Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 66 of 310
Found at i:21161132 original size:34 final size:36
Alignment explanation
Indices: 21161053--21161135 Score: 98
Period size: 36 Copynumber: 2.4 Consensus size: 36
21161043 CTTAAGCCTA
* * *
21161053 AATATAATAAATATTTTTCATTATTCAAATTTTAAT
1 AATATAATAAATATTATTCATAATACAAATTTTAAT
* * *
21161089 AATAAAATAAATATTATTCA-AATACCAA-TTTAGT
1 AATATAATAAATATTATTCATAATACAAATTTTAAT
21161123 AATATAATAAATA
1 AATATAATAAATA
21161136 ATAAAAATTA
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
34 17 0.43
35 5 0.12
36 18 0.45
ACGTcount: A:0.52, C:0.06, G:0.01, T:0.41
Consensus pattern (36 bp):
AATATAATAAATATTATTCATAATACAAATTTTAAT
Found at i:21162695 original size:28 final size:29
Alignment explanation
Indices: 21162663--21162739 Score: 104
Period size: 28 Copynumber: 2.7 Consensus size: 29
21162653 TTTCGTCTTC
21162663 AAGATAGTCCTTGGTGGACATT-CCACAT
1 AAGATAGTCCTTGGTGGACATTCCCACAT
* * *
21162691 AAGATAGTTCTTGGAGGAC-TTCCCGCAT
1 AAGATAGTCCTTGGTGGACATTCCCACAT
*
21162719 AAGATAGTCTTTGGTGGACAT
1 AAGATAGTCCTTGGTGGACAT
21162740 CTCTTTCTCT
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
27 2 0.05
28 38 0.93
29 1 0.02
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (29 bp):
AAGATAGTCCTTGGTGGACATTCCCACAT
Found at i:21163261 original size:35 final size:36
Alignment explanation
Indices: 21163222--21163301 Score: 94
Period size: 35 Copynumber: 2.3 Consensus size: 36
21163212 ACCATCTTCG
*
21163222 TGATGCCACTTC-ATAGAGCTAGTAAACCATTACCA
1 TGATGCCACTTCTATAGAGCCAGTAAACCATTACCA
* * *
21163257 TGATGCCGA--TCTATAGAGCCAGTAGACTATTGCCA
1 TGATGCC-ACTTCTATAGAGCCAGTAAACCATTACCA
21163292 TGATGCCACT
1 TGATGCCACT
21163302 CCGTAATGCC
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
34 3 0.08
35 33 0.89
36 1 0.03
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (36 bp):
TGATGCCACTTCTATAGAGCCAGTAAACCATTACCA
Found at i:21166088 original size:28 final size:29
Alignment explanation
Indices: 21166056--21166141 Score: 75
Period size: 36 Copynumber: 2.7 Consensus size: 29
21166046 TTTTATAGGG
21166056 TTTCAATTTTGCATTCTGTTTTG-TATTC
1 TTTCAATTTTGCATTCTGTTTTGTTATTC
* *
21166084 TTTCAATCTTGTATTTTTGTTCTTGTTTTGTTATTC
1 TTTCAATTTTGCA------TTC-TGTTTTGTTATTC
21166120 TTTCAATTTTGCATTCTAGTTT
1 TTTCAATTTTGCATTCT-GTTT
21166142 GTAAAGAAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 16
0.69 0.06 0.25
Matches are distributed among these distances:
28 11 0.24
29 1 0.02
30 7 0.16
34 3 0.07
35 7 0.16
36 16 0.36
ACGTcount: A:0.14, C:0.13, G:0.10, T:0.63
Consensus pattern (29 bp):
TTTCAATTTTGCATTCTGTTTTGTTATTC
Found at i:21169031 original size:37 final size:37
Alignment explanation
Indices: 21168981--21169054 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
21168971 TCAATTGCCA
21168981 TATGTATATTTAGTTAAAGCAACTATAGTTCATATCT
1 TATGTATATTTAGTTAAAGCAACTATAGTTCATATCT
21169018 TATGTATATTTAGTTAAAGCAACTATAGTTCATATCT
1 TATGTATATTTAGTTAAAGCAACTATAGTTCATATCT
21169055 CACATAACAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.35, C:0.11, G:0.11, T:0.43
Consensus pattern (37 bp):
TATGTATATTTAGTTAAAGCAACTATAGTTCATATCT
Found at i:21169302 original size:28 final size:28
Alignment explanation
Indices: 21169267--21169349 Score: 121
Period size: 28 Copynumber: 3.0 Consensus size: 28
21169257 CGCTGAACCA
*
21169267 TTCAATATTTCACACACTAAGTGCCATT
1 TTCAATATTTCGCACACTAAGTGCCATT
* * *
21169295 TTCAATATCTCGCACACTAAATGCCGTT
1 TTCAATATTTCGCACACTAAGTGCCATT
*
21169323 CTCAATATTTCGCACACTAAGTGCCAT
1 TTCAATATTTCGCACACTAAGTGCCAT
21169350 ATTTGATGTC
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 47 1.00
ACGTcount: A:0.30, C:0.28, G:0.10, T:0.33
Consensus pattern (28 bp):
TTCAATATTTCGCACACTAAGTGCCATT
Found at i:21169366 original size:56 final size:56
Alignment explanation
Indices: 21169268--21169374 Score: 162
Period size: 56 Copynumber: 1.9 Consensus size: 56
21169258 GCTGAACCAT
21169268 TCAATATTTCACACACTAAGTGCCATTTTCAATATCTCGCACACTAAATGCCGTTC
1 TCAATATTTCACACACTAAGTGCCATTTTCAATATCTCGCACACTAAATGCCGTTC
* * * *
21169324 TCAATATTTCGCACACTAAGTGCCATATTT-GATGTCTTGCACACTAAATGC
1 TCAATATTTCACACACTAAGTGCCAT-TTTCAATATCTCGCACACTAAATGC
21169375 TAGATATAGC
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
56 43 0.93
57 3 0.07
ACGTcount: A:0.30, C:0.26, G:0.11, T:0.33
Consensus pattern (56 bp):
TCAATATTTCACACACTAAGTGCCATTTTCAATATCTCGCACACTAAATGCCGTTC
Found at i:21176081 original size:28 final size:28
Alignment explanation
Indices: 21176050--21176120 Score: 88
Period size: 28 Copynumber: 2.5 Consensus size: 28
21176040 CGATATTTCA
*
21176050 CACACTAAATGTCATTCTCAATATCTCG
1 CACACTAAATGCCATTCTCAATATCTCG
* * * *
21176078 CACACTAAGTGCCGTTCTCAATATTTTG
1 CACACTAAATGCCATTCTCAATATCTCG
*
21176106 CACACTAAGTGCCAT
1 CACACTAAATGCCAT
21176121 ATTTGATGTC
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.30, C:0.28, G:0.11, T:0.31
Consensus pattern (28 bp):
CACACTAAATGCCATTCTCAATATCTCG
Found at i:21182859 original size:23 final size:24
Alignment explanation
Indices: 21182824--21182868 Score: 58
Period size: 23 Copynumber: 1.9 Consensus size: 24
21182814 GAATGAGAAG
21182824 AAGAAAAATAGGAGAA-GAAAAGGA
1 AAGAAAAATAGGA-AAGGAAAAGGA
*
21182848 AAGAAGAA-AGGAAAGGAAAAG
1 AAGAAAAATAGGAAAGGAAAAG
21182869 AGAATGGGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 2 0.11
23 10 0.53
24 7 0.37
ACGTcount: A:0.67, C:0.00, G:0.31, T:0.02
Consensus pattern (24 bp):
AAGAAAAATAGGAAAGGAAAAGGA
Found at i:21182872 original size:17 final size:19
Alignment explanation
Indices: 21182842--21182886 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
21182832 TAGGAGAAGA
21182842 AAAGG-AAAGAAGAA-AGG
1 AAAGGAAAAGAAGAATAGG
*
21182859 AAAGGAAAAG-AGAATGGG
1 AAAGGAAAAGAAGAATAGG
*
21182877 AAAGAAAAAG
1 AAAGGAAAAG
21182887 GGATTTAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 9 0.38
18 15 0.62
ACGTcount: A:0.64, C:0.00, G:0.33, T:0.02
Consensus pattern (19 bp):
AAAGGAAAAGAAGAATAGG
Found at i:21184782 original size:19 final size:18
Alignment explanation
Indices: 21184737--21184783 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
21184727 GTTTTGTAAA
21184737 GTGAATTTTGGTAAAAAT
1 GTGAATTTTGGTAAAAAT
* *
21184755 GTCAATTTTGG-ACTAAATT
1 GTGAATTTTGGTA--AAAAT
21184774 GTGAATTTTG
1 GTGAATTTTG
21184784 AAATTATGTG
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
17 1 0.04
18 10 0.42
19 13 0.54
ACGTcount: A:0.32, C:0.04, G:0.21, T:0.43
Consensus pattern (18 bp):
GTGAATTTTGGTAAAAAT
Found at i:21185365 original size:43 final size:45
Alignment explanation
Indices: 21185316--21185487 Score: 171
Period size: 43 Copynumber: 4.0 Consensus size: 45
21185306 GATTTCCAAG
*
21185316 ATGTGATTACATGTAAGACCATGTCTGA-GACATTGGCATTGTAT
1 ATGTGATTACATGTAAGACCATGTCTGAGGACATTGGCATCGTAT
**
21185360 -TGTGATTATGTGTAAGACCATGTCT-AGGACATTGGCATCGT-T
1 ATGTGATTACATGTAAGACCATGTCTGAGGACATTGGCATCGTAT
** * * * *
21185402 ATACGATTTCATGTAAGACCCTGT-TTAGGACAGTGGCATCG-AT
1 ATGTGATTACATGTAAGACCATGTCTGAGGACATTGGCATCGTAT
* * * *
21185445 ATGTGATAACATGTAAGACCATATCTG-GGATA-TGGCATTGTAT
1 ATGTGATTACATGTAAGACCATGTCTGAGGACATTGGCATCGTAT
21185488 GAGCTTTATG
Statistics
Matches: 103, Mismatches: 19, Indels: 13
0.76 0.14 0.10
Matches are distributed among these distances:
42 10 0.10
43 92 0.89
44 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.33
Consensus pattern (45 bp):
ATGTGATTACATGTAAGACCATGTCTGAGGACATTGGCATCGTAT
Found at i:21188604 original size:33 final size:33
Alignment explanation
Indices: 21188567--21188652 Score: 109
Period size: 33 Copynumber: 2.6 Consensus size: 33
21188557 TATCCACTAT
* * * * *
21188567 AGTACTTCACTCTTCCCGGCACGTATCCATTGC
1 AGTACTCCACTCCTCCCAGCACATATCCATCGC
**
21188600 AGTACTCCACTCCTCCCAGCTTATATCCATCGC
1 AGTACTCCACTCCTCCCAGCACATATCCATCGC
21188633 AGTACTCCACTCCTCCCAGC
1 AGTACTCCACTCCTCCCAGC
21188653 TCAAGTTCAT
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.20, C:0.42, G:0.12, T:0.27
Consensus pattern (33 bp):
AGTACTCCACTCCTCCCAGCACATATCCATCGC
Found at i:21188653 original size:33 final size:33
Alignment explanation
Indices: 21188590--21188653 Score: 119
Period size: 33 Copynumber: 1.9 Consensus size: 33
21188580 TCCCGGCACG
*
21188590 TATCCATTGCAGTACTCCACTCCTCCCAGCTTA
1 TATCCATCGCAGTACTCCACTCCTCCCAGCTTA
21188623 TATCCATCGCAGTACTCCACTCCTCCCAGCT
1 TATCCATCGCAGTACTCCACTCCTCCCAGCT
21188654 CAAGTTCATC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.20, C:0.42, G:0.09, T:0.28
Consensus pattern (33 bp):
TATCCATCGCAGTACTCCACTCCTCCCAGCTTA
Found at i:21189477 original size:22 final size:22
Alignment explanation
Indices: 21189452--21189495 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
21189442 AATCTAGGAG
21189452 ATAAAATATATCTTTTTCCAAT
1 ATAAAATATATCTTTTTCCAAT
21189474 ATAAAATATATCTTTTTCCAAT
1 ATAAAATATATCTTTTTCCAAT
21189496 TCTTCCATGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.41, C:0.14, G:0.00, T:0.45
Consensus pattern (22 bp):
ATAAAATATATCTTTTTCCAAT
Found at i:21191380 original size:36 final size:35
Alignment explanation
Indices: 21191340--21191451 Score: 125
Period size: 36 Copynumber: 3.1 Consensus size: 35
21191330 AGTTTCATTT
*
21191340 AGTAACATTCAATTATTCAATAGCAATTAGTTATTC
1 AGTAACA-TCAATTATTCAATAGCAATCAGTTATTC
* ** *
21191376 AGTAACAATCATTTGCTCAAAAGCAATCAGTTATTC
1 AGTAAC-ATCAATTATTCAATAGCAATCAGTTATTC
* * *
21191412 AGTAACGATCAATTATTCAATAACAGTCAGTCATTC
1 AGTAAC-ATCAATTATTCAATAGCAATCAGTTATTC
21191448 AGTA
1 AGTA
21191452 CTTTTATTTA
Statistics
Matches: 62, Mismatches: 13, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
36 61 0.98
37 1 0.02
ACGTcount: A:0.39, C:0.17, G:0.11, T:0.33
Consensus pattern (35 bp):
AGTAACATCAATTATTCAATAGCAATCAGTTATTC
Found at i:21191384 original size:18 final size:18
Alignment explanation
Indices: 21191340--21191451 Score: 82
Period size: 18 Copynumber: 6.2 Consensus size: 18
21191330 AGTTTCATTT
* *
21191340 AGTAACATTCAATTATTC
1 AGTAACAATCAGTTATTC
* * *
21191358 AATAGCAATTAGTTATTC
1 AGTAACAATCAGTTATTC
* **
21191376 AGTAACAATCATTTGCTC
1 AGTAACAATCAGTTATTC
*
21191394 A-AAAGCAATCAGTTATTC
1 AGTAA-CAATCAGTTATTC
* *
21191412 AGTAACGATCAATTATTC
1 AGTAACAATCAGTTATTC
* * *
21191430 AATAACAGTCAGTCATTC
1 AGTAACAATCAGTTATTC
21191448 AGTA
1 AGTA
21191452 CTTTTATTTA
Statistics
Matches: 68, Mismatches: 24, Indels: 4
0.71 0.25 0.04
Matches are distributed among these distances:
17 2 0.03
18 64 0.94
19 2 0.03
ACGTcount: A:0.39, C:0.17, G:0.11, T:0.33
Consensus pattern (18 bp):
AGTAACAATCAGTTATTC
Found at i:21191700 original size:44 final size:44
Alignment explanation
Indices: 21191609--21191700 Score: 105
Period size: 44 Copynumber: 2.1 Consensus size: 44
21191599 CCGAAGTAAC
** * *
21191609 AGTAACAGTACGACACACAAGGTGCCTCATTGACTTAAAGTCGA
1 AGTAACAGTACGACACACAAGGTGCCTCATCAACTCAAAGTCAA
** *
21191653 AGTAACAGTACGACACTTATA-GTGCCTCATCAACTCAAGGTCAA
1 AGTAACAGTACGACACACA-AGGTGCCTCATCAACTCAAAGTCAA
21191697 AGTA
1 AGTA
21191701 TCCCTGAACA
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
44 39 0.98
45 1 0.03
ACGTcount: A:0.37, C:0.23, G:0.18, T:0.22
Consensus pattern (44 bp):
AGTAACAGTACGACACACAAGGTGCCTCATCAACTCAAAGTCAA
Found at i:21192489 original size:20 final size:22
Alignment explanation
Indices: 21192464--21192503 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
21192454 TAAATTCACT
21192464 TACTTT-TTTAT-CTCAATTCA
1 TACTTTGTTTATACTCAATTCA
*
21192484 TACTTTGTTTCTACTCAATT
1 TACTTTGTTTATACTCAATT
21192504 TTCAACCAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 4 0.24
22 7 0.41
ACGTcount: A:0.23, C:0.20, G:0.03, T:0.55
Consensus pattern (22 bp):
TACTTTGTTTATACTCAATTCA
Found at i:21192983 original size:13 final size:13
Alignment explanation
Indices: 21192944--21192985 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
21192934 TACTTTATAT
21192944 ATATATTATAATA
1 ATATATTATAATA
21192957 ATATAATT-TAATA
1 ATAT-ATTATAATA
21192970 ATATACTTAT-ATA
1 ATATA-TTATAATA
21192983 ATA
1 ATA
21192986 AGTAAACATC
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
12 1 0.04
13 21 0.81
14 4 0.15
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (13 bp):
ATATATTATAATA
Found at i:21200465 original size:16 final size:17
Alignment explanation
Indices: 21200429--21200468 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
21200419 TTCGAACAGC
* *
21200429 AAAAAATTTACTTAAAT
1 AAAAAATTTAATGAAAT
21200446 AAAAAATTTAATGAAA-
1 AAAAAATTTAATGAAAT
21200462 AAAAAAT
1 AAAAAAT
21200469 CAACATTGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 7 0.33
17 14 0.67
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.28
Consensus pattern (17 bp):
AAAAAATTTAATGAAAT
Found at i:21201514 original size:113 final size:114
Alignment explanation
Indices: 21201311--21201521 Score: 264
Period size: 113 Copynumber: 1.9 Consensus size: 114
21201301 TTTATAATAG
* * *
21201311 TTACTAACAAAATAACTTTAAAATAAATTAAAAAAATATTAAAACATTACATTTATAACCTAATA
1 TTACTAACAAAATAACTTTAAAATAAATTAAAAAAATATTAAAACATTACACTCATAACCTAACA
* *
21201376 GATCACCATAAACATTAGACCAAACAAACAATTAACCTAATCACAAAAA
66 AATCACCATAAACATTAAACCAAACAAACAATTAACCTAATCACAAAAA
* * * *
21201425 TTACTAACAAAATTACTTTAAAATAAATT-AATAATTCA-TAAAACTTTACACTCATAACCTAAC
1 TTACTAACAAAATAACTTTAAAATAAATTAAAAAAAT-ATTAAAACATTACACTCATAACCTAAC
** ** * *
21201488 AAATCTTCATCGACATTAAACTAAACAAGCAATT
65 AAATCACCATAAACATTAAACCAAACAAACAATT
21201522 TATAATAGTT
Statistics
Matches: 81, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
113 52 0.64
114 29 0.36
ACGTcount: A:0.53, C:0.18, G:0.02, T:0.28
Consensus pattern (114 bp):
TTACTAACAAAATAACTTTAAAATAAATTAAAAAAATATTAAAACATTACACTCATAACCTAACA
AATCACCATAAACATTAAACCAAACAAACAATTAACCTAATCACAAAAA
Found at i:21201579 original size:11 final size:11
Alignment explanation
Indices: 21201538--21201577 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
21201528 AGTTACTAAC
21201538 AAAATAAATTA
1 AAAATAAATTA
21201549 AAAATAAATTA
1 AAAATAAATTA
*
21201560 AAAACAACA-TA
1 AAAATAA-ATTA
21201571 AAAATAA
1 AAAATAA
21201578 CAATAAACAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
11 25 0.96
12 1 0.04
ACGTcount: A:0.75, C:0.05, G:0.00, T:0.20
Consensus pattern (11 bp):
AAAATAAATTA
Found at i:21208418 original size:26 final size:25
Alignment explanation
Indices: 21208389--21208474 Score: 136
Period size: 26 Copynumber: 3.3 Consensus size: 25
21208379 TGGTACAAAT
21208389 TGATAATAGGTTAGGTAAATGTTCAA
1 TGATAATAGGTTAGGTAAATGTTC-A
21208415 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTT-CA
*
21208441 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATG-TTCA
21208467 TGATAATA
1 TGATAATA
21208475 ATTTCATGTC
Statistics
Matches: 56, Mismatches: 2, Indels: 4
0.90 0.03 0.06
Matches are distributed among these distances:
26 53 0.95
27 3 0.05
ACGTcount: A:0.36, C:0.05, G:0.23, T:0.36
Consensus pattern (25 bp):
TGATAATAGGTTAGGTAAATGTTCA
Found at i:21208732 original size:27 final size:26
Alignment explanation
Indices: 21208697--21209307 Score: 424
Period size: 27 Copynumber: 22.8 Consensus size: 26
21208687 AATACCCCAG
*
21208697 TTGTAAAATTACCAAAGTACCCCCGGT
1 TTGTAAAATTACCAAA-TACCCTCGGT
* * *
21208724 TTATAAAATTACCGAAATACCGTC-GA
1 TTGTAAAATTACC-AAATACCCTCGGT
* * *
21208750 TTATAAAATTACTAAAATACCCTCGAT
1 TTGTAAAATTAC-CAAATACCCTCGGT
* **
21208777 TTGTAAAATTACTAAAATACCCTCGAC
1 TTGTAAAATTAC-CAAATACCCTCGGT
*
21208804 TTGTAAAATTACCAAAGTACCC-CTAGT
1 TTGTAAAATTACCAAA-TACCCTC-GGT
* ** *
21208831 TTATAAAATTACCGAAATACTGTC-GA
1 TTGTAAAATTACC-AAATACCCTCGGT
* * **
21208857 TTGTAAAATTACTAAAATACCTTCAAT
1 TTGTAAAATTAC-CAAATACCCTCGGT
*
21208884 TTGTAAAATTACCGAAATACCCTCAGT
1 TTGTAAAATTACC-AAATACCCTCGGT
* * *
21208911 TTGCAAAATTATCGAAATACCCTCGAT
1 TTGTAAAATTA-CCAAATACCCTCGGT
* *
21208938 TTGTAAAATTATCGAAATACCCTCAGT
1 TTGTAAAATTA-CCAAATACCCTCGGT
* * * *
21208965 TTATAAAATTACTGAAATACCCTAGAT
1 TTGTAAAATTAC-CAAATACCCTCGGT
* **
21208992 TTGTAAAATTACTGAAATACCCTCGAC
1 TTGTAAAATTAC-CAAATACCCTCGGT
21209019 TTGTAAAATTACCAAAGTACTCC-CGGT
1 TTGTAAAATTACCAAA-TAC-CCTCGGT
* * * *
21209046 TTATAAAATTATCGAAATATCGTC-GT
1 TTGTAAAATTA-CCAAATACCCTCGGT
* * *
21209072 TTATAAAATTACTGAAATACCCTCGAT
1 TTGTAAAATTAC-CAAATACCCTCGGT
* **
21209099 TTGTAAAATTACTGAAATACCCTCGAC
1 TTGTAAAATTAC-CAAATACCCTCGGT
* * *
21209126 TTGTAAAATTACCAAAGTGCCCCCAGT
1 TTGTAAAATTACCAAA-TACCCTCGGT
* * *
21209153 TTATAAAATTACCAAAATACCATC-GA
1 TTGTAAAATTACC-AAATACCCTCGGT
* *
21209179 TTGTAAAATTACTGAAATACCCTCGAT
1 TTGTAAAATTAC-CAAATACCCTCGGT
**
21209206 TTGTAAAATTACCGAAATACCCTTAGT
1 TTGTAAAATTACC-AAATACCCTCGGT
* ** *
21209233 TTGCAAAATTATTGAAATACCCTCGAT
1 TTGTAAAATTA-CCAAATACCCTCGGT
* **
21209260 TTGTAAAATTACTAAAATACCCTCGAC
1 TTGTAAAATTAC-CAAATACCCTCGGT
21209287 TTGTAAAATTACCAAAGTACC
1 TTGTAAAATTACCAAA-TACC
21209308 NGTTCGTGTG
Statistics
Matches: 474, Mismatches: 84, Indels: 52
0.78 0.14 0.09
Matches are distributed among these distances:
25 1 0.00
26 100 0.21
27 356 0.75
28 17 0.04
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (26 bp):
TTGTAAAATTACCAAATACCCTCGGT
Found at i:21208844 original size:107 final size:107
Alignment explanation
Indices: 21208675--21209228 Score: 758
Period size: 107 Copynumber: 5.2 Consensus size: 107
21208665 TTTAGTTTAC
* * *
21208675 TAAAATTATTGAAATACCC-C-AGTTGTAAAATTACCAAAGTACCCCCGGTTTATAAAATTACCG
1 TAAAATTACTGAAATACCCTCGACTTGTAAAATTACCAAAGTACCCCCAGTTTATAAAATTACCG
*
21208738 AAATACCGTCGATTATAAAATTACTAAAATACCCTCGATTTG
66 AAATACCGTCGATTATAAAATTACTGAAATACCCTCGATTTG
* *
21208780 TAAAATTACTAAAATACCCTCGACTTGTAAAATTACCAAAGTACCCCTAGTTTATAAAATTACCG
1 TAAAATTACTGAAATACCCTCGACTTGTAAAATTACCAAAGTACCCCCAGTTTATAAAATTACCG
* * * * *
21208845 AAATACTGTCGATTGTAAAATTACTAAAATACCTTCAATTTG
66 AAATACCGTCGATTATAAAATTACTGAAATACCCTCGATTTG
* * * * * *
21208887 TAAAATTACCGAAATACCCTC-AGTTTGCAAAATTATCGAAA-TACCCTC-GATTTGTAAAATTA
1 TAAAATTACTGAAATACCCTCGA-CTTGTAAAATTA-CCAAAGTACCCCCAG-TTTATAAAATTA
* * * *
21208949 TCGAAATACCCTCAGTTTATAAAATTACTGAAATACCCTAGATTTG
63 CCGAAATACCGTC-GATTATAAAATTACTGAAATACCCTCGATTTG
* * *
21208995 TAAAATTACTGAAATACCCTCGACTTGTAAAATTACCAAAGTACTCCCGGTTTATAAAATTATCG
1 TAAAATTACTGAAATACCCTCGACTTGTAAAATTACCAAAGTACCCCCAGTTTATAAAATTACCG
* *
21209060 AAATATCGTCGTTTATAAAATTACTGAAATACCCTCGATTTG
66 AAATACCGTCGATTATAAAATTACTGAAATACCCTCGATTTG
* *
21209102 TAAAATTACTGAAATACCCTCGACTTGTAAAATTACCAAAGTGCCCCCAGTTTATAAAATTACCA
1 TAAAATTACTGAAATACCCTCGACTTGTAAAATTACCAAAGTACCCCCAGTTTATAAAATTACCG
* *
21209167 AAATACCATCGATTGTAAAATTACTGAAATACCCTCGATTTG
66 AAATACCGTCGATTATAAAATTACTGAAATACCCTCGATTTG
*
21209209 TAAAATTACCGAAATACCCT
1 TAAAATTACTGAAATACCCT
21209229 TAGTTTGCAA
Statistics
Matches: 394, Mismatches: 46, Indels: 16
0.86 0.10 0.04
Matches are distributed among these distances:
105 17 0.04
106 3 0.01
107 285 0.72
108 87 0.22
109 2 0.01
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.31
Consensus pattern (107 bp):
TAAAATTACTGAAATACCCTCGACTTGTAAAATTACCAAAGTACCCCCAGTTTATAAAATTACCG
AAATACCGTCGATTATAAAATTACTGAAATACCCTCGATTTG
Found at i:21209241 original size:107 final size:106
Alignment explanation
Indices: 21208675--21209298 Score: 720
Period size: 107 Copynumber: 5.8 Consensus size: 106
21208665 TTTAGTTTAC
* *
21208675 TAAAATTATTGAAATACCCCAG--TTGTAAAATTACCAAAGTACCCCCGGTTTATAAAATTACCG
1 TAAAATTACTGAAATACCCTAGACTTGTAAAATTACCAAAGTACCCCC-GTTTATAAAATTACCG
*
21208738 AAATACCGTCGATTATAAAATTACTAAAATACCCTCGATTTG
65 AAATACCGTCGATTATAAAATTACTGAAATACCCTCGATTTG
* * *
21208780 TAAAATTACTAAAATACCCTCGACTTGTAAAATTACCAAAGTACCCCTAGTTTATAAAATTACCG
1 TAAAATTACTGAAATACCCTAGACTTGTAAAATTACCAAAGTACCCC-CGTTTATAAAATTACCG
* * * * *
21208845 AAATACTGTCGATTGTAAAATTACTAAAATACCTTCAATTTG
65 AAATACCGTCGATTATAAAATTACTGAAATACCCTCGATTTG
* * * * * * *
21208887 TAAAATTACCGAAATACCCTCAG-TTTGCAAAATTATCGAAA-TACCCTCGATTTGTAAAATTAT
1 TAAAATTACTGAAATACCCT-AGACTTGTAAAATTA-CCAAAGTACCCCCG-TTTATAAAATTAC
* * *
21208950 CGAAATACCCTCAGTTTATAAAATTACTGAAATACCCTAGATTTG
63 CGAAATACCGTC-GATTATAAAATTACTGAAATACCCTCGATTTG
* * *
21208995 TAAAATTACTGAAATACCCTCGACTTGTAAAATTACCAAAGTACTCCCGGTTTATAAAATTATCG
1 TAAAATTACTGAAATACCCTAGACTTGTAAAATTACCAAAGTAC-CCCCGTTTATAAAATTACCG
* *
21209060 AAATATCGTCGTTTATAAAATTACTGAAATACCCTCGATTTG
65 AAATACCGTCGATTATAAAATTACTGAAATACCCTCGATTTG
* * *
21209102 TAAAATTACTGAAATACCCTCGACTTGTAAAATTACCAAAGTGCCCCCAGTTTATAAAATTACCA
1 TAAAATTACTGAAATACCCTAGACTTGTAAAATTACCAAAGTACCCCC-GTTTATAAAATTACCG
* *
21209167 AAATACCATCGATTGTAAAATTACTGAAATACCCTCGATTTG
65 AAATACCGTCGATTATAAAATTACTGAAATACCCTCGATTTG
* * * ** * *
21209209 TAAAATTACCGAAATACCCTTAG-TTTGCAAAATTATTGAAA-TACCCTCGATTTGTAAAATTAC
1 TAAAATTACTGAAATACCC-TAGACTTGTAAAATTA-CCAAAGTACCCCCG-TTTATAAAATTAC
** * *
21209272 TAAAATACCCTCGACTTGTAAAATTAC
63 CGAAATACCGTCGA-TTATAAAATTAC
21209299 CAAAGTACCN
Statistics
Matches: 447, Mismatches: 57, Indels: 27
0.84 0.11 0.05
Matches are distributed among these distances:
105 18 0.04
106 5 0.01
107 319 0.71
108 102 0.23
109 3 0.01
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (106 bp):
TAAAATTACTGAAATACCCTAGACTTGTAAAATTACCAAAGTACCCCCGTTTATAAAATTACCGA
AATACCGTCGATTATAAAATTACTGAAATACCCTCGATTTG
Found at i:21209282 original size:322 final size:320
Alignment explanation
Indices: 21208675--21209283 Score: 1013
Period size: 322 Copynumber: 1.9 Consensus size: 320
21208665 TTTAGTTTAC
* *
21208675 TAAAATTATTGAAATACCCCAGTTGTAAAATTACCAAAGTACCCCCGGTTTATAAAATTACCGAA
1 TAAAATTACTGAAATACCCCACTTGTAAAATTACCAAAGTACCCCCGGTTTATAAAATTACCGAA
21208740 ATACCGTCGATTATAAAATTACTAAAATACCCTCGATTTGTAAAATTACTAAAATACCCTCGACT
66 ATACCGTCGATTATAAAATTACTAAAATACCCTCGATTTGTAAAATTACTAAAATACCCTCGACT
* * **
21208805 TGTAAAATTACCAAAGTACCCCTAGTTTATAAAATTACCGAAATACTGTCGATTGTAAAATTACT
131 TGTAAAATTACCAAAGTACCCCCAGTTTATAAAATTACCAAAATACCATCGATTGTAAAATTACT
*
21208870 AAAATACCTTCAATTTGTAAAATTACCGAAATACCCTCAGTTTGCAAAATTATCGAAATACCCTC
196 AAAATACCCTCAATTTGTAAAATTACCGAAATACCCTCAGTTTGCAAAATTATCGAAATACCCTC
*
21208935 GATTTGTAAAATTATCGAAATACCCTCAGTTTATAAAATTACTGAAATACCCTAGATTTG
261 GATTTGTAAAATTATCAAAATACCCTCAGTTTATAAAATTACTGAAATACCCTAGATTTG
* *
21208995 TAAAATTACTGAAATACCCTCGACTTGTAAAATTACCAAAGTACTCCCGGTTTATAAAATTATCG
1 TAAAATTACTGAAATACCC-C-ACTTGTAAAATTACCAAAGTACCCCCGGTTTATAAAATTACCG
* * * *
21209060 AAATATCGTCGTTTATAAAATTACTGAAATACCCTCGATTTGTAAAATTACTGAAATACCCTCGA
64 AAATACCGTCGATTATAAAATTACTAAAATACCCTCGATTTGTAAAATTACTAAAATACCCTCGA
*
21209125 CTTGTAAAATTACCAAAGTGCCCCCAGTTTATAAAATTACCAAAATACCATCGATTGTAAAATTA
129 CTTGTAAAATTACCAAAGTACCCCCAGTTTATAAAATTACCAAAATACCATCGATTGTAAAATTA
* * * *
21209190 CTGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTTAGTTTGCAAAATTATTGAAATACCC
194 CTAAAATACCCTCAATTTGTAAAATTACCGAAATACCCTCAGTTTGCAAAATTATCGAAATACCC
21209255 TCGATTTGTAAAATTA-CTAAAATACCCTC
259 TCGATTTGTAAAATTATC-AAAATACCCTC
21209284 GACTTGTAAA
Statistics
Matches: 267, Mismatches: 19, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
320 18 0.07
321 2 0.01
322 247 0.93
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (320 bp):
TAAAATTACTGAAATACCCCACTTGTAAAATTACCAAAGTACCCCCGGTTTATAAAATTACCGAA
ATACCGTCGATTATAAAATTACTAAAATACCCTCGATTTGTAAAATTACTAAAATACCCTCGACT
TGTAAAATTACCAAAGTACCCCCAGTTTATAAAATTACCAAAATACCATCGATTGTAAAATTACT
AAAATACCCTCAATTTGTAAAATTACCGAAATACCCTCAGTTTGCAAAATTATCGAAATACCCTC
GATTTGTAAAATTATCAAAATACCCTCAGTTTATAAAATTACTGAAATACCCTAGATTTG
Found at i:21209868 original size:27 final size:26
Alignment explanation
Indices: 21209830--21209992 Score: 191
Period size: 27 Copynumber: 6.0 Consensus size: 26
21209820 AAGCGTCCTA
*
21209830 GTGGCTATGCCACAATTATCTGATCTG
1 GTGGCTCTGCCAC-ATTATCTGATCTG
*
21209857 GTGGCTCTGCCACATATATCTGTTCTG
1 GTGGCTCTGCCACAT-TATCTGATCTG
* *
21209884 GTGGCTATGCCACAAATATCTGATCTG
1 GTGGCTCTGCCAC-ATTATCTGATCTG
*
21209911 GTGGCTCTGCCACATATATCTGTTCTG
1 GTGGCTCTGCCACAT-TATCTGATCTG
*
21209938 GTGGCTCTGCCATGATTATCTGTATCTG
1 GTGGCTCTGCCA-CATTATCTG-ATCTG
* * *
21209966 GTGACTCTGTCACATTATCTGTTCTG
1 GTGGCTCTGCCACATTATCTGATCTG
21209992 G
1 G
21209993 CAGCCATGCT
Statistics
Matches: 117, Mismatches: 14, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
26 8 0.07
27 92 0.79
28 17 0.15
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.36
Consensus pattern (26 bp):
GTGGCTCTGCCACATTATCTGATCTG
Found at i:21209912 original size:54 final size:54
Alignment explanation
Indices: 21209830--21209992 Score: 256
Period size: 54 Copynumber: 3.0 Consensus size: 54
21209820 AAGCGTCCTA
21209830 GTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTCTG
1 GTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTCTG
*
21209884 GTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCTGTTCTG
1 GTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTCTG
* ** * *
21209938 GTGGCTCTGCCATGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTTCTG
1 GTGGCTATGCCACAATTATCTG-ATCTGGTGGCTCTGCCACATATATCTGTTCTG
21209992 G
1 G
21209993 CAGCCATGCT
Statistics
Matches: 101, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
54 83 0.82
55 18 0.18
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.36
Consensus pattern (54 bp):
GTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTCTG
Found at i:21213367 original size:20 final size:20
Alignment explanation
Indices: 21213329--21213367 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
21213319 TTAATTTTTA
*
21213329 AAATATTATATTATAAATTC
1 AAATATTATATTAAAAATTC
21213349 AAATATTAT-TTAAATAATT
1 AAATATTATATTAAA-AATT
21213368 TTTTTTTACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (20 bp):
AAATATTATATTAAAAATTC
Found at i:21222828 original size:16 final size:16
Alignment explanation
Indices: 21222807--21222861 Score: 60
Period size: 16 Copynumber: 3.4 Consensus size: 16
21222797 TTTTGGTAAC
21222807 TCAATTTTTAAAATTT
1 TCAATTTTTAAAATTT
*
21222823 TCAA--TTTAGACATTAT
1 TCAATTTTTA-AAATT-T
21222839 TCAATTTTTAAAATTT
1 TCAATTTTTAAAATTT
*
21222855 TTAATTT
1 TCAATTT
21222862 AGACATTAAC
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
14 4 0.12
15 4 0.12
16 16 0.50
17 4 0.12
18 4 0.12
ACGTcount: A:0.36, C:0.07, G:0.02, T:0.55
Consensus pattern (16 bp):
TCAATTTTTAAAATTT
Found at i:21222848 original size:32 final size:32
Alignment explanation
Indices: 21222807--21222869 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
21222797 TTTTGGTAAC
21222807 TCAATTTTTAAAATTTTCAATTTAGACATTAT
1 TCAATTTTTAAAATTTTCAATTTAGACATTAT
*
21222839 TCAATTTTTAAAATTTTTAATTTAGACATTA
1 TCAATTTTTAAAATTTTCAATTTAGACATTA
21222870 ACGTTTAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.38, C:0.08, G:0.03, T:0.51
Consensus pattern (32 bp):
TCAATTTTTAAAATTTTCAATTTAGACATTAT
Found at i:21226916 original size:12 final size:12
Alignment explanation
Indices: 21226877--21226920 Score: 56
Period size: 12 Copynumber: 3.7 Consensus size: 12
21226867 GAGCGGGAAG
21226877 AGGAAAAAGA-A
1 AGGAAAAAGAGA
21226888 A-GAAAAAGAGGGA
1 AGGAAAAAGA--GA
21226901 AGGAAAAAGAGA
1 AGGAAAAAGAGA
21226913 AGGAAAAA
1 AGGAAAAA
21226921 AATAAATAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
10 8 0.28
11 1 0.03
12 10 0.34
13 2 0.07
14 8 0.28
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (12 bp):
AGGAAAAAGAGA
Found at i:21229807 original size:49 final size:48
Alignment explanation
Indices: 21229745--21229941 Score: 290
Period size: 48 Copynumber: 4.1 Consensus size: 48
21229735 AATTAGATTA
**
21229745 ATTGCAACATTAAAACTTGGAACAAACTTTGTGGTCATAAATTAAATTA-
1 ATTGCAACATTAAAACTTGGAACAAACTTTGTAAT-ATAAATTAAA-TAC
*
21229794 ATTGCAACATTAAAACTTGGAACAAAATTTGTAATATAAATTAAATAC
1 ATTGCAACATTAAAACTTGGAACAAACTTTGTAATATAAATTAAATAC
*
21229842 A-TGACAACATTAAAACTTGGAACAAACTTTATAATATAAATTAAATAC
1 ATTG-CAACATTAAAACTTGGAACAAACTTTGTAATATAAATTAAATAC
* **
21229890 ATTACAACATTAAAACTTGGAACAAACTTTGTAATATAAATTAGGTAC
1 ATTGCAACATTAAAACTTGGAACAAACTTTGTAATATAAATTAAATAC
21229938 ATTG
1 ATTG
21229942 GATTACATAA
Statistics
Matches: 135, Mismatches: 10, Indels: 7
0.89 0.07 0.05
Matches are distributed among these distances:
47 4 0.03
48 98 0.73
49 33 0.24
ACGTcount: A:0.47, C:0.12, G:0.10, T:0.31
Consensus pattern (48 bp):
ATTGCAACATTAAAACTTGGAACAAACTTTGTAATATAAATTAAATAC
Found at i:21231083 original size:27 final size:27
Alignment explanation
Indices: 21231035--21231139 Score: 135
Period size: 27 Copynumber: 3.9 Consensus size: 27
21231025 GCGAGGCTGC
* *
21231035 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
21231062 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
21231088 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
21231115 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
21231140 GACGCTTCCT
Statistics
Matches: 71, Mismatches: 3, Indels: 8
0.87 0.04 0.10
Matches are distributed among these distances:
26 8 0.11
27 60 0.85
28 3 0.04
ACGTcount: A:0.34, C:0.22, G:0.25, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:21232783 original size:26 final size:26
Alignment explanation
Indices: 21232753--21232886 Score: 250
Period size: 26 Copynumber: 5.2 Consensus size: 26
21232743 TGAAATTCCC
21232753 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
21232779 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
21232805 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
21232831 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
21232857 ATCATGGAACATTTACCTAACCTATT
1 ATCATGGAACATTTACCTAACCCATT
21232883 ATCA
1 ATCA
21232887 ATTTGTATCA
Statistics
Matches: 105, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 105 1.00
ACGTcount: A:0.36, C:0.26, G:0.07, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:21240281 original size:3 final size:3
Alignment explanation
Indices: 21240273--21240307 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
21240263 GAAAAGGGGT
21240273 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
21240308 TGAGATTAGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:21243722 original size:21 final size:21
Alignment explanation
Indices: 21243696--21243736 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
21243686 AGACGAGCAA
* *
21243696 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
21243717 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
21243737 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:21257722 original size:49 final size:49
Alignment explanation
Indices: 21257665--21257760 Score: 183
Period size: 49 Copynumber: 2.0 Consensus size: 49
21257655 GTGCTCAAGT
*
21257665 TTTAAGAAATATATTTTCTTTTCCTGAACATCAAAGATATGAACTAAAC
1 TTTAAGAAATATATTTTCTTTTCCTCAACATCAAAGATATGAACTAAAC
21257714 TTTAAGAAATATATTTTCTTTTCCTCAACATCAAAGATATGAACTAA
1 TTTAAGAAATATATTTTCTTTTCCTCAACATCAAAGATATGAACTAA
21257761 GGGATGTTTC
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.41, C:0.15, G:0.07, T:0.38
Consensus pattern (49 bp):
TTTAAGAAATATATTTTCTTTTCCTCAACATCAAAGATATGAACTAAAC
Found at i:21265457 original size:23 final size:23
Alignment explanation
Indices: 21265431--21265496 Score: 56
Period size: 23 Copynumber: 3.2 Consensus size: 23
21265421 ATTGATAAGT
21265431 TATTCTATAAAGATGTGATAAAA
1 TATTCTATAAAGATGTGATAAAA
**
21265454 TA---T-T-AA-AT-TGATAAGT
1 TATTCTATAAAGATGTGATAAAA
*
21265470 TATTCTATAAAGGTGTGATAAAA
1 TATTCTATAAAGATGTGATAAAA
21265493 TATT
1 TATT
21265497 AAAAAAACAT
Statistics
Matches: 31, Mismatches: 5, Indels: 14
0.62 0.10 0.28
Matches are distributed among these distances:
16 8 0.26
17 2 0.06
18 2 0.06
19 2 0.06
20 2 0.06
21 2 0.06
22 1 0.03
23 12 0.39
ACGTcount: A:0.44, C:0.03, G:0.14, T:0.39
Consensus pattern (23 bp):
TATTCTATAAAGATGTGATAAAA
Found at i:21265464 original size:39 final size:39
Alignment explanation
Indices: 21265421--21265499 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
21265411 AAAATTAAGG
21265421 ATTGATAAGTTATTCTATAAAGATGTGATAAAATATTAA
1 ATTGATAAGTTATTCTATAAAGATGTGATAAAATATTAA
*
21265460 ATTGATAAGTTATTCTATAAAGGTGTGATAAAATATTAA
1 ATTGATAAGTTATTCTATAAAGATGTGATAAAATATTAA
21265499 A
1 A
21265500 AAAACATTAT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.46, C:0.03, G:0.14, T:0.38
Consensus pattern (39 bp):
ATTGATAAGTTATTCTATAAAGATGTGATAAAATATTAA
Found at i:21282149 original size:3 final size:3
Alignment explanation
Indices: 21282143--21282372 Score: 84
Period size: 3 Copynumber: 77.3 Consensus size: 3
21282133 AAAATACAAC
* * * *
21282143 AAT AAT AAT AGT AA- AAG ATAT AAT AA- CAT AAT AAT -AT AAT AGT
1 AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * * * *
21282186 AAT AGT AAC AAT -AT GAC GAT AAT AGT AAA AAT AAT -AT ATT AAAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT
* * **
21282230 AAT AGT AAT AA- AAGT AGT GCT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * *
21282275 AAT AAT AAT -CT ATT AAGT TAT AAT GAA- AAT AAT GAT AAT GAT GAT
1 AAT AAT AAT AAT AAT AA-T AAT AAT -AAT AAT AAT AAT AAT AAT AAT
* * * *
21282320 -AT ATT AGAT AAT AAT AGT AA- AAT AAT AAGT AAC AAT AAT AAAT TAT
1 AAT AAT A-AT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT -AAT AAT
21282366 AAT AAT A
1 AAT AAT A
21282373 GTGATGAGAA
Statistics
Matches: 166, Mismatches: 43, Indels: 36
0.68 0.18 0.15
Matches are distributed among these distances:
2 18 0.11
3 131 0.79
4 17 0.10
ACGTcount: A:0.57, C:0.03, G:0.08, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:21282149 original size:22 final size:22
Alignment explanation
Indices: 21282098--21282158 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 22
21282088 AAAATATNAT
* *
21282098 ACAAAAATAA-AGGAAAATATA
1 ACAAAAATAATAGAAAAATACA
* *
21282119 ATAACAATAATAGAAAAATACA
1 ACAAAAATAATAGAAAAATACA
* *
21282141 ACAATAATAATAGTAAAA
1 ACAAAAATAATAGAAAAA
21282159 GATATAATAA
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 8 0.25
22 24 0.75
ACGTcount: A:0.69, C:0.07, G:0.07, T:0.18
Consensus pattern (22 bp):
ACAAAAATAATAGAAAAATACA
Found at i:21282391 original size:16 final size:16
Alignment explanation
Indices: 21282372--21282403 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
21282362 TTATAATAAT
21282372 AGTGATGAGAATAACA
1 AGTGATGAGAATAACA
*
21282388 AGTGATGATAATAACA
1 AGTGATGAGAATAACA
21282404 GTAACAATAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.50, C:0.06, G:0.22, T:0.22
Consensus pattern (16 bp):
AGTGATGAGAATAACA
Found at i:21282536 original size:16 final size:15
Alignment explanation
Indices: 21282507--21282549 Score: 59
Period size: 16 Copynumber: 2.8 Consensus size: 15
21282497 TATACGTATG
*
21282507 AAAAATAATGATAGT
1 AAAAATAATAATAGT
21282522 AAAATATAATAATAGT
1 AAAA-ATAATAATAGT
*
21282538 AATAATAATAAT
1 AAAAATAATAAT
21282550 GGAATGAAGG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 12 0.48
16 13 0.52
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (15 bp):
AAAAATAATAATAGT
Found at i:21283397 original size:12 final size:12
Alignment explanation
Indices: 21283380--21283404 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
21283370 TTGGGTTAGT
21283380 GTTTTGGGCTAA
1 GTTTTGGGCTAA
21283392 GTTTTGGGCTAA
1 GTTTTGGGCTAA
21283404 G
1 G
21283405 GGTTTTGGGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.08, G:0.36, T:0.40
Consensus pattern (12 bp):
GTTTTGGGCTAA
Found at i:21286454 original size:22 final size:20
Alignment explanation
Indices: 21286428--21286472 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 20
21286418 TTATTTAAGT
21286428 AAAATAATTTTAAAAATAATAA
1 AAAATAA-TTTAAAAAT-ATAA
* *
21286450 AAAATTATTTGAAAATATAA
1 AAAATAATTTAAAAATATAA
21286470 AAA
1 AAA
21286473 TTTTATTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 7 0.33
21 8 0.38
22 6 0.29
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (20 bp):
AAAATAATTTAAAAATATAA
Found at i:21286548 original size:7 final size:8
Alignment explanation
Indices: 21286531--21286558 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
21286521 ACGTAATTTT
21286531 AAATTCAA
1 AAATTCAA
21286539 AAATTCAA
1 AAATTCAA
21286547 AAATTCAA
1 AAATTCAA
21286555 AAAT
1 AAAT
21286559 AAATAGAAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.64, C:0.11, G:0.00, T:0.25
Consensus pattern (8 bp):
AAATTCAA
Found at i:21291130 original size:16 final size:16
Alignment explanation
Indices: 21291105--21291138 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
21291095 TCACATCCCA
*
21291105 AAAATTGGGTTAGTAG
1 AAAATCGGGTTAGTAG
21291121 AAAATCGGGTTAGTAG
1 AAAATCGGGTTAGTAG
21291137 AA
1 AA
21291139 CCAAGAGGGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.41, C:0.03, G:0.29, T:0.26
Consensus pattern (16 bp):
AAAATCGGGTTAGTAG
Found at i:21295364 original size:156 final size:155
Alignment explanation
Indices: 21295187--21295487 Score: 435
Period size: 156 Copynumber: 1.9 Consensus size: 155
21295177 ATTTTTTTTT
* * *
21295187 AAAAATTACTACTTTTCTTAAAAATCAAAATTTTATTTCGAAATAGTTGAAAAA-ATCAAAACTT
1 AAAAATCACTACTTTTCTTAAAAATCAAAATTTTATATCGAAATAGTTAAAAAAGATCAAAACTT
* ***
21295251 TATTTTCAAAAATTTAAAGATTTT-CTTTAAAATGACTAAAAAACATATTTTTAGTTTAAAAAAT
66 TATTTT-AAAAATTTAAA-ATTTTCCTTTAAAATGACTAAAAAACAGATTTTTAAAAT-AAAAAT
*
21295315 CTAGACTTTCTCTTTTTTTTTTATTTAA
128 CTAAACTTTCTCTTTTTTTTTTATTTAA
* *
21295343 AAAAATCACTATTTTTCTTAAAAATCAAAATTTTATATCGAAATAGTTAAAAAAGATCAGAACTT
1 AAAAATCACTACTTTTCTTAAAAATCAAAATTTTATATCGAAATAGTTAAAAAAGATCAAAACTT
* * * *
21295408 TATTTTAAGAATTTAAACTTTTCCTTTAATATGACTAAAAAATAGATTTTTAAAATAAAAATCTA
66 TATTTTAAAAATTTAAAATTTTCCTTTAAAATGACTAAAAAACAGATTTTTAAAATAAAAATCTA
21295473 AACTTTCTCTTTTTT
131 AACTTTCTCTTTTTT
21295488 ATAAAAAAAA
Statistics
Matches: 129, Mismatches: 14, Indels: 5
0.87 0.09 0.03
Matches are distributed among these distances:
155 27 0.21
156 87 0.67
157 15 0.12
ACGTcount: A:0.43, C:0.10, G:0.05, T:0.42
Consensus pattern (155 bp):
AAAAATCACTACTTTTCTTAAAAATCAAAATTTTATATCGAAATAGTTAAAAAAGATCAAAACTT
TATTTTAAAAATTTAAAATTTTCCTTTAAAATGACTAAAAAACAGATTTTTAAAATAAAAATCTA
AACTTTCTCTTTTTTTTTTATTTAA
Found at i:21295717 original size:34 final size:35
Alignment explanation
Indices: 21295674--21295745 Score: 119
Period size: 34 Copynumber: 2.1 Consensus size: 35
21295664 CCATAAACAT
*
21295674 AAACTTAAAACCCAAAACAAAAAACCAT-CAGCCC
1 AAACTTAAAACCCAAAACAAAAAACCATAAAGCCC
*
21295708 AAACTTAAAACCCAAAATAAAAAACCATAAAGCCC
1 AAACTTAAAACCCAAAACAAAAAACCATAAAGCCC
21295743 AAA
1 AAA
21295746 TTCTATGGCC
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
34 27 0.77
35 8 0.23
ACGTcount: A:0.60, C:0.28, G:0.03, T:0.10
Consensus pattern (35 bp):
AAACTTAAAACCCAAAACAAAAAACCATAAAGCCC
Found at i:21297009 original size:11 final size:11
Alignment explanation
Indices: 21296995--21297044 Score: 55
Period size: 11 Copynumber: 4.3 Consensus size: 11
21296985 TTCCCGTTTC
21296995 TTTATTTATAT
1 TTTATTTATAT
21297006 TTTATTATATAT
1 TTTATT-TATAT
* *
21297018 ATTACTTATAT
1 TTTATTTATAT
21297029 TTTACTTTAATAT
1 TTTA-TTT-ATAT
21297042 TTT
1 TTT
21297045 TATAAATTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
11 14 0.44
12 11 0.34
13 7 0.22
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.66
Consensus pattern (11 bp):
TTTATTTATAT
Found at i:21297154 original size:26 final size:27
Alignment explanation
Indices: 21297125--21297178 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
21297115 GATTTCATGA
21297125 ATTATTT-ATTTAAAATTGCTTTATAT
1 ATTATTTCATTTAAAATTGCTTTATAT
* * *
21297151 ATTATTTCATTTCAAATTGTTTTGTAT
1 ATTATTTCATTTAAAATTGCTTTATAT
21297178 A
1 A
21297179 CTAATTTGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 7 0.29
27 17 0.71
ACGTcount: A:0.31, C:0.06, G:0.06, T:0.57
Consensus pattern (27 bp):
ATTATTTCATTTAAAATTGCTTTATAT
Found at i:21302476 original size:3 final size:3
Alignment explanation
Indices: 21302468--21302550 Score: 166
Period size: 3 Copynumber: 27.7 Consensus size: 3
21302458 ATGATGCCAA
21302468 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
21302516 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
21302551 AAATAAGAGA
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 80 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:21303932 original size:44 final size:43
Alignment explanation
Indices: 21303893--21304291 Score: 288
Period size: 44 Copynumber: 9.2 Consensus size: 43
21303883 TGTCTCCTTG
* *
21303893 AGCAGCAGTGGAGTAGGCTGAAGATTACAGATCTTGTCTCCCTA
1 AGCAGTAGTGGAGTAGGCTGAAGATTAC-GATCTTATCTCCCTA
** * ** * *
21303937 AGCAGTAGTGGAGTAGATTTAAG-CCACCATCCTATCTCCCTA
1 AGCAGTAGTGGAGTAGGCTGAAGATTACGATCTTATCTCCCTA
21303979 AGCAGTAGTGGAGTAGGCTGAAGATTACGGATCTTATCTCCCTA
1 AGCAGTAGTGGAGTAGGCTGAAGATTAC-GATCTTATCTCCCTA
* * * *** *
21304023 AGCAATAGTGGAGCA-GATCGAAGATGGTGAATCTTGTCTCCCTA
1 AGCAGTAGTGGAGTAGGCT-GAAGATTACG-ATCTTATCTCCCTA
* ** * ** * *
21304067 AGCAGT-GTGGAGCAGATTTAAG-CCACCATCCTATCTCCCTA
1 AGCAGTAGTGGAGTAGGCTGAAGATTACGATCTTATCTCCCTA
* * *
21304108 AGCATTAGTGGAGTAGGCTGAAGATTACAGATCTCATCTCCTTA
1 AGCAGTAGTGGAGTAGGCTGAAGATTAC-GATCTTATCTCCCTA
* * * **** *
21304152 AGTAGTAGTGGAGCA-GATCGAAGACGGTGAATCTTGTCTCCCTA
1 AGCAGTAGTGGAGTAGGCT-GAAGATTACG-ATCTTATCTCCCTA
* ** * ** * *
21304196 AGCAGTAGTGGAGCAGATTTAAG-CCACCATCCTATCTCCCTA
1 AGCAGTAGTGGAGTAGGCTGAAGATTACGATCTTATCTCCCTA
*
21304238 AGCAGTAGTGGAGTAGGCTGAAGATTATAGATCTTATCTCCCTA
1 AGCAGTAGTGGAGTAGGCTGAAGATTA-CGATCTTATCTCCCTA
21304282 AGCAGTAGTG
1 AGCAGTAGTG
21304292 AAACAGATCG
Statistics
Matches: 267, Mismatches: 75, Indels: 26
0.73 0.20 0.07
Matches are distributed among these distances:
41 17 0.06
42 75 0.28
43 25 0.09
44 149 0.56
45 1 0.00
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (43 bp):
AGCAGTAGTGGAGTAGGCTGAAGATTACGATCTTATCTCCCTA
Found at i:21304072 original size:130 final size:130
Alignment explanation
Indices: 21303923--21304324 Score: 689
Period size: 130 Copynumber: 3.1 Consensus size: 130
21303913 AAGATTACAG
*
21303923 ATCTTGTCTCCCTAAGCAGTAGTGGAGTAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGT
1 ATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGT
* * *
21303988 GGAGTAGGCTGAAGATTACGGATCTTATCTCCCTAAGCAATAGTGGAGCAGATCGAAGATGGTGA
66 GGAGTAGGCTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGA
*
21304053 ATCTTGTCTCCCTAAGCAGT-GTGGAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCATTAGT
1 ATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGT
* * *
21304117 GGAGTAGGCTGAAGATTACAGATCTCATCTCCTTAAGTAGTAGTGGAGCAGATCGAAGACGGTGA
66 GGAGTAGGCTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGA
21304182 ATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGT
1 ATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGT
* * *
21304247 GGAGTAGGCTGAAGATTATAGATCTTATCTCCCTAAGCAGTAGTGAAACAGATCGAAGACGGTGA
66 GGAGTAGGCTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGA
*
21304312 ATCTTGTCCCCCT
1 ATCTTGTCTCCCT
21304325 GAGGTAGCGA
Statistics
Matches: 255, Mismatches: 16, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
129 121 0.47
130 134 0.53
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.26
Consensus pattern (130 bp):
ATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGT
GGAGTAGGCTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGA
Found at i:21304436 original size:44 final size:44
Alignment explanation
Indices: 21304387--21304492 Score: 167
Period size: 44 Copynumber: 2.4 Consensus size: 44
21304377 AGGGTACAGG
* *
21304387 CTGAAGATTGTAGTCTTATCTACTTGATGTAGCAAGGAAGCAGA
1 CTGAAGATTGTAGTCTTATCTACCTGATATAGCAAGGAAGCAGA
* *
21304431 CTGAAGATTGTAATCTTATCTTCCTGATATAGCAAGGAAGCAGA
1 CTGAAGATTGTAGTCTTATCTACCTGATATAGCAAGGAAGCAGA
21304475 CTGAAGATTGTAGATCTT
1 CTGAAGATTGTAG-TCTT
21304493 GTTTCCCTAA
Statistics
Matches: 56, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
44 52 0.93
45 4 0.07
ACGTcount: A:0.32, C:0.14, G:0.23, T:0.31
Consensus pattern (44 bp):
CTGAAGATTGTAGTCTTATCTACCTGATATAGCAAGGAAGCAGA
Found at i:21304651 original size:44 final size:45
Alignment explanation
Indices: 21304581--21304684 Score: 120
Period size: 44 Copynumber: 2.3 Consensus size: 45
21304571 CCACTAACCT
* * * ** * *
21304581 TATCTCCCTAAAGTTGCAGTGGAGCAGGTTGAAGTTA-CAAGTCA
1 TATCTCCCTGAAGTTGCAGCGAAGCAGACTGAAGATAGCAAATCA
*
21304625 TATCTCCCTGAAGTTGCAGCGAAGCAGACTGAAGATAGCAAATCT
1 TATCTCCCTGAAGTTGCAGCGAAGCAGACTGAAGATAGCAAATCA
*
21304670 TATCTCTCTGAAGTT
1 TATCTCCCTGAAGTT
21304685 AGAGTAGAGC
Statistics
Matches: 50, Mismatches: 9, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
44 31 0.62
45 19 0.38
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (45 bp):
TATCTCCCTGAAGTTGCAGCGAAGCAGACTGAAGATAGCAAATCA
Found at i:21305180 original size:44 final size:44
Alignment explanation
Indices: 21305088--21305204 Score: 119
Period size: 44 Copynumber: 2.7 Consensus size: 44
21305078 TATCATGGCG
* * * ** **
21305088 AATCTTATCTCCTTGAAGTTGTAGT-AGAGCAGATTGAGGCCATT
1 AATCTTATCTCCCTGAAGTTGCAGTGA-AGCAGATTAAAACCAAA
*
21305132 AATCTCATCTCCCTGAAGTTGCAGTGAAGCAGATTAAAACCAAA
1 AATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTAAAACCAAA
* * *
21305176 AATCTTATCTTCCTAAAGTTACAGTGAAG
1 AATCTTATCTCCCTGAAGTTGCAGTGAAG
21305205 AAAATTGAAG
Statistics
Matches: 60, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
44 59 0.98
45 1 0.02
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.30
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTAAAACCAAA
Found at i:21305515 original size:14 final size:15
Alignment explanation
Indices: 21305491--21305529 Score: 53
Period size: 14 Copynumber: 2.6 Consensus size: 15
21305481 CCCATAAACC
21305491 TAAATTAAAAACCCA
1 TAAATTAAAAACCCA
*
21305506 -AAATTCAAAACCCA
1 TAAATTAAAAACCCA
21305520 TAAATCTAAA
1 TAAAT-TAAA
21305530 CTTAAAACCC
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
14 13 0.65
15 4 0.20
16 3 0.15
ACGTcount: A:0.59, C:0.21, G:0.00, T:0.21
Consensus pattern (15 bp):
TAAATTAAAAACCCA
Found at i:21305515 original size:35 final size:35
Alignment explanation
Indices: 21305469--21305598 Score: 140
Period size: 35 Copynumber: 3.7 Consensus size: 35
21305459 AGTCCAGTTA
* *
21305469 CAAAATTCAAAACCCATAAACCTAAA-TTAAAAACC
1 CAAAATTAAAAACCCATAAACCCAAACTT-AAAACC
* * *
21305504 CAAAATTCAAAACCCATAAATCTAAACTTAAAACC
1 CAAAATTAAAAACCCATAAACCCAAACTTAAAACC
* * *
21305539 CAAAA-TAAAAAACCATCAGCCCAAACTTAAAACC
1 CAAAATTAAAAACCCATAAACCCAAACTTAAAACC
*
21305573 CAAAATAAAAAACCC-TAAAGCCCAAA
1 CAAAATTAAAAACCCATAAA-CCCAAA
21305599 TTCTATGGCC
Statistics
Matches: 81, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
34 30 0.37
35 49 0.60
36 2 0.02
ACGTcount: A:0.57, C:0.27, G:0.02, T:0.15
Consensus pattern (35 bp):
CAAAATTAAAAACCCATAAACCCAAACTTAAAACC
Found at i:21310931 original size:17 final size:17
Alignment explanation
Indices: 21310906--21310943 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
21310896 TAAGGGAATA
*
21310906 AAAACAAATAAATAATG
1 AAAACAAATAAATAAAG
*
21310923 AAAAGAAATAAATAAAG
1 AAAACAAATAAATAAAG
21310940 AAAA
1 AAAA
21310944 ATAAGTAAGC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.76, C:0.03, G:0.08, T:0.13
Consensus pattern (17 bp):
AAAACAAATAAATAAAG
Found at i:21313992 original size:42 final size:42
Alignment explanation
Indices: 21313945--21314029 Score: 152
Period size: 42 Copynumber: 2.0 Consensus size: 42
21313935 GAAAAACGAC
*
21313945 TAAATTCTGGAAAATATTTGAGGTTAGGGGCTTGGAGGTTGT
1 TAAATTCTGGAAAATATTTGAGGTTAGGGGCTTGGAGGGTGT
*
21313987 TAAATTCTGGATAATATTTGAGGTTAGGGGCTTGGAGGGTGT
1 TAAATTCTGGAAAATATTTGAGGTTAGGGGCTTGGAGGGTGT
21314029 T
1 T
21314030 GGTTGCTGAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.25, C:0.05, G:0.34, T:0.36
Consensus pattern (42 bp):
TAAATTCTGGAAAATATTTGAGGTTAGGGGCTTGGAGGGTGT
Found at i:21322304 original size:55 final size:55
Alignment explanation
Indices: 21322238--21322346 Score: 218
Period size: 55 Copynumber: 2.0 Consensus size: 55
21322228 ATCGAGTCCT
21322238 CCGCTGCACCTATCCGTCAAGTCTGGAGATTACCTGTGCACAGTTTAAAAAAAAA
1 CCGCTGCACCTATCCGTCAAGTCTGGAGATTACCTGTGCACAGTTTAAAAAAAAA
21322293 CCGCTGCACCTATCCGTCAAGTCTGGAGATTACCTGTGCACAGTTTAAAAAAAA
1 CCGCTGCACCTATCCGTCAAGTCTGGAGATTACCTGTGCACAGTTTAAAAAAAA
21322347 GGGTAAGTTT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 54 1.00
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (55 bp):
CCGCTGCACCTATCCGTCAAGTCTGGAGATTACCTGTGCACAGTTTAAAAAAAAA
Found at i:21330276 original size:14 final size:14
Alignment explanation
Indices: 21330259--21330288 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
21330249 GAGGTTTAGA
21330259 ATATGAGAATATGC
1 ATATGAGAATATGC
21330273 ATATGAGAATATGC
1 ATATGAGAATATGC
21330287 AT
1 AT
21330289 GTGTTAAAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.43, C:0.07, G:0.20, T:0.30
Consensus pattern (14 bp):
ATATGAGAATATGC
Found at i:21330313 original size:13 final size:13
Alignment explanation
Indices: 21330295--21330322 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
21330285 GCATGTGTTA
21330295 AAGTTTCATGAAG
1 AAGTTTCATGAAG
21330308 AAGTTTCATGAAG
1 AAGTTTCATGAAG
21330321 AA
1 AA
21330323 ATTCTTTGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.43, C:0.07, G:0.21, T:0.29
Consensus pattern (13 bp):
AAGTTTCATGAAG
Found at i:21332360 original size:3 final size:3
Alignment explanation
Indices: 21332354--21332391 Score: 58
Period size: 3 Copynumber: 12.0 Consensus size: 3
21332344 CATCATCATC
21332354 ATT ATT ATT GATTT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT -A-TT ATT ATT ATT ATT ATT ATT ATT ATT
21332392 GTTACTTTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
3 29 0.88
4 2 0.06
5 2 0.06
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:21332367 original size:26 final size:26
Alignment explanation
Indices: 21332338--21332388 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
21332328 TACTCACTTT
21332338 ATTTATCATCATCATCATTATTATTG
1 ATTTATCATCATCATCATTATTATTG
* * * *
21332364 ATTTATTATTATTATTATTATTATT
1 ATTTATCATCATCATCATTATTATT
21332389 ATTGTTACTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.31, C:0.08, G:0.02, T:0.59
Consensus pattern (26 bp):
ATTTATCATCATCATCATTATTATTG
Found at i:21334321 original size:132 final size:132
Alignment explanation
Indices: 21334083--21334368 Score: 423
Period size: 132 Copynumber: 2.2 Consensus size: 132
21334073 TTCACAATTA
21334083 TTAAAAATTCTTTAAAACGAAGACGAGACTCGATATTTGGCATTTCGCAGAATAGTGCCCTAACG
1 TTAAAAATTCTTTAAAACGAAGACGAGACTCGATATTTGGCATTTCGCAGAATAGTGCCCTAACG
* * * *
21334148 TGTTGGGTTGCAAATTCTCGTTTGCTCAAAATAATCGAATATCCCTTCAAAATTTCACTCATGCC
66 TGCTGGGTTGCAAATTCTCGTTTGCTCAAAATAATCAAATATCCCTTCAAAATTTCACGCATACC
21334213 TT
131 TT
* * * *
21334215 TTAAAAATTCTTTAAAATGAAGACGATATTCGATATTTGGCAATTT-GCGGAATAGTGCCCTAAC
1 TTAAAAATTCTTTAAAACGAAGACGAGACTCGATATTTGGC-ATTTCGCAGAATAGTGCCCTAAC
* * * *
21334279 GTGCTGGGTTGCAATTTCTCGTTTGCTTAAAATAATCAAATATCCCTTCAAATTTTCACGCATAT
65 GTGCTGGGTTGCAAATTCTCGTTTGCTCAAAATAATCAAATATCCCTTCAAAATTTCACGCATAC
21334344 CTT
130 CTT
*
21334347 CTAAAAA-TCATTTAAAACGAAG
1 TTAAAAATTC-TTTAAAACGAAG
21334369 GTAAAATTTG
Statistics
Matches: 138, Mismatches: 14, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
131 2 0.01
132 132 0.96
133 4 0.03
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.34
Consensus pattern (132 bp):
TTAAAAATTCTTTAAAACGAAGACGAGACTCGATATTTGGCATTTCGCAGAATAGTGCCCTAACG
TGCTGGGTTGCAAATTCTCGTTTGCTCAAAATAATCAAATATCCCTTCAAAATTTCACGCATACC
TT
Found at i:21334391 original size:132 final size:131
Alignment explanation
Indices: 21334084--21334472 Score: 386
Period size: 132 Copynumber: 3.0 Consensus size: 131
21334074 TCACAATTAT
* * * * * * *
21334084 TAAAAATTCTTTAAAACGAAGACGAGACTCGATATTTGGCATTTCGCAGAATAGTGCCCTAACGT
1 TAAAAATTCTTTAAAACGAAGACAAAATTCGACATTTGACAATTCG-GGAATAGTGCCCTAACGT
* * * * *
21334149 GTTGGGTTGCAAATTCTCGTTTGCTCAAAATAATCGAATATCCCTTCAAAATTTCACTCATGCCT
65 GCTGGGTTGCAATTTCTCGTTTGCTCAAAATAATCGAATATCCCTTCAAATTTTCACGCATACCT
*
21334214 TT
130 TC
* * * * * *
21334216 TAAAAATTCTTTAAAATGAAGACGATATTCGATATTTGGCAATTTGCGGAATAGTGCCCTAACGT
1 TAAAAATTCTTTAAAACGAAGACAAAATTCGACATTTGACAATTCG-GGAATAGTGCCCTAACGT
* * *
21334281 GCTGGGTTGCAATTTCTCGTTTGCTTAAAATAATCAAATATCCCTTCAAATTTTCACGCATATCT
65 GCTGGGTTGCAATTTCTCGTTTGCTCAAAATAATCGAATATCCCTTCAAATTTTCACGCATACCT
21334346 TC
130 TC
** * * * * *
21334348 TAAAAA-TCATTTAAAACGAAGGTAAAATTTGGCGTTTGACAATTCGGGAATCA-TTCCCTATCG
1 TAAAAATTC-TTTAAAACGAAGACAAAATTCGACATTTGACAATTCGGGAAT-AGTGCCCTAACG
** * * * * * **
21334411 TGCTGGGTTATAATTCCTCGTCTGCTCAAAACAATCGAATATTCCTTTAGGTTTTCACGCAT
64 TGCTGGGTTGCAATTTCTCGTTTGCTCAAAATAATCGAATATCCCTTCAAATTTTCACGCAT
21334473 GTTTATTAAA
Statistics
Matches: 216, Mismatches: 39, Indels: 5
0.83 0.15 0.02
Matches are distributed among these distances:
131 66 0.31
132 150 0.69
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.34
Consensus pattern (131 bp):
TAAAAATTCTTTAAAACGAAGACAAAATTCGACATTTGACAATTCGGGAATAGTGCCCTAACGTG
CTGGGTTGCAATTTCTCGTTTGCTCAAAATAATCGAATATCCCTTCAAATTTTCACGCATACCTT
C
Found at i:21345797 original size:48 final size:42
Alignment explanation
Indices: 21345731--21345853 Score: 131
Period size: 41 Copynumber: 2.8 Consensus size: 42
21345721 AATATAGCAA
*
21345731 ATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCAAATTACAG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAACAGATT----CAAA--ACAG
* * *
21345779 ATCTTATCTCTCTGAAGTTGCAGTAGAGCAGA-TCAAAACAG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTCAAAACAG
* *
21345820 ATCTTGTCTCCCCGAAGTTGCAGTGGAACAGATT
1 ATCTTATCTCCCTGAAGTTGCAGTGGAACAGATT
21345854 TAAGATGGTA
Statistics
Matches: 65, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
41 31 0.48
42 1 0.02
43 4 0.06
47 1 0.02
48 28 0.43
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (42 bp):
ATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTCAAAACAG
Found at i:21346301 original size:135 final size:139
Alignment explanation
Indices: 21346022--21346307 Score: 318
Period size: 135 Copynumber: 2.1 Consensus size: 139
21346012 GATGCAGTGG
* * * * **
21346022 AGCAAATTGAAGCTAAATTACAGATCTTATCTCTCTGAAGTTGTAGTAGAGCAGGTCGAAGTTAC
1 AGCAGATTGAAGCTAAATTACAGACCTTATCTCTCTGAAGTTGAAGTAGAGCAGATCGAAAATAC
* * *
21346087 AAGTCTTATCTCCTTAAAGTTGTAGTGGAATAGACTGAAGATAACAAATCTTACTTCTCTGAAGT
66 AAGTCTTACCTCCTTAAAGTTGCAGTGGAATAGACTGAAGACAACAAATCTTACTTCTCTGAAGT
* *
21346152 TGCAGTGGA
131 TACAATGGA
*
21346161 A-CAGATTGAAGCTAAATTACAGACCTTATCTCTTTGAAGTTGAAGTAGAGCAGATC-AAAATA-
1 AGCAGATTGAAGCTAAATTACAGACCTTATCTCTCTGAAGTTGAAGTAGAGCAGATCGAAAATAC
* * *** *
21346223 GA-TCTTACCT-CTCTGAAGTTGCAGTGGAATAGA-TCGAAGACGGTAAATCTTGCCTTCT-TGA
66 AAGTCTTACCTCCT-TAAAGTTGCAGTGGAATAGACT-GAAGACAACAAATCTT-ACTTCTCTGA
21346284 AGTTACAAT-GA
128 AGTTACAATGGA
*
21346295 AGCAGATTCAAGC
1 AGCAGATTGAAGC
21346308 CACCAAGCCT
Statistics
Matches: 124, Mismatches: 19, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
134 6 0.05
135 57 0.46
136 6 0.05
137 4 0.03
138 50 0.40
139 1 0.01
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.29
Consensus pattern (139 bp):
AGCAGATTGAAGCTAAATTACAGACCTTATCTCTCTGAAGTTGAAGTAGAGCAGATCGAAAATAC
AAGTCTTACCTCCTTAAAGTTGCAGTGGAATAGACTGAAGACAACAAATCTTACTTCTCTGAAGT
TACAATGGA
Found at i:21346374 original size:89 final size:89
Alignment explanation
Indices: 21346267--21346441 Score: 287
Period size: 89 Copynumber: 2.0 Consensus size: 89
21346257 CGAAGACGGT
* * *
21346267 AAATCTTGCCTTCTTGAAGTTACAATGAAGCAGATTCAAGCCACCAAGCCTTAATCCCCTAAGCA
1 AAATCTTGCCTTCCTGAAGTTACAATGAAGCAGAATCAAGCCACCAAGCCTTAACCCCCTAAGCA
*
21346332 GTAGGGTAATAGGCTGAAAATTAC
66 ATAGGGTAATAGGCTGAAAATTAC
* * *
21346356 AAATCTTGCCTTCCTGAAGTTGCAGTGAAGCAGAATCAAGCCACTAAGCCTTAACCCCCTAAGCA
1 AAATCTTGCCTTCCTGAAGTTACAATGAAGCAGAATCAAGCCACCAAGCCTTAACCCCCTAAGCA
21346421 ATAGGGTAATAGGCTGAAAAT
66 ATAGGGTAATAGGCTGAAAAT
21346442 CACTAGTCTT
Statistics
Matches: 79, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
89 79 1.00
ACGTcount: A:0.35, C:0.23, G:0.19, T:0.23
Consensus pattern (89 bp):
AAATCTTGCCTTCCTGAAGTTACAATGAAGCAGAATCAAGCCACCAAGCCTTAACCCCCTAAGCA
ATAGGGTAATAGGCTGAAAATTAC
Found at i:21346461 original size:89 final size:89
Alignment explanation
Indices: 21346267--21346478 Score: 271
Period size: 89 Copynumber: 2.4 Consensus size: 89
21346257 CGAAGACGGT
* * * * * * *
21346267 AAATCTTGCCTTCTTGAAGTTACAATGAAGCAGATTCAAGCCACCAAGCCTTAATCCCCTAAGCA
1 AAATCTTACCTCCCTGAAGTTGCAGTGAAGCAGAATCAAGCCACCAAGCCTTAACCCCCTAAGCA
* *
21346332 GTAGGGTAATAGGCTGAAAATTAC
66 ATAGGGTAATAGGCTGAAAATCAC
* * *
21346356 AAATCTTGCCTTCCTGAAGTTGCAGTGAAGCAGAATCAAGCCACTAAGCCTTAACCCCCTAAGCA
1 AAATCTTACCTCCCTGAAGTTGCAGTGAAGCAGAATCAAGCCACCAAGCCTTAACCCCCTAAGCA
21346421 ATAGGGTAATAGGCTGAAAATCAC
66 ATAGGGTAATAGGCTGAAAATCAC
* * * * *
21346445 TAGTCTTATCTCCCTGAAATTGCAGTGCAGCAGA
1 AAATCTTACCTCCCTGAAGTTGCAGTGAAGCAGA
21346479 CTGAAGACAA
Statistics
Matches: 108, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
89 108 1.00
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.24
Consensus pattern (89 bp):
AAATCTTACCTCCCTGAAGTTGCAGTGAAGCAGAATCAAGCCACCAAGCCTTAACCCCCTAAGCA
ATAGGGTAATAGGCTGAAAATCAC
Found at i:21348412 original size:3 final size:3
Alignment explanation
Indices: 21348406--21348443 Score: 58
Period size: 3 Copynumber: 12.0 Consensus size: 3
21348396 CATCATCATC
21348406 ATT ATT ATT GATTT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT -A-TT ATT ATT ATT ATT ATT ATT ATT ATT
21348444 GTTACTTTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
3 29 0.88
4 2 0.06
5 2 0.06
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:21348419 original size:26 final size:26
Alignment explanation
Indices: 21348390--21348440 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
21348380 TACTCACTTT
21348390 ATTTATCATCATCATCATTATTATTG
1 ATTTATCATCATCATCATTATTATTG
* * * *
21348416 ATTTATTATTATTATTATTATTATT
1 ATTTATCATCATCATCATTATTATT
21348441 ATTGTTACTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.31, C:0.08, G:0.02, T:0.59
Consensus pattern (26 bp):
ATTTATCATCATCATCATTATTATTG
Found at i:21350373 original size:132 final size:129
Alignment explanation
Indices: 21350135--21350634 Score: 477
Period size: 132 Copynumber: 3.8 Consensus size: 129
21350125 TTCACAATTA
* * *
21350135 TTAAAAATTCTTTAAAACGAAGACGAGACTCGATATTTGGCATTTCGCAGAATAGTGCCCTAACG
1 TTAAAAA-TCTTTAAAACGAAGACGATATTCGATATTTGGCAATTCG-AGAATAGTGCCCTAACG
* *
21350200 TGTTGGGTTGCAATTTCTCGTTTGCTCAAAATAATCGAATATCCCTTCAAAATTTCACTCATGCC
64 TGCTGGGTTGCAATTTCTCGTTTGCTCAAAATAATCGAATATCCCTTCAAAATTTCACACATG-C
21350265 TT
128 TT
*
21350267 TTAAAAATTCTTTAAAACGAAGACGATATTCGATATTTGGCAATTCGCGGAATAGTGCCCTAACG
1 TTAAAAA-TCTTTAAAACGAAGACGATATTCGATATTTGGCAATTCG-AGAATAGTGCCCTAACG
* * * *
21350332 TGCTGGGTTGCAATTTCTCGTTTGCTTAAAATAATCAAATATCCCTTCAAAATTTCACGCATATC
64 TGCTGGGTTGCAATTTCTCGTTTGCTCAAAATAATCGAATATCCCTTCAAAATTTCACACAT-GC
21350397 TT
128 TT
* * *** * *** * * *
21350399 CTAAAAATCATTTAAAATGAAGGTAATATTTGGCGTTTGACAATTCGGGAATCA-TGCCCTATCG
1 TTAAAAATC-TTTAAAACGAAGACGATATTCGATATTTGGCAATTCGAGAAT-AGTGCCCTAACG
** * * * * * *** *
21350463 TGCTGGGTTATAATTCCTCGTCTGCTCAAAACAATCGAATATTCCTTTAGGTTTTCACACATGTT
64 TGCTGGGTTGCAATTTCTCGTTTGCTCAAAATAATCGAATATCCCTTCAAAATTTCACACATGCT
21350528 T
129 T
* * * * * * * *
21350529 ATTAAAAACCTTTCAATAC-AA-AGGATGTTCAATATTTGGCGATTTGAGAATAGTGCCCTATCG
1 -TTAAAAATCTTT-AAAACGAAGACGATATTCGATATTTGGCAATTCGAGAATAGTGCCCTAACG
* * *
21350592 TGCTGGGCTGCAATCTCCCGTTTG-TCCAAAATAATCGAATATC
64 TGCTGGGTTGCAATTTCTCGTTTGCT-CAAAATAATCGAATATC
21350635 TCTCTGGAAT
Statistics
Matches: 300, Mismatches: 61, Indels: 17
0.79 0.16 0.04
Matches are distributed among these distances:
128 2 0.01
129 59 0.20
130 7 0.02
131 75 0.25
132 157 0.52
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.34
Consensus pattern (129 bp):
TTAAAAATCTTTAAAACGAAGACGATATTCGATATTTGGCAATTCGAGAATAGTGCCCTAACGTG
CTGGGTTGCAATTTCTCGTTTGCTCAAAATAATCGAATATCCCTTCAAAATTTCACACATGCTT
Found at i:21353163 original size:22 final size:20
Alignment explanation
Indices: 21353111--21353162 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
21353101 CAGGCTGAGG
*
21353111 ACACGAGTGTGTCCCATAGC
1 ACACGGGTGTGTCCCATAGC
21353131 ACACGGGTGTGTCCCATAGC
1 ACACGGGTGTGTCCCATAGC
21353151 ACACGGGTGTGT
1 ACACGGGTGTGT
21353163 GCATTGCCTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.21, C:0.27, G:0.31, T:0.21
Consensus pattern (20 bp):
ACACGGGTGTGTCCCATAGC
Found at i:21361841 original size:31 final size:31
Alignment explanation
Indices: 21361803--21361939 Score: 247
Period size: 31 Copynumber: 4.4 Consensus size: 31
21361793 ACGATTATTG
21361803 GGCCGAAGCCTTTTCATAAATCATATCACTA
1 GGCCGAAGCCTTTTCATAAATCATATCACTA
21361834 GGCCGAAGCCTTTTCATAAATCATATCACTA
1 GGCCGAAGCCTTTTCATAAATCATATCACTA
21361865 GGCCGAAGCCTTTTCATAAATCATATCACTA
1 GGCCGAAGCCTTTTCATAAATCATATCACTA
* *
21361896 GGCCGAAGCCATTTCATAAATCATATCACTG
1 GGCCGAAGCCTTTTCATAAATCATATCACTA
*
21361927 GGTCGAAGCCTTT
1 GGCCGAAGCCTTT
21361940 ACTGTAAATT
Statistics
Matches: 102, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 102 1.00
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.28
Consensus pattern (31 bp):
GGCCGAAGCCTTTTCATAAATCATATCACTA
Found at i:21362652 original size:27 final size:26
Alignment explanation
Indices: 21362622--21362688 Score: 73
Period size: 27 Copynumber: 2.5 Consensus size: 26
21362612 GGGCATATTC
21362622 GTCATTTTACCATACAAGGG-TATTACG
1 GTCATTTTACC-TACAAGGGCT-TTACG
* *
21362649 GTCACTTTACGCTACAGGGGCTTTACG
1 GTCATTTTAC-CTACAAGGGCTTTACG
*
21362676 GTCTTTTTACCTA
1 GTCATTTTACCTA
21362689 TTAGGGTTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
26 3 0.09
27 29 0.85
28 2 0.06
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.36
Consensus pattern (26 bp):
GTCATTTTACCTACAAGGGCTTTACG
Found at i:21362770 original size:27 final size:27
Alignment explanation
Indices: 21362717--21362952 Score: 186
Period size: 27 Copynumber: 8.7 Consensus size: 27
21362707 TTTCATCCTA
* * * *
21362717 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTCGGTAATTTTACAAAC
* **
21362744 CAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTCGGTAATTTTACAAAC
* ** * *
21362771 CAATGGTATTTCTATAATTTTTAGAAAGT
1 CAAGGGTATTTCGGTAA-TTTTACAAA-C
** ** *
21362800 CAAGGGTATTTCTATAATTTTGTAAAT
1 CAAGGGTATTTCGGTAATTTTACAAAC
* * *
21362827 CAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTCGGTAATTTTACAAAC
* *
21362854 TAAGGGTATTTCGGTAATTTCACAAAC
1 CAAGGGTATTTCGGTAATTTTACAAAC
*
21362881 CAATGGTATTTCGGTAATTTTACAAA-
1 CAAGGGTATTTCGGTAATTTTACAAAC
* *
21362907 CTAGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTCGGTAATTTTACAAAC
* * * *
21362934 TAGGGGTGTTTTGGTAATT
1 CAAGGGTATTTCGGTAATT
21362953 CTATCCTACA
Statistics
Matches: 169, Mismatches: 37, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
26 23 0.14
27 116 0.69
28 14 0.08
29 16 0.09
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.39
Consensus pattern (27 bp):
CAAGGGTATTTCGGTAATTTTACAAAC
Found at i:21362950 original size:53 final size:54
Alignment explanation
Indices: 21362720--21362985 Score: 187
Period size: 54 Copynumber: 4.9 Consensus size: 54
21362710 CATCCTACAA
* * * * * *** *
21362720 GGGTGTTTTGGTAAATCTACAAACCAAGGGTATTTCAGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCGGTAATTTCACAAACCAG
* * * * ** *** *
21362774 TGGTATTTCT-ATAATTTTTAGAAAGTCAAGGGTATTTCTATAATTTTGTAAATCAG
1 GGGTATTT-TGGTAA-TTTTACAAACT-AAGGGTATTTCGGTAATTTCACAAACCAG
* *
21362830 GGGTATTTTGGTAATTTTACAAATTAAGGGTATTTCGGTAATTTCACAAACCAA
1 GGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCGGTAATTTCACAAACCAG
* * * * *
21362884 TGGTATTTCGGTAATTTTACAAACT-AGGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCGGTAATTTCACAAACCAG
* * ** * *
21362937 GGGTGTTTTGGTAATTCTATCCTAC-AGGGGTATTTCAGTAATTTCACAA
1 GGGTATTTTGGTAATTTTA-CAAACTAAGGGTATTTCGGTAATTTCACAA
21362986 TCGAGGGTAA
Statistics
Matches: 166, Mismatches: 40, Indels: 12
0.76 0.18 0.06
Matches are distributed among these distances:
53 39 0.23
54 75 0.45
55 17 0.10
56 35 0.21
ACGTcount: A:0.31, C:0.11, G:0.19, T:0.39
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCGGTAATTTCACAAACCAG
Found at i:21362969 original size:80 final size:80
Alignment explanation
Indices: 21362830--21363021 Score: 190
Period size: 80 Copynumber: 2.4 Consensus size: 80
21362820 TGTAAATCAG
* * *
21362830 GGGTATTTTGGTAATTTTACAAATTAAGGGTATTTCGGTAATTTCACAAACCAATGGTATTTCGG
1 GGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCGGTAATTTCACAAACCAAGGGTATTTCAG
* *
21362895 TAATTTTACAAACTA
66 TAATTTCACAAACGA
* * * ** *
21362910 GGGTATTTTGGTAATTTTACAAACTAGGGGTGTTTTGGTAA-TTCTATCCTA-CAGGGGTATTTC
1 GGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCGGTAATTTC-A-CAAACCAAGGGTATTTC
*
21362973 AGTAATTTCACAATCGA
64 AGTAATTTCACAAACGA
*** ** *
21362990 GGGTAAAATGGTAATTTTGTAAACTGAGGGTA
1 GGGTATTTTGGTAATTTTACAAACTAAGGGTA
21363022 AAATGGTAAT
Statistics
Matches: 90, Mismatches: 20, Indels: 4
0.79 0.18 0.04
Matches are distributed among these distances:
79 3 0.03
80 85 0.94
81 2 0.02
ACGTcount: A:0.30, C:0.10, G:0.22, T:0.38
Consensus pattern (80 bp):
GGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCGGTAATTTCACAAACCAAGGGTATTTCAG
TAATTTCACAAACGA
Found at i:21363018 original size:27 final size:27
Alignment explanation
Indices: 21362984--21363129 Score: 195
Period size: 27 Copynumber: 5.4 Consensus size: 27
21362974 GTAATTTCAC
21362984 AATCGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTTTGTA
21363011 AA-CTGAGGGTAAAATGGTAATTTTGTA
1 AATC-GAGGGTAAAATGGTAATTTTGTA
* *
21363038 AATTGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTTTGTA
* * * *
21363065 AATCGAGGGTGAAACGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTTTGTA
* **
21363092 AATCGAGGGTAAAATGGTAATTCTACA
1 AATCGAGGGTAAAATGGTAATTTTGTA
21363119 AATCGAGGGTA
1 AATCGAGGGTA
21363130 TTTCAGTAAT
Statistics
Matches: 108, Mismatches: 9, Indels: 4
0.89 0.07 0.03
Matches are distributed among these distances:
26 1 0.01
27 107 0.99
ACGTcount: A:0.38, C:0.07, G:0.26, T:0.29
Consensus pattern (27 bp):
AATCGAGGGTAAAATGGTAATTTTGTA
Found at i:21363139 original size:54 final size:54
Alignment explanation
Indices: 21362971--21363141 Score: 156
Period size: 54 Copynumber: 3.2 Consensus size: 54
21362961 CAGGGGTATT
* *
21362971 TCAGTAATTTCA-CAATCGAGGGTAAAATGGTAATTTTGTAAA-CTGAGGGTAAAA
1 TCAGTAATTT-ATAAATCGAGGGTAAAATGGTAATTTTGTAAATC-GAGGGTAATA
* * * *
21363025 T-GGTAATTTTGTAAATTGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTGAA-A
1 TCAGTAA-TTTATAAATCGAGGGTAAAATGGTAATTTTGTAAATCGAGGGT-AATA
* * ** *
21363079 -CGGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTACAAATCGAGGGT-ATT
1 TCAGTAATT-TATAAATCGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTAATA
21363132 TCAGTAATTT
1 TCAGTAATTT
21363142 GGTAAACTAA
Statistics
Matches: 96, Mismatches: 13, Indels: 17
0.76 0.10 0.13
Matches are distributed among these distances:
52 1 0.01
53 7 0.07
54 85 0.89
55 3 0.03
ACGTcount: A:0.36, C:0.08, G:0.23, T:0.32
Consensus pattern (54 bp):
TCAGTAATTTATAAATCGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTAATA
Found at i:21363139 original size:81 final size:81
Alignment explanation
Indices: 21362964--21363147 Score: 203
Period size: 81 Copynumber: 2.3 Consensus size: 81
21362954 TATCCTACAG
* * * *
21362964 GGGTATTTCAGTAA-TTT-CACAATCGAGGGTAAAATGGTAATTTTGTAAACTGAGGGTAAAATG
1 GGGTATTTCAGTAATTTTGTA-AATCGAGGGTAAAACGGTAATTCTATAAACTGAGGGTAAAATG
* ** *
21363027 GTAATTTTGTAAATTGA
65 GTAATTCTACAAATCGA
*** * *
21363044 GGGTAAAACGGTAATTTTGTAAATCGAGGGTGAAACGGTAATTCTATAAA-TCGAGGGTAAAATG
1 GGGTATTTCAGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTATAAACT-GAGGGTAAAATG
21363108 GTAATTCTACAAATCGA
65 GTAATTCTACAAATCGA
*
21363125 GGGTATTTCAGTAATTTGGTAAA
1 GGGTATTTCAGTAATTTTGTAAA
21363148 CTAAAGTATT
Statistics
Matches: 83, Mismatches: 18, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
80 11 0.13
81 71 0.86
82 1 0.01
ACGTcount: A:0.36, C:0.08, G:0.24, T:0.32
Consensus pattern (81 bp):
GGGTATTTCAGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTATAAACTGAGGGTAAAATGG
TAATTCTACAAATCGA
Found at i:21365794 original size:43 final size:43
Alignment explanation
Indices: 21365746--21365831 Score: 154
Period size: 43 Copynumber: 2.0 Consensus size: 43
21365736 AGAACGGACT
21365746 TAAAATCAAGCTTGGAAGCTTGGCCAAAAACCCTAGCTATGGA
1 TAAAATCAAGCTTGGAAGCTTGGCCAAAAACCCTAGCTATGGA
* *
21365789 TAAAATCGAGCTTGGAAGCTTGGCCAAAAACCCTAGTTATGGA
1 TAAAATCAAGCTTGGAAGCTTGGCCAAAAACCCTAGCTATGGA
21365832 AACTCTTCAA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.36, C:0.20, G:0.22, T:0.22
Consensus pattern (43 bp):
TAAAATCAAGCTTGGAAGCTTGGCCAAAAACCCTAGCTATGGA
Found at i:21366834 original size:66 final size:65
Alignment explanation
Indices: 21366688--21366834 Score: 179
Period size: 66 Copynumber: 2.2 Consensus size: 65
21366678 AGTATGCTTC
* * *
21366688 ACACGGCCTAGCACACGGTCGTGTGATTGGCCGTGTGGCATAAGTCAGTATACCCTACAAATTTG
1 ACACGGCCTAGCACACGGGCGTGTGATTGGCCGTGTCGCATAAGTCAATATACCCTACAAATTTG
* * * **
21366753 ATA-GGACTTAGCACACGGGCGTGTGACTTGGCCTTGTCGCATAAGTCAATATACCCTACAGGTT
1 ACACGG-CCTAGCACACGGGCGTGTGA-TTGGCCGTGTCGCATAAGTCAATATACCCTACAAATT
21366817 TG
64 TG
* *
21366819 GCACGGCCTAACACAC
1 ACACGGCCTAGCACAC
21366835 AGCTTGGCAC
Statistics
Matches: 67, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
64 2 0.03
65 20 0.30
66 43 0.64
67 2 0.03
ACGTcount: A:0.25, C:0.26, G:0.25, T:0.24
Consensus pattern (65 bp):
ACACGGCCTAGCACACGGGCGTGTGATTGGCCGTGTCGCATAAGTCAATATACCCTACAAATTTG
Found at i:21369525 original size:47 final size:50
Alignment explanation
Indices: 21369469--21369835 Score: 243
Period size: 48 Copynumber: 7.7 Consensus size: 50
21369459 AGCGTAGGAT
* * * *
21369469 GCCGATGCCATATCCTAGATATGGTCTTATACTGGCTCAT-AC-ATCAA-
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCACGATCAAG
* * *
21369516 GTCGATGCCATGTCCCAGACATGGTCTTACACTGACT-ATCGCGATCAAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCACGATCAAG
* * *
21369565 GCCGACGCCATGTCCCAGACATGGTCTTACACTGGCTC-TCACATATC-TG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCAC-GATCAAG
* * * * * * * *
21369614 TGCCGATGCTATGTCCCAAACATGGTCTTACA-TTG-ACACCTCTATC-TG
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCACGATCAAG
* * * * *
21369662 TGTCGATGCCATGTCCCAGACATGATCTTACACTGACACATCTC-AT--A-
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCACGATCAAG
* * * * * *
21369709 GCCGATGCCATGTCTCAGACATGGTTTTACACT--ATC-TCTCGTCTCAAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCACG-ATCAAG
* * ** **
21369757 GCCGATGTCATGTCCCAGACATGGTCTTACACTAGCTC-TCATAAT-GTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCACGATCAAG
21369805 GCCGATG-CATGTCCCAGACAT-GTCTTACACT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACT
21369836 AGCACACAAT
Statistics
Matches: 258, Mismatches: 46, Indels: 33
0.77 0.14 0.10
Matches are distributed among these distances:
43 4 0.02
44 1 0.00
45 1 0.00
46 41 0.16
47 47 0.18
48 77 0.30
49 46 0.18
50 41 0.16
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (50 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCACGATCAAG
Found at i:21369678 original size:48 final size:48
Alignment explanation
Indices: 21369518--21369835 Score: 244
Period size: 48 Copynumber: 6.6 Consensus size: 48
21369508 TACATCAAGT
* * * *
21369518 CGATGCCATGTCCCAGACATGGTCTTACACTGACTATCGCGATCAAG-GC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGAC-ACCACTATC-TGTGC
* * *
21369567 CGACGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACATATCTGTGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACAC-CAC-TATCTGTGC
* * * * *
21369617 CGATGCTATGTCCCAAACATGGTCTTACATTGACACCTCTATCTGTGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACACCACTATCTGTGC
* * *
21369665 CGATGCCATGTCCCAGACATGATCTTACACTGACA-CA-TCTCAT-AGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACACCACTATC-TGTGC
* * * * * **
21369711 CGATGCCATGTCTCAGACATGGTTTTACACT-ATCTCTC-GTCTCAATGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGA-CAC-CACTATCTGTGC
* * *
21369759 CGATGTCATGTCCCAGACATGGTCTTACACT-AGCTCTCA-TA-ATGTGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGA-CAC-CACTATCTGT-GC
21369807 CGATG-CATGTCCCAGACAT-GTCTTACACT
1 CGATGCCATGTCCCAGACATGGTCTTACACT
21369836 AGCACACAAT
Statistics
Matches: 221, Mismatches: 37, Indels: 25
0.78 0.13 0.09
Matches are distributed among these distances:
45 1 0.00
46 43 0.19
47 17 0.08
48 88 0.40
49 37 0.17
50 35 0.16
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGACACCACTATCTGTGC
Found at i:21369812 original size:142 final size:144
Alignment explanation
Indices: 21369518--21369835 Score: 348
Period size: 142 Copynumber: 2.2 Consensus size: 144
21369508 TACATCAAGT
*
21369518 CGATGCCATGTCCCAGACATGGTCTTACACTGACTATCGCGATCAAGGCCGACGCCATGTCCCAG
1 CGATGCCATGTCCCAGACAT-GTCTTACACTGACCATCGCGAT-AAGGCCGACGCCATGTCCCAG
* ** *
21369583 ACATGGTCTTACACTGGCTCTCACATATCTGTGCCGATGCTATGTCCCAAACATGGTCTTACATT
64 ACATGGTCTTACACT-GATCTCACATATCAATGCCGATGCTATGTCCCAAACATGGTCTTACATA
*
21369648 GACACCTCTATCTGTGT
128 GACACCTCTATCTGTGC
* * *
21369665 CGATGCCATGTCCCAGACATGATCTTACACTGACACATCTC-AT-A-GCCGATGCCATGTCTCAG
1 CGATGCCATGTCCCAGACATG-TCTTACACTGAC-CATCGCGATAAGGCCGACGCCATGTCCCAG
* * * * *
21369727 ACATGGTTTTACACT-ATCTCTCGTCTCAATGCCGATG-TCATGTCCCAGACATGGTCTTACACT
64 ACATGGTCTTACACTGATCTCACATATCAATGCCGATGCT-ATGTCCCAAACATGGTCTTACA-T
* *
21369790 AG-C-TCTC-ATAATGTGGC
127 AGACACCTCTAT-CTGT-GC
21369807 CGATG-CATGTCCCAGACATGTCTTACACT
1 CGATGCCATGTCCCAGACATGTCTTACACT
21369836 AGCACACAAT
Statistics
Matches: 149, Mismatches: 16, Indels: 19
0.81 0.09 0.10
Matches are distributed among these distances:
140 11 0.07
141 22 0.15
142 44 0.30
143 2 0.01
144 30 0.20
145 1 0.01
146 1 0.01
147 34 0.23
148 4 0.03
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (144 bp):
CGATGCCATGTCCCAGACATGTCTTACACTGACCATCGCGATAAGGCCGACGCCATGTCCCAGAC
ATGGTCTTACACTGATCTCACATATCAATGCCGATGCTATGTCCCAAACATGGTCTTACATAGAC
ACCTCTATCTGTGC
Found at i:21369836 original size:94 final size:95
Alignment explanation
Indices: 21369467--21369835 Score: 312
Period size: 94 Copynumber: 3.9 Consensus size: 95
21369457 ATAGCGTAGG
* * * * * *
21369467 ATGCCGATGCCATATCCTAGATATGGTCTTATACTGGCTCATACATCAA---GTCGATGCCATGT
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTC-T-CAT-AATTGGCCGATGCCATGT
*
21369529 CCCAGACATGGTCTTACACTGACTATCG-CGATCA
63 CCCAGACATGGTCTTACACTGACTCTCGTC--TCA
* * * * *
21369563 AGGCCGACGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACATATCTGTGCCGATGCTATGT
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATA-AT-TG-GCCGATGCCATGT
* * * * *
21369628 CCCAAACATGGTCTTACATTGACACCTC-TATCT
63 CCCAGACATGGTCTTACACTGAC-TCTCGTCTCA
* * * *
21369661 GTGTCGATGCCATGTCCCAGACATGATCTTACACTGACACATCTCAT-A---GCCGATGCCATGT
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACT-A-GC-TCTCATAATTGGCCGATGCCATGT
* *
21369722 CTCAGACATGGTTTTACACT-ATCTCTCGTCTCA
63 CCCAGACATGGTCTTACACTGA-CTCTCGTCTCA
*
21369755 ATGCCGATGTCATGTCCCAGACATGGTCTTACACTAGCTCTCATAATGTGGCCGATG-CATGTCC
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAAT-TGGCCGATGCCATGTCC
21369819 CAGACAT-GTCTTACACT
65 CAGACATGGTCTTACACT
21369836 AGCACACAAT
Statistics
Matches: 217, Mismatches: 38, Indels: 38
0.74 0.13 0.13
Matches are distributed among these distances:
91 6 0.03
92 2 0.01
93 6 0.03
94 75 0.35
95 14 0.06
96 41 0.19
98 32 0.15
99 33 0.15
100 3 0.01
101 5 0.02
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.28
Consensus pattern (95 bp):
ATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAATTGGCCGATGCCATGTCCC
AGACATGGTCTTACACTGACTCTCGTCTCA
Found at i:21372414 original size:8 final size:8
Alignment explanation
Indices: 21372393--21372425 Score: 57
Period size: 8 Copynumber: 4.0 Consensus size: 8
21372383 ACAAGCAGAT
21372393 TTTTGTGTA
1 TTTTGTG-A
21372402 TTTTGTGA
1 TTTTGTGA
21372410 TTTTGTGA
1 TTTTGTGA
21372418 TTTTGTGA
1 TTTTGTGA
21372426 ATTAGGACTA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 17 0.71
9 7 0.29
ACGTcount: A:0.12, C:0.00, G:0.24, T:0.64
Consensus pattern (8 bp):
TTTTGTGA
Found at i:21378692 original size:18 final size:18
Alignment explanation
Indices: 21378671--21378718 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
21378661 AGATTAAGGT
*
21378671 AATAAAAATAAATAAATA
1 AATAAAAATAAATAAACA
*
21378689 AATAAAAATAAACAAACA
1 AATAAAAATAAATAAACA
*
21378707 AAT-GAAATAAAT
1 AATAAAAATAAAT
21378719 TGATAAACTA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
17 7 0.27
18 19 0.73
ACGTcount: A:0.75, C:0.04, G:0.02, T:0.19
Consensus pattern (18 bp):
AATAAAAATAAATAAACA
Found at i:21386999 original size:11 final size:11
Alignment explanation
Indices: 21386964--21386999 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
21386954 TTTTGCTACC
21386964 ATTTTACTATT
1 ATTTTACTATT
*
21386975 ATGTTACTATT
1 ATTTTACTATT
*
21386986 ATTTTATTATT
1 ATTTTACTATT
21386997 ATT
1 ATT
21387000 ATTTGGATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.28, C:0.06, G:0.03, T:0.64
Consensus pattern (11 bp):
ATTTTACTATT
Found at i:21389598 original size:42 final size:45
Alignment explanation
Indices: 21389552--21389654 Score: 149
Period size: 42 Copynumber: 2.3 Consensus size: 45
21389542 TTTTATTGAA
*
21389552 TTTGTTGTTTTAAATAGATTTTTTT-CTTCTTTGAATCGA-T-TG
1 TTTGTTGTTTTAAATAGATTTTTTTGCTTCTTTGAATCAATTATG
*
21389594 TTTGTTGTTTTAAATTGATTTTTTTGCTTCTTTGAATCAATTCATG
1 TTTGTTGTTTTAAATAGATTTTTTTGCTTCTTTGAATCAATT-ATG
*
21389640 ATTGTTGTTTTAAAT
1 TTTGTTGTTTTAAAT
21389655 CGATCCATGA
Statistics
Matches: 54, Mismatches: 3, Indels: 4
0.89 0.05 0.07
Matches are distributed among these distances:
42 24 0.44
43 13 0.24
44 1 0.02
46 16 0.30
ACGTcount: A:0.20, C:0.07, G:0.14, T:0.59
Consensus pattern (45 bp):
TTTGTTGTTTTAAATAGATTTTTTTGCTTCTTTGAATCAATTATG
Found at i:21389655 original size:24 final size:24
Alignment explanation
Indices: 21389628--21389684 Score: 87
Period size: 24 Copynumber: 2.4 Consensus size: 24
21389618 TGCTTCTTTG
* *
21389628 AATCAATTCATGATTGTTGTTTTA
1 AATCGATTCATGATTGTTATTTTA
*
21389652 AATCGATCCATGATTGTTATTTTA
1 AATCGATTCATGATTGTTATTTTA
21389676 AATCGATTC
1 AATCGATTC
21389685 TTTGCTTCTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.30, C:0.12, G:0.12, T:0.46
Consensus pattern (24 bp):
AATCGATTCATGATTGTTATTTTA
Found at i:21389698 original size:21 final size:20
Alignment explanation
Indices: 21389671--21389751 Score: 74
Period size: 22 Copynumber: 3.9 Consensus size: 20
21389661 ATGATTGTTA
21389671 TTTTAAATCGATTCTTTGCT
1 TTTTAAATCGATTCTTTGCT
*
21389691 TCTTTAAATCGATTTTTTTGCT
1 T-TTTAAATCGA-TTCTTTGCT
* * *
21389713 GTTTTAAATCAATTCATT-AT
1 -TTTTAAATCGATTCTTTGCT
*
21389733 TGTTTGAATCGATTCTTTG
1 T-TTTAAATCGATTCTTTG
21389752 TTGTTTTAAC
Statistics
Matches: 48, Mismatches: 8, Indels: 9
0.74 0.12 0.14
Matches are distributed among these distances:
19 1 0.02
20 15 0.31
21 14 0.29
22 17 0.35
23 1 0.02
ACGTcount: A:0.22, C:0.12, G:0.11, T:0.54
Consensus pattern (20 bp):
TTTTAAATCGATTCTTTGCT
Found at i:21389716 original size:67 final size:69
Alignment explanation
Indices: 21389595--21389736 Score: 162
Period size: 67 Copynumber: 2.1 Consensus size: 69
21389585 AATCGATTGT
* * * * * *
21389595 TTGTTGTTTTAAATTGATTTTTTTGCTTCTTTGAATCAATTCATGATTGTTGTTTTAAATCGATC
1 TTGTTATTTTAAATCGATTTCTTTGCTTCTTTAAATCAATT-ATGATTGCTGTTTTAAATCAATC
21389660 CATGA
65 CATGA
* ** *
21389665 TTGTTATTTTAAATCGA-TTCTTTGCTTCTTTAAATCGATT-TTTTTGCTGTTTTAAATCAATTC
1 TTGTTATTTTAAATCGATTTCTTTGCTTCTTTAAATCAATTATGATTGCTGTTTTAAATCAATCC
*
21389728 ATTA
66 ATGA
21389732 TTGTT
1 TTGTT
21389737 TGAATCGATT
Statistics
Matches: 61, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
67 26 0.43
69 20 0.33
70 15 0.25
ACGTcount: A:0.23, C:0.11, G:0.12, T:0.55
Consensus pattern (69 bp):
TTGTTATTTTAAATCGATTTCTTTGCTTCTTTAAATCAATTATGATTGCTGTTTTAAATCAATCC
ATGA
Found at i:21389747 original size:20 final size:20
Alignment explanation
Indices: 21389719--21389767 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
21389709 TGCTGTTTTA
21389719 AATCAATTCATTATTGTTTG
1 AATCAATTCATTATTGTTTG
* * * *
21389739 AATCGATTCTTTGTTGTTTT
1 AATCAATTCATTATTGTTTG
21389759 AACTCAATT
1 AA-TCAATT
21389768 TGTACTTAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
20 18 0.78
21 5 0.22
ACGTcount: A:0.27, C:0.12, G:0.10, T:0.51
Consensus pattern (20 bp):
AATCAATTCATTATTGTTTG
Found at i:21392679 original size:17 final size:17
Alignment explanation
Indices: 21392657--21392696 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
21392647 CGTGTAATCA
21392657 CACACGCCCATGTACCC
1 CACACGCCCATGTACCC
*
21392674 CACACGCCCATGTGCCC
1 CACACGCCCATGTACCC
21392691 CACACG
1 CACACG
21392697 GGCGACTGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.23, C:0.53, G:0.15, T:0.10
Consensus pattern (17 bp):
CACACGCCCATGTACCC
Found at i:21399025 original size:33 final size:34
Alignment explanation
Indices: 21398988--21399054 Score: 109
Period size: 35 Copynumber: 2.0 Consensus size: 34
21398978 ATGCAAATTA
*
21398988 AAATGTTTA-TCAGTTATGATAATCATTAACTTT
1 AAATGTTTAGTAAGTTATGATAATCATTAACTTT
21399021 AAATGTTTATGTAAGTTATGATAATCATTAACTT
1 AAATGTTTA-GTAAGTTATGATAATCATTAACTT
21399055 ATATTCTTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 9 0.29
35 22 0.71
ACGTcount: A:0.37, C:0.07, G:0.10, T:0.45
Consensus pattern (34 bp):
AAATGTTTAGTAAGTTATGATAATCATTAACTTT
Found at i:21399739 original size:25 final size:25
Alignment explanation
Indices: 21399691--21399739 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
21399681 AATGTTTGAT
* **
21399691 AAATTTAAATATCAAATTTGAAAAA
1 AAATTTAAATAACAAATTAAAAAAA
*
21399716 AAATTTAAGTAACAAATTAAAAAA
1 AAATTTAAATAACAAATTAAAAAA
21399740 TATAAAATTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.29
Consensus pattern (25 bp):
AAATTTAAATAACAAATTAAAAAAA
Found at i:21401939 original size:583 final size:583
Alignment explanation
Indices: 21400833--21402004 Score: 2344
Period size: 583 Copynumber: 2.0 Consensus size: 583
21400823 ATGATCTTAT
21400833 AAGAACTAATTTTTTTACTAGTGAAAATATATTTAAGATTTACACATGTAAGGAACCTGAATAAG
1 AAGAACTAATTTTTTTACTAGTGAAAATATATTTAAGATTTACACATGTAAGGAACCTGAATAAG
21400898 AATTCTTATGAAAATATAAGCAAATGAAAGCTTGAAAAATTCCCAGCTATTATAGGAATCTGCCC
66 AATTCTTATGAAAATATAAGCAAATGAAAGCTTGAAAAATTCCCAGCTATTATAGGAATCTGCCC
21400963 TCCGAAATCATTGTTATATAATATCAACTGTTATAAGAAATGATATTATACTTGTTATGTTGTTA
131 TCCGAAATCATTGTTATATAATATCAACTGTTATAAGAAATGATATTATACTTGTTATGTTGTTA
21401028 TTAGAAAGATTTATGATCTAGAGAGTAGTCAAATTGTTAATAGCCGAAAGACTTTCACCTAAAGT
196 TTAGAAAGATTTATGATCTAGAGAGTAGTCAAATTGTTAATAGCCGAAAGACTTTCACCTAAAGT
21401093 ATATAATCAAATTTGTCAAAATAGCTTGATGATAGAACCCATGCACTTTGTTTTTTCTGTAAATA
261 ATATAATCAAATTTGTCAAAATAGCTTGATGATAGAACCCATGCACTTTGTTTTTTCTGTAAATA
21401158 GAGAGAAAAGTCATGAACTCTGTTCCTCTTATATTGAACTAATAGCTGAGAATAGTTTTAGATTG
326 GAGAGAAAAGTCATGAACTCTGTTCCTCTTATATTGAACTAATAGCTGAGAATAGTTTTAGATTG
21401223 TTTTCTCACAAATACTGACTTATATTTTTGACTTATCTTTTCATTGTGTTTATTGTTATCACCTT
391 TTTTCTCACAAATACTGACTTATATTTTTGACTTATCTTTTCATTGTGTTTATTGTTATCACCTT
21401288 TTTCACTAATACTCATCATCATCATGTTTCTTGTTAAGTCAAACAAACAATGGTGACCATCAATA
456 TTTCACTAATACTCATCATCATCATGTTTCTTGTTAAGTCAAACAAACAATGGTGACCATCAATA
21401353 TATCACCCAAAATCTCAAAATCATTTAACACAAAGAAAATCATTACTTCGATTAATTCAAGCC
521 TATCACCCAAAATCTCAAAATCATTTAACACAAAGAAAATCATTACTTCGATTAATTCAAGCC
21401416 AAGAACTAATTTTTTTACTAGTGAAAATATATTTAAGATTTACACATGTAAGGAACCTGAATAAG
1 AAGAACTAATTTTTTTACTAGTGAAAATATATTTAAGATTTACACATGTAAGGAACCTGAATAAG
21401481 AATTCTTATGAAAATATAAGCAAATGAAAGCTTGAAAAATTCCCAGCTATTATAGGAATCTGCCC
66 AATTCTTATGAAAATATAAGCAAATGAAAGCTTGAAAAATTCCCAGCTATTATAGGAATCTGCCC
21401546 TCCGAAATCATTGTTATATAATATCAACTGTTATAAGAAATGATATTATACTTGTTATGTTGTTA
131 TCCGAAATCATTGTTATATAATATCAACTGTTATAAGAAATGATATTATACTTGTTATGTTGTTA
21401611 TTAGAAAGATTTATGATCTAGAGAGTAGTCAAATTGTTAATAGCCGAAAGACTTTCACCTAAAGT
196 TTAGAAAGATTTATGATCTAGAGAGTAGTCAAATTGTTAATAGCCGAAAGACTTTCACCTAAAGT
21401676 ATATAATCAAATTTGTCAAAATAGCTTGATGATAGAACCCATGCACTTTGTTTTTTCTGTAAATA
261 ATATAATCAAATTTGTCAAAATAGCTTGATGATAGAACCCATGCACTTTGTTTTTTCTGTAAATA
21401741 GAGAGAAAAGTCATGAACTCTGTTCCTCTTATATTGAACTAATAGCTGAGAATAGTTTTAGATTG
326 GAGAGAAAAGTCATGAACTCTGTTCCTCTTATATTGAACTAATAGCTGAGAATAGTTTTAGATTG
21401806 TTTTCTCACAAATACTGACTTATATTTTTGACTTATCTTTTCATTGTGTTTATTGTTATCACCTT
391 TTTTCTCACAAATACTGACTTATATTTTTGACTTATCTTTTCATTGTGTTTATTGTTATCACCTT
21401871 TTTCACTAATACTCATCATCATCATGTTTCTTGTTAAGTCAAACAAACAATGGTGACCATCAATA
456 TTTCACTAATACTCATCATCATCATGTTTCTTGTTAAGTCAAACAAACAATGGTGACCATCAATA
21401936 TATCACCCAAAATCTCAAAATCATTTAACACAAAGAAAATCATTACTTCGATTAATTCAAGCC
521 TATCACCCAAAATCTCAAAATCATTTAACACAAAGAAAATCATTACTTCGATTAATTCAAGCC
21401999 AAGAAC
1 AAGAAC
21402005 AAACAACAAA
Statistics
Matches: 589, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
583 589 1.00
ACGTcount: A:0.37, C:0.15, G:0.13, T:0.36
Consensus pattern (583 bp):
AAGAACTAATTTTTTTACTAGTGAAAATATATTTAAGATTTACACATGTAAGGAACCTGAATAAG
AATTCTTATGAAAATATAAGCAAATGAAAGCTTGAAAAATTCCCAGCTATTATAGGAATCTGCCC
TCCGAAATCATTGTTATATAATATCAACTGTTATAAGAAATGATATTATACTTGTTATGTTGTTA
TTAGAAAGATTTATGATCTAGAGAGTAGTCAAATTGTTAATAGCCGAAAGACTTTCACCTAAAGT
ATATAATCAAATTTGTCAAAATAGCTTGATGATAGAACCCATGCACTTTGTTTTTTCTGTAAATA
GAGAGAAAAGTCATGAACTCTGTTCCTCTTATATTGAACTAATAGCTGAGAATAGTTTTAGATTG
TTTTCTCACAAATACTGACTTATATTTTTGACTTATCTTTTCATTGTGTTTATTGTTATCACCTT
TTTCACTAATACTCATCATCATCATGTTTCTTGTTAAGTCAAACAAACAATGGTGACCATCAATA
TATCACCCAAAATCTCAAAATCATTTAACACAAAGAAAATCATTACTTCGATTAATTCAAGCC
Found at i:21402095 original size:13 final size:13
Alignment explanation
Indices: 21402074--21402104 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
21402064 TATTTTAATT
*
21402074 ATTTTCTAATAAA
1 ATTTCCTAATAAA
21402087 ATTTCCTAATAAA
1 ATTTCCTAATAAA
21402100 ATTTC
1 ATTTC
21402105 AGCCTTCCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.42, C:0.13, G:0.00, T:0.45
Consensus pattern (13 bp):
ATTTCCTAATAAA
Found at i:21402849 original size:77 final size:77
Alignment explanation
Indices: 21402756--21402934 Score: 247
Period size: 77 Copynumber: 2.3 Consensus size: 77
21402746 AGGGATTTCG
* * *
21402756 AGGGGGAATTGATTTGGGAAAAAAAATTGGGGAAAAAAG-AAAGGGGTCTGGG-AAAGAAACTTA
1 AGGGGGAACTGATTTGGGAAAAAAAATTGGGGAAAAAAGAAAAGGGTTC-GGGAAAAAAAACTTA
21402819 GGGATTTTGG-GAAA
65 GGGA-TTTGGAG-AA
* *
21402833 AGGGGGAGCTGATTTGGGGAAAAAAATTGGGGAAAAAAGAAAAGGGTTCGGGAAAAAAAACTTAG
1 AGGGGGAACTGATTTGGGAAAAAAAATTGGGGAAAAAAGAAAAGGGTTCGGGAAAAAAAACTTAG
*
21402898 GGATTTGGAGAG
66 GGATTTGGAGAA
21402910 AGGGGGAACTGATTTGGTGAAAAAA
1 AGGGGGAACTGATTTGG-GAAAAAA
21402935 TTTTGGGGTT
Statistics
Matches: 90, Mismatches: 8, Indels: 7
0.86 0.08 0.07
Matches are distributed among these distances:
77 61 0.68
78 29 0.32
ACGTcount: A:0.41, C:0.03, G:0.37, T:0.18
Consensus pattern (77 bp):
AGGGGGAACTGATTTGGGAAAAAAAATTGGGGAAAAAAGAAAAGGGTTCGGGAAAAAAAACTTAG
GGATTTGGAGAA
Found at i:21402870 original size:12 final size:13
Alignment explanation
Indices: 21402846--21402870 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
21402836 GGGAGCTGAT
21402846 TTGGGGAAAAAAA
1 TTGGGGAAAAAAA
21402859 TTGGGGAAAAAA
1 TTGGGGAAAAAA
21402871 GAAAAGGGTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.00, G:0.32, T:0.16
Consensus pattern (13 bp):
TTGGGGAAAAAAA
Found at i:21405988 original size:24 final size:24
Alignment explanation
Indices: 21405960--21406011 Score: 104
Period size: 24 Copynumber: 2.2 Consensus size: 24
21405950 CTATGAAAAG
21405960 AAAGCATGAACACGATGAACATGT
1 AAAGCATGAACACGATGAACATGT
21405984 AAAGCATGAACACGATGAACATGT
1 AAAGCATGAACACGATGAACATGT
21406008 AAAG
1 AAAG
21406012 AAAGCATGAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.48, C:0.15, G:0.21, T:0.15
Consensus pattern (24 bp):
AAAGCATGAACACGATGAACATGT
Found at i:21406999 original size:102 final size:99
Alignment explanation
Indices: 21406811--21407007 Score: 286
Period size: 102 Copynumber: 2.0 Consensus size: 99
21406801 GAATTTAAAA
** * *
21406811 CAAATGATCCCACCGGATTAAACAACTTTATTGTGGTATCAATGCGTGGTATCTACAAAAATTTG
1 CAAATGATCCCACCACATTAAACAACTTTATTGTGGTATCAACGCGTGCTATCTACAAAAATTTG
* * *
21406876 AAAAAGAATACCCTTACTCCTATCGCACTTAAGG
66 AAAAACAAAACCCTTAATCCTATCGCACTTAAGG
21406910 CAAATGATCCCACCACATTAAACAACAGCTTTATTGTGGTATCAACGCGTGCTATCTACAAAAAT
1 CAAATGATCCCACCACATTAAAC-A-A-CTTTATTGTGGTATCAACGCGTGCTATCTACAAAAAT
* *
21406975 TTGAAAAACAAAACGCTTAATCCTATGGCACTT
63 TTGAAAAACAAAACCCTTAATCCTATCGCACTT
21407008 GAGGGTGAGA
Statistics
Matches: 86, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
99 21 0.24
100 1 0.01
101 1 0.01
102 63 0.73
ACGTcount: A:0.37, C:0.22, G:0.14, T:0.27
Consensus pattern (99 bp):
CAAATGATCCCACCACATTAAACAACTTTATTGTGGTATCAACGCGTGCTATCTACAAAAATTTG
AAAAACAAAACCCTTAATCCTATCGCACTTAAGG
Found at i:21407130 original size:14 final size:14
Alignment explanation
Indices: 21407092--21407154 Score: 56
Period size: 14 Copynumber: 4.4 Consensus size: 14
21407082 TGTATTTTCG
21407092 TTATTAAATTTTTATT
1 TTATTAAA-TTTTA-T
*
21407108 TTTTTAAATTTTAT
1 TTATTAAATTTTAT
*
21407122 TTATTAAATTATAT
1 TTATTAAATTTTAT
* *
21407136 TAAATTAAATATT-T
1 T-TATTAAATTTTAT
21407150 TTATT
1 TTATT
21407155 TTTAATGTTA
Statistics
Matches: 39, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
13 3 0.08
14 16 0.41
15 13 0.33
16 7 0.18
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (14 bp):
TTATTAAATTTTAT
Found at i:21407175 original size:46 final size:46
Alignment explanation
Indices: 21407122--21407212 Score: 182
Period size: 46 Copynumber: 2.0 Consensus size: 46
21407112 TAAATTTTAT
21407122 TTATTAAATTATATTAAATTAAATATTTTTATTTTTAATGTTAAAC
1 TTATTAAATTATATTAAATTAAATATTTTTATTTTTAATGTTAAAC
21407168 TTATTAAATTATATTAAATTAAATATTTTTATTTTTAATGTTAAA
1 TTATTAAATTATATTAAATTAAATATTTTTATTTTTAATGTTAAA
21407213 AACTTTTTGA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.42, C:0.01, G:0.02, T:0.55
Consensus pattern (46 bp):
TTATTAAATTATATTAAATTAAATATTTTTATTTTTAATGTTAAAC
Found at i:21409966 original size:25 final size:24
Alignment explanation
Indices: 21409933--21409980 Score: 78
Period size: 25 Copynumber: 2.0 Consensus size: 24
21409923 CGGGAGATTT
21409933 TTATTTTATTTAATATTAATATAA
1 TTATTTTATTTAATATTAATATAA
*
21409957 TTATATTTATTTAGTATTAATATA
1 TTAT-TTTATTTAATATTAATATA
21409981 GAATTTAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 4 0.18
25 18 0.82
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (24 bp):
TTATTTTATTTAATATTAATATAA
Found at i:21410028 original size:20 final size:21
Alignment explanation
Indices: 21409989--21410029 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
21409979 TAGAATTTAA
21409989 ATTTATTATTATTTTGAAAAT
1 ATTTATTATTATTTTGAAAAT
21410010 ATTTATGTATT-TTTT-AAAAT
1 ATTTAT-TATTATTTTGAAAAT
21410030 TAGGATCAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 5 0.26
21 10 0.53
22 4 0.21
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.59
Consensus pattern (21 bp):
ATTTATTATTATTTTGAAAAT
Found at i:21412478 original size:40 final size:40
Alignment explanation
Indices: 21412418--21412501 Score: 159
Period size: 40 Copynumber: 2.1 Consensus size: 40
21412408 ATGAGCATTG
*
21412418 GATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTT
1 GATAAATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTT
21412458 GATAAATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTT
1 GATAAATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTT
21412498 GATA
1 GATA
21412502 TATNNNNNNN
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (40 bp):
GATAAATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTT
Found at i:21427215 original size:33 final size:33
Alignment explanation
Indices: 21427173--21427243 Score: 133
Period size: 33 Copynumber: 2.2 Consensus size: 33
21427163 ATAAATGATG
*
21427173 CTTGGTTGAATTTGATTGAATGCTTATTTATGC
1 CTTGTTTGAATTTGATTGAATGCTTATTTATGC
21427206 CTTGTTTGAATTTGATTGAATGCTTATTTATGC
1 CTTGTTTGAATTTGATTGAATGCTTATTTATGC
21427239 CTTGT
1 CTTGT
21427244 ATTGGTACCA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.20, C:0.10, G:0.20, T:0.51
Consensus pattern (33 bp):
CTTGTTTGAATTTGATTGAATGCTTATTTATGC
Found at i:21427390 original size:43 final size:43
Alignment explanation
Indices: 21427342--21427434 Score: 168
Period size: 43 Copynumber: 2.2 Consensus size: 43
21427332 AGACACAGGG
*
21427342 GTGTGTCTTAGCCGTGTGTGACACACGGTTATGTTACACGGCT
1 GTGTGTCTTAGCCGTATGTGACACACGGTTATGTTACACGGCT
*
21427385 GTGTGTCTTAGCCGTATGTGACACACGGTTATGTTACACTGCT
1 GTGTGTCTTAGCCGTATGTGACACACGGTTATGTTACACGGCT
21427428 GTGTGTC
1 GTGTGTC
21427435 CCTTAGTGTT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 48 1.00
ACGTcount: A:0.16, C:0.20, G:0.29, T:0.34
Consensus pattern (43 bp):
GTGTGTCTTAGCCGTATGTGACACACGGTTATGTTACACGGCT
Found at i:21436909 original size:48 final size:48
Alignment explanation
Indices: 21436856--21437007 Score: 216
Period size: 48 Copynumber: 3.2 Consensus size: 48
21436846 TCTTCTGGCA
* *
21436856 CGAGATTCATCGAGTTAGCTTCTGGCCATGATATTGGCACTTCGGGTG
1 CGAGATTCATCGAGTTGGCTTCTGGCCATGATATTGGCACTTAGGGTG
* * * *
21436904 TGAGATTCATCGAGTTGGCTTCAGGCCATGATATTGGCACTTTGGGTA
1 CGAGATTCATCGAGTTGGCTTCTGGCCATGATATTGGCACTTAGGGTG
*
21436952 CGAGATTCATTGAGTTGGCTT-TGGGCCATGATATTGGCACTTAGGGTG
1 CGAGATTCATCGAGTTGGCTTCT-GGCCATGATATTGGCACTTAGGGTG
*
21437000 CAAGATTC
1 CGAGATTC
21437008 CTGAGCATCC
Statistics
Matches: 92, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
48 92 1.00
ACGTcount: A:0.20, C:0.18, G:0.30, T:0.32
Consensus pattern (48 bp):
CGAGATTCATCGAGTTGGCTTCTGGCCATGATATTGGCACTTAGGGTG
Found at i:21440167 original size:64 final size:62
Alignment explanation
Indices: 21440081--21440208 Score: 181
Period size: 64 Copynumber: 2.0 Consensus size: 62
21440071 GTTCGAATAT
*
21440081 ATATAGGTTACAAAGTTCTTGAGCTGAA-TTTAATGTATG-AATTTTACTTACATATGTGGTTCG
1 ATATAGGTTACAAAGTTCTTGAGCTGAATTTTAATGT-TGTAA-ATTA--TACATATGTGGTTCG
21440144 A
62 A
21440145 ATATAGGTTACAAA-TTCTTTGAGCTGAATTTTAATGTTGTAAATTATACATATGTGGTTCGA
1 ATATAGGTTACAAAGTTC-TTGAGCTGAATTTTAATGTTGTAAATTATACATATGTGGTTCGA
21440207 AT
1 AT
21440209 GTTTGTTTGC
Statistics
Matches: 60, Mismatches: 1, Indels: 8
0.87 0.01 0.12
Matches are distributed among these distances:
62 18 0.30
63 3 0.05
64 29 0.48
65 10 0.17
ACGTcount: A:0.32, C:0.09, G:0.18, T:0.41
Consensus pattern (62 bp):
ATATAGGTTACAAAGTTCTTGAGCTGAATTTTAATGTTGTAAATTATACATATGTGGTTCGA
Found at i:21440380 original size:41 final size:41
Alignment explanation
Indices: 21440323--21440563 Score: 324
Period size: 41 Copynumber: 5.9 Consensus size: 41
21440313 TATATGAGAT
21440323 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAATTA
1 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAATTA
21440364 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAATTA
1 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAATTA
* * * *
21440405 TTTTAGACTTTATGTCTAGCAGGCTTGATGCCGGTGAATTA
1 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAATTA
21440446 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAATTA
1 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAATTA
* * * * *
21440487 ATTCAGACTTTATGTCTAGCAGGCTTTG-TGCCGGTGAAATGA
1 TTTCAGGCTTAATGCCTAGCAGGC-TTGATGCCGGTG-AATTA
* * ** *
21440529 -ATCGGGCTTTGTGCCTAGCAGGCTTTATGCCGGTG
1 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTG
21440564 TTTTATATAG
Statistics
Matches: 178, Mismatches: 19, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
40 2 0.01
41 169 0.95
42 7 0.04
ACGTcount: A:0.21, C:0.19, G:0.27, T:0.33
Consensus pattern (41 bp):
TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAATTA
Done.