Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr7
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: 47983841
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869652 characters in sequence are not A, C, G, or T
File 34 of 153
Found at i:11691236 original size:41 final size:42
Alignment explanation
Indices: 11691189--11691268 Score: 108
Period size: 41 Copynumber: 1.9 Consensus size: 42
11691179 CTGACTTGGG
* *
11691189 TCACACGGTCAAGCCACACGCCTGTGTG-CTAGCCGTGTATC
1 TCACACGATCAAGCCACACGCCCGTGTGTCTAGCCGTGTATC
* * *
11691230 TCACACGATCGAGTCACACGCCCGTGTGTCTGGCCGTGT
1 TCACACGATCAAGCCACACGCCCGTGTGTCTAGCCGTGT
11691269 GGACCTAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
41 24 0.73
42 9 0.27
ACGTcount: A:0.17, C:0.34, G:0.26, T:0.23
Consensus pattern (42 bp):
TCACACGATCAAGCCACACGCCCGTGTGTCTAGCCGTGTATC
Found at i:11692378 original size:8 final size:8
Alignment explanation
Indices: 11692365--11692389 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
11692355 TATAAATTTG
11692365 ACACGGAT
1 ACACGGAT
11692373 ACACGGAT
1 ACACGGAT
11692381 ACACGGAT
1 ACACGGAT
11692389 A
1 A
11692390 AATCCGAAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.40, C:0.24, G:0.24, T:0.12
Consensus pattern (8 bp):
ACACGGAT
Found at i:11697040 original size:111 final size:111
Alignment explanation
Indices: 11696846--11697067 Score: 444
Period size: 111 Copynumber: 2.0 Consensus size: 111
11696836 CAATACCATG
11696846 CATGTAGTTGTATTGTTGTATTAAAGTTTGTTAATATGTACAGACATTTAGAAAAAGTAGTGTAT
1 CATGTAGTTGTATTGTTGTATTAAAGTTTGTTAATATGTACAGACATTTAGAAAAAGTAGTGTAT
11696911 GTTTATATGGTATACATATATCACTACTCTCTCTCTTAGACAACAA
66 GTTTATATGGTATACATATATCACTACTCTCTCTCTTAGACAACAA
11696957 CATGTAGTTGTATTGTTGTATTAAAGTTTGTTAATATGTACAGACATTTAGAAAAAGTAGTGTAT
1 CATGTAGTTGTATTGTTGTATTAAAGTTTGTTAATATGTACAGACATTTAGAAAAAGTAGTGTAT
11697022 GTTTATATGGTATACATATATCACTACTCTCTCTCTTAGACAACAA
66 GTTTATATGGTATACATATATCACTACTCTCTCTCTTAGACAACAA
11697068 TACTTCATCA
Statistics
Matches: 111, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
111 111 1.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (111 bp):
CATGTAGTTGTATTGTTGTATTAAAGTTTGTTAATATGTACAGACATTTAGAAAAAGTAGTGTAT
GTTTATATGGTATACATATATCACTACTCTCTCTCTTAGACAACAA
Found at i:11697522 original size:214 final size:215
Alignment explanation
Indices: 11697153--11697582 Score: 844
Period size: 214 Copynumber: 2.0 Consensus size: 215
11697143 GTTCGATTAC
11697153 CATAAAGCTTATACTTCATTTTATAGAGAAAGGTTGAATTAATTGTGTCAAACTCCTAAGCTTTG
1 CATAAAGCTTATACTTCATTTTATAGAGAAAGGTTGAATTAATTGTGTCAAACTCCTAAGCTTTG
11697218 ATTGATTTTTGACCAAATTAATCACAAGTTTAGTCTATTGGGAATTTAATTATTGCTCAAGAATG
66 ATTGATTTTTGACCAAATTAATCACAAGTTTAGTCTATTGGGAATTTAATTATTGCTCAAGAATG
*
11697283 TTGTATTGTATGAAGTTTACTTCCCATTTAATAAATAATAAAAT-AAAAAAGGTAAATTTTTAGC
131 TTGTATTGTATGAAGTTTACTTCCCATTTAATAAATAATAAAATAAAAAAAGGTAAACTTTTAGC
11697347 CATTTCTCTTCACTTTTTTT
196 CATTTCTCTTCACTTTTTTT
11697367 CATAAAGCTTATACTTCATTTTATAGAGAAAGGTTGAATTAATTGTGTCAAACTCCTAAGCTTTG
1 CATAAAGCTTATACTTCATTTTATAGAGAAAGGTTGAATTAATTGTGTCAAACTCCTAAGCTTTG
11697432 ATTGATTTTTGACCAAATTAATCACAAGTTTAGTCTATTGGGAATTTAATTATTGCTCAAGAATG
66 ATTGATTTTTGACCAAATTAATCACAAGTTTAGTCTATTGGGAATTTAATTATTGCTCAAGAATG
11697497 TTGTATTGTATGAAGTTTACTTCCCATTTAATAAATAATAAAATAAAAAAAGGTAAACTTTTAGC
131 TTGTATTGTATGAAGTTTACTTCCCATTTAATAAATAATAAAATAAAAAAAGGTAAACTTTTAGC
11697562 CATTTCTCTTCACTTTTTTT
196 CATTTCTCTTCACTTTTTTT
11697582 C
1 C
11697583 CAACTAATAA
Statistics
Matches: 214, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
214 174 0.81
215 40 0.19
ACGTcount: A:0.34, C:0.13, G:0.13, T:0.41
Consensus pattern (215 bp):
CATAAAGCTTATACTTCATTTTATAGAGAAAGGTTGAATTAATTGTGTCAAACTCCTAAGCTTTG
ATTGATTTTTGACCAAATTAATCACAAGTTTAGTCTATTGGGAATTTAATTATTGCTCAAGAATG
TTGTATTGTATGAAGTTTACTTCCCATTTAATAAATAATAAAATAAAAAAAGGTAAACTTTTAGC
CATTTCTCTTCACTTTTTTT
Found at i:11697617 original size:25 final size:25
Alignment explanation
Indices: 11697575--11697668 Score: 59
Period size: 25 Copynumber: 3.7 Consensus size: 25
11697565 TTCTCTTCAC
* * *
11697575 TTTTTTTCCAACTAATAAGAATGCA
1 TTTTTTTTCAATTAATAAGAATGAA
* *
11697600 TTTTTTTTCAATTTATAACG-ATTAA
1 TTTTTTTTCAATTAATAA-GAATGAA
* *
11697625 TATTGTAGTTT-AA-TAATAAGAATGTA
1 T-TT-T-TTTTCAATTAATAAGAATGAA
*
11697651 TTTTTTTTCAATTTATAA
1 TTTTTTTTCAATTAATAA
11697669 CGATTAATAT
Statistics
Matches: 51, Mismatches: 11, Indels: 14
0.67 0.14 0.18
Matches are distributed among these distances:
23 3 0.06
24 3 0.06
25 27 0.53
26 12 0.24
27 3 0.06
28 3 0.06
ACGTcount: A:0.35, C:0.07, G:0.07, T:0.50
Consensus pattern (25 bp):
TTTTTTTTCAATTAATAAGAATGAA
Found at i:11697700 original size:48 final size:51
Alignment explanation
Indices: 11697587--11697692 Score: 203
Period size: 51 Copynumber: 2.1 Consensus size: 51
11697577 TTTTTCCAAC
*
11697587 TAATAAGAATGCATTTTTTTTCAATTTATAACGATTAATATTGTAGTTTAA
1 TAATAAGAATGTATTTTTTTTCAATTTATAACGATTAATATTGTAGTTTAA
11697638 TAATAAGAATGTATTTTTTTTCAATTTATAACGATTAATATTGTAGTTTAA
1 TAATAAGAATGTATTTTTTTTCAATTTATAACGATTAATATTGTAGTTTAA
11697689 TAAT
1 TAAT
11697693 TGAGTATTAT
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 54 1.00
ACGTcount: A:0.38, C:0.05, G:0.09, T:0.48
Consensus pattern (51 bp):
TAATAAGAATGTATTTTTTTTCAATTTATAACGATTAATATTGTAGTTTAA
Found at i:11697896 original size:20 final size:20
Alignment explanation
Indices: 11697871--11697910 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
11697861 AATATTTTTC
*
11697871 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
11697891 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
11697911 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:11697912 original size:34 final size:35
Alignment explanation
Indices: 11697859--11697925 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
11697849 CAAACACCAG
* *
11697859 AAAATATTTTTCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
11697894 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
11697926 TATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.46, C:0.12, G:0.09, T:0.33
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:11702150 original size:13 final size:13
Alignment explanation
Indices: 11702132--11702158 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
11702122 TTTAGCATTA
11702132 TTTTTAAAAAGTG
1 TTTTTAAAAAGTG
11702145 TTTTTAAAAAGTG
1 TTTTTAAAAAGTG
11702158 T
1 T
11702159 CGTAGAAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.15, T:0.48
Consensus pattern (13 bp):
TTTTTAAAAAGTG
Found at i:11705413 original size:21 final size:21
Alignment explanation
Indices: 11705389--11705433 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
11705379 AGCGCGATAT
11705389 GCTGACTTGGAAGCAAATTGC
1 GCTGACTTGGAAGCAAATTGC
11705410 GCTGACTTGGAAGCAAATTGC
1 GCTGACTTGGAAGCAAATTGC
11705431 GCT
1 GCT
11705434 TACGTGGACG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (21 bp):
GCTGACTTGGAAGCAAATTGC
Found at i:11705441 original size:21 final size:21
Alignment explanation
Indices: 11705389--11705441 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
11705379 AGCGCGATAT
*
11705389 GCTGACTTGGAAGCAAATTGC
1 GCTGACGTGGAAGCAAATTGC
*
11705410 GCTGACTTGGAAGCAAATTGC
1 GCTGACGTGGAAGCAAATTGC
*
11705431 GCTTACGTGGA
1 GCTGACGTGGA
11705442 CGCGATTTGC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (21 bp):
GCTGACGTGGAAGCAAATTGC
Found at i:11706800 original size:21 final size:20
Alignment explanation
Indices: 11706776--11706817 Score: 52
Period size: 19 Copynumber: 2.1 Consensus size: 20
11706766 GGCTGGTGTA
11706776 TAAAATAATATTTATTTAA-AT
1 TAAAA-AATATTT-TTTAATAT
11706797 T-AAAAATATTTTTTAATAT
1 TAAAAAATATTTTTTAATAT
11706816 TA
1 TA
11706818 TTTCAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 5
0.79 0.00 0.21
Matches are distributed among these distances:
18 5 0.26
19 10 0.53
20 3 0.16
21 1 0.05
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
TAAAAAATATTTTTTAATAT
Found at i:11706831 original size:29 final size:29
Alignment explanation
Indices: 11706781--11706848 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 29
11706771 GTGTATAAAA
*
11706781 TAATATTTATTTAAATTAAAAAT-ATTTTT
1 TAATA-TTATTTAAATTAAAAATAATTTTG
11706810 TAATATTATTTCAAAATT-AAAATAATTTTG
1 TAATATTATTT--AAATTAAAAATAATTTTG
*
11706840 TAATTTTAT
1 TAATATTAT
11706849 GTGGAATATT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
28 6 0.18
29 10 0.29
30 18 0.53
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.53
Consensus pattern (29 bp):
TAATATTATTTAAATTAAAAATAATTTTG
Found at i:11710430 original size:26 final size:26
Alignment explanation
Indices: 11710395--11710448 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
11710385 AAAGATTCAT
11710395 TTTTCAAATTGTAGAACAATTATGAA
1 TTTTCAAATTGTAGAACAATTATGAA
11710421 TTTTCAAATTGTAGAACAATTATGAA
1 TTTTCAAATTGTAGAACAATTATGAA
11710447 TT
1 TT
11710449 GGAAAATTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.41, C:0.07, G:0.11, T:0.41
Consensus pattern (26 bp):
TTTTCAAATTGTAGAACAATTATGAA
Found at i:11710455 original size:26 final size:26
Alignment explanation
Indices: 11710400--11710456 Score: 87
Period size: 26 Copynumber: 2.2 Consensus size: 26
11710390 TTCATTTTTC
***
11710400 AAATTGTAGAACAATTATGAATTTTC
1 AAATTGTAGAACAATTATGAATTGGA
11710426 AAATTGTAGAACAATTATGAATTGGA
1 AAATTGTAGAACAATTATGAATTGGA
11710452 AAATT
1 AAATT
11710457 TTGTATGAGA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.46, C:0.05, G:0.14, T:0.35
Consensus pattern (26 bp):
AAATTGTAGAACAATTATGAATTGGA
Found at i:11712757 original size:39 final size:39
Alignment explanation
Indices: 11712703--11712780 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
11712693 ACCATCAAAG
11712703 TTAGAAATCTTCATAATGATGGCAATTTATTTAAATTAA
1 TTAGAAATCTTCATAATGATGGCAATTTATTTAAATTAA
11712742 TTAGAAATCTTCATAATGATGGCAATTTATTTAAATTAA
1 TTAGAAATCTTCATAATGATGGCAATTTATTTAAATTAA
11712781 AAATGTTAGT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.41, C:0.08, G:0.10, T:0.41
Consensus pattern (39 bp):
TTAGAAATCTTCATAATGATGGCAATTTATTTAAATTAA
Found at i:11731130 original size:31 final size:31
Alignment explanation
Indices: 11731092--11731153 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
11731082 TAAAAACTGA
11731092 GTAAACTATTCCAGAGTCAATTATACAAGTT
1 GTAAACTATTCCAGAGTCAATTATACAAGTT
11731123 GTAAACTATTCCAGAGTCAATTATACAAGTT
1 GTAAACTATTCCAGAGTCAATTATACAAGTT
11731154 AACTTTAACA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.39, C:0.16, G:0.13, T:0.32
Consensus pattern (31 bp):
GTAAACTATTCCAGAGTCAATTATACAAGTT
Found at i:11734472 original size:133 final size:133
Alignment explanation
Indices: 11734302--11734551 Score: 401
Period size: 133 Copynumber: 1.9 Consensus size: 133
11734292 TGGAAATGGC
* * * * *
11734302 TGAGAGTGATGAGCTCAACATGTCCTATTACAAATGCATGTTTAATGTAATGTAATTTGAAATCC
1 TGAGAGTGATGAGCTCAACAAGCCCTATTACAAATGCATGTTCAATGTAAGGCAATTTGAAATCC
*
11734367 CAAAAACAGCTTTTGGCTAGCCCTCCTCATCCTAGATGTAGATTTCTACAGTGGATGAAAGTGAT
66 CAAAAACAGCTTTTGGCTAGCCCTCCTCATCCTAGATGAAGATTTCTACAGTGGATGAAAGTGAT
11734432 GAG
131 GAG
* * * *
11734435 TGAGAGTGATGAGCTCAATAAGCCCTATTCCATATGCATGTTCAATGTAAGGCAATTTGGAATCC
1 TGAGAGTGATGAGCTCAACAAGCCCTATTACAAATGCATGTTCAATGTAAGGCAATTTGAAATCC
*
11734500 CAAAAACAGCTTTTGGCTAGCCTTCCTCATCCTAGATGAAGATTTCTACAGT
66 CAAAAACAGCTTTTGGCTAGCCCTCCTCATCCTAGATGAAGATTTCTACAGT
11734552 AGTTGCTACT
Statistics
Matches: 106, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
133 106 1.00
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.30
Consensus pattern (133 bp):
TGAGAGTGATGAGCTCAACAAGCCCTATTACAAATGCATGTTCAATGTAAGGCAATTTGAAATCC
CAAAAACAGCTTTTGGCTAGCCCTCCTCATCCTAGATGAAGATTTCTACAGTGGATGAAAGTGAT
GAG
Found at i:11736864 original size:24 final size:25
Alignment explanation
Indices: 11736837--11736887 Score: 61
Period size: 24 Copynumber: 2.1 Consensus size: 25
11736827 AAAATGTATG
*
11736837 TTTATATTAT-TAAAGT-ATTCATAT
1 TTTAT-TTATATAAAGTAATACATAT
*
11736861 TTTATTTATATATAGTAATACATAT
1 TTTATTTATATAAAGTAATACATAT
11736886 TT
1 TT
11736888 ATTATTGAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 4 0.17
24 10 0.43
25 9 0.39
ACGTcount: A:0.37, C:0.04, G:0.04, T:0.55
Consensus pattern (25 bp):
TTTATTTATATAAAGTAATACATAT
Found at i:11737377 original size:21 final size:23
Alignment explanation
Indices: 11737333--11737382 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 23
11737323 TTTACTAAAT
11737333 ACATGTACCACATTAGATAAAAA
1 ACATGTACCACATTAGATAAAAA
*
11737356 ACATGTATCACATTA-A-AAAAA
1 ACATGTACCACATTAGATAAAAA
*
11737377 ATATGT
1 ACATGT
11737383 CAAATTCAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 10 0.40
22 1 0.04
23 14 0.56
ACGTcount: A:0.52, C:0.14, G:0.08, T:0.26
Consensus pattern (23 bp):
ACATGTACCACATTAGATAAAAA
Found at i:11737424 original size:3 final size:3
Alignment explanation
Indices: 11737416--11737446 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
11737406 ATCAAGTTAA
11737416 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
11737447 GAATGCATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:11756644 original size:16 final size:16
Alignment explanation
Indices: 11756623--11756679 Score: 87
Period size: 16 Copynumber: 3.6 Consensus size: 16
11756613 TTTGGTTCGC
*
11756623 TGTATTGGATTAGAGG
1 TGTAATGGATTAGAGG
*
11756639 TGTATTGGATTAGAGG
1 TGTAATGGATTAGAGG
*
11756655 TGTAATGGAATAGAGG
1 TGTAATGGATTAGAGG
11756671 TGTAATGGA
1 TGTAATGGA
11756680 AAAGCTGTGT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 39 1.00
ACGTcount: A:0.30, C:0.00, G:0.37, T:0.33
Consensus pattern (16 bp):
TGTAATGGATTAGAGG
Found at i:11756946 original size:18 final size:17
Alignment explanation
Indices: 11756925--11756959 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
11756915 TTATTATTAA
*
11756925 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
11756943 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
11756960 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:11756967 original size:79 final size:79
Alignment explanation
Indices: 11756884--11757127 Score: 220
Period size: 79 Copynumber: 3.1 Consensus size: 79
11756874 TTATTATCAA
11756884 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAA
1 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAA
11756949 TTTAATAAAATTCT
66 TTTAATAAAATTCT
* * * * **** * * *
11756963 TAATAATTAGCA-TAAAT-TTGTTTTGGTA-AATTATTATT--GT-TATTGTT-ATTTAAAT-TT
1 TAATAAATA--ATTTAATCATATTTAAACATAATTATTATTAAATATATT-TTAATTAAAATATA
* * *
11757020 TAA--TAAGATTAATATCAA
63 TAATTTAATA-AAAT-TC-T
*
11757038 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAA
1 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAA
11757103 TTTAATAAAATTCT
66 TTTAATAAAATTCT
*
11757117 TAATAATTAAT
1 TAATAAATAAT
11757128 ATTCTTATAT
Statistics
Matches: 119, Mismatches: 30, Indels: 32
0.66 0.17 0.18
Matches are distributed among these distances:
72 4 0.03
73 4 0.03
74 10 0.08
75 24 0.20
76 13 0.11
78 12 0.10
79 34 0.29
80 10 0.08
81 4 0.03
82 4 0.03
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.46
Consensus pattern (79 bp):
TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAA
TTTAATAAAATTCT
Found at i:11757096 original size:16 final size:16
Alignment explanation
Indices: 11757059--11757100 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
11757049 TTAATCATAT
*
11757059 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
11757075 TT-AAATATATTATAA
1 TTAAAATATATTATAA
11757090 TTAAAATATAT
1 TTAAAATATAT
11757101 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:11757098 original size:154 final size:156
Alignment explanation
Indices: 11756812--11757125 Score: 578
Period size: 154 Copynumber: 2.0 Consensus size: 156
11756802 TAGAATACCC
11756812 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTA-TA
*
11756877 TTATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
65 TTATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
11756942 TATATAATTTAATAAAATTCTTAATAA
130 TATATAATTTAATAAAATTCTTAATAA
* *
11756969 TTAGCATAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTA-A-
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATAT
11757032 TATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAAT
66 TATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAAT
11757097 ATATAATTTAATAAAATTCTTAATAA
131 ATATAATTTAATAAAATTCTTAATAA
11757123 TTA
1 TTA
11757126 ATATTCTTAT
Statistics
Matches: 154, Mismatches: 3, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
154 93 0.60
155 1 0.01
157 60 0.39
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (156 bp):
TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATAT
TATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAAT
ATATAATTTAATAAAATTCTTAATAA
Found at i:11757107 original size:14 final size:15
Alignment explanation
Indices: 11757068--11757109 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
11757058 TTTAAACATA
*
11757068 ATTATTATTAAATAT
1 ATTATAATTAAATAT
11757083 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
11757097 A-TATAATTTAATA
1 ATTATAATTAAATA
11757110 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:11757228 original size:18 final size:17
Alignment explanation
Indices: 11757189--11757220 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
11757179 TTTTAAATAA
11757189 TTAATATTAAATATATT
1 TTAATATTAAATATATT
11757206 TTAAT-TTAAATATAT
1 TTAATATTAAATATAT
11757221 GATTTAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TTAATATTAAATATATT
Found at i:11762031 original size:18 final size:18
Alignment explanation
Indices: 11762004--11762038 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
11761994 ATTTGATTAA
*
11762004 ATAAATTATTAAAAATTT
1 ATAAAATATTAAAAATTT
11762022 ATAAAATATTAAAAATT
1 ATAAAATATTAAAAATT
11762039 GATTTAATCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
ATAAAATATTAAAAATTT
Found at i:11769527 original size:18 final size:19
Alignment explanation
Indices: 11769504--11769540 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
11769494 TTTAACTTTT
11769504 CAGAAGTG-TTTTTGAAAA
1 CAGAAGTGCTTTTTGAAAA
11769522 CAGAAGTGCTTTTTGAAAA
1 CAGAAGTGCTTTTTGAAAA
11769541 TGAGCTGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.38, C:0.08, G:0.22, T:0.32
Consensus pattern (19 bp):
CAGAAGTGCTTTTTGAAAA
Found at i:11770571 original size:20 final size:21
Alignment explanation
Indices: 11770526--11770571 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
11770516 TTAAAATACT
* *
11770526 TTTAAAATAATTTTTTTTTATT
1 TTTAAAATAA-TTTTTTTAATG
11770548 TTTAAAATAA-TTTTTTAATG
1 TTTAAAATAATTTTTTTAATG
11770568 TTTA
1 TTTA
11770572 TTTTAAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 12 0.55
22 10 0.45
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (21 bp):
TTTAAAATAATTTTTTTAATG
Found at i:11771648 original size:31 final size:31
Alignment explanation
Indices: 11771605--11771663 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
11771595 TATACACCTC
* *
11771605 TATTTAGAAATATATTATTTATCTTTCCAAA
1 TATTTAGAAATATATTATATATATTTCCAAA
11771636 TATTTATG-AATATATTATATATATTTCC
1 TATTTA-GAAATATATTATATATATTTCC
11771664 TATAAATATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
31 24 0.96
32 1 0.04
ACGTcount: A:0.37, C:0.08, G:0.03, T:0.51
Consensus pattern (31 bp):
TATTTAGAAATATATTATATATATTTCCAAA
Found at i:11773706 original size:25 final size:24
Alignment explanation
Indices: 11773678--11773781 Score: 108
Period size: 22 Copynumber: 4.4 Consensus size: 24
11773668 ACCCTAGCGC
*
11773678 GCTCTCTGATTATTGGCACGTTAGT
1 GCTCTCTG-TTATTAGCACGTTAGT
* *
11773703 GCTCTCTGATTACTAGCACGTCAGT
1 GCTCTCTG-TTATTAGCACGTTAGT
* *
11773728 GCTCTCTG-T-TTAGCACATTTGT
1 GCTCTCTGTTATTAGCACGTTAGT
*
11773750 GCTCTCTG-TA-TAGCACTTTAGT
1 GCTCTCTGTTATTAGCACGTTAGT
11773772 GCTCTCTGTT
1 GCTCTCTGTT
11773782 TATTTGTGCA
Statistics
Matches: 68, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
22 36 0.53
23 2 0.03
25 30 0.44
ACGTcount: A:0.15, C:0.24, G:0.20, T:0.40
Consensus pattern (24 bp):
GCTCTCTGTTATTAGCACGTTAGT
Found at i:11773707 original size:23 final size:24
Alignment explanation
Indices: 11773681--11773735 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 24
11773671 CTAGCGCGCT
* * *
11773681 CTCTGATTATTGGCACGTTAGTGC
1 CTCTGATTACTAGCACGTCAGTGC
11773705 TCTCTGATTACTAGCACGTCAGTGC
1 -CTCTGATTACTAGCACGTCAGTGC
11773730 TCTCTG
1 -CTCTG
11773736 TTTAGCACAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.16, C:0.25, G:0.22, T:0.36
Consensus pattern (24 bp):
CTCTGATTACTAGCACGTCAGTGC
Found at i:11777148 original size:15 final size:15
Alignment explanation
Indices: 11777128--11777160 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
11777118 ATGGGAACTC
*
11777128 TGGAATGTATGGTGG
1 TGGAATGTATGGCGG
11777143 TGGAATGTATGGCGG
1 TGGAATGTATGGCGG
11777158 TGG
1 TGG
11777161 CCTTGGTGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.18, C:0.03, G:0.48, T:0.30
Consensus pattern (15 bp):
TGGAATGTATGGCGG
Found at i:11780947 original size:15 final size:15
Alignment explanation
Indices: 11780927--11780957 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
11780917 CGGGGATACG
11780927 TCTTATTATTATTAT
1 TCTTATTATTATTAT
11780942 TCTTATTATTATTAT
1 TCTTATTATTATTAT
11780957 T
1 T
11780958 TCACGTTAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.68
Consensus pattern (15 bp):
TCTTATTATTATTAT
Found at i:11786838 original size:197 final size:196
Alignment explanation
Indices: 11786499--11787024 Score: 698
Period size: 197 Copynumber: 2.7 Consensus size: 196
11786489 TGTGTTCGGG
* * ** *
11786499 ATTTTGTTGCACTCTTTGCCCTTTGTGAAATTAAATCCCATTCTATATCAGTGGAAACTAATTGT
1 ATTTTGTTGCACTCTTTGCCCTTTTTGAAATTGAATTGCATTCTATATCA-TGGAAACTAATTGG
* * * * *
11786564 TATCTCCAATCTAGTACTTTATTAGCCTGTTCAAGATCCTTAAAGCATTCTTAATCTTATATAAT
65 TATCTCCAACCTAGTACTTTATTAGCTTGTTCAAGAACCTTAAAGCATTCTTGATCTTATATAAA
*
11786629 GGACTCTCTGGAATTTTAAAGGTTGAAACTAC-TCTGAATTTGCGGTTAGATTGGTATGCAATAT
130 GGACTCTCTGGAATTTTAAAGGTTGAAACTACTTC-GAATTTGCGGTTAGATTAGTATGCAATAT
11786693 GGA
194 GGA
11786696 ATTTTGTTGCACTCTTTGCCCTTTTTGAAATTGAATTGCATTCTATATCCATGGAAACTAATTGG
1 ATTTTGTTGCACTCTTTGCCCTTTTTGAAATTGAATTGCATTCTATAT-CATGGAAACTAATTGG
* * *
11786761 TATCTCCAACCTAGTTCTTTATTAGTTTGTTCAAGAACCTTCAAGCATTCTTGATCTTATATAAA
65 TATCTCCAACCTAGTACTTTATTAGCTTGTTCAAGAACCTTAAAGCATTCTTGATCTTATATAAA
* * * **
11786826 GGACTGTCTGGAATTTTAGAGGTTGAAACTACTTCGAATTTGTGGTTAGATTAGTATGCTTTATG
130 GGACTCTCTGGAATTTTAAAGGTTGAAACTACTTCGAATTTGCGGTTAGATTAGTATGCAATATG
*
11786891 GG
195 GA
* * * *
11786893 ATTTTGTTGCACTCTTTGCCCTTTTTGAAATTGAATTGCATTTTGTAGCTTGGAAACTAAATT-G
1 ATTTTGTTGCACTCTTTGCCCTTTTTGAAATTGAATTGCATTCTATATCATGGAAACT-AATTGG
* * * * * *
11786957 TAGCTCCAATCTATAGTAATTTATTAGCTTGTTCAAGAGA-CTTAAAGCATTGTTGATCATATGT
65 TATCTCCAA-C-CTAGTACTTTATTAGCTTGTTCAAGA-ACCTTAAAGCATTCTTGATCTTATAT
11787021 AAAG
127 AAAG
11787025 CATTCACCAG
Statistics
Matches: 290, Mismatches: 33, Indels: 11
0.87 0.10 0.03
Matches are distributed among these distances:
196 18 0.06
197 221 0.76
198 50 0.17
199 1 0.00
ACGTcount: A:0.28, C:0.15, G:0.17, T:0.40
Consensus pattern (196 bp):
ATTTTGTTGCACTCTTTGCCCTTTTTGAAATTGAATTGCATTCTATATCATGGAAACTAATTGGT
ATCTCCAACCTAGTACTTTATTAGCTTGTTCAAGAACCTTAAAGCATTCTTGATCTTATATAAAG
GACTCTCTGGAATTTTAAAGGTTGAAACTACTTCGAATTTGCGGTTAGATTAGTATGCAATATGG
A
Found at i:11793079 original size:22 final size:22
Alignment explanation
Indices: 11793044--11793101 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
11793034 AAAGGGTATC
* *
11793044 TACAAATTAAATCTT-TAAGAT
1 TACAAATCATATCTTCTAAGAT
11793065 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
11793088 TGCATATCATATCT
1 TACAAATCATATCT
11793102 AATATTATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 20 0.65
23 8 0.26
ACGTcount: A:0.41, C:0.16, G:0.05, T:0.38
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:11793113 original size:19 final size:19
Alignment explanation
Indices: 11793080--11793152 Score: 101
Period size: 19 Copynumber: 3.8 Consensus size: 19
11793070 AATCATATCT
*
11793080 TCTAAGATTGCATATCATA
1 TCTAAGATTACATATCATA
* *
11793099 TCTAATATTATATATCATA
1 TCTAAGATTACATATCATA
*
11793118 TCTAAGATTGCATATCATA
1 TCTAAGATTACATATCATA
*
11793137 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
11793153 CCTGAAGATT
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 48 1.00
ACGTcount: A:0.37, C:0.15, G:0.08, T:0.40
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:11793152 original size:38 final size:36
Alignment explanation
Indices: 11793073--11793152 Score: 115
Period size: 38 Copynumber: 2.2 Consensus size: 36
11793063 ATTACAAAAT
*
11793073 CATATCTTCTAAGATTGCATATCATATCTAATATTA
1 CATATCTTCTAAGATTGCATATCATATCTAAGATTA
* *
11793109 TATATCATATCTAAGATTGCATATCATATCTAAGATTG
1 CATATC-T-TCTAAGATTGCATATCATATCTAAGATTA
11793147 CATATC
1 CATATC
11793153 CCTGAAGATT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
36 5 0.13
37 1 0.03
38 32 0.84
ACGTcount: A:0.36, C:0.16, G:0.07, T:0.40
Consensus pattern (36 bp):
CATATCTTCTAAGATTGCATATCATATCTAAGATTA
Found at i:11793701 original size:132 final size:132
Alignment explanation
Indices: 11793477--11793975 Score: 804
Period size: 132 Copynumber: 3.8 Consensus size: 132
11793467 TAGGACTTAC
* ** *
11793477 AATCTTCAACCTATTCCACTGCTGACCAGGG-AGATATG-ATTACTGGCTTCAATGTACTCCACT
1 AATCTTCAATCTATTCCACTATTGTCCAGGGAAG-TA-GAATTACTGGCTTCAATGTACTCCACT
* * *
11793540 GTAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCAGTACTACTTAGGGAGATAAGAT
64 ATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGAT
11793605 CTGA
129 CTGA
* *
11793609 AATCTTCAATCTATTCCACTGTTGTTCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTAT
1 AATCTTCAATCTATTCCACTATTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTAT
* * *
11793674 AACCACAGGGAGGTAAAATCCGTCATCTTCGATCTGCTCCACTACTGCTTAAGGAGATAAGACCT
66 AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
11793739 GA
131 GA
* * *
11793741 AATCTTCAATCTATTCCACTATTTTCCAGAGAAGTAGAATTACTGGCTTCAATATACTCCACTAT
1 AATCTTCAATCTATTCCACTATTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTAT
*
11793806 AACCACATGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
66 AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
11793871 GA
131 GA
*
11793873 AATCTTCAATCTATTCCACTATTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGT
1 AATCTTCAATCTATTCCACTATTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTAT
*
11793938 AATCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCT
66 AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCT
11793976 TCGCTGTCAA
Statistics
Matches: 340, Mismatches: 25, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
131 1 0.00
132 337 0.99
133 2 0.01
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (132 bp):
AATCTTCAATCTATTCCACTATTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTAT
AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
GA
Found at i:11795392 original size:22 final size:21
Alignment explanation
Indices: 11795344--11795396 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 21
11795334 TTTTCTTTTT
* *
11795344 CTTTTTCTTTTTATTTTTATCA
1 CTTTTT-TTTTTATTTTGACCA
11795366 CTTTTATTTTTTATTTTGACCA
1 CTTTT-TTTTTTATTTTGACCA
11795388 -TTTTTTTTT
1 CTTTTTTTTT
11795397 AATCTGAACT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 5 0.18
21 4 0.14
22 18 0.64
23 1 0.04
ACGTcount: A:0.13, C:0.11, G:0.02, T:0.74
Consensus pattern (21 bp):
CTTTTTTTTTTATTTTGACCA
Found at i:11800424 original size:22 final size:21
Alignment explanation
Indices: 11800389--11800465 Score: 68
Period size: 19 Copynumber: 3.7 Consensus size: 21
11800379 AAAGGGTATC
* *
11800389 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
11800410 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
11800433 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
11800452 TATATATCATATCT
1 TACAAATCATATCT
11800466 AAGATTGCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
19 17 0.37
21 4 0.09
22 15 0.33
23 10 0.22
ACGTcount: A:0.42, C:0.16, G:0.05, T:0.38
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:11800432 original size:23 final size:22
Alignment explanation
Indices: 11800389--11800446 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
11800379 AAAGGGTATC
* *
11800389 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
11800410 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
11800433 TGCATATCATATCT
1 TACAAATCATATCT
11800447 AAGATTATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:11800449 original size:19 final size:19
Alignment explanation
Indices: 11800425--11800478 Score: 90
Period size: 19 Copynumber: 2.8 Consensus size: 19
11800415 AATCATATCT
11800425 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
**
11800444 TCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATA
11800463 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
11800479 CCTGAAGATT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.37, C:0.15, G:0.09, T:0.39
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:11801877 original size:20 final size:19
Alignment explanation
Indices: 11801827--11801873 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
11801817 ATTTTTAAAA
* *
11801827 ATTTTAAATTTTAAATTTT
1 ATTTTAAATTTTTATTTTT
*
11801846 ATTTCTATATTTTTATTTTT
1 ATTT-TAAATTTTTATTTTT
11801866 ATTTTAAA
1 ATTTTAAA
11801874 ATTTATATTC
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (19 bp):
ATTTTAAATTTTTATTTTT
Found at i:11801882 original size:20 final size:20
Alignment explanation
Indices: 11801827--11801882 Score: 53
Period size: 20 Copynumber: 2.9 Consensus size: 20
11801817 ATTTTTAAAA
* *
11801827 ATTTTAAATTTTA-AATTTT
1 ATTTTAAAATTTATATTTTT
* *
11801846 ATTTCT-ATATTTTTATTTTT
1 ATTT-TAAAATTTATATTTTT
11801866 ATTTTAAAATTTATATT
1 ATTTTAAAATTTATATT
11801883 CAACTGTTAA
Statistics
Matches: 28, Mismatches: 6, Indels: 5
0.72 0.15 0.13
Matches are distributed among these distances:
19 9 0.32
20 19 0.68
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (20 bp):
ATTTTAAAATTTATATTTTT
Found at i:11805735 original size:25 final size:25
Alignment explanation
Indices: 11805702--11805751 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
11805692 TATATATATT
11805702 TTTTTTATTTTTTATTTTTAAAATA
1 TTTTTTATTTTTTATTTTTAAAATA
11805727 TTTTTTATTTTTTATTTTTAAAATA
1 TTTTTTATTTTTTATTTTTAAAATA
11805752 AAATTTTGGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (25 bp):
TTTTTTATTTTTTATTTTTAAAATA
Found at i:11805746 original size:6 final size:7
Alignment explanation
Indices: 11805702--11805745 Score: 52
Period size: 7 Copynumber: 5.7 Consensus size: 7
11805692 TATATATATT
11805702 TTTTTTA
1 TTTTTTA
11805709 TTTTTTA
1 TTTTTTA
11805716 TTTTTAAAATA
1 TTTTT----TA
11805727 TTTTTTA
1 TTTTTTA
11805734 TTTTTTA
1 TTTTTTA
11805741 TTTTT
1 TTTTT
11805746 AAAATAAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
7 26 0.79
11 7 0.21
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (7 bp):
TTTTTTA
Found at i:11806920 original size:22 final size:22
Alignment explanation
Indices: 11806889--11806931 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
11806879 AAATTTCTAA
11806889 TAAATAAAAA-AATATTAAATAC
1 TAAATAAAAATAATA-TAAATAC
*
11806911 TAAATTAAAATAATATAAATA
1 TAAATAAAAATAATATAAATA
11806932 TTATTTTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.30
Consensus pattern (22 bp):
TAAATAAAAATAATATAAATAC
Found at i:11829031 original size:18 final size:17
Alignment explanation
Indices: 11829010--11829044 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
11829000 TATGATTTAA
11829010 AATTTTTATAAATATTTT
1 AATTTTTATAAA-ATTTT
*
11829028 AATTTTTTTAAAATTTT
1 AATTTTTATAAAATTTT
11829045 TGTTGAGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (17 bp):
AATTTTTATAAAATTTT
Found at i:11830710 original size:21 final size:22
Alignment explanation
Indices: 11830686--11830726 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
11830676 AAAATATCAT
11830686 AAAAAT-ATTAAAATTTTAAAA
1 AAAAATAATTAAAATTTTAAAA
* *
11830707 AAAATTAATTAAATTTTTAA
1 AAAAATAATTAAAATTTTAA
11830727 CCTGATTCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.29
22 12 0.71
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (22 bp):
AAAAATAATTAAAATTTTAAAA
Found at i:11841207 original size:13 final size:13
Alignment explanation
Indices: 11841186--11841238 Score: 79
Period size: 13 Copynumber: 4.1 Consensus size: 13
11841176 TCTAAATTAA
11841186 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
*
11841199 ACTTCTCAAAAGC
1 ACTTTTCAAAAGC
* *
11841212 ACTTTTCCACAGC
1 ACTTTTCAAAAGC
11841225 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
11841238 A
1 A
11841239 ATGAAGAACT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 34 1.00
ACGTcount: A:0.36, C:0.28, G:0.08, T:0.28
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:11842287 original size:642 final size:649
Alignment explanation
Indices: 11841254--11842511 Score: 1965
Period size: 642 Copynumber: 1.9 Consensus size: 649
11841244 GAACTGGCCC
*
11841254 TTAACATCAGTTTTCAGTGACTGTTGTGACCGAAGATGGCGTTCACGTTCGCCACGACTAGAGAG
1 TTAACATCAGTTTTCAGCGACTGTTGTGACCGAAGATGGCGTTCACGTTCGCCACGACTAGAGAG
11841319 TCTTGAAAGAGAGAAGAGTGAAAAAAAAAAGAAGAAAAGTAATGAAAGGGAAAAAAATAATAATT
66 TCTTGAAAGAGAGAAGAGTGAAAAAAAAAAGAAGAAAAGTAATGAAAGGG--AAAAATAATAATT
*
11841384 AATAATTAAAATAAAATAAAAAATAAAATTTACTCAAAAAAATATTAGAAATAGTTGTGCAATTT
129 AATAATTAAAAGAAAATAAAAAATAAAATTTACTCAAAAAAATATTAGAAATAGTTGTGCAATTT
*
11841449 ATTGAAATTTTATCTAATAAAACGGAATAATTATAAATCTCCAAAATAATAGATTAAAATATTGC
194 ATTGAAATTTTATCTAATAAAACGGAAGAATTATAAATCTCCAAAATAATAGATTAAAATATTGC
*
11841514 AAATGAAGTCATTGCGACACCCATCAAACGAGTCGTTATCCATCCACGATTTGTATAGCCATAAA
259 AAATGAAGTCATTGCGACACCCATCAAACGAGTCGTTATCCATCCACGATTTGTATACCCATAAA
* * * *
11841579 TCTTATTTTGTATTAAGTTTTATTTGATTTTATATATCATTTCACTGTAAATAAACAATCTTATC
324 TATTATTTTCTATTAAGTTTTATCTAATTTTATATATCATTTCACTGTAAATAAACAATCTTATC
* * *
11841644 ATAGATCCATTATGATCTTGAAATTATATAATAAT-G-AA-A-AC-A-A-TAACTTTAATCACCA
389 ATAGAGCCATTATGATCTTAAAATTATATAATAATAGAAACAGACAACAGTAACCTTAATCACCA
*
11841702 TCTCTATATCTA-AGTTACTTGTAAATTTTACTGAGTACGTCTTATATACTATTTTTGTACAACT
454 TCTCTATATCTAGA-TTACTTGTAAATTTTACTGAGTACGTCTTATATACTATTTTTGGACAA--
11841766 CTCTCAATAATTAAGAAATCCATTTGAGGAATACGGATAACGAA-AATTACAAAATTCGATGCCA
516 --CTCAATAATTAAGAAATCCATTTGAGGAATACGGATAAC-AACAATTACAAAATTCGATGCCA
* *
11841830 CATTTTATCTTGTTGTTGCGCTCTTAACAAGAGTTTTCAGTGAAAAGAAAAAACTTGTGTCCAAG
578 CATTTTATCTCGTTGTTGCGCACTTAACAAGAGTTTTCAGTGAAAAGAAAAAACTTGTGTCCAAG
11841895 TGTTCAT
643 TGTTCAT
* **
11841902 TTAACATTAGTTTTCAGCGACTGTTGTGACCGAAGATGGCGTTTGCGTTCGCCACGACTAGAGAG
1 TTAACATCAGTTTTCAGCGACTGTTGTGACCGAAGATGGCGTTCACGTTCGCCACGACTAGAGAG
11841967 TCTTGAAAGAGAGAAGAGTGAAAAATAAAAA-AAGAAAAGTAATGAAAGGG-AAAA-AATAATTA
66 TCTTGAAAGAGAGAAGAGTGAAAAA-AAAAAGAAGAAAAGTAATGAAAGGGAAAAATAATAATTA
* *
11842029 ATAATTAAAGGAAAATAAAAAATAAAATTTACTC-AAAAAATATTAGAAATAGTTGTTCAATTTA
130 ATAATTAAAAGAAAATAAAAAATAAAATTTACTCAAAAAAATATTAGAAATAGTTGTGCAATTTA
*
11842093 TTGAAATTTTATCTAGTAAAA-GGAAGAATTATAAATCTCCAAAATAATAGA-TAAGAATATTGC
195 TTGAAATTTTATCTAATAAAACGGAAGAATTATAAATCTCCAAAATAATAGATTAA-AATATTGC
* * * * *
11842156 AAATGAATTCATTGCGATACCCATTAAA-GAAGTCGTTATCCATCCATGATTTGTGTACCCATAA
259 AAATGAAGTCATTGCGACACCCATCAAACG-AGTCGTTATCCATCCACGATTTGTATACCCATAA
** * *
11842220 ATATTATTTTCTATTCAA-TTTTATCTAATTTTATATATCATTTTGCTGTAAATAAATAATTTTA
323 ATATTATTTTCTATT-AAGTTTTATCTAATTTTATATATCATTTCACTGTAAATAAACAATCTTA
* * * *
11842284 TCATAGAGCTATTGTGATCTTAAAATTATATAATAATAGAAACAGACAAACAGTAACCTTAGTTA
387 TCATAGAGCCATTATGATCTTAAAATTATATAATAATAGAAACAGAC-AACAGTAACCTTAATCA
*
11842349 CCATCTCTATATCTAGATTACTTGTAAATTTTACTGGGTACGTCTTATATACTATTTTTGGACAA
451 CCATCTCTATATCTAGATTACTTGTAAATTTTACTGAGTACGTCTTATATACTATTTTTGGACAA
*
11842414 CTCAATAATTAAGAAATTCATTTGAGGAATACGGATAACAACAATTACAAAATTCGATGCCACAT
516 CTCAATAATTAAGAAATCCATTTGAGGAATACGGATAACAACAATTACAAAATTCGATGCCACAT
11842479 TTTATCTCGTTGTTGCGCACTTAACAAGAGTTT
581 TTTATCTCGTTGTTGCGCACTTAACAAGAGTTT
11842512 AACAGTTTCA
Statistics
Matches: 561, Mismatches: 35, Indels: 30
0.90 0.06 0.05
Matches are distributed among these distances:
641 4 0.01
642 179 0.32
643 52 0.09
644 42 0.07
645 7 0.01
646 94 0.17
648 106 0.19
649 6 0.01
650 70 0.12
651 1 0.00
ACGTcount: A:0.40, C:0.13, G:0.14, T:0.33
Consensus pattern (649 bp):
TTAACATCAGTTTTCAGCGACTGTTGTGACCGAAGATGGCGTTCACGTTCGCCACGACTAGAGAG
TCTTGAAAGAGAGAAGAGTGAAAAAAAAAAGAAGAAAAGTAATGAAAGGGAAAAATAATAATTAA
TAATTAAAAGAAAATAAAAAATAAAATTTACTCAAAAAAATATTAGAAATAGTTGTGCAATTTAT
TGAAATTTTATCTAATAAAACGGAAGAATTATAAATCTCCAAAATAATAGATTAAAATATTGCAA
ATGAAGTCATTGCGACACCCATCAAACGAGTCGTTATCCATCCACGATTTGTATACCCATAAATA
TTATTTTCTATTAAGTTTTATCTAATTTTATATATCATTTCACTGTAAATAAACAATCTTATCAT
AGAGCCATTATGATCTTAAAATTATATAATAATAGAAACAGACAACAGTAACCTTAATCACCATC
TCTATATCTAGATTACTTGTAAATTTTACTGAGTACGTCTTATATACTATTTTTGGACAACTCAA
TAATTAAGAAATCCATTTGAGGAATACGGATAACAACAATTACAAAATTCGATGCCACATTTTAT
CTCGTTGTTGCGCACTTAACAAGAGTTTTCAGTGAAAAGAAAAAACTTGTGTCCAAGTGTTCAT
Found at i:11853473 original size:3 final size:3
Alignment explanation
Indices: 11853467--11853500 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
11853457 GTTAATTTTG
11853467 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
11853501 GTGGCGTGAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:11855029 original size:49 final size:49
Alignment explanation
Indices: 11854952--11855085 Score: 162
Period size: 49 Copynumber: 2.7 Consensus size: 49
11854942 TTTCAACTCA
* * * *
11854952 GGCTCCCAGTTCACGGTGGTTATACGGTCACAAGTTGAAGTATAACTAG
1 GGCTCCCAGTTGACGGTGATTTTGCGGTCACAAGTTGAAGTATAACTAG
* *
11855001 GGCTCCCAGTTGACGGCGATTTTGCGGTCACAAGTTGAAGTATAACTCG
1 GGCTCCCAGTTGACGGTGATTTTGCGGTCACAAGTTGAAGTATAACTAG
* * * *
11855050 GGAC-CCTAGTTGACAGTGACTTTGCGGTCACGAGTT
1 GG-CTCCCAGTTGACGGTGATTTTGCGGTCACAAGTT
11855086 CGAGTTTCAT
Statistics
Matches: 73, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
49 72 0.99
50 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (49 bp):
GGCTCCCAGTTGACGGTGATTTTGCGGTCACAAGTTGAAGTATAACTAG
Found at i:11856629 original size:13 final size:13
Alignment explanation
Indices: 11856611--11856642 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
11856601 ATAAAAAAAA
11856611 TTATTTTAGTTCT
1 TTATTTTAGTTCT
11856624 TTATTTTAGTTCT
1 TTATTTTAGTTCT
11856637 TTATTT
1 TTATTT
11856643 ATTTTAATCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.16, C:0.06, G:0.06, T:0.72
Consensus pattern (13 bp):
TTATTTTAGTTCT
Found at i:11856822 original size:10 final size:9
Alignment explanation
Indices: 11856798--11856840 Score: 54
Period size: 8 Copynumber: 4.9 Consensus size: 9
11856788 AAAATTTAAA
11856798 AATATTTTT
1 AATATTTTT
11856807 -ATATTTTT
1 AATATTTTT
*
11856815 AATAATTTT
1 AATATTTTT
11856824 AATGATTTTT
1 AAT-ATTTTT
11856834 AAT-TTTT
1 AATATTTT
11856841 AAAAATAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
8 12 0.40
9 10 0.33
10 8 0.27
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (9 bp):
AATATTTTT
Found at i:11860567 original size:28 final size:28
Alignment explanation
Indices: 11860531--11860593 Score: 117
Period size: 28 Copynumber: 2.2 Consensus size: 28
11860521 AATAGATGAA
11860531 AGATAGAGGGACGAGAGAAAAAGATAGAG
1 AGAT-GAGGGACGAGAGAAAAAGATAGAG
11860560 AGATGAGGGACGAGAGAAAAAGATAGAG
1 AGATGAGGGACGAGAGAAAAAGATAGAG
11860588 AGATGA
1 AGATGA
11860594 AAGAGTAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 30 0.88
29 4 0.12
ACGTcount: A:0.51, C:0.03, G:0.38, T:0.08
Consensus pattern (28 bp):
AGATGAGGGACGAGAGAAAAAGATAGAG
Found at i:11873310 original size:18 final size:20
Alignment explanation
Indices: 11873287--11873330 Score: 65
Period size: 18 Copynumber: 2.3 Consensus size: 20
11873277 AGTTTTACTT
*
11873287 TTTAAAAATACAAA-AA-TA
1 TTTAAAAATAAAAATAATTA
11873305 TTTAAAAATAAAAATAATTA
1 TTTAAAAATAAAAATAATTA
11873325 TTTAAA
1 TTTAAA
11873331 TGTTTATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 13 0.57
19 2 0.09
20 8 0.35
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (20 bp):
TTTAAAAATAAAAATAATTA
Found at i:11874332 original size:59 final size:59
Alignment explanation
Indices: 11874264--11874380 Score: 189
Period size: 59 Copynumber: 2.0 Consensus size: 59
11874254 ATGATTTAAT
* *
11874264 GAAGGAGTATTAAATTTAAACAATGTTAGTGATTACAATAAAAATTACTAAAACAAAAC
1 GAAGGAGTATTAAATTTAAACAACGTTAGTGATTACAATAAAAATAACTAAAACAAAAC
* * *
11874323 GAAGGAGTATTAAATTTCAATAACGTTAGTGATTACAATAAATATAACTAAAACAAAA
1 GAAGGAGTATTAAATTTAAACAACGTTAGTGATTACAATAAAAATAACTAAAACAAAA
11874381 ATATGTATAT
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
59 53 1.00
ACGTcount: A:0.52, C:0.09, G:0.12, T:0.27
Consensus pattern (59 bp):
GAAGGAGTATTAAATTTAAACAACGTTAGTGATTACAATAAAAATAACTAAAACAAAAC
Found at i:11875722 original size:23 final size:23
Alignment explanation
Indices: 11875679--11875722 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
11875669 TATTGAAAAT
*
11875679 AATTAATTTATGAATTAATTTAA
1 AATTAATTTATGAATAAATTTAA
*
11875702 AATTATTTTAT-AATAATATTT
1 AATTAATTTATGAATAA-ATTT
11875723 TATTTTATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 4 0.22
23 14 0.78
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (23 bp):
AATTAATTTATGAATAAATTTAA
Found at i:11883394 original size:12 final size:12
Alignment explanation
Indices: 11883377--11883403 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
11883367 TTTATGTGAT
11883377 CCCTTCATATAC
1 CCCTTCATATAC
11883389 CCCTTCATATAC
1 CCCTTCATATAC
11883401 CCC
1 CCC
11883404 AAGAGGCTCA
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:0.22, C:0.48, G:0.00, T:0.30
Consensus pattern (12 bp):
CCCTTCATATAC
Found at i:11886512 original size:46 final size:46
Alignment explanation
Indices: 11886443--11886587 Score: 240
Period size: 46 Copynumber: 3.2 Consensus size: 46
11886433 TTTGAGTACT
* *
11886443 TCTGATCAA-TGACAAAATGATAAGTGTTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAATGATAAGTGGTAGCCTTAGCTACACTTA
11886488 T-TAGATCAAGTGACAAAATGATAAGTGGTAGCCTTAGCTACACTTA
1 TCT-GATCAAGTGACAAAATGATAAGTGGTAGCCTTAGCTACACTTA
*
11886534 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTA
1 TCTGATCAAGTGACAAAATGATAAGTGGTAGCCTTAGCTACACTTA
11886580 TCTGATCA
1 TCTGATCA
11886588 GGGATAAGTA
Statistics
Matches: 94, Mismatches: 3, Indels: 5
0.92 0.03 0.05
Matches are distributed among these distances:
44 1 0.01
45 7 0.07
46 85 0.90
47 1 0.01
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (46 bp):
TCTGATCAAGTGACAAAATGATAAGTGGTAGCCTTAGCTACACTTA
Found at i:11888496 original size:17 final size:16
Alignment explanation
Indices: 11888474--11888516 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
11888464 AAATATTCTA
*
11888474 AATTAAATTTGTTTATT
1 AATTAAATTT-TTAATT
11888491 AATTAAAATTTTTAATT
1 AATT-AAATTTTTAATT
*
11888508 CATTAAATT
1 AATTAAATT
11888517 GATTTTTTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 5 0.22
17 12 0.52
18 6 0.26
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.53
Consensus pattern (16 bp):
AATTAAATTTTTAATT
Found at i:11894415 original size:14 final size:15
Alignment explanation
Indices: 11894387--11894415 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
11894377 TTAACATGAT
11894387 CCTTTAAATATTTTA
1 CCTTTAAATATTTTA
11894402 CCTTTAAA-ATTTTA
1 CCTTTAAATATTTTA
11894416 TTTATTAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.34, C:0.14, G:0.00, T:0.52
Consensus pattern (15 bp):
CCTTTAAATATTTTA
Found at i:11897240 original size:21 final size:20
Alignment explanation
Indices: 11897215--11897256 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 20
11897205 TTGAGAAAAA
11897215 AAATTTATGAGTTTAAAA-ATG
1 AAATTTAT-A-TTTAAAATATG
11897236 AAATTTATATTTAAAATATG
1 AAATTTATATTTAAAATATG
11897256 A
1 A
11897257 GTAAAATTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 7 0.35
20 5 0.25
21 8 0.40
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (20 bp):
AAATTTATATTTAAAATATG
Found at i:11897543 original size:40 final size:42
Alignment explanation
Indices: 11897447--11897543 Score: 99
Period size: 40 Copynumber: 2.4 Consensus size: 42
11897437 CCTTTTTCGG
* *
11897447 CAAATCGCGTCCACGTCAGCGCGATGTCAGGGGACGTGCCAG
1 CAAATCGCGTCCACGTCAGCGCGATGTCAGCGGACGTGCCAA
* * * * * * *
11897489 GAAATCGTGGCCACGTCAGCGCGCT-T-TGCTGACGTGGCAA
1 CAAATCGCGTCCACGTCAGCGCGATGTCAGCGGACGTGCCAA
11897529 CAAATCGCGTCCACG
1 CAAATCGCGTCCACG
11897544 AGGGGGCAAT
Statistics
Matches: 43, Mismatches: 12, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
40 21 0.49
41 1 0.02
42 21 0.49
ACGTcount: A:0.22, C:0.31, G:0.31, T:0.16
Consensus pattern (42 bp):
CAAATCGCGTCCACGTCAGCGCGATGTCAGCGGACGTGCCAA
Found at i:11897812 original size:90 final size:90
Alignment explanation
Indices: 11897710--11897889 Score: 351
Period size: 90 Copynumber: 2.0 Consensus size: 90
11897700 ATACTCCTTT
11897710 GAAAATACAAAACATTATGATAGCTAATTTAAAATTTATTCTCCACAACTAATGAAAATCATTTA
1 GAAAATACAAAACATTATGATAGCTAATTTAAAATTTATTCTCCACAACTAATGAAAATCATTTA
*
11897775 AAATGCTAAAACTAGATCTGTCTGA
66 AAATACTAAAACTAGATCTGTCTGA
11897800 GAAAATACAAAACATTATGATAGCTAATTTAAAATTTATTCTCCACAACTAATGAAAATCATTTA
1 GAAAATACAAAACATTATGATAGCTAATTTAAAATTTATTCTCCACAACTAATGAAAATCATTTA
11897865 AAATACTAAAACTAGATCTGTCTGA
66 AAATACTAAAACTAGATCTGTCTGA
11897890 ACAAACACAA
Statistics
Matches: 89, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
90 89 1.00
ACGTcount: A:0.46, C:0.14, G:0.08, T:0.31
Consensus pattern (90 bp):
GAAAATACAAAACATTATGATAGCTAATTTAAAATTTATTCTCCACAACTAATGAAAATCATTTA
AAATACTAAAACTAGATCTGTCTGA
Found at i:11898070 original size:22 final size:23
Alignment explanation
Indices: 11898017--11898072 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 23
11898007 TTTAATTAAA
* * *
11898017 ATTAAAATTAAAATTATTTTTTT
1 ATTAAAATTAAAACTATATTGTT
*
11898040 AATAAAATTAAAACTA-ATTGTT
1 ATTAAAATTAAAACTATATTGTT
11898062 ATTAAAATTAA
1 ATTAAAATTAA
11898073 TTGTTAGTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 14 0.50
23 14 0.50
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (23 bp):
ATTAAAATTAAAACTATATTGTT
Found at i:11898085 original size:16 final size:16
Alignment explanation
Indices: 11898048--11898087 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
11898038 TTAATAAAAT
* *
11898048 TAAAACTAATTGTTAT
1 TAAAATTAATTGTTAG
11898064 TAAAATTAATTGTTAG
1 TAAAATTAATTGTTAG
11898080 TAAAATTA
1 TAAAATTA
11898088 TCAAATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (16 bp):
TAAAATTAATTGTTAG
Found at i:11906950 original size:23 final size:22
Alignment explanation
Indices: 11906922--11906982 Score: 58
Period size: 21 Copynumber: 2.9 Consensus size: 22
11906912 GCCTGAATTA
11906922 TATTAAATATATATATTTTTTAT
1 TATTAAATATATATATTTTTT-T
* *
11906945 T-TTTAATCA-A-ATATGTTTTT
1 TATTAAAT-ATATATATTTTTTT
11906965 TATTAAATATATAT-TTTT
1 TATTAAATATATATATTTT
11906983 AGACTTTTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 10
0.68 0.09 0.23
Matches are distributed among these distances:
20 3 0.10
21 17 0.57
22 8 0.27
23 2 0.07
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.61
Consensus pattern (22 bp):
TATTAAATATATATATTTTTTT
Found at i:11906981 original size:17 final size:17
Alignment explanation
Indices: 11906942--11906983 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
11906932 ATATATTTTT
*
11906942 TATTTTTAATCAAATATG
1 TATTTTT-ATCAAATATA
*
11906960 T-TTTTTATTAAATATA
1 TATTTTTATCAAATATA
11906976 TATTTTTA
1 TATTTTTA
11906984 GACTTTTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
16 9 0.43
17 11 0.52
18 1 0.05
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (17 bp):
TATTTTTATCAAATATA
Found at i:11908532 original size:20 final size:20
Alignment explanation
Indices: 11908481--11908532 Score: 56
Period size: 18 Copynumber: 2.7 Consensus size: 20
11908471 AAATCATTGC
11908481 AATATATGTAAAAATAATTT
1 AATATATGTAAAAATAATTT
* *
11908501 AA-A-ATATAAAAAT-TTATT
1 AATATATGTAAAAATAAT-TT
11908519 AATATATGTAAAAA
1 AATATATGTAAAAA
11908533 CAACTTTTCC
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
17 1 0.04
18 13 0.50
19 2 0.08
20 10 0.38
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.37
Consensus pattern (20 bp):
AATATATGTAAAAATAATTT
Found at i:11908652 original size:20 final size:20
Alignment explanation
Indices: 11908624--11908661 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
11908614 TATTTTCCAA
*
11908624 TAAATCATTTTACAGAAAAG
1 TAAAACATTTTACAGAAAAG
*
11908644 TAAAACATTTTTCAGAAA
1 TAAAACATTTTACAGAAA
11908662 TCATTTTACG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.50, C:0.11, G:0.08, T:0.32
Consensus pattern (20 bp):
TAAAACATTTTACAGAAAAG
Found at i:11913198 original size:15 final size:17
Alignment explanation
Indices: 11913180--11913217 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
11913170 ATTAATCAAA
11913180 TATATTAA-ATT-ATTT
1 TATATTAAGATTAATTT
11913195 TATATTAAGATTAATTT
1 TATATTAAGATTAATTT
*
11913212 TTTATT
1 TATATT
11913218 TCAAATATGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 8 0.40
16 3 0.15
17 9 0.45
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.61
Consensus pattern (17 bp):
TATATTAAGATTAATTT
Found at i:11916696 original size:22 final size:22
Alignment explanation
Indices: 11916645--11916700 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 22
11916635 TAAAATTATG
11916645 AAATTATAATTTAATACATAAT
1 AAATTATAATTTAATACATAAT
*
11916667 AAACTTATATTTTAAT-CTATGAA-
1 AAA-TTATAATTTAATAC-AT-AAT
11916690 AAATTATAATT
1 AAATTATAATT
11916701 AAATTTTGGC
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
22 11 0.38
23 16 0.55
24 2 0.07
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (22 bp):
AAATTATAATTTAATACATAAT
Found at i:11920363 original size:35 final size:35
Alignment explanation
Indices: 11920323--11920417 Score: 181
Period size: 35 Copynumber: 2.7 Consensus size: 35
11920313 ACAAAAAAAT
11920323 ATTTTAAAAATAAAAAATAAAAATATTTTAAAAGA
1 ATTTTAAAAATAAAAAATAAAAATATTTTAAAAGA
11920358 ATTTTAAAAATAAAAAATAAAAATATTTTAAAAGA
1 ATTTTAAAAATAAAAAATAAAAATATTTTAAAAGA
*
11920393 ATTTTAAAATTAAAAAATAAAAATA
1 ATTTTAAAAATAAAAAATAAAAATA
11920418 AAAAAATATA
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
35 59 1.00
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (35 bp):
ATTTTAAAAATAAAAAATAAAAATATTTTAAAAGA
Found at i:11921600 original size:11 final size:11
Alignment explanation
Indices: 11921584--11921617 Score: 68
Period size: 11 Copynumber: 3.1 Consensus size: 11
11921574 TTTTGTCTCA
11921584 CGCTACAGTAT
1 CGCTACAGTAT
11921595 CGCTACAGTAT
1 CGCTACAGTAT
11921606 CGCTACAGTAT
1 CGCTACAGTAT
11921617 C
1 C
11921618 TAATCTTACC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.26
Consensus pattern (11 bp):
CGCTACAGTAT
Found at i:11924019 original size:22 final size:23
Alignment explanation
Indices: 11923993--11924040 Score: 62
Period size: 24 Copynumber: 2.1 Consensus size: 23
11923983 CTAAAATTTG
**
11923993 AAAAAT-GTGTATTATTGAATAA
1 AAAAATAGTGTATTATAAAATAA
11924015 AAAAATACGTGTATTATAAAATAA
1 AAAAATA-GTGTATTATAAAATAA
11924039 AA
1 AA
11924041 CCTTAGCCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 6 0.27
24 16 0.73
ACGTcount: A:0.56, C:0.02, G:0.10, T:0.31
Consensus pattern (23 bp):
AAAAATAGTGTATTATAAAATAA
Found at i:11924462 original size:29 final size:30
Alignment explanation
Indices: 11924417--11924475 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 30
11924407 TGAATATATT
11924417 ATGTTATAAAAATATTATAT-TAATTATAA
1 ATGTTATAAAAATATTATATATAATTATAA
* *
11924446 ATGTTA-AATAATAATTATATATATTTATAA
1 ATGTTATAAAAAT-ATTATATATAATTATAA
11924476 TTATATTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 5 0.19
29 13 0.50
30 8 0.31
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (30 bp):
ATGTTATAAAAATATTATATATAATTATAA
Found at i:11925775 original size:27 final size:27
Alignment explanation
Indices: 11925737--11925812 Score: 118
Period size: 27 Copynumber: 2.8 Consensus size: 27
11925727 TAGTATTGGC
11925737 GCCTATCTGGGAGGCGCCAATGGTGGT
1 GCCTATCTGGGAGGCGCCAATGGTGGT
*
11925764 GCCTACCTGGGAGGCGCCAATGGTGGT
1 GCCTATCTGGGAGGCGCCAATGGTGGT
*
11925791 GCC-ATTCTGAGAGGCGCCAATG
1 GCCTA-TCTGGGAGGCGCCAATG
11925813 CTGTTATTTT
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
26 1 0.02
27 44 0.98
ACGTcount: A:0.17, C:0.25, G:0.38, T:0.20
Consensus pattern (27 bp):
GCCTATCTGGGAGGCGCCAATGGTGGT
Found at i:11925923 original size:22 final size:23
Alignment explanation
Indices: 11925871--11925923 Score: 74
Period size: 22 Copynumber: 2.3 Consensus size: 23
11925861 CCAGAAACGA
*
11925871 AAGAAATAAGAAGGAAGGAAGCAG
1 AAGAAA-AAGAAGGAAGGAAGAAG
11925895 AAG-AAAAGAAGGAAGGAA-AAG
1 AAGAAAAAGAAGGAAGGAAGAAG
11925916 AAGAAAAA
1 AAGAAAAA
11925924 AATTAGGTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
21 5 0.19
22 17 0.63
23 2 0.07
24 3 0.11
ACGTcount: A:0.66, C:0.02, G:0.30, T:0.02
Consensus pattern (23 bp):
AAGAAAAAGAAGGAAGGAAGAAG
Found at i:11935866 original size:21 final size:21
Alignment explanation
Indices: 11935840--11935880 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
11935830 AGACGAGCAA
* *
11935840 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
11935861 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
11935881 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:11937819 original size:16 final size:16
Alignment explanation
Indices: 11937786--11937819 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
11937776 GGAGATTGTT
* *
11937786 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
11937802 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
11937818 AA
1 AA
11937820 TACAAAGTGG
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:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:11943502 original size:21 final size:22
Alignment explanation
Indices: 11943476--11943522 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
11943466 CTCTGCTCAA
*
11943476 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
11943497 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
11943519 ACTC
1 ACTC
11943523 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:11949217 original size:33 final size:33
Alignment explanation
Indices: 11949175--11949242 Score: 127
Period size: 33 Copynumber: 2.1 Consensus size: 33
11949165 ATTTCACTTC
*
11949175 TAGTATTTGTAAATGTGACATAGTGAATAATGT
1 TAGTATTTGTAAATGTGACACAGTGAATAATGT
11949208 TAGTATTTGTAAATGTGACACAGTGAATAATGT
1 TAGTATTTGTAAATGTGACACAGTGAATAATGT
11949241 TA
1 TA
11949243 TTCTGAATCC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.37, C:0.04, G:0.21, T:0.38
Consensus pattern (33 bp):
TAGTATTTGTAAATGTGACACAGTGAATAATGT
Found at i:11953398 original size:4 final size:4
Alignment explanation
Indices: 11953389--11953417 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
11953379 AATACTTAAT
11953389 ATAA ATAA ATAA ATAA ATAA ATAA ATAA A
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA A
11953418 GGAGCATAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:11966674 original size:94 final size:93
Alignment explanation
Indices: 11966551--11966730 Score: 238
Period size: 94 Copynumber: 1.9 Consensus size: 93
11966541 CAATTTACAT
* *
11966551 TAATTGAAGAAAACATCATAAGCCATCAATTTGGATTCCACTACGTATGTGAAATATTGAAATTG
1 TAATTGAAGAAAACATCATAAGCCATCAATTTGGATTCCACTACATATGTGAAATATTCAAA-TG
11966616 -TTTTTTGGACAGTTCATATTCCTTTTATAC
65 ATTTTTT-GACAGTTCA-ATTCCTTTTATAC
* * * *** *
11966646 TAATTGAAG-AAACGTCATAAGCCGTCAATTTGTATTCTTTTGCATATGTGAAATATTCAAATGA
1 TAATTGAAGAAAACATCATAAGCCATCAATTTGGATTCCACTACATATGTGAAATATTCAAATGA
11966710 TTTTTTGACAGTTCAATTCCT
66 TTTTTTGACAGTTCAATTCCT
11966731 ATCAATTGAT
Statistics
Matches: 75, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
92 6 0.08
93 11 0.15
94 49 0.65
95 9 0.12
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.39
Consensus pattern (93 bp):
TAATTGAAGAAAACATCATAAGCCATCAATTTGGATTCCACTACATATGTGAAATATTCAAATGA
TTTTTTGACAGTTCAATTCCTTTTATAC
Found at i:11967278 original size:78 final size:78
Alignment explanation
Indices: 11967189--11967345 Score: 314
Period size: 78 Copynumber: 2.0 Consensus size: 78
11967179 TCAAATATGA
11967189 TCAACACAATCCCCGTCTTATAAAAAATAAAAAATAAAAAACCATTGCTAGAAAATGGGTATCAA
1 TCAACACAATCCCCGTCTTATAAAAAATAAAAAATAAAAAACCATTGCTAGAAAATGGGTATCAA
11967254 GTCTGACCTGTGC
66 GTCTGACCTGTGC
11967267 TCAACACAATCCCCGTCTTATAAAAAATAAAAAATAAAAAACCATTGCTAGAAAATGGGTATCAA
1 TCAACACAATCCCCGTCTTATAAAAAATAAAAAATAAAAAACCATTGCTAGAAAATGGGTATCAA
11967332 GTCTGACCTGTGC
66 GTCTGACCTGTGC
11967345 T
1 T
11967346 GGAAAATATG
Statistics
Matches: 79, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
78 79 1.00
ACGTcount: A:0.43, C:0.20, G:0.13, T:0.24
Consensus pattern (78 bp):
TCAACACAATCCCCGTCTTATAAAAAATAAAAAATAAAAAACCATTGCTAGAAAATGGGTATCAA
GTCTGACCTGTGC
Found at i:11981829 original size:91 final size:89
Alignment explanation
Indices: 11981669--11981851 Score: 294
Period size: 91 Copynumber: 2.0 Consensus size: 89
11981659 AGTTTAAATG
* *
11981669 GGTGCGTGAGCGTTCATAGATTGGGTTTAGGCCAAATTGGGTTTGGGTGTATGGTGTTAGCACCA
1 GGTGCGTGAGCGTTCATAGATCGAGTTTAGGCCAAATTGGGTTTGGGTGTATGGTGTTAGCACCA
11981734 CCAGTAAAAAAATAATGTATCCACT
66 CCAGT-AAAAAATAATGTATCCACT
* *
11981759 GGTGCAGTGAGTGTTCATAGATCGAGTTTAGGCCAAATTTGGTTTGGGTGTATGGTGTTAGCACC
1 GGTGC-GTGAGCGTTCATAGATCGAGTTTAGGCCAAATTGGGTTTGGGTGTATGGTGTTAGCACC
* *
11981824 ACCAGTAAAAAATGATGTATCCATT
65 ACCAGTAAAAAATAATGTATCCACT
11981849 GGT
1 GGT
11981852 TTATGGTGTT
Statistics
Matches: 86, Mismatches: 6, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
90 25 0.29
91 61 0.71
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (89 bp):
GGTGCGTGAGCGTTCATAGATCGAGTTTAGGCCAAATTGGGTTTGGGTGTATGGTGTTAGCACCA
CCAGTAAAAAATAATGTATCCACT
Found at i:11981859 original size:44 final size:44
Alignment explanation
Indices: 11981809--11981895 Score: 174
Period size: 44 Copynumber: 2.0 Consensus size: 44
11981799 GGTTTGGGTG
11981809 TATGGTGTTAGCACCACCAGTAAAAAATGATGTATCCATTGGTT
1 TATGGTGTTAGCACCACCAGTAAAAAATGATGTATCCATTGGTT
11981853 TATGGTGTTAGCACCACCAGTAAAAAATGATGTATCCATTGGT
1 TATGGTGTTAGCACCACCAGTAAAAAATGATGTATCCATTGGT
11981896 GCAATGTTCA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.31
Consensus pattern (44 bp):
TATGGTGTTAGCACCACCAGTAAAAAATGATGTATCCATTGGTT
Found at i:11983144 original size:51 final size:50
Alignment explanation
Indices: 11983067--11983227 Score: 235
Period size: 51 Copynumber: 3.3 Consensus size: 50
11983057 CAGATCACAT
* *
11983067 TTATCACTTGTCACTTGTCCCCGATCAGATAAGTGTAGCTAAAGCTATCAC
1 TTATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTA-CAC
*
11983118 TTATCACTTGTTACTTGTCACTGATCAGATAAGTGTAGCTAAAGC--CAC
1 TTATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACAC
11983166 ----CACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
1 TTATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTA-CAC
11983213 TTATCACTTGTCACT
1 TTATCACTTGTCACT
11983228 GATTAGAAGT
Statistics
Matches: 99, Mismatches: 4, Indels: 14
0.85 0.03 0.12
Matches are distributed among these distances:
44 40 0.40
47 3 0.03
48 3 0.03
51 53 0.54
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.32
Consensus pattern (50 bp):
TTATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACAC
Found at i:11983170 original size:44 final size:44
Alignment explanation
Indices: 11983071--11983230 Score: 212
Period size: 44 Copynumber: 3.5 Consensus size: 44
11983061 TCACATTTAT
* *
11983071 CACTTGTCACTTGTCCCCGATCAGATAAGTGTAGCTAAAGCTATCAC
1 CACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGC---CAC
*
11983118 TTATCACTTGTTACTTGTCACTGATCAGATAAGTGTAGCTAAAGCCAC
1 ----CACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCCAC
*
11983166 CACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCCAC
*
11983210 CACTTATCACTTGTCACTGAT
1 CACTTGTCACTTGTCACTGAT
11983231 TAGAAGTACT
Statistics
Matches: 103, Mismatches: 6, Indels: 7
0.89 0.05 0.06
Matches are distributed among these distances:
44 62 0.60
48 3 0.03
51 38 0.37
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.31
Consensus pattern (44 bp):
CACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCCAC
Found at i:11987207 original size:16 final size:16
Alignment explanation
Indices: 11987186--11987218 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
11987176 GCTTGTCTTT
11987186 TACTACATATGACGAA
1 TACTACATATGACGAA
11987202 TACTACATATGACGAA
1 TACTACATATGACGAA
11987218 T
1 T
11987219 GTTTGTTGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.42, C:0.18, G:0.12, T:0.27
Consensus pattern (16 bp):
TACTACATATGACGAA
Found at i:11988095 original size:5 final size:5
Alignment explanation
Indices: 11988085--11988118 Score: 59
Period size: 5 Copynumber: 6.6 Consensus size: 5
11988075 AGCAGTCTGC
11988085 AGGTT AGGTT AGGTT AGGTT AGGTT AGGCTT AGG
1 AGGTT AGGTT AGGTT AGGTT AGGTT AGG-TT AGG
11988119 GTCTTTACTA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 23 0.82
6 5 0.18
ACGTcount: A:0.21, C:0.03, G:0.41, T:0.35
Consensus pattern (5 bp):
AGGTT
Found at i:11992185 original size:22 final size:22
Alignment explanation
Indices: 11992151--11992322 Score: 218
Period size: 22 Copynumber: 7.8 Consensus size: 22
11992141 AAGTAAAAAT
11992151 TGTTGATTAAATGTTGTCCAAA
1 TGTTGATTAAATGTTGTCCAAA
* * *
11992173 TATTGATTGAATGTTGTCCAAT
1 TGTTGATTAAATGTTGTCCAAA
*
11992195 TGTTGATTAAATGCTGTCCAAA
1 TGTTGATTAAATGTTGTCCAAA
* * * *
11992217 TGTTGATTTAATGCTATCCAAT
1 TGTTGATTAAATGTTGTCCAAA
*
11992239 TGTTGATTGAATGTTGTCCAAA
1 TGTTGATTAAATGTTGTCCAAA
* * * *
11992261 TATTGATTGAATGTTGTCTAAT
1 TGTTGATTAAATGTTGTCCAAA
11992283 TGTTGATTAAATGTTGTCCAAA
1 TGTTGATTAAATGTTGTCCAAA
*
11992305 TGTTAATTAAATGTTGTC
1 TGTTGATTAAATGTTGTC
11992323 TGAATGTTAG
Statistics
Matches: 128, Mismatches: 22, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 128 1.00
ACGTcount: A:0.29, C:0.09, G:0.18, T:0.44
Consensus pattern (22 bp):
TGTTGATTAAATGTTGTCCAAA
Found at i:11992301 original size:88 final size:88
Alignment explanation
Indices: 11992148--11992317 Score: 295
Period size: 88 Copynumber: 1.9 Consensus size: 88
11992138 TTAAAGTAAA
11992148 AATTGTTGATTAAATGTTGTCCAAATATTGATTGAATGTTGTCCAATTGTTGATTAAATGCTGTC
1 AATTGTTGATTAAATGTTGTCCAAATATTGATTGAATGTTGTCCAATTGTTGATTAAATGCTGTC
* *
11992213 CAAATGTTGATTTAATGCTATCC
66 CAAATGTTAATTAAATGCTATCC
* * *
11992236 AATTGTTGATTGAATGTTGTCCAAATATTGATTGAATGTTGTCTAATTGTTGATTAAATGTTGTC
1 AATTGTTGATTAAATGTTGTCCAAATATTGATTGAATGTTGTCCAATTGTTGATTAAATGCTGTC
11992301 CAAATGTTAATTAAATG
66 CAAATGTTAATTAAATG
11992318 TTGTCTGAAT
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
88 77 1.00
ACGTcount: A:0.31, C:0.09, G:0.18, T:0.43
Consensus pattern (88 bp):
AATTGTTGATTAAATGTTGTCCAAATATTGATTGAATGTTGTCCAATTGTTGATTAAATGCTGTC
CAAATGTTAATTAAATGCTATCC
Found at i:11992323 original size:44 final size:44
Alignment explanation
Indices: 11992148--11992322 Score: 260
Period size: 44 Copynumber: 4.0 Consensus size: 44
11992138 TTAAAGTAAA
11992148 AATTGTTGATTAAATGTTGTCCAAATATTGATTGAATGTTGTCC
1 AATTGTTGATTAAATGTTGTCCAAATATTGATTGAATGTTGTCC
* * * * *
11992192 AATTGTTGATTAAATGCTGTCCAAATGTTGATTTAATGCTATCC
1 AATTGTTGATTAAATGTTGTCCAAATATTGATTGAATGTTGTCC
* *
11992236 AATTGTTGATTGAATGTTGTCCAAATATTGATTGAATGTTGTCT
1 AATTGTTGATTAAATGTTGTCCAAATATTGATTGAATGTTGTCC
* * *
11992280 AATTGTTGATTAAATGTTGTCCAAATGTTAATTAAATGTTGTC
1 AATTGTTGATTAAATGTTGTCCAAATATTGATTGAATGTTGTC
11992323 TGAATGTTAG
Statistics
Matches: 115, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 115 1.00
ACGTcount: A:0.30, C:0.09, G:0.18, T:0.43
Consensus pattern (44 bp):
AATTGTTGATTAAATGTTGTCCAAATATTGATTGAATGTTGTCC
Found at i:11994824 original size:28 final size:29
Alignment explanation
Indices: 11994765--11994826 Score: 90
Period size: 29 Copynumber: 2.2 Consensus size: 29
11994755 TAAAAGTCGT
11994765 TTTTTTTAAAATTTATCGAAATGAGCCGA
1 TTTTTTTAAAATTTATCGAAATGAGCCGA
** *
11994794 TTTTTTTATTATTTATCGGAATGAGCC-A
1 TTTTTTTAAAATTTATCGAAATGAGCCGA
11994822 TTTTT
1 TTTTT
11994827 CGTAAAATCG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
28 6 0.20
29 24 0.80
ACGTcount: A:0.27, C:0.10, G:0.13, T:0.50
Consensus pattern (29 bp):
TTTTTTTAAAATTTATCGAAATGAGCCGA
Found at i:12009176 original size:25 final size:26
Alignment explanation
Indices: 12009131--12009193 Score: 76
Period size: 25 Copynumber: 2.4 Consensus size: 26
12009121 TACCCAGATC
* *
12009131 TCGCCACAAAGGCATTTCAGATAA-T
1 TCGCCACAAGGGCATTCCAGATAACT
12009156 TCGCCACAAGGGC-TTCCCAGATAACT
1 TCGCCACAAGGGCATT-CCAGATAACT
12009182 TCGCCACTAAGG
1 TCGCCAC-AAGG
12009194 CTTTTCGAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
24 2 0.06
25 19 0.58
26 8 0.24
27 4 0.12
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.21
Consensus pattern (26 bp):
TCGCCACAAGGGCATTCCAGATAACT
Found at i:12009234 original size:76 final size:76
Alignment explanation
Indices: 12009132--12009319 Score: 198
Period size: 76 Copynumber: 2.5 Consensus size: 76
12009122 ACCCAGATCT
*
12009132 CGCCACAAAGGCATTTCAGATAATTCGCCACAAGGGCTTCCCAGATAACTTCGCCACTAAGGCTT
1 CGCCACAAAGGCATTTTAGATAATTCGCCACAAGGGCTTCCCAGATAACTTCGCCACTAAGGCTT
12009197 T-TCGAATAATA
66 TCT-GAATAATA
* * * * * ** * ** **
12009208 TGCCACAAAAGCTTTTTAGATAATTCGCTATAAAAGTTTCTTAGATAACTTTTCCACTAAGGCTT
1 CGCCACAAAGGCATTTTAGATAATTCGCCACAAGGGCTTCCCAGATAACTTCGCCACTAAGGCTT
*
12009273 TCTGAATGATA
66 TCTGAATAATA
* * *
12009284 CGCCATAAAGGCCTTTTAGATAATTTGCCACTAAGG
1 CGCCACAAAGGCATTTTAGATAATTCGCCAC-AAGG
12009320 TTTTTCGAAT
Statistics
Matches: 87, Mismatches: 23, Indels: 3
0.77 0.20 0.03
Matches are distributed among these distances:
76 84 0.97
77 3 0.03
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.30
Consensus pattern (76 bp):
CGCCACAAAGGCATTTTAGATAATTCGCCACAAGGGCTTCCCAGATAACTTCGCCACTAAGGCTT
TCTGAATAATA
Found at i:12012959 original size:44 final size:44
Alignment explanation
Indices: 12012905--12012991 Score: 147
Period size: 44 Copynumber: 2.0 Consensus size: 44
12012895 AGTTACCGCC
* *
12012905 AAACCTAAGCTTTATGGTTCCAATTTTATGACCAAAATGAAGCA
1 AAACATAAGCTTTATGATTCCAATTTTATGACCAAAATGAAGCA
*
12012949 AAACATAAGCTTTATGATTCCATTTTTATGACCAAAATGAAGC
1 AAACATAAGCTTTATGATTCCAATTTTATGACCAAAATGAAGC
12012992 GTACCAAGCG
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.39, C:0.17, G:0.13, T:0.31
Consensus pattern (44 bp):
AAACATAAGCTTTATGATTCCAATTTTATGACCAAAATGAAGCA
Found at i:12025050 original size:49 final size:50
Alignment explanation
Indices: 12024968--12025078 Score: 129
Period size: 49 Copynumber: 2.3 Consensus size: 50
12024958 GGAGCATGAA
*
12024968 ACTTGAACCCAT-GACCGCATAACCACCACCAACTAAGG-GCCCAAGTTAT
1 ACTTGAACCCGTGGACCGCATAACCACCACCAACT-AGGAGCCCAAGTTAT
* ** * *
12025017 ACTTGAACCCGTGGA-CGCATAACTACCGTCAACTGGGAGCCCTAGTTAT
1 ACTTGAACCCGTGGACCGCATAACCACCACCAACTAGGAGCCCAAGTTAT
*
12025066 ACTTAAACCCGTG
1 ACTTGAACCCGTG
12025079 ATTGTATAAC
Statistics
Matches: 53, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
48 2 0.04
49 49 0.92
50 2 0.04
ACGTcount: A:0.31, C:0.32, G:0.18, T:0.20
Consensus pattern (50 bp):
ACTTGAACCCGTGGACCGCATAACCACCACCAACTAGGAGCCCAAGTTAT
Found at i:12035464 original size:5 final size:5
Alignment explanation
Indices: 12035454--12035521 Score: 52
Period size: 5 Copynumber: 13.2 Consensus size: 5
12035444 AGCCACCCAA
*
12035454 TTTAT TTTAT TTTAT TTT-T TATTATT TGTTAT ATTA- TTTATT TTTAT
1 TTTAT TTTAT TTTAT TTTAT T-TTA-T T-TTAT TTTAT TTTA-T TTTAT
*
12035501 TTTACT ATT-T TTTAT TTTAT T
1 TTTA-T TTTAT TTTAT TTTAT T
12035522 ATTCTTATAC
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
4 8 0.16
5 30 0.59
6 8 0.16
7 5 0.10
ACGTcount: A:0.21, C:0.01, G:0.01, T:0.76
Consensus pattern (5 bp):
TTTAT
Found at i:12035480 original size:15 final size:14
Alignment explanation
Indices: 12035454--12035529 Score: 75
Period size: 15 Copynumber: 5.4 Consensus size: 14
12035444 AGCCACCCAA
12035454 TTTATTTTATT-TT
1 TTTATTTTATTATT
*
12035467 ATT-TTTTATTATT
1 TTTATTTTATTATT
*
12035480 TGTTATATTATTTATT
1 T-TTATTTTA-TTATT
*
12035496 TTTATTTTACTATTT
1 TTTATTTTATTA-TT
12035511 TTTATTTTATTATT
1 TTTATTTTATTATT
*
12035525 CTTAT
1 TTTAT
12035530 ACTTAGATTT
Statistics
Matches: 51, Mismatches: 7, Indels: 9
0.76 0.10 0.13
Matches are distributed among these distances:
12 7 0.14
13 4 0.08
14 10 0.20
15 24 0.47
16 6 0.12
ACGTcount: A:0.21, C:0.03, G:0.01, T:0.75
Consensus pattern (14 bp):
TTTATTTTATTATT
Found at i:12035511 original size:8 final size:8
Alignment explanation
Indices: 12035460--12035529 Score: 60
Period size: 7 Copynumber: 9.1 Consensus size: 8
12035450 CCAATTTATT
12035460 TTATTTTA
1 TTATTTTA
12035468 TT-TTTTA
1 TTATTTTA
*
12035475 TTA-TTTG
1 TTATTTTA
*
12035482 TTATATTA
1 TTATTTTA
12035490 TT-TATTT-
1 TTAT-TTTA
12035497 TTATTTTA
1 TTATTTTA
*
12035505 CTATTTT-
1 TTATTTTA
12035512 TTATTTTA
1 TTATTTTA
12035520 TTATTCTTA
1 TTATT-TTA
12035529 T
1 T
12035530 ACTTAGATTT
Statistics
Matches: 49, Mismatches: 6, Indels: 13
0.72 0.09 0.19
Matches are distributed among these distances:
7 25 0.51
8 20 0.41
9 4 0.08
ACGTcount: A:0.21, C:0.03, G:0.01, T:0.74
Consensus pattern (8 bp):
TTATTTTA
Found at i:12035688 original size:17 final size:16
Alignment explanation
Indices: 12035637--12035698 Score: 65
Period size: 17 Copynumber: 3.8 Consensus size: 16
12035627 ATTAAGTTTA
12035637 TTATTATTTATTT-TT
1 TTATTATTTATTTATT
* *
12035652 TTCGTT-TTATTTTTATT
1 TT-ATTATT-TATTTATT
12035669 TTATTATTTATTTATCT
1 TTATTATTTATTTAT-T
12035686 TTATTATTTATTT
1 TTATTATTTATTT
12035699 TGTTTTAGTT
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
15 4 0.11
16 14 0.37
17 20 0.53
ACGTcount: A:0.19, C:0.03, G:0.02, T:0.76
Consensus pattern (16 bp):
TTATTATTTATTTATT
Found at i:12035688 original size:22 final size:21
Alignment explanation
Indices: 12035657--12035698 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
12035647 TTTTTTTCGT
* *
12035657 TTTATTTTTATTTTATTATTTA
1 TTTATCTTTATTAT-TTATTTA
12035679 TTTATCTTTATTATTTATTT
1 TTTATCTTTATTATTTATTT
12035699 TGTTTTAGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.76
Consensus pattern (21 bp):
TTTATCTTTATTATTTATTTA
Found at i:12035705 original size:17 final size:16
Alignment explanation
Indices: 12035637--12035705 Score: 61
Period size: 17 Copynumber: 4.2 Consensus size: 16
12035627 ATTAAGTTTA
12035637 TTATTATTTATTTTTT
1 TTATTATTTATTTTTT
* *
12035653 TCGTTTTA-TT-TTTATT
1 T--TATTATTTATTTTTT
*
12035669 TTATTATTTATTTATCT
1 TTATTATTTATTT-TTT
12035686 TTATTATTTATTTTGTT
1 TTATTATTTATTTT-TT
12035703 TTA
1 TTA
12035706 GTTGCTTTTT
Statistics
Matches: 41, Mismatches: 6, Indels: 11
0.71 0.10 0.19
Matches are distributed among these distances:
14 4 0.10
15 2 0.05
16 11 0.27
17 20 0.49
18 4 0.10
ACGTcount: A:0.19, C:0.03, G:0.03, T:0.75
Consensus pattern (16 bp):
TTATTATTTATTTTTT
Found at i:12043676 original size:20 final size:21
Alignment explanation
Indices: 12043639--12043679 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
12043629 TATGTAATCA
12043639 TTATTTTCATAATCTATATAT
1 TTATTTTCATAATCTATATAT
12043660 TTATTTT-ATAA-CTTATATAT
1 TTATTTTCATAATC-TATATAT
12043680 GTACATATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 1 0.05
20 11 0.58
21 7 0.37
ACGTcount: A:0.34, C:0.07, G:0.00, T:0.59
Consensus pattern (21 bp):
TTATTTTCATAATCTATATAT
Found at i:12044085 original size:19 final size:19
Alignment explanation
Indices: 12044061--12044099 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
12044051 GAGTGTGTCA
12044061 ATTTGATTTGTTATTCTAG
1 ATTTGATTTGTTATTCTAG
12044080 ATTTGATTTGTTATTCTAG
1 ATTTGATTTGTTATTCTAG
12044099 A
1 A
12044100 ACTTGCTTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.23, C:0.05, G:0.15, T:0.56
Consensus pattern (19 bp):
ATTTGATTTGTTATTCTAG
Found at i:12059169 original size:23 final size:22
Alignment explanation
Indices: 12059143--12059188 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
12059133 GATAATGATT
12059143 ATTATGTGTTCTATTTATTTTTA
1 ATTATGTGTT-TATTTATTTTTA
* *
12059166 ATTATTTGTTTTTTTATTTTTA
1 ATTATGTGTTTATTTATTTTTA
12059188 A
1 A
12059189 ATCCACAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 12 0.57
23 9 0.43
ACGTcount: A:0.22, C:0.02, G:0.07, T:0.70
Consensus pattern (22 bp):
ATTATGTGTTTATTTATTTTTA
Found at i:12062654 original size:34 final size:34
Alignment explanation
Indices: 12062593--12062660 Score: 91
Period size: 34 Copynumber: 2.0 Consensus size: 34
12062583 ACACTACTAT
*
12062593 AAATATAACAAATACTTTATTATATTAAAAATAA
1 AAATATAACAAATACTTTATTACATTAAAAATAA
* * * *
12062627 AAATATAATAAATATTTTATTGCATTAAATATAA
1 AAATATAACAAATACTTTATTACATTAAAAATAA
12062661 TTTTTAAAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.56, C:0.04, G:0.01, T:0.38
Consensus pattern (34 bp):
AAATATAACAAATACTTTATTACATTAAAAATAA
Found at i:12064441 original size:31 final size:31
Alignment explanation
Indices: 12064393--12064473 Score: 108
Period size: 31 Copynumber: 2.6 Consensus size: 31
12064383 TTGATAGAAT
**
12064393 TCAAGTTTAGGGACCAAAATGGATTTAGTTG
1 TCAAGTTTAGGGACCAAAATGGACCTAGTTG
* *
12064424 TCAATTTTAAGGACCAAAATGGACCTAGTTG
1 TCAAGTTTAGGGACCAAAATGGACCTAGTTG
* *
12064455 CCAAGTTTAGGGGCCAAAA
1 TCAAGTTTAGGGACCAAAA
12064474 ATTATATTCT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.27
Consensus pattern (31 bp):
TCAAGTTTAGGGACCAAAATGGACCTAGTTG
Found at i:12065701 original size:12 final size:12
Alignment explanation
Indices: 12065666--12065703 Score: 53
Period size: 11 Copynumber: 3.3 Consensus size: 12
12065656 TGTATTATAT
*
12065666 ATATTAAAATT-
1 ATATAAAAATTA
12065677 ATATAAAAA-TA
1 ATATAAAAATTA
12065688 ATATAAAAATTA
1 ATATAAAAATTA
12065700 ATAT
1 ATAT
12065704 GGGCGGGCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
10 1 0.04
11 17 0.71
12 6 0.25
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (12 bp):
ATATAAAAATTA
Found at i:12070482 original size:12 final size:12
Alignment explanation
Indices: 12070447--12070484 Score: 53
Period size: 11 Copynumber: 3.3 Consensus size: 12
12070437 TGTATTATAT
*
12070447 ATATTAAAATT-
1 ATATAAAAATTA
12070458 ATATAAAAA-TA
1 ATATAAAAATTA
12070469 ATATAAAAATTA
1 ATATAAAAATTA
12070481 ATAT
1 ATAT
12070485 GGGCGGGCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
10 1 0.04
11 17 0.71
12 6 0.25
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (12 bp):
ATATAAAAATTA
Found at i:12072651 original size:13 final size:13
Alignment explanation
Indices: 12072633--12072659 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
12072623 AATTTGGCAA
12072633 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
12072646 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
12072659 T
1 T
12072660 TTGGTTTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.07, G:0.22, T:0.41
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:12084222 original size:20 final size:20
Alignment explanation
Indices: 12084173--12084224 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
12084163 ATATTGATTG
12084173 ATTATATTTTA-ATATTTAA
1 ATTATATTTTATATATTTAA
* *
12084192 AATATAGTTTATATATTTAA
1 ATTATATTTTATATATTTAA
*
12084212 ATTAAATTTTATA
1 ATTATATTTTATA
12084225 AATAATTAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
19 9 0.33
20 18 0.67
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (20 bp):
ATTATATTTTATATATTTAA
Found at i:12084699 original size:30 final size:30
Alignment explanation
Indices: 12084663--12084725 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
12084653 ACTTATTTTA
*
12084663 TTGTTAATTTTATTATTATTTTAAAGACAT
1 TTGTTAATTTTACTATTATTTTAAAGACAT
* * *
12084693 TTGTTAATTTTGCTATTATTTTAGAGGCAT
1 TTGTTAATTTTACTATTATTTTAAAGACAT
12084723 TTG
1 TTG
12084726 CTTGTTAAGT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.27, C:0.05, G:0.13, T:0.56
Consensus pattern (30 bp):
TTGTTAATTTTACTATTATTTTAAAGACAT
Done.