Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167982.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_24, 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: 18142777
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 63000 characters in sequence are not A, C, G, or T
File 56 of 84
Found at i:12795040 original size:1 final size:1
Alignment explanation
Indices: 12795036--12795068 Score: 66
Period size: 1 Copynumber: 33.0 Consensus size: 1
12795026 TTTTTCTTCC
12795036 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
12795069 CTGTGGGGTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 32 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:12798326 original size:2 final size:2
Alignment explanation
Indices: 12798319--12798366 Score: 87
Period size: 2 Copynumber: 24.0 Consensus size: 2
12798309 TCATCTCGGA
*
12798319 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TT TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
12798361 TC TC TC
1 TC TC TC
12798367 CCTTTTTATT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:12803262 original size:33 final size:33
Alignment explanation
Indices: 12803225--12803289 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 33
12803215 GAGACTTCAA
*
12803225 CTCCTGATTAAATAATTGAAAAGGAAACAAGAG
1 CTCCTGATCAAATAATTGAAAAGGAAACAAGAG
12803258 CTCCTGATCAAATAATTGAAAAGGAAACAAGA
1 CTCCTGATCAAATAATTGAAAAGGAAACAAGA
12803290 ACTAAGATAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.49, C:0.14, G:0.17, T:0.20
Consensus pattern (33 bp):
CTCCTGATCAAATAATTGAAAAGGAAACAAGAG
Found at i:12809994 original size:73 final size:73
Alignment explanation
Indices: 12809879--12810026 Score: 262
Period size: 73 Copynumber: 2.0 Consensus size: 73
12809869 GGTACATGAT
12809879 TGGGTTAGGGTATTTTGTGCACATGACTTGTTTAGGATATTGATCTAATAGAAATCTCTTTTGTT
1 TGGGTTAGGGTATTTTGTGCACA-GACTTGTTTAGGATATTGATCTAATAGAAATCTCTTTTGTT
12809944 TTTGGTATG
65 TTTGGTATG
*
12809953 TGGGATTAGGGTATTTTGTGCAC-GACTTGTTTTGGATATTGATCTAATAGAAATCTCTTTTGTT
1 TGGG-TTAGGGTATTTTGTGCACAGACTTGTTTAGGATATTGATCTAATAGAAATCTCTTTTGTT
12810017 TTTGGTATG
65 TTTGGTATG
12810026 T
1 T
12810027 TGAATTAGCA
Statistics
Matches: 72, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
73 50 0.69
74 4 0.06
75 18 0.25
ACGTcount: A:0.21, C:0.08, G:0.24, T:0.47
Consensus pattern (73 bp):
TGGGTTAGGGTATTTTGTGCACAGACTTGTTTAGGATATTGATCTAATAGAAATCTCTTTTGTTT
TTGGTATG
Found at i:12813379 original size:12 final size:12
Alignment explanation
Indices: 12813362--12813386 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
12813352 AAAGGAGAAT
12813362 AAGATGATTCAC
1 AAGATGATTCAC
12813374 AAGATGATTCAC
1 AAGATGATTCAC
12813386 A
1 A
12813387 TAAGTATGGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.16, G:0.16, T:0.24
Consensus pattern (12 bp):
AAGATGATTCAC
Found at i:12815903 original size:1 final size:1
Alignment explanation
Indices: 12815897--12815923 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
12815887 CCCATATTAT
12815897 AAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAA
12815924 CACCTTACCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:12817988 original size:23 final size:23
Alignment explanation
Indices: 12817962--12818016 Score: 92
Period size: 23 Copynumber: 2.4 Consensus size: 23
12817952 GTGGTGTGTA
*
12817962 TTCAGGTTTTTTAGATTGGGAGT
1 TTCAGGTTTTTGAGATTGGGAGT
*
12817985 TTCAGGTTTTTGAGATTGGGGGT
1 TTCAGGTTTTTGAGATTGGGAGT
12818008 TTCAGGTTT
1 TTCAGGTTT
12818017 AGGTTTGCCT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.15, C:0.05, G:0.33, T:0.47
Consensus pattern (23 bp):
TTCAGGTTTTTGAGATTGGGAGT
Found at i:12818519 original size:27 final size:26
Alignment explanation
Indices: 12818470--12818524 Score: 74
Period size: 27 Copynumber: 2.1 Consensus size: 26
12818460 ATTATATGTA
* * *
12818470 ATAAAATTTTAAATTATTTATTATTT
1 ATAAAATTATAAAATATTAATTATTT
12818496 ATAAAATTAATAAAATATTAATTATTT
1 ATAAAATT-ATAAAATATTAATTATTT
12818523 AT
1 AT
12818525 TAATTATTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
26 8 0.32
27 17 0.68
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (26 bp):
ATAAAATTATAAAATATTAATTATTT
Found at i:12818572 original size:15 final size:15
Alignment explanation
Indices: 12818544--12818588 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
12818534 TATGTCAAAT
* *
12818544 AATAATTTATTAATA
1 AATAATTAAATAATA
12818559 AATAATTAAATAAT-
1 AATAATTAAATAATA
12818573 AATATATTAAATAATA
1 AATA-ATTAAATAATA
12818589 TTTTTTATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
14 4 0.15
15 22 0.85
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (15 bp):
AATAATTAAATAATA
Found at i:12824024 original size:19 final size:17
Alignment explanation
Indices: 12824000--12824036 Score: 56
Period size: 19 Copynumber: 2.1 Consensus size: 17
12823990 TGATTCGACT
12824000 TAAAATATTATTATATTAA
1 TAAAATATT-TTAT-TTAA
12824019 TAAAATATTTTATTTAA
1 TAAAATATTTTATTTAA
12824036 T
1 T
12824037 TTTAATTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 5 0.28
18 4 0.22
19 9 0.50
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
TAAAATATTTTATTTAA
Found at i:12824424 original size:21 final size:21
Alignment explanation
Indices: 12824400--12824459 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 21
12824390 TTTCAATATA
12824400 AAATATAAATATTTTAA-TAAT
1 AAATAT-AATATTTTAATTAAT
*
12824421 AAATATTATGATTTTAGTATTAAT
1 AAATATAAT-ATTTTA--ATTAAT
12824445 AAA-ATAATATTTTAA
1 AAATATAATATTTTAA
12824460 AGAATATTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
20 3 0.09
21 12 0.36
22 6 0.18
23 5 0.15
24 7 0.21
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (21 bp):
AAATATAATATTTTAATTAAT
Found at i:12824596 original size:35 final size:32
Alignment explanation
Indices: 12824533--12824596 Score: 92
Period size: 35 Copynumber: 1.9 Consensus size: 32
12824523 TTTAAGTATT
*
12824533 TTATATTATTATAATATTTTTAATATTAAATA
1 TTATATTAATATAATATTTTTAATATTAAATA
12824565 TTATATTAAATATAATTATTTTTGAATATTAA
1 TTATATT-AATATAA-TATTTTT-AATATTAA
12824597 TAGTTTTAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 7 0.25
33 6 0.21
34 7 0.25
35 8 0.29
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (32 bp):
TTATATTAATATAATATTTTTAATATTAAATA
Found at i:12824623 original size:25 final size:25
Alignment explanation
Indices: 12824595--12824658 Score: 67
Period size: 26 Copynumber: 2.5 Consensus size: 25
12824585 TTTGAATATT
*
12824595 AATAGTTTTAATGATAAATAA-TTTC
1 AATA-TTTTAATAATAAATAATTTTC
* *
12824620 AATATACTTTAACAATAAATAATTTTT
1 AATAT--TTTAATAATAAATAATTTTC
12824647 AATATTTTAATA
1 AATATTTTAATA
12824659 GTTATATTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
24 1 0.03
25 10 0.31
26 13 0.41
27 8 0.25
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (25 bp):
AATATTTTAATAATAAATAATTTTC
Found at i:12826111 original size:21 final size:21
Alignment explanation
Indices: 12826078--12826117 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
12826068 CATTTTCAGC
** *
12826078 TTTTTTTTTTTTTTTTTTTCA
1 TTTTTTTAGTTTTTCTTTTCA
12826099 TTTTTTTAGTTTTTCTTTT
1 TTTTTTTAGTTTTTCTTTT
12826118 AAATTATTTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.05, C:0.05, G:0.03, T:0.88
Consensus pattern (21 bp):
TTTTTTTAGTTTTTCTTTTCA
Found at i:12826245 original size:24 final size:23
Alignment explanation
Indices: 12826210--12826262 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
12826200 TTTCTTCTTT
* * *
12826210 TTTTTTCCTTTTTCT-TTTTGAC
1 TTTTTTACTTTTTTTGTTTTGAA
12826232 TTATTTTACTTTTTTTGTTTTGAA
1 TT-TTTTACTTTTTTTGTTTTGAA
12826256 TTTTTTA
1 TTTTTTA
12826263 AAAAATTTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
22 2 0.08
23 16 0.62
24 8 0.31
ACGTcount: A:0.11, C:0.09, G:0.06, T:0.74
Consensus pattern (23 bp):
TTTTTTACTTTTTTTGTTTTGAA
Found at i:12826455 original size:9 final size:9
Alignment explanation
Indices: 12826441--12826473 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
12826431 TAAAATTTCT
12826441 TTTTTTATC
1 TTTTTTATC
*
12826450 TTTTTTAAC
1 TTTTTTATC
12826459 TTTTTTAT-
1 TTTTTTATC
12826467 TTTTTTA
1 TTTTTTA
12826474 AATAATTAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
8 7 0.32
9 15 0.68
ACGTcount: A:0.15, C:0.06, G:0.00, T:0.79
Consensus pattern (9 bp):
TTTTTTATC
Found at i:12826464 original size:18 final size:17
Alignment explanation
Indices: 12826441--12826474 Score: 59
Period size: 17 Copynumber: 1.9 Consensus size: 17
12826431 TAAAATTTCT
12826441 TTTTTTATCTTTTTTAAC
1 TTTTTTAT-TTTTTTAAC
12826459 TTTTTTATTTTTTTAA
1 TTTTTTATTTTTTTAA
12826475 ATAATTAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.18, C:0.06, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTTTTATTTTTTTAAC
Found at i:12829831 original size:15 final size:16
Alignment explanation
Indices: 12829794--12829834 Score: 57
Period size: 17 Copynumber: 2.6 Consensus size: 16
12829784 AATATAAAAT
*
12829794 ATAAATAGTTTAATAG
1 ATAAATATTTTAATAG
12829810 TATAAATATTTTAATA-
1 -ATAAATATTTTAATAG
12829826 ATAAATATT
1 ATAAATATT
12829835 ACTATTTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 9 0.39
17 14 0.61
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (16 bp):
ATAAATATTTTAATAG
Found at i:12829955 original size:8 final size:8
Alignment explanation
Indices: 12829938--12829972 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
12829928 TTTAAGTATT
*
12829938 TTATATTA
1 TTATAATA
12829946 TTATAATA
1 TTATAATA
12829954 TTATAATA
1 TTATAATA
12829962 TTA-AATA
1 TTATAATA
12829969 TTAT
1 TTAT
12829973 TATTAAAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
7 7 0.28
8 18 0.72
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (8 bp):
TTATAATA
Found at i:12830002 original size:17 final size:17
Alignment explanation
Indices: 12829957--12830032 Score: 66
Period size: 17 Copynumber: 4.4 Consensus size: 17
12829947 TATAATATTA
12829957 TAATATTAAATATTATTAT
1 TAATATTAAATATT-TT-T
* *
12829976 TAAAATTTAATTATTTTT
1 TAATA-TTAAATATTTTT
*
12829994 TAATATT-AATA-GTTT
1 TAATATTAAATATTTTT
* *
12830009 TAATAATAAATAATTTT
1 TAATATTAAATATTTTT
12830026 TAATATT
1 TAATATT
12830033 TTAATAGTTA
Statistics
Matches: 46, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
15 9 0.20
16 7 0.15
17 11 0.24
18 5 0.11
19 6 0.13
20 8 0.17
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (17 bp):
TAATATTAAATATTTTT
Found at i:12830938 original size:13 final size:12
Alignment explanation
Indices: 12830922--12830964 Score: 59
Period size: 13 Copynumber: 3.4 Consensus size: 12
12830912 TAAAATGGGT
12830922 TAAAAAAATAAAA
1 TAAAAAAA-AAAA
12830935 TAAAAATAAAAAA
1 TAAAAA-AAAAAA
*
12830948 TAAAAATAAAAA
1 TAAAAAAAAAAA
12830960 TAAAA
1 TAAAA
12830965 TGAAAATGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
12 10 0.36
13 16 0.57
14 2 0.07
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (12 bp):
TAAAAAAAAAAA
Found at i:12830940 original size:6 final size:6
Alignment explanation
Indices: 12830925--12830988 Score: 71
Period size: 6 Copynumber: 10.8 Consensus size: 6
12830915 AATGGGTTAA
*
12830925 AAAAAT -AAAAT AAAAAT AAAAAAT AAAAAT AAAAAT -AAAAT GAAAAT
1 AAAAAT AAAAAT AAAAAT -AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
*
12830972 GAAAAT GAAAAA- AAAAA
1 AAAAAT -AAAAAT AAAAA
12830989 CCTTACGATC
Statistics
Matches: 53, Mismatches: 1, Indels: 9
0.84 0.02 0.14
Matches are distributed among these distances:
5 15 0.28
6 28 0.53
7 10 0.19
ACGTcount: A:0.81, C:0.00, G:0.05, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:12830946 original size:19 final size:20
Alignment explanation
Indices: 12830922--12830964 Score: 72
Period size: 19 Copynumber: 2.2 Consensus size: 20
12830912 TAAAATGGGT
12830922 TAAAAAAAT-AAAATAAAAA
1 TAAAAAAATAAAAATAAAAA
12830941 T-AAAAAATAAAAATAAAAA
1 TAAAAAAATAAAAATAAAAA
12830960 TAAAA
1 TAAAA
12830965 TGAAAATGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 7 0.32
19 12 0.55
20 3 0.14
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (20 bp):
TAAAAAAATAAAAATAAAAA
Found at i:12830961 original size:30 final size:29
Alignment explanation
Indices: 12830923--12830988 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 29
12830913 AAAATGGGTT
12830923 AAAAAAATAAAATAAAAATAAAAAAT-AAA
1 AAAAAAATAAAATAAAAAT-AAAAATGAAA
* *
12830952 AATAAAAATAAAATGAAAATGAAAATGAAA
1 AA-AAAAATAAAATAAAAATAAAAATGAAA
12830982 AAAAAAA
1 AAAAAAA
12830989 CCTTACGATC
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
29 12 0.36
30 21 0.64
ACGTcount: A:0.82, C:0.00, G:0.05, T:0.14
Consensus pattern (29 bp):
AAAAAAATAAAATAAAAATAAAAATGAAA
Found at i:12831273 original size:31 final size:31
Alignment explanation
Indices: 12831233--12831304 Score: 90
Period size: 31 Copynumber: 2.3 Consensus size: 31
12831223 AATCCCATCG
*
12831233 AAAAGTTCATACTTCACCGAAAAATTAATCA
1 AAAAATTCATACTTCACCGAAAAATTAATCA
*** * *
12831264 AAAAATTCATACTTCGTTGAAAAATTCATCG
1 AAAAATTCATACTTCACCGAAAAATTAATCA
12831295 AAAAATTCAT
1 AAAAATTCAT
12831305 CCAAAAATTG
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.47, C:0.17, G:0.07, T:0.29
Consensus pattern (31 bp):
AAAAATTCATACTTCACCGAAAAATTAATCA
Found at i:12831310 original size:11 final size:12
Alignment explanation
Indices: 12831282--12831313 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
12831272 ATACTTCGTT
12831282 GAAAAATTCATC
1 GAAAAATTCATC
12831294 GAAAAATTCATC
1 GAAAAATTCATC
*
12831306 CAAAAATT
1 GAAAAATT
12831314 GAAAAACCCC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.53, C:0.16, G:0.06, T:0.25
Consensus pattern (12 bp):
GAAAAATTCATC
Found at i:12831807 original size:3 final size:3
Alignment explanation
Indices: 12831799--12831846 Score: 60
Period size: 3 Copynumber: 16.0 Consensus size: 3
12831789 AAAAATAAAA
* * * *
12831799 ATG ATG ATG ATG ATG ATA ATA ATA ATA ATG ATG ATG ATG ATG ATG ATG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
12831847 TAACACTATA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.42, C:0.00, G:0.25, T:0.33
Consensus pattern (3 bp):
ATG
Found at i:12831817 original size:21 final size:21
Alignment explanation
Indices: 12831793--12831836 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
12831783 AAAATGAAAA
* *
12831793 ATAAAAATGATGATGATGATG
1 ATAAAAATAATAATGATGATG
*
12831814 ATAATAATAATAATGATGATG
1 ATAAAAATAATAATGATGATG
12831835 AT
1 AT
12831837 GATGATGATG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.18, T:0.32
Consensus pattern (21 bp):
ATAAAAATAATAATGATGATG
Found at i:12831819 original size:24 final size:24
Alignment explanation
Indices: 12831792--12831839 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
12831782 AAAAATGAAA
*
12831792 AATAAAAATGATGATGATGATGAT
1 AATAAAAATAATGATGATGATGAT
*
12831816 AATAATAATAATGATGATGATGAT
1 AATAAAAATAATGATGATGATGAT
12831840 GATGATGTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.19, T:0.31
Consensus pattern (24 bp):
AATAAAAATAATGATGATGATGAT
Found at i:12832312 original size:119 final size:118
Alignment explanation
Indices: 12832110--12832821 Score: 551
Period size: 119 Copynumber: 6.0 Consensus size: 118
12832100 AATTAACCGA
* * * *
12832110 GATGAAACCATGAGTCATAAGAAATGACCTGGACTGAG-C--TATCAAGTGATCGGGATGAAACC
1 GATGAAATCATAAGTCATAAGAAATGATCTGGACTGAGCCAAGATCAAGTGATCGGGATGAAACC
* * * ** * * *
12832172 ACTAATTAAAATGTAGTGACCAAGACTGAGTCGAGGTCGACAATAAATGACTAG
66 ACGAGTAAAAATAAAATGACCAAGACTGAGTCGAGGTCAAAAATAAATGA-TAG
* * * *
12832226 GATAAAATCACAAGTCATAAGAAATGATCTGGACTGAGCTAAGATCAAGTGATCGGGATGAAACT
1 GATGAAATCATAAGTCATAAGAAATGATCTGGACTGAGCCAAGATCAAGTGATCGGGATGAAACC
* * * *
12832291 ACGAGTTAAAATGAAATGACCAAGATCT-AGTCAAGGTCAAAAATAAATGATCAA
66 ACGAGTAAAAATAAAATGACCAAGA-CTGAGTCGAGGTCAAAAATAAATGAT-AG
*** * * * * * ** * * * *
12832345 GATGAAATCACCGGTCATAAAAAATGATCTAGATTAAGCCAAAAT-TGGATAATTGGGATAAAAT
1 GATGAAATCATAAGTCATAAGAAATGATCTGGACTGAGCCAAGATCAAG-TGATCGGGATGAAAC
* * * * * * *
12832409 CACGAATCAAAAAATAAGATGACCTAGAAC-AAGTCGAGATAAAAAATAAATGATCG
65 CACGAGT--AAAAATAAAATGACCAAG-ACTGAGTCGAGGTCAAAAATAAATGATAG
* * * ** ** *** *
12832465 AGATGAAACCATAAGTCATAAAAAATTATCTAAACTGAGTTAAGATGGGGATGACCGGGATGAAA
1 -GATGAAATCATAAGTCATAAGAAATGATCTGGACTGAGCCAAGATCAAG-TGATCGGGATGAAA
* * * * * * *
12832530 CCATGAGTCAAAAAATAAAACGACTAAGACCGAGTCGAGATCGAAAATAAATGATCG
64 CCACGAGT--AAAAATAAAATGACCAAGACTGAGTCGAGGTCAAAAATAAATGATAG
* * * *
12832587 AGATGAAATCATAAGTCATAAGAAGTGATCTTGACTGAGCCAAAATCGAGTGA-CTGGGATGAAA
1 -GATGAAATCATAAGTCATAAGAAATGATCTGGACTGAGCCAAGATCAAGTGATC-GGGATGAAA
* * *
12832651 CCATGAGTCAAAATAAAATGACCAAGA-TCGAGTCAAGGTCAAAAATAAATGATAGG
64 CCACGAGTAAAAATAAAATGACCAAGACT-GAGTCGAGGTCAAAAATAAATGATA-G
* * * * *
12832707 GATGAAACCATGAGTCATAAGAAATGATCTGGATTGAACCAAGATCAAGTGA-CAAGGATGAAAC
1 GATGAAATCATAAGTCATAAGAAATGATCTGGACTGAGCCAAGATCAAGTGATC-GGGATGAAAC
* * *
12832771 CACGAGTCAAAATAAAATGACCAAGGCTGAGTCGAGGTCGAAAATAAATGA
65 CACGAGTAAAAATAAAATGACCAAGACTGAGTCGAGGTCAAAAATAAATGA
12832822 CCAGGATAAT
Statistics
Matches: 478, Mismatches: 101, Indels: 31
0.78 0.17 0.05
Matches are distributed among these distances:
116 33 0.07
118 2 0.00
119 250 0.52
120 5 0.01
121 91 0.19
122 97 0.20
ACGTcount: A:0.45, C:0.14, G:0.21, T:0.20
Consensus pattern (118 bp):
GATGAAATCATAAGTCATAAGAAATGATCTGGACTGAGCCAAGATCAAGTGATCGGGATGAAACC
ACGAGTAAAAATAAAATGACCAAGACTGAGTCGAGGTCAAAAATAAATGATAG
Found at i:12833669 original size:14 final size:13
Alignment explanation
Indices: 12833646--12833688 Score: 52
Period size: 14 Copynumber: 3.3 Consensus size: 13
12833636 AATTTATCTC
12833646 TTTT-TCTTTTTT
1 TTTTGTCTTTTTT
12833658 TTTTGCTCTTTTTT
1 TTTTG-TCTTTTTT
* *
12833672 TATTGTGTTTTTT
1 TTTTGTCTTTTTT
12833685 TTTT
1 TTTT
12833689 TACACTTTGA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
12 4 0.15
13 10 0.38
14 12 0.46
ACGTcount: A:0.02, C:0.07, G:0.07, T:0.84
Consensus pattern (13 bp):
TTTTGTCTTTTTT
Found at i:12843684 original size:16 final size:16
Alignment explanation
Indices: 12843663--12843693 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
12843653 TAACTTGATT
12843663 AATAAAAAATAAAAAA
1 AATAAAAAATAAAAAA
*
12843679 AATAAACAATAAAAA
1 AATAAAAAATAAAAA
12843694 TAACAAATAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.84, C:0.03, G:0.00, T:0.13
Consensus pattern (16 bp):
AATAAAAAATAAAAAA
Found at i:12845293 original size:15 final size:16
Alignment explanation
Indices: 12845262--12845293 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
12845252 TTTTCTAATT
12845262 AAAAGTAAAAAAGATA
1 AAAAGTAAAAAAGATA
12845278 AAAAGTAAAAAA-ATA
1 AAAAGTAAAAAAGATA
12845293 A
1 A
12845294 TAAAATAAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.78, C:0.00, G:0.09, T:0.12
Consensus pattern (16 bp):
AAAAGTAAAAAAGATA
Found at i:12845408 original size:21 final size:20
Alignment explanation
Indices: 12845372--12845427 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 20
12845362 ATAACAAAAA
**
12845372 AAAAAAGAAAGGAAAAAATT
1 AAAAAAGAAAAAAAAAAATT
*
12845392 GAAAAAAGAAAAAAAAAGATT
1 -AAAAAAGAAAAAAAAAAATT
12845413 AAAAGAAGGAAAAAA
1 AAAA-AA-GAAAAAA
12845428 GAAAGAAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
20 4 0.13
21 19 0.63
22 7 0.23
ACGTcount: A:0.77, C:0.00, G:0.16, T:0.07
Consensus pattern (20 bp):
AAAAAAGAAAAAAAAAAATT
Found at i:12845530 original size:17 final size:17
Alignment explanation
Indices: 12845498--12845530 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
12845488 GTCTTGGATT
*
12845498 TAAAAAAAAAACAAAAC
1 TAAAAAAAAAAAAAAAC
12845515 TAAAAAAAAAAAAAAA
1 TAAAAAAAAAAAAAAA
12845531 GATTGAAAAA
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:0.88, C:0.06, G:0.00, T:0.06
Consensus pattern (17 bp):
TAAAAAAAAAAAAAAAC
Found at i:12845715 original size:14 final size:13
Alignment explanation
Indices: 12845696--12845734 Score: 62
Period size: 13 Copynumber: 3.0 Consensus size: 13
12845686 AAATATTTAT
12845696 TAAATAGAAAAAA
1 TAAATAGAAAAAA
12845709 GTAAATAG-AAAAA
1 -TAAATAGAAAAAA
12845722 TAAATAGAAAAAA
1 TAAATAGAAAAAA
12845735 AGTGAAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 7 0.29
13 10 0.42
14 7 0.29
ACGTcount: A:0.74, C:0.00, G:0.10, T:0.15
Consensus pattern (13 bp):
TAAATAGAAAAAA
Found at i:12845725 original size:12 final size:13
Alignment explanation
Indices: 12845696--12845733 Score: 60
Period size: 12 Copynumber: 2.9 Consensus size: 13
12845686 AAATATTTAT
12845696 TAAATAGAAAAAAG
1 TAAATAG-AAAAAG
12845710 TAAATAGAAAAA-
1 TAAATAGAAAAAG
12845722 TAAATAGAAAAA
1 TAAATAGAAAAA
12845734 AAGTGAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 12 0.50
13 5 0.21
14 7 0.29
ACGTcount: A:0.74, C:0.00, G:0.11, T:0.16
Consensus pattern (13 bp):
TAAATAGAAAAAG
Found at i:12845735 original size:14 final size:14
Alignment explanation
Indices: 12845696--12845735 Score: 57
Period size: 14 Copynumber: 3.0 Consensus size: 14
12845686 AAATATTTAT
*
12845696 TAAATAGAAAAAAG
1 TAAATAGAAAAAAA
12845710 TAAATAG--AAAAA
1 TAAATAGAAAAAAA
12845722 TAAATAGAAAAAAA
1 TAAATAGAAAAAAA
12845736 GTGAAAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
12 11 0.48
14 12 0.52
ACGTcount: A:0.75, C:0.00, G:0.10, T:0.15
Consensus pattern (14 bp):
TAAATAGAAAAAAA
Found at i:12846248 original size:20 final size:20
Alignment explanation
Indices: 12846214--12846252 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
12846204 TAAATAAAAT
12846214 AAATATATTTAAATTATTTA
1 AAATATATTTAAATTATTTA
12846234 AAATA-ATTTATAATTATTT
1 AAATATATTTA-AATTATTT
12846253 TAATTGATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
AAATATATTTAAATTATTTA
Found at i:12846465 original size:20 final size:20
Alignment explanation
Indices: 12846442--12846480 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
12846432 TGTCTACTAA
12846442 AAAAAAAAAAAAACAAAAAC
1 AAAAAAAAAAAAACAAAAAC
* *
12846462 AAAATATAAAAAACAAAAA
1 AAAAAAAAAAAAACAAAAA
12846481 AATGAATAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.87, C:0.08, G:0.00, T:0.05
Consensus pattern (20 bp):
AAAAAAAAAAAAACAAAAAC
Found at i:12847059 original size:25 final size:25
Alignment explanation
Indices: 12847024--12847076 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 25
12847014 AAAAAAGAAA
*
12847024 AAAATATAAAAAAGAG-ATAAAATG
1 AAAATATAAAAAAGAGAAGAAAATG
*
12847048 AAAATATGAAAATAGAGAAGAAAATG
1 AAAATAT-AAAAAAGAGAAGAAAATG
12847074 AAA
1 AAA
12847077 CAAAAATAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 7 0.28
25 8 0.32
26 10 0.40
ACGTcount: A:0.70, C:0.00, G:0.15, T:0.15
Consensus pattern (25 bp):
AAAATATAAAAAAGAGAAGAAAATG
Found at i:12847094 original size:23 final size:23
Alignment explanation
Indices: 12847056--12847099 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
12847046 TGAAAATATG
* * *
12847056 AAAATAGAGAAGAAAATGAAACA
1 AAAATAGAAAACAAAAGGAAACA
12847079 AAAATAGAAAACAAAAGGAAA
1 AAAATAGAAAACAAAAGGAAA
12847100 AAAGTGAATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.73, C:0.05, G:0.16, T:0.07
Consensus pattern (23 bp):
AAAATAGAAAACAAAAGGAAACA
Found at i:12847489 original size:16 final size:16
Alignment explanation
Indices: 12847464--12847507 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
12847454 AAAATTTTTC
12847464 AAAATT-AAAAACCAA
1 AAAATTAAAAAACCAA
12847479 AAAATTAAAAAACCAA
1 AAAATTAAAAAACCAA
*
12847495 AAATTTGAAAAAA
1 AAAATT-AAAAAA
12847508 GAGTATGAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
15 6 0.23
16 14 0.54
17 6 0.23
ACGTcount: A:0.73, C:0.09, G:0.02, T:0.16
Consensus pattern (16 bp):
AAAATTAAAAAACCAA
Found at i:12848656 original size:29 final size:30
Alignment explanation
Indices: 12848622--12848697 Score: 77
Period size: 29 Copynumber: 2.6 Consensus size: 30
12848612 ATGTATAAAT
* *
12848622 ATAATATTTTTATTAA-ATTAAAATAT-TAA
1 ATAATAATTTAATTAATA-TAAAATATATAA
*
12848651 ATAATAATTTAATTAATATAATATATATAA
1 ATAATAATTTAATTAATATAAAATATATAA
*
12848681 AT-ATAAAATTAATTAAT
1 ATAAT-AATTTAATTAAT
12848698 TAATTAAAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
29 23 0.57
30 17 0.43
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (30 bp):
ATAATAATTTAATTAATATAAAATATATAA
Found at i:12849706 original size:23 final size:23
Alignment explanation
Indices: 12849680--12849726 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
12849670 TTTATTAGAT
**
12849680 ATAAAAAGTGAAAAAGAAAAAAA
1 ATAAAAAGAAAAAAAGAAAAAAA
* *
12849703 ATAAATAGAAAAAAATAAAAAAA
1 ATAAAAAGAAAAAAAGAAAAAAA
12849726 A
1 A
12849727 GAAGAAAAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.81, C:0.00, G:0.09, T:0.11
Consensus pattern (23 bp):
ATAAAAAGAAAAAAAGAAAAAAA
Found at i:12849722 original size:20 final size:20
Alignment explanation
Indices: 12849689--12849736 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
12849679 TATAAAAAGT
*
12849689 GAAAAAGAAAAAAAATAAA-TA
1 GAAAAA-AAAAAAAA-AAAGAA
*
12849710 GAAAAAAATAAAAAAAAGAA
1 GAAAAAAAAAAAAAAAAGAA
12849730 GAAAAAA
1 GAAAAAA
12849737 GAAAGTGAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 3 0.12
20 15 0.62
21 6 0.25
ACGTcount: A:0.83, C:0.00, G:0.10, T:0.06
Consensus pattern (20 bp):
GAAAAAAAAAAAAAAAAGAA
Found at i:12849748 original size:32 final size:31
Alignment explanation
Indices: 12849690--12849753 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 31
12849680 ATAAAAAGTG
*
12849690 AAAAAGAAAAAAAATAAATAGAAAAAAATAAA
1 AAAAAGAAAAAAAAGAAATAGAAAAAAA-AAA
12849722 AAAAAGAAGAAAAAAGAAAGT-GAAAAAAAAAA
1 AAAAAGAA-AAAAAAGAAA-TAGAAAAAAAAAA
12849754 CAAAGGGCAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
32 11 0.38
33 17 0.59
34 1 0.03
ACGTcount: A:0.83, C:0.00, G:0.11, T:0.06
Consensus pattern (31 bp):
AAAAAGAAAAAAAAGAAATAGAAAAAAAAAA
Found at i:12851445 original size:23 final size:22
Alignment explanation
Indices: 12851419--12851532 Score: 78
Period size: 23 Copynumber: 5.2 Consensus size: 22
12851409 TTAATATATA
*
12851419 TATTTTTATTTTTTCTTTTTATC
1 TATTTTTATTTTTT-TATTTATC
**
12851442 TATTAATATTTTTATTATTTATC
1 TATTTTTATTTTT-TTATTTATC
**
12851465 TGCTTTTA-TTTTTTA-TTAT-
1 TATTTTTATTTTTTTATTTATC
12851484 TATTTATCTATTTCTTTTATTTATC
1 TATTT-T-TATTT-TTTTATTTATC
*
12851509 TA--ATTATTTTTTT-TGTTATC
1 TATTTTTATTTTTTTAT-TTATC
12851529 TATT
1 TATT
12851533 AATATATTTA
Statistics
Matches: 71, Mismatches: 10, Indels: 21
0.70 0.10 0.21
Matches are distributed among these distances:
19 4 0.06
20 16 0.23
21 10 0.14
22 7 0.10
23 27 0.38
24 5 0.07
25 2 0.03
ACGTcount: A:0.20, C:0.07, G:0.02, T:0.71
Consensus pattern (22 bp):
TATTTTTATTTTTTTATTTATC
Found at i:12851506 original size:27 final size:28
Alignment explanation
Indices: 12851448--12851517 Score: 76
Period size: 27 Copynumber: 2.5 Consensus size: 28
12851438 TATCTATTAA
*
12851448 TATTT-TTATTATTTATCTGCTTTTATT
1 TATTTATTATTATTTATCTGATTTTATT
12851475 T-TTTATTATTATTTATCT-ATTTCT-TT
1 TATTTATTATTATTTATCTGATTT-TATT
12851501 TATTTATCTAATTATTT
1 TATTTAT-T-ATTATTT
12851518 TTTTTGTTAT
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
26 9 0.24
27 20 0.54
28 1 0.03
29 7 0.19
ACGTcount: A:0.21, C:0.07, G:0.01, T:0.70
Consensus pattern (28 bp):
TATTTATTATTATTTATCTGATTTTATT
Found at i:12851551 original size:24 final size:22
Alignment explanation
Indices: 12851469--12851552 Score: 73
Period size: 24 Copynumber: 3.6 Consensus size: 22
12851459 TTTATCTGCT
*
12851469 TTTA-TTTTTTATTATTATTTA
1 TTTATTTTTTTATTATTAATTA
*
12851490 TCTATTTCTTTTATTTATCTAATTA
1 TTTATTT-TTTTA-TTAT-TAATTA
12851515 TTT-TTTTTGTTATCTATTAATATA
1 TTTATTTTT-TTAT-TATTAAT-TA
*
12851539 TTTATCTTTTTATT
1 TTTATTTTTTTATT
12851553 TTGATTAATT
Statistics
Matches: 51, Mismatches: 4, Indels: 14
0.74 0.06 0.20
Matches are distributed among these distances:
21 3 0.06
22 2 0.04
23 13 0.25
24 22 0.43
25 11 0.22
ACGTcount: A:0.23, C:0.06, G:0.01, T:0.70
Consensus pattern (22 bp):
TTTATTTTTTTATTATTAATTA
Found at i:12851551 original size:44 final size:43
Alignment explanation
Indices: 12851424--12851551 Score: 116
Period size: 44 Copynumber: 2.9 Consensus size: 43
12851414 ATATATATTT
* * * **
12851424 TTATTTTTTCTTTTTATCTATTAATATTTTTATTATTTATCTGC
1 TTATTTTTT-TTATTATCTATTAATATATTTATTTTTTATCTAA
* * *
12851468 TT-TTATTTTTTATTAT-TATTTATCTATTTCTTTTATTTATCTAA
1 TTATT-TTTTTTATTATCTATTAATATATTT-ATTT-TTTATCTAA
*
12851512 TTATTTTTTTTGTTATCTATTAATATATTTATCTTTTTAT
1 TTATTTTTTTTATTATCTATTAATATATTTAT-TTTTTAT
12851552 TTTGATTAAT
Statistics
Matches: 66, Mismatches: 12, Indels: 12
0.73 0.13 0.13
Matches are distributed among these distances:
42 10 0.15
43 10 0.15
44 31 0.47
45 15 0.23
ACGTcount: A:0.22, C:0.07, G:0.02, T:0.70
Consensus pattern (43 bp):
TTATTTTTTTTATTATCTATTAATATATTTATTTTTTATCTAA
Found at i:12851959 original size:23 final size:24
Alignment explanation
Indices: 12851933--12852019 Score: 67
Period size: 23 Copynumber: 3.8 Consensus size: 24
12851923 ATTAGATTTG
12851933 TTTAATATT-CTTTTATTTTTATC
1 TTTAATATTACTTTTATTTTTATC
* *
12851956 TTT-ATTTTATTTTTATTTTTAT-
1 TTTAATATTACTTTTATTTTTATC
* * * *
12851978 TTTTATTTTAC-TTT-TCTTTATT
1 TTTAATATTACTTTTATTTTTATC
* *
12852000 TTTATTTTTACTTTTATTTT
1 TTTAATATTACTTTTATTTT
12852020 ATTTTATTTT
Statistics
Matches: 52, Mismatches: 7, Indels: 9
0.76 0.10 0.13
Matches are distributed among these distances:
21 6 0.12
22 19 0.37
23 24 0.46
24 3 0.06
ACGTcount: A:0.17, C:0.06, G:0.00, T:0.77
Consensus pattern (24 bp):
TTTAATATTACTTTTATTTTTATC
Found at i:12851963 original size:17 final size:17
Alignment explanation
Indices: 12851943--12852035 Score: 97
Period size: 17 Copynumber: 5.5 Consensus size: 17
12851933 TTTAATATTC
12851943 TTTTATTTTTATCTTTA
1 TTTTATTTTTATCTTTA
*
12851960 TTTTATTTTTATTTTTA
1 TTTTATTTTTATCTTTA
12851977 TTTT-TATTTTA-CTTT-
1 TTTTAT-TTTTATCTTTA
*
12851992 TCTTTATTTTTATTTTTA
1 T-TTTATTTTTATCTTTA
12852010 CTTTTA-TTTTAT-TTTA
1 -TTTTATTTTTATCTTTA
12852026 TTTTTATTTT
1 -TTTTATTTT
12852036 CTTTAAATAA
Statistics
Matches: 65, Mismatches: 4, Indels: 14
0.78 0.05 0.17
Matches are distributed among these distances:
15 1 0.02
16 21 0.32
17 38 0.58
18 4 0.06
19 1 0.02
ACGTcount: A:0.16, C:0.04, G:0.00, T:0.80
Consensus pattern (17 bp):
TTTTATTTTTATCTTTA
Found at i:12851964 original size:5 final size:6
Alignment explanation
Indices: 12851943--12852035 Score: 111
Period size: 6 Copynumber: 15.5 Consensus size: 6
12851933 TTTAATATTC
* *
12851943 TTTTAT TTTTAT CTTTA- TTTTAT TTTTAT TTTTAT TTTTAT TTTACTTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTT--TAT
*
12851992 TCTTTAT TTTTAT TTTTAC TTTTA- TTTTA- TTTTAT TTTTAT TTT
1 T-TTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTT
12852036 CTTTAAATAA
Statistics
Matches: 77, Mismatches: 5, Indels: 10
0.84 0.05 0.11
Matches are distributed among these distances:
5 14 0.18
6 55 0.71
7 3 0.04
8 3 0.04
9 2 0.03
ACGTcount: A:0.16, C:0.04, G:0.00, T:0.80
Consensus pattern (6 bp):
TTTTAT
Found at i:12852121 original size:58 final size:58
Alignment explanation
Indices: 12852053--12852213 Score: 168
Period size: 58 Copynumber: 2.8 Consensus size: 58
12852043 TAAAATCCAA
*
12852053 AAAAAATATTTTTGGAGAAAAGTTAAAAGTATCAATTTTCCTTGAAAAT-AAGCTTTCC
1 AAAAAATATTTTTGGAGAAAAGTTAAAAGTATCAATTTTTCTTGAAAATAAAG-TTTCC
* * * * * *
12852111 AAAAATTATTTTCAGGA-AAAAGTTGAAAA-TATTAATTTTTCTCGAAATTAAAGTTTTC
1 AAAAAATATTTT-TGGAGAAAAGTT-AAAAGTATCAATTTTTCTTGAAAATAAAGTTTCC
* *
12852169 AGAAAAATATTTTT-GAGAAAAAGTTTAAAGTATGAATTTTTCTTG
1 A-AAAAATATTTTTGGAG-AAAAGTTAAAAGTATCAATTTTTCTTG
12852214 CACAAAAGTA
Statistics
Matches: 84, Mismatches: 12, Indels: 13
0.77 0.11 0.12
Matches are distributed among these distances:
57 2 0.02
58 42 0.50
59 40 0.48
ACGTcount: A:0.43, C:0.07, G:0.12, T:0.38
Consensus pattern (58 bp):
AAAAAATATTTTTGGAGAAAAGTTAAAAGTATCAATTTTTCTTGAAAATAAAGTTTCC
Found at i:12852189 original size:59 final size:56
Alignment explanation
Indices: 12852054--12852211 Score: 149
Period size: 59 Copynumber: 2.7 Consensus size: 56
12852044 AAAATCCAAA
* *
12852054 AAAAATATTTTTG-GAGAAAAGTTAAAAGTATCAATTTTCCTTGAAAATAAGCTTTCC
1 AAAAATATTTTTGAGA-AAAAGTTAAAA-TATCAATTTTTCTCGAAAATAAGCTTTCC
* * * * *
12852111 AAAAAT-TATTTTCAGGAAAAAGTTGAAAATATTAATTTTTCTCGAAATTAAAGTTTTCAG
1 AAAAATAT-TTTTGA-GAAAAAGTT-AAAATATCAATTTTTCTCGAAAAT-AAGCTTTC-C
* *
12852171 AAAAATATTTTTGAGAAAAAGTTTAAAGTATGAATTTTTCT
1 AAAAATATTTTTGAGAAAAAG-TTAAAATATCAATTTTTCT
12852212 TGCACAAAAG
Statistics
Matches: 83, Mismatches: 10, Indels: 14
0.78 0.09 0.13
Matches are distributed among these distances:
56 1 0.01
57 10 0.12
58 23 0.28
59 35 0.42
60 13 0.16
61 1 0.01
ACGTcount: A:0.43, C:0.07, G:0.12, T:0.38
Consensus pattern (56 bp):
AAAAATATTTTTGAGAAAAAGTTAAAATATCAATTTTTCTCGAAAATAAGCTTTCC
Found at i:12856131 original size:13 final size:13
Alignment explanation
Indices: 12856113--12856144 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
12856103 ACAATGGGTG
*
12856113 AAAAATGAGAAAA
1 AAAAATGAAAAAA
12856126 AAAAATGAAAAAA
1 AAAAATGAAAAAA
12856139 AAAAAT
1 AAAAAT
12856145 TCAAATTGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.81, C:0.00, G:0.09, T:0.09
Consensus pattern (13 bp):
AAAAATGAAAAAA
Found at i:12858030 original size:42 final size:42
Alignment explanation
Indices: 12857956--12858226 Score: 265
Period size: 42 Copynumber: 6.6 Consensus size: 42
12857946 GATTGTTAAT
** * * *
12857956 GAGCAATTTA-TTTTTTAAAGTTGTGGTACCTCTATTTAAAG
1 GAGCAATTTACTTTTCAAAAGTTGAGGTGCCTCTATTTAGAG
* *
12857997 GAGCAATTTACTTTCCAAAAGTTGAGGTGCCTCTGTTTAGAG
1 GAGCAATTTACTTTTCAAAAGTTGAGGTGCCTCTATTTAGAG
* * *
12858039 CAGCAATTTACTTTTCAAAAGTTGAAGTGCCTCTGTTTAGAG
1 GAGCAATTTACTTTTCAAAAGTTGAGGTGCCTCTATTTAGAG
* *
12858081 GAGCACTTTACATTTC-AAAGTT-ATGGTGCCTCTATTTAGAG
1 GAGCAATTTACTTTTCAAAAGTTGA-GGTGCCTCTATTTAGAG
*
12858122 GAGCAATTTACTTTTCAAAAGTT-A--AGCCTCTGA-TTAG-G
1 GAGCAATTTACTTTTCAAAAGTTGAGGTGCCTCT-ATTTAGAG
* ** *
12858160 AGAGCCATTTACTTTTCAAAAGTTGTTGAGCCTCTGA-TTAGAG
1 -GAGCAATTTACTTTTCAAAAGTTGAGGTGCCTCT-ATTTAGAG
*
12858203 GAGCCATTTA-TTTTCCAAAAGTTG
1 GAGCAATTTACTTTT-CAAAAGTTG
12858227 TTGAGCCTCT
Statistics
Matches: 200, Mismatches: 20, Indels: 19
0.84 0.08 0.08
Matches are distributed among these distances:
38 1 0.00
39 32 0.16
40 2 0.01
41 49 0.25
42 115 0.57
43 1 0.00
ACGTcount: A:0.28, C:0.15, G:0.20, T:0.37
Consensus pattern (42 bp):
GAGCAATTTACTTTTCAAAAGTTGAGGTGCCTCTATTTAGAG
Found at i:12858227 original size:42 final size:42
Alignment explanation
Indices: 12857995--12858459 Score: 416
Period size: 42 Copynumber: 11.1 Consensus size: 42
12857985 CTCTATTTAA
* * ** * *
12857995 AGGAGCAATTTACTTTCCAAAAGTTGAGGTGCCTCTGTTTAG
1 AGGAGCCATTTACTTTTCAAAAGTTGTTGAGCCTCTGATTAG
* * ** * *
12858037 AGCAGCAATTTACTTTTCAAAAGTTGAAGTGCCTCTGTTTAG
1 AGGAGCCATTTACTTTTCAAAAGTTGTTGAGCCTCTGATTAG
* * * *
12858079 AGGAG-CACTTTACATTTC-AAAGTTATGGTGCCTCT-ATTTAG
1 AGGAGCCA-TTTACTTTTCAAAAGTTGTTGAGCCTCTGA-TTAG
* *
12858120 AGGAGCAATTTACTTTTCAAAA---GTTAAGCCTCTGATTAG
1 AGGAGCCATTTACTTTTCAAAAGTTGTTGAGCCTCTGATTAG
12858159 -GAGAGCCATTTACTTTTCAAAAGTTGTTGAGCCTCTGATTAG
1 AG-GAGCCATTTACTTTTCAAAAGTTGTTGAGCCTCTGATTAG
12858201 AGGAGCCATTTA-TTTTCCAAAAGTTGTTGAGCCTCTGATTAG
1 AGGAGCCATTTACTTTT-CAAAAGTTGTTGAGCCTCTGATTAG
* * * *
12858243 AGAAG-C-TTTAGTTATTTTAAAAGTCGTTGAGCCTCTGATTAG
1 AGGAGCCATTTA-CT-TTTCAAAAGTTGTTGAGCCTCTGATTAG
* *
12858285 AGAAGCCATTTACTTTTC-AAAGTTGTTGAGCCTCTAATTAG
1 AGGAGCCATTTACTTTTCAAAAGTTGTTGAGCCTCTGATTAG
* * * * *
12858326 AGGAGCCATTCATTTTTTCAAAA-TCGTTGAACCTCTGATTAC
1 AGGAGCCATTTA-CTTTTCAAAAGTTGTTGAGCCTCTGATTAG
* * * *
12858368 AGAAGCTATTTATTTTTCCAAAA-TCGTTGAGCCTCTGATTAG
1 AGGAGCCATTTACTTTT-CAAAAGTTGTTGAGCCTCTGATTAG
* * *
12858410 AGGAGCCTTGTTTATTTTTCAAAAGTCGTTGAGCCTCTGATTAG
1 AGGAGCC--ATTTACTTTTCAAAAGTTGTTGAGCCTCTGATTAG
*
12858454 AAGAGC
1 AGGAGC
12858460 TTTGTTTATG
Statistics
Matches: 360, Mismatches: 41, Indels: 42
0.81 0.09 0.09
Matches are distributed among these distances:
38 1 0.00
39 30 0.08
40 5 0.01
41 74 0.21
42 199 0.55
43 14 0.04
44 37 0.10
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.36
Consensus pattern (42 bp):
AGGAGCCATTTACTTTTCAAAAGTTGTTGAGCCTCTGATTAG
Found at i:12858275 original size:84 final size:84
Alignment explanation
Indices: 12858025--12858459 Score: 385
Period size: 83 Copynumber: 5.2 Consensus size: 84
12858015 AAGTTGAGGT
* * * ** * * *
12858025 GCCTCTGTTTAGAGCAGCAATTTACTTTTCAAAAGTTGAAGTGCCTCTGTTTAGAGGAG-CACTT
1 GCCTCTGATTAGAGGAGCCATTTACTTTTCAAAA-TTGTTGAGCCTCTGATTAGAGAAGCCA-TT
** ** * *
12858089 TA-CATTTC-AAAGTTATGGT
64 TATTTTTTCAAAAGTCGTTGA
* *
12858108 GCCTCT-ATTTAGAGGAGCAATTTACTTTTCAAAA--GTTAAGCCTCTGATTAG-GAGAGCCATT
1 GCCTCTGA-TTAGAGGAGCCATTTACTTTTCAAAATTGTTGAGCCTCTGATTAGAGA-AGCCATT
* *
12858169 TA-CTTTTCAAAAGTTGTTGA
64 TATTTTTTCAAAAGTCGTTGA
12858189 GCCTCTGATTAGAGGAGCCATTTA-TTTTCCAAAAGTTGTTGAGCCTCTGATTAGAGAAG-C-TT
1 GCCTCTGATTAGAGGAGCCATTTACTTTT-CAAAA-TTGTTGAGCCTCTGATTAGAGAAGCCATT
12858251 TAGTTATTTT-AAAAGTCGTTGA
64 TA-TT-TTTTCAAAAGTCGTTGA
* * * * *
12858273 GCCTCTGATTAGAGAAGCCATTTACTTTTCAAAGTTGTTGAGCCTCTAATTAGAGGAGCCATTCA
1 GCCTCTGATTAGAGGAGCCATTTACTTTTCAAAATTGTTGAGCCTCTGATTAGAGAAGCCATTTA
12858338 TTTTTTCAAAA-TCGTTGA
66 TTTTTTCAAAAGTCGTTGA
* * * * * * *
12858356 ACCTCTGATTACAGAAGCTATTTATTTTTCCAAAATCGTTGAGCCTCTGATTAGAGGAGCC-TTG
1 GCCTCTGATTAGAGGAGCCATTTACTTTT-CAAAATTGTTGAGCCTCTGATTAGAGAAGCCATT-
*
12858420 TTTATTTTTCAAAAGTCGTTGA
64 TAT-TTTTTCAAAAGTCGTTGA
*
12858442 GCCTCTGATTAGAAGAGC
1 GCCTCTGATTAGAGGAGC
12858460 TTTGTTTATG
Statistics
Matches: 297, Mismatches: 34, Indels: 39
0.80 0.09 0.11
Matches are distributed among these distances:
79 1 0.00
80 27 0.09
81 36 0.12
82 5 0.02
83 92 0.31
84 92 0.31
85 23 0.08
86 21 0.07
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.36
Consensus pattern (84 bp):
GCCTCTGATTAGAGGAGCCATTTACTTTTCAAAATTGTTGAGCCTCTGATTAGAGAAGCCATTTA
TTTTTTCAAAAGTCGTTGA
Found at i:12858334 original size:125 final size:125
Alignment explanation
Indices: 12858146--12858459 Score: 413
Period size: 125 Copynumber: 2.5 Consensus size: 125
12858136 TCAAAAGTTA
12858146 AGCCTCTGATTAG-GAGAGCCATTTACTTTTCAAAAGTTGTTGAGCCTCTGATTAGAGGAGCCAT
1 AGCCTCTGATTAGAGA-AGCCATTTACTTTTCAAAAGTTGTTGAGCCTCTGATTAGAGGAGCCAT
* * * * *
12858210 TTA-TTTTCCAAAAGTTGTTGAGCCTCTGATTAGAGAAGC-TTTAGTTATTT-TAAAAGTCGTTG
65 TCATTTTTCCAAAA-TCGTTGAACCTCTGATTACAGAAGCATTTA-TT-TTTCCAAAA-TCGTTG
*
12858272 AGCCTCTGATTAGAGAAGCCATTTACTTTTC-AAAGTTGTTGAGCCTCTAATTAGAGGAGCCATT
1 AGCCTCTGATTAGAGAAGCCATTTACTTTTCAAAAGTTGTTGAGCCTCTGATTAGAGGAGCCATT
*
12858336 CATTTTTTCAAAATCGTTGAACCTCTGATTACAGAAGCTATTTATTTTTCCAAAATCGTTG
66 CATTTTTCCAAAATCGTTGAACCTCTGATTACAGAAGC-ATTTATTTTTCCAAAATCGTTG
* * * * *
12858397 AGCCTCTGATTAGAGGAGCCTTGTTTATTTTTCAAAAGTCGTTGAGCCTCTGATTAGAAGAGC
1 AGCCTCTGATTAGAGAAGCC--ATTTACTTTTCAAAAGTTGTTGAGCCTCTGATTAGAGGAGC
12858460 TTTGTTTATG
Statistics
Matches: 167, Mismatches: 13, Indels: 14
0.86 0.07 0.07
Matches are distributed among these distances:
125 83 0.50
126 43 0.26
127 15 0.09
128 26 0.16
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.36
Consensus pattern (125 bp):
AGCCTCTGATTAGAGAAGCCATTTACTTTTCAAAAGTTGTTGAGCCTCTGATTAGAGGAGCCATT
CATTTTTCCAAAATCGTTGAACCTCTGATTACAGAAGCATTTATTTTTCCAAAATCGTTG
Found at i:12858499 original size:45 final size:44
Alignment explanation
Indices: 12858178--12858508 Score: 271
Period size: 42 Copynumber: 7.8 Consensus size: 44
12858168 TTACTTTTCA
* **
12858178 AAAGTTGTTGAGCCTCTGATTAGAGGAGC--CATTTATTTTC-C
1 AAAGTCGTTGAGCCTCTGATTAGAGGAGCTTTGTTTATTTTCTC
* * *
12858219 AAAAGTTGTTGAGCCTCTGATTAGAGAAGCTTTAG-TTA-TTT-TA
1 -AAAGTCGTTGAGCCTCTGATTAGAGGAGCTTT-GTTTATTTTCTC
* ** *
12858262 AAAGTCGTTGAGCCTCTGATTAGAGAAGC--CATTTACTTT-TC
1 AAAGTCGTTGAGCCTCTGATTAGAGGAGCTTTGTTTATTTTCTC
* * ** * *
12858303 AAAGTTGTTGAGCCTCTAATTAGAGGAGC--CATTCATTTTTTC
1 AAAGTCGTTGAGCCTCTGATTAGAGGAGCTTTGTTTATTTTCTC
* * * * *
12858345 AAAATCGTTGAACCTCTGATTACAGAAGC--TATTTATTTT-TCC
1 AAAGTCGTTGAGCCTCTGATTAGAGGAGCTTTGTTTATTTTCT-C
* *
12858387 AAAATCGTTGAGCCTCTGATTAGAGGAGCCTTGTTTATTTT-TC
1 AAAGTCGTTGAGCCTCTGATTAGAGGAGCTTTGTTTATTTTCTC
*
12858430 AAAAGTCGTTGAGCCTCTGATTAGAAGAGCTTTGTTTATGTTTCTC
1 -AAAGTCGTTGAGCCTCTGATTAGAGGAGCTTTGTTTAT-TTTCTC
*
12858476 AAAGTCGTTGAGCCTCT-ACTTAGAGGAGTTTTG
1 AAAGTCGTTGAGCCTCTGA-TTAGAGGAGCTTTG
12858509 ATCAAAATTT
Statistics
Matches: 245, Mismatches: 30, Indels: 25
0.82 0.10 0.08
Matches are distributed among these distances:
40 3 0.01
41 39 0.16
42 116 0.47
43 4 0.02
44 49 0.20
45 32 0.13
46 2 0.01
ACGTcount: A:0.26, C:0.16, G:0.20, T:0.37
Consensus pattern (44 bp):
AAAGTCGTTGAGCCTCTGATTAGAGGAGCTTTGTTTATTTTCTC
Found at i:12858533 original size:1 final size:1
Alignment explanation
Indices: 12858527--12858571 Score: 54
Period size: 1 Copynumber: 45.0 Consensus size: 1
12858517 TTTAACAAGC
* * * *
12858527 AAAAAAAAAAAATAAAAACAAAAAAAAAAAAATAAAAACAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
12858572 GTGTCAAGTT
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
1 36 1.00
ACGTcount: A:0.91, C:0.04, G:0.00, T:0.04
Consensus pattern (1 bp):
A
Found at i:12858550 original size:20 final size:20
Alignment explanation
Indices: 12858527--12858571 Score: 90
Period size: 20 Copynumber: 2.2 Consensus size: 20
12858517 TTTAACAAGC
12858527 AAAAAAAAAAAATAAAAACA
1 AAAAAAAAAAAATAAAAACA
12858547 AAAAAAAAAAAATAAAAACA
1 AAAAAAAAAAAATAAAAACA
12858567 AAAAA
1 AAAAA
12858572 GTGTCAAGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.91, C:0.04, G:0.00, T:0.04
Consensus pattern (20 bp):
AAAAAAAAAAAATAAAAACA
Found at i:12858819 original size:23 final size:23
Alignment explanation
Indices: 12858793--12858870 Score: 77
Period size: 23 Copynumber: 3.2 Consensus size: 23
12858783 TTAATATATA
12858793 TATTTTTATTTTTTCTTTTTATC
1 TATTTTTATTTTTTCTTTTTATC
** *
12858816 TATTAATATTTTTAT-TATTTATC
1 TATTTTTATTTTT-TCTTTTTATC
12858839 TATTTTTATTTTTTACTATTATTTATC
1 TATTTTTATTTTTT-C--TT-TTTATC
12858866 TATTT
1 TATTT
12858871 CTTTTATTTA
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
22 1 0.02
23 29 0.67
24 1 0.02
26 1 0.02
27 11 0.26
ACGTcount: A:0.22, C:0.06, G:0.00, T:0.72
Consensus pattern (23 bp):
TATTTTTATTTTTTCTTTTTATC
Found at i:12858828 original size:17 final size:17
Alignment explanation
Indices: 12858808--12858911 Score: 52
Period size: 17 Copynumber: 6.0 Consensus size: 17
12858798 TTATTTTTTC
12858808 TTTTTATCTATTAATA-
1 TTTTTATCTATTAATAT
* *
12858824 TTTTTAT-TATTTATCT
1 TTTTTATCTATTAATAT
* * *
12858840 ATTTTTATTTTTTACTAT
1 -TTTTTATCTATTAATAT
* **
12858858 TATTTATCTATTTCT-T
1 TTTTTATCTATTAATAT
* *
12858874 TTATTTATCTAATTATTTTT
1 TT-TTTATCT-ATTA-ATAT
12858894 TTTGTTATCTATTAATAT
1 TTT-TTATCTATTAATAT
12858912 ATTTATCTTT
Statistics
Matches: 65, Mismatches: 15, Indels: 14
0.69 0.16 0.15
Matches are distributed among these distances:
15 6 0.09
16 9 0.14
17 25 0.38
18 10 0.15
19 6 0.09
20 9 0.14
ACGTcount: A:0.24, C:0.07, G:0.01, T:0.68
Consensus pattern (17 bp):
TTTTTATCTATTAATAT
Found at i:12858880 original size:27 final size:28
Alignment explanation
Indices: 12858828--12858891 Score: 87
Period size: 27 Copynumber: 2.3 Consensus size: 28
12858818 TTAATATTTT
*
12858828 TATTATTTATCTATTTTTATTTTTTA-C
1 TATTATTTATCTATTTTTATTATTTATC
12858855 TATTATTTATCTATTTCTT-TTATTTATC
1 TATTATTTATCTATTT-TTATTATTTATC
12858883 TAATTATTT
1 T-ATTATTT
12858892 TTTTTGTTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
27 22 0.67
28 4 0.12
29 7 0.21
ACGTcount: A:0.23, C:0.08, G:0.00, T:0.69
Consensus pattern (28 bp):
TATTATTTATCTATTTTTATTATTTATC
Found at i:12858925 original size:24 final size:23
Alignment explanation
Indices: 12858824--12858925 Score: 75
Period size: 24 Copynumber: 4.3 Consensus size: 23
12858814 TCTATTAATA
* *
12858824 TTTTTAT-TATTTATCTATTTTTAT
1 TTTTTATCTATTAAT-TATTTAT-T
* *
12858848 TTTTTA-CTATTATTTATCTATT
1 TTTTTATCTATTAATTATTTATT
*
12858870 TCTTTTATTTATCTAATTATTT-TT
1 T-TTTTATCTAT-TAATTATTTATT
*
12858894 TTTGTTATCTATTAATATATTTATC
1 TTT-TTATCTATTAAT-TATTTATT
12858919 TTTTTAT
1 TTTTTAT
12858926 TTTGATTAAT
Statistics
Matches: 62, Mismatches: 9, Indels: 14
0.73 0.11 0.16
Matches are distributed among these distances:
22 2 0.03
23 16 0.26
24 33 0.53
25 11 0.18
ACGTcount: A:0.23, C:0.07, G:0.01, T:0.70
Consensus pattern (23 bp):
TTTTTATCTATTAATTATTTATT
Found at i:12859210 original size:13 final size:13
Alignment explanation
Indices: 12859192--12859216 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12859182 CCTCAAGTCG
12859192 AGCTGAGCCGTTA
1 AGCTGAGCCGTTA
12859205 AGCTGAGCCGTT
1 AGCTGAGCCGTT
12859217 CCTAGGTTTT
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:0.20, C:0.24, G:0.32, T:0.24
Consensus pattern (13 bp):
AGCTGAGCCGTTA
Found at i:12859302 original size:17 final size:17
Alignment explanation
Indices: 12859282--12859365 Score: 79
Period size: 17 Copynumber: 5.1 Consensus size: 17
12859272 TTTAATATTC
*
12859282 TTTTATTTTTATCTTTG
1 TTTTATTTTTATCTTTA
*
12859299 TTTTATTTTTATTTTTA
1 TTTTATTTTTATCTTTA
*
12859316 TTTTA-CTTT-TCTTTA
1 TTTTATTTTTATCTTTA
*
12859331 TTTTTATTTTCA-CTTTTA
1 -TTTTATTTTTATC-TTTA
12859349 TTTTA-TTTTAT-TTTA
1 TTTTATTTTTATCTTTA
12859364 TT
1 TT
12859366 ATTTTATTTT
Statistics
Matches: 55, Mismatches: 7, Indels: 12
0.74 0.09 0.16
Matches are distributed among these distances:
15 11 0.20
16 12 0.22
17 28 0.51
18 4 0.07
ACGTcount: A:0.15, C:0.06, G:0.01, T:0.77
Consensus pattern (17 bp):
TTTTATTTTTATCTTTA
Found at i:12859307 original size:5 final size:5
Alignment explanation
Indices: 12859282--12859375 Score: 77
Period size: 5 Copynumber: 17.8 Consensus size: 5
12859272 TTTAATATTC
* *
12859282 TTTTA TTTTTA TCTTTG TTTTA TTTTTA TTTTTA TTTTA CTTTT- CTTTA
1 TTTTA -TTTTA T-TTTA TTTTA -TTTTA -TTTTA TTTTA -TTTTA TTTTA
12859331 TTTTTA TTTTCA CTTTTA TTTTA TTTTA TTTTA --TTA TTTTA TTTT
1 -TTTTA TTTT-A -TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
12859376 CTTTAAATAA
Statistics
Matches: 75, Mismatches: 4, Indels: 19
0.77 0.04 0.19
Matches are distributed among these distances:
3 3 0.04
4 3 0.04
5 35 0.47
6 30 0.40
7 4 0.05
ACGTcount: A:0.16, C:0.05, G:0.01, T:0.78
Consensus pattern (5 bp):
TTTTA
Found at i:12859309 original size:23 final size:21
Alignment explanation
Indices: 12859283--12859375 Score: 93
Period size: 22 Copynumber: 4.4 Consensus size: 21
12859273 TTAATATTCT
**
12859283 TTTATTTTTATCTTTGTTTTATT
1 TTTATTTTTAT-TTTACTTT-TT
*
12859306 TTTATTTTTATTTTACTTTTC
1 TTTATTTTTATTTTACTTTTT
12859327 TTTATTTTTATTTTCACTTTTAT
1 TTTATTTTTATTTT-ACTTTT-T
*
12859350 TTTA-TTTTATTTTA--TTAT
1 TTTATTTTTATTTTACTTTTT
12859368 TTTATTTT
1 TTTATTTT
12859376 CTTTAAATAA
Statistics
Matches: 62, Mismatches: 5, Indels: 10
0.81 0.06 0.13
Matches are distributed among these distances:
18 5 0.08
19 5 0.08
21 16 0.26
22 21 0.34
23 15 0.24
ACGTcount: A:0.16, C:0.05, G:0.01, T:0.77
Consensus pattern (21 bp):
TTTATTTTTATTTTACTTTTT
Found at i:12859340 original size:33 final size:35
Alignment explanation
Indices: 12859299--12859376 Score: 99
Period size: 33 Copynumber: 2.3 Consensus size: 35
12859289 TTTATCTTTG
* *
12859299 TTTTATTTTTATTTTTATTTTACTTTT-CTTTA-T-
1 TTTTATTTTCACTTTTATTTTA-TTTTACTTTATTA
*
12859332 TTTTATTTTCACTTTTATTTTATTTTATTTTATTA
1 TTTTATTTTCACTTTTATTTTATTTTACTTTATTA
12859367 TTTTATTTTC
1 TTTTATTTTC
12859377 TTTAAATAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
32 4 0.10
33 24 0.62
34 1 0.03
35 10 0.26
ACGTcount: A:0.17, C:0.06, G:0.00, T:0.77
Consensus pattern (35 bp):
TTTTATTTTCACTTTTATTTTATTTTACTTTATTA
Found at i:12859380 original size:22 final size:22
Alignment explanation
Indices: 12859306--12859380 Score: 64
Period size: 23 Copynumber: 3.2 Consensus size: 22
12859296 TTGTTTTATT
12859306 TTTA-TTT-TTATTTTACTTTTC
1 TTTATTTTATTATTTTA-TTTTC
*
12859327 TTTATTTTTATTTTCACTTTTATTTTAT
1 TTTA-TTTTA--TT-A-TTTTATTTT-C
12859355 TTTATTTTATTATTTTATTTTC
1 TTTATTTTATTATTTTATTTTC
12859377 TTTA
1 TTTA
12859381 AATAAAATCC
Statistics
Matches: 44, Mismatches: 2, Indels: 15
0.72 0.03 0.25
Matches are distributed among these distances:
21 4 0.09
22 4 0.09
23 12 0.27
24 1 0.02
25 2 0.05
26 2 0.05
27 10 0.23
28 9 0.20
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.76
Consensus pattern (22 bp):
TTTATTTTATTATTTTATTTTC
Found at i:12859380 original size:27 final size:26
Alignment explanation
Indices: 12859282--12859380 Score: 94
Period size: 28 Copynumber: 3.6 Consensus size: 26
12859272 TTTAATATTC
*
12859282 TTTTATTTTTATCTTTGTTTTATTTTTA
1 TTTTA-TTTTA-CTTTATTTTATTTTTA
12859310 TTTTTATTTTACTTT-TCTTTATTTTTA
1 -TTTTATTTTACTTTAT-TTTATTTTTA
*
12859337 TTTTCACTTTTATTTTATTTTATTTTATTA
1 TTTT-A-TTTTACTTTATTTTA-TTT-TTA
12859367 TTTTATTTT-CTTTA
1 TTTTATTTTACTTTA
12859381 AATAAAATCC
Statistics
Matches: 62, Mismatches: 2, Indels: 14
0.79 0.03 0.18
Matches are distributed among these distances:
26 5 0.08
27 19 0.31
28 21 0.34
29 10 0.16
30 7 0.11
ACGTcount: A:0.16, C:0.06, G:0.01, T:0.77
Consensus pattern (26 bp):
TTTTATTTTACTTTATTTTATTTTTA
Found at i:12859531 original size:59 final size:58
Alignment explanation
Indices: 12859392--12859603 Score: 263
Period size: 59 Copynumber: 3.7 Consensus size: 58
12859382 ATAAAATCCA
* * * *
12859392 AAAAAACTATTTTTGGAGAAAAGTTGAAAGTATCAATTTTCCTTGAAAAT-AAGCTTTCC
1 AAAAAA-TATTTTGGGAGAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAG-TTTCC
** *
12859451 AAAAAATATTTTCAGAGAAAAGTTGAAAGTATAAATTTTTCTCGAAATTAAAGTTTCC
1 AAAAAATATTTTGGGAGAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAGTTTCC
* *
12859509 AGAAAAATATTTTTGGGA-AAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAATTTCT
1 A-AAAAATA-TTTTGGGAGAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAGTTTCC
*
12859568 AAAAAATA-TTTAGG-GAAAAGTTG-AAGTATCAATTTT
1 AAAAAATATTTTGGGAGAAAAGTTGAAAGTATCAATTTT
12859604 CTCTGCACAA
Statistics
Matches: 137, Mismatches: 12, Indels: 12
0.85 0.07 0.07
Matches are distributed among these distances:
55 13 0.09
56 13 0.09
58 50 0.36
59 55 0.40
60 6 0.04
ACGTcount: A:0.43, C:0.08, G:0.14, T:0.35
Consensus pattern (58 bp):
AAAAAATATTTTGGGAGAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAGTTTCC
Found at i:12859531 original size:117 final size:115
Alignment explanation
Indices: 12859388--12859603 Score: 301
Period size: 117 Copynumber: 1.9 Consensus size: 115
12859378 TTAAATAAAA
* **
12859388 TCCAAAAAAACTATTTTTGGAGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCTTTCCAA
1 TCCAAAAAAACTATTTTTGGAGAAAAGTTGAAAGTATCAATTTTCCTCGAAAATAAAATTTCCAA
12859453 AAAATATTTTCAGAGAAAAGTTGAAAGTATAAATTTTTCTCGAAATTAAAGTT
66 AAAATA-TTT-AGAGAAAAGTTG-AAGTATAAATTTTTCTCGAAATTAAAGTT
* * * *
12859506 TCCAGAAAAA-TATTTTTGG-GAAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAATTTCTA
1 TCCAAAAAAACTATTTTTGGAG-AAAAGTTGAAAGTATCAATTTTCCTCGAAAATAAAATTTCCA
* *
12859569 AAAAATATTTAGGGAAAAGTTGAAGTATCAATTTT
65 AAAAATATTTAGAGAAAAGTTGAAGTATAAATTTT
12859604 CTCTGCACAA
Statistics
Matches: 88, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
114 12 0.14
115 11 0.12
116 4 0.05
117 52 0.59
118 9 0.10
ACGTcount: A:0.43, C:0.09, G:0.13, T:0.35
Consensus pattern (115 bp):
TCCAAAAAAACTATTTTTGGAGAAAAGTTGAAAGTATCAATTTTCCTCGAAAATAAAATTTCCAA
AAAATATTTAGAGAAAAGTTGAAGTATAAATTTTTCTCGAAATTAAAGTT
Found at i:12861650 original size:72 final size:72
Alignment explanation
Indices: 12861529--12861663 Score: 182
Period size: 72 Copynumber: 1.9 Consensus size: 72
12861519 ACAAATTTAT
* * * *
12861529 TTATTTTTTTTGGATTGTCACTATTGATGTTGCATTTGTTTCGAAAAATTGATCATGATTCTACT
1 TTATATTTTTGGGATTGTCACTATTAATGTTGCATTTGTTTAGAAAAATTGATCATGATTCTACT
12861594 AGAAAAC
66 AGAAAAC
* * **
12861601 TTATATTTTTGGGATTGTTACTATTAATGTTGCATTTGTTTTAG-GAAATTGATTTTGATTCTA
1 TTATATTTTTGGGATTGTCACTATTAATGTTGCATTTG-TTTAGAAAAATTGATCATGATTCTA
12861664 TTGGTAAATT
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
72 50 0.93
73 4 0.07
ACGTcount: A:0.26, C:0.08, G:0.16, T:0.50
Consensus pattern (72 bp):
TTATATTTTTGGGATTGTCACTATTAATGTTGCATTTGTTTAGAAAAATTGATCATGATTCTACT
AGAAAAC
Found at i:12863302 original size:28 final size:27
Alignment explanation
Indices: 12863263--12863319 Score: 78
Period size: 28 Copynumber: 2.1 Consensus size: 27
12863253 ATTAATTCAC
*
12863263 ATATATATAAAAATCAAACATAAAAGTT
1 ATATATATAAAAATCAAAAATAAAA-TT
* *
12863291 ATATATGTAAAAATTAAAAATAAAATT
1 ATATATATAAAAATCAAAAATAAAATT
12863318 AT
1 AT
12863320 TTTTAATTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
27 4 0.15
28 22 0.85
ACGTcount: A:0.61, C:0.04, G:0.04, T:0.32
Consensus pattern (27 bp):
ATATATATAAAAATCAAAAATAAAATT
Found at i:12865523 original size:17 final size:17
Alignment explanation
Indices: 12865497--12865529 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
12865487 CAATGTAAAA
*
12865497 TATAACTATTTTAATAG
1 TATAAATATTTTAATAG
12865514 TATAAATATTTTAATA
1 TATAAATATTTTAATA
12865530 ATAAATAGTA
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:0.45, C:0.03, G:0.03, T:0.48
Consensus pattern (17 bp):
TATAAATATTTTAATAG
Found at i:12865535 original size:15 final size:16
Alignment explanation
Indices: 12865498--12865536 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
12865488 AATGTAAAAT
*
12865498 ATAACTATTTTAATAG
1 ATAAATATTTTAATAG
12865514 TATAAATATTTTAATA-
1 -ATAAATATTTTAATAG
12865530 ATAAATA
1 ATAAATA
12865537 GTACTATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 7 0.33
17 14 0.67
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.44
Consensus pattern (16 bp):
ATAAATATTTTAATAG
Found at i:12865582 original size:20 final size:20
Alignment explanation
Indices: 12865553--12865591 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
12865543 TTTTAATATT
12865553 AATAAAAATAATATTTTAAG
1 AATAAAAATAATATTTTAAG
* *
12865573 AATAATAATACTATTTTAA
1 AATAAAAATAATATTTTAA
12865592 ATATTTTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (20 bp):
AATAAAAATAATATTTTAAG
Found at i:12865602 original size:43 final size:45
Alignment explanation
Indices: 12865518--12865623 Score: 123
Period size: 43 Copynumber: 2.4 Consensus size: 45
12865508 TAATAGTATA
* *
12865518 AATATTTTAATAATAAATAGTACTATTTTAATATTAATAAAA-A-T
1 AATATTTTAAGAAT-AATAATACTATTTTAATATTAATAAAATATT
*
12865562 AATATTTTAAGAATAATAATACTATTTTAAATATT-TTAAAATATT
1 AATATTTTAAGAATAATAATACTATTTT-AATATTAATAAAATATT
*
12865607 AATA--TAAAGAATAATAA
1 AATATTTTAAGAATAATAA
12865624 ATAGTTTTAT
Statistics
Matches: 55, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
43 30 0.55
44 20 0.36
45 5 0.09
ACGTcount: A:0.54, C:0.02, G:0.03, T:0.42
Consensus pattern (45 bp):
AATATTTTAAGAATAATAATACTATTTTAATATTAATAAAATATT
Found at i:12869341 original size:2 final size:2
Alignment explanation
Indices: 12869334--12869367 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
12869324 ATTATTAATG
12869334 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
12869368 CCCCGTTACT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:12873746 original size:3 final size:3
Alignment explanation
Indices: 12873738--12873787 Score: 91
Period size: 3 Copynumber: 16.7 Consensus size: 3
12873728 TTTCTTTACT
*
12873738 TTA TTA TTA TTA TTA TTA CTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
12873786 TT
1 TT
12873788 CTTTAGATTT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:12874129 original size:2 final size:2
Alignment explanation
Indices: 12874122--12874150 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
12874112 GTCTTTCTAT
12874122 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
12874151 TTAATGCTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:12877737 original size:23 final size:22
Alignment explanation
Indices: 12877711--12877764 Score: 54
Period size: 23 Copynumber: 2.4 Consensus size: 22
12877701 TAAAGCATTT
*
12877711 TATTAAATTAAGATATTAAATAA
1 TATTAAATTAAGATAATAAAT-A
** *
12877734 TATTTTATTAATATAATAAATA
1 TATTAAATTAAGATAATAAATA
12877756 TATATAAAT
1 TAT-TAAAT
12877765 ATAAAATCAA
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
22 4 0.17
23 20 0.83
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (22 bp):
TATTAAATTAAGATAATAAATA
Found at i:12878067 original size:9 final size:8
Alignment explanation
Indices: 12878011--12878080 Score: 59
Period size: 9 Copynumber: 8.0 Consensus size: 8
12878001 CGTGTTATTT
12878011 AATAAAAA
1 AATAAAAA
12878019 AATAAAAACA
1 AAT-AAAA-A
*
12878029 AAAAAAAGCA
1 AATAAAA--A
*
12878039 AAAAAAAA
1 AATAAAAA
*
12878047 AATGAAATA
1 AAT-AAAAA
12878056 AATAACAAA
1 AATAA-AAA
12878065 AATAAAAA
1 AATAAAAA
12878073 AATAAAAA
1 AATAAAAA
12878081 TAAAAACATG
Statistics
Matches: 53, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
8 19 0.36
9 22 0.42
10 12 0.23
ACGTcount: A:0.83, C:0.04, G:0.03, T:0.10
Consensus pattern (8 bp):
AATAAAAA
Found at i:12878071 original size:26 final size:25
Alignment explanation
Indices: 12878014--12878088 Score: 73
Period size: 27 Copynumber: 2.8 Consensus size: 25
12878004 GTTATTTAAT
*
12878014 AAAAAAATAAAAACAAAAA-AAAGCAA
1 AAAAAAATAAAAATAAAAACAAA--AA
12878040 AAAAAAA-AATGAAATAAATAACAAAAA
1 AAAAAAATAA--AAATAAA-AACAAAAA
12878067 TAAAAAAATAAAAATAAAAACA
1 -AAAAAAATAAAAATAAAAACA
12878089 TGAAAGTTGA
Statistics
Matches: 42, Mismatches: 1, Indels: 12
0.76 0.02 0.22
Matches are distributed among these distances:
25 2 0.05
26 11 0.26
27 15 0.36
28 9 0.21
29 5 0.12
ACGTcount: A:0.83, C:0.05, G:0.03, T:0.09
Consensus pattern (25 bp):
AAAAAAATAAAAATAAAAACAAAAA
Found at i:12879225 original size:8 final size:8
Alignment explanation
Indices: 12879182--12879232 Score: 50
Period size: 8 Copynumber: 6.2 Consensus size: 8
12879172 AAATTACTTT
12879182 AATAAAAA
1 AATAAAAA
*
12879190 ATTAAAAA
1 AATAAAAA
**
12879198 AA-ATGAA
1 AATAAAAA
12879205 AATGAAAAA
1 AAT-AAAAA
12879214 AATAAAAA
1 AATAAAAA
12879222 AATAAGAAA
1 AATAA-AAA
12879231 AA
1 AA
12879233 AAATTCATTG
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
7 5 0.15
8 18 0.53
9 11 0.32
ACGTcount: A:0.80, C:0.00, G:0.06, T:0.14
Consensus pattern (8 bp):
AATAAAAA
Found at i:12879230 original size:25 final size:24
Alignment explanation
Indices: 12879185--12879231 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
12879175 TTACTTTAAT
* *
12879185 AAAAAATTAAAAAAAATGAAAATG
1 AAAAAAATAAAAAAAAAGAAAATG
12879209 AAAAAAATAAAAAAATAAGAAAA
1 AAAAAAATAAAAAAA-AAGAAAA
12879232 AAAATTCATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.81, C:0.00, G:0.06, T:0.13
Consensus pattern (24 bp):
AAAAAAATAAAAAAAAAGAAAATG
Found at i:12879911 original size:27 final size:27
Alignment explanation
Indices: 12879881--12879936 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
12879871 AAAATCAACT
12879881 AATTAAAAA-AAAAGAAGAAATAA-CAAA
1 AATTAAAAAGAAAAGAA-AAA-AAGCAAA
12879908 AATTAAAAAGAAAAGAAAAAAAGCAAA
1 AATTAAAAAGAAAAGAAAAAAAGCAAA
12879935 AA
1 AA
12879937 AAAAAAGGTG
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
26 2 0.07
27 18 0.67
28 7 0.26
ACGTcount: A:0.79, C:0.04, G:0.09, T:0.09
Consensus pattern (27 bp):
AATTAAAAAGAAAAGAAAAAAAGCAAA
Found at i:12880413 original size:14 final size:13
Alignment explanation
Indices: 12880382--12880406 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12880372 AAAAATAGCA
12880382 AAAAAAATAAAGG
1 AAAAAAATAAAGG
12880395 AAAAAAATAAAG
1 AAAAAAATAAAG
12880407 CTAAAAAGCT
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:0.80, C:0.00, G:0.12, T:0.08
Consensus pattern (13 bp):
AAAAAAATAAAGG
Found at i:12884937 original size:5 final size:5
Alignment explanation
Indices: 12884927--12884968 Score: 50
Period size: 6 Copynumber: 8.0 Consensus size: 5
12884917 TAGGGTTTAA
12884927 ATTTT ATTTT ATTTTT ATTTTT ATTTT A-TTT ATTTAT ATTTT
1 ATTTT ATTTT A-TTTT A-TTTT ATTTT ATTTT ATTT-T ATTTT
12884969 TACTTCTATT
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
4 4 0.12
5 14 0.41
6 16 0.47
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
ATTTT
Found at i:12884944 original size:11 final size:11
Alignment explanation
Indices: 12884928--12884968 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
12884918 AGGGTTTAAA
12884928 TTTTATTTTAT
1 TTTTATTTTAT
12884939 TTTTATTTT-T
1 TTTTATTTTAT
12884949 ATTTTA-TTTAT
1 -TTTTATTTTAT
*
12884960 TTATATTTT
1 TTTTATTTT
12884969 TACTTCTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
10 8 0.31
11 18 0.69
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (11 bp):
TTTTATTTTAT
Found at i:12884957 original size:27 final size:28
Alignment explanation
Indices: 12884927--12884985 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 28
12884917 TAGGGTTTAA
* * *
12884927 ATTTTATTT-TATTTTTATTTTTATTTT
1 ATTTTATTTATATTTTTACTTCTATTGT
12884954 A-TTTATTTATATTTTTACTTCTATTGT
1 ATTTTATTTATATTTTTACTTCTATTGT
12884981 ATTTT
1 ATTTT
12884986 CTATGTACAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 7 0.26
27 17 0.63
28 3 0.11
ACGTcount: A:0.20, C:0.03, G:0.02, T:0.75
Consensus pattern (28 bp):
ATTTTATTTATATTTTTACTTCTATTGT
Found at i:12885961 original size:4 final size:4
Alignment explanation
Indices: 12885952--12886059 Score: 60
Period size: 4 Copynumber: 26.5 Consensus size: 4
12885942 TACATTTAGG
* * *
12885952 TTAT TTAT TTAT TTAT TTATT TTGT TTGA- TTAT TTCT TCAT TTAT TTA-
1 TTAT TTAT TTAT TTAT TTA-T TTAT TT-AT TTAT TTAT TTAT TTAT TTAT
* * * * * *
12886000 -TAT TTTT TTAT GTGT TTAT TTGTT TGTAT TTAT TTGT TTAT TTGGT TTAT
1 TTAT TTAT TTAT TTAT TTAT TT-AT T-TAT TTAT TTAT TTAT TT-AT TTAT
*
12886050 TCAT TTAT TT
1 TTAT TTAT TT
12886060 GTAAACTTTT
Statistics
Matches: 76, Mismatches: 20, Indels: 16
0.68 0.18 0.14
Matches are distributed among these distances:
2 2 0.03
3 1 0.01
4 62 0.82
5 10 0.13
6 1 0.01
ACGTcount: A:0.18, C:0.03, G:0.08, T:0.71
Consensus pattern (4 bp):
TTAT
Found at i:12886020 original size:22 final size:22
Alignment explanation
Indices: 12885992--12886042 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
12885982 TATTTCTTCA
*
12885992 TTTATTTATATT-TTTTTATGTG
1 TTTATTTAT-TTGTATTTATGTG
* *
12886014 TTTATTTGTTTGTATTTATTTG
1 TTTATTTATTTGTATTTATGTG
12886036 TTTATTT
1 TTTATTT
12886043 GGTTTATTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 2 0.08
22 23 0.92
ACGTcount: A:0.16, C:0.00, G:0.10, T:0.75
Consensus pattern (22 bp):
TTTATTTATTTGTATTTATGTG
Found at i:12887343 original size:2 final size:2
Alignment explanation
Indices: 12887336--12887373 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
12887326 TAGTTTTCAT
12887336 TA TA TA TA TA TA TA TA TA 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
12887374 CACTAATTGG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:12888925 original size:63 final size:64
Alignment explanation
Indices: 12888803--12888981 Score: 177
Period size: 64 Copynumber: 2.8 Consensus size: 64
12888793 GATTTTTTGT
* ** * **
12888803 CAAAAATGCCTTCAATAATCCATTTAAAAAATTTTGAAAAAAGATTATT-AAAGCCGTTTTCGG
1 CAAAAATGCCTTCAATAATTCATACAAAAAATTTTGATAAGGGATTATTGAAAGCCGTTTTCGG
* * * *
12888866 CAAAAAATGCCTTCAATAATTCATACAAAAAATTTTG-TAGGGGATTATTGAAAG-TGTTTTTGT
1 C-AAAAATGCCTTCAATAATTCATACAAAAAATTTTGATAAGGGATTATTGAAAGCCGTTTTCGG
* * * *
12888929 CAAAAACGTCTTTAATAA-TCTAAACAAAAAATTTTGATGAAGGGATTATTGAA
1 CAAAAATGCCTTCAATAATTC-ATACAAAAAATTTTGAT-AAGGGATTATTGAA
12888982 GGGATTTTTG
Statistics
Matches: 96, Mismatches: 15, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
61 2 0.02
62 28 0.29
63 17 0.18
64 49 0.51
ACGTcount: A:0.42, C:0.11, G:0.13, T:0.33
Consensus pattern (64 bp):
CAAAAATGCCTTCAATAATTCATACAAAAAATTTTGATAAGGGATTATTGAAAGCCGTTTTCGG
Found at i:12889034 original size:64 final size:65
Alignment explanation
Indices: 12888906--12889092 Score: 179
Period size: 64 Copynumber: 2.9 Consensus size: 65
12888896 AATTTTGTAG
* * ** * **
12888906 GGGATTATTGAAAGTG-TTTTTG-TCAAAAACGTCTTTAATAATCTAAACAA-AAAATTT-TGAT
1 GGGATTATT-AAAGGGATTTTTGACCAAAAACACCTTCAATAATCTACTCAACAAAATTTAT--T
12888967 GAA
63 GAA
* * * *
12888970 GGGATTATTGAAGGGATTTTTGGCCGAAAACACTTTCAATAATCT-CTCATA-AAAATTTATTGA
1 GGGATTATTAAAGGGATTTTTGACCAAAAACACCTTCAATAATCTACTCA-ACAAAATTTATTGA
12889033 A
65 A
* *
12889034 GGGATTATTAAAGGTATTTTTGACCAAAAATACCTTCAATAATCTACTCAACAAAATTT
1 GGGATTATTAAAGGGATTTTTGACCAAAAACACCTTCAATAATCTACTCAACAAAATTT
12889093 TAAAAAGATT
Statistics
Matches: 101, Mismatches: 16, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
63 4 0.04
64 61 0.60
65 35 0.35
66 1 0.01
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.35
Consensus pattern (65 bp):
GGGATTATTAAAGGGATTTTTGACCAAAAACACCTTCAATAATCTACTCAACAAAATTTATTGAA
Found at i:12889203 original size:62 final size:59
Alignment explanation
Indices: 12889004--12889345 Score: 179
Period size: 62 Copynumber: 5.5 Consensus size: 59
12888994 CGAAAACACT
* * * *
12889004 TTCAATAATCTCTCATAAAAATTTATTGAAGGGATTATTAAAGGTATTTTTGACCAAAAATACC
1 TTCAATAATCCCT-ATAAAAATTTATTG-AGGGATTATTGAATGTGTTTTT-A--AAAAATACC
* ** ** * *
12889068 TTCAATAATCTACTCA-ACAAAATTT-TAAAAAGATTATT-AAAGATGTTTTTGACAAAAAATGC
1 TTCAATAATC-CCT-ATA-AAAATTTATTGAGGGATTATTGAATG-TGTTTTT---AAAAAATAC
*
12889130 T
59 C
* * * *
12889131 TTTAACAATCCCTCATAAAAATTTATTGAGGAGATTATTGAATGCGTTTTTAACAAAATGCC
1 TTCAATAATCCCT-ATAAAAATTTATTGAGG-GATTATTGAATGTGTTTTTAA-AAAATACC
* * ** * * * *
12889193 TTTAATAATCCAT-TTCAAATTTTTTCAGGGGATTATTGAAGGTGTTTTGATGAAAAATACC
1 TTCAATAATCCCTATAAAAATTTATTGA-GGGATTATTGAATGTGTTTT--TAAAAAATACC
* * * * * *
12889254 TTCAATAATCCCTTTTAAATTTTGTTGATGGGATTATTGAAGATTTTTTTTTCAAAAAATACC
1 TTCAATAATCCCTATAAAAATTTATTGA-GGGATTATTG-A-ATGTGTTTTT-AAAAAATACC
12889317 TTCAATAATCCCTCATAAAAATTTATTGA
1 TTCAATAATCCCT-ATAAAAATTTATTGA
12889346 AAGAATTATT
Statistics
Matches: 215, Mismatches: 45, Indels: 36
0.73 0.15 0.12
Matches are distributed among these distances:
60 26 0.12
61 22 0.10
62 55 0.26
63 55 0.26
64 42 0.20
65 15 0.07
ACGTcount: A:0.38, C:0.12, G:0.11, T:0.39
Consensus pattern (59 bp):
TTCAATAATCCCTATAAAAATTTATTGAGGGATTATTGAATGTGTTTTTAAAAAATACC
Found at i:12889240 original size:60 final size:60
Alignment explanation
Indices: 12889149--12889327 Score: 171
Period size: 60 Copynumber: 2.9 Consensus size: 60
12889139 TCCCTCATAA
* * * * *
12889149 AAATTTATTGAGGAGATTATTGAATGCGTTTT-TAACAAAATGCCTTTAATAATCCATTTC
1 AAATTTTTTGAGGGGATTATTGAAGGCGTTTTATAA-AAAATACCTTCAATAATCCATTTC
* * * * *
12889209 AAATTTTTTCAGGGGATTATTGAAGGTGTTTTGATGAAAAATACCTTCAATAATCCCTTTT
1 AAATTTTTTGAGGGGATTATTGAAGGCGTTTT-ATAAAAAATACCTTCAATAATCCATTTC
* *** *
12889270 AAATTTTGTTGATGGGATTATTGAAGATTTTTTTTTCAAAAAATACCTTCAATAATCC
1 AAATTTT-TTGAGGGGATTATTGAAG-GCGTTTTAT-AAAAAATACCTTCAATAATCC
12889328 CTCATAAAAA
Statistics
Matches: 98, Mismatches: 16, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
60 27 0.28
61 27 0.28
62 19 0.19
63 25 0.26
ACGTcount: A:0.34, C:0.11, G:0.14, T:0.41
Consensus pattern (60 bp):
AAATTTTTTGAGGGGATTATTGAAGGCGTTTTATAAAAAATACCTTCAATAATCCATTTC
Found at i:12889322 original size:63 final size:61
Alignment explanation
Indices: 12889177--12889329 Score: 180
Period size: 61 Copynumber: 2.5 Consensus size: 61
12889167 ATTGAATGCG
* * * *
12889177 TTTTTAACAAAATGCCTTTAATAATCCATTTCAAATTTTTTCAGGGGATTATTGAAGGTGTT
1 TTTTTAA-AAAATACCTTCAATAATCCCTTTCAAATTTTTTCAGGGGATTATTGAAGATGTT
** * * * * *
12889239 TTGATGAAAAATACCTTCAATAATCCCTTTTAAATTTTGTTGATGGGATTATTGAAGATTTT
1 TTTTTAAAAAATACCTTCAATAATCCCTTTCAAATTTT-TTCAGGGGATTATTGAAGATGTT
12889301 TTTTTCAAAAAATACCTTCAATAATCCCT
1 TTTTT-AAAAAATACCTTCAATAATCCCT
12889330 CATAAAAATT
Statistics
Matches: 75, Mismatches: 14, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
61 27 0.36
62 26 0.35
63 22 0.29
ACGTcount: A:0.33, C:0.13, G:0.12, T:0.42
Consensus pattern (61 bp):
TTTTTAAAAAATACCTTCAATAATCCCTTTCAAATTTTTTCAGGGGATTATTGAAGATGTT
Found at i:12889367 original size:63 final size:63
Alignment explanation
Indices: 12888966--12889367 Score: 239
Period size: 63 Copynumber: 6.4 Consensus size: 63
12888956 AAAATTTTGA
* * ** * * *
12888966 TGAAGGGATTATTGAAGGGATTTTTGGCCGAAAACACTTTCAATAATCTCTCATAAAAATTTAT
1 TGAAGGGATTATTGAAGGTATTTTT-TCAAAAAATACCTTCAATAATCCCTCATAAAAATTTAT
* * * *
12889030 TGAAGGGATTATTAAAGGTATTTTTGACCAAAAATACCTTCAATAATCTACTCA-ACAAAA-TT-
1 TGAAGGGATTATTGAAGGTATTTTT-TCAAAAAATACCTTCAATAATC-CCTCATA-AAAATTTA
12889092 T
63 T
* ** * * * * * * * *
12889093 TAAAAAGATTATTAAAGATGTTTTTGACAAAAAATGCTTTTAACAATCCCTCATAAAAATTTAT
1 TGAAGGGATTATTGAAGGTATTTTT-TCAAAAAATACCTTCAATAATCCCTCATAAAAATTTAT
* ** * * * ** *
12889157 TG-AGGAGATTATTGAATG-CGTTTTT-AACAAAATGCCTTTAATAATCCAT--TTCAAATTTTT
1 TGAAGG-GATTATTGAAGGTATTTTTTCAA-AAAATACCTTCAATAATCCCTCATAAAAATTTAT
* * * * * * * * *
12889217 TCAGGGGATTATTGAAGGTGTTTTGAT-GAAAAATACCTTCAATAATCCCT-TTTAAATTTTGT
1 TGAAGGGATTATTGAAGGTATTTT-TTCAAAAAATACCTTCAATAATCCCTCATAAAAATTTAT
* * *
12889279 TGATGGGATTATTGAAGATTTTTTTTTCAAAAAATACCTTCAATAATCCCTCATAAAAATTTAT
1 TGAAGGGATTATTGAAG-GTATTTTTTCAAAAAATACCTTCAATAATCCCTCATAAAAATTTAT
* * *
12889343 TGAAAGAATTATTCAAGGTATTTTT
1 TGAAGGGATTATTGAAGGTATTTTT
12889368 GATCAGAAAT
Statistics
Matches: 262, Mismatches: 62, Indels: 29
0.74 0.18 0.08
Matches are distributed among these distances:
60 20 0.08
61 25 0.10
62 52 0.20
63 80 0.31
64 77 0.29
65 8 0.03
ACGTcount: A:0.37, C:0.12, G:0.13, T:0.38
Consensus pattern (63 bp):
TGAAGGGATTATTGAAGGTATTTTTTCAAAAAATACCTTCAATAATCCCTCATAAAAATTTAT
Found at i:12895655 original size:24 final size:24
Alignment explanation
Indices: 12895628--12895674 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
12895618 TCATAAAAAT
12895628 AATTTTAAA-ATATAAAAAAATAAA
1 AATTTTAAATAT-TAAAAAAATAAA
12895652 AATTTTAAATATTAAAAAAATAA
1 AATTTTAAATATTAAAAAAATAA
12895675 GACATAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 20 0.91
25 2 0.09
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (24 bp):
AATTTTAAATATTAAAAAAATAAA
Found at i:12902147 original size:57 final size:57
Alignment explanation
Indices: 12902037--12902194 Score: 142
Period size: 57 Copynumber: 2.8 Consensus size: 57
12902027 ATAACTTCGA
* * * * *
12902037 ATATTACCACCGAAGGAAAACTCAAATATTACTA-TCAAGAAAATGCAAGTGAGTTTAT-
1 ATATCACCACCGAA-GAAAATTCAAATATCACCATTGAA-AAAATGCAAGTGAGTTT-TG
* *** ** *
12902095 ATATCATCATTTAAGAAAATTTGAATATTACCATTGAAAAAATGCCAA-TGAGTTTTG
1 ATATCACCACCGAAGAAAATTCAAATATCACCATTGAAAAAATG-CAAGTGAGTTTTG
*
12902152 ATATCGCCACCGAAGAAAATTCAAATATCACCATTGAAAAAAT
1 ATATCACCACCGAAGAAAATTCAAATATCACCATTGAAAAAAT
12902195 ACAAATGTAG
Statistics
Matches: 79, Mismatches: 18, Indels: 7
0.76 0.17 0.07
Matches are distributed among these distances:
56 1 0.01
57 63 0.80
58 15 0.19
ACGTcount: A:0.45, C:0.15, G:0.12, T:0.28
Consensus pattern (57 bp):
ATATCACCACCGAAGAAAATTCAAATATCACCATTGAAAAAATGCAAGTGAGTTTTG
Found at i:12902359 original size:42 final size:41
Alignment explanation
Indices: 12902270--12902403 Score: 151
Period size: 42 Copynumber: 3.2 Consensus size: 41
12902260 AAATGTTTTG
* * * *
12902270 GATATCACCACCAAAAAAATAAAATTCAAGCTTTAACACTT
1 GATATCACCACCAAGAAAATATAATTCTAGCTTTAACACTA
12902311 GCATATCACCACCAAGAAAATATAATTCTAGCTTTAACACTCA
1 G-ATATCACCACCAAGAAAATATAATTCTAGCTTTAACACT-A
** ** * *
12902354 GATATCATTACTGAGAAAATGTAATTCTAACTTTAACACTTA
1 GATATCACCACCAAGAAAATATAATTCTAGCTTTAACAC-TA
12902396 GATATCAC
1 GATATCAC
12902404 TATTGAAAGA
Statistics
Matches: 79, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
41 1 0.01
42 76 0.96
43 2 0.03
ACGTcount: A:0.43, C:0.21, G:0.07, T:0.28
Consensus pattern (41 bp):
GATATCACCACCAAGAAAATATAATTCTAGCTTTAACACTA
Found at i:12908795 original size:24 final size:24
Alignment explanation
Indices: 12908768--12908827 Score: 68
Period size: 26 Copynumber: 2.4 Consensus size: 24
12908758 TAAAAAAAAA
* *
12908768 AAAAAAAACAACAAA-TTCTAGCAG
1 AAAAAAAACAAAAAATTTCAAG-AG
12908792 AAAAAATCAACAAAAAATTTCAAGAG
1 AAAAAA--AACAAAAAATTTCAAGAG
12908818 AAAAAAAACA
1 AAAAAAAACA
12908828 TTTTCACACA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
24 10 0.32
26 16 0.52
27 5 0.16
ACGTcount: A:0.68, C:0.13, G:0.07, T:0.12
Consensus pattern (24 bp):
AAAAAAAACAAAAAATTTCAAGAG
Found at i:12909729 original size:21 final size:23
Alignment explanation
Indices: 12909703--12909750 Score: 64
Period size: 21 Copynumber: 2.2 Consensus size: 23
12909693 TTAAGTTTGC
12909703 AAATTTTGA-AAATATTTTA-AT
1 AAATTTTGATAAATATTTTAGAT
* *
12909724 AAATTTTGATATATTTTTTAGAT
1 AAATTTTGATAAATATTTTAGAT
12909747 AAAT
1 AAAT
12909751 ATTCTTAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 9 0.39
22 8 0.35
23 6 0.26
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (23 bp):
AAATTTTGATAAATATTTTAGAT
Found at i:12909780 original size:38 final size:35
Alignment explanation
Indices: 12909712--12909781 Score: 86
Period size: 38 Copynumber: 1.9 Consensus size: 35
12909702 CAAATTTTGA
* * *
12909712 AAATATTTTAATAAATTTTGATATATTTTTTAGAT
1 AAATATTTTAATAAATATTGATAAAATTTTTAGAT
12909747 AAATATTCTTAATAAAAATATTGATAAAATTTTTA
1 AAATATT-TTAAT--AAATATTGATAAAATTTTTA
12909782 CTATTAAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
35 7 0.24
36 5 0.17
38 17 0.59
ACGTcount: A:0.46, C:0.01, G:0.04, T:0.49
Consensus pattern (35 bp):
AAATATTTTAATAAATATTGATAAAATTTTTAGAT
Found at i:12914411 original size:22 final size:23
Alignment explanation
Indices: 12914386--12914435 Score: 77
Period size: 22 Copynumber: 2.2 Consensus size: 23
12914376 ATCTTTTGCT
12914386 TATCATT-GTTTTTACTTTAATA
1 TATCATTAGTTTTTACTTTAATA
12914408 TATC-TTAGTTTTTACTTTAATA
1 TATCATTAGTTTTTACTTTAATA
12914430 TCATCA
1 T-ATCA
12914436 AAACAATTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
21 2 0.08
22 20 0.80
23 3 0.12
ACGTcount: A:0.28, C:0.12, G:0.04, T:0.56
Consensus pattern (23 bp):
TATCATTAGTTTTTACTTTAATA
Found at i:12917759 original size:93 final size:93
Alignment explanation
Indices: 12917571--12917849 Score: 407
Period size: 93 Copynumber: 3.0 Consensus size: 93
12917561 CTCATCTTCA
* *
12917571 ACTTCGTCAGCAGGATAAATTTTCTCTAGGATGGACCTGGACTCTTCTACCTTATTCTAAACATC
1 ACTTGGTCAGCAGGATAAATTTTTTCTAGGATGGACCTGGACTCTTCTACCTTATTCTAAACATC
12917636 AACAACAATATATGGTTATTATTATTAT
66 AACAACAATATATGGTTATTATTATTAT
* * * * * **
12917664 ACTTGGTCAGCAGCATAATTTTTTTCTAGGATGGACTTAGACT-TTCTAGCTTATTCTAAAGGTC
1 ACTTGGTCAGCAGGATAAATTTTTTCTAGGATGGACCTGGACTCTTCTACCTTATTCTAAACATC
*
12917728 AACAACAATATATGGTTTATTGTTATTAT
66 AACAACAATATATGG-TTATTATTATTAT
*
12917757 ACTTGGTCAGCAGGATAAATTTTTTGTAGGATGGACCTGGACTCTTCTACCTTATTCTAAACATC
1 ACTTGGTCAGCAGGATAAATTTTTTCTAGGATGGACCTGGACTCTTCTACCTTATTCTAAACATC
* * * *
12917822 AACAACAATACATGCTTAATATAATTAT
66 AACAACAATATATGGTTATTATTATTAT
12917850 TGCAAAAATC
Statistics
Matches: 161, Mismatches: 23, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
92 33 0.20
93 97 0.60
94 31 0.19
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.37
Consensus pattern (93 bp):
ACTTGGTCAGCAGGATAAATTTTTTCTAGGATGGACCTGGACTCTTCTACCTTATTCTAAACATC
AACAACAATATATGGTTATTATTATTAT
Found at i:12931624 original size:25 final size:25
Alignment explanation
Indices: 12931596--12931643 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
12931586 AACATTAAAA
*
12931596 TTGCTAAGTAATGGCATTATTATTT
1 TTGCTAACTAATGGCATTATTATTT
** *
12931621 TTGCTTCCTAATGGTATTATTAT
1 TTGCTAACTAATGGCATTATTAT
12931644 AATTTTTTAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.25, C:0.10, G:0.15, T:0.50
Consensus pattern (25 bp):
TTGCTAACTAATGGCATTATTATTT
Found at i:12934553 original size:30 final size:30
Alignment explanation
Indices: 12934519--12934582 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
12934509 ATATTGTACA
* * *
12934519 TATATTGAACATGTTATCTAATGGATGTGT
1 TATATTGAACAGGTAATCTAAAGGATGTGT
* *
12934549 TATATTGAATAGGTAATCTAAAGGATGTTT
1 TATATTGAACAGGTAATCTAAAGGATGTGT
12934579 TATA
1 TATA
12934583 AATACAACAT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.34, C:0.05, G:0.19, T:0.42
Consensus pattern (30 bp):
TATATTGAACAGGTAATCTAAAGGATGTGT
Found at i:12938698 original size:17 final size:17
Alignment explanation
Indices: 12938676--12938729 Score: 65
Period size: 17 Copynumber: 3.1 Consensus size: 17
12938666 CATCCTTGAT
12938676 TTTTTTGT-TCTGTTTTA
1 TTTTTTGTATCT-TTTTA
*
12938693 TTTTTTTGTATTTTTTTA
1 -TTTTTTGTATCTTTTTA
*
12938711 TATTTTGTATCTTTTTA
1 TTTTTTGTATCTTTTTA
12938728 TT
1 TT
12938730 GTATTTCGTA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
17 16 0.52
18 13 0.42
19 2 0.06
ACGTcount: A:0.11, C:0.04, G:0.07, T:0.78
Consensus pattern (17 bp):
TTTTTTGTATCTTTTTA
Found at i:12938709 original size:18 final size:18
Alignment explanation
Indices: 12938674--12938729 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 18
12938664 GCCATCCTTG
*
12938674 ATTTTTTTGT-TCTGTTTT
1 ATTTTTTTGTAT-TTTTTT
12938692 ATTTTTTTGTATTTTTTT
1 ATTTTTTTGTATTTTTTT
* *
12938710 A-TATTTTGTATCTTTTT
1 ATTTTTTTGTATTTTTTT
12938727 ATT
1 ATT
12938730 GTATTTCGTA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
17 15 0.45
18 17 0.52
19 1 0.03
ACGTcount: A:0.12, C:0.04, G:0.07, T:0.77
Consensus pattern (18 bp):
ATTTTTTTGTATTTTTTT
Found at i:12938726 original size:20 final size:20
Alignment explanation
Indices: 12938703--12938740 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
12938693 TTTTTTTGTA
*
12938703 TTTTT-TTATATTTTGTATC
1 TTTTTATTATATTTCGTATC
*
12938722 TTTTTATTGTATTTCGTAT
1 TTTTTATTATATTTCGTAT
12938741 TTATACTTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 5 0.31
20 11 0.69
ACGTcount: A:0.16, C:0.05, G:0.08, T:0.71
Consensus pattern (20 bp):
TTTTTATTATATTTCGTATC
Found at i:12939110 original size:47 final size:47
Alignment explanation
Indices: 12938932--12939978 Score: 1202
Period size: 49 Copynumber: 21.9 Consensus size: 47
12938922 TAAAATCTGA
* * * *
12938932 AAAAAGCTCCTCTCAGCAGAGGCTTAATAACTTTAAGATCTTATCTTG
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCAT-TTG
* * *
12938980 AAAAAGCGCTCCTCTAAGTAAAGGCTCAACAACTTTAAAATCTCATTTG
1 AAAAA--GCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATTTG
* *
12939029 AAAAAGGGCTCCTCTCAGCAAAGGCTCAATAACTTTAAAATCTCATTTG
1 AAAAA--GCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATTTG
* * *
12939078 AAAAAGCTCATCTCAGTAGAGGCTCAATAACTTTAAAATCTCATTTG
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATTTG
*
12939125 AAAAAGCTCATCTCAGCAGAGGCTCAACAACTTTAAAATCTCATTTGG
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATTT-G
* * *
12939173 AAAAGGGCTCCTCTCAACAGAGGCTCAACAACTTTAAAATTTCATCTTG
1 AAAA-AGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCAT-TTG
* * *
12939222 AAAAAGGCTCATCTCAGCAGAGGCTCAATAACTTTAAAATCTGATTTG
1 AAAAA-GCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATTTG
* *
12939270 AAAAAGCTCCTCTCAGTAGAGGCTCAACAACTTTAAAATTTCATTTG
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATTTG
* * *
12939317 AAAAAGGGCTCCTCTCAGCAGAGGCTTAACAACTTTGAAATCTGATTTG
1 AAAAA--GCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATTTG
*
12939366 AAAAAAGCTCCTCTCAACAGAGGCTCAACAACTTTAAAATCTCATTTAG
1 -AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATTT-G
* *
12939415 AAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATTTAA
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATTT-G
*
12939463 AAAAAGCTCCTCTCAGCAGAGGTTCAACAACTTTAAAATCTCATTTAG
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATTT-G
* * * * * * *
12939511 AAAAGGCT--GCTCAACA-A--CTTTAA-AA-TCT--CA--T--TTAG
1 AAAAAGCTCCTCTCAGCAGAGGC-TCAACAACTTTAAAATCTCATTTG
* *
12939546 AAAAGGCTCCTCTTAGCAGAGGCTCAACAACTTTAAAATCTCATTTTG
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCA-TTTG
** *
12939594 AAAAAGGCTCCTCTCAATAGAGGCTCAACAACTTTAAAATTTCATCTTG
1 AAAAA-GCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCAT-TTG
* * *
12939643 AAAAAGGCTCATCTCAGCAGAGGCTCAATAACTTTAAAATCTGATTTG
1 AAAAA-GCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATTTG
* * *
12939691 AAAAAGCTCATTTTAGCAGAGGCTCAACAACTTTAAAATCTCATTTG
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATTTG
* *
12939738 AAAAAGCTCCTTTCAGCGGAGGCTCAACAACTTTAAAAATCTCATCTTGG
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTT-AAAATCTCAT-TT-G
* * *
12939788 AAAAAGCTCCTCTTAGCAGAAGCTCAGCAACTTTAAAATTCTCATCTTG
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAA-TCTCAT-TTG
* *
12939837 AAAAAGGCTCATCTCAGCAGAGGCTTAACAACTTTAAAATCTCATTTG
1 AAAAA-GCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATTTG
* * *
12939885 AAAAAGCTTCTCTCAGTAAAGGCTCAACAACTTTAAAAATCTCATCTTAG
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTT-AAAATCTCAT-TT-G
* ** *
12939935 AAAAGGCTTTTCTCAGTAGAGGCTCAACAACTTTAAAATCTCAT
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCAT
12939979 CTTCTCTTAA
Statistics
Matches: 867, Mismatches: 97, Indels: 69
0.84 0.09 0.07
Matches are distributed among these distances:
35 9 0.01
36 2 0.00
37 5 0.01
38 2 0.00
39 3 0.00
40 4 0.00
41 2 0.00
42 2 0.00
43 3 0.00
44 3 0.00
45 2 0.00
46 6 0.01
47 218 0.25
48 196 0.23
49 272 0.31
50 138 0.16
ACGTcount: A:0.37, C:0.22, G:0.14, T:0.28
Consensus pattern (47 bp):
AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATTTG
Found at i:12939126 original size:96 final size:95
Alignment explanation
Indices: 12938929--12939978 Score: 1265
Period size: 96 Copynumber: 11.0 Consensus size: 95
12938919 ATTTAAAATC
* * * * *
12938929 TGAAAAAAGCTCCTCTCAGCAGAGGCTTAATAACTTTAAGATCTTATCTTGAAAAAGCGCTCCTC
1 TGAAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCAT-TTGAAAAA--GCTCCTC
* * *
12938994 TAAGTAAAGGCTCAACAACTTTAAAATCTCATT
63 TCAGCAGAGGCTCAACAACTTTAAAATCTCATT
* * *
12939027 TGAAAAAGGGCTCCTCTCAGCAAAGGCTCAATAACTTTAAAATCTCATTTGAAAAAGCTCATCTC
1 TGAAAAA-GGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATTTGAAAAAGCTCCTCTC
* *
12939092 AGTAGAGGCTCAATAACTTTAAAATCTCATT
65 AGCAGAGGCTCAACAACTTTAAAATCTCATT
* *
12939123 TGAAAAA-GCTCATCTCAGCAGAGGCTCAACAACTTTAAAATCTCATTTGGAAAAGGGCTCCTCT
1 TGAAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATTT-GAAAA-AGCTCCTCT
* *
12939187 CAACAGAGGCTCAACAACTTTAAAATTTCATCT
64 CAGCAGAGGCTCAACAACTTTAAAATCTCAT-T
* * *
12939220 TGAAAAAGGCTCATCTCAGCAGAGGCTCAATAACTTTAAAATCTGATTTGAAAAAGCTCCTCTCA
1 TGAAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATTTGAAAAAGCTCCTCTCA
* *
12939285 GTAGAGGCTCAACAACTTTAAAATTTCATT
66 GCAGAGGCTCAACAACTTTAAAATCTCATT
* * *
12939315 TGAAAAAGGGCTCCTCTCAGCAGAGGCTTAACAACTTTGAAATCTGATTTGAAAAAAGCTCCTCT
1 TGAAAAA-GGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATTTG-AAAAAGCTCCTCT
*
12939380 CAACAGAGGCTCAACAACTTTAAAATCTCATT
64 CAGCAGAGGCTCAACAACTTTAAAATCTCATT
*
12939412 T-AGAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATTTAAAAAAAGCTCCTCT
1 TGA-AAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATTT-GAAAAAGCTCCTCT
*
12939476 CAGCAGAGGTTCAACAACTTTAAAATCTCATT
64 CAGCAGAGGCTCAACAACTTTAAAATCTCATT
*
12939508 T-AGAAAAGG-----CT--------GCTCAACAACTTTAAAATCTCATTTAGAAAAGGCTCCTCT
1 TGA-AAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATTT-GAAAAAGCTCCTCT
*
12939559 TAGCAGAGGCTCAACAACTTTAAAATCTCATTT
64 CAGCAGAGGCTCAACAACTTTAAAATCTCA-TT
** * *
12939592 TGAAAAAGGCTCCTCTCAATAGAGGCTCAACAACTTTAAAATTTCATCTTGAAAAAGGCTCATCT
1 TGAAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCAT-TTGAAAAA-GCTCCTCT
* *
12939657 CAGCAGAGGCTCAATAACTTTAAAATCTGATT
64 CAGCAGAGGCTCAACAACTTTAAAATCTCATT
* * * *
12939689 TGAAAAA-GCTCATTTTAGCAGAGGCTCAACAACTTTAAAATCTCATTTGAAAAAGCTCCTTTCA
1 TGAAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATTTGAAAAAGCTCCTCTCA
*
12939753 GCGGAGGCTCAACAACTTTAAAAATCTCATCT
66 GCAGAGGCTCAACAACTTT-AAAATCTCAT-T
* * * *
12939785 TGGAAAAA-GCTCCTCTTAGCAGAAGCTCAGCAACTTTAAAATTCTCATCTTGAAAAAGGCTCAT
1 T-GAAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAA-TCTCAT-TTGAAAAA-GCTCCT
*
12939849 CTCAGCAGAGGCTTAACAACTTTAAAATCTCATT
62 CTCAGCAGAGGCTCAACAACTTTAAAATCTCATT
* * * * **
12939883 TGAAAAA-GCTTCTCTCAGTAAAGGCTCAACAACTTTAAAAATCTCATCTTAGAAAAGGCTTTTC
1 TGAAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTT-AAAATCTCAT-TT-GAAAAAGCTCCTC
*
12939947 TCAGTAGAGGCTCAACAACTTTAAAATCTCAT
63 TCAGCAGAGGCTCAACAACTTTAAAATCTCAT
12939979 CTTCTCTTAA
Statistics
Matches: 842, Mismatches: 76, Indels: 69
0.85 0.08 0.07
Matches are distributed among these distances:
83 66 0.08
84 9 0.01
85 1 0.00
89 2 0.00
91 2 0.00
94 63 0.07
95 30 0.04
96 280 0.33
97 204 0.24
98 107 0.13
99 53 0.06
100 25 0.03
ACGTcount: A:0.37, C:0.22, G:0.14, T:0.28
Consensus pattern (95 bp):
TGAAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATTTGAAAAAGCTCCTCTCA
GCAGAGGCTCAACAACTTTAAAATCTCATT
Done.