCAATAATTCT-CTTCA
2357222 AA
63 AA
* * *
2357224 TTTTTAAA-AGAAATTATTGAATGTGTTTTTTTTGTAAAAAATGTCTTCAATAATTCTCTTCAAT
1 TTTTTAAAGA-AAATTATTGAATGTGTTTTTTTTGCAAAAAATGACTTCAATAATTCTCTTCAAA
* * ** * * *
2357288 TTTTTAAAGAAAAATATTCAATGTGTTTTTTTTGCAGCAAATGCCTTTAATAATTCT-TTTAAA
1 TTTTTAAAGAAAATTATTGAATGTGTTTTTTTTGCAAAAAATGACTTCAATAATTCTCTTCAAA
* * * * * *
2357351 TTTTTAAAGAAAATTATTGAAGGTATTTTTTTGGTAAAAAATGACTTCAATAATCCTC-TAAAA
1 TTTTTAAAGAAAATTATTGAATGTGTTTTTTTTGCAAAAAATGACTTCAATAATTCTCTTCAAA
* * * * ** * * *
2357414 TTTTGACGAGGAGATTATT-AA-AAG-TATTTTTGACTAAAAAT-ACATTTAATAATATC-CTTC
1 TTTTTA-AAGAAAATTATTGAATGTGTTTTTTTTG-CAAAAAATGAC-TTCAATAAT-TCTCTTC
*
2357474 AAT
62 AAA
* * * * * * *
2357477 TTTTTAAAAAAAATTATTGAA-G-GCATTTTTCTGCAAAAAAAAAGCCTTCAATATTTTTC-TCT
1 TTTTTAAAGAAAATTATTGAATGTG-TTTTTTTTGC--AAAAAATGACTTCAATAATTCTCTTC-
*
2357539 AAT
62 AAA
* * * * *
2357542 TTTTTAAAGAAAATTATT-AAAG-GTATTTTTTACAAAAAAT-ACCTTCAATAATCCCCTT-AAA
1 TTTTTAAAGAAAATTATTGAATGTGTTTTTTTTGCAAAAAATGA-CTTCAATAATTCTCTTCAAA
* * * * ** * * *
2357603 TTTTGATGAGGATATTATTGAA-G-GCATTTTTAG-TAAAAATGTA-TTCAATAA-TCTCCTCTA
1 TTTTTA-AAGAAAATTATTGAATGTGTTTTTTTTGCAAAAAATG-ACTTCAATAATTCTCTTC-A
*
2357663 AT
63 AA
2357665 TTTTTAAAGAAAATTATTGAA
1 TTTTTAAAGAAAATTATTGAA
2357686 GGTATTTTAT
Statistics
Matches: 349, Mismatches: 85, Indels: 57
0.71 0.17 0.12
Matches are distributed among these distances:
60 3 0.01
61 41 0.12
62 82 0.23
63 80 0.23
64 102 0.29
65 40 0.11
66 1 0.00
ACGTcount: A:0.39, C:0.10, G:0.10, T:0.41
Consensus pattern (64 bp):
TTTTTAAAGAAAATTATTGAATGTGTTTTTTTTGCAAAAAATGACTTCAATAATTCTCTTCAAA
Found at i:2357477 original size:189 final size:186
Alignment explanation
Indices: 2357269--2357693 Score: 450
Period size: 189 Copynumber: 2.3 Consensus size: 186
2357259 AAAAAATGTC
* * ** *
2357269 TTCAATAATTCTCTTCAATTTTTTAAAGAAAAATATTCAATGTG-TTTTTTTTGC-AGCAAATGC
1 TTCAATAATTC-CTTCAATTTTTTAAAGAAAAATATTCAA-G-GCATTTTTCTGCAAAAAAAAGC
* * **
2357332 CTTTAATAATTCTT-T-TAAATTTTTAAAGAAAATTATTGAAGGTATTTTTTTGGTAAAAAATGA
63 CTTCAAT-ATTCTTCTCTAAATTTTTAAAGAAAATTATTAAAGGTA-TTTTTT-ACAAAAAAT-A
* *
2357395 -CTTCAATAATCCTCTAAAATTTTGACGAGGAGATTATTAAAAGTATTTTTGACTAAAAATACA
124 CCTTCAATAATCCCCTAAAATTTTGACGAGGAGATTATTAAAAGCATTTTT-ACTAAAAATACA
* *
2357458 TTTAATAATATCCTTCAATTTTTTAAA-AAAAATTATTGAAGGCATTTTTCTGCAAAAAAAAAGC
1 TTCAATAAT-TCCTTCAATTTTTTAAAGAAAAA-TATTCAAGGCATTTTTCTGC-AAAAAAAAGC
* *
2357522 CTTCAATATTTTTCTCTAATTTTTTAAAGAAAATTATTAAAGGTATTTTTTACAAAAAATACCTT
63 CTTCAATATTCTTCTCTAAATTTTTAAAGAAAATTATTAAAGGTATTTTTTACAAAAAATACCTT
* * * * * * **
2357587 CAATAATCCCCTTAAATTTTGATGAGGATATTATTGAAGGCATTTTTAGTAAAAATGTA
128 CAATAATCCCCTAAAATTTTGACGAGGAGATTATTAAAAGCATTTTTACTAAAAATACA
* * *
2357646 TTCAATAATCTCC-TCTAATTTTTTAAAGAAAATTATTGAAGGTATTTT
1 TTCAATAAT-TCCTTC-AATTTTTTAAAGAAAAATATTCAAGGCATTTT
2357694 ATGCGTAAAA
Statistics
Matches: 199, Mismatches: 27, Indels: 21
0.81 0.11 0.09
Matches are distributed among these distances:
187 3 0.02
188 60 0.30
189 88 0.44
190 21 0.11
191 27 0.14
ACGTcount: A:0.39, C:0.10, G:0.10, T:0.42
Consensus pattern (186 bp):
TTCAATAATTCCTTCAATTTTTTAAAGAAAAATATTCAAGGCATTTTTCTGCAAAAAAAAGCCTT
CAATATTCTTCTCTAAATTTTTAAAGAAAATTATTAAAGGTATTTTTTACAAAAAATACCTTCAA
TAATCCCCTAAAATTTTGACGAGGAGATTATTAAAAGCATTTTTACTAAAAATACA
Found at i:2357568 original size:127 final size:125
Alignment explanation
Indices: 2357125--2357726 Score: 487
Period size: 127 Copynumber: 4.8 Consensus size: 125
2357115 ATTAAATGTA
* * *
2357125 TTTTTGATTAAAAATGCCATT-AATAATCTCCTCTAATTTTTTAAA-AGAAATTATTAAAGGTAT
1 TTTTTGATAAAAAATGTC-TTCAATAATTTCCTCTAATTTTTTAAAGA-AAATTATTAAAGGTA-
* * *
2357188 TTTTTGCAGAAAACACATTCAATAATCTCCTTCAAATTTTTAAAAGAAATTATTGAATGTG-TTT
63 TTTTTGCAGAAAATACATTCAATAATCTCCTTCAAATTTTTAAAAAAAATTATTGAA-G-GCATT
* * *
2357252 TTTTTG-TAAAAAATGTCTTCAATAATTCTCTTC-AATTTTTTAAAGAAAAATATTCAATGTGTT
1 TTTTTGATAAAAAATGTCTTCAATAATT-TCCTCTAATTTTTTAAAGAAAATTATT-AAAG-G-T
* * * * * * * * *
2357315 TTTTTTGCAGCAAATGCCTTTAATAAT-TCTTTTAAATTTTTAAAGAAAATTATTGAAGGTATT
62 ATTTTTGCAGAAAATACATTCAATAATCTCCTTCAAATTTTTAAAAAAAATTATTGAAGGCATT
* * * * * * * *
2357378 TTTTTGGTAAAAAATGACTTCAATAA--TCCTCTAAAATTTTGACGAGGAGATTATTAAAAGTAT
1 TTTTTGATAAAAAATGTCTTCAATAATTTCCTCT-AATTTTTTA-AAGAAAATTATTAAAGGTAT
* * *
2357441 TTTTGACTA-AAAATACATTTAATAATATCCTTCAATTTTTTAAAAAAAATTATTGAAGGCATT
64 TTTTG-C-AGAAAATACATTCAATAATCTCCTTCAAATTTTTAAAAAAAATTATTGAAGGCATT
* * * * * *
2357504 TTTCTGCAAAAAAAAAGCCTTCAATATTTTTCTCTAATTTTTTAAAGAAAATTATTAAAGGTATT
1 TTTTTG-ATAAAAAATGTCTTCAATAATTTCCTCTAATTTTTTAAAGAAAATTATTAAAGGTA-T
* * * * * * ** *
2357569 TTTTACAAAAAATACCTTCAATAATCCCCTT-AAATTTTGATGAGGATATTATTGAAGGCA-T
64 TTTTGCAGAAAATACATTCAATAATCTCCTTCAAATTTTTA-AAAAAAATTATTGAAGGCATT
* * * *
2357630 TTTTAG-T-AAAAATGTATTCAATAATCTCCTCTAATTTTTTAAAGAAAATTATTGAAGGTATTT
1 TTTTTGATAAAAAATGTCTTCAATAATTTCCTCTAATTTTTTAAAGAAAATTATTAAAGGTATTT
* *
2357693 TATGC-GTAAAACACCTTCAATAATCTCCTT-AAAT
66 T-TGCAG-AAAATACATTCAATAATCTCCTTCAAAT
2357727 AGATTATTGA
Statistics
Matches: 379, Mismatches: 74, Indels: 48
0.76 0.15 0.10
Matches are distributed among these distances:
122 4 0.01
123 73 0.19
124 11 0.03
125 19 0.05
126 101 0.27
127 131 0.35
128 34 0.09
129 6 0.02
ACGTcount: A:0.39, C:0.11, G:0.09, T:0.41
Consensus pattern (125 bp):
TTTTTGATAAAAAATGTCTTCAATAATTTCCTCTAATTTTTTAAAGAAAATTATTAAAGGTATTT
TTGCAGAAAATACATTCAATAATCTCCTTCAAATTTTTAAAAAAAATTATTGAAGGCATT
Found at i:2363773 original size:15 final size:15
Alignment explanation
Indices: 2363750--2363866 Score: 79
Period size: 15 Copynumber: 8.0 Consensus size: 15
2363740 ACTTATAAAT
*
2363750 AATATTATATTAATA
1 AATAATATATTAATA
2363765 AAT-A-ATA-TAATA
1 AATAATATATTAATA
2363777 AAT-AT-TATTAATTTA
1 AATAATATATTAA--TA
*
2363792 ACTAATAAATATT-AT-
1 AATAAT--ATATTAATA
*
2363807 AATAATATATTTATA
1 AATAATATATTAATA
* *
2363822 AATAATATACTATTA
1 AATAATATATTAATA
*
2363837 ATATAATATATTATTA
1 A-ATAATATATTAATA
2363853 AATAATATA-TAATA
1 AATAATATATTAATA
2363867 TATTAATAAA
Statistics
Matches: 83, Mismatches: 8, Indels: 23
0.73 0.07 0.20
Matches are distributed among these distances:
12 11 0.13
13 11 0.13
14 6 0.07
15 33 0.40
16 17 0.20
18 1 0.01
19 4 0.05
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATAATATATTAATA
Found at i:2363781 original size:22 final size:22
Alignment explanation
Indices: 2363756--2363884 Score: 92
Period size: 22 Copynumber: 5.9 Consensus size: 22
2363746 AAATAATATT
2363756 ATATTAATAAATAATATAATAA
1 ATATTAATAAATAATATAATAA
* * *
2363778 ATATTATTAATTTAA-CTAATAA
1 ATATTAATAA-ATAATATAATAA
2363800 ATATT-AT-AATAATATATTTATAA
1 ATATTAATAAATAATATA---ATAA
* *
2363823 ATAAT-ATACTATTAATATAAT--
1 ATATTAATA--AATAATATAATAA
*
2363844 ATATTATTAAATAATAT-ATAA
1 ATATTAATAAATAATATAATAA
2363865 TATATTAATAAATAATATAA
1 -ATATTAATAAATAATATAA
2363885 AAGAATAAGA
Statistics
Matches: 82, Mismatches: 12, Indels: 25
0.69 0.10 0.21
Matches are distributed among these distances:
19 5 0.06
20 10 0.12
21 5 0.06
22 38 0.46
23 16 0.20
26 8 0.10
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.43
Consensus pattern (22 bp):
ATATTAATAAATAATATAATAA
Found at i:2363843 original size:31 final size:30
Alignment explanation
Indices: 2363755--2363863 Score: 102
Period size: 31 Copynumber: 3.7 Consensus size: 30
2363745 TAAATAATAT
* * *
2363755 TATATTAATAAATAATATA-ATAAATATTA
1 TATATTTATAAATAATATATATTAATATAA
* * *
2363784 T-TAATT-TAACTAATAAATATT-ATAATAA
1 TATATTTATAAATAATATATATTAAT-ATAA
2363812 TATATTTATAAATAATATACTATTAATATAA
1 TATATTTATAAATAATATA-TATTAATATAA
2363843 TATA-TTATTAAATAATATATA
1 TATATTTA-TAAATAATATATA
2363864 ATATATTAAT
Statistics
Matches: 64, Mismatches: 9, Indels: 13
0.74 0.10 0.15
Matches are distributed among these distances:
27 11 0.17
28 9 0.14
29 5 0.08
30 14 0.22
31 23 0.36
32 2 0.03
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (30 bp):
TATATTTATAAATAATATATATTAATATAA
Found at i:2363873 original size:15 final size:15
Alignment explanation
Indices: 2363755--2363883 Score: 67
Period size: 15 Copynumber: 8.8 Consensus size: 15
2363745 TAAATAATAT
*
2363755 TATATTAATAAATAA
1 TATATTAATATATAA
* *
2363770 TATAATAA-ATATTA
1 TATATTAATATATAA
2363784 T-TAATTTAACTA-ATAA
1 TAT-A-TTAA-TATATAA
2363800 -ATATT-ATA-ATAA
1 TATATTAATATATAA
* *
2363812 TATATTTATAAATAA
1 TATATTAATATATAA
* *
2363827 TATACTATTAATATAA
1 TATATTAAT-ATATAA
* *
2363843 TATATTATTAAATAA
1 TATATTAATATATAA
2363858 TATA-TAATATATTAA
1 TATATTAATATA-TAA
*
2363873 TA-AATAATATA
1 TATATTAATATA
2363884 AAAGAATAAG
Statistics
Matches: 90, Mismatches: 13, Indels: 22
0.72 0.10 0.18
Matches are distributed among these distances:
12 6 0.07
13 7 0.08
14 17 0.19
15 42 0.47
16 17 0.19
17 1 0.01
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (15 bp):
TATATTAATATATAA
Found at i:2363998 original size:25 final size:24
Alignment explanation
Indices: 2363970--2364040 Score: 81
Period size: 26 Copynumber: 2.8 Consensus size: 24
2363960 ATGTTATTTT
2363970 TAATGTTAATAATTTTAATAATAAA
1 TAAT-TTAATAATTTTAATAATAAA
*
2363995 TAATTTTAATATATCTTAATAATAAA
1 TAA-TTTAATA-ATTTTAATAATAAA
2364021 TAACTTTGAAT-ATTTTAATA
1 TAA-TTT-AATAATTTTAATA
2364041 GTTATATTAA
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
25 17 0.43
26 20 0.50
27 3 0.08
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.46
Consensus pattern (24 bp):
TAATTTAATAATTTTAATAATAAA
Found at i:2366521 original size:2 final size:2
Alignment explanation
Indices: 2366514--2366569 Score: 103
Period size: 2 Copynumber: 28.0 Consensus size: 2
2366504 AAAACTTCAA
2366514 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
*
2366556 CT CT CT CT CC CT CT
1 CT CT CT CT CT CT CT
2366570 TCCACAAAAT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:2368176 original size:2 final size:2
Alignment explanation
Indices: 2368164--2368196 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
2368154 ATTTTTACCG
*
2368164 TA TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2368197 CCGAGGCCAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:2370420 original size:37 final size:40
Alignment explanation
Indices: 2370321--2370420 Score: 122
Period size: 37 Copynumber: 2.6 Consensus size: 40
2370311 AATAAATCTG
*
2370321 TATTTATATTTATA-AAATATTA-ATAATTTATATATTTA
1 TATTTATATTTATATAAATATTATATAATTCATATATTTA
* *
2370359 TATTT-TATTTATATAAAAAATATAT-A-TCATA-ATTTA
1 TATTTATATTTATATAAATATTATATAATTCATATATTTA
*
2370395 TATTTATATTGATATAAATATTATAT
1 TATTTATATTTATATAAATATTATAT
2370421 TTATATCATA
Statistics
Matches: 53, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
36 10 0.19
37 29 0.55
38 12 0.23
39 2 0.04
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.53
Consensus pattern (40 bp):
TATTTATATTTATATAAATATTATATAATTCATATATTTA
Found at i:2371029 original size:22 final size:23
Alignment explanation
Indices: 2371002--2371049 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
2370992 TTAAAGATAA
2371002 AAATTTA-TAAATATTGAGTTTT
1 AAATTTAGTAAATATTGAGTTTT
* **
2371024 AAATTTAGTGAATATTGTTTTTT
1 AAATTTAGTAAATATTGAGTTTT
2371047 AAA
1 AAA
2371050 ATAAATTATA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 7 0.32
23 15 0.68
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (23 bp):
AAATTTAGTAAATATTGAGTTTT
Found at i:2371074 original size:10 final size:10
Alignment explanation
Indices: 2371045--2371079 Score: 61
Period size: 10 Copynumber: 3.4 Consensus size: 10
2371035 ATATTGTTTT
2371045 TTAAAATAAA
1 TTAAAATAAA
2371055 TTATAAATAAA
1 TTA-AAATAAA
2371066 TTAAAATAAA
1 TTAAAATAAA
2371076 TTAA
1 TTAA
2371080 TTTTGATTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 14 0.58
11 10 0.42
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (10 bp):
TTAAAATAAA
Found at i:2372073 original size:27 final size:28
Alignment explanation
Indices: 2372043--2372108 Score: 86
Period size: 27 Copynumber: 2.4 Consensus size: 28
2372033 TTTATAGTTA
2372043 ATATTTTTTATA-AAAATATTA-TTTAAG
1 ATATTTTTTATACAAAA-ATTATTTTAAG
2372070 ATA-TTTTTATACAAAAATTATTTTAAG
1 ATATTTTTTATACAAAAATTATTTTAAG
2372097 -TAATTTTTTATA
1 AT-ATTTTTTATA
2372109 TTTTTATAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
26 13 0.37
27 14 0.40
28 8 0.23
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.53
Consensus pattern (28 bp):
ATATTTTTTATACAAAAATTATTTTAAG
Found at i:2372104 original size:28 final size:25
Alignment explanation
Indices: 2372040--2372108 Score: 77
Period size: 26 Copynumber: 2.6 Consensus size: 25
2372030 GGATTTATAG
*
2372040 TTAATATTTTTTATAAAAATATTAT
1 TTAAGATTTTTTATAAAAATATTAT
2372065 TTAAGATATTTTTATACAAAA-ATTATT
1 TTAAGAT-TTTTTATA-AAAATATTA-T
2372092 TTAAGTAATTTTTTATA
1 TTAAG--ATTTTTTATA
2372109 TTTTTATAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
25 6 0.16
26 12 0.32
27 10 0.26
28 8 0.21
29 2 0.05
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (25 bp):
TTAAGATTTTTTATAAAAATATTAT
Found at i:2372131 original size:36 final size:36
Alignment explanation
Indices: 2372070--2372140 Score: 101
Period size: 36 Copynumber: 2.0 Consensus size: 36
2372060 ATTATTTAAG
*
2372070 ATATTTTTATACAAAAATTATTTTAAG-TAATTTTTT
1 ATATTTTTATAAAAAAATTATTTTAAGAT-ATTTTTT
2372106 ATATTTTTATAAAATAAATTA-TTTAAGATATTTTT
1 ATATTTTTATAAAA-AAATTATTTTAAGATATTTTT
2372141 GCAAAAAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
36 25 0.78
37 7 0.22
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.55
Consensus pattern (36 bp):
ATATTTTTATAAAAAAATTATTTTAAGATATTTTTT
Found at i:2372176 original size:62 final size:62
Alignment explanation
Indices: 2372047--2372175 Score: 163
Period size: 63 Copynumber: 2.1 Consensus size: 62
2372037 TAGTTAATAT
* * * * *
2372047 TTTTTATAAAAATATTATTTAAGATATTTTTATACAAAAATTATTTTAAGTAATTTTTTATA
1 TTTTTATAAAAAAATTATTTAAGATATTTTTACACAAAAAATACTTTAAATAATTTTTTATA
*
2372109 TTTTTATAAAATAAATTATTTAAGATATTTTTGCA-AAAAAATACTTTAAATAAAATTTTTT-TA
1 TTTTTATAAAA-AAATTATTTAAGATATTTTTACACAAAAAATACTTTAAAT--AATTTTTTATA
2372172 TTTT
1 TTTT
2372176 AAGATTTAAG
Statistics
Matches: 58, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
62 24 0.41
63 26 0.45
64 8 0.14
ACGTcount: A:0.43, C:0.02, G:0.03, T:0.52
Consensus pattern (62 bp):
TTTTTATAAAAAAATTATTTAAGATATTTTTACACAAAAAATACTTTAAATAATTTTTTATA
Found at i:2372306 original size:37 final size:36
Alignment explanation
Indices: 2372259--2372329 Score: 115
Period size: 37 Copynumber: 1.9 Consensus size: 36
2372249 TTTCATAAGT
*
2372259 TAAAGATAATTATTAAATGATTTATAATATAAAATA
1 TAAAGATAATTATTAAATGATTCATAATATAAAATA
*
2372295 TAAAGAATAATTATTAATTGATTCATAATATAAAA
1 TAAAG-ATAATTATTAAATGATTCATAATATAAAA
2372330 AAAATAAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
36 5 0.16
37 27 0.84
ACGTcount: A:0.55, C:0.01, G:0.06, T:0.38
Consensus pattern (36 bp):
TAAAGATAATTATTAAATGATTCATAATATAAAATA
Found at i:2372711 original size:20 final size:20
Alignment explanation
Indices: 2372680--2372731 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
2372670 AAAATAAAAT
*
2372680 AAAAAATTATTATCATATATATA
1 AAAAAATTATAAT-A-AT-TATA
2372703 AAAAAATTATAATAATTATA
1 AAAAAATTATAATAATTATA
*
2372723 CAAAAATTA
1 AAAAAATTA
2372732 ATATATGTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
20 12 0.44
21 2 0.07
22 1 0.04
23 12 0.44
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.35
Consensus pattern (20 bp):
AAAAAATTATAATAATTATA
Found at i:2372722 original size:22 final size:23
Alignment explanation
Indices: 2372680--2372728 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
2372670 AAAATAAAAT
* * *
2372680 AAAAAATTATTATCATATATATA
1 AAAAAATTATAATAATATATACA
2372703 AAAAAATTATAATAAT-TATACA
1 AAAAAATTATAATAATATATACA
2372725 AAAA
1 AAAA
2372729 TTAATATATG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 9 0.39
23 14 0.61
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (23 bp):
AAAAAATTATAATAATATATACA
Found at i:2372728 original size:23 final size:23
Alignment explanation
Indices: 2372661--2372728 Score: 59
Period size: 23 Copynumber: 3.0 Consensus size: 23
2372651 TTGAATATTT
*
2372661 ATTATTAATAAAATA-AAATAAAAA
1 ATTA-TAATAATATATAAA-AAAAA
* * *
2372685 ATTATTATCATATATATAAAAAA
1 ATTATAATAATATATAAAAAAAA
*
2372708 ATTATAATAAT-TATACAAAAA
1 ATTATAATAATATATAAAAAAA
2372729 TTAATATATG
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
22 9 0.25
23 21 0.58
24 6 0.17
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (23 bp):
ATTATAATAATATATAAAAAAAA
Found at i:2384690 original size:34 final size:33
Alignment explanation
Indices: 2384651--2384715 Score: 112
Period size: 34 Copynumber: 1.9 Consensus size: 33
2384641 TAATTTTTTT
2384651 CTTACACTCTTATTCTTTTCTTTAAATAAAAACC
1 CTTACACTCTTATTCTTTT-TTTAAATAAAAACC
*
2384685 CTTACACTCTTATTCTTTTTTTTAATAAAAA
1 CTTACACTCTTATTCTTTTTTTAAATAAAAA
2384716 TTAAACGTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
33 11 0.37
34 19 0.63
ACGTcount: A:0.32, C:0.20, G:0.00, T:0.48
Consensus pattern (33 bp):
CTTACACTCTTATTCTTTTTTTAAATAAAAACC
Found at i:2384971 original size:16 final size:15
Alignment explanation
Indices: 2384952--2384992 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
2384942 GCATACGGAG
2384952 ATATATATATACATAC
1 ATATATATATACAT-C
*
2384968 ATATATATATATATC
1 ATATATATATACATC
2384983 ATA-ATATATA
1 ATATATATATA
2384993 AATTTATAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 7 0.29
15 4 0.17
16 13 0.54
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.41
Consensus pattern (15 bp):
ATATATATATACATC
Found at i:2384973 original size:14 final size:15
Alignment explanation
Indices: 2384954--2384992 Score: 53
Period size: 14 Copynumber: 2.6 Consensus size: 15
2384944 ATACGGAGAT
2384954 ATATATATACATA-C
1 ATATATATACATATC
*
2384968 ATATATATATATATC
1 ATATATATACATATC
2384983 ATAATATATA
1 AT-ATATATA
2384993 AATTTATAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 12 0.55
15 3 0.14
16 7 0.32
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (15 bp):
ATATATATACATATC
Found at i:2385039 original size:27 final size:29
Alignment explanation
Indices: 2385009--2385062 Score: 67
Period size: 27 Copynumber: 1.9 Consensus size: 29
2384999 TAGTCGTATA
2385009 TTTAAAAAAAGAGTT-ATCATC-AATTTT
1 TTTAAAAAAAGAGTTGATCATCTAATTTT
* * *
2385036 TTTATAAATATAGTTGATCATCTAATT
1 TTTAAAAAAAGAGTTGATCATCTAATT
2385063 AAATTTATCT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 12 0.55
28 6 0.27
29 4 0.18
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.44
Consensus pattern (29 bp):
TTTAAAAAAAGAGTTGATCATCTAATTTT
Found at i:2385669 original size:17 final size:17
Alignment explanation
Indices: 2385644--2385690 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 17
2385634 ATTTGTTAGA
*
2385644 TTTTATAAAAATT-ATT
1 TTTTTTAAAAATTAATT
2385660 TTTTTCTAAAAATTAATT
1 TTTTT-TAAAAATTAATT
2385678 TTTATTTAAAAAT
1 TTT-TTTAAAAAT
2385691 CATAAGATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
16 4 0.15
17 8 0.30
18 13 0.48
19 2 0.07
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (17 bp):
TTTTTTAAAAATTAATT
Found at i:2386121 original size:16 final size:16
Alignment explanation
Indices: 2386072--2386121 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
2386062 ACAATTAAAT
* *
2386072 AAATACATAAATAGTC
1 AAATAAATAAATAGAC
* * *
2386088 AAACAAATAAACAAAC
1 AAATAAATAAATAGAC
2386104 AAATAAATAAATAGAC
1 AAATAAATAAATAGAC
2386120 AA
1 AA
2386122 TTATGATAAA
Statistics
Matches: 26, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.68, C:0.12, G:0.04, T:0.16
Consensus pattern (16 bp):
AAATAAATAAATAGAC
Found at i:2387934 original size:2 final size:2
Alignment explanation
Indices: 2387927--2387954 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
2387917 AAGAAAAGGA
2387927 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
2387955 TGGGTTCAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2394882 original size:16 final size:16
Alignment explanation
Indices: 2394861--2394900 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
2394851 TAATGATTGA
2394861 ATGATAATGATGACTT
1 ATGATAATGATGACTT
*
2394877 ATGATAATGATGATTT
1 ATGATAATGATGACTT
*
2394893 ACGATAAT
1 ATGATAAT
2394901 TTTTAATGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.40, C:0.05, G:0.17, T:0.38
Consensus pattern (16 bp):
ATGATAATGATGACTT
Found at i:2398857 original size:10 final size:10
Alignment explanation
Indices: 2398842--2398889 Score: 53
Period size: 10 Copynumber: 4.7 Consensus size: 10
2398832 ATTTTAAGTA
*
2398842 TCATTTATGT
1 TCATTTATAT
2398852 TCATTTTATAT
1 TCA-TTTATAT
2398863 TCATTTGA-AT
1 TCATTT-ATAT
*
2398873 TCGTTTATAT
1 TCATTTATAT
2398883 TCATTTA
1 TCATTTA
2398890 GGATTTATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
9 1 0.03
10 21 0.66
11 10 0.31
ACGTcount: A:0.25, C:0.10, G:0.06, T:0.58
Consensus pattern (10 bp):
TCATTTATAT
Found at i:2398904 original size:25 final size:25
Alignment explanation
Indices: 2398876--2398930 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
2398866 TTTGAATTCG
2398876 TTTATATTCATTTAGGATT-TA-TTTA
1 TTTATATTCATTT--GATTATAGTTTA
*
2398901 TTTAAATTCATTTGATTATAGTTTA
1 TTTATATTCATTTGATTATAGTTTA
2398926 TTTAT
1 TTTAT
2398931 TGTTCTTGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
23 4 0.15
24 2 0.08
25 20 0.77
ACGTcount: A:0.29, C:0.04, G:0.07, T:0.60
Consensus pattern (25 bp):
TTTATATTCATTTGATTATAGTTTA
Found at i:2400753 original size:239 final size:241
Alignment explanation
Indices: 2400302--2400765 Score: 641
Period size: 239 Copynumber: 1.9 Consensus size: 241
2400292 CAATTCTTGA
* * * *
2400302 CAAATATAATGCAATCATATATTCCCTTGATTTATTATGGGGATGTAAAAATAAGAGAGTACAAG
1 CAAAAATAATGCAATCATATATTCCCTTGATTTATTATAGAGATGCAAAAATAAGAGAGTACAAG
*
2400367 GAGAATTGAAAAAAAGGTAATCAATACAAGAATGAGTCTGGTACAAAAATAAATAGGCAAAGGAA
66 GAGAATTGAAAAAAA-GTAATCAATACAAAAATGAGTCT-GT---AAAATAAATAGGCAAAGGAA
** * * * *
2400432 CAAATTCAAAATATATCACTAGGGATGGTATTTGAATGGTGTAACAATGTCCAAATAATGAATAT
126 CAAATTCAAAATATATCACTAAAGATGGTATTTGAATAGTGTAACAATATCCAAACAATAAATAT
* *
2400497 TCAGATAATTTTTAACATTAATTCAGAATTCAAAATATATTACTAGGGATG
191 TCAGACAATTCTTAACATTAATTCAGAATTCAAAATATATTACTAGGGATG
** *
2400548 CAAAAATAATGCAATCATATATTTTCTTGATTTATTTTAGAGATGCAAAAATAAGAGAGTACAAG
1 CAAAAATAATGCAATCATATATTCCCTTGATTTATTATAGAGATGCAAAAATAAGAGAGTACAAG
* *
2400613 GTA-AATTGGGAGAAAAA-TAATCAATACAAAAATGAGT-T-T-AAATAAATAGGCAAAGGGACA
66 G-AGAATT--GAAAAAAAGTAATCAATACAAAAATGAGTCTGTAAAATAAATAGGCAAAGGAACA
* *
2400673 AATTCAAAGTATATCACTAAAGATGGTATTTGAATAGTGTAACAATATCCAAACAATAAATATTT
128 AATTCAAAATATATCACTAAAGATGGTATTTGAATAGTGTAACAATATCCAAACAATAAATATTC
2400738 AGACAATTCTTAACATTAATTCAGAATT
193 AGACAATTCTTAACATTAATTCAGAATT
2400766 TTTTTTCAAA
Statistics
Matches: 195, Mismatches: 20, Indels: 13
0.86 0.09 0.06
Matches are distributed among these distances:
239 103 0.53
243 1 0.01
245 1 0.01
246 82 0.42
247 1 0.01
248 7 0.04
ACGTcount: A:0.46, C:0.10, G:0.16, T:0.29
Consensus pattern (241 bp):
CAAAAATAATGCAATCATATATTCCCTTGATTTATTATAGAGATGCAAAAATAAGAGAGTACAAG
GAGAATTGAAAAAAAGTAATCAATACAAAAATGAGTCTGTAAAATAAATAGGCAAAGGAACAAAT
TCAAAATATATCACTAAAGATGGTATTTGAATAGTGTAACAATATCCAAACAATAAATATTCAGA
CAATTCTTAACATTAATTCAGAATTCAAAATATATTACTAGGGATG
Done.