Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D07
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: 56457815
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1765025 characters in sequence are not A, C, G, or T
File 108 of 189
Found at i:30149318 original size:24 final size:25
Alignment explanation
Indices: 30149272--30149337 Score: 73
Period size: 24 Copynumber: 2.7 Consensus size: 25
30149262 ATGTATATAT
* *
30149272 ATAATATAATATAATATATTAAT-A
1 ATAATATAATATAATAAAATAATCA
30149296 ATAATATAATATAA-AAACATAATCA
1 ATAATATAATATAATAAA-ATAATCA
* *
30149321 TTACTATAATATAATAA
1 ATAATATAATATAATAA
30149338 TATTTTTTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
23 2 0.06
24 18 0.51
25 13 0.37
26 2 0.06
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (25 bp):
ATAATATAATATAATAAAATAATCA
Found at i:30153338 original size:23 final size:24
Alignment explanation
Indices: 30153311--30153358 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
30153301 TGTGCTTATT
*
30153311 TTGAATG-TTCATGAGTTTGGACC
1 TTGAATGATACATGAGTTTGGACC
* *
30153334 TTGAATGATACTTGATTTTGGACC
1 TTGAATGATACATGAGTTTGGACC
30153358 T
1 T
30153359 GAAACAATGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 7 0.33
24 14 0.67
ACGTcount: A:0.23, C:0.12, G:0.23, T:0.42
Consensus pattern (24 bp):
TTGAATGATACATGAGTTTGGACC
Found at i:30155339 original size:54 final size:50
Alignment explanation
Indices: 30155278--30155504 Score: 202
Period size: 45 Copynumber: 4.8 Consensus size: 50
30155268 TACCGAGTAT
*
30155278 CATTGATTGTAACA-GTGGTTGCTATGTGCTGATTCCACCGGGTAAATTGGGTAC
1 CATTGATTATAA-AGGTGGTTGCTATGTGCTGATTCCACCGGGT--A--GGGTAC
*
30155332 CATTGATTATAAAGGTGGTTGCTATGTGTTGATTCCACC-----GGGTAC
1 CATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACCGGGTAGGGTAC
30155377 CATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACC-----GGGTAC
1 CATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACCGGGTAGGGTAC
* * * *
30155422 CATTAATTTTAAAGGTGGTTGCTATGTGTTGATTCCACC--G-A--GTAT
1 CATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACCGGGTAGGGTAC
* * *
30155467 CATTGACTATAAGGGTGG-TGCTGTGTGCTGA-TCCACCG
1 CATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACCG
30155505 TGTATCTGTT
Statistics
Matches: 156, Mismatches: 13, Indels: 18
0.83 0.07 0.10
Matches are distributed among these distances:
43 6 0.04
44 11 0.07
45 103 0.66
53 1 0.01
54 35 0.22
ACGTcount: A:0.22, C:0.17, G:0.27, T:0.34
Consensus pattern (50 bp):
CATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACCGGGTAGGGTAC
Found at i:30155390 original size:45 final size:45
Alignment explanation
Indices: 30155326--30155504 Score: 263
Period size: 45 Copynumber: 4.0 Consensus size: 45
30155316 CGGGTAAATT
*
30155326 GGGTACCATTGATTATAAAGGTGGTTGCTATGTGTTGATTCCACC
1 GGGTACCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACC
30155371 GGGTACCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACC
1 GGGTACCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACC
* * *
30155416 GGGTACCATTAATTTTAAAGGTGGTTGCTATGTGTTGATTCCACC
1 GGGTACCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACC
* * * * *
30155461 GAGTATCATTGACTATAAGGGTGG-TGCTGTGTGCTGA-TCCACC
1 GGGTACCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACC
30155504 G
1 G
30155505 TGTATCTGTT
Statistics
Matches: 122, Mismatches: 12, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
43 7 0.06
44 11 0.09
45 104 0.85
ACGTcount: A:0.22, C:0.17, G:0.27, T:0.34
Consensus pattern (45 bp):
GGGTACCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACC
Found at i:30164316 original size:41 final size:43
Alignment explanation
Indices: 30164217--30164362 Score: 133
Period size: 43 Copynumber: 3.4 Consensus size: 43
30164207 CAATGTCATA
* * * * * *
30164217 TCCCAGATATGGTATTACATGTTATCACATATCGATGCCT-GTG
1 TCCCAGACATGGTCTTACACGTAATCTCATATCGATG-CTAATG
* *
30164260 TCCCAAACA-GTGTCTTACACG-AA--TCATATACGGTG-TCAATG
1 TCCCAGACATG-GTCTTACACGTAATCTCATAT-CGATGCT-AATG
*
30164301 TCCCAGACATGGTCTTACACGTAATCTCATATTGATGCTAATG
1 TCCCAGACATGGTCTTACACGTAATCTCATATCGATGCTAATG
30164344 TCCCAGACATGGTCTTACA
1 TCCCAGACATGGTCTTACA
30164363 TGAAATCACA
Statistics
Matches: 83, Mismatches: 11, Indels: 18
0.74 0.10 0.16
Matches are distributed among these distances:
39 1 0.01
40 5 0.06
41 24 0.29
42 5 0.06
43 41 0.49
44 7 0.08
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (43 bp):
TCCCAGACATGGTCTTACACGTAATCTCATATCGATGCTAATG
Found at i:30164795 original size:68 final size:68
Alignment explanation
Indices: 30164710--30164931 Score: 345
Period size: 68 Copynumber: 3.2 Consensus size: 68
30164700 CTGTGAAATC
* * * * *
30164710 AACAGATTCGGATAGCTACATTTATTAAATAAAACAGCATAAATGGTAGTGCATTGAACAGTAAA
1 AACACATTCGGACAGCTACATTTACTAAATAAAACAGCATAAATGATAGTGCATTGAACAGTGAA
30164775 TTT
66 TTT
*
30164778 AACACATTCGGACAGCTACATTTACTAAATGAAACAGCATAAATGATAGTGCATTGAACAGTGAA
1 AACACATTCGGACAGCTACATTTACTAAATAAAACAGCATAAATGATAGTGCATTGAACAGTGAA
30164843 TTT
66 TTT
* * *
30164846 AACACATTCGGACAGCTACATTTACTAAATAAAAACAGCATAAATGATGGTGCTTTGATCAGTGA
1 AACACATTCGGACAGCTACATTTACTAAAT-AAAACAGCATAAATGATAGTGCATTGAACAGTGA
*
30164911 ATCT
65 ATTT
30164915 AACACATTCGGACAGCT
1 AACACATTCGGACAGCT
30164932 TAATTTTAAG
Statistics
Matches: 142, Mismatches: 11, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
68 92 0.65
69 50 0.35
ACGTcount: A:0.41, C:0.16, G:0.16, T:0.27
Consensus pattern (68 bp):
AACACATTCGGACAGCTACATTTACTAAATAAAACAGCATAAATGATAGTGCATTGAACAGTGAA
TTT
Found at i:30167828 original size:19 final size:18
Alignment explanation
Indices: 30167806--30167841 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
30167796 AAAATTTATA
30167806 AAAAATACTAAACAAATTC
1 AAAAATACTAAA-AAATTC
*
30167825 AAAAATATTAAAAAATT
1 AAAAATACTAAAAAATT
30167842 AATAAAAATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.67, C:0.08, G:0.00, T:0.25
Consensus pattern (18 bp):
AAAAATACTAAAAAATTC
Found at i:30167848 original size:19 final size:19
Alignment explanation
Indices: 30167784--30167848 Score: 51
Period size: 19 Copynumber: 3.3 Consensus size: 19
30167774 TATATATTTG
*
30167784 TAAAATATTATTAAAATTTATA
1 TAAAATATTA--AAAAATTA-A
* * *
30167806 AAAAATACTAAACAAATTCA
1 TAAAATATTAAA-AAATTAA
30167826 -AAAATATTAAAAAATTAA
1 TAAAATATTAAAAAATTAA
30167844 TAAAA
1 TAAAA
30167849 ATCATTTAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 7
0.73 0.12 0.15
Matches are distributed among these distances:
18 6 0.17
19 14 0.40
20 3 0.09
21 4 0.11
22 8 0.23
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.31
Consensus pattern (19 bp):
TAAAATATTAAAAAATTAA
Found at i:30167859 original size:21 final size:21
Alignment explanation
Indices: 30167825--30167873 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
30167815 AAACAAATTC
30167825 AAAAATATTAAAAAATTAA-T
1 AAAAATATTAAAAAATTAAGT
* *
30167845 AAAAATCATTTAAAATTTAAGT
1 AAAAAT-ATTAAAAAATTAAGT
30167867 ACAAAAT
1 A-AAAAT
30167874 GAATTTGGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 6 0.25
21 11 0.46
22 2 0.08
23 5 0.21
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.31
Consensus pattern (21 bp):
AAAAATATTAAAAAATTAAGT
Found at i:30168372 original size:28 final size:28
Alignment explanation
Indices: 30168338--30168423 Score: 74
Period size: 28 Copynumber: 3.1 Consensus size: 28
30168328 ATAATAATTA
30168338 TTAGAAATTAATTAAAAACCATAAAAAT
1 TTAGAAATTAATTAAAAACCATAAAAAT
**
30168366 TTAGAAA--AA--AAATAATTTATAAAAATTT
1 TTAGAAATTAATTAAA-AA-CCATAAAAA--T
30168394 TTAGGAAATTAATTAAAAACCA-AAAAAT
1 TTA-GAAATTAATTAAAAACCATAAAAAT
30168422 TT
1 TT
30168424 TATAAAAAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 18
0.67 0.06 0.27
Matches are distributed among these distances:
24 3 0.07
25 2 0.04
26 9 0.20
28 14 0.31
29 4 0.09
30 5 0.11
31 3 0.07
32 2 0.04
33 3 0.07
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.31
Consensus pattern (28 bp):
TTAGAAATTAATTAAAAACCATAAAAAT
Found at i:30168451 original size:57 final size:56
Alignment explanation
Indices: 30168326--30168432 Score: 162
Period size: 57 Copynumber: 1.9 Consensus size: 56
30168316 TTATTAAAAC
* *
30168326 TTATAATAATTATTAGAAATTAATTAAAAACCATAAAAATTTAGAAAAAAAATAAT
1 TTATAAAAATTTTTAGAAATTAATTAAAAACCATAAAAATTTAGAAAAAAAATAAT
*
30168382 TTATAAAAATTTTTAGGAAATTAATTAAAAACCA-AAAAATTTTATAAAAAA
1 TTATAAAAATTTTTA-GAAATTAATTAAAAACCATAAAAA-TTTAGAAAAAA
30168433 TATTTTTTTC
Statistics
Matches: 46, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
56 18 0.39
57 28 0.61
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.33
Consensus pattern (56 bp):
TTATAAAAATTTTTAGAAATTAATTAAAAACCATAAAAATTTAGAAAAAAAATAAT
Found at i:30168478 original size:25 final size:27
Alignment explanation
Indices: 30168418--30168468 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
30168408 AAAAACCAAA
*
30168418 AAATTTTATAAAAAATATTTTTTTCCT
1 AAATTTTATAAAAAATATATTTTTCCT
30168445 AAATTTTATAAAAAAT-TATTTTTC
1 AAATTTTATAAAAAATATATTTTTC
30168469 TCATTTTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 7 0.30
27 16 0.70
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.51
Consensus pattern (27 bp):
AAATTTTATAAAAAATATATTTTTCCT
Found at i:30168603 original size:33 final size:34
Alignment explanation
Indices: 30168566--30168633 Score: 102
Period size: 34 Copynumber: 2.0 Consensus size: 34
30168556 AACAATTTTC
** *
30168566 TAAATTATTTTTCTA-AAATTTTATGGTTTTTAA
1 TAAATTATTTTTAAATAAATTTTATGATTTTTAA
30168599 TAAATTATTTTTAAATAAATTTTATGATTTTTAA
1 TAAATTATTTTTAAATAAATTTTATGATTTTTAA
30168633 T
1 T
30168634 TTATTTATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
33 13 0.42
34 18 0.58
ACGTcount: A:0.37, C:0.01, G:0.04, T:0.57
Consensus pattern (34 bp):
TAAATTATTTTTAAATAAATTTTATGATTTTTAA
Found at i:30168660 original size:29 final size:29
Alignment explanation
Indices: 30168627--30168688 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
30168617 ATTTTATGAT
**
30168627 TTTTAATTTATTTATAAT-AATTATTATAA
1 TTTTAATCAATTT-TAATGAATTATTATAA
* *
30168656 TTTTAATCAATTTTAATGACTTTTTATAA
1 TTTTAATCAATTTTAATGAATTATTATAA
30168685 TTTT
1 TTTT
30168689 TATAAACTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 4 0.14
29 24 0.86
ACGTcount: A:0.35, C:0.03, G:0.02, T:0.60
Consensus pattern (29 bp):
TTTTAATCAATTTTAATGAATTATTATAA
Found at i:30168697 original size:20 final size:20
Alignment explanation
Indices: 30168674--30168713 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
30168664 AATTTTAATG
30168674 ACTTTT-TATAATTTTTATAA
1 ACTTTTCTAT-ATTTTTATAA
*
30168694 ACTTTTCTATGTTTTTATAA
1 ACTTTTCTATATTTTTATAA
30168714 TTCTAAACTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 15 0.83
21 3 0.17
ACGTcount: A:0.30, C:0.07, G:0.03, T:0.60
Consensus pattern (20 bp):
ACTTTTCTATATTTTTATAA
Found at i:30195946 original size:40 final size:40
Alignment explanation
Indices: 30195806--30195943 Score: 168
Period size: 40 Copynumber: 3.5 Consensus size: 40
30195796 AGCTTGCATA
* * * *
30195806 GGGAGTTTCACTGATACACAACTTATCACGAAGCTCACAG
1 GGGAGCTTCGCTGATACACAGCTTATCACTAAGCTCACAG
* * * * * *
30195846 GGGAGCTTTGTTGATACACAGCTTCTTACTAAGTTCACAA
1 GGGAGCTTCGCTGATACACAGCTTATCACTAAGCTCACAG
* *
30195886 GGGAGCTTCGCTGATACATAGCTTATCACTAAGCTCACGG
1 GGGAGCTTCGCTGATACACAGCTTATCACTAAGCTCACAG
30195926 GGGAGCTTCGCTGATACA
1 GGGAGCTTCGCTGATACA
30195944 TAGGGGTGTG
Statistics
Matches: 80, Mismatches: 18, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 80 1.00
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.26
Consensus pattern (40 bp):
GGGAGCTTCGCTGATACACAGCTTATCACTAAGCTCACAG
Found at i:30196210 original size:18 final size:18
Alignment explanation
Indices: 30196177--30196229 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
30196167 ATTCACCTAA
*
30196177 ACCCAATCCAAACCCAAGT
1 ACCCAA-CCCAACCCAAGT
** *
30196196 ATTCAACCCAACCCAATT
1 ACCCAACCCAACCCAAGT
30196214 ACCCAACCCAACCCAA
1 ACCCAACCCAACCCAA
30196230 TCATAAAAAT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
18 24 0.86
19 4 0.14
ACGTcount: A:0.42, C:0.45, G:0.02, T:0.11
Consensus pattern (18 bp):
ACCCAACCCAACCCAAGT
Found at i:30196301 original size:7 final size:6
Alignment explanation
Indices: 30196271--30196301 Score: 53
Period size: 6 Copynumber: 5.0 Consensus size: 6
30196261 AAACAAAATT
30196271 CTAAAA CTAAAA CTAAAA CTAAAA TCTAAAA
1 CTAAAA CTAAAA CTAAAA CTAAAA -CTAAAA
30196302 GTCTAAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 18 0.75
7 6 0.25
ACGTcount: A:0.65, C:0.16, G:0.00, T:0.19
Consensus pattern (6 bp):
CTAAAA
Found at i:30196301 original size:13 final size:13
Alignment explanation
Indices: 30196260--30196301 Score: 61
Period size: 12 Copynumber: 3.3 Consensus size: 13
30196250 TTAATAAATA
30196260 AAAAC-AAAATTCT
1 AAAACTAAAA-TCT
30196273 AAAACTAAAA-CT
1 AAAACTAAAATCT
30196285 AAAACTAAAATCT
1 AAAACTAAAATCT
30196298 AAAA
1 AAAA
30196302 GTCTAAAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
12 12 0.44
13 11 0.41
14 4 0.15
ACGTcount: A:0.67, C:0.14, G:0.00, T:0.19
Consensus pattern (13 bp):
AAAACTAAAATCT
Found at i:30196308 original size:8 final size:7
Alignment explanation
Indices: 30196265--30196309 Score: 51
Period size: 6 Copynumber: 6.6 Consensus size: 7
30196255 AAATAAAAAC
30196265 AAAATTCT
1 AAAA-TCT
30196273 AAAA-CT
1 AAAATCT
30196279 AAAA-CT
1 AAAATCT
30196285 AAAA-CT
1 AAAATCT
30196291 AAAATCT
1 AAAATCT
30196298 AAAAGTCT
1 AAAA-TCT
30196306 AAAA
1 AAAA
30196310 ATAATTTAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
6 18 0.51
7 6 0.17
8 11 0.31
ACGTcount: A:0.62, C:0.13, G:0.02, T:0.22
Consensus pattern (7 bp):
AAAATCT
Found at i:30196347 original size:9 final size:9
Alignment explanation
Indices: 30196333--30196435 Score: 152
Period size: 9 Copynumber: 11.4 Consensus size: 9
30196323 GTAGTGATTC
30196333 AATTCGGTT
1 AATTCGGTT
30196342 AATTCGGTT
1 AATTCGGTT
30196351 AATTCGGTT
1 AATTCGGTT
*
30196360 AATTCGGGT
1 AATTCGGTT
30196369 AATTCGGTT
1 AATTCGGTT
*
30196378 AATTCGGGT
1 AATTCGGTT
30196387 AATTCGGTT
1 AATTCGGTT
30196396 AATTCGGTT
1 AATTCGGTT
*
30196405 AATTCAGTT
1 AATTCGGTT
* *
30196414 AATTTGGGT
1 AATTCGGTT
*
30196423 AATTCGGTA
1 AATTCGGTT
30196432 AATT
1 AATT
30196436 TGATTAATTT
Statistics
Matches: 83, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 83 1.00
ACGTcount: A:0.25, C:0.10, G:0.23, T:0.42
Consensus pattern (9 bp):
AATTCGGTT
Found at i:30200898 original size:11 final size:11
Alignment explanation
Indices: 30200882--30200925 Score: 56
Period size: 11 Copynumber: 4.2 Consensus size: 11
30200872 TAATTATCCT
*
30200882 TCATTATACTA
1 TCATTATACCA
30200893 TCATTATACCA
1 TCATTATACCA
30200904 TCATTATACC-
1 TCATTATACCA
*
30200914 TAATTAT-CCA
1 TCATTATACCA
30200924 TC
1 TC
30200926 TCTAATTACA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
9 2 0.07
10 7 0.24
11 20 0.69
ACGTcount: A:0.34, C:0.25, G:0.00, T:0.41
Consensus pattern (11 bp):
TCATTATACCA
Found at i:30202422 original size:19 final size:19
Alignment explanation
Indices: 30202419--30202462 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
30202409 TTTAAAATAC
* *
30202419 TTTTAAAATATTTTTTTAT
1 TTTTAAAATAATTTTTTAA
30202438 TTTTAAAATAATTTTTTAA
1 TTTTAAAATAATTTTTTAA
30202457 TGTTTA
1 T-TTTA
30202463 TTAAAAAATG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 18 0.82
20 4 0.18
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (19 bp):
TTTTAAAATAATTTTTTAA
Found at i:30202462 original size:20 final size:19
Alignment explanation
Indices: 30202420--30202462 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
30202410 TTAAAATACT
* *
30202420 TTTAAAATATTTTTTTATT
1 TTTAAAATATTTTTTAATG
30202439 TTTAAAATAATTTTTTAATG
1 TTTAAAAT-ATTTTTTAATG
30202459 TTTA
1 TTTA
30202463 TTAAAAAATG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 8 0.38
20 13 0.62
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (19 bp):
TTTAAAATATTTTTTAATG
Found at i:30202912 original size:23 final size:23
Alignment explanation
Indices: 30202877--30203323 Score: 251
Period size: 23 Copynumber: 19.2 Consensus size: 23
30202867 TATATATACC
*
30202877 AATTTGGATAGCACTTATACACAA
1 AATTT-GACAGCACTTATACACAA
*
30202901 AATTTGACAGCA-TGTATATACAA
1 AATTTGACAGCACT-TATACACAA
* * *
30202924 AATTGGACAGCATTTATTCACCAA
1 AATTTGACAGCACTTATACA-CAA
* * * *
30202948 AATTAGGCAGCA-TATATATAC-C
1 AATTTGACAGCACT-TATACACAA
*
30202970 GATTTGGACAGCACTTATACACAA
1 AATTT-GACAGCACTTATACACAA
*
30202994 AATTTGACAGCA-TGTATATACAA
1 AATTTGACAGCACT-TATACACAA
* * *
30203017 AATTGGACAGCATTTATTCACCAA
1 AATTTGACAGCACTTATACA-CAA
* * *
30203041 AATTGGGCAGCATACATATAC-C--
1 AATTTGACAGC--ACTTATACACAA
*
30203063 AATTTGGACAACACTTATACACAA
1 AATTT-GACAGCACTTATACACAA
30203087 AATTTGACAGCA-TGTATACACAA
1 AATTTGACAGCACT-TATACACAA
* * *
30203110 AATTGGACAGCATTTATTCACCAA
1 AATTTGACAGCACTTATACA-CAA
* * *
30203134 AATTGGGCAGCATACATATAC-C--
1 AATTTGACAGC--ACTTATACACAA
*
30203156 AATTTGGACAGCACTTATACATAA
1 AATTT-GACAGCACTTATACACAA
*
30203180 AATTTGACAGCA-TGTATATACAA
1 AATTTGACAGCACT-TATACACAA
* * *
30203203 AATTGGACAGCATTTATTCACCAA
1 AATTTGACAGCACTTATACA-CAA
* * *
30203227 AATTGGGCAGCATACATATAC-C--
1 AATTTGACAGC--ACTTATACACAA
30203249 AATTTGGACAGCACTTATACACAA
1 AATTT-GACAGCACTTATACACAA
*
30203273 AATTTGACAGCA-TGTATATACAA
1 AATTTGACAGCACT-TATACACAA
* * * *
30203296 AATTGGACAACATTTATTCACCAA
1 AATTTGACAGCACTTATACA-CAA
30203320 AATT
1 AATT
30203324 GGGCAGCATA
Statistics
Matches: 330, Mismatches: 56, Indels: 74
0.72 0.12 0.16
Matches are distributed among these distances:
21 21 0.06
22 22 0.07
23 176 0.53
24 96 0.29
26 15 0.05
ACGTcount: A:0.40, C:0.19, G:0.13, T:0.28
Consensus pattern (23 bp):
AATTTGACAGCACTTATACACAA
Found at i:30202966 original size:93 final size:93
Alignment explanation
Indices: 30202822--30203346 Score: 942
Period size: 93 Copynumber: 5.6 Consensus size: 93
30202812 CATATATATA
* * * *
30202822 TATATACAAAATTGGACAGCATTTATTCACCAAATTTGGGCAGTATATATATACCAATTTGGATA
1 TATATACAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATACATATACCAATTTGGACA
30202887 GCACTTATACACAAAATTTGACAGCATG
66 GCACTTATACACAAAATTTGACAGCATG
* * *
30202915 TATATACAAAATTGGACAGCATTTATTCACCAAAATTAGGCAGCATATATATACCGATTTGGACA
1 TATATACAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATACATATACCAATTTGGACA
30202980 GCACTTATACACAAAATTTGACAGCATG
66 GCACTTATACACAAAATTTGACAGCATG
30203008 TATATACAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATACATATACCAATTTGGACA
1 TATATACAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATACATATACCAATTTGGACA
*
30203073 ACACTTATACACAAAATTTGACAGCATG
66 GCACTTATACACAAAATTTGACAGCATG
*
30203101 TATACACAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATACATATACCAATTTGGACA
1 TATATACAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATACATATACCAATTTGGACA
*
30203166 GCACTTATACATAAAATTTGACAGCATG
66 GCACTTATACACAAAATTTGACAGCATG
30203194 TATATACAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATACATATACCAATTTGGACA
1 TATATACAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATACATATACCAATTTGGACA
30203259 GCACTTATACACAAAATTTGACAGCATG
66 GCACTTATACACAAAATTTGACAGCATG
* *
30203287 TATATACAAAATTGGACAACATTTATTCACCAAAATTGGGCAGCATACATATATCAATTT
1 TATATACAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATACATATACCAATTT
30203347 TAGACCGTTA
Statistics
Matches: 416, Mismatches: 16, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 416 1.00
ACGTcount: A:0.40, C:0.18, G:0.13, T:0.28
Consensus pattern (93 bp):
TATATACAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATACATATACCAATTTGGACA
GCACTTATACACAAAATTTGACAGCATG
Found at i:30204071 original size:28 final size:28
Alignment explanation
Indices: 30204040--30204158 Score: 166
Period size: 28 Copynumber: 4.2 Consensus size: 28
30204030 ATAAGTTCGT
** * * *
30204040 ACACTTAGTGCTCAATAATCAAACTCAC
1 ACACTTAGTGCTTTACAATTAAACTCGC
* *
30204068 ACACTTAGTGATTTACCATTAAACTCGC
1 ACACTTAGTGCTTTACAATTAAACTCGC
30204096 ACACTTAGTGCTTTACAATTAAACTCGC
1 ACACTTAGTGCTTTACAATTAAACTCGC
*
30204124 ACACTTAGTGCTTTACAATTAAATTCGC
1 ACACTTAGTGCTTTACAATTAAACTCGC
30204152 ACACTTA
1 ACACTTA
30204159 ATGTCGAAAG
Statistics
Matches: 81, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 81 1.00
ACGTcount: A:0.34, C:0.25, G:0.09, T:0.31
Consensus pattern (28 bp):
ACACTTAGTGCTTTACAATTAAACTCGC
Found at i:30207196 original size:11 final size:11
Alignment explanation
Indices: 30207180--30207218 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
30207170 GCTCAACACC
*
30207180 GTAATTTTTGG
1 GTAATTTTCGG
30207191 GTAATTTTCGG
1 GTAATTTTCGG
*
30207202 ATAATTTTCGG
1 GTAATTTTCGG
30207213 GTAATT
1 GTAATT
30207219 CGGTTAATTC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.23, C:0.05, G:0.23, T:0.49
Consensus pattern (11 bp):
GTAATTTTCGG
Found at i:30207226 original size:9 final size:9
Alignment explanation
Indices: 30207208--30207271 Score: 69
Period size: 9 Copynumber: 7.2 Consensus size: 9
30207198 TCGGATAATT
*
30207208 TTCGGGTAA
1 TTCGGTTAA
30207217 TTCGGTTAA
1 TTCGGTTAA
30207226 TTCGGTTAA
1 TTCGGTTAA
* *
30207235 TTTGATTAA
1 TTCGGTTAA
30207244 TTCGGTTAA
1 TTCGGTTAA
30207253 TT-GAG-TAA
1 TTCG-GTTAA
*
30207261 TTCGGGTAA
1 TTCGGTTAA
30207270 TT
1 TT
30207272 TTTAACCAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
8 7 0.15
9 40 0.85
ACGTcount: A:0.25, C:0.08, G:0.23, T:0.44
Consensus pattern (9 bp):
TTCGGTTAA
Found at i:30207226 original size:20 final size:21
Alignment explanation
Indices: 30207181--30207227 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
30207171 CTCAACACCG
*
30207181 TAATTTTTGGGTAATTTTCGGA
1 TAATTTTCGGGTAA-TTTCGGA
*
30207203 TAATTTTCGGGTAA-TTCGGT
1 TAATTTTCGGGTAATTTCGGA
30207223 TAATT
1 TAATT
30207228 CGGTTAATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 10 0.43
22 13 0.57
ACGTcount: A:0.23, C:0.06, G:0.21, T:0.49
Consensus pattern (21 bp):
TAATTTTCGGGTAATTTCGGA
Found at i:30207261 original size:17 final size:17
Alignment explanation
Indices: 30207223--30207271 Score: 71
Period size: 17 Copynumber: 2.8 Consensus size: 17
30207213 GTAATTCGGT
*
30207223 TAATTCGGTTAATTTGAT
1 TAATTCGGTTAA-TTGAG
30207241 TAATTCGGTTAATTGAG
1 TAATTCGGTTAATTGAG
*
30207258 TAATTCGGGTAATT
1 TAATTCGGTTAATT
30207272 TTTAACCAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
17 17 0.59
18 12 0.41
ACGTcount: A:0.29, C:0.06, G:0.20, T:0.45
Consensus pattern (17 bp):
TAATTCGGTTAATTGAG
Found at i:30211523 original size:70 final size:70
Alignment explanation
Indices: 30210073--30211512 Score: 1594
Period size: 70 Copynumber: 20.6 Consensus size: 70
30210063 CAGCTGACGA
* * * *
30210073 TTAAGGCTCGCAGGTTCAATACTGCAGCCTACAAAACAGTTAGCGCAAGCCTACGCTCCCAACTG
1 TTAAGGCTCGCAGGTTCAATACCGCAGCCTCCAAAACAGTTAGCGCGAGCCTACGCTCCCAGCTG
30210138 GTATC
66 GTATC
* * * *
30210143 TTAAGGCTTGCAGGTTCAATACCACAGCCTCCAAAACAATTAGCGCGAGCCTACGCTCCCAACTG
1 TTAAGGCTCGCAGGTTCAATACCGCAGCCTCCAAAACAGTTAGCGCGAGCCTACGCTCCCAGCTG
30210208 GTATC
66 GTATC
* * * * * *
30210213 TTAAGGCTCGCAGGTTCAATACCGTAGCCTCTAAAACAGTTAGTGCAAGCCTACGCTCCTAGCTA
1 TTAAGGCTCGCAGGTTCAATACCGCAGCCTCCAAAACAGTTAGCGCGAGCCTACGCTCCCAGCTG
*
30210278 ATATC
66 GTATC
* * *
30210283 CTAAGACTCGCAGGTTTAATACCGCAGCCTCCAAAACAGTTAGCGCGAGCCTACGCTCCCAGCTG
1 TTAAGGCTCGCAGGTTCAATACCGCAGCCTCCAAAACAGTTAGCGCGAGCCTACGCTCCCAGCTG
*
30210348 ATATC
66 GTATC
* * * * * * * *
30210353 CTAAGGCTCGTAGCTTTAATACCGCAGCCTCCAAAATAATTAGCGCGAGCCTACACTCCTAGCTG
1 TTAAGGCTCGCAGGTTCAATACCGCAGCCTCCAAAACAGTTAGCGCGAGCCTACGCTCCCAGCTG
*
30210418 ATATC
66 GTATC
* * *** * * * * *
30210423 CTAAGGCTCGTAGGTTCAATACTATAGCCTCCAAAACAGTTAACGTGAGCTTACGCTCCTAGGTG
1 TTAAGGCTCGCAGGTTCAATACCGCAGCCTCCAAAACAGTTAGCGCGAGCCTACGCTCCCAGCTG
30210488 GTATC
66 GTATC
* * * * ** * *
30210493 ATAAGGCTCGCAGGTTTAATACCGTAACCTCCAAAACAGTTAGCGCGAGTTTATGCTCCCAGCTA
1 TTAAGGCTCGCAGGTTCAATACCGCAGCCTCCAAAACAGTTAGCGCGAGCCTACGCTCCCAGCTG
30210558 GTATC
66 GTATC
*** * * *
30210563 TTAAGGCTCAG-AGGTTCAATATTACAGCCTCCAAAATAGTTAGCGCGAGCTTACGCTCCCAGAT
1 TTAAGGCTC-GCAGGTTCAATACCGCAGCCTCCAAAACAGTTAGCGCGAGCCTACGCTCCCAGCT
30210627 GGTATC
65 GGTATC
* * * * * * *
30210633 CTAAGGCTTGCATGTTCAATACCGCAACCTCTAAAACAGTTAACGCGAGCCTACGCTCCTAGCTG
1 TTAAGGCTCGCAGGTTCAATACCGCAGCCTCCAAAACAGTTAGCGCGAGCCTACGCTCCCAGCTG
*
30210698 ATATC
66 GTATC
* * * *
30210703 CTAAGGCTCACAGGTTCAATACCGCAGCCTCCAAAATAGTTAGCGCGAGCCTATGCTCCCAGCTG
1 TTAAGGCTCGCAGGTTCAATACCGCAGCCTCCAAAACAGTTAGCGCGAGCCTACGCTCCCAGCTG
*
30210768 ATATC
66 GTATC
* * * * *
30210773 TTAAGGCTCGCAGGTTTAATACTGCAACCTCCAAAA-TGATTAGCGCGAGCTTACGCTCCCAGCT
1 TTAAGGCTCGCAGGTTCAATACCGCAGCCTCCAAAACAG-TTAGCGCGAGCCTACGCTCCCAGCT
30210837 GGTATC
65 GGTATC
* * * ** * * * * * **
30210843 ATAAGGCTCGTAGGTTTAATATTGCAGCGTTCAAAATAGTTAGTGCGAGCTTTTGCTCCCAGCTG
1 TTAAGGCTCGCAGGTTCAATACCGCAGCCTCCAAAACAGTTAGCGCGAGCCTACGCTCCCAGCTG
30210908 GTATC
66 GTATC
* * * *
30210913 TTAAGGCTCGCAGGTTCAATATCGCAGCCTCCAAAACAGTTAGTGCGAACCTACGCTCCCAACTG
1 TTAAGGCTCGCAGGTTCAATACCGCAGCCTCCAAAACAGTTAGCGCGAGCCTACGCTCCCAGCTG
30210978 GTATC
66 GTATC
* * * * * * * *
30210983 CTAAGGCTCGCAGGTTCAATACTGCA-ACTCTAAAACAATTAGCGTGAGCCTACACTCCCAGTTG
1 TTAAGGCTCGCAGGTTCAATACCGCAGCCTCCAAAACAGTTAGCGCGAGCCTACGCTCCCAGCTG
*
30211047 ATATC
66 GTATC
* * * * *
30211052 TTAAGGCTCCCAGGTTCAATACCGCAGCCTCCAAAACAATTAGCGCGAGCTTATGCTCCCAGTTG
1 TTAAGGCTCGCAGGTTCAATACCGCAGCCTCCAAAACAGTTAGCGCGAGCCTACGCTCCCAGCTG
*
30211117 GTACC
66 GTATC
* * * * * *
30211122 TTAAGGCTCACAAGTTCAATACCGCAGCCTTCAAAACAGTTAGCGCAAACCTACGCTCCCAACTG
1 TTAAGGCTCGCAGGTTCAATACCGCAGCCTCCAAAACAGTTAGCGCGAGCCTACGCTCCCAGCTG
*
30211187 ATATC
66 GTATC
* * * * * * *
30211192 CTAA-GCTTGCAGGTTCAATACCGCA-ACTCTAAAACAATTAGCGTGAGCCTACGCTCCCAGTTG
1 TTAAGGCTCGCAGGTTCAATACCGCAGCCTCCAAAACAGTTAGCGCGAGCCTACGCTCCCAGCTG
*
30211255 ATATC
66 GTATC
* * * * * * * *
30211260 CTAAGGCTCGCAAGTTCAATACCGCAACATCCAAAATAGTTAGTGCGAGCTTACGCTCCCAACTG
1 TTAAGGCTCGCAGGTTCAATACCGCAGCCTCCAAAACAGTTAGCGCGAGCCTACGCTCCCAGCTG
30211325 GTATC
66 GTATC
* * * *
30211330 TTAAGACTCGCAGATTCAATACCGCAACCTCCAAAACAGTTAGCGCGAGCCTACGCTCCCACCTG
1 TTAAGGCTCGCAGGTTCAATACCGCAGCCTCCAAAACAGTTAGCGCGAGCCTACGCTCCCAGCTG
30211395 GTATC
66 GTATC
* * * * * * *
30211400 CTAAGGCTCGCAGGTTCAATATCGCAGCATCCAAAATAGTTAGCGCGAGCTTACACTCCCAGCTA
1 TTAAGGCTCGCAGGTTCAATACCGCAGCCTCCAAAACAGTTAGCGCGAGCCTACGCTCCCAGCTG
*
30211465 ATATC
66 GTATC
*
30211470 TTAAGGCTCGCAGGTTCAATACCGCAGCCTCCAAAATAGTTAG
1 TTAAGGCTCGCAGGTTCAATACCGCAGCCTCCAAAACAGTTAG
30211513 TGCCAACTTA
Statistics
Matches: 1152, Mismatches: 211, Indels: 14
0.84 0.15 0.01
Matches are distributed among these distances:
68 38 0.03
69 95 0.08
70 1017 0.88
71 2 0.00
ACGTcount: A:0.28, C:0.29, G:0.19, T:0.24
Consensus pattern (70 bp):
TTAAGGCTCGCAGGTTCAATACCGCAGCCTCCAAAACAGTTAGCGCGAGCCTACGCTCCCAGCTG
GTATC
Found at i:30211992 original size:17 final size:17
Alignment explanation
Indices: 30211970--30212003 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
30211960 GTGATAATAA
30211970 TTTATATTATT-TTATAT
1 TTTATATT-TTATTATAT
30211987 TTTATATTTTATTATAT
1 TTTATATTTTATTATAT
30212004 AATTACTCGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 2 0.12
17 14 0.88
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTATATTTTATTATAT
Found at i:30215410 original size:17 final size:18
Alignment explanation
Indices: 30215382--30215418 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
30215372 TCCTTAGTTA
*
30215382 TTGCATATTTTTAATATT
1 TTGCATATTTTTAAAATT
30215400 TTGCA-ATTTTTAAAATT
1 TTGCATATTTTTAAAATT
30215417 TT
1 TT
30215419 AAACAGTCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 13 0.72
18 5 0.28
ACGTcount: A:0.30, C:0.05, G:0.05, T:0.59
Consensus pattern (18 bp):
TTGCATATTTTTAAAATT
Found at i:30220809 original size:15 final size:15
Alignment explanation
Indices: 30220791--30220823 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
30220781 TTTCCACTCT
*
30220791 TTTACTTTCTTTTCA
1 TTTAATTTCTTTTCA
30220806 TTTAATTTCTTTTCA
1 TTTAATTTCTTTTCA
30220821 TTT
1 TTT
30220824 CCTACTTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.70
Consensus pattern (15 bp):
TTTAATTTCTTTTCA
Found at i:30222751 original size:27 final size:27
Alignment explanation
Indices: 30222721--30222800 Score: 81
Period size: 27 Copynumber: 3.0 Consensus size: 27
30222711 CATTCCCTTT
*
30222721 ATAGATTGCCACAAAGACTTTCTTTTC
1 ATAGATTGCCACAAAGACTTACTTTTC
* *
30222748 ATAGATCGCCAAAAAGAC-TACTTTTTC
1 ATAGATTGCCACAAAGACTTAC-TTTTC
* * * *
30222775 ATAGATTGACGCAAATACTTCCTTTT
1 ATAGATTGCCACAAAGACTTACTTTT
30222801 TTCTAGCATG
Statistics
Matches: 42, Mismatches: 9, Indels: 4
0.76 0.16 0.07
Matches are distributed among these distances:
26 2 0.05
27 38 0.90
28 2 0.05
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.35
Consensus pattern (27 bp):
ATAGATTGCCACAAAGACTTACTTTTC
Found at i:30225884 original size:45 final size:45
Alignment explanation
Indices: 30225835--30225924 Score: 180
Period size: 45 Copynumber: 2.0 Consensus size: 45
30225825 AAAAAACGAA
30225835 AGCAAACTTTGGGATTCACCTTAAAAAAACGATCTTTGATTTCTT
1 AGCAAACTTTGGGATTCACCTTAAAAAAACGATCTTTGATTTCTT
30225880 AGCAAACTTTGGGATTCACCTTAAAAAAACGATCTTTGATTTCTT
1 AGCAAACTTTGGGATTCACCTTAAAAAAACGATCTTTGATTTCTT
30225925 TTCTCTCTTT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.33, C:0.18, G:0.13, T:0.36
Consensus pattern (45 bp):
AGCAAACTTTGGGATTCACCTTAAAAAAACGATCTTTGATTTCTT
Found at i:30226313 original size:9 final size:9
Alignment explanation
Indices: 30226299--30226365 Score: 98
Period size: 9 Copynumber: 7.4 Consensus size: 9
30226289 TTTGGTTAAA
30226299 AATTAACCG
1 AATTAACCG
30226308 AATTAACCG
1 AATTAACCG
*
30226317 AATTAACAG
1 AATTAACCG
* *
30226326 GATTACCCG
1 AATTAACCG
30226335 AATTAACCG
1 AATTAACCG
*
30226344 AATTACCCG
1 AATTAACCG
30226353 AATTAACCG
1 AATTAACCG
30226362 AATT
1 AATT
30226366 GAATCACTAC
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 50 1.00
ACGTcount: A:0.42, C:0.22, G:0.12, T:0.24
Consensus pattern (9 bp):
AATTAACCG
Found at i:30229227 original size:54 final size:54
Alignment explanation
Indices: 30229164--30229276 Score: 208
Period size: 54 Copynumber: 2.1 Consensus size: 54
30229154 AGTATCATAT
30229164 ATTATGATTTGAGTAAATTCATATAAAAATATTAATTATTAAGAATTTTATTAA
1 ATTATGATTTGAGTAAATTCATATAAAAATATTAATTATTAAGAATTTTATTAA
* *
30229218 ATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAA
1 ATTATGATTTGAGTAAATTCATATAAAAATATTAATTATTAAGAATTTTATTAA
30229272 ATTAT
1 ATTAT
30229277 ATATTTTAAT
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
54 57 1.00
ACGTcount: A:0.44, C:0.02, G:0.09, T:0.45
Consensus pattern (54 bp):
ATTATGATTTGAGTAAATTCATATAAAAATATTAATTATTAAGAATTTTATTAA
Found at i:30229264 original size:28 final size:27
Alignment explanation
Indices: 30229179--30229264 Score: 63
Period size: 28 Copynumber: 3.1 Consensus size: 27
30229169 GATTTGAGTA
*
30229179 AATTCATATAAAAATATTAATTATTAAG
1 AATTCATAT-AAAATATTGATTATTAAG
* * *
30229207 AATT-TTATTAAAT-TATGA-T-TTGAG
1 AATTCATATAAAATAT-TGATTATTAAG
30229231 TAAATTCATATAAGAATATTGATTATTAAG
1 --AATTCATATAA-AATATTGATTATTAAG
30229261 AATT
1 AATT
30229265 TTATTAAATT
Statistics
Matches: 43, Mismatches: 7, Indels: 16
0.65 0.11 0.24
Matches are distributed among these distances:
24 4 0.09
25 2 0.05
26 10 0.23
27 7 0.16
28 14 0.33
29 2 0.05
30 4 0.09
ACGTcount: A:0.47, C:0.02, G:0.08, T:0.43
Consensus pattern (27 bp):
AATTCATATAAAATATTGATTATTAAG
Found at i:30229296 original size:16 final size:16
Alignment explanation
Indices: 30229275--30229316 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
30229265 TTATTAAATT
*
30229275 ATATATTTTAATTATA
1 ATATATTTTAATAATA
30229291 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
30229306 A-ATATGTTTAA
1 ATATAT-TTTAA
30229317 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:30229557 original size:16 final size:16
Alignment explanation
Indices: 30229536--30229566 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
30229526 TGCTATTACA
30229536 CCTCTAATCCAATACG
1 CCTCTAATCCAATACG
30229552 CCTCTAATCCAATAC
1 CCTCTAATCCAATAC
30229567 AGCGAACCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.32, C:0.39, G:0.03, T:0.26
Consensus pattern (16 bp):
CCTCTAATCCAATACG
Found at i:30229667 original size:18 final size:18
Alignment explanation
Indices: 30229627--30229670 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
30229617 AATTTTTATG
**
30229627 ATTGGGTTGGGTTGGGTA
1 ATTGGGTTGGGTTGAATA
30229645 ATTGGGTTGGGTTGAATA
1 ATTGGGTTGGGTTGAATA
*
30229663 CTTGGGTT
1 ATTGGGTT
30229671 TGGATTGGGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.14, C:0.02, G:0.43, T:0.41
Consensus pattern (18 bp):
ATTGGGTTGGGTTGAATA
Found at i:30232301 original size:17 final size:17
Alignment explanation
Indices: 30232279--30232311 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
30232269 TAGTTTTTAC
30232279 ATATTTAAAATTTATAT
1 ATATTTAAAATTTATAT
30232296 ATATTTAAAATTTATA
1 ATATTTAAAATTTATA
30232312 ATTTTTTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
ATATTTAAAATTTATAT
Found at i:30232311 original size:15 final size:16
Alignment explanation
Indices: 30232273--30232308 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
30232263 TTTATTTAGT
*
30232273 TTTTACATATTTAAAA
1 TTTTATATATTTAAAA
30232289 TTTATATATATTTAAAA
1 TTT-TATATATTTAAAA
30232306 TTT
1 TTT
30232309 ATAATTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 3 0.17
17 15 0.83
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.56
Consensus pattern (16 bp):
TTTTATATATTTAAAA
Found at i:30243911 original size:22 final size:22
Alignment explanation
Indices: 30243849--30243903 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 22
30243839 TGCACTAATG
* *
30243849 AACAGAGAGCACA-AAGTGCTA
1 AACAGAGAGCACAGATGTGCAA
30243870 AACAGAGAGCACAGATGTGCAA
1 AACAGAGAGCACAGATGTGCAA
*
30243892 AACGGAGAGCAC
1 AACAGAGAGCAC
30243904 TGTCGTGCTA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
21 13 0.43
22 17 0.57
ACGTcount: A:0.45, C:0.20, G:0.27, T:0.07
Consensus pattern (22 bp):
AACAGAGAGCACAGATGTGCAA
Found at i:30243925 original size:25 final size:24
Alignment explanation
Indices: 30243896--30243953 Score: 80
Period size: 25 Copynumber: 2.3 Consensus size: 24
30243886 GTGCAAAACG
* *
30243896 GAGAGCACTGTCGTGCTAGTAATCA
1 GAGAGCACT-ACGTGCTAATAATCA
30243921 GAGAGCACCTACGTGCTAATAATCA
1 GAGAGCA-CTACGTGCTAATAATCA
30243946 GAGAGCAC
1 GAGAGCAC
30243954 GCTAAAGTTC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
24 1 0.03
25 27 0.90
26 2 0.07
ACGTcount: A:0.33, C:0.22, G:0.26, T:0.19
Consensus pattern (24 bp):
GAGAGCACTACGTGCTAATAATCA
Found at i:30244946 original size:13 final size:13
Alignment explanation
Indices: 30244925--30244956 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
30244915 TTTGATTAAT
*
30244925 TAATGTAATATAA
1 TAATATAATATAA
30244938 TAATATAATATAA
1 TAATATAATATAA
30244951 TAATAT
1 TAATAT
30244957 TTTAATCTAA
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:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (13 bp):
TAATATAATATAA
Found at i:30255438 original size:24 final size:26
Alignment explanation
Indices: 30255391--30255440 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
30255381 TTTAAGATAC
* *
30255391 TTTAAAATATTTTTTTATTTTTTATT
1 TTTAAAATATTTTTTTAGTGTTTATT
30255417 TTTAAAATA-TTTTTT-GTGTTTATT
1 TTTAAAATATTTTTTTAGTGTTTATT
30255441 AAAAACCGGG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 7 0.32
25 6 0.27
26 9 0.41
ACGTcount: A:0.26, C:0.00, G:0.04, T:0.70
Consensus pattern (26 bp):
TTTAAAATATTTTTTTAGTGTTTATT
Found at i:30256269 original size:3 final size:3
Alignment explanation
Indices: 30256263--30256315 Score: 97
Period size: 3 Copynumber: 17.7 Consensus size: 3
30256253 AAAAAAAAAG
*
30256263 ATA ATA ATA ATA ATA ATA ATG ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
30256311 ATA AT
1 ATA AT
30256316 TGAAACCATG
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:30268376 original size:23 final size:22
Alignment explanation
Indices: 30268344--30268401 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 22
30268334 GTCCAAGTAA
* *
30268344 GTTTTAAATGTTGTCCAAAATAT
1 GTTTT-AATGTTATCCAAAACAT
* *
30268367 GTTTTGAATGTCATCCAAAGCAT
1 GTTTT-AATGTTATCCAAAACAT
30268390 GTTTTAATGTTA
1 GTTTTAATGTTA
30268402 ATATTGTCGG
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
22 6 0.21
23 23 0.79
ACGTcount: A:0.31, C:0.10, G:0.16, T:0.43
Consensus pattern (22 bp):
GTTTTAATGTTATCCAAAACAT
Found at i:30269333 original size:2 final size:2
Alignment explanation
Indices: 30269326--30269358 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
30269316 ATGAAATAAG
30269326 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
30269359 AATGTGGTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:30270816 original size:28 final size:28
Alignment explanation
Indices: 30270776--30270831 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
30270766 ATATTCACAC
30270776 ATCGTACTATCAAAGTCATTTGTTCTAT
1 ATCGTACTATCAAAGTCATTTGTTCTAT
30270804 ATCGTACTATCAAAGTCATTTGTTCTAT
1 ATCGTACTATCAAAGTCATTTGTTCTAT
30270832 CTCTTTCATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.29, C:0.18, G:0.11, T:0.43
Consensus pattern (28 bp):
ATCGTACTATCAAAGTCATTTGTTCTAT
Found at i:30276025 original size:72 final size:72
Alignment explanation
Indices: 30275930--30276168 Score: 374
Period size: 72 Copynumber: 3.3 Consensus size: 72
30275920 CAATGCTAAA
* *
30275930 CTAGTTTTATCAATAATTATTTATGTTTGGTTTTTGGATATTGAATTTATGTTCTACTTATTTAT
1 CTAGTTTTATCAATAGTTGTTTATGTTTGGTTTTTGGATATTGAATTTATGTTCTACTTATTTAT
*
30275995 TTGTAAT
66 CTGTAAT
*
30276002 CTAGTTTTATCAATGGTTGTTTATGTTTGGTTTTTGGATATTGAATTTATGTTCTACTTATTTAT
1 CTAGTTTTATCAATAGTTGTTTATGTTTGGTTTTTGGATATTGAATTTATGTTCTACTTATTTAT
*
30276067 GTGTAAT
66 CTGTAAT
* * *
30276074 CTAGTTTTATTAATAGTTGTTTATGTTCGGTCTTTGGATATTGAATTTATGTTCTACTTATTTAT
1 CTAGTTTTATCAATAGTTGTTTATGTTTGGTTTTTGGATATTGAATTTATGTTCTACTTATTTAT
*
30276139 ACT-AAAT
66 -CTGTAAT
30276146 -TAGTTTTATCAATAGTTGTTTAT
1 CTAGTTTTATCAATAGTTGTTTAT
30276169 ATATGATTTT
Statistics
Matches: 155, Mismatches: 11, Indels: 3
0.92 0.07 0.02
Matches are distributed among these distances:
71 22 0.14
72 132 0.85
73 1 0.01
ACGTcount: A:0.24, C:0.06, G:0.15, T:0.55
Consensus pattern (72 bp):
CTAGTTTTATCAATAGTTGTTTATGTTTGGTTTTTGGATATTGAATTTATGTTCTACTTATTTAT
CTGTAAT
Found at i:30283783 original size:41 final size:41
Alignment explanation
Indices: 30283738--30283816 Score: 124
Period size: 41 Copynumber: 1.9 Consensus size: 41
30283728 TATATTGTCA
30283738 GTGAAC-CAATTCAGGCTAAAAGCCTAGCAGGCTAAGTGTTG
1 GTGAACTCAATT-AGGCTAAAAGCCTAGCAGGCTAAGTGTTG
* *
30283779 GTGAACTGAATTAGGCTATAAGCCTAGCAGGCTAAGTG
1 GTGAACTCAATTAGGCTAAAAGCCTAGCAGGCTAAGTG
30283817 CCGATGATCT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
41 31 0.89
42 4 0.11
ACGTcount: A:0.32, C:0.18, G:0.28, T:0.23
Consensus pattern (41 bp):
GTGAACTCAATTAGGCTAAAAGCCTAGCAGGCTAAGTGTTG
Found at i:30283829 original size:41 final size:41
Alignment explanation
Indices: 30283745--30283835 Score: 119
Period size: 41 Copynumber: 2.2 Consensus size: 41
30283735 TCAGTGAACC
** *
30283745 AATTCAGGCTAAAAGCCTAGCAGGCTAAGTGTTGGTGAACTG
1 AATT-AGGCTAAAAGCCTAGCAGGCTAAGTGCCGATGAACTG
* *
30283787 AATTAGGCTATAAGCCTAGCAGGCTAAGTGCCGATGATCTG
1 AATTAGGCTAAAAGCCTAGCAGGCTAAGTGCCGATGAACTG
*
30283828 AATCAGGC
1 AATTAGGC
30283836 CTAGCAGGCT
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
41 39 0.91
42 4 0.09
ACGTcount: A:0.31, C:0.19, G:0.27, T:0.23
Consensus pattern (41 bp):
AATTAGGCTAAAAGCCTAGCAGGCTAAGTGCCGATGAACTG
Found at i:30284081 original size:38 final size:38
Alignment explanation
Indices: 30284024--30284146 Score: 110
Period size: 38 Copynumber: 3.2 Consensus size: 38
30284014 AATTGTTGGA
*
30284024 TATATATATGTGTACGCATTTGACATATGTGGATT-ATAAG
1 TATATATATATGT--GCATTTGACATATGTGG-TTGATAAG
* * *
30284064 TATATATATATGTGCATTCGGCACATGTGGTTGATAAG
1 TATATATATATGTGCATTTGACATATGTGGTTGATAAG
* * **
30284102 TATA-A-ATATATGCTTTTGACATATGTATTTGAATAA-
1 TATATATATATGTGCATTTGACATATGTGGTTG-ATAAG
30284138 TATATATAT
1 TATATATAT
30284147 GCATTCGATG
Statistics
Matches: 68, Mismatches: 11, Indels: 10
0.76 0.12 0.11
Matches are distributed among these distances:
36 23 0.34
37 8 0.12
38 25 0.37
40 12 0.18
ACGTcount: A:0.34, C:0.07, G:0.17, T:0.41
Consensus pattern (38 bp):
TATATATATATGTGCATTTGACATATGTGGTTGATAAG
Found at i:30288480 original size:239 final size:242
Alignment explanation
Indices: 30288144--30288597 Score: 648
Period size: 239 Copynumber: 1.9 Consensus size: 242
30288134 TTATATCATA
* * * *
30288144 TTAAAATCTAAAATTATTATTACAATATAAAAAATATATACAATAGTCAAACCAATCTTAATATT
1 TTAAAATATAAAATTATTATTACAATATAAAAAATACATACAATAGCCAAAACAATCTTAATATT
* * * *
30288209 ACTTTTAACACAAATCTAATCATTCAAACAAAAATATAATGTTGAATGTTATATCTTAAAATATA
66 ACTTTTAACACAAATCTAATAATTCAAACAAAAATATAATATTGAAGGGTATATCTTAAAATATA
* * * *
30288274 CAAGTTATTATTACAA-A-A-AAAAAAAGATATACACTACCAAAATTATCTTAATGTTACTTTTA
131 AAAATTATTATTACAATATATAAAAAAA-AAATACACTACCAAAATTATCTTAATATTACTTTTA
30288336 ACACAAATATAATAATTCAAACAAAAATATAATGTTGAATGTTATATC
195 ACACAAATATAATAATTCAAACAAAAATATAATGTTGAATGTTATATC
* * * **
30288384 TTAAAATATACAAATTATTATTAGAATATAAAAAA-CCATACACTA-CCAAAATTATCTTAATAT
1 TTAAAATATA-AAATTATTATTACAATATAAAAAATACATACAATAGCCAAAACAATCTTAATAT
* * *
30288447 TACTTTTAACGCAATTCTAGTAATTCAAACAAAAATATAATATTGAAGGGTATATCTTAAAATAT
65 TACTTTTAACACAAATCTAATAATTCAAACAAAAATATAATATTGAAGGGTATATCTTAAAATAT
*
30288512 AAAAATTATTATTACAATATATAAAAAAAAAATACACTACTAAAATTATCTTAATATTACTTTTA
130 AAAAATTATTATTACAATATATAAAAAAAAAATACACTACCAAAATTATCTTAATATTACTTTTA
* *
30288577 ACACAATTCTAATAATTCAAA
195 ACACAAATATAATAATTCAAA
30288598 AAATTATAAT
Statistics
Matches: 187, Mismatches: 23, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
239 87 0.47
240 17 0.09
241 76 0.41
242 7 0.04
ACGTcount: A:0.50, C:0.12, G:0.04, T:0.34
Consensus pattern (242 bp):
TTAAAATATAAAATTATTATTACAATATAAAAAATACATACAATAGCCAAAACAATCTTAATATT
ACTTTTAACACAAATCTAATAATTCAAACAAAAATATAATATTGAAGGGTATATCTTAAAATATA
AAAATTATTATTACAATATATAAAAAAAAAATACACTACCAAAATTATCTTAATATTACTTTTAA
CACAAATATAATAATTCAAACAAAAATATAATGTTGAATGTTATATC
Found at i:30288493 original size:119 final size:120
Alignment explanation
Indices: 30288144--30288610 Score: 618
Period size: 120 Copynumber: 3.9 Consensus size: 120
30288134 TTATATCATA
* * * * ***
30288144 TTAAAATCTA-AAATTATTATTACAATATAAAAAATATATACAATAGTCAAACCAATCTTAATAT
1 TTAAAATATACAAATTATTATTACAATATAAAAAAGATATACACTA-CCAAAATTATCTTAATAT
* *
30288208 TACTTTTAACACAAATCTAATCATTCAAACAAAAATATAATGTTGAATGTTATATC
65 TACTTTTAACACAAATCTAATAATTCAAACAAAAATATAATATTGAATGTTATATC
* * * *
30288264 TTAAAATATACAAGTTATTATTACAAAAAAAAAAAGATATACACTACCAAAATTATCTTAATGTT
1 TTAAAATATACAAATTATTATTACAATATAAAAAAGATATACACTACCAAAATTATCTTAATATT
* *
30288329 ACTTTTAACACAAATATAATAATTCAAACAAAAATATAATGTTGAATGTTATATC
66 ACTTTTAACACAAATCTAATAATTCAAACAAAAATATAATATTGAATGTTATATC
* **
30288384 TTAAAATATACAAATTATTATTAGAATATAAAAAA-CCATACACTACCAAAATTATCTTAATATT
1 TTAAAATATACAAATTATTATTACAATATAAAAAAGATATACACTACCAAAATTATCTTAATATT
* * * * *
30288448 ACTTTTAACGCAATTCTAGTAATTCAAACAAAAATATAATATTGAAGGGTATATC
66 ACTTTTAACACAAATCTAATAATTCAAACAAAAATATAATATTGAATGTTATATC
* * * *
30288503 TTAAAATATAAAAATTATTATTACAATATATAAAAAAAAAATACACTACTAAAATTATCTTAATA
1 TTAAAATATACAAATTATTATTAC-A-ATATAAAAAAGATATACACTACCAAAATTATCTTAATA
* *
30288568 TTACTTTTAACACAATTCTAATAATTC-AA-AAAATTATAATATT
64 TTACTTTTAACACAAATCTAATAATTCAAACAAAAATATAATATT
30288611 AAAAATTAAC
Statistics
Matches: 308, Mismatches: 35, Indels: 8
0.88 0.10 0.02
Matches are distributed among these distances:
119 96 0.31
120 121 0.39
121 42 0.14
122 49 0.16
ACGTcount: A:0.50, C:0.11, G:0.04, T:0.35
Consensus pattern (120 bp):
TTAAAATATACAAATTATTATTACAATATAAAAAAGATATACACTACCAAAATTATCTTAATATT
ACTTTTAACACAAATCTAATAATTCAAACAAAAATATAATATTGAATGTTATATC
Found at i:30288651 original size:16 final size:16
Alignment explanation
Indices: 30288630--30288706 Score: 50
Period size: 16 Copynumber: 4.5 Consensus size: 16
30288620 CATACCTTAA
30288630 TAATAATAATCTAATC
1 TAATAATAATCTAATC
*
30288646 TAATAATATATCAATAAACCTT
1 TAATAATA-ATC--T-AA--TC
* *
30288668 TAACACA-AATCTAATT
1 TAATA-ATAATCTAATC
30288684 TAATAATAATCTAATC
1 TAATAATAATCTAATC
30288700 TAA-AATA
1 TAATAATA
30288707 TAAATAATAC
Statistics
Matches: 49, Mismatches: 4, Indels: 17
0.70 0.06 0.24
Matches are distributed among these distances:
15 5 0.10
16 25 0.51
17 3 0.06
18 2 0.04
19 2 0.04
20 2 0.04
21 3 0.06
22 6 0.12
23 1 0.02
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.35
Consensus pattern (16 bp):
TAATAATAATCTAATC
Found at i:30297661 original size:31 final size:31
Alignment explanation
Indices: 30297626--30297701 Score: 116
Period size: 31 Copynumber: 2.5 Consensus size: 31
30297616 CTCCTCGAAT
*
30297626 GCATATAACTGAATATTGATATACATCAAGA
1 GCATATAACCGAATATTGATATACATCAAGA
* *
30297657 GCATATAACCGAGTATTTATATACATCAAGA
1 GCATATAACCGAATATTGATATACATCAAGA
*
30297688 GCATATACCCGAAT
1 GCATATAACCGAAT
30297702 GTATGCATAT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.42, C:0.17, G:0.13, T:0.28
Consensus pattern (31 bp):
GCATATAACCGAATATTGATATACATCAAGA
Found at i:30298217 original size:40 final size:40
Alignment explanation
Indices: 30298103--30298203 Score: 184
Period size: 40 Copynumber: 2.5 Consensus size: 40
30298093 TGACTCAGAA
30298103 CACCGGCATTAAGCCTGCTAGACATTAAGTCTGAAAAACT
1 CACCGGCATTAAGCCTGCTAGACATTAAGTCTGAAAAACT
* *
30298143 CACCAGCATTAAGCCTGCTAGACATTAAGTCTGAAAAATT
1 CACCGGCATTAAGCCTGCTAGACATTAAGTCTGAAAAACT
30298183 CACCGGCATTAAGCCTGCTAG
1 CACCGGCATTAAGCCTGCTAG
30298204 GCACAGAACC
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 58 1.00
ACGTcount: A:0.34, C:0.26, G:0.18, T:0.23
Consensus pattern (40 bp):
CACCGGCATTAAGCCTGCTAGACATTAAGTCTGAAAAACT
Found at i:30313588 original size:28 final size:28
Alignment explanation
Indices: 30313548--30313789 Score: 270
Period size: 28 Copynumber: 8.6 Consensus size: 28
30313538 AGAGTCTGCT
30313548 ACAAAGGCTTATTCTTTCATAGTTCGCC
1 ACAAAGGCTTATTCTTTCATAGTTCGCC
* *
30313576 ACAAAGGCTTATTCTTTCGTAGTTTGCC
1 ACAAAGGCTTATTCTTTCATAGTTCGCC
* * * *
30313604 ACAAAGGCTTAATCTTCCGTAGTTCGTC
1 ACAAAGGCTTATTCTTTCATAGTTCGCC
*
30313632 ACAAAGGCTTATTCTTTCATAGTTCTCC
1 ACAAAGGCTTATTCTTTCATAGTTCGCC
*
30313660 ACAAAGGCTTATTCTTTCATAGTTCGTC
1 ACAAAGGCTTATTCTTTCATAGTTCGCC
* * *
30313688 ACATAA-GCTTATTCTTTTATAGGTCGTC
1 ACA-AAGGCTTATTCTTTCATAGTTCGCC
* ** * *
30313716 ATAAAGGCTTATTCTTTTGTTGTTCACC
1 ACAAAGGCTTATTCTTTCATAGTTCGCC
* * * * *
30313744 ATAAAGGCTTATTCTTTCGTTGTTCACT
1 ACAAAGGCTTATTCTTTCATAGTTCGCC
*
30313772 AGAAAGGCTTATTCTTTC
1 ACAAAGGCTTATTCTTTC
30313790 CTGATGTGTT
Statistics
Matches: 188, Mismatches: 24, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
27 2 0.01
28 184 0.98
29 2 0.01
ACGTcount: A:0.24, C:0.21, G:0.15, T:0.40
Consensus pattern (28 bp):
ACAAAGGCTTATTCTTTCATAGTTCGCC
Found at i:30317749 original size:18 final size:17
Alignment explanation
Indices: 30317726--30317759 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
30317716 AAATACATAC
30317726 ATTAATAAATAAATATGA
1 ATTAATAAA-AAATATGA
*
30317744 ATTAATATAAAATATG
1 ATTAATAAAAAATATG
30317760 TATGAAAATC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.35
Consensus pattern (17 bp):
ATTAATAAAAAATATGA
Found at i:30319778 original size:44 final size:45
Alignment explanation
Indices: 30319687--30319779 Score: 127
Period size: 44 Copynumber: 2.1 Consensus size: 45
30319677 TTCGCTGTAT
*
30319687 TGGAATAGAGGCGTAATAGCAAATCAATTGTTTGGTTGAATGTAA
1 TGGAATAGAGGCGTAATAGCAAATCAATTGTTTGGTTGAATGGAA
* * *
30319732 TGGAATAGAGGCGTAATAG-TATTC-TTATGTTTGGTTGAATGGAA
1 TGGAATAGAGGCGTAATAGCAAATCAAT-TGTTTGGTTGAATGGAA
30319776 TGGA
1 TGGA
30319780 GGTGTAATAG
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
43 1 0.02
44 23 0.53
45 19 0.44
ACGTcount: A:0.32, C:0.05, G:0.29, T:0.33
Consensus pattern (45 bp):
TGGAATAGAGGCGTAATAGCAAATCAATTGTTTGGTTGAATGGAA
Found at i:30330923 original size:27 final size:27
Alignment explanation
Indices: 30330876--30330962 Score: 104
Period size: 27 Copynumber: 3.2 Consensus size: 27
30330866 TAGAAGTTTG
* * *
30330876 GGCCTAGAAAG-TAGGTATATGCCAATA
1 GGCCTAGCAAGCT-GGTGTATGCCAGTA
*
30330903 GGCCTGGCAAGCTGGTGTATGCCAGTA
1 GGCCTAGCAAGCTGGTGTATGCCAGTA
* *
30330930 GGCCTAGCTAGCTGGTGTACGCCAGTA
1 GGCCTAGCAAGCTGGTGTATGCCAGTA
30330957 GGCCTA
1 GGCCTA
30330963 ATGAGTTAGT
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
27 51 0.98
28 1 0.02
ACGTcount: A:0.24, C:0.22, G:0.32, T:0.22
Consensus pattern (27 bp):
GGCCTAGCAAGCTGGTGTATGCCAGTA
Found at i:30332029 original size:19 final size:20
Alignment explanation
Indices: 30331987--30332029 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
30331977 TCATGCTTTC
*
30331987 TATTCACATTTTCATATTCA
1 TATTCACATTTTCAAATTCA
30332007 -ATTCACATTTTCAAATT-A
1 TATTCACATTTTCAAATTCA
30332025 TATTC
1 TATTC
30332030 CACAATCACG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 1 0.05
19 20 0.95
ACGTcount: A:0.33, C:0.19, G:0.00, T:0.49
Consensus pattern (20 bp):
TATTCACATTTTCAAATTCA
Found at i:30341317 original size:12 final size:12
Alignment explanation
Indices: 30341296--30341328 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
30341286 CGTAAGTTTT
*
30341296 TCTCTCTCTCTC
1 TCTCTTTCTCTC
30341308 TCTCTTTCTCTC
1 TCTCTTTCTCTC
30341320 TCTCTTTCT
1 TCTCTTTCT
30341329 GAGCATGTAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.00, C:0.42, G:0.00, T:0.58
Consensus pattern (12 bp):
TCTCTTTCTCTC
Found at i:30341847 original size:124 final size:124
Alignment explanation
Indices: 30341643--30341867 Score: 371
Period size: 124 Copynumber: 1.8 Consensus size: 124
30341633 TGAAGTCTGG
* * *
30341643 ACTTAGCTTTTTCTCCCTGCCTTGCACAATTAGACAGATCGGTGATTGTGGAGTTACTTTGGCAA
1 ACTTAGCCTTTTCTCCCTGCCTTGCACAATTAGACAGATCGGTGATTGTGGAGTTACCTTAGCAA
*
30341708 AAATCTTTAGCATCCTCCTGGTGATATTTGATTAGCATCAAGTTGGTTTCGAAGTTTTT
66 AAACCTTTAGCATCCTCCTGGTGATATTTGATTAGCATCAAGTTGGTTTCGAAGTTTTT
* *
30341767 ACTTAGCCTTTTCTCCTTGCCTTGCACAATTAGACATG-TTGGTGATTGTGGAGTTACCTTAGCA
1 ACTTAGCCTTTTCTCCCTGCCTTGCACAATTAGACA-GATCGGTGATTGTGGAGTTACCTTAGCA
*
30341831 AAAACCTTTAGCATCCTCTTGGTGATATTTGATTAGC
65 AAAACCTTTAGCATCCTCCTGGTGATATTTGATTAGC
30341868 TACAAGCAAC
Statistics
Matches: 93, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
124 92 0.99
125 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.20, T:0.38
Consensus pattern (124 bp):
ACTTAGCCTTTTCTCCCTGCCTTGCACAATTAGACAGATCGGTGATTGTGGAGTTACCTTAGCAA
AAACCTTTAGCATCCTCCTGGTGATATTTGATTAGCATCAAGTTGGTTTCGAAGTTTTT
Found at i:30343133 original size:17 final size:18
Alignment explanation
Indices: 30343108--30343153 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
30343098 ATTTATTAAA
*
30343108 TTAAATTAATTAATTTTC
1 TTAACTTAATTAATTTTC
*
30343126 -TAACTTAAATAATTTTC
1 TTAACTTAATTAATTTTC
*
30343143 TTAATTTAATT
1 TTAACTTAATT
30343154 TTAATTCTGT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
17 15 0.65
18 8 0.35
ACGTcount: A:0.39, C:0.07, G:0.00, T:0.54
Consensus pattern (18 bp):
TTAACTTAATTAATTTTC
Found at i:30345446 original size:18 final size:18
Alignment explanation
Indices: 30345419--30345476 Score: 55
Period size: 22 Copynumber: 3.0 Consensus size: 18
30345409 AGAGAAATCT
30345419 AAAA-ATATATAATTATA
1 AAAATATATATAATTATA
*
30345436 AAAATATATATAAATACATAA
1 AAAATATATAT-AAT-TAT-A
30345457 AAAATTATATATATATTATA
1 AAAA-TATATATA-ATTATA
30345477 TACATGTAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
17 4 0.12
18 6 0.18
19 3 0.09
20 3 0.09
21 8 0.24
22 9 0.27
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (18 bp):
AAAATATATATAATTATA
Found at i:30349642 original size:81 final size:85
Alignment explanation
Indices: 30349539--30349706 Score: 263
Period size: 81 Copynumber: 2.0 Consensus size: 85
30349529 GGCATGTTTG
30349539 TGTTTGAGTATTGAGGAAGATGTTGATTTTATAGTCTCTTTAAGTTTCACTTCTATG-TC-TCTT
1 TGTTTGAGTATTGAGGAAGATGTTGATTTTATAGTCTCTTTAAGTTTCACTTCTATGCTCTTCTT
30349602 A-TTCTTTTAGATGATTGCA
66 ATTTCTTTTAGATGATTGCA
* * *
30349621 TGTTTGTGT-TTGAGGAAGATGTTGATTTTATGGTCTTTTTAAGTTTCACTTCTATGTCTCTTCT
1 TGTTTGAGTATTGAGGAAGATGTTGATTTTATAGTCTCTTTAAGTTTCACTTCTATG-CTCTTCT
*
30349685 TATTTTTTTTAGATGATTGCA
65 TATTTCTTTTAGATGATTGCA
30349706 T
1 T
30349707 AAGATATTGA
Statistics
Matches: 78, Mismatches: 4, Indels: 5
0.90 0.05 0.06
Matches are distributed among these distances:
81 45 0.58
82 8 0.10
83 2 0.03
84 5 0.06
85 18 0.23
ACGTcount: A:0.20, C:0.10, G:0.18, T:0.52
Consensus pattern (85 bp):
TGTTTGAGTATTGAGGAAGATGTTGATTTTATAGTCTCTTTAAGTTTCACTTCTATGCTCTTCTT
ATTTCTTTTAGATGATTGCA
Found at i:30352599 original size:16 final size:16
Alignment explanation
Indices: 30352578--30352608 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
30352568 TTCTCTATTA
*
30352578 TGTCTTTTGTATTTTC
1 TGTCTTTTATATTTTC
30352594 TGTCTTTTATATTTT
1 TGTCTTTTATATTTT
30352609 GCATGCATAG
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:0.10, C:0.10, G:0.10, T:0.71
Consensus pattern (16 bp):
TGTCTTTTATATTTTC
Found at i:30353490 original size:138 final size:138
Alignment explanation
Indices: 30353242--30353517 Score: 543
Period size: 138 Copynumber: 2.0 Consensus size: 138
30353232 AATTTATCAC
30353242 AATAATTTTTTGACAGAGATCATATTAATCATTAAGAAGACATAATGATGACAATGAGATAAAAT
1 AATAATTTTTTGACAGAGATCATATTAATCATTAAGAAGACATAATGATGACAATGAGATAAAAT
30353307 ATAATTGTATTAAGTGAACGGATTTAACTCAAAGGAATCAAGGATATCATATGAGGGTAACACAC
66 ATAATTGTATTAAGTGAACGGATTTAACTCAAAGGAATCAAGGATATCATATGAGGGTAACACAC
30353372 ATGACGAG
131 ATGACGAG
*
30353380 AATAATTTTTTGACAGTGATCATATTAATCATTAAGAAGACATAATGATGACAATGAGATAAAAT
1 AATAATTTTTTGACAGAGATCATATTAATCATTAAGAAGACATAATGATGACAATGAGATAAAAT
30353445 ATAATTGTATTAAGTGAACGGATTTAACTCAAAGGAATCAAGGATATCATATGAGGGTAACACAC
66 ATAATTGTATTAAGTGAACGGATTTAACTCAAAGGAATCAAGGATATCATATGAGGGTAACACAC
30353510 ATGACGAG
131 ATGACGAG
30353518 GTCATTGGAC
Statistics
Matches: 137, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
138 137 1.00
ACGTcount: A:0.44, C:0.10, G:0.18, T:0.28
Consensus pattern (138 bp):
AATAATTTTTTGACAGAGATCATATTAATCATTAAGAAGACATAATGATGACAATGAGATAAAAT
ATAATTGTATTAAGTGAACGGATTTAACTCAAAGGAATCAAGGATATCATATGAGGGTAACACAC
ATGACGAG
Found at i:30369591 original size:18 final size:17
Alignment explanation
Indices: 30369570--30369604 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
30369560 CTATTATTAA
*
30369570 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
30369588 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
30369605 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:30369711 original size:18 final size:17
Alignment explanation
Indices: 30369688--30369724 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
30369678 AATTATTATT
30369688 AAATATA-T-TTTAATTA
1 AAATATATTATTTAA-TA
30369704 AAATATATTATTTAATA
1 AAATATATTATTTAATA
30369721 AAAT
1 AAAT
30369725 TCTTAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 7 0.37
17 7 0.37
18 5 0.26
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
AAATATATTATTTAATA
Found at i:30369763 original size:120 final size:119
Alignment explanation
Indices: 30369550--30369968 Score: 723
Period size: 120 Copynumber: 3.5 Consensus size: 119
30369540 TTAATCATAT
* *
30369550 TTTAACATAACTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
1 TTTAA-ATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAAT
* * *
30369615 CAATATTCTTATATGAATTTACTCAAATCCTAATATATGATACTATAAAATATAA
65 CAATATTCTTATATGAATTTACTAAAATCATAATATATGATAGTATAAAATATAA
*
30369670 TTTAAGATAATTATTATTAAATATATTTTAATTAAAATATATTATTTAATAAAATTCTTAATAAT
1 TTTAA-ATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAAT
*
30369735 CAATATTCTTATATGAATTTACTAAAATCATAATATATGATAGTATAAAATATAT
65 CAATATTCTTATATGAATTTACTAAAATCATAATATATGATAGTATAAAATATAA
*
30369790 TTTGAAATAATAATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAAT
1 TTT-AAATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAAT
*
30369855 CAATATTCTTATATGAATTTACTAAAATCATAATATATTATAGTATAAAATATAA
65 CAATATTCTTATATGAATTTACTAAAATCATAATATATGATAGTATAAAATATAA
30369910 TTTAAATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT-TTAA
1 TTTAAATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAA
30369969 AAAATTATTA
Statistics
Matches: 286, Mismatches: 12, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
118 4 0.01
119 51 0.18
120 229 0.80
121 2 0.01
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.44
Consensus pattern (119 bp):
TTTAAATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAATC
AATATTCTTATATGAATTTACTAAAATCATAATATATGATAGTATAAAATATAA
Found at i:30369950 original size:18 final size:17
Alignment explanation
Indices: 30369927--30369963 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
30369917 AATTATTATT
30369927 AAATATAT--TTTAATTA
1 AAATATATGATTTAA-TA
30369943 AAATATATGATTTAATA
1 AAATATATGATTTAATA
30369960 AAAT
1 AAAT
30369964 TTTAAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.42
17 6 0.32
18 5 0.26
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (17 bp):
AAATATATGATTTAATA
Found at i:30369963 original size:17 final size:16
Alignment explanation
Indices: 30369907--30369963 Score: 50
Period size: 15 Copynumber: 3.6 Consensus size: 16
30369897 GTATAAAATA
*
30369907 TAATTTAAATA-ATTAT
1 TAATTAAAATATATT-T
30369923 T-ATT-AAATATATTT
1 TAATTAAAATATATTT
30369937 TAATTAAAATATATGATT
1 TAATTAAAATATAT--TT
30369955 TAA-TAAAAT
1 TAATTAAAAT
30369964 TTTAAAAAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
14 7 0.19
15 9 0.25
16 9 0.25
17 6 0.17
18 5 0.14
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (16 bp):
TAATTAAAATATATTT
Found at i:30370056 original size:91 final size:91
Alignment explanation
Indices: 30369980--30370368 Score: 715
Period size: 91 Copynumber: 4.3 Consensus size: 91
30369970 AAATTATTAG
* * *
30369980 TAATAAATTTTCTTATATGAATTTGTATAATTTAATATAATTATTATTAAATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
30370045 AATATATAATTTCATAAAATTCTTGA
66 GATATATAATTTCATAAAATTCTTGA
*
30370071 TAATAAATTTTCTTATATGAACTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
30370136 GATATATAATTTCATAAAATTCTTGA
66 GATATATAATTTCATAAAATTCTTGA
30370162 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
30370227 GATATATAATTTCATAAAATTCTTGA
66 GATATATAATTTCATAAAATTCTTGA
30370253 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
30370318 GATATATAATTTCATAAAATTCTTAA
66 GATATATAATTTCATAAAATTCTTGA
*
30370344 TAATAAATATTCTTATATGAATTTA
1 TAATAAATTTTCTTATATGAATTTA
30370369 CTAAAATCAT
Statistics
Matches: 290, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
91 290 1.00
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.47
Consensus pattern (91 bp):
TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
GATATATAATTTCATAAAATTCTTGA
Found at i:30375406 original size:38 final size:38
Alignment explanation
Indices: 30375362--30375438 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
30375352 TATACAAAAT
30375362 AATTTACACTTCTAAGCATTTGACTAGTATTAAAATCA
1 AATTTACACTTCTAAGCATTTGACTAGTATTAAAATCA
30375400 AATTTACACTTCTAAGCATTTGACTAGTATTAAAATCA
1 AATTTACACTTCTAAGCATTTGACTAGTATTAAAATCA
30375438 A
1 A
30375439 TCACACATTA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.40, C:0.16, G:0.08, T:0.36
Consensus pattern (38 bp):
AATTTACACTTCTAAGCATTTGACTAGTATTAAAATCA
Found at i:30378342 original size:22 final size:22
Alignment explanation
Indices: 30378328--30378370 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
30378318 AATTAAATTT
30378328 TTAAATT-CAAAAAATATAAAAA
1 TTAAATTCCAAAAAAT-TAAAAA
*
30378350 TTAAATTCCTAAAAATTAAAA
1 TTAAATTCCAAAAAATTAAAA
30378371 TAAGAAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (22 bp):
TTAAATTCCAAAAAATTAAAAA
Found at i:30378508 original size:18 final size:19
Alignment explanation
Indices: 30378476--30378512 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
30378466 AGAATCTAGC
30378476 ATGAATCTAACTTTTAAAA
1 ATGAATCTAACTTTTAAAA
*
30378495 ATGAA-CTAATTTTTAAAA
1 ATGAATCTAACTTTTAAAA
30378513 TAGCCACGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.49, C:0.08, G:0.05, T:0.38
Consensus pattern (19 bp):
ATGAATCTAACTTTTAAAA
Found at i:30379772 original size:15 final size:15
Alignment explanation
Indices: 30379752--30379790 Score: 78
Period size: 15 Copynumber: 2.6 Consensus size: 15
30379742 CCATCTGCAA
30379752 CTATTGATGTTGAAG
1 CTATTGATGTTGAAG
30379767 CTATTGATGTTGAAG
1 CTATTGATGTTGAAG
30379782 CTATTGATG
1 CTATTGATG
30379791 ATGATGTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.26, C:0.08, G:0.26, T:0.41
Consensus pattern (15 bp):
CTATTGATGTTGAAG
Found at i:30379999 original size:120 final size:120
Alignment explanation
Indices: 30379786--30380026 Score: 464
Period size: 120 Copynumber: 2.0 Consensus size: 120
30379776 TTGAAGCTAT
*
30379786 TGATGATGATGTAATTGAATCTTCTGCTATAGCATTCGCAGCGGTATGCAGTTCTTGTTCAATAG
1 TGATGATGATGTAATTGAATCTTCCGCTATAGCATTCGCAGCGGTATGCAGTTCTTGTTCAATAG
30379851 TATTTTGTTTTCACATTAACTGTACATTAAACTTGTCTTTATGGATTCATTTGCA
66 TATTTTGTTTTCACATTAACTGTACATTAAACTTGTCTTTATGGATTCATTTGCA
*
30379906 TGATGGTGATGTAATTGAATCTTCCGCTATAGCATTCGCAGCGGTATGCAGTTCTTGTTCAATAG
1 TGATGATGATGTAATTGAATCTTCCGCTATAGCATTCGCAGCGGTATGCAGTTCTTGTTCAATAG
30379971 TATTTTGTTTTCACATTAACTGTACATTAAACTTGTCTTTATGGATTCATTTGCA
66 TATTTTGTTTTCACATTAACTGTACATTAAACTTGTCTTTATGGATTCATTTGCA
30380026 T
1 T
30380027 TATGTAGACT
Statistics
Matches: 119, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
120 119 1.00
ACGTcount: A:0.24, C:0.15, G:0.18, T:0.42
Consensus pattern (120 bp):
TGATGATGATGTAATTGAATCTTCCGCTATAGCATTCGCAGCGGTATGCAGTTCTTGTTCAATAG
TATTTTGTTTTCACATTAACTGTACATTAAACTTGTCTTTATGGATTCATTTGCA
Found at i:30388991 original size:69 final size:69
Alignment explanation
Indices: 30388880--30389418 Score: 630
Period size: 69 Copynumber: 7.8 Consensus size: 69
30388870 ACAACATTTA
* * * * * *
30388880 TGTCATACTAAGGTTCACAGGATAAAAATTGCAGCCTTCAACACAGTTAGTGATAGCAAAGCTCC
1 TGTCATACTAAGGCTCGCAGGATAAAAATCGCAGCCTCCAACACAGTTAGCGAGAGCAAAGCTCC
*
30388945 CAGT
66 CAGC
* * * * *
30388949 TGTCATATTAAGGTTCACAGGATAAAAATCGCAGCCTGCAACACAGTTAGCAAGAGCAAAGCTCC
1 TGTCATACTAAGGCTCGCAGGATAAAAATCGCAGCCTCCAACACAGTTAGCGAGAGCAAAGCTCC
* *
30389014 TACC
66 CAGC
* * ** * *
30389018 TATCATACTAAGGCTCGCAGGATAAAAACCATAGCCTCCAACATAGTTAGCAAGAGCAAAGCTCC
1 TGTCATACTAAGGCTCGCAGGATAAAAATCGCAGCCTCCAACACAGTTAGCGAGAGCAAAGCTCC
30389083 CAGC
66 CAGC
* * * * * *
30389087 TATCACACTAAGGCTCGCAGGATAAAAACCGCAGCCTTCAACACAATTAGTGAGAGCAAAGCTCC
1 TGTCATACTAAGGCTCGCAGGATAAAAATCGCAGCCTCCAACACAGTTAGCGAGAGCAAAGCTCC
*
30389152 CAAC
66 CAGC
* * * * * * *
30389156 TGTCACACTAAAGCTCGCAGGATAAAAACCGCAGCCTCCAACATAATTTGTGAGAGCAAAGCTCC
1 TGTCATACTAAGGCTCGCAGGATAAAAATCGCAGCCTCCAACACAGTTAGCGAGAGCAAAGCTCC
* *
30389221 TAGT
66 CAGC
** *
30389225 TGTCATACTAAGGCTCGCAGGATAAAAATCATAGCCTCTAACACAGTTAGCGAGAGCAAAGCTCC
1 TGTCATACTAAGGCTCGCAGGATAAAAATCGCAGCCTCCAACACAGTTAGCGAGAGCAAAGCTCC
*
30389290 CAGT
66 CAGC
* * *
30389294 TGTCATAGTAAGGCTTGCAGGATAAAAAGT-GTAGCCTCCAACACAGTTAGCGAGAGCAAAGCTC
1 TGTCATACTAAGGCTCGCAGGATAAAAA-TCGCAGCCTCCAACACAGTTAGCGAGAGCAAAGCTC
*
30389358 CTAGC
65 CCAGC
* * * *
30389363 TGTCATACTAAGGCTCGCAGGATAAAGATCGCATCCTCCAACATAGTTAGTGAGAG
1 TGTCATACTAAGGCTCGCAGGATAAAAATCGCAGCCTCCAACACAGTTAGCGAGAG
30389419 TTAAAAACTT
Statistics
Matches: 407, Mismatches: 61, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
68 1 0.00
69 405 1.00
70 1 0.00
ACGTcount: A:0.35, C:0.25, G:0.20, T:0.20
Consensus pattern (69 bp):
TGTCATACTAAGGCTCGCAGGATAAAAATCGCAGCCTCCAACACAGTTAGCGAGAGCAAAGCTCC
CAGC
Found at i:30389241 original size:207 final size:207
Alignment explanation
Indices: 30388886--30389418 Score: 715
Period size: 207 Copynumber: 2.6 Consensus size: 207
30388876 TTTATGTCAT
* * * * *
30388886 ACTAAGGTTCACAGGATAAAAATTGCAGCCTTCAACACAGTTAGTGATAGCAAAGCTCCCAGTTG
1 ACTAAGGCTCGCAGGATAAAAACTGCAGCCTTCAACACAGTTAGTGAGAGCAAAGCTCCCAGCTG
* * * * * **
30388951 TCATATTAAGGTTCACAGGATAAAAATCGCAGCCTGCAACACAGTTAGCAAGAGCAAAGCTCCTA
66 TCATACTAAGGCTCGCAGGATAAAAATCGCAGCCTCCAACATAGTTAGTGAGAGCAAAGCTCCTA
*
30389016 CCTATCATACTAAGGCTCGCAGGATAAAAACCATAGCCTCCAACATAGTTAGCAAGAGCAAAGCT
131 CCTATCATACTAAGGCTCGCAGGATAAAAACCATAGCCTCCAACACAGTTAGCAAGAGCAAAGCT
30389081 CCCAGCTATCAC
196 CCCAGCTATCAC
* * *
30389093 ACTAAGGCTCGCAGGATAAAAACCGCAGCCTTCAACACAATTAGTGAGAGCAAAGCTCCCAACTG
1 ACTAAGGCTCGCAGGATAAAAACTGCAGCCTTCAACACAGTTAGTGAGAGCAAAGCTCCCAGCTG
* * * * *
30389158 TCACACTAAAGCTCGCAGGATAAAAACCGCAGCCTCCAACATAATTTGTGAGAGCAAAGCTCCTA
66 TCATACTAAGGCTCGCAGGATAAAAATCGCAGCCTCCAACATAGTTAGTGAGAGCAAAGCTCCTA
** * * * *
30389223 GTTGTCATACTAAGGCTCGCAGGATAAAAATCATAGCCTCTAACACAGTTAGCGAGAGCAAAGCT
131 CCTATCATACTAAGGCTCGCAGGATAAAAACCATAGCCTCCAACACAGTTAGCAAGAGCAAAGCT
* * *
30389288 CCCAGTTGTCAT
196 CCCAGCTATCAC
* * * * * * *
30389300 AGTAAGGCTTGCAGGATAAAAAGTGTAGCCTCCAACACAGTTAGCGAGAGCAAAGCTCCTAGCTG
1 ACTAAGGCTCGCAGGATAAAAACTGCAGCCTTCAACACAGTTAGTGAGAGCAAAGCTCCCAGCTG
* *
30389365 TCATACTAAGGCTCGCAGGATAAAGATCGCATCCTCCAACATAGTTAGTGAGAG
66 TCATACTAAGGCTCGCAGGATAAAAATCGCAGCCTCCAACATAGTTAGTGAGAG
30389419 TTAAAAACTT
Statistics
Matches: 279, Mismatches: 47, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
207 279 1.00
ACGTcount: A:0.35, C:0.25, G:0.20, T:0.20
Consensus pattern (207 bp):
ACTAAGGCTCGCAGGATAAAAACTGCAGCCTTCAACACAGTTAGTGAGAGCAAAGCTCCCAGCTG
TCATACTAAGGCTCGCAGGATAAAAATCGCAGCCTCCAACATAGTTAGTGAGAGCAAAGCTCCTA
CCTATCATACTAAGGCTCGCAGGATAAAAACCATAGCCTCCAACACAGTTAGCAAGAGCAAAGCT
CCCAGCTATCAC
Found at i:30392800 original size:22 final size:22
Alignment explanation
Indices: 30392775--30392835 Score: 79
Period size: 22 Copynumber: 2.8 Consensus size: 22
30392765 CCTAGAGTTC
* *
30392775 ACAGAGAATGTCAGTACTAGGG
1 ACAGAGAATGTCAATACTAGAG
*
30392797 ACAGAGAATGTCAATATTAGAG
1 ACAGAGAATGTCAATACTAGAG
30392819 -CTAGAGAATGTCAATAC
1 AC-AGAGAATGTCAATAC
30392836 GAAAGGCAGT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
21 1 0.03
22 33 0.97
ACGTcount: A:0.41, C:0.13, G:0.25, T:0.21
Consensus pattern (22 bp):
ACAGAGAATGTCAATACTAGAG
Found at i:30414375 original size:29 final size:29
Alignment explanation
Indices: 30414342--30414432 Score: 71
Period size: 29 Copynumber: 3.2 Consensus size: 29
30414332 TGAACTTGCT
30414342 AAAGGACAACCTTTGTGGAAAAACTCTAG
1 AAAGGACAACCTTTGTGGAAAAACTCTAG
* ** *
30414371 AAAGGTA-AGCCTTTGTGGTGAATCTGCT--
1 AAAGG-ACAACCTTTGTGGAAAAACT-CTAG
** * *
30414399 AAAGGACAATATTTGTAGCAAAACTCTAG
1 AAAGGACAACCTTTGTGGAAAAACTCTAG
30414428 AAAGG
1 AAAGG
30414433 TAAGACTTTA
Statistics
Matches: 46, Mismatches: 11, Indels: 10
0.69 0.16 0.15
Matches are distributed among these distances:
27 3 0.07
28 16 0.35
29 24 0.52
30 3 0.07
ACGTcount: A:0.38, C:0.14, G:0.23, T:0.24
Consensus pattern (29 bp):
AAAGGACAACCTTTGTGGAAAAACTCTAG
Found at i:30414399 original size:57 final size:57
Alignment explanation
Indices: 30414320--30414441 Score: 183
Period size: 57 Copynumber: 2.1 Consensus size: 57
30414310 TAGAAAAGAA
* *
30414320 AAGCCTTTGTGGTGAACTTGCTAAAGGACAACCTTTGTGGAAAAACTCTAGAAAGGT
1 AAGCCTTTGTGGTGAACTTGCTAAAGGACAACATTTGTAGAAAAACTCTAGAAAGGT
* *
30414377 AAGCCTTTGTGGTGAA-TCTGCTAAAGGACAATATTTGTAGCAAAACTCTAGAAAGGT
1 AAGCCTTTGTGGTGAACT-TGCTAAAGGACAACATTTGTAGAAAAACTCTAGAAAGGT
*
30414434 AAGACTTT
1 AAGCCTTT
30414442 ATGGCAAACC
Statistics
Matches: 59, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
56 1 0.02
57 58 0.98
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.28
Consensus pattern (57 bp):
AAGCCTTTGTGGTGAACTTGCTAAAGGACAACATTTGTAGAAAAACTCTAGAAAGGT
Found at i:30415078 original size:63 final size:63
Alignment explanation
Indices: 30414999--30415124 Score: 243
Period size: 63 Copynumber: 2.0 Consensus size: 63
30414989 GAATTGATAG
*
30414999 TACCTTGAAGTAAGGAAGATCTAAGTGAACTTTGTGTGAAGTAATAGGTGTAGTCTATCTCAC
1 TACCTTGAAGTAAGGAAGATCTAAGTGAACTTTGTGTGAAGTAATAGGTGTAGTCTACCTCAC
30415062 TACCTTGAAGTAAGGAAGATCTAAGTGAACTTTGTGTGAAGTAATAGGTGTAGTCTACCTCAC
1 TACCTTGAAGTAAGGAAGATCTAAGTGAACTTTGTGTGAAGTAATAGGTGTAGTCTACCTCAC
30415125 CCAAAGGTAG
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
63 62 1.00
ACGTcount: A:0.32, C:0.13, G:0.24, T:0.31
Consensus pattern (63 bp):
TACCTTGAAGTAAGGAAGATCTAAGTGAACTTTGTGTGAAGTAATAGGTGTAGTCTACCTCAC
Found at i:30422621 original size:50 final size:51
Alignment explanation
Indices: 30422546--30422687 Score: 164
Period size: 50 Copynumber: 2.8 Consensus size: 51
30422536 TTTTCTGTAC
* * **
30422546 TGCCAA-TGCCATATCCCAGATATGGTCTTACATGAGAGTTCTCATATCGG
1 TGCCAACTGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATATCGG
* * ** * *
30422596 TGCC-CCTGCCATGTCCCATACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAACTGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATATCGG
*
30422646 TGCCAAC-GCCATGTCCCAGACATGGTCTTACATGGGACCTCT
1 TGCCAACTGCCATGTCCCAGACATGGTCTTACATGAGACCTCT
30422688 TTACCCAAAT
Statistics
Matches: 76, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
50 75 0.99
51 1 0.01
ACGTcount: A:0.20, C:0.31, G:0.22, T:0.27
Consensus pattern (51 bp):
TGCCAACTGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATATCGG
Found at i:30423251 original size:155 final size:155
Alignment explanation
Indices: 30422969--30423279 Score: 534
Period size: 155 Copynumber: 2.0 Consensus size: 155
30422959 TTTTTGATCT
*
30422969 ATAATAGCAAATTTAGCTTACTTAATACTCACATTCATAAAAACAGTCCTTGACCCAATTTTGGC
1 ATAATAGCAAATTTAGCTTACTTAATACTCACATTCATAAAAACAGTCATTGACCCAATTTTGGC
* *
30423034 AAAATTACAGTTTTGCCCCTAAACTTTTGCATATTTACACATTTACCCGAAAGCTCAGAAATTAA
66 AAAATTACAGTTTTACCCCTAAACTTTTGCATATTTACACATTTACCCGAAAGCTCAAAAATTAA
*
30423099 ACTTTATCTCTTATTATGTTTTATA
131 ACTTCATCTCTTATTATGTTTTATA
* *
30423124 ATAATAGCAAATTTAGCTTACTTAATACTCATATTCATAAAAACAGTCATTGACTCAATTTTGGC
1 ATAATAGCAAATTTAGCTTACTTAATACTCACATTCATAAAAACAGTCATTGACCCAATTTTGGC
* *
30423189 AAAATTATAGTTTTACCCCTAAACTTTTGCATATTTACACCTTTACCTC-AAAGCTCAAAAATTA
66 AAAATTACAGTTTTACCCCTAAACTTTTGCATATTTACACATTTACC-CGAAAGCTCAAAAATTA
30423253 AACTTCATCTCTTATTATGTTTTATA
130 AACTTCATCTCTTATTATGTTTTATA
30423279 A
1 A
30423280 CATGCTGAAC
Statistics
Matches: 147, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
155 146 0.99
156 1 0.01
ACGTcount: A:0.36, C:0.19, G:0.07, T:0.38
Consensus pattern (155 bp):
ATAATAGCAAATTTAGCTTACTTAATACTCACATTCATAAAAACAGTCATTGACCCAATTTTGGC
AAAATTACAGTTTTACCCCTAAACTTTTGCATATTTACACATTTACCCGAAAGCTCAAAAATTAA
ACTTCATCTCTTATTATGTTTTATA
Found at i:30430332 original size:100 final size:100
Alignment explanation
Indices: 30430215--30430448 Score: 292
Period size: 100 Copynumber: 2.3 Consensus size: 100
30430205 TTTTCTATAC
* * * * * *
30430215 TGCCAATGCCATATCCCAGATATGGTCTTACATGAGAGTTCTCATAT-T-GGTGCCCATGCTATA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGA-A-ATCTCATATGTCGGTGCCAACGCCATA
*
30430278 TCCAAGACATGGTCTTACGGGGGACCTCTCATCTCGG
64 TCCAAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
30430315 TGCCAACGCCATGTCCCAGACATGGTCTTACATGAAATCTCTTATGTCGGTGCCAACGCCATGTC
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGAAATCTCATATGTCGGTGCCAACGCCATATC
* * *
30430380 CCAGACATGGTCTTACATGGGACCTCTTATCTCGG
66 CAAGACATGGTCTTACAGGGGACCTCTCATCTCGG
** *
30430415 TGCCAATTTCATGTCCCAGACATTGTCTTACATG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATG
30430449 GGACCTCTTT
Statistics
Matches: 115, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
98 7 0.06
99 2 0.02
100 106 0.92
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.29
Consensus pattern (100 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGAAATCTCATATGTCGGTGCCAACGCCATATC
CAAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:30430449 original size:50 final size:50
Alignment explanation
Indices: 30430176--30430457 Score: 262
Period size: 50 Copynumber: 5.7 Consensus size: 50
30430166 CCATGTCTGG
* * * *** *
30430176 ATGTCTCAGACATGGTCTTACATGGGA--TGTTTTCTATACTGCCAATGCC
1 ATGTCCCAGACATGGTCTTACATGGGACCTCTTATCT-CGGTGCCAACGCC
* * * ** * * * * * *
30430225 ATATCCCAGATATGGTCTTACATGAGAGTTCTCATATTGGTGCCCATGCT
1 ATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCGGTGCCAACGCC
* * ** *
30430275 ATATCCAAGACATGGTCTTACGGGGGACCTCTCATCTCGGTGCCAACGCC
1 ATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCGGTGCCAACGCC
** * *
30430325 ATGTCCCAGACATGGTCTTACATGAAATCTCTTATGTCGGTGCCAACGCC
1 ATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCGGTGCCAACGCC
***
30430375 ATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCGGTGCCAATTTC
1 ATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCGGTGCCAACGCC
*
30430425 ATGTCCCAGACATTGTCTTACATGGGACCTCTT
1 ATGTCCCAGACATGGTCTTACATGGGACCTCTT
30430458 TACCCAAATG
Statistics
Matches: 190, Mismatches: 41, Indels: 3
0.81 0.18 0.01
Matches are distributed among these distances:
49 23 0.12
50 163 0.86
51 4 0.02
ACGTcount: A:0.22, C:0.27, G:0.21, T:0.30
Consensus pattern (50 bp):
ATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCGGTGCCAACGCC
Found at i:30433557 original size:202 final size:202
Alignment explanation
Indices: 30433203--30433593 Score: 584
Period size: 202 Copynumber: 1.9 Consensus size: 202
30433193 TCTTTAATTG
* **
30433203 AGTCATAAGAACTAATATTTATAGTAATATTTTTAAATGAAAAAATTAGCTCAATTATAGGCAGC
1 AGTCATAAGAACTAATACTTATAGTAATATTTTTAAATGAAAAAATTAGCTCAATTATACACAGC
* * * * *
30433268 TAAACATGTTAATTAAGGCAGTGTGGATGAAAAACATCCTTAGCTTATAATTGGGCCATGTCGGA
66 TAAACATGTTAACTAAGGCAGTGTGGATGAAAAACACCCTCAGCTGATAATTGGGCCATGTCAGA
* ** *
30433333 TGAGTTTTGCGACACTCTATAGTTTTGTGTCACGACATTGAACATCAAATACTCTCATTATTGGT
131 CGAGTTTCACGACACCCTATAGTTTTGTGTCACGACATTGAACATCAAATACTCTCATTATTGGT
30433398 TCAGTTC
196 TCAGTTC
* * * *
30433405 AGTCCTAAGAACTAATACTTATAGTAGTATTTTTAAATGACAAAATTAGCTCAATTATACACTGC
1 AGTCATAAGAACTAATACTTATAGTAATATTTTTAAATGAAAAAATTAGCTCAATTATACACAGC
** * * *
30433470 TAAACATGTTAACTAAGGTTGTGTGGATGAAAAGCACCCTCAGCTGATAATTGGGCCTTGTTAGA
66 TAAACATGTTAACTAAGGCAGTGTGGATGAAAAACACCCTCAGCTGATAATTGGGCCATGTCAGA
*
30433535 CGAGTTTCACGACACCCTATAGTTTTGTGTCGCGACATTGAACATCAAATACTCTCATT
131 CGAGTTTCACGACACCCTATAGTTTTGTGTCACGACATTGAACATCAAATACTCTCATT
30433594 TTTTTGTTCA
Statistics
Matches: 167, Mismatches: 22, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
202 167 1.00
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Consensus pattern (202 bp):
AGTCATAAGAACTAATACTTATAGTAATATTTTTAAATGAAAAAATTAGCTCAATTATACACAGC
TAAACATGTTAACTAAGGCAGTGTGGATGAAAAACACCCTCAGCTGATAATTGGGCCATGTCAGA
CGAGTTTCACGACACCCTATAGTTTTGTGTCACGACATTGAACATCAAATACTCTCATTATTGGT
TCAGTTC
Found at i:30442213 original size:20 final size:20
Alignment explanation
Indices: 30442176--30442213 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
30442166 TTTAAAATAA
*
30442176 TATAAAAATTTTGAAAAAGC
1 TATAAAAATTTTAAAAAAGC
*
30442196 TATAATAATTTTAAAAAA
1 TATAAAAATTTTAAAAAA
30442214 AGTATTTAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.58, C:0.03, G:0.05, T:0.34
Consensus pattern (20 bp):
TATAAAAATTTTAAAAAAGC
Found at i:30458064 original size:2 final size:2
Alignment explanation
Indices: 30458057--30458103 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
30458047 CAAGTCTTGG
30458057 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
30458099 GA GA G
1 GA GA G
30458104 GAGGGGTTTG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:30458539 original size:16 final size:15
Alignment explanation
Indices: 30458518--30458547 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
30458508 TAATCAATTT
30458518 TTTTTGATTTAATTGA
1 TTTTTGA-TTAATTGA
30458534 TTTTTGATTAATTG
1 TTTTTGATTAATTG
30458548 GTTACCTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.23, C:0.00, G:0.13, T:0.63
Consensus pattern (15 bp):
TTTTTGATTAATTGA
Found at i:30459873 original size:40 final size:39
Alignment explanation
Indices: 30459820--30459948 Score: 138
Period size: 40 Copynumber: 3.3 Consensus size: 39
30459810 CGTTTGAACA
*
30459820 AAAAACGCCGCTATAGATCTAGAATTAGCGGCGCTTTTTG
1 AAAAACGCCGCTATAGATC-AGCATTAGCGGCGCTTTTTG
* * * * *
30459860 AAAATCGCCGCTATAGATCAAGCATTAGCGGTGGTTTCTA
1 AAAAACGCCGCTATAGATC-AGCATTAGCGGCGCTTTTTG
*
30459900 AAAAATGCCGCTAT--ATGC-GCCATTAGCGGCGCTTTTTG
1 AAAAACGCCGCTATAGAT-CAG-CATTAGCGGCGCTTTTTG
30459938 AAAAACGCCGC
1 AAAAACGCCGC
30459949 AAAAAAGAAG
Statistics
Matches: 73, Mismatches: 14, Indels: 6
0.78 0.15 0.06
Matches are distributed among these distances:
37 1 0.01
38 26 0.36
39 1 0.01
40 45 0.62
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.26
Consensus pattern (39 bp):
AAAAACGCCGCTATAGATCAGCATTAGCGGCGCTTTTTG
Found at i:30460027 original size:40 final size:40
Alignment explanation
Indices: 30459982--30460213 Score: 195
Period size: 40 Copynumber: 5.7 Consensus size: 40
30459972 AGCTTTAGTG
* *
30459982 GCATTAGCGGCGCCTTTTGAAAAATGCCGCTATAGATCGA
1 GCATTAGCGGCGCTTTTTGAAAAACGCCGCTATAGATCGA
*** * * *
30460022 GCATTAGTATCACTTTCTGAAAAACGCCGCTATAGGTCG-
1 GCATTAGCGGCGCTTTTTGAAAAACGCCGCTATAGATCGA
* * *
30460061 CCATTAGCGGTGCTTTTTGAAAAACGCCATCGTTGAACTTTAG-T-G-
1 GCATTAGCGGCGCTTTTTGAAAAACG-C--C---G--CTATAGATCGA
* * *
30460106 GCATTAGCGGCGCTTTTTGAAAAACACCACTATAGATCAA
1 GCATTAGCGGCGCTTTTTGAAAAACGCCGCTATAGATCGA
* *
30460146 GCATTAGTGGCACTTTTTGAAAAACGCCGCTATAAGA-CGA
1 GCATTAGCGGCGCTTTTTGAAAAACGCCGCTAT-AGATCGA
*
30460186 CCATTAGCGGCGCTTTTTGAAAAACGCC
1 GCATTAGCGGCGCTTTTTGAAAAACGCC
30460214 ACAAAAAAAT
Statistics
Matches: 150, Mismatches: 30, Indels: 24
0.74 0.15 0.12
Matches are distributed among these distances:
37 5 0.03
38 1 0.01
39 19 0.13
40 88 0.59
41 3 0.02
42 2 0.01
44 1 0.01
45 25 0.17
46 1 0.01
47 5 0.03
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (40 bp):
GCATTAGCGGCGCTTTTTGAAAAACGCCGCTATAGATCGA
Found at i:30460627 original size:29 final size:29
Alignment explanation
Indices: 30460595--30460653 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
30460585 TTTAAGGGCT
* *
30460595 GGGGTTAGGGGTTAAAGG-TTAGGAGTTTA
1 GGGGATAGGGGATAAAGGTTTAGG-GTTTA
*
30460624 GGGGATAGGGGATAAGGGTTTAGGGTTTA
1 GGGGATAGGGGATAAAGGTTTAGGGTTTA
30460653 G
1 G
30460654 ATTAATTAGT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 21 0.81
30 5 0.19
ACGTcount: A:0.24, C:0.00, G:0.47, T:0.29
Consensus pattern (29 bp):
GGGGATAGGGGATAAAGGTTTAGGGTTTA
Found at i:30461385 original size:20 final size:20
Alignment explanation
Indices: 30461360--30461398 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
30461350 GTCACAGTTG
30461360 TCCTTCAATTCTCTATATTT
1 TCCTTCAATTCTCTATATTT
*
30461380 TCCTTCAATTCTCTTTATT
1 TCCTTCAATTCTCTATATT
30461399 CCAACTGATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.18, C:0.26, G:0.00, T:0.56
Consensus pattern (20 bp):
TCCTTCAATTCTCTATATTT
Found at i:30463894 original size:9 final size:9
Alignment explanation
Indices: 30463882--30464150 Score: 134
Period size: 9 Copynumber: 28.6 Consensus size: 9
30463872 AAATATATAT
30463882 CATAACTTA
1 CATAACTTA
30463891 CATAACTTA
1 CATAACTTA
*
30463900 CATAACTTG
1 CATAACTTA
* *
30463909 CATAATTTG
1 CATAACTTA
30463918 CATAACTTA
1 CATAACTTA
*
30463927 CATAA-ATA
1 CATAACTTA
* * *
30463935 TATATCATA
1 CATAACTTA
*
30463944 TCAAAACTTA
1 -CATAACTTA
30463954 CATAACTTA
1 CATAACTTA
*
30463963 CATAATTTA
1 CATAACTTA
30463972 CATAACTTA
1 CATAACTTA
* *
30463981 -AAAGAATTAAA
1 CATA-ACTT--A
* *
30463992 AAAAACTTTGGA
1 CATAAC-TT--A
*
30464004 TCTTAACTTA
1 -CATAACTTA
30464014 -ATAACTTA
1 CATAACTTA
* *
30464022 TATATATCATA
1 CATA-A-CTTA
*
30464033 TCATAACATA
1 -CATAACTTA
*
30464043 CATAACTCA
1 CATAACTTA
30464052 CATAACTTA
1 CATAACTTA
30464061 -ATAACTTA
1 CATAACTTA
* *
30464069 TATATATTATA
1 CATA-ACT-TA
*
30464080 TCATAATTTA
1 -CATAACTTA
*
30464090 CATAACTCA
1 CATAACTTA
30464099 CATAACTTA
1 CATAACTTA
30464108 CATAACTTA
1 CATAACTTA
30464117 -ATAACTTA
1 CATAACTTA
* *
30464125 TATATATCATA
1 CATA-A-CTTA
30464136 TCATAACTTA
1 -CATAACTTA
30464146 CATAA
1 CATAA
30464151 ATAAATTATA
Statistics
Matches: 204, Mismatches: 36, Indels: 40
0.73 0.13 0.14
Matches are distributed among these distances:
8 30 0.15
9 120 0.59
10 19 0.09
11 15 0.07
12 17 0.08
13 3 0.01
ACGTcount: A:0.46, C:0.16, G:0.02, T:0.36
Consensus pattern (9 bp):
CATAACTTA
Found at i:30464060 original size:47 final size:47
Alignment explanation
Indices: 30464007--30464150 Score: 195
Period size: 47 Copynumber: 3.1 Consensus size: 47
30463997 CTTTGGATCT
*
30464007 TAACTTAATAACTTATATATATCATATCATAACATACATAACTCACA
1 TAACTTAATAACTTATATATATTATATCATAACATACATAACTCACA
**
30464054 TAACTTAATAACTTATATATATTATATCATAATTTACATAACTCACA
1 TAACTTAATAACTTATATATATTATATCATAACATACATAACTCACA
* *
30464101 TAACTTACATAACTTA-ATA-ACTTATAT-ATATCATATCATAACTTACA
1 TAACTTA-ATAACTTATATATA-TTATATCATAACATA-CATAACTCACA
30464148 TAA
1 TAA
30464151 ATAAATTATA
Statistics
Matches: 87, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
46 6 0.07
47 73 0.84
48 8 0.09
ACGTcount: A:0.46, C:0.17, G:0.00, T:0.38
Consensus pattern (47 bp):
TAACTTAATAACTTATATATATTATATCATAACATACATAACTCACA
Found at i:30464102 original size:56 final size:56
Alignment explanation
Indices: 30464034--30464150 Score: 191
Period size: 56 Copynumber: 2.1 Consensus size: 56
30464024 TATATCATAT
* *
30464034 CATAACATACATAACTCACATAACTTAATAACTTATATATATTATATCATAATTTA
1 CATAACATACATAACTCACATAACTTAATAACTTATATATATCATATCATAACTTA
*
30464090 CATAAC-TCACATAACTTACATAACTTAATAACTTATATATATCATATCATAACTTA
1 CATAACAT-ACATAACTCACATAACTTAATAACTTATATATATCATATCATAACTTA
30464146 CATAA
1 CATAA
30464151 ATAAATTATA
Statistics
Matches: 57, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
55 1 0.02
56 56 0.98
ACGTcount: A:0.46, C:0.18, G:0.00, T:0.36
Consensus pattern (56 bp):
CATAACATACATAACTCACATAACTTAATAACTTATATATATCATATCATAACTTA
Found at i:30469865 original size:43 final size:43
Alignment explanation
Indices: 30469818--30470085 Score: 213
Period size: 43 Copynumber: 6.1 Consensus size: 43
30469808 GAACGGTACT
* *
30469818 TTTAGCGGCGTTTGTGAAAAAAGCATCGCTAAAGGTCATATTC
1 TTTAGCGGCGTTTGTGAAAAAAGCACCGCTAAAGGTCATGTTC
* * *
30469861 TTTAGCGACGTTTGTGAAAAAGGCGCCGCTAAAGGTCATGTTC
1 TTTAGCGGCGTTTGTGAAAAAAGCACCGCTAAAGGTCATGTTC
* * * *
30469904 TTTAGCGGTAGTGGTTTTTGTGATAAAAGCGCCGCTAAATGTCATGTTC
1 TTTAGC-G--G-CG--TTTGTGAAAAAAGCACCGCTAAAGGTCATGTTC
* * *
30469953 TGTAGCAGCGTTTGTGACAAAAA-CATCGC-AATAGGTCATGTTC
1 TTTAGCGGCGTTTGTGA-AAAAAGCACCGCTAA-AGGTCATGTTC
**** * *
30469996 TTTAGCGGCGCTTT-TCTTTAAAG--CCGCTAAAGGTCATGATA
1 TTTAGCGGCG-TTTGTGAAAAAAGCACCGCTAAAGGTCATGTTC
* * * *
30470037 TTTAGCGGCGTTTGTGATAAAAGCACCGTTAAAGATTATGTTC
1 TTTAGCGGCGTTTGTGAAAAAAGCACCGCTAAAGGTCATGTTC
*
30470080 TCTAGC
1 TTTAGC
30470086 ACCGTTTATG
Statistics
Matches: 176, Mismatches: 35, Indels: 28
0.74 0.15 0.12
Matches are distributed among these distances:
40 3 0.02
41 28 0.16
42 7 0.04
43 92 0.52
44 8 0.05
45 1 0.01
46 1 0.01
47 1 0.01
49 35 0.20
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.32
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGAAAAAAGCACCGCTAAAGGTCATGTTC
Found at i:30469942 original size:92 final size:92
Alignment explanation
Indices: 30469828--30470003 Score: 223
Period size: 92 Copynumber: 1.9 Consensus size: 92
30469818 TTTAGCGGCG
* * * *
30469828 TTTGTGAAAAAAGCATCGCTAAAGGTCATATTCTTTAGC-GACGTTTGTGA-AAAAGGCGCCGCT
1 TTTGTGAAAAAAGCACCGCTAAAGGTCATATTCTGTAGCAG-CGTTTGTGACAAAA-ACACCGC-
30469891 AA-AGGTCATGTTCTTTAGCGGTAGTGGTT
63 AATAGGTCATGTTCTTTAGCGGTAGTGGTT
* * * * *
30469920 TTTGTGATAAAAGCGCCGCTAAATGTCATGTTCTGTAGCAGCGTTTGTGACAAAAACATCGCAAT
1 TTTGTGAAAAAAGCACCGCTAAAGGTCATATTCTGTAGCAGCGTTTGTGACAAAAACACCGCAAT
30469985 AGGTCATGTTCTTTAGCGG
66 AGGTCATGTTCTTTAGCGG
30470004 CGCTTTTCTT
Statistics
Matches: 72, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
91 2 0.03
92 65 0.90
93 5 0.07
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.31
Consensus pattern (92 bp):
TTTGTGAAAAAAGCACCGCTAAAGGTCATATTCTGTAGCAGCGTTTGTGACAAAAACACCGCAAT
AGGTCATGTTCTTTAGCGGTAGTGGTT
Found at i:30471647 original size:92 final size:92
Alignment explanation
Indices: 30471482--30471725 Score: 287
Period size: 92 Copynumber: 2.6 Consensus size: 92
30471472 GCTACATGTT
* * * *
30471482 GTGTAGGTTCAACCCTGACGGGTAACCAGGCACTATTATCTGATTCATGTTGGTTCAA-CTATAA
1 GTGTAGGTTCAACCCTAACGGGT-ACTAGGCACTATTATTTGATTCATGTAGGTTCAACCTATAA
*
30471546 CGAGTGACCA-AGCACTATTATCCGATTC
65 CGAGAGACCAGA-CACTATTATCCGATTC
*
30471574 GTGTGGGTTCAACCCTAACGGGTGACTAGGCACTATTATTTGATTCATGTAGGTTCAACCT-TAA
1 GTGTAGGTTCAACCCTAACGGGT-ACTAGGCACTATTATTTGATTCATGTAGGTTCAACCTATAA
* * *
30471638 CGGGAGACCAGACACTATTATCTGATTT
65 CGAGAGACCAGACACTATTATCCGATTC
* * * * * * *
30471666 GTGTAGGTTTAACCCAAACGGGTAATCAGGAACTATTATTCGATTCGTGTAGGTTTAACC
1 GTGTAGGTTCAACCCTAACGGGTACT-AGGCACTATTATTTGATTCATGTAGGTTCAACC
30471726 CAAATAAGTA
Statistics
Matches: 131, Mismatches: 18, Indels: 6
0.85 0.12 0.04
Matches are distributed among these distances:
91 2 0.02
92 126 0.96
93 3 0.02
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (92 bp):
GTGTAGGTTCAACCCTAACGGGTACTAGGCACTATTATTTGATTCATGTAGGTTCAACCTATAAC
GAGAGACCAGACACTATTATCCGATTC
Found at i:30471686 original size:46 final size:46
Alignment explanation
Indices: 30471482--30471729 Score: 202
Period size: 46 Copynumber: 5.4 Consensus size: 46
30471472 GCTACATGTT
** *
30471482 GTGTAGGTTCAACCCTGACGGGTA-ACCAGGCACTATTATCTGATTC
1 GTGTAGGTTCAACCCAAACGGG-AGACCAGACACTATTATCTGATTC
* * * * * *
30471528 ATGTTGGTTCAA-CTATAACGAGTGACCA-AGCACTATTATCCGATTC
1 GTGTAGGTTCAACCCA-AACGGGAGACCAGA-CACTATTATCTGATTC
* * * * * *
30471574 GTGTGGGTTCAACCCTAACGGGTGACTAGGCACTATTATTTGATTC
1 GTGTAGGTTCAACCCAAACGGGAGACCAGACACTATTATCTGATTC
* ** *
30471620 ATGTAGGTTCAACCTTAACGGGAGACCAGACACTATTATCTGATTT
1 GTGTAGGTTCAACCCAAACGGGAGACCAGACACTATTATCTGATTC
* *
30471666 GTGTAGGTTTAACCCAAACGGGTA-ATCAGGA-ACTATTAT-TCGATTC
1 GTGTAGGTTCAACCCAAACGGG-AGACCA-GACACTATTATCT-GATTC
*
30471712 GTGTAGGTTTAACCCAAA
1 GTGTAGGTTCAACCCAAA
30471730 TAAGTAACTA
Statistics
Matches: 162, Mismatches: 32, Indels: 16
0.77 0.15 0.08
Matches are distributed among these distances:
45 2 0.01
46 156 0.96
47 4 0.02
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.30
Consensus pattern (46 bp):
GTGTAGGTTCAACCCAAACGGGAGACCAGACACTATTATCTGATTC
Found at i:30471740 original size:138 final size:138
Alignment explanation
Indices: 30471483--30471749 Score: 304
Period size: 138 Copynumber: 1.9 Consensus size: 138
30471473 CTACATGTTG
* * * *
30471483 TGTAGGTTCAACCCTGACGGGTAACCAGGCACTATTATCTGATTCATGTTGGTTCAACTATAACG
1 TGTAGGTTCAACCCTAACGGGTAACCAGACACTATTATCTGATTCATGTAGGTTCAACCATAACG
* * * * ** * *
30471548 AGTGACCAAGCACTATTATCCGATTCGTGTGGGTTCAACCCTAACGGGTGACTAGGCACTATTAT
66 AGTAACCAAGAACTATTATCCGATTCGTGTAGGTTCAACCCAAACAAGTAACTAGACACTATTAT
30471613 TTGATTCA
131 TTGATTCA
* ** *
30471621 TGTAGGTTCAACCTTAACGGG-AGACCAGACACTATTATCTGATTTGTGTAGGTTTAACCCA-AA
1 TGTAGGTTCAACCCTAACGGGTA-ACCAGACACTATTATCTGATTCATGTAGGTTCAA-CCATAA
* * * * * *
30471684 CGGGTAATCAGGAACTATTATTCGATTCGTGTAGGTTTAACCCAAATAAGTAACTAGACACTATT
64 CGAGTAACCAAGAACTATTATCCGATTCGTGTAGGTTCAACCCAAACAAGTAACTAGACACTATT
30471749 A
129 A
30471750 CTTTCATCTT
Statistics
Matches: 105, Mismatches: 22, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
137 1 0.01
138 102 0.97
139 2 0.02
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.30
Consensus pattern (138 bp):
TGTAGGTTCAACCCTAACGGGTAACCAGACACTATTATCTGATTCATGTAGGTTCAACCATAACG
AGTAACCAAGAACTATTATCCGATTCGTGTAGGTTCAACCCAAACAAGTAACTAGACACTATTAT
TTGATTCA
Found at i:30489792 original size:24 final size:24
Alignment explanation
Indices: 30489760--30489805 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
30489750 GGATGAGATA
*
30489760 TCGACCTTTGCATTGCTATCCTTT
1 TCGACCTTTGCATTGATATCCTTT
*
30489784 TCGACCTTTTCATTGATATCCT
1 TCGACCTTTGCATTGATATCCT
30489806 ATTTGGATAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.15, C:0.28, G:0.11, T:0.46
Consensus pattern (24 bp):
TCGACCTTTGCATTGATATCCTTT
Found at i:30489822 original size:40 final size:39
Alignment explanation
Indices: 30489777--30489881 Score: 149
Period size: 41 Copynumber: 2.6 Consensus size: 39
30489767 TTGCATTGCT
* *
30489777 ATCCTTTTCGACCTTTTCATTGATATCCTATTT-GGATAGC
1 ATCCTTTTCAACCTTTTCATTGATATCCT-TTTAGG-TAAC
30489817 ATCCTTTTCAACCTTTTCATTTGATATCCTTTTCAGGTAAC
1 ATCCTTTTCAACCTTTTCA-TTGATATCCTTTT-AGGTAAC
30489858 ATCCTTTTCAACCTTTTCATTGAT
1 ATCCTTTTCAACCTTTTCATTGAT
30489882 TTGGAAATAC
Statistics
Matches: 60, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
40 26 0.43
41 32 0.53
42 2 0.03
ACGTcount: A:0.21, C:0.24, G:0.09, T:0.47
Consensus pattern (39 bp):
ATCCTTTTCAACCTTTTCATTGATATCCTTTTAGGTAAC
Found at i:30498613 original size:13 final size:13
Alignment explanation
Indices: 30498595--30498620 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
30498585 CTAGTTTACG
30498595 AACTATTTTGATT
1 AACTATTTTGATT
30498608 AACTATTTTGATT
1 AACTATTTTGATT
30498621 TAAAATCTAG
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:0.31, C:0.08, G:0.08, T:0.54
Consensus pattern (13 bp):
AACTATTTTGATT
Found at i:30507601 original size:2 final size:2
Alignment explanation
Indices: 30507594--30507618 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
30507584 ACTTTGATTT
30507594 TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG T
30507619 TCTTATGTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:30513070 original size:21 final size:21
Alignment explanation
Indices: 30513045--30513096 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
30513035 AAATGGCAGC
* *
30513045 GAAACAACATCAAAATAGTAG
1 GAAACAACAGCAAAATAGTAA
*
30513066 GAAACAATAGCAAAATAGTAA
1 GAAACAACAGCAAAATAGTAA
*
30513087 TAAACAACAG
1 GAAACAACAG
30513097 TGAAAAAATT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.60, C:0.13, G:0.13, T:0.13
Consensus pattern (21 bp):
GAAACAACAGCAAAATAGTAA
Found at i:30525551 original size:12 final size:11
Alignment explanation
Indices: 30525534--30525599 Score: 55
Period size: 10 Copynumber: 5.8 Consensus size: 11
30525524 GAATTTTGAA
30525534 TTTTAAATACTT
1 TTTTAAATA-TT
30525546 TTTTAAAATAATT
1 TTTT-AAAT-ATT
30525559 TTTTAAATA-T
1 TTTTAAATATT
*
30525569 TTTTATAATAAT
1 TTTTA-AATATT
**
30525581 TTTTATGTA-T
1 TTTTAAATATT
30525591 TTTTAAATA
1 TTTTAAATA
30525600 GTAAGGATTA
Statistics
Matches: 46, Mismatches: 4, Indels: 10
0.77 0.07 0.17
Matches are distributed among these distances:
10 14 0.30
11 7 0.15
12 14 0.30
13 10 0.22
14 1 0.02
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.59
Consensus pattern (11 bp):
TTTTAAATATT
Found at i:30525558 original size:23 final size:21
Alignment explanation
Indices: 30525532--30525597 Score: 60
Period size: 22 Copynumber: 2.9 Consensus size: 21
30525522 TTGAATTTTG
30525532 AATTTTAAATACTTTTTTAAAAT
1 AATTTTAAATA--TTTTTAAAAT
*
30525555 AATTTTTTAAATATTTTTATAAT
1 AA--TTTTAAATATTTTTAAAAT
**
30525578 AATTTTTATGTATTTTTAAA
1 AA-TTTTAAATATTTTTAAA
30525598 TAGTAAGGAT
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
22 15 0.41
23 13 0.35
25 9 0.24
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.58
Consensus pattern (21 bp):
AATTTTAAATATTTTTAAAAT
Found at i:30525560 original size:13 final size:12
Alignment explanation
Indices: 30525534--30525584 Score: 61
Period size: 13 Copynumber: 4.2 Consensus size: 12
30525524 GAATTTTGAA
*
30525534 TTTTAAATACTT
1 TTTTAAATAATT
30525546 TTTTAAAATAATT
1 TTTT-AAATAATT
30525559 TTTTAAAT-A-T
1 TTTTAAATAATT
30525569 TTTTATAATAATT
1 TTTTA-AATAATT
30525582 TTT
1 TTT
30525585 ATGTATTTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
10 6 0.18
11 4 0.12
12 9 0.26
13 15 0.44
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (12 bp):
TTTTAAATAATT
Found at i:30533265 original size:61 final size:58
Alignment explanation
Indices: 30533180--30533316 Score: 195
Period size: 61 Copynumber: 2.3 Consensus size: 58
30533170 TTGTTATTTA
* *
30533180 ATTTTAATA-AGATTATTATTAAATATAATTTAATAAAAATAAAAATAAATAATTTAATCAT
1 ATTTTAATATA-ATTATTATTAAATATAATTTAATAAAAAT---AATAAATAATTTAATAAC
*
30533241 ATTTTAATATAATTATTATTAAATATAATTTAATAAAAATAATATATAATTTAATAAC
1 ATTTTAATATAATTATTATTAAATATAATTTAATAAAAATAATAAATAATTTAATAAC
30533299 ATTCTTAATATAATTATT
1 ATT-TTAATATAATTATT
30533317 TTTATATTAA
Statistics
Matches: 71, Mismatches: 3, Indels: 6
0.89 0.04 0.08
Matches are distributed among these distances:
58 18 0.25
59 14 0.20
61 38 0.54
62 1 0.01
ACGTcount: A:0.53, C:0.02, G:0.01, T:0.45
Consensus pattern (58 bp):
ATTTTAATATAATTATTATTAAATATAATTTAATAAAAATAATAAATAATTTAATAAC
Done.