Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168481.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_8, 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: 25818110
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 67000 characters in sequence are not A, C, G, or T
File 71 of 127
Found at i:13763023 original size:20 final size:20
Alignment explanation
Indices: 13762998--13763043 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
13762988 CCCCCCAATG
*
13762998 CCCCACCGCACCCAATCCCT
1 CCCCACCCCACCCAATCCCT
* *
13763018 CCCCACCCCATCCAATCTCT
1 CCCCACCCCACCCAATCCCT
13763038 CCCCAC
1 CCCCAC
13763044 GTGTCTAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.20, C:0.65, G:0.02, T:0.13
Consensus pattern (20 bp):
CCCCACCCCACCCAATCCCT
Found at i:13765848 original size:23 final size:23
Alignment explanation
Indices: 13765798--13765849 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 23
13765788 AACCAATCAA
* *
13765798 ATTTTATTAAAATTTAAACTGAT
1 ATTTAATTAAAATTTAAACTAAT
* *
13765821 TTTTAATTAAAATTTAAATTAAT
1 ATTTAATTAAAATTTAAACTAAT
13765844 ATTTAA
1 ATTTAA
13765850 CATAATATTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (23 bp):
ATTTAATTAAAATTTAAACTAAT
Found at i:13766259 original size:2 final size:2
Alignment explanation
Indices: 13766252--13766293 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
13766242 CATGATAAGG
13766252 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
13766294 GTTAGGATAG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13766728 original size:2 final size:2
Alignment explanation
Indices: 13766721--13766748 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
13766711 ACATTTGTAA
13766721 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
13766749 CTAAATCTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13767112 original size:22 final size:21
Alignment explanation
Indices: 13767087--13767163 Score: 59
Period size: 22 Copynumber: 3.5 Consensus size: 21
13767077 AAATAATTTA
13767087 TTTAATTAATATTTATATGATT
1 TTTAATTAATATTT-TATGATT
* *
13767109 TTTAATTATAAATTATTTAT-ATA
1 TTTAATTA-ATA-T-TTTATGATT
*
13767132 TTTAGTTAAATATTTTA-GTATT
1 TTTAATT-AATATTTTATG-ATT
13767154 TTTAATTAAT
1 TTTAATTAAT
13767164 TTATTTATTT
Statistics
Matches: 43, Mismatches: 6, Indels: 13
0.69 0.10 0.21
Matches are distributed among these distances:
21 7 0.16
22 17 0.40
23 12 0.28
24 5 0.12
25 2 0.05
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (21 bp):
TTTAATTAATATTTTATGATT
Found at i:13770057 original size:62 final size:62
Alignment explanation
Indices: 13769991--13770174 Score: 289
Period size: 62 Copynumber: 3.0 Consensus size: 62
13769981 AAAATATTTT
* * * *
13769991 AAAAATTTTAATTTCTAGAAAAATTGATACTTTCAACTTTTTCTCAAAAATAAATTTTTTAG
1 AAAAAATTTATTTTCAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAATATATTTTTTAG
* *
13770053 AAAAAACTTATTTTCAAGGAAAATTGATACTTTCAACTTTTTCTCAAAAATATATTTTTTAG
1 AAAAAATTTATTTTCAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAATATATTTTTTAG
* *
13770115 AAAAAATTTATTTTCAAGAAAAATTGATACTTTCAACTTTTCCTTAAAAA-ATATTTTTTA
1 AAAAAATTTATTTTCAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAATATATTTTTTA
13770175 AAATTTTATT
Statistics
Matches: 112, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
61 10 0.09
62 102 0.91
ACGTcount: A:0.42, C:0.10, G:0.05, T:0.43
Consensus pattern (62 bp):
AAAAAATTTATTTTCAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAATATATTTTTTAG
Found at i:13770134 original size:18 final size:18
Alignment explanation
Indices: 13770098--13770137 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
13770088 ACTTTTTCTC
**
13770098 AAAAATATATTTTTTAGA
1 AAAAATATATTTTCAAGA
*
13770116 AAAAATTTATTTTCAAGA
1 AAAAATATATTTTCAAGA
13770134 AAAA
1 AAAA
13770138 TTGATACTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.55, C:0.03, G:0.05, T:0.38
Consensus pattern (18 bp):
AAAAATATATTTTCAAGA
Found at i:13770212 original size:9 final size:9
Alignment explanation
Indices: 13770190--13770326 Score: 73
Period size: 9 Copynumber: 14.2 Consensus size: 9
13770180 TTATTTAAAG
13770190 AAAATAATA
1 AAAATAATA
13770199 AAAA-AATA
1 AAAATAATA
13770207 ATAAA-AATA
1 A-AAATAATA
13770216 AAAA-AATA
1 AAAATAATA
* *
13770224 AAAGTAAAA
1 AAAATAATA
13770233 AAAATAATA
1 AAAATAATA
*
13770242 AAAATAAAA
1 AAAATAATA
*
13770251 TAAAAGAACTAA
1 -AAAATAA-T-A
13770263 ACAAACCTAACCTA
1 A-AAA--TAA--TA
*
13770277 ATCAATAATA
1 A-AAATAATA
*
13770287 ATAATAATA
1 AAAATAATA
*
13770296 CAAATAATA
1 AAAATAATA
*
13770305 ATAATAATA
1 AAAATAATA
13770314 ATAAATAAATA
1 A-AAAT-AATA
13770325 AA
1 AA
13770327 TAAATATAAA
Statistics
Matches: 101, Mismatches: 16, Indels: 21
0.73 0.12 0.15
Matches are distributed among these distances:
8 15 0.15
9 52 0.51
10 13 0.13
11 6 0.06
12 7 0.07
14 6 0.06
15 2 0.02
ACGTcount: A:0.72, C:0.06, G:0.01, T:0.20
Consensus pattern (9 bp):
AAAATAATA
Found at i:13770217 original size:17 final size:17
Alignment explanation
Indices: 13770195--13770250 Score: 80
Period size: 17 Copynumber: 3.4 Consensus size: 17
13770185 TAAAGAAAAT
13770195 AATAAAAAAATAATAAA
1 AATAAAAAAATAATAAA
*
13770212 AATAAAAAAATAA-AAG
1 AATAAAAAAATAATAAA
*
13770228 TA-AAAAAAATAATAAA
1 AATAAAAAAATAATAAA
13770244 AATAAAA
1 AATAAAA
13770251 TAAAAGAACT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
15 10 0.30
16 6 0.18
17 17 0.52
ACGTcount: A:0.82, C:0.00, G:0.02, T:0.16
Consensus pattern (17 bp):
AATAAAAAAATAATAAA
Found at i:13770250 original size:29 final size:30
Alignment explanation
Indices: 13770198--13770256 Score: 93
Period size: 32 Copynumber: 1.9 Consensus size: 30
13770188 AGAAAATAAT
13770198 AAAAAAATAATAAAAATAAAAAAATAAAAGTA
1 AAAAAAATAATAAAAAT--AAAAATAAAAGTA
13770230 AAAAAAATAATAAAAAT-AAAATAAAAG
1 AAAAAAATAATAAAAATAAAAATAAAAG
13770257 AACTAAACAA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
29 10 0.37
32 17 0.63
ACGTcount: A:0.81, C:0.00, G:0.03, T:0.15
Consensus pattern (30 bp):
AAAAAAATAATAAAAATAAAAATAAAAGTA
Found at i:13770288 original size:3 final size:3
Alignment explanation
Indices: 13770275--13770317 Score: 61
Period size: 3 Copynumber: 14.0 Consensus size: 3
13770265 AAACCTAACC
13770275 TAA TCAA TAA TAA TAA TAA TACA -AA TAA TAA TAA TAA TAA TAA
1 TAA T-AA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA
13770318 ATAAATAAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
2 1 0.03
3 32 0.86
4 4 0.11
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:13770328 original size:15 final size:14
Alignment explanation
Indices: 13770283--13770329 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 14
13770273 CCTAATCAAT
*
13770283 AATAATAATAATACA
1 AATAATAATAA-ATA
13770298 AATAATAAT-AAT-
1 AATAATAATAAATA
13770310 AATAATAAATAAATA
1 AATAAT-AATAAATA
13770325 AATAA
1 AATAA
13770330 ATATAAAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
12 6 0.21
13 4 0.14
14 4 0.14
15 14 0.50
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (14 bp):
AATAATAATAAATA
Found at i:13771166 original size:22 final size:22
Alignment explanation
Indices: 13771132--13771316 Score: 102
Period size: 22 Copynumber: 7.6 Consensus size: 22
13771122 ATAAAATAAA
*
13771132 ATAAAAAAT-ATATATTAATAG
1 ATAAATAATAATATATTAATAG
* * *
13771153 ATAAATGATAATATGTAAATAG
1 ATAAATAATAATATATTAATAG
*
13771175 ATAAATAATTATAAATATATATTAACAG
1 ATAAAT-A--AT--A-ATATATTAATAG
13771203 ATAAATAATAATAAAATATGTTAATAG
1 ATAAATAATAAT---ATA--TTAATAG
* *
13771230 ATAAATAATAACATATAAATAG
1 ATAAATAATAATATATTAATAG
*
13771252 ATAAATAATTATAAATATATATTAACAG
1 ATAAAT-A--AT--A-ATATATTAATAG
* *
13771280 ATAACTAATAAAATATGTTAATAG
1 ATAAATAAT--AATATATTAATAG
13771304 ATAAATAATAATA
1 ATAAATAATAATA
13771317 ATGAAAAATT
Statistics
Matches: 128, Mismatches: 18, Indels: 35
0.71 0.10 0.19
Matches are distributed among these distances:
21 7 0.05
22 34 0.27
23 2 0.02
24 21 0.16
25 14 0.11
27 21 0.16
28 29 0.23
ACGTcount: A:0.59, C:0.02, G:0.06, T:0.33
Consensus pattern (22 bp):
ATAAATAATAATATATTAATAG
Found at i:13771191 original size:18 final size:18
Alignment explanation
Indices: 13771168--13771268 Score: 62
Period size: 18 Copynumber: 5.3 Consensus size: 18
13771158 TGATAATATG
13771168 TAAATAGATAAATAATTA
1 TAAATAGATAAATAATTA
* * **
13771186 TAAATATAT-ATTAACAGA
1 TAAATAGATAAATAA-TTA
* *
13771204 TAAATA-ATAATAAAATATG
1 TAAATAGATAA-ATAAT-TA
*
13771223 TTAATAGATAAATAATAACATA
1 TAAATAGATAAATAAT----TA
13771245 TAAATAGATAAATAATTA
1 TAAATAGATAAATAATTA
13771263 TAAATA
1 TAAATA
13771269 TATATTAACA
Statistics
Matches: 62, Mismatches: 13, Indels: 16
0.68 0.14 0.18
Matches are distributed among these distances:
17 6 0.10
18 24 0.39
19 11 0.18
20 4 0.06
22 17 0.27
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (18 bp):
TAAATAGATAAATAATTA
Found at i:13771304 original size:74 final size:76
Alignment explanation
Indices: 13771127--13771314 Score: 283
Period size: 77 Copynumber: 2.5 Consensus size: 76
13771117 AAAAAATAAA
* * * * *
13771127 ATAA-AATAAAAAATATATATTAATAGATAAATGATAATATGTAAATAGATAAATAATTATAAAT
1 ATAATAATAATAAA-ATATGTTAATAGATAAATAATAACATATAAATAGATAAATAATTATAAAT
13771191 ATATATTAACAG
65 ATATATTAACAG
13771203 ATAAATAATAATAAAATATGTTAATAGATAAATAATAACATATAAATAGATAAATAATTATAAAT
1 AT-AATAATAATAAAATATGTTAATAGATAAATAATAACATATAAATAGATAAATAATTATAAAT
13771268 ATATATTAACAG
65 ATATATTAACAG
*
13771280 AT-A-ACTAATAAAATATGTTAATAGATAAATAATAA
1 ATAATAATAATAAAATATGTTAATAGATAAATAATAA
13771315 TAATGAAAAA
Statistics
Matches: 104, Mismatches: 6, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
74 31 0.30
75 1 0.01
76 2 0.02
77 62 0.60
78 8 0.08
ACGTcount: A:0.60, C:0.02, G:0.06, T:0.32
Consensus pattern (76 bp):
ATAATAATAATAAAATATGTTAATAGATAAATAATAACATATAAATAGATAAATAATTATAAATA
TATATTAACAG
Found at i:13771357 original size:10 final size:10
Alignment explanation
Indices: 13771224--13771358 Score: 51
Period size: 10 Copynumber: 12.3 Consensus size: 10
13771214 TAAAATATGT
13771224 TAATAGATAAA
1 TAATA-ATAAA
* *
13771235 TAATAACATA
1 TAATAATAAA
13771245 TAAATAGATAAA
1 T-AATA-ATAAA
*
13771257 TAATTATAAA
1 TAATAATAAA
*
13771267 TATATATTAACAGA
1 TA-ATAAT-A-A-A
13771281 TAACTAATAAAA
1 TAA-TAAT-AAA
* *
13771293 TATGTTAATAGA
1 TA--ATAATAAA
13771305 TAAATAAT-AA
1 T-AATAATAAA
13771315 TAATGAA-AAA
1 TAAT-AATAAA
*
13771325 TTATATATAAA
1 TAATA-ATAAA
13771336 TACATAAT-AA
1 TA-ATAATAAA
13771346 TAATAATAAA
1 TAATAATAAA
13771356 TAA
1 TAA
13771359 GTAAATAAAA
Statistics
Matches: 94, Mismatches: 14, Indels: 33
0.67 0.10 0.23
Matches are distributed among these distances:
9 9 0.10
10 30 0.32
11 25 0.27
12 14 0.15
13 8 0.09
14 8 0.09
ACGTcount: A:0.61, C:0.03, G:0.04, T:0.32
Consensus pattern (10 bp):
TAATAATAAA
Found at i:13771367 original size:101 final size:102
Alignment explanation
Indices: 13771185--13771367 Score: 216
Period size: 101 Copynumber: 1.8 Consensus size: 102
13771175 ATAAATAATT
**
13771185 ATAAATATATATTAACAGATAAATAATAATAAAATATGTTAATAGATAAATAATAACATATAAAT
1 ATAAATATATATTAACAGATAAATAATAATAAAATAAATTAATAGATAAATAATAACATATAAAT
*
13771250 AGATAAATAATTATAAATATATATTAACAGATAACTA
66 AGATAAATAATAATAAATATATATTAACAGATAACTA
* * * *
13771287 ATAAA-ATATGTTAATAGATAAATAATAATAATGAA-AAATT-ATATATAAATACATAATA-AT-
1 ATAAATATATATTAACAGATAAATAATAATAA--AATAAATTAATAGATAAATA-ATAACATATA
13771347 AATA-ATAAATAAGTAAATAAA
63 AATAGATAAATAA-T-AATAAA
13771368 AGTAAAAAAT
Statistics
Matches: 69, Mismatches: 7, Indels: 11
0.79 0.08 0.13
Matches are distributed among these distances:
99 8 0.12
100 5 0.07
101 41 0.59
102 13 0.19
103 2 0.03
ACGTcount: A:0.61, C:0.03, G:0.05, T:0.32
Consensus pattern (102 bp):
ATAAATATATATTAACAGATAAATAATAATAAAATAAATTAATAGATAAATAATAACATATAAAT
AGATAAATAATAATAAATATATATTAACAGATAACTA
Found at i:13771379 original size:34 final size:34
Alignment explanation
Indices: 13771306--13771379 Score: 80
Period size: 34 Copynumber: 2.2 Consensus size: 34
13771296 GTTAATAGAT
* * *
13771306 AAATAATAATAATGAAAAATTATATATAAATACA
1 AAATAATAATAATGAAAAAGTAAATATAAATAAA
*
13771340 TAATAATAATAAT-AAATAAGTAAATA-AAAGTAAA
1 AAATAATAATAATGAAA-AAGTAAATATAAA-TAAA
13771374 AAATAA
1 AAATAA
13771380 AAGTGGACTT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
33 6 0.18
34 27 0.82
ACGTcount: A:0.68, C:0.01, G:0.04, T:0.27
Consensus pattern (34 bp):
AAATAATAATAATGAAAAAGTAAATATAAATAAA
Found at i:13771608 original size:42 final size:40
Alignment explanation
Indices: 13771558--13771801 Score: 187
Period size: 42 Copynumber: 6.0 Consensus size: 40
13771548 AATCTTGATC
13771558 AAAGCTCCTCTAAACAGAGGCTCAACGACTTTGAAAATTAA
1 AAAGCTCCTCTAAACAGAGGCTCAACGACTTTGAAAA-TAA
13771599 TAAAGCTCCTCTAAACAGAGGCATCATA--ACTTTAGAAAATAA
1 -AAAGCTCCTCTAAACAGAGGC-TCA-ACGACTTT-GAAAATAA
** * *
13771641 ATGGCTCCTCTAATCAGAGGCTCTACGACTTTTGAAAAATAA
1 AAAGCTCCTCTAAACAGAGGCTCAACGAC-TTTG-AAAATAA
* * ** ** *
13771683 ACAGCTCCTCTGATTAGAGGCTTTACGACTTT---AA-AC
1 AAAGCTCCTCTAAACAGAGGCTCAACGACTTTGAAAATAA
* * * *
13771719 AAAGCTCCTCTAATCAGAGGCTTAACAACTTTTGAAAGTAA
1 AAAGCTCCTCTAAACAGAGGCTCAACGAC-TTTGAAAATAA
** * *
13771760 ATTGTTCCTCTAAACAGAGGCATC-ACAACTTTGAAAATAA
1 AAAGCTCCTCTAAACAGAGGC-TCAACGACTTTGAAAATAA
13771800 AA
1 AA
13771802 GGTTCCTTGA
Statistics
Matches: 165, Mismatches: 24, Indels: 28
0.76 0.11 0.13
Matches are distributed among these distances:
36 25 0.15
37 5 0.03
39 1 0.01
40 14 0.08
41 47 0.28
42 64 0.39
43 8 0.05
44 1 0.01
ACGTcount: A:0.39, C:0.21, G:0.14, T:0.26
Consensus pattern (40 bp):
AAAGCTCCTCTAAACAGAGGCTCAACGACTTTGAAAATAA
Found at i:13775847 original size:59 final size:59
Alignment explanation
Indices: 13775755--13775874 Score: 222
Period size: 59 Copynumber: 2.0 Consensus size: 59
13775745 TCTACACACA
13775755 TTCATACCTTTTCATCTTTCTTAAGAACTGGTACTATATTGACTACCCACTCTGGATAC
1 TTCATACCTTTTCATCTTTCTTAAGAACTGGTACTATATTGACTACCCACTCTGGATAC
* *
13775814 TTCATACCTTTTCATCTTTTTTAAGAACTGGTACTATATTGATTACCCACTCTGGATAC
1 TTCATACCTTTTCATCTTTCTTAAGAACTGGTACTATATTGACTACCCACTCTGGATAC
13775873 TT
1 TT
13775875 AACCACTTGT
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
59 59 1.00
ACGTcount: A:0.25, C:0.23, G:0.10, T:0.42
Consensus pattern (59 bp):
TTCATACCTTTTCATCTTTCTTAAGAACTGGTACTATATTGACTACCCACTCTGGATAC
Found at i:13780122 original size:15 final size:15
Alignment explanation
Indices: 13780102--13780133 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
13780092 TTTTATTAAG
*
13780102 TGTAATGAGTGAGAA
1 TGTAATGAATGAGAA
13780117 TGTAATGAATGAGAA
1 TGTAATGAATGAGAA
13780132 TG
1 TG
13780134 CATGTATGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.41, C:0.00, G:0.31, T:0.28
Consensus pattern (15 bp):
TGTAATGAATGAGAA
Found at i:13783511 original size:61 final size:62
Alignment explanation
Indices: 13783380--13783555 Score: 234
Period size: 61 Copynumber: 2.9 Consensus size: 62
13783370 TTTTTTTAAT
* * * * *
13783380 TTATTTTTAAGAAAAATTAATACTTTCAATTTTTTTTC-AAAA-ATAGTTTTTAGAAAAAAAAC
1 TTATTTTCAAGGAAAATTGATACTTTCAACTTTTTTTCAAAAATATATTTTTTAG--AAAAAAC
*
13783442 TTATTTTCAAGGAAAATTGATACTTTCAACTTTTTCTCAAAAATATATTTTTTAG-AAAAAC
1 TTATTTTCAAGGAAAATTGATACTTTCAACTTTTTTTCAAAAATATATTTTTTAGAAAAAAC
*
13783503 TTATTTTCAAGGAAAATTGATACTTTCAACTTTTCTTTAAAAAATAT-TTTTTT
1 TTATTTTCAAGGAAAATTGATACTTTCAACTTTT-TTTCAAAAATATATTTTTT
13783556 GAATTTTATT
Statistics
Matches: 103, Mismatches: 8, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
61 46 0.45
62 43 0.42
63 4 0.04
64 10 0.10
ACGTcount: A:0.40, C:0.09, G:0.06, T:0.45
Consensus pattern (62 bp):
TTATTTTCAAGGAAAATTGATACTTTCAACTTTTTTTCAAAAATATATTTTTTAGAAAAAAC
Found at i:13783587 original size:6 final size:6
Alignment explanation
Indices: 13783576--13783606 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
13783566 TAAAGAAAAT
13783576 AATAAA AATAAA AATAAA AAT-AA AATAAA AA
1 AATAAA AATAAA AATAAA AATAAA AATAAA AA
13783607 GTACTAAACA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.21
6 19 0.79
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AATAAA
Found at i:13783600 original size:11 final size:12
Alignment explanation
Indices: 13783576--13783606 Score: 55
Period size: 11 Copynumber: 2.7 Consensus size: 12
13783566 TAAAGAAAAT
13783576 AATAAAAATAAA
1 AATAAAAATAAA
13783588 AATAAAAAT-AA
1 AATAAAAATAAA
13783599 AATAAAAA
1 AATAAAAA
13783607 GTACTAAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (12 bp):
AATAAAAATAAA
Found at i:13784491 original size:24 final size:24
Alignment explanation
Indices: 13784457--13784684 Score: 155
Period size: 24 Copynumber: 9.2 Consensus size: 24
13784447 AAATAAAATA
*
13784457 AAATAAAAATATATATTAATAGAT
1 AAATAATAATATATATTAATAGAT
* *
13784481 AAATGATAATATGTA--AATAGAT
1 AAATAATAATATATATTAATAGAT
*
13784503 AAATAATTATAAATATATATTAACAGAT
1 AAAT-A--AT-AATATATATTAATAGAT
*
13784531 AAATAATAATAAAATATGTTAATAGAT
1 AAATAATAAT---ATATATTAATAGAT
*
13784558 AAATAATAACATATA--AATAGAT
1 AAATAATAATATATATTAATAGAT
* *
13784580 AAATAATTATAAATATATATTAACAAAT
1 AAAT-A--AT-AATATATATTAATAGAT
* *
13784608 AAATAATAAAATATGTTAATAGAT
1 AAATAATAATATATATTAATAGAT
* *
13784632 AAATAATAATAATAAATT-ATATAT
1 AAATAATAAT-ATATATTAATAGAT
* * *
13784656 TAATACATGATA-ATAATAATA-AT
1 AAATA-ATAATATATATTAATAGAT
13784679 AAATAA
1 AAATAA
13784685 GTAAATAAAA
Statistics
Matches: 160, Mismatches: 26, Indels: 38
0.71 0.12 0.17
Matches are distributed among these distances:
22 23 0.14
23 10 0.06
24 54 0.34
25 17 0.11
26 14 0.09
27 23 0.14
28 19 0.12
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (24 bp):
AAATAATAATATATATTAATAGAT
Found at i:13784517 original size:18 final size:18
Alignment explanation
Indices: 13784494--13784594 Score: 62
Period size: 18 Copynumber: 5.3 Consensus size: 18
13784484 TGATAATATG
13784494 TAAATAGATAAATAATTA
1 TAAATAGATAAATAATTA
* * **
13784512 TAAATATAT-ATTAACAGA
1 TAAATAGATAAATAA-TTA
* *
13784530 TAAATA-ATAATAAAATATG
1 TAAATAGATAA-ATAAT-TA
*
13784549 TTAATAGATAAATAATAACATA
1 TAAATAGATAAATAAT----TA
13784571 TAAATAGATAAATAATTA
1 TAAATAGATAAATAATTA
13784589 TAAATA
1 TAAATA
13784595 TATATTAACA
Statistics
Matches: 62, Mismatches: 13, Indels: 16
0.68 0.14 0.18
Matches are distributed among these distances:
17 6 0.10
18 24 0.39
19 11 0.18
20 4 0.06
22 17 0.27
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (18 bp):
TAAATAGATAAATAATTA
Found at i:13784579 original size:77 final size:74
Alignment explanation
Indices: 13784456--13784648 Score: 291
Period size: 77 Copynumber: 2.6 Consensus size: 74
13784446 AAAATAAAAT
* * *
13784456 AAAATAA-AAATATATATTAATAGATAAATGATAATATGTAAATAGATAAATAATTATAAATATA
1 AAAATAATAAA-ATATGTTAATAGATAAATAATAATATATAAATAGATAAATAATTATAAATATA
13784520 TATTAACAGATA
65 TATTAACA-A-A
*
13784532 AATAATAATAAAATATGTTAATAGATAAATAATAACATATAAATAGATAAATAATTATAAATATA
1 AA-AATAATAAAATATGTTAATAGATAAATAATAATATATAAATAGATAAATAATTATAAATATA
13784597 TATTAACAAA
65 TATTAACAAA
*
13784607 TAAATAATAAAATATGTTAATAGATAAATAATAATA-ATAAAT
1 AAAATAATAAAATATGTTAATAGATAAATAATAATATATAAAT
13784649 TATATATTAA
Statistics
Matches: 109, Mismatches: 6, Indels: 7
0.89 0.05 0.06
Matches are distributed among these distances:
73 6 0.06
74 33 0.30
75 2 0.02
76 3 0.03
77 62 0.57
78 3 0.03
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.33
Consensus pattern (74 bp):
AAAATAATAAAATATGTTAATAGATAAATAATAATATATAAATAGATAAATAATTATAAATATAT
ATTAACAAA
Found at i:13784671 original size:34 final size:31
Alignment explanation
Indices: 13784581--13784683 Score: 103
Period size: 34 Copynumber: 3.5 Consensus size: 31
13784571 TAAATAGATA
*
13784581 AATAATTATAAATATATATT-A-AC--AAAT
1 AATAATAATAAATATATATTAATACATAAAT
* *
13784608 -A-AATAATAAA-ATATGTTAATAGATAAAT
1 AATAATAATAAATATATATTAATACATAAAT
13784636 AATAATAATAAATTATATATTAATACATGATAAT
1 AATAATAATAAA-TATATATTAATACAT-A-AAT
13784670 AATAATAATAAATA
1 AATAATAATAAATA
13784684 AGTAAATAAA
Statistics
Matches: 61, Mismatches: 5, Indels: 14
0.76 0.06 0.17
Matches are distributed among these distances:
24 6 0.10
25 9 0.15
26 2 0.03
28 4 0.07
29 1 0.02
30 9 0.15
32 12 0.20
33 3 0.05
34 15 0.25
ACGTcount: A:0.60, C:0.02, G:0.03, T:0.35
Consensus pattern (31 bp):
AATAATAATAAATATATATTAATACATAAAT
Found at i:13784691 original size:8 final size:7
Alignment explanation
Indices: 13784551--13784709 Score: 82
Period size: 7 Copynumber: 22.4 Consensus size: 7
13784541 AAAATATGTT
13784551 AATAGATA
1 AATA-ATA
13784559 AATAATA
1 AATAATA
13784566 ACAT-ATA
1 A-ATAATA
13784573 AATAGATA
1 AATA-ATA
13784581 AATAAT-
1 AATAATA
*
13784587 TATAAATA
1 AAT-AATA
* *
13784595 TATATTA
1 AATAATA
13784602 ACA-AATA
1 A-ATAATA
13784609 AATAATAA
1 AATAAT-A
* *
13784617 AATATGTT
1 AATA-ATA
13784625 AATAGATA
1 AATA-ATA
13784633 AATAAT-
1 AATAATA
13784639 AATAATA
1 AATAATA
*
13784646 AATTATA
1 AATAATA
*
13784653 TATTAATA
1 -AATAATA
* *
13784661 CATGAT-
1 AATAATA
13784667 AATAAT-
1 AATAATA
13784673 AATAATA
1 AATAATA
13784680 AATAAGTA
1 AATAA-TA
13784688 AATAA-A
1 AATAATA
*
13784694 AATAAAA
1 AATAATA
13784701 AATAA-A
1 AATAATA
13784707 AAT
1 AAT
13784710 GAACTTACCT
Statistics
Matches: 120, Mismatches: 17, Indels: 30
0.72 0.10 0.18
Matches are distributed among these distances:
6 31 0.26
7 45 0.38
8 43 0.36
9 1 0.01
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.31
Consensus pattern (7 bp):
AATAATA
Found at i:13784698 original size:58 final size:55
Alignment explanation
Indices: 13784550--13784698 Score: 133
Period size: 56 Copynumber: 2.6 Consensus size: 55
13784540 TAAAATATGT
*
13784550 TAATAGATAAATAATAACAT-ATAAATAGATAAATAATTATAAATATATATTAACAAATA
1 TAATA-AT-AATAATAA-ATAATAAATA-A-AAATAATAATAAATATATATTAACAAATA
** * * *
13784609 -AATAATAA-AATATGTTAATAGATAAATAATAATAATAAATTATATATTAATACATGA
1 TAATAATAATAATA-AATAATAAATAAA-AATAATAATAAA-TATATATTAACAAAT-A
13784666 TAATAATAATAATAAATAAGTAAATAAAAATAA
1 TAATAATAATAATAAATAA-TAAATAAAAATAA
13784699 AAAATAAAAA
Statistics
Matches: 73, Mismatches: 9, Indels: 17
0.74 0.09 0.17
Matches are distributed among these distances:
54 1 0.01
55 17 0.23
56 21 0.29
57 3 0.04
58 20 0.27
59 11 0.15
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.32
Consensus pattern (55 bp):
TAATAATAATAATAAATAATAAATAAAAATAATAATAAATATATATTAACAAATA
Found at i:13785917 original size:1 final size:1
Alignment explanation
Indices: 13785911--13785941 Score: 62
Period size: 1 Copynumber: 31.0 Consensus size: 1
13785901 TTTCTTTATG
13785911 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
13785942 CCCCACTTCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 30 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:13787044 original size:20 final size:21
Alignment explanation
Indices: 13787009--13787055 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
13786999 TTGATTGTTG
* *
13787009 GATGAATGTAGGGAAGTAATT
1 GATGAATATAGGGAAGGAATT
13787030 GATGAATAT-GGGAAGGAATT
1 GATGAATATAGGGAAGGAATT
*
13787050 GGTGAA
1 GATGAA
13787056 GCTAGGTGGG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 15 0.65
21 8 0.35
ACGTcount: A:0.38, C:0.00, G:0.36, T:0.26
Consensus pattern (21 bp):
GATGAATATAGGGAAGGAATT
Found at i:13791342 original size:6 final size:6
Alignment explanation
Indices: 13791333--13791357 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
13791323 TAAATTGAAA
13791333 TTAATT TTAATT TTAATT TTAATT T
1 TTAATT TTAATT TTAATT TTAATT T
13791358 CATTTGGACC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
TTAATT
Found at i:13797990 original size:18 final size:18
Alignment explanation
Indices: 13797948--13797981 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
13797938 TAACTCTTTC
13797948 ATTAATTTTTCAAAAAAA
1 ATTAATTTTTCAAAAAAA
13797966 ATTAATTTTT-AAAAAA
1 ATTAATTTTTCAAAAAA
13797982 CTAATAATTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (18 bp):
ATTAATTTTTCAAAAAAA
Found at i:13799870 original size:44 final size:44
Alignment explanation
Indices: 13799807--13799896 Score: 144
Period size: 44 Copynumber: 2.0 Consensus size: 44
13799797 ATATAGCTAA
*
13799807 AGGATATTGAAAGGATCTATGGGTATTATACTCTATATGACTAG
1 AGGATATTGAAAGGATCTATGGGTATTATACTCCATATGACTAG
* * *
13799851 AGGATATTGAGAGGATCTATGTGTATTATACTCCATATGGCTAG
1 AGGATATTGAAAGGATCTATGGGTATTATACTCCATATGACTAG
13799895 AG
1 AG
13799897 AAAATTAAGA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.32, C:0.10, G:0.24, T:0.33
Consensus pattern (44 bp):
AGGATATTGAAAGGATCTATGGGTATTATACTCCATATGACTAG
Found at i:13799912 original size:44 final size:44
Alignment explanation
Indices: 13799820--13799913 Score: 125
Period size: 44 Copynumber: 2.1 Consensus size: 44
13799810 ATATTGAAAG
* * * * *
13799820 GATCTATGGGTATTATACTCTATATGACTAGAGGATATTGAGAG
1 GATCTATGGGTATTATACTCCATATGACTAGAGAAAATTAAGAA
* *
13799864 GATCTATGTGTATTATACTCCATATGGCTAGAGAAAATTAAGAA
1 GATCTATGGGTATTATACTCCATATGACTAGAGAAAATTAAGAA
13799908 GATCTA
1 GATCTA
13799914 AGAGCATTAA
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.33
Consensus pattern (44 bp):
GATCTATGGGTATTATACTCCATATGACTAGAGAAAATTAAGAA
Found at i:13803298 original size:20 final size:20
Alignment explanation
Indices: 13803273--13803313 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
13803263 TGTATGCGTG
13803273 AAATTGTCATCCCAAATAGA
1 AAATTGTCATCCCAAATAGA
13803293 AAATTGTCATCCCAAATAGA
1 AAATTGTCATCCCAAATAGA
13803313 A
1 A
13803314 CCAACAATGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.46, C:0.20, G:0.10, T:0.24
Consensus pattern (20 bp):
AAATTGTCATCCCAAATAGA
Found at i:13806997 original size:36 final size:33
Alignment explanation
Indices: 13806908--13807008 Score: 86
Period size: 32 Copynumber: 3.1 Consensus size: 33
13806898 GAACTTTATG
* *
13806908 GGCT-TGTTTGGTCTTGGCCCAAAA-ATAATAA
1 GGCTCTGTTTGGTCTTGGCTCAAAACAAAATAA
13806939 GGCTCTGTTTGGTACTT-G-TCAAAACAAAATGGCAA
1 GGCTCTGTTTGGT-CTTGGCTCAAAACAAAAT---AA
* *
13806974 GG-TCATGTTTGGTCTTGGCTCAAACCAAAACAA
1 GGCTC-TGTTTGGTCTTGGCTCAAAACAAAATAA
13807007 GG
1 GG
13807009 TAGGAGTTCA
Statistics
Matches: 57, Mismatches: 4, Indels: 16
0.74 0.05 0.21
Matches are distributed among these distances:
31 9 0.16
32 13 0.23
33 7 0.12
34 5 0.09
35 13 0.23
36 10 0.18
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.29
Consensus pattern (33 bp):
GGCTCTGTTTGGTCTTGGCTCAAAACAAAATAA
Found at i:13819247 original size:18 final size:16
Alignment explanation
Indices: 13819218--13819271 Score: 63
Period size: 18 Copynumber: 3.1 Consensus size: 16
13819208 TGTACAATAA
13819218 AAATATAAAAAATTTT
1 AAATATAAAAAATTTT
13819234 AAATAATAACAAAATTTT
1 AAAT-ATAA-AAAATTTT
*
13819252 AAATTTAAATCAAATTTT
1 AAATATAAA--AAATTTT
13819270 AA
1 AA
13819272 TTCAATTAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
16 5 0.15
17 7 0.21
18 21 0.64
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (16 bp):
AAATATAAAAAATTTT
Found at i:13827392 original size:2 final size:2
Alignment explanation
Indices: 13827385--13827420 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
13827375 TTTTGTACAA
*
13827385 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13827421 GGTTAATTTC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:13827909 original size:18 final size:18
Alignment explanation
Indices: 13827888--13827922 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
13827878 AAATAAATAA
* *
13827888 AAATTAAGAGTTAAAAAT
1 AAATTAAAAATTAAAAAT
13827906 AAATTAAAAATTAAAAA
1 AAATTAAAAATTAAAAA
13827923 AATAAAAATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.69, C:0.00, G:0.06, T:0.26
Consensus pattern (18 bp):
AAATTAAAAATTAAAAAT
Found at i:13829957 original size:14 final size:14
Alignment explanation
Indices: 13829938--13829964 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
13829928 TATTTCACAT
13829938 AAAATAATTTTTGA
1 AAAATAATTTTTGA
13829952 AAAATAATTTTTG
1 AAAATAATTTTTG
13829965 TATTTTAAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.44
Consensus pattern (14 bp):
AAAATAATTTTTGA
Found at i:13830529 original size:27 final size:29
Alignment explanation
Indices: 13830493--13830547 Score: 78
Period size: 27 Copynumber: 2.0 Consensus size: 29
13830483 TAAACATAAA
13830493 TATTTCAATATTTCAAT-A-AAATAATAT
1 TATTTCAATATTTCAATAATAAATAATAT
* *
13830520 TATTTTAATATTTTAATAATAAATAATA
1 TATTTCAATATTTCAATAATAAATAATA
13830548 ACATATATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 15 0.62
28 1 0.04
29 8 0.33
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (29 bp):
TATTTCAATATTTCAATAATAAATAATAT
Found at i:13830790 original size:15 final size:16
Alignment explanation
Indices: 13830754--13830793 Score: 55
Period size: 17 Copynumber: 2.5 Consensus size: 16
13830744 ATAAAAATTG
13830754 TAAATATTTTATTAGTA
1 TAAATATTTTATTAG-A
*
13830771 TAAATATTTTGTTA-A
1 TAAATATTTTATTAGA
13830786 TAAATATT
1 TAAATATT
13830794 AATATTTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 9 0.41
17 13 0.59
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (16 bp):
TAAATATTTTATTAGA
Found at i:13830822 original size:18 final size:19
Alignment explanation
Indices: 13830801--13830838 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
13830791 ATTAATATTT
13830801 TAATATTAATAAAA-ATAA
1 TAATATTAATAAAATATAA
*
13830819 TAATATTATTAAAATATAA
1 TAATATTAATAAAATATAA
13830838 T
1 T
13830839 TATTCTCAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
TAATATTAATAAAATATAA
Found at i:13836643 original size:2 final size:2
Alignment explanation
Indices: 13836636--13836661 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
13836626 AAGTAAAGGC
13836636 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
13836662 TGGAAGTAGA
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:13837081 original size:17 final size:19
Alignment explanation
Indices: 13837053--13837098 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 19
13837043 TAAATTAAAG
13837053 TATTAA-ATAATAT-TTT-
1 TATTAATATAATATATTTA
13837069 TATTAATATAATATATTTA
1 TATTAATATAATATATTTA
*
13837088 TATAAATATAA
1 TATTAATATAA
13837099 ATTAAATAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
16 6 0.23
17 7 0.27
18 3 0.12
19 10 0.38
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
TATTAATATAATATATTTA
Found at i:13838452 original size:27 final size:26
Alignment explanation
Indices: 13838390--13838452 Score: 65
Period size: 27 Copynumber: 2.3 Consensus size: 26
13838380 TTTCAATAAA
13838390 AATATATTATTTAATTAATAAAATATT
1 AATATATT-TTTAATTAATAAAATATT
* * *
13838417 TATAAATTTTTAATTATTTAAAATCA-T
1 AATATATTTTTAATTA-ATAAAAT-ATT
13838444 AATATATTT
1 AATATATTT
13838453 AATAAAATAT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
26 8 0.28
27 20 0.69
28 1 0.03
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.51
Consensus pattern (26 bp):
AATATATTTTTAATTAATAAAATATT
Found at i:13841186 original size:15 final size:16
Alignment explanation
Indices: 13841161--13841190 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
13841151 ATAAAAATTT
13841161 AAAATAATATATAAAC
1 AAAATAATATATAAAC
13841177 AAAA-AATATATAAA
1 AAAATAATATATAAA
13841191 TATACGGAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.23
Consensus pattern (16 bp):
AAAATAATATATAAAC
Found at i:13841492 original size:19 final size:19
Alignment explanation
Indices: 13841468--13841506 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
13841458 AACTGTAATT
13841468 ATTAAAAAT-TATGAAAAAA
1 ATTAAAAATATAT-AAAAAA
13841487 ATTAAAAATATATAAAAAA
1 ATTAAAAATATATAAAAAA
13841506 A
1 A
13841507 AACACTTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 16 0.84
20 3 0.16
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.26
Consensus pattern (19 bp):
ATTAAAAATATATAAAAAA
Found at i:13841504 original size:20 final size:19
Alignment explanation
Indices: 13841468--13841507 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
13841458 AACTGTAATT
*
13841468 ATTAAAAATTATGAAAAAA
1 ATTAAAAATTATAAAAAAA
13841487 ATTAAAAATATATAAAAAAA
1 ATTAAAAAT-TATAAAAAAA
13841507 A
1 A
13841508 ACACTTTAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (19 bp):
ATTAAAAATTATAAAAAAA
Found at i:13841708 original size:3 final size:3
Alignment explanation
Indices: 13841700--13841733 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
13841690 AAAATTTTAA
13841700 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
13841734 GAAGAAGAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:13848370 original size:2 final size:2
Alignment explanation
Indices: 13848365--13848395 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
13848355 AACAGCAGCA
13848365 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
13848396 AATAGAGTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:13852583 original size:2 final size:2
Alignment explanation
Indices: 13852576--13852644 Score: 93
Period size: 2 Copynumber: 34.5 Consensus size: 2
13852566 GAGCAGATGG
* * * *
13852576 TA TA TA TA TA TA TA TG TA TA TA TG TC TA TA TA TA TA CA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
13852618 TA TG 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
13852645 CAGACAGCAA
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
2 58 1.00
ACGTcount: A:0.43, C:0.03, G:0.04, T:0.49
Consensus pattern (2 bp):
TA
Found at i:13852608 original size:22 final size:22
Alignment explanation
Indices: 13852578--13852642 Score: 103
Period size: 22 Copynumber: 3.0 Consensus size: 22
13852568 GCAGATGGTA
*
13852578 TATATATATATATGTATATATG
1 TATATATATATATATATATATG
* *
13852600 TCTATATATATACATATATATG
1 TATATATATATATATATATATG
13852622 TATATATATATATATATATAT
1 TATATATATATATATATATAT
13852643 ATCAGACAGC
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.49
Consensus pattern (22 bp):
TATATATATATATATATATATG
Found at i:13857721 original size:8 final size:8
Alignment explanation
Indices: 13857708--13857763 Score: 62
Period size: 8 Copynumber: 7.1 Consensus size: 8
13857698 ATCTTATAAT
13857708 TAATTAAA
1 TAATTAAA
13857716 TAATTAAA
1 TAATTAAA
*
13857724 TAATTGAA
1 TAATTAAA
13857732 TAA-TAAA
1 TAATTAAA
* *
13857739 TTA-TAATT
1 TAATTAA-A
13857747 TAATTAAA
1 TAATTAAA
13857755 TAATTAAA
1 TAATTAAA
13857763 T
1 T
13857764 TCACGCAAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
7 8 0.20
8 29 0.73
9 3 0.08
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (8 bp):
TAATTAAA
Found at i:13859106 original size:24 final size:22
Alignment explanation
Indices: 13859054--13859106 Score: 54
Period size: 24 Copynumber: 2.3 Consensus size: 22
13859044 AAATTATTTT
13859054 AATAT-AAAATAATAAATAAAA
1 AATATAAAAATAATAAATAAAA
*
13859075 ATATTATAAAAATATTAAAATTAAAA
1 A-A-TATAAAAATAAT-AAA-TAAAA
13859101 AATATA
1 AATATA
13859107 TAGTATTTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 1 0.04
22 1 0.04
23 3 0.12
24 11 0.42
25 4 0.15
26 6 0.23
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (22 bp):
AATATAAAAATAATAAATAAAA
Found at i:13859338 original size:24 final size:22
Alignment explanation
Indices: 13859310--13859353 Score: 61
Period size: 24 Copynumber: 1.9 Consensus size: 22
13859300 TATATCATCT
13859310 TATATTTATATTTATTATTATTAC
1 TATATTTATA-TTATT-TTATTAC
*
13859334 TATATTTTTATTATTTTATT
1 TATATTTATATTATTTTATT
13859354 TTGTAATAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 5 0.26
23 5 0.26
24 9 0.47
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (22 bp):
TATATTTATATTATTTTATTAC
Found at i:13860353 original size:6 final size:6
Alignment explanation
Indices: 13860339--13860393 Score: 56
Period size: 6 Copynumber: 8.7 Consensus size: 6
13860329 AAATGAAATG
* * *
13860339 AAATGA AAATAA AAATAA AAATAA AAATACCA AAATAAA AAACAA AAAAAA
1 AAATAA AAATAA AAATAA AAATAA AAATA--A AAAT-AA AAATAA AAATAA
13860390 AAAT
1 AAAT
13860394 TAATTGACTT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
6 32 0.76
7 4 0.10
8 5 0.12
9 1 0.02
ACGTcount: A:0.80, C:0.05, G:0.02, T:0.13
Consensus pattern (6 bp):
AAATAA
Found at i:13860358 original size:11 final size:11
Alignment explanation
Indices: 13860306--13860367 Score: 56
Period size: 12 Copynumber: 5.6 Consensus size: 11
13860296 TTGATAAACA
*
13860306 AAAAATAAAAC
1 AAAAATAAAAT
*
13860317 AAAAATAACAT
1 AAAAATAAAAT
*
13860328 -AAAATGAAAT
1 AAAAATAAAAT
*
13860338 -GAAATGAAAAT
1 AAAAAT-AAAAT
13860349 AAAAATAAAAAT
1 AAAAAT-AAAAT
13860361 AAAAATA
1 AAAAATA
13860368 CCAAAATAAA
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
10 12 0.29
11 14 0.34
12 15 0.37
ACGTcount: A:0.76, C:0.03, G:0.05, T:0.16
Consensus pattern (11 bp):
AAAAATAAAAT
Found at i:13861447 original size:1 final size:1
Alignment explanation
Indices: 13861441--13861470 Score: 60
Period size: 1 Copynumber: 30.0 Consensus size: 1
13861431 AACTAATTGG
13861441 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
13861471 GCGAATGAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 29 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:13867835 original size:82 final size:82
Alignment explanation
Indices: 13867698--13867857 Score: 257
Period size: 82 Copynumber: 2.0 Consensus size: 82
13867688 TACAAAAAGC
* * * *
13867698 ACCTCATAAGGTTGAGGTGGTGTGAACCCTTTTATATCCCAGTGACCTTCCTATTATGTTTGATG
1 ACCTCATAAGGTTGAGGTGGTGTGAACCCTTTTATACCCCAGTGACCCTCCTATTATGTTCGATA
13867763 CGAGATTCAAGACAAGT
66 CGAGATTCAAGACAAGT
*
13867780 ACCTCATAAGGTTGAGGTGGTGTGAACCCTTTTATACCCCAGTGACCCTCTTATTATGTTCGATA
1 ACCTCATAAGGTTGAGGTGGTGTGAACCCTTTTATACCCCAGTGACCCTCCTATTATGTTCGATA
* *
13867845 CGGGATTTAAGAC
66 CGAGATTCAAGAC
13867858 TTCTCTTTAG
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
82 71 1.00
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.33
Consensus pattern (82 bp):
ACCTCATAAGGTTGAGGTGGTGTGAACCCTTTTATACCCCAGTGACCCTCCTATTATGTTCGATA
CGAGATTCAAGACAAGT
Found at i:13868143 original size:112 final size:112
Alignment explanation
Indices: 13867946--13868174 Score: 395
Period size: 112 Copynumber: 2.0 Consensus size: 112
13867936 ACTTCTCCTT
* *
13867946 AGGTCCGACCTCGTGACGCCCTCGTCATGGAGGTTGGTCACCCTGCCTTCCTCCCTCAAGGTGTC
1 AGGTCCGACCTCGTGACGCCCTCGTCATGGAGGTTGGTCACCCTGCCTTCATCCCTCAAGGTGCC
* * *
13868011 TGGCGTGGATCGAACGGTTTAGGGTTGGCTCTGATATCATTTGTCAC
66 TGGCGTGGATCGAACGGTTTAGGGTTGACTCTGATACCACTTGTCAC
*
13868058 AGGTCCGACCTCGTGACGCCCTCGTCATGGAGGTTGGTCACCCTGCCTTCATCCCTTAAGGTGCC
1 AGGTCCGACCTCGTGACGCCCTCGTCATGGAGGTTGGTCACCCTGCCTTCATCCCTCAAGGTGCC
13868123 TGGCGTGGATCGAACGGTTTAGGGTTGACTCTGATACCACTTGTCAC
66 TGGCGTGGATCGAACGGTTTAGGGTTGACTCTGATACCACTTGTCAC
*
13868170 GGGTC
1 AGGTC
13868175 AAGACTTAAG
Statistics
Matches: 110, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
112 110 1.00
ACGTcount: A:0.15, C:0.29, G:0.29, T:0.28
Consensus pattern (112 bp):
AGGTCCGACCTCGTGACGCCCTCGTCATGGAGGTTGGTCACCCTGCCTTCATCCCTCAAGGTGCC
TGGCGTGGATCGAACGGTTTAGGGTTGACTCTGATACCACTTGTCAC
Found at i:13871912 original size:2 final size:2
Alignment explanation
Indices: 13871905--13871932 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
13871895 TCAGGAATAA
13871905 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
13871933 TACTCATCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13878382 original size:29 final size:29
Alignment explanation
Indices: 13878327--13878385 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 29
13878317 CTATTATTTT
*
13878327 ATTTAAATAAATTTATATATTTTTATTAA
1 ATTTAAATAAATTTATATATTTATATTAA
13878356 ATTTAAATAAAATTT-TA-ATCTTATATTAA
1 ATTTAAAT-AAATTTATATAT-TTATATTAA
13878385 A
1 A
13878386 ACAAATTCTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
28 2 0.07
29 19 0.70
30 6 0.22
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (29 bp):
ATTTAAATAAATTTATATATTTATATTAA
Found at i:13885970 original size:2 final size:2
Alignment explanation
Indices: 13885963--13885995 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
13885953 CCCCAAGATT
13885963 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
13885996 TTTGCCAAAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:13889380 original size:41 final size:41
Alignment explanation
Indices: 13889323--13889400 Score: 147
Period size: 41 Copynumber: 1.9 Consensus size: 41
13889313 TGTGAACCCT
*
13889323 TTTATACCCCAGGGACCCTCCTATTATGTTCGATGTGCCCA
1 TTTATACCCCAAGGACCCTCCTATTATGTTCGATGTGCCCA
13889364 TTTATACCCCAAGGACCCTCCTATTATGTTCGATGTG
1 TTTATACCCCAAGGACCCTCCTATTATGTTCGATGTG
13889401 GGATTCAGGA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.21, C:0.29, G:0.17, T:0.33
Consensus pattern (41 bp):
TTTATACCCCAAGGACCCTCCTATTATGTTCGATGTGCCCA
Found at i:13890181 original size:369 final size:372
Alignment explanation
Indices: 13889364--13890294 Score: 1687
Period size: 369 Copynumber: 2.5 Consensus size: 372
13889354 GATGTGCCCA
*
13889364 TTTATACCCCAAGGACCCTCCTATTATGTTCGATGTGGGATTCAGGACTCCCCCTTAGGTCCGTG
1 TTTATACCCCAGGGACCCTCCTATTATGTTCGATGTGGGATTCAGGACTCCCCCTTAGGTCCGTG
13889429 ACATTCTCCCGCACCCAACCTCGTGACGCCCTCGTCACGGAGGCCGGCCACCCTGCCTACCTCCC
66 ACATTCTCCCGCACCCAACCTCGTGACGCCCTCGTCACGGAGGCCGGCCACCCTGCCTACCTCCC
13889494 TCGAGGCGCTCGGCGTGGATCGAACGGTTTAGGGCTGGCTCTGATACCACTTGTCACGGGTCGAG
131 TCGAGGCGCTCGGCGTGGATCGAACGGTTTAGGGCTGGCTCTGATACCACTTGTCACGGGTCGAG
*
13889559 ACTTAAGCTCCGAACCCGCGCGGCTCCGGGACCCGGGCATTCACCCTTCCGGCGTCCCAGATCAG
196 ACTCAAGCTCCGAACCCGCGCGGCTCCGGGACCCGGGCATTCACCCTTCCGGCGTCCCAGATCAG
* *
13889624 CCTGACCGCCACGGTTCACACCCTTGTGAGGTATTGTCCGTTCTGGCCTCCCCTGGCCTCACGGT
261 CCTGACCGCCACGGTTCACACCCTTGTGAGGTATTGTCCGCTCTGGCCTCCCCTGACCTCACGGT
*
13889689 TTTGTCCTATAAAAGGCGCCTCACAAGGCGGAGATGGTGTGAACCCT
326 TTTGTCCTACAAAAGGCGCCTCACAAGGCGGAGATGGTGTGAACCCT
13889736 TTTATACCCCAGGGACCCTCCTATTATGTTCGATGTGGGATTCAGGACTCCCCCTTAGGTCCGTG
1 TTTATACCCCAGGGACCCTCCTATTATGTTCGATGTGGGATTCAGGACTCCCCCTTAGGTCCGTG
13889801 ACATTCTCCCGCACCCAA-CTCGTGACGCCCTCGTCACGGAGGCCGGCCACCCTGCCTACCTCCC
66 ACATTCTCCCGCACCCAACCTCGTGACGCCCTCGTCACGGAGGCCGGCCACCCTGCCTACCTCCC
13889865 TCGAGGGCGCTCGGCGTGGATCGAAC-GTTTA-GGCTGGCTCTGATACCACTTGTCACGGGTCGA
131 TCGA-GGCGCTCGGCGTGGATCGAACGGTTTAGGGCTGGCTCTGATACCACTTGTCACGGGTCGA
*
13889928 GGACTCAAGCTCCGAACCCGCGCGGCTCCGGGACCCGGGGCATTCACCCTTCTGGCGTCCCAGAT
195 -GACTCAAGCTCCGAACCCGCGCGGCTCCGGGACCC-GGGCATTCACCCTTCCGGCGTCCCAGAT
* *
13889993 CAGCCT-TCCGTCACGGTTCACACCCTTGTGAGGTATTGTCCGCTCTGG-C-CCCCTGACCTCAC
258 CAGCCTGACCGCCACGGTTCACACCCTTGTGAGGTATTGTCCGCTCTGGCCTCCCCTGACCTCAC
13890055 GGTTTTGTCCTACAAAAGGCGCCTCACAAGGCGGAGATGGTGTGAACCCT
323 GGTTTTGTCCTACAAAAGGCGCCTCACAAGGCGGAGATGGTGTGAACCCT
* *
13890105 TTTATATCCCAGGGACCCTCCTATTATGTTCGATGTGGGATTCAGGACTCTCCCTTAGGTCCGTG
1 TTTATACCCCAGGGACCCTCCTATTATGTTCGATGTGGGATTCAGGACTCCCCCTTAGGTCCGTG
13890170 ACATTCTCCCGCACCCAACCTCGTGACGCCCTCGTCACGGAGGCCGGCCACCCTGCCTACCTCCC
66 ACATTCTCCCGCACCCAACCTCGTGACGCCCTCGTCACGGAGGCCGGCCACCCTGCCTACCTCCC
13890235 TCGAGGCGCTCGGCGTGGATCGAACGGTTTAGGGCTGGCTCTGATACCAAC-TGTCACGGG
131 TCGAGGCGCTCGGCGTGGATCGAACGGTTTAGGGCTGGCTCTGATACC-ACTTGTCACGGG
13890295 CTCCGACCTT
Statistics
Matches: 542, Mismatches: 10, Indels: 15
0.96 0.02 0.03
Matches are distributed among these distances:
369 163 0.30
370 88 0.16
371 153 0.28
372 138 0.25
ACGTcount: A:0.17, C:0.35, G:0.26, T:0.23
Consensus pattern (372 bp):
TTTATACCCCAGGGACCCTCCTATTATGTTCGATGTGGGATTCAGGACTCCCCCTTAGGTCCGTG
ACATTCTCCCGCACCCAACCTCGTGACGCCCTCGTCACGGAGGCCGGCCACCCTGCCTACCTCCC
TCGAGGCGCTCGGCGTGGATCGAACGGTTTAGGGCTGGCTCTGATACCACTTGTCACGGGTCGAG
ACTCAAGCTCCGAACCCGCGCGGCTCCGGGACCCGGGCATTCACCCTTCCGGCGTCCCAGATCAG
CCTGACCGCCACGGTTCACACCCTTGTGAGGTATTGTCCGCTCTGGCCTCCCCTGACCTCACGGT
TTTGTCCTACAAAAGGCGCCTCACAAGGCGGAGATGGTGTGAACCCT
Found at i:13891461 original size:619 final size:618
Alignment explanation
Indices: 13890283--13891519 Score: 2388
Period size: 619 Copynumber: 2.0 Consensus size: 618
13890273 CTCTGATACC
*
13890283 AACTGTCACGGGCTCCGACCTTAGACTCAGAATCCGTGCTGCCTTAGGCTTGGAATCTCGTCCTT
1 AACTGTCACGGGCTCCGACCTTAGACTCAGAATCCGTGCGGCCTTAGGCTTGGAATCTCGTCCTT
13890348 TGATGCCTAAGTCAGCCTAAAACACAAGCGTGCCGGGCACTAGAACAAAGGAAGGGCTGATTACG
66 TGATGCCTAAGTCAGCCTAAAACACAAGCGTGCCGGGCACTAGAACAAAGGAAGGGCTGATTACG
13890413 CAAGTTAAAGAGAAACAGGATAGAAAAACAGAATTCTGGAAATGCTCTTGTGTTCACTGAAACAG
131 CAAGTTAAAGAGAAACAGGATAGAAAAACAGAATTCTGGAAATGCTCTTGTGTTCACTGAAACAG
13890478 AAGTGCTTGATGGTGTACAAATGAGGTGGAGCAGCCCTCTATTTATAGTGAGGCTCCAGCTACAA
196 AAGTGCTTGATGGTGTACAAATGAGGTGGAGCAGCCCTCTATTTATAGTGAGGCTCCAGCTACAA
13890543 CTTAATGGCAAATCCCTAAAATAAAGGCTACAATCATGGGATTACATTTAATCAAGATGCTGGTT
261 CTTAATGGCAAATCCCTAAAATAAAGGCTACAATCATGGGATTACATTTAATCAAGATGCTGGTT
13890608 CCTGATTTTCAGGGTCAACCAAATCTGCCAGGATGCTGATGCTGATCCTGCCTGGTTCCAGAAGC
326 CCTGATTTTCAGGGTCAACCAAATCTGCCAGGATGCTGATGCTGATCCTGCCTGGTTCCAGAAGC
*
13890673 TTCTCTTGCGTATCCAGCACCTCGGGCCCTTCTGGATGTGGTGCGGGCAGCCCAAATGCCAGGCC
391 TTCCCTTGCGTATCCAGCACCTCGGGCCCTTCTGGATGTGGTGCGGGCAGCCCAAATGCCAGGCC
13890738 TTGGTCTCATGAGTTGGCCTGCAAGATGGGCGGGCGTTTGGAGCTCGTTTGACAGGCTTTGCGCA
456 TTGGTCTCATGAGTTGGCCTGCAAGATGGGCGGGCGTTTGGAGCTCGTTTGACAGGCTTTGCGCA
*
13890803 CTGATACCCGCCAGCACGCCTGGTCTGCGGGCCTTAGCTGCTGGCTCGCCTGTTGGTCTGGCTGA
521 CTGATACCCGCCAGCACGCCTGGTCTGCGGGCCTTAGCTGCTGGCTCGCCTGCTGGTCTGGCTGA
*
13890868 TGTGCCTGGCGCGCCCGTCCAGGGCGTGACATT
586 TGTGCCTGGCGCGCCCGCCCAGGGCGTGACATT
13890901 AACTGTCACGGGCTCCGACCTTAGACTCAGAATCCGTGCGGCCTTAGGCTTGGAATCTCGTCC-T
1 AACTGTCACGGGCTCCGACCTTAGACTCAGAATCCGTGCGGCCTTAGGCTTGGAATCTCGTCCTT
13890965 TGATGCCTAAGTCAGCCTAAAACACAAGCGTG-CGGGCACTAGAACAAAGGGAAGGGCTGATTAC
66 TGATGCCTAAGTCAGCCTAAAACACAAGCGTGCCGGGCACTAGAACAAA-GGAAGGGCTGATTAC
13891029 GCAAGTTAAAGAGAAACAGGATAGAAAAACAGAATTCTGGAAATGCTCTTGTGTTCACTGAAACA
130 GCAAGTTAAAGAGAAACAGGATAGAAAAACAGAATTCTGGAAATGCTCTTGTGTTCACTGAAACA
13891094 GAAGTGCTTGATGGTGTACAAATGAGGGTGGAGCAGCCCTCTATTTATAGTTGAGGCTCCAGCTA
195 GAAGTGCTTGATGGTGTACAAATGA-GGTGGAGCAGCCCTCTATTTATAG-TGAGGCTCCAGCTA
13891159 CAACTTAATGGCAAATCCCTAAAATAAAGGCTACAATCATGGGATTACATTTAATCAAGATGCTG
258 CAACTTAATGGCAAATCCCTAAAATAAAGGCTACAATCATGGGATTACATTTAATCAAGATGCTG
*
13891224 GTTCCTGATTTTCAGGGTCAACCAAATCTGCCAGGATGCTGATGTTGATCCTGCCTGGTTCCAGA
323 GTTCCTGATTTTCAGGGTCAACCAAATCTGCCAGGATGCTGATGCTGATCCTGCCTGGTTCCAGA
13891289 AGCTTCCCTTGCGTATCCAGCACCTCGGGCCCTTCTGGATGTGGTGCGGGCAGCCCAAATGCCAG
388 AGCTTCCCTTGCGTATCCAGCACCTCGGGCCCTTCTGGATGTGGTGCGGGCAGCCCAAATGCCAG
13891354 GCCTTGGTCTCATGAGTTGGCCTGCAAGATGGGCGGGCGTTTGGAGCTCGTTTGACAGGCTTTGC
453 GCCTTGGTCTCATGAGTTGGCCTGCAAGATGGGCGGGCGTTTGGAGCTCGTTTGACAGGCTTTGC
13891419 GCACTGATACCCGCCAGCACGCCTGGTCTGCGGGCCTTAGCTGCTGGCTCGCCTGCTGGTCTGGC
518 GCACTGATACCCGCCAGCACGCCTGGTCTGCGGGCCTTAGCTGCTGGCTCGCCTGCTGGTCTGGC
13891484 TGATGTGCCTGGCGCGCCCGCCCAGGGCGTGACATT
583 TGATGTGCCTGGCGCGCCCGCCCAGGGCGTGACATT
13891520 CTCCCCCACC
Statistics
Matches: 611, Mismatches: 5, Indels: 5
0.98 0.01 0.01
Matches are distributed among these distances:
616 16 0.03
617 138 0.23
618 86 0.14
619 371 0.61
ACGTcount: A:0.23, C:0.25, G:0.27, T:0.24
Consensus pattern (618 bp):
AACTGTCACGGGCTCCGACCTTAGACTCAGAATCCGTGCGGCCTTAGGCTTGGAATCTCGTCCTT
TGATGCCTAAGTCAGCCTAAAACACAAGCGTGCCGGGCACTAGAACAAAGGAAGGGCTGATTACG
CAAGTTAAAGAGAAACAGGATAGAAAAACAGAATTCTGGAAATGCTCTTGTGTTCACTGAAACAG
AAGTGCTTGATGGTGTACAAATGAGGTGGAGCAGCCCTCTATTTATAGTGAGGCTCCAGCTACAA
CTTAATGGCAAATCCCTAAAATAAAGGCTACAATCATGGGATTACATTTAATCAAGATGCTGGTT
CCTGATTTTCAGGGTCAACCAAATCTGCCAGGATGCTGATGCTGATCCTGCCTGGTTCCAGAAGC
TTCCCTTGCGTATCCAGCACCTCGGGCCCTTCTGGATGTGGTGCGGGCAGCCCAAATGCCAGGCC
TTGGTCTCATGAGTTGGCCTGCAAGATGGGCGGGCGTTTGGAGCTCGTTTGACAGGCTTTGCGCA
CTGATACCCGCCAGCACGCCTGGTCTGCGGGCCTTAGCTGCTGGCTCGCCTGCTGGTCTGGCTGA
TGTGCCTGGCGCGCCCGCCCAGGGCGTGACATT
Found at i:13895824 original size:21 final size:21
Alignment explanation
Indices: 13895811--13895853 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
13895801 CTCCATCCGC
13895811 TGGCGCATGGCCTCCATGCCA
1 TGGCGCATGGCCTCCATGCCA
13895832 TGGCGCATGGCCTCCATGCCA
1 TGGCGCATGGCCTCCATGCCA
13895853 T
1 T
13895854 CTCGCAAAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.14, C:0.37, G:0.28, T:0.21
Consensus pattern (21 bp):
TGGCGCATGGCCTCCATGCCA
Found at i:13895859 original size:21 final size:21
Alignment explanation
Indices: 13895813--13895859 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
13895803 CCATCCGCTG
*
13895813 GCGCATGGCCTCCATGCCATG
1 GCGCATGGCCTCCATGCCATC
13895834 GCGCATGGCCTCCATGCCATC
1 GCGCATGGCCTCCATGCCATC
*
13895855 TCGCA
1 GCGCA
13895860 AAGTCAGAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.15, C:0.40, G:0.26, T:0.19
Consensus pattern (21 bp):
GCGCATGGCCTCCATGCCATC
Found at i:13900984 original size:395 final size:395
Alignment explanation
Indices: 13900236--13901032 Score: 1303
Period size: 395 Copynumber: 2.0 Consensus size: 395
13900226 TGCTTCTTGT
* *
13900236 ATTAAGTATAAAAATATACCCATCATCATCAGAATCAGAATCTATTTCAAAAATTAATTCATAAA
1 ATTAAGCATAAAAATATACCCATCATCATCAGAATCAGAATCTATTTAAAAAATTAATTCATAAA
* *
13900301 TAATTTGGCCTTCAAAAACTTCTTTTCCAAAATAAATTTTTAAATCTCGTTCTTCAAGAGTTTTA
66 TAAATTCGCCTTCAAAAACTTCTTTTCCAAAATAAATTTTTAAATCTCGTTCTTC-AGAG--TTA
* * *
13900366 ATAATTTTTTTTAGCATTTTTTACTTTATTAGGACATTGAGGTGCTATATGGCCTTCTTCATTAC
128 ATAACTTTTTTTAGCATTTTTTACTTTATTAGGACATTGAGGTGCTATATAGCCTTCTTCATCAC
* *
13900431 AAATAAAACATTTGTATTTTGATTTCATTTTAGAAGTTTTTCTTCTAATAATTTTTTTTTTTGTT
193 AAATAAAACATTTGCATTTTGATTTCATTTTAGAAGTTTTTCTTCTAATAATTTTTTTTTTGGTT
* *
13900496 AAATTTATGCTTTTTCAGCTTCCATTTGACCAATTTATATCCTTATTTTTTTTGTATTTCGTTGA
258 AAATTTATGCTTTTTCAGCTTCCATTTGACCAATTTATAT-CATATATTTTTTGTATTTCGTTGA
* * *
13900561 ATAGGTTTTAGATTGAGATTTGCAACCAAAATTTCATTCATTTTCTAGTATTTTTGTGCATTGTT
322 ATAGGTTTTAGATTGAGATTTACAACCAAAATTTCATTCATTTTCTAGTATTTTTATGCATTGGT
13900626 TATTACTTA
387 TATTACTTA
* *
13900635 ATTAAGCATAAAAATATATCCATCATCATCAGAATCATAATCTATTTAAAAAATTAAATTCATAA
1 ATTAAGCATAAAAATATACCCATCATCATCAGAATCAGAATCTATTTAAAAAATT-AATTCATAA
*
13900700 ATAAATTCGCCTTCAAAAACTTTTTTTCCAAAATAAATTTTTAAATCTCGTTCTTC-GAG-TAAT
65 ATAAATTCGCCTTCAAAAACTTCTTTTCCAAAATAAATTTTTAAATCTCGTTCTTCAGAGTTAAT
* *
13900763 AACTTTTTTTAGCATTTTTTACTTTATTAGGGCATTGAGGTGCTATATAGCCTTCTTCATCATAA
130 AACTTTTTTTAGCATTTTTTACTTTATTAGGACATTGAGGTGCTATATAGCCTTCTTCATCACAA
* *
13900828 ATAAAACATTTGCATTTTGATTTCCTTTTATAAGTTTTTCTTCTAATAAATTTTTTCTTTTGGTT
195 ATAAAACATTTGCATTTTGATTTCATTTTAGAAGTTTTTCTTCTAAT-AATTTTTT-TTTTGGTT
**
13900893 AAATTTATGCTTTTTTGGCTTCCATTTGACCAATTTATAT-ATATATTTTTTGTATTTCGTTGAA
258 AAATTTATGCTTTTTCAGCTTCCATTTGACCAATTTATATCATATATTTTTTGTATTTCGTTGAA
13900957 TAGGTTTTAGATTGAGATTTACAACCAAAATTTCATTCATTTTCTAGTATTTTTATGCATTGGTT
323 TAGGTTTTAGATTGAGATTTACAACCAAAATTTCATTCATTTTCTAGTATTTTTATGCATTGGTT
13901022 ATTACTTA
388 ATTACTTA
13901030 ATT
1 ATT
13901033 TACTTTTTGC
Statistics
Matches: 372, Mismatches: 23, Indels: 10
0.92 0.06 0.02
Matches are distributed among these distances:
395 203 0.55
396 8 0.02
397 45 0.12
398 3 0.01
399 51 0.14
400 62 0.17
ACGTcount: A:0.31, C:0.13, G:0.09, T:0.47
Consensus pattern (395 bp):
ATTAAGCATAAAAATATACCCATCATCATCAGAATCAGAATCTATTTAAAAAATTAATTCATAAA
TAAATTCGCCTTCAAAAACTTCTTTTCCAAAATAAATTTTTAAATCTCGTTCTTCAGAGTTAATA
ACTTTTTTTAGCATTTTTTACTTTATTAGGACATTGAGGTGCTATATAGCCTTCTTCATCACAAA
TAAAACATTTGCATTTTGATTTCATTTTAGAAGTTTTTCTTCTAATAATTTTTTTTTTGGTTAAA
TTTATGCTTTTTCAGCTTCCATTTGACCAATTTATATCATATATTTTTTGTATTTCGTTGAATAG
GTTTTAGATTGAGATTTACAACCAAAATTTCATTCATTTTCTAGTATTTTTATGCATTGGTTATT
ACTTA
Found at i:13903649 original size:30 final size:30
Alignment explanation
Indices: 13903567--13903651 Score: 125
Period size: 30 Copynumber: 2.8 Consensus size: 30
13903557 ACATTAAATG
* * * *
13903567 TTTATTTAAGTACAAATTAAAAATTAAAAT
1 TTTATTTAAATATAAATTAAAATTTAAAAA
*
13903597 TTTAGTTAAATATAAATTAAAATTTAAAAA
1 TTTATTTAAATATAAATTAAAATTTAAAAA
13903627 TTTATTTAAATATAAATTAAAATTT
1 TTTATTTAAATATAAATTAAAATTT
13903652 TATTTAAATA
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 49 1.00
ACGTcount: A:0.53, C:0.01, G:0.02, T:0.44
Consensus pattern (30 bp):
TTTATTTAAATATAAATTAAAATTTAAAAA
Found at i:13903653 original size:23 final size:23
Alignment explanation
Indices: 13903620--13903664 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
13903610 AAATTAAAAT
13903620 TTAAAAATTTATTTAAATATAAA
1 TTAAAAATTTATTTAAATATAAA
*
13903643 TTAAAATTTTATTTAAATATAA
1 TTAAAAATTTATTTAAATATAA
13903665 TAACAATATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (23 bp):
TTAAAAATTTATTTAAATATAAA
Found at i:13903704 original size:53 final size:53
Alignment explanation
Indices: 13903587--13903690 Score: 158
Period size: 52 Copynumber: 2.0 Consensus size: 53
13903577 TACAAATTAA
* * *
13903587 AAATTAAAATTTTAGTTAAATATAAATTAAAATTTAAAAATTTATTTAAATAT
1 AAATTAAAATTTTATTTAAATATAAATTAAAATATAAAAATTTATTCAAATAT
13903640 AAATTAAAATTTTATTTAAATAT-AA-TAACAATATAAAAATTTATTCAAATA
1 AAATTAAAATTTTATTTAAATATAAATTAA-AATATAAAAATTTATTCAAATA
13903691 AATTGATAAA
Statistics
Matches: 47, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
51 3 0.06
52 22 0.47
53 22 0.47
ACGTcount: A:0.56, C:0.02, G:0.01, T:0.41
Consensus pattern (53 bp):
AAATTAAAATTTTATTTAAATATAAATTAAAATATAAAAATTTATTCAAATAT
Found at i:13905148 original size:32 final size:32
Alignment explanation
Indices: 13905107--13905178 Score: 135
Period size: 32 Copynumber: 2.2 Consensus size: 32
13905097 CAATGATGAG
13905107 TAATAAAGCTTAGGAATTCACAGAGGAAACAT
1 TAATAAAGCTTAGGAATTCACAGAGGAAACAT
13905139 TAATAAAGCTTAGGAATTCACAGAGGAAACAT
1 TAATAAAGCTTAGGAATTCACAGAGGAAACAT
*
13905171 TATTAAAG
1 TAATAAAG
13905179 ACAAAAAAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
32 39 1.00
ACGTcount: A:0.47, C:0.11, G:0.18, T:0.24
Consensus pattern (32 bp):
TAATAAAGCTTAGGAATTCACAGAGGAAACAT
Found at i:13910935 original size:24 final size:24
Alignment explanation
Indices: 13910908--13910953 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
13910898 GGAACCAATT
13910908 ATGTTGTACAAGACTACGGTGATC
1 ATGTTGTACAAGACTACGGTGATC
*
13910932 ATGTTGTACAAGACTAGGGTGA
1 ATGTTGTACAAGACTACGGTGA
13910954 GGACAAACTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.30, C:0.13, G:0.28, T:0.28
Consensus pattern (24 bp):
ATGTTGTACAAGACTACGGTGATC
Found at i:13916191 original size:41 final size:40
Alignment explanation
Indices: 13916139--13916221 Score: 98
Period size: 41 Copynumber: 2.0 Consensus size: 40
13916129 TATATTACTC
13916139 TATTTGAAAATTTTAAATTGAAAAAG-AT-ATATATTTAAGAT
1 TATTTGAAAA-TTT-AATTGAAAAAGAATAATATATTTAA-AT
* * *
13916180 TATTTGGAAATTTATTTTAAAAAGAATAATATATTTAAAT
1 TATTTGAAAATTTAATTGAAAAAGAATAATATATTTAAAT
13916220 TA
1 TA
13916222 GATTTATTGT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
39 9 0.24
40 9 0.24
41 19 0.51
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.43
Consensus pattern (40 bp):
TATTTGAAAATTTAATTGAAAAAGAATAATATATTTAAAT
Found at i:13916774 original size:23 final size:23
Alignment explanation
Indices: 13916743--13916797 Score: 74
Period size: 23 Copynumber: 2.4 Consensus size: 23
13916733 AATTATATAT
* * *
13916743 ATATAATATTTTAATTTGATTTG
1 ATATTATATTTAAATTTGATTTA
*
13916766 ATTTTATATTTAAATTTGATTTA
1 ATATTATATTTAAATTTGATTTA
13916789 ATATTATAT
1 ATATTATAT
13916798 AAAATTATAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.58
Consensus pattern (23 bp):
ATATTATATTTAAATTTGATTTA
Found at i:13916809 original size:27 final size:27
Alignment explanation
Indices: 13916779--13916856 Score: 83
Period size: 26 Copynumber: 2.9 Consensus size: 27
13916769 TTATATTTAA
13916779 ATTTGATTTAATATTATATAAAATTA-T
1 ATTT-ATTTAATATTATATAAAATTATT
*
13916806 ATTTAATTTAAAATTA-ATAAAA-TATT
1 ATTT-ATTTAATATTATATAAAATTATT
*
13916832 ATTT-TTTAATATAAATATAAAATTA
1 ATTTATTTAATAT-TATATAAAATTA
13916857 AATAAATATA
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
24 7 0.16
25 3 0.07
26 17 0.40
27 16 0.37
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (27 bp):
ATTTATTTAATATTATATAAAATTATT
Found at i:13916850 original size:6 final size:6
Alignment explanation
Indices: 13916839--13916879 Score: 50
Period size: 6 Copynumber: 7.2 Consensus size: 6
13916829 ATTATTTTTT
* *
13916839 AATATA AATATA AA-ATT AA-ATA AATATA AAAATA AATATA A
1 AATATA AATATA AATATA AATATA AATATA AATATA AATATA A
13916880 TTGATATATA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
5 8 0.27
6 22 0.73
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (6 bp):
AATATA
Found at i:13916863 original size:16 final size:16
Alignment explanation
Indices: 13916837--13916876 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 16
13916827 ATATTATTTT
13916837 TTAATATAAATATAAAA
1 TTAA-ATAAATATAAAA
13916854 TTAAATAAATATAAAA
1 TTAAATAAATATAAAA
*
13916870 ATAAATA
1 TTAAATA
13916877 TAATTGATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 18 0.82
17 4 0.18
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
TTAAATAAATATAAAA
Found at i:13917091 original size:12 final size:13
Alignment explanation
Indices: 13917068--13917093 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
13917058 AATTAAGCTA
13917068 TTTTTGGTTTTTT
1 TTTTTGGTTTTTT
13917081 TTTTTGGTTTTTT
1 TTTTTGGTTTTTT
13917094 CATGCGAAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (13 bp):
TTTTTGGTTTTTT
Found at i:13917506 original size:39 final size:39
Alignment explanation
Indices: 13917432--13917506 Score: 107
Period size: 39 Copynumber: 1.9 Consensus size: 39
13917422 AAAATGGGGT
* * *
13917432 AAATATGCAAATAGCCATTCAATTTTAGGGGTTTTTGTA
1 AAATATACAAATAACCATTCAATTTTAGGGATTTTTGTA
13917471 AAATATACAAATAACCATTCAATTTT-GGGAATTTTT
1 AAATATACAAATAACCATTCAATTTTAGGG-ATTTTT
13917507 TTTAAAATGA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
38 3 0.09
39 29 0.91
ACGTcount: A:0.37, C:0.11, G:0.13, T:0.39
Consensus pattern (39 bp):
AAATATACAAATAACCATTCAATTTTAGGGATTTTTGTA
Found at i:13919062 original size:14 final size:15
Alignment explanation
Indices: 13919029--13919066 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
13919019 GAGTAAAAAA
13919029 TTAAAAAATTAATAT
1 TTAAAAAATTAATAT
* *
13919044 TTAAATAATT-ATTT
1 TTAAAAAATTAATAT
13919058 TTAAAAAAT
1 TTAAAAAAT
13919067 CTTTTAAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
14 11 0.55
15 9 0.45
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TTAAAAAATTAATAT
Found at i:13919476 original size:2 final size:2
Alignment explanation
Indices: 13919464--13919498 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
13919454 TCTAGAAAGC
13919464 AT AT A- 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
13919499 CAAAACAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:13920922 original size:2 final size:2
Alignment explanation
Indices: 13920917--13920943 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
13920907 TTTATGAAAG
13920917 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
13920944 CAGTAAAAAT
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:13923278 original size:22 final size:19
Alignment explanation
Indices: 13923244--13923287 Score: 52
Period size: 21 Copynumber: 2.2 Consensus size: 19
13923234 TTGATTGTTT
*
13923244 AATTTAAAAATAAATATTTA
1 AATTTAAAAATAAA-AATTA
13923264 AATTTATATAAATAAAAATTA
1 AATTTA-A-AAATAAAAATTA
13923285 AAT
1 AAT
13923288 ATTTTTGATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 6 0.29
21 8 0.38
22 7 0.33
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
AATTTAAAAATAAAAATTA
Found at i:13923301 original size:30 final size:29
Alignment explanation
Indices: 13923248--13923312 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 29
13923238 TTGTTTAATT
*
13923248 TAAAAA-TAAATATTTAAATTTATATAAA
1 TAAAAATTAAATATTTAAATTTATAAAAA
**
13923276 TAAAAATTAAATATTTTTGATTTATAAAAA
1 TAAAAATTAAATA-TTTAAATTTATAAAAA
*
13923306 TATAAAT
1 TAAAAAT
13923313 ATTTTTTTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
28 6 0.19
29 6 0.19
30 19 0.61
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.42
Consensus pattern (29 bp):
TAAAAATTAAATATTTAAATTTATAAAAA
Found at i:13923311 original size:25 final size:23
Alignment explanation
Indices: 13923274--13923334 Score: 88
Period size: 24 Copynumber: 2.6 Consensus size: 23
13923264 AATTTATATA
13923274 AATAAAAATTAAATATTTTTGATTT
1 AATAAAAATTAAATATTTTT--TTT
13923299 -ATAAAAATATAAATATTTTTTTT
1 AATAAAAAT-TAAATATTTTTTTT
13923322 AATAAAAATTAAA
1 AATAAAAATTAAA
13923335 ATATGAAAGA
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
23 7 0.21
24 16 0.47
25 11 0.32
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (23 bp):
AATAAAAATTAAATATTTTTTTT
Found at i:13925865 original size:26 final size:26
Alignment explanation
Indices: 13925834--13925886 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
13925824 AATCTAATAA
13925834 ATTAGAAGGAAAGTTATCAATTAATT
1 ATTAGAAGGAAAGTTATCAATTAATT
13925860 ATTAGAAGGAAAGTTATCAATTAATT
1 ATTAGAAGGAAAGTTATCAATTAATT
13925886 A
1 A
13925887 AATAAAGTAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.47, C:0.04, G:0.15, T:0.34
Consensus pattern (26 bp):
ATTAGAAGGAAAGTTATCAATTAATT
Found at i:13932162 original size:25 final size:23
Alignment explanation
Indices: 13932104--13932165 Score: 63
Period size: 25 Copynumber: 2.5 Consensus size: 23
13932094 TTTGTAATAT
13932104 TTAGCAATATTTTATTTTTTAAAAA
1 TTAG-AAT-TTTTATTTTTTAAAAA
*
13932129 CTA-ATATTTTTATTTTTTAATAAAA
1 TTAGA-ATTTTTATTTTTT-A-AAAA
13932154 TTAGAATTTTTA
1 TTAGAATTTTTA
13932166 AAAATATAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
23 12 0.39
24 3 0.10
25 15 0.48
26 1 0.03
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (23 bp):
TTAGAATTTTTATTTTTTAAAAA
Found at i:13932709 original size:16 final size:18
Alignment explanation
Indices: 13932688--13932720 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
13932678 TAACAAAAAG
13932688 TAATT-GATC-GTATTAA
1 TAATTGGATCAGTATTAA
13932704 TAATTGGATCAGTATTA
1 TAATTGGATCAGTATTA
13932721 TCAAATTCGA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 4 0.27
18 6 0.40
ACGTcount: A:0.36, C:0.06, G:0.15, T:0.42
Consensus pattern (18 bp):
TAATTGGATCAGTATTAA
Found at i:13933321 original size:16 final size:15
Alignment explanation
Indices: 13933285--13933315 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
13933275 TTATTTGTAT
13933285 TCATTATTTTTAAAA
1 TCATTATTTTTAAAA
13933300 TCATTATTTTTAAAA
1 TCATTATTTTTAAAA
13933315 T
1 T
13933316 GTATTAATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.55
Consensus pattern (15 bp):
TCATTATTTTTAAAA
Found at i:13933565 original size:16 final size:15
Alignment explanation
Indices: 13933549--13933593 Score: 56
Period size: 16 Copynumber: 3.0 Consensus size: 15
13933539 TTATTGATTA
13933549 AACTTTTTATTTTTT
1 AACTTTTTATTTTTT
*
13933564 AACATTTCTATTTTTT
1 AAC-TTTTTATTTTTT
*
13933580 -ACTTTTGATTTTTT
1 AACTTTTTATTTTTT
13933594 TATGATTTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
14 10 0.38
15 5 0.19
16 11 0.42
ACGTcount: A:0.20, C:0.09, G:0.02, T:0.69
Consensus pattern (15 bp):
AACTTTTTATTTTTT
Found at i:13933602 original size:223 final size:222
Alignment explanation
Indices: 13933251--13933920 Score: 631
Period size: 223 Copynumber: 3.0 Consensus size: 222
13933241 TGTCTAACAT
* * *
13933251 TTATTTGGATTATTGACTTTTGA--TTTATTTGTATTCATTATTTTTAAAATCATTATTT-TTAA
1 TTATTTGGATTATTGACTTTTGATTTTTTTTTGT-TTCATTATATTTAAAACCATTATTTGTTAA
* * * * ** * *
13933313 AATGTATTAATTGACCTTTTGGTATTATAACATTAATATTTTTGACTTTTGAGTTTCTTGTGATT
65 AATTTATTAATTAAACTTTTGGTTTTATAACATTTCTATTTTTGACTTTTGATTTTCTTATGATT
* * *
13933378 TATGACTTTCT-ATCTCTTTTAAGGGTAAGAGTTATATGAGTATATTTCATGTCTCTATTATACT
130 TATG-CTTTTTAATCTCTTTTAAGGGTAAGAATTATATGAGTATATTTCATGTCTCTATTATACA
* *
13933442 TTTTTTTCTCCCAATTAC-TGTTTGTCATA
194 CTTTTTTCTCCCAATT-CTTATTTGTCATA
*
13933471 TTATTTGGATTATTGACTTTTGATTTTTTTTTGTGTTCATTCTATTTAAAACCATTATTTGTTAA
1 TTATTTGGATTATTGACTTTTGATTTTTTTTTGT-TTCATTATATTTAAAACCATTATTTGTTAA
* ** * * *
13933536 AATTTATTGATTAAACTTTTTATTTTTTAACATTTCTATTTTTTACTTTTGATTTTTTTATGATT
65 AATTTATTAATTAAACTTTTGGTTTTATAACATTTCTATTTTTGACTTTTGATTTTCTTATGATT
* * ** * * * * * * * *
13933601 TATGGTTTTTTAATCTTTTTTAAAAGTGAGAATTATATGAGTTTCTTTCATTTTTTTTTTTTACA
130 TAT-GCTTTTTAATCTCTTTTAAGGGTAAGAATTATATGAGTATATTTCATGTCTCTATTATACA
*
13933666 CTTTTTTCTCTCAATTCTTATTTGTCATA
194 CTTTTTTCTCCCAATTCTTATTTGTCATA
* * * * * * *
13933695 TTATTTGGATTATTGACATTTGATTTTCTTTTATTT-ATTTTCTTTTAAACCATTTTTCTGTTAA
1 TTATTTGGATTATTGACTTTTGATTTTTTTTTGTTTCATTATATTTAAAACCATTATT-TGTTAA
* * * * *
13933759 GATTCATTAATCAAA-TCTTTGGTTTTGTAACATTTCTATTTTTGACTTTTGATTTTCTTATGAA
65 AATTTATTAATTAAACT-TTTGGTTTTATAACATTTCTATTTTTGACTTTTGATTTTCTTATGAT
* * * ** * * * * *
13933823 TTATGGTTTTTCATCTCTTTTAGGGGTGTGAGGTTGTATGGGTGTCTTTCATG-CTTCTA-T-TA
129 TTATGCTTTTTAATCTCTTTTAAGGGTAAGA-ATTATATGAGTATATTTCATGTC-TCTATTATA
* * * *
13933885 CACTTTCTTCTCTCAATTCTTGTTTATCATA
192 CACTTTTTTCTCCCAATTCTTATTTGTCATA
13933916 TTATT
1 TTATT
13933921 AATTATGAGG
Statistics
Matches: 368, Mismatches: 72, Indels: 19
0.80 0.16 0.04
Matches are distributed among these distances:
220 23 0.06
221 35 0.10
222 69 0.19
223 145 0.39
224 96 0.26
ACGTcount: A:0.23, C:0.10, G:0.11, T:0.56
Consensus pattern (222 bp):
TTATTTGGATTATTGACTTTTGATTTTTTTTTGTTTCATTATATTTAAAACCATTATTTGTTAAA
ATTTATTAATTAAACTTTTGGTTTTATAACATTTCTATTTTTGACTTTTGATTTTCTTATGATTT
ATGCTTTTTAATCTCTTTTAAGGGTAAGAATTATATGAGTATATTTCATGTCTCTATTATACACT
TTTTTCTCCCAATTCTTATTTGTCATA
Found at i:13933704 original size:224 final size:222
Alignment explanation
Indices: 13933251--13933844 Score: 642
Period size: 223 Copynumber: 2.7 Consensus size: 222
13933241 TGTCTAACAT
* * *
13933251 TTATTTGGATTATTGACTTTTGA--TTTATTTGTATTCATTATTTTTAAAATCATTATTT-TTAA
1 TTATTTGGATTATTGACTTTTGATTTTTTTTTGT-TTCATTATATTTAAAACCATTATTTGTTAA
* * * * ** * *
13933313 AATGTATTAATTGACCTTTTGGTATTATAACATTAATATTTTTGACTTTTGAGTTTCTTGTGATT
65 AATTTATTAATTAAACTTTTGGTTTTATAACATTTCTATTTTTGACTTTTGATTTTCTTATGATT
** * ** * **
13933378 TATGACTTTCTATCTCTTTTAAGGGTAAGAGTTATATGAGTATATTTCATGTCTCTATTATACTT
130 TATGGTTTTTTATCTCTTTTAAAAGTAAGAATTATATGAGTATATTTCATGTCTCTATTATACAC
*
13933443 TTTTTTCTCCCAATTACTGTTTGTCATA
195 TTTTTTCTCCCAATTACTATTTGTCATA
*
13933471 TTATTTGGATTATTGACTTTTGATTTTTTTTTGTGTTCATTCTATTTAAAACCATTATTTGTTAA
1 TTATTTGGATTATTGACTTTTGATTTTTTTTTGT-TTCATTATATTTAAAACCATTATTTGTTAA
* ** * * *
13933536 AATTTATTGATTAAACTTTTTATTTTTTAACATTTCTATTTTTTACTTTTGATTTTTTTATGATT
65 AATTTATTAATTAAACTTTTGGTTTTATAACATTTCTATTTTTGACTTTTGATTTTCTTATGATT
* * * * * * * * *
13933601 TATGGTTTTTTAATCTTTTTTAAAAGTGAGAATTATATGAGTTTCTTTCATTTTTTTTTTTTACA
130 TATGGTTTTTT-ATCTCTTTTAAAAGTAAGAATTATATGAGTATATTTCATGTCTCTATTATACA
*
13933666 CTTTTTTCTCTCAATT-CTTATTTGTCATA
194 CTTTTTTCTCCCAATTAC-TATTTGTCATA
* * * * * * *
13933695 TTATTTGGATTATTGACATTTGATTTTCTTTTATTT-ATTTTCTTTTAAACCATTTTTCTGTTAA
1 TTATTTGGATTATTGACTTTTGATTTTTTTTTGTTTCATTATATTTAAAACCATTATT-TGTTAA
* * * * *
13933759 GATTCATTAATCAAA-TCTTTGGTTTTGTAACATTTCTATTTTTGACTTTTGATTTTCTTATGAA
65 AATTTATTAATTAAACT-TTTGGTTTTATAACATTTCTATTTTTGACTTTTGATTTTCTTATGAT
*
13933823 TTATGGTTTTTCATCTCTTTTA
129 TTATGGTTTTTTATCTCTTTTA
13933845 GGGGTGTGAG
Statistics
Matches: 310, Mismatches: 57, Indels: 12
0.82 0.15 0.03
Matches are distributed among these distances:
220 23 0.07
222 57 0.18
223 135 0.44
224 95 0.31
ACGTcount: A:0.24, C:0.10, G:0.10, T:0.57
Consensus pattern (222 bp):
TTATTTGGATTATTGACTTTTGATTTTTTTTTGTTTCATTATATTTAAAACCATTATTTGTTAAA
ATTTATTAATTAAACTTTTGGTTTTATAACATTTCTATTTTTGACTTTTGATTTTCTTATGATTT
ATGGTTTTTTATCTCTTTTAAAAGTAAGAATTATATGAGTATATTTCATGTCTCTATTATACACT
TTTTTCTCCCAATTACTATTTGTCATA
Found at i:13933734 original size:14 final size:15
Alignment explanation
Indices: 13933712--13933741 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
13933702 GATTATTGAC
13933712 ATTTGATTTTCTTTT
1 ATTTGATTTTCTTTT
13933727 ATTT-ATTTTCTTTT
1 ATTTGATTTTCTTTT
13933741 A
1 A
13933742 AACCATTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.17, C:0.07, G:0.03, T:0.73
Consensus pattern (15 bp):
ATTTGATTTTCTTTT
Found at i:13934104 original size:16 final size:18
Alignment explanation
Indices: 13934085--13934119 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
13934075 AGCCAATTGG
13934085 TGTATTTTT-T-ATTTTT
1 TGTATTTTTATAATTTTT
13934101 TGTATTTTTATAATTTTT
1 TGTATTTTTATAATTTTT
13934119 T
1 T
13934120 TCTTTTTTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 9 0.53
17 1 0.06
18 7 0.41
ACGTcount: A:0.17, C:0.00, G:0.06, T:0.77
Consensus pattern (18 bp):
TGTATTTTTATAATTTTT
Found at i:13934126 original size:18 final size:17
Alignment explanation
Indices: 13934095--13934144 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 17
13934085 TGTATTTTTT
*
13934095 ATTTTTTGTATTTTTATA
1 ATTTTTT-TTTTTTTATA
* *
13934113 ATTTTTTTCTTTTTTGTG
1 ATTTTTTT-TTTTTTATA
13934131 ATTTTTTTTTTTTT
1 ATTTTTTTTTTTTT
13934145 GCTGTTTAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
17 7 0.25
18 21 0.75
ACGTcount: A:0.12, C:0.02, G:0.06, T:0.80
Consensus pattern (17 bp):
ATTTTTTTTTTTTTATA
Found at i:13937571 original size:21 final size:21
Alignment explanation
Indices: 13937547--13937587 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
13937537 CTTACTCATA
13937547 AGATTGATATATTC-ATTAAAG
1 AGATTG-TATATTCTATTAAAG
*
13937568 AGATTGTTTATTCTATTAAA
1 AGATTGTATATTCTATTAAA
13937588 AATAAATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.39, C:0.05, G:0.12, T:0.44
Consensus pattern (21 bp):
AGATTGTATATTCTATTAAAG
Found at i:13940059 original size:67 final size:65
Alignment explanation
Indices: 13939910--13940061 Score: 171
Period size: 65 Copynumber: 2.3 Consensus size: 65
13939900 ACTAATGATT
* * * * * *
13939910 ACAATTAACAGATAAATATTATTTTTAAAATGAAAAAACCAAAAAGATAAAAAAGCCAAAGATAT
1 ACAATTAATAGATAAATATTATTTTTAAAATCAAAAAAACAAAAAGATAAAAAAGCCAAAAAGAC
* * *
13939975 ACAATTAATTA-ATAAATATTATTTTTAAAATCAAAGAAAACGAAAAGGTAACGAAAGCCAAAAA
1 ACAATTAA-TAGATAAATATTATTTTTAAAATCAAA-AAAACAAAAAGATAA-AAAAGCCAAAAA
13940039 GAC
63 GAC
* *
13940042 ACATTTAATAGAAAAATATT
1 ACAATTAATAGATAAATATT
13940062 TGAAGAAAAC
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
65 31 0.43
66 15 0.21
67 26 0.36
ACGTcount: A:0.58, C:0.09, G:0.09, T:0.24
Consensus pattern (65 bp):
ACAATTAATAGATAAATATTATTTTTAAAATCAAAAAAACAAAAAGATAAAAAAGCCAAAAAGAC
Found at i:13943669 original size:10 final size:11
Alignment explanation
Indices: 13943656--13943684 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
13943646 AGGAAGCGGT
13943656 TGGAAAAAT-G
1 TGGAAAAATAG
13943666 TGGAAAAATAG
1 TGGAAAAATAG
13943677 TGGAAAAA
1 TGGAAAAA
13943685 AATTTGAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 9 0.50
11 9 0.50
ACGTcount: A:0.55, C:0.00, G:0.28, T:0.17
Consensus pattern (11 bp):
TGGAAAAATAG
Found at i:13944726 original size:19 final size:19
Alignment explanation
Indices: 13944704--13944754 Score: 75
Period size: 19 Copynumber: 2.7 Consensus size: 19
13944694 ACTACCCATG
*
13944704 AAACCTTAAACCATCTTCC
1 AAACCTTAAACCATCGTCC
*
13944723 AAACTTTAAACCATCGTCC
1 AAACCTTAAACCATCGTCC
*
13944742 AAACCCTAAACCA
1 AAACCTTAAACCA
13944755 CCCATTAACC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.41, C:0.35, G:0.02, T:0.22
Consensus pattern (19 bp):
AAACCTTAAACCATCGTCC
Found at i:13944846 original size:18 final size:18
Alignment explanation
Indices: 13944820--13944861 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
13944810 CATTAAACCT
* *
13944820 TAAAACCAAACCCTAAAC
1 TAAACCCAAACCCAAAAC
13944838 TAAACCCAAACCCAAAAC
1 TAAACCCAAACCCAAAAC
*
13944856 CAAACC
1 TAAACC
13944862 TTAAACCCCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.55, C:0.38, G:0.00, T:0.07
Consensus pattern (18 bp):
TAAACCCAAACCCAAAAC
Found at i:13945389 original size:28 final size:27
Alignment explanation
Indices: 13945358--13945425 Score: 68
Period size: 28 Copynumber: 2.5 Consensus size: 27
13945348 CTTTTCAGGA
* *
13945358 AAAATAAAATAAAATA-TGTTTTTCCTTT
1 AAAATAAAATAAAAGATTGGTTTT--TTT
*
13945386 AAAAGAAAA-AAAAGATTGGTTTTTTT
1 AAAATAAAATAAAAGATTGGTTTTTTT
*
13945412 AGAATAAAATAAAA
1 AAAATAAAATAAAA
13945426 AGAAAAAGGA
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
26 10 0.30
27 9 0.27
28 14 0.42
ACGTcount: A:0.54, C:0.03, G:0.09, T:0.34
Consensus pattern (27 bp):
AAAATAAAATAAAAGATTGGTTTTTTT
Found at i:13949968 original size:13 final size:12
Alignment explanation
Indices: 13949943--13949976 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
13949933 GTTTTCTTCC
13949943 TTTTA-TTTCTT
1 TTTTATTTTCTT
13949954 TTTTATTTTCTT
1 TTTTATTTTCTT
13949966 TTTTAATTTTC
1 TTTT-ATTTTC
13949977 AAAGAATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 5 0.24
12 10 0.48
13 6 0.29
ACGTcount: A:0.12, C:0.09, G:0.00, T:0.79
Consensus pattern (12 bp):
TTTTATTTTCTT
Found at i:13957451 original size:27 final size:27
Alignment explanation
Indices: 13957399--13957457 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
13957389 CATAACCATC
* * *
13957399 ATCATTATCATCATCTACATCGTCATT
1 ATCATTATCATCATCCACAACATCATT
13957426 ATCATTATCAT-ATCCATCAACATCATT
1 ATCATTATCATCATCCA-CAACATCATT
13957453 ATCAT
1 ATCAT
13957458 GGAAATTAGA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 4 0.14
27 24 0.86
ACGTcount: A:0.34, C:0.25, G:0.02, T:0.39
Consensus pattern (27 bp):
ATCATTATCATCATCCACAACATCATT
Found at i:13957956 original size:114 final size:114
Alignment explanation
Indices: 13957811--13958038 Score: 341
Period size: 114 Copynumber: 2.0 Consensus size: 114
13957801 CTCATCTTCT
* * *
13957811 TCATTTTGCTCACCATTTCCTAAACCTACTTCCTTATTTTGCTCACCATCTATATTACCATTTTT
1 TCATTTTGCTCACCATTTCCTAAACCCACTTCCCTATTTTGCTCACCATCTACATTACCA-TTTT
* *
13957876 CAC-ATTTTACTGACTATCTACATGACCATCTACATTACCATTATGCTCA
65 CACTATTTTACTGACCATCTACATAACCATCTACATTACCATTATGCTCA
* *
13957925 TCATTTTGCTTACCATTTCCTAAACCCACTTCCCTATTTTGTTCACCATCTACATTACCATTTTC
1 TCATTTTGCTCACCATTTCCTAAACCCACTTCCCTATTTTGCTCACCATCTACATTACCATTTTC
* * * *
13957990 CCTATTTTGCTGACCATCTACATAACCATTTACATTACCCTTATGCTCA
66 ACTATTTTACTGACCATCTACATAACCATCTACATTACCATTATGCTCA
13958039 CTATTATTAC
Statistics
Matches: 102, Mismatches: 11, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
113 6 0.06
114 96 0.94
ACGTcount: A:0.25, C:0.30, G:0.04, T:0.41
Consensus pattern (114 bp):
TCATTTTGCTCACCATTTCCTAAACCCACTTCCCTATTTTGCTCACCATCTACATTACCATTTTC
ACTATTTTACTGACCATCTACATAACCATCTACATTACCATTATGCTCA
Found at i:13957991 original size:33 final size:33
Alignment explanation
Indices: 13957954--13958020 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 33
13957944 CTAAACCCAC
* *
13957954 TTCCCTATTTTGTTCACCATCTACATTACCATT
1 TTCCCTATTTTGCTCACCATCTACATAACCATT
*
13957987 TTCCCTATTTTGCTGACCATCTACATAACCATT
1 TTCCCTATTTTGCTCACCATCTACATAACCATT
13958020 T
1 T
13958021 ACATTACCCT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.22, C:0.30, G:0.04, T:0.43
Consensus pattern (33 bp):
TTCCCTATTTTGCTCACCATCTACATAACCATT
Found at i:13960561 original size:15 final size:15
Alignment explanation
Indices: 13960541--13960569 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
13960531 CATATGGTAT
13960541 ATGAATAATATATGA
1 ATGAATAATATATGA
13960556 ATGAATAATATATG
1 ATGAATAATATATG
13960570 GATTATTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.14, T:0.34
Consensus pattern (15 bp):
ATGAATAATATATGA
Found at i:13960606 original size:26 final size:26
Alignment explanation
Indices: 13960570--13960626 Score: 87
Period size: 26 Copynumber: 2.2 Consensus size: 26
13960560 ATAATATATG
* *
13960570 GATTATTATTTTTTAGACATGACTTT
1 GATTTTTATTTTTTAGACACGACTTT
*
13960596 GATTTTTATTTTTTAGACACGATTTT
1 GATTTTTATTTTTTAGACACGACTTT
13960622 GATTT
1 GATTT
13960627 CTTAGTAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.25, C:0.07, G:0.12, T:0.56
Consensus pattern (26 bp):
GATTTTTATTTTTTAGACACGACTTT
Found at i:13961885 original size:21 final size:18
Alignment explanation
Indices: 13961843--13961886 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 18
13961833 AACCATTTCA
*
13961843 TAAAAAAATTTAAAATTT
1 TAAAAAAATTTAAAATTC
13961861 TAAAAAAATTTATTAAATATC
1 TAAAAAAATTTA--AAAT-TC
13961882 TAAAA
1 TAAAA
13961887 TTAAAAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 12 0.55
20 4 0.18
21 6 0.27
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (18 bp):
TAAAAAAATTTAAAATTC
Found at i:13968670 original size:357 final size:355
Alignment explanation
Indices: 13967929--13969158 Score: 1573
Period size: 356 Copynumber: 3.5 Consensus size: 355
13967919 AAGGTATTTT
** * *
13967929 ATAATAAAAGACGCCTTTAATAAT-CAAAATTTTTTTTTTTGGAAAATTATTGAAGGCGTTGTTA
1 ATAATAAAAGACGCCTTTAATAATCCAAAAAATTTTTTTTAGGAAAATTATTGAAGGCATTGTTA
* * * * * *
13967993 TCTGCAATCACCTTCAGTAATTA--T--ATACTATAATAGGCATTATTAAAGGCGTCTTTCTTGG
66 TCTGCAAACGCCTTCAGTAATTATCTACAAACTATGATAGGAATTATTAAAGGCATCTTTCTTGG
* * * * * *
13968054 ATATACGCATTCAATAATAGTGTTAGAATTTATGTGGC-AGTATATAGAAGGTATTGTAAAATAG
131 ATATACACCTTCAATAATAGTGTTAAAATTTATGTGGCGA-TATATAAAAGGTATTTTACAATAG
* * * *
13968118 AAGATGCCCTTAATAATTCTCAAAATATGTAGTGGAAAAATTTTGAAGGTGTCTGTTATTAACAA
195 AAGATGCCTTTAATAATTCTCAAAATATTTAGTGAAAAAATTTTGAAGGCGTCTGTTATTAACAA
* * * *
13968183 ACATCTTTAGTAATGGATTACTAAGTTTAAAGATATATTGAAGGCACCTTTTTTAATAAATGCCT
260 ACACCTTCAGTAATGGATTACTAAGTTTAAAGGTATATTGAAGGCGCCTTTTTTAATAAATGCCT
* *
13968248 TCCATTATCATCGTGGTATATTGAAGGCGTTTC
325 T-CATTACCATCGT-GTATATTGAAGGCGTGTC
* ** * * * *
13968281 ATAATAAAATACGTTTTTAATAATTC-AAAAATTTTTTTTTGAAAAAATTATTGAAGGCGTTGTT
1 ATAATAAAAGACGCCTTTAATAATCCAAAAAATTTTTTTTAG-GAAAATTATTGAAGGCATTGTT
* * * * * * *
13968345 ATTTGTAACCGCCTTCAGTAATTAGCTACAAATTGTGATA-GAAGTTATTAAAGGTATCTTTCTT
65 ATCTGCAAACGCCTTCAGTAATTATCTACAAACTATGATAGGAA-TTATTAAAGGCATCTTTCTT
*
13968409 GGATATACACCTTCAATAATAGTGTTAAAATTTATGTGGCGATATATAAAAGGTATTTTACAGTA
129 GGATATACACCTTCAATAATAGTGTTAAAATTTATGTGGCGATATATAAAAGGTATTTTACAATA
* *
13968474 GAAGATGCTTTTAATAATTCTCAAAATATTTAGTGAAAAAATTTTGAAGGCATCTGTTATTAACA
194 GAAGATGCCTTTAATAATTCTCAAAATATTTAGTGAAAAAATTTTGAAGGCGTCTGTTATTAACA
** * * *
13968539 AATGCCTTCAGTAATGGATTACTAAGTTTAGAGGTATATTGAAGGTGCCTTTTTTAATAAACGCC
259 AACACCTTCAGTAATGGATTACTAAGTTTAAAGGTATATTGAAGGCGCCTTTTTTAATAAATGCC
*
13968604 TTCATTACCATCGTGATATATTGAAGGGGTGTC
324 TTCATTACCATCGTG-TATATTGAAGGCGTGTC
*
13968637 ATAATAAAAGACGCCTTTAATAATCCAAAAAATTTTTTTTAGGAAAATTATTGAAGGTATTGTTA
1 ATAATAAAAGACGCCTTTAATAATCCAAAAAATTTTTTTTAGGAAAATTATTGAAGGCATTGTTA
* * ***
13968702 TTTGCAAGCGCCTTCAGTAATTATCTACAAACTATGATAGGAATTATTAAAGATGTCTTTCTTGG
66 TCTGCAAACGCCTTCAGTAATTATCTACAAACTATGATAGGAATTATTAAAGGCATCTTTCTTGG
* * * *
13968767 ATATACACCTTCAATAATAGTGTTAAAATTTTTGTGGCGGTATATAAAAAGTATTTTACAATAAA
131 ATATACACCTTCAATAATAGTGTTAAAATTTATGTGGCGATATATAAAAGGTATTTTACAATAGA
* * * * ** *
13968832 AGACGCCTTTAATAATTCTTAAAATTTTTAGTGAAAAATTTTTGAAAACGTTTGTTATTAACAAA
196 AGATGCCTTTAATAATTCTCAAAATATTTAGTGAAAAAATTTTGAAGGCGTCTGTTATTAACAAA
* * *
13968897 CACATTCAGTAATGGATTACTAAGTTTAAAGGTATATTGAAGGCGTCTTTTTGAATAAATGCCTT
261 CACCTTCAGTAATGGATTACTAAGTTTAAAGGTATATTGAAGGCGCCTTTTTTAATAAATGCC-T
*
13968962 TCATAACCATCGTTGTATATTGAAGGCGTGTC
325 TCATTACCATCG-TGTATATTGAAGGCGTGTC
* * *
13968994 ATAATAAAAGACGCCTTTACTAATCTGAGAAAA-TTTTTTTAGGAAAATTATTGAAGGCATTGTT
1 ATAATAAAAGACGCCTTTAATAATC-CAAAAAATTTTTTTTAGGAAAATTATTGAAGGCATTGTT
* * *
13969058 -TCTGCAAACTCCTTCACTAATTATATACAAACTATGATA-GAATTTATTAAAGGCATCTTTCTT
65 ATCTGCAAACGCCTTCAGTAATTATCTACAAACTATGATAGGAA-TTATTAAAGGCATCTTTCTT
* ** *
13969121 GGATATACGCCTTCAATAACCGTGTTAAAATTTGTGTG
129 GGATATACACCTTCAATAATAGTGTTAAAATTTATGTG
13969159 ATGATATGTT
Statistics
Matches: 766, Mismatches: 97, Indels: 26
0.86 0.11 0.03
Matches are distributed among these distances:
352 34 0.04
353 42 0.05
355 5 0.01
356 380 0.50
357 297 0.39
358 8 0.01
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.37
Consensus pattern (355 bp):
ATAATAAAAGACGCCTTTAATAATCCAAAAAATTTTTTTTAGGAAAATTATTGAAGGCATTGTTA
TCTGCAAACGCCTTCAGTAATTATCTACAAACTATGATAGGAATTATTAAAGGCATCTTTCTTGG
ATATACACCTTCAATAATAGTGTTAAAATTTATGTGGCGATATATAAAAGGTATTTTACAATAGA
AGATGCCTTTAATAATTCTCAAAATATTTAGTGAAAAAATTTTGAAGGCGTCTGTTATTAACAAA
CACCTTCAGTAATGGATTACTAAGTTTAAAGGTATATTGAAGGCGCCTTTTTTAATAAATGCCTT
CATTACCATCGTGTATATTGAAGGCGTGTC
Found at i:13973454 original size:22 final size:21
Alignment explanation
Indices: 13973413--13973454 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
13973403 TCTTTCTTAT
*
13973413 TTTCATTTTTTTTGCAATTTA
1 TTTCATTTTTTTGGCAATTTA
*
13973434 TTTCATTTTTTATGGCTATTT
1 TTTCATTTTTT-TGGCAATTT
13973455 GGATTAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.17, C:0.10, G:0.07, T:0.67
Consensus pattern (21 bp):
TTTCATTTTTTTGGCAATTTA
Found at i:13977687 original size:22 final size:21
Alignment explanation
Indices: 13977645--13977692 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
13977635 AAAATCAATC
*
13977645 AAAATAAACAAAATAAATAAA
1 AAAATAAACAAAACAAATAAA
* *
13977666 TAAATAAACATTAACAAATAAA
1 AAAATAAACA-AAACAAATAAA
13977688 AAAAT
1 AAAAT
13977693 TACCAAAAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
21 9 0.41
22 13 0.59
ACGTcount: A:0.75, C:0.06, G:0.00, T:0.19
Consensus pattern (21 bp):
AAAATAAACAAAACAAATAAA
Found at i:13977699 original size:16 final size:17
Alignment explanation
Indices: 13977663--13977705 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
13977653 CAAAATAAAT
13977663 AAATAAATAAACATTAAC
1 AAATAAA-AAACATTAAC
*
13977681 AAATAAAAAA-ATTACC
1 AAATAAAAAACATTAAC
13977697 AAA-AAAAAA
1 AAATAAAAAA
13977706 TTGACTTGGC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
15 6 0.25
16 8 0.33
17 3 0.12
18 7 0.29
ACGTcount: A:0.74, C:0.09, G:0.00, T:0.16
Consensus pattern (17 bp):
AAATAAAAAACATTAAC
Found at i:13977705 original size:15 final size:16
Alignment explanation
Indices: 13977646--13977705 Score: 59
Period size: 17 Copynumber: 3.6 Consensus size: 16
13977636 AAATCAATCA
* *
13977646 AAATAAACAAAATAAAT
1 AAATAAA-AAAATTAAC
13977663 AAATAAATAAACATTAAC
1 AAATAAA-AAA-ATTAAC
*
13977681 AAATAAAAAAATTACC
1 AAATAAAAAAATTAAC
13977697 AAA-AAAAAA
1 AAATAAAAAA
13977706 TTGACTTGGC
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
15 6 0.16
16 8 0.21
17 13 0.34
18 11 0.29
ACGTcount: A:0.75, C:0.08, G:0.00, T:0.17
Consensus pattern (16 bp):
AAATAAAAAAATTAAC
Found at i:13978620 original size:15 final size:15
Alignment explanation
Indices: 13978592--13978636 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
13978582 AGTAAAACAG
*
13978592 ATAAATAAACATAAA
1 ATAAATAAAAATAAA
*
13978607 ATAAAAAAAAATAAA
1 ATAAATAAAAATAAA
*
13978622 ACATAATAAAAATAA
1 ATA-AATAAAAATAA
13978637 CAAATAATAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
15 15 0.60
16 10 0.40
ACGTcount: A:0.78, C:0.04, G:0.00, T:0.18
Consensus pattern (15 bp):
ATAAATAAAAATAAA
Found at i:13978634 original size:16 final size:15
Alignment explanation
Indices: 13978595--13978652 Score: 55
Period size: 16 Copynumber: 3.7 Consensus size: 15
13978585 AAAACAGATA
*
13978595 AATAAACAT-AAAAT
1 AATAAAAATAAAAAT
*
13978609 AAAAAAAAATAAAACAT
1 -AATAAAAATAAAA-AT
13978626 AATAAAAATAACAAAT
1 AATAAAAATAA-AAAT
*
13978642 AATAATAATAA
1 AATAAAAATAA
13978653 GTAGAATAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
15 7 0.19
16 25 0.69
17 4 0.11
ACGTcount: A:0.76, C:0.05, G:0.00, T:0.19
Consensus pattern (15 bp):
AATAAAAATAAAAAT
Done.