Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167882.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_15, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 22478863
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 61000 characters in sequence are not A, C, G, or T
File 74 of 106
Found at i:14062332 original size:23 final size:23
Alignment explanation
Indices: 14062280--14062332 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 23
14062270 TTAATTTTAT
** *
14062280 TTATATTTAATAAAAATTTAATT
1 TTATATTTAATAAAAAAATAATA
*
14062303 TTTTATTTAAATAAAAAAAT-ATA
1 TTATATTT-AATAAAAAAATAATA
14062326 TTATATT
1 TTATATT
14062333 ATGATAATAG
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
23 15 0.62
24 9 0.38
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (23 bp):
TTATATTTAATAAAAAAATAATA
Found at i:14062501 original size:19 final size:20
Alignment explanation
Indices: 14062467--14062508 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
14062457 TTTTAAATTA
* *
14062467 ATTAAAATTAATATATTTTT
1 ATTAAAAATAATATATTTAT
14062487 ATTAAAAAT-ATATATTTAT
1 ATTAAAAATAATATATTTAT
14062506 ATT
1 ATT
14062509 TATAAAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (20 bp):
ATTAAAAATAATATATTTAT
Found at i:14063870 original size:5 final size:5
Alignment explanation
Indices: 14063860--14063889 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
14063850 TAATTTTTAA
14063860 AAATT AAATT AAATT AAATT AAATT AAATT
1 AAATT AAATT AAATT AAATT AAATT AAATT
14063890 TTATTAATTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
AAATT
Found at i:14063968 original size:28 final size:28
Alignment explanation
Indices: 14063928--14064002 Score: 89
Period size: 29 Copynumber: 2.7 Consensus size: 28
14063918 TTAAATTTAA
*
14063928 ATTTAAATTTAAAATATTATTTTAATAT
1 ATTTAAATATAAAATATTATTTTAATAT
* *
14063956 ATTTAAATATAAAATAATTATTTTATTTT
1 ATTTAAATATAAAAT-ATTATTTTAATAT
**
14063985 ATAAAAATATAAAA-ATTA
1 ATTTAAATATAAAATATTA
14064003 ATAAAATATA
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
27 4 0.10
28 14 0.34
29 23 0.56
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (28 bp):
ATTTAAATATAAAATATTATTTTAATAT
Found at i:14064107 original size:22 final size:22
Alignment explanation
Indices: 14064081--14064124 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
14064071 CTAAATTTAA
14064081 TTTAAATCAAATAAAAAATTAT
1 TTTAAATCAAATAAAAAATTAT
* * *
14064103 TTTAAATTAAATCAAATATTAT
1 TTTAAATCAAATAAAAAATTAT
14064125 AATTATAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.41
Consensus pattern (22 bp):
TTTAAATCAAATAAAAAATTAT
Found at i:14064107 original size:40 final size:38
Alignment explanation
Indices: 14064033--14064114 Score: 87
Period size: 40 Copynumber: 2.1 Consensus size: 38
14064023 CAATTTTTTA
* * *
14064033 AAATTTAATTTTATCAAAATATAATATATATTTAATATCT
1 AAATTTAATTTAATCAAAAAAAAATATATATTTAA-AT-T
14064073 AAATTTAATTTAAATCAAATAAAAAAT-TAT-TTTAAATT
1 AAATTTAATTT-AATCAAA-AAAAAATATATATTTAAATT
14064111 AAAT
1 AAAT
14064115 CAAATATTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
38 5 0.14
39 2 0.05
40 16 0.43
41 9 0.24
42 5 0.14
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (38 bp):
AAATTTAATTTAATCAAAAAAAAATATATATTTAAATT
Found at i:14065096 original size:11 final size:11
Alignment explanation
Indices: 14065064--14065105 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
14065054 AAATATATTT
*
14065064 AATAATTAA-A
1 AATAAATAATA
14065074 AATAAAATAATA
1 AAT-AAATAATA
*
14065086 AATATATAATA
1 AATAAATAATA
14065097 AATAAATAA
1 AATAAATAA
14065106 ATAATCAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
10 3 0.11
11 20 0.74
12 4 0.15
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (11 bp):
AATAAATAATA
Found at i:14065938 original size:18 final size:16
Alignment explanation
Indices: 14065917--14065961 Score: 56
Period size: 18 Copynumber: 2.7 Consensus size: 16
14065907 ATAATAAAGT
14065917 TAAAAAACTAAATATAAA
1 TAAAAAA-TAAATA-AAA
14065935 TAAATAAATAAATAAAA
1 TAAA-AAATAAATAAAA
14065952 T-AAAAATAAA
1 TAAAAAATAAA
14065962 AGAAAGATGA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
15 7 0.27
16 2 0.08
17 4 0.15
18 10 0.38
19 3 0.12
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (16 bp):
TAAAAAATAAATAAAA
Found at i:14065955 original size:27 final size:26
Alignment explanation
Indices: 14065902--14065961 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 26
14065892 ATATTTATCT
*
14065902 AATAAATAATAAAGTTAAAAAACTAAA
1 AATAAATAATAAAG-TAAAAAAATAAA
*
14065929 TATAAATAAATAAA-TAAATAAAATAAA
1 AATAAAT-AATAAAGTAAA-AAAATAAA
14065956 AATAAA
1 AATAAA
14065962 AGAAAGATGA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
26 4 0.14
27 18 0.64
28 6 0.21
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.23
Consensus pattern (26 bp):
AATAAATAATAAAGTAAAAAAATAAA
Found at i:14067967 original size:11 final size:11
Alignment explanation
Indices: 14067933--14067986 Score: 51
Period size: 11 Copynumber: 5.1 Consensus size: 11
14067923 AAAATATATT
*
14067933 TAATAATTAAA
1 TAATAAATAAA
14067944 -AAT-AA-AAA
1 TAATAAATAAA
*
14067952 TAATAAATATA
1 TAATAAATAAA
14067963 TAATAAATAAA
1 TAATAAATAAA
*
14067974 TAAATAATTAAA
1 T-AATAAATAAA
14067986 T
1 T
14067987 TTTTTATATA
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
8 3 0.09
9 4 0.11
10 5 0.14
11 13 0.37
12 10 0.29
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (11 bp):
TAATAAATAAA
Found at i:14067971 original size:15 final size:16
Alignment explanation
Indices: 14067934--14067986 Score: 55
Period size: 15 Copynumber: 3.7 Consensus size: 16
14067924 AAATATATTT
14067934 AATAATT-AA-AAATA
1 AATAATTAAATAAATA
14067948 AA-AA-T-AATAAATA
1 AATAATTAAATAAATA
*
14067961 TATAA-TAAATAAATA
1 AATAATTAAATAAATA
14067976 AATAATTAAAT
1 AATAATTAAAT
14067987 TTTTTATATA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
12 3 0.09
13 8 0.24
14 5 0.15
15 12 0.36
16 5 0.15
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
AATAATTAAATAAATA
Found at i:14068808 original size:14 final size:14
Alignment explanation
Indices: 14068766--14068816 Score: 52
Period size: 14 Copynumber: 3.6 Consensus size: 14
14068756 TATTTATCTA
14068766 ATAAAT-AATAAAGT
1 ATAAATAAATAAA-T
*
14068780 -TAAAAAAACTAAAT
1 ATAAATAAA-TAAAT
14068794 ATAAATAAATAAAT
1 ATAAATAAATAAAT
*
14068808 AAAAATAAA
1 ATAAATAAA
14068817 AATAAAAGAA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
13 4 0.13
14 16 0.52
15 11 0.35
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.24
Consensus pattern (14 bp):
ATAAATAAATAAAT
Found at i:14070956 original size:25 final size:26
Alignment explanation
Indices: 14070923--14070996 Score: 82
Period size: 26 Copynumber: 2.9 Consensus size: 26
14070913 ATAACTATCC
14070923 AATGATGAAATTTTTAAAAATTT-TA
1 AATGATGAAATTTTTAAAAATTTCTA
*
14070948 AATGGTG-AATTTTTATAAAATTTCTA
1 AATGATGAAATTTTTA-AAAATTTCTA
* *
14070974 AGTGAT-AAATTTTTTATAAATTT
1 AATGATGAAA-TTTTTAAAAATTT
14070997 ATCCCAAAAG
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
24 8 0.20
25 13 0.32
26 14 0.34
27 6 0.15
ACGTcount: A:0.42, C:0.01, G:0.09, T:0.47
Consensus pattern (26 bp):
AATGATGAAATTTTTAAAAATTTCTA
Found at i:14070984 original size:26 final size:25
Alignment explanation
Indices: 14070923--14070993 Score: 81
Period size: 25 Copynumber: 2.8 Consensus size: 25
14070913 ATAACTATCC
14070923 AATGATGAAATTTTTA-AAAATTTTA
1 AATGAT-AAATTTTTATAAAATTTTA
* *
14070948 AATGGTGAATTTTTATAAAATTTCTA
1 AATGATAAATTTTTATAAAATTT-TA
*
14070974 AGTGATAAATTTTTTATAAA
1 AATGATAAA-TTTTTATAAA
14070994 TTTATCCCAA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
24 8 0.21
25 12 0.32
26 8 0.21
27 10 0.26
ACGTcount: A:0.44, C:0.01, G:0.10, T:0.45
Consensus pattern (25 bp):
AATGATAAATTTTTATAAAATTTTA
Found at i:14071409 original size:47 final size:49
Alignment explanation
Indices: 14071305--14071409 Score: 128
Period size: 48 Copynumber: 2.2 Consensus size: 49
14071295 TTTCAAAGAT
14071305 AAAAT-AAAATTTCTAAATAAACCCAAATGATGAAAAATTTAGAAATCA
1 AAAATAAAAATTTCTAAATAAACCCAAATGATGAAAAATTTAGAAATCA
* ** * *
14071353 AAAAGAAAAATTT-TAAATTGACCCAAATGGTG-AAAATTTTGAAAAT-A
1 AAAATAAAAATTTCTAAATAAACCCAAATGATGAAAAATTTAG-AAATCA
14071400 AAAATAAAAA
1 AAAATAAAAA
14071410 ATAAAAATAA
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
47 18 0.37
48 24 0.49
49 7 0.14
ACGTcount: A:0.59, C:0.08, G:0.09, T:0.25
Consensus pattern (49 bp):
AAAATAAAAATTTCTAAATAAACCCAAATGATGAAAAATTTAGAAATCA
Found at i:14071412 original size:13 final size:13
Alignment explanation
Indices: 14071394--14071420 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
14071384 GAAAATTTTG
14071394 AAAATAAAAATAA
1 AAAATAAAAATAA
14071407 AAAATAAAAATAA
1 AAAATAAAAATAA
14071420 A
1 A
14071421 TTTCGATGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (13 bp):
AAAATAAAAATAA
Found at i:14072458 original size:33 final size:33
Alignment explanation
Indices: 14072414--14072485 Score: 101
Period size: 33 Copynumber: 2.2 Consensus size: 33
14072404 AGATAGAGAA
* *
14072414 GATTAAGAGGGTTTATGA-GTATTGATTATGAGT
1 GATTAAGAGGGTCTA-CATGTATTGATTATGAGT
*
14072447 GGTTAAGAGGGTCTACATGTATTGATTATGAGT
1 GATTAAGAGGGTCTACATGTATTGATTATGAGT
14072480 GATTAA
1 GATTAA
14072486 TTTGATTATA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
32 1 0.03
33 33 0.97
ACGTcount: A:0.31, C:0.03, G:0.29, T:0.38
Consensus pattern (33 bp):
GATTAAGAGGGTCTACATGTATTGATTATGAGT
Found at i:14072699 original size:31 final size:29
Alignment explanation
Indices: 14072664--14072722 Score: 82
Period size: 31 Copynumber: 2.0 Consensus size: 29
14072654 CCTAAATAGT
14072664 AGTATCAAAACTATCGTGATCTCCTAACAAC
1 AGTATCAAAACTATCGTGATC-CC-AACAAC
* *
14072695 AGTATTAAAGCTATCGTGATCCCAACAA
1 AGTATCAAAACTATCGTGATCCCAACAA
14072723 TGTGGTGAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 5 0.19
30 2 0.08
31 19 0.73
ACGTcount: A:0.39, C:0.24, G:0.12, T:0.25
Consensus pattern (29 bp):
AGTATCAAAACTATCGTGATCCCAACAAC
Found at i:14075318 original size:16 final size:16
Alignment explanation
Indices: 14075259--14075308 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
14075249 TACGATAAAA
14075259 TATATTAA-TTAATTAT
1 TATATTAATTTAATT-T
* *
14075275 TATTTTACTCTTAATTT
1 TATATTAAT-TTAATTT
14075292 TATATTAATTTAATTT
1 TATATTAATTTAATTT
14075308 T
1 T
14075309 TAATTTATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
16 14 0.50
17 8 0.29
18 6 0.21
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (16 bp):
TATATTAATTTAATTT
Found at i:14075419 original size:81 final size:81
Alignment explanation
Indices: 14075286--14075449 Score: 269
Period size: 81 Copynumber: 2.0 Consensus size: 81
14075276 ATTTTACTCT
*
14075286 TAATTTTATATTAATTTAATTTTTAATTTATTTTTAAATAATTTAACTTATTTTATTGTTAAAAC
1 TAATTTTATATTAATTTAATTTTTAATTTATTTTGAAATAATTTAACTTATTTTATTGTTAAAAC
14075351 TTG-AAAA-TATAAAA
66 TTGAAAAATTATAAAA
* *
14075365 TAATTTTGTATTAATTTAGCTTTTTAATTTATTTTGACAATAATTTAACTTATTTTATTGTTAAA
1 TAATTTTATATTAATTTA-ATTTTTAATTTATTTTGA-AATAATTTAACTTATTTTATTGTTAAA
14075430 ACTTGAAAAATTATAAAA
64 ACTTGAAAAATTATAAAA
14075448 TA
1 TA
14075450 TTTATAAACT
Statistics
Matches: 78, Mismatches: 3, Indels: 4
0.92 0.04 0.05
Matches are distributed among these distances:
79 17 0.22
80 16 0.21
81 32 0.41
82 4 0.05
83 9 0.12
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.52
Consensus pattern (81 bp):
TAATTTTATATTAATTTAATTTTTAATTTATTTTGAAATAATTTAACTTATTTTATTGTTAAAAC
TTGAAAAATTATAAAA
Found at i:14076182 original size:16 final size:18
Alignment explanation
Indices: 14076161--14076201 Score: 50
Period size: 16 Copynumber: 2.4 Consensus size: 18
14076151 TTTAAATAGT
14076161 AATATTAAATT-AA-ATA
1 AATATTAAATTGAATATA
* *
14076177 AATATTTAATTGAATTTA
1 AATATTAAATTGAATATA
14076195 AATATTA
1 AATATTA
14076202 TAAATATTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
16 10 0.50
17 2 0.10
18 8 0.40
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (18 bp):
AATATTAAATTGAATATA
Found at i:14076218 original size:26 final size:27
Alignment explanation
Indices: 14076174--14076236 Score: 71
Period size: 26 Copynumber: 2.5 Consensus size: 27
14076164 ATTAAATTAA
* *
14076174 ATAAATATTTAATTGAATTTAAATATT
1 ATAAATATTTAAATAAATTTAAATATT
*
14076201 ATAAATA-TTAAATAAATTT--AGA-T
1 ATAAATATTTAAATAAATTTAAATATT
14076224 ATAAATATTTAAA
1 ATAAATATTTAAA
14076237 AATAATTAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
23 8 0.25
24 7 0.22
26 10 0.31
27 7 0.22
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (27 bp):
ATAAATATTTAAATAAATTTAAATATT
Found at i:14076248 original size:23 final size:23
Alignment explanation
Indices: 14076200--14076248 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 23
14076190 ATTTAAATAT
*
14076200 TATAAATATTAAATAAATTTAGA
1 TATAAATATTAAATAAAATTAGA
14076223 TATAAATATTTAAA-AATAATTA-A
1 TATAAATA-TTAAATAA-AATTAGA
14076246 TAT
1 TAT
14076249 TCACTCCGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
23 14 0.61
24 9 0.39
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (23 bp):
TATAAATATTAAATAAAATTAGA
Found at i:14083807 original size:12 final size:13
Alignment explanation
Indices: 14083780--14083812 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
14083770 CTTAATATAC
14083780 TTTTGTAACACTT
1 TTTTGTAACACTT
14083793 TTTTGTAACACTT
1 TTTTGTAACACTT
14083806 TTTTGTA
1 TTTTGTA
14083813 GGTTTTGCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.21, C:0.12, G:0.09, T:0.58
Consensus pattern (13 bp):
TTTTGTAACACTT
Found at i:14086021 original size:23 final size:23
Alignment explanation
Indices: 14085995--14086070 Score: 73
Period size: 23 Copynumber: 3.0 Consensus size: 23
14085985 ATTGATATAT
14085995 TTATATTATATAAAATATTAAAA
1 TTATATTATATAAAATATTAAAA
14086018 TTATATTATTTATAAAATTATATATCAAA
1 TTATATTA--TATAAAA-TAT-TA--AAA
*
14086047 TTTATATCATATAAAATA-TAAAA
1 -TTATATTATATAAAATATTAAAA
14086070 T
1 T
14086071 ATAATTTTTT
Statistics
Matches: 45, Mismatches: 1, Indels: 15
0.74 0.02 0.25
Matches are distributed among these distances:
22 1 0.02
23 11 0.24
25 9 0.20
26 3 0.07
27 4 0.09
28 7 0.16
29 3 0.07
30 7 0.16
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (23 bp):
TTATATTATATAAAATATTAAAA
Found at i:14090124 original size:16 final size:16
Alignment explanation
Indices: 14090097--14090135 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
14090087 TATATAAAAT
14090097 ATTTAA-TTTTATCTA
1 ATTTAATTTTTATCTA
* *
14090112 TTTTAATTTTTATTTA
1 ATTTAATTTTTATCTA
14090128 ATTTAATT
1 ATTTAATT
14090136 AATTATTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 5 0.25
16 15 0.75
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (16 bp):
ATTTAATTTTTATCTA
Found at i:14105483 original size:18 final size:19
Alignment explanation
Indices: 14105424--14105483 Score: 53
Period size: 18 Copynumber: 3.5 Consensus size: 19
14105414 TTAAAAATTT
14105424 TTAATATAATATTTA--AA
1 TTAATATAATATTTATTAA
14105441 -T--TATAA-ATTTATTAA
1 TTAATATAATATTTATTAA
* *
14105456 TTAATGTAATATTTATT-T
1 TTAATATAATATTTATTAA
14105474 TTAATATAAT
1 TTAATATAAT
14105484 TAATTTTAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 11
0.71 0.06 0.23
Matches are distributed among these distances:
13 5 0.15
14 5 0.15
15 2 0.06
16 2 0.06
18 13 0.38
19 7 0.21
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (19 bp):
TTAATATAATATTTATTAA
Found at i:14105487 original size:22 final size:22
Alignment explanation
Indices: 14105447--14105491 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 22
14105437 TAAATTATAA
14105447 ATTTATTAATTAATGTAATATTT
1 ATTTATTAATTAATGTAAT-TTT
14105470 ATTT-TTAATATAAT-TAATTTT
1 ATTTATTAAT-TAATGTAATTTT
14105491 A
1 A
14105492 AATAATGATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
21 4 0.19
22 9 0.43
23 8 0.38
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (22 bp):
ATTTATTAATTAATGTAATTTT
Found at i:14107771 original size:18 final size:18
Alignment explanation
Indices: 14107744--14107783 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
14107734 TTTTTATAAT
*
14107744 TTAAAATTTTAATTTATA
1 TTAAAATTTTAATTTAAA
* *
14107762 TTAAATTTTTTATTTAAA
1 TTAAAATTTTAATTTAAA
14107780 TTAA
1 TTAA
14107784 GATAAAATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
TTAAAATTTTAATTTAAA
Found at i:14108404 original size:10 final size:11
Alignment explanation
Indices: 14108378--14108403 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
14108368 TGATATAATT
14108378 AAAAATTTTAA
1 AAAAATTTTAA
14108389 AAAAATTTTAA
1 AAAAATTTTAA
14108400 AAAA
1 AAAA
14108404 TGAAACATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (11 bp):
AAAAATTTTAA
Found at i:14123393 original size:50 final size:50
Alignment explanation
Indices: 14123338--14123447 Score: 184
Period size: 50 Copynumber: 2.2 Consensus size: 50
14123328 CAAGTTATGT
14123338 AACTATAAAAATATTGGACAATGTTTTCAATTGAATGTAAAAATAACTTA
1 AACTATAAAAATATTGGACAATGTTTTCAATTGAATGTAAAAATAACTTA
* * *
14123388 AACTATAAAAATATTGGATAATGTTTTCAATTGAATGTATAAATAATTTA
1 AACTATAAAAATATTGGACAATGTTTTCAATTGAATGTAAAAATAACTTA
*
14123438 AAATATAAAA
1 AACTATAAAA
14123448 TTAAGTAAAA
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
50 56 1.00
ACGTcount: A:0.50, C:0.05, G:0.09, T:0.35
Consensus pattern (50 bp):
AACTATAAAAATATTGGACAATGTTTTCAATTGAATGTAAAAATAACTTA
Found at i:14124163 original size:21 final size:21
Alignment explanation
Indices: 14124125--14124166 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
14124115 GTGATAAAAT
*
14124125 TTTTTAATTTTTAATTTATTA
1 TTTTTAATTTTGAATTTATTA
**
14124146 TTTTTAATTTTGGTTTTATTA
1 TTTTTAATTTTGAATTTATTA
14124167 ATCAATTTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.24, C:0.00, G:0.05, T:0.71
Consensus pattern (21 bp):
TTTTTAATTTTGAATTTATTA
Found at i:14124198 original size:22 final size:23
Alignment explanation
Indices: 14124170--14124212 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
14124160 TTTATTAATC
14124170 AATTTTA-ATAAAAAATTTCACG
1 AATTTTATATAAAAAATTTCACG
* *
14124192 AATTTTATCTAATAAATTTCA
1 AATTTTATATAAAAAATTTCA
14124213 TATATCTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.47, C:0.09, G:0.02, T:0.42
Consensus pattern (23 bp):
AATTTTATATAAAAAATTTCACG
Found at i:14125254 original size:26 final size:26
Alignment explanation
Indices: 14125213--14125279 Score: 73
Period size: 26 Copynumber: 2.5 Consensus size: 26
14125203 TATTAATTAA
*
14125213 ATTTAAATATTAATTTTAATAAAATTT
1 ATTT-AATATTTATTTTAATAAAATTT
* *
14125240 ATTTAATATTTA-TTTAATTACATTT
1 ATTTAATATTTATTTTAATAAAATTT
*
14125265 ATTATAATTTTTATT
1 ATT-TAATATTTATT
14125280 ATTACTTTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
25 14 0.41
26 15 0.44
27 5 0.15
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.58
Consensus pattern (26 bp):
ATTTAATATTTATTTTAATAAAATTT
Found at i:14126617 original size:10 final size:11
Alignment explanation
Indices: 14126574--14126617 Score: 63
Period size: 11 Copynumber: 4.1 Consensus size: 11
14126564 CATGTGAGTG
14126574 AGAGAAAAGAA
1 AGAGAAAAGAA
*
14126585 AGATAAAAGAA
1 AGAGAAAAGAA
14126596 AGAGAAAAGAA
1 AGAGAAAAGAA
*
14126607 A-AGAAATGAA
1 AGAGAAAAGAA
14126617 A
1 A
14126618 TAAGAGAAGA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
10 9 0.30
11 21 0.70
ACGTcount: A:0.73, C:0.00, G:0.23, T:0.05
Consensus pattern (11 bp):
AGAGAAAAGAA
Found at i:14126644 original size:19 final size:19
Alignment explanation
Indices: 14126600--14126647 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
14126590 AAAGAAAGAG
*
14126600 AAAAGAAAAGAAATGAAAT
1 AAAAGAAGAGAAATGAAAT
* *
14126619 AAGAGAAGAG-AATGAGAT
1 AAAAGAAGAGAAATGAAAT
14126637 AAAAAGAAGAG
1 -AAAAGAAGAG
14126648 GGAAGACTGA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
18 7 0.29
19 17 0.71
ACGTcount: A:0.67, C:0.00, G:0.25, T:0.08
Consensus pattern (19 bp):
AAAAGAAGAGAAATGAAAT
Found at i:14127451 original size:11 final size:11
Alignment explanation
Indices: 14127426--14127463 Score: 58
Period size: 11 Copynumber: 3.4 Consensus size: 11
14127416 TAGATTTAAT
*
14127426 ATTTGAAATTCA
1 ATTTG-AATTTA
14127438 ATTTGAATTTA
1 ATTTGAATTTA
14127449 ATTTGAATTTA
1 ATTTGAATTTA
14127460 ATTT
1 ATTT
14127464 TTAAGGTTGG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
11 20 0.80
12 5 0.20
ACGTcount: A:0.37, C:0.03, G:0.08, T:0.53
Consensus pattern (11 bp):
ATTTGAATTTA
Found at i:14127639 original size:20 final size:20
Alignment explanation
Indices: 14127607--14127648 Score: 52
Period size: 18 Copynumber: 2.2 Consensus size: 20
14127597 TATATATAAA
*
14127607 TAAAATAATAAAATTTATAT
1 TAAAATAATAAAAATTATAT
*
14127627 TAAAAT-ATAAAAAAT-TAT
1 TAAAATAATAAAAATTATAT
14127645 TAAA
1 TAAA
14127649 TTCACAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 7 0.35
19 7 0.35
20 6 0.30
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (20 bp):
TAAAATAATAAAAATTATAT
Found at i:14127682 original size:21 final size:22
Alignment explanation
Indices: 14127643--14127688 Score: 69
Period size: 21 Copynumber: 2.1 Consensus size: 22
14127633 ATAAAAAATT
14127643 ATTAAATTCACAAATTATTTAA
1 ATTAAATTCACAAATTATTTAA
14127665 ATTAAATATCA-AAA-TATTTAA
1 ATTAAAT-TCACAAATTATTTAA
14127686 ATT
1 ATT
14127689 TTACTCGATC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 10 0.43
22 10 0.43
23 3 0.13
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (22 bp):
ATTAAATTCACAAATTATTTAA
Found at i:14128060 original size:17 final size:17
Alignment explanation
Indices: 14128038--14128078 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
14128028 TTTAATTGAT
*
14128038 AATATTTTA-TAAATAA
1 AATATTTAATTAAATAA
14128054 AA-ATATTAATTAAATAA
1 AATAT-TTAATTAAATAA
14128071 AATATTTA
1 AATATTTA
14128079 TTTTTTTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 5
0.78 0.04 0.19
Matches are distributed among these distances:
15 2 0.10
16 5 0.24
17 12 0.57
18 2 0.10
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
AATATTTAATTAAATAA
Found at i:14131286 original size:28 final size:28
Alignment explanation
Indices: 14131253--14131336 Score: 168
Period size: 28 Copynumber: 3.0 Consensus size: 28
14131243 AGAGATGAGA
14131253 TTTTCAAATATTGTTTAACAAATTGTAG
1 TTTTCAAATATTGTTTAACAAATTGTAG
14131281 TTTTCAAATATTGTTTAACAAATTGTAG
1 TTTTCAAATATTGTTTAACAAATTGTAG
14131309 TTTTCAAATATTGTTTAACAAATTGTAG
1 TTTTCAAATATTGTTTAACAAATTGTAG
14131337 ACTTATGGTT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 56 1.00
ACGTcount: A:0.36, C:0.07, G:0.11, T:0.46
Consensus pattern (28 bp):
TTTTCAAATATTGTTTAACAAATTGTAG
Found at i:14131330 original size:14 final size:14
Alignment explanation
Indices: 14131257--14131331 Score: 68
Period size: 14 Copynumber: 5.4 Consensus size: 14
14131247 ATGAGATTTT
14131257 CAAATATTGTTTAA
1 CAAATATTGTTTAA
*
14131271 CAAAT-TGTAGTTT-T
1 CAAATAT-T-GTTTAA
14131285 CAAATATTGTTTAA
1 CAAATATTGTTTAA
*
14131299 CAAAT-TGTAGTTT-T
1 CAAATAT-T-GTTTAA
14131313 CAAATATTGTTTAA
1 CAAATATTGTTTAA
14131327 CAAAT
1 CAAAT
14131332 TGTAGACTTA
Statistics
Matches: 49, Mismatches: 4, Indels: 16
0.71 0.06 0.23
Matches are distributed among these distances:
13 10 0.20
14 29 0.59
15 10 0.20
ACGTcount: A:0.39, C:0.08, G:0.09, T:0.44
Consensus pattern (14 bp):
CAAATATTGTTTAA
Found at i:14139100 original size:27 final size:23
Alignment explanation
Indices: 14139048--14139107 Score: 66
Period size: 27 Copynumber: 2.4 Consensus size: 23
14139038 TTGGTTAGAT
14139048 TCAGTATTCATCATAAAAATATAA
1 TCAG-ATTCATCATAAAAATATAA
14139072 TCAGATTCATCATCAGAAGAACTATAA
1 TCAGATTCATCAT-A-AA-AA-TATAA
*
14139099 TCAGTTTCA
1 TCAGATTCA
14139108 GAAAGAACTT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
23 9 0.29
24 5 0.16
25 2 0.06
26 2 0.06
27 13 0.42
ACGTcount: A:0.43, C:0.17, G:0.08, T:0.32
Consensus pattern (23 bp):
TCAGATTCATCATAAAAATATAA
Found at i:14141291 original size:21 final size:20
Alignment explanation
Indices: 14141243--14141291 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
14141233 TGCACCAACA
*
14141243 TATAAAAATATTATTTATTT
1 TATAAAAATATTATTGATTT
*
14141263 TAATAAAATATATTA-AGATTT
1 T-ATAAAA-ATATTATTGATTT
14141284 TATAAAAA
1 TATAAAAA
14141292 AAAAAAATCT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
19 1 0.04
20 7 0.28
21 11 0.44
22 6 0.24
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (20 bp):
TATAAAAATATTATTGATTT
Found at i:14145545 original size:20 final size:20
Alignment explanation
Indices: 14145503--14145546 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
14145493 TGCCAACTGA
* *
14145503 TTTTTTCTTTTATTTTTTTG
1 TTTTTTCTTTTACTTTTTGG
14145523 TTTTTTCATTTT-CTTTTTGG
1 TTTTTTC-TTTTACTTTTTGG
14145543 TTTT
1 TTTT
14145547 AATTTTTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 17 0.81
21 4 0.19
ACGTcount: A:0.05, C:0.07, G:0.07, T:0.82
Consensus pattern (20 bp):
TTTTTTCTTTTACTTTTTGG
Found at i:14146332 original size:14 final size:15
Alignment explanation
Indices: 14146315--14146343 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
14146305 AATTTTAATC
14146315 TATAATAAA-ATAAA
1 TATAATAAATATAAA
14146329 TATAATAAATATAAA
1 TATAATAAATATAAA
14146344 ATTTATAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
TATAATAAATATAAA
Found at i:14146839 original size:24 final size:24
Alignment explanation
Indices: 14146798--14146863 Score: 91
Period size: 22 Copynumber: 2.8 Consensus size: 24
14146788 CCTGGGTATA
14146798 TATATTATTTTTATTATTTATTTAAT
1 TATA-TATTTTTA-TATTTATTTAAT
14146824 TATATATTTTTATATTTATTTAAT
1 TATATATTTTTATATTTATTTAAT
*
14146848 T-T-TATATTTATATTTA
1 TATATATTTTTATATTTA
14146864 AAAATAATAT
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
22 13 0.33
23 1 0.03
24 13 0.33
25 8 0.21
26 4 0.10
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (24 bp):
TATATATTTTTATATTTATTTAAT
Found at i:14146842 original size:16 final size:16
Alignment explanation
Indices: 14146802--14146860 Score: 59
Period size: 16 Copynumber: 3.8 Consensus size: 16
14146792 GGTATATATA
*
14146802 TTATTTTTAT-TATTT
1 TTATATTTATATATTT
*
14146817 ATT-TAATTATATATTT
1 -TTATATTTATATATTT
* *
14146833 TTATATTTATTTAATT
1 TTATATTTATATATTT
14146849 TTATATTTATAT
1 TTATATTTATAT
14146861 TTAAAAATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
15 7 0.20
16 28 0.80
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (16 bp):
TTATATTTATATATTT
Found at i:14151688 original size:16 final size:16
Alignment explanation
Indices: 14151667--14151698 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
14151657 AGCATATACA
14151667 ATAAACATCAAACTTG
1 ATAAACATCAAACTTG
14151683 ATAAACATCAAACTTG
1 ATAAACATCAAACTTG
14151699 TTCTCGGAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.19, G:0.06, T:0.25
Consensus pattern (16 bp):
ATAAACATCAAACTTG
Found at i:14157466 original size:23 final size:24
Alignment explanation
Indices: 14157426--14157473 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
14157416 ATAAGAAAGA
** *
14157426 TTAATTTTTTTAGTATAAAATAAT
1 TTAATTTTTTTAAAATAAAAAAAT
14157450 TTAA-TTTTTTAAAATAAAAAAAT
1 TTAATTTTTTTAAAATAAAAAAAT
14157473 T
1 T
14157474 ATTTTTAATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 17 0.81
24 4 0.19
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (24 bp):
TTAATTTTTTTAAAATAAAAAAAT
Found at i:14158534 original size:6 final size:6
Alignment explanation
Indices: 14158510--14158549 Score: 50
Period size: 6 Copynumber: 7.2 Consensus size: 6
14158500 ATTAAACTCG
*
14158510 TAAATT T-AATT T-GATT TAAATT TAAA-T TAAATT TAAATT T
1 TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT T
14158550 TCATAATATT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
5 14 0.47
6 16 0.53
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (6 bp):
TAAATT
Found at i:14158539 original size:11 final size:11
Alignment explanation
Indices: 14158492--14158548 Score: 53
Period size: 11 Copynumber: 5.1 Consensus size: 11
14158482 TAAAAATTGA
14158492 TAAA-TTAAAT
1 TAAATTTAAAT
*
14158502 TAAACTCGTAAAT
1 TAAA-T-TTAAAT
* * *
14158515 TTAATTTGATT
1 TAAATTTAAAT
14158526 TAAATTTAAAT
1 TAAATTTAAAT
14158537 TAAATTTAAAT
1 TAAATTTAAAT
14158548 T
1 T
14158549 TTCATAATAT
Statistics
Matches: 36, Mismatches: 8, Indels: 5
0.73 0.16 0.10
Matches are distributed among these distances:
10 4 0.11
11 23 0.64
12 1 0.03
13 8 0.22
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.46
Consensus pattern (11 bp):
TAAATTTAAAT
Found at i:14159078 original size:6 final size:6
Alignment explanation
Indices: 14159069--14159107 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
14159059 GCTTGGACAT
* *
14159069 GGATAA GGATAA GGATAA GGATAA GGAAAA GGAAAA GGA
1 GGATAA GGATAA GGATAA GGATAA GGATAA GGATAA GGA
14159108 AAAGCATCAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.54, C:0.00, G:0.36, T:0.10
Consensus pattern (6 bp):
GGATAA
Found at i:14159108 original size:6 final size:6
Alignment explanation
Indices: 14159073--14159111 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
14159063 GGACATGGAT
* * *
14159073 AAGGAT AAGGAT AAGGAT AAGGAA AAGGAA AAGGAA AAG
1 AAGGAA AAGGAA AAGGAA AAGGAA AAGGAA AAGGAA AAG
14159112 CATCATCTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.59, C:0.00, G:0.33, T:0.08
Consensus pattern (6 bp):
AAGGAA
Found at i:14159108 original size:12 final size:12
Alignment explanation
Indices: 14159073--14159111 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
14159063 GGACATGGAT
*
14159073 AAGGATAAGGAT
1 AAGGATAAGGAA
14159085 AAGGATAAGGAA
1 AAGGATAAGGAA
*
14159097 AAGGAAAAGGAA
1 AAGGATAAGGAA
14159109 AAG
1 AAG
14159112 CATCATCTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.59, C:0.00, G:0.33, T:0.08
Consensus pattern (12 bp):
AAGGATAAGGAA
Found at i:14168859 original size:23 final size:25
Alignment explanation
Indices: 14168805--14168861 Score: 73
Period size: 25 Copynumber: 2.4 Consensus size: 25
14168795 AAAGGTTCAA
* * *
14168805 CAATGAAGGCCTAAACAGGATTCGG
1 CAATGAAGGCCTAAACAGAAGTCAG
14168830 CAATGAAGGCCTAAA-A-AAGTCAG
1 CAATGAAGGCCTAAACAGAAGTCAG
14168853 CAATGAAGG
1 CAATGAAGG
14168862 TTGAAAATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 13 0.45
24 1 0.03
25 15 0.52
ACGTcount: A:0.42, C:0.18, G:0.26, T:0.14
Consensus pattern (25 bp):
CAATGAAGGCCTAAACAGAAGTCAG
Found at i:14169110 original size:22 final size:22
Alignment explanation
Indices: 14169085--14169128 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
14169075 AATTTTTGTC
*
14169085 CTTAATTCTAGGGATATAAATA
1 CTTAATTCTAGGGATACAAATA
*
14169107 CTTAATTTTAGGGATACAAATA
1 CTTAATTCTAGGGATACAAATA
14169129 TAAATATACA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.41, C:0.09, G:0.14, T:0.36
Consensus pattern (22 bp):
CTTAATTCTAGGGATACAAATA
Found at i:14172474 original size:15 final size:15
Alignment explanation
Indices: 14172454--14172486 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
14172444 GATACAACAA
14172454 AGCTTGGAATTTGGG
1 AGCTTGGAATTTGGG
*
14172469 AGCTTGGCATTTGGG
1 AGCTTGGAATTTGGG
14172484 AGC
1 AGC
14172487 AAAGGCTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.18, C:0.12, G:0.39, T:0.30
Consensus pattern (15 bp):
AGCTTGGAATTTGGG
Found at i:14173270 original size:25 final size:24
Alignment explanation
Indices: 14173230--14173278 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 24
14173220 AAATGTAAGA
*
14173230 ACCTTGAAACTGCAACTCCCGATTT
1 ACCTTGAAACTACAACTCCC-ATTT
*
14173255 ACCTTGAACCTACAACTCCCATTT
1 ACCTTGAAACTACAACTCCCATTT
14173279 TCAGAGACAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 4 0.18
25 18 0.82
ACGTcount: A:0.29, C:0.35, G:0.08, T:0.29
Consensus pattern (24 bp):
ACCTTGAAACTACAACTCCCATTT
Found at i:14175787 original size:316 final size:313
Alignment explanation
Indices: 14175208--14175842 Score: 966
Period size: 316 Copynumber: 2.0 Consensus size: 313
14175198 TAATGAATAA
*
14175208 TACTTTTCCCATCTCATTTTATTTGTATATATATTATTTTGAAATATTTCAAAATAATTTTTTTA
1 TACTTTTCCCATCTCATTTTATCTGTATATATATTATTTTGAAATATTTCAAAATAATTTTTTTA
*
14175273 ATTTAAACACTCAATACTCTCTTTTTAAATTTCAAATTAATTTTAAAAAATAAAATAGTATTAAT
66 ATTTAAACACTCAATAATCTCTTTTTAAATTTCAAATTAATTTTAAAAAATAAAATAGTATTAAT
* * * *
14175338 TATATAATTATATAAAATATTAGATGAACATCTAAATCCTTCAGTAATATGACATGTATAATGGC
131 TATATAATTATATAAAATATTAGAGGAACACCTAAATCCTCCAATAATATGACATGTATAATGGC
* *
14175403 CTCTTTAGCATGTTCTTTTTTGGCCATCTTCTTCAGAACATGACATCCACAACTTAACCTCAAAG
196 CTCTTTAGCATGTTCTTTTTTGGCCATCTTCTTCAGAACATGACAGCCACAACTTAACCACAAAG
* * *
14175468 GAAAGGAAAATACTTCAAATAAAGGTTAAGATTTGAATTATAATGGTGCACTT
261 GAAAGGAAAAAACTTCAAATAAAGGTTAAGATTTGAATTACAATGGTGAACTT
* * *
14175521 TACTTTTTCCATCTCATTTTATCTGTTTATATATTTTTTTGAAATATTTCAAAATAATTTTTTTA
1 TACTTTTCCCATCTCATTTTATCTGTATATATATTATTTTGAAATATTTCAAAATAATTTTTTTA
* * * * * * * *
14175586 TTTTTAAATATTTAATAATCTTGTGTTTTATATTTTAAATTAA-TTTAAAAAATTAAATAGTATT
66 -ATTTAAACACTCAATAATC-TCT-TTTTAAATTTCAAATTAATTTTAAAAAATAAAATAGTATT
* *
14175650 AATTATATAATTATATAAAATATTAGAGGAACACCTAAATCCTCCAATAATCTGACGTGTATAGA
128 AATTATATAATTATATAAAATATTAGAGGAACACCTAAATCCTCCAATAATATGACATGTATA-A
* *
14175715 TGGCTTCTTTGGCATGTTCTTTTTTGGCCATCTTCTTCAGAACATGACAGCCACAACTTAACCAC
192 TGGCCTCTTTAGCATGTTCTTTTTTGGCCATCTTCTTCAGAACATGACAGCCACAACTTAACCAC
* *
14175780 TAAGGAAAGGAAAAAACTTTAAATAAAGGTTAAGATTTGAATTACAATGGTGAACTT
257 AAAGGAAAGGAAAAAACTTCAAATAAAGGTTAAGATTTGAATTACAATGGTGAACTT
*
14175837 TCCTTT
1 TACTTT
14175843 GTTTTTTTTG
Statistics
Matches: 289, Mismatches: 29, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
313 61 0.21
314 14 0.05
315 79 0.27
316 135 0.47
ACGTcount: A:0.37, C:0.13, G:0.09, T:0.41
Consensus pattern (313 bp):
TACTTTTCCCATCTCATTTTATCTGTATATATATTATTTTGAAATATTTCAAAATAATTTTTTTA
ATTTAAACACTCAATAATCTCTTTTTAAATTTCAAATTAATTTTAAAAAATAAAATAGTATTAAT
TATATAATTATATAAAATATTAGAGGAACACCTAAATCCTCCAATAATATGACATGTATAATGGC
CTCTTTAGCATGTTCTTTTTTGGCCATCTTCTTCAGAACATGACAGCCACAACTTAACCACAAAG
GAAAGGAAAAAACTTCAAATAAAGGTTAAGATTTGAATTACAATGGTGAACTT
Found at i:14176146 original size:20 final size:21
Alignment explanation
Indices: 14176116--14176165 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
14176106 ATAATAAATA
14176116 AATCTTAAACAAACATAAACG
1 AATCTTAAACAAACATAAACG
* **
14176137 AATC-TAAACAAATATAAATA
1 AATCTTAAACAAACATAAACG
14176157 AATCTTAAA
1 AATCTTAAA
14176166 ATAGGATTAG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 17 0.68
21 8 0.32
ACGTcount: A:0.60, C:0.14, G:0.02, T:0.24
Consensus pattern (21 bp):
AATCTTAAACAAACATAAACG
Found at i:14176255 original size:11 final size:11
Alignment explanation
Indices: 14176241--14176271 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
14176231 ATAATAAACG
14176241 AATAAATTTTA
1 AATAAATTTTA
14176252 AATAAATTTTA
1 AATAAATTTTA
14176263 AATAAATTT
1 AATAAATTT
14176272 ATTTATAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (11 bp):
AATAAATTTTA
Found at i:14180274 original size:14 final size:15
Alignment explanation
Indices: 14180244--14180276 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
14180234 TACTACTAAA
*
14180244 TTAAAAATTTATTTT
1 TTAAAAATTTATCTT
14180259 TTAAAAATTT-TCTT
1 TTAAAAATTTATCTT
14180273 TTAA
1 TTAA
14180277 TATTAATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (15 bp):
TTAAAAATTTATCTT
Found at i:14181468 original size:60 final size:60
Alignment explanation
Indices: 14181399--14181595 Score: 154
Period size: 61 Copynumber: 3.3 Consensus size: 60
14181389 AATTGAATGT
*
14181399 GATTATTTAAGGTATTTCTAACCAAAATA-AC-TTGAATAATCTCATTCCATTTTTTTTAGA
1 GATTATTCAAGGTATTTCTAACCAAAA-ACACATTGAATAATC-CATTCCATTTTTTTTAGA
* * * * * * ** *
14181459 GATTATTTAA--TACGTTTTTAGCTAAAAACACATTCAATAATCCCCTTTAATTTTTTTTAAA
1 GATTATTCAAGGTA--TTTCTAACCAAAAACACATTGAATAAT-CCATTCCATTTTTTTTAGA
* * ** * *
14181520 GATTATTCAAGGCATTTCTATCCAAAAATTCTTTGAATAATCCTTTTCCA-TTTTTTT-GA
1 GATTATTCAAGGTATTTCTAACCAAAAACACATTGAATAATCC-ATTCCATTTTTTTTAGA
14181579 GATTATTCAAGGTATTT
1 GATTATTCAAGGTATTT
14181596 TTTTACCATA
Statistics
Matches: 107, Mismatches: 22, Indels: 17
0.73 0.15 0.12
Matches are distributed among these distances:
58 2 0.02
59 18 0.17
60 31 0.29
61 54 0.50
62 1 0.01
63 1 0.01
ACGTcount: A:0.33, C:0.14, G:0.08, T:0.45
Consensus pattern (60 bp):
GATTATTCAAGGTATTTCTAACCAAAAACACATTGAATAATCCATTCCATTTTTTTTAGA
Found at i:14182192 original size:66 final size:66
Alignment explanation
Indices: 14182064--14182192 Score: 143
Period size: 66 Copynumber: 2.0 Consensus size: 66
14182054 GTTTCTAGCC
* * ** *
14182064 AAAAATACCTTAAATAATCCCCTTCTATTTTTTTAGAATTATTCAATGTGTTTTTTACAAAAAAA
1 AAAAAAACCTTAAATAATCCCCTTCTATTTTTTTAGAATTATTCAAGGCATTTTTGACAAAAAAA
14182129 A
66 A
* * * * * *
14182130 AAAAAAACCTTCAATAATCTCTTTTTATTTTTTTA-TATTATTCAAGGCATTTTCTGATAAAAA
1 AAAAAAACCTTAAATAATCCCCTTCTATTTTTTTAGAATTATTCAAGGCATTTT-TGACAAAAA
14182193 TACCTTAAAT
Statistics
Matches: 51, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
65 14 0.27
66 37 0.73
ACGTcount: A:0.40, C:0.13, G:0.05, T:0.43
Consensus pattern (66 bp):
AAAAAAACCTTAAATAATCCCCTTCTATTTTTTTAGAATTATTCAAGGCATTTTTGACAAAAAAA
A
Found at i:14182519 original size:238 final size:241
Alignment explanation
Indices: 14182027--14182578 Score: 563
Period size: 238 Copynumber: 2.3 Consensus size: 241
14182017 TTTTAGCCAG
* * * *
14182027 AAAACATTGAATGTGGTAATTCAAGTCGTTTCTAGCCAAAAATACCTTAAATAATCCCCTTCTAT
1 AAAAAATTGAATGGGGTAATTCAAGTCGTTTATAGCCAAAAATACCTTAAATAATCCCCTTCCAT
*
14182092 TTTTTTAGAATTATTCAATGTGTTTTTTACAAAAAAAAAAAAAAACCTTCAATAATCTCTTTTTA
66 TTTTTTAGAATTATTCAATGTATTTTTTAC---AAAAAAAAAAAACCTTCAATAA-CTCTTTTTA
* * *
14182157 TTTTTTTATATTATTCAAGGCATTTTCTGATAAAAATACCTTAAATAATTTGATACATTTTTTAT
127 TTTTTTTATATTATTCAAGACATTTTCTGATAAAAATACCTTAAATAATCTCATACATTTTTTAT
* * * * *
14182222 GATATTATTCAATGTATTTTTTACAAAGAACACCTTAAATAATCCTTTAC
192 GAAATTATTCAAAGTAGTTTTTACAAAGAACACATTAAATAATCCCTTAC
* * * *
14182272 AAAAAATTGAATGGGGTTATTCAAGTCTTTTATAG-CAAAAATGA-TTTAAATAATCTCCTTCCA
1 AAAAAATTGAATGGGGTAATTCAAGTCGTTTATAGCCAAAAAT-ACCTTAAATAATCCCCTTCCA
* *
14182335 TTTTTTTAGGATTATTCAA-GATATTTTTTAC-AAAAAAAAAAGCCTTCAATAA-TC-TTTT-TT
65 TTTTTTTAGAATTATTCAATG-TATTTTTTACAAAAAAAAAAAACCTTCAATAACTCTTTTTATT
* * * *
14182395 TTTTTGTATTATTCAAGACA-TTTCTTGGTAAAAA-ACGTCTTGAATAATCCTCA-ACCTTTTTT
129 TTTTTATATTATTCAAGACATTTTC-TGATAAAAATAC--CTTAAATAAT-CTCATA-CATTTTT
* *
14182457 TATGAAATTATTCAAAG-CGTTTTTAGCTAAA-ATCACATTAAATAATCCCTTAC
189 TATGAAATTATTCAAAGTAGTTTTTA-C-AAAGAACACATTAAATAATCCCTTAC
* *** * * * ** * * *
14182510 AGAAAATTGAATAAAGTTATTCAAGGCGTTTTTAATCAAAAACACCTTGAATGATCCCCTT-CAT
1 AAAAAATTGAATGGGGTAATTCAAGTCGTTTATAGCCAAAAATACCTTAAATAATCCCCTTCCAT
14182574 TTTTT
66 TTTTT
14182579 ATTATGGATT
Statistics
Matches: 258, Mismatches: 38, Indels: 29
0.79 0.12 0.09
Matches are distributed among these distances:
235 6 0.02
236 28 0.11
237 20 0.08
238 81 0.31
239 21 0.08
240 20 0.08
243 1 0.00
244 50 0.19
245 31 0.12
ACGTcount: A:0.37, C:0.14, G:0.09, T:0.41
Consensus pattern (241 bp):
AAAAAATTGAATGGGGTAATTCAAGTCGTTTATAGCCAAAAATACCTTAAATAATCCCCTTCCAT
TTTTTTAGAATTATTCAATGTATTTTTTACAAAAAAAAAAAACCTTCAATAACTCTTTTTATTTT
TTTATATTATTCAAGACATTTTCTGATAAAAATACCTTAAATAATCTCATACATTTTTTATGAAA
TTATTCAAAGTAGTTTTTACAAAGAACACATTAAATAATCCCTTAC
Found at i:14183788 original size:31 final size:31
Alignment explanation
Indices: 14183750--14183808 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
14183740 TTAAAATTTG
14183750 AATTTT-AATA-ATCAAATATTACATTTTTAAT
1 AATTTTAAATACA-CAAA-ATTACATTTTTAAT
14183781 AATTTTAAATACACAAAATTACATTTTT
1 AATTTTAAATACACAAAATTACATTTTT
14183809 GTTTCTCATT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
31 17 0.65
32 8 0.31
33 1 0.04
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (31 bp):
AATTTTAAATACACAAAATTACATTTTTAAT
Found at i:14185263 original size:17 final size:16
Alignment explanation
Indices: 14185221--14185263 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
14185211 ATTATTTTAC
* *
14185221 TTTGTTCTAAGCTTTTT
1 TTTGTTCT-TGCTTTTG
14185238 TTTGTTCTTGCTTTTG
1 TTTGTTCTTGCTTTTG
14185254 TTTGTATCTT
1 TTTGT-TCTT
14185264 TCTCTTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 11 0.48
17 12 0.52
ACGTcount: A:0.07, C:0.12, G:0.14, T:0.67
Consensus pattern (16 bp):
TTTGTTCTTGCTTTTG
Found at i:14187297 original size:43 final size:43
Alignment explanation
Indices: 14187236--14187323 Score: 167
Period size: 43 Copynumber: 2.0 Consensus size: 43
14187226 GGCATGGCAA
*
14187236 TACAACTATGGGATACAAGTGTGGCAGCTATCAGTAATTTAGT
1 TACAACTATGGGATACAAGTGTGGCAGCCATCAGTAATTTAGT
14187279 TACAACTATGGGATACAAGTGTGGCAGCCATCAGTAATTTAGT
1 TACAACTATGGGATACAAGTGTGGCAGCCATCAGTAATTTAGT
14187322 TA
1 TA
14187324 ATCAAGTCCC
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.30
Consensus pattern (43 bp):
TACAACTATGGGATACAAGTGTGGCAGCCATCAGTAATTTAGT
Found at i:14206573 original size:14 final size:13
Alignment explanation
Indices: 14206556--14206615 Score: 68
Period size: 14 Copynumber: 4.5 Consensus size: 13
14206546 GTTATATTCA
14206556 TAAATATAATTAAT
1 TAAATATAA-TAAT
14206570 TAAATA-AATAAT
1 TAAATATAATAAT
* *
14206582 TATTACATAATAAT
1 TA-AATATAATAAT
14206596 TAAATTATAATAAT
1 TAAA-TATAATAAT
14206610 TAAATA
1 TAAATA
14206616 ATCAATTAAG
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
12 6 0.15
13 7 0.18
14 26 0.67
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (13 bp):
TAAATATAATAAT
Found at i:14214371 original size:15 final size:15
Alignment explanation
Indices: 14214325--14214374 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
14214315 AGTTTAATTG
*
14214325 TTTAATTATGTTATAA
1 TTTAATTA-ATTATAA
14214341 TTT-ATT-ATT-T-A
1 TTTAATTAATTATAA
14214352 TTTAATTAATTATAA
1 TTTAATTAATTATAA
14214367 TTTAATTA
1 TTTAATTA
14214375 TAATATAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 9
0.74 0.03 0.23
Matches are distributed among these distances:
11 4 0.14
12 4 0.14
13 5 0.17
14 1 0.03
15 12 0.41
16 3 0.10
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (15 bp):
TTTAATTAATTATAA
Found at i:14214390 original size:26 final size:26
Alignment explanation
Indices: 14214335--14214387 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
14214325 TTTAATTATG
* *
14214335 TTATAATTTATTATTTATTTAATTAA
1 TTATAATTTATTATTAATATAATTAA
14214361 TTATAATTTAATTA-TAATATAA-TAA
1 TTATAATTT-ATTATTAATATAATTAA
14214386 TT
1 TT
14214388 TATTATTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 5 0.21
26 15 0.62
27 4 0.17
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (26 bp):
TTATAATTTATTATTAATATAATTAA
Found at i:14219067 original size:14 final size:14
Alignment explanation
Indices: 14219048--14219077 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
14219038 ATGGGGTCTA
14219048 TCATTTATGTAACT
1 TCATTTATGTAACT
14219062 TCATTTATGTAACT
1 TCATTTATGTAACT
14219076 TC
1 TC
14219078 CATGGTCGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.27, C:0.17, G:0.07, T:0.50
Consensus pattern (14 bp):
TCATTTATGTAACT
Found at i:14227019 original size:22 final size:21
Alignment explanation
Indices: 14226985--14227025 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
14226975 TTTTGTTTGA
14226985 TAAAAAATCAAGAATTAATATT
1 TAAAAAATCAAG-ATTAATATT
* *
14227007 TAAATAATTAAGATTAATA
1 TAAAAAATCAAGATTAATA
14227026 ATTATTTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.59, C:0.02, G:0.05, T:0.34
Consensus pattern (21 bp):
TAAAAAATCAAGATTAATATT
Found at i:14227837 original size:12 final size:12
Alignment explanation
Indices: 14227820--14227844 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
14227810 AATATTAAAT
14227820 TTAAATAATTTA
1 TTAAATAATTTA
14227832 TTAAATAATTTA
1 TTAAATAATTTA
14227844 T
1 T
14227845 AATTTTTTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
TTAAATAATTTA
Found at i:14228107 original size:26 final size:26
Alignment explanation
Indices: 14228057--14228112 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 26
14228047 ATAGATTTTG
*
14228057 ATTTAATTTAAATAATTATCCAAAAT
1 ATTTAATTTAAATAATTATCCAAAAA
*
14228083 ATTTAATTTAAATAATTTAT-TAAAAA
1 ATTTAATTTAAATAA-TTATCCAAAAA
14228109 ATTT
1 ATTT
14228113 TATATGATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
26 23 0.85
27 4 0.15
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (26 bp):
ATTTAATTTAAATAATTATCCAAAAA
Found at i:14228241 original size:44 final size:44
Alignment explanation
Indices: 14228178--14228261 Score: 141
Period size: 44 Copynumber: 1.9 Consensus size: 44
14228168 TTCACTTAGA
*
14228178 CATTCACATAAGCAATTTTGATTATGTAATCTTGTATGTTGTGG
1 CATTCACATAAACAATTTTGATTATGTAATCTTGTATGTTGTGG
* *
14228222 CATTCACATAAATAATTTTGATTATGTAATTTTGTATGTT
1 CATTCACATAAACAATTTTGATTATGTAATCTTGTATGTT
14228262 ATAATACAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
44 37 1.00
ACGTcount: A:0.30, C:0.10, G:0.14, T:0.46
Consensus pattern (44 bp):
CATTCACATAAACAATTTTGATTATGTAATCTTGTATGTTGTGG
Found at i:14231847 original size:17 final size:18
Alignment explanation
Indices: 14231815--14231850 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
14231805 TATATTATTG
*
14231815 ATCATTTTATTAAATTTT
1 ATCAATTTATTAAATTTT
14231833 ATCAATTTA-TAAATTTT
1 ATCAATTTATTAAATTTT
14231850 A
1 A
14231851 ATTTTTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.56
Consensus pattern (18 bp):
ATCAATTTATTAAATTTT
Found at i:14234327 original size:19 final size:19
Alignment explanation
Indices: 14234290--14234327 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
14234280 TACTCTTTCC
*
14234290 GTTAAAAAAAAAACCTAAA
1 GTTAAAAAAAAAACATAAA
*
14234309 GTTAAAAAAAACACATAAA
1 GTTAAAAAAAAAACATAAA
14234328 ATGGAAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.68, C:0.11, G:0.05, T:0.16
Consensus pattern (19 bp):
GTTAAAAAAAAAACATAAA
Found at i:14234439 original size:28 final size:27
Alignment explanation
Indices: 14234407--14234465 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
14234397 TGGTTATATT
* *
14234407 TTATATATAAAATTATGATAAAATAATA
1 TTATAAATAAAATTA-AATAAAATAATA
* *
14234435 TTATAAATAAGATTAAATTAAATAATA
1 TTATAAATAAAATTAAATAAAATAATA
14234462 TTAT
1 TTAT
14234466 TTTATTTTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
27 14 0.52
28 13 0.48
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (27 bp):
TTATAAATAAAATTAAATAAAATAATA
Found at i:14239771 original size:21 final size:21
Alignment explanation
Indices: 14239742--14239785 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
14239732 AAAAAACTCT
* *
14239742 TAATTTTTTTGCTTTTTTTTC
1 TAATCTTTTTGCTCTTTTTTC
14239763 TAATCTTTTTGCTCTTTTTTC
1 TAATCTTTTTGCTCTTTTTTC
14239784 TA
1 TA
14239786 CTATTTCTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.11, C:0.14, G:0.05, T:0.70
Consensus pattern (21 bp):
TAATCTTTTTGCTCTTTTTTC
Found at i:14240617 original size:18 final size:19
Alignment explanation
Indices: 14240608--14240643 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
14240598 AAGATTTAAT
14240608 ATTCGTAAAA-ATTCAAAA
1 ATTCGTAAAAGATTCAAAA
14240626 ATTCGTAAAAG-TTCAAAA
1 ATTCGTAAAAGATTCAAAA
14240644 TTTCACAAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.53, C:0.11, G:0.08, T:0.28
Consensus pattern (19 bp):
ATTCGTAAAAGATTCAAAA
Found at i:14240681 original size:19 final size:19
Alignment explanation
Indices: 14240657--14240742 Score: 70
Period size: 19 Copynumber: 4.6 Consensus size: 19
14240647 CACAAGTTTC
14240657 AAGATTTGCAAATGA-TTCA
1 AAGATTTGCAAA-GAGTTCA
* *
14240676 AAGATTCGTAAAGAGTTC-
1 AAGATTTGCAAAGAGTTCA
* * * *
14240694 AAGATGTACAAAGATTTTA
1 AAGATTTGCAAAGAGTTCA
*
14240713 AAGATTTGC-AAGTGATTCA
1 AAGATTTGCAAAGAG-TTCA
14240732 AAGATTTGCAA
1 AAGATTTGCAA
14240743 GAATAATCAA
Statistics
Matches: 50, Mismatches: 13, Indels: 7
0.71 0.19 0.10
Matches are distributed among these distances:
18 17 0.34
19 32 0.64
20 1 0.02
ACGTcount: A:0.42, C:0.09, G:0.19, T:0.30
Consensus pattern (19 bp):
AAGATTTGCAAAGAGTTCA
Found at i:14240724 original size:28 final size:29
Alignment explanation
Indices: 14240657--14240738 Score: 100
Period size: 28 Copynumber: 2.9 Consensus size: 29
14240647 CACAAGTTTC
*
14240657 AAGATTTGCAA-ATGATTCAAAGATTCGTA
1 AAGATTTGCAAGATGATTCAAAGATT-TTA
* *
14240686 AAGAGTT-CAAGATG-TACAAAGATTTTA
1 AAGATTTGCAAGATGATTCAAAGATTTTA
14240713 AAGATTTGCAAG-TGATTCAAAGATTT
1 AAGATTTGCAAGATGATTCAAAGATTT
14240739 GCAAGAATAA
Statistics
Matches: 45, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
27 10 0.22
28 26 0.58
29 9 0.20
ACGTcount: A:0.41, C:0.09, G:0.18, T:0.32
Consensus pattern (29 bp):
AAGATTTGCAAGATGATTCAAAGATTTTA
Found at i:14240764 original size:18 final size:18
Alignment explanation
Indices: 14240741--14240780 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
14240731 AAAGATTTGC
14240741 AAGAATAATCAAATTCAT
1 AAGAATAATCAAATTCAT
** *
14240759 AAGAATTTTTAAATTCAT
1 AAGAATAATCAAATTCAT
14240777 AAGA
1 AAGA
14240781 GTTTGTAAGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.53, C:0.07, G:0.07, T:0.33
Consensus pattern (18 bp):
AAGAATAATCAAATTCAT
Found at i:14240813 original size:17 final size:17
Alignment explanation
Indices: 14240793--14240826 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
14240783 TTGTAAGACT
*
14240793 TTTCAGTTTTGCAAGAA
1 TTTCAGCTTTGCAAGAA
14240810 TTTCAGCTTTGCAAGAA
1 TTTCAGCTTTGCAAGAA
14240827 CTCAAATTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.29, C:0.15, G:0.18, T:0.38
Consensus pattern (17 bp):
TTTCAGCTTTGCAAGAA
Found at i:14240882 original size:17 final size:18
Alignment explanation
Indices: 14240847--14240883 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
14240837 TAAGAATTTC
14240847 AGATTTGTAAGAGATTCA
1 AGATTTGTAAGAGATTCA
14240865 AGATTTGTAA-AGATTCA
1 AGATTTGTAAGAGATTCA
14240882 AG
1 AG
14240884 TTTCTCAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.41, C:0.05, G:0.22, T:0.32
Consensus pattern (18 bp):
AGATTTGTAAGAGATTCA
Found at i:14241002 original size:18 final size:18
Alignment explanation
Indices: 14240965--14241019 Score: 92
Period size: 18 Copynumber: 3.0 Consensus size: 18
14240955 TCAAGATAAC
*
14240965 GATTCAAAAGTTCACAAAA
1 GATTCAAAA-TTCGCAAAA
14240984 GATTCAAAATTCGCAAAA
1 GATTCAAAATTCGCAAAA
14241002 GATTCAAAATTCGCAAAA
1 GATTCAAAATTCGCAAAA
14241020 CATTTAATAT
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
18 26 0.74
19 9 0.26
ACGTcount: A:0.51, C:0.16, G:0.11, T:0.22
Consensus pattern (18 bp):
GATTCAAAATTCGCAAAA
Found at i:14241049 original size:8 final size:8
Alignment explanation
Indices: 14241033--14241103 Score: 61
Period size: 8 Copynumber: 8.1 Consensus size: 8
14241023 TTAATATTTA
14241033 CAAAGATT
1 CAAAGATT
*
14241041 CAAATATT
1 CAAAGATT
14241049 CACAAGAATT
1 CA-AAG-ATT
*
14241059 TAAAGATT
1 CAAAGATT
14241067 CAAAGATTT
1 CAAAGA-TT
*
14241076 GCAAGTGATTT
1 -CAA-AGA-TT
14241087 CAAAGATT
1 CAAAGATT
14241095 CAAAGATT
1 CAAAGATT
14241103 C
1 C
14241104 GTAAGTTATT
Statistics
Matches: 52, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
8 28 0.54
9 9 0.17
10 10 0.19
11 5 0.10
ACGTcount: A:0.45, C:0.13, G:0.13, T:0.30
Consensus pattern (8 bp):
CAAAGATT
Found at i:14241063 original size:26 final size:28
Alignment explanation
Indices: 14241028--14241103 Score: 93
Period size: 28 Copynumber: 2.8 Consensus size: 28
14241018 AACATTTAAT
*
14241028 ATTTACAAAGATTCAAATATTCACAAG-A
1 ATTT-CAAAGATTCAAAGATTCACAAGTA
** *
14241056 ATTT-AAAGATTCAAAGATTTGCAAGTG
1 ATTTCAAAGATTCAAAGATTCACAAGTA
14241083 ATTTCAAAGATTCAAAGATTC
1 ATTTCAAAGATTCAAAGATTC
14241104 GTAAGTTATT
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
26 18 0.44
27 4 0.10
28 19 0.46
ACGTcount: A:0.45, C:0.12, G:0.12, T:0.32
Consensus pattern (28 bp):
ATTTCAAAGATTCAAAGATTCACAAGTA
Found at i:14241109 original size:28 final size:28
Alignment explanation
Indices: 14241028--14241122 Score: 99
Period size: 26 Copynumber: 3.5 Consensus size: 28
14241018 AACATTTAAT
* *
14241028 ATTTACAAAGATTCAAATATTCACAAG-A
1 ATTT-CAAAGATTCAAAGATTCGCAAGTA
* *
14241056 ATTT-AAAGATTCAAAGATTTGCAAGTG
1 ATTTCAAAGATTCAAAGATTCGCAAGTA
* *
14241083 ATTTCAAAGATTCAAAGATTCGTAAGTT
1 ATTTCAAAGATTCAAAGATTCGCAAGTA
14241111 A-TTC-AAGATTCA
1 ATTTCAAAGATTCA
14241123 CAAAGATTTA
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
26 26 0.45
27 7 0.12
28 25 0.43
ACGTcount: A:0.43, C:0.12, G:0.13, T:0.33
Consensus pattern (28 bp):
ATTTCAAAGATTCAAAGATTCGCAAGTA
Found at i:14241396 original size:43 final size:43
Alignment explanation
Indices: 14241349--14241594 Score: 180
Period size: 43 Copynumber: 5.7 Consensus size: 43
14241339 TTTTTATCAA
* * * *
14241349 AGGCTCAACAACTTTTGAAAATATAAAAGGCTTCTGTCAATAG
1 AGGCTCAACAACTTTTGAAAATATAAAAAGCTTCTATAAACAG
* *
14241392 AGGCTTAACAACTTTTGAAAATA-AAAAAGAC-TCTTTTAAACAG
1 AGGCTCAACAACTTTTGAAAATATAAAAAG-CTTC-TATAAACAG
* * * *
14241435 AGGCTCAATAA-TTTTTATAAATATAAAAAGCTCCTAT-TACTAG
1 AGGCTCAACAACTTTTGA-AAATATAAAAAGCTTCTATAAAC-AG
* * * * * * *
14241478 AGACTCAACAACTTTTAAAAAATGTAAAATG-TTCCTCTTAACAA
1 AGGCTCAACAACTTTT-GAAAATATAAAAAGCTT-CTATAAACAG
** * *
14241522 AGGCTCAATTAGTTTTGAAAAATATAAAAAGCTTTTATAAACAG
1 AGGCTCAACAACTTTTG-AAAATATAAAAAGCTTCTATAAACAG
*
14241566 AGGCTTAACAAC-TTTGAAAAATATAAAAA
1 AGGCTCAACAACTTTTG-AAAATATAAAAA
14241595 AGAATTCATA
Statistics
Matches: 156, Mismatches: 35, Indels: 24
0.73 0.16 0.11
Matches are distributed among these distances:
42 14 0.09
43 75 0.48
44 62 0.40
45 5 0.03
ACGTcount: A:0.45, C:0.14, G:0.11, T:0.30
Consensus pattern (43 bp):
AGGCTCAACAACTTTTGAAAATATAAAAAGCTTCTATAAACAG
Found at i:14241457 original size:86 final size:84
Alignment explanation
Indices: 14241346--14241594 Score: 223
Period size: 86 Copynumber: 2.9 Consensus size: 84
14241336 CTTTTTTTAT
* * * *
14241346 CAAAGGCTCAACAACTTTTGAAAATATAAAAGGCTTCTGTCAATAGAGGCTTAACAACTTTTGAA
1 CAAAGGCTCAATAA-TTTTGAAAATATAAAAAGCTTCTATAAATAGAGGCTTAACAACTTTTGAA
*
14241411 AATAAAAAAGACT-CTTTTAAA
65 AATAAAAAAG-CTCCTCTT-AA
* * * * * * * *
14241432 CAGAGGCTCAATAATTTTTATAAATATAAAAAGCTCCTATTACTAGAGACTCAACAACTTTTAAA
1 CAAAGGCTCAATAATTTTGA-AAATATAAAAAGCTTCTATAAATAGAGGCTTAACAACTTTT-GA
* * *
14241497 AAATGTAAAATGTTCCTCTTAA
64 AAAT-AAAAAAGCTCCTCTTAA
* * *
14241519 CAAAGGCTCAATTAGTTTTGAAAAATATAAAAAGCTTTTATAAACAGAGGCTTAACAAC-TTTGA
1 CAAAGGCTCAA-TAATTTTG-AAAATATAAAAAGCTTCTATAAATAGAGGCTTAACAACTTTTG-
14241583 AAAATATAAAAA
63 AAAATA-AAAAA
14241595 AGAATTCATA
Statistics
Matches: 127, Mismatches: 28, Indels: 15
0.75 0.16 0.09
Matches are distributed among these distances:
85 5 0.04
86 46 0.36
87 30 0.24
88 45 0.35
89 1 0.01
ACGTcount: A:0.45, C:0.14, G:0.11, T:0.29
Consensus pattern (84 bp):
CAAAGGCTCAATAATTTTGAAAATATAAAAAGCTTCTATAAATAGAGGCTTAACAACTTTTGAAA
ATAAAAAAGCTCCTCTTAA
Found at i:14243371 original size:15 final size:16
Alignment explanation
Indices: 14243351--14243390 Score: 55
Period size: 17 Copynumber: 2.5 Consensus size: 16
14243341 CATTTTTTCA
14243351 CATTTTTTTC-CTTTT
1 CATTTTTTTCACTTTT
14243366 CATTTTTTTCATCTTTT
1 CATTTTTTTCA-CTTTT
*
14243383 TATTTTTT
1 CATTTTTT
14243391 CACATCATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 10 0.45
17 12 0.55
ACGTcount: A:0.10, C:0.15, G:0.00, T:0.75
Consensus pattern (16 bp):
CATTTTTTTCACTTTT
Found at i:14246033 original size:61 final size:60
Alignment explanation
Indices: 14245963--14246098 Score: 193
Period size: 61 Copynumber: 2.2 Consensus size: 60
14245953 ATGCATGGAT
* **
14245963 TGAAAAATGACTGCATGAATGGATGCATAAGTTAATGTTT-GTCTCATAATGATGTATAAA
1 TGAAAAATGACTGCATGAATAGATGCATAAGTTAATGTTTACCCT-ATAATGATGTATAAA
* *
14246023 TGAATAAATGACTACATGAATAGATGCATAAGTTAATGTTTACCCTATAATGATGTATGAA
1 TGAA-AAATGACTGCATGAATAGATGCATAAGTTAATGTTTACCCTATAATGATGTATAAA
14246084 TGAACAAATGACTGC
1 TGAA-AAATGACTGC
14246099 CTAGGTTAAC
Statistics
Matches: 67, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
60 4 0.06
61 61 0.91
62 2 0.03
ACGTcount: A:0.40, C:0.10, G:0.18, T:0.32
Consensus pattern (60 bp):
TGAAAAATGACTGCATGAATAGATGCATAAGTTAATGTTTACCCTATAATGATGTATAAA
Found at i:14248409 original size:2 final size:2
Alignment explanation
Indices: 14248404--14248438 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
14248394 GGACCATTTG
*
14248404 AT AT AT CT 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 A
14248439 AATGTTGCTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:14260161 original size:2 final size:2
Alignment explanation
Indices: 14260154--14260184 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
14260144 ATCAAATCTC
14260154 AT AT AT AT AT AT AT AT A- AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14260185 TTCAAGTTAC
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:14260176 original size:15 final size:15
Alignment explanation
Indices: 14260156--14260184 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
14260146 CAAATCTCAT
14260156 ATATATATATATATA
1 ATATATATATATATA
14260171 ATATATATATATAT
1 ATATATATATATAT
14260185 TTCAAGTTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATATATATATATATA
Found at i:14262150 original size:71 final size:71
Alignment explanation
Indices: 14262033--14262173 Score: 210
Period size: 71 Copynumber: 2.0 Consensus size: 71
14262023 CTATGTGCAC
* * * *
14262033 CCTTTTAACATAAACAAATATATACCCATATGTACCCATTCGTCATATCTATGTAGACCTTATCA
1 CCTTTTAACATAAACAAACACATACACATATGTACCCATTCATCATATCTATGTAGACCTTATCA
14262098 ATTTTT
66 ATTTTT
* * * *
14262104 CCTTTTAACATAAACAAACACATACATATATGTACCCATTCATCATATTTATGTAGACTTTCTCA
1 CCTTTTAACATAAACAAACACATACACATATGTACCCATTCATCATATCTATGTAGACCTTATCA
14262169 ATTTT
66 ATTTT
14262174 CTTTAGTCCA
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
71 62 1.00
ACGTcount: A:0.35, C:0.22, G:0.05, T:0.38
Consensus pattern (71 bp):
CCTTTTAACATAAACAAACACATACACATATGTACCCATTCATCATATCTATGTAGACCTTATCA
ATTTTT
Found at i:14263774 original size:2 final size:2
Alignment explanation
Indices: 14263767--14263805 Score: 50
Period size: 2 Copynumber: 21.5 Consensus size: 2
14263757 AAAATCAAAG
14263767 AT AT AT AT AT AT AT AT A- AT AT -T AT AT AT AT -T AT AT -T AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14263805 A
1 A
14263806 ACATACATAG
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
1 4 0.12
2 29 0.88
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:14263793 original size:14 final size:14
Alignment explanation
Indices: 14263769--14263805 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
14263759 AATCAAAGAT
14263769 ATATATATATATATA
1 ATAT-TATATATATA
*
14263784 ATATTATATATATT
1 ATATTATATATATA
14263798 ATATTATA
1 ATATTATA
14263806 ACATACATAG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 17 0.81
15 4 0.19
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (14 bp):
ATATTATATATATA
Found at i:14264141 original size:82 final size:82
Alignment explanation
Indices: 14264001--14264154 Score: 204
Period size: 82 Copynumber: 1.9 Consensus size: 82
14263991 AGAGCCTTAC
* * * * *
14264001 ACCCCGCCAATCATCCACACCTTTGACGATTGGATGAAAAATAGTTTTTTGGC-AAAAAAAT-TT
1 ACCCCACCAATCATCCACACCTTTGACGATTGGATAAAAAATAGTGTTCTGACAAAAAAAATGTT
14264064 AAAAAAAAAACTCATAG
66 AAAAAAAAAACTCATAG
* * *
14264081 ACCCCACCAATCATCCCCACACCTTTGATGATTGGATAAAAAATGGTGTTCTGACCAAAAAAATG
1 ACCCCACCAATCAT--CCACACCTTTGACGATTGGATAAAAAATAGTGTTCTGACAAAAAAAATG
14264146 TTAAAAAAA
64 TTAAAAAAA
14264155 TTTTTAAAAT
Statistics
Matches: 63, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
80 13 0.21
82 33 0.52
83 8 0.13
84 9 0.14
ACGTcount: A:0.42, C:0.21, G:0.12, T:0.24
Consensus pattern (82 bp):
ACCCCACCAATCATCCACACCTTTGACGATTGGATAAAAAATAGTGTTCTGACAAAAAAAATGTT
AAAAAAAAAACTCATAG
Found at i:14264363 original size:22 final size:22
Alignment explanation
Indices: 14264333--14264374 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
14264323 AACACCTATA
14264333 TTGGCATTTTACAAATATACCT
1 TTGGCATTTTACAAATATACCT
*
14264355 TTGGTATTTTACAAATATAC
1 TTGGCATTTTACAAATATAC
14264375 TTTTTCCATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.33, C:0.14, G:0.10, T:0.43
Consensus pattern (22 bp):
TTGGCATTTTACAAATATACCT
Found at i:14264529 original size:15 final size:17
Alignment explanation
Indices: 14264504--14264539 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 17
14264494 ATTAAAAATG
14264504 ATTAAATAAAAAT-AAA
1 ATTAAATAAAAATCAAA
14264520 ATT-AA-AAAAATCAAA
1 ATTAAATAAAAATCAAA
14264535 ATTAA
1 ATTAA
14264540 TAGATTAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
14 6 0.33
15 8 0.44
16 4 0.22
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.25
Consensus pattern (17 bp):
ATTAAATAAAAATCAAA
Found at i:14267158 original size:20 final size:21
Alignment explanation
Indices: 14267133--14267178 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
14267123 TTTTTTTGTT
* * *
14267133 TTTTTAATATTTAATAAAT-A
1 TTTTTAAAAATTAAAAAATAA
14267153 TTTTTAAAAATTAAAAAATAA
1 TTTTTAAAAATTAAAAAATAA
14267174 TTTTT
1 TTTTT
14267179 TTAAAAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 16 0.73
21 6 0.27
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
TTTTTAAAAATTAAAAAATAA
Found at i:14280988 original size:21 final size:21
Alignment explanation
Indices: 14280964--14281015 Score: 95
Period size: 21 Copynumber: 2.4 Consensus size: 21
14280954 GATATTTATT
14280964 TTAAATTAATATTCGATCTAA
1 TTAAATTAATATTCGATCTAA
14280985 TTAAATTAATATTCGATCTAA
1 TTAAATTAATATTCGATCTAA
14281006 TTCAAATTAA
1 TT-AAATTAA
14281016 ATTTCGAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 23 0.77
22 7 0.23
ACGTcount: A:0.44, C:0.10, G:0.04, T:0.42
Consensus pattern (21 bp):
TTAAATTAATATTCGATCTAA
Found at i:14297822 original size:30 final size:30
Alignment explanation
Indices: 14297755--14297830 Score: 89
Period size: 30 Copynumber: 2.5 Consensus size: 30
14297745 TGATTGTGAG
* * * * *
14297755 TTATATTAAATAATTTCATATAAAGATGAA
1 TTATATTTAATAATTTCAAACAAAAATAAA
14297785 TTATATTTAATAATTTCAAACAAAAATAAA
1 TTATATTTAATAATTTCAAACAAAAATAAA
* *
14297815 TTGTATTTAATTATTT
1 TTATATTTAATAATTT
14297831 AAGATAAATT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (30 bp):
TTATATTTAATAATTTCAAACAAAAATAAA
Found at i:14305095 original size:14 final size:14
Alignment explanation
Indices: 14305051--14305098 Score: 51
Period size: 14 Copynumber: 3.2 Consensus size: 14
14305041 TCAATTTAAA
* *
14305051 TTAAATTTTATTGAT
1 TTAAATTTAATT-TT
14305066 TTAAATTATCAATTTT
1 TTAAATT-T-AATTTT
14305082 TTAAATTTAATTTT
1 TTAAATTTAATTTT
14305096 TTA
1 TTA
14305099 TTTGATTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
14 9 0.31
15 8 0.28
16 9 0.31
17 3 0.10
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.60
Consensus pattern (14 bp):
TTAAATTTAATTTT
Found at i:14305177 original size:20 final size:20
Alignment explanation
Indices: 14305152--14305196 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
14305142 TAATTTATTT
*
14305152 TATAAAAATTTGA-AAAAATA
1 TATAAAAA-TTAATAAAAATA
14305172 TATAAAAATTAATAAAAATA
1 TATAAAAATTAATAAAAATA
14305192 TATAA
1 TATAA
14305197 TTCATTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 3 0.13
20 20 0.87
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (20 bp):
TATAAAAATTAATAAAAATA
Found at i:14310977 original size:2 final size:2
Alignment explanation
Indices: 14310970--14310999 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
14310960 TCCCACTAAA
14310970 AT 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 AT
14311000 GATCTTATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14311031 original size:21 final size:21
Alignment explanation
Indices: 14311007--14311051 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
14310997 TATGATCTTA
* *
14311007 TAATATGTAATGCCCACCGTT
1 TAATATGTAATACCCACCGCT
14311028 TAATATGTAATACCCACCGCT
1 TAATATGTAATACCCACCGCT
14311049 TAA
1 TAA
14311052 ACTCATCATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.33, C:0.24, G:0.11, T:0.31
Consensus pattern (21 bp):
TAATATGTAATACCCACCGCT
Found at i:14317012 original size:2 final size:2
Alignment explanation
Indices: 14317007--14317041 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
14316997 TCTCTCTCTC
14317007 TA TA TA 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 TA TA TA T
14317042 CAGTTCCAGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:14317168 original size:21 final size:21
Alignment explanation
Indices: 14317126--14317168 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
14317116 GGGTTTAAAT
*
14317126 TTTATTTTTATTTATTTATAA
1 TTTATTTTTATTTAGTTATAA
*
14317147 TTTATTTATTTTTTAGTT-TAA
1 TTTATTT-TTATTTAGTTATAA
14317168 T
1 T
14317169 AAAAAAGTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (21 bp):
TTTATTTTTATTTAGTTATAA
Found at i:14318042 original size:13 final size:14
Alignment explanation
Indices: 14318024--14318074 Score: 61
Period size: 14 Copynumber: 3.6 Consensus size: 14
14318014 GAGTGAGCCG
14318024 ATTATTT-TGATTT
1 ATTATTTATGATTT
*
14318037 ATTATTTATAATTT
1 ATTATTTATGATTT
14318051 -TTATTTTATGATTT
1 ATTA-TTTATGATTT
14318065 ATTTATTTAT
1 A-TTATTTAT
14318075 TTATTTGTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
13 10 0.31
14 14 0.44
15 5 0.16
16 3 0.09
ACGTcount: A:0.27, C:0.00, G:0.04, T:0.69
Consensus pattern (14 bp):
ATTATTTATGATTT
Found at i:14318132 original size:8 final size:9
Alignment explanation
Indices: 14318110--14318134 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
14318100 AAAATTTTAG
14318110 GAAAAATTA
1 GAAAAATTA
14318119 GAAAAATTA
1 GAAAAATTA
14318128 GAAAAAT
1 GAAAAAT
14318135 AATTATAAAA
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:0.68, C:0.00, G:0.12, T:0.20
Consensus pattern (9 bp):
GAAAAATTA
Found at i:14323725 original size:24 final size:24
Alignment explanation
Indices: 14323698--14323842 Score: 152
Period size: 24 Copynumber: 6.2 Consensus size: 24
14323688 AAAATGATGT
*
14323698 GAATTTTTAAAAAGTTTTAAATGA
1 GAATCTTTAAAAAGTTTTAAATGA
* *
14323722 GAATCTTTAAAAAATTTTAAATAA
1 GAATCTTTAAAAAGTTTTAAATGA
* **
14323746 AAATCTTTAAGGAGTTTTAAATGA
1 GAATCTTTAAAAAGTTTTAAATGA
* * *
14323770 GAATCTTT---GAGCTTTGAATGA
1 GAATCTTTAAAAAGTTTTAAATGA
*
14323791 GAATCTTTAAAGAGTTTTAAATGA
1 GAATCTTTAAAAAGTTTTAAATGA
* * *
14323815 AAATCTTTAAGAAGTTTTGAATGA
1 GAATCTTTAAAAAGTTTTAAATGA
14323839 GAAT
1 GAAT
14323843 ATTTGATTGA
Statistics
Matches: 100, Mismatches: 18, Indels: 6
0.81 0.15 0.05
Matches are distributed among these distances:
21 19 0.19
24 81 0.81
ACGTcount: A:0.43, C:0.04, G:0.15, T:0.38
Consensus pattern (24 bp):
GAATCTTTAAAAAGTTTTAAATGA
Found at i:14323797 original size:69 final size:69
Alignment explanation
Indices: 14323717--14323848 Score: 210
Period size: 69 Copynumber: 1.9 Consensus size: 69
14323707 AAAAGTTTTA
* *
14323717 AATGAGAATCTTTAAAAAATTTTAAATAAAAATCTTTAAGGAGTTTTAAATGAGAATCTTTGAGC
1 AATGAGAATCTTTAAAAAATTTTAAATAAAAATCTTTAAGAAGTTTTAAATGAGAATATTTGAGC
14323782 TTTG
66 TTTG
* * * *
14323786 AATGAGAATCTTTAAAGAGTTTTAAATGAAAATCTTTAAGAAGTTTTGAATGAGAATATTTGA
1 AATGAGAATCTTTAAAAAATTTTAAATAAAAATCTTTAAGAAGTTTTAAATGAGAATATTTGA
14323849 TTGAAAATCT
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
69 57 1.00
ACGTcount: A:0.42, C:0.05, G:0.16, T:0.37
Consensus pattern (69 bp):
AATGAGAATCTTTAAAAAATTTTAAATAAAAATCTTTAAGAAGTTTTAAATGAGAATATTTGAGC
TTTG
Found at i:14324445 original size:31 final size:31
Alignment explanation
Indices: 14324407--14324492 Score: 111
Period size: 30 Copynumber: 2.8 Consensus size: 31
14324397 TCTTGTGAAT
14324407 CTAAAATTTTGAGAATCAAATTCTTGCAAAA
1 CTAAAATTTTGAGAATCAAATTCTTGCAAAA
* * **
14324438 TTGAAATTTTGAGAAT-AAATTCTTGTGAAA
1 CTAAAATTTTGAGAATCAAATTCTTGCAAAA
* *
14324468 CTAAAATCTTGATAATCAAATTCTT
1 CTAAAATTTTGAGAATCAAATTCTT
14324493 TGCGAATTTG
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
30 24 0.52
31 22 0.48
ACGTcount: A:0.42, C:0.10, G:0.10, T:0.37
Consensus pattern (31 bp):
CTAAAATTTTGAGAATCAAATTCTTGCAAAA
Found at i:14324544 original size:17 final size:18
Alignment explanation
Indices: 14324515--14324548 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
14324505 AATCATTATG
14324515 AATATGAAAATTTTTGCA
1 AATATGAAAATTTTTGCA
14324533 AATATG-AAATTTTTGC
1 AATATGAAAATTTTTGC
14324549 GAATCTAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.41, C:0.06, G:0.12, T:0.41
Consensus pattern (18 bp):
AATATGAAAATTTTTGCA
Found at i:14324561 original size:18 final size:17
Alignment explanation
Indices: 14324515--14324558 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
14324505 AATCATTATG
14324515 AATATGAAAATTTTTGCA
1 AATAT-AAAATTTTTGCA
* *
14324533 AATATGAAATTTTTGCG
1 AATATAAAATTTTTGCA
*
14324550 AATCTAAAA
1 AATATAAAA
14324559 ATTATTATGA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 17 0.77
18 5 0.23
ACGTcount: A:0.45, C:0.07, G:0.11, T:0.36
Consensus pattern (17 bp):
AATATAAAATTTTTGCA
Done.