Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D11
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: 68311261
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 408745 characters in sequence are not A, C, G, or T
File 134 of 226
Found at i:41697665 original size:61 final size:61
Alignment explanation
Indices: 41697594--41697755 Score: 227
Period size: 66 Copynumber: 2.6 Consensus size: 61
41697584 CCTTCTAGCC
*
41697594 TCTGCCGATTTGCTCCCTCCATTTCTTTTCTTTTCTGCCCTCTGTTTATTTTCTTTTCTTT
1 TCTGCCGATTTGCTCCCTTCATTTCTTTTCTTTTCTGCCCTCTGTTTATTTTCTTTTCTTT
*
41697655 TCTGCCGATTTGCTCTCTCCGTTTCTTTTCTTTTCTTTTCTGCCCTCTGTTTATTTTCTTTTCTT
1 TCTGCCGATTTG--CTC-CC--TTCATTTCTTTTCTTTTCTGCCCTCTGTTTATTTTCTTTTCTT
41697720 T
61 T
* **
41697721 TCTGCCAATTTGCTCCCTTTGTTT-TTTTCTTTTCT
1 TCTGCCGATTTGCTCCCTTCATTTCTTTTCTTTTCT
41697756 TTTCTGCCAA
Statistics
Matches: 91, Mismatches: 5, Indels: 11
0.85 0.05 0.10
Matches are distributed among these distances:
60 11 0.12
61 17 0.19
63 5 0.05
64 5 0.05
66 53 0.58
ACGTcount: A:0.04, C:0.28, G:0.09, T:0.59
Consensus pattern (61 bp):
TCTGCCGATTTGCTCCCTTCATTTCTTTTCTTTTCTGCCCTCTGTTTATTTTCTTTTCTTT
Found at i:41697684 original size:38 final size:36
Alignment explanation
Indices: 41697633--41697770 Score: 150
Period size: 38 Copynumber: 4.0 Consensus size: 36
41697623 CTTTTCTGCC
*
41697633 CTCTGTTTATTTTCTTTTCTTTTCTGCCGATTTGCT
1 CTCTGTTTATTTTCTTTTCTTTTCTGCCAATTTGCT
*
41697669 CTCTCCGTTTCTTTTCTTTTCTTTTCTG-C------C-
1 CTCT--GTTTATTTTCTTTTCTTTTCTGCCAATTTGCT
41697699 CTCTGTTTATTTTCTTTTCTTTTCTGCCAATTTGCT
1 CTCTGTTTATTTTCTTTTCTTTTCTGCCAATTTGCT
*
41697735 CCCTTTGTTT-TTTTCTTTTCTTTTCTGCCAATTTGC
1 --CTCTGTTTATTTTCTTTTCTTTTCTGCCAATTTGC
41697771 CAGTTTCTGC
Statistics
Matches: 87, Mismatches: 3, Indels: 23
0.77 0.03 0.20
Matches are distributed among these distances:
28 21 0.24
29 1 0.01
30 4 0.05
31 1 0.01
35 1 0.01
36 4 0.05
37 27 0.31
38 28 0.32
ACGTcount: A:0.05, C:0.25, G:0.09, T:0.61
Consensus pattern (36 bp):
CTCTGTTTATTTTCTTTTCTTTTCTGCCAATTTGCT
Found at i:41697710 original size:66 final size:65
Alignment explanation
Indices: 41697615--41697763 Score: 253
Period size: 66 Copynumber: 2.3 Consensus size: 65
41697605 GCTCCCTCCA
* *
41697615 TTTCTTTTCTTTTCTGCCCTCTGTTTATTTTCTTTTCTTTTCTGCCGATTTGCTCTCTCCGTTTC
1 TTTCTTTTCTTTTCTGCCCTCTGTTTATTTTCTTTTCTTTTCTGCCAATTTGCTCCCTCCGTTT-
41697680 T
65 T
**
41697681 TTTCTTTTCTTTTCTGCCCTCTGTTTATTTTCTTTTCTTTTCTGCCAATTTGCTCCCTTTGTTTT
1 TTTCTTTTCTTTTCTGCCCTCTGTTTATTTTCTTTTCTTTTCTGCCAATTTGCTCCCTCCGTTTT
41697746 TTTCTTTTCTTTTCTGCC
1 TTTCTTTTCTTTTCTGCC
41697764 AATTTGCCAG
Statistics
Matches: 79, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
65 19 0.24
66 60 0.76
ACGTcount: A:0.03, C:0.26, G:0.08, T:0.62
Consensus pattern (65 bp):
TTTCTTTTCTTTTCTGCCCTCTGTTTATTTTCTTTTCTTTTCTGCCAATTTGCTCCCTCCGTTTT
Found at i:41697758 original size:37 final size:38
Alignment explanation
Indices: 41697631--41697770 Score: 158
Period size: 37 Copynumber: 4.0 Consensus size: 38
41697621 TTCTTTTCTG
*
41697631 CCCTCTGTTTATTTTCTTTTCTTTTCTGCCGATTTGCT
1 CCCTCTGTTTATTTTCTTTTCTTTTCTGCCAATTTGCT
* * *
41697669 CTCTCCGTTTCTTTTCTTTTC-TTT-T--C----TG--
1 CCCTCTGTTTATTTTCTTTTCTTTTCTGCCAATTTGCT
41697697 CCCTCTGTTTATTTTCTTTTCTTTTCTGCCAATTTGCT
1 CCCTCTGTTTATTTTCTTTTCTTTTCTGCCAATTTGCT
*
41697735 CCCTTTGTTT-TTTTCTTTTCTTTTCTGCCAATTTGC
1 CCCTCTGTTTATTTTCTTTTCTTTTCTGCCAATTTGC
41697771 CAGTTTCTGC
Statistics
Matches: 85, Mismatches: 7, Indels: 21
0.75 0.06 0.19
Matches are distributed among these distances:
28 18 0.21
29 3 0.04
30 3 0.04
32 1 0.01
34 1 0.01
36 3 0.04
37 29 0.34
38 27 0.32
ACGTcount: A:0.05, C:0.26, G:0.09, T:0.60
Consensus pattern (38 bp):
CCCTCTGTTTATTTTCTTTTCTTTTCTGCCAATTTGCT
Found at i:41698332 original size:7 final size:7
Alignment explanation
Indices: 41698317--41698350 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
41698307 ATTGTTGATA
41698317 CTGTTGT
1 CTGTTGT
*
41698324 CTATTGT
1 CTGTTGT
41698331 CTGTTGT
1 CTGTTGT
41698338 CTGTTGT
1 CTGTTGT
*
41698345 TTGTTG
1 CTGTTG
41698351 ATGTGTTTTG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.03, C:0.12, G:0.26, T:0.59
Consensus pattern (7 bp):
CTGTTGT
Found at i:41703022 original size:69 final size:70
Alignment explanation
Indices: 41702890--41703022 Score: 214
Period size: 69 Copynumber: 1.9 Consensus size: 70
41702880 TAGTTTATTA
* * * * *
41702890 CTAATTAATTTGCTGCTGTAATGCTGTAAATTATTGGCTGTCCAAATTAGGACAAATTTATGGTA
1 CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGTA
41702955 CTTAG
66 CTTAG
41702960 CTAATTAATATGCTGCTGTAATACT-TAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGT
1 CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGT
41703023 GTTATGTGCT
Statistics
Matches: 58, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
69 35 0.60
70 23 0.40
ACGTcount: A:0.32, C:0.14, G:0.17, T:0.37
Consensus pattern (70 bp):
CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGTA
CTTAG
Found at i:41704563 original size:47 final size:47
Alignment explanation
Indices: 41704486--41705047 Score: 845
Period size: 47 Copynumber: 12.0 Consensus size: 47
41704476 TTAGGATTTT
** *
41704486 ATGTGATGAATGTGAATGTGTATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * *
41704533 ATTTGATAAATGTGAGCATGCATATGTGTGATAAGGCTGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
41704580 ATGTGGTGAATATGAACATGTATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
41704627 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
41704674 ATGTGGTGAATATGAACATGCATATATGTGATAAGGCCGAATGGCCT
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
41704721 ATGTGATGAATGTGAACATGCATATATGTGATGAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
41704768 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
41704815 ATGTGGTGAATATGAACATGCATATATGTGATAAGGCCGAATGGCCT
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
41704862 ATGTGATGAATGTGAACATGCATATATGTGATGAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
41704909 ATGTGATGAATGTGAGCATGCATATATATGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
41704956 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * *
41705003 ATGTGGTGAATATGAACATGCATATATGTGGTAAAGCCGAATGGC
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGC
41705048 TAGTGTGAAA
Statistics
Matches: 462, Mismatches: 53, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 462 1.00
ACGTcount: A:0.32, C:0.12, G:0.29, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:41704682 original size:25 final size:25
Alignment explanation
Indices: 41704607--41704682 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
41704597 ATGTATATAT
41704607 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
41704632 ATGA-ATGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
41704654 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
41704679 GTGA
1 GTGA
41704683 ATATGAACAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.13, G:0.34, T:0.24
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:41705011 original size:25 final size:25
Alignment explanation
Indices: 41704937--41705011 Score: 61
Period size: 23 Copynumber: 3.1 Consensus size: 25
41704927 TGCATATATA
*
41704937 TGATAAGGCCGAATGGCCAATGTGA
1 TGATAAGGCCGAATGGCCAATGTGG
* * *
41704962 TGA-ATGTG-AGCAT-G-CATATGT-G
1 TGATAAG-GCCGAATGGCCA-ATGTGG
41704984 TGATAAGGCCGAATGGCCAATGTGG
1 TGATAAGGCCGAATGGCCAATGTGG
41705009 TGA
1 TGA
41705012 ATATGAACAT
Statistics
Matches: 36, Mismatches: 7, Indels: 14
0.63 0.12 0.25
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.13, G:0.33, T:0.24
Consensus pattern (25 bp):
TGATAAGGCCGAATGGCCAATGTGG
Found at i:41705315 original size:37 final size:37
Alignment explanation
Indices: 41705212--41705323 Score: 161
Period size: 37 Copynumber: 3.0 Consensus size: 37
41705202 AATATATTCT
* * *
41705212 GGGTGAGACCCGATGACTACGTGTGGAGAGTATGTCC
1 GGGTAAGACCCGATGACTACGTGTGGAGATTTTGTCC
*
41705249 AGGTAAGACCCGATGACTACGTGTGGAGATTTTGTCC
1 GGGTAAGACCCGATGACTACGTGTGGAGATTTTGTCC
* * *
41705286 GGGTAAGACCCGATAACTTCGTGTGGAGATTTCGTCC
1 GGGTAAGACCCGATGACTACGTGTGGAGATTTTGTCC
41705323 G
1 G
41705324 AGCTAAAGGT
Statistics
Matches: 67, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.22, C:0.20, G:0.33, T:0.25
Consensus pattern (37 bp):
GGGTAAGACCCGATGACTACGTGTGGAGATTTTGTCC
Found at i:41708056 original size:120 final size:119
Alignment explanation
Indices: 41707929--41708340 Score: 718
Period size: 120 Copynumber: 3.4 Consensus size: 119
41707919 AATTATTTTA
* * * * *
41707929 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTAAAATTATCTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT-AATTTATATTT
* *
41707993 TATAGTATAATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
65 TATAGTATCATATATTATGATTTGAGTAAATTCATATAA-AATATTGATTATTAAG
41708049 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
*
41708114 ATAGTATCATATATTATGATTTAAGTAAATTCATATAAAAATATTGATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATAT-AAAATATTGATTATTAAG
41708169 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
41708234 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAAATATTGATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAAATATTGATTATTAAG
41708288 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
41708341 TAAATATGAT
Statistics
Matches: 281, Mismatches: 9, Indels: 5
0.95 0.03 0.02
Matches are distributed among these distances:
119 71 0.25
120 206 0.73
121 4 0.01
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (119 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
ATAGTATCATATATTATGATTTGAGTAAATTCATATAAAATATTGATTATTAAG
Found at i:41708066 original size:59 final size:59
Alignment explanation
Indices: 41708003--41708305 Score: 209
Period size: 59 Copynumber: 5.1 Consensus size: 59
41707993 TATAGTATAA
* *
41708003 TATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAAT
1 TATATTATGATTTAAGTAAATTCATATAATAATATTAATTATTAAGAATTTTATTAAAT
* * * * * *
41708062 TATA-TAT--TTTAATTATAATAT-ATTTAATAATAATTATGTTAATTTA-TATTTTA-TAGTAT
1 TATATTATGATTTAAGTA-AAT-TCATATAATAAT-ATTA-ATT-ATTAAGAATTTTATTA-AAT
* *
41708121 CATATATTATGATTTAAGTAAATTCATATAAAAATATTGATTATTAAGAATTTTATTAAAT
1 --TATATTATGATTTAAGTAAATTCATATAATAATATTAATTATTAAGAATTTTATTAAAT
* * * * * *
41708182 TATA-TAT--TTTAATTATAATAT-ATTTAATAATAATTATGTTAATTTA-TATTTTA-TAGTAT
1 TATATTATGATTTAAGTA-AAT-TCATATAATAAT-ATTA-ATT-ATTAAGAATTTTATTA-AAT
* *
41708241 CATATATTATGATTTGAGTAAATTCATATAA-AATATTGATTATTAAGAATTTTATTAAAT
1 --TATATTATGATTTAAGTAAATTCATATAATAATATTAATTATTAAGAATTTTATTAAAT
41708301 TATAT
1 TATAT
41708306 ATTTTAATTA
Statistics
Matches: 184, Mismatches: 32, Indels: 57
0.67 0.12 0.21
Matches are distributed among these distances:
56 13 0.07
57 22 0.12
58 24 0.13
59 32 0.17
60 22 0.12
61 23 0.12
62 16 0.09
63 19 0.10
64 13 0.07
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.50
Consensus pattern (59 bp):
TATATTATGATTTAAGTAAATTCATATAATAATATTAATTATTAAGAATTTTATTAAAT
Found at i:41708089 original size:15 final size:15
Alignment explanation
Indices: 41708054--41708105 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
41708044 TTAAGAATTT
*
41708054 TATTAAATTAT-ATA
1 TATTTAATTATAATA
41708068 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
41708082 TATTTAATAATAAT-
1 TATTTAATTATAATA
41708096 TATGTTAATT
1 TAT-TTAATT
41708106 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:41708209 original size:15 final size:15
Alignment explanation
Indices: 41708174--41708225 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
41708164 TTAAGAATTT
*
41708174 TATTAAATTAT-ATA
1 TATTTAATTATAATA
41708188 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
41708202 TATTTAATAATAAT-
1 TATTTAATTATAATA
41708216 TATGTTAATT
1 TAT-TTAATT
41708226 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:41708323 original size:16 final size:16
Alignment explanation
Indices: 41708302--41708343 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
41708292 TTATTAAATT
*
41708302 ATATATTTTAATTATA
1 ATATATTTTAATAATA
41708318 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
41708333 AT-TATGTTTAA
1 ATATAT-TTTAA
41708344 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:41708328 original size:15 final size:15
Alignment explanation
Indices: 41708293--41708334 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
41708283 TTAAGAATTT
*
41708293 TATTAAATTAT-ATA
1 TATTTAATTATAATA
41708307 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
41708321 TATTTAATAATAAT
1 TATTTAATTATAAT
41708335 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:41714705 original size:18 final size:18
Alignment explanation
Indices: 41714684--41714723 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
41714674 AAAATATTTA
*
41714684 TTTTGATGT-TTTTAGTAT
1 TTTTGATGTATTATA-TAT
41714702 TTTTGATGTATTATATAT
1 TTTTGATGTATTATATAT
41714720 TTTT
1 TTTT
41714724 TAAAATTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.20, C:0.00, G:0.12, T:0.68
Consensus pattern (18 bp):
TTTTGATGTATTATATAT
Found at i:41714755 original size:12 final size:12
Alignment explanation
Indices: 41714725--41714757 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
41714715 TATATTTTTT
41714725 AAAATT-ATATA
1 AAAATTAATATA
41714736 AAAA-TAATATA
1 AAAATTAATATA
41714747 AAAATTAATAT
1 AAAATTAATAT
41714758 GGGCGGGCCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 13 0.65
12 6 0.30
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AAAATTAATATA
Found at i:41715044 original size:21 final size:21
Alignment explanation
Indices: 41715018--41715069 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
41715008 GCGGTGGCGG
*
41715018 TGAGATTAGTTACTGTAGCAA
1 TGAGATTAGATACTGTAGCAA
* **
41715039 TGAGATTAGATATTGTAGCGG
1 TGAGATTAGATACTGTAGCAA
41715060 TGAGATTAGA
1 TGAGATTAGA
41715070 AACAATGGTG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.33, C:0.06, G:0.29, T:0.33
Consensus pattern (21 bp):
TGAGATTAGATACTGTAGCAA
Found at i:41718461 original size:6 final size:7
Alignment explanation
Indices: 41718443--41718487 Score: 63
Period size: 7 Copynumber: 6.0 Consensus size: 7
41718433 AGAAAGGATA
41718443 ATTTTTT
1 ATTTTTT
41718450 ATTTTTT
1 ATTTTTT
41718457 ATTTTTT
1 ATTTTTT
41718464 GATTGTGTTT
1 -ATT-T-TTT
41718474 ATTTTTT
1 ATTTTTT
41718481 ATTTTTT
1 ATTTTTT
41718488 GCTTAAAAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
7 24 0.69
8 4 0.11
9 4 0.11
10 3 0.09
ACGTcount: A:0.13, C:0.00, G:0.07, T:0.80
Consensus pattern (7 bp):
ATTTTTT
Found at i:41718733 original size:30 final size:30
Alignment explanation
Indices: 41718693--41719206 Score: 824
Period size: 30 Copynumber: 17.1 Consensus size: 30
41718683 GAATATAAAT
*
41718693 TATA-TTTTTTATTTTTAAAATACACAACA
1 TATATTTTTTTATTTTTAAAATACACTACA
41718722 TATATTTTTTTATTTTTAAAATACACTACA
1 TATATTTTTTTATTTTTAAAATACACTACA
41718752 TATATATTTTTTATTTTTAAAATACACTACATA
1 TATAT-TTTTTTATTTTTAAAATACACTAC--A
41718785 TATATATTTTTTATTTTTAAAATACACTACA
1 TATAT-TTTTTTATTTTTAAAATACACTACA
41718816 TATA-TTTTTTATTTTTAAAATACACTACA
1 TATATTTTTTTATTTTTAAAATACACTACA
*
41718845 TATAATTTTTTATTTTTAAAATACACTACA
1 TATATTTTTTTATTTTTAAAATACACTACA
41718875 TATATTTTTTTTATTTTTAAAATACACTACA
1 TATA-TTTTTTTATTTTTAAAATACACTACA
* *
41718906 TATATATTTTTTATTTTTAAAATACATTGCA
1 TATAT-TTTTTTATTTTTAAAATACACTACA
* *
41718937 TATATTTTTTTTACTTTTAAAATACAGTACA
1 TATA-TTTTTTTATTTTTAAAATACACTACA
41718968 TAT-TTTTTTTATTTTTAAAATACACTACA
1 TATATTTTTTTATTTTTAAAATACACTACA
*
41718997 TATA--TTTTTACTTTTAAAATACACTACA
1 TATATTTTTTTATTTTTAAAATACACTACA
41719025 TATA-TTTTTTATTTTTAAAATACACTACA
1 TATATTTTTTTATTTTTAAAATACACTACA
41719054 TATAATTTTTTTATTTTTAAAATACACTACA
1 TAT-ATTTTTTTATTTTTAAAATACACTACA
*
41719085 TATAATTTTTTATTTTTAAAATACACTACA
1 TATATTTTTTTATTTTTAAAATACACTACA
*
41719115 TATATTTTTTTATTTTAAAAATACACTACA
1 TATATTTTTTTATTTTTAAAATACACTACA
41719145 TATATTTTTTTATTTTTAAAATACACTACA
1 TATATTTTTTTATTTTTAAAATACACTACA
*
41719175 TATATTTTTTTATTTTTAAAATATACTACA
1 TATATTTTTTTATTTTTAAAATACACTACA
41719205 TA
1 TA
41719207 CACTACACCA
Statistics
Matches: 457, Mismatches: 16, Indels: 23
0.92 0.03 0.05
Matches are distributed among these distances:
28 27 0.06
29 86 0.19
30 174 0.38
31 138 0.30
32 1 0.00
33 31 0.07
ACGTcount: A:0.38, C:0.10, G:0.00, T:0.52
Consensus pattern (30 bp):
TATATTTTTTTATTTTTAAAATACACTACA
Found at i:41719594 original size:35 final size:35
Alignment explanation
Indices: 41719558--41719625 Score: 86
Period size: 35 Copynumber: 2.0 Consensus size: 35
41719548 CTATGAAAAT
41719558 TTTAACTTTA-AAACTAAATATAA-AAATTAATAAA
1 TTTAACTTTAGAAACTAAA-ATAATAAATTAATAAA
* **
41719592 TTTAATTTTAGAATTTAAAATAATAAATTAATAA
1 TTTAACTTTAGAAACTAAAATAATAAATTAATAA
41719626 CACAATTAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
34 13 0.45
35 16 0.55
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.40
Consensus pattern (35 bp):
TTTAACTTTAGAAACTAAAATAATAAATTAATAAA
Found at i:41721204 original size:41 final size:41
Alignment explanation
Indices: 41721117--41721332 Score: 335
Period size: 41 Copynumber: 5.2 Consensus size: 41
41721107 TTGTACCTTA
* *
41721117 CAGATCTTTAGCGGCG-TTTTGAAAAAAAGTGCCGCTAATGCT
1 CAGATCTTTAGCGGCGTTTTTG--AGAAAGCGCCGCTAATGCT
41721159 CAGATCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCT
1 CAGATCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCT
* * * *
41721200 CAGATCTTTAGTGGCGTTTTTAAAAAAGTGCCGCTAATGCT
1 CAGATCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCT
*
41721241 CAGATCTTTAGCGGCATTTTTGAGAAAGCGCCGCTAATGCT
1 CAGATCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCT
*
41721282 TAGATCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCT
1 CAGATCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCT
41721323 CAGATCTTTA
1 CAGATCTTTA
41721333 ATTGAACATT
Statistics
Matches: 159, Mismatches: 14, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
41 138 0.87
42 16 0.10
43 5 0.03
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31
Consensus pattern (41 bp):
CAGATCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCT
Found at i:41721633 original size:21 final size:21
Alignment explanation
Indices: 41721616--41721657 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
41721606 TAATTATCAT
41721616 TATAGTTTAGGGTTTTATATA
1 TATAGTTTAGGGTTTTATATA
* *
41721637 TATGGTTTAGGG-TATATATA
1 TATAGTTTAGGGTTTTATATA
41721657 T
1 T
41721658 GGTTAATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.29, C:0.00, G:0.21, T:0.50
Consensus pattern (21 bp):
TATAGTTTAGGGTTTTATATA
Found at i:41721905 original size:82 final size:82
Alignment explanation
Indices: 41721818--41721991 Score: 231
Period size: 82 Copynumber: 2.1 Consensus size: 82
41721808 GAGTTAGGGA
* * * *
41721818 TTTAGGGTTTATAGATTTAGTGTTAGGTTAGGGTTTAGGGTTTAGATTAATTAGTGCATTTTAAT
1 TTTAGGGTTTAGAGATTTAGGGTCAGGTTAGGGTTTAGGATTTAGATTAATTAGTGCATTTTAAT
*
41721883 TTATATATTAAATAATG
66 TTATATATTAAATAAGG
* * * * **
41721900 TTTAGGGGTTAGGGATTTGGGGTCAGGTTAGGGTTTATGATTTAGATTAATTAGTGTTTTTTAAT
1 TTTAGGGTTTAGAGATTTAGGGTCAGGTTAGGGTTTAGGATTTAGATTAATTAGTGCATTTTAAT
*
41721965 TTCTATATTAAATAAGG
66 TTATATATTAAATAAGG
41721982 TTTAGAGGTT
1 TTTAG-GGTT
41721992 AGTGGTTTGG
Statistics
Matches: 78, Mismatches: 13, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
82 75 0.96
83 3 0.04
ACGTcount: A:0.27, C:0.02, G:0.25, T:0.47
Consensus pattern (82 bp):
TTTAGGGTTTAGAGATTTAGGGTCAGGTTAGGGTTTAGGATTTAGATTAATTAGTGCATTTTAAT
TTATATATTAAATAAGG
Found at i:41721992 original size:82 final size:82
Alignment explanation
Indices: 41721842--41722001 Score: 241
Period size: 82 Copynumber: 2.0 Consensus size: 82
41721832 ATTTAGTGTT
* * *
41721842 AGGTTAGGGTTTAGGGTTTAGATTAATTAGTGCATTTTAATTTATATATTAAATAATGTTTAGGG
1 AGGTTAGGGTTTAGGATTTAGATTAATTAGTGCATTTTAATTTATATATTAAATAAGGTTTAGAG
41721907 GTTAG-GGATTTGGGGTC
66 GTTAGTGG-TTTGGGGTC
* ** *
41721924 AGGTTAGGGTTTATGATTTAGATTAATTAGTGTTTTTTAATTTCTATATTAAATAAGGTTTAGAG
1 AGGTTAGGGTTTAGGATTTAGATTAATTAGTGCATTTTAATTTATATATTAAATAAGGTTTAGAG
41721989 GTTAGTGGTTTGG
66 GTTAGTGGTTTGG
41722002 AGTTTGGGGT
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
82 68 0.97
83 2 0.03
ACGTcount: A:0.27, C:0.02, G:0.26, T:0.45
Consensus pattern (82 bp):
AGGTTAGGGTTTAGGATTTAGATTAATTAGTGCATTTTAATTTATATATTAAATAAGGTTTAGAG
GTTAGTGGTTTGGGGTC
Found at i:41722025 original size:21 final size:21
Alignment explanation
Indices: 41722001--41722045 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
41721991 TAGTGGTTTG
* *
41722001 GAGTTTGGGGTTTAAGGTTAA
1 GAGTTAGGGATTTAAGGTTAA
* *
41722022 GAGTTAGTGATTTAAGGTTTA
1 GAGTTAGGGATTTAAGGTTAA
41722043 GAG
1 GAG
41722046 ATTCGGGGCC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.27, C:0.00, G:0.36, T:0.38
Consensus pattern (21 bp):
GAGTTAGGGATTTAAGGTTAA
Found at i:41722420 original size:17 final size:16
Alignment explanation
Indices: 41722387--41722420 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
41722377 ATATTAGATT
*
41722387 TAAAAAAATTAATAAA
1 TAAAAAAATTAACAAA
41722403 TAAAAAAATGTAACAAA
1 TAAAAAAAT-TAACAAA
41722420 T
1 T
41722421 TGATACGGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.24
Consensus pattern (16 bp):
TAAAAAAATTAACAAA
Found at i:41722731 original size:27 final size:27
Alignment explanation
Indices: 41722673--41722734 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
41722663 ATTTTACTTT
* **
41722673 AAAAAAATCAATTTATAAAAACGCCGC
1 AAAAAAATCAATTTATAAAAACACAAC
41722700 AAAAAAATCAATTTATAAAAA-ACAAC
1 AAAAAAATCAATTTATAAAAACACAAC
41722726 ATAAAAAAT
1 A-AAAAAAT
41722735 TAATAAAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
26 3 0.10
27 28 0.90
ACGTcount: A:0.65, C:0.13, G:0.03, T:0.19
Consensus pattern (27 bp):
AAAAAAATCAATTTATAAAAACACAAC
Found at i:41727733 original size:21 final size:21
Alignment explanation
Indices: 41727707--41727752 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
41727697 TCTTGGATGT
41727707 GGGAAA-TTAGGGATTTTAGGG
1 GGGAAAGTTAGGGA-TTTAGGG
*
41727728 GGGAAAGTTAGGGATTTCGGG
1 GGGAAAGTTAGGGATTTAGGG
41727749 GGGA
1 GGGA
41727753 GGGGGAGGGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 16 0.70
22 7 0.30
ACGTcount: A:0.26, C:0.02, G:0.48, T:0.24
Consensus pattern (21 bp):
GGGAAAGTTAGGGATTTAGGG
Found at i:41728513 original size:33 final size:33
Alignment explanation
Indices: 41728443--41728526 Score: 84
Period size: 33 Copynumber: 2.5 Consensus size: 33
41728433 TAATTAATCT
* *
41728443 AAATCCTAAACCCT-AACCCGACCCTGACTCCT
1 AAATCCTAAACCCTAAACCCAACCCTGACTCCC
*
41728475 TAATCCTTAAACCCTAAACCCTAACCC-GAC-CCC
1 AAATCC-TAAACCCTAAACCC-AACCCTGACTCCC
*
41728508 AAATCCCTAACCCCTAAAC
1 AAAT-CCTAAACCCTAAAC
41728527 ATTATTTAAT
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
32 5 0.12
33 24 0.56
34 10 0.23
35 4 0.09
ACGTcount: A:0.35, C:0.44, G:0.04, T:0.18
Consensus pattern (33 bp):
AAATCCTAAACCCTAAACCCAACCCTGACTCCC
Found at i:41728526 original size:40 final size:40
Alignment explanation
Indices: 41728441--41728526 Score: 109
Period size: 40 Copynumber: 2.1 Consensus size: 40
41728431 ACTAATTAAT
* ** * * *
41728441 CTAAATCCTAAACCCTAACCCGACCCTGACTCCTTAATCC
1 CTAAACCCTAAACCCTAACCCGACCCCAAATCCCTAACCC
*
41728481 TTAAACCCTAAACCCTAACCCGACCCCAAATCCCTAACCC
1 CTAAACCCTAAACCCTAACCCGACCCCAAATCCCTAACCC
41728521 CTAAAC
1 CTAAAC
41728527 ATTATTTAAT
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.34, C:0.44, G:0.03, T:0.19
Consensus pattern (40 bp):
CTAAACCCTAAACCCTAACCCGACCCCAAATCCCTAACCC
Found at i:41729403 original size:40 final size:41
Alignment explanation
Indices: 41729359--41729477 Score: 159
Period size: 41 Copynumber: 2.9 Consensus size: 41
41729349 ATTTTATTAT
* * *
41729359 TATTAGCGGCGCTTTTCCAAAAATGCTGCTAAAGG-TCGAG
1 TATTAGCGGCGCTTTTTCAAAAACGCTGCTAAAGGCCCGAG
*
41729399 TATTAGCGGCGATTTTTCAAAAACGCTGCTAAAGGCCCGAG
1 TATTAGCGGCGCTTTTTCAAAAACGCTGCTAAAGGCCCGAG
* * * *
41729440 CATTAGCGGTGCTTTTTCAAAAACGCCGCTAAATGCCC
1 TATTAGCGGCGCTTTTTCAAAAACGCTGCTAAAGGCCC
41729478 CCAAAACTCA
Statistics
Matches: 69, Mismatches: 9, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
40 32 0.46
41 37 0.54
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.26
Consensus pattern (41 bp):
TATTAGCGGCGCTTTTTCAAAAACGCTGCTAAAGGCCCGAG
Found at i:41729614 original size:40 final size:39
Alignment explanation
Indices: 41729525--41729647 Score: 147
Period size: 40 Copynumber: 3.1 Consensus size: 39
41729515 TTTGCAACGC
* *
41729525 TTTTCAAAAAACGCCGCTAATGCTTATTTTTAGTGGCGT
1 TTTTCAAAAAGCGCCGCTAATGCTGATTTTTAGTGGCGT
* **
41729564 TTTCCAAAAAGCGCCGCTAATGCTCGACCTTTAGTGGCGT
1 TTTTCAAAAAGCGCCGCTAATGCT-GATTTTTAGTGGCGT
** * *
41729604 TTTTGTAAAAGCGCAGCTAATACTTGATTTTTAGTGGCGT
1 TTTTCAAAAAGCGCCGCTAATGC-TGATTTTTAGTGGCGT
41729644 TTTT
1 TTTT
41729648 TGTCCAAATG
Statistics
Matches: 70, Mismatches: 12, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
39 22 0.31
40 47 0.67
41 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.20, T:0.37
Consensus pattern (39 bp):
TTTTCAAAAAGCGCCGCTAATGCTGATTTTTAGTGGCGT
Found at i:41729743 original size:29 final size:30
Alignment explanation
Indices: 41729697--41729866 Score: 259
Period size: 30 Copynumber: 6.0 Consensus size: 30
41729687 TGGTGTAGTG
41729697 ATATATATTTTTATTTTTAAAATACACTAC
1 ATATATATTTTTATTTTTAAAATACACTAC
*
41729727 ATATAT-TTTTTACTTTTAAAATACACTAC
1 ATATATATTTTTATTTTTAAAATACACTAC
41729756 --ATA-A--TTT-TTTTT-AAATACACTAC
1 ATATATATTTTTATTTTTAAAATACACTAC
41729779 ATATATATTTTTATTTTTAAAATACACTAC
1 ATATATATTTTTATTTTTAAAATACACTAC
*
41729809 ATATATTTTTTTATTTTTAAAATACACTAC
1 ATATATATTTTTATTTTTAAAATACACTAC
41729839 ATATATATTTTTA-TTTTAAAATACACTA
1 ATATATATTTTTATTTTTAAAATACACTA
41729867 ATACAGTGCA
Statistics
Matches: 128, Mismatches: 4, Indels: 17
0.86 0.03 0.11
Matches are distributed among these distances:
23 11 0.09
24 4 0.03
25 6 0.05
26 1 0.01
27 3 0.02
28 3 0.02
29 42 0.33
30 58 0.45
ACGTcount: A:0.39, C:0.11, G:0.00, T:0.50
Consensus pattern (30 bp):
ATATATATTTTTATTTTTAAAATACACTAC
Found at i:41729786 original size:82 final size:84
Alignment explanation
Indices: 41729697--41729850 Score: 276
Period size: 82 Copynumber: 1.9 Consensus size: 84
41729687 TGGTGTAGTG
41729697 ATATATATTTTTATTTTTAAAATACACTACATATA-TTTTTTACTTTTAAAATACACTACATA-A
1 ATATATATTTTTATTTTTAAAATACACTACATATATTTTTTTACTTTTAAAATACACTACATATA
*
41729760 TTTTTTTTAAATACACTAC
66 TATTTTTTAAATACACTAC
*
41729779 ATATATATTTTTATTTTTAAAATACACTACATATATTTTTTTATTTTTAAAATACACTACATATA
1 ATATATATTTTTATTTTTAAAATACACTACATATATTTTTTTACTTTTAAAATACACTACATATA
41729844 TATTTTT
66 TATTTTT
41729851 ATTTTAAAAT
Statistics
Matches: 68, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
82 35 0.51
83 26 0.38
84 7 0.10
ACGTcount: A:0.38, C:0.10, G:0.00, T:0.51
Consensus pattern (84 bp):
ATATATATTTTTATTTTTAAAATACACTACATATATTTTTTTACTTTTAAAATACACTACATATA
TATTTTTTAAATACACTAC
Found at i:41730366 original size:15 final size:15
Alignment explanation
Indices: 41730346--41730374 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
41730336 GTATTTGTAA
41730346 GGAATTATCTCCAAG
1 GGAATTATCTCCAAG
41730361 GGAATTATCTCCAA
1 GGAATTATCTCCAA
41730375 TGGCAGCTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (15 bp):
GGAATTATCTCCAAG
Found at i:41735585 original size:33 final size:33
Alignment explanation
Indices: 41735543--41735942 Score: 155
Period size: 33 Copynumber: 11.4 Consensus size: 33
41735533 GTGGATTCAA
*
41735543 CACTTAGCAACCACCAGTGATTCGGGGAATCAG
1 CACTTAGCAACCACCAATGATTCGGGGAATCAG
*
41735576 CACTTAGCAACCCCTTTCACATTCAATGATACGGTGGAATCAG
1 CACTTAGCAA---C---CAC---CAATGATTCGG-GGAATCAG
* *
41735619 CACTTAGCAACCACCAATGAATCGGGGAATCAA
1 CACTTAGCAACCACCAATGATTCGGGGAATCAG
* *
41735652 CACTTAGCAACCCCTTTCACATTCAATGATACGGTAGAATCAG
1 CACTTAGCAA---C---CAC---CAATGATTCGG-GGAATCAG
* *
41735695 CACTTAGCAACCACCAATGAATCAGGGAATCAG
1 CACTTAGCAACCACCAATGATTCGGGGAATCAG
* *
41735728 CACTTAGCAACC-CC-----TTGGGGGAATCAA
1 CACTTAGCAACCACCAATGATTCGGGGAATCAG
* * * *
41735755 CACTTAGCAACCCCTTTCACATTTAAAATACGATGGAATCAG
1 CACTTAGCAACCAC---CA-A--T--GATTCG-GGGAATCAG
41735797 C-CTTAGCAACCACCAATGGATT-GGGGAATCAG
1 CACTTAGCAACCACCAAT-GATTCGGGGAATCAG
* *
41735829 CACTTAGCAACC-CC-----TTGGGGGAATCAA
1 CACTTAGCAACCACCAATGATTCGGGGAATCAG
* * * *
41735856 CACTTGGCAACCCCCTTCACATTTAAAATACGGTGGAATCAG
1 CACTTAGCAA-CCAC--CA-A--T--GATTCGG-GGAATCAG
41735898 CACTTAGCAACCACCAATGGA-TCGGGGAATCAG
1 CACTTAGCAACCACCAAT-GATTCGGGGAATCAG
41735931 CACTTAGCAACC
1 CACTTAGCAACC
41735943 TCTTGGGGGA
Statistics
Matches: 279, Mismatches: 36, Indels: 104
0.67 0.09 0.25
Matches are distributed among these distances:
26 2 0.01
27 39 0.14
28 3 0.01
29 1 0.00
31 2 0.01
32 13 0.05
33 77 0.28
34 22 0.08
35 2 0.01
36 3 0.01
37 7 0.03
38 3 0.01
39 8 0.03
40 2 0.01
41 19 0.07
42 42 0.15
43 34 0.12
ACGTcount: A:0.33, C:0.28, G:0.18, T:0.20
Consensus pattern (33 bp):
CACTTAGCAACCACCAATGATTCGGGGAATCAG
Found at i:41735616 original size:43 final size:42
Alignment explanation
Indices: 41735560--41735706 Score: 170
Period size: 43 Copynumber: 3.7 Consensus size: 42
41735550 CAACCACCAG
*
41735560 TGATTCGGGGAATCAGCACTTAGCAACCCCTTTCACATTCAA
1 TGATACGGGGAATCAGCACTTAGCAACCCCTTTCACATTCAA
41735602 TGATACGGTGGAATCAGCACTTAGCAA---C---CAC---CAA
1 TGATACGG-GGAATCAGCACTTAGCAACCCCTTTCACATTCAA
*
41735636 TGA-ATCGGGGAATCAACACTTAGCAACCCCTTTCACATTCAA
1 TGATA-CGGGGAATCAGCACTTAGCAACCCCTTTCACATTCAA
*
41735678 TGATACGGTAGAATCAGCACTTAGCAACC
1 TGATACGG-GGAATCAGCACTTAGCAACC
41735707 ACCAATGAAT
Statistics
Matches: 88, Mismatches: 4, Indels: 25
0.75 0.03 0.21
Matches are distributed among these distances:
33 18 0.20
34 9 0.10
36 1 0.01
37 3 0.03
39 3 0.03
40 1 0.01
42 16 0.18
43 37 0.42
ACGTcount: A:0.33, C:0.27, G:0.18, T:0.22
Consensus pattern (42 bp):
TGATACGGGGAATCAGCACTTAGCAACCCCTTTCACATTCAA
Found at i:41735659 original size:76 final size:76
Alignment explanation
Indices: 41735533--41735743 Score: 359
Period size: 76 Copynumber: 2.8 Consensus size: 76
41735523 TCCGTTATCA
* * * *
41735533 GTGGATTCAACACTTAGCAACCACCAGTGATTCGGGGAATCAGCACTTAGCAACCCCTTTCACAT
1 GTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTTCACAT
41735598 TCAATGATACG
66 TCAATGATACG
*
41735609 GTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAACACTTAGCAACCCCTTTCACAT
1 GTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTTCACAT
41735674 TCAATGATACG
66 TCAATGATACG
* *
41735685 GTAGAATCAGCACTTAGCAACCACCAATGAATCAGGGAATCAGCACTTAGCAACCCCTT
1 GTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTT
41735744 GGGGGAATCA
Statistics
Matches: 127, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
76 127 1.00
ACGTcount: A:0.33, C:0.28, G:0.18, T:0.21
Consensus pattern (76 bp):
GTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTTCACAT
TCAATGATACG
Found at i:41735749 original size:27 final size:27
Alignment explanation
Indices: 41735719--41735770 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
41735709 CAATGAATCA
*
41735719 GGGAATCAGCACTTAGCAACCCCTTGG
1 GGGAATCAACACTTAGCAACCCCTTGG
41735746 GGGAATCAACACTTAGCAACCCCTT
1 GGGAATCAACACTTAGCAACCCCTT
41735771 TCACATTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.29, C:0.31, G:0.21, T:0.19
Consensus pattern (27 bp):
GGGAATCAACACTTAGCAACCCCTTGG
Found at i:41735835 original size:101 final size:102
Alignment explanation
Indices: 41735642--41735971 Score: 545
Period size: 101 Copynumber: 3.2 Consensus size: 102
41735632 CCAATGAATC
* * *
41735642 GGGGAATCAACACTTAGCAACCCCTTTCACATTCAATGATACGGTAGAATCAGCACTTAGCAACC
1 GGGGAATCAACACTTAGCAACCCCTTTCACATTTAA-AATACGGTGGAATCAGCACTTAGCAACC
* *
41735707 ACCAATGAATCAGGGAATCAGCACTTAGCAACCCCTTG
65 ACCAATGGATCGGGGAATCAGCACTTAGCAACCCCTTG
*
41735745 GGGGAATCAACACTTAGCAACCCCTTTCACATTTAAAATACGATGGAATCAGC-CTTAGCAACCA
1 GGGGAATCAACACTTAGCAACCCCTTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCA
*
41735809 CCAATGGATTGGGGAATCAGCACTTAGCAACCCCTTG
66 CCAATGGATCGGGGAATCAGCACTTAGCAACCCCTTG
* *
41735846 GGGGAATCAACACTTGGCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCA
1 GGGGAATCAACACTTAGCAACCCCTTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCA
*
41735911 CCAATGGATCGGGGAATCAGCACTTAGCAACCTCTTG
66 CCAATGGATCGGGGAATCAGCACTTAGCAACCCCTTG
*
41735948 GGGGAATCAGCACTTAGCAACCCC
1 GGGGAATCAACACTTAGCAACCCC
41735972 CTTAATATTC
Statistics
Matches: 212, Mismatches: 14, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
101 95 0.45
102 82 0.39
103 35 0.17
ACGTcount: A:0.32, C:0.28, G:0.19, T:0.20
Consensus pattern (102 bp):
GGGGAATCAACACTTAGCAACCCCTTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCA
CCAATGGATCGGGGAATCAGCACTTAGCAACCCCTTG
Found at i:41737807 original size:19 final size:19
Alignment explanation
Indices: 41737783--41737822 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
41737773 ATTGTATCAA
41737783 AAAGAATAAAAATGATTAG
1 AAAGAATAAAAATGATTAG
* *
41737802 AAAGAATAGATATGATTAG
1 AAAGAATAAAAATGATTAG
41737821 AA
1 AA
41737823 CCTATAATGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.60, C:0.00, G:0.17, T:0.23
Consensus pattern (19 bp):
AAAGAATAAAAATGATTAG
Found at i:41740634 original size:39 final size:39
Alignment explanation
Indices: 41740590--41740685 Score: 147
Period size: 39 Copynumber: 2.5 Consensus size: 39
41740580 CCCATACCTT
** **
41740590 TCCCTCTTTCCCACCATCCCTCCCCCTACTTCGATTCTC
1 TCCCTCTCCCCCACCATCCCTCCCCCTACTTCGACCCTC
*
41740629 TCCCTCTCCCCCACCATCCCTCCCCCTACTTTGACCCTC
1 TCCCTCTCCCCCACCATCCCTCCCCCTACTTCGACCCTC
41740668 TCCCTCTCCCCCACCATC
1 TCCCTCTCCCCCACCATC
41740686 TATTTCCTTT
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 52 1.00
ACGTcount: A:0.10, C:0.59, G:0.02, T:0.28
Consensus pattern (39 bp):
TCCCTCTCCCCCACCATCCCTCCCCCTACTTCGACCCTC
Found at i:41740705 original size:39 final size:39
Alignment explanation
Indices: 41740590--41740721 Score: 113
Period size: 39 Copynumber: 3.4 Consensus size: 39
41740580 CCCATACCTT
** * * **
41740590 TCCCTCTTTCCCACCATCCCTCCCCCTACT-TCGATTCTC
1 TCCCTCTCCCCCACCATCCATCCCCCTACTCT-AACCCTC
* * *
41740629 TCCCTCTCCCCCACCATCCCTCCCCCTACTTTGACCCTC
1 TCCCTCTCCCCCACCATCCATCCCCCTACTCTAACCCTC
* ** * *
41740668 TCCCTCTCCCCCACCATCTATTTCCTTTCTCTAACCCTC
1 TCCCTCTCCCCCACCATCCATCCCCCTACTCTAACCCTC
*
41740707 TCCCTCTACCCCACC
1 TCCCTCTCCCCCACC
41740722 GTCCCTTTCC
Statistics
Matches: 79, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
39 78 0.99
40 1 0.01
ACGTcount: A:0.11, C:0.57, G:0.02, T:0.30
Consensus pattern (39 bp):
TCCCTCTCCCCCACCATCCATCCCCCTACTCTAACCCTC
Found at i:41740731 original size:39 final size:39
Alignment explanation
Indices: 41740626--41740733 Score: 126
Period size: 39 Copynumber: 2.8 Consensus size: 39
41740616 TACTTCGATT
** * *
41740626 CTCTCCCTCTCCCCCACCATCCCTCCCCCTACTTTGACC
1 CTCTCCCTCTCCCCCACCATCCCTTTCCCTACTCTAACC
** * *
41740665 CTCTCCCTCTCCCCCACCATCTATTTCCTTTCTCTAACC
1 CTCTCCCTCTCCCCCACCATCCCTTTCCCTACTCTAACC
* *
41740704 CTCTCCCTCTACCCCACCGTCCCTTTCCCT
1 CTCTCCCTCTCCCCCACCATCCCTTTCCCT
41740734 CTACCAACCC
Statistics
Matches: 56, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
39 56 1.00
ACGTcount: A:0.10, C:0.57, G:0.02, T:0.31
Consensus pattern (39 bp):
CTCTCCCTCTCCCCCACCATCCCTTTCCCTACTCTAACC
Found at i:41740743 original size:39 final size:39
Alignment explanation
Indices: 41740662--41740749 Score: 97
Period size: 39 Copynumber: 2.2 Consensus size: 39
41740652 CCCTACTTTG
* * * *
41740662 ACCCTCTCCCTCTCCCCCACCATCTATTTCCTTTCTCTA
1 ACCCTCTCCCTCTACCCCACCATCCATTTCCTCTCTCCA
* *
41740701 ACCCTCTCCCTCTACCCCACCGTCCCTTTCC-CTCTACCA
1 ACCCTCTCCCTCTACCCCACCATCCATTTCCTCTCT-CCA
41740740 ACCCTACTCC
1 ACCCT-CTCC
41740750 AATTTCCAAC
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
38 3 0.07
39 34 0.83
40 4 0.10
ACGTcount: A:0.14, C:0.56, G:0.01, T:0.30
Consensus pattern (39 bp):
ACCCTCTCCCTCTACCCCACCATCCATTTCCTCTCTCCA
Found at i:41744171 original size:18 final size:20
Alignment explanation
Indices: 41744150--41744199 Score: 68
Period size: 18 Copynumber: 2.5 Consensus size: 20
41744140 AAAGGAAGAC
41744150 AGAAAAAGA-AATCAAAAA-
1 AGAAAAAGAGAATCAAAAAG
*
41744168 AGAAAAAGAGAATGAAAAAG
1 AGAAAAAGAGAATCAAAAAG
41744188 AGCAAAAAGAGA
1 AG-AAAAAGAGA
41744200 TTGAGAGTGA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 9 0.32
19 8 0.29
20 2 0.07
21 9 0.32
ACGTcount: A:0.72, C:0.04, G:0.20, T:0.04
Consensus pattern (20 bp):
AGAAAAAGAGAATCAAAAAG
Found at i:41745982 original size:33 final size:34
Alignment explanation
Indices: 41745945--41746024 Score: 103
Period size: 33 Copynumber: 2.4 Consensus size: 34
41745935 GAGTTAGTTT
*
41745945 ATTAAATTTAGTTTAGCTCAAATAAGTGTTAG-A
1 ATTAAATTTAGTTTACCTCAAATAAGTGTTAGTA
* * *
41745978 ATTAATTTTAGTTCACCTTAAATAAGTGTTAGTA
1 ATTAAATTTAGTTTACCTCAAATAAGTGTTAGTA
41746012 ATT-AATTT-GTTTA
1 ATTAAATTTAGTTTA
41746025 AATCTGGACA
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
32 4 0.10
33 32 0.80
34 4 0.10
ACGTcount: A:0.36, C:0.06, G:0.12, T:0.45
Consensus pattern (34 bp):
ATTAAATTTAGTTTACCTCAAATAAGTGTTAGTA
Found at i:41762022 original size:48 final size:48
Alignment explanation
Indices: 41761967--41762072 Score: 137
Period size: 48 Copynumber: 2.2 Consensus size: 48
41761957 TTGTCTTTTC
*
41761967 TTTCTTTTTCAATTT-TCTCT-TTTTCCTCACA-CTTTTGTTCAATCTCAA
1 TTTCTTTTTCAATTTCTCTCTCTTTT--TCACATCCTTT-TTCAATCTCAA
* *
41762015 TTTCTTTTTCGATTTCTTTCTCTTTTTCACATCCTTTTTCAATCTCAA
1 TTTCTTTTTCAATTTCTCTCTCTTTTTCACATCCTTTTTCAATCTCAA
41762063 TTTCTTTTTC
1 TTTCTTTTTC
41762073 CATGACACTC
Statistics
Matches: 52, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
48 40 0.77
49 8 0.15
50 4 0.08
ACGTcount: A:0.14, C:0.25, G:0.02, T:0.59
Consensus pattern (48 bp):
TTTCTTTTTCAATTTCTCTCTCTTTTTCACATCCTTTTTCAATCTCAA
Found at i:41762130 original size:18 final size:17
Alignment explanation
Indices: 41762048--41762132 Score: 62
Period size: 18 Copynumber: 4.6 Consensus size: 17
41762038 TTTTCACATC
41762048 CTTTTTCAATCTCAATTT
1 CTTTTTCAATCTC-ATTT
* *
41762066 CTTTTTCCATGACACTCGTTT
1 CTTTTT-CA--A-TCTCATTT
* * *
41762087 CTTTTACACTCTCGTTT
1 CTTTTTCAATCTCATTT
41762104 CTTTCTTCAATCTCATTCT
1 CTTT-TTCAATCTCATT-T
41762123 CTTTTTCAAT
1 CTTTTTCAAT
41762133 TTCTTGTTCC
Statistics
Matches: 53, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
17 11 0.21
18 21 0.40
19 7 0.13
20 2 0.04
21 9 0.17
22 3 0.06
ACGTcount: A:0.16, C:0.27, G:0.04, T:0.53
Consensus pattern (17 bp):
CTTTTTCAATCTCATTT
Found at i:41763158 original size:21 final size:21
Alignment explanation
Indices: 41763134--41763193 Score: 57
Period size: 21 Copynumber: 2.9 Consensus size: 21
41763124 TTGCTCACCT
*
41763134 TTTTTTTTTCTTTTTTTTCGA
1 TTTTTTTCTCTTTTTTTTCGA
*** *
41763155 TTTTTTTGAATTTTTTTTTGA
1 TTTTTTTCTCTTTTTTTTCGA
* *
41763176 ATTTCTTCTCTTTTTTTT
1 TTTTTTTCTCTTTTTTTT
41763194 AAATCCAATA
Statistics
Matches: 30, Mismatches: 9, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.08, C:0.08, G:0.05, T:0.78
Consensus pattern (21 bp):
TTTTTTTCTCTTTTTTTTCGA
Found at i:41763170 original size:12 final size:12
Alignment explanation
Indices: 41763155--41763179 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
41763145 TTTTTTTCGA
41763155 TTTTTTTGAATT
1 TTTTTTTGAATT
41763167 TTTTTTTGAATT
1 TTTTTTTGAATT
41763179 T
1 T
41763180 CTTCTCTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.00, G:0.08, T:0.76
Consensus pattern (12 bp):
TTTTTTTGAATT
Found at i:41764686 original size:20 final size:20
Alignment explanation
Indices: 41764663--41764709 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
41764653 GGGTTAAGAT
*
41764663 TGAGCTGAATTGAGCTTGAA
1 TGAGCTGAATTGAGCTCGAA
* * *
41764683 TGAGTTGACTTGAGCTCGAG
1 TGAGCTGAATTGAGCTCGAA
41764703 TGAGCTG
1 TGAGCTG
41764710 GAAACAAGCT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.23, C:0.13, G:0.34, T:0.30
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAA
Found at i:41774995 original size:23 final size:23
Alignment explanation
Indices: 41774920--41774995 Score: 57
Period size: 23 Copynumber: 3.3 Consensus size: 23
41774910 TCACTCGATT
* * *
41774920 TCTTTTCAAGCTCTCTTTCAATT
1 TCTTTTCAATCTCTTTTTCAATC
* * *
41774943 TCTTTTTCCACTCTTTCTTTTC-TTC
1 TC-TTTT-CAATCTCT-TTTTCAATC
41774968 T-TTTTCAATCTCTTTTTCAATC
1 TCTTTTCAATCTCTTTTTCAATC
41774990 TCTTTT
1 TCTTTT
41774996 TTCTTTTCAC
Statistics
Matches: 39, Mismatches: 9, Indels: 10
0.67 0.16 0.17
Matches are distributed among these distances:
21 5 0.13
22 9 0.23
23 10 0.26
24 4 0.10
25 7 0.18
26 4 0.10
ACGTcount: A:0.12, C:0.26, G:0.01, T:0.61
Consensus pattern (23 bp):
TCTTTTCAATCTCTTTTTCAATC
Found at i:41775046 original size:14 final size:15
Alignment explanation
Indices: 41775029--41775071 Score: 54
Period size: 14 Copynumber: 2.9 Consensus size: 15
41775019 TGAAATCTCA
41775029 TTTTCATATT-TTTC-
1 TTTTCAT-TTCTTTCG
41775043 TTTTCATTTCTTTCG
1 TTTTCATTTCTTTCG
41775058 TTTTCATTTTCTTT
1 TTTTCA-TTTCTTT
41775072 GTTCTTTTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
13 2 0.08
14 11 0.42
15 6 0.23
16 7 0.27
ACGTcount: A:0.09, C:0.16, G:0.02, T:0.72
Consensus pattern (15 bp):
TTTTCATTTCTTTCG
Found at i:41776048 original size:44 final size:44
Alignment explanation
Indices: 41775915--41776048 Score: 104
Period size: 44 Copynumber: 3.1 Consensus size: 44
41775905 GCCATGAGCA
41775915 TGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGT
1 TGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGT
** * * * * *
41775959 TGGGGTAGTG-CATTATG-TAAGGATTAATAA-A----ATAAAGA-GCA
1 T-GGGT-G-GACAAGATGTTATGG-CTAAAAACATGTCATAAACATG-T
41776000 TGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGT
1 TGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGT
41776044 TGGGT
1 TGGGT
41776049 AGTGCATTAT
Statistics
Matches: 63, Mismatches: 14, Indels: 26
0.61 0.14 0.25
Matches are distributed among these distances:
38 1 0.02
39 11 0.17
40 10 0.16
41 7 0.11
44 12 0.19
45 10 0.16
46 11 0.17
47 1 0.02
ACGTcount: A:0.37, C:0.09, G:0.27, T:0.28
Consensus pattern (44 bp):
TGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGT
Found at i:41778152 original size:47 final size:47
Alignment explanation
Indices: 41778101--41778487 Score: 540
Period size: 47 Copynumber: 8.1 Consensus size: 47
41778091 TTAGGATTTT
* *
41778101 ATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
**
41778148 ATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA--C--ATGCATATGTGTGATAAGGCCGAATGGCCA
* *
41778199 ATGCGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
** *
41778246 ATGTGATGAATGTGAACCTTTATATATATGCGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA-C---ATGCATATGTGTGATAAGGCCGAATGGCCA
*
41778297 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
*
41778344 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* * *
41778391 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCTAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* * * *
41778438 ATGTGATGAATGTGAACATGAATATATGTGGTAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
41778485 ATG
1 ATG
41778488 CGAAACGTGT
Statistics
Matches: 306, Mismatches: 26, Indels: 16
0.88 0.07 0.05
Matches are distributed among these distances:
47 218 0.71
48 1 0.00
49 2 0.01
50 1 0.00
51 84 0.27
ACGTcount: A:0.31, C:0.13, G:0.30, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
Found at i:41778324 original size:23 final size:23
Alignment explanation
Indices: 41778297--41778371 Score: 57
Period size: 23 Copynumber: 3.2 Consensus size: 23
41778287 CGAATGGCCA
41778297 ATGTGATGAATGTGAACATGCGT
1 ATGTGATGAATGTGAACATGCGT
* * **
41778320 ATGTG-TGATAAG-G-CCGAATGGCCA
1 ATGTGATGA-ATGTGAAC--AT-GCGT
41778344 ATGTGATGAATGTGAACATGCGT
1 ATGTGATGAATGTGAACATGCGT
41778367 ATGTG
1 ATGTG
41778372 TGATAAGGCC
Statistics
Matches: 37, Mismatches: 8, Indels: 14
0.63 0.14 0.24
Matches are distributed among these distances:
21 1 0.03
22 4 0.11
23 16 0.43
24 11 0.30
25 4 0.11
26 1 0.03
ACGTcount: A:0.29, C:0.11, G:0.32, T:0.28
Consensus pattern (23 bp):
ATGTGATGAATGTGAACATGCGT
Found at i:41778438 original size:94 final size:96
Alignment explanation
Indices: 41778101--41778487 Score: 586
Period size: 98 Copynumber: 4.0 Consensus size: 96
41778091 TTAGGATTTT
*
41778101 ATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-C
41778166 CGTATATATATGTGTGATAAGGCCGAATGGCCA
65 C-TATATATATGTGTGATAAGGCCGAATGGCCA
*
41778199 ATGCGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
*
41778264 TTTATATATATGCGTGATAAGGCCGAATGGCCA
66 --TATATATATGTGTGATAAGGCCGAATGGCCA
41778297 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-C
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
***
41778361 -ATGCGTATGTGTGATAAGGCCGAATGGCCA
66 TATATATATGTGTGATAAGGCCGAATGGCCA
* * * * *
41778391 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCTAATGGCCAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
*
41778456 TGA-ATATATGTG-G-TAAGGCCGAATGGCTA
66 T-ATATATATGTGTGATAAGGCCGAATGGCCA
41778485 ATG
1 ATG
41778488 CGAAACGTGT
Statistics
Matches: 267, Mismatches: 18, Indels: 12
0.90 0.06 0.04
Matches are distributed among these distances:
94 103 0.39
95 1 0.00
96 6 0.02
97 4 0.01
98 153 0.57
ACGTcount: A:0.31, C:0.13, G:0.30, T:0.26
Consensus pattern (96 bp):
ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
TATATATATGTGTGATAAGGCCGAATGGCCA
Found at i:41778550 original size:46 final size:46
Alignment explanation
Indices: 41778461--41778551 Score: 119
Period size: 46 Copynumber: 2.0 Consensus size: 46
41778451 GAACATGAAT
* * * *
41778461 ATATGTGGTAAGGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATGG
* * *
41778507 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTACGAGATG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATG
41778552 TGTATATATA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.33, C:0.10, G:0.32, T:0.25
Consensus pattern (46 bp):
ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATGG
Found at i:41778558 original size:141 final size:140
Alignment explanation
Indices: 41778101--41778536 Score: 493
Period size: 145 Copynumber: 3.0 Consensus size: 140
41778091 TTAGGATTTT
* * * * *
41778101 ATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
1 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
* *
41778166 CGTATATATATGTGTGATAAGGCCGAATGGCCAATGCGATGAATGTGAACATGCGTATGTGTGAT
66 TG-A-ATATA--TGTGATAAGGCCGAATGGCCAATGCGA-GAACGTGAACATGCGTATGTGTGAT
* *
41778231 AAGGCCGAATGGCCA
126 AAAGCCAAATGGCCA
* ** *
41778246 ATGTGATGAATGTGAACCTTTATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
1 ATGTGATGAATGTGAA-C-ATGCATATAT--GAGATAAGGCCGAATGGCCAATGTGATGAATGTG
** * * *
41778311 AACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGAT
62 AACATGAATATATGTGATAAGGCCGAATGGCCAATGCGA-GAACGTGAACATGCGTATGTGTGAT
* *
41778376 AAGGCCGAATGGCCA
126 AAAGCCAAATGGCCA
*
41778391 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCTAATGGCCAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
* * *
41778456 TGAATATATGTGGTAAGGCCGAATGGCTAATGCGA-AACGTGTATGAGATG-GATATGTG-G-TA
66 TGAATATATGTGATAAGGCCGAATGGCCAATGCGAGAACGTG-A--ACATGCG-TATGTGTGATA
*
41778517 AAGCCAAATGGCTA
127 AAGCCAAATGGCCA
41778531 ATGTGA
1 ATGTGA
41778537 GATATGTACG
Statistics
Matches: 255, Mismatches: 28, Indels: 21
0.84 0.09 0.07
Matches are distributed among these distances:
139 5 0.02
140 20 0.08
141 67 0.26
142 10 0.04
143 7 0.03
144 1 0.00
145 98 0.38
146 1 0.00
147 8 0.03
149 38 0.15
ACGTcount: A:0.32, C:0.12, G:0.30, T:0.26
Consensus pattern (140 bp):
ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
TGAATATATGTGATAAGGCCGAATGGCCAATGCGAGAACGTGAACATGCGTATGTGTGATAAAGC
CAAATGGCCA
Found at i:41778746 original size:37 final size:37
Alignment explanation
Indices: 41778696--41778840 Score: 254
Period size: 37 Copynumber: 3.9 Consensus size: 37
41778686 GGAAATATAT
41778696 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
41778733 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
41778770 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * *
41778807 TCCGGGTAAGACCCGATAACTTCATGTGGAGATT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT
41778841 CCGTCTGAGC
Statistics
Matches: 104, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 104 1.00
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.26
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:41780174 original size:21 final size:23
Alignment explanation
Indices: 41780150--41780191 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
41780140 TTCTTTCCAA
*
41780150 AATTTC-TCTT-TTTTTTTTTCG
1 AATTTCTTCTTCTCTTTTTTTCG
41780171 AATTTCTTCTTCTCTTTTTTT
1 AATTTCTTCTTCTCTTTTTTT
41780192 GATTTTTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 6 0.33
22 4 0.22
23 8 0.44
ACGTcount: A:0.10, C:0.17, G:0.02, T:0.71
Consensus pattern (23 bp):
AATTTCTTCTTCTCTTTTTTTCG
Found at i:41786649 original size:18 final size:18
Alignment explanation
Indices: 41786605--41786649 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
41786595 TTTGCTCTTT
*
41786605 TTCATTCTCTTTTTCTTTC
1 TTCATT-TCTTTTTCTGTC
*
41786624 TTGATTTCTTTTTCTGTC
1 TTCATTTCTTTTTCTGTC
*
41786642 TTCCTTTC
1 TTCATTTC
41786650 ATTACAAGAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 17 0.77
19 5 0.23
ACGTcount: A:0.04, C:0.24, G:0.04, T:0.67
Consensus pattern (18 bp):
TTCATTTCTTTTTCTGTC
Found at i:41787893 original size:40 final size:40
Alignment explanation
Indices: 41787819--41787897 Score: 115
Period size: 40 Copynumber: 2.0 Consensus size: 40
41787809 AAAAATGTTG
*
41787819 TTATAGATCGAGCATTAGCGACGTTTCTTTAAAAACGCCA
1 TTATAGATCGAGCATTAGCGACGTTTCTTGAAAAACGCCA
* *
41787859 TTATAGATCGATCATTAGCGGCGCTTT-TTGAAAAACGCC
1 TTATAGATCGAGCATTAGCGACG-TTTCTTGAAAAACGCC
41787898 GCAAAAAATT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
40 32 0.91
41 3 0.09
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.30
Consensus pattern (40 bp):
TTATAGATCGAGCATTAGCGACGTTTCTTGAAAAACGCCA
Found at i:41788378 original size:7 final size:7
Alignment explanation
Indices: 41788368--41788409 Score: 57
Period size: 7 Copynumber: 5.9 Consensus size: 7
41788358 ATTTTAAGGT
41788368 TTATGGA
1 TTATGGA
*
41788375 TTATGGGT
1 TTAT-GGA
*
41788383 TTAGGGA
1 TTATGGA
41788390 TTATGGA
1 TTATGGA
41788397 TTATGGA
1 TTATGGA
41788404 TTATGG
1 TTATGG
41788410 TTTAAAGGTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
7 25 0.83
8 5 0.17
ACGTcount: A:0.24, C:0.00, G:0.33, T:0.43
Consensus pattern (7 bp):
TTATGGA
Found at i:41788385 original size:22 final size:22
Alignment explanation
Indices: 41788360--41788402 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
41788350 GAGTTACTAT
*
41788360 TTTAAGGTTTATGGATTATGGG
1 TTTAAGGATTATGGATTATGGG
*
41788382 TTTAGGGATTATGGATTATGG
1 TTTAAGGATTATGGATTATGG
41788403 ATTATGGTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.23, C:0.00, G:0.33, T:0.44
Consensus pattern (22 bp):
TTTAAGGATTATGGATTATGGG
Found at i:41788458 original size:57 final size:58
Alignment explanation
Indices: 41788397--41788512 Score: 137
Period size: 57 Copynumber: 2.0 Consensus size: 58
41788387 GGATTATGGA
* * *
41788397 TTATGGATTATGGTTTAAAG-GTTGGGGTTTAAGGGTTAAGGGTTAGGGGTTT-AGGTT
1 TTATGGATTAT-GTTTAAAGAGTTAGGGTTTAAGGGATAAGGGTTAGGGATTTAAGGTT
* * * * *
41788454 TTATGGTTTATGTTTTATGATTTAGGGTTTAAGGGATAGGGGTTAGGGATTTAAGGTT
1 TTATGGATTATGTTTAAAGAGTTAGGGTTTAAGGGATAAGGGTTAGGGATTTAAGGTT
41788512 T
1 T
41788513 AGATTAATTA
Statistics
Matches: 49, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
56 6 0.12
57 37 0.76
58 6 0.12
ACGTcount: A:0.22, C:0.00, G:0.35, T:0.43
Consensus pattern (58 bp):
TTATGGATTATGTTTAAAGAGTTAGGGTTTAAGGGATAAGGGTTAGGGATTTAAGGTT
Found at i:41788461 original size:14 final size:14
Alignment explanation
Indices: 41788444--41788484 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
41788434 AAGGGTTAGG
41788444 GGTTTAGGTTTTAT
1 GGTTTAGGTTTTAT
*
41788458 GGTTTATGTTTTAT
1 GGTTTAGGTTTTAT
* *
41788472 GATTTAGGGTTTA
1 GGTTTAGGTTTTA
41788485 AGGGATAGGG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.17, C:0.00, G:0.27, T:0.56
Consensus pattern (14 bp):
GGTTTAGGTTTTAT
Found at i:41794745 original size:25 final size:26
Alignment explanation
Indices: 41794717--41794796 Score: 78
Period size: 25 Copynumber: 3.2 Consensus size: 26
41794707 CACAGCTCTT
* *
41794717 ATGAGCTTCCCGA-TATTTAGCTTGC
1 ATGAGCTTCCCGATTATTCAGCTCGC
*
41794742 ATGAGCTTCCC-ATTATTCAGCTCGG
1 ATGAGCTTCCCGATTATTCAGCTCGC
* * *
41794767 ACGAGCTTCCCG-TT-TACAGCTCGT
1 ATGAGCTTCCCGATTATTCAGCTCGC
41794791 ATGAGC
1 ATGAGC
41794797 ATAAATGTAC
Statistics
Matches: 46, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
24 14 0.30
25 32 0.70
ACGTcount: A:0.20, C:0.28, G:0.21, T:0.31
Consensus pattern (26 bp):
ATGAGCTTCCCGATTATTCAGCTCGC
Found at i:41801764 original size:14 final size:15
Alignment explanation
Indices: 41801745--41801774 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
41801735 TAAATCCAAT
41801745 AGCCATAATT-ATCC
1 AGCCATAATTCATCC
41801759 AGCCATAATTCATCC
1 AGCCATAATTCATCC
41801774 A
1 A
41801775 CACATTTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.37, C:0.30, G:0.07, T:0.27
Consensus pattern (15 bp):
AGCCATAATTCATCC
Found at i:41817638 original size:28 final size:28
Alignment explanation
Indices: 41817607--41817661 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
41817597 TGTGTTTTAA
*
41817607 TTTATTACATGTTATTAATG-TGTCTAAT
1 TTTATTACAAGTT-TTAATGATGTCTAAT
41817635 TTTATTACAAGTTTTAATGATGTCTAA
1 TTTATTACAAGTTTTAATGATGTCTAA
41817662 GTCCAGCCGA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 6 0.24
28 19 0.76
ACGTcount: A:0.31, C:0.07, G:0.11, T:0.51
Consensus pattern (28 bp):
TTTATTACAAGTTTTAATGATGTCTAAT
Found at i:41822426 original size:28 final size:28
Alignment explanation
Indices: 41822395--41822449 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
41822385 TGTGTTTTAA
* *
41822395 TTTATTACATGTTATTAATG-TGTCTAAT
1 TTTATTACAAGAT-TTAATGATGTCTAAT
41822423 TTTATTACAAGATTTAATGATGTCTAA
1 TTTATTACAAGATTTAATGATGTCTAA
41822450 GTCCAGCCGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 6 0.25
28 18 0.75
ACGTcount: A:0.33, C:0.07, G:0.11, T:0.49
Consensus pattern (28 bp):
TTTATTACAAGATTTAATGATGTCTAAT
Found at i:41832427 original size:30 final size:30
Alignment explanation
Indices: 41832393--41832465 Score: 146
Period size: 30 Copynumber: 2.4 Consensus size: 30
41832383 AGATTCGGTT
41832393 TCTTGATTTTCTTGAAAACAAGAAAGTGAA
1 TCTTGATTTTCTTGAAAACAAGAAAGTGAA
41832423 TCTTGATTTTCTTGAAAACAAGAAAGTGAA
1 TCTTGATTTTCTTGAAAACAAGAAAGTGAA
41832453 TCTTGATTTTCTT
1 TCTTGATTTTCTT
41832466 TTTCCTTCGT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 43 1.00
ACGTcount: A:0.34, C:0.11, G:0.15, T:0.40
Consensus pattern (30 bp):
TCTTGATTTTCTTGAAAACAAGAAAGTGAA
Found at i:41832777 original size:33 final size:34
Alignment explanation
Indices: 41832726--41832800 Score: 125
Period size: 33 Copynumber: 2.2 Consensus size: 34
41832716 AGATTTAAAC
41832726 AAATTAATTACTAACACTTATTTAAGGTGAACTA
1 AAATTAATTACTAACACTTATTTAAGGTGAACTA
*
41832760 AAATTAATT-CTAACACTTATTTAAGTTGAACTA
1 AAATTAATTACTAACACTTATTTAAGGTGAACTA
*
41832793 AATTTAAT
1 AAATTAAT
41832801 AAACTAACTC
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
33 30 0.77
34 9 0.23
ACGTcount: A:0.44, C:0.11, G:0.07, T:0.39
Consensus pattern (34 bp):
AAATTAATTACTAACACTTATTTAAGGTGAACTA
Found at i:41834581 original size:18 final size:17
Alignment explanation
Indices: 41834558--41834596 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
41834548 CTCTTTTTGC
41834558 TCTTTTTCATTCTCTTTT
1 TCTTTTTCATT-TCTTTT
*
41834576 TCTTTTTTGATTTCTTTT
1 TC-TTTTTCATTTCTTTT
41834594 TCT
1 TCT
41834597 GTCTTCCTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
17 1 0.05
18 10 0.53
19 8 0.42
ACGTcount: A:0.05, C:0.18, G:0.03, T:0.74
Consensus pattern (17 bp):
TCTTTTTCATTTCTTTT
Found at i:41837368 original size:7 final size:7
Alignment explanation
Indices: 41837356--41837388 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
41837346 TAGTCGATTG
41837356 GTATTTA
1 GTATTTA
41837363 GTATTTA
1 GTATTTA
41837370 GTATTTA
1 GTATTTA
*
41837377 GTATTCA
1 GTATTTA
41837384 GTATT
1 GTATT
41837389 ATTATGTATA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.27, C:0.03, G:0.15, T:0.55
Consensus pattern (7 bp):
GTATTTA
Found at i:41838069 original size:18 final size:18
Alignment explanation
Indices: 41838042--41838081 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
41838032 CAGGTGCGTT
*
41838042 TCCTAGCCCTTATATGTA
1 TCCTAACCCTTATATGTA
41838060 TCCTAACCCTTATATGTA
1 TCCTAACCCTTATATGTA
41838078 TCCT
1 TCCT
41838082 TTTTTGAGTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.23, C:0.30, G:0.07, T:0.40
Consensus pattern (18 bp):
TCCTAACCCTTATATGTA
Found at i:41855064 original size:18 final size:19
Alignment explanation
Indices: 41855043--41855079 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
41855033 AAAGGAAGAC
41855043 AGAAAAAGA-AATCAAAAA
1 AGAAAAAGAGAATCAAAAA
*
41855061 AGAAAAAGAGAATGAAAAA
1 AGAAAAAGAGAATCAAAAA
41855080 GACCAAAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.76, C:0.03, G:0.16, T:0.05
Consensus pattern (19 bp):
AGAAAAAGAGAATCAAAAA
Found at i:41862238 original size:39 final size:40
Alignment explanation
Indices: 41862081--41862305 Score: 278
Period size: 40 Copynumber: 5.7 Consensus size: 40
41862071 GCTCCTCGTT
* *
41862081 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
*
41862121 CAAATGCCTTCGGGACTTAACCCGGATTTTGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
41862161 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
41862201 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * * *
41862240 CAAATGCCTTC-GGATCTTAATCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
41862281 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
41862306 CATCATTCAA
Statistics
Matches: 161, Mismatches: 19, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
38 2 0.01
39 32 0.20
40 114 0.71
41 13 0.08
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:41862259 original size:119 final size:120
Alignment explanation
Indices: 41862083--41862305 Score: 310
Period size: 119 Copynumber: 1.9 Consensus size: 120
41862073 TCCTCGTTCA
*
41862083 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* * *
41862148 TTTGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATGGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
* * *
41862203 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAATCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* *
41862265 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 ATATGGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
41862306 CATCATTCAA
Statistics
Matches: 91, Mismatches: 9, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
118 4 0.04
119 67 0.74
120 20 0.22
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATGGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:41864229 original size:33 final size:33
Alignment explanation
Indices: 41864180--41864254 Score: 107
Period size: 33 Copynumber: 2.2 Consensus size: 33
41864170 AGATTTAAAC
41864180 AAATTAATTTCTAACACTTATTTAA-CGTGAACTA
1 AAATTAA-TTCTAACACTTATTTAAGC-TGAACTA
*
41864214 AAATTAATTCTAACACTTATTTGAGCTGAACTA
1 AAATTAATTCTAACACTTATTTAAGCTGAACTA
*
41864247 AATTTAAT
1 AAATTAAT
41864255 AAACTAACTC
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
33 30 0.79
34 8 0.21
ACGTcount: A:0.41, C:0.13, G:0.07, T:0.39
Consensus pattern (33 bp):
AAATTAATTCTAACACTTATTTAAGCTGAACTA
Found at i:41866011 original size:18 final size:17
Alignment explanation
Indices: 41865988--41866026 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
41865978 CTCCTTTTGC
41865988 TCTTTTTCATTCTCTTTT
1 TCTTTTTCATT-TCTTTT
*
41866006 TCTTTTTTGATTTCTTTT
1 TC-TTTTTCATTTCTTTT
41866024 TCT
1 TCT
41866027 GTCTTTCTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
17 1 0.05
18 10 0.53
19 8 0.42
ACGTcount: A:0.05, C:0.18, G:0.03, T:0.74
Consensus pattern (17 bp):
TCTTTTTCATTTCTTTT
Found at i:41868806 original size:21 final size:23
Alignment explanation
Indices: 41868785--41868826 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
41868775 TTCTCTCTGA
41868785 AATTTC-TC-TCT-TTTTTTTTG
1 AATTTCTTCTTCTATTTTTTTTG
41868805 AATTTCTTCTTCTATTTTTTTT
1 AATTTCTTCTTCTATTTTTTTT
41868827 TGATTTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.32
21 2 0.11
22 3 0.16
23 8 0.42
ACGTcount: A:0.12, C:0.14, G:0.02, T:0.71
Consensus pattern (23 bp):
AATTTCTTCTTCTATTTTTTTTG
Found at i:41868908 original size:26 final size:25
Alignment explanation
Indices: 41868879--41868942 Score: 76
Period size: 25 Copynumber: 2.5 Consensus size: 25
41868869 GGAAAATAAA
**
41868879 TTACAACTTAATTTTTTTTGAATTTT
1 TTACAACTT-ATTTTTTTCAAATTTT
41868905 TTACAACCTT-TTTTTTTCAAATTTT
1 TTACAA-CTTATTTTTTTCAAATTTT
*
41868930 TTTCAACTTATTT
1 TTACAACTTATTT
41868943 ATTCCGGCAC
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
24 3 0.09
25 21 0.64
26 6 0.18
27 3 0.09
ACGTcount: A:0.25, C:0.12, G:0.02, T:0.61
Consensus pattern (25 bp):
TTACAACTTATTTTTTTCAAATTTT
Found at i:41870296 original size:31 final size:31
Alignment explanation
Indices: 41870261--41870322 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
41870251 CTGATTCGAC
41870261 ATCATTCTTAGGCATCAAGAAACGTTCTTTG
1 ATCATTCTTAGGCATCAAGAAACGTTCTTTG
41870292 ATCATTCTTAGGCATCAAGAAACGTTCTTTG
1 ATCATTCTTAGGCATCAAGAAACGTTCTTTG
41870323 TTATAATTTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.35
Consensus pattern (31 bp):
ATCATTCTTAGGCATCAAGAAACGTTCTTTG
Found at i:41873632 original size:33 final size:34
Alignment explanation
Indices: 41873589--41873663 Score: 100
Period size: 33 Copynumber: 2.2 Consensus size: 34
41873579 GAGTTGGTTT
*
41873589 ATTAAATTTAGTT-AAGCTCAAATAAGTGTTAG-A
1 ATTAATTTTAGTTCAA-CTCAAATAAGTGTTAGTA
* *
41873622 TTTAATTTTAGTTCAACTTAAATAAGTGTTAGTA
1 ATTAATTTTAGTTCAACTCAAATAAGTGTTAGTA
41873656 ATTAATTT
1 ATTAATTT
41873664 GTTTAAATCT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
33 26 0.72
34 10 0.28
ACGTcount: A:0.39, C:0.05, G:0.12, T:0.44
Consensus pattern (34 bp):
ATTAATTTTAGTTCAACTCAAATAAGTGTTAGTA
Found at i:41876631 original size:8 final size:8
Alignment explanation
Indices: 41876618--41876654 Score: 51
Period size: 8 Copynumber: 4.9 Consensus size: 8
41876608 TTCACGCCAC
41876618 TAAAACCA
1 TAAAACCA
41876626 TAAAACCA
1 TAAAACCA
41876634 TAAAACC-
1 TAAAACCA
*
41876641 T-AAACCC
1 TAAAACCA
41876648 TAAAACC
1 TAAAACC
41876655 CTTTCCTCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 5 0.19
7 2 0.07
8 20 0.74
ACGTcount: A:0.57, C:0.30, G:0.00, T:0.14
Consensus pattern (8 bp):
TAAAACCA
Found at i:41877698 original size:20 final size:21
Alignment explanation
Indices: 41877660--41877698 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
41877650 TTCATGGCTT
*
41877660 TAAATAATTTTTGGGTAAAAA
1 TAAATAATTTTAGGGTAAAAA
*
41877681 TAAAT-ATTTTAGGTTAAA
1 TAAATAATTTTAGGGTAAA
41877699 TTGGAATTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.46, C:0.00, G:0.13, T:0.41
Consensus pattern (21 bp):
TAAATAATTTTAGGGTAAAAA
Found at i:41886554 original size:19 final size:19
Alignment explanation
Indices: 41886530--41886572 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
41886520 ATTGAGCGAG
41886530 AAAGAG-AAAAAGAGAAAAA
1 AAAGAGTAAAAAGA-AAAAA
*
41886549 AAAGAGTGAAAAGAAAAAA
1 AAAGAGTAAAAAGAAAAAA
41886568 AAAGA
1 AAAGA
41886573 AGAGAATGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.77, C:0.00, G:0.21, T:0.02
Consensus pattern (19 bp):
AAAGAGTAAAAAGAAAAAA
Found at i:41892827 original size:25 final size:25
Alignment explanation
Indices: 41892794--41892869 Score: 66
Period size: 25 Copynumber: 3.1 Consensus size: 25
41892784 AAATGATTTT
41892794 TAGA-TGTGAAAACAATAGAAACTA
1 TAGATTGTGAAAACAATAGAAACTA
* * *
41892818 TAGATTGTG-AAACTATAGGAGACAA
1 TAGATTGTGAAAACAATA-GAAACTA
* ** *
41892843 TAGATTATGAAAATGATATAAACTA
1 TAGATTGTGAAAACAATAGAAACTA
41892868 TA
1 TA
41892870 TTATAGAGGG
Statistics
Matches: 40, Mismatches: 9, Indels: 5
0.74 0.17 0.09
Matches are distributed among these distances:
24 11 0.28
25 23 0.57
26 6 0.15
ACGTcount: A:0.50, C:0.07, G:0.17, T:0.26
Consensus pattern (25 bp):
TAGATTGTGAAAACAATAGAAACTA
Found at i:41899506 original size:18 final size:20
Alignment explanation
Indices: 41899485--41899534 Score: 68
Period size: 18 Copynumber: 2.5 Consensus size: 20
41899475 AAAGGAAGAC
41899485 AGAAAAAGA-AATCAAAAA-
1 AGAAAAAGAGAATCAAAAAG
*
41899503 AGAAAAAGAGAATGAAAAAG
1 AGAAAAAGAGAATCAAAAAG
41899523 AGAAAAAAGAGA
1 AG-AAAAAGAGA
41899535 TTGAGAGTGA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 9 0.32
19 8 0.29
20 2 0.07
21 9 0.32
ACGTcount: A:0.74, C:0.02, G:0.20, T:0.04
Consensus pattern (20 bp):
AGAAAAAGAGAATCAAAAAG
Found at i:41901277 original size:33 final size:34
Alignment explanation
Indices: 41901240--41901320 Score: 114
Period size: 33 Copynumber: 2.5 Consensus size: 34
41901230 GAGTTAGTTT
*
41901240 ATTAAATTTAGTTCAGCTCAAATAAGTGTTAG-A
1 ATTAAATTTAGTTCAACTCAAATAAGTGTTAGTA
* *
41901273 ATTAATTTTAGTTCAACTTAAATAAGTGTTAGTA
1 ATTAAATTTAGTTCAACTCAAATAAGTGTTAGTA
41901307 ATT-AATTT-GTTCAA
1 ATTAAATTTAGTTCAA
41901321 ATCTGGACAA
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
32 6 0.14
33 33 0.77
34 4 0.09
ACGTcount: A:0.38, C:0.07, G:0.12, T:0.42
Consensus pattern (34 bp):
ATTAAATTTAGTTCAACTCAAATAAGTGTTAGTA
Found at i:41903662 original size:79 final size:79
Alignment explanation
Indices: 41903552--41903722 Score: 209
Period size: 79 Copynumber: 2.2 Consensus size: 79
41903542 GCTCCTCGTT
* * * *
41903552 CAAATGCCTTCAGGACATAGCCCCGTTTTAGTAAATCACAC-AATGCCTTCGGGACTTAACCCGA
1 CAAATGCCTTCGGGACATAACCCCGATTTAGTAAATCACACAAAGGCCTTCGGGACTTAACCCGA
41903616 ATTTAATAACTCGCA
66 ATTT-ATAACTCGCA
* * * ** * *
41903631 CGAATGCCTTCGGGACTTAACCCGGATTTAGTACCTCGCACAAAGGCCTTCGGGGCTTAACCCGA
1 CAAATGCCTTCGGGACATAACCCCGATTTAGTAAATCACACAAAGGCCTTCGGGACTTAACCCGA
* *
41903696 ATTTGTATCTCGCA
66 ATTTATAACTCGCA
41903710 CAAATGCCTTCGG
1 CAAATGCCTTCGG
41903723 ATCTTAGTCC
Statistics
Matches: 77, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
79 52 0.68
80 25 0.32
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACATAACCCCGATTTAGTAAATCACACAAAGGCCTTCGGGACTTAACCCGA
ATTTATAACTCGCA
Found at i:41903719 original size:39 final size:40
Alignment explanation
Indices: 41903552--41903722 Score: 195
Period size: 40 Copynumber: 4.3 Consensus size: 40
41903542 GCTCCTCGTT
* * * * * *
41903552 CAAATGCCTTCAGGACATAGCCCCG-TTTTAGTAAATCACA
1 CAAATGCCTTCGGGACTTA-ACCCGAATTTAGTAACTCGCA
*
41903592 C-AATGCCTTCGGGACTTAACCCGAATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGAATTTAGTAACTCGCA
* * *
41903631 CGAATGCCTTCGGGACTTAACCCGGATTTAGTACCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGAATTTAGTAACTCGCA
* * *
41903671 CAAAGGCCTTCGGGGCTTAACCCGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGAATTTAGTAACTCGCA
41903710 CAAATGCCTTCGG
1 CAAATGCCTTCGG
41903723 ATCTTAGTCC
Statistics
Matches: 113, Mismatches: 16, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
38 4 0.04
39 48 0.42
40 61 0.54
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGAATTTAGTAACTCGCA
Found at i:41903735 original size:79 final size:81
Alignment explanation
Indices: 41903596--41903774 Score: 220
Period size: 80 Copynumber: 2.2 Consensus size: 81
41903586 ATCACACAAT
* *
41903596 GCCTTCGGGACTTAACCCGAATTTAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTA
1 GCCTTCGGGACTTAACCCGAATTTAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATA
* *
41903661 GT-ACCTCGCACAAAG
66 GTCACCTAGCACAAAA
* * * **
41903676 GCCTTCGGGGCTTAACCCGAATTT-GTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGGATAT
1 GCCTTCGGGACTTAACCCGAATTTAATAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATAT
* *
41903739 ATTCACTTAGCACAAAA
65 AGTCACCTAGCACAAAA
*
41903756 GCCTTCGGGACTTAGCCCG
1 GCCTTCGGGACTTAACCCG
41903775 GACAGCATTC
Statistics
Matches: 84, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
78 3 0.04
79 31 0.37
80 50 0.60
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (81 bp):
GCCTTCGGGACTTAACCCGAATTTAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATA
GTCACCTAGCACAAAA
Found at i:41911105 original size:39 final size:40
Alignment explanation
Indices: 41911060--41911282 Score: 242
Period size: 39 Copynumber: 5.7 Consensus size: 40
41911050 GCTCCTCGTT
* * * *
41911060 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
41911100 C-AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
41911139 CGAATGCCTTCGGGACTTAACCCGGATTTAGT-ACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
41911178 CAAAGGCCTTCGGG-CTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * * *
41911217 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
41911258 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
41911283 CAGCATTCAA
Statistics
Matches: 157, Mismatches: 18, Indels: 16
0.82 0.09 0.08
Matches are distributed among these distances:
38 14 0.09
39 76 0.48
40 56 0.36
41 11 0.07
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:41911291 original size:41 final size:41
Alignment explanation
Indices: 41911214--41911291 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
41911204 TTTGTATCTC
* * *
41911214 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
41911255 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
41911292 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:41923011 original size:13 final size:13
Alignment explanation
Indices: 41922993--41923022 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
41922983 TCCAGCAACA
41922993 ATGAATTTATTTC
1 ATGAATTTATTTC
*
41923006 ATGAATTTATTTG
1 ATGAATTTATTTC
41923019 ATGA
1 ATGA
41923023 TGATCCAAGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.33, C:0.03, G:0.13, T:0.50
Consensus pattern (13 bp):
ATGAATTTATTTC
Found at i:41923258 original size:49 final size:50
Alignment explanation
Indices: 41923117--41923308 Score: 280
Period size: 50 Copynumber: 3.8 Consensus size: 50
41923107 CTTGGGGTAA
41923117 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
*
41923167 AGAGCTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * * *
41923217 AGAGGTCCC-CGTAAGACCATGTCTGGGACATCGCATGGGCACCGACATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** *
41923266 AGTACATCCCATGTAAGACCATGGCTGGGACATGG-ATTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCA-TTGGCA
41923309 TGTTATTATC
Statistics
Matches: 127, Mismatches: 12, Indels: 5
0.88 0.08 0.03
Matches are distributed among these distances:
49 38 0.30
50 63 0.50
51 26 0.20
ACGTcount: A:0.26, C:0.24, G:0.30, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:41925963 original size:37 final size:37
Alignment explanation
Indices: 41925913--41925991 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
41925903 TTATTACGAA
* *
41925913 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
41925950 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
41925987 GTCTT
1 GTCTT
41925992 TAGAGCCCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:41926188 original size:47 final size:47
Alignment explanation
Indices: 41926110--41926518 Score: 656
Period size: 47 Copynumber: 8.6 Consensus size: 47
41926100 CCCTTCGGGA
* * * * * *
41926110 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
41926157 CCTGTCACATATATACACTCTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
41926204 CTTATCACATATATACACTCTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
41926251 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
41926300 CTTATCACATATATACGCTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
41926347 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
41926394 CTTATCACATATATACACTCTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
41926441 CTTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC----ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
41926492 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
41926519 TATTCAAATA
Statistics
Matches: 340, Mismatches: 16, Indels: 12
0.92 0.04 0.03
Matches are distributed among these distances:
47 248 0.73
49 46 0.14
51 46 0.14
ACGTcount: A:0.29, C:0.31, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:41926433 original size:190 final size:191
Alignment explanation
Indices: 41926110--41926518 Score: 712
Period size: 190 Copynumber: 2.1 Consensus size: 191
41926100 CCCTTCGGGA
* * * * * *
41926110 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCCTATCACATATATACAC
41926175 TCTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTCTCACATTCATCACATC
66 TCTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTCTCACATTCATCACATC
41926240 GGCCATTAGGCCTTATCAC-ATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
131 GGCCATTAGGCCTTATCACAATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
41926300 CTTATCACATATATACGCTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCCTATCACATATATACAC
*
41926365 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTCTCACATTCATCACATC
66 TCTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTCTCACATTCATCACATC
41926430 GGCCATTAGGCCTTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
131 GGCCATTAGGCCTTATCACA-ATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
41926492 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
41926519 TATTCAAATA
Statistics
Matches: 206, Mismatches: 11, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
190 139 0.67
192 67 0.33
ACGTcount: A:0.29, C:0.31, G:0.09, T:0.32
Consensus pattern (191 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCCTATCACATATATACAC
TCTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTCTCACATTCATCACATC
GGCCATTAGGCCTTATCACAATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:41934889 original size:13 final size:13
Alignment explanation
Indices: 41934871--41934900 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
41934861 TACAGCAACA
41934871 ATGAATTTATTTC
1 ATGAATTTATTTC
*
41934884 ATGAATTTATTTG
1 ATGAATTTATTTC
41934897 ATGA
1 ATGA
41934901 TGATCCATGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.33, C:0.03, G:0.13, T:0.50
Consensus pattern (13 bp):
ATGAATTTATTTC
Found at i:41935054 original size:50 final size:50
Alignment explanation
Indices: 41934995--41935237 Score: 342
Period size: 50 Copynumber: 4.8 Consensus size: 50
41934985 ATTGGGGTAA
*
41934995 AGAGGTCTCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * * *
41935045 AGAGGTCTCAAGTGAGACGATGTCTGGGACATGGCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
41935095 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * *
41935145 AGAGGTCCCCCGTAAGACCGTGTCTGGGACATGGCATGGGCACCGACATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * *
41935195 AGTACATCCCATCTAAGACCATGTCTGGGACATGCCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
41935238 TGTTATTATC
Statistics
Matches: 171, Mismatches: 21, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
50 140 0.82
51 31 0.18
ACGTcount: A:0.25, C:0.23, G:0.31, T:0.21
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:41964398 original size:20 final size:20
Alignment explanation
Indices: 41964373--41964414 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
41964363 GCTAATGGAA
*
41964373 AGCTAAATTGAGCTCGAATG
1 AGCTAAATTGAGCTCAAATG
*
41964393 AGCTAAATTGATCTCAAATG
1 AGCTAAATTGAGCTCAAATG
41964413 AG
1 AG
41964415 ATGGTTGGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.38, C:0.14, G:0.21, T:0.26
Consensus pattern (20 bp):
AGCTAAATTGAGCTCAAATG
Found at i:41967831 original size:39 final size:40
Alignment explanation
Indices: 41967786--41968010 Score: 224
Period size: 40 Copynumber: 5.7 Consensus size: 40
41967776 GCTCCTCGTT
* * * *
41967786 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
41967826 C-AATGCCTTTGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
41967865 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
41967905 CAAAGGCCTTCGGGGCTTAACCCGGAACTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * * *
41967945 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
41967986 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
41968011 CAGCATTCAA
Statistics
Matches: 155, Mismatches: 24, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
39 37 0.24
40 104 0.67
41 14 0.09
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:41968019 original size:41 final size:41
Alignment explanation
Indices: 41967942--41968019 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
41967932 CTTGTATCTC
* * *
41967942 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
41967983 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
41968020 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:41970654 original size:20 final size:19
Alignment explanation
Indices: 41970624--41970673 Score: 66
Period size: 18 Copynumber: 2.6 Consensus size: 19
41970614 GCACTCTCAA
41970624 TCTCTTTTTTCTCTTTTTCAT
1 TCTC-TTTTTCT-TTTTTCAT
*
41970645 TCTCTTTTTCTTTTTTGAT
1 TCTCTTTTTCTTTTTTCAT
41970664 T-TCTTTTTCT
1 TCTCTTTTTCT
41970674 ATCTTCCTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 9 0.32
19 8 0.29
20 7 0.25
21 4 0.14
ACGTcount: A:0.04, C:0.20, G:0.02, T:0.74
Consensus pattern (19 bp):
TCTCTTTTTCTTTTTTCAT
Found at i:41970658 original size:18 final size:17
Alignment explanation
Indices: 41970630--41970673 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 17
41970620 TCAATCTCTT
41970630 TTTTCTCTTTTTCATTCTC
1 TTTT-TCTTTTTCATT-TC
*
41970649 TTTTTCTTTTTTGATTTC
1 TTTTTC-TTTTTCATTTC
41970667 TTTTTCT
1 TTTTTCT
41970674 ATCTTCCTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 1 0.04
18 10 0.43
19 12 0.52
ACGTcount: A:0.05, C:0.18, G:0.02, T:0.75
Consensus pattern (17 bp):
TTTTTCTTTTTCATTTC
Found at i:41975524 original size:521 final size:520
Alignment explanation
Indices: 41974544--41975568 Score: 1414
Period size: 521 Copynumber: 2.0 Consensus size: 520
41974534 TTACTTTCCT
* **
41974544 AACCCTATTAGGAAAAACTAAAAAAACCCTAATTATTTGATTAAAGGAAAATTTGGTCAAGGCTA
1 AACCCTATTAGGAAAAACTAAAAAAACCCTAATTATTTGATTAAAGGAAAATTCGACCAAGGCTA
* *
41974609 TTTAAATGGGCCTCTTGGACTAAATGTTTACATAGAAATTAATTTATTAAGTCTAAAATTTAAAC
66 TTTAAATGGGCCTCTTGGACTAAATGTTTACATAGAAATTAATTTATAAAGTCTAAAATTAAAAC
*
41974674 TAAGTATTTAAAGAATTAAAACTTAACAAATTGGGCCACTTTAACAATTTGGCCTGATTTTCAAC
131 TAAATATTTAAAGAATTAAAACTTAACAAATTGGGCCACTTTAACAATTTGGCCTGATTTTCAAC
* ** * * * * *
41974739 TAAATCTGATTTAAATTTTTAGATTGGGTTTAGAACATCTTATTGGGCCTTGTCTTTAAGAACTT
196 TAAATCTAATTTAAATTCATAGATTGGGCTTAGAACATCTTATTAGGCCGTATCTTCAAGAACTT
*
41974804 GGGCTTGTAATCCGTTCTCTCCCGAAATTAGCTTGTTAATGCTTGTAACTGAGATCCAATGCGCC
261 GGGCTTGTAATCCGTTCACTCCCGAAATTAGCTTGTTAATGCTTGTAACTGAGATCCAATGCGCC
* ** * * *
41974869 TTAGTTGCAAGATTCGGTTTCTTGGACCAAGATTTCCACGATTTGAAATCTTGATTTTCTTGATT
326 TTAGCTGCAAGATTCAATTTATTGGACCAAGATTTCCAAGATTTAAAATCTTGATTTTCTTGATT
* ** *
41974934 CTTGAAATCGCTCAAAACAGGAAAATTGGACTAAGATTCGGTTTCTTGATTTTCTTGAAAACAAG
391 CTTGAAATCACTCAAAACAACAAAATTGGACCAAGATTCGGTTTCTTGATTTTCTTGAAAACAAG
41974999 AAAGTGAATCTTGATTTTCTTTTTCCTTCCTATACGCATCTAAGGCCTTTGTGACTCGTATCACG
456 AAAGTGAATCTTGATTTTCTTTTTCCTTCCTATACGCATCTAAGGCCTTTGTGACTCGTATCACG
* * *
41975064 AACCCTATTAGG-AAAACTAAAAAAACCCTAATTA-TTGACTTTTCAAGGGATATTCGACCAAGG
1 AACCCTATTAGGAAAAACTAAAAAAACCCTAATTATTTGA---TTAAAGGAAAATTCGACCAAGG
* * * * * * *
41975127 C-CTTT-AATGGGCTTCTTGGGCTGAATTTTTACATAGGAATTTATTTATAAAGTCTAACAATTA
63 CTATTTAAATGGGCCTCTTGGACTAAATGTTTACATAGAAATTAATTTATAAAGTCTAA-AATTA
* * * *
41975190 AAACTAAATATTTAAAGAATTAAAATTTCACAAATTGGGCTACTTTGACAATTTGGCCTGATTTT
127 AAACTAAATATTTAAAGAATTAAAACTTAACAAATTGGGCCACTTTAACAATTTGGCCTGA-TTT
* * * * *
41975255 TCACCTAAGTCTAATTTAAACTTCAT-GGTTGGGCTTGGAGCATCTTATTAGGCCGTATCTTCAA
191 TCAACTAAATCTAATTTAAA-TTCATAGATTGGGCTTAGAACATCTTATTAGGCCGTATCTTCAA
* * * * *
41975319 GAACTTGGGCTTGTAATCCGTTCACTCTCGAAATT-GGTTCGTTGATGCTTGTAATTGAGATCTA
255 GAACTTGGGCTTGTAATCCGTTCACTCCCGAAATTAGCTT-GTTAATGCTTGTAACTGAGATCCA
* * * *
41975383 ATGCGCTTTAGCTGCAAGATTTAATTTATTGGGCCAGGATTTCCAAGATTTAAAATCTTGATTTT
319 ATGCGCCTTAGCTGCAAGATTCAATTTATTGGACCAAGATTTCCAAGATTTAAAATCTTGATTTT
* *
41975448 CTTGATTCTTGAAATCACTCAAAATAACAAAATTGGGCCAAGATTCGGTTTCTTGATTTTCTTGA
384 CTTGATTCTTGAAATCACTCAAAACAACAAAATTGGACCAAGATTCGGTTTCTTGATTTTCTTGA
** * *
41975513 AAACAAGAAAGTGAATCTTGATTTTCTTTTTCCTTTGTGTATGCATCTAAGGCCTT
449 AAACAAGAAAGTGAATCTTGATTTTCTTTTTCCTTCCTATACGCATCTAAGGCCTT
41975569 GCTAATGAAG
Statistics
Matches: 439, Mismatches: 59, Indels: 13
0.86 0.12 0.03
Matches are distributed among these distances:
518 4 0.01
519 67 0.15
520 78 0.18
521 287 0.65
522 3 0.01
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.36
Consensus pattern (520 bp):
AACCCTATTAGGAAAAACTAAAAAAACCCTAATTATTTGATTAAAGGAAAATTCGACCAAGGCTA
TTTAAATGGGCCTCTTGGACTAAATGTTTACATAGAAATTAATTTATAAAGTCTAAAATTAAAAC
TAAATATTTAAAGAATTAAAACTTAACAAATTGGGCCACTTTAACAATTTGGCCTGATTTTCAAC
TAAATCTAATTTAAATTCATAGATTGGGCTTAGAACATCTTATTAGGCCGTATCTTCAAGAACTT
GGGCTTGTAATCCGTTCACTCCCGAAATTAGCTTGTTAATGCTTGTAACTGAGATCCAATGCGCC
TTAGCTGCAAGATTCAATTTATTGGACCAAGATTTCCAAGATTTAAAATCTTGATTTTCTTGATT
CTTGAAATCACTCAAAACAACAAAATTGGACCAAGATTCGGTTTCTTGATTTTCTTGAAAACAAG
AAAGTGAATCTTGATTTTCTTTTTCCTTCCTATACGCATCTAAGGCCTTTGTGACTCGTATCACG
Found at i:41979335 original size:85 final size:85
Alignment explanation
Indices: 41979192--41979370 Score: 340
Period size: 85 Copynumber: 2.1 Consensus size: 85
41979182 GGCCGGCCAT
41979192 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
41979257 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
*
41979277 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCGTTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
41979342 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
*
41979362 GGGCATGGG
1 GAGCATGGG
41979371 CAATAAAATA
Statistics
Matches: 92, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
85 92 1.00
ACGTcount: A:0.37, C:0.08, G:0.28, T:0.26
Consensus pattern (85 bp):
GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
GTAAGGATTAATAAAATAAA
Found at i:41980737 original size:76 final size:74
Alignment explanation
Indices: 41980652--41980795 Score: 227
Period size: 76 Copynumber: 1.9 Consensus size: 74
41980642 AGTGTATATA
* *
41980652 TGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAA-AGTGTGTATATATGTGATAAGGCCTAA
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TGTG--TATATGTGATAAGGCCGAA
41980716 TGGCCACACATG
63 TGGCCACACATG
*
41980728 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATGTGTGATAAGGCCGAATGG
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATATGTGATAAGGCCGAATGG
41980793 CCA
66 CCA
41980796 ATGTGATGAA
Statistics
Matches: 64, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
74 23 0.36
76 40 0.62
77 1 0.02
ACGTcount: A:0.31, C:0.13, G:0.30, T:0.26
Consensus pattern (74 bp):
TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATATGTGATAAGGCCGAATGG
CCACACATG
Found at i:41980822 original size:92 final size:93
Alignment explanation
Indices: 41980725--41980948 Score: 344
Period size: 92 Copynumber: 2.4 Consensus size: 93
41980715 ATGGCCACAC
** * *
41980725 ATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATGTGTGATAAGGCCGAA
1 ATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAA
41980790 TGGCCAATGTGATGAATGTGAACA-TG-T
66 TGGCCAATGTGATGAATGTGAA-AGTGAT
*
41980817 GTGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAA
1 ATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAA
*
41980882 TGGCTAATGTGATGAATGTGAAAGTGTAT
66 TGGCCAATGTGATGAATGTGAAAGTG-AT
* *
41980911 ATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTG
1 ATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
41980949 GAAGTGTATA
Statistics
Matches: 120, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
91 1 0.01
92 83 0.69
94 36 0.30
ACGTcount: A:0.31, C:0.10, G:0.32, T:0.27
Consensus pattern (93 bp):
ATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAA
TGGCCAATGTGATGAATGTGAAAGTGAT
Found at i:41980954 original size:47 final size:47
Alignment explanation
Indices: 41980728--41980969 Score: 348
Period size: 47 Copynumber: 5.2 Consensus size: 47
41980718 GCCACACATG
* *
41980728 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTATATA
* *
41980775 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG--TGTG
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTATATA
*
41980820 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATA
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTATATA
* *
41980867 TGAGATAAGGCCGAATGGCTAATGTGATGAATGTGAA-AGTGTATATA
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TGTATATA
* * *
41980914 TGTGATAAGGCCGAATGGCCAATGTGATGGATGTGGAA-GTGTATAAA
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGT-GAACATGTATATA
41980961 TGTGATAAG
1 TGTGATAAG
41980970 TCCCGAAGGG
Statistics
Matches: 180, Mismatches: 11, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
45 44 0.24
46 1 0.01
47 132 0.73
48 3 0.02
ACGTcount: A:0.32, C:0.10, G:0.31, T:0.27
Consensus pattern (47 bp):
TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTATATA
Found at i:41982106 original size:76 final size:74
Alignment explanation
Indices: 41982021--41982164 Score: 227
Period size: 76 Copynumber: 1.9 Consensus size: 74
41982011 AGTGTATATA
* *
41982021 TGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAA-AGTGTGTATATATGTGATAAGGCCTAA
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TGTG--TATATGTGATAAGGCCGAA
41982085 TGGCCACACATG
63 TGGCCACACATG
*
41982097 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATGTGTGATAAGGCCGAATGG
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATATGTGATAAGGCCGAATGG
41982162 CCA
66 CCA
41982165 ATGTGATGAA
Statistics
Matches: 64, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
74 23 0.36
76 40 0.62
77 1 0.02
ACGTcount: A:0.31, C:0.13, G:0.30, T:0.26
Consensus pattern (74 bp):
TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATATGTGATAAGGCCGAATGG
CCACACATG
Found at i:41982218 original size:22 final size:22
Alignment explanation
Indices: 41982191--41982312 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 22
41982181 CATGTGTATG
41982191 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * *
41982213 TGTGATGAATG-TGAACAT-GCATATA
1 TGTGAT-AAGGCCG-A-ATGGC-CA-A
*
41982238 TGAGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * ***
41982260 TGTGATGAATG-TGAAAGTGTATATA
1 TGTGAT-AAGGCCG-AA-TGGCCA-A
41982285 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
41982307 TGTGAT
1 TGTGAT
41982313 GGATGTGGAA
Statistics
Matches: 70, Mismatches: 18, Indels: 24
0.62 0.16 0.21
Matches are distributed among these distances:
22 21 0.30
23 17 0.24
24 17 0.24
25 15 0.21
ACGTcount: A:0.34, C:0.11, G:0.30, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:41982325 original size:47 final size:47
Alignment explanation
Indices: 41982097--41982340 Score: 375
Period size: 47 Copynumber: 5.2 Consensus size: 47
41982087 GCCACACATG
* *
41982097 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTATATA
* *
41982144 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTATATA
*
41982191 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATA
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTATATA
*
41982238 TGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-AGTGTATATA
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TGTATATA
* * *
41982285 TGTGATAAGGCCGAATGGCCAATGTGATGGATGTGGAA-GTGTATAAA
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGT-GAACATGTATATA
41982332 TGTGATAAG
1 TGTGATAAG
41982341 TCCCGAAGGG
Statistics
Matches: 186, Mismatches: 9, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
46 1 0.01
47 182 0.98
48 3 0.02
ACGTcount: A:0.32, C:0.10, G:0.31, T:0.27
Consensus pattern (47 bp):
TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTATATA
Found at i:41984834 original size:38 final size:38
Alignment explanation
Indices: 41984770--41984844 Score: 107
Period size: 38 Copynumber: 2.0 Consensus size: 38
41984760 AATCCGAGTT
*
41984770 TAAAGACCCGCTGACTATATGAAGAGATTATGTCCGGG
1 TAAAGACCCGATGACTATATGAAGAGATTATGTCCGGG
* *
41984808 TAAAGACCCGATGGCTATGT-ACAGAGATTATGTCCGG
1 TAAAGACCCGATGACTATATGA-AGAGATTATGTCCGG
41984845 ATTAAAATTC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 1 0.03
38 32 0.97
ACGTcount: A:0.31, C:0.19, G:0.27, T:0.24
Consensus pattern (38 bp):
TAAAGACCCGATGACTATATGAAGAGATTATGTCCGGG
Done.