Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold375
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: 465583
ACGTcount: A:0.36, C:0.15, G:0.14, T:0.35
File 3 of 3
Found at i:400007 original size:22 final size:22
Alignment explanation
Indices: 399960--400007 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
399950 ACTTTTTTAT
* *
399960 AAAAATAATTATAAAAATAAAT
1 AAAAATAATTATAAAAAGAAAC
*
399982 AAAAATAATTGA-AAAAAGGAAC
1 AAAAATAATT-ATAAAAAGAAAC
400004 AAAA
1 AAAA
400008 TGATAAATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 21 0.95
23 1 0.05
ACGTcount: A:0.73, C:0.02, G:0.06, T:0.19
Consensus pattern (22 bp):
AAAAATAATTATAAAAAGAAAC
Found at i:402896 original size:20 final size:19
Alignment explanation
Indices: 402873--402926 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 19
402863 TTTTTAGTTA
402873 ATATAATTTAAT-ATATAT
1 ATATAATTTAATAATATAT
** *
402891 ATATATATTTTTTAATATAA
1 ATATA-ATTTAATAATATAT
402911 ATATAATTTTAATAAT
1 ATATAA-TTTAATAAT
402927 TTTTAATTAT
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
18 5 0.18
19 6 0.21
20 17 0.61
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (19 bp):
ATATAATTTAATAATATAT
Found at i:402908 original size:18 final size:17
Alignment explanation
Indices: 402872--402924 Score: 54
Period size: 17 Copynumber: 2.9 Consensus size: 17
402862 TTTTTTAGTT
402872 AATATAA-TTTAATATA
1 AATATAATTTTAATATA
402888 TATATATATATTTTTTAATATA
1 -A-ATATA-A--TTTTAATATA
402910 AATATAATTTTAATA
1 AATATAATTTTAATA
402925 ATTTTTAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
17 9 0.29
18 5 0.16
19 2 0.06
20 5 0.16
21 1 0.03
22 9 0.29
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
AATATAATTTTAATATA
Found at i:402938 original size:38 final size:37
Alignment explanation
Indices: 402853--402961 Score: 100
Period size: 38 Copynumber: 2.9 Consensus size: 37
402843 TTTAATGTAA
*
402853 TTTTAATTATTTTTTAGT-T-AATATAA-TTTAATAT
1 TTTTAATTATTTTTTAATATAAATATAATTTTAATAT
* *
402887 ATATATATATATTTTTTAATATAAATATAATTTTAATAAT
1 TTTTA-AT-TATTTTTTAATATAAATATAATTTTAAT-AT
* * *
402927 TTTTAATTATTTATT-ATATATATACACATTTTAAT
1 TTTTAATTATTTTTTAATATAAATATA-ATTTTAAT
402962 CCAATGTTCT
Statistics
Matches: 60, Mismatches: 8, Indels: 10
0.77 0.10 0.13
Matches are distributed among these distances:
34 3 0.05
35 2 0.03
36 10 0.17
37 10 0.17
38 22 0.37
39 8 0.13
40 5 0.08
ACGTcount: A:0.40, C:0.02, G:0.01, T:0.57
Consensus pattern (37 bp):
TTTTAATTATTTTTTAATATAAATATAATTTTAATAT
Found at i:406875 original size:29 final size:28
Alignment explanation
Indices: 406843--407109 Score: 187
Period size: 29 Copynumber: 9.3 Consensus size: 28
406833 CATTAATCAT
* *
406843 TAAACTTTTCAAAATTATACTTTGACTCC
1 TAAACTTTTCAAAATTACACATTGAC-CC
*
406872 TAAACTCTTCAAAATTACACATTGACCC
1 TAAACTTTTCAAAATTACACATTGACCC
* * * *
406900 TTAACATTTCAAAATTCCAGATT-AGCCC
1 TAAACTTTTCAAAATTACACATTGA-CCC
* *
406928 TTAAACTTCTCAAAATTACACTTTGACCC
1 -TAAACTTTTCAAAATTACACATTGACCC
* * *
406957 TTAAACTTTTCACAATTACATATTGATCTC
1 -TAAACTTTTCAAAATTACACATTGA-CCC
*
406987 AAAACTTTTCAAAATTACACATT-ACCCC
1 TAAACTTTTCAAAATTACACATTGA-CCC
* * ****
407015 TAAATTTTTTAAAATTATGGGTTGACCCC
1 TAAACTTTTCAAAATTACACATTGA-CCC
** * * *
407044 TAAACTTTAAAAAATTACGCATTAATCTC
1 TAAACTTTTCAAAATTACACATTGA-CCC
* * *
407073 TAAACTTTTTAAAATTATAGATTGACCCC
1 TAAACTTTTCAAAATTACACATTGA-CCC
*
407102 AAAACTTT
1 TAAACTTT
407110 AAAATGTTTA
Statistics
Matches: 184, Mismatches: 49, Indels: 10
0.76 0.20 0.04
Matches are distributed among these distances:
27 1 0.01
28 42 0.23
29 138 0.75
30 3 0.02
ACGTcount: A:0.37, C:0.22, G:0.05, T:0.36
Consensus pattern (28 bp):
TAAACTTTTCAAAATTACACATTGACCC
Found at i:407029 original size:86 final size:86
Alignment explanation
Indices: 406843--407031 Score: 220
Period size: 86 Copynumber: 2.2 Consensus size: 86
406833 CATTAATCAT
* **
406843 TAAACTTTTCAAAATTATACTTTGACTCCTAAACTCTTCAAAATTACACATTGACCCTTAACATT
1 TAAACTTTTCAAAATTACACTTTGACTCCTAAACTCTTCAAAATTACACATTGACCCAAAACATT
* * *
406908 TCAAAATTCCAGATTAGCCCT
66 TCAAAATTACACATTAGCCCC
* * * * * *
406929 TAAACTTCTCAAAATTACACTTTGAC-CCTTAAACTTTTCACAATTACATATTGATCTCAAAACT
1 TAAACTTTTCAAAATTACACTTTGACTCC-TAAACTCTTCAAAATTACACATTGA-CCCAAAACA
406993 TTTCAAAATTACACATTA-CCCC
64 TTTCAAAATTACACATTAGCCCC
* *
407015 TAAATTTTTTAAAATTA
1 TAAACTTTTCAAAATTA
407032 TGGGTTGACC
Statistics
Matches: 86, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
85 2 0.02
86 63 0.73
87 21 0.24
ACGTcount: A:0.38, C:0.23, G:0.03, T:0.37
Consensus pattern (86 bp):
TAAACTTTTCAAAATTACACTTTGACTCCTAAACTCTTCAAAATTACACATTGACCCAAAACATT
TCAAAATTACACATTAGCCCC
Found at i:407098 original size:58 final size:57
Alignment explanation
Indices: 406843--407113 Score: 181
Period size: 57 Copynumber: 4.7 Consensus size: 57
406833 CATTAATCAT
* ** * * *
406843 TAAACTTTTCAAAATTATACTTTGACTCCTAAACTCTT-CAAAATTACACATTGA-CCC
1 TAAACTTTTTAAAATTATAGATTGACCCCAAAACT-TTAAAAAATTACACATT-ACCCC
* * * ** ** * * *
406900 TTAACATTTCAAAATTCCAGATT-AGCCCTTAAACTTCT-CAAAATTACACTTTGACCCT
1 TAAACTTTTTAAAATTATAGATTGA-CCCCAAAACTT-TAAAAAATTACACATT-ACCCC
* * * * * * **
406958 TAAACTTTTCACAATTACATATTGATCTCAAAACTTTTCAAAATTACACATTACCCC
1 TAAACTTTTTAAAATTATAGATTGACCCCAAAACTTTAAAAAATTACACATTACCCC
* * * * * * *
407015 TAAATTTTTTAAAATTATGGGTTGACCCCTAAACTTTAAAAAATTACGCATTAATCTC
1 TAAACTTTTTAAAATTATAGATTGACCCCAAAACTTTAAAAAATTACACATT-ACCCC
407073 TAAACTTTTTAAAATTATAGATTGACCCCAAAACTTTAAAA
1 TAAACTTTTTAAAATTATAGATTGACCCCAAAACTTTAAAA
407114 TGTTTAAAAT
Statistics
Matches: 168, Mismatches: 40, Indels: 11
0.77 0.18 0.05
Matches are distributed among these distances:
56 2 0.01
57 85 0.51
58 80 0.48
59 1 0.01
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.35
Consensus pattern (57 bp):
TAAACTTTTTAAAATTATAGATTGACCCCAAAACTTTAAAAAATTACACATTACCCC
Found at i:408556 original size:5 final size:5
Alignment explanation
Indices: 408543--408578 Score: 54
Period size: 5 Copynumber: 7.2 Consensus size: 5
408533 CTAAATATCG
* *
408543 AATAA AATAG AATAA AATAA AATAA AATAA AGTAA A
1 AATAA AATAA AATAA AATAA AATAA AATAA AATAA A
408579 TTTAAAATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.75, C:0.00, G:0.06, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:408586 original size:16 final size:17
Alignment explanation
Indices: 408565--408606 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
408555 TAAAATAAAA
*
408565 TAAAATAAAG-TAAATT
1 TAAAATAAAGAAAAATT
*
408581 TAAAATTAAGAAAAATT
1 TAAAATAAAGAAAAATT
*
408598 AAAAATAAA
1 TAAAATAAA
408607 ATCAATTCTC
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 9 0.43
17 12 0.57
ACGTcount: A:0.69, C:0.00, G:0.05, T:0.26
Consensus pattern (17 bp):
TAAAATAAAGAAAAATT
Found at i:409051 original size:164 final size:164
Alignment explanation
Indices: 408744--409056 Score: 389
Period size: 164 Copynumber: 1.9 Consensus size: 164
408734 TGAAATAATT
* * * **
408744 TAAATTTTTTAAAACCGATTTAATGTGAATTTAATGACAATATTAGATGAATTTTAAAAATTTTA
1 TAAATTTTTTAAAACCGATTTAATATGAATTAAATAACAATATTAGATGAATTTTAAAAATTAAA
** ** * * *
408809 AACCAAGAAAAATCCCTCCGAAAACATATGGAGTAGAAAACTCAATTTTTCAGAAATAGGGAGAT
66 AACCAAGAAAAATCCCTCCGAAAACATACAGAACAGAAAACTCAATTATTCAGAAATAAGGAAAT
408874 TTTAAAGAAAAAATGAAAAACTTATGAAAATAAA
131 TTTAAAGAAAAAATGAAAAACTTATGAAAATAAA
*** * **
408908 TAAATTTTTTAAAATTTATTTAATATGAATTAAATAATAATATTTTATGAATTTTAAAAATTAAA
1 TAAATTTTTTAAAACCGATTTAATATGAATTAAATAACAATATTAGATGAATTTTAAAAATTAAA
**
408973 AACCAAGAAAAATCCC-CCGAAAACATTTACAGAACAGAAAACTCTGTTATTC-GAAAATAAGGA
66 AACCAAGAAAAATCCCTCCGAAAACA--TACAGAACAGAAAACTCAATTATTCAG-AAATAAGGA
*
409036 AATTTT-AATAAAAAATGAAAA
128 AATTTTAAAGAAAAAATGAAAA
409057 TGAATGAATT
Statistics
Matches: 125, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
163 9 0.07
164 85 0.68
165 31 0.25
ACGTcount: A:0.50, C:0.09, G:0.10, T:0.31
Consensus pattern (164 bp):
TAAATTTTTTAAAACCGATTTAATATGAATTAAATAACAATATTAGATGAATTTTAAAAATTAAA
AACCAAGAAAAATCCCTCCGAAAACATACAGAACAGAAAACTCAATTATTCAGAAATAAGGAAAT
TTTAAAGAAAAAATGAAAAACTTATGAAAATAAA
Found at i:409229 original size:152 final size:151
Alignment explanation
Indices: 408925--409208 Score: 338
Period size: 152 Copynumber: 1.9 Consensus size: 151
408915 TTTAAAATTT
408925 ATTTAATATGAATTAAATAATAATATTTTATGAATTTTAAAAATTAAAAACCAAGAAAAATCCCC
1 ATTTAATATGAATTAAATAATAATATTTTATGAATTTTAAAAATTAAAAACCAAGAAAAATCCCC
* * * * * *
408990 CGAAAACATTTACAGAACAGAAAACTCTGTTATTCGAAAATAAGGAAATTTTAATAAAAAATGAA
66 CAAAAACATTTACAGAACAGAAAACACCGTTATTCGAAAACAAGGAAATTTCAAAAAAAAATGAA
***
409055 AATGAATGAATTTTTGAAAATA
131 AATGAATGAATAAATG-AAATA
** * *
409077 ATTTAATATGAATTAAATAATAATATTTTATGAATTTTAAAAATTATGAACTAAGGAAAATCCTC
1 ATTTAATATGAATTAAATAATAATATTTTATGAATTTTAAAAATTAAAAACCAAGAAAAATCC-C
* * ** *
409142 CCAAAAATATTTACGGAGTAGAAAACACCGTTTTTC-AAAAGCAA-GAGAATTTCAAGGAAAAAA
65 CCAAAAACATTTACAGAACAGAAAACACCGTTATTCGAAAA-CAAGGA-AATTTCAA--AAAAAA
409205 ATGA
126 ATGA
409209 GAAACTTATA
Statistics
Matches: 112, Mismatches: 15, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
152 65 0.58
153 38 0.34
155 9 0.08
ACGTcount: A:0.50, C:0.09, G:0.11, T:0.30
Consensus pattern (151 bp):
ATTTAATATGAATTAAATAATAATATTTTATGAATTTTAAAAATTAAAAACCAAGAAAAATCCCC
CAAAAACATTTACAGAACAGAAAACACCGTTATTCGAAAACAAGGAAATTTCAAAAAAAAATGAA
AATGAATGAATAAATGAAATA
Found at i:410954 original size:21 final size:19
Alignment explanation
Indices: 410918--410956 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 19
410908 TATTATTAAT
*
410918 ATTTTTTATTTTTAATAAG
1 ATTTTTTATTTATAATAAG
410937 ATTTATTTAATTTATAATAA
1 ATTT-TTT-ATTTATAATAA
410957 AAATTTTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 3 0.18
21 10 0.59
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (19 bp):
ATTTTTTATTTATAATAAG
Found at i:412449 original size:38 final size:38
Alignment explanation
Indices: 412407--412494 Score: 167
Period size: 38 Copynumber: 2.3 Consensus size: 38
412397 GCATAAAAAG
412407 AATGTTATTTTTATGGTTGGTTCAACAAGGGAAATTGC
1 AATGTTATTTTTATGGTTGGTTCAACAAGGGAAATTGC
412445 AATGTTATTTTTATGGTTGGTTCAACAAGGGAAATTGC
1 AATGTTATTTTTATGGTTGGTTCAACAAGGGAAATTGC
*
412483 AATCTTATTTTT
1 AATGTTATTTTT
412495 TCACACAAAT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 49 1.00
ACGTcount: A:0.28, C:0.08, G:0.20, T:0.43
Consensus pattern (38 bp):
AATGTTATTTTTATGGTTGGTTCAACAAGGGAAATTGC
Found at i:418060 original size:15 final size:16
Alignment explanation
Indices: 418042--418074 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
418032 ATTTTATATT
*
418042 TTTTCTTT-TTTTTTC
1 TTTTCTTTCTTTCTTC
418057 TTTTCTTTCTTTCTTC
1 TTTTCTTTCTTTCTTC
418073 TT
1 TT
418075 CATCTTCCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (16 bp):
TTTTCTTTCTTTCTTC
Found at i:419376 original size:32 final size:31
Alignment explanation
Indices: 419330--420054 Score: 472
Period size: 32 Copynumber: 24.0 Consensus size: 31
419320 TGGTGATTTG
* *
419330 AAAATGGTTGCCACTGACTTGCGTGGGCTTTT
1 AAAAAGGTTGCCACTGACTTGTGTGGGC-TTT
** *
419362 AAAAAGGTTGCCACTGA-AAGTGTGGACTTTT
1 AAAAAGGTTGCCACTGACTTGTGTGGGC-TTT
* * * *
419393 GAAAGAGGTTCCCATTAACTTGTGTGGGCTTT
1 -AAAAAGGTTGCCACTGACTTGTGTGGGCTTT
* * *
419425 GAAAAGGGTTGCCACCGACTCGTGTGGGCTTT
1 -AAAAAGGTTGCCACTGACTTGTGTGGGCTTT
* * * **
419457 GAAATGAGTTTCCACCAAC-T-TGTGGGCTTT
1 AAAAAG-GTTGCCACTGACTTGTGTGGGCTTT
* * * **
419487 -GAAATGATGCCACAAAC-T-TGTGGGCTTT
1 AAAAAGGTTGCCACTGACTTGTGTGGGCTTT
* *
419515 -GAAAGGATGCCACTGAC-T-TGTGGGCTTT
1 AAAAAGGTTGCCACTGACTTGTGTGGGCTTT
419543 AAAAAGG-TGCCACTGAC-T-TGTGGGCTTT
1 AAAAAGGTTGCCACTGACTTGTGTGGGCTTT
* * *
419571 -GAAAGGATGCCATTGAC-T-TGTGGGCTTT
1 AAAAAGGTTGCCACTGACTTGTGTGGGCTTT
* **
419599 GAAAAGAATGCCACTGAC-T-TGTGGGCTTT
1 AAAAAGGTTGCCACTGACTTGTGTGGGCTTT
* * * *
419628 GAAAA-GATGCCACTAAC-T-TGCGGGCTTT
1 AAAAAGGTTGCCACTGACTTGTGTGGGCTTT
** *
419656 GAAATGGGTTGCCACCGACTTGTGTGGGCTTT
1 -AAAAAGGTTGCCACTGACTTGTGTGGGCTTT
** **
419688 GAAATGGGTTGCCACCAACTTGTGTGGGCTTT
1 -AAAAAGGTTGCCACTGACTTGTGTGGGCTTT
** **
419720 GAAATGGGTTGCCACCAACTTGTGTGGGCTTT
1 -AAAAAGGTTGCCACTGACTTGTGTGGGCTTT
** **
419752 GAAATGGGTTGCCACCAACTTGTGTGGGCTTT
1 -AAAAAGGTTGCCACTGACTTGTGTGGGCTTT
*
419784 -AAAAGGGTGCCACTGAC-T-TGTGGGCTTT
1 AAAAAGGTTGCCACTGACTTGTGTGGGCTTT
* *
419812 -GAAAGGATGCCACTGAC-T-TGTGGGCTTT
1 AAAAAGGTTGCCACTGACTTGTGTGGGCTTT
*
419840 GAAAAGAG-TGCCACTGAC-T-TGTGGGCTTT
1 AAAAAG-GTTGCCACTGACTTGTGTGGGCTTT
*
419869 AAAAA-GATGCCACTGAC-T-TGTGGGCTTT
1 AAAAAGGTTGCCACTGACTTGTGTGGGCTTT
** *
419897 GAAATGGGTTGCCACCGACTTGTGTGGGCTTT
1 -AAAAAGGTTGCCACTGACTTGTGTGGGCTTT
** **
419929 GAAATGGGTTGCCACCAACTTGTGTGGGCTTT
1 -AAAAAGGTTGCCACTGACTTGTGTGGGCTTT
* *
419961 -CAAAGGGTGCCACTGACTTGTGTGGGCTTT
1 AAAAAGGTTGCCACTGACTTGTGTGGGCTTT
* * *
419991 CAAATGAGTTGCCACCGACTTGTGTGGGCTTT
1 AAAAAG-GTTGCCACTGACTTGTGTGGGCTTT
* * *
420023 GAAAAGAGTTACCACCGACTTGTGTGGGCTTT
1 AAAAAG-GTTGCCACTGACTTGTGTGGGCTTT
420055 GAAATGGGTG
Statistics
Matches: 597, Mismatches: 77, Indels: 38
0.84 0.11 0.05
Matches are distributed among these distances:
27 6 0.01
28 163 0.27
29 72 0.12
30 66 0.11
31 19 0.03
32 264 0.44
33 7 0.01
ACGTcount: A:0.22, C:0.18, G:0.30, T:0.30
Consensus pattern (31 bp):
AAAAAGGTTGCCACTGACTTGTGTGGGCTTT
Found at i:419831 original size:241 final size:240
Alignment explanation
Indices: 419418--420058 Score: 960
Period size: 241 Copynumber: 2.7 Consensus size: 240
419408 TAACTTGTGT
* * * *
419418 GGGCTTTGAAAAGGGTTGCCACCGACTCGTGTGGGCTTTGAAATGAGTTTCCACCAAC-T-TGTG
1 GGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCAACTTGTGTG
* * *
419481 GGCTTTGAAAT-GATGCCACAAAC-T-TGTGGGCTTTGAAA--GGATGCCACTGAC-T-TGTGGG
66 GGCTTTGAAATGGGTGCCACAAACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGG
* *
419539 CTTTAAAAAGGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCATTGACTTGTGGGCTTTGAAAA
131 CTTTAAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAA
*
419604 GAATGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTAACTTGC
196 GAATGCCACTGACTTGTGGGCTTTAAAAAGATGCCACTAACTTGC
419649 GGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCAACTTGTGTG
1 GGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCAACTTGTGTG
* *
419714 GGCTTTGAAATGGGTTGCCACCAACTTGTGTGGGCTTTGAAATGGGTTGCCACCAACTTGTGTGG
66 GGCTTTGAAATGGG-TGCCACAAACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGG
419779 GCTTTAAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAA
130 GCTTTAAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAA
* * *
419844 AGAGTGCCACTGACTTGTGGGCTTTAAAAAGATGCCACTGACTTGT
195 AGAATGCCACTGACTTGTGGGCTTTAAAAAGATGCCACTAACTTGC
419890 GGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCAACTTGTGTG
1 GGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCAACTTGTGTG
* ** * *
419955 GGCTTTCAAA-GGGTGCCACTGACTTGTGTGGGCTTTCAAATGAGTTGCCACCGACTTGTGTGGG
66 GGCTTTGAAATGGGTGCCACAAACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGG
* * *
420019 CTTTGAAAAGAGTTACCACCGACTTGTGTGGGCTTTGAAA
131 CTTT-AAAAG-GGTGCCACTGAC-T-TGTGGGCTTTGAAA
420059 TGGGTGTTGC
Statistics
Matches: 372, Mismatches: 24, Indels: 16
0.90 0.06 0.04
Matches are distributed among these distances:
231 54 0.15
232 1 0.00
233 15 0.04
234 1 0.00
235 9 0.02
236 1 0.00
237 14 0.04
239 60 0.16
240 9 0.02
241 193 0.52
242 1 0.00
243 14 0.04
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.29
Consensus pattern (240 bp):
GGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCAACTTGTGTG
GGCTTTGAAATGGGTGCCACAAACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGG
CTTTAAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAA
GAATGCCACTGACTTGTGGGCTTTAAAAAGATGCCACTAACTTGC
Found at i:420055 original size:32 final size:30
Alignment explanation
Indices: 419415--420058 Score: 536
Period size: 32 Copynumber: 21.5 Consensus size: 30
419405 CATTAACTTG
*
419415 TGTGGGCTTTGAAAAGGGTTGCCACCGACT
1 TGTGGGCTTTGAAAAGAGTTGCCACCGACT
* * *
419445 CGTGTGGGCTTTGAAATGAGTTTCCACCAACT
1 --TGTGGGCTTTGAAAAGAGTTGCCACCGACT
* **
419477 TGTGGGCTTTGAAATGA--TGCCACAAACT
1 TGTGGGCTTTGAAAAGAGTTGCCACCGACT
* *
419505 TGTGGGCTTTG-AAAG-GATGCCACTGACT
1 TGTGGGCTTTGAAAAGAGTTGCCACCGACT
* *
419533 TGTGGGCTTT-AAAA-AGGTGCCACTGACT
1 TGTGGGCTTTGAAAAGAGTTGCCACCGACT
* **
419561 TGTGGGCTTTG-AAAG-GATGCCATTGACT
1 TGTGGGCTTTGAAAAGAGTTGCCACCGACT
* *
419589 TGTGGGCTTTGAAAAGA-ATGCCACTGACT
1 TGTGGGCTTTGAAAAGAGTTGCCACCGACT
**
419618 TGTGGGCTTTGAAAAGA--TGCCACTAACT
1 TGTGGGCTTTGAAAAGAGTTGCCACCGACT
* * *
419646 TGCGGGCTTTGAAATGGGTTGCCACCGACTT
1 TGTGGGCTTTGAAAAGAGTTGCCACCGAC-T
* * *
419677 GTGTGGGCTTTGAAATGGGTTGCCACCAACTT
1 -TGTGGGCTTTGAAAAGAGTTGCCACCGAC-T
* * *
419709 GTGTGGGCTTTGAAATGGGTTGCCACCAACTT
1 -TGTGGGCTTTGAAAAGAGTTGCCACCGAC-T
* * *
419741 GTGTGGGCTTTGAAATGGGTTGCCACCAACTT
1 -TGTGGGCTTTGAAAAGAGTTGCCACCGAC-T
* *
419773 GTGTGGGCTTT-AAAAG-GGTGCCACTGACT
1 -TGTGGGCTTTGAAAAGAGTTGCCACCGACT
* *
419802 TGTGGGCTTTG-AAAG-GATGCCACTGACT
1 TGTGGGCTTTGAAAAGAGTTGCCACCGACT
*
419830 TGTGGGCTTTGAAAAGAG-TGCCACTGACT
1 TGTGGGCTTTGAAAAGAGTTGCCACCGACT
* *
419859 TGTGGGCTTT-AAAA-AGATGCCACTGACT
1 TGTGGGCTTTGAAAAGAGTTGCCACCGACT
* *
419887 TGTGGGCTTTGAAATGGGTTGCCACCGACTT
1 TGTGGGCTTTGAAAAGAGTTGCCACCGAC-T
* * *
419918 GTGTGGGCTTTGAAATGGGTTGCCACCAACTT
1 -TGTGGGCTTTGAAAAGAGTTGCCACCGAC-T
* * *
419950 GTGTGGGCTTT-CAAAG-GGTGCCACTGACTT
1 -TGTGGGCTTTGAAAAGAGTTGCCACCGAC-T
* *
419980 GTGTGGGCTTTCAAATGAGTTGCCACCGACTT
1 -TGTGGGCTTTGAAAAGAGTTGCCACCGAC-T
*
420012 GTGTGGGCTTTGAAAAGAGTTACCACCGACTT
1 -TGTGGGCTTTGAAAAGAGTTGCCACCGAC-T
420044 GTGTGGGCTTTGAAA
1 -TGTGGGCTTTGAAA
420059 TGGGTGTTGC
Statistics
Matches: 547, Mismatches: 43, Indels: 44
0.86 0.07 0.07
Matches are distributed among these distances:
27 5 0.01
28 175 0.32
29 61 0.11
30 67 0.12
31 12 0.02
32 227 0.41
ACGTcount: A:0.22, C:0.18, G:0.30, T:0.30
Consensus pattern (30 bp):
TGTGGGCTTTGAAAAGAGTTGCCACCGACT
Found at i:420152 original size:28 final size:28
Alignment explanation
Indices: 420066--420585 Score: 770
Period size: 28 Copynumber: 18.9 Consensus size: 28
420056 AAATGGGTGT
*
420066 TGCCACGGAGTTGTGGAC-TTAAAAGGA
1 TGCCACGGAGTTGTGGACTTTAAAAGGG
*
420093 TGCCACGGAGTTGTGGAC-TTAAAAGGA
1 TGCCACGGAGTTGTGGACTTTAAAAGGG
* *
420120 TGCCACGGAGTTATGGACTTTAACAGGG
1 TGCCACGGAGTTGTGGACTTTAAAAGGG
** * *
420148 TGCCATAGAGTGGTGGAC-TTAAAAGGA
1 TGCCACGGAGTTGTGGACTTTAAAAGGG
*
420175 TGCCACGAAGTTGTGGACTTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTTAAAAGGG
420203 TGCCACGGAGTTGTGGAC-TTAAAAGGG
1 TGCCACGGAGTTGTGGACTTTAAAAGGG
* *
420230 TGCCACGGAGTTGTAGACTTTAAAAGAG
1 TGCCACGGAGTTGTGGACTTTAAAAGGG
420258 TGCCACGGAGTTGTGGAC-TTAAAAGGG
1 TGCCACGGAGTTGTGGACTTTAAAAGGG
*
420285 TGCCACGGAGTTATGGAC-TTAAAAGGG
1 TGCCACGGAGTTGTGGACTTTAAAAGGG
*
420312 TGCCACGGAGTTGTGGACTTTAAAAGAG
1 TGCCACGGAGTTGTGGACTTTAAAAGGG
420340 TGCCACGGAGTTGTGGAC-TTAAAAGGG
1 TGCCACGGAGTTGTGGACTTTAAAAGGG
*
420367 TGCCACGGAGTTATGGACTTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTTAAAAGGG
*
420395 TGCCACGGAGTTGTGGACTTTAAAAGGA
1 TGCCACGGAGTTGTGGACTTTAAAAGGG
420423 TGCCACGGAGTTGTGGAC-TTAAAAGGG
1 TGCCACGGAGTTGTGGACTTTAAAAGGG
* *
420450 TGCCACGGAGTTGTAGACTTTAAAAGAG
1 TGCCACGGAGTTGTGGACTTTAAAAGGG
*
420478 TTCCACGGAGTTGTGGAC-TTAAAAGGG
1 TGCCACGGAGTTGTGGACTTTAAAAGGG
*
420505 TGCCATGGAGTTGTGGACTTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTTAAAAGGG
* * *
420533 TGCCAAGGAGTTGTGGACTTAAAAAGGA
1 TGCCACGGAGTTGTGGACTTTAAAAGGG
*
420561 TGCCATGGAGTTGTGGACTTTAAAA
1 TGCCACGGAGTTGTGGACTTTAAAA
420586 AGAGATGCCA
Statistics
Matches: 447, Mismatches: 39, Indels: 13
0.90 0.08 0.03
Matches are distributed among these distances:
27 216 0.48
28 231 0.52
ACGTcount: A:0.29, C:0.14, G:0.33, T:0.24
Consensus pattern (28 bp):
TGCCACGGAGTTGTGGACTTTAAAAGGG
Found at i:420173 original size:55 final size:55
Alignment explanation
Indices: 420066--420585 Score: 794
Period size: 55 Copynumber: 9.5 Consensus size: 55
420056 AAATGGGTGT
* *
420066 TGCCACGGAGTTGTGGAC-TTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGA
1 TGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGG
* * ** * *
420120 TGCCACGGAGTTATGGACTTTAACAGGGTGCCATAGAGTGGTGGACTTAAAAGGA
1 TGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGG
*
420175 TGCCACGAAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGG
* *
420230 TGCCACGGAGTTGTAGACTTTAAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGG
* *
420285 TGCCACGGAGTTATGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGAG
1 TGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGG
*
420340 TGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTATGGACTTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGG
*
420395 TGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGG
* * *
420450 TGCCACGGAGTTGTAGACTTTAAAAGAGTTCCACGGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGG
* * *
420505 TGCCATGGAGTTGTGGACTTTAAAAGGGTGCCAAGGAGTTGTGGACTTAAAAAGGA
1 TGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTT-AAAAGGG
*
420561 TGCCATGGAGTTGTGGACTTTAAAA
1 TGCCACGGAGTTGTGGACTTTAAAA
420586 AGAGATGCCA
Statistics
Matches: 427, Mismatches: 35, Indels: 6
0.91 0.07 0.01
Matches are distributed among these distances:
54 43 0.10
55 328 0.77
56 56 0.13
ACGTcount: A:0.29, C:0.14, G:0.33, T:0.24
Consensus pattern (55 bp):
TGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGG
Found at i:428006 original size:2 final size:2
Alignment explanation
Indices: 427999--428033 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
427989 GAGATTTTCA
*
427999 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
428034 AATAAAATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:428416 original size:11 final size:12
Alignment explanation
Indices: 428400--428432 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
428390 CCATTTTATA
428400 TTTTTTCTTTT-
1 TTTTTTCTTTTC
428411 TTTTTTCTTTTC
1 TTTTTTCTTTTC
428423 TTTCTTTCTT
1 TTT-TTTCTT
428433 CTTCATCTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 11 0.55
12 3 0.15
13 6 0.30
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (12 bp):
TTTTTTCTTTTC
Found at i:428421 original size:16 final size:16
Alignment explanation
Indices: 428402--428435 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
428392 ATTTTATATT
* *
428402 TTTTCTTTTTTTTTTC
1 TTTTCTTTCTTTCTTC
428418 TTTTCTTTCTTTCTTC
1 TTTTCTTTCTTTCTTC
428434 TT
1 TT
428436 CATCTTCCTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (16 bp):
TTTTCTTTCTTTCTTC
Found at i:428426 original size:20 final size:21
Alignment explanation
Indices: 428403--428457 Score: 58
Period size: 24 Copynumber: 2.5 Consensus size: 21
428393 TTTTATATTT
**
428403 TTTCTTTTTTTTTTCTT-TTC
1 TTTCTTTTTTTCATCTTCTTC
428423 TTTCTTTCTTCTTCATCTTCCTTC
1 TTTCTTT-TT-TTCATCTT-CTTC
428447 TTTCTTTTTTT
1 TTTCTTTTTTT
428458 ACCTAACTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
20 7 0.24
21 2 0.07
22 8 0.28
23 2 0.07
24 10 0.34
ACGTcount: A:0.02, C:0.22, G:0.00, T:0.76
Consensus pattern (21 bp):
TTTCTTTTTTTCATCTTCTTC
Found at i:429536 original size:19 final size:19
Alignment explanation
Indices: 429512--429550 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
429502 AATCATTAAA
429512 ATTTATCAATAAATATTTT
1 ATTTATCAATAAATATTTT
***
429531 ATTTATTTGTAAATATTTT
1 ATTTATCAATAAATATTTT
429550 A
1 A
429551 ATTAATTAAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (19 bp):
ATTTATCAATAAATATTTT
Found at i:430662 original size:20 final size:20
Alignment explanation
Indices: 430619--430662 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
430609 GAGAAAGAAT
430619 TGAA-GAGGGATACAAGAGA
1 TGAATGAGGGATACAAGAGA
* * *
430638 GGAATGAGGGATGCTAGAGA
1 TGAATGAGGGATACAAGAGA
430658 TGAAT
1 TGAAT
430663 TTGGGAGCCT
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
19 3 0.15
20 17 0.85
ACGTcount: A:0.41, C:0.05, G:0.39, T:0.16
Consensus pattern (20 bp):
TGAATGAGGGATACAAGAGA
Found at i:430795 original size:28 final size:27
Alignment explanation
Indices: 430759--430829 Score: 99
Period size: 27 Copynumber: 2.6 Consensus size: 27
430749 AAACAAGCCT
*
430759 CCATATTTGACAAATACAAAGGA-AACCA
1 CCATTTTTGACAAATACAAA--ATAACCA
*
430787 CCATTTTTGACAAACACAAAATAACCA
1 CCATTTTTGACAAATACAAAATAACCA
430814 CCATTTTTGACAAATA
1 CCATTTTTGACAAATA
430830 AATGGGTGGC
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
26 1 0.03
27 20 0.51
28 18 0.46
ACGTcount: A:0.46, C:0.23, G:0.07, T:0.24
Consensus pattern (27 bp):
CCATTTTTGACAAATACAAAATAACCA
Found at i:432751 original size:21 final size:22
Alignment explanation
Indices: 432713--432758 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
432703 ATCTGTTGAA
* **
432713 ACTCCACCTGTTTTGGAGTA-T
1 ACTCCACCTGCTGCGGAGTACT
432734 ACTCCACCTGCTGCGGAGTACT
1 ACTCCACCTGCTGCGGAGTACT
432756 ACT
1 ACT
432759 TGTCTGAACA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.20, C:0.30, G:0.20, T:0.30
Consensus pattern (22 bp):
ACTCCACCTGCTGCGGAGTACT
Found at i:435410 original size:27 final size:27
Alignment explanation
Indices: 435349--435444 Score: 149
Period size: 27 Copynumber: 3.5 Consensus size: 27
435339 AAACAAGCCT
* *
435349 CCATATTTGACAAATACAAAGGA-AACCA
1 CCATTTTTGACAAACACAAA--ATAACCA
435377 CCATTTTTGACAAACACAAAATAACCA
1 CCATTTTTGACAAACACAAAATAACCA
435404 CCATTTTTGACAAACACAAAATAACCA
1 CCATTTTTGACAAACACAAAATAACCA
435431 CCATTTTTGACAAA
1 CCATTTTTGACAAA
435445 TAAATGGGTG
Statistics
Matches: 65, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
26 1 0.02
27 46 0.71
28 18 0.28
ACGTcount: A:0.47, C:0.24, G:0.06, T:0.23
Consensus pattern (27 bp):
CCATTTTTGACAAACACAAAATAACCA
Found at i:436542 original size:26 final size:27
Alignment explanation
Indices: 436512--436571 Score: 95
Period size: 26 Copynumber: 2.3 Consensus size: 27
436502 AATAAGCCAT
436512 CATTTTTTACAAACAAAAA-AAACCAC
1 CATTTTTTACAAACAAAAAGAAACCAC
* *
436538 CATTTTTTACAAACAAAAAGGAACTAC
1 CATTTTTTACAAACAAAAAGAAACCAC
436565 CATTTTT
1 CATTTTT
436572 AATAAATACA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
26 19 0.61
27 12 0.39
ACGTcount: A:0.47, C:0.20, G:0.03, T:0.30
Consensus pattern (27 bp):
CATTTTTTACAAACAAAAAGAAACCAC
Found at i:438826 original size:13 final size:13
Alignment explanation
Indices: 438810--438841 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
438800 TTTTAAAAAA
438810 CATTTTTTATTTT
1 CATTTTTTATTTT
*
438823 CATTTTTTGTTTT
1 CATTTTTTATTTT
438836 CATTTT
1 CATTTT
438842 CTAAAAACTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.12, C:0.09, G:0.03, T:0.75
Consensus pattern (13 bp):
CATTTTTTATTTT
Found at i:444918 original size:27 final size:27
Alignment explanation
Indices: 444868--444919 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
444858 TAATCTTGTA
* *
444868 ATTTTTCCACTTGGTTAGCAAACTTCT
1 ATTTTACCACTTGGTTAACAAACTTCT
444895 ATTTTACCACTTGG-TAACATAACTT
1 ATTTTACCACTTGGTTAACA-AACTT
444920 TAGATGTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 4 0.18
27 18 0.82
ACGTcount: A:0.27, C:0.21, G:0.10, T:0.42
Consensus pattern (27 bp):
ATTTTACCACTTGGTTAACAAACTTCT
Found at i:449502 original size:2 final size:2
Alignment explanation
Indices: 449495--449528 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
449485 CAAGGTTCCA
449495 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
449529 TAGAAAAACA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:451126 original size:2 final size:2
Alignment explanation
Indices: 451119--451143 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
451109 TGAGATATCT
451119 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
451144 GAGCAATGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:454458 original size:21 final size:22
Alignment explanation
Indices: 454420--454465 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
454410 ATCTGTTGAA
* **
454420 ACTCCACCTGTTTTGGAGTA-T
1 ACTCCACCTGCTGCGGAGTACT
454441 ACTCCACCTGCTGCGGAGTACT
1 ACTCCACCTGCTGCGGAGTACT
454463 ACT
1 ACT
454466 TGTCTGAACA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.20, C:0.30, G:0.20, T:0.30
Consensus pattern (22 bp):
ACTCCACCTGCTGCGGAGTACT
Found at i:459187 original size:2 final size:2
Alignment explanation
Indices: 459180--459209 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
459170 AAATCTCTTA
459180 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
459210 TTATTTGTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Done.