Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01014151.1 Kokia drynarioides strain JFW-HI SEQ_129184, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 213683
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 74 characters in sequence are not A, C, G, or T
Found at i:1462 original size:14 final size:15
Alignment explanation
Indices: 1443--1475 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
1433 AATATTAATT
1443 TTTTTTAAAAAAT-A
1 TTTTTTAAAAAATCA
*
1457 TTTTTTCAAAAATCA
1 TTTTTTAAAAAATCA
1472 TTTT
1 TTTT
1476 CAATAAACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.55
Consensus pattern (15 bp):
TTTTTTAAAAAATCA
Found at i:2029 original size:20 final size:22
Alignment explanation
Indices: 1996--2036 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
1986 TGTAAAATTA
*
1996 TTAAAAATTCAATA-TATTTTT
1 TTAAAAAATCAATATTATTTTT
2017 TTAAAAAAT-AATATTATTTT
1 TTAAAAAATCAATATTATTTT
2037 GAAAATATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.51
Consensus pattern (22 bp):
TTAAAAAATCAATATTATTTTT
Found at i:8254 original size:29 final size:30
Alignment explanation
Indices: 8221--8277 Score: 89
Period size: 29 Copynumber: 1.9 Consensus size: 30
8211 TAGTTTAATA
*
8221 TGCAATTGTATACGT-AAACTTTGATTTTG
1 TGCAATTGTATACATGAAACTTTGATTTTG
*
8250 TGCAATTGTATACATGAAATTTTGATTT
1 TGCAATTGTATACATGAAACTTTGATTT
8278 AATTTAATTC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 14 0.56
30 11 0.44
ACGTcount: A:0.30, C:0.09, G:0.16, T:0.46
Consensus pattern (30 bp):
TGCAATTGTATACATGAAACTTTGATTTTG
Found at i:16151 original size:20 final size:20
Alignment explanation
Indices: 16092--16143 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
16082 AGTTTATAAA
*
16092 TATTTTGAA-TTTTAAAAAT
1 TATTTTGAATTTTTGAAAAT
16111 TATTTTGAATTTTTGAAAAT
1 TATTTTGAATTTTTGAAAAT
16131 TATTTTG-ATTTTT
1 TATTTTGAATTTTT
16144 TTGTAATTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 15 0.48
20 16 0.52
ACGTcount: A:0.33, C:0.00, G:0.08, T:0.60
Consensus pattern (20 bp):
TATTTTGAATTTTTGAAAAT
Found at i:19212 original size:22 final size:22
Alignment explanation
Indices: 19170--19217 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
19160 TTTGAACAAC
* *
19170 TTTTTTCTGAATTTTAATAATT
1 TTTTTTCTCAATTTTAATAATG
**
19192 TTTTTTCTCAATTTTTTTAATG
1 TTTTTTCTCAATTTTAATAATG
19214 TTTT
1 TTTT
19218 AAAGAACTCT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.21, C:0.06, G:0.04, T:0.69
Consensus pattern (22 bp):
TTTTTTCTCAATTTTAATAATG
Found at i:35557 original size:18 final size:17
Alignment explanation
Indices: 35523--35566 Score: 63
Period size: 18 Copynumber: 2.6 Consensus size: 17
35513 TGATGTGAAC
*
35523 TAAAACTAAAAACAAAA
1 TAAAACTAAAAAAAAAA
35540 TAAAACTACAAAAAAAAA
1 TAAAACTA-AAAAAAAAA
35558 TAAAA-TAAA
1 TAAAACTAAA
35567 TAAGAAACCA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
16 2 0.08
17 10 0.40
18 13 0.52
ACGTcount: A:0.77, C:0.09, G:0.00, T:0.14
Consensus pattern (17 bp):
TAAAACTAAAAAAAAAA
Found at i:51602 original size:17 final size:17
Alignment explanation
Indices: 51580--51612 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
51570 CTTTTTATAA
51580 AATTAA-TATTAAAAATT
1 AATTAATTA-TAAAAATT
51597 AATTAATTATAAAAAT
1 AATTAATTATAAAAAT
51613 ATATGAGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 13 0.87
18 2 0.13
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
AATTAATTATAAAAATT
Found at i:53925 original size:80 final size:80
Alignment explanation
Indices: 53792--53951 Score: 284
Period size: 80 Copynumber: 2.0 Consensus size: 80
53782 TAACCCATCA
* *
53792 AATCTTACTTGTTTTAACTGTAAACACGCAATGTTAGATGGCCTTACTCTTGAGACATAGACAAA
1 AATCTTACTGGCTTTAACTGTAAACACGCAATGTTAGATGGCCTTACTCTTGAGACATAGACAAA
53857 TAAATATGGACCCAT
66 TAAATATGGACCCAT
* *
53872 AATCTTACTGGCTTTAACTGTAAACATGCAATGTTAGATGGCCTTACTCTTGAGACATGGACAAA
1 AATCTTACTGGCTTTAACTGTAAACACGCAATGTTAGATGGCCTTACTCTTGAGACATAGACAAA
53937 TAAATATGGACCCAT
66 TAAATATGGACCCAT
53952 TTCATCCATG
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
80 76 1.00
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (80 bp):
AATCTTACTGGCTTTAACTGTAAACACGCAATGTTAGATGGCCTTACTCTTGAGACATAGACAAA
TAAATATGGACCCAT
Found at i:55146 original size:2 final size:2
Alignment explanation
Indices: 55139--55202 Score: 128
Period size: 2 Copynumber: 32.0 Consensus size: 2
55129 CTAAAACCGA
55139 AT AT AT AT 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 AT AT AT AT
55181 AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT
55203 TACGGTAAAG
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 62 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:56629 original size:32 final size:33
Alignment explanation
Indices: 56565--56629 Score: 87
Period size: 32 Copynumber: 2.0 Consensus size: 33
56555 TCATAACTAA
* *
56565 AATAATTTATAATCATATAAAATTTGAGATATT
1 AATAAATTATAATCATATAAAATTTGAAATATT
* *
56598 AATAAATTA-AATTATATAAAATTTTAAATATT
1 AATAAATTATAATCATATAAAATTTGAAATATT
56630 TATTTATTAG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
32 20 0.71
33 8 0.29
ACGTcount: A:0.52, C:0.02, G:0.03, T:0.43
Consensus pattern (33 bp):
AATAAATTATAATCATATAAAATTTGAAATATT
Found at i:66596 original size:29 final size:29
Alignment explanation
Indices: 66554--66614 Score: 113
Period size: 29 Copynumber: 2.1 Consensus size: 29
66544 TGTCTGAACA
66554 AATAACTCGGGCTATGAACAGGTCTATGT
1 AATAACTCGGGCTATGAACAGGTCTATGT
*
66583 AATAACTCGGGCTATGAACAGGTCTATTT
1 AATAACTCGGGCTATGAACAGGTCTATGT
66612 AAT
1 AAT
66615 GTAATATGCT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (29 bp):
AATAACTCGGGCTATGAACAGGTCTATGT
Found at i:78106 original size:22 final size:22
Alignment explanation
Indices: 78076--78128 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
78066 AAAAAAGTCA
* * *
78076 TAAATAATTTTAAATATTATAT
1 TAAAAAATTTAAAAAATTATAT
*
78098 TAAAAAATTTAAAAAATTGTAT
1 TAAAAAATTTAAAAAATTATAT
*
78120 TTAAAAATT
1 TAAAAAATT
78129 ATAACTCCAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (22 bp):
TAAAAAATTTAAAAAATTATAT
Found at i:78166 original size:6 final size:6
Alignment explanation
Indices: 78157--78184 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
78147 AAGCTCTTCT
78157 AAAATA AAAATA AAAATA AAAATA AAAA
1 AAAATA AAAATA AAAATA AAAATA AAAA
78185 ACCATTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (6 bp):
AAAATA
Found at i:79036 original size:16 final size:17
Alignment explanation
Indices: 79008--79039 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
78998 CGATAGTTTT
79008 TTTTTAAGAAGTTATGA
1 TTTTTAAGAAGTTATGA
79025 TTTTTAAG-AGTTATG
1 TTTTTAAGAAGTTATG
79040 GAAAGAAAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.31, C:0.00, G:0.19, T:0.50
Consensus pattern (17 bp):
TTTTTAAGAAGTTATGA
Found at i:89312 original size:24 final size:23
Alignment explanation
Indices: 89252--89315 Score: 110
Period size: 23 Copynumber: 2.7 Consensus size: 23
89242 ATTAAATACA
89252 TAATATATTTTATTAAAACACAT
1 TAATATATTTTATTAAAACACAT
89275 TAATATATTTTATTAAAACACAT
1 TAATATATTTTATTAAAACACAT
*
89298 TCATATTATTTTATTAAA
1 TAATA-TATTTTATTAAA
89316 TTTAACTCTC
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
23 27 0.69
24 12 0.31
ACGTcount: A:0.45, C:0.08, G:0.00, T:0.47
Consensus pattern (23 bp):
TAATATATTTTATTAAAACACAT
Found at i:90885 original size:96 final size:96
Alignment explanation
Indices: 90721--90912 Score: 294
Period size: 96 Copynumber: 2.0 Consensus size: 96
90711 AACCTTGAAA
* *
90721 AAGGGTATTCGATTATCCCAGTTTGAAGAAAAGTCGCGCCTAGTAAGTTAAGGCACAAATTTCCA
1 AAGGGTATTCGATTATCCCAGTTTGAAGAAAAATCGCGCCTAATAAGTTAAGGCACAAATTTCCA
* * *
90786 AAACTCGAAGTAAAGGAATATTGCCTCGATT
66 AAACCCGAAATAAAGGAATATTACCTCGATT
* ** *
90817 AAGGGTATTCGATTATCCCAGTTTGAAGAAAAATCGCGCTTAATAAGTTAAGGCATGAATTTTCA
1 AAGGGTATTCGATTATCCCAGTTTGAAGAAAAATCGCGCCTAATAAGTTAAGGCACAAATTTCCA
*
90882 AAACCCGAAATAAAGTAATATTACCTCGATT
66 AAACCCGAAATAAAGGAATATTACCTCGATT
90913 TTAAATATTT
Statistics
Matches: 86, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
96 86 1.00
ACGTcount: A:0.37, C:0.17, G:0.19, T:0.28
Consensus pattern (96 bp):
AAGGGTATTCGATTATCCCAGTTTGAAGAAAAATCGCGCCTAATAAGTTAAGGCACAAATTTCCA
AAACCCGAAATAAAGGAATATTACCTCGATT
Found at i:91218 original size:29 final size:29
Alignment explanation
Indices: 91185--91283 Score: 130
Period size: 29 Copynumber: 3.4 Consensus size: 29
91175 TTTCAAAGAG
*
91185 TTTAGGGTTAAAATGTAATTTTG-GAAAGT
1 TTTAGGGTTAAAATGTAATTTTGTGAAA-A
* *
91214 TTTAGGGGTAAAATGTTATTTTGTGAAAA
1 TTTAGGGTTAAAATGTAATTTTGTGAAAA
* *
91243 TTTAGGGTAAAAATGTGATTTTGTGAAAA
1 TTTAGGGTTAAAATGTAATTTTGTGAAAA
91272 TTTA-GGTTAAAA
1 TTTAGGGTTAAAA
91284 AATTAGTTCA
Statistics
Matches: 62, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
28 7 0.11
29 51 0.82
30 4 0.06
ACGTcount: A:0.36, C:0.00, G:0.23, T:0.40
Consensus pattern (29 bp):
TTTAGGGTTAAAATGTAATTTTGTGAAAA
Found at i:92335 original size:111 final size:112
Alignment explanation
Indices: 92163--92412 Score: 298
Period size: 111 Copynumber: 2.2 Consensus size: 112
92153 CCTACATCAC
* * *
92163 ATTTTCCAGATTTAGAAATA-TTTTTTGAGTGTTTGGCAAGTAATGATAGACACCCAAAAAATAC
1 ATTTTCCAGATTTAAAAATATTTTTTTAAGTGTTTGACAAGTAATGATAGACACCCAAAAAATAC
* *
92227 GAAT-AAAAT-TTTTTTGAGGTGTTTGGCACCCAATGATCGACACCAT
66 GAATAAAAATATTTTTTG-GGTATTTGACACCCAATGATCGACACCAT
* *
92273 -TTTTCCCAGATTTAAAAATATTTTTTTAAGTGTTTGACAA-TCAATGGTCA-ACACCCACAAAA
1 ATTTT-CCAGATTTAAAAATATTTTTTTAAGTGTTTGACAAGT-AATGAT-AGACACCCAAAAAA
* * *
92335 TTCGAATAAAAAATAATTTTTTGGGTATTTGACACCCAATGGTTGACACCAT
63 TACGAAT-AAAAAT-ATTTTTTGGGTATTTGACACCCAATGATCGACACCAT
*
92387 ATTTT-TAGATTTAAAAATATTTTTTT
1 ATTTTCCAGATTTAAAAATATTTTTTT
92413 TGCGTGTTGG
Statistics
Matches: 120, Mismatches: 11, Indels: 15
0.82 0.08 0.10
Matches are distributed among these distances:
109 4 0.03
110 15 0.12
111 39 0.32
112 1 0.01
113 25 0.21
114 25 0.21
115 11 0.09
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.37
Consensus pattern (112 bp):
ATTTTCCAGATTTAAAAATATTTTTTTAAGTGTTTGACAAGTAATGATAGACACCCAAAAAATAC
GAATAAAAATATTTTTTGGGTATTTGACACCCAATGATCGACACCAT
Found at i:92832 original size:56 final size:55
Alignment explanation
Indices: 92757--92909 Score: 162
Period size: 56 Copynumber: 2.7 Consensus size: 55
92747 ATTAGTACAC
* * * * *
92757 GAAAGGTGGTGTCGACCATTGGATGCCAAACACCCAAAAAATAATTTTAAATATGG
1 GAAAAGTGGTGTAGGCCATT-GATGACAAACACCCAAAAAATAATTTTAAATATGA
* * * * *
92813 GAAATGTGGTGTAGGCCATTTGATGACAAATACCAAAAAAATATTTTTAAATCTGA
1 GAAAAGTGGTGTAGGCCA-TTGATGACAAACACCCAAAAAATAATTTTAAATATGA
* * *
92869 GAAAAATGGTGTTGGCTATTGAGTGACAAACACCCAAAAAA
1 GAAAAGTGGTGTAGGCCATTGA-TGACAAACACCCAAAAAA
92910 ATTATTCGTA
Statistics
Matches: 80, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
55 4 0.05
56 74 0.93
57 2 0.03
ACGTcount: A:0.41, C:0.14, G:0.20, T:0.25
Consensus pattern (55 bp):
GAAAAGTGGTGTAGGCCATTGATGACAAACACCCAAAAAATAATTTTAAATATGA
Found at i:93534 original size:23 final size:23
Alignment explanation
Indices: 93478--93547 Score: 88
Period size: 23 Copynumber: 3.0 Consensus size: 23
93468 TTATTAACAC
93478 TGTTCGTGAACATGTT-GAATTATA
1 TGTTCGTGAACATGTTCG-ATTA-A
* * *
93502 TGTTCATGAATATGTTCGTTTAA
1 TGTTCGTGAACATGTTCGATTAA
93525 TGTTCGTGAACATGTTCGATTAA
1 TGTTCGTGAACATGTTCGATTAA
93548 GTTAAATGAA
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
23 21 0.54
24 17 0.44
25 1 0.03
ACGTcount: A:0.27, C:0.10, G:0.20, T:0.43
Consensus pattern (23 bp):
TGTTCGTGAACATGTTCGATTAA
Found at i:98882 original size:19 final size:19
Alignment explanation
Indices: 98819--98883 Score: 55
Period size: 19 Copynumber: 3.5 Consensus size: 19
98809 ATTTTTTTTC
* *
98819 TAATTTTTAATAA-ATTTT
1 TAATATTTAATAATATTTA
*
98837 TAATATTTGAAT--TTTTTA
1 TAATATTT-AATAATATTTA
*
98855 TTAAAATTTAATAATATTTA
1 -TAATATTTAATAATATTTA
98875 TAATATTTA
1 TAATATTTA
98884 TTGATTTTAA
Statistics
Matches: 36, Mismatches: 6, Indels: 9
0.71 0.12 0.18
Matches are distributed among these distances:
18 13 0.36
19 18 0.50
20 5 0.14
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57
Consensus pattern (19 bp):
TAATATTTAATAATATTTA
Found at i:100034 original size:16 final size:16
Alignment explanation
Indices: 100010--100052 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
100000 ATACTGGAAT
*
100010 AAATATGTAATATAATA
1 AAAT-TGTAATAAAATA
* *
100027 GAGTTGTAATAAAATA
1 AAATTGTAATAAAATA
100043 AAATTGTAAT
1 AAATTGTAAT
100053 CAATATTTTA
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
16 19 0.90
17 2 0.10
ACGTcount: A:0.53, C:0.00, G:0.12, T:0.35
Consensus pattern (16 bp):
AAATTGTAATAAAATA
Found at i:100227 original size:25 final size:26
Alignment explanation
Indices: 100197--100362 Score: 86
Period size: 27 Copynumber: 6.1 Consensus size: 26
100187 TTAGATAGAT
*
100197 AATTATTATT-ATTA-AATTTTAATAA
1 AATTATTATTAAATATAA-TTTAATAA
100222 AATTATTATTAAATATAATTTAATAAAA
1 AATTATTATTAAATATAATTTAAT--AA
* * * * * * *
100250 AATAATAATTTACTCATATTTTAACAT
1 AATTATTATTAAAT-ATAATTTAATAA
* *
100277 GATTATTATTAAATACAATTTAATAAAA
1 AATTATTATTAAATATAATTTAAT--AA
* * * *
100305 AAGTGTATAATTTAATAATATTTTAATAT
1 AA-T-TATTATTAAAT-ATAATTTAATAA
100334 AATTATTATTAAAATATGAA-TTAATAA
1 AATTATTATT-AAATAT-AATTTAATAA
100361 AA
1 AA
100363 ATCATAATAT
Statistics
Matches: 102, Mismatches: 27, Indels: 22
0.68 0.18 0.15
Matches are distributed among these distances:
25 10 0.10
26 16 0.16
27 28 0.27
28 19 0.19
29 12 0.12
30 9 0.09
31 8 0.08
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (26 bp):
AATTATTATTAAATATAATTTAATAA
Found at i:100272 original size:55 final size:57
Alignment explanation
Indices: 100212--100363 Score: 202
Period size: 55 Copynumber: 2.7 Consensus size: 57
100202 TTATTATTAA
* * *
100212 ATTTTAATAAAATTATTATTAAATATAATTTAATAAAAAA-T-AATAATTTACTCAT
1 ATTTTAATATAATTATTATTAAATATAATTTAATAAAAAAGTGAATAATTTAATAAT
* * * *
100267 ATTTTAACATGATTATTATTAAATACAATTTAATAAAAAAGTGTATAATTTAATAAT
1 ATTTTAATATAATTATTATTAAATATAATTTAATAAAAAAGTGAATAATTTAATAAT
100324 ATTTTAATATAATTATTATTAAAATATGAA-TTAATAAAAA
1 ATTTTAATATAATTATTATT-AAATAT-AATTTAATAAAAA
100364 TCATAATATA
Statistics
Matches: 83, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
55 36 0.43
56 1 0.01
57 29 0.35
58 15 0.18
59 2 0.02
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.43
Consensus pattern (57 bp):
ATTTTAATATAATTATTATTAAATATAATTTAATAAAAAAGTGAATAATTTAATAAT
Found at i:100342 original size:57 final size:55
Alignment explanation
Indices: 100212--100380 Score: 191
Period size: 55 Copynumber: 3.1 Consensus size: 55
100202 TTATTATTAA
* * * *
100212 ATTTTAATAAAATTATTATTAAATATAATTTAATAAAAAATAATAATTTACTCAT
1 ATTTTAATATAATTATTATTAAATACAATTTAATAAAAAATAATAATTTAATAAT
* * *
100267 ATTTTAACATGATTATTATTAAATACAATTTAATAAAAAAGTGTATAATTTAATAAT
1 ATTTTAATATAATTATTATTAAATACAATTTAATAAAAAA-T-AATAATTTAATAAT
* * *
100324 ATTTTAATATAATTATTATTAAAATATGAA-TTAAT-AAAAATCATAATAT-ATAAT
1 ATTTTAATATAATTATTATT-AAATA-CAATTTAATAAAAAATAATAATTTAATAAT
100378 ATT
1 ATT
100381 AAAAAAATAA
Statistics
Matches: 98, Mismatches: 12, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
54 8 0.08
55 42 0.43
56 2 0.02
57 34 0.35
58 10 0.10
59 2 0.02
ACGTcount: A:0.51, C:0.03, G:0.02, T:0.43
Consensus pattern (55 bp):
ATTTTAATATAATTATTATTAAATACAATTTAATAAAAAATAATAATTTAATAAT
Found at i:111943 original size:14 final size:14
Alignment explanation
Indices: 111921--111951 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
111911 TTCAATTATT
111921 ATGAATGATTACAA
1 ATGAATGATTACAA
*
111935 ATGAGTGATTACAA
1 ATGAATGATTACAA
111949 ATG
1 ATG
111952 TGGGGTAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.45, C:0.06, G:0.19, T:0.29
Consensus pattern (14 bp):
ATGAATGATTACAA
Found at i:116818 original size:22 final size:22
Alignment explanation
Indices: 116792--116855 Score: 101
Period size: 22 Copynumber: 2.9 Consensus size: 22
116782 CCTTACACAT
*
116792 ATAGAATTATTATTTACATAAA
1 ATAGAGTTATTATTTACATAAA
* *
116814 ATAGAGTTATTATTCATATAAA
1 ATAGAGTTATTATTTACATAAA
116836 ATAGAGTTATTATTTACATA
1 ATAGAGTTATTATTTACATA
116856 GAATTTTAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 37 1.00
ACGTcount: A:0.45, C:0.05, G:0.08, T:0.42
Consensus pattern (22 bp):
ATAGAGTTATTATTTACATAAA
Found at i:116894 original size:37 final size:37
Alignment explanation
Indices: 116853--116929 Score: 138
Period size: 37 Copynumber: 2.1 Consensus size: 37
116843 TATTATTTAC
116853 ATAGAATTTTAAATGTATTCAA-TATCACTTAATTAAT
1 ATAGAATTTTAAATGTATT-AATTATCACTTAATTAAT
116890 ATAGAATTTTAAATGTATTAATTATCACTTAATTAAT
1 ATAGAATTTTAAATGTATTAATTATCACTTAATTAAT
116927 ATA
1 ATA
116930 TTAAAATTAA
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
36 2 0.05
37 37 0.95
ACGTcount: A:0.44, C:0.06, G:0.05, T:0.44
Consensus pattern (37 bp):
ATAGAATTTTAAATGTATTAATTATCACTTAATTAAT
Found at i:117515 original size:30 final size:30
Alignment explanation
Indices: 117480--117547 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 30
117470 ACTTAATTAA
117480 AAAAGTTACAAATTAA-TCACTGAACTATTC
1 AAAAGTTAC-AATTAAGTCACTGAACTATTC
* * *
117510 GAAAGTTTTCATTTAAGTCACTGAACTATTC
1 AAAAG-TTACAATTAAGTCACTGAACTATTC
117541 AAAAGTT
1 AAAAGTT
117548 TTTATTTAAG
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
30 11 0.34
31 21 0.66
ACGTcount: A:0.41, C:0.15, G:0.10, T:0.34
Consensus pattern (30 bp):
AAAAGTTACAATTAAGTCACTGAACTATTC
Found at i:117532 original size:31 final size:31
Alignment explanation
Indices: 117492--117561 Score: 115
Period size: 31 Copynumber: 2.3 Consensus size: 31
117482 AAGTTACAAA
*
117492 TTAA-TCACTGAACTATTCGAAAGTTTTCAT
1 TTAAGTCACTGAACTATTCAAAAGTTTTCAT
*
117522 TTAAGTCACTGAACTATTCAAAAGTTTTTAT
1 TTAAGTCACTGAACTATTCAAAAGTTTTCAT
117553 TTAAGTCAC
1 TTAAGTCAC
117562 CGATTGTTAG
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
30 4 0.11
31 33 0.89
ACGTcount: A:0.34, C:0.16, G:0.10, T:0.40
Consensus pattern (31 bp):
TTAAGTCACTGAACTATTCAAAAGTTTTCAT
Found at i:118343 original size:16 final size:17
Alignment explanation
Indices: 118313--118345 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
118303 AAATTTGGTC
118313 GAAAACATCCCAAAAAT
1 GAAAACATCCCAAAAAT
118330 GAAAACAT-CCAAAAAT
1 GAAAACATCCCAAAAAT
118346 CCAAGATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.61, C:0.21, G:0.06, T:0.12
Consensus pattern (17 bp):
GAAAACATCCCAAAAAT
Found at i:122623 original size:31 final size:31
Alignment explanation
Indices: 122575--122633 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
122565 AGGAATTTAG
122575 AAGTATGGAAGACCATCACGACATCTTGGGT
1 AAGTATGGAAGACCATCACGACATCTTGGGT
*
122606 AAGTAT-GAAGGAGCATCACGACATCTTG
1 AAGTATGGAA-GACCATCACGACATCTTG
122634 ATCATGACAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 3 0.12
31 23 0.88
ACGTcount: A:0.34, C:0.19, G:0.25, T:0.22
Consensus pattern (31 bp):
AAGTATGGAAGACCATCACGACATCTTGGGT
Found at i:125867 original size:19 final size:21
Alignment explanation
Indices: 125829--125882 Score: 69
Period size: 19 Copynumber: 2.6 Consensus size: 21
125819 CGTCAACAAG
125829 TAATTT-AAAAAATATAAAAA
1 TAATTTAAAAAAATATAAAAA
125849 T-ATTTAAAAAAATA-AAAAA
1 TAATTTAAAAAAATATAAAAA
125868 TCAATATTAAAAAAA
1 T-AAT-TTAAAAAAA
125883 GAATTATAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
19 10 0.33
20 9 0.30
21 2 0.07
22 9 0.30
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (21 bp):
TAATTTAAAAAAATATAAAAA
Found at i:133192 original size:2 final size:2
Alignment explanation
Indices: 133185--133228 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
133175 AAAGTTAATC
133185 AT AT AT AT 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 AT AT AT AT
133227 AT
1 AT
133229 TTAATGAATA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:133449 original size:26 final size:27
Alignment explanation
Indices: 133413--133463 Score: 77
Period size: 26 Copynumber: 1.9 Consensus size: 27
133403 TAAGAATTAG
*
133413 AATTTAAATTTT-ATCAAATATAAAAA
1 AATTTAAATTTTAAACAAATATAAAAA
*
133439 AATTTATATTTTAAACAAATATAAA
1 AATTTAAATTTTAAACAAATATAAA
133464 TTTTTTAACC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 11 0.50
27 11 0.50
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (27 bp):
AATTTAAATTTTAAACAAATATAAAAA
Found at i:134713 original size:31 final size:31
Alignment explanation
Indices: 134676--134742 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 31
134666 TTTAATCAAC
* *
134676 TTTAGTCTATATACTTTTC-GAATTGGTAAAT
1 TTTAGTCCATATACTTTTCAAAATTGG-AAAT
* *
134707 TTTAGTCCATTTACTTTTCAAAATTTGAAAT
1 TTTAGTCCATATACTTTTCAAAATTGGAAAT
134738 TTTAG
1 TTTAG
134743 CCTTGGCCCA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
31 26 0.84
32 5 0.16
ACGTcount: A:0.30, C:0.10, G:0.10, T:0.49
Consensus pattern (31 bp):
TTTAGTCCATATACTTTTCAAAATTGGAAAT
Found at i:146355 original size:6 final size:6
Alignment explanation
Indices: 146344--146388 Score: 81
Period size: 6 Copynumber: 7.5 Consensus size: 6
146334 AGAGACGTCT
*
146344 CATGCC CATGCC CATGCC CATGCC CATGCC CATGTC CATGCC CAT
1 CATGCC CATGCC CATGCC CATGCC CATGCC CATGCC CATGCC CAT
146389 TGAGCTCAGA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.18, C:0.47, G:0.16, T:0.20
Consensus pattern (6 bp):
CATGCC
Found at i:146873 original size:56 final size:55
Alignment explanation
Indices: 146748--146968 Score: 180
Period size: 56 Copynumber: 3.9 Consensus size: 55
146738 TTGCATGGCT
* * *
146748 GACACCCTTTTTTTTATTTGACAAAAAA-AAATTTTGGTGTT-GCTCATGTCATAATC
1 GACACCC-TCTTTTTATCTGACAAAAAATAAATTTTGGTGTTGGC-CAT-TCATGATC
* * *
146804 GATACCTCTTTTTTTATCTGACAAAAAA-AAATTTTGGTGTTGGCCATATCATGACC
1 GACACC-CTCTTTTTATCTGACAAAAAATAAATTTTGGTGTTGGCCAT-TCATGATC
* * * *
146860 GACACCCTCTTTTTGTCAGAAAAAAAATTCAAATTTTTGGGTGTTGGCCATTGCATGATT
1 GACACCCTCTTTTTATCTGACAAAAAA-T-AAA-TTTT-GGTGTTGGCCATT-CATGATC
* * *
146920 GACACCC-CTTTTTGTCTGATAAAAAATCAGATTTTTTGGTGTTGGCCAT
1 GACACCCTCTTTTTATCTGACAAAAAAT-A-A-ATTTTGGTGTTGGCCAT
146969 GCCCCATTTT
Statistics
Matches: 140, Mismatches: 15, Indels: 18
0.81 0.09 0.10
Matches are distributed among these distances:
55 17 0.12
56 51 0.36
57 3 0.02
58 18 0.13
59 27 0.19
60 24 0.17
ACGTcount: A:0.29, C:0.17, G:0.16, T:0.38
Consensus pattern (55 bp):
GACACCCTCTTTTTATCTGACAAAAAATAAATTTTGGTGTTGGCCATTCATGATC
Found at i:146944 original size:59 final size:58
Alignment explanation
Indices: 146835--146968 Score: 173
Period size: 59 Copynumber: 2.3 Consensus size: 58
146825 CAAAAAAAAA
146835 TTTTGGTGTTGGCCATATCATGACCGACACCCTCTTTTTGTCAGAAAAAAAATTCAAAT
1 TTTTGGTGTTGGCCATATCATGACCGACACCCTCTTTTTGTCAGAAAAAAAA-TCAAAT
** * * *
146894 TTTTGGGTGTTGGCCAT-TGCATGATTGACACCC-CTTTTTGTCTGATAAAAAATCAGATT
1 TTTT-GGTGTTGGCCATAT-CATGACCGACACCCTCTTTTTGTCAGAAAAAAAATCA-AAT
146953 TTTTGGTGTTGGCCAT
1 TTTTGGTGTTGGCCAT
146969 GCCCCATTTT
Statistics
Matches: 67, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
58 15 0.22
59 28 0.42
60 24 0.36
ACGTcount: A:0.25, C:0.18, G:0.19, T:0.38
Consensus pattern (58 bp):
TTTTGGTGTTGGCCATATCATGACCGACACCCTCTTTTTGTCAGAAAAAAAATCAAAT
Found at i:147187 original size:58 final size:57
Alignment explanation
Indices: 147062--147187 Score: 132
Period size: 58 Copynumber: 2.2 Consensus size: 57
147052 ATCAAAAAAA
* *
147062 TTTTGTGTTGGTCGTGCACTGGTCGACACCCCCTTTTTTCAGATAAAAAATTCAAAT
1 TTTTGTGTTGATCGTGCACTGGCCGACACCCCCTTTTTTCAGATAAAAAATTCAAAT
* * * *
147119 TTTTGCTGTTGATCATTGCA-TGGCCGACACTCTCTTTTTATCTAG-TAAAAAATT-AATTT
1 TTTTG-TGTTGATC-GTGCACTGGCCGACACCCCCTTTTT-TC-AGATAAAAAATTCAA-AT
147178 TTTTGTGTTG
1 TTTTGTGTTG
147188 GCCATGTAAT
Statistics
Matches: 58, Mismatches: 6, Indels: 9
0.79 0.08 0.12
Matches are distributed among these distances:
57 5 0.09
58 30 0.52
59 21 0.36
60 2 0.03
ACGTcount: A:0.23, C:0.17, G:0.17, T:0.43
Consensus pattern (57 bp):
TTTTGTGTTGATCGTGCACTGGCCGACACCCCCTTTTTTCAGATAAAAAATTCAAAT
Found at i:147966 original size:25 final size:26
Alignment explanation
Indices: 147938--147987 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
147928 ATTATCGACA
147938 AATTAAAAAT-ATATTAAAAAATAAT
1 AATTAAAAATAATATTAAAAAATAAT
* *
147963 AATTAAAATTAATTTTAAAAAATAA
1 AATTAAAAATAATATTAAAAAATAA
147988 ACGAAAATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 9 0.41
26 13 0.59
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (26 bp):
AATTAAAAATAATATTAAAAAATAAT
Found at i:150915 original size:12 final size:12
Alignment explanation
Indices: 150898--150970 Score: 67
Period size: 12 Copynumber: 5.8 Consensus size: 12
150888 AATATTTGTG
150898 TAAAAATTAATT
1 TAAAAATTAATT
150910 TAAAAATTAATT
1 TAAAAATTAATT
150922 TAAGTTGAAATTAATT
1 TAA----AAATTAATT
* *
150938 TGAAAATTAAGT
1 TAAAAATTAATT
*
150950 T-GAAATTAATT
1 TAAAAATTAATT
*
150961 TGAAAATTAA
1 TAAAAATTAA
150971 GGTACATGTT
Statistics
Matches: 51, Mismatches: 5, Indels: 10
0.77 0.08 0.15
Matches are distributed among these distances:
11 9 0.18
12 31 0.61
16 11 0.22
ACGTcount: A:0.52, C:0.00, G:0.08, T:0.40
Consensus pattern (12 bp):
TAAAAATTAATT
Found at i:150940 original size:11 final size:12
Alignment explanation
Indices: 150921--150971 Score: 70
Period size: 11 Copynumber: 4.4 Consensus size: 12
150911 AAAAATTAAT
150921 TTAAGTTG-AAA
1 TTAAGTTGAAAA
*
150932 TTAATTTGAAAA
1 TTAAGTTGAAAA
150944 TTAAGTTG-AAA
1 TTAAGTTGAAAA
*
150955 TTAATTTGAAAA
1 TTAAGTTGAAAA
150967 TTAAG
1 TTAAG
150972 GTACATGTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
11 17 0.50
12 17 0.50
ACGTcount: A:0.47, C:0.00, G:0.14, T:0.39
Consensus pattern (12 bp):
TTAAGTTGAAAA
Found at i:150947 original size:23 final size:23
Alignment explanation
Indices: 150921--150971 Score: 102
Period size: 23 Copynumber: 2.2 Consensus size: 23
150911 AAAAATTAAT
150921 TTAAGTTGAAATTAATTTGAAAA
1 TTAAGTTGAAATTAATTTGAAAA
150944 TTAAGTTGAAATTAATTTGAAAA
1 TTAAGTTGAAATTAATTTGAAAA
150967 TTAAG
1 TTAAG
150972 GTACATGTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.14, T:0.39
Consensus pattern (23 bp):
TTAAGTTGAAATTAATTTGAAAA
Found at i:151241 original size:22 final size:22
Alignment explanation
Indices: 151213--151273 Score: 95
Period size: 22 Copynumber: 2.8 Consensus size: 22
151203 TGGACCACCC
*
151213 AAATTCCAACTCACCTAAACCG
1 AAATTCCAACTCACCAAAACCG
* *
151235 AAATTCCAACTCATCAAAACTG
1 AAATTCCAACTCACCAAAACCG
151257 AAATTCCAACTCACCAA
1 AAATTCCAACTCACCAA
151274 CACCCCAATT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.44, C:0.33, G:0.03, T:0.20
Consensus pattern (22 bp):
AAATTCCAACTCACCAAAACCG
Found at i:151283 original size:22 final size:22
Alignment explanation
Indices: 151208--151285 Score: 86
Period size: 22 Copynumber: 3.5 Consensus size: 22
151198 AGCATTGGAC
151208 CACCCAAATTCCAACTCACCTAA
1 CACCCAAATTCCAACTCACC-AA
* *
151231 -ACCGAAATTCCAACTCATCAA
1 CACCCAAATTCCAACTCACCAA
* **
151252 AACTGAAATTCCAACTCACCAA
1 CACCCAAATTCCAACTCACCAA
*
151274 CACCCCAATTCC
1 CACCCAAATTCC
151286 GCCGTTGACC
Statistics
Matches: 46, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
21 2 0.04
22 44 0.96
ACGTcount: A:0.40, C:0.40, G:0.03, T:0.18
Consensus pattern (22 bp):
CACCCAAATTCCAACTCACCAA
Found at i:153608 original size:18 final size:18
Alignment explanation
Indices: 153585--153621 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
153575 TTTGTGATCA
153585 AAATTGAAAGTGAAAGTG
1 AAATTGAAAGTGAAAGTG
* *
153603 AAATTGGAATTGAAAGTG
1 AAATTGAAAGTGAAAGTG
153621 A
1 A
153622 TATGAATTGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.49, C:0.00, G:0.27, T:0.24
Consensus pattern (18 bp):
AAATTGAAAGTGAAAGTG
Found at i:154497 original size:23 final size:23
Alignment explanation
Indices: 154424--154597 Score: 131
Period size: 23 Copynumber: 7.5 Consensus size: 23
154414 TATACGGAAC
* *
154424 AAACAGAGAGTAC-CAAAGTACT
1 AAACAGAGAGCACACAAAGTGCT
*
154446 -AACAGAGAGCACA-TAAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
* *
154467 GGGTAACAGAGAGCACACACAGTGCT
1 ---AAACAGAGAGCACACAAAGTGCT
* *
154493 AAACAGAGAGTACACAAAGTACT
1 AAACAGAGAGCACACAAAGTGCT
*
154516 AATCAGAGAGCACACAAAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
*** *
154539 AGTGAGAGAGCACACACAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
* * *
154562 AATAACAGATAGCACGA-GACGTGCT
1 -A-AACAGAGAGCAC-ACAAAGTGCT
154587 AAACAGAGAGC
1 AAACAGAGAGC
154598 GCGCTAGTGT
Statistics
Matches: 120, Mismatches: 23, Indels: 17
0.75 0.14 0.11
Matches are distributed among these distances:
21 17 0.14
23 68 0.57
24 2 0.02
25 26 0.22
26 7 0.06
ACGTcount: A:0.43, C:0.20, G:0.24, T:0.13
Consensus pattern (23 bp):
AAACAGAGAGCACACAAAGTGCT
Found at i:154547 original size:69 final size:68
Alignment explanation
Indices: 154424--154563 Score: 203
Period size: 69 Copynumber: 2.0 Consensus size: 68
154414 TATACGGAAC
* *
154424 AAACAGAGAGTACCAAAGTACTAACAGAGAGCACATAAGTGCTGGGTAACAGAGAGCACACACAG
1 AAACAGAGAGTACCAAAGTACTAACAGAGAGCACAAAAGTGCTGAGT-ACAGAGAGCACACACAG
154489 TGCT
65 TGCT
*
154493 AAACAGAGAGTACACAAAGTACTAATCAGAGAGCACACAAAGTGCT-AGT-GAGAGAGCACACAC
1 AAACAGAGAGTAC-CAAAGTACTAA-CAGAGAGCACA-AAAGTGCTGAGTACAGAGAGCACACAC
154556 AGTGCT
63 AGTGCT
154562 AA
1 AA
154564 TAACAGATAG
Statistics
Matches: 65, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
69 34 0.52
70 11 0.17
71 13 0.20
72 7 0.11
ACGTcount: A:0.44, C:0.20, G:0.24, T:0.13
Consensus pattern (68 bp):
AAACAGAGAGTACCAAAGTACTAACAGAGAGCACAAAAGTGCTGAGTACAGAGAGCACACACAGT
GCT
Found at i:157566 original size:19 final size:19
Alignment explanation
Indices: 157524--157566 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
157514 TTTAATAATA
*
157524 TTTTTTTCTATTTCGAAAT
1 TTTTTTTATATTTCGAAAT
*
157543 GTTTTTTATATTTTCG-AAT
1 TTTTTTTATA-TTTCGAAAT
157562 TTTTT
1 TTTTT
157567 AAAAAATAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.19, C:0.07, G:0.07, T:0.67
Consensus pattern (19 bp):
TTTTTTTATATTTCGAAAT
Found at i:157601 original size:13 final size:13
Alignment explanation
Indices: 157583--157607 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
157573 TAAAAATCTG
157583 ATATTTTTTACAA
1 ATATTTTTTACAA
157596 ATATTTTTTACA
1 ATATTTTTTACA
157608 TTTTCAAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (13 bp):
ATATTTTTTACAA
Found at i:159645 original size:60 final size:59
Alignment explanation
Indices: 159502--159761 Score: 204
Period size: 61 Copynumber: 4.3 Consensus size: 59
159492 AAAAAAAATG
* * * ** * ** **
159502 ATTTTTTACCATATAAAAAAGGGGGTGTCGACCATTGCATGGCCAATACAAAAAAAAAT-A
1 ATTTTTTATCAGAT-AAAAAGGAGGTGTCGGTCATTGCATGG-CAACACCCAAAAATTTGA
* * * * *
159562 ATTTTTTTACCAGATAAAAAAGGAAGTGTTGGTTATTGCATGGCAACACCAAAAAAATTTGA
1 A-TTTTTTATCAGAT-AAAAAGGAGGTGTCGGTCATTGCATGGCAACACC-CAAAAATTTGA
* * * * *
159624 ATTTTTTATCTGATAAAAAGGAGGTGTCGATCATGGTATGATCAACACCCAAAAATTTG-
1 ATTTTTTATCAGATAAAAAGGAGGTGTCGGTCATTGCATG-GCAACACCCAAAAATTTGA
*
159683 ATTTTTTATTCAGATAAAAAGG-GGTGTCGGCCA-TGCAATGGTCAACACCCAAAAATTTGA
1 ATTTTTTA-TCAGATAAAAAGGAGGTGTCGGTCATTGC-ATGG-CAACACCCAAAAATTTGA
* *
159743 TTTTTTTATCAGACAAAAA
1 ATTTTTTATCAGATAAAAA
159762 AGGCATGGCT
Statistics
Matches: 163, Mismatches: 29, Indels: 17
0.78 0.14 0.08
Matches are distributed among these distances:
58 1 0.01
59 47 0.29
60 54 0.33
61 59 0.36
62 2 0.01
ACGTcount: A:0.39, C:0.14, G:0.17, T:0.30
Consensus pattern (59 bp):
ATTTTTTATCAGATAAAAAGGAGGTGTCGGTCATTGCATGGCAACACCCAAAAATTTGA
Found at i:159763 original size:60 final size:59
Alignment explanation
Indices: 159601--159761 Score: 200
Period size: 59 Copynumber: 2.7 Consensus size: 59
159591 TGGTTATTGC
* * * **
159601 ATGG-CAACACCAAAAAAATTTGAATTTTTTATCTGATAAAAAGGAGGTGTCGATCATGGT
1 ATGGTCAACACC-CAAAAATTTG-ATTTTTTATCAGATAAAAAGGAGGTGTCGACCATGCA
* *
159661 ATGATCAACACCCAAAAATTTGATTTTTTATTCAGATAAAAAGG-GGTGTCGGCCATGCA
1 ATGGTCAACACCCAAAAATTTGATTTTTTA-TCAGATAAAAAGGAGGTGTCGACCATGCA
*
159720 ATGGTCAACACCCAAAAATTTGATTTTTTTATCAGACAAAAA
1 ATGGTCAACACCCAAAAATTTGA-TTTTTTATCAGATAAAAA
159762 AGGCATGGCT
Statistics
Matches: 89, Mismatches: 9, Indels: 7
0.85 0.09 0.07
Matches are distributed among these distances:
59 51 0.57
60 31 0.35
61 7 0.08
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.30
Consensus pattern (59 bp):
ATGGTCAACACCCAAAAATTTGATTTTTTATCAGATAAAAAGGAGGTGTCGACCATGCA
Found at i:162216 original size:29 final size:30
Alignment explanation
Indices: 162164--162221 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 30
162154 ATATTAAAAT
*
162164 ATATATAAACTTTGATTTAATGTGTAATTTA
1 ATATATAAACTTTAATTT-ATGTGTAATTTA
*
162195 ATATATAAATTTTAATTT-TGTGTAATT
1 ATATATAAACTTTAATTTATGTGTAATT
162222 ATACAAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 9 0.36
31 16 0.64
ACGTcount: A:0.38, C:0.02, G:0.09, T:0.52
Consensus pattern (30 bp):
ATATATAAACTTTAATTTATGTGTAATTTA
Found at i:162243 original size:30 final size:30
Alignment explanation
Indices: 162168--162255 Score: 81
Period size: 31 Copynumber: 2.9 Consensus size: 30
162158 TAAAATATAT
* *
162168 ATAAACTTTGATTTAATGTGTAATT-TAATAT
1 ATAAAATTTGATTT--TGTGTAATTATAATAA
* *
162199 ATAAATTTTAATTTTGTGTAATTATACA-AA
1 ATAAAATTTGATTTTGTGTAATTATA-ATAA
*
162229 ATAAAATTTGATTTTGTTTCAATTATA
1 ATAAAATTTGATTTTGTGT-AATTATA
162256 TATATTGTTC
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
29 9 0.19
30 19 0.40
31 20 0.42
ACGTcount: A:0.40, C:0.03, G:0.08, T:0.49
Consensus pattern (30 bp):
ATAAAATTTGATTTTGTGTAATTATAATAA
Found at i:162400 original size:30 final size:28
Alignment explanation
Indices: 162366--162439 Score: 76
Period size: 30 Copynumber: 2.5 Consensus size: 28
162356 AATTTGATTC
*
162366 AAATCAAGATGTCATATATAAAATTACAAA
1 AAATCAAAAT-TCATA-ATAAAATTACAAA
* *
162396 AAATCAAAATTCATAATAACATTACACATT
1 AAATCAAAATTCATAATAAAATTACA-A-A
*
162426 AAACCAAAATTCAT
1 AAATCAAAATTCAT
162440 TTATGATTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
28 10 0.26
29 6 0.16
30 22 0.58
ACGTcount: A:0.55, C:0.15, G:0.03, T:0.27
Consensus pattern (28 bp):
AAATCAAAATTCATAATAAAATTACAAA
Found at i:163028 original size:21 final size:22
Alignment explanation
Indices: 163004--163045 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
162994 CAAAACGACG
163004 TAGTTTT-ACCTTTTAA-TTTAA
1 TAGTTTTGA-CTTTTAACTTTAA
163025 TAGTTTTGACTTTTAACTTTA
1 TAGTTTTGACTTTTAACTTTA
163046 GAGAAGATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.26, C:0.10, G:0.07, T:0.57
Consensus pattern (22 bp):
TAGTTTTGACTTTTAACTTTAA
Found at i:170775 original size:24 final size:24
Alignment explanation
Indices: 170748--170793 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
170738 AATAATTTTA
*
170748 TATAAATTTCA-TTTATTAAAATCT
1 TATAAATTTAACTTT-TTAAAATCT
*
170772 TATATATTTAACTTTTTAAAAT
1 TATAAATTTAACTTTTTAAAAT
170794 GTTTACATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 16 0.84
25 3 0.16
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.52
Consensus pattern (24 bp):
TATAAATTTAACTTTTTAAAATCT
Found at i:177467 original size:27 final size:25
Alignment explanation
Indices: 177434--177483 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
177424 GTTAAGAAAT
*
177434 ATTTATTTTAATATTTTTAATATTTTG
1 ATTTATTAT-ATATTTTTAA-ATTTTG
*
177461 ATTTATTATATTTTTTTAAATTT
1 ATTTATTATATATTTTTAAATTT
177484 ATTTGTATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 4 0.19
26 9 0.43
27 8 0.38
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (25 bp):
ATTTATTATATATTTTTAAATTTTG
Found at i:179870 original size:24 final size:23
Alignment explanation
Indices: 179841--179911 Score: 97
Period size: 23 Copynumber: 3.0 Consensus size: 23
179831 ATTCATTAAA
*
179841 ATTGTTTGTGAACATGTTCGATT
1 ATTGTTCGTGAACATGTTCGATT
* *
179864 ATATGTTCATGAACATGTTCGTTT
1 AT-TGTTCGTGAACATGTTCGATT
*
179888 ATTATTCGTGAACATGTTCGATT
1 ATTGTTCGTGAACATGTTCGATT
179911 A
1 A
179912 AGTTAAATGA
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
23 21 0.51
24 20 0.49
ACGTcount: A:0.25, C:0.11, G:0.18, T:0.45
Consensus pattern (23 bp):
ATTGTTCGTGAACATGTTCGATT
Found at i:179922 original size:23 final size:23
Alignment explanation
Indices: 179849--179926 Score: 72
Period size: 23 Copynumber: 3.3 Consensus size: 23
179839 AAATTGTTTG
179849 TGAACATGTTCGATTATATGTT-CA
1 TGAACATGTTCGATTA-A-GTTACA
* *
179873 TGAACATGTTCG-TTTA-TTATTCG
1 TGAACATGTTCGATTAAGTTA--CA
*
179896 TGAACATGTTCGATTAAGTTAAA
1 TGAACATGTTCGATTAAGTTACA
179919 TGAACATG
1 TGAACATG
179927 CTCGTGAACA
Statistics
Matches: 44, Mismatches: 5, Indels: 11
0.73 0.08 0.18
Matches are distributed among these distances:
20 2 0.05
22 1 0.02
23 23 0.52
24 15 0.34
25 3 0.07
ACGTcount: A:0.31, C:0.12, G:0.18, T:0.40
Consensus pattern (23 bp):
TGAACATGTTCGATTAAGTTACA
Found at i:180361 original size:40 final size:40
Alignment explanation
Indices: 180296--180392 Score: 108
Period size: 40 Copynumber: 2.5 Consensus size: 40
180286 GATTCCAAAG
* *
180296 TAGTGTGTGTCAAGGAATAAATTCTCTTTCAAATTTTTAA
1 TAGTATGTGTCAAGGAATAAATTCTCTTCCAAATTTTTAA
* * * **
180336 TAGTATGTGTCATGGTATAAGTTCTCTTCCAAATTTGCAA
1 TAGTATGTGTCAAGGAATAAATTCTCTTCCAAATTTTTAA
*
180376 TAG--TGTGTCAGGGAATA
1 TAGTATGTGTCAAGGAATA
180393 GTTTCCCAAC
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
38 12 0.25
40 36 0.75
ACGTcount: A:0.30, C:0.11, G:0.20, T:0.39
Consensus pattern (40 bp):
TAGTATGTGTCAAGGAATAAATTCTCTTCCAAATTTTTAA
Found at i:181582 original size:93 final size:94
Alignment explanation
Indices: 181407--181607 Score: 257
Period size: 93 Copynumber: 2.1 Consensus size: 94
181397 ATGATTAAAT
*
181407 GGAATTTATT-CTATGACACAACTAATACAAATGTGATAAATATCTTTTTGTTGGGGAATCTATG
1 GGAATTTATTCCT-TTACACAACTAATACAAATGTGATAAATATCTTTTTGTTGGGGAATCTATG
* **
181471 CCCTCACATGCACTATTACAAATTTGAAAG
65 CCCTAACACACACTATTACAAATTTGAAAG
* * * *
181501 GG-ATTTATTCCTTTACACAACTATTACAAATGTGA-AGAATATTTTTTTGTTGGGGAATTTATT
1 GGAATTTATTCCTTTACACAACTAATACAAATGTGATA-AATATCTTTTTGTTGGGGAATCTATG
* *
181564 TCTTAACACACAAC-ATTACAAATTTGAAAG
65 CCCTAACACAC-ACTATTACAAATTTGAAAG
181594 GGAATTTATTCCTT
1 GGAATTTATTCCTT
181608 GAAACATACT
Statistics
Matches: 93, Mismatches: 10, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
92 1 0.01
93 75 0.81
94 17 0.18
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.37
Consensus pattern (94 bp):
GGAATTTATTCCTTTACACAACTAATACAAATGTGATAAATATCTTTTTGTTGGGGAATCTATGC
CCTAACACACACTATTACAAATTTGAAAG
Found at i:183536 original size:2 final size:2
Alignment explanation
Indices: 183529--183576 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
183519 TCTTGTGATG
183529 AT AT AT AT 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 AT AT AT AT
183571 AT AT AT
1 AT AT AT
183577 TTTATACCGA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:185663 original size:23 final size:23
Alignment explanation
Indices: 185637--185694 Score: 89
Period size: 23 Copynumber: 2.5 Consensus size: 23
185627 TGACGTGGCA
185637 TCCAGTCAGCAACTTCTAGAAGG
1 TCCAGTCAGCAACTTCTAGAAGG
**
185660 TCCAGTCAGCAGTTTCTAGAAGG
1 TCCAGTCAGCAACTTCTAGAAGG
*
185683 TCTAGTCAGCAA
1 TCCAGTCAGCAA
185695 TGATGGACGA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.29, C:0.24, G:0.22, T:0.24
Consensus pattern (23 bp):
TCCAGTCAGCAACTTCTAGAAGG
Found at i:189770 original size:23 final size:23
Alignment explanation
Indices: 189648--189820 Score: 118
Period size: 23 Copynumber: 7.4 Consensus size: 23
189638 CGAAGTACTT
* *
189648 AACAGTAAGCACACAAGTGTTGGGGA
1 AACAGTAAGCACACAA-AG-T-GCGA
* *
189674 AATAGTAAGCACACACAGTGC-A
1 AACAGTAAGCACACAAAGTGCGA
* * * *
189696 ATCCAATAAGCACACATAGTG-TA
1 A-ACAGTAAGCACACAAAGTGCGA
* * * * *
189719 ATCAGTAGGCGCACATAGCGC-A
1 AACAGTAAGCACACAAAGTGCGA
* * *
189741 AATCAGTAGGCACACTAGGTGCGA
1 AA-CAGTAAGCACACAAAGTGCGA
*
189765 AACAGTAAGCACACGAAGTGCGA
1 AACAGTAAGCACACAAAGTGCGA
*
189788 AACAGTAAGTACACAAAGTGCGA
1 AACAGTAAGCACACAAAGTGCGA
189811 AACAGTAAGC
1 AACAGTAAGC
189821 GCGCTAGCGT
Statistics
Matches: 117, Mismatches: 25, Indels: 13
0.75 0.16 0.08
Matches are distributed among these distances:
22 18 0.15
23 80 0.68
24 4 0.03
25 1 0.01
26 14 0.12
ACGTcount: A:0.41, C:0.21, G:0.24, T:0.14
Consensus pattern (23 bp):
AACAGTAAGCACACAAAGTGCGA
Found at i:196221 original size:22 final size:22
Alignment explanation
Indices: 196202--196243 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
196192 TAATATTACC
*
196202 AAAAATATA-TATTATTATTAA
1 AAAAATATATTAATATTATTAA
*
196223 AAAAATTTATTAATATTATTA
1 AAAAATATATTAATATTATTA
196244 TTAATATTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
AAAAATATATTAATATTATTAA
Found at i:196224 original size:19 final size:19
Alignment explanation
Indices: 196191--196240 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 19
196181 TATTATTTGT
196191 TTAATATTACCAAAAATATATA
1 TTAATATTA--AAAAA-ATATA
* *
196213 TTATTATTAAAAAAATTTA
1 TTAATATTAAAAAAATATA
196232 TTAATATTA
1 TTAATATTA
196241 TTATTAATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
19 12 0.48
20 5 0.20
22 8 0.32
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (19 bp):
TTAATATTAAAAAAATATA
Found at i:196984 original size:17 final size:17
Alignment explanation
Indices: 196959--197029 Score: 79
Period size: 17 Copynumber: 4.2 Consensus size: 17
196949 TTTTAATTTT
*
196959 ATTTTAATTTAAAATAA
1 ATTTAAATTTAAAATAA
*
196976 ATTTAAATTTAAAGTAA
1 ATTTAAATTTAAAATAA
* * * *
196993 ATTCAAACTCAAAATGA
1 ATTTAAATTTAAAATAA
*
197010 ATTTGAATTTAAAATAA
1 ATTTAAATTTAAAATAA
197027 ATT
1 ATT
197030 CAAACTTATT
Statistics
Matches: 42, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
17 42 1.00
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.39
Consensus pattern (17 bp):
ATTTAAATTTAAAATAA
Found at i:197007 original size:34 final size:34
Alignment explanation
Indices: 196969--197035 Score: 107
Period size: 34 Copynumber: 2.0 Consensus size: 34
196959 ATTTTAATTT
*
196969 AAAATAAATTTAAATTTAAAGTAAATTCAAACTC
1 AAAATAAATTTAAATTTAAAATAAATTCAAACTC
* *
197003 AAAATGAATTTGAATTTAAAATAAATTCAAACT
1 AAAATAAATTTAAATTTAAAATAAATTCAAACT
197036 TATTTAAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.55, C:0.07, G:0.04, T:0.33
Consensus pattern (34 bp):
AAAATAAATTTAAATTTAAAATAAATTCAAACTC
Found at i:197752 original size:206 final size:200
Alignment explanation
Indices: 197395--197941 Score: 587
Period size: 206 Copynumber: 2.7 Consensus size: 200
197385 TCTGGTTTCA
* * * * * *
197395 CTGATTTGGTCTT-TTTCTCAGTATCTCATCAGGAAGATGGCCGCGTCGCTTGTTTTGATCCACT
1 CTGATTTGGTCTTCTTT-TCAGTATCTCATCAGGAAGATGACTGCATCGTTTGTTTAG-TCCGCT
* * * * * * *
197459 TCTCTATGTTTCATCAGGAAGAC-AGATTTGGTTCACTTCTCCGTATCTCATGAGGAAGCTTACC
64 TCTCTGTATCTCATCAGGAAGACGA-ATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACC
* * *
197523 ACTTTATTACTTCGACCTGCTTCTCAGTATCTCATCAGAAAGCTAGGG-TTCGAAGATATGCTCA
128 ATTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGAAAG-TAGGGATTCGAAGATATACTCA
* *
197587 TATCGAGCGTGGGT
192 CATCGAGC-----C
* *
197601 TTGATTTGGTCTTCTTTTCAGTATCTCATTAGGAAGATGACTGCATCGTTTGTTTCAGTCCGCTT
1 CTGATTTGGTCTTCTTTTCAGTATCTCATCAGGAAGATGACTGCATCGTTTGTTT-AGTCCGCTT
197666 CTCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCAT
65 CTCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCAT
* * * * * *
197731 TTTATTGCTTCGACTTGCTTCTCAGTATCTCATCAGGAAGTTGGGATTTGAAGATTTACTCGCAT
130 TTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGAAAGTAGGGATTCGAAGATATACTCACAT
*
197796 TGAGCC
195 CGAGCC
* * * * * * * ** * * *
197802 CTGAGTTGGTATACTTCTCTGTATCTCATCAGGAAGATAATTGCCCCATTTGTTTAAATTCGCTT
1 CTGATTTGGTCTTCTTTTCAGTATCTCATCAGGAAGATGACTGCATCGTTTGTTT-AGTCCGCTT
* * * *
197867 CTCTGTACCTCATCAAGAAGACGAATTTGGTCCACTTCTCAGTGTCTCATCAGGAAGCTAACCTT
65 CTCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCAT
197932 TTTATTGCTT
130 TTTATTGCTT
197942 TAACCTTTTT
Statistics
Matches: 291, Mismatches: 46, Indels: 13
0.83 0.13 0.04
Matches are distributed among these distances:
201 121 0.42
205 4 0.01
206 161 0.55
207 5 0.02
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.36
Consensus pattern (200 bp):
CTGATTTGGTCTTCTTTTCAGTATCTCATCAGGAAGATGACTGCATCGTTTGTTTAGTCCGCTTC
TCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATT
TTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGAAAGTAGGGATTCGAAGATATACTCACATC
GAGCC
Found at i:197899 original size:201 final size:202
Alignment explanation
Indices: 197469--197941 Score: 556
Period size: 201 Copynumber: 2.3 Consensus size: 202
197459 TCTCTATGTT
* * * * * *
197469 TCATCAGGAAGAC-AGATTTGGTTCACTTCTCCGTATCTCATGAGGAAGCTTACCACTTTATTAC
1 TCATCAGGAAGACGA-ATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGC
* *
197533 TTCGACCTGCTTCTCAGTATCTCATCAGAAAGCTAGGGTTCGAAGATATGCTCATATCGAGCGTG
65 TTCGACCTGCTTCTCAGTATCTCATCAGAAAGCTAGGGTTCGAAGATATACTCACATCGAGC---
** * * * * * * * * * *
197598 GGTTTGATTTGGTCTTCTTTTCAGTATCTCATTAGGAAGATGACTGCATCGTTTGTTTCAGTCCG
127 -GCCTGAGTTGGTATACTTCTCAGTATCTCATCAGGAAGATAACTGCACCATTTGTTTAAATCCG
*
197663 CTTCTCTGTATC
191 CTTCTCTGTACC
197675 TCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCT
1 TCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCT
* * * * * * *
197740 TCGACTTGCTTCTCAGTATCTCATCAGGAAG-TTGGGATTTGAAGATTTACTCGCATTGAGC-CC
66 TCGACCTGCTTCTCAGTATCTCATCAGAAAGCTAGGG-TTCGAAGATATACTCACATCGAGCGCC
* * * *
197803 TGAGTTGGTATACTTCTCTGTATCTCATCAGGAAGATAATTGCCCCATTTGTTTAAATTCGCTTC
130 TGAGTTGGTATACTTCTCAGTATCTCATCAGGAAGATAACTGCACCATTTGTTTAAATCCGCTTC
197868 TCTGTACC
195 TCTGTACC
* * *
197876 TCATCAAGAAGACGAATTTGGTCCACTTCTCAGTGTCTCATCAGGAAGCTAACCTTTTTATTGCT
1 TCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCT
197941 T
66 T
197942 TAACCTTTTT
Statistics
Matches: 230, Mismatches: 35, Indels: 9
0.84 0.13 0.03
Matches are distributed among these distances:
201 121 0.53
205 4 0.02
206 104 0.45
207 1 0.00
ACGTcount: A:0.23, C:0.22, G:0.19, T:0.36
Consensus pattern (202 bp):
TCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCT
TCGACCTGCTTCTCAGTATCTCATCAGAAAGCTAGGGTTCGAAGATATACTCACATCGAGCGCCT
GAGTTGGTATACTTCTCAGTATCTCATCAGGAAGATAACTGCACCATTTGTTTAAATCCGCTTCT
CTGTACC
Found at i:198144 original size:39 final size:39
Alignment explanation
Indices: 198038--198322 Score: 149
Period size: 39 Copynumber: 7.3 Consensus size: 39
198028 CCCGTGATCA
* * * * * **
198038 GGGTAAGGAGATTGGTTTATGGTGATCTACCTTAGGCTTA
1 GGGTAA-GAGATTGGTTGACGATGATCTGCCCTAGGCTCG
* ** *
198078 GGGTAAGAGATCGAATGACTG-TAATCTGCCTCT-GGCTCG
1 GGGTAAGAGATTGGTTGAC-GATGATCTGCC-CTAGGCTCG
* *
198117 AGGTAAGAGATTGGTTGACGATGATCTG-CCTCAGACTCG
1 GGGTAAGAGATTGGTTGACGATGATCTGCCCT-AGGCTCG
* *
198156 GGGTAAGATATCAAATGGTT-AC-A--ATCTGTCCCGA-GCTCG
1 GGGTAAGAGAT----TGGTTGACGATGATCTG-CCCTAGGCTCG
**
198195 GGGTAAGAGATTGGTTGATTATGATCTGCCCTAGGCTCG
1 GGGTAAGAGATTGGTTGACGATGATCTGCCCTAGGCTCG
* **** * * *
198234 GGGTAAAAGATCAAATG--GCTGCAACATGCTCTAGGCTCG
1 GGGTAAGAGATTGGTTGACGATG-ATC-TGCCCTAGGCTCG
* *
198273 AGGTAAGAGATTGGTTGATGATGATCTGCCCTAGGCTCG
1 GGGTAAGAGATTGGTTGACGATGATCTGCCCTAGGCTCG
*
198312 GGGTAAAAGAT
1 GGGTAAGAGAT
198323 CAAATGGCTG
Statistics
Matches: 182, Mismatches: 43, Indels: 41
0.68 0.16 0.15
Matches are distributed among these distances:
35 5 0.03
36 1 0.01
37 5 0.03
38 8 0.04
39 139 0.76
40 11 0.06
41 6 0.03
42 2 0.01
43 5 0.03
ACGTcount: A:0.26, C:0.16, G:0.31, T:0.27
Consensus pattern (39 bp):
GGGTAAGAGATTGGTTGACGATGATCTGCCCTAGGCTCG
Found at i:198160 original size:78 final size:77
Alignment explanation
Indices: 198039--198373 Score: 363
Period size: 78 Copynumber: 4.3 Consensus size: 77
198029 CCGTGATCAG
* * * * ** * * * *
198039 GGTAAGGAGATTGGTTTATGGTGATCTACCTTAGGCTTAGGGTAAGAGATCGAATGACTGTAATC
1 GGTAA-GAGATTGGTTGATGATGATCTGCCCTAGGCTCGGGGTAAAAGATCAAATGGCTGCAA-C
198104 -TGCCTCTGGCTCGA
64 ATG-CTCTGGCTCGA
* * * * * *
198118 GGTAAGAGATTGGTTGACGATGATCTG-CCTCAGACTCGGGGTAAGATATCAAATGGTTACAATC
1 GGTAAGAGATTGGTTGATGATGATCTGCCCT-AGGCTCGGGGTAAAAGATCAAATGGCTGCAA-C
* *
198182 -TG-TCCCGAGCTCGG
64 ATGCT-CTG-GCTCGA
*
198196 GGTAAGAGATTGGTTGATTATGATCTGCCCTAGGCTCGGGGTAAAAGATCAAATGGCTGCAACAT
1 GGTAAGAGATTGGTTGATGATGATCTGCCCTAGGCTCGGGGTAAAAGATCAAATGGCTGCAACAT
198261 GCTCTAGGCTCGA
66 GCTCT-GGCTCGA
198274 GGTAAGAGATTGGTTGATGATGATCTGCCCTAGGCTCGGGGTAAAAGATCAAATGGCTGCAACAT
1 GGTAAGAGATTGGTTGATGATGATCTGCCCTAGGCTCGGGGTAAAAGATCAAATGGCTGCAACAT
* *
198339 GCTCCAGGCTCGG
66 GCT-CTGGCTCGA
*
198352 GGTAATAGATTGGTTGATGATG
1 GGTAAGAGATTGGTTGATGATG
198374 TAACTTCACT
Statistics
Matches: 219, Mismatches: 29, Indels: 17
0.83 0.11 0.06
Matches are distributed among these distances:
76 1 0.00
77 5 0.02
78 202 0.92
79 11 0.05
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.27
Consensus pattern (77 bp):
GGTAAGAGATTGGTTGATGATGATCTGCCCTAGGCTCGGGGTAAAAGATCAAATGGCTGCAACAT
GCTCTGGCTCGA
Found at i:198329 original size:156 final size:156
Alignment explanation
Indices: 198038--198373 Score: 412
Period size: 156 Copynumber: 2.1 Consensus size: 156
198028 CCCGTGATCA
* * * * * * *
198038 GGGTAAGGAGATTGGTTTATGGTGATCTACCTTAGGCTTAGGGTAAGAGATCGAATGACTGTAAT
1 GGGTAA-GAGATTGGTTGATGATGATCTACCCTAGGCTCAGGGTAAAAGATCAAATGACTGCAAT
* *
198103 CTGCCTCTGGCTCGAGGTAAGAGATTGGTTGACGATGATCTGCCTCAGACTCGGGGTAAGATATC
65 CTGCCTCTGGCTCGAGGTAAGAGATTGGTTGACGATGATCTGCCTCAGACTCGGGGTAAAAGATC
* *
198168 AAATGGTTACAATC-TG-TCCCGAGCTCG
130 AAATGGCTACAA-CATGCTCCAG-GCTCG
* * * *
198195 GGGTAAGAGATTGGTTGATTATGATCTGCCCTAGGCTCGGGGTAAAAGATCAAATGGCTGCAA-C
1 GGGTAAGAGATTGGTTGATGATGATCTACCCTAGGCTCAGGGTAAAAGATCAAATGACTGCAATC
* *
198259 ATG-CTCTAGGCTCGAGGTAAGAGATTGGTTGATGATGATCTGCC-CTAGGCTCGGGGTAAAAGA
66 -TGCCTCT-GGCTCGAGGTAAGAGATTGGTTGACGATGATCTGCCTC-AGACTCGGGGTAAAAGA
*
198322 TCAAATGGCTGCAACATGCTCCAGGCTCG
128 TCAAATGGCTACAACATGCTCCAGGCTCG
*
198351 GGGTAATAGATTGGTTGATGATG
1 GGGTAAGAGATTGGTTGATGATG
198374 TAACTTCACT
Statistics
Matches: 154, Mismatches: 20, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
155 7 0.05
156 137 0.89
157 10 0.06
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.27
Consensus pattern (156 bp):
GGGTAAGAGATTGGTTGATGATGATCTACCCTAGGCTCAGGGTAAAAGATCAAATGACTGCAATC
TGCCTCTGGCTCGAGGTAAGAGATTGGTTGACGATGATCTGCCTCAGACTCGGGGTAAAAGATCA
AATGGCTACAACATGCTCCAGGCTCG
Found at i:198348 original size:39 final size:39
Alignment explanation
Indices: 198227--198361 Score: 132
Period size: 39 Copynumber: 3.5 Consensus size: 39
198217 GATCTGCCCT
*
198227 AGGCTCGGGGTAAAAGATCAAATGGCTGCAACATGCTCT
1 AGGCTCGGGGTAAAAGATCAAATGGCTGCAACATGCTCC
* * **** * *
198266 AGGCTCGAGGTAAGAGATTGGTTGATGATG-ATC-TGC-CC
1 AGGCTCGGGGTAAAAGATCAAATG--GCTGCAACATGCTCC
198304 TAGGCTCGGGGTAAAAGATCAAATGGCTGCAACATGCTCC
1 -AGGCTCGGGGTAAAAGATCAAATGGCTGCAACATGCTCC
*
198344 AGGCTCGGGGTAATAGAT
1 AGGCTCGGGGTAAAAGAT
198362 TGGTTGATGA
Statistics
Matches: 72, Mismatches: 18, Indels: 12
0.71 0.18 0.12
Matches are distributed among these distances:
37 3 0.04
38 3 0.04
39 59 0.82
40 4 0.06
41 3 0.04
ACGTcount: A:0.28, C:0.19, G:0.31, T:0.22
Consensus pattern (39 bp):
AGGCTCGGGGTAAAAGATCAAATGGCTGCAACATGCTCC
Found at i:200052 original size:19 final size:17
Alignment explanation
Indices: 200030--200091 Score: 52
Period size: 19 Copynumber: 3.3 Consensus size: 17
200020 TCGACCTCTC
200030 CTTTTCTTTCTCTTTTTCT
1 CTTTT-TTTCTCTTTTT-T
* *
200049 CTTTTTTTTTTTGTTTTTT
1 C--TTTTTTTCTCTTTTTT
200068 CTTTTTCTTCTTCTTTTTT
1 CTTTTT-TTC-TCTTTTTT
200087 CTTTT
1 CTTTT
200092 CTTTTATTCA
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
17 5 0.14
18 2 0.06
19 15 0.43
20 9 0.26
21 4 0.11
ACGTcount: A:0.00, C:0.18, G:0.02, T:0.81
Consensus pattern (17 bp):
CTTTTTTTCTCTTTTTT
Found at i:200084 original size:12 final size:11
Alignment explanation
Indices: 200030--200096 Score: 59
Period size: 11 Copynumber: 5.9 Consensus size: 11
200020 TCGACCTCTC
*
200030 CTTTTCTTTCT
1 CTTTTCTTTTT
200041 CTTTTTCTCTTTT
1 C-TTTTCT-TTTT
200054 -TTTT-TTTGTT
1 CTTTTCTTT-TT
200064 -TTTTCTTTTT
1 CTTTTCTTTTT
200074 CTTCTTCTTTTTT
1 CTT-TTC-TTTTT
200087 CTTTTCTTTT
1 CTTTTCTTTT
200097 ATTCATTGAA
Statistics
Matches: 48, Mismatches: 1, Indels: 14
0.76 0.02 0.22
Matches are distributed among these distances:
9 2 0.04
10 9 0.19
11 14 0.29
12 12 0.25
13 11 0.23
ACGTcount: A:0.00, C:0.18, G:0.01, T:0.81
Consensus pattern (11 bp):
CTTTTCTTTTT
Found at i:203444 original size:24 final size:25
Alignment explanation
Indices: 203417--203466 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
203407 ACCATATTTT
203417 CTTA-TGTACTTAGGCCAAAACTCA
1 CTTATTGTACTTAGGCCAAAACTCA
203441 CTTATTGTACTTAGGCCAAAACTCA
1 CTTATTGTACTTAGGCCAAAACTCA
203466 C
1 C
203467 ATCATCAAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 4 0.16
25 21 0.84
ACGTcount: A:0.32, C:0.26, G:0.12, T:0.30
Consensus pattern (25 bp):
CTTATTGTACTTAGGCCAAAACTCA
Found at i:205750 original size:29 final size:30
Alignment explanation
Indices: 205679--205753 Score: 75
Period size: 29 Copynumber: 2.6 Consensus size: 30
205669 GCTCGAGGTC
**
205679 AAAAATGGAATTTTGG-AAAGTTCGGGGGT
1 AAAAATGGAATTTTGGAAAAAATCGGGGGT
* * *
205708 -AAAGTGTAAGTTTTGGAAAAAAT-GGGGTT
1 AAAAATGGAA-TTTTGGAAAAAATCGGGGGT
205737 AAAAATGGAATTTTGGA
1 AAAAATGGAATTTTGGA
205754 GAAGTTTAAG
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
28 7 0.19
29 18 0.50
30 11 0.31
ACGTcount: A:0.39, C:0.01, G:0.31, T:0.29
Consensus pattern (30 bp):
AAAAATGGAATTTTGGAAAAAATCGGGGGT
Found at i:207608 original size:17 final size:17
Alignment explanation
Indices: 207583--207653 Score: 79
Period size: 17 Copynumber: 4.2 Consensus size: 17
207573 TTTTAATTTT
*
207583 ATTTTAATTTAAAATAA
1 ATTTAAATTTAAAATAA
*
207600 ATTTAAATTTAAAGTAA
1 ATTTAAATTTAAAATAA
* * * *
207617 ATTCAAACTCAAAATGA
1 ATTTAAATTTAAAATAA
*
207634 ATTTGAATTTAAAATAA
1 ATTTAAATTTAAAATAA
207651 ATT
1 ATT
207654 CAAACTTATT
Statistics
Matches: 42, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
17 42 1.00
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.39
Consensus pattern (17 bp):
ATTTAAATTTAAAATAA
Found at i:207631 original size:34 final size:34
Alignment explanation
Indices: 207593--207659 Score: 107
Period size: 34 Copynumber: 2.0 Consensus size: 34
207583 ATTTTAATTT
*
207593 AAAATAAATTTAAATTTAAAGTAAATTCAAACTC
1 AAAATAAATTTAAATTTAAAATAAATTCAAACTC
* *
207627 AAAATGAATTTGAATTTAAAATAAATTCAAACT
1 AAAATAAATTTAAATTTAAAATAAATTCAAACT
207660 TATTTAAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.55, C:0.07, G:0.04, T:0.33
Consensus pattern (34 bp):
AAAATAAATTTAAATTTAAAATAAATTCAAACTC
Found at i:209144 original size:412 final size:412
Alignment explanation
Indices: 208344--210817 Score: 4242
Period size: 411 Copynumber: 6.0 Consensus size: 412
208334 AGTATTTATG
208344 AAATAATTTTTGAAAATTTACCCAATAATGTT-AAAACTATAAAATAAAGTTTGAAAAACCACAA
1 AAATAATTTTTGAAAATTTACCCAATAATGTTAAAAACTATAAAATAAAGTTTGAAAAACCACAA
* *
208408 CCCAAAATTTAATATAAAAATTAAAAAAAAAAGAATAAAATTGAATTGCCCTAAATGGTACCGTT
66 CCCAAAATTTAATAT-AAAA-T--AAAAAAAAGAATAAAATCGAATTGCCCTAAATGGTACCATT
208473 AATCAATTTTTTCCCTACTAATTTCCATTAGGGGCTATTTTTTTTGGTGAATTACAATAACATGA
127 AATCAATTTTTTCCCTACTAATTTCCATTAGGGGCTATTTTTTTTGGTGAATTACAATAACATGA
** * *
208538 CAAAATTAGAACAACAAACGTGACTAACGTGATTCGAACTCAGACCACCTCTAAAACGATAAACA
192 CAAAGCTCGAACAACAAACGTGACTAGCGTGATTCGAACTCAGACCACCTCTAAAACGATAAACA
208603 CCCTTGATCATCAGACTATCACATAGAATTCCATTAGGGGCTACTCCAATCATGTCTAGAGAGAC
257 CCCTTGATCATCAGACTATCACATAGAATTCCATTAGGGGCTACTCCAATCATGTCTAGAGAGAC
208668 ATTAAAAGGGGTTTGGCCTATTTTGCAAATAACTGAATTGTAGATATATAGTAGTTTTAGGTATG
322 ATTAAAAGGGGTTTGGCCTATTTTGCAAATAACTGAATTGTAGATATATAGTAGTTTTAGGTATG
208733 GGGTTAAGGTTAGGCATGAATTGAGC
387 GGGTTAAGGTTAGGCATGAATTGAGC
208759 AAATAATTTTTGAAAATTTACCCAATAATGTTAAAAACTATAAAATAAAGTTTGAAAAACCACAA
1 AAATAATTTTTGAAAATTTACCCAATAATGTTAAAAACTATAAAATAAAGTTTGAAAAACCACAA
208824 CCCAAAATTTAACCTA-AAAATAAAAAAAAGAATAAAATCGAATTGCCCTAAATGGTACCATTAA
66 CCCAAAATTTAA--TATAAAATAAAAAAAAGAATAAAATCGAATTGCCCTAAATGGTACCATTAA
208888 TCAA-TTTTTCCCTACTAATTTCCATTAGGGGCTATTTTTTTTGGTGAATTACAATAACATGACA
129 TCAATTTTTTCCCTACTAATTTCCATTAGGGGCTATTTTTTTTGGTGAATTACAATAACATGACA
* * * *
208952 AAGCTCGAACAACAAATGTGGCTAGCGTGATTCGAACTCAAACCACCTCTAAAACGATAAACATC
194 AAGCTCGAACAACAAACGTGACTAGCGTGATTCGAACTCAGACCACCTCTAAAACGATAAACACC
209017 CTTGATCATCAGACTATCACATAGAATTCCATTAGGGGCTACTCCAATCATGTCTAGAGAGACAT
259 CTTGATCATCAGACTATCACATAGAATTCCATTAGGGGCTACTCCAATCATGTCTAGAGAGACAT
*
209082 TAAAAGGGGTTTGACCTATTTTGCAAATAACTGAATTGTAGATATATAGTAGTTTTAGGTATGGG
324 TAAAAGGGGTTTGGCCTATTTTGCAAATAACTGAATTGTAGATATATAGTAGTTTTAGGTATGGG
* *
209147 GTTAAGGTTAGACAAGAATTGAGC
389 GTTAAGGTTAGGCATGAATTGAGC
209171 AAATAATTTTTGAAAATTTACCCAATAATGTTAAAAACTATAAAATAAAGTTTGAAAAACCACAA
1 AAATAATTTTTGAAAATTTACCCAATAATGTTAAAAACTATAAAATAAAGTTTGAAAAACCACAA
209236 CCCAAAATTTAATATAAAATAAAAAAAAGAATAAAATCGAATTGCCCTAAATGGTACCATTAATC
66 CCCAAAATTTAATATAAAATAAAAAAAAGAATAAAATCGAATTGCCCTAAATGGTACCATTAATC
* * *
209301 AATTTTTTCCCTACTAATTTCAATTAGGGG-T-TTTTTTTTTGTGAATTGCAATAACATGACAAA
131 AATTTTTTCCCTACTAATTTCCATTAGGGGCTATTTTTTTTGGTGAATTACAATAACATGACAAA
*
209364 GCTCGAACAACAAGCGTGACTAGCGTGATTCGAACTCAGACCACCTCTAAAACGATAAACACCCT
196 GCTCGAACAACAAACGTGACTAGCGTGATTCGAACTCAGACCACCTCTAAAACGATAAACACCCT
* * *
209429 TGATCATCAGACTATCACATAGAATTCCATTAAGAGCTACTCCAATCATGTCTAGAGAGACATTG
261 TGATCATCAGACTATCACATAGAATTCCATTAGGGGCTACTCCAATCATGTCTAGAGAGACATTA
* * *
209494 AAAGGGGTTTGACCTATTTTGCAAATAATTGAATTGTAGATATATATTAGTTTTAGGTATGGGGT
326 AAAGGGGTTTGGCCTATTTTGCAAATAACTGAATTGTAGATATATAGTAGTTTTAGGTATGGGGT
209559 TAAGGTTAGGCATGAATTGAGC
391 TAAGGTTAGGCATGAATTGAGC
209581 AAATAATTTTTGAAAATTTACCCAATAATGTTAAAAACTATAAAATAAAGTTTGAAAAACCACAA
1 AAATAATTTTTGAAAATTTACCCAATAATGTTAAAAACTATAAAATAAAGTTTGAAAAACCACAA
* * *
209646 CCCAAAATTTAATATAAAAAAAAAAAAAAGAATAAAATCGAATTGCCCTAATTGGTACCAGTAAT
66 CCCAAAATTTAATAT-AAAATAAAAAAAAGAATAAAATCGAATTGCCCTAAATGGTACCATTAAT
* *
209711 CAATTTTTTCCCTACTAATTTCCATTAGGGGCTATTCTTTTTGGTGAATTGCAATAACATGACAA
130 CAATTTTTTCCCTACTAATTTCCATTAGGGGCTATTTTTTTTGGTGAATTACAATAACATGACAA
* * *
209776 AGCTCGAACAAAAAACGTGACTAGCGTGATTCGAACTCAGACTACCTCTAAAACAATAAACACCC
195 AGCTCGAACAACAAACGTGACTAGCGTGATTCGAACTCAGACCACCTCTAAAACGATAAACACCC
*
209841 TTGATCATCAGACTATCACATAAAATTCCATTAGGGGCTACTCCAATCATGTCTAGAGAGACATT
260 TTGATCATCAGACTATCACATAGAATTCCATTAGGGGCTACTCCAATCATGTCTAGAGAGACATT
209906 AAAAGGGGTTTGGCCTATTTTGCAAATAACTGAATTGTAGATATATAGTAGTTTTAGGTATGGGG
325 AAAAGGGGTTTGGCCTATTTTGCAAATAACTGAATTGTAGATATATAGTAGTTTTAGGTATGGGG
209971 TTAAGGTTAGGCATGAATTGAGC
390 TTAAGGTTAGGCATGAATTGAGC
*
209994 AAATAATTTTTGAAAATTTACCCAATAATGTTAAAAATTATAAAATAAAGTTTGAAAAACCACAA
1 AAATAATTTTTGAAAATTTACCCAATAATGTTAAAAACTATAAAATAAAGTTTGAAAAACCACAA
* * * *
210059 CCCAAAATTTAGTATATAA-AAAAAAAAGAATAAAATCGAATTGCCCTAATTGGTACCAGTAATC
66 CCCAAAATTTAATATAAAATAAAAAAAAGAATAAAATCGAATTGCCCTAAATGGTACCATTAATC
* * *
210123 AATTTTTTCCCTACTAATTTCCATCAGGGGTTATTTTTTTTGGTGAATTGCAATAACATGACAAA
131 AATTTTTTCCCTACTAATTTCCATTAGGGGCTATTTTTTTTGGTGAATTACAATAACATGACAAA
* * * * ** *
210188 TCTCGAACAAAAAACGTGACTAGTGTGATTCGAACTCAGACTACCTCTAAAATAATAAACACTCT
196 GCTCGAACAACAAACGTGACTAGCGTGATTCGAACTCAGACCACCTCTAAAACGATAAACACCCT
* *
210253 TGATCATCAGGCTATCACATAGAATTCCATTAGGGGCTACTCCAATCATGTCTAGAGAAACATTA
261 TGATCATCAGACTATCACATAGAATTCCATTAGGGGCTACTCCAATCATGTCTAGAGAGACATTA
* *
210318 AAAGGGGTTTGGCCTATTTTGCAAATAACTGAATTGTAAATATATAGTAGTTTTAGGTATGAGGT
326 AAAGGGGTTTGGCCTATTTTGCAAATAACTGAATTGTAGATATATAGTAGTTTTAGGTATGGGGT
210383 TAAGGTTAGGCATGAATTGAGC
391 TAAGGTTAGGCATGAATTGAGC
210405 AAATAATTTTTGAAAATTTACCCAATAATGTTAAAAACTATAAAATAAAGTTTGAAAAACCACAA
1 AAATAATTTTTGAAAATTTACCCAATAATGTTAAAAACTATAAAATAAAGTTTGAAAAACCACAA
*
210470 CCCAAAATTTAATATAAAA-AAAAAAAAGAATAAAATCAAATTGCCCTAAATGGTACCATTAATC
66 CCCAAAATTTAATATAAAATAAAAAAAAGAATAAAATCGAATTGCCCTAAATGGTACCATTAATC
210534 AATTTTTTCCCTCCCTACTAATTTCCATTAGGGGCTATTTTTTTTGGTGAATTACAATAACATGA
131 AA-TTTTT---TCCCTACTAATTTCCATTAGGGGCTATTTTTTTTGGTGAATTACAATAACATGA
* * *
210599 CAAAGCTCGAACAACAAACGTGACTAACATGATTCGAACTCAGACCACCTCTAAAATGATAAACA
192 CAAAGCTCGAACAACAAACGTGACTAGCGTGATTCGAACTCAGACCACCTCTAAAACGATAAACA
* * * *
210664 CTCTTGATCATTAGATTATCACATAGAATTCCATTAAGGGCTACTCCAATCATGTCTAGAGAGAC
257 CCCTTGATCATCAGACTATCACATAGAATTCCATTAGGGGCTACTCCAATCATGTCTAGAGAGAC
* **
210729 ATTAAAAGGGGTTTGGCCTATTTTGCAAATAACTGAATTGTAGATATATATTAGTTTTACATATG
322 ATTAAAAGGGGTTTGGCCTATTTTGCAAATAACTGAATTGTAGATATATAGTAGTTTTAGGTATG
210794 GGGTTAAGGTTAGGCATGAATTGA
387 GGGTTAAGGTTAGGCATGAATTGA
210818 ATTTTTAGTT
Statistics
Matches: 1961, Mismatches: 86, Indels: 24
0.95 0.04 0.01
Matches are distributed among these distances:
410 317 0.16
411 569 0.29
412 380 0.19
413 359 0.18
415 286 0.15
416 48 0.02
418 2 0.00
ACGTcount: A:0.40, C:0.16, G:0.15, T:0.30
Consensus pattern (412 bp):
AAATAATTTTTGAAAATTTACCCAATAATGTTAAAAACTATAAAATAAAGTTTGAAAAACCACAA
CCCAAAATTTAATATAAAATAAAAAAAAGAATAAAATCGAATTGCCCTAAATGGTACCATTAATC
AATTTTTTCCCTACTAATTTCCATTAGGGGCTATTTTTTTTGGTGAATTACAATAACATGACAAA
GCTCGAACAACAAACGTGACTAGCGTGATTCGAACTCAGACCACCTCTAAAACGATAAACACCCT
TGATCATCAGACTATCACATAGAATTCCATTAGGGGCTACTCCAATCATGTCTAGAGAGACATTA
AAAGGGGTTTGGCCTATTTTGCAAATAACTGAATTGTAGATATATAGTAGTTTTAGGTATGGGGT
TAAGGTTAGGCATGAATTGAGC
Found at i:213419 original size:15 final size:17
Alignment explanation
Indices: 213383--213424 Score: 61
Period size: 15 Copynumber: 2.5 Consensus size: 17
213373 AAACAGGAAA
213383 GAAAGAAAGGAAGGAGAG
1 GAAAGAAA-GAAGGAGAG
213401 GAAAGAAAGAA-GA-AG
1 GAAAGAAAGAAGGAGAG
213416 GAAAGAAAG
1 GAAAGAAAG
213425 GTAATGTGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
15 11 0.46
16 2 0.08
17 3 0.12
18 8 0.33
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (17 bp):
GAAAGAAAGAAGGAGAG
Done.