Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167860.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_13, 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: 22724830
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 82000 characters in sequence are not A, C, G, or T
File 12 of 109
Found at i:2118162 original size:18 final size:17
Alignment explanation
Indices: 2118139--2118184 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
2118129 AACTACACTA
*
2118139 TTAAATTTAAACTGAATT
1 TTAAATTTAAA-TGAAAT
*
2118157 TTAAATTTTAAATTAAAT
1 TTAAA-TTTAAATGAAAT
2118175 TTAAATTTAA
1 TTAAATTTAA
2118185 TATTATATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 5 0.20
18 14 0.56
19 6 0.24
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (17 bp):
TTAAATTTAAATGAAAT
Found at i:2119628 original size:28 final size:28
Alignment explanation
Indices: 2119595--2119656 Score: 88
Period size: 28 Copynumber: 2.2 Consensus size: 28
2119585 AATAAAAAAA
*
2119595 TTAATATATCTAGTTTTATTATTCACTT
1 TTAATATATCTAGTTTTATCATTCACTT
* *
2119623 TTAATATGTCTAGTTTTATCATTTACTT
1 TTAATATATCTAGTTTTATCATTCACTT
*
2119651 TAAATA
1 TTAATA
2119657 AACAAATATA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.31, C:0.10, G:0.05, T:0.55
Consensus pattern (28 bp):
TTAATATATCTAGTTTTATCATTCACTT
Found at i:2120996 original size:14 final size:14
Alignment explanation
Indices: 2120975--2121183 Score: 184
Period size: 14 Copynumber: 14.9 Consensus size: 14
2120965 TTTATTTTTG
2120975 GTTTTTTAATTTCT
1 GTTTTTTAATTTCT
* *
2120989 GTTGTTTAATTCTTT
1 GTTTTTTAATT-TCT
2121004 GTTTTTTAA-TTC-
1 GTTTTTTAATTTCT
**
2121016 CCTTTTT-ATTTCT
1 GTTTTTTAATTTCT
*
2121029 GTTTTTTAAATTGCT
1 GTTTTTT-AATTTCT
* *
2121044 G-TTTTTGATTACT
1 GTTTTTTAATTTCT
2121057 G-TTTTTAATTTCT
1 GTTTTTTAATTTCT
2121070 -TTTTTTAA-TTCT
1 GTTTTTTAATTTCT
2121082 GTTTTTTTAATTTCT
1 G-TTTTTTAATTTCT
2121097 GTTTTTTAA-TTCT
1 GTTTTTTAATTTCT
2121110 GATTTTTTAATTTCT
1 G-TTTTTTAATTTCT
2121125 GTTTTTTAAGTTTCT
1 GTTTTTTAA-TTTCT
2121140 GTTTTTTTTTTAATTTCT
1 G----TTTTTTAATTTCT
*
2121158 ATTTTTTAA-TTCTT
1 GTTTTTTAATTTC-T
*
2121172 GTTTTTAAATTT
1 GTTTTTTAATTT
2121184 TTTTAAATAT
Statistics
Matches: 161, Mismatches: 16, Indels: 35
0.76 0.08 0.17
Matches are distributed among these distances:
11 1 0.01
12 12 0.07
13 37 0.23
14 64 0.40
15 34 0.21
18 5 0.03
19 8 0.05
ACGTcount: A:0.16, C:0.08, G:0.08, T:0.69
Consensus pattern (14 bp):
GTTTTTTAATTTCT
Found at i:2121037 original size:40 final size:40
Alignment explanation
Indices: 2120977--2121133 Score: 130
Period size: 40 Copynumber: 3.9 Consensus size: 40
2120967 TATTTTTGGT
*
2120977 TTTTTAATTTCTGTTGTTTAATTCTTTGTTTTTTAATTCCC
1 TTTTTAATTTCTGTTTTTTAATTC-TTGTTTTTTAATTCCC
* **
2121018 TTTTT-ATTTCTGTTTTTTAAATTGC-TG-TTTTTGATTACTG
1 TTTTTAATTTCTGTTTTTT-AATT-CTTGTTTTTTAATT-CCC
**
2121058 TTTTTAATTTCT-TTTTTTAATTC-TGTTTTTTTAATTTCTGT
1 TTTTTAATTTCTGTTTTTTAATTCTTG-TTTTTTAA-TTC-CC
2121099 TTTTTAA-TTCTGATTTTTTAATT-TCTGTTTTTTAA
1 TTTTTAATTTCTG-TTTTTTAATTCT-TGTTTTTTAA
2121134 GTTTCTGTTT
Statistics
Matches: 97, Mismatches: 7, Indels: 23
0.76 0.06 0.18
Matches are distributed among these distances:
38 3 0.03
39 12 0.12
40 37 0.38
41 24 0.25
42 19 0.20
43 2 0.02
ACGTcount: A:0.16, C:0.08, G:0.08, T:0.68
Consensus pattern (40 bp):
TTTTTAATTTCTGTTTTTTAATTCTTGTTTTTTAATTCCC
Found at i:2121150 original size:19 final size:18
Alignment explanation
Indices: 2121126--2121164 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
2121116 TTAATTTCTG
*
2121126 TTTTTTAAGTTTCTGTTTT
1 TTTTTTAA-TTTCTATTTT
2121145 TTTTTTAATTTCTATTTT
1 TTTTTTAATTTCTATTTT
2121163 TT
1 TT
2121165 AATTCTTGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.13, C:0.05, G:0.05, T:0.77
Consensus pattern (18 bp):
TTTTTTAATTTCTATTTT
Found at i:2121163 original size:61 final size:55
Alignment explanation
Indices: 2120976--2121187 Score: 202
Period size: 61 Copynumber: 3.8 Consensus size: 55
2120966 TTATTTTTGG
* * ** *
2120976 TTTTTTAATTTCTGTTGTTTAATTCTTTGTTTTTTAA-TTCCCTTTTTATTTCTGT
1 TTTTTTAATTTCTATTTTTTAATTC-TTGTTTTTTAATTTCTTTTTTTAATTCTGT
* * * *
2121031 TTTTTAAATTGCT-GTTTTTGATTAC-TG-TTTTTAATTTCTTTTTTTAATTCTGT
1 TTTTTTAATTTCTATTTTTTAATT-CTTGTTTTTTAATTTCTTTTTTTAATTCTGT
*
2121084 TTTTTTAATTTCTGTTTTTTAATTC-TGATTTTTTAATTTCTGTTTTTTAAGTTTCTGTTTT
1 TTTTTTAATTTCTATTTTTTAATTCTTG-TTTTTTAATTTCT-TTTTTTAA--TTCTG---T
*
2121145 TTTTTTAATTTCTATTTTTTAATTCTTGTTTTTAAATTT-TTTT
1 TTTTTTAATTTCTATTTTTTAATTCTTGTTTTTTAATTTCTTTT
2121188 AAATATTCCT
Statistics
Matches: 131, Mismatches: 14, Indels: 20
0.79 0.08 0.12
Matches are distributed among these distances:
52 7 0.05
53 31 0.24
54 15 0.11
55 24 0.18
56 8 0.06
58 5 0.04
59 3 0.02
60 1 0.01
61 35 0.27
62 2 0.02
ACGTcount: A:0.16, C:0.08, G:0.07, T:0.70
Consensus pattern (55 bp):
TTTTTTAATTTCTATTTTTTAATTCTTGTTTTTTAATTTCTTTTTTTAATTCTGT
Found at i:2121286 original size:25 final size:26
Alignment explanation
Indices: 2121272--2121381 Score: 121
Period size: 25 Copynumber: 4.6 Consensus size: 26
2121262 TGAATTTTTT
2121272 ATATTTTTGCATGA-TATTTATTATG
1 ATATTTTTGCATGATTATTTATTATG
2121297 ATATTTTTGCATGATT-TTTA-TA--
1 ATATTTTTGCATGATTATTTATTATG
* *
2121319 ATATTATTGCATTATT-TTTATTATG
1 ATATTTTTGCATGATTATTTATTATG
*
2121344 ATATTTTTTCATG---ATTTATTATG
1 ATATTTTTGCATGATTATTTATTATG
*
2121367 ATATTATTGCATGAT
1 ATATTTTTGCATGAT
2121382 ATTCTTATGA
Statistics
Matches: 71, Mismatches: 7, Indels: 14
0.77 0.08 0.15
Matches are distributed among these distances:
22 18 0.25
23 22 0.31
24 2 0.03
25 28 0.39
26 1 0.01
ACGTcount: A:0.28, C:0.05, G:0.10, T:0.57
Consensus pattern (26 bp):
ATATTTTTGCATGATTATTTATTATG
Found at i:2121330 original size:47 final size:46
Alignment explanation
Indices: 2121265--2121384 Score: 170
Period size: 47 Copynumber: 2.6 Consensus size: 46
2121255 CTGTGATTGA
*
2121265 ATTTTT-TATATTTTTGCATGATATTTATTATGATATTTTTGCATG
1 ATTTTTATATATTATTGCATGATATTTATTATGATATTTTTGCATG
* * *
2121310 ATTTTTATAATATTATTGCATTATTTTTATTATGATATTTTTTCATG
1 ATTTTTAT-ATATTATTGCATGATATTTATTATGATATTTTTGCATG
2121357 ATTTATTATGATATTATTGCATGATATT
1 ATTT-TTAT-ATATTATTGCATGATATT
2121385 CTTATGACGT
Statistics
Matches: 65, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
45 6 0.09
46 1 0.02
47 38 0.58
48 20 0.31
ACGTcount: A:0.28, C:0.04, G:0.09, T:0.59
Consensus pattern (46 bp):
ATTTTTATATATTATTGCATGATATTTATTATGATATTTTTGCATG
Found at i:2121390 original size:47 final size:46
Alignment explanation
Indices: 2121265--2121407 Score: 159
Period size: 47 Copynumber: 3.1 Consensus size: 46
2121255 CTGTGATTGA
*
2121265 ATTTTT-T-ATATTTTTGCATGATATTTATTATGATATTTTTGCATG
1 ATTTTTATAATATTATTGCATGATA-TTATTATGATATTTTTGCATG
* * *
2121310 ATTTTTATAATATTATTGCATTATTTTTATTATGATATTTTTTCATG
1 ATTTTTATAATATTATTGCATGA-TATTATTATGATATTTTTGCATG
* * **
2121357 ATTTATTATGATATTATTGCATGATATTCTTATGACGTTTTT--ATG
1 ATTT-TTATAATATTATTGCATGATATTATTATGATATTTTTGCATG
2121402 ATTTTT
1 ATTTTT
2121408 TTGCAAGATA
Statistics
Matches: 84, Mismatches: 10, Indels: 9
0.82 0.10 0.09
Matches are distributed among these distances:
44 2 0.02
45 13 0.15
46 1 0.01
47 50 0.60
48 18 0.21
ACGTcount: A:0.26, C:0.05, G:0.10, T:0.59
Consensus pattern (46 bp):
ATTTTTATAATATTATTGCATGATATTATTATGATATTTTTGCATG
Found at i:2121412 original size:35 final size:36
Alignment explanation
Indices: 2121357--2121444 Score: 97
Period size: 36 Copynumber: 2.4 Consensus size: 36
2121347 TTTTTTCATG
* * *
2121357 ATTTATTATGATATTATTGCATGAT-ATTCTTATGAC
1 ATTT-TTATGATTTTTTTGCAAGATAATTCTTATGAC
* * *
2121393 GTTTTTATGATTTTTTTGCAAGATAATTTTTATGAT
1 ATTTTTATGATTTTTTTGCAAGATAATTCTTATGAC
*
2121429 ATTTTTAGGATTTTTT
1 ATTTTTATGATTTTTT
2121445 CTTTGATATT
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
35 17 0.40
36 26 0.60
ACGTcount: A:0.26, C:0.05, G:0.12, T:0.57
Consensus pattern (36 bp):
ATTTTTATGATTTTTTTGCAAGATAATTCTTATGAC
Found at i:2123135 original size:16 final size:17
Alignment explanation
Indices: 2123103--2123135 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
2123093 AATATAAAAT
*
2123103 ATCATGTAAACTAATAA
1 ATCATGCAAACTAATAA
2123120 ATCATGCAAA-TAATAA
1 ATCATGCAAACTAATAA
2123136 TATAATAATC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.55, C:0.12, G:0.06, T:0.27
Consensus pattern (17 bp):
ATCATGCAAACTAATAA
Found at i:2123151 original size:23 final size:24
Alignment explanation
Indices: 2123114--2123181 Score: 95
Period size: 23 Copynumber: 2.9 Consensus size: 24
2123104 TCATGTAAAC
2123114 TAATAAATCATGCAAATAATAATA
1 TAATAAATCATGCAAATAATAATA
*
2123138 TAAT-AATCAGGCAAAT-ATAATA
1 TAATAAATCATGCAAATAATAATA
* *
2123160 TTATAAATCATGCAATTAATAA
1 TAATAAATCATGCAAATAATAA
2123182 ATCACACAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
22 9 0.24
23 21 0.55
24 8 0.21
ACGTcount: A:0.54, C:0.09, G:0.06, T:0.31
Consensus pattern (24 bp):
TAATAAATCATGCAAATAATAATA
Found at i:2123235 original size:26 final size:24
Alignment explanation
Indices: 2123195--2123266 Score: 81
Period size: 26 Copynumber: 2.9 Consensus size: 24
2123185 ACACAAATAA
*
2123195 ATGATGTTTTTATGATTTTTTTTT
1 ATGATATTTTTATGATTTTTTTTT
*
2123219 CATGATACTTTTTATGATATTATTTTT
1 -ATGATA-TTTTTATGAT-TTTTTTTT
* *
2123246 ATTATATTTTTATGAATTTTT
1 ATGATATTTTTATGATTTTTT
2123267 CATTCATATT
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
24 4 0.10
25 14 0.35
26 15 0.38
27 7 0.17
ACGTcount: A:0.24, C:0.03, G:0.08, T:0.65
Consensus pattern (24 bp):
ATGATATTTTTATGATTTTTTTTT
Found at i:2123256 original size:12 final size:12
Alignment explanation
Indices: 2123201--2123266 Score: 55
Period size: 14 Copynumber: 5.3 Consensus size: 12
2123191 ATAAATGATG
*
2123201 TTTTTATGATTTT
1 TTTTTATGA-TAT
*
2123214 TTTTTCATGATAC
1 TTTTT-ATGATAT
2123227 TTTTTATGATATT
1 TTTTTATGATA-T
*
2123240 ATTTTTATTATA-
1 -TTTTTATGATAT
2123252 TTTTTATGA-AT
1 TTTTTATGATAT
2123263 TTTT
1 TTTT
2123267 CATTCATATT
Statistics
Matches: 44, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
10 1 0.02
11 12 0.27
12 6 0.14
13 11 0.25
14 14 0.32
ACGTcount: A:0.23, C:0.03, G:0.06, T:0.68
Consensus pattern (12 bp):
TTTTTATGATAT
Found at i:2129568 original size:14 final size:14
Alignment explanation
Indices: 2129549--2129587 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
2129539 AAATATATTT
*
2129549 AATTTTTATGATTA
1 AATTTTTATAATTA
*
2129563 AATTTTTAAAATTA
1 AATTTTTATAATTA
*
2129577 ATTTTTTATAA
1 AATTTTTATAA
2129588 AATATTATTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (14 bp):
AATTTTTATAATTA
Found at i:2130234 original size:17 final size:16
Alignment explanation
Indices: 2130212--2130249 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
2130202 GTTCCCATAG
*
2130212 TTTTTTT-TTTTTTTA
1 TTTTTTTCTATTTTTA
2130227 CTTTTTTTCTATTTTTA
1 -TTTTTTTCTATTTTTA
2130244 TTTTTT
1 TTTTTT
2130250 CTGTTTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 13 0.65
17 7 0.35
ACGTcount: A:0.08, C:0.05, G:0.00, T:0.87
Consensus pattern (16 bp):
TTTTTTTCTATTTTTA
Found at i:2130292 original size:15 final size:15
Alignment explanation
Indices: 2130283--2130337 Score: 94
Period size: 15 Copynumber: 3.7 Consensus size: 15
2130273 TATTTTTGAT
*
2130283 TTTTTAATT-TCTGC
1 TTTTTAATTCTTTGC
2130297 TTTTTAATTCTTTGC
1 TTTTTAATTCTTTGC
2130312 TTTTTAATTCTTTGC
1 TTTTTAATTCTTTGC
2130327 TTTTTAATTCT
1 TTTTTAATTCT
2130338 GTTTTTTATT
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
14 9 0.23
15 30 0.77
ACGTcount: A:0.15, C:0.13, G:0.05, T:0.67
Consensus pattern (15 bp):
TTTTTAATTCTTTGC
Found at i:2130300 original size:13 final size:14
Alignment explanation
Indices: 2130283--2130363 Score: 87
Period size: 15 Copynumber: 5.9 Consensus size: 14
2130273 TATTTTTGAT
2130283 TTTTTAATTTCTGC
1 TTTTTAATTTCTGC
*
2130297 TTTTTAATTCTTTGC
1 TTTTTAATT-TCTGC
*
2130312 TTTTTAATTCTTTGC
1 TTTTTAATT-TCTGC
2130327 TTTTTAA-TTCTG-
1 TTTTTAATTTCTGC
* *
2130339 TTTTTTATTACTG-
1 TTTTTAATTTCTGC
2130352 TTTTTAATTTCT
1 TTTTTAATTTCT
2130364 TTTTAAATTA
Statistics
Matches: 59, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
12 6 0.10
13 17 0.29
14 10 0.17
15 26 0.44
ACGTcount: A:0.15, C:0.11, G:0.06, T:0.68
Consensus pattern (14 bp):
TTTTTAATTTCTGC
Found at i:2130344 original size:14 final size:14
Alignment explanation
Indices: 2130268--2130356 Score: 53
Period size: 15 Copynumber: 6.3 Consensus size: 14
2130258 TTAGCTTCTA
* * *
2130268 TTTTTTATTTTTGA
1 TTTTTTAATTCTGT
2130282 TTTTTTAATTTCTG-
1 TTTTTTAA-TTCTGT
*
2130296 CTTTTTAATTCT-T
1 TTTTTTAATTCTGT
2130309 TGCTTTTTAATTCT-T
1 T--TTTTTAATTCTGT
2130324 TGCTTTTTAATTCTG-
1 T--TTTTTAATTCTGT
2130339 TTTTTT-ATTACTGT
1 TTTTTTAATT-CTGT
2130353 TTTT
1 TTTT
2130357 AATTTCTTTT
Statistics
Matches: 64, Mismatches: 4, Indels: 14
0.78 0.05 0.17
Matches are distributed among these distances:
12 3 0.05
13 12 0.19
14 18 0.28
15 31 0.48
ACGTcount: A:0.13, C:0.09, G:0.07, T:0.71
Consensus pattern (14 bp):
TTTTTTAATTCTGT
Found at i:2130367 original size:25 final size:24
Alignment explanation
Indices: 2130327--2130380 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 24
2130317 AATTCTTTGC
**
2130327 TTTTTAATTCTGTTTTTTATTACTG
1 TTTTTAATTCTGTTTTAAATTA-TG
2130352 TTTTTAATTTCT-TTTTAAATTATG
1 TTTTTAA-TTCTGTTTTAAATTATG
2130376 TTTTT
1 TTTTT
2130381 TATGTTTCTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
24 7 0.27
25 15 0.58
26 4 0.15
ACGTcount: A:0.19, C:0.06, G:0.06, T:0.70
Consensus pattern (24 bp):
TTTTTAATTCTGTTTTAAATTATG
Found at i:2130409 original size:29 final size:29
Alignment explanation
Indices: 2130352--2130439 Score: 85
Period size: 29 Copynumber: 3.1 Consensus size: 29
2130342 TTTATTACTG
* *
2130352 TTTT-TAATTTCT-TTTTAAATT-ATGTT
1 TTTTATAATTTCTATTTTTAATTCTTGTT
* *
2130378 TTTTAT-GTTTCTATTTTTAAAATTTTTGTT
1 TTTTATAATTTCTATTTTT--AATTCTTGTT
*
2130408 TTTTTTAATTTCTATTTTTAATTCTTGTT
1 TTTTATAATTTCTATTTTTAATTCTTGTT
2130437 TTT
1 TTT
2130440 AATTTTGTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
26 9 0.18
27 5 0.10
29 16 0.32
30 9 0.18
31 11 0.22
ACGTcount: A:0.19, C:0.05, G:0.05, T:0.72
Consensus pattern (29 bp):
TTTTATAATTTCTATTTTTAATTCTTGTT
Found at i:2130420 original size:31 final size:30
Alignment explanation
Indices: 2130352--2130428 Score: 90
Period size: 31 Copynumber: 2.7 Consensus size: 30
2130342 TTTATTACTG
2130352 TTTTTAATTTC--TTTTT-AAATTATGTTT
1 TTTTTAATTTCTATTTTTAAAATTATGTTT
* * *
2130379 TTTAT-GTTTCTATTTTTAAAATTTTTGTTT
1 TTTTTAATTTCTATTTTTAAAA-TTATGTTT
2130409 TTTTTAATTTCTATTTTTAA
1 TTTTTAATTTCTATTTTTAA
2130429 TTCTTGTTTT
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
26 4 0.10
27 4 0.10
28 5 0.12
29 3 0.08
30 11 0.28
31 13 0.32
ACGTcount: A:0.22, C:0.04, G:0.04, T:0.70
Consensus pattern (30 bp):
TTTTTAATTTCTATTTTTAAAATTATGTTT
Found at i:2130574 original size:25 final size:25
Alignment explanation
Indices: 2130536--2130614 Score: 101
Period size: 25 Copynumber: 3.3 Consensus size: 25
2130526 TGAATTTTTT
*
2130536 TATTTTTGCATGATTTTTATTATGA
1 TATTTTTGCTTGATTTTTATTATGA
2130561 TATTTTTGCTTGATTTTTA-TA--A
1 TATTTTTGCTTGATTTTTATTATGA
* * *
2130583 TATTATTGCTTGATATTAATTATGA
1 TATTTTTGCTTGATTTTTATTATGA
2130608 TATTTTT
1 TATTTTT
2130615 TTCATGATTT
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
22 17 0.37
23 2 0.04
24 2 0.04
25 25 0.54
ACGTcount: A:0.25, C:0.04, G:0.10, T:0.61
Consensus pattern (25 bp):
TATTTTTGCTTGATTTTTATTATGA
Found at i:2130648 original size:49 final size:47
Alignment explanation
Indices: 2130554--2130648 Score: 109
Period size: 49 Copynumber: 2.0 Consensus size: 47
2130544 CATGATTTTT
* ***
2130554 ATTATGATATTTTTGCTTGATTTTTATAATATTATTGCTTGATATTA
1 ATTATGATATTTTTGCATGATTTTTATAATATTATTGCACAATATTA
* * *
2130601 ATTATGATATTTTTTTCATGATTTATTGTGATATTATTGCACAATATT
1 ATTATGATA-TTTTTGCATGATTT-TTATAATATTATTGCACAATATT
2130649 CTTATGGTGT
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
47 9 0.23
48 12 0.31
49 18 0.46
ACGTcount: A:0.28, C:0.05, G:0.11, T:0.56
Consensus pattern (47 bp):
ATTATGATATTTTTGCATGATTTTTATAATATTATTGCACAATATTA
Found at i:2131495 original size:9 final size:9
Alignment explanation
Indices: 2131483--2131519 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
2131473 TATTTTTTAT
2131483 AATTAAAAA
1 AATTAAAAA
2131492 AATTAAAAAA
1 AATT-AAAAA
2131502 AATT--AAA
1 AATTAAAAA
2131509 AATTAAAAA
1 AATTAAAAA
2131518 AA
1 AA
2131520 AAAGATAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
7 7 0.28
9 9 0.36
10 9 0.36
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (9 bp):
AATTAAAAA
Found at i:2131529 original size:18 final size:17
Alignment explanation
Indices: 2131488--2131520 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
2131478 TTTATAATTA
2131488 AAAAAATTAAAAAAAAT
1 AAAAAATTAAAAAAAAT
*
2131505 TAAAAATTAAAAAAAA
1 AAAAAATTAAAAAAAA
2131521 AAGATAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (17 bp):
AAAAAATTAAAAAAAAT
Found at i:2134913 original size:4 final size:4
Alignment explanation
Indices: 2134900--2134968 Score: 51
Period size: 4 Copynumber: 17.8 Consensus size: 4
2134890 ATATCCTATG
*
2134900 TATT TA-T TATT TATT TA-T TATT ACTATT TATT AATT T-TT TAATT TATT
1 TATT TATT TATT TATT TATT TATT --TATT TATT TATT TATT T-ATT TATT
2134948 TATT T-TT GTA-T T-TT TATT TAT
1 TATT TATT -TATT TATT TATT TAT
2134969 CTAATTATAT
Statistics
Matches: 53, Mismatches: 2, Indels: 20
0.71 0.03 0.27
Matches are distributed among these distances:
3 14 0.26
4 32 0.60
5 3 0.06
6 4 0.08
ACGTcount: A:0.26, C:0.01, G:0.01, T:0.71
Consensus pattern (4 bp):
TATT
Found at i:2134922 original size:14 final size:14
Alignment explanation
Indices: 2134903--2134991 Score: 55
Period size: 14 Copynumber: 6.6 Consensus size: 14
2134893 TCCTATGTAT
2134903 TTATTATTTATTTA
1 TTATTATTTATTTA
*
2134917 TTATTA-CTATTTA
1 TTATTATTTATTTA
2134930 TTA--ATTT-TTTA
1 TTATTATTTATTTA
* *
2134941 AT-TTATTTATTTT
1 TTATTATTTATTTA
2134954 TGTATT-TTTATTTA
1 T-TATTATTTATTTA
* * *
2134968 TCTAATTATATATCTG
1 T-T-ATTATTTATTTA
2134984 TTATTATT
1 TTATTATT
2134992 ATTATTCTTT
Statistics
Matches: 56, Mismatches: 11, Indels: 16
0.67 0.13 0.19
Matches are distributed among these distances:
11 6 0.11
12 5 0.09
13 12 0.21
14 21 0.38
15 6 0.11
16 6 0.11
ACGTcount: A:0.27, C:0.03, G:0.02, T:0.67
Consensus pattern (14 bp):
TTATTATTTATTTA
Found at i:2134951 original size:24 final size:23
Alignment explanation
Indices: 2134900--2135008 Score: 61
Period size: 24 Copynumber: 4.8 Consensus size: 23
2134890 ATATCCTATG
2134900 TATTTATTATTTATTTATTATTA
1 TATTTATTATTTATTTATTATTA
2134923 CTATTTATTAATTT-TTTA--ATT-
1 -TATTTATT-ATTTATTTATTATTA
*
2134944 TATTTATTTTTGTATTT-TTATT-
1 TATTTATTATT-TATTTATTATTA
* * * *
2134966 TATCTAATTATATATCTGTTATTA
1 TAT-TTATTATTTATTTATTATTA
*
2134990 T-TATTATTCTTTTATTTAT
1 TAT-TTATT-ATTTATTTAT
2135009 CCTATAATAT
Statistics
Matches: 65, Mismatches: 11, Indels: 18
0.69 0.12 0.19
Matches are distributed among these distances:
19 2 0.03
20 9 0.14
21 3 0.05
22 13 0.20
23 15 0.23
24 19 0.29
25 4 0.06
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.68
Consensus pattern (23 bp):
TATTTATTATTTATTTATTATTA
Found at i:2134960 original size:16 final size:15
Alignment explanation
Indices: 2134840--2134960 Score: 64
Period size: 16 Copynumber: 7.3 Consensus size: 15
2134830 ATATTTTTGC
2134840 TATTT-TTTATTTTT
1 TATTTATTTATTTTT
*
2134854 TATTTTATTCTATATTT
1 TA-TTTATT-TATTTTT
* *
2134871 TATGTATATATTTTCCTT
1 TATTTATTTA-TTT--TT
* *
2134889 TATATCCTATGTATTTAT
1 TAT-T--TATTTATTTTT
*
2134907 TATTTATTTATTATTAC
1 TATTTATTTATT-TT-T
*
2134924 TATTTATTAATTTTT
1 TATTTATTTATTTTT
2134939 TAATTTATTTATTTTT
1 T-ATTTATTTATTTTT
2134955 GTATTT
1 -TATTT
2134961 TTATTTATCT
Statistics
Matches: 81, Mismatches: 13, Indels: 24
0.69 0.11 0.20
Matches are distributed among these distances:
14 2 0.02
15 13 0.16
16 28 0.35
17 21 0.26
18 9 0.11
20 3 0.04
21 5 0.06
ACGTcount: A:0.24, C:0.05, G:0.02, T:0.69
Consensus pattern (15 bp):
TATTTATTTATTTTT
Found at i:2135624 original size:20 final size:21
Alignment explanation
Indices: 2135595--2135633 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
2135585 CAGTTTAGAG
*
2135595 AGAAGCGAGAGAGA-AGGGGA
1 AGAAGAGAGAGAGAGAGGGGA
2135615 AGAAGAGAGAGAGAGAGGG
1 AGAAGAGAGAGAGAGAGGG
2135634 AAGGAGCTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.46, C:0.03, G:0.51, T:0.00
Consensus pattern (21 bp):
AGAAGAGAGAGAGAGAGGGGA
Found at i:2135950 original size:11 final size:11
Alignment explanation
Indices: 2135917--2135994 Score: 83
Period size: 11 Copynumber: 7.3 Consensus size: 11
2135907 TTAGATTAGG
*
2135917 TTTATTTAATA
1 TTTATTTTATA
2135928 TTCT-TTTTATA
1 TT-TATTTTATA
*
2135939 TTTATTTAATA
1 TTTATTTTATA
*
2135950 TTTATTTT-TT
1 TTTATTTTATA
2135960 TTTACTTTT-T-
1 TTTA-TTTTATA
2135970 TTTATTTTATA
1 TTTATTTTATA
2135981 TTTATTTTATA
1 TTTATTTTATA
2135992 TTT
1 TTT
2135995 TCTTTTCTTT
Statistics
Matches: 58, Mismatches: 4, Indels: 10
0.81 0.06 0.14
Matches are distributed among these distances:
9 4 0.07
10 11 0.19
11 42 0.72
12 1 0.02
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (11 bp):
TTTATTTTATA
Found at i:2135977 original size:5 final size:5
Alignment explanation
Indices: 2135932--2136027 Score: 68
Period size: 5 Copynumber: 17.8 Consensus size: 5
2135922 TTAATATTCT
* *
2135932 TTTTA TATTTA TTTAA TATTTA TTTTT TTTTA CTTTT- TTTTA TTTTA
1 TTTTA T-TTTA TTTTA T-TTTA TTTTA TTTTA -TTTTA TTTTA TTTTA
* * *
2135979 TATTTA TTTTATA TTTTC TTTTC TTTTCA CTTTTA TTTTG TTTTA TTTT
1 T-TTTA -TTT-TA TTTTA TTTTA TTTT-A -TTTTA TTTTA TTTTA TTTT
2136028 TTTCTCTAAA
Statistics
Matches: 74, Mismatches: 8, Indels: 18
0.74 0.08 0.18
Matches are distributed among these distances:
4 4 0.05
5 40 0.54
6 23 0.31
7 7 0.09
ACGTcount: A:0.18, C:0.05, G:0.01, T:0.76
Consensus pattern (5 bp):
TTTTA
Found at i:2135981 original size:42 final size:45
Alignment explanation
Indices: 2135932--2136024 Score: 131
Period size: 42 Copynumber: 2.1 Consensus size: 45
2135922 TTAATATTCT
2135932 TTTTATATTTATTTAATATTTAT-TTTT-TTTT-ACTTTT-TTTTA
1 TTTTATATTTATTTAATATTT-TCTTTTCTTTTCACTTTTATTTTA
* *
2135974 TTTTATATTTATTTTATATTTTCTTTTCTTTTCACTTTTATTTTG
1 TTTTATATTTATTTAATATTTTCTTTTCTTTTCACTTTTATTTTA
2136019 TTTTAT
1 TTTTAT
2136025 TTTTTTCTCT
Statistics
Matches: 45, Mismatches: 2, Indels: 5
0.87 0.04 0.10
Matches are distributed among these distances:
41 1 0.02
42 24 0.53
43 4 0.09
44 6 0.13
45 10 0.22
ACGTcount: A:0.18, C:0.05, G:0.01, T:0.75
Consensus pattern (45 bp):
TTTTATATTTATTTAATATTTTCTTTTCTTTTCACTTTTATTTTA
Found at i:2136029 original size:17 final size:16
Alignment explanation
Indices: 2135926--2136029 Score: 59
Period size: 17 Copynumber: 6.1 Consensus size: 16
2135916 GTTTATTTAA
2135926 TATTCTTTTTATATTTATT
1 TATT-TTTTT-TATTT-TT
*
2135945 TAATATTTATTT-TTTTT
1 T-AT-TTTTTTTATTTTT
*
2135962 TACTTTTTTTTATTTTA
1 TA-TTTTTTTTATTTTT
* *
2135979 TATTTATTTTATATTT
1 TATTTTTTTTATTTTT
* *
2135995 TCTTTTCTTTTCA-CTTT
1 TATTTT-TTTT-ATTTTT
2136012 TATTTTGTTTTATTTTT
1 TATTTT-TTTTATTTTT
2136029 T
1 T
2136030 TCTCTAAAAA
Statistics
Matches: 66, Mismatches: 12, Indels: 16
0.70 0.13 0.17
Matches are distributed among these distances:
16 23 0.35
17 30 0.45
18 4 0.06
19 2 0.03
20 6 0.09
21 1 0.02
ACGTcount: A:0.17, C:0.06, G:0.01, T:0.76
Consensus pattern (16 bp):
TATTTTTTTTATTTTT
Found at i:2136199 original size:58 final size:57
Alignment explanation
Indices: 2136034--2136386 Score: 392
Period size: 58 Copynumber: 6.0 Consensus size: 57
2136024 TTTTTTTCTC
2136034 TAAAAATAAAATTTCAAAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT
1 TAAAAATAAAATTTC-AAAAAAA-ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT
* * *
2136093 TGAAAATCAAAATTTCCAAAAAATTATTTTT-AGAGAAAAGTTGAAAGTATCAATTTTTCT
1 TAAAAAT-AAAATTT-CAAAAAA-AATTTTTGAG-GAAAAGTTGAAAGTATCAATTTTCCT
*
2136153 TAAAAATAAAATTTCAAAAAAAAGTTTTTGAGGAAAAGTTAAAAGTATCAATTTTCCT
1 TAAAAATAAAATTTCAAAAAAAA-TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT
**
2136211 TGAAAACCAAAATTTCAAAAAAAAAAATTTTTTG-GGAAAAGTTGAAAGTATCAATTTT-CT
1 T-AAAAATAAAATTTC---AAAAAAAA-TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT
** * *
2136271 CCAAAATCAAAGGTTT-AAAAAAACATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCT
1 TAAAAAT-AAA-ATTTCAAAAAAA-ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT
** * *
2136330 CGAAATTAAAATTTCAAAAAAAATATTTTCGA-GAAAAGTTGAAAGTATTAATTTTCC
1 TAAAAATAAAATTTCAAAAAAAAT-TTTT-GAGGAAAAGTTGAAAGTATCAATTTTCC
2136387 CTACACAAAA
Statistics
Matches: 255, Mismatches: 21, Indels: 37
0.81 0.07 0.12
Matches are distributed among these distances:
57 19 0.07
58 100 0.39
59 40 0.16
60 55 0.22
61 27 0.11
62 14 0.05
ACGTcount: A:0.47, C:0.08, G:0.12, T:0.33
Consensus pattern (57 bp):
TAAAAATAAAATTTCAAAAAAAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT
Found at i:2136257 original size:119 final size:118
Alignment explanation
Indices: 2136026--2136384 Score: 494
Period size: 119 Copynumber: 3.0 Consensus size: 118
2136016 TTGTTTTATT
2136026 TTTTTCTCTAAAAATAAAATTTCAAAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTC
1 TTTTTCT-TAAAAATAAAATTTCAAAAAAAAG-TTTTTGAGGAAAAGTTGAAAGTATCAATTTTC
* *
2136091 CTTGAAAATCAAAATTTCCAAAAAATTATTTTTAGAGAAAAGTTGAAAGTATCAA
64 CTTGAAAATCAAAATTTCAAAAAAAATATTTTTAGAGAAAAGTTGAAAGTATCAA
*
2136146 TTTTTCTTAAAAATAAAATTTCAAAAAAAAGTTTTTGAGGAAAAGTTAAAAGTATCAATTTTCCT
1 TTTTTCTTAAAAATAAAATTTCAAAAAAAAGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT
* * * *
2136211 TGAAAACCAAAATTTCAAAAAAAAAAATTTTTTGGGAAAAGTTGAAAGTATCAA
66 TGAAAATCAAAATTTC-AAAAAAAATATTTTTAGAGAAAAGTTGAAAGTATCAA
** * *
2136265 -TTTTCTCCAAAATCAAAGGTTT-AAAAAAACA-TTTTTGGGGAAAAGTTGAAAGTATCAATTTT
1 TTTTTCTTAAAAAT-AAA-ATTTCAAAAAAA-AGTTTTTGAGGAAAAGTTGAAAGTATCAATTTT
* * * *
2136327 CCTCG-AAATTAAAATTTCAAAAAAAATA-TTTTCGAGAAAAGTTGAAAGTATTAA
63 CCTTGAAAATCAAAATTTCAAAAAAAATATTTTTAGAGAAAAGTTGAAAGTATCAA
2136381 TTTT
1 TTTT
2136385 CCCTACACAA
Statistics
Matches: 215, Mismatches: 19, Indels: 13
0.87 0.08 0.05
Matches are distributed among these distances:
116 23 0.11
117 12 0.06
118 70 0.33
119 99 0.46
120 11 0.05
ACGTcount: A:0.46, C:0.08, G:0.11, T:0.34
Consensus pattern (118 bp):
TTTTTCTTAAAAATAAAATTTCAAAAAAAAGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT
TGAAAATCAAAATTTCAAAAAAAATATTTTTAGAGAAAAGTTGAAAGTATCAA
Found at i:2146829 original size:8 final size:8
Alignment explanation
Indices: 2146809--2146872 Score: 66
Period size: 7 Copynumber: 8.5 Consensus size: 8
2146799 ATACTATGCT
2146809 TGAAAAAA
1 TGAAAAAA
2146817 T-AAAAAA
1 TGAAAAAA
2146824 TGAAAAAAA
1 TG-AAAAAA
2146833 TGAAAAAA
1 TGAAAAAA
2146841 TG-AAAAA
1 TGAAAAAA
*
2146848 T-AAAAGA
1 TGAAAAAA
2146855 -GAAAAAA
1 TGAAAAAA
*
2146862 -GAAAAAG
1 TGAAAAAA
2146869 TGAA
1 TGAA
2146873 TGAAAAAGGA
Statistics
Matches: 48, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
7 28 0.58
8 12 0.25
9 8 0.17
ACGTcount: A:0.75, C:0.00, G:0.14, T:0.11
Consensus pattern (8 bp):
TGAAAAAA
Found at i:2146830 original size:9 final size:9
Alignment explanation
Indices: 2146818--2146847 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
2146808 TTGAAAAAAT
2146818 AAAAAATGA
1 AAAAAATGA
2146827 AAAAAATG-
1 AAAAAATGA
2146835 AAAAAATGA
1 AAAAAATGA
2146844 AAAA
1 AAAA
2146848 TAAAAGAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.40
9 12 0.60
ACGTcount: A:0.80, C:0.00, G:0.10, T:0.10
Consensus pattern (9 bp):
AAAAAATGA
Found at i:2146831 original size:17 final size:17
Alignment explanation
Indices: 2146811--2146847 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
2146801 ACTATGCTTG
2146811 AAAAAAT-AAAAAATGA
1 AAAAAATGAAAAAATGA
2146827 AAAAAATGAAAAAATGA
1 AAAAAATGAAAAAATGA
2146844 AAAA
1 AAAA
2146848 TAAAAGAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 7 0.35
17 13 0.65
ACGTcount: A:0.81, C:0.00, G:0.08, T:0.11
Consensus pattern (17 bp):
AAAAAATGAAAAAATGA
Found at i:2146879 original size:20 final size:19
Alignment explanation
Indices: 2146814--2146879 Score: 57
Period size: 20 Copynumber: 3.5 Consensus size: 19
2146804 ATGCTTGAAA
*
2146814 AAAT-AAAAAATG-AAAA-
1 AAATGAAAAAAAGAAAAAT
*
2146830 AAATGAAAAAATGAAAAAT
1 AAATGAAAAAAAGAAAAAT
*
2146849 AAAAGAGAAAAAAGAAAAAGT
1 AAATGA-AAAAAAGAAAAA-T
*
2146870 GAATGAAAAA
1 AAATGAAAAA
2146880 GGAAGACTCA
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
16 4 0.10
17 8 0.20
18 4 0.10
19 5 0.12
20 15 0.37
21 5 0.12
ACGTcount: A:0.76, C:0.00, G:0.14, T:0.11
Consensus pattern (19 bp):
AAATGAAAAAAAGAAAAAT
Found at i:2147927 original size:43 final size:43
Alignment explanation
Indices: 2147854--2148045 Score: 263
Period size: 43 Copynumber: 4.6 Consensus size: 43
2147844 GATTGTCAAT
2147854 GAGCAATTTA-TTTTCC-AAAGTTCCGT--TGCCTCTGTTTAGAG
1 GAGCAATTTACTTTTCCAAAAG-T-CGTGGTGCCTCTGTTTAGAG
*
2147895 GAGCAATTTACTTTTCCAAAAGTCGTGGTGCCTCTGTTTAAAG
1 GAGCAATTTACTTTTCCAAAAGTCGTGGTGCCTCTGTTTAGAG
*
2147938 GAGCAATTTAC-TTTCC--AAGTCATGGTGCCTCTGTTTAGAG
1 GAGCAATTTACTTTTCCAAAAGTCGTGGTGCCTCTGTTTAGAG
* *
2147978 GAGCAATTTACTTTTCTAAAAGTCGTGGTGCCTCTGTTTAGAA
1 GAGCAATTTACTTTTCCAAAAGTCGTGGTGCCTCTGTTTAGAG
*
2148021 GAGCAATTTACTTTCCCTAAAAGTC
1 GAGCAATTTACTTTTCC-AAAAGTC
2148046 AATGTCTAGC
Statistics
Matches: 135, Mismatches: 8, Indels: 13
0.87 0.05 0.08
Matches are distributed among these distances:
40 33 0.24
41 17 0.13
42 12 0.09
43 66 0.49
44 7 0.05
ACGTcount: A:0.25, C:0.19, G:0.20, T:0.36
Consensus pattern (43 bp):
GAGCAATTTACTTTTCCAAAAGTCGTGGTGCCTCTGTTTAGAG
Found at i:2147979 original size:83 final size:84
Alignment explanation
Indices: 2147854--2148036 Score: 291
Period size: 83 Copynumber: 2.2 Consensus size: 84
2147844 GATTGTCAAT
* *
2147854 GAGCAATTTATTTTCCAAAGTTCCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAAGTC
1 GAGCAATTTACTTTCCAAAGTTCCGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAAGTC
2147919 GTGGTGCCTCTGTTTA-AA
66 GTGGTGCCTCTGTTTAGAA
* *
2147937 GGAGCAATTTACTTTCC-AAG-TCATGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCTAAAAG
1 -GAGCAATTTACTTTCCAAAGTTC-CGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAAG
2148000 TCGTGGTGCCTCTGTTTAGAA
64 TCGTGGTGCCTCTGTTTAGAA
2148021 GAGCAATTTACTTTCC
1 GAGCAATTTACTTTCC
2148037 CTAAAAGTCA
Statistics
Matches: 93, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
82 2 0.02
83 74 0.80
84 17 0.18
ACGTcount: A:0.24, C:0.19, G:0.20, T:0.37
Consensus pattern (84 bp):
GAGCAATTTACTTTCCAAAGTTCCGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAAGTC
GTGGTGCCTCTGTTTAGAA
Found at i:2148278 original size:16 final size:17
Alignment explanation
Indices: 2148246--2148278 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
2148236 GATATAAAAT
2148246 ATCATGCAAATTAATAA
1 ATCATGCAAATTAATAA
*
2148263 ATCATGTAAA-TAATAA
1 ATCATGCAAATTAATAA
2148279 TATAATAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.55, C:0.09, G:0.06, T:0.30
Consensus pattern (17 bp):
ATCATGCAAATTAATAA
Found at i:2148374 original size:26 final size:23
Alignment explanation
Indices: 2148344--2148409 Score: 69
Period size: 26 Copynumber: 2.7 Consensus size: 23
2148334 TAAATGATGT
2148344 TTTTATGATTTTTTTTGCATGATAAC
1 TTTTATGATTTTTTTT--ATGAT-AC
* *
2148370 TTTTATGATATTATTTTTATTATAT
1 TTTTATGAT-TT-TTTTTATGATAC
2148395 TTTTATGATTTTTTT
1 TTTTATGATTTTTTT
2148410 GTTCATATTT
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
23 4 0.11
24 2 0.06
25 10 0.28
26 13 0.36
27 2 0.06
28 5 0.14
ACGTcount: A:0.23, C:0.03, G:0.08, T:0.67
Consensus pattern (23 bp):
TTTTATGATTTTTTTTATGATAC
Found at i:2149289 original size:54 final size:56
Alignment explanation
Indices: 2149155--2149289 Score: 148
Period size: 56 Copynumber: 2.4 Consensus size: 56
2149145 TCTCTCTTTT
* * * * *
2149155 TAAATGACAAAAGTACCTCAATTATAAATGTCAAATCATTATAATATCTCTTATGTCT
1 TAAATAACAAAAATACCTC--TTATAAATGACAAATCACTATAATATCTCTTATGTCA
* * * *
2149213 TAAATAACGAAAATACCTCTTATAAATGACAAATTACTATGATA-CTTTTATGTCA
1 TAAATAACAAAAATACCTCTTATAAATGACAAATCACTATAATATCTCTTATGTCA
*
2149268 TAATTAA-AAAAATACCTCTTAT
1 TAAATAACAAAAATACCTCTTAT
2149290 CTCATAATTT
Statistics
Matches: 66, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
54 14 0.21
55 15 0.23
56 21 0.32
58 16 0.24
ACGTcount: A:0.44, C:0.15, G:0.06, T:0.36
Consensus pattern (56 bp):
TAAATAACAAAAATACCTCTTATAAATGACAAATCACTATAATATCTCTTATGTCA
Found at i:2149988 original size:10 final size:9
Alignment explanation
Indices: 2149969--2150009 Score: 50
Period size: 10 Copynumber: 4.6 Consensus size: 9
2149959 AAATTAGTGT
2149969 ATTAAAATA
1 ATTAAAATA
2149978 ATTATAAATA
1 ATTA-AAATA
2149988 ATTCAAAATA
1 ATT-AAAATA
2149998 A-T-AAATA
1 ATTAAAATA
2150005 ATTAA
1 ATTAA
2150010 TAACTTAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
7 6 0.21
8 1 0.04
9 6 0.21
10 14 0.50
11 1 0.04
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.34
Consensus pattern (9 bp):
ATTAAAATA
Found at i:2152969 original size:4 final size:4
Alignment explanation
Indices: 2152956--2153024 Score: 51
Period size: 4 Copynumber: 17.8 Consensus size: 4
2152946 ATATCCTATG
*
2152956 TATT TA-T TATT TATT TA-T TATT ACTATT TATT AATT T-TT TAATT TATT
1 TATT TATT TATT TATT TATT TATT --TATT TATT TATT TATT T-ATT TATT
2153004 TATT T-TT GTA-T T-TT TATT TAT
1 TATT TATT -TATT TATT TATT TAT
2153025 CTAATTATAT
Statistics
Matches: 53, Mismatches: 2, Indels: 20
0.71 0.03 0.27
Matches are distributed among these distances:
3 14 0.26
4 32 0.60
5 3 0.06
6 4 0.08
ACGTcount: A:0.26, C:0.01, G:0.01, T:0.71
Consensus pattern (4 bp):
TATT
Found at i:2152978 original size:14 final size:14
Alignment explanation
Indices: 2152959--2153047 Score: 55
Period size: 14 Copynumber: 6.6 Consensus size: 14
2152949 TCCTATGTAT
2152959 TTATTATTTATTTA
1 TTATTATTTATTTA
*
2152973 TTATTA-CTATTTA
1 TTATTATTTATTTA
2152986 TTA--ATTT-TTTA
1 TTATTATTTATTTA
* *
2152997 AT-TTATTTATTTT
1 TTATTATTTATTTA
2153010 TGTATT-TTTATTTA
1 T-TATTATTTATTTA
* * *
2153024 TCTAATTATATATCTG
1 T-T-ATTATTTATTTA
2153040 TTATTATT
1 TTATTATT
2153048 ATTATTCTTT
Statistics
Matches: 56, Mismatches: 11, Indels: 16
0.67 0.13 0.19
Matches are distributed among these distances:
11 6 0.11
12 5 0.09
13 12 0.21
14 21 0.38
15 6 0.11
16 6 0.11
ACGTcount: A:0.27, C:0.03, G:0.02, T:0.67
Consensus pattern (14 bp):
TTATTATTTATTTA
Found at i:2153007 original size:24 final size:23
Alignment explanation
Indices: 2152956--2153064 Score: 61
Period size: 24 Copynumber: 4.8 Consensus size: 23
2152946 ATATCCTATG
2152956 TATTTATTATTTATTTATTATTA
1 TATTTATTATTTATTTATTATTA
2152979 CTATTTATTAATTT-TTTA--ATT-
1 -TATTTATT-ATTTATTTATTATTA
*
2153000 TATTTATTTTTGTATTT-TTATT-
1 TATTTATTATT-TATTTATTATTA
* * * *
2153022 TATCTAATTATATATCTGTTATTA
1 TAT-TTATTATTTATTTATTATTA
*
2153046 T-TATTATTCTTTTATTTAT
1 TAT-TTATT-ATTTATTTAT
2153065 CCTATAATAT
Statistics
Matches: 65, Mismatches: 11, Indels: 18
0.69 0.12 0.19
Matches are distributed among these distances:
19 2 0.03
20 9 0.14
21 3 0.05
22 13 0.20
23 15 0.23
24 19 0.29
25 4 0.06
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.68
Consensus pattern (23 bp):
TATTTATTATTTATTTATTATTA
Found at i:2153016 original size:16 final size:15
Alignment explanation
Indices: 2152896--2153016 Score: 64
Period size: 16 Copynumber: 7.3 Consensus size: 15
2152886 ATATTTTTGC
2152896 TATTT-TTTATTTTT
1 TATTTATTTATTTTT
*
2152910 TATTTTATTCTATATTT
1 TA-TTTATT-TATTTTT
* *
2152927 TATGTATATATTTTCCTT
1 TATTTATTTA-TTT--TT
* *
2152945 TATATCCTATGTATTTAT
1 TAT-T--TATTTATTTTT
*
2152963 TATTTATTTATTATTAC
1 TATTTATTTATT-TT-T
*
2152980 TATTTATTAATTTTT
1 TATTTATTTATTTTT
2152995 TAATTTATTTATTTTT
1 T-ATTTATTTATTTTT
2153011 GTATTT
1 -TATTT
2153017 TTATTTATCT
Statistics
Matches: 81, Mismatches: 13, Indels: 24
0.69 0.11 0.20
Matches are distributed among these distances:
14 2 0.02
15 13 0.16
16 28 0.35
17 21 0.26
18 9 0.11
20 3 0.04
21 5 0.06
ACGTcount: A:0.24, C:0.05, G:0.02, T:0.69
Consensus pattern (15 bp):
TATTTATTTATTTTT
Found at i:2154007 original size:11 final size:11
Alignment explanation
Indices: 2153974--2154051 Score: 83
Period size: 11 Copynumber: 7.3 Consensus size: 11
2153964 TTAGATTAGG
*
2153974 TTTATTTAATA
1 TTTATTTTATA
2153985 TTCT-TTTTATA
1 TT-TATTTTATA
*
2153996 TTTATTTAATA
1 TTTATTTTATA
*
2154007 TTTATTTT-TT
1 TTTATTTTATA
2154017 TTTACTTTT-T-
1 TTTA-TTTTATA
2154027 TTTATTTTATA
1 TTTATTTTATA
2154038 TTTATTTTATA
1 TTTATTTTATA
2154049 TTT
1 TTT
2154052 TCTTTTCTTT
Statistics
Matches: 58, Mismatches: 4, Indels: 10
0.81 0.06 0.14
Matches are distributed among these distances:
9 4 0.07
10 11 0.19
11 42 0.72
12 1 0.02
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (11 bp):
TTTATTTTATA
Found at i:2154034 original size:5 final size:5
Alignment explanation
Indices: 2153989--2154084 Score: 68
Period size: 5 Copynumber: 17.8 Consensus size: 5
2153979 TTAATATTCT
* *
2153989 TTTTA TATTTA TTTAA TATTTA TTTTT TTTTA CTTTT- TTTTA TTTTA
1 TTTTA T-TTTA TTTTA T-TTTA TTTTA TTTTA -TTTTA TTTTA TTTTA
* * *
2154036 TATTTA TTTTATA TTTTC TTTTC TTTTCA CTTTTA TTTTG TTTTA TTTT
1 T-TTTA -TTT-TA TTTTA TTTTA TTTT-A -TTTTA TTTTA TTTTA TTTT
2154085 TTTCTCTAAA
Statistics
Matches: 74, Mismatches: 8, Indels: 18
0.74 0.08 0.18
Matches are distributed among these distances:
4 4 0.05
5 40 0.54
6 23 0.31
7 7 0.09
ACGTcount: A:0.18, C:0.05, G:0.01, T:0.76
Consensus pattern (5 bp):
TTTTA
Found at i:2154038 original size:42 final size:45
Alignment explanation
Indices: 2153989--2154081 Score: 131
Period size: 42 Copynumber: 2.1 Consensus size: 45
2153979 TTAATATTCT
2153989 TTTTATATTTATTTAATATTTAT-TTTT-TTTT-ACTTTT-TTTTA
1 TTTTATATTTATTTAATATTT-TCTTTTCTTTTCACTTTTATTTTA
* *
2154031 TTTTATATTTATTTTATATTTTCTTTTCTTTTCACTTTTATTTTG
1 TTTTATATTTATTTAATATTTTCTTTTCTTTTCACTTTTATTTTA
2154076 TTTTAT
1 TTTTAT
2154082 TTTTTTCTCT
Statistics
Matches: 45, Mismatches: 2, Indels: 5
0.87 0.04 0.10
Matches are distributed among these distances:
41 1 0.02
42 24 0.53
43 4 0.09
44 6 0.13
45 10 0.22
ACGTcount: A:0.18, C:0.05, G:0.01, T:0.75
Consensus pattern (45 bp):
TTTTATATTTATTTAATATTTTCTTTTCTTTTCACTTTTATTTTA
Found at i:2154086 original size:17 final size:16
Alignment explanation
Indices: 2153983--2154086 Score: 59
Period size: 17 Copynumber: 6.1 Consensus size: 16
2153973 GTTTATTTAA
2153983 TATTCTTTTTATATTTATT
1 TATT-TTTTT-TATTT-TT
*
2154002 TAATATTTATTT-TTTTT
1 T-AT-TTTTTTTATTTTT
*
2154019 TACTTTTTTTTATTTTA
1 TA-TTTTTTTTATTTTT
* *
2154036 TATTTATTTTATATTT
1 TATTTTTTTTATTTTT
* *
2154052 TCTTTTCTTTTCA-CTTT
1 TATTTT-TTTT-ATTTTT
2154069 TATTTTGTTTTATTTTT
1 TATTTT-TTTTATTTTT
2154086 T
1 T
2154087 TCTCTAAAAA
Statistics
Matches: 66, Mismatches: 12, Indels: 16
0.70 0.13 0.17
Matches are distributed among these distances:
16 23 0.35
17 30 0.45
18 4 0.06
19 2 0.03
20 6 0.09
21 1 0.02
ACGTcount: A:0.17, C:0.06, G:0.01, T:0.76
Consensus pattern (16 bp):
TATTTTTTTTATTTTT
Found at i:2154256 original size:58 final size:58
Alignment explanation
Indices: 2154083--2154502 Score: 431
Period size: 58 Copynumber: 7.1 Consensus size: 58
2154073 TTGTTTTATT
2154083 TTTTTCTCTAAAAATAAAATTTCAAAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAA
1 TTTTTCT-TAAAAATAAAATTTCAAAAAAAAG-TTTTTGAGGAAAAGTTGAAAGTATCAA
* * *
2154143 TTTTCCTTGAAAATCAAAATTTCCAAAAAATTA-TTTTT-AGAGAAAAGTTGAAAGTATCAA
1 TTTTTCTTAAAAAT-AAAATTT-CAAAAAA-AAGTTTTTGAG-GAAAAGTTGAAAGTATCAA
*
2154203 TTTTTCTTAAAAATAAAATTTCAAAAAAAAGTTTTTGAGGAAAAGTTAAAAGTATCAA
1 TTTTTCTTAAAAATAAAATTTCAAAAAAAAGTTTTTGAGGAAAAGTTGAAAGTATCAA
* ** * *
2154261 TTTTTCTTAAAAATAAATTTTCAAAAAAGGGTTTCTGAGGAAAAATTGAAAGTATCAA
1 TTTTTCTTAAAAATAAAATTTCAAAAAAAAGTTTTTGAGGAAAAGTTGAAAGTATCAA
* ** *
2154319 TTTTCCTTGAAAACCAAAATTTCAAAAAAAAAAATTTTTTTG-GGAAAAGTTGAAAGTATCAA
1 TTTTTCTT-AAAAATAAAATTTC---AAAAAAAA-GTTTTTGAGGAAAAGTTGAAAGTATCAA
* * * *
2154381 -ATTTCTCCAAAAATCAAAGGTTT-AAAAAAACA-TTTTTGGGGAAAAGTTGAAAGTATCAA
1 TTTTTCT-TAAAAAT-AAA-ATTTCAAAAAAA-AGTTTTTGAGGAAAAGTTGAAAGTATCAA
* ** * * *
2154440 TTTTCCTCGAAATTAAAATTTCAAAAAAAAATATTTTCGA-GAAAAGTTGAAAGTATTAA
1 TTTTTCTTAAAAATAAAATTTCAAAAAAAAGT-TTTT-GAGGAAAAGTTGAAAGTATCAA
2154499 TTTT
1 TTTT
2154503 CCCTACACAA
Statistics
Matches: 304, Mismatches: 35, Indels: 43
0.80 0.09 0.11
Matches are distributed among these distances:
57 5 0.02
58 106 0.35
59 86 0.28
60 55 0.18
61 15 0.05
62 29 0.10
63 8 0.03
ACGTcount: A:0.46, C:0.08, G:0.12, T:0.34
Consensus pattern (58 bp):
TTTTTCTTAAAAATAAAATTTCAAAAAAAAGTTTTTGAGGAAAAGTTGAAAGTATCAA
Found at i:2159838 original size:14 final size:14
Alignment explanation
Indices: 2159799--2159840 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
2159789 AAAAATCAAC
2159799 ATATCTAGTTTTAT
1 ATATCTAGTTTTAT
* *
2159813 -TATTTATTTTTTAT
1 ATATCTA-GTTTTAT
2159827 ATATCTAGTTTTAT
1 ATATCTAGTTTTAT
2159841 CATTTACTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 4
0.73 0.13 0.13
Matches are distributed among these distances:
13 5 0.23
14 12 0.55
15 5 0.23
ACGTcount: A:0.26, C:0.05, G:0.05, T:0.64
Consensus pattern (14 bp):
ATATCTAGTTTTAT
Found at i:2160164 original size:2 final size:2
Alignment explanation
Indices: 2160159--2160205 Score: 58
Period size: 2 Copynumber: 23.5 Consensus size: 2
2160149 TTTACAAACT
* * * *
2160159 TA TA TA TC TA TA TA TC TA TA CA TA TA TA TA TA TA TA GA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2160201 TA TA T
1 TA TA T
2160206 TCACATATTA
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.47
Consensus pattern (2 bp):
TA
Found at i:2161217 original size:17 final size:17
Alignment explanation
Indices: 2161195--2161261 Score: 57
Period size: 17 Copynumber: 3.8 Consensus size: 17
2161185 GTTCCCATAG
2161195 TTTTTTTTATTTTACTT
1 TTTTTTTTATTTTACTT
*
2161212 TTTTTTCTATTTTTA-TT
1 TTTTTTTTA-TTTTACTT
2161229 TTTTCTGTTTA-TTTATCTT
1 TTTT-T-TTTATTTTA-CTT
*
2161248 TCTATTTTTATTTT
1 T-TTTTTTTATTTT
2161262 GATTTTTTAA
Statistics
Matches: 40, Mismatches: 3, Indels: 12
0.73 0.05 0.22
Matches are distributed among these distances:
17 18 0.45
18 10 0.25
19 10 0.25
20 2 0.05
ACGTcount: A:0.12, C:0.07, G:0.01, T:0.79
Consensus pattern (17 bp):
TTTTTTTTATTTTACTT
Found at i:2161323 original size:12 final size:12
Alignment explanation
Indices: 2161308--2161358 Score: 50
Period size: 12 Copynumber: 4.3 Consensus size: 12
2161298 TTAATTCCCT
*
2161308 TTTTTATTTCTG
1 TTTTAATTTCTG
* *
2161320 TTTTGATTACTG
1 TTTTAATTTCTG
2161332 TTTTAATTTCT-
1 TTTTAATTTCTG
* *
2161343 TTTTAAATTATG
1 TTTTAATTTCTG
2161355 TTTT
1 TTTT
2161359 TTATGTTCTA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
11 9 0.28
12 23 0.72
ACGTcount: A:0.18, C:0.06, G:0.08, T:0.69
Consensus pattern (12 bp):
TTTTAATTTCTG
Found at i:2161335 original size:24 final size:23
Alignment explanation
Indices: 2161308--2161375 Score: 66
Period size: 24 Copynumber: 2.8 Consensus size: 23
2161298 TTAATTCCCT
*
2161308 TTTTTATTTCTGTTTT-GATTACTG
1 TTTTTATTTCT-TTTTAAATTA-TG
*
2161332 TTTTAATTTCTTTTTAAATTATG
1 TTTTTATTTCTTTTTAAATTATG
2161355 TTTTTTATGTTCTATTTTAAA
1 -TTTTTAT-TTCT-TTTTAAA
2161376 AATTTTGTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
23 6 0.16
24 20 0.54
25 4 0.11
26 7 0.19
ACGTcount: A:0.21, C:0.06, G:0.07, T:0.66
Consensus pattern (23 bp):
TTTTTATTTCTTTTTAAATTATG
Found at i:2161384 original size:28 final size:29
Alignment explanation
Indices: 2161332--2161401 Score: 87
Period size: 29 Copynumber: 2.6 Consensus size: 29
2161322 TTGATTACTG
2161332 TTTTAATTTCT-TTTT--AAATTATG-TT
1 TTTTAATTTCTATTTTAAAAATTATGTTT
*
2161357 TTTT-ATGTTCTATTTTAAAAATTTTGTTT
1 TTTTAAT-TTCTATTTTAAAAATTATGTTT
2161386 TTTTAATTTCTATTTT
1 TTTTAATTTCTATTTT
2161402 TATTTCTTTG
Statistics
Matches: 38, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
24 2 0.05
25 8 0.21
26 4 0.11
28 7 0.18
29 15 0.39
30 2 0.05
ACGTcount: A:0.23, C:0.04, G:0.04, T:0.69
Consensus pattern (29 bp):
TTTTAATTTCTATTTTAAAAATTATGTTT
Found at i:2161545 original size:24 final size:23
Alignment explanation
Indices: 2161517--2161621 Score: 104
Period size: 24 Copynumber: 4.4 Consensus size: 23
2161507 TTGAATTTTT
2161517 TATTTTTGCATGATTTTATTATGA
1 TATTTTTGCATGA-TTTATTATGA
* **
2161541 TATTTTTGCTTGATTT-TTACAA
1 TATTTTTGCATGATTTATTATGA
* *
2161563 TATTATTGCTTGATATTAATTATGA
1 TATTTTTGCATGAT-TT-ATTATGA
*
2161588 TATTTTTTTCATGATTTATTATGA
1 TA-TTTTTGCATGATTTATTATGA
*
2161612 TATTATTGCA
1 TATTTTTGCA
2161622 CAATATTCTT
Statistics
Matches: 66, Mismatches: 11, Indels: 9
0.77 0.13 0.10
Matches are distributed among these distances:
22 17 0.26
23 11 0.17
24 21 0.32
25 8 0.12
26 9 0.14
ACGTcount: A:0.27, C:0.06, G:0.10, T:0.57
Consensus pattern (23 bp):
TATTTTTGCATGATTTATTATGA
Found at i:2161628 original size:49 final size:47
Alignment explanation
Indices: 2161534--2161628 Score: 109
Period size: 49 Copynumber: 2.0 Consensus size: 47
2161524 GCATGATTTT
* ***
2161534 ATTATGATATTTTTGCTTGATTTTTACAATATTATTGCTTGATATTA
1 ATTATGATATTTTTGCATGATTTTTACAATATTATTGCACAATATTA
* **
2161581 ATTATGATATTTTTTTCATGATTTATTATGATATTATTGCACAATATT
1 ATTATGATA-TTTTTGCATGATTT-TTACAATATTATTGCACAATATT
2161629 CTTATGGTGT
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
47 9 0.23
48 12 0.31
49 18 0.46
ACGTcount: A:0.29, C:0.06, G:0.09, T:0.55
Consensus pattern (47 bp):
ATTATGATATTTTTGCATGATTTTTACAATATTATTGCACAATATTA
Found at i:2163965 original size:13 final size:13
Alignment explanation
Indices: 2163929--2163953 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2163919 ATTAAACCCC
2163929 TAAACCCTAAACT
1 TAAACCCTAAACT
2163942 TAAACCCTAAAC
1 TAAACCCTAAAC
2163954 CTTTACCCTA
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:0.48, C:0.32, G:0.00, T:0.20
Consensus pattern (13 bp):
TAAACCCTAAACT
Found at i:2167232 original size:14 final size:13
Alignment explanation
Indices: 2167206--2167250 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
2167196 TAAGATTAAA
*
2167206 TATATTTAATTTT
1 TATAATTAATTTT
*
2167219 TATGATTAAATTTT
1 TATAATT-AATTTT
*
2167233 TAAAATTAATTTT
1 TATAATTAATTTT
2167246 TATAA
1 TATAA
2167251 AATATTATTT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
13 15 0.58
14 11 0.42
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (13 bp):
TATAATTAATTTT
Found at i:2167963 original size:14 final size:13
Alignment explanation
Indices: 2167946--2168109 Score: 97
Period size: 13 Copynumber: 12.2 Consensus size: 13
2167936 TTATTTTTAT
2167946 TTTTTAATTTCTG
1 TTTTTAATTTCTG
*
2167959 CTTTTTAATTCTTTG
1 -TTTTTAATT-TCTG
*
2167974 TTTTTAATTCCCT-
1 TTTTTAATT-TCTG
2167987 TTTTT-ATTTCTG
1 TTTTTAATTTCTG
* *
2167999 TTTTTGATTACTG
1 TTTTTAATTTCTG
2168012 TTTTTAATTTC--
1 TTTTTAATTTCTG
* *
2168023 TTTTTAAATTATG
1 TTTTTAATTTCTG
* *
2168036 TTTTTTATGTTTCTA
1 -TTTTTA-ATTTCTG
*
2168051 TTTTTAAAATTTTTG
1 TTTTT--AATTTCTG
*
2168066 TTTTTTTTAATTTCTA
1 ---TTTTTAATTTCTG
2168082 TTTTTAA-TTCTTG
1 TTTTTAATTTC-TG
2168095 TTTTTAATTT-TG
1 TTTTTAATTTCTG
2168107 TTT
1 TTT
2168110 AAATATTCCT
Statistics
Matches: 117, Mismatches: 19, Indels: 30
0.70 0.11 0.18
Matches are distributed among these distances:
11 11 0.09
12 16 0.14
13 35 0.30
14 33 0.28
15 10 0.09
16 7 0.06
18 5 0.04
ACGTcount: A:0.17, C:0.07, G:0.06, T:0.70
Consensus pattern (13 bp):
TTTTTAATTTCTG
Found at i:2168080 original size:31 final size:30
Alignment explanation
Indices: 2168012--2168088 Score: 90
Period size: 31 Copynumber: 2.7 Consensus size: 30
2168002 TTGATTACTG
2168012 TTTTTAATTTC--TTTTT-AAATTATGTTT
1 TTTTTAATTTCTATTTTTAAAATTATGTTT
* * *
2168039 TTTAT-GTTTCTATTTTTAAAATTTTTGTTT
1 TTTTTAATTTCTATTTTTAAAA-TTATGTTT
2168069 TTTTTAATTTCTATTTTTAA
1 TTTTTAATTTCTATTTTTAA
2168089 TTCTTGTTTT
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
26 4 0.10
27 4 0.10
28 5 0.12
29 3 0.08
30 11 0.28
31 13 0.32
ACGTcount: A:0.22, C:0.04, G:0.04, T:0.70
Consensus pattern (30 bp):
TTTTTAATTTCTATTTTTAAAATTATGTTT
Found at i:2168235 original size:25 final size:25
Alignment explanation
Indices: 2168197--2168275 Score: 83
Period size: 25 Copynumber: 3.3 Consensus size: 25
2168187 TGAATTTTTT
*
2168197 TATTTTTGCATGATTTTTATTATGA
1 TATTTTTGCTTGATTTTTATTATGA
2168222 TATTTTTGCTTGATTTTTA-TA--A
1 TATTTTTGCTTGATTTTTATTATGA
* * * *
2168244 TATTATTGCTTGGTATTAATTATGA
1 TATTTTTGCTTGATTTTTATTATGA
*
2168269 TTTTTTT
1 TATTTTT
2168276 TTCATGATTT
Statistics
Matches: 44, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
22 16 0.36
23 2 0.05
24 2 0.05
25 24 0.55
ACGTcount: A:0.23, C:0.04, G:0.11, T:0.62
Consensus pattern (25 bp):
TATTTTTGCTTGATTTTTATTATGA
Found at i:2169181 original size:17 final size:16
Alignment explanation
Indices: 2169159--2169190 Score: 55
Period size: 16 Copynumber: 1.9 Consensus size: 16
2169149 TTATAATTAA
2169159 AAAAATTTAAAAAAAAT
1 AAAAA-TTAAAAAAAAT
2169176 AAAAATTAAAAAAAA
1 AAAAATTAAAAAAAA
2169191 AAAGAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (16 bp):
AAAAATTAAAAAAAAT
Found at i:2169191 original size:17 final size:17
Alignment explanation
Indices: 2169159--2169191 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
2169149 TTATAATTAA
*
2169159 AAAAATTTAAAAAAAAT
1 AAAAATTAAAAAAAAAT
2169176 AAAAATTAAAAAAAAA
1 AAAAATTAAAAAAAAA
2169192 AAGAAAAAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (17 bp):
AAAAATTAAAAAAAAAT
Found at i:2170793 original size:24 final size:23
Alignment explanation
Indices: 2170750--2170795 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
2170740 GTAAGTCCAA
*
2170750 TTTTATTTTTGCTATTTTTTATT
1 TTTTATTTTTGCTATATTTTATT
*
2170773 TTTTATTTTATTCTATATTTTAT
1 TTTTATTTT-TGCTATATTTTAT
2170796 GTATATATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 9 0.45
24 11 0.55
ACGTcount: A:0.17, C:0.04, G:0.02, T:0.76
Consensus pattern (23 bp):
TTTTATTTTTGCTATATTTTATT
Found at i:2170875 original size:24 final size:24
Alignment explanation
Indices: 2170848--2170902 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 24
2170838 ATTATTACTA
2170848 TTTATTAATATATATTT-TTTATTT
1 TTTATTAATATAT-TTTATTTATTT
**
2170872 TTTATTTTTATATTTTATTTATTT
1 TTTATTAATATATTTTATTTATTT
2170896 TTGTATT
1 TT-TATT
2170903 TTTATTTATC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
23 3 0.11
24 20 0.74
25 4 0.15
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.75
Consensus pattern (24 bp):
TTTATTAATATATTTTATTTATTT
Found at i:2170879 original size:6 final size:6
Alignment explanation
Indices: 2170863--2170909 Score: 51
Period size: 6 Copynumber: 7.5 Consensus size: 6
2170853 TAATATATAT
*
2170863 TTTTTA TTTTTTA TTTTTA TATTTTA TTTATT- TTTGTA TTTTTA TTT
1 TTTTTA -TTTTTA TTTTTA T-TTTTA TTT-TTA TTTTTA TTTTTA TTT
2170910 ATCTAATTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
5 1 0.03
6 20 0.57
7 14 0.40
ACGTcount: A:0.17, C:0.00, G:0.02, T:0.81
Consensus pattern (6 bp):
TTTTTA
Found at i:2170880 original size:8 final size:8
Alignment explanation
Indices: 2170862--2170905 Score: 54
Period size: 8 Copynumber: 5.5 Consensus size: 8
2170852 TTAATATATA
2170862 TTTTTTA-
1 TTTTTTAT
2170869 TTTTTTAT
1 TTTTTTAT
*
2170877 TTTTATAT
1 TTTTTTAT
2170885 TTTATTTAT
1 TTT-TTTAT
*
2170894 TTTTGTAT
1 TTTTTTAT
2170902 TTTT
1 TTTT
2170906 ATTTATCTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
7 7 0.22
8 18 0.56
9 7 0.22
ACGTcount: A:0.16, C:0.00, G:0.02, T:0.82
Consensus pattern (8 bp):
TTTTTTAT
Found at i:2170904 original size:24 final size:23
Alignment explanation
Indices: 2170856--2170907 Score: 77
Period size: 24 Copynumber: 2.1 Consensus size: 23
2170846 TATTTATTAA
2170856 TATATATTTTTTATTTTTTATTTT
1 TATAT-TTTTTTATTTTTTATTTT
2170880 TATATTTTATTTATTTTTGTATTTT
1 TATATTTT-TTTATTTTT-TATTTT
2170905 TAT
1 TAT
2170908 TTATCTAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
23 3 0.12
24 14 0.54
25 9 0.35
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.77
Consensus pattern (23 bp):
TATATTTTTTTATTTTTTATTTT
Found at i:2171841 original size:11 final size:11
Alignment explanation
Indices: 2171812--2171874 Score: 74
Period size: 11 Copynumber: 5.7 Consensus size: 11
2171802 TTAGATTAGG
*
2171812 TTTATTTAATA
1 TTTATTTTATA
* *
2171823 TTTTTTTTACA
1 TTTATTTTATA
2171834 TTTATTTTATA
1 TTTATTTTATA
*
2171845 TTTATTTTTTTA
1 TTTA-TTTTATA
2171857 TTTATTTTAT-
1 TTTATTTTATA
2171867 TTTATTTT
1 TTTATTTT
2171875 TTTCTTTTCA
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
10 8 0.18
11 26 0.59
12 10 0.23
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTATTTTATA
Found at i:2171852 original size:23 final size:23
Alignment explanation
Indices: 2171812--2171875 Score: 87
Period size: 22 Copynumber: 2.9 Consensus size: 23
2171802 TTAGATTAGG
*
2171812 TTTATTTAATATTT-TTTTTACA
1 TTTATTTTATATTTATTTTTACA
**
2171834 TTTATTTTATATTTATTTTTTTA
1 TTTATTTTATATTTATTTTTACA
2171857 TTTATTTTAT-TTTATTTTT
1 TTTATTTTATATTTATTTTT
2171876 TTCTTTTCAC
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
22 22 0.58
23 16 0.42
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.77
Consensus pattern (23 bp):
TTTATTTTATATTTATTTTTACA
Found at i:2171867 original size:5 final size:5
Alignment explanation
Indices: 2171821--2171904 Score: 63
Period size: 5 Copynumber: 17.2 Consensus size: 5
2171811 GTTTATTTAA
*
2171821 TATTT T-TTT TACATT TATTT TATATT TA-TT T-TTT TA-TT TATTT TATTT
1 TATTT TATTT TA-TTT TATTT TAT-TT TATTT TATTT TATTT TATTT TATTT
* *
2171869 TATTT T-TTT CT-TTT CACTTT TATTT TGTTT TATTT T
1 TATTT TATTT -TATTT TA-TTT TATTT TATTT TATTT T
2171905 TTTCTCTAAA
Statistics
Matches: 64, Mismatches: 6, Indels: 18
0.73 0.07 0.20
Matches are distributed among these distances:
4 17 0.27
5 35 0.55
6 12 0.19
ACGTcount: A:0.17, C:0.05, G:0.01, T:0.77
Consensus pattern (5 bp):
TATTT
Found at i:2171876 original size:23 final size:23
Alignment explanation
Indices: 2171812--2171904 Score: 82
Period size: 25 Copynumber: 3.7 Consensus size: 23
2171802 TTAGATTAGG
2171812 TTTATTTAATATTTTTTTTACATTTAT
1 TTTATTT--TATTTTTTTT--ATTTAT
2171839 TTTATATTTA-TTTTTTTATTTAT
1 TTTAT-TTTATTTTTTTTATTTAT
2171862 TTTATTTTATTTTTTTCT-TTTCACT
1 TTTATTTTATTTTTTT-TATTT-A-T
*
2171887 TTTATTTTGTTTTATTTT
1 TTTATTTTATTTT-TTTT
2171905 TTTCTCTAAA
Statistics
Matches: 59, Mismatches: 1, Indels: 14
0.80 0.01 0.19
Matches are distributed among these distances:
22 4 0.07
23 20 0.34
24 2 0.03
25 21 0.36
26 5 0.08
27 5 0.08
28 2 0.03
ACGTcount: A:0.18, C:0.04, G:0.01, T:0.76
Consensus pattern (23 bp):
TTTATTTTATTTTTTTTATTTAT
Found at i:2171893 original size:30 final size:27
Alignment explanation
Indices: 2171834--2171909 Score: 91
Period size: 30 Copynumber: 2.7 Consensus size: 27
2171824 TTTTTTTACA
2171834 TTTATTTTATATTTATTT-TTTTATTTAT
1 TTTATTTTAT-TTT-TTTCTTTTATTTAT
2171862 TTTATTTTATTTTTTTCTTTTCACTTTTAT
1 TTTATTTTATTTTTTTCTTTT-A--TTTAT
*
2171892 TTTGTTTTATTTTTTTCT
1 TTTATTTTATTTTTTTCT
2171910 CTAAAAATAA
Statistics
Matches: 43, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
26 3 0.07
27 7 0.16
28 11 0.26
30 22 0.51
ACGTcount: A:0.14, C:0.05, G:0.01, T:0.79
Consensus pattern (27 bp):
TTTATTTTATTTTTTTCTTTTATTTAT
Found at i:2172009 original size:58 final size:58
Alignment explanation
Indices: 2171903--2172262 Score: 386
Period size: 58 Copynumber: 6.1 Consensus size: 58
2171893 TTGTTTTATT
2171903 TTTTTCTCTAAAAATAAAATTTCAAAAAAAGAATTTTTGAGGAAAAGTTGAAAGTATCAA
1 TTTTTCT-TAAAAATAAAATTTCAAAAAAAG-ATTTTTGAGGAAAAGTTGAAAGTATCAA
* * *
2171963 TTTTTCTTAAAAATAAAATTTCAAAAATAGGTTTTTAAGGAAAAGTTGAAAGTATCAA
1 TTTTTCTTAAAAATAAAATTTCAAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAA
* * * * *
2172021 -TTTTCTTTAAAAATAAATTTTCAAAAAAGGGTTTCTGAGGAAAATTTGAAAGTATCAA
1 TTTTTC-TTAAAAATAAAATTTCAAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAA
* * * *
2172079 ATTTTCTTGAAAATCAAAATTTCAAAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAA
1 TTTTTCTTAAAAAT-AAAATTTC---AAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAA
* * * * *
2172141 -TTTTCTTCGAAAATCAAAGGTTT-AAAAAAACATTTTTGGGGAAAAGTTGAAAGTAGCAA
1 TTTTTCTT-AAAAAT-AAA-ATTTCAAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAA
* ** * * * *
2172200 TTTTCCTCGAAATTAAAATTTCAAAAAAATATTTTCGA-GAAAAGTTGAAAGTATTAA
1 TTTTTCTTAAAAATAAAATTTCAAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAA
2172257 TTTTTC
1 TTTTTC
2172263 CTACACAAAA
Statistics
Matches: 260, Mismatches: 30, Indels: 23
0.83 0.10 0.07
Matches are distributed among these distances:
57 30 0.12
58 95 0.37
59 73 0.28
60 12 0.05
61 7 0.03
62 40 0.15
63 3 0.01
ACGTcount: A:0.45, C:0.07, G:0.13, T:0.35
Consensus pattern (58 bp):
TTTTTCTTAAAAATAAAATTTCAAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAA
Found at i:2172303 original size:6 final size:6
Alignment explanation
Indices: 2172292--2172319 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
2172282 CTTTTCTTCC
2172292 TTTTGA TTTTGA TTTTGA TTTTGA TTTT
1 TTTTGA TTTTGA TTTTGA TTTTGA TTTT
2172320 TTCTTTAAAC
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:0.14, C:0.00, G:0.14, T:0.71
Consensus pattern (6 bp):
TTTTGA
Found at i:2175464 original size:15 final size:15
Alignment explanation
Indices: 2175444--2175474 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2175434 TCTACATACA
*
2175444 TGCATTTTCATTCAT
1 TGCATTCTCATTCAT
2175459 TGCATTCTCATTCAT
1 TGCATTCTCATTCAT
2175474 T
1 T
2175475 ACACTTAACA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.23, G:0.06, T:0.52
Consensus pattern (15 bp):
TGCATTCTCATTCAT
Found at i:2182279 original size:9 final size:9
Alignment explanation
Indices: 2182267--2182314 Score: 55
Period size: 9 Copynumber: 5.4 Consensus size: 9
2182257 TTGAAAAAAT
2182267 AAAAAATGA
1 AAAAAATGA
2182276 AAAAAATG-
1 AAAAAATGA
2182284 AAAAAATGA
1 AAAAAATGA
*
2182293 AAAATGATG-
1 AAAA-AATGA
*
2182302 AAAATATGA
1 AAAAAATGA
2182311 AAAA
1 AAAA
2182315 TAAAAGAGAA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
8 11 0.32
9 20 0.59
10 3 0.09
ACGTcount: A:0.73, C:0.00, G:0.12, T:0.15
Consensus pattern (9 bp):
AAAAAATGA
Found at i:2182280 original size:17 final size:17
Alignment explanation
Indices: 2182260--2182314 Score: 76
Period size: 18 Copynumber: 3.2 Consensus size: 17
2182250 ACTATGCTTG
2182260 AAAAAAT-AAAAAATGA
1 AAAAAATGAAAAAATGA
2182276 AAAAAATGAAAAAATGA
1 AAAAAATGAAAAAATGA
* *
2182293 AAAATGATGAAAATATGA
1 AAAA-AATGAAAAAATGA
2182311 AAAA
1 AAAA
2182315 TAAAAGAGAA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
16 7 0.20
17 13 0.37
18 15 0.43
ACGTcount: A:0.75, C:0.00, G:0.11, T:0.15
Consensus pattern (17 bp):
AAAAAATGAAAAAATGA
Found at i:2182285 original size:24 final size:24
Alignment explanation
Indices: 2182258--2182329 Score: 85
Period size: 24 Copynumber: 3.0 Consensus size: 24
2182248 ATACTATGCT
2182258 TGAAAAAATAAAAAATGAAAAAAA
1 TGAAAAAATAAAAAATGAAAAAAA
* *
2182282 TGAAAAAATGAAAAATGATGAAAATA
1 TGAAAAAATAAAAAATGA--AAAAAA
*
2182308 TG-AAAAATAAAAGA-GAAAAAAA
1 TGAAAAAATAAAAAATGAAAAAAA
2182330 AAGTGAATGA
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
22 5 0.12
24 19 0.46
25 10 0.24
26 7 0.17
ACGTcount: A:0.74, C:0.00, G:0.12, T:0.14
Consensus pattern (24 bp):
TGAAAAAATAAAAAATGAAAAAAA
Found at i:2182288 original size:18 final size:18
Alignment explanation
Indices: 2182267--2182317 Score: 77
Period size: 18 Copynumber: 2.9 Consensus size: 18
2182257 TTGAAAAAAT
2182267 AAAAAATGAAAAA-AATG
1 AAAAAATGAAAAATAATG
*
2182284 AAAAAATGAAAAATGATG
1 AAAAAATGAAAAATAATG
*
2182302 AAAATATGAAAAATAA
1 AAAAAATGAAAAATAA
2182318 AAGAGAAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
17 13 0.43
18 17 0.57
ACGTcount: A:0.73, C:0.00, G:0.12, T:0.16
Consensus pattern (18 bp):
AAAAAATGAAAAATAATG
Found at i:2182316 original size:9 final size:8
Alignment explanation
Indices: 2182258--2182314 Score: 71
Period size: 8 Copynumber: 6.9 Consensus size: 8
2182248 ATACTATGCT
2182258 TGAAAAAA
1 TGAAAAAA
2182266 T-AAAAAA
1 TGAAAAAA
2182273 TGAAAAAAA
1 TG-AAAAAA
2182282 TGAAAAAA
1 TGAAAAAA
2182290 TGAAAAATGA
1 TGAAAAA--A
*
2182300 TGAAAATA
1 TGAAAAAA
2182308 TGAAAAA
1 TGAAAAA
2182315 TAAAAGAGAA
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
7 7 0.16
8 21 0.49
9 8 0.19
10 7 0.16
ACGTcount: A:0.72, C:0.00, G:0.12, T:0.16
Consensus pattern (8 bp):
TGAAAAAA
Found at i:2183395 original size:41 final size:41
Alignment explanation
Indices: 2183350--2183486 Score: 138
Period size: 43 Copynumber: 3.2 Consensus size: 41
2183340 GATTGTCAAT
2183350 GAGCAATTTATTTTTC-AAAGTTTCGT-TGCCTCTATTTA-AA
1 GAGCAATTTATTTTTCAAAAG--TCGTGTGCCTCTATTTAGAA
* *
2183390 GGAGCAATTTACTTTTCCAAAAGTCGTGGTGCCTCTGTTTAGAA
1 -GAGCAATTTA-TTTTTCAAAAGTCGT-GTGCCTCTATTTAGAA
* *
2183434 GAGCAATTTACTTTTCCAAAAGTCGTGGTGCCTCTGTTTAG-A
1 GAGCAATTTA-TTTTTCAAAAGTCGT-GTGCCTCTATTTAGAA
2183476 GAAGCAATTTA
1 G-AGCAATTTA
2183487 CTTTCCCTAA
Statistics
Matches: 88, Mismatches: 2, Indels: 10
0.88 0.02 0.10
Matches are distributed among these distances:
41 14 0.16
42 7 0.08
43 65 0.74
44 2 0.02
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.37
Consensus pattern (41 bp):
GAGCAATTTATTTTTCAAAAGTCGTGTGCCTCTATTTAGAA
Found at i:2183438 original size:43 final size:43
Alignment explanation
Indices: 2183376--2183501 Score: 193
Period size: 43 Copynumber: 2.9 Consensus size: 43
2183366 AAAGTTTCGT
*
2183376 TGCCTCTATTTA-AAGGAGCAATTTACTTTTCCAAAAGTCGTGG
1 TGCCTCTGTTTAGAA-GAGCAATTTACTTTTCCAAAAGTCGTGG
2183419 TGCCTCTGTTTAGAAGAGCAATTTACTTTTCCAAAAGTCGTGG
1 TGCCTCTGTTTAGAAGAGCAATTTACTTTTCCAAAAGTCGTGG
*
2183462 TGCCTCTGTTTAG-AGAAGCAATTTACTTTCCCTAAAAGTC
1 TGCCTCTGTTTAGAAG-AGCAATTTACTTTTCC-AAAAGTC
2183502 AATGTCTAGC
Statistics
Matches: 78, Mismatches: 2, Indels: 5
0.92 0.02 0.06
Matches are distributed among these distances:
42 2 0.03
43 67 0.86
44 9 0.12
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (43 bp):
TGCCTCTGTTTAGAAGAGCAATTTACTTTTCCAAAAGTCGTGG
Found at i:2183734 original size:16 final size:17
Alignment explanation
Indices: 2183702--2183734 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
2183692 GATATAAAAT
2183702 ATCATGCAAATTAATAA
1 ATCATGCAAATTAATAA
*
2183719 ATCATGTAAA-TAATAA
1 ATCATGCAAATTAATAA
2183735 TATAATAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.55, C:0.09, G:0.06, T:0.30
Consensus pattern (17 bp):
ATCATGCAAATTAATAA
Found at i:2184704 original size:56 final size:54
Alignment explanation
Indices: 2184636--2184744 Score: 128
Period size: 56 Copynumber: 2.0 Consensus size: 54
2184626 TACCTTTATT
* *
2184636 ATAAATGTCAAATCACTATAATATCTCTTATGTCTTAAATAATGAAAATACCTCTC
1 ATAAATGACAAATCACTATAATA-CTCTTATGTCATAAATAA-GAAAATACCTCTC
* * * * * *
2184692 ATAAATGACAAATTATTATGATACTTTTATGTCATAATTAAGAAAATGCCTCT
1 ATAAATGACAAATCACTATAATACTCTTATGTCATAAATAAGAAAATACCTCT
2184745 TGTAGACACC
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
54 11 0.24
55 15 0.33
56 19 0.42
ACGTcount: A:0.41, C:0.15, G:0.07, T:0.37
Consensus pattern (54 bp):
ATAAATGACAAATCACTATAATACTCTTATGTCATAAATAAGAAAATACCTCTC
Found at i:2184898 original size:4 final size:4
Alignment explanation
Indices: 2184885--2184972 Score: 64
Period size: 4 Copynumber: 22.8 Consensus size: 4
2184875 ATATCCTATG
* * *
2184885 TATT TA-T TATT TATT TA-T TATT ACTATT TATT AATA TATT TTTT TATT
1 TATT TATT TATT TATT TATT TATT --TATT TATT TATT TATT TATT TATT
2184933 T-TT TATT T-TT TATTT TATT TA-T T-TT TATAT T-TT TATT TAT
1 TATT TATT TATT TA-TT TATT TATT TATT TAT-T TATT TATT TAT
2184973 CTAATTATAT
Statistics
Matches: 67, Mismatches: 6, Indels: 22
0.71 0.06 0.23
Matches are distributed among these distances:
3 18 0.27
4 39 0.58
5 6 0.09
6 4 0.06
ACGTcount: A:0.25, C:0.01, G:0.00, T:0.74
Consensus pattern (4 bp):
TATT
Found at i:2184907 original size:14 final size:14
Alignment explanation
Indices: 2184888--2184998 Score: 77
Period size: 14 Copynumber: 7.6 Consensus size: 14
2184878 TCCTATGTAT
2184888 TTATTATTTATTTA
1 TTATTATTTATTTA
*
2184902 TTATTA-CTATTTA
1 TTATTATTTATTTA
*
2184915 TTAATATATTTTTTTA
1 TT-AT-TATTTATTTA
*
2184931 TTTTTTATTT-TTTA
1 -TTATTATTTATTTA
2184945 TT-TTATTTATTT-
1 TTATTATTTATTTA
*
2184957 TTATATTTTTATTTA
1 TTAT-TATTTATTTA
2184972 TCTAATTATATATATGTTA
1 T-T-ATTAT-T-TAT-TTA
2184991 TTATTATT
1 TTATTATT
2184999 ATTCTTTTCT
Statistics
Matches: 78, Mismatches: 6, Indels: 24
0.72 0.06 0.22
Matches are distributed among these distances:
12 8 0.10
13 14 0.18
14 20 0.26
15 8 0.10
16 10 0.13
17 10 0.13
18 4 0.05
19 4 0.05
ACGTcount: A:0.27, C:0.02, G:0.01, T:0.70
Consensus pattern (14 bp):
TTATTATTTATTTA
Found at i:2184924 original size:29 final size:29
Alignment explanation
Indices: 2184892--2185001 Score: 98
Period size: 27 Copynumber: 3.7 Consensus size: 29
2184882 ATGTATTTAT
*
2184892 TATTTATTTATTATTACTATTTATTAATA
1 TATTTATTTATTATTATTATTTATTAATA
* * * *
2184921 TATTTTTTTATT-TT-TTATTTTTTATTT
1 TATTTATTTATTATTATTATTTATTAATA
* *
2184948 TATTTATTTTTATATTTTTATTTATCTAATTA
1 TATTTATTTAT-TATTATTATTTAT-TAA-TA
*
2184980 TATATATGTTATTATTATTATT
1 TATTTAT-TTATTATTATTATT
2185002 CTTTTCTTTA
Statistics
Matches: 62, Mismatches: 13, Indels: 9
0.74 0.15 0.11
Matches are distributed among these distances:
27 18 0.29
28 3 0.05
29 13 0.21
30 7 0.11
31 2 0.03
32 16 0.26
33 3 0.05
ACGTcount: A:0.27, C:0.02, G:0.01, T:0.70
Consensus pattern (29 bp):
TATTTATTTATTATTATTATTTATTAATA
Found at i:2184932 original size:8 final size:8
Alignment explanation
Indices: 2184921--2184966 Score: 60
Period size: 7 Copynumber: 5.9 Consensus size: 8
2184911 TTTATTAATA
2184921 TATTTTTT
1 TATTTTTT
2184929 TA-TTTTT
1 TATTTTTT
2184936 TA-TTTTT
1 TATTTTTT
2184943 TATTTTATT
1 TATTTT-TT
*
2184952 TATTTTTA
1 TATTTTTT
2184960 TATTTTT
1 TATTTTT
2184967 ATTTATCTAA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
7 14 0.40
8 13 0.37
9 8 0.23
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (8 bp):
TATTTTTT
Found at i:2184952 original size:39 final size:40
Alignment explanation
Indices: 2184887--2184966 Score: 108
Period size: 40 Copynumber: 2.0 Consensus size: 40
2184877 ATCCTATGTA
2184887 TTTATTATTTATTTATTATTACTATTTATTAATATATTTT
1 TTTATTATTTATTTATTATTACTATTTATTAATATATTTT
* * * **
2184927 TTTATTTTTTATTTTTTATT-TTATTTATTTTTATATTTT
1 TTTATTATTTATTTATTATTACTATTTATTAATATATTTT
2184966 T
1 T
2184967 ATTTATCTAA
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
39 17 0.49
40 18 0.51
ACGTcount: A:0.24, C:0.01, G:0.00, T:0.75
Consensus pattern (40 bp):
TTTATTATTTATTTATTATTACTATTTATTAATATATTTT
Found at i:2184953 original size:23 final size:22
Alignment explanation
Indices: 2184921--2184970 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 22
2184911 TTTATTAATA
2184921 TATTTTTTTATTTTT-TATTTTT
1 TATTTTTTTATTTTTATA-TTTT
2184943 TATTTTATTTATTTTTATATTTT
1 TATTTT-TTTATTTTTATATTTT
2184966 TATTT
1 TATTT
2184971 ATCTAATTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
22 6 0.23
23 18 0.69
24 2 0.08
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (22 bp):
TATTTTTTTATTTTTATATTTT
Found at i:2184957 original size:22 final size:23
Alignment explanation
Indices: 2184921--2184970 Score: 77
Period size: 22 Copynumber: 2.2 Consensus size: 23
2184911 TTTATTAATA
2184921 TATTTTTTTATTTTTTAT-TTTT
1 TATTTTTTTATTTTTTATATTTT
2184943 TATTTTATTTA-TTTTTATATTTT
1 TATTTT-TTTATTTTTTATATTTT
2184966 TATTT
1 TATTT
2184971 ATCTAATTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
22 13 0.50
23 13 0.50
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (23 bp):
TATTTTTTTATTTTTTATATTTT
Found at i:2184983 original size:22 final size:23
Alignment explanation
Indices: 2184939--2184984 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
2184929 TATTTTTTAT
* * *
2184939 TTTTTATTTTATTTATTTTTATA
1 TTTTTATTTTATCTAATTATATA
2184962 TTTTTA-TTTATCTAATTATATA
1 TTTTTATTTTATCTAATTATATA
2184984 T
1 T
2184985 ATGTTATTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 14 0.70
23 6 0.30
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (23 bp):
TTTTTATTTTATCTAATTATATA
Found at i:2185912 original size:21 final size:20
Alignment explanation
Indices: 2185888--2186055 Score: 96
Period size: 22 Copynumber: 8.2 Consensus size: 20
2185878 TTTTTTTGAA
*
2185888 TTTATTTATTTATTTGTTTAT
1 TTTATTTATTT-TTTATTTAT
2185909 TTTATTTATTTATTTATTTAT
1 TTTATTTATTT-TTTATTTAT
** * *
2185930 TAGATTATGTTTATTTAATATTCT
1 TTTATT-TATTT-TTT-AT-TTAT
*
2185954 TTTACATTTATTTTATATTTAT
1 TTT--ATTTATTTTTTATTTAT
* *
2185976 TTTTTTTACTTTTT-TTTAT
1 TTTATTTATTTTTTATTTAT
2185995 TTT-TTTA-TTTTT-TTTAT
1 TTTATTTATTTTTTATTTAT
* *
2186012 TTTTTTTATTTTTT-TTTCT
1 TTTATTTATTTTTTATTTAT
*
2186031 TTTCACTTTTATTTTGT-TTTAT
1 TTT-A--TTTATTTTTTATTTAT
2186053 TTT
1 TTT
2186056 TTTCTCTAAA
Statistics
Matches: 120, Mismatches: 17, Indels: 19
0.77 0.11 0.12
Matches are distributed among these distances:
17 13 0.11
18 8 0.07
19 20 0.17
20 8 0.07
21 24 0.20
22 30 0.25
23 4 0.03
24 6 0.05
25 4 0.03
26 3 0.03
ACGTcount: A:0.18, C:0.04, G:0.02, T:0.76
Consensus pattern (20 bp):
TTTATTTATTTTTTATTTAT
Found at i:2185946 original size:4 final size:4
Alignment explanation
Indices: 2185887--2185930 Score: 70
Period size: 4 Copynumber: 10.8 Consensus size: 4
2185877 TTTTTTTTGA
*
2185887 ATTT ATTT ATTT ATTT GTTT ATTTT ATTT ATTT ATTT ATTT ATT
1 ATTT ATTT ATTT ATTT ATTT A-TTT ATTT ATTT ATTT ATTT ATT
2185931 AGATTATGTT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
4 33 0.89
5 4 0.11
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.75
Consensus pattern (4 bp):
ATTT
Found at i:2185981 original size:1 final size:1
Alignment explanation
Indices: 2185975--2186033 Score: 55
Period size: 1 Copynumber: 59.0 Consensus size: 1
2185965 TTTATATTTA
** * * * * *
2185975 TTTTTTTTACTTTTTTTTATTTTTTTATTTTTTTTATTTTTTTTATTTTTTTTTCTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
2186034 CACTTTTATT
Statistics
Matches: 45, Mismatches: 13, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
1 45 1.00
ACGTcount: A:0.08, C:0.03, G:0.00, T:0.88
Consensus pattern (1 bp):
T
Found at i:2185988 original size:6 final size:5
Alignment explanation
Indices: 2185904--2186055 Score: 90
Period size: 5 Copynumber: 30.6 Consensus size: 5
2185894 TATTTATTTG
*
2185904 TTTAT TTTA- TTTA- TTTA- TTTA- TTTAT TAGATTAT GTTTAT TTAAT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT T---TTAT -TTTAT TTTAT
* * *
2185949 ATTCT TTTACA TTTAT TTTAT ATTTAT TTT-T TTTACT TTT-T TTTA-
1 TTTAT TTTA-T TTTAT TTTAT -TTTAT TTTAT TTTA-T TTTAT TTTAT
* *
2185994 TTT-T TTTAT TTT-T TTTAT TTT-T TTTAT TTTTT TTTCT TTTCACT TTTAT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT-A-T TTTAT
*
2186043 TTTGT TTTAT TTT
1 TTTAT TTTAT TTT
2186056 TTTCTCTAAA
Statistics
Matches: 118, Mismatches: 13, Indels: 32
0.72 0.08 0.20
Matches are distributed among these distances:
4 38 0.32
5 53 0.45
6 18 0.15
7 4 0.03
8 4 0.03
9 1 0.01
ACGTcount: A:0.18, C:0.04, G:0.02, T:0.76
Consensus pattern (5 bp):
TTTAT
Found at i:2185999 original size:18 final size:17
Alignment explanation
Indices: 2185960--2186058 Score: 94
Period size: 18 Copynumber: 5.6 Consensus size: 17
2185950 TTCTTTTACA
2185960 TTTATTTTATATTTATTTTT
1 TTTATTTT-T-TTTA-TTTT
2185980 TTTACTTTTTTTTATTTT
1 TTTA-TTTTTTTTATTTT
2185998 TTTATTTTTTTTATTTTT
1 TTTATTTTTTTTA-TTTT
*
2186016 TTTATTTTTTTT-TCTT
1 TTTATTTTTTTTATTTT
* * * *
2186032 TTCACTTTTATT-TTGT
1 TTTATTTTTTTTATTTT
2186048 TTTATTTTTTT
1 TTTATTTTTTT
2186059 CTCTAAAAAT
Statistics
Matches: 68, Mismatches: 9, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
16 22 0.32
17 9 0.13
18 24 0.35
19 4 0.06
20 5 0.07
21 4 0.06
ACGTcount: A:0.12, C:0.04, G:0.01, T:0.83
Consensus pattern (17 bp):
TTTATTTTTTTTATTTT
Found at i:2186009 original size:27 final size:27
Alignment explanation
Indices: 2185971--2186058 Score: 112
Period size: 25 Copynumber: 3.4 Consensus size: 27
2185961 TTATTTTATA
2185971 TTTATTTTTTTTACTTTTTTTTATTTT
1 TTTATTTTTTTTACTTTTTTTTATTTT
2185998 TTTATTTTTTTTA-TTTTTTTTATTTT
1 TTTATTTTTTTTACTTTTTTTTATTTT
* * * *
2186024 TTT-TTCTTTTCAC-TTTTATT-TTGT
1 TTTATTTTTTTTACTTTTTTTTATTTT
2186048 TTTATTTTTTT
1 TTTATTTTTTT
2186059 CTCTAAAAAT
Statistics
Matches: 54, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
24 6 0.11
25 19 0.35
26 16 0.30
27 13 0.24
ACGTcount: A:0.10, C:0.05, G:0.01, T:0.84
Consensus pattern (27 bp):
TTTATTTTTTTTACTTTTTTTTATTTT
Found at i:2186011 original size:36 final size:39
Alignment explanation
Indices: 2185960--2186058 Score: 123
Period size: 36 Copynumber: 2.5 Consensus size: 39
2185950 TTCTTTTACA
2185960 TTTATTTTATATTTATTTTTTTTACTTTTTTTT-ATTT-T
1 TTTATTTTAT-TTTATTTTTTTTACTTTTTTTTCATTTCT
* *
2185998 TTTATTTT-TTTTATTTTTTTTATTTTTTTTTCTTTTCACT
1 TTTATTTTATTTTATTTTTTTTACTTTTTTTTCATTT--CT
*
2186038 TTTATTTTGTTTTATTTTTTT
1 TTTATTTTATTTTATTTTTTT
2186059 CTCTAAAAAT
Statistics
Matches: 54, Mismatches: 2, Indels: 7
0.86 0.03 0.11
Matches are distributed among these distances:
36 21 0.39
37 4 0.07
38 8 0.15
40 9 0.17
41 12 0.22
ACGTcount: A:0.12, C:0.04, G:0.01, T:0.83
Consensus pattern (39 bp):
TTTATTTTATTTTATTTTTTTTACTTTTTTTTCATTTCT
Found at i:2186020 original size:77 final size:77
Alignment explanation
Indices: 2185894--2186058 Score: 183
Period size: 77 Copynumber: 2.2 Consensus size: 77
2185884 TGAATTTATT
*
2185894 TATTTA-TTTGTTTATTTTATTTATTTATTTATTTATTAGATTATGTTTATTTAATATTCTTTT-
1 TATTTATTTTTTTTATTTTATTTATTTATTTATTTATTAGATTATGTTTATTTAATATTCTTTTC
2185957 ACATTTATTTTA
66 ACATTTATTTTA
* * * ** * * ** *
2185969 TATTTATTTTTTTTACTTTTTTTTATTTTTTTATTTTTTTTATTTTTTTTATTTTTTTTTCTTTT
1 TATTTATTTTTTTTA-TTTTATTTATTTATTTATTTATTAGATTATGTTTATTTAATATTCTTTT
* *
2186034 CACTTTTATTTTG
65 CACATTTATTTTA
2186047 T-TTTATTTTTTT
1 TATTTATTTTTTT
2186059 CTCTAAAAAT
Statistics
Matches: 74, Mismatches: 13, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
75 6 0.08
76 7 0.09
77 50 0.68
78 11 0.15
ACGTcount: A:0.18, C:0.04, G:0.02, T:0.76
Consensus pattern (77 bp):
TATTTATTTTTTTTATTTTATTTATTTATTTATTTATTAGATTATGTTTATTTAATATTCTTTTC
ACATTTATTTTA
Found at i:2186040 original size:26 final size:25
Alignment explanation
Indices: 2185950--2186056 Score: 101
Period size: 26 Copynumber: 4.1 Consensus size: 25
2185940 TTATTTAATA
* *
2185950 TTCTTTTACATTTATTTTATATTTATT
1 TTCTTTTAC-TTTTTTTTAT-TTTTTT
2185977 TT-TTTTACTTTTTTTTATTTTTTTAT
1 TTCTTTTACTTTTTTTTA-TTTTTT-T
*
2186003 TTTTTTTA-TTTTTTTTATTTTTTT
1 TTCTTTTACTTTTTTTTATTTTTTT
*
2186027 TTCTTTTCACTTTTATTTTGTTTTATTT
1 TTCTTTT-ACTTTT-TTTTATTTT-TTT
2186055 TT
1 TT
2186057 TTCTCTAAAA
Statistics
Matches: 69, Mismatches: 4, Indels: 13
0.80 0.05 0.15
Matches are distributed among these distances:
24 7 0.10
25 19 0.28
26 23 0.33
27 15 0.22
28 5 0.07
ACGTcount: A:0.13, C:0.06, G:0.01, T:0.80
Consensus pattern (25 bp):
TTCTTTTACTTTTTTTTATTTTTTT
Found at i:2186166 original size:58 final size:58
Alignment explanation
Indices: 2186062--2186352 Score: 332
Period size: 58 Copynumber: 4.9 Consensus size: 58
2186052 TTTTTTTCTC
2186062 TAAAAATAAAATTTCAAAAAAATGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT
1 TAAAAATAAAATTTCAAAAAAATG-TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT
** * * *
2186121 TAAAAATAAAATTTTTAAAAAGTGTTTTTGAGGAAAAGTTAAAAGTATCAATTTTTCT
1 TAAAAATAAAATTTCAAAAAAATGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT
* ** * *
2186179 TAAAAATAAATTTTCAAAAAAGGGTTTCTGAGGAAAAATTGAAAGTATCAATTTTCCT
1 TAAAAATAAAATTTCAAAAAAATGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT
** ** *
2186237 TGAAAACCAAAATTTCAAAAAAAAAACATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCT
1 T-AAAAATAAAATTTC---AAAAAAATGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT
** ** * * *
2186299 CGAACCTAAAATTTCAAAAAAATATTTTCGA-AAAAAGTTGAAAGTATCAATTTT
1 TAAAAATAAAATTTCAAAAAAATGTTTTTGAGGAAAAGTTGAAAGTATCAATTTT
2186353 TCCTACATAA
Statistics
Matches: 198, Mismatches: 30, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
57 22 0.11
58 96 0.48
59 32 0.16
61 11 0.06
62 37 0.19
ACGTcount: A:0.46, C:0.08, G:0.12, T:0.33
Consensus pattern (58 bp):
TAAAAATAAAATTTCAAAAAAATGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT
Found at i:2187371 original size:57 final size:58
Alignment explanation
Indices: 2187297--2187406 Score: 159
Period size: 58 Copynumber: 1.9 Consensus size: 58
2187287 ATGCATTTAC
* * * * *
2187297 TACCATAATTATGAAAATGCT-CTCTTATCAAAATTTGTCAAAATTACTATAATATAT
1 TACCATAATTATAAAAATACTCCTCTTACCAAAATTAGTCAAAATTAATATAATATAT
*
2187354 TACCATAATTATAAAAATACTCCTCTTACCATAATTAGTCAAAATTAATATAA
1 TACCATAATTATAAAAATACTCCTCTTACCAAAATTAGTCAAAATTAATATAA
2187407 ATTATGGCCC
Statistics
Matches: 46, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
57 19 0.41
58 27 0.59
ACGTcount: A:0.45, C:0.15, G:0.04, T:0.36
Consensus pattern (58 bp):
TACCATAATTATAAAAATACTCCTCTTACCAAAATTAGTCAAAATTAATATAATATAT
Found at i:2192132 original size:2 final size:2
Alignment explanation
Indices: 2192127--2192169 Score: 59
Period size: 2 Copynumber: 21.5 Consensus size: 2
2192117 TTTACAAACT
* * *
2192127 TA TA TA TC TA TA TA TC TA TA CA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2192169 T
1 T
2192170 TCACATATTA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:2193183 original size:18 final size:16
Alignment explanation
Indices: 2193156--2193231 Score: 62
Period size: 18 Copynumber: 4.2 Consensus size: 16
2193146 GTTCCCATAG
2193156 TTTTTTTATTTTTACTT
1 TTTTTTTATTTTTA-TT
2193173 TTTTTTCTATTTTTATTT
1 TTTTTT-TATTTTTA-TT
* *
2193191 TTTCTGTTTATTTATCTT
1 TTT-T-TTTATTTTTATT
2193209 CTATTTTTTATTTTTGATT
1 -T-TTTTTTATTTTT-ATT
2193228 TTTT
1 TTTT
2193232 AATTTCTGCT
Statistics
Matches: 48, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
17 9 0.19
18 24 0.50
19 11 0.23
20 4 0.08
ACGTcount: A:0.12, C:0.07, G:0.03, T:0.79
Consensus pattern (16 bp):
TTTTTTTATTTTTATT
Found at i:2193191 original size:15 final size:15
Alignment explanation
Indices: 2193173--2193223 Score: 52
Period size: 15 Copynumber: 3.3 Consensus size: 15
2193163 ATTTTTACTT
2193173 TTTTTTCTATTTTTA
1 TTTTTTCTATTTTTA
*
2193188 TTTTTTC--TGTTTA
1 TTTTTTCTATTTTTA
2193201 TTTATCTTCTATTTTTTA
1 TTT-T-TTCTA-TTTTTA
2193219 TTTTT
1 TTTTT
2193224 GATTTTTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
13 8 0.28
14 1 0.03
15 10 0.34
16 1 0.03
17 1 0.03
18 8 0.28
ACGTcount: A:0.12, C:0.08, G:0.02, T:0.78
Consensus pattern (15 bp):
TTTTTTCTATTTTTA
Found at i:2193228 original size:14 final size:14
Alignment explanation
Indices: 2193157--2193261 Score: 51
Period size: 14 Copynumber: 7.5 Consensus size: 14
2193147 TTCCCATAGT
2193157 TTTTTTATTTTT-A
1 TTTTTTATTTTTGA
* *
2193170 CTTTTT-TTTCT-A
1 TTTTTTATTTTTGA
*
2193182 TTTTTATTTTTTCTG-
1 TTTTT-TATTTT-TGA
*
2193197 TTTATTTATCTTCT-A
1 TTT-TTTAT-TTTTGA
2193212 TTTTTTATTTTTGA
1 TTTTTTATTTTTGA
* *
2193226 TTTTTTAATTTCTGC
1 TTTTTT-ATTTTTGA
*
2193241 TTTTTAATTCTTTG-
1 TTTTTTATT-TTTGA
2193255 TTTTTTA
1 TTTTTTA
2193262 ATTCCCTTTT
Statistics
Matches: 70, Mismatches: 12, Indels: 19
0.69 0.12 0.19
Matches are distributed among these distances:
12 9 0.13
13 9 0.13
14 24 0.34
15 24 0.34
16 4 0.06
ACGTcount: A:0.13, C:0.08, G:0.04, T:0.75
Consensus pattern (14 bp):
TTTTTTATTTTTGA
Found at i:2193236 original size:15 final size:14
Alignment explanation
Indices: 2193212--2193387 Score: 68
Period size: 13 Copynumber: 12.9 Consensus size: 14
2193202 TTATCTTCTA
2193212 TTTTTT-ATTTTTG
1 TTTTTTAATTTTTG
*
2193225 ATTTTTTAATTTCTG
1 -TTTTTTAATTTTTG
*
2193240 CTTTTTAATTCTTTG
1 TTTTTTAATT-TTTG
***
2193255 TTTTTTAA-TTCCC
1 TTTTTTAATTTTTG
*
2193268 TTTTTT-ATTTCTG
1 TTTTTTAATTTTTG
* **
2193281 -TTTTTGATTACTG
1 TTTTTTAATTTTTG
2193294 -TTTTTAA--TTT-
1 TTTTTTAATTTTTG
* * *
2193304 CTTTTTAAATTATG
1 TTTTTTAATTTTTG
*
2193318 TTTTTT-ATGTTTCTA
1 TTTTTTAAT-TTT-TG
*
2193333 TTTTTAAAATTTTTG
1 TTTTT-TAATTTTTG
*
2193348 TTTTTTTAATTTCT-
1 -TTTTTTAATTTTTG
* *
2193362 ATTTTTAATTCTTG
1 TTTTTTAATTTTTG
2193376 -TTTTTAATTTTT
1 TTTTTTAATTTTT
2193388 TTTAAATATT
Statistics
Matches: 122, Mismatches: 26, Indels: 29
0.69 0.15 0.16
Matches are distributed among these distances:
11 8 0.07
12 6 0.05
13 46 0.38
14 23 0.19
15 29 0.24
16 8 0.07
17 2 0.02
ACGTcount: A:0.17, C:0.07, G:0.06, T:0.70
Consensus pattern (14 bp):
TTTTTTAATTTTTG
Found at i:2193272 original size:28 final size:28
Alignment explanation
Indices: 2193212--2193279 Score: 70
Period size: 28 Copynumber: 2.4 Consensus size: 28
2193202 TTATCTTCTA
*
2193212 TTTTTT-ATT-TTTGATTTTTTAATTTC
1 TTTTTTAATTCTTTGATTTTTTAATTCC
2193238 TGCTTTTTAATTCTTTG-TTTTTTAATTCCC
1 T--TTTTTAATTCTTTGATTTTTTAATT-CC
*
2193268 TTTTTTATTTCT
1 TTTTTTAATTCT
2193280 GTTTTTGATT
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
26 1 0.03
28 15 0.43
29 13 0.37
30 6 0.17
ACGTcount: A:0.13, C:0.10, G:0.04, T:0.72
Consensus pattern (28 bp):
TTTTTTAATTCTTTGATTTTTTAATTCC
Found at i:2193285 original size:14 final size:14
Alignment explanation
Indices: 2193171--2193298 Score: 59
Period size: 13 Copynumber: 9.2 Consensus size: 14
2193161 TTATTTTTAC
*
2193171 TTTTT-TTTCTATT
1 TTTTTATTTCTGTT
*
2193184 TTTATTTTTTCTGTT
1 TTT-TTATTTCTGTT
* *
2193199 TATTTATCTTCT-AT
1 TTTTTAT-TTCTGTT
*
2193213 TTTTTATTTTTGATT
1 TTTTTATTTCTG-TT
* *
2193228 TTTTAATTTCTG-C
1 TTTTTATTTCTGTT
* *
2193241 TTTTTAATTCTTTGT
1 TTTTTATTTCTGT-T
* **
2193256 TTTTTAATTC-CCT
1 TTTTTATTTCTGTT
2193269 TTTTTATTTCTG-T
1 TTTTTATTTCTGTT
* *
2193282 TTTTGATTACTGTT
1 TTTTTATTTCTGTT
2193296 TTT
1 TTT
2193299 AATTTCTTTT
Statistics
Matches: 86, Mismatches: 20, Indels: 17
0.70 0.16 0.14
Matches are distributed among these distances:
13 36 0.42
14 16 0.19
15 34 0.40
ACGTcount: A:0.12, C:0.09, G:0.05, T:0.73
Consensus pattern (14 bp):
TTTTTATTTCTGTT
Found at i:2193297 original size:25 final size:24
Alignment explanation
Indices: 2193268--2193394 Score: 76
Period size: 26 Copynumber: 4.8 Consensus size: 24
2193258 TTTAATTCCC
* **
2193268 TTTTTTATTTCTGTTTTTGATTACTG
1 TTTTTAATTTCT-TTTTAAATTA-TG
2193294 TTTTTAATTTCTTTTTAAATTATG
1 TTTTTAATTTCTTTTTAAATTATG
* *
2193318 TTTTTTATGTTTCTATTTTTAAAATTTTTG
1 -TTTTTA-ATTTC--TTTTT-AAA-TTATG
* *
2193348 TTTTTTTAATTTCTATTTTTAATTCTTG
1 --TTTTTAATTTCT-TTTTAAATT-ATG
2193376 TTTTTAATTT-TTTTTAAAT
1 TTTTTAATTTCTTTTTAAAT
2193395 ATTCCTTCTT
Statistics
Matches: 84, Mismatches: 8, Indels: 20
0.75 0.07 0.18
Matches are distributed among these distances:
24 9 0.11
25 15 0.18
26 25 0.30
27 2 0.02
28 11 0.13
29 7 0.08
30 8 0.10
31 7 0.08
ACGTcount: A:0.20, C:0.05, G:0.06, T:0.70
Consensus pattern (24 bp):
TTTTTAATTTCTTTTTAAATTATG
Done.