Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
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: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 76 of 295
Found at i:21919110 original size:26 final size:26
Alignment explanation
Indices: 21919080--21919145 Score: 105
Period size: 26 Copynumber: 2.5 Consensus size: 26
21919070 ATAGTTTGAC
21919080 AATGCTTTTGAAAAGTGCTTTTGAGA
1 AATGCTTTTGAAAAGTGCTTTTGAGA
* *
21919106 AATGCTGTGGAAAAGTGCTTTTGAGA
1 AATGCTTTTGAAAAGTGCTTTTGAGA
*
21919132 AGTGCTTTTGAAAA
1 AATGCTTTTGAAAA
21919146 ATTTGGTTTA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.32, C:0.08, G:0.26, T:0.35
Consensus pattern (26 bp):
AATGCTTTTGAAAAGTGCTTTTGAGA
Found at i:21920363 original size:19 final size:18
Alignment explanation
Indices: 21920341--21920378 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
21920331 AAATTTTTAA
*
21920341 AAAAATTATTTAACAAATT
1 AAAAATTATATAA-AAATT
21920360 AAAAATTATATAAAAATT
1 AAAAATTATATAAAAATT
21920378 A
1 A
21920379 TATTTTTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (18 bp):
AAAAATTATATAAAAATT
Found at i:21920375 original size:30 final size:29
Alignment explanation
Indices: 21920315--21920379 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
21920305 TTAATTAATT
* * * *
21920315 AATTTTTTAAAATTTAAAATTTTTAAAAA
1 AATTATTTAAAAATTAAAAATTATAAAAA
*
21920344 AATTATTTAACAAATTAAAAATTATATAAA
1 AATTATTTAA-AAATTAAAAATTATAAAAA
21920374 AATTAT
1 AATTAT
21920380 ATTTTTAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 9 0.30
30 21 0.70
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (29 bp):
AATTATTTAAAAATTAAAAATTATAAAAA
Found at i:21931988 original size:5 final size:5
Alignment explanation
Indices: 21931978--21932002 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
21931968 AATAAACCAA
21931978 TAAAT TAAAT TAAAT TAAAT TAAAT
1 TAAAT TAAAT TAAAT TAAAT TAAAT
21932003 AACTAAACCT
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:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TAAAT
Found at i:21934231 original size:34 final size:34
Alignment explanation
Indices: 21934193--21934258 Score: 105
Period size: 34 Copynumber: 1.9 Consensus size: 34
21934183 AAAAGACCTC
*
21934193 TAAACCCTACTTTAAAGAAACAAAACCCTAACAT
1 TAAACCCTAATTTAAAGAAACAAAACCCTAACAT
* *
21934227 TAAACCTTAATTTAAATAAACAAAACCCTAAC
1 TAAACCCTAATTTAAAGAAACAAAACCCTAAC
21934259 CCTTAAAAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.52, C:0.24, G:0.02, T:0.23
Consensus pattern (34 bp):
TAAACCCTAATTTAAAGAAACAAAACCCTAACAT
Found at i:21934719 original size:40 final size:40
Alignment explanation
Indices: 21934675--21934755 Score: 135
Period size: 40 Copynumber: 2.0 Consensus size: 40
21934665 AGGTCATATA
**
21934675 CTCATGTTGGAAAAAATCCGGTTTGAAAATAGTTTTCTTG
1 CTCATGTTGGAAAAAATCCAATTTGAAAATAGTTTTCTTG
*
21934715 CTCATGTTGGAAAAAATTCAATTTGAAAATAGTTTTCTTG
1 CTCATGTTGGAAAAAATCCAATTTGAAAATAGTTTTCTTG
21934755 C
1 C
21934756 ACAACGGAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.32, C:0.12, G:0.17, T:0.38
Consensus pattern (40 bp):
CTCATGTTGGAAAAAATCCAATTTGAAAATAGTTTTCTTG
Found at i:21935583 original size:6 final size:6
Alignment explanation
Indices: 21935572--21935599 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
21935562 TTTAGGTCAT
21935572 TTTTCA TTTTCA TTTTCA TTTTCA TTTT
1 TTTTCA TTTTCA TTTTCA TTTTCA TTTT
21935600 GGGGAAATTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.71
Consensus pattern (6 bp):
TTTTCA
Found at i:21935643 original size:57 final size:58
Alignment explanation
Indices: 21935582--21935704 Score: 151
Period size: 57 Copynumber: 2.1 Consensus size: 58
21935572 TTTTCATTTT
* * *
21935582 CATTTTCATTTTCATTTTGGGGAA-ATTCACATTCATTTCCAAATGATTCC-ATTTCTC
1 CATTTTCATTTTCATTTTGGAGAAGA-CCACAATCATTTCCAAATGATTCCTATTTCTC
* * * * *
21935639 CATTTTCATTTTTATTTTGGATAAGACCATAATCATTTCCAATTGTTTCCTATTTCTC
1 CATTTTCATTTTCATTTTGGAGAAGACCACAATCATTTCCAAATGATTCCTATTTCTC
21935697 CATTTTCA
1 CATTTTCA
21935705 CCATTTCTAT
Statistics
Matches: 56, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
57 40 0.71
58 16 0.29
ACGTcount: A:0.24, C:0.20, G:0.07, T:0.48
Consensus pattern (58 bp):
CATTTTCATTTTCATTTTGGAGAAGACCACAATCATTTCCAAATGATTCCTATTTCTC
Found at i:21939302 original size:19 final size:19
Alignment explanation
Indices: 21939267--21939308 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
21939257 AAAAATAATT
**
21939267 TTAAAATGTTTTTTTTAAA
1 TTAAAATGTTTCCTTTAAA
*
21939286 TTAAAATGTTTCCTTTAAG
1 TTAAAATGTTTCCTTTAAA
21939305 TTAA
1 TTAA
21939309 CTTAAAAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.36, C:0.05, G:0.07, T:0.52
Consensus pattern (19 bp):
TTAAAATGTTTCCTTTAAA
Found at i:21940206 original size:26 final size:26
Alignment explanation
Indices: 21940176--21940228 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
21940166 TTTAAACCAA
21940176 ACTTTT-CAAAATCACTTCTTAAAAGC
1 ACTTTTACAAAA-CACTTCTTAAAAGC
* *
21940202 ACTTTTACACAACACTTTTTAAAAGC
1 ACTTTTACAAAACACTTCTTAAAAGC
21940228 A
1 A
21940229 TTGCTAAACT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 20 0.83
27 4 0.17
ACGTcount: A:0.40, C:0.23, G:0.04, T:0.34
Consensus pattern (26 bp):
ACTTTTACAAAACACTTCTTAAAAGC
Found at i:21942879 original size:3 final size:3
Alignment explanation
Indices: 21942873--21942898 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
21942863 TCATCTTCTT
21942873 CTC CTC CTC CTC CTC CTC CTC CTC CT
1 CTC CTC CTC CTC CTC CTC CTC CTC CT
21942899 ACATCCGTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.65, G:0.00, T:0.35
Consensus pattern (3 bp):
CTC
Found at i:21963277 original size:17 final size:16
Alignment explanation
Indices: 21963242--21963317 Score: 59
Period size: 15 Copynumber: 4.6 Consensus size: 16
21963232 GAATTCAAAA
*
21963242 TAAAAA-ATAAAA-AC
1 TAAAAATATAAAATTC
21963256 TAAAAATATAAAAGTTC
1 TAAAAATATAAAA-TTC
*
21963273 TAAAAATTTATATAAATTT
1 TAAAAA--TATA-AAATTC
*
21963292 TAAAAAATTTAAAATT-
1 T-AAAAATATAAAATTC
21963308 TAAAAATATA
1 TAAAAATATA
21963318 TAAAAAATTT
Statistics
Matches: 51, Mismatches: 4, Indels: 13
0.75 0.06 0.19
Matches are distributed among these distances:
14 6 0.12
15 14 0.27
16 1 0.02
17 12 0.24
18 3 0.06
19 7 0.14
20 8 0.16
ACGTcount: A:0.63, C:0.03, G:0.01, T:0.33
Consensus pattern (16 bp):
TAAAAATATAAAATTC
Found at i:21963331 original size:20 final size:19
Alignment explanation
Indices: 21963257--21963338 Score: 82
Period size: 19 Copynumber: 4.5 Consensus size: 19
21963247 AATAAAAACT
* *
21963257 AAAA-ATATAAAAGTTCTA
1 AAAATATATAAAAATTTTA
* *
21963275 AAAATTTATATAAATTTTA
1 AAAATATATAAAAATTTTA
*
21963294 AAAA-AT-TTAAAA-TTTA
1 AAAATATATAAAAATTTTA
21963310 AAAATATATAAAAAATTTTA
1 AAAATATAT-AAAAATTTTA
21963330 AAAATATAT
1 AAAATATAT
21963339 TTCTCAATAA
Statistics
Matches: 51, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
16 8 0.16
17 6 0.12
18 6 0.12
19 18 0.35
20 13 0.25
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.37
Consensus pattern (19 bp):
AAAATATATAAAAATTTTA
Found at i:21963333 original size:35 final size:36
Alignment explanation
Indices: 21963256--21963337 Score: 105
Period size: 35 Copynumber: 2.3 Consensus size: 36
21963246 AAATAAAAAC
* *
21963256 TAAAAATATAAAAGTTCTAAAAATTTATATAAATTT
1 TAAAAATATAAAAGTTCTAAAAATATATAAAAATTT
*
21963292 TAAAAAATTTAAAA-TT-TAAAAATATATAAAAAATTT
1 T-AAAAATATAAAAGTTCTAAAAATATAT-AAAAATTT
21963328 TAAAAATATA
1 TAAAAATATA
21963338 TTTCTCAATA
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
35 18 0.45
36 11 0.28
37 11 0.28
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.37
Consensus pattern (36 bp):
TAAAAATATAAAAGTTCTAAAAATATATAAAAATTT
Found at i:21969664 original size:11 final size:11
Alignment explanation
Indices: 21969648--21969680 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
21969638 CAATATATAT
21969648 AAAATTATAAA
1 AAAATTATAAA
21969659 AAAATT-TCAAA
1 AAAATTAT-AAA
21969670 AAAATTATAAA
1 AAAATTATAAA
21969681 TAATTAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
10 1 0.05
11 18 0.90
12 1 0.05
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (11 bp):
AAAATTATAAA
Found at i:21970117 original size:20 final size:20
Alignment explanation
Indices: 21970073--21970117 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
21970063 AAAAGTTTGC
* * *
21970073 ATTTTATTAATTTTTAATAT
1 ATTTTATTAATTTTCAAAAG
21970093 ATTTTATTAATTTTCAAAAG
1 ATTTTATTAATTTTCAAAAG
*
21970113 GTTTT
1 ATTTT
21970118 TAGAAATTAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.60
Consensus pattern (20 bp):
ATTTTATTAATTTTCAAAAG
Found at i:21970283 original size:21 final size:21
Alignment explanation
Indices: 21970259--21970300 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
21970249 ACATGATGCA
21970259 TTCTAATAGGCTTCATGTGTC
1 TTCTAATAGGCTTCATGTGTC
21970280 TTCTAATAGGCTTCATGTGTC
1 TTCTAATAGGCTTCATGTGTC
21970301 GGGTTTTCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.43
Consensus pattern (21 bp):
TTCTAATAGGCTTCATGTGTC
Found at i:21979254 original size:30 final size:30
Alignment explanation
Indices: 21979215--21979277 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
21979205 ACTTATTTTA
*
21979215 TTGTCAATTTTGTTATTATTTTAAAGGTAT
1 TTGTCAATTTTGTTATTATTTTAAAGGCAT
* *
21979245 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTCAATTTTGTTATTATTTTAAAGGCAT
21979275 TTG
1 TTG
21979278 CTTGTTAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.24, C:0.03, G:0.16, T:0.57
Consensus pattern (30 bp):
TTGTCAATTTTGTTATTATTTTAAAGGCAT
Found at i:21986509 original size:6 final size:6
Alignment explanation
Indices: 21986500--21986528 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
21986490 TTTGGGGTGT
21986500 GAATGG GAATGG GAATGG GAATGG GAATG
1 GAATGG GAATGG GAATGG GAATGG GAATG
21986529 TAGTAGGGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.34, C:0.00, G:0.48, T:0.17
Consensus pattern (6 bp):
GAATGG
Found at i:21987364 original size:26 final size:30
Alignment explanation
Indices: 21987334--21987403 Score: 85
Period size: 26 Copynumber: 2.5 Consensus size: 30
21987324 TTTGAGAGTT
21987334 ATTAATATTTATTTATA-AT-AAT-AA-TA
1 ATTAATATTTATTTATATATAAATAAAGTA
* * *
21987360 ATTAATATTTAATTATATTTAAATAAAGTT
1 ATTAATATTTATTTATATATAAATAAAGTA
21987390 ATTAATATTTATTT
1 ATTAATATTTATTT
21987404 GCAAGTTCTC
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
26 16 0.44
27 1 0.03
28 3 0.08
29 2 0.06
30 14 0.39
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (30 bp):
ATTAATATTTATTTATATATAAATAAAGTA
Found at i:21987710 original size:22 final size:18
Alignment explanation
Indices: 21987669--21987713 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 18
21987659 CTTCAGTTTT
21987669 CTTTTTTTTTTCTCTCTC
1 CTTTTTTTTTTCTCTCTC
21987687 CTTTGTTTTTTTCATCTTCTTC
1 CTTT-TTTTTTTC-TC-TC-TC
21987709 CTTTT
1 CTTTT
21987714 AACTCAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
18 4 0.17
19 8 0.35
20 2 0.09
21 3 0.13
22 6 0.26
ACGTcount: A:0.02, C:0.24, G:0.02, T:0.71
Consensus pattern (18 bp):
CTTTTTTTTTTCTCTCTC
Found at i:21990153 original size:27 final size:27
Alignment explanation
Indices: 21990076--21990155 Score: 69
Period size: 27 Copynumber: 3.0 Consensus size: 27
21990066 GAAATATTTT
*
21990076 GATATTTTATAATTA-TTTAGTTAGATAA
1 GATATTTTATTATTATTTTA-TTAG-TAA
**
21990104 -ATATTATT-TTATTAATACT-TTAGTAA
1 GATATT-TTATTATT-ATTTTATTAGTAA
21990130 GATATTTTATTATTATTTTATTAGTA
1 GATATTTTATTATTATTTTATTAGTA
21990156 TATAAAGAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 13
0.69 0.08 0.22
Matches are distributed among these distances:
26 8 0.20
27 29 0.71
28 3 0.07
29 1 0.02
ACGTcount: A:0.36, C:0.01, G:0.07, T:0.55
Consensus pattern (27 bp):
GATATTTTATTATTATTTTATTAGTAA
Found at i:21992080 original size:46 final size:46
Alignment explanation
Indices: 21992028--21992255 Score: 341
Period size: 46 Copynumber: 5.0 Consensus size: 46
21992018 AGTGTGCTCT
*
21992028 CTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
21992074 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAT
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
21992120 CTGATATGAAATGTGTAAGACCATTGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
21992166 CTGATATGAGATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * ** * *
21992212 ATGACA-GAAAATGAGTAAGACCATAATTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
21992256 TCACGTCAAA
Statistics
Matches: 167, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
45 1 0.01
46 166 0.99
ACGTcount: A:0.39, C:0.14, G:0.23, T:0.24
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:22004979 original size:32 final size:32
Alignment explanation
Indices: 22004927--22004988 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
22004917 AATTTTTAGC
*
22004927 ACTTTGGCCTATATACTTTATTTTTGCTATTA
1 ACTTTAGCCTATATACTTTATTTTTGCTATTA
* *
22004959 ACTTTAGCCTTTATATTTTATTTTTGCTAT
1 ACTTTAGCCTATATACTTTATTTTTGCTAT
22004989 ATAAAATAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.21, C:0.15, G:0.08, T:0.56
Consensus pattern (32 bp):
ACTTTAGCCTATATACTTTATTTTTGCTATTA
Found at i:22014571 original size:17 final size:17
Alignment explanation
Indices: 22014536--22014573 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
22014526 ACTTTTCGCA
* *
22014536 TTTT-TTTTTCTTTTTT
1 TTTTGTTTTTCTTGTCT
22014552 TTTTGTTTTTCTTGTCT
1 TTTTGTTTTTCTTGTCT
22014569 TTTTG
1 TTTTG
22014574 CAAATTGATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 4 0.21
17 15 0.79
ACGTcount: A:0.00, C:0.08, G:0.08, T:0.84
Consensus pattern (17 bp):
TTTTGTTTTTCTTGTCT
Found at i:22016306 original size:126 final size:126
Alignment explanation
Indices: 22016066--22016368 Score: 306
Period size: 126 Copynumber: 2.4 Consensus size: 126
22016056 AACATAAGGA
* * * * * * *
22016066 AATATTTCGTGTTT-GGGAGTTCGAGGGGTCATGCCCAATCGTGCTGGGTTTCGATTTTTCGTTC
1 AATATTTCGTATTTGGGGAGTTCGAGAGATCATGCCCAATCGTGCTGGGTTTCAATCTTCCATTC
** * * **
22016130 AACTAAAATACGGAATATTCTTTGGAATTTTCGTCCATACTTTTTAAAATTAAAATGAGGC
66 AACTAAAATACAAAATATCCTTTGGAAATTTCACCCATACTTTTTAAAATTAAAATGAGGC
* * * *
22016191 AATATTTCGTATTTGGGGAGTTTGAGAGATCGTGTCTAATCGTGCTGGGTTTCAATCTTCCATTC
1 AATATTTCGTATTTGGGGAGTTCGAGAGATCATGCCCAATCGTGCTGGGTTTCAATCTTCCATTC
* * * *
22016256 GACTAAAATACAAAATATCCTTTTGAAATTTCACCCAT-GTTTTCTTAAATTAAAATGAGGC
66 AACTAAAATACAAAATATCCTTTGGAAATTTCACCCATACTTTT-TAAAATTAAAATGAGGC
* * * * * * * * *
22016317 AATGTTTTGTATTT-GGAAATTCAATAAATCGTGCCCAGTCGTGCTGGGTTTC
1 AATATTTCGTATTTGGGGAGTTCGAGAGATCATGCCCAATCGTGCTGGGTTTC
22016369 GATTTACTGT
Statistics
Matches: 144, Mismatches: 32, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
125 46 0.32
126 98 0.68
ACGTcount: A:0.27, C:0.16, G:0.20, T:0.38
Consensus pattern (126 bp):
AATATTTCGTATTTGGGGAGTTCGAGAGATCATGCCCAATCGTGCTGGGTTTCAATCTTCCATTC
AACTAAAATACAAAATATCCTTTGGAAATTTCACCCATACTTTTTAAAATTAAAATGAGGC
Found at i:22027612 original size:64 final size:64
Alignment explanation
Indices: 22027511--22027638 Score: 220
Period size: 64 Copynumber: 2.0 Consensus size: 64
22027501 CATTCTGCAG
22027511 CACATCTAACTAGAAGCATTTGATCCATTTTGATCATAGCATCCTAATTATTTGACATAAGCAT
1 CACATCTAACTAGAAGCATTTGATCCATTTTGATCATAGCATCCTAATTATTTGACATAAGCAT
* * * *
22027575 CACATCTACCTAGGAGCATTTGATTCATTTTGATCATAGCATCCTAATTATTTGGCATAAGCAT
1 CACATCTAACTAGAAGCATTTGATCCATTTTGATCATAGCATCCTAATTATTTGACATAAGCAT
22027639 AAATACATGA
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
64 60 1.00
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.35
Consensus pattern (64 bp):
CACATCTAACTAGAAGCATTTGATCCATTTTGATCATAGCATCCTAATTATTTGACATAAGCAT
Found at i:22027628 original size:32 final size:31
Alignment explanation
Indices: 22027528--22027628 Score: 73
Period size: 32 Copynumber: 3.2 Consensus size: 31
22027518 AACTAGAAGC
22027528 ATTTGATCCATTTTGATCATAGCATCCTAATT
1 ATTTGAT-CATTTTGATCATAGCATCCTAATT
** * * **
22027560 ATTTGA-CA-TAAGCATCACATC-TACCTAGGAGC
1 ATTTGATCATTTTG-ATCATAGCAT-CCTA--ATT
22027592 ATTTGATTCATTTTGATCATAGCATCCTAATT
1 ATTTGA-TCATTTTGATCATAGCATCCTAATT
22027624 ATTTG
1 ATTTG
22027629 GCATAAGCAT
Statistics
Matches: 49, Mismatches: 12, Indels: 16
0.64 0.16 0.21
Matches are distributed among these distances:
29 3 0.06
30 12 0.24
32 19 0.39
34 12 0.24
35 3 0.06
ACGTcount: A:0.30, C:0.19, G:0.12, T:0.40
Consensus pattern (31 bp):
ATTTGATCATTTTGATCATAGCATCCTAATT
Found at i:22027969 original size:133 final size:133
Alignment explanation
Indices: 22027799--22028088 Score: 436
Period size: 133 Copynumber: 2.2 Consensus size: 133
22027789 AAATGGCGAG
* * * *
22027799 TCTTATCTCTATCTATCGACTATGGAGCAGATTTTAGCTACCAACCTTATCTCTCTGAGGTAGCA
1 TCTTATCTCTATGTATCGGCTATGGAACAGATTTTAGCCACCAACCTTATCTCTCTGAGGTAGCA
* *
22027864 AGAGAGCAGGTTGAAGATATGATTCTTATCTTCCTAAGGTAGCAAGGAAAAAGACTGCAAATTAT
66 AGAGAGCAGGTTGAAGATACGAGTCTTATCTTCCTAAGGTAGCAAGGAAAAAGACTGCAAATTAT
22027929 AGA
131 AGA
* * * * *
22027932 TCTTATCTCCATGTATCGGCTATGGAACAGATTTTAGCCACTAGCCTTATCTCTTTGAGGTAGTA
1 TCTTATCTCTATGTATCGGCTATGGAACAGATTTTAGCCACCAACCTTATCTCTCTGAGGTAGCA
* * * *
22027997 AGAGAGTAGGTTGAGGATACGAGTCTTATCTTCCTAAGGTAGCAAGGAAACAGATTGCAAATTAT
66 AGAGAGCAGGTTGAAGATACGAGTCTTATCTTCCTAAGGTAGCAAGGAAAAAGACTGCAAATTAT
22028062 AGA
131 AGA
*
22028065 TCTTATCTCTATGTATTGGCTATG
1 TCTTATCTCTATGTATCGGCTATG
22028089 AAGCTGATCG
Statistics
Matches: 140, Mismatches: 17, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
133 140 1.00
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (133 bp):
TCTTATCTCTATGTATCGGCTATGGAACAGATTTTAGCCACCAACCTTATCTCTCTGAGGTAGCA
AGAGAGCAGGTTGAAGATACGAGTCTTATCTTCCTAAGGTAGCAAGGAAAAAGACTGCAAATTAT
AGA
Found at i:22028291 original size:45 final size:45
Alignment explanation
Indices: 22028222--22028319 Score: 135
Period size: 45 Copynumber: 2.2 Consensus size: 45
22028212 GCAGTAAGGT
* * *
22028222 AACAGACTGAAAATTGCAGATCTTATCTCCATATATCGGCTATGG
1 AACAGATTGAAAATGGCAGATCTTATCTCCATATATCGGCAATGG
*
22028267 AACAGATTGAAAATGGC-GAGTCTTATCTCCATGTATCGGCAATGG
1 AACAGATTGAAAATGGCAGA-TCTTATCTCCATATATCGGCAATGG
*
22028312 AGCAGATT
1 AACAGATT
22028320 TAAGCCATCA
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
44 2 0.04
45 45 0.96
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (45 bp):
AACAGATTGAAAATGGCAGATCTTATCTCCATATATCGGCAATGG
Found at i:22028303 original size:177 final size:177
Alignment explanation
Indices: 22027932--22028536 Score: 721
Period size: 177 Copynumber: 3.4 Consensus size: 177
22027922 AAATTATAGA
* * * * * *
22027932 TCTTATCTCCATGTATCGGCTATGGAACAGATTTTAGCCACTAGCCTTATCTCTTTGAGGTAGTA
1 TCTTATCTCCATGTATCGGCTATGGAGCAGATTTAAGCCACCAGCCTTATCTCTCTAAGGTAGCA
* * * * * * * * * * *
22027997 AGAGAGTAGGTTGAGGATACGAGTCTTATCTTCCTAAGGTAGCAAGGAAACAGATTGCAAATTAT
66 AGAGAGCAGGTTGAAGATACGAGCCTTAACCTCCTAA-GCAGTAAGGTAACAGACTGAAAATTAC
* * * *
22028062 AGATCTTATCTCTATGTATTGGCTAT-GAAGCTGATCGAAAATGGTGAG
130 AGATCTTATCTCCATGTATCGGCTATGGAA-CAGATTGAAAATGGTGAG
* * * * * * *
22028110 TCTTATCTCTATGTATCAGCTATAGAGCATATTTAAGCTACCGGCCTTATCTCTCTAAGATAGCA
1 TCTTATCTCCATGTATCGGCTATGGAGCAGATTTAAGCCACCAGCCTTATCTCTCTAAGGTAGCA
* * *
22028175 AGAGAGCAGGTTGAAGATGCGAGCCTTAACCCCCTAAGCAGTAAGGTAACAGACTGAAAATTGCA
66 AGAGAGCAGGTTGAAGATACGAGCCTTAACCTCCTAAGCAGTAAGGTAACAGACTGAAAATTACA
* *
22028240 GATCTTATCTCCATATATCGGCTATGGAACAGATTGAAAATGGCGAG
131 GATCTTATCTCCATGTATCGGCTATGGAACAGATTGAAAATGGTGAG
* * * *
22028287 TCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCCATCAGTCTTATCTCTCTGAGGTAGCA
1 TCTTATCTCCATGTATCGGCTATGGAGCAGATTTAAGCCACCAGCCTTATCTCTCTAAGGTAGCA
* * ** *
22028352 AGAGAGCAGGTTGAAGATACAAGCCTTAACCTCCTAAGCAGTAGGGTAATGGGCTGAAAATTACA
66 AGAGAGCAGGTTGAAGATACGAGCCTTAACCTCCTAAGCAGTAAGGTAACAGACTGAAAATTACA
* * * * *
22028417 GATCTTATCTCCATGTA-CAGACTATGGAGCAGA-TCAGATATGATGAG
131 GATCTTATCTCCATGTATC-GGCTATGGAACAGATTGA-AAATGGTGAG
*
22028464 TCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTAAGGTAGCA
1 TCTTATCTCCATGTATCGGCTATGGAGCAGATTTAAGCCACCAGCCTTATCTCTCTAAGGTAGCA
22028529 AGAGAGCA
66 AGAGAGCA
22028537 AGTTAAAGTT
Statistics
Matches: 360, Mismatches: 64, Indels: 7
0.84 0.15 0.02
Matches are distributed among these distances:
176 3 0.01
177 272 0.76
178 85 0.24
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.28
Consensus pattern (177 bp):
TCTTATCTCCATGTATCGGCTATGGAGCAGATTTAAGCCACCAGCCTTATCTCTCTAAGGTAGCA
AGAGAGCAGGTTGAAGATACGAGCCTTAACCTCCTAAGCAGTAAGGTAACAGACTGAAAATTACA
GATCTTATCTCCATGTATCGGCTATGGAACAGATTGAAAATGGTGAG
Found at i:22028335 original size:311 final size:311
Alignment explanation
Indices: 22027743--22028353 Score: 648
Period size: 311 Copynumber: 2.0 Consensus size: 311
22027733 TAACAGGCTA
*
22027743 CAAATTACAGATCTTATCTCCATGTATCGGATATGGAGTAGATCAGAAATGGCGAGTCTTATCTC
1 CAAATTACAGATCTTATCTCCATGTATCGGATATGAAGTAGATCAGAAATGGCGAGTCTTATCTC
* * * *
22027808 TATCTATCGACTATGGAGCAGATTTTAGCTACCAACCTTATCTCTCTGAGGTAGCAAGAGAGCAG
66 TATCTATCGACTATAGAGCAGATTTAAGCTACCAACCTTATCTCTCTAAGATAGCAAGAGAGCAG
* ** * ** * * *
22027873 GTTGAAGATATGATTCTTATCTTCCTAAGGTAGCAAGGAAAAAGACTGCAAATTATAGATCTTAT
131 GTTGAAGATACGAGCCTTAACCCCCTAAGGCAGCAAGGAAAAAGACTGAAAATTACAGATCTTAT
* ** * * ** * *
22027938 CTCCATGTATCGGCTATGGAACAGATTTTAGCCACTAGCCTTATCTCTTTGAGGTAGTAAGAGAG
196 CTCCATATATCGGCTATGGAACAGATTAAAACCACGAGCCTTATCTCCATGAGGCAATAAGAGAG
* *
22028003 TAGGTTGAGGATACGAGTCTTATCT-TCCTAAGGTAGCAAGGAAACAGATTG
261 TAGGTTAAGCATACGAGTCTTATCTCT-CTAAGGTAGCAAGGAAACAGATTG
* * * * *
22028054 CAAATTATAGATCTTATCTCTATGTATTGGCTATGAAGCT-GATC-GAAAATGGTGAGTCTTATC
1 CAAATTACAGATCTTATCTCCATGTATCGGATATGAAG-TAGATCAG-AAATGGCGAGTCTTATC
* * **
22028117 TCTATGTATC-AGCTATAGAGCATATTTAAGCTACCGGCCTTATCTCTCTAAGATAGCAAGAGAG
64 TCTATCTATCGA-CTATAGAGCAGATTTAAGCTACCAACCTTATCTCTCTAAGATAGCAAGAGAG
* * * * *
22028181 CAGGTTGAAGATGCGAGCCTTAACCCCCTAA-GCAGTAAGGTAACAGACTGAAAATTGCAGATCT
128 CAGGTTGAAGATACGAGCCTTAACCCCCTAAGGCAGCAAGGAAAAAGACTGAAAATTACAGATCT
*** *
22028245 TATCTCCATATATCGGCTATGGAACAGATTGAAAATGGCGAGTCTTATCTCCATGTATCGGCAAT
193 TATCTCCATATATCGGCTATGGAACAGATT-AAAACCACGAGCCTTATCTCCATG-A--GGCAAT
* * *
22028310 --G-GAGCAGATTTAAGCCAT-C-AGTCTTATCTCTCTGAGGTAGCAAG
254 AAGAGAGTAG-GTTAAG-CATACGAGTCTTATCTCTCTAAGGTAGCAAG
22028354 AGAGCAGGTT
Statistics
Matches: 244, Mismatches: 46, Indels: 20
0.79 0.15 0.06
Matches are distributed among these distances:
310 57 0.23
311 172 0.70
312 9 0.04
313 2 0.01
314 4 0.02
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.29
Consensus pattern (311 bp):
CAAATTACAGATCTTATCTCCATGTATCGGATATGAAGTAGATCAGAAATGGCGAGTCTTATCTC
TATCTATCGACTATAGAGCAGATTTAAGCTACCAACCTTATCTCTCTAAGATAGCAAGAGAGCAG
GTTGAAGATACGAGCCTTAACCCCCTAAGGCAGCAAGGAAAAAGACTGAAAATTACAGATCTTAT
CTCCATATATCGGCTATGGAACAGATTAAAACCACGAGCCTTATCTCCATGAGGCAATAAGAGAG
TAGGTTAAGCATACGAGTCTTATCTCTCTAAGGTAGCAAGGAAACAGATTG
Found at i:22030949 original size:126 final size:126
Alignment explanation
Indices: 22030721--22031028 Score: 343
Period size: 126 Copynumber: 2.5 Consensus size: 126
22030711 AACATAAGGA
* * * * * * * *
22030721 AATATTTCGTGTTTAGG-AGTTCGAGGGGTCGTGCCCAATCGTGCTGGGTTTCAATTTTTCGTTC
1 AATATTTCGTATTTTGGAAGTTCGAGAGATCGTACCCAATCGTGCTGGGTTTCGATTTTCCATTC
** * * ** *
22030785 AACTAAAATACGGAATATCCTTTGGAATTTTCGTCCATGCTTTT-TAAAATTAAAATGAGGC
66 AACTAAAATACAAAATATCATTTGGAAATTTCACCCATG-TTTTCTAAAATTAAAATGAAGC
* *
22030846 AATATTTCGTATTTTGGAAGTTTGAGAGATCGTACCCAGTCGTGCTGGGTTTCGATTTTCCATTC
1 AATATTTCGTATTTTGGAAGTTCGAGAGATCGTACCCAATCGTGCTGGGTTTCGATTTTCCATTC
* * *
22030911 GACTAAAATACAAAATATCATTTTGAAATTTCACCCATGTTTTCTTAAATTAAAATGAAGC
66 AACTAAAATACAAAATATCATTTGGAAATTTCACCCATGTTTTCTAAAATTAAAATGAAGC
* * * * * * *
22030972 AATGTTTCGTA-TTTGAAAATTCAATAAATCGTACCCAATTGTGCTGGGTTTCGATTT
1 AATATTTCGTATTTTGGAAGTTCGAGAGATCGTACCCAATCGTGCTGGGTTTCGATTT
22031029 ACCGTTGGCT
Statistics
Matches: 152, Mismatches: 29, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
125 57 0.38
126 95 0.62
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.38
Consensus pattern (126 bp):
AATATTTCGTATTTTGGAAGTTCGAGAGATCGTACCCAATCGTGCTGGGTTTCGATTTTCCATTC
AACTAAAATACAAAATATCATTTGGAAATTTCACCCATGTTTTCTAAAATTAAAATGAAGC
Found at i:22034432 original size:19 final size:19
Alignment explanation
Indices: 22034405--22034441 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
22034395 ATAATGCTAT
22034405 GAATAGAAATTTTGAGAGC
1 GAATAGAAATTTTGAGAGC
*
22034424 GAATGGAAATTTTGAGAG
1 GAATAGAAATTTTGAGAG
22034442 TTTCCATGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.41, C:0.03, G:0.30, T:0.27
Consensus pattern (19 bp):
GAATAGAAATTTTGAGAGC
Found at i:22035250 original size:75 final size:75
Alignment explanation
Indices: 22035155--22035328 Score: 267
Period size: 75 Copynumber: 2.3 Consensus size: 75
22035145 GCTGGCCACA
*
22035155 CAATCGTCGGTTAATCCGACTAGCACTGGGTGCAAATATTGTTGGTTTATCCAACTAGAGCTAGG
1 CAATCATCGGTTAATCCGACTAGCACTGGGTGCAAATATTGTTGGTTTATCCAACTAGAGCTAGG
22035220 CTCACAATTG
66 CTCACAATTG
* * *
22035230 CAATCATCGGTTAATTCGACTAGCATTGGGTGCAAATATTGTTGGTTTATCCAACTAGAGCTGGG
1 CAATCATCGGTTAATCCGACTAGCACTGGGTGCAAATATTGTTGGTTTATCCAACTAGAGCTAGG
*
22035295 CTCACAATTA
66 CTCACAATTG
** * *
22035305 TTACCATCAGTTAATCCGACTAGC
1 CAATCATCGGTTAATCCGACTAGC
22035329 GCTGAACGCA
Statistics
Matches: 89, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
75 89 1.00
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (75 bp):
CAATCATCGGTTAATCCGACTAGCACTGGGTGCAAATATTGTTGGTTTATCCAACTAGAGCTAGG
CTCACAATTG
Found at i:22041626 original size:20 final size:20
Alignment explanation
Indices: 22041601--22041640 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
22041591 TATATATTAG
22041601 ATAGTGGATGGTTTCAATCT
1 ATAGTGGATGGTTTCAATCT
22041621 ATAGTGGATGGTTTCAATCT
1 ATAGTGGATGGTTTCAATCT
22041641 CCTTTATTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.25, C:0.10, G:0.25, T:0.40
Consensus pattern (20 bp):
ATAGTGGATGGTTTCAATCT
Found at i:22043918 original size:50 final size:51
Alignment explanation
Indices: 22043840--22043968 Score: 181
Period size: 50 Copynumber: 2.5 Consensus size: 51
22043830 GACCATGGCA
* *
22043840 ACAAGTGATAAGTGATAGCTTCGACTACACTTATCTGATCAAGGAA-AAGTG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAA-GAACAAATG
*
22043891 A-AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATAACAAATG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGAACAAATG
* * *
22043941 ACAAGTGAAAAGTGGTAGCTTCAGCTAC
1 ACAAGTGATAAGTGATAGCTTCGGCTAC
22043969 CTGATCAGTG
Statistics
Matches: 70, Mismatches: 6, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
49 2 0.03
50 44 0.63
51 24 0.34
ACGTcount: A:0.37, C:0.16, G:0.21, T:0.26
Consensus pattern (51 bp):
ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGAACAAATG
Found at i:22043982 original size:31 final size:31
Alignment explanation
Indices: 22043944--22044123 Score: 272
Period size: 31 Copynumber: 5.8 Consensus size: 31
22043934 ACAAATGACA
22043944 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
* *
22043975 AGTGAAAAGTGGTAGCTTCTGCTAACTGATC
1 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
*
22044006 AGTGAAAAGTGGTAG-TTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTT-CAGCTACCTGATC
*
22044037 AGTGAAAAGTGGTAGCTCCAGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
* * *
22044068 AGTGAAAAATGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
*
22044099 AGTGAATAGTGGTAGCTTCAGCTAC
1 AGTGAAAAGTGGTAGCTTCAGCTAC
22044124 AAGTGACAAG
Statistics
Matches: 135, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
30 2 0.01
31 132 0.98
32 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.26
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
Found at i:22044211 original size:47 final size:46
Alignment explanation
Indices: 22044141--22044264 Score: 158
Period size: 47 Copynumber: 2.7 Consensus size: 46
22044131 AAGTGATTTC
* *
22044141 CGTATAAGACCATATCTGGGATATGACATCGGTGTGATATATGCTA
1 CGTATAAGACCATATCTGGGATATGACATCGGTGAGATATATGATA
* * *
22044187 CTGTATAAGACCATATCTGGGATATGACATCAGTGAGATATGTGATT
1 C-GTATAAGACCATATCTGGGATATGACATCGGTGAGATATATGATA
* * * *
22044234 CGTGTAAGACCATAGCTGGGCTATGGCATCG
1 CGTATAAGACCATATCTGGGATATGACATCG
22044265 ATATATGAAT
Statistics
Matches: 67, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
46 26 0.39
47 41 0.61
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (46 bp):
CGTATAAGACCATATCTGGGATATGACATCGGTGAGATATATGATA
Found at i:22044291 original size:42 final size:43
Alignment explanation
Indices: 22044235--22044349 Score: 162
Period size: 42 Copynumber: 2.7 Consensus size: 43
22044225 TATGTGATTC
*
22044235 GTGTAAGACCATAGCTGGGCTATGGCATCGA-TATATGAATAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
* *
22044277 GTGTAAGACCATAGCTGGGCTATGGCAT-TATTATGTGAAGAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
* **
22044319 GTGTAAGACCATAGTTGAACTATGGCATCGA
1 GTGTAAGACCATAGCTGGGCTATGGCATCGA
22044350 GAAAACGAAG
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
41 1 0.02
42 62 0.97
43 1 0.02
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.29
Consensus pattern (43 bp):
GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
Found at i:22046168 original size:75 final size:74
Alignment explanation
Indices: 22046063--22046221 Score: 248
Period size: 75 Copynumber: 2.1 Consensus size: 74
22046053 CGGTTAATTC
* *
22046063 GACTAGCACTGAGTGCAAATATTGTTGGTTTATCCAACTAGAGCTGGGCTCAAAATTACAATCGT
1 GACTAGCACTGAGTGCAAATATTGTTGGTTTATCCAACTAGAGCTAGGCTC-AAATTACAACCGT
22046128 CAG-TCAATCT
65 CAGAT-AATCT
* **
22046138 GACTAGCACTGGGTGCAAATATTGTTGGTTTATCCAACTAGAGCTAGGCTCAAATTATTACCGTC
1 GACTAGCACTGAGTGCAAATATTGTTGGTTTATCCAACTAGAGCTAGGCTCAAATTACAACCGTC
22046203 AGATAATCT
66 AGATAATCT
22046212 GACTAGCACT
1 GACTAGCACT
22046222 TGACACAACT
Statistics
Matches: 78, Mismatches: 5, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
74 28 0.36
75 50 0.64
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (74 bp):
GACTAGCACTGAGTGCAAATATTGTTGGTTTATCCAACTAGAGCTAGGCTCAAATTACAACCGTC
AGATAATCT
Found at i:22046648 original size:119 final size:119
Alignment explanation
Indices: 22046449--22046668 Score: 395
Period size: 119 Copynumber: 1.8 Consensus size: 119
22046439 ACTTTAGTGG
* * *
22046449 TTTTCTAATATCAAGTCAAATTCTAACTCGCGTTATTCCTTTATACCCCAATGAAACAACTTTCA
1 TTTTCGAATATCAAGTCAAACTCTAACTCGCATTATTCCTTTATACCCCAATGAAACAACTTTCA
*
22046514 CATCATACTTAAGGAACACCCCAATAAAATTACCTACTGCTCACACTTTAGCAA
66 CATCATACTCAAGGAACACCCCAATAAAATTACCTACTGCTCACACTTTAGCAA
*
22046568 TTTTCGAATATCAAGTCGAACTCTAACTCGCATTATTCCTTTATACCCCAATGAAACAACTTTCA
1 TTTTCGAATATCAAGTCAAACTCTAACTCGCATTATTCCTTTATACCCCAATGAAACAACTTTCA
22046633 CATCATACTCAAGGAACACCCCAATAAAATTACCTA
66 CATCATACTCAAGGAACACCCCAATAAAATTACCTA
22046669 GCTGTTTTGC
Statistics
Matches: 96, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
119 96 1.00
ACGTcount: A:0.36, C:0.27, G:0.07, T:0.30
Consensus pattern (119 bp):
TTTTCGAATATCAAGTCAAACTCTAACTCGCATTATTCCTTTATACCCCAATGAAACAACTTTCA
CATCATACTCAAGGAACACCCCAATAAAATTACCTACTGCTCACACTTTAGCAA
Found at i:22047173 original size:22 final size:22
Alignment explanation
Indices: 22047148--22047197 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
22047138 AAAAGAAAAA
* *
22047148 AAAGAAAAACGTGCTATAAAGC
1 AAAGAAAAACATGCTACAAAGC
* *
22047170 AAAGAAAAGCATGCTACAAAGT
1 AAAGAAAAACATGCTACAAAGC
22047192 AAAGAA
1 AAAGAA
22047198 TAAATTATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.58, C:0.12, G:0.18, T:0.12
Consensus pattern (22 bp):
AAAGAAAAACATGCTACAAAGC
Found at i:22051462 original size:15 final size:15
Alignment explanation
Indices: 22051442--22051493 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
22051432 ACTACAAAAC
22051442 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
22051457 ATTTATAATTGTAATAAAT
1 ATTTATTA-T-TAAT--AT
*
22051476 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
22051491 ATT
1 ATT
22051494 AATATTGAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 12 0.40
16 1 0.03
17 7 0.23
18 1 0.03
19 9 0.30
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:22051556 original size:16 final size:16
Alignment explanation
Indices: 22051525--22051561 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
22051515 ATGTGAATAA
22051525 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
22051541 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
22051557 TATTA
1 TATTA
22051562 AACTAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:22058204 original size:20 final size:19
Alignment explanation
Indices: 22058153--22058222 Score: 61
Period size: 21 Copynumber: 3.5 Consensus size: 19
22058143 TTGCTTTCAT
*
22058153 CATTATTATTAT-TACTAA
1 CATTTTTATTATATACTAA
*
22058171 CATTTATATATATATACTACA
1 CATTTTTAT-TATATACTA-A
*
22058192 TATTTTTATTATATTACGTATA
1 CATTTTTATTATA-TAC-TA-A
22058214 CATTTTTAT
1 CATTTTTAT
22058223 ATGTACACTA
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
18 7 0.17
19 3 0.07
20 9 0.22
21 11 0.27
22 11 0.27
ACGTcount: A:0.36, C:0.10, G:0.01, T:0.53
Consensus pattern (19 bp):
CATTTTTATTATATACTAA
Found at i:22058218 original size:22 final size:20
Alignment explanation
Indices: 22058155--22058222 Score: 66
Period size: 22 Copynumber: 3.2 Consensus size: 20
22058145 GCTTTCATCA
22058155 TTATTATTATTACTAACATTT
1 TTATTA-TATTACTAACATTT
* *
22058176 ATA-TATATATACTACATATTT
1 TTATTATAT-TACTA-ACATTT
22058197 TTATTATATTACGTATACATTT
1 TTATTATATTAC-TA-ACATTT
22058219 TTAT
1 TTAT
22058223 ATGTACACTA
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
19 3 0.08
20 7 0.18
21 12 0.32
22 16 0.42
ACGTcount: A:0.35, C:0.09, G:0.01, T:0.54
Consensus pattern (20 bp):
TTATTATATTACTAACATTT
Found at i:22064774 original size:21 final size:21
Alignment explanation
Indices: 22064748--22064788 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
22064738 ATCTGCTCAA
* *
22064748 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
22064769 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
22064789 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:22069676 original size:14 final size:14
Alignment explanation
Indices: 22069657--22069686 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
22069647 ACTACCATTT
22069657 TACTATTATGTTGC
1 TACTATTATGTTGC
*
22069671 TACTATTTTGTTGC
1 TACTATTATGTTGC
22069685 TA
1 TA
22069687 TTGTTTGGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.20, C:0.13, G:0.13, T:0.53
Consensus pattern (14 bp):
TACTATTATGTTGC
Found at i:22069902 original size:12 final size:12
Alignment explanation
Indices: 22069872--22069904 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
22069862 TATATATTTT
22069872 AAAATT-ATATA
1 AAAATTAATATA
22069883 AAAA-TAATATA
1 AAAATTAATATA
22069894 AAAATTAATAT
1 AAAATTAATAT
22069905 GAGCGGGCTG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 13 0.65
12 6 0.30
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AAAATTAATATA
Found at i:22070564 original size:23 final size:23
Alignment explanation
Indices: 22070538--22070612 Score: 123
Period size: 23 Copynumber: 3.3 Consensus size: 23
22070528 TGATTTTTAA
* *
22070538 ATTTTGAATTATTTACTGATAAT
1 ATTTAGAATTATTTAATGATAAT
*
22070561 ATTTAGAATTATTTAGTGATAAT
1 ATTTAGAATTATTTAATGATAAT
22070584 ATTTAGAATTATTTAATGATAAT
1 ATTTAGAATTATTTAATGATAAT
22070607 ATTTAG
1 ATTTAG
22070613 GAAAGTCTAA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 49 1.00
ACGTcount: A:0.39, C:0.01, G:0.11, T:0.49
Consensus pattern (23 bp):
ATTTAGAATTATTTAATGATAAT
Found at i:22070565 original size:13 final size:12
Alignment explanation
Indices: 22070547--22070611 Score: 57
Period size: 13 Copynumber: 5.5 Consensus size: 12
22070537 AATTTTGAAT
22070547 TATTTACTGATAA
1 TATTTA-TGATAA
*
22070560 TATTTA-GA-AT
1 TATTTATGATAA
22070570 TATTTAGTGATAA
1 TATTTA-TGATAA
*
22070583 TATTTA-GA-AT
1 TATTTATGATAA
22070593 TATTTAATGATAA
1 TATTT-ATGATAA
22070606 TATTTA
1 TATTTA
22070612 GGAAAGTCTA
Statistics
Matches: 42, Mismatches: 4, Indels: 13
0.71 0.07 0.22
Matches are distributed among these distances:
10 13 0.31
11 5 0.12
12 5 0.12
13 19 0.45
ACGTcount: A:0.40, C:0.02, G:0.09, T:0.49
Consensus pattern (12 bp):
TATTTATGATAA
Found at i:22073829 original size:23 final size:23
Alignment explanation
Indices: 22073785--22073830 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
22073775 AAAGGACAAG
*
22073785 ATGAGGGATGTGGACAATTTTCT
1 ATGAGGGATGTGAACAATTTTCT
*
22073808 ATGAGGGATG-GAACGATATTTCT
1 ATGAGGGATGTGAACAAT-TTTCT
22073831 GTGTGATGGG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 5 0.25
23 15 0.75
ACGTcount: A:0.28, C:0.09, G:0.30, T:0.33
Consensus pattern (23 bp):
ATGAGGGATGTGAACAATTTTCT
Found at i:22079727 original size:51 final size:51
Alignment explanation
Indices: 22079671--22079771 Score: 132
Period size: 51 Copynumber: 2.0 Consensus size: 51
22079661 ACCTCATTCA
* * *
22079671 TTTCAACATAATACAATTATATAATATGTAAAA-ATAATTAAAACGTAACAC
1 TTTCAACATAATACAATTACAAAATATGTAAAAGA-AATTAAAACATAACAC
* * *
22079722 TTTCAACCTAATATAATTACAAAATATGTAAAAGAAATTACAACATAACA
1 TTTCAACATAATACAATTACAAAATATGTAAAAGAAATTAAAACATAACA
22079772 TAAAAGAACA
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
51 42 0.98
52 1 0.02
ACGTcount: A:0.53, C:0.13, G:0.04, T:0.30
Consensus pattern (51 bp):
TTTCAACATAATACAATTACAAAATATGTAAAAGAAATTAAAACATAACAC
Found at i:22081920 original size:31 final size:31
Alignment explanation
Indices: 22081885--22081955 Score: 106
Period size: 31 Copynumber: 2.3 Consensus size: 31
22081875 GTATAAATTC
*
22081885 TTGGACAAGTTCATGTACCAACTAAGTACTT
1 TTGGACAAGTTCAAGTACCAACTAAGTACTT
**
22081916 TTGGATTAGTTCAAGTACCAACTAAGTACTT
1 TTGGACAAGTTCAAGTACCAACTAAGTACTT
*
22081947 CTGGACAAG
1 TTGGACAAG
22081956 CTAAAAGGGC
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.31
Consensus pattern (31 bp):
TTGGACAAGTTCAAGTACCAACTAAGTACTT
Found at i:22088183 original size:2 final size:2
Alignment explanation
Indices: 22088176--22088202 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
22088166 CTATTCTTAA
22088176 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 A
22088203 AACACTCAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:22099245 original size:11 final size:11
Alignment explanation
Indices: 22099229--22099254 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
22099219 ATTAAATATT
22099229 ATATTTTGGAA
1 ATATTTTGGAA
22099240 ATATTTTGGAA
1 ATATTTTGGAA
22099251 ATAT
1 ATAT
22099255 CCCCAAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.46
Consensus pattern (11 bp):
ATATTTTGGAA
Found at i:22099478 original size:18 final size:19
Alignment explanation
Indices: 22099455--22099494 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
22099445 TCCTTTGCTG
22099455 TGTTTTTAT-TGTCGCCGT
1 TGTTTTTATGTGTCGCCGT
*
22099473 TGTTTTTGTGGTGTCGCCGT
1 TGTTTTTAT-GTGTCGCCGT
22099493 TG
1 TG
22099495 CTATTGTGCC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 8 0.42
20 11 0.58
ACGTcount: A:0.03, C:0.15, G:0.30, T:0.53
Consensus pattern (19 bp):
TGTTTTTATGTGTCGCCGT
Found at i:22099501 original size:20 final size:20
Alignment explanation
Indices: 22099464--22099502 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
22099454 GTGTTTTTAT
* *
22099464 TGTCGCCGTTGTTTTTGTGG
1 TGTCGCCGTTGCTATTGTGG
22099484 TGTCGCCGTTGCTATTGTG
1 TGTCGCCGTTGCTATTGTG
22099503 CCCTCTTCTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.03, C:0.18, G:0.33, T:0.46
Consensus pattern (20 bp):
TGTCGCCGTTGCTATTGTGG
Found at i:22103176 original size:21 final size:21
Alignment explanation
Indices: 22103150--22103199 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
22103140 TCCAAATATG
22103150 GAATATTCGTAAGATTGTTGT
1 GAATATTCGTAAGATTGTTGT
22103171 GAATATTCGTAAGATTGTTGT
1 GAATATTCGTAAGATTGTTGT
*
22103192 AAATATTC
1 GAATATTC
22103200 ATCAATTTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.32, C:0.06, G:0.20, T:0.42
Consensus pattern (21 bp):
GAATATTCGTAAGATTGTTGT
Found at i:22103980 original size:23 final size:24
Alignment explanation
Indices: 22103935--22103981 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
22103925 TTTTTTTTTC
**
22103935 TTCCAATTAAACTTTATTTTTAGTT
1 TTCCAATTAAAC-TTATGATTAGTT
22103960 TTCCAATTAAA-TTATGATTAGT
1 TTCCAATTAAACTTATGATTAGT
22103982 GCAGATTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
25 11 0.55
ACGTcount: A:0.32, C:0.11, G:0.06, T:0.51
Consensus pattern (24 bp):
TTCCAATTAAACTTATGATTAGTT
Found at i:22107867 original size:19 final size:19
Alignment explanation
Indices: 22107843--22107880 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
22107833 TAGTATAATA
22107843 ATATGTTTTCCTAAAATGT
1 ATATGTTTTCCTAAAATGT
22107862 ATATGTTTTCCTAAAATGT
1 ATATGTTTTCCTAAAATGT
22107881 GGGCTTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.47
Consensus pattern (19 bp):
ATATGTTTTCCTAAAATGT
Found at i:22112222 original size:23 final size:23
Alignment explanation
Indices: 22112194--22112244 Score: 93
Period size: 23 Copynumber: 2.2 Consensus size: 23
22112184 CCACCTATTA
*
22112194 AAATAAAATTGGACCTATAGTTT
1 AAATAAAATTAGACCTATAGTTT
22112217 AAATAAAATTAGACCTATAGTTT
1 AAATAAAATTAGACCTATAGTTT
22112240 AAATA
1 AAATA
22112245 CTTTACAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.49, C:0.08, G:0.10, T:0.33
Consensus pattern (23 bp):
AAATAAAATTAGACCTATAGTTT
Found at i:22113430 original size:17 final size:19
Alignment explanation
Indices: 22113408--22113450 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
22113398 ATGGAAATAT
22113408 AATCTT-CA-ATGATATGC
1 AATCTTACATATGATATGC
*
22113425 AATCTTAGATATGATATGC
1 AATCTTACATATGATATGC
22113444 AATCTTA
1 AATCTTA
22113451 GAAGATATGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 6 0.26
18 1 0.04
19 16 0.70
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.37
Consensus pattern (19 bp):
AATCTTACATATGATATGC
Found at i:22113440 original size:19 final size:19
Alignment explanation
Indices: 22113416--22113452 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
22113406 ATAATCTTCA
22113416 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
22113435 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
22113453 AGATATGATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.35
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:22113478 original size:22 final size:22
Alignment explanation
Indices: 22113416--22113475 Score: 72
Period size: 19 Copynumber: 2.8 Consensus size: 22
22113406 ATAATCTTCA
22113416 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
22113435 ATGATATGCAATCTTAGAAGAT
1 ATGATATGCAATCTTAGAAGAT
* *
22113457 ATGATTTTGTAATCTTAGA
1 ATGA-TATGCAATCTTAGA
22113476 GATTTAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 15 0.43
22 8 0.23
23 12 0.34
ACGTcount: A:0.37, C:0.08, G:0.17, T:0.38
Consensus pattern (22 bp):
ATGATATGCAATCTTAGAAGAT
Found at i:22113766 original size:17 final size:17
Alignment explanation
Indices: 22113742--22113776 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
22113732 TGTTTCCCTG
*
22113742 ATTTTTTTATATATTTTA
1 ATTTTTTAATA-ATTTTA
22113760 ATTTTTTAATAATTTTA
1 ATTTTTTAATAATTTTA
22113777 GTATCATATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
ATTTTTTAATAATTTTA
Found at i:22121087 original size:12 final size:12
Alignment explanation
Indices: 22121066--22121096 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
22121056 TTTCAATTCA
22121066 TTAT-ATTCAAT
1 TTATCATTCAAT
22121077 TTATCATTCAAT
1 TTATCATTCAAT
22121089 TTATCATT
1 TTATCATT
22121097 TATTTATGAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 4 0.21
12 15 0.79
ACGTcount: A:0.32, C:0.13, G:0.00, T:0.55
Consensus pattern (12 bp):
TTATCATTCAAT
Found at i:22126531 original size:25 final size:25
Alignment explanation
Indices: 22126497--22126550 Score: 108
Period size: 25 Copynumber: 2.2 Consensus size: 25
22126487 TTACAAGTGA
22126497 ATAATCTCTCCAATGAATACCTAGG
1 ATAATCTCTCCAATGAATACCTAGG
22126522 ATAATCTCTCCAATGAATACCTAGG
1 ATAATCTCTCCAATGAATACCTAGG
22126547 ATAA
1 ATAA
22126551 CAAAGAAGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.39, C:0.22, G:0.11, T:0.28
Consensus pattern (25 bp):
ATAATCTCTCCAATGAATACCTAGG
Found at i:22146960 original size:7 final size:7
Alignment explanation
Indices: 22146948--22146982 Score: 61
Period size: 7 Copynumber: 4.9 Consensus size: 7
22146938 TATTTTTAAA
22146948 AAAATTT
1 AAAATTT
22146955 AAAATTT
1 AAAATTT
22146962 AAAATTT
1 AAAATTT
22146969 AAAATTT
1 AAAATTT
22146976 AATAATT
1 AA-AATT
22146983 AATAATTACT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 23 0.85
8 4 0.15
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (7 bp):
AAAATTT
Found at i:22148490 original size:13 final size:14
Alignment explanation
Indices: 22148469--22148524 Score: 57
Period size: 13 Copynumber: 4.3 Consensus size: 14
22148459 TCCAGGTTAG
22148469 ATAAAATAATTAAA
1 ATAAAATAATTAAA
*
22148483 AT-AAATAACTAAA
1 ATAAAATAATTAAA
*
22148496 GTAAAATAA-T-AA
1 ATAAAATAATTAAA
*
22148508 ATGAAAT-ATTAAA
1 ATAAAATAATTAAA
22148521 ATAA
1 ATAA
22148525 TAAGGAAGCA
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
11 1 0.03
12 8 0.24
13 17 0.50
14 8 0.24
ACGTcount: A:0.68, C:0.02, G:0.04, T:0.27
Consensus pattern (14 bp):
ATAAAATAATTAAA
Found at i:22148734 original size:26 final size:26
Alignment explanation
Indices: 22148705--22148754 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
22148695 AAAAATTGTT
*
22148705 AAAACTCTTCT-AAAAGAAACTCAAGA
1 AAAACTCTT-TAAAAAAAAACTCAAGA
*
22148731 AAAATTCTTTAAAAAAAAACTCAA
1 AAAACTCTTTAAAAAAAAACTCAA
22148755 AGAGAATTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 1 0.05
26 20 0.95
ACGTcount: A:0.58, C:0.16, G:0.04, T:0.22
Consensus pattern (26 bp):
AAAACTCTTTAAAAAAAAACTCAAGA
Found at i:22152923 original size:170 final size:170
Alignment explanation
Indices: 22152635--22152977 Score: 605
Period size: 170 Copynumber: 2.0 Consensus size: 170
22152625 TTGTTACTTT
*
22152635 AGGGTTGTATTTAGAGCTATTTTGAAACTGTATAAACTAGTTATTAGATTACCTGATGAGTCAAC
1 AGGGTAGTATTTAGAGCTATTTTGAAACTGTATAAACTAGTTATTAGATTACCTGATGAGTCAAC
*
22152700 TCCTAGTGAAATCAGAAACAATCCAATGTTTTATCCTTATTTTAAAGATTGTATTGGAGCATTAG
66 TCCTAGTGAAATCAGAAACAATCCAAGGTTTTATCCTTATTTTAAAGATTGTATTGGAGCATTAG
* *
22152765 ATGGAACTCATGTTTGTGCATCCGTTCCACTTAGCATTCA
131 ATGGAACTCATATTCGTGCATCCGTTCCACTTAGCATTCA
* *
22152805 AGGGTAGTATTTAGAGCTATTTTGAAATTGTATAAGCTAGTTATTAGATTACCTGATGAGTCAAC
1 AGGGTAGTATTTAGAGCTATTTTGAAACTGTATAAACTAGTTATTAGATTACCTGATGAGTCAAC
*
22152870 TCCTAGTGAAATCAGAAACAATCCAAGGTTTTATCTTTATTTTAAAGATTGTATTGGAGCATTAG
66 TCCTAGTGAAATCAGAAACAATCCAAGGTTTTATCCTTATTTTAAAGATTGTATTGGAGCATTAG
* *
22152935 ATGGATCTCATATTCGTGCATCTGTTCCACTTAGCATTCA
131 ATGGAACTCATATTCGTGCATCCGTTCCACTTAGCATTCA
22152975 AGG
1 AGG
22152978 AGGATTTCGT
Statistics
Matches: 164, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
170 164 1.00
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.36
Consensus pattern (170 bp):
AGGGTAGTATTTAGAGCTATTTTGAAACTGTATAAACTAGTTATTAGATTACCTGATGAGTCAAC
TCCTAGTGAAATCAGAAACAATCCAAGGTTTTATCCTTATTTTAAAGATTGTATTGGAGCATTAG
ATGGAACTCATATTCGTGCATCCGTTCCACTTAGCATTCA
Found at i:22155553 original size:26 final size:25
Alignment explanation
Indices: 22155489--22155553 Score: 67
Period size: 26 Copynumber: 2.5 Consensus size: 25
22155479 CAGGCGCGAC
* *
22155489 TATTTTTTTTATATTAAAAAATATAT
1 TATTTTTTTT-TTTTAAAAAAGATAT
* *
22155515 TTTTTTGTTTTTTTTAAATAAGATAT
1 TATTTT-TTTTTTTTAAAAAAGATAT
*
22155541 TATTTTTTATTTT
1 TATTTTTTTTTTT
22155554 CAGATCAGTA
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
25 6 0.19
26 22 0.69
27 4 0.12
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (25 bp):
TATTTTTTTTTTTTAAAAAAGATAT
Found at i:22155623 original size:27 final size:27
Alignment explanation
Indices: 22155593--22155690 Score: 124
Period size: 27 Copynumber: 3.6 Consensus size: 27
22155583 AATACGTTGC
* * *
22155593 GCCTATCTCTGAGGCACGACTAGTTGA
1 GCCTATCTCAGAGGCACGACTAATTGT
* **
22155620 GCCTTTCTCAGAGGCGTGACTAATTGT
1 GCCTATCTCAGAGGCACGACTAATTGT
*
22155647 GCCTATCTCAGAGGCGCGACTAATTGT
1 GCCTATCTCAGAGGCACGACTAATTGT
*
22155674 GCCTATCTCGGAGGCAC
1 GCCTATCTCAGAGGCAC
22155691 AAATGGTGGG
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 61 1.00
ACGTcount: A:0.20, C:0.27, G:0.27, T:0.27
Consensus pattern (27 bp):
GCCTATCTCAGAGGCACGACTAATTGT
Found at i:22156091 original size:19 final size:20
Alignment explanation
Indices: 22156067--22156112 Score: 85
Period size: 19 Copynumber: 2.4 Consensus size: 20
22156057 CATCCAAACA
22156067 CCAGAAAAGTAAATCA-TTT
1 CCAGAAAAGTAAATCATTTT
22156086 CCAGAAAAGTAAATCATTTT
1 CCAGAAAAGTAAATCATTTT
22156106 CCAGAAA
1 CCAGAAA
22156113 TGTGGGTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 16 0.62
20 10 0.38
ACGTcount: A:0.48, C:0.17, G:0.11, T:0.24
Consensus pattern (20 bp):
CCAGAAAAGTAAATCATTTT
Found at i:22156340 original size:30 final size:30
Alignment explanation
Indices: 22156306--22156398 Score: 77
Period size: 30 Copynumber: 3.1 Consensus size: 30
22156296 AATTACTAAT
*
22156306 AAATTAATTTTAAAATAATTACAAACACAA
1 AAATTAATTTTAAAATAATTACAAAAACAA
* *
22156336 AAATTAA---TAACATAATT-CTAAATTACTAA
1 AAATTAATTTTAAAATAATTAC-AAA-AAC-AA
* *
22156365 CAAATTAATTTTAAAATTATTATAAAAACAA
1 -AAATTAATTTTAAAATAATTACAAAAACAA
22156396 AAA
1 AAA
22156399 AAAACTACAT
Statistics
Matches: 49, Mismatches: 6, Indels: 16
0.69 0.08 0.23
Matches are distributed among these distances:
26 1 0.02
27 12 0.24
28 2 0.04
29 2 0.04
30 17 0.35
31 2 0.04
32 2 0.04
33 11 0.22
ACGTcount: A:0.59, C:0.09, G:0.00, T:0.32
Consensus pattern (30 bp):
AAATTAATTTTAAAATAATTACAAAAACAA
Found at i:22156361 original size:60 final size:60
Alignment explanation
Indices: 22156268--22156398 Score: 181
Period size: 60 Copynumber: 2.2 Consensus size: 60
22156258 ATACTAAACT
* * * * *
22156268 AAACGCAACAATTTATAACTTAATCCTAAATTACTAATAAATTAATTTTAAAATAATTAC
1 AAACACAAAAATTAATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTAC
* * *
22156328 AAACACAAAAATTAATAACATAATTCTAAATTACTAACAAATTAATTTTAAAATTATTAT
1 AAACACAAAAATTAATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTAC
*
22156388 AAAAACAAAAA
1 AAACACAAAAA
22156399 AAAACTACAT
Statistics
Matches: 62, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
60 62 1.00
ACGTcount: A:0.56, C:0.11, G:0.01, T:0.32
Consensus pattern (60 bp):
AAACACAAAAATTAATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTAC
Found at i:22157184 original size:25 final size:25
Alignment explanation
Indices: 22157154--22157203 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 25
22157144 AATAAAAATA
* *
22157154 AAAAAATAATATTTTATTTAAAAAACC
1 AAAAAA-AAT-TTTAATATAAAAAACC
22157181 AAAAAAAATTTTAATATAAAAAA
1 AAAAAAAATTTTAATATAAAAAA
22157204 AGTCGCGCCT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 12 0.57
26 3 0.14
27 6 0.29
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (25 bp):
AAAAAAAATTTTAATATAAAAAACC
Found at i:22159368 original size:16 final size:16
Alignment explanation
Indices: 22159348--22159416 Score: 111
Period size: 16 Copynumber: 4.3 Consensus size: 16
22159338 TTGGTTCGCT
* *
22159348 GTAATAGAATAGAGGT
1 GTAATGGAATAGAGGC
22159364 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
*
22159380 GTAATGGAATAGATGC
1 GTAATGGAATAGAGGC
22159396 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
22159412 GTAAT
1 GTAAT
22159417 AGGTAATTCT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.39, C:0.04, G:0.33, T:0.23
Consensus pattern (16 bp):
GTAATGGAATAGAGGC
Found at i:22159485 original size:44 final size:46
Alignment explanation
Indices: 22159396--22159486 Score: 159
Period size: 46 Copynumber: 2.0 Consensus size: 46
22159386 GAATAGATGC
*
22159396 GTAATGGAATAGAGGCGTAATAGGTAATTCTTTTGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTGAAT
22159442 GTAATGGAATAGAGGCGTAAT-GGT-ATTCTTGTGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTGAAT
22159486 G
1 G
22159487 GAATAGAGGT
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
44 20 0.45
45 3 0.07
46 21 0.48
ACGTcount: A:0.26, C:0.04, G:0.31, T:0.38
Consensus pattern (46 bp):
GTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTGAAT
Found at i:22159487 original size:39 final size:44
Alignment explanation
Indices: 22159396--22159502 Score: 143
Period size: 46 Copynumber: 2.5 Consensus size: 44
22159386 GAATAGATGC
*
22159396 GTAATGGAATAGAGGCGTAATAGGTAATTCTTTTGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTT--AT
22159442 GTAATGGAATAGAGGCGTAAT-GGT-ATTCTTGTGTTTGG-T-T
1 GTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTAT
*
22159482 G-AATGGAATAGAGGTGTAATA
1 GTAATGGAATAGAGGCGTAATA
22159503 ACATAAGGAA
Statistics
Matches: 58, Mismatches: 2, Indels: 8
0.85 0.03 0.12
Matches are distributed among these distances:
39 18 0.31
40 2 0.03
43 1 0.02
44 13 0.22
45 3 0.05
46 21 0.36
ACGTcount: A:0.29, C:0.04, G:0.31, T:0.36
Consensus pattern (44 bp):
GTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTAT
Found at i:22159655 original size:16 final size:15
Alignment explanation
Indices: 22159645--22159800 Score: 61
Period size: 17 Copynumber: 10.5 Consensus size: 15
22159635 CATAATTGTT
22159645 ATAAAATATAATTTA
1 ATAAAATATAATTTA
22159660 ATAAAATATATAATTTA
1 AT-AAA-ATATAATTTA
22159677 ATAAAAT-T--TTTA
1 ATAAAATATAATTTA
22159689 AT-AAATAT--TCTT-
1 ATAAAATATAAT-TTA
* * *
22159701 ATATGAAT-TTA-CTA
1 ATA-AAATATAATTTA
22159715 ATAAAATCATAATATATGA
1 ATAAAAT-ATAAT-T-T-A
22159734 TACTAAAATATAATTTA
1 -A-TAAAATATAATTTA
22159751 A-AATAAT-T-A-TT-
1 ATAA-AATATAATTTA
*
22159762 ATTAAATATAATTTA
1 ATAAAATATAATTTA
22159777 ATAAAATATATAATTTA
1 AT-AAA-ATATAATTTA
22159794 ATAAAAT
1 ATAAAAT
22159801 TGTTAATAAA
Statistics
Matches: 109, Mismatches: 7, Indels: 50
0.66 0.04 0.30
Matches are distributed among these distances:
11 8 0.07
12 14 0.13
13 9 0.08
14 12 0.11
15 13 0.12
16 12 0.11
17 25 0.23
18 2 0.02
19 2 0.02
20 6 0.06
21 6 0.06
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (15 bp):
ATAAAATATAATTTA
Found at i:22159690 original size:17 final size:17
Alignment explanation
Indices: 22159650--22159683 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
22159640 TTGTTATAAA
22159650 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
22159667 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
22159684 TTTTAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:22159807 original size:17 final size:17
Alignment explanation
Indices: 22159767--22159800 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
22159757 TTATTATTAA
22159767 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
22159784 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
22159801 TGTTAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:22159836 original size:117 final size:117
Alignment explanation
Indices: 22159630--22160119 Score: 795
Period size: 117 Copynumber: 4.3 Consensus size: 117
22159620 TTAATCATAT
* * * *
22159630 TTTAACATAATTGTTATAAAATATAATTTAATAAAATATATAATTTAATAAAATTTTTAATAAAT
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAATATATAATTTAATAAAATTGTTAATAAAT
*
22159695 ATTCTTATATGAATTTACTAATAAAATCATAATATATGATACTAAAATATAA
66 ATTCTTATATGAATTTACTAATAAAATCATAATATATAATACTAAAATATAA
22159747 TTTAAAATAATTATTATTAAATATAATTTAATAAAATATATAATTTAATAAAATTGTTAATAAAT
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAATATATAATTTAATAAAATTGTTAATAAAT
22159812 ATTCTTATATGAATTTACTAATAAAATCATAATATATAATACTAAAATATAA
66 ATTCTTATATGAATTTACTAATAAAATCATAATATATAATACTAAAATATAA
* * *
22159864 TTTAACATAATTGTTATAAAATATAATTTAATAAAATATATAATTTAATAAAATTGTTAATAAAT
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAATATATAATTTAATAAAATTGTTAATAAAT
22159929 ATTCTTATATGAATTTACTAATAAAATCATAATATATAATACTAAAATATAA
66 ATTCTTATATGAATTTACTAATAAAATCATAATATATAATACTAAAATATAA
*
22159981 TTTAAAATAATTATTATTAAATATAATTTAATAATAATATATAATTTAATAAAA---TT-CT---
1 TTTAAAATAATTATTATTAAATATAATTTAATAA-AATATATAATTTAATAAAATTGTTAATAAA
22160039 TATTCTTATATGAATTTAC---TAAAATCATAATATATAATACTATAAAATATAA
65 TATTCTTATATGAATTTACTAATAAAATCATAATATATAATAC--TAAAATATAA
22160091 TTT-AAATAATTATTATTAAATATAATTTA
1 TTTAAAATAATTATTATTAAATATAATTTA
22160120 TAATCTACTT
Statistics
Matches: 358, Mismatches: 12, Indels: 14
0.93 0.03 0.04
Matches are distributed among these distances:
108 21 0.06
109 26 0.07
110 13 0.04
111 19 0.05
114 1 0.00
115 2 0.01
117 257 0.72
118 19 0.05
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.43
Consensus pattern (117 bp):
TTTAAAATAATTATTATTAAATATAATTTAATAAAATATATAATTTAATAAAATTGTTAATAAAT
ATTCTTATATGAATTTACTAATAAAATCATAATATATAATACTAAAATATAA
Found at i:22159899 original size:15 final size:15
Alignment explanation
Indices: 22159879--22159917 Score: 60
Period size: 17 Copynumber: 2.5 Consensus size: 15
22159869 CATAATTGTT
22159879 ATAAAATATAATTTA
1 ATAAAATATAATTTA
22159894 ATAAAATATATAATTTA
1 AT-AAA-ATATAATTTA
22159911 ATAAAAT
1 ATAAAAT
22159918 TGTTAATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 4 0.18
16 6 0.27
17 12 0.55
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
ATAAAATATAATTTA
Found at i:22159924 original size:17 final size:17
Alignment explanation
Indices: 22159884--22159917 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
22159874 TTGTTATAAA
22159884 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
22159901 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
22159918 TGTTAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:22159989 original size:20 final size:21
Alignment explanation
Indices: 22159950--22159989 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
22159940 AATTTACTAA
*
22159950 TAAAATCATAATATATAATAC
1 TAAAATCATAATATAAAATAC
*
22159971 TAAAAT-ATAATTTAAAATA
1 TAAAATCATAATATAAAATA
22159990 ATTATTATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (21 bp):
TAAAATCATAATATAAAATAC
Found at i:22160002 original size:26 final size:28
Alignment explanation
Indices: 22159957--22160036 Score: 92
Period size: 28 Copynumber: 2.8 Consensus size: 28
22159947 TAATAAAATC
22159957 ATAATATATAATACTAAAATATAATTTAA-A
1 ATAATATATAAT--T-AAATATAATTTAATA
*
22159987 ATAAT-TATTATTAAATATAATTTAATA
1 ATAATATATAATTAAATATAATTTAATA
* *
22160014 ATAATATATAATTTAATAAAATT
1 ATAATATATAATTAAATATAATT
22160037 CTTATTCTTA
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
26 13 0.30
27 7 0.16
28 14 0.32
29 5 0.11
30 5 0.11
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.42
Consensus pattern (28 bp):
ATAATATATAATTAAATATAATTTAATA
Found at i:22160069 original size:44 final size:41
Alignment explanation
Indices: 22159734--22160069 Score: 137
Period size: 43 Copynumber: 8.3 Consensus size: 41
22159724 TAATATATGA
22159734 TACTAAAATATAATTTAAAATAATTATTATTAAATATAATT
1 TACTAAAATATAATTTAAAATAATTATTATTAAATATAATT
* * *
22159775 TAATAAAATATATAATTTAATAA-AATTGTTAATAAATAT--TCT
1 TACT-AAA-ATATAATTTAA-AATAATTATTATTAAATATAAT-T
* * * *
22159817 TA-T---AT-GAATTTACTAATAA-AATCA-TAATATATAA--
1 TACTAAAATATAATTTA-AAATAATTATTATTAA-ATATAATT
* * *
22159851 TACTAAAATATAATTTAACATAATTGTTATAAAATATAATT
1 TACTAAAATATAATTTAAAATAATTATTATTAAATATAATT
* * *
22159892 TAATAAAATATATAATTTAATAA-AATTGTTAATAAATAT--TCT
1 TACT-AAA-ATATAATTTAA-AATAATTATTATTAAATATAAT-T
* * * *
22159934 TA-T---AT-GAATTTACTAATAA-AATCA-TAATATATAA--
1 TACTAAAATATAATTTA-AAATAATTATTATTAA-ATATAATT
22159968 TACTAAAATATAATTTAAAATAATTATTATTAAATATAATT
1 TACTAAAATATAATTTAAAATAATTATTATTAAATATAATT
* * **
22160009 TAATAATAATATATAATTTAATAA-AATTCTTATTCTTATATGAATT
1 TACT-A-AA-ATATAATTTAA-AATAATTATTATT-AAATAT-AATT
22160055 TACTAAAATCATAAT
1 TACTAAAAT-ATAAT
22160070 ATATAATACT
Statistics
Matches: 219, Mismatches: 33, Indels: 83
0.65 0.10 0.25
Matches are distributed among these distances:
34 10 0.05
35 30 0.14
36 8 0.04
38 13 0.06
39 29 0.13
40 5 0.02
41 13 0.06
42 13 0.06
43 54 0.25
44 30 0.14
45 7 0.03
46 7 0.03
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (41 bp):
TACTAAAATATAATTTAAAATAATTATTATTAAATATAATT
Found at i:22160115 original size:32 final size:32
Alignment explanation
Indices: 22160079--22160142 Score: 74
Period size: 32 Copynumber: 2.0 Consensus size: 32
22160069 TATATAATAC
*
22160079 TATAAAATATAATTTAAATAATTATTATTAAA
1 TATAAAATATAATCTAAATAATTATTATTAAA
** ** *
22160111 TATAATTTATAATCTACTTTATTATTATTAAA
1 TATAAAATATAATCTAAATAATTATTATTAAA
22160143 CTGCAATACA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (32 bp):
TATAAAATATAATCTAAATAATTATTATTAAA
Found at i:22163634 original size:54 final size:54
Alignment explanation
Indices: 22163522--22163670 Score: 165
Period size: 54 Copynumber: 2.8 Consensus size: 54
22163512 TGGTTTGTTG
* * * * *
22163522 ATTTACAATCACAACCTTGCACTTCCATGATTATTAGAATCTTGAGGTTCGCCG
1 ATTTACAATCGCAACCTTGCACTTCCAAGATTTTTAGAATCTTGAGGTTCACCA
* * * * *
22163576 ATTTACAATTGCAACCTTGCACTTCTAAGTTTTTTAGAATCTTTTA-GTTCACTA
1 ATTTACAATCGCAACCTTGCACTTCCAAGATTTTTAGAATC-TTGAGGTTCACCA
* * *
22163630 ATTTACGATCGTAACCTTGCTCTTCCAAGATTTTTAGAATC
1 ATTTACAATCGCAACCTTGCACTTCCAAGATTTTTAGAATC
22163671 CTATGATTTG
Statistics
Matches: 78, Mismatches: 16, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
54 75 0.96
55 3 0.04
ACGTcount: A:0.28, C:0.21, G:0.12, T:0.39
Consensus pattern (54 bp):
ATTTACAATCGCAACCTTGCACTTCCAAGATTTTTAGAATCTTGAGGTTCACCA
Found at i:22165460 original size:10 final size:10
Alignment explanation
Indices: 22165447--22165493 Score: 60
Period size: 10 Copynumber: 4.7 Consensus size: 10
22165437 TTATTTTCAT
22165447 TTATCTTTAA
1 TTATCTTTAA
22165457 TTATCTTTAA
1 TTATCTTTAA
*
22165467 TTATCTTTAT
1 TTATCTTTAA
*
22165477 TTAT-TTATAT
1 TTATCTT-TAA
22165487 TTATCTT
1 TTATCTT
22165494 ATAGAATTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
9 2 0.06
10 30 0.88
11 2 0.06
ACGTcount: A:0.26, C:0.09, G:0.00, T:0.66
Consensus pattern (10 bp):
TTATCTTTAA
Found at i:22166254 original size:39 final size:39
Alignment explanation
Indices: 22166195--22166287 Score: 109
Period size: 39 Copynumber: 2.4 Consensus size: 39
22166185 ACTTTATTTA
*
22166195 TTTTTATTAT-TTTTAATTTTAGCAATTCCA-ATCAAAAC
1 TTTTTATTATGTTTTTATTTTA-CAATTCCAGATCAAAAC
* ***
22166233 TTTTAATTATGTTTTTATTTTATTTTTCCAGATCAAAAC
1 TTTTTATTATGTTTTTATTTTACAATTCCAGATCAAAAC
*
22166272 TTTTTATTCTGTTTTT
1 TTTTTATTATGTTTTT
22166288 TTTATTTCTT
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
38 14 0.30
39 32 0.70
ACGTcount: A:0.27, C:0.11, G:0.04, T:0.58
Consensus pattern (39 bp):
TTTTTATTATGTTTTTATTTTACAATTCCAGATCAAAAC
Found at i:22166303 original size:40 final size:39
Alignment explanation
Indices: 22166220--22166294 Score: 111
Period size: 39 Copynumber: 2.0 Consensus size: 39
22166210 ATTTTAGCAA
22166220 TTCCA-ATCAAAACTTTTAATTATGTTTTTATTTTATTT
1 TTCCAGATCAAAACTTTTAATTATGTTTTTATTTTATTT
* *
22166258 TTCCAGATCAAAACTTTTTATTCTG-TTTT-TTTTATTT
1 TTCCAGATCAAAACTTTTAATTATGTTTTTATTTTATTT
22166295 CTTTTCCAGG
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
37 8 0.24
38 9 0.26
39 17 0.50
ACGTcount: A:0.25, C:0.12, G:0.04, T:0.59
Consensus pattern (39 bp):
TTCCAGATCAAAACTTTTAATTATGTTTTTATTTTATTT
Found at i:22171104 original size:120 final size:120
Alignment explanation
Indices: 22170889--22171727 Score: 1335
Period size: 120 Copynumber: 7.0 Consensus size: 120
22170879 TTTGAGTCCG
* * ** * * * **
22170889 TTTGAGAACATCTGAGAGTCAAATCTACTATTTCCTTAATTTGTTTTTTGTAAACATAAGATTGT
1 TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATAC
* *
22170954 CAAATCATCTTGGATCTTGCTTCAGTATAAACCTCTGAAGGCTAGATCTGCCATG
66 CAAATCATCTTGGATCTTGCTTCAGTATAAACATCTGAAGGCTAGATCTGCCATA
* * * *
22171009 TCTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTTGATTT-TTTCCTTGTAAACATAAGAATG
1 TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTT-CTTGTAAACACAAGAATA
* * * *
22171073 TCAAATCATCTTGGATCTTGCTTCAGTATAAACCTCTGAAGGCTAGATCTACCATG
65 CCAAATCATCTTGGATCTTGCTTCAGTATAAACATCTGAAGGCTAGATCTGCCATA
* * * *
22171129 TCTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTTGATTTGTTCCTTGTAAACACAAGAATAT
1 TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATAC
*
22171194 CAAATCATCTTGGATCTTGCTTCAGTATAAACATCTGAAGGCTAGATCTGCCATG
66 CAAATCATCTTGGATCTTGCTTCAGTATAAACATCTGAAGGCTAGATCTGCCATA
*
22171249 TTTGAGAACATCTGAGAGTCAAATCTGCTATGTTCTCGATTTG-TTCTTGTAAACACAAGAATAC
1 TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATAC
* *
22171313 CAAATCATCTTGGATC-TGCTTCAGTATAAACATCTGAAAGCTAGATCTGCTATA
66 CAAATCATCTTGGATCTTGCTTCAGTATAAACATCTGAAGGCTAGATCTGCCATA
22171367 TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATAC
1 TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATAC
* *
22171432 CAAATCATCTTGGATCTTGCTTCAGTATAAACATCTGAAAGCTAGATCTGCTATA
66 CAAATCATCTTGGATCTTGCTTCAGTATAAACATCTGAAGGCTAGATCTGCCATA
22171487 TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATAC
1 TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATAC
*
22171552 CAAATCATCTTGGATCTTGCTTCAGTATAAACATCTGAAGGCTAGATCTGCTATA
66 CAAATCATCTTGGATCTTGCTTCAGTATAAACATCTGAAGGCTAGATCTGCCATA
* *
22171607 TTTGAGAACATCTAAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTATAAACACAAGAATAC
1 TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATAC
* *
22171672 CAAATCATCTTGGATC-TGCTTCAGTGTAAACATCTGAAGGCTAGATCTGCTATA
66 CAAATCATCTTGGATCTTGCTTCAGTATAAACATCTGAAGGCTAGATCTGCCATA
22171726 TT
1 TT
22171728 GCGACCTATT
Statistics
Matches: 690, Mismatches: 25, Indels: 9
0.95 0.03 0.01
Matches are distributed among these distances:
118 77 0.11
119 114 0.17
120 497 0.72
121 2 0.00
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.34
Consensus pattern (120 bp):
TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATAC
CAAATCATCTTGGATCTTGCTTCAGTATAAACATCTGAAGGCTAGATCTGCCATA
Found at i:22171628 original size:358 final size:359
Alignment explanation
Indices: 22170889--22171727 Score: 1342
Period size: 358 Copynumber: 2.3 Consensus size: 359
22170879 TTTGAGTCCG
* ** * * * *
22170889 TTTGAGAACATCTGAGAGTCAAATCTACTAT-TTCCTTAATTTGTTTTTTGTAAACATAAGATTG
1 TTTGAGAACATCTGAGAGTCAAATCTGCTATGTT-CTCGATTTGTTTCTTGTAAACACAAGAATA
* * * * *
22170953 TCAAATCATCTTGGATCTTGCTTCAGTATAAACCTCTGAAGGCTAGATCTGCCATGTCTGAGAAC
65 CCAAATCATCTTGGATC-TGCTTCAGTATAAACATCTGAAGGCTAGATCTGCTATATTTGAGAAC
* * **
22171018 ATCTGAGAGTCAAATCTGCTATGTCCTTGATTTTTTCCTTGTAAACATAAGAATGTCAAATCATC
129 ATCTGAGAGTCAAATCTGCTATGTCCTCGATTTTTTCCTTGTAAACACAAGAATACCAAATCATC
* * *
22171083 TTGGATCTTGCTTCAGTATAAACCTCTGAAGGCTAGATCTACCATGTCTGAGAACATCTGAGAGT
194 TTGGATCTTGCTTCAGTATAAACATCTGAAAGCTAGATCTACCATATCTGAGAACATCTGAGAGT
* *
22171148 CAAATCTGCTATGTCCTTGATTTGTTCCTTGTAAACACAAGAATATCAAATCATCTTGGATCTTG
259 CAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATACCAAATCATCTTGGATCTTG
*
22171213 CTTCAGTATAAACATCTGAAGGCTAGATCTGCCATG
324 CTTCAGTATAAACATCTGAAGGCTAGATCTGCCATA
22171249 TTTGAGAACATCTGAGAGTCAAATCTGCTATGTTCTCGATTTG-TTCTTGTAAACACAAGAATAC
1 TTTGAGAACATCTGAGAGTCAAATCTGCTATGTTCTCGATTTGTTTCTTGTAAACACAAGAATAC
*
22171313 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAAGCTAGATCTGCTATATTTGAGAACAT
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGCTAGATCTGCTATATTTGAGAACAT
22171378 CTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTT-CTTGTAAACACAAGAATACCAAATCATCT
131 CTGAGAGTCAAATCTGCTATGTCCTCGATTT-TTTCCTTGTAAACACAAGAATACCAAATCATCT
* * *
22171442 TGGATCTTGCTTCAGTATAAACATCTGAAAGCTAGATCTGCTATATTTGAGAACATCTGAGAGTC
195 TGGATCTTGCTTCAGTATAAACATCTGAAAGCTAGATCTACCATATCTGAGAACATCTGAGAGTC
*
22171507 AAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATACCAAATCATCTTGGATCTTGC
260 AAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATACCAAATCATCTTGGATCTTGC
*
22171572 TTCAGTATAAACATCTGAAGGCTAGATCTGCTATA
325 TTCAGTATAAACATCTGAAGGCTAGATCTGCCATA
* * *
22171607 TTTGAGAACATCTAAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTATAAACACAAGAATAC
1 TTTGAGAACATCTGAGAGTCAAATCTGCTATGTTCTCGATTTGTTTCTTGTAAACACAAGAATAC
*
22171672 CAAATCATCTTGGATCTGCTTCAGTGTAAACATCTGAAGGCTAGATCTGCTATATT
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGCTAGATCTGCTATATT
22171728 GCGACCTATT
Statistics
Matches: 443, Mismatches: 33, Indels: 7
0.92 0.07 0.01
Matches are distributed among these distances:
358 295 0.67
359 109 0.25
360 37 0.08
361 2 0.00
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.34
Consensus pattern (359 bp):
TTTGAGAACATCTGAGAGTCAAATCTGCTATGTTCTCGATTTGTTTCTTGTAAACACAAGAATAC
CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGCTAGATCTGCTATATTTGAGAACAT
CTGAGAGTCAAATCTGCTATGTCCTCGATTTTTTCCTTGTAAACACAAGAATACCAAATCATCTT
GGATCTTGCTTCAGTATAAACATCTGAAAGCTAGATCTACCATATCTGAGAACATCTGAGAGTCA
AATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATACCAAATCATCTTGGATCTTGCT
TCAGTATAAACATCTGAAGGCTAGATCTGCCATA
Found at i:22181979 original size:13 final size:13
Alignment explanation
Indices: 22181961--22181986 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
22181951 AGATAGTCAG
22181961 TATCACATGATAT
1 TATCACATGATAT
22181974 TATCACATGATAT
1 TATCACATGATAT
22181987 CAATAAATAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.38
Consensus pattern (13 bp):
TATCACATGATAT
Found at i:22183811 original size:36 final size:36
Alignment explanation
Indices: 22183745--22183823 Score: 90
Period size: 36 Copynumber: 2.2 Consensus size: 36
22183735 AAATTTTAAA
* **
22183745 TAATATATATGATATAAACATAAATAATATAATTGG
1 TAATATATATGATACAAACATAAATAATATAAAAGG
*
22183781 TAATATATGA-GATACATAACATATAT-ATATAAAAGG
1 TAATATAT-ATGATACA-AACATAAATAATATAAAAGG
22183817 TAATATA
1 TAATATA
22183824 GAATAAAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
36 28 0.76
37 9 0.24
ACGTcount: A:0.53, C:0.04, G:0.09, T:0.34
Consensus pattern (36 bp):
TAATATATATGATACAAACATAAATAATATAAAAGG
Found at i:22189895 original size:7 final size:7
Alignment explanation
Indices: 22189882--22189938 Score: 62
Period size: 7 Copynumber: 7.6 Consensus size: 7
22189872 ATTTTTTTCT
22189882 TTTATTA
1 TTTATTA
22189889 TTTATTA
1 TTTATTA
22189896 TATTA-TA
1 T-TTATTA
22189903 TTATATTATA
1 TT-TA-T-TA
22189913 TTATATTA
1 TT-TATTA
22189921 TTTATTA
1 TTTATTA
22189928 TTTATTA
1 TTTATTA
22189935 TTTA
1 TTTA
22189939 CTCTTTTTTG
Statistics
Matches: 45, Mismatches: 0, Indels: 10
0.82 0.00 0.18
Matches are distributed among these distances:
6 1 0.02
7 29 0.64
8 7 0.16
9 1 0.02
10 7 0.16
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (7 bp):
TTTATTA
Found at i:22189904 original size:10 final size:10
Alignment explanation
Indices: 22189887--22189935 Score: 68
Period size: 10 Copynumber: 5.1 Consensus size: 10
22189877 TTTCTTTTAT
22189887 TATT-TATTA
1 TATTATATTA
22189896 TATTATATTA
1 TATTATATTA
22189906 TATTATATTA
1 TATTATATTA
22189916 TATTAT-TTA
1 TATTATATTA
22189925 TTATT-TATTA
1 -TATTATATTA
22189935 T
1 T
22189936 TTACTCTTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
9 9 0.24
10 28 0.76
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (10 bp):
TATTATATTA
Found at i:22191998 original size:96 final size:96
Alignment explanation
Indices: 22191834--22192031 Score: 308
Period size: 96 Copynumber: 2.1 Consensus size: 96
22191824 TTTTTAAGAA
* * *
22191834 TGTGTTGGGTTGAGTAACTGGGGTGAGGTGCTTGGCTGTCATCTCTTTTCGCTTCAAAAGGTTCG
1 TGTGTTGGGCTAAGTAACTGGGGTGAGGTGCTTGGCTGTCATCTCTTTTCACTTCAAAAGGTTCG
*
22191899 ATATGTTCTTAAGAAAAATAAAAATTAGGAG
66 ATATGTTCTCAAGAAAAATAAAAATTAGGAG
* * * *
22191930 TGTGTTGGGCTAAGTAACTGGGGTGGGGTTCTTGGCTGTCAT-TTTTCTTCATTTCAAAAGGTTC
1 TGTGTTGGGCTAAGTAACTGGGGTGAGGTGCTTGGCTGTCATCTCTT-TTCACTTCAAAAGGTTC
22191994 GATATGTTCTCAAGAAAAATAAAAATTAGGAG
65 GATATGTTCTCAAGAAAAATAAAAATTAGGAG
22192026 TGTGTT
1 TGTGTT
22192032 CGATATATTC
Statistics
Matches: 93, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
95 3 0.03
96 90 0.97
ACGTcount: A:0.26, C:0.11, G:0.27, T:0.36
Consensus pattern (96 bp):
TGTGTTGGGCTAAGTAACTGGGGTGAGGTGCTTGGCTGTCATCTCTTTTCACTTCAAAAGGTTCG
ATATGTTCTCAAGAAAAATAAAAATTAGGAG
Found at i:22192703 original size:10 final size:10
Alignment explanation
Indices: 22192688--22192736 Score: 57
Period size: 10 Copynumber: 4.9 Consensus size: 10
22192678 TAATTTTAAG
22192688 ATTTAT-TTT
1 ATTTATCTTT
22192697 CATTTATCTTT
1 -ATTTATCTTT
*
22192708 AATTATCTTT
1 ATTTATCTTT
22192718 ATTTAT-TTGT
1 ATTTATCTT-T
22192728 ATTTATCTT
1 ATTTATCTT
22192737 ATAGAATTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
9 2 0.06
10 27 0.79
11 5 0.15
ACGTcount: A:0.22, C:0.08, G:0.02, T:0.67
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:22197666 original size:594 final size:593
Alignment explanation
Indices: 22196538--22198322 Score: 2991
Period size: 595 Copynumber: 3.0 Consensus size: 593
22196528 TGGCCTAACC
* *
22196538 ACGGCCTCTCGAAAGCTGCTCAGTGGTGGTGCAATACCAGTACCCAGGACTTGCATCTTGTCGGA
1 ACGGCCTCTCGAAGGCTGCTCAGTGGTGGTGCAATACCAGTACCCAGGGCTTGCATCTTGTCGGA
22196603 CCTCCGCGGATAATCCCTAATACGGTGCCCTAATGAACCGCACTTCAAACCAACCCTAGTTCTTT
66 CCTCCGCGGATAATCCCTAATACGGTGCCCTAATGAACCGCACTTCAAACCAACCCTAGTTCTTT
* *
22196668 TCCAACACTCGCCCTGATGGCGTCTACCACAGTCAGTACACGGCGGCTGTCCAGCAGCAGCTATA
131 TCCAACACTCGCCCTGATGGCATCTACCACAGTCAGTACACAGCGGCTGTCCAGCAGCAGCTATA
* * *
22196733 TGA-CCCTTAACTTTGATCGGCCTATCCGCTCTGGCCTTTTTTTTAAGCCTCTAAATAGAACTCG
196 GGAGCCC-TAACTCTGATCGGCCTATCCGCTCTGGCCTTTTTCTTAAGCCTCTAAATAGAACTCG
* * * * *
22196797 AGGGCTCTGAATCCCTCTTGCTCTTACCTCTTTCCCAGTTTTGGAGCTCAGCGCACTTTACTTCC
260 AGGGCTCCGAATCCCTCTTGCTCTTACCTCTTTCCGA-TTCTGGAGCTCAGCGCGCTTCACTTCC
* * *
22196862 TCGGTGATCTTCATCCTATCAACCAGTGCAGTAAAGTCTCGCTCCCTCTATGGAGCCATCAAAAC
324 TCGGTGATCTTCATCTTATCAACCAGTGCAGTAAAGTCTCGCTCCCTCTGTGGAGCTATCAAAAC
*
22196927 CCTCAGATTATCCTTGAGGCCATCCTCGAAGTTAACACATCGCTCGTACTCAGTCGCCATCATAC
389 CCTCAGATTATCCTTGAGGCCATCCTCGAAGTGAACACATCGCTCGTACTCAGTCGCCATCATAC
* **
22196992 TTCGCATATAGCGGCT-AAGTCTTAGAAATTCAGCCTCATTCTCGACCACTGATCTATCACCCTG
454 CTCGCGCATAGCGGCTCAA-TCTTAGAAATTCAGCCTCATTCTCGACCACTGATCTATCACCCTG
*
22197056 GGTCAAATTTAGAAACTCTCTCCTACGAGCATCCACATAATTGGCCCCCCATACTTCCCCTGGAA
518 GGTCAAATTTAGAAACTCTCTCCTACGGGCATCCACATAATTGGCCCCCCATACTTCCCCTGGAA
22197121 AGCAATCTTAA
583 AGCAATCTTAA
22197132 ACGGCCTCTCGAAGGCTGCTCAGTGGTGGTGCAATACCAGTACCCAGGGCTTGCATCTTGTCGGA
1 ACGGCCTCTCGAAGGCTGCTCAGTGGTGGTGCAATACCAGTACCCAGGGCTTGCATCTTGTCGGA
*
22197197 CCTCCGCGGATAATCCCTAATACGGTGCCCTAATGAACCGCACTTCAAACCAACCCTAGTTCTTC
66 CCTCCGCGGATAATCCCTAATACGGTGCCCTAATGAACCGCACTTCAAACCAACCCTAGTTCTTT
* * *
22197262 TCCAACACTCCCCCTGATGGCATCTACCACAGTCAGTACACAACGGCTATCCAGCAGCAGCTATA
131 TCCAACACTCGCCCTGATGGCATCTACCACAGTCAGTACACAGCGGCTGTCCAGCAGCAGCTATA
22197327 GGAGCCCTAACTCTGATCGGCCTATCCGCTCTGGCCTTTTTCTTAAGCCTCTAAATAGAACTCGA
196 GGAGCCCTAACTCTGATCGGCCTATCCGCTCTGGCCTTTTTCTTAAGCCTCTAAATAGAACTCGA
* *
22197392 GGGCTCCGAATCCCTTTTGCTCTTACCTCTTTTTCGATTCTGGAGCTCAGCGCGCTTCACTTCCT
261 GGGCTCCGAATCCCTCTTGCTCTTACCTC-TTTCCGATTCTGGAGCTCAGCGCGCTTCACTTCCT
*
22197457 CGGTGATCTTCATCTTATCAACCAGTCCAGTAAAGTCTCGCTCCCTCTGTGGAGCTATCAAAACC
325 CGGTGATCTTCATCTTATCAACCAGTGCAGTAAAGTCTCGCTCCCTCTGTGGAGCTATCAAAACC
* *
22197522 CTCAGATTATCCTTGAGGCTATCCTCGAAGTGAACACATCACTCGTACTCAGTCGCCATCATACC
390 CTCAGATTATCCTTGAGGCCATCCTCGAAGTGAACACATCGCTCGTACTCAGTCGCCATCATACC
* *
22197587 TCGCGCATAGCGGCTCAATCTTAGAAATTTAGCCTCATTCTCGACCACTGATCTATCACCCTAGG
455 TCGCGCATAGCGGCTCAATCTTAGAAATTCAGCCTCATTCTCGACCACTGATCTATCACCCTGGG
* * *
22197652 TCAAATTTAGAAACTCTCTCCTATGGGAATCCACATAATTGGCTCCCACATACTTCCCCTGGAAA
520 TCAAATTTAGAAACTCTCTCCTACGGGCATCCACATAATTGGC-CCCCCATACTTCCCCTGGAAA
22197717 GCAATCTTAA
584 GCAATCTTAA
* * *
22197727 ATGGCCTCTCGAAGGCTGCTCAGTGGTGGTACAATACCAGTACCC-GAGGCTTGCATCTTATCGG
1 ACGGCCTCTCGAAGGCTGCTCAGTGGTGGTGCAATACCAGTACCCAG-GGCTTGCATCTTGTCGG
* *
22197791 ACCTCCGTGGATAATCCCTAATACGGTGCCCTAATGAACCGCACTTCAAACAAACCCTAGTTCTT
65 ACCTCCGCGGATAATCCCTAATACGGTGCCCTAATGAACCGCACTTCAAACCAACCCTAGTTCTT
22197856 TTCCAACACTCGCCCTGATGGCATCTACCACAGTCAGTACACAGCGGCTGTCCAGCAGCAGCTAT
130 TTCCAACACTCGCCCTGATGGCATCTACCACAGTCAGTACACAGCGGCTGTCCAGCAGCAGCTAT
* *
22197921 AGGAGCCCTAACTCTGATTGGCCTATCCGCTCCGGCCTTTTTCTTAAGCCTCTAAATAGAACTCG
195 AGGAGCCCTAACTCTGATCGGCCTATCCGCTCTGGCCTTTTTCTTAAGCCTCTAAATAGAACTCG
* *
22197986 AGGGCTTCGAATCCCTCTTGCTCTTACCTCTTTCCTGGTTCTGGAGCTCAGCGCGCTTCACTTCC
260 AGGGCTCCGAATCCCTCTTGCTCTTACCTCTTTCC-GATTCTGGAGCTCAGCGCGCTTCACTTCC
* * * *
22198051 TCGGTAATCTTCATCTTATCAACCAATGCAGTAAAGTCTCGCTTCCTCTGTGGAGTTATCAAAAC
324 TCGGTGATCTTCATCTTATCAACCAGTGCAGTAAAGTCTCGCTCCCTCTGTGGAGCTATCAAAAC
* *
22198116 CCTCAGAATATCCTTGAGGCCATCCTCGAAGTGAACGCATCGCTCGTACTCAGTCGCCATCATAC
389 CCTCAGATTATCCTTGAGGCCATCCTCGAAGTGAACACATCGCTCGTACTCAGTCGCCATCATAC
* *
22198181 CTCGCGCATAGCGGCTCAGTCTCAGAAATTCAGCCTCATTCTCGACCACTGATCTATCACCCTGG
454 CTCGCGCATAGCGGCTCAATCTTAGAAATTCAGCCTCATTCTCGACCACTGATCTATCACCCTGG
*
22198246 GTTAAATTTAGAAACTCTCTCCTACGGGCATCCACATAATTGGCCCCCACATACTTCCCCTGGAA
519 GTCAAATTTAGAAACTCTCTCCTACGGGCATCCACATAATTGGCCCCC-CATACTTCCCCTGGAA
* *
22198311 AGTAATATTAA
583 AGCAATCTTAA
22198322 A
1 A
22198323 GAACTCTCAG
Statistics
Matches: 1116, Mismatches: 68, Indels: 13
0.93 0.06 0.01
Matches are distributed among these distances:
594 525 0.47
595 591 0.53
ACGTcount: A:0.24, C:0.32, G:0.18, T:0.27
Consensus pattern (593 bp):
ACGGCCTCTCGAAGGCTGCTCAGTGGTGGTGCAATACCAGTACCCAGGGCTTGCATCTTGTCGGA
CCTCCGCGGATAATCCCTAATACGGTGCCCTAATGAACCGCACTTCAAACCAACCCTAGTTCTTT
TCCAACACTCGCCCTGATGGCATCTACCACAGTCAGTACACAGCGGCTGTCCAGCAGCAGCTATA
GGAGCCCTAACTCTGATCGGCCTATCCGCTCTGGCCTTTTTCTTAAGCCTCTAAATAGAACTCGA
GGGCTCCGAATCCCTCTTGCTCTTACCTCTTTCCGATTCTGGAGCTCAGCGCGCTTCACTTCCTC
GGTGATCTTCATCTTATCAACCAGTGCAGTAAAGTCTCGCTCCCTCTGTGGAGCTATCAAAACCC
TCAGATTATCCTTGAGGCCATCCTCGAAGTGAACACATCGCTCGTACTCAGTCGCCATCATACCT
CGCGCATAGCGGCTCAATCTTAGAAATTCAGCCTCATTCTCGACCACTGATCTATCACCCTGGGT
CAAATTTAGAAACTCTCTCCTACGGGCATCCACATAATTGGCCCCCCATACTTCCCCTGGAAAGC
AATCTTAA
Found at i:22213530 original size:19 final size:19
Alignment explanation
Indices: 22213506--22213549 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
22213496 TTTATAGTTT
*
22213506 TAAAAAA-CATTGGTTATTG
1 TAAAAAATCATTAG-TATTG
*
22213525 TAAAAAATTATTAGTATTG
1 TAAAAAATCATTAGTATTG
22213544 TAAAAA
1 TAAAAA
22213550 TAATTTTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 18 0.82
20 4 0.18
ACGTcount: A:0.50, C:0.02, G:0.11, T:0.36
Consensus pattern (19 bp):
TAAAAAATCATTAGTATTG
Found at i:22214314 original size:3 final size:3
Alignment explanation
Indices: 22214306--22214344 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
22214296 TTGTCTAAAA
22214306 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
22214345 CATAACTACT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:22225180 original size:20 final size:20
Alignment explanation
Indices: 22225155--22225195 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
22225145 AAGTTTTACC
22225155 TAAATTAGAATTTAACTAAT
1 TAAATTAGAATTTAACTAAT
*
22225175 TAAATTAGAATTTAATTAAT
1 TAAATTAGAATTTAACTAAT
22225195 T
1 T
22225196 GTTTTCTATG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.49, C:0.02, G:0.05, T:0.44
Consensus pattern (20 bp):
TAAATTAGAATTTAACTAAT
Found at i:22240639 original size:172 final size:172
Alignment explanation
Indices: 22240353--22240698 Score: 638
Period size: 172 Copynumber: 2.0 Consensus size: 172
22240343 TGCAAGTTCA
* *
22240353 CACTGCCTCACTGCCACGCCCGTGCGCCGCTTCCCACTCCATTTTGATGCTCAATCTCTCTTCCC
1 CACTGCCTCACTGCCACGCCCGTGCGCCGCTTCCCACTCCATATTGACGCTCAATCTCTCTTCCC
* *
22240418 TAGCGTTTGTTTACTCCTTTCACTTCTGTTTTACTTATTTTTAATGCTTAGTGTCAAAATAAACT
66 TAGCATTTGTTTACTCCTTTCACTTCTGTTTTACTTATTTTTAATGCTTAGTATCAAAATAAACT
22240483 TCATATCTTTTGACCTATTTTTTATTTTGCTCATTATTCTAT
131 TCATATCTTTTGACCTATTTTTTATTTTGCTCATTATTCTAT
*
22240525 CACTGCCTCCCTGCCACGCCCGTGCGCCGCTTCCCACTCCATATTGACGCTCAATCTCTCTTCCC
1 CACTGCCTCACTGCCACGCCCGTGCGCCGCTTCCCACTCCATATTGACGCTCAATCTCTCTTCCC
*
22240590 TAGCATTTGTTTACTCCTTTCACTTCTGTTTTACTTATTTTTAATGCTTAGTATCAACATAAACT
66 TAGCATTTGTTTACTCCTTTCACTTCTGTTTTACTTATTTTTAATGCTTAGTATCAAAATAAACT
22240655 TCATATCTTTTGACCTATTTTTTATTTTGCTCATTATTCTAT
131 TCATATCTTTTGACCTATTTTTTATTTTGCTCATTATTCTAT
22240697 CA
1 CA
22240699 TTTAATTTGC
Statistics
Matches: 168, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
172 168 1.00
ACGTcount: A:0.18, C:0.29, G:0.10, T:0.43
Consensus pattern (172 bp):
CACTGCCTCACTGCCACGCCCGTGCGCCGCTTCCCACTCCATATTGACGCTCAATCTCTCTTCCC
TAGCATTTGTTTACTCCTTTCACTTCTGTTTTACTTATTTTTAATGCTTAGTATCAAAATAAACT
TCATATCTTTTGACCTATTTTTTATTTTGCTCATTATTCTAT
Found at i:22240990 original size:18 final size:17
Alignment explanation
Indices: 22240967--22241002 Score: 63
Period size: 18 Copynumber: 2.1 Consensus size: 17
22240957 GTTTACCTAT
22240967 TATTATTATTCATTTATC
1 TATTATTATTC-TTTATC
22240985 TATTATTATTCTTTATC
1 TATTATTATTCTTTATC
22241002 T
1 T
22241003 TATAGGCTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.25, C:0.11, G:0.00, T:0.64
Consensus pattern (17 bp):
TATTATTATTCTTTATC
Found at i:22248775 original size:7 final size:7
Alignment explanation
Indices: 22248763--22248800 Score: 58
Period size: 7 Copynumber: 5.4 Consensus size: 7
22248753 AAATGTATCG
22248763 TAGGGTT
1 TAGGGTT
22248770 TAGGGTT
1 TAGGGTT
22248777 TAGGGTT
1 TAGGGTT
*
22248784 TAGAGTT
1 TAGGGTT
*
22248791 TAAGGTT
1 TAGGGTT
22248798 TAG
1 TAG
22248801 CGTTGGGATC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.21, C:0.00, G:0.37, T:0.42
Consensus pattern (7 bp):
TAGGGTT
Found at i:22250354 original size:19 final size:19
Alignment explanation
Indices: 22250320--22250358 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
22250310 GATTTTGTAC
*
22250320 TTTGGCCCATTTTCTCCGTT
1 TTTGGCCCAGTTTCT-CGTT
22250340 TTTGGCCC-GTTTCTCGTT
1 TTTGGCCCAGTTTCTCGTT
22250358 T
1 T
22250359 CTTTCGCTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 5 0.28
19 5 0.28
20 8 0.44
ACGTcount: A:0.03, C:0.28, G:0.18, T:0.51
Consensus pattern (19 bp):
TTTGGCCCAGTTTCTCGTT
Found at i:22257528 original size:8 final size:8
Alignment explanation
Indices: 22257517--22257576 Score: 52
Period size: 8 Copynumber: 7.5 Consensus size: 8
22257507 AAAAAATGTA
22257517 AAAATTAT
1 AAAATTAT
22257525 AAAA-TATT
1 AAAATTA-T
**
22257533 AATTTTTAT
1 AAAAT-TAT
22257542 AAAATTAT
1 AAAATTAT
22257550 AAAA-TAT
1 AAAATTAT
*
22257557 ATAATTAT
1 AAAATTAT
*
22257565 AAAATTCT
1 AAAATTAT
22257573 AAAA
1 AAAA
22257577 ATTTGTTTAA
Statistics
Matches: 41, Mismatches: 7, Indels: 8
0.73 0.12 0.14
Matches are distributed among these distances:
7 8 0.20
8 27 0.66
9 4 0.10
10 2 0.05
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (8 bp):
AAAATTAT
Found at i:22257557 original size:15 final size:15
Alignment explanation
Indices: 22257539--22257569 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
22257529 TATTAATTTT
22257539 TATAAAATTATAAAA
1 TATAAAATTATAAAA
*
22257554 TATATAATTATAAAA
1 TATAAAATTATAAAA
22257569 T
1 T
22257570 TCTAAAAATT
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:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (15 bp):
TATAAAATTATAAAA
Found at i:22257647 original size:20 final size:19
Alignment explanation
Indices: 22257620--22257678 Score: 75
Period size: 20 Copynumber: 3.1 Consensus size: 19
22257610 TGAAATTTAA
22257620 ATAC-TTTTTTTAATTTTT
1 ATACATTTTTTTAATTTTT
*
22257638 ATAACATTTTTCTAATTTTT
1 AT-ACATTTTTTTAATTTTT
*
22257658 ATATATTATTTTTAATTTTT
1 ATACATT-TTTTTAATTTTT
22257678 A
1 A
22257679 AAATTTATAA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
18 2 0.06
19 6 0.17
20 27 0.77
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.66
Consensus pattern (19 bp):
ATACATTTTTTTAATTTTT
Found at i:22257686 original size:20 final size:20
Alignment explanation
Indices: 22257626--22257686 Score: 56
Period size: 20 Copynumber: 3.0 Consensus size: 20
22257616 TTAAATACTT
22257626 TTTTTAATTTTTATAACA-TT-
1 TTTTTAATTTTTA-AA-ATTTA
* *
22257646 TTTCTAATTTTT-ATATATTA
1 TTTTTAATTTTTAAAAT-TTA
22257666 TTTTTAATTTTTAAAATTTA
1 TTTTTAATTTTTAAAATTTA
22257686 T
1 T
22257687 AATTATATAT
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
17 1 0.03
18 1 0.03
19 2 0.06
20 26 0.79
21 3 0.09
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (20 bp):
TTTTTAATTTTTAAAATTTA
Found at i:22257892 original size:21 final size:21
Alignment explanation
Indices: 22257843--22257892 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
22257833 CTAGTCAACG
22257843 CCAATCAACAATGGTCAACAT
1 CCAATCAACAATGGTCAACAT
** *
22257864 CCGGTCAACATTGGTCAACAAT
1 CCAATCAACAATGGTCAAC-AT
22257886 -CAATCAA
1 CCAATCAA
22257893 AGTAAAAGTG
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
21 21 0.91
22 2 0.09
ACGTcount: A:0.40, C:0.28, G:0.12, T:0.20
Consensus pattern (21 bp):
CCAATCAACAATGGTCAACAT
Found at i:22258063 original size:26 final size:26
Alignment explanation
Indices: 22258022--22258073 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
22258012 TTTATAATTA
22258022 TATATTTTAAAATTTTATAGAAAAAAT
1 TATATTTTAAAATTTTATA-AAAAAAT
* *
22258049 TATA-TTTAAACTTTTTTAAAAAAAT
1 TATATTTTAAAATTTTATAAAAAAAT
22258074 ACAGTTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 7 0.30
26 12 0.52
27 4 0.17
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (26 bp):
TATATTTTAAAATTTTATAAAAAAAT
Found at i:22259588 original size:17 final size:17
Alignment explanation
Indices: 22259566--22259598 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
22259556 AAAGTTATCT
22259566 ATTCCTCTGTTTTGTTG
1 ATTCCTCTGTTTTGTTG
*
22259583 ATTCCTCTTTTTTGTT
1 ATTCCTCTGTTTTGTT
22259599 CTTTAGAAAA
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:0.06, C:0.18, G:0.12, T:0.64
Consensus pattern (17 bp):
ATTCCTCTGTTTTGTTG
Found at i:22260196 original size:25 final size:26
Alignment explanation
Indices: 22260122--22260197 Score: 82
Period size: 28 Copynumber: 2.9 Consensus size: 26
22260112 AATTTTCTCG
* * * *
22260122 AAATTTTATCAGAGGTAAAATCGACAAA
1 AAATTTTACCAGGGGTAAAATTGTC--A
22260150 AAATTTTACCAGGGGTAAAATTGTCA
1 AAATTTTACCAGGGGTAAAATTGTCA
*
22260176 AAATTTTACTA-GGGTAAAATTG
1 AAATTTTACCAGGGGTAAAATTG
22260198 GGGTGAGAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
25 11 0.26
26 11 0.26
28 21 0.49
ACGTcount: A:0.43, C:0.09, G:0.17, T:0.30
Consensus pattern (26 bp):
AAATTTTACCAGGGGTAAAATTGTCA
Done.