Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167882.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_15, 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: 22478863
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 61000 characters in sequence are not A, C, G, or T
File 55 of 106
Found at i:9661545 original size:2 final size:2
Alignment explanation
Indices: 9661538--9661570 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
9661528 CTGCACAAGA
9661538 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
9661571 AGATAATTTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:9665605 original size:15 final size:14
Alignment explanation
Indices: 9665559--9665606 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 14
9665549 ATATATTTCA
9665559 TTTCTTT-TTTTTT
1 TTTCTTTCTTTTTT
**
9665572 TTTGCTTTCTTTTCA
1 TTT-CTTTCTTTTTT
9665587 TTTCTTGTCTTTTTT
1 TTTCTT-TCTTTTTT
9665602 TTTCT
1 TTTCT
9665607 ATGACTTGCT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
13 3 0.11
14 7 0.25
15 18 0.64
ACGTcount: A:0.02, C:0.15, G:0.04, T:0.79
Consensus pattern (14 bp):
TTTCTTTCTTTTTT
Found at i:9665821 original size:42 final size:42
Alignment explanation
Indices: 9665757--9665838 Score: 137
Period size: 42 Copynumber: 2.0 Consensus size: 42
9665747 GGTTTTTTAG
*
9665757 ATATTAATAATTTAGAATCTATTATACAACCTTTAATGCTCT
1 ATATCAATAATTTAGAATCTATTATACAACCTTTAATGCTCT
* *
9665799 ATATCAATAATTTAGAATCTATTATACTACCTTTGATGCT
1 ATATCAATAATTTAGAATCTATTATACAACCTTTAATGCT
9665839 TTGTATCCTT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.37, C:0.15, G:0.06, T:0.43
Consensus pattern (42 bp):
ATATCAATAATTTAGAATCTATTATACAACCTTTAATGCTCT
Found at i:9673002 original size:25 final size:24
Alignment explanation
Indices: 9672955--9673017 Score: 85
Period size: 25 Copynumber: 2.7 Consensus size: 24
9672945 TAAATTTTAT
*
9672955 AAAAAA-AACTTTAAA-TAGATAA
1 AAAAAATAAATTTAAATTAGATAA
9672977 AAAAAATAAATTTGAAATTAGATAA
1 AAAAAATAAATTT-AAATTAGATAA
*
9673002 AAAAATTAAATTTAAA
1 AAAAAATAAATTTAAA
9673018 ATTTTTCGTA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
22 6 0.17
23 5 0.14
24 6 0.17
25 19 0.53
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.27
Consensus pattern (24 bp):
AAAAAATAAATTTAAATTAGATAA
Found at i:9680132 original size:17 final size:18
Alignment explanation
Indices: 9680112--9680145 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
9680102 TACCTTTAAT
*
9680112 TTTTTTC-TAAATAAATA
1 TTTTTTCATAAAAAAATA
9680129 TTTTTTCATAAAAAAAT
1 TTTTTTCATAAAAAAAT
9680146 TATAAAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (18 bp):
TTTTTTCATAAAAAAATA
Found at i:9680166 original size:17 final size:17
Alignment explanation
Indices: 9680136--9680170 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
9680126 ATATTTTTTC
9680136 ATAAAAAAATTATAAAA
1 ATAAAAAAATTATAAAA
9680153 ATAAAGAAAA-TATAAAA
1 ATAAA-AAAATTATAAAA
9680170 A
1 A
9680171 ATCAATAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.20
Consensus pattern (17 bp):
ATAAAAAAATTATAAAA
Found at i:9680211 original size:3 final size:3
Alignment explanation
Indices: 9680198--9680238 Score: 55
Period size: 3 Copynumber: 13.0 Consensus size: 3
9680188 CCCAATGAAT
*
9680198 TAA TAA TTAA TAA TTAA TAA TAA TAA TAA CAA TAA TAA TAA
1 TAA TAA -TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA
9680239 ATACAATTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
3 28 0.82
4 6 0.18
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:9682905 original size:25 final size:26
Alignment explanation
Indices: 9682871--9682921 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
9682861 ATCAAGAATA
9682871 CCTTGAATAATC-TCTTC-TAAAAATG
1 CCTTGAATAATCTTC-TCATAAAAATG
*
9682896 CCTTTAATAATCTTCTCATAAAAATG
1 CCTTGAATAATCTTCTCATAAAAATG
9682922 AGAAGGGTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 13 0.57
26 10 0.43
ACGTcount: A:0.37, C:0.20, G:0.06, T:0.37
Consensus pattern (26 bp):
CCTTGAATAATCTTCTCATAAAAATG
Found at i:9683016 original size:62 final size:62
Alignment explanation
Indices: 9682889--9683016 Score: 161
Period size: 62 Copynumber: 2.1 Consensus size: 62
9682879 AATCTCTTCT
* * *
9682889 AAAAATGCCTTTAATAATCTTCTCATAAAAATGAGAAGGGTTTATTCAAGGCAAGTTTGATA
1 AAAAATGCCTTAAATAATCTTCTCATAAAAATGAGAAGGGATTATTCAAGGCAAGTTTGACA
* * * *
9682951 AAAAATGCCTTAAATAATTTTCTCATAAAAAT-AGAGGGAGATTATTGAAGGC-ATTTTAGACA
1 AAAAATGCCTTAAATAATCTTCTCATAAAAATGAGAAGG-GATTATTCAAGGCAAGTTT-GACA
9683013 AAAA
1 AAAA
9683017 CACCTTGAAT
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
61 9 0.16
62 48 0.84
ACGTcount: A:0.44, C:0.10, G:0.16, T:0.30
Consensus pattern (62 bp):
AAAAATGCCTTAAATAATCTTCTCATAAAAATGAGAAGGGATTATTCAAGGCAAGTTTGACA
Found at i:9685483 original size:19 final size:19
Alignment explanation
Indices: 9685459--9685522 Score: 62
Period size: 19 Copynumber: 3.4 Consensus size: 19
9685449 AAATATCAAC
9685459 AATCATACAATAAATATTA
1 AATCATACAATAAATATTA
9685478 AATCATACAATGCAAA-AGTT-
1 AATCATACAAT--AAATA-TTA
* *
9685498 -ATCATGCAATAAATATAA
1 AATCATACAATAAATATTA
9685516 AATCATA
1 AATCATA
9685523 TCATGCAATA
Statistics
Matches: 36, Mismatches: 3, Indels: 12
0.71 0.06 0.24
Matches are distributed among these distances:
17 4 0.11
18 1 0.03
19 25 0.69
20 1 0.03
21 5 0.14
ACGTcount: A:0.55, C:0.12, G:0.05, T:0.28
Consensus pattern (19 bp):
AATCATACAATAAATATTA
Found at i:9685524 original size:24 final size:24
Alignment explanation
Indices: 9685497--9685557 Score: 108
Period size: 22 Copynumber: 2.6 Consensus size: 24
9685487 ATGCAAAAGT
9685497 TATCATGCAATAAATATAAAATCA
1 TATCATGCAATAAATATAAAATCA
9685521 TATCATGCAAT-AA-ATAAAATCA
1 TATCATGCAATAAATATAAAATCA
9685543 TATCATGCAATAAAT
1 TATCATGCAATAAAT
9685558 CGTGCAATAA
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
22 20 0.57
23 4 0.11
24 11 0.31
ACGTcount: A:0.52, C:0.13, G:0.05, T:0.30
Consensus pattern (24 bp):
TATCATGCAATAAATATAAAATCA
Found at i:9685578 original size:35 final size:35
Alignment explanation
Indices: 9685525--9685644 Score: 163
Period size: 35 Copynumber: 3.4 Consensus size: 35
9685515 AAATCATATC
* *
9685525 ATGCAATAA-ATAAAATCATATCATGCAATAAATC
1 ATGCAATAATATAAAATCATACCATGCAATAAATA
*
9685559 GTGCAATAATATAAAATCATACCATGCAATAAATA
1 ATGCAATAATATAAAATCATACCATGCAATAAATA
9685594 ATGCAATAATATAAAATCATACCATGCAA-AAATTA
1 ATGCAATAATATAAAATCATACCATGCAATAAA-TA
*
9685629 TCATACAATAATATAA
1 --ATGCAATAATATAA
9685645 TACCATAAAA
Statistics
Matches: 77, Mismatches: 5, Indels: 5
0.89 0.06 0.06
Matches are distributed among these distances:
34 11 0.14
35 53 0.69
37 13 0.17
ACGTcount: A:0.53, C:0.14, G:0.06, T:0.27
Consensus pattern (35 bp):
ATGCAATAATATAAAATCATACCATGCAATAAATA
Found at i:9685683 original size:18 final size:18
Alignment explanation
Indices: 9685660--9685698 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
9685650 TAAAAATCAT
*
9685660 TCATGCAAATATATATAA
1 TCATGCAAATAAATATAA
*
9685678 TCATGCAATTAAATATAA
1 TCATGCAAATAAATATAA
9685696 TCA
1 TCA
9685699 CATAAATAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.49, C:0.13, G:0.05, T:0.33
Consensus pattern (18 bp):
TCATGCAAATAAATATAA
Found at i:9685765 original size:12 final size:12
Alignment explanation
Indices: 9685750--9685789 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
9685740 TAATCATACA
9685750 AATAAATATATT
1 AATAAATATATT
* *
9685762 AATAAATCACATA
1 AATAAAT-ATATT
9685775 AATAAATATATT
1 AATAAATATATT
9685787 AAT
1 AAT
9685790 CATGCAAATA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
12 13 0.57
13 10 0.43
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (12 bp):
AATAAATATATT
Found at i:9685770 original size:25 final size:25
Alignment explanation
Indices: 9685702--9685840 Score: 98
Period size: 21 Copynumber: 5.6 Consensus size: 25
9685692 ATAATCACAT
* *
9685702 AAATAATTATATTAA-AAATCATGC
1 AAATAAATATATTAATAAATCATAC
9685726 -AATCAAAT-TA--AATATAATCATAC
1 AAAT-AAATATATTAATA-AATCATAC
* *
9685749 AAATAAATATATTAATAAATCACAT
1 AAATAAATATATTAATAAATCATAC
*
9685774 AAATAAATATA-T--T-AATCATGC
1 AAATAAATATATTAATAAATCATAC
9685795 AAATAAATATATTAATAACATGCAATCAC
1 AAATAAATATATTAATAA-AT-C-AT-AC
9685824 ACACATAAATATATTAA
1 A-A-ATAAATATATTAA
9685841 GTAATCAATA
Statistics
Matches: 90, Mismatches: 8, Indels: 27
0.72 0.06 0.22
Matches are distributed among these distances:
21 18 0.20
22 3 0.03
23 16 0.18
24 10 0.11
25 18 0.20
26 6 0.07
27 1 0.01
28 2 0.02
29 2 0.02
30 1 0.01
31 13 0.14
ACGTcount: A:0.56, C:0.11, G:0.02, T:0.31
Consensus pattern (25 bp):
AAATAAATATATTAATAAATCATAC
Found at i:9685800 original size:46 final size:47
Alignment explanation
Indices: 9685688--9685812 Score: 150
Period size: 46 Copynumber: 2.7 Consensus size: 47
9685678 TCATGCAATT
* * * *
9685688 AAATATAATCACATAAATAATTATATTAA-AAATCATGCAATCAAATT
1 AAATATAATCATACAAATAAATATATTAATAAATCA-GCAATCAAATA
9685735 AAATATAATCATACAAATAAATATATTAATAAATCA-C-AT-AAATA
1 AAATATAATCATACAAATAAATATATTAATAAATCAGCAATCAAATA
*
9685779 AATATATTAATCATGCAAATAAATATATTAATAA
1 AA-ATA-TAATCATACAAATAAATATATTAATAA
9685813 CATGCAATCA
Statistics
Matches: 70, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
44 6 0.09
45 5 0.07
46 27 0.39
47 26 0.37
48 6 0.09
ACGTcount: A:0.58, C:0.09, G:0.02, T:0.32
Consensus pattern (47 bp):
AAATATAATCATACAAATAAATATATTAATAAATCAGCAATCAAATA
Found at i:9685940 original size:20 final size:17
Alignment explanation
Indices: 9685880--9685926 Score: 71
Period size: 17 Copynumber: 2.9 Consensus size: 17
9685870 ATAAATCTTG
*
9685880 CATGCAAAT-TAA-ATT
1 CATGCAAATATAATAAT
9685895 CATGCAAATATAATAAT
1 CATGCAAATATAATAAT
9685912 CATGCAAATATAATA
1 CATGCAAATATAATA
9685927 TTAGTTATGC
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 9 0.31
16 3 0.10
17 17 0.59
ACGTcount: A:0.51, C:0.13, G:0.06, T:0.30
Consensus pattern (17 bp):
CATGCAAATATAATAAT
Found at i:9686420 original size:14 final size:14
Alignment explanation
Indices: 9686389--9686435 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
9686379 CTAAAAAATT
*
9686389 AAAAATTAAAC--C
1 AAAAATTAAACTAA
9686401 AAAAATTAAACTAA
1 AAAAATTAAACTAA
*
9686415 AAAAATTAAAATACA
1 AAAAATTAAACTA-A
9686430 AAAAAT
1 AAAAAT
9686436 ATTTAGAGCT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
12 11 0.37
14 12 0.40
15 7 0.23
ACGTcount: A:0.72, C:0.09, G:0.00, T:0.19
Consensus pattern (14 bp):
AAAAATTAAACTAA
Found at i:9687732 original size:36 final size:36
Alignment explanation
Indices: 9687692--9687760 Score: 111
Period size: 36 Copynumber: 1.9 Consensus size: 36
9687682 ATTTAAAACC
*
9687692 AAAAAAAAAAAAAAATAGAGTTTATGGTACCAAAAA
1 AAAAAAAAAAAAAAACAGAGTTTATGGTACCAAAAA
* *
9687728 AAAAAAAAAGAAAACCAGAGTTTATGGTACCAA
1 AAAAAAAAAAAAAAACAGAGTTTATGGTACCAA
9687761 CTTGTACCAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.62, C:0.09, G:0.13, T:0.16
Consensus pattern (36 bp):
AAAAAAAAAAAAAAACAGAGTTTATGGTACCAAAAA
Found at i:9690262 original size:32 final size:33
Alignment explanation
Indices: 9690188--9690262 Score: 82
Period size: 32 Copynumber: 2.3 Consensus size: 33
9690178 AAGGACTAAT
**
9690188 TAAATAAAAAGAACGGATTATCAAAATTCATATTG
1 TAAA-AAAAA-AACGGATTATCAAAATTCATATAC
*
9690223 TAAAAAAAAAAC-GATTATCAAAGTTCAT-TAC
1 TAAAAAAAAAACGGATTATCAAAATTCATATAC
*
9690254 TAAGAAAAA
1 TAAAAAAAA
9690263 CAAAATATGT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
31 9 0.25
32 15 0.42
33 3 0.08
34 5 0.14
35 4 0.11
ACGTcount: A:0.56, C:0.09, G:0.09, T:0.25
Consensus pattern (33 bp):
TAAAAAAAAAACGGATTATCAAAATTCATATAC
Found at i:9703831 original size:27 final size:28
Alignment explanation
Indices: 9703801--9703865 Score: 73
Period size: 27 Copynumber: 2.4 Consensus size: 28
9703791 AGTTTTATCT
* *
9703801 TATATATTTATGTAATT-TTTTAAA-AAA
1 TATATATTAATAT-ATTGTTTTAAATAAA
*
9703828 TATACATTAATATATTGTTTTAAATAAA
1 TATATATTAATATATTGTTTTAAATAAA
9703856 -ATATATTAAT
1 TATATATTAAT
9703866 TCTAATTAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
26 3 0.09
27 26 0.81
28 3 0.09
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.49
Consensus pattern (28 bp):
TATATATTAATATATTGTTTTAAATAAA
Found at i:9703896 original size:23 final size:24
Alignment explanation
Indices: 9703852--9703901 Score: 61
Period size: 22 Copynumber: 2.1 Consensus size: 24
9703842 TTGTTTTAAA
9703852 TAAAATATATTAATTCTAATTAATT
1 TAAAATATATTAATTCTAATT-ATT
9703877 TAAAATA-A-TAATT-TATATTATT
1 TAAAATATATTAATTCTA-ATTATT
9703899 TAA
1 TAA
9703902 CAAAAAATCT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
22 8 0.33
23 8 0.33
24 1 0.04
25 7 0.29
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (24 bp):
TAAAATATATTAATTCTAATTATT
Found at i:9721885 original size:22 final size:23
Alignment explanation
Indices: 9721765--9721893 Score: 86
Period size: 22 Copynumber: 5.7 Consensus size: 23
9721755 CAAATCAATG
* *
9721765 ATAACATAATAGTAAA-TAATTA
1 ATAACTTAATAATAAATTAATTA
* *
9721787 ATAACTTAGTAATTAATT-ATTA
1 ATAACTTAATAATAAATTAATTA
* * * * *
9721809 AAAATTTAAAAATAATAATCATTA
1 ATAACTTAATAATAA-ATTAATTA
* * *
9721833 ATAACTTAATAGTAAA-TCATAA
1 ATAACTTAATAATAAATTAATTA
* *
9721855 ATGATTTAATAATAAATTAATT-
1 ATAACTTAATAATAAATTAATTA
*
9721877 ATAACTTAATAGTAAAT
1 ATAACTTAATAATAAAT
9721894 AAATGACAAT
Statistics
Matches: 80, Mismatches: 23, Indels: 8
0.72 0.21 0.07
Matches are distributed among these distances:
22 58 0.73
23 7 0.09
24 15 0.19
ACGTcount: A:0.54, C:0.05, G:0.04, T:0.37
Consensus pattern (23 bp):
ATAACTTAATAATAAATTAATTA
Found at i:9721906 original size:44 final size:43
Alignment explanation
Indices: 9721819--9721924 Score: 112
Period size: 44 Copynumber: 2.4 Consensus size: 43
9721809 AAAATTTAAA
* *
9721819 AATAAT-AATCATTAATAACTTAATAGTAAATCATAAATGATTT
1 AATAATAAATAATTGATAACTTAATAGTAAA-CATAAATGATTT
9721862 AATAATAAATTAATT-ATAACTTAATAGT-AA-ATAAATGACAATTT
1 AATAATAAA-TAATTGATAACTTAATAGTAAACATAAATG---ATTT
*
9721906 AATAATCAATAATTGATAA
1 AATAATAAATAATTGATAA
9721925 TTTAGTTGTA
Statistics
Matches: 55, Mismatches: 2, Indels: 11
0.81 0.03 0.16
Matches are distributed among these distances:
41 7 0.13
43 13 0.24
44 31 0.56
45 4 0.07
ACGTcount: A:0.54, C:0.06, G:0.05, T:0.36
Consensus pattern (43 bp):
AATAATAAATAATTGATAACTTAATAGTAAACATAAATGATTT
Found at i:9721907 original size:22 final size:22
Alignment explanation
Indices: 9721858--9721928 Score: 79
Period size: 22 Copynumber: 3.2 Consensus size: 22
9721848 ATCATAAATG
* *
9721858 ATTTAATAATAAATTAATTATA
1 ATTTAATAATAAATAAATGATA
* * *
9721880 ACTTAATAGTAAATAAATGACA
1 ATTTAATAATAAATAAATGATA
* *
9721902 ATTTAATAATCAATAATTGATA
1 ATTTAATAATAAATAAATGATA
9721924 ATTTA
1 ATTTA
9721929 GTTGTAAATT
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 39 1.00
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.39
Consensus pattern (22 bp):
ATTTAATAATAAATAAATGATA
Found at i:9736895 original size:27 final size:28
Alignment explanation
Indices: 9736839--9736904 Score: 82
Period size: 27 Copynumber: 2.4 Consensus size: 28
9736829 ATGAATTAAA
*
9736839 ATTAATATATTTTTATTTAAAAAATATAT
1 ATTAATATATTCTTA-TTAAAAAATATAT
9736868 ATTAATATATTCTTA-TAATAAAAT-TAT
1 ATTAATATATTCTTATTAA-AAAATATAT
*
9736895 ATAAATATAT
1 ATTAATATAT
9736905 AACATAATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
27 15 0.44
28 5 0.15
29 14 0.41
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (28 bp):
ATTAATATATTCTTATTAAAAAATATAT
Found at i:9738653 original size:6 final size:7
Alignment explanation
Indices: 9738638--9738662 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
9738628 AATTGATGGG
9738638 TTTTCTT
1 TTTTCTT
9738645 TTTTCTT
1 TTTTCTT
9738652 TTTTCTT
1 TTTTCTT
9738659 TTTT
1 TTTT
9738663 TAACCTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTCTT
Found at i:9739394 original size:30 final size:30
Alignment explanation
Indices: 9739355--9739412 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
9739345 TATTATATAT
* * *
9739355 ATATATATATTTATATAATGATATTTTAAA
1 ATATATATATTTAAAAAATAATATTTTAAA
*
9739385 ATATTTATATTTAAAAAATAATATTTTA
1 ATATATATATTTAAAAAATAATATTTTA
9739413 TTAATTTCGG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (30 bp):
ATATATATATTTAAAAAATAATATTTTAAA
Found at i:9739961 original size:10 final size:10
Alignment explanation
Indices: 9739946--9739970 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
9739936 AAAAATAAAA
9739946 ATATTTTATC
1 ATATTTTATC
9739956 ATATTTTATC
1 ATATTTTATC
9739966 ATATT
1 ATATT
9739971 AAATTAAGAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.60
Consensus pattern (10 bp):
ATATTTTATC
Found at i:9740838 original size:297 final size:301
Alignment explanation
Indices: 9740245--9740852 Score: 761
Period size: 304 Copynumber: 2.0 Consensus size: 301
9740235 ATAATGCAAA
* * * *
9740245 AATTATTTTAATATATTTAAACAATCTCTAAGGACTTATTTGTTTAATATTTTTCAAATATTCAT
1 AATT-TTTTAATATATTAAAACAATCTCTAAGGACTTATTTGTTTAACATTTGTCAAAAATTCAT
* ** * * *
9740310 TGTTTACATTTTTTAATTATTTTTAAGATCTTATTATTGCCATTTGTTCACCTTTGATTGGTTTT
65 TGTTTACATATGCTAATTATTTTTAAGATCCTATTATTGCCATTTGTTCACATTTGAATGGTTTT
* * *
9740375 TATTAGTTATAGGTTTTATCCTCAATTATATATGGGCTTTATTCATTTAGCTTGAAAGAGTAGGC
130 TATTAATTATAGGTTTTATCCTCAATTATATA---GCTATATTCATTTAGCTTGAAAGAATAGGC
* * * * *
9740440 TTGGTAAAGAATAATATGGGTTAAGTAAACATATGTACCTTGTTCATTTGTGTTGGATGAATGAG
192 TTAGCAAAGAATAATATGAGTTAAGTAAACATATGTA-CTTATTCATTTGTGTTAGATGAATGAG
* * *
9740505 GTAAGTATATAATGCTATAATAATTTTCATTTAAGTTTTAATTTTT
256 GTAAGTATATAATGCTATAATAAATTTCATTTAAGTTTTAAATTTC
** * *
9740551 AATTTTTTAA-ATATTAAAACAAT-TCTTAAGGGGTTGTTTGTTTAGCATTTGTCAAAAATTCAT
1 AATTTTTTAATATATTAAAACAATCTC-TAAGGACTTATTTGTTTAACATTTGTCAAAAATTCAT
*
9740614 TAG-TTACATATGCTAATTATTTTTAGGATCCTATTATTGCCATTTGTTCACATTTGAATGGTTT
65 T-GTTTACATATGCTAATTATTTTTAAGATCCTATTATTGCCATTTGTTCACATTTGAATGGTTT
* * *
9740678 TTATTAATTATAGGTTTTGTCTTCAA-T-TA-A-C-ATATTCATTTATTCTTGAAAGAATAGGCT
129 TTATTAATTATAGGTTTTATCCTCAATTATATAGCTATATTCATTTA-GCTTGAAAGAATAGGCT
*
9740738 TAGCAAAGAATAATATGAGTTGAA-TAAATATATGGGTA-TTATTCATTTGTGTTAGATGAATG-
193 TAGCAAAGAATAATATGAGTT-AAGTAAACATAT--GTACTTATTCATTTGTGTTAGATGAATGA
9740800 GGCTAAGTATATAATGCTATAATAAATTTCATTTAAGTTTTAAATTTC
255 GG-TAAGTATATAATGCTATAATAAATTTCATTTAAGTTTTAAATTTC
9740848 AATTT
1 AATTT
9740853 AAATTATTAT
Statistics
Matches: 265, Mismatches: 30, Indels: 23
0.83 0.09 0.07
Matches are distributed among these distances:
296 12 0.05
297 111 0.42
298 2 0.01
299 3 0.01
301 1 0.00
302 2 0.01
303 3 0.01
304 120 0.45
305 7 0.03
306 4 0.02
ACGTcount: A:0.32, C:0.08, G:0.14, T:0.46
Consensus pattern (301 bp):
AATTTTTTAATATATTAAAACAATCTCTAAGGACTTATTTGTTTAACATTTGTCAAAAATTCATT
GTTTACATATGCTAATTATTTTTAAGATCCTATTATTGCCATTTGTTCACATTTGAATGGTTTTT
ATTAATTATAGGTTTTATCCTCAATTATATAGCTATATTCATTTAGCTTGAAAGAATAGGCTTAG
CAAAGAATAATATGAGTTAAGTAAACATATGTACTTATTCATTTGTGTTAGATGAATGAGGTAAG
TATATAATGCTATAATAAATTTCATTTAAGTTTTAAATTTC
Found at i:9740946 original size:16 final size:17
Alignment explanation
Indices: 9740915--9740947 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
9740905 TGCACTGAAA
*
9740915 ATTTAATATTTCATAAT
1 ATTTAATATTTAATAAT
9740932 ATTTAA-ATTTAATAAT
1 ATTTAATATTTAATAAT
9740948 TTATTTTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (17 bp):
ATTTAATATTTAATAAT
Found at i:9742121 original size:14 final size:14
Alignment explanation
Indices: 9742068--9742126 Score: 57
Period size: 14 Copynumber: 4.0 Consensus size: 14
9742058 TAAATTTTGA
9742068 TTATATATATTAATAT
1 TTATATATATT--TAT
*
9742084 TTTTATACT-TTTAT
1 TTATATA-TATTTAT
*
9742098 TTTTATTATATTTAT
1 TTATA-TATATTTAT
9742113 TTATATATATTTAT
1 TTATATATATTTAT
9742127 CCTTCTTGTT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 18 0.47
15 11 0.29
16 8 0.21
17 1 0.03
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (14 bp):
TTATATATATTTAT
Found at i:9743273 original size:10 final size:10
Alignment explanation
Indices: 9743254--9743293 Score: 55
Period size: 10 Copynumber: 4.1 Consensus size: 10
9743244 TGATTGTGTA
9743254 TTAA-AAGAG
1 TTAAGAAGAG
9743263 TTAAGAAGAG
1 TTAAGAAGAG
*
9743273 TTAAAAAGAG
1 TTAAGAAGAG
*
9743283 TCAAGAAGAG
1 TTAAGAAGAG
9743293 T
1 T
9743294 CTTAGACCAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
9 4 0.15
10 23 0.85
ACGTcount: A:0.53, C:0.03, G:0.25, T:0.20
Consensus pattern (10 bp):
TTAAGAAGAG
Found at i:9743281 original size:20 final size:20
Alignment explanation
Indices: 9743256--9743293 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
9743246 ATTGTGTATT
*
9743256 AAAAGAGTTAAGAAGAGTTA
1 AAAAGAGTCAAGAAGAGTTA
9743276 AAAAGAGTCAAGAAGAGT
1 AAAAGAGTCAAGAAGAGT
9743294 CTTAGACCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.55, C:0.03, G:0.26, T:0.16
Consensus pattern (20 bp):
AAAAGAGTCAAGAAGAGTTA
Found at i:9745027 original size:21 final size:21
Alignment explanation
Indices: 9745003--9745043 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
9744993 ACAAAAAACG
*
9745003 AAAGAGAAAGAGAAA-GAAAAT
1 AAAGA-AAAAAGAAATGAAAAT
9745024 AAAGAAAAAAGAAATGAAAA
1 AAAGAAAAAAGAAATGAAAA
9745044 GATGAAAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.76, C:0.00, G:0.20, T:0.05
Consensus pattern (21 bp):
AAAGAAAAAAGAAATGAAAAT
Found at i:9747266 original size:43 final size:42
Alignment explanation
Indices: 9747173--9747268 Score: 99
Period size: 44 Copynumber: 2.2 Consensus size: 42
9747163 ATGTGATCCC
*
9747173 TTGAATTTTTCGAATGTAAACTTTGAATTTAAATGTGAAACT
1 TTGAATTTTTCGAATGTAAACTTTGAATCTAAATGTGAAACT
* *
9747215 TTAAAATTTCTT-GAATGTGAATCTTTGAACTCT-AATGTGAATA-T
1 TT-GAATTT-TTCGAATGT-AAACTTTGAA-TCTAAATGTGAA-ACT
9747259 TTGAATTTTT
1 TTGAATTTTT
9747269 TAAATTTCCT
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
42 4 0.09
43 16 0.36
44 22 0.49
45 3 0.07
ACGTcount: A:0.33, C:0.07, G:0.14, T:0.46
Consensus pattern (42 bp):
TTGAATTTTTCGAATGTAAACTTTGAATCTAAATGTGAAACT
Found at i:9747309 original size:22 final size:21
Alignment explanation
Indices: 9747281--9747366 Score: 73
Period size: 22 Copynumber: 3.9 Consensus size: 21
9747271 AATTTCCTAA
*
9747281 ATGTGAATCTTTAAAATTTTGG
1 ATGTGAAT-ATTAAAATTTTGG
* * *
9747303 ATGTGAAACACTAAAATTTTTGA
1 ATGTG-AATATTAAAA-TTTTGG
* *
9747326 ATGAGAATTTTAAAAATTTTGG
1 ATGTGAATATT-AAAATTTTGG
*
9747348 AAGTGAATATTAAAATTTT
1 ATGTGAATATTAAAATTTT
9747367 TCTTTTAAAT
Statistics
Matches: 49, Mismatches: 12, Indels: 7
0.72 0.18 0.10
Matches are distributed among these distances:
21 8 0.16
22 26 0.53
23 15 0.31
ACGTcount: A:0.41, C:0.03, G:0.15, T:0.41
Consensus pattern (21 bp):
ATGTGAATATTAAAATTTTGG
Found at i:9747341 original size:23 final size:21
Alignment explanation
Indices: 9747314--9747367 Score: 63
Period size: 23 Copynumber: 2.5 Consensus size: 21
9747304 TGTGAAACAC
*
9747314 TAAAATTTTTGAATGAGAATTT
1 TAAAATTTTTGAA-GAGAATAT
* *
9747336 TAAAAATTTTGGAAGTGAATAT
1 T-AAAATTTTTGAAGAGAATAT
9747358 TAAAATTTTT
1 TAAAATTTTT
9747368 CTTTTAAATC
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
21 8 0.30
22 8 0.30
23 11 0.41
ACGTcount: A:0.43, C:0.00, G:0.13, T:0.44
Consensus pattern (21 bp):
TAAAATTTTTGAAGAGAATAT
Found at i:9747344 original size:45 final size:44
Alignment explanation
Indices: 9747280--9747367 Score: 115
Period size: 45 Copynumber: 2.0 Consensus size: 44
9747270 AAATTTCCTA
* *
9747280 AATGTGAATCTTTAAAATTTTGGATGTGAAACACTAAAATTTTTG
1 AATGAGAATCTTTAAAATTTTGGAAGTG-AACACTAAAATTTTTG
* *
9747325 AATGAGAAT-TTTAAAAATTTTGGAAGTGAATATTAAAATTTTT
1 AATGAGAATCTTT-AAAATTTTGGAAGTGAACACTAAAATTTTT
9747368 CTTTTAAATC
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
44 16 0.42
45 22 0.58
ACGTcount: A:0.41, C:0.03, G:0.15, T:0.41
Consensus pattern (44 bp):
AATGAGAATCTTTAAAATTTTGGAAGTGAACACTAAAATTTTTG
Found at i:9747671 original size:17 final size:17
Alignment explanation
Indices: 9747649--9747704 Score: 76
Period size: 17 Copynumber: 3.3 Consensus size: 17
9747639 TTGACGAATA
*
9747649 TGAAATTCTTGTAAACT
1 TGAAATTCTTGCAAACT
*
9747666 TGAAATTCTTGCAAATT
1 TGAAATTCTTGCAAACT
* *
9747683 TGAAATTCTCGCAAAAT
1 TGAAATTCTTGCAAACT
9747700 TGAAA
1 TGAAA
9747705 CTTTTACAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 35 1.00
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.36
Consensus pattern (17 bp):
TGAAATTCTTGCAAACT
Found at i:9750435 original size:18 final size:18
Alignment explanation
Indices: 9750412--9750467 Score: 60
Period size: 19 Copynumber: 3.0 Consensus size: 18
9750402 AGAATTAATG
9750412 TTATAAATAAATTTTAAA
1 TTATAAATAAATTTTAAA
*
9750430 TTAT-AATGAAATATTTAAT
1 TTATAAAT-AAAT-TTTAAA
*
9750449 TTGATATATAAATTTTAAA
1 TT-ATAAATAAATTTTAAA
9750468 ATTTTTTAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
17 3 0.10
18 8 0.26
19 12 0.39
20 6 0.19
21 2 0.06
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (18 bp):
TTATAAATAAATTTTAAA
Found at i:9750607 original size:15 final size:16
Alignment explanation
Indices: 9750569--9750610 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
9750559 TAAATAACTC
*
9750569 TTTAAATATCATATTAA
1 TTTAAATAT-TTATTAA
*
9750586 TTAAAATATTTA-TAA
1 TTTAAATATTTATTAA
9750601 TTTAAATATT
1 TTTAAATATT
9750611 ATTTAAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
15 12 0.55
16 2 0.09
17 8 0.36
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (16 bp):
TTTAAATATTTATTAA
Found at i:9750620 original size:29 final size:31
Alignment explanation
Indices: 9750569--9750646 Score: 90
Period size: 29 Copynumber: 2.5 Consensus size: 31
9750559 TAAATAACTC
9750569 TTTAAATATCATATTAATTAAAATATTTATAA-
1 TTTAAATATCATATTAA-TAAAATATTTA-AAT
* *
9750601 TTTAAATATTAT-TTAA-AAAATTTTTAAAT
1 TTTAAATATCATATTAATAAAATATTTAAAT
*
9750630 TTTAAATGTCATATTAA
1 TTTAAATATCATATTAA
9750647 ATATTTTACT
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
28 2 0.05
29 19 0.47
30 4 0.10
31 4 0.10
32 11 0.28
ACGTcount: A:0.47, C:0.03, G:0.01, T:0.49
Consensus pattern (31 bp):
TTTAAATATCATATTAATAAAATATTTAAAT
Found at i:9751050 original size:1 final size:1
Alignment explanation
Indices: 9751044--9751073 Score: 60
Period size: 1 Copynumber: 30.0 Consensus size: 1
9751034 CTCTCTCTTC
9751044 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
9751074 CTGGTGATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 29 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:9751310 original size:39 final size:39
Alignment explanation
Indices: 9751256--9751333 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
9751246 CAATTTGTTT
9751256 GAATAGACTCAATTCAATTATTAAATAAGAACTCTATAG
1 GAATAGACTCAATTCAATTATTAAATAAGAACTCTATAG
9751295 GAATAGACTCAATTCAATTATTAAATAAGAACTCTATAG
1 GAATAGACTCAATTCAATTATTAAATAAGAACTCTATAG
9751334 CCTGTCGCAG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.46, C:0.13, G:0.10, T:0.31
Consensus pattern (39 bp):
GAATAGACTCAATTCAATTATTAAATAAGAACTCTATAG
Found at i:9752252 original size:14 final size:14
Alignment explanation
Indices: 9752205--9752261 Score: 53
Period size: 14 Copynumber: 3.9 Consensus size: 14
9752195 TTTCTAGAGG
9752205 GAGAGAGTAGAAAGA
1 GAGAGAG-AGAAAGA
* *
9752220 -AGAGACAGAAAAA
1 GAGAGAGAGAAAGA
9752233 TGGAGAGAGAGAAAGA
1 --GAGAGAGAGAAAGA
9752249 GAGAGATGAGAAA
1 GAGAGA-GAGAAA
9752262 AGATCGGCTT
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
13 6 0.18
14 11 0.32
15 6 0.18
16 11 0.32
ACGTcount: A:0.56, C:0.02, G:0.37, T:0.05
Consensus pattern (14 bp):
GAGAGAGAGAAAGA
Found at i:9753826 original size:26 final size:25
Alignment explanation
Indices: 9753796--9753853 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 25
9753786 AATTTTGGCA
* * *
9753796 AATTATAATATAAGGGATATTTTCAT
1 AATTATAATAGAAGAG-CATTTTCAT
* *
9753822 AATTATGATAGGAGAGCATTTTCAT
1 AATTATAATAGAAGAGCATTTTCAT
9753847 AATTATA
1 AATTATA
9753854 GTTTTTGGGG
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
25 14 0.54
26 12 0.46
ACGTcount: A:0.41, C:0.05, G:0.14, T:0.40
Consensus pattern (25 bp):
AATTATAATAGAAGAGCATTTTCAT
Found at i:9755606 original size:3 final size:3
Alignment explanation
Indices: 9755598--9755643 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
9755588 ATTTAGTTAT
9755598 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
9755644 TTTATATGAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:9757567 original size:4 final size:4
Alignment explanation
Indices: 9757560--9757601 Score: 50
Period size: 4 Copynumber: 10.8 Consensus size: 4
9757550 TTTTGGGTAT
* * *
9757560 TTTA TTTA TTTG TTTA TTTA TTTA TTTA TGT- GTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
9757602 TTAGGATTTT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
3 1 0.03
4 30 0.97
ACGTcount: A:0.19, C:0.00, G:0.07, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:9757722 original size:19 final size:20
Alignment explanation
Indices: 9757700--9757737 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
9757690 CTTGAAAATA
9757700 AAATTTTT-AAAAATATTTC
1 AAATTTTTAAAAAATATTTC
9757719 AAATTTTTAAAAAATATTT
1 AAATTTTTAAAAAATATTT
9757738 TTGAGGAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (20 bp):
AAATTTTTAAAAAATATTTC
Found at i:9757866 original size:77 final size:77
Alignment explanation
Indices: 9757652--9757870 Score: 302
Period size: 76 Copynumber: 2.9 Consensus size: 77
9757642 TAAAAATTAA
* *
9757652 AAAAAAT-TTTTTGAA-GAAATGTTGAAA-TATCAATTTTCCTTGAAAATAAAATTTTTAAAAAT
1 AAAAAATATTTTT-AAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAATTTATAAAAAT
*
9757714 ATTTCAAATTTTT
65 ATTTCAAATTTCT
* * *
9757727 AAAAAATATTTTTGAGG-AAAGTTGAAGGTATCAATTTTCCTTGAAAATAAAATTTCTAAAAATA
1 AAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAATTTATAAAAATA
*
9757791 TTTCCAATTTCT
66 TTTCAAATTTCT
* * * *
9757803 AAAACATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAATTAAAAAAAATA
1 AAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAATTTATAAAAATA
9757868 TTT
66 TTT
9757871 TTGAAGGAAA
Statistics
Matches: 127, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
75 16 0.13
76 66 0.52
77 45 0.35
ACGTcount: A:0.46, C:0.06, G:0.09, T:0.39
Consensus pattern (77 bp):
AAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAATTTATAAAAATA
TTTCAAATTTCT
Found at i:9757870 original size:57 final size:58
Alignment explanation
Indices: 9757803--9757983 Score: 233
Period size: 57 Copynumber: 3.1 Consensus size: 58
9757793 TCCAATTTCT
*
9757803 AAAACATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAATTA-A
1 AAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAATTATA
* *
9757860 AAAAAATATTTTTGAAGG-AAAGTTGAAAGTATCAATTTCTCTTGAAAATAAAAAGGTATA
1 AAAAAATATTTTT-AAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAAT-AAAA-TTATA
* * * *
9757920 AAAAAATATTTTT-AGGAAAAAATTGAAAGTATCAATTTTCCTTAAAAATAAAATTTCTA
1 AAAAAATATTTTTAAGG-AAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAA-TTATA
9757979 AAAAA
1 AAAAA
9757984 TAAAAATTTT
Statistics
Matches: 108, Mismatches: 10, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
57 42 0.39
58 11 0.10
59 14 0.13
60 41 0.38
ACGTcount: A:0.51, C:0.06, G:0.10, T:0.33
Consensus pattern (58 bp):
AAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAATTATA
Found at i:9757952 original size:60 final size:57
Alignment explanation
Indices: 9757803--9757972 Score: 204
Period size: 60 Copynumber: 2.9 Consensus size: 57
9757793 TCCAATTTCT
* *
9757803 AAAACATATTTTTAAGG-AAAAGTTGAAAGTATCAATTTTTCTTGAAAAT-AAAATTAA
1 AAAAAATATTTTT-AGGAAAAAGTTGAAAGTATCAA-TTTTCTTGAAAATAAAAAGTAA
9757860 AAAAAATATTTTT--GAAGGAAAGTTGAAAGTATCAATTTCTCTTGAAAATAAAAAGGTATA
1 AAAAAATATTTTTAGGAA--AAAGTTGAAAGTATCAATTT-TCTTGAAAATAAAAA-GTA-A
* *
9757920 AAAAAATATTTTTAGGAAAAAATTGAAAGTATCAATTTTCCTTAAAAATAAAA
1 AAAAAATATTTTTAGGAAAAAGTTGAAAGTATCAATTTT-CTTGAAAATAAAA
9757973 TTTCTAAAAA
Statistics
Matches: 99, Mismatches: 4, Indels: 17
0.82 0.03 0.14
Matches are distributed among these distances:
54 1 0.01
55 1 0.01
56 3 0.03
57 39 0.39
58 4 0.04
59 3 0.03
60 45 0.45
62 3 0.03
ACGTcount: A:0.51, C:0.05, G:0.11, T:0.33
Consensus pattern (57 bp):
AAAAAATATTTTTAGGAAAAAGTTGAAAGTATCAATTTTCTTGAAAATAAAAAGTAA
Found at i:9757984 original size:16 final size:17
Alignment explanation
Indices: 9757963--9757998 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
9757953 AATTTTCCTT
9757963 AAAAAT-AAAATTTCTA
1 AAAAATAAAAATTTCTA
*
9757979 AAAAATAAAAATTTTTA
1 AAAAATAAAAATTTCTA
9757996 AAA
1 AAA
9757999 GATATTTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 6 0.33
17 12 0.67
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (17 bp):
AAAAATAAAAATTTCTA
Found at i:9757985 original size:76 final size:74
Alignment explanation
Indices: 9757904--9758046 Score: 180
Period size: 75 Copynumber: 1.9 Consensus size: 74
9757894 ATTTCTCTTG
*
9757904 AAAATAAAAAGGTATAAAAAAATATTTTT-AGGAAAAAATTGAAAGTATCAATTTTCCTTAAAAA
1 AAAATAAAAA-GTATAAAAAAATATTTTTAAGG-AAAAATTAAAAGTATCAATTTTCCTT-AAAA
9757968 TAAAATTTCTAA
63 TAAAATTTCTAA
* * * * * * *
9757980 AAAATAAAAATTTTTAAAAGATATTTTTAAGGAAAAGTTAAAAGTATTAATTTTTCTTAAAATAA
1 AAAATAAAAAGTATAAAAAAATATTTTTAAGGAAAAATTAAAAGTATCAATTTTCCTTAAAATAA
9758045 AA
66 AA
9758047 ATCTCCAAAT
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
74 9 0.16
75 36 0.62
76 13 0.22
ACGTcount: A:0.55, C:0.03, G:0.08, T:0.34
Consensus pattern (74 bp):
AAAATAAAAAGTATAAAAAAATATTTTTAAGGAAAAATTAAAAGTATCAATTTTCCTTAAAATAA
AATTTCTAA
Found at i:9760830 original size:18 final size:18
Alignment explanation
Indices: 9760807--9760864 Score: 98
Period size: 18 Copynumber: 3.2 Consensus size: 18
9760797 GAAGTCCAAA
9760807 CAATCAATTTTTCATTAG
1 CAATCAATTTTTCATTAG
9760825 CAATCAATTTTTCATTAG
1 CAATCAATTTTTCATTAG
* *
9760843 AAATCAAATTTTCATTAG
1 CAATCAATTTTTCATTAG
9760861 CAAT
1 CAAT
9760865 TTTAGTTGAA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
18 37 1.00
ACGTcount: A:0.38, C:0.16, G:0.05, T:0.41
Consensus pattern (18 bp):
CAATCAATTTTTCATTAG
Found at i:9762442 original size:8 final size:7
Alignment explanation
Indices: 9762421--9762470 Score: 55
Period size: 7 Copynumber: 6.7 Consensus size: 7
9762411 TTTTATTTTC
9762421 AAAAAAT
1 AAAAAAT
9762428 AAAAAAT
1 AAAAAAT
9762435 AAAGAAAT
1 AAA-AAAT
*
9762443 AAAAAAG
1 AAAAAAT
*
9762450 AAAAAAGGA
1 AAAAAA--T
9762459 AAAAAAT
1 AAAAAAT
9762466 AAAAA
1 AAAAA
9762471 CAATAAGTTG
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
7 24 0.65
8 7 0.19
9 6 0.16
ACGTcount: A:0.84, C:0.00, G:0.08, T:0.08
Consensus pattern (7 bp):
AAAAAAT
Found at i:9762470 original size:15 final size:15
Alignment explanation
Indices: 9762421--9762455 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
9762411 TTTTATTTTC
*
9762421 AAAAAATAAAAAATA
1 AAAAAATAAAAAAGA
*
9762436 AAGAAATAAAAAAGA
1 AAAAAATAAAAAAGA
9762451 AAAAA
1 AAAAA
9762456 GGAAAAAAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.86, C:0.00, G:0.06, T:0.09
Consensus pattern (15 bp):
AAAAAATAAAAAAGA
Found at i:9769423 original size:10 final size:10
Alignment explanation
Indices: 9769408--9769440 Score: 57
Period size: 10 Copynumber: 3.2 Consensus size: 10
9769398 GTTTCATAAG
9769408 TTTTTTCTTT
1 TTTTTTCTTT
9769418 TTTTTTCTTT
1 TTTTTTCTTT
9769428 TTCTTTTCTTT
1 TT-TTTTCTTT
9769439 TT
1 TT
9769441 CTATTTTGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 12 0.55
11 10 0.45
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (10 bp):
TTTTTTCTTT
Found at i:9769441 original size:11 final size:11
Alignment explanation
Indices: 9769410--9769442 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
9769400 TTCATAAGTT
9769410 TTTTCTTTTT-
1 TTTTCTTTTTC
9769420 TTTTCTTTTTC
1 TTTTCTTTTTC
9769431 TTTTCTTTTTC
1 TTTTCTTTTTC
9769442 T
1 T
9769443 ATTTTGATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 10 0.45
11 12 0.55
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (11 bp):
TTTTCTTTTTC
Found at i:9770084 original size:17 final size:17
Alignment explanation
Indices: 9770037--9770087 Score: 50
Period size: 17 Copynumber: 3.0 Consensus size: 17
9770027 CGAGATAATC
9770037 TAAA-TTTTTTTATAATA
1 TAAATTTTTTTTA-AATA
* ** *
9770054 AAAATAATTATTAAATA
1 TAAATTTTTTTTAAATA
9770071 TAAATTTTTTTTAAATA
1 TAAATTTTTTTTAAATA
9770088 ATCATAATAA
Statistics
Matches: 25, Mismatches: 8, Indels: 2
0.71 0.23 0.06
Matches are distributed among these distances:
17 20 0.80
18 5 0.20
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
TAAATTTTTTTTAAATA
Found at i:9772753 original size:46 final size:46
Alignment explanation
Indices: 9772666--9772784 Score: 121
Period size: 46 Copynumber: 2.5 Consensus size: 46
9772656 TCAAATTTCA
* *
9772666 TTCAGTTCAAATTTCTTTAAAGTTGTCGAGCCTCTAATGAAAAGAGTTT
1 TTCAG-TCAAA-TT-TTTAAAGTTATCGAGCCTCTAATGAAAAGAGTCT
* * * * *
9772715 TTTAGTCAAATTTTTAAAGTTATTGAGCTTCTAGTGAAATGAGTCT
1 TTCAGTCAAATTTTTAAAGTTATCGAGCCTCTAATGAAAAGAGTCT
***
9772761 TTCAGTTTCATTTTTAAAGTTATC
1 TTCAGTCAAATTTTTAAAGTTATC
9772785 AAATCTCTTA
Statistics
Matches: 58, Mismatches: 12, Indels: 3
0.79 0.16 0.04
Matches are distributed among these distances:
46 47 0.81
47 2 0.03
48 5 0.09
49 4 0.07
ACGTcount: A:0.29, C:0.12, G:0.15, T:0.44
Consensus pattern (46 bp):
TTCAGTCAAATTTTTAAAGTTATCGAGCCTCTAATGAAAAGAGTCT
Found at i:9772814 original size:46 final size:46
Alignment explanation
Indices: 9772759--9772976 Score: 240
Period size: 46 Copynumber: 4.7 Consensus size: 46
9772749 TGAAATGAGT
* ** *
9772759 CTTTCAGTTTCATTTTTAAAGTTATCAAATCTCTTATTAGATAAGC
1 CTTTTAGTTTCATTTTTAAAGTTATCAAGCCTCTTATAAGATAAGC
* ** * * * *
9772805 CTTTTAGTTTCATTTTTAAAATTATTGAGCCACTGATAAAAGAAGC
1 CTTTTAGTTTCATTTTTAAAGTTATCAAGCCTCTTATAAGATAAGC
* * *
9772851 CTTTTAGTTTCATTTTTCAAA-TTATCAAGCCTCTTATGAGAAAAAC
1 CTTTTAGTTTCATTTTT-AAAGTTATCAAGCCTCTTATAAGATAAGC
* * * * *
9772897 ATTTCAGTTTCATTTTTAAAGTTATTAAGCCTCTAATAAGATGAGC
1 CTTTTAGTTTCATTTTTAAAGTTATCAAGCCTCTTATAAGATAAGC
*
9772943 CTTTTAGTTTCATTTTTAAAGTTATCAGGCCTCT
1 CTTTTAGTTTCATTTTTAAAGTTATCAAGCCTCT
9772977 AATGAGAGGA
Statistics
Matches: 139, Mismatches: 31, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
45 3 0.02
46 133 0.96
47 3 0.02
ACGTcount: A:0.31, C:0.15, G:0.11, T:0.43
Consensus pattern (46 bp):
CTTTTAGTTTCATTTTTAAAGTTATCAAGCCTCTTATAAGATAAGC
Found at i:9772977 original size:46 final size:46
Alignment explanation
Indices: 9772724--9773036 Score: 238
Period size: 46 Copynumber: 6.8 Consensus size: 46
9772714 TTTTAGTCAA
** * * * *
9772724 ATTTTTAAAGTTATTGAGCTTCTAGTGAA-ATGAGTCTTTCAGTTTC
1 ATTTTTAAAGTTATCAAGCCTCTAAT-AAGATGAGCCTTTTAGTTTC
** * * *
9772770 ATTTTTAAAGTTATCAAATCTCTTATTAGATAAGCCTTTTAGTTTC
1 ATTTTTAAAGTTATCAAGCCTCTAATAAGATGAGCCTTTTAGTTTC
* ** * * *
9772816 ATTTTTAAAATTATTGAGCCACTGATAA-AAGAAGCCTTTTAGTTTC
1 ATTTTTAAAGTTATCAAGCCTCTAATAAGATG-AGCCTTTTAGTTTC
* * ** * * *
9772862 ATTTTTCAAA-TTATCAAGCCTCTTATGAGAAAAACATTTCAGTTTC
1 ATTTTT-AAAGTTATCAAGCCTCTAATAAGATGAGCCTTTTAGTTTC
*
9772908 ATTTTTAAAGTTATTAAGCCTCTAATAAGATGAGCCTTTTAGTTTC
1 ATTTTTAAAGTTATCAAGCCTCTAATAAGATGAGCCTTTTAGTTTC
* * * * *
9772954 ATTTTTAAAGTTATCAGGCCTCTAATGAGAGGAG-CTTTTCATTATTT
1 ATTTTTAAAGTTATCAAGCCTCTAATAAGATGAGCCTTTT-AGT-TTC
* ** **
9773001 ATTTTTAAAGTTGTCAAGTGTCTAACGAGATGAGCC
1 ATTTTTAAAGTTATCAAGCCTCTAATAAGATGAGCC
9773037 CAACAAAAAA
Statistics
Matches: 209, Mismatches: 50, Indels: 14
0.77 0.18 0.05
Matches are distributed among these distances:
45 10 0.05
46 163 0.78
47 35 0.17
48 1 0.00
ACGTcount: A:0.31, C:0.13, G:0.14, T:0.42
Consensus pattern (46 bp):
ATTTTTAAAGTTATCAAGCCTCTAATAAGATGAGCCTTTTAGTTTC
Found at i:9772994 original size:92 final size:91
Alignment explanation
Indices: 9772724--9773012 Score: 321
Period size: 92 Copynumber: 3.1 Consensus size: 91
9772714 TTTTAGTCAA
* * * * **
9772724 ATTTTTAAAGTTATTGAGCTTCTAGTGAAATGAGTCTTTCAGTTTCATTTTTAAAGTTATCAAAT
1 ATTTTTAAAGTTATTGAGCCTCTAAT-AAATGAGCCTTTTAGTTTCATTTTTAAAGTTATCAAGC
* *
9772789 CTCTTATTAGATAAGCCTTTT-AGTTTC
65 CTCTTATGAGAAAAG-CTTTTCAGTTTC
* * * *
9772816 ATTTTTAAAATTATTGAGCCACTGATAAAAGAAGCCTTTTAGTTTCATTTTTCAAA-TTATCAAG
1 ATTTTTAAAGTTATTGAGCCTCTAATAAATG-AGCCTTTTAGTTTCATTTTT-AAAGTTATCAAG
* *
9772880 CCTCTTATGAGAAAAACATTTCAGTTTC
64 CCTCTTATGAGAAAAGCTTTTCAGTTTC
* *
9772908 ATTTTTAAAGTTATTAAGCCTCTAATAAGATGAGCCTTTTAGTTTCATTTTTAAAGTTATCAGGC
1 ATTTTTAAAGTTATTGAGCCTCTAATAA-ATGAGCCTTTTAGTTTCATTTTTAAAGTTATCAAGC
* ** * *
9772973 CTCTAATGAGAGGAGCTTTTCATTATTT
65 CTCTTATGAGAAAAGCTTTTCAGT-TTC
9773001 ATTTTTAAAGTT
1 ATTTTTAAAGTT
9773013 GTCAAGTGTC
Statistics
Matches: 164, Mismatches: 27, Indels: 11
0.81 0.13 0.05
Matches are distributed among these distances:
91 11 0.07
92 134 0.82
93 19 0.12
ACGTcount: A:0.31, C:0.13, G:0.13, T:0.44
Consensus pattern (91 bp):
ATTTTTAAAGTTATTGAGCCTCTAATAAATGAGCCTTTTAGTTTCATTTTTAAAGTTATCAAGCC
TCTTATGAGAAAAGCTTTTCAGTTTC
Found at i:9773690 original size:20 final size:20
Alignment explanation
Indices: 9773661--9773699 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
9773651 AACCTCTACC
9773661 CAAAAAAAAAAAAAAAAACA
1 CAAAAAAAAAAAAAAAAACA
*
9773681 CAAAACAAAAAAAAAAAAC
1 CAAAAAAAAAAAAAAAAAC
9773700 TTTTCCTAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.87, C:0.13, G:0.00, T:0.00
Consensus pattern (20 bp):
CAAAAAAAAAAAAAAAAACA
Found at i:9779003 original size:6 final size:6
Alignment explanation
Indices: 9778992--9779024 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
9778982 AATCATGTTC
9778992 CTGCTT CTGCTT CTGCTT CTGCTT CTGCTT CTG
1 CTGCTT CTGCTT CTGCTT CTGCTT CTGCTT CTG
9779025 TCCTTGTTCC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.00, C:0.33, G:0.18, T:0.48
Consensus pattern (6 bp):
CTGCTT
Found at i:9783590 original size:17 final size:16
Alignment explanation
Indices: 9783556--9783603 Score: 53
Period size: 17 Copynumber: 3.0 Consensus size: 16
9783546 AGTGAACCAA
* *
9783556 AAGAAAAGGAAGATAG
1 AAGAAAAGAAAGAAAG
9783572 AAGAAGAAGAAAGAAAG
1 AAGAA-AAGAAAGAAAG
*
9783589 AAG-AAAGAAAAAAAG
1 AAGAAAAGAAAGAAAG
9783604 GAAAAAAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
15 10 0.36
16 6 0.21
17 12 0.43
ACGTcount: A:0.71, C:0.00, G:0.27, T:0.02
Consensus pattern (16 bp):
AAGAAAAGAAAGAAAG
Found at i:9783614 original size:15 final size:16
Alignment explanation
Indices: 9783592--9783634 Score: 63
Period size: 15 Copynumber: 2.8 Consensus size: 16
9783582 AAGAAAGAAG
9783592 AAAG-AAAAAAAGGAA
1 AAAGAAAAAAAAGGAA
9783607 AAA-AAAAAAAAGGAA
1 AAAGAAAAAAAAGGAA
9783622 AAAGGAAAAAAAA
1 AAA-GAAAAAAAA
9783635 TTAAAATTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
15 17 0.68
17 8 0.32
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (16 bp):
AAAGAAAAAAAAGGAA
Found at i:9784938 original size:15 final size:15
Alignment explanation
Indices: 9784920--9784966 Score: 51
Period size: 15 Copynumber: 3.0 Consensus size: 15
9784910 TATTTTGGAA
9784920 ATTAAAAATAATAAT
1 ATTAAAAATAATAAT
*
9784935 ATTAAAACAAAATTAAT
1 ATTAAAA-ATAA-TAAT
9784952 A-TAAAAACTAATAAT
1 ATTAAAAA-TAATAAT
9784967 TGATAATTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
15 12 0.44
16 10 0.37
17 5 0.19
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (15 bp):
ATTAAAAATAATAAT
Found at i:9785378 original size:29 final size:24
Alignment explanation
Indices: 9785320--9785368 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
9785310 GCTAAGATCG
9785320 AAATATTTTATTAAAGTAATCATT
1 AAATATTTTATTAAAGTAATCATT
9785344 AAATATTTTATTAAAGTAATCATT
1 AAATATTTTATTAAAGTAATCATT
9785368 A
1 A
9785369 CATTAAATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (24 bp):
AAATATTTTATTAAAGTAATCATT
Found at i:9794793 original size:2 final size:2
Alignment explanation
Indices: 9794786--9794840 Score: 74
Period size: 2 Copynumber: 27.5 Consensus size: 2
9794776 TAATTTACCC
* * *
9794786 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA CA CA TA TA TA CA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
9794828 TA TA TA CA TA TA T
1 TA TA TA TA TA TA T
9794841 TGACTAAAAG
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.49, C:0.07, G:0.00, T:0.44
Consensus pattern (2 bp):
TA
Found at i:9799275 original size:19 final size:21
Alignment explanation
Indices: 9799237--9799275 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
9799227 CTTTAAAAAA
9799237 CTTTCTTTTTCATTCTTTTTC
1 CTTTCTTTTTCATTCTTTTTC
*
9799258 CTTT-TTTTT-ATTTTTTTT
1 CTTTCTTTTTCATTCTTTTT
9799276 TTATTAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
20 5 0.29
21 4 0.24
ACGTcount: A:0.05, C:0.15, G:0.00, T:0.79
Consensus pattern (21 bp):
CTTTCTTTTTCATTCTTTTTC
Found at i:9801390 original size:13 final size:13
Alignment explanation
Indices: 9801372--9801396 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9801362 TATAAATGGC
9801372 CAAAAAGTGAAAA
1 CAAAAAGTGAAAA
9801385 CAAAAAGTGAAA
1 CAAAAAGTGAAA
9801397 TCATAGCAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.08, G:0.16, T:0.08
Consensus pattern (13 bp):
CAAAAAGTGAAAA
Found at i:9803886 original size:3 final size:3
Alignment explanation
Indices: 9803878--9803916 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
9803868 AAATGAAATC
9803878 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
9803917 TTTTTAAAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:9803954 original size:21 final size:20
Alignment explanation
Indices: 9803920--9803961 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 20
9803910 TAATAATTTT
9803920 TTAAAATTACATTTATATAA
1 TTAAAATTACATTTATATAA
*
9803940 TTAAATATTATATTTATATAA
1 TTAAA-ATTACATTTATATAA
9803961 T
1 T
9803962 CAATTAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (20 bp):
TTAAAATTACATTTATATAA
Found at i:9804778 original size:13 final size:14
Alignment explanation
Indices: 9804760--9804788 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
9804750 TTGGTCCTAA
9804760 TAAAATA-TATAAT
1 TAAAATATTATAAT
9804773 TAAAATATTATAAT
1 TAAAATATTATAAT
9804787 TA
1 TA
9804789 TATAAGTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
TAAAATATTATAAT
Found at i:9805163 original size:3 final size:3
Alignment explanation
Indices: 9805150--9805206 Score: 105
Period size: 3 Copynumber: 19.0 Consensus size: 3
9805140 AATATTTCAT
*
9805150 ATA ACA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
9805198 ATA ATA ATA
1 ATA ATA ATA
9805207 TAGAACTTTG
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:9813631 original size:22 final size:20
Alignment explanation
Indices: 9813597--9813636 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
9813587 CACAAAAAGA
*
9813597 TTTTTTTTTTAAAGTATTAG
1 TTTTTTTTTTAAAATATTAG
9813617 TTTTTTTATTATAAAATATT
1 TTTTTTT-TT-TAAAATATT
9813637 TTATCATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 7 0.41
21 2 0.12
22 8 0.47
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (20 bp):
TTTTTTTTTTAAAATATTAG
Found at i:9814007 original size:16 final size:17
Alignment explanation
Indices: 9813981--9814093 Score: 62
Period size: 16 Copynumber: 6.9 Consensus size: 17
9813971 TCACACGTGT
9813981 CTTTAGGATTTTTA-GGA
1 CTTT-GGATTTTTAGGGA
9813998 CTTTGGA-TTTTAGGGA
1 CTTTGGATTTTTAGGGA
*
9814014 TTTTGGA-TTTT-GGGA
1 CTTTGGATTTTTAGGGA
** *
9814029 GGATTGGA-TTTAAGGGA
1 -CTTTGGATTTTTAGGGA
*
9814046 TTTTGGA-TTTT-GGGA
1 CTTTGGATTTTTAGGGA
** *
9814061 GGATTGGA-TTTAAGGGA
1 -CTTTGGATTTTTAGGGA
*
9814078 TTTTGGATTTTTAGGG
1 CTTTGGATTTTTAGGG
9814094 GTTTTAAAAA
Statistics
Matches: 77, Mismatches: 13, Indels: 12
0.75 0.13 0.12
Matches are distributed among these distances:
15 13 0.17
16 45 0.58
17 19 0.25
ACGTcount: A:0.20, C:0.02, G:0.34, T:0.44
Consensus pattern (17 bp):
CTTTGGATTTTTAGGGA
Found at i:9814036 original size:32 final size:32
Alignment explanation
Indices: 9814000--9814088 Score: 169
Period size: 32 Copynumber: 2.8 Consensus size: 32
9813990 TTTTAGGACT
*
9814000 TTGGATTTTAGGGATTTTGGATTTTGGGAGGA
1 TTGGATTTAAGGGATTTTGGATTTTGGGAGGA
9814032 TTGGATTTAAGGGATTTTGGATTTTGGGAGGA
1 TTGGATTTAAGGGATTTTGGATTTTGGGAGGA
9814064 TTGGATTTAAGGGATTTTGGATTTT
1 TTGGATTTAAGGGATTTTGGATTTT
9814089 TAGGGGTTTT
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 56 1.00
ACGTcount: A:0.20, C:0.00, G:0.35, T:0.45
Consensus pattern (32 bp):
TTGGATTTAAGGGATTTTGGATTTTGGGAGGA
Found at i:9815627 original size:9 final size:9
Alignment explanation
Indices: 9815611--9815656 Score: 58
Period size: 9 Copynumber: 5.1 Consensus size: 9
9815601 CTTTCTGTCG
9815611 TTTTTTGTT
1 TTTTTTGTT
*
9815620 TCTTTTGTT
1 TTTTTTGTT
9815629 TGTTTTT-TT
1 T-TTTTTGTT
*
9815638 TTGTTTGTT
1 TTTTTTGTT
9815647 TTTTTTGTT
1 TTTTTTGTT
9815656 T
1 T
9815657 ATTAATAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
8 4 0.13
9 23 0.74
10 4 0.13
ACGTcount: A:0.00, C:0.02, G:0.13, T:0.85
Consensus pattern (9 bp):
TTTTTTGTT
Found at i:9815641 original size:14 final size:13
Alignment explanation
Indices: 9815614--9815656 Score: 68
Period size: 13 Copynumber: 3.2 Consensus size: 13
9815604 TCTGTCGTTT
*
9815614 TTTGTTTCTTTTG
1 TTTGTTTTTTTTG
9815627 TTTGTTTTTTTTTG
1 TTTG-TTTTTTTTG
9815641 TTTGTTTTTTTTG
1 TTTGTTTTTTTTG
9815654 TTT
1 TTT
9815657 ATTAATAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
13 16 0.57
14 12 0.43
ACGTcount: A:0.00, C:0.02, G:0.14, T:0.84
Consensus pattern (13 bp):
TTTGTTTTTTTTG
Found at i:9815641 original size:23 final size:23
Alignment explanation
Indices: 9815611--9815656 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
9815601 CTTTCTGTCG
9815611 TTTTTTGTTTCTTTTGTTTGTTT
1 TTTTTTGTTTCTTTTGTTTGTTT
* *
9815634 TTTTTTGTTTGTTTTTTTTGTTT
1 TTTTTTGTTTCTTTTGTTTGTTT
9815657 ATTAATAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.00, C:0.02, G:0.13, T:0.85
Consensus pattern (23 bp):
TTTTTTGTTTCTTTTGTTTGTTT
Found at i:9815941 original size:22 final size:22
Alignment explanation
Indices: 9815911--9816019 Score: 73
Period size: 22 Copynumber: 5.0 Consensus size: 22
9815901 TCGCGAATCA
* *
9815911 AAATTATGCCCAGAGGTCTTAG
1 AAATCATGCCCAGAGGTCTTAC
* *
9815933 AAATCATGCTCGGAGGTCTTAC
1 AAATCATGCCCAGAGGTCTTAC
*
9815955 AGAATCATGCCCGGAGGAT-TTAC
1 A-AATCATGCCCAGAGG-TCTTAC
* * * *
9815978 AGAATTAT-TCGA-AGGTCTTAG
1 A-AATCATGCCCAGAGGTCTTAC
9815999 AAATCATGCCC-GAAGGTCTTA
1 AAATCATGCCCAG-AGGTCTTA
9816020 TAGAATTGAT
Statistics
Matches: 68, Mismatches: 13, Indels: 12
0.73 0.14 0.13
Matches are distributed among these distances:
20 6 0.09
21 8 0.12
22 28 0.41
23 25 0.37
24 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (22 bp):
AAATCATGCCCAGAGGTCTTAC
Found at i:9815964 original size:23 final size:23
Alignment explanation
Indices: 9815916--9816025 Score: 95
Period size: 23 Copynumber: 5.0 Consensus size: 23
9815906 AATCAAAATT
* *
9815916 ATGCCCAGAGGTCTTAGA-AATC
1 ATGCCCGGAGGTCTTACAGAATC
*
9815938 ATGCTCGGAGGTCTTACAGAATC
1 ATGCCCGGAGGTCTTACAGAATC
*
9815961 ATGCCCGGAGGAT-TTACAGAATT
1 ATGCCCGGAGG-TCTTACAGAATC
* * *
9815984 AT--TCGAAGGTCTTAGA-AATC
1 ATGCCCGGAGGTCTTACAGAATC
* *
9816004 ATGCCCGAAGGTCTTATAGAAT
1 ATGCCCGGAGGTCTTACAGAAT
9816026 TGATTGGGAT
Statistics
Matches: 71, Mismatches: 11, Indels: 11
0.76 0.12 0.12
Matches are distributed among these distances:
20 6 0.08
21 9 0.13
22 27 0.38
23 28 0.39
24 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (23 bp):
ATGCCCGGAGGTCTTACAGAATC
Found at i:9816145 original size:23 final size:23
Alignment explanation
Indices: 9816100--9816158 Score: 86
Period size: 23 Copynumber: 2.6 Consensus size: 23
9816090 TTATGCCTAG
*
9816100 AGGTCTTA-AAAATCATGCGCGA
1 AGGTCTTACAGAATCATGCGCGA
9816122 AGGTCTTACAGAATCATGTC-CGA
1 AGGTCTTACAGAATCATG-CGCGA
9816145 AGGTCTTACAGAAT
1 AGGTCTTACAGAAT
9816159 TGCTCAGAGG
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
22 8 0.24
23 25 0.74
24 1 0.03
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.25
Consensus pattern (23 bp):
AGGTCTTACAGAATCATGCGCGA
Found at i:9816171 original size:21 final size:22
Alignment explanation
Indices: 9816120--9816173 Score: 67
Period size: 23 Copynumber: 2.5 Consensus size: 22
9816110 AATCATGCGC
*
9816120 GAAGGTCTTACAGAATCATGTCC
1 GAAGGTCTTACAGAAT-ATGTCA
9816143 GAAGGTCTTACAGAAT-TGCTCA
1 GAAGGTCTTACAGAATATG-TCA
9816165 G-AGGTCTTA
1 GAAGGTCTTA
9816174 GAAATTATAC
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
21 10 0.34
22 3 0.10
23 16 0.55
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.28
Consensus pattern (22 bp):
GAAGGTCTTACAGAATATGTCA
Found at i:9816312 original size:23 final size:23
Alignment explanation
Indices: 9816285--9816333 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
9816275 AGGTCTTAGA
9816285 AATCATGCCCAAAGATCTTACAG
1 AATCATGCCCAAAGATCTTACAG
* ** *
9816308 AATCATGTCCGGAGGTCTTACAG
1 AATCATGCCCAAAGATCTTACAG
9816331 AAT
1 AAT
9816334 TACCTGGAGG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.22, G:0.18, T:0.24
Consensus pattern (23 bp):
AATCATGCCCAAAGATCTTACAG
Found at i:9816315 original size:175 final size:175
Alignment explanation
Indices: 9815868--9816661 Score: 957
Period size: 176 Copynumber: 4.5 Consensus size: 175
9815858 GTGACATTGT
* * * * * *
9815868 AAGTCAAAAAATAATGCATCGATTGAGATAACATCGCGAATCAAAATTATGCCCAGAGGTCTTAG
1 AAGTC-AAAAATAAAGAATCGATCGGGATAACATCGTGAATCAAAATTATGCCCGGAGGTCTTAG
* * *
9815933 AAATCATGCTCGGAGGTCTTACAGAATCATGCCCGGAGGAT-TTACAGAATTATTC-GAAGGTCT
65 AAATCATGCCCGGAGGTCTTACAGAATCATGTCCGGAGG-TCTTACAGAATTACTCAG-AGGTCT
*
9815996 TAGAAATCATGCCCGAAGGTCTTATAGAATTGATTGGGATAACACCGC
128 TAGAAATCATGCCCGAAGGTCTTACAGAATTGATTGGGATAACACCGC
* * ** ** *
9816044 AAGTCAAAAAATAAAAAATCGATCGGGATAACATCGCGAATTGAAATTATGCCTAGAGGTCTTAA
1 AAGTC-AAAAATAAAGAATCGATCGGGATAACATCGTGAATCAAAATTATGCCCGGAGGTCTTAG
* * * *
9816109 AAATCATGCGCGAAGGTCTTACAGAATCATGTCCGAAGGTCTTACAGAATTGCTCAGAGGTCTTA
65 AAATCATGCCCGGAGGTCTTACAGAATCATGTCCGGAGGTCTTACAGAATTACTCAGAGGTCTTA
* * * *
9816174 GAAATTATACCCGAAGGTCTTATAGAATTGATTGGGATAACACCGT
130 GAAATCATGCCCGAAGGTCTTACAGAATTGATTGGGATAACACCGC
* * * * **
9816220 AAGTCAGAAATAAAGAATCGATTGGGATAATACCGTGAATCAAAATTATGTTCGGAGGTCTTAGA
1 AAGTCAAAAATAAAGAATCGATCGGGATAACATCGTGAATCAAAATTATGCCCGGAGGTCTTAGA
** * *
9816285 AATCATGCCCAAAGATCTTACAGAATCATGTCCGGAGGTCTTACAGAATTAC-CTGGAGGTCTTA
66 AATCATGCCCGGAGGTCTTACAGAATCATGTCCGGAGGTCTTACAGAATTACTC-AGAGGTCTTA
* * *
9816349 AAAATCATGCCCGGAGGTCTTACAGAATTGACTT-GGATAACACCAC
130 GAAATCATGCCCGAAGGTCTTACAGAATTGA-TTGGGATAACACCGC
* * * *
9816395 AAGTCGAAAGATAAAGAATCGATCGAGATAACATCGTGAATCGAAATTATGCCCGGAGGTCTTAA
1 AAGTC-AAAAATAAAGAATCGATCGGGATAACATCGTGAATCAAAATTATGCCCGGAGGTCTTAG
* * * * * * *
9816460 AAATCATACCCGGAGGTCTTACATAATCGTGTTCGGAGGTCTTACAGAATTGCACAGAGATCTTA
65 AAATCATGCCCGGAGGTCTTACAGAATCATGTCCGGAGGTCTTACAGAATTACTCAGAGGTCTTA
* * * * * *
9816525 GAACTCATGCTCGAAAGTCTTACACAATTGACTGAGATAACACCGC
130 GAAATCATGCCCGAAGGTCTTACAGAATTGATTGGGATAACACCGC
* * *
9816571 AAGTCAAAAATAAAAAATCTATCGGGATAATATCGTGAATCAAAATTATGCCCGGAGGTCTTAGA
1 AAGTCAAAAATAAAGAATCGATCGGGATAACATCGTGAATCAAAATTATGCCCGGAGGTCTTAGA
* *
9816636 AATTATGTCCGGAGGTCTTACAGAAT
66 AATCATGCCCGGAGGTCTTACAGAAT
9816662 TGACTAAGAT
Statistics
Matches: 527, Mismatches: 84, Indels: 15
0.84 0.13 0.02
Matches are distributed among these distances:
174 1 0.00
175 221 0.42
176 303 0.57
177 2 0.00
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.25
Consensus pattern (175 bp):
AAGTCAAAAATAAAGAATCGATCGGGATAACATCGTGAATCAAAATTATGCCCGGAGGTCTTAGA
AATCATGCCCGGAGGTCTTACAGAATCATGTCCGGAGGTCTTACAGAATTACTCAGAGGTCTTAG
AAATCATGCCCGAAGGTCTTACAGAATTGATTGGGATAACACCGC
Found at i:9816344 original size:21 final size:21
Alignment explanation
Indices: 9816316--9816377 Score: 72
Period size: 22 Copynumber: 2.9 Consensus size: 21
9816306 AGAATCATGT
9816316 CCGGAGGTCTTACAGAATTAC
1 CCGGAGGTCTTACAGAATTAC
* * *
9816337 CTGGAGGTCTTA-AAAATCATGC
1 CCGGAGGTCTTACAGAAT--TAC
9816359 CCGGAGGTCTTACAGAATT
1 CCGGAGGTCTTACAGAATT
9816378 GACTTGGATA
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
20 4 0.12
21 12 0.36
22 13 0.39
23 4 0.12
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (21 bp):
CCGGAGGTCTTACAGAATTAC
Found at i:9816566 original size:351 final size:351
Alignment explanation
Indices: 9815866--9816661 Score: 1058
Period size: 351 Copynumber: 2.3 Consensus size: 351
9815856 AGGTGACATT
* * * * * *
9815866 GTAAGTCAAAAAATAATGCATCGATTGAGATAACATCGCGAATCAAAATTATGCCCAGAGGTCTT
1 GTAAGTC-AAAAATAAAGAATCGATTGGGATAATATCGTGAATCAAAATTATGCCCGGAGGTCTT
* *
9815931 AGAAATCATGCTCGGAGGTCTTACAGAATCATGCCCGGAGGATTTACAGAATTATTCGAAGGTCT
65 AGAAATCATGCCCGGAGGTCTTACAGAATCATGCCCGGAGGATTTACAGAATTACTCGAAGGTCT
* * *
9815996 TAGAAATCATGCCCGAAGGTCTTATAGAATTGATTGGGATAACACCGCAAGTCAAAAAATAAAAA
130 TAAAAATCATGCCCGAAGGTCTTACAGAATTGATTGGGATAACACCACAAGTCAAAAAATAAAAA
* * * * *
9816061 ATCGATCGGGATAACATCGCGAATTGAAATTATGCCTAGAGGTCTTAAAAATCATGCGCGAAGGT
195 ATCGATCGAGATAACATCGCGAATCGAAATTATGCCCAGAGGTCTTAAAAATCATACCCGAAGGT
* * * *
9816126 CTTACAGAATCATGTCCGAAGGTCTTACAGAATTGCTCAGAGGTCTTAGAAATTATACCCGAAGG
260 CTTACAGAATCATGTCCGAAGGTCTTACAGAATTGCACAGAGATCTTAGAAATCATACCCGAAAG
* * * *
9816191 TCTTATAGAATTGATTGGGATAACACC
325 TCTTACACAATTGACTGAGATAACACC
* * **
9816218 GTAAGTCAGAAATAAAGAATCGATTGGGATAATACCGTGAATCAAAATTATGTTCGGAGGTCTTA
1 GTAAGTCAAAAATAAAGAATCGATTGGGATAATATCGTGAATCAAAATTATGCCCGGAGGTCTTA
** * * *
9816283 GAAATCATGCCCAAAGATCTTACAGAATCATGTCCGGAGG-TCTTACAGAATTAC-CTGGAGGTC
66 GAAATCATGCCCGGAGGTCTTACAGAATCATGCCCGGAGGAT-TTACAGAATTACTC-GAAGGTC
* * *
9816346 TTAAAAATCATGCCCGGAGGTCTTACAGAATTGACTT-GGATAACACCACAAGTCGAAAGATAAA
129 TTAAAAATCATGCCCGAAGGTCTTACAGAATTGA-TTGGGATAACACCACAAGTCAAAAAATAAA
* * * *
9816410 GAATCGATCGAGATAACATCGTGAATCGAAATTATGCCCGGAGGTCTTAAAAATCATACCCGGAG
193 AAATCGATCGAGATAACATCGCGAATCGAAATTATGCCCAGAGGTCTTAAAAATCATACCCGAAG
* * * * * * *
9816475 GTCTTACATAATCGTGTTCGGAGGTCTTACAGAATTGCACAGAGATCTTAGAACTCATGCTCGAA
258 GTCTTACAGAATCATGTCCGAAGGTCTTACAGAATTGCACAGAGATCTTAGAAATCATACCCGAA
9816540 AGTCTTACACAATTGACTGAGATAACACC
323 AGTCTTACACAATTGACTGAGATAACACC
* * * *
9816569 GCAAGTCAAAAATAAAAAATCTATCGGGATAATATCGTGAATCAAAATTATGCCCGGAGGTCTTA
1 GTAAGTCAAAAATAAAGAATCGATTGGGATAATATCGTGAATCAAAATTATGCCCGGAGGTCTTA
* *
9816634 GAAATTATGTCCGGAGGTCTTACAGAAT
66 GAAATCATGCCCGGAGGTCTTACAGAAT
9816662 TGACTAAGAT
Statistics
Matches: 381, Mismatches: 60, Indels: 7
0.85 0.13 0.02
Matches are distributed among these distances:
350 2 0.01
351 370 0.97
352 9 0.02
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.25
Consensus pattern (351 bp):
GTAAGTCAAAAATAAAGAATCGATTGGGATAATATCGTGAATCAAAATTATGCCCGGAGGTCTTA
GAAATCATGCCCGGAGGTCTTACAGAATCATGCCCGGAGGATTTACAGAATTACTCGAAGGTCTT
AAAAATCATGCCCGAAGGTCTTACAGAATTGATTGGGATAACACCACAAGTCAAAAAATAAAAAA
TCGATCGAGATAACATCGCGAATCGAAATTATGCCCAGAGGTCTTAAAAATCATACCCGAAGGTC
TTACAGAATCATGTCCGAAGGTCTTACAGAATTGCACAGAGATCTTAGAAATCATACCCGAAAGT
CTTACACAATTGACTGAGATAACACC
Found at i:9816641 original size:22 final size:22
Alignment explanation
Indices: 9816613--9816655 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
9816603 TCGTGAATCA
9816613 AAATTATGCCCGGAGGTCTTAG
1 AAATTATGCCCGGAGGTCTTAG
*
9816635 AAATTATGTCCGGAGGTCTTA
1 AAATTATGCCCGGAGGTCTTA
9816656 CAGAATTGAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (22 bp):
AAATTATGCCCGGAGGTCTTAG
Found at i:9816720 original size:109 final size:109
Alignment explanation
Indices: 9816529--9816771 Score: 310
Period size: 109 Copynumber: 2.2 Consensus size: 109
9816519 ATCTTAGAAC
* * * *
9816529 TCATGCTCGAAAGTCTTACACAATTGACTGAGATAACACCGCAAGTCAAAAATAAAAAATCTATC
1 TCATGCTCGGAGGTCTTACAGAATTGACTAAGATAACACCGCAAGTCAAAAATAAAAAATCTATC
* * ** * *
9816594 GGGATAATATCGTGAATCAAAATTATGCCCGGAGGTCTTAGAAA
66 GGGACAATACCACGAATCAAAATTATGCCCGGAGGTCCTAAAAA
* * *
9816638 TTATG-TCCGGAGGTCTTACAGAATTGACTAAGATAACACCGTAAGTCAAAAATAAAGAAT-TGA
1 TCATGCT-CGGAGGTCTTACAGAATTGACTAAGATAACACCGCAAGTCAAAAATAAAAAATCT-A
* **
9816701 TCGGGACAATACCACGAATCGAAATTATGCTTGGAGGTCCTAAAAA
64 TCGGGACAATACCACGAATCAAAATTATGCCCGGAGGTCCTAAAAA
9816747 TCATGCTCGGAGGTCTTACAGAATT
1 TCATGCTCGGAGGTCTTACAGAATT
9816772 ACCCGAAGTT
Statistics
Matches: 114, Mismatches: 17, Indels: 6
0.83 0.12 0.04
Matches are distributed among these distances:
108 2 0.02
109 111 0.97
110 1 0.01
ACGTcount: A:0.38, C:0.18, G:0.19, T:0.25
Consensus pattern (109 bp):
TCATGCTCGGAGGTCTTACAGAATTGACTAAGATAACACCGCAAGTCAAAAATAAAAAATCTATC
GGGACAATACCACGAATCAAAATTATGCCCGGAGGTCCTAAAAA
Found at i:9817237 original size:40 final size:40
Alignment explanation
Indices: 9817163--9817239 Score: 111
Period size: 40 Copynumber: 1.9 Consensus size: 40
9817153 TCTAAACAAA
**
9817163 GGCTTTGAAATCTTGATTGAAATTGATTCCTCTTAAAGAG
1 GGCTTTGAAATCTTGATTGAAACAGATTCCTCTTAAAGAG
*
9817203 GGCTTTGAAATCTTGATTGAAAACAG-TTCTTCTTAAA
1 GGCTTTGAAATCTTGATTG-AAACAGATTCCTCTTAAA
9817240 CAGAGACTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
40 29 0.88
41 4 0.12
ACGTcount: A:0.31, C:0.13, G:0.18, T:0.38
Consensus pattern (40 bp):
GGCTTTGAAATCTTGATTGAAACAGATTCCTCTTAAAGAG
Found at i:9826932 original size:28 final size:26
Alignment explanation
Indices: 9826888--9826940 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
9826878 TTGTTTGTTT
* * *
9826888 TTTTTTATTAATAATTATTTTTTTTA
1 TTTTTTATTAAAAATTATTATTATTA
9826914 TTTTTTATTAAAAA-TATTATTATTA
1 TTTTTTATTAAAAATTATTATTATTA
9826939 TT
1 TT
9826941 ATTAAAATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
25 11 0.46
26 13 0.54
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (26 bp):
TTTTTTATTAAAAATTATTATTATTA
Found at i:9826943 original size:28 final size:26
Alignment explanation
Indices: 9826888--9826940 Score: 72
Period size: 25 Copynumber: 2.1 Consensus size: 26
9826878 TTGTTTGTTT
*
9826888 TTTTTTATTAATAATTATTTTTTTTA
1 TTTTTTATTAATAAATATTTTTTTTA
* *
9826914 TTTTTTATTAA-AAATATTATTATTA
1 TTTTTTATTAATAAATATTTTTTTTA
9826939 TT
1 TT
9826941 ATTAAAATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
25 13 0.54
26 11 0.46
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (26 bp):
TTTTTTATTAATAAATATTTTTTTTA
Found at i:9827323 original size:22 final size:22
Alignment explanation
Indices: 9827287--9827330 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
9827277 ATAGATATGT
*
9827287 GCAAAGAAAAGAAAAGAAAAAG
1 GCAAAGAAAAGAAAAAAAAAAG
*
9827309 GCAAAGAAACAAAAAAAAAAAA
1 GCAAAGAAA-AGAAAAAAAAAA
9827331 AAAACAAGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.77, C:0.07, G:0.16, T:0.00
Consensus pattern (22 bp):
GCAAAGAAAAGAAAAAAAAAAG
Found at i:9829897 original size:17 final size:18
Alignment explanation
Indices: 9829875--9829943 Score: 70
Period size: 19 Copynumber: 3.9 Consensus size: 18
9829865 TAAGAATTCA
*
9829875 AAAAAAAAAT-CAAAGAC
1 AAAAAAAAATCCAAAAAC
*
9829892 -AAAAAAAATCCAAAAATA
1 AAAAAAAAATCCAAAAA-C
*
9829910 AAAAAAAAATCCAAAATC
1 AAAAAAAAATCCAAAAAC
* *
9829928 CAAAAAAAATTCAAAA
1 AAAAAAAAATCCAAAA
9829944 CCTAAGAAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
16 9 0.21
17 5 0.12
18 14 0.33
19 15 0.35
ACGTcount: A:0.75, C:0.13, G:0.01, T:0.10
Consensus pattern (18 bp):
AAAAAAAAATCCAAAAAC
Found at i:9829937 original size:18 final size:18
Alignment explanation
Indices: 9829876--9829943 Score: 77
Period size: 18 Copynumber: 3.8 Consensus size: 18
9829866 AAGAATTCAA
*
9829876 AAAAAAAAT-C-AAAGAC
1 AAAAAAAATCCAAAATAC
*
9829892 AAAAAAAATCCAAAAATAA
1 AAAAAAAATCC-AAAATAC
*
9829911 AAAAAAAATCCAAAATCC
1 AAAAAAAATCCAAAATAC
*
9829929 AAAAAAAATTCAAAA
1 AAAAAAAATCCAAAA
9829944 CCTAAGAAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
16 9 0.20
17 1 0.02
18 19 0.43
19 15 0.34
ACGTcount: A:0.75, C:0.13, G:0.01, T:0.10
Consensus pattern (18 bp):
AAAAAAAATCCAAAATAC
Found at i:9833737 original size:34 final size:34
Alignment explanation
Indices: 9833694--9833759 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 34
9833684 TTTTTCTCTA
* **
9833694 ACCTTTCCTATGGCGCATGGTGAAACATAACTAC
1 ACCTTTCCTATGCCGCATGCAGAAACATAACTAC
*
9833728 ACCTTTCCTATGCCTCATGCAGAAACATAACT
1 ACCTTTCCTATGCCGCATGCAGAAACATAACT
9833760 GCAATCTATG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.27
Consensus pattern (34 bp):
ACCTTTCCTATGCCGCATGCAGAAACATAACTAC
Found at i:9834941 original size:13 final size:13
Alignment explanation
Indices: 9834919--9834948 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
9834909 TGTGAGGTAT
9834919 CTTT-CTACTACC
1 CTTTACTACTACC
9834931 CTTTACTACTACC
1 CTTTACTACTACC
9834944 CTTTA
1 CTTTA
9834949 TAGCAGAGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 4 0.24
13 13 0.76
ACGTcount: A:0.20, C:0.37, G:0.00, T:0.43
Consensus pattern (13 bp):
CTTTACTACTACC
Found at i:9837827 original size:64 final size:64
Alignment explanation
Indices: 9837726--9838070 Score: 272
Period size: 65 Copynumber: 5.3 Consensus size: 64
9837716 TCGAATTGCG
* * * * * **
9837726 AGTCAAAAAATAAAAATAATCTGGACCT-AGCCTAGATTAAAACAAGTGA-CGGGATTGAACCGC
1 AGTCAAAAAAT-AAAATGATCTGGA-TTGAGTCAAGATTGAAATGAGTGATCGGGATTGAACCGC
9837789 T
64 T
* * * * *
9837790 AGTCAAAAAAATAAAATGATTTGGATTGAGTCGAGATTGAAATGAGTGACCTGGATTGAACTG-T
1 AGTC-AAAAAATAAAATGATCTGGATTGAGTCAAGATTGAAATGAGTGATCGGGATTGAACCGCT
** * **
9837854 AAGTCTGAAAATAAAATGATCTGGACTGAG-CTAAGATTGAAATGAGTGATCCAGATTGAACCGC
1 -AGTCAAAAAATAAAATGATCTGGATTGAGTC-AAGATTGAAATGAGTGATCGGGATTGAACCGC
9837918 -
64 T
* * ** * *
9837918 AGGTCTAAAAATTAAAATGATCTAGATTGAACCAAGATTAAAACGAGTGATCGGGATT-AA-CGC
1 A-GTC-AAAAAATAAAATGATCTGGATTGAGTCAAGATTGAAATGAGTGATCGGGATTGAACCGC
9837981 AT
64 -T
* * ** * *
9837983 AGGTTAGAAAAATAAAATGATCTGGATTAAGTTGAGATTGAAATGAGTGATCGAGATTGAACCAC
1 A-GTCA-AAAAATAAAATGATCTGGATTGAGTCAAGATTGAAATGAGTGATCGGGATTGAACCGC
*
9838048 A
64 T
9838049 AGTTCAAAAAATAAAATGATCT
1 AG-TCAAAAAATAAAATGATCT
9838071 AGACTGAGCT
Statistics
Matches: 223, Mismatches: 43, Indels: 29
0.76 0.15 0.10
Matches are distributed among these distances:
63 6 0.03
64 85 0.38
65 124 0.56
66 6 0.03
67 2 0.01
ACGTcount: A:0.42, C:0.12, G:0.21, T:0.25
Consensus pattern (64 bp):
AGTCAAAAAATAAAATGATCTGGATTGAGTCAAGATTGAAATGAGTGATCGGGATTGAACCGCT
Found at i:9837966 original size:65 final size:65
Alignment explanation
Indices: 9837770--9838195 Score: 289
Period size: 65 Copynumber: 6.6 Consensus size: 65
9837760 GATTAAAACA
* * * ** *
9837770 AGTGA-CGGGATTGAACCGCTAGTCAAAAAAATAAAATGATTTGGATTGAGTCGAGATTGAAATG
1 AGTGATCGGGATTGAACCGCAAGTCTAAAAAATAAAATGATCTGGATTGAACCAAGATTGAAATG
* * * * * * * *
9837834 AGTGACCTGGATTGAACTGTAAGTCT-GAAAATAAAATGATCTGGACTGAGCTAAGATTGAAATG
1 AGTGATCGGGATTGAACCGCAAGTCTAAAAAATAAAATGATCTGGATTGAACCAAGATTGAAATG
** * * * * *
9837898 AGTGATCCAGATTGAACCGCAGGTCTAAAAATTAAAATGATCTAGATTGAACCAAGATTAAAACG
1 AGTGATCGGGATTGAACCGCAAGTCTAAAAAATAAAATGATCTGGATTGAACCAAGATTGAAATG
***
9837963 AGTGATCGGGATT-AA-CGCATAGGT-TAGAAAAATAAAATGATCTGGATT-AAGTTGAGATTGA
1 AGTGATCGGGATTGAACCGCA-A-GTCTA-AAAAATAAAATGATCTGGATTGAA-CCAAGATTGA
9838024 AATG
62 AATG
* * * * * * *
9838028 AGTGATCGAGATTGAACCACAAGT-TCAAAAAATAAAATGATCTAGACTGAGCTAAGA-TCAAAG
1 AGTGATCGGGATTGAACCGCAAGTCT-AAAAAATAAAATGATCTGGATTGAACCAAGATTGAAA-
9838091 TG
64 TG
* * * * * ** * * *
9838093 AGTGA-CTGCGATTAAACCGTAAGTCT-GAAAATAAAATGATATGGA-CCAAGCAAAGATCGATG
1 AGTGATC-GGGATTGAACCGCAAGTCTAAAAAATAAAATGATCTGGATTGAA-CCAAGATTGA-A
9838155 ATG
63 ATG
* ** *
9838158 AGTGATCGAGATTGAACCATAAGTCTGAAAAATAAAAT
1 AGTGATCGGGATTGAACCGCAAGTCTAAAAAATAAAAT
9838196 TAAAAATTTT
Statistics
Matches: 283, Mismatches: 61, Indels: 34
0.75 0.16 0.09
Matches are distributed among these distances:
63 5 0.02
64 89 0.31
65 168 0.59
66 18 0.06
67 3 0.01
ACGTcount: A:0.42, C:0.12, G:0.23, T:0.24
Consensus pattern (65 bp):
AGTGATCGGGATTGAACCGCAAGTCTAAAAAATAAAATGATCTGGATTGAACCAAGATTGAAATG
Found at i:9838096 original size:130 final size:130
Alignment explanation
Indices: 9837861--9838195 Score: 356
Period size: 130 Copynumber: 2.6 Consensus size: 130
9837851 TGTAAGTCTG
* *
9837861 AAAATAAAATGATCTGGACTGAGCTAAGATTGAAATGAGTGATCCAGATTGAACCGCAGGTCTAA
1 AAAATAAAATGATCTGGACTAAGCTAAGATTGAAATGAGTGATCCAGATTGAACCACAGGTCTAA
* * *
9837926 AAATTAAAATGATCTAGATTGAACCAAGATTAAAACGAGTGATCGGGATTAACGCATAGGTTAGA
66 AAAATAAAATGATCTAGACTGAACCAAGATCAAAACGAGTGATCGGGATTAACGCATAGGTTAGA
* * * * *
9837991 AAAATAAAATGATCTGGATTAAGTTGAGATTGAAATGAGTGATCGAGATTGAACCACAAGT-TCA
1 AAAATAAAATGATCTGGACTAAGCTAAGATTGAAATGAGTGATCCAGATTGAACCACAGGTCT-A
* * ** * * *
9838055 AAAAATAAAATGATCTAGACTGAGCTAAGATCAAAGTGAGTGA-CTGCGATTAAAC-CGTAAGTC
65 AAAAATAAAATGATCTAGACTGAACCAAGATCAAAACGAGTGATC-GGGATT-AACGCATAGGT-
9838118 T-G-
127 TAGA
* * * * * * * * *
9838120 AAAATAAAATGATATGGACCAAGCAAAGATCGATGATGAGTGATCGAGATTGAACCATAAGTCTG
1 AAAATAAAATGATCTGGACTAAGCTAAGATTGA-AATGAGTGATCCAGATTGAACCACAGGTCTA
9838185 AAAAATAAAAT
65 AAAAATAAAAT
9838196 TAAAAATTTT
Statistics
Matches: 172, Mismatches: 27, Indels: 12
0.82 0.13 0.06
Matches are distributed among these distances:
129 28 0.16
130 139 0.81
131 5 0.03
ACGTcount: A:0.43, C:0.12, G:0.21, T:0.24
Consensus pattern (130 bp):
AAAATAAAATGATCTGGACTAAGCTAAGATTGAAATGAGTGATCCAGATTGAACCACAGGTCTAA
AAAATAAAATGATCTAGACTGAACCAAGATCAAAACGAGTGATCGGGATTAACGCATAGGTTAGA
Found at i:9838190 original size:195 final size:194
Alignment explanation
Indices: 9837796--9838195 Score: 436
Period size: 195 Copynumber: 2.1 Consensus size: 194
9837786 CGCTAGTCAA
* * *** **
9837796 AAAAATAAAATGATTTGGATTGAGTCGAGATTGAAATGAGTGACCTGGATTGAACTGTAAGTCTG
1 AAAAATAAAATGATCTGGATTAAGTCGAGATTGAAATGAGTGACCTGGATTGAACCACAAGTCAA
* * * *
9837861 AAAATAAAATGATCTGGACTGAGCTAAGATTGAAATGAGTGATCCAGATTGAACCGCAGGTCTAA
66 AAAATAAAATGATCTAGACTGAGCTAAGATTCAAATGAGTGATCCAGATTAAACCGCAAGTCTAA
* ** * * * *
9837926 AAATTAAAATGATCTAGATTGAACCAAGATTAAAACGAGTGATCGGGATTAACGCATAGGTTAG
131 AAATTAAAATGATATAGATCCAACAAAGATGAAAACGAGTGATCGAGATTAACGCATAAGTTAG
* *
9837990 AAAAATAAAATGATCTGGATTAAGTTGAGATTGAAATGAGTGATC-GAGATTGAACCACAAGTTC
1 AAAAATAAAATGATCTGGATTAAGTCGAGATTGAAATGAGTGACCTG-GATTGAACCACAAG-TC
* *
9838054 AAAAAATAAAATGATCTAGACTGAGCTAAGA-TCAAAGTGAGTGACTGC-GATTAAACCGTAAGT
64 AAAAAATAAAATGATCTAGACTGAGCTAAGATTCAAA-TGAGTGA-TCCAGATTAAACCGCAAGT
* * ** *
9838117 CTGAAAA-TAAAATGATATGGA-CCAAGCAAAGATCGATGATGAGTGATCGAGATTGAAC-CATA
127 CTAAAAATTAAAATGATATAGATCCAA-CAAAGAT-GAAAACGAGTGATCGAGATT-AACGCATA
9838179 AGTCT-G
189 AGT-TAG
9838185 AAAAATAAAAT
1 AAAAATAAAAT
9838196 TAAAAATTTT
Statistics
Matches: 171, Mismatches: 27, Indels: 15
0.80 0.13 0.07
Matches are distributed among these distances:
193 3 0.02
194 74 0.43
195 88 0.51
196 6 0.04
ACGTcount: A:0.42, C:0.11, G:0.22, T:0.24
Consensus pattern (194 bp):
AAAAATAAAATGATCTGGATTAAGTCGAGATTGAAATGAGTGACCTGGATTGAACCACAAGTCAA
AAAATAAAATGATCTAGACTGAGCTAAGATTCAAATGAGTGATCCAGATTAAACCGCAAGTCTAA
AAATTAAAATGATATAGATCCAACAAAGATGAAAACGAGTGATCGAGATTAACGCATAAGTTAG
Found at i:9838380 original size:18 final size:17
Alignment explanation
Indices: 9838357--9838398 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
9838347 AAAAGTTTGC
9838357 AAGAATTCCAAGTTTCAT
1 AAGAATTCCAA-TTTCAT
* *
9838375 AAGAATTTCTATTTCAT
1 AAGAATTCCAATTTCAT
9838392 AAGAATT
1 AAGAATT
9838399 TTCAAGTTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 13 0.59
18 9 0.41
ACGTcount: A:0.40, C:0.12, G:0.10, T:0.38
Consensus pattern (17 bp):
AAGAATTCCAATTTCAT
Found at i:9839809 original size:6 final size:6
Alignment explanation
Indices: 9839795--9839855 Score: 58
Period size: 6 Copynumber: 10.5 Consensus size: 6
9839785 GTTGTATCAA
* *
9839795 TTTCTT TTTCAT TTTCAT TTTCAT TTTTA- TTT--T TTTC-T TTTCATT
1 TTTCAT TTTCAT TTTCAT TTTCAT TTTCAT TTTCAT TTTCAT TTTCA-T
9839840 TTTCATT TTTCAT TTT
1 TTTCA-T TTTCAT TTT
9839856 TCTTCTCTTT
Statistics
Matches: 49, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
4 3 0.06
5 8 0.16
6 25 0.51
7 13 0.27
ACGTcount: A:0.11, C:0.13, G:0.00, T:0.75
Consensus pattern (6 bp):
TTTCAT
Found at i:9839822 original size:7 final size:7
Alignment explanation
Indices: 9839795--9839857 Score: 73
Period size: 7 Copynumber: 9.6 Consensus size: 7
9839785 GTTGTATCAA
9839795 TTTC-TT
1 TTTCATT
9839801 TTTCA-T
1 TTTCATT
9839807 TTTCA-T
1 TTTCATT
9839813 TTTCATT
1 TTTCATT
9839820 TTT-ATT
1 TTTCATT
*
9839826 TTT-TTCT
1 TTTCAT-T
9839833 TTTCATT
1 TTTCATT
9839840 TTTCATT
1 TTTCATT
9839847 TTTCATT
1 TTTCATT
9839854 TTTC
1 TTTC
9839858 TTCTCTTTTT
Statistics
Matches: 51, Mismatches: 2, Indels: 7
0.85 0.03 0.12
Matches are distributed among these distances:
6 23 0.45
7 27 0.53
8 1 0.02
ACGTcount: A:0.11, C:0.14, G:0.00, T:0.75
Consensus pattern (7 bp):
TTTCATT
Found at i:9839829 original size:20 final size:21
Alignment explanation
Indices: 9839800--9839884 Score: 53
Period size: 20 Copynumber: 4.3 Consensus size: 21
9839790 ATCAATTTCT
9839800 TTTTCA-TTTTCA--TTTTCA
1 TTTTCATTTTTCATTTTTTCA
*
9839818 TTTTTATTTTT--TTCTTTTCA
1 TTTTCATTTTTCATT-TTTTCA
9839838 TTTTTCATTTTTCA-TTTTTC-
1 -TTTTCATTTTTCATTTTTTCA
* *
9839858 TTCTCTTTTTTTC-TTTTTTC-
1 TTTTC-ATTTTTCATTTTTTCA
9839878 TTTTCAT
1 TTTTCAT
9839885 CATTTTTCAA
Statistics
Matches: 52, Mismatches: 6, Indels: 17
0.69 0.08 0.23
Matches are distributed among these distances:
18 5 0.10
19 9 0.17
20 22 0.42
21 15 0.29
22 1 0.02
ACGTcount: A:0.09, C:0.15, G:0.00, T:0.75
Consensus pattern (21 bp):
TTTTCATTTTTCATTTTTTCA
Found at i:9839835 original size:26 final size:28
Alignment explanation
Indices: 9839799--9839881 Score: 95
Period size: 27 Copynumber: 3.1 Consensus size: 28
9839789 TATCAATTTC
9839799 TTTTTCATTTTCA-TTTTCATTTTT-ATT
1 TTTTTC-TTTTCATTTTTCATTTTTCATT
9839826 TTTTTCTTTTCATTTTTCATTTTTCATT
1 TTTTTCTTTTCATTTTTCATTTTTCATT
* *
9839854 TTTCTTCTCTT--TTTTTCTTTTTTC-TT
1 TTT-TTCTTTTCATTTTTCATTTTTCATT
9839880 TT
1 TT
9839882 CATCATTTTT
Statistics
Matches: 51, Mismatches: 2, Indels: 7
0.85 0.03 0.12
Matches are distributed among these distances:
26 10 0.20
27 29 0.57
28 6 0.12
29 6 0.12
ACGTcount: A:0.08, C:0.14, G:0.00, T:0.77
Consensus pattern (28 bp):
TTTTTCTTTTCATTTTTCATTTTTCATT
Found at i:9839868 original size:46 final size:45
Alignment explanation
Indices: 9839795--9839884 Score: 121
Period size: 46 Copynumber: 2.0 Consensus size: 45
9839785 GTTGTATCAA
*
9839795 TTTCTTTTTCATTTTCATTTTCATTTTTAT-TTTTTTCTTTTCATT
1 TTTCTTTTTCATTTTCATTCTCATTTTT-TCTTTTTTCTTTTCATT
*
9839840 TTTCATTTTTCATTTTTC-TTCTCTTTTTTTCTTTTTTCTTTTCAT
1 TTTC-TTTTTCA-TTTTCATTCTCATTTTTTCTTTTTTCTTTTCAT
9839885 CATTTTTCAA
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
45 5 0.12
46 30 0.75
47 5 0.12
ACGTcount: A:0.09, C:0.16, G:0.00, T:0.76
Consensus pattern (45 bp):
TTTCTTTTTCATTTTCATTCTCATTTTTTCTTTTTTCTTTTCATT
Found at i:9839874 original size:6 final size:6
Alignment explanation
Indices: 9839795--9839881 Score: 59
Period size: 7 Copynumber: 13.3 Consensus size: 6
9839785 GTTGTATCAA
* * * *
9839795 TTTCTT TTTCAT TTTCAT TTTCATT TTTATT TTTTTCT TTTCATT TTTCATT
1 TTTCTT TTTCTT TTTCTT TTTC-TT TTTCTT TTTCT-T TTTC-TT TTTC-TT
9839847 TTTCATT TTTCTT CTCTT-TT TTTCTTT TTTCTT TT
1 TTTC-TT TTTCTT -T-TTCTT TTTC-TT TTTCTT TT
9839882 CATCATTTTT
Statistics
Matches: 69, Mismatches: 5, Indels: 14
0.78 0.06 0.16
Matches are distributed among these distances:
5 2 0.03
6 28 0.41
7 36 0.52
8 3 0.04
ACGTcount: A:0.08, C:0.15, G:0.00, T:0.77
Consensus pattern (6 bp):
TTTCTT
Found at i:9839977 original size:30 final size:30
Alignment explanation
Indices: 9839941--9840000 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
9839931 TCACTAAAGA
*
9839941 TAAACAAACTTCTCAAACTTTGCCTCTATT
1 TAAACAAACTTCTCAAACTTTGCCCCTATT
9839971 TAAACAAACTTCTCAAACTTTGCCCCTATT
1 TAAACAAACTTCTCAAACTTTGCCCCTATT
9840001 GTGAGGGTGA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.33, C:0.28, G:0.03, T:0.35
Consensus pattern (30 bp):
TAAACAAACTTCTCAAACTTTGCCCCTATT
Found at i:9844548 original size:15 final size:16
Alignment explanation
Indices: 9844517--9844552 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
9844507 AAAATAAATT
9844517 AAAATAAAAAGTCTTA
1 AAAATAAAAAGTCTTA
*
9844533 AAAATAAAAA-TGTTA
1 AAAATAAAAAGTCTTA
9844548 AAAAT
1 AAAAT
9844553 GTAAACAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.67, C:0.03, G:0.06, T:0.25
Consensus pattern (16 bp):
AAAATAAAAAGTCTTA
Found at i:9847713 original size:13 final size:14
Alignment explanation
Indices: 9847684--9847713 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
9847674 TGAAAACTGA
9847684 AAAATTGAAGTTTC
1 AAAATTGAAGTTTC
9847698 AAAATTGAAG-TTC
1 AAAATTGAAGTTTC
9847711 AAA
1 AAA
9847714 CACACCTGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.38
14 10 0.62
ACGTcount: A:0.50, C:0.07, G:0.13, T:0.30
Consensus pattern (14 bp):
AAAATTGAAGTTTC
Found at i:9849545 original size:2 final size:2
Alignment explanation
Indices: 9849538--9849598 Score: 58
Period size: 2 Copynumber: 32.5 Consensus size: 2
9849528 TCTGACCTAT
* *
9849538 TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TT TA TT TA -A T-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
9849577 TT TA TA TT TA TA TA TA T- TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA T
9849599 TAATAAAATT
Statistics
Matches: 48, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
1 4 0.08
2 44 0.92
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (2 bp):
TA
Found at i:9849610 original size:29 final size:29
Alignment explanation
Indices: 9849550--9849629 Score: 74
Period size: 29 Copynumber: 2.7 Consensus size: 29
9849540 TATATATATA
* * **
9849550 TATATATATATATATTATTTATTTAATTT
1 TATATTTATATATATTATTTATATAAAAT
9849579 TATATTTATATATATTATATTA-ATAAAAT
1 TATATTTATATATATTAT-TTATATAAAAT
*
9849608 TATTATTTA-ATATTTTAATTTA
1 TA-TATTTATATATATT-ATTTA
9849630 AAATATTAAC
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
29 32 0.74
30 11 0.26
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (29 bp):
TATATTTATATATATTATTTATATAAAAT
Found at i:9849615 original size:42 final size:43
Alignment explanation
Indices: 9849537--9849669 Score: 132
Period size: 42 Copynumber: 3.0 Consensus size: 43
9849527 CTCTGACCTA
*
9849537 TTATATATATATATATATATATATATATTATTTATTT-A-ATTTTATAT
1 TTATATATAT-TATAT-TA-ATA-AAATTA-TTATTTAATATTTTA-AT
9849584 TTATATATATTATATTAATAAAATTATTATTTAATATTTTAAT
1 TTATATATATTATATTAATAAAATTATTATTTAATATTTTAAT
* *
9849627 TTA-AAATATTA-ACTTAATAAAATTATTATATTTATA-TTTAAT
1 TTATATATATTATA-TTAATAAAATTATTAT-TTAATATTTTAAT
9849669 T
1 T
9849670 AAAATTTTTT
Statistics
Matches: 79, Mismatches: 3, Indels: 13
0.83 0.03 0.14
Matches are distributed among these distances:
41 1 0.01
42 36 0.46
43 16 0.20
44 9 0.11
45 2 0.03
46 5 0.06
47 10 0.13
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.56
Consensus pattern (43 bp):
TTATATATATTATATTAATAAAATTATTATTTAATATTTTAAT
Found at i:9861351 original size:21 final size:22
Alignment explanation
Indices: 9861325--9861369 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
9861315 TTTATATATT
9861325 TTTTATTTTT-TGT-ACATTTTA
1 TTTTATTTTTGTGTGA-ATTTTA
9861346 TTTTATTTTTGTGTGAATTTTA
1 TTTTATTTTTGTGTGAATTTTA
9861368 TT
1 TT
9861370 AGGAAAATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 10 0.45
22 11 0.50
23 1 0.05
ACGTcount: A:0.18, C:0.02, G:0.09, T:0.71
Consensus pattern (22 bp):
TTTTATTTTTGTGTGAATTTTA
Done.