Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01015018.1 Kokia drynarioides strain JFW-HI SEQ_130062, 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: 425449
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 308 characters in sequence are not A, C, G, or T
Found at i:6726 original size:21 final size:22
Alignment explanation
Indices: 6697--6739 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
6687 TATTAATTAT
*
6697 AAATAGGTTTAA-TAAAGGTTAA
1 AAATAGG-TTAATTAAAGCTTAA
6719 AAAT-GGTTAATTAAAGCTTAA
1 AAATAGGTTAATTAAAGCTTAA
6740 TGATGAAAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 4 0.21
21 11 0.58
22 4 0.21
ACGTcount: A:0.49, C:0.02, G:0.16, T:0.33
Consensus pattern (22 bp):
AAATAGGTTAATTAAAGCTTAA
Found at i:11191 original size:3 final size:3
Alignment explanation
Indices: 11183--11211 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
11173 TTTTATATAT
11183 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
11212 TATGTCTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:11424 original size:14 final size:15
Alignment explanation
Indices: 11405--11433 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
11395 TTTGGTTAAT
11405 TAAAAAATT-TTGAA
1 TAAAAAATTATTGAA
11419 TAAAAAATTATTGAA
1 TAAAAAATTATTGAA
11434 AATTAATTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.34
Consensus pattern (15 bp):
TAAAAAATTATTGAA
Found at i:27080 original size:58 final size:58
Alignment explanation
Indices: 27011--27130 Score: 170
Period size: 58 Copynumber: 2.1 Consensus size: 58
27001 AAAAGGAGTT
* * *
27011 GTTTATAAGTGTCATTT-AGGAATAAAATTATATTTGGGTTTAAAAATATTTGGGTTTA
1 GTTTATAAGTGT-ATTTGAAGAATAAAATTATATTTGGATTTAAAAATATTTGAGTTTA
* * *
27069 GTTTATGAGTGTTTTTGAAGAATGAAATTATATTTGGATTTAAAAATATTTGAGTTTA
1 GTTTATAAGTGTATTTGAAGAATAAAATTATATTTGGATTTAAAAATATTTGAGTTTA
27127 GTTT
1 GTTT
27131 GTTGATGGGT
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
57 3 0.05
58 52 0.95
ACGTcount: A:0.33, C:0.01, G:0.19, T:0.47
Consensus pattern (58 bp):
GTTTATAAGTGTATTTGAAGAATAAAATTATATTTGGATTTAAAAATATTTGAGTTTA
Found at i:41529 original size:55 final size:55
Alignment explanation
Indices: 41422--41529 Score: 135
Period size: 55 Copynumber: 2.0 Consensus size: 55
41412 TAGACGTGTT
* * * * *
41422 ACATAATAATCGATTTAAACATATAAACAATTGATTCAAAAGAAACAGTATTTCA
1 ACATAACAATCGATTTAAACATAAAAACAATCGATCCAAAAGAAACAATATTTCA
* * * *
41477 ACATAACAATCGATTTAGATATAAAAACAATCGATCCAATAGAAGCAATATTT
1 ACATAACAATCGATTTAAACATAAAAACAATCGATCCAAAAGAAACAATATTT
41530 TTAAGAAATT
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
55 44 1.00
ACGTcount: A:0.50, C:0.14, G:0.08, T:0.28
Consensus pattern (55 bp):
ACATAACAATCGATTTAAACATAAAAACAATCGATCCAAAAGAAACAATATTTCA
Found at i:51157 original size:24 final size:23
Alignment explanation
Indices: 51119--51206 Score: 69
Period size: 24 Copynumber: 4.0 Consensus size: 23
51109 TTAATATATG
* *
51119 AAATATTAATTTTAAATATTTCT
1 AAATATTAATATTAAATATTTAT
*
51142 AAATAATTAATATTAATTATTTAT
1 AAAT-ATTAATATTAAATATTTAT
* *
51166 AAA-ATTTA-ATTAAA-ATATAT
1 AAATATTAATATTAAATATTTAT
*
51186 -AA-ATTATATTTTAAATATTTA
1 AAATATTA-ATATTAAATATTTA
51207 AATATAATCA
Statistics
Matches: 52, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
19 5 0.10
20 6 0.12
21 10 0.19
22 8 0.15
23 4 0.08
24 19 0.37
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (23 bp):
AAATATTAATATTAAATATTTAT
Found at i:64733 original size:13 final size:13
Alignment explanation
Indices: 64715--64740 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
64705 TGCTAGGAAG
64715 CCTTTACTTGACC
1 CCTTTACTTGACC
64728 CCTTTACTTGACC
1 CCTTTACTTGACC
64741 AGGTACTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.38, G:0.08, T:0.38
Consensus pattern (13 bp):
CCTTTACTTGACC
Found at i:71931 original size:2 final size:2
Alignment explanation
Indices: 71924--71950 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
71914 TATGAAGTAT
71924 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
71951 TCATCCAAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:74569 original size:24 final size:24
Alignment explanation
Indices: 74518--74569 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
74508 TAATTTGAGT
* ** **
74518 TAAATTAAATTAAATATATTTATT
1 TAAATTAAATTAAAGATAAATAGG
74542 TAAATTAAATTAAAGATAAATAGG
1 TAAATTAAATTAAAGATAAATAGG
74566 TAAA
1 TAAA
74570 AAAAATAATC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (24 bp):
TAAATTAAATTAAAGATAAATAGG
Found at i:75263 original size:28 final size:28
Alignment explanation
Indices: 75209--75261 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
75199 TGTTCACTTC
75209 TCTCAAATTAGTACTTATGAATTTTTTG
1 TCTCAAATTAGTACTTATGAATTTTTTG
*
75237 TCTCAGATTAGTAC-T-TGAATTTTTT
1 TCTCAAATTAGTACTTATGAATTTTTT
75262 TTTCGTCCAC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 10 0.42
27 1 0.04
28 13 0.54
ACGTcount: A:0.26, C:0.11, G:0.11, T:0.51
Consensus pattern (28 bp):
TCTCAAATTAGTACTTATGAATTTTTTG
Found at i:75533 original size:25 final size:27
Alignment explanation
Indices: 75482--75535 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 27
75472 TCAATTCCTC
*
75482 TTTTGTTTGTTAAACACATTTTCTCTT
1 TTTTGTTTGCTAAACACATTTTCTCTT
* *
75509 TTTTTTTTGCTAAAC-CCTTTT-TCTT
1 TTTTGTTTGCTAAACACATTTTCTCTT
75534 TT
1 TT
75536 CTATTTATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 6 0.25
26 5 0.21
27 13 0.54
ACGTcount: A:0.15, C:0.17, G:0.06, T:0.63
Consensus pattern (27 bp):
TTTTGTTTGCTAAACACATTTTCTCTT
Found at i:77671 original size:55 final size:55
Alignment explanation
Indices: 77601--77722 Score: 174
Period size: 55 Copynumber: 2.2 Consensus size: 55
77591 GTTTTTTATG
*
77601 TTTAAACCGATTGTCATGTTGAAATACT-GTTTCTTTTGAATAAATTATTTATATA
1 TTTAAACCGATTGTCATGTTGAAATACTACTTT-TTTTGAATAAATTATTTATATA
* * * *
77656 TTTAAACCGATTGTCATGTTGGAATGCTACTTTTTTTGAATAAATTGTTTATATG
1 TTTAAACCGATTGTCATGTTGAAATACTACTTTTTTTGAATAAATTATTTATATA
*
77711 TTTAAATCGATT
1 TTTAAACCGATT
77723 ATTACGTAAC
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
55 57 0.95
56 3 0.05
ACGTcount: A:0.30, C:0.09, G:0.13, T:0.48
Consensus pattern (55 bp):
TTTAAACCGATTGTCATGTTGAAATACTACTTTTTTTGAATAAATTATTTATATA
Found at i:81910 original size:2 final size:2
Alignment explanation
Indices: 81905--81942 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
81895 ATATATATAT
81905 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
81943 GGGCACTTAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:93489 original size:2 final size:2
Alignment explanation
Indices: 93484--93511 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
93474 CATGTCTCCA
93484 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
93512 ATACACTTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:95996 original size:2 final size:2
Alignment explanation
Indices: 95991--96019 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
95981 ATATAAAAAT
95991 AG AG AG AG AG AG AG -G AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
96020 GTTTTTTGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
AG
Found at i:96010 original size:13 final size:13
Alignment explanation
Indices: 95992--96017 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
95982 TATAAAAATA
95992 GAGAGAGAGAGAG
1 GAGAGAGAGAGAG
96005 GAGAGAGAGAGAG
1 GAGAGAGAGAGAG
96018 AGGTTTTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.54, T:0.00
Consensus pattern (13 bp):
GAGAGAGAGAGAG
Found at i:96011 original size:15 final size:15
Alignment explanation
Indices: 95991--96020 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
95981 ATATAAAAAT
95991 AGAGAGAGAGAGAGG
1 AGAGAGAGAGAGAGG
96006 AGAGAGAGAGAGAGG
1 AGAGAGAGAGAGAGG
96021 TTTTTTGGAG
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:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (15 bp):
AGAGAGAGAGAGAGG
Found at i:99961 original size:110 final size:110
Alignment explanation
Indices: 99767--100256 Score: 552
Period size: 110 Copynumber: 4.5 Consensus size: 110
99757 ACCATATTAT
* * ** * * * * *
99767 AGAATCCGCAACACATGCAGGATCTTAAGTTATCGTTATGTTATGTATCACCAGTACATAATACC
1 AGAATCCGCAACATATGCAGGATCTCAAGCCATCGCTATGGTCTGTATCACCGGTACATAGTACC
* * * * *
99832 TGTTAAATAATCACCGGCTCACGAGGTTACTCATACAAGCTGCA-
66 TGCTAAATAATCACTGGCTCACGATGCTACTCACACAAGCTGCAG
* * *
99876 ATGAATCCACAACATATGCAGGATCTCAA-CCTATCGCTATGGTTTGTATAACCGGTACATAGTA
1 A-GAATCCGCAACATATGCAGGATCTCAAGCC-ATCGCTATGGTCTGTATCACCGGTACATAGTA
*
99940 CCTGCTAAATAATCATTGGCTCACGATGCTACTCACACAAGCTGCAG
64 CCTGCTAAATAATCACTGGCTCACGATGCTACTCACACAAGCTGCAG
** * * * * * * * *
99987 AGAATTTGCAATATATACATGATATTAAGCCATCGCTACGGTCTGTATCACTGGTATATAGTACC
1 AGAATCCGCAACATATGCAGGATCTCAAGCCATCGCTATGGTCTGTATCACCGGTACATAGTACC
* * * * *
100052 TGCTAAATAATCACAGGATCACAATACTGCTCACACAAGCTGCAG
66 TGCTAAATAATCACTGGCTCACGATGCTACTCACACAAGCTGCAG
* * * *
100097 AGAATCCGTAACATATGCAGGATCTCAAGCCATCGTTACGGTCTGTATCACCGATACATAGTACC
1 AGAATCCGCAACATATGCAGGATCTCAAGCCATCGCTATGGTCTGTATCACCGGTACATAGTACC
* * * * * *
100162 TGCTAAATAATCACTGACTCACGATGTTGCTCACATAAACTGTAG
66 TGCTAAATAATCACTGGCTCACGATGCTACTCACACAAGCTGCAG
*
100207 AGAATCCGCAACATACGCAGGATCTCAAGCCATCGCTATGGTCTGTATCA
1 AGAATCCGCAACATATGCAGGATCTCAAGCCATCGCTATGGTCTGTATCA
100257 TTGGCTTAAA
Statistics
Matches: 316, Mismatches: 61, Indels: 7
0.82 0.16 0.02
Matches are distributed among these distances:
109 1 0.00
110 312 0.99
111 3 0.01
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.26
Consensus pattern (110 bp):
AGAATCCGCAACATATGCAGGATCTCAAGCCATCGCTATGGTCTGTATCACCGGTACATAGTACC
TGCTAAATAATCACTGGCTCACGATGCTACTCACACAAGCTGCAG
Found at i:105793 original size:2 final size:2
Alignment explanation
Indices: 105786--105817 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
105776 CCAAAAGGTT
105786 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
105818 GAGTATGAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:114948 original size:5 final size:5
Alignment explanation
Indices: 114940--114966 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
114930 TCTCTTCCCC
114940 AATAA AATAA AATAA AATAA AATAA AA
1 AATAA AATAA AATAA AATAA AATAA AA
114967 AGAGGAAGTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:116207 original size:23 final size:24
Alignment explanation
Indices: 116181--116226 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
116171 CATTATACGA
116181 TACTATAT-TGTCATATT-ATAATC
1 TACTATATATGT-ATATTGATAATC
116204 TACTATATATGTATATTGATAAT
1 TACTATATATGTATATTGATAAT
116227 TAATAAAATG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 13 0.62
24 8 0.38
ACGTcount: A:0.37, C:0.09, G:0.07, T:0.48
Consensus pattern (24 bp):
TACTATATATGTATATTGATAATC
Found at i:122437 original size:20 final size:20
Alignment explanation
Indices: 122403--122452 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
122393 AAAGCACTTT
122403 AAATTC-AAAAAATAAA-AA
1 AAATTCTAAAAAATAAACAA
* *
122421 AGATTTTAAAAATATAAACAA
1 AAATTCTAAAAA-ATAAACAA
122442 AAATTCTAAAA
1 AAATTCTAAAA
122453 TTCAATGTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
18 4 0.16
19 5 0.20
20 5 0.20
21 11 0.44
ACGTcount: A:0.68, C:0.06, G:0.02, T:0.24
Consensus pattern (20 bp):
AAATTCTAAAAAATAAACAA
Found at i:122453 original size:20 final size:19
Alignment explanation
Indices: 122403--122453 Score: 50
Period size: 20 Copynumber: 2.6 Consensus size: 19
122393 AAAGCACTTT
*
122403 AAATTC-AAAAAATAAAAA
1 AAATTCTAAAATATAAAAA
* *
122421 AGATTTTAAAAATATAAACAA
1 AAATTCT-AAAATATAAA-AA
122442 AAATTCTAAAAT
1 AAATTCTAAAAT
122454 TCAATGTTAT
Statistics
Matches: 25, Mismatches: 5, Indels: 4
0.74 0.15 0.12
Matches are distributed among these distances:
18 4 0.16
20 14 0.56
21 7 0.28
ACGTcount: A:0.67, C:0.06, G:0.02, T:0.25
Consensus pattern (19 bp):
AAATTCTAAAATATAAAAA
Found at i:128013 original size:34 final size:36
Alignment explanation
Indices: 127960--128039 Score: 160
Period size: 36 Copynumber: 2.2 Consensus size: 36
127950 ACGACGACGA
127960 CGCGCGACCCATGGAGAGAGAAAAGATATACTAAAG
1 CGCGCGACCCATGGAGAGAGAAAAGATATACTAAAG
127996 CGCGCGACCCATGGAGAGAGAAAAGATATACTAAAG
1 CGCGCGACCCATGGAGAGAGAAAAGATATACTAAAG
128032 CGCGCGAC
1 CGCGCGAC
128040 ACAGAGAAGG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 44 1.00
ACGTcount: A:0.39, C:0.23, G:0.29, T:0.10
Consensus pattern (36 bp):
CGCGCGACCCATGGAGAGAGAAAAGATATACTAAAG
Found at i:128382 original size:20 final size:20
Alignment explanation
Indices: 128357--128394 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
128347 AATAATAAAA
*
128357 CAATCACTCAACTTTCAATT
1 CAATCACCCAACTTTCAATT
128377 CAATCACCCAACTTTCAA
1 CAATCACCCAACTTTCAA
128395 AAAATAACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.37, C:0.34, G:0.00, T:0.29
Consensus pattern (20 bp):
CAATCACCCAACTTTCAATT
Found at i:128490 original size:32 final size:32
Alignment explanation
Indices: 128453--128533 Score: 119
Period size: 32 Copynumber: 2.5 Consensus size: 32
128443 AAAAAGTGAC
128453 TTGTCATTTAACCGACCACGTTAG-AGCCCTTG
1 TTGTCATTTAACCGACCACGTTAGCAG-CCTTG
**
128485 TTGTCATTTAACCGACCACGTTAGCAGGTTTG
1 TTGTCATTTAACCGACCACGTTAGCAGCCTTG
*
128517 TTGTCATTTAAACGACC
1 TTGTCATTTAACCGACC
128534 CCATTTAATA
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
32 43 0.96
33 2 0.04
ACGTcount: A:0.23, C:0.25, G:0.19, T:0.33
Consensus pattern (32 bp):
TTGTCATTTAACCGACCACGTTAGCAGCCTTG
Found at i:130517 original size:31 final size:29
Alignment explanation
Indices: 130482--130543 Score: 79
Period size: 31 Copynumber: 2.1 Consensus size: 29
130472 ATCTCAAAGT
*
130482 TATACATGAACTTTGATTTAACGTGTAATTA
1 TATACATGAACTTTAATTT-A-GTGTAATTA
* *
130513 TATACATTAATTTTAATTTAGTGTAATTA
1 TATACATGAACTTTAATTTAGTGTAATTA
130542 TA
1 TA
130544 CACGTGAAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 11 0.39
30 1 0.04
31 16 0.57
ACGTcount: A:0.37, C:0.06, G:0.10, T:0.47
Consensus pattern (29 bp):
TATACATGAACTTTAATTTAGTGTAATTA
Found at i:134128 original size:59 final size:59
Alignment explanation
Indices: 133936--134155 Score: 180
Period size: 60 Copynumber: 3.7 Consensus size: 59
133926 ATTGTCAGAT
* * * * * * * *
133936 AAAAAATTTAATTTTTTGGTGTTGATCATGCGATGACCGACGC-TCCTATTTATCT-ATA
1 AAAAAATTAAATTTTTTGGTGTTGGTTATGCAATG-GCGACACAACTTATTTATCTAATA
** * * ** *
133994 AAAAAATTAAATTTTTAAGTGTTGGTTATGTAATGATCGACATCCCCTTTTTTAT-TAGAT-
1 AAAAAATTAAATTTTTTGGTGTTGGTTATGCAATG-GCGACA-CAACTTATTTATCTA-ATA
* * *
134054 AAAAAATTCAGTTTTTTGGTGCTGGTTATGCAATGGCGACA-AACTTATTTATCTAATAA
1 AAAAAATTAAATTTTTTGGTGTTGGTTATGCAATGGCGACACAACTTATTTATCTAAT-A
*
134113 AAAAAATTAAATTTTTTGGTGTTAGTTATGCAATGGTCGACAC
1 AAAAAATTAAATTTTTTGGTGTTGGTTATGCAATGG-CGACAC
134156 TTTTTTTTTG
Statistics
Matches: 127, Mismatches: 26, Indels: 15
0.76 0.15 0.09
Matches are distributed among these distances:
57 10 0.08
58 35 0.28
59 39 0.31
60 41 0.32
61 2 0.02
ACGTcount: A:0.33, C:0.12, G:0.16, T:0.40
Consensus pattern (59 bp):
AAAAAATTAAATTTTTTGGTGTTGGTTATGCAATGGCGACACAACTTATTTATCTAATA
Found at i:134179 original size:59 final size:58
Alignment explanation
Indices: 133993--134163 Score: 155
Period size: 59 Copynumber: 2.9 Consensus size: 58
133983 ATTTATCTAT
** * * ** *
133993 AAAAAAATTAAATTTTTAAGTGTTGGTTATGTAATGATCGACATCCCCTTTTTTATTAGA
1 AAAAAAATTAAATTTTTTGGTGTTGGTTATGCAATGGTCGACA--CTTTTTTTTATAAGA
* * * * * * * *
134053 TAAAAAATTCAGTTTTTTGGTGCTGGTTATGCAATGG-CGACAAACTTATTTATCTAATA
1 AAAAAAATTAAATTTTTTGGTGTTGGTTATGCAATGGTCGAC--ACTTTTTTTTATAAGA
*
134112 AAAAAAATTAAATTTTTTGGTGTTAGTTATGCAATGGTCGACACTTTTTTTT
1 AAAAAAATTAAATTTTTTGGTGTTGGTTATGCAATGGTCGACACTTTTTTTT
134164 TGTCAGAGAA
Statistics
Matches: 86, Mismatches: 22, Indels: 8
0.74 0.19 0.07
Matches are distributed among these distances:
58 8 0.09
59 44 0.51
60 33 0.38
61 1 0.01
ACGTcount: A:0.33, C:0.10, G:0.15, T:0.42
Consensus pattern (58 bp):
AAAAAAATTAAATTTTTTGGTGTTGGTTATGCAATGGTCGACACTTTTTTTTATAAGA
Found at i:134282 original size:105 final size:102
Alignment explanation
Indices: 134099--134551 Score: 339
Period size: 105 Copynumber: 4.3 Consensus size: 102
134089 GCGACAAACT
* *
134099 TATTTATCTAATAAAAAAAATTAAATTTTTTGGTGTTAGTTATGCAATGGTCGACACTTTTTTTT
1 TATTTATCTAAT-AAAAAAATTAAA-TTTTTGGTG-TGGTCATGCAATGGTCGACACTTTTTTTT
* *
134164 TGTCA-GAGA-AAAAATTTTAAATTTTGTGTTGTTCATTCCC
63 T-T-ATAAGATAAAAATTTTAAATTTTGTGTTGATCATTCCC
*
134204 TATTTATCTAATAAAAAAATTAAAATTTTTGGATGTGGTCCAGGCAATGGTCGACACTTTTTTTT
1 TATTTATCTAATAAAAAAATT-AAATTTTTGG-TGTGGT-CATGCAATGGTCGACACTTTTTTTT
* * * * *
134269 TTATAAGATAAAAA-ATTCAATTTTTTGCATGATCA-ACACTC
63 TTATAAGATAAAAATTTTAAATTTTGTG-TTGATCATTC-C-C
* * *
134310 TTATTTATTTTATAAAAAAAAATTAAATTTTTGGGTGTGGATCATGCAATGGTCGACA-TTCTCT
1 -TATTTA-TCTA-ATAAAAAAATTAAATTTTT-GGTGTGG-TCATGCAATGGTCGACACTT-TTT
* * *
134374 TTTTTGTTAGATAAAAATTTTAAATTTTTGGTGTTGGTCATTCCC
60 TTTTTATAAGATAAAAATTTTAAA-TTTT-GTGTTGATCATTCCC
* * ***
134419 AATTTATCTGATAAAAAAATTAAATTTTTGGGTGTTGGGT-ATGCAATGGGT-GACA-TCGCTTT
1 TATTTATCTAATAAAAAAATTAAATTTTT-GGTG-T-GGTCATGCAAT-GGTCGACACTTTTTTT
* * * ** **
134481 TTTATCAGATAAAAAATTTAATTTTTTGGTGTTGGGCA-TCTT
62 TTTATAAGATAAAAATTTTAA-ATTTT-GTGTTGATCATTCCC
* * *
134523 TATTTATTTGATAAAAAAATCAAATTTTT
1 TATTTATCTAATAAAAAAATTAAATTTTT
134552 TTGTGTTGGG
Statistics
Matches: 288, Mismatches: 38, Indels: 45
0.78 0.10 0.12
Matches are distributed among these distances:
103 1 0.00
104 62 0.22
105 88 0.31
106 36 0.12
107 15 0.05
108 55 0.19
109 18 0.06
110 10 0.03
111 3 0.01
ACGTcount: A:0.32, C:0.09, G:0.15, T:0.44
Consensus pattern (102 bp):
TATTTATCTAATAAAAAAATTAAATTTTTGGTGTGGTCATGCAATGGTCGACACTTTTTTTTTTA
TAAGATAAAAATTTTAAATTTTGTGTTGATCATTCCC
Found at i:134367 original size:213 final size:212
Alignment explanation
Indices: 134097--134508 Score: 534
Period size: 213 Copynumber: 1.9 Consensus size: 212
134087 TGGCGACAAA
* * *
134097 CTTATTTATCTAATAAAAAAAATTAAATTTTTTGGTGTTAGTTATGCAATGGTCGACACTT-T-T
1 CTTATTTATCTAATAAAAAAAATTAAATTTTTGGGTGTGAGTCATGCAATGGTCGACA-TTCTCT
* *
134160 TTTTTGTCAGAGAAAAAATTTTAAA-TTTT-GTGTTGTTCATTCCCTATTTATCTAATAAAAAAA
65 TTTTTGTCAGA-AAAAAATTTTAAATTTTTGGTGTTGGTCATTCCCAATTTATCTAATAAAAAAA
***
134223 TTAAAATTTTTGGATG-T-GGTCCAGGCAAT-GGTCGACACTTTTTTTTTTATAAGATAAAAAAT
129 TT-AAATTTTTGGATGTTGGGT--AGGCAATGGGT-GACA-TCGCTTTTTTATAAGATAAAAAAT
134285 TCAATTTTTTGCATGATCAACACT
189 TCAATTTTTTGCATGATCAACACT
* *
134309 CTTATTTATTTTATAAAAAAAAATTAAATTTTTGGGTGTG-GATCATGCAATGGTCGACATTCTC
1 CTTATTTATCTAAT-AAAAAAAATTAAATTTTTGGGTGTGAG-TCATGCAATGGTCGACATTCTC
* * *
134373 TTTTTTGTTAGATAAAAATTTTAAATTTTTGGTGTTGGTCATTCCCAATTTATCTGATAAAAAAA
64 TTTTTTGTCAGAAAAAAATTTTAAATTTTTGGTGTTGGTCATTCCCAATTTATCTAATAAAAAAA
* * * *
134438 TTAAATTTTTGGGTGTTGGGTATGCAATGGGTGACATCGCTTTTTTATCAGATAAAAAATTTAAT
129 TTAAATTTTTGGATGTTGGGTAGGCAATGGGTGACATCGCTTTTTTATAAGATAAAAAATTCAAT
134503 TTTTTG
194 TTTTTG
134509 GTGTTGGGCA
Statistics
Matches: 174, Mismatches: 17, Indels: 17
0.84 0.08 0.08
Matches are distributed among these distances:
212 15 0.09
213 82 0.47
214 37 0.21
215 37 0.21
216 3 0.02
ACGTcount: A:0.32, C:0.10, G:0.15, T:0.43
Consensus pattern (212 bp):
CTTATTTATCTAATAAAAAAAATTAAATTTTTGGGTGTGAGTCATGCAATGGTCGACATTCTCTT
TTTTGTCAGAAAAAAATTTTAAATTTTTGGTGTTGGTCATTCCCAATTTATCTAATAAAAAAATT
AAATTTTTGGATGTTGGGTAGGCAATGGGTGACATCGCTTTTTTATAAGATAAAAAATTCAATTT
TTTGCATGATCAACACT
Found at i:134402 original size:108 final size:105
Alignment explanation
Indices: 134097--134467 Score: 291
Period size: 108 Copynumber: 3.5 Consensus size: 105
134087 TGGCGACAAA
* * * * *
134097 CTTATTTATCTAAT-AAAAAAAATTAAATTTTTTGGTGT-TAGTTATGCAATGGTCGACACTTTT
1 CTTATTTATTTTATAAAAAAAAATTAAATTTTTGGGTGTGGA-TCATGCAATGGTCGACACTTTT
* * *
134160 TTTTTGTCAGAGA-AAAAATTTTAAATTTTGTGTTGTTCATTCC
65 TTTTTGT-A-AGATAAAAATTTTAAATTTT-TGATGATCATACC
* * * *
134203 C-TATTTA-TCTA-ATAAAAAAATTAAAATTTTTGGATGTGG-TCCAGGCAATGGTCGACACTTT
1 CTTATTTATTTTATAAAAAAAAATT-AAATTTTTGGGTGTGGAT-CATGCAATGGTCGACAC-TT
* * * *
134264 TTTTTTTATAAGATAAAAAATTCAATTTTTTGCATGATCA-ACAC
63 TTTTTTTGTAAGATAAAAATTTTAAATTTTTG-ATGATCATAC-C
134308 TCTTATTTATTTTATAAAAAAAAATTAAATTTTTGGGTGTGGATCATGCAATGGTCGACA-TTCT
1 -CTTATTTATTTTATAAAAAAAAATTAAATTTTTGGGTGTGGATCATGCAATGGTCGACACTT-T
* * * *
134372 CTTTTTTGTTAGATAAAAATTTTAAATTTTTGGTGTTGGTCATTCC
64 -TTTTTTGTAAGATAAAAATTTTAAA-TTTT--TGATGATCATACC
* * * *
134418 C-AATTTATCTGAT--AAAAAAATTAAATTTTTGGGTGTTGGGT-ATGCAATGG
1 CTTATTTATTTTATAAAAAAAAATTAAATTTTTGGGTG-TGGATCATGCAATGG
134468 GTGACATCGC
Statistics
Matches: 213, Mismatches: 32, Indels: 40
0.75 0.11 0.14
Matches are distributed among these distances:
104 17 0.08
105 53 0.25
106 45 0.21
107 11 0.05
108 62 0.29
109 16 0.08
110 6 0.03
111 3 0.01
ACGTcount: A:0.32, C:0.10, G:0.15, T:0.43
Consensus pattern (105 bp):
CTTATTTATTTTATAAAAAAAAATTAAATTTTTGGGTGTGGATCATGCAATGGTCGACACTTTTT
TTTTGTAAGATAAAAATTTTAAATTTTTGATGATCATACC
Found at i:134600 original size:104 final size:105
Alignment explanation
Indices: 134325--134613 Score: 289
Period size: 104 Copynumber: 2.7 Consensus size: 105
134315 TATTTTATAA
* * * * * * * *
134325 AAAAAAATTAAATTTTTGGGTG-TGGATCATGCAAT-GGTCGACATTCTCTTTTTTGTTAGATAA
1 AAAAAAATCAAATTTTTGGGTGTTGG-GCATACAATGGGT-GACA-TCGCCTTTTTATCAAATAA
* *
134388 AAATTTTAAATTTTTGGTGTTGGTCATTCCCAATTTATCTGAT
63 AAAATTTAAATTTTTGGTGTTGGGCATTCCCAATTTATCTGAT
* * * * *
134431 AAAAAAATTAAATTTTTGGGTGTTGGGTATGCAATGGGTGACATCGCTTTTTTATCAGATAAAAA
1 AAAAAAATCAAATTTTTGGGTGTTGGGCATACAATGGGTGACATCGCCTTTTTATCAAATAAAAA
* *** *
134496 ATTTAATTTTTTGGTGTTGGGCA-TCTTTATTTATTTGAT
66 ATTTAAATTTTTGGTGTTGGGCATTCCCAATTTATCTGAT
** *
134535 AAAAAAATCAAATTTTTTTGTGTTGGGCATACAATGGGTGACATC-CCTTTTTCTCAAATAAAAA
1 AAAAAAATCAAATTTTTGGGTGTTGGGCATACAATGGGTGACATCGCCTTTTTATCAAAT-AAAA
134599 AATTTTAAAATTTTT
65 AA-TTT-AAATTTTT
134614 TAATATTGGT
Statistics
Matches: 157, Mismatches: 21, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
103 11 0.07
104 58 0.37
105 42 0.27
106 40 0.25
107 6 0.04
ACGTcount: A:0.31, C:0.09, G:0.17, T:0.43
Consensus pattern (105 bp):
AAAAAAATCAAATTTTTGGGTGTTGGGCATACAATGGGTGACATCGCCTTTTTATCAAATAAAAA
ATTTAAATTTTTGGTGTTGGGCATTCCCAATTTATCTGAT
Found at i:134695 original size:47 final size:43
Alignment explanation
Indices: 134644--134775 Score: 142
Period size: 41 Copynumber: 3.0 Consensus size: 43
134634 TCGACACTTT
134644 TTTTTTGCAGATAAAAAAAATTTAAACTTTTTTGGTGTTGACCACCC
1 TTTTTT-CAGAT-AAAAAAATTTAAA-TTTTTTGGTGTTGACCA-CC
* * * *
134691 TTTTTTCCAGATAAATAAATTTTAATTTTTT-TTG-TGGCCACC
1 TTTTTT-CAGATAAAAAAATTTAAATTTTTTGGTGTTGACCACC
*
134733 TTTTTTCAGATAAAAAATTTTCAAATTTTTTTGGTGTTGACCA
1 TTTTTTCAGATAAAAAAATTT-AAA-TTTTTTGGTGTTGACCA
134776 TGCAATGAAC
Statistics
Matches: 71, Mismatches: 10, Indels: 10
0.78 0.11 0.11
Matches are distributed among these distances:
41 13 0.18
42 10 0.14
43 11 0.15
44 4 0.06
45 11 0.15
46 11 0.15
47 11 0.15
ACGTcount: A:0.30, C:0.13, G:0.11, T:0.46
Consensus pattern (43 bp):
TTTTTTCAGATAAAAAAATTTAAATTTTTTGGTGTTGACCACC
Found at i:135120 original size:31 final size:31
Alignment explanation
Indices: 135077--135135 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
135067 CAATCAAATT
*
135077 TCGGGGTTGAATTATATACTGTCATGTGTTG
1 TCGGAGTTGAATTATATACTGTCATGTGTTG
135108 TCGGAGTTGAATTATATACTGTCATGTG
1 TCGGAGTTGAATTATATACTGTCATGTG
135136 AGGCGGTAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.22, C:0.10, G:0.27, T:0.41
Consensus pattern (31 bp):
TCGGAGTTGAATTATATACTGTCATGTGTTG
Found at i:135743 original size:17 final size:17
Alignment explanation
Indices: 135721--135776 Score: 66
Period size: 17 Copynumber: 3.5 Consensus size: 17
135711 AATTAAAAAA
135721 AAATTAGAATATATAGG
1 AAATTAGAATATATAGG
135738 AAATTAGAA-A-ATA--
1 AAATTAGAATATATAGG
* *
135751 AAATTAAAATATAAAGG
1 AAATTAGAATATATAGG
135768 AAATTAGAA
1 AAATTAGAA
135777 ATTAAATTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
13 8 0.25
14 1 0.03
15 5 0.16
16 1 0.03
17 17 0.53
ACGTcount: A:0.62, C:0.00, G:0.12, T:0.25
Consensus pattern (17 bp):
AAATTAGAATATATAGG
Found at i:135756 original size:30 final size:30
Alignment explanation
Indices: 135710--135819 Score: 125
Period size: 30 Copynumber: 3.7 Consensus size: 30
135700 AAGATAATAT
* *
135710 AAATTA-AAAA-AAAATTAGAATATATAGG
1 AAATTAGAAAATAAAATTAAAATATAAAGG
135738 AAATTAGAAAATAAAATTAAAATATAAAGG
1 AAATTAGAAAATAAAATTAAAATATAAAGG
* * * *
135768 AAATTAGAAATTAAATTTAAAATAAAAACG
1 AAATTAGAAAATAAAATTAAAATATAAAGG
* * *
135798 AAATTACAAATTAAATTTAAAA
1 AAATTAGAAAATAAAATTAAAA
135820 AGTAAATGGA
Statistics
Matches: 73, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
28 6 0.08
29 4 0.05
30 63 0.86
ACGTcount: A:0.65, C:0.02, G:0.07, T:0.26
Consensus pattern (30 bp):
AAATTAGAAAATAAAATTAAAATATAAAGG
Found at i:139698 original size:62 final size:61
Alignment explanation
Indices: 139560--140085 Score: 253
Period size: 60 Copynumber: 8.8 Consensus size: 61
139550 CAAATTAAAG
* * **
139560 GGGGTGTCGACCATTGCATGACCAACATC-CAAAAATTTG--ATTTTTTTATCAGATAAAAAA
1 GGGGTGTCGACCATTGCATGACTAACA-CAAAAAAATTTGAAATTTTTTTATTTGA-AAAAAA
139620 GGGGTGTCGACCATTGCATGACTAACACAAAAAAATTTTGAAATTTTTTTATTTGCAAAAAAA
1 GGGGTGTCGACCATTGCATGACTAACACAAAAAAA-TTTGAAATTTTTTTATTTG-AAAAAAA
* *
139683 -GGGTGTCAACCATTGCATGA-TAAACACAAAAAAAATTTGAAAATTTTTTATTTGGGAAAAAAA
1 GGGGTGTCGACCATTGCATGACT-AACAC-AAAAAAATTTGAAATTTTTTTATTT--GAAAAAAA
* * * * * * ** * *
139746 --AGTATCG-TCATTGCATGACCAACA-ATCAAAAATTTG-ATTTTTTTTATCAGATAAATA
1 GGGGTGTCGACCATTGCATGACTAACACA-AAAAAATTTGAAATTTTTTTATTTGAAAAAAA
** * * * *
139803 GGGGTGTCGGTCATTGCATG-GTCAACACCAAAAAA-TT-AAA-TTTTTTATCTAACAAAAAA
1 GGGGTGTCGACCATTGCATGACT-AACACAAAAAAATTTGAAATTTTTTTATTTGA-AAAAAA
* * * ** ** * *
139862 GAGGGTGTC-AGCTATTGCAT-AGCCAATACCCAAAAATTT--AATTTTTTTATCAGATAAATA
1 G-GGGTGTCGA-CCATTGCATGA-CTAACACAAAAAAATTTGAAATTTTTTTATTTGAAAAAAA
* * * * *
139922 GGGGTGTCGATCATTACATGGCCAACATC-AAAAAA-TT-AAA-GTTTTTATTTGACAAAAAA
1 GGGGTGTCGACCATTGCATGACTAACA-CAAAAAAATTTGAAATTTTTTTATTTGA-AAAAAA
* ** * ** **
139981 GGGGTGTCTG-TCATTGCATGAC-AACACCCAAAAATTTG-ATTTTTTTTATCAGATAAGTAA
1 GGGGTGTC-GACCATTGCATGACTAACACAAAAAAATTTGAAATTTTTTTATTTGA-AAAAAA
** * * *
140041 -GGGTGTCGGTCATTGCATGGCCAACATAAAAAAA-TTG-AATTTTTT
1 GGGGTGTCGACCATTGCATGACTAACACAAAAAAATTTGAAATTTTTT
140086 ATCTGACACT
Statistics
Matches: 364, Mismatches: 66, Indels: 73
0.72 0.13 0.15
Matches are distributed among these distances:
57 7 0.02
58 31 0.09
59 102 0.28
60 115 0.32
61 31 0.09
62 45 0.12
63 31 0.09
64 2 0.01
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.32
Consensus pattern (61 bp):
GGGGTGTCGACCATTGCATGACTAACACAAAAAAATTTGAAATTTTTTTATTTGAAAAAAA
Found at i:139715 original size:63 final size:62
Alignment explanation
Indices: 139561--139745 Score: 191
Period size: 62 Copynumber: 3.0 Consensus size: 62
139551 AAATTAAAGG
* * * * ** ** *
139561 GGGTGTCGACCATTGCATGACCAACATC-CAAAAATTTG--ATTTTTTTATCAGATAAAAAAG
1 GGGTGTCAACCATTGCATGACTAACA-CAAAAAAATTTGAAAATTTTTTATTTGGCAAAAAAA
* *
139621 GGGTGTCGACCATTGCATGACTAACACAAAAAAATTTTGAAATTTTTTTATTT-GCAAAAAAA
1 GGGTGTCAACCATTGCATGACTAACACAAAAAAA-TTTGAAAATTTTTTATTTGGCAAAAAAA
*
139683 GGGTGTCAACCATTGCATGA-TAAACACAAAAAAAATTTGAAAATTTTTTATTTGGGAAAAAAA
1 GGGTGTCAACCATTGCATGACT-AACAC-AAAAAAATTTGAAAATTTTTTATTTGGCAAAAAAA
139746 AGTATCGTCA
Statistics
Matches: 108, Mismatches: 10, Indels: 11
0.84 0.08 0.09
Matches are distributed among these distances:
59 1 0.01
60 30 0.28
61 5 0.05
62 47 0.44
63 25 0.23
ACGTcount: A:0.41, C:0.13, G:0.16, T:0.30
Consensus pattern (62 bp):
GGGTGTCAACCATTGCATGACTAACACAAAAAAATTTGAAAATTTTTTATTTGGCAAAAAAA
Found at i:139758 original size:61 final size:62
Alignment explanation
Indices: 139629--139782 Score: 172
Period size: 62 Copynumber: 2.5 Consensus size: 62
139619 AGGGGTGTCG
* * * *
139629 ACCATTGCATGACTAACACAAAAAAATTTTGAAATTTTTTTATTTGCAAAAAAAGGGTGTCA
1 ACCATTGCATGACTAACACAAAAAAAATTTGAAAATTTTTTATTTGCAAAAAAAGAGTATCA
*
139691 ACCATTGCATGA-TAAACACAAAAAAAATTTGAAAATTTTTTATTTGGGAAAAAAA-AGTATC-
1 ACCATTGCATGACT-AACACAAAAAAAATTTGAAAATTTTTTATTT-GCAAAAAAAGAGTATCA
** * **
139752 GTCATTGCATGACCAACA-ATCAAAAATTTGA
1 ACCATTGCATGACTAACACAAAAAAAATTTGA
139783 TTTTTTTTAT
Statistics
Matches: 79, Mismatches: 10, Indels: 8
0.81 0.10 0.08
Matches are distributed among these distances:
60 11 0.14
61 15 0.19
62 45 0.57
63 8 0.10
ACGTcount: A:0.45, C:0.13, G:0.12, T:0.30
Consensus pattern (62 bp):
ACCATTGCATGACTAACACAAAAAAAATTTGAAAATTTTTTATTTGCAAAAAAAGAGTATCA
Found at i:139847 original size:59 final size:59
Alignment explanation
Indices: 139560--140085 Score: 305
Period size: 59 Copynumber: 8.8 Consensus size: 59
139550 CAAATTAAAG
** * * *
139560 GGGGTGTCGACCATTGCATGACCAACATCCAAAAATTTG-ATTTTTTTATCAGATAAAAAA
1 GGGGTGTCGGTCATTGCATGGCCAACA-CCAAAAAATTGAATTTTTTTATCAGAT-AAATA
** * * * ** *
139620 GGGGTGTCGACCATTGCATGACTAACACAAAAAAATTTTGAAATTTTTTTATTTGCA-AAAAA
1 GGGGTGTCGGTCATTGCATGGCCAACACCAAAAAA--TTG-AATTTTTTTATCAG-ATAAATA
* *** *** * * ** ** *
139682 AGGGTGTCAACCATTGCATGATAAACACAAAAAAAATTTGAAAATTTTTTATTTGGGAAAAA
1 GGGGTGTCGGTCATTGCATGGCCAACAC-CAAAAAA-TTG-AATTTTTTTATCAGATAAATA
*** * * * * *
139744 AAAGTATC-GTCATTGCATGACCAACAATCAAAAATTTGATTTTTTTTATCAGATAAATA
1 GGGGTGTCGGTCATTGCATGGCCAAC-ACCAAAAAATTGAATTTTTTTATCAGATAAATA
* * * *
139803 GGGGTGTCGGTCATTGCATGGTCAACACCAAAAAATT-AAATTTTTTATCTA-ACAAAAAA
1 GGGGTGTCGGTCATTGCATGGCCAACACCAAAAAATTGAATTTTTTTATC-AGA-TAAATA
* * * * *
139862 GAGGGTGTCAG-CTATTGCATAGCCAATACCCAAAAATTTAATTTTTTTATCAGATAAATA
1 G-GGGTGTCGGTC-ATTGCATGGCCAACACCAAAAAATTGAATTTTTTTATCAGATAAATA
* * * * * * *
139922 GGGGTGTCGATCATTACATGGCCAACATCAAAAAATTAAAGTTTTTATT-TGACA-AAAAA
1 GGGGTGTCGGTCATTGCATGGCCAACACCAAAAAATTGAA-TTTTT-TTATCAGATAAATA
* * * * *
139981 GGGGTGTCTGTCATTGCAT-GACAACACCCAAAAATTTGATTTTTTTTATCAGATAAGTA
1 GGGGTGTCGGTCATTGCATGGCCAACA-CCAAAAAATTGAATTTTTTTATCAGATAAATA
* **
140040 AGGGTGTCGGTCATTGCATGGCCAACATAAAAAAATTGAATTTTTT
1 GGGGTGTCGGTCATTGCATGGCCAACACCAAAAAATTGAATTTTTT
140086 ATCTGACACT
Statistics
Matches: 366, Mismatches: 78, Indels: 45
0.75 0.16 0.09
Matches are distributed among these distances:
57 2 0.01
58 25 0.07
59 133 0.36
60 94 0.26
61 35 0.10
62 58 0.16
63 18 0.05
64 1 0.00
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.32
Consensus pattern (59 bp):
GGGGTGTCGGTCATTGCATGGCCAACACCAAAAAATTGAATTTTTTTATCAGATAAATA
Found at i:140048 original size:118 final size:119
Alignment explanation
Indices: 139752--140093 Score: 483
Period size: 118 Copynumber: 2.9 Consensus size: 119
139742 AAAAAGTATC
**
139752 GTCATTGCATGACCAACAATCAAAAATTTGATTTTTTTTATCAGATAAATAGGGGTGTCGGTCAT
1 GTCATTGCATGA-CAACACCCAAAAATTTGATTTTTTTTATCAGATAAATAGGGGTGTCGGTCAT
* * *
139817 TGCATGGTCAACACCAAAAAATTAAATTTTTTATCTAACAAAAAAGAGGGTGTCA
65 TGCATGGCCAACATCAAAAAATTAAATTTTTTATCTGACAAAAAAGAGGGTGTCA
* * * *
139872 G-CTATTGCATAGCCAATACCCAAAAATTT-AATTTTTTTATCAGATAAATAGGGGTGTCGATCA
1 GTC-ATTGCAT-GACAACACCCAAAAATTTGATTTTTTTTATCAGATAAATAGGGGTGTCGGTCA
* * * *
139935 TTACATGGCCAACATCAAAAAATTAAAGTTTTTATTTGACAAAAAAG-GGGTGTCT
64 TTGCATGGCCAACATCAAAAAATTAAATTTTTTATCTGACAAAAAAGAGGGTGTCA
* *
139990 GTCATTGCATGACAACACCCAAAAATTTGATTTTTTTTATCAGATAAGTAAGGGTGTCGGTCATT
1 GTCATTGCATGACAACACCCAAAAATTTGATTTTTTTTATCAGATAAATAGGGGTGTCGGTCATT
* *
140055 GCATGGCCAACATAAAAAAATTGAATTTTTTATCTGACA
66 GCATGGCCAACATCAAAAAATTAAATTTTTTATCTGACA
140094 CTGACACCAA
Statistics
Matches: 194, Mismatches: 24, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
117 16 0.08
118 81 0.42
119 75 0.39
120 21 0.11
121 1 0.01
ACGTcount: A:0.37, C:0.15, G:0.16, T:0.32
Consensus pattern (119 bp):
GTCATTGCATGACAACACCCAAAAATTTGATTTTTTTTATCAGATAAATAGGGGTGTCGGTCATT
GCATGGCCAACATCAAAAAATTAAATTTTTTATCTGACAAAAAAGAGGGTGTCA
Found at i:149510 original size:8 final size:8
Alignment explanation
Indices: 149498--149527 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
149488 AAGTAATTAA
149498 TTATTTAG
1 TTATTTAG
*
149506 ATATTTAG
1 TTATTTAG
149514 TTATTTAG
1 TTATTTAG
149522 TTATTT
1 TTATTT
149528 GAGAGAGTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.27, C:0.00, G:0.10, T:0.63
Consensus pattern (8 bp):
TTATTTAG
Found at i:152466 original size:18 final size:18
Alignment explanation
Indices: 152421--152467 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
152411 AAATTTCAAT
*
152421 AAATAAAAGATGTAAAAA
1 AAATAAAATATGTAAAAA
*
152439 AATATTAAATAT-TAAAATA
1 AA-ATAAAATATGTAAAA-A
152458 AAATAAAATA
1 AAATAAAATA
152468 AATTTTTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
18 14 0.58
19 10 0.42
ACGTcount: A:0.70, C:0.00, G:0.04, T:0.26
Consensus pattern (18 bp):
AAATAAAATATGTAAAAA
Found at i:156356 original size:15 final size:15
Alignment explanation
Indices: 156321--156360 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
156311 CGTTTCTCGC
*
156321 TAAAATTACTT-TTA
1 TAAAATTATTTGTTA
156335 TAAAATTATTTGTTA
1 TAAAATTATTTGTTA
*
156350 TATAATTATTT
1 TAAAATTATTT
156361 TTTCATTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 10 0.43
15 13 0.57
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.55
Consensus pattern (15 bp):
TAAAATTATTTGTTA
Found at i:168234 original size:22 final size:23
Alignment explanation
Indices: 168206--168252 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 23
168196 TATAAATAAA
168206 TTTTATTTA-ATATAAAATTATT
1 TTTTATTTATATATAAAATTATT
*
168228 TTTTATTTATTATATAAATTTATT
1 TTTTATTTA-TATATAAAATTATT
168252 T
1 T
168253 AATAAAATTG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 9 0.41
24 13 0.59
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (23 bp):
TTTTATTTATATATAAAATTATT
Found at i:168292 original size:22 final size:23
Alignment explanation
Indices: 168241--168294 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 23
168231 TATTTATTAT
168241 ATAAAT-TTATTTAATAAAATTG
1 ATAAATCTTATTTAATAAAATTG
*
168263 A-AATTCTTATTT-AT-AAATATG
1 ATAAATCTTATTTAATAAAAT-TG
168284 ATAAATCTTAT
1 ATAAATCTTAT
168295 AAATAATAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
20 4 0.15
21 8 0.30
22 15 0.56
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (23 bp):
ATAAATCTTATTTAATAAAATTG
Found at i:168410 original size:13 final size:13
Alignment explanation
Indices: 168372--168411 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
168362 CTCATTCTTT
168372 TATATATTATAAA
1 TATATATTATAAA
* *
168385 TAGATA-GATAAA
1 TATATATTATAAA
168397 TATATATTATAAA
1 TATATATTATAAA
168410 TA
1 TA
168412 GATAATTTGA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
12 10 0.45
13 12 0.55
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (13 bp):
TATATATTATAAA
Found at i:180012 original size:4 final size:4
Alignment explanation
Indices: 180003--180055 Score: 81
Period size: 4 Copynumber: 13.2 Consensus size: 4
179993 AAATAAACGG
*
180003 GAAA GAAA GAAA GGAAA GAAA GAAA GAAA GAAA GAAA G-AA GAAG GAAA
1 GAAA GAAA GAAA -GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA
180051 GAAA G
1 GAAA G
180056 GTAATGTGTT
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
3 3 0.07
4 38 0.84
5 4 0.09
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:180726 original size:4 final size:4
Alignment explanation
Indices: 180717--180759 Score: 86
Period size: 4 Copynumber: 10.8 Consensus size: 4
180707 CTACACCCTC
180717 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CAT
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CAT
180760 GCATGCGTAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 39 1.00
ACGTcount: A:0.49, C:0.26, G:0.00, T:0.26
Consensus pattern (4 bp):
CATA
Found at i:181469 original size:16 final size:16
Alignment explanation
Indices: 181437--181470 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
181427 TTAAAAAAAA
*
181437 ATAAATTTACATAATT
1 ATAAATTTAAATAATT
*
181453 ATAAATTTAAATCATT
1 ATAAATTTAAATAATT
181469 AT
1 AT
181471 TATTTTTTCA
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:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (16 bp):
ATAAATTTAAATAATT
Found at i:190348 original size:24 final size:24
Alignment explanation
Indices: 190321--190370 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
190311 TAGTAAATCC
*
190321 ATTTTT-CTATTAATAATTTTATTT
1 ATTTTTACTATTAA-AATTTGATTT
*
190345 ATTTTTATTATTAAAATTTGATTT
1 ATTTTTACTATTAAAATTTGATTT
190369 AT
1 AT
190371 GTACATCAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 17 0.74
25 6 0.26
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (24 bp):
ATTTTTACTATTAAAATTTGATTT
Found at i:190745 original size:6 final size:6
Alignment explanation
Indices: 190734--190769 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
190724 GAGCAATCAA
190734 TCTTTT TCTTTT TC--TT T-TTTT TCTTTT TCTTTT TCT
1 TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCT
190770 CTCTCCAGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
4 3 0.11
5 3 0.11
6 21 0.78
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (6 bp):
TCTTTT
Found at i:190756 original size:15 final size:15
Alignment explanation
Indices: 190736--190767 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
190726 GCAATCAATC
190736 TTTTTCTTTTTCTTT
1 TTTTTCTTTTTCTTT
190751 TTTTTCTTTTTCTTT
1 TTTTTCTTTTTCTTT
190766 TT
1 TT
190768 CTCTCTCCAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (15 bp):
TTTTTCTTTTTCTTT
Found at i:193855 original size:29 final size:31
Alignment explanation
Indices: 193808--193894 Score: 83
Period size: 32 Copynumber: 2.8 Consensus size: 31
193798 ATTGAATTCG
193808 AATTATAAAATCTAAAAAA-ATAAATGAATTAA
1 AATTATAAAATCTAAAAAATA-AAAT-AATTAA
*
193840 AATTATAAAAT-T-AAAAATAAAATAATTTA
1 AATTATAAAATCTAAAAAATAAAATAATTAA
*
193869 AATT-TAAATATACGAAAAATATAAAA
1 AATTATAAA-AT-CTAAAAA-ATAAAA
193895 ACCTACAACA
Statistics
Matches: 47, Mismatches: 2, Indels: 11
0.78 0.03 0.18
Matches are distributed among these distances:
28 4 0.09
29 11 0.23
30 9 0.19
31 2 0.04
32 15 0.32
33 6 0.13
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (31 bp):
AATTATAAAATCTAAAAAATAAAATAATTAA
Found at i:199581 original size:2 final size:2
Alignment explanation
Indices: 199574--199601 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
199564 GAGCTTATTC
199574 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
199602 GTATGTTGTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:208227 original size:20 final size:20
Alignment explanation
Indices: 208202--208240 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
208192 TGTATTTTTT
*
208202 TTTTTTAATTTAGAATTTAG
1 TTTTTTAATTTAAAATTTAG
*
208222 TTTTTTATTTTAAAATTTA
1 TTTTTTAATTTAAAATTTA
208241 AATTTTAGGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (20 bp):
TTTTTTAATTTAAAATTTAG
Found at i:208246 original size:20 final size:20
Alignment explanation
Indices: 208203--208246 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
208193 GTATTTTTTT
* **
208203 TTTTTAATTTAGAATTTAGT
1 TTTTTAATTTAAAATTTAAA
*
208223 TTTTTATTTTAAAATTTAAA
1 TTTTTAATTTAAAATTTAAA
208243 TTTT
1 TTTT
208247 AGGTTAAATT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.64
Consensus pattern (20 bp):
TTTTTAATTTAAAATTTAAA
Found at i:218779 original size:261 final size:260
Alignment explanation
Indices: 217769--218775 Score: 1254
Period size: 261 Copynumber: 3.8 Consensus size: 260
217759 GGAGTGTTTG
* * * * *
217769 ACTAAGAAATTAGGCCATGAATCACGCTTTGATTGTCGAGAAATATTGCAAT-TATATTCTCTAT
1 ACTAAGAAA-TAGGCCGTGAATGACGCTTTGTTTGTCGAGAAAT-TT-C--TGCA-ATTCTATAT
* * * * * * *
217833 AAAAAAAAGTCAATTATATTATGTAATAAAATTATTATTTAATTAAATATTAAATTACTATTTGG
60 ATAAAAAAGTCAAATATATCATGTAATAAAATCATTATTTAATTAAAGATTAAATCACTATTTAG
* * *
217898 ATTCTGATTTTAATAATTATTTTTATATTGAGATTTG-ATTTTTT-TTCTAAATCAATCATTAAA
125 ATACTGAATTTAATAATTATTTTTATATTGAGATTTGAATTTTTTATT-TAAATTAATC-TTAAA
* * *
217961 TTTCACCATTATTTTTATATTAAAGCATGAAATTCAGAATTTTTAAAAAAGTATGAAGGAGAATT
188 TTTAACAATTATTTTTATATTAAAGCATGAAATTTAGAATTTTTAAAAAA-TATGAAGGAGAATT
* *
218026 TATTACTTA
252 TATTAGTAA
* * * * * *
218035 ACTAGGAAATAGGCCGTGAATTACGTTTTGCTTGTCCAGAAATTT-TGCAACTCTATATATAAAA
1 ACTAAGAAATAGGCCGTGAATGACGCTTTGTTTGTCGAGAAATTTCTGCAATTCTATATATAAAA
* *
218099 AAGTCAAATATATCATGTAATAAAATCATTATTTAAATAAAGATTAAATCACTATTTAGATATTG
66 AAGTCAAATATATCATGTAATAAAATCATTATTTAATTAAAGATTAAATCACTATTTAGATACTG
* *
218164 AATTTAATAATTATTTTTTTATTGAAATTTGAATTTTTTATTTAAATTAATCTCTAAATTTAACA
131 AATTTAATAATTATTTTTATATTGAGATTTGAATTTTTTATTTAAATTAATCT-TAAATTTAACA
* * *
218229 ATTATTTTTATATTAAAACATGAAATTTAGAATTCCTAAAAAAATATGAAGGAGAATTTATTAGT
195 ATTATTTTTATATTAAAGCATGAAATTTAGAATT-TTTAAAAAATATGAAGGAGAATTTATTAGT
218294 AA
259 AA
* * * *
218296 ACTAAGAAATAGACCGTGAGTGACGCTTTGTTTGTTGAGAAA-TTCTGCAAATCTATATATAAAA
1 ACTAAGAAATAGGCCGTGAATGACGCTTTGTTTGTCGAGAAATTTCTGCAATTCTATATATAAAA
* * ** * *
218360 AAGTTAAGA-ATATCATGCAATAAAATCATTACGTAATTAAATATTAAATCACTATTTGGATACT
66 AAGTCAA-ATATATCATGTAATAAAATCATTATTTAATTAAAGATTAAATCACTATTTAGATACT
*
218424 GAATTTAATAATTATTTTTATATTGAGATTTAAACTTTTTTATTTAAATTAATTCTTAAATTTAA
130 GAATTTAATAATTATTTTTATATTGAGATTTGAA-TTTTTTATTTAAATTAA-TCTTAAATTTAA
* * * ** *
218489 CAATTGTTTTTATATTAAAGCATGAATTTTATAATTTTTAAAAAATATGAAAAATAATTTATTAG
193 CAATTATTTTTATATTAAAGCATGAAATTTAGAATTTTTAAAAAATATGAAGGAGAATTTATTAG
218554 TAA
258 TAA
**
218557 ACTAAGAAATAGGTGGTGAATGACGCTTTGTTTGTCGA-AAATTTCTGCAATTCTATATATAAAA
1 ACTAAGAAATAGGCCGTGAATGACGCTTTGTTTGTCGAGAAATTTCTGCAATTCTATATATAAAA
* * * * * * *
218621 AAGTTAACTATATCATGTAATAAAATTATTATATAATTAAAGATTGACTCTCTATTTAGATACTG
66 AAGTCAAATATATCATGTAATAAAATCATTATTTAATTAAAGATTAAATCACTATTTAGATACTG
* * * *
218686 AATTTAATAATTATTTTTCTATTGAGATTTGAATTTTTTTTTCTAAATTAATTCTTAAATTTGAT
131 AATTTAATAATTATTTTTATATTGAGATTTGAATTTTTTATT-TAAATTAA-TCTTAAATTTAAC
218751 AATTATTTTTATATTAAAGCATGAA
194 AATTATTTTTATATTAAAGCATGAA
218776 TTTTGGATTC
Statistics
Matches: 647, Mismatches: 82, Indels: 29
0.85 0.11 0.04
Matches are distributed among these distances:
260 111 0.17
261 426 0.66
262 68 0.11
263 3 0.00
264 2 0.00
265 29 0.04
266 8 0.01
ACGTcount: A:0.40, C:0.08, G:0.10, T:0.42
Consensus pattern (260 bp):
ACTAAGAAATAGGCCGTGAATGACGCTTTGTTTGTCGAGAAATTTCTGCAATTCTATATATAAAA
AAGTCAAATATATCATGTAATAAAATCATTATTTAATTAAAGATTAAATCACTATTTAGATACTG
AATTTAATAATTATTTTTATATTGAGATTTGAATTTTTTATTTAAATTAATCTTAAATTTAACAA
TTATTTTTATATTAAAGCATGAAATTTAGAATTTTTAAAAAATATGAAGGAGAATTTATTAGTAA
Found at i:219121 original size:175 final size:178
Alignment explanation
Indices: 218730--219107 Score: 491
Period size: 189 Copynumber: 2.1 Consensus size: 178
218720 TTTTTTTTCT
* * * * *
218730 AAATTAATTCTTAAATTTGATAATTATTTTTATATTAAAGCATGAATTTTGGATTCACAAAAAAA
1 AAATTAATACCTAAATTTAACAATTATTTTTATATTAAAACATGAATTTTGGATT------AAAA
*
218795 AAAAACCATGAATTTTGGAATTTCTAAAAAAAAATATGAAAGAGATTTATTAGTAAACTAAGAAA
60 AAAAA-CATGAATTTTGGAATTTCTAAAAAAAAATATGAAAGAG---TAGTAGTAAACTAAGAAA
**
218860 TAGGCCGTGAATATAAAAAAGTTAACATCATGTAATAAAATCATTAATTAATTTTATCC
121 TAGGCCGTGAATATAAAAAAGTTAACATCATGTAATAAAATCATTAATTAATTGGAT-C
* *
218919 AAATTAATTCTTAAATTTAACAATTATTTTTATATTAAAACATGAATTTTGGATT-AAAAAAAA-
1 AAATTAATACCTAAATTTAACAATTATTTTTATATTAAAACATGAATTTTGGATTAAAAAAAAAC
218982 ATGAATTTTGGAATTTCT-AAAAAAAATATGAAAGAG-AGTAGTAAACTAAGAAATAGGCCGTGA
66 ATGAATTTTGGAATTTCTAAAAAAAAATATGAAAGAGTAGTAGTAAACTAAGAAATAGGCCGTGA
219045 ATATAAAAAAGTTAACTGTATCATGTAATAAAATCATTAATTAA-TGGAT-
131 ATATAAAAAAGTTAAC---ATCATGTAATAAAATCATTAATTAATTGGATC
219094 AAATT-ATACCTAAA
1 AAATTAATACCTAAA
219108 GTTATTAAAT
Statistics
Matches: 178, Mismatches: 8, Indels: 21
0.86 0.04 0.10
Matches are distributed among these distances:
174 7 0.04
175 47 0.26
177 3 0.02
178 25 0.14
179 18 0.10
180 18 0.10
182 8 0.04
189 52 0.29
ACGTcount: A:0.48, C:0.07, G:0.11, T:0.34
Consensus pattern (178 bp):
AAATTAATACCTAAATTTAACAATTATTTTTATATTAAAACATGAATTTTGGATTAAAAAAAAAC
ATGAATTTTGGAATTTCTAAAAAAAAATATGAAAGAGTAGTAGTAAACTAAGAAATAGGCCGTGA
ATATAAAAAAGTTAACATCATGTAATAAAATCATTAATTAATTGGATC
Found at i:228353 original size:5 final size:5
Alignment explanation
Indices: 228345--228370 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
228335 TTTAATTGAC
228345 TTTTG TTTTG TTTTG TTTTG TTTTG T
1 TTTTG TTTTG TTTTG TTTTG TTTTG T
228371 AAAAGGTCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.00, C:0.00, G:0.19, T:0.81
Consensus pattern (5 bp):
TTTTG
Found at i:249916 original size:46 final size:46
Alignment explanation
Indices: 249863--249956 Score: 179
Period size: 46 Copynumber: 2.0 Consensus size: 46
249853 TATAGAAAAT
*
249863 CGAGGATGACAAAATATATGTATTGATAATCAAATAAGTTTTAATG
1 CGAGGATGACAAAATATATGTATTGATAACCAAATAAGTTTTAATG
249909 CGAGGATGACAAAATATATGTATTGATAACCAAATAAGTTTTAATG
1 CGAGGATGACAAAATATATGTATTGATAACCAAATAAGTTTTAATG
249955 CG
1 CG
249957 TAACATTGAA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.43, C:0.09, G:0.18, T:0.31
Consensus pattern (46 bp):
CGAGGATGACAAAATATATGTATTGATAACCAAATAAGTTTTAATG
Found at i:253851 original size:24 final size:24
Alignment explanation
Indices: 253815--253860 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
253805 ACCGTCGTGG
253815 ACACCGGCGACAACTCCTGGTGTA
1 ACACCGGCGACAACTCCTGGTGTA
*
253839 ACACCGGCTACAACTCCTGGTG
1 ACACCGGCGACAACTCCTGGTG
253861 CAAGAAGCTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.24, C:0.35, G:0.24, T:0.17
Consensus pattern (24 bp):
ACACCGGCGACAACTCCTGGTGTA
Found at i:266090 original size:19 final size:20
Alignment explanation
Indices: 266068--266105 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
266058 GGCATTAGAA
*
266068 AAAAATGTACA-ATAAAAAG
1 AAAAATCTACAGATAAAAAG
266087 AAAAATCTACAGATAAAAA
1 AAAAATCTACAGATAAAAA
266106 TAAACTACTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.68, C:0.08, G:0.08, T:0.16
Consensus pattern (20 bp):
AAAAATCTACAGATAAAAAG
Found at i:271753 original size:22 final size:23
Alignment explanation
Indices: 271715--271763 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 23
271705 TTTCAAGAGG
*
271715 TTTTTTATATAATAAAT-TATTT
1 TTTTTTATATAATAAATGGATTT
*
271737 TTTTTTA-ATAGTGAAATGGATTT
1 TTTTTTATATAAT-AAATGGATTT
271760 TTTT
1 TTTT
271764 GGGTGGGTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 4 0.17
22 11 0.48
23 8 0.35
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.61
Consensus pattern (23 bp):
TTTTTTATATAATAAATGGATTT
Found at i:271916 original size:23 final size:24
Alignment explanation
Indices: 271870--271914 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 24
271860 AAGTTAATAT
*
271870 TTGTCTTATAAAAAATGATATTTA
1 TTGTCTTATAAAAAATAATATTTA
271894 TTGT-TTA-AAAAAATAATATTT
1 TTGTCTTATAAAAAATAATATTT
271915 TAAAAGTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 13 0.65
23 3 0.15
24 4 0.20
ACGTcount: A:0.44, C:0.02, G:0.07, T:0.47
Consensus pattern (24 bp):
TTGTCTTATAAAAAATAATATTTA
Found at i:277723 original size:28 final size:30
Alignment explanation
Indices: 277672--277728 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
277662 ATAATTTTAA
* * *
277672 AGAATCATAATTAAATTGTATATTTTTATG
1 AGAATCAAAATAAAATTGTATATTATTATG
277702 AGAATCAAAATAAAATT-T-TATTATTAT
1 AGAATCAAAATAAAATTGTATATTATTAT
277729 AATAGCTTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 8 0.33
29 1 0.04
30 15 0.62
ACGTcount: A:0.46, C:0.04, G:0.07, T:0.44
Consensus pattern (30 bp):
AGAATCAAAATAAAATTGTATATTATTATG
Found at i:288349 original size:15 final size:16
Alignment explanation
Indices: 288329--288360 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
288319 AGGATTATGC
288329 AAAAGAAAA-AAAAAA
1 AAAAGAAAAGAAAAAA
288344 AAAAGAAAAGAAAAAA
1 AAAAGAAAAGAAAAAA
288360 A
1 A
288361 GGGCAAATCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (16 bp):
AAAAGAAAAGAAAAAA
Found at i:289365 original size:2 final size:2
Alignment explanation
Indices: 289358--289385 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
289348 CAGTGACCTC
289358 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
289386 TCACTTCACT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:289522 original size:3 final size:3
Alignment explanation
Indices: 289516--289541 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
289506 TCATCACAAG
289516 GAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GA
289542 TGATGATGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:299120 original size:29 final size:30
Alignment explanation
Indices: 299068--299126 Score: 102
Period size: 29 Copynumber: 2.0 Consensus size: 30
299058 CAGGCGGCAC
*
299068 CCTTTCACTTTTTTTCAACCGTCACTCAAA
1 CCTTTCACTTTTTTTCAACAGTCACTCAAA
299098 CCTTTCAC-TTTTTTCAACAGTCACTCAAA
1 CCTTTCACTTTTTTTCAACAGTCACTCAAA
299127 GTGGAAAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 20 0.71
30 8 0.29
ACGTcount: A:0.25, C:0.32, G:0.03, T:0.39
Consensus pattern (30 bp):
CCTTTCACTTTTTTTCAACAGTCACTCAAA
Found at i:299839 original size:2 final size:2
Alignment explanation
Indices: 299832--299873 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
299822 ACCACTAATT
299832 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
299874 AAAGGAAAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:303766 original size:3 final size:3
Alignment explanation
Indices: 303758--303782 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
303748 CGTCTGCGGT
303758 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
303783 ACAACATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:304420 original size:2 final size:2
Alignment explanation
Indices: 304413--304450 Score: 55
Period size: 2 Copynumber: 20.5 Consensus size: 2
304403 CCTCACTCCA
304413 AT AT AT AT AT AT AT AT AT AT AT A- AT AT A- AT AT A- AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
304451 ATTAAAGTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
1 3 0.09
2 30 0.91
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:304452 original size:10 final size:11
Alignment explanation
Indices: 304412--304450 Score: 62
Period size: 12 Copynumber: 3.5 Consensus size: 11
304402 CCCTCACTCC
304412 AATATATATAT
1 AATATATATAT
304423 ATATATATATAT
1 A-ATATATATAT
304435 AATATA-ATAT
1 AATATATATAT
304445 AATATA
1 AATATA
304451 ATTAAAGTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.37
11 6 0.22
12 11 0.41
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
AATATATATAT
Found at i:312779 original size:5 final size:5
Alignment explanation
Indices: 312771--312801 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
312761 CTACGAATAT
312771 ACCTA ACCTA ACCTA ACCTA ACCTA ACCTA A
1 ACCTA ACCTA ACCTA ACCTA ACCTA ACCTA A
312802 TAGAGCTCAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.42, C:0.39, G:0.00, T:0.19
Consensus pattern (5 bp):
ACCTA
Found at i:313315 original size:5 final size:5
Alignment explanation
Indices: 313305--313330 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
313295 AATACAGTCC
313305 ATAAA ATAAA ATAAA ATAAA ATAAA A
1 ATAAA ATAAA ATAAA ATAAA ATAAA A
313331 ACTCTTTGGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
ATAAA
Found at i:316174 original size:43 final size:43
Alignment explanation
Indices: 316120--316205 Score: 145
Period size: 43 Copynumber: 2.0 Consensus size: 43
316110 GAAAGAAAAC
*
316120 TAGTAATTCCCACAAATGTTCATGCTTATAGGGTATTATTTTT
1 TAGTAATTCCCACAAATGTTCATACTTATAGGGTATTATTTTT
* *
316163 TAGTTATTCCCACAAATGTTCATACTTATAGGGTATTGTTTTT
1 TAGTAATTCCCACAAATGTTCATACTTATAGGGTATTATTTTT
316206 AATACCGAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.27, C:0.14, G:0.14, T:0.45
Consensus pattern (43 bp):
TAGTAATTCCCACAAATGTTCATACTTATAGGGTATTATTTTT
Found at i:332644 original size:2 final size:2
Alignment explanation
Indices: 332637--332661 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
332627 AAGCGAAATA
332637 TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG T
332662 ATATATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:334662 original size:2 final size:2
Alignment explanation
Indices: 334657--334689 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
334647 AGAGATAAAG
334657 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
334690 CAATGCAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:359209 original size:16 final size:15
Alignment explanation
Indices: 359188--359228 Score: 59
Period size: 13 Copynumber: 2.8 Consensus size: 15
359178 GATGGTGCAA
359188 ATTATTTTTATGTATT
1 ATTATTTTTAT-TATT
359204 ATTA-TTTT-TTATT
1 ATTATTTTTATTATT
359217 ATTATTTTTATT
1 ATTATTTTTATT
359229 TATATCTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
13 8 0.35
14 5 0.22
15 6 0.26
16 4 0.17
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.73
Consensus pattern (15 bp):
ATTATTTTTATTATT
Found at i:362956 original size:26 final size:26
Alignment explanation
Indices: 362907--362956 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
362897 CTAGAGAATT
** *
362907 ATTAATATTTATTTATAATAATTATA
1 ATTAATATTTAAATAAAATAATTATA
*
362933 ATTAATATTTAAATAAAATTATTA
1 ATTAATATTTAAATAAAATAATTA
362957 GTACTTATTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (26 bp):
ATTAATATTTAAATAAAATAATTATA
Found at i:369393 original size:12 final size:12
Alignment explanation
Indices: 369376--369403 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
369366 ATTTGAATAA
369376 ATTAAAAATTTT
1 ATTAAAAATTTT
369388 ATTAAAAATTTT
1 ATTAAAAATTTT
369400 ATTA
1 ATTA
369404 TTTTATTGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (12 bp):
ATTAAAAATTTT
Found at i:371527 original size:18 final size:19
Alignment explanation
Indices: 371484--371531 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
371474 CATTACAACC
371484 CAAAAAGAAAAAGGAGATA
1 CAAAAAGAAAAAGGAGATA
* *
371503 GCAAAAAGAAAAGGGGGAT-
1 -CAAAAAGAAAAAGGAGATA
371522 CAAAAAGAAA
1 CAAAAAGAAA
371532 GAACATATCC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 10 0.38
20 16 0.62
ACGTcount: A:0.65, C:0.06, G:0.25, T:0.04
Consensus pattern (19 bp):
CAAAAAGAAAAAGGAGATA
Found at i:385576 original size:38 final size:42
Alignment explanation
Indices: 385491--385575 Score: 120
Period size: 41 Copynumber: 2.0 Consensus size: 42
385481 TATTTAATAC
* *
385491 AATAAAATATTTATTTATATTTATTAGTACTTTTTTTTAAAT
1 AATAAAATATTTATTTATATTTATGAGTACTGTTTTTTAAAT
*
385533 AATAAAATATTTA-TTATATTTATGA-TAGTGTTTTTTAATAT
1 AATAAAATATTTATTTATATTTATGAGTACTGTTTTTTAA-AT
385574 AA
1 AA
385576 ATACTTTTTA
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
40 11 0.28
41 15 0.38
42 13 0.33
ACGTcount: A:0.40, C:0.01, G:0.05, T:0.54
Consensus pattern (42 bp):
AATAAAATATTTATTTATATTTATGAGTACTGTTTTTTAAAT
Found at i:387708 original size:2 final size:2
Alignment explanation
Indices: 387696--387728 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
387686 TTTTATTTCT
*
387696 TA TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
387729 TTTTTTTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 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):
TA
Found at i:388371 original size:28 final size:26
Alignment explanation
Indices: 388333--388396 Score: 74
Period size: 28 Copynumber: 2.4 Consensus size: 26
388323 AAAAATTAAT
* **
388333 AATATTAAAAATTGGATTAAAATTTTGA
1 AATATAAAAAATAAGATT-AAATTTT-A
*
388361 AATCTAAAAAATAAGATTAAATTTTA
1 AATATAAAAAATAAGATTAAATTTTA
388387 AATATAAAAA
1 AATATAAAAA
388397 CTAAATTTCG
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
26 10 0.32
27 7 0.23
28 14 0.45
ACGTcount: A:0.58, C:0.02, G:0.06, T:0.34
Consensus pattern (26 bp):
AATATAAAAAATAAGATTAAATTTTA
Found at i:404534 original size:17 final size:17
Alignment explanation
Indices: 404511--404549 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
404501 AAAAATTTTA
404511 AATTTTAAACTAATTTG
1 AATTTTAAACTAATTTG
* *
404528 CATTTTATACTAATTTG
1 AATTTTAAACTAATTTG
404545 AATTT
1 AATTT
404550 GATGAGTATG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.36, C:0.08, G:0.05, T:0.51
Consensus pattern (17 bp):
AATTTTAAACTAATTTG
Found at i:423700 original size:27 final size:27
Alignment explanation
Indices: 423616--423700 Score: 64
Period size: 27 Copynumber: 3.1 Consensus size: 27
423606 AACATTTTTA
*
423616 TATTAA-AATAAATTAAATTGAATTATTAT
1 TATTAATAA-AAAATAAATTGAATTA-T-T
* * * * * * *
423645 TTTTTATAAAGAACAAAGTGTATTTTT
1 TATTAATAAAAAATAAATTGAATTATT
423672 TATTAATAAAAAATAAATTGAATTATT
1 TATTAATAAAAAATAAATTGAATTATT
423699 TA
1 TA
423701 AAAGGAGCTA
Statistics
Matches: 40, Mismatches: 15, Indels: 4
0.68 0.25 0.07
Matches are distributed among these distances:
27 23 0.57
28 1 0.03
29 14 0.35
30 2 0.05
ACGTcount: A:0.48, C:0.01, G:0.06, T:0.45
Consensus pattern (27 bp):
TATTAATAAAAAATAAATTGAATTATT
Found at i:425345 original size:32 final size:33
Alignment explanation
Indices: 425302--425376 Score: 93
Period size: 32 Copynumber: 2.3 Consensus size: 33
425292 TAACCTAAAA
* *
425302 ATAATAATTATTTTATTTGACAAAAA-TAATATT
1 ATAAAAATTATTTTATTTAACAAAAATTAA-ATT
*
425335 -TAAAAATTA-TTTATTTAATAAAAATTAAATT
1 ATAAAAATTATTTTATTTAACAAAAATTAAATT
425366 ATAAAAATTAT
1 ATAAAAATTAT
425377 AAAATTAATA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
31 16 0.44
32 20 0.56
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.44
Consensus pattern (33 bp):
ATAAAAATTATTTTATTTAACAAAAATTAAATT
Found at i:425385 original size:32 final size:31
Alignment explanation
Indices: 425323--425411 Score: 78
Period size: 32 Copynumber: 2.9 Consensus size: 31
425313 TTTATTTGAC
** *
425323 AAAAATAATATTTAAAAATTATTTATTTAAT
1 AAAAATAATATTTAAAAATTATAAAATTAAT
425354 AAAAATTAA-ATTATAAAAATTATAAAATTAAT
1 AAAAA-TAATATT-TAAAAATTATAAAATTAAT
* *
425386 -ATAGT-ATATTTAAAATATT-TAAAATT
1 AAAAATAATATTTAAAA-ATTATAAAATT
425412 TTCATATTCA
Statistics
Matches: 49, Mismatches: 5, Indels: 10
0.77 0.08 0.16
Matches are distributed among these distances:
29 13 0.27
30 7 0.14
31 10 0.20
32 19 0.39
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.42
Consensus pattern (31 bp):
AAAAATAATATTTAAAAATTATAAAATTAAT
Done.