Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 ID=Chr06-JGI_221_v2.0
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: 51074515
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 971674 characters in sequence are not A, C, G, or T
File 109 of 168
Found at i:32113328 original size:17 final size:19
Alignment explanation
Indices: 32113295--32113329 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
32113285 ATTGTTTGGA
32113295 TATTGTATAACTTTTGTTT
1 TATTGTATAACTTTTGTTT
32113314 TATTGT-TAA-TTTTGTT
1 TATTGTATAACTTTTGTT
32113330 ACTATTTTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 3 0.19
19 6 0.38
ACGTcount: A:0.20, C:0.03, G:0.11, T:0.66
Consensus pattern (19 bp):
TATTGTATAACTTTTGTTT
Found at i:32114761 original size:3 final size:3
Alignment explanation
Indices: 32114755--32114791 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
32114745 AACTAATAAG
32114755 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
32114792 CTATGTCTTG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:32118235 original size:18 final size:18
Alignment explanation
Indices: 32118212--32118254 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
32118202 TGGCAGGTGA
*
32118212 GTATCCTAGCACTTATAT
1 GTATCCTAACACTTATAT
*
32118230 GTATCCTAACCCTTATAT
1 GTATCCTAACACTTATAT
*
32118248 GTTTCCT
1 GTATCCT
32118255 TTTTCCAGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.23, C:0.26, G:0.09, T:0.42
Consensus pattern (18 bp):
GTATCCTAACACTTATAT
Found at i:32120191 original size:57 final size:57
Alignment explanation
Indices: 32120121--32120235 Score: 203
Period size: 57 Copynumber: 2.0 Consensus size: 57
32120111 CTTAGCCTCT
* *
32120121 CTAATTTTTCTTGCTATAGCTTATGCAACCTGATAATGAAATTTGGCTCATTTATAG
1 CTAATTTTTCTTGCTATAACTTATACAACCTGATAATGAAATTTGGCTCATTTATAG
*
32120178 CTAATTTTTCTTGCTGTAACTTATACAACCTGATAATGAAATTTGGCTCATTTATAG
1 CTAATTTTTCTTGCTATAACTTATACAACCTGATAATGAAATTTGGCTCATTTATAG
32120235 C
1 C
32120236 CTAAGGCCAA
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
57 55 1.00
ACGTcount: A:0.29, C:0.17, G:0.13, T:0.42
Consensus pattern (57 bp):
CTAATTTTTCTTGCTATAACTTATACAACCTGATAATGAAATTTGGCTCATTTATAG
Found at i:32120585 original size:125 final size:125
Alignment explanation
Indices: 32120254--32120771 Score: 650
Period size: 125 Copynumber: 4.1 Consensus size: 125
32120244 AAACAAAAAT
* *
32120254 TACTGTAGAAAAAGAGCATTC-ACGTGAGAGCTTTTTTC-ATCAATTTTGCTAACAGTGCATCCT
1 TACTGTAGAAAAAGAGC-GTCAACGTGAGAGCTTTTTTCAAT-AATTTTGCTGACAGTGCATCCT
* * *
32120317 GCTTGAAGCATTTTTGACACAATTTATTCAGAACCATCTTCTCAAAATTATTTTTTTAGGAAC
64 GCTTGAAGCATTTTTGACACTATTTGTTCAGAACCGTCTTCTCAAAATTA-TTTTTTAGGAAC
* * * *
32120380 TACTGTAGAAAAAAGAGCGTCAATGTGGGAGCTTTTTTTTCAGTATTTTTGCTGACAGTGCATCC
1 TACTGTAG-AAAAAGAGCGTCAACGTGAGAGC--TTTTTTCAATAATTTTGCTGACAGTGCATCC
* * * *
32120445 TGCTTAAAGCATTTTTTACACCATTTGTTCAGAATCGTCTTCTCAAAATTATTTTTTAGGAAC
63 TGCTTGAAGCATTTTTGACACTATTTGTTCAGAACCGTCTTCTCAAAATTATTTTTTAGGAAC
*
32120508 TACTGTAGAAAAAGAGCGTTC-ACGTGAGAGCTTTTTTCAATATTTTTGCTGACAGTGCATCCTG
1 TACTGTAGAAAAAGAGCG-TCAACGTGAGAGCTTTTTTCAATAATTTTGCTGACAGTGCATCCTG
* * *
32120572 CTTGAAGCGTTTTTAACACTATTTGTTCAGAATCGTCTTCTCAAAATTATTTTTTAGGAAC
65 CTTGAAGCATTTTTGACACTATTTGTTCAGAACCGTCTTCTCAAAATTATTTTTTAGGAAC
* ** * * *
32120633 TACTGTAGAAAAAGAGCGTCTACGTTTGAGCTTTTTTCAGTAATTTTGATGACAGTGCATTCTGC
1 TACTGTAGAAAAAGAGCGTCAACGTGAGAGCTTTTTTCAATAATTTTGCTGACAGTGCATCCTGC
* * * * *
32120698 TTGAAGCGTTTTTGATATTATCTT-TTCAGAACCGTATTCTCAAAATTAATTTTTCT-GAAAC
66 TTGAAGCATTTTTGACACTAT-TTGTTCAGAACCGTCTTCTCAAAATT-ATTTTT-TAGGAAC
*
32120759 TATTGTAGAAAAA
1 TACTGTAGAAAAA
32120772 AACTAAAATC
Statistics
Matches: 350, Mismatches: 32, Indels: 20
0.87 0.08 0.05
Matches are distributed among these distances:
124 2 0.01
125 184 0.53
126 34 0.10
127 36 0.10
128 22 0.06
129 71 0.20
130 1 0.00
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.38
Consensus pattern (125 bp):
TACTGTAGAAAAAGAGCGTCAACGTGAGAGCTTTTTTCAATAATTTTGCTGACAGTGCATCCTGC
TTGAAGCATTTTTGACACTATTTGTTCAGAACCGTCTTCTCAAAATTATTTTTTAGGAAC
Found at i:32120880 original size:34 final size:33
Alignment explanation
Indices: 32120830--32120944 Score: 135
Period size: 34 Copynumber: 3.5 Consensus size: 33
32120820 CACAAAATTA
**
32120830 TTTTTAAAAAAACTAAACCCTAATTTAATTAAT
1 TTTTTAAAAACTCTAAACCCTAATTTAATTAAT
32120863 TTTCTTAAAAACTCTAAACCCTAATTTAATTAAT
1 TTT-TTAAAAACTCTAAACCCTAATTTAATTAAT
* * *
32120897 TTATTT-TAAACCCTAAAACCTAATTTAATT-AT
1 TT-TTTAAAAACTCTAAACCCTAATTTAATTAAT
**
32120929 TTTAAAAAAACTCTAA
1 TTTTTAAAAACTCTAA
32120945 GCCTTGATTT
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
31 1 0.01
32 12 0.17
33 24 0.34
34 32 0.46
35 1 0.01
ACGTcount: A:0.45, C:0.15, G:0.00, T:0.40
Consensus pattern (33 bp):
TTTTTAAAAACTCTAAACCCTAATTTAATTAAT
Found at i:32127520 original size:32 final size:31
Alignment explanation
Indices: 32127475--32127570 Score: 174
Period size: 31 Copynumber: 3.1 Consensus size: 31
32127465 CTTAGATAAT
32127475 TTTAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
32127506 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
1 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
*
32127538 TTGAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
32127569 TT
1 TT
32127571 GTAATTTGCC
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
31 33 0.52
32 30 0.48
ACGTcount: A:0.31, C:0.09, G:0.14, T:0.46
Consensus pattern (31 bp):
TTTAAAGAGTTTTATTAGGATTCAATTACTC
Found at i:32129676 original size:21 final size:20
Alignment explanation
Indices: 32129621--32129685 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 20
32129611 GGCTTATAAC
32129621 TTTTTTATATATTTT--TAGT
1 TTTTTTATATATTTTGCTA-T
32129640 TTGTTTTATA-ATTTTGCTAT
1 TT-TTTTATATATTTTGCTAT
*
32129660 TTTTTTATAATATTTTGCAAT
1 TTTTTTAT-ATATTTTGCTAT
32129681 TTTTT
1 TTTTT
32129686 AAACATTTTT
Statistics
Matches: 40, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
19 13 0.32
20 11 0.28
21 16 0.40
ACGTcount: A:0.22, C:0.03, G:0.06, T:0.69
Consensus pattern (20 bp):
TTTTTTATATATTTTGCTAT
Found at i:32129703 original size:19 final size:19
Alignment explanation
Indices: 32129681--32129722 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
32129671 ATTTTGCAAT
32129681 TTTTTAAACATTTTTATAA
1 TTTTTAAACATTTTTATAA
* *
32129700 TTTTTAAATATTTTTATGA
1 TTTTTAAACATTTTTATAA
32129719 TTTT
1 TTTT
32129723 ATATAAATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.64
Consensus pattern (19 bp):
TTTTTAAACATTTTTATAA
Found at i:32134097 original size:33 final size:33
Alignment explanation
Indices: 32134052--32134117 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
32134042 TTCTTGACTG
*
32134052 GTCAGCCGTGAGTTTGGACAAAGAGAAAAAACC
1 GTCAGCCATGAGTTTGGACAAAGAGAAAAAACC
32134085 GTCAGCCATGAGTTTGGACAAAGAGAAAAAACC
1 GTCAGCCATGAGTTTGGACAAAGAGAAAAAACC
32134118 TCTTGGCGAG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.41, C:0.18, G:0.26, T:0.15
Consensus pattern (33 bp):
GTCAGCCATGAGTTTGGACAAAGAGAAAAAACC
Found at i:32138044 original size:10 final size:10
Alignment explanation
Indices: 32138023--32138106 Score: 77
Period size: 10 Copynumber: 8.8 Consensus size: 10
32138013 TATGTGGCAA
32138023 AAAAATTA-T
1 AAAAATTATT
*
32138032 AAAAACTATT
1 AAAAATTATT
*
32138042 AAAAATCA-T
1 AAAAATTATT
32138051 AAAAATTATT
1 AAAAATTATT
* *
32138061 AAAATTTAGT
1 AAAAATTATT
*
32138071 AAAAAATA-T
1 AAAAATTATT
*
32138080 AAAAAAT-TT
1 AAAAATTATT
*
32138089 AAAATTTATT
1 AAAAATTATT
32138099 AAAAATTA
1 AAAAATTA
32138107 GAAAAAAAAT
Statistics
Matches: 60, Mismatches: 11, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
9 29 0.48
10 31 0.52
ACGTcount: A:0.63, C:0.02, G:0.01, T:0.33
Consensus pattern (10 bp):
AAAAATTATT
Found at i:32138064 original size:28 final size:28
Alignment explanation
Indices: 32138023--32138104 Score: 96
Period size: 28 Copynumber: 2.9 Consensus size: 28
32138013 TATGTGGCAA
**
32138023 AAAAATTA-TAAAAACTATTAAAAATCAT
1 AAAAATTATTAAAATTTATTAAAAAT-AT
*
32138051 AAAAATTATTAAAATTTAGTAAAAAATAT
1 AAAAATTATTAAAATTTA-TTAAAAATAT
*
32138080 AAAAAAT-TTAAAATTTATTAAAAAT
1 AAAAATTATTAAAATTTATTAAAAAT
32138105 TAGAAAAAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
27 7 0.15
28 18 0.38
29 15 0.32
30 7 0.15
ACGTcount: A:0.63, C:0.02, G:0.01, T:0.33
Consensus pattern (28 bp):
AAAAATTATTAAAATTTATTAAAAATAT
Found at i:32138084 original size:38 final size:39
Alignment explanation
Indices: 32138050--32138132 Score: 96
Period size: 38 Copynumber: 2.2 Consensus size: 39
32138040 TTAAAAATCA
* * **
32138050 TAAAAATTATTAAAATTTAG-TAAAAAATATAAAAAATT
1 TAAAAATTATTAAAAATTAGAAAAAAAATATAAAAAAAG
* * *
32138088 TAAAATTTATTAAAAATTAGAAAAAAAATGTAAAAACAG
1 TAAAAATTATTAAAAATTAGAAAAAAAATATAAAAAAAG
32138127 TAAAAA
1 TAAAAA
32138133 AATTAGGGAC
Statistics
Matches: 36, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
38 18 0.50
39 18 0.50
ACGTcount: A:0.65, C:0.01, G:0.05, T:0.29
Consensus pattern (39 bp):
TAAAAATTATTAAAAATTAGAAAAAAAATATAAAAAAAG
Found at i:32138111 original size:28 final size:28
Alignment explanation
Indices: 32138022--32138113 Score: 103
Period size: 29 Copynumber: 3.2 Consensus size: 28
32138012 ATATGTGGCA
** *
32138022 AAAAAATTATAAAAACTATTAAAAATCAT
1 AAAAAATT-TAAAATTTATTAAAAATTAT
* * *
32138051 AAAAATTATTAAAATTTAGTAAAAAATAT
1 AAAAAAT-TTAAAATTTATTAAAAATTAT
*
32138080 AAAAAATTTAAAATTTATTAAAAATTAG
1 AAAAAATTTAAAATTTATTAAAAATTAT
32138108 AAAAAA
1 AAAAAA
32138114 AATGTAAAAA
Statistics
Matches: 52, Mismatches: 10, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
28 24 0.46
29 27 0.52
30 1 0.02
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.30
Consensus pattern (28 bp):
AAAAAATTTAAAATTTATTAAAAATTAT
Found at i:32141903 original size:17 final size:17
Alignment explanation
Indices: 32141883--32141920 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
32141873 AAAAATTAAA
*
32141883 AAAACCTCA-AAAATTTT
1 AAAA-CTCAGAAAATTAT
32141900 AAAACTCAGAAAATTAT
1 AAAACTCAGAAAATTAT
32141917 AAAA
1 AAAA
32141921 AAATCATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 4 0.21
17 15 0.79
ACGTcount: A:0.61, C:0.13, G:0.03, T:0.24
Consensus pattern (17 bp):
AAAACTCAGAAAATTAT
Found at i:32146882 original size:34 final size:33
Alignment explanation
Indices: 32146815--32146909 Score: 102
Period size: 34 Copynumber: 2.8 Consensus size: 33
32146805 CTGAATCCTA
* *
32146815 AGGTTCAAGGTTTAAGATTTAAGGTTTATAGTTT
1 AGGTTCAAGGTTTAAGATTT-AGGGTTAGAGTTT
*
32146849 -GGATTCAGGGTTTAAGATTTAGGGTTACGAGTTT
1 AGG-TTCAAGGTTTAAGATTTAGGGTTA-GAGTTT
**
32146883 AAGGTTCAAGGTTCGAGATTTAGGGTT
1 -AGGTTCAAGGTTTAAGATTTAGGGTT
32146910 TAGGGTTCAA
Statistics
Matches: 51, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
33 8 0.16
34 21 0.41
35 20 0.39
36 2 0.04
ACGTcount: A:0.26, C:0.05, G:0.29, T:0.39
Consensus pattern (33 bp):
AGGTTCAAGGTTTAAGATTTAGGGTTAGAGTTT
Found at i:32146884 original size:21 final size:20
Alignment explanation
Indices: 32146858--32146917 Score: 66
Period size: 21 Copynumber: 2.9 Consensus size: 20
32146848 TGGATTCAGG
*
32146858 GTTTAAGATTTAGGGTTACGA
1 GTTTAAGGTTTAGGGTT-CGA
* *
32146879 GTTTAAGGTTCAAGGTTCGA
1 GTTTAAGGTTTAGGGTTCGA
*
32146899 GATTTAGGGTTTAGGGTTC
1 G-TTTAAGGTTTAGGGTTC
32146918 AAGATTCTAG
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
20 4 0.12
21 28 0.88
ACGTcount: A:0.23, C:0.07, G:0.32, T:0.38
Consensus pattern (20 bp):
GTTTAAGGTTTAGGGTTCGA
Found at i:32146911 original size:28 final size:28
Alignment explanation
Indices: 32146879--32146936 Score: 80
Period size: 28 Copynumber: 2.1 Consensus size: 28
32146869 AGGGTTACGA
* *
32146879 GTTTAAGGTTCAAGGTTCGAGATTTAGG
1 GTTTAAGGTTCAAGATTCGAGATTCAGG
* *
32146907 GTTTAGGGTTCAAGATTCTAGATTCAGG
1 GTTTAAGGTTCAAGATTCGAGATTCAGG
32146935 GT
1 GT
32146937 AAAAAAAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.24, C:0.09, G:0.31, T:0.36
Consensus pattern (28 bp):
GTTTAAGGTTCAAGATTCGAGATTCAGG
Found at i:32149263 original size:21 final size:22
Alignment explanation
Indices: 32149226--32149268 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
32149216 ATTGGTTTAT
*
32149226 AATTTATAATTATTTTTTGTTAA
1 AATTTATAA-TATTTTTAGTTAA
32149249 AATTTATAA-ATTTTTAGTTA
1 AATTTATAATATTTTTAGTTA
32149269 TTTATTTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 10 0.53
23 9 0.47
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (22 bp):
AATTTATAATATTTTTAGTTAA
Found at i:32154387 original size:15 final size:16
Alignment explanation
Indices: 32154357--32154387 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
32154347 GGCATTATCA
32154357 TATTTGCCTGCAGCTT
1 TATTTGCCTGCAGCTT
32154373 TATTTGCCT-CAGCTT
1 TATTTGCCTGCAGCTT
32154388 CAACAAACAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.13, C:0.26, G:0.16, T:0.45
Consensus pattern (16 bp):
TATTTGCCTGCAGCTT
Found at i:32161024 original size:110 final size:110
Alignment explanation
Indices: 32160789--32161194 Score: 624
Period size: 110 Copynumber: 3.7 Consensus size: 110
32160779 TACTTCAAAA
* *
32160789 TTAAAAATTTTAAAATAAGGCAATGTTTTGCGTTTGGGAAATTCGAGAAAACGTGCCCTAAGGTG
1 TTAAAAATTTCAAAATAAGGCAATGTTTTGCGTTT-GGAAATTCGAGAAAACATGCCCTAAGGTG
*
32160854 TTGGGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTC
65 CTGGGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTC
* *
32160900 TT-AAAATTTTAAAATAAGGCAATGTTTTGAGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGC
1 TTAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGC
*
32160964 TGGGTGTCTATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTC
66 TGGGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTC
* *
32161009 TTAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTTGAGAAAACATGTCCTAAGGTGC
1 TTAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGC
* *
32161074 TGGGTGTCGATTTTTCTCATTCAACCAAATAG-TTAAATATCC--C
66 TGGGTGTCGATTTTTCTCGTTCAACCAAATGGCTT-AATATCCTTC
* * *
32161117 TTCAAAAATTTCAAAATAAGGTAATGTTTTGCGTTTGGAAATTCGAG-GAACGTGCCCTAAGGTG
1 TT-AAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTG
*
32161181 CTGGGTTTCGATTT
65 CTGGGTGTCGATTT
32161195 CTCATTTATC
Statistics
Matches: 275, Mismatches: 17, Indels: 9
0.91 0.06 0.03
Matches are distributed among these distances:
108 30 0.11
109 118 0.43
110 125 0.45
111 2 0.01
ACGTcount: A:0.30, C:0.15, G:0.20, T:0.35
Consensus pattern (110 bp):
TTAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGC
TGGGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTC
Found at i:32162219 original size:20 final size:20
Alignment explanation
Indices: 32162193--32162256 Score: 69
Period size: 20 Copynumber: 3.1 Consensus size: 20
32162183 TATTTAAATA
32162193 AATTAAAATATTAAATAT-TT
1 AATTAAAATA-TAAATATATT
*
32162213 TATTAAAATAATAAATTATATT
1 AATTAAAAT-ATAAA-TATATT
32162235 AATTATAAATATAAATA-ATT
1 AATTA-AAATATAAATATATT
32162255 AA
1 AA
32162257 ACATGTATGT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
20 17 0.45
21 6 0.16
22 11 0.29
23 4 0.11
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
AATTAAAATATAAATATATT
Found at i:32165176 original size:20 final size:20
Alignment explanation
Indices: 32165151--32165191 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
32165141 CCCTCCTCTA
32165151 AATATAATTGAAATTAATTT
1 AATATAATTGAAATTAATTT
32165171 AATATAATTGAAATTAATTT
1 AATATAATTGAAATTAATTT
32165191 A
1 A
32165192 CTTAATATAN
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (20 bp):
AATATAATTGAAATTAATTT
Found at i:32165188 original size:10 final size:11
Alignment explanation
Indices: 32165150--32165189 Score: 50
Period size: 10 Copynumber: 3.9 Consensus size: 11
32165140 TCCCTCCTCT
32165150 AAATATAATTG
1 AAATATAATTG
32165161 AAAT-TAATT-
1 AAATATAATTG
*
32165170 TAATATAATTG
1 AAATATAATTG
32165181 AAAT-TAATT
1 AAATATAATT
32165190 TACTTAATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
9 3 0.12
10 15 0.60
11 7 0.28
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (11 bp):
AAATATAATTG
Found at i:32168234 original size:31 final size:31
Alignment explanation
Indices: 32168170--32168236 Score: 77
Period size: 31 Copynumber: 2.2 Consensus size: 31
32168160 AATAAAAAGG
*
32168170 AAAATAAAACTAATAATAATTAATAATAGTA
1 AAAATAAAACTAATAATAATTAATAATAATA
32168201 AAAATAATAAC-AATAATAAGGTT-A-AATAATA
1 AAAATAA-AACTAATAATAA--TTAATAATAATA
32168232 AAAAT
1 AAAAT
32168237 GTTAAAAATA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
31 26 0.81
32 4 0.12
33 2 0.06
ACGTcount: A:0.66, C:0.03, G:0.04, T:0.27
Consensus pattern (31 bp):
AAAATAAAACTAATAATAATTAATAATAATA
Found at i:32168900 original size:12 final size:12
Alignment explanation
Indices: 32168882--32168916 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
32168872 TTTATATTTC
32168882 GAAATAAAAAAA
1 GAAATAAAAAAA
* *
32168894 TAAATAAAAAAC
1 GAAATAAAAAAA
32168906 GAAATAAAAAA
1 GAAATAAAAAA
32168917 GAGTGACCTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.80, C:0.03, G:0.06, T:0.11
Consensus pattern (12 bp):
GAAATAAAAAAA
Found at i:32176856 original size:17 final size:17
Alignment explanation
Indices: 32176816--32176866 Score: 59
Period size: 17 Copynumber: 3.1 Consensus size: 17
32176806 GCTGCCTCAA
* * *
32176816 GTGTTGGGCCGCTGTTG
1 GTGTTGGGCAGTTGCTG
32176833 G-GTTGGGCAGTTGCTG
1 GTGTTGGGCAGTTGCTG
*
32176849 GTGTTGGGCTGTTGCTG
1 GTGTTGGGCAGTTGCTG
32176866 G
1 G
32176867 ACGGGCCTCT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
16 13 0.45
17 16 0.55
ACGTcount: A:0.02, C:0.14, G:0.49, T:0.35
Consensus pattern (17 bp):
GTGTTGGGCAGTTGCTG
Found at i:32176942 original size:14 final size:14
Alignment explanation
Indices: 32176923--32176968 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
32176913 GCCTCTACTA
32176923 GGTCTGCTGGATTG
1 GGTCTGCTGGATTG
32176937 GGTCTGCT--A---
1 GGTCTGCTGGATTG
32176946 GGTCTGCTGGATTG
1 GGTCTGCTGGATTG
32176960 GGTCTGCTG
1 GGTCTGCTG
32176969 AGTCTGCTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 10
0.73 0.00 0.27
Matches are distributed among these distances:
9 8 0.30
11 1 0.04
12 1 0.04
14 17 0.63
ACGTcount: A:0.07, C:0.17, G:0.41, T:0.35
Consensus pattern (14 bp):
GGTCTGCTGGATTG
Found at i:32176950 original size:23 final size:23
Alignment explanation
Indices: 32176899--32176977 Score: 115
Period size: 23 Copynumber: 3.3 Consensus size: 23
32176889 CGCTGCTGGA
*
32176899 GTCTGCTGGATTGGGCCTCTACTAG
1 GTCTGCTGGATTGGG--TCTGCTAG
32176924 GTCTGCTGGATTGGGTCTGCTAG
1 GTCTGCTGGATTGGGTCTGCTAG
32176947 GTCTGCTGGATTGGGTCTGCT-G
1 GTCTGCTGGATTGGGTCTGCTAG
32176969 AGTCTGCTG
1 -GTCTGCTG
32176978 TATTTGGTTT
Statistics
Matches: 52, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
22 1 0.02
23 36 0.69
25 15 0.29
ACGTcount: A:0.09, C:0.20, G:0.37, T:0.34
Consensus pattern (23 bp):
GTCTGCTGGATTGGGTCTGCTAG
Found at i:32176990 original size:23 final size:24
Alignment explanation
Indices: 32176891--32176991 Score: 111
Period size: 23 Copynumber: 4.2 Consensus size: 24
32176881 TATTGGGCCG
32176891 CTGCTG-GAGTCTGCTGGATTGGGCCT
1 CTGCTGAG-GTCTGCTGGATTGGG--T
*
32176917 CTACT-AGGTCTGCTGGATTGGGT
1 CTGCTGAGGTCTGCTGGATTGGGT
32176940 CTGCT-AGGTCTGCTGGATTGGGT
1 CTGCTGAGGTCTGCTGGATTGGGT
* *
32176963 CTGCTGA-GTCTGCTGTATTTGGT
1 CTGCTGAGGTCTGCTGGATTGGGT
*
32176986 TTGCTG
1 CTGCTG
32176992 GATTGGGCCT
Statistics
Matches: 68, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
23 47 0.69
24 1 0.01
25 15 0.22
26 5 0.07
ACGTcount: A:0.09, C:0.19, G:0.36, T:0.37
Consensus pattern (24 bp):
CTGCTGAGGTCTGCTGGATTGGGT
Found at i:32177923 original size:29 final size:29
Alignment explanation
Indices: 32177842--32177932 Score: 121
Period size: 30 Copynumber: 3.1 Consensus size: 29
32177832 GATACAACAC
*
32177842 AATTTTAGAAAAAGTGGGGGCTAAAAATGT
1 AATTTTAGAAAAAGTGGGGGC-CAAAATGT
* *
32177872 AATTTTAGAAAAAATAGGAGGCCAAAATGT
1 AATTTTAGAAAAAGT-GGGGGCCAAAATGT
32177902 AATTTTA-AAAAAGTGGGGGGCCAAAATGT
1 AATTTTAGAAAAAGT-GGGGGCCAAAATGT
32177931 AA
1 AA
32177933 ATAGTATTCT
Statistics
Matches: 54, Mismatches: 6, Indels: 3
0.86 0.10 0.05
Matches are distributed among these distances:
29 21 0.39
30 28 0.52
31 5 0.09
ACGTcount: A:0.46, C:0.05, G:0.24, T:0.24
Consensus pattern (29 bp):
AATTTTAGAAAAAGTGGGGGCCAAAATGT
Found at i:32178644 original size:75 final size:76
Alignment explanation
Indices: 32178521--32178977 Score: 598
Period size: 76 Copynumber: 6.0 Consensus size: 76
32178511 TAAAAGACTA
* * * *
32178521 AAATTTAAAATACCTCGACGTGCAATCCGAAGCTCAACTCACCTATCGGATTATGAGTTGA-TCT
1 AAATTGAAAATACCTCGACGTGCAACCCGAGGCTCAACTCACCTATCGGATTATGAGTTGATTTT
32178585 TTGAAAAATAG
66 TTGAAAAATAG
* * *
32178596 AAATTAAAAATACCTCGATGTGCGACCCGAGGCTCAACTCACCTATCGGATTATGAGTTGATTTT
1 AAATTGAAAATACCTCGACGTGCAACCCGAGGCTCAACTCACCTATCGGATTATGAGTTGATTTT
*
32178661 TTGAAAAACAG
66 TTGAAAAATAG
* * ** *
32178672 AAACTGAAAATAGCTC-AGCGTGCAACTTGAGGCTCAACTCACCTATCGGATTATGAGTTTATTT
1 AAATTGAAAATACCTCGA-CGTGCAACCCGAGGCTCAACTCACCTATCGGATTATGAGTTGATTT
32178736 TTTGAAAAATAG
65 TTTGAAAAATAG
* * ** * *
32178748 AAGTTGAAAATATCTCGGTGTGCAACCCGAGGCTCAACTCACCTCTCGAATTATGAGTTGATTTT
1 AAATTGAAAATACCTCGACGTGCAACCCGAGGCTCAACTCACCTATCGGATTATGAGTTGA-TTT
32178813 TTTGAAAAATAG
65 TTTGAAAAATAG
* * * * * *
32178825 AAGTTGAAAATACCTCGGCGTGCGACCCGAAGCTCAACTCACCTATTGGATTATGAGTTGA-TAT
1 AAATTGAAAATACCTCGACGTGCAACCCGAGGCTCAACTCACCTATCGGATTATGAGTTGATTTT
32178889 TTGAAAAATAG
66 TTGAAAAATAG
* * * * *
32178900 AAATTGAAAATACCTCGATGTGCAACCCAAGGCTCAACTCATCTCTCAGATTATGAGTTGATTTT
1 AAATTGAAAATACCTCGACGTGCAACCCGAGGCTCAACTCACCTATCGGATTATGAGTTGATTTT
32178965 TTGAAAAA-AG
66 TTGAAAAATAG
32178975 AAA
1 AAA
32178978 AAAGAAATAA
Statistics
Matches: 332, Mismatches: 45, Indels: 10
0.86 0.12 0.03
Matches are distributed among these distances:
75 126 0.38
76 137 0.41
77 69 0.21
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.29
Consensus pattern (76 bp):
AAATTGAAAATACCTCGACGTGCAACCCGAGGCTCAACTCACCTATCGGATTATGAGTTGATTTT
TTGAAAAATAG
Found at i:32191146 original size:17 final size:16
Alignment explanation
Indices: 32191099--32191146 Score: 51
Period size: 17 Copynumber: 2.9 Consensus size: 16
32191089 GCCTCAAGTT
*
32191099 TTGGGCCGTTGCTGGG
1 TTGGGCAGTTGCTGGG
* *
32191115 TTGGGCAGCTACTGGTG
1 TTGGGCAGTTGCTGG-G
*
32191132 TTGGGCTGTTGCTGG
1 TTGGGCAGTTGCTGG
32191147 ACGGGTCTCC
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
16 12 0.48
17 13 0.52
ACGTcount: A:0.04, C:0.17, G:0.46, T:0.33
Consensus pattern (16 bp):
TTGGGCAGTTGCTGGG
Found at i:32191201 original size:16 final size:16
Alignment explanation
Indices: 32191180--32191211 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
32191170 ACTGCTGGAG
32191180 TCTATTGGATTGGGCC
1 TCTATTGGATTGGGCC
32191196 TCTATTGGATTGGGCC
1 TCTATTGGATTGGGCC
32191212 GCTGCTGGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.12, C:0.19, G:0.31, T:0.38
Consensus pattern (16 bp):
TCTATTGGATTGGGCC
Found at i:32191274 original size:14 final size:14
Alignment explanation
Indices: 32191253--32191287 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
32191243 GGTCTGTTGA
32191253 GCCTGCTAGATTGG
1 GCCTGCTAGATTGG
*
32191267 GTCTGCTAGATTGG
1 GCCTGCTAGATTGG
32191281 GCCTGCT
1 GCCTGCT
32191288 GCTATTGGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.11, C:0.23, G:0.34, T:0.31
Consensus pattern (14 bp):
GCCTGCTAGATTGG
Found at i:32192008 original size:30 final size:28
Alignment explanation
Indices: 32191960--32192054 Score: 118
Period size: 30 Copynumber: 3.2 Consensus size: 28
32191950 CAAGGCTAAG
*
32191960 ATGTAATTTTTGAAAAAGTAGGGGGCAAA
1 ATGTAATTTTAGAAAAAGT-GGGGGCAAA
*
32191989 ATGTAATTTTAGAAAAAAGTGAGGGCCAAA
1 ATGTAATTTTAG-AAAAAGTG-GGGGCAAA
*
32192019 ATATAATTTTAGAAAAAGTGGAGGGCCAAA
1 ATGTAATTTTAGAAAAAGTGG-GGG-CAAA
32192049 ATGTAA
1 ATGTAA
32192055 ATAGTATTTT
Statistics
Matches: 57, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
28 1 0.02
29 22 0.39
30 34 0.60
ACGTcount: A:0.45, C:0.05, G:0.24, T:0.25
Consensus pattern (28 bp):
ATGTAATTTTAGAAAAAGTGGGGGCAAA
Found at i:32204098 original size:2 final size:2
Alignment explanation
Indices: 32204091--32204121 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
32204081 TATTATTGTT
32204091 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
32204122 CCACACATCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:32207948 original size:3 final size:3
Alignment explanation
Indices: 32207940--32207976 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
32207930 GGGTTTAGTA
*
32207940 ATG ATG ATG GTG ATG ATG ATG ATG ATG ATG ATG ATG A
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG A
32207977 AGGGAAAGAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.32, C:0.00, G:0.35, T:0.32
Consensus pattern (3 bp):
ATG
Found at i:32212329 original size:6 final size:6
Alignment explanation
Indices: 32212320--32212344 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
32212310 GCAATAACGG
32212320 ATTAGA ATTAGA ATTAGA ATTAGA A
1 ATTAGA ATTAGA ATTAGA ATTAGA A
32212345 CTAAATCATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.16, T:0.32
Consensus pattern (6 bp):
ATTAGA
Found at i:32213132 original size:6 final size:6
Alignment explanation
Indices: 32213121--32213195 Score: 141
Period size: 6 Copynumber: 12.5 Consensus size: 6
32213111 GCGACAATCA
*
32213121 TATATG TATATG TATATG TATATG TATATG TATATG TGTATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
32213169 TATATG TATATG TATATG TATATG TAT
1 TATATG TATATG TATATG TATATG TAT
32213196 TTATGTATTG
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 67 1.00
ACGTcount: A:0.32, C:0.00, G:0.17, T:0.51
Consensus pattern (6 bp):
TATATG
Found at i:32216083 original size:6 final size:6
Alignment explanation
Indices: 32216074--32216100 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
32216064 TAGCAATAAC
32216074 GAATTA GAATTA GAATTA GAATTA GAA
1 GAATTA GAATTA GAATTA GAATTA GAA
32216101 CTAAATCATG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.19, T:0.30
Consensus pattern (6 bp):
GAATTA
Found at i:32217443 original size:17 final size:17
Alignment explanation
Indices: 32217421--32217453 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
32217411 ATATTTTTTA
32217421 TTTTTAATCAAATATAG
1 TTTTTAATCAAATATAG
*
32217438 TTTTTAATTAAATATA
1 TTTTTAATCAAATATA
32217454 TATATTAAAT
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:0.42, C:0.03, G:0.03, T:0.52
Consensus pattern (17 bp):
TTTTTAATCAAATATAG
Found at i:32217456 original size:21 final size:21
Alignment explanation
Indices: 32217399--32217459 Score: 63
Period size: 21 Copynumber: 2.9 Consensus size: 21
32217389 ACCCAAATTA
32217399 TATATTAAATATATAT-TTTT
1 TATATTAAATATATATATTTT
* * *
32217419 TATTTTTAATCAAATATAGTTTT
1 TATATTAAAT-ATATATA-TTTT
32217442 TA-ATTAAATATATATATT
1 TATATTAAATATATATATT
32217460 AAATATATAC
Statistics
Matches: 32, Mismatches: 6, Indels: 6
0.73 0.14 0.14
Matches are distributed among these distances:
20 10 0.31
21 11 0.34
22 5 0.16
23 6 0.19
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.56
Consensus pattern (21 bp):
TATATTAAATATATATATTTT
Found at i:32217462 original size:13 final size:13
Alignment explanation
Indices: 32217444--32217468 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
32217434 ATAGTTTTTA
32217444 ATTAAATATATAT
1 ATTAAATATATAT
32217457 ATTAAATATATA
1 ATTAAATATATA
32217469 CTTTTTTGGA
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:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
ATTAAATATATAT
Found at i:32220456 original size:22 final size:22
Alignment explanation
Indices: 32220420--32220479 Score: 63
Period size: 21 Copynumber: 2.8 Consensus size: 22
32220410 GGCCCGGCCC
32220420 ATTT-TTTTAATAAATACT-AAAA
1 ATTTATTTTAA-AAATA-TAAAAA
32220442 ATTTATTTTAAAAAT-TAAAAA
1 ATTTATTTTAAAAATATAAAAA
**
32220463 AAGTATTTTAAAAATAT
1 ATTTATTTTAAAAATAT
32220480 TTTAAAATTA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
20 1 0.03
21 17 0.52
22 9 0.27
23 6 0.18
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (22 bp):
ATTTATTTTAAAAATATAAAAA
Found at i:32220504 original size:40 final size:41
Alignment explanation
Indices: 32220451--32220570 Score: 188
Period size: 40 Copynumber: 2.9 Consensus size: 41
32220441 AATTTATTTT
32220451 AAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAATT-AA
1 AAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAATTAAA
**
32220491 AAAAATTTTAAAAAGTATTTTAAAAATATTTTAAAATTAAA
1 AAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAATTAAA
*
32220532 AAATAATAAAAAAAAGTATTTTAAAAATATTTTATAAAT
1 AAA-AATTAAAAAAAGTATTTTAAAAATATTTTA-AAAT
32220571 ATATTTATTA
Statistics
Matches: 72, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
40 36 0.50
41 5 0.07
42 27 0.38
43 4 0.06
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.37
Consensus pattern (41 bp):
AAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAATTAAA
Found at i:32220510 original size:12 final size:11
Alignment explanation
Indices: 32220460--32220577 Score: 74
Period size: 11 Copynumber: 11.1 Consensus size: 11
32220450 TAAAAATTAA
32220460 AAAAAGTATTTT
1 AAAAA-TATTTT
32220472 AAAAATATTTT
1 AAAAATATTTT
32220483 --AAA-A--TT
1 AAAAATATTTT
*
32220489 AAAAAAATTTT
1 AAAAATATTTT
32220500 AAAAAGTATTTT
1 AAAAA-TATTTT
32220512 AAAAATATTTT
1 AAAAATATTTT
*
32220523 --AAA-A-TTA
1 AAAAATATTTT
***
32220530 AAAAATAATAAA
1 AAAAAT-ATTTT
32220542 AAAAAGTATTTT
1 AAAAA-TATTTT
32220554 AAAAATATTTT
1 AAAAATATTTT
*
32220565 ATAAATATATTT
1 AAAAATAT-TTT
32220577 A
1 A
32220578 TTATATTGGG
Statistics
Matches: 85, Mismatches: 8, Indels: 26
0.71 0.07 0.22
Matches are distributed among these distances:
6 2 0.02
7 2 0.02
8 5 0.06
9 10 0.12
11 33 0.39
12 32 0.38
13 1 0.01
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:32235264 original size:136 final size:136
Alignment explanation
Indices: 32235087--32235362 Score: 516
Period size: 136 Copynumber: 2.0 Consensus size: 136
32235077 TCTGTGCGAG
* *
32235087 GACCATAGGGTAAACATTCTGGATTGTTCATCCATCCTTCATTCGTATCGCACTGCATCACCGGA
1 GACCATAGGGTAAACATTCTGGATTGTTCATCCATCATTCATTCGTATCGCACTACATCACCGGA
32235152 TGTACCTGCATAGAACCATATAAACTATCAATTTTCTTATTTAAAAGCTCTACCTGATTCAATAA
66 TGTACCTGCATAGAACCATATAAACTATCAATTTTCTTATTTAAAAGCTCTACCTGATTCAATAA
32235217 CATGAT
131 CATGAT
32235223 GACCATAGGGTAAACATTCTGGATTGTTCATCCATCATTCATTCGTATCGCACTACATCACCGGA
1 GACCATAGGGTAAACATTCTGGATTGTTCATCCATCATTCATTCGTATCGCACTACATCACCGGA
*
32235288 TGTACCTGCATAGAACCATATAAACTATCAATTTTCTTATTTAAAAGCTCTACCTGATTCGATAA
66 TGTACCTGCATAGAACCATATAAACTATCAATTTTCTTATTTAAAAGCTCTACCTGATTCAATAA
*
32235353 CATGGT
131 CATGAT
32235359 GACC
1 GACC
32235363 GCATCTAAGT
Statistics
Matches: 136, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
136 136 1.00
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.32
Consensus pattern (136 bp):
GACCATAGGGTAAACATTCTGGATTGTTCATCCATCATTCATTCGTATCGCACTACATCACCGGA
TGTACCTGCATAGAACCATATAAACTATCAATTTTCTTATTTAAAAGCTCTACCTGATTCAATAA
CATGAT
Found at i:32240019 original size:15 final size:15
Alignment explanation
Indices: 32239999--32240027 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
32239989 CTGTGGTTAT
32239999 GTGCAAGTGTACATG
1 GTGCAAGTGTACATG
32240014 GTGCAAGTGTACAT
1 GTGCAAGTGTACAT
32240028 AGTACAAGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.14, G:0.31, T:0.28
Consensus pattern (15 bp):
GTGCAAGTGTACATG
Found at i:32240035 original size:15 final size:15
Alignment explanation
Indices: 32240002--32240036 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
32239992 TGGTTATGTG
* *
32240002 CAAGTGTACATGGTG
1 CAAGTGTACATAGTA
32240017 CAAGTGTACATAGTA
1 CAAGTGTACATAGTA
32240032 CAAGT
1 CAAGT
32240037 AATAAGTAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.34, C:0.14, G:0.26, T:0.26
Consensus pattern (15 bp):
CAAGTGTACATAGTA
Found at i:32246546 original size:130 final size:125
Alignment explanation
Indices: 32246323--32246608 Score: 396
Period size: 130 Copynumber: 2.2 Consensus size: 125
32246313 TAATAGTTAC
* * * *
32246323 ACGGCGGAATCAGCACTTAGCAACCACCTTTATATTCAAGGATACGGGGAATCAGCACATGGCAA
1 ACGG-GGAATCAGCACTTAGCAACC-CCTTTATAATCAAGAATAAGGGGAATCAGCACATAGCAA
* * *
32246388 CCCCTTTTATAATCAAAGATGCGGGGAATCAGAACATAGCAACCCCTTTTTTTATATAATCAAAT
64 CCCCTTTGATAATCAAAGATACGGGGAATCAGAACATAGCAACCCC----TTT-TATAATCAAAG
32246453 AT
124 AT
*
32246455 ACGGGGAATCAGCACTTAGCAACCCCTTTGATAATC-AGAATAAGGGGAATCAGCACTTAGCAAC
1 ACGGGGAATCAGCACTTAGCAACCCCTTT-ATAATCAAGAATAAGGGGAATCAGCACATAGCAAC
*
32246519 CCCTTTGATAATC-AAGAATACGGGGAATCAGCACATAGCAACCCCTTTTATAATCAAAGAT
65 CCCTTTGATAATCAAAG-ATACGGGGAATCAGAACATAGCAACCCCTTTTATAATCAAAGAT
32246580 ACGGGGAATCAGCACTTAGCAACCCCTTT
1 ACGGGGAATCAGCACTTAGCAACCCCTTT
32246609 TACATTCATT
Statistics
Matches: 143, Mismatches: 9, Indels: 11
0.88 0.06 0.07
Matches are distributed among these distances:
125 41 0.29
126 3 0.02
129 3 0.02
130 67 0.47
131 25 0.17
132 4 0.03
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.23
Consensus pattern (125 bp):
ACGGGGAATCAGCACTTAGCAACCCCTTTATAATCAAGAATAAGGGGAATCAGCACATAGCAACC
CCTTTGATAATCAAAGATACGGGGAATCAGAACATAGCAACCCCTTTTATAATCAAAGAT
Found at i:32246609 original size:42 final size:42
Alignment explanation
Indices: 32246323--32246610 Score: 366
Period size: 42 Copynumber: 6.7 Consensus size: 42
32246313 TAATAGTTAC
* *
32246323 ACGGCGGAATCAGCACTTAGCAACCACC-TTTATATTCAAGGAT
1 ACGG-GGAATCAGCACTTAGCAACC-CCTTTTATAATCAAAGAT
* *
32246366 ACGGGGAATCAGCACATGGCAACCCCTTTTATAATCAAAGAT
1 ACGGGGAATCAGCACTTAGCAACCCCTTTTATAATCAAAGAT
* * * *
32246408 GCGGGGAATCAGAACATAGCAACCCCTTTTTTTATATAATCAAATAT
1 ACGGGGAATCAGCACTTAGCAACCCC----TTT-TATAATCAAAGAT
* *
32246455 ACGGGGAATCAGCACTTAGCAACCCCTTTGATAATCAGA-AT
1 ACGGGGAATCAGCACTTAGCAACCCCTTTTATAATCAAAGAT
* *
32246496 AAGGGGAATCAGCACTTAGCAACCCCTTTGATAATC-AAGAAT
1 ACGGGGAATCAGCACTTAGCAACCCCTTTTATAATCAAAG-AT
*
32246538 ACGGGGAATCAGCACATAGCAACCCCTTTTATAATCAAAGAT
1 ACGGGGAATCAGCACTTAGCAACCCCTTTTATAATCAAAGAT
32246580 ACGGGGAATCAGCACTTAGCAACCCCTTTTA
1 ACGGGGAATCAGCACTTAGCAACCCCTTTTA
32246611 CATTCATTAA
Statistics
Matches: 217, Mismatches: 19, Indels: 19
0.85 0.07 0.07
Matches are distributed among these distances:
40 1 0.00
41 39 0.18
42 129 0.59
43 10 0.05
46 3 0.01
47 35 0.16
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.23
Consensus pattern (42 bp):
ACGGGGAATCAGCACTTAGCAACCCCTTTTATAATCAAAGAT
Found at i:32258842 original size:9 final size:9
Alignment explanation
Indices: 32258828--32258963 Score: 53
Period size: 9 Copynumber: 14.3 Consensus size: 9
32258818 GCCCATTTTT
32258828 ATTTTAAAA
1 ATTTTAAAA
32258837 ATTTTAAAA
1 ATTTTAAAA
**
32258846 ATTAAAAAA
1 ATTTTAAAA
32258855 TTATTTTTAAAA
1 --A-TTTTAAAA
32258867 TATTTTTAAAA
1 -A-TTTTAAAA
*
32258878 TATTTT-GAA
1 -ATTTTAAAA
**
32258887 ATTAAAAAA
1 ATTTTAAAA
**
32258896 ATTAAAAAA
1 ATTTTAAAA
*
32258905 TATTTTTAAA
1 -ATTTTAAAA
32258915 A--TTAAAA
1 ATTTTAAAA
* *
32258922 AATTAAAAA
1 ATTTTAAAA
32258931 GTATTTTAAAA
1 --ATTTTAAAA
*
32258942 ATATTTTAAA
1 AT-TTTAAAA
*
32258952 ATTTAAAAA
1 ATTTTAAAA
32258961 ATT
1 ATT
32258964 AAAAAGTATG
Statistics
Matches: 99, Mismatches: 18, Indels: 20
0.72 0.13 0.15
Matches are distributed among these distances:
7 6 0.06
8 3 0.03
9 45 0.45
10 18 0.18
11 21 0.21
12 6 0.06
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.42
Consensus pattern (9 bp):
ATTTTAAAA
Found at i:32258872 original size:11 final size:11
Alignment explanation
Indices: 32258851--32258883 Score: 57
Period size: 11 Copynumber: 2.9 Consensus size: 11
32258841 TAAAAATTAA
32258851 AAAATTATTTTT
1 AAAA-TATTTTT
32258863 AAAATATTTTT
1 AAAATATTTTT
32258874 AAAATATTTT
1 AAAATATTTT
32258884 GAAATTAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 17 0.81
12 4 0.19
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (11 bp):
AAAATATTTTT
Found at i:32258904 original size:27 final size:26
Alignment explanation
Indices: 32258874--32258941 Score: 100
Period size: 27 Copynumber: 2.5 Consensus size: 26
32258864 AAATATTTTT
*
32258874 AAAATATTTTGAAATTAAAAAAATTAA
1 AAAATATTTTAAAATT-AAAAAATTAA
32258901 AAAATATTTTTAAAATTAAAAAATTAA
1 AAAATA-TTTTAAAATTAAAAAATTAA
*
32258928 AAAGTATTTTAAAA
1 AAAATATTTTAAAA
32258942 ATATTTTAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
26 8 0.21
27 21 0.55
28 9 0.24
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (26 bp):
AAAATATTTTAAAATTAAAAAATTAA
Found at i:32258914 original size:38 final size:38
Alignment explanation
Indices: 32258842--32259016 Score: 144
Period size: 38 Copynumber: 4.6 Consensus size: 38
32258832 TAAAAATTTT
**
32258842 AAAAATTAAAAAATTATTTTTAAAATATTTTTAAAATATTT
1 AAAAATTAAAAAA-TATTTTTAAAATA-TTTTAAAAT-TAA
** **
32258883 TGAAATTAAAAAA-A-TTAAAAAATATTTTTAAAATT-A
1 AAAAATTAAAAAATATTTTTAAAATA-TTTTAAAATTAA
* * *
32258919 AAAAATTAAAAAGTATTTTAAAAATATTTTAAAATTTA
1 AAAAATTAAAAAATATTTTTAAAATATTTTAAAATTAA
* * **
32258957 AAAAATTAAAAAGTATGTAAAAAATATTTTAAAATTAA
1 AAAAATTAAAAAATATTTTTAAAATATTTTAAAATTAA
*
32258995 AAAAA-T-AAATATATTTATTAAA
1 AAAAATTAAAAAATATTT-TTAAA
32259017 TCGGGCCGGG
Statistics
Matches: 113, Mismatches: 17, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
36 17 0.15
37 16 0.14
38 68 0.60
39 1 0.01
41 11 0.10
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.38
Consensus pattern (38 bp):
AAAAATTAAAAAATATTTTTAAAATATTTTAAAATTAA
Found at i:32258922 original size:76 final size:74
Alignment explanation
Indices: 32258840--32258997 Score: 203
Period size: 76 Copynumber: 2.1 Consensus size: 74
32258830 TTTAAAAATT
* * ***
32258840 TTAAAAATTAAAAAATTATTTTTAAAATATTTTTAAAATATTTTGAAATTAAAAA-AAT-TAAAA
1 TTAAAAATT-AAAAAGTATTTTAAAAATA-TTTTAAAAT-TTAAAAAATTAAAAAGAATGTAAAA
32258903 AATATTTTTAAAA
63 AATA-TTTTAAAA
*
32258916 TTAAAAAATTAAAAAGTATTTTAAAAATATTTTAAAATTTAAAAAATTAAAAAGTATGTAAAAAA
1 TT-AAAAATTAAAAAGTATTTTAAAAATATTTTAAAATTTAAAAAATTAAAAAGAATGTAAAAAA
32258981 TATTTTAAAA
65 TATTTTAAAA
32258991 TTAAAAA
1 TTAAAAA
32258998 AATAAATATA
Statistics
Matches: 73, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
74 17 0.23
75 21 0.29
76 28 0.38
77 7 0.10
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.39
Consensus pattern (74 bp):
TTAAAAATTAAAAAGTATTTTAAAAATATTTTAAAATTTAAAAAATTAAAAAGAATGTAAAAAAT
ATTTTAAAA
Found at i:32258946 original size:11 final size:12
Alignment explanation
Indices: 32258924--32258952 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
32258914 AATTAAAAAA
32258924 TTAAAAAGTATT
1 TTAAAAAGTATT
32258936 TTAAAAA-TATT
1 TTAAAAAGTATT
32258947 TTAAAA
1 TTAAAA
32258953 TTTAAAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 10 0.59
12 7 0.41
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.41
Consensus pattern (12 bp):
TTAAAAAGTATT
Found at i:32258998 original size:76 final size:76
Alignment explanation
Indices: 32258827--32259003 Score: 216
Period size: 75 Copynumber: 2.3 Consensus size: 76
32258817 GGCCCATTTT
* * * ***
32258827 TATTTTAAAAATTTTAAAAATTAAAAAATTATTTTTAAAATATTTTTAAAATATTTTGAAATTAA
1 TATTTT-AAAA-TTAAAAAATTAAAAAAGTATTTTAAAAATATTTTTAAAATATTAAAAAATTAA
32258892 AAAAATTAAAAAA
64 AAAAATTAAAAAA
32258905 TATTTTTAAAATTAAAAAATT-AAAAAGTATTTTAAAAATA-TTTTAAAAT-TTAAAAAATTAAA
1 TA-TTTTAAAATTAAAAAATTAAAAAAGTATTTTAAAAATATTTTTAAAATATTAAAAAATTAAA
*
32258967 AAGTATGTAAAAAA
65 AA-AAT-TAAAAAA
*
32258981 TATTTTAAAATTAAAAAAATAAA
1 TATTTTAAAATTAAAAAATTAAA
32259004 TATATTTATT
Statistics
Matches: 87, Mismatches: 8, Indels: 10
0.83 0.08 0.10
Matches are distributed among these distances:
74 12 0.14
75 28 0.32
76 28 0.32
77 9 0.10
78 6 0.07
79 4 0.05
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (76 bp):
TATTTTAAAATTAAAAAATTAAAAAAGTATTTTAAAAATATTTTTAAAATATTAAAAAATTAAAA
AAATTAAAAAA
Found at i:32260030 original size:21 final size:22
Alignment explanation
Indices: 32260006--32260052 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
32259996 AAAGTTAAAA
32260006 TTTATTATTAACAAAT-TTTAG
1 TTTATTATTAACAAATATTTAG
**
32260027 TTTATTATTAATTAATATTTAG
1 TTTATTATTAACAAATATTTAG
32260049 TTTA
1 TTTA
32260053 AGTTAAAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 14 0.61
22 9 0.39
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.57
Consensus pattern (22 bp):
TTTATTATTAACAAATATTTAG
Found at i:32263218 original size:3 final size:3
Alignment explanation
Indices: 32263210--32263283 Score: 148
Period size: 3 Copynumber: 24.7 Consensus size: 3
32263200 AGTAAAAAAC
32263210 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
32263258 TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
32263284 CGTAATAAAT
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 71 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:32265005 original size:20 final size:20
Alignment explanation
Indices: 32264962--32265005 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
32264952 TCCTGATTTT
* *
32264962 ATTTGATTCCAATCAATTTG
1 ATTTGATTCCAATCAAATTA
**
32264982 ATTTGATTTTAATCAAATTA
1 ATTTGATTCCAATCAAATTA
32265002 ATTT
1 ATTT
32265006 AATTACTCAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.34, C:0.09, G:0.07, T:0.50
Consensus pattern (20 bp):
ATTTGATTCCAATCAAATTA
Found at i:32265482 original size:20 final size:21
Alignment explanation
Indices: 32265440--32265496 Score: 71
Period size: 20 Copynumber: 2.7 Consensus size: 21
32265430 TGAATTTTAA
*
32265440 ATATAAATATTTATTTTATTTT
1 ATATAAATATTT-GTTTATTTT
32265462 ATATAAATATTTGTTTA-TTT
1 ATATAAATATTTGTTTATTTT
**
32265482 ATATTCATATTTGTT
1 ATATAAATATTTGTT
32265497 CGCTAACATG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
20 16 0.50
21 4 0.12
22 12 0.38
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (21 bp):
ATATAAATATTTGTTTATTTT
Found at i:32265890 original size:87 final size:87
Alignment explanation
Indices: 32265611--32266040 Score: 515
Period size: 87 Copynumber: 4.9 Consensus size: 87
32265601 TGAAATAAAA
* * * * *
32265611 ATTAAAATTGAATAAAATCTATTTCGGGATTTATTCCCGCCGTTCAACAGATTTTATTCCTTTTA
1 ATTAAAATTAAATAAAATTTGTTTCGGGATTTATTCCCGCCGTTCAACGGATTTTATT-C--TAA
*
32265676 TTTT-ATTTTATTTCC-AAACGAGA
63 TTTTGATTTTATTTCCAAAACGAGT
* * * **
32265699 ATTAAAGTTAAATAAAATTTATTTCAGGATTTATTCCTACCGTTCAACGGATTTTATTCT-ATTT
1 ATTAAAATTAAATAAAATTTGTTTCGGGATTTATTCCCGCCGTTCAACGGATTTTATTCTAATTT
* * *
32265763 TTATTTTATTTCCAAAACAAAT
66 TGATTTTATTTCCAAAACGAGT
* * * *
32265785 ATTAAAATTAAATAAAATTTGTTCCGGGATTTATTCTCGTCGTTCAACAGATTTTATTCTAATTT
1 ATTAAAATTAAATAAAATTTGTTTCGGGATTTATTCCCGCCGTTCAACGGATTTTATTCTAATTT
*
32265850 TGATTTTGTTTCCAAAACGAGT
66 TGATTTTATTTCCAAAACGAGT
* * * *
32265872 ATTAGAATTAAATAAAATTTGTTTCGGGATTTATTCCCGCTGTTTAACGGATTTTATTCCAATTT
1 ATTAAAATTAAATAAAATTTGTTTCGGGATTTATTCCCGCCGTTCAACGGATTTTATTCTAATTT
* *
32265937 TGACTTTGTTTCCAAAACGAGT
66 TGATTTTATTTCCAAAACGAGT
* * * * * *
32265959 ATTAGATTTAAATAAAATCTGTTTCGGAATTTATTCCCGCCGTTTAACGGATTTTATTCCAATTT
1 ATTAAAATTAAATAAAATTTGTTTCGGGATTTATTCCCGCCGTTCAACGGATTTTATTCTAATTT
* *
32266024 TAATTTTTTTTCCAAAA
66 TGATTTTATTTCCAAAA
32266041 TGAGAAATGG
Statistics
Matches: 300, Mismatches: 39, Indels: 7
0.87 0.11 0.02
Matches are distributed among these distances:
84 5 0.02
85 12 0.04
86 56 0.19
87 176 0.59
88 51 0.17
ACGTcount: A:0.31, C:0.14, G:0.11, T:0.44
Consensus pattern (87 bp):
ATTAAAATTAAATAAAATTTGTTTCGGGATTTATTCCCGCCGTTCAACGGATTTTATTCTAATTT
TGATTTTATTTCCAAAACGAGT
Found at i:32266182 original size:87 final size:86
Alignment explanation
Indices: 32266062--32266321 Score: 308
Period size: 87 Copynumber: 3.0 Consensus size: 86
32266052 CCAAAATGAG
* * * * *
32266062 AAACGAGATTTAATTCAATTTAATACTCATTTTGGAAACAAAATAAAAAATGAAATAAAATTTGT
1 AAAC-AGATTTTATTTAATTTAATACTCGTTTTGGAAATAAAATAAAAAATGAAATAAAATCTGT
* *
32266127 TGAACGGTGGGAATAAATCTTA
65 TGAACGGCGGGAATAAATCCTA
* *
32266149 AAACAGATTTTATTTAATTTTAATACTCGTTTTGAAAATAAAATAAAAAATGGAATAAAATCTGT
1 AAACAGATTTTATTTAA-TTTAATACTCGTTTTGGAAATAAAATAAAAAATGAAATAAAATCTGT
* *
32266214 TGAATGGCGGGAATAAATCCTG
65 TGAACGGCGGGAATAAATCCTA
* * *
32266236 AAATAGATTTTATTTAACTTTAATTCTCG-TTTGGAAATAAAATAAAATAAAATG-AATAAAACC
1 AAACAGATTTTATTTAA-TTTAATACTCGTTTTGGAAATAAAAT--AA-AAAATGAAATAAAATC
* *
32266299 CGTTGAACTGCGGGAATAAATCC
62 TGTTGAACGGCGGGAATAAATCC
32266322 CAATTTTAAT
Statistics
Matches: 150, Mismatches: 19, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
86 24 0.16
87 90 0.60
88 30 0.20
89 6 0.04
ACGTcount: A:0.45, C:0.09, G:0.14, T:0.32
Consensus pattern (86 bp):
AAACAGATTTTATTTAATTTAATACTCGTTTTGGAAATAAAATAAAAAATGAAATAAAATCTGTT
GAACGGCGGGAATAAATCCTA
Found at i:32266472 original size:20 final size:21
Alignment explanation
Indices: 32266447--32266489 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
32266437 CATGTTAGCT
32266447 AACAAATATGAATAT-AAATA
1 AACAAATATGAATATAAAATA
**
32266467 AACAAATATTTATATAAAATA
1 AACAAATATGAATATAAAATA
32266488 AA
1 AA
32266490 ATAAATACTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.65, C:0.05, G:0.02, T:0.28
Consensus pattern (21 bp):
AACAAATATGAATATAAAATA
Found at i:32268683 original size:3 final size:3
Alignment explanation
Indices: 32268670--32268732 Score: 51
Period size: 3 Copynumber: 21.0 Consensus size: 3
32268660 TTATTTACTC
* * *
32268670 ATT ATT A-T ATT ATT -GT ATT A-T ACT ATT AGTT TTGT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT AT-T ATT ATT ATT
32268714 ATT ATTT ATT ATT ATT ATT
1 ATT A-TT ATT ATT ATT ATT
32268733 TATTCACTTA
Statistics
Matches: 49, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
2 5 0.10
3 37 0.76
4 7 0.14
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:32268689 original size:16 final size:17
Alignment explanation
Indices: 32268670--32268732 Score: 60
Period size: 16 Copynumber: 3.7 Consensus size: 17
32268660 TTATTTACTC
32268670 ATTATTA-TATTATTGT
1 ATTATTACTATTATTGT
32268686 ATTA-TACTATTAGTTTTGT
1 ATTATTACTATTA---TTGT
*
32268705 ATTATTATTATTATT-T
1 ATTATTACTATTATTGT
*
32268721 ATTATTATTATT
1 ATTATTACTATT
32268733 TATTCACTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 10
0.79 0.02 0.19
Matches are distributed among these distances:
15 2 0.05
16 22 0.54
17 2 0.05
19 8 0.20
20 7 0.17
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.63
Consensus pattern (17 bp):
ATTATTACTATTATTGT
Found at i:32268690 original size:13 final size:14
Alignment explanation
Indices: 32268672--32268736 Score: 64
Period size: 13 Copynumber: 4.9 Consensus size: 14
32268662 ATTTACTCAT
32268672 TATTATATTATT-G
1 TATTATATTATTAG
*
32268685 TATTATACTATTAG
1 TATTATATTATTAG
* * *
32268699 TTTTGTATTATTAT
1 TATTATATTATTAG
*
32268713 TATTAT-TTATTAT
1 TATTATATTATTAG
32268726 TATTAT-TTATT
1 TATTATATTATT
32268737 CACTTATACC
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
13 29 0.66
14 15 0.34
ACGTcount: A:0.29, C:0.02, G:0.05, T:0.65
Consensus pattern (14 bp):
TATTATATTATTAG
Found at i:32268726 original size:19 final size:19
Alignment explanation
Indices: 32268660--32268732 Score: 64
Period size: 19 Copynumber: 3.9 Consensus size: 19
32268650 CTTTTTATAT
*
32268660 TTATTTACTCATTATTA-TA
1 TTATTTA-TTATTATTATTA
*
32268679 TTATTGTATTA-TACTATTA
1 TTATT-TATTATTATTATTA
* *
32268698 GT-TTT-GTATTATTATTA
1 TTATTTATTATTATTATTA
32268715 TTATTTATTATTATTATT
1 TTATTTATTATTATTATT
32268733 TATTCACTTA
Statistics
Matches: 42, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
16 2 0.05
17 9 0.21
18 9 0.21
19 20 0.48
20 2 0.05
ACGTcount: A:0.29, C:0.04, G:0.04, T:0.63
Consensus pattern (19 bp):
TTATTTATTATTATTATTA
Found at i:32268971 original size:12 final size:12
Alignment explanation
Indices: 32268956--32268991 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
32268946 ATATTTTTAT
*
32268956 ATATTTATATAC
1 ATATCTATATAC
*
32268968 ATATCTATATAT
1 ATATCTATATAC
32268980 ATATCTATATAC
1 ATATCTATATAC
32268992 CTTTCTATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.42, C:0.11, G:0.00, T:0.47
Consensus pattern (12 bp):
ATATCTATATAC
Found at i:32274292 original size:89 final size:89
Alignment explanation
Indices: 32274072--32274293 Score: 302
Period size: 89 Copynumber: 2.5 Consensus size: 89
32274062 AAAATAATAT
** * *
32274072 ATCTTGTCTTCCTGTACCGGCAGC-AAAGCAGATCAAAGACACCAGCCTGACCTCCTTGAGTTTG
1 ATCTTGTCTTCCTGTACTAGCAGCGAAA-CAGATCGAAGACACCAGCCTGACCTCCCTGAGTTTG
**
32274136 CAGTGGAACAGACTGAAGATAGTAG
65 CAGCAGAACAGACTGAAGATAGTAG
* *
32274161 ATCTTGTCTTCCTGTACTAGCAGCGAAACAGATCGAAAACACCAGCTTGACCTCCCTGAGTTTGC
1 ATCTTGTCTTCCTGTACTAGCAGCGAAACAGATCGAAGACACCAGCCTGACCTCCCTGAGTTTGC
*
32274226 AGCAGAACAGACTGAAGATATTAG
66 AGCAGAACAGACTGAAGATAGTAG
* * ** *
32274250 ATCTTGTCTTCCTGTATTAGCAGTGAAGTAGATTGAAGACACCA
1 ATCTTGTCTTCCTGTACTAGCAGCGAAACAGATCGAAGACACCA
32274294 ATCATATCTC
Statistics
Matches: 117, Mismatches: 15, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
89 114 0.97
90 3 0.03
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.25
Consensus pattern (89 bp):
ATCTTGTCTTCCTGTACTAGCAGCGAAACAGATCGAAGACACCAGCCTGACCTCCCTGAGTTTGC
AGCAGAACAGACTGAAGATAGTAG
Found at i:32274331 original size:89 final size:89
Alignment explanation
Indices: 32274034--32274272 Score: 284
Period size: 89 Copynumber: 2.7 Consensus size: 89
32274024 CAAGTCTTAT
* * * * * * * **
32274034 CTCCCTGAAATTGTAGCGGAATAGACTAAAAATAATATATCTTGTCTTCCTGTACCGGCAGC-AA
1 CTCCCTGAGATTGCAGCGGAACAGACTGAAGATAGTAGATCTTGTCTTCCTGTACTAGCAGCGAA
*
32274098 AGCAGATC-AAAGACACCAGCCTGAC
66 A-CAGATCGAAA-ACACCAGCATGAC
* * *
32274123 CTCCTTGAGTTTGCAGTGGAACAGACTGAAGATAGTAGATCTTGTCTTCCTGTACTAGCAGCGAA
1 CTCCCTGAGATTGCAGCGGAACAGACTGAAGATAGTAGATCTTGTCTTCCTGTACTAGCAGCGAA
*
32274188 ACAGATCGAAAACACCAGCTTGAC
66 ACAGATCGAAAACACCAGCATGAC
* * * *
32274212 CTCCCTGAGTTTGCAGCAGAACAGACTGAAGATATTAGATCTTGTCTTCCTGTATTAGCAG
1 CTCCCTGAGATTGCAGCGGAACAGACTGAAGATAGTAGATCTTGTCTTCCTGTACTAGCAG
32274273 TGAAGTAGAT
Statistics
Matches: 130, Mismatches: 18, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
89 124 0.95
90 6 0.05
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.26
Consensus pattern (89 bp):
CTCCCTGAGATTGCAGCGGAACAGACTGAAGATAGTAGATCTTGTCTTCCTGTACTAGCAGCGAA
ACAGATCGAAAACACCAGCATGAC
Found at i:32274488 original size:99 final size:99
Alignment explanation
Indices: 32274312--32274496 Score: 264
Period size: 99 Copynumber: 1.9 Consensus size: 99
32274302 TCTTTGGCAT
*
32274312 TGCAGGGGAACAGATTGAAGCTACAACGGCGAATCTTGTTCCCCAACATTGCAATTTAAAAGATT
1 TGCAGGGGAACAGATTGAAGCTACAACGGCGAATCTTGTTCCCCAACATTGCAATTTAAAAAATT
** *
32274377 GAAGCCGTAACGGCGAATCTTACTTCCCTGGCGG
66 GAAGCCACAACGGCAAATCTTACTTCCCTGGCGG
* * * * *
32274411 TGCAGTGGAACATATTGAAGCTACAATGGTGAATCTTGTTCCCCGACATTGCAA-TTAAACAAAT
1 TGCAGGGGAACAGATTGAAGCTACAACGGCGAATCTTGTTCCCCAACATTGCAATTTAAA-AAAT
*
32274475 TGAAGCTACAACGGCAAATCTT
65 TGAAGCCACAACGGCAAATCTT
32274497 GTTCCCCGAC
Statistics
Matches: 75, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
98 5 0.07
99 70 0.93
ACGTcount: A:0.32, C:0.22, G:0.22, T:0.25
Consensus pattern (99 bp):
TGCAGGGGAACAGATTGAAGCTACAACGGCGAATCTTGTTCCCCAACATTGCAATTTAAAAAATT
GAAGCCACAACGGCAAATCTTACTTCCCTGGCGG
Found at i:32274543 original size:49 final size:49
Alignment explanation
Indices: 32274323--32274631 Score: 235
Period size: 49 Copynumber: 6.2 Consensus size: 49
32274313 GCAGGGGAAC
* *
32274323 AGATTGAAGCTACAACGGCGAATCTTGTTCCCCAACATTGCAATTTAAA
1 AGATTGAAGCTACAACGGCGAATCTTGTTCCCCGACATTGCAATTAAAA
*** * * * ** * ** *
32274372 AGATTGAAGCCGTAACGGCGAATCTTACTTCCCTGGCGGTGCAGTGGAAC
1 AGATTGAAGCTACAACGGCGAATCTT-GTTCCCCGACATTGCAATTAAAA
* * *
32274422 ATATTGAAGCTACAATGGTGAATCTTGTTCCCCGACATTGCAATTAAACA
1 AGATTGAAGCTACAACGGCGAATCTTGTTCCCCGACATTGCAATTAAA-A
* *
32274472 A-ATTGAAGCTACAACGGCAAATCTTGTTCCCCGACATTGTAATTAAAA
1 AGATTGAAGCTACAACGGCGAATCTTGTTCCCCGACATTGCAATTAAAA
* ** * * ** *
32274520 AGATTGAAGCCACAACGGTAAATCTTACTTCCCTGACGGTGC-AGTAGAAA
1 AGATTGAAGCTACAACGGCGAATCTT-GTTCCCCGACATTGCAATTA-AAA
*** * * * * * *
32274570 AGATTGAAGCCGTAACGACGAATTTTACTTCCCCGATATTACAGTTAAAA
1 AGATTGAAGCTACAACGGCGAATCTT-GTTCCCCGACATTGCAATTAAAA
32274620 AGATTGAAGCTA
1 AGATTGAAGCTA
32274632 TACATTACAG
Statistics
Matches: 199, Mismatches: 55, Indels: 11
0.75 0.21 0.04
Matches are distributed among these distances:
48 2 0.01
49 104 0.52
50 91 0.46
51 2 0.01
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.26
Consensus pattern (49 bp):
AGATTGAAGCTACAACGGCGAATCTTGTTCCCCGACATTGCAATTAAAA
Found at i:32274934 original size:129 final size:130
Alignment explanation
Indices: 32274640--32274938 Score: 395
Period size: 131 Copynumber: 2.3 Consensus size: 130
32274630 TATACATTAC
**** * *
32274640 AGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGGCCACATCCAGTCTTATCTCCCTGAAGTTGCA
1 AGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTGCACCCAGTCTTATCTCCCTGAAATTGCA
* *
32274705 GAGGGAGCAGACAGAAAAAAAACCAATCCTATCTCCCTGAAGTTACATTGGAGAGGATTAAACCA
66 GAGGGAGCAGACA-AAAAAAAACCAATCCTATCTCCCTGAAATTACAGTGGAGAGGATTAAACCA
32274770 T
130 T
* *
32274771 AGATTTTATCTCTCTGAAGTTACAGTAGAGCAGATTGCACCCAGTCTTATCTCCCTGAAATTGCA
1 AGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTGCACCCAGTCTTATCTCCCTGAAATTGCA
* * * ** * **
32274836 -ATGGAGCAGAC-AAAAGAAGCCAATCCTATCTCCCTGAAATTGTAGTGGAGCGGATTAAAATGA
66 GAGGGAGCAGACAAAAAAAAACCAATCCTATCTCCCTGAAATTACAGTGGAGAGGATT-AAACCA
32274899 T
130 T
*
32274900 AGATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATTGCA
1 AGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTGCA
32274939 TCAGAATTTA
Statistics
Matches: 146, Mismatches: 21, Indels: 4
0.85 0.12 0.02
Matches are distributed among these distances:
128 38 0.26
129 41 0.28
130 10 0.07
131 57 0.39
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.26
Consensus pattern (130 bp):
AGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTGCACCCAGTCTTATCTCCCTGAAATTGCA
GAGGGAGCAGACAAAAAAAAACCAATCCTATCTCCCTGAAATTACAGTGGAGAGGATTAAACCAT
Found at i:32274964 original size:129 final size:129
Alignment explanation
Indices: 32274640--32274965 Score: 354
Period size: 129 Copynumber: 2.5 Consensus size: 129
32274630 TATACATTAC
**** * * *
32274640 AGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGGCCACATCCAGTCTTATCTCCCTGAAGTTGCA
1 AGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTGCAT-CAGTCTTATTTCCTTAAAGTTGCA
* *
32274705 GAGGGAGCAGACAGAAAAAAAACCAATCCTATCTCCCTGAAGTTACATTGGAGAGGATTAAACCA
65 GAGGGAGCAGACA-AAAAAAAACCAATCCTATCTCCCTGAAATTACAGTGGAGAGGATTAAACCA
32274770 T
129 T
* * * * *
32274771 AGATTTTATCTCTCTGAAGTTACAGTAGAGCAGATTGCACCCAGTCTTATCTCCCTGAAA-TTGC
1 AGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTGCA-TCAGTCTTAT-TTCCTTAAAGTTGC
* * * ** * **
32274835 A-ATGGAGCAGAC-AAAAGAAGCCAATCCTATCTCCCTGAAATTGTAGTGGAGCGGATTAAAATG
64 AGAGGGAGCAGACAAAAAAAAACCAATCCTATCTCCCTGAAATTACAGTGGAGAGGATT-AAACC
32274898 AT
128 AT
*
32274900 AGATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATTGCATCAGAAT-TTATTTCCTTAAAGTTGC
1 AGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTGCATCAG--TCTTATTTCCTTAAAGTTGC
32274964 AG
64 AG
32274966 TTGAAGCTAC
Statistics
Matches: 160, Mismatches: 28, Indels: 15
0.79 0.14 0.07
Matches are distributed among these distances:
128 48 0.30
129 50 0.31
130 11 0.07
131 47 0.29
132 4 0.03
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (129 bp):
AGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTGCATCAGTCTTATTTCCTTAAAGTTGCAG
AGGGAGCAGACAAAAAAAAACCAATCCTATCTCCCTGAAATTACAGTGGAGAGGATTAAACCAT
Found at i:32275381 original size:18 final size:19
Alignment explanation
Indices: 32275348--32275386 Score: 55
Period size: 18 Copynumber: 2.1 Consensus size: 19
32275338 AATACAAATT
32275348 AACCCTCAGCCCAAA-CTA
1 AACCCTCAGCCCAAACCTA
32275366 AACCCT-AGCCCAAAACCTA
1 AACCCTCAGCCC-AAACCTA
32275385 AA
1 AA
32275387 GTAATTTTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 5 0.26
18 9 0.47
19 5 0.26
ACGTcount: A:0.44, C:0.41, G:0.05, T:0.10
Consensus pattern (19 bp):
AACCCTCAGCCCAAACCTA
Found at i:32276604 original size:3 final size:3
Alignment explanation
Indices: 32276591--32276653 Score: 55
Period size: 3 Copynumber: 22.0 Consensus size: 3
32276581 TTATTTACTC
* *
32276591 ATT ATT A-T ATT ATT -GT ATT A-T ACT ATT ATT -TT -TGT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT
32276632 ATT ATT ATT ATTT ATT ATT ATT
1 ATT ATT ATT A-TT ATT ATT ATT
32276654 TATTCACTTA
Statistics
Matches: 51, Mismatches: 3, Indels: 12
0.77 0.05 0.18
Matches are distributed among these distances:
2 8 0.16
3 39 0.76
4 4 0.08
ACGTcount: A:0.30, C:0.02, G:0.03, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:32276610 original size:16 final size:17
Alignment explanation
Indices: 32276591--32276653 Score: 76
Period size: 16 Copynumber: 3.7 Consensus size: 17
32276581 TTATTTACTC
32276591 ATTATTA-TATTATTGT
1 ATTATTATTATTATTGT
*
32276607 ATTATACTATTATTTTTGT
1 ATTAT--TATTATTATTGT
*
32276626 ATTATTATTATTATTAT
1 ATTATTATTATTATTGT
32276643 -TTATTATTATT
1 ATTATTATTATT
32276654 TATTCACTTA
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
16 16 0.39
17 10 0.24
18 2 0.05
19 13 0.32
ACGTcount: A:0.30, C:0.02, G:0.03, T:0.65
Consensus pattern (17 bp):
ATTATTATTATTATTGT
Found at i:32276650 original size:19 final size:20
Alignment explanation
Indices: 32276591--32276653 Score: 87
Period size: 19 Copynumber: 3.3 Consensus size: 20
32276581 TTATTTACTC
32276591 ATTATTA-TATTATTGTATT
1 ATTATTATTATTATTGTATT
* *
32276610 A-TACTATTATTTTTGTATT
1 ATTATTATTATTATTGTATT
32276629 ATTATTATTATTATT-TATT
1 ATTATTATTATTATTGTATT
32276648 ATTATT
1 ATTATT
32276654 TATTCACTTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
18 4 0.11
19 23 0.61
20 11 0.29
ACGTcount: A:0.30, C:0.02, G:0.03, T:0.65
Consensus pattern (20 bp):
ATTATTATTATTATTGTATT
Found at i:32276763 original size:16 final size:16
Alignment explanation
Indices: 32276744--32276781 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
32276734 TTTCTACAAT
32276744 TTATATATATACATAC
1 TTATATATATACATAC
* *
32276760 TTATATATATATATAT
1 TTATATATATACATAC
32276776 TTATAT
1 TTATAT
32276782 TCTATAATCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (16 bp):
TTATATATATACATAC
Found at i:32282723 original size:14 final size:15
Alignment explanation
Indices: 32282697--32282728 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
32282687 AATTAATTTA
32282697 AAATTTCATTTAATT
1 AAATTTCATTTAATT
32282712 AAATTT-ATTTAATT
1 AAATTTCATTTAATT
32282726 AAA
1 AAA
32282729 AACCTATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (15 bp):
AAATTTCATTTAATT
Found at i:32285455 original size:18 final size:18
Alignment explanation
Indices: 32285426--32285466 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
32285416 TCTTTTCATA
32285426 ATTTTTTATGAACTTTTAT
1 ATTTTTTATGAA-TTTTAT
*
32285445 ATTTTTT-TGAATTTTTT
1 ATTTTTTATGAATTTTAT
32285462 ATTTT
1 ATTTT
32285467 GAACATTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 10 0.48
18 4 0.19
19 7 0.33
ACGTcount: A:0.22, C:0.02, G:0.05, T:0.71
Consensus pattern (18 bp):
ATTTTTTATGAATTTTAT
Found at i:32294022 original size:20 final size:21
Alignment explanation
Indices: 32293981--32294022 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 21
32293971 TTTTTAAACG
32293981 ATATTTTTAATTAAGATTTTA
1 ATATTTTTAATTAAGATTTTA
32294002 ATATTTTT-ATTAA-ATTCTTA
1 ATATTTTTAATTAAGATT-TTA
32294022 A
1 A
32294023 CATTAACATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 3 0.15
20 9 0.45
21 8 0.40
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.57
Consensus pattern (21 bp):
ATATTTTTAATTAAGATTTTA
Found at i:32301270 original size:35 final size:36
Alignment explanation
Indices: 32301227--32301380 Score: 235
Period size: 37 Copynumber: 4.4 Consensus size: 36
32301217 NNNNNNGACA
*
32301227 AAAGTGATAAGTGGCTACAC-TATCTGATCAGAGAC
1 AAAGTGATAAGTGGCTACACTTATCTGATCAGAAAC
32301262 AAAGTGAT-AGTGGCTACAC-TATCTGATCAGAAAC
1 AAAGTGATAAGTGGCTACACTTATCTGATCAGAAAC
32301296 AAAGTGATAAGTGGCTACACTTATCTGATCAAGAAAC
1 AAAGTGATAAGTGGCTACACTTATCTGATC-AGAAAC
* **
32301333 AAAGTGATAGGTGGCTACACTTATCTGATCAGGGAC
1 AAAGTGATAAGTGGCTACACTTATCTGATCAGAAAC
32301369 -AAGTGATAAGTG
1 AAAGTGATAAGTG
32301381 ATCATACGTA
Statistics
Matches: 111, Mismatches: 5, Indels: 6
0.91 0.04 0.05
Matches are distributed among these distances:
34 33 0.30
35 30 0.27
36 13 0.12
37 35 0.32
ACGTcount: A:0.37, C:0.16, G:0.23, T:0.24
Consensus pattern (36 bp):
AAAGTGATAAGTGGCTACACTTATCTGATCAGAAAC
Found at i:32307418 original size:40 final size:40
Alignment explanation
Indices: 32307374--32307487 Score: 210
Period size: 40 Copynumber: 2.9 Consensus size: 40
32307364 ATTTTTGAGG
32307374 ATATGCAATCTTAGATATGATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGATATGCAATCTTAGATATGAT
32307414 ATATGCAATCTTAGATATGATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGATATGCAATCTTAGATATGAT
* *
32307454 ATGTGCAATCTTGGATATGATATGCAATCTTAGA
1 ATATGCAATCTTAGATATGATATGCAATCTTAGA
32307488 AGATATGATT
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 72 1.00
ACGTcount: A:0.36, C:0.11, G:0.17, T:0.37
Consensus pattern (40 bp):
ATATGCAATCTTAGATATGATATGCAATCTTAGATATGAT
Found at i:32307419 original size:21 final size:19
Alignment explanation
Indices: 32307373--32307487 Score: 185
Period size: 19 Copynumber: 5.8 Consensus size: 19
32307363 AATTTTTGAG
32307373 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
32307392 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
32307411 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
32307432 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
32307451 GATATGTGCAATCTTGGATAT
1 GATA--TGCAATCTTAGATAT
32307472 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
32307488 AGATATGATT
Statistics
Matches: 90, Mismatches: 2, Indels: 8
0.90 0.02 0.08
Matches are distributed among these distances:
19 53 0.59
21 37 0.41
ACGTcount: A:0.36, C:0.10, G:0.17, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:32307440 original size:59 final size:56
Alignment explanation
Indices: 32307373--32307494 Score: 183
Period size: 59 Copynumber: 2.1 Consensus size: 56
32307363 AATTTTTGAG
32307373 GATATGCAATCTTAGATATGATA-TGCAATCTTAGATATGATATATGCAATCTTAGATA
1 GATATGCAATCTTAGATATGATAGTGCAATCTTAGATATG--ATATGCAATCTTAGA-A
*
32307431 TGATATGCAATCTTAGATATGATATGTGCAATCTTGGATATGATATGCAATCTTAGAA
1 -GATATGCAATCTTAGATATGATA-GTGCAATCTTAGATATGATATGCAATCTTAGAA
32307489 GATATG
1 GATATG
32307495 ATTTTGTAAT
Statistics
Matches: 60, Mismatches: 1, Indels: 6
0.90 0.01 0.09
Matches are distributed among these distances:
57 6 0.10
58 1 0.02
59 38 0.63
61 15 0.25
ACGTcount: A:0.36, C:0.10, G:0.18, T:0.36
Consensus pattern (56 bp):
GATATGCAATCTTAGATATGATAGTGCAATCTTAGATATGATATGCAATCTTAGAA
Found at i:32308779 original size:13 final size:13
Alignment explanation
Indices: 32308763--32308788 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
32308753 TATTTTGCCC
32308763 TAATTCATTTTTG
1 TAATTCATTTTTG
32308776 TAATTCATTTTTG
1 TAATTCATTTTTG
32308789 GGGAAAATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.08, G:0.08, T:0.62
Consensus pattern (13 bp):
TAATTCATTTTTG
Found at i:32313169 original size:132 final size:132
Alignment explanation
Indices: 32312979--32313759 Score: 1251
Period size: 132 Copynumber: 5.9 Consensus size: 132
32312969 CCTACAGCGA
*** * * *
32312979 AGCAGATCGAAGATGGCGGATTTTACCTTATTGTGGTTACAGTGTAGTACATTAAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAAT
*
32313044 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTTAGATCTTATCTCCCTAAGCAGTAGT
66 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
32313109 GG
131 GG
*
32313111 AGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAAT
*
32313176 TCTACTTTCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
66 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
32313241 GG
131 GG
*
32313243 AGCAGATCGAAGATGGCGGATTTTACCTCTCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAAT
* *
32313308 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCACCTTAAGCAGTAGT
66 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
*
32313373 GC
131 GG
* * *
32313375 ACCTCGATCGAAGATGGCGGATTTTCCCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAA
1 AGC-AGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAA
*
32313440 TTCTACTTCCCTGGACAATAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAG
65 TTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAG
32313505 TGG
130 TGG
*
32313508 AGCAGATCGAAGATGGTGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAAT
*
32313573 TCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
66 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
32313638 GG
131 GG
* * * * *
32313640 AGTAGATCAAAGATGGTGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAATAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAAT
* * * * * *
32313705 CCT-CTCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGCA-AGTATTATCTCCCT
66 TCTACT-TCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGA-TCTTATCTCCCT
32313760 GCAGTTGCAG
Statistics
Matches: 607, Mismatches: 39, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
131 3 0.00
132 480 0.79
133 124 0.20
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.30
Consensus pattern (132 bp):
AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAAT
TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
GG
Found at i:32313505 original size:265 final size:264
Alignment explanation
Indices: 32312979--32313759 Score: 1246
Period size: 265 Copynumber: 3.0 Consensus size: 264
32312969 CCTACAGCGA
* * * *
32312979 AGCAGATCGAAGATGGCGGATTTTACCT-TATTGTGGTTACAGTGTAGTACATTAAAGCCAGTAA
1 AGCAGATCGAAGATGGCGGATTTTACCTCT-CTGTGGTTATAGTGGAGTACATTGAAGCCAGTAA
*
32313043 TTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTTAGATCTTATCTCCCTAAGCAGTAG
65 TTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAG
*
32313108 TGGAGC-AGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAG
130 TGGA-CTAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAG
*
32313172 TAATTCTACTTTCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAG
194 TAATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAG
32313237 TAGTGG
259 TAGTGG
32313243 AGCAGATCGAAGATGGCGGATTTTACCTCTCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCTCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAAT
* *
32313308 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCACCTTAAGCAGTAGT
66 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
* * *
32313373 GCACCTCGATCGAAGATGGCGGATTTTCCCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGT
131 GGA-CTAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGT
*
32313438 AATTCTACTTCCCTGGACAATAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGT
195 AATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGT
32313503 AGTGG
260 AGTGG
* *
32313508 AGCAGATCGAAGATGGTGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCTCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAAT
*
32313573 TCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
66 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
* * * * *
32313638 GGAGTAGATCAAAGATGGTGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAATA
131 GGACTAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTA
* * * * * *
32313703 ATCCT-CTCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGCA-AGTATTATCTCCCT
196 ATTCTACT-TCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGA-TCTTATCTCCCT
32313760 GCAGTTGCAG
Statistics
Matches: 479, Mismatches: 34, Indels: 8
0.92 0.07 0.02
Matches are distributed among these distances:
263 3 0.01
264 224 0.47
265 252 0.53
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.30
Consensus pattern (264 bp):
AGCAGATCGAAGATGGCGGATTTTACCTCTCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAAT
TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
GGACTAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTA
ATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTA
GTGG
Found at i:32313507 original size:44 final size:44
Alignment explanation
Indices: 32313458--32313646 Score: 113
Period size: 44 Copynumber: 4.3 Consensus size: 44
32313448 CCCTGGACAA
*
32313458 TAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAG
1 TAGTGGAGTAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAG
* * * * * * ** *
32313502 TAGTGGAGCAGATCGAAGATGGT-GGATTTTACCTCCCTGTGGTTA-
1 TAGTGGAGTAGATTGAAGAT-TTCAGATCTTATCTCCCT-AAG-CAG
* * ** *
32313547 TAGTGGAGTACATTGAAG---CCAGTAAT-TCTA-CTTCCCTGGGCAA
1 TAGTGGAGTAGATTGAAGATTTCAG--ATCT-TATC-TCCCTAAGCAG
* *
32313590 CAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAG
1 TAGTGGAGTAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAG
32313634 TAGTGGAGTAGAT
1 TAGTGGAGTAGAT
32313647 CAAAGATGGT
Statistics
Matches: 105, Mismatches: 26, Indels: 28
0.66 0.16 0.18
Matches are distributed among these distances:
42 2 0.02
43 19 0.18
44 61 0.58
45 19 0.18
46 4 0.04
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (44 bp):
TAGTGGAGTAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAG
Found at i:32313717 original size:397 final size:397
Alignment explanation
Indices: 32312983--32313742 Score: 1297
Period size: 397 Copynumber: 1.9 Consensus size: 397
32312973 CAGCGAAGCA
* * *
32312983 GATCGAAGATGGCGGATTTTACCTTATTGTGGTTACAGTGTAGTACATTAAAGCCAGTAATTCTA
1 GATCGAAGATGGCGGATTTTACCTCACTGTGGTTACAGTGGAGTACATTAAAGCCAGTAATTCTA
*
32313048 CTTCCCTGGACAACAGTGGAATAGATTGAAGATTTTAGATCTTATCTCCCTAAGCAGTAGTGGAG
66 CTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAG
32313113 CAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAATTC
131 CAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAATTC
*
32313178 TACTTTCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGG
196 TACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGG
* * * *
32313243 AGCAGATCGAAGATGGCGGATTTTACCTCTCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAAT
261 AGCAGATCAAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAATAAT
*
32313308 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCACCTTAAGCAGTAGT
326 CCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCACCTTAAGCAGTAGT
32313373 GCACCTC
391 GCACCTC
* * * *
32313380 GATCGAAGATGGCGGATTTTCCCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAATTCTA
1 GATCGAAGATGGCGGATTTTACCTCACTGTGGTTACAGTGGAGTACATTAAAGCCAGTAATTCTA
*
32313445 CTTCCCTGGACAATAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAG
66 CTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAG
**
32313510 CAGATCGAAGATGGTGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAATTC
131 CAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAATTC
*
32313575 TACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGG
196 TACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGG
* *
32313640 AGTAGATCAAAGATGGTGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAATAAT
261 AGCAGATCAAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAATAAT
* * *
32313705 CCT-CTCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATT
326 CCTACT-TCCCTGGACAACAGTGGAATAGATTGAAGATT
32313743 GCAAGTATTA
Statistics
Matches: 339, Mismatches: 23, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
396 2 0.01
397 337 0.99
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.30
Consensus pattern (397 bp):
GATCGAAGATGGCGGATTTTACCTCACTGTGGTTACAGTGGAGTACATTAAAGCCAGTAATTCTA
CTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAG
CAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAATTC
TACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGG
AGCAGATCAAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAATAAT
CCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCACCTTAAGCAGTAGT
GCACCTC
Found at i:32314014 original size:21 final size:21
Alignment explanation
Indices: 32313989--32314064 Score: 120
Period size: 21 Copynumber: 3.7 Consensus size: 21
32313979 ATTTTTGAGG
32313989 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
32314010 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
* *
32314031 ATGTGCAATCTTGGATATG--
1 ATATGCAATCTTAGATATGAT
32314050 ATATGCAATCTTAGA
1 ATATGCAATCTTAGA
32314065 AGATATGATT
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
19 13 0.25
21 38 0.75
ACGTcount: A:0.36, C:0.11, G:0.17, T:0.37
Consensus pattern (21 bp):
ATATGCAATCTTAGATATGAT
Found at i:32314084 original size:42 final size:41
Alignment explanation
Indices: 32313992--32314071 Score: 121
Period size: 40 Copynumber: 2.0 Consensus size: 41
32313982 TTTGAGGATA
32313992 TGCAATCTTAGATATGATATATGCAATCTTAGATATGATATG
1 TGCAATCTTAGATATGA-ATATGCAATCTTAGATATGATATG
*
32314034 TGCAATCTTGGATATG-ATATGCAATCTTAGA-A-GATATG
1 TGCAATCTTAGATATGAATATGCAATCTTAGATATGATATG
32314072 ATTTTGTAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
38 6 0.16
39 1 0.03
40 15 0.41
42 15 0.41
ACGTcount: A:0.35, C:0.10, G:0.19, T:0.36
Consensus pattern (41 bp):
TGCAATCTTAGATATGAATATGCAATCTTAGATATGATATG
Found at i:32314100 original size:21 final size:23
Alignment explanation
Indices: 32314056--32314100 Score: 58
Period size: 21 Copynumber: 2.0 Consensus size: 23
32314046 TATGATATGC
*
32314056 AATCTTAGAAGATATGATTTTGT
1 AATCTTAGAAGATATGAATTTGT
*
32314079 AATCTTA-AAGAT-TTAATTTGT
1 AATCTTAGAAGATATGAATTTGT
32314100 A
1 A
32314101 GATACCCTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 8 0.40
22 5 0.25
23 7 0.35
ACGTcount: A:0.38, C:0.04, G:0.13, T:0.44
Consensus pattern (23 bp):
AATCTTAGAAGATATGAATTTGT
Found at i:32314990 original size:22 final size:22
Alignment explanation
Indices: 32314962--32315114 Score: 225
Period size: 22 Copynumber: 7.0 Consensus size: 22
32314952 TGTTGATAGT
*
32314962 ACGTACTAAGCTCTCATGTTTC
1 ACGTACTAAGCTCTCATGTTTA
32314984 ACGTACTAAGCTCTCATGTTTA
1 ACGTACTAAGCTCTCATGTTTA
32315006 ACGTACTAAGCTCTCATGTTTA
1 ACGTACTAAGCTCTCATGTTTA
* * * **
32315028 ACGAACTAAACCCTCATGGCTA
1 ACGTACTAAGCTCTCATGTTTA
**
32315050 ACGTACTAAGCTCTCATGGCTA
1 ACGTACTAAGCTCTCATGTTTA
*
32315072 ACGTACTAAGCTCTCATGTTTC
1 ACGTACTAAGCTCTCATGTTTA
32315094 ACGTACTAAGCTCTCATGTTT
1 ACGTACTAAGCTCTCATGTTT
32315115 GAACAATAAA
Statistics
Matches: 119, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 119 1.00
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.33
Consensus pattern (22 bp):
ACGTACTAAGCTCTCATGTTTA
Found at i:32319539 original size:18 final size:17
Alignment explanation
Indices: 32319511--32319555 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
32319501 AATCCAAAAT
*
32319511 AAATTTTTAAAATTCAA
1 AAATTTATAAAATTCAA
*
32319528 AATATTTATAAAAATTCCA
1 AA-ATTTAT-AAAATTCAA
32319547 AAATTTATA
1 AAATTTATA
32319556 TTTTTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
17 3 0.12
18 11 0.46
19 10 0.42
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (17 bp):
AAATTTATAAAATTCAA
Found at i:32319543 original size:19 final size:18
Alignment explanation
Indices: 32319519--32319555 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
32319509 ATAAATTTTT
32319519 AAAATTCAAAATATTTATA
1 AAAATTCAAAA-ATTTATA
*
32319538 AAAATTCCAAAATTTATA
1 AAAATTCAAAAATTTATA
32319556 TTTTTTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.57, C:0.08, G:0.00, T:0.35
Consensus pattern (18 bp):
AAAATTCAAAAATTTATA
Found at i:32319606 original size:21 final size:20
Alignment explanation
Indices: 32319560--32319607 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 20
32319550 TTTATATTTT
*
32319560 TTAAAAAATTATAAAATAAT
1 TTAAAAAATTATAAAATAAG
32319580 TCTAAAAAATATATAAAGA-AAG
1 T-TAAAAAAT-TATAAA-ATAAG
32319602 TTAAAA
1 TTAAAA
32319608 TTTTCTAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
20 1 0.04
21 13 0.54
22 9 0.38
23 1 0.04
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.29
Consensus pattern (20 bp):
TTAAAAAATTATAAAATAAG
Found at i:32319743 original size:16 final size:17
Alignment explanation
Indices: 32319713--32319745 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
32319703 CTTTGAAAAA
32319713 GTTTTCAAATATATATG
1 GTTTTCAAATATATATG
*
32319730 GTTTT-AAATTTATATG
1 GTTTTCAAATATATATG
32319746 CTTTAACATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.33, C:0.03, G:0.12, T:0.52
Consensus pattern (17 bp):
GTTTTCAAATATATATG
Found at i:32321623 original size:24 final size:25
Alignment explanation
Indices: 32321596--32321643 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
32321586 AAAGGAAATT
32321596 TTAAAGAACATAAAA-GAAAAAAAA
1 TTAAAGAACATAAAACGAAAAAAAA
** *
32321620 TTAAATTACTTAAAACGAAAAAAA
1 TTAAAGAACATAAAACGAAAAAAA
32321644 TATGGGGATC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 12 0.60
25 8 0.40
ACGTcount: A:0.69, C:0.06, G:0.06, T:0.19
Consensus pattern (25 bp):
TTAAAGAACATAAAACGAAAAAAAA
Found at i:32324124 original size:24 final size:25
Alignment explanation
Indices: 32324092--32324164 Score: 76
Period size: 24 Copynumber: 2.9 Consensus size: 25
32324082 TGATACAAGA
*
32324092 TTTTAATATTTTAAATCAATT-TTT
1 TTTTTATATTTTAAATCAATTATTT
** *
32324116 TTTTTATATTTTATCTTAATTATTT
1 TTTTTATATTTTAAATCAATTATTT
*
32324141 TTATTTATATTTAAAATCACATTA
1 TT-TTTATATTTTAAATCA-ATTA
32324165 AAAATAAATA
Statistics
Matches: 38, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
24 17 0.45
25 5 0.13
26 12 0.32
27 4 0.11
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (25 bp):
TTTTTATATTTTAAATCAATTATTT
Found at i:32329247 original size:35 final size:35
Alignment explanation
Indices: 32329201--32329270 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
32329191 TAGTACTATG
*
32329201 TATAATATGATTGTTTGAGTTGGTATCGCGAGTTA
1 TATAATATGATTGTTTGAGTTGGTATCACGAGTTA
32329236 TATAATATGATTGTTTGAGTTGGTATCACGAGTTA
1 TATAATATGATTGTTTGAGTTGGTATCACGAGTTA
32329271 ATTCAACATC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.27, C:0.06, G:0.24, T:0.43
Consensus pattern (35 bp):
TATAATATGATTGTTTGAGTTGGTATCACGAGTTA
Found at i:32330230 original size:42 final size:42
Alignment explanation
Indices: 32330144--32330240 Score: 122
Period size: 42 Copynumber: 2.3 Consensus size: 42
32330134 AGGTTGCAAG
* ***
32330144 TCAGTGAGTTACACGGCCTAACACAAGGGCGTGTGGGGCAAC
1 TCAGAGAGTTACACGGCCTAACACAAGGGCGTGTGACCCAAC
* * * *
32330186 TCAGATAGTTACACGGCCTGACACACGGGCGTGTGACCCTAC
1 TCAGAGAGTTACACGGCCTAACACAAGGGCGTGTGACCCAAC
32330228 TCAGAGAGTTACA
1 TCAGAGAGTTACA
32330241 TGGGTGAGGA
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.27, C:0.26, G:0.29, T:0.19
Consensus pattern (42 bp):
TCAGAGAGTTACACGGCCTAACACAAGGGCGTGTGACCCAAC
Found at i:32331315 original size:7 final size:7
Alignment explanation
Indices: 32331303--32331327 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
32331293 ATCAAACTTA
32331303 CAAATAT
1 CAAATAT
32331310 CAAATAT
1 CAAATAT
32331317 CAAATAT
1 CAAATAT
32331324 CAAA
1 CAAA
32331328 GTCACACATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.16, G:0.00, T:0.24
Consensus pattern (7 bp):
CAAATAT
Found at i:32334288 original size:20 final size:20
Alignment explanation
Indices: 32334265--32334303 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
32334255 TACTTTGCTT
32334265 AAAGTATCGATACCTTTATC
1 AAAGTATCGATACCTTTATC
* *
32334285 AAAGTGTCGATATCTTTAT
1 AAAGTATCGATACCTTTAT
32334304 TCTGGTATCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.38
Consensus pattern (20 bp):
AAAGTATCGATACCTTTATC
Found at i:32343994 original size:5 final size:5
Alignment explanation
Indices: 32343986--32344020 Score: 52
Period size: 5 Copynumber: 6.6 Consensus size: 5
32343976 TAAAATTAAA
32343986 TTTAT TTTAT TAATTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT T--TTAT TTTAT TTTAT TTTAT TTT
32344021 TAAATAATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
5 23 0.82
7 5 0.18
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (5 bp):
TTTAT
Found at i:32359207 original size:38 final size:38
Alignment explanation
Indices: 32359165--32359242 Score: 156
Period size: 38 Copynumber: 2.1 Consensus size: 38
32359155 TTTTTTATAT
32359165 TTTATATTTAAAATAGTAAAAATAACATAAAAATTCTA
1 TTTATATTTAAAATAGTAAAAATAACATAAAAATTCTA
32359203 TTTATATTTAAAATAGTAAAAATAACATAAAAATTCTA
1 TTTATATTTAAAATAGTAAAAATAACATAAAAATTCTA
32359241 TT
1 TT
32359243 ATTTGTTTTC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.54, C:0.05, G:0.03, T:0.38
Consensus pattern (38 bp):
TTTATATTTAAAATAGTAAAAATAACATAAAAATTCTA
Found at i:32361359 original size:22 final size:21
Alignment explanation
Indices: 32361327--32361376 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 21
32361317 CACAGCAGCT
*
32361327 CCCGCATGTCGCGCACGTCGCC
1 CCCGCACGTCGCGCACGTCG-C
*
32361349 CCCGCACGTCGCGCACGTTGC
1 CCCGCACGTCGCGCACGTCGC
32361370 CCCGCAC
1 CCCGCAC
32361377 TCCAGTGTGT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
21 8 0.31
22 18 0.69
ACGTcount: A:0.10, C:0.52, G:0.26, T:0.12
Consensus pattern (21 bp):
CCCGCACGTCGCGCACGTCGC
Found at i:32362393 original size:2 final size:2
Alignment explanation
Indices: 32362332--32362377 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
32362322 ACACACACAC
32362332 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
32362374 AT AT
1 AT AT
32362378 TAAAATTTTA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:32362532 original size:5 final size:5
Alignment explanation
Indices: 32362513--32362553 Score: 64
Period size: 5 Copynumber: 8.2 Consensus size: 5
32362503 TTTTTTTATT
* *
32362513 TTTTA TGTTA CTTTA TTTTA TTTTA TTTTA TTTTA TTTTA T
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA T
32362554 CTTTTATTGG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
5 32 1.00
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.76
Consensus pattern (5 bp):
TTTTA
Found at i:32365650 original size:21 final size:21
Alignment explanation
Indices: 32365626--32365669 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
32365616 GACTGGTGGG
32365626 AAAGAAAATTTCAAGAGGTTC
1 AAAGAAAATTTCAAGAGGTTC
32365647 AAAGAAAATTTCAAGAGGTTC
1 AAAGAAAATTTCAAGAGGTTC
32365668 AA
1 AA
32365670 GCACGAAATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.50, C:0.09, G:0.18, T:0.23
Consensus pattern (21 bp):
AAAGAAAATTTCAAGAGGTTC
Found at i:32374235 original size:87 final size:88
Alignment explanation
Indices: 32374088--32374256 Score: 250
Period size: 87 Copynumber: 1.9 Consensus size: 88
32374078 GAAACCATAA
* * *
32374088 AGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTAAAAATAGCAGATCTTGTCTTCCTGTATTGG
1 AGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTAAAAATAGCAAATCTTGCCTTCCTGTACTGG
**
32374153 CAGCGAAGTAGATCGAATATACC
66 CAGCGAAACAGATCGAATATACC
* * *
32374176 AGCCTTGTCTCCCT-AGCAGTAGTGGAGTAGGTTGAAAATAGCAAATCTTGCCTTCCTGTACTGG
1 AGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTAAAAATAGCAAATCTTGCCTTCCTGTACTGG
*
32374240 TAGCGAAACAGATCGAA
66 CAGCGAAACAGATCGAA
32374257 GACACCCGTC
Statistics
Matches: 72, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
87 59 0.82
88 13 0.18
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (88 bp):
AGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTAAAAATAGCAAATCTTGCCTTCCTGTACTGG
CAGCGAAACAGATCGAATATACC
Found at i:32374454 original size:50 final size:49
Alignment explanation
Indices: 32374400--32374562 Score: 146
Period size: 50 Copynumber: 3.3 Consensus size: 49
32374390 ATTACAGTTA
*
32374400 AACAGATTGAAACCACAACGGCGAATCTTACTTCTCTGGCGGTGTAGTGG
1 AACAGATTGAAGCCACAACGGCGAATCTTACTTC-CTGGCGGTGTAGTGG
* * ** *** ** * * **
32374450 AACAGATTGAAGCTACGACGGCGAATCTTGTTTCCCCAACATTGCAATTA
1 AACAGATTGAAGCCACAACGGCGAATCTTACTT-CCTGGCGGTGTAGTGG
* *
32374500 AATAGATTGAAGCCACAACGACGAATCTTACTTCCTTGGCGGTGTAGTGG
1 AACAGATTGAAGCCACAACGGCGAATCTTACTTCC-TGGCGGTGTAGTGG
*
32374550 AATAGATTGAAGC
1 AACAGATTGAAGC
32374563 TACGAAGGTG
Statistics
Matches: 82, Mismatches: 29, Indels: 4
0.71 0.25 0.03
Matches are distributed among these distances:
49 2 0.02
50 79 0.96
51 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.25
Consensus pattern (49 bp):
AACAGATTGAAGCCACAACGGCGAATCTTACTTCCTGGCGGTGTAGTGG
Found at i:32374546 original size:100 final size:100
Alignment explanation
Indices: 32374397--32374611 Score: 324
Period size: 100 Copynumber: 2.1 Consensus size: 100
32374387 GGCATTACAG
* *
32374397 TTAAACAGATTGAAACCACAACGGCGAATCTTACTTCTCTGGCGGTGTAGTGGAACAGATTGAAG
1 TTAAACAGATTGAAGCCACAACGACGAATCTTACTTCTCTGGCGGTGTAGTGGAACAGATTGAAG
*
32374462 CTACGACGGCGAATCTTGTTTCCCCAACATTGCAA
66 CTACGAAGGCGAATCTTGTTTCCCCAACATTGCAA
* *
32374497 TTAAATAGATTGAAGCCACAACGACGAATCTTACTTC-CTTGGCGGTGTAGTGGAATAGATTGAA
1 TTAAACAGATTGAAGCCACAACGACGAATCTTACTTCTC-TGGCGGTGTAGTGGAACAGATTGAA
* * * *
32374561 GCTACGAAGGTGAATCTTTTTTCCCCGACATTGCAG
65 GCTACGAAGGCGAATCTTGTTTCCCCAACATTGCAA
*
32374597 TTAAACAGACTGAAG
1 TTAAACAGATTGAAG
32374612 ATCGCATCCA
Statistics
Matches: 103, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
99 1 0.01
100 102 0.99
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (100 bp):
TTAAACAGATTGAAGCCACAACGACGAATCTTACTTCTCTGGCGGTGTAGTGGAACAGATTGAAG
CTACGAAGGCGAATCTTGTTTCCCCAACATTGCAA
Found at i:32374773 original size:85 final size:85
Alignment explanation
Indices: 32374663--32374820 Score: 228
Period size: 85 Copynumber: 1.9 Consensus size: 85
32374653 ACAGAAGAAA
* * * *
32374663 CTAATCCTATTTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCACAGATCTTAT-CTCTCTGAAG
1 CTAATCCTATCTCCCTGAAGCTGCAGTGGAGCAGATTAAAACCACAAATCCTATAC-CTCTGAAG
32374727 TTGCAGTAGAGCAAATCGTAT
65 TTGCAGTAGAGCAAATCGTAT
* ** *
32374748 CTAATCCTATCTCCCTGAAGCTGCAGTGGAGCGGATTAAAATGATAAATCCTATACCTCTGAAGT
1 CTAATCCTATCTCCCTGAAGCTGCAGTGGAGCAGATTAAAACCACAAATCCTATACCTCTGAAGT
32374813 TGCAGTAG
66 TGCAGTAG
32374821 GTCGGATTAA
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
85 63 0.98
86 1 0.02
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.28
Consensus pattern (85 bp):
CTAATCCTATCTCCCTGAAGCTGCAGTGGAGCAGATTAAAACCACAAATCCTATACCTCTGAAGT
TGCAGTAGAGCAAATCGTAT
Found at i:32376431 original size:2 final size:2
Alignment explanation
Indices: 32376388--32376415 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
32376378 ATACACATAC
32376388 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
32376416 TAAAATTTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:32377507 original size:18 final size:19
Alignment explanation
Indices: 32377471--32377508 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
32377461 TTAAAGCTTT
*
32377471 ATTTTAATATTTTTTATAC
1 ATTTTAATATTTATTATAC
32377490 ATTTTAAT-TTTATTATAC
1 ATTTTAATATTTATTATAC
32377508 A
1 A
32377509 CATTTTATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (19 bp):
ATTTTAATATTTATTATAC
Done.