Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D02
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: 67659327
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 461372 characters in sequence are not A, C, G, or T
File 141 of 216
Found at i:44735120 original size:175 final size:173
Alignment explanation
Indices: 44734807--44735124 Score: 465
Period size: 175 Copynumber: 1.8 Consensus size: 173
44734797 ACTATTCATA
* *
44734807 GACTAAACTGAATAAATCATGGATTTTGGGCAAAATCGTAAAGTAAGGGTCACATAGTGGTGTGG
1 GACTAAACTAAATAAATCATGGATTTTGGGCAAAATCATAAAGTAAGGGTCACATAGTGGTGTGG
** * * * *
44734872 CCCGGCCATGTGAAAGGCTATAGGCCATGTGGAAAGGTTACACAACTGTGTGGCCAGGTCGTGTA
66 CCAAGCCATGTGAAAGGCTATAGGCCATGTGGAAAGGTTACACAACCGTGTGGCCAAGCCATGTA
44734937 ACAGACTGTGGTCATGTCTAATACAATTCGAGGATTATTTAGG
131 ACAGACTGTGGTCATGTCTAATACAATTCGAGGATTATTTAGG
* *
44734980 GACTAAACTAAATAAATCATGGATTTTTGGGCAAAATCATAAAGTAGGGGTCATATAGTGGTGTG
1 GACTAAACTAAATAAATCATGGA-TTTTGGGCAAAATCATAAAGTAAGGGTCACATAGTGGTGTG
* * ** * *
44735045 GCCAAAGCCATGTGAGAGGCTGTAGGCTGTGTGGAAGGGTTACACAGCCGTGTGGCCAAGCCATG
65 GCC-AAGCCATGTGAAAGGCTATAGGCCATGTGGAAAGGTTACACAACCGTGTGGCCAAGCCATG
*
44735110 TAATAGACTGTGGTC
129 TAACAGACTGTGGTC
44735125 GTGTGACAAT
Statistics
Matches: 126, Mismatches: 17, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
173 22 0.17
174 41 0.33
175 63 0.50
ACGTcount: A:0.30, C:0.15, G:0.29, T:0.25
Consensus pattern (173 bp):
GACTAAACTAAATAAATCATGGATTTTGGGCAAAATCATAAAGTAAGGGTCACATAGTGGTGTGG
CCAAGCCATGTGAAAGGCTATAGGCCATGTGGAAAGGTTACACAACCGTGTGGCCAAGCCATGTA
ACAGACTGTGGTCATGTCTAATACAATTCGAGGATTATTTAGG
Found at i:44741202 original size:17 final size:19
Alignment explanation
Indices: 44741163--44741202 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
44741153 AATACATACA
44741163 TTAATCCAATCAAGAAAAC
1 TTAATCCAATCAAGAAAAC
*
44741182 TTAATCCAA-CAA-AAAAG
1 TTAATCCAATCAAGAAAAC
44741199 TTAA
1 TTAA
44741203 ATTCATCAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 8 0.40
18 3 0.15
19 9 0.45
ACGTcount: A:0.55, C:0.17, G:0.05, T:0.23
Consensus pattern (19 bp):
TTAATCCAATCAAGAAAAC
Found at i:44744046 original size:54 final size:54
Alignment explanation
Indices: 44743946--44744048 Score: 145
Period size: 54 Copynumber: 1.9 Consensus size: 54
44743936 TTGCTGTTAT
* * *
44743946 CATTTTATTGTAATTATCTGTGCAATTTAATTGATGCACCATAATTACTATTAC
1 CATTTTATTGTAATTATCTATGCAATTTAATCGATGCACCACAATTACTATTAC
* *
44744000 CATTTTATTGTAATTA-CTCATGCAATTTAATCGATGGATCACAATTACT
1 CATTTTATTGTAATTATCT-ATGCAATTTAATCGATGCACCACAATTACT
44744049 TTTAATTTTA
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
53 2 0.05
54 41 0.95
ACGTcount: A:0.32, C:0.16, G:0.10, T:0.43
Consensus pattern (54 bp):
CATTTTATTGTAATTATCTATGCAATTTAATCGATGCACCACAATTACTATTAC
Found at i:44744054 original size:135 final size:135
Alignment explanation
Indices: 44743875--44744180 Score: 429
Period size: 135 Copynumber: 2.3 Consensus size: 135
44743865 ATTTTTGTGA
* * *
44743875 TAATTAATCATGCAATTTAATTGATGCACCACAATTGTTGTTAATTTTAAAAA-ATGATCAATTG
1 TAATTACTCATGCAATTTAATTGATGCACCACAATTCTTGTTAATTTTAAAAACAAG-TCAATT-
* * ** *
44743939 C-TGTTATCATTTTATTGTAATTATCTGTGCAATTTAATTGATGCACCATAATTACTATTACCAT
64 CTTGTTATCACTTTATTGTAATTACCCATGCAATTTAATTGATGCACCACAATTACTATTACCAT
44744003 TTTATTG
129 TTTATTG
* * * *
44744010 TAATTACTCATGCAATTTAATCGATGGATCACAATTACTT-TTAATTTTAAAAACAAGTCTATTC
1 TAATTACTCATGCAATTTAATTGATGCACCACAATT-CTTGTTAATTTTAAAAACAAGTCAATTC
* * *
44744074 TTGTTATCACTTTATTGTAATTACCCATGCAATTTAATTGATGCACCACAATTATTGTTATCATT
65 TTGTTATCACTTTATTGTAATTACCCATGCAATTTAATTGATGCACCACAATTACTATTACCATT
44744139 TTATTG
130 TTATTG
44744145 TAATTACTCATGCAATTTAATTGATGCACCACAATT
1 TAATTACTCATGCAATTTAATTGATGCACCACAATT
44744181 TAATTAAAAG
Statistics
Matches: 150, Mismatches: 18, Indels: 6
0.86 0.10 0.03
Matches are distributed among these distances:
134 1 0.01
135 145 0.97
136 4 0.03
ACGTcount: A:0.33, C:0.15, G:0.09, T:0.42
Consensus pattern (135 bp):
TAATTACTCATGCAATTTAATTGATGCACCACAATTCTTGTTAATTTTAAAAACAAGTCAATTCT
TGTTATCACTTTATTGTAATTACCCATGCAATTTAATTGATGCACCACAATTACTATTACCATTT
TATTG
Found at i:44744134 original size:54 final size:54
Alignment explanation
Indices: 44744074--44744180 Score: 196
Period size: 54 Copynumber: 2.0 Consensus size: 54
44744064 AAGTCTATTC
44744074 TTGTTATCACTTTATTGTAATTACCCATGCAATTTAATTGATGCACCACAATTA
1 TTGTTATCACTTTATTGTAATTACCCATGCAATTTAATTGATGCACCACAATTA
* *
44744128 TTGTTATCATTTTATTGTAATTACTCATGCAATTTAATTGATGCACCACAATT
1 TTGTTATCACTTTATTGTAATTACCCATGCAATTTAATTGATGCACCACAATT
44744181 TAATTAAAAG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 51 1.00
ACGTcount: A:0.31, C:0.17, G:0.09, T:0.43
Consensus pattern (54 bp):
TTGTTATCACTTTATTGTAATTACCCATGCAATTTAATTGATGCACCACAATTA
Found at i:44747034 original size:5 final size:5
Alignment explanation
Indices: 44747019--44747048 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
44747009 TTTTAAAACA
44747019 AAAAT ATAAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT A-AAAT AAAAT AAAAT AAAAT AAAA
44747049 ATAAGTTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 19 0.79
6 5 0.21
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:44747049 original size:11 final size:11
Alignment explanation
Indices: 44747019--44747052 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
44747009 TTTTAAAACA
*
44747019 AAAATATAAAT
1 AAAATAAAAAT
44747030 AAAAT-AAAAT
1 AAAATAAAAAT
44747040 AAAATAAAAAT
1 AAAATAAAAAT
44747051 AA
1 AA
44747053 GTTAATTCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 9 0.43
11 12 0.57
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (11 bp):
AAAATAAAAAT
Found at i:44755008 original size:87 final size:87
Alignment explanation
Indices: 44754861--44755126 Score: 340
Period size: 86 Copynumber: 3.1 Consensus size: 87
44754851 AAACCACTGC
* * * *
44754861 TTATTTG-CAGTTATTGCCACTTGTTGTGGGTGCACAACATATTTGTAGATTAAACAAACTGCCA
1 TTATTTGTAAGTTACTGCCACTTGTTGTGAGTGCACAACATATTTGTAGATTAAACAAACTGCTA
* *
44754925 CTTGGTTCATGATCGAACAACA
66 CTTGGTTCATAATCGAACCACA
* * * *
44754947 TATATTT-TAAGTTACTGCCACTTGTTGTGAGTGCACAAAATATTTGCAGATTAAATAAACTGTT
1 T-TATTTGTAAGTTACTGCCACTTGTTGTGAGTGCACAACATATTTGTAGATTAAACAAACTGCT
* **
44755011 GCTTGGTTCATAATATAACCACA
65 ACTTGGTTCATAATCGAACCACA
* * * *
44755034 TTGTTTGTAA-TTACGGCCACTTGTTGTGAGTGCATAACATATTTGTAAATTAAACAAACTGCTA
1 TTATTTGTAAGTTACTGCCACTTGTTGTGAGTGCACAACATATTTGTAGATTAAACAAACTGCTA
*
44755098 CTTGGTTAATAATCGAACCACA
66 CTTGGTTCATAATCGAACCACA
44755120 TTATTTG
1 TTATTTG
44755127 CATATTAAAC
Statistics
Matches: 151, Mismatches: 26, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
86 76 0.50
87 75 0.50
ACGTcount: A:0.31, C:0.16, G:0.17, T:0.36
Consensus pattern (87 bp):
TTATTTGTAAGTTACTGCCACTTGTTGTGAGTGCACAACATATTTGTAGATTAAACAAACTGCTA
CTTGGTTCATAATCGAACCACA
Found at i:44760618 original size:2 final size:2
Alignment explanation
Indices: 44760611--44760651 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
44760601 ATCTCATGGA
44760611 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
44760652 TATCATGGCA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:44762499 original size:13 final size:15
Alignment explanation
Indices: 44762470--44762502 Score: 52
Period size: 13 Copynumber: 2.3 Consensus size: 15
44762460 TTGGATACCA
44762470 AAATTGCAACACAAC
1 AAATTGCAACACAAC
44762485 AAATTGC-AC-CAAC
1 AAATTGCAACACAAC
44762498 AAATT
1 AAATT
44762503 TGTTTACCGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 9 0.50
14 2 0.11
15 7 0.39
ACGTcount: A:0.52, C:0.24, G:0.06, T:0.18
Consensus pattern (15 bp):
AAATTGCAACACAAC
Found at i:44762610 original size:5 final size:5
Alignment explanation
Indices: 44762600--44762638 Score: 51
Period size: 5 Copynumber: 7.4 Consensus size: 5
44762590 GATTTTTGGG
*
44762600 AATAA AATAA AATAAA AATAA AATAA ACTCAA AATAA AA
1 AATAA AATAA AAT-AA AATAA AATAA AAT-AA AATAA AA
44762639 ATCCCACTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
5 21 0.70
6 9 0.30
ACGTcount: A:0.77, C:0.05, G:0.00, T:0.18
Consensus pattern (5 bp):
AATAA
Found at i:44762619 original size:11 final size:11
Alignment explanation
Indices: 44762603--44762640 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
44762593 TTTTGGGAAT
44762603 AAAATAAAATA
1 AAAATAAAATA
44762614 AAAATAAAAT-
1 AAAATAAAATA
*
44762624 AAACTCAAAATA
1 AAAAT-AAAATA
44762636 AAAAT
1 AAAAT
44762641 CCCACTATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
10 4 0.17
11 15 0.65
12 4 0.17
ACGTcount: A:0.76, C:0.05, G:0.00, T:0.18
Consensus pattern (11 bp):
AAAATAAAATA
Found at i:44762621 original size:16 final size:16
Alignment explanation
Indices: 44762600--44762638 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
44762590 GATTTTTGGG
44762600 AATAAAATAAAATAAA
1 AATAAAATAAAATAAA
* *
44762616 AATAAAATAAACTCAA
1 AATAAAATAAAATAAA
44762632 AATAAAA
1 AATAAAA
44762639 ATCCCACTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.77, C:0.05, G:0.00, T:0.18
Consensus pattern (16 bp):
AATAAAATAAAATAAA
Found at i:44764616 original size:23 final size:24
Alignment explanation
Indices: 44764573--44764633 Score: 65
Period size: 23 Copynumber: 2.7 Consensus size: 24
44764563 AATTGATGAT
* **
44764573 ATAAATATAT-TTATTTTAAAT-A
1 ATAAATAAATATTATTAAAAATAA
44764595 ATAAATAAATATTATTAAAAATAA
1 ATAAATAAATATTATTAAAAATAA
*
44764619 ATAGATAAA-ATTATT
1 ATAAATAAATATTATT
44764634 TTCTTGTTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
22 9 0.27
23 15 0.45
24 9 0.27
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (24 bp):
ATAAATAAATATTATTAAAAATAA
Found at i:44764617 original size:20 final size:20
Alignment explanation
Indices: 44764584--44764621 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
44764574 TAAATATATT
44764584 TATTTTAAATAATAAATAAA
1 TATTTTAAATAATAAATAAA
44764604 TATTATTAAA-AATAAATA
1 TATT-TTAAATAATAAATA
44764622 GATAAAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (20 bp):
TATTTTAAATAATAAATAAA
Found at i:44764631 original size:20 final size:21
Alignment explanation
Indices: 44764588--44764631 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
44764578 TATATTTATT
**
44764588 TTAAATAATAAATAAATATTA
1 TTAAATAATAAATAAATAAAA
*
44764609 TTAAA-AATAAATAGATAAAA
1 TTAAATAATAAATAAATAAAA
44764629 TTA
1 TTA
44764632 TTTTCTTGTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (21 bp):
TTAAATAATAAATAAATAAAA
Found at i:44768139 original size:20 final size:20
Alignment explanation
Indices: 44768114--44768153 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
44768104 CGAAAAATGA
*
44768114 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
44768134 TTTCTGGAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
44768154 GGAAAATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.28, C:0.10, G:0.15, T:0.47
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:44768284 original size:40 final size:40
Alignment explanation
Indices: 44768240--44768367 Score: 123
Period size: 40 Copynumber: 3.4 Consensus size: 40
44768230 TCCGAAAAAG
44768240 TTGTTTTTACATATATATTAATAATTTTTTATATTTTAAA
1 TTGTTTTTACATATATATTAATAATTTTTTATATTTTAAA
* * * *
44768280 TTGTTTTTACATATAT-TGCAATGATTTTGTTGT-TTTTACA
1 TTGTTTTTACATATATAT-TAATAATTTT-TTATATTTTAAA
44768320 -------TA-ATATATATTAATAATTTTTTATATTTTAAA
1 TTGTTTTTACATATATATTAATAATTTTTTATATTTTAAA
*
44768352 TTATTTTTACATATAT
1 TTGTTTTTACATATAT
44768368 TGCAATGATT
Statistics
Matches: 68, Mismatches: 8, Indels: 24
0.68 0.08 0.24
Matches are distributed among these distances:
31 3 0.04
32 20 0.29
33 3 0.04
39 3 0.04
40 36 0.53
41 3 0.04
ACGTcount: A:0.33, C:0.04, G:0.05, T:0.59
Consensus pattern (40 bp):
TTGTTTTTACATATATATTAATAATTTTTTATATTTTAAA
Found at i:44768336 original size:72 final size:69
Alignment explanation
Indices: 44768239--44768379 Score: 246
Period size: 72 Copynumber: 2.0 Consensus size: 69
44768229 TTCCGAAAAA
*
44768239 GTTGTTTTTACATATATATTAATAATTTTTTATATTTTAAATTGTTTTTACATATATTGCAATGA
1 GTTGTTTTTACATATATATTAATAATTTTTTATATTTTAAATTATTTTTACATATATTGCAATGA
44768304 TTTT
66 TTTT
44768308 GTTGTTTTTACATAATATATATTAATAATTTTTTATATTTTAAATTATTTTTACATATATTGCAA
1 GTTGTTTTTAC---ATATATATTAATAATTTTTTATATTTTAAATTATTTTTACATATATTGCAA
44768373 TGATTTT
63 TGATTTT
44768380 ATAATCAAAT
Statistics
Matches: 68, Mismatches: 1, Indels: 3
0.94 0.01 0.04
Matches are distributed among these distances:
69 11 0.16
72 57 0.84
ACGTcount: A:0.32, C:0.04, G:0.06, T:0.57
Consensus pattern (69 bp):
GTTGTTTTTACATATATATTAATAATTTTTTATATTTTAAATTATTTTTACATATATTGCAATGA
TTTT
Found at i:44768500 original size:34 final size:32
Alignment explanation
Indices: 44768452--44768514 Score: 108
Period size: 34 Copynumber: 1.9 Consensus size: 32
44768442 TGAAAACAAC
44768452 TAATATCAATATTTGTAATTGTGTTAAAATAA
1 TAATATCAATATTTGTAATTGTGTTAAAATAA
44768484 TAATACTCAATTATTTGTAATTGTGTTAAAA
1 TAATA-TCAA-TATTTGTAATTGTGTTAAAA
44768515 ACAATAAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 5 0.17
33 4 0.14
34 20 0.69
ACGTcount: A:0.41, C:0.05, G:0.10, T:0.44
Consensus pattern (32 bp):
TAATATCAATATTTGTAATTGTGTTAAAATAA
Found at i:44770737 original size:13 final size:13
Alignment explanation
Indices: 44770719--44770743 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
44770709 TACCTTTCTA
44770719 AAGAAAGTCTGCG
1 AAGAAAGTCTGCG
44770732 AAGAAAGTCTGC
1 AAGAAAGTCTGC
44770744 CCAAGATAAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.16, G:0.28, T:0.16
Consensus pattern (13 bp):
AAGAAAGTCTGCG
Found at i:44779633 original size:38 final size:38
Alignment explanation
Indices: 44779582--44779705 Score: 230
Period size: 38 Copynumber: 3.3 Consensus size: 38
44779572 GTACTATTTG
44779582 GAGTGTAGGGATGGGTGGGTTGATTATATCCCCACATT
1 GAGTGTAGGGATGGGTGGGTTGATTATATCCCCACATT
44779620 GAGTGTAGGGATGGGTGGGTTGATTATATCCCCACATT
1 GAGTGTAGGGATGGGTGGGTTGATTATATCCCCACATT
* *
44779658 GAGTGTAGGGATGGGTGGGTTGATTATATCCTCACATG
1 GAGTGTAGGGATGGGTGGGTTGATTATATCCCCACATT
44779696 GAGTGTAGGG
1 GAGTGTAGGG
44779706 TTGGATGGAG
Statistics
Matches: 84, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 84 1.00
ACGTcount: A:0.21, C:0.11, G:0.37, T:0.31
Consensus pattern (38 bp):
GAGTGTAGGGATGGGTGGGTTGATTATATCCCCACATT
Found at i:44780931 original size:58 final size:59
Alignment explanation
Indices: 44780863--44780976 Score: 185
Period size: 58 Copynumber: 1.9 Consensus size: 59
44780853 TTTTAAATGA
*
44780863 GTTTTGTTTTAAAAATAAATAAAATCAAGTAATTAATATATGATGTTTTAT-CTTTTTG
1 GTTTTGTTTTAAAAATAAATAAAATAAAGTAATTAATATATGATGTTTTATACTTTTTG
* * *
44780921 GTTTTGTTTTAAAAATAAATAAAATAAAGTATTTAATATATGTTTTTTTATACTTT
1 GTTTTGTTTTAAAAATAAATAAAATAAAGTAATTAATATATGATGTTTTATACTTT
44780977 CCTTTTTAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
58 47 0.92
59 4 0.08
ACGTcount: A:0.39, C:0.03, G:0.09, T:0.50
Consensus pattern (59 bp):
GTTTTGTTTTAAAAATAAATAAAATAAAGTAATTAATATATGATGTTTTATACTTTTTG
Found at i:44791811 original size:44 final size:44
Alignment explanation
Indices: 44791745--44791856 Score: 170
Period size: 44 Copynumber: 2.5 Consensus size: 44
44791735 AAATAACAAA
* *
44791745 CCTAGATCCTTGACCAGCAGTGGAATAGGTTGAAGATTGCAAGT
1 CCTAGCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGCAAGT
*
44791789 CCTAGCTCCCTGACCAGTAGTGGAATAGGTTGAAGATTGCAAGT
1 CCTAGCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGCAAGT
* **
44791833 CCTATCTCCCTGGTCAGCAGTGGA
1 CCTAGCTCCCTGACCAGCAGTGGA
44791857 GTGGGTGCAA
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 61 1.00
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (44 bp):
CCTAGCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGCAAGT
Found at i:44791983 original size:128 final size:128
Alignment explanation
Indices: 44791828--44792356 Score: 801
Period size: 128 Copynumber: 4.1 Consensus size: 128
44791818 TTGAAGATTG
*
44791828 CAAGTCCTATCTCCCTGGTCAGCAGTGGAGT-GGGTGCAAAATTACAGATCTTGTCTCCCTAAGC
1 CAAGTCCTATCTCCCTGGTCAGCAGTGGAGTAGGTTG-AAAATTACAGATCTTGTCTCCCTAAGC
* *
44791892 AGTAGCGGAGCAGATTGAAGACGGTGAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCCA
65 AGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCCA
* * *
44791956 CAAGTCCTATATCCCTGGTCAGCAGTGGAATATGTTGAAAATTACAGATCTTGTCTCCCTAAGCA
1 CAAGTCCTATCTCCCTGGTCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTGTCTCCCTAAGCA
* * * * *
44792021 GTAGTGGAGCAAATCAAAGACGGCGAATCTTTTCTTCAAGTGCAAGGAAGCAGATTTAAGCCA
66 GTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCCA
* ** *
44792084 CAAGTCCTATGTCCCTGACCAGCAGTGGAGTAGGTTGGAAATTACAGATCTTGTCTCCCTAAGCA
1 CAAGTCCTATCTCCCTGGTCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTGTCTCCCTAAGCA
*
44792149 GTAGCGGAGCAGATCGAAGACGGTGAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCCA
66 GTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCCA
* * * * *
44792212 CAAGTCCTATGTCCCTGGTTAGCAGTGGAGTAGGTTGGAAATTATAGATCTCGTCTCCCTAAGCA
1 CAAGTCCTATCTCCCTGGTCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTGTCTCCCTAAGCA
* * *
44792277 GTAGCGGAGCAGATCGAAAACGGCAAATCTTATCTTCAAGTGTAAGGAAGCAGATTGAAGCCGA
66 GTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCC-A
*
44792341 TAA-TCCTATCTCCCTG
1 CAAGTCCTATCTCCCTG
44792357 AAGTTGTAGT
Statistics
Matches: 365, Mismatches: 34, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
128 359 0.98
129 6 0.02
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.25
Consensus pattern (128 bp):
CAAGTCCTATCTCCCTGGTCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTGTCTCCCTAAGCA
GTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCCA
Found at i:44796928 original size:25 final size:25
Alignment explanation
Indices: 44796891--44796938 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
44796881 GTTATAACCA
*
44796891 TTTTTTATGATACGCAAATTAAGTG
1 TTTTTTATAATACGCAAATTAAGTG
*
44796916 TTTTTTATAATACGTAAATTAAG
1 TTTTTTATAATACGCAAATTAAG
44796939 CCAAAAATGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.35, C:0.06, G:0.12, T:0.46
Consensus pattern (25 bp):
TTTTTTATAATACGCAAATTAAGTG
Found at i:44801656 original size:44 final size:44
Alignment explanation
Indices: 44801518--44801659 Score: 126
Period size: 44 Copynumber: 3.1 Consensus size: 44
44801508 ATGGGGATGA
* * * *
44801518 GATTTGTGGTTTTAGTCTGCTCCACTGCAACTTCAGGGAGATAA
1 GATTTATGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAG
* *
44801562 GACTTTTTATGGTAAATTTAATCCGAC-CTACTGCAACTTCAGAGG-TATAG
1 GA---TTTATGGT---TTTAATCCG-CTCCACTGCAACTTCAG-GGAGATAG
* *
44801612 GATTTATGGTTTTAATCCGCTCCACTGAAACTTAAGGGAGATAG
1 GATTTATGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAG
44801656 GATT
1 GATT
44801660 GGTCTCTTCT
Statistics
Matches: 78, Mismatches: 10, Indels: 20
0.72 0.09 0.19
Matches are distributed among these distances:
43 3 0.04
44 31 0.40
47 15 0.19
50 26 0.33
51 3 0.04
ACGTcount: A:0.27, C:0.17, G:0.22, T:0.34
Consensus pattern (44 bp):
GATTTATGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAG
Found at i:44801725 original size:40 final size:40
Alignment explanation
Indices: 44801671--44802162 Score: 209
Period size: 40 Copynumber: 11.7 Consensus size: 40
44801661 GTCTCTTCTG
*
44801671 TCTGCTCCACTACTGCTTAAGGAGATAAGACTGGATGTGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTGGATGTGA
* * * *
44801711 TCTGCTCCACTACTGCTTAGGGAGATAACATCTGTGGTTTTAA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGA-C--TGGATGTGA
** * ** * * * *
44801754 TCCACTCCACTGCAACTTCAGGGAGATAGGA-TTGATTTCTTCTA
1 TCTGCTCCACTACTGCTT-AGGGAGATAAGACTGGA--T-GT-GA
* * *
44801798 TCTGTTCCACTAATGCTTAGGGAGATAAGACTGGATGCGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTGGATGTGA
* * * *
44801838 TCTGCTCCACTGCTGCTTAGGGAGATAAGATCTGTGGTTTTAA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGA-C--TGGATGTGA
* * ** * * *
44801881 TCCGCTCCACTGCAACTTCAGGGAGATAGGA-TTGATTTCTTCTG-
1 TCTGCTCCACTACTGCTT-AGGGAGATAAGACTGGA-----TGTGA
*
44801925 TCTGCTCCACTACTGCTTAGGGAGATAAGACTGGATGCGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTGGATGTGA
* * * *
44801965 TCTGCTCCACTACTGCTTAAGGAGATAAGATCAGTGGTTTTAA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGA-C--TGGATGTGA
* ** * ** * * * **
44802008 TCCGCAACACTGCAACTTCAGGGAGATATGA-TTGATTTCT
1 TCTGCTCCACTACTGCTT-AGGGAGATAAGACTGGATGTGA
* * *
44802048 TCTGTCTACTCCACTACCGTTTAGGGAGATAAGACTGAATGTGA
1 TCTG----CTCCACTACTGCTTAGGGAGATAAGACTGGATGTGA
* * * * *
44802092 TCTCCTCCACTACTGCTTAGGAAGATAAGATCTGTGGTTTTAA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGA-C--TGGATGTGA
**
44802135 TCTGCTCCACTACAACTTCAGGGAGATA
1 TCTGCTCCACTACTGCTT-AGGGAGATA
44802163 GAATTGATTT
Statistics
Matches: 327, Mismatches: 92, Indels: 62
0.68 0.19 0.13
Matches are distributed among these distances:
39 2 0.01
40 120 0.37
41 4 0.01
42 2 0.01
43 111 0.34
44 86 0.26
45 2 0.01
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.31
Consensus pattern (40 bp):
TCTGCTCCACTACTGCTTAGGGAGATAAGACTGGATGTGA
Found at i:44801844 original size:127 final size:127
Alignment explanation
Indices: 44801618--44802172 Score: 867
Period size: 127 Copynumber: 4.4 Consensus size: 127
44801608 ATAGGATTTA
* * * *
44801618 TGGTTTTAATCCGCTCCACTGAAACTTAAGGGAGATAGGATTGGTCTCTTCTGTCTGCTCCACTA
1 TGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGATTTCTTCTGTCTGCTCCACTA
* * *
44801683 CTGCTTAAGGAGATAAGACTGGATGTGATCTGCTCCACTACTGCTTAGGGAGATAACATCTG
66 CTGCTTAGGGAGATAAGACTGGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTG
* * *
44801745 TGGTTTTAATCCACTCCACTGCAACTTCAGGGAGATAGGATTGATTTCTTCTATCTGTTCCACTA
1 TGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGATTTCTTCTGTCTGCTCCACTA
* *
44801810 ATGCTTAGGGAGATAAGACTGGATGCGATCTGCTCCACTGCTGCTTAGGGAGATAAGATCTG
66 CTGCTTAGGGAGATAAGACTGGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTG
44801872 TGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGATTTCTTCTGTCTGCTCCACTA
1 TGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGATTTCTTCTGTCTGCTCCACTA
* *
44801937 CTGCTTAGGGAGATAAGACTGGATGCGATCTGCTCCACTACTGCTTAAGGAGATAAGATCAG
66 CTGCTTAGGGAGATAAGACTGGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTG
** * *
44801999 TGGTTTTAATCCGCAACACTGCAACTTCAGGGAGATATGATTGATTTCTTCTGTCTACTCCACTA
1 TGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGATTTCTTCTGTCTGCTCCACTA
* * * * * *
44802064 CCGTTTAGGGAGATAAGACTGAATGTGATCTCCTCCACTACTGCTTAGGAAGATAAGATCTG
66 CTGCTTAGGGAGATAAGACTGGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTG
* * *
44802126 TGGTTTTAATCTGCTCCACTACAACTTCAGGGAGATAGAATTGATTT
1 TGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGATTT
44802173 TTTTTCTTTT
Statistics
Matches: 391, Mismatches: 37, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
127 391 1.00
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.31
Consensus pattern (127 bp):
TGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGATTTCTTCTGTCTGCTCCACTA
CTGCTTAGGGAGATAAGACTGGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTG
Found at i:44802301 original size:50 final size:50
Alignment explanation
Indices: 44802247--44802693 Score: 157
Period size: 50 Copynumber: 8.9 Consensus size: 50
44802237 ACACCACTAA
* *
44802247 GGAAGTAAGATTCACCGTTGCGGCTTCAATCTTTTTAATTGCAATGTCGGGG
1 GGAAGTAAGATTCGCCGTTGCGGCTTCAATCTTTTCAATTGCAATGTC--GG
* * * ** * ** * * * * *
44802299 AAGGAAGCAAGATTCACCGTCGTAGCTTTAATCTGCTCCACTGCACTGCCAG
1 --GGAAGTAAGATTCGCCGTTGCGGCTTCAATCTTTTCAATTGCAATGTCGG
** ** *
44802351 AAAAGTAAGATTCGCCGTTGCGGCTTCAATCTTTGAAATTACAATGTCGG
1 GGAAGTAAGATTCGCCGTTGCGGCTTCAATCTTTTCAATTGCAATGTCGG
* * * ** * * * * ** * *
44802401 GGAAGCAAGATTCGCCATCGTAGCTTTAAT-TTGCTCCACTGCACCGCCAG
1 GGAAGTAAGATTCGCCGTTGCGGCTTCAATCTT-TTCAATTGCAATGTCGG
* * *
44802451 GAAAGTAAGATTCGCCATTGCGGCTTCAATCTTTTTAATTGCAATGTCGG
1 GGAAGTAAGATTCGCCGTTGCGGCTTCAATCTTTTCAATTGCAATGTCGG
** * ** * ** * * ** * *
44802501 GGAAGCT----TTCGCTATCGTAGCTTTAATCTGCTCCACTGCACCGCCAG
1 GGAAG-TAAGATTCGCCGTTGCGGCTTCAATCTTTTCAATTGCAATGTCGG
** * *
44802548 AAAAGTAAGATTCACCGTTGCGGCTTCAATCTTTTAAATTGCAATGTCGG
1 GGAAGTAAGATTCGCCGTTGCGGCTTCAATCTTTTCAATTGCAATGTCGG
* * * * ** * * * * ** * *
44802598 GGAAGCAAGATTCGACATCGTAGCTTTAATCTGTTCCACTGCACCGCCAG
1 GGAAGTAAGATTCGCCGTTGCGGCTTCAATCTTTTCAATTGCAATGTCGG
* * * *
44802648 GAAAGTAAGATTCGCCATTGCGGCTTCAATCTTTTTAATTGTAATG
1 GGAAGTAAGATTCGCCGTTGCGGCTTCAATCTTTTCAATTGCAATG
44802694 GTGGGTATGA
Statistics
Matches: 258, Mismatches: 128, Indels: 18
0.64 0.32 0.04
Matches are distributed among these distances:
46 1 0.00
47 29 0.11
49 2 0.01
50 186 0.72
51 3 0.01
52 1 0.00
54 36 0.14
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (50 bp):
GGAAGTAAGATTCGCCGTTGCGGCTTCAATCTTTTCAATTGCAATGTCGG
Found at i:44802456 original size:100 final size:100
Alignment explanation
Indices: 44802249--44802693 Score: 653
Period size: 100 Copynumber: 4.4 Consensus size: 100
44802239 ACCACTAAGG
* *
44802249 AAGTAAGATTCACCGTTGCGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGGAAGCAAGATTC
1 AAGTAAGATTCGCCGTTGCGGCTTCAATCTTTTAAATTGCAATGTC--GG--GGAAGCAAGATTC
* * *
44802314 ACCGTCGTAGCTTTAATCTGCTCCACTGCACTGCCAGAA
62 GCCATCGTAGCTTTAATCTGCTCCACTGCACCGCCAGAA
* *
44802353 AAGTAAGATTCGCCGTTGCGGCTTCAATCTTTGAAATTACAATGTCGGGGAAGCAAGATTCGCCA
1 AAGTAAGATTCGCCGTTGCGGCTTCAATCTTTTAAATTGCAATGTCGGGGAAGCAAGATTCGCCA
* *
44802418 TCGTAGCTTTAATTTGCTCCACTGCACCGCCAGGA
66 TCGTAGCTTTAATCTGCTCCACTGCACCGCCAGAA
* * * *
44802453 AAGTAAGATTCGCCATTGCGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGC---TTTCGCTA
1 AAGTAAGATTCGCCGTTGCGGCTTCAATCTTTTAAATTGCAATGTCGGGGAAGCAAGATTCGCCA
44802515 TCGTAGCTTTAATCTGCTCCACTGCACCGCCAGAA
66 TCGTAGCTTTAATCTGCTCCACTGCACCGCCAGAA
* *
44802550 AAGTAAGATTCACCGTTGCGGCTTCAATCTTTTAAATTGCAATGTCGGGGAAGCAAGATTCGACA
1 AAGTAAGATTCGCCGTTGCGGCTTCAATCTTTTAAATTGCAATGTCGGGGAAGCAAGATTCGCCA
* *
44802615 TCGTAGCTTTAATCTGTTCCACTGCACCGCCAGGA
66 TCGTAGCTTTAATCTGCTCCACTGCACCGCCAGAA
* * *
44802650 AAGTAAGATTCGCCATTGCGGCTTCAATCTTTTTAATTGTAATG
1 AAGTAAGATTCGCCGTTGCGGCTTCAATCTTTTAAATTGCAATG
44802694 GTGGGTATGA
Statistics
Matches: 309, Mismatches: 29, Indels: 10
0.89 0.08 0.03
Matches are distributed among these distances:
97 90 0.29
100 175 0.57
102 2 0.01
104 42 0.14
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (100 bp):
AAGTAAGATTCGCCGTTGCGGCTTCAATCTTTTAAATTGCAATGTCGGGGAAGCAAGATTCGCCA
TCGTAGCTTTAATCTGCTCCACTGCACCGCCAGAA
Found at i:44802572 original size:197 final size:200
Alignment explanation
Indices: 44802249--44802693 Score: 707
Period size: 197 Copynumber: 2.2 Consensus size: 200
44802239 ACCACTAAGG
* *
44802249 AAGTAAGATTCACCGTTGCGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGGAAGCAAGATTC
1 AAGTAAGATTCGCCATTGCGGCTTCAATCTTTTTAATTGCAATGTC-GGG-AGGAAGC-A-ATTC
* * *
44802314 ACCGTCGTAGCTTTAATCTGCTCCACTGCACTGCCAGAAAAGTAAGATTCGCCGTTGCGGCTTCA
62 ACCATCGTAGCTTTAATCTGCTCCACTGCACCGCCAGAAAAGTAAGATTCACCGTTGCGGCTTCA
* *
44802379 ATCTTTGAAATTACAATGTCGGGGAAGCAAGATTCGCCATCGTAGCTTTAATTTGCTCCACTGCA
127 ATCTTTGAAATTACAATGTCGGGGAAGCAAGATTCGACATCGTAGCTTTAATCTGCTCCACTGCA
44802444 CCGCCAGGA
192 CCGCCAGGA
* * *
44802453 AAGTAAGATTCGCCATTGCGGCTTCAATCTTTTTAATTGCAATGTC-GG-GGAAGC-TTTCGCTA
1 AAGTAAGATTCGCCATTGCGGCTTCAATCTTTTTAATTGCAATGTCGGGAGGAAGCAATTCACCA
44802515 TCGTAGCTTTAATCTGCTCCACTGCACCGCCAGAAAAGTAAGATTCACCGTTGCGGCTTCAATCT
66 TCGTAGCTTTAATCTGCTCCACTGCACCGCCAGAAAAGTAAGATTCACCGTTGCGGCTTCAATCT
* * *
44802580 TTTAAATTGCAATGTCGGGGAAGCAAGATTCGACATCGTAGCTTTAATCTGTTCCACTGCACCGC
131 TTGAAATTACAATGTCGGGGAAGCAAGATTCGACATCGTAGCTTTAATCTGCTCCACTGCACCGC
44802645 CAGGA
196 CAGGA
*
44802650 AAGTAAGATTCGCCATTGCGGCTTCAATCTTTTTAATTGTAATG
1 AAGTAAGATTCGCCATTGCGGCTTCAATCTTTTTAATTGCAATG
44802694 GTGGGTATGA
Statistics
Matches: 227, Mismatches: 14, Indels: 7
0.92 0.06 0.03
Matches are distributed among these distances:
197 175 0.77
200 6 0.03
202 2 0.01
204 44 0.19
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (200 bp):
AAGTAAGATTCGCCATTGCGGCTTCAATCTTTTTAATTGCAATGTCGGGAGGAAGCAATTCACCA
TCGTAGCTTTAATCTGCTCCACTGCACCGCCAGAAAAGTAAGATTCACCGTTGCGGCTTCAATCT
TTGAAATTACAATGTCGGGGAAGCAAGATTCGACATCGTAGCTTTAATCTGCTCCACTGCACCGC
CAGGA
Found at i:44803702 original size:13 final size:12
Alignment explanation
Indices: 44803673--44803734 Score: 65
Period size: 13 Copynumber: 5.0 Consensus size: 12
44803663 GGCCTCTCAT
44803673 TTTTCTTTTTTC
1 TTTTCTTTTTTC
*
44803685 -GTTCTTCTTTTC
1 TTTTCTT-TTTTC
44803697 TTTTCTTCTTTTC
1 TTTTCTT-TTTTC
44803710 TTTTCATTTTTTC
1 TTTTC-TTTTTTC
44803723 TCTTT-TTTTTTC
1 T-TTTCTTTTTTC
44803735 AAGTGAAGTA
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
11 5 0.11
12 12 0.27
13 22 0.50
14 5 0.11
ACGTcount: A:0.02, C:0.19, G:0.02, T:0.77
Consensus pattern (12 bp):
TTTTCTTTTTTC
Found at i:44803721 original size:21 final size:20
Alignment explanation
Indices: 44803689--44803735 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
44803679 TTTTTCGTTC
*
44803689 TTCTTTTC-TTTTCT-TCTT
1 TTCTTTTCATTTTTTCTCTT
44803707 TTCTTTTCATTTTTTCTCTT
1 TTCTTTTCATTTTTTCTCTT
*
44803727 TTTTTTTCA
1 TTCTTTTCA
44803736 AGTGAAGTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 8 0.32
19 5 0.20
20 12 0.48
ACGTcount: A:0.04, C:0.19, G:0.00, T:0.77
Consensus pattern (20 bp):
TTCTTTTCATTTTTTCTCTT
Found at i:44804196 original size:10 final size:10
Alignment explanation
Indices: 44804183--44804226 Score: 54
Period size: 10 Copynumber: 4.5 Consensus size: 10
44804173 CGTCTTTTGC
*
44804183 TTTTTTGCTT
1 TTTTTTACTT
*
44804193 TTTTTTAC-G
1 TTTTTTACTT
*
44804202 TTTTTTACAT
1 TTTTTTACTT
44804212 TTTTTTACTT
1 TTTTTTACTT
44804222 TTTTT
1 TTTTT
44804227 ACCTCCACTG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
9 8 0.28
10 21 0.72
ACGTcount: A:0.09, C:0.09, G:0.05, T:0.77
Consensus pattern (10 bp):
TTTTTTACTT
Found at i:44804197 original size:9 final size:9
Alignment explanation
Indices: 44804192--44804228 Score: 56
Period size: 9 Copynumber: 4.0 Consensus size: 9
44804182 CTTTTTTGCT
44804192 TTTTTTTAC
1 TTTTTTTAC
*
44804201 GTTTTTTAC
1 TTTTTTTAC
44804210 ATTTTTTTAC
1 -TTTTTTTAC
44804220 TTTTTTTAC
1 TTTTTTTAC
44804229 CTCCACTGTC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
9 17 0.68
10 8 0.32
ACGTcount: A:0.14, C:0.11, G:0.03, T:0.73
Consensus pattern (9 bp):
TTTTTTTAC
Found at i:44804205 original size:19 final size:18
Alignment explanation
Indices: 44804177--44804225 Score: 62
Period size: 19 Copynumber: 2.7 Consensus size: 18
44804167 TTTTCTCGTC
* * *
44804177 TTTTGCTTTTTTGCTTTT
1 TTTTACTTTTTTACATTT
44804195 TTTTACGTTTTTTACATTT
1 TTTTAC-TTTTTTACATTT
44804214 TTTTACTTTTTT
1 TTTTACTTTTTT
44804226 TACCTCCACT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
18 11 0.41
19 16 0.59
ACGTcount: A:0.08, C:0.10, G:0.06, T:0.76
Consensus pattern (18 bp):
TTTTACTTTTTTACATTT
Found at i:44804226 original size:19 final size:19
Alignment explanation
Indices: 44804192--44804228 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
44804182 CTTTTTTGCT
44804192 TTTTTTTACGTTTTTTACA
1 TTTTTTTACGTTTTTTACA
*
44804211 TTTTTTTACTTTTTTTAC
1 TTTTTTTACGTTTTTTAC
44804229 CTCCACTGTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.14, C:0.11, G:0.03, T:0.73
Consensus pattern (19 bp):
TTTTTTTACGTTTTTTACA
Found at i:44807622 original size:8 final size:8
Alignment explanation
Indices: 44807609--44807672 Score: 58
Period size: 8 Copynumber: 7.8 Consensus size: 8
44807599 ACTACATTTT
44807609 AATAAACA
1 AATAAACA
44807617 AATAAACGA
1 AATAAAC-A
*
44807626 AACAAA-A
1 AATAAACA
* *
44807633 TAATTGAATA
1 -AA-TAAACA
*
44807643 AACAAACA
1 AATAAACA
44807651 AATAAACA
1 AATAAACA
44807659 AATAAACA
1 AATAAACA
44807667 AATAAA
1 AATAAA
44807673 TCGATCACAT
Statistics
Matches: 45, Mismatches: 7, Indels: 8
0.75 0.12 0.13
Matches are distributed among these distances:
7 1 0.02
8 33 0.73
9 10 0.22
10 1 0.02
ACGTcount: A:0.72, C:0.11, G:0.03, T:0.14
Consensus pattern (8 bp):
AATAAACA
Found at i:44814557 original size:3 final size:3
Alignment explanation
Indices: 44814549--44814578 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
44814539 TACTATTCTC
44814549 TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
44814579 AACATACATG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 24 0.92
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:44819791 original size:42 final size:42
Alignment explanation
Indices: 44819730--44819841 Score: 190
Period size: 42 Copynumber: 2.7 Consensus size: 42
44819720 AAAAAGGGCG
44819730 GCTCAAATATTGATCAGAATGGGGCATGAGATTATCGGAGCA
1 GCTCAAATATTGATCAGAATGGGGCATGAGATTATCGGAGCA
*
44819772 GCTCAAATATTGATTAGAATGGGGCATGAGATTATCGGAGCA
1 GCTCAAATATTGATCAGAATGGGGCATGAGATTATCGGAGCA
*
44819814 GCTCAAATACTGATCA-AAGTGGGGCATG
1 GCTCAAATATTGATCAGAA-TGGGGCATG
44819842 CAGTGGTCTT
Statistics
Matches: 66, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
41 2 0.03
42 64 0.97
ACGTcount: A:0.33, C:0.14, G:0.29, T:0.24
Consensus pattern (42 bp):
GCTCAAATATTGATCAGAATGGGGCATGAGATTATCGGAGCA
Found at i:44821381 original size:132 final size:132
Alignment explanation
Indices: 44821049--44822698 Score: 2221
Period size: 132 Copynumber: 12.5 Consensus size: 132
44821039 TATAGACAGC
* * * *
44821049 GGAGTAGATTAAAGATGGCGAATTTTACCTCCCTGTGGTTACAGTAGAGTACATTGAAGCCAGTA
1 GGAGCAGATCAAAGATGGTGAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTA
* * * * *
44821114 ATTCTA-CTTCCCTGGGCAGTAGTGGAATAGATTAAAGATTACAGATCTTACCTTCCT--GCA-T
66 ATTCTATC-TCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGT
*
44821175 AGACA
130 AG--T
* * * *
44821180 GCGAAGTAGATCGAAGATGG-CAGATTTTACCT-CCTCGTGGTTATAGTGGAGTACATTGAAGCC
1 G-G-AGCAGATCAAAGATGGTGA-ATTTTACCTCCCT-GTGGTTACAGTGGAGTACATTGAAGCC
* * * * * * *
44821243 AGTAATTTTATTTCCCTGGACAGCAGCGGAATAGATTGAAGATTTCAGATCTTGTCTCCCCAAGA
62 AGTAATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGC
44821308 AGTAGT
127 AGTAGT
* *
44821314 GGAGCAGATCAAAGATGGTGAATTTTACCTCTCTGTGGTTACAGTGGAGTATATTGAAGCCAGTA
1 GGAGCAGATCAAAGATGGTGAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTA
* * * * *
44821379 ATTCTATCTCCCTGGGCAACAGTGGAATAGATTGAGGATTTTAGATCTTGTCTCCCCAAGCAGTA
66 ATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTA
44821444 GT
131 GT
* * * *
44821446 GGAGTAGATCAAAGATGGTGAATTTTACCTCCCTGTGGTTATAATAGAGTACATTGAAGCCAGTA
1 GGAGCAGATCAAAGATGGTGAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTA
* * * *
44821511 ATTCTATCTCCCTCGGCAGCAGCGGAATAGATTGAAGATTTCAGATCTTGTCTCCCCAAGCAGTA
66 ATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTA
44821576 GT
131 GT
* *
44821578 GGAGCAGATCAAAGATGGTGAATTTTACCTCCCTGTGATTACAGTGGAGTACATTGAAGCCAGAA
1 GGAGCAGATCAAAGATGGTGAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTA
*
44821643 ATTCTA-CTTCCCTGGGTAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGT
66 ATTCTATC-TCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGT
44821707 AGT
130 AGT
* ** *
44821710 GGAACAGATCAAAGATGACGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTA
1 GGAGCAGATCAAAGATGGTGAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTA
* ** * *
44821775 ATTCTATTTCCCTGGGCAGCAACGGAATAGATTGAAGATTTTAGATCTTGTCTCCCTAAGCAGTA
66 ATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTA
44821840 GT
131 GT
* *
44821842 GGAGCAGATCAAAGATGG-CAGATTTTACCTCCCCGTGGTTACAGTGGAGTACATTGAAGCCAGT
1 GGAGCAGATCAAAGATGGTGA-ATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGT
* *
44821906 AATTCTA-CTTCCCTGGGGAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAG
65 AATTCTATC-TCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAG
44821970 TAGT
129 TAGT
* * * * * *
44821974 GGAACAGATTAAAGATGGCTG-ATTTTACCTTCATATGGTTACAGTGGAGTACATTGAAGCTAGT
1 GGAGCAGATCAAAGATGG-TGAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGT
* * *
44822038 AATTCTATCTCCCTAGGCAGCAGTGGAATAAATTGAAGATTTCAGATCTTCTCTCCCTAAGCAGT
65 AATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGT
44822103 AGT
130 AGT
* * *
44822106 GGGGCAAATTAAAGATGGTGAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTA
1 GGAGCAGATCAAAGATGGTGAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTA
* * * *
44822171 ATTCTA-CTTCCCTGGGCAGTAGTGGAATAGATTGAAGATTTTAGATCTTGTCT-CCTCAAGAAG
66 ATTCTATC-TCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCT-AAGCAG
44822234 TAGT
129 TAGT
*
44822238 GGAGCAGATCAAAGATGGTAAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTA
1 GGAGCAGATCAAAGATGGTGAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTA
* * *
44822303 ATTCTATCTCCTTGGGAAGCAGTGGAATAGATTGAAGATTAT-AGATCTTATCTCCATAAGCAGT
66 ATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATT-TCAGATCTTATCTCCCTAAGCAGT
44822367 AGT
130 AGT
* * * * *
44822370 GGAGTAGATCGAAGATGG-CAGATTTTACCTCCTTGAGGTTACAGTGGAGTACATTGAAGCCAGT
1 GGAGCAGATCAAAGATGGTGA-ATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGT
* * * *
44822434 AATTCTATCTCCCTGGGCAACAGTGAAATAGATTGAAGATTACAGATATTATCTCCCTAAGCAGT
65 AATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGT
44822499 AGT
130 AGT
* * * * * *
44822502 GGAGTAGATCGAAGATGGCGGATTTTATCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTA
1 GGAGCAGATCAAAGATGGTGAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTA
** * *
44822567 ATTCTATCTCCCTGGGCAATAGTGGAATATATTGAAGATTACAGATCTTATCTCCCTAAGCAGTA
66 ATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTA
44822632 GT
131 GT
* * *
44822634 GGAGCAGATCAAAGATGGTGGATTTTACCTCCCTGAGGTTACAGTGGAGTCCATTGAAGCCAGTA
1 GGAGCAGATCAAAGATGGTGAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTA
44822699 TTCCTATATC
Statistics
Matches: 1354, Mismatches: 139, Indels: 51
0.88 0.09 0.03
Matches are distributed among these distances:
131 9 0.01
132 1233 0.91
133 106 0.08
134 1 0.00
135 2 0.00
136 3 0.00
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (132 bp):
GGAGCAGATCAAAGATGGTGAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTA
ATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTA
GT
Found at i:44821975 original size:44 final size:44
Alignment explanation
Indices: 44821927--44822107 Score: 120
Period size: 44 Copynumber: 4.1 Consensus size: 44
44821917 CCTGGGGAAC
*
44821927 AGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGT
1 AGTGGAATAGATTGAAGATGTCAGATCTTATCTCCCTAAGCAGT
* * * * * * * * *
44821971 AGTGGAACAGATTAAAGATGGCTGATTTTACCTTCATATG--GTT
1 AGTGGAATAGATTGAAGATGTCAGATCTTATCTCCCTAAGCAG-T
* * * * *
44822014 ACAGTGGAGTACATTGAAGCTAGT-A-AT-TCTATCTCCCTAGGCAGC
1 --AGTGGAATAGATTGAAGAT-GTCAGATCT-TATCTCCCTAAGCAGT
* * *
44822059 AGTGGAATAAATTGAAGATTTCAGATCTTCTCTCCCTAAGCAGT
1 AGTGGAATAGATTGAAGATGTCAGATCTTATCTCCCTAAGCAGT
44822103 AGTGG
1 AGTGG
44822108 GGCAAATTAA
Statistics
Matches: 98, Mismatches: 29, Indels: 20
0.67 0.20 0.14
Matches are distributed among these distances:
42 2 0.02
43 19 0.19
44 60 0.61
45 15 0.15
46 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (44 bp):
AGTGGAATAGATTGAAGATGTCAGATCTTATCTCCCTAAGCAGT
Found at i:44822510 original size:44 final size:44
Alignment explanation
Indices: 44822323--44822642 Score: 151
Period size: 44 Copynumber: 7.3 Consensus size: 44
44822313 CTTGGGAAGC
* * * * *
44822323 AGTGGAATAGATTGAAGATTATAGATCTTATCTCCATAAGCAGT
1 AGTGGAGTAGATTGAAGATTACAGATATTATCTCCCTGAGCAGT
* ** * * *
44822367 AGTGGAGTAGATCGAAGATGGCAGATTTTACCTCCTTGAG--GTT
1 AGTGGAGTAGATTGAAGATTACAGATATTATCTCCCTGAGCAG-T
* * * **
44822410 ACAGTGGAGTACATTGAAG---CCAG-TAATTCTATCTCCCTGGGCAAC
1 --AGTGGAGTAGATTGAAGATTACAGAT-A-T-TATCTCCCTGAGCAGT
* * *
44822455 AGTGAAATAGATTGAAGATTACAGATATTATCTCCCTAAGCAGT
1 AGTGGAGTAGATTGAAGATTACAGATATTATCTCCCTGAGCAGT
* ** * *
44822499 AGTGGAGTAGATCGAAGATGGCGGATTTTATCTCCCTGAG--GTT
1 AGTGGAGTAGATTGAAGATTACAGATATTATCTCCCTGAGCAG-T
* * * *
44822542 ACAGTGGAGTACATTGAAG---CCAG-TAATTCTATCTCCCTGGGCAAT
1 --AGTGGAGTAGATTGAAGATTACAGAT-A-T-TATCTCCCTGAGCAGT
* * * *
44822587 AGTGGAATATATTGAAGATTACAGATCTTATCTCCCTAAGCAGT
1 AGTGGAGTAGATTGAAGATTACAGATATTATCTCCCTGAGCAGT
*
44822631 AGTGGAGCAGAT
1 AGTGGAGTAGAT
44822643 CAAAGATGGT
Statistics
Matches: 201, Mismatches: 51, Indels: 48
0.67 0.17 0.16
Matches are distributed among these distances:
41 2 0.01
42 7 0.03
43 33 0.16
44 117 0.58
45 33 0.16
46 7 0.03
47 2 0.01
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (44 bp):
AGTGGAGTAGATTGAAGATTACAGATATTATCTCCCTGAGCAGT
Found at i:44823194 original size:2 final size:2
Alignment explanation
Indices: 44823187--44823211 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
44823177 TTAGCCTAAA
44823187 AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC A
44823212 AAAACCTTAG
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:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:44824217 original size:3 final size:3
Alignment explanation
Indices: 44824209--44824244 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
44824199 TACTATTCTC
44824209 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
44824245 AACATACATG
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 30 0.94
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:44830048 original size:39 final size:40
Alignment explanation
Indices: 44829945--44830051 Score: 110
Period size: 44 Copynumber: 2.6 Consensus size: 40
44829935 GGTTCGCTGT
44829945 AATGGAATAGAGGTGTAATAGCAAATCAATTGTTTGGTTG
1 AATGGAATAGAGGTGTAATAGCAAATCAATTGTTTGGTTG
* * * *
44829985 AATGTAATAGAATAGAGGCGTAATAG-TATTC-TTGTGTTTGGTTG
1 AATG-----GAATAGAGGTGTAATAGCAAATCAAT-TGTTTGGTTG
44830029 AATGGAATAGAGGTGTAATAGCA
1 AATGGAATAGAGGTGTAATAGCA
44830052 TAATGGAAAA
Statistics
Matches: 54, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
39 16 0.30
40 4 0.07
43 1 0.02
44 17 0.31
45 16 0.30
ACGTcount: A:0.35, C:0.05, G:0.28, T:0.33
Consensus pattern (40 bp):
AATGGAATAGAGGTGTAATAGCAAATCAATTGTTTGGTTG
Found at i:44830214 original size:16 final size:16
Alignment explanation
Indices: 44830177--44830218 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
44830167 TTAATCATAT
*
44830177 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
44830193 TT-AAATATATTATAA
1 TTAAAATATATTATAA
44830208 TTAAAATATAT
1 TTAAAATATAT
44830219 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:44830224 original size:55 final size:54
Alignment explanation
Indices: 44830157--44830345 Score: 134
Period size: 55 Copynumber: 3.3 Consensus size: 54
44830147 TAATATCAAT
*
44830157 AATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAA
1 AATATATAATTTAAT-ATATTTAAACATAATTATTATTAAATATATTATAATTAA
* * * *
44830212 AATATATAATTTAATAAAATTCTTAATA-ATCAA-TATTCTTATATGA-ATTTACCAAATCATAA
1 AATATATAATTTAAT-ATA-T-TTAA-ACAT-AATTATTATTAAAT-ATA-TTA--TAAT--TAA
* * * *
44830274 TATATGATACTATAAATATAAATT-AACATAATTATTATTAAATATATTATAATTAA
1 AATAT-ATAAT-TTAATAT-ATTTAAACATAATTATTATTAAATATATTATAATTAA
44830330 AATATATAATTTAATA
1 AATATATAATTTAATA
44830346 AAATTCTTAA
Statistics
Matches: 101, Mismatches: 17, Indels: 33
0.67 0.11 0.22
Matches are distributed among these distances:
54 5 0.05
55 20 0.20
56 8 0.08
57 16 0.16
58 10 0.10
60 10 0.10
61 13 0.13
62 9 0.09
63 5 0.05
64 5 0.05
ACGTcount: A:0.51, C:0.05, G:0.01, T:0.42
Consensus pattern (54 bp):
AATATATAATTTAATATATTTAAACATAATTATTATTAAATATATTATAATTAA
Found at i:44830225 original size:14 final size:15
Alignment explanation
Indices: 44830186--44830227 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
44830176 TTTAAACATA
*
44830186 ATTATTATTAAATAT
1 ATTATAATTAAATAT
44830201 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
44830215 A-TATAATTTAATA
1 ATTATAATTAAATA
44830228 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:44830343 original size:14 final size:15
Alignment explanation
Indices: 44830294--44830345 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
44830284 TATAAATATA
44830294 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
44830309 TATTAAATATATTAT
1 AATTAAATATATTAT
44830324 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
44830337 AATTTAATA
1 AATTAAATA
44830346 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:44830455 original size:118 final size:120
Alignment explanation
Indices: 44830180--44830590 Score: 711
Period size: 120 Copynumber: 3.4 Consensus size: 120
44830170 ATCATATTTA
*
44830180 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
44830245 TATTCTTATATGAATTTA-CCAAATCATAATATATGATACTAT-AAATATAAATT
66 TATTCTTATATGAATTTACCCAAATCATAATATATGATACTATAAAATATAAATT
44830298 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
44830363 TGTTCTTATATGAATTTACCCAAATCATAATATATGATACTATAAAATATAAATT
66 TATTCTTATATGAATTTACCCAAATCATAATATATGATACTATAAAATATAAATT
*
44830418 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAAGAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
* * *
44830483 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTT
66 TATTCTTATATGAATTTACCCAAATCATAATATATGATACTATAAAATATAAATT
* * *
44830538 GAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 -AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
44830591 TAAAATAATT
Statistics
Matches: 280, Mismatches: 10, Indels: 4
0.95 0.03 0.01
Matches are distributed among these distances:
118 81 0.29
119 24 0.09
120 173 0.62
121 2 0.01
ACGTcount: A:0.50, C:0.06, G:0.03, T:0.42
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATGAATTTACCCAAATCATAATATATGATACTATAAAATATAAATT
Found at i:44830463 original size:14 final size:15
Alignment explanation
Indices: 44830414--44830465 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
44830404 ATAAAATATA
44830414 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
44830429 TATTAAATATATTAT
1 AATTAAATATATTAT
44830444 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
44830457 AATTTAATA
1 AATTAAATA
44830466 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:44830637 original size:101 final size:93
Alignment explanation
Indices: 44830531--44830813 Score: 317
Period size: 91 Copynumber: 3.0 Consensus size: 93
44830521 ACTATAAAAG
* * * *
44830531 ATAATTTGAAATAATTAATATTAAATATATTTTAATTAA-AATATATGATTTAATAAAATTTAAA
1 ATAATTTAAAATAATTAATATTAAATATAATTTAA-TAATAATATATAATTTCATAAAATTT---
* *
44830595 ATAATTATAATTAATAAATTATCTTATATGAATTTGT
62 -T--CT-TAA-TAATAAATTATCTTATATGAATTTAT
* *
44830632 ATAATTTAAAATAATTATTATTACATATAATTTAATAATAATATATAATTTCATAAAA--TTCTT
1 ATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTTTCTT
* *
44830695 GATAATAAATTTTCTTATATGAATTTAT
66 AATAATAAATTATCTTATATGAATTTAT
* *
44830723 ACAATTTAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTTCATAAAA--TTCTT
1 ATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTTTCTT
44830786 AATAATAAAATGT-TCTTATATGAATTTA
66 AATAAT-AAAT-TATCTTATATGAATTTA
44830814 CTAAAATCAA
Statistics
Matches: 164, Mismatches: 15, Indels: 15
0.85 0.08 0.08
Matches are distributed among these distances:
91 88 0.54
92 21 0.13
93 2 0.01
95 1 0.01
99 1 0.01
100 3 0.02
101 48 0.29
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.45
Consensus pattern (93 bp):
ATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTTTCTT
AATAATAAATTATCTTATATGAATTTAT
Found at i:44830638 original size:47 final size:47
Alignment explanation
Indices: 44830572--44830739 Score: 145
Period size: 47 Copynumber: 3.6 Consensus size: 47
44830562 TTAATTAAAA
*
44830572 TATATG-ATTTAATAAAATTTAAAATAATTATAATTAATAAATTATCT
1 TATATGAATTT-ATATAATTTAAAATAATTATAATTAATAAATTATCT
* * *
44830619 TATATGAATTTGTATAATTTAAAATAATTATTATTACAT--ATAAT-T
1 TATATGAATTTATATAATTTAAAATAATTATAATTA-ATAAATTATCT
* * * * *
44830664 TA-AT-AATAATATATAATTTCATAA-AATTCTTGA-TAATAAATTTTCT
1 TATATGAAT-TTATATAATTT-AAAATAATT-ATAATTAATAAATTATCT
*
44830710 TATATGAATTTATACAATTTAAAATAATTA
1 TATATGAATTTATATAATTTAAAATAATTA
44830740 ATATTAAATA
Statistics
Matches: 95, Mismatches: 15, Indels: 23
0.71 0.11 0.17
Matches are distributed among these distances:
43 5 0.05
44 17 0.18
45 11 0.12
46 10 0.11
47 43 0.45
48 9 0.09
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.46
Consensus pattern (47 bp):
TATATGAATTTATATAATTTAAAATAATTATAATTAATAAATTATCT
Found at i:44830660 original size:26 final size:28
Alignment explanation
Indices: 44830631--44830691 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
44830621 TATGAATTTG
*
44830631 TATAATTTAA-AATAAT-TATTATTACA
1 TATAATTTAATAATAATATATAATTACA
*
44830657 TATAATTTAATAATAATATATAATTTCA
1 TATAATTTAATAATAATATATAATTACA
*
44830685 TAAAATT
1 TATAATT
44830692 CTTGATAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (28 bp):
TATAATTTAATAATAATATATAATTACA
Found at i:44830701 original size:91 final size:90
Alignment explanation
Indices: 44830606--44830813 Score: 326
Period size: 91 Copynumber: 2.3 Consensus size: 90
44830596 TAATTATAAT
* * * *
44830606 TAATAAATTATCTTATATGAATTTGTATAATTTAAAATAATTATTATTACATATAATTTAATAAT
1 TAATAAATT-TCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
44830671 AATATATAATTTCATAAAATTCTTGA
65 AATATATAATTTCATAAAATTCTTAA
44830697 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
1 TAATAAA-TTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
44830762 GATATATAATTTCATAAAATTCTTAA
65 AATATATAATTTCATAAAATTCTTAA
44830788 TAATAAAATGTTCTTATATGAATTTA
1 TAAT-AAAT-TTCTTATATGAATTTA
44830814 CTAAAATCAA
Statistics
Matches: 108, Mismatches: 6, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
91 87 0.81
92 21 0.19
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.46
Consensus pattern (90 bp):
TAATAAATTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAATA
ATATATAATTTCATAAAATTCTTAA
Found at i:44830773 original size:44 final size:43
Alignment explanation
Indices: 44830587--44830773 Score: 119
Period size: 47 Copynumber: 4.1 Consensus size: 43
44830577 GATTTAATAA
* * * *
44830587 AATTTAAAATAATT-ATAATTAATAAATTATCTTATATGAATTTGTAT
1 AATTTAAAATAATTAAT-ATTAA-ATATAAT-TTA-AT-AATATATAT
* *
44830634 AATTTAAAATAATTATTATTACATATAATTTAATAATAATATAT
1 AATTTAAAATAATTAATATTAAATATAATTTAATAAT-ATATAT
** * * * * *
44830678 AATTTCATAAAATTCTTGATAATAAAT-T-TTCTTATATGAATTTATAC
1 AA-TT--TAAAATAATTAATATTAAATATAAT-TTA-AT-AATATATAT
44830725 AATTTAAAATAATTAATATTAAATATAATTTAATAATGATATAT
1 AATTTAAAATAATTAATATTAAATATAATTTAATAAT-ATATAT
44830769 AATTT
1 AATTT
44830774 CATAAAATTC
Statistics
Matches: 107, Mismatches: 22, Indels: 25
0.69 0.14 0.16
Matches are distributed among these distances:
43 6 0.06
44 35 0.33
45 10 0.09
46 12 0.11
47 40 0.37
48 4 0.04
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.46
Consensus pattern (43 bp):
AATTTAAAATAATTAATATTAAATATAATTTAATAATATATAT
Found at i:44830788 original size:47 final size:47
Alignment explanation
Indices: 44830656--44830794 Score: 137
Period size: 47 Copynumber: 3.0 Consensus size: 47
44830646 TTATTATTAC
* *
44830656 ATATAATTTAATAATAATATATAATTTCATAAAATTCTTGATAATAA
1 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
* * * ** *
44830703 AT-T--TTCTTAT-ATGAATTTATACAATT--TAAAATAATTAATATTAA
1 ATATAATT-TAATAATG-ATATATA-ATTTCATAAAATTCTTAATAATAA
44830747 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
1 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
44830794 A
1 A
44830795 ATGTTCTTAT
Statistics
Matches: 69, Mismatches: 14, Indels: 18
0.68 0.14 0.18
Matches are distributed among these distances:
44 20 0.29
45 13 0.19
46 13 0.19
47 23 0.33
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (47 bp):
ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
Found at i:44836593 original size:23 final size:23
Alignment explanation
Indices: 44836526--44836611 Score: 97
Period size: 23 Copynumber: 3.7 Consensus size: 23
44836516 AATCAAAAGT
*
44836526 TTATACAGGCAGAAATAGAAGAC
1 TTATACAGGCACAAATAGAAGAC
* *
44836549 TTAACTAAAAGG-ACAGA-A-AAGAC
1 TT-A-T-ACAGGCACAAATAGAAGAC
44836572 TTATACAGGCACAAATAGAAGAC
1 TTATACAGGCACAAATAGAAGAC
44836595 TTATACAGGCACAAATA
1 TTATACAGGCACAAATA
44836612 AAGCTGATAA
Statistics
Matches: 52, Mismatches: 5, Indels: 12
0.75 0.07 0.17
Matches are distributed among these distances:
20 4 0.08
21 5 0.10
22 2 0.04
23 31 0.60
24 2 0.04
25 4 0.08
26 4 0.08
ACGTcount: A:0.50, C:0.15, G:0.17, T:0.17
Consensus pattern (23 bp):
TTATACAGGCACAAATAGAAGAC
Found at i:44845730 original size:18 final size:18
Alignment explanation
Indices: 44845707--44845748 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
44845697 ATAAAAATTC
* *
44845707 ACTTTCTGTTTGTTTGTT
1 ACTTTCCGTTTGTTTATT
44845725 ACTTTCCGTTTGTTTATT
1 ACTTTCCGTTTGTTTATT
44845743 ACTTTC
1 ACTTTC
44845749 AGGTAACCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.10, C:0.17, G:0.12, T:0.62
Consensus pattern (18 bp):
ACTTTCCGTTTGTTTATT
Found at i:44845988 original size:17 final size:18
Alignment explanation
Indices: 44845948--44845988 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
44845938 TGATAGAACG
44845948 GTTTTTATGAAAATAACT
1 GTTTTTATGAAAATAACT
44845966 GCTTTTT-TG-AAATCAACT
1 G-TTTTTATGAAAAT-AACT
44845984 GTTTT
1 GTTTT
44845989 CTAGAAAACA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
17 8 0.38
18 8 0.38
19 5 0.24
ACGTcount: A:0.29, C:0.10, G:0.12, T:0.49
Consensus pattern (18 bp):
GTTTTTATGAAAATAACT
Found at i:44853724 original size:23 final size:19
Alignment explanation
Indices: 44853677--44853715 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
44853667 AATCATGCCA
44853677 TGGTATCATGTACAAACAT
1 TGGTATCATGTACAAACAT
*
44853696 TGGTATCATGTATAAACAT
1 TGGTATCATGTACAAACAT
44853715 T
1 T
44853716 ATAGAGTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.36
Consensus pattern (19 bp):
TGGTATCATGTACAAACAT
Found at i:44855057 original size:21 final size:21
Alignment explanation
Indices: 44855031--44855070 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
44855021 TACCCCCTAA
44855031 ATCCCTTAA-TTAACTCCCCCT
1 ATCCC-TAATTTAACTCCCCCT
*
44855052 ATCCCTAATTTCACTCCCC
1 ATCCCTAATTTAACTCCCC
44855071 AACCGTCCAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.18
21 14 0.82
ACGTcount: A:0.23, C:0.45, G:0.00, T:0.33
Consensus pattern (21 bp):
ATCCCTAATTTAACTCCCCCT
Found at i:44874632 original size:15 final size:15
Alignment explanation
Indices: 44874612--44874656 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
44874602 GGGGTAGGAC
*
44874612 ATGATATGATATAAT
1 ATGATAAGATATAAT
* * *
44874627 ATGATACGGTATATT
1 ATGATAAGATATAAT
44874642 ATGATAAGATATAAT
1 ATGATAAGATATAAT
44874657 CTGGTGAAAA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.44, C:0.02, G:0.16, T:0.38
Consensus pattern (15 bp):
ATGATAAGATATAAT
Found at i:44877179 original size:21 final size:21
Alignment explanation
Indices: 44877117--44877190 Score: 69
Period size: 21 Copynumber: 3.6 Consensus size: 21
44877107 GGGTCAACAT
*
44877117 GCCCATGTGAGGGGGAGACAT
1 GCCCATGTGAGGGGGAGACAC
* ** *
44877138 GCCCATATGA-GGAAACACAC
1 GCCCATGTGAGGGGGAGACAC
*
44877158 GCCTATGTGAGGGGGAGACAC
1 GCCCATGTGAGGGGGAGACAC
* *
44877179 GCTCGTGTGAGG
1 GCCCATGTGAGG
44877191 AAACACACGC
Statistics
Matches: 39, Mismatches: 13, Indels: 2
0.72 0.24 0.04
Matches are distributed among these distances:
20 14 0.36
21 25 0.64
ACGTcount: A:0.26, C:0.22, G:0.38, T:0.15
Consensus pattern (21 bp):
GCCCATGTGAGGGGGAGACAC
Found at i:44877190 original size:41 final size:42
Alignment explanation
Indices: 44877117--44877209 Score: 129
Period size: 41 Copynumber: 2.3 Consensus size: 42
44877107 GGGTCAACAT
*
44877117 GCCC-ATGTGAGGGGGAGACATGCCCATATGAGGAAACACAC
1 GCCCTATGTGAGGGGGAGACACGCCCATATGAGGAAACACAC
* * *
44877158 G-CCTATGTGAGGGGGAGACACGCTCGTGTGAGGAAACACAC
1 GCCCTATGTGAGGGGGAGACACGCCCATATGAGGAAACACAC
44877199 GCCCT-TGTGAG
1 GCCCTATGTGAG
44877210 AGGAGGCACA
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
40 2 0.04
41 41 0.89
42 3 0.07
ACGTcount: A:0.27, C:0.24, G:0.34, T:0.15
Consensus pattern (42 bp):
GCCCTATGTGAGGGGGAGACACGCCCATATGAGGAAACACAC
Found at i:44877207 original size:20 final size:20
Alignment explanation
Indices: 44877145--44877209 Score: 60
Period size: 20 Copynumber: 3.2 Consensus size: 20
44877135 CATGCCCATA
44877145 TGAGGAAACACACG-CCTATG
1 TGAGGAAACACACGCCCT-TG
** * * *
44877165 TGAGGGGGAGACACGCTCGTG
1 TGA-GGAAACACACGCCCTTG
44877186 TGAGGAAACACACGCCCTTG
1 TGAGGAAACACACGCCCTTG
44877206 TGAG
1 TGAG
44877210 AGGAGGCACA
Statistics
Matches: 33, Mismatches: 10, Indels: 4
0.70 0.21 0.09
Matches are distributed among these distances:
20 19 0.58
21 13 0.39
22 1 0.03
ACGTcount: A:0.28, C:0.23, G:0.34, T:0.15
Consensus pattern (20 bp):
TGAGGAAACACACGCCCTTG
Found at i:44880625 original size:14 final size:14
Alignment explanation
Indices: 44880606--44880635 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
44880596 ATTTCGGATT
44880606 ATCCAAATCCACAA
1 ATCCAAATCCACAA
*
44880620 ATCCAAGTCCACAA
1 ATCCAAATCCACAA
44880634 AT
1 AT
44880636 TATCTAAATA
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:0.47, C:0.33, G:0.03, T:0.17
Consensus pattern (14 bp):
ATCCAAATCCACAA
Found at i:44881857 original size:30 final size:29
Alignment explanation
Indices: 44881823--44881924 Score: 93
Period size: 30 Copynumber: 3.4 Consensus size: 29
44881813 CAAAAAATAT
*
44881823 AAATTACATTTTAGCCTTTAAACTTTTCAA
1 AAATTACATTTT-GCCTCTAAACTTTTCAA
* *
44881853 AAATTACATTTTGACCTCTAATAATTTT--T
1 AAATTACATTTTG-CCTCTAA-ACTTTTCAA
* *
44881882 AAATTACATTTGGGCCCCTAAAC-TTTCTAA
1 AAATTACATTT-TGCCTCTAAACTTTTC-AA
44881912 AAATTACATTTTG
1 AAATTACATTTTG
44881925 GCCGCATATT
Statistics
Matches: 58, Mismatches: 8, Indels: 13
0.73 0.10 0.16
Matches are distributed among these distances:
27 3 0.05
28 1 0.02
29 19 0.33
30 30 0.52
31 5 0.09
ACGTcount: A:0.35, C:0.17, G:0.06, T:0.42
Consensus pattern (29 bp):
AAATTACATTTTGCCTCTAAACTTTTCAA
Found at i:44882333 original size:20 final size:19
Alignment explanation
Indices: 44882295--44882352 Score: 68
Period size: 19 Copynumber: 3.2 Consensus size: 19
44882285 AGGGAAACCG
*
44882295 AAACAAAAAAAGAAAAGCA
1 AAACAAAAAACGAAAAGCA
*
44882314 AAACAAAAAACGCAACAGCA
1 AAACAAAAAACG-AAAAGCA
44882334 AAA-AAAAAAC-AAAAG-A
1 AAACAAAAAACGAAAAGCA
44882350 AAA
1 AAA
44882353 GTCCAAAAAG
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
16 4 0.11
17 4 0.11
19 18 0.51
20 9 0.26
ACGTcount: A:0.78, C:0.14, G:0.09, T:0.00
Consensus pattern (19 bp):
AAACAAAAAACGAAAAGCA
Found at i:44882506 original size:19 final size:18
Alignment explanation
Indices: 44882450--44882506 Score: 60
Period size: 19 Copynumber: 3.0 Consensus size: 18
44882440 ACAAGCAAAG
44882450 CAACAAGCAAAATATAAAAA
1 CAACAAGCAAAA-A-AAAAA
*
44882470 CAGCAAGCAAAGAAAAAAA
1 CAACAAGCAAA-AAAAAAA
* *
44882489 CAACAACCAAAAAGAAAA
1 CAACAAGCAAAAAAAAAA
44882507 GGGAGGGAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
18 6 0.19
19 14 0.44
20 11 0.34
21 1 0.03
ACGTcount: A:0.70, C:0.18, G:0.09, T:0.04
Consensus pattern (18 bp):
CAACAAGCAAAAAAAAAA
Found at i:44882639 original size:12 final size:12
Alignment explanation
Indices: 44882622--44882697 Score: 50
Period size: 12 Copynumber: 6.2 Consensus size: 12
44882612 GCTCGGCCCG
44882622 AAGAAGAAAAAA
1 AAGAAGAAAAAA
44882634 AAGAAGAAAAAGA
1 AAGAAGAAAAA-A
* *
44882647 AGGAGAGAAAGAA
1 AAGA-AGAAAAAA
44882660 AA-AAGAAAGAAGA
1 AAGAAGAAA-AA-A
*
44882673 AAG-GGAAAGAAA
1 AAGAAGAAA-AAA
*
44882685 AA-TAGAAAAAA
1 AAGAAGAAAAAA
44882696 AA
1 AA
44882698 AGAAATAGAA
Statistics
Matches: 52, Mismatches: 6, Indels: 13
0.73 0.08 0.18
Matches are distributed among these distances:
11 10 0.19
12 20 0.38
13 16 0.31
14 6 0.12
ACGTcount: A:0.75, C:0.00, G:0.24, T:0.01
Consensus pattern (12 bp):
AAGAAGAAAAAA
Found at i:44882664 original size:19 final size:18
Alignment explanation
Indices: 44882640--44882702 Score: 58
Period size: 18 Copynumber: 3.5 Consensus size: 18
44882630 AAAAAAGAAG
*
44882640 AAAAAGAAGGAGAGAAAGA
1 AAAAAGAAAGA-AGAAAGA
44882659 AAAAAGAAAGAAGAAAG-
1 AAAAAGAAAGAAGAAAGA
** *
44882676 GGAAAGAAAAATAGAAA-A
1 AAAAAGAAAGA-AGAAAGA
44882694 AAAAAGAAA
1 AAAAAGAAA
44882703 TAGAAAAGTC
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
17 8 0.22
18 18 0.50
19 10 0.28
ACGTcount: A:0.75, C:0.00, G:0.24, T:0.02
Consensus pattern (18 bp):
AAAAAGAAAGAAGAAAGA
Found at i:44882699 original size:24 final size:24
Alignment explanation
Indices: 44882653--44882699 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
44882643 AAGAAGGAGA
*
44882653 GAAAGAAAAAAGAAAGAAGAAAGG
1 GAAAGAAAAAAGAAAGAAAAAAGG
44882677 GAAAGAAAAATAGAAA-AAAAAAG
1 GAAAGAAAAA-AGAAAGAAAAAAG
44882700 AAATAGAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 16 0.76
25 5 0.24
ACGTcount: A:0.74, C:0.00, G:0.23, T:0.02
Consensus pattern (24 bp):
GAAAGAAAAAAGAAAGAAAAAAGG
Found at i:44883076 original size:6 final size:6
Alignment explanation
Indices: 44883065--44883118 Score: 58
Period size: 6 Copynumber: 9.0 Consensus size: 6
44883055 AATAGCAACC
* *
44883065 AAAAAG AAAAAG AAGAAG -AAAA- AAAAAG AAAAAAG AAAAAA AAGAAAG
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG -AAAAAG AAAAAG AA-AAAG
44883113 AAAAAG
1 AAAAAG
44883119 GGGCCCAAGT
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
5 7 0.17
6 22 0.55
7 11 0.28
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:44883081 original size:33 final size:29
Alignment explanation
Indices: 44883038--44883117 Score: 97
Period size: 33 Copynumber: 2.6 Consensus size: 29
44883028 GCAACAGGCC
*
44883038 AAAAAAAAGAAGAAAAAAATAGCAACCAAAAAG
1 AAAAAAAAGAAGAAAAAAAAAG--A--AAAAAG
*
44883071 AAAAAGAAGAAGAAAAAAAAAGAAAAAAG
1 AAAAAAAAGAAGAAAAAAAAAGAAAAAAG
44883100 AAAAAAAAGAAAGAAAAA
1 AAAAAAAAG-AAGAAAAA
44883118 GGGGCCCAAG
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
29 14 0.33
30 8 0.19
31 1 0.02
33 20 0.47
ACGTcount: A:0.81, C:0.04, G:0.14, T:0.01
Consensus pattern (29 bp):
AAAAAAAAGAAGAAAAAAAAAGAAAAAAG
Found at i:44883088 original size:20 final size:19
Alignment explanation
Indices: 44883065--44883118 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 19
44883055 AATAGCAACC
44883065 AAAAAGAAAAAGAAGAAGAAAA
1 AAAAAGAAAAAG-A-AA-AAAA
44883087 AAAAAGAAAAAAGAAAAAAA
1 AAAAAG-AAAAAGAAAAAAA
*
44883107 AGAAAGAAAAAG
1 AAAAAGAAAAAG
44883119 GGGCCCAAGT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
19 6 0.20
20 9 0.30
21 2 0.07
22 7 0.23
23 6 0.20
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (19 bp):
AAAAAGAAAAAGAAAAAAA
Found at i:44883105 original size:30 final size:30
Alignment explanation
Indices: 44883038--44883117 Score: 92
Period size: 30 Copynumber: 2.6 Consensus size: 30
44883028 GCAACAGGCC
*
44883038 AAAAAAAAGAAGAAAAAAATAGCAACCAAAA
1 AAAAAAAAGAAGAAAAAAAAAGCAA-CAAAA
44883069 AGAAAAAGAAGAAGAAAAAAAAAG-AA-AAAA
1 A-AAAAA-AAGAAGAAAAAAAAAGCAACAAAA
44883099 GAAAAAAAAGAAAGAAAAA
1 -AAAAAAAAG-AAGAAAAA
44883118 GGGGCCCAAG
Statistics
Matches: 44, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
29 3 0.07
30 17 0.39
31 2 0.05
32 7 0.16
33 15 0.34
ACGTcount: A:0.81, C:0.04, G:0.14, T:0.01
Consensus pattern (30 bp):
AAAAAAAAGAAGAAAAAAAAAGCAACAAAA
Found at i:44883108 original size:16 final size:17
Alignment explanation
Indices: 44883066--44883111 Score: 60
Period size: 16 Copynumber: 2.8 Consensus size: 17
44883056 ATAGCAACCA
*
44883066 AAAAGAAAAAG-AAGAAG
1 AAAA-AAAAAGAAAAAAG
44883083 AAAAAAAAAGAAAAAAG
1 AAAAAAAAAGAAAAAAG
44883100 -AAAAAAAAGAAA
1 AAAAAAAAAGAAA
44883112 GAAAAAGGGG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
16 18 0.67
17 9 0.33
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (17 bp):
AAAAAAAAAGAAAAAAG
Found at i:44883482 original size:21 final size:20
Alignment explanation
Indices: 44883446--44883485 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
44883436 GAAAATATTC
*
44883446 AAAAAATTTCGTGTTTTAAA
1 AAAAAATTTCGCGTTTTAAA
44883466 AAAAAATTCTCGCGTTTTAA
1 AAAAAATT-TCGCGTTTTAA
44883486 TAGAATCACG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.42, C:0.10, G:0.10, T:0.38
Consensus pattern (20 bp):
AAAAAATTTCGCGTTTTAAA
Found at i:44883638 original size:18 final size:17
Alignment explanation
Indices: 44883607--44883891 Score: 135
Period size: 17 Copynumber: 16.4 Consensus size: 17
44883597 AAAAAAAAAA
44883607 TCAAAAAA-TTCGTGTT
1 TCAAAAAATTTCGTGTT
44883623 TCAAAAAATTTCCGTG-T
1 TCAAAAAATTT-CGTGTT
* *
44883640 TAAAAAAAATTCGTGTTT
1 TCAAAAAATTTCGTG-TT
*
44883658 TC-AAAAATTTCATG--
1 TCAAAAAATTTCGTGTT
* *
44883672 TCCAAAAATTCTCGTATT
1 TCAAAAAATT-TCGTGTT
* *
44883690 TCATAAATTTTCGTG-T
1 TCAAAAAATTTCGTGTT
44883706 T-AAAAAATTTTCCGTGTT
1 TCAAAAAA-TTT-CGTGTT
*
44883724 TCCAACAAAATTT-GGGTT
1 T-CAA-AAAATTTCGTGTT
* *
44883742 TC-TAAAATTCTCGTATT
1 TCAAAAAATT-TCGTGTT
44883759 TC-AAAAATTTCACGTGTT
1 TCAAAAAATTT--CGTGTT
44883777 TCAAAAAATTTCGTGTTT
1 TCAAAAAATTTCGTG-TT
*
44883795 TCAAAAAAAAATGTTTTGTGTT
1 TC---AAAAAA--TTTCGTGTT
* *
44883817 TTAAAAATTTTCGTGTT
1 TCAAAAAATTTCGTGTT
* * *
44883834 TC-TAAAGTTCTCGTATT
1 TCAAAAAATT-TCGTGTT
* *
44883851 TC-AAAATTTTCTGTATT
1 TCAAAAAATTTC-GTGTT
* *
44883868 TTAAAAAATTATTGTGTT
1 TCAAAAAATT-TCGTGTT
44883886 TCAAAA
1 TCAAAA
44883892 TTCTCGTGTT
Statistics
Matches: 206, Mismatches: 34, Indels: 56
0.70 0.11 0.19
Matches are distributed among these distances:
14 2 0.01
15 17 0.08
16 29 0.14
17 74 0.36
18 46 0.22
19 14 0.07
20 5 0.02
21 10 0.05
22 3 0.01
23 6 0.03
ACGTcount: A:0.35, C:0.12, G:0.11, T:0.42
Consensus pattern (17 bp):
TCAAAAAATTTCGTGTT
Found at i:44883663 original size:17 final size:16
Alignment explanation
Indices: 44883607--44883802 Score: 101
Period size: 18 Copynumber: 11.5 Consensus size: 16
44883597 AAAAAAAAAA
44883607 TCAAAAAATTCGTGTT
1 TCAAAAAATTCGTGTT
44883623 TCAAAAAATTTCCGTGTT
1 TCAAAAAA-TT-CGTGTT
**
44883641 AAAAAAAATTCGTGTTT
1 TCAAAAAATTCGTG-TT
* *
44883658 TCAAAAATTTCATG-T
1 TCAAAAAATTCGTGTT
* * *
44883673 CCAAAAATTCTCGTATT
1 TCAAAAAAT-TCGTGTT
**
44883690 TCATAAATTTTCGTG-T
1 TCA-AAAAATTCGTGTT
44883706 T-AAAAAATTTTCCGTGTT
1 TCAAAAAA--TT-CGTGTT
* *
44883724 TCCAACAAAATTTGGGTT
1 T-CAA-AAAATTCGTGTT
* * *
44883742 TCTAAAATTCTCGTATT
1 TCAAAAAAT-TCGTGTT
*
44883759 TCAAAAATTTCACGTGTT
1 TCAAAAAATT--CGTGTT
44883777 TCAAAAAATTTCGTGTTT
1 TCAAAAAA-TTCGTG-TT
44883795 TCAAAAAA
1 TCAAAAAA
44883803 AAATGTTTTG
Statistics
Matches: 138, Mismatches: 24, Indels: 34
0.70 0.12 0.17
Matches are distributed among these distances:
14 3 0.02
15 10 0.07
16 24 0.17
17 45 0.33
18 46 0.33
19 4 0.03
20 2 0.01
21 4 0.03
ACGTcount: A:0.36, C:0.14, G:0.10, T:0.39
Consensus pattern (16 bp):
TCAAAAAATTCGTGTT
Found at i:44883900 original size:16 final size:16
Alignment explanation
Indices: 44883820--44883902 Score: 58
Period size: 16 Copynumber: 4.9 Consensus size: 16
44883810 TTGTGTTTTA
*
44883820 AAAATTTTCGTGTTTC
1 AAAATTCTCGTGTTTC
* *
44883836 TAAAGTTCTCGTATTTC
1 -AAAATTCTCGTGTTTC
* * *
44883853 AAAATTTTCTGTATTTTAA
1 AAAATTCTC-GT-GTTT-C
* *
44883872 AAAATTATTGTGTTTC
1 AAAATTCTCGTGTTTC
44883888 AAAATTCTCGTGTTT
1 AAAATTCTCGTGTTT
44883903 TTTTAAAAAA
Statistics
Matches: 50, Mismatches: 13, Indels: 7
0.71 0.19 0.10
Matches are distributed among these distances:
16 20 0.40
17 18 0.36
18 5 0.10
19 7 0.14
ACGTcount: A:0.29, C:0.11, G:0.11, T:0.49
Consensus pattern (16 bp):
AAAATTCTCGTGTTTC
Found at i:44896064 original size:150 final size:148
Alignment explanation
Indices: 44895785--44896441 Score: 694
Period size: 150 Copynumber: 4.4 Consensus size: 148
44895775 CAAGAAATAT
* * * * **
44895785 TTTTCAATTTCTGTTTTTTTAAAAATCAACTCATAATGCAAGAGGTGAGTTGAGCCTTAGGCACA
1 TTTTCAATTTCT-ATTTTTCAAAAATCAACTCATAATGCGAGAAGTGAGTTGAGCCTCGGGCACA
* * * * *
44895850 TGCCAAGGTATTTCTCAATTTCTGTTTTTCAAAAAAATTAACTCATAATGCGAGAGGTGGGTTGA
65 CGCCGAGGTATTT-TCAATTTCTGTTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
44895915 GCCTCGGGTCACATCCTGAGGTA
128 GCCTCGGGTCACA--CTGAGGTA
44895938 TTTTCAATTTCTATTTTTCAAAAATCAACTCATAATGCGAGAAGTGAGTTGAGCCTCGGGC-CAC
1 TTTTCAATTTCTATTTTTCAAAAATCAACTCATAATGCGAGAAGTGAGTTGAGCCTCGGGCACAC
* * *
44896002 GCTGAGGTATTTTCAATTTTTGCTTTTCAAAAATATCAACTCATATTGCGAGAGGTGAGTTGAGC
66 GCCGAGGTATTTTCAATTTCTGTTTTTCAAAAA-ATCAACTCATATTGCGAGAGGTGAGTTGAGC
*
44896067 CTCGGGTCACACTGGGGTA
130 CTCGGGTCACACTGAGGTA
* * * * *
44896086 TTTTCAATTTATGTTTTTCAAAAAAATCAACTCATATTGCGAAAAGTGAGTTGAGCCTCAGGTCA
1 TTTTCAATTTCTATTTTTC--AAAAATCAACTCATAATGCGAGAAGTGAGTTGAGCCTC-GGGCA
* * *
44896151 CATGCTGAGGTATATTTTAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTG
63 CACGCCGAGGTAT-TTTCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTG
* **
44896216 AGCCTCAGGCTGCACACCAAGGTA
127 AGCCTC-GGGT-CACACTGAGGTA
* ** * * * * **
44896240 TTTTTAATTTCT-TTTTAAAAAAATCAATTCATAATGCGAGAGGTGAGTTGAGCCTTGAGCTATG
1 TTTTCAATTTCTATTTTTCAAAAATCAACTCATAATGCGAGAAGTGAGTTGAGCCTCGGGC-ACA
* * * *
44896304 CGCCGAGGAATTTTTAATTTCTGTTTTTC-AAAAATCAACTTATATTGCCAGAGGTGAGTTGAGC
65 CGCCGAGGTATTTTCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
** * *
44896368 CTTAGGTC-CTATGTCGAGGTGT
130 CTCGGGTCAC-A-CT-GAGGT-A
*** *
44896390 TTTTCAATTTCTATTTTTCAATTGTCAACTCATAAT-CTGATAAGTGAGTTGA
1 TTTTCAATTTCTATTTTTCAAAAATCAACTCATAATGC-GAGAAGTGAGTTGA
44896442 ACTTAGGATC
Statistics
Matches: 427, Mismatches: 62, Indels: 32
0.82 0.12 0.06
Matches are distributed among these distances:
146 1 0.00
147 2 0.00
148 26 0.06
149 44 0.10
150 121 0.28
151 86 0.20
152 89 0.21
153 39 0.09
154 19 0.04
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.35
Consensus pattern (148 bp):
TTTTCAATTTCTATTTTTCAAAAATCAACTCATAATGCGAGAAGTGAGTTGAGCCTCGGGCACAC
GCCGAGGTATTTTCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
TCGGGTCACACTGAGGTA
Found at i:44896339 original size:226 final size:223
Alignment explanation
Indices: 44895782--44896441 Score: 701
Period size: 226 Copynumber: 2.9 Consensus size: 223
44895772 TCTCAAGAAA
** *
44895782 TATTTTTCAATTTCTGTTTTTTTAAAAATCAACTCATAATGCAAGAGGTGAGTTGAGCCTT-AGG
1 TATTTTT-AATTTC--TTTTTAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTTGA-G
* * * * *
44895846 CACAT-GCCAAGGTATTTCTCAATTTCTGTTTTTCAAAAAAATTAACTCATAATGCGAGAGGTGG
62 C-TATCGCCGAGGTATTT-TCAATTTCTGTTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGA
* * *
44895910 GTTGAGCCTCGGGTCACATCCTGAGGTATTTTCAATTTCTATTTTTC-AAAAATCAACTCATAAT
124 GTTGAGCCTCAGGTCACATGCTGAGGTATTTTTAATTTCTATTTTTCAAAAAATCAACTCATAAT
* * **
44895974 GCGAGAAGTGAGTTGAGCCTCGGGCCACGCTGAGG
189 GCGAGAAGTGAGTTGAGCCTCAGGCCACACCAAGG
* * * * * *
44896009 TATTTTCAATTTTTGCTTTTCAAAAATATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG-GG
1 TATTTTTAA--TTT-CTTTTTAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTTGAGC
* * * * * *
44896073 TCA-CACTGGGGTATTTTCAATTTATGTTTTTCAAAAAAATCAACTCATATTGCGAAAAGTGAGT
63 T-ATCGCCGAGGTATTTTCAATTTCTGTTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGT
* *
44896137 TGAGCCTCAGGTCACATGCTGAGGTATATTTTAATTTCTGTTTTTCAAAAAATCAACTCATATTG
126 TGAGCCTCAGGTCACATGCTGAGGTAT-TTTTAATTTCTATTTTTCAAAAAATCAACTCATAATG
*
44896202 CGAGAGGTGAGTTGAGCCTCAGGCTGCACACCAAGG
190 CGAGAAGTGAGTTGAGCCTCAGGC--CACACCAAGG
*
44896238 TATTTTTAATTTCTTTTTAAAAAAATCAATTCATAATGCGAGAGGTGAGTTGAGCCTTGAGCTAT
1 TATTTTTAATTTCTTTTTAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTTGAGCTAT
* * * *
44896303 GCGCCGAGGAATTTTTAATTTCTGTTTTTC-AAAAATCAACTTATATTGCCAGAGGTGAGTTGAG
66 -CGCCGAGGTATTTTCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
* * ***
44896367 CCTTAGGTC-CTATG-TCGAGGTGTTTTTCAATTTCTATTTTTC-AATTGTCAACTCATAAT-CT
130 CCTCAGGTCAC-ATGCT-GAGGTATTTTT-AATTTCTATTTTTCAAAAAATCAACTCATAATGC-
*
44896428 GATAAGTGAGTTGA
191 GAGAAGTGAGTTGA
44896442 ACTTAGGATC
Statistics
Matches: 360, Mismatches: 56, Indels: 36
0.80 0.12 0.08
Matches are distributed among these distances:
224 1 0.00
225 98 0.27
226 131 0.36
227 88 0.24
228 26 0.07
229 16 0.04
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.35
Consensus pattern (223 bp):
TATTTTTAATTTCTTTTTAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTTGAGCTAT
CGCCGAGGTATTTTCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
CTCAGGTCACATGCTGAGGTATTTTTAATTTCTATTTTTCAAAAAATCAACTCATAATGCGAGAA
GTGAGTTGAGCCTCAGGCCACACCAAGG
Found at i:44896386 original size:75 final size:75
Alignment explanation
Indices: 44895782--44896425 Score: 628
Period size: 75 Copynumber: 8.5 Consensus size: 75
44895772 TCTCAAGAAA
* * *
44895782 TATTTTTCAATTTCTGTTTTTTTAAAAATCAACTCATAATGCAAGAGGTGAGTTGAGCCTTAGG-
1 TATTTTT-AATTTCTG-TTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCAGGT
*
44895846 CACATGCCAAGG
64 CACATGCCGAGG
* * * *
44895858 TATTTCTCAATTTCTGTTTTTCAAAAAAATTAACTCATAATGCGAGAGGTGGGTTGAGCCTCGGG
1 TATTT-TTAATTTCTGTTTTTC--AAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCAGG
44895923 TCACAT-CCTGAGG
63 TCACATGCC-GAGG
* * * *
44895936 TATTTTCAATTTCTATTTTTCAAAAATCAACTCATAATGCGAGAAGTGAGTTGAGCCTC-GGGC-
1 TATTTTTAATTTCTGTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCAGGTCA
* *
44895999 CACGCTGAGG
66 CATGCCGAGG
* * * * *
44896009 TATTTTCAATTTTTGCTTTTCAAAAATATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGT
1 TATTTTTAATTTCTGTTTTTC-AAAA-ATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCAGGT
44896074 CACACTG--G-GG
64 CACA-TGCCGAGG
* * * * *
44896084 TATTTTCAATTTATGTTTTTCAAAAAAATCAACTCATATTGCGAAAAGTGAGTTGAGCCTCAGGT
1 TATTTTTAATTTCTGTTTTTC--AAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCAGGT
*
44896149 CACATGCTGAGG
64 CACATGCCGAGG
*
44896161 TATATTTTAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGC
1 TAT-TTTTAATTTCTGTTTTTC-AAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCAGG-
*
44896226 TGCACA--CCAAGG
63 T-CACATGCCGAGG
** * * *
44896238 TATTTTTAATTTCT-TTTTAAAAAAATCAATTCATAATGCGAGAGGTGAGTTGAGCCTTGAGCT-
1 TATTTTTAATTTCTGTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCC-TCAGGTC
***
44896301 ATGCGCCGAGG
65 ACATGCCGAGG
* * * * *
44896312 AATTTTTAATTTCTGTTTTTCAAAAATCAACTTATATTGCCAGAGGTGAGTTGAGCCTTAGGTC-
1 TATTTTTAATTTCTGTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCAGGTCA
*
44896376 CTATGTCGAGG
66 C-ATGCCGAGG
* * ***
44896387 TGTTTTTCAATTTCTATTTTTCAATTGTCAACTCATAAT
1 TATTTTT-AATTTCTGTTTTTCAAAAATCAACTCATAAT
44896426 CTGATAAGTG
Statistics
Matches: 480, Mismatches: 63, Indels: 50
0.81 0.11 0.08
Matches are distributed among these distances:
72 1 0.00
73 24 0.05
74 67 0.14
75 186 0.39
76 59 0.12
77 108 0.22
78 31 0.06
79 4 0.01
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.36
Consensus pattern (75 bp):
TATTTTTAATTTCTGTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCAGGTCA
CATGCCGAGG
Found at i:44896776 original size:30 final size:30
Alignment explanation
Indices: 44896742--44896872 Score: 151
Period size: 30 Copynumber: 4.4 Consensus size: 30
44896732 CAAAAAATAT
*
44896742 AAATTACATTTTAGCCTCTAAACTTTTCAA
1 AAATTACATTTTAGCCCCTAAACTTTTCAA
*
44896772 AAATTACATTTTAGCCCTTAAACTTTTCAA
1 AAATTACATTTTAGCCCCTAAACTTTTCAA
* * *
44896802 AAATTACATTTTGGCCCCTAATAATTTT--T
1 AAATTACATTTTAGCCCCTAA-ACTTTTCAA
** *
44896831 AAATTACATTTGGGCCCCTAAAC-TTTCTAG
1 AAATTACATTTTAGCCCCTAAACTTTTC-AA
44896861 AAATTACATTTT
1 AAATTACATTTT
44896873 GGTCGCATAT
Statistics
Matches: 87, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
27 3 0.03
28 1 0.01
29 20 0.23
30 58 0.67
31 5 0.06
ACGTcount: A:0.34, C:0.19, G:0.06, T:0.40
Consensus pattern (30 bp):
AAATTACATTTTAGCCCCTAAACTTTTCAA
Found at i:44897564 original size:15 final size:15
Alignment explanation
Indices: 44897544--44897595 Score: 59
Period size: 15 Copynumber: 3.2 Consensus size: 15
44897534 CGCTCTGCCC
44897544 AAAGAAGAAAAAAAG
1 AAAGAAGAAAAAAAG
44897559 AAAGAAGAAAAAGAAGG
1 AAAGAAGAAAAA-AA-G
*
44897576 AGAGAAAGAAAAAATAG
1 AAAG-AAGAAAAAA-AG
44897593 AAA
1 AAA
44897596 AAAAGAAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
15 12 0.39
16 2 0.06
17 8 0.26
18 9 0.29
ACGTcount: A:0.75, C:0.00, G:0.23, T:0.02
Consensus pattern (15 bp):
AAAGAAGAAAAAAAG
Found at i:44897573 original size:21 final size:20
Alignment explanation
Indices: 44897548--44897603 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 20
44897538 CTGCCCAAAG
44897548 AAGAAAAAAAGAAAGAAGAAA
1 AAGAAAAAAAGAAAGAA-AAA
** *
44897569 AAGAAGGAGAGAAAGAAAAA
1 AAGAAAAAAAGAAAGAAAAA
44897589 ATAGAAAAAAAGAAA
1 A-AGAAAAAAAGAAA
44897604 TAGAAAAGTC
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
20 4 0.14
21 24 0.86
ACGTcount: A:0.77, C:0.00, G:0.21, T:0.02
Consensus pattern (20 bp):
AAGAAAAAAAGAAAGAAAAA
Found at i:44897610 original size:21 final size:20
Alignment explanation
Indices: 44897548--44897610 Score: 56
Period size: 21 Copynumber: 3.0 Consensus size: 20
44897538 CTGCCCAAAG
44897548 AAGAAAAAAAGAAAGAAGAAA
1 AAGAAAAAAAGAAA-AAGAAA
** *
44897569 AAGAAGGAGAGAAAGAA-AAA
1 AAGAAAAAAAGAAA-AAGAAA
*
44897589 ATAGAAAAAAAGAAATAGAAA
1 A-AGAAAAAAAGAAAAAGAAA
44897610 A
1 A
44897611 GTCAGTTGAC
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
20 5 0.15
21 28 0.85
ACGTcount: A:0.76, C:0.00, G:0.21, T:0.03
Consensus pattern (20 bp):
AAGAAAAAAAGAAAAAGAAA
Found at i:44897957 original size:13 final size:13
Alignment explanation
Indices: 44897939--44898027 Score: 67
Period size: 13 Copynumber: 6.6 Consensus size: 13
44897929 GCAGCAGGCC
44897939 AAAAAAAGAAGAG
1 AAAAAAAGAAGAG
44897952 AAAAAAAGAAGA-
1 AAAAAAAGAAGAG
* * *
44897964 AAAAATAGCAACCAAA
1 AAAAAAAG-AA--GAG
44897980 AAGAAAAAGAAGAG
1 AA-AAAAAGAAGAG
*
44897994 GAAAAAA-AAGAG
1 AAAAAAAGAAGAG
44898006 AAAAAAAAGAAGA-
1 -AAAAAAAGAAGAG
44898019 AAGAAAAAG
1 AA-AAAAAG
44898028 GGGCCCAAGT
Statistics
Matches: 61, Mismatches: 7, Indels: 16
0.73 0.08 0.19
Matches are distributed among these distances:
12 14 0.23
13 31 0.51
14 6 0.10
15 1 0.02
16 4 0.07
17 5 0.08
ACGTcount: A:0.76, C:0.03, G:0.19, T:0.01
Consensus pattern (13 bp):
AAAAAAAGAAGAG
Found at i:44897966 original size:23 final size:23
Alignment explanation
Indices: 44897940--44898027 Score: 60
Period size: 23 Copynumber: 3.9 Consensus size: 23
44897930 CAGCAGGCCA
44897940 AAAAAAGAAGAGAAAAAAAGAAG
1 AAAAAAGAAGAGAAAAAAAGAAG
* * **
44897963 AAAAAA-TAG-CAACCAAA-AAG
1 AAAAAAGAAGAGAAAAAAAGAAG
*
44897983 -AAAAAGAAGAGGAAAAAAAAGAGAA
1 AAAAAAGAAGA-G-AAAAAAAGA-AG
44898008 AAAAAAGAAGA-AAGAAAAAG
1 AAAAAAGAAGAGAA-AAAAAG
44898028 GGGCCCAAGT
Statistics
Matches: 48, Mismatches: 9, Indels: 15
0.67 0.12 0.21
Matches are distributed among these distances:
19 5 0.10
20 5 0.10
21 5 0.10
22 2 0.04
23 13 0.27
24 7 0.15
25 1 0.02
26 10 0.21
ACGTcount: A:0.76, C:0.03, G:0.19, T:0.01
Consensus pattern (23 bp):
AAAAAAGAAGAGAAAAAAAGAAG
Found at i:44897997 original size:12 final size:11
Alignment explanation
Indices: 44897977--44898027 Score: 59
Period size: 12 Copynumber: 4.5 Consensus size: 11
44897967 AATAGCAACC
44897977 AAAA-AGAAAA
1 AAAAGAGAAAA
*
44897987 AGAAGAGGAAAA
1 AAAAGA-GAAAA
44897999 AAAAGAGAAAA
1 AAAAGAGAAAA
44898010 AAAAGAAGAAAGA
1 AAAAG-AGAAA-A
44898023 AAAAG
1 AAAAG
44898028 GGGCCCAAGT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
10 3 0.09
11 11 0.31
12 15 0.43
13 6 0.17
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (11 bp):
AAAAGAGAAAA
Found at i:44898581 original size:33 final size:33
Alignment explanation
Indices: 44898510--44898602 Score: 93
Period size: 33 Copynumber: 2.8 Consensus size: 33
44898500 AAAAAAAAAT
* **
44898510 AAAAAAATTCGTG-TTTCAAAAAATTTCCATGTTG
1 AAAAAAATTCGTGTTTTC--AAAATTTTCATGTCC
44898544 AAAAAAATTCGTGTTTTCAAAATTTTCATGTCC
1 AAAAAAATTCGTGTTTTCAAAATTTTCATGTCC
*
44898577 --AAAAATTCTTGTATTTCATAAATTTT
1 AAAAAAATTCGTGT-TTTCA-AAATTTT
44898603 TGTGTTAAAA
Statistics
Matches: 52, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
31 11 0.21
32 5 0.10
33 19 0.37
34 13 0.25
35 4 0.08
ACGTcount: A:0.39, C:0.12, G:0.09, T:0.41
Consensus pattern (33 bp):
AAAAAAATTCGTGTTTTCAAAATTTTCATGTCC
Found at i:44898614 original size:33 final size:31
Alignment explanation
Indices: 44898511--44898630 Score: 89
Period size: 33 Copynumber: 3.6 Consensus size: 31
44898501 AAAAAAAATA
* *
44898511 AAAAAATTCGTG-TTTCAAAAAATTTCCATGTTGA
1 AAAAAATTCGTGTTTTC--AAAATTTTCATG-T-C
44898545 AAAAAATTCGTGTTTTCAAAATTTTCATGTC
1 AAAAAATTCGTGTTTTCAAAATTTTCATGTC
* * ** *
44898576 CAAAAATTCTTGTATTTCATAAATTTTTGTGTT
1 AAAAAATTCGTGT-TTTCA-AAATTTTCATGTC
44898609 AAAAAATTTTCCGTGTTTTCAA
1 AAAAAA--TT-CGTGTTTTCAA
44898631 CAAAATTTTG
Statistics
Matches: 71, Mismatches: 9, Indels: 12
0.77 0.10 0.13
Matches are distributed among these distances:
31 11 0.15
32 6 0.08
33 26 0.37
34 13 0.18
35 11 0.15
36 4 0.06
ACGTcount: A:0.36, C:0.12, G:0.10, T:0.42
Consensus pattern (31 bp):
AAAAAATTCGTGTTTTCAAAATTTTCATGTC
Found at i:44898686 original size:19 final size:18
Alignment explanation
Indices: 44898641--44898689 Score: 64
Period size: 18 Copynumber: 2.7 Consensus size: 18
44898631 CAAAATTTTG
*
44898641 TTTCTAAAA-TTCTCGTA
1 TTTCAAAAATTTCTCGTA
*
44898658 TTTCAAAAATTTCTCGTG
1 TTTCAAAAATTTCTCGTA
44898676 TTTCAAAAAATTTC
1 TTTC-AAAAATTTC
44898690 GTGTTTTCAG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.29
18 11 0.39
19 9 0.32
ACGTcount: A:0.33, C:0.16, G:0.06, T:0.45
Consensus pattern (18 bp):
TTTCAAAAATTTCTCGTA
Found at i:44898691 original size:17 final size:17
Alignment explanation
Indices: 44898510--44898695 Score: 93
Period size: 17 Copynumber: 10.9 Consensus size: 17
44898500 AAAAAAAAAT
*
44898510 AAAAAAATTCGTGTTTC
1 AAAAAATTTCGTGTTTC
* *
44898527 AAAAAATTTCCATG-TTG
1 AAAAAATTT-CGTGTTTC
*
44898544 AAAAAAATTCGTGTTTTC
1 AAAAAATTTCGTG-TTTC
* *
44898562 -AAAATTTTCATG--TC
1 AAAAAATTTCGTGTTTC
* * *
44898576 CAAAAATTCTTGTATTTC
1 AAAAAATT-TCGTGTTTC
* * *
44898594 ATAAATTTTTGTG-TT-
1 AAAAAATTTCGTGTTTC
44898609 AAAAAATTTTCCGTGTTTTC
1 AAAAAA-TTT-CGTG-TTTC
44898629 AACAAAATTT--TGTTTC
1 AA-AAAATTTCGTGTTTC
* *
44898645 -TAAAATTCTCGTATTTC
1 AAAAAATT-TCGTGTTTC
*
44898662 AAAAATTTCTCGTGTTTC
1 AAAAAATT-TCGTGTTTC
44898680 AAAAAATTTCGTGTTT
1 AAAAAATTTCGTGTTT
44898696 TCAGAATAAA
Statistics
Matches: 126, Mismatches: 26, Indels: 34
0.68 0.14 0.18
Matches are distributed among these distances:
14 8 0.06
15 11 0.09
16 14 0.11
17 49 0.39
18 33 0.26
19 2 0.02
20 5 0.04
21 4 0.03
ACGTcount: A:0.34, C:0.12, G:0.10, T:0.44
Consensus pattern (17 bp):
AAAAAATTTCGTGTTTC
Found at i:44898719 original size:93 final size:91
Alignment explanation
Indices: 44898608--44898777 Score: 218
Period size: 93 Copynumber: 1.8 Consensus size: 91
44898598 ATTTTTGTGT
* *
44898608 TAAAAAATTTTCCGTGTTTTCAACAAAATTT-TGTTTCTAAAATTCTCGTATTTCAAAAATTTCT
1 TAAAAAAGTTTCCATGTTTT--A-AAAATTTCTGTTTCTAAAATTCTCGTATTTCAAAAATTTC-
* *
44898672 CGTGTTTCAAAAAATTTCGTGTTTTCAGAA
62 CGTATTTAAAAAAATTTCGTGTTTTCAGAA
* *
44898702 TAAAAAAGTTT-CATGTTTTAAAAATTTCCGTGTTTCTAAAGTTCTCGTATTTCAAAATTTTCCG
1 TAAAAAAGTTTCCATGTTTTAAAAATTT-C-TGTTTCTAAAATTCTCGTATTTCAAAAATTTCCG
44898766 TATTTAAAAAAA
64 TATTTAAAAAAA
44898778 ATTATTGTGT
Statistics
Matches: 67, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
90 7 0.10
91 1 0.01
92 12 0.18
93 37 0.55
94 10 0.15
ACGTcount: A:0.35, C:0.13, G:0.09, T:0.43
Consensus pattern (91 bp):
TAAAAAAGTTTCCATGTTTTAAAAATTTCTGTTTCTAAAATTCTCGTATTTCAAAAATTTCCGTA
TTTAAAAAAATTTCGTGTTTTCAGAA
Found at i:44898741 original size:18 final size:18
Alignment explanation
Indices: 44898610--44898741 Score: 57
Period size: 17 Copynumber: 7.2 Consensus size: 18
44898600 TTTTGTGTTA
*
44898610 AAAAATTTTCCGTGTTTTCA
1 AAAAA-TTTCCGTG-TTTCT
44898630 ACAAAATTT---TGTTTCT
1 A-AAAATTTCCGTGTTTCT
*
44898646 -AAAA-TTCTCGTATTTC-
1 AAAAATTTC-CGTGTTTCT
*
44898662 AAAAATTTCTCGTGTTTCA
1 AAAAATTTC-CGTGTTTCT
44898681 AAAAATTT-CGTGTTTTCAGAAT
1 AAAAATTTCCGTG-TTTC----T
*
44898703 AAAAAAGTTT-CATGTTT-T
1 -AAAAA-TTTCCGTGTTTCT
44898721 AAAAATTTCCGTGTTTCT
1 AAAAATTTCCGTGTTTCT
44898739 AAA
1 AAA
44898742 GTTCTCGTAT
Statistics
Matches: 89, Mismatches: 6, Indels: 36
0.68 0.05 0.27
Matches are distributed among these distances:
13 2 0.02
14 4 0.04
16 7 0.08
17 26 0.29
18 20 0.22
19 8 0.09
20 4 0.04
21 4 0.04
23 8 0.09
24 6 0.07
ACGTcount: A:0.34, C:0.13, G:0.10, T:0.43
Consensus pattern (18 bp):
AAAAATTTCCGTGTTTCT
Found at i:44905849 original size:23 final size:23
Alignment explanation
Indices: 44905823--44905868 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
44905813 AATAAAGGAG
*
44905823 ATAAACACAAAATTAGGATTTTC
1 ATAAACACAAAATCAGGATTTTC
*
44905846 ATAAACATAAAATCAGGATTTTC
1 ATAAACACAAAATCAGGATTTTC
44905869 GATGATTCTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.48, C:0.13, G:0.09, T:0.30
Consensus pattern (23 bp):
ATAAACACAAAATCAGGATTTTC
Found at i:44906903 original size:21 final size:21
Alignment explanation
Indices: 44906879--44906918 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
44906869 CAAAACAACG
44906879 TAGTTTT-ACCTTTTAACTTGA
1 TAGTTTTGA-CTTTTAACTTGA
44906900 TAGTTTTGACTTTTAACTT
1 TAGTTTTGACTTTTAACTT
44906919 TAGAAAAGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.23, C:0.12, G:0.10, T:0.55
Consensus pattern (21 bp):
TAGTTTTGACTTTTAACTTGA
Found at i:44907273 original size:17 final size:16
Alignment explanation
Indices: 44907230--44907274 Score: 56
Period size: 17 Copynumber: 2.8 Consensus size: 16
44907220 TTAAATTTTT
44907230 ATATAATTTTTAAAAA
1 ATATAATTTTTAAAAA
44907246 A-ATTATATTTTTAAAAA
1 ATA-TA-ATTTTTAAAAA
*
44907263 ATATAAGTTTTA
1 ATATAATTTTTA
44907275 GAATTTCTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
15 1 0.04
16 9 0.36
17 14 0.56
18 1 0.04
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (16 bp):
ATATAATTTTTAAAAA
Found at i:44907299 original size:19 final size:20
Alignment explanation
Indices: 44907270--44907325 Score: 62
Period size: 19 Copynumber: 2.8 Consensus size: 20
44907260 AAAATATAAG
*
44907270 TTTTAGAATTTCTATAAA-TA
1 TTTTAGAATTT-TAAAAATTA
44907290 TTTT-GAATTTTAAAAATTA
1 TTTTAGAATTTTAAAAATTA
*
44907309 TTTTCAAAATTTTAAAA
1 TTTT-AGAATTTTAAAA
44907326 TTACTTTAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
18 5 0.16
19 12 0.39
20 4 0.13
21 10 0.32
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.50
Consensus pattern (20 bp):
TTTTAGAATTTTAAAAATTA
Found at i:44907341 original size:20 final size:20
Alignment explanation
Indices: 44907295--44907341 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
44907285 AAATATTTTG
* *
44907295 AATTTTAAAAATTATTTTCA
1 AATTTTTAAAATTACTTTCA
*
44907315 AAATTTTAAAATTACTTT-A
1 AATTTTTAAAATTACTTTCA
44907334 ATATTTTT
1 A-ATTTTT
44907342 GTAATTTTTG
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
19 2 0.09
20 20 0.91
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (20 bp):
AATTTTTAAAATTACTTTCA
Found at i:44907432 original size:9 final size:9
Alignment explanation
Indices: 44907418--44907443 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
44907408 TACTAATCTA
44907418 TTATTTGAG
1 TTATTTGAG
44907427 TTATTTGAG
1 TTATTTGAG
44907436 TTATTTGA
1 TTATTTGA
44907444 ATTGTAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.23, C:0.00, G:0.19, T:0.58
Consensus pattern (9 bp):
TTATTTGAG
Found at i:44907629 original size:77 final size:76
Alignment explanation
Indices: 44907541--44907695 Score: 283
Period size: 77 Copynumber: 2.0 Consensus size: 76
44907531 AACTCGAATT
*
44907541 TAAATTTTTTTCGATTTTTCAAATCGAATCGAATTTTACTCACCCTTATGAGAGGCCCAAAACCC
1 TAAATTTTTTTCGATTTTTCAAATCGAATCGAATTTTACTCACCCTTAGGAGAGGCCCAAAACCC
44907606 CTCATAATACA
66 CTCATAATACA
*
44907617 TAAATTCTTTTTCGATTTTTCAAATCGAATCGAATTTTGCTCACCCTTAGGAGAGGCCCAAAACC
1 TAAATT-TTTTTCGATTTTTCAAATCGAATCGAATTTTACTCACCCTTAGGAGAGGCCCAAAACC
44907682 CCTCATAATACA
65 CCTCATAATACA
44907694 TA
1 TA
44907696 TAGGGGGCGA
Statistics
Matches: 76, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
76 6 0.08
77 70 0.92
ACGTcount: A:0.32, C:0.24, G:0.10, T:0.34
Consensus pattern (76 bp):
TAAATTTTTTTCGATTTTTCAAATCGAATCGAATTTTACTCACCCTTAGGAGAGGCCCAAAACCC
CTCATAATACA
Found at i:44909654 original size:53 final size:53
Alignment explanation
Indices: 44909574--44909682 Score: 148
Period size: 53 Copynumber: 2.1 Consensus size: 53
44909564 CACATAATAA
* * *
44909574 AAATGGAAATATTTCATTAAAGAACAT-ATGAAAAGTTCTATTATATTCTTTCC
1 AAATGAAAATATTCCATTAAAGAACATAAAG-AAAGTTCTATTATATTCTTTCC
* * *
44909627 AAATGAAAATATTCCATTAGAGAACATAAAGAAAGTTTTATTATATTTTTTCC
1 AAATGAAAATATTCCATTAAAGAACATAAAGAAAGTTCTATTATATTCTTTCC
44909680 AAA
1 AAA
44909683 AGAATATTAT
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
53 47 0.96
54 2 0.04
ACGTcount: A:0.44, C:0.10, G:0.09, T:0.37
Consensus pattern (53 bp):
AAATGAAAATATTCCATTAAAGAACATAAAGAAAGTTCTATTATATTCTTTCC
Found at i:44911959 original size:16 final size:16
Alignment explanation
Indices: 44911935--44911965 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
44911925 GGTATTTGGG
44911935 AAGAAAAAAATAAAAA
1 AAGAAAAAAATAAAAA
*
44911951 AAGATAAAAATAAAA
1 AAGAAAAAAATAAAA
44911966 TTTGATTAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.84, C:0.00, G:0.06, T:0.10
Consensus pattern (16 bp):
AAGAAAAAAATAAAAA
Found at i:44924995 original size:21 final size:21
Alignment explanation
Indices: 44924971--44925016 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
44924961 GGGTCTACAA
* *
44924971 GCCCATGTGCATGCCACAAAC
1 GCCCATGTGAAGGCCACAAAC
* *
44924992 GCCCGTGTGAAGGCCACACAC
1 GCCCATGTGAAGGCCACAAAC
44925013 GCCC
1 GCCC
44925017 GCGTGGAGGG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.24, C:0.41, G:0.24, T:0.11
Consensus pattern (21 bp):
GCCCATGTGAAGGCCACAAAC
Found at i:44925017 original size:21 final size:21
Alignment explanation
Indices: 44924983--44925036 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
44924973 CCATGTGCAT
* *
44924983 GCCACAAACGCCCGTGTGAAG
1 GCCACACACGCCCGCGTGAAG
*
44925004 GCCACACACGCCCGCGTGGAG
1 GCCACACACGCCCGCGTGAAG
**
44925025 GGGACACACGCC
1 GCCACACACGCC
44925037 TATGTGAGCA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.24, C:0.39, G:0.31, T:0.06
Consensus pattern (21 bp):
GCCACACACGCCCGCGTGAAG
Found at i:44928659 original size:47 final size:47
Alignment explanation
Indices: 44928588--44928896 Score: 528
Period size: 47 Copynumber: 6.6 Consensus size: 47
44928578 CCCTTCGGGA
* * * * * *
44928588 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
44928635 CCTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
44928682 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
44928729 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
44928776 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
44928823 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
44928870 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
44928897 TATTCAAATA
Statistics
Matches: 252, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 252 1.00
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:44928666 original size:25 final size:25
Alignment explanation
Indices: 44928638--44928716 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 25
44928628 ACTCGGCCCT
44928638 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
** * * *
44928663 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATACACTTTC-ACATTC
44928685 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
44928710 ATCACAT
1 ATCACAT
44928717 CGGCCATTAG
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 11 0.28
23 5 0.13
24 5 0.13
25 18 0.46
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.34
Consensus pattern (25 bp):
ATCACATATATACACTTTCACATTC
Found at i:44932758 original size:25 final size:25
Alignment explanation
Indices: 44932723--44932772 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
44932713 GGAATTCGCA
44932723 CACACACAGTGC-CTCTAATCATTCG
1 CACACACAGTGCTCT-TAATCATTCG
* *
44932748 CACACATAGTGCTCTTATTCATTCG
1 CACACACAGTGCTCTTAATCATTCG
44932773 TATTTGCACA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 20 0.91
26 2 0.09
ACGTcount: A:0.26, C:0.32, G:0.12, T:0.30
Consensus pattern (25 bp):
CACACACAGTGCTCTTAATCATTCG
Found at i:44932982 original size:40 final size:40
Alignment explanation
Indices: 44932948--44933139 Score: 276
Period size: 40 Copynumber: 4.8 Consensus size: 40
44932938 CCAGCATGAT
* * * *
44932948 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
** * *
44932988 TGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
** *
44933028 TGCTCTTCGAAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
44933068 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
44933108 TGCTCTTCGGGACTTAGCCCGGATACATCACT
1 TGCTCTTCGGGACTTAGCCCGGATACATCACT
44933140 CTCAATTCTC
Statistics
Matches: 136, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 136 1.00
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:44934620 original size:47 final size:47
Alignment explanation
Indices: 44934549--44934763 Score: 340
Period size: 47 Copynumber: 4.6 Consensus size: 47
44934539 CCCTTCGGGA
* * * * * *
44934549 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
44934596 CCTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
44934643 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
44934690 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
44934737 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
44934764 TATTCAAATA
Statistics
Matches: 158, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 158 1.00
ACGTcount: A:0.29, C:0.31, G:0.07, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:44934627 original size:25 final size:25
Alignment explanation
Indices: 44934599--44934677 Score: 85
Period size: 25 Copynumber: 3.3 Consensus size: 25
44934589 ACTCGGCCCT
44934599 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
** * *
44934624 ATCACAT-T-GGC-CATTCGACCTT-
1 ATCACATATATACACTTTC-ACATTC
44934646 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
44934671 ATCACAT
1 ATCACAT
44934678 CGGCCATTAG
Statistics
Matches: 41, Mismatches: 8, Indels: 10
0.69 0.14 0.17
Matches are distributed among these distances:
22 11 0.27
23 6 0.15
24 6 0.15
25 18 0.44
ACGTcount: A:0.33, C:0.29, G:0.04, T:0.34
Consensus pattern (25 bp):
ATCACATATATACACTTTCACATTC
Found at i:44954144 original size:22 final size:22
Alignment explanation
Indices: 44954117--44954158 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
44954107 AACTAAGAAC
44954117 TTGTAGTACTCATAACGAGTTA
1 TTGTAGTACTCATAACGAGTTA
44954139 TTGTAGTACTCATAACGAGT
1 TTGTAGTACTCATAACGAGT
44954159 CCTAAAAGCC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.31, C:0.14, G:0.19, T:0.36
Consensus pattern (22 bp):
TTGTAGTACTCATAACGAGTTA
Found at i:44957945 original size:12 final size:12
Alignment explanation
Indices: 44957924--44957953 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
44957914 CCTTGTCTCA
44957924 CACACAGCCAGC
1 CACACAGCCAGC
*
44957936 CACACGGCCAGC
1 CACACAGCCAGC
44957948 CACACA
1 CACACA
44957954 CTCGTTTGGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.33, C:0.50, G:0.17, T:0.00
Consensus pattern (12 bp):
CACACAGCCAGC
Found at i:44959270 original size:11 final size:10
Alignment explanation
Indices: 44959249--44959349 Score: 63
Period size: 10 Copynumber: 10.5 Consensus size: 10
44959239 TTATTAAAAG
44959249 TAAAAAA-TA
1 TAAAAAATTA
44959258 TAAAAAAGTTA
1 TAAAAAA-TTA
44959269 T--AAAATTA
1 TAAAAAATTA
*
44959277 TTAAAAATTA
1 TAAAAAATTA
*
44959287 TAAAAACTTA
1 TAAAAAATTA
*
44959297 T---AAATTT
1 TAAAAAATTA
44959304 TAAAAATATTA
1 TAAAAA-ATTA
**
44959315 -AAAATGCTTA
1 TAAAA-AATTA
*
44959325 TAAAAAATTC
1 TAAAAAATTA
*
44959335 TAAATAATTA
1 TAAAAAATTA
44959345 TAAAA
1 TAAAA
44959350 TAATAAAAAT
Statistics
Matches: 69, Mismatches: 13, Indels: 19
0.68 0.13 0.19
Matches are distributed among these distances:
7 5 0.07
8 4 0.06
9 11 0.16
10 39 0.57
11 10 0.14
ACGTcount: A:0.61, C:0.03, G:0.02, T:0.34
Consensus pattern (10 bp):
TAAAAAATTA
Done.