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 51 of 127
Found at i:10148726 original size:35 final size:34
Alignment explanation
Indices: 10148634--10148762 Score: 93
Period size: 35 Copynumber: 3.7 Consensus size: 34
10148624 TGACTCAGTG
* * ** *
10148634 TCAGTCATTTTTATTATTCGACTTGCGGTTCAATA
1 TCAGTCATTTTTATTCTT-AACTTGTAGTTCAATC
* * *
10148669 TC-TTCATTTTT-TTCTTTGACTTGTAGTTCAGTC
1 TCAGTCATTTTTATTC-TTAACTTGTAGTTCAATC
* *
10148702 -CTAGTCATTTTTATTCTTCAACTTGCAGTTTAATC
1 TC-AGTCATTTTTATTCTT-AACTTGTAGTTCAATC
*
10148737 TCAGTTATTTTTATTTCTTAACTTGT
1 TCAGTCATTTTTA-TTCTTAACTTGT
10148763 GGCTTAATCC
Statistics
Matches: 74, Mismatches: 13, Indels: 14
0.73 0.13 0.14
Matches are distributed among these distances:
32 1 0.01
33 14 0.19
34 20 0.27
35 33 0.45
36 6 0.08
ACGTcount: A:0.19, C:0.17, G:0.11, T:0.53
Consensus pattern (34 bp):
TCAGTCATTTTTATTCTTAACTTGTAGTTCAATC
Found at i:10151965 original size:40 final size:40
Alignment explanation
Indices: 10151898--10152099 Score: 135
Period size: 40 Copynumber: 4.9 Consensus size: 40
10151888 TCGAAACCAT
* * * *
10151898 AAACCTTAAAATTTTGAAATCCT-AAAACCCTAAAAACTCG
1 AAACCTTAAAA-TCTAAAAACCTCAAAACCCTAAAAACTCA
* *
10151938 AAATCTTAAAATCTAAAAACCTAAAAACCCAAAACCCTTAAAACTCA
1 AAACCTTAAAATCTAAAAACCT-------CAAAACCCTAAAAACTCA
*
10151985 AAATCC-TAAAATCCT-AAAATC-CAAAACCCTAAAAACGT-A
1 AAA-CCTTAAAAT-CTAAAAACCTCAAAACCCTAAAAAC-TCA
* * * * * *
10152024 ATACCTTAAAATCTCTAAAACTTCAAAGCCCTAAAACCTAA
1 AAACCTTAAAATCT-AAAAACCTCAAAACCCTAAAAACTCA
*
10152065 AAACCTTAAAATCTTAAAACCTCAAAACCCTAAAA
1 AAACCTTAAAATCTAAAAACCTCAAAACCCTAAAA
10152100 TTTTGACATT
Statistics
Matches: 129, Mismatches: 17, Indels: 32
0.72 0.10 0.18
Matches are distributed among these distances:
38 4 0.03
39 31 0.24
40 35 0.27
41 27 0.21
47 29 0.22
48 3 0.02
ACGTcount: A:0.51, C:0.25, G:0.02, T:0.21
Consensus pattern (40 bp):
AAACCTTAAAATCTAAAAACCTCAAAACCCTAAAAACTCA
Found at i:10151987 original size:23 final size:22
Alignment explanation
Indices: 10151961--10152018 Score: 55
Period size: 23 Copynumber: 2.5 Consensus size: 22
10151951 TAAAAACCTA
10151961 AAAACCCAAAACCCTTAAAA-CTC
1 AAAACCCAAAACCC-TAAAATC-C
* *
10151984 AAAATCCTAAAATCCTAAAATCC
1 AAAA-CCCAAAACCCTAAAATCC
10152007 AAAACCCTAAAA
1 AAAACCC-AAAA
10152019 ACGTAATACC
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
22 2 0.07
23 18 0.62
24 9 0.31
ACGTcount: A:0.55, C:0.29, G:0.00, T:0.16
Consensus pattern (22 bp):
AAAACCCAAAACCCTAAAATCC
Found at i:10152003 original size:16 final size:15
Alignment explanation
Indices: 10151918--10152100 Score: 84
Period size: 16 Copynumber: 11.5 Consensus size: 15
10151908 ATTTTGAAAT
*
10151918 CCTAAAACCCTAAAA
1 CCTAAAATCCTAAAA
* * *
10151933 ACTCGAAATCTTAAAA
1 CCT-AAAATCCTAAAA
* *
10151949 TCTAAAAACCTAAAAA
1 CCTAAAATCCT-AAAA
* *
10151965 CCCAAAACCCTTAAAA
1 CCTAAAATCC-TAAAA
10151981 -CTCAAAATCCTAAAA
1 CCT-AAAATCCTAAAA
10151996 TCCTAAAATCC-AAAA
1 -CCTAAAATCCTAAAA
* * *
10152011 CCCTAAAAACGTAATA
1 -CCTAAAATCCTAAAA
10152027 CCTTAAAATCTCTAAAA
1 CC-TAAAATC-CTAAAA
* **
10152044 CTTCAAAGCCCTAAAA
1 CCT-AAAATCCTAAAA
*
10152060 CCTAAAAACCTTAAAA
1 CCTAAAATCC-TAAAA
*
10152076 TCTTAAAA-CCTCAAAA
1 -CCTAAAATCCT-AAAA
10152092 CCCTAAAAT
1 -CCTAAAAT
10152101 TTTGACATTC
Statistics
Matches: 125, Mismatches: 29, Indels: 26
0.69 0.16 0.14
Matches are distributed among these distances:
15 33 0.26
16 74 0.59
17 18 0.14
ACGTcount: A:0.51, C:0.27, G:0.02, T:0.20
Consensus pattern (15 bp):
CCTAAAATCCTAAAA
Found at i:10152059 original size:41 final size:42
Alignment explanation
Indices: 10151967--10152099 Score: 145
Period size: 40 Copynumber: 3.3 Consensus size: 42
10151957 CCTAAAAACC
* * *
10151967 CAAAACCCTTAAAA-CTCAAAATCC-TAAAATC-CTAAAA-TC
1 CAAAACCCTAAAAACCT-AAAAACCTTAAAATCTCTAAAACTT
* *
10152006 CAAAACCCTAAAAACGT-AATACCTTAAAATCTCTAAAACTT
1 CAAAACCCTAAAAACCTAAAAACCTTAAAATCTCTAAAACTT
* *
10152047 CAAAGCCCT-AAAACCTAAAAACCTTAAAATCT-TAAAACCT
1 CAAAACCCTAAAAACCTAAAAACCTTAAAATCTCTAAAACTT
10152087 CAAAACCCTAAAA
1 CAAAACCCTAAAA
10152100 TTTTGACATT
Statistics
Matches: 78, Mismatches: 10, Indels: 10
0.80 0.10 0.10
Matches are distributed among these distances:
38 4 0.05
39 20 0.26
40 28 0.36
41 26 0.33
ACGTcount: A:0.51, C:0.27, G:0.02, T:0.20
Consensus pattern (42 bp):
CAAAACCCTAAAAACCTAAAAACCTTAAAATCTCTAAAACTT
Found at i:10152099 original size:8 final size:8
Alignment explanation
Indices: 10151950--10152099 Score: 69
Period size: 8 Copynumber: 18.8 Consensus size: 8
10151940 ATCTTAAAAT
*
10151950 CTAAAAAC
1 CTAAAACC
10151958 CTAAAAACC
1 CT-AAAACC
10151967 C-AAAACC
1 CTAAAACC
*
10151974 CTTAAAACT
1 C-TAAAACC
*
10151983 C-AAAATC
1 CTAAAACC
*
10151990 CTAAAATC
1 CTAAAACC
*
10151998 CTAAAATC
1 CTAAAACC
10152006 C-AAAACC
1 CTAAAACC
*
10152013 CTAAAAAC
1 CTAAAACC
* *
10152021 GTAATACC
1 CTAAAACC
* *
10152029 TTAAAATCT
1 CTAAAA-CC
10152038 CTAAAA-C
1 CTAAAACC
* *
10152045 TTCAAAGCC
1 CT-AAAACC
10152054 CTAAAA-C
1 CTAAAACC
10152061 CTAAAAACC
1 CT-AAAACC
* *
10152070 TTAAAATC
1 CTAAAACC
*
10152078 TTAAAA-C
1 CTAAAACC
10152085 CTCAAAACC
1 CT-AAAACC
10152094 CTAAAA
1 CTAAAA
10152100 TTTTGACATT
Statistics
Matches: 109, Mismatches: 21, Indels: 24
0.71 0.14 0.16
Matches are distributed among these distances:
7 24 0.22
8 60 0.55
9 25 0.23
ACGTcount: A:0.52, C:0.27, G:0.01, T:0.19
Consensus pattern (8 bp):
CTAAAACC
Found at i:10152137 original size:15 final size:16
Alignment explanation
Indices: 10152088--10152146 Score: 59
Period size: 15 Copynumber: 3.8 Consensus size: 16
10152078 TTAAAACCTC
10152088 AAAACCCTAAAATTTT
1 AAAACCCTAAAATTTT
* **
10152104 GACATTCC-AAAATTTT
1 -AAAACCCTAAAATTTT
*
10152120 AAAACTCTAAAA-TTT
1 AAAACCCTAAAATTTT
10152135 AAAACCCTAAAA
1 AAAACCCTAAAA
10152147 CCCTCAAAAC
Statistics
Matches: 33, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
15 17 0.52
16 12 0.36
17 4 0.12
ACGTcount: A:0.51, C:0.19, G:0.02, T:0.29
Consensus pattern (16 bp):
AAAACCCTAAAATTTT
Found at i:10152180 original size:32 final size:32
Alignment explanation
Indices: 10152134--10152226 Score: 98
Period size: 32 Copynumber: 2.8 Consensus size: 32
10152124 CTCTAAAATT
* *
10152134 TAAAACCCTAAAACCCTCAAAACCTTAAATACTA
1 TAAAA-CCT-AAACCTTCAAAACCCTAAATACTA
* *
10152168 TAAAACCTAAACCTTCAAAACCCTAAGTATTA
1 TAAAACCTAAACCTTCAAAACCCTAAATACTA
* *
10152200 T-AAACTATAAACCTTCAAAACTCTAAA
1 TAAAAC-CTAAACCTTCAAAACCCTAAA
10152227 CTCTAAATCC
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
31 4 0.08
32 39 0.76
33 3 0.06
34 5 0.10
ACGTcount: A:0.49, C:0.26, G:0.01, T:0.24
Consensus pattern (32 bp):
TAAAACCTAAACCTTCAAAACCCTAAATACTA
Found at i:10152192 original size:16 final size:16
Alignment explanation
Indices: 10152135--10152193 Score: 50
Period size: 16 Copynumber: 3.6 Consensus size: 16
10152125 TCTAAAATTT
*
10152135 AAAACCCTAAAACCCTC
1 AAAACCCT-AAACCTTC
* *
10152152 AAAACCTTAAATACTAT-
1 AAAACCCTAAA-CCT-TC
10152169 AAAA-CCTAAACCTTC
1 AAAACCCTAAACCTTC
10152184 AAAACCCTAA
1 AAAACCCTAA
10152194 GTATTATAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 9
0.70 0.11 0.19
Matches are distributed among these distances:
14 1 0.03
15 6 0.18
16 13 0.39
17 12 0.36
18 1 0.03
ACGTcount: A:0.51, C:0.31, G:0.00, T:0.19
Consensus pattern (16 bp):
AAAACCCTAAACCTTC
Found at i:10155549 original size:18 final size:21
Alignment explanation
Indices: 10155505--10155551 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 21
10155495 AAATATATTT
10155505 TTTTATT-AAATTATATATAA
1 TTTTATTAAAATTATATATAA
10155525 TTATTATTAAAATT-T-TA-AA
1 TT-TTATTAAAATTATATATAA
10155544 TTTTATTA
1 TTTTATTA
10155552 TGTTTATATC
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
18 6 0.24
19 4 0.16
20 4 0.16
21 6 0.24
22 5 0.20
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
TTTTATTAAAATTATATATAA
Found at i:10157073 original size:14 final size:15
Alignment explanation
Indices: 10157049--10157079 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
10157039 CCCTAAACCA
10157049 CAAACATAGAAAAAT
1 CAAACATAGAAAAAT
10157064 CAAA-ATAGAAAAAT
1 CAAACATAGAAAAAT
10157078 CA
1 CA
10157080 TTGGGACCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 12 0.75
15 4 0.25
ACGTcount: A:0.68, C:0.13, G:0.06, T:0.13
Consensus pattern (15 bp):
CAAACATAGAAAAAT
Found at i:10157767 original size:12 final size:13
Alignment explanation
Indices: 10157734--10157767 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
10157724 TATCAATTTT
10157734 AAATTATTTATAA
1 AAATTATTTATAA
10157747 AAATATATTT-TAA
1 AAAT-TATTTATAA
10157760 AAATTATT
1 AAATTATT
10157768 AAATTATCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 4 0.20
13 11 0.55
14 5 0.25
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (13 bp):
AAATTATTTATAA
Found at i:10159467 original size:18 final size:18
Alignment explanation
Indices: 10159443--10159478 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
10159433 AATAAATTAA
*
10159443 AAAAAAATATTTTTTAATG
1 AAAAAAA-ATTTTATAATG
10159462 AAAAAAAATTTTATAAT
1 AAAAAAAATTTTATAAT
10159479 TCTTGAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (18 bp):
AAAAAAAATTTTATAATG
Found at i:10160449 original size:19 final size:21
Alignment explanation
Indices: 10160427--10160473 Score: 62
Period size: 22 Copynumber: 2.3 Consensus size: 21
10160417 TCTGATTAAA
10160427 TATTATTT-AT-AAATAAATT
1 TATTATTTAATAAAATAAATT
*
10160446 TATTATTTAAATAAAATATATT
1 TATTATTT-AATAAAATAAATT
10160468 TATTAT
1 TATTAT
10160474 ATAACTTGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 8 0.33
21 2 0.08
22 14 0.58
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
TATTATTTAATAAAATAAATT
Found at i:10160456 original size:17 final size:17
Alignment explanation
Indices: 10160423--10160470 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 17
10160413 ATTATCTGAT
10160423 TAAATATTATTTATAAA
1 TAAATATTATTTATAAA
*
10160440 TAAAT-TTATTATTTAAA
1 TAAATATTATT-TATAAA
10160457 TAAA-ATATATTTAT
1 TAAATAT-TATTTAT
10160471 TATATAACTT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
16 5 0.19
17 17 0.65
18 4 0.15
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TAAATATTATTTATAAA
Found at i:10161043 original size:14 final size:16
Alignment explanation
Indices: 10161024--10161059 Score: 51
Period size: 14 Copynumber: 2.4 Consensus size: 16
10161014 TTATGATTTG
10161024 ATATTTTA-ATTATA-
1 ATATTTTATATTATAT
10161038 ATA-TTTATATTATAT
1 ATATTTTATATTATAT
10161053 ATATTTT
1 ATATTTT
10161060 GAACATGCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
13 4 0.21
14 9 0.47
15 3 0.16
16 3 0.16
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
ATATTTTATATTATAT
Found at i:10161102 original size:13 final size:13
Alignment explanation
Indices: 10161084--10161108 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10161074 CTTAATAATA
10161084 TTATTTTTATTTT
1 TTATTTTTATTTT
10161097 TTATTTTTATTT
1 TTATTTTTATTT
10161109 AAATTTAAAT
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:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (13 bp):
TTATTTTTATTTT
Found at i:10161652 original size:17 final size:17
Alignment explanation
Indices: 10161615--10161658 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
10161605 TTAATTTAGT
*
10161615 TAAATATCATATTAATAA
1 TAAATAT-ATAATAATAA
*
10161633 TAAATATATAATATTAA
1 TAAATATATAATAATAA
10161650 TAAATATAT
1 TAAATATAT
10161659 TATTTATAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 17 0.71
18 7 0.29
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (17 bp):
TAAATATATAATAATAA
Found at i:10162301 original size:12 final size:11
Alignment explanation
Indices: 10162283--10162321 Score: 53
Period size: 12 Copynumber: 3.5 Consensus size: 11
10162273 CTCGCTTATG
10162283 TTTTTTTTCTT
1 TTTTTTTTCTT
10162294 TGTTTTTTT-TT
1 T-TTTTTTTCTT
10162305 TTTTTTTTACTT
1 TTTTTTTT-CTT
10162317 TTTTT
1 TTTTT
10162322 CTATTTTTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
10 7 0.28
11 4 0.16
12 14 0.56
ACGTcount: A:0.03, C:0.05, G:0.03, T:0.90
Consensus pattern (11 bp):
TTTTTTTTCTT
Found at i:10162318 original size:9 final size:8
Alignment explanation
Indices: 10162284--10162330 Score: 53
Period size: 8 Copynumber: 5.9 Consensus size: 8
10162274 TCGCTTATGT
10162284 TTTTTTTC
1 TTTTTTTC
10162292 TTTGTTTT-
1 TTT-TTTTC
10162300 TTTTTTT-
1 TTTTTTTC
*
10162307 TTTTTTAC
1 TTTTTTTC
10162315 TTTTTTTC
1 TTTTTTTC
10162323 TATTTTTT
1 T-TTTTTT
10162331 GTCAAAATCT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
7 10 0.29
8 14 0.41
9 10 0.29
ACGTcount: A:0.04, C:0.06, G:0.02, T:0.87
Consensus pattern (8 bp):
TTTTTTTC
Found at i:10162318 original size:18 final size:18
Alignment explanation
Indices: 10162283--10162321 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
10162273 CTCGCTTATG
**
10162283 TTTTTTTTCTTTGTTTTT
1 TTTTTTTTCTTTACTTTT
*
10162301 TTTTTTTTTTTTACTTTT
1 TTTTTTTTCTTTACTTTT
10162319 TTT
1 TTT
10162322 CTATTTTTTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.03, C:0.05, G:0.03, T:0.90
Consensus pattern (18 bp):
TTTTTTTTCTTTACTTTT
Found at i:10162835 original size:15 final size:16
Alignment explanation
Indices: 10162817--10162850 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
10162807 CTTTTTTACC
10162817 TTTTCTT-TTTAATTT
1 TTTTCTTCTTTAATTT
*
10162832 TTTTCTTCTTTTATTT
1 TTTTCTTCTTTAATTT
10162848 TTT
1 TTT
10162851 AATTAGATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.09, C:0.09, G:0.00, T:0.82
Consensus pattern (16 bp):
TTTTCTTCTTTAATTT
Found at i:10163136 original size:12 final size:12
Alignment explanation
Indices: 10163112--10163153 Score: 59
Period size: 12 Copynumber: 3.6 Consensus size: 12
10163102 GCTTTAACTG
*
10163112 TATATATTAAAT
1 TATATATTTAAT
*
10163124 TATATTTTTAAT
1 TATATATTTAAT
10163136 TA-ATATTTAAT
1 TATATATTTAAT
10163147 TATATAT
1 TATATAT
10163154 ATGTATCATA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
11 10 0.38
12 16 0.62
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (12 bp):
TATATATTTAAT
Found at i:10165566 original size:14 final size:14
Alignment explanation
Indices: 10165543--10165573 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
10165533 TTTGAAAATT
10165543 TTAAACTCATTTGA
1 TTAAACTCATTTGA
*
10165557 TTAAATTCATTTGA
1 TTAAACTCATTTGA
10165571 TTA
1 TTA
10165574 TTATAGACGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.35, C:0.10, G:0.06, T:0.48
Consensus pattern (14 bp):
TTAAACTCATTTGA
Found at i:10168269 original size:16 final size:17
Alignment explanation
Indices: 10168237--10168275 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
10168227 AAATATAAAA
*
10168237 AATATACTAAAATTTTT
1 AATATACTAAAAATTTT
*
10168254 ATTATA-TAAAAATTTT
1 AATATACTAAAAATTTT
10168270 AATATA
1 AATATA
10168276 ATTAAATTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
16 14 0.74
17 5 0.26
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (17 bp):
AATATACTAAAAATTTT
Found at i:10168396 original size:20 final size:21
Alignment explanation
Indices: 10168353--10168415 Score: 76
Period size: 20 Copynumber: 3.0 Consensus size: 21
10168343 ATATGTTTGC
10168353 ATTATTAAT-TTTAATTTAACT
1 ATTA-TAATATTTAATTTAACT
*
10168374 ATTATAATATTTAATTT-ATT
1 ATTATAATATTTAATTTAACT
* *
10168394 ATTATAATAATTAATTTCACT
1 ATTATAATATTTAATTTAACT
10168415 A
1 A
10168416 CCGTAATTGA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 22 0.59
21 15 0.41
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (21 bp):
ATTATAATATTTAATTTAACT
Found at i:10186911 original size:29 final size:29
Alignment explanation
Indices: 10186872--10186930 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
10186862 AATTATATTT
* *
10186872 AAATATTTAATATGATATTTGAATTTTAA
1 AAATATTTAATATAATATTTGAATTATAA
*
10186901 AAATTTTTAATATAATATTTGAATTATAA
1 AAATATTTAATATAATATTTGAATTATAA
10186930 A
1 A
10186931 TTTATTAACT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (29 bp):
AAATATTTAATATAATATTTGAATTATAA
Found at i:10186931 original size:27 final size:28
Alignment explanation
Indices: 10186871--10186938 Score: 84
Period size: 29 Copynumber: 2.4 Consensus size: 28
10186861 TAATTATATT
* *
10186871 TAAATATTTAATATGATATTTGAATTTTA
1 TAAATTTTTAATATAATATTTGAA-TTTA
*
10186900 AAAATTTTTAATATAATATTTGAA-TTA
1 TAAATTTTTAATATAATATTTGAATTTA
10186927 TAAATTTATTAA
1 TAAATTT-TTAA
10186939 CTAATGTTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
27 9 0.26
28 4 0.12
29 21 0.62
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (28 bp):
TAAATTTTTAATATAATATTTGAATTTA
Found at i:10187062 original size:28 final size:28
Alignment explanation
Indices: 10187025--10187110 Score: 77
Period size: 28 Copynumber: 3.0 Consensus size: 28
10187015 GTAAATATTT
10187025 TATTA-ATTAATAAATTTAT-AATTTAAA
1 TATTATATTAA-AAATTTATAAATTTAAA
* * * *
10187052 TGTTATATTAAAATTTTTTAAATTTAAT
1 TATTATATTAAAAATTTATAAATTTAAA
*
10187080 TATTATATTAAATATTTTATTATAATTTAAA
1 TATTATATTAAA-AATTTA-TA-AATTTAAA
10187111 ATTTTCGAAA
Statistics
Matches: 47, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
27 10 0.21
28 23 0.49
29 5 0.11
30 2 0.04
31 7 0.15
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.53
Consensus pattern (28 bp):
TATTATATTAAAAATTTATAAATTTAAA
Found at i:10187096 original size:20 final size:18
Alignment explanation
Indices: 10187040--10187114 Score: 53
Period size: 20 Copynumber: 3.9 Consensus size: 18
10187030 ATTAATAAAT
10187040 TTATAATTT-AAATGTTATA
1 TTATAATTTAAAAT-TTA-A
* *
10187059 TTAAAATTTTTTAAATTTAA
1 TTATAA--TTTAAAATTTAA
* *
10187079 TTATTATATTAAATATTTTA
1 TTATAAT-TTAAA-ATTTAA
10187099 TTATAATTTAAAATTT
1 TTATAATTTAAAATTT
10187115 TCGAAATATT
Statistics
Matches: 45, Mismatches: 6, Indels: 11
0.73 0.10 0.18
Matches are distributed among these distances:
18 5 0.11
19 14 0.31
20 16 0.36
21 6 0.13
22 4 0.09
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (18 bp):
TTATAATTTAAAATTTAA
Found at i:10190490 original size:11 final size:10
Alignment explanation
Indices: 10190474--10190571 Score: 59
Period size: 10 Copynumber: 10.3 Consensus size: 10
10190464 CAGGACCTAA
10190474 AAATAAAGATT
1 AAATAAAGA-T
10190485 AAATAAAGAT
1 AAATAAAGAT
*
10190495 AAATAAAAAT
1 AAATAAAGAT
*
10190505 -AA-AAA-TT
1 AAATAAAGAT
10190512 AAATAAAGAT
1 AAATAAAGAT
*
10190522 AAATATAA-CT
1 AAATA-AAGAT
* **
10190532 TAA-AATTAT
1 AAATAAAGAT
10190541 AAATAAAG--
1 AAATAAAGAT
10190549 -AATAAAGAT
1 AAATAAAGAT
10190558 AAATACAAGAT
1 AAATA-AAGAT
10190569 AAA
1 AAA
10190572 AATAAAAATA
Statistics
Matches: 67, Mismatches: 10, Indels: 20
0.69 0.10 0.21
Matches are distributed among these distances:
7 8 0.12
8 6 0.09
9 9 0.13
10 25 0.37
11 19 0.28
ACGTcount: A:0.68, C:0.02, G:0.06, T:0.23
Consensus pattern (10 bp):
AAATAAAGAT
Found at i:10190512 original size:27 final size:27
Alignment explanation
Indices: 10190471--10190554 Score: 105
Period size: 27 Copynumber: 3.0 Consensus size: 27
10190461 CCACAGGACC
*
10190471 TAAAAATAAAGATTAAATAAAGATAAA
1 TAAAAATAAAAATTAAATAAAGATAAA
10190498 TAAAAATAAAAATTAAATAAAGATAAA
1 TAAAAATAAAAATTAAATAAAGATAAA
** *
10190525 TATAACTTAAAATTATAAATAAAGAATAAA
1 TA-AAAATAAAAAT-TAAATAAAG-ATAAA
10190555 GATAAATACA
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 28 0.56
28 8 0.16
29 9 0.18
30 5 0.10
ACGTcount: A:0.69, C:0.01, G:0.05, T:0.25
Consensus pattern (27 bp):
TAAAAATAAAAATTAAATAAAGATAAA
Found at i:10190514 original size:7 final size:6
Alignment explanation
Indices: 10190495--10190584 Score: 53
Period size: 6 Copynumber: 15.3 Consensus size: 6
10190485 AAATAAAGAT
* * * ** * *
10190495 AAATAA AAATAA AAAT-T AAATAA AGATAA ATAT-A ACTTAA AATTAT
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA
* *
10190541 AAATAA AGAATAA AGAT-- AAATACA AGATAA AAATAA AAATAA AA
1 AAATAA A-AATAA AAATAA AAATA-A AAATAA AAATAA AAATAA AA
10190585 GAAAACACAA
Statistics
Matches: 64, Mismatches: 14, Indels: 12
0.71 0.16 0.13
Matches are distributed among these distances:
4 3 0.05
5 7 0.11
6 44 0.69
7 10 0.16
ACGTcount: A:0.71, C:0.02, G:0.04, T:0.22
Consensus pattern (6 bp):
AAATAA
Found at i:10190572 original size:36 final size:36
Alignment explanation
Indices: 10190471--10190583 Score: 110
Period size: 36 Copynumber: 3.3 Consensus size: 36
10190461 CCACAGGACC
* * *
10190471 TAAAAATAAAG-ATTAA-ATAAAGATAA-ATAAAAA
1 TAAAAATAAAGAATAAAGATAAATACAACATAAAAA
* * * *
10190504 TAAAAAT-TA-AATAAAGATAAATATAACTTAAAAT
1 TAAAAATAAAGAATAAAGATAAATACAACATAAAAA
* *
10190538 TATAAATAAAGAATAAAGATAAATACAAGATAAAAA
1 TAAAAATAAAGAATAAAGATAAATACAACATAAAAA
10190574 TAAAAATAAA
1 TAAAAATAAA
10190584 AGAAAACACA
Statistics
Matches: 63, Mismatches: 12, Indels: 7
0.77 0.15 0.09
Matches are distributed among these distances:
32 5 0.08
33 16 0.25
34 11 0.17
35 1 0.02
36 30 0.48
ACGTcount: A:0.70, C:0.02, G:0.05, T:0.23
Consensus pattern (36 bp):
TAAAAATAAAGAATAAAGATAAATACAACATAAAAA
Found at i:10190584 original size:11 final size:11
Alignment explanation
Indices: 10190473--10190584 Score: 57
Period size: 11 Copynumber: 9.8 Consensus size: 11
10190463 ACAGGACCTA
*
10190473 AAAATAAAGAT
1 AAAATAAAAAT
* *
10190484 TAAATAAAGAT
1 AAAATAAAAAT
10190495 -AAATAAAAAT
1 AAAATAAAAAT
*
10190505 AAAA-ATTAAAT
1 AAAATA-AAAAT
*
10190516 AAAGATAAATAT
1 AAA-ATAAAAAT
** *
10190528 AACTTAAAATT
1 AAAATAAAAAT
10190539 ATAAATAAAGAAT
1 A-AAATAAA-AAT
* *
10190552 AAAGATAAATAC
1 AAA-ATAAAAAT
*
10190564 AAGATAAAAAT
1 AAAATAAAAAT
10190575 AAAAATAAAA
1 -AAAATAAAA
10190585 GAAAACACAA
Statistics
Matches: 75, Mismatches: 18, Indels: 15
0.69 0.17 0.14
Matches are distributed among these distances:
10 10 0.13
11 32 0.43
12 24 0.32
13 9 0.12
ACGTcount: A:0.71, C:0.02, G:0.05, T:0.22
Consensus pattern (11 bp):
AAAATAAAAAT
Found at i:10190589 original size:17 final size:16
Alignment explanation
Indices: 10190471--10190577 Score: 67
Period size: 17 Copynumber: 6.6 Consensus size: 16
10190461 CCACAGGACC
* *
10190471 TAAAAATAAAGATTAAA
1 TAAAAATAAATA-AAAA
*
10190488 TAAAGATAAATAAAAA
1 TAAAAATAAATAAAAA
*
10190504 TAAAAATTAAATAAAGA
1 TAAAAA-TAAATAAAAA
* * *
10190521 TAAATATAACTTAAAA
1 TAAAAATAAATAAAAA
*
10190537 T---TATAAATAAAGAA
1 TAAAAATAAATAAA-AA
* *
10190551 TAAAGATAAATACAAGA
1 TAAAAATAAATA-AAAA
10190568 TAAAAATAAA
1 TAAAAATAAA
10190578 AATAAAAGAA
Statistics
Matches: 70, Mismatches: 14, Indels: 12
0.73 0.15 0.12
Matches are distributed among these distances:
13 8 0.11
14 3 0.04
16 16 0.23
17 41 0.59
18 2 0.03
ACGTcount: A:0.69, C:0.02, G:0.06, T:0.23
Consensus pattern (16 bp):
TAAAAATAAATAAAAA
Found at i:10194106 original size:24 final size:24
Alignment explanation
Indices: 10194075--10194124 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
10194065 ATGCAAAAAT
* *
10194075 AAAAATAAAGATTAAATCAAGATA
1 AAAAATAAAAATTAAATAAAGATA
10194099 AAAAATAAAAATTAAATAAAGATA
1 AAAAATAAAAATTAAATAAAGATA
10194123 AA
1 AA
10194125 TATAGCATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.72, C:0.02, G:0.06, T:0.20
Consensus pattern (24 bp):
AAAAATAAAAATTAAATAAAGATA
Found at i:10194135 original size:35 final size:33
Alignment explanation
Indices: 10194077--10194181 Score: 104
Period size: 37 Copynumber: 3.0 Consensus size: 33
10194067 GCAAAAATAA
10194077 AAATAAAGATTAAATCAAGATAAAAAATAAAAATT
1 AAATAAAGA-TAAAT-AAGATAAAAAATAAAAATT
* *
10194112 AAATAAAGATAAATATAGCATAAAATTATAAAAAAAT
1 AAATAAAGATAAATA-AG-ATAAAA-AAT-AAAAATT
*
10194149 GAATAAAGATAAATACCAGAT-AAAAATAAAAAT
1 AAATAAAGATAAATA--AGATAAAAAATAAAAAT
10194182 AAAAGAAAAA
Statistics
Matches: 59, Mismatches: 6, Indels: 11
0.78 0.08 0.14
Matches are distributed among these distances:
33 1 0.02
34 12 0.20
35 17 0.29
36 5 0.08
37 22 0.37
38 2 0.03
ACGTcount: A:0.68, C:0.04, G:0.07, T:0.22
Consensus pattern (33 bp):
AAATAAAGATAAATAAGATAAAAAATAAAAATT
Found at i:10194604 original size:107 final size:106
Alignment explanation
Indices: 10194414--10194617 Score: 264
Period size: 107 Copynumber: 1.9 Consensus size: 106
10194404 TCTCTTTCTT
* * * * * **
10194414 TATTAAAAGCCTTTATTAATATTTGACTTTAATCATTTTACCTCTCCTCATTCAGACTCAGGCCC
1 TATTAAAAGCCTCTATTAACATTGGACTTTAATAATTTTACCACTCCAAATTCAGACTCAGGCCC
* *
10194479 TTAAATGTTACAACTAACAGCTACCCTTTAATATATCTCTA
66 TTAAATGTTACAACTAACAACTACCATTTAATATATCTCTA
* ** * *
10194520 TATTAAAAAGCCTCTATTAACATTGGACTTTAATAATTTTCCCACTCCAAATTTGGATTCAGGGC
1 TATT-AAAAGCCTCTATTAACATTGGACTTTAATAATTTTACCACTCCAAATTCAGACTCAGGCC
*
10194585 TTTAAATGTTACAACTAACAACTACCATTTAAT
65 CTTAAATGTTACAACTAACAACTACCATTTAAT
10194618 GTCTCTTTAT
Statistics
Matches: 82, Mismatches: 15, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
106 4 0.05
107 78 0.95
ACGTcount: A:0.33, C:0.22, G:0.08, T:0.37
Consensus pattern (106 bp):
TATTAAAAGCCTCTATTAACATTGGACTTTAATAATTTTACCACTCCAAATTCAGACTCAGGCCC
TTAAATGTTACAACTAACAACTACCATTTAATATATCTCTA
Found at i:10194863 original size:9 final size:9
Alignment explanation
Indices: 10194849--10194884 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
10194839 TTGAATACAC
10194849 ATTTAACAT
1 ATTTAACAT
*
10194858 ATTTAATAT
1 ATTTAACAT
*
10194867 GTTTAACAT
1 ATTTAACAT
10194876 ATTTAACAT
1 ATTTAACAT
10194885 GTATAATACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.42, C:0.08, G:0.03, T:0.47
Consensus pattern (9 bp):
ATTTAACAT
Found at i:10194873 original size:18 final size:18
Alignment explanation
Indices: 10194850--10194886 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
10194840 TGAATACACA
*
10194850 TTTAACATATTTAATATG
1 TTTAACATATTTAACATG
10194868 TTTAACATATTTAACATG
1 TTTAACATATTTAACATG
10194886 T
1 T
10194887 ATAATACATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.38, C:0.08, G:0.05, T:0.49
Consensus pattern (18 bp):
TTTAACATATTTAACATG
Found at i:10197678 original size:7 final size:7
Alignment explanation
Indices: 10197677--10197702 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
10197667 ATTTTAGTTT
10197677 TTTTTAA
1 TTTTTAA
10197684 TTTTTAA
1 TTTTTAA
10197691 TTTTTAA
1 TTTTTAA
10197698 TTTTT
1 TTTTT
10197703 CAAAAAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (7 bp):
TTTTTAA
Found at i:10197824 original size:34 final size:32
Alignment explanation
Indices: 10197760--10197872 Score: 91
Period size: 34 Copynumber: 3.3 Consensus size: 32
10197750 AATAAGAAGC
* * *
10197760 AAAATAAAATAAAGCTAACTAAAATGTAAAAATA
1 AAAATAAAATAAAGATAAAT-AAGT-TAAAAATA
*
10197794 AAAATAAAATAAAGATAAATATAGCTTAAAATTA
1 AAAATAAAATAAAGATAAATA-AG-TTAAAAATA
* * *
10197828 TAAATAAAGAATAAAGAGAAATACAAGATAAAAATA
1 AAAAT-AA-AATAAAGATAAAT--AAGTTAAAAATA
10197864 AAAATAAAA
1 AAAATAAAA
10197873 GAAAAACACA
Statistics
Matches: 64, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
33 1 0.02
34 32 0.50
35 5 0.08
36 23 0.36
37 2 0.03
38 1 0.02
ACGTcount: A:0.69, C:0.04, G:0.07, T:0.20
Consensus pattern (32 bp):
AAAATAAAATAAAGATAAATAAGTTAAAAATA
Found at i:10198555 original size:18 final size:18
Alignment explanation
Indices: 10198532--10198566 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
10198522 ATATAAATAC
*
10198532 ATGTTTAACATATTTAAT
1 ATGTTTAACAAATTTAAT
10198550 ATGTTTAACAAATTTAA
1 ATGTTTAACAAATTTAA
10198567 CTCATTTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.43, C:0.06, G:0.06, T:0.46
Consensus pattern (18 bp):
ATGTTTAACAAATTTAAT
Found at i:10200179 original size:19 final size:20
Alignment explanation
Indices: 10200155--10200195 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
10200145 TTAAGCTAGG
10200155 AAACAAT-ATCAAAATTTTC
1 AAACAATCATCAAAATTTTC
* *
10200174 AAACAATCATCAGAGTTTTC
1 AAACAATCATCAAAATTTTC
10200194 AA
1 AA
10200196 CAAAAACTGC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 7 0.37
20 12 0.63
ACGTcount: A:0.49, C:0.17, G:0.05, T:0.29
Consensus pattern (20 bp):
AAACAATCATCAAAATTTTC
Found at i:10201459 original size:29 final size:29
Alignment explanation
Indices: 10201427--10201526 Score: 82
Period size: 29 Copynumber: 3.5 Consensus size: 29
10201417 TAAGCAAAAT
* * *
10201427 AAAATCAAGCTAACTAAA-ATACAAAACTA
1 AAAATAAAGATAAATAAACATA-AAAACTA
10201456 AAAATAAAGATAAATAAACATAAAAA-T-
1 AAAATAAAGATAAATAAACATAAAAACTA
* * * *
10201483 TAAATAAAGATAAATTAGCAT-AAAATTA
1 AAAATAAAGATAAATAAACATAAAAACTA
10201511 TAAAATAAAGAATAAA
1 -AAAATAAAG-ATAAA
10201527 GATAAATACA
Statistics
Matches: 59, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
26 4 0.07
27 19 0.32
28 1 0.02
29 27 0.46
30 8 0.14
ACGTcount: A:0.67, C:0.07, G:0.05, T:0.21
Consensus pattern (29 bp):
AAAATAAAGATAAATAAACATAAAAACTA
Found at i:10201463 original size:6 final size:6
Alignment explanation
Indices: 10201442--10201556 Score: 51
Period size: 6 Copynumber: 18.5 Consensus size: 6
10201432 CAAGCTAACT
* * *
10201442 AAAATA CAAAACTA AAAATA AAGAT- -AAATA AACATA AAAAT- TAAATA
1 AAAATA -AAAA-TA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
* * *
10201489 AAGATA AATTAGCATA AAATTA TAAAATA AAGAATA AAGAT- -AAATA
1 AAAATA AA--A--ATA AAAATA -AAAATA AA-AATA AAAATA AAAATA
*
10201535 CAATATA AAAATA AAAATA AAA
1 -AAAATA AAAATA AAAATA AAA
10201557 GAAAAACACA
Statistics
Matches: 81, Mismatches: 14, Indels: 27
0.66 0.11 0.22
Matches are distributed among these distances:
4 6 0.07
5 4 0.05
6 40 0.49
7 23 0.28
8 3 0.04
10 5 0.06
ACGTcount: A:0.70, C:0.04, G:0.04, T:0.21
Consensus pattern (6 bp):
AAAATA
Found at i:10201482 original size:56 final size:54
Alignment explanation
Indices: 10201367--10201555 Score: 150
Period size: 56 Copynumber: 3.3 Consensus size: 54
10201357 TTATTTTACA
* *
10201367 AAAAATAACAATAAAGAT-ACTAAAA-ACAAAAT-AAAATAAATAATAAATAATAAG
1 AAAAATAA-AATAAAGATAACTAAAATACAAAATAAAAATAAA-GATAAATAA-AAT
* * *
10201421 CAAAATAAAATCAAGCTAACTAAAATACAAAACTAAAAATAAAGATAAATAAACAT
1 AAAAATAAAATAAAGATAACTAAAATACAAAA-TAAAAATAAAGATAAATAAA-AT
* *
10201477 AAAAATTAAATAAAGATAAATTAGCATAAAATTATAAAATAAAGAATAAAGATAAATACAATAT
1 AAAAATAAAATAAAGAT--A--A-C-TAAAA-TACAAAATAAA-AATAAAGATAAATA-AA-AT
10201541 AAAAATAAAAATAAA
1 AAAAAT-AAAATAAA
10201556 AGAAAAACAC
Statistics
Matches: 108, Mismatches: 12, Indels: 19
0.78 0.09 0.14
Matches are distributed among these distances:
53 7 0.06
54 14 0.13
55 7 0.06
56 23 0.21
57 8 0.07
58 1 0.01
60 1 0.01
61 1 0.01
62 9 0.08
63 20 0.19
64 10 0.09
65 7 0.06
ACGTcount: A:0.69, C:0.06, G:0.04, T:0.20
Consensus pattern (54 bp):
AAAAATAAAATAAAGATAACTAAAATACAAAATAAAAATAAAGATAAATAAAAT
Found at i:10201495 original size:27 final size:28
Alignment explanation
Indices: 10201456--10201555 Score: 96
Period size: 27 Copynumber: 3.5 Consensus size: 28
10201446 TACAAAACTA
10201456 AAAATAAAGATAAATAAACATAAAA-AT
1 AAAATAAAGATAAATAAACATAAAATAT
* * *
10201483 TAAATAAAGATAAATTAGCATAAAATTAT
1 AAAATAAAGATAAATAAACATAAAA-TAT
* *
10201512 AAAATAAAGAATAAAGATAA-ATACAATAT
1 AAAATAAAG-ATAAATA-AACATAAAATAT
*
10201541 AAAAATAAAAATAAA
1 -AAAATAAAGATAAA
10201556 AGAAAAACAC
Statistics
Matches: 59, Mismatches: 9, Indels: 8
0.78 0.12 0.11
Matches are distributed among these distances:
27 22 0.37
29 18 0.31
30 18 0.31
31 1 0.02
ACGTcount: A:0.70, C:0.03, G:0.05, T:0.22
Consensus pattern (28 bp):
AAAATAAAGATAAATAAACATAAAATAT
Found at i:10201552 original size:36 final size:34
Alignment explanation
Indices: 10201469--10201556 Score: 88
Period size: 36 Copynumber: 2.5 Consensus size: 34
10201459 ATAAAGATAA
* * * *
10201469 ATAAACATAAAAAT-TAAATAAAGATAAATTAGC
1 ATAAAAATAAAAATAAAAATAAAGATAAATCAAC
* *
10201502 ATAAAATTATAAAATAAAGAATAAAGATAAATACAAT
1 ATAAAAATA-AAAATAAA-AATAAAGATAAAT-CAAC
10201539 ATAAAAATAAAAATAAAA
1 ATAAAAATAAAAATAAAA
10201557 GAAAAACACA
Statistics
Matches: 44, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
33 7 0.16
34 5 0.11
35 2 0.05
36 21 0.48
37 9 0.20
ACGTcount: A:0.69, C:0.03, G:0.05, T:0.23
Consensus pattern (34 bp):
ATAAAAATAAAAATAAAAATAAAGATAAATCAAC
Found at i:10203684 original size:107 final size:107
Alignment explanation
Indices: 10203489--10203685 Score: 261
Period size: 107 Copynumber: 1.8 Consensus size: 107
10203479 CTTTATTAAG
* * * *** *
10203489 AGCCTTTATTAATATTGAACTTTAATCATTTTACCTCTCTTCATTTAGACTCATGCCCTTAAATG
1 AGCCTTTATTAACATTGAACTTTAATAATTTTACCCCTCCAAATTTAGACTCAGGCCCTTAAATG
*
10203554 TTACAACTAACAACTACCTTTTAATATATCTCTATATTAAAA
66 TTACAACTAACAACTACCCTTTAATATATCTCTATATTAAAA
* * * *
10203596 AGCCTTTATTAACATTGAACTTTAATAATTTT-CCCCATCCAAATTTGGATTCAGGGCGTTAAAT
1 AGCCTTTATTAACATTGAACTTTAATAATTTTACCCC-TCCAAATTTAGACTCAGGCCCTTAAAT
*
10203660 GTTACAACTAACAATTACCCTTTAAT
65 GTTACAACTAACAACTACCCTTTAAT
10203686 GTCTCTTTAT
Statistics
Matches: 76, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
106 3 0.04
107 73 0.96
ACGTcount: A:0.34, C:0.20, G:0.07, T:0.39
Consensus pattern (107 bp):
AGCCTTTATTAACATTGAACTTTAATAATTTTACCCCTCCAAATTTAGACTCAGGCCCTTAAATG
TTACAACTAACAACTACCCTTTAATATATCTCTATATTAAAA
Found at i:10203946 original size:18 final size:18
Alignment explanation
Indices: 10203912--10203946 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
10203902 TCATATAAAC
*
10203912 ACATGTTTAACATATTTA
1 ACATGTTTAACACATTTA
*
10203930 ACATGTTTAATACATTT
1 ACATGTTTAACACATTT
10203947 TTTATATTTA
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:0.37, C:0.11, G:0.06, T:0.46
Consensus pattern (18 bp):
ACATGTTTAACACATTTA
Found at i:10205420 original size:26 final size:26
Alignment explanation
Indices: 10205369--10205420 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
10205359 AATTTTAACA
* *
10205369 TTTTTATAATATTTGTATGAATTAAT
1 TTTTTATAATATTTATATGAAATAAT
*
10205395 TTTTTATTAAT-TTTATATTAAATAAT
1 TTTTTA-TAATATTTATATGAAATAAT
10205421 CATAAATATA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 18 0.82
27 4 0.18
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.60
Consensus pattern (26 bp):
TTTTTATAATATTTATATGAAATAAT
Found at i:10214919 original size:13 final size:12
Alignment explanation
Indices: 10214886--10214920 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
10214876 GGATTTTCAG
10214886 AAGGTTTTGAGT
1 AAGGTTTTGAGT
*
10214898 AAGGGTTTGAGT
1 AAGGTTTTGAGT
10214910 AGAGGTTTTGA
1 A-AGGTTTTGA
10214921 AGGTTTGGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
12 12 0.60
13 8 0.40
ACGTcount: A:0.26, C:0.00, G:0.37, T:0.37
Consensus pattern (12 bp):
AAGGTTTTGAGT
Found at i:10215085 original size:14 final size:15
Alignment explanation
Indices: 10215046--10215087 Score: 59
Period size: 16 Copynumber: 2.8 Consensus size: 15
10215036 TTTGATATAA
10215046 GGGTTTGGATTTTAG
1 GGGTTTGGATTTTAG
*
10215061 GGATCTTGGATTTT-G
1 GGGT-TTGGATTTTAG
10215076 GGGTTTGGATTT
1 GGGTTTGGATTT
10215088 AAAGGATTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 8 0.33
15 7 0.29
16 9 0.38
ACGTcount: A:0.12, C:0.02, G:0.38, T:0.48
Consensus pattern (15 bp):
GGGTTTGGATTTTAG
Found at i:10215103 original size:30 final size:30
Alignment explanation
Indices: 10215046--10215104 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
10215036 TTTGATATAA
* * *
10215046 GGGTTTGGATTTTAGGGATCTTGGATTTTG
1 GGGTTTGGATTTAAAGGATCTTAGATTTTG
10215076 GGGTTTGGATTTAAAGGAT-TTCAGATTTT
1 GGGTTTGGATTTAAAGGATCTT-AGATTTT
10215105 AAGGGTTTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 2 0.08
30 23 0.92
ACGTcount: A:0.19, C:0.03, G:0.32, T:0.46
Consensus pattern (30 bp):
GGGTTTGGATTTAAAGGATCTTAGATTTTG
Found at i:10216727 original size:20 final size:20
Alignment explanation
Indices: 10216690--10216728 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
10216680 TATCTATATG
* *
10216690 CTTTATAAACAATGTTCTTA
1 CTTTAAAAACAATATTCTTA
*
10216710 CTTTAAAAACATTATTCTT
1 CTTTAAAAACAATATTCTT
10216729 TGGTAATATA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.36, C:0.15, G:0.03, T:0.46
Consensus pattern (20 bp):
CTTTAAAAACAATATTCTTA
Found at i:10229254 original size:32 final size:32
Alignment explanation
Indices: 10229216--10229277 Score: 106
Period size: 32 Copynumber: 1.9 Consensus size: 32
10229206 AGCTTTTGGT
*
10229216 TTTTTCATGTTGTCAAAGAGTTGAACAATGGG
1 TTTTTCATGTTGGCAAAGAGTTGAACAATGGG
*
10229248 TTTTTCATGTTGGCAATGAGTTGAACAATG
1 TTTTTCATGTTGGCAAAGAGTTGAACAATG
10229278 AAAATAGATG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.27, C:0.10, G:0.24, T:0.39
Consensus pattern (32 bp):
TTTTTCATGTTGGCAAAGAGTTGAACAATGGG
Found at i:10233553 original size:9 final size:10
Alignment explanation
Indices: 10233536--10233580 Score: 58
Period size: 9 Copynumber: 4.7 Consensus size: 10
10233526 TTTATTTTAT
10233536 TTTATAAAAA
1 TTTATAAAAA
10233546 TTTA-AAAAA
1 TTTATAAAAA
*
10233555 TATATAAAAA
1 TTTATAAAAA
10233565 TTTA-AAAAA
1 TTTATAAAAA
*
10233574 TATATAA
1 TTTATAA
10233581 TTGGATTCAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
9 16 0.53
10 14 0.47
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (10 bp):
TTTATAAAAA
Found at i:10233562 original size:19 final size:19
Alignment explanation
Indices: 10233538--10233580 Score: 86
Period size: 19 Copynumber: 2.3 Consensus size: 19
10233528 TATTTTATTT
10233538 TATAAAAATTTAAAAAATA
1 TATAAAAATTTAAAAAATA
10233557 TATAAAAATTTAAAAAATA
1 TATAAAAATTTAAAAAATA
10233576 TATAA
1 TATAA
10233581 TTGGATTCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (19 bp):
TATAAAAATTTAAAAAATA
Found at i:10238575 original size:6 final size:6
Alignment explanation
Indices: 10238533--10238574 Score: 57
Period size: 6 Copynumber: 7.0 Consensus size: 6
10238523 CAATAAGCCT
* * *
10238533 GCAAAA GTAAAA GTAAAA GCAAAA GCAAAA GCAAAA ACAAAA
1 GCAAAA GCAAAA GCAAAA GCAAAA GCAAAA GCAAAA GCAAAA
10238575 AATAAAACTC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.69, C:0.12, G:0.14, T:0.05
Consensus pattern (6 bp):
GCAAAA
Found at i:10239341 original size:20 final size:20
Alignment explanation
Indices: 10239316--10239356 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
10239306 TGTATTTGAC
*
10239316 TTTTGATAATTT-TTTTGTTG
1 TTTTGAT-ATTTATATTGTTG
10239336 TTTTGATATTTATATTGTTG
1 TTTTGATATTTATATTGTTG
10239356 T
1 T
10239357 CAATTCTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.17, C:0.00, G:0.15, T:0.68
Consensus pattern (20 bp):
TTTTGATATTTATATTGTTG
Found at i:10240875 original size:10 final size:10
Alignment explanation
Indices: 10240857--10240899 Score: 52
Period size: 10 Copynumber: 4.3 Consensus size: 10
10240847 GTTGACACCA
10240857 TTTTATTTTT-
1 TTTT-TTTTTC
* *
10240867 TTTTCTTTTA
1 TTTTTTTTTC
10240877 TTTTTTTTTC
1 TTTTTTTTTC
10240887 TTTTTTTTTC
1 TTTTTTTTTC
10240897 TTT
1 TTT
10240900 CTGCCAGTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
9 4 0.14
10 25 0.86
ACGTcount: A:0.05, C:0.07, G:0.00, T:0.88
Consensus pattern (10 bp):
TTTTTTTTTC
Found at i:10240877 original size:15 final size:15
Alignment explanation
Indices: 10240857--10240901 Score: 74
Period size: 15 Copynumber: 3.1 Consensus size: 15
10240847 GTTGACACCA
10240857 TTTTATTTTTTTTTC
1 TTTTATTTTTTTTTC
10240872 TTTTATTTTTTTTTC
1 TTTTATTTTTTTTTC
*
10240887 TTTT-TTTTTCTTTC
1 TTTTATTTTTTTTTC
10240901 T
1 T
10240902 GCCAGTTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
14 10 0.34
15 19 0.66
ACGTcount: A:0.04, C:0.09, G:0.00, T:0.87
Consensus pattern (15 bp):
TTTTATTTTTTTTTC
Found at i:10241850 original size:13 final size:14
Alignment explanation
Indices: 10241826--10241852 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
10241816 CTGGTTCAGG
10241826 TAAAATTTTTTTTT
1 TAAAATTTTTTTTT
10241840 TAAAATTTTTTTT
1 TAAAATTTTTTTT
10241853 AATATTAGTT
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:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (14 bp):
TAAAATTTTTTTTT
Found at i:10252309 original size:13 final size:13
Alignment explanation
Indices: 10252291--10252316 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
10252281 AAAGGGGTCG
10252291 AGATTAAGTACTC
1 AGATTAAGTACTC
10252304 AGATTAAGTACTC
1 AGATTAAGTACTC
10252317 TTAAGATGTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
AGATTAAGTACTC
Found at i:10254318 original size:48 final size:46
Alignment explanation
Indices: 10254260--10255176 Score: 638
Period size: 48 Copynumber: 19.8 Consensus size: 46
10254250 ATATGATTTT
*
10254260 TTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGTTTTTTCAAGATGGAA
1 TTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCTTTTTCAAGAT--AA
** *
10254308 TTTTAAAGTTGTTGAGCCTCTACTGAGATGAGCTTTTTCAAGATGAA
1 TTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCTTTTTCAAGAT-AA
* * **
10254355 TTTTAAAGTTGTTGAGCCTTTACTT-A-AAAAGCTTTTTCAAGATGAAA
1 TTTTAAAGTTGTTGAGCCTCT-GTTGAGAGGAGCTTTTTCAAGAT--AA
* *
10254402 TTTTAAAGTTGTTGAGCCTCTGCTGAAAGGAGCTTTTTCAAGATGAA
1 TTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCTTTTTCAAGAT-AA
* * * *
10254449 TTTTTAAAGTTGTTAAGCCTCTGTTGAGAGGAACATTTTCAAGA-AT
1 -TTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCTTTTTCAAGATAA
* * * * * * * *
10254495 TTTTAAAATTGTAGAGCTTTTGCTGATATGAG-TATTTTCAAGA-AT
1 TTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCT-TTTTCAAGATAA
** ** * * *
10254540 TTTTAAAGTTACTGAGCCTCTACT-A-AGGAACATTTTCAAGA-AT
1 TTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCTTTTTCAAGATAA
* * * *
10254583 TTTTAAAGTTATTGAGCCTCTGCTGAGAGGAGCATTTTCAAGA-AT
1 TTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCTTTTTCAAGATAA
* * *
10254628 TTTTAAAGTTGTAGAGCCTCTACTT-AGAGGAGCTTTTTCAAAATAAA
1 TTTTAAAGTTGTTGAGCCTCT-GTTGAGAGGAGCTTTTTCAAGAT-AA
* * * *
10254675 TTTTTAAAATTGTTAAGCCACTGCTT-AGAGGAGCTTTTCCAAGATGAA
1 -TTTTAAAGTTGTTGAGCCTCTG-TTGAGAGGAGCTTTTTCAAGAT-AA
* * * * * *
10254723 TATTTAAAGTTGTTGAGCCTTTGCTGAAATGAGCATTTTCAAGA-AT
1 T-TTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCTTTTTCAAGATAA
* * *
10254769 TTTTAAAGTTGTGGAGCCTCTGTTGAGAGGACCATTTTCAAG--AA
1 TTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCTTTTTCAAGATAA
* * * * **
10254813 TTTATAAAGTTATAGAGTCTCTGCTT-AGAAGAGCTTTACCAAGATGAA
1 TTT-TAAAGTTGTTGAGCCTCTG-TTGAGAGGAGCTTTTTCAAGAT-AA
* * *
10254861 TTTTTAAAGTTGTTGAGCCTCTGCTAAGAGGAGCTTTTCCAAGATGAA
1 -TTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCTTTTTCAAGAT-AA
* * * * * *
10254909 TTTTTAAAGTTGTTGAACTTCTGCTGAGATGAGCATTTTCAAGA-AT
1 -TTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCTTTTTCAAGATAA
* ** * * * *
10254955 TTTTAAAGTTGTGGAGTTTTTGCTT-AGAAGAGCTTTTTTAAAATAAA
1 TTTTAAAGTTGTTGAGCCTCTG-TTGAGAGGAGCTTTTTCAAGAT-AA
* * * *
10255002 TTTTTAAAGTTGTTGAGCCTCTACTT-AGAGGAGTTTTTTTAATATCAA
1 -TTTTAAAGTTGTTGAGCCTCT-GTTGAGAGGAGCTTTTTCAAGAT-AA
* *
10255050 TTTCTAAAGTTGTTGAGCCTCTGTTGAGATGAGCATTTTCAA-A-AA
1 TTT-TAAAGTTGTTGAGCCTCTGTTGAGAGGAGCTTTTTCAAGATAA
* ** * * * *
10255095 TTTTTAAAGTTGTGGAGCCTCTACTGAGATGAGCATTGTCAAGA-AT
1 -TTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCTTTTTCAAGATAA
* *
10255141 TTTTAAAATTATTGAGCCTCTGATT-AGAGGAG-TTTT
1 TTTTAAAGTTGTTGAGCCTCTG-TTGAGAGGAGCTTTT
10255177 CTAAATTTAA
Statistics
Matches: 701, Mismatches: 135, Indels: 70
0.77 0.15 0.08
Matches are distributed among these distances:
43 36 0.05
44 8 0.01
45 258 0.37
46 30 0.04
47 60 0.09
48 306 0.44
49 3 0.00
ACGTcount: A:0.30, C:0.12, G:0.20, T:0.38
Consensus pattern (46 bp):
TTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCTTTTTCAAGATAA
Found at i:10254586 original size:88 final size:90
Alignment explanation
Indices: 10254308--10255172 Score: 483
Period size: 93 Copynumber: 9.4 Consensus size: 90
10254298 CAAGATGGAA
* * * * * * * *
10254308 TTTTAAAGTTGTTGAGCCTCTACTGAGATGAGCTTTTTCAAGATGAATTTTAAAGTTGTTGAGCC
1 TTTTAAAATTGTAGAGCCTCTGCTGAGAGGAGCATTTTCAAGA--ATTTTTAAAGTTCTAGAGCC
* * * *
10254373 TTTACTTA-A-AAAGCTTTTTCAAGATGAAA
64 TCTACTTAGAGGAA-CATTTTC-A-A-GAAT
* * * * *
10254402 TTTTAAAGTTGTTGAGCCTCTGCTGAAAGGAGCTTTTTCAAGATGAATTTTTAAAGTTGTTA-AG
1 TTTTAAAATTGTAGAGCCTCTGCTGAGAGGAGCATTTTC-A-A-GAATTTTTAAAGTT-CTAGAG
*
10254466 CCTCT-GTTGAGAGGAACATTTTCAAGAAT
62 CCTCTACTT-AGAGGAACATTTTCAAGAAT
* * * * *
10254495 TTTTAAAATTGTAGAGCTTTTGCTGATATGAGTATTTTCAAGAATTTTTAAAGTTACT-GAGCCT
1 TTTTAAAATTGTAGAGCCTCTGCTGAGAGGAGCATTTTCAAGAATTTTTAAAGTT-CTAGAGCCT
10254559 CTAC-TA-AGGAACATTTTCAAGAAT
65 CTACTTAGAGGAACATTTTCAAGAAT
* * * *
10254583 TTTTAAAGTTATTGAGCCTCTGCTGAGAGGAGCATTTTCAAGAATTTTTAAAGTTGTAGAGCCTC
1 TTTTAAAATTGTAGAGCCTCTGCTGAGAGGAGCATTTTCAAGAATTTTTAAAGTTCTAGAGCCTC
* * *
10254648 TACTTAGAGGAGCTTTTTCAAAATAAAT
66 TACTTAGAGGAACATTTTC--AA-GAAT
* * * * *
10254676 TTTTAAAATTGTTA-AGCCACTGCTTAGAGGAGC-TTTTCCAAGATGAATATTTAAAGTTGTTGA
1 TTTTAAAATTG-TAGAGCCTCTGCTGAGAGGAGCATTTT-C-A-A-GAATTTTTAAAGTTCTAGA
* * * * * *
10254739 GCCTTTGCTGAAATGAGCATTTTCAAGAAT
61 GCCTCTACTTAGAGGAACATTTTCAAGAAT
* * * * * * *
10254769 TTTTAAAGTTGTGGAGCCTCTGTTGAGAGGACCATTTTCAAGAATTTATAAAGTTATAGAGTCTC
1 TTTTAAAATTGTAGAGCCTCTGCTGAGAGGAGCATTTTCAAGAATTTTTAAAGTTCTAGAGCCTC
* * * *
10254834 TGCTTAGAAGAGC-TTTACCAAGATGAAT
66 TACTTAGAGGAACATTT-TC-A-A-GAAT
* * * * * *
10254862 TTTTAAAGTTGTTGAGCCTCTGCTAAGAGGAGC-TTTTCCAAGATGAATTTTTAAAGTTGTTGAA
1 TTTTAAAATTGTAGAGCCTCTGCTGAGAGGAGCATTTT-C-A-A-GAATTTTTAAAGTTCTAGAG
* * * * *
10254926 CTTCTGCTGAGATGAGCATTTTCAAGAAT
62 CCTCTACTTAGAGGAACATTTTCAAGAAT
* * ** * * * * * * * *
10254955 TTTTAAAGTTGTGGAGTTTTTGCTTAGAAGAGCTTTTTTAAAATAAATTTTTAAAGTTGTTGAGC
1 TTTTAAAATTGTAGAGCCTCTGCTGAGAGGAGC-ATTTT-CAA-GAATTTTTAAAGTTCTAGAGC
*** * *
10255020 CTCTACTTAGAGGAGTTTTTTTAATATCAAT
63 CTCTACTTAGAGGA-ACATTTTCA-A-GAAT
* * * * * * * *
10255051 TTCTAAAGTTGTTGAGCCTCTGTTGAGATGAGCATTTTCAAAAATTTTTAAAGTTGTGGAGCCTC
1 TTTTAAAATTGTAGAGCCTCTGCTGAGAGGAGCATTTTCAAGAATTTTTAAAGTTCTAGAGCCTC
* * * *
10255116 TACTGAGATGAGCATTGTCAAGAAT
66 TACTTAGAGGAACATTTTCAAGAAT
* * * *
10255141 TTTTAAAATTATTGAGCCTCTGATTAGAGGAG
1 TTTTAAAATTGTAGAGCCTCTGCTGAGAGGAG
10255173 TTTTCTAAAT
Statistics
Matches: 614, Mismatches: 121, Indels: 76
0.76 0.15 0.09
Matches are distributed among these distances:
87 1 0.00
88 75 0.12
89 6 0.01
90 91 0.15
91 4 0.01
92 18 0.03
93 221 0.36
94 57 0.09
95 32 0.05
96 102 0.17
97 7 0.01
ACGTcount: A:0.30, C:0.12, G:0.20, T:0.38
Consensus pattern (90 bp):
TTTTAAAATTGTAGAGCCTCTGCTGAGAGGAGCATTTTCAAGAATTTTTAAAGTTCTAGAGCCTC
TACTTAGAGGAACATTTTCAAGAAT
Found at i:10254589 original size:43 final size:45
Alignment explanation
Indices: 10254308--10255161 Score: 276
Period size: 45 Copynumber: 18.5 Consensus size: 45
10254298 CAAGATGGAA
** * * * *
10254308 TTTTAAAGTTGTTGAGCCTCTACTGAGATGAGCTTTTTCAAGATGAA
1 TTTTAAAGTTACTGAGCCTCTACTGAGAGGAACATTTTCAAGA--AT
** * * * * *
10254355 TTTTAAAGTTGTTGAGCCTTTACTTA-A-AAAGCTTTTTCAAGATGAAA
1 TTTTAAAGTTACTGAGCCTCTACTGAGAGGAA-CATTTTC-A-A-GAAT
** * * * *
10254402 TTTTAAAGTTGTTGAGCCTCTGCTGAAAGGAGCTTTTTCAAGATGAAT
1 TTTTAAAGTTACTGAGCCTCTACTGAGAGGAACATTTTC-A-A-GAAT
** * **
10254450 TTTTAAAGTTGTTAAGCCTCTGTTGAGAGGAACATTTTCAAGAAT
1 TTTTAAAGTTACTGAGCCTCTACTGAGAGGAACATTTTCAAGAAT
* * * * * * * **
10254495 TTTTAAAATT-GTAGAGCTTTTGCTGATATGAGTATTTTCAAGAAT
1 TTTTAAAGTTACT-GAGCCTCTACTGAGAGGAACATTTTCAAGAAT
10254540 TTTTAAAGTTACTGAGCCTCTACT-A-AGGAACATTTTCAAGAAT
1 TTTTAAAGTTACTGAGCCTCTACTGAGAGGAACATTTTCAAGAAT
* * *
10254583 TTTTAAAGTTATTGAGCCTCTGCTGAGAGGAGCATTTTCAAGAAT
1 TTTTAAAGTTACTGAGCCTCTACTGAGAGGAACATTTTCAAGAAT
* * * * *
10254628 TTTTAAAGTT-GTAGAGCCTCTACTTAGAGGAGCTTTTTCAAAATAAAT
1 TTTTAAAGTTACT-GAGCCTCTACTGAGAGGAACATTTTC--AA-GAAT
* ** * * * * *
10254676 TTTTAAAATTGTTAAGCCACTGCTTAGAGGAGC-TTTTCCAAGATGAAT
1 TTTTAAAGTTACTGAGCCTCTACTGAGAGGAACATTTT-C-A-A-GAAT
* ** * * * * *
10254724 ATTTAAAGTTGTTGAGCCTTTGCTGAAATGAGCATTTTCAAGAAT
1 TTTTAAAGTTACTGAGCCTCTACTGAGAGGAACATTTTCAAGAAT
* ** *
10254769 TTTTAAAGTT-GTGGAGCCTCTGTTGAGAGGACCATTTTCAAGAAT
1 TTTTAAAGTTACT-GAGCCTCTACTGAGAGGAACATTTTCAAGAAT
* * * * * * *
10254814 TTATAAAGTTA-TAGAGTCTCTGCTTAGAAGAGC-TTTACCAAGATGAAT
1 TTTTAAAGTTACT-GAGCCTCTACTGAGAGGAACATTT-TC-A-A-GAAT
** * * *
10254862 TTTTAAAGTTGTTGAGCCTCTGCTAAGAGGAGC-TTTTCCAAGATGAAT
1 TTTTAAAGTTACTGAGCCTCTACTGAGAGGAACATTTT-C-A-A-GAAT
** * * * * *
10254910 TTTTAAAGTTGTTGAACTTCTGCTGAGATGAGCATTTTCAAGAAT
1 TTTTAAAGTTACTGAGCCTCTACTGAGAGGAACATTTTCAAGAAT
* ** * * * * * * * *
10254955 TTTTAAAGTT-GTGGAGTTTTTGCTTAGAAGAGCTTTTTTAAAATAAAT
1 TTTTAAAGTTACT-GAGCCTCTACTGAGAGGAAC-ATTTT-CAA-GAAT
** * *** * *
10255003 TTTTAAAGTTGTTGAGCCTCTACTTAGAGGAGTTTTTTTAATATCAAT
1 TTTTAAAGTTACTGAGCCTCTACTGAGAGGA-ACATTTTCA-A-GAAT
* ** ** * * *
10255051 TTCTAAAGTTGTTGAGCCTCTGTTGAGATGAGCATTTTCAAAAAT
1 TTTTAAAGTTACTGAGCCTCTACTGAGAGGAACATTTTCAAGAAT
* * * *
10255096 TTTTAAAGTT-GTGGAGCCTCTACTGAGATGAGCATTGTCAAGAAT
1 TTTTAAAGTTACT-GAGCCTCTACTGAGAGGAACATTTTCAAGAAT
* *
10255141 TTTTAAAATTATTGAGCCTCT
1 TTTTAAAGTTACTGAGCCTCT
10255162 GATTAGAGGA
Statistics
Matches: 655, Mismatches: 116, Indels: 74
0.78 0.14 0.09
Matches are distributed among these distances:
43 37 0.06
44 10 0.02
45 257 0.39
46 19 0.03
47 71 0.11
48 247 0.38
49 14 0.02
ACGTcount: A:0.30, C:0.12, G:0.19, T:0.38
Consensus pattern (45 bp):
TTTTAAAGTTACTGAGCCTCTACTGAGAGGAACATTTTCAAGAAT
Found at i:10254979 original size:141 final size:138
Alignment explanation
Indices: 10254259--10255172 Score: 803
Period size: 141 Copynumber: 6.6 Consensus size: 138
10254249 CATATGATTT
* * *
10254259 TTTTTAAAGTTGTTGAGCCTCTG-TTGAGAGGAGTTTTTTCAAGATGGAA-TTTTAAAGTTGTTG
1 TTTTTAAAGTTGTGGAGCCTCTGCTT-AGAAGAGCTTTTTCAAGAT-GAATTTTTAAAGTTGTTG
* * * * * * * **
10254322 AGCCTCTACTGAGATGAGCTTTTTCAAGATGAATTTTAAAGTTGTTGAGCCTTTACTTA-AAAAG
64 AGCCTCTGCTGAGAGGAGCATTTTCAAGA--ATTTTTAAAGTTGTTGAGCCTCTGCTGAGATGAG
*
10254386 CTTTTTCAAGATGAA
127 CATTTTC-A-A-GAA
* * * *
10254401 ATTTTAAAGTTGTTGAGCCTCTGCTGA-AAGGAGCTTTTTCAAGATGAATTTTTAAAGTTGTTAA
1 TTTTTAAAGTTGTGGAGCCTCTGCTTAGAA-GAGCTTTTTCAAGATGAATTTTTAAAGTTGTTGA
* * * * * * * *
10254465 GCCTCTGTTGAGAGGAACATTTTCAAGAATTTTTAAAATTGTAGAGCTTTTGCTGATATGAGTAT
65 GCCTCTGCTGAGAGGAGCATTTTCAAGAATTTTTAAAGTTGTTGAGCCTCTGCTGAGATGAGCAT
10254530 TTTCAAGAA
130 TTTCAAGAA
* * * * * *
10254539 TTTTTAAAGTTACT-GAGCCTCTAC-TA-AGGAACATTTTC-A-A-GAATTTTTAAAGTTATTGA
1 TTTTTAAAGTT-GTGGAGCCTCTGCTTAGAAGAGCTTTTTCAAGATGAATTTTTAAAGTTGTTGA
* * * * *
10254598 GCCTCTGCTGAGAGGAGCATTTTCAAGAATTTTTAAAGTTGTAGAGCCTCTACTTAGAGGAGCTT
65 GCCTCTGCTGAGAGGAGCATTTTCAAGAATTTTTAAAGTTGTTGAGCCTCTGCTGAGATGAGCAT
*
10254663 TTTCAAAATAAA
130 TTTC--AA-GAA
* ** * * * *
10254675 TTTTTAAAATTGTTAAGCCACTGCTTAGAGGAGCTTTTCCAAGATGAATATTTAAAGTTGTTGAG
1 TTTTTAAAGTTGTGGAGCCTCTGCTTAGAAGAGCTTTTTCAAGATGAATTTTTAAAGTTGTTGAG
* * * * * * *
10254740 CCTTTGCTGAAATGAGCATTTTCAAGAATTTTTAAAGTTGTGGAGCCTCTGTTGAGAGGACCATT
66 CCTCTGCTGAGAGGAGCATTTTCAAGAATTTTTAAAGTTGTTGAGCCTCTGCTGAGATGAGCATT
10254805 TTCAAGAA
131 TTCAAGAA
* * * * **
10254813 TTTATAAAGTTATAGAGTCTCTGCTTAGAAGAGCTTTACCAAGATGAATTTTTAAAGTTGTTGAG
1 TTTTTAAAGTTGTGGAGCCTCTGCTTAGAAGAGCTTTTTCAAGATGAATTTTTAAAGTTGTTGAG
* * *
10254878 CCTCTGCTAAGAGGAGC-TTTTCCAAGATGAATTTTTAAAGTTGTTGAACTTCTGCTGAGATGAG
66 CCTCTGCTGAGAGGAGCATTTT-C-A-A-GAATTTTTAAAGTTGTTGAGCCTCTGCTGAGATGAG
10254942 CATTTTCAAGAA
127 CATTTTCAAGAA
** * * * *
10254954 TTTTTAAAGTTGTGGAGTTTTTGCTTAGAAGAGCTTTTTTAAAATAAATTTTTAAAGTTGTTGAG
1 TTTTTAAAGTTGTGGAGCCTCTGCTTAGAAGAGCTTTTTCAAGATGAATTTTTAAAGTTGTTGAG
* * ** * * * *
10255019 CCTCTACTTAGAGGAGTTTTTTTAATATCAATTTCTAAAGTTGTTGAGCCTCTGTTGAGATGAGC
66 CCTCTGCTGAGAGGAG-CATTTTCA-A-GAATTTTTAAAGTTGTTGAGCCTCTGCTGAGATGAGC
*
10255084 ATTTTCAAAAA
128 ATTTTCAAGAA
* * * * * * *
10255095 TTTTTAAAGTTGTGGAGCCTCTACTGAGATGAGCATTGTC-A-A-GAATTTTTAAAATTATTGAG
1 TTTTTAAAGTTGTGGAGCCTCTGCTTAGAAGAGCTTTTTCAAGATGAATTTTTAAAGTTGTTGAG
* *
10255157 CCTCTGATTAGAGGAG
66 CCTCTGCTGAGAGGAG
10255173 TTTTCTAAAT
Statistics
Matches: 636, Mismatches: 116, Indels: 44
0.80 0.15 0.06
Matches are distributed among these distances:
133 75 0.12
134 1 0.00
135 4 0.01
136 27 0.04
137 8 0.01
138 133 0.21
139 7 0.01
140 26 0.04
141 276 0.43
142 74 0.12
143 5 0.01
ACGTcount: A:0.30, C:0.12, G:0.20, T:0.38
Consensus pattern (138 bp):
TTTTTAAAGTTGTGGAGCCTCTGCTTAGAAGAGCTTTTTCAAGATGAATTTTTAAAGTTGTTGAG
CCTCTGCTGAGAGGAGCATTTTCAAGAATTTTTAAAGTTGTTGAGCCTCTGCTGAGATGAGCATT
TTCAAGAA
Found at i:10255339 original size:10 final size:10
Alignment explanation
Indices: 10255324--10255354 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
10255314 TATTAATTTA
10255324 TTTTTCTTTT
1 TTTTTCTTTT
10255334 TTTTTCTTTT
1 TTTTTCTTTT
*
10255344 TTCTTCTTTT
1 TTTTTCTTTT
10255354 T
1 T
10255355 ACCAACTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (10 bp):
TTTTTCTTTT
Found at i:10256475 original size:16 final size:15
Alignment explanation
Indices: 10256454--10256483 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
10256444 AAGTATAATT
10256454 AAATAAAAATAAAAAA
1 AAATAAAAA-AAAAAA
10256470 AAATAAAAAAAAAA
1 AAATAAAAAAAAAA
10256484 TTTTATCCGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.90, C:0.00, G:0.00, T:0.10
Consensus pattern (15 bp):
AAATAAAAAAAAAAA
Found at i:10256484 original size:11 final size:10
Alignment explanation
Indices: 10256453--10256482 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
10256443 TAAGTATAAT
*
10256453 TAAATAAAAA
1 TAAAAAAAAA
10256463 TAAAAAAAAA
1 TAAAAAAAAA
10256473 TAAAAAAAAA
1 TAAAAAAAAA
10256483 ATTTTATCCG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (10 bp):
TAAAAAAAAA
Found at i:10256668 original size:18 final size:18
Alignment explanation
Indices: 10256627--10256672 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
10256617 TTTCTTTAAT
* *
10256627 AATAAAAAAATAAAATTA
1 AATAATAAAATAAAAATA
* *
10256645 ATTAATAAATTAAAAATA
1 AATAATAAAATAAAAATA
10256663 AATAATAAAA
1 AATAATAAAA
10256673 ATGAGAAAAA
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (18 bp):
AATAATAAAATAAAAATA
Found at i:10260335 original size:59 final size:58
Alignment explanation
Indices: 10260214--10260398 Score: 232
Period size: 59 Copynumber: 3.1 Consensus size: 58
10260204 GCTTTTGTAC
* * * *
10260214 AAGAAAAATTGATACTTTCAACTTTTTCCT-AAAATGTTTTTCTTGATAATTTTTATTTTT
1 AAGAAAAATTGATACTTTCAAC-TTTTCCTCAAAATATTTTT-TTTA-AAATTTTAATTTT
*
10260274 AAGAAAAATTGGTA-TTTCCAACTTTTCCTCAAAATATTTTTTTCTAAAATTTTAATTTT
1 AAGAAAAATTGATACTTT-CAACTTTTCCTCAAAATATTTTTTT-TAAAATTTTAATTTT
10260333 AAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATATTTTTTTAAAATTTT-ATTTT
1 AAGAAAAATTGATACTTTCAACTTTTCCTC-AAAATAT-TTTTTTTAAAATTTTAATTTT
*
10260392 AGGAAAA
1 AAGAAAA
10260399 TCATTAAAAA
Statistics
Matches: 112, Mismatches: 7, Indels: 13
0.85 0.05 0.10
Matches are distributed among these distances:
59 59 0.53
60 47 0.42
61 6 0.05
ACGTcount: A:0.37, C:0.10, G:0.06, T:0.47
Consensus pattern (58 bp):
AAGAAAAATTGATACTTTCAACTTTTCCTCAAAATATTTTTTTTAAAATTTTAATTTT
Found at i:10260479 original size:3 final size:3
Alignment explanation
Indices: 10260471--10260537 Score: 109
Period size: 3 Copynumber: 22.7 Consensus size: 3
10260461 CTAATTTAGA
*
10260471 AAT AAT AAT AAT GAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
10260519 AAT ATT AAT AAT AA- AAT AA
1 AAT AAT AAT AAT AAT AAT AA
10260538 ATGAAAAAAA
Statistics
Matches: 59, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
2 2 0.03
3 57 0.97
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:10261471 original size:25 final size:25
Alignment explanation
Indices: 10261425--10261472 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
10261415 AAATGAACTA
* *
10261425 AAAAAATCAAAGATAGATATAAACC
1 AAAAAATCAAAAATAGAAATAAACC
10261450 AAAAAATCATAAAATA-AAATAAA
1 AAAAAATCA-AAAATAGAAATAAA
10261473 AATGAAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 15 0.75
26 5 0.25
ACGTcount: A:0.71, C:0.08, G:0.04, T:0.17
Consensus pattern (25 bp):
AAAAAATCAAAAATAGAAATAAACC
Found at i:10261802 original size:42 final size:42
Alignment explanation
Indices: 10261702--10261871 Score: 152
Period size: 40 Copynumber: 4.1 Consensus size: 42
10261692 TTTATTAAAC
* * * *
10261702 AAAGCTTCTCTAAACAAAGGC-TCAACAACTTTTA-AAAAAAA
1 AAAGCTCCTCTAAACAGAGGCAT-AACAACTTTGAGAAAAATA
* * * * *
10261743 ATAACGCTCTTTTAAACAGAGGCTTAACGATTTTGAGAAAAATA
1 A-AA-GCTCCTCTAAACAGAGGCATAACAACTTTGAGAAAAATA
* * *
10261787 AATGCTCCTCTAAACAGAGGCACAATAACTTT--GAAAAATA
1 AAAGCTCCTCTAAACAGAGGCATAACAACTTTGAGAAAAATA
* *
10261827 AAAGCTCCTCTAAATAGAGGCATCACAACTTTGA-AAAAATA
1 AAAGCTCCTCTAAACAGAGGCATAACAACTTTGAGAAAAATA
10261868 AAAG
1 AAAG
10261872 GCTCTTTGAC
Statistics
Matches: 102, Mismatches: 21, Indels: 12
0.76 0.16 0.09
Matches are distributed among these distances:
40 35 0.34
41 12 0.12
42 24 0.24
43 23 0.23
44 8 0.08
ACGTcount: A:0.46, C:0.18, G:0.12, T:0.24
Consensus pattern (42 bp):
AAAGCTCCTCTAAACAGAGGCATAACAACTTTGAGAAAAATA
Found at i:10262273 original size:44 final size:44
Alignment explanation
Indices: 10262182--10262265 Score: 100
Period size: 44 Copynumber: 2.0 Consensus size: 44
10262172 ATCTTGTTCG
* * * *
10262182 AGTTCAAAGGTTCACATTCAAGAAATCTTAGAGTTTTACATCTA
1 AGTTCAAAGGTTCACACTCAAGAAATCTTAGAGATTCACATCAA
* *
10262226 AGTTCAAAGGTTCTCACTCAA-AAAT-TTAGAGATTCGCATC
1 AGTTCAAAGGTTCACACTCAAGAAATCTTAGAGATTCACATC
10262266 CAAAAGTTGA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
42 12 0.34
43 4 0.11
44 19 0.54
ACGTcount: A:0.36, C:0.18, G:0.14, T:0.32
Consensus pattern (44 bp):
AGTTCAAAGGTTCACACTCAAGAAATCTTAGAGATTCACATCAA
Found at i:10262427 original size:79 final size:81
Alignment explanation
Indices: 10262303--10262468 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 81
10262293 TGAATTTTAG
* * *
10262303 AGATTCACATCCAAGAAATCTTAGGGTTTCACATCTCAAATATTCTCATTTAAAATTCAAAGATT
1 AGATTCACATCCAACAAATCTTAGGGTTTCACACCTCAAAGATTCTCATTTAAAATTCAAAGATT
*
10262368 ATCATTTG-AATTCGA
66 ATCATTTGAAATTCAA
* * * * * * *
10262383 AGATTCACATTCGACAAAT-TTTGGGTTTCACACCTTAAAGATTCTTATTTGAAATTCAAATATT
1 AGATTCACATCCAACAAATCTTAGGGTTTCACACCTCAAAGATTCTCATTTAAAATTCAAAGATT
*
10262447 CTCATTTGAAATTCAA
66 ATCATTTGAAATTCAA
10262463 AGATTC
1 AGATTC
10262469 TTATTTGAAT
Statistics
Matches: 73, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
79 45 0.62
80 28 0.38
ACGTcount: A:0.36, C:0.17, G:0.10, T:0.37
Consensus pattern (81 bp):
AGATTCACATCCAACAAATCTTAGGGTTTCACACCTCAAAGATTCTCATTTAAAATTCAAAGATT
ATCATTTGAAATTCAA
Found at i:10262475 original size:100 final size:100
Alignment explanation
Indices: 10262338--10262542 Score: 347
Period size: 100 Copynumber: 2.0 Consensus size: 100
10262328 GTTTCACATC
10262338 TCAAATATTCTCATTTAAAATTCAAAGATTATCATTTGAATTCGAAGATTCACATTCGACAAATT
1 TCAAATATTCTCATTTAAAATTCAAAGATTATCATTTGAATTCGAAGATTCACATTCGACAAATT
* *
10262403 TTGGGTTTCACACCTTAAAGATTCTTATTTGAAAT
66 TTGGGTTTCACACCTCAAAGATTCTCATTTGAAAT
* * * * *
10262438 TCAAATATTCTCATTTGAAATTCAAAGATTCTTATTTGAATTCGAAGATTCACATTTGATAAATT
1 TCAAATATTCTCATTTAAAATTCAAAGATTATCATTTGAATTCGAAGATTCACATTCGACAAATT
10262503 TTGGGTTTCACACCTCAAAGATTCTCATTTGAAAT
66 TTGGGTTTCACACCTCAAAGATTCTCATTTGAAAT
10262538 TCAAA
1 TCAAA
10262543 GATCGAAGGT
Statistics
Matches: 98, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
100 98 1.00
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.39
Consensus pattern (100 bp):
TCAAATATTCTCATTTAAAATTCAAAGATTATCATTTGAATTCGAAGATTCACATTCGACAAATT
TTGGGTTTCACACCTCAAAGATTCTCATTTGAAAT
Found at i:10262494 original size:20 final size:21
Alignment explanation
Indices: 10262419--10262496 Score: 104
Period size: 21 Copynumber: 3.8 Consensus size: 21
10262409 TTCACACCTT
*
10262419 AAAGATTCTTATTTGAAATTC
1 AAAGATTCTCATTTGAAATTC
*
10262440 AAATATTCTCATTTGAAATTC
1 AAAGATTCTCATTTGAAATTC
*
10262461 AAAGATTCTTATTTG-AATTC
1 AAAGATTCTCATTTGAAATTC
* *
10262481 GAAGATTCACATTTGA
1 AAAGATTCTCATTTGA
10262497 TAAATTTTGG
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
20 17 0.35
21 32 0.65
ACGTcount: A:0.37, C:0.12, G:0.10, T:0.41
Consensus pattern (21 bp):
AAAGATTCTCATTTGAAATTC
Found at i:10262556 original size:66 final size:66
Alignment explanation
Indices: 10262479--10262677 Score: 299
Period size: 66 Copynumber: 3.0 Consensus size: 66
10262469 TTATTTGAAT
10262479 TCGAAGATTCACATTTGATAAATTTTGGGTTTCACACCTCAAAGATTCTCATTTGAAATTCAAAG
1 TCGAAGATTCACATTTGATAAATTTTGGGTTTCACACCTCAAAGATTCTCATTTGAAATTCAAAG
10262544 A
66 A
* * * * *
10262545 TCGAAGGTTCACATTTGACAATTTTTGGGTTTCACACCTCAAAGATTCTCATTTGAAATTAAAAA
1 TCGAAGATTCACATTTGATAAATTTTGGGTTTCACACCTCAAAGATTCTCATTTGAAATTCAAAG
10262610 A
66 A
* * * * * *
10262611 TTGAAGATTCAAATTCGATAAATTTTGGGTTTTACACCTCAAAGATTCTCACTTGAGATTCAAAG
1 TCGAAGATTCACATTTGATAAATTTTGGGTTTCACACCTCAAAGATTCTCATTTGAAATTCAAAG
10262676 A
66 A
10262677 T
1 T
10262678 TCTCACTTGA
Statistics
Matches: 117, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
66 117 1.00
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.35
Consensus pattern (66 bp):
TCGAAGATTCACATTTGATAAATTTTGGGTTTCACACCTCAAAGATTCTCATTTGAAATTCAAAG
A
Found at i:10262675 original size:21 final size:21
Alignment explanation
Indices: 10262649--10262708 Score: 120
Period size: 21 Copynumber: 2.9 Consensus size: 21
10262639 GTTTTACACC
10262649 TCAAAGATTCTCACTTGAGAT
1 TCAAAGATTCTCACTTGAGAT
10262670 TCAAAGATTCTCACTTGAGAT
1 TCAAAGATTCTCACTTGAGAT
10262691 TCAAAGATTCTCACTTGA
1 TCAAAGATTCTCACTTGA
10262709 AAATTCTCAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.33, C:0.20, G:0.13, T:0.33
Consensus pattern (21 bp):
TCAAAGATTCTCACTTGAGAT
Found at i:10262716 original size:14 final size:14
Alignment explanation
Indices: 10262697--10262726 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
10262687 AGATTCAAAG
10262697 ATTCTCACTTGAAA
1 ATTCTCACTTGAAA
*
10262711 ATTCTCATTTGAAA
1 ATTCTCACTTGAAA
10262725 AT
1 AT
10262727 GTTTTAAAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.37, C:0.17, G:0.07, T:0.40
Consensus pattern (14 bp):
ATTCTCACTTGAAA
Found at i:10262756 original size:21 final size:21
Alignment explanation
Indices: 10262732--10262861 Score: 104
Period size: 21 Copynumber: 5.9 Consensus size: 21
10262722 AAAATGTTTT
10262732 AAAGATTCTCATTTAAAACTC
1 AAAGATTCTCATTTAAAACTC
10262753 AAAGATTCTCATTTAAAGACTC
1 AAAGATTCTCATTTAAA-ACTC
*
10262775 --AGATTCTCATTTGAAAATGTCTT
1 AAAGATTCTCATTT-AAAA---CTC
* *
10262798 AAAAATTCTCATTTAAGAA-TA
1 AAAGATTCTCATTTAA-AACTC
* *
10262819 AAAAATTCTCATTTGAAAATTTCTT
1 AAAGATTCTCATTT-AAAA---CTC
10262844 AAAGATTCTCATTTAAAA
1 AAAGATTCTCATTTAAAA
10262862 AAAAAATTAG
Statistics
Matches: 91, Mismatches: 5, Indels: 23
0.76 0.04 0.19
Matches are distributed among these distances:
20 13 0.14
21 37 0.41
22 6 0.07
23 2 0.02
24 6 0.07
25 27 0.30
ACGTcount: A:0.42, C:0.14, G:0.07, T:0.37
Consensus pattern (21 bp):
AAAGATTCTCATTTAAAACTC
Found at i:10262834 original size:46 final size:44
Alignment explanation
Indices: 10262777--10262869 Score: 150
Period size: 46 Copynumber: 2.1 Consensus size: 44
10262767 AAAGACTCAG
10262777 ATTCTCATTTGAAAATGTCTTAAAAATTCTCATTTAAGAATAAAAA
1 ATTCTCATTTGAAAATGTCTTAAAAATTCTCATTTAA-AA-AAAAA
* *
10262823 ATTCTCATTTGAAAATTTCTTAAAGATTCTCATTTAAAAAAAAA
1 ATTCTCATTTGAAAATGTCTTAAAAATTCTCATTTAAAAAAAAA
10262867 ATT
1 ATT
10262870 AGGATTCTTA
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
44 8 0.18
45 2 0.04
46 35 0.78
ACGTcount: A:0.45, C:0.11, G:0.05, T:0.39
Consensus pattern (44 bp):
ATTCTCATTTGAAAATGTCTTAAAAATTCTCATTTAAAAAAAAA
Found at i:10264883 original size:19 final size:20
Alignment explanation
Indices: 10264859--10264909 Score: 59
Period size: 23 Copynumber: 2.5 Consensus size: 20
10264849 GATAACAAAT
10264859 GAAATCCTATTGC-ATAAAA
1 GAAATCCTATTGCTATAAAA
*
10264878 GAAATCCTAACATTGCTTTAAAA
1 GAAATCCT---ATTGCTATAAAA
10264901 GAAATCCTA
1 GAAATCCTA
10264910 AAATGACACG
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
19 8 0.30
20 1 0.04
22 5 0.19
23 13 0.48
ACGTcount: A:0.45, C:0.18, G:0.10, T:0.27
Consensus pattern (20 bp):
GAAATCCTATTGCTATAAAA
Found at i:10264892 original size:22 final size:23
Alignment explanation
Indices: 10264867--10264910 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
10264857 ATGAAATCCT
10264867 ATTGC-ATAAAAGAAATCCTAAC
1 ATTGCTATAAAAGAAATCCTAAC
*
10264889 ATTGCTTTAAAAGAAATCCTAA
1 ATTGCTATAAAAGAAATCCTAA
10264911 AATGACACGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 5 0.25
23 15 0.75
ACGTcount: A:0.48, C:0.16, G:0.09, T:0.27
Consensus pattern (23 bp):
ATTGCTATAAAAGAAATCCTAAC
Found at i:10265382 original size:24 final size:24
Alignment explanation
Indices: 10265350--10265402 Score: 88
Period size: 24 Copynumber: 2.2 Consensus size: 24
10265340 CTTGAAAGGT
*
10265350 TGATTGATAAGTTGGTAAGTAGGC
1 TGATTGATAAGTTGGTAAGTAAGC
*
10265374 TGATTGATAAGTTGGTTAGTAAGC
1 TGATTGATAAGTTGGTAAGTAAGC
10265398 TGATT
1 TGATT
10265403 ATGGATATGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.28, C:0.04, G:0.30, T:0.38
Consensus pattern (24 bp):
TGATTGATAAGTTGGTAAGTAAGC
Found at i:10266843 original size:54 final size:55
Alignment explanation
Indices: 10266743--10266852 Score: 152
Period size: 54 Copynumber: 2.0 Consensus size: 55
10266733 ATGTTCATGG
* *
10266743 ATAAAATGAGAATGATGCAAATGATAATGTTAAAACATGATCATGAAAATGATGC
1 ATAAAATGAGAATGATGCAAATGACAATGTTAAAACATGATAATGAAAATGATGC
* * *
10266798 ATAAAATGA-AATGATGCATATGCACAATGTT-ATATATGATAATGAAAATGATGC
1 ATAAAATGAGAATGATGCAAATG-ACAATGTTAAAACATGATAATGAAAATGATGC
10266852 A
1 A
10266853 CAAAGTCAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
54 33 0.67
55 16 0.33
ACGTcount: A:0.48, C:0.07, G:0.17, T:0.27
Consensus pattern (55 bp):
ATAAAATGAGAATGATGCAAATGACAATGTTAAAACATGATAATGAAAATGATGC
Found at i:10267984 original size:60 final size:59
Alignment explanation
Indices: 10267912--10268061 Score: 178
Period size: 61 Copynumber: 2.5 Consensus size: 59
10267902 TTGTACAAGG
* *
10267912 AAAATTGATACTTTCAACTTTTTCCTAAAATGTTTTTCTTGAT-AATTTTTATTTTTAAGA
1 AAAATTGATACTTTCAAC-TTTTCCTAAAATGTTTTTCTTGATGAAATTTTAATTTTAA-A
* * * **
10267972 AAAATTTG-TACTTCCAGCTTTTCCTCAAAATGTTTTTTTTTCTGAAATTTTAATTTTAAAA
1 AAAA-TTGATACTTTCAACTTTTCCT-AAAATGTTTTTCTTGATGAAATTTTAATTTT-AAA
10268033 AAAATTGATACTTTCAACTTTTCCTAAAA
1 AAAATTGATACTTTCAACTTTTCCTAAAA
10268062 AATATATTTT
Statistics
Matches: 76, Mismatches: 9, Indels: 10
0.80 0.09 0.11
Matches are distributed among these distances:
59 7 0.09
60 33 0.43
61 34 0.45
62 2 0.03
ACGTcount: A:0.33, C:0.13, G:0.06, T:0.48
Consensus pattern (59 bp):
AAAATTGATACTTTCAACTTTTCCTAAAATGTTTTTCTTGATGAAATTTTAATTTTAAA
Found at i:10268045 original size:61 final size:60
Alignment explanation
Indices: 10267912--10268061 Score: 187
Period size: 60 Copynumber: 2.5 Consensus size: 60
10267902 TTGTACAAGG
* *
10267912 AAAATTGATACTTTCAACTTTTTCCTAAAATGTTTTTCTTGATAATTTTTATTTTTAAGAA
1 AAAATTGATACTTTCAAC-TTTTCCTAAAATGTTTTTCTTGATAAATTTTAATTTTAAGAA
* * * * **
10267973 AAATTTG-TACTTCCAGCTTTTCCTCAAAATGTTTTTTTTTCTGAAATTTTAATTTTAA-AA
1 AAAATTGATACTTTCAACTTTTCCT-AAAATGTTTTTCTTGAT-AAATTTTAATTTTAAGAA
10268033 AAAATTGATACTTTCAACTTTTCCTAAAA
1 AAAATTGATACTTTCAACTTTTCCTAAAA
10268062 AATATATTTT
Statistics
Matches: 75, Mismatches: 11, Indels: 7
0.81 0.12 0.08
Matches are distributed among these distances:
59 7 0.09
60 34 0.45
61 34 0.45
ACGTcount: A:0.33, C:0.13, G:0.06, T:0.48
Consensus pattern (60 bp):
AAAATTGATACTTTCAACTTTTCCTAAAATGTTTTTCTTGATAAATTTTAATTTTAAGAA
Found at i:10268072 original size:61 final size:59
Alignment explanation
Indices: 10267912--10268094 Score: 169
Period size: 61 Copynumber: 3.0 Consensus size: 59
10267902 TTGTACAAGG
* * * *
10267912 AAAATTGATACTTTCAACTTTTTCCTAAAATGTTTTTCTTGATAATTTTTATTTTTAAGAA
1 AAAATTGATACTTTCAAC-TTTTCCTAAAATATTTTTTTTGAGAA-TTTTAATTTTAAGAA
* * * *
10267973 AAATTTG-TACTTCCAGCTTTTCCTCAAAATGTTTTTTTTTCTGA-AATTTTAATTTTAA-AA
1 AAAATTGATACTTTCAACTTTTCCT-AAAA--TATTTTTTT-TGAGAATTTTAATTTTAAGAA
*
10268033 AAAATTGATACTTTCAACTTTTCCTAAAAAATATATTTTTTT-AGAATTTT-ATTTTAGGAA
1 AAAATTGATACTTTCAACTTTTCCT--AAAATAT-TTTTTTTGAGAATTTTAATTTTAAGAA
10268093 AA
1 AA
10268095 TCATTAAAAA
Statistics
Matches: 101, Mismatches: 12, Indels: 19
0.77 0.09 0.14
Matches are distributed among these distances:
59 14 0.14
60 33 0.33
61 38 0.38
62 13 0.13
63 3 0.03
ACGTcount: A:0.34, C:0.10, G:0.07, T:0.49
Consensus pattern (59 bp):
AAAATTGATACTTTCAACTTTTCCTAAAATATTTTTTTTGAGAATTTTAATTTTAAGAA
Found at i:10268117 original size:5 final size:5
Alignment explanation
Indices: 10268109--10268142 Score: 59
Period size: 5 Copynumber: 6.6 Consensus size: 5
10268099 TAAAAAAGAA
10268109 AAATT AAATT AAATT AAATT AAATT AAAATT AAA
1 AAATT AAATT AAATT AAATT AAATT -AAATT AAA
10268143 AAAAATTAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 23 0.82
6 5 0.18
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (5 bp):
AAATT
Found at i:10268147 original size:10 final size:10
Alignment explanation
Indices: 10268109--10268151 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 10
10268099 TAAAAAAGAA
*
10268109 AAATTAAATT
1 AAATAAAATT
*
10268119 AAATTAAATT
1 AAATAAAATT
10268129 AAATTAAAATT
1 AAA-TAAAATT
*
10268140 AAAAAAAATT
1 AAATAAAATT
10268150 AA
1 AA
10268152 GAAATACCAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
10 21 0.70
11 9 0.30
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (10 bp):
AAATAAAATT
Found at i:10269098 original size:19 final size:20
Alignment explanation
Indices: 10269061--10269099 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
10269051 AAAAAGTAAT
10269061 GATAAATCCAATAAAAAAAA
1 GATAAATCCAATAAAAAAAA
10269081 GATAAAT-CAACTAAAAAAA
1 GATAAATCCAA-TAAAAAAA
10269100 TCAAAGATAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 3 0.17
20 15 0.83
ACGTcount: A:0.69, C:0.10, G:0.05, T:0.15
Consensus pattern (20 bp):
GATAAATCCAATAAAAAAAA
Found at i:10269674 original size:21 final size:21
Alignment explanation
Indices: 10269633--10269674 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
10269623 TTATTATCTA
* * *
10269633 CCTCAAATGTATCCTTGACCT
1 CCTCAAATATATCATTCACCT
10269654 CCTCAAATATATCATTCACCT
1 CCTCAAATATATCATTCACCT
10269675 TAAATGTATC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.33, G:0.05, T:0.33
Consensus pattern (21 bp):
CCTCAAATATATCATTCACCT
Found at i:10269684 original size:18 final size:18
Alignment explanation
Indices: 10269657--10269704 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
10269647 TTGACCTCCT
* *
10269657 CAAATATATCATTCACCT
1 CAAATGTATCATTCACCA
* *
10269675 TAAATGTATCATTTACCA
1 CAAATGTATCATTCACCA
10269693 CAAATGTATCAT
1 CAAATGTATCAT
10269705 CCTCAAATAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.40, C:0.21, G:0.04, T:0.35
Consensus pattern (18 bp):
CAAATGTATCATTCACCA
Found at i:10273336 original size:15 final size:15
Alignment explanation
Indices: 10273316--10273346 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
10273306 GAGGAAATTT
*
10273316 TGTATTTATAGTTGA
1 TGTATTTATAGGTGA
10273331 TGTATTTATAGGTGA
1 TGTATTTATAGGTGA
10273346 T
1 T
10273347 AACATGCTTT
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:0.26, C:0.00, G:0.23, T:0.52
Consensus pattern (15 bp):
TGTATTTATAGGTGA
Found at i:10274248 original size:61 final size:61
Alignment explanation
Indices: 10274166--10274303 Score: 161
Period size: 61 Copynumber: 2.3 Consensus size: 61
10274156 TATAAAGGAT
** * *
10274166 ATTATAGTAATTTTGATCAATTATGGTAGAAGAGGTATTTTCATAATAATGATAAGA-GAGC
1 ATTATAGTAATTTTGGCCAATTATAGTAGAAGAGGCATTTTCATAATAATGATAAGATG-GC
* * * * * *
10274227 ATTATTGTAATTTTGGCCAATTATAGTAGGAGGGGCATTTTTATAATTATGATAGGATGGC
1 ATTATAGTAATTTTGGCCAATTATAGTAGAAGAGGCATTTTCATAATAATGATAAGATGGC
*
10274288 ATTATAATAATTTTGG
1 ATTATAGTAATTTTGG
10274304 ATAATTTTGA
Statistics
Matches: 64, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
61 63 0.98
62 1 0.02
ACGTcount: A:0.35, C:0.05, G:0.21, T:0.39
Consensus pattern (61 bp):
ATTATAGTAATTTTGGCCAATTATAGTAGAAGAGGCATTTTCATAATAATGATAAGATGGC
Found at i:10274302 original size:208 final size:209
Alignment explanation
Indices: 10273868--10274280 Score: 498
Period size: 209 Copynumber: 2.0 Consensus size: 209
10273858 ATTTAATAGG
* * * *
10273868 AGCATTATAGTAATTTTAAAACAAAATGTCACATGTCAACTTCTTATGAAGCACTCATAAGGACA
1 AGCATTATAGTAATTTTGAAACAAAATGACACATGTCAACTTCTTATAAAACACTCATAAGGACA
* * *
10273933 TTTACATAATTATAGTATAAGGGGCATTATAGTAATTTTAATCAATTATGGTAAATGGGCATTTT
66 TTTACATAATTATAATATAAAGGACATTATAGTAATTTTAATCAATTATGGTAAATGGGCATTTT
** * * * *
10273998 TTTTAAGTATGATATGAGAGGTATTATAGTAATTTTGACGAAATATGGTAAAGGGGATATTATCA
131 TCATAAGTATGATAAGAGAGGCATTATAGTAATTTTGACCAAATATAGTAAAGGGGATATTATCA
*
10274063 TAATTATGGTAAAA
196 TAATTATGATAAAA
* * *
10274077 AGCATTATAGTAATTTTGAAATAAAATGACACATGTCAACTTCTTATAAAACATTCATAAGGGCA
1 AGCATTATAGTAATTTTGAAACAAAATGACACATGTCAACTTCTTATAAAACACTCATAAGGACA
* * * *
10274142 TTTA-GTAATTATAATATAAAGGATATTATAGTAATTTTGATCAATTATGGTAGAA-GAGGTA-T
66 TTTACATAATTATAATATAAAGGACATTATAGTAATTTTAATCAATTATGGTA-AATG-GGCATT
* * * *
10274204 TTTCATAA-TAATGATAAGAGA-GCATTATTGTAATTTTGGCCAATTATAGTAGGAGGGGCAT-T
129 TTTCATAAGT-ATGATAAGAGAGGCATTATAGTAATTTTGACCAAATATAGTA-AAGGGG-ATAT
*
10274266 T-TTATAATTATGATA
191 TATCATAATTATGATA
10274281 GGATGGCATT
Statistics
Matches: 173, Mismatches: 26, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
207 37 0.21
208 67 0.39
209 69 0.40
ACGTcount: A:0.39, C:0.08, G:0.17, T:0.36
Consensus pattern (209 bp):
AGCATTATAGTAATTTTGAAACAAAATGACACATGTCAACTTCTTATAAAACACTCATAAGGACA
TTTACATAATTATAATATAAAGGACATTATAGTAATTTTAATCAATTATGGTAAATGGGCATTTT
TCATAAGTATGATAAGAGAGGCATTATAGTAATTTTGACCAAATATAGTAAAGGGGATATTATCA
TAATTATGATAAAA
Found at i:10274685 original size:16 final size:14
Alignment explanation
Indices: 10274658--10274694 Score: 56
Period size: 16 Copynumber: 2.5 Consensus size: 14
10274648 ATGGTAAAGA
10274658 TATATTAATAATTT
1 TATATTAATAATTT
10274672 TATATGTAATTAATTT
1 TATAT-TAA-TAATTT
10274688 TATATTA
1 TATATTA
10274695 TGTTCAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 5 0.24
15 5 0.24
16 11 0.52
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.57
Consensus pattern (14 bp):
TATATTAATAATTT
Found at i:10275001 original size:61 final size:61
Alignment explanation
Indices: 10274859--10275002 Score: 161
Period size: 60 Copynumber: 2.4 Consensus size: 61
10274849 CTCATATTTT
* **
10274859 TGGTAGAAGGGGTATTGTAGTAATTTTAGCCAATTATAGTAGAAAAGGTATTTTATAATTA
1 TGGTAGAAGAGGTATTGTAGTAATTTTAGCCAATTATAAAAGAAAAGGTATTTTATAATTA
* * * * *
10274920 T--TATAAGAGGGTATTATAGTAATTTTTGCTAATTATAAAA-AGAAATGTATTTTAGTAATTA
1 TGGTAGAAGA-GGTATTGTAGTAATTTTAGCCAATTATAAAAGA-AAAGGTATTTTA-TAATTA
10274981 TGGTAGAA-AGGTATTGTAGTAA
1 TGGTAGAAGAGGTATTGTAGTAA
10275003 ATCCGGACAC
Statistics
Matches: 68, Mismatches: 10, Indels: 10
0.77 0.11 0.11
Matches are distributed among these distances:
59 6 0.09
60 37 0.54
61 20 0.29
62 1 0.01
63 4 0.06
ACGTcount: A:0.38, C:0.02, G:0.21, T:0.39
Consensus pattern (61 bp):
TGGTAGAAGAGGTATTGTAGTAATTTTAGCCAATTATAAAAGAAAAGGTATTTTATAATTA
Found at i:10275781 original size:133 final size:130
Alignment explanation
Indices: 10275434--10275789 Score: 366
Period size: 130 Copynumber: 2.7 Consensus size: 130
10275424 GGTATGAGGT
* * ** *
10275434 TATTATAGTAAATAATTATAAGAAAAGAAGTATTTTTGTAATTATGATATGAAAGTATAATAATC
1 TATTATAGTAAATAATTATAAAAAAAGAGGTATTTTCATAATTATGATATGATAGTATAATAATC
* * * * *
10275499 AA-TTC-GACCATGTGTCAATTTCTTATCAAATAATGAATGGGTATTTTGATAATTTCTTAGGAG
66 AATTTCATAACATG-AT-AATTTCTTATCAAATAATGAATGGATATTTTGATAATTTCTTAGGAA
10275562 AG
129 AG
*
10275564 TATTATAGTAAATAATTATAAGAAAAGAGGTATTTTCATAATTATGATATGATAGTATAATAATC
1 TATTATAGTAAATAATTATAAAAAAAGAGGTATTTTCATAATTATGATATGATAGTATAATAATC
** * ** * ** * *
10275629 AATTTGGTTATGTGTTAATTTCTTATCAAATGTTGGAAAT-GATATTTTGGTCATTTCTTAGGAA
66 AATTTCATAACATGATAATTTCTTATCAAATAAT-G-AATGGATATTTTGATAATTTCTTAGGAA
10275693 AGG
129 A-G
*
10275696 TATTAT-GATAAATAATTATAAAAAAA-AGGGATATTTGTCATAATTATGATATGA-GGCT-TAA
1 TATTATAG-TAAATAATTATAAAAAAAGA-GG-TATTT-TCATAATTATGATATGATAG-TATAA
*
10275757 TAGTCAATTTCATAACATGATAATTTCTTATCA
61 TAATCAATTTCATAACATGATAATTTCTTATCA
10275790 TCTAATAGAA
Statistics
Matches: 190, Mismatches: 26, Indels: 17
0.82 0.11 0.07
Matches are distributed among these distances:
130 79 0.42
131 27 0.14
132 31 0.16
133 35 0.18
134 18 0.09
ACGTcount: A:0.40, C:0.06, G:0.15, T:0.40
Consensus pattern (130 bp):
TATTATAGTAAATAATTATAAAAAAAGAGGTATTTTCATAATTATGATATGATAGTATAATAATC
AATTTCATAACATGATAATTTCTTATCAAATAATGAATGGATATTTTGATAATTTCTTAGGAAAG
Found at i:10283353 original size:115 final size:115
Alignment explanation
Indices: 10283175--10283405 Score: 444
Period size: 115 Copynumber: 2.0 Consensus size: 115
10283165 ACATAAACTC
*
10283175 ACCATCAACTATCAACTGTCCTAGTCATGTTACCGCCCTTCCACTCAGATATAAATAAAAAAGAG
1 ACCATCAACTATCAACTGTCCTAGTCATGTTACCGCACTTCCACTCAGATATAAATAAAAAAGAG
*
10283240 GCCCAAGTATAGTATGAACAAAGCATCCTTCCTCTTAAAGCTTTCTAATT
66 GCCCAAGTATAGTATGAACAAAGAATCCTTCCTCTTAAAGCTTTCTAATT
10283290 ACCATCAACTATCAACTGTCCTAGTCATGTTACCGCACTTCCACTCAGATATAAATAAAAAAGAG
1 ACCATCAACTATCAACTGTCCTAGTCATGTTACCGCACTTCCACTCAGATATAAATAAAAAAGAG
10283355 GCCCAAGTATAGTATGAACAAAGAATCCTTCCTCTTAAAGCTTTCTAATT
66 GCCCAAGTATAGTATGAACAAAGAATCCTTCCTCTTAAAGCTTTCTAATT
10283405 A
1 A
10283406 TTTACAGTAT
Statistics
Matches: 114, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
115 114 1.00
ACGTcount: A:0.36, C:0.25, G:0.11, T:0.28
Consensus pattern (115 bp):
ACCATCAACTATCAACTGTCCTAGTCATGTTACCGCACTTCCACTCAGATATAAATAAAAAAGAG
GCCCAAGTATAGTATGAACAAAGAATCCTTCCTCTTAAAGCTTTCTAATT
Found at i:10284864 original size:69 final size:69
Alignment explanation
Indices: 10284742--10284881 Score: 235
Period size: 69 Copynumber: 2.0 Consensus size: 69
10284732 GTTTTGATTT
* * *
10284742 ATCTCCAGGTAAAATAAAAAGTTTTTCTCTTAACAAATAGTTTGTATCCTCTGTTGTTAAATTAT
1 ATCTCCAGGTAAAATAAAAAGTTTTTCTCTTAACAAATAGTTTATATCCTCTGTTATTAAAATAT
10284807 TAAA
66 TAAA
* *
10284811 ATCTCCAGGTAAAATAAAAAGTTTTTCTCTTAACAAATATTTTATATCTTCTGTTATTAAAATAT
1 ATCTCCAGGTAAAATAAAAAGTTTTTCTCTTAACAAATAGTTTATATCCTCTGTTATTAAAATAT
10284876 TAAA
66 TAAA
10284880 AT
1 AT
10284882 TTTAATTTTA
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
69 66 1.00
ACGTcount: A:0.39, C:0.12, G:0.08, T:0.41
Consensus pattern (69 bp):
ATCTCCAGGTAAAATAAAAAGTTTTTCTCTTAACAAATAGTTTATATCCTCTGTTATTAAAATAT
TAAA
Found at i:10285502 original size:17 final size:17
Alignment explanation
Indices: 10285451--10285493 Score: 86
Period size: 17 Copynumber: 2.5 Consensus size: 17
10285441 TAATAATGTA
10285451 ATTATCAAAATAATTTT
1 ATTATCAAAATAATTTT
10285468 ATTATCAAAATAATTTT
1 ATTATCAAAATAATTTT
10285485 ATTATCAAA
1 ATTATCAAA
10285494 GTAGTTTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.49, C:0.07, G:0.00, T:0.44
Consensus pattern (17 bp):
ATTATCAAAATAATTTT
Found at i:10285666 original size:24 final size:26
Alignment explanation
Indices: 10285632--10285691 Score: 70
Period size: 25 Copynumber: 2.3 Consensus size: 26
10285622 ATCATGAATA
*
10285632 TTATAATAATTACATAAA-TTAATAAT
1 TTATAA-AATTACATAAAGATAATAAT
**
10285658 TT-TAAAATTATTTAAAGATAATAAT
1 TTATAAAATTACATAAAGATAATAAT
10285683 TTATAAAAT
1 TTATAAAAT
10285692 ATTTGTAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
24 9 0.31
25 12 0.41
26 8 0.28
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (26 bp):
TTATAAAATTACATAAAGATAATAAT
Found at i:10286422 original size:21 final size:20
Alignment explanation
Indices: 10286398--10286439 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
10286388 TAAAAAATTG
10286398 TTATATATTTTACTTTTTTAA
1 TTATATATTTTA-TTTTTTAA
* *
10286419 TTATTTTTTTTATTTTTTAA
1 TTATATATTTTATTTTTTAA
10286439 T
1 T
10286440 AAGAAGGCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (20 bp):
TTATATATTTTATTTTTTAA
Found at i:10290234 original size:25 final size:26
Alignment explanation
Indices: 10290192--10290244 Score: 99
Period size: 25 Copynumber: 2.1 Consensus size: 26
10290182 GCCTCACTTA
10290192 AATAGACAAAAACTTGTAATGAATGG
1 AATAGACAAAAACTTGTAATGAATGG
10290218 AATAGACAAAAA-TTGTAATGAATGG
1 AATAGACAAAAACTTGTAATGAATGG
10290243 AA
1 AA
10290245 CAATCCTGTG
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 15 0.56
26 12 0.44
ACGTcount: A:0.53, C:0.06, G:0.19, T:0.23
Consensus pattern (26 bp):
AATAGACAAAAACTTGTAATGAATGG
Found at i:10291126 original size:16 final size:16
Alignment explanation
Indices: 10291105--10291147 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 16
10291095 TTTACTAAAA
*
10291105 ATATATTTATAAATAT
1 ATATATATATAAATAT
*
10291121 ATATATATATAAATTT
1 ATATATATATAAATAT
10291137 ATATATA-ATAA
1 ATATATATATAA
10291148 TATTATTAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 4 0.16
16 21 0.84
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
ATATATATATAAATAT
Found at i:10291208 original size:21 final size:21
Alignment explanation
Indices: 10291184--10291224 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
10291174 ATACAATATT
*
10291184 TTTAAAAATTAAATAAATAAA
1 TTTAAAAATAAAATAAATAAA
*
10291205 TTTAAAAGTAAAATAAATAA
1 TTTAAAAATAAAATAAATAA
10291225 TATCATCAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (21 bp):
TTTAAAAATAAAATAAATAAA
Found at i:10292724 original size:17 final size:16
Alignment explanation
Indices: 10292704--10292735 Score: 55
Period size: 16 Copynumber: 1.9 Consensus size: 16
10292694 TTTTTATTTG
10292704 ATTTTTCATGTAAATTA
1 ATTTTT-ATGTAAATTA
10292721 ATTTTTATGTAAATT
1 ATTTTTATGTAAATT
10292736 TTTATTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.34, C:0.03, G:0.06, T:0.56
Consensus pattern (16 bp):
ATTTTTATGTAAATTA
Found at i:10293373 original size:3 final size:3
Alignment explanation
Indices: 10293365--10293402 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
10293355 TCAAAAATCA
10293365 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
10293403 ACTTTCACTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:10294854 original size:23 final size:23
Alignment explanation
Indices: 10294796--10294840 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
10294786 TTTTATTTGT
10294796 TTTTTAATT-TTGTATATTTTAAA
1 TTTTTAATTATT-TATATTTTAAA
10294819 TTTTTAATTATTTATATTTTAA
1 TTTTTAATTATTTATATTTTAA
10294841 TTTATTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 19 0.90
24 2 0.10
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (23 bp):
TTTTTAATTATTTATATTTTAAA
Found at i:10294855 original size:17 final size:16
Alignment explanation
Indices: 10294820--10294859 Score: 55
Period size: 17 Copynumber: 2.5 Consensus size: 16
10294810 TATTTTAAAT
10294820 TTTTAA-TTATTTATA
1 TTTTAATTTATTTATA
*
10294835 TTTTAATTTATTTTTTA
1 TTTTAATTTA-TTTATA
10294852 TTTTAATT
1 TTTTAATT
10294860 AAAAAATAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 6 0.27
16 3 0.14
17 13 0.59
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (16 bp):
TTTTAATTTATTTATA
Found at i:10295637 original size:25 final size:27
Alignment explanation
Indices: 10295604--10295655 Score: 63
Period size: 28 Copynumber: 2.0 Consensus size: 27
10295594 TTTAAGTAAC
10295604 TGTGATAA-TG-GAAGGTTTTTTGGTG
1 TGTGATAATTGTGAAGGTTTTTTGGTG
* *
10295629 TGTGTTAATTGTTGAAGTTTTTTTGGT
1 TGTGATAATTG-TGAAGGTTTTTTGGT
10295656 AGTGAAAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
25 7 0.32
26 2 0.09
28 13 0.59
ACGTcount: A:0.17, C:0.00, G:0.31, T:0.52
Consensus pattern (27 bp):
TGTGATAATTGTGAAGGTTTTTTGGTG
Found at i:10296404 original size:19 final size:21
Alignment explanation
Indices: 10296364--10296404 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 21
10296354 TCCCATTAGG
*
10296364 ATCAATTAGAAACAATTAAGA
1 ATCAATTAGAAACAAATAAGA
10296385 ATCAATTA-AAA-AAATAAGA
1 ATCAATTAGAAACAAATAAGA
10296404 A
1 A
10296405 AGAAAAAGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 8 0.42
20 3 0.16
21 8 0.42
ACGTcount: A:0.63, C:0.07, G:0.07, T:0.22
Consensus pattern (21 bp):
ATCAATTAGAAACAAATAAGA
Found at i:10296423 original size:13 final size:13
Alignment explanation
Indices: 10296392--10296433 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
10296382 AGAATCAATT
10296392 AAAAAAA-TAAGAA
1 AAAAAAAGTAA-AA
*
10296405 AGAAAAAGTAAAA
1 AAAAAAAGTAAAA
*
10296418 AAAAAAAGCAAAA
1 AAAAAAAGTAAAA
10296431 AAA
1 AAA
10296434 TTAAGAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
13 22 0.88
14 3 0.12
ACGTcount: A:0.83, C:0.02, G:0.10, T:0.05
Consensus pattern (13 bp):
AAAAAAAGTAAAA
Done.