Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032252.1 Gossypioides kirkii chromosome KI_10
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: 47257441
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 3600 characters in sequence are not A, C, G, or T
File 57 of 163
Found at i:14273067 original size:10 final size:10
Alignment explanation
Indices: 14273043--14273075 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
14273033 TAAAATTATT
14273043 AAAAAGTATA
1 AAAAAGTATA
14273053 AAAAAGTATA
1 AAAAAGTATA
14273063 AAAAA--ATA
1 AAAAAGTATA
14273071 AAAAA
1 AAAAA
14273076 ATTAATATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 8 0.35
10 15 0.65
ACGTcount: A:0.79, C:0.00, G:0.06, T:0.15
Consensus pattern (10 bp):
AAAAAGTATA
Found at i:14283193 original size:39 final size:37
Alignment explanation
Indices: 14283150--14283223 Score: 87
Period size: 37 Copynumber: 1.9 Consensus size: 37
14283140 TGAGTGTGGG
* *
14283150 TTATTTTGACCACGTATCGATGAGGGATTG-GCACAATTT
1 TTATTTCGACCA--TATCGATGAGCG-TTGAGCACAATTT
*
14283189 TTATTTCGATCATATCGATGAGCGTTGAGCACAAT
1 TTATTTCGACCATATCGATGAGCGTTGAGCACAAT
14283224 ATATTTACTT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
36 3 0.10
37 18 0.58
39 10 0.32
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.35
Consensus pattern (37 bp):
TTATTTCGACCATATCGATGAGCGTTGAGCACAATTT
Found at i:14286740 original size:21 final size:19
Alignment explanation
Indices: 14286707--14286765 Score: 59
Period size: 19 Copynumber: 3.1 Consensus size: 19
14286697 ATATTATTTT
14286707 AAAATTTTAAAAATATAAA
1 AAAATTTTAAAAATATAAA
14286726 AAAATTATGTAAAAATAT--A
1 AAAATT-T-TAAAAATATAAA
* *
14286745 TAAATTTATAAAAATCTAAA
1 AAAATTT-TAAAAATATAAA
14286765 A
1 A
14286766 CTTATAGAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
18 9 0.28
19 12 0.38
20 2 0.06
21 9 0.28
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (19 bp):
AAAATTTTAAAAATATAAA
Found at i:14288667 original size:21 final size:22
Alignment explanation
Indices: 14288641--14288686 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
14288631 GTGCTGCTTG
*
14288641 AAACTTTAGTGAT-GTGGTAAA
1 AAACTTTAGTGATGGTAGTAAA
*
14288662 AAACTTTGGTGATGGTAGTAAA
1 AAACTTTAGTGATGGTAGTAAA
14288684 AAA
1 AAA
14288687 AACTCACTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 12 0.55
22 10 0.45
ACGTcount: A:0.41, C:0.04, G:0.24, T:0.30
Consensus pattern (22 bp):
AAACTTTAGTGATGGTAGTAAA
Found at i:14301447 original size:14 final size:14
Alignment explanation
Indices: 14301428--14301457 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
14301418 TTTTCAAAGT
14301428 TAAAAAAGTTAAAA
1 TAAAAAAGTTAAAA
*
14301442 TAAAAAATTTAAAA
1 TAAAAAAGTTAAAA
14301456 TA
1 TA
14301458 GTCTTTAAAA
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:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (14 bp):
TAAAAAAGTTAAAA
Found at i:14301713 original size:24 final size:24
Alignment explanation
Indices: 14301685--14301745 Score: 95
Period size: 24 Copynumber: 2.5 Consensus size: 24
14301675 AGAAATAATC
14301685 TTTCAGTTAAACTCTGTTTATTTG
1 TTTCAGTTAAACTCTGTTTATTTG
*
14301709 TTTCAATTAAACTCTGTTTATTTG
1 TTTCAGTTAAACTCTGTTTATTTG
* *
14301733 TTTGAGTCAAACT
1 TTTCAGTTAAACT
14301746 TTTATTACTC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.25, C:0.13, G:0.11, T:0.51
Consensus pattern (24 bp):
TTTCAGTTAAACTCTGTTTATTTG
Found at i:14303708 original size:24 final size:24
Alignment explanation
Indices: 14303675--14303725 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
14303665 AGAAATAATC
*
14303675 TTTCAGTTAAACTCTGTTTATTTG
1 TTTCAATTAAACTCTGTTTATTTG
14303699 TTTCAATTAAACTCTGTTTATTTG
1 TTTCAATTAAACTCTGTTTATTTG
14303723 TTT
1 TTT
14303726 GAGTCAAACT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.22, C:0.12, G:0.10, T:0.57
Consensus pattern (24 bp):
TTTCAATTAAACTCTGTTTATTTG
Found at i:14303734 original size:24 final size:24
Alignment explanation
Indices: 14303683--14303737 Score: 83
Period size: 24 Copynumber: 2.3 Consensus size: 24
14303673 TCTTTCAGTT
*
14303683 AAACTCTGTTTATTTGTTTCAATT
1 AAACTCTGTTTATTTGTTTCAATC
* *
14303707 AAACTCTGTTTATTTGTTTGAGTC
1 AAACTCTGTTTATTTGTTTCAATC
14303731 AAACTCT
1 AAACTCT
14303738 TATTACTCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.25, C:0.15, G:0.11, T:0.49
Consensus pattern (24 bp):
AAACTCTGTTTATTTGTTTCAATC
Found at i:14305693 original size:24 final size:24
Alignment explanation
Indices: 14305665--14305727 Score: 99
Period size: 24 Copynumber: 2.6 Consensus size: 24
14305655 AGAAATAATC
14305665 TTTCAGTTAAACTCTGTTTATTTG
1 TTTCAGTTAAACTCTGTTTATTTG
*
14305689 TTTCAATTAAACTCTGTTTATTTG
1 TTTCAGTTAAACTCTGTTTATTTG
* *
14305713 TTTGAGTCAAACTCT
1 TTTCAGTTAAACTCT
14305728 TATTACTCCA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.24, C:0.14, G:0.11, T:0.51
Consensus pattern (24 bp):
TTTCAGTTAAACTCTGTTTATTTG
Found at i:14307985 original size:9 final size:9
Alignment explanation
Indices: 14307971--14307995 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
14307961 GAAGCTTAAT
14307971 TCATGTAAC
1 TCATGTAAC
14307980 TCATGTAAC
1 TCATGTAAC
14307989 TCATGTA
1 TCATGTA
14307996 TCATTTTGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (9 bp):
TCATGTAAC
Found at i:14312763 original size:29 final size:31
Alignment explanation
Indices: 14312710--14312774 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 31
14312700 TTTCAATGGT
14312710 AAAATTTCACTTTAGTCCCTC-AAAATGATA
1 AAAATTTCACTTTAGTCCCTCAAAAATGATA
* * * *
14312740 AAAATTTGA-TTTAGTCCTTTAAAAATTATA
1 AAAATTTCACTTTAGTCCCTCAAAAATGATA
14312770 AAAAT
1 AAAAT
14312775 ATAAACTATT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 9 0.30
30 21 0.70
ACGTcount: A:0.45, C:0.12, G:0.06, T:0.37
Consensus pattern (31 bp):
AAAATTTCACTTTAGTCCCTCAAAAATGATA
Found at i:14314608 original size:2 final size:2
Alignment explanation
Indices: 14314601--14314625 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
14314591 AAAATGATAA
14314601 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
14314626 ATTTTATAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:14327574 original size:39 final size:39
Alignment explanation
Indices: 14327538--14328021 Score: 258
Period size: 39 Copynumber: 12.4 Consensus size: 39
14327528 ATATGCCCTT
*
14327538 GGCTCGGGGTAAGAGATTAGCTAATGGTGATCTGCCCCA
1 GGCTCGGGGTAAGAGATTGGCTAATGGTGATCTGCCCCA
* * *
14327577 GGCTCGGGGTAAGAGATTGGCTGATGGTGATTTACCCCA
1 GGCTCGGGGTAAGAGATTGGCTAATGGTGATCTGCCCCA
* * * *
14327616 GGCTAGGGGTAAAAGA-T--CGAATGGTTGCAATCTGCCCCT
1 GGCTCGGGGTAAGAGATTGGCTAATGG-TG--ATCTGCCCCA
* * * * * *
14327655 GACTCGGGATAAAAGATTGGCTGATGGTGATTTACCCCA
1 GGCTCGGGGTAAGAGATTGGCTAATGGTGATCTGCCCCA
* * * *
14327694 GGTTCGGGGTAAAAGA-T--CGAATAGCTGCAATCTGCCCCA
1 GGCTCGGGGTAAGAGATTGGCTAAT-GGTG--ATCTGCCCCA
* * * *
14327733 GGCTCGGGGTAAGAGATTGGCTGACGATGATCTACCCCAA
1 GGCTCGGGGTAAGAGATTGGCTAATGGTGATCTGCCCC-A
* * * * *
14327773 GG-TCGGGGTAAGAGATCGGATGACT-GTAATCTGCCCTA
1 GGCTCGGGGTAAGAGATTGGCT-AATGGTGATCTGCCCCA
* * *
14327811 AGCTCGGGGTAAAAGATTGGCTGATGGTGATCTGCCCCA
1 GGCTCGGGGTAAGAGATTGGCTAATGGTGATCTGCCCCA
* *
14327850 GGCTCGAGGTAAGAGA-T--C-AGATGGCTGCAATTTGCCCC-
1 GGCTCGGGGTAAGAGATTGGCTA-ATGG-TG--ATCTGCCCCA
* * * *
14327888 GAGCTCAGAGTAAGAGATT-GCTGATGGTGATATGCCCCA
1 G-GCTCGGGGTAAGAGATTGGCTAATGGTGATCTGCCCCA
* * ** * * ** * *
14327927 AGTTCAAGGTAAGAGATCGGATGGTTGTAATCTGCCCCA
1 GGCTCGGGGTAAGAGATTGGCTAATGGTGATCTGCCCCA
* ** * * **
14327966 TGCTCGATGTAAGAGATTGGCTGATAGTGATCTGCCTTA
1 GGCTCGGGGTAAGAGATTGGCTAATGGTGATCTGCCCCA
* *
14328005 GGCTCAGGGTAAAAGAT
1 GGCTCGGGGTAAGAGAT
14328022 CAAATGGGTG
Statistics
Matches: 332, Mismatches: 87, Indels: 52
0.70 0.18 0.11
Matches are distributed among these distances:
36 13 0.04
37 7 0.02
38 28 0.08
39 259 0.78
40 8 0.02
41 10 0.03
42 7 0.02
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.24
Consensus pattern (39 bp):
GGCTCGGGGTAAGAGATTGGCTAATGGTGATCTGCCCCA
Found at i:14327649 original size:78 final size:78
Alignment explanation
Indices: 14327567--14328041 Score: 458
Period size: 78 Copynumber: 6.1 Consensus size: 78
14327557 GCTAATGGTG
*
14327567 ATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTGATTTACCCCAGGCTAGGGGTAAAAGA
1 ATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTACCCCAGGCTAGGGGTAAAAGA
*
14327632 TCGAATGGTTGCA
66 TCGAATGGCTGCA
* * * * * * *
14327645 ATCTGCCCCTGACTCGGGATAAAAGATTGGCTGATGGTGATTTACCCCAGGTTCGGGGTAAAAGA
1 ATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTACCCCAGGCTAGGGGTAAAAGA
*
14327710 TCGAATAGCTGCA
66 TCGAATGGCTGCA
* * * *
14327723 ATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGACGATGATCTACCCCAAGG-TCGGGGTAAGAG
1 ATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTACCCC-AGGCTAGGGGTAAAAG
* * *
14327787 ATCGGATGACTGTA
65 ATCGAATGGCTGCA
* * * * * * *
14327801 ATCTGCCCTAAGCTCGGGGTAAAAGATTGGCTGATGGTGATCTGCCCCAGGCTCGAGGTAAGAGA
1 ATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTACCCCAGGCTAGGGGTAAAAGA
14327866 TC-AGATGGCTGCA
66 TCGA-ATGGCTGCA
* * * * * * * * *
14327879 ATTTGCCCC-GAGCTCAGAGTAAGAGATT-GCTGATGGTGATATGCCCCAAGTTCA-AGGTAAGA
1 ATCTGCCCCAG-GCTCGGGGTAAGAGATTGGCTGATGGTGATCTACCCCAGGCT-AGGGGTAAAA
* * *
14327941 GATCGGATGGTTGTA
64 GATCGAATGGCTGCA
* ** * * **
14327956 ATCTGCCCCATGCTCGATGTAAGAGATTGGCTGATAGTGATCTGCCTTAGGCTCA-GGGTAAAAG
1 ATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTACCCCAGGCT-AGGGGTAAAAG
* *
14328020 ATCAAATGGGTGCA
65 ATCGAATGGCTGCA
14328034 ATCTGCCC
1 ATCTGCCC
14328042 TTCTTGATTA
Statistics
Matches: 329, Mismatches: 60, Indels: 16
0.81 0.15 0.04
Matches are distributed among these distances:
77 65 0.20
78 261 0.79
79 3 0.01
ACGTcount: A:0.25, C:0.20, G:0.31, T:0.24
Consensus pattern (78 bp):
ATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTACCCCAGGCTAGGGGTAAAAGA
TCGAATGGCTGCA
Found at i:14327804 original size:156 final size:154
Alignment explanation
Indices: 14327567--14328041 Score: 546
Period size: 156 Copynumber: 3.1 Consensus size: 154
14327557 GCTAATGGTG
* * *
14327567 ATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTGATTTACCCC-AGGCTAGGGGTAAAAG
1 ATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTGATATACCCCAAGG-TCGGGGTAAGAG
* * * *
14327631 ATCGAATGGTTGCAATCTGCCCCTGACTCGGGATAAAAGATTGGCTGATGGTGATTTACCCCAGG
65 ATCGGATGGTTGTAATCTGCCCCTGACTCGGG-TAAAAGATTGGCTGATGGTGATCTGCCCCAGG
* *
14327696 TTCGGGGTAAAAGATCGAATAGCTGCA
129 CTCGGGGTAAAAGATC-AATGGCTGCA
* * *
14327723 ATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGACGATGATCTACCCCAAGGTCGGGGTAAGAGA
1 ATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTGATATACCCCAAGGTCGGGGTAAGAGA
** *
14327788 TCGGATGACTGTAATCTG-CCCTAAGCTCGGGGTAAAAGATTGGCTGATGGTGATCTGCCCCAGG
66 TCGGATGGTTGTAATCTGCCCCTGA-CTC-GGGTAAAAGATTGGCTGATGGTGATCTGCCCCAGG
* *
14327852 CTCGAGGTAAGAGATCAGATGGCTGCA
129 CTCGGGGTAAAAGATCA-ATGGCTGCA
* * * * * **
14327879 ATTTGCCCC-GAGCTCAGAGTAAGAGATT-GCTGATGGTGATATGCCCCAAGTTCAAGGTAAGAG
1 ATCTGCCCCAG-GCTCGGGGTAAGAGATTGGCTGATGGTGATATACCCCAAGGTCGGGGTAAGAG
* * * **
14327942 ATCGGATGGTTGTAATCTGCCCCATG-CTCGATGTAAGAGATTGGCTGATAGTGATCTGCCTTAG
65 ATCGGATGGTTGTAATCTGCCCC-TGACTCG-GGTAAAAGATTGGCTGATGGTGATCTGCCCCAG
* *
14328006 GCTCAGGGTAAAAGATCAAATGGGTGCA
128 GCTCGGGGTAAAAGATC-AATGGCTGCA
14328034 ATCTGCCC
1 ATCTGCCC
14328042 TTCTTGATTA
Statistics
Matches: 271, Mismatches: 39, Indels: 19
0.82 0.12 0.06
Matches are distributed among these distances:
154 1 0.00
155 112 0.41
156 151 0.56
157 7 0.03
ACGTcount: A:0.25, C:0.20, G:0.31, T:0.24
Consensus pattern (154 bp):
ATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTGATATACCCCAAGGTCGGGGTAAGAGA
TCGGATGGTTGTAATCTGCCCCTGACTCGGGTAAAAGATTGGCTGATGGTGATCTGCCCCAGGCT
CGGGGTAAAAGATCAATGGCTGCA
Found at i:14328447 original size:49 final size:49
Alignment explanation
Indices: 14328295--14328447 Score: 191
Period size: 49 Copynumber: 3.1 Consensus size: 49
14328285 TCTCGTCATA
* * *
14328295 TTTCATGGTACCGGGTTCACCGTTGTGGCATCAACCTTTCCCTTCACAT
1 TTTCATGGTACCGGGTTCGCCATTGTGGCCTCAACCTTTCCCTTCACAT
* * * * *
14328344 TTTTAAGGTATCGGGTTCGTCATTGTGGCCTCAACCTTTCCCTTCATAT
1 TTTCATGGTACCGGGTTCGCCATTGTGGCCTCAACCTTTCCCTTCACAT
* *
14328393 TTTCATGGTACCGAGTTCGCCATT-TCGGCCTCAACCTTTCCCATCACAT
1 TTTCATGGTACCGGGTTCGCCATTGT-GGCCTCAACCTTTCCCTTCACAT
*
14328442 CTTCAT
1 TTTCAT
14328448 ATTTCCTCGG
Statistics
Matches: 87, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
48 1 0.01
49 86 0.99
ACGTcount: A:0.17, C:0.30, G:0.16, T:0.37
Consensus pattern (49 bp):
TTTCATGGTACCGGGTTCGCCATTGTGGCCTCAACCTTTCCCTTCACAT
Found at i:14341441 original size:12 final size:11
Alignment explanation
Indices: 14341414--14341454 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
14341404 CCCATGCCAC
14341414 AAATCAAGCAA
1 AAATCAAGCAA
14341425 AAATCAAGCATA
1 AAATCAAGCA-A
* *
14341437 AAATCATGAAA
1 AAATCAAGCAA
14341448 AAATCAA
1 AAATCAA
14341455 CCCATTTCCC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
11 17 0.65
12 9 0.35
ACGTcount: A:0.63, C:0.15, G:0.07, T:0.15
Consensus pattern (11 bp):
AAATCAAGCAA
Found at i:14343999 original size:28 final size:29
Alignment explanation
Indices: 14343920--14344000 Score: 69
Period size: 29 Copynumber: 2.8 Consensus size: 29
14343910 AGAAATGAAT
* *
14343920 GCCTTCGTGGCAAATTATGAAAAAGGATA
1 GCCTTCGTGGCAAATTAAGAAAAGGGATA
* ** *
14343949 GCCTTTGTGGTGAGTCCT-A-AAAAGGGA-A
1 GCCTTCGTGGCAAAT--TAAGAAAAGGGATA
14343977 GCCTTCGTGGCAAATTAAGAAAAG
1 GCCTTCGTGGCAAATTAAGAAAAG
14344001 CATTGTTTTC
Statistics
Matches: 38, Mismatches: 10, Indels: 9
0.67 0.18 0.16
Matches are distributed among these distances:
26 1 0.03
27 1 0.03
28 17 0.45
29 18 0.47
31 1 0.03
ACGTcount: A:0.35, C:0.15, G:0.27, T:0.23
Consensus pattern (29 bp):
GCCTTCGTGGCAAATTAAGAAAAGGGATA
Found at i:14345294 original size:18 final size:19
Alignment explanation
Indices: 14345252--14345300 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 19
14345242 CACAGTTTGG
*
14345252 CAAATTAATACA-ATTCGT
1 CAAATTAATACAGATTCAT
*
14345270 CATATTAATACAGA-TCAT
1 CAAATTAATACAGATTCAT
*
14345288 CAAATTAACACAG
1 CAAATTAATACAG
14345301 TTTTCCATAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
18 25 0.96
19 1 0.04
ACGTcount: A:0.47, C:0.18, G:0.06, T:0.29
Consensus pattern (19 bp):
CAAATTAATACAGATTCAT
Found at i:14348212 original size:21 final size:21
Alignment explanation
Indices: 14348170--14348228 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
14348160 TAGAAGTAAG
* *
14348170 ACTTGTAGCGATAGAAGAGTC
1 ACTTGTATCGGTAGAAGAGTC
**
14348191 ACTTGTATCGGTAGAATTGTC
1 ACTTGTATCGGTAGAAGAGTC
14348212 A-TATGTATCGGTAGAAG
1 ACT-TGTATCGGTAGAAG
14348229 TTTGCACTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
20 1 0.03
21 31 0.97
ACGTcount: A:0.31, C:0.12, G:0.27, T:0.31
Consensus pattern (21 bp):
ACTTGTATCGGTAGAAGAGTC
Found at i:14351214 original size:13 final size:12
Alignment explanation
Indices: 14351196--14351233 Score: 51
Period size: 13 Copynumber: 3.2 Consensus size: 12
14351186 TTAACTAGTC
14351196 TATAATTTTTTAA
1 TATAATTTTTT-A
14351209 TATAATTTTTT-
1 TATAATTTTTTA
*
14351220 TAAAATTTTTTA
1 TATAATTTTTTA
14351232 TA
1 TA
14351234 AGAAAAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
11 10 0.43
12 2 0.09
13 11 0.48
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (12 bp):
TATAATTTTTTA
Found at i:14354105 original size:2 final size:2
Alignment explanation
Indices: 14354098--14354137 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
14354088 ACAACCCTAT
14354098 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
14354138 AGTGTTTAAG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:14364154 original size:23 final size:23
Alignment explanation
Indices: 14364122--14364180 Score: 82
Period size: 23 Copynumber: 2.6 Consensus size: 23
14364112 GGATTTACCT
*
14364122 TTGTGACACGCTTTTTCTTTGTC
1 TTGTGGCACGCTTTTTCTTTGTC
* *
14364145 TTGTGGCACGTTTTTTCTTTGTT
1 TTGTGGCACGCTTTTTCTTTGTC
*
14364168 TTGTGGCATGCTT
1 TTGTGGCACGCTT
14364181 CTACTTTATG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.07, C:0.17, G:0.22, T:0.54
Consensus pattern (23 bp):
TTGTGGCACGCTTTTTCTTTGTC
Found at i:14364187 original size:23 final size:23
Alignment explanation
Indices: 14364122--14364187 Score: 60
Period size: 23 Copynumber: 2.9 Consensus size: 23
14364112 GGATTTACCT
* * *
14364122 TTGTGACACGCTTTTTCTTTGTC
1 TTGTGGCACGCTTCTACTTTGTC
* * * *
14364145 TTGTGGCACGTTTTTTCTTTGTT
1 TTGTGGCACGCTTCTACTTTGTC
*
14364168 TTGTGGCATGCTTCTACTTT
1 TTGTGGCACGCTTCTACTTT
14364188 ATGTTACGTT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.08, C:0.18, G:0.20, T:0.55
Consensus pattern (23 bp):
TTGTGGCACGCTTCTACTTTGTC
Found at i:14370929 original size:18 final size:17
Alignment explanation
Indices: 14370893--14370925 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
14370883 CTCACTCGCT
*
14370893 ATTTCAATAGCATTTTC
1 ATTTCAATAACATTTTC
14370910 ATTTCAATAACATTTT
1 ATTTCAATAACATTTT
14370926 TCATATCAAC
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:0.33, C:0.15, G:0.03, T:0.48
Consensus pattern (17 bp):
ATTTCAATAACATTTTC
Found at i:14370934 original size:18 final size:17
Alignment explanation
Indices: 14370896--14370934 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
14370886 ACTCGCTATT
* *
14370896 TCAATAGCATTTTCATT
1 TCAATAACATTTTCATA
14370913 TCAATAACATTTTTCATA
1 TCAATAACA-TTTTCATA
14370931 TCAA
1 TCAA
14370935 CTAAATAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.36, C:0.18, G:0.03, T:0.44
Consensus pattern (17 bp):
TCAATAACATTTTCATA
Found at i:14371903 original size:24 final size:24
Alignment explanation
Indices: 14371876--14371983 Score: 64
Period size: 24 Copynumber: 5.1 Consensus size: 24
14371866 CTTATGGTCA
14371876 AGCGCCGCTAAAGGTCGGAGCAAT
1 AGCGCCGCTAAAGGTCGGAGCAAT
* * *
14371900 AGCGGCGCT-TA--T---AGCCA-
1 AGCGCCGCTAAAGGTCGGAGCAAT
*
14371917 AGCGCCGCTAAAGGTCAGAGCAAT
1 AGCGCCGCTAAAGGTCGGAGCAAT
* *
14371941 AGCGGCGCT-TA--T-GG-G-AA-
1 AGCGCCGCTAAAGGTCGGAGCAAT
14371958 AGCGCCGCTAAAGGTCGGAGCAAT
1 AGCGCCGCTAAAGGTCGGAGCAAT
14371982 AG
1 AG
14371984 TGGCACTTAT
Statistics
Matches: 59, Mismatches: 11, Indels: 28
0.60 0.11 0.29
Matches are distributed among these distances:
17 16 0.27
18 8 0.14
19 1 0.02
20 3 0.05
21 4 0.07
22 1 0.02
23 8 0.14
24 18 0.31
ACGTcount: A:0.29, C:0.24, G:0.33, T:0.14
Consensus pattern (24 bp):
AGCGCCGCTAAAGGTCGGAGCAAT
Found at i:14371909 original size:41 final size:41
Alignment explanation
Indices: 14371798--14372064 Score: 315
Period size: 41 Copynumber: 6.6 Consensus size: 41
14371788 GGATAGAAAA
* * *
14371798 CGCCGCAAAAGGT-AAAGCAATAGCGGCGCTTATGATCAAG
1 CGCCGCTAAAGGTCAGAGCAATAGCGGCGCTTATGGTCAAG
* *
14371838 CGCCGTTAAAGGT-AGAGCAATAGCGTCGCTTATGGTCAAG
1 CGCCGCTAAAGGTCAGAGCAATAGCGGCGCTTATGGTCAAG
* * *
14371878 CGCCGCTAAAGGTCGGAGCAATAGCGGCGCTTATAGCCAAG
1 CGCCGCTAAAGGTCAGAGCAATAGCGGCGCTTATGGTCAAG
**
14371919 CGCCGCTAAAGGTCAGAGCAATAGCGGCGCTTATGGGAAAG
1 CGCCGCTAAAGGTCAGAGCAATAGCGGCGCTTATGGTCAAG
* * *
14371960 CGCCGCTAAAGGTCGGAGCAATAGTGGCACTTAT-GTCCAAG
1 CGCCGCTAAAGGTCAGAGCAATAGCGGCGCTTATGGT-CAAG
** * * **
14372001 CATCGCTAAAGGTCAGAGCAATAGCAGTGCTTATGGAAAAG
1 CGCCGCTAAAGGTCAGAGCAATAGCGGCGCTTATGGTCAAG
* *
14372042 CGCCGTTAAAGGTCAAAGCAATA
1 CGCCGCTAAAGGTCAGAGCAATA
14372065 AAATAATATA
Statistics
Matches: 192, Mismatches: 32, Indels: 5
0.84 0.14 0.02
Matches are distributed among these distances:
40 48 0.25
41 143 0.74
42 1 0.01
ACGTcount: A:0.31, C:0.22, G:0.29, T:0.18
Consensus pattern (41 bp):
CGCCGCTAAAGGTCAGAGCAATAGCGGCGCTTATGGTCAAG
Found at i:14374328 original size:18 final size:18
Alignment explanation
Indices: 14374307--14374346 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
14374297 GGGTTTTATT
14374307 TTTTGGTTTT-CTTTTCTC
1 TTTT-GTTTTGCTTTTCTC
*
14374325 TTTTTTTTTGCTTTTCTC
1 TTTTGTTTTGCTTTTCTC
14374343 TTTT
1 TTTT
14374347 AGCTTCTCTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 4 0.20
18 16 0.80
ACGTcount: A:0.00, C:0.15, G:0.07, T:0.78
Consensus pattern (18 bp):
TTTTGTTTTGCTTTTCTC
Found at i:14375584 original size:42 final size:43
Alignment explanation
Indices: 14375462--14375625 Score: 231
Period size: 43 Copynumber: 3.8 Consensus size: 43
14375452 TATGTTGTAA
* **
14375462 AAGCGCCGCTAAAGACCATGTTCTTTAGCGGCGTTTGTAAGAT
1 AAGCGCCGCTAAAGACCATGGTCTTTAGCGGCGTTTGTGGGAT
*
14375505 AAGCGCCGCTAAAAACCATGGTCTTTAGCGGCGTTTGTGGGAT
1 AAGCGCCGCTAAAGACCATGGTCTTTAGCGGCGTTTGTGGGAT
* *
14375548 AAGCGCCGCTAAA-ACCATGGTCTTTAACGGCATTTGTGGGAT
1 AAGCGCCGCTAAAGACCATGGTCTTTAGCGGCGTTTGTGGGAT
* * * *
14375590 AAGCGCCGCTAAATACCATGTTCTATAGCGGTGTTT
1 AAGCGCCGCTAAAGACCATGGTCTTTAGCGGCGTTT
14375626 TTCCTCATAA
Statistics
Matches: 109, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
42 40 0.37
43 69 0.63
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.27
Consensus pattern (43 bp):
AAGCGCCGCTAAAGACCATGGTCTTTAGCGGCGTTTGTGGGAT
Found at i:14375584 original size:85 final size:86
Alignment explanation
Indices: 14375462--14375625 Score: 240
Period size: 85 Copynumber: 1.9 Consensus size: 86
14375452 TATGTTGTAA
* * *
14375462 AAGCGCCGCTAAAGACCATGTTCTTTAGCGGCGTTTGTAAGATAAGCGCCGCTAAAAACCATGGT
1 AAGCGCCGCTAAAGACCATGGTCTTTAACGGCATTTGTAAGATAAGCGCCGCTAAAAACCATGGT
*
14375527 CTTTAGCGGCGTTTGTGGGAT
66 CTATAGCGGCGTTTGTGGGAT
** * *
14375548 AAGCGCCGCTAAA-ACCATGGTCTTTAACGGCATTTGTGGGATAAGCGCCGCTAAATACCATGTT
1 AAGCGCCGCTAAAGACCATGGTCTTTAACGGCATTTGTAAGATAAGCGCCGCTAAAAACCATGGT
*
14375612 CTATAGCGGTGTTT
66 CTATAGCGGCGTTT
14375626 TTCCTCATAA
Statistics
Matches: 69, Mismatches: 9, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
85 56 0.81
86 13 0.19
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.27
Consensus pattern (86 bp):
AAGCGCCGCTAAAGACCATGGTCTTTAACGGCATTTGTAAGATAAGCGCCGCTAAAAACCATGGT
CTATAGCGGCGTTTGTGGGAT
Found at i:14378932 original size:14 final size:14
Alignment explanation
Indices: 14378893--14378933 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
14378883 TATTTTTTTA
14378893 TTATAATATATTAT
1 TTATAATATATTAT
14378907 TT-TAATATTATTAT
1 TTATAATA-TATTAT
*
14378921 TTATCATATATTA
1 TTATAATATATTA
14378934 ACACATATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
13 5 0.21
14 15 0.62
15 4 0.17
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (14 bp):
TTATAATATATTAT
Found at i:14384564 original size:308 final size:307
Alignment explanation
Indices: 14383995--14384921 Score: 1297
Period size: 308 Copynumber: 3.0 Consensus size: 307
14383985 TTAAAAGCAT
* * * * *
14383995 TGGTAACCAGTATTTGTAATGGATAAAAGGGAGAAGATAGTTAATATATATTTGGAACCATGAGT
1 TGGTAGCCAATATTTGTAATGAATAAAAGGGAAAAGATAATTAATATATATTTGGAACCATGAGT
* * *
14384060 TTTATTCAATACGAGGAAACATTTAGTACATAAAAGACATAGCTTTAGTACATGTTCTTATTTTC
66 TTTATTCAATACGAGGAAACATTTGGTACATGAAAGACATAGCTTTAGTACATGTTTTTATTTTC
* * *
14384125 TAGTGGCTCCCCCCAATAATGACATAAAAAGTTTTTGGTAATTTATACACCATGACCTC-TCTCA
131 TAGTGGCTCCCCCCAATAATGACGTAAAAAGCTTTTGGTAA-TT-TACACCATGACCTCTTC-CC
* * * * * *
14384189 AAATGTCTTACCCAAACAATTTTACTTTCCTTTTAATCAGAACTTTGAATTCATTCCGAAGCCCT
193 AAATGTCTTGCCCAAACAATCTTATTTTCCTTTTAATCAGAACTTTCAATTCATTCTGAGGCCCT
14384254 CCATTGTCACCTTCTTGTTGAGGTCTTGCCATGAGAATGATTTCATCATA
258 CCATTGTCACCTTCTTGTTGAGGTCTTGCCATGAGAATGATTTCATCATA
* * *
14384304 TGGTAGTCAATATTTGTAATGAATGAAAGAGAAAAGATAATTTAA-ATATATTTGGAACCATGAG
1 TGGTAGCCAATATTTGTAATGAATAAAAGGGAAAAGATAA-TTAATATATATTTGGAACCATGAG
* * * * * *
14384368 TTTT-TTCAATATGAGGAAACATATGGTACATGAAAGACGTAACTTTATTACTTGTTTTTATTTT
65 TTTTATTCAATACGAGGAAACATTTGGTACATGAAAGACATAGCTTTAGTACATGTTTTTATTTT
* * * **
14384432 CTAGTGACTCCCCAGCAATAATGGCGTAAAAAGCTTTTGGTAATTTACACCACAACCTCTTCCCA
130 CTAGTGGCTCCCC-CCAATAATGACGTAAAAAGCTTTTGGTAATTTACACCATGACCTCTTCCCA
*
14384497 CAATGTCTTGCCCAAACAATCTTATTTTCCTTTTAATCAGAACCTTCAATTCATTCTGAGGCCCT
194 -AATGTCTTGCCCAAACAATCTTATTTTCCTTTTAATCAGAACTTTCAATTCATTCTGAGGCCCT
* * * *
14384562 CCATTG-CTGCCTTATTGTTGAGGTCTTGCTATGAGAGTGATTTCATCATA
258 CCATTGTC-ACCTTCTTGTTGAGGTCTTGCCATGAGAATGATTTCATCATA
* *
14384612 TGGTAGCCAATATTTGTAATGAATAAAAGGGAAAAGATAATTAATATATATTTGAAATCATGAGT
1 TGGTAGCCAATATTTGTAATGAATAAAAGGGAAAAGATAATTAATATATATTTGGAACCATGAGT
* * *
14384677 TTTATTCAATACGAGAAAATATTTGGTACATGAAATACATAGCTTTAGTACAT-TTTTTATTTTC
66 TTTATTCAATACGAGGAAACATTTGGTACATGAAAGACATAGCTTTAGTACATGTTTTTATTTTC
* * * * *
14384741 TAGTGGCTCCCCCCAACAATGACGTAAAAAACTTTTGGTAATTTATATCATGATCTCTTCCCAAA
131 TAGTGGCTCCCCCCAATAATGACGTAAAAAGCTTTTGGTAATTTACACCATGACCTCTTCCCAAA
*
14384806 TGTCTTGCCCAAACAATCTTATTTTCCTTTTAATCAGAACTTTCAATTCATTCTAAGGCCCTCCA
196 TGTCTTGCCCAAACAATCTTATTTTCCTTTTAATCAGAACTTTCAATTCATTCTGAGGCCCTCCA
* * * *
14384871 TTGTCACCTTCTTGTTGAGGTATTTCCATGATAAAGATTTCATCATA
261 TTGTCACCTTCTTGTTGAGGTCTTGCCATGAGAATGATTTCATCATA
14384918 TGGT
1 TGGT
14384922 TTTAGTCATT
Statistics
Matches: 540, Mismatches: 70, Indels: 19
0.86 0.11 0.03
Matches are distributed among these distances:
306 106 0.20
307 62 0.11
308 248 0.46
309 120 0.22
310 4 0.01
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.36
Consensus pattern (307 bp):
TGGTAGCCAATATTTGTAATGAATAAAAGGGAAAAGATAATTAATATATATTTGGAACCATGAGT
TTTATTCAATACGAGGAAACATTTGGTACATGAAAGACATAGCTTTAGTACATGTTTTTATTTTC
TAGTGGCTCCCCCCAATAATGACGTAAAAAGCTTTTGGTAATTTACACCATGACCTCTTCCCAAA
TGTCTTGCCCAAACAATCTTATTTTCCTTTTAATCAGAACTTTCAATTCATTCTGAGGCCCTCCA
TTGTCACCTTCTTGTTGAGGTCTTGCCATGAGAATGATTTCATCATA
Found at i:14385956 original size:23 final size:23
Alignment explanation
Indices: 14385930--14385973 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
14385920 TAATTGAACG
14385930 TTTTCAATTTT-AGAAATTTAATC
1 TTTTCAATTTTCA-AAATTTAATC
* *
14385953 TTTTTATTTTTCAAAATTTAA
1 TTTTCAATTTTCAAAATTTAA
14385974 AATTCAGGTG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 17 0.94
24 1 0.06
ACGTcount: A:0.34, C:0.07, G:0.02, T:0.57
Consensus pattern (23 bp):
TTTTCAATTTTCAAAATTTAATC
Found at i:14389040 original size:32 final size:32
Alignment explanation
Indices: 14389004--14389072 Score: 84
Period size: 32 Copynumber: 2.2 Consensus size: 32
14388994 ATTTTACACA
14389004 TTTCAAAAGCAATCATATTTTACTAATATCAT
1 TTTCAAAAGCAATCATATTTTACTAATATCAT
*** * * *
14389036 TTTCATTTGTAATTATATTTTACTAATATTAT
1 TTTCAAAAGCAATCATATTTTACTAATATCAT
14389068 TTTCA
1 TTTCA
14389073 TTTTTCTTAT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.35, C:0.12, G:0.03, T:0.51
Consensus pattern (32 bp):
TTTCAAAAGCAATCATATTTTACTAATATCAT
Found at i:14389132 original size:21 final size:21
Alignment explanation
Indices: 14389106--14389145 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
14389096 CTAATAAAAA
14389106 AATGTCATATCGTCAAAGATG
1 AATGTCATATCGTCAAAGATG
*
14389127 AATGTCATATTGTCAAAGA
1 AATGTCATATCGTCAAAGA
14389146 GGGAATAACC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.40, C:0.12, G:0.17, T:0.30
Consensus pattern (21 bp):
AATGTCATATCGTCAAAGATG
Found at i:14389852 original size:23 final size:22
Alignment explanation
Indices: 14389817--14389865 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 22
14389807 ACTAATGATC
*
14389817 ATTATCATGTAAATGAATA-AT
1 ATTATCATGTAAATCAATATAT
14389838 ATTATGCATGGTAAATCAATATAT
1 ATTAT-CAT-GTAAATCAATATAT
14389862 ATTA
1 ATTA
14389866 ATTTCTACAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 5 0.21
22 3 0.12
23 10 0.42
24 6 0.25
ACGTcount: A:0.45, C:0.06, G:0.10, T:0.39
Consensus pattern (22 bp):
ATTATCATGTAAATCAATATAT
Found at i:14395648 original size:9 final size:9
Alignment explanation
Indices: 14395636--14395660 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
14395626 ACCACATAGC
14395636 TCTCATCTT
1 TCTCATCTT
14395645 TCTCATCTT
1 TCTCATCTT
14395654 TCTCATC
1 TCTCATC
14395661 GCTTTATTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.12, C:0.36, G:0.00, T:0.52
Consensus pattern (9 bp):
TCTCATCTT
Found at i:14395921 original size:91 final size:91
Alignment explanation
Indices: 14395761--14395941 Score: 353
Period size: 91 Copynumber: 2.0 Consensus size: 91
14395751 TGGTTTTGCT
*
14395761 AGATTTTAATGTCTCTCCTCACCCTACCAAAAGAACCCTTTACAGTATATTTAGCTTTAGAAATG
1 AGATGTTAATGTCTCTCCTCACCCTACCAAAAGAACCCTTTACAGTATATTTAGCTTTAGAAATG
14395826 AAATTTTAGGGTGGAAATTAAATAGA
66 AAATTTTAGGGTGGAAATTAAATAGA
14395852 AGATGTTAATGTCTCTCCTCACCCTACCAAAAGAACCCTTTACAGTATATTTAGCTTTAGAAATG
1 AGATGTTAATGTCTCTCCTCACCCTACCAAAAGAACCCTTTACAGTATATTTAGCTTTAGAAATG
14395917 AAATTTTAGGGTGGAAATTAAATAG
66 AAATTTTAGGGTGGAAATTAAATAG
14395942 CGAAAGCTAT
Statistics
Matches: 89, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
91 89 1.00
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.33
Consensus pattern (91 bp):
AGATGTTAATGTCTCTCCTCACCCTACCAAAAGAACCCTTTACAGTATATTTAGCTTTAGAAATG
AAATTTTAGGGTGGAAATTAAATAGA
Found at i:14402711 original size:44 final size:43
Alignment explanation
Indices: 14402662--14402777 Score: 106
Period size: 44 Copynumber: 2.6 Consensus size: 43
14402652 AAAAAAACAT
* * * * * *
14402662 AAAAATAACATCCAAATAATCAAAATAACAACCAAAACAGCAGC
1 AAAAATAACAT-AAAACAATAAAAATAACAACAAAAACAACAAC
* *
14402706 AAAAATAACAATAAAACAATAAAAATAGCAACAAAAACAACAAT
1 AAAAATAAC-ATAAAACAATAAAAATAACAACAAAAACAACAAC
14402750 AAAAATAACAACATCAAAACAATAAAAA
1 AAAAAT---AACAT-AAAACAATAAAAA
14402778 AATAGCATCA
Statistics
Matches: 59, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
44 39 0.66
45 2 0.03
46 2 0.03
47 16 0.27
ACGTcount: A:0.69, C:0.17, G:0.03, T:0.11
Consensus pattern (43 bp):
AAAAATAACATAAAACAATAAAAATAACAACAAAAACAACAAC
Found at i:14402721 original size:12 final size:12
Alignment explanation
Indices: 14402720--14402760 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
14402710 ATAACAATAA
14402720 AACAATAAAAAT
1 AACAATAAAAAT
* * *
14402732 AGCAACAAAAAC
1 AACAATAAAAAT
14402744 AACAATAAAAAT
1 AACAATAAAAAT
14402756 AACAA
1 AACAA
14402761 CATCAAAACA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.73, C:0.15, G:0.02, T:0.10
Consensus pattern (12 bp):
AACAATAAAAAT
Found at i:14402751 original size:24 final size:24
Alignment explanation
Indices: 14402712--14402790 Score: 90
Period size: 24 Copynumber: 3.3 Consensus size: 24
14402702 CAGCAAAAAT
*
14402712 AACAATAA-AACAATAAAAATAGC
1 AACAAAAACAACAATAAAAATAGC
*
14402735 AACAAAAACAACAATAAAAATAAC
1 AACAAAAACAACAATAAAAATAGC
*
14402759 AACATCAAAACAATAA-AAAAATAGC
1 AACA--AAAACAACAATAAAAATAGC
*
14402784 ATCAAAA
1 AACAAAA
14402791 TAGTAAAAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
23 10 0.21
24 18 0.38
25 11 0.23
26 9 0.19
ACGTcount: A:0.71, C:0.15, G:0.03, T:0.11
Consensus pattern (24 bp):
AACAAAAACAACAATAAAAATAGC
Found at i:14402786 original size:22 final size:22
Alignment explanation
Indices: 14402718--14402800 Score: 76
Period size: 24 Copynumber: 3.6 Consensus size: 22
14402708 AAATAACAAT
* **
14402718 AAAACAATAAAAATAGCAACAAA
1 AAAACAATAAAAA-AACAACATC
14402741 AACAACAATAAAAATAACAACATC
1 AA-AACAATAAAAA-AACAACATC
* *
14402765 AAAACAATAAAAAAATAGCATC
1 AAAACAATAAAAAAACAACATC
* *
14402787 AAAATAGTAAAAAA
1 AAAACAATAAAAAA
14402801 TAACAACCAA
Statistics
Matches: 52, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
22 19 0.37
23 13 0.25
24 20 0.38
ACGTcount: A:0.71, C:0.13, G:0.04, T:0.12
Consensus pattern (22 bp):
AAAACAATAAAAAAACAACATC
Found at i:14402811 original size:22 final size:21
Alignment explanation
Indices: 14402774--14402832 Score: 75
Period size: 22 Copynumber: 2.8 Consensus size: 21
14402764 CAAAACAATA
* *
14402774 AAAAAATAGCATCAAAATAGT
1 AAAAAATAACACCAAAATAGT
14402795 AAAAAATAACAACCAAAATAGT
1 AAAAAATAAC-ACCAAAATAGT
*
14402817 AACAAA-AACACCAAAA
1 AAAAAATAACACCAAAA
14402833 CAACAATATA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.21
21 12 0.35
22 15 0.44
ACGTcount: A:0.68, C:0.15, G:0.05, T:0.12
Consensus pattern (21 bp):
AAAAAATAACACCAAAATAGT
Found at i:14407022 original size:32 final size:32
Alignment explanation
Indices: 14406985--14407045 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 32
14406975 AAATATCTCA
*
14406985 ATTTGATTTTATTCCAATCAAATTGATTTTCG
1 ATTTGATTTGATTCCAATCAAATTGATTTTCG
* * *
14407017 ATTTGATTTGATTCTATTCAAATTTATTT
1 ATTTGATTTGATTCCAATCAAATTGATTT
14407046 AAAGACTCCT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.28, C:0.10, G:0.08, T:0.54
Consensus pattern (32 bp):
ATTTGATTTGATTCCAATCAAATTGATTTTCG
Found at i:14407561 original size:18 final size:18
Alignment explanation
Indices: 14407551--14407594 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
14407541 AATTTTGTAT
14407551 TTTATATAAATATTTATA
1 TTTATATAAATATTTATA
**
14407569 TTTATATTTATATTTATA
1 TTTATATAAATATTTATA
14407587 TTTATATA
1 TTTATATA
14407595 TATTCGCTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
TTTATATAAATATTTATA
Found at i:14407568 original size:12 final size:12
Alignment explanation
Indices: 14407551--14407597 Score: 67
Period size: 12 Copynumber: 3.9 Consensus size: 12
14407541 AATTTTGTAT
*
14407551 TTTATATAAATA
1 TTTATATATATA
*
14407563 TTTATATTTATA
1 TTTATATATATA
*
14407575 TTTATATTTATA
1 TTTATATATATA
14407587 TTTATATATAT
1 TTTATATATAT
14407598 TCGCTAATGT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 32 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (12 bp):
TTTATATATATA
Found at i:14407569 original size:6 final size:6
Alignment explanation
Indices: 14407560--14407593 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
14407550 TTTTATATAA
14407560 ATATTT ATATTT ATATTT ATATTT ATATTT ATAT
1 ATATTT ATATTT ATATTT ATATTT ATATTT ATAT
14407594 ATATTCGCTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (6 bp):
ATATTT
Found at i:14424650 original size:29 final size:29
Alignment explanation
Indices: 14424618--14424713 Score: 104
Period size: 29 Copynumber: 3.1 Consensus size: 29
14424608 CTATATAAAT
14424618 ATAAGTTTTAAAATTATTAATTAGGTTTA
1 ATAAGTTTTAAAATTATTAATTAGGTTTA
* **
14424647 ATAATTTATTTAATAATATTATTAATT-TTTTTAA
1 ATAA-GT-TTT-A-AA-ATTATTAATTAGGTTT-A
14424681 ATAAGTTTTAAAATTATTAATTAGGTTTA
1 ATAAGTTTTAAAATTATTAATTAGGTTTA
14424710 ATAA
1 ATAA
14424714 TTTATTTAAT
Statistics
Matches: 54, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
29 19 0.35
30 6 0.11
31 4 0.07
32 4 0.07
33 6 0.11
34 15 0.28
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (29 bp):
ATAAGTTTTAAAATTATTAATTAGGTTTA
Found at i:14424672 original size:21 final size:20
Alignment explanation
Indices: 14424643--14424743 Score: 71
Period size: 21 Copynumber: 4.8 Consensus size: 20
14424633 ATTAATTAGG
*
14424643 TTTAATAATTTATTTAATAA
1 TTTATTAATTTATTTAATAA
*
14424663 TATTATTAATTTTTTTAAATAA
1 T-TTATTAATTTATTT-AATAA
* * *
14424685 GTTT-TAAAATTA-TTAATTAGG
1 -TTTATTAATTTATTTAA-TA-A
*
14424706 TTTAATAATTTATTTAATAA
1 TTTATTAATTTATTTAATAA
*
14424726 TATTATTAATTTTTTTAA
1 T-TTATTAATTTATTTAA
14424744 ACATTAATCT
Statistics
Matches: 61, Mismatches: 12, Indels: 15
0.69 0.14 0.17
Matches are distributed among these distances:
19 2 0.03
20 9 0.15
21 38 0.62
22 11 0.18
23 1 0.02
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (20 bp):
TTTATTAATTTATTTAATAA
Found at i:14424673 original size:34 final size:34
Alignment explanation
Indices: 14424630--14424736 Score: 136
Period size: 34 Copynumber: 3.3 Consensus size: 34
14424620 AAGTTTTAAA
14424630 ATTATTAATTAGGTTTAATAATTTATTTAATAAT
1 ATTATTAATTAGGTTTAATAATTTATTTAATAAT
** *
14424664 ATTATTAATT-TTTTTAAATAA-GT-TTT-A-AA-
1 ATTATTAATTAGGTTT-AATAATTTATTTAATAAT
14424693 ATTATTAATTAGGTTTAATAATTTATTTAATAAT
1 ATTATTAATTAGGTTTAATAATTTATTTAATAAT
14424727 ATTATTAATT
1 ATTATTAATT
14424737 TTTTTAAACA
Statistics
Matches: 60, Mismatches: 6, Indels: 14
0.75 0.08 0.17
Matches are distributed among these distances:
29 15 0.25
30 6 0.10
31 4 0.07
32 4 0.07
33 6 0.10
34 25 0.42
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (34 bp):
ATTATTAATTAGGTTTAATAATTTATTTAATAAT
Found at i:14424691 original size:63 final size:63
Alignment explanation
Indices: 14424618--14424744 Score: 254
Period size: 63 Copynumber: 2.0 Consensus size: 63
14424608 CTATATAAAT
14424618 ATAAGTTTTAAAATTATTAATTAGGTTTAATAATTTATTTAATAATATTATTAATTTTTTTAA
1 ATAAGTTTTAAAATTATTAATTAGGTTTAATAATTTATTTAATAATATTATTAATTTTTTTAA
14424681 ATAAGTTTTAAAATTATTAATTAGGTTTAATAATTTATTTAATAATATTATTAATTTTTTTAA
1 ATAAGTTTTAAAATTATTAATTAGGTTTAATAATTTATTTAATAATATTATTAATTTTTTTAA
14424744 A
1 A
14424745 CATTAATCTT
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 64 1.00
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.54
Consensus pattern (63 bp):
ATAAGTTTTAAAATTATTAATTAGGTTTAATAATTTATTTAATAATATTATTAATTTTTTTAA
Found at i:14424976 original size:21 final size:22
Alignment explanation
Indices: 14424951--14424995 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
14424941 ATATAAAAGA
* *
14424951 TAAATAA-TAATATTAATTTTT
1 TAAATAATTAATATAAATTATT
14424972 TAAATAATTAATATAAATTATT
1 TAAATAATTAATATAAATTATT
14424994 TA
1 TA
14424996 TTTAAAAGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
TAAATAATTAATATAAATTATT
Found at i:14424978 original size:25 final size:26
Alignment explanation
Indices: 14424950--14425001 Score: 63
Period size: 25 Copynumber: 2.0 Consensus size: 26
14424940 AATATAAAAG
*
14424950 ATAAATAATA-ATATTAATTT-TTTAA
1 ATAAATAATATAAATT-ATTTATTTAA
*
14424975 ATAATTAATATAAATTATTTATTTAA
1 ATAAATAATATAAATTATTTATTTAA
14425001 A
1 A
14425002 AGATTTCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
25 13 0.57
26 10 0.43
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (26 bp):
ATAAATAATATAAATTATTTATTTAA
Found at i:14425901 original size:29 final size:29
Alignment explanation
Indices: 14425825--14425906 Score: 87
Period size: 29 Copynumber: 2.8 Consensus size: 29
14425815 ATTTAATTAG
*
14425825 TTTTTTAAATTTTAAAAAATTCAAGAAATA
1 TTTTTTTAATTTTAAAAAATT-AAGAAATA
* **
14425855 TGTTTTTAGAAGTT-AAAAATTATA-AAATA
1 TTTTTTTA-ATTTTAAAAAATTA-AGAAATA
14425884 TTTTTTTAATTTTAAAAAATTAA
1 TTTTTTTAATTTTAAAAAATTAA
14425907 TTAAATGTTT
Statistics
Matches: 42, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
28 4 0.10
29 21 0.50
30 14 0.33
31 3 0.07
ACGTcount: A:0.48, C:0.01, G:0.05, T:0.46
Consensus pattern (29 bp):
TTTTTTTAATTTTAAAAAATTAAGAAATA
Found at i:14427182 original size:17 final size:18
Alignment explanation
Indices: 14427160--14427196 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
14427150 AAGTGAATAG
14427160 TAATATTTTATAAT-ATT
1 TAATATTTTATAATAATT
*
14427177 TAATATTTTTTAATAATT
1 TAATATTTTATAATAATT
14427195 TA
1 TA
14427197 CATAAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 13 0.72
18 5 0.28
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
TAATATTTTATAATAATT
Found at i:14427941 original size:10 final size:10
Alignment explanation
Indices: 14427873--14427953 Score: 60
Period size: 9 Copynumber: 8.0 Consensus size: 10
14427863 AAAAAAAATC
14427873 TATAATTTTT
1 TATAATTTTT
*
14427883 TA-AATATTT
1 TATAATTTTT
14427892 T-TAATTTTT
1 TATAATTTTT
*
14427901 TAT-ATTTTA
1 TATAATTTTT
14427910 TATAACTTTTT
1 TATAA-TTTTT
**
14427921 ATAGTTTTTTTT
1 -TA-TAATTTTT
14427933 TATAATTTTT
1 TATAATTTTT
*
14427943 AATACATTTTT
1 TATA-ATTTTT
14427954 ATTTAATTTC
Statistics
Matches: 55, Mismatches: 9, Indels: 13
0.71 0.12 0.17
Matches are distributed among these distances:
9 22 0.40
10 13 0.24
11 12 0.22
12 7 0.13
13 1 0.02
ACGTcount: A:0.30, C:0.02, G:0.01, T:0.67
Consensus pattern (10 bp):
TATAATTTTT
Found at i:14427984 original size:11 final size:11
Alignment explanation
Indices: 14427970--14428034 Score: 55
Period size: 11 Copynumber: 6.2 Consensus size: 11
14427960 TTTCAAAAAA
*
14427970 ATTTCTATAAT
1 ATTTATATAAT
* *
14427981 ATTTTTATAAC
1 ATTTATATAAT
* *
14427992 ATATAAATAAT
1 ATTTATATAAT
14428003 ATTTA-ATAAT
1 ATTTATATAAT
14428013 ATTTATAT-AT
1 ATTTATATAAT
*
14428023 -TTTTTATAAT
1 ATTTATATAAT
14428033 AT
1 AT
14428035 CTTCATACTT
Statistics
Matches: 43, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
9 6 0.14
10 14 0.33
11 23 0.53
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (11 bp):
ATTTATATAAT
Found at i:14428033 original size:20 final size:20
Alignment explanation
Indices: 14428008--14428072 Score: 55
Period size: 20 Copynumber: 3.2 Consensus size: 20
14427998 ATAATATTTA
14428008 ATAATATTTATATATTTTTT
1 ATAATATTTATATATTTTTT
*
14428028 ATAATATCTTCATACT-TTTTTC
1 ATAATAT-TT-ATA-TATTTTTT
*
14428050 A-AATATTTA-ATAATATTTT
1 ATAATATTTATAT-ATTTTTT
14428069 ATAA
1 ATAA
14428073 AATAAACTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 12
0.71 0.06 0.24
Matches are distributed among these distances:
17 1 0.03
18 1 0.03
19 6 0.17
20 11 0.31
21 7 0.19
22 9 0.25
23 1 0.03
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.55
Consensus pattern (20 bp):
ATAATATTTATATATTTTTT
Found at i:14430138 original size:17 final size:17
Alignment explanation
Indices: 14430116--14430149 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
14430106 CTTTAATTAA
* *
14430116 TTTAAAATATTTTAAAT
1 TTTAAAAGAATTTAAAT
14430133 TTTAAAAGAATTTAAAT
1 TTTAAAAGAATTTAAAT
14430150 AAAAGAATTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (17 bp):
TTTAAAAGAATTTAAAT
Found at i:14430251 original size:17 final size:17
Alignment explanation
Indices: 14430211--14430296 Score: 75
Period size: 17 Copynumber: 5.0 Consensus size: 17
14430201 TCCAATGAGA
14430211 TAAATTTAGTTTTAAA-T
1 TAAATTTA-TTTTAAATT
* *
14430228 TAGATTTATTTTGAATT
1 TAAATTTATTTTAAATT
*** *
14430245 TAAATTTGCATAAAATT
1 TAAATTTATTTTAAATT
*
14430262 TAAATTTATTATAAATT
1 TAAATTTATTTTAAATT
*
14430279 TAAATTTAAATTTAAATT
1 TAAATTT-ATTTTAAATT
14430297 GGATAAAATT
Statistics
Matches: 52, Mismatches: 15, Indels: 3
0.74 0.21 0.04
Matches are distributed among these distances:
16 6 0.12
17 38 0.73
18 8 0.15
ACGTcount: A:0.43, C:0.01, G:0.05, T:0.51
Consensus pattern (17 bp):
TAAATTTATTTTAAATT
Found at i:14430266 original size:6 final size:6
Alignment explanation
Indices: 14430257--14430296 Score: 57
Period size: 6 Copynumber: 6.8 Consensus size: 6
14430247 AATTTGCATA
14430257 AAATTT AAATTT --ATTAT AAATTT AAATTT AAATTT AAATT
1 AAATTT AAATTT AAATT-T AAATTT AAATTT AAATTT AAATT
14430297 GGATAAAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
4 3 0.10
5 1 0.03
6 24 0.77
7 3 0.10
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
AAATTT
Found at i:14430613 original size:88 final size:88
Alignment explanation
Indices: 14430461--14430643 Score: 321
Period size: 88 Copynumber: 2.1 Consensus size: 88
14430451 CCCACTTGCA
* *
14430461 CTGCTCCACCACCACATCAGCCAATTGAGATCCGCCACATCAGCACCAGCAGCTCCAAGTTGCTT
1 CTGCTCCACCACCACATCAACCAATTGAGATCCGCCACATCAGCACCAGCAGCTCCAAGCTGCTT
* *
14430526 CTGCCACAGTCACCTTTTTCAAG
66 CTGCCACAATCACCTTCTTCAAG
*
14430549 CTGCTCCACCACCACATCAACCAATTGAGATCCGTCACATCAGCACCAGCAGCTCCAAGCTGCTT
1 CTGCTCCACCACCACATCAACCAATTGAGATCCGCCACATCAGCACCAGCAGCTCCAAGCTGCTT
14430614 CTGCCACAATCACCTTCTTCAAG
66 CTGCCACAATCACCTTCTTCAAG
14430637 CTGCTCC
1 CTGCTCC
14430644 CAACCGCCAC
Statistics
Matches: 90, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
88 90 1.00
ACGTcount: A:0.25, C:0.40, G:0.14, T:0.21
Consensus pattern (88 bp):
CTGCTCCACCACCACATCAACCAATTGAGATCCGCCACATCAGCACCAGCAGCTCCAAGCTGCTT
CTGCCACAATCACCTTCTTCAAG
Found at i:14432202 original size:30 final size:29
Alignment explanation
Indices: 14432166--14432332 Score: 110
Period size: 30 Copynumber: 5.6 Consensus size: 29
14432156 AAACTATCTA
* **
14432166 AAAATTATATTTTAACCCCAAATCTTTTTG
1 AAAATTATATTTTAACCCCAAA-CTTCTCC
* *
14432196 AAAATTACATTTTGACCCCTAAACTTCTCC
1 AAAATTATATTTTAACCCC-AAACTTCTCC
*
14432226 AAAATTATCATTTTACCCCCAAACCTTCT--
1 AAAATTAT-ATTTTAACCCCAAA-CTTCTCC
* *
14432255 AAAATTCCAT-TTTTAACCCCGAA-TTCACC
1 AAAATT--ATATTTTAACCCCAAACTTCTCC
* * *
14432284 AAAATTACCATTCTACCCCCTAAACTT-TCC
1 AAAATTA-TATTTTAACCCC-AAACTTCTCC
*
14432314 AAAATTCTATTTTCAACCC
1 AAAATTATATTTT-AACCC
14432333 TGATTTCACC
Statistics
Matches: 105, Mismatches: 20, Indels: 24
0.70 0.13 0.16
Matches are distributed among these distances:
27 4 0.04
29 35 0.33
30 45 0.43
31 21 0.20
ACGTcount: A:0.35, C:0.29, G:0.02, T:0.35
Consensus pattern (29 bp):
AAAATTATATTTTAACCCCAAACTTCTCC
Found at i:14432376 original size:28 final size:27
Alignment explanation
Indices: 14432196--14432558 Score: 145
Period size: 29 Copynumber: 12.5 Consensus size: 27
14432186 AATCTTTTTG
* * *
14432196 AAAATTACATTTTGACCCCTAAACTTCTCC
1 AAAATTCCATTTT-ACCCC-GAACCT-TCC
* * *
14432226 AAAATTATCATTTTACCCCCAAACCTTCT
1 AAAATT-CCATTTTA-CCCCGAACCTTCC
14432255 AAAATTCCATTTTTAACCCCGAA--TTCACC
1 AAAATTCCA-TTTT-ACCCCGAACCTT--CC
* * *
14432284 AAAATTACCATTCTACCCCCTAAACTTTCC
1 AAAATT-CCATTTTA-CCCC-GAACCTTCC
* * *
14432314 AAAATTCTATTTTCAACCCTG-A-TTTCACC
1 AAAATTCCATTTT--ACCCCGAACCTT--CC
*
14432343 AAAATTACCATTTTACCTCGAACCTTCC
1 AAAATT-CCATTTTACCCCGAACCTTCC
14432371 AAAATTCCATTTTTGACCCCG-A-CTTCACC
1 AAAATTCCA-TTTT-ACCCCGAACCTT--CC
14432400 AAAAATTACCATTTTACCCCCGAACCTTCC
1 -AAAATT-CCATTTTA-CCCCGAACCTTCC
* *
14432430 AAAATTCCATTTTTGACCCTG-A-TTTCACC
1 AAAATTCCA-TTTT-ACCCCGAACCTT--CC
* *
14432459 AAAATTACCATTCTACCCCCTAAACCTTCC
1 AAAATT-CCATTTTA-CCCC-GAACCTTCC
* *
14432489 AAAATTCCATTTTAACCCTG-A-TTTCGCC
1 AAAATTCCATTTT-ACCCCGAACCTT--CC
14432517 AAAATTTCCATTTTACCCCCGAACCTTCC
1 AAAA-TTCCATTTTA-CCCCGAACCTTCC
14432546 AAAA-TCTCATTTT
1 AAAATTC-CATTTT
14432559 TAACCTCGAA
Statistics
Matches: 260, Mismatches: 29, Indels: 90
0.69 0.08 0.24
Matches are distributed among these distances:
26 2 0.01
27 16 0.06
28 39 0.15
29 110 0.42
30 68 0.26
31 18 0.07
32 7 0.03
ACGTcount: A:0.32, C:0.32, G:0.03, T:0.33
Consensus pattern (27 bp):
AAAATTCCATTTTACCCCGAACCTTCC
Found at i:14432390 original size:116 final size:116
Alignment explanation
Indices: 14432224--14432563 Score: 470
Period size: 116 Copynumber: 2.9 Consensus size: 116
14432214 CTAAACTTCT
* *
14432224 CCAAAATTATCATTTTACCCCCAAACCTTCTAAAATTCCATTTTTAACCCCGAATTCACCAAAAT
1 CCAAAATTACCATTTTACCCCCAAACCTTCCAAAATTCCATTTTTAACCCCGAATTCACCAAAAT
* * * *
14432289 TACCATTCTACCCCCTAAACTTTCCAAAATTCTATTTTCAACCCTGATTTCA
66 TACCATTTTACCCCC-GAACCTTCCAAAATTCTATTTTTAACCCTGATTTCA
* * * *
14432341 CCAAAATTACCATTTTA-CCTCGAACCTTCCAAAATTCCATTTTTGACCCCGACTTCACCAAAAA
1 CCAAAATTACCATTTTACCCCCAAACCTTCCAAAATTCCATTTTTAACCCCGAATTCACC-AAAA
* *
14432405 TTACCATTTTACCCCCGAACCTTCCAAAATTCCATTTTTGACCCTGATTTCA
65 TTACCATTTTACCCCCGAACCTTCCAAAATTCTATTTTTAACCCTGATTTCA
* * * *
14432457 CCAAAATTACCATTCTACCCCCTAAACCTTCCAAAATTCCA-TTTTAACCCTGATTTCGCCAAAA
1 CCAAAATTACCATTTTACCCCC-AAACCTTCCAAAATTCCATTTTTAACCCCGAATTCACCAAAA
*
14432521 TTTCCATTTTACCCCCGAACCTTCCAAAA-TCTCATTTTTAACC
65 TTACCATTTTACCCCCGAACCTTCCAAAATTCT-ATTTTTAACC
14432564 TCGAATTTCC
Statistics
Matches: 197, Mismatches: 22, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
115 2 0.01
116 125 0.63
117 53 0.27
118 17 0.09
ACGTcount: A:0.31, C:0.33, G:0.03, T:0.32
Consensus pattern (116 bp):
CCAAAATTACCATTTTACCCCCAAACCTTCCAAAATTCCATTTTTAACCCCGAATTCACCAAAAT
TACCATTTTACCCCCGAACCTTCCAAAATTCTATTTTTAACCCTGATTTCA
Found at i:14432542 original size:175 final size:175
Alignment explanation
Indices: 14432196--14432559 Score: 538
Period size: 175 Copynumber: 2.1 Consensus size: 175
14432186 AATCTTTTTG
* * * *
14432196 AAAATTACA-TTTTGACCCCTAAACTTCTCCAAAATTATCATTTTACCCCCAAACCTTCTAAAAT
1 AAAATTCCATTTTTGACCCC-AAACTTCACCAAAATTACCATTTTACCCCCAAACCTTCCAAAAT
* *
14432260 TCCATTTTTAACCCCGAATTCACCAAAATTACCATTCTACCCCCTAAACTTTCCAAAATTCTATT
65 TCCATTTTTAACCCCGAATTCACCAAAATTACCATTCTACCCCCTAAACCTTCCAAAATTCCATT
*
14432325 TTCAACCCTGATTTCACCAAAATTACCATTTTACCTCGAACCTTCC
130 TTCAACCCTGATTTCACCAAAATTACCATTTTACCCCGAACCTTCC
* *
14432371 AAAATTCCATTTTTGACCCC-GACTTCACCAAAAATTACCATTTTACCCCCGAACCTTCCAAAAT
1 AAAATTCCATTTTTGACCCCAAACTTCACC-AAAATTACCATTTTACCCCCAAACCTTCCAAAAT
* * *
14432435 TCCATTTTTGACCCTGATTTCACCAAAATTACCATTCTACCCCCTAAACCTTCCAAAATTCCATT
65 TCCATTTTTAACCCCGAATTCACCAAAATTACCATTCTACCCCCTAAACCTTCCAAAATTCCATT
* *
14432500 TT-AACCCTGATTTCGCCAAAATTTCCATTTTACCCCCGAACCTTCC
130 TTCAACCCTGATTTCACCAAAATTACCATTTTA-CCCCGAACCTTCC
14432546 AAAA-TCTCATTTTT
1 AAAATTC-CATTTTT
14432560 AACCTCGAAT
Statistics
Matches: 171, Mismatches: 14, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
174 37 0.22
175 124 0.73
176 10 0.06
ACGTcount: A:0.32, C:0.32, G:0.03, T:0.33
Consensus pattern (175 bp):
AAAATTCCATTTTTGACCCCAAACTTCACCAAAATTACCATTTTACCCCCAAACCTTCCAAAATT
CCATTTTTAACCCCGAATTCACCAAAATTACCATTCTACCCCCTAAACCTTCCAAAATTCCATTT
TCAACCCTGATTTCACCAAAATTACCATTTTACCCCGAACCTTCC
Found at i:14432597 original size:59 final size:58
Alignment explanation
Indices: 14432224--14432563 Score: 452
Period size: 59 Copynumber: 5.8 Consensus size: 58
14432214 CTAAACTTCT
* * * * *
14432224 CCAAAATTATCATTTTACCCCCAAACCTTCTAAAATTCCATTTTTAACCCCGAATTCA
1 CCAAAATTACCATTTTACCCCCGAACCTTCCAAAATTCCATTTTTAACCCTGATTTCA
* * * * *
14432282 CCAAAATTACCATTCTACCCCCTAAACTTTCCAAAATTCTATTTTCAACCCTGATTTCA
1 CCAAAATTACCATTTTACCCCC-GAACCTTCCAAAATTCCATTTTTAACCCTGATTTCA
* * * *
14432341 CCAAAATTACCATTTTA-CCTCGAACCTTCCAAAATTCCATTTTTGACCCCGACTTCA
1 CCAAAATTACCATTTTACCCCCGAACCTTCCAAAATTCCATTTTTAACCCTGATTTCA
*
14432398 CCAAAAATTACCATTTTACCCCCGAACCTTCCAAAATTCCATTTTTGACCCTGATTTCA
1 CC-AAAATTACCATTTTACCCCCGAACCTTCCAAAATTCCATTTTTAACCCTGATTTCA
* * *
14432457 CCAAAATTACCATTCTACCCCCTAAACCTTCCAAAATTCCA-TTTTAACCCTGATTTCG
1 CCAAAATTACCATTTTACCCCC-GAACCTTCCAAAATTCCATTTTTAACCCTGATTTCA
*
14432515 CCAAAATTTCCATTTTACCCCCGAACCTTCCAAAA-TCTCATTTTTAACC
1 CCAAAATTACCATTTTACCCCCGAACCTTCCAAAATTC-CATTTTTAACC
14432564 TCGAATTTCC
Statistics
Matches: 249, Mismatches: 27, Indels: 12
0.86 0.09 0.04
Matches are distributed among these distances:
56 2 0.01
57 45 0.18
58 100 0.40
59 102 0.41
ACGTcount: A:0.31, C:0.33, G:0.03, T:0.32
Consensus pattern (58 bp):
CCAAAATTACCATTTTACCCCCGAACCTTCCAAAATTCCATTTTTAACCCTGATTTCA
Found at i:14432617 original size:175 final size:174
Alignment explanation
Indices: 14432218--14432617 Score: 497
Period size: 175 Copynumber: 2.3 Consensus size: 174
14432208 TGACCCCTAA
* * * * *
14432218 ACTTCTCC-AAAATTATCATTTTACCCCCAAACCTTCTAAAATTCCATTTTTAACCCCGAATTCA
1 ACTTCACCAAAAATTACCATTTTACCCCCGAA-CGTCAAAAATTCCATTTTTAACCCCGAATTCA
* *
14432282 CCAAAATTACCATTCTACCCCCTAAACTTTCCAAAATTCTATTTTCAACCCTGATTTCACCAAAA
65 CCAAAATTACCATTCTACCCCCTAAACCTTCCAAAATTCCATTTTCAACCCTGATTTCACCAAAA
* *
14432347 TTACCATTTTACCTCGAACCTTCCAAAATTCCATTTTTGACCCCG
130 TTACCATTTTACCCCGAACCTTCCAAAATTCCATTTTTAACCCCG
* * * * *
14432392 ACTTCACCAAAAATTACCATTTTACCCCCGAACCTTCCAAAATTCCATTTTTGACCCTGATTTCA
1 ACTTCACCAAAAATTACCATTTTACCCCCGAA-CGTCAAAAATTCCATTTTTAACCCCGAATTCA
*
14432457 CCAAAATTACCATTCTACCCCCTAAACCTTCCAAAATTCCATTTT-AACCCTGATTTCGCCAAAA
65 CCAAAATTACCATTCTACCCCCTAAACCTTCCAAAATTCCATTTTCAACCCTGATTTCACCAAAA
* *
14432521 TTTCCATTTTACCCCCGAACCTTCCAAAA-TCTCATTTTTAACCTCG
130 TTACCATTTTA-CCCCGAACCTTCCAAAATTC-CATTTTTAACCCCG
* * * *
14432567 AATTTC-CCTAAAATT-TCATTTTTGCCCCCGATA-GTCAAAAATTACCATTTT
1 -ACTTCACCAAAAATTACCA-TTTTACCCCCGA-ACGTCAAAAATT-CCATTTT
14432618 GCCCCCAGGT
Statistics
Matches: 199, Mismatches: 20, Indels: 13
0.86 0.09 0.06
Matches are distributed among these distances:
174 47 0.24
175 147 0.74
176 5 0.03
ACGTcount: A:0.31, C:0.32, G:0.04, T:0.34
Consensus pattern (174 bp):
ACTTCACCAAAAATTACCATTTTACCCCCGAACGTCAAAAATTCCATTTTTAACCCCGAATTCAC
CAAAATTACCATTCTACCCCCTAAACCTTCCAAAATTCCATTTTCAACCCTGATTTCACCAAAAT
TACCATTTTACCCCGAACCTTCCAAAATTCCATTTTTAACCCCG
Found at i:14434235 original size:58 final size:58
Alignment explanation
Indices: 14434169--14434288 Score: 188
Period size: 58 Copynumber: 2.1 Consensus size: 58
14434159 ACCCATCAAC
* *
14434169 AAACTAAACCCAAATATTTTTAAACCCAAATATAATTTCATTCTTCAAA-AACACTTAT
1 AAACTAAACCCAAATATTTTTAAACCCAAATATAATTTCATTCCT-AAATAACACTCAT
* *
14434227 AAACTAAACCTAAATATTTTTAAACCCAAATATAATTTTATTCCTAAATAACACTCAT
1 AAACTAAACCCAAATATTTTTAAACCCAAATATAATTTCATTCCTAAATAACACTCAT
14434285 AAAC
1 AAAC
14434289 AACTCATTTT
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
57 3 0.05
58 54 0.95
ACGTcount: A:0.47, C:0.20, G:0.00, T:0.33
Consensus pattern (58 bp):
AAACTAAACCCAAATATTTTTAAACCCAAATATAATTTCATTCCTAAATAACACTCAT
Found at i:14435502 original size:24 final size:24
Alignment explanation
Indices: 14435463--14435533 Score: 106
Period size: 24 Copynumber: 3.0 Consensus size: 24
14435453 TGACTCAAAG
*
14435463 AAATAAACAGAATTTAATTGAAAC
1 AAATAAACAGAGTTTAATTGAAAC
*
14435487 AAATAAATAGAGTTTAATTGAAAC
1 AAATAAACAGAGTTTAATTGAAAC
* *
14435511 AAATAAACAGGGTTTAACTGAAA
1 AAATAAACAGAGTTTAATTGAAA
14435534 GATTATTTCT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 42 1.00
ACGTcount: A:0.55, C:0.07, G:0.13, T:0.25
Consensus pattern (24 bp):
AAATAAACAGAGTTTAATTGAAAC
Found at i:14437161 original size:8 final size:8
Alignment explanation
Indices: 14437148--14437180 Score: 66
Period size: 8 Copynumber: 4.1 Consensus size: 8
14437138 AAATAACGGA
14437148 AGAAATTG
1 AGAAATTG
14437156 AGAAATTG
1 AGAAATTG
14437164 AGAAATTG
1 AGAAATTG
14437172 AGAAATTG
1 AGAAATTG
14437180 A
1 A
14437181 TACAATAATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.24, T:0.24
Consensus pattern (8 bp):
AGAAATTG
Found at i:14437494 original size:21 final size:21
Alignment explanation
Indices: 14437448--14437528 Score: 60
Period size: 21 Copynumber: 3.8 Consensus size: 21
14437438 TGATTTTATA
*
14437448 TAAAAATTATTAAAAAAATTC
1 TAAAAATTATTAAAAAAAATC
*
14437469 AAAAAACTT-TTAAAAAAAATC
1 TAAAAA-TTATTAAAAAAAATC
* *
14437490 T-AAAAGTATATAAAAAAGAATTA
1 TAAAAATTAT-TAAAAAA-AA-TC
14437513 TAACAAATT-TTAAAAA
1 TAA-AAATTATTAAAAA
14437529 TATATAAATA
Statistics
Matches: 47, Mismatches: 6, Indels: 12
0.72 0.09 0.18
Matches are distributed among these distances:
19 1 0.02
20 5 0.11
21 23 0.49
22 4 0.09
23 8 0.17
24 2 0.04
25 4 0.09
ACGTcount: A:0.64, C:0.05, G:0.02, T:0.28
Consensus pattern (21 bp):
TAAAAATTATTAAAAAAAATC
Found at i:14438782 original size:122 final size:122
Alignment explanation
Indices: 14438548--14438787 Score: 392
Period size: 122 Copynumber: 2.0 Consensus size: 122
14438538 AAATAATTTT
14438548 TATATACATATATTAAATATTTTCAAAATTATTGATAAATCTAAAACAGTACATCGAAGCATACT
1 TATATACATATATTAAATATTTTCAAAATTATTGATAAATCTAAAACAGTACATCGAAGCATACT
* * * *
14438613 GATACCAATATGTATCAGTTTTAGTAGAAAAACGGTGTACCTGTCGATGTGATTATA
66 GATACCAATATGTATCAGTTTTAGTAGAAAAAAGATGCACCTATCGATGTGATTATA
* * * *
14438670 TATATATATATATTAAATATTTTTAAAATTATTGATAAATCTAAAACAGTATATCGAAGCATATT
1 TATATACATATATTAAATATTTTCAAAATTATTGATAAATCTAAAACAGTACATCGAAGCATACT
14438735 GATACCAATATGTATCAGTTTTAGTAGAAAAAAGATGCA-CTCATCGATGTGAT
66 GATACCAATATGTATCAGTTTTAGTAGAAAAAAGATGCACCT-ATCGATGTGAT
14438788 ACTGACTGCC
Statistics
Matches: 109, Mismatches: 8, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
121 2 0.02
122 107 0.98
ACGTcount: A:0.41, C:0.11, G:0.12, T:0.35
Consensus pattern (122 bp):
TATATACATATATTAAATATTTTCAAAATTATTGATAAATCTAAAACAGTACATCGAAGCATACT
GATACCAATATGTATCAGTTTTAGTAGAAAAAAGATGCACCTATCGATGTGATTATA
Found at i:14439228 original size:25 final size:24
Alignment explanation
Indices: 14439192--14439247 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
14439182 TTTGATTCAT
14439192 ATTTATTTTCTCACATTGGTACATA
1 ATTT-TTTTCTCACATTGGTACATA
** *
14439217 ATTTTTTGTCTCATTTTGGTACTTA
1 ATTTTTT-TCTCACATTGGTACATA
*
14439242 AATTTT
1 ATTTTT
14439248 GTTACGTTAC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
24 3 0.12
25 23 0.88
ACGTcount: A:0.23, C:0.12, G:0.09, T:0.55
Consensus pattern (24 bp):
ATTTTTTTCTCACATTGGTACATA
Found at i:14439330 original size:95 final size:95
Alignment explanation
Indices: 14439167--14439352 Score: 318
Period size: 95 Copynumber: 2.0 Consensus size: 95
14439157 AAGGGGCTTA
* * *
14439167 ATTCACTATTTAGCCTTTGATTCATATTTATTTTCTCACATTGGTACATAATTTTTTGTCTCATT
1 ATTCACTATTTAGCCTTTGAGTCATATTCATTTTCTCACATTGATACATAATTTTTTGTCTCATT
14439232 TTGGTACTTAAATTTTGTTACGTTACCTTT
66 TTGGTACTTAAATTTTGTTACGTTACCTTT
* * *
14439262 ATTCACTATTTAGCCTTTGAGTCATATTCGTTTTCTCGCATTGATACATAATTTTTTGTCTTATT
1 ATTCACTATTTAGCCTTTGAGTCATATTCATTTTCTCACATTGATACATAATTTTTTGTCTCATT
14439327 TTGGTACTTAAATTTTGTTACGTTAC
66 TTGGTACTTAAATTTTGTTACGTTAC
14439353 TTGTTTTGGT
Statistics
Matches: 85, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
95 85 1.00
ACGTcount: A:0.22, C:0.16, G:0.11, T:0.52
Consensus pattern (95 bp):
ATTCACTATTTAGCCTTTGAGTCATATTCATTTTCTCACATTGATACATAATTTTTTGTCTCATT
TTGGTACTTAAATTTTGTTACGTTACCTTT
Found at i:14439517 original size:10 final size:10
Alignment explanation
Indices: 14439504--14439546 Score: 54
Period size: 10 Copynumber: 4.5 Consensus size: 10
14439494 CATTAAAAGT
14439504 TAAAAAATTA
1 TAAAAAATTA
14439514 T-AAAAATTA
1 TAAAAAATTA
* *
14439523 TTAAAAAGTA
1 TAAAAAATTA
14439533 TAAAAAATTA
1 TAAAAAATTA
14439543 -AAAA
1 TAAAA
14439547 TAAAAAGTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
9 13 0.45
10 16 0.55
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (10 bp):
TAAAAAATTA
Found at i:14439518 original size:27 final size:28
Alignment explanation
Indices: 14439486--14439546 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 28
14439476 ATGTTGACGG
14439486 TAAAAAATCATT-AAAAGT-TAAAAAAT
1 TAAAAAATCATTAAAAAGTATAAAAAAT
*
14439512 TATAAAAATTATTAAAAAGTATAAAAAAT
1 TA-AAAAATCATTAAAAAGTATAAAAAAT
14439541 TAAAAA
1 TAAAAA
14439547 TAAAAAGTTG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
26 2 0.06
27 9 0.29
28 10 0.32
29 10 0.32
ACGTcount: A:0.67, C:0.02, G:0.03, T:0.28
Consensus pattern (28 bp):
TAAAAAATCATTAAAAAGTATAAAAAAT
Found at i:14439526 original size:20 final size:18
Alignment explanation
Indices: 14439498--14439546 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
14439488 AAAAATCATT
* *
14439498 AAAAGTTAAAAAATTAT-
1 AAAAATTAAAAAAGTATA
14439515 AAAAATTATTAAAAAGTATA
1 AAAAATTA--AAAAAGTATA
14439535 AAAAATTAAAAA
1 AAAAATTAAAAA
14439547 TAAAAAGTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 7 0.26
18 4 0.15
19 8 0.30
20 8 0.30
ACGTcount: A:0.69, C:0.00, G:0.04, T:0.27
Consensus pattern (18 bp):
AAAAATTAAAAAAGTATA
Found at i:14439528 original size:19 final size:17
Alignment explanation
Indices: 14439506--14439547 Score: 57
Period size: 19 Copynumber: 2.4 Consensus size: 17
14439496 TTAAAAGTTA
14439506 AAAAATTATAAAAATTATT
1 AAAAATTATAAAAA--ATT
*
14439525 AAAAAGTATAAAAAATT
1 AAAAATTATAAAAAATT
14439542 AAAAAT
1 AAAAAT
14439548 AAAAAGTTGG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 8 0.38
19 13 0.62
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (17 bp):
AAAAATTATAAAAAATT
Found at i:14441386 original size:26 final size:24
Alignment explanation
Indices: 14441350--14441400 Score: 59
Period size: 26 Copynumber: 2.0 Consensus size: 24
14441340 AATTTAGATC
14441350 TTTAAAATTATTATTT-TTAAATAT
1 TTTAAAATTATT-TTTCTTAAATAT
*
14441374 TTTAAAATTTTATTTTTCTTATATAT
1 TTTAAAA--TTATTTTTCTTAAATAT
14441400 T
1 T
14441401 CTTTAGTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (24 bp):
TTTAAAATTATTTTTCTTAAATAT
Found at i:14445006 original size:24 final size:26
Alignment explanation
Indices: 14444979--14445028 Score: 77
Period size: 24 Copynumber: 2.0 Consensus size: 26
14444969 ATATATTTGC
*
14444979 GTGTATGTATG-GA-AGGATATATGG
1 GTGTATGTATGTAATAGGATATATGG
14445003 GTGTATGTATGTAATAGGATATATGG
1 GTGTATGTATGTAATAGGATATATGG
14445029 TTTCTGTAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 11 0.48
25 1 0.04
26 11 0.48
ACGTcount: A:0.30, C:0.00, G:0.34, T:0.36
Consensus pattern (26 bp):
GTGTATGTATGTAATAGGATATATGG
Found at i:14446973 original size:90 final size:90
Alignment explanation
Indices: 14446737--14446977 Score: 277
Period size: 90 Copynumber: 2.7 Consensus size: 90
14446727 AAACTTTTTC
* * *
14446737 AAAAAAAAAAACAATTAAGCCTCTACTTTTTTTTTTTGCACTCACTTAGAGTACTTGAACTTTCA
1 AAAAAAAAAAACAATTAAGCCCCTA-TTTTTTTTTTTGCACTGAATT-GAGTACTTGAACTTTCA
* * *
14446802 TAATGCTTCAAAAATACCCTCAAACTT
64 AAATGCATCAAAAAGACCCTCAAACTT
* * * * **
14446829 AAAAAAAAAAAAAATTTAAGCTCCTA-CTTTTTTCTTGCACTGAATTGAAAACTTGAACTTTCAA
1 AAAAAAAAAAACAA-TTAAGCCCCTATTTTTTTTTTTGCACTGAATTGAGTACTTGAACTTTCAA
*
14446893 AATGCATCAAAAAGACCCTCAAATTT
65 AATGCATCAAAAAGACCCTCAAACTT
**** * *
14446919 TTTCAAAAAAGCAATTAAGCCCCTATTTTTTTTTTTGCACTGAATTGGGTACTTGAACT
1 AAAAAAAAAAACAATTAAGCCCCTATTTTTTTTTTTGCACTGAATTGAGTACTTGAACT
14446978 GCCCCTAAAA
Statistics
Matches: 122, Mismatches: 25, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
89 10 0.08
90 74 0.61
91 16 0.13
92 13 0.11
93 9 0.07
ACGTcount: A:0.38, C:0.19, G:0.09, T:0.34
Consensus pattern (90 bp):
AAAAAAAAAAACAATTAAGCCCCTATTTTTTTTTTTGCACTGAATTGAGTACTTGAACTTTCAAA
ATGCATCAAAAAGACCCTCAAACTT
Found at i:14447459 original size:19 final size:20
Alignment explanation
Indices: 14447427--14447519 Score: 77
Period size: 19 Copynumber: 4.8 Consensus size: 20
14447417 TAAAAGGGTC
* *
14447427 TTTTTGATGCATTTTATAAT
1 TTTTTTATGAATTTTATAAT
14447447 TTTTTTATG-ATTTTATAA-
1 TTTTTTATGAATTTTATAAT
* **
14447465 -ATTTTACAATATTTTATAA-
1 TTTTTTATGA-ATTTTATAAT
*
14447484 TTTTTTAGGAATTTTATAAT
1 TTTTTTATGAATTTTATAAT
* *
14447504 TTTTTTCTAAATTTTA
1 TTTTTTATGAATTTTA
14447520 ATATTTTTAT
Statistics
Matches: 59, Mismatches: 10, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
17 5 0.08
19 27 0.46
20 27 0.46
ACGTcount: A:0.30, C:0.03, G:0.05, T:0.61
Consensus pattern (20 bp):
TTTTTTATGAATTTTATAAT
Found at i:14447508 original size:10 final size:10
Alignment explanation
Indices: 14447437--14447507 Score: 53
Period size: 9 Copynumber: 7.5 Consensus size: 10
14447427 TTTTTGATGC
14447437 ATTTTATAAT
1 ATTTTATAAT
*
14447447 -TTTT-TTAT
1 ATTTTATAAT
14447455 GATTTTATAA-
1 -ATTTTATAAT
*
14447465 ATTTTACAAT
1 ATTTTATAAT
14447475 ATTTTATAAT
1 ATTTTATAAT
* **
14447485 TTTTTAGGA-
1 ATTTTATAAT
14447494 ATTTTATAAT
1 ATTTTATAAT
14447504 -TTTT
1 ATTTT
14447508 TTCTAAATTT
Statistics
Matches: 46, Mismatches: 10, Indels: 11
0.69 0.15 0.16
Matches are distributed among these distances:
8 3 0.07
9 22 0.48
10 19 0.41
11 2 0.04
ACGTcount: A:0.32, C:0.01, G:0.04, T:0.62
Consensus pattern (10 bp):
ATTTTATAAT
Found at i:14447518 original size:29 final size:29
Alignment explanation
Indices: 14447437--14447519 Score: 80
Period size: 29 Copynumber: 2.9 Consensus size: 29
14447427 TTTTTGATGC
* *
14447437 ATTTTATAATTTTTTTAT-GATTTTATAA
1 ATTTTATAATTTTTTTATAAATTTTAGAA
* * * *
14447465 ATTTTACAA-TATTTTATAATTTTTTAGGA
1 ATTTTATAATTTTTTTATAA-ATTTTAGAA
*
14447494 ATTTTATAATTTTTTTCTAAATTTTA
1 ATTTTATAATTTTTTTATAAATTTTA
14447520 ATATTTTTAT
Statistics
Matches: 42, Mismatches: 10, Indels: 5
0.74 0.18 0.09
Matches are distributed among these distances:
27 7 0.17
28 8 0.19
29 19 0.45
30 8 0.19
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (29 bp):
ATTTTATAATTTTTTTATAAATTTTAGAA
Found at i:14447533 original size:19 final size:20
Alignment explanation
Indices: 14447493--14447567 Score: 66
Period size: 19 Copynumber: 3.9 Consensus size: 20
14447483 ATTTTTTAGG
*
14447493 AATTTT-ATAATTTTTTTCTA
1 AATTTTAATAATTTTTAT-TA
14447513 AATTTTAAT-ATTTTTATTA
1 AATTTTAATAATTTTTATTA
* *
14447532 AAATCTAATAATTTTTA-TA
1 AATTTTAATAATTTTTATTA
* * *
14447551 ACTTTTATTGATTTTTA
1 AATTTTAATAATTTTTA
14447568 CTTTTAATAA
Statistics
Matches: 45, Mismatches: 8, Indels: 5
0.78 0.14 0.09
Matches are distributed among these distances:
19 23 0.51
20 20 0.44
21 2 0.04
ACGTcount: A:0.35, C:0.04, G:0.01, T:0.60
Consensus pattern (20 bp):
AATTTTAATAATTTTTATTA
Found at i:14447535 original size:20 final size:20
Alignment explanation
Indices: 14447499--14447549 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
14447489 TAGGAATTTT
* * *
14447499 ATAATTTTTTTCTAAATTTTA
1 ATAATTTTTAT-TAAAATCTA
14447520 AT-ATTTTTATTAAAATCTA
1 ATAATTTTTATTAAAATCTA
14447539 ATAATTTTTAT
1 ATAATTTTTAT
14447550 AACTTTTATT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
19 9 0.35
20 15 0.58
21 2 0.08
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (20 bp):
ATAATTTTTATTAAAATCTA
Found at i:14447904 original size:65 final size:64
Alignment explanation
Indices: 14447779--14447914 Score: 168
Period size: 63 Copynumber: 2.1 Consensus size: 64
14447769 TTTGAAGGCA
* *
14447779 TTTTTAATGTATTTTGAAAGTTTAAATACTCAATTGAGTGCAAAAAAAAACATGGGCTTAATTT
1 TTTTTTATGTATTTTGAAAGTTTAAATACTCAATTGAGTGCAAAAAAAAACATGGACTTAATTT
* * * *
14447843 TTTTTTATGTATTTT-TAGGTTTAAGTACTTAATTGAGTGCAAAAAAAAAAACA-GTGACTTAAT
1 TTTTTTATGTATTTTGAAAGTTTAAATACTCAATTGAGTGC--AAAAAAAAACATG-GACTTAAT
14447906 TT
63 TT
14447908 TATTTTT
1 T-TTTTT
14447915 TTTAAAGTTT
Statistics
Matches: 62, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
63 21 0.34
64 15 0.24
65 21 0.34
66 5 0.08
ACGTcount: A:0.37, C:0.07, G:0.13, T:0.43
Consensus pattern (64 bp):
TTTTTTATGTATTTTGAAAGTTTAAATACTCAATTGAGTGCAAAAAAAAACATGGACTTAATTT
Found at i:14461527 original size:26 final size:24
Alignment explanation
Indices: 14461488--14461557 Score: 70
Period size: 30 Copynumber: 2.7 Consensus size: 24
14461478 ATATCTTTTA
14461488 TTATA-ATCTATAATATAATAATAG
1 TTATATAT-TATAATATAATAATAG
14461512 TTATATATGTATTAATATTTTTAATAATAG
1 TTATATAT-TA-TAATA----TAATAATAG
14461542 TTATATATTATAATAT
1 TTATATATTATAATAT
14461558 TATTTTATGT
Statistics
Matches: 39, Mismatches: 1, Indels: 12
0.75 0.02 0.23
Matches are distributed among these distances:
24 6 0.15
25 4 0.10
26 5 0.13
28 5 0.13
29 2 0.05
30 17 0.44
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.50
Consensus pattern (24 bp):
TTATATATTATAATATAATAATAG
Found at i:14461564 original size:30 final size:29
Alignment explanation
Indices: 14461503--14461558 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 29
14461493 ATCTATAATA
14461503 TAATAATAGTTATATATGTATTAATATTTT
1 TAATAATAGTTATATAT-TATTAATATTTT
14461533 TAATAATAGTTATATATTA-TAATATT
1 TAATAATAGTTATATATTATTAATATT
14461559 ATTTTATGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
28 7 0.27
29 2 0.08
30 17 0.65
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (29 bp):
TAATAATAGTTATATATTATTAATATTTT
Found at i:14462067 original size:26 final size:26
Alignment explanation
Indices: 14462038--14462087 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
14462028 TATTATGTTA
14462038 TAAAAAAT-ATTATATTAATTATATGC
1 TAAAAAATAATTATA-TAATTATATGC
* *
14462064 TAAATAATAATTATATATTTATAT
1 TAAAAAATAATTATATAATTATAT
14462088 TTATATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 15 0.71
27 6 0.29
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (26 bp):
TAAAAAATAATTATATAATTATATGC
Found at i:14463417 original size:16 final size:17
Alignment explanation
Indices: 14463382--14463419 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
14463372 TATGTTTTTT
* *
14463382 AAAATTATTTTTAAATA
1 AAAATTAATCTTAAATA
14463399 AAAATTAATCTTAAA-A
1 AAAATTAATCTTAAATA
14463415 AAAAT
1 AAAAT
14463420 CAAATATGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 6 0.32
17 13 0.68
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.37
Consensus pattern (17 bp):
AAAATTAATCTTAAATA
Found at i:14474551 original size:2 final size:2
Alignment explanation
Indices: 14474544--14474582 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
14474534 ATTTTTATAG
*
14474544 CT CT CT CT CT CC CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
14474583 ACACACACAC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.54, G:0.00, T:0.46
Consensus pattern (2 bp):
CT
Found at i:14475366 original size:29 final size:30
Alignment explanation
Indices: 14475321--14475401 Score: 94
Period size: 29 Copynumber: 2.7 Consensus size: 30
14475311 GAATTGGATC
*
14475321 AAATCAAAATTTAATGTATAAAATTACACA-
1 AAATCATAA-TTAATGTATAAAATTACACAT
* *
14475351 AAATCA-AAGTTCATGTATACAATTACACATT
1 AAATCATAA-TTAATGTATAAAATTACACA-T
14475382 AAATCATAATTAATGTATAA
1 AAATCATAATTAATGTATAA
14475402 TTTTGAGGTT
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
29 20 0.47
30 6 0.14
31 15 0.35
32 2 0.05
ACGTcount: A:0.52, C:0.11, G:0.05, T:0.32
Consensus pattern (30 bp):
AAATCATAATTAATGTATAAAATTACACAT
Found at i:14475602 original size:44 final size:45
Alignment explanation
Indices: 14475551--14475637 Score: 113
Period size: 44 Copynumber: 2.0 Consensus size: 45
14475541 TAACGATTAA
* *
14475551 TTCGGTTCGAACTGGAAGAATTTTTTTTACTT-ATTTTTATTTAG
1 TTCGGTTCCAACTGGAAGAATTTTTTTTACTTAATTTCTATTTAG
* * * *
14475595 TTCGGTTCCAACTGGGATATTTTTTTTTATTTAATTTCTATTT
1 TTCGGTTCCAACTGGAAGAATTTTTTTTACTTAATTTCTATTT
14475638 TTAGTTGATG
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
44 27 0.75
45 9 0.25
ACGTcount: A:0.21, C:0.10, G:0.14, T:0.55
Consensus pattern (45 bp):
TTCGGTTCCAACTGGAAGAATTTTTTTTACTTAATTTCTATTTAG
Found at i:14476289 original size:17 final size:17
Alignment explanation
Indices: 14476267--14476299 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
14476257 TATTTCATAC
14476267 AAATATT-TTTATTAAAA
1 AAATATTATTT-TTAAAA
14476284 AAATATTATTTTTAAA
1 AAATATTATTTTTAAA
14476300 GATTATAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 12 0.80
18 3 0.20
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
AAATATTATTTTTAAAA
Found at i:14479442 original size:17 final size:19
Alignment explanation
Indices: 14479420--14479457 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
14479410 TGTTTGTTAA
14479420 ATAT-AAATAG-AATATTT
1 ATATAAAATAGTAATATTT
*
14479437 ATATAAAATAGTTATATTT
1 ATATAAAATAGTAATATTT
14479456 AT
1 AT
14479458 TCTTAAGTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 4 0.22
18 6 0.33
19 8 0.44
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (19 bp):
ATATAAAATAGTAATATTT
Found at i:14484152 original size:20 final size:19
Alignment explanation
Indices: 14484122--14484161 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
14484112 TTCTAATTAC
14484122 ATAAATAAAAATAATAAAA
1 ATAAATAAAAATAATAAAA
*
14484141 ATAAATTAAAAATTATAAAA
1 ATAAA-TAAAAATAATAAAA
14484161 A
1 A
14484162 AACTAATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (19 bp):
ATAAATAAAAATAATAAAA
Found at i:14487270 original size:19 final size:20
Alignment explanation
Indices: 14487237--14487289 Score: 65
Period size: 19 Copynumber: 2.7 Consensus size: 20
14487227 TCTCTCAACA
*
14487237 AAAAATTACAAAATAATTT-T
1 AAAAATTTCAAAAT-ATTTAT
*
14487257 TAAAATTT-AAAATATTTAT
1 AAAAATTTCAAAATATTTAT
14487276 AAAAATTTCAAAAT
1 AAAAATTTCAAAAT
14487290 TTATACTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
18 4 0.14
19 13 0.46
20 11 0.39
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (20 bp):
AAAAATTTCAAAATATTTAT
Found at i:14487278 original size:18 final size:18
Alignment explanation
Indices: 14487246--14487294 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
14487236 AAAAAATTAC
*
14487246 AAAATAATTTTTAAAATTT
1 AAAAT-ATTTATAAAATTT
14487265 AAAATATTTATAAAAATTT
1 AAAATATTTAT-AAAATTT
*
14487284 CAAA-ATTTATA
1 AAAATATTTATA
14487295 CTTTTTTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 1 0.04
18 11 0.41
19 15 0.56
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (18 bp):
AAAATATTTATAAAATTT
Found at i:14487416 original size:3 final size:3
Alignment explanation
Indices: 14487408--14487447 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
14487398 TAGACTGAAG
14487408 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
14487448 TTGCTTTAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:14487573 original size:21 final size:21
Alignment explanation
Indices: 14487549--14487591 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
14487539 ATATTTAATT
*
14487549 TTTAATTTAACTCTATTCAAA
1 TTTAATTTAACTCGATTCAAA
* *
14487570 TTTAATTTCATTCGATTCAAA
1 TTTAATTTAACTCGATTCAAA
14487591 T
1 T
14487592 CGAAAAAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.35, C:0.14, G:0.02, T:0.49
Consensus pattern (21 bp):
TTTAATTTAACTCGATTCAAA
Found at i:14488488 original size:2 final size:2
Alignment explanation
Indices: 14488483--14488508 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
14488473 AATTTTTTTT
14488483 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
14488509 AATTGGTTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:14490092 original size:15 final size:16
Alignment explanation
Indices: 14490065--14490094 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
14490055 AGTTTCGTAC
14490065 ATAATATTCTTAAAAG
1 ATAATATTCTTAAAAG
14490081 ATAATA-TCTTAAAA
1 ATAATATTCTTAAAA
14490095 TAATATTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.53, C:0.07, G:0.03, T:0.37
Consensus pattern (16 bp):
ATAATATTCTTAAAAG
Found at i:14501686 original size:58 final size:58
Alignment explanation
Indices: 14501525--14501691 Score: 214
Period size: 58 Copynumber: 2.9 Consensus size: 58
14501515 ATATTCTATA
* * *
14501525 TTATGATTTTTACT-AATTCATATTTTAATAATAATTATATTAAAAATATTATTAAATTAT
1 TTATTATTTTTATTAAATT-ATA-TTTAATAATAATTATATT-AAAATATAATTAAATTAT
* * *
14501585 GTATTA-TTTTATTAAATTTTATTTAATAATAATTATGTTAAAATATAATTAAATTAT
1 TTATTATTTTTATTAAATTATATTTAATAATAATTATATTAAAATATAATTAAATTAT
*
14501642 TTATTATTTTTATTAAATTATATTTAATAATAATCT-TATTAAAATTTAAT
1 TTATTATTTTTATTAAATTATATTTAATAATAAT-TATATTAAAATATAAT
14501692 AACAATAATC
Statistics
Matches: 94, Mismatches: 10, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
57 22 0.23
58 55 0.59
59 9 0.10
60 8 0.09
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (58 bp):
TTATTATTTTTATTAAATTATATTTAATAATAATTATATTAAAATATAATTAAATTAT
Found at i:14501873 original size:16 final size:16
Alignment explanation
Indices: 14501854--14501886 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
14501844 CTGATTAAAG
14501854 CTCTATT-TAATTACAA
1 CTCTATTCT-ATTACAA
14501870 CTCTATTCTATTACAA
1 CTCTATTCTATTACAA
14501886 C
1 C
14501887 GAACCAAACG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 15 0.94
17 1 0.06
ACGTcount: A:0.33, C:0.24, G:0.00, T:0.42
Consensus pattern (16 bp):
CTCTATTCTATTACAA
Found at i:14502337 original size:16 final size:16
Alignment explanation
Indices: 14502318--14502395 Score: 68
Period size: 16 Copynumber: 4.6 Consensus size: 16
14502308 TATATATAAC
* *
14502318 ATATTTAACATAAGTA
1 ATATTTAAAATAAATA
14502334 ATATTTAAAATAAATA
1 ATATTTAAAATAAATA
14502350 ATATTTTATAAATAAAATA
1 ATA-TTTA-AAAT-AAATA
*
14502369 A-ATTTTAAATAATATAA
1 ATATTTAAAATAA-AT-A
*
14502386 AAATTTAAAA
1 ATATTTAAAA
14502396 AATATTAAAA
Statistics
Matches: 52, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
15 2 0.04
16 23 0.44
17 9 0.17
18 12 0.23
19 6 0.12
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.38
Consensus pattern (16 bp):
ATATTTAAAATAAATA
Found at i:14502382 original size:19 final size:18
Alignment explanation
Indices: 14502340--14502399 Score: 61
Period size: 18 Copynumber: 3.3 Consensus size: 18
14502330 AGTAATATTT
14502340 AAAAT-AAATAATATTTTA
1 AAAATAAAATAA-ATTTTA
*
14502358 TAAATAAAATAAATTTTA
1 AAAATAAAATAAATTTTA
* *
14502376 AATAATATAA-AAATTTAA
1 AA-AATAAAATAAATTTTA
14502394 AAAATA
1 AAAATA
14502400 TTAAAAAATA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
17 4 0.11
18 20 0.56
19 12 0.33
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (18 bp):
AAAATAAAATAAATTTTA
Found at i:14502394 original size:17 final size:17
Alignment explanation
Indices: 14502358--14502406 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
14502348 TAATATTTTA
* *
14502358 TAAATAAAAT-AAATTT
1 TAAATAATATAAAAATT
14502374 TAAATAATATAAAAATT
1 TAAATAATATAAAAATT
*
14502391 TAAAAAATATTAAAAA
1 TAAATAATA-TAAAAA
14502407 ATAAATTATA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
16 9 0.32
17 13 0.46
18 6 0.21
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
TAAATAATATAAAAATT
Found at i:14502538 original size:51 final size:52
Alignment explanation
Indices: 14502462--14502579 Score: 220
Period size: 51 Copynumber: 2.3 Consensus size: 52
14502452 GCATCAATTA
*
14502462 TTTTTAAACTTTCTCTCTGCCCCGCTCTATTTCTTTTTTATAA-AAAAAGGG
1 TTTTTAAACTTTTTCTCTGCCCCGCTCTATTTCTTTTTTATAAGAAAAAGGG
14502513 TTTTTAAACTTTTTCTCTGCCCCGCTCTATTTCTTTTTTATAAGAAAAAGGG
1 TTTTTAAACTTTTTCTCTGCCCCGCTCTATTTCTTTTTTATAAGAAAAAGGG
14502565 TTTTTAAACTTTTTC
1 TTTTTAAACTTTTTC
14502580 ATTCTTGATT
Statistics
Matches: 65, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
51 42 0.65
52 23 0.35
ACGTcount: A:0.23, C:0.19, G:0.09, T:0.48
Consensus pattern (52 bp):
TTTTTAAACTTTTTCTCTGCCCCGCTCTATTTCTTTTTTATAAGAAAAAGGG
Found at i:14504499 original size:5 final size:5
Alignment explanation
Indices: 14504489--14504537 Score: 73
Period size: 5 Copynumber: 9.8 Consensus size: 5
14504479 GGTCATATTT
*
14504489 TATCA TATCA TAACA TATCA TATCGA -ATCA TATCA TATCA TATCA TATC
1 TATCA TATCA TATCA TATCA TATC-A TATCA TATCA TATCA TATCA TATC
14504538 CCCATTCATT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
4 1 0.03
5 38 0.95
6 1 0.03
ACGTcount: A:0.41, C:0.20, G:0.02, T:0.37
Consensus pattern (5 bp):
TATCA
Found at i:14506124 original size:19 final size:20
Alignment explanation
Indices: 14506089--14506127 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
14506079 AACTGAGATA
14506089 ATTGCTTTAACAGTAATAAC
1 ATTGCTTTAACAGTAATAAC
14506109 ATTGC-TTAACTA-TAATAAC
1 ATTGCTTTAAC-AGTAATAAC
14506128 TGTAATTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.41, C:0.15, G:0.08, T:0.36
Consensus pattern (20 bp):
ATTGCTTTAACAGTAATAAC
Found at i:14513062 original size:23 final size:23
Alignment explanation
Indices: 14513018--14513063 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
14513008 TTAATATTCG
* *
14513018 TGAACATGTTCGATTAAGTTAAA
1 TGAACATGTTCGATGAAATTAAA
14513041 TGAACATGTTCG-TGAATATTAAA
1 TGAACATGTTCGATGAA-ATTAAA
14513064 CAAACAAACA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 3 0.15
23 17 0.85
ACGTcount: A:0.39, C:0.09, G:0.17, T:0.35
Consensus pattern (23 bp):
TGAACATGTTCGATGAAATTAAA
Found at i:14515461 original size:32 final size:32
Alignment explanation
Indices: 14515425--14515485 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 32
14515415 AAATATCTTA
14515425 ATTTGATTTGATTCCAATCAAATTGATTTCTG
1 ATTTGATTTGATTCCAATCAAATTGATTTCTG
* * *
14515457 ATTTGATTTGATTCTATTTAAATTGATTT
1 ATTTGATTTGATTCCAATCAAATTGATTT
14515486 AAAGGCTCAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.28, C:0.08, G:0.11, T:0.52
Consensus pattern (32 bp):
ATTTGATTTGATTCCAATCAAATTGATTTCTG
Found at i:14516280 original size:83 final size:81
Alignment explanation
Indices: 14516140--14516394 Score: 275
Period size: 83 Copynumber: 3.1 Consensus size: 81
14516130 AAAAAATTTA
* * * *
14516140 AAATTAATAAATCTGTTTCGGGATTTATTCTCGTCGTTCAATATATTTTATTCTATTTTTATTTT
1 AAATTAATAAATTTGTTTCGAGATTTATTCT-GTCGTTCAATAGATTTTATTCTATTTTGATTTT
14516205 GTTTCCAAACAAGAATT
65 GTTTCCAAACAAGAATT
* * * *
14516222 AAGTTGAATAAATTTGTTTCGAAATTTATTCCTGCCGTTAAATAGATTTTATTCTATTTTGATTT
1 AAATT-AATAAATTTGTTTCGAGATTTATT-CTGTCGTTCAATAGATTTTATTCTATTTTGATTT
* *
14516287 AGTTT-CAGAAGAAGAATT
64 TGTTTCCA-AACAAGAATT
* * * *
14516305 AAAATT-ATATAATTCTGTTTTGAGATTTATTTCTGTCATTCAACAGATTTGATT-TGATTTTGA
1 -AAATTAATA-AATT-TGTTTCGAGATTTA-TTCTGTCGTTCAATAGATTTTATTCT-ATTTTGA
14516368 TTTTGTTTCCAAACAAGAATT
61 TTTTGTTTCCAAACAAGAATT
14516389 -AATTAA
1 AAATTAA
14516395 GTTCTGTTTC
Statistics
Matches: 143, Mismatches: 20, Indels: 19
0.79 0.11 0.10
Matches are distributed among these distances:
82 13 0.09
83 68 0.48
84 58 0.41
85 4 0.03
ACGTcount: A:0.32, C:0.10, G:0.12, T:0.47
Consensus pattern (81 bp):
AAATTAATAAATTTGTTTCGAGATTTATTCTGTCGTTCAATAGATTTTATTCTATTTTGATTTTG
TTTCCAAACAAGAATT
Found at i:14518241 original size:46 final size:46
Alignment explanation
Indices: 14518174--14518263 Score: 171
Period size: 46 Copynumber: 2.0 Consensus size: 46
14518164 TATTGCTTCA
14518174 TATATTTGCTTAAAAGCAAAAACGAAGCTATAAAGAAATTTATTTG
1 TATATTTGCTTAAAAGCAAAAACGAAGCTATAAAGAAATTTATTTG
*
14518220 TATATTTGCTTAAAAGCAAAAACGAAGCTATAGAGAAATTTATT
1 TATATTTGCTTAAAAGCAAAAACGAAGCTATAAAGAAATTTATT
14518264 CTCTATAAAT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.46, C:0.09, G:0.13, T:0.32
Consensus pattern (46 bp):
TATATTTGCTTAAAAGCAAAAACGAAGCTATAAAGAAATTTATTTG
Found at i:14532056 original size:9 final size:9
Alignment explanation
Indices: 14532031--14532099 Score: 50
Period size: 9 Copynumber: 6.9 Consensus size: 9
14532021 CTTTCTTGTA
14532031 GCCTCTGCTT
1 GCCTC-GCTT
14532041 -CCTTCGCTT
1 GCC-TCGCTT
14532050 GCCTCGCTGCT
1 GCCTCGCT--T
*
14532061 GCGTCCGCTT
1 GCCT-CGCTT
14532071 GCCTCGCTGCT
1 GCCTCGCT--T
14532082 GCCTCCGCTT
1 GCCT-CGCTT
14532092 GCCTCGCT
1 GCCTCGCT
14532100 GCTGCCTCCA
Statistics
Matches: 49, Mismatches: 2, Indels: 17
0.72 0.03 0.25
Matches are distributed among these distances:
9 19 0.39
10 13 0.27
11 9 0.18
12 8 0.16
ACGTcount: A:0.00, C:0.45, G:0.23, T:0.32
Consensus pattern (9 bp):
GCCTCGCTT
Found at i:14532060 original size:21 final size:21
Alignment explanation
Indices: 14532035--14532108 Score: 121
Period size: 21 Copynumber: 3.5 Consensus size: 21
14532025 CTTGTAGCCT
* *
14532035 CTGCTTCCTTCGCTTGCCTCG
1 CTGCTGCCTCCGCTTGCCTCG
*
14532056 CTGCTGCGTCCGCTTGCCTCG
1 CTGCTGCCTCCGCTTGCCTCG
14532077 CTGCTGCCTCCGCTTGCCTCG
1 CTGCTGCCTCCGCTTGCCTCG
14532098 CTGCTGCCTCC
1 CTGCTGCCTCC
14532109 ACTTTAAGTT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 49 1.00
ACGTcount: A:0.00, C:0.46, G:0.23, T:0.31
Consensus pattern (21 bp):
CTGCTGCCTCCGCTTGCCTCG
Found at i:14532086 original size:11 final size:11
Alignment explanation
Indices: 14532049--14532107 Score: 63
Period size: 11 Copynumber: 5.5 Consensus size: 11
14532039 TTCCTTCGCT
14532049 TGCCTCGCTGC
1 TGCCTCGCTGC
*
14532060 TGCGTC-C-GC
1 TGCCTCGCTGC
14532069 TTGCCTCGCTGC
1 -TGCCTCGCTGC
14532081 TGCCTC-C-GC
1 TGCCTCGCTGC
14532090 TTGCCTCGCTGC
1 -TGCCTCGCTGC
14532102 TGCCTC
1 TGCCTC
14532108 CACTTTAAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 12
0.74 0.04 0.22
Matches are distributed among these distances:
9 4 0.10
10 13 0.32
11 19 0.47
12 4 0.10
ACGTcount: A:0.00, C:0.46, G:0.25, T:0.29
Consensus pattern (11 bp):
TGCCTCGCTGC
Done.