Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 70 of 410
Found at i:19593617 original size:3 final size:3
Alignment explanation
Indices: 19593609--19593666 Score: 116
Period size: 3 Copynumber: 19.3 Consensus size: 3
19593599 ATATAAAACC
19593609 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
19593657 ATA ATA ATA A
1 ATA ATA ATA A
19593667 ATAACATCAT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:19596517 original size:14 final size:14
Alignment explanation
Indices: 19596498--19596530 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
19596488 TAAAGTGTAA
19596498 ATGAAAATGGATAT
1 ATGAAAATGGATAT
*
19596512 ATG-AAATGGCTAT
1 ATGAAAATGGATAT
19596525 ATGAAA
1 ATGAAA
19596531 TTAGTCATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.48, C:0.03, G:0.21, T:0.27
Consensus pattern (14 bp):
ATGAAAATGGATAT
Found at i:19596520 original size:13 final size:13
Alignment explanation
Indices: 19596502--19596531 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
19596492 GTGTAAATGA
19596502 AAATGGATATATG
1 AAATGGATATATG
*
19596515 AAATGGCTATATG
1 AAATGGATATATG
19596528 AAAT
1 AAAT
19596532 TAGTCATGAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.47, C:0.03, G:0.20, T:0.30
Consensus pattern (13 bp):
AAATGGATATATG
Found at i:19599498 original size:40 final size:40
Alignment explanation
Indices: 19599278--19599498 Score: 241
Period size: 40 Copynumber: 5.5 Consensus size: 40
19599268 TCGTTCAAAC
* * * * *
19599278 GCCTTCGAGACATAGCCCGG-TTATAGCAACTCGCATAAAC
1 GCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCATAAAT
*
19599318 GCCTTCGAGACTTAACCCGGATTTAGTAACTCGCATAAAT
1 GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCATAAAT
19599358 GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCATAAAT
1 GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCATAAAT
* **
19599398 GCCTTTGGGACTTAACCCAAATTTAGTAACTCGCATAAAT
1 GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCATAAAT
* ** * * * *
19599438 GCCTTC-GGATCCTAGTCCGGATATAGTCACTTAGCACAAA-
1 GCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCATAAAT
*
19599478 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAACCCGGA
19599499 CATCATTTGA
Statistics
Matches: 157, Mismatches: 20, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
39 3 0.02
40 142 0.90
41 12 0.08
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCATAAAT
Found at i:19612667 original size:47 final size:49
Alignment explanation
Indices: 19612593--19612722 Score: 157
Period size: 46 Copynumber: 2.8 Consensus size: 49
19612583 AACCCGCCCC
*
19612593 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A-TTCACATCCA
* *
19612641 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA---CATTCGCATCCA
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCACATCCA
*
19612686 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGC
19612723 TCAACCATCC
Statistics
Matches: 70, Mismatches: 5, Indels: 13
0.80 0.06 0.15
Matches are distributed among these distances:
42 2 0.03
43 4 0.06
44 2 0.03
45 2 0.03
46 29 0.41
47 29 0.41
48 2 0.03
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (49 bp):
TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCACATCCA
Found at i:19612738 original size:46 final size:44
Alignment explanation
Indices: 19612595--19612738 Score: 141
Period size: 46 Copynumber: 3.1 Consensus size: 44
19612585 CCCGCCCCTA
19612595 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTA-CATCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A---ACCATCT
* * * *
19612642 CA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT-A
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGC-CAACCATCT
19612688 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CAACCAT-CT
19612734 AGTGA
1 AGTGA
19612739 CATGTCACTT
Statistics
Matches: 80, Mismatches: 9, Indels: 16
0.76 0.09 0.15
Matches are distributed among these distances:
44 9 0.11
45 1 0.01
46 33 0.41
47 31 0.39
48 1 0.01
49 4 0.05
50 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCAACCATCT
Found at i:19616507 original size:47 final size:47
Alignment explanation
Indices: 19616398--19616508 Score: 154
Period size: 47 Copynumber: 2.4 Consensus size: 47
19616388 CCGGGATAAG
*
19616398 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
* * *
19616445 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTA-TAGTA
19616492 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
19616509 ACTCAATGTC
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
46 1 0.02
47 53 0.95
48 2 0.04
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.25
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
Found at i:19623762 original size:47 final size:47
Alignment explanation
Indices: 19623653--19623763 Score: 154
Period size: 47 Copynumber: 2.4 Consensus size: 47
19623643 CCGGGATAAG
*
19623653 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
* * *
19623700 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTA-TAGTA
19623747 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
19623764 ACTCAATGTC
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
46 1 0.02
47 53 0.95
48 2 0.04
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.25
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
Found at i:19625870 original size:45 final size:44
Alignment explanation
Indices: 19625781--19625951 Score: 164
Period size: 45 Copynumber: 3.8 Consensus size: 44
19625771 GAAATAAGGT
* * * * *
19625781 CATAGCGTCTTTTAGCTATGTCATCTTAGTCCTATTTACCATGATGC
1 CATAACGTCTTTTAGCTATG--GTCTTACTCAT-TTTATCATGATGC
*
19625828 CATAACGTCTTTTAGCCATGGTCTTACTCATTTATATCATGATGC
1 CATAACGTCTTTTAGCTATGGTCTTACTCATTT-TATCATGATGC
** * * *
19625873 CATGGCATCTTTTAGCTATGGTCTTACTTATCCTTATCATGATGC
1 CATAACGTCTTTTAGCTATGGTCTTACTCAT-TTTATCATGATGC
* *
19625918 CATAACGT-TTTTCAGTTATGATCTTACTCATTTT
1 CATAACGTCTTTT-AGCTATGGTCTTACTCATTTT
19625952 TAGGCATATA
Statistics
Matches: 102, Mismatches: 19, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
44 8 0.08
45 75 0.74
46 1 0.01
47 18 0.18
ACGTcount: A:0.22, C:0.22, G:0.13, T:0.43
Consensus pattern (44 bp):
CATAACGTCTTTTAGCTATGGTCTTACTCATTTTATCATGATGC
Found at i:19627385 original size:31 final size:29
Alignment explanation
Indices: 19627350--19627416 Score: 71
Period size: 29 Copynumber: 2.2 Consensus size: 29
19627340 TTCTTCCATC
* *
19627350 AATTTTTATACTCTTTGAATTTTTGAAATGT
1 AATTTCTATAC-CTTT-AATTTTAGAAATGT
* *
19627381 AATTTCTCTACCTTTAATTTTAGAAATTT
1 AATTTCTATACCTTTAATTTTAGAAATGT
*
19627410 AGTTTCT
1 AATTTCT
19627417 CAACTTATTT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 18 0.58
30 4 0.13
31 9 0.29
ACGTcount: A:0.28, C:0.10, G:0.07, T:0.54
Consensus pattern (29 bp):
AATTTCTATACCTTTAATTTTAGAAATGT
Found at i:19627762 original size:14 final size:14
Alignment explanation
Indices: 19627719--19627769 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
19627709 TCGCATAATT
* *
19627719 TATTATCTTTAATC
1 TATTATCTTAAATA
*
19627733 TATAAT-TTACAATA
1 TATTATCTTA-AATA
19627747 TATTATCTTAAATA
1 TATTATCTTAAATA
19627761 TATCTATCT
1 TAT-TATCT
19627770 ATAATTTATA
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
13 2 0.07
14 20 0.67
15 8 0.27
ACGTcount: A:0.37, C:0.12, G:0.00, T:0.51
Consensus pattern (14 bp):
TATTATCTTAAATA
Found at i:19629159 original size:27 final size:26
Alignment explanation
Indices: 19629112--19629166 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 26
19629102 AACAAATTAA
19629112 AAATAAATTAAAAAAATATGTATACTT
1 AAATAAATTAAAAAAATATGTA-ACTT
* *
19629139 AAATAACATTAAGATAA-ATGTAACTT
1 AAATAA-ATTAAAAAAATATGTAACTT
19629165 AA
1 AA
19629167 CAAGCAAATG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 6 0.24
27 11 0.44
28 8 0.32
ACGTcount: A:0.58, C:0.05, G:0.05, T:0.31
Consensus pattern (26 bp):
AAATAAATTAAAAAAATATGTAACTT
Found at i:19629268 original size:19 final size:19
Alignment explanation
Indices: 19629244--19629283 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
19629234 ACAACAAAAT
* *
19629244 AATAATAACATAATTGTGA
1 AATAATAACAAAATAGTGA
*
19629263 AATAATAGCAAAATAGTGA
1 AATAATAACAAAATAGTGA
19629282 AA
1 AA
19629284 AAAAACAAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.57, C:0.05, G:0.12, T:0.25
Consensus pattern (19 bp):
AATAATAACAAAATAGTGA
Found at i:19631036 original size:90 final size:89
Alignment explanation
Indices: 19630844--19631038 Score: 232
Period size: 90 Copynumber: 2.2 Consensus size: 89
19630834 CACACCGAGT
* * *
19630844 TGTGGATGAACCACCAAAAGTCGCAGGTTAGTACACTGCTAAATGGTTGTAAATACACAACATAA
1 TGTGAATGAACCACCAAAAGTCACAGGTTAATACACTGCTAAATGGTTGTAAATACACAACATAA
*
19630909 TTGCAGATAAAAGTTGCCAGATAA
66 TTGCAGATAAAAGCTGCCAGATAA
* * * * * *
19630933 TGGGTATGCGAACCACC-AATGTTACAGGTTAATACGCTG-TCAAATGGTTGTGAATACACAACA
1 TGTGAAT--GAACCACCAAAAGTCACAGGTTAATACACTGCT-AAATGGTTGTAAATACACAACA
*
19630996 TATTTGCAGATAAAAGCTGCCAGATAATA
63 TAATTGCAGATAAAAGCTGCCAGAT-A-A
19631025 TGTGAATGAACCAC
1 TGTGAATGAACCAC
19631039 AGGATTTGCA
Statistics
Matches: 89, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
89 6 0.07
90 68 0.76
91 9 0.10
92 6 0.07
ACGTcount: A:0.37, C:0.17, G:0.21, T:0.25
Consensus pattern (89 bp):
TGTGAATGAACCACCAAAAGTCACAGGTTAATACACTGCTAAATGGTTGTAAATACACAACATAA
TTGCAGATAAAAGCTGCCAGATAA
Found at i:19633434 original size:2 final size:2
Alignment explanation
Indices: 19633427--19633467 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
19633417 TGAAATTTCA
19633427 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
19633468 AGAACTTATA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:19636746 original size:22 final size:22
Alignment explanation
Indices: 19636718--19636789 Score: 67
Period size: 23 Copynumber: 3.1 Consensus size: 22
19636708 ACATCATTGA
*
19636718 TAATATTTAAATG-TTAATTTTT
1 TAATATTTAAA-GAATAATTTTT
*
19636740 TAATATTTTAAAGAATATTTTTT
1 TAATA-TTTAAAGAATAATTTTT
19636763 TAATATTCTTAATA-AATAATTTTT
1 TAATA-T-TTAA-AGAATAATTTTT
19636787 TAA
1 TAA
19636790 GATTAATTTA
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
22 6 0.14
23 20 0.47
24 16 0.37
25 1 0.02
ACGTcount: A:0.40, C:0.01, G:0.03, T:0.56
Consensus pattern (22 bp):
TAATATTTAAAGAATAATTTTT
Found at i:19636761 original size:23 final size:24
Alignment explanation
Indices: 19636732--19636789 Score: 84
Period size: 24 Copynumber: 2.5 Consensus size: 24
19636722 ATTTAAATGT
19636732 TAATTTTTTAATATT-TTAA-AGAA
1 TAATTTTTTAATATTCTTAATA-AA
*
19636755 TATTTTTTTAATATTCTTAATAAA
1 TAATTTTTTAATATTCTTAATAAA
19636779 TAATTTTTTAA
1 TAATTTTTTAA
19636790 GATTAATTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
23 14 0.45
24 16 0.52
25 1 0.03
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.57
Consensus pattern (24 bp):
TAATTTTTTAATATTCTTAATAAA
Found at i:19637768 original size:6 final size:6
Alignment explanation
Indices: 19637759--19637812 Score: 99
Period size: 6 Copynumber: 9.0 Consensus size: 6
19637749 CCAAAACTAA
*
19637759 GGTGTT GGTGTT GGTGTT GGTGTT GGTGTT AGTGTT GGTGTT GGTGTT
1 GGTGTT GGTGTT GGTGTT GGTGTT GGTGTT GGTGTT GGTGTT GGTGTT
19637807 GGTGTT
1 GGTGTT
19637813 TTTGATTTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 46 1.00
ACGTcount: A:0.02, C:0.00, G:0.48, T:0.50
Consensus pattern (6 bp):
GGTGTT
Found at i:19638083 original size:21 final size:20
Alignment explanation
Indices: 19638055--19638097 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
19638045 ATATTTCATG
*
19638055 TAAAATTATATTAAATT-ATT
1 TAAAATTAT-CTAAATTAATT
19638075 TAAATATTATCTAAATTAATT
1 TAAA-ATTATCTAAATTAATT
19638096 TA
1 TA
19638098 TTGTTAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (20 bp):
TAAAATTATCTAAATTAATT
Found at i:19649226 original size:26 final size:24
Alignment explanation
Indices: 19649187--19649245 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 24
19649177 TTATTTCATT
* *
19649187 AAATAAA-AAATTTAAAAATATAA
1 AAATAAATATATTTAAAAACATAA
19649210 TAAATCAAATATATTTAAAAACATAA
1 -AAAT-AAATATATTTAAAAACATAA
19649236 AAATAAATAT
1 AAATAAATAT
19649246 TAAAACAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
24 10 0.32
25 7 0.23
26 14 0.45
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (24 bp):
AAATAAATATATTTAAAAACATAA
Found at i:19649257 original size:22 final size:22
Alignment explanation
Indices: 19649216--19649274 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
19649206 ATAATAAATC
* *
19649216 AAATATAT-TTAAAA-ACATAA
1 AAATAAATATTAAAACAAATAA
19649236 AAATAAATATTAAAACAAATAA
1 AAATAAATATTAAAACAAATAA
*
19649258 AAAT-AATACTAAAACAA
1 AAATAAATATTAAAACAA
19649275 TTCTTAAAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.21
21 18 0.53
22 9 0.26
ACGTcount: A:0.69, C:0.07, G:0.00, T:0.24
Consensus pattern (22 bp):
AAATAAATATTAAAACAAATAA
Found at i:19649352 original size:15 final size:16
Alignment explanation
Indices: 19649322--19649354 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
19649312 AAATAGTTAT
19649322 ATTAAAAATTTAAAATA
1 ATTAAAAA-TTAAAATA
19649339 ATTAAAAA-TAAAATA
1 ATTAAAAATTAAAATA
19649354 A
1 A
19649355 AAAAATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
17 8 0.50
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
ATTAAAAATTAAAATA
Found at i:19652408 original size:35 final size:35
Alignment explanation
Indices: 19652358--19652452 Score: 111
Period size: 35 Copynumber: 2.7 Consensus size: 35
19652348 AATCGACTCA
* * *
19652358 AAAAAGGTTGAGATAGACCAT-TTTATGCCAACCTT
1 AAAAAGGTTGGGATAGACC-TGTCTAAGCCAACCTT
* *
19652393 AAAAATGTTGGGATAGACCTGTCTAAGGCAACCTT
1 AAAAAGGTTGGGATAGACCTGTCTAAGCCAACCTT
*
19652428 AAAAAGGTTGGGATAAACCTTGTCT
1 AAAAAGGTTGGGATAGACC-TGTCT
19652453 GTGCTAACAC
Statistics
Matches: 51, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
34 1 0.02
35 45 0.88
36 5 0.10
ACGTcount: A:0.36, C:0.16, G:0.21, T:0.27
Consensus pattern (35 bp):
AAAAAGGTTGGGATAGACCTGTCTAAGCCAACCTT
Found at i:19659664 original size:20 final size:20
Alignment explanation
Indices: 19659639--19659690 Score: 104
Period size: 20 Copynumber: 2.6 Consensus size: 20
19659629 AAGGTGAGGG
19659639 ACACGGGCGTGTCCCTGAGC
1 ACACGGGCGTGTCCCTGAGC
19659659 ACACGGGCGTGTCCCTGAGC
1 ACACGGGCGTGTCCCTGAGC
19659679 ACACGGGCGTGT
1 ACACGGGCGTGT
19659691 GAGGCATAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.15, C:0.33, G:0.37, T:0.15
Consensus pattern (20 bp):
ACACGGGCGTGTCCCTGAGC
Found at i:19663656 original size:22 final size:23
Alignment explanation
Indices: 19663626--19663669 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 23
19663616 AACCTGAAAA
19663626 AAACTAAAAGTTCTACAATATCC
1 AAACTAAAAGTTCTACAATATCC
19663649 AAAC-AAAAGTTCTACAATATC
1 AAACTAAAAGTTCTACAATATC
19663670 TATATATCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 17 0.81
23 4 0.19
ACGTcount: A:0.50, C:0.20, G:0.05, T:0.25
Consensus pattern (23 bp):
AAACTAAAAGTTCTACAATATCC
Found at i:19666723 original size:2 final size:2
Alignment explanation
Indices: 19666716--19666743 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
19666706 TGTTACATCA
19666716 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
19666744 TCTTATATTT
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:19667873 original size:16 final size:15
Alignment explanation
Indices: 19667847--19667881 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
19667837 TGATGTGAAT
19667847 AATATAAAATATTAA
1 AATATAAAATATTAA
*
19667862 AATATCAAAATATTAG
1 AATAT-AAAATATTAA
19667878 AATA
1 AATA
19667882 ATAATAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (15 bp):
AATATAAAATATTAA
Found at i:19668054 original size:20 final size:20
Alignment explanation
Indices: 19667997--19668056 Score: 59
Period size: 23 Copynumber: 2.9 Consensus size: 20
19667987 AATACTACAT
19667997 AAATATGTACAT-ATATAAA
1 AAATATGTACATAATATAAA
** *
19668016 AAATAAATACGTGATAATATTAA
1 AAATATGTAC---ATAATATAAA
19668039 AAATATGTACATAATATA
1 AAATATGTACATAATATA
19668057 GTGTAAAAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 7
0.70 0.14 0.16
Matches are distributed among these distances:
19 8 0.26
20 7 0.23
22 2 0.06
23 14 0.45
ACGTcount: A:0.57, C:0.05, G:0.07, T:0.32
Consensus pattern (20 bp):
AAATATGTACATAATATAAA
Found at i:19668095 original size:22 final size:23
Alignment explanation
Indices: 19668034--19668182 Score: 84
Period size: 25 Copynumber: 6.0 Consensus size: 23
19668024 ACGTGATAAT
*
19668034 ATTAAAAATATGTACATAATATA
1 ATTAAAAATATATACATAATATA
* *
19668057 GTGTAAAAAATACATACATAATATA
1 AT-T-AAAAATATATACATAATATA
*
19668082 ATT-AAAATATATACATAAGATAA
1 ATTAAAAATATATACATAATAT-A
* *
19668105 CATGTAATATATATATATAAATAATAAA
1 -AT-TAA-A-A-ATATATACATAATATA
* *
19668133 GTATTAAAGATATATACATAAAATA
1 --ATTAAAAATATATACATAATATA
* * *
19668158 GTATAATATATATATACGTAATATA
1 AT-TAA-AAATATATACATAATATA
19668183 TAATTTAGAA
Statistics
Matches: 96, Mismatches: 18, Indels: 22
0.71 0.13 0.16
Matches are distributed among these distances:
22 16 0.17
23 3 0.03
24 7 0.07
25 48 0.50
26 1 0.01
27 2 0.02
28 5 0.05
29 14 0.15
ACGTcount: A:0.56, C:0.05, G:0.06, T:0.34
Consensus pattern (23 bp):
ATTAAAAATATATACATAATATA
Found at i:19668746 original size:18 final size:18
Alignment explanation
Indices: 19668723--19668776 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
19668713 ACAAGTGGTG
19668723 GTGGAGCAAGTGTGGCTA
1 GTGGAGCAAGTGTGGCTA
*
19668741 GT-G-G--AGT-AGG-TA
1 GTGGAGCAAGTGTGGCTA
19668753 GTGGAGCAAGTGTGGCTA
1 GTGGAGCAAGTGTGGCTA
19668771 GTGGAG
1 GTGGAG
19668777 TTGGTGGTGG
Statistics
Matches: 28, Mismatches: 2, Indels: 12
0.67 0.05 0.29
Matches are distributed among these distances:
12 4 0.14
13 3 0.11
14 4 0.14
16 4 0.14
17 3 0.11
18 10 0.36
ACGTcount: A:0.22, C:0.07, G:0.48, T:0.22
Consensus pattern (18 bp):
GTGGAGCAAGTGTGGCTA
Found at i:19668759 original size:30 final size:30
Alignment explanation
Indices: 19668723--19668786 Score: 110
Period size: 30 Copynumber: 2.1 Consensus size: 30
19668713 ACAAGTGGTG
19668723 GTGGAGCAAGTGTGGCTAGTGGAGTAGGTA
1 GTGGAGCAAGTGTGGCTAGTGGAGTAGGTA
* *
19668753 GTGGAGCAAGTGTGGCTAGTGGAGTTGGTG
1 GTGGAGCAAGTGTGGCTAGTGGAGTAGGTA
19668783 GTGG
1 GTGG
19668787 CAAAGGCTAG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.19, C:0.06, G:0.50, T:0.25
Consensus pattern (30 bp):
GTGGAGCAAGTGTGGCTAGTGGAGTAGGTA
Found at i:19673295 original size:10 final size:10
Alignment explanation
Indices: 19673281--19673319 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
19673271 TTTATTTTCC
19673281 TTTATCTTTA
1 TTTATCTTTA
*
19673291 ATTATCTTTA
1 TTTATCTTTA
19673301 TTTAT-TTGTA
1 TTTATCTT-TA
19673311 TTTATCTTT
1 TTTATCTTT
19673320 TAGAATTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
9 2 0.08
10 21 0.84
11 2 0.08
ACGTcount: A:0.21, C:0.08, G:0.03, T:0.69
Consensus pattern (10 bp):
TTTATCTTTA
Found at i:19676591 original size:2 final size:2
Alignment explanation
Indices: 19676584--19676612 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
19676574 TTTTTCACTT
19676584 TA TA 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 T
19676613 TTTATTAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:19676635 original size:15 final size:17
Alignment explanation
Indices: 19676585--19676638 Score: 51
Period size: 18 Copynumber: 3.2 Consensus size: 17
19676575 TTTTCACTTT
*
19676585 ATATATATAT-ATATATA
1 ATATATATATCTTAT-TA
*
19676602 TATATATATATTTTATTA
1 -ATATATATATCTTATTA
19676620 ATAT-TATATCTT-TTA
1 ATATATATATCTTATTA
19676635 ATAT
1 ATAT
19676639 CTAGTAGTCG
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
15 7 0.21
16 7 0.21
17 4 0.12
18 12 0.36
19 3 0.09
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.56
Consensus pattern (17 bp):
ATATATATATCTTATTA
Found at i:19686088 original size:11 final size:11
Alignment explanation
Indices: 19686072--19686096 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
19686062 ATAGGCTAAA
19686072 TACTAAAATTT
1 TACTAAAATTT
19686083 TACTAAAATTT
1 TACTAAAATTT
19686094 TAC
1 TAC
19686097 ACTACTTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.44, C:0.12, G:0.00, T:0.44
Consensus pattern (11 bp):
TACTAAAATTT
Found at i:19688050 original size:29 final size:29
Alignment explanation
Indices: 19688018--19688074 Score: 114
Period size: 29 Copynumber: 2.0 Consensus size: 29
19688008 CCTATACTCA
19688018 TTCCCATATCCTTGAATTGGGAATAATGT
1 TTCCCATATCCTTGAATTGGGAATAATGT
19688047 TTCCCATATCCTTGAATTGGGAATAATG
1 TTCCCATATCCTTGAATTGGGAATAATG
19688075 ATGTCAATTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.37
Consensus pattern (29 bp):
TTCCCATATCCTTGAATTGGGAATAATGT
Found at i:19688529 original size:30 final size:30
Alignment explanation
Indices: 19688495--19688553 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
19688485 TATTTTATTG
19688495 TTAATTTTGTTATTATTTTAAAGACATTTC
1 TTAATTTTGTTATTATTTTAAAGACATTTC
*
19688525 TTAATTTTGTTATTATTTTAGAGACATTT
1 TTAATTTTGTTATTATTTTAAAGACATTT
19688554 GCTTGTTAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.29, C:0.05, G:0.08, T:0.58
Consensus pattern (30 bp):
TTAATTTTGTTATTATTTTAAAGACATTTC
Found at i:19688707 original size:12 final size:12
Alignment explanation
Indices: 19688677--19688709 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
19688667 TATATATTTT
19688677 AAAATT-ATATA
1 AAAATTAATATA
19688688 AAAA-TAATATA
1 AAAATTAATATA
19688699 AAAATTAATAT
1 AAAATTAATAT
19688710 GGGTCGGTAG
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:19694883 original size:15 final size:15
Alignment explanation
Indices: 19694847--19694896 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
19694837 CGATATTCTT
19694847 TTTGCAT-TCATACA
1 TTTGCATCTCATACA
19694861 TTTGCATCTCATAACA
1 TTTGCATCTCAT-ACA
*
19694877 TTT-CATCACAT-CA
1 TTTGCATCTCATACA
19694890 TTTGCAT
1 TTTGCAT
19694897 TCAAAGTTAC
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
13 5 0.16
14 10 0.31
15 11 0.34
16 6 0.19
ACGTcount: A:0.28, C:0.24, G:0.06, T:0.42
Consensus pattern (15 bp):
TTTGCATCTCATACA
Found at i:19703093 original size:45 final size:45
Alignment explanation
Indices: 19702997--19703155 Score: 159
Period size: 45 Copynumber: 3.6 Consensus size: 45
19702987 ATGATGGGCT
* * * *
19702997 TTAACCCCCTAAACAGTAGGGTAACAAGCCG-A-ATTTACA-AGCC
1 TTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGA-TC
19703040 TTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATC
1 TTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATC
* * ** *
19703085 TTAACCCCCTAAGCAGTAGGGAAACA-GATCGAAGA-CGA-AGGGTC
1 TTAACCCCCTAAGCAGTAGGGTAACAGGCT-GAAGATTTACA-GATC
*
19703129 TTAAACCCCTAAGCAGTAGGGTAACAG
1 TTAACCCCCTAAGCAGTAGGGTAACAG
19703156 ACCAAATTGT
Statistics
Matches: 99, Mismatches: 11, Indels: 10
0.82 0.09 0.08
Matches are distributed among these distances:
43 29 0.29
44 31 0.31
45 38 0.38
46 1 0.01
ACGTcount: A:0.36, C:0.24, G:0.22, T:0.18
Consensus pattern (45 bp):
TTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATC
Found at i:19703146 original size:44 final size:44
Alignment explanation
Indices: 19703081--19703241 Score: 143
Period size: 44 Copynumber: 3.7 Consensus size: 44
19703071 AAGATTTACA
*
19703081 GATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGAAG
1 GATCTTAAACCCCTAAGCAGTAGGGAAACAGATCGAAGACGAAG
* * * * *
19703125 GGTCTTAAACCCCTAAGCAGTAGGGTAACAGA-CCAA-ATTGTA-
1 GATCTTAAACCCCTAAGCAGTAGGGAAACAGATCGAAGA-CGAAG
* * * *
19703167 GATCTT-ATCTCCCTAAGCATTAGTGGAGATA-ATCGAAGACGAAG
1 GATCTTAAAC-CCCTAAGCAGTAG-GGAAACAGATCGAAGACGAAG
* * *
19703211 AACCTTAAACCCCTAAGCAGTAGGGTAACAG
1 GATCTTAAACCCCTAAGCAGTAGGGAAACAG
19703242 GTTAAATTCA
Statistics
Matches: 87, Mismatches: 22, Indels: 16
0.70 0.18 0.13
Matches are distributed among these distances:
41 2 0.02
42 19 0.22
43 18 0.21
44 46 0.53
45 2 0.02
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (44 bp):
GATCTTAAACCCCTAAGCAGTAGGGAAACAGATCGAAGACGAAG
Found at i:19703207 original size:86 final size:84
Alignment explanation
Indices: 19703037--19703330 Score: 300
Period size: 86 Copynumber: 3.4 Consensus size: 84
19703027 GAATTTACAA
* * * *
19703037 GCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCCCCTAAGCAGT
1 GCCTTAAACCCCTAAGCAGTAGGGTAACAGGC-CAA-ATTT--AGATCTTATCACCCTAAGCAGT
*
19703102 AGGGAAACAGATCGAAGACGAAGG
62 AGGGAAATA-ATCGAAGACGAAGG
* * * *
19703126 GTCTTAAACCCCTAAGCAGTAGGGTAACAGACCAAATTGTAGATCTTATCTCCCTAAGCATTAGT
1 GCCTTAAACCCCTAAGCAGTAGGGTAACAGGCCAAATT-TAGATCTTATCACCCTAAGCAGTAG-
* *
19703191 GGAGATAATCGAAGACGAAGA
64 GGAAATAATCGAAGACGAAGG
* ** * *
19703212 ACCTTAAACCCCTAAGCAGTAGGGTAACAGGTTAAATTCACAGATCTTATCACCCTAAGTAGTAG
1 GCCTTAAACCCCTAAGCAGTAGGGTAACAGGCCAAATT--TAGATCTTATCACCCTAAGCAGTAG
* *
19703277 GGAAACTGATCGAAGACGATGG
64 GGAAA-TAATCGAAGACGAAGG
* * * *
19703299 GCCTTAACCCCCTGAGTAGTAGGGTAATAGGC
1 GCCTTAAACCCCTAAGCAGTAGGGTAACAGGC
19703331 TAGAAATCAA
Statistics
Matches: 171, Mismatches: 30, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
86 71 0.42
87 68 0.40
88 3 0.02
89 29 0.17
ACGTcount: A:0.34, C:0.22, G:0.23, T:0.21
Consensus pattern (84 bp):
GCCTTAAACCCCTAAGCAGTAGGGTAACAGGCCAAATTTAGATCTTATCACCCTAAGCAGTAGGG
AAATAATCGAAGACGAAGG
Found at i:19703911 original size:14 final size:14
Alignment explanation
Indices: 19703894--19703927 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
19703884 AATATAAGAG
*
19703894 TCCAATAGCCCAAA
1 TCCAATAACCCAAA
19703908 TCCAATAACCCAAA
1 TCCAATAACCCAAA
*
19703922 CCCAAT
1 TCCAAT
19703928 TTATAAACCC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.44, C:0.38, G:0.03, T:0.15
Consensus pattern (14 bp):
TCCAATAACCCAAA
Found at i:19734471 original size:41 final size:41
Alignment explanation
Indices: 19734414--19734604 Score: 285
Period size: 41 Copynumber: 4.7 Consensus size: 41
19734404 TTGGGGTTTA
19734414 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAATGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAATGTCAT
*
19734455 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAATGTCAT
* *
19734496 AATCCGAGCTTGGTCTTGAAGGGCTTTTGAGCCAGTGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAATGTCAT
* * * * * * *
19734537 AA-CCGAACCTAGTTTCGAAGGGCCTTCGGGCCAATGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAATGTCAT
19734577 AATCCGAGCTTGGTCTCGAAGGGCTTTT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTT
19734605 TGAGTCAGCA
Statistics
Matches: 132, Mismatches: 17, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
40 31 0.23
41 101 0.77
ACGTcount: A:0.21, C:0.23, G:0.28, T:0.29
Consensus pattern (41 bp):
AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAATGTCAT
Found at i:19734598 original size:81 final size:82
Alignment explanation
Indices: 19734414--19734604 Score: 285
Period size: 81 Copynumber: 2.3 Consensus size: 82
19734404 TTGGGGTTTA
* * *
19734414 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAATGTCATAATCCGAGCTTGGTCTCGAAGGGC
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAATGTCATAATCCGAACCTAGTCTCGAAGGGC
* * *
19734479 TTTTGAGCCAGTGTCAT
66 CTTCGAGCCAATGTCAT
* * *
19734496 AATCCGAGCTTGGTCTTGAAGGGCTTTTGAGCCAGTGTCATAA-CCGAACCTAGTTTCGAAGGGC
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAATGTCATAATCCGAACCTAGTCTCGAAGGGC
*
19734560 CTTCGGGCCAATGTCAT
66 CTTCGAGCCAATGTCAT
19734577 AATCCGAGCTTGGTCTCGAAGGGCTTTT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTT
19734605 TGAGTCAGCA
Statistics
Matches: 98, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
81 57 0.58
82 41 0.42
ACGTcount: A:0.21, C:0.23, G:0.28, T:0.29
Consensus pattern (82 bp):
AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAATGTCATAATCCGAACCTAGTCTCGAAGGGC
CTTCGAGCCAATGTCAT
Found at i:19741714 original size:41 final size:41
Alignment explanation
Indices: 19741657--19741843 Score: 286
Period size: 41 Copynumber: 4.6 Consensus size: 41
19741647 GGGTTTAAAT
19741657 CGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCATAATC
1 CGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCATAATC
19741698 CGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCATAATC
1 CGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCATAATC
19741739 CGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCATAA-C
1 CGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCATAATC
* * * * * * * * *
19741779 CGAACCTAGTTTCGAAGGGCCTTCGGGCCAATGTTATAATC
1 CGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCATAATC
19741820 CGAGCTTGGTCTCGAAGGGCTTTT
1 CGAGCTTGGTCTCGAAGGGCTTTT
19741844 TGAGTCAGCG
Statistics
Matches: 130, Mismatches: 15, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
40 31 0.24
41 99 0.76
ACGTcount: A:0.20, C:0.22, G:0.29, T:0.29
Consensus pattern (41 bp):
CGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCATAATC
Found at i:19741847 original size:82 final size:82
Alignment explanation
Indices: 19741657--19741843 Score: 286
Period size: 81 Copynumber: 2.3 Consensus size: 82
19741647 GGGTTTAAAT
* * * * *
19741657 CGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCATAATCCGAGCTTGGTCTCGAAGGGCTTTT
1 CGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCATAATCCGAACCTAGTCTCGAAGGGCCTTC
*
19741722 GAGCCAGTGTCATAATC
66 GAGCCAATGTCATAATC
*
19741739 CGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCATAA-CCGAACCTAGTTTCGAAGGGCCTTC
1 CGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCATAATCCGAACCTAGTCTCGAAGGGCCTTC
* *
19741803 GGGCCAATGTTATAATC
66 GAGCCAATGTCATAATC
19741820 CGAGCTTGGTCTCGAAGGGCTTTT
1 CGAGCTTGGTCTCGAAGGGCTTTT
19741844 TGAGTCAGCG
Statistics
Matches: 96, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
81 57 0.59
82 39 0.41
ACGTcount: A:0.20, C:0.22, G:0.29, T:0.29
Consensus pattern (82 bp):
CGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCATAATCCGAACCTAGTCTCGAAGGGCCTTC
GAGCCAATGTCATAATC
Found at i:19750074 original size:30 final size:30
Alignment explanation
Indices: 19750005--19750074 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 30
19749995 ACACATTTCA
* * *
19750005 TTTTACAAGTCTAGGGGTTAAATTGCAAAT
1 TTTTAAAAGTCTAGGGGTAAAAATGCAAAT
* * * *
19750035 ATGTGAAAGTTTAGGGGTAAAAATGCAAAT
1 TTTTAAAAGTCTAGGGGTAAAAATGCAAAT
19750065 TTTTAAAAGT
1 TTTTAAAAGT
19750075 ATGATTTTTT
Statistics
Matches: 30, Mismatches: 10, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.39, C:0.06, G:0.21, T:0.34
Consensus pattern (30 bp):
TTTTAAAAGTCTAGGGGTAAAAATGCAAAT
Found at i:19753524 original size:81 final size:81
Alignment explanation
Indices: 19753384--19753542 Score: 291
Period size: 81 Copynumber: 2.0 Consensus size: 81
19753374 TTTATATAGG
*
19753384 CTTTGGATTGGCTTTCTTGCTCCCTAAGTACCCTTTTCCGTGTAAAATACAACTCTTTGAAAAAG
1 CTTTGGATTGGCTTTCTTGCTCCCTAAGTACCCTTTTCCGTGTAAAATACAACTATTTGAAAAAG
19753449 GGACACGACCGTGGCA
66 GGACACGACCGTGGCA
*
19753465 CTTTGGATTGGCTTTCTTGCTCCCTAAGTACCCTTTTTCGTGTAAAATACAACTATTTGAAAAAG
1 CTTTGGATTGGCTTTCTTGCTCCCTAAGTACCCTTTTCCGTGTAAAATACAACTATTTGAAAAAG
*
19753530 GGACACGGCCGTG
66 GGACACGACCGTG
19753543 TGCCACGGCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
81 75 1.00
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.32
Consensus pattern (81 bp):
CTTTGGATTGGCTTTCTTGCTCCCTAAGTACCCTTTTCCGTGTAAAATACAACTATTTGAAAAAG
GGACACGACCGTGGCA
Found at i:19753551 original size:13 final size:13
Alignment explanation
Indices: 19753533--19753557 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19753523 GAAAAAGGGA
19753533 CACGGCCGTGTGC
1 CACGGCCGTGTGC
19753546 CACGGCCGTGTG
1 CACGGCCGTGTG
19753558 GCGTAATTGC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.36, G:0.40, T:0.16
Consensus pattern (13 bp):
CACGGCCGTGTGC
Found at i:19755567 original size:5 final size:5
Alignment explanation
Indices: 19755557--19755666 Score: 63
Period size: 5 Copynumber: 21.8 Consensus size: 5
19755547 TATGTCTTTC
* *
19755557 AAAAT AAAAT --AAT AAAATT GAAAT AAAAT AAAAAT CAAAAG AAAA-
1 AAAAT AAAAT AAAAT AAAA-T AAAAT AAAAT -AAAAT -AAAAT AAAAT
*
19755602 AGAAA- AAGAA- AAAGA- AAAAG AAAAT -AAAT AAAAT AAAAT AAAAT
1 A-AAAT AA-AAT AAA-AT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT
*
19755646 AAAAAT AAGAAT AAATT AAAA
1 -AAAAT AA-AAT AAAAT AAAA
19755667 AAATAGGAGG
Statistics
Matches: 87, Mismatches: 7, Indels: 22
0.75 0.06 0.19
Matches are distributed among these distances:
3 3 0.03
4 8 0.09
5 53 0.61
6 23 0.26
ACGTcount: A:0.77, C:0.01, G:0.06, T:0.15
Consensus pattern (5 bp):
AAAAT
Found at i:19755590 original size:6 final size:6
Alignment explanation
Indices: 19755577--19755660 Score: 57
Period size: 6 Copynumber: 14.2 Consensus size: 6
19755567 AATAAAATTG
* * * * * *
19755577 AAAT-A AAATAA AAATCA AAAGAA AAAGAA AAAGAA AAAGAA AAA-GA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA
* *
19755623 AAATAA ATAAAATA AAAT-A AAATAA AAATAA GAATAA A
1 AAATAA A-AATA-A AAATAA AAATAA AAATAA AAATAA A
19755661 TTAAAAAAAT
Statistics
Matches: 65, Mismatches: 9, Indels: 9
0.78 0.11 0.11
Matches are distributed among these distances:
5 13 0.20
6 45 0.69
7 5 0.08
8 2 0.03
ACGTcount: A:0.80, C:0.01, G:0.07, T:0.12
Consensus pattern (6 bp):
AAATAA
Found at i:19755601 original size:12 final size:12
Alignment explanation
Indices: 19755593--19755625 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
19755583 AATAAAAATC
19755593 AAAAGAAAAAGA
1 AAAAGAAAAAGA
19755605 AAAAGAAAAAGA
1 AAAAGAAAAAGA
19755617 AAAAGAAAA
1 AAAAGAAAA
19755626 TAAATAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (12 bp):
AAAAGAAAAAGA
Found at i:19761057 original size:13 final size:13
Alignment explanation
Indices: 19761035--19761067 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
19761025 AAGGATTTGT
19761035 TTAT-TAAACTAA
1 TTATCTAAACTAA
19761047 TTATCTAAACTAA
1 TTATCTAAACTAA
*
19761060 TTAACTAA
1 TTATCTAA
19761068 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:19765179 original size:20 final size:21
Alignment explanation
Indices: 19765136--19765180 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
19765126 TTATTTTCAC
19765136 TTTAA-TTTATGTTTTTAATG
1 TTTAATTTTATGTTTTTAATG
19765156 -TTAATTTTAT-TTGTTT-ATG
1 TTTAATTTTATGTT-TTTAATG
19765175 TTTAAT
1 TTTAAT
19765181 AAGGGGGACA
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
19 9 0.41
20 13 0.59
ACGTcount: A:0.24, C:0.00, G:0.09, T:0.67
Consensus pattern (21 bp):
TTTAATTTTATGTTTTTAATG
Found at i:19767651 original size:20 final size:21
Alignment explanation
Indices: 19767610--19767654 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
19767600 AACACATGTA
* *
19767610 TTCA-CAAAATTTGAGAATTT
1 TTCATCAAAATTTGACAAATT
19767630 TTCATCAAAATTT-ACAAATT
1 TTCATCAAAATTTGACAAATT
19767650 TTCAT
1 TTCAT
19767655 TTTAGTCCCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 14 0.64
21 8 0.36
ACGTcount: A:0.40, C:0.13, G:0.04, T:0.42
Consensus pattern (21 bp):
TTCATCAAAATTTGACAAATT
Found at i:19768759 original size:60 final size:59
Alignment explanation
Indices: 19768682--19768834 Score: 154
Period size: 60 Copynumber: 2.6 Consensus size: 59
19768672 TTTAGTGTTA
*
19768682 ACTGGGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCCCT-TAC-AGTAAC-AGAGTAT
1 ACTGGGCC-TAGCCCATATCAATATCAATCTGGGCCATAG-CCCTATACAAGT--CGAGA-TAT
* * **
19768743 ACTGGGCCTAGCCCATATTAGTATCAATCTGGGCTGTAGCCCTATACAAGTCGAGATAT
1 ACTGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCCTATACAAGTCGAGATAT
* * *
19768802 ATTGGGCCTTGCCCATATCAACA-CAAT-TGGGCC
1 ACTGGGCCTAGCCCATATCAATATCAATCTGGGCC
19768835 CATTTCAATA
Statistics
Matches: 78, Mismatches: 11, Indels: 10
0.79 0.11 0.10
Matches are distributed among these distances:
57 5 0.06
58 4 0.05
59 26 0.33
60 32 0.41
61 11 0.14
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.26
Consensus pattern (59 bp):
ACTGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCCTATACAAGTCGAGATAT
Found at i:19771173 original size:27 final size:28
Alignment explanation
Indices: 19771123--19771192 Score: 74
Period size: 27 Copynumber: 2.6 Consensus size: 28
19771113 TATTTAATTA
* * *
19771123 CTAATAATAATAATTTTATAAATATA-T
1 CTAATAATAAAAATTTAATAAATACAGT
19771150 CTAATAATAAAAATTTCAAT-AATACAGT
1 CTAATAATAAAAATTT-AATAAATACAGT
*
19771178 -AAATAATAAAAATTT
1 CTAATAATAAAAATTT
19771193 TCAAACATAT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
27 34 0.92
28 3 0.08
ACGTcount: A:0.56, C:0.06, G:0.01, T:0.37
Consensus pattern (28 bp):
CTAATAATAAAAATTTAATAAATACAGT
Found at i:19772017 original size:188 final size:188
Alignment explanation
Indices: 19771693--19772066 Score: 617
Period size: 188 Copynumber: 2.0 Consensus size: 188
19771683 ACTGTTACAC
*
19771693 ACAGACATCTTTACAATTCAAATATCCTTTCTCCGACTAATTTTGTTATCATAAACCTCGTATTA
1 ACAGACATCTTTACAATTCAAATATCCTTTCCCCGACTAATTTTGTTATCATAAACCTCGTATTA
* *
19771758 TTCCACTCACTATCGAAAATCAAGTGTATTCAGAAATAATACAGTCAGTGATGGTACAGGAGTAT
66 TTCCACTCACTATCGAAAACCAAGTGTATTCAGAAATAATACAGTCAGTGATGGTACAGGAGGAT
* *
19771823 TAATGAGATAGAGTTACCATAAATTTCGTATCAGGATTGTCATAATCTCCAAAAAGTA
131 TAATGAGATAAAGTTACCATAAATTTCGTATCAGGATTGTCATAATCTCAAAAAAGTA
*
19771881 ACAGTCATCTTTACAATTCAAATATCCTTTCCCCGACTAATTTTGTTATCATAAACC-CTGTATT
1 ACAGACATCTTTACAATTCAAATATCCTTTCCCCGACTAATTTTGTTATCATAAACCTC-GTATT
* * * *
19771945 GTTCCAGTCACTATCGAAACCCAAGTGTATTCAGAAATAATACAGTCAGTGATGGTATAGGAGCG
65 ATTCCACTCACTATCGAAAACCAAGTGTATTCAGAAATAATACAGTCAGTGATGGTACAGGAG-G
*
19772010 A-TAATGAGATAAAGTTACCATAAATTTCGTATCGGGATTGTCATAATCTCAAAAAAG
129 ATTAATGAGATAAAGTTACCATAAATTTCGTATCAGGATTGTCATAATCTCAAAAAAG
19772067 GGAGATGTTA
Statistics
Matches: 173, Mismatches: 11, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
187 1 0.01
188 171 0.99
189 1 0.01
ACGTcount: A:0.36, C:0.18, G:0.14, T:0.32
Consensus pattern (188 bp):
ACAGACATCTTTACAATTCAAATATCCTTTCCCCGACTAATTTTGTTATCATAAACCTCGTATTA
TTCCACTCACTATCGAAAACCAAGTGTATTCAGAAATAATACAGTCAGTGATGGTACAGGAGGAT
TAATGAGATAAAGTTACCATAAATTTCGTATCAGGATTGTCATAATCTCAAAAAAGTA
Found at i:19778138 original size:2 final size:2
Alignment explanation
Indices: 19778131--19778188 Score: 107
Period size: 2 Copynumber: 29.0 Consensus size: 2
19778121 CTCAACATAT
*
19778131 CA CA CA CA CA CA CA CA CA CA CA TA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
19778173 CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA
19778189 TATATAAGCA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.50, C:0.48, G:0.00, T:0.02
Consensus pattern (2 bp):
CA
Found at i:19779803 original size:5 final size:5
Alignment explanation
Indices: 19779795--19779869 Score: 79
Period size: 5 Copynumber: 16.0 Consensus size: 5
19779785 TTTTTTTATA
* * *
19779795 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT AAAAT TTACT -TAA- ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
*
19779843 A-AGT A-AAT AT-AT ATAAT ATAAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
19779870 TATATGAATA
Statistics
Matches: 59, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
4 15 0.25
5 44 0.75
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.39
Consensus pattern (5 bp):
ATAAT
Found at i:19784129 original size:26 final size:25
Alignment explanation
Indices: 19784100--19784151 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 25
19784090 ACTTTTGTTA
19784100 AGGGACT-TTTGATGAAAATGTGAAAT
1 AGGGACTATTTG-TG-AAATGTGAAAT
19784126 AGGGACTAATTTGTGAAATGTGAAAT
1 AGGGACT-ATTTGTGAAATGTGAAAT
19784152 TTATGAGTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
26 18 0.75
27 2 0.08
28 4 0.17
ACGTcount: A:0.38, C:0.04, G:0.27, T:0.31
Consensus pattern (25 bp):
AGGGACTATTTGTGAAATGTGAAAT
Found at i:19784972 original size:105 final size:104
Alignment explanation
Indices: 19784786--19784995 Score: 384
Period size: 105 Copynumber: 2.0 Consensus size: 104
19784776 AGAGTATGAG
19784786 AATGAAATTACTATGAGTAAACAGGCATGTACATAAGCCTAAATTGTAAATTCATGATTATTGTG
1 AATGAAATTACTATGAGTAAACAGGCATGTACATAAGCCTAAATTGTAAATTCATGATTATTGTG
*
19784851 GAAATAATTGTTTACTACACATTGTGGTTGATAGTGTAC
66 GAAATAATTGTTTACTACACATTATGGTTGATAGTGTAC
*
19784890 AATGAAATTACTATGAGTAAACAGGCATGTACGTAAGCCTAAAATTGTAAATTCATGATTATTGT
1 AATGAAATTACTATGAGTAAACAGGCATGTACATAAGCCT-AAATTGTAAATTCATGATTATTGT
*
19784955 GGAAATAATTGTTTACTACCCATTATGGTTGATAGTGTAC
65 GGAAATAATTGTTTACTACACATTATGGTTGATAGTGTAC
19784995 A
1 A
19784996 TACTTGTGAT
Statistics
Matches: 102, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
104 39 0.38
105 63 0.62
ACGTcount: A:0.37, C:0.11, G:0.18, T:0.34
Consensus pattern (104 bp):
AATGAAATTACTATGAGTAAACAGGCATGTACATAAGCCTAAATTGTAAATTCATGATTATTGTG
GAAATAATTGTTTACTACACATTATGGTTGATAGTGTAC
Found at i:19792627 original size:2 final size:2
Alignment explanation
Indices: 19792620--19792649 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
19792610 ACAATTAAAG
*
19792620 TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
19792650 AGTCAATTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:19797297 original size:5 final size:5
Alignment explanation
Indices: 19797280--19797309 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
19797270 TCTTAGACCA
19797280 AATAT ATATAT AATAT AATAT AATAT AATA
1 AATAT A-ATAT AATAT AATAT AATAT AATA
19797310 AATTAGGAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 19 0.79
6 5 0.21
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
AATAT
Found at i:19801353 original size:19 final size:19
Alignment explanation
Indices: 19801329--19801370 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
19801319 ACAAATATAT
19801329 AAGGCAAGACTAGAGGTTA
1 AAGGCAAGACTAGAGGTTA
19801348 AAGGCAAGACTAGAGGTTA
1 AAGGCAAGACTAGAGGTTA
19801367 AAGG
1 AAGG
19801371 GTTTACTCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.43, C:0.10, G:0.33, T:0.14
Consensus pattern (19 bp):
AAGGCAAGACTAGAGGTTA
Found at i:19804752 original size:66 final size:68
Alignment explanation
Indices: 19804676--19804862 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
19804666 TAGTACCACT
*
19804676 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
19804738 CACG
65 CACG
19804742 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
19804807 ATCACG
63 ATCACG
19804813 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
19804863 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:19804787 original size:71 final size:71
Alignment explanation
Indices: 19804699--19804862 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
19804689 CGATTTGTCT
19804699 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
19804764 CTTTCA
66 CTTTCA
19804770 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
19804835 CTTTCA
66 CTTTCA
19804841 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
19804863 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:19804900 original size:71 final size:70
Alignment explanation
Indices: 19804699--19804896 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
19804689 CGATTTGTCT
* * *
19804699 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
19804764 CTTTCA
65 CTTTCA
* * *
19804770 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
19804835 CTTTCA
65 CTTTCA
* *
19804841 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
19804897 TACAGGGTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 96 0.79
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:19812319 original size:66 final size:68
Alignment explanation
Indices: 19812243--19812429 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
19812233 TAGTACCACT
*
19812243 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
19812305 CACG
65 CACG
19812309 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
19812374 ATCACG
63 ATCACG
19812380 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
19812430 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:19812354 original size:71 final size:71
Alignment explanation
Indices: 19812266--19812429 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
19812256 CGATTTGTCT
19812266 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
19812331 CTTTCA
66 CTTTCA
19812337 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
19812402 CTTTCA
66 CTTTCA
19812408 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
19812430 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:19812467 original size:71 final size:70
Alignment explanation
Indices: 19812266--19812463 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
19812256 CGATTTGTCT
* * *
19812266 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
19812331 CTTTCA
65 CTTTCA
* * *
19812337 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
19812402 CTTTCA
65 CTTTCA
* *
19812408 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
19812464 TACAGGGTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 96 0.79
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:19814075 original size:22 final size:23
Alignment explanation
Indices: 19814038--19814080 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
19814028 TTGTAACTAA
* *
19814038 CCTTGCGATTTTTACTCTTTTGC
1 CCTTGCGATATTTACTATTTTGC
19814061 CCTTGC-ATATTTACTATTTT
1 CCTTGCGATATTTACTATTTT
19814081 ACCTTTCTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.14, C:0.23, G:0.09, T:0.53
Consensus pattern (23 bp):
CCTTGCGATATTTACTATTTTGC
Found at i:19815630 original size:13 final size:14
Alignment explanation
Indices: 19815606--19815634 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
19815596 TAATGTTAAA
19815606 AAAATATATTATTT
1 AAAATATATTATTT
19815620 AAAAT-TATTATTT
1 AAAATATATTATTT
19815633 AA
1 AA
19815635 GTTCAATAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
AAAATATATTATTT
Found at i:19819527 original size:12 final size:12
Alignment explanation
Indices: 19819510--19819541 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
19819500 TGAGACACAA
19819510 GCCCGTGTCTCT
1 GCCCGTGTCTCT
19819522 GCCCGTGTCTCT
1 GCCCGTGTCTCT
19819534 GCCCGTGT
1 GCCCGTGT
19819542 GGACAAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.00, C:0.41, G:0.28, T:0.31
Consensus pattern (12 bp):
GCCCGTGTCTCT
Found at i:19820447 original size:41 final size:41
Alignment explanation
Indices: 19820385--19820565 Score: 167
Period size: 41 Copynumber: 4.5 Consensus size: 41
19820375 AATACTCGAT
* * *
19820385 ATCTCGCACACTAAGTACCTTTCATAGCTGAAGCTAT-TATA
1 ATCTCGCACACTAAGTGCCTTTCATAGCCGAAGCTATCT-CA
19820426 ATCTCGCACACTAAGTGCCTTTCATAGCCGAAGCTATCTCA
1 ATCTCGCACACTAAGTGCCTTTCATAGCCGAAGCTATCTCA
* * * * *
19820467 GTCTCACACACTAAGTGCCATAT-ATAGCCAAAGCTAT-TCCG
1 ATCTCGCACACTAAGTGCC-TTTCATAGCCGAAGCTATCT-CA
* * *
19820508 AT-TTGCACACTAAGTG-CTTTATATAGCCGAAGCTATCTCG
1 ATCTCGCACACTAAGTGCCTTT-CATAGCCGAAGCTATCTCA
* *
19820548 AT-ACGCACACTAAATGCC
1 ATCTCGCACACTAAGTGCC
19820566 AAACATAATC
Statistics
Matches: 117, Mismatches: 16, Indels: 14
0.80 0.11 0.10
Matches are distributed among these distances:
38 2 0.02
39 1 0.01
40 41 0.35
41 70 0.60
42 3 0.03
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.28
Consensus pattern (41 bp):
ATCTCGCACACTAAGTGCCTTTCATAGCCGAAGCTATCTCA
Found at i:19820531 original size:40 final size:40
Alignment explanation
Indices: 19820430--19820566 Score: 127
Period size: 40 Copynumber: 3.4 Consensus size: 40
19820420 ATTATAATCT
* * *
19820430 CGCACACTAAGTGCC-TTTCATAGCCGAAGCTATCTC-AGTCT
1 CGCACACTAAGTGCCATAT-ATAGCCAAAGCTATCTCGA-T-A
* *
19820471 CACACACTAAGTGCCATATATAGCCAAAGCTAT-TCCGATT
1 CGCACACTAAGTGCCATATATAGCCAAAGCTATCT-CGATA
* ** *
19820511 TGCACACTAAGTGCTTTATATAGCCGAAGCTATCTCGATA
1 CGCACACTAAGTGCCATATATAGCCAAAGCTATCTCGATA
*
19820551 CGCACACTAAATGCCA
1 CGCACACTAAGTGCCA
19820567 AACATAATCG
Statistics
Matches: 79, Mismatches: 13, Indels: 9
0.78 0.13 0.09
Matches are distributed among these distances:
40 46 0.58
41 30 0.38
42 3 0.04
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.26
Consensus pattern (40 bp):
CGCACACTAAGTGCCATATATAGCCAAAGCTATCTCGATA
Found at i:19824513 original size:26 final size:25
Alignment explanation
Indices: 19824484--19824583 Score: 110
Period size: 26 Copynumber: 3.9 Consensus size: 25
19824474 AATTTTCTTG
*
19824484 AAATTTTATCGGGGGTAAAATTGTTA
1 AAATTTTA-CGGGGGTAAAATTGTCA
* *
19824510 AAATTTTATCAGGGGTAAAATCGTCA
1 AAATTTTA-CGGGGGTAAAATTGTCA
* *
19824536 AAATTTTACGAAGGATAAAATTGTCA
1 AAATTTTACG-GGGGTAAAATTGTCA
* *
19824562 AAATTTTACTGGGGTAGAATTG
1 AAATTTTACGGGGGTAAAATTG
19824584 GGGTGAGAAA
Statistics
Matches: 62, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
25 10 0.16
26 52 0.84
ACGTcount: A:0.38, C:0.07, G:0.21, T:0.34
Consensus pattern (25 bp):
AAATTTTACGGGGGTAAAATTGTCA
Found at i:19827791 original size:11 final size:11
Alignment explanation
Indices: 19827750--19827797 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
19827740 ATTAGATAAA
19827750 TATTATTTTAT
1 TATTATTTTAT
* *
19827761 TAATACTTTAAT
1 TATTA-TTTTAT
*
19827773 AATATATTTTAT
1 TAT-TATTTTAT
19827785 TATTATTTTAT
1 TATTATTTTAT
19827796 TA
1 TA
19827798 GTATATAAAG
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
11 14 0.48
12 13 0.45
13 2 0.07
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.62
Consensus pattern (11 bp):
TATTATTTTAT
Found at i:19831222 original size:40 final size:40
Alignment explanation
Indices: 19831172--19831416 Score: 183
Period size: 40 Copynumber: 6.1 Consensus size: 40
19831162 CGGAATTTAA
* * * *
19831172 CCGGATATAGTGACTCGCTCGATTGTCTTCGGGACA-TAGC
1 CCGGTTATAGTGACTCGCACAATTGCCTTCGGGA-ATTAGC
*
19831212 CCGGTTATAGTGATTCGCACAATTGCCTTCGGGAATTAGC
1 CCGGTTATAGTGACTCGCACAATTGCCTTCGGGAATTAGC
* * * * *
19831252 CCGGATT-TAGTAACTCGCACAAATGCCTTCGAGACTTAAC
1 CCGG-TTATAGTGACTCGCACAATTGCCTTCGGGAATTAGC
* * * * * *
19831292 CCGGTTTTGGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGTTATAGTGACTCGCACAATTGCCTTCGGGAATTAGC
* * * * *
19831332 CCGGTTTTGGTAACTCGCACAAATACCTTCGGGAATT-GAC
1 CCGGTTATAGTGACTCGCACAATTGCCTTCGGGAATTAG-C
* * ** *
19831372 CCGGATT-TAGTCACTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGG-TTATAGTGAC-TCGCACAATTGCCTTCGGGAATTAGC
19831413 CCGG
1 CCGG
19831417 ATACCATTCG
Statistics
Matches: 176, Mismatches: 22, Indels: 13
0.83 0.10 0.06
Matches are distributed among these distances:
39 3 0.02
40 144 0.82
41 28 0.16
42 1 0.01
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGTTATAGTGACTCGCACAATTGCCTTCGGGAATTAGC
Found at i:19831296 original size:80 final size:79
Alignment explanation
Indices: 19831211--19831418 Score: 245
Period size: 80 Copynumber: 2.6 Consensus size: 79
19831201 CGGGACATAG
* * *
19831211 CCCGGTTATAGTGATTCGCACAATTGCCTTCGGGAATTAGCCCGGATTTAGTAACTCGCACAAAT
1 CCCGGTT-TAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAAT
* *
19831276 GCCTTCGAGACTTAA
65 ACCTTCGAGAATTAA
* * * * *
19831291 CCCGGTTTTGGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAAT
1 CCCGG-TTTAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAAT
* *
19831356 ACCTTCGGGAATTGA
65 ACCTTCGAGAATTAA
* * *
19831371 CCCGGATTTAGTCACTTAGCACAAAAGCCTTCGGGACTTAGCCCGGAT
1 CCCGG-TTTAGT-AATTCGCACAAATGCCTTCGGGACTTAGCCCGGAT
19831419 ACCATTCGAA
Statistics
Matches: 106, Mismatches: 20, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
80 75 0.71
81 31 0.29
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (79 bp):
CCCGGTTTAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATA
CCTTCGAGAATTAA
Found at i:19833305 original size:46 final size:46
Alignment explanation
Indices: 19833238--19833549 Score: 426
Period size: 46 Copynumber: 7.0 Consensus size: 46
19833228 AGTGTGCTCT
*
19833238 CTGATATGAAATGTGTCAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
19833284 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
19833330 C-----TG---TGTGTAAGACCATGGTTGAAAGATACCATGGAAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
19833368 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
19833414 CTGATATGAGATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * **
19833460 GTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
19833506 ATGACA-GAAAATGAGTAAGATCATGGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
19833550 TCACGTCAAA
Statistics
Matches: 241, Mismatches: 16, Indels: 18
0.88 0.06 0.07
Matches are distributed among these distances:
38 35 0.15
41 2 0.01
43 2 0.01
45 1 0.00
46 201 0.83
ACGTcount: A:0.38, C:0.15, G:0.25, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:19833390 original size:84 final size:87
Alignment explanation
Indices: 19833248--19833505 Score: 387
Period size: 84 Copynumber: 2.9 Consensus size: 87
19833238 CTGATATGAA
*
19833248 ATGTGTCAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTG
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTG
19833313 AAAGATACCATGGCAACC-T-G
66 AAAGATACCATGGCAACCATAG
*
19833333 -TGTGTAAGACCATGGTTGAAAGATACCATGGAAACCTGATATGAAATGTGTAAGACCATGGTTG
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTG
19833397 AAAGATACCATGGCAACCTGATATGAG
66 AAAGATACCATGGCAACC----AT-AG
* * * **
19833424 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAATAAGACCATGGTTG
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTG
19833489 AAAGATACCATGGCAAC
66 AAAGATACCATGGCAAC
19833506 ATGACAGAAA
Statistics
Matches: 157, Mismatches: 8, Indels: 9
0.90 0.05 0.05
Matches are distributed among these distances:
84 80 0.51
89 1 0.01
91 1 0.01
92 75 0.48
ACGTcount: A:0.37, C:0.16, G:0.25, T:0.22
Consensus pattern (87 bp):
ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTG
AAAGATACCATGGCAACCATAG
Found at i:19836523 original size:6 final size:6
Alignment explanation
Indices: 19836505--19836624 Score: 68
Period size: 6 Copynumber: 19.3 Consensus size: 6
19836495 AAGAAACATT
* * * *
19836505 ATCAGA A-CTAGA ATCAGA ATTAGA ATCAGA ATTAG- GTGACAGA ATCAAA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* * *
19836554 ATCAGA ATCAGT ATCAGGTA AT-AGA ATCAAA ATCAGA ATCAGT ATCAGGTA
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A
*
19836605 A-CAGA ATCAAAA ATCAGA AT
1 ATCAGA ATC-AGA ATCAGA AT
19836625 GTGAATGCAA
Statistics
Matches: 86, Mismatches: 16, Indels: 24
0.68 0.13 0.19
Matches are distributed among these distances:
5 7 0.08
6 62 0.72
7 13 0.15
8 4 0.05
ACGTcount: A:0.49, C:0.13, G:0.17, T:0.21
Consensus pattern (6 bp):
ATCAGA
Found at i:19836561 original size:31 final size:31
Alignment explanation
Indices: 19836514--19836624 Score: 159
Period size: 31 Copynumber: 3.5 Consensus size: 31
19836504 TATCAGAACT
* * * * *
19836514 AGAATCAGAATTAGAATCAGAATTAGGTGAC
1 AGAATCAAAATCAGAATCAGTATCAGGTAAC
*
19836545 AGAATCAAAATCAGAATCAGTATCAGGTAAT
1 AGAATCAAAATCAGAATCAGTATCAGGTAAC
19836576 AGAATCAAAATCAGAATCAGTATCAGGTAAC
1 AGAATCAAAATCAGAATCAGTATCAGGTAAC
19836607 AGAATCAAAAATCAGAAT
1 AGAATC-AAAATCAGAAT
19836625 GTGAATGCAA
Statistics
Matches: 72, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
31 61 0.85
32 11 0.15
ACGTcount: A:0.50, C:0.13, G:0.17, T:0.21
Consensus pattern (31 bp):
AGAATCAAAATCAGAATCAGTATCAGGTAAC
Found at i:19836766 original size:27 final size:26
Alignment explanation
Indices: 19836723--19836824 Score: 123
Period size: 27 Copynumber: 3.8 Consensus size: 26
19836713 GCTCAGTTAT
** *
19836723 CAGATATTGTGATAGAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGA-A
19836750 CAGATATTGTGGCAGAGCCACCAGAA
1 CAGATATTGTGGCAGAGCCACCAGAA
*
19836776 CAGATATTTGTGGCATAGCCACCAGAAA
1 CAGATA-TTGTGGCAGAGCCACCAG-AA
* *
19836804 CAGATAATGTGGCAAAGCCAC
1 CAGATATTGTGGCAGAGCCAC
19836825 TTAACAGAAT
Statistics
Matches: 67, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
26 7 0.10
27 52 0.78
28 8 0.12
ACGTcount: A:0.36, C:0.21, G:0.24, T:0.20
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAA
Found at i:19837011 original size:22 final size:22
Alignment explanation
Indices: 19836983--19837047 Score: 87
Period size: 22 Copynumber: 3.0 Consensus size: 22
19836973 GCAAATACGT
*
19836983 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
*
19837005 TTGGCACAGAGCCATATAT-AGG
1 TTGGCACAAAGCCATA-ATCAGG
*
19837027 TTGACACAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
19837048 AAGGCTTTAA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
21 2 0.05
22 34 0.89
23 2 0.05
ACGTcount: A:0.35, C:0.23, G:0.22, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:19837492 original size:27 final size:27
Alignment explanation
Indices: 19837436--19837628 Score: 219
Period size: 27 Copynumber: 7.2 Consensus size: 27
19837426 GGGCAAAATG
* * * * *
19837436 GTAATTTTACCCCACA-AGGTATCTTG
1 GTAATTCTACCCTACAGGGGTATTTTA
* *
19837462 GTAATTCCACTCTACAGGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTTA
*
19837489 GTAATTCTACCCTATAGGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTTA
* **
19837516 GTAATTTTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTTA
* **
19837543 GTAATTCTACCCTACAAGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTTA
* *
19837570 GTAATTCTACCCTACATGGGTA-TTTC
1 GTAATTCTACCCTACAGGGGTATTTTA
*
19837596 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTTA
19837623 GTAATT
1 GTAATT
19837629 TCACAATCGA
Statistics
Matches: 143, Mismatches: 22, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
26 35 0.24
27 108 0.76
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.37
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTTA
Found at i:19837558 original size:81 final size:80
Alignment explanation
Indices: 19837436--19837628 Score: 246
Period size: 80 Copynumber: 2.4 Consensus size: 80
19837426 GGGCAAAATG
* * * * *
19837436 GTAATTTTACCCCACA-AGGTATCTT-GGTAATTCCACTCTACAGGGGTATTTTAGTAATTCTAC
1 GTAATTTTACCCTACAGGGGTAT-TTCGGTAATTCCACCCTACAAGGGTATTTCAGTAATTCTAC
*
19837499 CCTATAGGGGTATTTTA
65 CCTACAGGGGTA-TTTA
* *
19837516 GTAATTTTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACC
1 GTAATTTTACCCTACAGGGGTATTTCGGTAATTCCACCCTACAAGGGTATTTCAGTAATTCTACC
* *
19837581 CTACATGGGTATTTC
66 CTACAGGGGTATTTA
* *
19837596 GTAATTCTACCCTACAGGGGTATTTCAGTAATT
1 GTAATTTTACCCTACAGGGGTATTTCGGTAATT
19837629 TCACAATCGA
Statistics
Matches: 99, Mismatches: 12, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
80 51 0.52
81 48 0.48
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.37
Consensus pattern (80 bp):
GTAATTTTACCCTACAGGGGTATTTCGGTAATTCCACCCTACAAGGGTATTTCAGTAATTCTACC
CTACAGGGGTATTTA
Found at i:19837667 original size:27 final size:27
Alignment explanation
Indices: 19837633--19837830 Score: 263
Period size: 27 Copynumber: 7.3 Consensus size: 27
19837623 GTAATTTCAC
*
19837633 AATCGAGGGTAAAACGGTAATTGTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
19837660 AA-CTGAGGGTAAAATGGTAATTTTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
*
19837687 AATCGAGGATAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
19837714 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
19837741 AATCGAAGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
19837768 AATCGAGGGTGAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* **
19837795 AATCGAGGGTAAAATGGTAATTCTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
19837822 AATCGAGGG
1 AATCGAGGG
19837831 CATTTCAGTA
Statistics
Matches: 150, Mismatches: 19, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
26 1 0.01
27 148 0.99
28 1 0.01
ACGTcount: A:0.39, C:0.09, G:0.25, T:0.27
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:19837726 original size:81 final size:81
Alignment explanation
Indices: 19837633--19837827 Score: 293
Period size: 81 Copynumber: 2.4 Consensus size: 81
19837623 GTAATTTCAC
* * * * *
19837633 AATCGAGGGTAAAACGGTAATTGTGTAAA-CTGAGGGTAAAATGGTAATTTTGTAAATCGAGGAT
1 AATCGAGGGTAAAATGGTAATTCTATAAATC-GAAGGTAAAACGGTAATTTTGTAAATCGAGGAT
*
19837697 AAAACGGTAATTCTGTA
65 AAAACGGTAATTCTATA
* *
19837714 AATCGAGGGTAAAATGGTAATTCTATAAATCGAAGGTAAAACGGTAATTTTGTAAATCGAGGGTG
1 AATCGAGGGTAAAATGGTAATTCTATAAATCGAAGGTAAAACGGTAATTTTGTAAATCGAGGATA
19837779 AAACGGTAATTCTATA
66 AAACGGTAATTCTATA
*
19837795 AATCGAGGGTAAAATGGTAATTCTACAAATCGA
1 AATCGAGGGTAAAATGGTAATTCTATAAATCGA
19837828 GGGCATTTCA
Statistics
Matches: 104, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
81 103 0.99
82 1 0.01
ACGTcount: A:0.39, C:0.09, G:0.24, T:0.28
Consensus pattern (81 bp):
AATCGAGGGTAAAATGGTAATTCTATAAATCGAAGGTAAAACGGTAATTTTGTAAATCGAGGATA
AAACGGTAATTCTATA
Found at i:19837842 original size:81 final size:81
Alignment explanation
Indices: 19837676--19837850 Score: 260
Period size: 81 Copynumber: 2.2 Consensus size: 81
19837666 GGGTAAAATG
* *
19837676 GTAATTTTGTAAATCGAGGATAAAACGGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTATA
1 GTAATTTTGTAAATCGAGGATAAAACGGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTACA
* *
19837741 AATCGAAGGTAAAACG
66 AATCGAAGGCAAAACA
* *
19837757 GTAATTTTGTAAATCGAGGGTGAAACGGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTACA
1 GTAATTTTGTAAATCGAGGATAAAACGGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTACA
* ***
19837822 AATCGAGGGCATTTCA
66 AATCGAAGGCAAAACA
19837838 GTAATTTTGTAAA
1 GTAATTTTGTAAA
19837851 CTAATAGTAT
Statistics
Matches: 84, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
81 84 1.00
ACGTcount: A:0.38, C:0.09, G:0.22, T:0.30
Consensus pattern (81 bp):
GTAATTTTGTAAATCGAGGATAAAACGGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTACA
AATCGAAGGCAAAACA
Found at i:19837924 original size:27 final size:27
Alignment explanation
Indices: 19837884--19838089 Score: 261
Period size: 27 Copynumber: 7.6 Consensus size: 27
19837874 AGAAAGTCAA
** *
19837884 GGGTATTTCT-GTAATTTTGTAAATCAG
1 GGGTATTT-TGGTAATTTTACAAACCAG
* ** *
19837911 GGGTATTTTGGTAATTGTACAAATTAA
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
19837938 GGGTATTTCGGTAATTTCACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* **
19837965 TGGTATTTTAATAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
19837992 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
*
19838019 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
19838046 GGGTATTTTAGTAATTTTACAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
19838073 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
19838090 GGTAATTTGG
Statistics
Matches: 154, Mismatches: 24, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
26 1 0.01
27 153 0.99
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCAG
Found at i:19840165 original size:66 final size:67
Alignment explanation
Indices: 19840036--19840169 Score: 243
Period size: 66 Copynumber: 2.0 Consensus size: 67
19840026 ATACACTGAT
*
19840036 ATAATGACTCATAGAGTCGTACATGTCCTATAAGTATAGCGTATAGCTAACACTCTCCAACACAC
1 ATAATGACTCATAGAGTCGTACATGTCCCATAAGTATAGCGTATAGCTAACACTCTCCAACACAC
19840101 CA
66 CA
*
19840103 ATAATGACTCATAGAGTCGTACATGTCCCA-AAGTGTAGCGTATAGCTAACACTCTCCAACACAC
1 ATAATGACTCATAGAGTCGTACATGTCCCATAAGTATAGCGTATAGCTAACACTCTCCAACACAC
19840167 CA
66 CA
19840169 A
1 A
19840170 ACACATATAT
Statistics
Matches: 65, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
66 36 0.55
67 29 0.45
ACGTcount: A:0.36, C:0.26, G:0.14, T:0.24
Consensus pattern (67 bp):
ATAATGACTCATAGAGTCGTACATGTCCCATAAGTATAGCGTATAGCTAACACTCTCCAACACAC
CA
Found at i:19847237 original size:54 final size:54
Alignment explanation
Indices: 19847169--19847289 Score: 138
Period size: 54 Copynumber: 2.2 Consensus size: 54
19847159 AGAATTTGCA
** *
19847169 GCATGGCTGCCAGAACAGATA-ATGTGACAGAGTCACCAAATACAGATAATCGTG
1 GCATGGCCACCAGAACAGATATATGTGACAGAGCCACCAAAT-CAGATAATCGTG
* * * * *
19847223 GCA-GAGCCACCAGAATAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTG
1 GCATG-GCCACCAGAACAGATATATGTGACAGAGCCACCAAATCAGATAATCGTG
19847277 GCATGGCCACCAG
1 GCATGGCCACCAG
19847290 GATGCTTCCT
Statistics
Matches: 56, Mismatches: 8, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
53 1 0.02
54 37 0.66
55 18 0.32
ACGTcount: A:0.34, C:0.22, G:0.26, T:0.18
Consensus pattern (54 bp):
GCATGGCCACCAGAACAGATATATGTGACAGAGCCACCAAATCAGATAATCGTG
Found at i:19847242 original size:27 final size:27
Alignment explanation
Indices: 19847178--19847289 Score: 117
Period size: 27 Copynumber: 4.1 Consensus size: 27
19847168 AGCATGGCTG
* *
19847178 CCAGAA-CAGATAATGTGACAGAGTCA
1 CCAGAATCAGATAATGTGGCAGAGCCA
19847204 CCA-AATACAGATAATCGTGGCAGAGCCA
1 CCAGAAT-CAGATAAT-GTGGCAGAGCCA
19847232 CCAGAAT-AGATATATGTGGCAGAGCCA
1 CCAGAATCAGATA-ATGTGGCAGAGCCA
*
19847259 CCAG-ATCAGATATTTGTGGCATG-GCCA
1 CCAGAATCAGATA-ATGTGGCA-GAGCCA
19847286 CCAG
1 CCAG
19847290 GATGCTTCCT
Statistics
Matches: 76, Mismatches: 3, Indels: 13
0.83 0.03 0.14
Matches are distributed among these distances:
25 2 0.03
26 5 0.07
27 50 0.66
28 16 0.21
29 3 0.04
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (27 bp):
CCAGAATCAGATAATGTGGCAGAGCCA
Found at i:19847698 original size:8 final size:8
Alignment explanation
Indices: 19847682--19847711 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
19847672 CTCAAAATAC
19847682 CGGCTTTT
1 CGGCTTTT
*
19847690 CGGCATTT
1 CGGCTTTT
19847698 CGGCTTTT
1 CGGCTTTT
19847706 CGGCTT
1 CGGCTT
19847712 GTGCCGATCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.03, C:0.27, G:0.27, T:0.43
Consensus pattern (8 bp):
CGGCTTTT
Found at i:19848913 original size:26 final size:26
Alignment explanation
Indices: 19848883--19848938 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
19848873 TGAAATGCCC
*
19848883 ATCATGGAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
19848909 ATCATGAAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
19848935 ATCA
1 ATCA
19848939 ATTTTTATCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.38, C:0.27, G:0.05, T:0.30
Consensus pattern (26 bp):
ATCATGAAACATTTACCTAACCCATT
Found at i:19852282 original size:34 final size:34
Alignment explanation
Indices: 19852214--19852330 Score: 119
Period size: 34 Copynumber: 3.4 Consensus size: 34
19852204 GGCTCGCATG
* * * **
19852214 ACATATAGGCTTGCATAAACCTAGGGTTTGCATA
1 ACATATAGGCTCGCATAATCTTAGGGTTCACATA
* * * *
19852248 ATATGTAGGCTCGCATGGA-CTTATGGTTCACATA
1 ACATATAGGCTCGCAT-AATCTTAGGGTTCACATA
*
19852282 ACATATAGGCTCGCATAATCTTAGGGTTCACATG
1 ACATATAGGCTCGCATAATCTTAGGGTTCACATA
*
19852316 GCATATAGGCTCGCA
1 ACATATAGGCTCGCA
19852331 CAGGTAGGGC
Statistics
Matches: 67, Mismatches: 14, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
33 1 0.01
34 65 0.97
35 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (34 bp):
ACATATAGGCTCGCATAATCTTAGGGTTCACATA
Found at i:19852739 original size:16 final size:16
Alignment explanation
Indices: 19852717--19852767 Score: 61
Period size: 15 Copynumber: 3.3 Consensus size: 16
19852707 GGGTCACAGT
*
19852717 AGGGGGTTTGCATGTA
1 AGGGGGTTTGCATATA
*
19852733 TGGGGG-TTGCATATA
1 AGGGGGTTTGCATATA
*
19852748 AGGGGGTTCGCATAT-
1 AGGGGGTTTGCATATA
19852763 AGGGG
1 AGGGG
19852768 TTTACATGCA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
15 18 0.60
16 12 0.40
ACGTcount: A:0.20, C:0.08, G:0.45, T:0.27
Consensus pattern (16 bp):
AGGGGGTTTGCATATA
Found at i:19853773 original size:41 final size:39
Alignment explanation
Indices: 19853704--19853798 Score: 100
Period size: 41 Copynumber: 2.4 Consensus size: 39
19853694 CCAGTTTGGA
* * * * *
19853704 ACCCAATGTCTCATCGAATAATTGAAGTAATAATTTGAC
1 ACCCAGTGCCTCATCAAATAATTGAAGTAACAAATTGAC
* *
19853743 ATCCAGTGCCTCATCAAATTAATTCGAAGTAGCAAATTGAC
1 ACCCAGTGCCTCATCAAA-TAATT-GAAGTAACAAATTGAC
*
19853784 ACCCAGTGTCTCATC
1 ACCCAGTGCCTCATC
19853799 GACTCAAAGT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
39 14 0.31
40 5 0.11
41 26 0.58
ACGTcount: A:0.35, C:0.23, G:0.14, T:0.28
Consensus pattern (39 bp):
ACCCAGTGCCTCATCAAATAATTGAAGTAACAAATTGAC
Found at i:19854710 original size:28 final size:33
Alignment explanation
Indices: 19854639--19854704 Score: 84
Period size: 34 Copynumber: 2.1 Consensus size: 33
19854629 CCTTTTTCTT
* *
19854639 TTCTTTC-CTTTCTATTTCTTTCTTTTTCGTTTG
1 TTCTTTCTATTTCTATTTCTTTC-TTTTCATTTG
19854672 TTCTTTCTATTTCTATTTCTTTC-TTT-ATTTG
1 TTCTTTCTATTTCTATTTCTTTCTTTTCATTTG
19854703 TT
1 TT
19854705 TTTATTATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
31 6 0.20
32 3 0.10
33 7 0.23
34 14 0.47
ACGTcount: A:0.06, C:0.18, G:0.05, T:0.71
Consensus pattern (33 bp):
TTCTTTCTATTTCTATTTCTTTCTTTTCATTTG
Found at i:19857180 original size:3 final size:3
Alignment explanation
Indices: 19857167--19857260 Score: 172
Period size: 3 Copynumber: 31.7 Consensus size: 3
19857157 TTTATTTCCT
19857167 TTC TT- TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
*
19857214 TTC TTC TTC TTC TTC TTC TTC TTC TTC TCC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
19857261 TAGATCATTC
Statistics
Matches: 88, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
2 2 0.02
3 86 0.98
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:19858115 original size:15 final size:15
Alignment explanation
Indices: 19858095--19858124 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
19858085 TGCTTTCTCC
19858095 TTCTTTTCTTCCCTT
1 TTCTTTTCTTCCCTT
*
19858110 TTCTTTTCTTTCCTT
1 TTCTTTTCTTCCCTT
19858125 CATGTTTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (15 bp):
TTCTTTTCTTCCCTT
Found at i:19860016 original size:22 final size:22
Alignment explanation
Indices: 19859991--19860034 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
19859981 AAGGGTGGAC
19859991 GATTTTGGAGA-GAAGATTAAGG
1 GATTTTGGAGAGGAA-ATTAAGG
*
19860013 GATTTTGGTGAGGAAATTAAGG
1 GATTTTGGAGAGGAAATTAAGG
19860035 AGTGAGGAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 17 0.85
23 3 0.15
ACGTcount: A:0.34, C:0.00, G:0.36, T:0.30
Consensus pattern (22 bp):
GATTTTGGAGAGGAAATTAAGG
Found at i:19860345 original size:22 final size:22
Alignment explanation
Indices: 19860319--19860362 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
19860309 AGGAGTGGAT
19860319 GATTTTGGGGA-GAAGATTAAGG
1 GATTTTGGGGAGGAA-ATTAAGG
*
19860341 GATTTTGGTGAGGAAATTAAGG
1 GATTTTGGGGAGGAAATTAAGG
19860363 AGTGAGGAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 17 0.85
23 3 0.15
ACGTcount: A:0.32, C:0.00, G:0.39, T:0.30
Consensus pattern (22 bp):
GATTTTGGGGAGGAAATTAAGG
Found at i:19872309 original size:18 final size:19
Alignment explanation
Indices: 19872286--19872322 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
19872276 GCGACAAGTG
19872286 ACGTTTTGGAAA-TTAATA
1 ACGTTTTGGAAATTTAATA
19872304 ACGTTTTGGAAATTTAATA
1 ACGTTTTGGAAATTTAATA
19872323 TCATTCTGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.38, C:0.05, G:0.16, T:0.41
Consensus pattern (19 bp):
ACGTTTTGGAAATTTAATA
Found at i:19875648 original size:22 final size:22
Alignment explanation
Indices: 19875615--19875674 Score: 63
Period size: 21 Copynumber: 2.8 Consensus size: 22
19875605 ATTAAAAATG
19875615 TAAAAGAA-TATTTAAAAAACAT
1 TAAAA-AATTATTTAAAAAACAT
* *
19875637 TAAAAAATTATTCCAAAAATCAT
1 TAAAAAATTATT-TAAAAAACAT
19875660 T--AAAATTATTTAAAA
1 TAAAAAATTATTTAAAA
19875675 TTGTATTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
20 4 0.12
21 11 0.33
22 9 0.27
23 9 0.27
ACGTcount: A:0.60, C:0.07, G:0.02, T:0.32
Consensus pattern (22 bp):
TAAAAAATTATTTAAAAAACAT
Found at i:19875725 original size:85 final size:85
Alignment explanation
Indices: 19875565--19875832 Score: 488
Period size: 85 Copynumber: 3.2 Consensus size: 85
19875555 TTTTGACTGG
19875565 CCAAAAATCATTAAAATTATTTAAAATTGTA-TTTTAAAAAATTAAAAATGTAAAAGAATATTTA
1 CCAAAAATCATTAAAATTATTTAAAATTGTATTTTTAAAAAATTAAAAATGTAAAAGAATATTTA
19875629 AAAAACATTAAAAAATTATT
66 AAAAACATTAAAAAATTATT
19875649 CCAAAAATCATTAAAATTATTTAAAATTGTATTTTTAAAAAATTAAAAATGTAAAAGAATATTTA
1 CCAAAAATCATTAAAATTATTTAAAATTGTATTTTTAAAAAATTAAAAATGTAAAAGAATATTTA
*
19875714 AAAAACATTAAAATATTATT
66 AAAAACATTAAAAAATTATT
*
19875734 CCAAAAATCATTAAAATTATTTAAAATTGTATTTTAAAAAAATTAAAAATGTAAAAGAATATTTA
1 CCAAAAATCATTAAAATTATTTAAAATTGTATTTTTAAAAAATTAAAAATGTAAAAGAATATTTA
19875799 AAAAACATTAAAAAATTATT
66 AAAAACATTAAAAAATTATT
*
19875819 --AAAAATTATTAAAA
1 CCAAAAATCATTAAAA
19875833 ATGATAATAA
Statistics
Matches: 179, Mismatches: 4, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
83 13 0.07
84 31 0.17
85 135 0.75
ACGTcount: A:0.57, C:0.04, G:0.03, T:0.35
Consensus pattern (85 bp):
CCAAAAATCATTAAAATTATTTAAAATTGTATTTTTAAAAAATTAAAAATGTAAAAGAATATTTA
AAAAACATTAAAAAATTATT
Found at i:19875811 original size:10 final size:10
Alignment explanation
Indices: 19875767--19875864 Score: 66
Period size: 11 Copynumber: 9.9 Consensus size: 10
19875757 AAATTGTATT
19875767 TTAAAAAA-A
1 TTAAAAAATA
19875776 TT-AAAAAT-
1 TTAAAAAATA
*
19875784 GTAAAAGAATA
1 TTAAAA-AATA
*
19875795 TTTAAAAAACA
1 -TTAAAAAATA
19875806 TTAAAAAATTA
1 TTAAAAAA-TA
*
19875817 TTAAAAATTA
1 TTAAAAAATA
19875827 TT-AAAAATGA
1 TTAAAAAAT-A
19875837 -TAATAAAAT-
1 TTAA-AAAATA
19875846 TT-AAAAATGA
1 TTAAAAAAT-A
19875856 TTAAAAAAT
1 TTAAAAAAT
19875865 TATGAAAATT
Statistics
Matches: 70, Mismatches: 6, Indels: 24
0.70 0.06 0.24
Matches are distributed among these distances:
8 11 0.16
9 12 0.17
10 20 0.29
11 22 0.31
12 5 0.07
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.31
Consensus pattern (10 bp):
TTAAAAAATA
Found at i:19875819 original size:11 final size:11
Alignment explanation
Indices: 19875796--19875872 Score: 60
Period size: 10 Copynumber: 7.5 Consensus size: 11
19875786 AAAAGAATAT
*
19875796 TTAAAAAA-CA
1 TTAAAAAATTA
19875806 TTAAAAAATTA
1 TTAAAAAATTA
19875817 TT-AAAAATTA
1 TTAAAAAATTA
*
19875827 TT-AAAAATGA
1 TTAAAAAATTA
19875837 -TAATAAAA-T-
1 TTAA-AAAATTA
*
19875846 TT-AAAAATGA
1 TTAAAAAATTA
19875856 TTAAAAAATTA
1 TTAAAAAATTA
*
19875867 TGAAAA
1 TTAAAA
19875873 TTATAAGTTA
Statistics
Matches: 54, Mismatches: 6, Indels: 13
0.74 0.08 0.18
Matches are distributed among these distances:
8 4 0.07
9 2 0.04
10 29 0.54
11 19 0.35
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.31
Consensus pattern (11 bp):
TTAAAAAATTA
Found at i:19875832 original size:19 final size:19
Alignment explanation
Indices: 19875800--19875873 Score: 71
Period size: 19 Copynumber: 3.8 Consensus size: 19
19875790 GAATATTTAA
*
19875800 AAAACATTA-AAAAATTATT
1 AAAA-ATTATAAAAATGATT
*
19875819 AAAAATTATTAAAAATGATA
1 AAAAATTA-TAAAAATGATT
19875839 ATAAAATT-TAAAAATGATT
1 A-AAAATTATAAAAATGATT
*
19875858 AAAAAATTATGAAAAT
1 -AAAAATTATAAAAAT
19875874 TATAAGTTAA
Statistics
Matches: 46, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
18 4 0.09
19 20 0.43
20 16 0.35
21 6 0.13
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.31
Consensus pattern (19 bp):
AAAAATTATAAAAATGATT
Found at i:19876621 original size:24 final size:24
Alignment explanation
Indices: 19876544--19876621 Score: 65
Period size: 24 Copynumber: 3.2 Consensus size: 24
19876534 TCAAAGTAAG
*
19876544 AATTTGACTTTTAAGTAATTTTAT
1 AATTTTACTTTTAAGTAATTTTAT
* *
19876568 AA-TTT--TTTTAA-CAATTTAAAAAAT
1 AATTTTACTTTTAAGTAATTT----TAT
19876592 AATTTTACTTTTAAGTAATTTTAT
1 AATTTTACTTTTAAGTAATTTTAT
19876616 AATTTT
1 AATTTT
19876622 TTTAACAATT
Statistics
Matches: 41, Mismatches: 5, Indels: 16
0.66 0.08 0.26
Matches are distributed among these distances:
20 5 0.12
21 6 0.15
23 2 0.05
24 14 0.34
25 3 0.07
27 6 0.15
28 5 0.12
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.54
Consensus pattern (24 bp):
AATTTTACTTTTAAGTAATTTTAT
Found at i:19876641 original size:24 final size:24
Alignment explanation
Indices: 19876566--19876645 Score: 78
Period size: 24 Copynumber: 3.3 Consensus size: 24
19876556 AAGTAATTTT
19876566 ATAATTTTTTTAACAATTTAAAAA
1 ATAATTTTTTTAACAATTTAAAAA
* *
19876590 ATAATTTTACTTTTAAGTAATTT----T
1 ATAA-TTT--TTTTAA-CAATTTAAAAA
19876614 ATAATTTTTTTAACAATTTAAAAA
1 ATAATTTTTTTAACAATTTAAAAA
19876638 ATAATTTT
1 ATAATTTT
19876646 ATTTTTTATA
Statistics
Matches: 44, Mismatches: 4, Indels: 16
0.69 0.06 0.25
Matches are distributed among these distances:
20 5 0.11
21 6 0.14
23 3 0.07
24 16 0.36
25 3 0.07
27 6 0.14
28 5 0.11
ACGTcount: A:0.44, C:0.04, G:0.01, T:0.51
Consensus pattern (24 bp):
ATAATTTTTTTAACAATTTAAAAA
Found at i:19876672 original size:48 final size:48
Alignment explanation
Indices: 19876544--19876661 Score: 202
Period size: 48 Copynumber: 2.5 Consensus size: 48
19876534 TCAAAGTAAG
*
19876544 AATTTGACTTTTAAGTAATTTTATAATTTTTTTAACAATTTAAAAAAT
1 AATTTTACTTTTAAGTAATTTTATAATTTTTTTAACAATTTAAAAAAT
19876592 AATTTTACTTTTAAGTAATTTTATAATTTTTTTAACAATTTAAAAAAT
1 AATTTTACTTTTAAGTAATTTTATAATTTTTTTAACAATTTAAAAAAT
* *
19876640 AATTTTATTTTTTA-TAATTTTA
1 AATTTTACTTTTAAGTAATTTTA
19876662 AAATACTTTT
Statistics
Matches: 67, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
47 8 0.12
48 59 0.88
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.54
Consensus pattern (48 bp):
AATTTTACTTTTAAGTAATTTTATAATTTTTTTAACAATTTAAAAAAT
Found at i:19883787 original size:42 final size:42
Alignment explanation
Indices: 19883728--19883837 Score: 132
Period size: 43 Copynumber: 2.6 Consensus size: 42
19883718 TCGAGTCTTT
* ** **
19883728 GTGTAAGACCATATCTGGGATATGGAATCGATATGAGATTTC
1 GTGTAAGACCATATCTGGGATATGGAATCAATACAAGATCCC
*
19883770 GTGTAAGACCATATCT-GGACTATTGGCATCAATACAAGATCCC
1 GTGTAAGACCATATCTGGGA-TA-TGGAATCAATACAAGATCCC
*
19883813 ATGTAAGACCATATCTGGGATATGG
1 GTGTAAGACCATATCTGGGATATGG
19883838 TATTGGTGTG
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
41 3 0.05
42 21 0.36
43 31 0.53
44 3 0.05
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (42 bp):
GTGTAAGACCATATCTGGGATATGGAATCAATACAAGATCCC
Found at i:19888368 original size:27 final size:28
Alignment explanation
Indices: 19888311--19888380 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
19888301 AAACTTGTAC
*
19888311 AGCACTAAGTGTGCGAGTTTGATCATGT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
19888339 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
19888366 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
19888381 GACTCACTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 23 0.57
28 17 0.43
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:19888391 original size:27 final size:27
Alignment explanation
Indices: 19888311--19888392 Score: 69
Period size: 27 Copynumber: 3.0 Consensus size: 27
19888301 AAACTTGTAC
* * *
19888311 AGCACTAAGTGTGCGAGTTTGA-TCATGT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
19888339 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
19888366 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
19888393 GCTTTTGAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
26 1 0.02
27 29 0.60
28 18 0.38
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:19896301 original size:27 final size:28
Alignment explanation
Indices: 19896244--19896313 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
19896234 AAACTTGTAC
*
19896244 AGCACTAAGTGTGCGAGTTTGATCATGT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
19896272 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
19896299 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
19896314 GACTCACTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 23 0.57
28 17 0.43
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:19896324 original size:27 final size:27
Alignment explanation
Indices: 19896244--19896325 Score: 69
Period size: 27 Copynumber: 3.0 Consensus size: 27
19896234 AAACTTGTAC
* * *
19896244 AGCACTAAGTGTGCGAGTTTGA-TCATGT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
19896272 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
19896299 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
19896326 GCTTTTGAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
26 1 0.02
27 29 0.60
28 18 0.38
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Done.