Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009639.1 Hibiscus syriacus cultivar Beakdansim tig00117048_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 15077257
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 22 of 62
Found at i:4759967 original size:28 final size:26
Alignment explanation
Indices: 4759930--4759996 Score: 73
Period size: 28 Copynumber: 2.5 Consensus size: 26
4759920 AAGAAACTAA
*
4759930 AAATATAATAAAAATAAATAAATAGTAT
1 AAATAAAATAAAAA-AAATAAATA-TAT
*
4759958 AAATAAAATAATAAAAAATATATATAT
1 AAATAAAATAA-AAAAAATAAATATAT
*
4759985 AAA-AATATAAAA
1 AAATAAAATAAAA
4759997 TGTATATATA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
25 2 0.06
26 6 0.17
27 6 0.17
28 18 0.51
29 3 0.09
ACGTcount: A:0.72, C:0.00, G:0.01, T:0.27
Consensus pattern (26 bp):
AAATAAAATAAAAAAAATAAATATAT
Found at i:4759981 original size:23 final size:21
Alignment explanation
Indices: 4759928--4760050 Score: 76
Period size: 21 Copynumber: 5.8 Consensus size: 21
4759918 CAAAGAAACT
4759928 AAAA-ATAT-AATAAAAATAA
1 AAAATATATAAATAAAAATAA
4759947 ATAAATAGTATAAATAAAATAATAA
1 A-AAATA-TATAAAT-AAA-AATAA
* *
4759972 AAAATATATATATAAAAATAT
1 AAAATATATAAATAAAAATAA
* * *
4759993 AAAATGTATATAT-AATATAA
1 AAAATATATAAATAAAAATAA
* **
4760013 TAAAATA-CTAAATAGTAATAA
1 -AAAATATATAAATAAAAATAA
4760034 TAATAATA-ATAAATAAA
1 -AA-AATATATAAATAAA
4760051 CGAAAAATAA
Statistics
Matches: 81, Mismatches: 14, Indels: 15
0.74 0.13 0.14
Matches are distributed among these distances:
19 1 0.01
20 12 0.15
21 29 0.36
22 16 0.20
23 9 0.11
24 8 0.10
25 6 0.07
ACGTcount: A:0.67, C:0.01, G:0.02, T:0.29
Consensus pattern (21 bp):
AAAATATATAAATAAAAATAA
Found at i:4760013 original size:44 final size:44
Alignment explanation
Indices: 4759928--4760017 Score: 121
Period size: 44 Copynumber: 2.0 Consensus size: 44
4759918 CAAAGAAACT
4759928 AAAAATATAATAAAAATAAATAAATAGTATAAATAAAATAATAA
1 AAAAATATAATAAAAATAAATAAATAGTATAAATAAAATAATAA
* * *
4759972 AAAATATATATATAAAAATATA-AAAT-GTATATATAATATAATAA
1 AAAA-ATATA-ATAAAAATAAATAAATAGTATAAATAAAATAATAA
4760016 AA
1 AA
4760018 TACTAAATAG
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
44 22 0.54
45 9 0.22
46 10 0.24
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (44 bp):
AAAAATATAATAAAAATAAATAAATAGTATAAATAAAATAATAA
Found at i:4760015 original size:29 final size:30
Alignment explanation
Indices: 4759977--4760046 Score: 76
Period size: 30 Copynumber: 2.3 Consensus size: 30
4759967 AATAAAAAAT
4759977 ATATATATAAAAATA-TAAA-ATGT-ATATATA
1 ATATA-ATAAAAATACTAAATA-GTAATA-ATA
4760007 ATATAAT-AAAATACTAAATAGTAATAATA
1 ATATAATAAAAATACTAAATAGTAATAATA
4760036 ATAATAATAAA
1 AT-ATAATAAA
4760047 TAAACGAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
28 6 0.17
29 13 0.37
30 14 0.40
31 2 0.06
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.33
Consensus pattern (30 bp):
ATATAATAAAAATACTAAATAGTAATAATA
Found at i:4760199 original size:2 final size:2
Alignment explanation
Indices: 4760194--4760218 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4760184 AAAAATAATA
4760194 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
4760219 ATAATAGGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4760765 original size:37 final size:37
Alignment explanation
Indices: 4760724--4760823 Score: 137
Period size: 37 Copynumber: 2.7 Consensus size: 37
4760714 GGATCTTATC
* **
4760724 TTTAGGAGTTTAAATAATAGTAGAACTCTATCCTATT
1 TTTAGGAGTTTGAATCCTAGTAGAACTCTATCCTATT
* * * *
4760761 TTTAGGAGTTTGAATCCTAGCAAAATTTTATCCTATT
1 TTTAGGAGTTTGAATCCTAGTAGAACTCTATCCTATT
4760798 TTTAGGAGTTTGAATCCTAGTAGAAC
1 TTTAGGAGTTTGAATCCTAGTAGAAC
4760824 GAAAAGGTAT
Statistics
Matches: 53, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
37 53 1.00
ACGTcount: A:0.32, C:0.12, G:0.16, T:0.40
Consensus pattern (37 bp):
TTTAGGAGTTTGAATCCTAGTAGAACTCTATCCTATT
Found at i:4761530 original size:36 final size:36
Alignment explanation
Indices: 4761393--4761531 Score: 197
Period size: 36 Copynumber: 3.9 Consensus size: 36
4761383 ATGGTGTTAG
* *
4761393 ACATTGATACACAAATGTACCAAAGATGATATGATA
1 ACATTGATACACGAATGTACCAAAGCTGATATGATA
* *
4761429 ACATTGATACACGAATGTATCAAAGCTTATATGATA
1 ACATTGATACACGAATGTACCAAAGCTGATATGATA
* *
4761465 ACATTGATACATGAATGTACCAAAACTGATATGATA
1 ACATTGATACACGAATGTACCAAAGCTGATATGATA
* * *
4761501 ACAATGATACACGAATGTATCAATGCTGATA
1 ACATTGATACACGAATGTACCAAAGCTGATA
4761532 ATGGATAAAT
Statistics
Matches: 90, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
36 90 1.00
ACGTcount: A:0.44, C:0.14, G:0.14, T:0.27
Consensus pattern (36 bp):
ACATTGATACACGAATGTACCAAAGCTGATATGATA
Found at i:4768783 original size:46 final size:49
Alignment explanation
Indices: 4768702--4768811 Score: 122
Period size: 46 Copynumber: 2.3 Consensus size: 49
4768692 ATAACTAATG
* *
4768702 AATAAAATAATAATAATAAACTAAATATATCTTAA-C-TC-TAATTCCT
1 AATAAAATAATAATAATAAAATAAATATATCTTAACCACCTTAATTCCT
*
4768748 AATAAAATAATAATAACTAAAGAT-AATAT-TTTTAACCCAACCTTAATTCCT
1 AATAAAATAATAATAA-TAAA-ATAAATATATCTTAA-CC-ACCTTAATTCCT
4768799 AATAAAATAATAA
1 AATAAAATAATAA
4768812 ATCTAATCCT
Statistics
Matches: 54, Mismatches: 3, Indels: 9
0.82 0.05 0.14
Matches are distributed among these distances:
46 21 0.39
47 9 0.17
48 2 0.04
50 1 0.02
51 21 0.39
ACGTcount: A:0.54, C:0.13, G:0.01, T:0.33
Consensus pattern (49 bp):
AATAAAATAATAATAATAAAATAAATATATCTTAACCACCTTAATTCCT
Found at i:4772620 original size:25 final size:25
Alignment explanation
Indices: 4772592--4772648 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 25
4772582 AAATTTTGGC
*
4772592 TTTTTTTGTG-TTTTTTTGTGTTTTT
1 TTTTTTTGTGCATTTTTTGT-TTTTT
4772617 TTTTTTT-TGCATTTTTTGTTTTTT
1 TTTTTTTGTGCATTTTTTGTTTTTT
*
4772641 TGTTTTTG
1 TTTTTTTG
4772649 AAAAAAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
24 13 0.46
25 15 0.54
ACGTcount: A:0.02, C:0.02, G:0.14, T:0.82
Consensus pattern (25 bp):
TTTTTTTGTGCATTTTTTGTTTTTT
Found at i:4772623 original size:16 final size:16
Alignment explanation
Indices: 4772593--4772647 Score: 67
Period size: 16 Copynumber: 3.3 Consensus size: 16
4772583 AATTTTGGCT
4772593 TTTTTTGTGTTTTTTTG
1 TTTTTT-TGTTTTTTTG
4772610 TGTTTTTT-TTTTTTTG
1 T-TTTTTTGTTTTTTTG
*
4772626 CATTTTTTGTTTTTTTG
1 -TTTTTTTGTTTTTTTG
4772643 TTTTT
1 TTTTT
4772648 GAAAAAAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
16 18 0.55
17 10 0.30
18 5 0.15
ACGTcount: A:0.02, C:0.02, G:0.13, T:0.84
Consensus pattern (16 bp):
TTTTTTTGTTTTTTTG
Found at i:4772631 original size:23 final size:23
Alignment explanation
Indices: 4772605--4772648 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
4772595 TTTTGTGTTT
*
4772605 TTTTGTGTTTTTTTTTTTTTGCA
1 TTTTGTGTTTTTTTGTTTTTGCA
*
4772628 TTTTTTGTTTTTTTGTTTTTG
1 TTTTGTGTTTTTTTGTTTTTG
4772649 AAAAAAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.02, C:0.02, G:0.14, T:0.82
Consensus pattern (23 bp):
TTTTGTGTTTTTTTGTTTTTGCA
Found at i:4772641 original size:10 final size:10
Alignment explanation
Indices: 4772592--4772618 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
4772582 AAATTTTGGC
4772592 TTTTTTTGTG
1 TTTTTTTGTG
4772602 TTTTTTTGTG
1 TTTTTTTGTG
4772612 TTTTTTT
1 TTTTTTT
4772619 TTTTTTGCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (10 bp):
TTTTTTTGTG
Found at i:4774447 original size:2 final size:2
Alignment explanation
Indices: 4774440--4774478 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
4774430 TCAGATATGT
4774440 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4774479 GTTTATAGTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4778227 original size:30 final size:28
Alignment explanation
Indices: 4778186--4778251 Score: 78
Period size: 28 Copynumber: 2.3 Consensus size: 28
4778176 TAATAATATG
* *
4778186 TATACTATATATGTATATATTAAAAAACTA
1 TATAATATATAT-TATA-ATTAAAAAACAA
* *
4778216 TATAATATATATTATACTTCAAAAACAA
1 TATAATATATATTATAATTAAAAAACAA
4778244 TATAATAT
1 TATAATAT
4778252 GTTTTCAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
28 17 0.53
29 4 0.12
30 11 0.34
ACGTcount: A:0.52, C:0.08, G:0.02, T:0.39
Consensus pattern (28 bp):
TATAATATATATTATAATTAAAAAACAA
Found at i:4778342 original size:21 final size:23
Alignment explanation
Indices: 4778294--4778368 Score: 73
Period size: 23 Copynumber: 3.2 Consensus size: 23
4778284 TCAAAAACTG
* *
4778294 TTTTAAAAAAGTATATATTATACA
1 TTTTCAAAAATTATATATTATA-A
*
4778318 TTTTC-AAAATTATATATTAT-G
1 TTTTCAAAAATTATATATTATAA
4778339 TTTTCAAAAACTATATATATTATATA
1 TTTTCAAAAA-T-TATATATTATA-A
4778365 TTTT
1 TTTT
4778369 TGAAATTATT
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
21 5 0.12
22 4 0.10
23 15 0.36
24 14 0.33
26 4 0.10
ACGTcount: A:0.43, C:0.05, G:0.03, T:0.49
Consensus pattern (23 bp):
TTTTCAAAAATTATATATTATAA
Found at i:4779110 original size:224 final size:224
Alignment explanation
Indices: 4778703--4779235 Score: 612
Period size: 224 Copynumber: 2.4 Consensus size: 224
4778693 TTGAAGTTGG
** * * * * *
4778703 ATATCCTCCGTCGTGGAGTTGAAATATGACT-TTAGAAGATATGACT-GAAAGATGGCTTCTCGC
1 ATATCCTCTATCGTGGAGTTGAGAT-TGACTATCAAAAGATTTGACTAG-AAGATGGCTCCTCGC
** * * * *
4778766 CGTTGAGTTAAGCCAAAATACAGTCAGTTTTGGATGCGTTTATGGGTCAAGAATCATCCATCTTA
64 CACTGAGTTAAGCCAAAATACACTCAGTTCTGGATGCATTTATGGGTCAAGAATCATCCATCTGA
* * *
4778831 AAGTTGAGACTTGGCCTAAAATTTTAACTGGAAACTAGCTCCTCACCGCTGAGTTAAGCTAGATT
129 AAGTTGAGACTTGGCATAAAACTTTAACTGGAAACTAGCTCCTCACCGCTGAGTTAAGCTAGAAT
* * *
4778896 GCTGTCAATTCTGGATT-TTTTTCGAACCCA
194 GCAGTCAATTCTGGATTGGTTTTCGAACACA
** *
4778926 ATATCCTCTATCGTGGAGTTGAGATTGAC-ATCAAAATTTTTTTGACTAGAAGATGTCTCCTCGC
1 ATATCCTCTATCGTGGAGTTGAGATTGACTATCAAAA--GATTTGACTAGAAGATGGCTCCTCGC
* * *
4778990 CACTGAGTTAAGCCAAAATGA-ACTCAGTTCTGGATGCATTT-TTGGTCAAGAATCCTCCGTCGT
64 CACTGAGTTAAGCCAAAAT-ACACTCAGTTCTGGATGCATTTATGGGTCAAGAATCATCCATC-T
* * * * *
4779053 GAAA-TTTAGACTTGGCATAGAAACTTTGACTGGAAACTAGCTGCTCATCGTTGAGTTAAGCTAG
127 GAAAGTTGAGACTTGGCATA-AAACTTTAACTGGAAACTAGCTCCTCACCGCTGAGTTAAGCTAG
* *
4779117 AATGCAGTCGATTCTGGATTGGTTTTCGAGCACA
191 AATGCAGTCAATTCTGGATTGGTTTTCGAACACA
* * * * *
4779151 ATATCCTCTGTCGTGGAGTTGAGATTGACTTTGAAGAGATTTGACTAGAAGATGGCTCCTCACCA
1 ATATCCTCTATCGTGGAGTTGAGATTGACTATCAAAAGATTTGACTAGAAGATGGCTCCTCGCCA
*
4779216 CTGAGTTAAGACAAAATACA
66 CTGAGTTAAGCCAAAATACA
4779236 TTCATTGTAT
Statistics
Matches: 259, Mismatches: 41, Indels: 19
0.81 0.13 0.06
Matches are distributed among these distances:
222 8 0.03
223 53 0.20
224 154 0.59
225 40 0.15
226 4 0.02
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.31
Consensus pattern (224 bp):
ATATCCTCTATCGTGGAGTTGAGATTGACTATCAAAAGATTTGACTAGAAGATGGCTCCTCGCCA
CTGAGTTAAGCCAAAATACACTCAGTTCTGGATGCATTTATGGGTCAAGAATCATCCATCTGAAA
GTTGAGACTTGGCATAAAACTTTAACTGGAAACTAGCTCCTCACCGCTGAGTTAAGCTAGAATGC
AGTCAATTCTGGATTGGTTTTCGAACACA
Found at i:4779664 original size:2 final size:2
Alignment explanation
Indices: 4779657--4779710 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
4779647 TAAAGCTACG
4779657 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
4779699 AT AT AT AT AT AT
1 AT AT AT AT AT AT
4779711 GCAAAATTTT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4781371 original size:22 final size:24
Alignment explanation
Indices: 4781346--4781393 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
4781336 ACAAAAATCA
*
4781346 CTTCATAA-AGC-TTGGACATTAC
1 CTTCATAACAGCTTTAGACATTAC
*
4781368 CTTCATAACTGCTTTAGACATTAC
1 CTTCATAACAGCTTTAGACATTAC
4781392 CT
1 CT
4781394 GCGAAGATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 8 0.36
23 2 0.09
24 12 0.55
ACGTcount: A:0.29, C:0.25, G:0.10, T:0.35
Consensus pattern (24 bp):
CTTCATAACAGCTTTAGACATTAC
Found at i:4786696 original size:20 final size:19
Alignment explanation
Indices: 4786673--4786724 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
4786663 AAATGAAATG
*
4786673 AAATGAAAATAAATAAATAA
1 AAATGAAAATAAAT-AAGAA
* *
4786693 AAATAAAAATAGATAAGAA
1 AAATGAAAATAAATAAGAA
*
4786712 AAAGGAAAATAAA
1 AAATGAAAATAAA
4786725 ATACTAATAA
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
19 14 0.54
20 12 0.46
ACGTcount: A:0.75, C:0.00, G:0.10, T:0.15
Consensus pattern (19 bp):
AAATGAAAATAAATAAGAA
Found at i:4786748 original size:2 final size:2
Alignment explanation
Indices: 4786737--4786796 Score: 81
Period size: 2 Copynumber: 31.0 Consensus size: 2
4786727 ACTAATAATA
*
4786737 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AA ACT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T
4786779 AT AT A- AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT
4786797 TTCAAAAACA
Statistics
Matches: 52, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
1 3 0.06
2 48 0.92
3 1 0.02
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4786810 original size:21 final size:23
Alignment explanation
Indices: 4786786--4786841 Score: 71
Period size: 22 Copynumber: 2.5 Consensus size: 23
4786776 ACTATATAAT
4786786 ATATATTATATTTCAAAAA-CA-
1 ATATATTATATTTCAAAAATCAC
* *
4786807 ATATAATATGATTTCAAAAATTAC
1 ATATATTAT-ATTTCAAAAATCAC
4786831 ATATATTATAT
1 ATATATTATAT
4786842 ATGTTTTCAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
21 8 0.28
22 10 0.34
23 3 0.10
24 8 0.28
ACGTcount: A:0.50, C:0.07, G:0.02, T:0.41
Consensus pattern (23 bp):
ATATATTATATTTCAAAAATCAC
Found at i:4786889 original size:24 final size:24
Alignment explanation
Indices: 4786857--4786921 Score: 89
Period size: 22 Copynumber: 2.8 Consensus size: 24
4786847 TTCAAAATTC
4786857 GTTTTCAAAAAATATATATTATAT
1 GTTTTCAAAAAATATATATTATAT
*
4786881 GTTTTC-AAAAA-CTATATTATAT
1 GTTTTCAAAAAATATATATTATAT
* *
4786903 ATTTTCAAAAATTATATAT
1 GTTTTCAAAAAATATATAT
4786922 ATAATATATT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
22 15 0.43
23 9 0.26
24 11 0.31
ACGTcount: A:0.45, C:0.06, G:0.03, T:0.46
Consensus pattern (24 bp):
GTTTTCAAAAAATATATATTATAT
Found at i:4786928 original size:24 final size:24
Alignment explanation
Indices: 4786858--4786928 Score: 85
Period size: 24 Copynumber: 3.0 Consensus size: 24
4786848 TCAAAATTCG
*
4786858 TTTTCAAAAAATATATAT-TATATG
1 TTTTCAAAAAATATATATATA-ATA
*
4786882 TTTTCAAAAACTATAT-TAT-ATA
1 TTTTCAAAAAATATATATATAATA
*
4786904 TTTTCAAAAATTATATATATAATA
1 TTTTCAAAAAATATATATATAATA
4786928 T
1 T
4786929 ATTTTTGAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
22 17 0.41
23 4 0.10
24 20 0.49
ACGTcount: A:0.46, C:0.06, G:0.01, T:0.46
Consensus pattern (24 bp):
TTTTCAAAAAATATATATATAATA
Found at i:4798425 original size:20 final size:20
Alignment explanation
Indices: 4798388--4798447 Score: 66
Period size: 20 Copynumber: 2.9 Consensus size: 20
4798378 TTTTGGTGCA
* * *
4798388 GAGGGAATCGATCCCCCCTT
1 GAGGGAACCGATTCCCCTTT
4798408 GAGGGAACCGATTGCCCCTTT
1 GAGGGAACCGATT-CCCCTTT
4798429 GAAGGGGAACCGATTCCCC
1 G-A-GGGAACCGATTCCCC
4798448 CCATAGGGGA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
20 11 0.32
21 7 0.21
22 5 0.15
23 11 0.32
ACGTcount: A:0.22, C:0.32, G:0.28, T:0.18
Consensus pattern (20 bp):
GAGGGAACCGATTCCCCTTT
Found at i:4800354 original size:17 final size:18
Alignment explanation
Indices: 4800316--4800354 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
4800306 TTTTAACATT
*
4800316 TTGAATATTTTGGAATGT
1 TTGAATATTTTGGAATGA
*
4800334 TTGAAT-TTTTGGATTGA
1 TTGAATATTTTGGAATGA
4800351 TTGA
1 TTGA
4800355 CTTTGAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 13 0.68
18 6 0.32
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (18 bp):
TTGAATATTTTGGAATGA
Found at i:4803324 original size:702 final size:702
Alignment explanation
Indices: 4801772--4804425 Score: 4952
Period size: 702 Copynumber: 3.8 Consensus size: 702
4801762 TAACTCAACA
*
4801772 GTTACGTGTTCTAATTTTTTTCAAAAATAATTATTATAAAAATAATAGAACACATCATGTCGATG
1 GTTACGTGTTCTAATTTTTTTCAAAAATAATTATTATAAAAATAATAGAACACATCATGCCGATG
*
4801837 TGACGAGTTTTAAGAAAATAATAATAAAATATTAGACCCAAGATGCACAATTTCATTGCTCAAGT
66 TGACGAGTTTTAAGAAAATAATAATAAAATATTAGACCCAAGACGCACAATTTCATTGCTCAAGT
* *
4801902 TCCTATTTTGAAAATTTCCATGGCAGCAATTTCAATAACAATTTTATTGTGAGGGGAAATCGTTC
131 TCCTATTTTGAAAATTTACATGGCAGCAATTTCAATAACAATTTTATTGTGAGGGGAAATCTTTC
4801967 ACCATCTCCTTCGAGTGAGACATTCGACTTGGTGACTAAATTTCAAACAATGCTGGAGATAATGA
196 ACCATCTCCTTCGAGTGAGACATTCGACTTGGTGACTAAATTTCAAACAATGCTGGAGATAATGA
*
4802032 TGATTCAACACTTTCTTTACTACAATTCAAGTTTCCAACCTCCTCGGTTCCACAACATTCATCAA
261 TGATTCAACACTTTCTTTACTACAATTCAGGTTTCCAACCTCCTCGGTTCCACAACATTCATCAA
* *
4802097 TGGCCTATGTGAACAATGATGCTACAGTCCAAACAATTATTGACACGTAAATTATTAATTCGGTG
326 TGGCCTATGTGAACAATGATGCTACAGTCCAAACAATGATTGACACATAAATTATTAATTCGGTG
4802162 AGTAATATTGACTTATTTGTCGAGTATCACAAGCAAGCTACAATTCCTTCCCCATCAAAAACAAA
391 AGTAATATTGACTTATTTGTCGAGTATCACAAGCAAGCTACAATTCCTTCCCCATCAAAAACAAA
4802227 ATCTTCAAACGTATCTAACTATATAAAAGTCGAACTTC---AA---GAAC--------T-TAGAA
456 ATCTTCAAACGTATCTAACTATATAAAAGTCGAACTTCAAGAACTTGAACTATGTATATATAGAA
4802277 GGAAATAAGAGAAAGAATAGAGGATTGAAAAACTTAACATCTGATGAGTCAACTGACTATGAAGA
521 GGAAATAAGAGAAAGAATAGAGGATTGAAAAACTTAACATCTGATGAGTCAACTGACTATGAAGA
4802342 CTAAGATTGGGGGTAACCACTCAATGCTTCTTTTATATTGTAGTGTAATGTAATAAATGAGTTAA
586 CTAAGATTGGGGGTAACCACTCAATGCTTCTTTTATATTGTAGTGTAATGTAATAAATGAGTTAA
4802407 TGCTTCGAATGTAAATTTTAGTACTTTGTATTTAGTAAAAAAATATCAACGT
651 TGCTTCGAATGTAAATTTTAGTACTTTGTATTTAGTAAAAAAATATCAACGT
4802459 GTTACGTGTTCTAATTTTTTTCAAAAATAATTATTATAAAAATAATAGAACACATCATGCCGATG
1 GTTACGTGTTCTAATTTTTTTCAAAAATAATTATTATAAAAATAATAGAACACATCATGCCGATG
4802524 TGACGAGTTTTAAGAAAATAATAATAAAATATTAGACCCAAGACGCACAATTTCATTGCTCAAGT
66 TGACGAGTTTTAAGAAAATAATAATAAAATATTAGACCCAAGACGCACAATTTCATTGCTCAAGT
4802589 TCCTATTTTGAAAATTTACATGGCAGCAATTTCAATAACAATTTTATTGTGAGGGGAAATCTTTC
131 TCCTATTTTGAAAATTTACATGGCAGCAATTTCAATAACAATTTTATTGTGAGGGGAAATCTTTC
*
4802654 ACCATCTCCTTCGAGTGAGACATTCGAATTGGTGACTAAATTTCAAACAATGCTGGAGATAATGA
196 ACCATCTCCTTCGAGTGAGACATTCGACTTGGTGACTAAATTTCAAACAATGCTGGAGATAATGA
4802719 TGATTCAACACTTTCTTTACTACAATTCAGGTTTCCAACCTCCTCGGTTCCACAACATTCATCAA
261 TGATTCAACACTTTCTTTACTACAATTCAGGTTTCCAACCTCCTCGGTTCCACAACATTCATCAA
4802784 TGGCCTATGTGAACAATGATGCTACAGTCCAAACAATGATTGACACATAAATTATTAATTCGGTG
326 TGGCCTATGTGAACAATGATGCTACAGTCCAAACAATGATTGACACATAAATTATTAATTCGGTG
*
4802849 AGTAATATTGACTTATTTGTCGAGTATCACAAGCAAGCTACAATTCGTTCCCCATCAAAAACAAA
391 AGTAATATTGACTTATTTGTCGAGTATCACAAGCAAGCTACAATTCCTTCCCCATCAAAAACAAA
4802914 ATCTTCAAACGTATCTAACTATATAAAAGTCGAACTTCAAGAACTTGAACTATGTATATATAGAA
456 ATCTTCAAACGTATCTAACTATATAAAAGTCGAACTTCAAGAACTTGAACTATGTATATATAGAA
*
4802979 GGAAATAAGAGAAAGAATAGAGGATTGAAAAACTTAACATCTGATGAGTTAACTGACTATGAAGA
521 GGAAATAAGAGAAAGAATAGAGGATTGAAAAACTTAACATCTGATGAGTCAACTGACTATGAAGA
4803044 CTAAGATTGGGGGTAACCACTCAATGCTTCTTTTATATTGTAGTGTAATGTAATAAATGAGTTAA
586 CTAAGATTGGGGGTAACCACTCAATGCTTCTTTTATATTGTAGTGTAATGTAATAAATGAGTTAA
4803109 TGCTTCGAATGTAAATTTTAGTACTTTGTATTTAGTAAAAAAATATCAACGT
651 TGCTTCGAATGTAAATTTTAGTACTTTGTATTTAGTAAAAAAATATCAACGT
4803161 GTTACGTGTTCTAATTTTTTTCAAAAATAATTATTATAAAAATAATAGAACACATCATGCCGATG
1 GTTACGTGTTCTAATTTTTTTCAAAAATAATTATTATAAAAATAATAGAACACATCATGCCGATG
4803226 TGACGAGTTTTAAGAAAATAATAATAAAATATTAGACCCAAGACGCACAATTTCATTGCTCAAGT
66 TGACGAGTTTTAAGAAAATAATAATAAAATATTAGACCCAAGACGCACAATTTCATTGCTCAAGT
*
4803291 TCCTATTTTGAAAATTTACGTGGCAGCAATTTCAATAACAATTTTATTGTGAGGGGAAATCTTTC
131 TCCTATTTTGAAAATTTACATGGCAGCAATTTCAATAACAATTTTATTGTGAGGGGAAATCTTTC
*
4803356 ACCATCTCCTTCGAGTGAGACATTCGACTTGGTGACTAAATTTCAAACAATGCTGTAGATAATGA
196 ACCATCTCCTTCGAGTGAGACATTCGACTTGGTGACTAAATTTCAAACAATGCTGGAGATAATGA
4803421 TGATTCAACACTTTCTTTACTACAATTCAGGTTTCCAACCTCCTCGGTTCCACAACATTCATCAA
261 TGATTCAACACTTTCTTTACTACAATTCAGGTTTCCAACCTCCTCGGTTCCACAACATTCATCAA
* ** *
4803486 TGGCCTATATGAACAATGATGCTACAGTCCAAACCCTGATTGACACATAAATTATTAATTCGATG
326 TGGCCTATGTGAACAATGATGCTACAGTCCAAACAATGATTGACACATAAATTATTAATTCGGTG
*
4803551 AGTAATATTGACTTATTTGTCGAGTATCACAAGCAAACTACAATTCCTTCCCCATCAAAAACAAA
391 AGTAATATTGACTTATTTGTCGAGTATCACAAGCAAGCTACAATTCCTTCCCCATCAAAAACAAA
4803616 ATCTTCAAACGTATCTAACTATATAAAAGTCGAACTTCAAGAACTTGAACTATGTATATATAGAA
456 ATCTTCAAACGTATCTAACTATATAAAAGTCGAACTTCAAGAACTTGAACTATGTATATATAGAA
4803681 GGAAATAAGAGAAAGAATAGAGGATTGAAAAACTTAACATCTGATGAGTCAACTGACTATGAAGA
521 GGAAATAAGAGAAAGAATAGAGGATTGAAAAACTTAACATCTGATGAGTCAACTGACTATGAAGA
4803746 CTAAGATTGGGGGTAACCACTCAATGCTTCTTTTATATTGTAGTGTAATGTAATAAATGAGTTAA
586 CTAAGATTGGGGGTAACCACTCAATGCTTCTTTTATATTGTAGTGTAATGTAATAAATGAGTTAA
4803811 TGCTTCGAATGTAAATTTTAGTACTTTGTATTTAGTAAAAAAAATATCAAC--
651 TGCTTCGAATGTAAATTTTAGTACTTTGTATTTAGT-AAAAAAATATCAACGT
4803862 G-T--GTGTTCTAATTTTTTTCAAAAATAATTATTATAAAAATAATAGAACACATCATGCCGATG
1 GTTACGTGTTCTAATTTTTTTCAAAAATAATTATTATAAAAATAATAGAACACATCATGCCGATG
4803924 TGACGAGTTTTAAGAAAATAATAATAAAATATTAGACCCAAGACGCACAATTTCATTGCTCAAGT
66 TGACGAGTTTTAAGAAAATAATAATAAAATATTAGACCCAAGACGCACAATTTCATTGCTCAAGT
*
4803989 TCCTATTTTGAAAATTTCCATGGCAGCAATTTCAATAACAATTTTATTGTGAGGGGAAATCTTTC
131 TCCTATTTTGAAAATTTACATGGCAGCAATTTCAATAACAATTTTATTGTGAGGGGAAATCTTTC
*
4804054 ACCATCTCCTTCGAGTGAGACATTCGACTTGGTGACTAAATTTCAAACAATGCTGGAGATAATAA
196 ACCATCTCCTTCGAGTGAGACATTCGACTTGGTGACTAAATTTCAAACAATGCTGGAGATAATGA
*
4804119 TGATTCAACACTTTCTTTACTACAATTCAGGTTTCCAACCTCCTCGATTCCACAACATTCATCAA
261 TGATTCAACACTTTCTTTACTACAATTCAGGTTTCCAACCTCCTCGGTTCCACAACATTCATCAA
4804184 TGGCCTATGTGAACAATGATGCTACAGTCCAAACAATGATTGACACATAAATTATTAATTCGGTG
326 TGGCCTATGTGAACAATGATGCTACAGTCCAAACAATGATTGACACATAAATTATTAATTCGGTG
* *
4804249 AGTAATATTGATTTATTTGTCGAGTATCACAAGCAAGCTACAATTCCTTTCCCATCAAAAACAAA
391 AGTAATATTGACTTATTTGTCGAGTATCACAAGCAAGCTACAATTCCTTCCCCATCAAAAACAAA
*
4804314 ATCTTCAAACGTATCTAACTATATAAAAGTCGAACTTCAAGAACTTGAACTATGCATATATAGAA
456 ATCTTCAAACGTATCTAACTATATAAAAGTCGAACTTCAAGAACTTGAACTATGTATATATAGAA
4804379 GGAAATAAGAGAAAGAATAGAGGATTGAAAAACTTAACATCTGATGA
521 GGAAATAAGAGAAAGAATAGAGGATTGAAAAACTTAACATCTGATGA
4804426 ATCACTTCTG
Statistics
Matches: 1918, Mismatches: 33, Indels: 21
0.97 0.02 0.01
Matches are distributed among these distances:
687 484 0.25
690 2 0.00
693 4 0.00
698 549 0.29
700 1 0.00
701 2 0.00
702 862 0.45
703 14 0.01
ACGTcount: A:0.37, C:0.16, G:0.15, T:0.31
Consensus pattern (702 bp):
GTTACGTGTTCTAATTTTTTTCAAAAATAATTATTATAAAAATAATAGAACACATCATGCCGATG
TGACGAGTTTTAAGAAAATAATAATAAAATATTAGACCCAAGACGCACAATTTCATTGCTCAAGT
TCCTATTTTGAAAATTTACATGGCAGCAATTTCAATAACAATTTTATTGTGAGGGGAAATCTTTC
ACCATCTCCTTCGAGTGAGACATTCGACTTGGTGACTAAATTTCAAACAATGCTGGAGATAATGA
TGATTCAACACTTTCTTTACTACAATTCAGGTTTCCAACCTCCTCGGTTCCACAACATTCATCAA
TGGCCTATGTGAACAATGATGCTACAGTCCAAACAATGATTGACACATAAATTATTAATTCGGTG
AGTAATATTGACTTATTTGTCGAGTATCACAAGCAAGCTACAATTCCTTCCCCATCAAAAACAAA
ATCTTCAAACGTATCTAACTATATAAAAGTCGAACTTCAAGAACTTGAACTATGTATATATAGAA
GGAAATAAGAGAAAGAATAGAGGATTGAAAAACTTAACATCTGATGAGTCAACTGACTATGAAGA
CTAAGATTGGGGGTAACCACTCAATGCTTCTTTTATATTGTAGTGTAATGTAATAAATGAGTTAA
TGCTTCGAATGTAAATTTTAGTACTTTGTATTTAGTAAAAAAATATCAACGT
Found at i:4807528 original size:45 final size:47
Alignment explanation
Indices: 4807479--4807573 Score: 122
Period size: 46 Copynumber: 2.1 Consensus size: 47
4807469 CTATTTTGTA
* * * * *
4807479 TTTTCATTTA-GGCATCCTTTCATACCCATTATGTATTGTT-TACGT
1 TTTTCATTTATGACAACCATTCATACCAATTATGTATTGTTGTACAT
*
4807524 TTTTCCTTTATGACAACCATTCATACCAATTATGTATTGTTGTACAT
1 TTTTCATTTATGACAACCATTCATACCAATTATGTATTGTTGTACAT
4807571 TTT
1 TTT
4807574 ATAGCTATAT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
45 9 0.21
46 26 0.62
47 7 0.17
ACGTcount: A:0.23, C:0.19, G:0.09, T:0.48
Consensus pattern (47 bp):
TTTTCATTTATGACAACCATTCATACCAATTATGTATTGTTGTACAT
Found at i:4807597 original size:49 final size:46
Alignment explanation
Indices: 4807491--4807598 Score: 135
Period size: 46 Copynumber: 2.3 Consensus size: 46
4807481 TTCATTTAGG
* * *
4807491 CATCCTTTCATACCCATTATGTATTGTTTACGTTTTTCCTTTATGA
1 CATCCTTTCATACCAATTATGTATTGTTTACATTTTTCCTATATGA
* * *
4807537 CAACCATTCATACCAATTATGTATTGTTGTACATTTTATAGCTATATGA
1 CATCCTTTCATACCAATTATGTATTGTT-TACATTTT-T-CCTATATGA
4807586 CATCCTTTCATAC
1 CATCCTTTCATAC
4807599 TACTTATGCA
Statistics
Matches: 51, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
46 25 0.49
47 7 0.14
48 1 0.02
49 18 0.35
ACGTcount: A:0.26, C:0.21, G:0.08, T:0.44
Consensus pattern (46 bp):
CATCCTTTCATACCAATTATGTATTGTTTACATTTTTCCTATATGA
Found at i:4807606 original size:49 final size:45
Alignment explanation
Indices: 4807491--4807615 Score: 115
Period size: 49 Copynumber: 2.6 Consensus size: 45
4807481 TTCATTTAGG
* * *
4807491 CATCCTTTCATACCCATTATGTATTGTTTACGTTTTTCCTTTATGA
1 CATCCTTTCATACAC-TTATGTATTGTTTACATTTTTCCTATATGA
* * * *
4807537 CAACCATTCATACCAATTATGTATTGTTGTACATTTTATAGCTATATGA
1 CATCCTTTCATA-CACTTATGTATTGTT-TACATTTT-T-CCTATATGA
* *
4807586 CATCCTTTCATACTACTTATGCACTGTTTA
1 CATCCTTTCATAC-ACTTATGTATTGTTTA
4807616 TATCCAAATG
Statistics
Matches: 62, Mismatches: 12, Indels: 8
0.76 0.15 0.10
Matches are distributed among these distances:
46 22 0.35
47 8 0.13
48 4 0.06
49 28 0.45
ACGTcount: A:0.26, C:0.21, G:0.09, T:0.45
Consensus pattern (45 bp):
CATCCTTTCATACACTTATGTATTGTTTACATTTTTCCTATATGA
Found at i:4807955 original size:81 final size:81
Alignment explanation
Indices: 4807819--4808519 Score: 1071
Period size: 81 Copynumber: 8.6 Consensus size: 81
4807809 TACTCAAAAT
* * *
4807819 GTTCATCTAACTGGCATAATTGACACCTTTCTGACAAATGAACAGTTAGGCCATTTATCTTTTAC
1 GTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTAC
*
4807884 TCAACGGTCTTTAATC
66 TCAACGGTCTTTAACC
* * * * * *
4807900 GTTCATCTAACTGGCATAATTGACACATTTCTACCAAATGTACAACTAAGTCATTTATCTTTTAC
1 GTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTAC
*
4807965 TCAACGGTCTTTAATC
66 TCAACGGTCTTTAACC
* * *
4807981 GTTCATCTAACT-GCATAATTGACACCTTTATGCCAAATGCACAACTAGGCCATTTATATTTTAC
1 GTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTAC
*
4808045 TCAACGGTCTTTAACT
66 TCAACGGTCTTTAACC
* *
4808061 ATTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATACACAGCTAGGCCATTTATCTTTTAC
1 GTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTAC
4808126 TCAACGGTCTCTTTAACC
66 TCAACGG--TCTTTAACC
* *
4808144 GTTCATCTAACTGGCATAATTGACACCTTTCTTCCAAATACACAGCTAGGCCATTTATCTTTTAC
1 GTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTAC
**
4808209 TCAACGGTCTTTAAAG
66 TCAACGGTCTTTAACC
* *
4808225 GTTCATCTAACTGGCATAATTGACAGCTTTCTTCCAAATGCACAGCTAGGCCATTTATCTTTTAC
1 GTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTAC
*
4808290 TCAACGATCTTTAACC
66 TCAACGGTCTTTAACC
* * *
4808306 GTTCATCTAACTGGCATAATTGACAACTTTCTGTCAAATGCACAACTAGGCCATTTATCTTTTAC
1 GTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTAC
* * *
4808371 ACAATGGTCTTTAACT
66 TCAACGGTCTTTAACC
* *
4808387 GTTCATCTAACTGACATAATTGACACATTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTAC
1 GTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTAC
*
4808452 TCAGCGGTCTTTAACC
66 TCAACGGTCTTTAACC
*
4808468 GTTCATCTAACTGGTATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCC
1 GTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCC
4808520 TCAAAAGCAT
Statistics
Matches: 565, Mismatches: 52, Indels: 6
0.91 0.08 0.01
Matches are distributed among these distances:
80 70 0.12
81 417 0.74
83 78 0.14
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.35
Consensus pattern (81 bp):
GTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTAC
TCAACGGTCTTTAACC
Found at i:4808282 original size:325 final size:323
Alignment explanation
Indices: 4807667--4808519 Score: 1242
Period size: 325 Copynumber: 2.7 Consensus size: 323
4807657 GCATTTACTT
* * * **
4807667 TTCATCTAACTTGCATGATTGACACTTTTCTGCCAAATGCATAGTTAGGCCATTTATCTTTTACT
1 TTCATCTAAC-TGCATAATTGACACCTTTCTGCCAAATGCACAACTAGGCCATTTATCTTTTACT
* * * * * *
4807732 CAACGGTCTTTAACCGTTCATTTGATTGGCATAATTGACACCTTTCTTCCAATTGCACAGCTAGG
65 CAACGGTCTTTAACTGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGG
* *
4807797 CCATTTATCTTTTACTCAA--------AA-TGTTCATCTAACTGGCATAATTGACACCTTTCTGA
130 CCATTTATCTTTTACTCAACGGTCTTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGC
* *
4807853 CAAATGA-ACAGTTAGGCCATTTATCTTTTACTCAACGGTCTTTAATCGTTCATCTAACTGGCAT
195 CAAAT-ACACAGCTAGGCCATTTATCTTTTACTCAACGGTCTTTAAACGTTCATCTAACTGGCAT
* * * *
4807917 AATTGACACATTTCTACCAAATGTACAACTAAGTCATTTATCTTTTACTCAACGGTCTTTAATCG
259 AATTGACACATTTCTACCAAATGCACAACTAAGCCATTTATCTTTTACTCAACGATCTTTAACCG
* *
4807982 TTCATCTAACTGCATAATTGACACCTTTATGCCAAATGCACAACTAGGCCATTTATATTTTACTC
1 TTCATCTAACTGCATAATTGACACCTTTCTGCCAAATGCACAACTAGGCCATTTATCTTTTACTC
* *
4808047 AACGGTCTTTAACTATTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATACACAGCTAGGC
66 AACGGTCTTTAACTGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGC
*
4808112 CATTTATCTTTTACTCAACGGTCTCTTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTT
131 CATTTATCTTTTACTCAACGG--TCTTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTG
*
4808177 CCAAATACACAGCTAGGCCATTTATCTTTTACTCAACGGTCTTTAAAGGTTCATCTAACTGGCAT
194 CCAAATACACAGCTAGGCCATTTATCTTTTACTCAACGGTCTTTAAACGTTCATCTAACTGGCAT
* * *
4808242 AATTGACAGC-TTTCTTCCAAATGCACAGCTAGGCCATTTATCTTTTACTCAACGATCTTTAACC
259 AATTGACA-CATTTCTACCAAATGCACAACTAAGCCATTTATCTTTTACTCAACGATCTTTAACC
4808306 G
323 G
* * *
4808307 TTCATCTAACTGGCATAATTGACAACTTTCTGTCAAATGCACAACTAGGCCATTTATCTTTTACA
1 TTCATCTAACT-GCATAATTGACACCTTTCTGCCAAATGCACAACTAGGCCATTTATCTTTTACT
* * *
4808372 CAATGGTCTTTAACTGTTCATCTAACTGACATAATTGACACATTTCTGCCAAATGCACAGCTAGG
65 CAACGGTCTTTAACTGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGG
* *
4808437 CCATTTATCTTTTACTCAGCGGTCTTTAACCGTTCATCTAACTGGTATAATTGACACCTTTCTGC
130 CCATTTATCTTTTACTCAACGGTCTTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGC
*
4808502 CAAATGCACAGCTAGGCC
195 CAAATACACAGCTAGGCC
4808520 TCAAAAGCAT
Statistics
Matches: 482, Mismatches: 42, Indels: 19
0.89 0.08 0.03
Matches are distributed among these distances:
314 123 0.26
315 10 0.02
324 61 0.13
325 158 0.33
326 130 0.27
ACGTcount: A:0.28, C:0.24, G:0.12, T:0.35
Consensus pattern (323 bp):
TTCATCTAACTGCATAATTGACACCTTTCTGCCAAATGCACAACTAGGCCATTTATCTTTTACTC
AACGGTCTTTAACTGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGC
CATTTATCTTTTACTCAACGGTCTTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCC
AAATACACAGCTAGGCCATTTATCTTTTACTCAACGGTCTTTAAACGTTCATCTAACTGGCATAA
TTGACACATTTCTACCAAATGCACAACTAAGCCATTTATCTTTTACTCAACGATCTTTAACCG
Found at i:4808393 original size:162 final size:162
Alignment explanation
Indices: 4807667--4808519 Score: 1208
Period size: 162 Copynumber: 5.3 Consensus size: 162
4807657 GCATTTACTT
* * * * *
4807667 TTCATCTAACTTGCATGATTGACACTTTTCTGCCAAATGCATAGTTAGGCCATTTATCTTTTACT
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTACT
* * * * * * *
4807732 CAACGGTCTTTAACCGTTCATTTGATTGGCATAATTGACACCTTTCTTCCAATTGCACAGCTAGG
66 CAACGGTCTTTAACTGTTCATCTAACTGGCATAATTGACACATTTCTGCCAAATGCACAGCTAGG
*
4807797 CCATTTATCTTTTACTCAA--------AA-TG
131 CCATTTATCTTTTACTCAACGGTCTTTAACCG
* * *
4807820 TTCATCTAACTGGCATAATTGACACCTTTCTGACAAATGAACAGTTAGGCCATTTATCTTTTACT
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTACT
* * * *
4807885 CAACGGTCTTTAA-TCGTTCATCTAACTGGCATAATTGACACATTTCTACCAAATGTACAACTAA
66 CAACGGTCTTTAACT-GTTCATCTAACTGGCATAATTGACACATTTCTGCCAAATGCACAGCTAG
* *
4807949 GTCATTTATCTTTTACTCAACGGTCTTTAATCG
130 GCCATTTATCTTTTACTCAACGGTCTTTAACCG
* * *
4807982 TTCATCTAACT-GCATAATTGACACCTTTATGCCAAATGCACAACTAGGCCATTTATATTTTACT
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTACT
* * *
4808046 CAACGGTCTTTAACTATTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATACACAGCTAGG
66 CAACGGTCTTTAACTGTTCATCTAACTGGCATAATTGACACATTTCTGCCAAATGCACAGCTAGG
4808111 CCATTTATCTTTTACTCAACGGTCTCTTTAACCG
131 CCATTTATCTTTTACTCAACGG--TCTTTAACCG
* *
4808145 TTCATCTAACTGGCATAATTGACACCTTTCTTCCAAATACACAGCTAGGCCATTTATCTTTTACT
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTACT
** *
4808210 CAACGGTCTTTAAAGGTTCATCTAACTGGCATAATTGACAGC-TTTCTTCCAAATGCACAGCTAG
66 CAACGGTCTTTAACTGTTCATCTAACTGGCATAATTGACA-CATTTCTGCCAAATGCACAGCTAG
*
4808274 GCCATTTATCTTTTACTCAACGATCTTTAACCG
130 GCCATTTATCTTTTACTCAACGGTCTTTAACCG
* * * *
4808307 TTCATCTAACTGGCATAATTGACAACTTTCTGTCAAATGCACAACTAGGCCATTTATCTTTTACA
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTACT
* *
4808372 CAATGGTCTTTAACTGTTCATCTAACTGACATAATTGACACATTTCTGCCAAATGCACAGCTAGG
66 CAACGGTCTTTAACTGTTCATCTAACTGGCATAATTGACACATTTCTGCCAAATGCACAGCTAGG
*
4808437 CCATTTATCTTTTACTCAGCGGTCTTTAACCG
131 CCATTTATCTTTTACTCAACGGTCTTTAACCG
*
4808469 TTCATCTAACTGGTATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCC
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCC
4808520 TCAAAAGCAT
Statistics
Matches: 623, Mismatches: 61, Indels: 23
0.88 0.09 0.03
Matches are distributed among these distances:
153 131 0.21
161 127 0.20
162 217 0.35
163 20 0.03
164 127 0.20
165 1 0.00
ACGTcount: A:0.28, C:0.24, G:0.12, T:0.35
Consensus pattern (162 bp):
TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTACT
CAACGGTCTTTAACTGTTCATCTAACTGGCATAATTGACACATTTCTGCCAAATGCACAGCTAGG
CCATTTATCTTTTACTCAACGGTCTTTAACCG
Found at i:4808824 original size:55 final size:53
Alignment explanation
Indices: 4808764--4808941 Score: 135
Period size: 55 Copynumber: 3.3 Consensus size: 53
4808754 AATTCACCTT
*
4808764 CTTATTATGAACTTTTGATAATTGCACATATATTTCCCATATGGAAATTCATACA
1 CTTAGTATGAA-TTTTGATAATTGCACATA-ATTTCCCATATGGAAATTCATACA
* * * * * * *
4808819 CTTATTATAGATTTATTAGTTCA-TACACATAGTGT-CCATATGGAAATTCATACA
1 CTTAGTAT-GAATT-TT-GATAATTGCACATAATTTCCCATATGGAAATTCATACA
* * * * * * * *
4808873 CGTAGTATGAATTTCTCAGATTTGCACATAAAGTGCCCATACGGAAATTCACACA
1 CTTAGTATGAATTT-TGATAATTGCACAT-AATTTCCCATATGGAAATTCATACA
4808928 CTTAGTATGAATTT
1 CTTAGTATGAATTT
4808942 CTTAACTTTT
Statistics
Matches: 94, Mismatches: 22, Indels: 14
0.72 0.17 0.11
Matches are distributed among these distances:
52 1 0.01
53 11 0.12
54 26 0.28
55 42 0.45
56 11 0.12
57 3 0.03
ACGTcount: A:0.34, C:0.17, G:0.12, T:0.37
Consensus pattern (53 bp):
CTTAGTATGAATTTTGATAATTGCACATAATTTCCCATATGGAAATTCATACA
Found at i:4810023 original size:28 final size:29
Alignment explanation
Indices: 4809992--4810046 Score: 69
Period size: 28 Copynumber: 1.9 Consensus size: 29
4809982 AAAATATTAA
4809992 AATA-ATTTGAAAATATAATAAT-TAAATT
1 AATATATTT-AAAATATAATAATATAAATT
* *
4810020 AATATATTTAAATTTTAATAATATAAA
1 AATATATTTAAAATATAATAATATAAA
4810047 ATAAGAAGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
28 15 0.65
29 8 0.35
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (29 bp):
AATATATTTAAAATATAATAATATAAATT
Found at i:4818022 original size:32 final size:32
Alignment explanation
Indices: 4817949--4818195 Score: 239
Period size: 32 Copynumber: 7.8 Consensus size: 32
4817939 ACTGATTGTA
*
4817949 TCTGTTGTGCATTATCTAAATGCAATACCAAC
1 TCTGTTGTGCATTATCTAAATGCAATACTAAC
* * * * *
4817981 GCT-TATGTGCATTGTTTGAATGCAACACTAAC
1 TCTGT-TGTGCATTATCTAAATGCAATACTAAC
* *
4818013 TCTGTTGTGCATTATCTAAATGCAACACTGAC
1 TCTGTTGTGCATTATCTAAATGCAATACTAAC
* * *
4818045 TCCGCTGAGCATTA-CT-AATGCAATACTAAC
1 TCTGTTGTGCATTATCTAAATGCAATACTAAC
* * * **
4818075 TCTATTGTGTATTATCTAAATGTAATACCGAC
1 TCTGTTGTGCATTATCTAAATGCAATACTAAC
* * *
4818107 TCTGTTGTGCATTATCTGAATGCAATAATGAC
1 TCTGTTGTGCATTATCTAAATGCAATACTAAC
** * * *
4818139 TCTACTGTGCATTATTTGAATGCAATACTATC
1 TCTGTTGTGCATTATCTAAATGCAATACTAAC
*
4818171 TCTATTGTGCATTATCTAAATGCAA
1 TCTGTTGTGCATTATCTAAATGCAA
4818196 CACTGATACT
Statistics
Matches: 172, Mismatches: 39, Indels: 8
0.79 0.18 0.04
Matches are distributed among these distances:
30 21 0.12
31 5 0.03
32 145 0.84
33 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.15, T:0.36
Consensus pattern (32 bp):
TCTGTTGTGCATTATCTAAATGCAATACTAAC
Found at i:4818129 original size:94 final size:96
Alignment explanation
Indices: 4817957--4818192 Score: 271
Period size: 94 Copynumber: 2.5 Consensus size: 96
4817947 TATCTGTTGT
* * * * * * * * **
4817957 GCATTATCTAAATGCAATACCAACGCT-TATGTGCATTGTTTGAATGCAACACTAACTCTGTTGT
1 GCATTATCTGAATGCAATACTAACTCTAT-TGTGCATTATCTAAATGTAATACCGACTCTGTTGT
* *
4818021 GCATTATCTAAATGCAACACTGACTCCGCTGA
65 GCATTATCTAAATGCAACAATGACTCCACTGA
*
4818053 GCATTA-CT-AATGCAATACTAACTCTATTGTGTATTATCTAAATGTAATACCGACTCTGTTGTG
1 GCATTATCTGAATGCAATACTAACTCTATTGTGCATTATCTAAATGTAATACCGACTCTGTTGTG
* * * *
4818116 CATTATCTGAATGCAATAATGACTCTACTGT
66 CATTATCTAAATGCAACAATGACTCCACTGA
* *
4818147 GCATTATTTGAATGCAATACTATCTCTATTGTGCATTATCTAAATG
1 GCATTATCTGAATGCAATACTAACTCTATTGTGCATTATCTAAATG
4818193 CAACACTGAT
Statistics
Matches: 118, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
94 74 0.63
95 4 0.03
96 40 0.34
ACGTcount: A:0.31, C:0.19, G:0.14, T:0.36
Consensus pattern (96 bp):
GCATTATCTGAATGCAATACTAACTCTATTGTGCATTATCTAAATGTAATACCGACTCTGTTGTG
CATTATCTAAATGCAACAATGACTCCACTGA
Found at i:4826918 original size:20 final size:20
Alignment explanation
Indices: 4826896--4826960 Score: 87
Period size: 20 Copynumber: 3.2 Consensus size: 20
4826886 CTGACTGGTC
*
4826896 TCCATACCGAAGGATTAGTC
1 TCCATACCGAAGGATTAGTA
* *
4826916 TCCATACCGCAGGACTAGTA
1 TCCATACCGAAGGATTAGTA
4826936 TCCATACCGAA-GATTGAGTA
1 TCCATACCGAAGGATT-AGTA
4826956 TCCAT
1 TCCAT
4826961 GCCTAAGGCT
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
19 3 0.08
20 36 0.92
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (20 bp):
TCCATACCGAAGGATTAGTA
Found at i:4829622 original size:66 final size:66
Alignment explanation
Indices: 4829547--4829879 Score: 522
Period size: 66 Copynumber: 5.0 Consensus size: 66
4829537 AGAGTCAAAT
* *
4829547 GTGCCATTAATGAAAATTATCGATCGATTTTGATTAATGCATAACAGTGCATTATTGGCATAAAA
1 GTGCCATTAATGAAAATTATCGATCGATTTTGATTAATGCATAACGGTGCATTATCGGCATAAAA
4829612 G
66 G
* *
4829613 GTGCCATTAATGAAAATTATTGATCGATTTTGATTAATGCATAATGGTGCATTATCGGCATAAAA
1 GTGCCATTAATGAAAATTATCGATCGATTTTGATTAATGCATAACGGTGCATTATCGGCATAAAA
4829678 G
66 G
* * * * *
4829679 GTGCCATTAATGAAAATTATTGATTGGTTTTAATTAATGCATAACGGTGCATTATTGGCATAAAA
1 GTGCCATTAATGAAAATTATCGATCGATTTTGATTAATGCATAACGGTGCATTATCGGCATAAAA
4829744 G
66 G
* * *
4829745 GTGCCATTAATGAAAATTATCGATCGATTTTGATCAATGTATAATGGTGCATTATCGGCATAAAA
1 GTGCCATTAATGAAAATTATCGATCGATTTTGATTAATGCATAACGGTGCATTATCGGCATAAAA
4829810 G
66 G
* * * *
4829811 GTGCCACTAATGAAAATTATCGATCGATTTTGTTTAACGCATAACGGTGCATTATCAGCATAAAA
1 GTGCCATTAATGAAAATTATCGATCGATTTTGATTAATGCATAACGGTGCATTATCGGCATAAAA
4829876 G
66 G
4829877 GTG
1 GTG
4829880 TCACTCATGG
Statistics
Matches: 243, Mismatches: 24, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
66 243 1.00
ACGTcount: A:0.35, C:0.12, G:0.20, T:0.34
Consensus pattern (66 bp):
GTGCCATTAATGAAAATTATCGATCGATTTTGATTAATGCATAACGGTGCATTATCGGCATAAAA
G
Found at i:4832523 original size:3 final size:3
Alignment explanation
Indices: 4832515--4832602 Score: 167
Period size: 3 Copynumber: 29.0 Consensus size: 3
4832505 CTTTTAAATT
4832515 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
4832563 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA
4832603 CTACTACTAC
Statistics
Matches: 84, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
3 81 0.96
4 3 0.04
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:4839833 original size:6 final size:6
Alignment explanation
Indices: 4839801--4839830 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
4839791 AGATGAGTAA
*
4839801 GAAATG GAAATG GAAATG GAAATG AAAATG
1 GAAATG GAAATG GAAATG GAAATG GAAATG
4839831 AAAGGATGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.53, C:0.00, G:0.30, T:0.17
Consensus pattern (6 bp):
GAAATG
Found at i:4840946 original size:17 final size:16
Alignment explanation
Indices: 4840924--4841046 Score: 93
Period size: 17 Copynumber: 7.1 Consensus size: 16
4840914 AATTAAGAGT
4840924 TAGTTTAATAATTGAAC
1 TAGTTTAATAA-TGAAC
*
4840941 TAGTTTGATGAATGAAC
1 TAGTTTAAT-AATGAAC
4840958 TAGTTTAATTAATGAAC
1 TAGTTTAA-TAATGAAC
* *
4840975 TAACTTTATTCAATGAAC
1 T-AGTTTAAT-AATGAAC
* * **
4840993 TTGTAATCTTGAATGAAC
1 TAGT-TTAAT-AATGAAC
*
4841011 TAGTTTGATGAATGAAC
1 TAGTTTAAT-AATGAAC
4841028 TAGTTTAATCAATGAAC
1 TAGTTTAAT-AATGAAC
4841045 TA
1 TA
4841047 CTTAGTTAAA
Statistics
Matches: 86, Mismatches: 15, Indels: 10
0.77 0.14 0.09
Matches are distributed among these distances:
17 57 0.66
18 29 0.34
ACGTcount: A:0.38, C:0.09, G:0.15, T:0.38
Consensus pattern (16 bp):
TAGTTTAATAATGAAC
Found at i:4841058 original size:17 final size:17
Alignment explanation
Indices: 4841038--4841083 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 17
4841028 TAGTTTAATC
* *
4841038 AATGAACTACTTAGTTA
1 AATGAACTACATAGCTA
* *
4841055 AATGAAGTGCATAGCTA
1 AATGAACTACATAGCTA
4841072 AATGAACTACAT
1 AATGAACTACAT
4841084 GTTTAAATGC
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.43, C:0.13, G:0.15, T:0.28
Consensus pattern (17 bp):
AATGAACTACATAGCTA
Found at i:4843104 original size:21 final size:22
Alignment explanation
Indices: 4843065--4843105 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
4843055 ATAATTAGTA
*
4843065 ATAAAAAGAAATAATCTCACAG
1 ATAAAAAGAAATAACCTCACAG
*
4843087 ATAAAAAGGAA-AACCTCAC
1 ATAAAAAGAAATAACCTCAC
4843106 CAAACACTCC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.59, C:0.17, G:0.10, T:0.15
Consensus pattern (22 bp):
ATAAAAAGAAATAACCTCACAG
Found at i:4844883 original size:21 final size:17
Alignment explanation
Indices: 4844747--4844876 Score: 136
Period size: 17 Copynumber: 7.5 Consensus size: 17
4844737 TAGGTTAATA
4844747 AATGAACTAGTTTGATG
1 AATGAACTAGTTTGATG
* *
4844764 AATGAACTAGTTTAATT
1 AATGAACTAGTTTGATG
* *
4844781 AATGAACTAACTTT-ATTC
1 AATGAACT-AGTTTGA-TG
* * **
4844799 AATGAACTTGTAATCTTG
1 AATGAACTAGT-TTGATG
*
4844817 AATGAACTAGATTGATG
1 AATGAACTAGTTTGATG
*
4844834 AATGAAGTAGTTTGATG
1 AATGAACTAGTTTGATG
4844851 AATGAACTAGTTTGATG
1 AATGAACTAGTTTGATG
4844868 AATGAACTA
1 AATGAACTA
4844877 CTTAGTTAAA
Statistics
Matches: 92, Mismatches: 17, Indels: 8
0.79 0.15 0.07
Matches are distributed among these distances:
17 68 0.74
18 24 0.26
ACGTcount: A:0.38, C:0.08, G:0.18, T:0.35
Consensus pattern (17 bp):
AATGAACTAGTTTGATG
Found at i:4844888 original size:17 final size:17
Alignment explanation
Indices: 4844868--4844913 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 17
4844858 TAGTTTGATG
* *
4844868 AATGAACTACTTAGTTA
1 AATGAACTACATAGCTA
* *
4844885 AATGAAGTGCATAGCTA
1 AATGAACTACATAGCTA
4844902 AATGAACTACAT
1 AATGAACTACAT
4844914 GTTTAAATGC
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.43, C:0.13, G:0.15, T:0.28
Consensus pattern (17 bp):
AATGAACTACATAGCTA
Found at i:4847181 original size:42 final size:43
Alignment explanation
Indices: 4847126--4847206 Score: 130
Period size: 42 Copynumber: 1.9 Consensus size: 43
4847116 TAAATCTAAT
*
4847126 TAAAAATTAAAATAAAATA-TGATGAGAATAGGATAAGTCAGGA
1 TAAAAATTAAAATAAAATAGTG-TGAAAATAGGATAAGTCAGGA
4847169 TAAAAA-TAAAATAAAATAGTGTGAAAATAGGATAAGTC
1 TAAAAATTAAAATAAAATAGTGTGAAAATAGGATAAGTC
4847207 CAAAAAGGGT
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
42 28 0.78
43 8 0.22
ACGTcount: A:0.57, C:0.02, G:0.17, T:0.23
Consensus pattern (43 bp):
TAAAAATTAAAATAAAATAGTGTGAAAATAGGATAAGTCAGGA
Found at i:4849640 original size:20 final size:20
Alignment explanation
Indices: 4849611--4849650 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
4849601 TCTGGGTTCG
*
4849611 AGTATCGATATTGGATGAAC
1 AGTATCGATACTGGATGAAC
*
4849631 AGTATGGATACTGGATGAAC
1 AGTATCGATACTGGATGAAC
4849651 TGAGATGGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.35, C:0.10, G:0.28, T:0.28
Consensus pattern (20 bp):
AGTATCGATACTGGATGAAC
Found at i:4849720 original size:15 final size:15
Alignment explanation
Indices: 4849700--4849735 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
4849690 ATTGTGGTAA
4849700 GAGTACCAATACTAT
1 GAGTACCAATACTAT
4849715 GAGTACCAATACTAT
1 GAGTACCAATACTAT
*
4849730 AAGTAC
1 GAGTAC
4849736 TGATATTGTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.42, C:0.19, G:0.14, T:0.25
Consensus pattern (15 bp):
GAGTACCAATACTAT
Found at i:4850901 original size:32 final size:32
Alignment explanation
Indices: 4850854--4850955 Score: 132
Period size: 32 Copynumber: 3.2 Consensus size: 32
4850844 TACTAGCAGT
* * *
4850854 GTGTTACATTTAGATAATGCACAATAGAGTTA
1 GTGTTGCATTCAGATAATGCACAATAGTGTTA
* * *
4850886 GTGTTGCATTCAGATAATACACAGTAGTGTCA
1 GTGTTGCATTCAGATAATGCACAATAGTGTTA
* *
4850918 GTATTGTATTCAGATAATGCACAATAGTGTTA
1 GTGTTGCATTCAGATAATGCACAATAGTGTTA
4850950 GTGTTG
1 GTGTTG
4850956 TATTTAGACT
Statistics
Matches: 58, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 58 1.00
ACGTcount: A:0.32, C:0.11, G:0.22, T:0.35
Consensus pattern (32 bp):
GTGTTGCATTCAGATAATGCACAATAGTGTTA
Found at i:4850957 original size:32 final size:32
Alignment explanation
Indices: 4850865--4850959 Score: 136
Period size: 32 Copynumber: 3.0 Consensus size: 32
4850855 TGTTACATTT
* *
4850865 AGATAATGCACAATAGAGTTAGTGTTGCATTC
1 AGATAATGCACAATAGTGTTAGTGTTGTATTC
* * * *
4850897 AGATAATACACAGTAGTGTCAGTATTGTATTC
1 AGATAATGCACAATAGTGTTAGTGTTGTATTC
4850929 AGATAATGCACAATAGTGTTAGTGTTGTATT
1 AGATAATGCACAATAGTGTTAGTGTTGTATT
4850960 TAGACTACGT
Statistics
Matches: 53, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 53 1.00
ACGTcount: A:0.34, C:0.11, G:0.21, T:0.35
Consensus pattern (32 bp):
AGATAATGCACAATAGTGTTAGTGTTGTATTC
Found at i:4851702 original size:35 final size:36
Alignment explanation
Indices: 4851634--4851706 Score: 139
Period size: 36 Copynumber: 2.1 Consensus size: 36
4851624 GGATTATGGT
4851634 GTCTCGAGGCAGATTGTAGAGATATAGTGTTGTAGG
1 GTCTCGAGGCAGATTGTAGAGATATAGTGTTGTAGG
4851670 GTCTCGAGGCAGATTGTAGAG-TATAGTGTTGTAGG
1 GTCTCGAGGCAGATTGTAGAGATATAGTGTTGTAGG
4851705 GT
1 GT
4851707 GGTTGTTTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
35 16 0.43
36 21 0.57
ACGTcount: A:0.23, C:0.08, G:0.37, T:0.32
Consensus pattern (36 bp):
GTCTCGAGGCAGATTGTAGAGATATAGTGTTGTAGG
Found at i:4851794 original size:29 final size:28
Alignment explanation
Indices: 4851762--4851825 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 28
4851752 TTGATATAAC
*
4851762 AATTTAAAGTA-AAATGGTTTTTGGACTT
1 AATTGAAAGTACAAAT-GTTTTTGGACTT
**
4851790 GAATTGAATTTACAAATGTTTTTGGACTT
1 -AATTGAAAGTACAAATGTTTTTGGACTT
4851819 AATTGAA
1 AATTGAA
4851826 TTTATTCGTT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
28 7 0.23
29 20 0.65
30 4 0.13
ACGTcount: A:0.36, C:0.05, G:0.17, T:0.42
Consensus pattern (28 bp):
AATTGAAAGTACAAATGTTTTTGGACTT
Found at i:4851823 original size:28 final size:30
Alignment explanation
Indices: 4851773--4851829 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 30
4851763 ATTTAAAGTA
4851773 AAATGGTTTTTGGACTTGAATTGAATTTAC
1 AAATGGTTTTTGGACTTGAATTGAATTTAC
4851803 AAAT-GTTTTTGGACTT-AATTGAATTTA
1 AAATGGTTTTTGGACTTGAATTGAATTTA
4851830 TTCGTTCCGA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
28 11 0.41
29 12 0.44
30 4 0.15
ACGTcount: A:0.32, C:0.05, G:0.18, T:0.46
Consensus pattern (30 bp):
AAATGGTTTTTGGACTTGAATTGAATTTAC
Found at i:4852669 original size:19 final size:20
Alignment explanation
Indices: 4852645--4852688 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
4852635 TAATAATGAA
4852645 ATTTATAAT-TTACTGATAT
1 ATTTATAATATTACTGATAT
* *
4852664 ATTTATCATCATTATTGATAT
1 ATTTATAAT-ATTACTGATAT
4852685 ATTT
1 ATTT
4852689 TGTCGATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 8 0.38
21 13 0.62
ACGTcount: A:0.34, C:0.07, G:0.05, T:0.55
Consensus pattern (20 bp):
ATTTATAATATTACTGATAT
Found at i:4856600 original size:3 final size:3
Alignment explanation
Indices: 4856594--4856625 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
4856584 AACCCTTCTC
4856594 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TC
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TC
4856626 CACTAGGCTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.34, G:0.00, T:0.34
Consensus pattern (3 bp):
TCA
Found at i:4858573 original size:20 final size:20
Alignment explanation
Indices: 4858550--4858590 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
4858540 AGAGACTAAT
4858550 TTATAAATCTTAAAATTTTA
1 TTATAAATCTTAAAATTTTA
4858570 TTATAAATCTTAAAATTTTA
1 TTATAAATCTTAAAATTTTA
4858590 T
1 T
4858591 AGGATATAAC
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:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (20 bp):
TTATAAATCTTAAAATTTTA
Found at i:4861800 original size:9 final size:9
Alignment explanation
Indices: 4861783--4861815 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
4861773 AATAAAAATA
*
4861783 AATAGTATT
1 AATAATATT
4861792 AATAATATT
1 AATAATATT
4861801 AATAATA-T
1 AATAATATT
4861809 AATAATA
1 AATAATA
4861816 AAAATGAGAC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
8 8 0.35
9 15 0.65
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (9 bp):
AATAATATT
Found at i:4864077 original size:103 final size:103
Alignment explanation
Indices: 4863898--4864096 Score: 398
Period size: 103 Copynumber: 1.9 Consensus size: 103
4863888 AAACCGAGTA
4863898 TTTCTATAAAAAAATATCCGATCGGGCTGGGTACTCATCTAGACATTTTTGAGTCGGGCCCGAAT
1 TTTCTATAAAAAAATATCCGATCGGGCTGGGTACTCATCTAGACATTTTTGAGTCGGGCCCGAAT
4863963 CACAAAATTTACATTTTCTGGGTACCCGGTTCCGAAAT
66 CACAAAATTTACATTTTCTGGGTACCCGGTTCCGAAAT
4864001 TTTCTATAAAAAAATATCCGATCGGGCTGGGTACTCATCTAGACATTTTTGAGTCGGGCCCGAAT
1 TTTCTATAAAAAAATATCCGATCGGGCTGGGTACTCATCTAGACATTTTTGAGTCGGGCCCGAAT
4864066 CACAAAATTTACATTTTCTGGGTACCCGGTT
66 CACAAAATTTACATTTTCTGGGTACCCGGTT
4864097 ACCCGAATTT
Statistics
Matches: 96, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
103 96 1.00
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.32
Consensus pattern (103 bp):
TTTCTATAAAAAAATATCCGATCGGGCTGGGTACTCATCTAGACATTTTTGAGTCGGGCCCGAAT
CACAAAATTTACATTTTCTGGGTACCCGGTTCCGAAAT
Found at i:4864140 original size:22 final size:22
Alignment explanation
Indices: 4864110--4864159 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
4864100 CGAATTTCCA
* * *
4864110 ATTACATTTATTTTATGTGTAT
1 ATTATATTTATTTTATATATAT
*
4864132 ATTATATTTATTTTTTATATAT
1 ATTATATTTATTTTATATATAT
4864154 ATTATA
1 ATTATA
4864160 ATATTACATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.32, C:0.02, G:0.04, T:0.62
Consensus pattern (22 bp):
ATTATATTTATTTTATATATAT
Found at i:4864172 original size:32 final size:29
Alignment explanation
Indices: 4864135--4864194 Score: 75
Period size: 32 Copynumber: 2.0 Consensus size: 29
4864125 TGTGTATATT
* *
4864135 ATATTTATTTTTTATATATATTATAATATTAC
1 ATATTTAATTATTA-ATA-ATTAT-ATATTAC
4864167 ATATTTAATTATTAATAATTATATATTA
1 ATATTTAATTATTAATAATTATATATTA
4864195 AATTAAACTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 6 0.23
30 5 0.19
31 3 0.12
32 12 0.46
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.57
Consensus pattern (29 bp):
ATATTTAATTATTAATAATTATATATTAC
Found at i:4864192 original size:22 final size:20
Alignment explanation
Indices: 4864154--4864199 Score: 56
Period size: 22 Copynumber: 2.2 Consensus size: 20
4864144 TTTTATATAT
*
4864154 ATTATAATATTACATATTTA
1 ATTATAATATTACATATTAA
*
4864174 ATTATTAATAATTATATATTAA
1 ATTA-TAAT-ATTACATATTAA
4864196 ATTA
1 ATTA
4864200 AACTAAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 4 0.18
21 4 0.18
22 14 0.64
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (20 bp):
ATTATAATATTACATATTAA
Found at i:4864691 original size:17 final size:17
Alignment explanation
Indices: 4864669--4864714 Score: 67
Period size: 17 Copynumber: 2.8 Consensus size: 17
4864659 ATTTAGATTT
4864669 TTTTTAAAAAATATATA
1 TTTTTAAAAAATATATA
* *
4864686 TTTTTAAATAATATTTA
1 TTTTTAAAAAATATATA
4864703 -TTTTAAAAAATA
1 TTTTTAAAAAATA
4864715 AAAAATATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
16 11 0.42
17 15 0.58
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TTTTTAAAAAATATATA
Found at i:4872192 original size:93 final size:93
Alignment explanation
Indices: 4872010--4872185 Score: 205
Period size: 93 Copynumber: 1.9 Consensus size: 93
4872000 ATATTGGCAA
* *
4872010 GTGCACTTGTAAATACAAACTTACTTAAATGCAGTTCACATGATTCCCTTTAGGAGGAATCAAGA
1 GTGCACTTGTAAATACAAACTCACTTAAATGCAGTTCACATGATTCCCTTTAGGAAGAATCAAGA
* * *
4872075 CCGTTTCGCCGTATATTGACAAAAACAC
66 CCGTTACGCCGCATATAGACAAAAACAC
* * * *
4872103 GTGCACTTG-AAGATACACACTCAGTTAAATGCAGCTTGAGA-GATTCCCTTTCA-GAAGAATCA
1 GTGCACTTGTAA-ATACAAACTCACTTAAATGCAG-TTCACATGATTCCCTTT-AGGAAGAATCA
* *
4872165 AGACTGTTAGGCCGCATATAG
63 AGACCGTTACGCCGCATATAG
4872186 GGAAAAAAAA
Statistics
Matches: 69, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
92 2 0.03
93 62 0.90
94 5 0.07
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.27
Consensus pattern (93 bp):
GTGCACTTGTAAATACAAACTCACTTAAATGCAGTTCACATGATTCCCTTTAGGAAGAATCAAGA
CCGTTACGCCGCATATAGACAAAAACAC
Found at i:4874125 original size:21 final size:21
Alignment explanation
Indices: 4874099--4874146 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
4874089 CCTGCGGAGA
*
4874099 TGGCATATAAACTGGTGGGCT
1 TGGCATATAAACTGGAGGGCT
* *
4874120 TGGCATATGAAGTGGAGGGCT
1 TGGCATATAAACTGGAGGGCT
*
4874141 GGGCAT
1 TGGCAT
4874147 GTACCCCTGC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.23, C:0.12, G:0.40, T:0.25
Consensus pattern (21 bp):
TGGCATATAAACTGGAGGGCT
Found at i:4877706 original size:28 final size:28
Alignment explanation
Indices: 4877654--4877708 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
4877644 ATTGTTGTCC
*
4877654 TTTTATTTTTTCATATCACATAGTTATT
1 TTTTATTTTTTAATATCACATAGTTATT
*
4877682 TTTTATTTTTTAATTTCA-ATAAGTTAT
1 TTTTATTTTTTAATATCACAT-AGTTAT
4877709 CTTATGACAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.08
28 22 0.92
ACGTcount: A:0.27, C:0.07, G:0.04, T:0.62
Consensus pattern (28 bp):
TTTTATTTTTTAATATCACATAGTTATT
Found at i:4877795 original size:69 final size:67
Alignment explanation
Indices: 4877687--4877823 Score: 256
Period size: 69 Copynumber: 2.0 Consensus size: 67
4877677 TTATTTTTTA
4877687 TTTTTTAATTTCAATAAGTTATCTTATGACACATTTCTTCTTCCTTTTGGCATGTTTCTCGATCG
1 TTTTTTAATTTCAATAAGTTATCTTATGACACATTTCTTCTTCCTTTTGGCATGTTTCTCGATCG
4877752 TT
66 TT
4877754 TTTTTTAATTTCAATAAAGTTATCTTTATGACACATTTCTTCTTCCTTTTGGCATGTTTCTCGAT
1 TTTTTTAATTTCAAT-AAGTTATC-TTATGACACATTTCTTCTTCCTTTTGGCATGTTTCTCGAT
4877819 CGTT
64 CGTT
4877823 T
1 T
4877824 GATCGTTGCT
Statistics
Matches: 68, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
67 15 0.22
68 8 0.12
69 45 0.66
ACGTcount: A:0.20, C:0.18, G:0.10, T:0.53
Consensus pattern (67 bp):
TTTTTTAATTTCAATAAGTTATCTTATGACACATTTCTTCTTCCTTTTGGCATGTTTCTCGATCG
TT
Found at i:4879067 original size:60 final size:61
Alignment explanation
Indices: 4878949--4879081 Score: 164
Period size: 60 Copynumber: 2.2 Consensus size: 61
4878939 TGTATATTTT
*
4878949 GAGATGAAATTAGAATGTTCAAAAAGTTTAGGGACCAATTTAGAATGAAGGTCATAGTTTA
1 GAGATGAAATTAGAATGTTCAAAAAGTTTAAGGACCAATTTAGAATGAAGGTCATAGTTTA
*** *
4879010 GAGATGAAATT-GATATGTTC-AAAAGTTTAAGGATTGATTTAGAATGATA-GTCGTAGTTTA
1 GAGATGAAATTAGA-ATGTTCAAAAAGTTTAAGGACCAATTTAGAATGA-AGGTCATAGTTTA
* *
4879070 GGGATAAAATTA
1 GAGATGAAATTA
4879082 AAATATTTTA
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
60 44 0.71
61 18 0.29
ACGTcount: A:0.40, C:0.05, G:0.23, T:0.32
Consensus pattern (61 bp):
GAGATGAAATTAGAATGTTCAAAAAGTTTAAGGACCAATTTAGAATGAAGGTCATAGTTTA
Found at i:4879095 original size:60 final size:60
Alignment explanation
Indices: 4878949--4879098 Score: 140
Period size: 60 Copynumber: 2.5 Consensus size: 60
4878939 TGTATATTTT
* * * * ***
4878949 GAGATGAAATTAGAATGTTCAAAAAGTTTAGGGACCAATTTAGAATGAAGGTCATAGTTTA
1 GAGATAAAATTAAAATATTC-AAAAGTTTAAGGATTGATTTAGAATGAAGGTCATAGTTTA
* * * * *
4879010 GAGATGAAATTGATATGTTCAAAAGTTTAAGGATTGATTTAGAATGATA-GTCGTAGTTTA
1 GAGATAAAATTAAAATATTCAAAAGTTTAAGGATTGATTTAGAATGA-AGGTCATAGTTTA
* **
4879070 GGGATAAAATTAAAATATTTTAAAGTTTA
1 GAGATAAAATTAAAATATTCAAAAGTTTA
4879099 GGAACCAATT
Statistics
Matches: 73, Mismatches: 15, Indels: 3
0.80 0.16 0.03
Matches are distributed among these distances:
60 55 0.75
61 18 0.25
ACGTcount: A:0.41, C:0.04, G:0.21, T:0.34
Consensus pattern (60 bp):
GAGATAAAATTAAAATATTCAAAAGTTTAAGGATTGATTTAGAATGAAGGTCATAGTTTA
Found at i:4880143 original size:60 final size:60
Alignment explanation
Indices: 4880079--4880192 Score: 142
Period size: 60 Copynumber: 1.9 Consensus size: 60
4880069 GGTCCTCTGG
* * * *
4880079 CTATA-GGATATTGTTTTATTGAG-TCTATTGACTATTAAATGTTACGAAATGGTCCCTTAA
1 CTATAGGGA-ATTGCTTTATTGAGTTCT-TCGAATATTAAATGTTACAAAATGGTCCCTTAA
* *
4880139 CTATAGGGAGTTGCTTTGTTGAGTTCTTCGAATATTAAATGTTACAAAATGGTC
1 CTATAGGGAATTGCTTTATTGAGTTCTTCGAATATTAAATGTTACAAAATGGTC
4880193 ACTCGACTAT
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
60 40 0.87
61 6 0.13
ACGTcount: A:0.29, C:0.11, G:0.19, T:0.40
Consensus pattern (60 bp):
CTATAGGGAATTGCTTTATTGAGTTCTTCGAATATTAAATGTTACAAAATGGTCCCTTAA
Found at i:4885056 original size:18 final size:19
Alignment explanation
Indices: 4885032--4885076 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
4885022 CCCAGTAATC
4885032 ATATTCC-CTCATAATCTT
1 ATATTCCACTCATAATCTT
* *
4885050 TTATTCCCACTGATAATCTT
1 ATATT-CCACTCATAATCTT
4885070 ATATTCC
1 ATATTCC
4885077 GTGAACCAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
18 4 0.18
19 4 0.18
20 14 0.64
ACGTcount: A:0.27, C:0.27, G:0.02, T:0.44
Consensus pattern (19 bp):
ATATTCCACTCATAATCTT
Found at i:4886699 original size:16 final size:16
Alignment explanation
Indices: 4886678--4886708 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
4886668 ATGATTACGC
4886678 GCTGAATGATTCAAAT
1 GCTGAATGATTCAAAT
4886694 GCTGAATGATTCAAA
1 GCTGAATGATTCAAA
4886709 GGCTCTGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.39, C:0.13, G:0.19, T:0.29
Consensus pattern (16 bp):
GCTGAATGATTCAAAT
Found at i:4886719 original size:18 final size:16
Alignment explanation
Indices: 4886678--4886712 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
4886668 ATGATTACGC
*
4886678 GCTGAATGATTCAAAT
1 GCTGAATGATTCAAAG
4886694 GCTGAATGATTCAAAG
1 GCTGAATGATTCAAAG
4886710 GCT
1 GCT
4886713 CTGAATGTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.29
Consensus pattern (16 bp):
GCTGAATGATTCAAAG
Found at i:4890718 original size:29 final size:29
Alignment explanation
Indices: 4890685--4890740 Score: 87
Period size: 29 Copynumber: 1.9 Consensus size: 29
4890675 TCCCAACACA
*
4890685 TAGGTCGCCATGCCCT-CTGGGCGACCTTG
1 TAGGTCGCCATGCACTCCT-GGCGACCTTG
4890714 TAGGTCGCCATGCACTCCTGGCGACCT
1 TAGGTCGCCATGCACTCCTGGCGACCT
4890741 ACCCTCGCTC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
29 23 0.92
30 2 0.08
ACGTcount: A:0.12, C:0.36, G:0.29, T:0.23
Consensus pattern (29 bp):
TAGGTCGCCATGCACTCCTGGCGACCTTG
Found at i:4890785 original size:33 final size:33
Alignment explanation
Indices: 4890744--4890830 Score: 120
Period size: 33 Copynumber: 2.6 Consensus size: 33
4890734 GCGACCTACC
* * *
4890744 CTCGCTCGGCTGCCCTTGGATTCTCTCGCATAG
1 CTCGCTCGGCTGCCCTCGGATGCCCTCGCATAG
4890777 CTCGCTCGGCTGCCCTCGGATGCCCTCGCATAG
1 CTCGCTCGGCTGCCCTCGGATGCCCTCGCATAG
* * *
4890810 CTCGTTCGGATGGCCTCGGAT
1 CTCGCTCGGCTGCCCTCGGAT
4890831 AGCCTCGATC
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 48 1.00
ACGTcount: A:0.09, C:0.37, G:0.28, T:0.26
Consensus pattern (33 bp):
CTCGCTCGGCTGCCCTCGGATGCCCTCGCATAG
Found at i:4890819 original size:23 final size:24
Alignment explanation
Indices: 4890792--4890845 Score: 74
Period size: 23 Copynumber: 2.3 Consensus size: 24
4890782 TCGGCTGCCC
*
4890792 TCGGATGCCCTCGCATAG-CTCGT
1 TCGGATGCCCTCGCATAGCCTCGA
* *
4890815 TCGGATGGCCTCGGATAGCCTCGA
1 TCGGATGCCCTCGCATAGCCTCGA
4890839 TCGGATG
1 TCGGATG
4890846 GTCTCGGATG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
23 16 0.59
24 11 0.41
ACGTcount: A:0.15, C:0.30, G:0.31, T:0.24
Consensus pattern (24 bp):
TCGGATGCCCTCGCATAGCCTCGA
Found at i:4890842 original size:24 final size:23
Alignment explanation
Indices: 4890792--4890854 Score: 81
Period size: 24 Copynumber: 2.7 Consensus size: 23
4890782 TCGGCTGCCC
* * *
4890792 TCGGATGCCCTCGCATAGCTCGT
1 TCGGATGGCCTCGGATAGCTCGA
4890815 TCGGATGGCCTCGGATAGCCTCGA
1 TCGGATGGCCTCGGATAG-CTCGA
*
4890839 TCGGATGGTCTCGGAT
1 TCGGATGGCCTCGGAT
4890855 GCCCAGCGTG
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
23 16 0.46
24 19 0.54
ACGTcount: A:0.14, C:0.29, G:0.32, T:0.25
Consensus pattern (23 bp):
TCGGATGGCCTCGGATAGCTCGA
Found at i:4892708 original size:41 final size:42
Alignment explanation
Indices: 4892582--4892794 Score: 166
Period size: 41 Copynumber: 5.1 Consensus size: 42
4892572 TACAAACGCA
* * *
4892582 CTAAAGACTCATACTTTAGTGGCGTTTTAAGCAAAAAC-GCTG
1 CTAAAGACTCATACTTTAGTGGCGTATTAAGCACAAACATC-G
* * * * * ** **
4892624 CTAAATACTCATACTTTAGTGGTGTTTTTA-TACATGCGCCG
1 CTAAAGACTCATACTTTAGTGGCGTATTAAGCACAAACATCG
** *
4892665 CTAAAGACTCATAAATTA-TGGCGTATTAAGCACAAACGTCG
1 CTAAAGACTCATACTTTAGTGGCGTATTAAGCACAAACATCG
* * * * *
4892706 CTAAATACTCGTACTTTAGTGGCG-ACTTTA-TACAAACACCG
1 CTAAAGACTCATACTTTAGTGGCGTA-TTAAGCACAAACATCG
* * *
4892747 CTAAAGACTCATACTTTAGTGGCGTTTTAAGCATAAACATCA
1 CTAAAGACTCATACTTTAGTGGCGTATTAAGCACAAACATCG
4892789 CTAAAG
1 CTAAAG
4892795 TACAATATTT
Statistics
Matches: 131, Mismatches: 34, Indels: 12
0.74 0.19 0.07
Matches are distributed among these distances:
40 8 0.06
41 74 0.56
42 49 0.37
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.30
Consensus pattern (42 bp):
CTAAAGACTCATACTTTAGTGGCGTATTAAGCACAAACATCG
Found at i:4892833 original size:82 final size:82
Alignment explanation
Indices: 4892556--4892834 Score: 305
Period size: 82 Copynumber: 3.4 Consensus size: 82
4892546 AATTATGTAG
*
4892556 TTTAGTGGCGTTTTTGTACAAACG-CACTAAAGACTCATACTTTAGTGGCGTTTTAAGCAAAAAC
1 TTTAGTGGCGTTTTTATACAAACGCCACTAAAGACTCATACTTTAGTGGCGTTTTAAGCAAAAAC
*
4892620 GCTGCTAAATACTCATAC
66 TC-GCTAAATACTCATAC
* ** * ** * *
4892638 TTTAGTGGTGTTTTTATACATGCGCCGCTAAAGACTCATAAATTA-TGGCGTATTAAGCACAAAC
1 TTTAGTGGCGTTTTTATACAAACGCCACTAAAGACTCATACTTTAGTGGCGTTTTAAGCAAAAAC
*
4892702 GTCGCTAAATACTCGTAC
66 -TCGCTAAATACTCATAC
** * * *
4892720 TTTAGTGGCGACTTTATACAAACACCGCTAAAGACTCATACTTTAGTGGCGTTTTAAGCATAAAC
1 TTTAGTGGCGTTTTTATACAAACGCCACTAAAGACTCATACTTTAGTGGCGTTTTAAGCAAAAAC
* *
4892785 ATCACTAAAGTAC-AATA-
66 -TCGCTAAA-TACTCATAC
* * *
4892802 TTTAGCGGCGTTTATATAAAAACGCCACTAAAG
1 TTTAGTGGCGTTTTTATACAAACGCCACTAAAG
4892835 TAGCGTGATA
Statistics
Matches: 161, Mismatches: 32, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
82 114 0.71
83 44 0.27
84 3 0.02
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.30
Consensus pattern (82 bp):
TTTAGTGGCGTTTTTATACAAACGCCACTAAAGACTCATACTTTAGTGGCGTTTTAAGCAAAAAC
TCGCTAAATACTCATAC
Found at i:4894772 original size:160 final size:166
Alignment explanation
Indices: 4894591--4894914 Score: 581
Period size: 160 Copynumber: 2.0 Consensus size: 166
4894581 CTTAGTTCCC
4894591 TTTCATAGGTTTTTTTGGAGTATTTATTAATTTGAATTTTGGACAAGATA-TGGACTTGGACATA
1 TTTCATAGGTTTTTTTGGAGTATTTATTAATTTGAATTTT-GACAAGATATTGGACTTGGACATA
4894655 ATG-TTTGCCATTC-TTTTTA-TCCACC-TCCACGGT-GCACTGTATAACTATTCTTTTTGATAT
65 ATGTTTTGCCATTCATTTTTACTCCACCTTCCACGGTAGCACTGTATAACTATTCTTTTTGATAT
4894715 ATCTGCAGAGGA-AGAACTATATGAGTACTCTAACCT
130 ATCTGCAGAGGACAGAACTATATGAGTACTCTAACCT
4894751 TTTCATAGGTTTTTTTGGAGTATTTATTAATTTGAATTTTGACAAGATATTGGACTTGGACATAA
1 TTTCATAGGTTTTTTTGGAGTATTTATTAATTTGAATTTTGACAAGATATTGGACTTGGACATAA
4894816 TGTTTTGCCATTCATTTTTATCTCCACCTTCCACGGTAGCACTGTATAACTATTCTTTTTGATAT
66 TGTTTTGCCATTCATTTTTA-CTCCACCTTCCACGGTAGCACTGTATAACTATTCTTTTTGATAT
4894881 ATCTGCAGAGGACAGAACTATATGAGTACTCTAA
130 ATCTGCAGAGGACAGAACTATATGAGTACTCTAA
4894915 GGTGCTTGGA
Statistics
Matches: 156, Mismatches: 0, Indels: 9
0.95 0.00 0.05
Matches are distributed among these distances:
159 9 0.06
160 57 0.37
161 10 0.06
162 6 0.04
164 6 0.04
165 8 0.05
166 39 0.25
167 21 0.13
ACGTcount: A:0.27, C:0.15, G:0.16, T:0.41
Consensus pattern (166 bp):
TTTCATAGGTTTTTTTGGAGTATTTATTAATTTGAATTTTGACAAGATATTGGACTTGGACATAA
TGTTTTGCCATTCATTTTTACTCCACCTTCCACGGTAGCACTGTATAACTATTCTTTTTGATATA
TCTGCAGAGGACAGAACTATATGAGTACTCTAACCT
Found at i:4895881 original size:19 final size:17
Alignment explanation
Indices: 4895857--4895895 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
4895847 AAAAAAAGTA
4895857 AAATAGAAATGAACAAAAT
1 AAATAG-AATG-ACAAAAT
*
4895876 AAATAGAATGATAAAAT
1 AAATAGAATGACAAAAT
4895893 AAA
1 AAA
4895896 CAAAAATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 9 0.47
18 4 0.21
19 6 0.32
ACGTcount: A:0.69, C:0.03, G:0.10, T:0.18
Consensus pattern (17 bp):
AAATAGAATGACAAAAT
Found at i:4895951 original size:15 final size:14
Alignment explanation
Indices: 4895886--4895957 Score: 58
Period size: 15 Copynumber: 5.0 Consensus size: 14
4895876 AAATAGAATG
*
4895886 ATAAAATAAACAAAA
1 ATAAAAAAAAC-AAA
* *
4895901 ATAAAACATACAAA
1 ATAAAAAAAACAAA
*
4895915 ATAAAAAAAGC--A
1 ATAAAAAAAACAAA
4895927 ATAAACAAAAACAAA
1 ATAAA-AAAAACAAA
4895942 ATAAATAAAAAACAAA
1 AT-AA-AAAAAACAAA
4895958 GAAAAAAGTA
Statistics
Matches: 46, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
12 6 0.13
13 5 0.11
14 11 0.24
15 12 0.26
16 11 0.24
17 1 0.02
ACGTcount: A:0.78, C:0.10, G:0.01, T:0.11
Consensus pattern (14 bp):
ATAAAAAAAACAAA
Found at i:4896051 original size:41 final size:39
Alignment explanation
Indices: 4896005--4896081 Score: 93
Period size: 39 Copynumber: 1.9 Consensus size: 39
4895995 TAAAATAAGA
*
4896005 TAAAAAGGAAAAAAAG-TAAAGATAATATATATATATATATT
1 TAAAAA-GAAAAAAAGAT-AAGA-AATATATATAAATATATT
* *
4896046 TAAAAAGAAAGAAAGATAAGAAATGTATATAAATAT
1 TAAAAAGAAAAAAAGATAAGAAATATATATAAATAT
4896082 GTAAGAAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
39 13 0.41
40 12 0.38
41 7 0.22
ACGTcount: A:0.62, C:0.00, G:0.12, T:0.26
Consensus pattern (39 bp):
TAAAAAGAAAAAAAGATAAGAAATATATATAAATATATT
Found at i:4896121 original size:21 final size:21
Alignment explanation
Indices: 4896087--4896140 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
4896077 AATATGTAAG
*
4896087 AAAAACAAATAATAAAAAAACC
1 AAAAACAAA-AATAAAAAAACA
* *
4896109 AAAAAGAAAAATAGAAAAACA
1 AAAAACAAAAATAAAAAAACA
*
4896130 AAAAATAAAAA
1 AAAAACAAAAA
4896141 GCCAAAATAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
21 20 0.71
22 8 0.29
ACGTcount: A:0.81, C:0.07, G:0.04, T:0.07
Consensus pattern (21 bp):
AAAAACAAAAATAAAAAAACA
Found at i:4896125 original size:36 final size:35
Alignment explanation
Indices: 4896085--4896169 Score: 109
Period size: 35 Copynumber: 2.4 Consensus size: 35
4896075 TAAATATGTA
*
4896085 AGAAAAACAAATAATAAAAAAACCAAAA-AGAAAAAT
1 AGAAAAACAAAAAAT-AAAAAACCAAAATA-AAAAAT
*
4896121 AGAAAAACAAAAAATAAAAAGCCAAAATAAAAAAT
1 AGAAAAACAAAAAATAAAAAACCAAAATAAAAAAT
* *
4896156 AGTAAAATAAAAAA
1 AGAAAAACAAAAAA
4896170 ATATAAAGTA
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
35 29 0.66
36 15 0.34
ACGTcount: A:0.78, C:0.07, G:0.06, T:0.09
Consensus pattern (35 bp):
AGAAAAACAAAAAATAAAAAACCAAAATAAAAAAT
Found at i:4896262 original size:5 final size:5
Alignment explanation
Indices: 4896249--4896280 Score: 55
Period size: 5 Copynumber: 6.2 Consensus size: 5
4896239 AATAAAACAA
4896249 AAAAGT AAAAT AAAAT AAAAT AAAAT AAAAT A
1 AAAA-T AAAAT AAAAT AAAAT AAAAT AAAAT A
4896281 TATAAAAAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 22 0.85
6 4 0.15
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:4897815 original size:7 final size:7
Alignment explanation
Indices: 4897803--4897886 Score: 77
Period size: 7 Copynumber: 11.9 Consensus size: 7
4897793 CCTGGAAAAG
4897803 AAATAAT
1 AAATAAT
4897810 AAATAAAT
1 AAAT-AAT
4897818 AAATAAAT
1 AAAT-AAT
4897826 AAA-AAT
1 AAATAAT
4897832 AAA-AAT
1 AAATAAT
*
4897838 AAGTAAT
1 AAATAAT
*
4897845 AAGTAAT
1 AAATAAT
4897852 AAAAATAAT
1 --AAATAAT
4897861 AAATAAT
1 AAATAAT
4897868 -AATAAT
1 AAATAAT
4897874 -AATAAAT
1 AAAT-AAT
4897881 AAATAA
1 AAATAA
4897887 AAGTATTTTT
Statistics
Matches: 69, Mismatches: 2, Indels: 12
0.83 0.02 0.14
Matches are distributed among these distances:
6 20 0.29
7 26 0.38
8 17 0.25
9 6 0.09
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (7 bp):
AAATAAT
Found at i:4897816 original size:4 final size:4
Alignment explanation
Indices: 4897803--4897887 Score: 60
Period size: 4 Copynumber: 22.8 Consensus size: 4
4897793 CCTGGAAAAG
* * *
4897803 AAAT -AAT AAAT AAAT AAAT AAAT AAA- AATAA AAAT AAGT -AAT AAGT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA-AT AAAT AAAT AAAT AAAT
*
4897849 -AAT AAAA ATAAT AAAT -AAT -AAT -AAT -AAT AAAT AAAT AAA
1 AAAT AAAT A-AAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
4897888 AGTATTTTTT
Statistics
Matches: 67, Mismatches: 7, Indels: 14
0.76 0.08 0.16
Matches are distributed among these distances:
3 21 0.31
4 41 0.61
5 5 0.07
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (4 bp):
AAAT
Found at i:4897839 original size:20 final size:20
Alignment explanation
Indices: 4897814--4897888 Score: 91
Period size: 20 Copynumber: 3.8 Consensus size: 20
4897804 AATAATAAAT
4897814 AAATAAATAAATAAAAATAA
1 AAATAAATAAATAAAAATAA
* *
4897834 AAATAAGT-AATAAGTAATAA
1 AAATAAATAAATAA-AAATAA
*
4897854 AAAT-AATAAATAATAATAA
1 AAATAAATAAATAAAAATAA
*
4897873 TAATAAATAAATAAAA
1 AAATAAATAAATAAAA
4897889 GTATTTTTTT
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
19 16 0.34
20 31 0.66
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.24
Consensus pattern (20 bp):
AAATAAATAAATAAAAATAA
Found at i:4897868 original size:3 final size:3
Alignment explanation
Indices: 4897804--4897878 Score: 60
Period size: 3 Copynumber: 22.7 Consensus size: 3
4897794 CTGGAAAAGA
* *
4897804 AAT AAT AAAT AAAT AAAT AAAT AAA AAT AAA AAT AAGT AAT AAGT AAT
1 AAT AAT -AAT -AAT -AAT -AAT AAT AAT AAT AAT AA-T AAT AA-T AAT
*
4897852 AAA AAT AAT AAAT AAT AAT AAT AAT AA
1 AAT AAT AAT -AAT AAT AAT AAT AAT AA
4897879 ATAAATAAAA
Statistics
Matches: 62, Mismatches: 6, Indels: 8
0.82 0.08 0.11
Matches are distributed among these distances:
3 38 0.61
4 24 0.39
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (3 bp):
AAT
Found at i:4897969 original size:42 final size:38
Alignment explanation
Indices: 4897900--4898025 Score: 109
Period size: 42 Copynumber: 3.3 Consensus size: 38
4897890 TATTTTTTTT
*
4897900 AAAACTATATAATATAAATATTTAAAAAGGTGTTTTAA
1 AAAACTATATAATATAAAAATTTAAAAAGGTGTTTTAA
* * **
4897938 AAAACTATATATTATATATAAAATTTCAAAAATGTTTTTTTT
1 AAAACTATATA--ATATA-AAAATTT-AAAAAGGTGTTTTAA
* * *
4897980 AAAACTATATAATCTTAAAA---AAAAA-GT-TTTTTA
1 AAAACTATATAATATAAAAATTTAAAAAGGTGTTTTAA
4898013 AAAACTATATAAT
1 AAAACTATATAAT
4898026 TTTCAAAAAT
Statistics
Matches: 76, Mismatches: 8, Indels: 13
0.78 0.08 0.13
Matches are distributed among these distances:
33 18 0.24
34 2 0.03
35 5 0.07
38 11 0.14
39 4 0.05
40 8 0.11
41 6 0.08
42 22 0.29
ACGTcount: A:0.52, C:0.05, G:0.04, T:0.40
Consensus pattern (38 bp):
AAAACTATATAATATAAAAATTTAAAAAGGTGTTTTAA
Found at i:4897989 original size:33 final size:33
Alignment explanation
Indices: 4897952--4898040 Score: 92
Period size: 33 Copynumber: 2.7 Consensus size: 33
4897942 CTATATATTA
*
4897952 TATATAAAATTTCAAAAATGTTTTTTTTAAAAC
1 TATATAAAATTTCAAAAATGTTTTTTTAAAAAC
** ** *
4897985 TATATAATCTTAAAAAAAAAG-TTTTTTAAAAAC
1 TATATAAAATT-TCAAAAATGTTTTTTTAAAAAC
*
4898018 TATAT-AATTTTCAAAAATGTTTT
1 TATATAAAATTTCAAAAATGTTTT
4898041 CAAAAACCAT
Statistics
Matches: 43, Mismatches: 11, Indels: 5
0.73 0.19 0.08
Matches are distributed among these distances:
31 6 0.14
32 6 0.14
33 25 0.58
34 6 0.14
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.44
Consensus pattern (33 bp):
TATATAAAATTTCAAAAATGTTTTTTTAAAAAC
Found at i:4898188 original size:33 final size:32
Alignment explanation
Indices: 4898026--4898230 Score: 117
Period size: 34 Copynumber: 5.9 Consensus size: 32
4898016 ACTATATAAT
*
4898026 TTTCAAAAATGTTTTCAAAAACCATATTATATAAG
1 TTTC-AAAATGTTTT-AAAAACTATATTATA-AAG
** *
4898061 TTTTCAATTTTTTTTTTCAAAAACTATATATTATATAAG
1 -TTTCAA--AATGTTTT-AAAAAC--TATATTATA-AAG
* *
4898100 TTTTCAAAATGATTTTAAAAA-TCATATTATATAC
1 -TTTCAAAATG-TTTTAAAAACT-ATATTATAAAG
* *
4898134 TTTCCTAAAATATTTTAAAAACTATATTATACAG
1 TTT-C-AAAATGTTTTAAAAACTATATTATAAAG
* * **
4898168 TTTCAAAAGTGTTTTAAAAACCATATTATTCATT
1 TTTCAAAA-TGTTTTAAAAACTATATTA-TAAAG
*
4898202 TTTCAAAAAGTTTTAGAAAA-TATATTATA
1 TTTCAAAATGTTTTA-AAAACTATATTATA
4898231 TACGTATTTC
Statistics
Matches: 136, Mismatches: 21, Indels: 28
0.74 0.11 0.15
Matches are distributed among these distances:
32 5 0.04
33 33 0.24
34 37 0.27
35 16 0.12
36 4 0.03
37 18 0.13
38 4 0.03
39 19 0.14
ACGTcount: A:0.42, C:0.09, G:0.04, T:0.44
Consensus pattern (32 bp):
TTTCAAAATGTTTTAAAAACTATATTATAAAG
Found at i:4898241 original size:35 final size:34
Alignment explanation
Indices: 4898086--4898243 Score: 125
Period size: 34 Copynumber: 4.6 Consensus size: 34
4898076 TTCAAAAACT
*
4898086 ATATATTATATAAGTTTTCAAAATGA-TTTTAAAA
1 ATATATTATATACGTTTTCAAAA-GAGTTTTAAAA
* *
4898120 ATCATATTATATAC-TTTCCTAAAATA-TTTTAAAA
1 AT-ATATTATATACGTTTTC-AAAAGAGTTTTAAAA
* *
4898154 ACTATATTATACA-G-TTTCAAAAGTGTTTTAAAA
1 A-TATATTATATACGTTTTCAAAAGAGTTTTAAAA
* *
4898187 ACCATATTAT-T-CATTTTTCAAAA-AGTTTTAGAAA
1 A-TATATTATATAC-GTTTTCAAAAGAGTTTTA-AAA
4898221 ATATATTATATACGTATTTCAAA
1 ATATATTATATACGT-TTTCAAA
4898244 CCGTTTGTGA
Statistics
Matches: 99, Mismatches: 13, Indels: 23
0.73 0.10 0.17
Matches are distributed among these distances:
32 4 0.04
33 33 0.33
34 39 0.39
35 23 0.23
ACGTcount: A:0.44, C:0.09, G:0.05, T:0.42
Consensus pattern (34 bp):
ATATATTATATACGTTTTCAAAAGAGTTTTAAAA
Found at i:4898267 original size:2 final size:2
Alignment explanation
Indices: 4898256--4898306 Score: 88
Period size: 2 Copynumber: 26.5 Consensus size: 2
4898246 GTTTGTGAAC
4898256 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4898296 TA TA TA TA TA T
1 TA TA TA TA TA T
4898307 TCAAATAAAA
Statistics
Matches: 47, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
1 2 0.04
2 45 0.96
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4898836 original size:21 final size:21
Alignment explanation
Indices: 4898810--4898867 Score: 80
Period size: 21 Copynumber: 2.8 Consensus size: 21
4898800 GATTTATTAT
4898810 TATGGATTTCAAGTTTCTTGA
1 TATGGATTTCAAGTTTCTTGA
* * *
4898831 TATGGATTTCAAATTTGTTGT
1 TATGGATTTCAAGTTTCTTGA
*
4898852 TATGGATGTCAAGTTT
1 TATGGATTTCAAGTTT
4898868 ATTGGATAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.24, C:0.07, G:0.21, T:0.48
Consensus pattern (21 bp):
TATGGATTTCAAGTTTCTTGA
Found at i:4899265 original size:42 final size:42
Alignment explanation
Indices: 4899218--4899298 Score: 110
Period size: 42 Copynumber: 1.9 Consensus size: 42
4899208 GCGTTGGGAG
* *
4899218 AAAATGCCGC-TAAATATCATAACCATTAGCGGCGTTTGTAAA
1 AAAATGCCGCTTAAA-AACATAACCATTAGCGGCATTTGTAAA
* *
4899260 AAAATGCTGCTTAAAAACATAACCTTTAGCGGCATTTGT
1 AAAATGCCGCTTAAAAACATAACCATTAGCGGCATTTGT
4899299 TAACGAAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
42 30 0.88
43 4 0.12
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.28
Consensus pattern (42 bp):
AAAATGCCGCTTAAAAACATAACCATTAGCGGCATTTGTAAA
Found at i:4912553 original size:29 final size:29
Alignment explanation
Indices: 4912511--4912574 Score: 119
Period size: 29 Copynumber: 2.2 Consensus size: 29
4912501 CGTGCCTAAT
4912511 TGAAAAGTTGAATTCAAAAATAAAAGAAA
1 TGAAAAGTTGAATTCAAAAATAAAAGAAA
4912540 TGAAAAGTTGAATTCAAAAATAAAAGAAA
1 TGAAAAGTTGAATTCAAAAATAAAAGAAA
*
4912569 TAAAAA
1 TGAAAA
4912575 ATTTCAGAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.64, C:0.03, G:0.12, T:0.20
Consensus pattern (29 bp):
TGAAAAGTTGAATTCAAAAATAAAAGAAA
Found at i:4915510 original size:20 final size:17
Alignment explanation
Indices: 4915460--4915494 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
4915450 CGATACTTAT
4915460 GTGAGTATTGATACCTA
1 GTGAGTATTGATACCTA
4915477 GTGAGTATTGATACCTA
1 GTGAGTATTGATACCTA
4915494 G
1 G
4915495 GGCTGAGTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.29, C:0.11, G:0.26, T:0.34
Consensus pattern (17 bp):
GTGAGTATTGATACCTA
Found at i:4919190 original size:57 final size:56
Alignment explanation
Indices: 4919112--4919280 Score: 205
Period size: 57 Copynumber: 3.0 Consensus size: 56
4919102 CATAACCATA
* * *
4919112 CAACCCCGTCA-AACAGTAAGGCCCTGAGCACAAAGCCAAGGAACCTGCAAGTATT
1 CAACCCCGTCACAACAGTAAGGCTCTCAGCACAAAGCCGAGGAACCTGCAAGTATT
* * * ** * *
4919167 CAACCCCGTCACGAACAGTAAGGCTCTTAGTAAAAAGTTGAGGAACCCGTAAGTATT
1 CAACCCCGTCAC-AACAGTAAGGCTCTCAGCACAAAGCCGAGGAACCTGCAAGTATT
* *
4919224 CAACCCCGTCACAAACAGTAAGGCTCTCAGCGCAAAGCCGAGGAACCTACAAGTATT
1 CAACCCCGTCAC-AACAGTAAGGCTCTCAGCACAAAGCCGAGGAACCTGCAAGTATT
4919281 ATTCCTCCAA
Statistics
Matches: 93, Mismatches: 19, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
55 11 0.12
57 82 0.88
ACGTcount: A:0.36, C:0.28, G:0.20, T:0.16
Consensus pattern (56 bp):
CAACCCCGTCACAACAGTAAGGCTCTCAGCACAAAGCCGAGGAACCTGCAAGTATT
Found at i:4923298 original size:57 final size:57
Alignment explanation
Indices: 4923224--4923338 Score: 187
Period size: 57 Copynumber: 2.0 Consensus size: 57
4923214 CATAACCATA
4923224 CAACCCCGTCACGAACAGTAAGGCCCTCAGCACAAAGGCGAGGAACCT-ATAAGTATT
1 CAACCCCGTCACGAACAGTAAGGCCCTCAGCACAAAGGCGAGGAACCTGA-AAGTATT
* * *
4923281 CAACTCCGTCACGAACAGTAAGGCTCTCAGCACAAAGTCGAGGAACCTGAAAGTATT
1 CAACCCCGTCACGAACAGTAAGGCCCTCAGCACAAAGGCGAGGAACCTGAAAGTATT
4923338 C
1 C
4923339 CTCCTCCAAC
Statistics
Matches: 54, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
57 53 0.98
58 1 0.02
ACGTcount: A:0.35, C:0.29, G:0.21, T:0.16
Consensus pattern (57 bp):
CAACCCCGTCACGAACAGTAAGGCCCTCAGCACAAAGGCGAGGAACCTGAAAGTATT
Found at i:4925763 original size:17 final size:17
Alignment explanation
Indices: 4925741--4925781 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
4925731 GGTCAACAGT
* *
4925741 GGTCAACGCCGGTCAAC
1 GGTCAACGCAGATCAAC
4925758 GGTCAACGCAGATCAAC
1 GGTCAACGCAGATCAAC
4925775 GGTCAAC
1 GGTCAAC
4925782 AGTCGACCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.29, C:0.32, G:0.27, T:0.12
Consensus pattern (17 bp):
GGTCAACGCAGATCAAC
Found at i:4926866 original size:64 final size:64
Alignment explanation
Indices: 4926753--4926876 Score: 169
Period size: 64 Copynumber: 1.9 Consensus size: 64
4926743 GTGCACCAAG
* * ** *
4926753 TGTGCATCGATGCATAAAATGCATTTGATGTTTGAAAATAGCCTGAGTGCATCGGTGCATTGCT
1 TGTGCATCGATGCATAAAATGCATTCGATGTTTGAAAATAACCCAAGTGCATCGATGCATTGCT
* *
4926817 TGTGCATCGATGCATGAAATGCATTCGATGTTTTAATAA-AACCCAAGTGCATCGATGCAT
1 TGTGCATCGATGCATAAAATGCATTCGATGTTTGAA-AATAACCCAAGTGCATCGATGCAT
4926877 GAAATGCATT
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
64 50 0.96
65 2 0.04
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (64 bp):
TGTGCATCGATGCATAAAATGCATTCGATGTTTGAAAATAACCCAAGTGCATCGATGCATTGCT
Found at i:4941406 original size:12 final size:12
Alignment explanation
Indices: 4941389--4941413 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4941379 ATGGTTTTAG
4941389 TTACATTCCATA
1 TTACATTCCATA
4941401 TTACATTCCATA
1 TTACATTCCATA
4941413 T
1 T
4941414 AGGCAGAGGC
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:0.32, C:0.24, G:0.00, T:0.44
Consensus pattern (12 bp):
TTACATTCCATA
Found at i:4942176 original size:101 final size:102
Alignment explanation
Indices: 4941881--4942212 Score: 441
Period size: 102 Copynumber: 3.2 Consensus size: 102
4941871 AGTTTTTCTT
* * * *
4941881 AAACAAAATTGATCTCACTTGAGATTATTTTCTCTTGAAACAAATTTTGTCTCGCTTGAAACAAC
1 AAACAAAATTGATCTCACTTGAGATTATTTTC-CTAGAAACAAATTTTGTCTCGCTTGAGATAAT
* *
4941946 TTTCCCTCGAAACACAAATTTTGAAAGTGTTTCACTTG
65 TTTCCCTCGAAACACAAATTTTGAAATTATTTCACTTG
* * * * ** *
4941984 AAGCAAAATTGACCTCACTTGAGATTGTTTTCCTAAAAACAAATTTCATCTCGCTTGAGATATTT
1 AAACAAAATTGATCTCACTTGAGATTATTTTCCTAGAAACAAATTTTGTCTCGCTTGAGATAATT
*
4942049 TTCCCTCGAAACACAAATTTTAAAATTATTTCACTTG
66 TTCCCTCGAAACACAAATTTTGAAATTATTTCACTTG
* *
4942086 AAACAAAATTGATCTCACTTGAGATT-TTTTCCTCGGAACAAATTTTGTCTCGCTTGAGATAATT
1 AAACAAAATTGATCTCACTTGAGATTATTTTCCTAGAAACAAATTTTGTCTCGCTTGAGATAATT
* * * *
4942150 TTCCCTTGAAACACAAATTATGAAATTCTTTCACTCG
66 TTCCCTCGAAACACAAATTTTGAAATTATTTCACTTG
* *
4942187 AAACAAAATTTTATCTCACCTGAGAT
1 AAACAAAA-TTGATCTCACTTGAGAT
4942213 GGCTTCTTTG
Statistics
Matches: 199, Mismatches: 29, Indels: 3
0.86 0.13 0.01
Matches are distributed among these distances:
101 72 0.36
102 98 0.49
103 29 0.15
ACGTcount: A:0.34, C:0.20, G:0.11, T:0.36
Consensus pattern (102 bp):
AAACAAAATTGATCTCACTTGAGATTATTTTCCTAGAAACAAATTTTGTCTCGCTTGAGATAATT
TTCCCTCGAAACACAAATTTTGAAATTATTTCACTTG
Found at i:4942909 original size:134 final size:135
Alignment explanation
Indices: 4942591--4942963 Score: 473
Period size: 134 Copynumber: 2.8 Consensus size: 135
4942581 AACCGTCAAG
* * * *
4942591 TACGACTAGATGTCCTCAACATGAAGGAACAATGTTGTTCACCAATCAGATCTCCTCAACGCAAA
1 TACGACTAGATGTCCTCAACACGAAGGAACAATGTTGTTCACCGACCAGATCTCCTCAACACAAA
* **
4942656 -AGAGCAGTATCATCCTCAGACAATCAGACTTCCTCAACACGAAGGAATTGTATTGTCTCCAAAT
66 GA-AGCAGTGTCATCCTCAGACAATCAGACTTCCTCAACAC--AGGAACCGTATTGTCTCCAAAT
4942720 TATCCAAA
128 TATCCAAA
* ** * * * *
4942728 TACGGCTAGACATTCTCAACACGAAGGAACAATGTCGTTCACCGACCAGATCACCTTAACACAAA
1 TACGACTAGATGTCCTCAACACGAAGGAACAATGTTGTTCACCGACCAGATCTCCTCAACACAAA
*
4942793 GAAGCAGTGTCATCCTCAGACAATCAGACTTCCTCAACAC-GGAACCGTGTTGTCTCCAAATTAT
66 GAAGCAGTGTCATCCTCAGACAATCAGACTTCCTCAACACAGGAACCGTATTGTCTCCAAATTAT
4942857 CCAAA
131 CCAAA
* * * * * *
4942862 TACGCCTAGATGTCCTCAATACGAAGAAACAATGTTGTCCACTGACCAGATCTCCTCAA-AGCGA
1 TACGACTAGATGTCCTCAACACGAAGGAACAATGTTGTTCACCGACCAGATCTCCTCAACA-CAA
* **
4942926 AGGAGCAGTGTCAAACTCAGACAATCAGACTTCCTCAA
65 AGAAGCAGTGTCATCCTCAGACAATCAGACTTCCTCAA
4942964 TGTAAAGGAA
Statistics
Matches: 204, Mismatches: 30, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
133 1 0.00
134 111 0.54
137 91 0.45
138 1 0.00
ACGTcount: A:0.35, C:0.27, G:0.16, T:0.22
Consensus pattern (135 bp):
TACGACTAGATGTCCTCAACACGAAGGAACAATGTTGTTCACCGACCAGATCTCCTCAACACAAA
GAAGCAGTGTCATCCTCAGACAATCAGACTTCCTCAACACAGGAACCGTATTGTCTCCAAATTAT
CCAAA
Found at i:4945072 original size:43 final size:42
Alignment explanation
Indices: 4945025--4945154 Score: 105
Period size: 35 Copynumber: 3.2 Consensus size: 42
4945015 TTTTTGACTC
4945025 TTTATTTTTCAGTACTTTAATTTTATTTCTTTAATTATTGTAT
1 TTTATTTTTCAGTACTTTAATTTTA-TTCTTTAATTATTGTAT
** * * *
4945068 TTTATTTTTTTGT--TCTAA---TA-T-TTT-ATTTTTGTCT
1 TTTATTTTTCAGTACTTTAATTTTATTCTTTAATTATTGTAT
* *
4945102 CTTTATTTTTCAGTACTTTAATTTTATACCTTTAATTATTATAAT
1 -TTTATTTTTCAGTACTTTAATTTTAT-TCTTTAATTATTGT-AT
4945147 TTTATTTT
1 TTTATTTT
4945155 CTGTTTATTT
Statistics
Matches: 64, Mismatches: 12, Indels: 21
0.66 0.12 0.22
Matches are distributed among these distances:
34 8 0.12
35 14 0.22
36 1 0.02
37 4 0.06
38 2 0.03
40 2 0.03
41 4 0.06
43 14 0.22
44 14 0.22
45 1 0.02
ACGTcount: A:0.22, C:0.08, G:0.04, T:0.66
Consensus pattern (42 bp):
TTTATTTTTCAGTACTTTAATTTTATTCTTTAATTATTGTAT
Found at i:4945093 original size:78 final size:79
Alignment explanation
Indices: 4945000--4945154 Score: 249
Period size: 78 Copynumber: 2.0 Consensus size: 79
4944990 CTTGCTTTAA
* * ** *
4945000 TGTTTTAATCTTTTATTTTTGACTCTTTATTTTTCAGTACTTTAATTTTATTTCTTTAATTATTG
1 TGTTCTAATATTTTATTTTTGACTCTTTATTTTTCAGTACTTTAATTTTATACCTTTAATTATTA
4945065 T-ATTTTATTTTTT
66 TAATTTTATTTTTT
*
4945078 TGTTCTAATATTTTATTTTTGTCTCTTTATTTTTCAGTACTTTAATTTTATACCTTTAATTATTA
1 TGTTCTAATATTTTATTTTTGACTCTTTATTTTTCAGTACTTTAATTTTATACCTTTAATTATTA
4945143 TAATTTTATTTT
66 TAATTTTATTTT
4945155 CTGTTTATTT
Statistics
Matches: 70, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
78 60 0.86
79 10 0.14
ACGTcount: A:0.21, C:0.08, G:0.05, T:0.66
Consensus pattern (79 bp):
TGTTCTAATATTTTATTTTTGACTCTTTATTTTTCAGTACTTTAATTTTATACCTTTAATTATTA
TAATTTTATTTTTT
Found at i:4949135 original size:20 final size:20
Alignment explanation
Indices: 4949110--4949161 Score: 104
Period size: 20 Copynumber: 2.6 Consensus size: 20
4949100 ACAGAATGAA
4949110 AGTATCGATACTAGCCTAAG
1 AGTATCGATACTAGCCTAAG
4949130 AGTATCGATACTAGCCTAAG
1 AGTATCGATACTAGCCTAAG
4949150 AGTATCGATACT
1 AGTATCGATACT
4949162 CTTGTAAAAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.27
Consensus pattern (20 bp):
AGTATCGATACTAGCCTAAG
Found at i:4964130 original size:18 final size:18
Alignment explanation
Indices: 4964107--4964144 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
4964097 GTAAAATGAT
4964107 CATTTAAGGAATTATATA
1 CATTTAAGGAATTATATA
4964125 CATTTAAGGAATTATATA
1 CATTTAAGGAATTATATA
4964143 CA
1 CA
4964145 CGTGGGAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.45, C:0.08, G:0.11, T:0.37
Consensus pattern (18 bp):
CATTTAAGGAATTATATA
Found at i:4964657 original size:21 final size:21
Alignment explanation
Indices: 4964631--4964675 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
4964621 GATTTCTGAG
* *
4964631 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
4964652 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
4964673 CAA
1 CAA
4964676 ACGACAGAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:4964745 original size:23 final size:22
Alignment explanation
Indices: 4964701--4964745 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
4964691 AATGCCAGAG
*
4964701 GGGAACCGATACCCCCACAGGA
1 GGGAACCGATACCCCCAAAGGA
*
4964723 GGGAACCGATTCCCCCTAAAGGA
1 GGGAACCGATACCCCC-AAAGGA
4964746 AAATGGTAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.31, C:0.33, G:0.27, T:0.09
Consensus pattern (22 bp):
GGGAACCGATACCCCCAAAGGA
Found at i:4965834 original size:32 final size:32
Alignment explanation
Indices: 4965793--4965888 Score: 126
Period size: 32 Copynumber: 3.0 Consensus size: 32
4965783 GAGTCGAGGG
4965793 TTTACCTATGTTCTACGGAACATATGGACAGT
1 TTTACCTATGTTCTACGGAACATATGGACAGT
*
4965825 TTTACCTATG-TCTTTC-GAGACATATGGACAG-
1 TTTACCTATGTTC-TACGGA-ACATATGGACAGT
* *
4965856 TATACCTATGTTCTAAGGAACATATGGACAGT
1 TTTACCTATGTTCTACGGAACATATGGACAGT
4965888 T
1 T
4965889 ACCGAGGATC
Statistics
Matches: 55, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
31 26 0.47
32 29 0.53
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.34
Consensus pattern (32 bp):
TTTACCTATGTTCTACGGAACATATGGACAGT
Found at i:4965916 original size:30 final size:30
Alignment explanation
Indices: 4965880--4966091 Score: 374
Period size: 30 Copynumber: 7.1 Consensus size: 30
4965870 AAGGAACATA
4965880 TGGACAGTTACCGAGGATCTTTATGACCTC
1 TGGACAGTTACCGAGGATCTTTATGACCTC
4965910 TGGACAGTTACCGAGGATCTTTATGACCTC
1 TGGACAGTTACCGAGGATCTTTATGACCTC
4965940 TGGACAGTTACCGAGGATCTTTATGACCTC
1 TGGACAGTTACCGAGGATCTTTATGACCTC
4965970 TGGACAGTTACCGAGGATCTTTATGACCTC
1 TGGACAGTTACCGAGGATCTTTATGACCTC
4966000 TGGACAGTTACCGAGGATCTTTATGACCTC
1 TGGACAGTTACCGAGGATCTTTATGACCTC
4966030 TGGACAGTTA-CGAGGATCTTTATGACCTC
1 TGGACAGTTACCGAGGATCTTTATGACCTC
* * * *
4966059 TGGATAGTTACCG-GGGTCTGTGTGACCTC
1 TGGACAGTTACCGAGGATCTTTATGACCTC
4966088 TGGA
1 TGGA
4966092 TAGGTCTTTC
Statistics
Matches: 177, Mismatches: 4, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
29 45 0.25
30 132 0.75
ACGTcount: A:0.22, C:0.22, G:0.25, T:0.30
Consensus pattern (30 bp):
TGGACAGTTACCGAGGATCTTTATGACCTC
Found at i:4969279 original size:21 final size:21
Alignment explanation
Indices: 4969253--4969297 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
4969243 GATTTCTGGG
* *
4969253 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
4969274 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
4969295 CAA
1 CAA
4969298 ACGACAGAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:4969367 original size:23 final size:22
Alignment explanation
Indices: 4969323--4969367 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
4969313 AATGCCAGAG
*
4969323 GGGAACCGATACCCCCACAGGA
1 GGGAACCGATACCCCCAAAGGA
*
4969345 GGGAACCGATTCCCCCTAAAGGA
1 GGGAACCGATACCCCC-AAAGGA
4969368 AAATGGTAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.31, C:0.33, G:0.27, T:0.09
Consensus pattern (22 bp):
GGGAACCGATACCCCCAAAGGA
Found at i:4970464 original size:32 final size:32
Alignment explanation
Indices: 4970423--4970518 Score: 126
Period size: 32 Copynumber: 3.0 Consensus size: 32
4970413 GAGTCGAGGG
4970423 TTTACCTATGTTCTACGGAACATATGGACAGT
1 TTTACCTATGTTCTACGGAACATATGGACAGT
*
4970455 TTTACCTATG-TCTTTC-GAGACATATGGACAG-
1 TTTACCTATGTTC-TACGGA-ACATATGGACAGT
* *
4970486 TATACCTATGTTCTAAGGAACATATGGACAGT
1 TTTACCTATGTTCTACGGAACATATGGACAGT
4970518 T
1 T
4970519 ACCGAGGATC
Statistics
Matches: 55, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
31 26 0.47
32 29 0.53
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.34
Consensus pattern (32 bp):
TTTACCTATGTTCTACGGAACATATGGACAGT
Found at i:4970546 original size:30 final size:30
Alignment explanation
Indices: 4970510--4970722 Score: 374
Period size: 30 Copynumber: 7.1 Consensus size: 30
4970500 AAGGAACATA
4970510 TGGACAGTTACCGAGGATCTTTATGACCTC
1 TGGACAGTTACCGAGGATCTTTATGACCTC
4970540 TGGACAGTTACCGAGGATCTTTATGACCTC
1 TGGACAGTTACCGAGGATCTTTATGACCTC
*
4970570 TGGACAGTTATCGAGGATCTTTATGACCTC
1 TGGACAGTTACCGAGGATCTTTATGACCTC
4970600 TGGACAGTTACCGAGGATCTTTATGACCTC
1 TGGACAGTTACCGAGGATCTTTATGACCTC
4970630 TGGACAGTTACCGAGGATCTTTATGACCTC
1 TGGACAGTTACCGAGGATCTTTATGACCTC
4970660 TGGACAGTTACCGAGGATCTTTATGACCTC
1 TGGACAGTTACCGAGGATCTTTATGACCTC
* * * *
4970690 TGGATAGTTACCG-GGGTCTGTGTGACCTC
1 TGGACAGTTACCGAGGATCTTTATGACCTC
4970719 TGGA
1 TGGA
4970723 TAGGTCTTTC
Statistics
Matches: 177, Mismatches: 6, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
29 17 0.10
30 160 0.90
ACGTcount: A:0.22, C:0.22, G:0.25, T:0.31
Consensus pattern (30 bp):
TGGACAGTTACCGAGGATCTTTATGACCTC
Found at i:4971012 original size:14 final size:14
Alignment explanation
Indices: 4970980--4971027 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
4970970 AGAAGATAAT
* *
4970980 TATATGTATGTGTG
1 TATATGTATATATG
*
4970994 GATATGTATATATG
1 TATATGTATATATG
* *
4971008 TATATATATATATC
1 TATATGTATATATG
4971022 TATATG
1 TATATG
4971028 AAAGGTGCAT
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.33, C:0.02, G:0.17, T:0.48
Consensus pattern (14 bp):
TATATGTATATATG
Found at i:4975361 original size:39 final size:39
Alignment explanation
Indices: 4975307--4975385 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
4975297 TTTATATATA
*
4975307 ATTCATTTACCATTCTAGTTATATTCATTTGTTAAAATT
1 ATTCATTTACCATTCTACTTATATTCATTTGTTAAAATT
4975346 ATTCATTTACCATTCTACTTATATTCATTTGTTAAAATT
1 ATTCATTTACCATTCTACTTATATTCATTTGTTAAAATT
4975385 A
1 A
4975386 ATTTTATAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.32, C:0.14, G:0.04, T:0.51
Consensus pattern (39 bp):
ATTCATTTACCATTCTACTTATATTCATTTGTTAAAATT
Found at i:4975411 original size:16 final size:14
Alignment explanation
Indices: 4975372--4975415 Score: 54
Period size: 14 Copynumber: 3.0 Consensus size: 14
4975362 ACTTATATTC
4975372 ATTTGTTAAAATTA
1 ATTTGTTAAAATTA
4975386 ATTT-TATAAATATATA
1 ATTTGT-TAAA-AT-TA
4975402 ATTTGTTAAAATTA
1 ATTTGTTAAAATTA
4975416 TTTTAAAAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
13 1 0.04
14 10 0.38
15 4 0.15
16 10 0.38
17 1 0.04
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (14 bp):
ATTTGTTAAAATTA
Done.