Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01015146.1 Kokia drynarioides strain JFW-HI SEQ_130190, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 339245
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.33
Warning! 11 characters in sequence are not A, C, G, or T
Found at i:3948 original size:21 final size:21
Alignment explanation
Indices: 3924--3965 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
3914 ACCATTTTTT
*
3924 TAATTAAAGTCCAATTACAAA
1 TAATTAAAGTCCAAATACAAA
*
3945 TAATTAAGGTCCAAATACAAA
1 TAATTAAAGTCCAAATACAAA
3966 ACCCAAAACC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.52, C:0.14, G:0.07, T:0.26
Consensus pattern (21 bp):
TAATTAAAGTCCAAATACAAA
Found at i:3999 original size:21 final size:22
Alignment explanation
Indices: 3965--4008 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 22
3955 CCAAATACAA
3965 AACCCAAAACCAAA-TAAAATT
1 AACCCAAAACCAAACTAAAATT
*
3986 AACCCAAATA-CAAACTCAAATT
1 AACCCAAA-ACCAAACTAAAATT
4008 A
1 A
4009 TAAAGCCCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.59, C:0.25, G:0.00, T:0.16
Consensus pattern (22 bp):
AACCCAAAACCAAACTAAAATT
Found at i:5087 original size:11 final size:11
Alignment explanation
Indices: 5026--5087 Score: 56
Period size: 11 Copynumber: 5.5 Consensus size: 11
5016 TTTTATCTTT
5026 TTATTTATTTA
1 TTATTTATTTA
*
5037 GTATTTAATTT-
1 TTATTT-ATTTA
5048 TTATTTATTTA
1 TTATTTATTTA
*
5059 TTGTTT-TTATA
1 TTATTTATT-TA
*
5070 TTCATTTATTTG
1 TT-ATTTATTTA
5082 TTATTT
1 TTATTT
5088 TAAATGCCAT
Statistics
Matches: 41, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
10 6 0.15
11 23 0.56
12 10 0.24
13 2 0.05
ACGTcount: A:0.23, C:0.02, G:0.05, T:0.71
Consensus pattern (11 bp):
TTATTTATTTA
Found at i:5408 original size:18 final size:18
Alignment explanation
Indices: 5373--5414 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
5363 TTATTGATTG
* *
5373 TATTTATTTATCTTATTT
1 TATTTATGTATCTAATTT
*
5391 TATTTATGTATGTAATTT
1 TATTTATGTATCTAATTT
5409 T-TTTAT
1 TATTTAT
5415 ATTTTTGTCA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.24, C:0.02, G:0.05, T:0.69
Consensus pattern (18 bp):
TATTTATGTATCTAATTT
Found at i:6245 original size:45 final size:45
Alignment explanation
Indices: 6181--6267 Score: 156
Period size: 45 Copynumber: 1.9 Consensus size: 45
6171 GAAAATTAAA
* *
6181 GATTCGATTTAATTTAATTTGTGATCCTTTGCATTTTATTTTGTT
1 GATTCAATTTAATTTAATTTGCGATCCTTTGCATTTTATTTTGTT
6226 GATTCAATTTAATTTAATTTGCGATCCTTTGCATTTTATTTT
1 GATTCAATTTAATTTAATTTGCGATCCTTTGCATTTTATTTT
6268 TATGTGCTGC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.22, C:0.10, G:0.11, T:0.56
Consensus pattern (45 bp):
GATTCAATTTAATTTAATTTGCGATCCTTTGCATTTTATTTTGTT
Found at i:19907 original size:20 final size:20
Alignment explanation
Indices: 19882--19923 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
19872 TTATTCTTGG
19882 CACGATTGTAATCAAATCAA
1 CACGATTGTAATCAAATCAA
19902 CACGATTGTAATCAAATCAA
1 CACGATTGTAATCAAATCAA
19922 CA
1 CA
19924 ATTCATCCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.45, C:0.21, G:0.10, T:0.24
Consensus pattern (20 bp):
CACGATTGTAATCAAATCAA
Found at i:21104 original size:14 final size:14
Alignment explanation
Indices: 21085--21112 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
21075 ACTAATTATA
21085 AAAATTTTCTCGAT
1 AAAATTTTCTCGAT
21099 AAAATTTTCTCGAT
1 AAAATTTTCTCGAT
21113 GGGTTTGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.14, G:0.07, T:0.43
Consensus pattern (14 bp):
AAAATTTTCTCGAT
Found at i:24414 original size:17 final size:17
Alignment explanation
Indices: 24392--24449 Score: 71
Period size: 17 Copynumber: 3.4 Consensus size: 17
24382 ATATATATGG
**
24392 AAATGCAATGACAATGT
1 AAATGCAATGACAATAA
*
24409 AAATGCAGTGACAATAA
1 AAATGCAATGACAATAA
*
24426 AAATGCAATGACATTAA
1 AAATGCAATGACAATAA
*
24443 TAATGCA
1 AAATGCA
24450 GGGACAATTA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 35 1.00
ACGTcount: A:0.50, C:0.12, G:0.16, T:0.22
Consensus pattern (17 bp):
AAATGCAATGACAATAA
Found at i:24448 original size:34 final size:34
Alignment explanation
Indices: 24392--24457 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 34
24382 ATATATATGG
*
24392 AAATGCAATGACAATGTAAATGCAGTGACAATAA
1 AAATGCAATGACAATGTAAATGCAGGGACAATAA
24426 AAATGCAATGAC-AT-TAATAATGCAGGGACAAT
1 AAATGCAATGACAATGT-A-AATGCAGGGACAAT
24458 TATACTACAG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
32 1 0.03
33 3 0.10
34 25 0.86
ACGTcount: A:0.48, C:0.12, G:0.18, T:0.21
Consensus pattern (34 bp):
AAATGCAATGACAATGTAAATGCAGGGACAATAA
Found at i:24455 original size:17 final size:17
Alignment explanation
Indices: 24392--24457 Score: 69
Period size: 17 Copynumber: 3.9 Consensus size: 17
24382 ATATATATGG
* **
24392 AAATGCAATGACAATGT
1 AAATGCAGTGACAATAA
24409 AAATGCAGTGACAATAA
1 AAATGCAGTGACAATAA
* *
24426 AAATGCAATGACATTAA
1 AAATGCAGTGACAATAA
* *
24443 TAATGCAGGGACAAT
1 AAATGCAGTGACAAT
24458 TATACTACAG
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 40 1.00
ACGTcount: A:0.48, C:0.12, G:0.18, T:0.21
Consensus pattern (17 bp):
AAATGCAGTGACAATAA
Found at i:31611 original size:22 final size:23
Alignment explanation
Indices: 31570--31615 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
31560 TTTTAGGTCC
31570 TTAGGAATTTATTTCTTTCATAG
1 TTAGGAATTTATTTCTTTCATAG
*
31593 TTAGGATTTTATTTC-TTCATAG
1 TTAGGAATTTATTTCTTTCATAG
31615 T
1 T
31616 AAAACATAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 8 0.36
23 14 0.64
ACGTcount: A:0.24, C:0.09, G:0.13, T:0.54
Consensus pattern (23 bp):
TTAGGAATTTATTTCTTTCATAG
Found at i:37001 original size:8 final size:8
Alignment explanation
Indices: 36988--37033 Score: 76
Period size: 8 Copynumber: 5.9 Consensus size: 8
36978 AATTTCACCC
36988 AAAAAAAG
1 AAAAAAAG
36996 AAAAAAAG
1 AAAAAAAG
37004 AAAAAAA-
1 AAAAAAAG
*
37011 AAGAAAAG
1 AAAAAAAG
37019 AAAAAAAG
1 AAAAAAAG
37027 AAAAAAA
1 AAAAAAA
37034 TAGAAAGAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
7 6 0.17
8 29 0.83
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (8 bp):
AAAAAAAG
Found at i:37022 original size:22 final size:23
Alignment explanation
Indices: 36991--37046 Score: 96
Period size: 23 Copynumber: 2.5 Consensus size: 23
36981 TTCACCCAAA
36991 AAAAGAAAAAAAGAAAAAAAAAG
1 AAAAGAAAAAAAGAAAAAAAAAG
*
37014 AAAAGAAAAAAAGAAAAAAATAG
1 AAAAGAAAAAAAGAAAAAAAAAG
37037 -AAAGAAAAAA
1 AAAAGAAAAAA
37047 GGAGAGGCCG
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
22 10 0.31
23 22 0.69
ACGTcount: A:0.86, C:0.00, G:0.12, T:0.02
Consensus pattern (23 bp):
AAAAGAAAAAAAGAAAAAAAAAG
Found at i:37378 original size:20 final size:20
Alignment explanation
Indices: 37353--37397 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
37343 ATGTTTGTTA
*
37353 TTTTGACTAACATTTGTC-AT
1 TTTTGACCAACATTTG-CAAT
*
37373 TTTTGACCAATATTTGCAAT
1 TTTTGACCAACATTTGCAAT
37393 TTTTG
1 TTTTG
37398 GCCATTATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 1 0.05
20 21 0.95
ACGTcount: A:0.24, C:0.13, G:0.11, T:0.51
Consensus pattern (20 bp):
TTTTGACCAACATTTGCAAT
Found at i:38152 original size:100 final size:100
Alignment explanation
Indices: 37979--38505 Score: 738
Period size: 100 Copynumber: 5.3 Consensus size: 100
37969 TGCAAAACAA
* **
37979 CAAATCCTATACCCCTAAAGTTGCAGAGGGGCAGATTAAAACTAACAGTAATAGATCTCAATCTC
1 CAAATCCTATACCCCTAAAGTTACAGAGGGGCAGATTAAAACTAACAGTAGCAGATCTCAATCTC
38044 CACTGAAGTTGTAGTGGAATGGAGTGAAGCCACAC
66 CACTGAAGTTGTAGTGGAATGGAGTGAAGCCACAC
* * * * * *
38079 CAAATCCTATACCCTTAAAGTTATAGAGGGGCAAATTAAAACTAATAGTTGTAGATCTCAATCTC
1 CAAATCCTATACCCCTAAAGTTACAGAGGGGCAGATTAAAACTAACAGTAGCAGATCTCAATCTC
* *
38144 CACTGAAGTTGCAGTGGAATGGAGTGAAGCCATAC
66 CACTGAAGTTGTAGTGGAATGGAGTGAAGCCACAC
* * *
38179 CAAATCCTATACCCTTAAAGTTGCAGAGGGG-TGAATTAAAACTAACAGTAGCAGATCTCAATCT
1 CAAATCCTATACCCCTAAAGTTACAGAGGGGCAG-ATTAAAACTAACAGTAGCAGATCTCAATCT
*
38243 CCACTGAAGTTGTAGTGGAATGGAGTGAAGCAACAC
65 CCACTGAAGTTGTAGTGGAATGGAGTGAAGCCACAC
*
38279 CAAAT-CTATACCCCTAAAGTTACAGAGGGGCAGATTAAAACTAACAGTAGCAGATCTCAACCTC
1 CAAATCCTATACCCCTAAAGTTACAGAGGGGCAGATTAAAACTAACAGTAGCAGATCTCAATCTC
* **
38343 CACTAAAGTTGTAGTTTAATGGAGTGAAGCCACAC
66 CACTGAAGTTGTAGTGGAATGGAGTGAAGCCACAC
* * * *
38378 CAAATCCAATACCCCTAAAGTTATAGAGGGGCAGATTGAAACTAACCGTAGCAGATCTCAATCT-
1 CAAATCCTATACCCCTAAAGTTACAGAGGGGCAGATTAAAACTAACAGTAGCAGATCTCAATCTC
* * *
38442 CACTGAAGTTACT-GTTGAATGGAGTGAATCCACAATCC
66 CACTGAAGTT-GTAGTGGAATGGAGTGAAGCCAC-A--C
*
38480 CAAATCCTATATCCCTAAAGTTACAG
1 CAAATCCTATACCCCTAAAGTTACAG
38506 CGATCAGATT
Statistics
Matches: 381, Mismatches: 39, Indels: 12
0.88 0.09 0.03
Matches are distributed among these distances:
99 116 0.30
100 241 0.63
102 24 0.06
ACGTcount: A:0.36, C:0.21, G:0.19, T:0.24
Consensus pattern (100 bp):
CAAATCCTATACCCCTAAAGTTACAGAGGGGCAGATTAAAACTAACAGTAGCAGATCTCAATCTC
CACTGAAGTTGTAGTGGAATGGAGTGAAGCCACAC
Found at i:38408 original size:199 final size:200
Alignment explanation
Indices: 37979--38505 Score: 747
Period size: 199 Copynumber: 2.6 Consensus size: 200
37969 TGCAAAACAA
**
37979 CAAATCCTATACCCCTAAAGTTGCAGAGGGGCAGATTAAAACTAACAGTAATAGATCTCAATCTC
1 CAAATCCTATACCCCTAAAGTTGCAGAGGGGCAGATTAAAACTAACAGTAGCAGATCTCAATCTC
* *
38044 CACTGAAGTTGTAGTGGAATGGAGTGAAGCCACACCAAATCCTATACCCTTAAAGTTATAGAGGG
66 CACTGAAGTTGTAGTGGAATGGAGTGAAGCCACACCAAATCCTATACCCCTAAAGTTACAGAGGG
* * * * *
38109 GCAAATTAAAACTAATAGTTGTAGATCTCAATCTCCACTGAAGTTGCAGTGGAATGGAGTGAAGC
131 GCAAATTAAAACTAACAGTAGCAGATCTCAACCTCCACTAAAGTTGCAGTGGAATGGAGTGAAGC
*
38174 CATAC
196 CACAC
* *
38179 CAAATCCTATACCCTTAAAGTTGCAGAGGGG-TGAATTAAAACTAACAGTAGCAGATCTCAATCT
1 CAAATCCTATACCCCTAAAGTTGCAGAGGGGCAG-ATTAAAACTAACAGTAGCAGATCTCAATCT
*
38243 CCACTGAAGTTGTAGTGGAATGGAGTGAAGCAACACCAAAT-CTATACCCCTAAAGTTACAGAGG
65 CCACTGAAGTTGTAGTGGAATGGAGTGAAGCCACACCAAATCCTATACCCCTAAAGTTACAGAGG
* * **
38307 GGCAGATTAAAACTAACAGTAGCAGATCTCAACCTCCACTAAAGTTGTAGTTTAATGGAGTGAAG
130 GGCAAATTAAAACTAACAGTAGCAGATCTCAACCTCCACTAAAGTTGCAGTGGAATGGAGTGAAG
38372 CCACAC
195 CCACAC
* ** * *
38378 CAAATCCAATACCCCTAAAGTTATAGAGGGGCAGATTGAAACTAACCGTAGCAGATCTCAATCT-
1 CAAATCCTATACCCCTAAAGTTGCAGAGGGGCAGATTAAAACTAACAGTAGCAGATCTCAATCTC
* * * *
38442 CACTGAAGTTACT-GTTGAATGGAGTGAATCCACAATCCCAAATCCTATATCCCTAAAGTTACAG
66 CACTGAAGTT-GTAGTGGAATGGAGTGAAGCCAC-A--CCAAATCCTATACCCCTAAAGTTACAG
38506 CGATCAGATT
Statistics
Matches: 291, Mismatches: 29, Indels: 12
0.88 0.09 0.04
Matches are distributed among these distances:
198 27 0.09
199 140 0.48
200 99 0.34
201 6 0.02
202 19 0.07
ACGTcount: A:0.36, C:0.21, G:0.19, T:0.24
Consensus pattern (200 bp):
CAAATCCTATACCCCTAAAGTTGCAGAGGGGCAGATTAAAACTAACAGTAGCAGATCTCAATCTC
CACTGAAGTTGTAGTGGAATGGAGTGAAGCCACACCAAATCCTATACCCCTAAAGTTACAGAGGG
GCAAATTAAAACTAACAGTAGCAGATCTCAACCTCCACTAAAGTTGCAGTGGAATGGAGTGAAGC
CACAC
Found at i:39048 original size:21 final size:21
Alignment explanation
Indices: 39024--39065 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
39014 AACCATTTTT
* *
39024 TAATTAAATTCCAATTACAAA
1 TAATTAAAGTCCAAATACAAA
*
39045 TAATTAAGGTCCAAATACAAA
1 TAATTAAAGTCCAAATACAAA
39066 ACCCAAATCC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.52, C:0.14, G:0.05, T:0.29
Consensus pattern (21 bp):
TAATTAAAGTCCAAATACAAA
Found at i:40152 original size:5 final size:5
Alignment explanation
Indices: 40129--40171 Score: 50
Period size: 5 Copynumber: 8.4 Consensus size: 5
40119 GGTCCCTATA
* * *
40129 TTTAT TATAG TTTAC TTTAT TTTAGT TTTAT TTTAT TTTAT TT
1 TTTAT TTTAT TTTAT TTTAT TTTA-T TTTAT TTTAT TTTAT TT
40172 CTGTTTTTAA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
5 27 0.84
6 5 0.16
ACGTcount: A:0.21, C:0.02, G:0.05, T:0.72
Consensus pattern (5 bp):
TTTAT
Found at i:40178 original size:16 final size:16
Alignment explanation
Indices: 40129--40168 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
40119 GGTCCCTATA
* *
40129 TTTATTATAG-TTTAC
1 TTTATTTTAGTTTTAT
40144 TTTATTTTAGTTTTAT
1 TTTATTTTAGTTTTAT
40160 TTTATTTTA
1 TTTATTTTA
40169 TTTCTGTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 9 0.41
16 13 0.59
ACGTcount: A:0.23, C:0.03, G:0.05, T:0.70
Consensus pattern (16 bp):
TTTATTTTAGTTTTAT
Found at i:40199 original size:30 final size:30
Alignment explanation
Indices: 40160--40223 Score: 78
Period size: 30 Copynumber: 2.1 Consensus size: 30
40150 TTAGTTTTAT
* *
40160 TTTATTTTATTT-CTGTTTTTAATTT-GTACC
1 TTTAATTTATTTGC-GTTTTCAATTTAGT-CC
40190 TTTAATTTATTTGCGTTTTCAATTTAGTCC
1 TTTAATTTATTTGCGTTTTCAATTTAGTCC
40220 TTTA
1 TTTA
40224 CTTAATTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
30 27 0.90
31 3 0.10
ACGTcount: A:0.19, C:0.11, G:0.08, T:0.62
Consensus pattern (30 bp):
TTTAATTTATTTGCGTTTTCAATTTAGTCC
Found at i:40378 original size:23 final size:24
Alignment explanation
Indices: 40328--40380 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 24
40318 AGTTTTTAAT
* *
40328 TTTTATTTATTGTTTTTATATTCA
1 TTTTATTTATTATTTTTATAGTCA
*
40352 -TTTATTTGTTATTTTTAT-GTCA
1 TTTTATTTATTATTTTTATAGTCA
40374 TTTTATT
1 TTTTATT
40381 CTTTCCTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
22 3 0.12
23 22 0.88
ACGTcount: A:0.19, C:0.04, G:0.06, T:0.72
Consensus pattern (24 bp):
TTTTATTTATTATTTTTATAGTCA
Found at i:49784 original size:19 final size:19
Alignment explanation
Indices: 49757--49796 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
49747 CATGCCTTTA
49757 TTTTAATTGTCAT-TGCATT
1 TTTTAATTGTC-TCTGCATT
*
49776 TTTTTATTGTCTCTGCATT
1 TTTTAATTGTCTCTGCATT
49795 TT
1 TT
49797 ATTTGTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 1 0.05
19 18 0.95
ACGTcount: A:0.15, C:0.12, G:0.10, T:0.62
Consensus pattern (19 bp):
TTTTAATTGTCTCTGCATT
Found at i:50423 original size:10 final size:10
Alignment explanation
Indices: 50393--50431 Score: 55
Period size: 10 Copynumber: 4.0 Consensus size: 10
50383 TCAGTCGCAT
50393 AAAGAAAAGAA
1 AAAG-AAAGAA
50404 AAAG--AGAA
1 AAAGAAAGAA
50412 AAAGAAAGAA
1 AAAGAAAGAA
50422 AAAGAAAGAA
1 AAAGAAAGAA
50432 TATATATATT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
8 8 0.31
10 14 0.54
11 4 0.15
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (10 bp):
AAAGAAAGAA
Found at i:53626 original size:12 final size:12
Alignment explanation
Indices: 53609--53635 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
53599 GTTGTGTATG
53609 AAAATGAGAAAA
1 AAAATGAGAAAA
53621 AAAATGAGAAAA
1 AAAATGAGAAAA
53633 AAA
1 AAA
53636 GCTCTTAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.78, C:0.00, G:0.15, T:0.07
Consensus pattern (12 bp):
AAAATGAGAAAA
Found at i:53989 original size:14 final size:14
Alignment explanation
Indices: 53972--53998 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
53962 TTTAAAACCA
53972 TAAAATTAATTTTC
1 TAAAATTAATTTTC
53986 TAAAATTAATTTT
1 TAAAATTAATTTT
53999 ACTTTCAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (14 bp):
TAAAATTAATTTTC
Found at i:55826 original size:23 final size:23
Alignment explanation
Indices: 55240--55821 Score: 711
Period size: 23 Copynumber: 25.3 Consensus size: 23
55230 AGCTTAATTC
*
55240 TTTAAGGACAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
* ** * *
55263 TGTAATTATAAATCATATTAATA
1 TTTAAGCACAAATCACATTAATA
*
55286 TTTAAGCACAAATCGCATTAATA
1 TTTAAGCACAAATCACATTAATA
* * *
55309 TTTAAGTATAAATAACATTAATA
1 TTTAAGCACAAATCACATTAATA
* *
55332 TTTGAGCACAAATCATATTAATA
1 TTTAAGCACAAATCACATTAATA
* *
55355 TTTAAGCACAAAACATATTAATA
1 TTTAAGCACAAATCACATTAATA
* *
55378 TTTGAGCACAAGTCACATTAATA
1 TTTAAGCACAAATCACATTAATA
55401 TTTAAGCACAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
*
55424 TTTAAGCATAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
*
55447 TTTAAGCATAAA-CACATTAATA
1 TTTAAGCACAAATCACATTAATA
*
55469 TTTGAA-CACAAATCATATTAATA
1 TTT-AAGCACAAATCACATTAATA
55492 TTTAAGCACAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
* * *
55515 TTTGAGTACAAATCATATTAATA
1 TTTAAGCACAAATCACATTAATA
*
55538 TTTAAGCATAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
* *
55561 CTTAAGCATAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
* * *
55584 TTTAATCATAAATCATATTAATA
1 TTTAAGCACAAATCACATTAATA
55607 TTTAAGCACAAATCACATTAA-A
1 TTTAAGCACAAATCACATTAATA
*
55629 CTTTAAGCATAAATCACATTAATA
1 -TTTAAGCACAAATCACATTAATA
* * *
55653 TTTGAGAACAAATCATATTAATA
1 TTTAAGCACAAATCACATTAATA
*
55676 TTTAAGCATAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
* *
55699 TTTGAGCACAAATCATATTAATA
1 TTTAAGCACAAATCACATTAATA
* * *
55722 TTTAAGCATAGATCATATTAATA
1 TTTAAGCACAAATCACATTAATA
*
55745 CTTAAGCACAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
* * *
55768 TTTAATCATAAATCATATTAATA
1 TTTAAGCACAAATCACATTAATA
* * *
55791 TTTAAGTACAGATCATATTAATA
1 TTTAAGCACAAATCACATTAATA
*
55814 TTTGAGCA
1 TTTAAGCA
55822 TAGATATAAG
Statistics
Matches: 479, Mismatches: 75, Indels: 10
0.85 0.13 0.02
Matches are distributed among these distances:
22 21 0.04
23 457 0.95
24 1 0.00
ACGTcount: A:0.47, C:0.13, G:0.06, T:0.35
Consensus pattern (23 bp):
TTTAAGCACAAATCACATTAATA
Found at i:59267 original size:2 final size:2
Alignment explanation
Indices: 59260--59290 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
59250 AGCACAAAAC
59260 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
59291 ATTTATTGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:62335 original size:15 final size:15
Alignment explanation
Indices: 62312--62347 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
62302 AATAAGCATG
*
62312 CCTCGACTCACTAAT
1 CCTCAACTCACTAAT
62327 CCTCAACTCACTAAT
1 CCTCAACTCACTAAT
62342 CCTCAA
1 CCTCAA
62348 TAAAGGGATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.31, C:0.42, G:0.03, T:0.25
Consensus pattern (15 bp):
CCTCAACTCACTAAT
Found at i:62396 original size:13 final size:13
Alignment explanation
Indices: 62378--62411 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
62368 GGCTCTCAAA
*
62378 AACATTATAAATC
1 AACATTAAAAATC
*
62391 AACATTAAAAATG
1 AACATTAAAAATC
62404 AACATTAA
1 AACATTAA
62412 GATCGAAATG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.59, C:0.12, G:0.03, T:0.26
Consensus pattern (13 bp):
AACATTAAAAATC
Found at i:70984 original size:5 final size:5
Alignment explanation
Indices: 70976--71009 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
70966 TCTCATCTCA
*
70976 TTTAT TTTAT TTATAT TTTAT TTTAT TCTAT TTT
1 TTTAT TTTAT TT-TAT TTTAT TTTAT TTTAT TTT
71010 TATGATTTCT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
5 21 0.81
6 5 0.19
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (5 bp):
TTTAT
Found at i:70997 original size:16 final size:16
Alignment explanation
Indices: 70976--71012 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
70966 TCTCATCTCA
70976 TTTATTTTATT-TATAT
1 TTTATTTTATTCTAT-T
70992 TTTATTTTATTCTATT
1 TTTATTTTATTCTATT
71008 TTTAT
1 TTTAT
71013 GATTTCTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 17 0.85
17 3 0.15
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTATTTTATTCTATT
Found at i:74205 original size:25 final size:23
Alignment explanation
Indices: 74143--74188 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
74133 GTTGGTGTCG
74143 AAACTTTTTTTAAAAAAAAGTCT
1 AAACTTTTTTTAAAAAAAAGTCT
74166 AAACTTTTTTTAAAAAAAAGTCT
1 AAACTTTTTTTAAAAAAAAGTCT
74189 CGACTTTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.48, C:0.09, G:0.04, T:0.39
Consensus pattern (23 bp):
AAACTTTTTTTAAAAAAAAGTCT
Found at i:74447 original size:163 final size:163
Alignment explanation
Indices: 74177--74503 Score: 636
Period size: 163 Copynumber: 2.0 Consensus size: 163
74167 AACTTTTTTT
*
74177 AAAAAAAAGTCTCGACTTTTATTTTAAAATCGAAAAATGGAGTCACCACCAATCATTTAAATAGG
1 AAAAAAAAGTCTCGACTTTTATTTTAAAATCAAAAAATGGAGTCACCACCAATCATTTAAATAGG
74242 TGTGATTGAATCACCTTAAAATATATTTAAAATTTAAAATAACTTTTTGGTCTTCGAAATAAAAA
66 TGTGATTGAATCACCTTAAAATATATTTAAAATTTAAAATAACTTTTTGGTCTTCGAAATAAAAA
*
74307 GAAACGGGTTTGGGAGCCAGTTATGCATGAGGA
131 GAAACGGGTTTGGGAGCAAGTTATGCATGAGGA
74340 AAAAAAAAGTCTCGACTTTTATTTTAAAATCAAAAAATGGAGTCACCACCAATCATTTAAATAGG
1 AAAAAAAAGTCTCGACTTTTATTTTAAAATCAAAAAATGGAGTCACCACCAATCATTTAAATAGG
74405 TGTGATTGAATCACCTTAAAATATATTTAAAATTTAAAATAACTTTTTGGTCTTCGAAATAAAAA
66 TGTGATTGAATCACCTTAAAATATATTTAAAATTTAAAATAACTTTTTGGTCTTCGAAATAAAAA
74470 GAAACGGGTTTGGGAGCAAGTTATGCATGAGGA
131 GAAACGGGTTTGGGAGCAAGTTATGCATGAGGA
74503 A
1 A
74504 GGATTATCAC
Statistics
Matches: 162, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
163 162 1.00
ACGTcount: A:0.41, C:0.12, G:0.16, T:0.31
Consensus pattern (163 bp):
AAAAAAAAGTCTCGACTTTTATTTTAAAATCAAAAAATGGAGTCACCACCAATCATTTAAATAGG
TGTGATTGAATCACCTTAAAATATATTTAAAATTTAAAATAACTTTTTGGTCTTCGAAATAAAAA
GAAACGGGTTTGGGAGCAAGTTATGCATGAGGA
Found at i:82491 original size:20 final size:21
Alignment explanation
Indices: 82468--82507 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
82458 TTTTATGGAT
*
82468 TTTAATTTT-TTTTTGTTTTA
1 TTTAATTTTGGTTTTGTTTTA
82488 TTTAATTTTGGTTTTGTTTT
1 TTTAATTTTGGTTTTGTTTT
82508 GTTTTTCTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.12, C:0.00, G:0.10, T:0.78
Consensus pattern (21 bp):
TTTAATTTTGGTTTTGTTTTA
Found at i:82906 original size:51 final size:50
Alignment explanation
Indices: 82761--82931 Score: 180
Period size: 50 Copynumber: 3.4 Consensus size: 50
82751 AAATTGCTTC
* * * ** * * *
82761 TGTAGCTACAATCTGCCCCTCTACAGCTTTAACGGTATAATATTTGCTTC
1 TGTAGCTTCAATCTGCCCCTTTACGGCTTTAGGGGTATAAGATTTGATTA
** * * * * * *
82811 TACAGCTTTAATATGTCTCTCTACAGCTTTAGGGGTATAAGATTTGATTA
1 TGTAGCTTCAATCTGCCCCTTTACGGCTTTAGGGGTATAAGATTTGATTA
*
82861 TGTAGCTTCAATCTTCCCCTTTACGGCTTTAGAGGGTATAAGATTTGATTA
1 TGTAGCTTCAATCTGCCCCTTTACGGCTTTAG-GGGTATAAGATTTGATTA
82912 TGTAGCTTCAATCTGCCCCT
1 TGTAGCTTCAATCTGCCCCT
82932 CTTGATTTAA
Statistics
Matches: 98, Mismatches: 22, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
50 61 0.62
51 37 0.38
ACGTcount: A:0.24, C:0.21, G:0.17, T:0.38
Consensus pattern (50 bp):
TGTAGCTTCAATCTGCCCCTTTACGGCTTTAGGGGTATAAGATTTGATTA
Found at i:82977 original size:46 final size:46
Alignment explanation
Indices: 82916--83696 Score: 662
Period size: 46 Copynumber: 17.0 Consensus size: 46
82906 TGATTATGTA
* *
82916 GCTTCAATCTGCCCCTCTTGATTTAAGGTTAAAAGATTGGATGGTG
1 GCTTCAATCTTCCCCTCTTGATTTAAGGGTAAAAGATTGGATGGTG
* * *
82962 GCTTTAATCTTCCCCTCTAGATTTAAGGGTAAAAGATTGAATGGTG
1 GCTTCAATCTTCCCCTCTTGATTTAAGGGTAAAAGATTGGATGGTG
* * * * * * * * *
83008 GCTTTAATATACCCCTCTGGATTCAAGAGTAAAAGACTGGATGTTA
1 GCTTCAATCTTCCCCTCTTGATTTAAGGGTAAAAGATTGGATGGTG
* * *
83054 GCTTCAATC-TCCCCTTCTGGATTTAGGGGTAAAAGATTAGATGGTG
1 GCTTCAATCTTCCCC-TCTTGATTTAAGGGTAAAAGATTGGATGGTG
* ** * *
83100 GCTTTAAT-TTGCCTTTCTAGATTTAGGGGGTAAAAGATTGGATGGTG
1 GCTTCAATCTT-CCCCTCTTGATTTA-AGGGTAAAAGATTGGATGGTG
* * * *
83147 GCTTCAATCTACCCCTC-TGAATTTAGGGGTAAAAGAATGGATGTTG
1 GCTTCAATCTTCCCCTCTTG-ATTTAAGGGTAAAAGATTGGATGGTG
* * * * *
83193 GCTTCAATTTTCCCTTC-TGATTGAAGGGTAGAAGATTTGATGGTG
1 GCTTCAATCTTCCCCTCTTGATTTAAGGGTAAAAGATTGGATGGTG
* * * *
83238 GCTTCAAT-TTGCCCCT-ATGAATTCAGGTGTGAAAGATTGGATGGTG
1 GCTTCAATCTT-CCCCTCTTGATTTAAGG-GTAAAAGATTGGATGGTG
* * * * *
83284 GTTTCAATCTGT-CGCT-ATGATTTAGGGGTAAAAGATTTGATGGTG
1 GCTTCAATCT-TCCCCTCTTGATTTAAGGGTAAAAGATTGGATGGTG
* * * * * *
83329 GCTTCAATCTGCCCTTCTAGATTTAATGGTAAAATATTGGATTGTG
1 GCTTCAATCTTCCCCTCTTGATTTAAGGGTAAAAGATTGGATGGTG
* * *
83375 GCTTCAATCTGCCCCTCTGGATTT-AGTGGTAAAAGATTTGATGGTG
1 GCTTCAATCTTCCCCTCTTGATTTAAG-GGTAAAAGATTGGATGGTG
* *
83421 GCTTCAATCTGT-GCCTC-TGAATTTAGGGGTAAAAGATTGGATGGTG
1 GCTTCAATCT-TCCCCTCTTG-ATTTAAGGGTAAAAGATTGGATGGTG
* * * * * * *
83467 TCTTTAACCTGCCCTTCTAGATTTAGGGGTAAAAGATTGGATGGTG
1 GCTTCAATCTTCCCCTCTTGATTTAAGGGTAAAAGATTGGATGGTG
* * *
83513 GCTTCAATCTGCCCCTCTGGATTTAGGGGTAAAAGATTGGATGGTG
1 GCTTCAATCTTCCCCTCTTGATTTAAGGGTAAAAGATTGGATGGTG
* * *
83559 GCTGCAATC-TGCCCTTTTAGATTT-AGGAGTAAAAGATTGGATGGTG
1 GCTTCAATCTTCCCCTCTT-GATTTAAGG-GTAAAAGATTGGATGGTG
* * *
83605 CCTTCAAT-TTGCTCCT-TTGGATAT-AGGGATAAAAGATTGGATGGTG
1 GCTTCAATCTT-CCCCTCTT-GATTTAAGGG-TAAAAGATTGGATGGTG
* *
83651 GCTTCAAT-TTGTCCCTCTAGATTT-AGGCGTAAAAGATTGGATGGTG
1 GCTTCAATCTT-CCCCTCTTGATTTAAGG-GTAAAAGATTGGATGGTG
83697 ATCTAACTTC
Statistics
Matches: 599, Mismatches: 110, Indels: 52
0.79 0.14 0.07
Matches are distributed among these distances:
44 2 0.00
45 80 0.13
46 469 0.78
47 46 0.08
48 2 0.00
ACGTcount: A:0.25, C:0.15, G:0.26, T:0.34
Consensus pattern (46 bp):
GCTTCAATCTTCCCCTCTTGATTTAAGGGTAAAAGATTGGATGGTG
Found at i:83041 original size:92 final size:92
Alignment explanation
Indices: 82838--83696 Score: 775
Period size: 92 Copynumber: 9.3 Consensus size: 92
82828 TCTCTACAGC
* * * * * * *
82838 TTTAGGGGTATAAGATTTGATTATGTAGCTTCAATCTTCCCCTTTACGGCTTTAGAGGGTATAAG
1 TTTAGGGGTAAAAGATTGGA-T-GGTGGCTTCAATCTTCCCCTCTA--GATTTA-AGGGTAAAAG
* * * *
82903 ATTTGATTATGTAGCTTCAATCTGCCCCTCTTGA
61 ATTGGA-T-GGTGGCTTCAATCTGCCCCTCTAGA
* * * *
82937 TTTAAGGTTAAAAGATTGGATGGTGGCTTTAATCTTCCCCTCTAGATTTAAGGGTAAAAGATTGA
1 TTTAGGGGTAAAAGATTGGATGGTGGCTTCAATCTTCCCCTCTAGATTTAAGGGTAAAAGATTGG
* * * *
83002 ATGGTGGCTTTAATATACCCCTCTGGA
66 ATGGTGGCTTCAATCTGCCCCTCTAGA
* * * * * * * * *
83029 TTCAAGAGTAAAAGACTGGATGTTAGCTTCAATC-TCCCCTTCTGGATTTAGGGGTAAAAGATTA
1 TTTAGGGGTAAAAGATTGGATGGTGGCTTCAATCTTCCCC-TCTAGATTTAAGGGTAAAAGATTG
* * **
83093 GATGGTGGCTTTAATTTGCCTTTCTAGA
65 GATGGTGGCTTCAATCTGCCCCTCTAGA
* * *
83121 TTTAGGGGGTAAAAGATTGGATGGTGGCTTCAATCTACCCCTCT-GAATTTAGGGGTAAAAGAAT
1 TTTA-GGGGTAAAAGATTGGATGGTGGCTTCAATCTTCCCCTCTAG-ATTTAAGGGTAAAAGATT
* * * *
83185 GGATGTTGGCTTCAATTTTCCCTTCT-GA
64 GGATGGTGGCTTCAATCTGCCCCTCTAGA
* * * * * * * *
83213 TTGAAGGGTAGAAGATTTGATGGTGGCTTCAAT-TTGCCC-CTATGAATTCAGGTGTGAAAGATT
1 TTTAGGGGTAAAAGATTGGATGGTGGCTTCAATCTTCCCCTCTA-GATTTAAGG-GTAAAAGATT
* * * *
83276 GGATGGTGGTTTCAATCTGTCGCTAT-GA
64 GGATGGTGGCTTCAATCTGCCCCTCTAGA
* * * * *
83304 TTTAGGGGTAAAAGATTTGATGGTGGCTTCAATCTGCCCTTCTAGATTTAATGGTAAAATATTGG
1 TTTAGGGGTAAAAGATTGGATGGTGGCTTCAATCTTCCCCTCTAGATTTAAGGGTAAAAGATTGG
* *
83369 ATTGTGGCTTCAATCTGCCCCTCTGGA
66 ATGGTGGCTTCAATCTGCCCCTCTAGA
* * * *
83396 TTTAGTGGTAAAAGATTTGATGGTGGCTTCAATCTGT-GCCTCT-GAATTTAGGGGTAAAAGATT
1 TTTAGGGGTAAAAGATTGGATGGTGGCTTCAATCT-TCCCCTCTAG-ATTTAAGGGTAAAAGATT
* * * *
83459 GGATGGTGTCTTTAACCTGCCCTTCTAGA
64 GGATGGTGGCTTCAATCTGCCCCTCTAGA
* * *
83488 TTTAGGGGTAAAAGATTGGATGGTGGCTTCAATCTGCCCCTCTGGATTTAGGGGTAAAAGATTGG
1 TTTAGGGGTAAAAGATTGGATGGTGGCTTCAATCTTCCCCTCTAGATTTAAGGGTAAAAGATTGG
* * *
83553 ATGGTGGCTGCAATCTGCCCTTTTAGA
66 ATGGTGGCTTCAATCTGCCCCTCTAGA
* * * * * *
83580 TTTAGGAGTAAAAGATTGGATGGTGCCTTCAAT-TTGCTCCTTTGGATAT-AGGGATAAAAGATT
1 TTTAGGGGTAAAAGATTGGATGGTGGCTTCAATCTT-CCCCTCTAGATTTAAGGG-TAAAAGATT
* *
83643 GGATGGTGGCTTCAATTTGTCCCTCTAGA
64 GGATGGTGGCTTCAATCTGCCCCTCTAGA
*
83672 TTTAGGCGTAAAAGATTGGATGGTG
1 TTTAGGGGTAAAAGATTGGATGGTG
83697 ATCTAACTTC
Statistics
Matches: 627, Mismatches: 117, Indels: 39
0.80 0.15 0.05
Matches are distributed among these distances:
89 2 0.00
90 9 0.01
91 124 0.20
92 363 0.58
93 71 0.11
94 17 0.03
95 5 0.01
97 19 0.03
98 1 0.00
99 16 0.03
ACGTcount: A:0.25, C:0.14, G:0.26, T:0.35
Consensus pattern (92 bp):
TTTAGGGGTAAAAGATTGGATGGTGGCTTCAATCTTCCCCTCTAGATTTAAGGGTAAAAGATTGG
ATGGTGGCTTCAATCTGCCCCTCTAGA
Found at i:83498 original size:138 final size:137
Alignment explanation
Indices: 82916--83696 Score: 854
Period size: 138 Copynumber: 5.7 Consensus size: 137
82906 TGATTATGTA
* * * * *
82916 GCTTCAATCTGCCCCTCTTGATTTAAGGTTAAAAGATTGGATGGTGGCTTTAATCTTCCCCTCTA
1 GCTTCAATCTGCCCTTCTAGATTTAAGGGTAAAAGATTGGATGGTGGCTTCAATCTGCCCCTCTA
* * * * * * * * *
82981 GATTTAAGGGTAAAAGATTGAATGGTGGCTTTAATATACCCCTCTGGATTCAAGAGTAAAAGACT
66 GATTT-AGGGTAAAAGATTGGATGGTGGCTTCAATCTGCCCCTCTGAATTTAGGGGTAAAAGATT
* *
83046 GGATGTTA
130 GGATGGTG
* * * * * * **
83054 GCTTCAATCTCCCCTTCTGGATTTAGGGGTAAAAGATTAGATGGTGGCTTTAATTTGCCTTTCTA
1 GCTTCAATCTGCCCTTCTAGATTTAAGGGTAAAAGATTGGATGGTGGCTTCAATCTGCCCCTCTA
* *
83119 GATTTAGGGGGTAAAAGATTGGATGGTGGCTTCAATCTACCCCTCTGAATTTAGGGGTAAAAGAA
66 GATTTA--GGGTAAAAGATTGGATGGTGGCTTCAATCTGCCCCTCTGAATTTAGGGGTAAAAGAT
*
83184 TGGATGTTG
129 TGGATGGTG
* * * * * * *
83193 GCTTCAATTTTCCCTTCT-GATTGAAGGGTAGAAGATTTGATGGTGGCTTCAATTTGCCCCTAT-
1 GCTTCAATCTGCCCTTCTAGATTTAAGGGTAAAAGATTGGATGGTGGCTTCAATCTGCCCCTCTA
* * * * * *
83256 GAATTCAGGTGTGAAAGATTGGATGGTGGTTTCAATCTGTCGCTATG-ATTTAGGGGTAAAAGAT
66 G-ATTTAGG-GTAAAAGATTGGATGGTGGCTTCAATCTGCCCCTCTGAATTTAGGGGTAAAAGAT
*
83320 TTGATGGTG
129 TGGATGGTG
* * * *
83329 GCTTCAATCTGCCCTTCTAGATTTAATGGTAAAATATTGGATTGTGGCTTCAATCTGCCCCTCTG
1 GCTTCAATCTGCCCTTCTAGATTTAAGGGTAAAAGATTGGATGGTGGCTTCAATCTGCCCCTCTA
* **
83394 GATTTAGTGGTAAAAGATTTGATGGTGGCTTCAATCTGTGCCTCTGAATTTAGGGGTAAAAGATT
66 GATTTAG-GGTAAAAGATTGGATGGTGGCTTCAATCTGCCCCTCTGAATTTAGGGGTAAAAGATT
83459 GGATGGTG
130 GGATGGTG
* * * * *
83467 TCTTTAACCTGCCCTTCTAGATTTAGGGGTAAAAGATTGGATGGTGGCTTCAATCTGCCCCTCTG
1 GCTTCAATCTGCCCTTCTAGATTTAAGGGTAAAAGATTGGATGGTGGCTTCAATCTGCCCCTCTA
* * * *
83532 GATTTAGGGGTAAAAGATTGGATGGTGGCTGCAATCTG-CCCTTTTAGATTTAGGAGTAAAAGAT
66 GATTTA-GGGTAAAAGATTGGATGGTGGCTTCAATCTGCCCCTCTGA-ATTTAGGGGTAAAAGAT
83596 TGGATGGTG
129 TGGATGGTG
* * * * * *
83605 CCTTCAATTTGCTCCTT-TGGATAT-AGGGATAAAAGATTGGATGGTGGCTTCAATTTGTCCCTC
1 GCTTCAATCTGC-CCTTCTAGATTTAAGGG-TAAAAGATTGGATGGTGGCTTCAATCTGCCCCTC
83668 TAGATTTAGGCGTAAAAGATTGGATGGTG
64 TAGATTTAGG-GTAAAAGATTGGATGGTG
83697 ATCTAACTTC
Statistics
Matches: 550, Mismatches: 80, Indels: 26
0.84 0.12 0.04
Matches are distributed among these distances:
136 41 0.07
137 116 0.21
138 315 0.57
139 78 0.14
ACGTcount: A:0.25, C:0.15, G:0.26, T:0.34
Consensus pattern (137 bp):
GCTTCAATCTGCCCTTCTAGATTTAAGGGTAAAAGATTGGATGGTGGCTTCAATCTGCCCCTCTA
GATTTAGGGTAAAAGATTGGATGGTGGCTTCAATCTGCCCCTCTGAATTTAGGGGTAAAAGATTG
GATGGTG
Found at i:83986 original size:99 final size:98
Alignment explanation
Indices: 83700--84096 Score: 271
Period size: 99 Copynumber: 4.0 Consensus size: 98
83690 GATGGTGATC
* * *
83700 TAACTTCACTCTATTCCACTGCAACTTCAGGGAGATTGAGATCTGCTACCGTAGTTTTAA-TCTG
1 TAACTTCACTCCATTCCACTGCAACTTCAGGGAGATTGAGATCTGTTA-CTTA-TTTTAATTC-G
* * * * *
83764 TTTCACTGCAACTTCAAGAAGATAGGATTTGGTGTGG
63 -TCCACTGCAACTTCAAGGATATAGGAGTTGGTGTAG
* * * * ** * * *
83801 TAACTTCTCTCCACTCTACTGCAACTTCAAGGAGATTGAGATCCATTACTTGTTTTACTTCGCCC
1 TAACTTCACTCCATTCCACTGCAACTTCAGGGAGATTGAGATCTGTTACTTATTTTAATTCGTCC
* *
83866 TTA-TGCAATTTTAAAGG-TATAGGAGTTGGTGTAG
66 --ACTGCAA-CTTCAAGGATATAGGAGTTGGTGTAG
* * *
83900 TAACTTCGCTCCATTCCACTGGAACTTCAGGGAGATTGAGGTCTGTTACTTATTTTAATTCGATC
1 TAACTTCACTCCATTCCACTGCAACTTCAGGGAGATTGAGATCTGTTACTTATTTTAATTCG-TC
* * * ***
83965 CACTGTAACTTCAGGGATATAGGATTTAAAGCTA-
65 CACTGCAACTTCAAGGATATAGGAGTTGGTG-TAG
** ** * * ** * * *
83999 TGGCTTCACTCCATTCCACTATAACTTTAGTAGAGATTGAGATCTGCAATTTGTTTTAATTTGCT
1 TAACTTCACTCCATTCCACTGCAACTTCAG-GGAGATTGAGATCTGTTACTTATTTTAATTCG-T
* * * * *
84064 TCACTACAACTTCAAGAAGATAGGATTTGGTGT
64 CCACTGCAACTTCAAGGATATAGGAGTTGGTGT
84097 TTTTCCGGTC
Statistics
Matches: 226, Mismatches: 61, Indels: 20
0.74 0.20 0.07
Matches are distributed among these distances:
98 7 0.03
99 116 0.51
100 63 0.28
101 40 0.18
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (98 bp):
TAACTTCACTCCATTCCACTGCAACTTCAGGGAGATTGAGATCTGTTACTTATTTTAATTCGTCC
ACTGCAACTTCAAGGATATAGGAGTTGGTGTAG
Found at i:92385 original size:26 final size:26
Alignment explanation
Indices: 92356--92413 Score: 68
Period size: 26 Copynumber: 2.2 Consensus size: 26
92346 TTAATTAGTA
92356 TAAAATA-TTAA-CAAATTAAAATAAAT
1 TAAAATAGTTAATC-AATT-AAATAAAT
92382 TAAAA-AGTTAATCAATTAAATAAAT
1 TAAAATAGTTAATCAATTAAATAAAT
92407 TACAAAT
1 TA-AAAT
92414 TAGAAAATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
25 11 0.39
26 16 0.57
27 1 0.04
ACGTcount: A:0.62, C:0.05, G:0.02, T:0.31
Consensus pattern (26 bp):
TAAAATAGTTAATCAATTAAATAAAT
Found at i:106131 original size:18 final size:18
Alignment explanation
Indices: 106110--106148 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
106100 ATATATATTT
106110 TTTGCTTT-TCTCTTCTTC
1 TTTGCTTTCT-TCTTCTTC
*
106128 TTTGCTTTCTTTTTCTTC
1 TTTGCTTTCTTCTTCTTC
106146 TTT
1 TTT
106149 TCTATTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 18 0.95
19 1 0.05
ACGTcount: A:0.00, C:0.23, G:0.05, T:0.72
Consensus pattern (18 bp):
TTTGCTTTCTTCTTCTTC
Found at i:120896 original size:3 final size:3
Alignment explanation
Indices: 120888--120917 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
120878 AAATATATTG
120888 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
120918 GAAGAAGAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:120922 original size:3 final size:3
Alignment explanation
Indices: 120916--120955 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
120906 TAATAATAAT
120916 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
120956 TAATGATGCT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:124140 original size:21 final size:22
Alignment explanation
Indices: 124114--124172 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
124104 TATATTCTAC
124114 CGATAGAAGTCTTGA-TTGTAT
1 CGATAGAAGTCTTGAGTTGTAT
* *
124135 CGATAGAA-CCTAGAGTTGTAT
1 CGATAGAAGTCTTGAGTTGTAT
*
124156 CGATAGATGTCTT-AGTT
1 CGATAGAAGTCTTGAGTT
124173 CTACCGGTAG
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
20 4 0.13
21 25 0.81
22 2 0.06
ACGTcount: A:0.29, C:0.12, G:0.24, T:0.36
Consensus pattern (22 bp):
CGATAGAAGTCTTGAGTTGTAT
Found at i:126918 original size:72 final size:72
Alignment explanation
Indices: 126777--126943 Score: 192
Period size: 72 Copynumber: 2.3 Consensus size: 72
126767 ATCCCCAAAT
* *
126777 AGTATACACACACGGTCTGGCACACACCCATGTGCATAGCCCGTGTGTCCCCTGTACCTTAACTC
1 AGTATGCACACACGGTCTGGCACACACCCATATGCATAGCCCGTGTGTCCCCTGTACCTTAACTC
126842 ACAAAAC
66 ACAAAAC
* * * * ** **
126849 AGTATGCACAAACGGTCTGGCACACGCCCATATGCCTAGCCTGTGTGTCCTTTGTAACC-TATTT
1 AGTATGCACACACGGTCTGGCACACACCCATATGCATAGCCCGTGTGTCCCCTGT-ACCTTAACT
*
126913 TACAAAAC
65 CACAAAAC
* * *
126921 AATATGTACACACGGTATGGCAC
1 AGTATGCACACACGGTCTGGCAC
126944 CCGTGTGTCC
Statistics
Matches: 79, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
72 76 0.96
73 3 0.04
ACGTcount: A:0.28, C:0.30, G:0.18, T:0.24
Consensus pattern (72 bp):
AGTATGCACACACGGTCTGGCACACACCCATATGCATAGCCCGTGTGTCCCCTGTACCTTAACTC
ACAAAAC
Found at i:129365 original size:36 final size:36
Alignment explanation
Indices: 129317--129482 Score: 174
Period size: 36 Copynumber: 4.6 Consensus size: 36
129307 TGAGATGGCC
* *
129317 TTATGCTCTAACCGAGACATAAGCTCTTCCTTAGCA
1 TTATGCTCTAACCGAGACGTAAGCACTTCCTTAGCA
* *
129353 TTATGCTTTAACCGAGACGTAAGCAGTTCCTTAGCA
1 TTATGCTCTAACCGAGACGTAAGCACTTCCTTAGCA
* * *
129389 TTAT-CTCTAATCGAGACGTAAGCACTTCCATAGTA
1 TTATGCTCTAACCGAGACGTAAGCACTTCCTTAGCA
* * * * * * *
129424 ATACGCTCTAATCGAGACGTATGCA-ATCACATAACA
1 TTATGCTCTAACCGAGACGTAAGCACTTC-CTTAGCA
*
129460 TTATGCTCTAATCGAGACGTAAG
1 TTATGCTCTAACCGAGACGTAAG
129483 TTTTTCCATT
Statistics
Matches: 110, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
35 30 0.27
36 80 0.73
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.29
Consensus pattern (36 bp):
TTATGCTCTAACCGAGACGTAAGCACTTCCTTAGCA
Found at i:129405 original size:71 final size:72
Alignment explanation
Indices: 129317--129482 Score: 192
Period size: 71 Copynumber: 2.3 Consensus size: 72
129307 TGAGATGGCC
* * * * * * * *
129317 TTATGCTCTAACCGAGACATAAGCTCTTCCTTAGCATTATGCTTTAACCGAGACGTAAGCAGTTC
1 TTATGCTCTAATCGAGACGTAAGCACTTCCATAGCAATACGCTCTAACCGAGACGTAAGCA-ATC
* *
129382 -CTTAGCA
65 ACATAACA
* * *
129389 TTAT-CTCTAATCGAGACGTAAGCACTTCCATAGTAATACGCTCTAATCGAGACGTATGCAATCA
1 TTATGCTCTAATCGAGACGTAAGCACTTCCATAGCAATACGCTCTAACCGAGACGTAAGCAATCA
129453 CATAACA
66 CATAACA
129460 TTATGCTCTAATCGAGACGTAAG
1 TTATGCTCTAATCGAGACGTAAG
129483 TTTTTCCATT
Statistics
Matches: 79, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
70 2 0.03
71 55 0.70
72 22 0.28
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.29
Consensus pattern (72 bp):
TTATGCTCTAATCGAGACGTAAGCACTTCCATAGCAATACGCTCTAACCGAGACGTAAGCAATCA
CATAACA
Found at i:138629 original size:32 final size:32
Alignment explanation
Indices: 138592--138657 Score: 96
Period size: 32 Copynumber: 2.1 Consensus size: 32
138582 AAATTGATAT
*
138592 ATGATCCTTTGCATTTTCTATGAAATACTATG
1 ATGATCCTTTGCATTTTCTATGAAATACCATG
* * *
138624 ATGATCTTTTTCATTTTCTGTGAAATACCATG
1 ATGATCCTTTGCATTTTCTATGAAATACCATG
138656 AT
1 AT
138658 AATACTATTG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.27, C:0.15, G:0.12, T:0.45
Consensus pattern (32 bp):
ATGATCCTTTGCATTTTCTATGAAATACCATG
Found at i:142562 original size:16 final size:17
Alignment explanation
Indices: 142540--142587 Score: 62
Period size: 16 Copynumber: 2.9 Consensus size: 17
142530 CGGATTCGAT
*
142540 GAACAAAAATAAATAAA
1 GAACAAAAATAAAAAAA
*
142557 -AACAAAAAGAAAAAAA
1 GAACAAAAATAAAAAAA
*
142573 GAAGAAAAATAAAAA
1 GAACAAAAATAAAAA
142588 TAAAAAAGAG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
16 14 0.54
17 12 0.46
ACGTcount: A:0.81, C:0.04, G:0.08, T:0.06
Consensus pattern (17 bp):
GAACAAAAATAAAAAAA
Found at i:142573 original size:8 final size:8
Alignment explanation
Indices: 142560--142620 Score: 52
Period size: 8 Copynumber: 7.5 Consensus size: 8
142550 AAATAAAAAC
142560 AAAAAGAA
1 AAAAAGAA
142568 AAAAAGAA
1 AAAAAGAA
*
142576 GAAAAATAA
1 -AAAAAGAA
*
142585 AAATA-AA
1 AAAAAGAA
*
142592 AAAGAGAA
1 AAAAAGAA
*
142600 AAAAGGGAA
1 AAAA-AGAA
*
142609 AAAATGAA
1 AAAAAGAA
142617 AAAA
1 AAAA
142621 CAAAAAAGAG
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
7 6 0.14
8 24 0.55
9 14 0.32
ACGTcount: A:0.80, C:0.00, G:0.15, T:0.05
Consensus pattern (8 bp):
AAAAAGAA
Found at i:142580 original size:23 final size:23
Alignment explanation
Indices: 142554--142603 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
142544 AAAAATAAAT
142554 AAAAACAAAAAGAAAAAA-AGAA
1 AAAAACAAAAAGAAAAAAGAGAA
* *
142576 GAAAAATAAAAATAAAAAAGAGAA
1 -AAAAACAAAAAGAAAAAAGAGAA
142600 AAAA
1 AAAA
142604 GGGAAAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 20 0.83
24 4 0.17
ACGTcount: A:0.84, C:0.02, G:0.10, T:0.04
Consensus pattern (23 bp):
AAAAACAAAAAGAAAAAAGAGAA
Found at i:142610 original size:29 final size:28
Alignment explanation
Indices: 142550--142626 Score: 82
Period size: 31 Copynumber: 2.5 Consensus size: 28
142540 GAACAAAAAT
*
142550 AAATAAAAACAAAAAGAAAAAAAGAAGAA
1 AAATAAAAAAAAAAAGAAAAAAAG-AGAA
*
142579 AAATAAAAATAAAAAAGAGAAAAAAGGGAAA
1 AAATAAAAA-AAAAAAGA-AAAAAAGAG-AA
142610 AAATGAAAAAACAAAAA
1 AAAT-AAAAAA-AAAAA
142627 AGAGAGGTCG
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
29 9 0.22
30 8 0.20
31 14 0.34
32 10 0.24
ACGTcount: A:0.81, C:0.03, G:0.12, T:0.05
Consensus pattern (28 bp):
AAATAAAAAAAAAAAGAAAAAAAGAGAA
Found at i:143699 original size:49 final size:49
Alignment explanation
Indices: 143628--144386 Score: 531
Period size: 49 Copynumber: 15.5 Consensus size: 49
143618 CGAAACAGTG
* *
143628 AGATGTGATGGGAAAGGTTGAGGCCACAACGGTGAACTCGGTACCATGA
1 AGATGTGAAGGGAAAGGTTGAGGCCACAACGGCGAACTCGGTACCATGA
* *
143677 AGATTTGAAGGGAAAGGTTGAGGCCACAACGGCGAAGCT-AGTACC-TCAGA
1 AGATGTGAAGGGAAAGGTTGAGGCCACAACGGCGAA-CTCGGTACCAT--GA
* * ** * *
143727 AGATGT-AATGAGAAAGGTTAAGGCCACAACGGCGAAC-CTAATACCTTAAA
1 AGATGTGAA-GGGAAAGGTTGAGGCCACAACGGCGAACTC-GGTACCAT-GA
* * * *
143777 AGATGTGATGGGAAAGATTGAGGCCACAACAGC-AAATCGAGTACCATGA
1 AGATGTGAAGGGAAAGGTTGAGGCCACAACGGCGAACTCG-GTACCATGA
* * * * * * *
143826 A-ATATGATGGGAAAGGATGAGGTCGCAACGGTGAACCCGGTACCATGA
1 AGATGTGAAGGGAAAGGTTGAGGCCACAACGGCGAACTCGGTACCATGA
* * * * * *
143874 AGAT-TAAAGGGAAAGGCTGAGGCTACAACGGTGAACTCGATACCTTAGA
1 AGATGTGAAGGGAAAGGTTGAGGCCACAACGGCGAACTCGGTACCAT-GA
* * *
143923 AGATGTGATGGG-AAGGATTGAGGCCGCAACGGTGAA-TCCGGTACCATGA
1 AGATGTGAAGGGAAAGG-TTGAGGCCACAACGGCGAACT-CGGTACCATGA
* * *** * * * * *
143972 AGATGCGATGGGAAAGGTTGAGGTTGCAATGCCAAACCCGATACCATGA
1 AGATGTGAAGGGAAAGGTTGAGGCCACAACGGCGAACTCGGTACCATGA
* * * * * *
144021 AGATTTGAAGGGAAAGGTTGAGGCTACAACAGTGAACCCGATACCATGA
1 AGATGTGAAGGGAAAGGTTGAGGCCACAACGGCGAACTCGGTACCATGA
* ** * *
144070 AGAT-TAAAGGGAAAGGTTGAGGCCGTAACGGCGAACCCGGTACCTTAGA
1 AGATGTGAAGGGAAAGGTTGAGGCCACAACGGCGAACTCGGTACCAT-GA
* ** * *
144119 AGATGTGATGGG-AAGGATTGAGGCCGTAACGGCGAATTCAGTACCATGA
1 AGATGTGAAGGGAAAGG-TTGAGGCCACAACGGCGAACTCGGTACCATGA
* * * *
144168 AGATGT-AATGGGAAAGGTTGAGGCCACAATGGCAAACCCGATACCATGA
1 AGATGTGAA-GGGAAAGGTTGAGGCCACAACGGCGAACTCGGTACCATGA
* * ** * *
144217 AGATTTGAAGGGAAAGGTTGAGGCCACAATGGCGAACTCGACACCTTAAA
1 AGATGTGAAGGGAAAGGTTGAGGCCACAACGGCGAACTCGGTACCAT-GA
* * * ** * * *
144267 AGATGTGATGAG-AAGGATTAAGGCCGTAACGACGAA-TCTAGTACTATGA
1 AGATGTGAAGGGAAAGG-TTGAGGCCACAACGGCGAACTC-GGTACCATGA
* * * * * *
144316 A-ATATGATGGGAAAGGTTGAGGCCGCAACTGCGAACCCGATACCATGA
1 AGATGTGAAGGGAAAGGTTGAGGCCACAACGGCGAACTCGGTACCATGA
* *
144364 AGATTTGAAGGGGAAGGTTGAGG
1 AGATGTGAAGGGAAAGGTTGAGG
144387 GCAACGGCAA
Statistics
Matches: 561, Mismatches: 119, Indels: 60
0.76 0.16 0.08
Matches are distributed among these distances:
48 134 0.24
49 256 0.46
50 169 0.30
51 2 0.00
ACGTcount: A:0.35, C:0.16, G:0.31, T:0.18
Consensus pattern (49 bp):
AGATGTGAAGGGAAAGGTTGAGGCCACAACGGCGAACTCGGTACCATGA
Found at i:144058 original size:196 final size:194
Alignment explanation
Indices: 143628--144245 Score: 758
Period size: 196 Copynumber: 3.1 Consensus size: 194
143618 CGAAACAGTG
* * * *
143628 AGATGTGATGGGAAAGGTTGAGGCCACAACGGTGAACTCGGTACCATGAAGATTTGAAGGGAAAG
1 AGATTTGAAGGGAAAGGTTGAGGCCACAACGGTGAACCCGGTACCATGAAGA-TTAAAGGGAAAG
* * * * * *
143693 GTTGAGGCCACAACGGCGAAGCTAGTACCTCAGAAGATGTAATGAGAAAGG-TTAAGGCCACAAC
65 GTTGAGGCCACAACGGCGAA-CTCGTACCTTAGAAGATGTGATG-GGAAGGATTGAGGCCGCAAC
* * * * * *
143757 GGCGAA-CCTAATACCTTAAAAGATGTGATGGGAAAGATTGAGGCCACAACAGCAAA-TCGAGTA
128 GGCGAATCC-AGTACCAT-GAAGATGTGATGGGAAAGGTTGAGGCCACAA-TGCAAACCCGA-TA
143820 CCATGA
189 CCATGA
* * * * *
143826 A-ATATGATGGGAAAGGATGAGGTCGCAACGGTGAACCCGGTACCATGAAGATTAAAGGGAAAGG
1 AGATTTGAAGGGAAAGGTTGAGGCCACAACGGTGAACCCGGTACCATGAAGATTAAAGGGAAAGG
* * *
143890 CTGAGGCTACAACGGTGAACTCGATACCTTAGAAGATGTGATGGGAAGGATTGAGGCCGCAACGG
66 TTGAGGCCACAACGGCGAACTCG-TACCTTAGAAGATGTGATGGGAAGGATTGAGGCCGCAACGG
* * * ***
143955 TGAATCCGGTACCATGAAGATGCGATGGGAAAGGTTGAGGTTGCAATGCCAAACCCGATACCATG
130 CGAATCCAGTACCATGAAGATGTGATGGGAAAGGTTGAGGCCACAATG-CAAACCCGATACCATG
144020 A
194 A
* * *
144021 AGATTTGAAGGGAAAGGTTGAGGCTACAACAGTGAACCCGATACCATGAAGATTAAAGGGAAAGG
1 AGATTTGAAGGGAAAGGTTGAGGCCACAACGGTGAACCCGGTACCATGAAGATTAAAGGGAAAGG
** * *
144086 TTGAGGCCGTAACGGCGAACCCGGTACCTTAGAAGATGTGATGGGAAGGATTGAGGCCGTAACGG
66 TTGAGGCCACAACGGCGAACTC-GTACCTTAGAAGATGTGATGGGAAGGATTGAGGCCGCAACGG
* *
144151 CGAATTCAGTACCATGAAGATGTAATGGGAAAGGTTGAGGCCACAATGGCAAACCCGATACCATG
130 CGAATCCAGTACCATGAAGATGTGATGGGAAAGGTTGAGGCCACAAT-GCAAACCCGATACCATG
144216 A
194 A
144217 AGATTTGAAGGGAAAGGTTGAGGCCACAA
1 AGATTTGAAGGGAAAGGTTGAGGCCACAA
144246 TGGCGAACTC
Statistics
Matches: 361, Mismatches: 51, Indels: 18
0.84 0.12 0.04
Matches are distributed among these distances:
194 1 0.00
195 46 0.13
196 264 0.73
197 49 0.14
198 1 0.00
ACGTcount: A:0.35, C:0.17, G:0.31, T:0.18
Consensus pattern (194 bp):
AGATTTGAAGGGAAAGGTTGAGGCCACAACGGTGAACCCGGTACCATGAAGATTAAAGGGAAAGG
TTGAGGCCACAACGGCGAACTCGTACCTTAGAAGATGTGATGGGAAGGATTGAGGCCGCAACGGC
GAATCCAGTACCATGAAGATGTGATGGGAAAGGTTGAGGCCACAATGCAAACCCGATACCATGA
Found at i:144749 original size:39 final size:39
Alignment explanation
Indices: 144688--145456 Score: 635
Period size: 39 Copynumber: 19.8 Consensus size: 39
144678 AAATTACATC
* * * *
144688 ATCCGATCTCTTACCTCAATCATGGGGCAGATTACAGCT
1 ATCCGATCTCTTACCCCGATCATGGGGCAGATCACAACT
* * ** *
144727 ATCCAATCTCTTACCCCGATCATGGGACAGATTGCATC-
1 ATCCGATCTCTTACCCCGATCATGGGGCAGATCACAACT
** *** *
144765 ATTTGATCTCTTACCTTAATCATGGGGCAGATCATAACT
1 ATCCGATCTCTTACCCCGATCATGGGGCAGATCACAACT
* *** *
144804 ATCCAATCTCTTACCCCGATCATGGGGCAGATTGTATC-
1 ATCCGATCTCTTACCCCGATCATGGGGCAGATCACAACT
**
144842 ATCTAATCTCTTACCCCGATCATGGGGCAGATCACAACT
1 ATCCGATCTCTTACCCCGATCATGGGGCAGATCACAACT
* ** * ** *
144881 ATCCAATCTCTTACCCCGATCATAAGGCATATTGCATC-
1 ATCCGATCTCTTACCCCGATCATGGGGCAGATCACAACT
* * * *
144919 ATCTGATCGCTTACCCCGATCATGAGGTAGATCACAACT
1 ATCCGATCTCTTACCCCGATCATGGGGCAGATCACAACT
* * *
144958 A-CTCGATCTCTTATCCCGATCATGAGGTAGATCACAACT
1 ATC-CGATCTCTTACCCCGATCATGGGGCAGATCACAACT
* *
144997 A-CTCGATCTCTTATCCCGATCATGGGGCAGATCACAACC
1 ATC-CGATCTCTTACCCCGATCATGGGGCAGATCACAACT
* * * * * *
145036 ATCCGATCTCTTACCCTGATCATGGGGTAAATTACAGCC
1 ATCCGATCTCTTACCCCGATCATGGGGCAGATCACAACT
* * * * *
145075 ATCTGATCTCTTACCCCGATCATGGGCCAAATCA-TAGT
1 ATCCGATCTCTTACCCCGATCATGGGGCAGATCACAACT
* * * *
145113 CATCTGATCTCTTACCCCGATCATGGGGTAGATCACAGCC
1 -ATCCGATCTCTTACCCCGATCATGGGGCAGATCACAACT
* *
145153 A-CTCGATCTCTTACCCCGATCATGAGGTAGATCACAACT
1 ATC-CGATCTCTTACCCCGATCATGGGGCAGATCACAACT
* * * *
145192 ACCCGATCTCTTACCTCGATCA-AGGGCAGATCACAACC
1 ATCCGATCTCTTACCCCGATCATGGGGCAGATCACAACT
* * *
145230 ATCCGATCACTTACCCCGATCATGGGGTAGATTACAGAC-
1 ATCCGATCTCTTACCCCGATCATGGGGCAGATCACA-ACT
* * *
145269 ATCCAATCTCTTACCCCAATCATGGGGCAGATCATAA-T
1 ATCCGATCTCTTACCCCGATCATGGGGCAGATCACAACT
* * ** *
145307 CATCCAATCTTTTACCCCGATCATGGGGCAGATTGC-AGT
1 -ATCCGATCTCTTACCCCGATCATGGGGCAGATCACAACT
* * * *
145346 CATCCGATCTCTTACCTCGATCATAGGGCAAATCACAACC
1 -ATCCGATCTCTTACCCCGATCATGGGGCAGATCACAACT
* * * * * *
145386 ACCCGATCTCTTACCTCGACCATGAGGCAAATCAC-AGT
1 ATCCGATCTCTTACCCCGATCATGGGGCAGATCACAACT
* * *
145424 AATCCAATCTCTTACCCCAATCATGGAGCAGAT
1 -ATCCGATCTCTTACCCCGATCATGGGGCAGAT
145457 TGCAGTTATC
Statistics
Matches: 590, Mismatches: 124, Indels: 32
0.79 0.17 0.04
Matches are distributed among these distances:
38 125 0.21
39 460 0.78
40 5 0.01
ACGTcount: A:0.27, C:0.30, G:0.16, T:0.26
Consensus pattern (39 bp):
ATCCGATCTCTTACCCCGATCATGGGGCAGATCACAACT
Found at i:145905 original size:46 final size:46
Alignment explanation
Indices: 145852--145951 Score: 146
Period size: 46 Copynumber: 2.2 Consensus size: 46
145842 ACTTTAAAAC
* * * * *
145852 TCATCTTCCTAATGAGATATAGAGAAGTGGGTCAGGCAACAAGTGG
1 TCATCTTCCTAATGAGATACAGAGAAGTAGGCCAGACAACAAATGG
*
145898 TCATCTTCCTGATGAGATACAGAGAAGTAGGCCAGACAACAAATGG
1 TCATCTTCCTAATGAGATACAGAGAAGTAGGCCAGACAACAAATGG
145944 TCATCTTC
1 TCATCTTC
145952 AACTTTAAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.33, C:0.19, G:0.24, T:0.24
Consensus pattern (46 bp):
TCATCTTCCTAATGAGATACAGAGAAGTAGGCCAGACAACAAATGG
Found at i:146016 original size:46 final size:46
Alignment explanation
Indices: 145963--146084 Score: 181
Period size: 46 Copynumber: 2.7 Consensus size: 46
145953 ACTTTAAAAC
* * * * ** *
145963 TCATCTTCCTAATGAGATATAGAGAAGTGGGTCAGGCAACAAGTGG
1 TCATCTTCCTGATGAGATACAGAGAAGTAGGCCACACAACAAATGG
146009 TCATCTTCCTGATGAGATACAGAGAAGTAGGCCACACAACAAATGG
1 TCATCTTCCTGATGAGATACAGAGAAGTAGGCCACACAACAAATGG
146055 TCATCTTCCTGATGAGATACAGAGAAGTAG
1 TCATCTTCCTGATGAGATACAGAGAAGTAG
146085 ACCAAGATAT
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 69 1.00
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.23
Consensus pattern (46 bp):
TCATCTTCCTGATGAGATACAGAGAAGTAGGCCACACAACAAATGG
Found at i:146035 original size:111 final size:111
Alignment explanation
Indices: 145841--146062 Score: 435
Period size: 111 Copynumber: 2.0 Consensus size: 111
145831 ATGTGAGTGA
145841 AACTTTAAAACTCATCTTCCTAATGAGATATAGAGAAGTGGGTCAGGCAACAAGTGGTCATCTTC
1 AACTTTAAAACTCATCTTCCTAATGAGATATAGAGAAGTGGGTCAGGCAACAAGTGGTCATCTTC
*
145906 CTGATGAGATACAGAGAAGTAGGCCAGACAACAAATGGTCATCTTC
66 CTGATGAGATACAGAGAAGTAGGCCACACAACAAATGGTCATCTTC
145952 AACTTTAAAACTCATCTTCCTAATGAGATATAGAGAAGTGGGTCAGGCAACAAGTGGTCATCTTC
1 AACTTTAAAACTCATCTTCCTAATGAGATATAGAGAAGTGGGTCAGGCAACAAGTGGTCATCTTC
146017 CTGATGAGATACAGAGAAGTAGGCCACACAACAAATGGTCATCTTC
66 CTGATGAGATACAGAGAAGTAGGCCACACAACAAATGGTCATCTTC
146063 CTGATGAGAT
Statistics
Matches: 110, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
111 110 1.00
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.24
Consensus pattern (111 bp):
AACTTTAAAACTCATCTTCCTAATGAGATATAGAGAAGTGGGTCAGGCAACAAGTGGTCATCTTC
CTGATGAGATACAGAGAAGTAGGCCACACAACAAATGGTCATCTTC
Found at i:156473 original size:74 final size:74
Alignment explanation
Indices: 156384--156529 Score: 231
Period size: 74 Copynumber: 2.0 Consensus size: 74
156374 ATGTAAATTA
*
156384 ATATTCTTTTGGAAAGAATATAATTCCTTTTTCTAACTTTCTATTTGTATTATCTATTAATAA-G
1 ATATTCTTTTGGAAAGAATATAATTCC-TTTTCTAACTTTCTATTTGCATTATCTATTAATAAGG
156448 GAATAATCAT
65 GAATAATCAT
* * * *
156458 ATATTCTTTTTGAAAGAATATAATTCCTTTTCTAACTTTCTGTTTGCCTTCTCTATTAATAAGGG
1 ATATTCTTTTGGAAAGAATATAATTCCTTTTCTAACTTTCTATTTGCATTATCTATTAATAAGGG
156523 AATAATC
66 AATAATC
156530 CTGATTTTCC
Statistics
Matches: 66, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
73 31 0.47
74 35 0.53
ACGTcount: A:0.32, C:0.13, G:0.09, T:0.47
Consensus pattern (74 bp):
ATATTCTTTTGGAAAGAATATAATTCCTTTTCTAACTTTCTATTTGCATTATCTATTAATAAGGG
AATAATCAT
Found at i:168760 original size:94 final size:94
Alignment explanation
Indices: 168594--168803 Score: 366
Period size: 94 Copynumber: 2.2 Consensus size: 94
168584 AAAATCAGTT
*
168594 TATCTCTTGAACATACGCCTATTAATACGACAGACTAAACTAACCTTTGATAAGTTAATGTGCTA
1 TATCTCTTGAACATACGCCTATTAATACGACAGACAAAACTAACCTTTGATAAGTTAATGTGCTA
*
168659 TAGCACATACATACATTATGAAATTAATC
66 TACCACATACATACATTATGAAATTAATC
* *
168688 TATCTCTTGAACATACACCTATTAATACGACCGACAAAACTAACCTTTGATAAGTTAATGTGCTA
1 TATCTCTTGAACATACGCCTATTAATACGACAGACAAAACTAACCTTTGATAAGTTAATGTGCTA
168753 TACCACATACATACATTATGAAATTAATC
66 TACCACATACATACATTATGAAATTAATC
**
168782 TATCTCTCCAACATACGCCTAT
1 TATCTCTTGAACATACGCCTAT
168804 GCCAATATGA
Statistics
Matches: 109, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
94 109 1.00
ACGTcount: A:0.38, C:0.22, G:0.09, T:0.31
Consensus pattern (94 bp):
TATCTCTTGAACATACGCCTATTAATACGACAGACAAAACTAACCTTTGATAAGTTAATGTGCTA
TACCACATACATACATTATGAAATTAATC
Found at i:168835 original size:94 final size:93
Alignment explanation
Indices: 168594--168835 Score: 274
Period size: 94 Copynumber: 2.6 Consensus size: 93
168584 AAAATCAGTT
** * * * *
168594 TATCTCTTGAACATACGCCTATTAATACGA-CAGACTAAACTAACCTTTGATAAGTTAATGTGCT
1 TATCTCTCCAACATACACCTATCAATACGACCA-ACAAAACTAA-CTTTCATAAGTTAATGTGCT
*
168658 ATAGCACATACATACATTATGAAATTAATC
64 ATACCACATACATACATTATGAAATTAATC
** * * *
168688 TATCTCTTGAACATACACCTATTAATACGACCGACAAAACTAACCTTTGATAAGTTAATGTGCTA
1 TATCTCTCCAACATACACCTATCAATACGACCAACAAAACTAA-CTTTCATAAGTTAATGTGCTA
168753 TACCACATACATACATTATGAAATTAATC
65 TACCACATACATACATTATGAAATTAATC
* * *
168782 TATCTCTCCAACATACGCCTATGCCAATATGACCAACTAAA-TAA-TATTCATAAG
1 TATCTCTCCAACATACACCTAT--CAATACGACCAACAAAACTAACT-TTCATAAG
168836 CATGTCAAGG
Statistics
Matches: 132, Mismatches: 12, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
93 1 0.01
94 114 0.86
95 4 0.03
96 13 0.10
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (93 bp):
TATCTCTCCAACATACACCTATCAATACGACCAACAAAACTAACTTTCATAAGTTAATGTGCTAT
ACCACATACATACATTATGAAATTAATC
Found at i:175720 original size:19 final size:19
Alignment explanation
Indices: 175696--175733 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
175686 TTTATTTCAG
175696 TTTAATAAGTGT-TTGCATT
1 TTTAATAA-TGTCTTGCATT
*
175715 TTTAATTATGTCTTGCATT
1 TTTAATAATGTCTTGCATT
175734 AAATATTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 3 0.18
19 14 0.82
ACGTcount: A:0.24, C:0.08, G:0.13, T:0.55
Consensus pattern (19 bp):
TTTAATAATGTCTTGCATT
Found at i:175891 original size:48 final size:48
Alignment explanation
Indices: 175839--175963 Score: 187
Period size: 48 Copynumber: 2.6 Consensus size: 48
175829 TAATTACGCT
*
175839 TCATTAAGTGTTTTATATGTTAAATGCATTTTTGTTTAATAATCTGCA
1 TCATTAAGTGTTTTATTTGTTAAATGCATTTTTGTTTAATAATCTGCA
* * *
175887 TCATTAAGTGTTTTGTTTGTTCAATGCATTTTTGTTTATTAATCTGCA
1 TCATTAAGTGTTTTATTTGTTAAATGCATTTTTGTTTAATAATCTGCA
* * *
175935 TTATTAAATGTTTTTTTTGTTAAATGCAT
1 TCATTAAGTGTTTTATTTGTTAAATGCAT
175964 CTCTGTTAAA
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 69 1.00
ACGTcount: A:0.26, C:0.08, G:0.13, T:0.54
Consensus pattern (48 bp):
TCATTAAGTGTTTTATTTGTTAAATGCATTTTTGTTTAATAATCTGCA
Found at i:176504 original size:80 final size:78
Alignment explanation
Indices: 176387--176545 Score: 246
Period size: 80 Copynumber: 2.0 Consensus size: 78
176377 CAACCAATAA
* * * *
176387 ACACATTAAGGTTACATAAGTCTTCATTAAGGAGAAATGTCATGTCTTTTCAGCTGCATCAAATC
1 ACACATTAAGGATACATAAGTCTTCATTAAGGAGAAATGTCATGCCTTTTCAACTACATCAAATC
176452 CTAATGAAGAGAC
66 CTAATGAAGAGAC
* *
176465 ACACATTAAGGATACAATAAGTTTTCATTTAAGGAGAAATGTCATGCCTTTTCAACTACATCAGA
1 ACACATTAAGGATAC-ATAAGTCTTCA-TTAAGGAGAAATGTCATGCCTTTTCAACTACATCAAA
176530 TCCTAATGAAGAGAC
64 TCCTAATGAAGAGAC
176545 A
1 A
176546 TGACTCATTG
Statistics
Matches: 73, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
78 14 0.19
79 10 0.14
80 49 0.67
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.29
Consensus pattern (78 bp):
ACACATTAAGGATACATAAGTCTTCATTAAGGAGAAATGTCATGCCTTTTCAACTACATCAAATC
CTAATGAAGAGAC
Found at i:176591 original size:80 final size:80
Alignment explanation
Indices: 176507--176656 Score: 300
Period size: 80 Copynumber: 1.9 Consensus size: 80
176497 GGAGAAATGT
176507 CATGCCTTTTCAACTACATCAGATCCTAATGAAGAGACATGACTCATTGGCTTCCCTACAAGAGT
1 CATGCCTTTTCAACTACATCAGATCCTAATGAAGAGACATGACTCATTGGCTTCCCTACAAGAGT
176572 TAAAAACGAAATTGC
66 TAAAAACGAAATTGC
176587 CATGCCTTTTCAACTACATCAGATCCTAATGAAGAGACATGACTCATTGGCTTCCCTACAAGAGT
1 CATGCCTTTTCAACTACATCAGATCCTAATGAAGAGACATGACTCATTGGCTTCCCTACAAGAGT
176652 TAAAA
66 TAAAA
176657 TGAAATTAGT
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
80 70 1.00
ACGTcount: A:0.35, C:0.24, G:0.15, T:0.27
Consensus pattern (80 bp):
CATGCCTTTTCAACTACATCAGATCCTAATGAAGAGACATGACTCATTGGCTTCCCTACAAGAGT
TAAAAACGAAATTGC
Found at i:180500 original size:13 final size:14
Alignment explanation
Indices: 180477--180505 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
180467 TGTTTAAGAA
180477 TCGTCTTTTATTTT
1 TCGTCTTTTATTTT
180491 TCGT-TTTTATTTT
1 TCGTCTTTTATTTT
180504 TC
1 TC
180506 TTTGCTTGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.07, C:0.14, G:0.07, T:0.72
Consensus pattern (14 bp):
TCGTCTTTTATTTT
Found at i:192290 original size:53 final size:53
Alignment explanation
Indices: 192209--192536 Score: 479
Period size: 53 Copynumber: 6.3 Consensus size: 53
192199 ATAAACGTAA
* *
192209 AAAGGTCCAATGA--CTGTGTCATCATGAGTTATATGAATCCTATTAAGGATT
1 AAAGGTCCGATGACTCTGTGTCATCGTGAGTTATATGAATCCTATTAAGGATT
* *
192260 AAAAGTCCGATGATTCTGTGTCATCGTGAGTTATATGAATCCTATTACA-GATT
1 AAAGGTCCGATGACTCTGTGTCATCGTGAGTTATATGAATCCTATTA-AGGATT
* * * *
192313 AAAGGTCCAATGACTTTGTGTCATCGTGAGTTTTATGAATCCTATTACGGATT
1 AAAGGTCCGATGACTCTGTGTCATCGTGAGTTATATGAATCCTATTAAGGATT
* *
192366 AAAGGTTCGATG--TCTGTGTCATCGTGAGTTATATGAATCCTATTATGGATT
1 AAAGGTCCGATGACTCTGTGTCATCGTGAGTTATATGAATCCTATTAAGGATT
* *
192417 AAAGGTCCGATGACTCTGTGTCATCGAGAGTTATATGAATCTTATTATA-GATT
1 AAAGGTCCGATGACTCTGTGTCATCGTGAGTTATATGAATCCTATTA-AGGATT
*
192470 AAAGGTCCGATGACTCTGTGTCATCGTGAGTTATATGAATCCTATTACGGATT
1 AAAGGTCCGATGACTCTGTGTCATCGTGAGTTATATGAATCCTATTAAGGATT
192523 AAAGGTCCGATGAC
1 AAAGGTCCGATGAC
192537 GGAGCTCCTG
Statistics
Matches: 248, Mismatches: 21, Indels: 14
0.88 0.07 0.05
Matches are distributed among these distances:
51 58 0.23
53 189 0.76
54 1 0.00
ACGTcount: A:0.29, C:0.15, G:0.21, T:0.35
Consensus pattern (53 bp):
AAAGGTCCGATGACTCTGTGTCATCGTGAGTTATATGAATCCTATTAAGGATT
Found at i:192403 original size:104 final size:104
Alignment explanation
Indices: 192209--192536 Score: 491
Period size: 104 Copynumber: 3.1 Consensus size: 104
192199 ATAAACGTAA
* *
192209 AAAGGTCCAATGAC-TGTGTCATCATGAGTTATATGAATCCTATTAAGGATTAAAAGTCCGATGA
1 AAAGGTCCAATGACTTGTGTCATCGTGAGTTATATGAATCCTATTAAGGATTAAAGGTCCGATGA
*
192273 TTCTGTGTCATCGTGAGTTATATGAATCCTATTACAGATT
66 -TCTGTGTCATCGTGAGTTATATGAATCCTATTACGGATT
* * *
192313 AAAGGTCCAATGACTTTGTGTCATCGTGAGTTTTATGAATCCTATTACGGATTAAAGGTTCGATG
1 AAAGGTCCAATGAC-TTGTGTCATCGTGAGTTATATGAATCCTATTAAGGATTAAAGGTCCGATG
*
192378 -TCTGTGTCATCGTGAGTTATATGAATCCTATTATGGATT
65 ATCTGTGTCATCGTGAGTTATATGAATCCTATTACGGATT
* * *
192417 AAAGGTCCGATGACTCTGTGTCATCGAGAGTTATATGAATCTTATTATA-GATTAAAGGTCCGAT
1 AAAGGTCCAATGACT-TGTGTCATCGTGAGTTATATGAATCCTATTA-AGGATTAAAGGTCCGAT
192481 GACTCTGTGTCATCGTGAGTTATATGAATCCTATTACGGATT
64 GA-TCTGTGTCATCGTGAGTTATATGAATCCTATTACGGATT
*
192523 AAAGGTCCGATGAC
1 AAAGGTCCAATGAC
192537 GGAGCTCCTG
Statistics
Matches: 204, Mismatches: 14, Indels: 10
0.89 0.06 0.04
Matches are distributed among these distances:
103 1 0.00
104 107 0.52
106 96 0.47
ACGTcount: A:0.29, C:0.15, G:0.21, T:0.35
Consensus pattern (104 bp):
AAAGGTCCAATGACTTGTGTCATCGTGAGTTATATGAATCCTATTAAGGATTAAAGGTCCGATGA
TCTGTGTCATCGTGAGTTATATGAATCCTATTACGGATT
Found at i:192495 original size:157 final size:157
Alignment explanation
Indices: 192209--192534 Score: 535
Period size: 157 Copynumber: 2.1 Consensus size: 157
192199 ATAAACGTAA
* * *
192209 AAAGGTCCAATGACTGTGTCATCATGAGTTATATGAATCCTATTAAGGATTAAAAGTCCGATGAT
1 AAAGGTCCGATGTCTGTGTCATCATGAGTTATATGAATCCTATTAAGGATTAAAAGTCCGATGAC
* *
192274 TCTGTGTCATCGTGAGTTATATGAATCCTATTACAGATTAAAGGTCCAATGACTTTGTGTCATCG
66 TCTGTGTCATCGAGAGTTATATGAATCCTATTACAGATTAAAGGTCCAATGACTCTGTGTCATCG
*
192339 TGAGTTTTATGAATCCTATTACGGATT
131 TGAGTTATATGAATCCTATTACGGATT
* * * *
192366 AAAGGTTCGATGTCTGTGTCATCGTGAGTTATATGAATCCTATTATGGATTAAAGGTCCGATGAC
1 AAAGGTCCGATGTCTGTGTCATCATGAGTTATATGAATCCTATTAAGGATTAAAAGTCCGATGAC
* * *
192431 TCTGTGTCATCGAGAGTTATATGAATCTTATTATAGATTAAAGGTCCGATGACTCTGTGTCATCG
66 TCTGTGTCATCGAGAGTTATATGAATCCTATTACAGATTAAAGGTCCAATGACTCTGTGTCATCG
192496 TGAGTTATATGAATCCTATTACGGATT
131 TGAGTTATATGAATCCTATTACGGATT
192523 AAAGGTCCGATG
1 AAAGGTCCGATG
192535 ACGGAGCTCC
Statistics
Matches: 155, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
157 155 1.00
ACGTcount: A:0.29, C:0.14, G:0.21, T:0.35
Consensus pattern (157 bp):
AAAGGTCCGATGTCTGTGTCATCATGAGTTATATGAATCCTATTAAGGATTAAAAGTCCGATGAC
TCTGTGTCATCGAGAGTTATATGAATCCTATTACAGATTAAAGGTCCAATGACTCTGTGTCATCG
TGAGTTATATGAATCCTATTACGGATT
Found at i:201003 original size:24 final size:24
Alignment explanation
Indices: 200972--201030 Score: 102
Period size: 24 Copynumber: 2.5 Consensus size: 24
200962 TTAAGCCCAC
200972 ACGAGCCCAGAAT-GATTAGCTCTT
1 ACGAGCCCAGAATAG-TTAGCTCTT
200996 ACGAGCCCAGAATAGTTAGCTCTT
1 ACGAGCCCAGAATAGTTAGCTCTT
201020 ACGAGCCCAGA
1 ACGAGCCCAGA
201031 CAGAGTTTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
24 33 0.97
25 1 0.03
ACGTcount: A:0.31, C:0.27, G:0.22, T:0.20
Consensus pattern (24 bp):
ACGAGCCCAGAATAGTTAGCTCTT
Found at i:202198 original size:22 final size:19
Alignment explanation
Indices: 202165--202204 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 19
202155 CACTTATACT
202165 AAATTTTAATTCAATAATTA
1 AAATTTTAATTCAA-AATTA
202185 AAATTCTTCAATTCAAAATT
1 AAATT-TT-AATTCAAAATT
202205 TCACATAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 5 0.28
21 6 0.33
22 7 0.39
ACGTcount: A:0.47, C:0.10, G:0.00, T:0.42
Consensus pattern (19 bp):
AAATTTTAATTCAAAATTA
Found at i:204964 original size:24 final size:24
Alignment explanation
Indices: 204937--205042 Score: 169
Period size: 24 Copynumber: 4.5 Consensus size: 24
204927 TTTAGCCCAC
204937 ACGAGCCCAGAATGATTAGCTCTT
1 ACGAGCCCAGAATGATTAGCTCTT
* * *
204961 ACGAGCCCAGAATGGTTAGTTGTT
1 ACGAGCCCAGAATGATTAGCTCTT
204985 ACGAGCCCAGAATGATTAGCTCTT
1 ACGAGCCCAGAATGATTAGCTCTT
*
205009 ACGAGCCCAGAATGGTTA-CTCTT
1 ACGAGCCCAGAATGATTAGCTCTT
205032 ACGAGCCCAGA
1 ACGAGCCCAGA
205043 CAGAGTTTAA
Statistics
Matches: 75, Mismatches: 7, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
23 16 0.21
24 59 0.79
ACGTcount: A:0.28, C:0.25, G:0.24, T:0.24
Consensus pattern (24 bp):
ACGAGCCCAGAATGATTAGCTCTT
Found at i:206866 original size:22 final size:22
Alignment explanation
Indices: 206841--206897 Score: 87
Period size: 22 Copynumber: 2.6 Consensus size: 22
206831 AAAAAATATT
206841 CAATTAAATTGGCGCAATCAAA
1 CAATTAAATTGGCGCAATCAAA
* *
206863 CAATTAAATTGGTGCAATCAAT
1 CAATTAAATTGGCGCAATCAAA
*
206885 CAATTATATTGGC
1 CAATTAAATTGGC
206898 ATATTACATC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.40, C:0.16, G:0.14, T:0.30
Consensus pattern (22 bp):
CAATTAAATTGGCGCAATCAAA
Found at i:218779 original size:23 final size:24
Alignment explanation
Indices: 218753--218797 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
218743 CCCTTTCCCA
218753 CTCACCG-CCTTAT-TTCTCCTTCT
1 CTCACCGTCCTTATGTT-TCCTTCT
218776 CTCACCGTCCTTATGTTTCCTT
1 CTCACCGTCCTTATGTTTCCTT
218798 ATAGGAAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
23 7 0.35
24 11 0.55
25 2 0.10
ACGTcount: A:0.09, C:0.40, G:0.07, T:0.44
Consensus pattern (24 bp):
CTCACCGTCCTTATGTTTCCTTCT
Found at i:237735 original size:152 final size:154
Alignment explanation
Indices: 237433--237739 Score: 442
Period size: 151 Copynumber: 2.0 Consensus size: 154
237423 GTATGAGCAG
237433 TTGTCCTTGCTTTTTTCTAGCGTATCATATTCTTGGTCATATTACCAAAGTAATGACAATTAGAG
1 TTGTCCTTGCTTTTTTCTAGCGTATCATATTCTTGGTCATATTACCAAAGTAATGACAATTAGAG
* * *
237498 TAACAGTTAACATGAATGATTTTCTCTATAAACTGGGGCTTTCTGTGCCAAAATTTGCAATCTGG
66 TAACAATTAACATGAATGATTTTCTCTACAAACTGGGGCTTTCTGTGCCAAAATCTGCAATCTGG
237563 TATTGTCTTCATAATATGTAGCTA
131 TATTGTCTTCATAATATGTAGCTA
* * ** *
237587 TTGTCCTTGCTTTTTTCCT-GC-T-T-ATATTCTTTGTCATATTAGCAAAGTTGTGATAATTAGA
1 TTGTCCTTGCTTTTTT-CTAGCGTATCATATTCTTGGTCATATTACCAAAGTAATGACAATTAGA
* * * *
237648 GTAACAATTAATATGAATGTTTTTTTCTACAAACTAGGGGCTTTCTGTGCCAAAATCTGCAATTT
65 GTAACAATTAACATGAATGATTTTCTCTACAAACT-GGGGCTTTCTGTGCCAAAATCTGCAATCT
* *
237713 GGTATTGTTTTCATAATTTGTAGCTA
129 GGTATTGTCTTCATAATATGTAGCTA
237739 T
1 T
237740 GTGTTCAATT
Statistics
Matches: 137, Mismatches: 14, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
151 63 0.46
152 53 0.39
153 1 0.01
154 18 0.13
155 2 0.01
ACGTcount: A:0.27, C:0.15, G:0.16, T:0.42
Consensus pattern (154 bp):
TTGTCCTTGCTTTTTTCTAGCGTATCATATTCTTGGTCATATTACCAAAGTAATGACAATTAGAG
TAACAATTAACATGAATGATTTTCTCTACAAACTGGGGCTTTCTGTGCCAAAATCTGCAATCTGG
TATTGTCTTCATAATATGTAGCTA
Found at i:240133 original size:10 final size:10
Alignment explanation
Indices: 240120--240149 Score: 60
Period size: 10 Copynumber: 3.0 Consensus size: 10
240110 ATTAAATGAA
240120 ATAAAATTAT
1 ATAAAATTAT
240130 ATAAAATTAT
1 ATAAAATTAT
240140 ATAAAATTAT
1 ATAAAATTAT
240150 GAGGAATTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (10 bp):
ATAAAATTAT
Found at i:248752 original size:44 final size:44
Alignment explanation
Indices: 248691--248776 Score: 163
Period size: 44 Copynumber: 2.0 Consensus size: 44
248681 TAGAGGATAT
248691 TTTTCAAATTCTTTTGGAATTTTAACTTATAAGAAATATTTTTA
1 TTTTCAAATTCTTTTGGAATTTTAACTTATAAGAAATATTTTTA
*
248735 TTTTCAAATTCTTTTGGAATTTTAACTTATAAGATATATTTT
1 TTTTCAAATTCTTTTGGAATTTTAACTTATAAGAAATATTTT
248777 AAAACACATT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.33, C:0.07, G:0.07, T:0.53
Consensus pattern (44 bp):
TTTTCAAATTCTTTTGGAATTTTAACTTATAAGAAATATTTTTA
Found at i:249304 original size:28 final size:28
Alignment explanation
Indices: 249249--249306 Score: 71
Period size: 28 Copynumber: 2.1 Consensus size: 28
249239 CCTGAGTTGC
* * * * *
249249 CTGTGCTAATACCACTAGTTCTAGTTGG
1 CTGTGCCAACACCACTAATTCAAATTGG
249277 CTGTGCCAACACCACTAATTCAAATTGG
1 CTGTGCCAACACCACTAATTCAAATTGG
249305 CT
1 CT
249307 ATTATTTTCT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.31
Consensus pattern (28 bp):
CTGTGCCAACACCACTAATTCAAATTGG
Found at i:255578 original size:16 final size:16
Alignment explanation
Indices: 255553--255586 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
255543 GACATAATAT
*
255553 ATTATTAATTAATAAA
1 ATTATAAATTAATAAA
*
255569 ATTATAAATTTATAAA
1 ATTATAAATTAATAAA
255585 AT
1 AT
255587 CATTAAATAT
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:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
ATTATAAATTAATAAA
Found at i:258301 original size:20 final size:21
Alignment explanation
Indices: 258276--258321 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
258266 TTAGAATTAA
258276 AAATTTTAAATT-A-AATTTTT
1 AAATTTT-AATTAATAATTTTT
258296 AAA-TTTAATTAATAATTTTT
1 AAATTTTAATTAATAATTTTT
258316 AAATTT
1 AAATTT
258322 ATATTTATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
18 4 0.17
19 4 0.17
20 13 0.57
21 2 0.09
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (21 bp):
AAATTTTAATTAATAATTTTT
Found at i:258756 original size:14 final size:14
Alignment explanation
Indices: 258724--258762 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
258714 TTTTTTTATG
*
258724 TAAAATGGTTTTCA
1 TAAAATGATTTTCA
* *
258738 GAAAATGATTTTTA
1 TAAAATGATTTTCA
258752 TAAAATGATTT
1 TAAAATGATTT
258763 ATTTTTTTAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.41, C:0.03, G:0.13, T:0.44
Consensus pattern (14 bp):
TAAAATGATTTTCA
Found at i:258927 original size:20 final size:21
Alignment explanation
Indices: 258902--258941 Score: 64
Period size: 20 Copynumber: 1.9 Consensus size: 21
258892 TAATTGTTTA
258902 ATTAAATTT-ATTTTATATCT
1 ATTAAATTTAATTTTATATCT
258922 ATTAAATTTAGATTTTATAT
1 ATTAAATTTA-ATTTTATAT
258942 TGTTTTTTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 9 0.50
22 9 0.50
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.57
Consensus pattern (21 bp):
ATTAAATTTAATTTTATATCT
Found at i:263947 original size:22 final size:23
Alignment explanation
Indices: 263922--263965 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
263912 ACGTGAACAC
* *
263922 CTTGTGAGTACCTTGTG-GAGTT
1 CTTGTGAGAAACTTGTGAGAGTT
263944 CTTGTGAGAAACTTGTGAGAGT
1 CTTGTGAGAAACTTGTGAGAGT
263966 CTCGTGAATC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.20, C:0.11, G:0.32, T:0.36
Consensus pattern (23 bp):
CTTGTGAGAAACTTGTGAGAGTT
Found at i:264667 original size:29 final size:29
Alignment explanation
Indices: 264610--264769 Score: 196
Period size: 29 Copynumber: 5.5 Consensus size: 29
264600 ATTTACCGAA
*
264610 ATGAGAGCCTTTGTGGCTGATTCTATTAT
1 ATGAGAGCCTTTGTGGTTGATTCTATTAT
* *
264639 ATGTGAGCCTTTGTGGTTGAGTT-TGTTAT
1 ATGAGAGCCTTTGTGGTTGA-TTCTATTAT
*
264668 ATGTGAGCCTTTGTGGTTGATTCTATTAT
1 ATGAGAGCCTTTGTGGTTGATTCTATTAT
* * *
264697 ATGAGAGCATTTGTGGCTAATTCTATTAT
1 ATGAGAGCCTTTGTGGTTGATTCTATTAT
* ** *
264726 ATGAGAGCCTCTGTTATTGATTCTGTTAT
1 ATGAGAGCCTTTGTGGTTGATTCTATTAT
*
264755 ATGAGAGTCTTTGTG
1 ATGAGAGCCTTTGTG
264770 ACTGGATCTG
Statistics
Matches: 111, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
28 2 0.02
29 107 0.96
30 2 0.02
ACGTcount: A:0.20, C:0.11, G:0.25, T:0.44
Consensus pattern (29 bp):
ATGAGAGCCTTTGTGGTTGATTCTATTAT
Found at i:264756 original size:87 final size:87
Alignment explanation
Indices: 264610--264769 Score: 232
Period size: 87 Copynumber: 1.8 Consensus size: 87
264600 ATTTACCGAA
* * * * * *
264610 ATGAGAGCCTTTGTGGCTGATTCTATTATATGTGAGCCTTTGTGGTTGAGTTTGTTATATGTGAG
1 ATGAGAGCATTTGTGGCTAATTCTATTATATGAGAGCCTCTGTGATTGAGTTTGTTATATGAGAG
264675 CCTTTGTGGTTGATTCTATTAT
66 CCTTTGTGGTTGATTCTATTAT
*
264697 ATGAGAGCATTTGTGGCTAATTCTATTATATGAGAGCCTCTGTTATTGA-TTCTGTTATATGAGA
1 ATGAGAGCATTTGTGGCTAATTCTATTATATGAGAGCCTCTGTGATTGAGTT-TGTTATATGAGA
*
264761 GTCTTTGTG
65 GCCTTTGTG
264770 ACTGGATCTG
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
86 2 0.03
87 62 0.97
ACGTcount: A:0.20, C:0.11, G:0.25, T:0.44
Consensus pattern (87 bp):
ATGAGAGCATTTGTGGCTAATTCTATTATATGAGAGCCTCTGTGATTGAGTTTGTTATATGAGAG
CCTTTGTGGTTGATTCTATTAT
Found at i:267332 original size:30 final size:29
Alignment explanation
Indices: 267292--267392 Score: 116
Period size: 30 Copynumber: 3.4 Consensus size: 29
267282 CAACCGCAAT
*
267292 GGCTTTCACATATTAGAGAATGACCACAAA
1 GGCTTTCACATATAAGAGAAT-ACCACAAA
*
267322 GGCTTCCACATATCAA-AGGACA-ACCACAAA
1 GGCTTTCACATAT-AAGA-GA-ATACCACAAA
*
267352 GGCTTACACATATAAGAGAATAGCCACAAA
1 GGCTTTCACATATAAGAGAATA-CCACAAA
267382 GGCTTTCACAT
1 GGCTTTCACAT
267393 TTTGGTAACT
Statistics
Matches: 61, Mismatches: 4, Indels: 12
0.79 0.05 0.16
Matches are distributed among these distances:
28 1 0.02
29 5 0.08
30 51 0.84
31 3 0.05
32 1 0.02
ACGTcount: A:0.41, C:0.24, G:0.16, T:0.20
Consensus pattern (29 bp):
GGCTTTCACATATAAGAGAATACCACAAA
Found at i:267345 original size:60 final size:60
Alignment explanation
Indices: 267276--267392 Score: 164
Period size: 60 Copynumber: 1.9 Consensus size: 60
267266 CACATGTAAT
* * * *
267276 AAAGAACAACCGCAATGGCTTTCACATATTAGAGAAT-GACCACAAAGGCTTCCACATATC
1 AAAGAACAACCACAAAGGCTTACACATATAAGAGAATAG-CCACAAAGGCTTCCACATATC
* *
267336 AAAGGACAACCACAAAGGCTTACACATATAAGAGAATAGCCACAAAGGCTTTCACAT
1 AAAGAACAACCACAAAGGCTTACACATATAAGAGAATAGCCACAAAGGCTTCCACAT
267393 TTTGGTAACT
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
60 49 0.98
61 1 0.02
ACGTcount: A:0.43, C:0.24, G:0.15, T:0.18
Consensus pattern (60 bp):
AAAGAACAACCACAAAGGCTTACACATATAAGAGAATAGCCACAAAGGCTTCCACATATC
Found at i:267822 original size:30 final size:30
Alignment explanation
Indices: 267788--267926 Score: 206
Period size: 30 Copynumber: 4.6 Consensus size: 30
267778 TCACATGTAA
* * *
267788 CAGAGAATAGCCACAAAGGCTTTCACATAT
1 CAGAGAACAACCACAAAGGCTTCCACATAT
*
267818 CAGAGAACAACCACAAAGGCTTTCACATAT
1 CAGAGAACAACCACAAAGGCTTCCACATAT
267848 CAGAGAACAACCACAAAGGCTTCCACATAT
1 CAGAGAACAACCACAAAGGCTTCCACATAT
* * *
267878 TAGAGAATAACGACAAAGGCTTCCACATAT
1 CAGAGAACAACCACAAAGGCTTCCACATAT
*
267908 CAGAGAACAGCCACAAAGG
1 CAGAGAACAACCACAAAGG
267927 ATCATGTATC
Statistics
Matches: 99, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 99 1.00
ACGTcount: A:0.43, C:0.25, G:0.17, T:0.15
Consensus pattern (30 bp):
CAGAGAACAACCACAAAGGCTTCCACATAT
Found at i:271995 original size:17 final size:17
Alignment explanation
Indices: 271962--272019 Score: 62
Period size: 17 Copynumber: 3.4 Consensus size: 17
271952 CATTAATTTA
*
271962 CAATGACGAATGGAAATG
1 CAATGAC-AATGAAAATG
*
271980 CAATGACAATGCAAATG
1 CAATGACAATGAAAATG
* * *
271997 TAGTGACAATTAAAATG
1 CAATGACAATGAAAATG
272014 CAATGA
1 CAATGA
272020 GAAAGGAAAT
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
17 26 0.79
18 7 0.21
ACGTcount: A:0.47, C:0.12, G:0.21, T:0.21
Consensus pattern (17 bp):
CAATGACAATGAAAATG
Found at i:272013 original size:34 final size:34
Alignment explanation
Indices: 271975--272044 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 34
271965 TGACGAATGG
*
271975 AAATGCAATGACAATGCAAATGTAGTGACAATTA
1 AAATGCAATGACAAAGCAAATGTAGTGACAATTA
* * * *
272009 AAATGCAATGAGAAAGGAAATGTGGTGACAGTTA
1 AAATGCAATGACAAAGCAAATGTAGTGACAATTA
272043 AA
1 AA
272045 TTACAAGTAC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.47, C:0.09, G:0.23, T:0.21
Consensus pattern (34 bp):
AAATGCAATGACAAAGCAAATGTAGTGACAATTA
Found at i:272093 original size:12 final size:13
Alignment explanation
Indices: 272067--272099 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
272057 GATATACATG
272067 AAAACTAAAACTA
1 AAAACTAAAACTA
*
272080 AAAACTGAAA-TA
1 AAAACTAAAACTA
272092 AAAACTAA
1 AAAACTAA
272100 CTCAATTGGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
12 9 0.50
13 9 0.50
ACGTcount: A:0.70, C:0.12, G:0.03, T:0.15
Consensus pattern (13 bp):
AAAACTAAAACTA
Found at i:289057 original size:24 final size:24
Alignment explanation
Indices: 289009--289055 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
288999 AAGAGTTAAT
289009 TTGTCAACGCAAATATAAAATAAA
1 TTGTCAACGCAAATATAAAATAAA
*
289033 TTGTCAGA-GCAAAT-TAAGATAAA
1 TTGTCA-ACGCAAATATAAAATAAA
289056 ATAAATAGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 8 0.38
24 12 0.57
25 1 0.05
ACGTcount: A:0.51, C:0.11, G:0.13, T:0.26
Consensus pattern (24 bp):
TTGTCAACGCAAATATAAAATAAA
Found at i:290810 original size:26 final size:28
Alignment explanation
Indices: 290781--290837 Score: 75
Period size: 26 Copynumber: 2.1 Consensus size: 28
290771 TGAAAAATCA
290781 AAAAGAAAAGAAA-AATGAGT-AG-AAAC
1 AAAAGAAAA-AAATAATGAGTGAGAAAAC
*
290807 AAAAGAAAAAAATCATGAGTGAGAAAAC
1 AAAAGAAAAAAATAATGAGTGAGAAAAC
290835 AAA
1 AAA
290838 TGAAGAGTGA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
25 3 0.11
26 15 0.56
27 2 0.07
28 7 0.26
ACGTcount: A:0.68, C:0.05, G:0.18, T:0.09
Consensus pattern (28 bp):
AAAAGAAAAAAATAATGAGTGAGAAAAC
Found at i:290845 original size:19 final size:18
Alignment explanation
Indices: 290810--290852 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 18
290800 TAGAAACAAA
*
290810 AGAAAAAAATCATGAGTG
1 AGAAAAAAATCAAGAGTG
*
290828 AGAAAACAAATGAAGAGTG
1 AGAAAA-AAATCAAGAGTG
290847 A-AAAAA
1 AGAAAAA
290853 TCATAAAGTC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 1 0.05
18 10 0.45
19 11 0.50
ACGTcount: A:0.63, C:0.05, G:0.21, T:0.12
Consensus pattern (18 bp):
AGAAAAAAATCAAGAGTG
Found at i:291462 original size:19 final size:18
Alignment explanation
Indices: 291425--291464 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
291415 TTAAGCCACT
* *
291425 TTTCTTTTTCTTTCTTTA
1 TTTCTTTTTATTGCTTTA
291443 TTTCTTTCTTATTGCTTTA
1 TTTCTTT-TTATTGCTTTA
291462 TTT
1 TTT
291465 TAATTTCGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.07, C:0.15, G:0.03, T:0.75
Consensus pattern (18 bp):
TTTCTTTTTATTGCTTTA
Found at i:292274 original size:21 final size:22
Alignment explanation
Indices: 292223--292280 Score: 66
Period size: 24 Copynumber: 2.6 Consensus size: 22
292213 ACAAGTATAA
292223 AAACTACCGATACCTCTAAATGC
1 AAACTACCGATACCTCT-AATGC
292246 AAAACTACCGATACCTACT-ATGC
1 -AAACTACCGATACCT-CTAATGC
*
292269 -AACTACTGATAC
1 AAACTACCGATAC
292281 AACTCAAGCC
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
21 11 0.34
23 4 0.12
24 15 0.47
25 2 0.06
ACGTcount: A:0.40, C:0.29, G:0.09, T:0.22
Consensus pattern (22 bp):
AAACTACCGATACCTCTAATGC
Found at i:300692 original size:24 final size:22
Alignment explanation
Indices: 300665--300718 Score: 63
Period size: 24 Copynumber: 2.3 Consensus size: 22
300655 ACAGGTTAAG
300665 AATAAAAATTATCAGTGCAAAAGT
1 AATAAAAA-TATCAGTGC-AAAGT
* *
300689 AATATAAAATGTCAGTGCAAATT
1 AATA-AAAATATCAGTGCAAAGT
300712 AATAAAA
1 AATAAAA
300719 GATGAATTGG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
22 3 0.11
23 8 0.30
24 12 0.44
25 4 0.15
ACGTcount: A:0.56, C:0.07, G:0.11, T:0.26
Consensus pattern (22 bp):
AATAAAAATATCAGTGCAAAGT
Found at i:302302 original size:12 final size:12
Alignment explanation
Indices: 302285--302317 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
302275 TTTTTATCAA
302285 TTTTTCTTT-CT
1 TTTTTCTTTCCT
302296 TTATTTCTTTCCT
1 TT-TTTCTTTCCT
302309 TTTTTCTTT
1 TTTTTCTTT
302318 TATGCAACTG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 2 0.10
12 14 0.70
13 4 0.20
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (12 bp):
TTTTTCTTTCCT
Found at i:303351 original size:3 final size:3
Alignment explanation
Indices: 303343--303436 Score: 104
Period size: 3 Copynumber: 31.7 Consensus size: 3
303333 CGGGGCAATA
* * *
303343 TCT TCT TCT TTT TCT TCCT TC- TCT TCT TCT TTT TCT TCT TTT TCT
1 TCT TCT TCT TCT TCT T-CT TCT TCT TCT TCT TCT TCT TCT TCT TCT
* *
303388 TCT TC- TCT TCT TCT TCT TCT TAT TTT TCT TCT TCT T-T TCCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T-CT TCT
303432 TCT TC
1 TCT TC
303437 CTCTGCCTCA
Statistics
Matches: 77, Mismatches: 9, Indels: 10
0.80 0.09 0.10
Matches are distributed among these distances:
2 6 0.08
3 66 0.86
4 5 0.06
ACGTcount: A:0.01, C:0.30, G:0.00, T:0.69
Consensus pattern (3 bp):
TCT
Found at i:322169 original size:7 final size:8
Alignment explanation
Indices: 322151--322180 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
322141 ATATGTATGC
322151 TTGTGAAA
1 TTGTGAAA
322159 TTGTG-AA
1 TTGTGAAA
322166 TTGTGAAA
1 TTGTGAAA
322174 TTGTGAA
1 TTGTGAA
322181 CATACATGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.33
8 14 0.67
ACGTcount: A:0.33, C:0.00, G:0.27, T:0.40
Consensus pattern (8 bp):
TTGTGAAA
Found at i:322171 original size:15 final size:15
Alignment explanation
Indices: 322151--322180 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
322141 ATATGTATGC
322151 TTGTGAAATTGTGAA
1 TTGTGAAATTGTGAA
322166 TTGTGAAATTGTGAA
1 TTGTGAAATTGTGAA
322181 CATACATGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.00, G:0.27, T:0.40
Consensus pattern (15 bp):
TTGTGAAATTGTGAA
Found at i:332398 original size:15 final size:16
Alignment explanation
Indices: 332380--332411 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
332370 AATAAATATA
332380 TTATTTTTAA-ATTTT
1 TTATTTTTAATATTTT
332395 TTATTTTTAATATTTT
1 TTATTTTTAATATTTT
332411 T
1 T
332412 AATTAATATC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (16 bp):
TTATTTTTAATATTTT
Found at i:332599 original size:22 final size:21
Alignment explanation
Indices: 332572--332642 Score: 54
Period size: 22 Copynumber: 3.2 Consensus size: 21
332562 TTTTTTCTTT
332572 ATATATAATATTTATATATCAA
1 ATATATAATATTTATAT-TCAA
*
332594 ATATATCAATTAATTAT-TTCAA
1 ATATAT-AA-TATTTATATTCAA
* * *
332616 ATATCATCATGTTTATATGTGAA
1 ATAT-ATAATATTTATAT-TCAA
332639 ATAT
1 ATAT
332643 TTTAATTACG
Statistics
Matches: 39, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
21 5 0.13
22 16 0.41
23 12 0.31
24 6 0.15
ACGTcount: A:0.44, C:0.07, G:0.04, T:0.45
Consensus pattern (21 bp):
ATATATAATATTTATATTCAA
Found at i:333683 original size:83 final size:84
Alignment explanation
Indices: 333582--333747 Score: 196
Period size: 84 Copynumber: 2.0 Consensus size: 84
333572 TAGATAATGT
** * * * *
333582 AACATATAGTTGCTTATGAG-AGTAA-ATATGATGTAGAAAATACACT-CAATTACTGATATTGA
1 AACATATAGTTGCTTATGAGTAAAAACATAT--TGCAGAAAATACACTCCAATAACTAATATGGA
*
333644 TTATCTTTAAATTTTATTAAA
64 TTATCCTTAAATTTTATTAAA
* *
333665 AACATATAGTTG-TCTATGAGTAAAAACATATTGCGGAAAATACACTCCTATAACTAATATGGAT
1 AACATATAGTTGCT-TATGAGTAAAAACATATTGCAGAAAATACACTCCAATAACTAATATGGAT
333729 TATCCTTAAATTTTATTAA
65 TATCCTTAAATTTTATTAA
333748 TAGTCATAGC
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
82 1 0.01
83 31 0.44
84 34 0.49
85 4 0.06
ACGTcount: A:0.41, C:0.11, G:0.11, T:0.37
Consensus pattern (84 bp):
AACATATAGTTGCTTATGAGTAAAAACATATTGCAGAAAATACACTCCAATAACTAATATGGATT
ATCCTTAAATTTTATTAAA
Found at i:335491 original size:123 final size:123
Alignment explanation
Indices: 335272--335524 Score: 488
Period size: 123 Copynumber: 2.1 Consensus size: 123
335262 CGAACTGAAA
*
335272 ATTCTCTGGAGGCCTCACCACCCCACACCATGACATTGTCTTGGGGAGAAGTTGATAGCGAAATC
1 ATTCTCTGGAGGCCTCACCACACCACACCATGACATTGTCTTGGGGAGAAGTTGATAGCGAAATC
335337 TGCATTATGCGGTTTTCATCGTCCTCGGCAAAGAAACTAGTTACTATGTCTCTCCTCC
66 TGCATTATGCGGTTTTCATCGTCCTCGGCAAAGAAACTAGTTACTATGTCTCTCCTCC
335395 ATTCTCTGGAGGCCTCACCACACCACACCATGACATTGTCTTGGGGAGAAGTTGATAGCGAAATC
1 ATTCTCTGGAGGCCTCACCACACCACACCATGACATTGTCTTGGGGAGAAGTTGATAGCGAAATC
*
335460 TGCATTATGCGGTTTTTATCGTCCTCGGCAAAGAAACTAGTTACTATGTCTCTCCTCC
66 TGCATTATGCGGTTTTCATCGTCCTCGGCAAAGAAACTAGTTACTATGTCTCTCCTCC
335518 ATTCTCT
1 ATTCTCT
335525 ATTGTTTGCA
Statistics
Matches: 128, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
123 128 1.00
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.30
Consensus pattern (123 bp):
ATTCTCTGGAGGCCTCACCACACCACACCATGACATTGTCTTGGGGAGAAGTTGATAGCGAAATC
TGCATTATGCGGTTTTCATCGTCCTCGGCAAAGAAACTAGTTACTATGTCTCTCCTCC
Found at i:337518 original size:29 final size:27
Alignment explanation
Indices: 337486--337547 Score: 79
Period size: 27 Copynumber: 2.2 Consensus size: 27
337476 AAATGAGACT
337486 TTTTGGAGTCCCGGGGGTAAAAATGGTAA
1 TTTTGGAGTCCC-GGGGT-AAAATGGTAA
* * *
337515 TTTTGGATTCTCGGGGTGAAATGGTAA
1 TTTTGGAGTCCCGGGGTAAAATGGTAA
337542 TTTTGG
1 TTTTGG
337548 GAAAATTCGG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
27 15 0.50
28 5 0.17
29 10 0.33
ACGTcount: A:0.23, C:0.08, G:0.34, T:0.35
Consensus pattern (27 bp):
TTTTGGAGTCCCGGGGTAAAATGGTAA
Found at i:337692 original size:59 final size:59
Alignment explanation
Indices: 337585--337811 Score: 334
Period size: 59 Copynumber: 3.9 Consensus size: 59
337575 TTAGATATTT
* *
337585 AGGGGTAAAAGGGTAATTTT--GAGAGTTTCGAGGTCGAAAATGGAGTTTTTGGACATCC
1 AGGGGTAAAATGGTAATTTTAGGA-AGTTTCGAGGTCAAAAATGGAGTTTTTGGACATCC
* * *
337643 AGGGGTAAAATGGTAATTTTAGGAAGTTACGAGGTTAAAAATGGAGTTTTTGGACATTC
1 AGGGGTAAAATGGTAATTTTAGGAAGTTTCGAGGTCAAAAATGGAGTTTTTGGACATCC
* * *
337702 GGGGGTAAAATGGTAATTTTAGGAAGTTTTGAAGTCAAAAATGGAGTTTTTGGACATCC
1 AGGGGTAAAATGGTAATTTTAGGAAGTTTCGAGGTCAAAAATGGAGTTTTTGGACATCC
*
337761 AGGGGTAAAATGGTAATTTTAGGAAGTTTC-AGAGTCAAAAATGGAATTTTT
1 AGGGGTAAAATGGTAATTTTAGGAAGTTTCGAG-GTCAAAAATGGAGTTTTT
337812 AGAAGTTCGA
Statistics
Matches: 151, Mismatches: 15, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
58 20 0.13
59 129 0.85
60 2 0.01
ACGTcount: A:0.33, C:0.06, G:0.29, T:0.32
Consensus pattern (59 bp):
AGGGGTAAAATGGTAATTTTAGGAAGTTTCGAGGTCAAAAATGGAGTTTTTGGACATCC
Found at i:337710 original size:117 final size:117
Alignment explanation
Indices: 337527--337814 Score: 366
Period size: 118 Copynumber: 2.4 Consensus size: 117
337517 TTGGATTCTC
* * * * ** * *
337527 GGGGTGAAATGGTAATTTTGGGAAAATTCGGGGTTAAAAATTAAATTTTTAGATATTTAGGGGTA
1 GGGGTAAAATGGTAATTTTAGG-AAGTTCGAGGTTAAAAATGGAATTTTTAGACATTCAGGGGTA
* *
337592 AAAGGGTAATTTT--GAGAGTTTCGAGGTCGAAAATGGAGTTTTTGGACATCCA
65 AAAGGGTAATTTTAGGA-AGTTTCGAAGTCAAAAATGGAGTTTTTGGACATCCA
* * *
337644 GGGGTAAAATGGTAATTTTAGGAAGTTACGAGGTTAAAAATGGAGTTTTTGGACATTCGGGGGTA
1 GGGGTAAAATGGTAATTTTAGGAAGTT-CGAGGTTAAAAATGGAATTTTTAGACATTCAGGGGTA
* *
337709 AAATGGTAATTTTAGGAAGTTTTGAAGTCAAAAATGGAGTTTTTGGACATCCA
65 AAAGGGTAATTTTAGGAAGTTTCGAAGTCAAAAATGGAGTTTTTGGACATCCA
*
337762 GGGGTAAAATGGTAATTTTAGGAAGTTTC-AGAGTCAAAAATGGAATTTTTAGA
1 GGGGTAAAATGGTAATTTTAGGAAG-TTCGAG-GTTAAAAATGGAATTTTTAGA
337815 AGTTCGAGGC
Statistics
Matches: 148, Mismatches: 18, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
116 4 0.03
117 63 0.43
118 77 0.52
119 4 0.03
ACGTcount: A:0.34, C:0.05, G:0.28, T:0.33
Consensus pattern (117 bp):
GGGGTAAAATGGTAATTTTAGGAAGTTCGAGGTTAAAAATGGAATTTTTAGACATTCAGGGGTAA
AAGGGTAATTTTAGGAAGTTTCGAAGTCAAAAATGGAGTTTTTGGACATCCA
Found at i:337902 original size:205 final size:206
Alignment explanation
Indices: 337643--338016 Score: 574
Period size: 205 Copynumber: 1.8 Consensus size: 206
337633 TTGGACATCC
* * * * *
337643 AGGGGTAAAATGGTAATTTTAGGAAGTTACGAGGTTAAAAATGGAGTTTTTGGACATTCGGGGGT
1 AGGGATAAAAGGGTAATTTTAGGAAGTTACGAGGTCAAAAATGGAGTTTTTGGACATCCAGGGGT
**
337708 AAAATGGTAATTTTAGGAAGTTTTGAAGTCAAAAATGGAGTTTTTGGACATCCAGGGGTAAAATG
66 AAAATGGTAATTTTAGGAAGTTACGAAGTCAAAAATGGAGTTTTTGGACATCCAGGGGTAAAATG
337773 GTAATTTTAGGAAGTTTCAG-AGTCAAAAATGGAATTTTTAGAAGTTCGAGGCTAAAAATTAAAT
131 GTAATTTTAGGAAGTTT-AGAAGTCAAAAATGGAATTTTTAGAAGTTCGAGGCTAAAAATTAAAT
337837 TTTTAGATATTT
195 TTTTAGATATTT
* *
337849 AGGGATAAAAGGGTAATTTT--GAGAGTTTCGAGGTCGAAAATGGAGTTTTTGGACATCCAGGGG
1 AGGGATAAAAGGGTAATTTTAGGA-AGTTACGAGGTCAAAAATGGAGTTTTTGGACATCCAGGGG
* * * *
337912 TAAAATGGTAATTTTAGGAAGTTACGAGGTTAAAAATGGAGTTTTTGGACATTCGGGGGTAAAAT
65 TAAAATGGTAATTTTAGGAAGTTACGAAGTCAAAAATGGAGTTTTTGGACATCCAGGGGTAAAAT
* *
337977 GGTAATTTTAGGAAGTTTTGAAGTCAAAAATGGAGTTTTT
130 GGTAATTTTAGGAAGTTTAGAAGTCAAAAATGGAATTTTT
338017 GGACATCCGG
Statistics
Matches: 151, Mismatches: 15, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
204 3 0.02
205 130 0.86
206 18 0.12
ACGTcount: A:0.34, C:0.05, G:0.28, T:0.33
Consensus pattern (206 bp):
AGGGATAAAAGGGTAATTTTAGGAAGTTACGAGGTCAAAAATGGAGTTTTTGGACATCCAGGGGT
AAAATGGTAATTTTAGGAAGTTACGAAGTCAAAAATGGAGTTTTTGGACATCCAGGGGTAAAATG
GTAATTTTAGGAAGTTTAGAAGTCAAAAATGGAATTTTTAGAAGTTCGAGGCTAAAAATTAAATT
TTTAGATATTT
Found at i:337947 original size:146 final size:149
Alignment explanation
Indices: 337649--337957 Score: 405
Period size: 146 Copynumber: 2.1 Consensus size: 149
337639 ATCCAGGGGT
* * * * * * *
337649 AAAATGGTAA-TTTTAGGAAGTTACGAGGTTAAAAATGGAGTTTTTGGACATTCGGGGGTAAAAT
1 AAAATGG-AATTTTTAGGAAGTTACGAGGCTAAAAATGAAATTTTTAGACATTCAGGGATAAAAG
*
337713 GGTAATTTTAGGAAGTTTTGAAGTCAAAAATGGAGTTTTTGGACATCCAGGGGTAAAATGGTAAT
65 GGTAATTTTAGGAAGTTTCGAAGTCAAAAATGGAGTTTTTGGACATCCAGGGGTAAAATGGTAAT
*
337778 TTTAGGAAGTTTCAGAGTCA
130 TTTAGGAAGTTACAGAGTCA
* * *
337798 AAAATGGAATTTTTA-GAAGTT-CGAGGCTAAAAATTAAATTTTTAGATATTTAGGGATAAAAGG
1 AAAATGGAATTTTTAGGAAGTTACGAGGCTAAAAATGAAATTTTTAGACATTCAGGGATAAAAGG
* *
337861 GTAATTTT--GAGAGTTTCGAGGTCGAAAATGGAGTTTTTGGACATCCAGGGGTAAAATGGTAAT
66 GTAATTTTAGGA-AGTTTCGAAGTCAAAAATGGAGTTTTTGGACATCCAGGGGTAAAATGGTAAT
*
337924 TTTAGGAAGTTAC-GAGGTTA
130 TTTAGGAAGTTACAGA-GTCA
*
337944 AAAATGGAGTTTTT
1 AAAATGGAATTTTT
337958 GGACATTCGG
Statistics
Matches: 141, Mismatches: 16, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
145 4 0.03
146 77 0.55
147 40 0.28
148 8 0.06
149 12 0.09
ACGTcount: A:0.35, C:0.06, G:0.27, T:0.33
Consensus pattern (149 bp):
AAAATGGAATTTTTAGGAAGTTACGAGGCTAAAAATGAAATTTTTAGACATTCAGGGATAAAAGG
GTAATTTTAGGAAGTTTCGAAGTCAAAAATGGAGTTTTTGGACATCCAGGGGTAAAATGGTAATT
TTAGGAAGTTACAGAGTCA
Found at i:337956 original size:59 final size:58
Alignment explanation
Indices: 337798--338189 Score: 333
Period size: 59 Copynumber: 6.8 Consensus size: 58
337788 TTCAGAGTCA
* ** * * * * *
337798 AAAATGG-AATTTTTA-GAAG-TTCGAGGCTAAAAATTAAATTTTTAGATATTTAGGGAT
1 AAAATGGTAA-TTTTAGGAAGTTTCGAGGTTAAAAATGGAGTTTTTGGACA-TTCGGGGT
* ** *
337855 AAAAGGGTAATTTT--GAGAGTTTCGAGGTCGAAAATGGAGTTTTTGGACATCCAGGGGT
1 AAAATGGTAATTTTAGGA-AGTTTCGAGGTTAAAAATGGAGTTTTTGGACATTC-GGGGT
*
337913 AAAATGGTAATTTTAGGAAGTTACGAGGTTAAAAATGGAGTTTTTGGACATTCGGGGGT
1 AAAATGGTAATTTTAGGAAGTTTCGAGGTTAAAAATGGAGTTTTTGGACATTC-GGGGT
* * * *
337972 AAAATGGTAATTTTAGGAAGTTTTGAAGTCAAAAATGGAGTTTTTGGACATCCGGGGGT
1 AAAATGGTAATTTTAGGAAGTTTCGAGGTTAAAAATGGAGTTTTTGGACATTC-GGGGT
* * * *
338031 AAAATGGTAATTTTAGGAAGTTTC-AGAGTCAAAAATGGAATTTTTAGA-AGTTCGAGGCT
1 AAAATGGTAATTTTAGGAAGTTTCGAG-GTTAAAAATGGAGTTTTTGGACA-TTCG-GGGT
* *
338090 AAAAATGG-AATTTTGGGAAGTTTCGGGGTT-AAAATGG-GATTTTTGGA-AGTTCGGGGCT
1 -AAAATGGTAATTTTAGGAAGTTTCGAGGTTAAAAATGGAG-TTTTTGGACA-TTCGGGG-T
* * * *
338148 AAAATGG-AATTTTTGGAAG-TTCGGGGCTAAAAATGGAATTTT
1 AAAATGGTAATTTTAGGAAGTTTCGAGGTTAAAAATGGAGTTTT
338190 GGGAAGTTTC
Statistics
Matches: 282, Mismatches: 38, Indels: 30
0.81 0.11 0.09
Matches are distributed among these distances:
56 10 0.04
57 44 0.16
58 64 0.23
59 154 0.55
60 10 0.04
ACGTcount: A:0.33, C:0.06, G:0.28, T:0.33
Consensus pattern (58 bp):
AAAATGGTAATTTTAGGAAGTTTCGAGGTTAAAAATGGAGTTTTTGGACATTCGGGGT
Found at i:338030 original size:118 final size:114
Alignment explanation
Indices: 337798--338189 Score: 402
Period size: 118 Copynumber: 3.4 Consensus size: 114
337788 TTCAGAGTCA
** ** *
337798 AAAATGGAATTTTTA-GAAGTTCGAGGCTAAAAATTAAATTTTTAGATATTTAGGGATAAAAGGG
1 AAAATGGAA-TTTTAGGAAGTTCGAGGCTAAAAATGGAATTTTTAGA-ATTCGGGGATAAAATGG
* *
337862 TAATTTT-GAGAGTTTCGAGGTCGAAAATGGAGTTTTTGGACATCCAGGGGT
64 TAATTTTGGA-AGTTTCGAGGTCAAAAATGGAGTTTTTGGACATCCGGGGGT
* * * *
337913 AAAATGGTAATTTTAGGAAGTTACGAGGTTAAAAATGGAGTTTTTGGACATTCGGGGGTAAAATG
1 AAAATGG-AATTTTAGGAAGTT-CGAGGCTAAAAATGGAATTTTTAGA-ATTCGGGGATAAAATG
* *
337978 GTAATTTTAGGAAGTTTTGAAGTCAAAAATGGAGTTTTTGGACATCCGGGGGT
63 GTAATTTT-GGAAGTTTCGAGGTCAAAAATGGAGTTTTTGGACATCCGGGGGT
* * *
338031 AAAATGGTAATTTTAGGAAGTTTCAGAGTC-AAAAATGGAATTTTTAGAAGTTCGAGGCTAAAAA
1 AAAATGG-AATTTTAGGAAG-TTC-GAGGCTAAAAATGGAATTTTTAGAA-TTCGGGGAT-AAAA
* * * *
338095 TGG-AATTTTGGGAAGTTTCGGGGT-TAAAATGG-GATTTTTGGA-AGTTCGGGGCT
61 TGGTAATTTT-GGAAGTTTCGAGGTCAAAAATGGAG-TTTTTGGACA-TCCGGGGGT
* *
338148 AAAATGGAATTTTTGGAAGTTCGGGGCTAAAAATGGAATTTT
1 AAAATGGAATTTTAGGAAGTTCGAGGCTAAAAATGGAATTTT
338190 GGGAAGTTTC
Statistics
Matches: 235, Mismatches: 30, Indels: 24
0.81 0.10 0.08
Matches are distributed among these distances:
114 3 0.01
115 29 0.12
116 21 0.09
117 70 0.30
118 98 0.42
119 14 0.06
ACGTcount: A:0.33, C:0.06, G:0.28, T:0.33
Consensus pattern (114 bp):
AAAATGGAATTTTAGGAAGTTCGAGGCTAAAAATGGAATTTTTAGAATTCGGGGATAAAATGGTA
ATTTTGGAAGTTTCGAGGTCAAAAATGGAGTTTTTGGACATCCGGGGGT
Found at i:338032 original size:264 final size:264
Alignment explanation
Indices: 337561--338248 Score: 1056
Period size: 264 Copynumber: 2.6 Consensus size: 264
337551 AATTCGGGGT
*
337561 TAAAAATTAAATTTTTAGATATTTAGGGGTAAAAGGGTAATTTTGAGAGTTTCGAGGTCGAAAAT
1 TAAAAATTAAATTTTTAGATATTTAGGGATAAAAGGGTAATTTTGAGAGTTTCGAGGTCGAAAAT
337626 GGAGTTTTTGGACATCCAGGGGTAAAATGGTAATTTTAGGAAGTTACGAGGTTAAAAATGGAGTT
66 GGAGTTTTTGGACATCCAGGGGTAAAATGGTAATTTTAGGAAGTTACGAGGTTAAAAATGGAGTT
337691 TTTGGACATTCGGGGGTAAAATGGTAATTTTAGGAAGTTTTGAAGTCAAAAATGGAGTTTTTGGA
131 TTTGGACATTCGGGGGTAAAATGGTAATTTTAGGAAGTTTTGAAGTCAAAAATGGAGTTTTTGGA
337756 CATCCAGGGGTAAAATGGTAATTTTAGGAAGTTTCAGAGTCAAAAATGGAATTTTTAGAAGTTCG
196 CATCCAGGGGTAAAATGGTAATTTTAGGAAGTTTCAGAGTCAAAAATGGAATTTTTAGAAGTTCG
337821 AGGC
261 AGGC
337825 TAAAAATTAAATTTTTAGATATTTAGGGATAAAAGGGTAATTTTGAGAGTTTCGAGGTCGAAAAT
1 TAAAAATTAAATTTTTAGATATTTAGGGATAAAAGGGTAATTTTGAGAGTTTCGAGGTCGAAAAT
337890 GGAGTTTTTGGACATCCAGGGGTAAAATGGTAATTTTAGGAAGTTACGAGGTTAAAAATGGAGTT
66 GGAGTTTTTGGACATCCAGGGGTAAAATGGTAATTTTAGGAAGTTACGAGGTTAAAAATGGAGTT
337955 TTTGGACATTCGGGGGTAAAATGGTAATTTTAGGAAGTTTTGAAGTCAAAAATGGAGTTTTTGGA
131 TTTGGACATTCGGGGGTAAAATGGTAATTTTAGGAAGTTTTGAAGTCAAAAATGGAGTTTTTGGA
*
338020 CATCCGGGGGTAAAATGGTAATTTTAGGAAGTTTCAGAGTCAAAAATGGAATTTTTAGAAGTTCG
196 CATCCAGGGGTAAAATGGTAATTTTAGGAAGTTTCAGAGTCAAAAATGGAATTTTTAGAAGTTCG
338085 AGGC
261 AGGC
** ** * * * * *
338089 TAAAAATGGAATTTTGGGA-AGTTTCGGGGTTAAAATGGG-ATTTTTG-GAAG-TTCG-GGGCTA
1 TAAAAATTAAATTTTTAGATA-TTT-AGGGATAAAA-GGGTAATTTTGAG-AGTTTCGAGGTCGA
* * * * *
338149 AAATGGAATTTTTGGA-AGTTC-GGGGCTAAAAATGG-AATTTTGGGAAGTTTCGAGGTCAAAAA
62 AAATGGAGTTTTTGGACA-TCCAGGGG-T-AAAATGGTAATTTTAGGAAGTTACGAGGTTAAAAA
*
338211 -CGAGATTTTTGGA-AGTTCGGGGGTAAAAATGG-AATTTT
124 TGGAG-TTTTTGGACA-TTCGGGGGT-AAAATGGTAATTTT
338249 TGAAAAGCTT
Statistics
Matches: 397, Mismatches: 17, Indels: 21
0.91 0.04 0.05
Matches are distributed among these distances:
262 9 0.02
263 70 0.18
264 299 0.75
265 16 0.04
266 3 0.01
ACGTcount: A:0.33, C:0.06, G:0.28, T:0.32
Consensus pattern (264 bp):
TAAAAATTAAATTTTTAGATATTTAGGGATAAAAGGGTAATTTTGAGAGTTTCGAGGTCGAAAAT
GGAGTTTTTGGACATCCAGGGGTAAAATGGTAATTTTAGGAAGTTACGAGGTTAAAAATGGAGTT
TTTGGACATTCGGGGGTAAAATGGTAATTTTAGGAAGTTTTGAAGTCAAAAATGGAGTTTTTGGA
CATCCAGGGGTAAAATGGTAATTTTAGGAAGTTTCAGAGTCAAAAATGGAATTTTTAGAAGTTCG
AGGC
Found at i:338194 original size:29 final size:28
Alignment explanation
Indices: 337499--338250 Score: 326
Period size: 29 Copynumber: 25.8 Consensus size: 28
337489 TGGAGTCCCG
*
337499 GGGGTAAAAATGGTAA-TTTTGG-ATTCTC
1 GGGGTAAAAATGG-AATTTTTGGAAGT-TC
* * *
337527 GGGGT-GAAATGGTAATTTTGGGAAAATTC
1 GGGGTAAAAATGG-AATTTTTGG-AAGTTC
** * * *
337556 GGGGTTAAAAATTAAATTTTTAGATATTTA
1 GGGG-TAAAAATGGAATTTTTGGA-AGTTC
*
337586 GGGGT-AAAAGGGTAA-TTTT-GAGAGTTTC
1 GGGGTAAAAATGG-AATTTTTGGA-AG-TTC
* * * *
337614 GAGGTCGAAAATGGAGTTTTTGGACA-TCC
1 GGGGT-AAAAATGGAATTTTTGGA-AGTTC
*
337643 AGGGGT-AAAATGGTAATTTTAGGAAGTTAC
1 -GGGGTAAAAATGG-AATTTTTGGAAGTT-C
* *
337673 GAGGTTAAAAATGGAGTTTTTGGACA-TTC
1 G-GGGTAAAAATGGAATTTTTGGA-AGTTC
* *
337702 GGGGGT-AAAATGGTAATTTTAGGAAGTTTT
1 -GGGGTAAAAATGG-AATTTTTGGAAG-TTC
** * *
337732 GAAGTCAAAAATGGAGTTTTTGGACA-TCC
1 GGGGT-AAAAATGGAATTTTTGGA-AGTTC
*
337761 AGGGGT-AAAATGGTAATTTTAGGAAGTTTC
1 -GGGGTAAAAATGG-AATTTTTGGAAG-TTC
* * *
337791 AGAGTCAAAAATGGAATTTTTAGAAGTTC
1 GGGGT-AAAAATGGAATTTTTGGAAGTTC
* ** * * *
337820 GAGGCTAAAAATTAAATTTTTAGATATTTA
1 G-GGGTAAAAATGGAATTTTTGGA-AGTTC
* *
337850 GGGAT-AAAAGGGTAA-TTTT-GAGAGTTTC
1 GGGGTAAAAATGG-AATTTTTGGA-AG-TTC
* * * *
337878 GAGGTCGAAAATGGAGTTTTTGGACA-TCC
1 GGGGT-AAAAATGGAATTTTTGGA-AGTTC
*
337907 AGGGGT-AAAATGGTAATTTTAGGAAGTTAC
1 -GGGGTAAAAATGG-AATTTTTGGAAGTT-C
* *
337937 GAGGTTAAAAATGGAGTTTTTGGACA-TTC
1 G-GGGTAAAAATGGAATTTTTGGA-AGTTC
* *
337966 GGGGGT-AAAATGGTAATTTTAGGAAGTTTT
1 -GGGGTAAAAATGG-AATTTTTGGAAG-TTC
** * *
337996 GAAGTCAAAAATGGAGTTTTTGGACA-TCC
1 GGGGT-AAAAATGGAATTTTTGGA-AGTTC
*
338025 GGGGGT-AAAATGGTAATTTTAGGAAGTTTC
1 -GGGGTAAAAATGG-AATTTTTGGAAG-TTC
* * *
338055 AGAGTCAAAAATGGAATTTTTAGAAGTTC
1 GGGGT-AAAAATGGAATTTTTGGAAGTTC
* *
338084 GAGGCTAAAAATGGAATTTTGGGAAGTTTC
1 G-GGGTAAAAATGGAATTTTTGGAAG-TTC
* *
338114 GGGGTTAAAATGGGATTTTTGGAAGTTC
1 GGGGTAAAAATGGAATTTTTGGAAGTTC
338142 GGGGCT-AAAATGGAATTTTTGGAAGTTC
1 GGGG-TAAAAATGGAATTTTTGGAAGTTC
*
338170 GGGGCTAAAAATGGAATTTTGGGAAGTTTC
1 GGGG-TAAAAATGGAATTTTTGGAAG-TTC
* *
338200 GAGGTCAAAAA-CGAGATTTTTGGAAGTTC
1 GGGGT-AAAAATGGA-ATTTTTGGAAGTTC
338229 GGGGGTAAAAATGGAATTTTTG
1 -GGGGTAAAAATGGAATTTTTG
338251 AAAAGCTTAA
Statistics
Matches: 546, Mismatches: 109, Indels: 137
0.69 0.14 0.17
Matches are distributed among these distances:
27 15 0.03
28 119 0.22
29 192 0.35
30 164 0.30
31 56 0.10
ACGTcount: A:0.33, C:0.06, G:0.29, T:0.32
Consensus pattern (28 bp):
GGGGTAAAAATGGAATTTTTGGAAGTTC
Done.