Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D10
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: 67973905
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 13 of 228
Found at i:4644647 original size:100 final size:104
Alignment explanation
Indices: 4644468--4644717 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
4644458 TGATAATAAC
**
4644468 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
4644533 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
4644570 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
4644633 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
4644675 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
4644718 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:4644833 original size:13 final size:13
Alignment explanation
Indices: 4644812--4644843 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
4644802 GCTTGGATCA
*
4644812 TCATCAAATAAAT
1 TCATAAAATAAAT
4644825 TCATAAAATAAAT
1 TCATAAAATAAAT
4644838 TCATAA
1 TCATAA
4644844 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:4645089 original size:30 final size:30
Alignment explanation
Indices: 4645055--4645112 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
4645045 CCTCGACTCT
**
4645055 AACTTTTTGAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
4645085 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
4645113 AAGGCTCGGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.31, C:0.22, G:0.05, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:4652264 original size:9 final size:9
Alignment explanation
Indices: 4652250--4652301 Score: 86
Period size: 9 Copynumber: 5.8 Consensus size: 9
4652240 TTTGGTTAAA
4652250 AATTACCCG
1 AATTACCCG
4652259 AATTACCCG
1 AATTACCCG
4652268 AATTACCCG
1 AATTACCCG
*
4652277 AATTAACCG
1 AATTACCCG
*
4652286 AATTAACCG
1 AATTACCCG
4652295 AATTACC
1 AATTACC
4652302 GAAAAATACC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 41 1.00
ACGTcount: A:0.38, C:0.29, G:0.10, T:0.23
Consensus pattern (9 bp):
AATTACCCG
Found at i:4656374 original size:3 final size:3
Alignment explanation
Indices: 4656366--4656391 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
4656356 TTCAAATTTA
4656366 GAT GAT GAT GAT GAT GAT GAT GAT GA
1 GAT GAT GAT GAT GAT GAT GAT GAT GA
4656392 ACTCGGTCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.35, T:0.31
Consensus pattern (3 bp):
GAT
Found at i:4660611 original size:109 final size:108
Alignment explanation
Indices: 4660447--4660659 Score: 329
Period size: 109 Copynumber: 1.9 Consensus size: 108
4660437 GCACCAGAAC
*
4660447 ACGAAAAAAGTAAAAAAAAAAAATTTTTTGGTGGTGGCCTGCTAATGGCCGGCACCACCTTTTTT
1 ACGAAAAAAGTAAAAAAAAAAAA---TTTGGTGGTGGCCTGCCAATGGCCGGCACCACCTTTTTT
* *
4660512 GAAGAATTTTTTTTGTACTTTTTTCTTGTCAATAGCTGGTATCAGTAT
63 GAAG-ATTTTTTTT-TACTTTTTTCGTGTCAATAGCAGGTATCAGTAT
* *
4660560 ACGAAAAAAGTAAAAAAAAAAAA-TTGGTGGTGGCTTGCCAATGGCCGGCACCACCTTTTTTGGA
1 ACGAAAAAAGTAAAAAAAAAAAATTTGGTGGTGGCCTGCCAATGGCCGGCACCACCTTTTTTGAA
4660624 GATTTTTTTTTACTTTTTTCGTGTCAATAGCAGGTA
66 GATTTTTTTTTACTTTTTTCGTGTCAATAGCAGGTA
4660660 AATTTGATCA
Statistics
Matches: 95, Mismatches: 5, Indels: 6
0.90 0.05 0.06
Matches are distributed among these distances:
107 24 0.25
108 9 0.09
109 39 0.41
113 23 0.24
ACGTcount: A:0.31, C:0.15, G:0.20, T:0.35
Consensus pattern (108 bp):
ACGAAAAAAGTAAAAAAAAAAAATTTGGTGGTGGCCTGCCAATGGCCGGCACCACCTTTTTTGAA
GATTTTTTTTTACTTTTTTCGTGTCAATAGCAGGTATCAGTAT
Found at i:4662501 original size:61 final size:61
Alignment explanation
Indices: 4662372--4662504 Score: 160
Period size: 61 Copynumber: 2.2 Consensus size: 61
4662362 ATGATCATTT
* * * * * *
4662372 TTAAAATTTTTAGAGTTAGGAGTAAATTGACAAAATTTGTAAACATTGAGAGATAAATTTA
1 TTAAATTTTTTAGAATTAGAACTAAAATGACAAAATTTGTAAACATTGAGAGATAAACTTA
* * *
4662433 TTAAATTTTTTAGAATTAGAACTAAAATGACAAATTTTGTGAACATTGA-AGACTAAACTTG
1 TTAAATTTTTTAGAATTAGAACTAAAATGACAAAATTTGTAAACATTGAGAGA-TAAACTTA
*
4662494 TTGAATTTTTT
1 TTAAATTTTTT
4662505 TATATTTAGA
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
60 3 0.05
61 58 0.95
ACGTcount: A:0.41, C:0.05, G:0.14, T:0.39
Consensus pattern (61 bp):
TTAAATTTTTTAGAATTAGAACTAAAATGACAAAATTTGTAAACATTGAGAGATAAACTTA
Found at i:4675382 original size:46 final size:45
Alignment explanation
Indices: 4675315--4675686 Score: 469
Period size: 46 Copynumber: 8.6 Consensus size: 45
4675305 TTTGAGTACT
*
4675315 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCATTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
*
4675361 TCTGATCAAGTGAGAAAGTGATAAGTGGTAGCATTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
*
4675407 TCTGATCAAGTGAAAAAGTGATAA---GT-G--T---TACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTA
*
4675443 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
*
4675489 TCTGATCAAGTGAAAAAGTGATAA---GT-GC-TA--T--ACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTA
*
4675525 TCTGATCAAGTGACAAAGTGATAAGTGTTAGCCTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAG-CTTAGCTACACTTA
* *
4675571 TCTGATCAAGTGAGAAAGTGATAAGTGGTAGCCTTAGCTACTCTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAG-CTTAGCTACACTTA
*
4675617 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTA
*
4675662 TCTGATC-AGGGAC-AAGTGATAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTG
4675687 ATCATATGTA
Statistics
Matches: 291, Mismatches: 15, Indels: 43
0.83 0.04 0.12
Matches are distributed among these distances:
36 58 0.20
38 1 0.00
39 4 0.01
40 4 0.01
41 1 0.00
42 5 0.02
43 17 0.06
44 6 0.02
45 19 0.07
46 176 0.60
ACGTcount: A:0.34, C:0.14, G:0.22, T:0.29
Consensus pattern (45 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTA
Found at i:4675440 original size:36 final size:36
Alignment explanation
Indices: 4675399--4675554 Score: 177
Period size: 36 Copynumber: 4.1 Consensus size: 36
4675389 TAGCATTAGC
4675399 TACACTTATCTGATCAAGTGAAAAAGTGATAAGTGT
1 TACACTTATCTGATCAAGTGAAAAAGTGATAAGTGT
* *
4675435 TACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTT
1 TACACTTATCTGATCAAGTGAAAAAGTGATAA---GT-G---T
*
4675478 AGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGTGC
1 ---TACACTTATCTGATCAAGTGAAAAAGTGATAAGTGT
* *
4675517 TATACTTATCTGATCAAGTGACAAAGTGATAAGTGT
1 TACACTTATCTGATCAAGTGAAAAAGTGATAAGTGT
4675553 TA
1 TA
4675555 GCCTTAGCTA
Statistics
Matches: 102, Mismatches: 8, Indels: 20
0.78 0.06 0.15
Matches are distributed among these distances:
36 65 0.64
39 2 0.02
40 1 0.01
42 1 0.01
43 3 0.03
46 30 0.29
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.30
Consensus pattern (36 bp):
TACACTTATCTGATCAAGTGAAAAAGTGATAAGTGT
Found at i:4675446 original size:82 final size:81
Alignment explanation
Indices: 4675353--4675686 Score: 456
Period size: 82 Copynumber: 4.0 Consensus size: 81
4675343 TAGCATTAGC
*
4675353 TACACTTATCTGATCAAGTGAGAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAAGT
1 TACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGC-TTAGCTACACTTATCTGATCAAGT
4675418 GAAAAAGTGATAAGTGT
65 GAAAAAGTGATAAGTGT
*
4675435 TACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGT
1 TACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGC-TTAGCTACACTTATCTGATCAAGT
*
4675500 GAAAAAGTGATAAGTGC
65 GAAAAAGTGATAAGTGT
* *
4675517 TATACTTATCTGATCAAGTGACAAAGTGATAAGTGTTAGCCTTAGCTACACTTATCTGATCAAGT
1 TACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAG-CTTAGCTACACTTATCTGATCAAGT
*
4675582 GAGAAAGTGATAAGTGGTAGCCT
65 GAAAAAGTGATAA---GT-G--T
*
4675605 TAGCTACTCTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTATCTGATC-
1 TA-C-A--CTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCA
* *
4675669 AG-GGACAAGTGATAAGTG
62 AGTGAAAAAGTGATAAGTG
4675687 ATCATATGTA
Statistics
Matches: 226, Mismatches: 15, Indels: 19
0.87 0.06 0.07
Matches are distributed among these distances:
82 150 0.66
83 1 0.00
85 3 0.01
86 3 0.01
88 2 0.01
89 10 0.04
90 3 0.01
91 20 0.09
92 34 0.15
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.29
Consensus pattern (81 bp):
TACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAAGTG
AAAAAGTGATAAGTGT
Found at i:4675679 original size:128 final size:126
Alignment explanation
Indices: 4675315--4675686 Score: 440
Period size: 128 Copynumber: 2.9 Consensus size: 126
4675305 TTTGAGTACT
* *
4675315 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAAGTGAGAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAAGTGAAAAAGT
* *
4675380 GATAAGTGGTAGCATTAGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGTGTTACACTTA
66 GATAAGTGGTAGC-TTAGCTACACTTATCTGATCAAG-GGAAAAGTGATAAGTGCTACACTTA
* *
4675443 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAAGTGAAAAAGT
*
4675508 GATAA---GT-GC-TA--T--ACTTATCTGATCAAGTGACAAAGTGATAAGTGTTAGCCTTAGCT
66 GATAAGTGGTAGCTTAGCTACACTTATCTGATCAAGGGA-AAAGTGAT-A-----AG---T-GCT
4675564 ACACTTA
120 ACACTTA
* * * *
4675571 TCTGATCAAGTGAGAAAGTGATAAGTGGTAGCCTTAGCTACTCTTATCTGATCAAGTGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAAGTGAAAAAGT
* *
4675636 GATAAGTGGTAGCCTAGCTACACTTATCTGATC-AGGGACAAGTGATAAGTG
66 GATAAGTGGTAGCTTAGCTACACTTATCTGATCAAGGGAAAAGTGATAAGTG
4675687 ATCATATGTA
Statistics
Matches: 210, Mismatches: 14, Indels: 43
0.79 0.05 0.16
Matches are distributed among these distances:
117 1 0.00
118 23 0.11
119 1 0.00
120 1 0.00
122 2 0.01
124 4 0.02
125 3 0.01
126 1 0.00
127 1 0.00
128 140 0.67
129 2 0.01
131 2 0.01
132 2 0.01
133 2 0.01
134 1 0.00
135 8 0.04
136 4 0.02
137 12 0.06
ACGTcount: A:0.34, C:0.14, G:0.22, T:0.29
Consensus pattern (126 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAAGTGAAAAAGT
GATAAGTGGTAGCTTAGCTACACTTATCTGATCAAGGGAAAAGTGATAAGTGCTACACTTA
Found at i:4678221 original size:9 final size:9
Alignment explanation
Indices: 4678207--4678235 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
4678197 TTAAAATACA
4678207 TTTTTAATT
1 TTTTTAATT
4678216 TTTTTAATT
1 TTTTTAATT
4678225 TTTTTAATT
1 TTTTTAATT
4678234 TT
1 TT
4678236 AAAATATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (9 bp):
TTTTTAATT
Found at i:4678227 original size:48 final size:48
Alignment explanation
Indices: 4678169--4678268 Score: 157
Period size: 48 Copynumber: 2.1 Consensus size: 48
4678159 ATAATAAATA
4678169 TTTTTATTTTTTTAATTTTAAAATACTTTTAAAATACA-TTTTTAATT
1 TTTTTATTTTTTTAATTTTAAAATACTTTTAAAATACATTTTTTAATT
* *
4678216 TTTTTAATTTTTTTAATTTTAAAATATTTTTAAAATATATTTTTTTAATT
1 TTTTT-ATTTTTTTAATTTTAAAATACTTTTAAAATACA-TTTTTTAATT
4678266 TTT
1 TTT
4678269 AAAATAAATT
Statistics
Matches: 48, Mismatches: 2, Indels: 3
0.91 0.04 0.06
Matches are distributed among these distances:
47 5 0.10
48 31 0.65
50 12 0.25
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (48 bp):
TTTTTATTTTTTTAATTTTAAAATACTTTTAAAATACATTTTTTAATT
Found at i:4678288 original size:22 final size:21
Alignment explanation
Indices: 4678240--4678288 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 21
4678230 AATTTTAAAA
* *
4678240 TATTTTTAAAATATATTTTTT
1 TATTTTTAAAATAAATTTTTG
4678261 TAATTTTTAAAATAAATTTTTGG
1 T-ATTTTTAAAATAAATTTTT-G
4678284 TATTT
1 TATTT
4678289 ATTTAAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 1 0.04
22 22 0.92
23 1 0.04
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (21 bp):
TATTTTTAAAATAAATTTTTG
Found at i:4685350 original size:12 final size:12
Alignment explanation
Indices: 4685333--4685374 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
4685323 AGTATACATA
4685333 TTATTTTTTAAT
1 TTATTTTTTAAT
*
4685345 TTA--TTTTCAT
1 TTATTTTTTAAT
4685355 ATTATTTTTTAAT
1 -TTATTTTTTAAT
4685368 TTATTTT
1 TTATTTT
4685375 CAAATTGTGG
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
10 6 0.24
11 3 0.12
12 10 0.40
13 6 0.24
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (12 bp):
TTATTTTTTAAT
Found at i:4685356 original size:23 final size:23
Alignment explanation
Indices: 4685329--4685376 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
4685319 TTTAAGTATA
4685329 CATATTATTTTTTAATTTATTTT
1 CATATTATTTTTTAATTTATTTT
4685352 CATATTATTTTTTAATTTATTTT
1 CATATTATTTTTTAATTTATTTT
4685375 CA
1 CA
4685377 AATTGTGGGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.27, C:0.06, G:0.00, T:0.67
Consensus pattern (23 bp):
CATATTATTTTTTAATTTATTTT
Found at i:4717297 original size:17 final size:17
Alignment explanation
Indices: 4717275--4717310 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
4717265 CCTTTTGCTG
4717275 TAATTTGAAATATGAGT
1 TAATTTGAAATATGAGT
4717292 TAATTTGAAATATGAGT
1 TAATTTGAAATATGAGT
4717309 TA
1 TA
4717311 TATTAGGTGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.17, T:0.42
Consensus pattern (17 bp):
TAATTTGAAATATGAGT
Found at i:4718416 original size:91 final size:91
Alignment explanation
Indices: 4718307--4718474 Score: 318
Period size: 91 Copynumber: 1.8 Consensus size: 91
4718297 TTAAATGTAT
*
4718307 AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTTAAATTATATAAATTCATATAA
1 AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTTAAATTATACAAATTCATATAA
4718372 AAAAATTTATTATCAAGAATTTTAAG
66 AAAAATTTATTATCAAGAATTTTAAG
4718398 AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTTAAATTATACAAATTCATATAA
1 AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTTAAATTATACAAATTCATATAA
*
4718463 GAAAATTTATTA
66 AAAAATTTATTA
4718475 GGTATAATTA
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
91 75 1.00
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (91 bp):
AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTTAAATTATACAAATTCATATAA
AAAAATTTATTATCAAGAATTTTAAG
Found at i:4718607 original size:37 final size:35
Alignment explanation
Indices: 4718566--4718842 Score: 121
Period size: 37 Copynumber: 7.7 Consensus size: 35
4718556 TAGTATCATA
*
4718566 TATTATGATTTTAGTAAATTCATATAAGAATATTGAT
1 TATTATGATTTTAGTAAATT-ATATAA-AATATTAAT
* * *
4718603 TATTAAGAATTTTATTAAATTATAT---ATTTTAAT
1 TATTATG-ATTTTAGTAAATTATATAAAATATTAAT
* * * *
4718636 TATAAT-ATATTTAATAATAATTATGTTAAATTATCT-A-
1 TATTATGAT-TTTAGT-A-AATTAT-ATAAAATAT-TAAT
*
4718673 TATTATGATTTGAGTAAATTCATATAAGAATATTAAT
1 TATTATGATTTTAGTAAATT-ATATAA-AATATTAAT
* * *
4718710 TATTAAGAATTTTATTAAATTATAT---ATTTTAAT
1 TATTATG-ATTTTAGTAAATTATATAAAATATTAAT
* * *
4718743 TATAAAAT-ATTTTA-TAATAATTATGTTAAATTATCT-A-
1 TAT--TATGATTTTAGT-A-AATTAT-ATAAAATAT-TAAT
*
4718780 TATTATGATTTGAGTAAATTCATATAAGAATATTAAT
1 TATTATGATTTTAGTAAATT-ATATAA-AATATTAAT
* *
4718817 TATTAAGAATTTTATTAAATTATATA
1 TATTATG-ATTTTAGTAAATTATATA
4718843 TTTTAATTAT
Statistics
Matches: 178, Mismatches: 31, Indels: 62
0.66 0.11 0.23
Matches are distributed among these distances:
31 2 0.01
32 6 0.03
33 28 0.16
34 12 0.07
35 21 0.12
36 21 0.12
37 44 0.25
38 42 0.24
39 2 0.01
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (35 bp):
TATTATGATTTTAGTAAATTATATAAAATATTAAT
Found at i:4718645 original size:16 final size:16
Alignment explanation
Indices: 4718624--4718669 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
4718614 TTATTAAATT
4718624 ATATATTTTAATTATA
1 ATATATTTTAATTATA
*
4718640 ATATA-TTTAATAATA
1 ATATATTTTAATTATA
*
4718655 AT-TATGTTAAATTAT
1 ATATAT-TTTAATTAT
4718670 CTATATTATG
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
14 2 0.08
15 11 0.44
16 12 0.48
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATTATA
Found at i:4718676 original size:107 final size:109
Alignment explanation
Indices: 4718559--4719120 Score: 828
Period size: 107 Copynumber: 5.0 Consensus size: 109
4718549 TATTTTATAG
*
4718559 TATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
1 TATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
4718624 ATATATTTTAATTATAATATATTTAATAATAATTATGTTAAAT-
66 ATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATA
*
4718667 TATC-TATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
1 TATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
* *
4718731 ATATATTTTAATTATAAAATATTTTATAATAATTATGTTAAAT-
66 ATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATA
*
4718774 TATC-TATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
1 TATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
4718838 ATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTATA
66 ATATATTTTAATTATAATATATTTAATAATAATTATG-----TTA-A----ATA
4718892 GTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAAT
1 -TATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAAT
*
4718957 TATATATTTTAATTATAATATATTTAATAATTATGTTAAT-TTATATTTTATA
65 TATATATTTTAATTATAATATATTTAATAA-TA-ATT-ATGTTA-A----ATA
4719009 GTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAAT
1 -TATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAAT
* *
4719074 TATATATTTTAATTAAAATATATTTAATTATAATTATGTTTAAATA
65 TATATATTTTAATTATAATATATTTAATAATAATTATG-TTAAATA
4719120 T
1 T
4719121 GATTAAAATA
Statistics
Matches: 425, Mismatches: 11, Indels: 34
0.90 0.02 0.07
Matches are distributed among these distances:
107 198 0.47
108 4 0.01
110 1 0.00
111 3 0.01
112 3 0.01
113 1 0.00
114 2 0.00
115 3 0.01
116 5 0.01
117 107 0.25
119 4 0.01
120 88 0.21
121 2 0.00
122 2 0.00
123 2 0.00
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.49
Consensus pattern (109 bp):
TATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
ATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATA
Found at i:4718853 original size:227 final size:232
Alignment explanation
Indices: 4718620--4719116 Score: 708
Period size: 227 Copynumber: 2.1 Consensus size: 232
4718610 AATTTTATTA
*
4718620 AATTATATAT-TTTAATTATAATATATTTAATAATAATTATGTTAAATTATC-TATATTATGATT
1 AATTATATATATTTAATTATAATATATTTAAT--TAA-TATGTTAAAGTATCATATATTATGATT
4718683 TGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAA
63 TGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAA
*
4718748 AATATTTTATAA-TA-ATT-ATGTTA-A-AT-TATC-TATATTATGATTTGAGTAAATTCATATA
128 AATATTTAATAATTATATTAAT-TTATATATATATCATATATTATGATTTGAGTAAATTCATATA
4718806 AGAATATTAATTATTAAGAATTTTATTAAATTATATATTTT
192 AGAATATTAATTATTAAGAATTTTATTAAATTATATATTTT
* * * *
4718847 AATTATAATATATTTAATAATAAT-TATGTTAATTTATATTTTATAGTATCATATATTATGATTT
1 AATTAT-ATATATTTAATTATAATATAT-TTAATTAATATGTTAAAGTATCATATATTATGATTT
* *
4718911 GAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTTTAATTATAAT
64 GAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAAA
*
4718976 ATATTTAATAATTATGTTAATTTATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATA
129 ATATTTAATAATTATATTAATTTATA---TATA-TATCATATATTATGATTTGAGTAAATTCATA
*
4719041 TAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTTT
190 TAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTT
* *
4719084 AATTAAAATATATTTAATTATAATTATGTTTAA
1 AATT-ATATATATTTAATTATAA-TATATTTAA
4719117 ATATGATTAA
Statistics
Matches: 239, Mismatches: 13, Indels: 25
0.86 0.05 0.09
Matches are distributed among these distances:
226 11 0.05
227 94 0.39
228 9 0.04
229 21 0.09
230 3 0.01
234 2 0.01
236 4 0.02
237 87 0.36
238 6 0.03
239 2 0.01
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.50
Consensus pattern (232 bp):
AATTATATATATTTAATTATAATATATTTAATTAATATGTTAAAGTATCATATATTATGATTTGA
GTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAAAAT
ATTTAATAATTATATTAATTTATATATATATCATATATTATGATTTGAGTAAATTCATATAAGAA
TATTAATTATTAAGAATTTTATTAAATTATATATTTT
Found at i:4718864 original size:15 final size:15
Alignment explanation
Indices: 4718829--4718880 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
4718819 TTAAGAATTT
*
4718829 TATTAAATTAT-ATA
1 TATTTAATTATAATA
4718843 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
4718857 TATTTAATAATAAT-
1 TATTTAATTATAATA
4718871 TATGTTAATT
1 TAT-TTAATT
4718881 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:4718962 original size:334 final size:341
Alignment explanation
Indices: 4718359--4719118 Score: 1058
Period size: 334 Copynumber: 2.3 Consensus size: 341
4718349 TTAAATTATA
* * * * ** * *
4718359 TAAATTCATATAAAAAAATTTATTATCAAGAATTTTAAGAAATTATATATCATT-ATTAAATTAT
1 TAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAT-TTTAATTAAAATAT
* * * * * *
4718423 ATTTAATATTAATTAT-TTTAAATTATAC-AAATTCAT-A--TAAGAAAATT--TATTAG-GTA-
65 ATTTAATAATAATTATGTTTAAATTAT-CTATATT-ATGATTTGAGTAAATTCATATAAGAATAT
* *
4718479 TAATTATTTTA-AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTATTTC
128 TAATTA-TTAAGAATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATTTC
*
4718543 AAATTATATTTTATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTA
192 AAATTATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTA
4718608 AGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAA-TA-ATT-ATGTTA-A-AT-
257 AGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATTATATTAAT-TTATATATA
4718667 TATC-TATATTATGATTTGAG
321 TATCATATATTATGATTTGAG
4718687 TAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAAA-AT
1 TAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTA-AAATAT
*
4718751 ATTTTATAATAATTATG-TTAAATTATCTATATTATGATTTGAGTAAATTCATATAAGAATATTA
65 ATTTAATAATAATTATGTTTAAATTATCTATATTATGATTTGAGTAAATTCATATAAGAATATTA
* *
4718815 ATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT-AA
130 ATTATTAAGAATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTAT-TTCAA
*
4718879 TTTATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
194 ATTATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
*
4718944 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATTATGTTAATTTATATTTTATA
259 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATTATATTAATTTATA---TATA
4719009 GTATCATATATTATGATTTGAG
321 -TATCATATATTATGATTTGAG
*
4719031 TAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATA
1 TAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATA
*
4719096 TTTAATTATAATTATGTTTAAAT
66 TTTAATAATAATTATGTTTAAAT
4719119 ATGATTAAAA
Statistics
Matches: 381, Mismatches: 25, Indels: 35
0.86 0.06 0.08
Matches are distributed among these distances:
327 5 0.01
328 78 0.20
329 2 0.01
330 8 0.02
332 5 0.01
333 5 0.01
334 161 0.42
335 4 0.01
336 5 0.01
337 3 0.01
341 2 0.01
343 7 0.02
344 90 0.24
345 6 0.02
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (341 bp):
TAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATA
TTTAATAATAATTATGTTTAAATTATCTATATTATGATTTGAGTAAATTCATATAAGAATATTAA
TTATTAAGAATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAAT
TATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAA
TTTTATTAAATTATATATTTTAATTATAATATATTTAATAATTATATTAATTTATATATATATCA
TATATTATGATTTGAG
Found at i:4719053 original size:117 final size:117
Alignment explanation
Indices: 4718774--4719101 Score: 604
Period size: 117 Copynumber: 2.8 Consensus size: 117
4718764 TATGTTAAAT
*
4718774 TATC-TATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
1 TATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
4718838 ATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTATAG
66 ATATATTTTAATTATAATATA-TT--TAATAATTATGTTAATTTATATTTTATAG
4718893 TATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
1 TATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
4718958 ATATATTTTAATTATAATATATTTAATAATTATGTTAATTTATATTTTATAG
66 ATATATTTTAATTATAATATATTTAATAATTATGTTAATTTATATTTTATAG
4719010 TATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
1 TATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
*
4719075 ATATATTTTAATTAAAATATATTTAAT
66 ATATATTTTAATTATAATATATTTAAT
4719102 TATAATTATG
Statistics
Matches: 206, Mismatches: 2, Indels: 4
0.97 0.01 0.02
Matches are distributed among these distances:
117 120 0.58
119 6 0.03
120 80 0.39
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.50
Consensus pattern (117 bp):
TATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
ATATATTTTAATTATAATATATTTAATAATTATGTTAATTTATATTTTATAG
Found at i:4719090 original size:18 final size:18
Alignment explanation
Indices: 4719062--4719110 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 18
4719052 ATTATTAAGA
4719062 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAATTATAT
4719079 ATTTTAATTAAA--ATAT
1 ATTTTAATTAAATTATAT
4719095 A-TTTAATTATAATTAT
1 ATTTTAATTA-AATTAT
4719111 GTTTAAATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
15 8 0.29
16 7 0.25
17 5 0.18
18 8 0.29
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
ATTTTAATTAAATTATAT
Found at i:4719096 original size:16 final size:16
Alignment explanation
Indices: 4719062--4719116 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
4719052 ATTATTAAGA
4719062 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAA--ATAT
4719079 ATTTTAATTAAAATAT
1 ATTTTAATTAAAATAT
*
4719095 A-TTTAATTATAAT-T
1 ATTTTAATTAAAATAT
4719109 ATGTTTAA
1 AT-TTTAA
4719117 ATATGATTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 2 0.06
15 11 0.32
16 10 0.29
17 5 0.15
18 6 0.18
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (16 bp):
ATTTTAATTAAAATAT
Found at i:4719353 original size:16 final size:16
Alignment explanation
Indices: 4719332--4719367 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
4719322 GATTAGCTAT
4719332 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
4719348 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
4719364 TACA
1 TACA
4719368 GCGAACCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.39, C:0.36, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:4724396 original size:9 final size:8
Alignment explanation
Indices: 4724343--4724395 Score: 54
Period size: 8 Copynumber: 6.4 Consensus size: 8
4724333 AACCCAAGTC
*
4724343 TTTAGTTT
1 TTTATTTT
4724351 TTTATTTCCT
1 TTTATTT--T
*
4724361 TTTA-TTA
1 TTTATTTT
4724368 TTTACTTTT
1 TTTA-TTTT
4724377 TTTATTTT
1 TTTATTTT
4724385 TTTATTTT
1 TTTATTTT
4724393 TTT
1 TTT
4724396 TTAGATTGGC
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
7 4 0.11
8 21 0.55
9 8 0.21
10 5 0.13
ACGTcount: A:0.13, C:0.06, G:0.02, T:0.79
Consensus pattern (8 bp):
TTTATTTT
Found at i:4724433 original size:18 final size:16
Alignment explanation
Indices: 4724412--4724451 Score: 53
Period size: 18 Copynumber: 2.4 Consensus size: 16
4724402 TGGCGAATCA
*
4724412 TTTTATTTTATTTTTGT
1 TTTTATTTTA-ATTTGT
4724429 CTTTTATTTTAATTTGT
1 -TTTTATTTTAATTTGT
4724446 TTTTAT
1 TTTTAT
4724452 GAAGGTACGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 6 0.29
17 5 0.24
18 10 0.48
ACGTcount: A:0.15, C:0.03, G:0.05, T:0.78
Consensus pattern (16 bp):
TTTTATTTTAATTTGT
Found at i:4737335 original size:20 final size:20
Alignment explanation
Indices: 4737279--4737336 Score: 73
Period size: 20 Copynumber: 2.9 Consensus size: 20
4737269 CAGTAGCCTT
*
4737279 TTTTATATTTTTAATATAAA
1 TTTTATATTTTTAATTTAAA
*
4737299 TTTTATATTTATTAATTTATA
1 TTTTATATTT-TTAATTTAAA
4737320 -TTTATATTTTCTAATTT
1 TTTTATATTTT-TAATTT
4737337 TCTAATTTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 1 0.03
20 25 0.74
21 8 0.24
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.66
Consensus pattern (20 bp):
TTTTATATTTTTAATTTAAA
Found at i:4737624 original size:14 final size:16
Alignment explanation
Indices: 4737605--4737639 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
4737595 TTAAATAAAT
4737605 AAATT-ATA-AATATA
1 AAATTAATAGAATATA
4737619 AAATTAATAGAATATA
1 AAATTAATAGAATATA
4737635 AAATT
1 AAATT
4737640 TATTTTAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 5 0.26
15 3 0.16
16 11 0.58
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (16 bp):
AAATTAATAGAATATA
Found at i:4737738 original size:3 final size:3
Alignment explanation
Indices: 4737730--4737764 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
4737720 TTTAAAATTC
4737730 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
4737765 AAATATCATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:4738179 original size:21 final size:20
Alignment explanation
Indices: 4738153--4738193 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
4738143 ATATCATTTA
*
4738153 ATTTATATATATTGTTAAATT
1 ATTTAT-TATAATGTTAAATT
*
4738174 ATTTATTTTAATGTTAAATT
1 ATTTATTATAATGTTAAATT
4738194 GTTAATATCG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.59
Consensus pattern (20 bp):
ATTTATTATAATGTTAAATT
Found at i:4738886 original size:45 final size:43
Alignment explanation
Indices: 4738808--4738911 Score: 158
Period size: 45 Copynumber: 2.4 Consensus size: 43
4738798 TACGTATGAT
*
4738808 CACTTATCAC-TTGTC-CTTATCAATAAGTGTAGCTAGGCTAC
1 CACTTATCACTTTGTCACTTATCAATAAGTGTAGCTAAGCTAC
4738849 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTAC
1 CACTTATCACTTTGTCACTT-ATCA-ATAAGTGTAGCTAAGCTAC
*
4738894 CACTTATCACTTTATCAC
1 CACTTATCACTTTGTCAC
4738912 CACTATCACT
Statistics
Matches: 57, Mismatches: 2, Indels: 4
0.90 0.03 0.06
Matches are distributed among these distances:
41 10 0.18
42 5 0.09
43 3 0.05
44 4 0.07
45 35 0.61
ACGTcount: A:0.28, C:0.25, G:0.12, T:0.35
Consensus pattern (43 bp):
CACTTATCACTTTGTCACTTATCAATAAGTGTAGCTAAGCTAC
Found at i:4738953 original size:59 final size:62
Alignment explanation
Indices: 4738847--4738965 Score: 167
Period size: 59 Copynumber: 2.0 Consensus size: 62
4738837 TAGCTAGGCT
*
4738847 ACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCACTTATCACTTTATC
1 ACCACTTATCACTTTGTCAC-TGATCAGATAAATGTAGCTAAGCTACCACTTATCACTTTATC
4738910 ACCAC-TATCAC-TTGTTCAC-GATCA-ATAAATGTA-CTAAAGCTACCACTTATCACTTT
1 ACCACTTATCACTTTG-TCACTGATCAGATAAATGTAGCT-AAGCTACCACTTATCACTTT
4738966 GTCTCTTGAT
Statistics
Matches: 53, Mismatches: 1, Indels: 8
0.85 0.02 0.13
Matches are distributed among these distances:
58 2 0.04
59 28 0.53
60 5 0.09
61 3 0.06
62 10 0.19
63 5 0.09
ACGTcount: A:0.31, C:0.26, G:0.09, T:0.34
Consensus pattern (62 bp):
ACCACTTATCACTTTGTCACTGATCAGATAAATGTAGCTAAGCTACCACTTATCACTTTATC
Found at i:4739012 original size:33 final size:34
Alignment explanation
Indices: 4738953--4739017 Score: 114
Period size: 33 Copynumber: 1.9 Consensus size: 34
4738943 CTAAAGCTAC
*
4738953 CACTTATCACTTTGTCTCTTGATCAGATAAGTAA
1 CACTTATCACTTTGTCACTTGATCAGATAAGTAA
4738987 CACTTATCACTTT-TCACTTGATCAGATAAGT
1 CACTTATCACTTTGTCACTTGATCAGATAAGT
4739018 GTAGTTAAAG
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
33 17 0.57
34 13 0.43
ACGTcount: A:0.29, C:0.22, G:0.11, T:0.38
Consensus pattern (34 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTAA
Found at i:4739042 original size:79 final size:76
Alignment explanation
Indices: 4738915--4739058 Score: 218
Period size: 79 Copynumber: 1.9 Consensus size: 76
4738905 TTATCACCAC
*
4738915 TATCACTTGTTCACGATCAATAAATGTACTAAAGCTACCACTTATCACTTTGTCTCTTGATCAGA
1 TATCACTTGTTCACGATCAATAAATGTACTAAAGCTACCACTTATCACTTTATCTCTTGATCAGA
4738980 TAAGTAACACT
66 TAAGTAACACT
* *
4738991 TATCACTT-TTCACTTGATCAGATAAGTGTAGTTAAAGCTACCACTTATCACTTTATCTCTTGAT
1 TATCACTTGTTCAC--GATCA-ATAAATGTA-CTAAAGCTACCACTTATCACTTTATCTCTTGAT
4739055 CAGA
62 CAGA
4739059 AGTACTCAAA
Statistics
Matches: 61, Mismatches: 3, Indels: 5
0.88 0.04 0.07
Matches are distributed among these distances:
75 5 0.08
76 8 0.13
77 5 0.08
78 8 0.13
79 35 0.57
ACGTcount: A:0.31, C:0.22, G:0.11, T:0.36
Consensus pattern (76 bp):
TATCACTTGTTCACGATCAATAAATGTACTAAAGCTACCACTTATCACTTTATCTCTTGATCAGA
TAAGTAACACT
Found at i:4759074 original size:9 final size:9
Alignment explanation
Indices: 4759055--4759086 Score: 55
Period size: 9 Copynumber: 3.4 Consensus size: 9
4759045 CCTTTTATTA
4759055 TTTACTTTTT
1 TTTA-TTTTT
4759065 TTTATTTTT
1 TTTATTTTT
4759074 TTTATTTTT
1 TTTATTTTT
4759083 TTTA
1 TTTA
4759087 GATTGGCGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 18 0.82
10 4 0.18
ACGTcount: A:0.12, C:0.03, G:0.00, T:0.84
Consensus pattern (9 bp):
TTTATTTTT
Found at i:4759081 original size:17 final size:16
Alignment explanation
Indices: 4759030--4759086 Score: 51
Period size: 18 Copynumber: 3.2 Consensus size: 16
4759020 AACCCAAGTC
*
4759030 TTTAGTTTTTTATTTCCT
1 TTTA-TTTTTTATTT-TT
*
4759048 TTTATTATTTACTTTTT
1 TTTATTTTTTA-TTTTT
4759065 TTTATTTTTTTTATTTTT
1 TTTA--TTTTTTATTTTT
4759083 TTTA
1 TTTA
4759087 GATTGGCGAA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
17 11 0.33
18 16 0.48
19 6 0.18
ACGTcount: A:0.14, C:0.05, G:0.02, T:0.79
Consensus pattern (16 bp):
TTTATTTTTTATTTTT
Found at i:4759085 original size:13 final size:13
Alignment explanation
Indices: 4759035--4759076 Score: 50
Period size: 14 Copynumber: 3.2 Consensus size: 13
4759025 AAGTCTTTAG
*
4759035 TTTTTTATTTCCT
1 TTTTTTATTTCTT
*
4759048 TTTATTATTTACTT
1 TTTTTTATTT-CTT
4759062 TTTTTTATTT-TT
1 TTTTTTATTTCTT
4759074 TTT
1 TTT
4759077 ATTTTTTTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
12 5 0.20
13 9 0.36
14 11 0.44
ACGTcount: A:0.12, C:0.07, G:0.00, T:0.81
Consensus pattern (13 bp):
TTTTTTATTTCTT
Found at i:4759122 original size:17 final size:16
Alignment explanation
Indices: 4759100--4759138 Score: 60
Period size: 17 Copynumber: 2.4 Consensus size: 16
4759090 TGGCGAATCA
*
4759100 TTTTATTTTATTTTGT
1 TTTTATTTTAATTTGT
4759116 CTTTTATTTTAATTTGT
1 -TTTTATTTTAATTTGT
4759133 TTTTAT
1 TTTTAT
4759139 GAAGGTACGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 6 0.29
17 15 0.71
ACGTcount: A:0.15, C:0.03, G:0.05, T:0.77
Consensus pattern (16 bp):
TTTTATTTTAATTTGT
Found at i:4772271 original size:16 final size:17
Alignment explanation
Indices: 4772245--4772282 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
4772235 TATATTTTTA
*
4772245 ATATAAATTTTATATTT
1 ATATTAATTTTATATTT
4772262 -TATTAATTTTATATTT
1 ATATTAATTTTATATTT
4772278 ATATT
1 ATATT
4772283 TTCTAATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 15 0.79
17 4 0.21
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (17 bp):
ATATTAATTTTATATTT
Found at i:4772589 original size:14 final size:15
Alignment explanation
Indices: 4772564--4772607 Score: 65
Period size: 16 Copynumber: 3.0 Consensus size: 15
4772554 CATTTTATTA
4772564 AATAAA-ATAAAATT
1 AATAAATATAAAATT
4772578 -ATAAATATAAAATT
1 AATAAATATAAAATT
4772592 AATAGAATATAAAATT
1 AATA-AATATAAAATT
4772608 TATTTTAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
13 5 0.19
14 8 0.30
15 3 0.11
16 11 0.41
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (15 bp):
AATAAATATAAAATT
Found at i:4772712 original size:3 final size:3
Alignment explanation
Indices: 4772704--4772738 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
4772694 TTTAAAATTC
4772704 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
4772739 AAATATCATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:4773050 original size:15 final size:15
Alignment explanation
Indices: 4773020--4773061 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
4773010 GGAATCAATT
*
4773020 ATATTAATATTATTTA
1 ATATTAA-AATATTTA
4773036 AT-TTATAAATATTTA
1 ATATTA-AAATATTTA
4773051 ATATTAAAATA
1 ATATTAAAATA
4773062 ATACAATAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
15 17 0.74
16 6 0.26
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
ATATTAAAATATTTA
Found at i:4773889 original size:45 final size:46
Alignment explanation
Indices: 4773818--4774077 Score: 195
Period size: 46 Copynumber: 5.6 Consensus size: 46
4773808 TACGTATGAT
*
4773818 CACTTATCAC-TTGTC-CTTGATCAGATAAGTGTAGCT-AGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
4773861 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
* * * *
4773907 CACTTATCACTTTATCACCACTTATCACTTGTTCACGATCAGATAAATGTAGCTAAAGCTAC
1 CACTTATCAC----T------TTGTCACTTGATCA-GATAAG-T--G--TAGCTAAAGCTAC
*
4773969 CACTTATCACTTTGTCTCTTGATCAGATAA--GT-G-T--A---A-
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
* *
4774005 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGTTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
* *
4774051 CACTTATCACTTTATCTCTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
4774078 AGTACTCAAA
Statistics
Matches: 174, Mismatches: 14, Indels: 55
0.72 0.06 0.23
Matches are distributed among these distances:
36 28 0.16
37 1 0.01
38 2 0.01
39 1 0.01
40 2 0.01
42 2 0.01
43 11 0.06
44 6 0.03
45 22 0.13
46 41 0.24
50 1 0.01
51 4 0.02
52 11 0.06
56 12 0.07
57 5 0.03
58 2 0.01
62 23 0.13
ACGTcount: A:0.29, C:0.23, G:0.13, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
Found at i:4773958 original size:62 final size:63
Alignment explanation
Indices: 4773859--4773981 Score: 205
Period size: 62 Copynumber: 2.0 Consensus size: 63
4773849 TAGCTAGGCT
*
4773859 ACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATC
1 ACCACTTATCACTTTGTCAC-TGATCAGATAAATGTAGCTAAAGCTACCACTTATCACTTTATC
4773923 ACCACTTATCAC-TTGTTCAC-GATCAGATAAATGTAGCTAAAGCTACCACTTATCACTTT
1 ACCACTTATCACTTTG-TCACTGATCAGATAAATGTAGCTAAAGCTACCACTTATCACTTT
4773982 GTCTCTTGAT
Statistics
Matches: 57, Mismatches: 1, Indels: 4
0.92 0.02 0.06
Matches are distributed among these distances:
62 38 0.67
63 3 0.05
64 16 0.28
ACGTcount: A:0.31, C:0.25, G:0.11, T:0.33
Consensus pattern (63 bp):
ACCACTTATCACTTTGTCACTGATCAGATAAATGTAGCTAAAGCTACCACTTATCACTTTATC
Found at i:4774009 original size:36 final size:36
Alignment explanation
Indices: 4773969--4774039 Score: 124
Period size: 36 Copynumber: 2.0 Consensus size: 36
4773959 CTAAAGCTAC
*
4773969 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAA
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAA
*
4774005 CACTTATCACTTTTTCACTTGATCAGATAAGTGTA
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTA
4774040 GTTAAAGCTA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.28, C:0.20, G:0.13, T:0.39
Consensus pattern (36 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAA
Found at i:4774060 original size:82 final size:80
Alignment explanation
Indices: 4773925--4774077 Score: 252
Period size: 82 Copynumber: 1.9 Consensus size: 80
4773915 ACTTTATCAC
*
4773925 CACTTATCACTTGTTCACGATCAGATAAATGTAGCTAAAGCTACCACTTATCACTTTGTCTCTTG
1 CACTTATCACTTGTTCACGATCAGATAAATGTAGCTAAAGCTACCACTTATCACTTTATCTCTTG
4773990 ATCAGATAAGTGTAA
66 ATCAGATAAGTGTAA
* * *
4774005 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGTTAAAGCTACCACTTATCACTTTATCTCT
1 CACTTATCACTTGTTCAC--GATCAGATAAATGTAGCTAAAGCTACCACTTATCACTTTATCTCT
4774070 TGATCAGA
64 TGATCAGA
4774078 AGTACTCAAA
Statistics
Matches: 67, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
80 17 0.25
82 50 0.75
ACGTcount: A:0.30, C:0.22, G:0.12, T:0.36
Consensus pattern (80 bp):
CACTTATCACTTGTTCACGATCAGATAAATGTAGCTAAAGCTACCACTTATCACTTTATCTCTTG
ATCAGATAAGTGTAA
Found at i:4776895 original size:15 final size:15
Alignment explanation
Indices: 4776870--4776908 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
4776860 TTGATCAACT
* *
4776870 TTAACTTTTTTTCTCA
1 TTAA-TTTTTTTATAA
4776886 TTAATTTTTTTATAA
1 TTAATTTTTTTATAA
4776901 TTAATTTT
1 TTAATTTT
4776909 AGTATTTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 17 0.81
16 4 0.19
ACGTcount: A:0.26, C:0.08, G:0.00, T:0.67
Consensus pattern (15 bp):
TTAATTTTTTTATAA
Found at i:4784128 original size:20 final size:21
Alignment explanation
Indices: 4784096--4784145 Score: 86
Period size: 20 Copynumber: 2.5 Consensus size: 21
4784086 ATGTTTTTCT
4784096 AATAT-ATCTGAAAATATTAA
1 AATATCATCTGAAAATATTAA
4784116 AATATCATC-GAAAATATTAA
1 AATATCATCTGAAAATATTAA
4784136 AATATCATCT
1 AATATCATCT
4784146 ATATATACTA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
20 25 0.89
21 3 0.11
ACGTcount: A:0.52, C:0.10, G:0.04, T:0.34
Consensus pattern (21 bp):
AATATCATCTGAAAATATTAA
Found at i:4787310 original size:16 final size:16
Alignment explanation
Indices: 4787272--4787314 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
4787262 TCTTTATCGT
*
4787272 TTTAATAATTTTATGTA
1 TTTAAT-ATTTTATATA
**
4787289 AATAATATTTTATATA
1 TTTAATATTTTATATA
4787305 TTTAATATTT
1 TTTAATATTT
4787315 GTTTGTATTT
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
16 17 0.81
17 4 0.19
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (16 bp):
TTTAATATTTTATATA
Found at i:4788590 original size:51 final size:51
Alignment explanation
Indices: 4788527--4788641 Score: 212
Period size: 51 Copynumber: 2.3 Consensus size: 51
4788517 AAATTTAGTC
*
4788527 TTAAATCAATTTTAAATTTCAAAATTTTAATATTAATCTAAATGATAGTGA
1 TTAAATTAATTTTAAATTTCAAAATTTTAATATTAATCTAAATGATAGTGA
*
4788578 TTAAATTGATTTTAAATTTCAAAATTTTAATATTAATCTAAATGATAGTGA
1 TTAAATTAATTTTAAATTTCAAAATTTTAATATTAATCTAAATGATAGTGA
4788629 TTAAATTAATTTT
1 TTAAATTAATTTT
4788642 GTTCAATTTT
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
51 61 1.00
ACGTcount: A:0.43, C:0.04, G:0.06, T:0.46
Consensus pattern (51 bp):
TTAAATTAATTTTAAATTTCAAAATTTTAATATTAATCTAAATGATAGTGA
Found at i:4798361 original size:42 final size:42
Alignment explanation
Indices: 4798302--4798385 Score: 125
Period size: 42 Copynumber: 2.0 Consensus size: 42
4798292 CGCCCAATAG
* *
4798302 TTTGGGCTTTGACTTTGTTGGATA-TCATTCCCTTACCATTTA
1 TTTGGGCTTTGACTTTGTTAGATACCCATTCCCTTA-CATTTA
4798344 TTTGGGCTTTGACTTTGTTAGATAGCCCATTCCCTTACATTT
1 TTTGGGCTTTGACTTTGTTAGATA-CCCATTCCCTTACATTT
4798386 CTTTTTTGTT
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
42 23 0.61
43 5 0.13
44 10 0.26
ACGTcount: A:0.17, C:0.20, G:0.17, T:0.46
Consensus pattern (42 bp):
TTTGGGCTTTGACTTTGTTAGATACCCATTCCCTTACATTTA
Found at i:4799303 original size:27 final size:26
Alignment explanation
Indices: 4799233--4799305 Score: 74
Period size: 27 Copynumber: 2.7 Consensus size: 26
4799223 AAATTATTTT
* *
4799233 ATAAATATAATTTTAAAAATAAAATAT
1 ATAAAAATAATTTT-AAAATAAAATAA
* **
4799260 TTAAAAGATAAAGTTAAAATAAAATAAA
1 ATAAAA-ATAATTTTAAAATAAAAT-AA
4799288 ATAAAAATAATTTTAAAA
1 ATAAAAATAATTTTAAAA
4799306 AATTCACACT
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
27 24 0.67
28 12 0.33
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.32
Consensus pattern (26 bp):
ATAAAAATAATTTTAAAATAAAATAA
Found at i:4800915 original size:27 final size:27
Alignment explanation
Indices: 4800885--4800963 Score: 131
Period size: 27 Copynumber: 2.9 Consensus size: 27
4800875 GGCCAATCAC
* *
4800885 ATTGGTGGCACCAAAGGTGCCAAAGAG
1 ATTGGCGGCACCAATGGTGCCAAAGAG
*
4800912 ATTGGCGGCACCAATGGTGCCAAAGTG
1 ATTGGCGGCACCAATGGTGCCAAAGAG
4800939 ATTGGCGGCACCAATGGTGCCAAAG
1 ATTGGCGGCACCAATGGTGCCAAAG
4800964 GACTAAAATG
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 49 1.00
ACGTcount: A:0.29, C:0.22, G:0.33, T:0.16
Consensus pattern (27 bp):
ATTGGCGGCACCAATGGTGCCAAAGAG
Found at i:4801050 original size:19 final size:19
Alignment explanation
Indices: 4801035--4801104 Score: 97
Period size: 19 Copynumber: 3.7 Consensus size: 19
4801025 TTCAACTCAT
*
4801035 TTTTTATTTAATAACTCTA
1 TTTTAATTTAATAACTCTA
*
4801054 TTTTAATTTAATAA-ACTA
1 TTTTAATTTAATAACTCTA
* *
4801072 TTCTCATTTAATAACTCTA
1 TTTTAATTTAATAACTCTA
4801091 TTTTAATTTAATAA
1 TTTTAATTTAATAA
4801105 ACTATTAAGT
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
18 15 0.35
19 28 0.65
ACGTcount: A:0.37, C:0.10, G:0.00, T:0.53
Consensus pattern (19 bp):
TTTTAATTTAATAACTCTA
Found at i:4801083 original size:37 final size:37
Alignment explanation
Indices: 4801040--4801110 Score: 142
Period size: 37 Copynumber: 1.9 Consensus size: 37
4801030 CTCATTTTTT
4801040 ATTTAATAACTCTATTTTAATTTAATAAACTATTCTC
1 ATTTAATAACTCTATTTTAATTTAATAAACTATTCTC
4801077 ATTTAATAACTCTATTTTAATTTAATAAACTATT
1 ATTTAATAACTCTATTTTAATTTAATAAACTATT
4801111 AAGTAATACT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.39, C:0.11, G:0.00, T:0.49
Consensus pattern (37 bp):
ATTTAATAACTCTATTTTAATTTAATAAACTATTCTC
Found at i:4801329 original size:19 final size:19
Alignment explanation
Indices: 4801305--4801363 Score: 84
Period size: 19 Copynumber: 3.2 Consensus size: 19
4801295 TCTAATTAAG
4801305 TAATAACTCTATTTTAATT
1 TAATAACTCTATTTTAATT
* * *
4801324 TAATAA-ACTATTCTCATT
1 TAATAACTCTATTTTAATT
4801342 TAATAACTCTATTTTAATT
1 TAATAACTCTATTTTAATT
4801361 TAA
1 TAA
4801364 ATGAGAATAG
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
18 15 0.45
19 18 0.55
ACGTcount: A:0.39, C:0.12, G:0.00, T:0.49
Consensus pattern (19 bp):
TAATAACTCTATTTTAATT
Found at i:4801383 original size:18 final size:19
Alignment explanation
Indices: 4801360--4801406 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 19
4801350 CTATTTTAAT
* *
4801360 TTAAATGAGAATAG-TTTA
1 TTAAATGAAAATAGAGTTA
*
4801378 TTAAATTAAAATAGAGTTA
1 TTAAATGAAAATAGAGTTA
4801397 TTAAAT-AAAA
1 TTAAATGAAAA
4801407 AAATGAGTTG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 16 0.64
19 9 0.36
ACGTcount: A:0.53, C:0.00, G:0.11, T:0.36
Consensus pattern (19 bp):
TTAAATGAAAATAGAGTTA
Found at i:4801414 original size:20 final size:19
Alignment explanation
Indices: 4801375--4801415 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
4801365 TGAGAATAGT
* *
4801375 TTATTAAATTAAAATAGAG
1 TTATTAAATAAAAAAAGAG
4801394 TTATTAAATAAAAAAATGAG
1 TTATTAAATAAAAAAA-GAG
4801414 TT
1 TT
4801416 GAAGGGGAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.54, C:0.00, G:0.10, T:0.37
Consensus pattern (19 bp):
TTATTAAATAAAAAAAGAG
Found at i:4801659 original size:37 final size:37
Alignment explanation
Indices: 4801617--4801687 Score: 142
Period size: 37 Copynumber: 1.9 Consensus size: 37
4801607 AGTATTACTT
4801617 AATAGTTTATTAAATTAAAATAGAGTTATTAAATGAG
1 AATAGTTTATTAAATTAAAATAGAGTTATTAAATGAG
4801654 AATAGTTTATTAAATTAAAATAGAGTTATTAAAT
1 AATAGTTTATTAAATTAAAATAGAGTTATTAAAT
4801688 AAAAAAATGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.49, C:0.00, G:0.11, T:0.39
Consensus pattern (37 bp):
AATAGTTTATTAAATTAAAATAGAGTTATTAAATGAG
Found at i:4801692 original size:19 final size:19
Alignment explanation
Indices: 4801623--4801691 Score: 97
Period size: 19 Copynumber: 3.7 Consensus size: 19
4801613 ACTTAATAGT
4801623 TTATTAAATTAAAATAGAG
1 TTATTAAATTAAAATAGAG
* * *
4801642 TTATTAAATGAGAATAG-T
1 TTATTAAATTAAAATAGAG
4801660 TTATTAAATTAAAATAGAG
1 TTATTAAATTAAAATAGAG
4801679 TTATTAAA-TAAAA
1 TTATTAAATTAAAA
4801692 AAATGAGTTG
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
18 20 0.47
19 23 0.53
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.38
Consensus pattern (19 bp):
TTATTAAATTAAAATAGAG
Found at i:4801803 original size:27 final size:26
Alignment explanation
Indices: 4801762--4801844 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
4801752 GCCATATTTT
* *
4801762 AATCCTTTGGTACCATTGGAGCCGCC
1 AATCCTTTGGCACCATTGGTGCCGCC
*
4801788 AATCACTTTGGCACCATTGGTGCCACC
1 AATC-CTTTGGCACCATTGGTGCCGCC
*
4801815 AATCTCTTTGGCACCTTTGGTGCCGCC
1 AATC-CTTTGGCACCATTGGTGCCGCC
4801842 AAT
1 AAT
4801845 GTGATTGGCC
Statistics
Matches: 50, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
26 4 0.08
27 46 0.92
ACGTcount: A:0.19, C:0.31, G:0.20, T:0.29
Consensus pattern (26 bp):
AATCCTTTGGCACCATTGGTGCCGCC
Found at i:4801852 original size:27 final size:27
Alignment explanation
Indices: 4801768--4801853 Score: 82
Period size: 27 Copynumber: 3.2 Consensus size: 27
4801758 TTTTAATCCT
* * * * *
4801768 TTGGTACCATTGGAGCCGCCAATCACT
1 TTGGCACCATTGGTGCCACCAATCTCA
*
4801795 TTGGCACCATTGGTGCCACCAATCTCT
1 TTGGCACCATTGGTGCCACCAATCTCA
* * * *
4801822 TTGGCACCTTTGGTGCCGCCAATGTGA
1 TTGGCACCATTGGTGCCACCAATCTCA
4801849 TTGGC
1 TTGGC
4801854 CTGATCAGGC
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 50 1.00
ACGTcount: A:0.17, C:0.29, G:0.24, T:0.29
Consensus pattern (27 bp):
TTGGCACCATTGGTGCCACCAATCTCA
Found at i:4801952 original size:24 final size:25
Alignment explanation
Indices: 4801920--4801969 Score: 75
Period size: 27 Copynumber: 2.0 Consensus size: 25
4801910 TTTCGTAAAT
4801920 AATAAAAAAAG-TAATATTTTGGTA
1 AATAAAAAAAGTTAATATTTTGGTA
4801944 AATAAAAAAAGTTATAATATTTTGGT
1 AATAAAAAAAG-T-TAATATTTTGGT
4801970 TAATTTTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 11 0.48
27 12 0.52
ACGTcount: A:0.52, C:0.00, G:0.12, T:0.36
Consensus pattern (25 bp):
AATAAAAAAAGTTAATATTTTGGTA
Found at i:4803817 original size:17 final size:17
Alignment explanation
Indices: 4803795--4803828 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
4803785 AGACAACAAT
*
4803795 AAAAAGACAAAAAAAGA
1 AAAAAGAAAAAAAAAGA
4803812 AAAAAGAAAAAAAAAGA
1 AAAAAGAAAAAAAAAGA
4803829 GAGCATAGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.85, C:0.03, G:0.12, T:0.00
Consensus pattern (17 bp):
AAAAAGAAAAAAAAAGA
Found at i:4811418 original size:17 final size:17
Alignment explanation
Indices: 4811398--4811459 Score: 51
Period size: 17 Copynumber: 3.6 Consensus size: 17
4811388 TTCAATTAAT
4811398 TAATTAATTAATTAAAA
1 TAATTAATTAATTAAAA
4811415 TAA-TAATTTTAA-TAAAA
1 TAATTAA--TTAATTAAAA
*
4811432 AAATTAATT-ATTATAAA
1 TAATTAATTAATTA-AAA
4811449 T-ATCTAATTAA
1 TAAT-TAATTAA
4811460 ATACTAAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 13
0.71 0.04 0.25
Matches are distributed among these distances:
15 1 0.03
16 9 0.25
17 18 0.50
18 8 0.22
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (17 bp):
TAATTAATTAATTAAAA
Found at i:4811439 original size:18 final size:20
Alignment explanation
Indices: 4811395--4811444 Score: 61
Period size: 18 Copynumber: 2.6 Consensus size: 20
4811385 AGTTTCAATT
*
4811395 AATTAATTAATTAATTAAAAT
1 AATTAATT-ATTAATTAAAAA
4811416 AA-TAATT-TTAA-TAAAAA
1 AATTAATTATTAATTAAAAA
4811433 AATTAATTATTA
1 AATTAATTATTA
4811445 TAAATATCTA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 7 0.27
18 9 0.35
19 3 0.12
20 5 0.19
21 2 0.08
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
AATTAATTATTAATTAAAAA
Found at i:4812437 original size:18 final size:18
Alignment explanation
Indices: 4812416--4812456 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
4812406 AAAAAGAGTT
4812416 ATTAATTTAAAATT-TTTA
1 ATTAA-TTAAAATTATTTA
*
4812434 ATTAATTAAATTTATTTA
1 ATTAATTAAAATTATTTA
4812452 ATTAA
1 ATTAA
4812457 AAATCTATTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
ATTAATTAAAATTATTTA
Found at i:4815261 original size:23 final size:22
Alignment explanation
Indices: 4815210--4815261 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
4815200 CCTCGTCTTT
*
4815210 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
4815232 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
4815255 TTCTTTT
1 TTCTTTT
4815262 TCAAATTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:4815276 original size:18 final size:18
Alignment explanation
Indices: 4815255--4815293 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
4815245 TTTCTTCAAC
* *
4815255 TTCTTTTTCAAATTTCTT
1 TTCTGTTTCAAATTCCTT
*
4815273 TTCTGTTTCACATTCCTT
1 TTCTGTTTCAAATTCCTT
4815291 TTC
1 TTC
4815294 ACTCTCAATC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.13, C:0.23, G:0.03, T:0.62
Consensus pattern (18 bp):
TTCTGTTTCAAATTCCTT
Found at i:4819476 original size:19 final size:19
Alignment explanation
Indices: 4819454--4819490 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
4819444 AAATATTTTG
4819454 TACAAAAAAATTTCATGCT
1 TACAAAAAAATTTCATGCT
4819473 TACAAAAAAATTTCATGC
1 TACAAAAAAATTTCATGC
4819491 AGGGGTCATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.49, C:0.16, G:0.05, T:0.30
Consensus pattern (19 bp):
TACAAAAAAATTTCATGCT
Found at i:4834325 original size:18 final size:20
Alignment explanation
Indices: 4834302--4834341 Score: 66
Period size: 18 Copynumber: 2.1 Consensus size: 20
4834292 CCCTTTTTAC
4834302 ATATATTA-TTATA-TAAAT
1 ATATATTATTTATATTAAAT
4834320 ATATATTATTTATATTAAAT
1 ATATATTATTTATATTAAAT
4834340 AT
1 AT
4834342 TTCATTTCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 8 0.40
19 5 0.25
20 7 0.35
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
ATATATTATTTATATTAAAT
Found at i:4838617 original size:21 final size:21
Alignment explanation
Indices: 4838593--4838634 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
4838583 TCAATTTTGT
4838593 AATTAAAGAAAAATTAAAACA
1 AATTAAAGAAAAATTAAAACA
**
4838614 AATTAAAGTGAAATTAAAACA
1 AATTAAAGAAAAATTAAAACA
4838635 CTTTAATTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.67, C:0.05, G:0.07, T:0.21
Consensus pattern (21 bp):
AATTAAAGAAAAATTAAAACA
Found at i:4842528 original size:31 final size:32
Alignment explanation
Indices: 4842472--4842534 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
4842462 AAATTACAAG
4842472 AGTAATTGAATCCTAATAAAAACTCTTTAAAA
1 AGTAATTGAATCCTAATAAAAACTCTTTAAAA
4842504 AGTAATTGAATCCTAAT-AAAACTCTTTAAAA
1 AGTAATTGAATCCTAATAAAAACTCTTTAAAA
4842535 TTATCTAAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 14 0.45
32 17 0.55
ACGTcount: A:0.49, C:0.13, G:0.06, T:0.32
Consensus pattern (32 bp):
AGTAATTGAATCCTAATAAAAACTCTTTAAAA
Found at i:4848113 original size:31 final size:32
Alignment explanation
Indices: 4848054--4848118 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
4848044 GGCAAATTAC
4848054 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
4848086 AAGAGTAATTGAATCCTAAT-AAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
4848117 AA
1 AA
4848119 ATTATCTAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 13 0.39
32 20 0.61
ACGTcount: A:0.48, C:0.12, G:0.09, T:0.31
Consensus pattern (32 bp):
AAGAGTAATTGAATCCTAATAAAAACTCTTTA
Found at i:4856688 original size:22 final size:23
Alignment explanation
Indices: 4856644--4856689 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 23
4856634 TAAATAATCT
*
4856644 AAAAATTATTAAAATTTAGAAAA
1 AAAAATTATTAAAATGTAGAAAA
4856667 AAAAATTA-TAAAATCGTA-AAAA
1 AAAAATTATTAAAAT-GTAGAAAA
4856689 A
1 A
4856690 GTATAAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 11 0.52
23 10 0.48
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.26
Consensus pattern (23 bp):
AAAAATTATTAAAATGTAGAAAA
Found at i:4856689 original size:23 final size:23
Alignment explanation
Indices: 4856644--4856689 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
4856634 TAAATAATCT
* *
4856644 AAAAATTATTAAAATTTAGAAAA
1 AAAAATTATTAAAATGTAAAAAA
4856667 AAAAATTA-TAAAATCGTAAAAAA
1 AAAAATTATTAAAAT-GTAAAAAA
4856690 GTATAAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.26
Consensus pattern (23 bp):
AAAAATTATTAAAATGTAAAAAA
Found at i:4857023 original size:30 final size:28
Alignment explanation
Indices: 4856979--4857044 Score: 71
Period size: 30 Copynumber: 2.2 Consensus size: 28
4856969 TTTTTGATGC
* *
4856979 ATTTTATAATTTTTT-TTCTAATTTTAATA
1 ATTTT-TAATTTTTTATT-AAAATTTAATA
4857008 TATTTTTAATATTTTTATTAAAATTTAATA
1 -ATTTTTAAT-TTTTTATTAAAATTTAATA
4857038 ATTTTTA
1 ATTTTTA
4857045 TAGCTTTTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
29 11 0.34
30 19 0.59
31 2 0.06
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.64
Consensus pattern (28 bp):
ATTTTTAATTTTTTATTAAAATTTAATA
Found at i:4857272 original size:87 final size:90
Alignment explanation
Indices: 4857171--4857375 Score: 258
Period size: 87 Copynumber: 2.3 Consensus size: 90
4857161 CAAAGAGCTT
* * * *
4857171 TTTTTTATGCATTTTGACAGTTCAAGTA-TTCCATTGAGTGCAGAAAAAAAAA-CAACGGCTTAA
1 TTTTTAATACATTTTGACAGTTCAAGTACTT-AATTAAGTGCA-AAAAAAAAAGCAACGGCTTAA
* *
4857234 TT-TTTTTTT-TAAA-GTTTGAAGGTC
64 TTCTTTTTTTAAAAACGTTTGAAGGCC
*
4857258 TTTTTAATACATTTTGACAGTTCAAGTACTTAATTAAGTGCAAAAAAAAAAGCAAGGGCTTAATT
1 TTTTTAATACATTTTGACAGTTCAAGTACTTAATTAAGTGCAAAAAAAAAAGCAACGGCTTAATT
*
4857323 GCTTTTTTTAAAAACGTTTGAGGGCC
66 -CTTTTTTTAAAAACGTTTGAAGGCC
* *
4857349 TTTTTGATACATTTTGAAAGTTCAAGT
1 TTTTTAATACATTTTGACAGTTCAAGT
4857376 GCCCAATTGA
Statistics
Matches: 102, Mismatches: 10, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
86 9 0.09
87 47 0.46
88 2 0.02
89 7 0.07
90 3 0.03
91 34 0.33
ACGTcount: A:0.34, C:0.11, G:0.16, T:0.39
Consensus pattern (90 bp):
TTTTTAATACATTTTGACAGTTCAAGTACTTAATTAAGTGCAAAAAAAAAAGCAACGGCTTAATT
CTTTTTTTAAAAACGTTTGAAGGCC
Found at i:4861874 original size:22 final size:22
Alignment explanation
Indices: 4861846--4861892 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
4861836 AACTACATCC
4861846 AATGTCATTTAAACTATTAATA
1 AATGTCATTTAAACTATTAATA
4861868 AATGTCATTTAAACTATTAATA
1 AATGTCATTTAAACTATTAATA
4861890 AAT
1 AAT
4861893 TTACGCTTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.47, C:0.09, G:0.04, T:0.40
Consensus pattern (22 bp):
AATGTCATTTAAACTATTAATA
Found at i:4870440 original size:15 final size:14
Alignment explanation
Indices: 4870411--4870460 Score: 50
Period size: 15 Copynumber: 3.6 Consensus size: 14
4870401 TATTTTTATT
4870411 TTTTAAATT--ATA
1 TTTTAAATTAAATA
4870423 TTTTGAAATTAAATA
1 TTTT-AAATTAAATA
*
4870438 TTTTATATTAAATTA
1 TTTTAAATTAAA-TA
*
4870453 TTTCAAAT
1 TTTTAAAT
4870461 ATTTTATTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
12 4 0.13
13 5 0.16
14 7 0.23
15 15 0.48
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (14 bp):
TTTTAAATTAAATA
Found at i:4875268 original size:3 final size:3
Alignment explanation
Indices: 4875260--4875295 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
4875250 GTAAGCAGAC
4875260 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A-A AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
4875296 CCCAATAATT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 30 0.94
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:4886633 original size:10 final size:10
Alignment explanation
Indices: 4886619--4886653 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
4886609 ATTGAACTGG
4886619 ATTTTTTTAA
1 ATTTTTTTAA
*
4886629 CTTTTTTTAA
1 ATTTTTTTAA
*
4886639 TTTTTTTTAA
1 ATTTTTTTAA
4886649 ATTTT
1 ATTTT
4886654 CAATAATTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (10 bp):
ATTTTTTTAA
Found at i:4901272 original size:19 final size:18
Alignment explanation
Indices: 4901239--4901274 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
4901229 TAATATTCTG
*
4901239 TTAAAAAAAACAATAAAT
1 TTAAAAAAAAAAATAAAT
4901257 TTAAAAATAAAAAATAAA
1 TTAAAAA-AAAAAATAAA
4901275 AAATGGGTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.22
Consensus pattern (18 bp):
TTAAAAAAAAAAATAAAT
Found at i:4917973 original size:26 final size:26
Alignment explanation
Indices: 4917944--4918016 Score: 85
Period size: 26 Copynumber: 2.8 Consensus size: 26
4917934 CCCAATATAT
*
4917944 GGCTCTTCGTGAGCTTTCCGATTAAA
1 GGCTCTTCGTGAGCTTCCCGATTAAA
* **
4917970 GGCTCTTTGTGAGCTTCCCGATTAGT
1 GGCTCTTCGTGAGCTTCCCGATTAAA
* *
4917996 GGCTCTCCG-AAGCTTCCCGAT
1 GGCTCTTCGTGAGCTTCCCGAT
4918017 ATGGCTCGCT
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
25 11 0.28
26 29 0.73
ACGTcount: A:0.15, C:0.27, G:0.25, T:0.33
Consensus pattern (26 bp):
GGCTCTTCGTGAGCTTCCCGATTAAA
Found at i:4918129 original size:24 final size:25
Alignment explanation
Indices: 4918102--4918164 Score: 71
Period size: 25 Copynumber: 2.6 Consensus size: 25
4918092 GGCTCGCATG
*
4918102 AGCTTCCCGATTAT-GGCTCTA-ATA
1 AGCTTTCCGATTATAGGC-CTAGATA
4918126 AGCTTTCCG-TTATACGGCCTAGATA
1 AGCTTTCCGATTATA-GGCCTAGATA
4918151 AGCTTTCC-ATTATA
1 AGCTTTCCGATTATA
4918165 TGGCTCACAT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
23 4 0.12
24 11 0.32
25 19 0.56
ACGTcount: A:0.25, C:0.24, G:0.16, T:0.35
Consensus pattern (25 bp):
AGCTTTCCGATTATAGGCCTAGATA
Found at i:4918179 original size:25 final size:26
Alignment explanation
Indices: 4918113--4918180 Score: 79
Period size: 25 Copynumber: 2.7 Consensus size: 26
4918103 GCTTCCCGAT
*
4918113 TATGGCTCTA-ATAAGCTTTCCGTTA
1 TATGGCTCTACATAAGCTTTCCATTA
* *
4918138 TACGGC-CTAGATAAGCTTTCCATTA
1 TATGGCTCTACATAAGCTTTCCATTA
*
4918163 TATGGCTC-ACATGAGCTT
1 TATGGCTCTACATAAGCTT
4918181 CCTGTTATAT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
24 3 0.08
25 32 0.89
26 1 0.03
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.35
Consensus pattern (26 bp):
TATGGCTCTACATAAGCTTTCCATTA
Found at i:4921087 original size:40 final size:40
Alignment explanation
Indices: 4921032--4921112 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
4921022 TAGGTACTTT
4921032 AGTGGATAAAAAACAGTACATGCACCCCCACGTTCAAACA
1 AGTGGATAAAAAACAGTACATGCACCCCCACGTTCAAACA
4921072 AGTGGATAAAAAACAGTACATGCACCCCCACGTTCAAACA
1 AGTGGATAAAAAACAGTACATGCACCCCCACGTTCAAACA
4921112 A
1 A
4921113 ACAACATGTA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.43, C:0.27, G:0.15, T:0.15
Consensus pattern (40 bp):
AGTGGATAAAAAACAGTACATGCACCCCCACGTTCAAACA
Found at i:4922004 original size:51 final size:51
Alignment explanation
Indices: 4921927--4922300 Score: 574
Period size: 51 Copynumber: 7.4 Consensus size: 51
4921917 CGGATCACAT
4921927 TTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
1 TTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
* * *
4921978 TTATCACTTGTCACTTGTCACCGATCAGATAAGTGTAGCT-AAGCTACCCC
1 TTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
* * * *
4922028 TTATCACTTGTCACTTGTCACTGATCAGATAAGTGCAACTAAAGCTACCAT
1 TTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
*
4922079 TTATCACTTGTCACTTATCACTGATCAGATAAGTGCAGCTAAAGCTACCAC
1 TTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
* * *
4922130 TTATCACTTGTAACTTATCACTAATTAGATAAGTGTAGCTAAA-CTACCAC
1 TTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
* *
4922180 TTATCACTTGCCACTTCTCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
1 TTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
* * *
4922231 TTATCACTTGTCACTTATCATTGATAACATAAGTGTAGCTAAA-CTACCAC
1 TTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
*
4922281 TTATCACTTGTCACTGATCA
1 TTATCACTTGTCACTTATCA
4922301 GAAGTACTCA
Statistics
Matches: 295, Mismatches: 26, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
50 117 0.40
51 178 0.60
ACGTcount: A:0.31, C:0.24, G:0.13, T:0.32
Consensus pattern (51 bp):
TTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
Found at i:4922040 original size:101 final size:101
Alignment explanation
Indices: 4921927--4922300 Score: 570
Period size: 101 Copynumber: 3.7 Consensus size: 101
4921917 CGGATCACAT
4921927 TTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGTCAC
1 TTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAA-CTACCACTTATCACTTGTCAC
* * *
4921992 TTGTCACCGATCAGATAAGTGTAGCT-AAGCTACCCC
65 TTATCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
* * * *
4922028 TTATCACTTGTCACTTGTCACTGATCAGATAAGTGCAACTAAAGCTACCATTTATCACTTGTCAC
1 TTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAA-CTACCACTTATCACTTGTCAC
*
4922093 TTATCACTGATCAGATAAGTGCAGCTAAAGCTACCAC
65 TTATCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
* * * *
4922130 TTATCACTTGTAACTTATCACTAATTAGATAAGTGTAGCTAAACTACCACTTATCACTTGCCACT
1 TTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAACTACCACTTATCACTTGTCACT
*
4922195 TCTCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
66 TATCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
* * *
4922231 TTATCACTTGTCACTTATCATTGATAACATAAGTGTAGCTAAACTACCACTTATCACTTGTCACT
1 TTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAACTACCACTTATCACTTGTCACT
*
4922296 GATCA
66 TATCA
4922301 GAAGTACTCA
Statistics
Matches: 246, Mismatches: 26, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
101 200 0.81
102 46 0.19
ACGTcount: A:0.31, C:0.24, G:0.13, T:0.32
Consensus pattern (101 bp):
TTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAACTACCACTTATCACTTGTCACT
TATCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
Found at i:4922101 original size:152 final size:152
Alignment explanation
Indices: 4921924--4922300 Score: 594
Period size: 152 Copynumber: 2.5 Consensus size: 152
4921914 ACACGGATCA
4921924 CATTTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGT
1 CATTTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGT
* * * * * *
4921989 CACTTGTCACCGATCAGATAAGTGTAGCTAAGCTACCCCTTATCACTTGTCACTTGTCACTGATC
66 CACTTATCACCAATCAGATAAGTGTAGCTAAACTACCACTTATCACTTGCCACTTCTCACTGATC
4922054 AGATAAGTGCAACTAAAGCTAC
131 AGATAAGTGCAACTAAAGCTAC
*
4922076 CATTTATCACTTGTCACTTATCACTGATCAGATAAGTGCAGCTAAAGCTACCACTTATCACTTGT
1 CATTTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGT
* * *
4922141 AACTTATCACTAATTAGATAAGTGTAGCTAAACTACCACTTATCACTTGCCACTTCTCACTGATC
66 CACTTATCACCAATCAGATAAGTGTAGCTAAACTACCACTTATCACTTGCCACTTCTCACTGATC
* *
4922206 AGATAAGTGTAGCTAAAGCTAC
131 AGATAAGTGCAACTAAAGCTAC
* * * *
4922228 CACTTATCACTTGTCACTTATCATTGATAACATAAGTGTAGCTAAA-CTACCACTTATCACTTGT
1 CATTTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGT
*
4922292 CACTGATCA
66 CACTTATCA
4922301 GAAGTACTCA
Statistics
Matches: 206, Mismatches: 19, Indels: 1
0.91 0.08 0.00
Matches are distributed among these distances:
151 25 0.12
152 181 0.88
ACGTcount: A:0.31, C:0.24, G:0.13, T:0.32
Consensus pattern (152 bp):
CATTTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGT
CACTTATCACCAATCAGATAAGTGTAGCTAAACTACCACTTATCACTTGCCACTTCTCACTGATC
AGATAAGTGCAACTAAAGCTAC
Found at i:4922396 original size:17 final size:17
Alignment explanation
Indices: 4922374--4922406 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
4922364 TATTCTCAAT
4922374 TCATCA-ACAAATATATC
1 TCATCATAC-AATATATC
4922391 TCATCATACAATATAT
1 TCATCATACAATATAT
4922407 AATTCATGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 13 0.87
18 2 0.13
ACGTcount: A:0.45, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
TCATCATACAATATATC
Found at i:4925531 original size:31 final size:31
Alignment explanation
Indices: 4925496--4925556 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
4925486 TCAATAATAT
*
4925496 ATAAAGAATATAAAATTA-TTATTAAAATAAA
1 ATAAA-AATATAAAATAATTTATTAAAATAAA
*
4925527 ATAAAAATATTAAATAATTTATTAAAATAA
1 ATAAAAATATAAAATAATTTATTAAAATAA
4925557 TAAATTATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 10 0.37
31 17 0.63
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (31 bp):
ATAAAAATATAAAATAATTTATTAAAATAAA
Found at i:4937255 original size:20 final size:20
Alignment explanation
Indices: 4937230--4937272 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
4937220 TAAATTTACA
*
4937230 AAAAAAAAACAAGCAAATAG
1 AAAAAAAAACAAGAAAATAG
* *
4937250 AAAAAAGAAGAAGAAAATAG
1 AAAAAAAAACAAGAAAATAG
4937270 AAA
1 AAA
4937273 GTGGAAATGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.77, C:0.05, G:0.14, T:0.05
Consensus pattern (20 bp):
AAAAAAAAACAAGAAAATAG
Found at i:4938841 original size:83 final size:84
Alignment explanation
Indices: 4938745--4938960 Score: 344
Period size: 83 Copynumber: 2.6 Consensus size: 84
4938735 CATATGAAAT
* * *
4938745 ATTTAGTGTCAATTTACAATATAATATTAAAGATATTGAAGTTAATTACGTAGTTCGGAAAAGCA
1 ATTTAGTGTCAATTTATAATATAATATTAAAGACATCGAAGTTAATTACGTAGTTCGGAAAAGCA
4938810 TTCTA-GTTTGAAAAAACA
66 TTCTACGTTTGAAAAAACA
* *
4938828 ATTTAGTGTCAATTTATAATATCATATTAAAAACATCGAAGTTAATTACGTAGTTCGGAAAAGCA
1 ATTTAGTGTCAATTTATAATATAATATTAAAGACATCGAAGTTAATTACGTAGTTCGGAAAAGCA
**
4938893 TTCTACGTTTGAAAAATTA
66 TTCTACGTTTGAAAAAACA
* *
4938912 ATTTAGTGTCAATTTATAATATAACATTAAAGACATCGAAGTTAGTTAC
1 ATTTAGTGTCAATTTATAATATAATATTAAAGACATCGAAGTTAATTAC
4938961 TTAGGGTGGG
Statistics
Matches: 121, Mismatches: 11, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
83 65 0.54
84 56 0.46
ACGTcount: A:0.41, C:0.10, G:0.13, T:0.36
Consensus pattern (84 bp):
ATTTAGTGTCAATTTATAATATAATATTAAAGACATCGAAGTTAATTACGTAGTTCGGAAAAGCA
TTCTACGTTTGAAAAAACA
Found at i:4946692 original size:80 final size:79
Alignment explanation
Indices: 4946559--4946708 Score: 255
Period size: 80 Copynumber: 1.9 Consensus size: 79
4946549 CCAAAAATTG
* *
4946559 ATTTGATCACAGCCTTCTACTACTTGCGTCCCAGTTAGCATTGATATTGGTACAACTTTTTGAGA
1 ATTTGATCACAGCCTTCAACTACTTGCGTCCCACTTAGCATTGATATTGGTACAAC-TTTTGAGA
4946624 TTAAAAGTTGTGTTA
65 TTAAAAGTTGTGTTA
* *
4946639 ATTTGATCACAGCCTTCAACTACTTGCGTCCCACTTAGTATTGATTTTGGTACAACTTTTGAGAT
1 ATTTGATCACAGCCTTCAACTACTTGCGTCCCACTTAGCATTGATATTGGTACAACTTTTGAGAT
4946704 TAAAA
66 TAAAA
4946709 CAATGCTAAA
Statistics
Matches: 66, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
79 14 0.21
80 52 0.79
ACGTcount: A:0.27, C:0.19, G:0.16, T:0.38
Consensus pattern (79 bp):
ATTTGATCACAGCCTTCAACTACTTGCGTCCCACTTAGCATTGATATTGGTACAACTTTTGAGAT
TAAAAGTTGTGTTA
Found at i:4951992 original size:21 final size:21
Alignment explanation
Indices: 4951963--4952003 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
4951953 CGATTATGCA
4951963 AAAAAATTTAC-TGTTTTTTTT
1 AAAAAATTT-CTTGTTTTTTTT
*
4951984 AAAAGATTTCTTGTTTTTTT
1 AAAAAATTTCTTGTTTTTTT
4952004 CACTATTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.29, C:0.05, G:0.07, T:0.59
Consensus pattern (21 bp):
AAAAAATTTCTTGTTTTTTTT
Found at i:4964061 original size:14 final size:15
Alignment explanation
Indices: 4964042--4964070 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
4964032 AGGTAGTTCT
4964042 TATATAAA-TAAAAA
1 TATATAAACTAAAAA
4964056 TATATAAACTAAAAA
1 TATATAAACTAAAAA
4964071 AAAAAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (15 bp):
TATATAAACTAAAAA
Found at i:4965420 original size:17 final size:17
Alignment explanation
Indices: 4965343--4965455 Score: 91
Period size: 17 Copynumber: 6.8 Consensus size: 17
4965333 CTTACTTTTT
4965343 AATAAAAATACTTTTGAG
1 AATAAAAATACTTTT-AG
*
4965361 AA-AAAAATA-TTACTA-
1 AATAAAAATACTT-TTAG
*
4965376 AAT-AAAATACTTTTAA
1 AATAAAAATACTTTTAG
4965392 AATTTTTAAAAATACTTTTAG
1 AA----TAAAAATACTTTTAG
4965413 AATAAAAATAC-TTT--
1 AATAAAAATACTTTTAG
4965427 --TAAAAATACTTTTAG
1 AATAAAAATACTTTTAG
4965442 AATAAAAATACTTT
1 AATAAAAATACTTT
4965456 GCAAAAATAT
Statistics
Matches: 78, Mismatches: 3, Indels: 29
0.71 0.03 0.26
Matches are distributed among these distances:
12 9 0.12
13 3 0.04
15 10 0.13
16 10 0.13
17 29 0.37
18 2 0.03
20 1 0.01
21 14 0.18
ACGTcount: A:0.53, C:0.06, G:0.04, T:0.37
Consensus pattern (17 bp):
AATAAAAATACTTTTAG
Found at i:4965430 original size:12 final size:12
Alignment explanation
Indices: 4965379--4965440 Score: 58
Period size: 12 Copynumber: 5.0 Consensus size: 12
4965369 ATTACTAAAT
4965379 AAAATACTTTT-
1 AAAATACTTTTA
4965390 AAAAT--TTTTA
1 AAAATACTTTTA
4965400 AAAATACTTTTAGAATA
1 AAAATAC-TTT----TA
4965417 AAAATACTTTTA
1 AAAATACTTTTA
4965429 AAAATACTTTTA
1 AAAATACTTTTA
4965441 GAATAAAAAT
Statistics
Matches: 43, Mismatches: 0, Indels: 15
0.74 0.00 0.26
Matches are distributed among these distances:
9 4 0.09
10 5 0.12
11 5 0.12
12 14 0.33
13 3 0.07
16 3 0.07
17 9 0.21
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.42
Consensus pattern (12 bp):
AAAATACTTTTA
Found at i:4965431 original size:29 final size:29
Alignment explanation
Indices: 4965395--4965469 Score: 123
Period size: 29 Copynumber: 2.6 Consensus size: 29
4965385 CTTTTAAAAT
4965395 TTTTAAAAATACTTTTAGAATAAAAATAC
1 TTTTAAAAATACTTTTAGAATAAAAATAC
4965424 TTTTAAAAATACTTTTAGAATAAAAATAC
1 TTTTAAAAATACTTTTAGAATAAAAATAC
* *
4965453 TTTGCAAAAATATTTTT
1 TTT-TAAAAATACTTTT
4965470 TCGACCAAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
29 32 0.74
30 11 0.26
ACGTcount: A:0.48, C:0.07, G:0.04, T:0.41
Consensus pattern (29 bp):
TTTTAAAAATACTTTTAGAATAAAAATAC
Found at i:4967179 original size:13 final size:13
Alignment explanation
Indices: 4967144--4967169 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4967134 GTTTTAAGCA
4967144 ATTTAATTTTTTT
1 ATTTAATTTTTTT
4967157 ATTTAATTTTTTT
1 ATTTAATTTTTTT
4967170 TAATTTTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (13 bp):
ATTTAATTTTTTT
Found at i:4975044 original size:17 final size:16
Alignment explanation
Indices: 4975022--4975055 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
4975012 CCGGAAATAA
4975022 TTTAATCTTAAAATGAT
1 TTTAAT-TTAAAATGAT
*
4975039 TTTAATTTAATATGAT
1 TTTAATTTAAAATGAT
4975055 T
1 T
4975056 ATCTCAAAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.38, C:0.03, G:0.06, T:0.53
Consensus pattern (16 bp):
TTTAATTTAAAATGAT
Found at i:4978809 original size:8 final size:8
Alignment explanation
Indices: 4978798--4978829 Score: 64
Period size: 8 Copynumber: 4.0 Consensus size: 8
4978788 TACCTTTACT
4978798 ATTTTAAA
1 ATTTTAAA
4978806 ATTTTAAA
1 ATTTTAAA
4978814 ATTTTAAA
1 ATTTTAAA
4978822 ATTTTAAA
1 ATTTTAAA
4978830 GGGCCTAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (8 bp):
ATTTTAAA
Found at i:4980053 original size:57 final size:56
Alignment explanation
Indices: 4979918--4980068 Score: 178
Period size: 57 Copynumber: 2.7 Consensus size: 56
4979908 ATTACGTAGG
* * * *
4979918 AATCAAATTGCTAAAAGATAATATCTCATAATAATATCGTATAATATCATATTAGG
1 AATCAAATTGCTAAAAGATAATATCACATAATAATATCGTATAACATCATAATAGA
* * * * * *
4979974 AATTAAATTGTTAAAAAAATAATATCCCATTATAATATCTTATAACATCCCATAAT-GA
1 AATCAAATTGCT-AAAAGATAATATCACATAATAATATCGTATAACAT--CATAATAGA
4980032 AATCAAATTGCTAAAAGATAATATCACATAATAATAT
1 AATCAAATTGCTAAAAGATAATATCACATAATAATAT
4980069 ATTTTATCAT
Statistics
Matches: 78, Mismatches: 14, Indels: 5
0.80 0.14 0.05
Matches are distributed among these distances:
56 10 0.13
57 52 0.67
58 11 0.14
59 5 0.06
ACGTcount: A:0.49, C:0.12, G:0.06, T:0.33
Consensus pattern (56 bp):
AATCAAATTGCTAAAAGATAATATCACATAATAATATCGTATAACATCATAATAGA
Found at i:4980647 original size:23 final size:21
Alignment explanation
Indices: 4980568--4980647 Score: 52
Period size: 21 Copynumber: 3.7 Consensus size: 21
4980558 TTCATTATTT
* *
4980568 TATTTTCATTCACTTTTAAAA
1 TATTTTAATTCAATTTTAAAA
* * ** * *
4980589 AATATTGCTTAAATTTTAAAG
1 TATTTTAATTCAATTTTAAAA
*
4980610 TATTTTAATTTAATTCTTAAAA
1 TATTTTAATTCAATT-TTAAAA
*
4980632 TATTTTTATATCAATT
1 TATTTTAAT-TCAATT
4980648 AAGTCCTTCC
Statistics
Matches: 42, Mismatches: 15, Indels: 2
0.71 0.25 0.03
Matches are distributed among these distances:
21 24 0.57
22 13 0.31
23 5 0.12
ACGTcount: A:0.38, C:0.07, G:0.03, T:0.53
Consensus pattern (21 bp):
TATTTTAATTCAATTTTAAAA
Found at i:4981243 original size:2 final size:2
Alignment explanation
Indices: 4981238--4981262 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4981228 TTTCCTTCCC
4981238 CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT C
4981263 GTTCCATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:4981723 original size:17 final size:18
Alignment explanation
Indices: 4981689--4981726 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
4981679 CTGGTTAGAG
* *
4981689 TTTTAGCCATCTTTTCTT
1 TTTTAACCATCTTCTCTT
4981707 TTTTAACCATC-TCTCTT
1 TTTTAACCATCTTCTCTT
4981724 TTT
1 TTT
4981727 GATTCTCCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.13, C:0.24, G:0.03, T:0.61
Consensus pattern (18 bp):
TTTTAACCATCTTCTCTT
Found at i:4985210 original size:166 final size:165
Alignment explanation
Indices: 4984886--4985194 Score: 426
Period size: 166 Copynumber: 1.9 Consensus size: 165
4984876 CGTACGCTTC
*
4984886 TTTTATAAACGATTTTTACTATTAGTTTATAAGTGTCATTATGAAAACAAAGTTGTTTTAGTACT
1 TTTTATAAACGATTTTTACTATTAGTTTATAAATGTCATTATGAAAACAAAGTTGTTTTAGTACT
* * *
4984951 AATAGCCAGGGTAATGACAATGTTATAAATATTTAGGTATGTTTTACTGTGATTTATTTTATTAT
66 AATAGCCAGGGTAATAACAATGTTATAAATATTTAGGTATATTTTACTATGATTTATTTTATTAT
***
4985016 AGCATGTTTATTATAATGGGAAAAAATATTTGATTG
131 A-CATGGAGATTATAATGGGAAAAAATATTTGATTG
* * * *
4985052 TTTTATAAATGGTTTTTACTATTAGTTTATAAATGTTATTATGAAAGCAAAGTTGTTTTAGTACT
1 TTTTATAAACGATTTTTACTATTAGTTTATAAATGTCATTATGAAAACAAAGTTGTTTTAGTACT
* * *
4985117 AATAG-CAGGGTGATAACGATGATGTTA-AAATCTTTAGGTATATTTTATTATGATTTATTTTAT
66 AATAGCCAGGGTAATAAC-A--ATGTTATAAATATTTAGGTATATTTTACTATGATTTATTTTAT
4985180 TATA-ATTGGAGATTA
128 TATACA-TGGAGATTA
4985195 ATCATGGCAA
Statistics
Matches: 125, Mismatches: 14, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
165 11 0.09
166 72 0.58
167 36 0.29
168 6 0.05
ACGTcount: A:0.34, C:0.05, G:0.16, T:0.45
Consensus pattern (165 bp):
TTTTATAAACGATTTTTACTATTAGTTTATAAATGTCATTATGAAAACAAAGTTGTTTTAGTACT
AATAGCCAGGGTAATAACAATGTTATAAATATTTAGGTATATTTTACTATGATTTATTTTATTAT
ACATGGAGATTATAATGGGAAAAAATATTTGATTG
Found at i:4987281 original size:38 final size:38
Alignment explanation
Indices: 4987230--4987307 Score: 156
Period size: 38 Copynumber: 2.1 Consensus size: 38
4987220 CTTTCCGAAC
4987230 CCTTAAATAGGAGGATAATACGCTTCAGAGCACTCGCA
1 CCTTAAATAGGAGGATAATACGCTTCAGAGCACTCGCA
4987268 CCTTAAATAGGAGGATAATACGCTTCAGAGCACTCGCA
1 CCTTAAATAGGAGGATAATACGCTTCAGAGCACTCGCA
4987306 CC
1 CC
4987308 CTCATCCTCC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.33, C:0.26, G:0.21, T:0.21
Consensus pattern (38 bp):
CCTTAAATAGGAGGATAATACGCTTCAGAGCACTCGCA
Found at i:4990132 original size:28 final size:30
Alignment explanation
Indices: 4990100--4990163 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 30
4990090 TAGCAAAACT
4990100 TTAAAAAAAAAC-TT-AATAGCTT-AGTAAC
1 TTAAAAAAAAACTTTGAATAG-TTCAGTAAC
*
4990128 TTAAATAAAAACTTTTGAATAGTTCAGTAAC
1 TTAAAAAAAAAC-TTTGAATAGTTCAGTAAC
4990159 TTAAA
1 TTAAA
4990164 TGAAAACTAG
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
28 11 0.35
30 4 0.13
31 16 0.52
ACGTcount: A:0.50, C:0.09, G:0.08, T:0.33
Consensus pattern (30 bp):
TTAAAAAAAAACTTTGAATAGTTCAGTAAC
Found at i:5002152 original size:14 final size:15
Alignment explanation
Indices: 5002124--5002153 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
5002114 CACATATGAA
5002124 ACTTCTATGTATTTC
1 ACTTCTATGTATTTC
5002139 ACTTCTAT-TATTTC
1 ACTTCTATGTATTTC
5002153 A
1 A
5002154 TCCACATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.23, C:0.20, G:0.03, T:0.53
Consensus pattern (15 bp):
ACTTCTATGTATTTC
Found at i:5002893 original size:22 final size:21
Alignment explanation
Indices: 5002868--5002908 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
5002858 TGTTTACGAA
5002868 TATATAAATATTAATATAAAAT
1 TATATAAATATTAAT-TAAAAT
**
5002890 TATATATTTATTAATTAAA
1 TATATAAATATTAATTAAA
5002909 GGCTTAATTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
TATATAAATATTAATTAAAAT
Found at i:5002929 original size:23 final size:23
Alignment explanation
Indices: 5002897--5002949 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
5002887 AATTATATAT
* **
5002897 TTATTAATTAAAGGCTTAATTGA
1 TTATTTATTAAAAACTTAATTGA
*
5002920 TTATTTATTAAAAATTTAATTGA
1 TTATTTATTAAAAACTTAATTGA
*
5002943 TTTTTTA
1 TTATTTA
5002950 ATTATTTTAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.38, C:0.02, G:0.08, T:0.53
Consensus pattern (23 bp):
TTATTTATTAAAAACTTAATTGA
Found at i:5004989 original size:24 final size:24
Alignment explanation
Indices: 5004962--5005024 Score: 90
Period size: 24 Copynumber: 2.6 Consensus size: 24
5004952 TGATTAATTG
5004962 CTCTTCGGAGCTACCCGTTAACTA
1 CTCTTCGGAGCTACCCGTTAACTA
* *
5004986 CTCTTCGGAGCTACCCGTTAATTG
1 CTCTTCGGAGCTACCCGTTAACTA
* *
5005010 CTATCCGGAGCTACC
1 CTCTTCGGAGCTACC
5005025 AGATATAGGC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.19, C:0.33, G:0.19, T:0.29
Consensus pattern (24 bp):
CTCTTCGGAGCTACCCGTTAACTA
Found at i:5006342 original size:8 final size:8
Alignment explanation
Indices: 5006326--5006394 Score: 54
Period size: 9 Copynumber: 8.4 Consensus size: 8
5006316 TTAAGCTATT
5006326 ATATAATA
1 ATATAATA
*
5006334 ATATGATA
1 ATATAATA
*
5006342 AGTAGCAATA
1 A-TA-TAATA
5006352 ATATAAGT-
1 ATATAA-TA
5006360 A-ATAATA
1 ATATAATA
5006367 ATAATAATA
1 AT-ATAATA
5006376 ATAGTAATA
1 ATA-TAATA
5006385 ATA-AATA
1 ATATAATA
5006392 ATA
1 ATA
5006395 AAAGATGATA
Statistics
Matches: 50, Mismatches: 4, Indels: 15
0.72 0.06 0.22
Matches are distributed among these distances:
6 1 0.02
7 12 0.24
8 12 0.24
9 21 0.42
10 4 0.08
ACGTcount: A:0.59, C:0.01, G:0.07, T:0.32
Consensus pattern (8 bp):
ATATAATA
Found at i:5006354 original size:3 final size:3
Alignment explanation
Indices: 5006348--5006395 Score: 62
Period size: 3 Copynumber: 15.7 Consensus size: 3
5006338 GATAAGTAGC
*
5006348 AAT AAT -AT AAGT AAT AAT AAT AAT AAT AAT AGT AAT AAT AAAT AAT
1 AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT
5006394 AA
1 AA
5006396 AAGATGATAA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
2 2 0.05
3 32 0.80
4 6 0.15
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (3 bp):
AAT
Done.