Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168492.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_9, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 25814696
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 122000 characters in sequence are not A, C, G, or T
File 31 of 126
Found at i:6620874 original size:55 final size:54
Alignment explanation
Indices: 6620751--6620933 Score: 161
Period size: 55 Copynumber: 3.3 Consensus size: 54
6620741 TGCCTATCAG
* * * *
6620751 TATATACTTTTAATTTTTCTTACCTATACCGACGCTTAGCATATGTCAGTACAGACT
1 TATATA-TTTTAA-TTTTCTTACCTATACCGACGATTAG-AGATGTCAGTATAGAAT
* * * *
6620808 TGTATTTTTTAATTTTCTTACCTATACCGACGGTTAGAGACTGTCAGTATAAAAT
1 TATATATTTTAATTTTCTTACCTATACCGACGATTAGAGA-TGTCAGTATAGAAT
** ** ** * *
6620863 TATATGCTTTAATGGAT-AAATCTATACCGACGATTAGAGATTGTCAGTATAGAGT
1 TATATATTTTAAT-TTTCTTACCTATACCGACGATTAGAGA-TGTCAGTATAGAAT
6620918 TATATATTTTAATTTT
1 TATATATTTTAATTTT
6620934 TTTATTATAT
Statistics
Matches: 101, Mismatches: 23, Indels: 7
0.77 0.18 0.05
Matches are distributed among these distances:
54 3 0.03
55 87 0.86
56 7 0.07
57 4 0.04
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.42
Consensus pattern (54 bp):
TATATATTTTAATTTTCTTACCTATACCGACGATTAGAGATGTCAGTATAGAAT
Found at i:6622327 original size:9 final size:9
Alignment explanation
Indices: 6622315--6622342 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
6622305 TTGTTTTAAG
6622315 TATTTTCCA
1 TATTTTCCA
6622324 TATTTTCCA
1 TATTTTCCA
6622333 TATTTTCCA
1 TATTTTCCA
6622342 T
1 T
6622343 TAGGAAATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.21, C:0.21, G:0.00, T:0.57
Consensus pattern (9 bp):
TATTTTCCA
Found at i:6622522 original size:109 final size:109
Alignment explanation
Indices: 6622331--6622546 Score: 387
Period size: 109 Copynumber: 2.0 Consensus size: 109
6622321 CCATATTTTC
* * *
6622331 CATATTTTCCATTAGGAAATTATCTTTTAAGTATCGATAAATAGTACTTAAAGTTTCTTTCAAGT
1 CATATTCTCCATTAGAAAATTATCTTTTAAGTACCGATAAATAGTACTTAAAGTTTCTTTCAAGT
6622396 CTTTAATTTTAGCCTTCAACTCTTGTACCTATTTCTTATGCTTT
66 CTTTAATTTTAGCCTTCAACTCTTGTACCTATTTCTTATGCTTT
*
6622440 CATATTCTCCATTAGAAAATTATCTTTTAAGTACCGATAAATAGTGCTTAAAGTTTCTTTCAAGT
1 CATATTCTCCATTAGAAAATTATCTTTTAAGTACCGATAAATAGTACTTAAAGTTTCTTTCAAGT
*
6622505 CTTTAATTTTAGCCTTCAACTCTTGTACCTATTTTTTATGCT
66 CTTTAATTTTAGCCTTCAACTCTTGTACCTATTTCTTATGCT
6622547 GATCCAATTC
Statistics
Matches: 102, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
109 102 1.00
ACGTcount: A:0.28, C:0.17, G:0.09, T:0.46
Consensus pattern (109 bp):
CATATTCTCCATTAGAAAATTATCTTTTAAGTACCGATAAATAGTACTTAAAGTTTCTTTCAAGT
CTTTAATTTTAGCCTTCAACTCTTGTACCTATTTCTTATGCTTT
Found at i:6625164 original size:22 final size:22
Alignment explanation
Indices: 6625137--6625178 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
6625127 ATTTTTTGTC
6625137 AAAAATGCCTTCAATAATCCCA
1 AAAAATGCCTTCAATAATCCCA
*
6625159 AAAAATGCCTTGAATAATCC
1 AAAAATGCCTTCAATAATCC
6625179 TCTTCAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.45, C:0.24, G:0.07, T:0.24
Consensus pattern (22 bp):
AAAAATGCCTTCAATAATCCCA
Found at i:6628488 original size:476 final size:476
Alignment explanation
Indices: 6627588--6628543 Score: 1545
Period size: 476 Copynumber: 2.0 Consensus size: 476
6627578 ATATAAAGCA
**
6627588 ATCATTGAGCAACAACAGCAAAAACTTAATGACCAAGAGTAATGCCTGAATGAACAACAGTAACG
1 ATCATTGAGCAACAACAGCAAAAACTTAATGACCAAGAGTAATGCCTGAATGAACAACAACAACG
*
6627653 ACTCACAGCTTTAGAGGTGATATTGGCAGCAATGCAGCCTAGCATACCTGTAGGCTAGTCGGATA
66 ACTCACAGCTTTAGAGGTGATATTGGCAGCAATGCAGCCTAGCATACCTGTAGGCCAGTCGGATA
* * * * * * *
6627718 TCATCATCCAGTTAGGATAAGCTTTCGTTGCAAGTCAAGTAGGAAACCCAACCTCTGATACCAGC
131 GCATCATCCAGCTAGAACAAGCTTTCGTTGCAAGTCAAGCAAGAAACCCAACCTCCGATACCAGC
* *
6627783 CATGAAGTATGATTTTGTTTATTCACTTAATATTTATTTGTTTATTATATTTATTGATTTGGTTT
196 CATGAAGTATGATTTTATTTATTCACTTAATATTTATTTGTTTATTATATTTATTGATTTGATTT
6627848 TAATACTTATATTTAATTATATATTGTAACAAGATATTGAGACTCAAAGATGACCCTTACTTAGG
261 TAATACTTATATTTAATTATATATTGTAACAAGATATTGAGACTCAAAGATGACCCTTACTTAGG
*
6627913 TTGCCATTGATGTGTTATCTAATTATTCATTTGATCATTTATCCAGAGGAAATTATATTACCGTT
326 CTGCCATTGATGTGTTATCTAATTATTCATTTGATCATTTATCCAGAGGAAATTATATTACCGTT
* * *
6627978 AAGTTCGATGATAGGTTATTTAATCATCCATCAATTTCTTACATTAGTGTGGATGAGGTTAAAGA
391 AAGTCCGAGGATAGGTTATTTAATCATCCATCAATTTCTTACATTAGTGGGGATGAGGTTAAAGA
*
6628043 ATTTTGTAACCTGGATGAAAT
456 ATTTTGTAACCTAGATGAAAT
* * *
6628064 ATCATTGAGCAACAATAGCAAAAACTTAATGACCAAGAGTAATGCCTGAATGAGCAATAACAACG
1 ATCATTGAGCAACAACAGCAAAAACTTAATGACCAAGAGTAATGCCTGAATGAACAACAACAACG
* * *
6628129 ACTCATAGCTTTGGAGGTGATGTTGGCAGCAATGCAGCCTAGCATACCTGTAGGCCAGTCGGATA
66 ACTCACAGCTTTAGAGGTGATATTGGCAGCAATGCAGCCTAGCATACCTGTAGGCCAGTCGGATA
* * *
6628194 GCATCATCTAGCTAGAACAAGCTTTTGTTGCAAGTCAAGCAAGAAACTCAACCTCCGATACCAGC
131 GCATCATCCAGCTAGAACAAGCTTTCGTTGCAAGTCAAGCAAGAAACCCAACCTCCGATACCAGC
6628259 CATGAAGTATGATTTTATTTATTCACTTAATATTTATTTGTTTATTATATTTATTGATTTGATTT
196 CATGAAGTATGATTTTATTTATTCACTTAATATTTATTTGTTTATTATATTTATTGATTTGATTT
* * *
6628324 TAATACTTATATTTCA-TATATATTGTAACAAGATATTGAGACTCATAGTATGACCCTTGCTTAG
261 TAATACTTATATTTAATTATATATTGTAACAAGATATTGAGACTCAAAG-ATGACCCTTACTTAG
* **
6628388 GCTGCCATTGATGTGTTATCTAATTATTCATTTGATCATTTATCCAGAGGAAATTGTATTATTGT
325 GCTGCCATTGATGTGTTATCTAATTATTCATTTGATCATTTATCCAGAGGAAATTATATTACCGT
* * * * ** *
6628453 TGAGTCCGAGGATATGTTATTTGATCATTCATCAATTTCTTATGTTGGTGGGGATGAGGTTAAAG
390 TAAGTCCGAGGATAGGTTATTTAATCATCCATCAATTTCTTACATTAGTGGGGATGAGGTTAAAG
6628518 AATTTTGTAACCTAGATGAAAT
455 AATTTTGTAACCTAGATGAAAT
6628540 ATCA
1 ATCA
6628544 ATTGTTGATA
Statistics
Matches: 440, Mismatches: 39, Indels: 2
0.91 0.08 0.00
Matches are distributed among these distances:
475 31 0.07
476 409 0.93
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.35
Consensus pattern (476 bp):
ATCATTGAGCAACAACAGCAAAAACTTAATGACCAAGAGTAATGCCTGAATGAACAACAACAACG
ACTCACAGCTTTAGAGGTGATATTGGCAGCAATGCAGCCTAGCATACCTGTAGGCCAGTCGGATA
GCATCATCCAGCTAGAACAAGCTTTCGTTGCAAGTCAAGCAAGAAACCCAACCTCCGATACCAGC
CATGAAGTATGATTTTATTTATTCACTTAATATTTATTTGTTTATTATATTTATTGATTTGATTT
TAATACTTATATTTAATTATATATTGTAACAAGATATTGAGACTCAAAGATGACCCTTACTTAGG
CTGCCATTGATGTGTTATCTAATTATTCATTTGATCATTTATCCAGAGGAAATTATATTACCGTT
AAGTCCGAGGATAGGTTATTTAATCATCCATCAATTTCTTACATTAGTGGGGATGAGGTTAAAGA
ATTTTGTAACCTAGATGAAAT
Found at i:6630464 original size:64 final size:63
Alignment explanation
Indices: 6630356--6630518 Score: 181
Period size: 64 Copynumber: 2.6 Consensus size: 63
6630346 TTTTGATAAA
* * *
6630356 AAAAAATACCTTTAATAAT-CCATTCTAAATTTTTT-TAGAGGATTATTGAAGGCATTTATGGT
1 AAAAAACACCTTCAATAATCCCTTTC-AAATTTTTTGTAGAGGATTATTGAAGGCATTTATGGT
* ** * *
6630418 AAAAAACCACCTTCAATAATCCCTTTCAAAATTTTTTGTA-TGGATTATTGAAGGTGTTTTTTGT
1 AAAAAA-CACCTTCAATAATCCCTTTC-AAATTTTTTGTAGAGGATTATTGAAGGCATTTATGGT
* *
6630482 CAAAAACACCTTCAATAATCCTTTTC-AATTTTTTGTA
1 AAAAAACACCTTCAATAATCCCTTTCAAATTTTTTGTA
6630519 AGCCAATAGT
Statistics
Matches: 87, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
61 11 0.13
62 6 0.07
63 30 0.34
64 38 0.44
65 2 0.02
ACGTcount: A:0.34, C:0.14, G:0.10, T:0.41
Consensus pattern (63 bp):
AAAAAACACCTTCAATAATCCCTTTCAAATTTTTTGTAGAGGATTATTGAAGGCATTTATGGT
Found at i:6631796 original size:13 final size:13
Alignment explanation
Indices: 6631777--6631826 Score: 55
Period size: 13 Copynumber: 3.8 Consensus size: 13
6631767 TTATACTTAA
6631777 ATATATTAAAATT
1 ATATATTAAAATT
* *
6631790 TTATATTAAAATA
1 ATATATTAAAATT
*
6631803 ATATATAAAAATT
1 ATATATTAAAATT
* *
6631816 AAAAATTAAAA
1 ATATATTAAAA
6631827 ATAGATAAAT
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
13 29 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
ATATATTAAAATT
Found at i:6631801 original size:23 final size:25
Alignment explanation
Indices: 6631767--6631812 Score: 62
Period size: 23 Copynumber: 1.9 Consensus size: 25
6631757 TTATATCTAA
6631767 TTATACTTAAAT-ATAT-TAAAATT
1 TTATACTTAAATAATATATAAAATT
6631790 TTATA-TTAAAATAATATATAAAA
1 TTATACTT-AAATAATATATAAAA
6631813 ATTAAAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 2 0.10
23 9 0.45
24 4 0.20
25 5 0.25
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.43
Consensus pattern (25 bp):
TTATACTTAAATAATATATAAAATT
Found at i:6631823 original size:26 final size:26
Alignment explanation
Indices: 6631776--6631826 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
6631766 ATTATACTTA
* ** *
6631776 AATATATTAAAATTTTATATTAAAAT
1 AATATATAAAAATTAAAAATTAAAAT
6631802 AATATATAAAAATTAAAAATTAAAA
1 AATATATAAAAATTAAAAATTAAAA
6631827 ATAGATAAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (26 bp):
AATATATAAAAATTAAAAATTAAAAT
Found at i:6631829 original size:24 final size:25
Alignment explanation
Indices: 6631775--6631835 Score: 61
Period size: 26 Copynumber: 2.4 Consensus size: 25
6631765 AATTATACTT
* ** *
6631775 AAATATATTAAAATTTTATATTAAA
1 AAATATATAAAAATTAAAAATTAAA
6631800 ATAATATATAAAAATTAAAAATT-AA
1 A-AATATATAAAAATTAAAAATTAAA
*
6631825 AAATAGATAAA
1 AAATATATAAA
6631836 TCAAACCAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
24 9 0.30
25 4 0.13
26 17 0.57
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (25 bp):
AAATATATAAAAATTAAAAATTAAA
Found at i:6635349 original size:39 final size:39
Alignment explanation
Indices: 6635290--6635403 Score: 94
Period size: 42 Copynumber: 2.9 Consensus size: 39
6635280 TTAATATGTC
*
6635290 AATAATAAATAGTAT--T-ATATTATTATTTTAATAACA
1 AATAATAAATAATATAATAATATTATTATTTTAATAACA
* **
6635326 AATAATAACAT-ATATAATAATATTTTTATTATTTTAAAAATT
1 AATAATAA-ATAATATAATAATA---TTATTATTTTAATAACA
**
6635368 AATGTTAAATAATATAATAATATTATT-TTCTTAATA
1 AATAATAAATAATATAATAATATTATTATT-TTAATA
6635404 TGCATATTTT
Statistics
Matches: 62, Mismatches: 7, Indels: 15
0.74 0.08 0.18
Matches are distributed among these distances:
36 11 0.18
37 2 0.03
38 3 0.05
39 13 0.21
41 2 0.03
42 31 0.50
ACGTcount: A:0.49, C:0.03, G:0.02, T:0.46
Consensus pattern (39 bp):
AATAATAAATAATATAATAATATTATTATTTTAATAACA
Found at i:6635623 original size:44 final size:44
Alignment explanation
Indices: 6635575--6635736 Score: 102
Period size: 44 Copynumber: 3.6 Consensus size: 44
6635565 TAATAGTTCA
6635575 AATATTTTAATAATAAATATTCTTATTTTAATATTAATAAAAAT
1 AATATTTTAATAATAAATATTCTTATTTTAATATTAATAAAAAT
* * * *
6635619 AATATCTTAAGAAT-AATAATAC-TATTTTAAATATT-TTAAAATATT
1 AATATTTTAATAATAAAT-ATTCTTATTTT-AATATTAATAAAA-A-T
* * * * *
6635664 AATA--TAAATAATTAAAGATTATT-TTATTTTATTTTTATATTAACAT
1 AATATTTTAATAA-T-AA-A-TATTCTTATTTTAATATTA-ATAAAAAT
* *
6635710 AATATTTTAATATTAAATATTATTATT
1 AATATTTTAATAATAAATATTCTTATT
6635737 AAAATATAAA
Statistics
Matches: 89, Mismatches: 14, Indels: 29
0.67 0.11 0.22
Matches are distributed among these distances:
43 19 0.21
44 27 0.30
45 11 0.12
46 12 0.13
47 11 0.12
48 9 0.10
ACGTcount: A:0.47, C:0.02, G:0.01, T:0.49
Consensus pattern (44 bp):
AATATTTTAATAATAAATATTCTTATTTTAATATTAATAAAAAT
Found at i:6635780 original size:16 final size:16
Alignment explanation
Indices: 6635713--6635790 Score: 52
Period size: 17 Copynumber: 4.6 Consensus size: 16
6635703 TTAACATAAT
*
6635713 ATTTTAATATTAAATA
1 ATTTTAATAATAAATA
*
6635729 TTATTATTAAAATATAAAT-
1 --ATT-TTAATA-ATAAATA
*
6635748 ATTTTGGAAT-ATTAATA
1 ATTTT--AATAATAAATA
6635765 ATTTTAATAATAAATA
1 ATTTTAATAATAAATA
6635781 ATTTTTAATA
1 A-TTTTAATA
6635791 TTTTAATAAT
Statistics
Matches: 48, Mismatches: 5, Indels: 15
0.71 0.07 0.22
Matches are distributed among these distances:
15 3 0.06
16 14 0.29
17 16 0.33
18 5 0.10
19 5 0.10
20 5 0.10
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (16 bp):
ATTTTAATAATAAATA
Found at i:6635871 original size:14 final size:14
Alignment explanation
Indices: 6635852--6635884 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
6635842 AATTAGATAA
*
6635852 TAAAAAATATTTTT
1 TAAAAAATATCTTT
6635866 TAAAAAATATCTTT
1 TAAAAAATATCTTT
6635880 TAAAA
1 TAAAA
6635885 GGGAATTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (14 bp):
TAAAAAATATCTTT
Found at i:6636435 original size:16 final size:16
Alignment explanation
Indices: 6636414--6636446 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
6636404 CCTAGGAGGT
*
6636414 ATAGCTGGCTGCGTAG
1 ATAGCTGGCTACGTAG
6636430 ATAGCTGGCTACGTAG
1 ATAGCTGGCTACGTAG
6636446 A
1 A
6636447 GGCTCTCAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.24, C:0.18, G:0.33, T:0.24
Consensus pattern (16 bp):
ATAGCTGGCTACGTAG
Found at i:6640014 original size:25 final size:25
Alignment explanation
Indices: 6639986--6640037 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
6639976 AATATATGAG
*
6639986 TTTGATTTTTGCTTATCTTCTGTTC
1 TTTGATTTTTGCTTATATTCTGTTC
6640011 TTTGATTTTTGCTTATATTCTGTTC
1 TTTGATTTTTGCTTATATTCTGTTC
6640036 TT
1 TT
6640038 ACATCGCCAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.10, C:0.13, G:0.12, T:0.65
Consensus pattern (25 bp):
TTTGATTTTTGCTTATATTCTGTTC
Found at i:6646000 original size:20 final size:21
Alignment explanation
Indices: 6645963--6646002 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
6645953 TTAATGAGCT
*
6645963 TTATATTTAAATATATTTTTA
1 TTATATTTAAATAAATTTTTA
*
6645984 TTAT-TTTAATTAAATTTTT
1 TTATATTTAAATAAATTTTT
6646003 TTTTTGAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (21 bp):
TTATATTTAAATAAATTTTTA
Found at i:6646452 original size:15 final size:15
Alignment explanation
Indices: 6646395--6646449 Score: 60
Period size: 15 Copynumber: 3.7 Consensus size: 15
6646385 GTTAATATTA
*
6646395 ATTTGATATAATAACT
1 ATTT-ATATAATAAAT
*
6646411 -TTTATATTTATAAAT
1 ATTTATA-TAATAAAT
6646426 ATTTATATAATAAAT
1 ATTTATATAATAAAT
6646441 A-TTATATAA
1 ATTTATATAA
6646450 ATACATAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
14 11 0.32
15 17 0.50
16 6 0.18
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (15 bp):
ATTTATATAATAAAT
Found at i:6647464 original size:80 final size:80
Alignment explanation
Indices: 6647336--6647495 Score: 268
Period size: 80 Copynumber: 2.0 Consensus size: 80
6647326 GGATAAATTT
* *
6647336 TGTAAATTTTAATGTGTTTTATTTTTTTTATTGTTAATTATTATTTATTATTATAAATTTATTAT
1 TGTAAATTTTAATGTGTTTTATTTTTTTCATTGTTAATTATTACTTATTATTATAAATTTATTAT
6647401 CATATATTATTTTTA
66 CATATATTATTTTTA
*
6647416 TGTAAATTTTAA-GATGTTTTATTTTTTTCATTGTTAATTATTACTTATTATTATAAATTTGTTA
1 TGTAAATTTTAATG-TGTTTTATTTTTTTCATTGTTAATTATTACTTATTATTATAAATTTATTA
*
6647480 TGATATATTATTTTTA
65 TCATATATTATTTTTA
6647496 CATTATTGTG
Statistics
Matches: 75, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
79 1 0.01
80 74 0.99
ACGTcount: A:0.30, C:0.02, G:0.06, T:0.62
Consensus pattern (80 bp):
TGTAAATTTTAATGTGTTTTATTTTTTTCATTGTTAATTATTACTTATTATTATAAATTTATTAT
CATATATTATTTTTA
Found at i:6651746 original size:18 final size:18
Alignment explanation
Indices: 6651719--6651760 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
6651709 ATATAAAATA
*
6651719 TAAAATATAT-TTTTTAC
1 TAAAATATATAATTTTAC
6651736 TAAATATATATAATTTTAC
1 TAAA-ATATATAATTTTAC
6651755 TAAAAT
1 TAAAAT
6651761 TTAAAGTTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 4 0.18
18 8 0.36
19 10 0.45
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (18 bp):
TAAAATATATAATTTTAC
Found at i:6654114 original size:16 final size:16
Alignment explanation
Indices: 6654093--6654125 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
6654083 GGTTAGTCTG
6654093 AAACTCTGCAATGTCC
1 AAACTCTGCAATGTCC
*
6654109 AAACTCTGCGATGTCC
1 AAACTCTGCAATGTCC
6654125 A
1 A
6654126 TGTTTATGGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.30, C:0.30, G:0.15, T:0.24
Consensus pattern (16 bp):
AAACTCTGCAATGTCC
Found at i:6657876 original size:57 final size:56
Alignment explanation
Indices: 6657735--6657892 Score: 210
Period size: 58 Copynumber: 2.8 Consensus size: 56
6657725 AGAAAATATT
* * *
6657735 TTTTAAAAAATATTTTTGGGAAAAAATTGAAAGTATCAATTTTTCTTAAAAATAAG
1 TTTTAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTCAAAAATAAG
* * * *
6657791 TTTTCAAAAATGAATTTTTGAGGAAAAGTTAAAAGTATCAATTTTTCTCAAAATTAAAG
1 TTTTAAAAAAT--ATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTCAAAAAT-AAG
6657850 TTTCTAAAAAATA-TTTTGAGAAAAAGTTGAAAGTATCAATTTT
1 TTT-TAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTT
6657893 CCTTGCACAA
Statistics
Matches: 88, Mismatches: 10, Indels: 7
0.84 0.10 0.07
Matches are distributed among these distances:
56 10 0.11
57 28 0.32
58 37 0.42
59 6 0.07
60 7 0.08
ACGTcount: A:0.45, C:0.05, G:0.11, T:0.39
Consensus pattern (56 bp):
TTTTAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTCAAAAATAAG
Found at i:6664499 original size:19 final size:18
Alignment explanation
Indices: 6664472--6664510 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
6664462 AAATATAAAA
*
6664472 TATATTTTTACTAAATATT
1 TATAATTTTACTAAA-ATT
6664491 TATAATTTTACTAAAATT
1 TATAATTTTACTAAAATT
6664509 TA
1 TA
6664511 AAGTTTGTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (18 bp):
TATAATTTTACTAAAATT
Found at i:6671223 original size:8 final size:8
Alignment explanation
Indices: 6671201--6671248 Score: 51
Period size: 8 Copynumber: 5.8 Consensus size: 8
6671191 TTTATTTAAA
*
6671201 TTATTTAT
1 TTATATAT
6671209 TTATATACAT
1 TTATAT--AT
*
6671219 TTATATAA
1 TTATATAT
6671227 TTATATAT
1 TTATATAT
*
6671235 TTAAATAT
1 TTATATAT
6671243 TTATAT
1 TTATAT
6671249 TTAAAAAATA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
8 25 0.76
10 8 0.24
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (8 bp):
TTATATAT
Found at i:6671236 original size:16 final size:16
Alignment explanation
Indices: 6671212--6671266 Score: 53
Period size: 16 Copynumber: 3.6 Consensus size: 16
6671202 TATTTATTTA
* *
6671212 TATACATTTATATAAT
1 TATATATTTAAATAAT
6671228 TATATATTTAAAT-AT
1 TATATATTTAAATAAT
*
6671243 T-TATATTTAAAAAAT
1 TATATATTTAAATAAT
*
6671258 AATAT-TTTA
1 TATATATTTA
6671267 TATTTTAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
14 10 0.30
15 9 0.27
16 14 0.42
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (16 bp):
TATATATTTAAATAAT
Found at i:6671268 original size:21 final size:22
Alignment explanation
Indices: 6671238--6671289 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 22
6671228 TATATATTTA
6671238 AATA-TTTATA-TTTAAAAAAT
1 AATATTTTATATTTTAAAAAAT
6671258 AATATTTTATATTTTAAAAAAT
1 AATATTTTATATTTTAAAAAAT
6671280 AATATTTTAT
1 AATATTTTAT
6671290 TAATTTTGGG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 4 0.13
21 6 0.20
22 20 0.67
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
AATATTTTATATTTTAAAAAAT
Found at i:6673986 original size:59 final size:58
Alignment explanation
Indices: 6673830--6674009 Score: 193
Period size: 59 Copynumber: 3.1 Consensus size: 58
6673820 TTTATTATAA
* ** **
6673830 ATTTGTTGAAATTTGTTTGGGTTTTGGTTACTAATGCGTTGAGTTTTTGTTAATTATT-T
1 ATTTGTTGAAATTTGTTTAGGTTTTGGTTA-TAATTTGTTGAGTTTTTGTTGGTT-TTAT
* * *
6673889 ATTTGTTGAAATTTATTTAGCTTTTTGTTATCAATTTGTTGAGTTTTTGTTGGTTTTAT
1 ATTTGTTGAAATTTGTTTAGGTTTTGGTTAT-AATTTGTTGAGTTTTTGTTGGTTTTAT
* * ** *
6673948 ATTTGTTAAAATTTGTTTAGGTTTTGGTTATATTTTTGTTGA-AATTTGTTGGTTATAT
1 ATTTGTTGAAATTTGTTTAGGTTTTGGTTATA-ATTTGTTGAGTTTTTGTTGGTTTTAT
6674006 ATTT
1 ATTT
6674010 TTGTTGGATT
Statistics
Matches: 102, Mismatches: 16, Indels: 7
0.82 0.13 0.06
Matches are distributed among these distances:
58 21 0.21
59 81 0.79
ACGTcount: A:0.20, C:0.02, G:0.19, T:0.59
Consensus pattern (58 bp):
ATTTGTTGAAATTTGTTTAGGTTTTGGTTATAATTTGTTGAGTTTTTGTTGGTTTTAT
Found at i:6674361 original size:37 final size:37
Alignment explanation
Indices: 6674318--6674415 Score: 101
Period size: 37 Copynumber: 2.6 Consensus size: 37
6674308 GTTTGAGGTT
6674318 ATAATTTATATATTACTAATAGTTAT-CTTATTTTGAA
1 ATAATTTATATATTA-TAATAGTTATACTTATTTTGAA
* * * * * *
6674355 GTAATTTACATATTATTAAGATTTATATTTGTTTTGAA
1 ATAATTTATATATTA-TAATAGTTATACTTATTTTGAA
6674393 ATAATTTTATATATT-TAATAGTT
1 ATAA-TTTATATATTATAATAGTT
6674416 TAGTGAAACT
Statistics
Matches: 48, Mismatches: 11, Indels: 4
0.76 0.17 0.06
Matches are distributed among these distances:
37 27 0.56
38 12 0.25
39 9 0.19
ACGTcount: A:0.37, C:0.03, G:0.07, T:0.53
Consensus pattern (37 bp):
ATAATTTATATATTATAATAGTTATACTTATTTTGAA
Found at i:6679134 original size:5 final size:6
Alignment explanation
Indices: 6679116--6679162 Score: 58
Period size: 6 Copynumber: 7.3 Consensus size: 6
6679106 TATAGGTTGA
*
6679116 TTGTTT TTGTTT TTGTTTT TTGTTT TCTATTT TTGTTT TTAGTTT TT
1 TTGTTT TTGTTT TTG-TTT TTGTTT T-TGTTT TTGTTT TT-GTTT TT
6679163 TTAAAAATTG
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
6 19 0.53
7 17 0.47
ACGTcount: A:0.04, C:0.02, G:0.13, T:0.81
Consensus pattern (6 bp):
TTGTTT
Found at i:6679137 original size:13 final size:13
Alignment explanation
Indices: 6679119--6679163 Score: 56
Period size: 13 Copynumber: 3.4 Consensus size: 13
6679109 AGGTTGATTG
6679119 TTTTTGTTTTTGT
1 TTTTTGTTTTTGT
*
6679132 TTTTTGTTTTCT-A
1 TTTTTGTTTT-TGT
6679145 TTTTTGTTTTTAGT
1 TTTTTGTTTTT-GT
6679159 TTTTT
1 TTTTT
6679164 TAAAAATTGA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
12 1 0.04
13 20 0.74
14 6 0.22
ACGTcount: A:0.04, C:0.02, G:0.11, T:0.82
Consensus pattern (13 bp):
TTTTTGTTTTTGT
Found at i:6679366 original size:16 final size:16
Alignment explanation
Indices: 6679345--6679399 Score: 56
Period size: 16 Copynumber: 3.2 Consensus size: 16
6679335 GTGATGATAC
6679345 AAATAATATATTAATA
1 AAATAATATATTAATA
*
6679361 AAATAATATTTTTATTATA
1 AAATAATA-TATTA--ATA
*
6679380 TAAATATTATATTAATA
1 -AAATAATATATTAATA
6679397 AAA
1 AAA
6679400 ATTTTTATAT
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
16 11 0.34
17 7 0.22
19 7 0.22
20 7 0.22
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
AAATAATATATTAATA
Found at i:6679383 original size:21 final size:21
Alignment explanation
Indices: 6679353--6679519 Score: 64
Period size: 18 Copynumber: 8.5 Consensus size: 21
6679343 ACAAATAATA
6679353 TATTA-ATAAAATAATATTTT
1 TATTATATAAAATAATATTTT
* *
6679373 TATTATAT-AAATATTA-TAT
1 TATTATATAAAATAATATTTT
**
6679392 TA--ATA-AAAATTTTTATATTT
1 TATTATATAAAA-TAATAT-TTT
*
6679412 T-TTATAT-AAATAATA-TTA
1 TATTATATAAAATAATATTTT
*
6679430 TATTA-AT-AAATAATA-TTG
1 TATTATATAAAATAATATTTT
* *
6679448 TATTAT-TAATATAATATATTA
1 TATTATATAAAATAATAT-TTT
* *
6679469 TATTA-ATAATACAATATTATT
1 TATTATATAAAATAATATT-TT
6679490 TATTA-AT---ATAATATTATT
1 TATTATATAAAATAATATT-TT
6679508 TATTAATATAAA
1 TATT-ATATAAA
6679520 GATATTATAT
Statistics
Matches: 114, Mismatches: 13, Indels: 37
0.70 0.08 0.23
Matches are distributed among these distances:
17 6 0.05
18 39 0.34
19 15 0.13
20 21 0.18
21 33 0.29
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.50
Consensus pattern (21 bp):
TATTATATAAAATAATATTTT
Found at i:6679387 original size:17 final size:16
Alignment explanation
Indices: 6679365--6679407 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
6679355 TTAATAAAAT
6679365 AATATTTTTATTATATA
1 AATATTTTTATTA-ATA
*
6679382 AATA-TTATATTAATA
1 AATATTTTTATTAATA
*
6679397 AAAATTTTTAT
1 AATATTTTTAT
6679408 ATTTTTTATA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
15 6 0.27
16 12 0.55
17 4 0.18
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
AATATTTTTATTAATA
Found at i:6679493 original size:39 final size:37
Alignment explanation
Indices: 6679351--6679563 Score: 190
Period size: 39 Copynumber: 5.6 Consensus size: 37
6679341 ATACAAATAA
6679351 TATATTAATAAAATAATATT-TTTATTATATAA-ATAT
1 TATATTAAT-AAATAATATTATTTATTATATAATATAT
* *
6679387 TATATTAATAAA-AATTTTTATATTTTTTATATAAATAATAT
1 TATATTAATAAATAA--TAT-TATTTATTATAT-AAT-ATAT
*
6679428 TATATTAATAAATAATATTGTATTATTAATATAATATAT
1 TATATTAATAAATAATATTAT-TTATT-ATATAATATAT
*
6679467 TATATTAATAATACAATATTATTTATTAATATAATATTAT
1 TATATTAATAA-ATAATATTATTTATT-ATATAATA-TAT
*
6679507 T-TATTAATATAA-AGATATTATATATTA-ATAATATA-
1 TATATTAATA-AATA-ATATTATTTATTATATAATATAT
*
6679542 T-TATTAACAAATAATATCTATT
1 TATATTAATAAATAATAT-TATT
6679564 AATATATTAT
Statistics
Matches: 151, Mismatches: 10, Indels: 33
0.78 0.05 0.17
Matches are distributed among these distances:
34 8 0.05
35 15 0.10
36 13 0.09
37 7 0.05
38 11 0.07
39 53 0.35
40 22 0.15
41 20 0.13
42 2 0.01
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (37 bp):
TATATTAATAAATAATATTATTTATTATATAATATAT
Found at i:6679524 original size:21 final size:20
Alignment explanation
Indices: 6679353--6679536 Score: 131
Period size: 21 Copynumber: 9.4 Consensus size: 20
6679343 ACAAATAATA
*
6679353 TATTAATAAAATAATATT-TT
1 TATTAATATAA-AATATTATT
6679373 TATT-ATAT-AAATATTA--
1 TATTAATATAAAATATTATT
*
6679389 TATTAATA-AAAATTTTTATAT
1 TATTAATATAAAA-TATTAT-T
* * *
6679410 TTTTTATAT-AAATAATATT
1 TATTAATATAAAATATTATT
*
6679429 ATATTAATA-AATAATATTGTAT
1 -TATTAATATAA-AATATTAT-T
*
6679451 TATTAATATAATATATTA--
1 TATTAATATAAAATATTATT
*
6679469 TATTAATAATACAATATTATT
1 TATTAAT-ATAAAATATTATT
6679490 TATTAATAT--AATATTATT
1 TATTAATATAAAATATTATT
*
6679508 TATTAATATAAAGATATTATA
1 TATTAATATAAA-ATATTATT
6679529 TATTAATA
1 TATTAATA
6679537 ATATATTATT
Statistics
Matches: 130, Mismatches: 15, Indels: 37
0.71 0.08 0.20
Matches are distributed among these distances:
16 4 0.03
17 12 0.09
18 30 0.23
19 13 0.10
20 18 0.14
21 50 0.38
22 3 0.02
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.50
Consensus pattern (20 bp):
TATTAATATAAAATATTATT
Found at i:6679540 original size:11 final size:11
Alignment explanation
Indices: 6679526--6679613 Score: 51
Period size: 11 Copynumber: 8.1 Consensus size: 11
6679516 TAAAGATATT
6679526 ATATATTAATA
1 ATATATTAATA
*
6679537 ATATATTATTA
1 ATATATTAATA
* *
6679548 ACA-AATAAT-
1 ATATATTAATA
*
6679557 ATCTATTAAT-
1 ATATATTAATA
6679567 ATATTATTTATATA
1 ATA-TA-TTA-ATA
*
6679581 ATAT-TTATTA
1 ATATATTAATA
6679591 ATATATTAAT-
1 ATATATTAATA
*
6679601 GTATTATTAATA
1 ATA-TATTAATA
6679613 A
1 A
6679614 ATAATATGTT
Statistics
Matches: 57, Mismatches: 12, Indels: 15
0.68 0.14 0.18
Matches are distributed among these distances:
9 1 0.02
10 19 0.33
11 28 0.49
12 3 0.05
13 3 0.05
14 3 0.05
ACGTcount: A:0.48, C:0.02, G:0.01, T:0.49
Consensus pattern (11 bp):
ATATATTAATA
Found at i:6679542 original size:18 final size:18
Alignment explanation
Indices: 6679428--6679663 Score: 85
Period size: 18 Copynumber: 12.6 Consensus size: 18
6679418 TAAATAATAT
*
6679428 TATATTAATAAATAATATTG
1 TATATTAAT-AAT-ATATTA
6679448 TATTATTAATATAATATATTA
1 TA-TATT-A-ATAATATATTA
*
6679469 TATTAATAATACA-ATATTA
1 TA-TATTAATA-ATATATTA
*
6679488 TTTATTAAT-ATAATATTA
1 TATATTAATAAT-ATATTA
* *
6679506 TTTATTAATATAAAGATATTA
1 TATATT-A-AT-AATATATTA
6679527 TATATTAATAATATATTA
1 TATATTAATAATATATTA
**
6679545 T-TAACAAATAATATCTATTAA
1 TAT-ATTAATAATA--TATT-A
* *
6679566 TATATT-AT-TTATATAA
1 TATATTAATAATATATTA
*
6679582 TAT-TTATTAATATATTAA
1 TATATTAATAATATATT-A
* * * *
6679600 TGTATTATTAATAAATAA
1 TATATTAATAATATATTA
* * *
6679618 TATGTTATTAA-ATATCA
1 TATATTAATAATATATTA
*
6679635 TTATCTTAAT-AT-TATTA
1 -TATATTAATAATATATTA
6679652 TATTATTAATAA
1 TA-TATTAATAA
6679664 CAAATGGAGT
Statistics
Matches: 166, Mismatches: 27, Indels: 48
0.69 0.11 0.20
Matches are distributed among these distances:
15 2 0.01
16 8 0.05
17 24 0.14
18 56 0.34
19 26 0.16
20 13 0.08
21 29 0.17
22 6 0.04
23 2 0.01
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (18 bp):
TATATTAATAATATATTA
Found at i:6679645 original size:62 final size:61
Alignment explanation
Indices: 6679521--6679662 Score: 166
Period size: 62 Copynumber: 2.3 Consensus size: 61
6679511 TAATATAAAG
* *
6679521 ATATTA-TATATTAATAATATATTATTAACAAATAATATCTATTAATATATTATTTATATA
1 ATATTATTATATTATTAATATATTATTAACAAATAATATCTATTAATATATCATTTATATA
* * * *
6679581 ATATTTATTA-ATATATTAATGTATTATTAATAAATAATATGTTATTAA-ATATCA-TTATCTTA
1 ATA-TTATTATAT-TATTAATATATTATTAACAAATAATAT-CTATTAATATATCATTTAT-ATA
6679643 ATATTATTATATTATTAATA
1 ATATTATTATATTATTAATA
6679663 ACAAATGGAG
Statistics
Matches: 69, Mismatches: 7, Indels: 11
0.79 0.08 0.13
Matches are distributed among these distances:
60 3 0.04
61 22 0.32
62 38 0.55
63 6 0.09
ACGTcount: A:0.46, C:0.03, G:0.01, T:0.50
Consensus pattern (61 bp):
ATATTATTATATTATTAATATATTATTAACAAATAATATCTATTAATATATCATTTATATA
Found at i:6681951 original size:17 final size:16
Alignment explanation
Indices: 6681925--6681972 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
6681915 TAATTGTCTA
*
6681925 TTTATTTATTTGTTTG
1 TTTATTTATTTATTTG
6681941 TTTATTTTATTTATTTG
1 TTTA-TTTATTTATTTG
** *
6681958 ACTATTTATGTATTT
1 TTTATTTATTTATTT
6681973 ATTTGTAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
16 14 0.52
17 13 0.48
ACGTcount: A:0.19, C:0.02, G:0.08, T:0.71
Consensus pattern (16 bp):
TTTATTTATTTATTTG
Found at i:6683699 original size:29 final size:29
Alignment explanation
Indices: 6683666--6683765 Score: 83
Period size: 29 Copynumber: 3.3 Consensus size: 29
6683656 CATTCATCAT
*
6683666 TCATGCATCATTATGAGGCAAACATTAAC
1 TCATGCATCATTATGAGGTAAACATTAAC
* * **** * *
6683695 TCATGTATCTATTCATGTAGTTATTTGTTCAT
1 TCATGCATC-ATT-ATG-AGGTAAACATTAAC
*
6683727 TCATGCATTATTATGAGGTAAACATTAAC
1 TCATGCATCATTATGAGGTAAACATTAAC
6683756 TCATGCATCA
1 TCATGCATCA
6683766 ATTCATATAG
Statistics
Matches: 49, Mismatches: 19, Indels: 6
0.66 0.26 0.08
Matches are distributed among these distances:
29 24 0.49
30 6 0.12
31 6 0.12
32 13 0.27
ACGTcount: A:0.32, C:0.17, G:0.13, T:0.38
Consensus pattern (29 bp):
TCATGCATCATTATGAGGTAAACATTAAC
Found at i:6683740 original size:61 final size:60
Alignment explanation
Indices: 6683662--6683800 Score: 197
Period size: 61 Copynumber: 2.3 Consensus size: 60
6683652 CATGCATTCA
* * * *
6683662 TCATTCATGCATCATTATGAGGCAAACATTAACTCATGTATCTATTCATGTAGTTATTTG
1 TCATTCATGCATCATTATGAGGCAAACATTAACTCATGCATCAATTCATATAGTCATTTG
* *
6683722 TTCATTCATGCATTATTATGAGGTAAACATTAACTCATGCATCAATTCATATAGTCATTTG
1 -TCATTCATGCATCATTATGAGGCAAACATTAACTCATGCATCAATTCATATAGTCATTTG
*
6683783 TCAATCCATGCATCATTA
1 TC-ATTCATGCATCATTA
6683801 AATTGTTATG
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
60 2 0.03
61 67 0.97
ACGTcount: A:0.32, C:0.18, G:0.12, T:0.39
Consensus pattern (60 bp):
TCATTCATGCATCATTATGAGGCAAACATTAACTCATGCATCAATTCATATAGTCATTTG
Found at i:6683858 original size:13 final size:13
Alignment explanation
Indices: 6683840--6683883 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
6683830 GTTCATGCAT
6683840 CATTCAATTATTG
1 CATTCAATTATTG
6683853 CATTCAA-TATGTG
1 CATTCAATTAT-TG
*
6683866 CATTCATTTATT-
1 CATTCAATTATTG
6683878 CATTCA
1 CATTCA
6683884 TGCATATATA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
12 9 0.32
13 16 0.57
14 3 0.11
ACGTcount: A:0.30, C:0.18, G:0.07, T:0.45
Consensus pattern (13 bp):
CATTCAATTATTG
Found at i:6685911 original size:55 final size:53
Alignment explanation
Indices: 6685835--6685942 Score: 162
Period size: 55 Copynumber: 2.0 Consensus size: 53
6685825 TAGGTAAAAA
* *
6685835 ATATTTTAATTTTCTCACCTATACTGATGGCTAGCGCCCATTAGTATAGACTT
1 ATATTTTAATTTTCTCACCTATACTGACGGCTAACGCCCATTAGTATAGACTT
* *
6685888 ATATGTTTGAATTTTCTTACCTATACTGACGGCTAACGCCTATTAGTATAGACTT
1 ATAT-TTT-AATTTTCTCACCTATACTGACGGCTAACGCCCATTAGTATAGACTT
6685943 TTAATTTTTC
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
53 4 0.08
54 3 0.06
55 42 0.86
ACGTcount: A:0.27, C:0.19, G:0.14, T:0.40
Consensus pattern (53 bp):
ATATTTTAATTTTCTCACCTATACTGACGGCTAACGCCCATTAGTATAGACTT
Found at i:6686036 original size:56 final size:57
Alignment explanation
Indices: 6685941--6686051 Score: 147
Period size: 56 Copynumber: 2.0 Consensus size: 57
6685931 TAGTATAGAC
*
6685941 TTTTAATTTTTCTTACCTATACCGACGCTTAGCATCTGTCAATATA-AATTAGTATTT
1 TTTTAATTTTTCTTACCTATACCGACGCTTAGCAACTGTCAATATAGAATT-GTATTT
* * *
6685998 TTTTAA-TTTTCTTATCTATACCGACGGTTAG-AGACTGTCAGTATAGAATTGTAT
1 TTTTAATTTTTCTTACCTATACCGACGCTTAGCA-ACTGTCAATATAGAATTGTAT
6686052 GCTTTAATGG
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
55 1 0.02
56 37 0.77
57 10 0.21
ACGTcount: A:0.28, C:0.15, G:0.13, T:0.44
Consensus pattern (57 bp):
TTTTAATTTTTCTTACCTATACCGACGCTTAGCAACTGTCAATATAGAATTGTATTT
Found at i:6686412 original size:15 final size:15
Alignment explanation
Indices: 6686392--6686427 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
6686382 TACCAAGTCT
*
6686392 GATAAAATAAACATC
1 GATAAAATAAACATA
6686407 GATAAAATAAACATA
1 GATAAAATAAACATA
6686422 GATAAA
1 GATAAA
6686428 GAGTTACACC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.64, C:0.08, G:0.08, T:0.19
Consensus pattern (15 bp):
GATAAAATAAACATA
Found at i:6689258 original size:21 final size:21
Alignment explanation
Indices: 6689234--6689299 Score: 55
Period size: 21 Copynumber: 3.1 Consensus size: 21
6689224 ACATTGCAAG
6689234 ATGATTTGCCCTAGTAATAAA
1 ATGATTTGCCCTAGTAATAAA
* * * *
6689255 ATGAAATTACTC-AG-AATGTAAG
1 ATG-ATTTGCCCTAGTAA--TAAA
6689277 ATGATTTGCCCTAGTAATAAA
1 ATGATTTGCCCTAGTAATAAA
6689298 AT
1 AT
6689300 TATATTAATT
Statistics
Matches: 32, Mismatches: 8, Indels: 10
0.64 0.16 0.20
Matches are distributed among these distances:
20 2 0.06
21 15 0.47
22 13 0.41
23 2 0.06
ACGTcount: A:0.41, C:0.12, G:0.15, T:0.32
Consensus pattern (21 bp):
ATGATTTGCCCTAGTAATAAA
Found at i:6696860 original size:26 final size:27
Alignment explanation
Indices: 6696815--6696865 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
6696805 TTGGTTTTAT
*
6696815 ATTTGTTTGGTTAT-GTTTTTGTTGAA
1 ATTTGTTTGGTTATATTTTTTGTTGAA
6696841 ATTTG-TTGGTTATATATTTTTGTTG
1 ATTTGTTTGGTTATAT-TTTTTGTTG
6696866 GGTATTAATG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 8 0.36
26 5 0.23
27 9 0.41
ACGTcount: A:0.16, C:0.00, G:0.22, T:0.63
Consensus pattern (27 bp):
ATTTGTTTGGTTATATTTTTTGTTGAA
Found at i:6702397 original size:42 final size:44
Alignment explanation
Indices: 6702320--6702481 Score: 151
Period size: 42 Copynumber: 3.7 Consensus size: 44
6702310 AAATGATATT
* *
6702320 TTTATT-ATATAA-A-TA-TTATATTAATAAATAAATAATATTGTA
1 TTTATTAATATAATATTATTTATATTAATAACT--ATAATATTATA
*
6702362 -TTATTAATATAATATAATTTATA-TAATAACTATAATATTATA
1 TTTATTAATATAATATTATTTATATTAATAACTATAATATTATA
* *
6702404 TTTATT-ATATAA-ATTATATTATATTAATAATTACAAATATTATTTA
1 TTTATTAATATAATATTAT-TTATATTAATAACTA-TAATATTA--TA
6702450 TTTATTAATATAATATTATTTATTATATAATA
1 TTTATTAATATAATATTATTTA-TAT-TAATA
6702482 TTTATATAAT
Statistics
Matches: 100, Mismatches: 6, Indels: 21
0.79 0.05 0.17
Matches are distributed among these distances:
41 9 0.09
42 27 0.27
43 14 0.14
44 15 0.15
45 5 0.05
46 8 0.08
47 9 0.09
48 8 0.08
49 5 0.05
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.51
Consensus pattern (44 bp):
TTTATTAATATAATATTATTTATATTAATAACTATAATATTATA
Found at i:6702456 original size:55 final size:53
Alignment explanation
Indices: 6702397--6702515 Score: 116
Period size: 56 Copynumber: 2.2 Consensus size: 53
6702387 ATAACTATAA
* * *
6702397 TATTATATTTATTATATAAATTATATTATA-TTA-ATAATTACAAATATTATTTATT
1 TATTATATTTATTAT-T-AATTATATAATATTTATATAA-TAAAAATATCATTTA-T
* *
6702452 TATTAATATAATATTATTTATTATATAATATTTATATAATAAAAATATCATTTAT
1 TATT-ATAT-TTATTATTAATTATATAATATTTATATAATAAAAATATCATTTAT
*
6702507 TAATATATT
1 TATTATATT
6702516 ATTTGTAAAA
Statistics
Matches: 53, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
54 4 0.08
55 18 0.34
56 21 0.40
57 10 0.19
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (53 bp):
TATTATATTTATTATTAATTATATAATATTTATATAATAAAAATATCATTTAT
Found at i:6702466 original size:11 final size:10
Alignment explanation
Indices: 6702322--6702492 Score: 88
Period size: 9 Copynumber: 18.2 Consensus size: 10
6702312 ATGATATTTT
6702322 TATTATATAAA
1 TATTATAT-AA
6702333 TATTATATTAA
1 TATTATA-TAA
6702344 TA--A-ATAA
1 TATTATATAA
* **
6702351 -ATAATATTG
1 TATTATATAA
6702360 TATTAT-TAA
1 TATTATATAA
*
6702369 TATAATATAA
1 TATTATATAA
6702379 T-TTATATAA
1 TATTATATAA
6702388 TA--ACTATAA
1 TATTA-TATAA
*
6702397 TATTATAT-T
1 TATTATATAA
6702406 TATTATATAA
1 TATTATATAA
*
6702416 -ATTATATTA
1 TATTATATAA
6702425 TATTA-AT-A
1 TATTATATAA
*
6702433 -ATTACA-AA
1 TATTATATAA
* *
6702441 TATTATTTATT
1 TATTATATA-A
6702452 TATTAATATAA
1 TATT-ATATAA
6702463 TATTAT-T--
1 TATTATATAA
6702470 TATTATATAA
1 TATTATATAA
6702480 TATTTATATAA
1 TA-TTATATAA
6702491 TA
1 TA
6702493 AAAATATCAT
Statistics
Matches: 123, Mismatches: 15, Indels: 44
0.68 0.08 0.24
Matches are distributed among these distances:
6 1 0.01
7 13 0.11
8 7 0.06
9 47 0.38
10 20 0.16
11 30 0.24
12 5 0.04
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.50
Consensus pattern (10 bp):
TATTATATAA
Found at i:6702493 original size:14 final size:14
Alignment explanation
Indices: 6702452--6702493 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
6702442 ATTATTTATT
* *
6702452 TATTAATATAATAT
1 TATTTATATAATAA
6702466 TATTTAT-TATATAA
1 TATTTATATA-ATAA
6702480 TATTTATATAATAA
1 TATTTATATAATAA
6702494 AAATATCATT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 2 0.08
14 20 0.83
15 2 0.08
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
TATTTATATAATAA
Found at i:6702603 original size:11 final size:11
Alignment explanation
Indices: 6702587--6702790 Score: 69
Period size: 11 Copynumber: 19.3 Consensus size: 11
6702577 AAATGATATT
6702587 ATATATTAATA
1 ATATATTAATA
* *
6702598 ATATATTATTC
1 ATATATTAATA
6702609 ATATCA-TAATA
1 ATAT-ATTAATA
* *
6702620 ATGTATTATTA
1 ATATATTAATA
*
6702631 ATACATT-AT-
1 ATATATTAATA
6702640 A-ATA-TAAT-
1 ATATATTAATA
* *
6702648 ATTTATTAACTT
1 ATATATTAA-TA
* *
6702660 AT-TTTTTATA
1 ATATATTAATA
* * *
6702670 TTAAAATAATA
1 ATATATTAATA
6702681 CAT-TATTAATA
1 -ATATATTAATA
6702692 ATATATTAAT-
1 ATATATTAATA
6702702 ATATTATTAAT-
1 ATA-TATTAATA
6702713 ATAATATT--TA
1 AT-ATATTAATA
* *
6702723 TTATATTATTA
1 ATATATTAATA
* *
6702734 ATGTATTATTA
1 ATATATTAATA
*
6702745 ATATATT-ATT
1 ATATATTAATA
6702755 A-ATA-TAATA
1 ATATATTAATA
*
6702764 TTATATTAAGATA
1 ATATATT-A-ATA
*
6702777 ATATATTATTA
1 ATATATTAATA
6702788 ATA
1 ATA
6702791 AATAATATTT
Statistics
Matches: 141, Mismatches: 32, Indels: 40
0.66 0.15 0.19
Matches are distributed among these distances:
7 1 0.01
8 6 0.04
9 14 0.10
10 18 0.13
11 86 0.61
12 7 0.05
13 9 0.06
ACGTcount: A:0.46, C:0.02, G:0.01, T:0.50
Consensus pattern (11 bp):
ATATATTAATA
Found at i:6702612 original size:22 final size:22
Alignment explanation
Indices: 6702583--6702790 Score: 135
Period size: 22 Copynumber: 9.4 Consensus size: 22
6702573 AGTAAAATGA
*
6702583 TATT-ATATATTAATAATATAT
1 TATTAATATATTATTAATATAT
* * *
6702604 TATTCATATCA-TAATAATGTAT
1 TATTAATAT-ATTATTAATATAT
* *
6702626 TATTAATACATTATAATATAATATT
1 TATTAATATATTATTA-AT-ATA-T
*
6702651 TATTAACT-TATT-TT-TTATAT
1 TATTAA-TATATTATTAATATAT
* *
6702671 TAAAATAATACATTATTAATA-AT
1 T--ATTAATATATTATTAATATAT
*
6702694 ATATTAATATATTATTAATATAA
1 -TATTAATATATTATTAATATAT
* *
6702717 TATTTATTATATTATTAATGTAT
1 TA-TTAATATATTATTAATATAT
*
6702740 TATTAATATATTATTAATATAA
1 TATTAATATATTATTAATATAT
* *
6702762 TATT-ATAT-TAAGATAATATAT
1 TATTAATATATTA-TTAATATAT
6702783 TATTAATA
1 TATTAATA
6702791 AATAATATTT
Statistics
Matches: 146, Mismatches: 24, Indels: 33
0.72 0.12 0.16
Matches are distributed among these distances:
20 4 0.03
21 24 0.16
22 74 0.51
23 27 0.18
24 6 0.04
25 10 0.07
26 1 0.01
ACGTcount: A:0.46, C:0.02, G:0.01, T:0.50
Consensus pattern (22 bp):
TATTAATATATTATTAATATAT
Found at i:6702744 original size:45 final size:46
Alignment explanation
Indices: 6702682--6702771 Score: 148
Period size: 45 Copynumber: 2.0 Consensus size: 46
6702672 AAAATAATAC
6702682 ATTATTAATAATATATTAATATATTATTAATATAATATT-TATTAT
1 ATTATTAATAATATATTAATATATTATTAATATAATATTATATTAT
*
6702727 ATTATTAAT-GTATTATTAATATATTATTAATATAATATTATATTA
1 ATTATTAATAATA-TATTAATATATTATTAATATAATATTATATTA
6702772 AGATAATATA
Statistics
Matches: 42, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
44 2 0.05
45 35 0.83
46 5 0.12
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (46 bp):
ATTATTAATAATATATTAATATATTATTAATATAATATTATATTAT
Found at i:6704026 original size:1 final size:1
Alignment explanation
Indices: 6704022--6704083 Score: 52
Period size: 1 Copynumber: 62.0 Consensus size: 1
6704012 GAACTCAAGC
* * ** * * * *
6704022 AAAAAAAGAAAAAAGAAAAAAAAGGAAAGAAAAAAAAGAGAAAAAAAAAAAGAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
6704084 GGCATGTTTT
Statistics
Matches: 47, Mismatches: 14, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 47 1.00
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (1 bp):
A
Found at i:6704042 original size:14 final size:13
Alignment explanation
Indices: 6704022--6704083 Score: 72
Period size: 13 Copynumber: 4.8 Consensus size: 13
6704012 GAACTCAAGC
*
6704022 AAAAAAAGAAAA-
1 AAAAAAAAAAAAG
* *
6704034 AAGAAAAAAAAGG
1 AAAAAAAAAAAAG
*
6704047 AAAGAAAAAAAAG
1 AAAAAAAAAAAAG
6704060 AGAAAAAAAAAAAG
1 A-AAAAAAAAAAAG
6704074 AAAAAAAAAA
1 AAAAAAAAAA
6704084 GGCATGTTTT
Statistics
Matches: 41, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
12 9 0.22
13 20 0.49
14 12 0.29
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAAAAG
Found at i:6704060 original size:23 final size:23
Alignment explanation
Indices: 6704030--6704084 Score: 58
Period size: 25 Copynumber: 2.3 Consensus size: 23
6704020 GCAAAAAAAG
6704030 AAAAAAGAAAAAAAAG-GAAAGAA
1 AAAAAAGAAAAAAAAGAGAAA-AA
* *
6704053 AAAAAAGAGAAAAAAAAAAAGAAAA
1 AAAAAAGA-AAAAAAAGAGA-AAAA
6704078 AAAAAAG
1 AAAAAAG
6704085 GCATGTTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 8 0.30
24 7 0.26
25 10 0.37
26 2 0.07
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (23 bp):
AAAAAAGAAAAAAAAGAGAAAAA
Found at i:6705253 original size:27 final size:27
Alignment explanation
Indices: 6705229--6705307 Score: 86
Period size: 27 Copynumber: 2.9 Consensus size: 27
6705219 TTTGGCATTG
*
6705229 ATTTCATGCATCGCATTCATTGCATGC
1 ATTTCATGCATTGCATTCATTGCATGC
* ** *
6705256 ATTTTATGCATTATATTCATTGCATGT
1 ATTTCATGCATTGCATTCATTGCATGC
* * *
6705283 ATTCCATGTATTGCATTGATTGCAT
1 ATTTCATGCATTGCATTCATTGCAT
6705308 ACTTTTGGCA
Statistics
Matches: 41, Mismatches: 11, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.24, C:0.18, G:0.14, T:0.44
Consensus pattern (27 bp):
ATTTCATGCATTGCATTCATTGCATGC
Found at i:6705254 original size:18 final size:18
Alignment explanation
Indices: 6705223--6705257 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
6705213 AAGACATTTG
* *
6705223 GCATTGATTTCATGCATC
1 GCATTCATTGCATGCATC
6705241 GCATTCATTGCATGCAT
1 GCATTCATTGCATGCAT
6705258 TTTATGCATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.37
Consensus pattern (18 bp):
GCATTCATTGCATGCATC
Found at i:6706203 original size:202 final size:199
Alignment explanation
Indices: 6705972--6706338 Score: 506
Period size: 199 Copynumber: 1.8 Consensus size: 199
6705962 TCTAGGCATA
* * * *
6705972 ATCTATAAGACCTTCGGGTATGTTATTTTAAAAAC-TCTAGGTATCTTTTTCAAATTTTAAAATT
1 ATCTATAAGACCTCCGAGTATGATATTTTAAAAACTTC-AGGTATC-TTTTCAAATTTTAAAATG
* *
6706036 G-TGGTGCCTTTATTTTAAAGGAGCTTTTTTAAAAGTATGATTTGTAAGACCTCCGGGCATAATT
64 GAT-GAGCCTTTATTTTAAAGGAG-TTTTTTAAAAGTATGATTTGTAAGACCT-CGGGCATAATC
*
6706100 ATTAAGA-CTACTGGGCACAAGATAAAAATGATTTGTAAAAGCTCTAGGAATAATCTCAAAATCC
126 ATTAAGACCTA-TGGGCACAAGATAAAAACGATTTGTAAAAGCTCTAGGAATAATCTCAAAATCC
6706164 TCTGGACATG
190 TCTGGACATG
* * *
6706174 ATCTTTAAGACCTCCGAGTATGATATTTTAAAATCTTCAGGTATCTTTTCAAATTTTAAAGTGGA
1 ATCTATAAGACCTCCGAGTATGATATTTTAAAAACTTCAGGTATCTTTTCAAATTTTAAAATGGA
* * * *
6706239 TGAGCCTTTATTTTAAAGGAGTTTTTTCAAAGTTTGATTTGTGAGACCTCTGGCATAATCATTAA
66 TGAGCCTTTATTTTAAAGGAGTTTTTTAAAAGTATGATTTGTAAGACCTCGGGCATAATCATTAA
* * *
6706304 GACCTATGTGCACAAGGTAAAAGCGATTTGTAAAA
131 GACCTATGGGCACAAGATAAAAACGATTTGTAAAA
6706339 CCTTCGAGTA
Statistics
Matches: 145, Mismatches: 17, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
199 41 0.28
200 28 0.19
201 36 0.25
202 38 0.26
203 2 0.01
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.36
Consensus pattern (199 bp):
ATCTATAAGACCTCCGAGTATGATATTTTAAAAACTTCAGGTATCTTTTCAAATTTTAAAATGGA
TGAGCCTTTATTTTAAAGGAGTTTTTTAAAAGTATGATTTGTAAGACCTCGGGCATAATCATTAA
GACCTATGGGCACAAGATAAAAACGATTTGTAAAAGCTCTAGGAATAATCTCAAAATCCTCTGGA
CATG
Found at i:6706741 original size:14 final size:13
Alignment explanation
Indices: 6706711--6706744 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
6706701 TCGTCAAATT
6706711 TTTTATTTTTTAC
1 TTTTATTTTTTAC
6706724 -TTTATGTTTTTAC
1 TTTTAT-TTTTTAC
6706737 TTTTATTT
1 TTTTATTT
6706745 GAGGGTAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
12 5 0.26
13 9 0.47
14 5 0.26
ACGTcount: A:0.15, C:0.06, G:0.03, T:0.76
Consensus pattern (13 bp):
TTTTATTTTTTAC
Found at i:6711186 original size:17 final size:19
Alignment explanation
Indices: 6711148--6711186 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
6711138 AATCTTAATT
*
6711148 AAATTTAAGATTTTATTAA
1 AAATATAAGATTTTATTAA
6711167 AAATATAAG-TTTTATTAA
1 AAATATAAGATTTTATTAA
6711185 AA
1 AA
6711187 TCAATCACAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (19 bp):
AAATATAAGATTTTATTAA
Found at i:6711635 original size:58 final size:57
Alignment explanation
Indices: 6711525--6711641 Score: 139
Period size: 58 Copynumber: 2.0 Consensus size: 57
6711515 AAATAATTGC
* **
6711525 ATATTAAATATGTATGAGAATTAAATATTTAAAATAATTTTTTTATGATTATATTAA
1 ATATTAAATATGTATGAGAATTAAATATTTAAAATAATCTACTTATGATTATATTAA
* * *
6711582 ATATATAATTATGTATTATAATTAAA-AGTTTAAAATAATCTACTTAT-ATTTATATTAA
1 ATAT-TAAATATGTATGAGAATTAAATA-TTTAAAATAATCTACTTATGA-TTATATTAA
6711640 AT
1 AT
6711642 TAAAATAAAT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
57 6 0.12
58 45 0.88
ACGTcount: A:0.46, C:0.02, G:0.05, T:0.47
Consensus pattern (57 bp):
ATATTAAATATGTATGAGAATTAAATATTTAAAATAATCTACTTATGATTATATTAA
Found at i:6711916 original size:17 final size:18
Alignment explanation
Indices: 6711881--6711917 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
6711871 AACTATAATA
6711881 TTTATATTTTTAAATATTT
1 TTTATATTTTT-AATATTT
6711900 TTTATATTTTT-ATATTT
1 TTTATATTTTTAATATTT
6711917 T
1 T
6711918 AATAAAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.39
19 11 0.61
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (18 bp):
TTTATATTTTTAATATTT
Found at i:6718729 original size:17 final size:18
Alignment explanation
Indices: 6718696--6718731 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
6718686 TATATAAAAA
6718696 TTAATTTTTAATTATTTAT
1 TTAATTTTT-ATTATTTAT
6718715 TTAATTTTT-TTATTTAT
1 TTAATTTTTATTATTTAT
6718732 ATATATTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.47
19 9 0.53
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (18 bp):
TTAATTTTTATTATTTAT
Found at i:6718742 original size:8 final size:8
Alignment explanation
Indices: 6718731--6718767 Score: 56
Period size: 8 Copynumber: 4.6 Consensus size: 8
6718721 TTTTTATTTA
6718731 TATATATT
1 TATATATT
*
6718739 TATATAAT
1 TATATATT
6718747 TATATATT
1 TATATATT
*
6718755 TAAATATT
1 TATATATT
6718763 TATAT
1 TATAT
6718768 TTAAAAAATA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (8 bp):
TATATATT
Found at i:6718771 original size:14 final size:16
Alignment explanation
Indices: 6718731--6718785 Score: 62
Period size: 16 Copynumber: 3.6 Consensus size: 16
6718721 TTTTTATTTA
*
6718731 TATATATTTATATAAT
1 TATATATTTAAATAAT
6718747 TATATATTTAAAT-AT
1 TATATATTTAAATAAT
*
6718762 T-TATATTTAAAAAAT
1 TATATATTTAAATAAT
*
6718777 AATAT-TTTA
1 TATATATTTA
6718786 TTAATTTCGG
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
14 10 0.29
15 9 0.26
16 15 0.44
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
TATATATTTAAATAAT
Found at i:6721426 original size:59 final size:59
Alignment explanation
Indices: 6721341--6721488 Score: 208
Period size: 59 Copynumber: 2.5 Consensus size: 59
6721331 TTTATTATAA
* * *
6721341 ATTTGTTGAAATTTGTTTGGGTTTTGGTTACTAATGCGTTGAGTTTTTGTTAATTATT-T
1 ATTTGTTGAAATTTGTTTAGGTTTTGGTTACCAATGCATTGAGTTTTTGTTAATT-TTAT
* ** *
6721400 ATTTGTTGAAATTTATTTAGGTTTTGGTTACCAATTTATTGAGTTTTTGTTAGTTTTAT
1 ATTTGTTGAAATTTGTTTAGGTTTTGGTTACCAATGCATTGAGTTTTTGTTAATTTTAT
*
6721459 ATTTGTTAAAATTTGTTTAGGTTTTGGTTA
1 ATTTGTTGAAATTTGTTTAGGTTTTGGTTA
6721489 TATTTTTGTT
Statistics
Matches: 79, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
58 2 0.03
59 77 0.97
ACGTcount: A:0.21, C:0.03, G:0.20, T:0.57
Consensus pattern (59 bp):
ATTTGTTGAAATTTGTTTAGGTTTTGGTTACCAATGCATTGAGTTTTTGTTAATTTTAT
Found at i:6726741 original size:5 final size:6
Alignment explanation
Indices: 6726723--6726761 Score: 51
Period size: 6 Copynumber: 6.2 Consensus size: 6
6726713 TATAGGTTGA
*
6726723 TTGTTT TTGTTT TTGTTTT TTGTTT TCTATTT TTGTTT T
1 TTGTTT TTGTTT TTG-TTT TTGTTT T-TGTTT TTGTTT T
6726762 CAGTTTTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
6 18 0.62
7 11 0.38
ACGTcount: A:0.03, C:0.03, G:0.13, T:0.82
Consensus pattern (6 bp):
TTGTTT
Found at i:6727049 original size:51 final size:51
Alignment explanation
Indices: 6726951--6727059 Score: 132
Period size: 51 Copynumber: 2.1 Consensus size: 51
6726941 GTGATGATAC
*
6726951 AAATAATATATTAATAAAATAATATTTTTATTATATAAATATTATATTA-AT
1 AAATAATATATTAATAAAATAATATATTTATTATATAAATA-TATATTATAT
* **
6727002 AAATAATATATTAATAAATTTTTTTATATTTATTATATAAATA-ATATTATAT
1 AAATAATATATTAATAAA--ATAATATATTTATTATATAAATATATATTATAT
*
6727054 TAATAA
1 AAATAA
6727060 ATAATATTGT
Statistics
Matches: 50, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
51 24 0.48
52 7 0.14
53 19 0.38
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (51 bp):
AAATAATATATTAATAAAATAATATATTTATTATATAAATATATATTATAT
Found at i:6727075 original size:21 final size:20
Alignment explanation
Indices: 6726959--6727140 Score: 99
Period size: 21 Copynumber: 9.4 Consensus size: 20
6726949 ACAAATAATA
6726959 TATTAATAAAATAATATTT-T
1 TATTAAT-AAATAATATTTAT
*
6726979 TATT-ATATA-AATA-TTA-
1 TATTAATAAATAATATTTAT
6726995 TATTAATAAAT-A-A--TA-
1 TATTAATAAATAATATTTAT
** *
6727010 TATTAATAAATTTTTTTATATT
1 TATTAATAAATAATATT-TA-T
6727032 TATTATATAAATAATA-TTA-
1 TATTA-ATAAATAATATTTAT
6727051 TATTAATAAATAATATTGTAT
1 TATTAATAAATAATATT-TAT
6727072 TATTAATAAA-ATATATTATAT
1 TATTAATAAATA-ATATT-TAT
* *
6727093 TAATAATACAATATTATTTAT
1 TATTAATA-AATAATATTTAT
* *
6727114 TAAT-ATAAA-GATA-TTAT
1 TATTAATAAATAATATTTAT
6727131 ATATTAATAA
1 -TATTAATAA
6727141 TATATTATGT
Statistics
Matches: 130, Mismatches: 13, Indels: 39
0.71 0.07 0.21
Matches are distributed among these distances:
15 13 0.10
16 7 0.05
17 13 0.10
18 17 0.13
19 14 0.11
20 12 0.09
21 34 0.26
22 12 0.09
23 8 0.06
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (20 bp):
TATTAATAAATAATATTTAT
Found at i:6727173 original size:28 final size:27
Alignment explanation
Indices: 6727138--6727206 Score: 86
Period size: 26 Copynumber: 2.5 Consensus size: 27
6727128 TATATATTAA
6727138 TAATATATTATGTAACAATAATATCTAT
1 TAATATATTATGTAA-AATAATATCTAT
* * *
6727166 TAATATATTAT-TTATATAATATTTAT
1 TAATATATTATGTAAAATAATATCTAT
6727192 TAATATATTAATGTA
1 TAATATATT-ATGTA
6727207 TTATTAATAA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
26 19 0.54
27 4 0.11
28 12 0.34
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.49
Consensus pattern (27 bp):
TAATATATTATGTAAAATAATATCTAT
Found at i:6727231 original size:18 final size:18
Alignment explanation
Indices: 6726951--6727266 Score: 126
Period size: 18 Copynumber: 18.1 Consensus size: 18
6726941 GTGATGATAC
*
6726951 AAATAATATATTAAT-A-
1 AAATAATATATTATTAAT
*
6726967 AAATAATATTTTTATTATAT
1 AAATAATA-TATTATTA-AT
6726987 AAAT-AT-TA-TATTAAT
1 AAATAATATATTATTAAT
*
6727002 AAATAATATATTAATAA-
1 AAATAATATATTATTAAT
** **
6727019 ATTTTTTTATATTTATTATAT
1 A-AATAATATA-TTATTA-AT
6727040 AAATAATAT-TATATTAAT
1 AAATAATATAT-TATTAAT
6727058 AAATAATATTGTATTATTAAT
1 AAATAATA---TATTATTAAT
*
6727079 AAAATATATTATATTAATAAT
1 -AAATA-A-TATATTATTAAT
*
6727100 ACAATATTAT-TTATTAAT
1 A-AATAATATATTATTAAT
* *
6727118 ATA-AAGATATTA-TATAT
1 AAATAATATATTATTA-AT
*
6727135 TAATAATATATTATGTAA-
1 AAATAATATATTAT-TAAT
* *
6727153 CAATAATAT-CTATTAAT
1 AAATAATATATTATTAAT
6727170 --AT-AT-TA-T-TT-AT
1 AAATAATATATTATTAAT
6727181 --ATAATAT-TTATTAAT
1 AAATAATATATTATTAAT
* *
6727196 ATATTAATGTATTATTAAT
1 A-AATAATATATTATTAAT
6727215 AAATAATATATTATTAA-
1 AAATAATATATTATTAAT
* *
6727232 ATATCAT-TA-TATTAAT
1 AAATAATATATTATTAAT
* *
6727248 -ATTATTATATTATTAAT
1 AAATAATATATTATTAAT
6727265 AA
1 AA
6727267 CAAATGGAGT
Statistics
Matches: 226, Mismatches: 34, Indels: 78
0.67 0.10 0.23
Matches are distributed among these distances:
11 4 0.02
12 4 0.02
13 4 0.02
14 4 0.02
15 18 0.08
16 27 0.12
17 31 0.14
18 65 0.29
19 26 0.12
20 12 0.05
21 22 0.10
22 6 0.03
23 1 0.00
24 2 0.01
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (18 bp):
AAATAATATATTATTAAT
Found at i:6727247 original size:26 final size:25
Alignment explanation
Indices: 6727129--6727255 Score: 75
Period size: 26 Copynumber: 4.9 Consensus size: 25
6727119 TAAAGATATT
6727129 ATATATTA-A-TAATATATTATGTAA
1 ATATATTATATTAATATATTAT-TAA
* *
6727153 CA-ATAATATCTATTAATATATTATTTAT
1 -ATAT-AT-TATATTAATATATTA-TTAA
* **
6727181 ATAATATT-TATTAATATATTAATGT
1 AT-ATATTATATTAATATATTATTAA
*
6727206 AT-TATTAATAAATAATATATTATTAA
1 ATATATT-AT-ATTAATATATTATTAA
6727232 ATATCATTATATTAATATTATTAT
1 ATAT-ATTATATTAATA-TATTAT
6727256 ATTATTAATA
Statistics
Matches: 80, Mismatches: 9, Indels: 24
0.71 0.08 0.21
Matches are distributed among these distances:
23 4 0.05
24 2 0.03
25 8 0.10
26 34 0.43
27 12 0.15
28 17 0.21
29 3 0.04
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (25 bp):
ATATATTATATTAATATATTATTAA
Found at i:6728878 original size:22 final size:22
Alignment explanation
Indices: 6728833--6728879 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
6728823 GGTTTCGAGG
* * * *
6728833 CCATGTCATATGAAGTGCTTAT
1 CCATGTCATATAAACTACTAAT
6728855 CCATGTCATATAAACTACTAAT
1 CCATGTCATATAAACTACTAAT
6728877 CCA
1 CCA
6728880 ATCAAAACAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (22 bp):
CCATGTCATATAAACTACTAAT
Found at i:6729539 original size:17 final size:17
Alignment explanation
Indices: 6729515--6729580 Score: 62
Period size: 17 Copynumber: 3.8 Consensus size: 17
6729505 ATCATAATTG
* *
6729515 TTTATTTATTTATTTGT
1 TTTATTTATTTGTTTAT
6729532 TTGT-TTTATTTGTTTAT
1 TT-TATTTATTTGTTTAT
**
6729549 TTTATTTATTTGACTACT
1 TTTATTTATTTGTTTA-T
6729567 TATTATTTATTTGT
1 T-TTATTTATTTGT
6729581 AAATTTAAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
16 1 0.03
17 25 0.62
18 3 0.08
19 11 0.28
ACGTcount: A:0.18, C:0.03, G:0.08, T:0.71
Consensus pattern (17 bp):
TTTATTTATTTGTTTAT
Found at i:6729541 original size:13 final size:13
Alignment explanation
Indices: 6729523--6729560 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
6729513 TGTTTATTTA
6729523 TTTATTTGTTTGT
1 TTTATTTGTTTGT
*
6729536 TTTATTTGTTTAT
1 TTTATTTGTTTGT
*
6729549 TTTATTTATTTG
1 TTTATTTGTTTG
6729561 ACTACTTATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.13, C:0.00, G:0.11, T:0.76
Consensus pattern (13 bp):
TTTATTTGTTTGT
Found at i:6730811 original size:33 final size:33
Alignment explanation
Indices: 6730764--6730831 Score: 127
Period size: 33 Copynumber: 2.1 Consensus size: 33
6730754 AAGCCTAAAT
6730764 TAAAATTAAAAATTTTTCTTTGAATGTTTTGTC
1 TAAAATTAAAAATTTTTCTTTGAATGTTTTGTC
*
6730797 TAAAATTAAGAATTTTTCTTTGAATGTTTTGTC
1 TAAAATTAAAAATTTTTCTTTGAATGTTTTGTC
6730830 TA
1 TA
6730832 TTTATAATTG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.32, C:0.06, G:0.10, T:0.51
Consensus pattern (33 bp):
TAAAATTAAAAATTTTTCTTTGAATGTTTTGTC
Found at i:6734037 original size:15 final size:15
Alignment explanation
Indices: 6734017--6734052 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
6734007 TACCAAGTCT
*
6734017 GATAAAATAAACATC
1 GATAAAATAAACATA
6734032 GATAAAATAAACATA
1 GATAAAATAAACATA
6734047 GATAAA
1 GATAAA
6734053 GAGTTACACC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.64, C:0.08, G:0.08, T:0.19
Consensus pattern (15 bp):
GATAAAATAAACATA
Found at i:6736927 original size:21 final size:21
Alignment explanation
Indices: 6736863--6736928 Score: 55
Period size: 21 Copynumber: 3.1 Consensus size: 21
6736853 TTGTAAGATG
*
6736863 ATTTGCCCTAGTAATAAAATGA
1 ATTTGCCCTAGTAATAAAAT-T
* * *
6736885 AATTACTC-AG-AATATAAGATT
1 ATTTGCCCTAGTAATA-AA-ATT
6736906 ATTTGCCCTAGTAATAAAATT
1 ATTTGCCCTAGTAATAAAATT
6736927 AT
1 AT
6736929 ATTTAATTTA
Statistics
Matches: 33, Mismatches: 7, Indels: 9
0.67 0.14 0.18
Matches are distributed among these distances:
20 4 0.12
21 14 0.42
22 11 0.33
23 4 0.12
ACGTcount: A:0.42, C:0.12, G:0.11, T:0.35
Consensus pattern (21 bp):
ATTTGCCCTAGTAATAAAATT
Found at i:6737805 original size:60 final size:62
Alignment explanation
Indices: 6737645--6737806 Score: 163
Period size: 60 Copynumber: 2.6 Consensus size: 62
6737635 TTGAATAGGG
* * * **
6737645 TTATTAAAGGTGTTTCTGACCAGAAATGCCTTGAATAATTTTCTTAGATTTTTTATGAGTGGA
1 TTATTAAAGGTGTTTCTG-CAAAAAATGCTTTGAATAATCCTCTTAGATTTTTTATGAGTGGA
* * *
6737708 TTATTGAAGGCGATTT-TGGCAAAAAATG-TCTGCAATAATCCTCTTA-ATTTTTTAT-A-TGGA
1 TTATTAAAGGTG-TTTCT-GCAAAAAATGCTTTG-AATAATCCTCTTAGATTTTTTATGAGTGGA
*
6737768 TTATTAAAGGTGTTTCTAGCTAAAAATGCTTTGAATAAT
1 TTATTAAAGGTGTTTCT-GCAAAAAATGCTTTGAATAAT
6737807 TTGTGGATTA
Statistics
Matches: 81, Mismatches: 13, Indels: 13
0.76 0.12 0.12
Matches are distributed among these distances:
59 3 0.04
60 30 0.37
61 4 0.05
62 11 0.14
63 29 0.36
64 4 0.05
ACGTcount: A:0.31, C:0.10, G:0.17, T:0.41
Consensus pattern (62 bp):
TTATTAAAGGTGTTTCTGCAAAAAATGCTTTGAATAATCCTCTTAGATTTTTTATGAGTGGA
Found at i:6744487 original size:59 final size:58
Alignment explanation
Indices: 6744417--6744556 Score: 192
Period size: 59 Copynumber: 2.4 Consensus size: 58
6744407 AAATTTGTTA
*
6744417 AAATTTCTTTGGGTTTTGGTTACCAATGCGTTGAGTTTTTGTTAGTTATT-TATTTATT
1 AAATTTATTTGGGTTTTGGTTACCAATGCGTTGAGTTTTTGTTAGTT-TTATATTTATT
** * *
6744475 GAAATTTATTTGGGTTTTGGTTACCAATTTGTTGAGTTTTTGTTGGTTTTATATTTGTT
1 -AAATTTATTTGGGTTTTGGTTACCAATGCGTTGAGTTTTTGTTAGTTTTATATTTATT
*
6744534 AAATTTTGTTTGGGTTTTGGTTA
1 AAA-TTTATTTGGGTTTTGGTTA
6744557 TGTTTTTTGT
Statistics
Matches: 73, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
58 5 0.07
59 68 0.93
ACGTcount: A:0.18, C:0.04, G:0.21, T:0.56
Consensus pattern (58 bp):
AAATTTATTTGGGTTTTGGTTACCAATGCGTTGAGTTTTTGTTAGTTTTATATTTATT
Found at i:6750124 original size:41 final size:41
Alignment explanation
Indices: 6750070--6750223 Score: 127
Period size: 41 Copynumber: 3.6 Consensus size: 41
6750060 TTATTATACA
* *
6750070 AATATTATTTTAATAAATATTATTATATTTATCATATAAAT
1 AATATTATATTAATAAATATTATTATATTTATAATATAAAT
* * * *
6750111 AATATTATATTAATACATA-AATAATATTT-TATTATTAATAT
1 AATATTATATTAATAAATATTATTATATTTATAATA-TAA-AT
6750152 AATATTATATTAATAATACAATATTATT-TATTTATTAATATAAA-
1 AATATTATA-T--TAATA-AATATTATTATATTTA-TAATATAAAT
*
6750196 GATATTATATATTAATAATATATTATTA
1 AATA-T-TATATTAATAA-ATATTATTA
6750224 ATAAAAATAT
Statistics
Matches: 89, Mismatches: 11, Indels: 23
0.72 0.09 0.19
Matches are distributed among these distances:
39 3 0.03
40 11 0.12
41 28 0.31
42 2 0.02
43 13 0.15
44 8 0.09
45 11 0.12
46 9 0.10
47 4 0.04
ACGTcount: A:0.48, C:0.02, G:0.01, T:0.49
Consensus pattern (41 bp):
AATATTATATTAATAAATATTATTATATTTATAATATAAAT
Found at i:6750146 original size:25 final size:22
Alignment explanation
Indices: 6750082--6750183 Score: 97
Period size: 22 Copynumber: 4.8 Consensus size: 22
6750072 TATTATTTTA
* * *
6750082 ATAAATATTATTATATTTATCAT
1 ATAAATAATATTATATTAAT-AC
6750105 ATAAATAATATTATATTAATAC
1 ATAAATAATATTATATTAATAC
* *
6750127 ATAAATAATATTTTATTATTA-
1 ATAAATAATATTATATTAATAC
6750148 AT--ATAATATTATATTAATA-
1 ATAAATAATATTATATTAATAC
*
6750167 ATACAATATTATT-TATT
1 ATA-AATAATATTATATT
6750184 TATTAATATA
Statistics
Matches: 68, Mismatches: 8, Indels: 8
0.81 0.10 0.10
Matches are distributed among these distances:
19 17 0.25
21 6 0.09
22 27 0.40
23 18 0.26
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.49
Consensus pattern (22 bp):
ATAAATAATATTATATTAATAC
Found at i:6750190 original size:22 final size:21
Alignment explanation
Indices: 6750079--6750222 Score: 86
Period size: 22 Copynumber: 6.7 Consensus size: 21
6750069 AAATATTATT
6750079 TTAATAAATATTATTATATTTA
1 TTAATAAATATTATT-TATTTA
* *
6750101 TCATATAAATAATA-TTATATTA
1 TTA-ATAAATATTATTTAT-TTA
* *
6750123 ATACATAAATAATATTT-TATTA
1 TTA-ATAAATATTATTTAT-TTA
6750145 TTAATATAATATTA--TA-TTA
1 TTAATA-AATATTATTTATTTA
*
6750164 ATAATACAATATTATTTATTTA
1 TTAATA-AATATTATTTATTTA
* *
6750186 TTAATATAA-A-GATATTATATA
1 TTAATA-AATATTAT-TTATTTA
6750207 TTAATAATATATTATT
1 TTAATAA-ATATTATT
6750223 AATAAAAATA
Statistics
Matches: 96, Mismatches: 14, Indels: 24
0.72 0.10 0.18
Matches are distributed among these distances:
19 15 0.16
20 4 0.04
21 22 0.23
22 42 0.44
23 13 0.14
ACGTcount: A:0.48, C:0.02, G:0.01, T:0.49
Consensus pattern (21 bp):
TTAATAAATATTATTTATTTA
Found at i:6750283 original size:11 final size:11
Alignment explanation
Indices: 6750143--6750426 Score: 101
Period size: 11 Copynumber: 26.2 Consensus size: 11
6750133 AATATTTTAT
6750143 TATTAATATAA
1 TATTAATATAA
6750154 TATT-ATAT--
1 TATTAATATAA
* *
6750162 TAATAATACAA
1 TATTAATATAA
* *
6750173 TATT-ATTTATT
1 TATTAATATA-A
6750184 TATTAATATAA
1 TATTAATATAA
* *
6750195 -AGATATTAT-A
1 TA-TTAATATAA
6750205 TATTAATA-ATA
1 TATTAATATA-A
6750216 TATT-AT-TAA
1 TATTAATATAA
** *
6750225 TAAAAATATAT
1 TATTAATATAA
* * *
6750236 TTTTTATATCA
1 TATTAATATAA
* *
6750247 TATTAATGTAT
1 TATTAATATAA
* * *
6750258 TATTAAGACAT
1 TATTAATATAA
6750269 TATTAATATAA
1 TATTAATATAA
*
6750280 TATTTAT-TAA
1 TATTAATATAA
* * * *
6750290 CA-TATTTTTA
1 TATTAATATAA
6750300 TATTAATATAA
1 TATTAATATAA
*
6750311 TGCATTATTAATAATA
1 T--ATTAAT-AT-A-A
*
6750327 TATTAATATAT
1 TATTAATATAA
6750338 TATTAATATAA
1 TATTAATATAA
* *
6750349 TATTTATTATAT
1 TA-TTAATATAA
* *
6750361 TATTAATGTAT
1 TATTAATATAA
*
6750372 TATTAATATAT
1 TATTAATATAA
6750383 TATTAATATAA
1 TATTAATATAA
6750394 TATT-ATATTAA
1 TATTAATA-TAA
* *
6750405 GA-TAATATAT
1 TATTAATATAA
6750415 TATTAATA-AA
1 TATTAATATAA
6750425 TA
1 TA
6750427 ATATATTTTT
Statistics
Matches: 195, Mismatches: 55, Indels: 47
0.66 0.19 0.16
Matches are distributed among these distances:
8 3 0.02
9 8 0.04
10 35 0.18
11 118 0.61
12 14 0.07
13 7 0.04
14 7 0.04
15 1 0.01
16 2 0.01
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (11 bp):
TATTAATATAA
Found at i:6750363 original size:45 final size:46
Alignment explanation
Indices: 6750314--6750422 Score: 156
Period size: 45 Copynumber: 2.5 Consensus size: 46
6750304 AATATAATGC
6750314 ATTATTAATA-ATATATTAATATATTATTAATATAATATT-TATTAT
1 ATTATTAATATAT-TATTAATATATTATTAATATAATATTATATTAT
*
6750359 ATTATTAATGTATTATTAATATATTATTAATATAATATTATATTA-
1 ATTATTAATATATTATTAATATATTATTAATATAATATTATATTAT
*
6750404 A-GA-TAATATATTATTAATA
1 ATTATTAATATATTATTAATA
6750423 AATAATATAT
Statistics
Matches: 59, Mismatches: 3, Indels: 6
0.87 0.04 0.09
Matches are distributed among these distances:
43 15 0.25
44 1 0.02
45 36 0.61
46 7 0.12
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (46 bp):
ATTATTAATATATTATTAATATATTATTAATATAATATTATATTAT
Found at i:6750373 original size:69 final size:67
Alignment explanation
Indices: 6750229--6750398 Score: 166
Period size: 69 Copynumber: 2.5 Consensus size: 67
6750219 TATTAATAAA
* * * *
6750229 AATATATTTTTTATATCA-TATTAATGTATTATTAAGACATTATTAATATAATATTTATTAACAT
1 AATATATTATTAATA-CATTATTAATATAATATTAAGACATTATTAATATAATATTTATTAACAT
6750293 ATT
65 ATT
** * * *
6750296 TTTATATTAATATAATGCATTATTAATA-ATATATTAATATATTATTAATATAATATTTATTATA
1 AATATATT-AT-TAATACATTATTAATATA-ATATTAAGACATTATTAATATAATATTTATTA-A
*
6750360 -TTATT
62 CATATT
* *
6750365 AATGTATTATTAATATATTATTAATATAATATTA
1 AATATATTATTAATACATTATTAATATAATATTA
6750399 TATTAAGATA
Statistics
Matches: 82, Mismatches: 15, Indels: 12
0.75 0.14 0.11
Matches are distributed among these distances:
67 26 0.32
68 7 0.09
69 48 0.59
70 1 0.01
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (67 bp):
AATATATTATTAATACATTATTAATATAATATTAAGACATTATTAATATAATATTTATTAACATA
TT
Found at i:6751691 original size:20 final size:20
Alignment explanation
Indices: 6751666--6751714 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
6751656 GCAAAAAAAG
*
6751666 AAAAAAGAGAAAGGAAAGAA
1 AAAAAAGAGAAAGAAAAGAA
* *
6751686 AAAAAAAAGAGAGAAAAGAA
1 AAAAAAGAGAAAGAAAAGAA
6751706 AGAAAAAGA
1 A-AAAAAGA
6751715 AAAAAAGGCA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 18 0.75
21 6 0.25
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (20 bp):
AAAAAAGAGAAAGAAAAGAA
Found at i:6751691 original size:29 final size:30
Alignment explanation
Indices: 6751658--6751720 Score: 85
Period size: 29 Copynumber: 2.1 Consensus size: 30
6751648 GAACTCAAGC
*
6751658 AAAAAAAGA-AAAAAGAGAAAG-GAAAGAAA
1 AAAAAAAGAGAAAAA-AGAAAGAAAAAGAAA
*
6751687 AAAAAAAGAGAGAAAAGAAAGAAAAAGAAA
1 AAAAAAAGAGAAAAAAGAAAGAAAAAGAAA
6751717 AAAA
1 AAAA
6751721 GGCATGTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
29 15 0.50
30 15 0.50
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (30 bp):
AAAAAAAGAGAAAAAAGAAAGAAAAAGAAA
Found at i:6751693 original size:24 final size:24
Alignment explanation
Indices: 6751659--6751721 Score: 90
Period size: 24 Copynumber: 2.5 Consensus size: 24
6751649 AACTCAAGCA
*
6751659 AAAAAAGAAAAAAGAGAAAGGAAAG
1 AAAAAA-AAAAAAGAGAAAAGAAAG
*
6751684 AAAAAAAAAAGAGAGAAAAGAAAG
1 AAAAAAAAAAAAGAGAAAAGAAAG
6751708 AAAAAGAAAAAAAG
1 AAAAA-AAAAAAAG
6751722 GCATGTTTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
24 21 0.62
25 13 0.38
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (24 bp):
AAAAAAAAAAAAGAGAAAAGAAAG
Found at i:6751702 original size:15 final size:14
Alignment explanation
Indices: 6751660--6751721 Score: 54
Period size: 15 Copynumber: 4.0 Consensus size: 14
6751650 ACTCAAGCAA
6751660 AAAAAGAAAAAAGAG
1 AAAAAGAAAAAA-AG
6751675 AAAGGAAAGAAAAAAA-
1 -AA--AAAGAAAAAAAG
6751691 AAAGAGAGAAAAGAAAG
1 AAA-A-AGAAAA-AAAG
6751708 AAAAAGAAAAAAAG
1 AAAAAGAAAAAAAG
6751722 GCATGTTTTA
Statistics
Matches: 40, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
13 1 0.03
14 5 0.12
15 14 0.35
16 6 0.15
17 4 0.10
18 10 0.25
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (14 bp):
AAAAAGAAAAAAAG
Found at i:6751713 original size:19 final size:18
Alignment explanation
Indices: 6751661--6751721 Score: 61
Period size: 19 Copynumber: 3.3 Consensus size: 18
6751651 CTCAAGCAAA
*
6751661 AAAAGAAAAAAGAGAAAGG
1 AAAAGAAAAAAAAGAAA-G
* *
6751680 AAAGAAAAAAAAAAGAGAG
1 AAA-AGAAAAAAAAGAAAG
6751699 AAAAGAAAGAAAAAGAAA-
1 AAAAGAAA-AAAAAGAAAG
6751717 AAAAG
1 AAAAG
6751722 GCATGTTTTA
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
18 9 0.26
19 15 0.43
20 11 0.31
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (18 bp):
AAAAGAAAAAAAAGAAAG
Found at i:6752890 original size:27 final size:28
Alignment explanation
Indices: 6752860--6752917 Score: 66
Period size: 27 Copynumber: 2.1 Consensus size: 28
6752850 AAGACATTTG
*
6752860 GCATTG-ATTTCATGCATCGCATTCATT
1 GCATTGCATTTCATGCATCACATTCATT
* * *
6752887 GCA-TGCATTTTATGCATTATATTCATT
1 GCATTGCATTTCATGCATCACATTCATT
6752914 GCAT
1 GCAT
6752918 GTATTCCATG
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
26 2 0.08
27 23 0.92
ACGTcount: A:0.24, C:0.19, G:0.14, T:0.43
Consensus pattern (28 bp):
GCATTGCATTTCATGCATCACATTCATT
Found at i:6752891 original size:18 final size:18
Alignment explanation
Indices: 6752860--6752894 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
6752850 AAGACATTTG
* *
6752860 GCATTGATTTCATGCATC
1 GCATTCATTGCATGCATC
6752878 GCATTCATTGCATGCAT
1 GCATTCATTGCATGCAT
6752895 TTTATGCATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.37
Consensus pattern (18 bp):
GCATTCATTGCATGCATC
Found at i:6754030 original size:199 final size:201
Alignment explanation
Indices: 6753665--6754030 Score: 469
Period size: 199 Copynumber: 1.8 Consensus size: 201
6753655 AGACCTCTGG
*
6753665 GTATGTTATTTTAAAAACTCTAGGTATCTTTTTCAAATTTTAAAATTGTGGTGCTTTTATTTTAA
1 GTATGATATTTTAAAAACTCTAGGTATCTTTTTCAAATTTTAAAA-TGTGGTGCTTTTATTTTAA
6753730 AAGAGCTTTTTTAAAAGTATGATTTGTAAGACCTCCGAGCATAATCATTAAGACTACTGGGCACA
65 AAGAGCTTTTTTAAAAGTATGATTTGTAAGACCTCCGAGCATAATCATTAAGACTACTGGGCACA
* * *
6753795 AGATAAAAATGATTTGTAAAAGCTCTAGGAATAATCTCAAAATCCTTTGGACATGATCTTTAAGA
130 AGATAAAAACGATTTGTAAAACCTCGAGGAATAATCTCAAAATCCTTTGGACATGATCTTTAAGA
6753860 CCTTCAA
195 CCTTCAA
*
6753867 GTATGATATTTT-AAAACTTTAAGGTATC-TTTTCAAATTTT-AAA-GTGGATGAACTTTTATTT
1 GTATGATATTTTAAAAACTCT-AGGTATCTTTTTCAAATTTTAAAATGTGG-TG--CTTTTATTT
* * * * * * *
6753928 TGAAGGAG-TTTTTTCAAAGTTTGATTTGTGAGACCTCTG-GCATAATCATTAAGACCTA-TGTG
62 TAAAAGAGCTTTTTTAAAAGTATGATTTGTAAGACCTCCGAGCATAATCATTAAGA-CTACTGGG
* * * *
6753990 CACAAGGTAAAAGCGATTTGTAAGACCTTCGA-GTATAATCT
126 CACAAGATAAAAACGATTTGTAAAACC-TCGAGGAATAATCT
6754031 TTAAGTCTTT
Statistics
Matches: 142, Mismatches: 16, Indels: 15
0.82 0.09 0.09
Matches are distributed among these distances:
198 4 0.03
199 50 0.35
200 36 0.25
201 34 0.24
202 18 0.13
ACGTcount: A:0.34, C:0.13, G:0.16, T:0.37
Consensus pattern (201 bp):
GTATGATATTTTAAAAACTCTAGGTATCTTTTTCAAATTTTAAAATGTGGTGCTTTTATTTTAAA
AGAGCTTTTTTAAAAGTATGATTTGTAAGACCTCCGAGCATAATCATTAAGACTACTGGGCACAA
GATAAAAACGATTTGTAAAACCTCGAGGAATAATCTCAAAATCCTTTGGACATGATCTTTAAGAC
CTTCAA
Found at i:6756616 original size:21 final size:21
Alignment explanation
Indices: 6756591--6756639 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
6756581 TAATAACAAT
**
6756591 AAAAATAAAGGTCAAAAGCAA
1 AAAAATAAAAATCAAAAGCAA
* * *
6756612 AAAAAAAAAAATCGAAAGTAA
1 AAAAATAAAAATCAAAAGCAA
6756633 AAAAATA
1 AAAAATA
6756640 TAACAAAGAG
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.73, C:0.06, G:0.10, T:0.10
Consensus pattern (21 bp):
AAAAATAAAAATCAAAAGCAA
Found at i:6758829 original size:17 final size:16
Alignment explanation
Indices: 6758807--6758849 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 16
6758797 AAAAATCTTA
*
6758807 ATTAAATTTAAGATTTT
1 ATTAAATATAA-ATTTT
6758824 ATTAAAAATATAAATTTT
1 ATT--AAATATAAATTTT
6758842 ATTAAATA
1 ATTAAATA
6758850 ATCAATCACA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
16 5 0.22
17 3 0.13
18 8 0.35
19 7 0.30
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (16 bp):
ATTAAATATAAATTTT
Found at i:6759812 original size:16 final size:17
Alignment explanation
Indices: 6759793--6759831 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
6759783 TAAGTCGAAC
*
6759793 CTAAAATAAT-TTAAAT
1 CTAAAATAATCTGAAAT
6759809 CTAAAATAATCTGAAAT
1 CTAAAATAATCTGAAAT
6759826 C-AAAAT
1 CTAAAAT
6759832 CATCCAATCC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 15 0.71
17 6 0.29
ACGTcount: A:0.56, C:0.10, G:0.03, T:0.31
Consensus pattern (17 bp):
CTAAAATAATCTGAAAT
Found at i:6767124 original size:13 final size:13
Alignment explanation
Indices: 6767097--6767129 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
6767087 AAATTTGACA
6767097 AAATT-AATGATT
1 AAATTAAATGATT
*
6767109 AAATTAAATTATT
1 AAATTAAATGATT
6767122 AAATTAAA
1 AAATTAAA
6767130 ATAATACAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 5 0.26
13 14 0.74
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (13 bp):
AAATTAAATGATT
Found at i:6770331 original size:2 final size:2
Alignment explanation
Indices: 6770324--6770368 Score: 63
Period size: 2 Copynumber: 22.5 Consensus size: 2
6770314 AGGAATTAGA
* * *
6770324 AT AT AT AT AA AT AA AT AT GT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6770366 AT A
1 AT A
6770369 GAGAGAGAGA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (2 bp):
AT
Found at i:6770373 original size:2 final size:2
Alignment explanation
Indices: 6770368--6770398 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
6770358 ATATATATAT
6770368 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
6770399 TTGAATTCAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:6772549 original size:95 final size:96
Alignment explanation
Indices: 6772386--6772579 Score: 338
Period size: 95 Copynumber: 2.0 Consensus size: 96
6772376 TTCCTACAAA
*
6772386 GTAGTGAAGGAACACCGAGATGACTGATGGATTTTACTAGGAGATCCATTTGTGAATAAATTATA
1 GTAGTGAAGGAACACCAAGATGACTGATGGATTTTACTAGGAGATCCATTTGTGAATAAATTATA
6772451 ATATATG-TATATATATATATATATTATATT
66 ATATATGATATATATATATATATATTATATT
*
6772481 GTAGTGAAGGAACACCAAGATGACTGGTGGATTTTACTAGGAGATCCATTTGTGAATCAAA-TAT
1 GTAGTGAAGGAACACCAAGATGACTGATGGATTTTACTAGGAGATCCATTTGTGAAT-AAATTAT
6772545 AATATATGTATATATATATATATATATTATATT
65 AATATATG-ATATATATATATATATATTATATT
6772578 GT
1 GT
6772580 GTATATATTG
Statistics
Matches: 94, Mismatches: 2, Indels: 4
0.94 0.02 0.04
Matches are distributed among these distances:
95 66 0.70
96 3 0.03
97 25 0.27
ACGTcount: A:0.38, C:0.08, G:0.18, T:0.37
Consensus pattern (96 bp):
GTAGTGAAGGAACACCAAGATGACTGATGGATTTTACTAGGAGATCCATTTGTGAATAAATTATA
ATATATGATATATATATATATATATTATATT
Found at i:6772567 original size:16 final size:16
Alignment explanation
Indices: 6772541--6772587 Score: 50
Period size: 14 Copynumber: 3.2 Consensus size: 16
6772531 TGTGAATCAA
6772541 ATATA-ATATATGTAT
1 ATATATATATATGTAT
6772556 ATATATATATA--TAT
1 ATATATATATATGTAT
*
6772570 AT-TATAT-TGTGTAT
1 ATATATATATATGTAT
6772584 ATAT
1 ATAT
6772588 TGAGAATTAC
Statistics
Matches: 27, Mismatches: 1, Indels: 8
0.75 0.03 0.22
Matches are distributed among these distances:
12 1 0.04
13 5 0.19
14 10 0.37
15 6 0.22
16 5 0.19
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (16 bp):
ATATATATATATGTAT
Found at i:6776657 original size:25 final size:25
Alignment explanation
Indices: 6776625--6776679 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
6776615 TTTTTATTTT
*
6776625 AAAAAGTAAAAAAAAATTAAATATA
1 AAAAAGTAAAAAAAAATTAAAAATA
* * *
6776650 AAAAAGTAATAAATATTTAAAAATA
1 AAAAAGTAAAAAAAAATTAAAAATA
6776675 AAAAA
1 AAAAA
6776680 ACTATTTTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.75, C:0.00, G:0.04, T:0.22
Consensus pattern (25 bp):
AAAAAGTAAAAAAAAATTAAAAATA
Found at i:6777947 original size:17 final size:17
Alignment explanation
Indices: 6777925--6777957 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
6777915 CAAATTATGA
6777925 GTAATAAGATCACTTTG
1 GTAATAAGATCACTTTG
*
6777942 GTAATAAGATTACTTT
1 GTAATAAGATCACTTT
6777958 AGTGATTACA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.36, C:0.09, G:0.15, T:0.39
Consensus pattern (17 bp):
GTAATAAGATCACTTTG
Found at i:6778829 original size:16 final size:15
Alignment explanation
Indices: 6778808--6778846 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
6778798 ACTAACTTAT
6778808 GTTTGAATCATTTTAA
1 GTTTGAAT-ATTTTAA
*
6778824 GTTTGAATTTTTTAA
1 GTTTGAATATTTTAA
6778839 GTTT-AATA
1 GTTTGAATA
6778847 ATCAAGTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 3 0.14
15 10 0.48
16 8 0.38
ACGTcount: A:0.31, C:0.03, G:0.13, T:0.54
Consensus pattern (15 bp):
GTTTGAATATTTTAA
Found at i:6778838 original size:15 final size:16
Alignment explanation
Indices: 6778808--6778842 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
6778798 ACTAACTTAT
6778808 GTTTGAATCATTTTAA
1 GTTTGAATCATTTTAA
*
6778824 GTTTGAAT-TTTTTAA
1 GTTTGAATCATTTTAA
6778839 GTTT
1 GTTT
6778843 AATAATCAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.26, C:0.03, G:0.14, T:0.57
Consensus pattern (16 bp):
GTTTGAATCATTTTAA
Found at i:6784582 original size:13 final size:13
Alignment explanation
Indices: 6784555--6784587 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
6784545 AAATTTGACA
6784555 AAATT-AATGATT
1 AAATTAAATGATT
*
6784567 AAATTAAATTATT
1 AAATTAAATGATT
6784580 AAATTAAA
1 AAATTAAA
6784588 ATAATACAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 5 0.26
13 14 0.74
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (13 bp):
AAATTAAATGATT
Found at i:6785035 original size:13 final size:12
Alignment explanation
Indices: 6785000--6785036 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
6784990 GCCCCCACCC
6785000 AAAAAAA-AAA-
1 AAAAAAAGAAAG
6785010 AAAAAAAGAAAG
1 AAAAAAAGAAAG
6785022 AAAAAAAGAGAAG
1 AAAAAAAGA-AAG
6785035 AA
1 AA
6785037 TAGTGATGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
10 7 0.29
11 3 0.12
12 9 0.38
13 5 0.21
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (12 bp):
AAAAAAAGAAAG
Found at i:6787865 original size:2 final size:2
Alignment explanation
Indices: 6787860--6787890 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
6787850 ATATATATAT
6787860 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
6787891 TTGAATTCAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:6789567 original size:2 final size:2
Alignment explanation
Indices: 6789560--6789585 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
6789550 TAGTCCATAA
6789560 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
6789586 TTGTAAGTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6789992 original size:91 final size:92
Alignment explanation
Indices: 6789870--6790051 Score: 323
Period size: 91 Copynumber: 2.0 Consensus size: 92
6789860 TTCCTACAAA
*
6789870 GTAGTGAAGGAACACCGAGATGACTGATGGATTTTACTAGGAGATCCATTTGTGAAT-AAATTAT
1 GTAGTGAAGGAACACCAAGATGACTGATGGATTTTACTAGGAGATCCATTTGTGAATCAAA-TAT
6789934 AATATATGTATATATATATAT-TATATT
65 AATATATGTATATATATATATATATATT
*
6789961 GTAGTGAAGGAACACCAAGATGACTGGTGGATTTTACTAGGAGATCCATTTGTGAATCAAATATA
1 GTAGTGAAGGAACACCAAGATGACTGATGGATTTTACTAGGAGATCCATTTGTGAATCAAATATA
6790026 ATATATGTATATATATATATATATAT
66 ATATATGTATATATATATATATATAT
6790052 ATATATATTA
Statistics
Matches: 87, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
91 79 0.91
92 8 0.09
ACGTcount: A:0.38, C:0.08, G:0.19, T:0.35
Consensus pattern (92 bp):
GTAGTGAAGGAACACCAAGATGACTGATGGATTTTACTAGGAGATCCATTTGTGAATCAAATATA
ATATATGTATATATATATATATATATT
Found at i:6790047 original size:16 final size:16
Alignment explanation
Indices: 6790021--6790075 Score: 67
Period size: 16 Copynumber: 3.4 Consensus size: 16
6790011 TGTGAATCAA
6790021 ATATA-ATATATGTAT
1 ATATATATATATGTAT
*
6790036 ATATATATATATATAT
1 ATATATATATATGTAT
*
6790052 ATATATATTATATTGTGT
1 ATATATA-TATA-TGTAT
6790070 ATATAT
1 ATATAT
6790076 TGAGAATTAC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
15 5 0.15
16 16 0.47
17 4 0.12
18 9 0.26
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (16 bp):
ATATATATATATGTAT
Found at i:6790075 original size:2 final size:2
Alignment explanation
Indices: 6790021--6790064 Score: 65
Period size: 2 Copynumber: 23.0 Consensus size: 2
6790011 TGTGAATCAA
*
6790021 AT AT A- AT AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT -T
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6790061 AT AT
1 AT AT
6790065 TGTGTATATA
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
1 2 0.05
2 36 0.95
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6794139 original size:24 final size:25
Alignment explanation
Indices: 6794110--6794162 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
6794100 TTTTTATTTT
*
6794110 AAAAGTAA-AAAAAATTAAATATAA
1 AAAAGTAATAAAAAATTAAAAATAA
* *
6794134 AAAAGTAATAAATATTTAAAAATAA
1 AAAAGTAATAAAAAATTAAAAATAA
6794159 AAAA
1 AAAA
6794163 ACTATTTTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
24 8 0.32
25 17 0.68
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.23
Consensus pattern (25 bp):
AAAAGTAATAAAAAATTAAAAATAA
Found at i:6795439 original size:17 final size:17
Alignment explanation
Indices: 6795417--6795449 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
6795407 CAAATTATGA
6795417 GTAATAAGATCACTTTG
1 GTAATAAGATCACTTTG
*
6795434 GTAATAAGATTACTTT
1 GTAATAAGATCACTTT
6795450 AGTGATTACA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.36, C:0.09, G:0.15, T:0.39
Consensus pattern (17 bp):
GTAATAAGATCACTTTG
Found at i:6798912 original size:18 final size:17
Alignment explanation
Indices: 6798891--6798948 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 17
6798881 ATTTTTACTA
6798891 TTTTCTTCATTTTTTTAT
1 TTTTCTT-ATTTTTTTAT
* *
6798909 TTTTCTATATTTCTATAT
1 TTTTCT-TATTTTTTTAT
*
6798927 TTTTATTATTTATTTTAT
1 TTTTCTTATTT-TTTTAT
6798945 TTTT
1 TTTT
6798949 GTATGAACTT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
17 5 0.15
18 27 0.82
19 1 0.03
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTTCTTATTTTTTTAT
Found at i:6798921 original size:26 final size:27
Alignment explanation
Indices: 6798880--6798937 Score: 77
Period size: 26 Copynumber: 2.2 Consensus size: 27
6798870 TGACTAAAGG
6798880 TATTTTTACTATTTTCT-TCATTTTT-T
1 TATTTTTACTATTTTCTAT-ATTTTTAT
6798906 TATTTTT-CTATATTTCTATATTTTTAT
1 TATTTTTACTAT-TTTCTATATTTTTAT
6798933 TATTT
1 TATTT
6798938 ATTTTATTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
25 4 0.14
26 18 0.62
27 7 0.24
ACGTcount: A:0.19, C:0.09, G:0.00, T:0.72
Consensus pattern (27 bp):
TATTTTTACTATTTTCTATATTTTTAT
Found at i:6804192 original size:20 final size:19
Alignment explanation
Indices: 6804167--6804218 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
6804157 GCTTGTAAAA
* *
6804167 GAAAAAGAAAAAAAGTTATG
1 GAAAAAGAAAAAAAG-AAAG
6804187 GAAAAA-AAAACAAAGAAAG
1 GAAAAAGAAAA-AAAGAAAG
6804206 GAAAAAGAAAAAA
1 GAAAAAGAAAAAA
6804219 CAATAAAGCC
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
19 14 0.50
20 14 0.50
ACGTcount: A:0.75, C:0.02, G:0.17, T:0.06
Consensus pattern (19 bp):
GAAAAAGAAAAAAAGAAAG
Done.