Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2662
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: 129172
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Found at i:1270 original size:24 final size:22
Alignment explanation
Indices: 1236--1279 Score: 52
Period size: 24 Copynumber: 1.9 Consensus size: 22
1226 CTGATTATCA
* *
1236 AACTTTAAAAAGAATAAAATAG
1 AACTTTAAAAAAAAAAAAATAG
1258 AACTATTAGAAAAAAAAAAAAT
1 AACT-TTA-AAAAAAAAAAAAT
1280 TAAACAATCA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 4 0.22
23 3 0.17
24 11 0.61
ACGTcount: A:0.68, C:0.05, G:0.07, T:0.20
Consensus pattern (22 bp):
AACTTTAAAAAAAAAAAAATAG
Found at i:4875 original size:12 final size:12
Alignment explanation
Indices: 4847--4884 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
4837 ATATAAATAT
*
4847 TATAAAAAATAA
1 TATAAAATATAA
4859 T-TAAAATATAA
1 TATAAAATATAA
4870 TATAAAATATAA
1 TATAAAATATAA
4882 TAT
1 TAT
4885 TAACGTGATA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
11 10 0.42
12 14 0.58
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (12 bp):
TATAAAATATAA
Found at i:6995 original size:370 final size:365
Alignment explanation
Indices: 6185--6878 Score: 1129
Period size: 370 Copynumber: 1.9 Consensus size: 365
6175 ATCGGATGTT
* *** * *
6185 GATTATAGAACCTAAATGCACTAATCTCAA-CACTTTTATTTCATGAGAGACCTTATATTCAAGA
1 GATTATAGAACCTAAATGCACTAATCT-AAGCACTTTGAAGGCAGGAGAGACCTTATATTAAAGA
6249 AAAAGAAACTAGCTTTCTTGTTAAGGGTCTTGTAATATAAACTTTGTTGAATTTAATACAAGGCA
65 AAAAGAAACTAGCTTTCTTGTTAAGGGTCTTGTAATATAAACTTTGTTGAATTTAATACAAGGCA
* *
6314 ACAAGACAATGAGTTTTGATTTAAGAACCAAAGCTTAACTCGATTTATGTAATCGTGTTTAAAGA
130 ACAAGACAATGAGTTTTGATTTAAGAACCAAAGCTTAACTCGATTCATGTAATCATGTTTAAAGA
6379 GCGAGTTTTTGATAACTTACTTTTTGTACCAAGAAATGAGTTTTGATCTAATGGACTATTTTCTT
195 GCGAGTTTTTGATAACTTACTTTTTGTACCAAGAAATGAGTTTTGATCTAATGGACTATTTTCTT
6444 GAGAGTTGACCAAATTTTGACATTGACTTCACCATGTTTAATGTTTACTCAATTTAAAAAAGAAA
260 GAGAGTTGACCAAATTTTGACATTGACTTCACCATGTTTAATGTTTACTCAATTTAAAAAAG--A
* * **** *
6509 AACCAGAAGACGAATACTCGTTGCAGCGGGCATTGATTGGATATA
323 AA-CAGAAGACGAATACTC-TTACAGCAGGCATTGAAACAATACA
* * *** * *
6554 GATTATAGAACCTAAATGCACTAATCTCAGCACTTTTATTTCATGAGAGACCTTATATTCAAGAA
1 GATTATAGAACCTAAATGCACTAATCTAAGCACTTTGAAGGCAGGAGAGACCTTATATTAAAGAA
6619 AAAGAAACTAGCTTTCTTGTTAAGGGTCTTGTAATATAAACTTTGTTGAATTTAATACAAGGCAA
66 AAAGAAACTAGCTTTCTTGTTAAGGGTCTTGTAATATAAACTTTGTTGAATTTAATACAAGGCAA
6684 CAAGACAATGAGTTTTGATTTAAGAACCCAAAGCTTAACTCGATTCATGTAATCATGTTTAAAGA
131 CAAGACAATGAGTTTTGATTTAAGAA-CCAAAGCTTAACTCGATTCATGTAATCATGTTTAAAGA
6749 GCGAGTTTTTGATAACTTACTTTTTGTACCAAGAAATGAGTTTTGATCTAATGGACTATTTTCTT
195 GCGAGTTTTTGATAACTTACTTTTTGTACCAAGAAATGAGTTTTGATCTAATGGACTATTTTCTT
6814 GAGAGTTGACCAAATTTTGACATTGACTTCACCATGTTTAATGTTTACTCAATTTAAAAAAGAAA
260 GAGAGTTGACCAAATTTTGACATTGACTTCACCATGTTTAATGTTTACTCAATTTAAAAAAGAAA
6879 AAACAATTAT
Statistics
Matches: 320, Mismatches: 3, Indels: 5
0.98 0.01 0.02
Matches are distributed among these distances:
368 4 0.01
369 153 0.48
370 163 0.51
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Consensus pattern (365 bp):
GATTATAGAACCTAAATGCACTAATCTAAGCACTTTGAAGGCAGGAGAGACCTTATATTAAAGAA
AAAGAAACTAGCTTTCTTGTTAAGGGTCTTGTAATATAAACTTTGTTGAATTTAATACAAGGCAA
CAAGACAATGAGTTTTGATTTAAGAACCAAAGCTTAACTCGATTCATGTAATCATGTTTAAAGAG
CGAGTTTTTGATAACTTACTTTTTGTACCAAGAAATGAGTTTTGATCTAATGGACTATTTTCTTG
AGAGTTGACCAAATTTTGACATTGACTTCACCATGTTTAATGTTTACTCAATTTAAAAAAGAAAC
AGAAGACGAATACTCTTACAGCAGGCATTGAAACAATACA
Found at i:12934 original size:3 final size:3
Alignment explanation
Indices: 12926--12969 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
12916 ACACAAATAC
12926 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
12970 AAACTATAAG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:13700 original size:14 final size:14
Alignment explanation
Indices: 13681--13727 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 14
13671 TAATTATATA
13681 TATATTTAAATAAT
1 TATATTTAAATAAT
* *
13695 TATATTTTTAATATT
1 TATA-TTTAAATAAT
13710 TATATTTAAA-AA-
1 TATATTTAAATAAT
13722 TATATT
1 TATATT
13728 AAACATGAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
12 6 0.21
13 1 0.04
14 9 0.32
15 12 0.43
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
TATATTTAAATAAT
Found at i:19279 original size:2 final size:2
Alignment explanation
Indices: 19272--19312 Score: 64
Period size: 2 Copynumber: 20.5 Consensus size: 2
19262 TATGTATGTG
* *
19272 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TT TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
19313 CAATCAGCAT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (2 bp):
TA
Found at i:22984 original size:17 final size:17
Alignment explanation
Indices: 22964--23011 Score: 57
Period size: 16 Copynumber: 2.9 Consensus size: 17
22954 GAAATATTAA
22964 AATATTAAAATTTATAT
1 AATATTAAAATTTATAT
*
22981 AATA-TAAATAATTA-AT
1 AATATTAAA-ATTTATAT
22997 -ATATTAAAATTTATA
1 AATATTAAAATTTATA
23012 AATTATATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 7
0.74 0.06 0.20
Matches are distributed among these distances:
15 7 0.27
16 11 0.42
17 8 0.31
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
AATATTAAAATTTATAT
Found at i:22986 original size:40 final size:39
Alignment explanation
Indices: 22932--23023 Score: 125
Period size: 40 Copynumber: 2.3 Consensus size: 39
22922 AACTCCATAT
22932 AATTATATATATATAAATAA-TAGAAATATTAAAATATTA-A
1 AATTATATA-ATATAAATAATTA-AAATATTAAAAT-TTATA
*
22972 AATTTATATAATATAAATAATTAATATATTAAAATTTATA
1 AA-TTATATAATATAAATAATTAAAATATTAAAATTTATA
23012 AATTATATAATA
1 AATTATATAATA
23024 ATTTAAATAG
Statistics
Matches: 48, Mismatches: 1, Indels: 7
0.86 0.02 0.12
Matches are distributed among these distances:
39 13 0.27
40 26 0.54
41 9 0.19
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.41
Consensus pattern (39 bp):
AATTATATAATATAAATAATTAAAATATTAAAATTTATA
Found at i:23001 original size:32 final size:32
Alignment explanation
Indices: 22948--23032 Score: 111
Period size: 32 Copynumber: 2.7 Consensus size: 32
22938 ATATATATAA
*
22948 ATAATAGAAAT-ATTAAAATATTAAAATTTAT
1 ATAATATAAATAATTAAAATATTAAAATTTAT
*
22979 ATAATATAAATAATTAATATATTAAAATTTAT
1 ATAATATAAATAATTAAAATATTAAAATTTAT
*
23011 A-AATTATATAATAATTTAAATA
1 ATAA-TATA-AATAATTAAAATA
23033 GAATTATAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
31 12 0.26
32 24 0.51
33 11 0.23
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.41
Consensus pattern (32 bp):
ATAATATAAATAATTAAAATATTAAAATTTAT
Found at i:23012 original size:25 final size:25
Alignment explanation
Indices: 22983--23031 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
22973 ATTTATATAA
22983 TATAAATAAT-TAATATATTAAAATT
1 TATAAATAATATAATA-ATTAAAATT
* *
23008 TATAAATTATATAATAATTTAAAT
1 TATAAATAATATAATAATTAAAAT
23032 AGAATTATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 16 0.76
26 5 0.24
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (25 bp):
TATAAATAATATAATAATTAAAATT
Found at i:24631 original size:42 final size:42
Alignment explanation
Indices: 24579--24685 Score: 135
Period size: 42 Copynumber: 2.5 Consensus size: 42
24569 GAAGCAAAAT
* *
24579 GGTTTTCTTTCATCTTCTCATGGAGGTATT-TCTATGCAAAGA
1 GGTTTACTTTCATCTTCTCATGGAGGT-TTGTCAATGCAAAGA
* * *
24621 GGTTTACTTTCATCTCCTCATGGTGGTTTGTCAATGCAAAGC
1 GGTTTACTTTCATCTTCTCATGGAGGTTTGTCAATGCAAAGA
* *
24663 GGTTTACTTCCATCATCTCATGG
1 GGTTTACTTTCATCTTCTCATGG
24686 TGGAATACCG
Statistics
Matches: 56, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
41 2 0.04
42 54 0.96
ACGTcount: A:0.20, C:0.21, G:0.20, T:0.40
Consensus pattern (42 bp):
GGTTTACTTTCATCTTCTCATGGAGGTTTGTCAATGCAAAGA
Found at i:27793 original size:20 final size:21
Alignment explanation
Indices: 27755--27793 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
27745 TACGAGATAT
*
27755 AATTTTTTAAATATATAAAAA
1 AATTTTTAAAATATATAAAAA
27776 AATTTTTAAAATAT-TAAA
1 AATTTTTAAAATATATAAA
27794 TATACACTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
AATTTTTAAAATATATAAAAA
Found at i:28263 original size:18 final size:20
Alignment explanation
Indices: 28236--28277 Score: 61
Period size: 18 Copynumber: 2.2 Consensus size: 20
28226 TGTACAATAA
28236 TAAATATAATTA-TATT-AT
1 TAAATATAATTATTATTCAT
*
28254 TAAATTTAATTATTATTCAT
1 TAAATATAATTATTATTCAT
28274 TAAA
1 TAAA
28278 ATATGTAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 11 0.52
19 4 0.19
20 6 0.29
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (20 bp):
TAAATATAATTATTATTCAT
Found at i:28331 original size:2 final size:2
Alignment explanation
Indices: 28324--28350 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
28314 TGATTTGTCT
28324 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 T
28351 TATGTATAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:32684 original size:2 final size:2
Alignment explanation
Indices: 32679--32724 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
32669 ATATATATGT
*
32679 AG AG AG AG AG AG AG AG AG AG AG AG AG AG TG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
32721 AG AG
1 AG AG
32725 GACATAATCT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.48, C:0.00, G:0.50, T:0.02
Consensus pattern (2 bp):
AG
Found at i:34874 original size:3 final size:3
Alignment explanation
Indices: 34861--34893 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
34851 AACAATCGTC
*
34861 GAA GCA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
34894 AATGGATTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.64, C:0.03, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:41764 original size:12 final size:12
Alignment explanation
Indices: 41747--41804 Score: 70
Period size: 12 Copynumber: 5.1 Consensus size: 12
41737 CATGATCATA
41747 AAAATATAATAT
1 AAAATATAATAT
41759 AAAATATAATAT
1 AAAATATAATAT
41771 AAAATAT-A-A-
1 AAAATATAATAT
41780 AAAATATGAATAT
1 AAAATAT-AATAT
*
41793 AATATA-AATAT
1 AAAATATAATAT
41804 A
1 A
41805 TTAAAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
9 7 0.17
10 1 0.02
11 8 0.20
12 20 0.49
13 5 0.12
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (12 bp):
AAAATATAATAT
Found at i:41778 original size:19 final size:19
Alignment explanation
Indices: 41747--41825 Score: 70
Period size: 19 Copynumber: 4.1 Consensus size: 19
41737 CATGATCATA
41747 AAAATATAATATAAAATAT
1 AAAATATAATATAAAATAT
* * *
41766 AATATAAAATATAAAAAAT
1 AAAATATAATATAAAATAT
*
41785 ATGAATATAATATAAATATATT
1 A-AAATATAATATAAA-ATA-T
* *
41807 AAAAT-TTATATAATATAT
1 AAAATATAATATAAAATAT
41825 A
1 A
41826 TTATTTTAAA
Statistics
Matches: 47, Mismatches: 10, Indels: 7
0.73 0.16 0.11
Matches are distributed among these distances:
18 2 0.04
19 20 0.43
20 18 0.38
21 5 0.11
22 2 0.04
ACGTcount: A:0.63, C:0.00, G:0.01, T:0.35
Consensus pattern (19 bp):
AAAATATAATATAAAATAT
Found at i:41836 original size:25 final size:25
Alignment explanation
Indices: 41762--41823 Score: 72
Period size: 27 Copynumber: 2.4 Consensus size: 25
41752 ATAATATAAA
* *
41762 ATATAATATAAA-ATATAAAAAATATGA
1 ATATAATATAAATATAT-TAAAAT-T-T
41789 ATATAATATAAATATATTAAAATTT
1 ATATAATATAAATATATTAAAATTT
41814 ATATAATATA
1 ATATAATATA
41824 TATTATTTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
25 10 0.31
26 1 0.03
27 17 0.53
28 4 0.12
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (25 bp):
ATATAATATAAATATATTAAAATTT
Found at i:42351 original size:19 final size:19
Alignment explanation
Indices: 42329--42382 Score: 51
Period size: 19 Copynumber: 2.9 Consensus size: 19
42319 TAATTCTTAA
42329 TAATAAAATATATAAATTT
1 TAATAAAATATATAAATTT
*
42348 TAATATATAAT-TA-ATATTT
1 TAATA-A-AATATATAAATTT
*
42367 TAATAATATA-ATAAAT
1 TAATAAAATATATAAAT
42383 AATAAAATAA
Statistics
Matches: 28, Mismatches: 3, Indels: 9
0.70 0.08 0.22
Matches are distributed among these distances:
17 3 0.11
18 4 0.14
19 15 0.54
20 3 0.11
21 3 0.11
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
TAATAAAATATATAAATTT
Found at i:43132 original size:14 final size:15
Alignment explanation
Indices: 43107--43135 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
43097 GAATTACTAT
43107 TTAATAATAAAAATA
1 TTAATAATAAAAATA
43122 TTAAT-ATAAAAATA
1 TTAATAATAAAAATA
43136 AAATTTTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (15 bp):
TTAATAATAAAAATA
Found at i:43154 original size:19 final size:19
Alignment explanation
Indices: 43108--43156 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 19
43098 AATTACTATT
43108 TAATAATAAAAATATTAATA
1 TAATAAT-AAAATATTAATA
* *
43128 TAAAAATAAAATTTTAATA
1 TAATAATAAAATATTAATA
43147 -ATATAATAAA
1 TA-ATAATAAA
43157 TAATAAAATG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 1 0.04
19 18 0.72
20 6 0.24
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (19 bp):
TAATAATAAAATATTAATA
Found at i:45407 original size:3 final size:3
Alignment explanation
Indices: 45401--45434 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
45391 TTTAAGATTC
*
45401 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAT TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
45435 TAGAGGTGTG
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:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:47462 original size:15 final size:14
Alignment explanation
Indices: 47442--47475 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
47432 TTATTTAAAA
47442 TATATTAAAATATTT
1 TATATTAAAAT-TTT
*
47457 TATATTAATATTTT
1 TATATTAAAATTTT
47471 TATAT
1 TATAT
47476 ATTTTATAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TATATTAAAATTTT
Found at i:47468 original size:21 final size:22
Alignment explanation
Indices: 47443--47495 Score: 54
Period size: 23 Copynumber: 2.4 Consensus size: 22
47433 TATTTAAAAT
47443 ATATTAAAATATTTTAT-ATTA
1 ATATTAAAATATTTTATAATTA
* *
47464 ATATTTTTATATATTTTATAATTA
1 ATA--TTAAAATATTTTATAATTA
*
47488 ATTTTAAA
1 ATATTAAA
47496 TAAAAATTTT
Statistics
Matches: 24, Mismatches: 5, Indels: 5
0.71 0.15 0.15
Matches are distributed among these distances:
21 3 0.12
22 3 0.12
23 12 0.50
24 6 0.25
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
ATATTAAAATATTTTATAATTA
Found at i:47713 original size:24 final size:22
Alignment explanation
Indices: 47669--47711 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 22
47659 ATATATTGAA
47669 ATATTTTTATATTAATATTTAT
1 ATATTTTTATATTAATATTTAT
47691 ATATATTTTATAATTAA-ATTT
1 ATAT-TTTTAT-ATTAATATTT
47712 TAAATAAAAA
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:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
ATATTTTTATATTAATATTTAT
Found at i:48446 original size:29 final size:30
Alignment explanation
Indices: 48397--48502 Score: 119
Period size: 29 Copynumber: 3.6 Consensus size: 30
48387 TTTATTACAC
* *
48397 TAAATAAATCTTTAACTTTTAATTTTTATT
1 TAAATAAATCTTTAACATTTAATTTGTATT
*
48427 TAAATAAAT-TTTAACATTTAATTTGTAAT
1 TAAATAAATCTTTAACATTTAATTTGTATT
* **
48456 TAAATAAAT-TTTGAAC-TTTACTTTGTACC
1 TAAATAAATCTTT-AACATTTAATTTGTATT
*
48485 TAAATAAATCTATAACAT
1 TAAATAAATCTTTAACAT
48503 AAATTAAATT
Statistics
Matches: 66, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
29 51 0.77
30 15 0.23
ACGTcount: A:0.42, C:0.08, G:0.03, T:0.47
Consensus pattern (30 bp):
TAAATAAATCTTTAACATTTAATTTGTATT
Found at i:56515 original size:2 final size:2
Alignment explanation
Indices: 56508--56545 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
56498 TTACTGAATG
56508 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
56546 TGTTTGTTGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:59948 original size:27 final size:28
Alignment explanation
Indices: 59881--59949 Score: 79
Period size: 32 Copynumber: 2.4 Consensus size: 28
59871 ATATGGATAC
59881 ATATTTTAAAATTTATATAATATAAATT
1 ATATTTTAAAATTTATATAATATAAATT
59909 ATTAATATATTAAAATTTATATAA-ATAAGA-T
1 A-T-AT-T-TTAAAATTTATATAATATAA-ATT
59940 ATATTTTAAA
1 ATATTTTAAA
59950 CAGAATTATG
Statistics
Matches: 36, Mismatches: 0, Indels: 11
0.77 0.00 0.23
Matches are distributed among these distances:
27 5 0.14
28 2 0.06
29 3 0.08
30 3 0.08
31 7 0.19
32 16 0.44
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.46
Consensus pattern (28 bp):
ATATTTTAAAATTTATATAATATAAATT
Found at i:60027 original size:37 final size:37
Alignment explanation
Indices: 59986--60060 Score: 125
Period size: 37 Copynumber: 2.0 Consensus size: 37
59976 GAATATGACA
59986 TGGATTATTTGGTCTAATTTATATTT-GCCAATCTCCT
1 TGGATTATTTGGTCTAATTTAT-TTTCGCCAATCTCCT
*
60023 TGGATTGTTTGGTCTAATTTATTTTCGCCAATCTCCT
1 TGGATTATTTGGTCTAATTTATTTTCGCCAATCTCCT
60060 T
1 T
60061 ATATTTATAT
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
36 3 0.08
37 33 0.92
ACGTcount: A:0.19, C:0.17, G:0.15, T:0.49
Consensus pattern (37 bp):
TGGATTATTTGGTCTAATTTATTTTCGCCAATCTCCT
Found at i:64597 original size:34 final size:34
Alignment explanation
Indices: 64559--64627 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
64549 AATTAGCACT
64559 TAGCTAAAAGTCAGTAGGATCAAATATAACAATG
1 TAGCTAAAAGTCAGTAGGATCAAATATAACAATG
64593 TAGCTAAAAGTCAGTAGGATCAAATATAACAATG
1 TAGCTAAAAGTCAGTAGGATCAAATATAACAATG
64627 T
1 T
64628 CCGATACTTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.46, C:0.12, G:0.17, T:0.25
Consensus pattern (34 bp):
TAGCTAAAAGTCAGTAGGATCAAATATAACAATG
Found at i:65669 original size:2 final size:2
Alignment explanation
Indices: 65662--65697 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
65652 CCCTTCATCA
65662 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
65698 GTGTTTCACT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:65898 original size:18 final size:18
Alignment explanation
Indices: 65877--65937 Score: 51
Period size: 18 Copynumber: 3.6 Consensus size: 18
65867 TAAATTTTAA
65877 TATATTAATAATTTATAT
1 TATATTAATAATTTATAT
65895 TATA--AA-AATTTATA-
1 TATATTAATAATTTATAT
* *
65909 TATTTTTATAAATTTATAT
1 TATATTAAT-AATTTATAT
65928 GT-TATTAATA
1 -TATATTAATA
65938 TTATTGTTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 12
0.67 0.08 0.24
Matches are distributed among these distances:
14 3 0.09
15 8 0.24
16 3 0.09
18 13 0.39
19 5 0.15
20 1 0.03
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (18 bp):
TATATTAATAATTTATAT
Found at i:65904 original size:32 final size:33
Alignment explanation
Indices: 65862--65927 Score: 82
Period size: 32 Copynumber: 2.0 Consensus size: 33
65852 AAATTGTAAT
*
65862 TTATATAAATTT-TAATATATTAAT-AATTTATA
1 TTATAAAAATTTAT-ATATATTAATAAATTTATA
* *
65894 TTATAAAAATTTATATATTTTTATAAATTTATA
1 TTATAAAAATTTATATATATTAATAAATTTATA
65927 T
1 T
65928 GTTATTAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
32 19 0.66
33 10 0.34
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (33 bp):
TTATAAAAATTTATATATATTAATAAATTTATA
Found at i:67557 original size:74 final size:72
Alignment explanation
Indices: 67341--67667 Score: 299
Period size: 73 Copynumber: 4.5 Consensus size: 72
67331 ATGTAACTTT
* *
67341 TAAATAAA-AATTTAAATTTTTACAAATAAAAATAAATAATACTC-TAAAAATTTAAACTCAT-T
1 TAAA-AAACAATTTAAATTTCTACAAATAAAAATAAATTATA-TCATAAAAATTTAAACTCATAT
67403 AATCA-ACC
64 AATCATACC
* * * * * *
67411 TAAAAACCAAATTTAAATTTCTAAAAATAAAAATGAATTATA-CAATCAAAATATAAACCCATAT
1 TAAAAAAC-AATTTAAATTTCTACAAATAAAAATAAATTATATC-ATAAAAATTTAAACTCATAT
67475 AATCATACC
64 AATCATACC
* * * **
67484 CAAAAAACACATTTAAATTTTTACAAATAAAAATAAACTATATCATAAAAAATTTAAACTTGTAT
1 TAAAAAACA-ATTTAAATTTCTACAAATAAAAATAAATTATATCAT-AAAAATTTAAACTCATAT
67549 AAGT-ATACC
64 AA-TCATACC
* * * * * * **
67558 TTAAAAATAGATTTAAATTTCTATAAATAAAAATATATTATAACATAAAAATTTCAACTTGTATA
1 TAAAAAACA-ATTTAAATTTCTACAAATAAAAATAAATTATATCATAAAAATTTAAACTCATATA
*
67623 ATCATACT
65 ATCATACC
* * *
67631 TAAAAATA-AATTTAAACTTGTATAAATAAAAATAAAT
1 TAAAAA-ACAATTTAAATTTCTACAAATAAAAATAAAT
67668 AATACCCTAA
Statistics
Matches: 211, Mismatches: 34, Indels: 22
0.79 0.13 0.08
Matches are distributed among these distances:
69 3 0.01
70 4 0.02
71 43 0.20
72 33 0.16
73 68 0.32
74 59 0.28
75 1 0.00
ACGTcount: A:0.55, C:0.11, G:0.02, T:0.32
Consensus pattern (72 bp):
TAAAAAACAATTTAAATTTCTACAAATAAAAATAAATTATATCATAAAAATTTAAACTCATATAA
TCATACC
Found at i:67609 original size:147 final size:143
Alignment explanation
Indices: 67348--67684 Score: 364
Period size: 147 Copynumber: 2.3 Consensus size: 143
67338 TTTTAAATAA
67348 AAATTTAAATTTTTACAAATAAAAATAAATAATACTCTAAAAATTTAAACTCATTAATCAACCTA
1 AAATTTAAATTTTTACAAATAAAAATAAATAATACTCTAAAAATTTAAACTCATTAATCAACCTA
*
67413 AAAACCAAATTTAAATTTCTAAAAATAAAAATGAATTATACAATCAAAATATAAACCCATATAAT
66 AAAACCAAATTTAAATTTCTAAAAATAAAAATGAATTATACAATAAAAATATAAACCCATATAAT
67478 CATACCCAAAAA-
131 CATACCCAAAAAT
**
67490 ACACATTTAAATTTTTACAAATAAAAATAAACT-ATA-TCATAAAAAATTTAAACTTGTATAAGT
1 A-A-ATTTAAATTTTTACAAATAAAAATAAA-TAATACTC-T-AAAAATTTAAACTCAT-TAA-T
* * * * *
67553 -ATACCTTAAAAA-TAGATTTAAATTTCTATAAATAAAAAT-ATATTATA-ACATAAAAATTTCA
59 CA-ACC-TAAAAACCAAATTTAAATTTCTAAAAATAAAAATGA-ATTATACA-ATAAAAATATAA
*** **
67614 ACTTGTATAATCATACTTAAAAAT
120 ACCCATATAATCATACCCAAAAAT
* * * * *
67638 AAATTTAAACTTGTATAAATAAAAATAAATAATACCCTAAAATTTTA
1 AAATTTAAATTTTTACAAATAAAAATAAATAATACTCTAAAAATTTA
67685 TTAATACAAA
Statistics
Matches: 163, Mismatches: 18, Indels: 25
0.79 0.09 0.12
Matches are distributed among these distances:
142 1 0.01
143 3 0.02
144 31 0.19
145 24 0.15
146 34 0.21
147 63 0.39
148 7 0.04
ACGTcount: A:0.54, C:0.11, G:0.02, T:0.33
Consensus pattern (143 bp):
AAATTTAAATTTTTACAAATAAAAATAAATAATACTCTAAAAATTTAAACTCATTAATCAACCTA
AAAACCAAATTTAAATTTCTAAAAATAAAAATGAATTATACAATAAAAATATAAACCCATATAAT
CATACCCAAAAAT
Found at i:72260 original size:2 final size:2
Alignment explanation
Indices: 72253--72278 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
72243 GGAACATGGA
72253 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
72279 CAATGTCCCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:76012 original size:12 final size:12
Alignment explanation
Indices: 75997--76021 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
75987 AAATATAAAA
75997 AAATATTTTTAT
1 AAATATTTTTAT
76009 AAATATTTTTAT
1 AAATATTTTTAT
76021 A
1 A
76022 TTTTATAGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
AAATATTTTTAT
Found at i:76768 original size:2 final size:2
Alignment explanation
Indices: 76725--76758 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
76715 ACACACACAC
76725 AT 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 AT
76759 TCACATATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:76963 original size:6 final size:6
Alignment explanation
Indices: 76952--76992 Score: 73
Period size: 6 Copynumber: 6.8 Consensus size: 6
76942 GTTGCCTCAC
*
76952 CTATAT CTATAT CTATAT CTATAT CTATAT CTATAT TTATA
1 CTATAT CTATAT CTATAT CTATAT CTATAT CTATAT CTATA
76993 ATCCATCATA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.34, C:0.15, G:0.00, T:0.51
Consensus pattern (6 bp):
CTATAT
Found at i:77074 original size:20 final size:19
Alignment explanation
Indices: 77037--77073 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
77027 AAAAATATTT
* *
77037 TTAAAATTATTAATTTTTA
1 TTAAAAATAATAATTTTTA
77056 TTAAAAATAATAATTTTT
1 TTAAAAATAATAATTTTT
77074 TTATATATGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
TTAAAAATAATAATTTTTA
Found at i:81503 original size:2 final size:2
Alignment explanation
Indices: 81496--81520 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
81486 TTTCTACAGG
81496 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
81521 ACTTCTGAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:84430 original size:2 final size:2
Alignment explanation
Indices: 84425--84470 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
84415 ATATATCCCA
*
84425 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AA AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
84467 AT AT
1 AT AT
84471 CCAATTAGCT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:85978 original size:2 final size:2
Alignment explanation
Indices: 85971--85996 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
85961 TTTTAATAAA
85971 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
85997 TTGATTGCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:86667 original size:14 final size:14
Alignment explanation
Indices: 86638--86695 Score: 53
Period size: 15 Copynumber: 3.9 Consensus size: 14
86628 AAAAAAATAT
*
86638 AAAATTAATATCTTA
1 AAAAATAATAT-TTA
86653 AAAAATAATATTTA
1 AAAAATAATATTTA
* *
86667 ATAAATTTAAAATTTA
1 A-AAA-ATAATATTTA
*
86683 AATAATAATATTT
1 AAAAATAATATTT
86696 CTAATTTTTT
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
14 11 0.31
15 15 0.43
16 9 0.26
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (14 bp):
AAAAATAATATTTA
Found at i:86673 original size:30 final size:30
Alignment explanation
Indices: 86636--86695 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
86626 GAAAAAAAAT
* *
86636 ATAAAATTAATATCTTAAAAAATAATATTTA
1 ATAAATTTAAAAT-TTAAAAAATAATATTTA
*
86667 ATAAATTTAAAATTTAAATAATAATATTT
1 ATAAATTTAAAATTTAAAAAATAATATTT
86696 CTAATTTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 15 0.58
31 11 0.42
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (30 bp):
ATAAATTTAAAATTTAAAAAATAATATTTA
Found at i:86811 original size:177 final size:176
Alignment explanation
Indices: 86471--86809 Score: 405
Period size: 175 Copynumber: 1.9 Consensus size: 176
86461 ATATATTCTC
* * *
86471 TCTTAAAAAGTAATATTAAATAAATTTAAAGTTCATAACCTAACCTTTATAATTTTTTATTGCAA
1 TCTTAAAAAATAATATTAAATAAATTTAAAGTTAATAA-CTAACATTTATAATTTTTTATTGCAA
** * *
86536 ATTATAATATCTTCGGTAAAAAAACTAATAATAATTATCTATATAAAAATAATTATTAATAATCT
65 ATTATAATATCTTCAATAAAAAAACTAATAATAATTATCTACATAAAAATAAATATTAATAATCT
* * * *
86601 TCTTATTCTCTATGTAAAAGAGAATGAAAAAAAATATAAAATTAATA
130 TCTGATTCACCAAGTAAAAGAGAATGAAAAAAAATATAAAATTAATA
* * * * *
86648 TCTTAAAAAATAATATTTAATAAATTTAAAATTTAAATAA-TAATATTTCTAATTTTTTATT-TA
1 TCTTAAAAAATAATATTAAATAAATTT-AAAGTT-AATAACTAACATTTATAATTTTTTATTGCA
* * * * * * * *
86711 AATTATAATATCTTTAAT-AAAAAATTAATAATATTTATTTACGTAAAAGTAAATGTTGATAATC
64 AATTATAATATCTTCAATAAAAAAACTAATAATAATTATCTACATAAAAATAAATATTAATAATC
*
86775 TTGTGATTCACCAAGTAAAAGAGAATGAAAAAAAA
129 TTCTGATTCACCAAGTAAAAGAGAATGAAAAAAAA
86810 AAAAGGGGTA
Statistics
Matches: 135, Mismatches: 25, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
175 67 0.50
176 16 0.12
177 43 0.32
178 5 0.04
179 4 0.03
ACGTcount: A:0.49, C:0.07, G:0.06, T:0.39
Consensus pattern (176 bp):
TCTTAAAAAATAATATTAAATAAATTTAAAGTTAATAACTAACATTTATAATTTTTTATTGCAAA
TTATAATATCTTCAATAAAAAAACTAATAATAATTATCTACATAAAAATAAATATTAATAATCTT
CTGATTCACCAAGTAAAAGAGAATGAAAAAAAATATAAAATTAATA
Found at i:88383 original size:16 final size:16
Alignment explanation
Indices: 88347--88383 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
88337 AGAAATTATC
*
88347 ATTTTAGTTTTAGATA
1 ATTTTAGTTTTAAATA
88363 A-TTTAGTTTTAAATA
1 ATTTTAGTTTTAAATA
88378 ATTTTA
1 ATTTTA
88384 TATTTAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 14 0.74
16 5 0.26
ACGTcount: A:0.35, C:0.00, G:0.08, T:0.57
Consensus pattern (16 bp):
ATTTTAGTTTTAAATA
Found at i:88389 original size:16 final size:16
Alignment explanation
Indices: 88370--88424 Score: 60
Period size: 16 Copynumber: 3.4 Consensus size: 16
88360 ATAATTTAGT
*
88370 TTTAAATAATTTTATA
1 TTTAAATAATTTTAAA
*
88386 TTTAAAATAA-ATTAAA
1 TTT-AAATAATTTTAAA
88402 TTTAAAT-ATTTTAAA
1 TTTAAATAATTTTAAA
88417 TTTTAAAT
1 -TTTAAAT
88425 TATAAATTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
14 1 0.03
15 9 0.27
16 17 0.52
17 6 0.18
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
TTTAAATAATTTTAAA
Found at i:88438 original size:32 final size:31
Alignment explanation
Indices: 88360--88438 Score: 72
Period size: 32 Copynumber: 2.5 Consensus size: 31
88350 TTAGTTTTAG
* *
88360 ATAATTTAGTTTTAAATAATTTTATATTTAAA
1 ATAAATTA-TTTTAAATAATTTTAAATTTAAA
*
88392 ATAAATTAAATTTAAAT-ATTTTAAATTTTAAA
1 ATAAATT-ATTTTAAATAATTTTAAA-TTTAAA
88424 TTATAAATT-TTTTAA
1 --ATAAATTATTTTAA
88439 TTATAGTAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
31 7 0.18
32 24 0.62
33 1 0.03
34 7 0.18
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.52
Consensus pattern (31 bp):
ATAAATTATTTTAAATAATTTTAAATTTAAA
Found at i:89433 original size:28 final size:28
Alignment explanation
Indices: 89372--89434 Score: 69
Period size: 28 Copynumber: 2.3 Consensus size: 28
89362 TTAGATTTTT
*
89372 TTAAATTTAATTTAATTAATTTATATAA
1 TTAAATTTAATTTAATAAATTTATATAA
*
89400 TT-AATTTACATTTAGTAAATTTA-A-AA
1 TTAAATTTA-ATTTAATAAATTTATATAA
89426 TCTAAATTT
1 T-TAAATTT
89435 CTTATTCTCA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
26 3 0.10
27 8 0.27
28 19 0.63
ACGTcount: A:0.44, C:0.03, G:0.02, T:0.51
Consensus pattern (28 bp):
TTAAATTTAATTTAATAAATTTATATAA
Found at i:89933 original size:25 final size:26
Alignment explanation
Indices: 89888--89941 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
89878 AATAAAATAA
* *
89888 TTTTATTATTCTT-ACACTTTTTAAT
1 TTTTATTATTCTTAAAATTTTTTAAT
89913 TTTTATTATT-TTAAATATTTTTTAAT
1 TTTTATTATTCTTAAA-ATTTTTTAAT
89939 TTT
1 TTT
89942 AATTTATTAC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 2 0.08
25 11 0.44
26 12 0.48
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.69
Consensus pattern (26 bp):
TTTTATTATTCTTAAAATTTTTTAAT
Found at i:89960 original size:26 final size:26
Alignment explanation
Indices: 89903--89961 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 26
89893 TTATTCTTAC
* *
89903 ACTTTTTAATTTTTATTATTTTAAAT
1 ACTTTTTAATTTTAATTATATTAAAT
* *
89929 ATTTTTTAATTTTAATT-TATTACACT
1 ACTTTTTAATTTTAATTATATTA-AAT
89955 ACTTTTT
1 ACTTTTT
89962 TATAATAATA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
25 4 0.15
26 23 0.85
ACGTcount: A:0.29, C:0.07, G:0.00, T:0.64
Consensus pattern (26 bp):
ACTTTTTAATTTTAATTATATTAAAT
Found at i:90038 original size:15 final size:14
Alignment explanation
Indices: 90007--90046 Score: 53
Period size: 15 Copynumber: 2.8 Consensus size: 14
89997 TTTTACTATA
90007 TTTTTTAAAAATAT
1 TTTTTTAAAAATAT
* *
90021 TTTTTTAATCAATTT
1 TTTTTTAA-AAATAT
90036 TTTTTTAAAAA
1 TTTTTTAAAAA
90047 AAGGTGATGC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
14 10 0.45
15 12 0.55
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (14 bp):
TTTTTTAAAAATAT
Found at i:90463 original size:23 final size:24
Alignment explanation
Indices: 90437--90488 Score: 81
Period size: 22 Copynumber: 2.2 Consensus size: 24
90427 AATGTATTAA
*
90437 TTAATTTTGATTAAAATTATAT-T
1 TTAATTTTGATTAAAATAATATAT
90460 TTAA-TTTGATTAAAATAATATAT
1 TTAATTTTGATTAAAATAATATAT
90483 TTAATT
1 TTAATT
90489 ATAAAAATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 16 0.62
23 9 0.35
24 1 0.04
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (24 bp):
TTAATTTTGATTAAAATAATATAT
Found at i:90596 original size:12 final size:13
Alignment explanation
Indices: 90558--90597 Score: 50
Period size: 12 Copynumber: 3.3 Consensus size: 13
90548 TATCATATCA
90558 TTATTA-TAATAT
1 TTATTATTAATAT
*
90570 TTTTTATT-ATAT
1 TTATTATTAATAT
90582 TTATTATTAAT-T
1 TTATTATTAATAT
90594 TTAT
1 TTAT
90598 CATTTTAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
12 21 0.88
13 3 0.12
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
TTATTATTAATAT
Found at i:92223 original size:15 final size:15
Alignment explanation
Indices: 92203--92232 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
92193 CCAACGGGAA
92203 CTCAAAGTGATGGCT
1 CTCAAAGTGATGGCT
*
92218 CTCAAATTGATGGCT
1 CTCAAAGTGATGGCT
92233 TGTGAAATGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (15 bp):
CTCAAAGTGATGGCT
Found at i:95718 original size:7 final size:7
Alignment explanation
Indices: 95708--95740 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
95698 GCTTCTTTCC
95708 TCTTTTT
1 TCTTTTT
95715 TCTTTTT
1 TCTTTTT
95722 T-TTTTT
1 TCTTTTT
95728 T-TTTTT
1 TCTTTTT
95734 TCTTTTT
1 TCTTTTT
95741 CTTACTTCGA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 12 0.48
7 13 0.52
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (7 bp):
TCTTTTT
Found at i:97529 original size:27 final size:27
Alignment explanation
Indices: 97499--97552 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
97489 TATTTGATTT
*
97499 ATTTAAAT-TAAAAATTAATTTAATTAA
1 ATTTAAATAT-AAAATTAATTGAATTAA
* *
97526 ATTTATATATAAAATTGATTGAATTAA
1 ATTTAAATATAAAATTAATTGAATTAA
97553 TTGATGGCGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (27 bp):
ATTTAAATATAAAATTAATTGAATTAA
Found at i:98477 original size:49 final size:47
Alignment explanation
Indices: 98419--98521 Score: 122
Period size: 49 Copynumber: 2.1 Consensus size: 47
98409 GTCATTATCA
98419 TTTTATATTTGA-TAAAATTTAATTTATT-ATT-ATTTAAATAATAAATTAT
1 TTTTATATTT-ATTAAAATTT-ATTT-TTAATTAATTTAAATAA-AAA-TAT
*
98468 TTTTATATTTATTAATATTTATTTTTAATTAAATTTAAATAAAAATAT
1 TTTTATATTTATTAAAATTTATTTTTAATT-AATTTAAATAAAAATAT
98516 TTTTAT
1 TTTTAT
98522 TATTAAATAA
Statistics
Matches: 49, Mismatches: 1, Indels: 9
0.83 0.02 0.15
Matches are distributed among these distances:
47 2 0.04
48 17 0.35
49 20 0.41
50 10 0.20
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (47 bp):
TTTTATATTTATTAAAATTTATTTTTAATTAATTTAAATAAAAATAT
Found at i:98489 original size:22 final size:22
Alignment explanation
Indices: 98419--98494 Score: 71
Period size: 22 Copynumber: 3.2 Consensus size: 22
98409 GTCATTATCA
* *
98419 TTTTATATTTGATAAAATTTAAT
1 TTTTATATTTAATAATATTT-AT
*
98442 TTATTATTATTTAAATAATAAATTAT
1 TT-TTA-TATTT-AATAAT-ATTTAT
*
98468 TTTTATATTTATTAATATTTAT
1 TTTTATATTTAATAATATTTAT
98490 TTTTA
1 TTTTA
98495 ATTAAATTTA
Statistics
Matches: 44, Mismatches: 5, Indels: 9
0.76 0.09 0.16
Matches are distributed among these distances:
22 10 0.23
23 7 0.16
24 8 0.18
25 8 0.18
26 8 0.18
27 3 0.07
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (22 bp):
TTTTATATTTAATAATATTTAT
Found at i:98530 original size:22 final size:24
Alignment explanation
Indices: 98440--98532 Score: 86
Period size: 26 Copynumber: 3.8 Consensus size: 24
98430 ATAAAATTTA
98440 ATTTATTATTATTTAAATAATAAATT
1 ATTT-TTATTATTTAAATAATAAA-T
* **
98466 ATTTTTA-TATTT-ATTAATATTT
1 ATTTTTATTATTTAAATAATAAAT
98488 ATTTTTAATTAAATTTAAATAA-AAAT
1 ATTTTT-ATT--ATTTAAATAATAAAT
98514 ATTTTTATTA-TTAAATAAT
1 ATTTTTATTATTTAAATAAT
98533 TATCCAAGGT
Statistics
Matches: 55, Mismatches: 6, Indels: 15
0.72 0.08 0.20
Matches are distributed among these distances:
22 15 0.27
23 8 0.15
24 6 0.11
25 6 0.11
26 16 0.29
27 4 0.07
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (24 bp):
ATTTTTATTATTTAAATAATAAAT
Found at i:102470 original size:5 final size:5
Alignment explanation
Indices: 102460--102543 Score: 54
Period size: 5 Copynumber: 17.4 Consensus size: 5
102450 ATATAAATTA
* * * *
102460 ATATT ATATT A-AAT ATATT ATATT AT-TT ATATT -TAAAT ATATC ATATC
1 ATATT ATATT ATATT ATATT ATATT ATATT ATATT AT-ATT ATATT ATATT
*
102508 ATATT -TATT AATAAAT ATATT ATATT -T-TT ATATT AT
1 ATATT ATATT -AT-ATT ATATT ATATT ATATT ATATT AT
102544 GTCTTAAATG
Statistics
Matches: 62, Mismatches: 8, Indels: 18
0.70 0.09 0.20
Matches are distributed among these distances:
3 2 0.03
4 14 0.23
5 40 0.65
6 4 0.06
7 2 0.03
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (5 bp):
ATATT
Found at i:102472 original size:16 final size:14
Alignment explanation
Indices: 102460--102533 Score: 61
Period size: 14 Copynumber: 5.7 Consensus size: 14
102450 ATATAAATTA
102460 ATATTATATTAAAT
1 ATATTATATTAAAT
102474 ATATTATATT--AT
1 ATATTATATTAAAT
*
102486 TTA-TAT-TTAAAT
1 ATATTATATTAAAT
* * *
102498 ATATCATATCATAT
1 ATATTATATTAAAT
*
102512 TTATTA-A-TAAAT
1 ATATTATATTAAAT
102524 ATATTATATT
1 ATATTATATT
102534 TTTATATTAT
Statistics
Matches: 44, Mismatches: 10, Indels: 12
0.67 0.15 0.18
Matches are distributed among these distances:
10 2 0.05
11 3 0.07
12 16 0.36
13 4 0.09
14 19 0.43
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (14 bp):
ATATTATATTAAAT
Found at i:102512 original size:26 final size:24
Alignment explanation
Indices: 102463--102541 Score: 92
Period size: 26 Copynumber: 3.3 Consensus size: 24
102453 TAAATTAATA
102463 TTATA-TTAAATATATTATATTAT
1 TTATATTTAAATATATTATATTAT
*
102486 TTATATTTAAATATATCATATCATAT
1 TTATATTTAAATATATTATAT--TAT
*
102512 TTAT-TAATAAATATATTATATT-T
1 TTATAT-TTAAATATATTATATTAT
102535 TTATATT
1 TTATATT
102542 ATGTCTTAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 10
0.77 0.07 0.16
Matches are distributed among these distances:
23 10 0.21
24 16 0.34
25 1 0.02
26 20 0.43
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.56
Consensus pattern (24 bp):
TTATATTTAAATATATTATATTAT
Found at i:104353 original size:587 final size:584
Alignment explanation
Indices: 103328--104490 Score: 1448
Period size: 587 Copynumber: 2.0 Consensus size: 584
103318 TGTATGAGAT
* * * **
103328 AATATATAGTATTTAATTAACTTACCTAAGGAAGACATTACATGTTGGAGTAAAAAATAGGAAAT
1 AATATATAGTATTTAATTAACTTACCTAAGAAAGACATTACATGTTAGAGCAAAAAATAAAAAAT
** *
103393 CATGAACACAAGAATTATACGAAATCACAAACACAAATGAATCAGTTTAAAGGTGTGCATCAATT
66 CATGAACACAAGAATTATAAAAAATCACAAACACAAATGAATCAGTTTAAAGGTGTGCATCAATG
* * * * * * *
103458 CTATTATTTTTAAAGTTTTATTTGTCTTCATCACAAATGTGCAAAAGAGTTTTCGATATATAAAC
131 CCACTATCTTTAAAGTTTTATTCGTCTTCACCACAAATGTGCAAAAGAGTTTTCAACATATAAAC
* ** * ** * * * *
103523 TTCATGGAAAGAACAAAATTCAATAATTGATTGTGTATTGCATCGACATAATCAATTTATTGAGC
196 TTCAT-GAAACAACAAAACCCAACAATTGATTACGTATTACACCGACACAATCAA-TTACTGAGC
* * *
103588 AACAAACTATAAAATTATTGAACTTTGATAAAAAGTTTTTGCAATAAAATTTTATGGAAAAAATC
259 AACAAACTACAAAATTATTGAACTTTGATAAAAAGTTTTTGAAATAAAATTTTATGAAAAAAATC
* * * * *
103653 TGAGGTAGTTTGAATATGGGAGGAATAAAAATTAAATATTTTCGGATATAATTTCTTGTTGAACC
324 TGAGATAATCTAAATATGGGAGGAATAAAAATTAAATATTTTCAGATATAATTTCTTGTTGAACC
* ** *
103718 TAGAGAAGTATATATAGGTTACTACTTGTCTGTTTAAACAGACTTTGTCTAAAAAAGTTTATCTG
389 CAGAGAAGTATATATAGGTTACTACACGTCTGTCTAAACAGACTTTGTCTAAAAAAGTTTATCTG
* * * *
103783 TACAGATACATTGATCAAAATAAATTTGTGTTTTAAACAAACAACTTATTTTTTAT-AGATATAT
454 TACAGATACATTGATCAAAATAAATCTATGTTTTAAACAAACAACTTATTTTCTATAAG-CATAT
*
103847 TCATTGGTCAGCCTTATTTGAACAAACACAACCATTTGTAATAATTTAAAAATAATAACTAACTT
518 TCATTGGTCAGCCTTATTTGAACAAACACAACCATTTGTAATAA-TAAAAAATAATAACTAACTT
103912 ACG
582 ACG
* * * ** *
103915 AATATATATTATTTAATTAACTTACTTGAGAAAGACATTACATGTTAGAGCGGAAAGTAAAAAAT
1 AATATATAGTATTTAATTAACTTACCTAAGAAAGACATTACATGTTAGAGCAAAAAATAAAAAAT
* * * * **
103980 CATGAACACATGAATTATAAAAAATCACAAATA-TAATGAATCAGTTTCAAGGTGTGTGTCAATG
66 CATGAACACAAGAATTATAAAAAATCACAAACACAAATGAATCAGTTTAAAGGTGTGCATCAATG
** **
104044 CCACTATCTTTAAAGTTTTATTCGTCTTCACCGTAGGTGTGCAAAAGAAG-TTTCAACATATAAA
131 CCACTATCTTTAAAGTTTTATTCGTCTTCACCACAAATGTGCAAAAG-AGTTTTCAACATATAAA
* * * *
104108 CCTTGAT-AATACAATAAAGCCCAACAATTGATTACGTATTACACCGACGCAATCAA-T-CT-AG
195 -CTTCATGAA-ACAACAAAACCCAACAATTGATTACGTATTACACCGACACAATCAATTACTGAG
**
104169 -AATGAACTACAAAATTATTGAACTTTGATAAAGAA-TTTTTGAAATAAAATTTTATGAAAAAAA
258 CAACAAACTACAAAATTATTGAACTTTGATAAA-AAGTTTTTGAAATAAAATTTTATGAAAAAAA
* *
104232 TCTGAGATAATCTAAATAT-GGAGAGAATAAAGAATTAAATATTTTTAGATGTAATTTCTTGTTG
322 TCTGAGATAATCTAAATATGGGAG-GAATAAA-AATTAAATATTTTCAGATATAATTTCTTGTTG
* * * *
104296 AACCCA-AGTAAGTATATTTAGGTTACTACACGTTTGTCTAAACAAATATTTCTTTGTCTAAAAG
385 AACCCAGAG-AAGTATATATAGGTTACTACACGTCTGTCTAAAC--AGA---CTTTGTCTAAAAA
* *
104360 AGTTTATCTGTACATATACATTGATCAAAATAAATCTATGTTTTAAACAAACAATTTATTTTCTA
444 AGTTTATCTGTACAGATACATTGATCAAAATAAATCTATGTTTTAAACAAACAACTTATTTTCTA
*
104425 TAAGCATATTCATTGGTCAGCCTTATTTGGACAAACACAACCATTTGTAATAATAAAAAATAATA
509 TAAGCATATTCATTGGTCAGCCTTATTTGAACAAACACAACCATTTGTAATAATAAAAAATAATA
104490 A
574 A
104491 TTAATGAAAA
Statistics
Matches: 490, Mismatches: 73, Indels: 27
0.83 0.12 0.05
Matches are distributed among these distances:
580 4 0.01
581 79 0.16
582 67 0.14
583 1 0.00
584 3 0.01
585 2 0.00
586 122 0.25
587 210 0.43
588 2 0.00
ACGTcount: A:0.41, C:0.12, G:0.13, T:0.34
Consensus pattern (584 bp):
AATATATAGTATTTAATTAACTTACCTAAGAAAGACATTACATGTTAGAGCAAAAAATAAAAAAT
CATGAACACAAGAATTATAAAAAATCACAAACACAAATGAATCAGTTTAAAGGTGTGCATCAATG
CCACTATCTTTAAAGTTTTATTCGTCTTCACCACAAATGTGCAAAAGAGTTTTCAACATATAAAC
TTCATGAAACAACAAAACCCAACAATTGATTACGTATTACACCGACACAATCAATTACTGAGCAA
CAAACTACAAAATTATTGAACTTTGATAAAAAGTTTTTGAAATAAAATTTTATGAAAAAAATCTG
AGATAATCTAAATATGGGAGGAATAAAAATTAAATATTTTCAGATATAATTTCTTGTTGAACCCA
GAGAAGTATATATAGGTTACTACACGTCTGTCTAAACAGACTTTGTCTAAAAAAGTTTATCTGTA
CAGATACATTGATCAAAATAAATCTATGTTTTAAACAAACAACTTATTTTCTATAAGCATATTCA
TTGGTCAGCCTTATTTGAACAAACACAACCATTTGTAATAATAAAAAATAATAACTAACTTACG
Found at i:105450 original size:4 final size:4
Alignment explanation
Indices: 105441--105470 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
105431 TCAATATAGC
105441 AATA AATA AATA AATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AATA AA
105471 GCAAACATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:105582 original size:26 final size:25
Alignment explanation
Indices: 105528--105580 Score: 90
Period size: 24 Copynumber: 2.1 Consensus size: 25
105518 TTTGAATATG
105528 AAATAATTAAATGATATAATATGATA
1 AAATAATTAAA-GATATAATATGATA
105554 AAATAATTAAA-ATATAATATGATA
1 AAATAATTAAAGATATAATATGATA
105578 AAA
1 AAA
105581 AAATAACATA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
24 16 0.59
26 11 0.41
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.32
Consensus pattern (25 bp):
AAATAATTAAAGATATAATATGATA
Found at i:107285 original size:19 final size:19
Alignment explanation
Indices: 107261--107301 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
107251 CGAGTAATTA
* *
107261 TATTATGTTTTATATATTT
1 TATTATATTTAATATATTT
*
107280 TATTATATTTAATGTATTT
1 TATTATATTTAATATATTT
107299 TAT
1 TAT
107302 ATTTATATAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (19 bp):
TATTATATTTAATATATTT
Found at i:107302 original size:26 final size:24
Alignment explanation
Indices: 107257--107305 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 24
107247 AGTTCGAGTA
107257 ATTATATTATGTTTTATATATTTT
1 ATTATATTATGTTTTATATATTTT
107281 ATTATATTTAATGTATTT-TATATTT
1 ATTATA-TT-ATGT-TTTATATATTT
107306 ATATAAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
24 6 0.27
25 2 0.09
26 11 0.50
27 3 0.14
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (24 bp):
ATTATATTATGTTTTATATATTTT
Found at i:107315 original size:26 final size:26
Alignment explanation
Indices: 107265--107315 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
107255 TAATTATATT
*
107265 ATGTTTTATATATTTTATTATATTTA
1 ATGTTTTATATATTTTATTAAATTTA
107291 ATGTATTT-TATA-TTTATATAAATTT
1 ATGT-TTTATATATTTTAT-TAAATTT
107316 TGATATATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
25 5 0.23
26 14 0.64
27 3 0.14
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (26 bp):
ATGTTTTATATATTTTATTAAATTTA
Found at i:107330 original size:18 final size:17
Alignment explanation
Indices: 107282--107347 Score: 61
Period size: 16 Copynumber: 4.1 Consensus size: 17
107272 ATATATTTTA
**
107282 TTATATTTA-ATGTATT
1 TTATATTTATATAAATT
107298 TTATATTTATATAAATT
1 TTATATTTATATAAATT
107315 TTGATATATTAT-TAAA--
1 TT-ATAT-TTATATAAATT
107331 TTATA-TTATATAAATT
1 TTATATTTATATAAATT
107347 T
1 T
107348 AAAATTTTTA
Statistics
Matches: 42, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
13 4 0.10
14 4 0.10
15 3 0.07
16 12 0.29
17 7 0.17
18 8 0.19
19 4 0.10
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (17 bp):
TTATATTTATATAAATT
Found at i:108231 original size:21 final size:21
Alignment explanation
Indices: 108193--108232 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
108183 TTTTAAAAAG
*
108193 ATAAATCAACTTAAAAATTAA
1 ATAAATCAAATTAAAAATTAA
* *
108214 ATAAATTAAATTAGAAATT
1 ATAAATCAAATTAAAAATT
108233 TTTAAAAAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.60, C:0.05, G:0.03, T:0.33
Consensus pattern (21 bp):
ATAAATCAAATTAAAAATTAA
Found at i:109232 original size:16 final size:17
Alignment explanation
Indices: 109208--109241 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
109198 GATTAATATT
109208 TAAAATTATTTT-AAGA
1 TAAAATTATTTTCAAGA
*
109224 TAAATTTATTTTCAAGA
1 TAAAATTATTTTCAAGA
109241 T
1 T
109242 GATGTCTACA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.47
Consensus pattern (17 bp):
TAAAATTATTTTCAAGA
Found at i:109289 original size:28 final size:29
Alignment explanation
Indices: 109257--109313 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 29
109247 CTACATAAAA
109257 TTTTAAT-TTTTATAAATAAAT-ATTTATT
1 TTTTAATATTTTATAAA-AAATAATTTATT
*
109285 TTTTAATCATTTTATATAAAATAATTTAT
1 TTTTAAT-ATTTTATAAAAAATAATTTAT
109314 GTAATCATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
28 7 0.28
29 4 0.16
30 14 0.56
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (29 bp):
TTTTAATATTTTATAAAAAATAATTTATT
Found at i:112902 original size:16 final size:16
Alignment explanation
Indices: 112881--112930 Score: 100
Period size: 16 Copynumber: 3.1 Consensus size: 16
112871 GCTAATCCTT
112881 ATTGATCGAGGTTAAC
1 ATTGATCGAGGTTAAC
112897 ATTGATCGAGGTTAAC
1 ATTGATCGAGGTTAAC
112913 ATTGATCGAGGTTAAC
1 ATTGATCGAGGTTAAC
112929 AT
1 AT
112931 GAATTCAGCT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.32, C:0.12, G:0.24, T:0.32
Consensus pattern (16 bp):
ATTGATCGAGGTTAAC
Found at i:112962 original size:2 final size:2
Alignment explanation
Indices: 112955--112983 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
112945 GAGATTTTCA
112955 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
112984 CACCTATAGA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:114719 original size:32 final size:32
Alignment explanation
Indices: 114631--115071 Score: 236
Period size: 32 Copynumber: 14.4 Consensus size: 32
114621 AAAGTGGTGA
* * ** *
114631 TTTGAAAAGGGTTGCCATTGACTTGCGTGGGT
1 TTTGAAAAGAGTTGCCACTGACTTATGTGGGC
* * * * * *
114663 TTTAAAAAAAAGGTACCACTAACTTATGTAGGC
1 TTT-GAAAAGAGTTGCCACTGACTTATGTGGGC
** *
114696 TTTGAAAAGAGTTGCCACCAACTTTGTGTGGGC
1 TTTGAAAAGAGTTGCCACTGAC-TTATGTGGGC
**
114729 TTTG-AAAGAG-TGCCACTGAC-T-TGCAGGC
1 TTTGAAAAGAGTTGCCACTGACTTATGTGGGC
* * *
114757 TTTGAAAAAAGAGTTGACACCGACTTGTGTGGGC
1 TTTG--AAAAGAGTTGCCACTGACTTATGTGGGC
*
114791 TTTG-AAAGAATAT--CACTGACTTA--TGGGC
1 TTTGAAAAGAGT-TGCCACTGACTTATGTGGGC
* *
114819 TTTAAAAAG-GATGCCACTGACTTA--TGGGC
1 TTTGAAAAGAGTTGCCACTGACTTATGTGGGC
* *
114848 TTTGAAAAGA--TGCCATTGTC-T-TGTGGGC
1 TTTGAAAAGAGTTGCCACTGACTTATGTGGGC
114876 TTTGAAAAG-G-TGCCACTGA-TT-TGTGGGC
1 TTTGAAAAGAGTTGCCACTGACTTATGTGGGC
* *
114904 TTTG-AAAGGGTATGCCACTGACTTA--TGGAC
1 TTTGAAAAGAGT-TGCCACTGACTTATGTGGGC
* *
114934 TTTGAAATGA--TGCCACTAAC-T-TGTGGGC
1 TTTGAAAAGAGTTGCCACTGACTTATGTGGGC
* * *
114962 TTTGAAAGGGGTTGCCACCGACTTGA-GTGGGC
1 TTTGAAAAGAGTTGCCACTGACTT-ATGTGGGC
* * * * *
114994 TTTGAAATGGGTTGCTACTAACTTGTGTGGGC
1 TTTGAAAAGAGTTGCCACTGACTTATGTGGGC
* * ** *
115026 TTTGAAATGGGTTGCCACCAACTTGTGTGGGC
1 TTTGAAAAGAGTTGCCACTGACTTATGTGGGC
* *
115058 TTTCAAATGAGTTG
1 TTTGAAAAGAGTTG
115072 TCACCAACTT
Statistics
Matches: 323, Mismatches: 55, Indels: 62
0.73 0.12 0.14
Matches are distributed among these distances:
27 7 0.02
28 80 0.25
29 28 0.09
30 33 0.10
31 26 0.08
32 106 0.33
33 34 0.11
34 9 0.03
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.31
Consensus pattern (32 bp):
TTTGAAAAGAGTTGCCACTGACTTATGTGGGC
Found at i:114759 original size:28 final size:29
Alignment explanation
Indices: 114722--115032 Score: 229
Period size: 28 Copynumber: 10.5 Consensus size: 29
114712 ACCAACTTTG
114722 TGTGGGCTTTGAAAGAG-TGCCACTGACT
1 TGTGGGCTTTGAAAGAGATGCCACTGACT
** * * *
114750 TGCAGGCTTTGAAAAAAGAGTTGACACCGACTT
1 TGTGGGCTTTG---AAAGAGATGCCACTGAC-T
**
114783 GTGTGGGCTTTGAAAGA-ATATCACTGACT
1 -TGTGGGCTTTGAAAGAGATGCCACTGACT
* *
114812 TATGGGCTTT-AAAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGA-GATGCCACTGACT
* * *
114841 TATGGGCTTTGAAA-AGATGCCATTGTCT
1 TGTGGGCTTTGAAAGAGATGCCACTGACT
* *
114869 TGTGGGCTTTGAAA-AGGTGCCACTGATT
1 TGTGGGCTTTGAAAGAGATGCCACTGACT
*
114897 TGTGGGCTTTGAAAGGGTATGCCACTGACT
1 TGTGGGCTTTGAAAGAG-ATGCCACTGACT
* * * *
114927 TATGGACTTTGAAA-TGATGCCACTAACT
1 TGTGGGCTTTGAAAGAGATGCCACTGACT
* * *
114955 TGTGGGCTTTGAAAGGGGTTGCCACCGACT
1 TGTGGGCTTTGAAA-GAGATGCCACTGACT
* * * *
114985 TGAGTGGGCTTTGAAATGGGTTGCTACTAACTT
1 T--GTGGGCTTTGAAA-GAGATGCCACTGAC-T
115018 GTGTGGGCTTTGAAA
1 -TGTGGGCTTTGAAA
115033 TGGGTTGCCA
Statistics
Matches: 228, Mismatches: 38, Indels: 30
0.77 0.13 0.10
Matches are distributed among these distances:
27 4 0.02
28 89 0.39
29 24 0.11
30 43 0.19
31 11 0.05
32 45 0.20
33 2 0.01
34 10 0.04
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.31
Consensus pattern (29 bp):
TGTGGGCTTTGAAAGAGATGCCACTGACT
Found at i:114820 original size:62 final size:63
Alignment explanation
Indices: 114676--114826 Score: 175
Period size: 62 Copynumber: 2.4 Consensus size: 63
114666 AAAAAAAAGG
* * *
114676 TACCACTAACTTATGTAGGCTTTG--AAAAGAGTTGCCACCAACTTTGTGTGGGCTTTGAAAGAG
1 TACCACTGACTTATG--GGCTTTGAAAAAAGAGTTGACACCAACTTTGTGTGGGCTTTGAAAGAA
* *** *
114739 TGCCACTGACTTGCAGGCTTTGAAAAAAGAGTTGACACCGAC-TTGTGTGGGCTTTGAAAGAA
1 TACCACTGACTTATGGGCTTTGAAAAAAGAGTTGACACCAACTTTGTGTGGGCTTTGAAAGAA
*
114801 TATCACTGACTTATGGGCTTT-AAAAA
1 TACCACTGACTTATGGGCTTTGAAAAA
114827 GGATGCCACT
Statistics
Matches: 73, Mismatches: 13, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
61 12 0.16
62 35 0.48
63 26 0.36
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (63 bp):
TACCACTGACTTATGGGCTTTGAAAAAAGAGTTGACACCAACTTTGTGTGGGCTTTGAAAGAA
Found at i:114946 original size:86 final size:88
Alignment explanation
Indices: 114784--115005 Score: 249
Period size: 86 Copynumber: 2.5 Consensus size: 88
114774 CACCGACTTG
* * * * *
114784 TGTGGGCTTTGAAAGA-ATAT--CACTGACTTATGGGCTTTAAAAAGG-ATGCCACTGACTTATG
1 TGTGGGCTTTGAAAGAGGT-TGCCACTGATTTGTGGGCTTTGAAAGGGTATGCCACTGACTTATG
* * **
114845 GGCTTTGAAAAGATGCCATTGTCT
65 GACTTTGAAAAGATGCCACTAACT
114869 TGTGGGCTTTGAAA-AGG-TGCCACTGATTTGTGGGCTTTGAAAGGGTATGCCACTGACTTATGG
1 TGTGGGCTTTGAAAGAGGTTGCCACTGATTTGTGGGCTTTGAAAGGGTATGCCACTGACTTATGG
*
114932 ACTTTGAAATGATGCCACTAACT
66 ACTTTGAAAAGATGCCACTAACT
* * *
114955 TGTGGGCTTTGAAAGGGGTTGCCACCGACTTGAGTGGGCTTTGAAATGGGT
1 TGTGGGCTTTGAAAGAGGTTGCCACTGA-TT-TGTGGGCTTTGAAA-GGGT
115006 TGCTACTAAC
Statistics
Matches: 115, Mismatches: 13, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
83 1 0.01
84 1 0.01
85 35 0.30
86 49 0.43
87 2 0.02
88 8 0.07
89 2 0.02
90 13 0.11
91 4 0.03
ACGTcount: A:0.24, C:0.15, G:0.29, T:0.31
Consensus pattern (88 bp):
TGTGGGCTTTGAAAGAGGTTGCCACTGATTTGTGGGCTTTGAAAGGGTATGCCACTGACTTATGG
ACTTTGAAAAGATGCCACTAACT
Found at i:114948 original size:58 final size:58
Alignment explanation
Indices: 114784--115043 Score: 235
Period size: 58 Copynumber: 4.4 Consensus size: 58
114774 CACCGACTTG
** * * *
114784 TGTGGGCTTTGAAAGAATAT--CACTGACTTATGGGCTTTAAAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGGTATGCCACTGACTTATGGGCTTT-GAAATGATGCCACTAACT
* * * * * * * * *
114841 TATGGGCTTTGAAA-AG-ATGCCATTGTCTTGTGGGCTTTGAAAAGGTGCCACTGATT
1 TGTGGGCTTTGAAAGGGTATGCCACTGACTTATGGGCTTTGAAATGATGCCACTAACT
*
114897 TGTGGGCTTTGAAAGGGTATGCCACTGACTTATGGACTTTGAAATGATGCCACTAACT
1 TGTGGGCTTTGAAAGGGTATGCCACTGACTTATGGGCTTTGAAATGATGCCACTAACT
* * *
114955 TGTGGGCTTTGAAAGGGGT-TGCCACCGACTTGAGTGGGCTTTGAAATGGGTTGCTACTAACTT
1 TGTGGGCTTTGAAA-GGGTATGCCACTGACTT-A-TGGGCTTTGAAAT--GATGCCACTAAC-T
115018 GTGTGGGCTTTGAAATGGGT-TGCCAC
1 -TGTGGGCTTTGAAA-GGGTATGCCAC
115044 CAACTTGTGT
Statistics
Matches: 168, Mismatches: 24, Indels: 15
0.81 0.12 0.07
Matches are distributed among these distances:
55 2 0.01
56 28 0.17
57 29 0.17
58 57 0.34
59 5 0.03
60 12 0.07
62 10 0.06
63 1 0.01
64 24 0.14
ACGTcount: A:0.23, C:0.16, G:0.29, T:0.32
Consensus pattern (58 bp):
TGTGGGCTTTGAAAGGGTATGCCACTGACTTATGGGCTTTGAAATGATGCCACTAACT
Found at i:115314 original size:20 final size:20
Alignment explanation
Indices: 115286--115360 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 20
115276 TCATACCCTG
115286 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
115306 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* * *
115326 ATGTATCGATATATTCTACA
1 ATGTATCGATACATTTTTCA
115346 ATGTATCGATACATT
1 ATGTATCGATACATT
115361 ATGTCTTTTT
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:115353 original size:40 final size:39
Alignment explanation
Indices: 115286--115363 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
115276 TCATACCCTG
* *
115286 ATGTATCGATACATTTTTCAATATATCGATACATGTATGA
1 ATGTATCGATACATTCTACAATATATCGATACAT-TATGA
* *
115326 ATGTATCGATATATTCTACAATGTATCGATACATTATG
1 ATGTATCGATACATTCTACAATATATCGATACATTATG
115364 TCTTTTTACC
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.40
Consensus pattern (39 bp):
ATGTATCGATACATTCTACAATATATCGATACATTATGA
Found at i:116300 original size:23 final size:23
Alignment explanation
Indices: 116273--116328 Score: 105
Period size: 22 Copynumber: 2.5 Consensus size: 23
116263 AGCCTTTGAC
116273 CATGCATTTTTTTTATTATGTTT
1 CATGCATTTTTTTTATTATGTTT
116296 CATGCA-TTTTTTTATTATGTTT
1 CATGCATTTTTTTTATTATGTTT
116318 CATGCATTTTT
1 CATGCATTTTT
116329 AACATGTCCA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
22 22 0.69
23 10 0.31
ACGTcount: A:0.18, C:0.11, G:0.09, T:0.62
Consensus pattern (23 bp):
CATGCATTTTTTTTATTATGTTT
Found at i:116335 original size:20 final size:21
Alignment explanation
Indices: 116281--116335 Score: 58
Period size: 22 Copynumber: 2.6 Consensus size: 21
116271 ACCATGCATT
**
116281 TTTTTTATTATGTTTCATGCA
1 TTTTTTAACATGTTTCATGCA
**
116302 TTTTTTTATTATGTTTCATGCA
1 -TTTTTTAACATGTTTCATGCA
116324 -TTTTTAACATGT
1 TTTTTTAACATGT
116336 CCAGCATCTC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 10 0.32
22 21 0.68
ACGTcount: A:0.20, C:0.09, G:0.09, T:0.62
Consensus pattern (21 bp):
TTTTTTAACATGTTTCATGCA
Found at i:118692 original size:28 final size:28
Alignment explanation
Indices: 118632--119173 Score: 350
Period size: 28 Copynumber: 18.4 Consensus size: 28
118622 GTTGCGACAG
* *
118632 TGTGGGCTTTGAAATGAGTTGCCACCAATT
1 TGTGGGCTTTGAAATGA--TGCCACTAACT
* *
118662 TGTGAGCTTTGAAATGATGCCACTGACT
1 TGTGGGCTTTGAAATGATGCCACTAACT
* * *
118690 TGTGGGCTTTAAAATGATGCCATTGACT
1 TGTGGGCTTTGAAATGATGCCACTAACT
* *
118718 TGTGGACTTTTG-AAGGATGCCACTAACT
1 TGTGGGC-TTTGAAATGATGCCACTAACT
* * * *
118746 TGTAGGCTTTGAAAAGATGCCATTGACT
1 TGTGGGCTTTGAAATGATGCCACTAACT
* * *
118774 TATGGACTTTTG-AAGGATGCCACTAACT
1 TGTGGGC-TTTGAAATGATGCCACTAACT
* * *
118802 TATGGGCTTTGAAAAGATGCCACTAAAT
1 TGTGGGCTTTGAAATGATGCCACTAACT
* *
118830 TGTGGGCTTTGAAAAGGTGCCACTAACT
1 TGTGGGCTTTGAAATGATGCCACTAACT
* * *
118858 TGTGGGCTTTAAAAGGGTATGCCACTGACT
1 TGTGGGCTTTGAAA-TG-ATGCCACTAACT
* *
118888 TGTGGACTTTGAAATGATACCACTAACT
1 TGTGGGCTTTGAAATGATGCCACTAACT
* * *
118916 TGTGGGCTTTAAAAGGATGACACTAACT
1 TGTGGGCTTTGAAATGATGCCACTAACT
* * **
118944 TGTGGGCTTAGAAATGGGTTGCCACCGACT
1 TGTGGGCTTTGAAAT--GATGCCACTAACT
* **
118974 TGAGTGGGCTTTAAAATGAGTTGCCACCGACT
1 T--GTGGGCTTTGAAATGA--TGCCACTAACT
* * *
119006 TGTGTAGGCTTTAAAATTGGTTGCCACCAACTT
1 TGTG--GGCTTTGAAA-T-GATGCCACTAAC-T
* **
119039 ATGTGGGCTTTCAAATGAGTTGCCACCGACT
1 -TGTGGGCTTTGAAATGA--TGCCACTAACT
* **
119070 TGTATGGGCTTTAAAATGAGTTGCCACCGACTT
1 TG--TGGGCTTTGAAATGA--TGCCACTAAC-T
* * **
119103 GTGTGGGCTTTAAAATGAGTTGCTACCGACTT
1 -TGTGGGCTTTGAAATGA--TGCCACTAAC-T
*
119135 GTGTGGGCTTTGAAATGATGTCACTAACT
1 -TGTGGGCTTTGAAATGATGCCACTAACT
119164 TGTGGGCTTT
1 TGTGGGCTTT
119174 AAAAGGGTGC
Statistics
Matches: 423, Mismatches: 65, Indels: 50
0.79 0.12 0.09
Matches are distributed among these distances:
27 8 0.02
28 200 0.47
29 10 0.02
30 61 0.14
31 2 0.00
32 132 0.31
33 3 0.01
34 7 0.02
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (28 bp):
TGTGGGCTTTGAAATGATGCCACTAACT
Found at i:118738 original size:56 final size:55
Alignment explanation
Indices: 118668--119971 Score: 424
Period size: 55 Copynumber: 23.1 Consensus size: 55
118658 AATTTGTGAG
* * *
118668 CTTTGAAATGATGCCACTGACTTGTGGGCTTTAAAATGATGCCATTGACTTGTGGA
1 CTTTGAAAGGATGCCACTAACTTGTGGGCTTTAAAA-GATGCCACTGACTTGTGGA
* * *
118724 CTTTTG-AAGGATGCCACTAACTTGTAGGCTTTGAAAAGATGCCATTGACTTATGGA
1 C-TTTGAAAGGATGCCACTAACTTGTGGGCTTT-AAAAGATGCCACTGACTTGTGGA
* * * *
118780 CTTTTG-AAGGATGCCACTAACTTATGGGCTTTGAAAAGATGCCACTAAATTGTGGG
1 C-TTTGAAAGGATGCCACTAACTTGTGGGCTTT-AAAAGATGCCACTGACTTGTGGA
118836 CTTTGAAAAGG-TGCCACTAACTTGTGGGCTTTAAAAGGGTATGCCACTGACTTGTGGA
1 CTTTG-AAAGGATGCCACTAACTTGTGGGCTTTAAAA--G-ATGCCACTGACTTGTGGA
* * * * *
118894 CTTTGAAATGATACCACTAACTTGTGGGCTTTAAAAGGATGACACTAACTTGTGGG
1 CTTTGAAAGGATGCCACTAACTTGTGGGCTTTAAAA-GATGCCACTGACTTGTGGA
* * ** * *
118950 CTTAGAAATGGGTTGCCACCGACTTGAGTGGGCTTTAAAATGAGTTGCCACCGACTTGTGTAGG
1 CTTTGAAA--GGATGCCACTAACTT--GTGGGCTTTAAAA-GA--TGCCACTGACTTGTG--GA
* * * * * *
119014 CTTTAAAATTGGTTGCCACCAACTTATGTGGGCTTTCAAATGAGTTGCCACCGACTTGTATGGG
1 CTTTGAAA--GGATGCCACTAAC-T-TGTGGGCTTT-AAA--AGATGCCACTGACTTG--TGGA
* * ** * * *
119078 CTTTAAAATGAGTTGCCACCGACTTGTGTGGGCTTTAAAATGAGTTGCTACCGACTTGTGTGGG
1 CTTTGAAA-G-GATGCCACTAAC-T-TGTGGGCTTTAAAA-GA--TGCCACTGAC-T-TGTGGA
* * * *
119142 CTTTGAAATGATGTCACTAACTTGTGGGCTTTAAAAGGGTGCCA-TGGAGTTGTGGA
1 CTTTGAAAGGATGCCACTAACTTGTGGGCTTTAAAA-GATGCCACT-GACTTGTGGA
* * * * * * * *
119198 C-TTAAAAGGGTGCCA-TGGAGTTGTGGACTATAAAAGGGTGCCA-TGGAGTTGTGGA
1 CTTTGAAAGGATGCCACT-AACTTGTGGGCTTTAAAA-GATGCCACT-GACTTGTGGA
* * * * * * **
119253 CTTT-AAAAGAGTGCCACGAAGTTATGGAC-TTAAAAGGATGCCA-TGGAGTTGCAGA
1 CTTTGAAAGGA-TGCCACTAACTTGTGGGCTTTAAAA-GATGCCACT-GACTTGTGGA
* * * * * * * * *
119308 CTTTAAAAGGGTGCCAC-AGAGTTATGGACTTTAAAAGGGTGCCACGGAGTTGTGGG
1 CTTTGAAAGGATGCCACTA-ACTTGTGGGCTTTAAAA-GATGCCACTGACTTGTGGA
* * ** * * * * * *
119364 C-TT-AAAAGAGTTCCACGGAGTTGTGGACTTTAAAAGGATGCCACAGAGTTATGAA
1 CTTTGAAAGGA-TGCCACTAACTTGTGGGCTTTAAAA-GATGCCACTGACTTGTGGA
* * * * * * *
119419 C-TTAAAAGGGTGCCAC-AGAGTTATGGACTTTAAAAAGGTGCCAC-GAAGTTGTGGA
1 CTTTGAAAGGATGCCACTA-ACTTGTGGGCTTT-AAAAGATGCCACTG-ACTTGTGGA
* * * * * * * *
119474 CTTT-AAAGGGTACCA-TAGAGTTGTGGACTTTAAAGGGTGCCACGGAGTTGTGGA
1 CTTTGAAAGGATGCCACTA-ACTTGTGGGCTTTAAAAGATGCCACTGACTTGTGGA
* ** * * * * * *
119528 CTTT-AAAGGGTGCCACGGAGTTGTGGACTTTAAAGGGTGCCACGGAGTTGTGGA
1 CTTTGAAAGGATGCCACTAACTTGTGGGCTTTAAAAGATGCCACTGACTTGTGGA
* * * * ** * * *
119582 CTTTAAAAGGATGCCA-TGGAGTTGTAGATTTTAAAAGGATGCCACGGAGTTGTAGA
1 CTTTGAAAGGATGCCACT-AACTTGTGGGCTTTAAAA-GATGCCACTGACTTGTGGA
* * * ** * * * * *
119638 TTTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGTGCCACGGAGTTGTGGA
1 CTTTGAAAGGATGCCACTAACTTGTGGGCTTTAAAAGATGCCACTGACTTGTGGA
* * ** * * * *
119693 CTTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGATGCCA-TGAAGTTATGGA
1 CTTTGAAAGGATGCCACTAACTTGTGGGCTTTAAAA-GATGCCACTG-ACTTGTGGA
* ** * * * * * * * *
119749 C-TTAAAAGGATGCCACGGAGTTGTGGACTTCAAAGGTTGCTACGGAGTTGTGGA
1 CTTTGAAAGGATGCCACTAACTTGTGGGCTTTAAAAGATGCCACTGACTTGTGGA
** * ** * * * * * *
119803 CTTAAAAAGGGTGCCACGGAGTTGTGGACTTTAAAGGGTGCCACGGAATTGTGGA
1 CTTTGAAAGGATGCCACTAACTTGTGGGCTTTAAAAGATGCCACTGACTTGTGGA
* * * * * * *
119858 CTTTAAAAGGGTGCCACGGAA-TTGTGGACATTAAAAGGTTGCCA-TGGAGTTGTGGA
1 CTTTGAAAGGATGCCAC-TAACTTGTGGGCTTTAAAA-GATGCCACT-GACTTGTGGA
* * * * * * * * * * *
119914 CTTTAAAAGGTTACCACGAAGTTGTCGACTTTAAAGGGTGCCACAGAGTTGTGGA
1 CTTTGAAAGGATGCCACTAACTTGTGGGCTTTAAAAGATGCCACTGACTTGTGGA
119969 CTT
1 CTT
119972 AAAATGTTGC
Statistics
Matches: 1043, Mismatches: 144, Indels: 123
0.80 0.11 0.09
Matches are distributed among these distances:
54 95 0.09
55 405 0.39
56 297 0.28
57 20 0.02
58 60 0.06
60 30 0.03
61 2 0.00
62 21 0.02
63 5 0.00
64 96 0.09
65 5 0.00
66 6 0.01
67 1 0.00
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.28
Consensus pattern (55 bp):
CTTTGAAAGGATGCCACTAACTTGTGGGCTTTAAAAGATGCCACTGACTTGTGGA
Found at i:118793 original size:84 final size:84
Alignment explanation
Indices: 118632--119922 Score: 364
Period size: 83 Copynumber: 15.2 Consensus size: 84
118622 GTTGCGACAG
* * * * * *
118632 TGTGGGCTTTGAAATGAGTTGCCACCAATTTGTGAGCTTTGAAATGATGCCACTGACTTGTGGGC
1 TGTGGACTTTGAAA--AGATGCCACTAACTTGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGC
* *
118697 TTTAAAATGATGCCATTGACT
64 TTTAAAAGGATGCCACTGACT
* * * * *
118718 TGTGGACTTTTG-AAGGATGCCACTAACTTGTAGGCTTTGAAAAGATGCCATTGACTTATGGACT
1 TGTGGAC-TTTGAAAAGATGCCACTAACTTGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGCT
** *
118782 TTTGAAGGATGCCACTAACT
65 TTAAAAGGATGCCACTGACT
* * * * *
118802 TATGGGCTTTGAAAAGATGCCACTAAATTGTGGGCTTTGAAAAGGTGCCACTAACTTGTGGGCTT
1 TGTGGACTTTGAAAAGATGCCACTAACTTGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTT
118867 TAAAAGGGTATGCCACTGACT
66 TAAAA-GG-ATGCCACTGACT
* * * *
118888 TGTGGACTTTGAAATGATACCACTAACTTGTGGGCTTT-AAAAGGATGACACTAACTTGTGGGC-
1 TGTGGACTTTGAAAAGATGCCACTAACTTGTGGGCTTTGAAAA-GATGCCACTGACTTGTGGGCT
* *
118951 TTAGAAATGGGTTGCCACCGACT
65 TTA-AAA--GGATGCCACTGACT
* ** * **
118974 TGAGTGGGCTTT-AAAATGAGTTGCCACCGACTTGTGTAGGCTTT-AAAATTGGTTGCCACCAAC
1 T--GTGGACTTTGAAAA-GA--TGCCACTAACTTGTG--GGCTTTGAAAA---GATGCCACTGAC
* * *
119037 TTATGTGGGCTTTCAAATGAGTTGCCACCGACT
56 -T-TGTGGGCTTT-AAAAG-GATGCCACTGACT
* ** * *
119070 TGTATGGGCTTT-AAAATGAGTTGCCACCGACTTGTGTGGGCTTT-AAAATGAGTTGCTACCGAC
1 TG--TGGACTTTGAAAA-GA--TGCCACTAAC-T-TGTGGGCTTTGAAAA-GA--TGCCACTGAC
* * * *
119133 TTGTGTGGGCTTTGAAATGATGTCACTAACT
56 -T-TGTGGGCTTTAAAAGGATGCCACTGACT
* * * * * * *
119164 TGTGGGCTTT-AAAAGGGTGCCA-TGGAGTTGTGGAC-TT-AAAAGGGTGCCA-TGGAGTTGTGG
1 TGTGGACTTTGAAAA-GATGCCACT-AACTTGTGGGCTTTGAAAA-GATGCCACT-GACTTGTGG
* * * *
119224 ACTATAAAAGGGTGCCA-TGGAGT
62 GCTTTAAAAGGATGCCACT-GACT
* * * * * ** *
119247 TGTGGACTTT-AAAAGAGTGCCACGAAGTTATGGAC-TT-AAAAGGATGCCA-TGGAGTTGCAGA
1 TGTGGACTTTGAAAAGA-TGCCACTAACTTGTGGGCTTTGAAAA-GATGCCACT-GACTTGTGGG
* * *
119308 CTTTAAAAGGGTGCCACAGAGT
63 CTTTAAAAGGATGCCACTGACT
* * ** * * * * *
119330 TATGGACTTT-AAAAGGGTGCCACGGAGTTGTGGGC-TT-AAAAGAGTTCCACGGAGTTGTGGAC
1 TGTGGACTTTGAAAA-GATGCCACTAACTTGTGGGCTTTGAAAAGA-TGCCACTGACTTGTGGGC
* *
119392 TTTAAAAGGATGCCACAGAGT
64 TTTAAAAGGATGCCACTGACT
* * * * * * * * * *
119413 TATGAAC-TT-AAAAGGGTGCCAC-AGAGTTATGGACTTTAAAAAGGTGCCAC-GAAGTTGTGGA
1 TGTGGACTTTGAAAA-GATGCCACTA-ACTTGTGGGCTTTGAAAAGATGCCACTG-ACTTGTGGG
* * *
119474 CTTT-AAAGGGTACCA-TAGAGT
63 CTTTAAAAGGATGCCACT-GACT
* * ** * * * * * * *
119495 TGTGGACTTT-AAAGGGTGCCACGGAGTTGTGGACTTT-AAAGGGTGCCACGGAGTTGTGGACTT
1 TGTGGACTTTGAAAAGATGCCACTAACTTGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTT
* * *
119558 T-AAAGGGTGCCACGGAGT
66 TAAAAGGATGCCACTGACT
* * * * * * * * *
119576 TGTGGACTTT-AAAAGGATGCCA-TGGAGTTGT-AGATTTTAAAAGGATGCCACGGAGTTGTAGA
1 TGTGGACTTTGAAAA-GATGCCACT-AACTTGTGGGCTTTGAAAA-GATGCCACTGACTTGTGGG
* * * *
119638 TTTTAAAAGGGTGCCACGGAGT
63 CTTTAAAAGGATGCCACTGACT
* ** * * * * * *
119660 TGTGGACTTT-AAAAGGTGCCACGGAGTTGTGGACTTT-AAAAGGGTGCCACGGAGTTGTGGACT
1 TGTGGACTTTGAAAAGATGCCACTAACTTGTGGGCTTTGAAAA-GATGCCACTGACTTGTGGGCT
*
119723 TTAAAAGGATGCCA-TGAAGT
65 TTAAAAGGATGCCACTG-ACT
* ** * * * * * * * * *
119743 TATGGAC-TT-AAAAGGATGCCACGGAGTTGTGGAC-TTCAAAGGTTGCTACGGAGTTGTGGACT
1 TGTGGACTTTGAAAA-GATGCCACTAACTTGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGCT
* * * *
119805 TAAAAAGGGTGCCACGGAGT
65 TTAAAAGGATGCCACTGACT
* * * * * * * *
119825 TGTGGACTTT-AAAGGGTGCCACGGAA-TTGTGGACTTT-AAAAGGGTGCCACGGAATTGTGGAC
1 TGTGGACTTTGAAAAGATGCCAC-TAACTTGTGGGCTTTGAAAA-GATGCCACTGACTTGTGGGC
* * *
119887 ATTAAAAGGTTGCCA-TGGAGT
64 TTTAAAAGGATGCCACT-GACT
119908 TGTGGACTTT-AAAAG
1 TGTGGACTTTGAAAAG
119923 GTTACCACGA
Statistics
Matches: 989, Mismatches: 155, Indels: 125
0.78 0.12 0.10
Matches are distributed among these distances:
81 54 0.05
82 150 0.15
83 346 0.35
84 149 0.15
85 15 0.02
86 84 0.08
87 17 0.02
88 16 0.02
89 1 0.00
90 19 0.02
92 23 0.02
94 23 0.02
95 4 0.00
96 78 0.08
97 5 0.01
98 5 0.01
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.28
Consensus pattern (84 bp):
TGTGGACTTTGAAAAGATGCCACTAACTTGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTT
TAAAAGGATGCCACTGACT
Found at i:118981 original size:32 final size:32
Alignment explanation
Indices: 118945--119152 Score: 271
Period size: 32 Copynumber: 6.5 Consensus size: 32
118935 ACACTAACTT
*
118945 GTGGGC-TTAGAAATGGGTTGCCACCGACTTGA
1 GTGGGCTTTA-AAATGAGTTGCCACCGACTTGA
*
118977 GTGGGCTTTAAAATGAGTTGCCACCGACTTGT
1 GTGGGCTTTAAAATGAGTTGCCACCGACTTGA
* *
119009 GTAGGCTTTAAAATTG-GTTGCCACCAACTT-A
1 GTGGGCTTTAAAA-TGAGTTGCCACCGACTTGA
*
119040 TGTGGGCTTTCAAATGAGTTGCCACCGACTTGTA
1 -GTGGGCTTTAAAATGAGTTGCCACCGACTTG-A
*
119074 -TGGGCTTTAAAATGAGTTGCCACCGACTTGT
1 GTGGGCTTTAAAATGAGTTGCCACCGACTTGA
* *
119105 GTGGGCTTTAAAATGAGTTGCTACCGACTTGT
1 GTGGGCTTTAAAATGAGTTGCCACCGACTTGA
*
119137 GTGGGCTTTGAAATGA
1 GTGGGCTTTAAAATGA
119153 TGTCACTAAC
Statistics
Matches: 157, Mismatches: 12, Indels: 14
0.86 0.07 0.08
Matches are distributed among these distances:
31 2 0.01
32 149 0.95
33 5 0.03
34 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.31
Consensus pattern (32 bp):
GTGGGCTTTAAAATGAGTTGCCACCGACTTGA
Found at i:119112 original size:96 final size:94
Alignment explanation
Indices: 118830--119152 Score: 330
Period size: 96 Copynumber: 3.5 Consensus size: 94
118820 GCCACTAAAT
* * * *
118830 TGTGGGCTTTGAAAA-GG-TGCCACTAAC-TTGTGGGCTTT-AAAAGGGTATGCCACTGACTT--
1 TGTGGGCTTT-AAAATGGTTGCCACCAACTTTGTGGGCTTTGAAATGAGT-TGCCACCGACTTGA
* * * **
118889 GTGGACTTTGAAATGA--TACCACTAAC-T-
64 GTGGGCTTTAAAATGAGTTGCCACCGACTTG
* * * * *
118916 TGTGGGCTTTAAAA-GGATGACACTAAC-TTGTGGGCTTAGAAATGGGTTGCCACCGACTTGAGT
1 TGTGGGCTTTAAAATGGTTGCCACCAACTTTGTGGGCTTTGAAATGAGTTGCCACCGACTTGAGT
118979 GGGCTTTAAAATGAGTTGCCACCGACTTG
66 GGGCTTTAAAATGAGTTGCCACCGACTTG
* *
119008 TGTAGGCTTTAAAATTGGTTGCCACCAACTTATGTGGGCTTTCAAATGAGTTGCCACCGACTTGT
1 TGTGGGCTTTAAAA-TGGTTGCCACCAACTT-TGTGGGCTTTGAAATGAGTTGCCACCGACTTG-
119073 A-TGGGCTTTAAAATGAGTTGCCACCGACTTG
63 AGTGGGCTTTAAAATGAGTTGCCACCGACTTG
* *
119104 TGTGGGCTTTAAAATGAGTTGCTACCGACTTGTGTGGGCTTTGAAATGA
1 TGTGGGCTTTAAAATG-GTTGCCACCAACTT-TGTGGGCTTTGAAATGA
119153 TGTCACTAAC
Statistics
Matches: 202, Mismatches: 21, Indels: 18
0.84 0.09 0.07
Matches are distributed among these distances:
85 6 0.03
86 40 0.20
87 7 0.03
88 14 0.07
90 7 0.03
91 1 0.00
92 13 0.06
94 10 0.05
95 3 0.01
96 100 0.50
97 1 0.00
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (94 bp):
TGTGGGCTTTAAAATGGTTGCCACCAACTTTGTGGGCTTTGAAATGAGTTGCCACCGACTTGAGT
GGGCTTTAAAATGAGTTGCCACCGACTTG
Found at i:119151 original size:64 final size:64
Alignment explanation
Indices: 118944--119152 Score: 305
Period size: 64 Copynumber: 3.3 Consensus size: 64
118934 GACACTAACT
* *
118944 TGTGGGC-TTAGAAATGGGTTGCCACCGACTTGAGTGGGCTTTAAAATGAGTTGCCACCGACTTG
1 TGTGGGCTTTA-AAATGAGTTGCCACCGACTTGTGTGGGCTTTAAAATGAGTTGCCACCGACTTG
* * * *
119008 TGTAGGCTTTAAAATTG-GTTGCCACCAACTTATGTGGGCTTTCAAATGAGTTGCCACCGACTTG
1 TGTGGGCTTTAAAA-TGAGTTGCCACCGACTTGTGTGGGCTTTAAAATGAGTTGCCACCGACTTG
* *
119072 TATGGGCTTTAAAATGAGTTGCCACCGACTTGTGTGGGCTTTAAAATGAGTTGCTACCGACTTG
1 TGTGGGCTTTAAAATGAGTTGCCACCGACTTGTGTGGGCTTTAAAATGAGTTGCCACCGACTTG
*
119136 TGTGGGCTTTGAAATGA
1 TGTGGGCTTTAAAATGA
119153 TGTCACTAAC
Statistics
Matches: 129, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
63 2 0.02
64 122 0.95
65 5 0.04
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.32
Consensus pattern (64 bp):
TGTGGGCTTTAAAATGAGTTGCCACCGACTTGTGTGGGCTTTAAAATGAGTTGCCACCGACTTG
Found at i:119194 original size:28 final size:28
Alignment explanation
Indices: 119163--120114 Score: 1173
Period size: 28 Copynumber: 34.6 Consensus size: 28
119153 TGTCACTAAC
* *
119163 TTGTGGGCTTTAAAAGGGTGCCATGGAG
1 TTGTGGACTTTAAAAGGGTGCCACGGAG
*
119191 TTGTGGAC-TTAAAAGGGTGCCATGGAG
1 TTGTGGACTTTAAAAGGGTGCCACGGAG
* *
119218 TTGTGGACTATAAAAGGGTGCCATGGAG
1 TTGTGGACTTTAAAAGGGTGCCACGGAG
* *
119246 TTGTGGACTTTAAAAGAGTGCCACGAAG
1 TTGTGGACTTTAAAAGGGTGCCACGGAG
* * *
119274 TTATGGAC-TTAAAAGGATGCCATGGAG
1 TTGTGGACTTTAAAAGGGTGCCACGGAG
** *
119301 TTGCAGACTTTAAAAGGGTGCCACAGAG
1 TTGTGGACTTTAAAAGGGTGCCACGGAG
*
119329 TTATGGACTTTAAAAGGGTGCCACGGAG
1 TTGTGGACTTTAAAAGGGTGCCACGGAG
* * *
119357 TTGTGGGC-TTAAAAGAGTTCCACGGAG
1 TTGTGGACTTTAAAAGGGTGCCACGGAG
* *
119384 TTGTGGACTTTAAAAGGATGCCACAGAG
1 TTGTGGACTTTAAAAGGGTGCCACGGAG
* * *
119412 TTATGAAC-TTAAAAGGGTGCCACAGAG
1 TTGTGGACTTTAAAAGGGTGCCACGGAG
* * *
119439 TTATGGACTTTAAAAAGGTGCCACGAAG
1 TTGTGGACTTTAAAAGGGTGCCACGGAG
* **
119467 TTGTGGACTTT-AAAGGGTACCATAGAG
1 TTGTGGACTTTAAAAGGGTGCCACGGAG
119494 TTGTGGACTTT-AAAGGGTGCCACGGAG
1 TTGTGGACTTTAAAAGGGTGCCACGGAG
119521 TTGTGGACTTT-AAAGGGTGCCACGGAG
1 TTGTGGACTTTAAAAGGGTGCCACGGAG
119548 TTGTGGACTTT-AAAGGGTGCCACGGAG
1 TTGTGGACTTTAAAAGGGTGCCACGGAG
* *
119575 TTGTGGACTTTAAAAGGATGCCATGGAG
1 TTGTGGACTTTAAAAGGGTGCCACGGAG
* * *
119603 TTGTAGATTTTAAAAGGATGCCACGGAG
1 TTGTGGACTTTAAAAGGGTGCCACGGAG
* *
119631 TTGTAGATTTTAAAAGGGTGCCACGGAG
1 TTGTGGACTTTAAAAGGGTGCCACGGAG
119659 TTGTGGACTTTAAAA-GGTGCCACGGAG
1 TTGTGGACTTTAAAAGGGTGCCACGGAG
119686 TTGTGGACTTTAAAAGGGTGCCACGGAG
1 TTGTGGACTTTAAAAGGGTGCCACGGAG
* * *
119714 TTGTGGACTTTAAAAGGATGCCATGAAG
1 TTGTGGACTTTAAAAGGGTGCCACGGAG
* *
119742 TTATGGAC-TTAAAAGGATGCCACGGAG
1 TTGTGGACTTTAAAAGGGTGCCACGGAG
* * *
119769 TTGTGGAC-TTCAAAGGTTGCTACGGAG
1 TTGTGGACTTTAAAAGGGTGCCACGGAG
*
119796 TTGTGGACTTAAAAAGGGTGCCACGGAG
1 TTGTGGACTTTAAAAGGGTGCCACGGAG
*
119824 TTGTGGACTTT-AAAGGGTGCCACGGAA
1 TTGTGGACTTTAAAAGGGTGCCACGGAG
*
119851 TTGTGGACTTTAAAAGGGTGCCACGGAA
1 TTGTGGACTTTAAAAGGGTGCCACGGAG
* * *
119879 TTGTGGACATTAAAAGGTTGCCATGGAG
1 TTGTGGACTTTAAAAGGGTGCCACGGAG
* * *
119907 TTGTGGACTTTAAAAGGTTACCACGAAG
1 TTGTGGACTTTAAAAGGGTGCCACGGAG
* *
119935 TTGTCGACTTT-AAAGGGTGCCACAGAG
1 TTGTGGACTTTAAAAGGGTGCCACGGAG
* *
119962 TTGTGGAC-TTAAAATGTTGCCACGGAG
1 TTGTGGACTTTAAAAGGGTGCCACGGAG
* * *
119989 TTGTAGACTTTAAAAGGGTGCCACAGAA
1 TTGTGGACTTTAAAAGGGTGCCACGGAG
** * *
120017 TTGTGGACTTTAAAAGATTGCCACGAAA
1 TTGTGGACTTTAAAAGGGTGCCACGGAG
* * *
120045 CTGTGGAC-TTAAAAGTGTGCTACGGAG
1 TTGTGGACTTTAAAAGGGTGCCACGGAG
*
120072 TTGTGGAC-TTAAAAGAGTGCCACGGAG
1 TTGTGGACTTTAAAAGGGTGCCACGGAG
*
120099 TTGTGAAC-TTAAAAGG
1 TTGTGGACTTTAAAAGG
120115 AATACCACAG
Statistics
Matches: 806, Mismatches: 108, Indels: 21
0.86 0.12 0.02
Matches are distributed among these distances:
26 2 0.00
27 388 0.48
28 416 0.52
ACGTcount: A:0.29, C:0.14, G:0.31, T:0.26
Consensus pattern (28 bp):
TTGTGGACTTTAAAAGGGTGCCACGGAG
Found at i:120135 original size:55 final size:54
Alignment explanation
Indices: 119163--120114 Score: 1087
Period size: 55 Copynumber: 17.3 Consensus size: 54
119153 TGTCACTAAC
* * *
119163 TTGTGGGCTTTAAAAGGGTGCCATGGAGTTGTGGACTTAAAAGGGTGCCATGGAG
1 TTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAG
* * *
119218 TTGTGGACTATAAAAGGGTGCCATGGAGTTGTGGACTTTAAAAGAGTGCCACGAAG
1 TTGTGGACT-TAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAG
* * * ** *
119274 TTATGGACTTAAAAGGATGCCATGGAGTTGCAGACTTTAAAAGGGTGCCACAGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAG
* * * *
119329 TTATGGACTTTAAAAGGGTGCCACGGAGTTGTGGGCTTAAAAGAGTTCCACGGAG
1 TTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAG
* * * * *
119384 TTGTGGACTTTAAAAGGATGCCACAGAGTTATGAACTTAAAAGGGTGCCACAGAG
1 TTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAG
* * * * * **
119439 TTATGGACTTTAAAAAGGTGCCACGAAGTTGTGGACTTTAAAGGGTACCATAGAG
1 TTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAG
* *
119494 TTGTGGACTTTAAAGGGTGCCACGGAGTTGTGGACTTTAAAGGGTGCCACGGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAG
* * *
119548 TTGTGGACTTTAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGATGCCATGGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAG
* * * * *
119603 TTGTAGATTTTAAAAGGATGCCACGGAGTTGTAGATTTTAAAAGGGTGCCACGGAG
1 TTGTGGA-CTTAAAAGGGTGCCACGGAGTTGTGGA-CTTAAAAGGGTGCCACGGAG
119659 TTGTGGACTTTAAAA-GGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAG
1 TTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAG
* * * * *
119714 TTGTGGACTTTAAAAGGATGCCATGAAGTTATGGACTTAAAAGGATGCCACGGAG
1 TTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAG
* * *
119769 TTGTGGACTTCAAAGGTTGCTACGGAGTTGTGGACTTAAAAAGGGTGCCACGGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTT-AAAAGGGTGCCACGGAG
* * *
119824 TTGTGGACTTTAAAGGGTGCCACGGAATTGTGGACTTTAAAAGGGTGCCACGGAA
1 TTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAG
* * * * *
119879 TTGTGGACATTAAAAGGTTGCCATGGAGTTGTGGACTTTAAAAGGTTACCACGAAG
1 TTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAG
* * * * *
119935 TTGTCGACTTTAAAGGGTGCCACAGAGTTGTGGACTTAAAATGTTGCCACGGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAG
* * * ** * *
119989 TTGTAGACTTTAAAAGGGTGCCACAGAATTGTGGACTTTAAAAGATTGCCACGAAA
1 TTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAG
* * * *
120045 CTGTGGACTTAAAAGTGTGCTACGGAGTTGTGGACTTAAAAGAGTGCCACGGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAG
*
120099 TTGTGAACTTAAAAGG
1 TTGTGGACTTAAAAGG
120115 AATACCACAG
Statistics
Matches: 770, Mismatches: 113, Indels: 29
0.84 0.12 0.03
Matches are distributed among these distances:
54 151 0.20
55 436 0.57
56 183 0.24
ACGTcount: A:0.29, C:0.14, G:0.31, T:0.26
Consensus pattern (54 bp):
TTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAG
Found at i:125114 original size:96 final size:97
Alignment explanation
Indices: 124994--125192 Score: 278
Period size: 96 Copynumber: 2.1 Consensus size: 97
124984 AACGGGATTG
* * *
124994 GAGTATCCCCTTGGAGGAACGGGGTT-AGAGTGT-CCTCGATGATGACAATTTAAGTGAGAATAA
1 GAGTATCCCCTCGCAAGAACGGGGTTGA-AGTGTCCCT-GATGATGACAATTTAAGTGAGAATAA
*
125057 -ATTTAAACTTTGATACGTTTAAAAGCGGGGTTA
64 GATTTAAACTTTGATACGTTTAAAAGCGAGGTTA
* *
125090 GAGTATCCCCTCGCAAGAATGGGGTTGAAGTGTCCCTGATGGTGACAATTTAAGTGAGAATAAGA
1 GAGTATCCCCTCGCAAGAACGGGGTTGAAGTGTCCCTGATGATGACAATTTAAGTGAGAATAAGA
** *
125155 TTTAAACTTTGATGTGTTTAAAAGCGAGGTTG
66 TTTAAACTTTGATACGTTTAAAAGCGAGGTTA
125187 GAGTAT
1 GAGTAT
125193 TCTCTCAGAG
Statistics
Matches: 91, Mismatches: 9, Indels: 5
0.87 0.09 0.05
Matches are distributed among these distances:
96 52 0.57
97 39 0.43
ACGTcount: A:0.31, C:0.12, G:0.28, T:0.30
Consensus pattern (97 bp):
GAGTATCCCCTCGCAAGAACGGGGTTGAAGTGTCCCTGATGATGACAATTTAAGTGAGAATAAGA
TTTAAACTTTGATACGTTTAAAAGCGAGGTTA
Found at i:125212 original size:97 final size:96
Alignment explanation
Indices: 125022--125226 Score: 263
Period size: 97 Copynumber: 2.1 Consensus size: 96
125012 ACGGGGTTAG
*
125022 AGTGT-CCTCGATGATGACAATTTAAGTGAGAATAAATTTAAACTTTGATACGTTTAAAAGCGGG
1 AGTGTCCCT-GATGATGACAATTTAAGTGAGAATAAATTTAAACTTTGATACGTTTAAAAGCGAG
*
125086 GTTAGAGTATCCCCTCGCAAGAATGGGGTTGA
65 GTTAGAGTATCCCCTCGCAAGAATAGGGTTGA
* **
125118 AGTGTCCCTGATGGTGACAATTTAAGTGAGAATAAGATTTAAACTTTGATGTGTTTAAAAGCGAG
1 AGTGTCCCTGATGATGACAATTTAAGTGAGAATAA-ATTTAAACTTTGATACGTTTAAAAGCGAG
* * * *
125183 GTTGGAGTAT--TCTCTCAGAGAAATAGGGTTGG
65 GTTAGAGTATCCCCTCGCA-AG-AATAGGGTTGA
*
125215 AGTATCCCTGAT
1 AGTGTCCCTGAT
125227 AATAAAATTT
Statistics
Matches: 95, Mismatches: 10, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
95 5 0.05
96 32 0.34
97 58 0.61
ACGTcount: A:0.31, C:0.12, G:0.26, T:0.31
Consensus pattern (96 bp):
AGTGTCCCTGATGATGACAATTTAAGTGAGAATAAATTTAAACTTTGATACGTTTAAAAGCGAGG
TTAGAGTATCCCCTCGCAAGAATAGGGTTGA
Found at i:126807 original size:17 final size:17
Alignment explanation
Indices: 126785--126817 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
126775 ATATAGGTTT
126785 TTTTTTTCTTTTCATCC
1 TTTTTTTCTTTTCATCC
*
126802 TTTTTTTTTTTTCATC
1 TTTTTTTCTTTTCATC
126818 TTCTTTCTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.06, C:0.18, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTTTTTCTTTTCATCC
Found at i:127700 original size:24 final size:23
Alignment explanation
Indices: 127668--127730 Score: 63
Period size: 23 Copynumber: 2.7 Consensus size: 23
127658 TGTAACTTTT
* * *
127668 TCTTGAAATTAATAAAAAAATTA
1 TCTTTAAAATAATAAAAAAATAA
* * *
127691 TTTTTAAAATGATAAATAAATAA
1 TCTTTAAAATAATAAAAAAATAA
127714 TCTTTAAACATAATAAA
1 TCTTTAAA-ATAATAAA
127731 TATTTATAAA
Statistics
Matches: 31, Mismatches: 8, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
23 24 0.77
24 7 0.23
ACGTcount: A:0.56, C:0.05, G:0.03, T:0.37
Consensus pattern (23 bp):
TCTTTAAAATAATAAAAAAATAA
Found at i:127705 original size:23 final size:24
Alignment explanation
Indices: 127677--127730 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 24
127667 TTCTTGAAAT
* *
127677 TAATAAAAAAATTATTTTTAAA-A
1 TAATAAAAAAATAATCTTTAAACA
* *
127700 TGATAAATAAATAATCTTTAAACA
1 TAATAAAAAAATAATCTTTAAACA
127724 TAATAAA
1 TAATAAA
127731 TATTTATAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
23 18 0.72
24 7 0.28
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.35
Consensus pattern (24 bp):
TAATAAAAAAATAATCTTTAAACA
Found at i:129061 original size:21 final size:21
Alignment explanation
Indices: 129012--129054 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 21
129002 TTCTCCTTCT
129012 TCTTC-TCGGTCTTCTACATCA
1 TCTTCATC-GTCTTCTACATCA
129033 TCTTCATCGTCTT-TATCATCA
1 TCTTCATCGTCTTCTA-CATCA
129054 T
1 T
129055 GCTCATCATC
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
20 2 0.10
21 16 0.80
22 2 0.10
ACGTcount: A:0.16, C:0.30, G:0.07, T:0.47
Consensus pattern (21 bp):
TCTTCATCGTCTTCTACATCA
Done.