Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167838.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_11, 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: 23775123
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 69000 characters in sequence are not A, C, G, or T
File 49 of 129
Found at i:9767007 original size:117 final size:117
Alignment explanation
Indices: 9766801--9767032 Score: 401
Period size: 117 Copynumber: 2.0 Consensus size: 117
9766791 ATTAAGTATC
* * *
9766801 AATATGCAGAGTTAAAGTAGTGGAATTTTAAACTTTTTAATTTCTTAAAGTCAAGATCAATCAAC
1 AATATGCAGAGTTAAAGCAGTGGAATTTTAAAATTTTTAATTTCCTAAAGTCAAGATCAATCAAC
*
9766866 AAGATCATACAAACATACAATATATACAAACTATATGGGTTTTAGCTATGTG
66 AAGATCATACAAACATACAATATATACAAACTATATGGGTTTCAGCTATGTG
* * *
9766918 AATATGTAGAGTTAAAGCAGTGGGATTTTAAAATTTTTAATTTCCTAAAGTCAAGATCAATTAAC
1 AATATGCAGAGTTAAAGCAGTGGAATTTTAAAATTTTTAATTTCCTAAAGTCAAGATCAATCAAC
9766983 AAGATCATACAAACATACAATATATACAAACTATATGGGTTTCAGCTATG
66 AAGATCATACAAACATACAATATATACAAACTATATGGGTTTCAGCTATG
9767033 GTGTGTACCT
Statistics
Matches: 108, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
117 108 1.00
ACGTcount: A:0.41, C:0.12, G:0.14, T:0.33
Consensus pattern (117 bp):
AATATGCAGAGTTAAAGCAGTGGAATTTTAAAATTTTTAATTTCCTAAAGTCAAGATCAATCAAC
AAGATCATACAAACATACAATATATACAAACTATATGGGTTTCAGCTATGTG
Found at i:9774216 original size:32 final size:34
Alignment explanation
Indices: 9774175--9774238 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 34
9774165 AGAAGTTTAG
9774175 CCTGTGGATA-TATTT-TTTTAAATTTGCAGTAT
1 CCTGTGGATATTATTTCTTTTAAATTTGCAGTAT
* *
9774207 CCTGTGGATATTTTTTCTTTTAAATTTTCAGT
1 CCTGTGGATATTATTTCTTTTAAATTTGCAGT
9774239 GATGTTTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 10 0.36
33 4 0.14
34 14 0.50
ACGTcount: A:0.22, C:0.11, G:0.14, T:0.53
Consensus pattern (34 bp):
CCTGTGGATATTATTTCTTTTAAATTTGCAGTAT
Found at i:9774597 original size:16 final size:16
Alignment explanation
Indices: 9774576--9774608 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
9774566 AATTGAATAA
9774576 TAAAATAAATTTAAAT
1 TAAAATAAATTTAAAT
*
9774592 TAAAATAAATTTTAAT
1 TAAAATAAATTTAAAT
9774608 T
1 T
9774609 TTTTATATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
TAAAATAAATTTAAAT
Found at i:9776246 original size:15 final size:16
Alignment explanation
Indices: 9776220--9776252 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
9776210 TAAACAAACA
*
9776220 AATTGAAACTTTGGTT
1 AATTGAAACTTTGATT
9776236 AATTG-AACTTTGATT
1 AATTGAAACTTTGATT
9776251 AA
1 AA
9776253 AGTATCTTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.36, C:0.06, G:0.15, T:0.42
Consensus pattern (16 bp):
AATTGAAACTTTGATT
Found at i:9776987 original size:27 final size:27
Alignment explanation
Indices: 9776964--9777016 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
9776954 AATTAAACTT
* *
9776964 TTTTAATTTAATATAATATATAAAATTA
1 TTTTAATATAA-ATAATAGATAAAATTA
*
9776992 TTTTTATATAAATAATAGATAAAAT
1 TTTTAATATAAATAATAGATAAAAT
9777017 AAATAAATGT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 13 0.59
28 9 0.41
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (27 bp):
TTTTAATATAAATAATAGATAAAATTA
Found at i:9777762 original size:19 final size:20
Alignment explanation
Indices: 9777728--9777769 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
9777718 TAAATTTTTT
9777728 TTATTTGTTATGTTTTAAAA
1 TTATTTGTTATGTTTTAAAA
* *
9777748 TTATTT-TTATTTTTTAACA
1 TTATTTGTTATGTTTTAAAA
9777767 TTA
1 TTA
9777770 AAAATCATGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.29, C:0.02, G:0.05, T:0.64
Consensus pattern (20 bp):
TTATTTGTTATGTTTTAAAA
Found at i:9779236 original size:10 final size:10
Alignment explanation
Indices: 9779200--9779236 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
9779190 AGGGAAAATG
9779200 AAGGAAAGTA
1 AAGGAAAGTA
*
9779210 AAGTAAAGTA
1 AAGGAAAGTA
*
9779220 AAAGAAAGTA
1 AAGGAAAGTA
9779230 AAGGAAA
1 AAGGAAA
9779237 CAAAACCTCA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.24, T:0.11
Consensus pattern (10 bp):
AAGGAAAGTA
Found at i:9780532 original size:21 final size:20
Alignment explanation
Indices: 9780491--9780533 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
9780481 CTTTTCCAAT
**
9780491 TTTTTTGATTTTTTCTTCAC
1 TTTTTTGATTTTTTCCCCAC
*
9780511 TTTTTTGGTTTTTTCCCCCAC
1 TTTTTTGATTTTTT-CCCCAC
9780532 TT
1 TT
9780534 CCAATTGTCT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.07, C:0.21, G:0.07, T:0.65
Consensus pattern (20 bp):
TTTTTTGATTTTTTCCCCAC
Found at i:9781246 original size:20 final size:21
Alignment explanation
Indices: 9781206--9781250 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
9781196 ATTCCAAAGA
9781206 TTGATCAGAGTTCGACCACGT
1 TTGATCAGAGTTCGACCACGT
* *
9781227 TTGATC-GAGTTTGACTACGT
1 TTGATCAGAGTTCGACCACGT
9781247 TTGA
1 TTGA
9781251 CAATAGGGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 16 0.73
21 6 0.27
ACGTcount: A:0.22, C:0.18, G:0.24, T:0.36
Consensus pattern (21 bp):
TTGATCAGAGTTCGACCACGT
Found at i:9781879 original size:116 final size:116
Alignment explanation
Indices: 9781649--9781915 Score: 281
Period size: 116 Copynumber: 2.3 Consensus size: 116
9781639 AAACTTGAAT
* * * * ** **
9781649 ATCATCAAAGAAAATGCAAAATGACTTCGGATATTACCACTGAAGGGTTCTTAGATATTGCCATC
1 ATCATCAAGGAAAATGCAAAATGAATTCGGATATTGCCACTAAAAAGTTCTTAGATATCACCATC
* * * ****
9781714 AGGAAAATGCAAATTTTTTTGGATATTACCACCAAAGCATTTTTGAAAATC
66 AGGAAAATACAAATTCTTTTGGATATCACCACCAAAGCATTCCCAAAAATC
* * *
9781765 ATCACCAAGGAAAATACAAAATGAATTTGGATATTGCCACTAAAAAGTTCTTAGATATCACCAT-
1 ATCATCAAGGAAAATGCAAAATGAATTCGGATATTGCCACTAAAAAGTTCTTAGATATCACCATC
*
9781829 AGAGAAAATACAAATGTCTTTT-GATATCACCACCGAAAG-GTTCCCAAAAATC
66 AG-GAAAATACAAAT-TCTTTTGGATATCACCACC-AAAGCATTCCCAAAAATC
** *
9781881 ATCATTGAGG-AAATGCAAAATGAATTCAGATATTG
1 ATCATCAAGGAAAATGCAAAATGAATTCGGATATTG
9781916 TTGCCAAAGG
Statistics
Matches: 123, Mismatches: 25, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
115 24 0.20
116 90 0.73
117 9 0.07
ACGTcount: A:0.41, C:0.16, G:0.15, T:0.28
Consensus pattern (116 bp):
ATCATCAAGGAAAATGCAAAATGAATTCGGATATTGCCACTAAAAAGTTCTTAGATATCACCATC
AGGAAAATACAAATTCTTTTGGATATCACCACCAAAGCATTCCCAAAAATC
Found at i:9782341 original size:116 final size:116
Alignment explanation
Indices: 9782107--9782326 Score: 262
Period size: 116 Copynumber: 1.9 Consensus size: 116
9782097 GAAAATTACA
* * * *
9782107 AATGAAATTCAAAATTGAATACTCAGATATCACCACTGAGTGAATTTGATTAAAGTTTGGACATC
1 AATGAAATTCAAAATTGAATACTCAAATATCACCACCGAGTGAATTTGATTAAAGCTCGGACATC
** * * * * * *
9782172 ACCAATGAGAGAGTTTTAATGAAAGCTTAGATTTTGCTATCGAGAAAATTT
66 ACCAACAAGAAAGTTTTAATGAAAGCTGAGATATCGCCATCGAGAAAAATT
* * * **
9782223 AATGAAATTCAAACTTGAATATTCAAATATCACTACCGAGTGAATTTGATTAAAGCTCGGATGTC
1 AATGAAATTCAAAATTGAATACTCAAATATCACCACCGAGTGAATTTGATTAAAGCTCGGACATC
*
9782288 ACCACCAAGAAAGTTTTAATGAAAGCTCGA-ATATCGCCA
66 ACCAACAAGAAAGTTTTAATGAAAGCT-GAGATATCGCCA
9782327 CTGAAATAAA
Statistics
Matches: 86, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
116 85 0.99
117 1 0.01
ACGTcount: A:0.39, C:0.15, G:0.16, T:0.30
Consensus pattern (116 bp):
AATGAAATTCAAAATTGAATACTCAAATATCACCACCGAGTGAATTTGATTAAAGCTCGGACATC
ACCAACAAGAAAGTTTTAATGAAAGCTGAGATATCGCCATCGAGAAAAATT
Found at i:9782545 original size:43 final size:43
Alignment explanation
Indices: 9782453--9782634 Score: 161
Period size: 43 Copynumber: 4.1 Consensus size: 43
9782443 AAAAATTCAA
* * * *
9782453 ATATCACTATTAAGATTT-AAAATTTTGGACTTTTGAACACTCAA
1 ATATCACTATTGAGATTTGAAAA-CTTAGAC-TTTGAACACTCAG
* *
9782497 ATATCACTATTGAGATTTGAAAACTCAGACTTTGAACACTCGG
1 ATATCACTATTGAGATTTGAAAACTTAGACTTTGAACACTCAG
* * * * **
9782540 ATATCACTA-TCATGATTTGAATGAAATATGGAGTTTGGAACACTTGG
1 ATATCACTATTGA-GATTTGAA--AACT-TAGACTTT-GAACACTCAG
* *
9782587 ATATCACCATTGGGATTTGAAAACTTAGACTTTGAACACTCAG
1 ATATCACTATTGAGATTTGAAAACTTAGACTTTGAACACTCAG
9782630 ATATC
1 ATATC
9782635 GCCATCGAAA
Statistics
Matches: 111, Mismatches: 20, Indels: 15
0.76 0.14 0.10
Matches are distributed among these distances:
42 2 0.02
43 41 0.37
44 27 0.24
45 10 0.09
46 5 0.05
47 25 0.23
48 1 0.01
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.34
Consensus pattern (43 bp):
ATATCACTATTGAGATTTGAAAACTTAGACTTTGAACACTCAG
Found at i:9782720 original size:64 final size:64
Alignment explanation
Indices: 9782624--9782764 Score: 158
Period size: 64 Copynumber: 2.2 Consensus size: 64
9782614 GACTTTGAAC
* * * *
9782624 ACTCAGATATCGCCATCGAAAAGTTTTAAT-AAAATCCATATATCATCACCAAAACATATAGAAA
1 ACTCGGATATCACCATCGAAAAGTTTTAATAAAAATCCACATATCATCA-CAAAACATATAAAAA
* * * * * * * *
9782688 ACTTGTATATCACCATTGAGAAGTTTTCATAAAAATTCACATATCATCATAAAACATGTAAAAA
1 ACTCGGATATCACCATCGAAAAGTTTTAATAAAAATCCACATATCATCACAAAACATATAAAAA
9782752 ACTCGGATATCAC
1 ACTCGGATATCAC
9782765 TACCGAGAGA
Statistics
Matches: 62, Mismatches: 14, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
64 46 0.74
65 16 0.26
ACGTcount: A:0.45, C:0.19, G:0.09, T:0.28
Consensus pattern (64 bp):
ACTCGGATATCACCATCGAAAAGTTTTAATAAAAATCCACATATCATCACAAAACATATAAAAA
Found at i:9784369 original size:5 final size:5
Alignment explanation
Indices: 9784359--9784383 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
9784349 TCATAAAATC
9784359 ATTTT ATTTT ATTTT ATTTT ATTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT
9784384 TCTTTTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
ATTTT
Found at i:9784988 original size:12 final size:11
Alignment explanation
Indices: 9784973--9785024 Score: 52
Period size: 12 Copynumber: 4.5 Consensus size: 11
9784963 TTTTTGCTTT
9784973 TTTTTTTTCTTG
1 TTTTTTTT-TTG
9784985 TTTTGTTTGTTTG
1 TTTT-TTT-TTTG
*
9784998 TTTGTTTATTTG
1 TTT-TTTTTTTG
9785010 TTTTTTTTTT-
1 TTTTTTTTTTG
9785020 TTTTT
1 TTTTT
9785025 GCATGCACCC
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
10 5 0.14
11 6 0.17
12 11 0.31
13 11 0.31
14 2 0.06
ACGTcount: A:0.02, C:0.02, G:0.12, T:0.85
Consensus pattern (11 bp):
TTTTTTTTTTG
Found at i:9785021 original size:8 final size:8
Alignment explanation
Indices: 9784963--9785025 Score: 65
Period size: 8 Copynumber: 7.8 Consensus size: 8
9784953 TTTCATTTCA
9784963 TTTTTGCTT
1 TTTTTG-TT
9784972 TTTTT-TT
1 TTTTTGTT
*
9784979 TTCTTGTT
1 TTTTTGTT
9784987 TTGTTTGTT
1 TT-TTTGTT
*
9784996 TGTTTGTT
1 TTTTTGTT
*
9785004 TATTTGTT
1 TTTTTGTT
*
9785012 TTTTTTTT
1 TTTTTGTT
9785020 TTTTTG
1 TTTTTG
9785026 CATGCACCCC
Statistics
Matches: 45, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
7 6 0.13
8 28 0.62
9 11 0.24
ACGTcount: A:0.02, C:0.03, G:0.13, T:0.83
Consensus pattern (8 bp):
TTTTTGTT
Found at i:9793261 original size:17 final size:19
Alignment explanation
Indices: 9793239--9793280 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
9793229 TATTAATAAC
*
9793239 AAAATAAAT-A-ACAATTT
1 AAAATAAATGACACAATTA
9793256 AAAATAAATGACACAATTA
1 AAAATAAATGACACAATTA
9793275 AAAATA
1 AAAATA
9793281 TGCACAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 9 0.41
18 1 0.05
19 12 0.55
ACGTcount: A:0.67, C:0.07, G:0.02, T:0.24
Consensus pattern (19 bp):
AAAATAAATGACACAATTA
Found at i:9794278 original size:69 final size:69
Alignment explanation
Indices: 9794193--9794332 Score: 253
Period size: 69 Copynumber: 2.0 Consensus size: 69
9794183 AAATTATAAT
*
9794193 ATACAGATTAAAGTGTGAATGACAAATATAAATACATGGATGAAATTGACAATGCAAGAATGTTA
1 ATACAGATTAAAGTGTGAATGACAAATATAAATACATGGATGAAATTAACAATGCAAGAATGTTA
9794258 ATGC
66 ATGC
* *
9794262 ATACGGATTAAAGTGTGAATGACAAATATAAATACATGGATGAAATTAACAATTCAAGAATGTTA
1 ATACAGATTAAAGTGTGAATGACAAATATAAATACATGGATGAAATTAACAATGCAAGAATGTTA
9794327 ATGC
66 ATGC
9794331 AT
1 AT
9794333 GTAACAATTT
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
69 68 1.00
ACGTcount: A:0.46, C:0.09, G:0.18, T:0.27
Consensus pattern (69 bp):
ATACAGATTAAAGTGTGAATGACAAATATAAATACATGGATGAAATTAACAATGCAAGAATGTTA
ATGC
Found at i:9795075 original size:16 final size:16
Alignment explanation
Indices: 9795054--9795087 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
9795044 GCTTTTCTAA
9795054 TTTTTTTT-TACTTTT
1 TTTTTTTTCTACTTTT
*
9795069 TTTTTTTTCTAGTTTT
1 TTTTTTTTCTACTTTT
9795085 TTT
1 TTT
9795088 CTCCCACTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.06, C:0.06, G:0.03, T:0.85
Consensus pattern (16 bp):
TTTTTTTTCTACTTTT
Found at i:9795760 original size:145 final size:145
Alignment explanation
Indices: 9795522--9795783 Score: 332
Period size: 145 Copynumber: 1.8 Consensus size: 145
9795512 CATTTTTGGG
* * *
9795522 GTGCAATCAAAGTTTTCAATACATCAAAAATTCATGGAATAATATTAAAATATAATTTGAAGCTT
1 GTGCAATCAAAGTTTTCAATACATCAAAAATTCATAGAATAATATTAAAAGATAATCTGAAGCTT
** * *** *
9795587 TTTGCAAAAAACTGACATTGAGAAGGTCAAATTATGGAAATACCTTTAAAGGATATTTTGGTAAA
66 TTTG-AAAAAACCAACATTGAAAAGGTCAAATTACAAAAATACCTGTAAAGGATATTTTGGTAAA
9795652 TTTAACTTTTTTTAAT
130 TTTAACTTTTTTTAAT
* * * *
9795668 GTGCAATCAAAGTTTTCAGTACTTC-AAAATTCATAGAATAATATTTAAAGATGATCTGAAGCTT
1 GTGCAATCAAAGTTTTCAATACATCAAAAATTCATAGAATAATATTAAAAGATAATCTGAAGCTT
*
9795732 TTCATG-AAAAACCAACCTT-AAAAGGGTCAAATTACAAAAATACCTGTAAAGG
66 TT--TGAAAAAACCAACATTGAAAA-GGTCAAATTACAAAAATACCTGTAAAGG
9795784 GCATTATTGT
Statistics
Matches: 98, Mismatches: 15, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
144 3 0.03
145 70 0.71
146 23 0.23
147 2 0.02
ACGTcount: A:0.42, C:0.12, G:0.13, T:0.33
Consensus pattern (145 bp):
GTGCAATCAAAGTTTTCAATACATCAAAAATTCATAGAATAATATTAAAAGATAATCTGAAGCTT
TTTGAAAAAACCAACATTGAAAAGGTCAAATTACAAAAATACCTGTAAAGGATATTTTGGTAAAT
TTAACTTTTTTTAAT
Found at i:9803155 original size:17 final size:17
Alignment explanation
Indices: 9803112--9803158 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
9803102 TATTAGAGGT
*
9803112 AAGTAGAGAGAAAGATA
1 AAGTAGAGAGAAAGAGA
9803129 AAG-AGAGAGAAGAGAGA
1 AAGTAGAGAGAA-AGAGA
9803146 AAGTAG-GAGAAAG
1 AAGTAGAGAGAAAG
9803159 GGAAGGTCCA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
16 10 0.37
17 15 0.56
18 2 0.07
ACGTcount: A:0.57, C:0.00, G:0.36, T:0.06
Consensus pattern (17 bp):
AAGTAGAGAGAAAGAGA
Found at i:9804920 original size:2 final size:2
Alignment explanation
Indices: 9804913--9804966 Score: 55
Period size: 2 Copynumber: 29.0 Consensus size: 2
9804903 ATTGATTGTT
*
9804913 TA TA TA TA -A TA TA -A TA TT TGA T- TA TA -A T- TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA
9804951 TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA
9804967 ACTGTCTTTC
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
1 5 0.11
2 38 0.86
3 1 0.02
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
TA
Found at i:9805959 original size:10 final size:10
Alignment explanation
Indices: 9805946--9805976 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
9805936 TACAATTTTA
9805946 AAAAATATAT
1 AAAAATATAT
9805956 AAAAATA-AT
1 AAAAATATAT
9805965 AAAAATATAT
1 AAAAATATAT
9805975 AA
1 AA
9805977 TTTGATTCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (10 bp):
AAAAATATAT
Found at i:9806949 original size:16 final size:15
Alignment explanation
Indices: 9806928--9806977 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 15
9806918 TTTACCGATC
9806928 AAAAAATCTGTAGCT
1 AAAAAATCTGTAGCT
*
9806943 AATAAAAACTG-A--T
1 AA-AAAATCTGTAGCT
9806956 AGAAAAATCTGTAGCT
1 A-AAAAATCTGTAGCT
9806972 AAAAAA
1 AAAAAA
9806978 AATCAAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 10
0.70 0.05 0.25
Matches are distributed among these distances:
13 9 0.32
14 2 0.07
15 8 0.29
16 9 0.32
ACGTcount: A:0.56, C:0.10, G:0.12, T:0.22
Consensus pattern (15 bp):
AAAAAATCTGTAGCT
Found at i:9806980 original size:17 final size:17
Alignment explanation
Indices: 9806928--9806981 Score: 55
Period size: 17 Copynumber: 3.5 Consensus size: 17
9806918 TTTACCGATC
9806928 AAAAAATCTGTAGCTAA
1 AAAAAATCTGTAGCTAA
*
9806945 TAAAAA-CTG-A--T-A
1 AAAAAATCTGTAGCTAA
*
9806957 GAAAAATCTGTAGCTAA
1 AAAAAATCTGTAGCTAA
9806974 AAAAAATC
1 AAAAAATC
9806982 AAAAATTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 10
0.69 0.07 0.24
Matches are distributed among these distances:
12 6 0.21
13 4 0.14
14 1 0.03
15 1 0.03
16 4 0.14
17 13 0.45
ACGTcount: A:0.56, C:0.11, G:0.11, T:0.22
Consensus pattern (17 bp):
AAAAAATCTGTAGCTAA
Found at i:9807444 original size:27 final size:27
Alignment explanation
Indices: 9807387--9807446 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 27
9807377 CTTGGATTTT
*
9807387 GGTTTTAAGCTTGTTGAAATTTTTGTT
1 GGTTTTAAGCTTGTTGAAATTTTTGTA
* *
9807414 GGTTTTATGTTTGTTGAAATTTGTT-TA
1 GGTTTTAAGCTTGTTGAAATTT-TTGTA
9807441 GGTTTT
1 GGTTTT
9807447 GGTTATATAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 27 0.93
28 2 0.07
ACGTcount: A:0.17, C:0.02, G:0.23, T:0.58
Consensus pattern (27 bp):
GGTTTTAAGCTTGTTGAAATTTTTGTA
Found at i:9808586 original size:45 final size:45
Alignment explanation
Indices: 9808501--9808586 Score: 127
Period size: 45 Copynumber: 1.9 Consensus size: 45
9808491 TGAAGTTGTA
* * *
9808501 AATTGTTTGAAGTTGTAATGTTTTAGTGAACTAAATAGATCCTAG
1 AATTGTTTGAAATTGTAATATTTTAGTGAACTAAACAGATCCTAG
* *
9808546 AATTGTTTGAAATTGTGATATTTTAGTGAACTATACAGATC
1 AATTGTTTGAAATTGTAATATTTTAGTGAACTAAACAGATC
9808587 TTATAGTAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 36 1.00
ACGTcount: A:0.34, C:0.07, G:0.19, T:0.41
Consensus pattern (45 bp):
AATTGTTTGAAATTGTAATATTTTAGTGAACTAAACAGATCCTAG
Found at i:9809264 original size:19 final size:19
Alignment explanation
Indices: 9809240--9809282 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
9809230 AAATTACAAT
9809240 TTATAGGGTTTGAAAATAA
1 TTATAGGGTTTGAAAATAA
* *
9809259 TTATAGGTTTTTAAAATAA
1 TTATAGGGTTTGAAAATAA
9809278 TTATA
1 TTATA
9809283 AATCATTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.42, C:0.00, G:0.14, T:0.44
Consensus pattern (19 bp):
TTATAGGGTTTGAAAATAA
Found at i:9809524 original size:3 final size:3
Alignment explanation
Indices: 9809518--9809677 Score: 74
Period size: 3 Copynumber: 49.7 Consensus size: 3
9809508 ATCTAAATTT
* * *
9809518 TTA TTA TTTA TTA TTA CTA TTA TTA TTTA TTA ATA -TA CATA TATA TTTA
1 TTA TTA -TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA -TTA T-TA -TTA
** * * *
9809567 TTTA TCTA TTA ACA TATA TTA -TA TATA TTT TTC TTA TTTA TTT TTA
1 -TTA T-TA TTA TTA T-TA TTA TTA T-TA TTA TTA TTA -TTA TTA TTA
*
9809613 TTA TTA TTTA TCTA TTA TTA TTA TTA TTA TTA TTA TTTA TCTT TTA -TA
1 TTA TTA -TTA T-TA TTA TTA TTA TTA TTA TTA TTA -TTA T-TA TTA TTA
* *
9809661 TTA TTT TTA TTT TTA TT
1 TTA TTA TTA TTA TTA TT
9809678 TTTTCTTTTT
Statistics
Matches: 122, Mismatches: 19, Indels: 32
0.71 0.11 0.18
Matches are distributed among these distances:
2 6 0.05
3 77 0.63
4 38 0.31
5 1 0.01
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:9809604 original size:28 final size:29
Alignment explanation
Indices: 9809540--9809604 Score: 73
Period size: 28 Copynumber: 2.3 Consensus size: 29
9809530 ATTACTATTA
* *
9809540 TTAT-TTATTAATATACATATATATTTAT
1 TTATCTTATTAACATACATATATATATAT
*
9809568 TTATC-TATTAACATATAT-TATATATAT
1 TTATCTTATTAACATACATATATATATAT
*
9809595 TTTTCTTATT
1 TTATCTTATT
9809605 TATTTTTATT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
27 12 0.39
28 19 0.61
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.58
Consensus pattern (29 bp):
TTATCTTATTAACATACATATATATATAT
Found at i:9809686 original size:29 final size:28
Alignment explanation
Indices: 9809600--9809678 Score: 115
Period size: 29 Copynumber: 2.8 Consensus size: 28
9809590 TATATTTTTC
*
9809600 TTAT-TTATTTTTATTATTATTTATCTA
1 TTATATTATTTTTATTATTATTTATCTT
*
9809627 TTATTATTATTATTATTATTATTTATCTT
1 TTA-TATTATTTTTATTATTATTTATCTT
*
9809656 TTATATTATTTTTATTTTTATTT
1 TTATATTATTTTTATTATTATTT
9809679 TTTCTTTTTC
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
27 3 0.07
28 19 0.41
29 24 0.52
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (28 bp):
TTATATTATTTTTATTATTATTTATCTT
Found at i:9809975 original size:22 final size:22
Alignment explanation
Indices: 9809937--9809978 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
9809927 GTGAGAAGTT
*
9809937 TTTTTTTTTTGGATTTTTGGCA
1 TTTTTTTTTTGAATTTTTGGCA
9809959 TTTTTTTTTT-AACTTTTTGG
1 TTTTTTTTTTGAA-TTTTTGG
9809979 AAAATTTTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 1 0.06
22 17 0.94
ACGTcount: A:0.10, C:0.05, G:0.14, T:0.71
Consensus pattern (22 bp):
TTTTTTTTTTGAATTTTTGGCA
Found at i:9810375 original size:11 final size:11
Alignment explanation
Indices: 9810359--9810392 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
9810349 TTGAGCGTCA
*
9810359 ACCCGCGTTTG
1 ACCCGCGTGTG
9810370 ACCCGCGTGTG
1 ACCCGCGTGTG
*
9810381 ACCCGAGTGTG
1 ACCCGCGTGTG
9810392 A
1 A
9810393 GCCATTTCTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.15, C:0.32, G:0.32, T:0.21
Consensus pattern (11 bp):
ACCCGCGTGTG
Found at i:9810534 original size:25 final size:25
Alignment explanation
Indices: 9810484--9810536 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
9810474 CCGTTCCAAG
* **
9810484 ATTATTTATTTATTTATTCATTATT
1 ATTATTTATTTATTGATTCAGAATT
9810509 ATTATTTATTTATTAGATT-AGAATT
1 ATTATTTATTTATT-GATTCAGAATT
9810534 ATT
1 ATT
9810537 TAGTATTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 21 0.88
26 3 0.12
ACGTcount: A:0.32, C:0.02, G:0.04, T:0.62
Consensus pattern (25 bp):
ATTATTTATTTATTGATTCAGAATT
Found at i:9810575 original size:16 final size:17
Alignment explanation
Indices: 9810543--9810585 Score: 70
Period size: 16 Copynumber: 2.6 Consensus size: 17
9810533 TATTTAGTAT
*
9810543 TTTTTATTTTATTTTTA
1 TTTTTATTTTATATTTA
9810560 TTTTTATTTT-TATTTA
1 TTTTTATTTTATATTTA
9810576 TTTTTATTTT
1 TTTTTATTTT
9810586 CTTTAAATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
16 15 0.60
17 10 0.40
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (17 bp):
TTTTTATTTTATATTTA
Found at i:9810575 original size:22 final size:23
Alignment explanation
Indices: 9810543--9810585 Score: 79
Period size: 22 Copynumber: 1.9 Consensus size: 23
9810533 TATTTAGTAT
9810543 TTTTTATTTTATTTTTATTTTTA
1 TTTTTATTTTATTTTTATTTTTA
9810566 TTTTTA-TTTATTTTTATTTT
1 TTTTTATTTTATTTTTATTTT
9810586 CTTTAAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 14 0.70
23 6 0.30
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (23 bp):
TTTTTATTTTATTTTTATTTTTA
Found at i:9810584 original size:6 final size:6
Alignment explanation
Indices: 9810543--9810585 Score: 65
Period size: 6 Copynumber: 7.7 Consensus size: 6
9810533 TATTTAGTAT
9810543 TTTTTA -TTTTA TTTTTA TTTTTA TTTTTA --TTTA TTTTTA TTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTT
9810586 CTTTAAATAA
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
4 4 0.12
5 5 0.15
6 25 0.74
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTTA
Found at i:9810665 original size:58 final size:57
Alignment explanation
Indices: 9810603--9810820 Score: 292
Period size: 58 Copynumber: 3.7 Consensus size: 57
9810593 TAAAATTCCA
9810603 AAAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGTCTTT
1 AAAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGT-TTT
* *
9810661 AAAAAAATATATTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAGTTTT
1 AAAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGTTTT
* * * * *
9810718 CTAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCTTTGAAAATAATTTTTTT
1 -AAAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAA--GTTTT
* *
9810778 AAAAAAAGGTTTCTTTTGAGGAAAAGTTGAAAGTATCAATTTT
1 AAAAAAA--TAT-TTTTAAGGAAAAGTTGAAAGTATCAATTTT
9810821 TATTGTATGA
Statistics
Matches: 142, Mismatches: 12, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
57 3 0.02
58 98 0.69
59 6 0.04
60 4 0.03
61 2 0.01
62 29 0.20
ACGTcount: A:0.44, C:0.06, G:0.12, T:0.38
Consensus pattern (57 bp):
AAAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGTTTT
Found at i:9821320 original size:24 final size:24
Alignment explanation
Indices: 9821288--9821376 Score: 78
Period size: 24 Copynumber: 3.7 Consensus size: 24
9821278 ATATTATGCT
*
9821288 TGAAGAAAAAGAGAAAAAATGAAA
1 TGAAAAAAAAGAGAAAAAATGAAA
* *
9821312 TGAAAAAAATGAAAAAAAATGAAA
1 TGAAAAAAAAGAGAAAAAATGAAA
*
9821336 AGAAAAAGAAA-AGAAAAGAA--AAA
1 TGAAAAA-AAAGAGAAAA-AATGAAA
9821359 GTGAATAAAAAAG-GAAAA
1 -TGAA-AAAAAAGAGAAAA
9821377 CTCAAGGCGA
Statistics
Matches: 53, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
23 3 0.06
24 43 0.81
25 7 0.13
ACGTcount: A:0.74, C:0.00, G:0.18, T:0.08
Consensus pattern (24 bp):
TGAAAAAAAAGAGAAAAAATGAAA
Found at i:9821329 original size:10 final size:10
Alignment explanation
Indices: 9821309--9821358 Score: 59
Period size: 10 Copynumber: 5.0 Consensus size: 10
9821299 AGAAAAAATG
9821309 AAATG-AAAA
1 AAATGAAAAA
9821318 AAATGAAAAA
1 AAATGAAAAA
9821328 AAATGAAAAGA
1 AAATGAAAA-A
*
9821339 AAAAGAAAAGA
1 AAATGAAAA-A
9821350 AAA-GAAAAA
1 AAATGAAAAA
9821359 GTGAATAAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
9 6 0.16
10 18 0.47
11 14 0.37
ACGTcount: A:0.80, C:0.00, G:0.14, T:0.06
Consensus pattern (10 bp):
AAATGAAAAA
Found at i:9821368 original size:16 final size:16
Alignment explanation
Indices: 9821290--9821359 Score: 67
Period size: 15 Copynumber: 4.6 Consensus size: 16
9821280 ATTATGCTTG
9821290 AAGAAAAAGAGAAA-AA
1 AAGAAAAAGA-AAAGAA
* *
9821306 ATG-AAATGAAAA-AA
1 AAGAAAAAGAAAAGAA
* *
9821320 ATGAAAAA-AAATGAA
1 AAGAAAAAGAAAAGAA
9821335 AAGAAAAAGAAAAGAA
1 AAGAAAAAGAAAAGAA
9821351 AAGAAAAAG
1 AAGAAAAAG
9821360 TGAATAAAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
14 11 0.24
15 17 0.38
16 17 0.38
ACGTcount: A:0.77, C:0.00, G:0.17, T:0.06
Consensus pattern (16 bp):
AAGAAAAAGAAAAGAA
Found at i:9821376 original size:6 final size:5
Alignment explanation
Indices: 9821294--9821357 Score: 53
Period size: 5 Copynumber: 12.8 Consensus size: 5
9821284 TGCTTGAAGA
* * *
9821294 AAAAG AGAAA- AAATG AAATG AAAA- AAATG AAAA- AAAATG AAAAG AAAAAG
1 AAAAG A-AAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAA-G AAAAG -AAAAG
9821344 AAAAG AAAAG AAAA
1 AAAAG AAAAG AAAA
9821358 AGTGAATAAA
Statistics
Matches: 49, Mismatches: 4, Indels: 12
0.75 0.06 0.18
Matches are distributed among these distances:
4 9 0.18
5 28 0.57
6 12 0.24
ACGTcount: A:0.78, C:0.00, G:0.16, T:0.06
Consensus pattern (5 bp):
AAAAG
Found at i:9822447 original size:43 final size:44
Alignment explanation
Indices: 9822374--9822475 Score: 145
Period size: 43 Copynumber: 2.4 Consensus size: 44
9822364 CTTAATCATC
*
9822374 AAGGAGC-ATTTATTTTTCCAAAGTCATGGTTGCCTC-TATTTA
1 AAGGAGCAATTTATTTTTCCAAAGCCATGGTTGCCTCTTATTTA
* * * *
9822416 GAGGAGCAATTTATTTTTCTAAAGCCTTGGTTGCCTCTTGTTTA
1 AAGGAGCAATTTATTTTTCCAAAGCCATGGTTGCCTCTTATTTA
9822460 AAGGAGCAATTTATTT
1 AAGGAGCAATTTATTT
9822476 ATTTATTTTA
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
42 6 0.12
43 26 0.50
44 20 0.38
ACGTcount: A:0.25, C:0.15, G:0.19, T:0.41
Consensus pattern (44 bp):
AAGGAGCAATTTATTTTTCCAAAGCCATGGTTGCCTCTTATTTA
Found at i:9822592 original size:43 final size:43
Alignment explanation
Indices: 9822545--9822634 Score: 101
Period size: 43 Copynumber: 2.1 Consensus size: 43
9822535 AGTCGTGGTT
*
9822545 GCCTCCGTTTAGAAGAGCAATTCATTA-TTCCCAAAGTCGTTAA
1 GCCTCCATTTAGAAGAGC-ATTCATTATTTCCCAAAGTCGTTAA
* * * ** *
9822588 GCCTCTATTTAGAGGAGCTTTGTTTATTTTCCAAAGTCGTTAA
1 GCCTCCATTTAGAAGAGCATTCATTATTTCCCAAAGTCGTTAA
9822631 GCCT
1 GCCT
9822635 ATGATAAGAG
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
42 5 0.13
43 34 0.87
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.36
Consensus pattern (43 bp):
GCCTCCATTTAGAAGAGCATTCATTATTTCCCAAAGTCGTTAA
Found at i:9822769 original size:43 final size:43
Alignment explanation
Indices: 9822576--9822778 Score: 182
Period size: 43 Copynumber: 4.8 Consensus size: 43
9822566 TCATTATTCC
* *
9822576 CAAAGTCGTTAAGCCTCT-ATTTAGAGGAGCTTTGTTTATTTTC
1 CAAAGTCGTTGAGCCTCTGA-TTAGAGGAGCTTTGTTTATTTTT
* * * * ** *
9822619 CAAAGTCGTTAAGCCTATGATAAGAGAAGC--CATTTATCTTT
1 CAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTTGTTTATTTTT
* * ** *
9822660 CAAAGTCATCGAGCCTCTGATTAGAGGAGC--AATTTACTTTT
1 CAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTTGTTTATTTTT
* * * *
9822701 CAAAAATTGTCGAGCCTCTGATTAGATGAGCTTTGTTTATTTTT
1 C-AAAGTCGTTGAGCCTCTGATTAGAGGAGCTTTGTTTATTTTT
*
9822745 CAAAGTCGTTGAGCCTCTGCTTAGAGGAGCTTTG
1 CAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTTG
9822779 ATCAAATTTT
Statistics
Matches: 128, Mismatches: 28, Indels: 8
0.78 0.17 0.05
Matches are distributed among these distances:
41 40 0.31
42 25 0.20
43 53 0.41
44 10 0.08
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.36
Consensus pattern (43 bp):
CAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTTGTTTATTTTT
Found at i:9823097 original size:3 final size:3
Alignment explanation
Indices: 9823065--9823139 Score: 55
Period size: 3 Copynumber: 23.3 Consensus size: 3
9823055 TATTAACATA
* *
9823065 TAT TAT ATAT T-T TCT TATT TAT TTT TAT TAT TATT TAT CTAT TAT TAT
1 TAT TAT -TAT TAT TAT TA-T TAT TAT TAT TAT TA-T TAT -TAT TAT TAT
9823113 TAT TATT TATT TATT TAT TA- TAT TAT T
1 TAT TA-T TA-T TA-T TAT TAT TAT TAT T
9823140 TTTACTTTTA
Statistics
Matches: 62, Mismatches: 3, Indels: 14
0.78 0.04 0.18
Matches are distributed among these distances:
2 4 0.06
3 35 0.56
4 23 0.37
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:9823107 original size:20 final size:20
Alignment explanation
Indices: 9823079--9823140 Score: 90
Period size: 20 Copynumber: 3.1 Consensus size: 20
9823069 ATATATTTTC
9823079 TTATTTATTTTTATTATTAT
1 TTATTTATTTTTATTATTAT
* *
9823099 TTATCTATTATTATTATTAT
1 TTATTTATTTTTATTATTAT
9823119 TTATTTATTTATTA-TATTAT
1 TTATTTATTT-TTATTATTAT
9823139 TT
1 TT
9823141 TTACTTTTAT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
20 34 0.92
21 3 0.08
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (20 bp):
TTATTTATTTTTATTATTAT
Found at i:9823140 original size:52 final size:49
Alignment explanation
Indices: 9823045--9823152 Score: 121
Period size: 49 Copynumber: 2.1 Consensus size: 49
9823035 TACGTATACA
*
9823045 TTTATTTATCTATTAACATATATTATATATTTTCTTATTTATTTTTA-T
1 TTTATTTATCTATTAACATATATTATATATTTTATTATTTATTTTTACT
** *
9823093 TATTATTTATCTATTATTAT-TATTATTTATTTATTTATTATATTATTTTTACT
1 T-TTATTTATCTATTAACATATATTA--TATAT-TTTATTAT-TTATTTTTACT
9823146 TTTATTT
1 TTTATTT
9823153 CTAATTTTTT
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
48 6 0.12
49 16 0.32
50 4 0.08
51 7 0.14
52 15 0.30
53 2 0.04
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.68
Consensus pattern (49 bp):
TTTATTTATCTATTAACATATATTATATATTTTATTATTTATTTTTACT
Found at i:9823149 original size:20 final size:21
Alignment explanation
Indices: 9823082--9823151 Score: 65
Period size: 20 Copynumber: 3.3 Consensus size: 21
9823072 TATTTTCTTA
*
9823082 TTTATTTTTATTATTATTTATCT
1 TTTATTATTATTATT-TTTA-CT
*
9823105 ATTATTATTATTATTTATT--T
1 TTTATTATTATTATTT-TTACT
9823125 ATTTATTA-TATTATTTTTACT
1 -TTTATTATTATTATTTTTACT
9823146 TTTATT
1 TTTATT
9823152 TCTAATTTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 11
0.74 0.06 0.20
Matches are distributed among these distances:
19 2 0.05
20 15 0.38
21 7 0.17
22 1 0.03
23 15 0.38
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (21 bp):
TTTATTATTATTATTTTTACT
Found at i:9823150 original size:12 final size:12
Alignment explanation
Indices: 9823079--9823152 Score: 54
Period size: 12 Copynumber: 6.5 Consensus size: 12
9823069 ATATATTTTC
9823079 TTATTTA-T-TT
1 TTATTTATTATT
9823089 TTA-TTATTA-T
1 TTATTTATTATT
*
9823099 TTATCTATTATT
1 TTATTTATTATT
9823111 ATTA-TTATT-TAT
1 -TTATTTATTAT-T
*
9823123 TTATTTATTATA
1 TTATTTATTATT
9823135 TTATTT-TTACTT
1 TTATTTATTA-TT
9823147 TTATTT
1 TTATTT
9823153 CTAATTTTTT
Statistics
Matches: 51, Mismatches: 4, Indels: 16
0.72 0.06 0.23
Matches are distributed among these distances:
9 3 0.06
10 8 0.16
11 12 0.24
12 24 0.47
13 4 0.08
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.72
Consensus pattern (12 bp):
TTATTTATTATT
Found at i:9823450 original size:23 final size:21
Alignment explanation
Indices: 9823414--9823455 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 21
9823404 GTAGAAAACG
9823414 TTTTTTTTTGAATTTTTGGCC
1 TTTTTTTTTGAATTTTTGGCC
9823435 TTTTTTTTTGGAAATTTTTGG
1 TTTTTTTTT-G-AATTTTTGG
9823456 AAAATTTCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 9 0.47
22 1 0.05
23 9 0.47
ACGTcount: A:0.12, C:0.05, G:0.17, T:0.67
Consensus pattern (21 bp):
TTTTTTTTTGAATTTTTGGCC
Found at i:9823992 original size:6 final size:6
Alignment explanation
Indices: 9823983--9824054 Score: 89
Period size: 6 Copynumber: 12.7 Consensus size: 6
9823973 TATTTAGTAT
* *
9823983 TTTTTA -TTTTA -TTTTA -TTTTA -TTCTA TTTTTA TCTTTA TTTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
*
9824027 TCTTTA TTTTTA TTTTTA TTTTTA TTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTT
9824055 CTTTAAATAA
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
5 19 0.32
6 40 0.68
ACGTcount: A:0.17, C:0.04, G:0.00, T:0.79
Consensus pattern (6 bp):
TTTTTA
Found at i:9824135 original size:59 final size:59
Alignment explanation
Indices: 9824072--9824288 Score: 305
Period size: 59 Copynumber: 3.7 Consensus size: 59
9824062 TAAAATTCCA
9824072 AAAAAATATTTTTAAGAAAAAGTTGAAAGTATCAATTTTCTTTGAAAATAAGTTTTTCT
1 AAAAAATATTTTTAAGAAAAAGTTGAAAGTATCAATTTTCTTTGAAAATAAGTTTTTCT
*
9824131 AAAAAATATTTTTGATG-AAAAGTTGAAAGTATCAATTTT-TTTGAAAATAAG-TTTTCT
1 AAAAAATATTTTT-AAGAAAAAGTTGAAAGTATCAATTTTCTTTGAAAATAAGTTTTTCT
* * * * *
9824188 AAAAAATATTTTTGAGGAAAAGTTGAAAGAATCAATTTTCTTTGAAAATAATTTTTTTT
1 AAAAAATATTTTTAAGAAAAAGTTGAAAGTATCAATTTTCTTTGAAAATAAGTTTTTCT
* **
9824247 AAAAAAGATTTTTTTGGAGAAAAGTTGAAAGTATCAATTTTC
1 AAAAAATA-TTTTTAAGA-AAAAGTTGAAAGTATCAATTTTC
9824289 CTTGTACGAA
Statistics
Matches: 141, Mismatches: 11, Indels: 10
0.87 0.07 0.06
Matches are distributed among these distances:
56 1 0.01
57 40 0.28
58 23 0.16
59 47 0.33
60 8 0.06
61 22 0.16
ACGTcount: A:0.43, C:0.04, G:0.12, T:0.41
Consensus pattern (59 bp):
AAAAAATATTTTTAAGAAAAAGTTGAAAGTATCAATTTTCTTTGAAAATAAGTTTTTCT
Found at i:9824198 original size:116 final size:118
Alignment explanation
Indices: 9824072--9824287 Score: 348
Period size: 116 Copynumber: 1.8 Consensus size: 118
9824062 TAAAATTCCA
*
9824072 AAAAAATATTTTTAAGAAAAAGTTGAAAGTATCAATTTTCTTTGAAAATAAGTTTTTCT-AAAAA
1 AAAAAATATTTTTAAGAAAAAGTTGAAAGAATCAATTTTCTTTGAAAATAAGTTTTTCTAAAAAA
9824136 -ATATTTTT-GATGAAAAGTTGAAAGTATCAATTTTTTTGAAAATAAGTTTTCT
66 GATATTTTTGGA-GAAAAGTTGAAAGTATCAATTTTTTTGAAAATAAGTTTTCT
* * * *
9824188 AAAAAATATTTTTGAGGAAAAGTTGAAAGAATCAATTTTCTTTGAAAATAATTTTTTTTAAAAAA
1 AAAAAATATTTTTAAGAAAAAGTTGAAAGAATCAATTTTCTTTGAAAATAAGTTTTTCTAAAAAA
*
9824253 GATTTTTTTGGAGAAAAGTTGAAAGTATCAATTTT
66 GATATTTTTGGAGAAAAGTTGAAAGTATCAATTTT
9824288 CCTTGTACGA
Statistics
Matches: 91, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
116 54 0.59
117 5 0.05
118 30 0.33
119 2 0.02
ACGTcount: A:0.43, C:0.04, G:0.12, T:0.41
Consensus pattern (118 bp):
AAAAAATATTTTTAAGAAAAAGTTGAAAGAATCAATTTTCTTTGAAAATAAGTTTTTCTAAAAAA
GATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTTTTGAAAATAAGTTTTCT
Found at i:9824208 original size:57 final size:58
Alignment explanation
Indices: 9824072--9824288 Score: 312
Period size: 57 Copynumber: 3.7 Consensus size: 58
9824062 TAAAATTCCA
* *
9824072 AAAAAATATTTTTAAGAAAAAGTTGAAAGTATCAATTTTCTTTGAAAATAAGTTTTTCT
1 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCTTTGAAAATAAG-TTTTCT
*
9824131 AAAAAATATTTTTGATGAAAAGTTGAAAGTATCAATTTT-TTTGAAAATAAGTTTTCT
1 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCTTTGAAAATAAGTTTTCT
* * *
9824188 AAAAAATATTTTTGAGGAAAAGTTGAAAGAATCAATTTTCTTTGAAAATAATTTTTTTT
1 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCTTTGAAAATAA-GTTTTCT
*
9824247 AAAAAAGATTTTTTTG-GAGAAAAGTTGAAAGTATCAATTTTC
1 -AAAAA-ATATTTTTGAG-GAAAAGTTGAAAGTATCAATTTTC
9824289 CTTGTACGAA
Statistics
Matches: 144, Mismatches: 9, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
57 43 0.30
58 23 0.16
59 41 0.28
60 6 0.04
61 31 0.22
ACGTcount: A:0.43, C:0.04, G:0.12, T:0.41
Consensus pattern (58 bp):
AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCTTTGAAAATAAGTTTTCT
Found at i:9824931 original size:19 final size:20
Alignment explanation
Indices: 9824907--9824949 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
9824897 ATTGATGGAT
*
9824907 TTATCGAT-AAATTTTTTTA
1 TTATCGATGAAATTTTATTA
9824926 TTATCGATGAAATTTTATTA
1 TTATCGATGAAATTTTATTA
9824946 TTAT
1 TTAT
9824950 TGACGAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 8 0.36
20 14 0.64
ACGTcount: A:0.33, C:0.05, G:0.07, T:0.56
Consensus pattern (20 bp):
TTATCGATGAAATTTTATTA
Found at i:9824957 original size:20 final size:20
Alignment explanation
Indices: 9824915--9824957 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
9824905 ATTTATCGAT
* *
9824915 AAATTTTTTTATTATCGATG
1 AAATTTTATTATTATCGACG
*
9824935 AAATTTTATTATTATTGACG
1 AAATTTTATTATTATCGACG
9824955 AAA
1 AAA
9824958 AAAATTCATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.37, C:0.05, G:0.09, T:0.49
Consensus pattern (20 bp):
AAATTTTATTATTATCGACG
Found at i:9826839 original size:24 final size:25
Alignment explanation
Indices: 9826812--9826858 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
9826802 AAAGTAAGAG
*
9826812 ACAAAAAAAT-AAATATTAAAATAT
1 ACAAAAAAATAAAATATAAAAATAT
*
9826836 ACAAAAATATAAAATATAAAAAT
1 ACAAAAAAATAAAATATAAAAAT
9826859 CCTAAAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 9 0.45
25 11 0.55
ACGTcount: A:0.72, C:0.04, G:0.00, T:0.23
Consensus pattern (25 bp):
ACAAAAAAATAAAATATAAAAATAT
Found at i:9826850 original size:17 final size:17
Alignment explanation
Indices: 9826822--9826857 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
9826812 ACAAAAAAAT
9826822 AAATATTAAAATATACAA
1 AAATATTAAAATATA-AA
9826840 AAATA-TAAAATATAAA
1 AAATATTAAAATATAAA
9826856 AA
1 AA
9826858 TCCTAAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 4 0.22
17 9 0.50
18 5 0.28
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.25
Consensus pattern (17 bp):
AAATATTAAAATATAAA
Found at i:9826858 original size:15 final size:15
Alignment explanation
Indices: 9826822--9826872 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
9826812 ACAAAAAAAT
9826822 AAATATTAAAATATACAA
1 AAATA-TAAAATAT--AA
9826840 AAATATAAAATATAA
1 AAATATAAAATATAA
*
9826855 AAATCCTAAAA-ATAA
1 AAAT-ATAAAATATAA
9826870 AAA
1 AAA
9826873 AAATCAATTA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
15 13 0.42
16 5 0.16
17 8 0.26
18 5 0.16
ACGTcount: A:0.71, C:0.06, G:0.00, T:0.24
Consensus pattern (15 bp):
AAATATAAAATATAA
Found at i:9827230 original size:16 final size:16
Alignment explanation
Indices: 9827209--9827252 Score: 61
Period size: 17 Copynumber: 2.6 Consensus size: 16
9827199 CTCATATTTT
9827209 TTTTATTTTTTTGGAA
1 TTTTATTTTTTTGGAA
*
9827225 TTTTATAATTTTTGGAA
1 TTTTAT-TTTTTTGGAA
9827242 TATTTATTTTT
1 T-TTTATTTTT
9827253 ATTTTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 6 0.25
17 13 0.54
18 5 0.21
ACGTcount: A:0.23, C:0.00, G:0.09, T:0.68
Consensus pattern (16 bp):
TTTTATTTTTTTGGAA
Found at i:9828042 original size:16 final size:17
Alignment explanation
Indices: 9827983--9828043 Score: 51
Period size: 16 Copynumber: 3.8 Consensus size: 17
9827973 GAATTTATAT
* *
9827983 TTTAT-TATTTATTTAA
1 TTTATATATTTAATAAA
9827999 TTT-TATATTT-ATAAA
1 TTTATATATTTAATAAA
*
9828014 TATTATGTA-TTAATAAA
1 T-TTATATATTTAATAAA
9828031 TTTAT-TATTTAAT
1 TTTATATATTTAAT
9828044 GCTTTAATTT
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
15 7 0.19
16 21 0.57
17 9 0.24
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (17 bp):
TTTATATATTTAATAAA
Found at i:9828112 original size:18 final size:20
Alignment explanation
Indices: 9828071--9828112 Score: 54
Period size: 18 Copynumber: 2.2 Consensus size: 20
9828061 AAATTATATT
9828071 TATTTATAATCAAAATATAA
1 TATTTATAATCAAAATATAA
*
9828091 -ATTTAT-ATTAAAA-ATAA
1 TATTTATAATCAAAATATAA
9828108 TATTT
1 TATTT
9828113 TTATGAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
17 4 0.20
18 10 0.50
19 6 0.30
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (20 bp):
TATTTATAATCAAAATATAA
Found at i:9828390 original size:21 final size:21
Alignment explanation
Indices: 9828352--9828396 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
9828342 TTCCCATTTG
*
9828352 TTTCTTTATTTTAGTTTTAGT
1 TTTCTTTATTTTAGTTTTAAT
*
9828373 TTTCTTT-TTTTAATTTTTAAT
1 TTTCTTTATTTT-AGTTTTAAT
9828394 TTT
1 TTT
9828397 GAAATTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.16, C:0.04, G:0.04, T:0.76
Consensus pattern (21 bp):
TTTCTTTATTTTAGTTTTAAT
Found at i:9828631 original size:16 final size:16
Alignment explanation
Indices: 9828612--9828682 Score: 58
Period size: 17 Copynumber: 4.4 Consensus size: 16
9828602 ATAAATTCAA
9828612 AAAAAATTCAAAAATT
1 AAAAAATTCAAAAATT
**
9828628 AAAAAAAAACAAAAATT
1 -AAAAAATTCAAAAATT
9828645 -AAAAA-TCTAGAAAATT
1 AAAAAATTC-A-AAAATT
*
9828661 ATAAAAATT-GAAAATT
1 A-AAAAATTCAAAAATT
9828677 AAAAAA
1 AAAAAA
9828683 AGTGAAAAGT
Statistics
Matches: 45, Mismatches: 4, Indels: 12
0.74 0.07 0.20
Matches are distributed among these distances:
14 1 0.02
15 11 0.24
16 13 0.29
17 14 0.31
18 5 0.11
19 1 0.02
ACGTcount: A:0.72, C:0.04, G:0.03, T:0.21
Consensus pattern (16 bp):
AAAAAATTCAAAAATT
Found at i:9828641 original size:25 final size:24
Alignment explanation
Indices: 9828613--9828683 Score: 79
Period size: 25 Copynumber: 2.9 Consensus size: 24
9828603 TAAATTCAAA
9828613 AAAAATTCAAAAATTAAAAAAAAAC
1 AAAAATT-AAAAATTAAAAAAAAAC
* ** *
9828638 AAAAATTAAAAATCTAGAAAATTAT
1 AAAAATTAAAAAT-TAAAAAAAAAC
*
9828663 AAAAATTGAAAATTAAAAAAA
1 AAAAATTAAAAATTAAAAAAA
9828684 GTGAAAAGTA
Statistics
Matches: 38, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
24 12 0.32
25 26 0.68
ACGTcount: A:0.72, C:0.04, G:0.03, T:0.21
Consensus pattern (24 bp):
AAAAATTAAAAATTAAAAAAAAAC
Found at i:9828683 original size:16 final size:16
Alignment explanation
Indices: 9828611--9828949 Score: 89
Period size: 16 Copynumber: 19.8 Consensus size: 16
9828601 AATAAATTCA
*
9828611 AAAAAAATTCAAAAATT
1 AAAAAAATT-GAAAATT
***
9828628 AAAAAAAAACAAAAATT
1 -AAAAAAATTGAAAATT
** *
9828645 AAAAATCTAGAAAATT
1 AAAAAAATTGAAAATT
*
9828661 ATAAAAATTGAAAATT
1 AAAAAAATTGAAAATT
* *
9828677 AAAAAAAGTGAAAAGT
1 AAAAAAATTGAAAATT
*
9828693 AAGAAAATAT-AAAAGTTT
1 AAAAAAAT-TGAAAA--TT
*
9828711 AAAAAACATGTAGAGAAAAT
1 AAAAAA-AT-T-GA-AAATT
*
9828731 ATAAAAAATT-TAAATT
1 A-AAAAAATTGAAAATT
* *
9828747 AGAAAAATTGAATTATT
1 AAAAAAATTGAA-AATT
*
9828764 AAAAAAA--AATAAATT
1 AAAAAAATTGA-AAATT
*
9828779 CAAAAAATTAAAATTCAAAAATT
1 ----AAA--AAAATT-GAAAATT
*
9828802 CAAAAAAATTGAAAAATA
1 -AAAAAAATTG-AAAATT
***
9828820 AAAAAAAACAAAAATT
1 AAAAAAATTGAAAATT
** *
9828836 AAAAATCTAGAAAATT
1 AAAAAAATTGAAAATT
9828852 ATAAAAAATTG-AAATT
1 A-AAAAAATTGAAAATT
* *
9828868 AAAAAAAGTGAAAAGT
1 AAAAAAATTGAAAATT
*
9828884 AAGAAAATAT-AAAAGTTT
1 AAAAAAAT-TGAAAA--TT
*
9828902 AAAAAATATGTAGAGAAAAT
1 AAAAAA-AT-T-GA-AAATT
*
9828922 ATAAAAAATT-TAAATT
1 A-AAAAAATTGAAAATT
*
9828938 AGAAAAATTGAA
1 AAAAAAATTGAA
9828950 CATTTTTAAA
Statistics
Matches: 234, Mismatches: 55, Indels: 66
0.66 0.15 0.19
Matches are distributed among these distances:
15 26 0.11
16 96 0.41
17 31 0.13
18 30 0.13
19 11 0.05
20 11 0.05
21 16 0.07
22 6 0.03
23 5 0.02
24 2 0.01
ACGTcount: A:0.67, C:0.03, G:0.07, T:0.23
Consensus pattern (16 bp):
AAAAAAATTGAAAATT
Found at i:9828783 original size:14 final size:15
Alignment explanation
Indices: 9828766--9828799 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
9828756 GAATTATTAA
9828766 AAAAAAAT-AAATTC
1 AAAAAAATAAAATTC
*
9828780 AAAAAATTAAAATTC
1 AAAAAAATAAAATTC
9828795 AAAAA
1 AAAAA
9828800 TTCAAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 7 0.39
15 11 0.61
ACGTcount: A:0.74, C:0.06, G:0.00, T:0.21
Consensus pattern (15 bp):
AAAAAAATAAAATTC
Found at i:9828789 original size:24 final size:23
Alignment explanation
Indices: 9828761--9828840 Score: 72
Period size: 24 Copynumber: 3.3 Consensus size: 23
9828751 AAATTGAATT
9828761 ATTAAAAAAAAATAAATTCAAAAA
1 ATTAAAAAAAAA-AAATTCAAAAA
***
9828785 ATTAAAATTCAAAAATTCAAAAAA
1 ATTAAAAAAAAAAAATTC-AAAAA
**
9828809 ATTGAAAAATAAAAAAAAAC-AAAA
1 ATT-AAAAA-AAAAAAATTCAAAAA
9828833 ATTAAAAA
1 ATTAAAAA
9828841 TCTAGAAAAT
Statistics
Matches: 45, Mismatches: 8, Indels: 7
0.75 0.13 0.12
Matches are distributed among these distances:
23 11 0.24
24 24 0.53
25 4 0.09
26 6 0.13
ACGTcount: A:0.74, C:0.05, G:0.01, T:0.20
Consensus pattern (23 bp):
ATTAAAAAAAAAAAATTCAAAAA
Found at i:9828874 original size:15 final size:16
Alignment explanation
Indices: 9828847--9828880 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
9828837 AAAATCTAGA
*
9828847 AAATTATAAAAAATTG
1 AAATTATAAAAAAGTG
9828863 AAATTA-AAAAAAGTG
1 AAATTATAAAAAAGTG
9828878 AAA
1 AAA
9828881 AGTAAGAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.68, C:0.00, G:0.09, T:0.24
Consensus pattern (16 bp):
AAATTATAAAAAAGTG
Found at i:9828930 original size:191 final size:193
Alignment explanation
Indices: 9828604--9828949 Score: 644
Period size: 191 Copynumber: 1.8 Consensus size: 193
9828594 AAAAAATAAT
9828604 AAATTCAAAAAAAATTCAAAAATTAAAAAAAAACAAAAATTAAAAATCTAGAAAATTATAAAAAT
1 AAATTCAAAAAAAATTCAAAAATTAAAAAAAAACAAAAATTAAAAATCTAGAAAATTATAAAAAT
9828669 TGAAAATTAAAAAAAGTGAAAAGTAAGAAAATATAAAAGTTTAAAAAACATGTAGAGAAAATATA
66 TGAAAATTAAAAAAAGTGAAAAGTAAGAAAATATAAAAGTTTAAAAAACATGTAGAGAAAATATA
9828734 AAAAATTTAAATTAGAAAAATTGAATTATTAAAAAAAAATAAATTCAAAAAATTAAAATTCAA
131 AAAAATTTAAATTAGAAAAATTGAATTATTAAAAAAAAATAAATTCAAAAAATTAAAATTCAA
*
9828797 AAATTC-AAAAAAATTGAAAAA-TAAAAAAAAACAAAAATTAAAAATCTAGAAAATTATAAAAAA
1 AAATTCAAAAAAAATTCAAAAATTAAAAAAAAACAAAAATTAAAAATCTAGAAAATTAT-AAAAA
*
9828860 TTG-AAATTAAAAAAAGTGAAAAGTAAGAAAATATAAAAGTTTAAAAAATATGTAGAGAAAATAT
65 TTGAAAATTAAAAAAAGTGAAAAGTAAGAAAATATAAAAGTTTAAAAAACATGTAGAGAAAATAT
9828924 AAAAAATTTAAATTAGAAAAATTGAA
130 AAAAAATTTAAATTAGAAAAATTGAA
9828950 CATTTTTAAA
Statistics
Matches: 150, Mismatches: 2, Indels: 4
0.96 0.01 0.03
Matches are distributed among these distances:
191 122 0.81
192 22 0.15
193 6 0.04
ACGTcount: A:0.66, C:0.03, G:0.07, T:0.23
Consensus pattern (193 bp):
AAATTCAAAAAAAATTCAAAAATTAAAAAAAAACAAAAATTAAAAATCTAGAAAATTATAAAAAT
TGAAAATTAAAAAAAGTGAAAAGTAAGAAAATATAAAAGTTTAAAAAACATGTAGAGAAAATATA
AAAAATTTAAATTAGAAAAATTGAATTATTAAAAAAAAATAAATTCAAAAAATTAAAATTCAA
Found at i:9829188 original size:16 final size:15
Alignment explanation
Indices: 9829167--9829196 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
9829157 AAATTGTTAA
9829167 ATTTTTTATGTTTTAG
1 ATTTTTTAT-TTTTAG
9829183 ATTTTTTATTTTTA
1 ATTTTTTATTTTTA
9829197 TAAGATATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.20, C:0.00, G:0.07, T:0.73
Consensus pattern (15 bp):
ATTTTTTATTTTTAG
Found at i:9833688 original size:37 final size:38
Alignment explanation
Indices: 9833546--9833698 Score: 148
Period size: 38 Copynumber: 4.1 Consensus size: 38
9833536 GAGTTGGAAA
* * * * * *
9833546 TAATAAAA-ATGTACATGCATTCCCTCTTATCCACATTT
1 TAATAAAATA-GTGCATGCATTCCATCTCATGCATATCT
* * * *
9833584 TAATAAAAAAGTGCATGCATTCCATCTCATGTACATTT
1 TAATAAAATAGTGCATGCATTCCATCTCATGCATATCT
* **
9833622 TAATAAAATAATGCATGCATTCTGTCTCATGCATATCT
1 TAATAAAATAGTGCATGCATTCCATCTCATGCATATCT
* *
9833660 TAAT-AGATAGTGCACGCATTCCATCTCATGCATATCT
1 TAATAAAATAGTGCATGCATTCCATCTCATGCATATCT
9833697 TA
1 TA
9833699 TTGGTAGTGT
Statistics
Matches: 97, Mismatches: 17, Indels: 3
0.83 0.15 0.03
Matches are distributed among these distances:
37 30 0.31
38 66 0.68
39 1 0.01
ACGTcount: A:0.34, C:0.21, G:0.10, T:0.35
Consensus pattern (38 bp):
TAATAAAATAGTGCATGCATTCCATCTCATGCATATCT
Found at i:9834124 original size:103 final size:103
Alignment explanation
Indices: 9833940--9834136 Score: 313
Period size: 103 Copynumber: 1.9 Consensus size: 103
9833930 ACCACTTTGT
* * *
9833940 AATAGGACATTACATTTCTTTCATGCACATTTATAAGTAATGAAATTTTTACCATTTGGGGCCTT
1 AATAGGACATTACATTTCTTTCATGCACATTCATAAGTAATAAAATTTTTACCATGTGGGGCCTT
* * * *
9834005 GTACATATGAATATCCATTGTCTTAGGCAACACCTTTC
66 ATACATACGAAAATCCATTGTCTGAGGCAACACCTTTC
* *
9834043 AATAGGACATTACATTTCTTTCATGCACATTCATAAGTGATAAAATTTTTATCATGTGGGGCCTT
1 AATAGGACATTACATTTCTTTCATGCACATTCATAAGTAATAAAATTTTTACCATGTGGGGCCTT
9834108 ATACATACGAAAATCCATTGTCTGAGGCA
66 ATACATACGAAAATCCATTGTCTGAGGCA
9834137 TCTTTGCATT
Statistics
Matches: 85, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
103 85 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (103 bp):
AATAGGACATTACATTTCTTTCATGCACATTCATAAGTAATAAAATTTTTACCATGTGGGGCCTT
ATACATACGAAAATCCATTGTCTGAGGCAACACCTTTC
Found at i:9835644 original size:21 final size:20
Alignment explanation
Indices: 9835618--9835664 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
9835608 AAAAAAAAAG
*
9835618 AAAAAATGGGAA-AAAAGAA
1 AAAAAATGGAAAGAAAAGAA
9835637 CAACAAAA-GGAAAGAAAAGAA
1 -AA-AAAATGGAAAGAAAAGAA
9835658 AAAAAAT
1 AAAAAAT
9835665 AAAAAAGAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
19 4 0.17
20 8 0.35
21 11 0.48
ACGTcount: A:0.74, C:0.04, G:0.17, T:0.04
Consensus pattern (20 bp):
AAAAAATGGAAAGAAAAGAA
Found at i:9836872 original size:41 final size:41
Alignment explanation
Indices: 9836819--9837088 Score: 139
Period size: 41 Copynumber: 6.6 Consensus size: 41
9836809 GAACTTTCAA
* * *
9836819 TTTTTGAAAGAATATAAAGATCTTTAGGCATAATTTTAATT
1 TTTTTGAAAGAATATAAAGACCTCTAGGCAGAATTTTAATT
* * *
9836860 TTTTTGAAAGAATTTCAAGACCTCTAGGTAGAATTTTAATT
1 TTTTTGAAAGAATATAAAGACCTCTAGGCAGAATTTTAATT
* ** * * *
9836901 TTTGTT-AAAGAATTTCAAA-ACCT-TAAACTAAAACCTTCAA--
1 TTT-TTGAAAGAATAT-AAAGACCTCTAGGC-AGAA-TTTTAATT
* * * * *
9836941 GTTTTGAAAGAATTTAAGGACCTTTAGGCAAAATTTTAA-T
1 TTTTTGAAAGAATATAAAGACCTCTAGGCAGAATTTTAATT
* * *
9836981 TTTTTGAAAAGAATTTCAAGACCTTCGAGTG--GAATTTTAA-T
1 TTTTTG-AAAGAATATAAAGACC-TCTAG-GCAGAATTTTAATT
* * * *
9837022 TCTTTGAAAGAATTTCAAA-ACCATCGA-GTAGAATTTTAATT
1 TTTTTGAAAGAATAT-AAAGACC-TCTAGGCAGAATTTTAATT
* * *
9837063 TTTTTTAAAGAATTTCAAGACCTCTA
1 TTTTTGAAAGAATATAAAGACCTCTA
9837089 AGAAAAATAT
Statistics
Matches: 181, Mismatches: 32, Indels: 33
0.74 0.13 0.13
Matches are distributed among these distances:
38 1 0.01
39 8 0.04
40 56 0.31
41 104 0.57
42 11 0.06
43 1 0.01
ACGTcount: A:0.38, C:0.11, G:0.13, T:0.39
Consensus pattern (41 bp):
TTTTTGAAAGAATATAAAGACCTCTAGGCAGAATTTTAATT
Found at i:9836955 original size:81 final size:79
Alignment explanation
Indices: 9836861--9837085 Score: 238
Period size: 81 Copynumber: 2.8 Consensus size: 79
9836851 ATTTTAATTT
*
9836861 TTTTGAAAGAATTTCAAGACCTCTAGGTAGAATTTTAATTTTTGTTAAAGAATTTCAAAACCTTA
1 TTTTGAAAGAATTTCAAGACCTCTAGGTAGAATTTTAATTTTT-TTAAAGAATTTCAAGACCTTA
9836926 AACTAAAACCTTCAAG
65 AACTAAAA-CTTCAAG
* * * *
9836942 TTTTGAAAGAATTT-AAGGACCTTTAGGCAAAATTTTAATTTTTTGAAAAGAATTTCAAGACCTT
1 TTTTGAAAGAATTTCAA-GACCTCTAGGTAGAATTTTAATTTTTT-TAAAGAATTTCAAGACCTT
** * ** * * *
9837006 CGAGTGGAATTTTAAT
64 AAACTAAAACTTCAAG
* *
9837022 TCTTTGAAAGAATTTCAAAACCATCGA-GTAGAATTTTAATTTTTTTTAAAGAATTTCAAGACCT
1 T-TTTGAAAGAATTTCAAGACC-TCTAGGTAGAATTTTAA-TTTTTTTAAAGAATTTCAAGACCT
9837086 CTAAGAAAAA
Statistics
Matches: 119, Mismatches: 19, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
80 8 0.07
81 101 0.85
82 10 0.08
ACGTcount: A:0.38, C:0.12, G:0.13, T:0.38
Consensus pattern (79 bp):
TTTTGAAAGAATTTCAAGACCTCTAGGTAGAATTTTAATTTTTTTAAAGAATTTCAAGACCTTAA
ACTAAAACTTCAAG
Found at i:9837085 original size:122 final size:120
Alignment explanation
Indices: 9836814--9837045 Score: 326
Period size: 122 Copynumber: 1.9 Consensus size: 120
9836804 TTGAAGAACT
* * *
9836814 TTCAATTTTTGAAAGAATATAAAGATCTTTAGGCATAATTTTAATTTTTTTGAAAGAATTTCAAG
1 TTCAATTTTTGAAAGAAT-TTAAGACCTTTAGGCAAAATTTTAATTTTTTTGAAAGAATTTCAAG
* *
9836879 ACCTCTAGGTAGAATTTTAATTTTTGTTAAAGAATTTCAAAACCTTAAACTAAAACC
65 ACCTCGAGGTAGAATTTTAATTTTTG-TAAAGAATTTCAAAACCATAAACTAAAACC
*
9836936 TTCAAGTTTTGAAAGAATTTAAGGACCTTTAGGCAAAATTTTAA-TTTTTTGAAAAGAATTTCAA
1 TTCAATTTTTGAAAGAATTTAA-GACCTTTAGGCAAAATTTTAATTTTTTTG-AAAGAATTTCAA
*
9837000 GACCTTCGA-GTGGAATTTTAATTCTTTG-AAAGAATTTCAAAACCAT
64 GACC-TCGAGGTAGAATTTTAATT-TTTGTAAAGAATTTCAAAACCAT
9837046 CGAGTAGAAT
Statistics
Matches: 99, Mismatches: 7, Indels: 9
0.86 0.06 0.08
Matches are distributed among these distances:
121 27 0.27
122 65 0.66
123 7 0.07
ACGTcount: A:0.38, C:0.11, G:0.12, T:0.38
Consensus pattern (120 bp):
TTCAATTTTTGAAAGAATTTAAGACCTTTAGGCAAAATTTTAATTTTTTTGAAAGAATTTCAAGA
CCTCGAGGTAGAATTTTAATTTTTGTAAAGAATTTCAAAACCATAAACTAAAACC
Found at i:9837107 original size:41 final size:40
Alignment explanation
Indices: 9836850--9837107 Score: 193
Period size: 41 Copynumber: 6.3 Consensus size: 40
9836840 CTTTAGGCAT
* *
9836850 AATTTTAATTTTTTTGAAAGAATTTCAAGACCTCTAGGTAG
1 AATTTTAATTTTTTT-AAAGAATTTCAAGACCTCTAAGTAA
* *
9836891 AATTTTAATTTTTGTTAAAGAATTTCAAAACCT-TAAACTAA
1 AATTTTAATTTTT-TTAAAGAATTTCAAGACCTCT-AAGTAA
* * * * * * *
9836932 AACCTTCAA-GTTTTGAAAGAATTT-AAGGACCTTTAGGCAA
1 AA-TTTTAATTTTTTTAAAGAATTTCAA-GACCTCTAAGTAA
* * **
9836972 AATTTTAATTTTTTGAAAAGAATTTCAAGACCT-TCGAGTGG
1 AATTTTAATTTTTT-TAAAGAATTTCAAGACCTCT-AAGTAA
* * * * *
9837013 AATTTTAATTCTTTGAAAGAATTTCAAAACCATC-GAGTAG
1 AATTTTAATTTTTTTAAAGAATTTCAAGACC-TCTAAGTAA
*
9837053 AATTTTAATTTTTTTTAAAGAATTTCAAGACCTCTAAGAAA
1 AATTTTAA-TTTTTTTAAAGAATTTCAAGACCTCTAAGTAA
* *
9837094 AATATTAAATTTTT
1 AATTTTAATTTTTT
9837108 AAATGATTTT
Statistics
Matches: 171, Mismatches: 33, Indels: 27
0.74 0.14 0.12
Matches are distributed among these distances:
39 6 0.04
40 60 0.35
41 97 0.57
42 8 0.05
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (40 bp):
AATTTTAATTTTTTTAAAGAATTTCAAGACCTCTAAGTAA
Found at i:9839932 original size:13 final size:13
Alignment explanation
Indices: 9839914--9839973 Score: 59
Period size: 13 Copynumber: 4.6 Consensus size: 13
9839904 AACCCCAAAT
9839914 CCTAAACCTAGAC
1 CCTAAACCTAGAC
* *
9839927 CCTAAACTCCA-AA
1 CCTAAAC-CTAGAC
* *
9839940 CCTAAACATAAAC
1 CCTAAACCTAGAC
*
9839953 CCTAACCCTAGAC
1 CCTAAACCTAGAC
9839966 CCTAAACC
1 CCTAAACC
9839974 AACATCCTAA
Statistics
Matches: 36, Mismatches: 9, Indels: 4
0.73 0.18 0.08
Matches are distributed among these distances:
12 1 0.03
13 33 0.92
14 2 0.06
ACGTcount: A:0.42, C:0.40, G:0.03, T:0.15
Consensus pattern (13 bp):
CCTAAACCTAGAC
Found at i:9839954 original size:26 final size:27
Alignment explanation
Indices: 9839902--9839957 Score: 78
Period size: 26 Copynumber: 2.1 Consensus size: 27
9839892 AATAAAATTT
* *
9839902 TAAACCCCAAATCCTAAACCTAGACCC
1 TAAACCCCAAATCCTAAACATAAACCC
*
9839929 TAAACTCCAAA-CCTAAACATAAACCC
1 TAAACCCCAAATCCTAAACATAAACCC
9839955 TAA
1 TAA
9839958 CCCTAGACCC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 16 0.62
27 10 0.38
ACGTcount: A:0.46, C:0.36, G:0.02, T:0.16
Consensus pattern (27 bp):
TAAACCCCAAATCCTAAACATAAACCC
Found at i:9839992 original size:39 final size:38
Alignment explanation
Indices: 9839904--9839997 Score: 100
Period size: 39 Copynumber: 2.4 Consensus size: 38
9839894 TAAAATTTTA
*
9839904 AACCCCAAATCCTAAACCTAGACCCTAAACTCCAAACCT
1 AACCCCAAACCCTAAACCTAGACCCTAAAC-CCAAACCT
* ** *
9839943 AAACATAAACCCTAACCCTAGACCCTAAA-CCAACATCCT
1 AACCCCAAACCCTAAACCTAGACCCTAAACCCAA-A-CCT
*
9839982 AACCCCAAACCTTAAA
1 AACCCCAAACCCTAAA
9839998 ATAATAAACC
Statistics
Matches: 43, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
37 4 0.09
38 1 0.02
39 38 0.88
ACGTcount: A:0.44, C:0.39, G:0.02, T:0.15
Consensus pattern (38 bp):
AACCCCAAACCCTAAACCTAGACCCTAAACCCAAACCT
Found at i:9840036 original size:18 final size:19
Alignment explanation
Indices: 9840013--9840060 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 19
9840003 AAACCCTAAT
9840013 CTAAACCCTAAA-TCAACC-
1 CTAAACCCTAAACT-AACCG
*
9840031 CTAAACCTTAAACTAACCG
1 CTAAACCCTAAACTAACCG
9840050 C-AAACCCTAAA
1 CTAAACCCTAAA
9840061 ACCACTTGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
18 24 0.92
19 2 0.08
ACGTcount: A:0.46, C:0.35, G:0.02, T:0.17
Consensus pattern (19 bp):
CTAAACCCTAAACTAACCG
Found at i:9842115 original size:320 final size:317
Alignment explanation
Indices: 9841522--9842150 Score: 1132
Period size: 320 Copynumber: 2.0 Consensus size: 317
9841512 CAATAGCAAA
* * *
9841522 CAAAATATTTTCACTCAAATTGAATCATTTTTGTTTGTAACCTATCTTTGGTAAGGATCAGAGTG
1 CAAAATATTTCCACTCAAATTGAATAATTTTTGTTTGTAACCTATCCTTGGTAAGGATCAGAGTG
9841587 CCTTATTAGATGGTCTATAATGAACGATGATGTGAGAACAATTTAAGAACATTTAGATCGATAAA
66 CCTTATTAGATGGTCTATAATGAACGATGATGTGAGAACAATTTAAGAACATTTAGATCGATAAA
*
9841652 TCCCAAACTAGCATATAGTGAATCTTAGGGGACTAGCCTTATGTAAAGCTATGCCAAGCTTTTTG
131 TCCCAAACTAACATATAGTGAATCTTAGGGGACTAGCCTTATGTAAAGCTATGCCAAGCTTTTTG
*
9841717 TAAAAATTACCCAAATTAAGAAACATGAGAAATATTTTGGTAAAATTGTAATTAGAGGTAATAAT
196 TAAAAATTACCCAAATTAAGAAACATGAGAAATAATTTGGTAAAATTGTAATTAGAGGTAATAAT
*
9841782 AATACAAATAAAACTAAAATTAAAAAAAAAAAGAAAAACATTATGTTAATAATGTTATGC
261 AATACAAATAAAACTAAAATT--AAAAAAAAA-AAAAACATTATGTCAATAATGTTATGC
* * *
9841842 CAAACTATTTCCACTCAAATTGAATAATTTTTGTTTGTAACCTATCCTTGGTAAGGATTAGGGTG
1 CAAAATATTTCCACTCAAATTGAATAATTTTTGTTTGTAACCTATCCTTGGTAAGGATCAGAGTG
*
9841907 CCTTATTAGTTGGTCTATAATGAACGATGATGTGAGAACAATTTAAGAACATTTAGATCGATAAA
66 CCTTATTAGATGGTCTATAATGAACGATGATGTGAGAACAATTTAAGAACATTTAGATCGATAAA
9841972 TCCCAAACTAACATATAGTGAATCTTAGGGGACTAGCCTTATGTAAAGCTATGCCAAGCTTTTTG
131 TCCCAAACTAACATATAGTGAATCTTAGGGGACTAGCCTTATGTAAAGCTATGCCAAGCTTTTTG
*
9842037 TAAAAATTACCCAAATTAAGAAACATGAGAAATAATTTGGTACAATTGTAATTAGAGGTAATAAT
196 TAAAAATTACCCAAATTAAGAAACATGAGAAATAATTTGGTAAAATTGTAATTAGAGGTAATAAT
9842102 AATACAAATAAAACTAAAATTAAAAAAAAAAAAAACATTATGTCAATAA
261 AATACAAATAAAACTAAAATTAAAAAAAAAAAAAACATTATGTCAATAA
9842151 ATTTTCTTTT
Statistics
Matches: 298, Mismatches: 11, Indels: 3
0.96 0.04 0.01
Matches are distributed among these distances:
317 18 0.06
318 9 0.03
320 271 0.91
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.31
Consensus pattern (317 bp):
CAAAATATTTCCACTCAAATTGAATAATTTTTGTTTGTAACCTATCCTTGGTAAGGATCAGAGTG
CCTTATTAGATGGTCTATAATGAACGATGATGTGAGAACAATTTAAGAACATTTAGATCGATAAA
TCCCAAACTAACATATAGTGAATCTTAGGGGACTAGCCTTATGTAAAGCTATGCCAAGCTTTTTG
TAAAAATTACCCAAATTAAGAAACATGAGAAATAATTTGGTAAAATTGTAATTAGAGGTAATAAT
AATACAAATAAAACTAAAATTAAAAAAAAAAAAAACATTATGTCAATAATGTTATGC
Found at i:9845163 original size:20 final size:21
Alignment explanation
Indices: 9845114--9845165 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 21
9845104 AATGAAAGTG
*
9845114 AAAGAAAGAAAAATATAAAAT
1 AAAGAAGGAAAAATATAAAAT
*
9845135 AAA-ATGGAAAAATA-AAAGA-
1 AAAGAAGGAAAAATATAAA-AT
9845154 AAAGAAGGAAAA
1 AAAGAAGGAAAA
9845166 GAAAGGGATA
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
19 6 0.23
20 17 0.65
21 3 0.12
ACGTcount: A:0.75, C:0.00, G:0.15, T:0.10
Consensus pattern (21 bp):
AAAGAAGGAAAAATATAAAAT
Found at i:9845885 original size:18 final size:19
Alignment explanation
Indices: 9845851--9845886 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
9845841 GTGTTTGGTT
9845851 TTAAAAGAATTCATATTTG
1 TTAAAAGAATTCATATTTG
*
9845870 TTAAAA-AATTCGTATTT
1 TTAAAAGAATTCATATTT
9845887 CATTCGTGAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.42, C:0.06, G:0.08, T:0.44
Consensus pattern (19 bp):
TTAAAAGAATTCATATTTG
Found at i:9846992 original size:14 final size:14
Alignment explanation
Indices: 9846973--9847006 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
9846963 TGTTTCATAG
*
9846973 AAAATGACTTCTGA
1 AAAATGAATTCTGA
9846987 AAAATGAATTCTGA
1 AAAATGAATTCTGA
9847001 AAAATG
1 AAAATG
9847007 TTTACATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.50, C:0.09, G:0.15, T:0.26
Consensus pattern (14 bp):
AAAATGAATTCTGA
Found at i:9847163 original size:10 final size:9
Alignment explanation
Indices: 9847122--9847195 Score: 68
Period size: 9 Copynumber: 8.6 Consensus size: 9
9847112 ATATTAATAT
9847122 AATTATTAA
1 AATTATTAA
9847131 AA-TATTAAA
1 AATTATT-AA
9847140 AATTATT--
1 AATTATTAA
*
9847147 TATTATTAA
1 AATTATTAA
9847156 AATATATTAA
1 AAT-TATTAA
9847166 AATTATT--
1 AATTATTAA
*
9847173 TATTATTAA
1 AATTATTAA
9847182 AATTATTAA
1 AATTATTAA
*
9847191 TATTA
1 AATTA
9847196 AAAAATAATT
Statistics
Matches: 53, Mismatches: 5, Indels: 14
0.74 0.07 0.19
Matches are distributed among these distances:
7 12 0.23
8 4 0.08
9 24 0.45
10 13 0.25
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (9 bp):
AATTATTAA
Found at i:9847174 original size:26 final size:26
Alignment explanation
Indices: 9847123--9847195 Score: 114
Period size: 25 Copynumber: 2.9 Consensus size: 26
9847113 TATTAATATA
*
9847123 ATTATTAAAATAT-TAAAAATTATTT
1 ATTATTAAAATATATTAAAATTATTT
9847148 ATTATTAAAATATATTAAAATTATTT
1 ATTATTAAAATATATTAAAATTATTT
*
9847174 ATTATTAAAAT-TATTAATATTA
1 ATTATTAAAATATATTAAAATTA
9847196 AAAAATAATT
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
25 23 0.51
26 22 0.49
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (26 bp):
ATTATTAAAATATATTAAAATTATTT
Found at i:9847179 original size:16 final size:15
Alignment explanation
Indices: 9847133--9847198 Score: 61
Period size: 15 Copynumber: 4.5 Consensus size: 15
9847123 ATTATTAAAA
9847133 TATTAAAAATTATTTAT
1 TATT-AAAATTA-TTAT
9847150 TATT-AAA--A-TA-
1 TATTAAAATTATTAT
9847160 TATTAAAATTATTTAT
1 TATTAAAATTA-TTAT
*
9847176 TATTAAAATTATTAA
1 TATTAAAATTATTAT
9847191 TATTAAAA
1 TATTAAAA
9847199 AATAATTATA
Statistics
Matches: 42, Mismatches: 1, Indels: 14
0.74 0.02 0.25
Matches are distributed among these distances:
10 4 0.10
11 5 0.12
13 2 0.05
15 16 0.38
16 11 0.26
17 4 0.10
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
TATTAAAATTATTAT
Found at i:9847195 original size:25 final size:25
Alignment explanation
Indices: 9847123--9847195 Score: 112
Period size: 26 Copynumber: 2.9 Consensus size: 25
9847113 TATTAATATA
9847123 ATTATTAAAA-TATTAAAAATTATTT
1 ATTATTAAAATTATT-AAAATTATTT
9847148 ATTATTAAAATATATTAAAATTATTT
1 ATTATTAAAAT-TATTAAAATTATTT
*
9847174 ATTATTAAAATTATTAATATTA
1 ATTATTAAAATTATTAAAATTA
9847196 AAAAATAATT
Statistics
Matches: 45, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
25 20 0.44
26 21 0.47
27 4 0.09
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (25 bp):
ATTATTAAAATTATTAAAATTATTT
Found at i:9847196 original size:15 final size:16
Alignment explanation
Indices: 9847159--9847198 Score: 64
Period size: 15 Copynumber: 2.6 Consensus size: 16
9847149 TTATTAAAAT
9847159 ATATTAAAATTATTTA
1 ATATTAAAATTATTTA
*
9847175 TTATTAAAATTA-TTA
1 ATATTAAAATTATTTA
9847190 ATATTAAAA
1 ATATTAAAA
9847199 AATAATTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 11 0.50
16 11 0.50
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
ATATTAAAATTATTTA
Found at i:9847199 original size:16 final size:16
Alignment explanation
Indices: 9847110--9847199 Score: 52
Period size: 16 Copynumber: 5.8 Consensus size: 16
9847100 TTTTTTCGAA
9847110 TAATATTAATATAATTAT
1 TAATATTAA-A-AATTAT
9847128 TAAAATATTAAAAATTAT
1 T--AATATTAAAAATTAT
*
9847146 T--TATTATTAAA--A-
1 TAATATTA-AAAATTAT
9847158 T-ATATT-AAAATTATT
1 TAATATTAAAAATTA-T
*
9847173 TATTATT-AAAATTAT
1 TAATATTAAAAATTAT
9847188 TAATATTAAAAA
1 TAATATTAAAAA
9847200 ATAATTATAT
Statistics
Matches: 58, Mismatches: 4, Indels: 22
0.69 0.05 0.26
Matches are distributed among these distances:
11 3 0.05
12 1 0.02
13 6 0.10
14 5 0.09
15 11 0.19
16 15 0.26
18 8 0.14
19 1 0.02
20 8 0.14
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
TAATATTAAAAATTAT
Found at i:9847223 original size:36 final size:36
Alignment explanation
Indices: 9847166--9847239 Score: 89
Period size: 36 Copynumber: 2.0 Consensus size: 36
9847156 AATATATTAA
*
9847166 AATTATTTATTATTAAAATTAT-TAATATTAAAAAAT
1 AATTATTTATTAATAAAATTATGTAATA-TAAAAAAT
*
9847202 AATTATATT-TTAATAATATTATGGTAATATAAAAAAT
1 AATTAT-TTATTAATAAAATTAT-GTAATATAAAAAAT
9847239 A
1 A
9847240 CTTAAAATAA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
36 17 0.52
37 11 0.33
38 5 0.15
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (36 bp):
AATTATTTATTAATAAAATTATGTAATATAAAAAAT
Found at i:9847285 original size:15 final size:15
Alignment explanation
Indices: 9847267--9847429 Score: 118
Period size: 15 Copynumber: 10.6 Consensus size: 15
9847257 TATTATTTTT
9847267 TATATTATTTATTAA
1 TATATTATTTATTAA
*
9847282 TATATTATAATATT-A
1 TATATTAT-TTATTAA
* * *
9847297 TTTATTAATATATT-T
1 TATATT-ATTTATTAA
9847312 TATTATTATTTATTAA
1 TA-TATTATTTATTAA
*
9847328 TATATGATTTATTGATA
1 TATATTATTTATT-A-A
*
9847345 TAGTATTATTTGTTAA
1 TA-TATTATTTATTAA
* *
9847361 TAT-TAATATATTAGA
1 TATATTATTTATTA-A
* *
9847376 -ATAATATTTATTTA
1 TATATTATTTATTAA
*
9847390 TAATAATATTTATTAA
1 T-ATATTATTTATTAA
9847406 TATATTATTTATTAA
1 TATATTATTTATTAA
*
9847421 TATAATATT
1 TATATTATT
9847430 ATTTATAAGT
Statistics
Matches: 118, Mismatches: 19, Indels: 22
0.74 0.12 0.14
Matches are distributed among these distances:
14 10 0.08
15 65 0.55
16 30 0.25
17 4 0.03
18 9 0.08
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.56
Consensus pattern (15 bp):
TATATTATTTATTAA
Found at i:9847294 original size:23 final size:23
Alignment explanation
Indices: 9847268--9847332 Score: 112
Period size: 23 Copynumber: 2.8 Consensus size: 23
9847258 ATTATTTTTT
9847268 ATATTATTTATTAATATATTATA
1 ATATTATTTATTAATATATTATA
*
9847291 ATATTATTTATTAATATATTTTA
1 ATATTATTTATTAATATATTATA
*
9847314 TTATTATTTATTAATATAT
1 ATATTATTTATTAATATAT
9847333 GATTTATTGA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (23 bp):
ATATTATTTATTAATATATTATA
Found at i:9847325 original size:10 final size:10
Alignment explanation
Indices: 9847253--9847326 Score: 69
Period size: 10 Copynumber: 6.9 Consensus size: 10
9847243 AAAATAAAAC
9847253 TATTTATTAT
1 TATTTATTAT
*
9847263 TTTTTA-TAT
1 TATTTATTAT
9847272 TATTTATTAAT
1 TATTTATT-AT
*
9847283 ATATTATAATAT
1 -TATT-TATTAT
9847295 TATTTATTAAT
1 TATTTATT-AT
9847306 ATATTTTATTAT
1 -TA-TTTATTAT
9847318 TATTTATTA
1 TATTTATTA
9847327 ATATATGATT
Statistics
Matches: 53, Mismatches: 4, Indels: 14
0.75 0.06 0.20
Matches are distributed among these distances:
9 8 0.15
10 16 0.30
11 10 0.19
12 10 0.19
13 9 0.17
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (10 bp):
TATTTATTAT
Found at i:9847830 original size:57 final size:56
Alignment explanation
Indices: 9847730--9847878 Score: 192
Period size: 57 Copynumber: 2.6 Consensus size: 56
9847720 TATCCGAATT
** *
9847730 CTCTTCAGTGGTGATATTTGAAGTCATTTGCATTTACTTGATGGTGATATCAGAGTC
1 CTCTTCAGTGGTGATA-TCCAAGTCATTTGCATTTACTCGATGGTGATATCAGAGTC
* *
9847787 CT-TTACAGTGGTGATATCCAAGTCATTTGCATTCTCCTCGATGGTGATATCAGAGTT
1 CTCTT-CAGTGGTGATATCCAAGTCATTTGCATT-TACTCGATGGTGATATCAGAGTC
* *
9847844 CTCTTCAATAGTGATATCCAAAGTCATTTGCATTT
1 CTCTTCAGTGGTGATATCC-AAGTCATTTGCATTT
9847879 TTTCGTGGAG
Statistics
Matches: 81, Mismatches: 7, Indels: 8
0.84 0.07 0.08
Matches are distributed among these distances:
56 17 0.21
57 48 0.59
58 16 0.20
ACGTcount: A:0.24, C:0.17, G:0.19, T:0.39
Consensus pattern (56 bp):
CTCTTCAGTGGTGATATCCAAGTCATTTGCATTTACTCGATGGTGATATCAGAGTC
Found at i:9848889 original size:252 final size:256
Alignment explanation
Indices: 9848518--9849170 Score: 760
Period size: 252 Copynumber: 2.6 Consensus size: 256
9848508 GACAAAATAA
* * * * * *
9848518 ATTATTGTGAAAACGT-GTTTTATTTGCAATGACTTTTCAATGTTACTGTTTAAATTATTTTTTT
1 ATTATTGCGAAAACCTAGTTTTATTTGCAATGA-TTTTCAATGTCATTGCTTAATTTA-TTTTTT
* * * * *
9848582 AATATTTTATACAACG--ATAAAAGTTGTTATGAACAA-TTTTATCATATTTGTAACAATAAAAT
64 AATATTTTATACAATGACAAAAAAATTATTATGAA-AATTTTTATTATATTTGTAACAATAAAA-
* * *
9848644 ATTATTATTGTGAAAACTTTTTTTATTTACAATGATTTTTAAATGT-GATTGCTTAATTTATTTT
127 ATTATTATTGCGAAAACTTATTTTATTTACAATGATTTTTAAATATCG-TTGCTTAATTTATTTT
* * * ** *
9848708 TTAATATTTTATATAACT-ACATCAAA-T-TTATGAAAATTTTTATC-TTTGTAAT-ATAAAAA-
191 TGAATATTTTAAACAA-TAACAAAAAATTGTTATGAAAATTTTTATCATTTATAATAATAAAAAG
9848767 TT
255 TT
* * * *
9848769 ATTGTTGCGAAAACC-AGTTTTTTTTCCAATGATTTTTAAATGTCATTGCTTAATTTATTTTTTA
1 ATTATTGCGAAAACCTAGTTTTATTTGCAATGA-TTTTCAATGTCATTGCTTAATTTATTTTTTA
*
9848833 ATATTTTATACAATGACAAAAAAATTATTATGAAAATTTTTATTATATTTGTAACAATAAAAAAT
65 ATATTTTATACAATGACAAAAAAATTATTATGAAAATTTTTATTATATTTGTAACAATAAAAATT
* *
9848898 AGTTATTGCGAAAACTTATTTTATTTGCAATGATTTTTCAATATCGTTGCTTAATTTATTTTTGA
130 A-TTATTGCGAAAACTTATTTTATTTACAATGATTTTTAAATATCGTTGCTTAATTTATTTTTGA
*
9848963 ATATTTTAAACAATGAAGAAAAAATTGTTATGAAAATTTTTATCATATTTATAATAATAAAAAGT
194 ATATTTTAAACAAT-AACAAAAAATTGTTATGAAAATTTTTATC--ATTTATAATAATAAAAAGT
9849028 T
256 T
* *
9849029 ATTATTGTGAAAACCTA-TTTTATTTGCAATGATTTTCAATGTCATTGCTTAATTTATCTTTTAA
1 ATTATTGCGAAAACCTAGTTTTATTTGCAATGATTTTCAATGTCATTGCTTAATTTATTTTTTAA
* * * *
9849093 TATATTTATATAATAACAAAAAAATTATTA-CAAAATTTTTTATTATATTTGTAACGACTAAAAA
66 TAT-TTTATACAATGACAAAAAAATTATTATGAAAA-TTTTTATTATATTTGTAAC-AATAAAAA
*
9849157 TTATTGTTGC-AAAA
128 TTATTATTGCGAAAA
9849171 TAGTATAACA
Statistics
Matches: 342, Mismatches: 41, Indels: 30
0.83 0.10 0.07
Matches are distributed among these distances:
250 21 0.06
251 51 0.15
252 104 0.30
253 6 0.02
254 1 0.00
255 17 0.05
258 7 0.02
259 48 0.14
260 77 0.23
261 10 0.03
ACGTcount: A:0.38, C:0.07, G:0.08, T:0.47
Consensus pattern (256 bp):
ATTATTGCGAAAACCTAGTTTTATTTGCAATGATTTTCAATGTCATTGCTTAATTTATTTTTTAA
TATTTTATACAATGACAAAAAAATTATTATGAAAATTTTTATTATATTTGTAACAATAAAAATTA
TTATTGCGAAAACTTATTTTATTTACAATGATTTTTAAATATCGTTGCTTAATTTATTTTTGAAT
ATTTTAAACAATAACAAAAAATTGTTATGAAAATTTTTATCATTTATAATAATAAAAAGTT
Found at i:9848933 original size:130 final size:129
Alignment explanation
Indices: 9848518--9849161 Score: 697
Period size: 130 Copynumber: 5.0 Consensus size: 129
9848508 GACAAAATAA
* * * * * * *
9848518 ATTATTGTGAAAACGTGTTTTATTTGCAATGACTTTTCAATGTTACTGTTTAAATTATTTTTTTA
1 ATTATTGTGAAAACTTATTTTATTTGCAATGATTTTTCAATGTCATTGCTTAATTTA-TTTTTTA
* * * * *
9848583 ATATTTTATACAACG--ATAAAAGTTGTTATGAACAA-TTTTATCATATTTGTAACAATAAAATA
65 ATATTTTATACAATGACAAAAAAATTATTATGAA-AATTTTTATTATATTTGTAACAATAAAA-A
9848645 TT
128 TT
* * * *
9848647 ATTATTGTGAAAACTTTTTTTATTTACAATGATTTTTAAATGTGATTGCTTAATTTATTTTTTAA
1 ATTATTGTGAAAACTTATTTTATTTGCAATGATTTTTCAATGTCATTGCTTAATTTATTTTTTAA
* ** * *
9848712 TATTTTATATAACT-AC-ATCAAA-T-TTATGAAAA--TTT-TTATCTTTGTAA-TATAAAAATT
66 TATTTTATACAA-TGACAAAAAAATTATTATGAAAATTTTTATTATATTTGTAACAATAAAAATT
* * * * * *
9848769 ATTGTTGCGAAAAC-CAGTTTTTTTTCCAATGATTTTTAAATGTCATTGCTTAATTTATTTTTTA
1 ATTATTGTGAAAACTTA-TTTTATTTGCAATGATTTTTCAATGTCATTGCTTAATTTATTTTTTA
*
9848833 ATATTTTATACAATGACAAAAAAATTATTATGAAAATTTTTATTATATTTGTAACAATAAAAAAT
65 ATATTTTATACAATGACAAAAAAATTATTATGAAAATTTTTATTATATTTGTAACAATAAAAATT
* * * *
9848898 AGTTATTGCGAAAACTTATTTTATTTGCAATGATTTTTCAATATCGTTGCTTAATTTATTTTTGA
1 A-TTATTGTGAAAACTTATTTTATTTGCAATGATTTTTCAATGTCATTGCTTAATTTATTTTTTA
* * * * *
9848963 ATATTTTAAACAATGA-AGAAAAAATTGTTATGAAAATTTTTATCATATTTATAATAATAAAAAG
65 ATATTTTATACAATGACA-AAAAAATTATTATGAAAATTTTTATTATATTTGTAACAATAAAAA-
9849027 TT
128 TT
* *
9849029 ATTATTGTGAAAACCTATTTTATTTGCAATGA-TTTTCAATGTCATTGCTTAATTTATCTTTTAA
1 ATTATTGTGAAAACTTATTTTATTTGCAATGATTTTTCAATGTCATTGCTTAATTTATTTTTTAA
* * * *
9849093 TATATTTATATAATAACAAAAAAATTATTA-CAAAATTTTTTATTATATTTGTAACGACTAAAAA
66 TAT-TTTATACAATGACAAAAAAATTATTATGAAAA-TTTTTATTATATTTGTAAC-AATAAAAA
9849157 TT
128 TT
9849159 ATT
1 ATT
9849162 GTTGCAAAAT
Statistics
Matches: 435, Mismatches: 60, Indels: 39
0.81 0.11 0.07
Matches are distributed among these distances:
121 1 0.00
122 73 0.17
123 10 0.02
124 11 0.03
125 12 0.03
126 2 0.00
127 10 0.02
128 31 0.07
129 95 0.22
130 179 0.41
131 11 0.03
ACGTcount: A:0.38, C:0.07, G:0.08, T:0.47
Consensus pattern (129 bp):
ATTATTGTGAAAACTTATTTTATTTGCAATGATTTTTCAATGTCATTGCTTAATTTATTTTTTAA
TATTTTATACAATGACAAAAAAATTATTATGAAAATTTTTATTATATTTGTAACAATAAAAATT
Found at i:9849545 original size:20 final size:21
Alignment explanation
Indices: 9849509--9849560 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
9849499 CCGAAAATTA
9849509 ATAAAATATTATTTTTTAAAAT
1 ATAAAATATTA-TTTTTAAAAT
*
9849531 ATAAAATATTATTTTTTAAAT
1 ATAAAATATTATTTTTAAAAT
9849552 AT-AAATATT
1 ATAAAATATT
9849561 TAAAAATATC
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 7 0.24
21 11 0.38
22 11 0.38
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
ATAAAATATTATTTTTAAAAT
Found at i:9849551 original size:21 final size:22
Alignment explanation
Indices: 9849509--9849560 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 22
9849499 CCGAAAATTA
9849509 ATAAAATATTATTTTTTAAAAT
1 ATAAAATATTATTTTTTAAAAT
9849531 ATAAAATATTATTTTTT-AAAT
1 ATAAAATATTATTTTTTAAAAT
9849552 AT-AAATATT
1 ATAAAATATT
9849561 TAAAAATATC
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 7 0.23
21 6 0.20
22 17 0.57
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
ATAAAATATTATTTTTTAAAAT
Found at i:9849568 original size:30 final size:30
Alignment explanation
Indices: 9849533--9849589 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
9849523 TTTAAAATAT
* * *
9849533 AAAATATTATTTTTTAAATATAAATATTTA
1 AAAATATCATTATATAAATATAAATATTTA
*
9849563 AAAATATCATTATATAAATATATATAT
1 AAAATATCATTATATAAATATAAATAT
9849590 AAATAAAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.46
Consensus pattern (30 bp):
AAAATATCATTATATAAATATAAATATTTA
Found at i:9853137 original size:46 final size:46
Alignment explanation
Indices: 9852996--9853164 Score: 177
Period size: 46 Copynumber: 3.7 Consensus size: 46
9852986 ATCTCCAAGT
* * * *
9852996 CCTTTCAGTTTGATTTTTAAATTTATTGAGCCTCTAATAAGTAT-AG
1 CCTTTCAGTTTGATTTTTAAAGTTATTGAACCTCTAATGAG-ATGAA
* * * *
9853042 CC-TTCAGTTTGATTTTTAAAGCTGTT-ATCTTCTAATGAGA-G-A
1 CCTTTCAGTTTGATTTTTAAAGTTATTGAACCTCTAATGAGATGAA
*
9853084 CTGCTTTCATTTTGATTTTTAAAGTTATTGAACCTCTAATGAGATGAA
1 C--CTTTCAGTTTGATTTTTAAAGTTATTGAACCTCTAATGAGATGAA
* *
9853132 CCTTTCAATTTGATTTTTAAAGTTGTTGAACCT
1 CCTTTCAGTTTGATTTTTAAAGTTATTGAACCT
9853165 TTAACGAGGA
Statistics
Matches: 102, Mismatches: 14, Indels: 14
0.78 0.11 0.11
Matches are distributed among these distances:
42 1 0.01
43 1 0.01
44 11 0.11
45 42 0.41
46 44 0.43
47 1 0.01
48 2 0.02
ACGTcount: A:0.27, C:0.14, G:0.14, T:0.45
Consensus pattern (46 bp):
CCTTTCAGTTTGATTTTTAAAGTTATTGAACCTCTAATGAGATGAA
Found at i:9853550 original size:5 final size:5
Alignment explanation
Indices: 9853540--9853573 Score: 52
Period size: 5 Copynumber: 6.8 Consensus size: 5
9853530 AACAAAATTA
9853540 AAAAC AAAAC AAAAC AAAAC AAAA- AACAAC AAAA
1 AAAAC AAAAC AAAAC AAAAC AAAAC AA-AAC AAAA
9853574 AAAGCTAGCT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
4 2 0.07
5 23 0.85
6 2 0.07
ACGTcount: A:0.82, C:0.18, G:0.00, T:0.00
Consensus pattern (5 bp):
AAAAC
Found at i:9857310 original size:22 final size:22
Alignment explanation
Indices: 9857285--9857329 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
9857275 ACAAATTTTA
9857285 ATAACTATACACATAAATATAT
1 ATAACTATACACATAAATATAT
* *
9857307 ATAATTATACATATAAATATAT
1 ATAACTATACACATAAATATAT
9857329 A
1 A
9857330 GTATTTATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.56, C:0.09, G:0.00, T:0.36
Consensus pattern (22 bp):
ATAACTATACACATAAATATAT
Found at i:9858033 original size:19 final size:19
Alignment explanation
Indices: 9858009--9858045 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
9857999 TCGTATAATA
9858009 ATTATGGTCATAAAATATT
1 ATTATGGTCATAAAATATT
*
9858028 ATTATGGTCATAGAATAT
1 ATTATGGTCATAAAATAT
9858046 GGTTTCCATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.41, C:0.05, G:0.14, T:0.41
Consensus pattern (19 bp):
ATTATGGTCATAAAATATT
Found at i:9859544 original size:47 final size:47
Alignment explanation
Indices: 9859490--9859582 Score: 177
Period size: 47 Copynumber: 2.0 Consensus size: 47
9859480 TAATAATTCT
9859490 ATGAGTAGGCATTTATTCGACAGTCATACTTTTGAAGGTACATTTTC
1 ATGAGTAGGCATTTATTCGACAGTCATACTTTTGAAGGTACATTTTC
*
9859537 ATGAGTAGGCATTTATTCGATAGTCATACTTTTGAAGGTACATTTT
1 ATGAGTAGGCATTTATTCGACAGTCATACTTTTGAAGGTACATTTT
9859583 ATATTATTAG
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.28, C:0.13, G:0.19, T:0.40
Consensus pattern (47 bp):
ATGAGTAGGCATTTATTCGACAGTCATACTTTTGAAGGTACATTTTC
Found at i:9869279 original size:59 final size:57
Alignment explanation
Indices: 9869093--9869291 Score: 260
Period size: 58 Copynumber: 3.4 Consensus size: 57
9869083 TTGTACAGGA
9869093 AAAATTGATACTTTCAACTTTTTCC-CAAAATATTTTTTAGAAACTTTAATTTCAAGG
1 AAAATTGATACTTTCAAC-TTTTCCTCAAAATATTTTTTAGAAACTTTAATTTCAAGG
* * *
9869150 AGAATTGATACTTTCAACTTTTCCTCGAAAATATTTTTTAGAAACTTTAATTTCGAGA
1 AAAATTGATACTTTCAACTTTTCCTC-AAAATATTTTTTAGAAACTTTAATTTCAAGG
* * * *
9869208 AAAATTGATACTTTTAACTTTTCCTCAAAAAAACATTTTTT-GAAAAC-TTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTC---AAAATATTTTTTAG-AAACTTTAATTTCAAGG
9869267 AAAATTGATACTTTCAACTTTTCCT
1 AAAATTGATACTTTCAACTTTTCCT
9869292 TAAACATTTG
Statistics
Matches: 125, Mismatches: 12, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
56 6 0.05
57 18 0.14
58 53 0.42
59 33 0.26
60 15 0.12
ACGTcount: A:0.36, C:0.14, G:0.08, T:0.42
Consensus pattern (57 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAATATTTTTTAGAAACTTTAATTTCAAGG
Found at i:9871526 original size:45 final size:42
Alignment explanation
Indices: 9871458--9871600 Score: 139
Period size: 42 Copynumber: 3.3 Consensus size: 42
9871448 TTGATCAAAA
* *
9871458 CTCCTCTAAGCAGAGGCTTAACGACTTTGAGAAACATAAATAAAG
1 CTCCTCTAATCAGAGGCTCAACGACTTTGAGAAA-ATAAAT--AG
* * * *
9871503 CTCCTTTAATCGGAGGCTCAACGATTTTTGA-AAAATAAATGG
1 CTCCTCTAATCAGAGGCTCAACGA-CTTTGAGAAAATAAATAG
*
9871545 CTCCTCTAATCAGAGGCACAACGACTTT-AGAAAAATAAATTA-
1 CTCCTCTAATCAGAGGCTCAACGACTTTGAG-AAAATAAA-TAG
*
9871587 CTCCTCTAAACAGA
1 CTCCTCTAATCAGA
9871601 TATAACTATG
Statistics
Matches: 82, Mismatches: 12, Indels: 11
0.78 0.11 0.10
Matches are distributed among these distances:
40 1 0.01
41 3 0.04
42 43 0.52
43 1 0.01
44 6 0.07
45 23 0.28
46 5 0.06
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.25
Consensus pattern (42 bp):
CTCCTCTAATCAGAGGCTCAACGACTTTGAGAAAATAAATAG
Found at i:9875315 original size:2 final size:2
Alignment explanation
Indices: 9875308--9875332 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
9875298 GAGCCATTAT
9875308 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 A
9875333 TGTGAATGGT
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:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:9878660 original size:53 final size:50
Alignment explanation
Indices: 9878571--9878679 Score: 137
Period size: 53 Copynumber: 2.1 Consensus size: 50
9878561 AACCATAAAA
* * *
9878571 TGTAGGCCATGAAATGCCCAACATTGTATTGTTTTTCTTATCGCTTGAAGT
1 TGTAGGCCATGAAATGCCAAACATTGTATTGCTTTTCATATCGCTTGAA-T
* * *
9878622 TGTAGGCCTTGAAATGCCTAAAACATTGTATTGCTTTTCATATCGTTTGTAT
1 TGTAGGCCATGAAATGCC--AAACATTGTATTGCTTTTCATATCGCTTGAAT
9878674 TGTAGG
1 TGTAGG
9878680 AAAGTTTTCT
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
51 17 0.34
52 7 0.14
53 26 0.52
ACGTcount: A:0.24, C:0.16, G:0.20, T:0.40
Consensus pattern (50 bp):
TGTAGGCCATGAAATGCCAAACATTGTATTGCTTTTCATATCGCTTGAAT
Found at i:9882611 original size:17 final size:17
Alignment explanation
Indices: 9882585--9882619 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
9882575 AACCAACCCA
9882585 TTTTTGTTTTACTTTCT
1 TTTTTGTTTTACTTTCT
* *
9882602 TTTTTTTTTTTCTTTCT
1 TTTTTGTTTTACTTTCT
9882619 T
1 T
9882620 AGAGCTAGCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.03, C:0.11, G:0.03, T:0.83
Consensus pattern (17 bp):
TTTTTGTTTTACTTTCT
Found at i:9883519 original size:18 final size:19
Alignment explanation
Indices: 9883480--9883525 Score: 69
Period size: 18 Copynumber: 2.5 Consensus size: 19
9883470 CTAATTTGAT
9883480 ATTTTTAT-TATTTTAATTA
1 ATTTTTATATATTTTAA-TA
9883499 ATTTTTATATATTTTAA-A
1 ATTTTTATATATTTTAATA
9883517 ATTTTTATA
1 ATTTTTATA
9883526 AAATAAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
18 10 0.38
19 8 0.31
20 8 0.31
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (19 bp):
ATTTTTATATATTTTAATA
Found at i:9889175 original size:20 final size:21
Alignment explanation
Indices: 9889142--9889186 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
9889132 TTACTTGGAA
9889142 GTTAGAGATTAGTTACATTTG
1 GTTAGAGATTAGTTACATTTG
**
9889163 GTTAGAG-TTAGTTATTTTTG
1 GTTAGAGATTAGTTACATTTG
9889183 GTTA
1 GTTA
9889187 TACATTCAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 15 0.68
21 7 0.32
ACGTcount: A:0.24, C:0.02, G:0.24, T:0.49
Consensus pattern (21 bp):
GTTAGAGATTAGTTACATTTG
Found at i:9895666 original size:105 final size:105
Alignment explanation
Indices: 9895484--9895694 Score: 377
Period size: 105 Copynumber: 2.0 Consensus size: 105
9895474 AGTTTGTTTA
9895484 TGTTATTTTGTAAAGAAAGAGACAGCTAGGTAAACTCTTTTCAAAGAAGTAATGTGATATTCTTA
1 TGTTATTTTGTAAAGAAAGAGACAGCTAGGTAAACTCTTTTCAAAGAAGTAATGTGATATTCTTA
*
9895549 GATTTAGAGATCGTTAAGCTTGACCAAAACTGACATTGCT
66 GATTTAGAGATCGTCAAGCTTGACCAAAACTGACATTGCT
* *
9895589 TGTTATTTTGTAAAGAAAGAGATAGCTAGGTAAACTTTTTTCAAAGAAGTAATGTGATATTCTTA
1 TGTTATTTTGTAAAGAAAGAGACAGCTAGGTAAACTCTTTTCAAAGAAGTAATGTGATATTCTTA
* *
9895654 GATTTAGGGATCGTCAAGCTTGACCAAAACTGACGTTGCT
66 GATTTAGAGATCGTCAAGCTTGACCAAAACTGACATTGCT
9895694 T
1 T
9895695 AACCCAAGTT
Statistics
Matches: 101, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
105 101 1.00
ACGTcount: A:0.34, C:0.12, G:0.20, T:0.34
Consensus pattern (105 bp):
TGTTATTTTGTAAAGAAAGAGACAGCTAGGTAAACTCTTTTCAAAGAAGTAATGTGATATTCTTA
GATTTAGAGATCGTCAAGCTTGACCAAAACTGACATTGCT
Found at i:9902954 original size:13 final size:14
Alignment explanation
Indices: 9902936--9902978 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
9902926 TAATGAACAC
9902936 AATCTACTTT-TTA
1 AATCTACTTTATTA
*
9902949 AATCTACTTTCTTA
1 AATCTACTTTATTA
* *
9902963 AAGCAACTTTATTA
1 AATCTACTTTATTA
9902977 AA
1 AA
9902979 GTATCTTTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
13 10 0.38
14 16 0.62
ACGTcount: A:0.37, C:0.16, G:0.02, T:0.44
Consensus pattern (14 bp):
AATCTACTTTATTA
Found at i:9908114 original size:6 final size:6
Alignment explanation
Indices: 9908103--9908206 Score: 73
Period size: 6 Copynumber: 17.0 Consensus size: 6
9908093 AAAAGCCCAC
* * * * * * *
9908103 AATTTT AATTTT AATGTT GATTAT GATTTA AATTTA AATTTT AATTTC
1 AATTTT AATTTT AATTTT AATTTT AATTTT AATTTT AATTTT AATTTT
* * * * * *
9908151 AAGTCT AATTTT GGATTTT AATTTT AATTTT AATTGT GATTTT ATTTATT
1 AATTTT AATTTT -AATTTT AATTTT AATTTT AATTTT AATTTT AATT-TT
9908201 AATTTT
1 AATTTT
9908207 GATCAAACGC
Statistics
Matches: 74, Mismatches: 22, Indels: 4
0.74 0.22 0.04
Matches are distributed among these distances:
6 64 0.86
7 10 0.14
ACGTcount: A:0.32, C:0.02, G:0.08, T:0.59
Consensus pattern (6 bp):
AATTTT
Found at i:9908184 original size:25 final size:24
Alignment explanation
Indices: 9908140--9908206 Score: 71
Period size: 25 Copynumber: 2.7 Consensus size: 24
9908130 TTAAATTTAA
* * * *
9908140 ATTTTAATTTCAAGTCTAATTTTGG
1 ATTTTAATTTTAATTTTAATTGT-G
9908165 ATTTTAATTTTAATTTTAATTGTG
1 ATTTTAATTTTAATTTTAATTGTG
*
9908189 ATTTTATTTATTAATTTT
1 ATTTTAATT-TTAATTTT
9908207 GATCAAACGC
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
24 9 0.25
25 27 0.75
ACGTcount: A:0.28, C:0.03, G:0.07, T:0.61
Consensus pattern (24 bp):
ATTTTAATTTTAATTTTAATTGTG
Found at i:9908204 original size:19 final size:18
Alignment explanation
Indices: 9908171--9908209 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
9908161 TTGGATTTTA
9908171 ATTTTAATTTTAATTGTG
1 ATTTTAATTTTAATTGTG
* *
9908189 ATTTTATTTATTAATTTTG
1 ATTTTAATT-TTAATTGTG
9908208 AT
1 AT
9908210 CAAACGCAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.28, C:0.00, G:0.08, T:0.64
Consensus pattern (18 bp):
ATTTTAATTTTAATTGTG
Done.