Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167949.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_21, 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: 19848060
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Warning! 113000 characters in sequence are not A, C, G, or T
File 41 of 138
Found at i:8995270 original size:25 final size:25
Alignment explanation
Indices: 8995224--8995272 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
8995214 GCAAGATAAT
* * *
8995224 CTTTTTTTGGTATTTTATTTATTTA
1 CTTTTTTTGATATGTTAGTTATTTA
*
8995249 CTTTTTTTGATGTGTTAGTTATTT
1 CTTTTTTTGATATGTTAGTTATTT
8995273 TGAGGAGTAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.14, C:0.04, G:0.12, T:0.69
Consensus pattern (25 bp):
CTTTTTTTGATATGTTAGTTATTTA
Found at i:8995454 original size:59 final size:58
Alignment explanation
Indices: 8995315--8995894 Score: 777
Period size: 58 Copynumber: 9.9 Consensus size: 58
8995305 AAAAAAATAA
*
8995315 AAATTTTCAAAGAGAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT
1 AAATTTTCAAA-A-AAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT
* *
8995375 AAAATTTCAAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT
1 AAATTTTCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT
*
8995433 CAAAATTTTC-AAAAAATATTTTT-AGGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAAT
1 --AAATTTTCAAAAAAATATTTTTGAGG-AAAAGTTGAAAGTATCAATTTTCCTTAAAAAT
* *
8995492 ATAA-TTTCAAAAAAGGT-TTTTTCGAGGAAAAATTGAAAGTATCAATTTTCCTTAAAAAT
1 A-AATTTTCAAAAAA-ATATTTTT-GAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT
* * *
8995551 AAATTTTCAAAAAAAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAGAAT
1 AAATTTTC-----AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT
*
8995614 CAAAATTTTC-AAAAAATATTTTT-AGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAT
1 --AAATTTTCAAAAAAATATTTTTGA-GGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT
8995673 AAATTTTC--AAAAATATTTTTAGAGGAAAAGTTGAAAGTATCAATTTTCCTT--AAAT
1 AAATTTTCAAAAAAATATTTTT-GAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT
* * *
8995728 CAATTTTCAAAAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAAT
1 AAATTTTC--AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT
8995788 AAATTTTCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT
1 AAATTTTCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT
* *
8995846 AAATTTTC-AAAAAATATTTTCGGGGAAAAGTTGAAAGTATCAATTTTCC
1 AAATTTTCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCC
8995895 CTACACAAGA
Statistics
Matches: 468, Mismatches: 26, Indels: 55
0.85 0.05 0.10
Matches are distributed among these distances:
55 11 0.02
56 12 0.03
57 80 0.17
58 147 0.31
59 135 0.29
60 31 0.07
63 33 0.07
64 11 0.02
65 8 0.02
ACGTcount: A:0.46, C:0.07, G:0.11, T:0.35
Consensus pattern (58 bp):
AAATTTTCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT
Found at i:9006950 original size:21 final size:22
Alignment explanation
Indices: 9006916--9006959 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 22
9006906 GAAAGATAGA
*
9006916 AGAAGGATTTTTAGGA-AGAGAG
1 AGAAGGATGTTTA-GATAGAGAG
9006938 AGAA-GATGTTTAGATAGAGAG
1 AGAAGGATGTTTAGATAGAGAG
9006959 A
1 A
9006960 TGAGAAATGA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 2 0.10
21 14 0.70
22 4 0.20
ACGTcount: A:0.43, C:0.00, G:0.34, T:0.23
Consensus pattern (22 bp):
AGAAGGATGTTTAGATAGAGAG
Found at i:9008596 original size:18 final size:18
Alignment explanation
Indices: 9008573--9008608 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
9008563 TGTCTCTCTG
9008573 GGGAATGTGTGGAAACCT
1 GGGAATGTGTGGAAACCT
9008591 GGGAATGTGTGGAAACCT
1 GGGAATGTGTGGAAACCT
9008609 TCAAGGGGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.11, G:0.39, T:0.22
Consensus pattern (18 bp):
GGGAATGTGTGGAAACCT
Found at i:9014564 original size:22 final size:24
Alignment explanation
Indices: 9014515--9014564 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
9014505 CATGTGAGAC
** *
9014515 ACGTGATACTAATTTTTGTTTTGG
1 ACGTGATACTAATTGATGTTTTGA
9014539 ACGTGATACTAATTGAT-TTTT-A
1 ACGTGATACTAATTGATGTTTTGA
9014561 ACGT
1 ACGT
9014565 TTGAATTAAC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 4 0.17
23 4 0.17
24 15 0.65
ACGTcount: A:0.26, C:0.10, G:0.18, T:0.46
Consensus pattern (24 bp):
ACGTGATACTAATTGATGTTTTGA
Found at i:9014929 original size:25 final size:24
Alignment explanation
Indices: 9014882--9014929 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 24
9014872 ACTATATTAA
9014882 TTAATAAATTTATAATTTAAATAT
1 TTAATAAATTTATAATTTAAATAT
9014906 TTAA-AAATTTATAAAATTTAAATA
1 TTAATAAATTTAT--AATTTAAATA
9014930 AATTATTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 8 0.36
24 4 0.18
25 10 0.45
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (24 bp):
TTAATAAATTTATAATTTAAATAT
Found at i:9016130 original size:144 final size:142
Alignment explanation
Indices: 9015922--9016530 Score: 439
Period size: 144 Copynumber: 4.2 Consensus size: 142
9015912 ACCTCATAAG
* * * * *
9015922 AGTAAAATTATCAAAATACCATTT-AGGTTATTTTCATAATTTGACAATCTCAAGGTCAGTTTTT
1 AGTAAAATTATCAAAATGCCTTTTAAGGGTATTTTCATAATTTGACCATCTCAAGGTTAGTTTTT
* * **
9015986 CACAAAAAGCTCTAGATCA-AGCCTTAATACTATTCCATGAATTTTGATACATTAAAAACATTGG
66 CACAAAAAGCTCTAAATCATA-CCTTAATACTATTCCATGAATTTTGATGCATTAAAAAC-TTAA
9016050 TTGCATCTTCAAAAA
129 TTGCA-CTTCAAAAA
* * * **
9016065 AGTGAAATTATCAAAATGCCTTTTAAGGGTATTTTCATAATTTGACCTTATTGAGGTTGAG-TTT
1 AGTAAAATTATCAAAATGCCTTTTAAGGGTATTTTCATAATTTGACCATCTCAAGGTT-AGTTTT
** * * ** ** * * * * * * *
9016129 TCATGAAAAGGTTTAGTTCATATTTTAATATTATTTCATAAATTTTAATGTATTGAAAACTTGAT
65 TCACAAAAAGCTCTAAATCATACCTTAATACTATTCCATGAATTTTGATGCATTAAAAACTTAAT
* *
9016194 TACA-TCTCCAAAA
130 TGCACT-TCAAAAA
* * * * * **
9016207 GGTTAAAATTTTCAAAAT-ACTCTTTAGGGGTATTTTCATAATTTGATCATCTTGAGGTTA-TAT
1 AG-TAAAATTATCAAAATGCCT-TTTAAGGGTATTTTCATAATTTGACCATCTCAAGGTTAGT-T
* * * *
9016270 TTTCACAAAAAACTCCAAATCGA-ACCTTAATACTA-T-CATAGGAATTTTGATGTATTAATAAC
63 TTTCACAAAAAGCTCTAAATC-ATACCTTAATACTATTCCAT--GAATTTTGATGCATTAA-AAA
* *
9016332 CTTAATTGCACTTTAAGAAT
124 CTTAATTGCACTTCAA-AAA
* * * * * * * * *
9016352 GGTACAATTATCAAAAAGCCTTTTAAGAGTAATTTCGTAATTTAACCTTCTCAATGTTAGTTTTT
1 AGTAAAATTATCAAAATGCCTTTTAAGGGTATTTTCATAATTTGACCATCTCAAGGTTAGTTTTT
** * * * * *
9016417 CATGAAAAGCTCTAAACCATACTTTTTATATTATTCCATGAATTTTGATGCATTAAAAATTTTAA
66 CACAAAAAGCTCTAAATCATAC-CTTAATACTATTCCATGAATTTTGATGCATTAAAAA-CTTAA
*
9016482 TTGCACCTCAAAAAA
129 TTGCACTTC-AAAAA
9016497 AGTAAAATTATCAAAATGCCCTTTT-A-GGTATTTT
1 AGTAAAATTATCAAAATG-CCTTTTAAGGGTATTTT
9016531 TGTAATTTAG
Statistics
Matches: 355, Mismatches: 88, Indels: 45
0.73 0.18 0.09
Matches are distributed among these distances:
141 4 0.01
142 11 0.03
143 112 0.32
144 153 0.43
145 63 0.18
146 9 0.03
147 3 0.01
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.39
Consensus pattern (142 bp):
AGTAAAATTATCAAAATGCCTTTTAAGGGTATTTTCATAATTTGACCATCTCAAGGTTAGTTTTT
CACAAAAAGCTCTAAATCATACCTTAATACTATTCCATGAATTTTGATGCATTAAAAACTTAATT
GCACTTCAAAAA
Found at i:9019284 original size:4 final size:4
Alignment explanation
Indices: 9019275--9019315 Score: 55
Period size: 4 Copynumber: 9.8 Consensus size: 4
9019265 AATTTAATTT
*
9019275 TTAA TTAA TTAA TTAA TTAA TTAA TTATA TTTA TATAA TTA
1 TTAA TTAA TTAA TTAA TTAA TTAA TTA-A TTAA T-TAA TTA
9019316 TATATTTAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
4 27 0.82
5 6 0.18
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (4 bp):
TTAA
Found at i:9019319 original size:16 final size:15
Alignment explanation
Indices: 9019273--9019353 Score: 67
Period size: 16 Copynumber: 5.3 Consensus size: 15
9019263 AAAATTTAAT
*
9019273 TTTTAATTAATTA-A
1 TTTTAAATAATTATA
*
9019287 TTAATTAATTAATTATA
1 TT--TTAAATAATTATA
*
9019304 -TTTATATAATTATA
1 TTTTAAATAATTATA
*
9019318 TATTTAAATATTTATA
1 T-TTTAAATAATTATA
* *
9019334 TTTTAAAAAATAATA
1 TTTTAAATAATTATA
9019349 TTTTA
1 TTTTA
9019354 TTAATTTCGG
Statistics
Matches: 55, Mismatches: 7, Indels: 9
0.77 0.10 0.13
Matches are distributed among these distances:
14 13 0.24
15 16 0.29
16 25 0.45
17 1 0.02
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
TTTTAAATAATTATA
Found at i:9019853 original size:18 final size:16
Alignment explanation
Indices: 9019815--9019849 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
9019805 ATTAAAGTTA
*
9019815 ATTAATTAAAAAAATT
1 ATTAAATAAAAAAATT
9019831 ATTAAAT-AAAAAATT
1 ATTAAATAAAAAAATT
9019846 ATTA
1 ATTA
9019850 TTAATTAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 12 0.67
16 6 0.33
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (16 bp):
ATTAAATAAAAAAATT
Found at i:9023934 original size:142 final size:141
Alignment explanation
Indices: 9023588--9024011 Score: 767
Period size: 141 Copynumber: 3.0 Consensus size: 141
9023578 CACATAAACT
9023588 ACCTACATTTTTTTTAATTAATTTCAAGTTCATGTAGCATTTTACTTTTTTGGAAGAAGAGAAAA
1 ACCTACATTTTTTTTAATTAATTTCAAGTTCATGTAGCATTTTACTTTTTTGGAAGAAGAGAAAA
9023653 AAATAAAGAACATATTGTTTCTTTTTCTCTCTTTCTCCATGGTAGACAACGAGATTATTTAGAGT
66 AAATAAAGAACATATTGTTTCTTTTTCTCTCTTTCTCCATGGTAGACAACGAGATTATTTAGAGT
9023718 ATGTTGAACAA
131 ATGTTGAACAA
*
9023729 ACCTACATTTTTTTTAATTACTTTCAAGTTCATGTAGCATTTTACTTTTTTGGAAGAAGAGAAAA
1 ACCTACATTTTTTTTAATTAATTTCAAGTTCATGTAGCATTTTACTTTTTTGGAAGAAGAGAAAA
* *
9023794 AAATAAAGAACATATTGTTTCTTTGTCTCTCTTTCTCCATGGTAAACAACGAGATTATTTAGAGT
66 AAATAAAGAACATATTGTTTCTTTTTCTCTCTTTCTCCATGGTAGACAACGAGATTATTTAGAGT
*
9023859 ATGTTAAACAA
131 ATGTTGAACAA
*
9023870 ACCTACATTTTTTTTTAATTAATTTCAAGTTCATGTAGCATTTTACTTTTTTGGAAGAAAAGAAA
1 ACCTACA-TTTTTTTTAATTAATTTCAAGTTCATGTAGCATTTTACTTTTTTGGAAGAAGAGAAA
* * *
9023935 AAAATAAAGAACATATTATTTTTTTTTCTCTCTTTCTCCATCGTAGACAACGAGATTATTTAGAG
65 AAAATAAAGAACATATTGTTTCTTTTTCTCTCTTTCTCCATGGTAGACAACGAGATTATTTAGAG
9024000 TATGTTGAACAA
130 TATGTTGAACAA
9024012 TAAGGTTACG
Statistics
Matches: 270, Mismatches: 12, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
141 144 0.53
142 126 0.47
ACGTcount: A:0.34, C:0.13, G:0.12, T:0.41
Consensus pattern (141 bp):
ACCTACATTTTTTTTAATTAATTTCAAGTTCATGTAGCATTTTACTTTTTTGGAAGAAGAGAAAA
AAATAAAGAACATATTGTTTCTTTTTCTCTCTTTCTCCATGGTAGACAACGAGATTATTTAGAGT
ATGTTGAACAA
Found at i:9027661 original size:20 final size:18
Alignment explanation
Indices: 9027611--9027665 Score: 60
Period size: 20 Copynumber: 3.0 Consensus size: 18
9027601 TGATTGTGGG
9027611 ATTTT-TATTTATTTT-T
1 ATTTTATATTTATTTTGT
*
9027627 ATTTTAGACTTTATTTTGT
1 ATTTTATA-TTTATTTTGT
9027646 ATTTATCATATTTATTTTGT
1 ATTT-T-ATATTTATTTTGT
9027666 GGCTTATTTC
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
16 5 0.16
17 1 0.03
18 8 0.25
19 5 0.16
20 11 0.34
21 2 0.06
ACGTcount: A:0.22, C:0.04, G:0.05, T:0.69
Consensus pattern (18 bp):
ATTTTATATTTATTTTGT
Found at i:9029198 original size:26 final size:24
Alignment explanation
Indices: 9029127--9029199 Score: 67
Period size: 26 Copynumber: 2.9 Consensus size: 24
9029117 ATAATTATCC
*
9029127 AATGATGAAATTTT-TAGAAATTTCA
1 AATGAT-AAATTTTATA-AAATTCCA
*
9029152 AATGATAAATTCCTATAAAATTCCTA
1 AATGATAAATT-TTATAAAATTCC-A
*
9029178 AGTGATAAATTTTATATAAATT
1 AATGATAAATTTTATA-AAATT
9029200 TGTCCCAAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
24 5 0.12
25 17 0.43
26 18 0.45
ACGTcount: A:0.45, C:0.07, G:0.08, T:0.40
Consensus pattern (24 bp):
AATGATAAATTTTATAAAATTCCA
Found at i:9030664 original size:20 final size:20
Alignment explanation
Indices: 9030599--9030670 Score: 92
Period size: 20 Copynumber: 3.5 Consensus size: 20
9030589 TAGGTGTAAA
* *
9030599 TTTGAATTTTTGTGTTTTAGG
1 TTTGAATTTCTG-GGTTTAGG
*
9030620 TTTGAAGTTCTGGGTTTAGG
1 TTTGAATTTCTGGGTTTAGG
9030640 TTTGAATTTCTGGGTTTAGAG
1 TTTGAATTTCTGGGTTTAG-G
9030661 -TTGAATTTCT
1 TTTGAATTTCT
9030671 AAAAACATCT
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
20 35 0.76
21 11 0.24
ACGTcount: A:0.17, C:0.04, G:0.26, T:0.53
Consensus pattern (20 bp):
TTTGAATTTCTGGGTTTAGG
Found at i:9031094 original size:20 final size:21
Alignment explanation
Indices: 9031024--9031101 Score: 65
Period size: 20 Copynumber: 3.8 Consensus size: 21
9031014 GCAAGTTTTT
* *
9031024 TTTA-ATTATTTTATTTTCCA
1 TTTACATTTTTTTATTTTCTA
9031044 TTTACATTTTAATTTATTTT-T-
1 TTTACATTTT--TTTATTTTCTA
*
9031065 TTCTAAATTTTTTTATTTTCTA
1 TT-TACATTTTTTTATTTTCTA
*
9031087 TTT-CATTTTATTATT
1 TTTACATTTTTTTATT
9031102 ATTATTATTA
Statistics
Matches: 47, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
20 22 0.47
21 8 0.17
22 9 0.19
23 8 0.17
ACGTcount: A:0.23, C:0.08, G:0.00, T:0.69
Consensus pattern (21 bp):
TTTACATTTTTTTATTTTCTA
Found at i:9031102 original size:3 final size:3
Alignment explanation
Indices: 9031094--9031122 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
9031084 CTATTTCATT
9031094 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
9031123 CTTTTTCTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:9031104 original size:43 final size:41
Alignment explanation
Indices: 9031019--9031122 Score: 113
Period size: 43 Copynumber: 2.5 Consensus size: 41
9031009 CAATTGCAAG
9031019 TTTTTTTTAATTATTTTATTTTCCATTTACATTTTAATTTA
1 TTTTTTTTAATTATTTTATTTTCCATTTACATTTTAATTTA
* * *
9031060 TTTTTTTCTAAATTTTTTTATTTTCTATTT-CATTTTATTATTA
1 TTTTTTT-T-AATTATTTTATTTTCCATTTACATTTTAAT-TTA
* *
9031103 TTATTATT-ATTATTATTATT
1 TTTTTTTTAATTATT-TTATT
9031123 CTTTTTCTTA
Statistics
Matches: 53, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
40 5 0.09
41 12 0.23
42 10 0.19
43 26 0.49
ACGTcount: A:0.24, C:0.06, G:0.00, T:0.70
Consensus pattern (41 bp):
TTTTTTTTAATTATTTTATTTTCCATTTACATTTTAATTTA
Found at i:9035223 original size:20 final size:19
Alignment explanation
Indices: 9035198--9035245 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
9035188 ACTTGAACTT
*
9035198 TCTTTATCTCTTTTCTTCTC
1 TCTTTATCACTTTT-TTCTC
*
9035218 TCTTTAACCACTTTTTTCTC
1 TCTTT-ATCACTTTTTTCTC
9035238 TCATTTAT
1 TC-TTTAT
9035246 TTTACACTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
20 13 0.57
21 10 0.43
ACGTcount: A:0.12, C:0.27, G:0.00, T:0.60
Consensus pattern (19 bp):
TCTTTATCACTTTTTTCTC
Found at i:9036292 original size:23 final size:24
Alignment explanation
Indices: 9036266--9036314 Score: 75
Period size: 23 Copynumber: 2.1 Consensus size: 24
9036256 TTATTTAGAA
*
9036266 TTTTT-ATATTTTTATA-TTCTAT
1 TTTTTGATATTTTAATATTTCTAT
9036288 TTTTTGATATTTTAATATTTCTAT
1 TTTTTGATATTTTAATATTTCTAT
9036312 TTT
1 TTT
9036315 CTTTTTCTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 5 0.21
23 10 0.42
24 9 0.38
ACGTcount: A:0.22, C:0.04, G:0.02, T:0.71
Consensus pattern (24 bp):
TTTTTGATATTTTAATATTTCTAT
Found at i:9041344 original size:17 final size:17
Alignment explanation
Indices: 9041322--9041362 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
9041312 TTAATTAGAA
9041322 AGATTTGAAGAGTATTC
1 AGATTTGAAGAGTATTC
9041339 AGATTTGAAGAGTATTC
1 AGATTTGAAGAGTATTC
*
9041356 AGTTTTG
1 AGATTTG
9041363 CTTGGGATAG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.32, C:0.05, G:0.24, T:0.39
Consensus pattern (17 bp):
AGATTTGAAGAGTATTC
Found at i:9050482 original size:49 final size:49
Alignment explanation
Indices: 9050428--9051342 Score: 899
Period size: 49 Copynumber: 18.8 Consensus size: 49
9050418 AAAATATGAT
9050428 TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTTCAAGATGAGA
1 TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTTCAAGATGAGA
*
9050477 TTTTAAAATTGTTGAGCCTCTGCTGAGAGGAGCCCTTTTT-AAGATGA-A
1 TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAG-CCTTTTTCAAGATGAGA
* * * * *
9050525 TTTTAAAGTTATTGAGCCTCTGTTAAGAGGAG-CTTTTCCAAAAT-AGA
1 TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTTCAAGATGAGA
* * * *
9050572 TTTTAAAGTTGTGGAGCCTCTGCTGAGAAGAACCCTTTTTCAAGATGA-T
1 TTTTAAAGTTGTTGAGCCTCTGCTGAG-AGGAGCCTTTTTCAAGATGAGA
* * *
9050621 TTTTAAAGTTGTTAAGCCTCTGCTGAGAGAAGCCCTTTTCAAGATGA-A
1 TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTTCAAGATGAGA
* * * * *
9050669 TTTTAAAATTGTTGAGACTCTGTTGAGATGAG-CTTTTTCAAGATGAAA
1 TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTTCAAGATGAGA
* *
9050717 TTTTTAAAGTTGTTGAGCCTCTACTGCTGAGATGAGCCATTTTCAA-A-GAGA
1 -TTTTAAAGTTGTTGAG-C-CT-CTGCTGAGAGGAGCCTTTTTCAAGATGAGA
* * * *
9050768 TTTTAAAAGTTGTTGAGCCTCTGCTGAGATGAGCCTTTTTTAAGATAAAA
1 TTTT-AAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTTCAAGATGAGA
* *
9050818 TTTTTAAAGTTGTTGAGCCTCTACTGATAGGAG-C-TTTTCAAGATGAGA
1 -TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTTCAAGATGAGA
* * **
9050866 TTTTAAAGTTGTTGAGCCTCTACTAAGAAAAG-CTATTTTCAAGATGAGA
1 TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCT-TTTTCAAGATGAGA
* * * *
9050915 TTTTAAAGTTATTGAGCCTCTACTGAGAGAAGCTTTTTTCAAGATGA-A
1 TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTTCAAGATGAGA
* * *
9050963 TTTTTAAAGTTGTTGGGCATCTGCTGAGAAGAGCCTTTTTCAAGATGA-A
1 -TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTTCAAGATGAGA
* * *
9051012 TTTTTAAAATTATTGAGCCTCTGCTGAGGGGAGCCCTTTTT-AAGAT-A-A
1 -TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAG-CCTTTTTCAAGATGAGA
* * * * * *
9051060 TTTTTAAAATTGTTGAGCCTCTGTTAAGAAGAG-CTTTTCCAA-AAGAGA
1 -TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTTCAAGATGAGA
* * * * *
9051108 TTTTAAAGTTGTGGAACCTCTGCTGAGAGAAACCCTTTTTCAAGATGA-T
1 TTTTAAAGTTGTTGAGCCTCTGCTGAGAG-GAGCCTTTTTCAAGATGAGA
* *
9051157 TTTTAAAGTTGTTGAGCCTCTGCTGAAAGGAGCCCTTTTCAAGATG-GA
1 TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTTCAAGATGAGA
* * * * * *
9051205 TTTTAAAATCGTTGAGCCTTTGTTAAGAGGAG--TTTTTCCAA-AAGAGA
1 TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTT-CAAGATGAGA
* * * *
9051252 TTTTAAAGTTGTGGAGCCTCTGCTAAGAGGAACCCTTTTT-AAGATGAAA
1 TTTTAAAGTTGTTGAGCCTCTGCTGAGAGG-AGCCTTTTTCAAGATGAGA
* * * *
9051301 TTTTTAAAGTTGTTAAGCCTCTACTGAGATGAGTCTTTTTCA
1 -TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTTCA
9051343 GATTTTAAAT
Statistics
Matches: 718, Mismatches: 112, Indels: 71
0.80 0.12 0.08
Matches are distributed among these distances:
46 18 0.03
47 126 0.18
48 185 0.26
49 265 0.37
50 82 0.11
51 21 0.03
52 13 0.02
53 8 0.01
ACGTcount: A:0.29, C:0.14, G:0.21, T:0.36
Consensus pattern (49 bp):
TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTTCAAGATGAGA
Found at i:9051339 original size:144 final size:144
Alignment explanation
Indices: 9050426--9051339 Score: 849
Period size: 144 Copynumber: 6.3 Consensus size: 144
9050416 AGAAAATATG
9050426 ATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTTCAAGATGAGATTTTAAAATTGTTG
1 ATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCC-TTTTCAAGATGAGATTTTAAAATTGTTG
* * * * *
9050491 AGCCTCTGCTGAGAGGAGCCCTTTTT-AAGATGAATTTTAAAGTTATTGAGCCTCTGTTAAGAGG
65 AGCCTCTGCTGAGAGGAG--CTTTTTCAAGAAGAATTTTAAAGTTGTGGAGCCTCTGCTGAGAGG
* * * *
9050555 AGCTTTTCCAAAAT-AG
128 ACCTTTTTCAAGATGAA
* * * * *
9050571 A-TTTTAAAGTTGTGGAGCCTCTGCTGAGAAGAACCCTTTTTCAAGATGA-TTTTTAAAGTTGTT
1 ATTTTTAAAGTTGTTGAGCCTCTGCTGAG-AGGAGCC-TTTTCAAGATGAGATTTTAAAATTGTT
* * * * * * * * *
9050634 AAGCCTCTGCTGAGAGAAGCCCTTTTCAAGATGAATTTTAAAATTGTTGAGACTCTGTTGAGATG
64 GAGCCTCTGCTGAGAGGAG-CTTTTTCAAGAAGAATTTTAAAGTTGTGGAGCCTCTGCTGAGAGG
*
9050699 AGCTTTTTCAAGATGAA
128 ACCTTTTTCAAGATGAA
*
9050716 ATTTTTAAAGTTGTTGAGCCTCTACTGCTGAGATGAGCCATTTTCAA-A-GAGATTTTAAAAGTT
1 ATTTTTAAAGTTGTTGAG-C-CT-CTGCTGAGAGGAGCC-TTTTCAAGATGAGATTTTAAAA-TT
* * * * *
9050779 GTTGAGCCTCTGCTGAGATGAGCCTTTTTTAAGATAAAATTTTTAAAGTTGTTGAGCCTCTACTG
61 GTTGAGCCTCTGCTGAGAGGAG-CTTTTTCAAGA-AGAA-TTTTAAAGTTGTGGAGCCTCTGCTG
* * *
9050844 ATAGGAGC-TTTTCAAGATGAG
123 AGAGGACCTTTTTCAAGATGAA
* * ** * * *
9050865 A-TTTTAAAGTTGTTGAGCCTCTACTAAGAAAAGCTATTTTCAAGATGAGATTTTAAAGTTATTG
1 ATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGC-CTTTTCAAGATGAGATTTTAAAATTGTTG
* * * * *
9050929 AGCCTCTACTGAGAGAAGCTTTTTTCAAGATGAATTTTTAAAGTTGTTGG-GCATCTGCTGAGAA
65 AGCCTCTGCTGAGAGGAGC-TTTTTCAAGAAGAA-TTTTAAAGTTG-TGGAGCCTCTGCTGAGAG
9050993 GAGCCTTTTTCAAGATG-A
127 GA-CCTTTTTCAAGATGAA
* * * *
9051011 ATTTTTAAAATTATTGAGCCTCTGCTGAGGGGAGCCCTTTTTAAGAT-A-ATTTTTAAAATTGTT
1 ATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAG-CCTTTTCAAGATGAGA-TTTTAAAATTGTT
* * * * *
9051074 GAGCCTCTGTTAAGAAGAGCTTTTCCAA-AAGAGATTTTAAAGTTGTGGAACCTCTGCTGAGAGA
64 GAGCCTCTGCTGAGAGGAGCTTTTTCAAGAAGA-ATTTTAAAGTTGTGGAGCCTCTGCTGAGAG-
*
9051138 AACCCTTTTTCAAGATG--
127 GA-CCTTTTTCAAGATGAA
* *
9051155 ATTTTTAAAGTTGTTGAGCCTCTGCTGAAAGGAGCCCTTTTCAAGATG-GATTTTAAAATCGTTG
1 ATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAG-CCTTTTCAAGATGAGATTTTAAAATTGTTG
* * * *
9051219 AGCCTTTGTTAAGAGGAG-TTTTTCCAA-AAGAGATTTTAAAGTTGTGGAGCCTCTGCTAAGAGG
65 AGCCTCTGCTGAGAGGAGCTTTTT-CAAGAAGA-ATTTTAAAGTTGTGGAGCCTCTGCTGAGAGG
9051282 AACCCTTTTT-AAGATGAA
128 -A-CCTTTTTCAAGATGAA
* * * *
9051300 ATTTTTAAAGTTGTTAAGCCTCTACTGAGATGAGTCTTTT
1 ATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTT
9051340 TCAGATTTTA
Statistics
Matches: 642, Mismatches: 97, Indels: 61
0.80 0.12 0.08
Matches are distributed among these distances:
143 19 0.03
144 246 0.38
145 120 0.19
146 80 0.12
147 66 0.10
148 61 0.10
149 23 0.04
150 27 0.04
ACGTcount: A:0.29, C:0.14, G:0.21, T:0.36
Consensus pattern (144 bp):
ATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTCAAGATGAGATTTTAAAATTGTTGA
GCCTCTGCTGAGAGGAGCTTTTTCAAGAAGAATTTTAAAGTTGTGGAGCCTCTGCTGAGAGGACC
TTTTTCAAGATGAA
Found at i:9051392 original size:51 final size:50
Alignment explanation
Indices: 9051298--9051396 Score: 128
Period size: 52 Copynumber: 2.0 Consensus size: 50
9051288 TTTTAAGATG
* * * *
9051298 AAATTTTTAAAGTTGTTAAGCCTCTACTGAGATGAGTCTTTTTCAGATTTT
1 AAATTTTTAAAGTTGTCAAGCATCAACTGAGATGAGTCATTTTC-GATTTT
*
9051349 AAATTTTTAAAAGTTGTCAAGCATCAAGTGAGATGAG-CATTTTCGATT
1 AAATTTTT-AAAGTTGTCAAGCATCAACTGAGATGAGTCATTTTCGATT
9051397 AAAAAAAAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
50 4 0.10
51 14 0.33
52 24 0.57
ACGTcount: A:0.31, C:0.11, G:0.17, T:0.40
Consensus pattern (50 bp):
AAATTTTTAAAGTTGTCAAGCATCAACTGAGATGAGTCATTTTCGATTTT
Found at i:9051572 original size:9 final size:9
Alignment explanation
Indices: 9051558--9051667 Score: 52
Period size: 9 Copynumber: 11.9 Consensus size: 9
9051548 ATTTGTCCAG
9051558 ACAAAAAAT
1 ACAAAAAAT
9051567 AC--AAAAT
1 ACAAAAAAT
9051574 ACGAAATACAA-
1 AC-AAA-A-AAT
9051585 A-AAAAAAT
1 ACAAAAAAT
9051593 ATCAAAAATAAT
1 A-C-AAAA-AAT
*
9051605 ACAAAATAT
1 ACAAAAAAT
*
9051614 AAAAAAAAT
1 ACAAAAAAT
*
9051623 ACAAAATAT
1 ACAAAAAAT
9051632 A-ATATAAAAT
1 ACA-A-AAAAT
*
9051642 ATAAAAAAAT
1 A-CAAAAAAT
*
9051652 ATAAAAAAT
1 ACAAAAAAT
9051661 A-AAAAAA
1 ACAAAAAA
9051668 CTAATAGAAC
Statistics
Matches: 80, Mismatches: 7, Indels: 29
0.69 0.06 0.25
Matches are distributed among these distances:
7 9 0.11
8 9 0.11
9 31 0.39
10 16 0.20
11 8 0.10
12 7 0.09
ACGTcount: A:0.75, C:0.06, G:0.01, T:0.17
Consensus pattern (9 bp):
ACAAAAAAT
Found at i:9051610 original size:19 final size:18
Alignment explanation
Indices: 9051560--9051659 Score: 87
Period size: 18 Copynumber: 5.2 Consensus size: 18
9051550 TTGTCCAGAC
*
9051560 AAAAAATACAAAATACGAA
1 AAAAAATACAAAATA-TAA
9051579 ATACAAAA-A-AAAATATCAA
1 A-A-AAAATACAAAATAT-AA
*
9051598 AAATAATACAAAATATAA
1 AAAAAATACAAAATATAA
9051616 AAAAAATACAAAATATAA
1 AAAAAATACAAAATATAA
*
9051634 TATAAAATATAAAAAAATATAA
1 -A-AAAA-AT-ACAAAATATAA
9051656 AAAA
1 AAAA
9051660 TAAAAAAACT
Statistics
Matches: 68, Mismatches: 4, Indels: 17
0.76 0.04 0.19
Matches are distributed among these distances:
17 3 0.04
18 21 0.31
19 18 0.26
20 9 0.13
21 7 0.10
22 10 0.15
ACGTcount: A:0.75, C:0.06, G:0.01, T:0.18
Consensus pattern (18 bp):
AAAAAATACAAAATATAA
Found at i:9051615 original size:12 final size:12
Alignment explanation
Indices: 9051564--9051655 Score: 58
Period size: 12 Copynumber: 8.2 Consensus size: 12
9051554 CCAGACAAAA
*
9051564 AATACAAAATACGA
1 AATACAAAATA--T
* *
9051578 AATACAAAAAAA
1 AATACAAAATAT
9051590 AATATCAAAA-AT
1 AATA-CAAAATAT
9051602 AATAC-AAA-AT
1 AATACAAAATAT
9051612 -ATA-AAAA-A-
1 AATACAAAATAT
9051620 AATACAAAATAT
1 AATACAAAATAT
*
9051632 AATATAAAATAT
1 AATACAAAATAT
9051644 AA-A-AAAATAT
1 AATACAAAATAT
9051654 AA
1 AA
9051656 AAAATAAAAA
Statistics
Matches: 69, Mismatches: 3, Indels: 16
0.78 0.03 0.18
Matches are distributed among these distances:
9 10 0.14
10 18 0.26
11 3 0.04
12 23 0.33
13 5 0.07
14 10 0.14
ACGTcount: A:0.73, C:0.07, G:0.01, T:0.20
Consensus pattern (12 bp):
AATACAAAATAT
Found at i:9051620 original size:30 final size:30
Alignment explanation
Indices: 9051584--9051662 Score: 117
Period size: 30 Copynumber: 2.7 Consensus size: 30
9051574 ACGAAATACA
9051584 AAAAAAAATATCAAAAATAATACAAAATAT
1 AAAAAAAATATCAAAAATAATACAAAATAT
*
9051614 AAAAAAAATA-CAAAATATAATATAAAATAT
1 AAAAAAAATATCAAAA-ATAATACAAAATAT
*
9051644 -AAAAAAATATAAAAAATAA
1 AAAAAAAATATCAAAAATAA
9051663 AAAAACTAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 5
0.87 0.04 0.10
Matches are distributed among these distances:
29 18 0.40
30 27 0.60
ACGTcount: A:0.76, C:0.04, G:0.00, T:0.20
Consensus pattern (30 bp):
AAAAAAAATATCAAAAATAATACAAAATAT
Found at i:9051623 original size:49 final size:47
Alignment explanation
Indices: 9051569--9051667 Score: 126
Period size: 49 Copynumber: 2.1 Consensus size: 47
9051559 CAAAAAATAC
* *
9051569 AAAATACGAAATACAAAAAAAAATATCAAAAATAATACAAAATATAAAA
1 AAAATACAAAATACAAAAAAAAATAT-AAAAA-AATACAAAAAATAAAA
* * * *
9051618 AAAATACAAAATATAATATAAAATATAAAAAAATATAAAAAATAAAA
1 AAAATACAAAATACAAAAAAAAATATAAAAAAATACAAAAAATAAAA
9051665 AAA
1 AAA
9051668 CTAATAGAAC
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
47 17 0.39
48 5 0.11
49 22 0.50
ACGTcount: A:0.76, C:0.05, G:0.01, T:0.18
Consensus pattern (47 bp):
AAAATACAAAATACAAAAAAAAATATAAAAAAATACAAAAAATAAAA
Found at i:9051636 original size:42 final size:40
Alignment explanation
Indices: 9051577--9051659 Score: 114
Period size: 42 Copynumber: 2.0 Consensus size: 40
9051567 ACAAAATACG
9051577 AAATACAAAAAAAAATATCAAAA-ATAATACAAAATATAAAAA
1 AAATACAAAAAAAAATAT-AAAATATAA-A-AAAATATAAAAA
* *
9051619 AAATACAAAATATAATATAAAATATAAAAAAATATAAAAA
1 AAATACAAAAAAAAATATAAAATATAAAAAAATATAAAAA
9051659 A
1 A
9051660 TAAAAAAACT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
40 13 0.34
41 5 0.13
42 20 0.53
ACGTcount: A:0.76, C:0.05, G:0.00, T:0.19
Consensus pattern (40 bp):
AAATACAAAAAAAAATATAAAATATAAAAAAATATAAAAA
Found at i:9058079 original size:25 final size:25
Alignment explanation
Indices: 9058033--9058080 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
9058023 TAATTATTGT
* **
9058033 AAAATTTAAATTTAAATTAATAATA
1 AAAATATAAATTTAAAAAAATAATA
*
9058058 AAAATATATATTTAAAAAAATAA
1 AAAATATAAATTTAAAAAAATAA
9058081 CGATAATGAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (25 bp):
AAAATATAAATTTAAAAAAATAATA
Found at i:9059155 original size:42 final size:42
Alignment explanation
Indices: 9059063--9059151 Score: 117
Period size: 42 Copynumber: 2.1 Consensus size: 42
9059053 TAACTTGTTT
* *
9059063 TATTTTAACATCTCATTCGCAAATAATTGATTCATGAACTTA
1 TATTTTAATATCTCATTCACAAATAATTGATTCATGAACTTA
* * * *
9059105 TATTTTAATATCTCATTTACGAATAATTGATTTATGAATTTA
1 TATTTTAATATCTCATTCACAAATAATTGATTCATGAACTTA
9059147 -ATTTT
1 TATTTT
9059152 TAATTATTTA
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
41 5 0.12
42 36 0.88
ACGTcount: A:0.35, C:0.11, G:0.07, T:0.47
Consensus pattern (42 bp):
TATTTTAATATCTCATTCACAAATAATTGATTCATGAACTTA
Found at i:9059531 original size:3 final size:3
Alignment explanation
Indices: 9059523--9059563 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
9059513 ATGTGGATCT
9059523 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
9059564 CTCATATTAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:9060474 original size:22 final size:22
Alignment explanation
Indices: 9060446--9060496 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 22
9060436 ATTTTAAAAT
* * *
9060446 TTTAATATAAATTATATATAAA
1 TTTAATATAAAATAAAAATAAA
9060468 TTTAATA-AAAATAAAAATAAA
1 TTTAATATAAAATAAAAATAAA
*
9060489 TTTTATAT
1 TTTAATAT
9060497 TTATTGTGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 17 0.71
22 7 0.29
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (22 bp):
TTTAATATAAAATAAAAATAAA
Found at i:9060535 original size:12 final size:12
Alignment explanation
Indices: 9060508--9060544 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
9060498 TATTGTGTTA
*
9060508 ATATAAA-TAAT
1 ATATAAATTATT
9060519 ATATAAATTATT
1 ATATAAATTATT
9060531 ATATAAATTATT
1 ATATAAATTATT
9060543 AT
1 AT
9060545 GAATTTTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 7 0.29
12 17 0.71
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (12 bp):
ATATAAATTATT
Found at i:9061894 original size:19 final size:17
Alignment explanation
Indices: 9061816--9061896 Score: 54
Period size: 18 Copynumber: 4.4 Consensus size: 17
9061806 CACCTTCCTC
* *
9061816 TTTTTCTTTTTTTTCCT
1 TTTTTTTTTTTTTTGCT
*
9061833 TTTCTTTGTTTTTTTAAAGCT
1 TTT-TTT-TTTTTTT--TGCT
*
9061854 TTTGTTTTTTTTTTTGGGT
1 TTT-TTTTTTTTTTT-GCT
*
9061873 TTTTTTTTTACTTTTGCT
1 TTTTTTTTT-TTTTTGCT
9061891 TTTTTT
1 TTTTTT
9061897 ATTAAATAAA
Statistics
Matches: 50, Mismatches: 8, Indels: 11
0.72 0.12 0.16
Matches are distributed among these distances:
17 3 0.06
18 16 0.32
19 16 0.32
20 7 0.14
21 8 0.16
ACGTcount: A:0.05, C:0.09, G:0.09, T:0.78
Consensus pattern (17 bp):
TTTTTTTTTTTTTTGCT
Found at i:9063563 original size:37 final size:37
Alignment explanation
Indices: 9063519--9063644 Score: 105
Period size: 37 Copynumber: 3.3 Consensus size: 37
9063509 TTGGTCTTTC
9063519 TTAATTAATTATAAGCAATTAATATAGAGGATTCGGA
1 TTAATTAATTATAAGCAATTAATATAGAGGATTCGGA
* * ** **
9063556 TTAATTAATTA-AA-CTTACCTTAATCATTGATTTAGTCTC-TC
1 TTAATTAATTATAAGC--A-ATTAAT-ATAGA-GGA-T-TCGGA
*
9063597 TTAATTAATTATAAGCAATTAATACAGAGGATTCGGA
1 TTAATTAATTATAAGCAATTAATATAGAGGATTCGGA
9063634 TTAATTAATTA
1 TTAATTAATTA
9063645 AACTTATGTA
Statistics
Matches: 66, Mismatches: 13, Indels: 20
0.67 0.13 0.20
Matches are distributed among these distances:
35 1 0.02
36 4 0.06
37 24 0.36
38 6 0.09
39 7 0.11
40 6 0.09
41 13 0.20
42 4 0.06
43 1 0.02
ACGTcount: A:0.40, C:0.10, G:0.11, T:0.40
Consensus pattern (37 bp):
TTAATTAATTATAAGCAATTAATATAGAGGATTCGGA
Found at i:9063599 original size:78 final size:78
Alignment explanation
Indices: 9063497--9063650 Score: 281
Period size: 78 Copynumber: 2.0 Consensus size: 78
9063487 CTAAAATTAA
* * *
9063497 TTAATCATTGATTTGGTCTTTCTTAATTAATTATAAGCAATTAATATAGAGGATTCGGATTAATT
1 TTAATCATTGATTTAGTCTCTCTTAATTAATTATAAGCAATTAATACAGAGGATTCGGATTAATT
9063562 AATTAAACTTACC
66 AATTAAACTTACC
9063575 TTAATCATTGATTTAGTCTCTCTTAATTAATTATAAGCAATTAATACAGAGGATTCGGATTAATT
1 TTAATCATTGATTTAGTCTCTCTTAATTAATTATAAGCAATTAATACAGAGGATTCGGATTAATT
9063640 AATTAAACTTA
66 AATTAAACTTA
9063651 TGTAGCCATG
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
78 73 1.00
ACGTcount: A:0.37, C:0.10, G:0.11, T:0.42
Consensus pattern (78 bp):
TTAATCATTGATTTAGTCTCTCTTAATTAATTATAAGCAATTAATACAGAGGATTCGGATTAATT
AATTAAACTTACC
Found at i:9067274 original size:22 final size:22
Alignment explanation
Indices: 9067246--9067288 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
9067236 CCCCTTTTCC
9067246 TTAATTTGAATCATATGAAAAT
1 TTAATTTGAATCATATGAAAAT
* *
9067268 TTAATTTGTATCATGTGAAAA
1 TTAATTTGAATCATATGAAAA
9067289 GTCGTCTCTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.42, C:0.05, G:0.12, T:0.42
Consensus pattern (22 bp):
TTAATTTGAATCATATGAAAAT
Found at i:9067933 original size:18 final size:18
Alignment explanation
Indices: 9067912--9067947 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
9067902 TCAAAAGCTA
9067912 AAGCAGAATGACTCCTTT
1 AAGCAGAATGACTCCTTT
**
9067930 AAGCAGTGTGACTCCTTT
1 AAGCAGAATGACTCCTTT
9067948 CATATAGAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (18 bp):
AAGCAGAATGACTCCTTT
Found at i:9069073 original size:18 final size:18
Alignment explanation
Indices: 9069050--9069085 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
9069040 GTCTACTGCT
9069050 GAAACTGGATCAAATGCA
1 GAAACTGGATCAAATGCA
9069068 GAAACTGGATCAAATGCA
1 GAAACTGGATCAAATGCA
9069086 ATTGACATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.17, G:0.22, T:0.17
Consensus pattern (18 bp):
GAAACTGGATCAAATGCA
Found at i:9076131 original size:14 final size:14
Alignment explanation
Indices: 9076105--9076147 Score: 61
Period size: 14 Copynumber: 3.0 Consensus size: 14
9076095 CATGTTTTTT
9076105 AATATATATTTAAAA
1 AATAT-TATTTAAAA
9076120 AA-ATTAATTTAAAA
1 AATATT-ATTTAAAA
9076134 AATATTATTTAAAA
1 AATATTATTTAAAA
9076148 TTTTAATTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
13 1 0.04
14 20 0.77
15 5 0.19
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
AATATTATTTAAAA
Found at i:9076168 original size:32 final size:32
Alignment explanation
Indices: 9076123--9076192 Score: 79
Period size: 32 Copynumber: 2.2 Consensus size: 32
9076113 TTTAAAAAAA
* *
9076123 TTAATTTAAAAAA-TATTATTTAAAATTTTAAT
1 TTAATTTAAAAAATTA-TATTAAAAATTTAAAT
**
9076155 TTAATTTTTAAAATTATATTAAAAATTTAAAT
1 TTAATTTAAAAAATTATATTAAAAATTTAAAT
*
9076187 TAAATT
1 TTAATT
9076193 CGTGTTATTT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
32 30 0.94
33 2 0.06
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (32 bp):
TTAATTTAAAAAATTATATTAAAAATTTAAAT
Found at i:9077892 original size:143 final size:143
Alignment explanation
Indices: 9077634--9077918 Score: 552
Period size: 143 Copynumber: 2.0 Consensus size: 143
9077624 GAGAAAAAAA
*
9077634 GTTTTCCTAGTTCTTCAGTCAACTCAAAGATTGTCATTCTTGAAACTAAGAAAACAAGATTGATT
1 GTTTTACTAGTTCTTCAGTCAACTCAAAGATTGTCATTCTTGAAACTAAGAAAACAAGATTGATT
*
9077699 GTATATATGACATCTTTATTATAGCATGAATTAATTCTCATGCATCATCAATAAAGCTGGGAATT
66 GTATATATGACATCTCTATTATAGCATGAATTAATTCTCATGCATCATCAATAAAGCTGGGAATT
9077764 ACTACGTGCCAAG
131 ACTACGTGCCAAG
9077777 GTTTTACTAGTTCTTCAGTCAACTCAAAGATTGTCATTCTTGAAACTAAGAAAACAAGATTGATT
1 GTTTTACTAGTTCTTCAGTCAACTCAAAGATTGTCATTCTTGAAACTAAGAAAACAAGATTGATT
9077842 GTATATATGACATCTCTATTATAGCATGAATTAATTCTCATGCATCATCAATAAAGCTGGGAATT
66 GTATATATGACATCTCTATTATAGCATGAATTAATTCTCATGCATCATCAATAAAGCTGGGAATT
9077907 ACTACGTGCCAA
131 ACTACGTGCCAA
9077919 TTTTGGTGGA
Statistics
Matches: 140, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
143 140 1.00
ACGTcount: A:0.35, C:0.17, G:0.14, T:0.34
Consensus pattern (143 bp):
GTTTTACTAGTTCTTCAGTCAACTCAAAGATTGTCATTCTTGAAACTAAGAAAACAAGATTGATT
GTATATATGACATCTCTATTATAGCATGAATTAATTCTCATGCATCATCAATAAAGCTGGGAATT
ACTACGTGCCAAG
Found at i:9086924 original size:21 final size:21
Alignment explanation
Indices: 9086899--9086939 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
9086889 ATATAATAAG
9086899 TATAAGTGGAT-TGAAATTAAA
1 TATAA-TGGATGTGAAATTAAA
*
9086920 TATAATGTATGTGAAATTAA
1 TATAATGGATGTGAAATTAA
9086940 GATTTTACCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.46, C:0.00, G:0.17, T:0.37
Consensus pattern (21 bp):
TATAATGGATGTGAAATTAAA
Found at i:9100925 original size:14 final size:14
Alignment explanation
Indices: 9100881--9100933 Score: 69
Period size: 14 Copynumber: 4.1 Consensus size: 14
9100871 TATATAATAA
9100881 TATAATACAGAAAT
1 TATAATACAGAAAT
9100895 TATAA-A-A-AAA-
1 TATAATACAGAAAT
*
9100905 AATAATACAGAAAT
1 TATAATACAGAAAT
9100919 TATAATACAGAAAT
1 TATAATACAGAAAT
9100933 T
1 T
9100934 TAAAATTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
10 4 0.12
11 4 0.12
12 2 0.06
13 4 0.12
14 19 0.58
ACGTcount: A:0.62, C:0.06, G:0.06, T:0.26
Consensus pattern (14 bp):
TATAATACAGAAAT
Found at i:9102699 original size:22 final size:22
Alignment explanation
Indices: 9102656--9102699 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
9102646 AGCATATTAC
** *
9102656 TTATAATTTTTTTGTTATAATA
1 TTATAATTTTTTAATTAAAATA
9102678 TTATAATTTTTTAATTAAAATA
1 TTATAATTTTTTAATTAAAATA
9102700 AAATTTTATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (22 bp):
TTATAATTTTTTAATTAAAATA
Found at i:9103900 original size:21 final size:21
Alignment explanation
Indices: 9103874--9103924 Score: 70
Period size: 20 Copynumber: 2.4 Consensus size: 21
9103864 AATTTTTTTC
9103874 TTTTTTTAAAAATA-TTT-AA
1 TTTTTTTAAAAATATTTTAAA
9103893 TATTTTTTAAAAATATTTTAAA
1 T-TTTTTTAAAAATATTTTAAA
9103915 TTTTCTTTAA
1 TTTT-TTTAA
9103925 TATGAGCCCA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
19 1 0.04
20 13 0.46
21 6 0.21
22 8 0.29
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (21 bp):
TTTTTTTAAAAATATTTTAAA
Found at i:9104347 original size:28 final size:28
Alignment explanation
Indices: 9104281--9104349 Score: 79
Period size: 28 Copynumber: 2.5 Consensus size: 28
9104271 GTTATTATTT
*
9104281 TTAATTTTTGAAAATTTTAATTAATTAAA
1 TTAATTTTTTAAAATTTTAATTAA-TAAA
* *
9104310 TT-ATTATTTAACATTTTAATATAA-AAA
1 TTAATTTTTTAAAATTTTAAT-TAATAAA
9104337 TTAATTTTTTAAA
1 TTAATTTTTTAAA
9104350 CTTAATTGGG
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
27 5 0.15
28 23 0.70
29 5 0.15
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.52
Consensus pattern (28 bp):
TTAATTTTTTAAAATTTTAATTAATAAA
Found at i:9112274 original size:134 final size:134
Alignment explanation
Indices: 9111935--9112274 Score: 314
Period size: 134 Copynumber: 2.6 Consensus size: 134
9111925 TATACAGATG
* * * * * * *
9111935 CCACCAAAGCAACGACGTTTTTCTAAAAAAAAT-C-ACTAAATTAGCGACGTTTCAAAGATACAA
1 CCACCAAAGCAACAACATTTTTCTCATAAAAATGCAACTAAATTAGCGACATTTGAAAGACACAA
* ** * * * *
9111998 ACGACACTATTATAGA-G-GCATTTC-AGATATAAATGCCTCTAAAGTAGTGGCGGTTTAAGTTA
66 ACGCCGTTAATATAGATGTG-TTTTCGA-ATACAAATGCCTCTAAAGTAGCGGCGGTTTAAGTTA
**
9112060 CAAATG
129 CAAACA
** * * * * * *
9112066 CCATTAAAGCAACGACGTTTTTCTCATAAAAATGCCATTAAATTAGTGACATTTGAAAGATACAA
1 CCACCAAAGCAACAACATTTTTCTCATAAAAATGCAACTAAATTAGCGACATTTGAAAGACACAA
** *
9112131 ACGTTGTTAATATAGATGTGTTTTCGAATACAAATGCCTCTAAAGTAGCGGCGTTTTTAA-TTAC
66 ACGCCGTTAATATAGATGTGTTTTCGAATACAAATGCCTCTAAAGTAGCGGCG-GTTTAAGTTAC
9112195 AAACA
130 AAACA
* * * * * *
9112200 CTACCAAAGTAACAACATTTTTCTCATAAAAATGCAACTAATTTAGCGGCGTTTGAAAGACAGAA
1 CCACCAAAGCAACAACATTTTTCTCATAAAAATGCAACTAAATTAGCGACATTTGAAAGACACAA
9112265 ACGCCGTTAA
66 ACGCCGTTAA
9112275 AATGGTGGCA
Statistics
Matches: 168, Mismatches: 35, Indels: 9
0.79 0.17 0.04
Matches are distributed among these distances:
131 29 0.17
132 1 0.01
133 36 0.21
134 95 0.57
135 7 0.04
ACGTcount: A:0.39, C:0.18, G:0.15, T:0.28
Consensus pattern (134 bp):
CCACCAAAGCAACAACATTTTTCTCATAAAAATGCAACTAAATTAGCGACATTTGAAAGACACAA
ACGCCGTTAATATAGATGTGTTTTCGAATACAAATGCCTCTAAAGTAGCGGCGGTTTAAGTTACA
AACA
Found at i:9117666 original size:3 final size:3
Alignment explanation
Indices: 9117653--9117767 Score: 75
Period size: 3 Copynumber: 40.0 Consensus size: 3
9117643 TACTATACTA
* * *
9117653 TAT TA- TAT TAT TAT ATGT TAT ATAT TA- TAT TAT TAT TA- CAT TAC
1 TAT TAT TAT TAT TAT -TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT
* * *
9117697 TATT TAT TA- TAT TAT T-T TA- TAT TA- AAT TA- TAT TAT TAC TAC
1 TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
9117738 TAT TAT TAC TAT TAT TAC TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
9117768 ATTCTTTCAT
Statistics
Matches: 87, Mismatches: 14, Indels: 22
0.71 0.11 0.18
Matches are distributed among these distances:
2 14 0.16
3 66 0.76
4 7 0.08
ACGTcount: A:0.36, C:0.05, G:0.01, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:9117675 original size:7 final size:7
Alignment explanation
Indices: 9117651--9117769 Score: 64
Period size: 8 Copynumber: 15.4 Consensus size: 7
9117641 ATTACTATAC
9117651 TATATTA
1 TATATTA
9117658 TATTATTA
1 TA-TATTA
*
9117666 TATGTTA
1 TATATTA
9117673 TATATTA
1 TATATTA
9117680 TATTATTA
1 TA-TATTA
*
9117688 TTACATTA
1 -TATATTA
9117696 CTATTTATTA
1 -TA--TATTA
*
9117706 TATTATTT
1 TA-TATTA
9117714 TATATTA
1 TATATTA
9117721 -A-ATTA
1 TATATTA
9117726 TATTATTA
1 TA-TATTA
9117734 CTACTATTA
1 -TA-TATTA
9117743 TTACTATTA
1 -TA-TATTA
9117752 TTACTATTA
1 -TA-TATTA
9117761 T-TATTA
1 TATATTA
9117767 TAT
1 TAT
9117770 TCTTTCATTT
Statistics
Matches: 93, Mismatches: 9, Indels: 20
0.76 0.07 0.16
Matches are distributed among these distances:
5 4 0.04
6 8 0.09
7 19 0.20
8 30 0.32
9 28 0.30
10 4 0.04
ACGTcount: A:0.36, C:0.05, G:0.01, T:0.58
Consensus pattern (7 bp):
TATATTA
Found at i:9117691 original size:46 final size:45
Alignment explanation
Indices: 9117641--9117770 Score: 129
Period size: 46 Copynumber: 2.7 Consensus size: 45
9117631 CTAGTAGTAC
*
9117641 ATTACTATACTA-TATTATATTATTATATGTTATATATTATATTATT
1 ATTACTATACTATTATTATATTATTATATATTA-A-ATTATATTATT
*
9117687 ATTAC-ATTACTATTTATTATATTATTTTATATTAAATTATATTATT
1 ATTACTA-TACTA-TTATTATATTATTATATATTAAATTATATTATT
*
9117733 ACTACTATTATTACTATTATTACTATTATTATTATATT
1 A-T--TACTA-TACTATTATTA-TATTATTA-TATATT
9117771 CTTTCATTTC
Statistics
Matches: 71, Mismatches: 4, Indels: 13
0.81 0.05 0.15
Matches are distributed among these distances:
45 1 0.01
46 22 0.31
47 2 0.03
48 18 0.25
49 8 0.11
50 14 0.20
51 6 0.08
ACGTcount: A:0.36, C:0.06, G:0.01, T:0.57
Consensus pattern (45 bp):
ATTACTATACTATTATTATATTATTATATATTAAATTATATTATT
Found at i:9117718 original size:58 final size:65
Alignment explanation
Indices: 9117646--9117770 Score: 147
Period size: 58 Copynumber: 2.0 Consensus size: 65
9117636 AGTACATTAC
* *
9117646 TATACTATATTATATT-ATTATA-TGTTA-TA-TATTA-TATTATTATTAC-ATTACTATT-TAT
1 TATACTATATTATATTAATTATATTATTACTACTATTATTACTATTATTACTATTACTATTATAT
* * *
9117704 TATATTATTTTATATTAAATTATATTATTACTACTATTATTACTATTATTACTATTATTATTATA
1 TATACTATATTATATT-AATTATATTATTACTACTATTATTACTATTATTACTATTACTATTATA
9117769 T
65 T
9117770 T
1 T
9117771 CTTTCATTTC
Statistics
Matches: 54, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
58 14 0.26
60 6 0.11
61 4 0.07
62 2 0.04
63 5 0.09
64 11 0.20
65 8 0.15
66 4 0.07
ACGTcount: A:0.36, C:0.06, G:0.01, T:0.58
Consensus pattern (65 bp):
TATACTATATTATATTAATTATATTATTACTACTATTATTACTATTATTACTATTACTATTATAT
Found at i:9118304 original size:32 final size:31
Alignment explanation
Indices: 9118251--9118312 Score: 72
Period size: 31 Copynumber: 2.0 Consensus size: 31
9118241 GGGATGAATT
* * *
9118251 TTTGAATTTTTTGATTGAATTTTCTAGCTAGG
1 TTTGAATTTTTTCATTCAA-TTTCCAGCTAGG
9118283 TTTGAATTTTTTTCA-TCAATTTCCAGCTAG
1 TTTGAA-TTTTTTCATTCAATTTCCAGCTAG
9118313 TTTTCTAGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
31 10 0.38
32 9 0.35
33 7 0.27
ACGTcount: A:0.23, C:0.11, G:0.15, T:0.52
Consensus pattern (31 bp):
TTTGAATTTTTTCATTCAATTTCCAGCTAGG
Found at i:9118619 original size:21 final size:21
Alignment explanation
Indices: 9118581--9118620 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
9118571 TTAATTTTAT
**
9118581 TTTTTGATTTCATCTTTTTGA
1 TTTTTGATTTCAAATTTTTGA
*
9118602 TTTTTGATTTTAAATTTTT
1 TTTTTGATTTCAAATTTTT
9118621 TTTACATTTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.17, C:0.05, G:0.07, T:0.70
Consensus pattern (21 bp):
TTTTTGATTTCAAATTTTTGA
Found at i:9118677 original size:18 final size:18
Alignment explanation
Indices: 9118656--9118694 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 18
9118646 CATTATTTAT
9118656 TTATTTTTATTGATTAAA
1 TTATTTTTATTGATTAAA
9118674 TTA---TTATTGATTAAA
1 TTATTTTTATTGATTAAA
9118689 -TATTTT
1 TTATTTT
9118695 ATAAAAATCA
Statistics
Matches: 18, Mismatches: 0, Indels: 7
0.72 0.00 0.28
Matches are distributed among these distances:
14 2 0.11
15 12 0.67
17 1 0.06
18 3 0.17
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (18 bp):
TTATTTTTATTGATTAAA
Found at i:9122217 original size:67 final size:67
Alignment explanation
Indices: 9122089--9122218 Score: 170
Period size: 67 Copynumber: 1.9 Consensus size: 67
9122079 ATAATTGCAT
* * * * **
9122089 CACTTTAACAGTAAAACTCTCCCACTATTTCAACAGACTAATATAAAATCTAAGTGCTTTTCATG
1 CACTTTAACAATAAAACTCCCCCACTATTTCAACAAACTAATATAAAATCTAAATAATTTTCATG
9122154 AA
66 AA
* * * *
9122156 CACTTTAACAATAAAACTCCCCCATTTTTTCAATAAACTAGTATAAAATCTAAATAATTTTCA
1 CACTTTAACAATAAAACTCCCCCACTATTTCAACAAACTAATATAAAATCTAAATAATTTTCA
9122219 CATTACAAGA
Statistics
Matches: 53, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
67 53 1.00
ACGTcount: A:0.41, C:0.22, G:0.05, T:0.33
Consensus pattern (67 bp):
CACTTTAACAATAAAACTCCCCCACTATTTCAACAAACTAATATAAAATCTAAATAATTTTCATG
AA
Found at i:9134180 original size:29 final size:29
Alignment explanation
Indices: 9134122--9134183 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
9134112 GTAAGAAAAA
* * * *
9134122 TTAAAAATGCAAGTCTATATTGATGGGTG
1 TTAAAAATACAAGTCTATACTAATGAGTG
9134151 TTAAAAATACAAGTCTATACTAACT-AGTG
1 TTAAAAATACAAGTCTATACTAA-TGAGTG
9134180 TTAA
1 TTAA
9134184 TCACTAGTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 27 0.96
30 1 0.04
ACGTcount: A:0.40, C:0.10, G:0.16, T:0.34
Consensus pattern (29 bp):
TTAAAAATACAAGTCTATACTAATGAGTG
Found at i:9138830 original size:53 final size:53
Alignment explanation
Indices: 9138750--9138854 Score: 165
Period size: 53 Copynumber: 2.0 Consensus size: 53
9138740 ATTCTTAATA
* *
9138750 TAGAAGTTTAAGATACAAATTTATCTTACAGCTTTTTTACTGTTCATCCTCTG
1 TAGAAGTTTAAGATACAAATTTATCTTACAGCTCTCTTACTGTTCATCCTCTG
* * *
9138803 TAGAAGTTTAAGGTATAAATTTGTCTTACAGCTCTCTTACTGTTCATCCTCT
1 TAGAAGTTTAAGATACAAATTTATCTTACAGCTCTCTTACTGTTCATCCTCT
9138855 ATTATTGAAG
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
53 47 1.00
ACGTcount: A:0.27, C:0.18, G:0.12, T:0.43
Consensus pattern (53 bp):
TAGAAGTTTAAGATACAAATTTATCTTACAGCTCTCTTACTGTTCATCCTCTG
Found at i:9139315 original size:14 final size:17
Alignment explanation
Indices: 9139296--9139332 Score: 53
Period size: 14 Copynumber: 2.4 Consensus size: 17
9139286 TATATATATA
9139296 TATTTTA-TC-TTTTT-
1 TATTTTATTCATTTTTG
9139310 TATTTTATTCATTTTTG
1 TATTTTATTCATTTTTG
9139327 TATTTT
1 TATTTT
9139333 TACTTATCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 7 0.35
15 2 0.10
16 5 0.25
17 6 0.30
ACGTcount: A:0.16, C:0.05, G:0.03, T:0.76
Consensus pattern (17 bp):
TATTTTATTCATTTTTG
Found at i:9140370 original size:57 final size:58
Alignment explanation
Indices: 9140285--9140685 Score: 598
Period size: 59 Copynumber: 6.9 Consensus size: 58
9140275 TAAAAATAAA
* *
9140285 AAATTCCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAT
1 AAATTTCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAT
* *
9140343 AAATTTC-CAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAAT
1 AAATTTCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAT
*
9140400 AAATTTCAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAT
1 AAATTTC-AAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAT
* * *
9140459 AAATTTC-CAAAAAATATTTTTGGGGAAGAGTTGAAAGTATCAATTTTCCTCAGAAAT
1 AAATTTCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAT
*
9140516 AAATTTCAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT-GAAAAT
1 AAATTTC-AAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAG-AAAT
9140575 CAAAATTTCAAAAAAAATATTTTTGGGG-AAAGTTGAAAGTATCAATTTTCCTT-GAAAAT
1 --AAATTTCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAG-AAAT
9140634 CGAAATTTTC-AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
1 --AAA-TTTCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
9140686 CTACAAAAAA
Statistics
Matches: 317, Mismatches: 17, Indels: 16
0.91 0.05 0.05
Matches are distributed among these distances:
57 107 0.34
58 7 0.02
59 151 0.48
60 45 0.14
61 7 0.02
ACGTcount: A:0.44, C:0.09, G:0.13, T:0.34
Consensus pattern (58 bp):
AAATTTCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAT
Found at i:9140421 original size:116 final size:116
Alignment explanation
Indices: 9140292--9140685 Score: 645
Period size: 116 Copynumber: 3.4 Consensus size: 116
9140282 AAAAAATTCC
9140292 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCCAAAAAA
1 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCCAAAAAA
9140357 TATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAATAAATTTCA
66 TATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAATAAATTTCA
9140408 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCCAAAAAA
1 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCCAAAAAA
*
9140473 TATTTTTGGGGAAGAGTTGAAAGTATCAATTTTCCTCAGAAATAAATTTCA
66 TATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAATAAATTTCA
*
9140524 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT-GAAAATCAAAATTTCAAAA
1 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAG-AAAT--AAATTTC-CAA
*
9140588 AAAATATTTTTGGGG-AAAGTTGAAAGTATCAATTTTCCT-TGAAAATCGAAATTTTC-
62 AAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCAG-AAAT--AAA-TTTCA
*
9140644 -AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
1 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCC
9140686 CTACAAAAAA
Statistics
Matches: 265, Mismatches: 5, Indels: 13
0.94 0.02 0.05
Matches are distributed among these distances:
115 1 0.00
116 164 0.62
117 1 0.00
118 34 0.13
119 58 0.22
120 3 0.01
121 4 0.02
ACGTcount: A:0.44, C:0.08, G:0.14, T:0.34
Consensus pattern (116 bp):
AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCCAAAAAA
TATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAATAAATTTCA
Found at i:9149047 original size:6 final size:7
Alignment explanation
Indices: 9149030--9149103 Score: 84
Period size: 7 Copynumber: 10.7 Consensus size: 7
9149020 TATGCTTGAA
9149030 AAAAATG
1 AAAAATG
9149037 AAAAATG
1 AAAAATG
9149044 AAAAATG
1 AAAAATG
9149051 -AAAATG
1 AAAAATG
9149057 AAAAAATG
1 -AAAAATG
9149065 AAAAAATG
1 -AAAAATG
*
9149073 AAAAAAG
1 AAAAATG
9149080 AAAAAATG
1 -AAAAATG
9149088 AAAAA--
1 AAAAATG
9149093 AAAAA-G
1 AAAAATG
9149099 AAAAA
1 AAAAA
9149104 AGTGAACAAG
Statistics
Matches: 61, Mismatches: 2, Indels: 9
0.85 0.03 0.12
Matches are distributed among these distances:
5 5 0.08
6 11 0.18
7 25 0.41
8 20 0.33
ACGTcount: A:0.78, C:0.00, G:0.12, T:0.09
Consensus pattern (7 bp):
AAAAATG
Found at i:9149047 original size:14 final size:14
Alignment explanation
Indices: 9149030--9149103 Score: 84
Period size: 15 Copynumber: 5.4 Consensus size: 14
9149020 TATGCTTGAA
9149030 AAAAATGAAAAATG
1 AAAAATGAAAAATG
9149044 AAAAATG-AAAATG
1 AAAAATGAAAAATG
9149057 AAAAAATGAAAAAATG
1 -AAAAATG-AAAAATG
*
9149073 AAAAAAGAAAAAATG
1 AAAAATG-AAAAATG
9149088 AAAAA--AAAAA-G
1 AAAAATGAAAAATG
9149099 AAAAA
1 AAAAA
9149104 AGTGAACAAG
Statistics
Matches: 56, Mismatches: 1, Indels: 9
0.85 0.02 0.14
Matches are distributed among these distances:
11 6 0.11
12 5 0.09
13 6 0.11
14 14 0.25
15 19 0.34
16 6 0.11
ACGTcount: A:0.78, C:0.00, G:0.12, T:0.09
Consensus pattern (14 bp):
AAAAATGAAAAATG
Found at i:9149059 original size:29 final size:31
Alignment explanation
Indices: 9149030--9149094 Score: 91
Period size: 29 Copynumber: 2.2 Consensus size: 31
9149020 TATGCTTGAA
*
9149030 AAAAATG-AAAAATGAAAAATG-AAAATG-A
1 AAAAATGAAAAAATGAAAAAAGAAAAATGAA
9149058 AAAAATGAAAAAATGAAAAAAGAAAAAATGAA
1 AAAAATGAAAAAATGAAAAAAG-AAAAATGAA
9149090 AAAAA
1 AAAAA
9149095 AAAGAAAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
28 7 0.22
29 13 0.41
31 6 0.19
32 6 0.19
ACGTcount: A:0.77, C:0.00, G:0.12, T:0.11
Consensus pattern (31 bp):
AAAAATGAAAAAATGAAAAAAGAAAAATGAA
Found at i:9149104 original size:8 final size:8
Alignment explanation
Indices: 9149029--9149093 Score: 95
Period size: 8 Copynumber: 8.8 Consensus size: 8
9149019 CTATGCTTGA
9149029 AAAAAATG
1 AAAAAATG
9149037 -AAAAATG
1 AAAAAATG
9149044 -AAAAATG
1 AAAAAATG
9149051 --AAAATG
1 AAAAAATG
9149057 AAAAAATG
1 AAAAAATG
9149065 AAAAAATG
1 AAAAAATG
9149073 AAAAAA-G
1 AAAAAATG
9149080 AAAAAATG
1 AAAAAATG
9149088 AAAAAA
1 AAAAAA
9149094 AAAAGAAAAA
Statistics
Matches: 54, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
6 6 0.11
7 21 0.39
8 27 0.50
ACGTcount: A:0.77, C:0.00, G:0.12, T:0.11
Consensus pattern (8 bp):
AAAAAATG
Found at i:9150168 original size:40 final size:40
Alignment explanation
Indices: 9150111--9150202 Score: 166
Period size: 40 Copynumber: 2.3 Consensus size: 40
9150101 GTCTAGGAGT
*
9150111 ATTTACTTCTTCCAAGTTCGTTGCCTCTGTTTAGAGGAGCA
1 ATTTACTT-TTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
9150152 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
9150192 ATTTACTTTTC
1 ATTTACTTTTC
9150203 TGTTTAGAGG
Statistics
Matches: 50, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
40 42 0.84
41 8 0.16
ACGTcount: A:0.21, C:0.20, G:0.17, T:0.42
Consensus pattern (40 bp):
ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
Found at i:9150204 original size:25 final size:25
Alignment explanation
Indices: 9150176--9150227 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
9150166 GTTCGTTGCC
9150176 TCTGTTTAGAGGAGCAATTTACTTT
1 TCTGTTTAGAGGAGCAATTTACTTT
9150201 TCTGTTTAGAGGAGCAATTTACTTT
1 TCTGTTTAGAGGAGCAATTTACTTT
9150226 TC
1 TC
9150228 CAAGTTCGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.23, C:0.13, G:0.19, T:0.44
Consensus pattern (25 bp):
TCTGTTTAGAGGAGCAATTTACTTT
Found at i:9150240 original size:65 final size:65
Alignment explanation
Indices: 9150136--9150265 Score: 251
Period size: 65 Copynumber: 2.0 Consensus size: 65
9150126 GTTCGTTGCC
9150136 TCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTT
1 TCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTT
*
9150201 TCTGTTTAGAGGAGCAATTTACTTTTCCAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTT
1 TCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTT
9150266 CCAAAGTCGT
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
65 64 1.00
ACGTcount: A:0.22, C:0.16, G:0.20, T:0.42
Consensus pattern (65 bp):
TCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTT
Found at i:9150296 original size:41 final size:41
Alignment explanation
Indices: 9150201--9150337 Score: 226
Period size: 41 Copynumber: 3.4 Consensus size: 41
9150191 AATTTACTTT
9150201 TCTGTTTAGAGGAGCAATTTACTTTTCC-AAGTTCGT--TGCC
1 TCTGTTTAGAGGAGCAATTTAC-TTTCCAAAG-TCGTGGTGCC
*
9150241 TCTGTTTAGAGGAGCAATTTACTTTCCAAAGTCGTGGTACC
1 TCTGTTTAGAGGAGCAATTTACTTTCCAAAGTCGTGGTGCC
9150282 TCTGTTTAGAGGAGCAATTTACTTTCCAAAGTCGTGGTGCC
1 TCTGTTTAGAGGAGCAATTTACTTTCCAAAGTCGTGGTGCC
9150323 TCTGTTTAGAGGAGC
1 TCTGTTTAGAGGAGC
9150338 TTTGGTAAAA
Statistics
Matches: 92, Mismatches: 2, Indels: 5
0.93 0.02 0.05
Matches are distributed among these distances:
39 9 0.10
40 25 0.27
41 58 0.63
ACGTcount: A:0.22, C:0.19, G:0.23, T:0.36
Consensus pattern (41 bp):
TCTGTTTAGAGGAGCAATTTACTTTCCAAAGTCGTGGTGCC
Found at i:9150423 original size:7 final size:7
Alignment explanation
Indices: 9150344--9150430 Score: 110
Period size: 7 Copynumber: 12.9 Consensus size: 7
9150334 GAGCTTTGGT
*
9150344 AAAAAAA
1 AAAAAAC
9150351 AAAAAAC
1 AAAAAAC
9150358 -AAAAAC
1 AAAAAAC
9150364 -AAAAA-
1 AAAAAAC
9150369 AAAAAAC
1 AAAAAAC
9150376 AAAAAAC
1 AAAAAAC
9150383 AAAAAAC
1 AAAAAAC
*
9150390 AAAAAAT
1 AAAAAAC
9150397 AAAAAAC
1 AAAAAAC
*
9150404 AAAACA-
1 AAAAAAC
9150410 AAAAAAC
1 AAAAAAC
9150417 AAAAAACC
1 AAAAAA-C
9150425 AAAAAA
1 AAAAAA
9150431 TGTTGAGTTG
Statistics
Matches: 71, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
6 21 0.30
7 43 0.61
8 7 0.10
ACGTcount: A:0.87, C:0.11, G:0.00, T:0.01
Consensus pattern (7 bp):
AAAAAAC
Found at i:9150428 original size:26 final size:26
Alignment explanation
Indices: 9150346--9150430 Score: 111
Period size: 27 Copynumber: 3.3 Consensus size: 26
9150336 GCTTTGGTAA
9150346 AAAAAAAAAAAC-AAAAACAAAAAA-
1 AAAAAAAAAAACAAAAAACAAAAAAC
*
9150370 AAAAACAAAAAACAAAAAACAAAAAAT
1 AAAAA-AAAAAACAAAAAACAAAAAAC
*
9150397 AAAAAACAAAACAAAAAAACAAAAAAC
1 AAAAAAAAAAAC-AAAAAACAAAAAAC
*
9150424 CAAAAAA
1 AAAAAAA
9150431 TGTTGAGTTG
Statistics
Matches: 53, Mismatches: 4, Indels: 5
0.85 0.06 0.08
Matches are distributed among these distances:
24 5 0.09
25 7 0.13
26 18 0.34
27 23 0.43
ACGTcount: A:0.87, C:0.12, G:0.00, T:0.01
Consensus pattern (26 bp):
AAAAAAAAAAACAAAAAACAAAAAAC
Found at i:9150430 original size:1 final size:1
Alignment explanation
Indices: 9150344--9150422 Score: 77
Period size: 1 Copynumber: 79.0 Consensus size: 1
9150334 GAGCTTTGGT
* * * * * * * *
9150344 AAAAAAAAAAAAACAAAAACAAAAAAAAAAACAAAAAACAAAAAACAAAAAATAAAAAACAAAAC
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
*
9150409 AAAAAAACAAAAAA
1 AAAAAAAAAAAAAA
9150423 CCAAAAAATG
Statistics
Matches: 60, Mismatches: 18, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 60 1.00
ACGTcount: A:0.89, C:0.10, G:0.00, T:0.01
Consensus pattern (1 bp):
A
Found at i:9151163 original size:24 final size:24
Alignment explanation
Indices: 9151132--9151187 Score: 71
Period size: 26 Copynumber: 2.3 Consensus size: 24
9151122 GGGAGTGAGA
9151132 AAAATTTTT-TAGAAATTTTTGGCG
1 AAAATTTTTCTAGAAATTTTTGG-G
*
9151156 AAAATTTTTTCTGGAAATTTTTGGG
1 AAAA-TTTTTCTAGAAATTTTTGGG
9151181 -AAATTTT
1 AAAATTTT
9151188 CAGATTCCGG
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
23 4 0.14
24 7 0.24
25 6 0.21
26 12 0.41
ACGTcount: A:0.32, C:0.04, G:0.16, T:0.48
Consensus pattern (24 bp):
AAAATTTTTCTAGAAATTTTTGGG
Found at i:9151358 original size:20 final size:18
Alignment explanation
Indices: 9151315--9151359 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 18
9151305 TCGGCCAACT
9151315 TCCGGCGAAATTTCCAGA
1 TCCGGCGAAATTTCCAGA
*
9151333 TGCCGGCGACATTTTCCAGAA
1 T-CCGGCGA-AATTTCCAG-A
9151354 TCCGGC
1 TCCGGC
9151360 ACCGGTGTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
18 1 0.04
19 7 0.30
20 13 0.57
21 2 0.09
ACGTcount: A:0.22, C:0.31, G:0.24, T:0.22
Consensus pattern (18 bp):
TCCGGCGAAATTTCCAGA
Found at i:9151955 original size:114 final size:116
Alignment explanation
Indices: 9151745--9152136 Score: 609
Period size: 114 Copynumber: 3.4 Consensus size: 116
9151735 AAAAAATTCC
*
9151745 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCCAAAAAA
1 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTCAAAAAA
9151810 TA-TTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAATAAATTTCA
66 TATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAATAAATTTCA
9151860 AAAAAAAATA-TTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTCAAAAAA
1 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTCAAAAAA
*
9151924 TATTTTTGGGGAAGAGTTGAAAGTATC-ATTTTCCTCAGAAATAAA-TTCA
66 TATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAATAAATTTCA
* *
9151973 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAAATCAAAATTTCAAAA
1 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT-AGAAAT-AAATTTTC---A
*
9152038 AAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCT-TGAAAATCGAAATTTC-
61 AAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCAG-AAAT--AAATTTCA
*
9152095 CAAAAAAATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCC
1 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCC
9152137 CTACAAAAAA
Statistics
Matches: 258, Mismatches: 7, Indels: 18
0.91 0.02 0.06
Matches are distributed among these distances:
113 14 0.05
114 107 0.41
115 38 0.15
116 7 0.03
119 33 0.13
120 12 0.05
121 27 0.10
122 17 0.07
123 3 0.01
ACGTcount: A:0.45, C:0.08, G:0.14, T:0.33
Consensus pattern (116 bp):
AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTCAAAAAA
TATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAATAAATTTCA
Found at i:9155922 original size:3 final size:3
Alignment explanation
Indices: 9155916--9155968 Score: 54
Period size: 3 Copynumber: 18.0 Consensus size: 3
9155906 AAATTAAAAA
* * * *
9155916 AAT AAT AAC AAC AAC AAT AAC AAT AAT AAT AAT AAT AAT AAT AA- AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
9155963 ATT AAT
1 AAT AAT
9155969 CTAACTAAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
2 2 0.05
3 41 0.95
ACGTcount: A:0.66, C:0.08, G:0.00, T:0.26
Consensus pattern (3 bp):
AAT
Found at i:9162928 original size:12 final size:12
Alignment explanation
Indices: 9162894--9162934 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
9162884 TTAGAATATC
*
9162894 ATATAATAAAATG
1 ATATAA-AAAATA
9162907 ATAT--AAAATA
1 ATATAAAAAATA
9162917 ATATAAAAAATA
1 ATATAAAAAATA
9162929 ATATAA
1 ATATAA
9162935 TTTAAAATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
10 9 0.36
12 12 0.48
13 4 0.16
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.29
Consensus pattern (12 bp):
ATATAAAAAATA
Found at i:9162988 original size:21 final size:22
Alignment explanation
Indices: 9162945--9162988 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
9162935 TTTAAAATTT
* *
9162945 TAATACAAATTATATTTAAATA
1 TAATACAAATTAAATATAAATA
*
9162967 TAATA-AAATTAAATATATATA
1 TAATACAAATTAAATATAAATA
9162988 T
1 T
9162989 TTTATATTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (22 bp):
TAATACAAATTAAATATAAATA
Found at i:9164203 original size:5 final size:5
Alignment explanation
Indices: 9164189--9164218 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
9164179 TAAAAGAAAT
*
9164189 TTAAA ATAAA TTAAA TTAAA TTAAA TTAAA
1 TTAAA TTAAA TTAAA TTAAA TTAAA TTAAA
9164219 AATATAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (5 bp):
TTAAA
Found at i:9164213 original size:15 final size:15
Alignment explanation
Indices: 9164189--9164232 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 15
9164179 TAAAAGAAAT
9164189 TTAAAATAAATTAAA
1 TTAAAATAAATTAAA
*
9164204 TTAAATTAAATTAAAAA
1 TTAAAATAAATT--AAA
9164221 TATAAAATAAAT
1 T-TAAAATAAAT
9164233 AAAAACAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 11 0.46
17 4 0.17
18 9 0.38
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (15 bp):
TTAAAATAAATTAAA
Found at i:9164505 original size:19 final size:19
Alignment explanation
Indices: 9164478--9164526 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 19
9164468 CGAAAATTAG
*
9164478 AAAACCCATTAATTTATGA
1 AAAACCCATCAATTTATGA
* * *
9164497 AAAATCCATCGATTTTTGA
1 AAAACCCATCAATTTATGA
9164516 AAAACCCATCA
1 AAAACCCATCA
9164527 GAATCCCACC
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.45, C:0.20, G:0.06, T:0.29
Consensus pattern (19 bp):
AAAACCCATCAATTTATGA
Found at i:9165126 original size:18 final size:17
Alignment explanation
Indices: 9165090--9165129 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 17
9165080 AGGAAAAAAA
9165090 TAATATAATTGTAATAG
1 TAATATAATTGTAATAG
9165107 TAATATAATATGGT-ATAG
1 TAATATAAT-T-GTAATAG
9165125 TAATA
1 TAATA
9165130 ATAGTAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.43
18 10 0.48
19 2 0.10
ACGTcount: A:0.47, C:0.00, G:0.12, T:0.40
Consensus pattern (17 bp):
TAATATAATTGTAATAG
Found at i:9184524 original size:2 final size:2
Alignment explanation
Indices: 9184519--9184549 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
9184509 TATATATATA
9184519 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
9184550 CCAGAAATGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:9193445 original size:12 final size:13
Alignment explanation
Indices: 9193428--9193457 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
9193418 CTCGAAAAAA
9193428 ATTAAAAA-TTTT
1 ATTAAAAATTTTT
9193440 ATTAAAAATTTTT
1 ATTAAAAATTTTT
9193453 ATTAA
1 ATTAA
9193458 TTAGTGTAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.47
13 9 0.53
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
ATTAAAAATTTTT
Found at i:9198349 original size:2 final size:2
Alignment explanation
Indices: 9198342--9198366 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
9198332 TTAAAAATAC
9198342 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
9198367 AAAGGTAAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:9215570 original size:19 final size:19
Alignment explanation
Indices: 9215546--9215598 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 19
9215536 AAATTTATTA
9215546 TAAAATA-TAAAAAATTGTG
1 TAAAATACTAAAAAATT-TG
* *
9215565 TAAAATACTTAAAAATTTT
1 TAAAATACTAAAAAATTTG
*
9215584 TAAAA-ATTAAAAAAT
1 TAAAATACTAAAAAAT
9215599 AACTTAATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
18 8 0.28
19 13 0.45
20 8 0.28
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.34
Consensus pattern (19 bp):
TAAAATACTAAAAAATTTG
Found at i:9215589 original size:20 final size:19
Alignment explanation
Indices: 9215536--9215598 Score: 58
Period size: 20 Copynumber: 3.2 Consensus size: 19
9215526 TATAATTTTT
9215536 AAATTTATTATAAAATATAAA
1 AAATTT-TTA-AAAATATAAA
* *
9215557 AAATTGTGT-AAAATACTTAA
1 AAATT-TTTAAAAATA-TAAA
9215577 AAATTTTTAAAAAT-TAAA
1 AAATTTTTAAAAATATAAA
9215595 AAAT
1 AAAT
9215599 AACTTAATTT
Statistics
Matches: 35, Mismatches: 4, Indels: 9
0.73 0.08 0.19
Matches are distributed among these distances:
18 7 0.20
19 8 0.23
20 13 0.37
21 6 0.17
22 1 0.03
ACGTcount: A:0.59, C:0.02, G:0.03, T:0.37
Consensus pattern (19 bp):
AAATTTTTAAAAATATAAA
Found at i:9219780 original size:17 final size:16
Alignment explanation
Indices: 9219753--9219802 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 16
9219743 AGATATTCCC
9219753 TTTTCTTTTTTTGTTTA
1 TTTT-TTTTTTTGTTTA
9219770 TTTTTTGTTTTAT-TTTA
1 TTTTTT-TTTT-TGTTTA
9219787 TTTTTTTATTTTGTTT
1 TTTTTTT-TTTTGTTT
9219803 TTATGTAGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
16 4 0.14
17 24 0.83
18 1 0.03
ACGTcount: A:0.08, C:0.02, G:0.06, T:0.84
Consensus pattern (16 bp):
TTTTTTTTTTTGTTTA
Found at i:9219803 original size:12 final size:11
Alignment explanation
Indices: 9219753--9219806 Score: 54
Period size: 12 Copynumber: 4.5 Consensus size: 11
9219743 AGATATTCCC
*
9219753 TTTTCTTTTTT
1 TTTTATTTTTT
9219764 TGTTTATTTTTT
1 T-TTTATTTTTT
9219776 GTTTTATTTTATTT
1 -TTTTA-TTT-TTT
*
9219790 TTTTATTTTGT
1 TTTTATTTTTT
9219801 TTTTAT
1 TTTTAT
9219807 GTAGTATTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
11 9 0.24
12 16 0.43
13 9 0.24
14 3 0.08
ACGTcount: A:0.09, C:0.02, G:0.06, T:0.83
Consensus pattern (11 bp):
TTTTATTTTTT
Found at i:9219846 original size:14 final size:14
Alignment explanation
Indices: 9219811--9219845 Score: 61
Period size: 14 Copynumber: 2.4 Consensus size: 14
9219801 TTTTATGTAG
9219811 TATTTTTATATTTA
1 TATTTTTATATTTA
9219825 TATTTTTATATTTA
1 TATTTTTATATTTA
9219839 TTATTTT
1 -TATTTT
9219846 AGATGTTTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 14 0.70
15 6 0.30
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (14 bp):
TATTTTTATATTTA
Found at i:9219966 original size:19 final size:19
Alignment explanation
Indices: 9219942--9219981 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
9219932 GAGTCTAATA
* *
9219942 TATTAATTGTATGATATTT
1 TATTAATTGCATGATAGTT
9219961 TATTAATTGCATGATAGTT
1 TATTAATTGCATGATAGTT
9219980 TA
1 TA
9219982 AATATTTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.33, C:0.03, G:0.12, T:0.53
Consensus pattern (19 bp):
TATTAATTGCATGATAGTT
Found at i:9220124 original size:15 final size:14
Alignment explanation
Indices: 9220097--9220123 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
9220087 TATTTAAAAA
9220097 AAAAAAAGGTTTTC
1 AAAAAAAGGTTTTC
9220111 AAAAAAAGGTTTT
1 AAAAAAAGGTTTT
9220124 TAATCTTACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.04, G:0.15, T:0.30
Consensus pattern (14 bp):
AAAAAAAGGTTTTC
Found at i:9221393 original size:23 final size:24
Alignment explanation
Indices: 9221335--9221400 Score: 80
Period size: 23 Copynumber: 2.7 Consensus size: 24
9221325 ATATCGTATA
*
9221335 CATACTAACCCATTTTCTTTTACTATG
1 CATACTAACCC--TTT-TTTTACCATG
*
9221362 CATATTAACCCTTTTTTTACCATG
1 CATACTAACCCTTTTTTTACCATG
9221386 C-TACTAACCCTTTTT
1 CATACTAACCCTTTTT
9221401 CTTTTACTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
23 13 0.36
24 10 0.28
25 3 0.08
27 10 0.28
ACGTcount: A:0.24, C:0.27, G:0.03, T:0.45
Consensus pattern (24 bp):
CATACTAACCCTTTTTTTACCATG
Found at i:9221412 original size:26 final size:26
Alignment explanation
Indices: 9221335--9221416 Score: 107
Period size: 27 Copynumber: 3.2 Consensus size: 26
9221325 ATATCGTATA
9221335 CATACTAACCCATTTTCTTTTACTATG
1 CATACTAACCC-TTTTCTTTTACTATG
* *
9221362 CATATTAACCC-TTT-TTTTACCATG
1 CATACTAACCCTTTTCTTTTACTATG
9221386 C-TACTAACCCTTTTTCTTTTACTATG
1 CATACTAACCC-TTTTCTTTTACTATG
9221412 CATAC
1 CATAC
9221417 ATTCACATCA
Statistics
Matches: 47, Mismatches: 4, Indels: 8
0.80 0.07 0.14
Matches are distributed among these distances:
23 8 0.17
24 10 0.21
25 6 0.13
26 10 0.21
27 13 0.28
ACGTcount: A:0.24, C:0.27, G:0.04, T:0.45
Consensus pattern (26 bp):
CATACTAACCCTTTTCTTTTACTATG
Found at i:9226006 original size:45 final size:44
Alignment explanation
Indices: 9225936--9226069 Score: 142
Period size: 45 Copynumber: 3.0 Consensus size: 44
9225926 TAACTTTTGT
* *
9225936 AATGTGAATCTTTTGAAACTGTGGATGTGAATCTTTAATTTTTCA
1 AATGTGAATC-TTTGAATCTTTGGATGTGAATCTTTAATTTTTCA
* * **
9225981 AATGTGAATCTTTGAGATCTTTGGATGTGATTCTCTAATTTTTTG
1 AATGTGAATCTTTGA-ATCTTTGGATGTGAATCTTTAATTTTTCA
* * * *
9226026 AATATGGATCTTTGAAATCTTTGAATGTGAATCTTAAAATTTTT
1 AATGTGAATCTTTG-AATCTTTGGATGTGAATCTT-TAATTTTT
9226070 TGAATAAAAA
Statistics
Matches: 74, Mismatches: 12, Indels: 5
0.81 0.13 0.05
Matches are distributed among these distances:
44 5 0.07
45 61 0.82
46 8 0.11
ACGTcount: A:0.28, C:0.08, G:0.17, T:0.46
Consensus pattern (44 bp):
AATGTGAATCTTTGAATCTTTGGATGTGAATCTTTAATTTTTCA
Found at i:9226059 original size:23 final size:23
Alignment explanation
Indices: 9225931--9226060 Score: 97
Period size: 23 Copynumber: 5.7 Consensus size: 23
9225921 ATCTCTAACT
9225931 TTTGTAATGTGAATCTTTTGAAA-C
1 TTTG-AATGTGAATC-TTTGAAATC
* * *
9225955 TGTGGATGTGAATCTTT--AATT
1 TTTGAATGTGAATCTTTGAAATC
* *
9225976 TTTCAAATGTGAATCTTTGAGATC
1 TTT-GAATGTGAATCTTTGAAATC
* * * * *
9226000 TTTGGATGTGATTCTCT-AATTT
1 TTTGAATGTGAATCTTTGAAATC
* *
9226022 TTTGAATATGGATCTTTGAAATC
1 TTTGAATGTGAATCTTTGAAATC
9226045 TTTGAATGTGAATCTT
1 TTTGAATGTGAATCTT
9226061 AAAATTTTTT
Statistics
Matches: 77, Mismatches: 24, Indels: 11
0.69 0.21 0.10
Matches are distributed among these distances:
20 2 0.03
21 2 0.03
22 29 0.38
23 36 0.47
24 8 0.10
ACGTcount: A:0.26, C:0.08, G:0.18, T:0.47
Consensus pattern (23 bp):
TTTGAATGTGAATCTTTGAAATC
Found at i:9226071 original size:23 final size:23
Alignment explanation
Indices: 9226017--9226163 Score: 70
Period size: 23 Copynumber: 6.5 Consensus size: 23
9226007 GTGATTCTCT
* * *
9226017 AATTTTTTGAATATGGATCTTTGA
1 AATTTTTTGAATGTGAATC-TTAA
*
9226041 AA-TCTTTGAATGTGAATCTTAA
1 AATTTTTTGAATGTGAATCTTAA
*** **
9226063 AATTTTTTGAATAAAAAT-TTTT
1 AATTTTTTGAATGTGAATCTTAA
* * *
9226085 AACTTTTT-AATGTGAGTTTCTAA
1 AATTTTTTGAATGTGAATCT-TAA
* * * *
9226108 AATTTTTTTAATGTAAATTTTTGA
1 AATTTTTTGAATGTGAA-TCTTAA
* *
9226132 AA-TTTTAG-ATGTGAATCTTTA
1 AATTTTTTGAATGTGAATCTTAA
9226153 AATTTTTTGAA
1 AATTTTTTGAA
9226164 GGAAAATCTT
Statistics
Matches: 89, Mismatches: 27, Indels: 15
0.68 0.21 0.11
Matches are distributed among these distances:
21 11 0.12
22 26 0.29
23 37 0.42
24 12 0.13
25 3 0.03
ACGTcount: A:0.34, C:0.04, G:0.12, T:0.50
Consensus pattern (23 bp):
AATTTTTTGAATGTGAATCTTAA
Found at i:9226134 original size:24 final size:24
Alignment explanation
Indices: 9226088--9226137 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
9226078 AATTTTTAAC
* *
9226088 TTTTTAATGTGAGTTTCTAAAATT
1 TTTTTAATGTAAATTTCTAAAATT
* *
9226112 TTTTTAATGTAAATTTTTGAAATT
1 TTTTTAATGTAAATTTCTAAAATT
9226136 TT
1 TT
9226138 AGATGTGAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.30, C:0.02, G:0.10, T:0.58
Consensus pattern (24 bp):
TTTTTAATGTAAATTTCTAAAATT
Found at i:9226155 original size:21 final size:21
Alignment explanation
Indices: 9226113--9226158 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
9226103 TCTAAAATTT
*
9226113 TTTTAATGTAAATTTTTGAAA
1 TTTTAATGTAAATCTTTGAAA
*
9226134 TTTTAGATGTGAATCTTT-AAA
1 TTTTA-ATGTAAATCTTTGAAA
9226155 TTTT
1 TTTT
9226159 TTGAAGGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 12 0.55
22 10 0.45
ACGTcount: A:0.33, C:0.02, G:0.11, T:0.54
Consensus pattern (21 bp):
TTTTAATGTAAATCTTTGAAA
Found at i:9226187 original size:44 final size:44
Alignment explanation
Indices: 9226045--9226190 Score: 152
Period size: 45 Copynumber: 3.3 Consensus size: 44
9226035 CTTTGAAATC
* *
9226045 TTTGAATGTGAATCTTAAAATTTTTTGAATAAAAATTTTTAACT
1 TTTGAATGTGAATCTTTAAATTTTTTGAATGAAAATTTTTAACT
* * * * *
9226089 TTTTAATGTGAGT-TTCTAAAATTTTTTTAATGTAAATTTTTGAAAT
1 TTTGAATGTGAATCTT-T-AAATTTTTTGAATGAAAATTTTT-AACT
* *
9226135 TTT-AGATGTGAATCTTTAAATTTTTTGAAGGAAAATCTTTAACT
1 TTTGA-ATGTGAATCTTTAAATTTTTTGAATGAAAATTTTTAACT
*
9226179 TTTGGATGTGAA
1 TTTGAATGTGAA
9226191 AACCTAAAAC
Statistics
Matches: 82, Mismatches: 14, Indels: 12
0.76 0.13 0.11
Matches are distributed among these distances:
43 2 0.02
44 24 0.29
45 40 0.49
46 14 0.17
47 2 0.02
ACGTcount: A:0.34, C:0.04, G:0.13, T:0.49
Consensus pattern (44 bp):
TTTGAATGTGAATCTTTAAATTTTTTGAATGAAAATTTTTAACT
Found at i:9226423 original size:17 final size:17
Alignment explanation
Indices: 9226397--9226435 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
9226387 TGATTTCTTG
* *
9226397 CAAATTTGAAATTTTTA
1 CAAATCTGAAAGTTTTA
*
9226414 CAAATCTGAAAGTTTTG
1 CAAATCTGAAAGTTTTA
9226431 CAAAT
1 CAAAT
9226436 TTACCAATTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.41, C:0.10, G:0.10, T:0.38
Consensus pattern (17 bp):
CAAATCTGAAAGTTTTA
Found at i:9226527 original size:36 final size:36
Alignment explanation
Indices: 9226471--9226541 Score: 90
Period size: 36 Copynumber: 2.0 Consensus size: 36
9226461 TTTTATGAAT
* * *
9226471 TCTTGCGAACTTGAATCTCTTGA-GAATCTTTAAAAC
1 TCTTGCAAACCTGAAACTCTT-ATGAATCTTTAAAAC
*
9226507 TCTTGCAAACCTGAAACTCTTATGAATTTTTAAAA
1 TCTTGCAAACCTGAAACTCTTATGAATCTTTAAAA
9226542 ATTTTAAGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
35 1 0.03
36 29 0.97
ACGTcount: A:0.34, C:0.18, G:0.11, T:0.37
Consensus pattern (36 bp):
TCTTGCAAACCTGAAACTCTTATGAATCTTTAAAAC
Found at i:9226720 original size:17 final size:18
Alignment explanation
Indices: 9226679--9226726 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
9226669 ACGAAGCTTG
*
9226679 AAATTTTTGCAAATCTAA
1 AAATCTTTGCAAATCTAA
*
9226697 AAATCTTTGCAAATCT-T
1 AAATCTTTGCAAATCTAA
*
9226714 GAATCTTTGCAAA
1 AAATCTTTGCAAA
9226727 ATTTAAAATC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
17 12 0.44
18 15 0.56
ACGTcount: A:0.40, C:0.15, G:0.08, T:0.38
Consensus pattern (18 bp):
AAATCTTTGCAAATCTAA
Found at i:9228287 original size:13 final size:12
Alignment explanation
Indices: 9228246--9228288 Score: 52
Period size: 13 Copynumber: 3.5 Consensus size: 12
9228236 GTATTCCCTT
9228246 TTTTTTG-TTTA
1 TTTTTTGTTTTA
*
9228257 TTTTCTGTTTTGA
1 TTTTTTGTTTT-A
9228270 TTTTTTGATTTTA
1 TTTTTTG-TTTTA
9228283 TTTTTT
1 TTTTTT
9228289 TTTCTATATA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
11 6 0.22
12 3 0.11
13 14 0.52
14 4 0.15
ACGTcount: A:0.09, C:0.02, G:0.09, T:0.79
Consensus pattern (12 bp):
TTTTTTGTTTTA
Found at i:9236482 original size:16 final size:16
Alignment explanation
Indices: 9236458--9236492 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
9236448 TGTAATAACA
*
9236458 TATCTTTAACAATTGG
1 TATCCTTAACAATTGG
9236474 TATCCTTAACAATTGG
1 TATCCTTAACAATTGG
9236490 TAT
1 TAT
9236493 GAACTTGTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.31, C:0.14, G:0.11, T:0.43
Consensus pattern (16 bp):
TATCCTTAACAATTGG
Found at i:9238496 original size:23 final size:22
Alignment explanation
Indices: 9238453--9238496 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
9238443 AAAAATTTTG
*
9238453 AAATTCACATCCAAAATTTCAA
1 AAATTCACATCCAAAAATTCAA
*
9238475 AAATTCACAATCGAAAAATTCA
1 AAATTCAC-ATCCAAAAATTCA
9238497 TGACCAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.52, C:0.20, G:0.02, T:0.25
Consensus pattern (22 bp):
AAATTCACATCCAAAAATTCAA
Found at i:9238529 original size:24 final size:24
Alignment explanation
Indices: 9238502--9238578 Score: 63
Period size: 24 Copynumber: 3.3 Consensus size: 24
9238492 ATTCATGACC
9238502 AAAATTTCAAAGATTCTCATCTAA
1 AAAATTTCAAAGATTCTCATCTAA
** *
9238526 AAAATTT-ATGGGTT-TCA-C-AA
1 AAAATTTCAAAGATTCTCATCTAA
* *
9238546 CCAAAATTTCAAAGATTCTCATTTGA
1 --AAAATTTCAAAGATTCTCATCTAA
9238572 AAAATTT
1 AAAATTT
9238579 TAGAAATTCA
Statistics
Matches: 39, Mismatches: 8, Indels: 12
0.66 0.14 0.20
Matches are distributed among these distances:
20 2 0.05
21 1 0.03
22 10 0.26
23 8 0.21
24 17 0.44
26 1 0.03
ACGTcount: A:0.43, C:0.14, G:0.08, T:0.35
Consensus pattern (24 bp):
AAAATTTCAAAGATTCTCATCTAA
Found at i:9238596 original size:46 final size:45
Alignment explanation
Indices: 9238490--9238596 Score: 117
Period size: 46 Copynumber: 2.3 Consensus size: 45
9238480 CACAATCGAA
9238490 AAATTCATGACCAAAATTTCAAAGATTCTCATCTAAAAAATTTATG
1 AAATTCAT-ACCAAAATTTCAAAGATTCTCATCTAAAAAATTTATG
*** * * *
9238536 GGTTTCACAACCAAAATTTCAAAGATTCTCATTTGAAAAATTT-TAG
1 AAATTCA-TACCAAAATTTCAAAGATTCTCATCTAAAAAATTTAT-G
9238582 AAATTCATATCCAAA
1 AAATTCATA-CCAAA
9238597 GTTTTTTTTT
Statistics
Matches: 48, Mismatches: 10, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
45 2 0.04
46 46 0.96
ACGTcount: A:0.44, C:0.16, G:0.07, T:0.33
Consensus pattern (45 bp):
AAATTCATACCAAAATTTCAAAGATTCTCATCTAAAAAATTTATG
Found at i:9239857 original size:22 final size:23
Alignment explanation
Indices: 9239823--9239867 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
9239813 AAATAATACA
9239823 TTATATATATTTAAATAATATTT
1 TTATATATATTTAAATAATATTT
* *
9239846 TTAT-TATCTTTAATTAATATTT
1 TTATATATATTTAAATAATATTT
9239868 ATAAACACTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (23 bp):
TTATATATATTTAAATAATATTT
Found at i:9241084 original size:28 final size:28
Alignment explanation
Indices: 9241044--9241098 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
9241034 GGCATATTAA
* * *
9241044 ATAAATAATTTACTTTTTAAATAAATAG
1 ATAAACAACTTACATTTTAAATAAATAG
9241072 ATAAACAACTTACATTTTAAATAAATA
1 ATAAACAACTTACATTTTAAATAAATA
9241099 ACTTACATGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.53, C:0.07, G:0.02, T:0.38
Consensus pattern (28 bp):
ATAAACAACTTACATTTTAAATAAATAG
Found at i:9241101 original size:20 final size:20
Alignment explanation
Indices: 9241072--9241118 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
9241062 AAATAAATAG
* *
9241072 ATAAACAACTTACATTTTAA
1 ATAAATAACTTACATGTTAA
9241092 ATAAATAACTTACATGTTAA
1 ATAAATAACTTACATGTTAA
*
9241112 ACAAATA
1 ATAAATA
9241119 TATTATTTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.53, C:0.13, G:0.02, T:0.32
Consensus pattern (20 bp):
ATAAATAACTTACATGTTAA
Found at i:9246743 original size:15 final size:15
Alignment explanation
Indices: 9246719--9246775 Score: 71
Period size: 15 Copynumber: 3.8 Consensus size: 15
9246709 AATTAATTCC
*
9246719 TTTTTCCTTTTTCTT
1 TTTTTTCTTTTTCTT
9246734 TTTTTTCTTTTTCTT
1 TTTTTTCTTTTTCTT
9246749 TTTTCTT-TTTTTCTT
1 TTTT-TTCTTTTTCTT
* *
9246764 TTCTTTATTTTT
1 TTTTTTCTTTTT
9246776 TTTAGAAACA
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
14 2 0.05
15 34 0.89
16 2 0.05
ACGTcount: A:0.02, C:0.14, G:0.00, T:0.84
Consensus pattern (15 bp):
TTTTTTCTTTTTCTT
Found at i:9246746 original size:22 final size:21
Alignment explanation
Indices: 9246718--9246765 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 21
9246708 AAATTAATTC
9246718 CTTTTTCCTTTTTCTTTTTTTT
1 CTTTTTCCTTTTTC-TTTTTTT
*
9246740 CTTTTTCTTTTTTCTTTTTTT
1 CTTTTTCCTTTTTCTTTTTTT
9246761 CTTTT
1 CTTTT
9246766 CTTTATTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
21 12 0.48
22 13 0.52
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (21 bp):
CTTTTTCCTTTTTCTTTTTTT
Found at i:9246765 original size:13 final size:12
Alignment explanation
Indices: 9246732--9246778 Score: 67
Period size: 13 Copynumber: 3.7 Consensus size: 12
9246722 TTCCTTTTTC
9246732 TTTTTTTTCTTT
1 TTTTTTTTCTTT
9246744 TTCTTTTTTCTTT
1 TT-TTTTTTCTTT
9246757 TTTTCTTTTCTTT
1 TTTT-TTTTCTTT
9246770 ATTTTTTTT
1 -TTTTTTTT
9246779 AGAAACAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
12 4 0.12
13 24 0.75
14 4 0.12
ACGTcount: A:0.02, C:0.11, G:0.00, T:0.87
Consensus pattern (12 bp):
TTTTTTTTCTTT
Found at i:9247270 original size:7 final size:7
Alignment explanation
Indices: 9247258--9247397 Score: 64
Period size: 7 Copynumber: 21.3 Consensus size: 7
9247248 GAAGTCTAGG
9247258 TTAGGGT
1 TTAGGGT
9247265 TTAGGG-
1 TTAGGGT
9247271 TTAGGGT
1 TTAGGGT
9247278 TT-GGGT
1 TTAGGGT
**
9247284 TTAAAGT
1 TTAGGGT
*
9247291 TTA-AGT
1 TTAGGGT
*
9247297 TTAAGG-
1 TTAGGGT
9247303 TTAGGGT
1 TTAGGGT
*
9247310 TTAGGAT
1 TTAGGGT
*
9247317 TTAAGGT
1 TTAGGGT
*
9247324 TTAAGG-
1 TTAGGGT
* *
9247330 TTAAGTT
1 TTAGGGT
*
9247337 TTGGGGT
1 TTAGGGT
*
9247344 TT-GGGG
1 TTAGGGT
* *
9247350 TTAAGAT
1 TTAGGGT
*
9247357 TTAGGAT
1 TTAGGGT
9247364 TTA-GGT
1 TTAGGGT
* *
9247370 TTA-AGA
1 TTAGGGT
9247376 TTAGGG-
1 TTAGGGT
*
9247382 TTAAGGT
1 TTAGGGT
9247389 TTAGGGT
1 TTAGGGT
9247396 TT
1 TT
9247398 GATGAGAGAT
Statistics
Matches: 103, Mismatches: 22, Indels: 16
0.73 0.16 0.11
Matches are distributed among these distances:
6 47 0.46
7 56 0.54
ACGTcount: A:0.23, C:0.00, G:0.34, T:0.43
Consensus pattern (7 bp):
TTAGGGT
Found at i:9247292 original size:26 final size:26
Alignment explanation
Indices: 9247263--9247332 Score: 70
Period size: 26 Copynumber: 2.7 Consensus size: 26
9247253 CTAGGTTAGG
* * *
9247263 GTTTAGGGTTAGGGTTTGGGTTTAAA
1 GTTTAAGGTTAAGGTTAGGGTTTAAA
* *
9247289 GTTTAAGTTTAAGGTTAGGGTTT-AG
1 GTTTAAGGTTAAGGTTAGGGTTTAAA
9247314 GATTTAAGGTTTAAGGTTA
1 G-TTTAAGG-TTAAGGTTA
9247333 AGTTTTGGGG
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
25 2 0.06
26 25 0.69
27 9 0.25
ACGTcount: A:0.24, C:0.00, G:0.33, T:0.43
Consensus pattern (26 bp):
GTTTAAGGTTAAGGTTAGGGTTTAAA
Found at i:9247354 original size:33 final size:32
Alignment explanation
Indices: 9247269--9247359 Score: 101
Period size: 33 Copynumber: 2.8 Consensus size: 32
9247259 TAGGGTTTAG
* *
9247269 GGTTAGGGTTTGGGTTTAAAGTTTAAGTTTAA
1 GGTTAGGGTTTGGGTTTAAGGTTTAAGGTTAA
*
9247301 GGTTAGGGTTTAGGATTTAAGGTTTAAGGTTAA
1 GGTTAGGGTTT-GGGTTTAAGGTTTAAGGTTAA
* * * *
9247334 GTTTTGGGGTTTGGGGTTAAGATTTA
1 G-GTTAGGGTTTGGGTTTAAGGTTTA
9247360 GGATTTAGGT
Statistics
Matches: 49, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
32 11 0.22
33 30 0.61
34 8 0.16
ACGTcount: A:0.23, C:0.00, G:0.34, T:0.43
Consensus pattern (32 bp):
GGTTAGGGTTTGGGTTTAAGGTTTAAGGTTAA
Found at i:9247379 original size:19 final size:20
Alignment explanation
Indices: 9247284--9247391 Score: 62
Period size: 20 Copynumber: 5.5 Consensus size: 20
9247274 GGGTTTGGGT
*
9247284 TTAAAGTTTAAG-TTTAAGG-
1 TTAAGGTTTAAGATTT-AGGA
* * *
9247303 TTAGGGTTTAGGATTTAAGGT
1 TTAAGGTTTAAGATTT-AGGA
* * *
9247324 TTAAGG-TTAAGTTTTGGGG
1 TTAAGGTTTAAGATTTAGGA
** *
9247343 TTTGGGGTTAAGATTTAGGA
1 TTAAGGTTTAAGATTTAGGA
* *
9247363 TTTAGGTTTAAGA-TTAGGG
1 TTAAGGTTTAAGATTTAGGA
9247382 TTAAGGTTTA
1 TTAAGGTTTA
9247392 GGGTTTGATG
Statistics
Matches: 69, Mismatches: 17, Indels: 6
0.75 0.18 0.07
Matches are distributed among these distances:
19 29 0.42
20 35 0.51
21 5 0.07
ACGTcount: A:0.27, C:0.00, G:0.31, T:0.43
Consensus pattern (20 bp):
TTAAGGTTTAAGATTTAGGA
Found at i:9247394 original size:13 final size:13
Alignment explanation
Indices: 9247258--9247396 Score: 57
Period size: 13 Copynumber: 10.6 Consensus size: 13
9247248 GAAGTCTAGG
* *
9247258 TTAGGGTTTAGGG
1 TTAGGGTTAAGGT
**
9247271 TTAGGGTTTGGGT
1 TTAGGGTTAAGGT
* *
9247284 TTAAAGTTTAA-GT
1 TT-AGGGTTAAGGT
* *
9247297 TTAAGGTTAGGGT
1 TTAGGGTTAAGGT
*
9247310 TTAGGATTTAAGGT
1 TTAGG-GTTAAGGT
* *
9247324 TTAAGGTTAAGTT
1 TTAGGGTTAAGGT
* ** *
9247337 TTGGGGTTTGGGG
1 TTAGGGTTAAGGT
* * *
9247350 TTAAGATTTAGGAT
1 TTAGGGTTAAGG-T
* *
9247364 TTAGGTTTAA-GA
1 TTAGGGTTAAGGT
9247376 TTAGGGTTAAGGT
1 TTAGGGTTAAGGT
9247389 TTAGGGTT
1 TTAGGGTT
9247397 TGATGAGAGA
Statistics
Matches: 90, Mismatches: 31, Indels: 10
0.69 0.24 0.08
Matches are distributed among these distances:
12 15 0.17
13 54 0.60
14 21 0.23
ACGTcount: A:0.23, C:0.00, G:0.35, T:0.42
Consensus pattern (13 bp):
TTAGGGTTAAGGT
Done.