Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 47 of 328
Found at i:13677393 original size:27 final size:27
Alignment explanation
Indices: 13677355--13677414 Score: 93
Period size: 27 Copynumber: 2.2 Consensus size: 27
13677345 GCTGCTTATT
13677355 GATAGGGGTCACCAGTGCCGCCTATCA
1 GATAGGGGTCACCAGTGCCGCCTATCA
* * *
13677382 GATAGGGGTCACCGGTGTCGCCTATTA
1 GATAGGGGTCACCAGTGCCGCCTATCA
13677409 GATAGG
1 GATAGG
13677415 CACCATACCC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.22, C:0.23, G:0.33, T:0.22
Consensus pattern (27 bp):
GATAGGGGTCACCAGTGCCGCCTATCA
Found at i:13677672 original size:17 final size:19
Alignment explanation
Indices: 13677645--13677682 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
13677635 AATTTATATA
13677645 TATTGTGAAATAAT-TTTT
1 TATTGTGAAATAATGTTTT
13677663 TATT-TGAAATAATGTTTT
1 TATTGTGAAATAATGTTTT
13677681 TA
1 TA
13677683 ATTAATTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.34, C:0.00, G:0.11, T:0.55
Consensus pattern (19 bp):
TATTGTGAAATAATGTTTT
Found at i:13678090 original size:17 final size:17
Alignment explanation
Indices: 13678064--13678101 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
13678054 GGGTGGAAAT
*
13678064 TAAATTATTTGTG-ACAA
1 TAAATCATTT-TGAACAA
13678081 TAAATCATTTTGAACAA
1 TAAATCATTTTGAACAA
13678098 TAAA
1 TAAA
13678102 AGATAGTGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 2 0.11
17 17 0.89
ACGTcount: A:0.47, C:0.08, G:0.08, T:0.37
Consensus pattern (17 bp):
TAAATCATTTTGAACAA
Found at i:13678270 original size:22 final size:20
Alignment explanation
Indices: 13678240--13678279 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
13678230 CACCTTTTTT
13678240 TTTTAATTTTATATATTTTAA
1 TTTTAATTTTATAT-TTTTAA
13678261 TTTTATATTTTATATTTTT
1 TTTTA-ATTTTATATTTTT
13678280 CATAATTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (20 bp):
TTTTAATTTTATATTTTTAA
Found at i:13678279 original size:15 final size:14
Alignment explanation
Indices: 13678240--13678296 Score: 62
Period size: 15 Copynumber: 3.9 Consensus size: 14
13678230 CACCTTTTTT
13678240 TTTTAATTTTATATA
1 TTTTAATTTT-TATA
13678255 TTTTAA-TTTTATA
1 TTTTAATTTTTATA
13678268 TTTTATATTTTTCATA
1 TTTTA-ATTTTT-ATA
* *
13678284 ATTTATTTTTTAT
1 TTTTAATTTTTAT
13678297 TTCATAAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
13 9 0.24
14 6 0.16
15 15 0.41
16 7 0.19
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (14 bp):
TTTTAATTTTTATA
Found at i:13681576 original size:14 final size:14
Alignment explanation
Indices: 13681531--13681578 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
13681521 TTAAATCATG
*
13681531 AAAACTATAAAATA
1 AAAAATATAAAATA
**
13681545 TAAAAATATAAAGCA
1 -AAAAATATAAAATA
*
13681560 AAATATATAAAATA
1 AAAAATATAAAATA
13681574 AAAAA
1 AAAAA
13681579 AAATAAATGT
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
14 15 0.58
15 11 0.42
ACGTcount: A:0.73, C:0.04, G:0.02, T:0.21
Consensus pattern (14 bp):
AAAAATATAAAATA
Found at i:13682788 original size:27 final size:27
Alignment explanation
Indices: 13682739--13682791 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
13682729 TAACGAAAAT
* ** *
13682739 AATTTTAAAATATCACCATTAAAATTA
1 AATTTTAAAATATAAAAAATAAAATTA
13682766 AATTTTAAAATATAAAAAATAAAATT
1 AATTTTAAAATATAAAAAATAAAATT
13682792 TCTACAAAAC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.36
Consensus pattern (27 bp):
AATTTTAAAATATAAAAAATAAAATTA
Found at i:13683044 original size:23 final size:22
Alignment explanation
Indices: 13683014--13683056 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 22
13683004 AATTATTATA
13683014 CTTTTA-TTTTCAAGATTTTAGT
1 CTTTTATTTTTC-AGATTTTAGT
13683036 CTTTCTATTTTTCAGATTTTA
1 CTTT-TATTTTTCAGATTTTA
13683057 AAATTCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 4 0.21
23 10 0.53
24 5 0.26
ACGTcount: A:0.21, C:0.12, G:0.07, T:0.60
Consensus pattern (22 bp):
CTTTTATTTTTCAGATTTTAGT
Found at i:13683237 original size:14 final size:14
Alignment explanation
Indices: 13683220--13683261 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
13683210 TTATAGAACT
13683220 TAAATTTTGAAATC
1 TAAATTTTGAAATC
**
13683234 TAAAAGTTG-AAT-
1 TAAATTTTGAAATC
13683246 TAAATTTTGAAATC
1 TAAATTTTGAAATC
13683260 TA
1 TA
13683262 GATTAAATTT
Statistics
Matches: 22, Mismatches: 4, Indels: 4
0.73 0.13 0.13
Matches are distributed among these distances:
12 7 0.32
13 6 0.27
14 9 0.41
ACGTcount: A:0.45, C:0.05, G:0.10, T:0.40
Consensus pattern (14 bp):
TAAATTTTGAAATC
Found at i:13683291 original size:13 final size:12
Alignment explanation
Indices: 13683273--13683304 Score: 55
Period size: 13 Copynumber: 2.6 Consensus size: 12
13683263 ATTAAATTTT
13683273 TAAAAATAAAATA
1 TAAAAATAAAA-A
13683286 TAAAAATAAAAA
1 TAAAAATAAAAA
13683298 TAAAAAT
1 TAAAAAT
13683305 TTATTAAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 8 0.42
13 11 0.58
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (12 bp):
TAAAAATAAAAA
Found at i:13683294 original size:6 final size:6
Alignment explanation
Indices: 13683273--13683304 Score: 55
Period size: 6 Copynumber: 5.2 Consensus size: 6
13683263 ATTAAATTTT
13683273 TAAAAA TAAAATA TAAAAA TAAAAA TAAAAA T
1 TAAAAA TAAAA-A TAAAAA TAAAAA TAAAAA T
13683305 TTATTAAAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 19 0.76
7 6 0.24
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (6 bp):
TAAAAA
Found at i:13683840 original size:27 final size:29
Alignment explanation
Indices: 13683789--13683856 Score: 72
Period size: 29 Copynumber: 2.4 Consensus size: 29
13683779 TGCTTATACT
*
13683789 TAAATTTTTTAATATATTTCAAAAT-T-TTAA
1 TAAA-TTTTAAATATATTT-AAAATATATT-A
13683819 TAAATTTTAAATATATTT-AAATATATTA
1 TAAATTTTAAATATATTTAAAATATATTA
13683847 -AAATTTTAAA
1 TAAATTTTAAA
13683857 ATTTATTATA
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
27 14 0.40
28 2 0.06
29 15 0.43
30 4 0.11
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (29 bp):
TAAATTTTAAATATATTTAAAATATATTA
Found at i:13683855 original size:8 final size:8
Alignment explanation
Indices: 13683804--13683860 Score: 51
Period size: 8 Copynumber: 6.5 Consensus size: 8
13683794 TTTTTAATAT
*
13683804 ATTTCAAA
1 ATTTTAAA
13683812 ATTTTAATAA
1 ATTTT-A-AA
13683822 ATTTTAAA
1 ATTTTAAA
13683830 TATATTTAAA
1 -AT-TTTAAA
*
13683840 TATATTAAA
1 -ATTTTAAA
13683849 ATTTTAAA
1 ATTTTAAA
13683857 ATTT
1 ATTT
13683861 ATTATACTAA
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
8 17 0.40
9 9 0.21
10 16 0.38
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (8 bp):
ATTTTAAA
Found at i:13683908 original size:18 final size:18
Alignment explanation
Indices: 13683794--13683908 Score: 54
Period size: 18 Copynumber: 6.0 Consensus size: 18
13683784 ATACTTAAAT
* *
13683794 TTTTTAATATATTTCAAAA
1 TTTTAAATATA-TTAAAAA
* * *
13683813 TTTTAATAAATTTTAAATA
1 TTTTAA-ATATATTAAAAA
13683832 TATTTAAATATATT-AAAA
1 T-TTTAAATATATTAAAAA
*
13683850 TTTTAAAATTTATTATACTAAA
1 TTTT-AAATATATTA-A--AAA
* * *
13683872 TTTTTTAAGT-TTTTTAAAA
1 --TTTTAAATATATTAAAAA
13683891 TTTTAAATATATTAAAAA
1 TTTTAAATATATTAAAAA
13683909 ATATTTTTTT
Statistics
Matches: 71, Mismatches: 15, Indels: 21
0.66 0.14 0.20
Matches are distributed among these distances:
17 10 0.14
18 19 0.27
19 19 0.27
20 9 0.13
21 1 0.01
22 6 0.08
23 3 0.04
24 4 0.06
ACGTcount: A:0.46, C:0.02, G:0.01, T:0.51
Consensus pattern (18 bp):
TTTTAAATATATTAAAAA
Found at i:13683973 original size:13 final size:13
Alignment explanation
Indices: 13683955--13683980 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
13683945 TATATTAAAA
13683955 TTTTAAAAAATAT
1 TTTTAAAAAATAT
13683968 TTTTAAAAAATAT
1 TTTTAAAAAATAT
13683981 ATTGAATATA
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:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
TTTTAAAAAATAT
Found at i:13684042 original size:17 final size:17
Alignment explanation
Indices: 13684020--13684128 Score: 53
Period size: 17 Copynumber: 6.4 Consensus size: 17
13684010 TATACTTAAT
13684020 ATTTTTTAATATATTTA
1 ATTTTTTAATATATTTA
* *
13684037 ATTTTTTAAAAAATATTAA
1 ATTTTTT--AATATATTTA
** * * *
13684056 AAATATTAAAATATTAA
1 ATTTTTTAATATATTTA
** *
13684073 ATTGGTT-ATA-CT-TA
1 ATTTTTTAATATATTTA
*
13684087 ATATTTTAATATATTTA
1 ATTTTTTAATATATTTA
**
13684104 AAATTTTAATATATTTAA
1 ATTTTTTAATATATTT-A
13684122 ATTTTTT
1 ATTTTTT
13684129 TAAGTTTTTT
Statistics
Matches: 67, Mismatches: 19, Indels: 11
0.69 0.20 0.11
Matches are distributed among these distances:
14 5 0.07
15 4 0.06
16 3 0.04
17 37 0.55
18 6 0.09
19 12 0.18
ACGTcount: A:0.44, C:0.01, G:0.02, T:0.53
Consensus pattern (17 bp):
ATTTTTTAATATATTTA
Found at i:13684057 original size:9 final size:9
Alignment explanation
Indices: 13684045--13684073 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
13684035 TAATTTTTTA
13684045 AAAAATATT
1 AAAAATATT
13684054 AAAAATATT
1 AAAAATATT
13684063 -AAAATATT
1 AAAAATATT
13684071 AAA
1 AAA
13684074 TTGGTTATAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
8 8 0.42
9 11 0.58
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (9 bp):
AAAAATATT
Found at i:13684109 original size:69 final size:73
Alignment explanation
Indices: 13683961--13684110 Score: 213
Period size: 69 Copynumber: 2.1 Consensus size: 73
13683951 AAAATTTTAA
* * *
13683961 AAAATATTTTTAAAAAATATATTGAATATATTAAAATTTTAAAATTGGTTATACTTAATATTTTT
1 AAAAT-TTTTTAAAAAATATATTAAAAATATTAAAATATTAAAATTGGTTATACTTAATA-TTTT
13684026 TAATATATTT
64 TAATATATTT
13684036 --AATTTTTT-AAAAA-ATATTAAAAATATTAAAATATT-AAATTGGTTATACTTAATA-TTTTA
1 AAAATTTTTTAAAAAATATATTAAAAATATTAAAATATTAAAATTGGTTATACTTAATATTTTTA
13684095 ATATATTT
66 ATATATTT
13684103 AAAATTTT
1 AAAATTTT
13684111 AATATATTTA
Statistics
Matches: 70, Mismatches: 3, Indels: 10
0.84 0.04 0.12
Matches are distributed among these distances:
67 13 0.19
69 25 0.36
70 19 0.27
71 5 0.07
72 5 0.07
73 3 0.04
ACGTcount: A:0.47, C:0.01, G:0.03, T:0.49
Consensus pattern (73 bp):
AAAATTTTTTAAAAAATATATTAAAAATATTAAAATATTAAAATTGGTTATACTTAATATTTTTA
ATATATTT
Found at i:13684120 original size:9 final size:9
Alignment explanation
Indices: 13684079--13684121 Score: 54
Period size: 9 Copynumber: 5.0 Consensus size: 9
13684069 TTAAATTGGT
*
13684079 TATACTTAA
1 TATATTTAA
13684088 TAT-TTTAA
1 TATATTTAA
13684096 TATATTTAA
1 TATATTTAA
*
13684105 AAT-TTTAA
1 TATATTTAA
13684113 TATATTTAA
1 TATATTTAA
13684122 ATTTTTTTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
8 14 0.48
9 15 0.52
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (9 bp):
TATATTTAA
Found at i:13684144 original size:69 final size:69
Alignment explanation
Indices: 13683968--13684112 Score: 204
Period size: 67 Copynumber: 2.1 Consensus size: 69
13683958 TAAAAAATAT
* *
13683968 TTTTAAAAAATATATTGAATATATTAAAATTTTAAAATTGGTTATACTTAATATTTTTTAATATA
1 TTTT-AAAAA-ATATTAAAAATATTAAAATTTTAAAATTGGTTATACTTAATA-TTTTTAATATA
**
13684033 TTTAATT
63 TTTAAAA
*
13684040 TTTTAAAAAATATTAAAAATATTAAAATATT-AAATTGGTTATACTTAATA-TTTTAATATATTT
1 TTTTAAAAAATATTAAAAATATTAAAATTTTAAAATTGGTTATACTTAATATTTTTAATATATTT
13684103 AAAA
66 AAAA
13684107 TTTTAA
1 TTTTAA
13684113 TATATTTAAA
Statistics
Matches: 68, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
67 21 0.31
69 19 0.28
70 19 0.28
71 5 0.07
72 4 0.06
ACGTcount: A:0.46, C:0.01, G:0.03, T:0.49
Consensus pattern (69 bp):
TTTTAAAAAATATTAAAAATATTAAAATTTTAAAATTGGTTATACTTAATATTTTTAATATATTT
AAAA
Found at i:13684147 original size:8 final size:8
Alignment explanation
Indices: 13684084--13684126 Score: 52
Period size: 8 Copynumber: 5.2 Consensus size: 8
13684074 TTGGTTATAC
13684084 TTAATATT
1 TTAATATT
13684092 TTAATATAT
1 TTAATAT-T
*
13684101 TTAAAATT
1 TTAATATT
13684109 TTAATATAT
1 TTAATAT-T
13684118 TTAA-ATT
1 TTAATATT
13684125 TT
1 TT
13684127 TTTAAGTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
7 3 0.10
8 16 0.52
9 12 0.39
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (8 bp):
TTAATATT
Found at i:13687150 original size:11 final size:11
Alignment explanation
Indices: 13687129--13687176 Score: 51
Period size: 11 Copynumber: 4.4 Consensus size: 11
13687119 TAATAACATC
*
13687129 AAAATAGTAGT
1 AAAATAATAGT
*
13687140 AATATAATAGT
1 AAAATAATAGT
*
13687151 AAAATGATAGT
1 AAAATAATAGT
* *
13687162 AAAACAATAGC
1 AAAATAATAGT
13687173 AAAA
1 AAAA
13687177 CAACAACTTT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
11 30 1.00
ACGTcount: A:0.60, C:0.04, G:0.12, T:0.23
Consensus pattern (11 bp):
AAAATAATAGT
Found at i:13689199 original size:29 final size:30
Alignment explanation
Indices: 13689167--13689236 Score: 70
Period size: 31 Copynumber: 2.3 Consensus size: 30
13689157 AAATCAAAAT
*
13689167 TTCATGTATAAAATT-ATACAAAATCATAG
1 TTCATGTATAAAATTAATACAAAACCATAG
* * * **
13689196 TTCATATGTACAATTACATATTAAACCATAG
1 TTCATGTATAAAATTA-ATACAAAACCATAG
13689227 TTCATGTATA
1 TTCATGTATA
13689237 GTTTGGGATT
Statistics
Matches: 31, Mismatches: 8, Indels: 2
0.76 0.20 0.05
Matches are distributed among these distances:
29 12 0.39
31 19 0.61
ACGTcount: A:0.43, C:0.13, G:0.07, T:0.37
Consensus pattern (30 bp):
TTCATGTATAAAATTAATACAAAACCATAG
Found at i:13691257 original size:26 final size:24
Alignment explanation
Indices: 13691205--13691258 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
13691195 AAATATTTAC
**
13691205 ATAATATATACATATAAAATAGTA
1 ATAATATATACATATAAAATAAAA
*
13691229 ATAATATATATATATAACTAATAAAA
1 ATAATATATACATATAA--AATAAAA
13691255 ATAA
1 ATAA
13691259 AAAGAAAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 16 0.64
26 9 0.36
ACGTcount: A:0.61, C:0.04, G:0.02, T:0.33
Consensus pattern (24 bp):
ATAATATATACATATAAAATAAAA
Found at i:13691419 original size:26 final size:25
Alignment explanation
Indices: 13691390--13691444 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 25
13691380 AAATATGCAT
*
13691390 ACAATATTACAAA-ATATATATAACTA
1 ACAATATTA-AAATATATACATAAC-A
13691416 ACAATATTAAAATATATACATAACA
1 ACAATATTAAAATATATACATAACA
13691441 ACAA
1 ACAA
13691445 AAGTATGATA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
25 8 0.30
26 19 0.70
ACGTcount: A:0.60, C:0.13, G:0.00, T:0.27
Consensus pattern (25 bp):
ACAATATTAAAATATATACATAACA
Found at i:13693100 original size:3 final size:3
Alignment explanation
Indices: 13693092--13693237 Score: 156
Period size: 3 Copynumber: 49.7 Consensus size: 3
13693082 GAGAAAAATA
* * * * *
13693092 AAT AAT AAT GAT AAA AAT AAT AAT AAT GAC AAT AGT AA- AGA- AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT
* * * * * *
13693136 AAT AGT AAT AAT AAT GAT AAT AAT GAT AAT AA- AAA AAC AAT AGT -AT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
13693182 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
13693230 AAT AAT AA
1 AAT AAT AA
13693238 ATTGATGAAT
Statistics
Matches: 119, Mismatches: 20, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
2 5 0.04
3 114 0.96
ACGTcount: A:0.64, C:0.01, G:0.05, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:13696310 original size:2 final size:2
Alignment explanation
Indices: 13696303--13696334 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
13696293 AGACAAAATA
13696303 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13696335 TTATCTTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13700747 original size:29 final size:31
Alignment explanation
Indices: 13700705--13700785 Score: 130
Period size: 29 Copynumber: 2.7 Consensus size: 31
13700695 GGAGAGAAGA
13700705 TTTTTTTTTGAGATTCAAGAAGAGA-TTTT-
1 TTTTTTTTTGAGATTCAAGAAGAGATTTTTC
* *
13700734 TTTTTTTTTGAGATTCAAGAGGGGATTTTTC
1 TTTTTTTTTGAGATTCAAGAAGAGATTTTTC
13700765 TTTTTTTTTGAGATTCAAGAA
1 TTTTTTTTTGAGATTCAAGAA
13700786 CAAAAAATCA
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
29 23 0.49
30 4 0.09
31 20 0.43
ACGTcount: A:0.25, C:0.05, G:0.19, T:0.52
Consensus pattern (31 bp):
TTTTTTTTTGAGATTCAAGAAGAGATTTTTC
Found at i:13701250 original size:3 final size:3
Alignment explanation
Indices: 13701242--13701282 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
13701232 TGCATTTTAA
13701242 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
13701283 GTGTATATTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:13701519 original size:16 final size:15
Alignment explanation
Indices: 13701488--13701530 Score: 59
Period size: 16 Copynumber: 2.8 Consensus size: 15
13701478 CCTTCATTCC
*
13701488 ATTATTATTATTACT
1 ATTATTATTTTTACT
13701503 ATTATTATATTTTACT
1 ATTATTAT-TTTTACT
*
13701519 ATCATTATTTTT
1 ATTATTATTTTT
13701531 CATACGTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 12 0.48
16 13 0.52
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (15 bp):
ATTATTATTTTTACT
Found at i:13701655 original size:16 final size:16
Alignment explanation
Indices: 13701634--13701665 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
13701624 CTATTGTTAC
13701634 TGTTATTATCATCACT
1 TGTTATTATCATCACT
*
13701650 TGTTATTCTCATCACT
1 TGTTATTATCATCACT
13701666 ATTATTATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.22, C:0.22, G:0.06, T:0.50
Consensus pattern (16 bp):
TGTTATTATCATCACT
Found at i:13701673 original size:3 final size:3
Alignment explanation
Indices: 13701665--13701799 Score: 89
Period size: 3 Copynumber: 44.7 Consensus size: 3
13701655 TTCTCATCAC
* * * *
13701665 TAT TAT TAT AATT TAT CAT TGT TACT TAT TAT T-T TAC TAT TAT TAT
1 TAT TAT TAT TA-T TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT
* * * * * * *
13701711 CTAA TA- TAT CAT CAT TAT CAT TAT T-T TCAT TAT AACT TAA TA- GAT
1 -TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TA-T TAT TAT TAT
*
13701756 CAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
13701800 GCACTACTTT
Statistics
Matches: 104, Mismatches: 19, Indels: 18
0.74 0.13 0.13
Matches are distributed among these distances:
2 7 0.07
3 86 0.83
4 11 0.11
ACGTcount: A:0.34, C:0.07, G:0.01, T:0.57
Consensus pattern (3 bp):
TAT
Found at i:13701816 original size:9 final size:9
Alignment explanation
Indices: 13701757--13701822 Score: 51
Period size: 9 Copynumber: 7.3 Consensus size: 9
13701747 TTAATAGATC
*
13701757 ATTATTATT
1 ATTACTATT
*
13701766 ATTATTATT
1 ATTACTATT
*
13701775 ATTATTATT
1 ATTACTATT
*
13701784 ATTATTATT
1 ATTACTATT
* **
13701793 ATTATTAGC
1 ATTACTATT
* *
13701802 ACTACTTTT
1 ATTACTATT
13701811 ATTACTATT
1 ATTACTATT
13701820 ATT
1 ATT
13701823 TAATATATTA
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 48 1.00
ACGTcount: A:0.32, C:0.06, G:0.02, T:0.61
Consensus pattern (9 bp):
ATTACTATT
Found at i:13701921 original size:22 final size:22
Alignment explanation
Indices: 13701891--13701951 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 22
13701881 TTATTATATC
*
13701891 TTTTACTATTATTATTGTTGTA
1 TTTTACTATTATTATTGTTATA
* * *
13701913 TTTTTCTATTATTGTTATTATA
1 TTTTACTATTATTATTGTTATA
* *
13701935 TTTTCCT-TTATTTTTGT
1 TTTTACTATTATTATTGT
13701952 ATTTACTTAT
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 8 0.25
22 24 0.75
ACGTcount: A:0.18, C:0.07, G:0.07, T:0.69
Consensus pattern (22 bp):
TTTTACTATTATTATTGTTATA
Found at i:13714138 original size:205 final size:206
Alignment explanation
Indices: 13713786--13714575 Score: 1322
Period size: 205 Copynumber: 3.9 Consensus size: 206
13713776 GTAATAGGCC
* *
13713786 ACACATAGCAGATCTCGCCTTCAGACGATTTCA--CTGAAGCAGATCCAAGATGGTTTGGCATCC
1 ACACATAGCAGATCTCACCTTCAGATGATTT-ATGCTGAAGCAGATCCAAGATGGTTTGGCATCC
13713849 TTGTGTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCATGTGATTACGATGAAGCA
65 TTGTGTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCATGTGATTACGATGAAGCA
13713914 AATCTAAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTT
130 AATCTAAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTT
13713979 GATGGAGAGCAG
195 GATGGAGAGCAG
*
13713991 ACACATAGCAGATCTCACCTTCAGATG-TTTATGCTGAAGCGGATCCAAGATGGTTTGGCATCCT
1 ACACATAGCAGATCTCACCTTCAGATGATTTATGCTGAAGCAGATCCAAGATGGTTTGGCATCCT
13714055 TGTGTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCATGTGATTACGATGAAGCAA
66 TGTGTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCATGTGATTACGATGAAGCAA
13714120 ATCTAAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTG
131 ATCTAAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTG
13714185 ATGGAGAGCAG
196 ATGGAGAGCAG
*
13714196 ACACATAGCAGATCTCACCTTCAGATGATTT-CGCTGAAGCAGATCCAAGATGGTTTGGCATCCT
1 ACACATAGCAGATCTCACCTTCAGATGATTTATGCTGAAGCAGATCCAAGATGGTTTGGCATCCT
13714260 TGTGTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCATGTGATTACGATGAAGCAA
66 TGTGTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCATGTGATTACGATGAAGCAA
13714325 ATCTAAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTG
131 ATCTAAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTG
13714390 ATGGAGAGCAG
196 ATGGAGAGCAG
* * * *
13714401 ACACATAGCAGATCTCACCTTCGGATG-TTTATGCTGAAACGGATCCAAGATGGATTGGCATCCT
1 ACACATAGCAGATCTCACCTTCAGATGATTTATGCTGAAGCAGATCCAAGATGGTTTGGCATCCT
* * * * ** * * *
13714465 TATGCTTACAAGGAACAAATCGAA-TCATAGTTGATTTGGCTTTCGCGTGCTTACGTTAAAGCAA
66 TGTGTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCATGTGATTACGATGAAGCAA
* * * * * *
13714529 ATCTAAGATGATTTGGCATCTCTGTATTGTCAGGGATCAAATCGAAG
131 ATCTAAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAG
13714576 AAATAAATCT
Statistics
Matches: 556, Mismatches: 25, Indels: 9
0.94 0.04 0.02
Matches are distributed among these distances:
203 1 0.00
204 80 0.14
205 472 0.85
206 3 0.01
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (206 bp):
ACACATAGCAGATCTCACCTTCAGATGATTTATGCTGAAGCAGATCCAAGATGGTTTGGCATCCT
TGTGTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCATGTGATTACGATGAAGCAA
ATCTAAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTG
ATGGAGAGCAG
Found at i:13714707 original size:44 final size:43
Alignment explanation
Indices: 13714629--13714714 Score: 111
Period size: 44 Copynumber: 2.0 Consensus size: 43
13714619 GATTTCAGCA
* *
13714629 TGGCATCCCTGTGTTTATAAGGAGCAAGTTGAAGACAGCAGATT
1 TGGCATCCCTGTGTTTATAAGGAACAAGTCGAAGA-AGCAGATT
**
13714673 TGGCATCCCTGTGTTTATGGGGAAC-AGATCGAAGAAGCAGAT
1 TGGCATCCCTGTGTTTATAAGGAACAAG-TCGAAGAAGCAGAT
13714715 CAAGAACTCA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
43 9 0.24
44 28 0.76
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.26
Consensus pattern (43 bp):
TGGCATCCCTGTGTTTATAAGGAACAAGTCGAAGAAGCAGATT
Found at i:13714885 original size:1 final size:1
Alignment explanation
Indices: 13714879--13714918 Score: 80
Period size: 1 Copynumber: 40.0 Consensus size: 1
13714869 AACCCAACCC
13714879 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
13714919 CCTAATCTCA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 39 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:13715628 original size:3 final size:3
Alignment explanation
Indices: 13715620--13715680 Score: 113
Period size: 3 Copynumber: 20.0 Consensus size: 3
13715610 TCTGCATTTA
13715620 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
13715668 TAT TAT TAGT TAT
1 TAT TAT TA-T TAT
13715681 ATTTTATGTA
Statistics
Matches: 57, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
3 54 0.95
4 3 0.05
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:13715778 original size:3 final size:3
Alignment explanation
Indices: 13715765--13715799 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
13715755 TTTGTATTTC
13715765 TAT TA- TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
13715800 ATGGTAGTGT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 29 0.94
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:13716060 original size:16 final size:16
Alignment explanation
Indices: 13716039--13716069 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
13716029 CTATTGTTAC
13716039 TGTTATTATCATCACT
1 TGTTATTATCATCACT
*
13716055 TGTTATTCTCATCAC
1 TGTTATTATCATCAC
13716070 ACTATTATTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.23, C:0.23, G:0.06, T:0.48
Consensus pattern (16 bp):
TGTTATTATCATCACT
Found at i:13716185 original size:13 final size:13
Alignment explanation
Indices: 13716167--13716196 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
13716157 ATAGATCATC
13716167 ATTATATATTATT
1 ATTATATATTATT
13716180 ATTATATATTATT
1 ATTATATATTATT
13716193 ATTA
1 ATTA
13716197 GCACTACTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
ATTATATATTATT
Found at i:13716318 original size:22 final size:21
Alignment explanation
Indices: 13716288--13716347 Score: 59
Period size: 22 Copynumber: 2.8 Consensus size: 21
13716278 TTATTATATC
*
13716288 TTTTACTATTATTATTGTTGTA
1 TTTTACTATTATT-TTGTTATA
* *
13716310 TTTTTCTATTATTGTTATTATA
1 TTTTACTATTATT-TTGTTATA
*
13716332 TTTTCCT-TTATTTTGT
1 TTTTACTATTATTTTGT
13716348 ATTTACTTAT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
20 3 0.09
21 5 0.16
22 24 0.75
ACGTcount: A:0.18, C:0.07, G:0.07, T:0.68
Consensus pattern (21 bp):
TTTTACTATTATTTTGTTATA
Found at i:13716321 original size:19 final size:20
Alignment explanation
Indices: 13716297--13716351 Score: 62
Period size: 19 Copynumber: 2.8 Consensus size: 20
13716287 CTTTTACTAT
13716297 TATTATTGTTGTATTTTT-C
1 TATTATTGTTGTATTTTTCC
*
13716316 TATTATTGTTATTATATTTTCC
1 TATTATTGTT-GTAT-TTTTCC
13716338 T-TTATT-TTGTATTT
1 TATTATTGTTGTATTT
13716352 ACTTATACGT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
18 2 0.06
19 13 0.42
20 5 0.16
21 9 0.29
22 2 0.06
ACGTcount: A:0.18, C:0.05, G:0.07, T:0.69
Consensus pattern (20 bp):
TATTATTGTTGTATTTTTCC
Found at i:13720976 original size:205 final size:205
Alignment explanation
Indices: 13720624--13721616 Score: 1710
Period size: 205 Copynumber: 4.9 Consensus size: 205
13720614 GTAATAGGCC
* * *
13720624 ACACATAGCAGATCTCGCCTTCAGACGATTTCA--CTGAAGCAGATCCAAGATGGTTTGGCATCC
1 ACACATAGCAGATCTCACCTTCAGATG-TTT-ATGCTGAAGCGGATCCAAGATGGTTTGGCATCC
13720687 TTGTGTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCATGTGATTACGATGAAGCA
64 TTGTGTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCATGTGATTACGATGAAGCA
13720752 AATCTAAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTT
129 AATCTAAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTT
13720817 GATGGAGAGCAG
194 GATGGAGAGCAG
13720829 ACACATAGCAGATCTCACCTTCAGATGTTTATGCTGAAGCGGATCCAAGATGGTTTGGCATCCTT
1 ACACATAGCAGATCTCACCTTCAGATGTTTATGCTGAAGCGGATCCAAGATGGTTTGGCATCCTT
*
13720894 GTGTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCATGTGATTATGATGAAGCAAA
66 GTGTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCATGTGATTACGATGAAGCAAA
13720959 TCTAAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGA
131 TCTAAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGA
13721024 TGGAGAGCAG
196 TGGAGAGCAG
* *
13721034 ACACATAGCAGATCTCACCTTCAGATGATTT-CGCTGAAGCAGATCCAAGATGGTTTGGCATCCT
1 ACACATAGCAGATCTCACCTTCAGATG-TTTATGCTGAAGCGGATCCAAGATGGTTTGGCATCCT
13721098 TGTGTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCATGTGATTACGATGAAGCAA
65 TGTGTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCATGTGATTACGATGAAGCAA
13721163 ATCTAAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTG
130 ATCTAAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTG
13721228 ATGGAGAGCAG
195 ATGGAGAGCAG
13721239 ACACATAGCAGATCTCACCTTCAGATGTTTATGCTGAAGCGGATCCAAGATGGTTTGGCATCCTT
1 ACACATAGCAGATCTCACCTTCAGATGTTTATGCTGAAGCGGATCCAAGATGGTTTGGCATCCTT
13721304 GTGTTTACAAGGAACAAATCGAAG-CATAGCTGATTTGGCTTTCATGTGATTACGATGAAGCAAA
66 GTGTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCATGTGATTACGATGAAGCAAA
*
13721368 TCTAAGATGATTTGTCATCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGA
131 TCTAAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGA
13721433 TGGAGAGCAG
196 TGGAGAGCAG
* *
13721443 ACACATAGCAGATCTCACCTTCGGATGTTTATGCTGAA-CGGATCCAAGATGGATTGGCATCCTT
1 ACACATAGCAGATCTCACCTTCAGATGTTTATGCTGAAGCGGATCCAAGATGGTTTGGCATCCTT
* * * * ** * * *
13721507 ATGCTTACAAGGAACAAATCGAA-TCATAGTTGATTTGGCTTTCGCGTGCTTACGTTAAAGCAAA
66 GTGTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCATGTGATTACGATGAAGCAAA
* * * * *
13721571 TCTAAGATGATTTGGCATCTCTGTATTGTCAGAGATCAAATCGAAG
131 TCTAAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAG
13721617 AAATAAATCT
Statistics
Matches: 759, Mismatches: 24, Indels: 12
0.95 0.03 0.02
Matches are distributed among these distances:
203 123 0.16
204 157 0.21
205 476 0.63
206 3 0.00
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30
Consensus pattern (205 bp):
ACACATAGCAGATCTCACCTTCAGATGTTTATGCTGAAGCGGATCCAAGATGGTTTGGCATCCTT
GTGTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCATGTGATTACGATGAAGCAAA
TCTAAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGA
TGGAGAGCAG
Found at i:13728004 original size:205 final size:205
Alignment explanation
Indices: 13727652--13728441 Score: 1293
Period size: 205 Copynumber: 3.9 Consensus size: 205
13727642 GTAATAGGCC
* *
13727652 ACACATAGCAGATCTCGCCTTCAGACGATTTCACTGAAGCAGATCCAAGATGGTTTGGCATCCTT
1 ACACATAGCAGATCTCACCTTCAGATGATTTCACTGAAGCAGATCCAAGATGGTTTGGCATCCTT
13727717 GTGTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCATGTGATTACGATGAAGCAAA
66 GTGTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCATGTGATTACGATGAAGCAAA
13727782 TCTAAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGA
131 TCTAAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGA
13727847 TGGAGAGCAG
196 TGGAGAGCAG
*
13727857 ACACATAGCAGATCTCACCTTCAGATG-TTT-ATGCTGAAGCGGATCCAAGATGGTTTGGCATCC
1 ACACATAGCAGATCTCACCTTCAGATGATTTCA--CTGAAGCAGATCCAAGATGGTTTGGCATCC
13727920 TTGTGTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCATGTGATTACGATGAAGCA
64 TTGTGTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCATGTGATTACGATGAAGCA
13727985 AATCTAAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTT
129 AATCTAAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTT
13728050 GATGGAGAGCAG
194 GATGGAGAGCAG
13728062 ACACATAGCAGATCTCACCTTCAGATGATTTCACTGAAGCAGATCCAAGATGGTTTGGCATCCTT
1 ACACATAGCAGATCTCACCTTCAGATGATTTCACTGAAGCAGATCCAAGATGGTTTGGCATCCTT
13728127 GTGTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCATGTGATTACGATGAAGCAAA
66 GTGTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCATGTGATTACGATGAAGCAAA
*
13728192 TCTAAGATGATTTGTCGTCCCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGA
131 TCTAAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGA
13728257 TGGAGAGCAG
196 TGGAGAGCAG
* * * * *
13728267 ACACATAACAGATCTCACCTTCGGATG-TTT-ATGCTGAAACGGATCCAAGATGGATTGGCATCC
1 ACACATAGCAGATCTCACCTTCAGATGATTTCA--CTGAAGCAGATCCAAGATGGTTTGGCATCC
* * * * ** * * *
13728330 TTATGCTTACAAGGAACAAATCGAA-TCATAGTTGATTTGGCTTTCGCGTGCTTACGTTAAAGCA
64 TTGTGTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCATGTGATTACGATGAAGCA
* * * * * *
13728394 AATCTAAGATGATTTGGCATCTCTGTATTGTCAGGGATCAAATCGAAG
129 AATCTAAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAG
13728442 AAATAAATCT
Statistics
Matches: 553, Mismatches: 26, Indels: 13
0.93 0.04 0.02
Matches are distributed among these distances:
203 2 0.00
204 79 0.14
205 468 0.85
206 3 0.01
207 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (205 bp):
ACACATAGCAGATCTCACCTTCAGATGATTTCACTGAAGCAGATCCAAGATGGTTTGGCATCCTT
GTGTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCATGTGATTACGATGAAGCAAA
TCTAAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGA
TGGAGAGCAG
Found at i:13728573 original size:44 final size:43
Alignment explanation
Indices: 13728495--13728580 Score: 111
Period size: 44 Copynumber: 2.0 Consensus size: 43
13728485 GATTTCAGCA
* *
13728495 TGGCATCCCTGTGTTTATAAGGAGCAAGTTGAAGACAGCAGATT
1 TGGCATCCCTGTGTTTATAAGGAACAAGTCGAAGA-AGCAGATT
**
13728539 TGGCATCCCTGTGTTTATGGGGAAC-AGATCGAAGAAGCAGAT
1 TGGCATCCCTGTGTTTATAAGGAACAAG-TCGAAGAAGCAGAT
13728581 CAAGAACTCA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
43 9 0.24
44 28 0.76
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.26
Consensus pattern (43 bp):
TGGCATCCCTGTGTTTATAAGGAACAAGTCGAAGAAGCAGATT
Found at i:13728751 original size:1 final size:1
Alignment explanation
Indices: 13728745--13728781 Score: 74
Period size: 1 Copynumber: 37.0 Consensus size: 1
13728735 AACCCAACCC
13728745 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
13728782 CCTAATCTCA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 36 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:13729489 original size:3 final size:3
Alignment explanation
Indices: 13729481--13729530 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
13729471 TGCATTTTAA
13729481 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
13729529 TA
1 TA
13729531 GTGTATATTT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:13729632 original size:3 final size:3
Alignment explanation
Indices: 13729624--13729656 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
13729614 TGTATTTCTA
13729624 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
13729657 ATGGTAGTGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:13729782 original size:16 final size:15
Alignment explanation
Indices: 13729751--13729793 Score: 59
Period size: 16 Copynumber: 2.8 Consensus size: 15
13729741 CCTTCATTCC
*
13729751 ATTATTATTATTACT
1 ATTATTATTTTTACT
13729766 ATTATTATATTTTACT
1 ATTATTAT-TTTTACT
*
13729782 ATCATTATTTTT
1 ATTATTATTTTT
13729794 CATACGTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 12 0.48
16 13 0.52
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (15 bp):
ATTATTATTTTTACT
Found at i:13729918 original size:16 final size:16
Alignment explanation
Indices: 13729897--13729944 Score: 87
Period size: 16 Copynumber: 3.0 Consensus size: 16
13729887 CTATTGTTAC
*
13729897 TGTTATTATCATCACT
1 TGTTATTCTCATCACT
13729913 TGTTATTCTCATCACT
1 TGTTATTCTCATCACT
13729929 TGTTATTCTCATCACT
1 TGTTATTCTCATCACT
13729945 ATTATTATAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.21, C:0.23, G:0.06, T:0.50
Consensus pattern (16 bp):
TGTTATTCTCATCACT
Found at i:13730045 original size:3 final size:3
Alignment explanation
Indices: 13730039--13730072 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
13730029 ATAGATCATC
13730039 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
13730073 GCACTACTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:13730194 original size:22 final size:22
Alignment explanation
Indices: 13730164--13730224 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 22
13730154 TTATTATATC
*
13730164 TTTTACTATTATTATTGTTGTA
1 TTTTACTATTATTATTGTTATA
* * *
13730186 TTTTTCTATTATTGTTATTATA
1 TTTTACTATTATTATTGTTATA
* *
13730208 TTTTCCT-TTATTTTTGT
1 TTTTACTATTATTATTGT
13730225 ATTTACTTAT
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 8 0.25
22 24 0.75
ACGTcount: A:0.18, C:0.07, G:0.07, T:0.69
Consensus pattern (22 bp):
TTTTACTATTATTATTGTTATA
Found at i:13732882 original size:2 final size:2
Alignment explanation
Indices: 13732866--13732908 Score: 68
Period size: 2 Copynumber: 21.5 Consensus size: 2
13732856 GAAACCCTAG
* *
13732866 TA TA TA AA TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
13732908 T
1 T
13732909 CTCTTTTGTT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:13736346 original size:27 final size:27
Alignment explanation
Indices: 13736302--13736354 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
13736292 GAACTCTATT
*
13736302 TGTAAAATCACCGAAATACCCTTGTAG
1 TGTAAAATCACCGAAATACCCCTGTAG
* * *
13736329 TGTAAAATTACTGTAATACCCCTGTA
1 TGTAAAATCACCGAAATACCCCTGTA
13736355 TGGTAGAATG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.36, C:0.21, G:0.13, T:0.30
Consensus pattern (27 bp):
TGTAAAATCACCGAAATACCCCTGTAG
Found at i:13736997 original size:2 final size:2
Alignment explanation
Indices: 13736984--13737017 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
13736974 TATTAGCCGA
*
13736984 AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13737018 GAATACACAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:13737434 original size:40 final size:40
Alignment explanation
Indices: 13737363--13737548 Score: 234
Period size: 40 Copynumber: 4.7 Consensus size: 40
13737353 TTCTAACACA
* * * *
13737363 AGCCTACGGGTCTTCAA-CCCGGATACCATTCCAGCACGA-
1 AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCA-TAT
*
13737402 AGCCTGCGGGTCTTTATGCCCGGATACAATTCCAGCATAT
1 AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCATAT
* **
13737442 AGCCTGTGGGTCTTTAAGCTTGGATACAATTCCAGCATAT
1 AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCATAT
* *
13737482 AGCCTGCGGGTCTTTAAGCCCGGATACACTACCAGCATAT
1 AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCATAT
*
13737522 AGCCTGTGGGTCTTTATA-CCCGGATAC
1 AGCCTGCGGGTCTTTA-AGCCCGGATAC
13737549 CACATCAAAT
Statistics
Matches: 129, Mismatches: 15, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
39 15 0.12
40 113 0.88
41 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (40 bp):
AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCATAT
Found at i:13738177 original size:2 final size:2
Alignment explanation
Indices: 13738166--13738207 Score: 59
Period size: 2 Copynumber: 21.5 Consensus size: 2
13738156 TGAATTTAAC
* *
13738166 TA TA TA -A TA TA TA TA TA TA TA TA TA TA TA TG TA TA TG TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
13738207 T
1 T
13738208 CCGAATGTCT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (2 bp):
TA
Found at i:13745262 original size:40 final size:40
Alignment explanation
Indices: 13745179--13745353 Score: 264
Period size: 40 Copynumber: 4.4 Consensus size: 40
13745169 TTCTAGCGCA
* *
13745179 AGCCTACGGGTCTTTAA-CCCGGATACTATTCCAGCATGA-
1 AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCAT-AT
* * *
13745218 AGCCTGCGGGTCTTTATGCCAGGATACAATTCCAACATAT
1 AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCATAT
*
13745258 AGCCTGCGGGTCTTTAAGCTCGGATACAATTCCAGCATAT
1 AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCATAT
*
13745298 AGCCTGCGGGTCTTTAAGCCCGGATACACTTCCAGCATAT
1 AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCATAT
13745338 AGCCTGCGGGTCTTTA
1 AGCCTGCGGGTCTTTA
13745354 TACCATAATA
Statistics
Matches: 123, Mismatches: 11, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
39 16 0.13
40 107 0.87
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (40 bp):
AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCATAT
Found at i:13747683 original size:28 final size:28
Alignment explanation
Indices: 13747642--13747698 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
13747632 ACTAATTTTG
* *
13747642 TATTGGGCTTAGGCCCACCTGATTCTGT
1 TATTGGGCTAAGGCCCACCTGATACTGT
*
13747670 TATTGGGCTAAGGCCCATCTGATACTGT
1 TATTGGGCTAAGGCCCACCTGATACTGT
13747698 T
1 T
13747699 TTTGTGATCG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.18, C:0.23, G:0.25, T:0.35
Consensus pattern (28 bp):
TATTGGGCTAAGGCCCACCTGATACTGT
Found at i:13749236 original size:12 final size:13
Alignment explanation
Indices: 13749201--13749230 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
13749191 TTGGTTAATT
13749201 TAGGAATTTACTA
1 TAGGAATTTACTA
13749214 TAGGAATTTACTA
1 TAGGAATTTACTA
13749227 -AGGA
1 TAGGA
13749231 TGTTACACTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 4 0.24
13 13 0.76
ACGTcount: A:0.40, C:0.07, G:0.20, T:0.33
Consensus pattern (13 bp):
TAGGAATTTACTA
Found at i:13753523 original size:18 final size:18
Alignment explanation
Indices: 13753483--13753535 Score: 65
Period size: 18 Copynumber: 3.1 Consensus size: 18
13753473 CTGGCCGGAT
*
13753483 TCCCCTCCCT-TCTC-TC
1 TCCCTTCCCTCTCTCTTC
*
13753499 TCCCTTCTCTCTCTCTTC
1 TCCCTTCCCTCTCTCTTC
*
13753517 TCTCTTCCCTCTCTCTTC
1 TCCCTTCCCTCTCTCTTC
13753535 T
1 T
13753536 TTTTTTTTTC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
16 8 0.26
17 4 0.13
18 19 0.61
ACGTcount: A:0.00, C:0.53, G:0.00, T:0.47
Consensus pattern (18 bp):
TCCCTTCCCTCTCTCTTC
Found at i:13753534 original size:11 final size:11
Alignment explanation
Indices: 13753487--13753532 Score: 67
Period size: 11 Copynumber: 4.2 Consensus size: 11
13753477 CCGGATTCCC
13753487 CTCCCTTCTCT
1 CTCCCTTCTCT
13753498 CTCCCTTCTCT
1 CTCCCTTCTCT
*
13753509 CTCTCTTCTCT
1 CTCCCTTCTCT
13753520 CTTCCC-TCTCT
1 C-TCCCTTCTCT
13753531 CT
1 CT
13753533 TCTTTTTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
10 1 0.03
11 28 0.88
12 3 0.09
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (11 bp):
CTCCCTTCTCT
Found at i:13754032 original size:3 final size:3
Alignment explanation
Indices: 13754024--13754085 Score: 115
Period size: 3 Copynumber: 20.7 Consensus size: 3
13754014 AATATTATAT
13754024 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
13754072 TTA TTA TTG TTA TT
1 TTA TTA TTA TTA TT
13754086 GAAATACATT
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:13754197 original size:3 final size:3
Alignment explanation
Indices: 13754189--13754236 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
13754179 TGTGTTTCAA
13754189 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
13754237 ATATCCTTGT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:13754495 original size:32 final size:30
Alignment explanation
Indices: 13754452--13754523 Score: 99
Period size: 32 Copynumber: 2.3 Consensus size: 30
13754442 TAATATTATG
*
13754452 TATATATTTTAATATTATCAGTTATATATA
1 TATATATTTTAATACTATCAGTTATATATA
* *
13754482 CTATATGATTTTAATACTATTATTTATATATA
1 -TATAT-ATTTTAATACTATCAGTTATATATA
13754514 TATATATTTT
1 TATATATTTT
13754524 TCTTAGTACC
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
30 5 0.14
31 10 0.27
32 22 0.59
ACGTcount: A:0.38, C:0.04, G:0.03, T:0.56
Consensus pattern (30 bp):
TATATATTTTAATACTATCAGTTATATATA
Found at i:13766855 original size:14 final size:14
Alignment explanation
Indices: 13766836--13766864 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
13766826 CGCTGAGGTA
13766836 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
13766850 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
13766864 T
1 T
13766865 CGTCAAAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.14, G:0.07, T:0.66
Consensus pattern (14 bp):
TTTTCAATTTCTGT
Found at i:13766978 original size:78 final size:76
Alignment explanation
Indices: 13766869--13767464 Score: 493
Period size: 78 Copynumber: 7.5 Consensus size: 76
13766859 TCTGTTCGTC
13766869 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTT-AATTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGT-ATTTTCAATTTC
**
13766933 TGTTCATAAAAAAA
65 TGTTC-T-TTAAAA
* * *
13766947 AAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGCTCACGCGCTGAGGTATTTTCAATTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG--GACACGCTGAGGTATTTTCAATTT
**
13767012 CTGTT-TTTCAATTTCTGTTCGTC
64 CTGTTCTTT-AA----------AA
* * *
13767035 AAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAGCTCACGCGCTGAGGTA-TTTCAATTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG--GACACGCTGAGGTATTTTCAATTT
**
13767099 CTGTT-TTTCAATTTCTGTTCGTC
64 CTGTTCTTT-AA----------AA
* *
13767122 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT
*
13767187 G-T-TTT---C
66 GTTCTTTAAAA
** * *
13767193 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT
*
13767258 G-T-TTTCAAA
66 GTTCTTTAAAA
* *
13767267 AAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGAGGTATTTTCAATT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTATTTTCAATT
13767331 TCTG-TCTTTCAAAA
63 TCTGTTCTTT-AAAA
* *
13767345 AAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGAGGTATTTTCAATT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTATTTTCAATT
13767409 TCTG-TCTTTCAAAAAAA
63 TCTGTTCTTT----AAAA
* *
13767426 AAAATCAACTCATATTGCGAGAGGTGAATTGAGCTTCAG
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
13767465 ATCACACACT
Statistics
Matches: 462, Mismatches: 29, Indels: 50
0.85 0.05 0.09
Matches are distributed among these distances:
71 67 0.15
73 1 0.00
74 34 0.07
76 25 0.05
77 3 0.01
78 117 0.25
79 5 0.01
80 21 0.05
81 38 0.08
82 1 0.00
85 16 0.03
86 12 0.03
87 69 0.15
88 53 0.11
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33
Consensus pattern (76 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT
GTTCTTTAAAA
Found at i:13767021 original size:14 final size:14
Alignment explanation
Indices: 13767002--13767030 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
13766992 CGCTGAGGTA
13767002 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
13767016 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
13767030 T
1 T
13767031 CGTCAAAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.14, G:0.07, T:0.66
Consensus pattern (14 bp):
TTTTCAATTTCTGT
Found at i:13767057 original size:166 final size:166
Alignment explanation
Indices: 13766783--13767484 Score: 666
Period size: 166 Copynumber: 4.3 Consensus size: 166
13766773 TCTACCAAAG
* *
13766783 AATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGCTCACGCGCTGAGGTATTTTCAATTTCT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCTCACACGCTGAGGTATTTTCAATTTCT
13766848 GTTTTTCAATTTCTGTTCGTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
66 GTTTTTCAATTTCTGTT-GTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
13766913 GCTGAGGTAATTTT-AATTTCTGTTC-ATAAAAAAAAA
130 GCTGAGGT-ATTTTCAATTTCTGTTCAATAAAAAAAAA
* *
13766949 AATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGCTCACGCGCTGAGGTATTTTCAATTTCT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCTCACACGCTGAGGTATTTTCAATTTCT
* *
13767014 GTTTTTCAATTTCTGTTCGTCAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAGCTCAC
66 GTTTTTCAATTTCTGTT-GTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG--GAC
* *******
13767079 GCGCTGAGGTA-TTTCAATTTCTGTTTTTCAATTTCTGTTCGTCAA
128 ACGCTGAGGTATTTTCAATTTCTG---TTCAA----TAAAAAAAAA
13767124 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG---ACACGCTGAGG-----T-AA----
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGCTCACACGCTGAGGTATTTTCAATTTC
* ** *
13767176 ----TTTCAATTTCTGTTTTCAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACAC
65 TGTTTTTCAATTTCTGTTGTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
* **
13767237 GTTGAGGTATTTTCAATTTCTGTT---T--TCAAAAA
130 GCTGAGGTATTTTCAATTTCTGTTCAATAAAAAAAAA
* * * *
13767269 AATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCGGTTCACATGCTGAGGTATTTTCAATTTCT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCTCACACGCTGAGGTATTTTCAATTTCT
* ** *
13767334 GTCTTTCAA---------AAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCAC
66 GTTTTTCAATTTCTGTTGTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---AC
* **
13767389 ATGCTGAGGTATTTTCAATTTCTG-TCTTTCAAAAAAAAA
128 ACGCTGAGGTATTTTCAATTTCTGTTCAAT-AAAAAAAAA
* * * * *
13767428 AATCAACTCATATTGCGAGAGGTGAATTGAGCTTCAGATCACACACTGTGGTATTTT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCTCACACGCTGAGGTATTTT
13767485 TTCAATTTAT
Statistics
Matches: 451, Mismatches: 46, Indels: 85
0.77 0.08 0.15
Matches are distributed among these distances:
144 1 0.00
145 38 0.08
147 11 0.02
151 1 0.00
152 35 0.08
153 3 0.01
154 26 0.06
156 12 0.03
157 12 0.03
158 37 0.08
159 68 0.15
161 6 0.01
166 125 0.28
167 11 0.02
168 12 0.03
170 3 0.01
171 1 0.00
173 10 0.02
175 37 0.08
176 2 0.00
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (166 bp):
AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCTCACACGCTGAGGTATTTTCAATTTCT
GTTTTTCAATTTCTGTTGTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
CTGAGGTATTTTCAATTTCTGTTCAATAAAAAAAAA
Found at i:13767109 original size:14 final size:14
Alignment explanation
Indices: 13767090--13767117 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
13767080 CGCTGAGGTA
13767090 TTTCAATTTCTGTT
1 TTTCAATTTCTGTT
13767104 TTTCAATTTCTGTT
1 TTTCAATTTCTGTT
13767118 CGTCAAAATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.14, G:0.07, T:0.64
Consensus pattern (14 bp):
TTTCAATTTCTGTT
Found at i:13767137 original size:87 final size:87
Alignment explanation
Indices: 13766947--13767191 Score: 415
Period size: 87 Copynumber: 2.8 Consensus size: 87
13766937 CATAAAAAAA
*
13766947 AAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGCTCACGCGCTGAGGTATTTTCAATTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCTCACGCGCTGAGGTA-TTTCAATTT
13767012 CTGTTTTTCAATTTCTGTTCGTC
65 CTGTTTTTCAATTTCTGTTCGTC
*
13767035 AAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAGCTCACGCGCTGAGGTATTTCAATTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCTCACGCGCTGAGGTATTTCAATTTC
13767100 TGTTTTTCAATTTCTGTTCGTC
66 TGTTTTTCAATTTCTGTTCGTC
*
13767122 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG---ACACGCTGAGGTAATTTCAATT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGCTCACGCGCTGAGGT-ATTTCAATT
13767184 TCTGTTTT
64 TCTGTTTT
13767192 CAAAATCAAC
Statistics
Matches: 151, Mismatches: 4, Indels: 6
0.94 0.02 0.04
Matches are distributed among these distances:
85 11 0.07
86 17 0.11
87 68 0.45
88 55 0.36
ACGTcount: A:0.25, C:0.19, G:0.20, T:0.35
Consensus pattern (87 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCTCACGCGCTGAGGTATTTCAATTTC
TGTTTTTCAATTTCTGTTCGTC
Found at i:13767562 original size:53 final size:53
Alignment explanation
Indices: 13767493--13767796 Score: 200
Period size: 53 Copynumber: 5.4 Consensus size: 53
13767483 TTTTCAATTT
*
13767493 ATATTGCGAGAGGTGAGTTAAGCCTTTTTATTTTTGTTGTTCAAAATCAACTC
1 ATATTGCGAGAAGTGAGTTAAGCCTTTTTATTTTTGTTGTTCAAAATCAACTC
* ** * * ** **
13767546 ATATTGCGAGAAGTGAGTTGAGCCTCGAGGCACGCTGAGGTATTTT-TAGTTTTAAATTGACTC
1 ATATTGCGAGAAGTGAGTTAAGCCT--------TTTTA--T-TTTTGTTGTTCAAAATCAACTC
*
13767609 ATATTGCGAGAGGTGAGTTAAGCCTTTTTATTTTTGTTGTTCAAAATCAACTC
1 ATATTGCGAGAAGTGAGTTAAGCCTTTTTATTTTTGTTGTTCAAAATCAACTC
* * * * ** **
13767662 ATATTGCGAGAAGTGAGTTGAGCCTCGGGGTACGCTGAGGTATTTT-TAGTTTTAAATTGACTC
1 ATATTGCGAGAAGTGAGTTAAGCCT-----T---TTTA--T-TTTTGTTGTTCAAAATCAACTC
*
13767725 ATATTGCGA-ACGGTGAGTTAAGCCTTTTTATTTTTGTTGTTCAAAATCAACTC
1 ATATTGCGAGA-AGTGAGTTAAGCCTTTTTATTTTTGTTGTTCAAAATCAACTC
13767778 ATATTGCGAGAAGTGAGTT
1 ATATTGCGAGAAGTGAGTT
13767797 GAGCTTCGGG
Statistics
Matches: 186, Mismatches: 39, Indels: 52
0.67 0.14 0.19
Matches are distributed among these distances:
52 8 0.04
53 88 0.47
54 1 0.01
55 4 0.02
58 2 0.01
61 4 0.02
62 1 0.01
63 70 0.38
64 8 0.04
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.38
Consensus pattern (53 bp):
ATATTGCGAGAAGTGAGTTAAGCCTTTTTATTTTTGTTGTTCAAAATCAACTC
Found at i:13767625 original size:63 final size:61
Alignment explanation
Indices: 13767542--13767749 Score: 188
Period size: 63 Copynumber: 3.5 Consensus size: 61
13767532 TTCAAAATCA
*
13767542 ACTCATATTGCGAGAAGTGAGTTGAGCCTCGAGGCACGCTGAGGTATTTTTAGTTTTAAATTG
1 ACTCATATTGCGAGAAGTGAGTTAAGCCTCG-GG-ACGCTGAGGTATTTTTAGTTTTAAATTG
* ** **
13767605 ACTCATATTGCGAGAGGTGAGTTAAGCCT--------T--TTTATTTTT-GTTGTTCAAAATCA
1 ACTCATATTGCGAGAAGTGAGTTAAGCCTCGGGACGCTGAGGTATTTTTAGTT-TT--AAATTG
*
13767658 ACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGTACGCTGAGGTATTTTTAGTTTTAAATTG
1 ACTCATATTGCGAGAAGTGAGTTAAGCCTC-GGG-ACGCTGAGGTATTTTTAGTTTTAAATTG
*
13767721 ACTCATATTGCGA-ACGGTGAGTTAAGCCT
1 ACTCATATTGCGAGA-AGTGAGTTAAGCCT
13767750 TTTTATTTTT
Statistics
Matches: 114, Mismatches: 14, Indels: 34
0.70 0.09 0.21
Matches are distributed among these distances:
50 3 0.03
51 9 0.08
53 32 0.28
62 1 0.01
63 57 0.50
65 9 0.08
66 3 0.03
ACGTcount: A:0.25, C:0.14, G:0.25, T:0.35
Consensus pattern (61 bp):
ACTCATATTGCGAGAAGTGAGTTAAGCCTCGGGACGCTGAGGTATTTTTAGTTTTAAATTG
Found at i:13767629 original size:116 final size:115
Alignment explanation
Indices: 13767493--13767816 Score: 587
Period size: 116 Copynumber: 2.8 Consensus size: 115
13767483 TTTTCAATTT
13767493 ATATTGCGAGAGGTGAGTTAAGCCTTTTTATTTTTGTTGTTCAAAATCAACTCATATTGCGAGAA
1 ATATTGCGAGAGGTGAGTTAAGCCTTTTTATTTTTGTTGTTCAAAATCAACTCATATTGCGAGAA
13767558 GTGAGTTGAGCCTCGAGGCACGCTGAGGTATTTTTAGTTTTAAATTGACTC
66 GTGAGTTGAGCCTCG-GGCACGCTGAGGTATTTTTAGTTTTAAATTGACTC
13767609 ATATTGCGAGAGGTGAGTTAAGCCTTTTTATTTTTGTTGTTCAAAATCAACTCATATTGCGAGAA
1 ATATTGCGAGAGGTGAGTTAAGCCTTTTTATTTTTGTTGTTCAAAATCAACTCATATTGCGAGAA
*
13767674 GTGAGTTGAGCCTCGGGGTACGCTGAGGTATTTTTAGTTTTAAATTGACTC
66 GTGAGTTGAGCCTC-GGGCACGCTGAGGTATTTTTAGTTTTAAATTGACTC
13767725 ATATTGCGA-ACGGTGAGTTAAGCCTTTTTATTTTTGTTGTTCAAAATCAACTCATATTGCGAGA
1 ATATTGCGAGA-GGTGAGTTAAGCCTTTTTATTTTTGTTGTTCAAAATCAACTCATATTGCGAGA
*
13767789 AGTGAGTTGAGCTTCGGGACACGCTGAG
65 AGTGAGTTGAGCCTCGGG-CACGCTGAG
13767817 TGAGTTGAGC
Statistics
Matches: 202, Mismatches: 3, Indels: 6
0.96 0.01 0.03
Matches are distributed among these distances:
115 4 0.02
116 197 0.98
117 1 0.00
ACGTcount: A:0.26, C:0.14, G:0.24, T:0.36
Consensus pattern (115 bp):
ATATTGCGAGAGGTGAGTTAAGCCTTTTTATTTTTGTTGTTCAAAATCAACTCATATTGCGAGAA
GTGAGTTGAGCCTCGGGCACGCTGAGGTATTTTTAGTTTTAAATTGACTC
Found at i:13768499 original size:42 final size:35
Alignment explanation
Indices: 13768416--13768497 Score: 139
Period size: 35 Copynumber: 2.4 Consensus size: 35
13768406 ACTTGCCTCT
13768416 TCCCACTCTCCCATGCTGTCTGCCACCAGCACCAC
1 TCCCACTCTCCCATGCTGTCTGCCACCAGCACCAC
13768451 TCCCACTCTCCCATGCTGTCTGCCACCAGCACCA-
1 TCCCACTCTCCCATGCTGTCTGCCACCAGCACCAC
* *
13768485 TCACACACTCCCA
1 TCCCACTCTCCCA
13768498 CTGCACCTGC
Statistics
Matches: 45, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
34 11 0.24
35 34 0.76
ACGTcount: A:0.20, C:0.51, G:0.10, T:0.20
Consensus pattern (35 bp):
TCCCACTCTCCCATGCTGTCTGCCACCAGCACCAC
Found at i:13769024 original size:11 final size:11
Alignment explanation
Indices: 13768977--13769022 Score: 74
Period size: 11 Copynumber: 4.2 Consensus size: 11
13768967 CCGGATTCCC
13768977 CTCCCTTCTCT
1 CTCCCTTCTCT
13768988 CTCCCTTCTCT
1 CTCCCTTCTCT
13768999 CTCCCTTCTCT
1 CTCCCTTCTCT
* *
13769010 CTTCCTCCTCT
1 CTCCCTTCTCT
13769021 CT
1 CT
13769023 TCTTTTTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
11 33 1.00
ACGTcount: A:0.00, C:0.54, G:0.00, T:0.46
Consensus pattern (11 bp):
CTCCCTTCTCT
Found at i:13769512 original size:3 final size:3
Alignment explanation
Indices: 13769504--13769561 Score: 107
Period size: 3 Copynumber: 19.3 Consensus size: 3
13769494 TGCATTTCAA
13769504 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
13769552 TAT TGT TAT T
1 TAT TAT TAT T
13769562 GAAATACATT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:13769673 original size:3 final size:3
Alignment explanation
Indices: 13769665--13769698 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
13769655 TGTGTTTCAA
*
13769665 TAT TAT TAT TAT TAT TAT TAT TAT TAT TGT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
13769699 GAAATACATT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:13769697 original size:137 final size:137
Alignment explanation
Indices: 13769528--13769836 Score: 584
Period size: 137 Copynumber: 2.2 Consensus size: 137
13769518 TTATTATTAT
13769528 TATTATTATTATTATTATTATTATTATTGTTATTGAAATACATTAGTGTATATCTTCATGTATG-
1 TATTATTATTATTATTATTATTATTATTGTTATTGAAATACATTAGTGTATATCTTCATGTATGA
13769592 TATATATATATATGTAGTAATGTTTCTATTACTTTATTTTAATATTTTTATTATAATGGCTTTTG
66 TATATATATATATGTAGTAATGTTTCTATTACTTTATTTTAATA-TTTTATTATAATGGCTTTTG
13769657 TGTTTCAA
130 TGTTTCAA
13769665 TATTATTATTATTATTATTATTATTATTGTTATTGAAATACATTAGTGTATATCTTCATGTATGT
1 TATTATTATTATTATTATTATTATTATTGTTATTGAAATACATTAGTGTATATCTTCATGTATG-
13769730 ATATATATATATATGTAGTAATGTTTCTATTACTTTATTTTAATATTTTATTATAATGGCTTTTG
65 ATATATATATATATGTAGTAATGTTTCTATTACTTTATTTTAATATTTTATTATAATGGCTTTTG
13769795 TGTTTCAA
130 TGTTTCAA
*
13769803 TATTATTATTATTATTATTATTATTATTATTATT
1 TATTATTATTATTATTATTATTATTATTGTTATT
13769837 ATTATATATC
Statistics
Matches: 169, Mismatches: 1, Indels: 3
0.98 0.01 0.02
Matches are distributed among these distances:
137 64 0.38
138 61 0.36
139 44 0.26
ACGTcount: A:0.30, C:0.05, G:0.08, T:0.57
Consensus pattern (137 bp):
TATTATTATTATTATTATTATTATTATTGTTATTGAAATACATTAGTGTATATCTTCATGTATGA
TATATATATATATGTAGTAATGTTTCTATTACTTTATTTTAATATTTTATTATAATGGCTTTTGT
GTTTCAA
Found at i:13769811 original size:3 final size:3
Alignment explanation
Indices: 13769803--13769841 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
13769793 TGTGTTTCAA
13769803 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
13769842 ATATCCTTGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:13769872 original size:137 final size:137
Alignment explanation
Indices: 13769525--13769840 Score: 530
Period size: 138 Copynumber: 2.3 Consensus size: 137
13769515 TTATTATTAT
*
13769525 TATTATTATTATTATTATTATTATTATTATTGTTATTGAAATACATTAGTGTATATCTTCATGTA
1 TATTATTATTATTATTATTATTATTATTATTATTATT--AATACATTAGTGTATATCTTCA-GTA
13769590 TGTATATATATATATGTAGTAATGTTTCTATTACTTTATTTTAATATTTTTATTATAATGGCTTT
63 TGTATATATATATATGTAGTAATGTTTCTATTACTTTATTTTAATATTTTTATTATAATGGCTTT
13769655 TGTGTTTCAA
128 TGTGTTTCAA
*
13769665 TATTATTATTATTATTATTATTATTATTGTTATTGA--AATACATTAGTGTATATCTTCATGTAT
1 TATTATTATTATTATTATTATTATTATTATTATT-ATTAATACATTAGTGTATATCTTCA-GTAT
13769728 GTATATATATATATATGTAGTAATGTTTCTATTACTTTATTTTAATA-TTTTATTATAATGGCTT
64 G--TATATATATATATGTAGTAATGTTTCTATTACTTTATTTTAATATTTTTATTATAATGGCTT
13769792 TTGTGTTTCAA
127 TTGTGTTTCAA
13769803 TATTATTATTATTATTATTATTATTATTATTATTATTA
1 TATTATTATTATTATTATTATTATTATTATTATTATTA
13769841 TATATCCTTG
Statistics
Matches: 168, Mismatches: 3, Indels: 11
0.92 0.02 0.06
Matches are distributed among these distances:
137 29 0.17
138 61 0.36
139 45 0.27
140 32 0.19
141 1 0.01
ACGTcount: A:0.31, C:0.04, G:0.08, T:0.57
Consensus pattern (137 bp):
TATTATTATTATTATTATTATTATTATTATTATTATTAATACATTAGTGTATATCTTCAGTATGT
ATATATATATATGTAGTAATGTTTCTATTACTTTATTTTAATATTTTTATTATAATGGCTTTTGT
GTTTCAA
Found at i:13770050 original size:22 final size:23
Alignment explanation
Indices: 13770022--13770076 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 23
13770012 AATTTTTTTA
13770022 ATATATATTATATGAATA-ATTT
1 ATATATATTATATGAATATATTT
* *
13770044 ATATATAATATTATGTATATATTT
1 ATATATATTA-TATGAATATATTT
13770068 -TA-ATATTAT
1 ATATATATTAT
13770077 CAGTTATATA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
21 1 0.04
22 14 0.50
23 9 0.32
24 4 0.14
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.53
Consensus pattern (23 bp):
ATATATATTATATGAATATATTT
Found at i:13770117 original size:33 final size:30
Alignment explanation
Indices: 13770059--13770128 Score: 86
Period size: 33 Copynumber: 2.2 Consensus size: 30
13770049 TAATATTATG
*
13770059 TATATATTTTAATATTATCAGTTATATATA
1 TATATATTTTAATACTATCAGTTATATATA
* *
13770089 CTATATGATTTCTAATACTATTATTTATATATA
1 -TATAT-ATTT-TAATACTATCAGTTATATATA
13770122 TATATAT
1 TATATAT
13770129 ATATTTTCTT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
31 7 0.21
32 9 0.26
33 18 0.53
ACGTcount: A:0.39, C:0.06, G:0.03, T:0.53
Consensus pattern (30 bp):
TATATATTTTAATACTATCAGTTATATATA
Found at i:13773572 original size:29 final size:27
Alignment explanation
Indices: 13773539--13773600 Score: 72
Period size: 28 Copynumber: 2.3 Consensus size: 27
13773529 ACTAATAAAT
13773539 GTACCAACTTGAAAAAAAAAGTAGTTTAG
1 GTACCAACTTGAAAAAAAAA-T-GTTTAG
**
13773568 GTACC-ACTTGTGAAAAAAATGTTTAG
1 GTACCAACTTGAAAAAAAAATGTTTAG
*
13773594 ATACCAA
1 GTACCAA
13773601 AATAAGAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
26 10 0.34
27 2 0.07
28 12 0.41
29 5 0.17
ACGTcount: A:0.45, C:0.13, G:0.16, T:0.26
Consensus pattern (27 bp):
GTACCAACTTGAAAAAAAAATGTTTAG
Found at i:13773978 original size:11 final size:9
Alignment explanation
Indices: 13773942--13774004 Score: 71
Period size: 9 Copynumber: 7.2 Consensus size: 9
13773932 ATTTTTTAAA
13773942 TATAATTTT
1 TATAATTTT
13773951 TATAATTTT
1 TATAATTTT
13773960 TATAATTTT
1 TATAATTTT
13773969 GTACTAA--TT
1 -TA-TAATTTT
*
13773978 T-TACTTTT
1 TATAATTTT
13773986 TATAATTTT
1 TATAATTTT
13773995 T-TAATTTT
1 TATAATTTT
13774003 TA
1 TA
13774005 AAAAATTAAT
Statistics
Matches: 46, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
6 2 0.04
8 12 0.26
9 27 0.59
10 2 0.04
11 3 0.07
ACGTcount: A:0.30, C:0.03, G:0.02, T:0.65
Consensus pattern (9 bp):
TATAATTTT
Found at i:13773996 original size:17 final size:17
Alignment explanation
Indices: 13773944--13774004 Score: 72
Period size: 17 Copynumber: 3.5 Consensus size: 17
13773934 TTTTTAAATA
13773944 TAATTTTTATAATTTTT
1 TAATTTTTATAATTTTT
13773961 ATAATTTTGTACTAA--TTT
1 -TAATTTT-TA-TAATTTTT
*
13773979 TACTTTTTATAATTTTT
1 TAATTTTTATAATTTTT
13773996 TAATTTTTA
1 TAATTTTTA
13774005 AAAAATTAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
15 3 0.08
16 2 0.05
17 17 0.46
18 10 0.27
19 2 0.05
20 3 0.08
ACGTcount: A:0.30, C:0.03, G:0.02, T:0.66
Consensus pattern (17 bp):
TAATTTTTATAATTTTT
Found at i:13775466 original size:18 final size:18
Alignment explanation
Indices: 13775443--13775487 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
13775433 TTGAAGATAT
13775443 CGATATTGATGATAGTGA
1 CGATATTGATGATAGTGA
*
13775461 CGATATTGATGCTAGTGA
1 CGATATTGATGATAGTGA
*
13775479 -GCTATTGAT
1 CGATATTGAT
13775488 TGTGACCTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 8 0.32
18 17 0.68
ACGTcount: A:0.29, C:0.09, G:0.27, T:0.36
Consensus pattern (18 bp):
CGATATTGATGATAGTGA
Found at i:13776476 original size:2 final size:2
Alignment explanation
Indices: 13776471--13776521 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
13776461 CTAGTGTGTG
13776471 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
13776513 TA TA TA TA T
1 TA TA TA TA T
13776522 TTTTCTCTTT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:13779424 original size:35 final size:34
Alignment explanation
Indices: 13779319--13779424 Score: 113
Period size: 35 Copynumber: 3.0 Consensus size: 34
13779309 AGAGTCAATT
* * *
13779319 AGATACAAATTTGGGCCTGAGCCCATCATATATAC
1 AGATACATATTTGGGCCTAAGCCCATC-TAAATAC
* * * * *
13779354 AGATGCATATTCGGGCCTAAGCCTATTTTAGATAC
1 AGATACATATTTGGGCCTAAGCCCA-TCTAAATAC
13779389 AGATACATATTTGGGCCTAAGCCCATCTCAAATAC
1 AGATACATATTTGGGCCTAAGCCCATCT-AAATAC
13779424 A
1 A
13779425 TATATAGATA
Statistics
Matches: 57, Mismatches: 12, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
34 2 0.04
35 54 0.95
36 1 0.02
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (34 bp):
AGATACATATTTGGGCCTAAGCCCATCTAAATAC
Found at i:13790714 original size:16 final size:17
Alignment explanation
Indices: 13790676--13790714 Score: 64
Period size: 16 Copynumber: 2.4 Consensus size: 17
13790666 TAAGTAAATA
13790676 ATATT-ATATTATAATT
1 ATATTAATATTATAATT
13790692 ATATTAATATTATAA-T
1 ATATTAATATTATAATT
13790708 ATATTAA
1 ATATTAA
13790715 GTGAATAAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 13 0.59
17 9 0.41
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
ATATTAATATTATAATT
Found at i:13792004 original size:19 final size:19
Alignment explanation
Indices: 13791977--13792015 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
13791967 TGGGTGTATA
13791977 CTCAACGTACGGTTTGTTT
1 CTCAACGTACGGTTTGTTT
*
13791996 CTCAGCGTACGGTTTGTTT
1 CTCAACGTACGGTTTGTTT
13792015 C
1 C
13792016 CGTGCGCAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.13, C:0.23, G:0.23, T:0.41
Consensus pattern (19 bp):
CTCAACGTACGGTTTGTTT
Found at i:13795793 original size:93 final size:93
Alignment explanation
Indices: 13795681--13795852 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
13795671 CGCCCATAAG
* *
13795681 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
13795746 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
13795774 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
13795839 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
13795853 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:13795849 original size:46 final size:46
Alignment explanation
Indices: 13795674--13795849 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
13795664 TGTAACCCGC
* * *
13795674 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
13795720 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
13795770 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
13795813 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
13795850 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:13800324 original size:22 final size:23
Alignment explanation
Indices: 13800272--13800329 Score: 66
Period size: 22 Copynumber: 2.6 Consensus size: 23
13800262 CGGTTTATTC
*
13800272 GCATACCTACTGGAAGTTCATCT
1 GCATATCTACTGGAAGTTCATCT
* *
13800295 ACAAATCTACTGG-AGATT-ATCT
1 GCATATCTACTGGAAG-TTCATCT
13800317 GCATATCTACTGG
1 GCATATCTACTGG
13800330 TGGTATATCT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
22 17 0.59
23 12 0.41
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.31
Consensus pattern (23 bp):
GCATATCTACTGGAAGTTCATCT
Found at i:13801456 original size:92 final size:93
Alignment explanation
Indices: 13801305--13801558 Score: 246
Period size: 92 Copynumber: 2.6 Consensus size: 93
13801295 AAATATTTCT
*
13801305 TTTAACATAACG--ATATATAAAAATATATATTTCCATTATATAATTACATATTTATTATTTTAT
1 TTTAACATAATGATATATATAAAAATATATATTT--ATTATATAATTACATA--T-TTA--TTAT
** *
13801368 TTATACAAATAATGGAAG-TATTAATAAAAAAAATATT
59 TTATACAAATAAAAG-AGTTATTAAT--AAAAAATATA
* * *
13801405 TTTAACATAATGATATATAT-AAAATGTATATTTATTATATAATTACATATTTATTATTTTTATA
1 TTTAACATAATGATATATATAAAAATATATATTTATTATATAATTACATATTTATTATTTATACA
**
13801469 AATAAAAGAGTTATTAATTTAAAATATA
66 AATAAAAGAGTTATTAATAAAAAATATA
* * * * *
13801497 TTTAACATAATGATTTATGTAAAAATATATATTTTGATTAAATAAGTACATGTTTATTATTT
1 TTTAACATAATGATATATATAAAAATATATA-TTT-ATTATATAATTACATATTTATTATTT
13801559 GTTTATATAA
Statistics
Matches: 133, Mismatches: 15, Indels: 17
0.81 0.09 0.10
Matches are distributed among these distances:
92 25 0.19
93 11 0.08
94 25 0.19
95 23 0.17
96 3 0.02
97 1 0.01
99 16 0.12
100 11 0.08
101 12 0.09
102 6 0.05
ACGTcount: A:0.46, C:0.04, G:0.05, T:0.45
Consensus pattern (93 bp):
TTTAACATAATGATATATATAAAAATATATATTTATTATATAATTACATATTTATTATTTATACA
AATAAAAGAGTTATTAATAAAAAATATA
Found at i:13801568 original size:27 final size:28
Alignment explanation
Indices: 13801529--13801582 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 28
13801519 AAATATATAT
* *
13801529 TTTGATTAAATAAGTACATG-TTTATTA
1 TTTGATTAAATAAATAAATGATTTATTA
* *
13801556 TTTGTTTATATAAATAAATGATTTATT
1 TTTGATTAAATAAATAAATGATTTATT
13801583 GTAACACCCC
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
27 16 0.73
28 6 0.27
ACGTcount: A:0.37, C:0.02, G:0.09, T:0.52
Consensus pattern (28 bp):
TTTGATTAAATAAATAAATGATTTATTA
Found at i:13803685 original size:46 final size:44
Alignment explanation
Indices: 13803581--13803688 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
13803571 TGTCTTTGAC
** * * *
13803581 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
13803625 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
13803671 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
13803689 TTTCGTTCTG
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:13811067 original size:46 final size:44
Alignment explanation
Indices: 13810963--13811070 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
13810953 TGTCTTTGAC
** * * *
13810963 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
13811007 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
13811053 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
13811071 TTTCGTTCTG
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:13817108 original size:32 final size:32
Alignment explanation
Indices: 13817053--13817226 Score: 165
Period size: 32 Copynumber: 5.3 Consensus size: 32
13817043 AAATGGCACA
* *
13817053 ACTTGAAAAGGTTATGTACACTTTGTGTGTAC
1 ACTTGAAAAGGTTAGGTATACTTTGTGTGTAC
*
13817085 ACTTGGAAAA-GTTAGGTATACTTTGTGTATAC
1 ACTT-GAAAAGGTTAGGTATACTTTGTGTGTAC
**
13817117 -CATATGAAAAGGAAAGGTATACTTTGTGTGTAC
1 AC-T-TGAAAAGGTTAGGTATACTTTGTGTGTAC
* *
13817150 ACTTGGAAAGGTTAGGTATACTTTGTGTATAC
1 ACTTGAAAAGGTTAGGTATACTTTGTGTGTAC
** * *
13817182 -CATATGAAAAGGAAATGTATACTTTGTGCGTACC
1 AC-T-TGAAAAGGTTAGGTATACTTTGTGTGTA-C
*
13817216 ACTTGGAAAGG
1 ACTTGAAAAGG
13817227 AATGTACACC
Statistics
Matches: 116, Mismatches: 17, Indels: 17
0.77 0.11 0.11
Matches are distributed among these distances:
31 2 0.02
32 55 0.47
33 55 0.47
34 3 0.03
35 1 0.01
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.33
Consensus pattern (32 bp):
ACTTGAAAAGGTTAGGTATACTTTGTGTGTAC
Found at i:13817125 original size:65 final size:65
Alignment explanation
Indices: 13817056--13817224 Score: 275
Period size: 65 Copynumber: 2.6 Consensus size: 65
13817046 TGGCACAACT
** *
13817056 TGAAAAGGTTATGTACACTTTGTGTGTACACTTGGAAAAGTTAGGTATACTTTGTGTATACCATA
1 TGAAAAGGAAATGTATACTTTGTGTGTACACTTGGAAAAGTTAGGTATACTTTGTGTATACCATA
* *
13817121 TGAAAAGGAAAGGTATACTTTGTGTGTACACTTGGAAAGGTTAGGTATACTTTGTGTATACCATA
1 TGAAAAGGAAATGTATACTTTGTGTGTACACTTGGAAAAGTTAGGTATACTTTGTGTATACCATA
*
13817186 TGAAAAGGAAATGTATACTTTGTGCGTACCACTTGGAAA
1 TGAAAAGGAAATGTATACTTTGTGTGTA-CACTTGGAAA
13817225 GGAATGTACA
Statistics
Matches: 96, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
65 86 0.90
66 10 0.10
ACGTcount: A:0.33, C:0.11, G:0.23, T:0.34
Consensus pattern (65 bp):
TGAAAAGGAAATGTATACTTTGTGTGTACACTTGGAAAAGTTAGGTATACTTTGTGTATACCATA
Found at i:13817227 original size:33 final size:33
Alignment explanation
Indices: 13817072--13817228 Score: 169
Period size: 33 Copynumber: 4.8 Consensus size: 33
13817062 GGTTATGTAC
* **
13817072 ACTTTGTGTGTA-CACTTGGAAAAGTTAGGTAT
1 ACTTTGTGTGTACCACTTGGAAAGGAAAGGTAT
* *
13817104 ACTTTGTGTATACCA-TATGAAAAGGAAAGGTAT
1 ACTTTGTGTGTACCACT-TGGAAAGGAAAGGTAT
**
13817137 ACTTTGTGTGTA-CACTTGGAAAGGTTAGGTAT
1 ACTTTGTGTGTACCACTTGGAAAGGAAAGGTAT
* * *
13817169 ACTTTGTGTATACCA-TATGAAAAGGAAATGTAT
1 ACTTTGTGTGTACCACT-TGGAAAGGAAAGGTAT
*
13817202 ACTTTGTGCGTACCACTTGGAAAGGAA
1 ACTTTGTGTGTACCACTTGGAAAGGAA
13817229 TGTACACCTC
Statistics
Matches: 102, Mismatches: 17, Indels: 11
0.78 0.13 0.08
Matches are distributed among these distances:
32 39 0.38
33 62 0.61
34 1 0.01
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.33
Consensus pattern (33 bp):
ACTTTGTGTGTACCACTTGGAAAGGAAAGGTAT
Found at i:13817256 original size:65 final size:65
Alignment explanation
Indices: 13817072--13817264 Score: 176
Period size: 65 Copynumber: 3.0 Consensus size: 65
13817062 GGTTATGTAC
* * * * ** * *
13817072 ACTTTGTGTGTACACTTGGAAAAGTTAGGTATACTTTGTGTATACCATATGAAAAGGAAAGGTAT
1 ACTTTGTGCGTACACTTGGAAAGGTAAGGTACACTGAGTGTATAACATAGGAAAAGGAAAGGTAT
* * * ** * * *
13817137 ACTTTGTGTGTACACTTGGAAAGGTTAGGTATACTTTGTGTATACCATATGAAAAGGAAATGTAT
1 ACTTTGTGCGTACACTTGGAAAGGTAAGGTACACTGAGTGTATAACATAGGAAAAGGAAAGGTAT
* *
13817202 ACTTTGTGCGTACCACTTGGAAAGG-AATGTACACCTCGAGTGTATAAC-T-GGAAAATGAAAGG
1 ACTTTGTGCGTA-CACTTGGAAAGGTAAGGTACA-CT-GAGTGTATAACATAGGAAAAGGAAAGG
13817264 T
63 T
13817265 CCGTCGGGAA
Statistics
Matches: 113, Mismatches: 12, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
65 90 0.80
66 15 0.13
67 8 0.07
ACGTcount: A:0.33, C:0.11, G:0.24, T:0.32
Consensus pattern (65 bp):
ACTTTGTGCGTACACTTGGAAAGGTAAGGTACACTGAGTGTATAACATAGGAAAAGGAAAGGTAT
Found at i:13824147 original size:33 final size:33
Alignment explanation
Indices: 13824105--13824171 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
13824095 TTCCGAAAGG
13824105 ATAATCTTTTGATCTCATTATGAAAAGGAATGT
1 ATAATCTTTTGATCTCATTATGAAAAGGAATGT
13824138 ATAATCTTTTGATCTCATTATGAAAAGGAATGT
1 ATAATCTTTTGATCTCATTATGAAAAGGAATGT
13824171 A
1 A
13824172 AACCGAAAGG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.37, C:0.09, G:0.15, T:0.39
Consensus pattern (33 bp):
ATAATCTTTTGATCTCATTATGAAAAGGAATGT
Found at i:13824252 original size:33 final size:33
Alignment explanation
Indices: 13824215--13824393 Score: 159
Period size: 33 Copynumber: 5.5 Consensus size: 33
13824205 TACCCAAATA
* * * *
13824215 GTACAACTTGAAAAGGTTATGTACACTTTGTGT
1 GTACCACTTGAAAAGGTAAGGTATACTTTGTGT
* * *
13824248 GTA-CATTTGGAAAGGTTAGGTATACTTTGTGT
1 GTACCACTTGAAAAGGTAAGGTATACTTTGTGT
* *
13824280 ATACCA-TATGAAAAGGAAAGGTATACTTTGTGT
1 GTACCACT-TGAAAAGGTAAGGTATACTTTGTGT
* * *
13824313 GGA-CACTTGGAAAGGTTAGGTATACTTTGTGT
1 GTACCACTTGAAAAGGTAAGGTATACTTTGTGT
* * * *
13824345 ATACCA-TATGAAAAGGAAATGTATATTTTGTGT
1 GTACCACT-TGAAAAGGTAAGGTATACTTTGTGT
*
13824378 GTACCACTTGGAAAGG
1 GTACCACTTGAAAAGG
13824394 AATGTACACC
Statistics
Matches: 117, Mismatches: 23, Indels: 12
0.77 0.15 0.08
Matches are distributed among these distances:
32 53 0.45
33 63 0.54
34 1 0.01
ACGTcount: A:0.32, C:0.09, G:0.25, T:0.34
Consensus pattern (33 bp):
GTACCACTTGAAAAGGTAAGGTATACTTTGTGT
Found at i:13824265 original size:32 final size:33
Alignment explanation
Indices: 13824239--13824393 Score: 161
Period size: 33 Copynumber: 4.8 Consensus size: 33
13824229 GGTTATGTAC
*
13824239 ACTTTGTGTGTA-CATTTGGAAAGGTTAGGTAT
1 ACTTTGTGTGTACCATTTGGAAAGGTAAGGTAT
* * * *
13824271 ACTTTGTGTATACCATATGAAAAGGAAAGGTAT
1 ACTTTGTGTGTACCATTTGGAAAGGTAAGGTAT
* * *
13824304 ACTTTGTGTGGA-CACTTGGAAAGGTTAGGTAT
1 ACTTTGTGTGTACCATTTGGAAAGGTAAGGTAT
* * * * *
13824336 ACTTTGTGTATACCATATGAAAAGGAAATGTAT
1 ACTTTGTGTGTACCATTTGGAAAGGTAAGGTAT
* *
13824369 ATTTTGTGTGTACCACTTGGAAAGG
1 ACTTTGTGTGTACCATTTGGAAAGG
13824394 AATGTACACC
Statistics
Matches: 96, Mismatches: 25, Indels: 3
0.77 0.20 0.02
Matches are distributed among these distances:
32 36 0.38
33 60 0.62
ACGTcount: A:0.31, C:0.09, G:0.25, T:0.35
Consensus pattern (33 bp):
ACTTTGTGTGTACCATTTGGAAAGGTAAGGTAT
Found at i:13824292 original size:65 final size:65
Alignment explanation
Indices: 13824223--13824393 Score: 270
Period size: 65 Copynumber: 2.6 Consensus size: 65
13824213 TAGTACAACT
** * *
13824223 TGAAAAGGTTATGTACACTTTGTGTGTACATTTGGAAAGGTTAGGTATACTTTGTGTATACCATA
1 TGAAAAGGAAATGTATACTTTGTGTGTACACTTGGAAAGGTTAGGTATACTTTGTGTATACCATA
* *
13824288 TGAAAAGGAAAGGTATACTTTGTGTGGACACTTGGAAAGGTTAGGTATACTTTGTGTATACCATA
1 TGAAAAGGAAATGTATACTTTGTGTGTACACTTGGAAAGGTTAGGTATACTTTGTGTATACCATA
*
13824353 TGAAAAGGAAATGTATATTTTGTGTGTACCACTTGGAAAGG
1 TGAAAAGGAAATGTATACTTTGTGTGTA-CACTTGGAAAGG
13824394 AATGTACACC
Statistics
Matches: 96, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
65 84 0.88
66 12 0.12
ACGTcount: A:0.32, C:0.09, G:0.25, T:0.35
Consensus pattern (65 bp):
TGAAAAGGAAATGTATACTTTGTGTGTACACTTGGAAAGGTTAGGTATACTTTGTGTATACCATA
Found at i:13825754 original size:35 final size:34
Alignment explanation
Indices: 13825686--13825778 Score: 123
Period size: 35 Copynumber: 2.6 Consensus size: 34
13825676 AAAACATTGA
13825686 TAATCCAATCGAAACACACCAGATGCTCATAAGAGC
1 TAATCC-ATCGAAACACACCA-ATGCTCATAAGAGC
* * *
13825722 TAATCCATCCGAAACAGACCAATGCTTATAAGAGT
1 TAATCCAT-CGAAACACACCAATGCTCATAAGAGC
13825757 TAATCCATTCGAAACACACCAA
1 TAATCCA-TCGAAACACACCAA
13825779 AACATAGAGT
Statistics
Matches: 51, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
35 33 0.65
36 18 0.35
ACGTcount: A:0.42, C:0.27, G:0.12, T:0.19
Consensus pattern (34 bp):
TAATCCATCGAAACACACCAATGCTCATAAGAGC
Found at i:13827161 original size:53 final size:52
Alignment explanation
Indices: 13827098--13827198 Score: 134
Period size: 53 Copynumber: 1.9 Consensus size: 52
13827088 AATAAAAGAG
* *
13827098 TTATTAATTAAAAA-TATGAATTAAAAAGAAAATAAAAT-AAATTGAAAAAAAAA
1 TTATTAATTAAAAACTA-AAAAT-AAAAGAAAATAAAATAAAATT-AAAAAAAAA
*
13827151 TTATTAATTAAAAACTAAAAATAAAATAAAATAAAATAAAATTAAAAA
1 TTATTAATTAAAAACTAAAAATAAAAGAAAATAAAATAAAATTAAAAA
13827199 TTTTATCACA
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
52 19 0.44
53 22 0.51
54 2 0.05
ACGTcount: A:0.69, C:0.01, G:0.03, T:0.27
Consensus pattern (52 bp):
TTATTAATTAAAAACTAAAAATAAAAGAAAATAAAATAAAATTAAAAAAAAA
Found at i:13827178 original size:5 final size:5
Alignment explanation
Indices: 13827168--13827197 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
13827158 TTAAAAACTA
13827168 AAAAT AAAAT AAAAT AAAAT AAAATT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAA-T AAAA
13827198 ATTTTATCAC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 19 0.79
6 5 0.21
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:13827188 original size:15 final size:16
Alignment explanation
Indices: 13827126--13827197 Score: 58
Period size: 16 Copynumber: 4.2 Consensus size: 16
13827116 AATTAAAAAG
13827126 AAAATAAAAT-AAATT
1 AAAATAAAATAAAATT
* *
13827141 GAAAAAAAAATTATTAATT
1 -AAAATAAAA-TA-AAATT
13827160 AAAAACTAAAAATAAAA-T
1 -AAAA-T-AAAATAAAATT
13827178 AAAATAAAATAAAATT
1 AAAATAAAATAAAATT
13827194 AAAA
1 AAAA
13827198 ATTTTATCAC
Statistics
Matches: 45, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
15 9 0.20
16 14 0.31
17 5 0.11
18 1 0.02
19 10 0.22
20 2 0.04
21 4 0.09
ACGTcount: A:0.74, C:0.01, G:0.01, T:0.24
Consensus pattern (16 bp):
AAAATAAAATAAAATT
Found at i:13829403 original size:8 final size:8
Alignment explanation
Indices: 13829390--13829416 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
13829380 ATTATATCTT
13829390 TTTATATC
1 TTTATATC
13829398 TTTATATC
1 TTTATATC
13829406 TTTATATC
1 TTTATATC
13829414 TTT
1 TTT
13829417 TTTTATTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.22, C:0.11, G:0.00, T:0.67
Consensus pattern (8 bp):
TTTATATC
Found at i:13830868 original size:19 final size:19
Alignment explanation
Indices: 13830844--13830882 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
13830834 CTAAAATTTA
13830844 TATGCATACTACTAACCAT
1 TATGCATACTACTAACCAT
13830863 TATGCATACTACTAACCAT
1 TATGCATACTACTAACCAT
13830882 T
1 T
13830883 CAAACATCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.36, C:0.26, G:0.05, T:0.33
Consensus pattern (19 bp):
TATGCATACTACTAACCAT
Found at i:13832375 original size:41 final size:43
Alignment explanation
Indices: 13832277--13832381 Score: 117
Period size: 41 Copynumber: 2.5 Consensus size: 43
13832267 AATCCCAACA
* * * *
13832277 TCCCAGACATGGTCTTACATGCTATCACATATTGATGCCACTG
1 TCCCAGACATGGTCTTACACGCAATCAAATATCGATGCCACTG
* * *
13832320 CCCCAGACAGGGTCTTACACG-AATCAAATA-CGATGTCGA-TG
1 TCCCAGACATGGTCTTACACGCAATCAAATATCGATG-CCACTG
13832361 TCCCAGACATGGTCTTACACG
1 TCCCAGACATGGTCTTACACG
13832382 TAACCATATA
Statistics
Matches: 52, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
41 25 0.48
42 9 0.17
43 18 0.35
ACGTcount: A:0.28, C:0.29, G:0.19, T:0.25
Consensus pattern (43 bp):
TCCCAGACATGGTCTTACACGCAATCAAATATCGATGCCACTG
Found at i:13834115 original size:9 final size:9
Alignment explanation
Indices: 13834101--13834125 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
13834091 TATGTTAAGA
13834101 TTTAGTGTC
1 TTTAGTGTC
13834110 TTTAGTGTC
1 TTTAGTGTC
13834119 TTTAGTG
1 TTTAGTG
13834126 ATGTAGTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.12, C:0.08, G:0.24, T:0.56
Consensus pattern (9 bp):
TTTAGTGTC
Found at i:13834140 original size:14 final size:14
Alignment explanation
Indices: 13834121--13834150 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
13834111 TTAGTGTCTT
13834121 TAGTGATGTAGTAA
1 TAGTGATGTAGTAA
13834135 TAGTGATGTAGTAA
1 TAGTGATGTAGTAA
13834149 TA
1 TA
13834151 TTGTCTATGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.37, C:0.00, G:0.27, T:0.37
Consensus pattern (14 bp):
TAGTGATGTAGTAA
Found at i:13847120 original size:27 final size:26
Alignment explanation
Indices: 13847083--13847197 Score: 140
Period size: 27 Copynumber: 4.3 Consensus size: 26
13847073 AGCATGGCTG
* *
13847083 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
13847109 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
13847137 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
** * *
13847164 CCAGATGAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
13847191 CCAGAAC
1 CCAGAAC
13847198 GCTTCTTCCA
Statistics
Matches: 78, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
26 5 0.06
27 56 0.72
28 17 0.22
ACGTcount: A:0.37, C:0.23, G:0.24, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:13847142 original size:54 final size:54
Alignment explanation
Indices: 13847083--13847197 Score: 160
Period size: 54 Copynumber: 2.1 Consensus size: 54
13847073 AGCATGGCTG
*
13847083 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * * * *
13847137 CCAGAACAGATATATGTGGCAGAGCCACCAGATGAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
13847191 CCAGAAC
1 CCAGAAC
13847198 GCTTCTTCCA
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
54 36 0.67
55 18 0.33
ACGTcount: A:0.37, C:0.23, G:0.24, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:13848849 original size:26 final size:26
Alignment explanation
Indices: 13848813--13848922 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
13848803 CATGAAATTC
13848813 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
13848839 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
13848865 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* * *
13848891 TTATCATGGAACATTTACCTAAACTA
1 TTATCATGAAACATTTACCTAACCCA
13848917 TTATCA
1 TTATCA
13848923 ATTTGTATCA
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 81 1.00
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:13852317 original size:2 final size:2
Alignment explanation
Indices: 13852310--13852338 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
13852300 TGTATATTTT
13852310 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
13852339 CTTTAATTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Done.