Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D06
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: 62964862
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 132689 characters in sequence are not A, C, G, or T
File 184 of 207
Found at i:56239615 original size:19 final size:19
Alignment explanation
Indices: 56239591--56239653 Score: 63
Period size: 19 Copynumber: 3.3 Consensus size: 19
56239581 TCTAATTAAG
56239591 TAATAACTCTATTTTACTT
1 TAATAACTCTATTTTACTT
* * ** ***
56239610 TAATAAGTTTATTAAAAAG
1 TAATAACTCTATTTTACTT
56239629 TAATAACTCTATTTTACTT
1 TAATAACTCTATTTTACTT
56239648 TAATAA
1 TAATAA
56239654 ATTATTGCTT
Statistics
Matches: 30, Mismatches: 14, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.41, C:0.10, G:0.03, T:0.46
Consensus pattern (19 bp):
TAATAACTCTATTTTACTT
Found at i:56241168 original size:26 final size:27
Alignment explanation
Indices: 56241115--56241168 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
56241105 TTTTTTTTGT
**
56241115 ATATTTTGGTAAATAAAAAAATTTATA
1 ATATTTTGGTAAATAAAAAAATGGATA
56241142 ATATTTTGGTAAATAAAAAAA-GGATA
1 ATATTTTGGTAAATAAAAAAATGGATA
56241168 A
1 A
56241169 CATTATAGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 4 0.16
27 21 0.84
ACGTcount: A:0.54, C:0.00, G:0.11, T:0.35
Consensus pattern (27 bp):
ATATTTTGGTAAATAAAAAAATGGATA
Found at i:56242028 original size:23 final size:25
Alignment explanation
Indices: 56242000--56242064 Score: 71
Period size: 25 Copynumber: 2.7 Consensus size: 25
56241990 ATTTAATACA
**
56242000 ACAAGTTAC-T-TATTTTAATTGTG
1 ACAAGTTACATGTATTAAAATTGTG
**
56242023 ACAAGTGGCATGTATTAAAATTGTG
1 ACAAGTTACATGTATTAAAATTGTG
*
56242048 ACAAGTTACATATATTA
1 ACAAGTTACATGTATTA
56242065 CATATATTTA
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
23 7 0.21
24 1 0.03
25 25 0.76
ACGTcount: A:0.37, C:0.09, G:0.15, T:0.38
Consensus pattern (25 bp):
ACAAGTTACATGTATTAAAATTGTG
Found at i:56243229 original size:4 final size:4
Alignment explanation
Indices: 56243220--56243244 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
56243210 TTATTAATCT
56243220 ATAC ATAC ATAC ATAC ATAC ATAC A
1 ATAC ATAC ATAC ATAC ATAC ATAC A
56243245 ATTAGGTTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.52, C:0.24, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAC
Found at i:56247720 original size:12 final size:13
Alignment explanation
Indices: 56247696--56247724 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
56247686 GGGCTATAAC
56247696 TATTGCATTTATT
1 TATTGCATTTATT
56247709 TATTGC-TTTATT
1 TATTGCATTTATT
56247721 TATT
1 TATT
56247725 CATGTATGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.21, C:0.07, G:0.07, T:0.66
Consensus pattern (13 bp):
TATTGCATTTATT
Found at i:56251870 original size:4 final size:4
Alignment explanation
Indices: 56251861--56251896 Score: 72
Period size: 4 Copynumber: 9.0 Consensus size: 4
56251851 TGGTTTTCCC
56251861 CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT
1 CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT
56251897 TTGTTGCAGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (4 bp):
CTTT
Found at i:56259632 original size:39 final size:39
Alignment explanation
Indices: 56259578--56259655 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
56259568 GTCAAGACAA
56259578 AGATTGAAAATCTAATGGCCTATGAAAAAGCAGAAAACT
1 AGATTGAAAATCTAATGGCCTATGAAAAAGCAGAAAACT
56259617 AGATTGAAAATCTAATGGCCTATGAAAAAGCAGAAAACT
1 AGATTGAAAATCTAATGGCCTATGAAAAAGCAGAAAACT
56259656 TGAAACGGTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.49, C:0.13, G:0.18, T:0.21
Consensus pattern (39 bp):
AGATTGAAAATCTAATGGCCTATGAAAAAGCAGAAAACT
Found at i:56260664 original size:18 final size:18
Alignment explanation
Indices: 56260641--56260683 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
56260631 GAATGAGTTT
56260641 TTAATTAAATAAATTT-AA
1 TTAATTAAA-AAATTTAAA
* *
56260659 TTAATTGAAAATTTTAAA
1 TTAATTAAAAAATTTAAA
56260677 TTAATTA
1 TTAATTA
56260684 CACCCTGAAC
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (18 bp):
TTAATTAAAAAATTTAAA
Found at i:56270486 original size:109 final size:105
Alignment explanation
Indices: 56270281--56270487 Score: 267
Period size: 109 Copynumber: 1.9 Consensus size: 105
56270271 ATAATATTGA
* **
56270281 TTGAAAGTTAAGAAGATATTTAGCTATTTGGTCGAACGAGCAATCGAAACCCAGCACGTTAGGGC
1 TTGAAAGTTAAAAAGATATTTAGCTATTTGGTCGAACGAAAAATCGAAACCCAGCACGTTAGGGC
* *
56270346 ACGTTCTCTCAAATTTTTAAATGCGAAACATTGCCTCATT
66 ACGTTCTCTCAAATTTTCAAACGCGAAACATTGCCTCATT
56270386 TTGAAAGTTTAAAAAGGATATTT-GACTATTTGGTCGAACGAAAAAAATCGAAACCCAGCACGTT
1 TTGAAAG-TTAAAAA-GATATTTAG-CTATTTGGTCGAACG--AAAAATCGAAACCCAGCACGTT
* *
56270450 AGGGCACGTTTTCTC-GATTTTCCAAACGC-AAGACATTG
61 AGGGCACGTTCTCTCAAATTTT-CAAACGCGAA-ACATTG
56270488 TCTTATTTAG
Statistics
Matches: 88, Mismatches: 7, Indels: 10
0.84 0.07 0.10
Matches are distributed among these distances:
105 7 0.08
106 7 0.08
107 22 0.25
108 7 0.08
109 45 0.51
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.29
Consensus pattern (105 bp):
TTGAAAGTTAAAAAGATATTTAGCTATTTGGTCGAACGAAAAATCGAAACCCAGCACGTTAGGGC
ACGTTCTCTCAAATTTTCAAACGCGAAACATTGCCTCATT
Found at i:56272249 original size:28 final size:29
Alignment explanation
Indices: 56272217--56272271 Score: 85
Period size: 28 Copynumber: 1.9 Consensus size: 29
56272207 TTTAGGGAGG
*
56272217 TTAAAGTGCAATTTTAT-TATATATTAAT
1 TTAAAGTGCAAGTTTATATATATATTAAT
*
56272245 TTAAAGTGCAAGTTTATATATTTATTA
1 TTAAAGTGCAAGTTTATATATATATTA
56272272 GTAATTTTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 16 0.67
29 8 0.33
ACGTcount: A:0.38, C:0.04, G:0.09, T:0.49
Consensus pattern (29 bp):
TTAAAGTGCAAGTTTATATATATATTAAT
Found at i:56272776 original size:22 final size:22
Alignment explanation
Indices: 56272727--56272778 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
56272717 TCATTAACAA
* *
56272727 TAAAATAGTAGCAACATAATAG
1 TAAAATAGTAGCAAAACAATAG
*
56272749 TGAAATAGTAGCAAAACAATGAG
1 TAAAATAGTAGCAAAACAAT-AG
56272772 -AAAATAG
1 TAAAATAG
56272779 CAATAAAACA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
22 23 0.92
23 2 0.08
ACGTcount: A:0.56, C:0.08, G:0.17, T:0.19
Consensus pattern (22 bp):
TAAAATAGTAGCAAAACAATAG
Found at i:56277014 original size:26 final size:26
Alignment explanation
Indices: 56276985--56277046 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 26
56276975 TACCCTCAAC
*
56276985 AAAATTTTGACGAGTTTAC-CGTTGGT
1 AAAATTTTGACGAGTTTACTC-CTGGT
* * *
56277011 AAAACTTTGACGATTTTGCTCCTGGT
1 AAAATTTTGACGAGTTTACTCCTGGT
56277037 AAAATTTTGA
1 AAAATTTTGA
56277047 AAAAATATGT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
26 29 0.97
27 1 0.03
ACGTcount: A:0.29, C:0.13, G:0.19, T:0.39
Consensus pattern (26 bp):
AAAATTTTGACGAGTTTACTCCTGGT
Found at i:56277197 original size:6 final size:6
Alignment explanation
Indices: 56277186--56277218 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
56277176 ATGATTGCAA
*
56277186 ATTTCC ATTTCC ATTT-C ATTTTC ATTTCC ATTT
1 ATTTCC ATTTCC ATTTCC ATTTCC ATTTCC ATTT
56277219 TTGAAAACCT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
5 5 0.20
6 20 0.80
ACGTcount: A:0.18, C:0.24, G:0.00, T:0.58
Consensus pattern (6 bp):
ATTTCC
Found at i:56277208 original size:12 final size:12
Alignment explanation
Indices: 56277186--56277219 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
56277176 ATGATTGCAA
*
56277186 ATTTCCATTTCC
1 ATTTCCATTTTC
56277198 ATTT-CATTTTC
1 ATTTCCATTTTC
56277209 ATTTCCATTTT
1 ATTTCCATTTT
56277220 TGAAAACCTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.18, C:0.24, G:0.00, T:0.59
Consensus pattern (12 bp):
ATTTCCATTTTC
Found at i:56277211 original size:17 final size:17
Alignment explanation
Indices: 56277186--56277218 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
56277176 ATGATTGCAA
56277186 ATTTCCATTTCCATTTC
1 ATTTCCATTTCCATTTC
*
56277203 ATTTTCATTTCCATTT
1 ATTTCCATTTCCATTT
56277219 TTGAAAACCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.18, C:0.24, G:0.00, T:0.58
Consensus pattern (17 bp):
ATTTCCATTTCCATTTC
Found at i:56281904 original size:8 final size:8
Alignment explanation
Indices: 56281891--56281963 Score: 58
Period size: 8 Copynumber: 8.9 Consensus size: 8
56281881 TTTTGAAAAT
56281891 TAAATTTA
1 TAAATTTA
*
56281899 TAAATTTT
1 TAAATTTA
**
56281907 TAGTTTTTA
1 TA-AATTTA
*
56281916 TATATTTA
1 TAAATTTA
*
56281924 TACATTTA
1 TAAATTTA
*
56281932 TACATTTATA
1 TA-AATT-TA
56281942 TAAATTTA
1 TAAATTTA
56281950 TAAA-TTA
1 TAAATTTA
56281957 TAAATTT
1 TAAATTT
56281964 TATATTTTTT
Statistics
Matches: 52, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
7 7 0.13
8 31 0.60
9 10 0.19
10 4 0.08
ACGTcount: A:0.41, C:0.03, G:0.01, T:0.55
Consensus pattern (8 bp):
TAAATTTA
Found at i:56281950 original size:26 final size:24
Alignment explanation
Indices: 56281891--56281968 Score: 66
Period size: 26 Copynumber: 3.0 Consensus size: 24
56281881 TTTTGAAAAT
* * *
56281891 TAAATTTATAAATTTTTAGTTTTTA
1 TAAATTTAT-AATTTATAATTTATA
*
56281916 TATATTTATACATTTATACATTTATA
1 TAAATTTATA-ATTTATA-ATTTATA
*
56281942 TAAATTTATAAATTATAAATTTTATA
1 TAAATTTATAATTTAT-AA-TTTATA
56281968 T
1 T
56281969 TTTTTAAAAT
Statistics
Matches: 43, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
24 1 0.02
25 20 0.47
26 22 0.51
ACGTcount: A:0.41, C:0.03, G:0.01, T:0.55
Consensus pattern (24 bp):
TAAATTTATAATTTATAATTTATA
Found at i:56282020 original size:24 final size:25
Alignment explanation
Indices: 56281988--56282034 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
56281978 TATTGTAGGA
*
56281988 TTTTATATAATTTTA-ATTGTATACG
1 TTTTATATAAATTTATATT-TATACG
56282013 TTTT-TATAAATTTATATTTATA
1 TTTTATATAAATTTATATTTATA
56282035 TATTTCAAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 13 0.65
25 7 0.35
ACGTcount: A:0.34, C:0.02, G:0.04, T:0.60
Consensus pattern (25 bp):
TTTTATATAAATTTATATTTATACG
Found at i:56289091 original size:28 final size:31
Alignment explanation
Indices: 56289059--56289117 Score: 79
Period size: 28 Copynumber: 2.0 Consensus size: 31
56289049 TGTTTTGTTT
56289059 TTATTATAATAACATT-AT-AAT-ATATAAA
1 TTATTATAATAACATTCATAAATAATATAAA
* *
56289087 TTATTATTATAACCTTCATAAATAATATAAA
1 TTATTATAATAACATTCATAAATAATATAAA
56289118 AACTATATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 14 0.54
29 2 0.08
30 3 0.12
31 7 0.27
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.42
Consensus pattern (31 bp):
TTATTATAATAACATTCATAAATAATATAAA
Found at i:56292043 original size:17 final size:17
Alignment explanation
Indices: 56292021--56292093 Score: 51
Period size: 17 Copynumber: 4.4 Consensus size: 17
56292011 TTTTCTATTA
56292021 ATTAAATAAAATTTAAT
1 ATTAAATAAAATTTAAT
** *
56292038 ATTAAATTTAATCTAAT
1 ATTAAATAAAATTTAAT
* *
56292055 ATT-TATCAAAA-TAAAT
1 ATTAAAT-AAAATTTAAT
* * *
56292071 ATTAGATTAAATTTAGT
1 ATTAAATAAAATTTAAT
56292088 ATTAAA
1 ATTAAA
56292094 ATGATTAAGT
Statistics
Matches: 40, Mismatches: 13, Indels: 6
0.68 0.22 0.10
Matches are distributed among these distances:
16 11 0.28
17 29 0.73
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.42
Consensus pattern (17 bp):
ATTAAATAAAATTTAAT
Found at i:56295918 original size:6 final size:6
Alignment explanation
Indices: 56295903--56295942 Score: 62
Period size: 6 Copynumber: 6.5 Consensus size: 6
56295893 GCATTACAAA
*
56295903 AAAAAGG AAAAAG AAAAAG AAAAAG AAAAAG AAAAGG AAA
1 AAAAA-G AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAA
56295943 TAAATAAATA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
6 27 0.84
7 5 0.16
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:56301147 original size:27 final size:27
Alignment explanation
Indices: 56301117--56301172 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
56301107 AGTTCGAGAG
* *
56301117 CAATGAAGCGTCAACGAAGTGGACCAT
1 CAATGAAGCGTCAACGAAGCGGAACAT
**
56301144 CAATGATTCGTCAACGAAGCGGAACAT
1 CAATGAAGCGTCAACGAAGCGGAACAT
56301171 CA
1 CA
56301173 TCAAAACACG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.16
Consensus pattern (27 bp):
CAATGAAGCGTCAACGAAGCGGAACAT
Found at i:56310927 original size:22 final size:22
Alignment explanation
Indices: 56310899--56310944 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 22
56310889 TAATGAAATG
56310899 ATAGC-AAAATAGTGAAAAAAAA
1 ATAGCAAAAATAGT-AAAAAAAA
56310921 ATAGCAATAAAATAGTAAAAAAAA
1 ATAGC-A-AAAATAGTAAAAAAAA
56310945 CAACAGTTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
22 5 0.24
24 8 0.38
25 8 0.38
ACGTcount: A:0.70, C:0.04, G:0.11, T:0.15
Consensus pattern (22 bp):
ATAGCAAAAATAGTAAAAAAAA
Found at i:56319373 original size:39 final size:39
Alignment explanation
Indices: 56319325--56319406 Score: 155
Period size: 39 Copynumber: 2.1 Consensus size: 39
56319315 AGTGTTCACC
56319325 TTTTGATTCATGATATTAATAGTAATTAATATAATTTGT
1 TTTTGATTCATGATATTAATAGTAATTAATATAATTTGT
*
56319364 TTTTGATTCATGATATTAATAGTAATTAATATAATTTTT
1 TTTTGATTCATGATATTAATAGTAATTAATATAATTTGT
56319403 TTTT
1 TTTT
56319407 CTTAAGATAA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.34, C:0.02, G:0.09, T:0.55
Consensus pattern (39 bp):
TTTTGATTCATGATATTAATAGTAATTAATATAATTTGT
Found at i:56320722 original size:10 final size:9
Alignment explanation
Indices: 56320650--56320815 Score: 57
Period size: 10 Copynumber: 18.2 Consensus size: 9
56320640 TATTATTAAG
56320650 AATTATATGA
1 AATTATAT-A
56320660 AATTATATA
1 AATTATATA
*
56320669 TCATTAT-TA
1 -AATTATATA
56320678 AATTATAT-
1 AATTATATA
*
56320686 --TTAATATT
1 AATT-ATATA
*
56320694 AATTATTTTA
1 AATTA-TATA
56320704 AATTATATA
1 AATTATATA
56320713 AATTCATATA
1 AATT-ATATA
* *
56320723 AGA--AAATT
1 A-ATTATATA
*
56320731 TATTATCA-A
1 AATTAT-ATA
*
56320740 GAATTTTATGA
1 -AATTATAT-A
56320751 AATTATATA
1 AATTATATA
56320760 TAATTAT-TA
1 -AATTATATA
56320769 AATTATAT-
1 AATTATATA
*
56320777 --TTAATATT
1 AATT-ATATA
*
56320785 AATTATTTTA
1 AATTA-TATA
56320795 AATTATATA
1 AATTATATA
56320804 AATTCATATA
1 AATT-ATATA
56320814 AA
1 AA
56320816 AAAATTTATT
Statistics
Matches: 117, Mismatches: 16, Indels: 46
0.65 0.09 0.26
Matches are distributed among these distances:
6 4 0.03
7 9 0.08
8 14 0.12
9 26 0.22
10 62 0.53
11 2 0.02
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (9 bp):
AATTATATA
Found at i:56320936 original size:91 final size:91
Alignment explanation
Indices: 56320620--56320917 Score: 524
Period size: 91 Copynumber: 3.3 Consensus size: 91
56320610 ATGATTTTAG
* * * *
56320620 TAAATTCATATAAGAACATTTATTATTAAGAATTATATGAAATTATATATCATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATAATTATTAAATTATA
56320685 TTTAATATTAATTATTTTAAATTATA
66 TTTAATATTAATTATTTTAAATTATA
56320711 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATAATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATAATTATTAAATTATA
56320776 TTTAATATTAATTATTTTAAATTATA
66 TTTAATATTAATTATTTTAAATTATA
* *
56320802 TAAATTCATATAAAAAAATTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATAATTATTAAATTATA
*
56320867 TTTAATAATAATTATTTTAAATTATA
66 TTTAATATTAATTATTTTAAATTATA
*
56320893 CAAATTCATATAAGAAAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
56320918 GTTATAATTA
Statistics
Matches: 198, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
91 198 1.00
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.46
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATAATTATTAAATTATA
TTTAATATTAATTATTTTAAATTATA
Found at i:56321010 original size:59 final size:58
Alignment explanation
Indices: 56320934--56321230 Score: 183
Period size: 59 Copynumber: 4.9 Consensus size: 58
56320924 ATTATTTTAA
*
56320934 ATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTAT
1 ATTTTA-TATATCATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTAT
* * * * * * * *
56320993 ATTTTATAGTATCATATATTATGATTTAAGTAAATTCATATAAGAA-TA--TTAATTATTAAGA
1 ATTTTATA-TATCATATATTTTAATTAAAATATATTTA-ATAATAATTATGTTAA--ATT-A-T
* * *
56321054 ATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTAT
1 ATTTTA-TATATCATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTAT
* * * ** * * * * *
56321113 ATTTTATTTTATCATATATTATGATTTGAGTAAATTCATATAAGAA-TA--TTAATTATTAAGA
1 ATTTTA-TATATCATATATTTTAATTAAAATATATTTA-ATAATAATTATGTTAA--ATT-A-T
* * *
56321174 ATTTTATTAAATTATATATTTTAATTAGAATATATTTAATAATAATTATGTTTAAAT
1 ATTTTA-TATATCATATATTTTAATTAAAATATATTTAATAATAATTATG-TTAAAT
56321231 ATGATTAAAT
Statistics
Matches: 177, Mismatches: 42, Indels: 35
0.70 0.17 0.14
Matches are distributed among these distances:
57 8 0.05
58 2 0.01
59 66 0.37
60 27 0.15
61 62 0.35
62 4 0.02
63 4 0.02
64 4 0.02
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.50
Consensus pattern (58 bp):
ATTTTATATATCATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTAT
Found at i:56321057 original size:120 final size:120
Alignment explanation
Indices: 56320933--56321230 Score: 533
Period size: 120 Copynumber: 2.5 Consensus size: 120
56320923 AATTATTTTA
*
56320933 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTT
56320998 ATAGTATCATATATTATGATTTAAGTAAATTCATATAAGAATATTAATTATTAAG
66 ATAGTATCATATATTATGATTTAAGTAAATTCATATAAGAATATTAATTATTAAG
*
56321053 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTATATTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTT
** *
56321118 ATTTTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ATAGTATCATATATTATGATTTAAGTAAATTCATATAAGAATATTAATTATTAAG
*
56321173 AATTTTATTAAATTATATATTTTAATTAGAATATATTTAATAATAATTATGTTTAAAT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATG-TTAAAT
56321231 ATGATTAAAT
Statistics
Matches: 171, Mismatches: 6, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
120 165 0.96
121 6 0.04
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTT
ATAGTATCATATATTATGATTTAAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:56321071 original size:61 final size:61
Alignment explanation
Indices: 56321006--56321193 Score: 208
Period size: 61 Copynumber: 3.1 Consensus size: 61
56320996 TTATAGTATC
56321006 ATATATTATGATTTAAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTAAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
* * * * * * ** *
56321067 ATATATTTTAATTATAA-TATATTTA-ATAATAATTATGTTAA--ATT-A-TATTTTATTTTATC
1 ATATATTATGATT-TAAGTAAATTCATATAAGAA-TA--TTAATTATTAAGAATTTTATTAAATT
*
56321126 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTAAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
56321187 ATATATT
1 ATATATT
56321194 TTAATTAGAA
Statistics
Matches: 98, Mismatches: 19, Indels: 20
0.72 0.14 0.15
Matches are distributed among these distances:
57 4 0.04
58 2 0.02
59 32 0.33
60 14 0.14
61 39 0.40
62 3 0.03
63 4 0.04
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (61 bp):
ATATATTATGATTTAAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
Found at i:56321088 original size:16 final size:16
Alignment explanation
Indices: 56321067--56321123 Score: 55
Period size: 16 Copynumber: 3.6 Consensus size: 16
56321057 TTATTAAATT
56321067 ATATATTTTAATTATA
1 ATATATTTTAATTATA
*
56321083 ATATA-TTTAATAATA
1 ATATATTTTAATTATA
*
56321098 AT-TATGTTAAATTATA
1 ATATAT-TTTAATTATA
* *
56321114 TTTTATTTTA
1 ATATATTTTA
56321124 TCATATATTA
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
14 2 0.06
15 11 0.33
16 17 0.52
17 3 0.09
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (16 bp):
ATATATTTTAATTATA
Found at i:56328154 original size:31 final size:31
Alignment explanation
Indices: 56328104--56328162 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
56328094 CAAAAGATTG
*
56328104 AAAGTACAAGGACTAAAATTGAA-CAAATCGA
1 AAAGTAAAAGGACTAAAATT-AATCAAATCGA
* *
56328135 AAAGTAAAAGGATTGAAATTAATCAAAT
1 AAAGTAAAAGGACTAAAATTAATCAAAT
56328163 TAAAATACAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 2 0.08
31 22 0.92
ACGTcount: A:0.56, C:0.08, G:0.15, T:0.20
Consensus pattern (31 bp):
AAAGTAAAAGGACTAAAATTAATCAAATCGA
Found at i:56336307 original size:7 final size:7
Alignment explanation
Indices: 56336297--56336332 Score: 63
Period size: 7 Copynumber: 5.1 Consensus size: 7
56336287 ATATATCTTA
56336297 TAATATG
1 TAATATG
56336304 TAATATG
1 TAATATG
*
56336311 TAATATA
1 TAATATG
56336318 TAATATG
1 TAATATG
56336325 TAATATG
1 TAATATG
56336332 T
1 T
56336333 GTTTGATGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.44, C:0.00, G:0.11, T:0.44
Consensus pattern (7 bp):
TAATATG
Found at i:56347517 original size:50 final size:50
Alignment explanation
Indices: 56347393--56347641 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
56347383 GATAATAACA
* * ** * *
56347393 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
56347444 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
56347494 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
56347544 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
56347599 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
56347642 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:56347571 original size:100 final size:104
Alignment explanation
Indices: 56347392--56347641 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
56347382 TGATAATAAC
**
56347392 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
56347457 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
56347494 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
56347557 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
56347599 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
56347642 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:56347757 original size:13 final size:13
Alignment explanation
Indices: 56347736--56347767 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
56347726 GCTTGGATCA
*
56347736 TCATCAAATAAAT
1 TCATAAAATAAAT
56347749 TCATAAAATAAAT
1 TCATAAAATAAAT
56347762 TCATAA
1 TCATAA
56347768 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:56348014 original size:30 final size:30
Alignment explanation
Indices: 56347979--56348036 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
56347969 CCTCGACTCT
*
56347979 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
56348009 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
56348037 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:56350009 original size:50 final size:50
Alignment explanation
Indices: 56349885--56350133 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
56349875 GATAATAACA
* * ** * *
56349885 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
56349936 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
56349986 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
56350036 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
56350091 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
56350134 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:56350063 original size:100 final size:104
Alignment explanation
Indices: 56349884--56350133 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
56349874 TGATAATAAC
**
56349884 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
56349949 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
56349986 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
56350049 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
56350091 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
56350134 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:56350249 original size:13 final size:13
Alignment explanation
Indices: 56350228--56350259 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
56350218 GCTTGGATCA
*
56350228 TCATCAAATAAAT
1 TCATAAAATAAAT
56350241 TCATAAAATAAAT
1 TCATAAAATAAAT
56350254 TCATAA
1 TCATAA
56350260 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:56350506 original size:30 final size:30
Alignment explanation
Indices: 56350471--56350528 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
56350461 CCTCGACTCT
*
56350471 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
56350501 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
56350529 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:56353836 original size:29 final size:30
Alignment explanation
Indices: 56353777--56353834 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
56353767 TCCGAGCCTT
*
56353777 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
56353807 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
56353835 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:56354064 original size:13 final size:13
Alignment explanation
Indices: 56354046--56354077 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
56354036 TTTCCAGCAA
56354046 TTATGAATTTATT
1 TTATGAATTTATT
56354059 TTATGAATTTATT
1 TTATGAATTTATT
*
56354072 TGATGA
1 TTATGA
56354078 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:56354285 original size:50 final size:50
Alignment explanation
Indices: 56354172--56354413 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
56354162 ATTTGGGTAA
* * *
56354172 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
56354228 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
56354278 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
56354328 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
56354378 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
56354414 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:56354361 original size:100 final size:103
Alignment explanation
Indices: 56354172--56354421 Score: 364
Period size: 100 Copynumber: 2.4 Consensus size: 103
56354162 ATTTGGGTAA
56354172 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
56354237 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
56354278 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
56354340 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
56354378 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
56354422 GTTATTATCA
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.38
101 39 0.29
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:56361425 original size:29 final size:30
Alignment explanation
Indices: 56361366--56361423 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
56361356 TCCGAGCCTT
*
56361366 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
56361396 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
56361424 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:56361653 original size:13 final size:13
Alignment explanation
Indices: 56361635--56361666 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
56361625 TTTCCAGCAA
56361635 TTATGAATTTATT
1 TTATGAATTTATT
56361648 TTATGAATTTATT
1 TTATGAATTTATT
*
56361661 TGATGA
1 TTATGA
56361667 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:56361874 original size:50 final size:50
Alignment explanation
Indices: 56361761--56362002 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
56361751 ATTTGGGTAA
* * *
56361761 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
56361817 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
56361867 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
56361917 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
56361967 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
56362003 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:56361950 original size:100 final size:103
Alignment explanation
Indices: 56361761--56362010 Score: 364
Period size: 100 Copynumber: 2.4 Consensus size: 103
56361751 ATTTGGGTAA
56361761 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
56361826 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
56361867 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
56361929 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
56361967 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
56362011 GTTATTATCA
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.38
101 39 0.29
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:56363914 original size:29 final size:30
Alignment explanation
Indices: 56363855--56363912 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
56363845 TCCGAGCCTT
*
56363855 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
56363885 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
56363913 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:56364142 original size:13 final size:13
Alignment explanation
Indices: 56364124--56364155 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
56364114 TTTCCAGCAA
56364124 TTATGAATTTATT
1 TTATGAATTTATT
56364137 TTATGAATTTATT
1 TTATGAATTTATT
*
56364150 TGATGA
1 TTATGA
56364156 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:56364363 original size:50 final size:50
Alignment explanation
Indices: 56364250--56364491 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
56364240 ATTTGGGTAA
* * *
56364250 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
56364306 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
56364356 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
56364406 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
56364456 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
56364492 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:56364439 original size:100 final size:103
Alignment explanation
Indices: 56364250--56364499 Score: 364
Period size: 100 Copynumber: 2.4 Consensus size: 103
56364240 ATTTGGGTAA
56364250 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
56364315 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
56364356 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
56364418 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
56364456 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
56364500 GTTATTATCA
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.38
101 39 0.29
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:56372434 original size:12 final size:12
Alignment explanation
Indices: 56372417--56372441 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
56372407 ATGATAAACG
56372417 ATGAAAATTTAA
1 ATGAAAATTTAA
56372429 ATGAAAATTTAA
1 ATGAAAATTTAA
56372441 A
1 A
56372442 CACATGTAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.00, G:0.08, T:0.32
Consensus pattern (12 bp):
ATGAAAATTTAA
Found at i:56373079 original size:13 final size:14
Alignment explanation
Indices: 56373060--56373096 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
56373050 AATTTTTTAA
56373060 AAAATATTTATT-T
1 AAAATATTTATTAT
*
56373073 TAAATATTT-TTAT
1 AAAATATTTATTAT
56373086 AAAATATTTAT
1 AAAATATTTAT
56373097 CAATATTCTA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
12 2 0.10
13 17 0.85
14 1 0.05
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (14 bp):
AAAATATTTATTAT
Found at i:56376936 original size:4 final size:4
Alignment explanation
Indices: 56376923--56376957 Score: 61
Period size: 4 Copynumber: 8.8 Consensus size: 4
56376913 CAGCCAGCAG
*
56376923 ATAC AGAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
56376958 TATATATATT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.51, C:0.23, G:0.03, T:0.23
Consensus pattern (4 bp):
ATAC
Found at i:56377469 original size:28 final size:28
Alignment explanation
Indices: 56377437--56377491 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
56377427 AATTTATTAG
*
56377437 AATTTT-ATATTTTTATATTTTTTATATC
1 AATTTTCATAATTTT-TATTTTTTATATC
56377465 AATTTTCATAATTTTTATTTTTTATAT
1 AATTTTCATAATTTTTATTTTTTATAT
56377492 TTAATATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 18 0.72
29 7 0.28
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (28 bp):
AATTTTCATAATTTTTATTTTTTATATC
Found at i:56377507 original size:30 final size:30
Alignment explanation
Indices: 56377438--56377507 Score: 81
Period size: 29 Copynumber: 2.4 Consensus size: 30
56377428 ATTTATTAGA
*
56377438 ATTTTATATTTTTATATTTTTTATATCAAT
1 ATTTTATAATTTTATATTTTTTATATCAAT
* *
56377468 -TTTCATAATTTT-TATTTTTTATATTTAAT
1 ATTTTATAATTTTATATTTTTTATA-TCAAT
*
56377497 ATTTTTTAATT
1 ATTTTATAATT
56377508 ATTTTTATTG
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
28 11 0.33
29 14 0.42
30 8 0.24
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.69
Consensus pattern (30 bp):
ATTTTATAATTTTATATTTTTTATATCAAT
Found at i:56384597 original size:14 final size:14
Alignment explanation
Indices: 56384578--56384606 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
56384568 GTCCAGCTCC
56384578 AAAACACGGAAAGT
1 AAAACACGGAAAGT
56384592 AAAACACGGAAAGT
1 AAAACACGGAAAGT
56384606 A
1 A
56384607 CCTGAAAGGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.59, C:0.14, G:0.21, T:0.07
Consensus pattern (14 bp):
AAAACACGGAAAGT
Found at i:56388012 original size:11 final size:11
Alignment explanation
Indices: 56387998--56388115 Score: 81
Period size: 11 Copynumber: 10.9 Consensus size: 11
56387988 ATTTTTTTAA
56387998 TTTTAAAATAT
1 TTTTAAAATAT
56388009 TTTTAAAATACTT
1 TTTTAAAATA--T
*
56388022 TTTTTAAAT-T
1 TTTTAAAATAT
*
56388032 TTTT----TAA
1 TTTTAAAATAT
56388039 TTTTAAAATAT
1 TTTTAAAATAT
56388050 TTTTAAAAATACTT
1 TTTT-AAAATA--T
*
56388064 TTTTAAAATTT
1 TTTTAAAATAT
56388075 TTTTAAAATACT
1 TTTTAAAATA-T
**
56388087 TTTTTTAAT-T
1 TTTTAAAATAT
56388097 TTTT-AAA-AT
1 TTTTAAAATAT
56388106 TTTTAAAATA
1 TTTTAAAATA
56388116 AAAATGGGCC
Statistics
Matches: 85, Mismatches: 8, Indels: 28
0.70 0.07 0.23
Matches are distributed among these distances:
6 1 0.01
7 4 0.05
9 7 0.08
10 13 0.15
11 27 0.32
12 14 0.16
13 14 0.16
14 5 0.06
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:56388025 original size:41 final size:41
Alignment explanation
Indices: 56387949--56388080 Score: 214
Period size: 41 Copynumber: 3.2 Consensus size: 41
56387939 AAATATATTT
* *
56387949 ATTTTTTTAATTGTAAAATATTTTT-ACATACTTTTTTT-A
1 ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTAA
56387988 ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTAA
1 ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTAA
*
56388029 ATTTTTTTAATTTTAAAATATTTTTAAAAATACTTTTTTAAA
1 ATTTTTTTAATTTTAAAATATTTTT-AAAATACTTTTTTTAA
56388071 ATTTTTTTAA
1 ATTTTTTTAA
56388081 AATACTTTTT
Statistics
Matches: 87, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
39 24 0.28
40 12 0.14
41 26 0.30
42 25 0.29
ACGTcount: A:0.36, C:0.03, G:0.01, T:0.61
Consensus pattern (41 bp):
ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTAA
Found at i:56388047 original size:17 final size:17
Alignment explanation
Indices: 56388022--56388055 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
56388012 TAAAATACTT
* *
56388022 TTTTTAAATTTTTTTAA
1 TTTTAAAATATTTTTAA
56388039 TTTTAAAATATTTTTAA
1 TTTTAAAATATTTTTAA
56388056 AAATACTTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TTTTAAAATATTTTTAA
Found at i:56388071 original size:25 final size:24
Alignment explanation
Indices: 56388039--56388104 Score: 98
Period size: 24 Copynumber: 2.8 Consensus size: 24
56388029 ATTTTTTTAA
56388039 TTTTAAAATATTTTTAAAAATACTT
1 TTTTAAAAT-TTTTTAAAAATACTT
*
56388064 TTTTAAAATTTTTTTAAAATACTT
1 TTTTAAAATTTTTTAAAAATACTT
*
56388088 TTTT-TAATTTTTTAAAA
1 TTTTAAAATTTTTTAAAA
56388105 TTTTTAAAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
23 11 0.29
24 18 0.47
25 9 0.24
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (24 bp):
TTTTAAAATTTTTTAAAAATACTT
Found at i:56389368 original size:15 final size:16
Alignment explanation
Indices: 56389348--56389383 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
56389338 TCAAAATATA
56389348 AATTTATCATTT-ATT
1 AATTTATCATTTCATT
*
56389363 AATTTATGATTTCATT
1 AATTTATCATTTCATT
56389379 AATTT
1 AATTT
56389384 TGAAGAGATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 11 0.58
16 8 0.42
ACGTcount: A:0.33, C:0.06, G:0.03, T:0.58
Consensus pattern (16 bp):
AATTTATCATTTCATT
Found at i:56392503 original size:22 final size:22
Alignment explanation
Indices: 56392478--56392523 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
56392468 CAAACAGAAA
*
56392478 CAAACCCAAAACAAATCAAATC
1 CAAACACAAAACAAATCAAATC
*
56392500 CAAACACAAAATAAATCAAATC
1 CAAACACAAAACAAATCAAATC
56392522 CA
1 CA
56392524 TTAAGCCAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.61, C:0.28, G:0.00, T:0.11
Consensus pattern (22 bp):
CAAACACAAAACAAATCAAATC
Found at i:56392508 original size:17 final size:16
Alignment explanation
Indices: 56392468--56392509 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
56392458 CGGGCCCAGG
*
56392468 CAAACAGAAACAAACC
1 CAAACACAAACAAACC
*
56392484 CAAA-ACAAATCAAATC
1 CAAACACAAA-CAAACC
56392500 CAAACACAAA
1 CAAACACAAA
56392510 ATAAATCAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
15 4 0.18
16 13 0.59
17 5 0.23
ACGTcount: A:0.64, C:0.29, G:0.02, T:0.05
Consensus pattern (16 bp):
CAAACACAAACAAACC
Found at i:56393597 original size:25 final size:25
Alignment explanation
Indices: 56393549--56393597 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
56393539 ACTGTTATTT
* * * *
56393549 TATTATATATTTCTATTATTTTTAG
1 TATTATAGATTGCTATCATATTTAG
56393574 TATTATAGATTGCTATCATATTTA
1 TATTATAGATTGCTATCATATTTA
56393598 TTTATACTTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.31, C:0.06, G:0.06, T:0.57
Consensus pattern (25 bp):
TATTATAGATTGCTATCATATTTAG
Found at i:56393708 original size:27 final size:27
Alignment explanation
Indices: 56393641--56393708 Score: 68
Period size: 25 Copynumber: 2.6 Consensus size: 27
56393631 ATTTTACTAC
56393641 ATATTATTTTAAAATTACTTTTATATA
1 ATATTATTTTAAAATTACTTTTATATA
* * ** *
56393668 GTTTTA-TTCCAAATT-GTTTTATATA
1 ATATTATTTTAAAATTACTTTTATATA
56393693 ATAATTATTTTAAAAT
1 AT-ATTATTTTAAAAT
56393709 CATCCTATAC
Statistics
Matches: 30, Mismatches: 9, Indels: 4
0.70 0.21 0.09
Matches are distributed among these distances:
25 10 0.33
26 10 0.33
27 10 0.33
ACGTcount: A:0.38, C:0.04, G:0.03, T:0.54
Consensus pattern (27 bp):
ATATTATTTTAAAATTACTTTTATATA
Found at i:56400806 original size:16 final size:16
Alignment explanation
Indices: 56400782--56400812 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
56400772 TGTTAAAATT
*
56400782 TATGTAAAATTTTTAA
1 TATGCAAAATTTTTAA
56400798 TATGCAAAATTTTTA
1 TATGCAAAATTTTTA
56400813 TCGAATATAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.48
Consensus pattern (16 bp):
TATGCAAAATTTTTAA
Found at i:56404186 original size:16 final size:16
Alignment explanation
Indices: 56404141--56404188 Score: 60
Period size: 16 Copynumber: 3.0 Consensus size: 16
56404131 TGAATTACTT
* *
56404141 GTTCAGGTCATTTCAG
1 GTTCAAGTCATTTTAG
* *
56404157 GTTAAAGTCATTTTGG
1 GTTCAAGTCATTTTAG
56404173 GTTCAAGTCATTTTAG
1 GTTCAAGTCATTTTAG
56404189 ATTTGGGTCA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.23, C:0.12, G:0.23, T:0.42
Consensus pattern (16 bp):
GTTCAAGTCATTTTAG
Found at i:56412220 original size:41 final size:41
Alignment explanation
Indices: 56412163--56412338 Score: 307
Period size: 41 Copynumber: 4.3 Consensus size: 41
56412153 GTTTGAAATT
*
56412163 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGTC
1 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
56412204 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
*
56412245 GGTGATCTGAATCAGGCTATAAGCCTAGTAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
* * *
56412286 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
56412327 GGTGATCTGAAT
1 GGTGATCTGAAT
56412339 ATGTTAAATT
Statistics
Matches: 128, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 128 1.00
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (41 bp):
GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
Found at i:56416318 original size:13 final size:13
Alignment explanation
Indices: 56416300--56416324 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
56416290 TAATTTATAT
56416300 GTGTGAAAATTTC
1 GTGTGAAAATTTC
56416313 GTGTGAAAATTT
1 GTGTGAAAATTT
56416325 TATCGTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:56417479 original size:44 final size:42
Alignment explanation
Indices: 56417412--56417529 Score: 148
Period size: 42 Copynumber: 2.8 Consensus size: 42
56417402 TATGTGATAT
* *
56417412 CGTGTAAGACCACGTCTGGGACATTGGCATC-AATTTGGGATTTA
1 CGTGTAAGACCATGTCTGGGACATTGGCATCGAATAT--GA-TTA
* *
56417456 CGTGTAAGACCATGTCTGAGACATTGGCATCGTATATGATTA
1 CGTGTAAGACCATGTCTGGGACATTGGCATCGAATATGATTA
* *
56417498 CGTGTAAGACCCTGTCTGGGACAGTGGCATCG
1 CGTGTAAGACCATGTCTGGGACATTGGCATCG
56417530 TTATTTGATA
Statistics
Matches: 66, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
42 32 0.48
43 2 0.03
44 29 0.44
45 3 0.05
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (42 bp):
CGTGTAAGACCATGTCTGGGACATTGGCATCGAATATGATTA
Found at i:56420797 original size:25 final size:25
Alignment explanation
Indices: 56420769--56420816 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
56420759 TTTATATCAG
* *
56420769 ATCAGACCATAGCATATCATATCGA
1 ATCAAACCATAGCATAACATATCGA
*
56420794 ATCAAATCATAGCATAACATATC
1 ATCAAACCATAGCATAACATATC
56420817 ATATCCTACC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.44, C:0.23, G:0.08, T:0.25
Consensus pattern (25 bp):
ATCAAACCATAGCATAACATATCGA
Found at i:56423081 original size:23 final size:23
Alignment explanation
Indices: 56423047--56423091 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
56423037 GATATATTGC
*
56423047 ATTATATAATATTAAGGTAAAAT
1 ATTATATAATATTAAGCTAAAAT
*
56423070 ATTA-ATACATATTGAGCTAAAA
1 ATTATATA-ATATTAAGCTAAAA
56423092 ATGCTAAGTG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 3 0.16
23 16 0.84
ACGTcount: A:0.51, C:0.04, G:0.09, T:0.36
Consensus pattern (23 bp):
ATTATATAATATTAAGCTAAAAT
Found at i:56434141 original size:41 final size:41
Alignment explanation
Indices: 56434049--56434141 Score: 98
Period size: 41 Copynumber: 2.2 Consensus size: 41
56434039 TACATATATT
* *
56434049 TAAAAATAATATATAATAAATAAAAAATGTATGATTTGAAAT
1 TAAAAA-ATTATATAATAAATAAAAAATGTATGATTTGAAAA
** * * *
56434091 TAATTAATTATATAATATATTAAATATGTATGATATT-AAAA
1 TAAAAAATTATATAATAAATAAAAAATGTATGAT-TTGAAAA
56434132 TAAAAAATTA
1 TAAAAAATTA
56434142 GATTAAATTA
Statistics
Matches: 41, Mismatches: 9, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
41 35 0.85
42 6 0.15
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (41 bp):
TAAAAAATTATATAATAAATAAAAAATGTATGATTTGAAAA
Found at i:56434271 original size:23 final size:21
Alignment explanation
Indices: 56434245--56434288 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
56434235 CTTATGACAC
*
56434245 TAATTCAATAAAATAACATTTTT
1 TAATT-AAGAAAAT-ACATTTTT
*
56434268 TAATTACGAAAATACATTTTT
1 TAATTAAGAAAATACATTTTT
56434289 CATATTTTCC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 8 0.42
22 6 0.32
23 5 0.26
ACGTcount: A:0.45, C:0.09, G:0.02, T:0.43
Consensus pattern (21 bp):
TAATTAAGAAAATACATTTTT
Found at i:56438464 original size:48 final size:48
Alignment explanation
Indices: 56438409--56438504 Score: 147
Period size: 48 Copynumber: 2.0 Consensus size: 48
56438399 AATTTGATTA
* * * *
56438409 TCGATAAAAGTAAGTGTTGGTATATGACAATTTATTTGTAGTTATATG
1 TCGATAAAAGTAAGTATGGGTATATAACAATTTATTTATAGTTATATG
*
56438457 TCGATAAAAGTAAGTATGGGTGTATAACAATTTATTTATAGTTATATG
1 TCGATAAAAGTAAGTATGGGTATATAACAATTTATTTATAGTTATATG
56438505 AGCACTTATA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 43 1.00
ACGTcount: A:0.35, C:0.04, G:0.20, T:0.41
Consensus pattern (48 bp):
TCGATAAAAGTAAGTATGGGTATATAACAATTTATTTATAGTTATATG
Found at i:56438573 original size:16 final size:16
Alignment explanation
Indices: 56438552--56438584 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
56438542 TTCGCTGTAT
*
56438552 TGGAATAGAGGCGTAA
1 TGGAATAGAGACGTAA
56438568 TGGAATAGAGACGTAA
1 TGGAATAGAGACGTAA
56438584 T
1 T
56438585 AGTAAATCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.39, C:0.06, G:0.33, T:0.21
Consensus pattern (16 bp):
TGGAATAGAGACGTAA
Found at i:56438628 original size:45 final size:44
Alignment explanation
Indices: 56438564--56438653 Score: 137
Period size: 45 Copynumber: 2.0 Consensus size: 44
56438554 GAATAGAGGC
56438564 GTAATGGAATAGAGACGTAATAGTAAATCAAT-TGTTTGGTTGAAT
1 GTAATGGAATAGAGACGTAATAGT-AATC-ATGTGTTTGGTTGAAT
* *
56438609 GTAATGGAATAGAGGCGTAATAGTAATCTTGTGTTTGGTTGAAT
1 GTAATGGAATAGAGACGTAATAGTAATCATGTGTTTGGTTGAAT
56438653 G
1 G
56438654 GAATAGAGGT
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
43 1 0.02
44 18 0.43
45 23 0.55
ACGTcount: A:0.33, C:0.04, G:0.28, T:0.34
Consensus pattern (44 bp):
GTAATGGAATAGAGACGTAATAGTAATCATGTGTTTGGTTGAAT
Found at i:56438836 original size:16 final size:16
Alignment explanation
Indices: 56438799--56438840 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
56438789 TTAATCATAT
*
56438799 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
56438815 TT-AAATATATTATAA
1 TTAAAATATATTATAA
56438830 TTAAAATATAT
1 TTAAAATATAT
56438841 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:56438847 original size:14 final size:15
Alignment explanation
Indices: 56438808--56438849 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
56438798 TTTAAACATA
*
56438808 ATTATTATTAAATAT
1 ATTATAATTAAATAT
56438823 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
56438837 A-TATAATTTAATA
1 ATTATAATTAAATA
56438850 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:56438899 original size:61 final size:60
Alignment explanation
Indices: 56438834--56439021 Score: 190
Period size: 61 Copynumber: 3.1 Consensus size: 60
56438824 TTATAATTAA
56438834 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATT-TTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
* * * * * * * * *
56438895 AATATATGATACT-ATAAAA-TAT-A-AATTAACATAATTATTAT-TAAATATA-TTATAATTAA
1 AATATATAAT-TTAATAAAATTTTAATAATT-A-AT-ATTCTTATATGAATTTACTCA-AATCAT
56438954 AATATATAATTTAATAAAATTATTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATT-TTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
56439015 AATATAT
1 AATATAT
56439022 GATACTATAA
Statistics
Matches: 97, Mismatches: 18, Indels: 24
0.70 0.13 0.17
Matches are distributed among these distances:
57 4 0.04
58 5 0.05
59 28 0.29
60 16 0.16
61 35 0.36
62 5 0.05
63 4 0.04
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.43
Consensus pattern (60 bp):
AATATATAATTTAATAAAATTTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
Found at i:56438960 original size:18 final size:18
Alignment explanation
Indices: 56438939--56438986 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
56438929 TTATTATTAA
56438939 ATATATTATAATTAAAAT
1 ATATATTATAATTAAAAT
56438957 ATATAATT-TAA-TAAAAT
1 ATAT-ATTATAATTAAAAT
*
56438974 -TAT-TAATAATTAA
1 ATATATTATAATTAA
56438987 TATTCTTATA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
14 1 0.04
15 3 0.12
16 6 0.23
17 6 0.23
18 7 0.27
19 3 0.12
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
ATATATTATAATTAAAAT
Found at i:56438967 original size:14 final size:15
Alignment explanation
Indices: 56438918--56438969 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
56438908 ATAAAATATA
56438918 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
56438933 TATTAAATATATTAT
1 AATTAAATATATTAT
56438948 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
56438961 AATTTAATA
1 AATTAAATA
56438970 AAATTATTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:56438975 original size:44 final size:43
Alignment explanation
Indices: 56438895--56438978 Score: 107
Period size: 43 Copynumber: 1.9 Consensus size: 43
56438885 CTCAAATCAT
* *
56438895 AATATATGATACTATAAAATATAAATTAACATAATTATTATTA
1 AATATATGATAATATAAAATATAAATTAACAAAATTATTATTA
* *
56438938 AATATATTATAAT-TAAAATATATAATTTAATAAAATTATTA
1 AATATATGATAATATAAAATATA-AA-TTAACAAAATTATTA
56438979 ATAATTAATA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
42 9 0.26
43 13 0.37
44 13 0.37
ACGTcount: A:0.55, C:0.02, G:0.01, T:0.42
Consensus pattern (43 bp):
AATATATGATAATATAAAATATAAATTAACAAAATTATTATTA
Found at i:56439015 original size:120 final size:121
Alignment explanation
Indices: 56438802--56439094 Score: 500
Period size: 120 Copynumber: 2.4 Consensus size: 121
56438792 ATCATATTTA
*
56438802 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTATTAATAATTAA
*
56438867 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT-
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAAATTG
56438922 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTATTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTATTAATAATTAA
*
56438987 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTTG
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAAATTG
* * * * *
56439043 GA-ATAATTAATATTAAATATATTTTAATTAAAATATATGACTTAATAAAATT
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
56439095 TAAAATAATT
Statistics
Matches: 164, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
120 163 0.99
121 1 0.01
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (121 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTATTAATAATTAA
TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAAATTG
Found at i:56439139 original size:44 final size:43
Alignment explanation
Indices: 56439091--56439253 Score: 125
Period size: 44 Copynumber: 3.7 Consensus size: 43
56439081 GACTTAATAA
56439091 AATTTAAAATAATTATTATTACATATAATTTAATAATAATATAT
1 AATTTAAAATAATTATTATTA-ATATAATTTAATAATAATATAT
* * * ** *
56439135 AATTTCATAA-AATTCTTAATAATA-AATTTTCTTATATGAATTTATAC
1 AATTT-AAAATAATTATTATTAATATAA-TTTAATA-AT-AA--TATAT
* *
56439182 AATTTAAAATAATTAATATTAAATATAATTTAATAATGATATAT
1 AATTTAAAATAATTATTATT-AATATAATTTAATAATAATATAT
* * *
56439226 AATTTCATAA-AATTCTTAATAATATAAT
1 AATTT-AAAATAATTATTATTAATATAAT
56439254 GTTCTTATAT
Statistics
Matches: 91, Mismatches: 18, Indels: 21
0.70 0.14 0.16
Matches are distributed among these distances:
42 2 0.02
43 16 0.18
44 32 0.35
45 8 0.09
46 4 0.04
47 18 0.20
48 9 0.10
49 2 0.02
ACGTcount: A:0.50, C:0.04, G:0.01, T:0.45
Consensus pattern (43 bp):
AATTTAAAATAATTATTATTAATATAATTTAATAATAATATAT
Found at i:56439143 original size:28 final size:28
Alignment explanation
Indices: 56439065--56439249 Score: 96
Period size: 26 Copynumber: 6.4 Consensus size: 28
56439055 TTAAATATAT
* * *
56439065 TTTAATTAA-AATATATGACTTAATAAAA
1 TTTAA-TAATAATATATAATTTCATAAAA
* * *
56439093 TTTAA-AATAAT-TATTATTACATATAA
1 TTTAATAATAATATATAATTTCATAAAA
56439119 TTTAATAATAATATATAATTTCATAAAA
1 TTTAATAATAATATATAATTTCATAAAA
*
56439147 TTCTTAATAATAAATTTTCTTATATGAATTT-ATACAA
1 -T-TTAATAAT-AA------TATAT-AATTTCATAAAA
** *
56439184 TTTAA-AATAAT-TA-ATATTAAATATAA
1 TTTAATAATAATATATA-ATTTCATAAAA
*
56439210 TTTAATAATGATATATAATTTCATAAAA
1 TTTAATAATAATATATAATTTCATAAAA
56439238 TTCTTAATAATA
1 -T-TTAATAATA
56439250 TAATGTTCTT
Statistics
Matches: 121, Mismatches: 16, Indels: 38
0.69 0.09 0.22
Matches are distributed among these distances:
24 1 0.01
25 3 0.02
26 29 0.24
27 15 0.12
28 27 0.22
29 3 0.02
30 16 0.13
31 2 0.02
33 2 0.02
34 3 0.02
35 4 0.03
36 1 0.01
37 10 0.08
38 5 0.04
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (28 bp):
TTTAATAATAATATATAATTTCATAAAA
Found at i:56439157 original size:54 final size:54
Alignment explanation
Indices: 56439044--56439148 Score: 140
Period size: 54 Copynumber: 1.9 Consensus size: 54
56439034 GATAATTTGG
* *
56439044 AATAATTAATATTAAATATATTTTAATTAAAATATATGACTTAATAAAATTTAA
1 AATAATTAATATTAAATATAATTTAATTAAAATATATAACTTAATAAAATTTAA
* * * *
56439098 AATAATTATTATTACATATAATTTAA-TAATAATATATAATTTCATAAAATT
1 AATAATTAATATTAAATATAATTTAATTAA-AATATATAACTTAATAAAATT
56439149 CTTAATAATA
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
53 3 0.07
54 41 0.93
ACGTcount: A:0.52, C:0.03, G:0.01, T:0.44
Consensus pattern (54 bp):
AATAATTAATATTAAATATAATTTAATTAAAATATATAACTTAATAAAATTTAA
Found at i:56439172 original size:91 final size:92
Alignment explanation
Indices: 56439076--56439277 Score: 316
Period size: 91 Copynumber: 2.2 Consensus size: 92
56439066 TTAATTAAAA
* * *
56439076 TATATGACTTAATAAAATTTAAAATAATTATTATTACATATAATTTAATAATAATATATAATTTC
1 TATATGAATTAATAAAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTC
*
56439141 ATAAAATTCTTAATAATA-AATTTTCT
66 ATAAAATTCTTAATAATATAATGTTCT
* * *
56439167 TATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTTC
1 TATATGAATTAATAAAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTC
56439232 ATAAAATTCTTAATAATATAATGTTCT
66 ATAAAATTCTTAATAATATAATGTTCT
*
56439259 TATATGAATTTACTAAAAT
1 TATATGAA-TTAATAAAAT
56439278 CAAAATATAA
Statistics
Matches: 99, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
91 77 0.78
92 15 0.15
93 7 0.07
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.45
Consensus pattern (92 bp):
TATATGAATTAATAAAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTC
ATAAAATTCTTAATAATATAATGTTCT
Found at i:56439245 original size:47 final size:47
Alignment explanation
Indices: 56439107--56439246 Score: 139
Period size: 47 Copynumber: 3.0 Consensus size: 47
56439097 AAATAATTAT
* *
56439107 TATTACATATAATTTAATAATAATATATAATTTCATAAAATTCTTAA
1 TATTAAATATAATTTAATAATGATATATAATTTCATAAAATTCTTAA
* * * * **
56439154 TAATAAAT-T--TTCTTAT-ATGAATTTATACAATT--TAAAATAATTAA
1 TATTAAATATAATT-TAATAATG-ATATATA-ATTTCATAAAATTCTTAA
56439198 TATTAAATATAATTTAATAATGATATATAATTTCATAAAATTCTTAA
1 TATTAAATATAATTTAATAATGATATATAATTTCATAAAATTCTTAA
56439245 TA
1 TA
56439247 ATATAATGTT
Statistics
Matches: 70, Mismatches: 14, Indels: 18
0.69 0.14 0.18
Matches are distributed among these distances:
44 21 0.30
45 13 0.19
46 13 0.19
47 23 0.33
ACGTcount: A:0.49, C:0.05, G:0.01, T:0.45
Consensus pattern (47 bp):
TATTAAATATAATTTAATAATGATATATAATTTCATAAAATTCTTAA
Found at i:56445278 original size:19 final size:19
Alignment explanation
Indices: 56445236--56445294 Score: 59
Period size: 19 Copynumber: 3.1 Consensus size: 19
56445226 AAAATTATAA
*
56445236 AAAAATTTAAAATAATTT-T
1 AAAAATTCAAAAT-ATTTAT
56445255 CAAAAATTCAAAATATTTAT
1 -AAAAATTCAAAATATTTAT
* *
56445275 AAAAACTCCAAA-ATTTAT
1 AAAAATTCAAAATATTTAT
56445293 AA
1 AA
56445295 TTTAAAAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
18 8 0.23
19 14 0.40
20 13 0.37
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.34
Consensus pattern (19 bp):
AAAAATTCAAAATATTTAT
Found at i:56445279 original size:20 final size:21
Alignment explanation
Indices: 56445230--56445288 Score: 59
Period size: 20 Copynumber: 2.9 Consensus size: 21
56445220 TCAACAAAAA
*
56445230 TTATAAAAAAATTTAAAATAAT
1 TTAT-AAAAAATTCAAAATAAT
*
56445252 TT-TCAAAAATTCAAAAT-AT
1 TTATAAAAAATTCAAAATAAT
* *
56445271 TTATAAAAACTCCAAAAT
1 TTATAAAAAATTCAAAAT
56445289 TTATAATTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
19 4 0.13
20 24 0.77
21 1 0.03
22 2 0.06
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.34
Consensus pattern (21 bp):
TTATAAAAAATTCAAAATAAT
Found at i:56445317 original size:19 final size:20
Alignment explanation
Indices: 56445293--56445340 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
56445283 CAAAATTTAT
56445293 AATTTAAAAAAATA-AAAAA
1 AATTTAAAAAAATATAAAAA
* *
56445312 AATTTAAAAATATATAAAGA
1 AATTTAAAAAAATATAAAAA
*
56445332 AAGTTAAAA
1 AATTTAAAA
56445341 TTTTAAAAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 13 0.52
20 12 0.48
ACGTcount: A:0.71, C:0.00, G:0.04, T:0.25
Consensus pattern (20 bp):
AATTTAAAAAAATATAAAAA
Found at i:56459974 original size:49 final size:49
Alignment explanation
Indices: 56459912--56460287 Score: 279
Period size: 49 Copynumber: 7.6 Consensus size: 49
56459902 AATTCAAAAT
* * **
56459912 ATTGAAGCCACAACGGCGAATCTTACTTTTGAGCGATGCAGTGGAACAG
1 ATTGAAGCCACAACAGCGAATCTCACTTCCGAGCGATGCAGTGGAACAG
* * ** ** * ** *
56459961 ATTGAAGCTACAACAACGAATCTCACTTCCTCGATATCGCAATTCAAAAG
1 ATTGAAGCCACAACAGCGAATCTCACTTCCGAGCGAT-GCAGTGGAACAG
* *
56460011 ATTGAAGCCACAACGGCGAATCTTACTTCCGAGCGATGCAGTGGAACAG
1 ATTGAAGCCACAACAGCGAATCTCACTTCCGAGCGATGCAGTGGAACAG
* * ** ** * ** *
56460060 ATTGAAGCTACAACAACGAATCTCACTTCCTCGATATCGCAATTCAAAAG
1 ATTGAAGCCACAACAGCGAATCTCACTTCCGAGCGAT-GCAGTGGAACAG
* * * * *
56460110 ATTAAAGCCACAACGGCGAATCTTACTCCCGAGCGATGCAGTGGAACGG
1 ATTGAAGCCACAACAGCGAATCTCACTTCCGAGCGATGCAGTGGAACAG
* * * * * ** *
56460159 ATTGAAGCTACAACAGCAAATCTCACCTCCCCGA-C-ATTGTAATTTAAAAG
1 ATTGAAGCCACAACAGCGAATCTCA-CT-TCCGAGCGA-TGCAGTGGAACAG
** * * * *
56460209 ATTGAAGCCACAATGGCGAATCTTACTTCCAAGTGATGCAGTGGAACGG
1 ATTGAAGCCACAACAGCGAATCTCACTTCCGAGCGATGCAGTGGAACAG
*
56460258 ATTGAAGCTACAACAGCGAATCTCACTTCC
1 ATTGAAGCCACAACAGCGAATCTCACTTCC
56460288 CCGACATTGC
Statistics
Matches: 238, Mismatches: 82, Indels: 14
0.71 0.25 0.04
Matches are distributed among these distances:
48 3 0.01
49 127 0.53
50 103 0.43
51 5 0.02
ACGTcount: A:0.34, C:0.25, G:0.20, T:0.22
Consensus pattern (49 bp):
ATTGAAGCCACAACAGCGAATCTCACTTCCGAGCGATGCAGTGGAACAG
Found at i:56460026 original size:99 final size:99
Alignment explanation
Indices: 56459855--56460336 Score: 696
Period size: 99 Copynumber: 4.9 Consensus size: 99
56459845 TACTGACAGC
* * * *
56459855 GGAACAGATTGAAGCTACAATAGCGGATCTTACTTCCCCGACATTGCAATTCAAAATATTGAAGC
1 GGAACAGATTGAAGCTACAACAGCGAATCTCACTTCCCCGACATTGCAATTCAAAAGATTGAAGC
**
56459920 CACAACGGCGAATCTTACTTTTGAGCGATGCAGT
66 CACAACGGCGAATCTTACTTCCGAGCGATGCAGT
* * * *
56459954 GGAACAGATTGAAGCTACAACAACGAATCTCACTTCCTCGATATCGCAATTCAAAAGATTGAAGC
1 GGAACAGATTGAAGCTACAACAGCGAATCTCACTTCCCCGACATTGCAATTCAAAAGATTGAAGC
56460019 CACAACGGCGAATCTTACTTCCGAGCGATGCAGT
66 CACAACGGCGAATCTTACTTCCGAGCGATGCAGT
* * * * *
56460053 GGAACAGATTGAAGCTACAACAACGAATCTCACTTCCTCGATATCGCAATTCAAAAGATTAAAGC
1 GGAACAGATTGAAGCTACAACAGCGAATCTCACTTCCCCGACATTGCAATTCAAAAGATTGAAGC
*
56460118 CACAACGGCGAATCTTACTCCCGAGCGATGCAGT
66 CACAACGGCGAATCTTACTTCCGAGCGATGCAGT
* * * * *
56460152 GGAACGGATTGAAGCTACAACAGCAAATCTCACCTCCCCGACATTGTAATTTAAAAGATTGAAGC
1 GGAACAGATTGAAGCTACAACAGCGAATCTCACTTCCCCGACATTGCAATTCAAAAGATTGAAGC
* * *
56460217 CACAATGGCGAATCTTACTTCCAAGTGATGCAGT
66 CACAACGGCGAATCTTACTTCCGAGCGATGCAGT
* * *
56460251 GGAACGGATTGAAGCTACAACAGCGAATCTCACTTCCCCGACATTGC-AGTCAAAAGATCGAAGC
1 GGAACAGATTGAAGCTACAACAGCGAATCTCACTTCCCCGACATTGCAATTCAAAAGATTGAAGC
* *
56460315 CACAACGGTGAATCTTATTTCC
66 CACAACGGCGAATCTTACTTCC
56460337 TCGGCGAGAC
Statistics
Matches: 348, Mismatches: 35, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
98 33 0.09
99 315 0.91
ACGTcount: A:0.34, C:0.25, G:0.19, T:0.22
Consensus pattern (99 bp):
GGAACAGATTGAAGCTACAACAGCGAATCTCACTTCCCCGACATTGCAATTCAAAAGATTGAAGC
CACAACGGCGAATCTTACTTCCGAGCGATGCAGT
Found at i:56466127 original size:61 final size:61
Alignment explanation
Indices: 56466032--56466153 Score: 244
Period size: 61 Copynumber: 2.0 Consensus size: 61
56466022 TTTGATAATA
56466032 TAGATTGTTTTGTAATATAGGAGACAATTTATATTAGTGGATAATCTAAATTAAGTCCTGT
1 TAGATTGTTTTGTAATATAGGAGACAATTTATATTAGTGGATAATCTAAATTAAGTCCTGT
56466093 TAGATTGTTTTGTAATATAGGAGACAATTTATATTAGTGGATAATCTAAATTAAGTCCTGT
1 TAGATTGTTTTGTAATATAGGAGACAATTTATATTAGTGGATAATCTAAATTAAGTCCTGT
56466154 GTTATAGGAT
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 61 1.00
ACGTcount: A:0.34, C:0.07, G:0.18, T:0.41
Consensus pattern (61 bp):
TAGATTGTTTTGTAATATAGGAGACAATTTATATTAGTGGATAATCTAAATTAAGTCCTGT
Found at i:56467774 original size:25 final size:25
Alignment explanation
Indices: 56467744--56467798 Score: 92
Period size: 25 Copynumber: 2.2 Consensus size: 25
56467734 TCATCAAATT
56467744 AGAATGACATGTCACTTTCAGAATC
1 AGAATGACATGTCACTTTCAGAATC
* *
56467769 AGAATGACATTTCATTTTCAGAATC
1 AGAATGACATGTCACTTTCAGAATC
56467794 AGAAT
1 AGAAT
56467799 AGCATATCCA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.38, C:0.16, G:0.15, T:0.31
Consensus pattern (25 bp):
AGAATGACATGTCACTTTCAGAATC
Found at i:56471619 original size:52 final size:51
Alignment explanation
Indices: 56471548--56471854 Score: 391
Period size: 52 Copynumber: 6.1 Consensus size: 51
56471538 ATCAAGTGAT
* * *
56471548 AAAGTGATAAGTGGTAGCTTTAGCTACAATTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGT-G
* * *
56471600 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC-----
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
56471646 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGT-G
*
56471698 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* * *
56471749 AAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC-----
1 -AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* *
56471796 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGTG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGAC-AAGTG
56471848 ATAAGTG
1 A-AAGTG
56471855 GCTACACTTA
Statistics
Matches: 226, Mismatches: 15, Indels: 27
0.84 0.06 0.10
Matches are distributed among these distances:
46 86 0.38
51 1 0.00
52 134 0.59
53 5 0.02
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (51 bp):
AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
Found at i:56471655 original size:98 final size:98
Alignment explanation
Indices: 56471534--56471854 Score: 438
Period size: 98 Copynumber: 3.3 Consensus size: 98
56471524 TTTGAGTACT
* * * *
56471534 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTTAGCTACAATTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* *
56471599 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 GAAAGTGATAAGTGATAGCTTCGGCTACACTTA
56471632 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
56471697 GAAAGTGATAAGTGATAGCTTCGGCTACACTTA
66 GAAAGTGATAAGTGATAGCTTCGGCTACACTTA
* * *
56471730 TCTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGA
1 TCTGATCAAGTGAC------AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGA
**
56471795 C------AAAGTGATAAGTGATAGCTTTAGCTACACTTA
60 CAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
56471828 TCTGATCAAGAGACAAAGTGATAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTG
56471855 GCTACACTTA
Statistics
Matches: 205, Mismatches: 12, Indels: 18
0.87 0.05 0.08
Matches are distributed among these distances:
92 13 0.06
98 149 0.73
104 43 0.21
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.28
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
GAAAGTGATAAGTGATAGCTTCGGCTACACTTA
Found at i:56471754 original size:150 final size:150
Alignment explanation
Indices: 56471548--56471843 Score: 511
Period size: 150 Copynumber: 2.0 Consensus size: 150
56471538 ATCAAGTGAT
* * *
56471548 AAAGTGATAAGTGGTAGCTTTAGCTACAATTATCTGATCAAGTGACAAGTGGAAAGTGATAAGTA
1 AAAGTGATAAGTGATAGCTTCAGCTACAATTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTA
*
56471613 ATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTA
66 ATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTA
*
56471678 TCTGATCAAGTGACAAGTGG
131 TCTGATCAAGAGACAAGTGG
* * *
56471698 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTG
1 AAAGTGATAAGTGATAGCTTCAGCTACAATTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTA
*
56471763 ATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTA
66 ATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTA
56471828 TCTGATCAAGAGACAA
131 TCTGATCAAGAGACAA
56471844 AGTGATAAGT
Statistics
Matches: 137, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
150 137 1.00
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (150 bp):
AAAGTGATAAGTGATAGCTTCAGCTACAATTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTA
ATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTA
TCTGATCAAGAGACAAGTGG
Found at i:56471844 original size:46 final size:44
Alignment explanation
Indices: 56471750--56471965 Score: 190
Period size: 37 Copynumber: 5.3 Consensus size: 44
56471740 TGACAAGTGA
*
56471750 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC
1 AAAGTGATAAGTGATAGCTT--GCTACACTTATCTGATCAAGAGAC
56471796 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC
1 AAAGTGATAAGTGATAGC-TT-GCTACACTTATCTGATCAAGAGAC
*
56471842 AAAGTGATAA--G-T-G---GCTACACTTATCTGATCAAGAAAC
1 AAAGTGATAAGTGATAGCTTGCTACACTTATCTGATCAAGAGAC
* *
56471879 AAAGTGATAAGTG--A-----CTACACTTATGTGATCAAGAAAC
1 AAAGTGATAAGTGATAGCTTGCTACACTTATCTGATCAAGAGAC
*
56471916 AAAGTGAT-AG-G-T-G---GCTACACTTATCTGATC-AGGGAC
1 AAAGTGATAAGTGATAGCTTGCTACACTTATCTGATCAAGAGAC
56471952 -AAGTGATAAGTGAT
1 AAAGTGATAAGTGAT
56471966 CATACGTAAG
Statistics
Matches: 153, Mismatches: 7, Indels: 28
0.81 0.04 0.15
Matches are distributed among these distances:
35 8 0.05
36 8 0.05
37 79 0.52
38 1 0.01
39 1 0.01
42 1 0.01
43 1 0.01
44 1 0.01
46 51 0.33
47 2 0.01
ACGTcount: A:0.38, C:0.14, G:0.22, T:0.26
Consensus pattern (44 bp):
AAAGTGATAAGTGATAGCTTGCTACACTTATCTGATCAAGAGAC
Found at i:56471862 original size:37 final size:37
Alignment explanation
Indices: 56471818--56471963 Score: 224
Period size: 37 Copynumber: 4.0 Consensus size: 37
56471808 GATAGCTTTA
*
56471818 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
56471855 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
* * *
56471892 ACTACACTTATGTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
56471929 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
56471964 ATCATACGTA
Statistics
Matches: 100, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 85 0.85
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:56473562 original size:3 final size:3
Alignment explanation
Indices: 56473544--56473594 Score: 50
Period size: 3 Copynumber: 17.3 Consensus size: 3
56473534 TTAAATATCC
* * * * *
56473544 TTA TTA TTT TTA -TA TTA TTA GTA TTA TTA GTA TTA CTA TTA TTA TAA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
56473591 TTA T
1 TTA T
56473595 GTACTAGTGT
Statistics
Matches: 37, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
2 2 0.05
3 35 0.95
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:56475124 original size:45 final size:44
Alignment explanation
Indices: 56475060--56475149 Score: 137
Period size: 45 Copynumber: 2.0 Consensus size: 44
56475050 AAATAGAGGC
56475060 GTAATGGAATAGAGACGTAATAGTAAATCAAT-TGTTTGGTTGAAT
1 GTAATGGAATAGAGACGTAATAGT-AATC-ATGTGTTTGGTTGAAT
* *
56475105 GTAATGGAATAGAGGCGTAATAGTAATCTTGTGTTTGGTTGAAT
1 GTAATGGAATAGAGACGTAATAGTAATCATGTGTTTGGTTGAAT
56475149 G
1 G
56475150 GAATAGAGGT
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
43 1 0.02
44 18 0.43
45 23 0.55
ACGTcount: A:0.33, C:0.04, G:0.28, T:0.34
Consensus pattern (44 bp):
GTAATGGAATAGAGACGTAATAGTAATCATGTGTTTGGTTGAAT
Found at i:56475332 original size:16 final size:16
Alignment explanation
Indices: 56475295--56475336 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
56475285 TTAATCATAT
*
56475295 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
56475311 TT-AAATATATTATAA
1 TTAAAATATATTATAA
56475326 TTAAAATATAT
1 TTAAAATATAT
56475337 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:56475343 original size:14 final size:15
Alignment explanation
Indices: 56475304--56475345 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
56475294 TTTAAACATA
*
56475304 ATTATTATTAAATAT
1 ATTATAATTAAATAT
56475319 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
56475333 A-TATAATTTAATA
1 ATTATAATTAAATA
56475346 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:56475395 original size:61 final size:60
Alignment explanation
Indices: 56475330--56475517 Score: 190
Period size: 61 Copynumber: 3.1 Consensus size: 60
56475320 TTATAATTAA
56475330 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATT-TTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
* * * * * * * * *
56475391 AATATATGATACT-ATAAAA-TAT-A-AATTAACATAATTATTAT-TAAATATA-TTATAATTAA
1 AATATATAAT-TTAATAAAATTTTAATAATT-A-AT-ATTCTTATATGAATTTACTCA-AATCAT
56475450 AATATATAATTTAATAAAATTATTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATT-TTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
56475511 AATATAT
1 AATATAT
56475518 GATACTATAA
Statistics
Matches: 97, Mismatches: 18, Indels: 24
0.70 0.13 0.17
Matches are distributed among these distances:
57 4 0.04
58 5 0.05
59 28 0.29
60 16 0.16
61 35 0.36
62 5 0.05
63 4 0.04
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.43
Consensus pattern (60 bp):
AATATATAATTTAATAAAATTTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
Found at i:56475456 original size:18 final size:18
Alignment explanation
Indices: 56475435--56475482 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
56475425 TTATTATTAA
56475435 ATATATTATAATTAAAAT
1 ATATATTATAATTAAAAT
56475453 ATATAATT-TAA-TAAAAT
1 ATAT-ATTATAATTAAAAT
*
56475470 -TAT-TAATAATTAA
1 ATATATTATAATTAA
56475483 TATTCTTATA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
14 1 0.04
15 3 0.12
16 6 0.23
17 6 0.23
18 7 0.27
19 3 0.12
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
ATATATTATAATTAAAAT
Found at i:56475463 original size:14 final size:15
Alignment explanation
Indices: 56475414--56475465 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
56475404 ATAAAATATA
56475414 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
56475429 TATTAAATATATTAT
1 AATTAAATATATTAT
56475444 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
56475457 AATTTAATA
1 AATTAAATA
56475466 AAATTATTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:56475471 original size:44 final size:43
Alignment explanation
Indices: 56475391--56475474 Score: 107
Period size: 43 Copynumber: 1.9 Consensus size: 43
56475381 CTCAAATCAT
* *
56475391 AATATATGATACTATAAAATATAAATTAACATAATTATTATTA
1 AATATATGATAATATAAAATATAAATTAACAAAATTATTATTA
* *
56475434 AATATATTATAAT-TAAAATATATAATTTAATAAAATTATTA
1 AATATATGATAATATAAAATATA-AA-TTAACAAAATTATTA
56475475 ATAATTAATA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
42 9 0.26
43 13 0.37
44 13 0.37
ACGTcount: A:0.55, C:0.02, G:0.01, T:0.42
Consensus pattern (43 bp):
AATATATGATAATATAAAATATAAATTAACAAAATTATTATTA
Found at i:56475511 original size:120 final size:121
Alignment explanation
Indices: 56475298--56475590 Score: 500
Period size: 120 Copynumber: 2.4 Consensus size: 121
56475288 ATCATATTTA
*
56475298 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTATTAATAATTAA
*
56475363 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT-
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAAATTG
56475418 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTATTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTATTAATAATTAA
*
56475483 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTTG
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAAATTG
* * * * *
56475539 GA-ATAATTAATATTAAATATATTTTAATTAAAATATATGACTTAATAAAATT
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
56475591 TAAAATAATT
Statistics
Matches: 164, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
120 163 0.99
121 1 0.01
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (121 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTATTAATAATTAA
TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAAATTG
Found at i:56475635 original size:44 final size:43
Alignment explanation
Indices: 56475587--56475749 Score: 125
Period size: 44 Copynumber: 3.7 Consensus size: 43
56475577 GACTTAATAA
56475587 AATTTAAAATAATTATTATTACATATAATTTAATAATAATATAT
1 AATTTAAAATAATTATTATTA-ATATAATTTAATAATAATATAT
* * * ** *
56475631 AATTTCATAA-AATTCTTAATAATA-AATTTTCTTATATGAATTTATAC
1 AATTT-AAAATAATTATTATTAATATAA-TTTAATA-AT-AA--TATAT
* *
56475678 AATTTAAAATAATTAATATTAAATATAATTTAATAATGATATAT
1 AATTTAAAATAATTATTATT-AATATAATTTAATAATAATATAT
* * *
56475722 AATTTCATAA-AATTCTTAATAATATAAT
1 AATTT-AAAATAATTATTATTAATATAAT
56475750 GTTCTTATAT
Statistics
Matches: 91, Mismatches: 18, Indels: 21
0.70 0.14 0.16
Matches are distributed among these distances:
42 2 0.02
43 16 0.18
44 32 0.35
45 8 0.09
46 4 0.04
47 18 0.20
48 9 0.10
49 2 0.02
ACGTcount: A:0.50, C:0.04, G:0.01, T:0.45
Consensus pattern (43 bp):
AATTTAAAATAATTATTATTAATATAATTTAATAATAATATAT
Found at i:56475639 original size:28 final size:28
Alignment explanation
Indices: 56475561--56475745 Score: 96
Period size: 26 Copynumber: 6.4 Consensus size: 28
56475551 TTAAATATAT
* * *
56475561 TTTAATTAA-AATATATGACTTAATAAAA
1 TTTAA-TAATAATATATAATTTCATAAAA
* * *
56475589 TTTAA-AATAAT-TATTATTACATATAA
1 TTTAATAATAATATATAATTTCATAAAA
56475615 TTTAATAATAATATATAATTTCATAAAA
1 TTTAATAATAATATATAATTTCATAAAA
*
56475643 TTCTTAATAATAAATTTTCTTATATGAATTT-ATACAA
1 -T-TTAATAAT-AA------TATAT-AATTTCATAAAA
** *
56475680 TTTAA-AATAAT-TA-ATATTAAATATAA
1 TTTAATAATAATATATA-ATTTCATAAAA
*
56475706 TTTAATAATGATATATAATTTCATAAAA
1 TTTAATAATAATATATAATTTCATAAAA
56475734 TTCTTAATAATA
1 -T-TTAATAATA
56475746 TAATGTTCTT
Statistics
Matches: 121, Mismatches: 16, Indels: 38
0.69 0.09 0.22
Matches are distributed among these distances:
24 1 0.01
25 3 0.02
26 29 0.24
27 15 0.12
28 27 0.22
29 3 0.02
30 16 0.13
31 2 0.02
33 2 0.02
34 3 0.02
35 4 0.03
36 1 0.01
37 10 0.08
38 5 0.04
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (28 bp):
TTTAATAATAATATATAATTTCATAAAA
Found at i:56475653 original size:54 final size:54
Alignment explanation
Indices: 56475540--56475644 Score: 140
Period size: 54 Copynumber: 1.9 Consensus size: 54
56475530 GATAATTTGG
* *
56475540 AATAATTAATATTAAATATATTTTAATTAAAATATATGACTTAATAAAATTTAA
1 AATAATTAATATTAAATATAATTTAATTAAAATATATAACTTAATAAAATTTAA
* * * *
56475594 AATAATTATTATTACATATAATTTAA-TAATAATATATAATTTCATAAAATT
1 AATAATTAATATTAAATATAATTTAATTAA-AATATATAACTTAATAAAATT
56475645 CTTAATAATA
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
53 3 0.07
54 41 0.93
ACGTcount: A:0.52, C:0.03, G:0.01, T:0.44
Consensus pattern (54 bp):
AATAATTAATATTAAATATAATTTAATTAAAATATATAACTTAATAAAATTTAA
Found at i:56475668 original size:91 final size:92
Alignment explanation
Indices: 56475572--56475773 Score: 316
Period size: 91 Copynumber: 2.2 Consensus size: 92
56475562 TTAATTAAAA
* * *
56475572 TATATGACTTAATAAAATTTAAAATAATTATTATTACATATAATTTAATAATAATATATAATTTC
1 TATATGAATTAATAAAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTC
*
56475637 ATAAAATTCTTAATAATA-AATTTTCT
66 ATAAAATTCTTAATAATATAATGTTCT
* * *
56475663 TATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTTC
1 TATATGAATTAATAAAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTC
56475728 ATAAAATTCTTAATAATATAATGTTCT
66 ATAAAATTCTTAATAATATAATGTTCT
*
56475755 TATATGAATTTACTAAAAT
1 TATATGAA-TTAATAAAAT
56475774 CAAAATATAA
Statistics
Matches: 99, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
91 77 0.78
92 15 0.15
93 7 0.07
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.45
Consensus pattern (92 bp):
TATATGAATTAATAAAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTC
ATAAAATTCTTAATAATATAATGTTCT
Found at i:56475741 original size:47 final size:47
Alignment explanation
Indices: 56475603--56475742 Score: 139
Period size: 47 Copynumber: 3.0 Consensus size: 47
56475593 AAATAATTAT
* *
56475603 TATTACATATAATTTAATAATAATATATAATTTCATAAAATTCTTAA
1 TATTAAATATAATTTAATAATGATATATAATTTCATAAAATTCTTAA
* * * * **
56475650 TAATAAAT-T--TTCTTAT-ATGAATTTATACAATT--TAAAATAATTAA
1 TATTAAATATAATT-TAATAATG-ATATATA-ATTTCATAAAATTCTTAA
56475694 TATTAAATATAATTTAATAATGATATATAATTTCATAAAATTCTTAA
1 TATTAAATATAATTTAATAATGATATATAATTTCATAAAATTCTTAA
56475741 TA
1 TA
56475743 ATATAATGTT
Statistics
Matches: 70, Mismatches: 14, Indels: 18
0.69 0.14 0.18
Matches are distributed among these distances:
44 21 0.30
45 13 0.19
46 13 0.19
47 23 0.33
ACGTcount: A:0.49, C:0.05, G:0.01, T:0.45
Consensus pattern (47 bp):
TATTAAATATAATTTAATAATGATATATAATTTCATAAAATTCTTAA
Found at i:56481792 original size:19 final size:19
Alignment explanation
Indices: 56481750--56481808 Score: 59
Period size: 19 Copynumber: 3.1 Consensus size: 19
56481740 AAATTATAAA
*
56481750 AAAAATTTAAAATAATTT-T
1 AAAAATTCAAAAT-ATTTAT
56481769 CAAAAATTCAAAATATTTAT
1 -AAAAATTCAAAATATTTAT
* *
56481789 AAAAACTCCAAA-ATTTAT
1 AAAAATTCAAAATATTTAT
56481807 AA
1 AA
56481809 TTTAAAAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
18 8 0.23
19 14 0.40
20 13 0.37
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.34
Consensus pattern (19 bp):
AAAAATTCAAAATATTTAT
Found at i:56481793 original size:20 final size:20
Alignment explanation
Indices: 56481749--56481793 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
56481739 AAAATTATAA
*
56481749 AAAAAATTTAAAATAATTTT
1 AAAAAATTCAAAATAATTTT
*
56481769 CAAAAATTCAAAAT-ATTTAT
1 AAAAAATTCAAAATAATTT-T
56481789 AAAAA
1 AAAAA
56481794 CTCCAAAATT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.33
Consensus pattern (20 bp):
AAAAAATTCAAAATAATTTT
Found at i:56481831 original size:19 final size:20
Alignment explanation
Indices: 56481807--56481854 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
56481797 CAAAATTTAT
56481807 AATTTAAAAA-AAATAAAAA
1 AATTTAAAAATAAATAAAAA
* *
56481826 AATTTAAAAATATATAAAGA
1 AATTTAAAAATAAATAAAAA
*
56481846 AAGTTAAAA
1 AATTTAAAA
56481855 TTTTAAAAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 10 0.40
20 15 0.60
ACGTcount: A:0.71, C:0.00, G:0.04, T:0.25
Consensus pattern (20 bp):
AATTTAAAAATAAATAAAAA
Done.