Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008478.1 Hibiscus syriacus cultivar Beakdansim tig00111309_pilon, 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: 1476524
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 7
Found at i:13716 original size:29 final size:27
Alignment explanation
Indices: 13684--13771 Score: 88
Period size: 27 Copynumber: 3.1 Consensus size: 27
13674 AACATTTTAG
13684 TAAATTAAGACAATAATAAGATATATTTT
1 TAAATTAAGACAATAATAA-A-ATATTTT
*
13713 TAAAAGTTTAGACAATAATAAAATATTTT
1 T-AAA-TTAAGACAATAATAAAATATTTT
* * *
13742 TAAATTAA-ATTAGTAATAAAATATATT
1 TAAATTAAGA-CAATAATAAAATATTTT
13769 TAA
1 TAA
13772 TAATTTAATA
Statistics
Matches: 51, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
26 1 0.02
27 20 0.39
28 3 0.06
29 9 0.18
30 4 0.08
31 14 0.27
ACGTcount: A:0.53, C:0.02, G:0.06, T:0.39
Consensus pattern (27 bp):
TAAATTAAGACAATAATAAAATATTTT
Found at i:13765 original size:27 final size:26
Alignment explanation
Indices: 13730--13817 Score: 85
Period size: 25 Copynumber: 3.4 Consensus size: 26
13720 TTAGACAATA
13730 ATAAAATATTTTTAAATTAAATTAGT
1 ATAAAATATTTTTAAATTAAATTAGT
* * *
13756 AATAAAATATATTT-AA-TAATTTAAT
1 -ATAAAATATTTTTAAATTAAATTAGT
13781 ATAAAAATATTTTTAAAGTT-AA-TATGT
1 AT-AAAATATTTTTAAA-TTAAATTA-GT
13808 ATAAAATATT
1 ATAAAATATT
13818 ATGAATTTAA
Statistics
Matches: 50, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
24 2 0.04
25 17 0.34
26 14 0.28
27 16 0.32
28 1 0.02
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.44
Consensus pattern (26 bp):
ATAAAATATTTTTAAATTAAATTAGT
Found at i:14848 original size:31 final size:31
Alignment explanation
Indices: 14788--14893 Score: 115
Period size: 31 Copynumber: 3.4 Consensus size: 31
14778 AAAACATAAG
* *
14788 TTTTGGTCACTCACATTATTGTTTTTATTAAA
1 TTTTAGTCACTTACATTATTG-TTTTATTAAA
* *
14820 TTTT-GATCGCTTACATTATTGTTTTATTAAG
1 TTTTAG-TCACTTACATTATTGTTTTATTAAA
* * *
14851 TTTTAGTCACTTACGTTATCGTTTTATTAAG
1 TTTTAGTCACTTACATTATTGTTTTATTAAA
*
14882 CTTTAGTCACTT
1 TTTTAGTCACTT
14894 CACTTGGATA
Statistics
Matches: 65, Mismatches: 7, Indels: 5
0.84 0.09 0.06
Matches are distributed among these distances:
31 47 0.72
32 18 0.28
ACGTcount: A:0.23, C:0.13, G:0.11, T:0.53
Consensus pattern (31 bp):
TTTTAGTCACTTACATTATTGTTTTATTAAA
Found at i:18964 original size:15 final size:15
Alignment explanation
Indices: 18940--18976 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
18930 AGCCGAAGAT
* *
18940 TCAATTGCATCATCA
1 TCAATAGCATCAACA
18955 TCAATAGCATCAACA
1 TCAATAGCATCAACA
18970 TCAATAG
1 TCAATAG
18977 TTGCAGGCGG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.41, C:0.24, G:0.08, T:0.27
Consensus pattern (15 bp):
TCAATAGCATCAACA
Found at i:19922 original size:21 final size:21
Alignment explanation
Indices: 19896--19944 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
19886 TACCATATTG
*
19896 AGATTAATTACCATAATAGGT
1 AGATTAATTACCATAATAGGA
**
19917 AGATTAATTACCATGGTAGGA
1 AGATTAATTACCATAATAGGA
19938 AGATTAA
1 AGATTAA
19945 GTGTTAGATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.43, C:0.08, G:0.18, T:0.31
Consensus pattern (21 bp):
AGATTAATTACCATAATAGGA
Found at i:20394 original size:2 final size:2
Alignment explanation
Indices: 20387--20442 Score: 94
Period size: 2 Copynumber: 27.5 Consensus size: 2
20377 CTCTATAGCC
*
20387 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
20429 AT AT AT AT CAT AT A
1 AT AT AT AT -AT AT A
20443 GAGAGTTGGT
Statistics
Matches: 51, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
2 49 0.96
3 2 0.04
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:34079 original size:21 final size:21
Alignment explanation
Indices: 34053--34092 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
34043 CCCCCTTTGA
*
34053 AGGGGAACCGATTCCCCCCAC
1 AGGGGAACCGATACCCCCCAC
*
34074 AGGGGAATCGATACCCCCC
1 AGGGGAACCGATACCCCCC
34093 TGGGGTTCTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.40, G:0.25, T:0.10
Consensus pattern (21 bp):
AGGGGAACCGATACCCCCCAC
Found at i:41216 original size:21 final size:20
Alignment explanation
Indices: 41172--41245 Score: 96
Period size: 20 Copynumber: 3.6 Consensus size: 20
41162 GTAGCCTTTG
*
41172 TGCATGGATGCACAACAGGA
1 TGCATCGATGCACAACAGGA
**
41192 TGCATCGATGCACAACCTTGA
1 TGCATCGATGCACAA-CAGGA
41213 TGCATCGATGCACAGA-AGGA
1 TGCATCGATGCACA-ACAGGA
41233 TGCATCGATGCAC
1 TGCATCGATGCAC
41246 TAAGTGCATT
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
20 29 0.62
21 17 0.36
22 1 0.02
ACGTcount: A:0.31, C:0.24, G:0.26, T:0.19
Consensus pattern (20 bp):
TGCATCGATGCACAACAGGA
Found at i:41338 original size:21 final size:21
Alignment explanation
Indices: 41308--41385 Score: 102
Period size: 21 Copynumber: 3.7 Consensus size: 21
41298 ACTAGTGCAT
* *
41308 ATGCAAGGATGCATTGCAGGG
1 ATGCATGGATGCACTGCAGGG
41329 ATGCATGGATGCACTGCAGGG
1 ATGCATGGATGCACTGCAGGG
* *
41350 GTGCGTGGATGCACTGCAGGG
1 ATGCATGGATGCACTGCAGGG
* *
41371 GTGCATGAATGCACT
1 ATGCATGGATGCACT
41386 TTGACACCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 51 1.00
ACGTcount: A:0.23, C:0.18, G:0.38, T:0.21
Consensus pattern (21 bp):
ATGCATGGATGCACTGCAGGG
Found at i:41486 original size:29 final size:29
Alignment explanation
Indices: 41454--41516 Score: 83
Period size: 29 Copynumber: 2.1 Consensus size: 29
41444 GAAACCTTTT
41454 AAAACTTTGAATAAATTCAATT-AAGTCCAAA
1 AAAACTTTG--TAAATTCAATTCAAGTCC-AA
*
41485 AAAATTTTGTAAATTCAATTCAAGTCCAA
1 AAAACTTTGTAAATTCAATTCAAGTCCAA
41514 AAA
1 AAA
41517 TCATTTTGCC
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
29 16 0.53
30 6 0.20
31 8 0.27
ACGTcount: A:0.51, C:0.13, G:0.06, T:0.30
Consensus pattern (29 bp):
AAAACTTTGTAAATTCAATTCAAGTCCAA
Found at i:45419 original size:21 final size:21
Alignment explanation
Indices: 45393--45432 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
45383 CAGAACCCCA
*
45393 GGGGGGTATCGATTCCCCTGT
1 GGGGGGAATCGATTCCCCTGT
*
45414 GGGGGGAATCGGTTCCCCT
1 GGGGGGAATCGATTCCCCT
45433 TCAAAGGGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.10, C:0.25, G:0.40, T:0.25
Consensus pattern (21 bp):
GGGGGGAATCGATTCCCCTGT
Found at i:45461 original size:19 final size:20
Alignment explanation
Indices: 45415--45474 Score: 68
Period size: 19 Copynumber: 2.9 Consensus size: 20
45405 TTCCCCTGTG
45415 GGGGGAATCGGTTCCCCTTCAAA
1 GGGGGAATCGGTT-CCC-TC-AA
45438 GGGGGAATCGGTTCCCTC-A
1 GGGGGAATCGGTTCCCTCAA
* *
45457 GGGGGGATCGATTCCCTC
1 GGGGGAATCGGTTCCCTC
45475 TGCACCAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 17 0.49
21 2 0.06
22 3 0.09
23 13 0.37
ACGTcount: A:0.17, C:0.27, G:0.35, T:0.22
Consensus pattern (20 bp):
GGGGGAATCGGTTCCCTCAA
Found at i:49319 original size:22 final size:21
Alignment explanation
Indices: 49277--49316 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
49267 GAGTTTGTTT
*
49277 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
49298 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
49317 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:54267 original size:20 final size:22
Alignment explanation
Indices: 54242--54281 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
54232 TGTTGTATAT
54242 AGCCG-TTGGGGAT-ATTTTGG
1 AGCCGTTTGGGGATGATTTTGG
54262 AGCCGTTTGGGGATGATTTT
1 AGCCGTTTGGGGATGATTTT
54282 TCTACTCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.28
21 8 0.44
22 5 0.28
ACGTcount: A:0.15, C:0.10, G:0.38, T:0.38
Consensus pattern (22 bp):
AGCCGTTTGGGGATGATTTTGG
Found at i:54423 original size:20 final size:20
Alignment explanation
Indices: 54394--54463 Score: 68
Period size: 20 Copynumber: 3.5 Consensus size: 20
54384 GCAGCCTTCG
* *
54394 TGCATGGATGCACATCAGGA
1 TGCATCGATGCACACCAGGA
**
54414 TGCATCGATGCACAGCCTTGA
1 TGCATCGATGCACA-CCAGGA
***
54435 TGCATCGATGCACGGAAGGA
1 TGCATCGATGCACACCAGGA
54455 TGCATCGAT
1 TGCATCGAT
54464 ACACTAAGTG
Statistics
Matches: 40, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
20 24 0.60
21 16 0.40
ACGTcount: A:0.27, C:0.23, G:0.29, T:0.21
Consensus pattern (20 bp):
TGCATCGATGCACACCAGGA
Found at i:54430 original size:41 final size:41
Alignment explanation
Indices: 54385--54463 Score: 106
Period size: 41 Copynumber: 1.9 Consensus size: 41
54375 CTAGCCGTTG
* **
54385 CAGCCTTCG-TGCATGGATGCACATCAGGATGCATCGATGCA
1 CAGCCTT-GATGCATCGATGCACAGAAGGATGCATCGATGCA
*
54426 CAGCCTTGATGCATCGATGCACGGAAGGATGCATCGAT
1 CAGCCTTGATGCATCGATGCACAGAAGGATGCATCGAT
54464 ACACTAAGTG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
40 1 0.03
41 32 0.97
ACGTcount: A:0.25, C:0.25, G:0.28, T:0.22
Consensus pattern (41 bp):
CAGCCTTGATGCATCGATGCACAGAAGGATGCATCGATGCA
Found at i:54535 original size:22 final size:23
Alignment explanation
Indices: 54502--54544 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
54492 ATGGATGCAC
*
54502 TGCATGGTGCATCGATGCACTAG
1 TGCATGGTGCATCCATGCACTAG
54525 TGCA-GGTGCATCCATGCACT
1 TGCATGGTGCATCCATGCACT
54545 GCAGGGATGC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.21, C:0.26, G:0.28, T:0.26
Consensus pattern (23 bp):
TGCATGGTGCATCCATGCACTAG
Found at i:54562 original size:21 final size:20
Alignment explanation
Indices: 54491--54586 Score: 95
Period size: 21 Copynumber: 4.6 Consensus size: 20
54481 TGTTTGAGTA
*
54491 CATGGATGCACTGCATGGTG
1 CATGGATGCACTGCAGGGTG
*
54511 CATCGATGCACTAGTGCA-GGTG
1 CATGGATGCAC---TGCAGGGTG
**
54533 CATCCATGCACTGCAGGGATG
1 CATGGATGCACTGCAGGG-TG
*
54554 CATGGATGCACTGTAGGGGTG
1 CATGGATGCACTGCA-GGGTG
54575 CATGGATGCACT
1 CATGGATGCACT
54587 TTGACACCCT
Statistics
Matches: 65, Mismatches: 5, Indels: 11
0.80 0.06 0.14
Matches are distributed among these distances:
19 4 0.06
20 12 0.18
21 28 0.43
22 17 0.26
23 4 0.06
ACGTcount: A:0.22, C:0.22, G:0.33, T:0.23
Consensus pattern (20 bp):
CATGGATGCACTGCAGGGTG
Found at i:54584 original size:42 final size:42
Alignment explanation
Indices: 54491--54586 Score: 115
Period size: 42 Copynumber: 2.3 Consensus size: 42
54481 TGTTTGAGTA
*
54491 CATGGATGCACTGCATGGTGCATCGATGCACTAGTGCAGGTG
1 CATGGATGCACTGCAGGGTGCATCGATGCACTAGTGCAGGTG
** * *
54533 CATCCATGCACTGCAGGGATGCATGGATGCACT-GTAG-GGGTG
1 CATGGATGCACTGCAGGG-TGCATCGATGCACTAGT-GCAGGTG
54575 CATGGATGCACT
1 CATGGATGCACT
54587 TTGACACCCT
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
42 31 0.69
43 14 0.31
ACGTcount: A:0.22, C:0.22, G:0.33, T:0.23
Consensus pattern (42 bp):
CATGGATGCACTGCAGGGTGCATCGATGCACTAGTGCAGGTG
Found at i:54687 original size:29 final size:29
Alignment explanation
Indices: 54666--54723 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 29
54656 AAACTTTGAA
*
54666 TAAATTCAATT-AAATCTAAAAACATTTTG
1 TAAATTCAATTCAAATCCAAAAACA-TTTG
54695 TAAATTCAATTCAAATCCAAAAACCATTT
1 TAAATTCAATTCAAATCCAAAAA-CATTT
54724 TGCCTTAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 11 0.42
30 13 0.50
31 2 0.08
ACGTcount: A:0.48, C:0.16, G:0.02, T:0.34
Consensus pattern (29 bp):
TAAATTCAATTCAAATCCAAAAACATTTG
Found at i:54717 original size:30 final size:30
Alignment explanation
Indices: 54666--54725 Score: 95
Period size: 29 Copynumber: 2.0 Consensus size: 30
54656 AAACTTTGAA
*
54666 TAAATTCAATTAAATCTAAAAA-CATTTTG
1 TAAATTCAATTAAATCCAAAAACCATTTTG
54695 TAAATTCAATTCAAATCCAAAAACCATTTTG
1 TAAATTCAATT-AAATCCAAAAACCATTTTG
54726 CCTTAAATTG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 11 0.39
30 10 0.36
31 7 0.25
ACGTcount: A:0.47, C:0.15, G:0.03, T:0.35
Consensus pattern (30 bp):
TAAATTCAATTAAATCCAAAAACCATTTTG
Found at i:64141 original size:34 final size:34
Alignment explanation
Indices: 64094--64161 Score: 100
Period size: 34 Copynumber: 2.0 Consensus size: 34
64084 GTATTAACAT
* **
64094 TTCTAAATCGAGTGATTATAGGTTTAAAAAAATG
1 TTCTAAATAGAGTGACCATAGGTTTAAAAAAATG
*
64128 TTCTAGATAGAGTGACCATAGGTTTAAAAAAATG
1 TTCTAAATAGAGTGACCATAGGTTTAAAAAAATG
64162 AAACACTTCC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.41, C:0.07, G:0.19, T:0.32
Consensus pattern (34 bp):
TTCTAAATAGAGTGACCATAGGTTTAAAAAAATG
Found at i:66449 original size:30 final size:30
Alignment explanation
Indices: 66409--66465 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
66399 CTTAAAAAAG
* *
66409 TTTTGCAATACTGAGATTTAAATAATTTTA
1 TTTTACAATACTGAAATTTAAATAATTTTA
66439 TTTTACAATACTGAAATTTAAATAATT
1 TTTTACAATACTGAAATTTAAATAATT
66466 CATACAACTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.46
Consensus pattern (30 bp):
TTTTACAATACTGAAATTTAAATAATTTTA
Found at i:66538 original size:54 final size:54
Alignment explanation
Indices: 66479--67201 Score: 383
Period size: 54 Copynumber: 13.5 Consensus size: 54
66469 ACAACTACAA
66479 TAATAAATTATTTAAAATAAATCAATCTATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCTATATTTTAAAATAAATCAATCCATAC
*** * * *
66533 TAATAAATTATTTAAAATAAATCAAT-TCATACAACTACAAT-AATAAATCAAT-C
1 TAATAAATTATTTAAAATAAATCAATCT-ATA-TTTTAAAATAAATCAATCCATAC
* * * **
66586 -CAT--A-T-TTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATA-
1 TAATAAATTATTTAAAATAAATCAAT-C-TA-TATTTTAA-AATAAATCAATCCATAC
** * ** * ** * *
66638 TTTTAAAATAAAT-CAATCTATACAA-ATAAATTATTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAAT-CAATCTATA-T-TTTAAAATAAATCAATCCATAC
*
66693 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCTATATTTTAAAATAAATCAATCCATAC
* *
66747 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATTCATAC
1 TAATAAATTATTTAAAATAAATCAATCTATATTTTAAAATAAATCAATCCATAC
* **
66801 TAATAAATTATTTAAAATAAATCAATTCATACATCTACAATAATAAATCAATCCATA-
1 TAATAAATTATTTAAAATAAATCAA-TC-TATAT-TTTAA-AATAAATCAATCCATAC
** * * *
66858 TTTTAAA--A--T-AAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTT
1 TAATAAATTATTTAAAATAAATCAAT-CT-AT--A-T-TTTAAAATAAATCAATCCATA--C
* * * *
66915 TAAAATAAATCAATTTATACT-AAT-AA-AT-TA-TTTAAAATAAATCAATCCATAC
1 T--AATAAAT-TATTTAAAATAAATCAATCTATATTTTAAAATAAATCAATCCATAC
* *
66967 -AACTACA--A--T--AATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
1 TAA-TAAATTATTTAAAATAAATCAATCTATATTTTAAAATAAATCAATCCATAC
* * ** *
67015 TAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTT
1 TAATAAATTATTTAAAATAAATCAAT-C-TA-TATTTTAA-AATAAATCAATCCATA--C
* * ** * * *
67075 TAAAATAAATCAATCCATACAAAT-AA-AT-TA-TTTAAAATAAATCAATCC--A-
1 T--AATAAATTATTTAAAATAAATCAATCTATATTTTAAAATAAATCAATCCATAC
* *
67124 T-A-AAACTA--CAATAATAAATCAATCTATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAA-AATAAATCAATCTATATTTTAAAATAAATCAATCCATAC
*
67175 AAATAAATTATTTAAAATAAATCAATC
1 TAATAAATTATTTAAAATAAATCAATC
67202 CATACTAATA
Statistics
Matches: 508, Mismatches: 88, Indels: 146
0.68 0.12 0.20
Matches are distributed among these distances:
43 4 0.01
44 8 0.02
45 9 0.02
46 2 0.00
47 5 0.01
48 59 0.12
49 6 0.01
50 8 0.02
51 7 0.01
52 25 0.05
53 11 0.02
54 230 0.45
55 34 0.07
56 18 0.04
57 18 0.04
58 32 0.06
59 5 0.01
60 1 0.00
61 3 0.01
62 16 0.03
63 1 0.00
64 4 0.01
65 2 0.00
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.33
Consensus pattern (54 bp):
TAATAAATTATTTAAAATAAATCAATCTATATTTTAAAATAAATCAATCCATAC
Found at i:66540 original size:22 final size:22
Alignment explanation
Indices: 66491--66539 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
66481 ATAAATTATT
* **
66491 TAAAATAAATCAATCTATATTT
1 TAAAATAAATCAATCCATATAA
66513 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
66536 TAAA
1 TAAA
66540 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:66581 original size:80 final size:81
Alignment explanation
Indices: 66493--67444 Score: 833
Period size: 80 Copynumber: 11.8 Consensus size: 81
66483 AAATTATTTA
*
66493 AAATAAATCAATCTATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAA
1 AAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAA
* *
66558 TTCATACAACTACAAT
66 TCCATACAACTAAAAT
*
66574 -AATAAATCAATCCATATTTTAAAATAAATCAATCCATAC-AACTACA--A--T--AATAAATCA
1 AAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAA-TAAATTATTTAAAATAAATCA
***
66631 ATCCATA-TTTTAAAAT
65 ATCCATACAACTAAAAT
* * *
66647 AAATCAATCTATACAAATAAATTATTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATA
1 AAATAAATCAAT-C-CAT--A-T-TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATA
***
66712 AATCAATCCATA-TTTTAAAAT
60 AATCAATCCATACAACTAAAAT
* * *
66733 AAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT-C---C--AT--A-T-TTTAAAATA
1 AAATAAATCAAT-C-CAT--A-T-TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATA
*
66788 AATCAATTCATACTAA-TAAATTATTT
60 AATCAATCCATAC-AACTAAA--A--T
* * * * * * *
66814 AAAATAAATCAATTCATACATCTACAAT-AATAAATCAAT-C-CAT--A-T-TTTAAAATAAATC
1 -AAATAAATCAATCCATA-TTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATC
66872 AATCCATACTAA-TAAATTATTT
64 AATCCATAC-AACTAAA--A--T
**
66894 AAAATAAATCAATCCATATTTTAAAATAAATCAATTTATACTAATAAATTATTTAAAATAAATCA
1 -AAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCA
*
66959 ATCCATACAACTACAAT
65 ATCCATACAACTAAAAT
66976 -AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAA
1 AAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAA
*
67040 TCCATACAACTACAAT
66 TCCATACAACTAAAAT
*
67056 -AATAAATCAATCCATATTTTAAAATAAATCAATCCATACAAATAAATTATTTAAAATAAATCAA
1 AAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAA
* *
67120 TCCATAAAACTACAAT
66 TCCATACAACTAAAAT
* *
67136 -AATAAATCAATCTATATTTTAAAATAAATCAATCCATACAAATAAATTATTTAAAATAAATCAA
1 AAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAA
67200 TCCATACTAA-TAAATTATTT
66 TCCATAC-AACTAAA--A--T
*
67220 AAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACAAATAAATTATTTAAAATAAATCA
1 -AAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCA
***
67285 ATCCATA-TTTTAAAAT
65 ATCCATACAACTAAAAT
* * *
67301 AAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT-C---C--AT--A-T-TTTAAAATA
1 AAATAAATCAAT-C-CAT--A-T-TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATA
67356 AATCAATCCATACTAA-TAAATTATTT
60 AATCAATCCATAC-AACTAAA--A--T
67382 AAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAAT
1 -AAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAAT
67445 TATTTAAAAA
Statistics
Matches: 752, Mismatches: 54, Indels: 125
0.81 0.06 0.13
Matches are distributed among these distances:
73 5 0.01
74 24 0.03
75 1 0.00
76 66 0.09
77 18 0.02
78 6 0.01
79 12 0.02
80 376 0.50
81 10 0.01
82 31 0.04
83 1 0.00
84 6 0.01
85 11 0.01
86 185 0.25
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.34
Consensus pattern (81 bp):
AAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAA
TCCATACAACTAAAAT
Found at i:66602 original size:22 final size:22
Alignment explanation
Indices: 66574--66655 Score: 101
Period size: 22 Copynumber: 3.5 Consensus size: 22
66564 CAACTACAAT
66574 AATAAATCAATCCATATTTTAA
1 AATAAATCAATCCATATTTTAA
* **
66596 AATAAATCAATCCATACAACTACAA
1 AATAAATCAATCCAT---ATTTTAA
66621 TAATAAATCAATCCATATTTTAA
1 -AATAAATCAATCCATATTTTAA
66644 AATAAATCAATC
1 AATAAATCAATC
66656 TATACAAATA
Statistics
Matches: 50, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
22 27 0.54
23 4 0.08
25 4 0.08
26 15 0.30
ACGTcount: A:0.52, C:0.17, G:0.00, T:0.30
Consensus pattern (22 bp):
AATAAATCAATCCATATTTTAA
Found at i:66678 original size:32 final size:32
Alignment explanation
Indices: 66639--67444 Score: 237
Period size: 32 Copynumber: 27.4 Consensus size: 32
66629 CAATCCATAT
*
66639 TTTAAAATAAATCAATCTATACAAATAAATTA
1 TTTAAAATAAATCAATCCATACAAATAAATTA
*
66671 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACAAATAAATTA
66703 TTTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACAAATAAATTA
*
66725 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACAAATAAATTA
66757 TTTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACAAATAAATTA
* *
66779 TTTAAAATAAATCAATTCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACAAATAAATTA
* ** *
66811 TTTAAAATAAATCAATTCATACATCTACA--A
1 TTTAAAATAAATCAATCCATACAAATAAATTA
66841 --T--AATAAATCAATCCAT----AT------
1 TTTAAAATAAATCAATCCATACAAATAAATTA
*
66859 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACAAATAAATTA
* *
66891 TTTAAAATAAATCAATCCATATTTTAAAATAAATCAA
1 TTTAAAATAAATCAATCCATA----CAAATAAAT-TA
* * *
66928 TTTATACTAATAAAT-TAT--TTA-AAATAAATCAA
1 TTTA-A--AATAAATCAATCCATACAAATAAAT-TA
* * ** **
66960 TCCATACAACTACAAT-AATAAAT-C-AATCCA-TA
1 T--TTA-AAATA-AATCAATCCATACAAATAAATTA
*
66992 TTTTAAAATAAATCAATCCATACTAATAAATTA
1 -TTTAAAATAAATCAATCCATACAAATAAATTA
* *
67025 TTTAAAATAAATCAATCCATACAACTACA--A
1 TTTAAAATAAATCAATCCATACAAATAAATTA
67055 --T--AATAAATCAATCCAT----AT------
1 TTTAAAATAAATCAATCCATACAAATAAATTA
67073 TTTAAAATAAATCAATCCATACAAATAAATTA
1 TTTAAAATAAATCAATCCATACAAATAAATTA
67105 TTTAAAATAAATCAATCCATA-AAACTACAA-TA
1 TTTAAAATAAATCAATCCATACAAA-TA-AATTA
* * ** *
67137 -AT-AAATCAATCTATAT-TTTA-AAATAAATCAA
1 TTTAAAATAAATC-A-ATCCATACAAATAAAT-TA
* * * *
67168 TCCATACAAATAAAT-TAT--TTA-AAATAAATCAA
1 T--TTA-AAATAAATCAATCCATACAAATAAAT-TA
* * * * ** * * *
67200 TCCATACTAATAAATTATTTAAAATAAATCAATCCATA
1 T--TTA-AAATAAATCAATCCATACAAATAAAT---TA
67238 TTTTAAAATAAATCAATCCATACAAATAAATTA
1 -TTTAAAATAAATCAATCCATACAAATAAATTA
67271 TTTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACAAATAAATTA
*
67293 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACAAATAAATTA
67325 TTTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACAAATAAATTA
*
67347 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACAAATAAATTA
67379 TTTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACAAATAAATTA
*
67401 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACAAATAAATTA
67433 TTTAAAATAAAT
1 TTTAAAATAAAT
67445 TATTTAAAAA
Statistics
Matches: 604, Mismatches: 55, Indels: 230
0.68 0.06 0.26
Matches are distributed among these distances:
20 2 0.00
22 112 0.19
23 10 0.02
24 5 0.01
26 48 0.08
28 17 0.03
29 5 0.01
30 26 0.04
31 24 0.04
32 269 0.45
33 15 0.02
34 9 0.01
35 2 0.00
36 39 0.06
37 9 0.01
38 2 0.00
39 3 0.00
40 7 0.01
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (32 bp):
TTTAAAATAAATCAATCCATACAAATAAATTA
Found at i:66729 original size:22 final size:22
Alignment explanation
Indices: 66703--66745 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
66693 TAATAAATTA
66703 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
66725 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
66746 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:66754 original size:22 final size:22
Alignment explanation
Indices: 66705--66753 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
66695 ATAAATTATT
**
66705 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
66727 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
66750 TAAA
1 TAAA
66754 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:66783 original size:22 final size:22
Alignment explanation
Indices: 66757--66799 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
66747 TAATAAATTA
66757 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
*
66779 TTTAAAATAAATCAATTCATA
1 TTTAAAATAAATCAATCCATA
66800 CTAATAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:66805 original size:18 final size:18
Alignment explanation
Indices: 66643--66833 Score: 65
Period size: 22 Copynumber: 11.1 Consensus size: 18
66633 CCATATTTTA
66643 AAATAAATCAA-TCTATAC
1 AAATAAATCAATTC-ATAC
*
66661 AAATAAAT-TATT--TA-
1 AAATAAATCAATTCATAC
*
66675 AAATAAATCAATCCATAC
1 AAATAAATCAATTCATAC
* *
66693 TAATAAAT-TATT--TA-
1 AAATAAATCAATTCATAC
* *
66707 AAATAAATCAATCCATATTTTA
1 AAATAAATCAATTCATA----C
*
66729 AAATAAATCAATCCATAC
1 AAATAAATCAATTCATAC
* *
66747 TAATAAAT-TATT--TA-
1 AAATAAATCAATTCATAC
* *
66761 AAATAAATCAATCCATATTTTA
1 AAATAAATCAATTCATA----C
66783 AAATAAATCAATTCATAC
1 AAATAAATCAATTCATAC
* *
66801 TAATAAAT-TATT--TA-
1 AAATAAATCAATTCATAC
66815 AAATAAATCAATTCATAC
1 AAATAAATCAATTCATAC
66833 A
1 A
66834 TCTACAATAA
Statistics
Matches: 126, Mismatches: 22, Indels: 50
0.64 0.11 0.25
Matches are distributed among these distances:
14 29 0.23
15 17 0.13
17 16 0.13
18 31 0.25
22 33 0.26
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (18 bp):
AAATAAATCAATTCATAC
Found at i:66858 original size:134 final size:134
Alignment explanation
Indices: 66479--67045 Score: 909
Period size: 134 Copynumber: 4.2 Consensus size: 134
66469 ACAACTACAA
* *
66479 TAATAAATTATTTAAAATAAATCAATCTATATTTTAAAATAAATCAATCCATACTAATAAATTAT
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTAT
*
66544 TTAAAATAAATCAATTCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCC
66 TTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCC
66609 ATAC
131 ATAC
* *
66613 -AACTACA--A--T--AATAAATCAATCCATATTTTAAAATAAATCAA-TCTATACAAATAAATT
1 TAA-TAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATTC-ATACTAATAAATT
*
66670 ATTTAAAATAAATCAATCCATACTAA-TAAATTATTTAAAATAAATCAATCCATATTTTAAAATA
64 ATTTAAAATAAATCAATCCATAC-AACTACA--A--T--AATAAATCAATCCATATTTTAAAATA
66734 AATCAATCCATAC
122 AATCAATCCATAC
66747 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTAT
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTAT
* *
66812 TTAAAATAAATCAATTCATACATCTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCC
66 TTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCC
66877 ATAC
131 ATAC
*
66881 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATTTATACTAATAAATTAT
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTAT
66946 TTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCC
66 TTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCC
67011 ATAC
131 ATAC
67015 TAATAAATTATTTAAAATAAATCAATCCATA
1 TAATAAATTATTTAAAATAAATCAATCCATA
67046 CAACTACAAT
Statistics
Matches: 401, Mismatches: 14, Indels: 36
0.89 0.03 0.08
Matches are distributed among these distances:
127 1 0.00
128 68 0.17
129 2 0.00
130 2 0.00
132 2 0.00
133 2 0.00
134 246 0.61
135 2 0.00
136 2 0.00
138 2 0.00
139 1 0.00
140 69 0.17
141 2 0.00
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.34
Consensus pattern (134 bp):
TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTAT
TTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCC
ATAC
Found at i:66888 original size:22 final size:22
Alignment explanation
Indices: 66842--66887 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
66832 CATCTACAAT
**
66842 AATAAATCAATCCATATTTTAA
1 AATAAATCAATCCATATAATAA
66864 AATAAATCAATCCATACTAATAA
1 AATAAATCAATCCATA-TAATAA
66887 A
1 A
66888 TTATTTAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 16 0.76
23 5 0.24
ACGTcount: A:0.54, C:0.15, G:0.00, T:0.30
Consensus pattern (22 bp):
AATAAATCAATCCATATAATAA
Found at i:66953 original size:14 final size:15
Alignment explanation
Indices: 66913--66960 Score: 53
Period size: 14 Copynumber: 3.1 Consensus size: 15
66903 CAATCCATAT
66913 TTTAAAATAAATCAA
1 TTTAAAATAAATCAA
*
66928 TTTATACTAATAAAT-TA
1 TTTA-A--AATAAATCAA
66945 TTTAAAATAAATCAA
1 TTTAAAATAAATCAA
66960 T
1 T
66961 CCATACAACT
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
14 7 0.26
15 6 0.22
16 2 0.07
17 5 0.19
18 7 0.26
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.40
Consensus pattern (15 bp):
TTTAAAATAAATCAA
Found at i:66982 original size:268 final size:265
Alignment explanation
Indices: 66479--67345 Score: 1223
Period size: 268 Copynumber: 3.3 Consensus size: 265
66469 ACAACTACAA
*
66479 TAATAAATTATTTAAAATAAATCAATCTATATTTTAAAATAAATCAATCCATACTAATAAATTAT
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
66544 TTAAAATAAATCAATTCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCC
66 TTAAAATAAATCAATTCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCC
*
66609 ATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCTATACAAATAAATTATTT
131 ATACAACTAAAATAATAAATCAATCCATATTTTAAAATAAATCAATCTATACAAATAAATTATTT
66674 AAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCA
196 AAAATAAATCAATCCATACTAATAAA-TA-TT-AAATAAATCAATCCATATTTTAAAATAAATCA
66739 ATCCATAC
258 ATCCATAC
*
66747 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTAT
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
*
66812 TTAAAATAAATCAATTCATACATCTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCC
66 TTAAAATAAATCAATTCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCC
* *
66877 ATACTAA-TAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATTTATACTAATAA
131 ATAC-AACTAAA--A--T--AATAAATCAATCCATATTTTAAAATAAATCAATCTATACAAATAA
*
66941 ATTATTTAAAATAAATCAATCCATAC-AACTACA-A-T-AATAAATCAATCCATATTTTAAAATA
189 ATTATTTAAAATAAATCAATCCATACTAA-TAAATATTAAATAAATCAATCCATATTTTAAAATA
67002 AATCAATCCATAC
253 AATCAATCCATAC
*** * * * *
67015 TAATAAATTATTTAAAATAAATCAATCCATACAACTACAAT-AATAAATCAAT-C-CAT--A-T-
1 TAATAAATTATTTAAAATAAATCAATCCATA-TTTTAAAATAAATCAATCCATACTAATAAATTA
67073 TTTAAAATAAATCAA-TC---C-A-TAC-A-AAT--A--AAT---TA-TTTAAAATAAATCAATC
65 TTTAAAATAAATCAATTCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATC
* * * *
67122 CATAAAACTACAATAATAAATCAATCTATATTTTAAAATAAATCAATCCATACAAATAAATTATT
130 CATACAACTAAAATAATAAATCAATCCATATTTTAAAATAAATCAATCTATACAAATAAATTATT
67187 TAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATC
195 TAAAATAAATCAATCCATACTAATAAA-TA-TT-AAATAAATCAATCCATATTTTAAAATAAATC
67252 AATCCATAC
257 AATCCATAC
*
67261 AAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
*
67326 TTAAAATAAATCAATCCATA
66 TTAAAATAAATCAATTCATA
67346 TTTTAAAATA
Statistics
Matches: 539, Mismatches: 32, Indels: 68
0.84 0.05 0.11
Matches are distributed among these distances:
240 70 0.13
241 2 0.00
242 2 0.00
244 2 0.00
245 7 0.01
246 102 0.19
247 3 0.01
248 2 0.00
250 4 0.01
251 1 0.00
252 16 0.03
253 1 0.00
254 3 0.01
255 1 0.00
256 3 0.01
258 1 0.00
261 2 0.00
262 15 0.03
263 1 0.00
264 1 0.00
266 2 0.00
267 1 0.00
268 212 0.39
269 7 0.01
270 2 0.00
272 2 0.00
273 2 0.00
274 72 0.13
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.34
Consensus pattern (265 bp):
TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
TTAAAATAAATCAATTCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCC
ATACAACTAAAATAATAAATCAATCCATATTTTAAAATAAATCAATCTATACAAATAAATTATTT
AAAATAAATCAATCCATACTAATAAATATTAAATAAATCAATCCATATTTTAAAATAAATCAATC
CATAC
Found at i:67022 original size:22 final size:23
Alignment explanation
Indices: 66947--67021 Score: 82
Period size: 22 Copynumber: 3.2 Consensus size: 23
66937 ATAAATTATT
66947 TAAAATAAATCAATCCATAC-AA
1 TAAAATAAATCAATCCATACTAA
**
66969 CTACAATAATAAATCAATCCATA-TTT
1 -T--AA-AATAAATCAATCCATACTAA
66995 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATACTAA
67018 TAAA
1 TAAA
67022 TTATTTAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
22 16 0.37
23 8 0.19
25 3 0.07
26 16 0.37
ACGTcount: A:0.55, C:0.17, G:0.00, T:0.28
Consensus pattern (23 bp):
TAAAATAAATCAATCCATACTAA
Found at i:67102 original size:22 final size:22
Alignment explanation
Indices: 67029--67102 Score: 60
Period size: 22 Copynumber: 3.2 Consensus size: 22
67019 AAATTATTTA
*
67029 AAATAAATCAATCCATACAACTACA
1 AAATAAATCAATCCATACAA--A-T
***
67054 ATAATAAATCAATCCATA-TTTT
1 A-AATAAATCAATCCATACAAAT
67076 AAAATAAATCAATCCATACAAAT
1 -AAATAAATCAATCCATACAAAT
67099 AAAT
1 AAAT
67103 TATTTAAAAT
Statistics
Matches: 39, Mismatches: 7, Indels: 9
0.71 0.13 0.16
Matches are distributed among these distances:
22 20 0.51
23 2 0.05
25 1 0.03
26 16 0.41
ACGTcount: A:0.55, C:0.18, G:0.00, T:0.27
Consensus pattern (22 bp):
AAATAAATCAATCCATACAAAT
Found at i:67243 original size:22 final size:22
Alignment explanation
Indices: 67217--67259 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
67207 TAATAAATTA
67217 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
67239 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
67260 CAAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:67243 original size:54 final size:54
Alignment explanation
Indices: 66842--67444 Score: 700
Period size: 54 Copynumber: 11.1 Consensus size: 54
66832 CATCTACAAT
66842 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
**
66896 AATAAATCAATCCATATTTTAAAATAAATCAATTTATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
* ** ** * ** *
66950 AATAAATCAATCCATACAACTACAATAATAAATCAATCCATA-TTTTAAAATAAAT-C
1 AATAAATCAATCCAT---ATTTTAA-AATAAATCAATCCATACTAATAAATTATTTAA
** ** *
67006 AATCCATACTAATAAAT-TATTTAAAATAAATCAATCCATAC-AACTACA--A--T--
1 AATAAAT-C-AATCCATAT-TTTAAAATAAATCAATCCATACTAA-TAAATTATTTAA
*
67056 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACAAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
*** * * *
67110 AATAAATCAATCCATAAAACTACAAT-AATAAATCAAT-CT-AT--A-T-TTTAA
1 AATAAATCAATCCAT-ATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
67158 AATAAATCAATCCATACAAATAAATTATTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1 AATAAATCAAT-C---C--AT--A-T-TTTAAAATAAATCAATCCATACTAATAAATTATTTAA
*
67222 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACAAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
67276 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
67330 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
67384 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
67438 AATAAAT
1 AATAAAT
67445 TATTTAAAAA
Statistics
Matches: 472, Mismatches: 43, Indels: 68
0.81 0.07 0.12
Matches are distributed among these distances:
48 46 0.10
49 6 0.01
50 7 0.01
51 1 0.00
52 4 0.01
53 2 0.00
54 313 0.66
55 15 0.03
56 6 0.01
57 18 0.04
58 30 0.06
59 2 0.00
60 3 0.01
62 1 0.00
63 2 0.00
64 16 0.03
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.33
Consensus pattern (54 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
Found at i:67268 original size:22 final size:22
Alignment explanation
Indices: 67219--67267 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
67209 ATAAATTATT
***
67219 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATAAAA
67241 TAAAATAAATCAATCCATACAAA
1 TAAAATAAATCAATCCATA-AAA
67264 TAAA
1 TAAA
67268 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 19 0.83
23 4 0.17
ACGTcount: A:0.57, C:0.14, G:0.00, T:0.29
Consensus pattern (22 bp):
TAAAATAAATCAATCCATAAAA
Found at i:67297 original size:22 final size:22
Alignment explanation
Indices: 67271--67313 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
67261 AAATAAATTA
67271 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
67293 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
67314 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:67322 original size:22 final size:22
Alignment explanation
Indices: 67273--67321 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
67263 ATAAATTATT
**
67273 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
67295 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
67318 TAAA
1 TAAA
67322 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:67351 original size:22 final size:22
Alignment explanation
Indices: 67325--67367 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
67315 TAATAAATTA
67325 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
67347 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
67368 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:67376 original size:22 final size:22
Alignment explanation
Indices: 67327--67375 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
67317 ATAAATTATT
**
67327 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
67349 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
67372 TAAA
1 TAAA
67376 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:67405 original size:22 final size:22
Alignment explanation
Indices: 67379--67421 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
67369 TAATAAATTA
67379 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
67401 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
67422 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:67456 original size:15 final size:15
Alignment explanation
Indices: 67424--67586 Score: 202
Period size: 15 Copynumber: 10.5 Consensus size: 15
67414 AATCCATACT
67424 AATAAATTA-TTTAA
1 AATAAATTATTTTAA
*
67438 AATAAATTATTTAAA
1 AATAAATTATTTTAA
*
67453 AATAAATCAATCCATATTTTAT
1 AAT--A--AAT---TATTTTAA
*
67475 AATAATTTATTTTAA
1 AATAAATTATTTTAA
*
67490 AATAAATTATTTTAT
1 AATAAATTATTTTAA
*
67505 AATAAATTATTTTAT
1 AATAAATTATTTTAA
67520 AATAAATTATTTTAA
1 AATAAATTATTTTAA
*
67535 AATAAATTATTTTAT
1 AATAAATTATTTTAA
67550 AATAAATTATTTTAA
1 AATAAATTATTTTAA
67565 AATAAATTATTTTAA
1 AATAAATTATTTTAA
67580 AATAAAT
1 AATAAAT
67587 AGCCTTATTA
Statistics
Matches: 131, Mismatches: 10, Indels: 15
0.84 0.06 0.10
Matches are distributed among these distances:
14 9 0.07
15 106 0.81
17 1 0.01
18 2 0.02
19 3 0.02
20 1 0.01
22 9 0.07
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (15 bp):
AATAAATTATTTTAA
Found at i:67470 original size:22 final size:22
Alignment explanation
Indices: 67377--67471 Score: 77
Period size: 22 Copynumber: 4.2 Consensus size: 22
67367 ACTAATAAAT
67377 TATTT-AAAATAAATCAATCCA
1 TATTTAAAAATAAATCAATCCA
*
67398 TATTTTAAAATAAATCAATCCA
1 TATTTAAAAATAAATCAATCCA
* ** * **
67420 TA-CTAATAAATTATTTAAAATAAA
1 TATTTAA-AAA-TAAAT-CAATCCA
67444 TTATTTAAAAATAAATCAATCCA
1 -TATTTAAAAATAAATCAATCCA
67467 TATTT
1 TATTT
67472 TATAATAATT
Statistics
Matches: 55, Mismatches: 13, Indels: 11
0.70 0.16 0.14
Matches are distributed among these distances:
21 7 0.13
22 26 0.47
23 7 0.13
24 7 0.13
25 5 0.09
26 3 0.05
ACGTcount: A:0.52, C:0.11, G:0.00, T:0.38
Consensus pattern (22 bp):
TATTTAAAAATAAATCAATCCA
Found at i:70313 original size:2 final size:2
Alignment explanation
Indices: 70306--70349 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
70296 ATATGTATTA
70306 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
70348 AT
1 AT
70350 GCAAATATAC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:75610 original size:116 final size:116
Alignment explanation
Indices: 75401--75616 Score: 353
Period size: 116 Copynumber: 1.9 Consensus size: 116
75391 ATTTTTAGAG
* * *
75401 GGTGACCAAAATGAATAAAAATAATATTTGGGTATTAAATGTGTAATTTACCCTAAAATAATCAC
1 GGTGACCAAAATGAATAAAAATAATAATTGGGTACTAAATGTGTAATTTACCCTAAAATAATCAA
75466 TCCCTTTATAATTATTAAAATTCTCCATTATTAATGCTGAATTTTTATTGA
66 TCCCTTTATAATTATTAAAATTCTCCATTATTAATGCTGAATTTTTATTGA
* *
75517 GGTGACTAAAATGGAATAAAAATAATAATTGGGTACTAAATGTGTAATTTACCCT-AAATAGTCA
1 GGTGACCAAAAT-GAATAAAAATAATAATTGGGTACTAAATGTGTAATTTACCCTAAAATAATCA
* *
75581 ATTCCTTTATAATTATTAAAATTGTCCATTATTAAT
65 ATCCCTTTATAATTATTAAAATTCTCCATTATTAAT
75617 TTTTTAAAAG
Statistics
Matches: 92, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
116 52 0.57
117 40 0.43
ACGTcount: A:0.40, C:0.11, G:0.11, T:0.38
Consensus pattern (116 bp):
GGTGACCAAAATGAATAAAAATAATAATTGGGTACTAAATGTGTAATTTACCCTAAAATAATCAA
TCCCTTTATAATTATTAAAATTCTCCATTATTAATGCTGAATTTTTATTGA
Found at i:80555 original size:65 final size:65
Alignment explanation
Indices: 80451--80581 Score: 217
Period size: 65 Copynumber: 2.0 Consensus size: 65
80441 TTCTCTATAT
80451 ATATATCACCGTCTACGATCAGGTACCATTTAGATTATATTTTTTGATCTAACACCATTTACAAA
1 ATATATCACCGTCTACGATCAGGTACCATTTAGATTATATTTTTTGATCTAACACCATTTACAAA
* * ** *
80516 ATATATTACTGTCTACGATCAGGTGTCGTTTAGATTATATTTTTTGATCTAACACCATTTACAAA
1 ATATATCACCGTCTACGATCAGGTACCATTTAGATTATATTTTTTGATCTAACACCATTTACAAA
80581 A
1 A
80582 AGGTGTGCCC
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
65 61 1.00
ACGTcount: A:0.33, C:0.18, G:0.11, T:0.39
Consensus pattern (65 bp):
ATATATCACCGTCTACGATCAGGTACCATTTAGATTATATTTTTTGATCTAACACCATTTACAAA
Found at i:80966 original size:21 final size:21
Alignment explanation
Indices: 80942--80982 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
80932 TATTTTAAAT
* *
80942 ATATTGTATTTAATTTATTTA
1 ATATTGTACTTAATTAATTTA
*
80963 ATATTTTACTTAATTAATTT
1 ATATTGTACTTAATTAATTT
80983 TTTTGCAGAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.61
Consensus pattern (21 bp):
ATATTGTACTTAATTAATTTA
Found at i:83238 original size:13 final size:13
Alignment explanation
Indices: 83197--83240 Score: 61
Period size: 13 Copynumber: 3.4 Consensus size: 13
83187 TATTTAGTAC
83197 TTTTTATTGTAAT
1 TTTTTATTGTAAT
* * *
83210 TGTTTATTGGACT
1 TTTTTATTGTAAT
83223 TTTTTATTGTAAT
1 TTTTTATTGTAAT
83236 TTTTT
1 TTTTT
83241 TTATTTATCA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.18, C:0.02, G:0.11, T:0.68
Consensus pattern (13 bp):
TTTTTATTGTAAT
Found at i:83957 original size:22 final size:23
Alignment explanation
Indices: 83913--83957 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
83903 TTAATATTGA
*
83913 AAAATAAATATTAAAATATGATT
1 AAAATAAATATTAAAATAGGATT
83936 AAAAT-AAT-TTATAAATAGGATT
1 AAAATAAATATTA-AAATAGGATT
83958 TTAATAGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 3 0.15
22 12 0.60
23 5 0.25
ACGTcount: A:0.58, C:0.00, G:0.07, T:0.36
Consensus pattern (23 bp):
AAAATAAATATTAAAATAGGATT
Found at i:84081 original size:13 final size:14
Alignment explanation
Indices: 84037--84084 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 14
84027 AATAATAGTA
*
84037 ATAATAATTAAATAT
1 ATAA-AATTAAACAT
*
84052 ATTAAAAATAAACAT
1 A-TAAAATTAAACAT
84067 ATAAAATTAAA-AT
1 ATAAAATTAAACAT
84080 ATAAA
1 ATAAA
84085 TAAACAATGA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
13 7 0.24
14 9 0.31
15 10 0.34
16 3 0.10
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (14 bp):
ATAAAATTAAACAT
Found at i:84726 original size:50 final size:51
Alignment explanation
Indices: 84614--84731 Score: 157
Period size: 51 Copynumber: 2.3 Consensus size: 51
84604 AAATGTGCCT
* ** * * *
84614 CCTGCACCGCGTTATACGATGATTTGGCGTCACGTGAGGTATAGTGCGCCC
1 CCTGCACCGCGCTATACGATGAGCTAGCATCACGTGAGGTATAGCGCGCCC
* *
84665 CCTGCACCGCGCTATACGGTGAGCTAGCATCACGTG-GGTATAGCGCGGCC
1 CCTGCACCGCGCTATACGATGAGCTAGCATCACGTGAGGTATAGCGCGCCC
84715 CCTGCACCGCGCTATAC
1 CCTGCACCGCGCTATAC
84732 CTGTATATCT
Statistics
Matches: 59, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
50 29 0.49
51 30 0.51
ACGTcount: A:0.18, C:0.32, G:0.29, T:0.21
Consensus pattern (51 bp):
CCTGCACCGCGCTATACGATGAGCTAGCATCACGTGAGGTATAGCGCGCCC
Found at i:84756 original size:50 final size:51
Alignment explanation
Indices: 84614--84731 Score: 148
Period size: 50 Copynumber: 2.3 Consensus size: 51
84604 AAATGTGCCT
* * ** * * * * *
84614 CCTGCACCGCGTTATACGATGATTTGGCGTCACGTGAGGTATAGTGCGCCC
1 CCTGCACCGCGCTATACGGTGAGCTAGCATCACGTGGGGTATAGCGCGGCC
84665 CCTGCACCGCGCTATACGGTGAGCTAGCATCACGT-GGGTATAGCGCGGCC
1 CCTGCACCGCGCTATACGGTGAGCTAGCATCACGTGGGGTATAGCGCGGCC
84715 CCTGCACCGCGCTATAC
1 CCTGCACCGCGCTATAC
84732 CTGTATATCT
Statistics
Matches: 58, Mismatches: 9, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
50 29 0.50
51 29 0.50
ACGTcount: A:0.18, C:0.32, G:0.29, T:0.21
Consensus pattern (51 bp):
CCTGCACCGCGCTATACGGTGAGCTAGCATCACGTGGGGTATAGCGCGGCC
Found at i:84932 original size:13 final size:14
Alignment explanation
Indices: 84904--84932 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
84894 ATATTTTATA
84904 ATATTTTTACTATT
1 ATATTTTTACTATT
84918 ATATTTTTACT-TT
1 ATATTTTTACTATT
84931 AT
1 AT
84933 TTAATATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.27
14 11 0.73
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.66
Consensus pattern (14 bp):
ATATTTTTACTATT
Found at i:86634 original size:18 final size:18
Alignment explanation
Indices: 86611--86649 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
86601 CCAGCAGCCA
*
86611 CCGCAGCTATATATGATG
1 CCGCAGCCATATATGATG
86629 CCGCAGCCATATATGATG
1 CCGCAGCCATATATGATG
86647 CCG
1 CCG
86650 ACATTGCCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (18 bp):
CCGCAGCCATATATGATG
Found at i:90778 original size:51 final size:50
Alignment explanation
Indices: 90683--90781 Score: 137
Period size: 51 Copynumber: 2.0 Consensus size: 50
90673 TGTACCTGAT
*
90683 CCGCGCTATATAAAATTGTGTCAGAGTAAAGATATGTCGCGGTACTTGCC
1 CCGCGCTATATAAAATTATGTCAGAGTAAAGATATGTCGCGGTACTTGCC
* * *
90733 CCGCGTTATATAAAATTATGTCGGGAGTAAAGGTATAG-CGCGGTACTTG
1 CCGCGCTATATAAAATTATGTC-AGAGTAAAGATAT-GTCGCGGTACTTG
90782 ATCCGTGCTA
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
50 20 0.47
51 22 0.51
52 1 0.02
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.28
Consensus pattern (50 bp):
CCGCGCTATATAAAATTATGTCAGAGTAAAGATATGTCGCGGTACTTGCC
Found at i:91566 original size:20 final size:20
Alignment explanation
Indices: 91522--91859 Score: 187
Period size: 20 Copynumber: 16.6 Consensus size: 20
91512 AATGACCAAT
*
91522 AAAATCGCAACGCGATATA-
1 AAAATCGCAACGCGATTTAG
91541 AAAATCGCAACGCGATTTAG
1 AAAATCGCAACGCGATTTAG
91561 AAAATCGCAACGCGATTTAG
1 AAAATCGCAACGCGATTTAG
* ** ***
91581 AAAATCGCAAGGTTAAAAAG
1 AAAATCGCAACGCGATTTAG
**
91601 AAAATCGCAACG-G-TCAAAAG
1 AAAATCGCAACGCGAT--TTAG
* **
91621 AAAATCGCAACGCGAGCTTCC
1 AAAATCGCAACGCGA-TTTAG
**
91642 AAGTTCGCAACGCGATTTAGAAG
1 AAAATCGCAACGCGATTT---AG
* * *
91665 AAAATCGCAATGCGATTGAT
1 AAAATCGCAACGCGATTTAG
* * *
91685 AGAATCGCAATGCGATTTAT
1 AAAATCGCAACGCGATTTAG
* * *
91705 AGAATCGCAATGCGATTGAG
1 AAAATCGCAACGCGATTTAG
* * *
91725 AGAGTCGCAACGCGATCTAGAAG
1 AAAATCGCAACGCGAT-T--TAG
* * *
91748 AAAATCGCAATGCGACTGAG
1 AAAATCGCAACGCGATTTAG
* * *
91768 AGAATCGCAATGCGATTGAG
1 AAAATCGCAACGCGATTTAG
* * *
91788 AGAATCGCAATGCGATTTAT
1 AAAATCGCAACGCGATTTAG
* * *
91808 AGAATCGCAATGCGATTGAG
1 AAAATCGCAACGCGATTTAG
* * ***
91828 AGAATCGCAACGCTAAAAAG
1 AAAATCGCAACGCGATTTAG
91848 AAAATCGCAACG
1 AAAATCGCAACG
91860 GTCAAAAGAA
Statistics
Matches: 258, Mismatches: 49, Indels: 23
0.78 0.15 0.07
Matches are distributed among these distances:
19 18 0.07
20 196 0.76
21 15 0.06
22 1 0.00
23 28 0.11
ACGTcount: A:0.40, C:0.19, G:0.23, T:0.18
Consensus pattern (20 bp):
AAAATCGCAACGCGATTTAG
Found at i:91720 original size:40 final size:40
Alignment explanation
Indices: 91667--91837 Score: 234
Period size: 40 Copynumber: 4.2 Consensus size: 40
91657 TTTAGAAGAA
* * *
91667 AATCGCAATGCGATTGATAGAATCGCAATGCGATTTATAG
1 AATCGCAATGCGATTGAGAGAATCGCAATGCGATTGAGAG
* * *
91707 AATCGCAATGCGATTGAGAGAGTCGCAACGCGATCTAGAAGAA
1 AATCGCAATGCGATTGAGAGAATCGCAATGCGAT-T-G-AGAG
*
91750 AATCGCAATGCGACTGAGAGAATCGCAATGCGATTGAGAG
1 AATCGCAATGCGATTGAGAGAATCGCAATGCGATTGAGAG
* *
91790 AATCGCAATGCGATTTATAGAATCGCAATGCGATTGAGAG
1 AATCGCAATGCGATTGAGAGAATCGCAATGCGATTGAGAG
91830 AATCGCAA
1 AATCGCAA
91838 CGCTAAAAAG
Statistics
Matches: 115, Mismatches: 13, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
40 79 0.69
41 2 0.02
42 1 0.01
43 33 0.29
ACGTcount: A:0.36, C:0.17, G:0.26, T:0.21
Consensus pattern (40 bp):
AATCGCAATGCGATTGAGAGAATCGCAATGCGATTGAGAG
Found at i:91757 original size:83 final size:83
Alignment explanation
Indices: 91646--91823 Score: 275
Period size: 83 Copynumber: 2.1 Consensus size: 83
91636 GCTTCCAAGT
* * * * *
91646 TCGCAACGCGATTTAGAAGAAAATCGCAATGCGATTGATAGAATCGCAATGCGATTTATAGAATC
1 TCGCAACGCGATCTAGAAGAAAATCGCAATGCGACTGAGAGAATCGCAATGCGATTGAGAGAATC
*
91711 GCAATGCGATTGAGAGAG
66 GCAATGCGATTGAGAGAA
91729 TCGCAACGCGATCTAGAAGAAAATCGCAATGCGACTGAGAGAATCGCAATGCGATTGAGAGAATC
1 TCGCAACGCGATCTAGAAGAAAATCGCAATGCGACTGAGAGAATCGCAATGCGATTGAGAGAATC
* *
91794 GCAATGCGATTTATAGAA
66 GCAATGCGATTGAGAGAA
*
91812 TCGCAATGCGAT
1 TCGCAACGCGAT
91824 TGAGAGAATC
Statistics
Matches: 86, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
83 86 1.00
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.21
Consensus pattern (83 bp):
TCGCAACGCGATCTAGAAGAAAATCGCAATGCGACTGAGAGAATCGCAATGCGATTGAGAGAATC
GCAATGCGATTGAGAGAA
Found at i:91866 original size:20 final size:20
Alignment explanation
Indices: 91830--91869 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
91820 CGATTGAGAG
91830 AATCGCAACGCTAAAAAGAA
1 AATCGCAACGCTAAAAAGAA
* *
91850 AATCGCAACGGTCAAAAGAA
1 AATCGCAACGCTAAAAAGAA
91870 TAGCTAAAAA
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:0.53, C:0.20, G:0.17, T:0.10
Consensus pattern (20 bp):
AATCGCAACGCTAAAAAGAA
Found at i:91955 original size:6 final size:6
Alignment explanation
Indices: 91944--92018 Score: 129
Period size: 6 Copynumber: 13.0 Consensus size: 6
91934 GAAGACACGT
91944 ACGACC ACGACC ACGACC ACGACC ACGACC ACGACC ACGACC ACGACC
1 ACGACC ACGACC ACGACC ACGACC ACGACC ACGACC ACGACC ACGACC
91992 ACGACC ACGACC -CGACC -CGACC -CGACC
1 ACGACC ACGACC ACGACC ACGACC ACGACC
92019 CGAGACGAGA
Statistics
Matches: 69, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
5 15 0.22
6 54 0.78
ACGTcount: A:0.31, C:0.52, G:0.17, T:0.00
Consensus pattern (6 bp):
ACGACC
Found at i:92729 original size:6 final size:6
Alignment explanation
Indices: 92703--92798 Score: 171
Period size: 6 Copynumber: 16.5 Consensus size: 6
92693 TCTCGTCTCG
92703 GGTCG- GGTCG- GGTCG- GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
92748 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
92796 GGT
1 GGT
92799 AATACGTGTC
Statistics
Matches: 90, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
5 15 0.17
6 75 0.83
ACGTcount: A:0.00, C:0.17, G:0.52, T:0.31
Consensus pattern (6 bp):
GGTCGT
Found at i:92901 original size:20 final size:20
Alignment explanation
Indices: 92876--92919 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
92866 TTTTTAACTA
*
92876 TTCTTTTGACCGTTGCGATT
1 TTCTTTTGAACGTTGCGATT
*
92896 TTCTTTTTAACGTTGCGATT
1 TTCTTTTGAACGTTGCGATT
92916 TTCT
1 TTCT
92920 AAATCGCGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.11, C:0.18, G:0.16, T:0.55
Consensus pattern (20 bp):
TTCTTTTGAACGTTGCGATT
Found at i:92929 original size:20 final size:20
Alignment explanation
Indices: 92906--93243 Score: 178
Period size: 20 Copynumber: 16.6 Consensus size: 20
92896 TTCTTTTTAA
92906 CGTTGCGATTTTCTAAATCG
1 CGTTGCGATTTTCTAAATCG
* *
92926 CGTTGCGATTCTCTCAATCG
1 CGTTGCGATTTTCTAAATCG
* * *
92946 CATTGCGATTCTATAAATCG
1 CGTTGCGATTTTCTAAATCG
* * * *
92966 CATTGCGATTCTCTCAGTCG
1 CGTTGCGATTTTCTAAATCG
* * * *
92986 CATTGCGATTCTCTCAGTCG
1 CGTTGCGATTTTCTAAATCG
* * * *
93006 CATTGCGATTCTCTCAGTCG
1 CGTTGCGATTTTCTAAATCG
* *
93026 CATTGCGATTCTCTTCTAGATCG
1 CGTTGCGA-T-T-TTCTAAATCG
* * *
93049 CGTTGCGACTCTCTCAATCG
1 CGTTGCGATTTTCTAAATCG
* * *
93069 CATTGCGATTCTATAAATCG
1 CGTTGCGATTTTCTAAATCG
* * * *
93089 CATTGCGATTCTATCAATCG
1 CGTTGCGATTTTCTAAATCG
*
93109 CATTGCGATTTTCTTCTAAATCG
1 CGTTGCGA--TT-TTCTAAATCG
** ** *
93132 CGTTGCGAACTTGGAAGCTCG
1 CGTTGCGATTTTCTAA-ATCG
* *
93153 CGTTGCGATTTTCT--TTTG
1 CGTTGCGATTTTCTAAATCG
*** **
93171 ACCGTTGCGATTTTCTTTTTAA
1 --CGTTGCGATTTTCTAAATCG
93193 CGTTGCGATTTTCTAAATCG
1 CGTTGCGATTTTCTAAATCG
* *
93213 CGTTGCGATTTT-GATATCG
1 CGTTGCGATTTTCTAAATCG
93232 CGTTGCGATTTT
1 CGTTGCGATTTT
93244 ATTGGTCATT
Statistics
Matches: 261, Mismatches: 46, Indels: 23
0.79 0.14 0.07
Matches are distributed among these distances:
18 2 0.01
19 17 0.07
20 195 0.75
21 15 0.06
22 5 0.02
23 27 0.10
ACGTcount: A:0.18, C:0.24, G:0.20, T:0.38
Consensus pattern (20 bp):
CGTTGCGATTTTCTAAATCG
Found at i:92952 original size:40 final size:40
Alignment explanation
Indices: 92908--93139 Score: 293
Period size: 40 Copynumber: 5.7 Consensus size: 40
92898 CTTTTTAACG
* *
92908 TTGCGATTTTCTAAATCGCGTTGCGATTCTCTCAATCGCA
1 TTGCGATTCTCTAAATCGCATTGCGATTCTCTCAATCGCA
* *
92948 TTGCGATTCTATAAATCGCATTGCGATTCTCTCAGTCGCA
1 TTGCGATTCTCTAAATCGCATTGCGATTCTCTCAATCGCA
* * *
92988 TTGCGATTCTCTCAGTCGCATTGCGATTCTCTCAGTCGCA
1 TTGCGATTCTCTAAATCGCATTGCGATTCTCTCAATCGCA
* * *
93028 TTGCGATTCTCTTCTAGATCGCGTTGCGACTCTCTCAATCGCA
1 TTGCGA-T-TC-TCTAAATCGCATTGCGATTCTCTCAATCGCA
* *
93071 TTGCGATTCTATAAATCGCATTGCGATTCTATCAATCGCA
1 TTGCGATTCTCTAAATCGCATTGCGATTCTCTCAATCGCA
*
93111 TTGCGATTTTCTTCTAAATCGCGTTGCGA
1 TTGCGA--TTC-TCTAAATCGCATTGCGA
93140 ACTTGGAAGC
Statistics
Matches: 166, Mismatches: 20, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
40 111 0.67
41 3 0.02
42 6 0.04
43 46 0.28
ACGTcount: A:0.20, C:0.26, G:0.18, T:0.36
Consensus pattern (40 bp):
TTGCGATTCTCTAAATCGCATTGCGATTCTCTCAATCGCA
Found at i:93233 original size:19 final size:20
Alignment explanation
Indices: 93193--93243 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
93183 TTCTTTTTAA
*
93193 CGTTGCGATTTTCTAAATCG
1 CGTTGCGATTTTCGAAATCG
*
93213 CGTTGCGATTTT-GATATCG
1 CGTTGCGATTTTCGAAATCG
93232 CGTTGCGATTTT
1 CGTTGCGATTTT
93244 ATTGGTCATT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.16, C:0.18, G:0.24, T:0.43
Consensus pattern (20 bp):
CGTTGCGATTTTCGAAATCG
Found at i:100691 original size:19 final size:19
Alignment explanation
Indices: 100664--100713 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
100654 TTATCACAAT
* *
100664 AAATGTTATCACTATAATTA
1 AAAT-TTATCACTACAAGTA
*
100684 AAATTTATAACTACAAGTA
1 AAATTTATCACTACAAGTA
*
100703 TAATTTATCAC
1 AAATTTATCAC
100714 AAAAATGTGA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 21 0.84
20 4 0.16
ACGTcount: A:0.46, C:0.12, G:0.04, T:0.38
Consensus pattern (19 bp):
AAATTTATCACTACAAGTA
Found at i:101217 original size:420 final size:414
Alignment explanation
Indices: 100460--101277 Score: 1086
Period size: 420 Copynumber: 2.0 Consensus size: 414
100450 TTTTGGCAAC
*
100460 AAAAAATACAGAGAAATGTTTATGATAGTATAATTTTACATAATAATTAAAATATATAACTACAA
1 AAAAAATACAGAGAAATGATTATGATAGTATAATTTTACATAATAATTAAAATATATAACTACAA
* * *
100525 AAAATAATTGATTACAAAAAACTTAAATTTTATTGTCTGGTATGATAATTTTTTTATAACAATAA
66 AAAATAATTGATTACAAAAAACCTAAATTTTATTATCTGATATGATAATTTTTTTATAACAATAA
* * *
100590 TTATAAATTATAATTACAAACTTATGAATATAACTTTTTGAAACAAAAAAATGAAGAAAAATATT
131 TTATAAATTATAATTAAAAAATTATGAATATAACTTTTTGAAACAAAAAAATGAAGAAAAATAAT
* * * *
100655 TATCACAATAAATGTTATCACTATAATTAAAATTTATAACTACAAGTATAATTTATCACAAAAAT
196 TAACACAATAAATGCTATCACTATAATTAAAATTTATAACTACAAATATAATTTATCACAAAAAC
* * *
100720 GTGAATACCACTATTTTTGTGACAATATTTTTTGTAATAATTATAAATACTTATAGTTACAAAAT
261 GTAAATACCACTATTTTTGTGACAATATTTTCTATAATAATTATAAATACTTATAGTTACAAAAT
* * * *
100785 TGTTACTATATGATTTTTTTGACGCAATAAAATATGGAGGAAAATCTTTACGACAATATATTTTG
326 TGTCACTATATGATCTTTTTGACGCAAAAAAATATGGAGGAAAATCTTCACGACAATATATTTTG
*
100850 TTACTATATAATATTTTTAATACT
391 TCACTATATAATATTTTTAATACT
* * * * *
100874 AAAAAATA-AGGATAAATGATTCTGATAGTATAATTTTTCATAATGATTAAAATATATAAGTA-A
1 AAAAAATACA-GAGAAATGATTATGATAGTATAATTTTACATAATAATTAAAATATATAACTACA
* *
100937 AAAAATAATTGATTACAAAAAACCTGAATTTTATTATTTGATATGATAATTTTTTCTATAACAAT
65 AAAAATAATTGATTACAAAAAACCTAAATTTTATTATCTGATATGATAATTTTTT-TATAACAAT
* * * *
101002 AACAATAACTATAAATTATAATTATAAAAATTGTTAATATAAC-TTTTGAAACAAAAAAGTGGAG
129 ---AAT---TATAAATTATAATTA-AAAAATTATGAATATAACTTTTTGAAACAAAAAAATGAAG
* * ** * * * *
101066 AAACATAATTAAGATGATATATGCTATCACTATAGTTAAAATTTATAATTACAAATATAATTTGT
187 AAAAATAATTAACACAATAAATGCTATCACTATAATTAAAATTTATAACTACAAATATAATTTAT
* * * *
101131 CACAAAAACGTAAATATCA-TTTTTTTGTGACAATGTTTTCTATAATAATTATTAATACTTATAG
252 CACAAAAACGTAAATACCACTATTTTTGTGACAATATTTTCTATAATAATTATAAATACTTATAG
* * * * **
101195 TTACAAAATTTGTCATTATATGATCTTTTTGGCGCAAAAAAATTTGGAGGGAAATCTTCGTGACA
317 TTACAAAA-TTGTCACTATATGATCTTTTTGACGCAAAAAAATATGGAGGAAAATCTTCACGACA
101260 ATATATTTTGTCACTATA
381 ATATATTTTGTCACTATA
101278 ATTAAAACAT
Statistics
Matches: 346, Mismatches: 48, Indels: 14
0.85 0.12 0.03
Matches are distributed among these distances:
413 52 0.15
414 63 0.18
417 3 0.01
419 48 0.14
420 166 0.48
421 14 0.04
ACGTcount: A:0.45, C:0.08, G:0.09, T:0.38
Consensus pattern (414 bp):
AAAAAATACAGAGAAATGATTATGATAGTATAATTTTACATAATAATTAAAATATATAACTACAA
AAAATAATTGATTACAAAAAACCTAAATTTTATTATCTGATATGATAATTTTTTTATAACAATAA
TTATAAATTATAATTAAAAAATTATGAATATAACTTTTTGAAACAAAAAAATGAAGAAAAATAAT
TAACACAATAAATGCTATCACTATAATTAAAATTTATAACTACAAATATAATTTATCACAAAAAC
GTAAATACCACTATTTTTGTGACAATATTTTCTATAATAATTATAAATACTTATAGTTACAAAAT
TGTCACTATATGATCTTTTTGACGCAAAAAAATATGGAGGAAAATCTTCACGACAATATATTTTG
TCACTATATAATATTTTTAATACT
Found at i:106806 original size:34 final size:34
Alignment explanation
Indices: 106747--106813 Score: 84
Period size: 34 Copynumber: 1.9 Consensus size: 34
106737 TTATTGAGAG
106747 TTGTTTTCTCCTTTTTATCAAGAGAGAA-TTGTCA
1 TTGTTTTCTCCTTTTTAT-AAGAGAGAAGTTGTCA
*
106781 TTGTTTTCTCCTTTGTTGAT-TGAGAGAAGTTGT
1 TTGTTTTCTCCTTT-TT-ATAAGAGAGAAGTTGT
106814 AATTCCTATT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
34 21 0.72
35 6 0.21
36 2 0.07
ACGTcount: A:0.19, C:0.12, G:0.19, T:0.49
Consensus pattern (34 bp):
TTGTTTTCTCCTTTTTATAAGAGAGAAGTTGTCA
Found at i:110038 original size:4 final size:4
Alignment explanation
Indices: 110029--110107 Score: 158
Period size: 4 Copynumber: 19.8 Consensus size: 4
110019 AAGAAATGGA
110029 GAAT GAAT GAAT GAAT GAAT GAAT GAAT GAAT GAAT GAAT GAAT GAAT
1 GAAT GAAT GAAT GAAT GAAT GAAT GAAT GAAT GAAT GAAT GAAT GAAT
110077 GAAT GAAT GAAT GAAT GAAT GAAT GAAT GAA
1 GAAT GAAT GAAT GAAT GAAT GAAT GAAT GAA
110108 ATGAGAAGTA
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 75 1.00
ACGTcount: A:0.51, C:0.00, G:0.25, T:0.24
Consensus pattern (4 bp):
GAAT
Found at i:111624 original size:23 final size:23
Alignment explanation
Indices: 111593--111650 Score: 89
Period size: 23 Copynumber: 2.5 Consensus size: 23
111583 TAAGCTACCG
*
111593 AAAGCCAGAGAAAAACGTGTCAT
1 AAAGACAGAGAAAAACGTGTCAT
* *
111616 AAAGACAGAGATAAACGTGTTAT
1 AAAGACAGAGAAAAACGTGTCAT
111639 AAAGACAGAGAA
1 AAAGACAGAGAA
111651 CATGTCACAG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.52, C:0.12, G:0.22, T:0.14
Consensus pattern (23 bp):
AAAGACAGAGAAAAACGTGTCAT
Found at i:119494 original size:29 final size:29
Alignment explanation
Indices: 119429--119494 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 29
119419 ATATATATTC
* **
119429 ACATTATAATATTATTTAATATATCAAAT
1 ACATTATAAAATTATAAAATATATCAAAT
*
119458 ACAATATAAAATTATAAAATATATTCAAA-
1 ACATTATAAAATTATAAAATATA-TCAAAT
*
119487 ATATTATA
1 ACATTATA
119495 TTTTTTCTTT
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
29 25 0.83
30 5 0.17
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (29 bp):
ACATTATAAAATTATAAAATATATCAAAT
Found at i:120451 original size:93 final size:92
Alignment explanation
Indices: 120340--120519 Score: 240
Period size: 93 Copynumber: 1.9 Consensus size: 92
120330 TGAACATCGA
*
120340 ATGCATTTCATGCATCGATGCA-CATACTATACATCGATGCACTCAGAG-T-TTTATGAAAACAT
1 ATGCATTTCATGCATCGATGCACCA-ACCATACATCGATGCACTCAG-GCTATTT-TG-AAACAT
*
120402 CGAATGCATTTGATGCATCGATGCACAAGTT
62 CGAATGCATTTCATGCATCGATGCACAAGTT
* * * * *
120433 ATGCATTTGATGCATCGATGCACCAGCCATGCATCGATGCACTCTGGCTATTTTGAAATATCGAA
1 ATGCATTTCATGCATCGATGCACCAACCATACATCGATGCACTCAGGCTATTTTGAAACATCGAA
120498 TGCATTTCATGCATCGATGCAC
66 TGCATTTCATGCATCGATGCAC
120520 TCTTAGTGCA
Statistics
Matches: 77, Mismatches: 7, Indels: 7
0.85 0.08 0.08
Matches are distributed among these distances:
92 31 0.40
93 41 0.53
94 5 0.06
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.30
Consensus pattern (92 bp):
ATGCATTTCATGCATCGATGCACCAACCATACATCGATGCACTCAGGCTATTTTGAAACATCGAA
TGCATTTCATGCATCGATGCACAAGTT
Found at i:120464 original size:28 final size:28
Alignment explanation
Indices: 120405--120466 Score: 97
Period size: 28 Copynumber: 2.2 Consensus size: 28
120395 AAAACATCGA
**
120405 ATGCATTTGATGCATCGATGCACAAGTT
1 ATGCATTTGATGCATCGATGCACAAGCC
*
120433 ATGCATTTGATGCATCGATGCACCAGCC
1 ATGCATTTGATGCATCGATGCACAAGCC
120461 ATGCAT
1 ATGCAT
120467 CGATGCACTC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (28 bp):
ATGCATTTGATGCATCGATGCACAAGCC
Found at i:125180 original size:10 final size:10
Alignment explanation
Indices: 125165--125196 Score: 64
Period size: 10 Copynumber: 3.2 Consensus size: 10
125155 AGTTTAAACC
125165 ATCCAAACAA
1 ATCCAAACAA
125175 ATCCAAACAA
1 ATCCAAACAA
125185 ATCCAAACAA
1 ATCCAAACAA
125195 AT
1 AT
125197 TCACAATACT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.59, C:0.28, G:0.00, T:0.12
Consensus pattern (10 bp):
ATCCAAACAA
Found at i:127221 original size:21 final size:21
Alignment explanation
Indices: 127196--127275 Score: 74
Period size: 21 Copynumber: 3.8 Consensus size: 21
127186 CAGAACCCCA
* *
127196 GGGGGTATCGATTCCCCTGTG
1 GGGGGAATCGATTCCCCTATG
* *
127217 GGGGGAATCGGTTCCCCTTTAAG
1 GGGGGAATCGATTCCCC--TATG
*
127240 GGGGGAATCGGTT-CCCTCATG
1 GGGGGAATCGATTCCCCT-ATG
127261 GGGGG-ATCGATTCCC
1 GGGGGAATCGATTCCC
127276 TCTGCACCAA
Statistics
Matches: 49, Mismatches: 6, Indels: 8
0.78 0.10 0.13
Matches are distributed among these distances:
20 7 0.14
21 24 0.49
22 3 0.06
23 15 0.31
ACGTcount: A:0.14, C:0.24, G:0.38, T:0.25
Consensus pattern (21 bp):
GGGGGAATCGATTCCCCTATG
Found at i:127269 original size:20 final size:21
Alignment explanation
Indices: 127215--127277 Score: 74
Period size: 23 Copynumber: 3.0 Consensus size: 21
127205 GATTCCCCTG
*
127215 TGGGGGGAATCGGTTCCCCTTTA
1 TGGGGGGAATCGGTT-CCC-TCA
*
127238 AGGGGGGAATCGGTTCCCTCA
1 TGGGGGGAATCGGTTCCCTCA
*
127259 TGGGGGG-ATCGATTCCCTC
1 TGGGGGGAATCGGTTCCCTC
127278 TGCACCAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
20 11 0.31
21 8 0.22
22 3 0.08
23 14 0.39
ACGTcount: A:0.14, C:0.24, G:0.37, T:0.25
Consensus pattern (21 bp):
TGGGGGGAATCGGTTCCCTCA
Found at i:135542 original size:23 final size:22
Alignment explanation
Indices: 135471--135552 Score: 94
Period size: 23 Copynumber: 3.6 Consensus size: 22
135461 ACACTTAACA
*
135471 GTGCATCGATGTATCCCTTTGAAT
1 GTGCATCGATGCA-CCC-TTGAAT
* * *
135495 GTGCATCGATACA-CCATGAAG
1 GTGCATCGATGCACCCTTGAAT
135516 GTGCATCGATGCACGCCTTGAAT
1 GTGCATCGATGCAC-CCTTGAAT
135539 GTGCATCGATGCAC
1 GTGCATCGATGCAC
135553 AAGGCTATGC
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
21 16 0.33
22 2 0.04
23 20 0.41
24 11 0.22
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.27
Consensus pattern (22 bp):
GTGCATCGATGCACCCTTGAAT
Found at i:138326 original size:20 final size:20
Alignment explanation
Indices: 138278--138335 Score: 91
Period size: 19 Copynumber: 2.9 Consensus size: 20
138268 CATCGAATGC
138278 ATTTCATGCATCGATGCACAT
1 ATTT-ATGCATCGATGCACAT
*
138299 A-CTATGCATCGATGCACAT
1 ATTTATGCATCGATGCACAT
138318 ATTTATGCATCGATGCAC
1 ATTTATGCATCGATGCAC
138336 TCAGAGTTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
19 17 0.50
20 16 0.47
21 1 0.03
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (20 bp):
ATTTATGCATCGATGCACAT
Found at i:138436 original size:64 final size:65
Alignment explanation
Indices: 138322--138445 Score: 191
Period size: 64 Copynumber: 1.9 Consensus size: 65
138312 GCACATATTT
* *
138322 ATGCATCGATGCACTCAGAGTTTTATGAAAACATCGAATGCATTTGATGCATCGATGCACCAGCC
1 ATGCATCGATGCACTCAGACTTTTATGAAAACATCGAATGCATTTCATGCATCGATGCACCAGCC
138387 ATGCATCGATGCACTCTAG-CTATTT-TG-AAACATCGAATGCATTTCATGCATCGATGCAC
1 ATGCATCGATGCACTC-AGACT-TTTATGAAAACATCGAATGCATTTCATGCATCGATGCAC
138446 TCTTAGTGCA
Statistics
Matches: 55, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
64 31 0.56
65 19 0.35
66 5 0.09
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.28
Consensus pattern (65 bp):
ATGCATCGATGCACTCAGACTTTTATGAAAACATCGAATGCATTTCATGCATCGATGCACCAGCC
Found at i:139707 original size:17 final size:18
Alignment explanation
Indices: 139675--139709 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
139665 TATTATATAT
*
139675 ATCTTAACTTAAATTAAA
1 ATCTTAACTAAAATTAAA
139693 ATCTTAA-TAAAATTAAA
1 ATCTTAACTAAAATTAAA
139710 TATATATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.54, C:0.09, G:0.00, T:0.37
Consensus pattern (18 bp):
ATCTTAACTAAAATTAAA
Found at i:139895 original size:29 final size:31
Alignment explanation
Indices: 139863--139928 Score: 93
Period size: 31 Copynumber: 2.2 Consensus size: 31
139853 TATAGTTAAG
*
139863 ATAAAAATAA-A-ATATATTTTTAAA-TAAAA
1 ATAAAAATAAGATATACATTTTTAAACT-AAA
139892 ATAAAAATAAGATATACATTTTTAAACTAAA
1 ATAAAAATAAGATATACATTTTTAAACTAAA
139923 ATAAAA
1 ATAAAA
139929 TATATATTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
29 10 0.30
30 1 0.03
31 21 0.64
32 1 0.03
ACGTcount: A:0.64, C:0.03, G:0.02, T:0.32
Consensus pattern (31 bp):
ATAAAAATAAGATATACATTTTTAAACTAAA
Found at i:139917 original size:27 final size:25
Alignment explanation
Indices: 139889--139938 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
139879 TTTTTAAATA
*
139889 AAAATAAAAATAAGATATACATTTTT
1 AAAAT-AAAATAAAATATACATTTTT
* *
139915 AAACTAAAATAAAATATATATTTT
1 AAAATAAAATAAAATATACATTTT
139939 AAGTTAAGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 17 0.81
26 4 0.19
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.36
Consensus pattern (25 bp):
AAAATAAAATAAAATATACATTTTT
Found at i:140046 original size:31 final size:30
Alignment explanation
Indices: 139841--140127 Score: 155
Period size: 30 Copynumber: 9.4 Consensus size: 30
139831 ATTAAGATAG
*
139841 AAAA-ATATTCTTTATAGTTAAGATAAAAAT
1 AAAATATATT-TTTAAAGTTAAGATAAAAAT
* *
139871 AAAATATATTTTTAAA-TAAAAATAAAAAT
1 AAAATATATTTTTAAAGTTAAGATAAAAAT
* **
139900 AAGATATACATTT----TTAA-ACT-AAAAT
1 AAAATATATTTTTAAAGTTAAGA-TAAAAAT
139925 AAAATATATATTTT-AAGTTAAGATAAGAAAAAT
1 AAAATATAT-TTTTAAAGTTAAGAT---AAAAAT
* * * * *
139958 AGAATATAAAATATTTAATAATTTAAGTTAACAAT
1 A-AA-AT-ATAT-TTTTA-AAGTTAAGATAAAAAT
* **
139993 AAAATATATGTAAAAAGTTAAGATAAAAAT
1 AAAATATATTTTTAAAGTTAAGATAAAAAT
*
140023 AAAATATATTTTTAAGAGTTAAGATAATAAT
1 AAAATATATTTTTAA-AGTTAAGATAAAAAT
* * * *
140054 AAAATACAATTTTT-AAGTTAAGGTAGAGAT
1 AAAATA-TATTTTTAAAGTTAAGATAAAAAT
* * *
140084 AAAATCTA-TTTTATAAGTTAAAGATAAGATT
1 AAAATATATTTTTA-AAGTT-AAGATAAAAAT
*
140115 AGAATATATTTTT
1 AAAATATATTTTT
140128 CAGTCAAGAC
Statistics
Matches: 196, Mismatches: 39, Indels: 42
0.71 0.14 0.15
Matches are distributed among these distances:
25 13 0.07
26 7 0.04
28 4 0.02
29 27 0.14
30 56 0.29
31 41 0.21
32 13 0.07
33 8 0.04
34 4 0.02
35 8 0.04
36 7 0.04
38 8 0.04
ACGTcount: A:0.54, C:0.02, G:0.08, T:0.36
Consensus pattern (30 bp):
AAAATATATTTTTAAAGTTAAGATAAAAAT
Found at i:140075 original size:30 final size:29
Alignment explanation
Indices: 140007--140136 Score: 104
Period size: 31 Copynumber: 4.3 Consensus size: 29
139997 TATATGTAAA
140007 AAGTTAAGATAAAAATAAAATA-TATTTTT
1 AAGTTAAGAT-AAAATAAAATACTATTTTT
*
140036 AAGAGTTAAGATAATAATAAAATACAATTTTT
1 -A-AGTTAAGATAA-AATAAAATACTATTTTT
* *
140068 AAGTTAAGGTAGAGATAAAAT-CTATTTTAT
1 AAGTTAAGATA-AAATAAAATACTATTTT-T
* *
140098 AAGTTAAAGATAAGATTAGAATA-TATTTTT
1 AAGTT-AAGATAA-AATAAAATACTATTTTT
* *
140128 CAGTCAAGA
1 AAGTTAAGA
140137 CTGCTCCAAG
Statistics
Matches: 82, Mismatches: 10, Indels: 17
0.75 0.09 0.16
Matches are distributed among these distances:
29 10 0.12
30 30 0.37
31 36 0.44
32 6 0.07
ACGTcount: A:0.49, C:0.03, G:0.12, T:0.35
Consensus pattern (29 bp):
AAGTTAAGATAAAATAAAATACTATTTTT
Found at i:167728 original size:3 final size:3
Alignment explanation
Indices: 167720--167784 Score: 89
Period size: 3 Copynumber: 22.0 Consensus size: 3
167710 AAATTTAAAT
* *
167720 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TAA TAA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
167768 TT- TTA -TA TTA TTTA TTA
1 TTA TTA TTA TTA -TTA TTA
167785 AATATTACAA
Statistics
Matches: 57, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
2 4 0.07
3 50 0.88
4 3 0.05
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:173669 original size:75 final size:76
Alignment explanation
Indices: 173542--173748 Score: 301
Period size: 76 Copynumber: 2.8 Consensus size: 76
173532 CCGTTGTACA
* * * *
173542 AGGGGGAATCGGTACCCCCT-TGGGGGGGATCGGTTCCCTCCGAGCATACTGGAATTCTCGGAG-
1 AGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATTCTGGAATTCTCGGAGC
**
173605 CAAAACTGTTT
66 CAAAACCATTT
* *
173616 AGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATTCTGGAAATCTCGGGGC
1 AGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATTCTGGAATTCTCGGAGC
173681 CAAAACCATTT
66 CAAAACCATTT
* * *
173692 AGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCTGAGCAATCTGTAATT
1 AGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATTCTGGAATT
173749 TTTGGCTTTG
Statistics
Matches: 119, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
74 18 0.15
75 39 0.33
76 62 0.52
ACGTcount: A:0.20, C:0.24, G:0.31, T:0.25
Consensus pattern (76 bp):
AGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATTCTGGAATTCTCGGAGC
CAAAACCATTT
Found at i:174104 original size:30 final size:30
Alignment explanation
Indices: 174068--174128 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
174058 TTAACACTTA
174068 TTCAATTTATTATGTAAAACATTTAACACC
1 TTCAATTTATTATGTAAAACATTTAACACC
174098 TTCAATTTATTATGTAAAACATTTAACACC
1 TTCAATTTATTATGTAAAACATTTAACACC
174128 T
1 T
174129 ATTCTTCTCC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.39, C:0.16, G:0.03, T:0.41
Consensus pattern (30 bp):
TTCAATTTATTATGTAAAACATTTAACACC
Found at i:176310 original size:19 final size:20
Alignment explanation
Indices: 176264--176323 Score: 68
Period size: 19 Copynumber: 2.9 Consensus size: 20
176254 TCCCCTGTGG
176264 GGGGGAATCGGTTCCCCTTCAAA
1 GGGGGAATCGGTT-CCC-TC-AA
176287 GGGGGAATCGGTTCCCTC-A
1 GGGGGAATCGGTTCCCTCAA
* *
176306 GGGGGGATCGATTCCCTC
1 GGGGGAATCGGTTCCCTC
176324 TGCACCAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 17 0.49
21 2 0.06
22 3 0.09
23 13 0.37
ACGTcount: A:0.17, C:0.27, G:0.35, T:0.22
Consensus pattern (20 bp):
GGGGGAATCGGTTCCCTCAA
Found at i:180110 original size:22 final size:21
Alignment explanation
Indices: 180068--180107 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
180058 GAGTTTGTTT
*
180068 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
180089 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
180108 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:182200 original size:77 final size:77
Alignment explanation
Indices: 182011--182213 Score: 288
Period size: 76 Copynumber: 2.7 Consensus size: 77
182001 GTTGTACAAT
* * * *
182011 GGGGGAATCGGTACCCCCT-TGGGGGGG-ATCGGTTCCCTCCGAGCATACTGGAATTCTCGGAGC
1 GGGGGAATCGGTTCCTCCTATGGGGGGGAATCGGTTCCCTCCGAGCATTCTGGAAATCTCGGAGC
**
182074 AAAACTGTTTAG
66 AAAACCATTTAG
*
182086 GGGGGAATCGGTTCCTCCTAT-GGGGGGAATCGGTTCCCTCCGAGCATTCTGGAAATCTCGGGGC
1 GGGGGAATCGGTTCCTCCTATGGGGGGGAATCGGTTCCCTCCGAGCATTCTGGAAATCTCGGAG-
182150 CAAAACCATTTA-
65 CAAAACCATTTAG
* *
182162 GGGGGAATCGGTTCCTCCTATGGGGGGGAATCGGTTCCCTCTGAGCAATCTG
1 GGGGGAATCGGTTCCTCCTATGGGGGGGAATCGGTTCCCTCCGAGCATTCTG
182214 TACTTTTTGG
Statistics
Matches: 115, Mismatches: 9, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
75 23 0.20
76 54 0.47
77 38 0.33
ACGTcount: A:0.19, C:0.24, G:0.33, T:0.24
Consensus pattern (77 bp):
GGGGGAATCGGTTCCTCCTATGGGGGGGAATCGGTTCCCTCCGAGCATTCTGGAAATCTCGGAGC
AAAACCATTTAG
Found at i:187932 original size:75 final size:75
Alignment explanation
Indices: 187808--187980 Score: 217
Period size: 75 Copynumber: 2.3 Consensus size: 75
187798 ATTAACAAGA
* ** * *
187808 AGCAAATGCTGGGGCATACTGAAAGCCCCTCTTAATCAGAATCATGAATGTTGATGTATTTTGAA
1 AGCAAATGTTGGGGCATGTTGAAAGCCCCTCTTAATCAGAATCAAGAATGTTGACGTATTTTGAA
187873 --CATCTATATC
66 TGC-T-TATATC
*
187883 AGCAAATGTTGGGGCATGTTGAAAGCCCCT-TTCAATCAGAATGAAGAATGTTGACGTATTTTGA
1 AGCAAATGTTGGGGCATGTTGAAAGCCCCTCTT-AATCAGAATCAAGAATGTTGACGTATTTTGA
* *
187947 ATGCTTGTATT
65 ATGCTTATATC
*
187958 AGCCAATGTTGGGGCATGTTGAA
1 AGCAAATGTTGGGGCATGTTGAA
187981 GGCCTATATC
Statistics
Matches: 86, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
74 2 0.02
75 82 0.95
76 1 0.01
77 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.31
Consensus pattern (75 bp):
AGCAAATGTTGGGGCATGTTGAAAGCCCCTCTTAATCAGAATCAAGAATGTTGACGTATTTTGAA
TGCTTATATC
Found at i:189356 original size:22 final size:22
Alignment explanation
Indices: 189331--189404 Score: 78
Period size: 22 Copynumber: 3.4 Consensus size: 22
189321 TACACTTTTT
*
189331 AAAGACGATAGACTCTTTCTTC
1 AAAGATGATAGACTCTTTCTTC
* * * *
189353 AAAGATGATAGCCTATCTCTTT
1 AAAGATGATAGACTCTTTCTTC
*
189375 AAAGATGATAGATTCTCTT-TTC
1 AAAGATGATAGACTCT-TTCTTC
189397 AAAGATGA
1 AAAGATGA
189405 AAGCTTTATG
Statistics
Matches: 41, Mismatches: 10, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
22 40 0.98
23 1 0.02
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.34
Consensus pattern (22 bp):
AAAGATGATAGACTCTTTCTTC
Found at i:190233 original size:46 final size:46
Alignment explanation
Indices: 190078--190682 Score: 935
Period size: 46 Copynumber: 13.0 Consensus size: 46
190068 CTATTTCTCA
*
190078 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAAAACCTTTGGGT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTTC--AAAAACCTTCGGGT
190126 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAAAACCTTCGGGT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTTC--AAAAACCTTCGGGT
*
190174 CATCTGTAAGTCCTTCAGTACATGATGTTTTCAAAAACCTTCGGGT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGGT
* *
190220 CATTTGTATGTCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGGT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGGT
190266 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAAAACCTTCGGGT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTTC--AAAAACCTTCGGGT
*
190314 CATCTGTAAGTCCTTCAGTGCATGATGTTTTTAAAAACCTTCGGGT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGGT
* * *
190360 CATCTTTAAGTCCTTCAGTGCATGATGTTTTTAAAAACCTTCGAGT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGGT
190406 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGGT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGGT
190452 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAAAACCTTCGGGT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTTC--AAAAACCTTCGGGT
* * * *
190500 CATCTGTAAGTCCTTTAGTGCATTATG-TTTCAAAAGCCTTCGGTT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGGT
*
190545 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAAAACCTTCGGGT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTTC-AAAAACCTTCGGGT
*
190592 CATCTGTAAGCCCTTCAGTGCATGATGTTTTC-AAAACCTTCGGGT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGGT
* * * * *
190637 CATCCGTAAGCCCTGCAGTGCAGGATGTTTTGAAAAAGCCTTCGGG
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAA-CCTTCGGG
190683 GAGCTTTTTG
Statistics
Matches: 523, Mismatches: 26, Indels: 17
0.92 0.05 0.03
Matches are distributed among these distances:
45 77 0.15
46 228 0.44
47 56 0.11
48 162 0.31
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.35
Consensus pattern (46 bp):
CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGGT
Found at i:190280 original size:140 final size:139
Alignment explanation
Indices: 190078--190682 Score: 955
Period size: 140 Copynumber: 4.3 Consensus size: 139
190068 CTATTTCTCA
*
190078 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAAAACCTTTGGGTCATCTGTAAGTCCTTCA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTTC--AAAAACCTTCGGGTCATCTGTAAGTCCTTCA
*
190143 GTGCATGATGTTTTCAAAAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTACATGATGTTTTCAA
64 GTGCATGATGTTTTC-AAAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAA
190208 AAACCTTCGGGT
128 AAACCTTCGGGT
* *
190220 CATTTGTATGTCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGTCCTTCAGT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGTCCTTCAGT
*
190285 GCATGATGTTTTCAAAAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTTTAAAA
66 GCATGATGTTTTC-AAAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAA
190350 ACCTTCGGGT
130 ACCTTCGGGT
* * *
190360 CATCTTTAAGTCCTTCAGTGCATGATGTTTTTAAAAACCTTCGAGTCATCTGTAAGTCCTTCAGT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGTCCTTCAGT
190425 GCATGATGTTTTC-AAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAA
66 GCATGATGTTTTCAAAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTTC--AAA
190489 AACCTTCGGGT
129 AACCTTCGGGT
* * * * *
190500 CATCTGTAAGTCCTTTAGTGCATTATG-TTTCAAAAGCCTTCGGTTCATCTGTAAGCCCTTCAGT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGTCCTTCAGT
*
190564 GCATGATGTTTTCAAAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTC-AAAA
66 GCATGATGTTTTCAAAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAA
190628 CCTTCGGGT
131 CCTTCGGGT
* * * * *
190637 CATCCGTAAGCCCTGCAGTGCAGGATGTTTTGAAAAAGCCTTCGGG
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAA-CCTTCGGG
190683 GAGCTTTTTG
Statistics
Matches: 429, Mismatches: 29, Indels: 13
0.91 0.06 0.03
Matches are distributed among these distances:
137 34 0.08
138 52 0.12
139 52 0.12
140 261 0.61
142 30 0.07
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.35
Consensus pattern (139 bp):
CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGTCCTTCAGT
GCATGATGTTTTCAAAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAA
CCTTCGGGT
Found at i:190401 original size:26 final size:26
Alignment explanation
Indices: 190325--190401 Score: 67
Period size: 26 Copynumber: 3.2 Consensus size: 26
190315 ATCTGTAAGT
190325 CCTTCAGTGCATGATGTTTTTAAAAA
1 CCTTCAGTGCATGATGTTTTTAAAAA
* * * **
190351 CCTTC-G-G-GTCA--TCTTT-AAGT
1 CCTTCAGTGCATGATGTTTTTAAAAA
190371 CCTTCAGTGCATGATGTTTTTAAAAA
1 CCTTCAGTGCATGATGTTTTTAAAAA
190397 CCTTC
1 CCTTC
190402 GAGTCATCTG
Statistics
Matches: 35, Mismatches: 10, Indels: 12
0.61 0.18 0.21
Matches are distributed among these distances:
20 7 0.20
21 5 0.14
22 1 0.03
23 4 0.11
24 1 0.03
25 5 0.14
26 12 0.34
ACGTcount: A:0.25, C:0.21, G:0.16, T:0.39
Consensus pattern (26 bp):
CCTTCAGTGCATGATGTTTTTAAAAA
Found at i:190438 original size:186 final size:186
Alignment explanation
Indices: 190078--190792 Score: 1002
Period size: 186 Copynumber: 3.9 Consensus size: 186
190068 CTATTTCTCA
*
190078 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAAAACCTTTGGGTCATCTGTAAGTCCTTCA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAAAACCTTCGGGTCATCTGTAAGTCCTTCA
* * * *
190143 GTGCATGATGTTTTCAAAAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTACATGATGTTTTCAA
66 GTGCATGATGTTTT--TAAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTTAA
* * *
190208 AAACCTTCGGGTCATTTGTATGTCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGGT
129 AAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGGT
190266 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAAAACCTTCGGGTCATCTGTAAGTCCTTCA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAAAACCTTCGGGTCATCTGTAAGTCCTTCA
* *
190331 GTGCATGATGTTTTTAAAAACCTTCGGGTCATCTTTAAGTCCTTCAGTGCATGATGTTTTTAAAA
66 GTGCATGATGTTTTTAAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTTAAAA
* *
190396 ACCTTCGAGTCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGGT
131 ACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGGT
*
190452 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAAAACCTTCGGGTCATCTGTAAGTCCTTTA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAAAACCTTCGGGTCATCTGTAAGTCCTTCA
* * * * *
190517 GTGCATTATG-TTTCAAAAGCCTTCGGTTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAA
66 GTGCATGATGTTTTTAAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTT-TAAA
190581 AACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTC-AAAACCTTCGGGT
130 AACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGGT
* * * * * *
190637 CATCCGTAAGCCCTGCAGTGCAGGATGTTTT-GAAAAAGCCTTCGGG------G--AG--CTT--
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAAAACCTTCGGGTCATCTGTAAGTCCTTCA
* * * * *
190689 -T--TTGAT-ATTATCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATG-TTTTCAAA
66 GTGCATGATGTTTTTAAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTTAAAA
190749 ACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAA
131 ACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAA
190793 CATTTCCATC
Statistics
Matches: 491, Mismatches: 33, Indels: 26
0.89 0.06 0.05
Matches are distributed among these distances:
167 45 0.09
168 4 0.01
169 43 0.09
171 1 0.00
174 3 0.01
176 2 0.00
178 1 0.00
184 13 0.03
185 84 0.17
186 217 0.44
188 78 0.16
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.35
Consensus pattern (186 bp):
CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAAAACCTTCGGGTCATCTGTAAGTCCTTCA
GTGCATGATGTTTTTAAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTTAAAA
ACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGGT
Found at i:190750 original size:45 final size:45
Alignment explanation
Indices: 190699--190792 Score: 188
Period size: 45 Copynumber: 2.1 Consensus size: 45
190689 TTTGATATTA
190699 TCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTT
1 TCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTT
190744 TCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTT
1 TCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTT
190789 TCAA
1 TCAA
190793 CATTTCCATC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 49 1.00
ACGTcount: A:0.23, C:0.24, G:0.19, T:0.33
Consensus pattern (45 bp):
TCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTT
Found at i:192574 original size:17 final size:19
Alignment explanation
Indices: 192538--192574 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
192528 CATGAAATAC
192538 AATATTATAATTTTATAAT
1 AATATTATAATTTTATAAT
*
192557 AATATT-TATTTTTA-AAT
1 AATATTATAATTTTATAAT
192574 A
1 A
192575 TTAAAGAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 4 0.24
18 7 0.41
19 6 0.35
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
AATATTATAATTTTATAAT
Found at i:194179 original size:24 final size:24
Alignment explanation
Indices: 194129--194179 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
194119 ACTATTGTAA
194129 ATTAGAAGATAATTTTAATTTGAAT
1 ATTAGAAGATAA-TTTAATTTGAAT
*
194154 ATTAGTAAGATAA-TTACTTTGAAT
1 ATTAG-AAGATAATTTAATTTGAAT
194178 AT
1 AT
194180 GTCAATTTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
24 12 0.50
25 5 0.21
26 7 0.29
ACGTcount: A:0.43, C:0.02, G:0.12, T:0.43
Consensus pattern (24 bp):
ATTAGAAGATAATTTAATTTGAAT
Found at i:195291 original size:2 final size:2
Alignment explanation
Indices: 195284--195325 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
195274 TAAAAGGTAC
195284 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
195326 AACCAAATAA
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:212485 original size:2 final size:2
Alignment explanation
Indices: 212480--212538 Score: 111
Period size: 2 Copynumber: 30.0 Consensus size: 2
212470 TAACAAATAA
212480 AT AT AT AT AT AT AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
212521 AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT
212539 TCTTACAAGT
Statistics
Matches: 56, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.02
2 55 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:213861 original size:19 final size:17
Alignment explanation
Indices: 213797--213867 Score: 52
Period size: 19 Copynumber: 3.8 Consensus size: 17
213787 GAAAAAAAAG
* *
213797 AAATAAAGACTAAAATA
1 AAATAAAAAATAAAATA
213814 AATCAGTAAATAAATAAAAATA
1 AA--A-TAAA-AAAT-AAAATA
*
213836 AATTAAAGAAATAAAATGA
1 AAATAAA-AAATAAAAT-A
213855 AAATAAAAAATAA
1 AAATAAAAAATAA
213868 TAAAGGAAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 11
0.73 0.08 0.19
Matches are distributed among these distances:
17 2 0.05
18 11 0.26
19 16 0.37
20 4 0.09
21 2 0.05
22 8 0.19
ACGTcount: A:0.72, C:0.03, G:0.06, T:0.20
Consensus pattern (17 bp):
AAATAAAAAATAAAATA
Found at i:213872 original size:29 final size:31
Alignment explanation
Indices: 213821--213890 Score: 78
Period size: 30 Copynumber: 2.4 Consensus size: 31
213811 ATAAATCAGT
*
213821 AAAT-AAAT-AAAAATAAATTAAA-GAAATA
1 AAATAAAATAAAAAATAAATTAAAGGAAAAA
213849 AAATGAAAATAAAAAAT-AA-TAAAGGAAAAA
1 AAAT-AAAATAAAAAATAAATTAAAGGAAAAA
*
213879 AAATTAAATAAA
1 AAATAAAATAAA
213891 TCAAAAAAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
28 4 0.11
29 11 0.31
30 15 0.42
31 6 0.17
ACGTcount: A:0.76, C:0.00, G:0.06, T:0.19
Consensus pattern (31 bp):
AAATAAAATAAAAAATAAATTAAAGGAAAAA
Found at i:213888 original size:19 final size:20
Alignment explanation
Indices: 213866--213904 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
213856 AATAAAAAAT
*
213866 AATAAAGGAAAAAAA-ATTA
1 AATAAAGCAAAAAAATATTA
*
213885 AATAAATCAAAAAAATATTA
1 AATAAAGCAAAAAAATATTA
213905 TTTAAAAAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.72, C:0.03, G:0.05, T:0.21
Consensus pattern (20 bp):
AATAAAGCAAAAAAATATTA
Found at i:215002 original size:6 final size:7
Alignment explanation
Indices: 214985--215010 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
214975 ATTGGACCTG
214985 AAAAAAC
1 AAAAAAC
214992 AAAAAAC
1 AAAAAAC
214999 AAAAAAC
1 AAAAAAC
215006 AAAAA
1 AAAAA
215011 TAAGTGATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (7 bp):
AAAAAAC
Found at i:215122 original size:74 final size:71
Alignment explanation
Indices: 215032--215249 Score: 249
Period size: 74 Copynumber: 3.0 Consensus size: 71
215022 TAAATAAATA
* * *
215032 TAAAAAT-GTTTTAAAACTATACAATATATATTTTAAAAACTAATTTTCAAATCTATATAATATA
1 TAAAAATATTTTTAAAACTATA-AATATATATTTTAAAAACTAATTTTAAAAACTATATAATATA
215096 TATTTTT
65 TATTTTT
* * *
215103 TAAAAACTAATTTTTAAAACTATATATATATATTTTTTAAAATTAATTTTAAAAACTATATAATA
1 TAAAAA-T-ATTTTTAAAACTATAAATATATA-TTTTAAAAACTAATTTTAAAAACTATATAATA
* *
215168 TAAATGTTT
63 TATATTTTT
* * * **
215177 TCAAAATGTTTTCAAAACTATATATATATATATTTTAAAAACATTTTTTTAAAAACTATATAATA
1 TAAAAATATTTTTAAAACTATA-A-ATATATATTTTAAAAAC-TAATTTTAAAAACTATATAATA
215242 TATATTTT
63 TATATTTT
215250 GAAAATCATT
Statistics
Matches: 122, Mismatches: 18, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
71 6 0.05
72 14 0.11
73 16 0.13
74 86 0.70
ACGTcount: A:0.47, C:0.06, G:0.01, T:0.46
Consensus pattern (71 bp):
TAAAAATATTTTTAAAACTATAAATATATATTTTAAAAACTAATTTTAAAAACTATATAATATAT
ATTTTT
Found at i:215141 original size:37 final size:37
Alignment explanation
Indices: 215040--215285 Score: 236
Period size: 36 Copynumber: 6.6 Consensus size: 37
215030 TATAAAAATG
*
215040 TTTTAAAACTATACA-ATATATATTTTAAAAACTAAT
1 TTTTAAAACTATATATATATATATTTTAAAAACTAAT
* * *
215076 TTTCAAATCTATATAATATATATTTTTTAAAAACTAAT
1 TTTTAAAACTATAT-ATATATATATTTTAAAAACTAAT
* *
215114 TTTTAAAACTATATATATATAT-TTTTTAAAATTAAT
1 TTTTAAAACTATATATATATATATTTTAAAAACTAAT
* * * * *
215150 TTTAAAAACTATATAATATAAATGTTTTCAAAA-T-GT
1 TTTTAAAACTATAT-ATATATATATTTTAAAAACTAAT
* *
215186 TTTCAAAACTATATATATATATATTTTAAAAAC-ATTT
1 TTTTAAAACTATATATATATATATTTTAAAAACTA-AT
* *
215223 TTTTAAAAACTATATA-ATATATATTTTGAAAA-TCAT
1 TTTT-AAAACTATATATATATATATTTTAAAAACTAAT
*
215259 TTTCTGAAAATTATATATTATATATAT
1 TTT-T-AAAACTATATA-TATATATAT
215286 ATATATATAT
Statistics
Matches: 175, Mismatches: 23, Indels: 21
0.80 0.11 0.10
Matches are distributed among these distances:
35 15 0.09
36 54 0.31
37 47 0.27
38 51 0.29
39 8 0.05
ACGTcount: A:0.46, C:0.06, G:0.02, T:0.46
Consensus pattern (37 bp):
TTTTAAAACTATATATATATATATTTTAAAAACTAAT
Found at i:215185 original size:11 final size:11
Alignment explanation
Indices: 215169--215193 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
215159 TATATAATAT
215169 AAATGTTTTCA
1 AAATGTTTTCA
215180 AAATGTTTTCA
1 AAATGTTTTCA
215191 AAA
1 AAA
215194 CTATATATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (11 bp):
AAATGTTTTCA
Found at i:215281 original size:74 final size:72
Alignment explanation
Indices: 215043--215283 Score: 240
Period size: 74 Copynumber: 3.3 Consensus size: 72
215033 AAAAATGTTT
* * * * *
215043 TAAAACTATACAATATATATTTTAAAAAC-TAATTTTCAAATCTATATAATATATATTTTTTAAA
1 TAAAACTATATATTATATATTTTAAAAACATTATTTTAAAAACTATATAATATATA--TTTTAAA
215107 AACTAATTTT-
64 AA-T-ATTTTC
** * *
215117 TAAAACTATATA-TATATATTTTTTAAA-ATTAATTTTAAAAACTATATAATATAAATGTTTTCA
1 TAAAACTATATATTATATATTTTAAAAACATT-ATTTTAAAAACTATATAATAT--ATATTTTAA
*
215180 AAATGTTTTC
63 AAATATTTTC
* *
215190 -AAAACTATATATATATATATTTTAAAAACATTTTTTTAAAAACTATATAATATATATTTTGAAA
1 TAAAACTATATAT-TATATATTTTAAAAACATTATTTTAAAAACTATATAATATATATTTTAAAA
215254 ATCATTTTC
65 AT-ATTTTC
*
215263 TGAAAATTATATATTATATAT
1 T-AAAACTATATATTATATAT
215284 ATATATATAT
Statistics
Matches: 140, Mismatches: 16, Indels: 22
0.79 0.09 0.12
Matches are distributed among these distances:
72 26 0.19
73 20 0.14
74 78 0.56
75 14 0.10
76 2 0.01
ACGTcount: A:0.46, C:0.06, G:0.02, T:0.46
Consensus pattern (72 bp):
TAAAACTATATATTATATATTTTAAAAACATTATTTTAAAAACTATATAATATATATTTTAAAAA
TATTTTC
Found at i:215282 original size:2 final size:2
Alignment explanation
Indices: 215270--215328 Score: 111
Period size: 2 Copynumber: 30.0 Consensus size: 2
215260 TTCTGAAAAT
215270 TA TA TA T- 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
215311 TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA
215329 ATAAATAAAA
Statistics
Matches: 56, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.02
2 55 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:216008 original size:84 final size:83
Alignment explanation
Indices: 215890--217301 Score: 1451
Period size: 84 Copynumber: 17.1 Consensus size: 83
215880 ATTTTATTGA
* * * * * * *
215890 CAGATAACCCTTCTTGCCTTGAGTTATTCTGTAAATGATGTGCCCTTGAAGTTGAGCGTAGTCGA
1 CAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATG-CCTTGAAGCTGAGCGTAGTCGA
*
215955 ACTCGAAGGTCTTTGGTGA
65 ACTCGAAGGTCTTTGGTGG
* * * * * * * * *
215974 CAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGGTGTGCCCTCGAAGCTGAGTGTAATCGA
1 CAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATG-CCTTGAAGCTGAGCGTAGTCGA
*
216039 ACTCGAGGGTC-TT--TGG
65 ACTCGAAGGTCTTTGGTGG
* * * *
216055 CAGATAGCCGTTCTCGACTTAAGCTATGCTGCAAATG--ATGCACATTGGAGCTGAGCGTAGTCG
1 CAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGC-C-TTGAAGCTGAGCGTAGTCG
*
216118 AACTCGAAGGTTTTTGGTTGG
64 AACTCGAAGGTCTTTGG-TGG
* * * * *
216139 TAGATAACCCTTCTCGATTTAAGTTATGCTGTAAATGATATGCCTTGGAGCTGAGCATAGTCGAA
1 CAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTTGAAGCTGAGCGTAGTCGAA
*
216204 CTCGAAGGTCTTTGGTGA
66 CTCGAAGGTCTTTGGTGG
* * * * * * * * *
216222 CAGATAACCCTTCTAGCCTTGAGTTATACTGTAAATAATGTGCCCTCGAAGCTGAGCGTAGTTGA
1 CAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATG-CCTTGAAGCTGAGCGTAGTCGA
*
216287 ACTCG-AGGGC-TT--TGG
65 ACTCGAAGGTCTTTGGTGG
* * * * *
216302 CAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATATGTCTTGGAGTTGAGCGTAGTCGAA
1 CAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTTGAAGCTGAGCGTAGTCGAA
* *
216367 CTCAAAGGTATTTGGTTGG
66 CTCGAAGGTCTTTGG-TGG
** * *
216386 CAGATAACCCTTCTCGACTTAAGTTATGCTATAAATGATATG-CTTTAGAGATGAGCGTAGTCGA
1 CAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTTGA-AGCTGAGCGTAGTCGA
*
216450 ACTCGAAGGTCTTTTGGTGA
65 ACTCGAAGGTC-TTTGGTGG
* * * * * * *
216470 CATATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATATGCCCTCGAAGCTGAGCGTAATCGA
1 CAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATG-CCTTGAAGCTGAGCGTAGTCGA
*
216535 ACTCG-AGAT-TCTT--TGG
65 ACTCGAAGGTCT-TTGGTGG
* * * * *
216551 CAGATAGCCCTTCTCGACTTAAGCTGTGCTGCAAATGATGTGTCTT-AGAGCTGAGCGTAGTCGA
1 CAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTTGA-AGCTGAGCGTAGTCGA
*
216615 ACTCGAAGGTATTTGGTTGG
65 ACTCGAAGGTCTTTGG-TGG
* * *
216635 CAGATAACCCTTCTCGACTTATGTTATGCTGCAAATGATATACCTT-AGAGCTGAGCGTAGTCAA
1 CAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTTGA-AGCTGAGCGTAGTCGA
* *
216699 ACTCGAAGGACTTTTGGTGA
65 ACTCGAAGGTC-TTTGGTGG
* * * * * * *
216719 TAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGCGTAGTCGA
1 CAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATG-CCTTGAAGCTGAGCGTAGTCGA
*
216784 ACTCGAGGGTCTTTGGT--
65 ACTCGAAGGTCTTTGGTGG
* * * *
216801 -AGATAACCCTTCTCGACTTAAGATATGCTACAAATGATATGCCTTGGAGCTGAGCGTAGTCAAA
1 CAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTTGAAGCTGAGCGTAGTCGAA
*
216865 CTCGAAGGTATTTGGTTGG
66 CTCGAAGGTCTTTGG-TGG
*
216884 CATATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTT-AGAGCTGAGCGTAGTCGA
1 CAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTTGA-AGCTGAGCGTAGTCGA
*
216948 ACTCGAAGGTCTTTTGGTGA
65 ACTCGAAGGTC-TTTGGTGG
* * * * * * *
216968 CAGATAACCCTTATAGCCTTGAGTTATGCT-CTAAATGATGTGCCCTCGAAGCTGAGCGTAGTTG
1 CAGATAACCCTTCTCGACTTAAGTTATGCTGC-AAATGATATG-CCTTGAAGCTGAGCGTAGTCG
217032 AACTC-AAGGGTCTTTGGT--
64 AACTCGAA-GGTCTTTGGTGG
* *
217050 -AGATAGCCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGAAGCTGAGCGTAGTCGAA
1 CAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTTGAAGCTGAGCGTAGTCGAA
217114 CTCGAAGGTCTTTGGTTGG
66 CTCGAAGGTCTTTGG-TGG
* * * * *
217133 CAGATAACCTTTCTCGATTTAAGTTATGCTGAAAATGATGTGCCCTCGAAGCTGAGCGTAGTCGA
1 CAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATG-CCTTGAAGCTGAGCGTAGTCGA
*
217198 ACTCGAGGGT-TTT--TGG
65 ACTCGAAGGTCTTTGGTGG
* * * * * *
217214 CAGATAACCCTTCTTGACTTAAGCTATGCTGCAAATGATATGCCTTGGAGCTGAGCTTGGTCAAA
1 CAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTTGAAGCTGAGCGTAGTCGAA
217279 CTCGAAGGTC-TTGGTGG
66 CTCGAAGGTCTTTGGTGG
217296 CAGATA
1 CAGATA
217302 GCTCTTCTGG
Statistics
Matches: 1108, Mismatches: 172, Indels: 98
0.80 0.12 0.07
Matches are distributed among these distances:
78 1 0.00
79 25 0.02
80 179 0.16
81 187 0.17
82 14 0.01
83 48 0.04
84 527 0.48
85 118 0.11
86 9 0.01
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.30
Consensus pattern (83 bp):
CAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTTGAAGCTGAGCGTAGTCGAA
CTCGAAGGTCTTTGGTGG
Found at i:216166 original size:165 final size:163
Alignment explanation
Indices: 215890--217301 Score: 1312
Period size: 165 Copynumber: 8.5 Consensus size: 163
215880 ATTTTATTGA
* * * * * * *
215890 CAGATAACCCTTCTTGCCTTGAGTTATTCTGTAAATGATGTGCCCTTGAAGTTGAGCGTAGTCGA
1 CAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGA--TG-CCTTGGAGCTGAGCGTAGTCGA
* * * * * * *
215955 ACTCGAAGGTCTTTGG-TGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGGTGTGCCC
63 ACTCGAAGGTTTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGTAAATGATATGCCC
* *
216019 TCGAAGCTGAGTGTAATCGAACTCGAGGGTCTTTGG
128 TCGAAGCTGAGCGTAGTCGAACTCGAGGGTCTTTGG
* * *
216055 CAGATAGCCGTTCTCGACTTAAGCTATGCTGCAAATGATGCACATTGGAGCTGAGCGTAGTCGAA
1 CAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGC-C-TTGGAGCTGAGCGTAGTCGAA
* *
216120 CTCGAAGGTTTTTGGTTGGTAGATAACCCTTCTCGATTTAAGTTATGCTGTAAATGATATG-CCT
64 CTCGAAGGTTTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGTAAATGATATGCCCT
* * * *
216184 TGGAGCTGAGCATAGTCGAACTCGAAGGTCTTTGGTG
129 CGAAGCTGAGCGTAGTCGAACTCGAGGGTCTTT-G-G
* * * * * * * * *
216221 ACAGATAACCCTTCTAGCCTTGAGTTATACTGTAAATAATGTGCCCTCGAAGCTGAGCGTAGTTG
1 -CAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGA--TG-CCTTGGAGCTGAGCGTAGTCG
** * * * *
216286 AACTCG-AGG--GCT--TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATATG-T
62 AACTCGAAGGTTTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGTAAATGATATGCC
* * * * * *
216345 CTTGGAGTTGAGCGTAGTCGAACTCAAAGGTATTTGGTTGG
127 CTCGAAGCTGAGCGTAGTCGAACTC-GAGG-GTCT--TTGG
** * * *
216386 CAGATAACCCTTCTCGACTTAAGTTATGCTATAAATGATATGCTTTAGAGATGAGCGTAGTCGAA
1 CAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATG--ATGCCTTGGAGCTGAGCGTAGTCGAA
* * * * *
216451 CTCGAAGGTCTTTTGG-TGACATATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATATGCCC
64 CTCGAAGGT-TTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGTAAATGATATGCCC
* **
216515 TCGAAGCTGAGCGTAATCGAACTCGAGATTCTTTGG
128 TCGAAGCTGAGCGTAGTCGAACTCGAGGGTCTTTGG
* * * * *
216551 CAGATAGCCCTTCTCGACTTAAGCTGTGCTGCAAATGATGTGTCTTAGAGCTGAGCGTAGTCGAA
1 CAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGA--TGCCTTGGAGCTGAGCGTAGTCGAA
* * * * *
216616 CTCGAAGGTATTTGGTTGGCAGATAACCCTTCTCGACTTATGTTATGCTGCAAATGATATACCTT
64 CTCGAAGGTTTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGTAAATGATATGCCCT
* * * *
216681 AG-AGCTGAGCGTAGTCAAACTCGAAGGACTTTTGGTG
129 CGAAGCTGAGCGTAGTCGAACTCGAGGGTC-TTT-G-G
* * * * * * *
216718 ATAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGCGTAGTCG
1 -CAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGA--TG-CCTTGGAGCTGAGCGTAGTCG
* * * **
216783 AACTCGAGGGTCTTTGG-T---AGATAACCCTTCTCGACTTAAGATATGCTACAAATGATATG-C
62 AACTCGAAGGTTTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGTAAATGATATGCC
* * * * *
216843 CTTGGAGCTGAGCGTAGTCAAACTCGAAGGTATTTGGTTGG
127 CTCGAAGCTGAGCGTAGTCGAACTCG-AGG-GTCT--TTGG
* *
216884 CATATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTTAGAGCTGAGCGTAGTCGAA
1 CAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATG--ATGCCTTGGAGCTGAGCGTAGTCGAA
* * * * * * *
216949 CTCGAAGGTCTTTTGG-TGACAGATAACCCTTATAGCCTTGAGTTATGCTCTAAATGATGTGCCC
64 CTCGAAGGT-TTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGTAAATGATATGCCC
* *
217013 TCGAAGCTGAGCGTAGTTGAACTCAAGGGTCTTTGG
128 TCGAAGCTGAGCGTAGTCGAACTCGAGGGTCTTTGG
* * *
217049 TAGATAGCCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGAAGCTGAGCGTAGTCGAA
1 CAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGA--TGCCTTGGAGCTGAGCGTAGTCGAA
* * * * *
217114 CTCGAAGGTCTTTGGTTGGCAGATAACCTTTCTCGATTTAAGTTATGCTGAAAATGATGTGCCCT
64 CTCGAAGGTTTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGTAAATGATATGCCCT
*
217179 CGAAGCTGAGCGTAGTCGAACTCGAGGGTTTTTGG
129 CGAAGCTGAGCGTAGTCGAACTCGAGGGTCTTTGG
* * * * *
217214 CAGATAACCCTTCTTGACTTAAGCTATGCTGCAAATGATATGCCTTGGAGCTGAGCTTGGTCAAA
1 CAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATG--ATGCCTTGGAGCTGAGCGTAGTCGAA
*
217279 CTCGAAGG-TCTTGG-TGGCAGATA
64 CTCGAAGGTTTTTGGTTGGCAGATA
217302 GCTCTTCTGG
Statistics
Matches: 1015, Mismatches: 185, Indels: 96
0.78 0.14 0.07
Matches are distributed among these distances:
162 1 0.00
163 99 0.10
164 167 0.16
165 484 0.48
166 8 0.01
167 43 0.04
168 134 0.13
169 78 0.08
170 1 0.00
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.30
Consensus pattern (163 bp):
CAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGCCTTGGAGCTGAGCGTAGTCGAACT
CGAAGGTTTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGTAAATGATATGCCCTCG
AAGCTGAGCGTAGTCGAACTCGAGGGTCTTTGG
Found at i:216629 original size:249 final size:249
Alignment explanation
Indices: 215890--217331 Score: 2038
Period size: 249 Copynumber: 5.8 Consensus size: 249
215880 ATTTTATTGA
* * * * * *
215890 CAGATAACCCTTCTTGCCTTGAGTTATTCTGTAAATGATGTGCCCTT-GAAGTTGAGCGTAGTCG
1 CAGATAACCCTTCTCGACTTAAGTTATGCTGTAAATGATATG-CCTTAG-AGCTGAGCGTAGTCG
*
215954 AACTCGAAGGTC-TTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGGTGTGCC
64 AACTCGAAGGTCTTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCC
* * *
216018 CTCGAAGCTGAGTGTAATCGAACTCGAGGGTCTTTGGCAGATAGCCGTTCTCGACTTAAGCTATG
129 CTCGAAGCTGAGCGTAGTCGAACTCGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATG
** * *
216083 CTGCAAATGATGCACATTGGAGCTGAGCGTAGTCGAACTCGAAGGTTTTTGGTTGG
194 CTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTATTTGGTTGG
* * * *
216139 TAGATAACCCTTCTCGATTTAAGTTATGCTGTAAATGATATGCCTTGGAGCTGAGCATAGTCGAA
1 CAGATAACCCTTCTCGACTTAAGTTATGCTGTAAATGATATGCCTTAGAGCTGAGCGTAGTCGAA
* *
216204 CTCGAAGGTC-TTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATACTGTAAATAATGTGCCCT
66 CTCGAAGGTCTTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCT
*
216268 CGAAGCTGAGCGTAGTTGAACTCGAGGG-CTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCT
131 CGAAGCTGAGCGTAGTCGAACTCGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCT
* * * *
216332 GCAAATGATATGTCTTGGAGTTGAGCGTAGTCGAACTCAAAGGTATTTGGTTGG
196 GCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTATTTGGTTGG
* * *
216386 CAGATAACCCTTCTCGACTTAAGTTATGCTATAAATGATATGCTTTAGAGATGAGCGTAGTCGAA
1 CAGATAACCCTTCTCGACTTAAGTTATGCTGTAAATGATATGCCTTAGAGCTGAGCGTAGTCGAA
* *
216451 CTCGAAGGTCTTTTGGTGACATATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATATGCCCT
66 CTCGAAGGTCTTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCT
* ** *
216516 CGAAGCTGAGCGTAATCGAACTCGAGATTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTGTGCT
131 CGAAGCTGAGCGTAGTCGAACTCGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCT
* *
216581 GCAAATGATGTGTCTTAGAGCTGAGCGTAGTCGAACTCGAAGGTATTTGGTTGG
196 GCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTATTTGGTTGG
* * * *
216635 CAGATAACCCTTCTCGACTTATGTTATGCTGCAAATGATATACCTTAGAGCTGAGCGTAGTCAAA
1 CAGATAACCCTTCTCGACTTAAGTTATGCTGTAAATGATATGCCTTAGAGCTGAGCGTAGTCGAA
* *
216700 CTCGAAGGACTTTTGGTGATAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCT
66 CTCGAAGGTCTTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCT
* * *
216765 CGAAGCTGAGCGTAGTCGAACTCGAGGGTCTTTGGTAGATAACCCTTCTCGACTTAAGATATGCT
131 CGAAGCTGAGCGTAGTCGAACTCGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCT
* * *
216830 ACAAATGATATGCCTTGGAGCTGAGCGTAGTCAAACTCGAAGGTATTTGGTTGG
196 GCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTATTTGGTTGG
* *
216884 CATATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTTAGAGCTGAGCGTAGTCGAA
1 CAGATAACCCTTCTCGACTTAAGTTATGCTGTAAATGATATGCCTTAGAGCTGAGCGTAGTCGAA
* *
216949 CTCGAAGGTCTTTTGGTGACAGATAACCCTTATAGCCTTGAGTTATGCTCTAAATGATGTGCCCT
66 CTCGAAGGTCTTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCT
* * * *
217014 CGAAGCTGAGCGTAGTTGAACTCAAGGGTCTTTGGTAGATAGCCCTTCTCGACTTAAGTTATGCT
131 CGAAGCTGAGCGTAGTCGAACTCGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCT
* *
217079 GCAAATGATGTGCCTTGAAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGG
196 GCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTATTTGGTTGG
* * * * * *
217133 CAGATAACCTTTCTCGATTTAAGTTATGCTGAAAATGATGTGCCCTCGAAGCTGAGCGTAGTCGA
1 CAGATAACCCTTCTCGACTTAAGTTATGCTGTAAATGATATGCCTTAG-AGCTGAGCGTAGTCGA
* * * * * * *
217198 ACTCGAGGGT-TTTT-G-G-CAGATAACCCTTCTTGACTTAAGCTATGCTGCAAATGATATG-CC
65 ACTCGAAGGTCTTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCC
* * * * * * * * * * *
217258 TTGGAGCTGAGCTTGGTCAAACTCGAAGGTCTTGGTGGCAGATAGCTCTTCTGGCCTTGAGCTAA
130 TCGAAGCTGAGCGTAGTCGAACTCGAGGGTCTT--TGGCAGATAGCCCTTCTCGACTTAAGCTAT
217323 GCTGCAAAT
193 GCTGCAAAT
217332 AGTTTGTTTA
Statistics
Matches: 1072, Mismatches: 115, Indels: 14
0.89 0.10 0.01
Matches are distributed among these distances:
245 27 0.03
246 34 0.03
247 182 0.17
248 180 0.17
249 624 0.58
250 25 0.02
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (249 bp):
CAGATAACCCTTCTCGACTTAAGTTATGCTGTAAATGATATGCCTTAGAGCTGAGCGTAGTCGAA
CTCGAAGGTCTTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCT
CGAAGCTGAGCGTAGTCGAACTCGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCT
GCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTATTTGGTTGG
Found at i:219917 original size:18 final size:18
Alignment explanation
Indices: 219865--219905 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
219855 AGCCATTTGA
219865 TCCTCTGG-TCGTGCTTGT
1 TCCTCTGGAT-GTGCTTGT
219883 TCCTCTGGATGTGCTTGT
1 TCCTCTGGATGTGCTTGT
219901 TCCTC
1 TCCTC
219906 GTGTTGTTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 21 0.95
19 1 0.05
ACGTcount: A:0.02, C:0.29, G:0.24, T:0.44
Consensus pattern (18 bp):
TCCTCTGGATGTGCTTGT
Found at i:220464 original size:34 final size:30
Alignment explanation
Indices: 220426--220494 Score: 95
Period size: 30 Copynumber: 2.2 Consensus size: 30
220416 TTGATATAAC
220426 AATTTAAGGCAAAATGGTTTTTGGACTTGAATTG
1 AATTTAA--CAAAAT-GTTTTTGGACTT-AATTG
220460 AATTT-ACAAAATGTTTTTGGACTTAATTG
1 AATTTAACAAAATGTTTTTGGACTTAATTG
220489 AATTTA
1 AATTTA
220495 TTCAAAGTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
29 10 0.29
30 12 0.35
31 6 0.18
33 1 0.03
34 5 0.15
ACGTcount: A:0.35, C:0.06, G:0.17, T:0.42
Consensus pattern (30 bp):
AATTTAACAAAATGTTTTTGGACTTAATTG
Done.