Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168004.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_26, 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: 16099665
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 97000 characters in sequence are not A, C, G, or T
File 21 of 77
Found at i:4010833 original size:16 final size:15
Alignment explanation
Indices: 4010803--4010844 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
4010793 ATGATATAAT
4010803 TATAC-AATATAAAAA
1 TATACAAATA-AAAAA
4010818 TGATACAAATAAAAAA
1 T-ATACAAATAAAAAA
*
4010834 TATAAAAATAA
1 TATACAAATAA
4010845 TACGACTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
15 10 0.42
16 10 0.42
17 4 0.17
ACGTcount: A:0.69, C:0.05, G:0.02, T:0.24
Consensus pattern (15 bp):
TATACAAATAAAAAA
Found at i:4010966 original size:31 final size:31
Alignment explanation
Indices: 4010931--4011000 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 31
4010921 TATAAATTGT
* * *
4010931 AATATATTATTTTTGTATAA-AATATGATATA
1 AATATATTA-TTTTATATAATAAGATAATATA
*
4010962 AATATAATATTTTATATAATAAGATAATATA
1 AATATATTATTTTATATAATAAGATAATATA
4010993 AAT-TATTA
1 AATATATTA
4011001 GATCTAGTAA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
30 13 0.39
31 20 0.61
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (31 bp):
AATATATTATTTTATATAATAAGATAATATA
Found at i:4012881 original size:28 final size:25
Alignment explanation
Indices: 4012849--4012900 Score: 68
Period size: 28 Copynumber: 2.0 Consensus size: 25
4012839 TTAAAAACAT
4012849 ATTTTGATTCAAACAAGTTATAAATTTA
1 ATTTTGATTCAAA-AA-TTA-AAATTTA
*
4012877 ATTTTGATTTAAAAATTAAAATTT
1 ATTTTGATTCAAAAATTAAAATTT
4012901 TTTTAAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 6 0.26
26 3 0.13
27 2 0.09
28 12 0.52
ACGTcount: A:0.44, C:0.04, G:0.06, T:0.46
Consensus pattern (25 bp):
ATTTTGATTCAAAAATTAAAATTTA
Found at i:4022842 original size:12 final size:13
Alignment explanation
Indices: 4022814--4022869 Score: 51
Period size: 12 Copynumber: 4.1 Consensus size: 13
4022804 ACCTTAGTTC
4022814 TTTAGAGTTTTCTT
1 TTTA-AGTTTTCTT
4022828 TTTAAGTTTTC-T
1 TTTAAGTTTTCTT
* *
4022840 TTTATGTTTTGTAGT
1 TTTAAGTTTTCT--T
4022855 TCTTAAGTTTTCTT
1 T-TTAAGTTTTCTT
4022869 T
1 T
4022870 ACTTTGGATT
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
12 10 0.29
13 7 0.21
14 6 0.18
15 2 0.06
16 9 0.26
ACGTcount: A:0.14, C:0.07, G:0.12, T:0.66
Consensus pattern (13 bp):
TTTAAGTTTTCTT
Found at i:4025086 original size:24 final size:27
Alignment explanation
Indices: 4025055--4025112 Score: 95
Period size: 27 Copynumber: 2.3 Consensus size: 27
4025045 CTCTAATTTA
4025055 ATAAAATATTA-TTTTTAA-A-AAAAT
1 ATAAAATATTATTTTTTAATATAAAAT
4025079 ATAAAATATTATTTTTTAATATAAAAT
1 ATAAAATATTATTTTTTAATATAAAAT
4025106 ATAAAAT
1 ATAAAAT
4025113 TATATAAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
24 11 0.35
25 7 0.23
26 1 0.03
27 12 0.39
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (27 bp):
ATAAAATATTATTTTTTAATATAAAAT
Found at i:4025114 original size:25 final size:24
Alignment explanation
Indices: 4025054--4025115 Score: 76
Period size: 25 Copynumber: 2.6 Consensus size: 24
4025044 ACTCTAATTT
4025054 AATA-AAATATTA-TTTTTAAAAA
1 AATATAAATATTATTTTTTAAAAA
4025076 AATATAAAATATTATTTTTTAATATAA
1 AATAT-AAATATTATTTTTTAA-A-AA
4025103 AATATAAA-ATTAT
1 AATATAAATATTAT
4025116 ATAAAATAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
22 4 0.11
24 8 0.23
25 12 0.34
26 4 0.11
27 7 0.20
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (24 bp):
AATATAAATATTATTTTTTAAAAA
Found at i:4025119 original size:17 final size:16
Alignment explanation
Indices: 4025097--4025141 Score: 58
Period size: 17 Copynumber: 2.9 Consensus size: 16
4025087 TTATTTTTTA
4025097 ATATAAAATATAAAATT
1 ATATAAAATA-AAAATT
*
4025114 ATATAAAATAAATATT
1 ATATAAAATAAAAATT
4025130 -TAT-AAATAAAAA
1 ATATAAAATAAAAA
4025142 ATTAAATAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
14 8 0.31
15 3 0.12
16 5 0.19
17 10 0.38
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
ATATAAAATAAAAATT
Found at i:4025149 original size:22 final size:21
Alignment explanation
Indices: 4025118--4025183 Score: 66
Period size: 20 Copynumber: 3.2 Consensus size: 21
4025108 AAAATTATAT
4025118 AAAATAAATATTTATAAATAA
1 AAAATAAATATTTATAAATAA
* *
4025139 AAAATTAAATA-AT-TAATTAA
1 AAAA-TAAATATTTATAAATAA
*
4025159 AAAATAAAT-TTTATATATATA
1 AAAATAAATATTTATAAATA-A
4025180 AAAA
1 AAAA
4025184 GTCAAATCAA
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
19 6 0.17
20 14 0.39
21 10 0.28
22 6 0.17
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (21 bp):
AAAATAAATATTTATAAATAA
Found at i:4026246 original size:78 final size:78
Alignment explanation
Indices: 4026118--4026276 Score: 257
Period size: 78 Copynumber: 2.0 Consensus size: 78
4026108 GTCCACATCG
*
4026118 TAACAAATAAAAAATTAATTAAAAAGTAAAAAATATCAATAATATCAATTATAAAAGTTAGTGAT
1 TAACAAATAAAAAATTAATTAAAAAGTAAAAAATATAAATAATATCAATTATAAAAGTTAGTGAT
4026183 CTAAATAT-ATTA
66 CTAAATATCATTA
* * * *
4026195 TAACAATTTAAAAATTAATTAAAAAATTAAAAAATGTAAATAATATCAATTATAAAAGTTAGTGA
1 TAACAAATAAAAAATTAATT-AAAAAGTAAAAAATATAAATAATATCAATTATAAAAGTTAGTGA
4026260 TCTAAATATCATTA
65 TCTAAATATCATTA
4026274 TAA
1 TAA
4026277 GAGATGAGCA
Statistics
Matches: 75, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
77 18 0.24
78 50 0.67
79 7 0.09
ACGTcount: A:0.57, C:0.05, G:0.05, T:0.33
Consensus pattern (78 bp):
TAACAAATAAAAAATTAATTAAAAAGTAAAAAATATAAATAATATCAATTATAAAAGTTAGTGAT
CTAAATATCATTA
Found at i:4026305 original size:78 final size:78
Alignment explanation
Indices: 4026145--4026312 Score: 196
Period size: 78 Copynumber: 2.2 Consensus size: 78
4026135 ATTAAAAAGT
* * *
4026145 AAAAAATATCAATAATATCAATTATAAAAGTTAGTGATCTAAATATATTATAACAATTTAAAAAT
1 AAAAAATATAAATAATATCAATTATAAAAGTTAGTGATCTAAATATATTATAACAATTGAAAAAC
* ** *
4026210 TAATTAAAAAATT
66 GAAACAAAAAATA
* * **
4026223 AAAAAATGTAAATAATATCAATTATAAAAGTTAGTGATCTAAATATCATTATAAGAGA-TGAGCA
1 AAAAAATATAAATAATATCAATTATAAAAGTTAGTGATCTAAATAT-ATTATAACA-ATTGAAAA
4026287 ACGAAACAAAAAA-A
64 ACGAAACAAAAAATA
*
4026301 AAAAAATCTAAA
1 AAAAAATATAAA
4026313 AATGAAGCAA
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
78 55 0.72
79 20 0.26
80 1 0.01
ACGTcount: A:0.58, C:0.07, G:0.07, T:0.29
Consensus pattern (78 bp):
AAAAAATATAAATAATATCAATTATAAAAGTTAGTGATCTAAATATATTATAACAATTGAAAAAC
GAAACAAAAAATA
Found at i:4026716 original size:31 final size:31
Alignment explanation
Indices: 4026652--4026766 Score: 115
Period size: 31 Copynumber: 3.7 Consensus size: 31
4026642 TTGTTTATTA
* * *
4026652 ACTCATACAAATTTTAAAATTT-AGTTATAT
1 ACTCACACAAAATTTAAAATTTAATTTATAT
* *
4026682 ACTCACACAAAATTTAAAATTTAATTTTTGT
1 ACTCACACAAAATTTAAAATTTAATTTATAT
** *
4026713 ACTCACATGAAATTTAAAATTTAATCTATAT
1 ACTCACACAAAATTTAAAATTTAATTTATAT
* * * *
4026744 ACCCATACGAAATTTGAAATTTA
1 ACTCACACAAAATTTAAAATTTA
4026767 GTCTCTCTAA
Statistics
Matches: 70, Mismatches: 14, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
30 20 0.29
31 50 0.71
ACGTcount: A:0.43, C:0.13, G:0.04, T:0.39
Consensus pattern (31 bp):
ACTCACACAAAATTTAAAATTTAATTTATAT
Found at i:4028614 original size:113 final size:113
Alignment explanation
Indices: 4028416--4028643 Score: 447
Period size: 113 Copynumber: 2.0 Consensus size: 113
4028406 GACTATTTTG
*
4028416 ATTTGATTTTTACTTTTGATATGTTAAACAAATCTCTTTTATCTTATTGCTTGTAATTTATTAAC
1 ATTTGATTTTTACTTTTGATATGTTAAACAAATCTCTTTTATCTTATTGCTTATAATTTATTAAC
4028481 AATCTCTTATATTTGAAATTAATAGAAAAATATAAAAGAAATAATCAA
66 AATCTCTTATATTTGAAATTAATAGAAAAATATAAAAGAAATAATCAA
4028529 ATTTGATTTTTACTTTTGATATGTTAAACAAATCTCTTTTATCTTATTGCTTATAATTTATTAAC
1 ATTTGATTTTTACTTTTGATATGTTAAACAAATCTCTTTTATCTTATTGCTTATAATTTATTAAC
4028594 AATCTCTTATATTTGAAATTAATAGAAAAATATAAAAGAAATAATCAA
66 AATCTCTTATATTTGAAATTAATAGAAAAATATAAAAGAAATAATCAA
4028642 AT
1 AT
4028644 CTTTCTTTGT
Statistics
Matches: 114, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
113 114 1.00
ACGTcount: A:0.40, C:0.09, G:0.07, T:0.44
Consensus pattern (113 bp):
ATTTGATTTTTACTTTTGATATGTTAAACAAATCTCTTTTATCTTATTGCTTATAATTTATTAAC
AATCTCTTATATTTGAAATTAATAGAAAAATATAAAAGAAATAATCAA
Found at i:4030287 original size:17 final size:18
Alignment explanation
Indices: 4030260--4030293 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
4030250 TTAATATAAA
*
4030260 TGATAATTATTATTAATG
1 TGATAATTATTAATAATG
4030278 TGAT-ATTATTAATAAT
1 TGATAATTATTAATAAT
4030294 TAATTATATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.41, C:0.00, G:0.09, T:0.50
Consensus pattern (18 bp):
TGATAATTATTAATAATG
Found at i:4036046 original size:31 final size:31
Alignment explanation
Indices: 4036011--4036069 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
4036001 ATTTGCTCTC
* **
4036011 GAGGTTTGAATTTTTTGATCAATTTTTTTAT
1 GAGGTTGGAATTTTTCAATCAATTTTTTTAT
4036042 GAGGTTGGAATTTTTCAATCAATTTTTT
1 GAGGTTGGAATTTTTCAATCAATTTTTT
4036070 GGTGATTTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.24, C:0.05, G:0.17, T:0.54
Consensus pattern (31 bp):
GAGGTTGGAATTTTTCAATCAATTTTTTTAT
Found at i:4036387 original size:19 final size:18
Alignment explanation
Indices: 4036349--4036388 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
4036339 ATGATTTCTT
*
4036349 TTTTTCTATTTTTATTTA
1 TTTTTCTATTTTTATATA
4036367 TTTTTCTATTTTTGATATA
1 TTTTTCTATTTTT-ATATA
4036386 TTT
1 TTT
4036389 GGTTGTTTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 13 0.65
19 7 0.35
ACGTcount: A:0.17, C:0.05, G:0.03, T:0.75
Consensus pattern (18 bp):
TTTTTCTATTTTTATATA
Found at i:4040677 original size:11 final size:11
Alignment explanation
Indices: 4040660--4040693 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
4040650 ATTTTTCTTT
*
4040660 AAAAAATGGAA
1 AAAAAATGAAA
*
4040671 TAAAAATGAAA
1 AAAAAATGAAA
4040682 AAAAAATGAAA
1 AAAAAATGAAA
4040693 A
1 A
4040694 GATGAAGAAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.76, C:0.00, G:0.12, T:0.12
Consensus pattern (11 bp):
AAAAAATGAAA
Found at i:4041844 original size:14 final size:14
Alignment explanation
Indices: 4041825--4041868 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
4041815 ACAATTAGAG
4041825 TTGCATTCAT-GACA
1 TTGCATTCATAG-CA
4041839 TTGCATTCATAGCA
1 TTGCATTCATAGCA
* *
4041853 TGGCATTCATTGCA
1 TTGCATTCATAGCA
4041867 TT
1 TT
4041869 TGTTTGATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
14 25 0.96
15 1 0.04
ACGTcount: A:0.25, C:0.20, G:0.16, T:0.39
Consensus pattern (14 bp):
TTGCATTCATAGCA
Found at i:4042316 original size:45 final size:46
Alignment explanation
Indices: 4042244--4042363 Score: 124
Period size: 44 Copynumber: 2.7 Consensus size: 46
4042234 AGAGCCTTTC
* * * *
4042244 AAATTTT-ATAAAGTTGTTAAGGCTTTGATGAGAAAAG-C-CTTTTA
1 AAATTTTCA-AAAGTTGATGAGCCTTTGATGAGAAAAGACTCTTTGA
* *
4042288 TAAATTTTCAAAAGTTGATGAGCTTTTGAT--GAAATGACTCTTTGA
1 -AAATTTTCAAAAGTTGATGAGCCTTTGATGAGAAAAGACTCTTTGA
*
4042333 AATTTTTCAAAAGTTGATGAGCCTTTGATGA
1 AAATTTTCAAAAGTTGATGAGCCTTTGATGA
4042364 AATGAGCTTT
Statistics
Matches: 62, Mismatches: 8, Indels: 9
0.78 0.10 0.11
Matches are distributed among these distances:
43 5 0.08
44 28 0.45
45 28 0.45
46 1 0.02
ACGTcount: A:0.34, C:0.08, G:0.18, T:0.39
Consensus pattern (46 bp):
AAATTTTCAAAAGTTGATGAGCCTTTGATGAGAAAAGACTCTTTGA
Found at i:4042509 original size:44 final size:44
Alignment explanation
Indices: 4042461--4042571 Score: 127
Period size: 43 Copynumber: 2.5 Consensus size: 44
4042451 AGATGAACCA
* ** *
4042461 TTTAAATTTTTTCAAAGTTGTTGAGCTTCTTTTTA-AATGAGCTT
1 TTTAAATTTTTTCAAAGTTGTTGAGCCTCTAATTAGAAT-AGCCT
*
4042505 TTTAAA-ATTTTCAAAGTTGTTGAGCCTCTAATTAGAATAGCCT
1 TTTAAATTTTTTCAAAGTTGTTGAGCCTCTAATTAGAATAGCCT
* * *
4042548 TTTATATTTTTTAAAAGTTATTGA
1 TTTAAATTTTTTCAAAGTTGTTGA
4042572 ACCTTTGTTT
Statistics
Matches: 56, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
43 33 0.59
44 23 0.41
ACGTcount: A:0.30, C:0.09, G:0.13, T:0.49
Consensus pattern (44 bp):
TTTAAATTTTTTCAAAGTTGTTGAGCCTCTAATTAGAATAGCCT
Found at i:4042551 original size:43 final size:43
Alignment explanation
Indices: 4042409--4042551 Score: 121
Period size: 43 Copynumber: 3.3 Consensus size: 43
4042399 GATTTTGATG
* * * * *
4042409 AAATGAGCCTTTT-CAATTTTC-AAGTTTGTTAAGTCTCTGATG
1 AAATGAGCCTTTTAAAATTTTCAAAG-TTGTTGAGCCTCTAATT
* * * * * **
4042451 AGATGAACCATTTAAATTTTTTCAAAGTTGTTGAGCTTCTTTTT
1 AAATGAGCCTTTTAAA-ATTTTCAAAGTTGTTGAGCCTCTAATT
*
4042495 AAATGAGCTTTTTAAAATTTTCAAAGTTGTTGAGCCTCTAATT
1 AAATGAGCCTTTTAAAATTTTCAAAGTTGTTGAGCCTCTAATT
4042538 AGAAT-AGCCTTTTA
1 A-AATGAGCCTTTTA
4042552 TATTTTTTAA
Statistics
Matches: 77, Mismatches: 20, Indels: 7
0.74 0.19 0.07
Matches are distributed among these distances:
42 10 0.13
43 33 0.43
44 31 0.40
45 3 0.04
ACGTcount: A:0.29, C:0.13, G:0.15, T:0.43
Consensus pattern (43 bp):
AAATGAGCCTTTTAAAATTTTCAAAGTTGTTGAGCCTCTAATT
Found at i:4042624 original size:43 final size:44
Alignment explanation
Indices: 4042546--4042637 Score: 134
Period size: 43 Copynumber: 2.1 Consensus size: 44
4042536 TTAGAATAGC
* * *
4042546 CTTTTATATTTTTTAAAAGTTATTGAACCTTTGTTTAGATGAGT
1 CTTTTATATTTTTCAAAAGTCATTGAACCTTTGTTTAAATGAGT
4042590 CTTTTATA-TTTTCAAAAGTCATTGAA-CTTCTGTTTAAATGAGT
1 CTTTTATATTTTTCAAAAGTCATTGAACCTT-TGTTTAAATGAGT
4042633 CTTTT
1 CTTTT
4042638 CAAAACAATG
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
42 3 0.07
43 33 0.75
44 8 0.18
ACGTcount: A:0.27, C:0.10, G:0.12, T:0.51
Consensus pattern (44 bp):
CTTTTATATTTTTCAAAAGTCATTGAACCTTTGTTTAAATGAGT
Found at i:4043710 original size:14 final size:14
Alignment explanation
Indices: 4043671--4043717 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
4043661 TTCCTTTTAG
4043671 TATTTTGATT-ATT
1 TATTTTGATTAATT
*
4043684 TATTTTTGGTTAATT
1 TA-TTTTGATTAATT
*
4043699 TATTTTGATTAAGT
1 TATTTTGATTAATT
4043713 TATTT
1 TATTT
4043718 ATTTGTTGTA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
13 2 0.07
14 22 0.76
15 5 0.17
ACGTcount: A:0.23, C:0.00, G:0.11, T:0.66
Consensus pattern (14 bp):
TATTTTGATTAATT
Found at i:4046668 original size:14 final size:14
Alignment explanation
Indices: 4046651--4046693 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
4046641 CGTTATAAAA
*
4046651 AAATGAATAAAAGC
1 AAATAAATAAAAGC
*
4046665 AAATAAATAAAAGGA
1 AAATAAATAAAA-GC
4046680 ATAATAAATAAAAG
1 A-AATAAATAAAAG
4046694 AGATATACCA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 11 0.44
15 3 0.12
16 11 0.44
ACGTcount: A:0.70, C:0.02, G:0.12, T:0.16
Consensus pattern (14 bp):
AAATAAATAAAAGC
Found at i:4048212 original size:22 final size:23
Alignment explanation
Indices: 4048187--4048249 Score: 69
Period size: 22 Copynumber: 2.8 Consensus size: 23
4048177 AAATATTCGT
4048187 ATTTAAAAAATTTAC-TTAT-AAA
1 ATTTAAAAAATTTACATT-TCAAA
*
4048209 ATTT-AAATATTTACATTTCAAA
1 ATTTAAAAAATTTACATTTCAAA
* *
4048231 AATTAAAAAATTTATATTT
1 ATTTAAAAAATTTACATTT
4048250 AACATTGAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
21 10 0.29
22 12 0.35
23 12 0.35
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (23 bp):
ATTTAAAAAATTTACATTTCAAA
Found at i:4048270 original size:44 final size:43
Alignment explanation
Indices: 4048189--4048277 Score: 108
Period size: 44 Copynumber: 2.0 Consensus size: 43
4048179 ATATTCGTAT
* *
4048189 TTAAAAAATTTACTTATAAAATTTAAATATTTACATTTCAAAAA
1 TTAAAAAATTTACTTATAAAATTGAAAGATTTACATTT-AAAAA
* * *
4048233 TTAAAAAATTTA-TATTTAACATTGAAAGATTTGCATTTAAAAA
1 TTAAAAAATTTACT-TATAAAATTGAAAGATTTACATTTAAAAA
4048276 TT
1 TT
4048278 TTAGAGTTCA
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
43 8 0.21
44 31 0.79
ACGTcount: A:0.49, C:0.06, G:0.03, T:0.42
Consensus pattern (43 bp):
TTAAAAAATTTACTTATAAAATTGAAAGATTTACATTTAAAAA
Found at i:4048317 original size:21 final size:21
Alignment explanation
Indices: 4048190--4048317 Score: 71
Period size: 21 Copynumber: 6.0 Consensus size: 21
4048180 TATTCGTATT
*
4048190 TAAAAAATTTAC-TTATAAAAT
1 TAAAAAATTTACATT-TAAAAA
* *
4048211 TTAAATATTTACATTTCAAAAA
1 TAAAAAATTTACATTT-AAAAA
* * *
4048233 TTAAAAAATTTATATTTAACAT
1 -TAAAAAATTTACATTTAAAAA
* * *
4048255 TGAAAGATTTGCATTTAAAAA
1 TAAAAAATTTACATTTAAAAA
** * * * *
4048276 TTTTAGAGTTCACATCT-AAAA
1 -TAAAAAATTTACATTTAAAAA
4048297 TAAAAAATTTACATTTAAAAA
1 TAAAAAATTTACATTTAAAAA
4048318 ATTTTAGAAA
Statistics
Matches: 74, Mismatches: 28, Indels: 10
0.66 0.25 0.09
Matches are distributed among these distances:
20 10 0.14
21 34 0.46
22 17 0.23
23 13 0.18
ACGTcount: A:0.51, C:0.07, G:0.04, T:0.38
Consensus pattern (21 bp):
TAAAAAATTTACATTTAAAAA
Found at i:4048451 original size:45 final size:45
Alignment explanation
Indices: 4048392--4048919 Score: 330
Period size: 45 Copynumber: 11.9 Consensus size: 45
4048382 AAATTAAAAA
* * *
4048392 ATTCATATATAAAATTTAAATATTTGCATTTGAAAAATTTTAGAG
1 ATTCATATCTAAAATTCAAATATTTACATTTGAAAAATTTTAGAG
* ** ** * *
4048437 ATTAATATCTAAAATTCAAACGTTTATTTTTAAAAAATTTTAAAG
1 ATTCATATCTAAAATTCAAATATTTACATTTGAAAAATTTTAGAG
* *
4048482 ATAT-ATATCTAAAATTAAAAAATTTACATTTG-AAAATTTTA-ATG
1 AT-TCATATCTAAAATTCAAATATTTACATTTGAAAAATTTTAGA-G
* * * * * * ** *
4048526 ATTTAAATC-AAAGTTCAAAGATTTGCATATGAAAAATTTTTTAA
1 ATTCATATCTAAAATTCAAATATTTACATTTGAAAAATTTTAGAG
* * * * * *
4048570 ATTTACATTTAAAATTCAAAAATTCACATTT-AAAAAATTTAGATG
1 ATTCATATCTAAAATTCAAATATTTACATTTGAAAAATTTTAGA-G
* * * * *
4048615 -TTCACATCTAAAGTTCAAATATTTGCATTTAAAAAATTTTAGAA
1 ATTCATATCTAAAATTCAAATATTTACATTTGAAAAATTTTAGAG
* * * *
4048659 ATTCATTTTTAAAATTCAAATATTCACATTTGAAAAA-TTCAGAG
1 ATTCATATCTAAAATTCAAATATTTACATTTGAAAAATTTTAGAG
* * * * ** * *
4048703 ATTGACA--TGAAATTTAAA-AGTTTGTATTTGAGATATTTTAGAG
1 ATTCATATCTAAAATTCAAATA-TTTACATTTGAAAAATTTTAGAG
* * * ** * *
4048746 ATTTATATTTAAAATTCAAGTAATTT-CATTTGAAAAA-TACAAAT
1 ATTCATATCTAAAATTCAAAT-ATTTACATTTGAAAAATTTTAGAG
* * * * *
4048790 ATTCACATCTGAAATTCAAATATTCATATTTGAAATATTTTAGAG
1 ATTCATATCTAAAATTCAAATATTTACATTTGAAAAATTTTAGAG
* *
4048835 ATTTTCATA--TAAATTTCAAATATTCACATTTG-AAAATTTTAGAG
1 A--TTCATATCTAAAATTCAAATATTTACATTTGAAAAATTTTAGAG
* * * *
4048879 ATTCACATCTAAAACTCAAAAATTTACATTTGAAAAGTTTT
1 ATTCATATCTAAAATTCAAATATTTACATTTGAAAAATTTT
4048920 GAAAAAGTTT
Statistics
Matches: 363, Mismatches: 98, Indels: 44
0.72 0.19 0.09
Matches are distributed among these distances:
41 1 0.00
42 24 0.07
43 33 0.09
44 132 0.36
45 163 0.45
46 4 0.01
47 6 0.02
ACGTcount: A:0.44, C:0.08, G:0.07, T:0.40
Consensus pattern (45 bp):
ATTCATATCTAAAATTCAAATATTTACATTTGAAAAATTTTAGAG
Found at i:4048644 original size:44 final size:42
Alignment explanation
Indices: 4048465--4048653 Score: 128
Period size: 44 Copynumber: 4.3 Consensus size: 42
4048455 AACGTTTATT
* * * * *
4048465 TTTAAAAAATTTTAAAGATATATATCTAAAATTAAAAAATTTACA
1 TTTAAAAAA-TTT-AA-ATTTACATCTAAAGTTCAAAAATTTGCA
* * * *
4048510 TTTGAAAATTTTAATGATTTAAATC-AAAGTTCAAAGATTTGCA
1 TTTAAAAAATTTAA--ATTTACATCTAAAGTTCAAAAATTTGCA
* * * * **
4048553 TATGAAAAATTTTTTAAATTTACATTTAAAATTCAAAAATTCACA
1 T-TTAAAAA--ATTTAAATTTACATCTAAAGTTCAAAAATTTGCA
* *
4048598 TTTAAAAAATTTAGATGTTCACATCTAAAGTTCAAATATTTGCA
1 TTTAAAAAATTTAAAT-TT-ACATCTAAAGTTCAAAAATTTGCA
4048642 TTTAAAAAATTT
1 TTTAAAAAATTT
4048654 TAGAAATTCA
Statistics
Matches: 113, Mismatches: 24, Indels: 15
0.74 0.16 0.10
Matches are distributed among these distances:
42 6 0.05
43 19 0.17
44 60 0.53
45 22 0.19
46 6 0.05
ACGTcount: A:0.47, C:0.07, G:0.06, T:0.40
Consensus pattern (42 bp):
TTTAAAAAATTTAAATTTACATCTAAAGTTCAAAAATTTGCA
Found at i:4048688 original size:23 final size:23
Alignment explanation
Indices: 4048580--4048699 Score: 79
Period size: 23 Copynumber: 5.3 Consensus size: 23
4048570 ATTTACATTT
*
4048580 AAAATTCAAAAATTCACATTTAA
1 AAAATTCAAATATTCACATTTAA
* * * *
4048603 AAAATTTAGATGTTCACATCT--
1 AAAATTCAAATATTCACATTTAA
* **
4048624 AAAGTTCAAATATTTGCATTTAA
1 AAAATTCAAATATTCACATTTAA
* **
4048647 AAAATTTTAGAA-ATT--CATTTTT
1 AAAA-TTCA-AATATTCACATTTAA
*
4048669 AAAATTCAAATATTCACATTTGA
1 AAAATTCAAATATTCACATTTAA
4048692 AAAATTCA
1 AAAATTCA
4048700 GAGATTGACA
Statistics
Matches: 71, Mismatches: 19, Indels: 14
0.68 0.18 0.13
Matches are distributed among these distances:
20 2 0.03
21 20 0.28
22 9 0.13
23 32 0.45
24 6 0.08
25 2 0.03
ACGTcount: A:0.47, C:0.11, G:0.05, T:0.38
Consensus pattern (23 bp):
AAAATTCAAATATTCACATTTAA
Found at i:4048804 original size:21 final size:21
Alignment explanation
Indices: 4048780--4048826 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
4048770 TTCATTTGAA
4048780 AAATACAAATATTCACATCTG
1 AAATACAAATATTCACATCTG
* * *
4048801 AAATTCAAATATTCATATTTG
1 AAATACAAATATTCACATCTG
4048822 AAATA
1 AAATA
4048827 TTTTAGAGAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.49, C:0.13, G:0.04, T:0.34
Consensus pattern (21 bp):
AAATACAAATATTCACATCTG
Found at i:4048813 original size:176 final size:175
Alignment explanation
Indices: 4048570--4048886 Score: 397
Period size: 176 Copynumber: 1.8 Consensus size: 175
4048560 AATTTTTTAA
** * *
4048570 ATTTACATTTAAAATTCAAAAATTCACATTTAAAAAATTTAGATGTTCACATCTAAAGTTCAAAT
1 ATTTACATTTAAAATTCAAAAATTCACATTTAAAAAATACAAATATTCACATCTAAAGTTCAAAT
** *
4048635 ATTTGCATTTAAAAAATTTTAGAAATTCATT-TTTAAAATTCAAATATTCACATTTGAAAAATTC
66 ATTCACATTTAAAAAATTTTAGAAATT--TTATATAAAATTCAAATATTCACATTTGAAAAATTC
*
4048699 AGAGATTGACATGAAATTTAAAAGTTTGTATTTGAGATATTTTAGAG
129 AGAGATTCACATGAAATTTAAAAGTTTGTATTTGAGATATTTTAGAG
* * * *
4048746 ATTTATATTTAAAATTCAAGTAATT-TCATTTGAAAAATACAAATATTCACATCTGAAA-TTCAA
1 ATTTACATTTAAAATTCAA-AAATTCACATTTAAAAAATACAAATATTCACATCT-AAAGTTCAA
* * * * * *
4048809 ATATTCATATTTGAAATATTTTAGAGATTTTCATATAAATTTCAAATATTCACATTTGAAAATTT
64 ATATTCACATTTAAAAAATTTTAGAAATTTT-ATATAAAATTCAAATATTCACATTTGAAAAATT
*
4048874 TAGAGATTCACAT
128 CAGAGATTCACAT
4048887 CTAAAACTCA
Statistics
Matches: 118, Mismatches: 19, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
174 2 0.02
176 109 0.92
177 7 0.06
ACGTcount: A:0.43, C:0.09, G:0.08, T:0.40
Consensus pattern (175 bp):
ATTTACATTTAAAATTCAAAAATTCACATTTAAAAAATACAAATATTCACATCTAAAGTTCAAAT
ATTCACATTTAAAAAATTTTAGAAATTTTATATAAAATTCAAATATTCACATTTGAAAAATTCAG
AGATTCACATGAAATTTAAAAGTTTGTATTTGAGATATTTTAGAG
Found at i:4048833 original size:89 final size:89
Alignment explanation
Indices: 4048418--4048913 Score: 312
Period size: 89 Copynumber: 5.6 Consensus size: 89
4048408 TAAATATTTG
* * * * * ** * * * * *
4048418 CATTTGAAAAATTTTAGAGATTAATATCTAAAATTCAAACGTTTATTTTTAAAAAATTTTAAAGA
1 CATTTGAAAAA-TTCAGATATTCACATCTGAAATTCAAATATTTGTATTTGAAATATTTTAGAGA
* * * * *
4048483 TATATATCTAAAATTAAAAAATTTA
65 TTTATATTTAAAATTCAATAATTCA
* * * * * * * * ** *
4048508 CATTTGAAAATTTTA-ATGATTTAAATC--AAAGTTCAAAGATTTGCATATGAAAAATTTTTTAA
1 CATTTGAAAAATTCAGAT-ATTCACATCTGAAA-TTCAAATATTTGTATTTGAAATATTTTAGAG
* *
4048570 ATTTACATTTAAAATTCAAAAATTCA
64 ATTTATATTTAAAATTCAATAATTCA
* * * * * * *
4048596 CATTTAAAAAATTTAGATGTTCACATCT-AAAGTTCAAATATTTGCATTTAAAAAATTTTAGAAA
1 CATTTGAAAAATTCAGATATTCACATCTGAAA-TTCAAATATTTGTATTTGAAATATTTTAGAGA
* *
4048660 TTCATTTTTAAAATTCAA-ATATTCA
65 TTTATATTTAAAATTCAATA-ATTCA
* * * *
4048685 CATTTGAAAAATTCAGAGATTGACA--TGAAATTTAAA-AGTTTGTATTTGAGATATTTTAGAGA
1 CATTTGAAAAATTCAGATATTCACATCTGAAATTCAAATA-TTTGTATTTGAAATATTTTAGAGA
*
4048747 TTTATATTTAAAATTCAAGTAATT-T
65 TTTATATTTAAAATTCAA-TAATTCA
* * **
4048772 CATTTGAAAAATACAAATATTCACATCTGAAATTCAAATATTCATATTTGAAATATTTTAGAGAT
1 CATTTGAAAAATTCAGATATTCACATCTGAAATTCAAATATTTGTATTTGAAATATTTTAGAGAT
* *
4048837 TT-TCATATAAATTTCAA-ATATTCA
66 TTAT-ATTTAAAATTCAATA-ATTCA
* * * * * * **
4048861 CATTTGAAAATTTTAGAGATTCACATCTAAAACTCAAAAATTTACATTTGAAA
1 CATTTGAAAAATTCAGATATTCACATCTGAAATTCAAATATTTGTATTTGAAA
4048914 AGTTTTGAAA
Statistics
Matches: 324, Mismatches: 67, Indels: 31
0.77 0.16 0.07
Matches are distributed among these distances:
86 1 0.00
87 66 0.20
88 73 0.23
89 173 0.53
90 11 0.03
ACGTcount: A:0.45, C:0.08, G:0.07, T:0.40
Consensus pattern (89 bp):
CATTTGAAAAATTCAGATATTCACATCTGAAATTCAAATATTTGTATTTGAAATATTTTAGAGAT
TTATATTTAAAATTCAATAATTCA
Found at i:4048882 original size:23 final size:23
Alignment explanation
Indices: 4048811--4048886 Score: 66
Period size: 23 Copynumber: 3.3 Consensus size: 23
4048801 AAATTCAAAT
*
4048811 ATTCATATTTGAAATATTTTAGAG
1 ATTCACATTTGAAA-ATTTTAGAG
** * * * *
4048835 ATTTTCATAT--AAATTTCAAAT
1 ATTCACATTTGAAAATTTTAGAG
4048856 ATTCACATTTGAAAATTTTAGAG
1 ATTCACATTTGAAAATTTTAGAG
4048879 ATTCACAT
1 ATTCACAT
4048887 CTAAAACTCA
Statistics
Matches: 37, Mismatches: 13, Indels: 5
0.67 0.24 0.09
Matches are distributed among these distances:
21 13 0.35
22 2 0.05
23 16 0.43
24 6 0.16
ACGTcount: A:0.39, C:0.09, G:0.08, T:0.43
Consensus pattern (23 bp):
ATTCACATTTGAAAATTTTAGAG
Found at i:4054120 original size:37 final size:37
Alignment explanation
Indices: 4054079--4054153 Score: 98
Period size: 37 Copynumber: 2.0 Consensus size: 37
4054069 CCCCATGAAC
*
4054079 AAATTTTATGTGTAACAATACTAAGTAAATG-TATTTT
1 AAATTTTATATGTAACAATACTAAGTAAA-GATATTTT
* **
4054116 AAATTTTATATGTAATAATTTTAAGTAAAGATATTTT
1 AAATTTTATATGTAACAATACTAAGTAAAGATATTTT
4054153 A
1 A
4054154 CTTCTAAATT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
36 1 0.03
37 32 0.97
ACGTcount: A:0.43, C:0.03, G:0.09, T:0.45
Consensus pattern (37 bp):
AAATTTTATATGTAACAATACTAAGTAAAGATATTTT
Found at i:4054229 original size:41 final size:40
Alignment explanation
Indices: 4054184--4054267 Score: 114
Period size: 41 Copynumber: 2.1 Consensus size: 40
4054174 TATTTTTGAT
*
4054184 TTTTTCAACAAAAACTACATTTTGATCTTAAAAATGCTATC
1 TTTTTCAACAAAAACTACATTTT-ATCTTAAAAACGCTATC
* ** *
4054225 TTTTTTAACAAAAACTATGTTTTATCTTAAAAACGTTATC
1 TTTTTCAACAAAAACTACATTTTATCTTAAAAACGCTATC
4054265 TTT
1 TTT
4054268 GTTGAATTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
40 18 0.47
41 20 0.53
ACGTcount: A:0.37, C:0.14, G:0.05, T:0.44
Consensus pattern (40 bp):
TTTTTCAACAAAAACTACATTTTATCTTAAAAACGCTATC
Found at i:4054265 original size:40 final size:42
Alignment explanation
Indices: 4054183--4054267 Score: 120
Period size: 40 Copynumber: 2.1 Consensus size: 42
4054173 ATATTTTTGA
*
4054183 TTTTTTCAACAAAAACTACATTTTGATCTTAAAAATGCTATC
1 TTTTTTCAACAAAAACTACATTTTGATCTTAAAAACGCTATC
** *
4054225 TTTTTT-AACAAAAACTATGTTTT-ATCTTAAAAACGTTATC
1 TTTTTTCAACAAAAACTACATTTTGATCTTAAAAACGCTATC
4054265 TTT
1 TTT
4054268 GTTGAATTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
40 18 0.46
41 15 0.38
42 6 0.15
ACGTcount: A:0.36, C:0.14, G:0.05, T:0.45
Consensus pattern (42 bp):
TTTTTTCAACAAAAACTACATTTTGATCTTAAAAACGCTATC
Found at i:4056532 original size:194 final size:193
Alignment explanation
Indices: 4056169--4056536 Score: 495
Period size: 193 Copynumber: 1.9 Consensus size: 193
4056159 AATTTTTAAG
* * * * *
4056169 AAATCAAGAATGACTTATTTTCTTAGAGATTTCTAGTTGAGAAGTTGCATTTAAATTCTTTAAAA
1 AAATAAAGAATAACTTATTTTCTTAGAGATTTCTAGATGAGAAATTGCATTTAAATTCTCTAAAA
** * * * *
4056234 TGGTGAAAATTTTAAATAAAAATTTCAAAATAAATAATTGACATATATTTCAACTAGTAATAAAA
66 TGGCAAAAAATTTAAATAAAAATCTCAAAATAAATAATTGACATATATTTCAACCAATAATAAAA
* ** *
4056299 ATAAAATAAAAATTTTAAGGTTTTAGAATTAATTGAAAATTATTTTGATGATGAGATTCTAAA
131 ATAAAATAAAAATTTTAAGATTTTAGAAAAAAATGAAAATTATTTTGATGATGAGATTCTAAA
* ** *
4056362 AAATAAAGAATAACTTATTTTCTTAGAGATTTTTAGATGAGAAATTTTATTTAAATTCTCTATAA
1 AAATAAAGAATAACTTATTTTCTTAGAGATTTCTAGATGAGAAATTGCATTTAAATTCTCTAAAA
* * * * *
4056427 TGGCAAAAAATTTAGATGAAAATCTCAAAATCAATAATTTACATTTATTTTCAACCAATAATAAA
66 TGGCAAAAAATTTAAATAAAAATCTCAAAATAAATAATTGACATATA-TTTCAACCAATAATAAA
4056492 AATAAAATAAAAATTTTAAGATTTT-GATAAAAAATGAAAATTATT
130 AATAAAATAAAAATTTTAAGATTTTAGA-AAAAAATGAAAATTATT
4056537 CTAATGATAA
Statistics
Matches: 149, Mismatches: 24, Indels: 3
0.85 0.14 0.02
Matches are distributed among these distances:
193 96 0.64
194 53 0.36
ACGTcount: A:0.47, C:0.06, G:0.10, T:0.38
Consensus pattern (193 bp):
AAATAAAGAATAACTTATTTTCTTAGAGATTTCTAGATGAGAAATTGCATTTAAATTCTCTAAAA
TGGCAAAAAATTTAAATAAAAATCTCAAAATAAATAATTGACATATATTTCAACCAATAATAAAA
ATAAAATAAAAATTTTAAGATTTTAGAAAAAAATGAAAATTATTTTGATGATGAGATTCTAAA
Found at i:4056590 original size:194 final size:193
Alignment explanation
Indices: 4056166--4056614 Score: 508
Period size: 194 Copynumber: 2.3 Consensus size: 193
4056156 TTGAATTTTT
* * * ** *
4056166 AAGAAATCAAGAATGACTTATTTTCTTAGAGATTTCTAGTTGAGAAGTTGCATTTAAATTCTTTA
1 AAGAAATCAAGAATG-CTTATTTTCTTAGAGATTTTTAGATGAGAAATTTTATTTAAATTCTCTA
** * * * *
4056231 AAATGGTGAAAATTTTAAATAAAAATTTCAAAATAAATAATTGACATATATTTCAACTAGTAATA
65 AAATGGCAAAAAATTTAAATAAAAATCTCAAAATAAATAATTGACATATATTTCAACCAATAATA
* ** * * * *
4056296 AAAATAAAATAAAAATTTTAAGGTTTTAGAATTAATTGAAAATTATTTTGATGATGAGATTCTA
130 AAAATAAAATAAAAATTTTAAGATTTTAGAAAAAAATGAAAATTATTCTAATGATAAGATTCTA
* *
4056360 AA-AAATAAAGAATAACTTATTTTCTTAGAGATTTTTAGATGAGAAATTTTATTTAAATTCTCTA
1 AAGAAATCAAGAAT-GCTTATTTTCTTAGAGATTTTTAGATGAGAAATTTTATTTAAATTCTCTA
* * * * * *
4056424 TAATGGCAAAAAATTTAGATGAAAATCTCAAAATCAATAATTTACATTTATTTTCAACCAATAAT
65 AAATGGCAAAAAATTTAAATAAAAATCTCAAAATAAATAATTGACATATA-TTTCAACCAATAAT
*
4056489 AAAAATAAAATAAAAATTTTAAGATTTT-GATAAAAAATGAAAATTATTCTAATGATAATATT-T
129 AAAAATAAAATAAAAATTTTAAGATTTTAGA-AAAAAATGAAAATTATTCTAATGATAAGATTCT
4056552 A
193 A
* * * * * ** *
4056553 AAGAAGTCAAGAATGGTTAATTTTTTTAGAAATTTTTAGGTGAGTGACTTTATTTAAATTCT
1 AAGAAATCAAGAATGCTT-ATTTTCTTAGAGATTTTTAGATGAGAAATTTTATTTAAATTCT
4056615 TTAGAATGAT
Statistics
Matches: 212, Mismatches: 38, Indels: 10
0.82 0.15 0.04
Matches are distributed among these distances:
193 101 0.48
194 111 0.52
ACGTcount: A:0.45, C:0.06, G:0.11, T:0.38
Consensus pattern (193 bp):
AAGAAATCAAGAATGCTTATTTTCTTAGAGATTTTTAGATGAGAAATTTTATTTAAATTCTCTAA
AATGGCAAAAAATTTAAATAAAAATCTCAAAATAAATAATTGACATATATTTCAACCAATAATAA
AAATAAAATAAAAATTTTAAGATTTTAGAAAAAAATGAAAATTATTCTAATGATAAGATTCTA
Found at i:4059745 original size:29 final size:29
Alignment explanation
Indices: 4059692--4059747 Score: 71
Period size: 29 Copynumber: 1.9 Consensus size: 29
4059682 TGTGGTAAAA
*
4059692 AACAAATAATATAATTAATATTAAATATC
1 AACAAATAATATAATGAATATTAAATATC
4059721 AACAAAT-ATATATATGAAT-TATAAATA
1 AACAAATAATATA-ATGAATAT-TAAATA
4059748 AGGACATTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
28 6 0.25
29 18 0.75
ACGTcount: A:0.59, C:0.05, G:0.02, T:0.34
Consensus pattern (29 bp):
AACAAATAATATAATGAATATTAAATATC
Found at i:4060295 original size:17 final size:18
Alignment explanation
Indices: 4060273--4060314 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
4060263 GTGTGCATAG
*
4060273 AAAATAAAATT-GAATAA
1 AAAATAAAATTACAATAA
*
4060290 AAAAT-AATTTACAATAA
1 AAAATAAAATTACAATAA
4060307 AAAATAAA
1 AAAATAAA
4060315 TTGCATGGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
16 4 0.19
17 15 0.71
18 2 0.10
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.24
Consensus pattern (18 bp):
AAAATAAAATTACAATAA
Found at i:4062578 original size:143 final size:143
Alignment explanation
Indices: 4062270--4062675 Score: 440
Period size: 143 Copynumber: 2.8 Consensus size: 143
4062260 TCGTTTTTTG
* * * * *
4062270 GATTTT-AAAGTATAAAAAATCATAAAATATTATAAAATTGATATCTGAAAAATTTCGTGAAAAC
1 GATTTTAAAAGCATAAAAAATCATAAAATATTATAAAATTGAGATATGAAAAATTTCATGAAAAT
* * * * * * *
4062334 CCAAGCTTGAGAATGTCAAATTACAAAAATACCCCTTAGGGGTATTTTGGTAATTTCACACCTTT
66 TCAAGCTCGAAAATGTCAAATTAC-GAAATACCCCTAAAGGGTATTTTGGTAATTTCACACCTCT
* * *
4062399 TGGTGTACTGTTGT
130 AGGTGTACTGCTAT
* * * * *
4062413 GAGTTTAAATGCATCAAAAATCATAAAATATTATAAAATTAAGATATGAAAAGTTTCATGAAAAT
1 GATTTTAAAAGCATAAAAAATCATAAAATATTATAAAATTGAGATATGAAAAATTTCATGAAAAT
* * * * * *
4062478 TCAAGCTCGATAAGGCCAAACTACGAAATACCCCTAAAGGGTATTTTGGTAATTTCATATCTCTA
66 TCAAGCTCGAAAATGTCAAATTACGAAATACCCCTAAAGGGTATTTTGGTAATTTCACACCTCTA
*
4062543 GAG-GTATTGCTAT
131 G-GTGTACTGCTAT
* * * * *
4062556 GATTTTAAAAGCATAAAAAATCATGAAATATAATGAAATTGAGATTTGAAAAATTTTATGAAAAT
1 GATTTTAAAAGCATAAAAAATCATAAAATATTATAAAATTGAGATATGAAAAATTTCATGAAAAT
* * * *
4062621 TCGAGCTCAAAAATGTTAAATTACGAAAATACCCCTAAAGGGTA-TTTAGTAATTT
66 TCAAGCTCGAAAATGTCAAATTACG-AAATACCCCTAAAGGGTATTTTGGTAATTT
4062676 TATAATTCTC
Statistics
Matches: 216, Mismatches: 44, Indels: 6
0.81 0.17 0.02
Matches are distributed among these distances:
143 130 0.60
144 86 0.40
ACGTcount: A:0.42, C:0.12, G:0.14, T:0.32
Consensus pattern (143 bp):
GATTTTAAAAGCATAAAAAATCATAAAATATTATAAAATTGAGATATGAAAAATTTCATGAAAAT
TCAAGCTCGAAAATGTCAAATTACGAAATACCCCTAAAGGGTATTTTGGTAATTTCACACCTCTA
GGTGTACTGCTAT
Found at i:4062704 original size:143 final size:142
Alignment explanation
Indices: 4062416--4062704 Score: 296
Period size: 143 Copynumber: 2.0 Consensus size: 142
4062406 CTGTTGTGAG
* * * *
4062416 TTTAAATGCATCAAAAATCATAAAATATTATAAAATTAAGATATGAAAAGTTTCATGAAAATTCA
1 TTTAAAAGCATAAAAAATCATAAAATATAATAAAATTAAGATATGAAAAATTTCATGAAAATTCA
* * * *
4062481 AGCTCGATAAGGCCAAACTACGAAATACCCCTAAAGGGTATTTTGGTAATTTCATATCTCTAGAG
66 AGCTCAAAAAGGCCAAACTACGAAATACCCCTAAAGGGTATTTTAGTAATTTCATATCTCCAGAG
* * * **
4062546 GTATTGCTATGAT
131 GCAAT-CAAAAAT
* * * * * *
4062559 TTTAAAAGCATAAAAAATCATGAAATATAATGAAATTGAGATTTGAAAAATTTTATGAAAATTCG
1 TTTAAAAGCATAAAAAATCATAAAATATAATAAAATTAAGATATGAAAAATTTCATGAAAATTCA
* ** * *
4062624 AGCTCAAAAATGTTAAATTACGAAAATACCCCTAAAGGGTA-TTTAGTAATTTTATAATTCTCCA
66 AGCTCAAAAAGGCCAAACTACG-AAATACCCCTAAAGGGTATTTTAGTAATTTCAT-A-TCTCCA
4062688 -AGTGCAAT-AAAAAT
128 GAG-GCAATCAAAAAT
4062702 TTT
1 TTT
4062705 TAATATTTCA
Statistics
Matches: 118, Mismatches: 24, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
143 89 0.75
144 21 0.18
145 8 0.07
ACGTcount: A:0.44, C:0.11, G:0.13, T:0.32
Consensus pattern (142 bp):
TTTAAAAGCATAAAAAATCATAAAATATAATAAAATTAAGATATGAAAAATTTCATGAAAATTCA
AGCTCAAAAAGGCCAAACTACGAAATACCCCTAAAGGGTATTTTAGTAATTTCATATCTCCAGAG
GCAATCAAAAAT
Found at i:4070307 original size:131 final size:134
Alignment explanation
Indices: 4070146--4070522 Score: 357
Period size: 132 Copynumber: 2.9 Consensus size: 134
4070136 TGTTTTAGGT
* * * **
4070146 AAAAAATACCTTCAATAATC-CTCTTAAATTTTTTAGAAGAGATTATTGAAGGTATTTTTT-TTA
1 AAAAAATGCCTTCAATAATCTCT-TTTAATTTTTTAGAAGAGATTATTGAAGGCATTTTTTGGCA
* * ** **
4070209 AAAAAAGGCCTTCGATAATCCTGTTTAACTTTTTT-G-AGAGGATTATTGAAGGTGTTTT-T-TA
65 AAAAAAGGCCTTCAATAATCCTATCCAA-TTTTTTAGAAG-GGATTATTGAAGGCATTTTCTGTA
*
4070270 CAAAAAA
128 AAAAAAA
* *
4070277 AAAAAATGCCTTCAAAAATCTCTTTTAATTTTTTA-AAGGAGATTATTGATGGCATTTTTTGGCA
1 AAAAAATGCCTTCAATAATCTCTTTTAATTTTTTAGAA-GAGATTATTGAAGGCATTTTTTGGCA
* *
4070341 AAAAAATGCCTTCAATAATCTTATCCAATTTTTTAGAAGGGATTATTGAAGGCATTTTCTGTAAA
65 AAAAAAGGCCTTCAATAATCCTATCCAATTTTTTAGAAGGGATTATTGAAGGCATTTTCTGTAAA
4070406 AAAAA
130 AAAAA
* * * * *
4070411 AAAAAAAGCCTTTAATAATCTC-CTTCATTTTTTATG-AGAAGATTATTGAAGGCATTTTGT-GC
1 AAAAAATGCCTTCAATAATCTCTTTTAATTTTTTA-GAAG-AGATTATTGAAGGCATTTTTTGGC
* * * * *
4070473 -AGAAAACGCTTTCAATAATCCCT-TACAATTTTTTATG-AGAGATTATTGAA
64 AAAAAAAGGCCTTCAATAAT-CCTATCCAATTTTTTA-GAAGGGATTATTGAA
4070523 TGTGTTTCGA
Statistics
Matches: 205, Mismatches: 29, Indels: 23
0.80 0.11 0.09
Matches are distributed among these distances:
130 2 0.01
131 55 0.27
132 82 0.40
133 19 0.09
134 47 0.23
ACGTcount: A:0.37, C:0.11, G:0.14, T:0.38
Consensus pattern (134 bp):
AAAAAATGCCTTCAATAATCTCTTTTAATTTTTTAGAAGAGATTATTGAAGGCATTTTTTGGCAA
AAAAAGGCCTTCAATAATCCTATCCAATTTTTTAGAAGGGATTATTGAAGGCATTTTCTGTAAAA
AAAA
Found at i:4070408 original size:64 final size:63
Alignment explanation
Indices: 4070146--4070410 Score: 216
Period size: 64 Copynumber: 4.1 Consensus size: 63
4070136 TGTTTTAGGT
* * * * * *
4070146 AAAAAATACCTTCAATAATCCTCTTAAATTTTTTAGAAGAGATTATTGAAGGTATTTT-TTTTA
1 AAAAAATGCCTTCAATAATCCT-TTTAATTTTTTAGAAGGGATTATTGAAGGCATTTTCTGTAA
* * **
4070209 AAAAAAGGCCTTCGATAATCCTGTTTAACTTTTTT-G-AGAGGATTATTGAAGGTGTTTTTTACA
1 AAAAAATGCCTTCAATAATCCT-TTTAA-TTTTTTAGAAG-GGATTATTGAA-G-GCATTTT-C-
***
4070272 AAAAA
59 TGTAA
* * * **
4070277 AAAAAATGCCTTCAAAAATCTCTTTTAATTTTTTA-AAGGAGATTATTGATGGCATTTTTTGGCA
1 AAAAAATGCCTTCAATAATC-CTTTTAATTTTTTAGAAGG-GATTATTGAAGGCATTTTCTGTAA
*
4070341 AAAAAATGCCTTCAATAAT-CTTATCCAATTTTTTAGAAGGGATTATTGAAGGCATTTTCTGTAA
1 AAAAAATGCCTTCAATAATCCTT-T-TAATTTTTTAGAAGGGATTATTGAAGGCATTTTCTGTAA
4070405 AAAAAA
1 AAAAAA
4070411 AAAAAAAGCC
Statistics
Matches: 160, Mismatches: 28, Indels: 27
0.74 0.13 0.13
Matches are distributed among these distances:
62 5 0.03
63 35 0.22
64 61 0.38
65 10 0.06
66 5 0.03
67 8 0.05
68 34 0.21
69 2 0.01
ACGTcount: A:0.37, C:0.11, G:0.14, T:0.38
Consensus pattern (63 bp):
AAAAAATGCCTTCAATAATCCTTTTAATTTTTTAGAAGGGATTATTGAAGGCATTTTCTGTAA
Found at i:4070554 original size:63 final size:63
Alignment explanation
Indices: 4070410--4070556 Score: 149
Period size: 62 Copynumber: 2.3 Consensus size: 63
4070400 TGTAAAAAAA
* * * *
4070410 AAAAAAAAGCCTTTAATAATCTCCTTCATTTTTTATGAGAAGATTATTGAAGGCATTTTGTGC
1 AAAAAAAACCCTTCAATAATCTCCTTCATTTTTTATGAGAAGATTATTGAAGGCATTTCGAGC
* * * **
4070473 --AGAAAACGCTTTCAATAATC-CCTTACAATTTTTTATGAG-AGATTATTGAATGTGTTTCGAG
1 AAAAAAAAC-CCTTCAATAATCTCCTT-C-ATTTTTTATGAGAAGATTATTGAAGGCATTTCGAG
4070534 C
63 C
*
4070535 AAAAAAAACCCTTGAATAATCT
1 AAAAAAAACCCTTCAATAATCT
4070557 GCCCATAAAA
Statistics
Matches: 66, Mismatches: 12, Indels: 11
0.74 0.13 0.12
Matches are distributed among these distances:
61 9 0.14
62 29 0.44
63 22 0.33
64 6 0.09
ACGTcount: A:0.37, C:0.14, G:0.14, T:0.35
Consensus pattern (63 bp):
AAAAAAAACCCTTCAATAATCTCCTTCATTTTTTATGAGAAGATTATTGAAGGCATTTCGAGC
Found at i:4071145 original size:89 final size:89
Alignment explanation
Indices: 4070977--4071154 Score: 274
Period size: 88 Copynumber: 2.0 Consensus size: 89
4070967 CGCCTTTAAT
*
4070977 AATCTTCTAAAATTTTTTTGAAAAAATTATTGAAGGTATTTTTTTACAGAAAAACACCTTAAATA
1 AATCTTCTAAAATTTTTTTGAAAAAATTATTGAAGGTATTTTTTTACAGAAAAACACATTAAATA
*
4071042 ATCATTTCTATTTTTTATAAGCAG
66 ACCATTTCTATTTTTTATAAGCAG
*
4071066 AATCTTCTAAAA-TTTTTT-AAGAAAATTATTGAAGGTATTTTTTTTACAG-AAAACACATTCAA
1 AATCTTCTAAAATTTTTTTGAA-AAAATTATTGAAGGTA-TTTTTTTACAGAAAAACACATTAAA
4071128 TAACCACTTT-TATTTTTTATAAGCAG
64 TAACCA-TTTCTATTTTTTATAAGCAG
4071154 A
1 A
4071155 TTATTCAATA
Statistics
Matches: 83, Mismatches: 3, Indels: 7
0.89 0.03 0.08
Matches are distributed among these distances:
87 2 0.02
88 55 0.66
89 26 0.31
ACGTcount: A:0.39, C:0.11, G:0.08, T:0.42
Consensus pattern (89 bp):
AATCTTCTAAAATTTTTTTGAAAAAATTATTGAAGGTATTTTTTTACAGAAAAACACATTAAATA
ACCATTTCTATTTTTTATAAGCAG
Found at i:4077792 original size:17 final size:17
Alignment explanation
Indices: 4077761--4077794 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
4077751 TTTAATTATC
* *
4077761 TAGAGTTTTATTTTTTT
1 TAGAGTTTGAGTTTTTT
4077778 TAGAGTTTGAGTTTTTT
1 TAGAGTTTGAGTTTTTT
4077795 ATTTTTTTAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.18, C:0.00, G:0.18, T:0.65
Consensus pattern (17 bp):
TAGAGTTTGAGTTTTTT
Found at i:4079380 original size:2 final size:2
Alignment explanation
Indices: 4079373--4079408 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
4079363 TTACAAGTTC
*
4079373 TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TC TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4079409 TTAATTGCAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:4081056 original size:37 final size:37
Alignment explanation
Indices: 4081015--4081123 Score: 114
Period size: 37 Copynumber: 3.0 Consensus size: 37
4081005 TAGTGTCCCC
* * *
4081015 TACTTGTCACAAAAGAACTAAGTTATTGTGGCAAAAT
1 TACTTGTCACAAAAGAATTTAGTTATTGTGACAAAAT
* * * * *
4081052 TACTTATCACAGAAGAATTTAGGTATTATGACAAAGT
1 TACTTGTCACAAAAGAATTTAGTTATTGTGACAAAAT
*
4081089 CA-TTGGTCACAAAAGAATTTAGTTATTGTGA-AAAA
1 TACTT-GTCACAAAAGAATTTAGTTATTGTGACAAAA
4081124 GTCATGAAAG
Statistics
Matches: 57, Mismatches: 14, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
36 5 0.09
37 52 0.91
ACGTcount: A:0.41, C:0.11, G:0.17, T:0.31
Consensus pattern (37 bp):
TACTTGTCACAAAAGAATTTAGTTATTGTGACAAAAT
Found at i:4082790 original size:30 final size:30
Alignment explanation
Indices: 4082754--4082813 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
4082744 TCTACATGTG
* *
4082754 AATGCATTCAGTTTCTAATAGATGTAGCTT
1 AATGCATTCAATTTCTAATAAATGTAGCTT
*
4082784 AATGCATTCAATTTCTAATAAATGTTGCTT
1 AATGCATTCAATTTCTAATAAATGTAGCTT
4082814 TTTTCTATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.42
Consensus pattern (30 bp):
AATGCATTCAATTTCTAATAAATGTAGCTT
Found at i:4084973 original size:18 final size:19
Alignment explanation
Indices: 4084952--4085039 Score: 70
Period size: 21 Copynumber: 4.5 Consensus size: 19
4084942 TTTTCTTCTC
*
4084952 TTTATTATTTTCCATT-TT
1 TTTATTATTTTACATTATT
*
4084970 TTTATTTTTTTACATTATT
1 TTTATTATTTTACATTATT
* *
4084989 ATTATTATTATTATTATTATT
1 TTTATTATT-TTA-CATTATT
* *
4085010 ATTATTATTATTATTATTATT
1 TTTATTATT-TTA-CATTATT
*
4085031 ATTATTATT
1 TTTATTATT
4085040 ATTATTATTG
Statistics
Matches: 62, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
18 14 0.23
19 9 0.15
20 3 0.05
21 36 0.58
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.69
Consensus pattern (19 bp):
TTTATTATTTTACATTATT
Found at i:4084989 original size:3 final size:3
Alignment explanation
Indices: 4084983--4085054 Score: 135
Period size: 3 Copynumber: 24.0 Consensus size: 3
4084973 ATTTTTTTAC
4084983 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
4085031 ATT ATT ATT ATT ATT ATT GTT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT
4085055 GTTGTTGTTG
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 67 1.00
ACGTcount: A:0.32, C:0.00, G:0.01, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:4085235 original size:21 final size:21
Alignment explanation
Indices: 4085211--4085255 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
4085201 AATTCCATGA
*
4085211 TATATTA-TATTTACATGTTAT
1 TATATTATTA-TTACATGATAT
*
4085232 TATATTGTTATTACATGATAT
1 TATATTATTATTACATGATAT
4085253 TAT
1 TAT
4085256 TTGTATGATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 19 0.90
22 2 0.10
ACGTcount: A:0.33, C:0.04, G:0.07, T:0.56
Consensus pattern (21 bp):
TATATTATTATTACATGATAT
Found at i:4087401 original size:8 final size:8
Alignment explanation
Indices: 4087388--4087417 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
4087378 TTTTTCTTAT
4087388 TGCATTCA
1 TGCATTCA
4087396 TGCATTCA
1 TGCATTCA
*
4087404 TGCATTCC
1 TGCATTCA
4087412 TGCATT
1 TGCATT
4087418 TATTCTCATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.20, C:0.27, G:0.13, T:0.40
Consensus pattern (8 bp):
TGCATTCA
Found at i:4089824 original size:13 final size:14
Alignment explanation
Indices: 4089798--4089836 Score: 53
Period size: 13 Copynumber: 2.8 Consensus size: 14
4089788 ATTTTTTTAA
*
4089798 AAAAAGATAAAAAAT
1 AAAAAGA-AAAAAAG
4089813 AAAAA-AAAAAAAG
1 AAAAAGAAAAAAAG
4089826 AAAAAGAAAAA
1 AAAAAGAAAAA
4089837 GAAATTGATG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
13 11 0.50
14 6 0.27
15 5 0.23
ACGTcount: A:0.87, C:0.00, G:0.08, T:0.05
Consensus pattern (14 bp):
AAAAAGAAAAAAAG
Found at i:4089837 original size:12 final size:11
Alignment explanation
Indices: 4089796--4089840 Score: 56
Period size: 12 Copynumber: 4.0 Consensus size: 11
4089786 AAATTTTTTT
4089796 AAAAAAAGATAA
1 AAAAAAAGA-AA
*
4089808 AAAATAA-AAA
1 AAAAAAAGAAA
4089818 AAAAAAAGAAA
1 AAAAAAAGAAA
4089829 AAGAAAAAGAAA
1 AA-AAAAAGAAA
4089841 TTGATGGGAC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
10 8 0.28
11 6 0.21
12 15 0.52
ACGTcount: A:0.87, C:0.00, G:0.09, T:0.04
Consensus pattern (11 bp):
AAAAAAAGAAA
Found at i:4091382 original size:45 final size:44
Alignment explanation
Indices: 4091325--4091535 Score: 147
Period size: 45 Copynumber: 4.7 Consensus size: 44
4091315 ATGAATATCA
* *
4091325 AAAACTTTTCAAATGTGAATCTTTAAAATGTTGGATATGAAACCTG
1 AAAA-TTTTCAAATGTGAATCTTTAAAAT-TTGGATATGAAACATT
*** * * *
4091371 AAAATTTTCAAAAAAGAATTTTTAAAATTT-TAGTCATGAAAAATT
1 AAAATTTTCAAATGTGAATCTTTAAAATTTGGA-T-ATGAAACATT
* * * ** **
4091416 AAAGTTTT-GAATGTGAATCTTCGAAAATTTGGACGTGAAACCCT
1 AAAATTTTCAAATGTGAATCTT-TAAAATTTGGATATGAAACATT
* * * *
4091460 AAAATTTTTCAGATGAGAATCTTTAAAATTTTGATTATGAAATATT
1 AAAA-TTTTCAAATGTGAATCTTTAAAATTTGGA-TATGAAACATT
* * *
4091506 AAAGTTTTTAAATGTGAATTTTTAAAATTT
1 AAAATTTTCAAATGTGAATCTTTAAAATTT
4091536 TCAATGTGAA
Statistics
Matches: 121, Mismatches: 37, Indels: 15
0.70 0.21 0.09
Matches are distributed among these distances:
43 1 0.01
44 20 0.17
45 76 0.63
46 24 0.20
ACGTcount: A:0.41, C:0.07, G:0.13, T:0.39
Consensus pattern (44 bp):
AAAATTTTCAAATGTGAATCTTTAAAATTTGGATATGAAACATT
Found at i:4091534 original size:90 final size:89
Alignment explanation
Indices: 4091330--4091535 Score: 229
Period size: 90 Copynumber: 2.3 Consensus size: 89
4091320 TATCAAAAAC
* * * *
4091330 TTTTCAAATGTGAATCTTTAAAATGTTGGATATGAAACCTGAAAATTTTCAAAAAAGAATTTTTA
1 TTTTTAAATGTGAATTTTTAAAAT-TTGGACATGAAACCTGAAAATTTTCAAAAAAGAATCTTTA
4091395 AAATTTTAGTCATGAAAAATTAAAG
65 AAATTTTAGTCATGAAAAATTAAAG
* ** * * **
4091420 -TTTTGAATGTGAATCTTCGAAAATTTGGACGTGAAACCCT-AAAATTTTTCAGATGAGAATCTT
1 TTTTTAAATGTGAAT-TTTTAAAATTTGGACATGAAA-CCTGAAAA-TTTTCAAAAAAGAATCTT
* *
4091483 TAAAATTTT-GATTATGAAATATTAAAG
63 TAAAATTTTAG-TCATGAAAAATTAAAG
4091510 TTTTTAAATGTGAATTTTTAAAATTT
1 TTTTTAAATGTGAATTTTTAAAATTT
4091536 TCAATGTGAA
Statistics
Matches: 95, Mismatches: 16, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
89 27 0.28
90 55 0.58
91 13 0.14
ACGTcount: A:0.40, C:0.07, G:0.13, T:0.40
Consensus pattern (89 bp):
TTTTTAAATGTGAATTTTTAAAATTTGGACATGAAACCTGAAAATTTTCAAAAAAGAATCTTTAA
AATTTTAGTCATGAAAAATTAAAG
Found at i:4091541 original size:22 final size:22
Alignment explanation
Indices: 4091459--4091546 Score: 68
Period size: 22 Copynumber: 3.9 Consensus size: 22
4091449 CGTGAAACCC
* *
4091459 TAAAATTTTTCAGATGAGAATCTT
1 TAAAA-TTTTCA-ATGTGAATTTT
* * * * *
4091483 TAAAATTTTGATTATGAAATAT
1 TAAAATTTTCAATGTGAATTTT
* *
4091505 TAAAGTTTTTAAATGTGAATTTT
1 TAAA-ATTTTCAATGTGAATTTT
4091528 TAAAATTTTCAATGTGAAT
1 TAAAATTTTCAATGTGAAT
4091547 CTCTAAGTTT
Statistics
Matches: 48, Mismatches: 15, Indels: 4
0.72 0.22 0.06
Matches are distributed among these distances:
22 22 0.46
23 21 0.44
24 5 0.10
ACGTcount: A:0.40, C:0.03, G:0.11, T:0.45
Consensus pattern (22 bp):
TAAAATTTTCAATGTGAATTTT
Found at i:4091558 original size:22 final size:22
Alignment explanation
Indices: 4091507--4091559 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
4091497 TGAAATATTA
* * *
4091507 AAGTTTTTAAATGTGAATTTTT
1 AAGTTTTTCAATGTGAATCTCT
**
4091529 AAAATTTTCAATGTGAATCTCT
1 AAGTTTTTCAATGTGAATCTCT
4091551 AAGTTTTTC
1 AAGTTTTTC
4091560 GAAAGAAAAT
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.32, C:0.08, G:0.11, T:0.49
Consensus pattern (22 bp):
AAGTTTTTCAATGTGAATCTCT
Found at i:4091613 original size:23 final size:22
Alignment explanation
Indices: 4091461--4091622 Score: 78
Period size: 23 Copynumber: 7.2 Consensus size: 22
4091451 TGAAACCCTA
*
4091461 AAATTTTTCAGATGAGAATCTTT
1 AAATTTTTGA-ATGAGAATCTTT
* *
4091484 AAAATTTTGATTATGA-AAT-ATT
1 AAATTTTTGA--ATGAGAATCTTT
* * *
4091506 AAAGTTTTTAAATGTGAATTTTT
1 AAA-TTTTTGAATGAGAATCTTT
* * * *
4091529 AAAATTTTCAATGTGAATCTCT
1 AAATTTTTGAATGAGAATCTTT
* * *
4091551 AAGTTTTTCGAAAGAAAATCTTT
1 AAATTTTT-GAATGAGAATCTTT
* ** *
4091574 -AACTTTTGGGTGTGAATCTTT
1 AAATTTTTGAATGAGAATCTTT
*
4091595 AAATTTTTTGAATGAGAATTTTT
1 AAA-TTTTTGAATGAGAATCTTT
*
4091618 GAATT
1 AAATT
4091623 CTGGATATGA
Statistics
Matches: 100, Mismatches: 32, Indels: 15
0.68 0.22 0.10
Matches are distributed among these distances:
21 12 0.12
22 38 0.38
23 46 0.46
24 4 0.04
ACGTcount: A:0.35, C:0.06, G:0.14, T:0.46
Consensus pattern (22 bp):
AAATTTTTGAATGAGAATCTTT
Found at i:4091891 original size:34 final size:34
Alignment explanation
Indices: 4091853--4091944 Score: 80
Period size: 34 Copynumber: 2.7 Consensus size: 34
4091843 GAAACTGTAT
*
4091853 TTTTTTCAAATCTAAAATTCTTACAAATTTGAAA
1 TTTTTTCAAATCTAAAATTCTTACAAATATGAAA
* ***
4091887 TTTTTGTGAAA-CTAAAACTT-TTGTGAATATGAAA
1 TTTTT-TCAAATCTAAAA-TTCTTACAAATATGAAA
* * *
4091921 TTATTGCAAATCTAAAGTTCTTAC
1 TTTTTTCAAATCTAAAATTCTTAC
4091945 GAACCTGAAG
Statistics
Matches: 43, Mismatches: 11, Indels: 8
0.69 0.18 0.13
Matches are distributed among these distances:
33 5 0.12
34 32 0.74
35 6 0.14
ACGTcount: A:0.38, C:0.11, G:0.09, T:0.42
Consensus pattern (34 bp):
TTTTTTCAAATCTAAAATTCTTACAAATATGAAA
Found at i:4091972 original size:17 final size:17
Alignment explanation
Indices: 4091927--4091981 Score: 65
Period size: 17 Copynumber: 3.2 Consensus size: 17
4091917 GAAATTATTG
4091927 CAAATCTAAAGTTCTTA
1 CAAATCTAAAGTTCTTA
* * *
4091944 CGAACCTGAAGTTCTTA
1 CAAATCTAAAGTTCTTA
* *
4091961 CAAATTTAAAGTTCTTG
1 CAAATCTAAAGTTCTTA
4091978 CAAA
1 CAAA
4091982 CCTGAAATTT
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
17 30 1.00
ACGTcount: A:0.38, C:0.18, G:0.11, T:0.33
Consensus pattern (17 bp):
CAAATCTAAAGTTCTTA
Found at i:4091994 original size:85 final size:85
Alignment explanation
Indices: 4091870--4092025 Score: 192
Period size: 85 Copynumber: 1.8 Consensus size: 85
4091860 AAATCTAAAA
* * * * *
4091870 TTCTTACAAATTTGAAATTTTTGTGAAACTAAAACTTTTGTGAATATGAAA-TTATTGCAAATCT
1 TTCTTACAAATTTGAAATTCTTGTCAAACTAAAACTTTTGAGAATATGAAACTT-TTACAAACCT
4091934 AAAGTTCTTACGAACCTGAAG
65 AAAGTTCTTACGAACCTGAAG
* * *
4091955 TTCTTACAAATTT-AAAGTTCTTG-CAAACCTGAAATTTTTGAGAATTTGAAACTTTTACAAACC
1 TTCTTACAAATTTGAAA-TTCTTGTCAAA-CTAAAACTTTTGAGAATATGAAACTTTTACAAACC
4092018 TAAAGTTC
64 TAAAGTTC
4092026 ATGTGAACTT
Statistics
Matches: 60, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
84 6 0.10
85 52 0.87
86 2 0.03
ACGTcount: A:0.37, C:0.13, G:0.12, T:0.38
Consensus pattern (85 bp):
TTCTTACAAATTTGAAATTCTTGTCAAACTAAAACTTTTGAGAATATGAAACTTTTACAAACCTA
AAGTTCTTACGAACCTGAAG
Found at i:4094238 original size:8 final size:7
Alignment explanation
Indices: 4094212--4094252 Score: 50
Period size: 8 Copynumber: 5.9 Consensus size: 7
4094202 TTTTTTACTA
4094212 TATT-AT
1 TATTAAT
4094218 TATT-AT
1 TATTAAT
4094224 TATTAAT
1 TATTAAT
4094231 TAATTAAT
1 T-ATTAAT
4094239 TATTAAT
1 TATTAAT
4094246 TCATTAA
1 T-ATTAA
4094253 ATTGGAAAGG
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
6 10 0.31
7 10 0.31
8 12 0.38
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.56
Consensus pattern (7 bp):
TATTAAT
Found at i:4094242 original size:15 final size:15
Alignment explanation
Indices: 4094222--4094252 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
4094212 TATTATTATT
4094222 ATTATTAATTAATTA
1 ATTATTAATTAATTA
*
4094237 ATTATTAATTCATTA
1 ATTATTAATTAATTA
4094252 A
1 A
4094253 ATTGGAAAGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (15 bp):
ATTATTAATTAATTA
Found at i:4094419 original size:14 final size:14
Alignment explanation
Indices: 4094395--4094439 Score: 58
Period size: 14 Copynumber: 3.3 Consensus size: 14
4094385 AATATTATAT
4094395 TATTA-TTGCATGA
1 TATTATTTGCATGA
4094408 TATTATTTGCATGA
1 TATTATTTGCATGA
*
4094422 TAATT-TTTGTATGA
1 T-ATTATTTGCATGA
4094436 TATT
1 TATT
4094440 TTTTTATTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
13 8 0.28
14 18 0.62
15 3 0.10
ACGTcount: A:0.29, C:0.04, G:0.13, T:0.53
Consensus pattern (14 bp):
TATTATTTGCATGA
Found at i:4094442 original size:14 final size:14
Alignment explanation
Indices: 4094400--4094443 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
4094390 TATATTATTA
*
4094400 TTGCATGATATTAT
1 TTGCATGATATTTT
*
4094414 TTGCATGATAATTT
1 TTGCATGATATTTT
*
4094428 TTGTATGATATTTT
1 TTGCATGATATTTT
4094442 TT
1 TT
4094444 TATTTTAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.25, C:0.05, G:0.14, T:0.57
Consensus pattern (14 bp):
TTGCATGATATTTT
Found at i:4094774 original size:102 final size:103
Alignment explanation
Indices: 4094595--4094790 Score: 256
Period size: 102 Copynumber: 1.9 Consensus size: 103
4094585 ATTTTTTTTA
*
4094595 AATCCTACCAATATATTGAAAAATAATTCTTGACAAAAAATCTTACCAACACATTGTAAGATATT
1 AATCCTACCAATATATTGAAAAATAATTCTTGACAAAAAATCTTACCAACACATTGGAAGATATT
4094660 TTTAAAATTAAATT-GTTTCACAAATAAATAAAATTTC
66 TTTAAAATTAAATTAGTTTCACAAATAAATAAAATTTC
** * * * *
4094697 AATCCTACCAATATATT-AGAGGATAA-TCTTTGACAGAAATTCTTACCAATATATTGGAAGATA
1 AATCCTACCAATATATTGA-AAAATAATTC-TTGACAAAAAATCTTACCAACACATTGGAAGATA
* *
4094760 TTTTTGAAAA-TAAATTATTTTTACAAATAAA
64 TTTTT-AAAATTAAATTAGTTTCACAAATAAA
4094791 AATTTTTACA
Statistics
Matches: 81, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
101 3 0.04
102 62 0.77
103 16 0.20
ACGTcount: A:0.45, C:0.12, G:0.07, T:0.35
Consensus pattern (103 bp):
AATCCTACCAATATATTGAAAAATAATTCTTGACAAAAAATCTTACCAACACATTGGAAGATATT
TTTAAAATTAAATTAGTTTCACAAATAAATAAAATTTC
Found at i:4094780 original size:17 final size:17
Alignment explanation
Indices: 4094758--4094801 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
4094748 TATTGGAAGA
4094758 TATTTTTGA-AAATAAAT
1 TATTTTT-ACAAATAAAT
4094775 TATTTTTACAAATAAA-
1 TATTTTTACAAATAAAT
*
4094791 AATTTTTACAA
1 TATTTTTACAA
4094802 CAAAAAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
16 11 0.44
17 14 0.56
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.45
Consensus pattern (17 bp):
TATTTTTACAAATAAAT
Found at i:4107843 original size:15 final size:15
Alignment explanation
Indices: 4107823--4107854 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
4107813 AAATTTACAT
4107823 GTGATACAAAATTAA
1 GTGATACAAAATTAA
4107838 GTGATACAAAATTAA
1 GTGATACAAAATTAA
4107853 GT
1 GT
4107855 TATTAATTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.50, C:0.06, G:0.16, T:0.28
Consensus pattern (15 bp):
GTGATACAAAATTAA
Found at i:4109263 original size:26 final size:26
Alignment explanation
Indices: 4109233--4109287 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
4109223 ATTGAACATG
*
4109233 TTTTTATCTGCTTATCTAAATGAATA
1 TTTTTATCTGCTTATCTAAATGAAAA
* *
4109259 TTTTTATCTGCTTATTTAACTGAAAA
1 TTTTTATCTGCTTATCTAAATGAAAA
4109285 TTT
1 TTT
4109288 AAAAAATGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.29, C:0.11, G:0.07, T:0.53
Consensus pattern (26 bp):
TTTTTATCTGCTTATCTAAATGAAAA
Found at i:4110914 original size:29 final size:29
Alignment explanation
Indices: 4110877--4110942 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 29
4110867 GATTACAGAT
*
4110877 AGATGTTATCGATTATAAAATT-TTTTACA
1 AGATGTTATCGATGAT-AAATTGTTTTACA
* * *
4110906 AGATGTTATTGATGGTAAATTGTTTTGCA
1 AGATGTTATCGATGATAAATTGTTTTACA
4110935 AGATGTTA
1 AGATGTTA
4110943 CTTATTGTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
28 5 0.16
29 27 0.84
ACGTcount: A:0.33, C:0.05, G:0.18, T:0.44
Consensus pattern (29 bp):
AGATGTTATCGATGATAAATTGTTTTACA
Found at i:4110952 original size:29 final size:28
Alignment explanation
Indices: 4110894--4110955 Score: 81
Period size: 29 Copynumber: 2.2 Consensus size: 28
4110884 ATCGATTATA
4110894 AAATTTTTTACAAGATGTTATTGATGGT
1 AAATTTTTTACAAGATGTTATTGATGGT
* *
4110922 AAATTGTTTTGCAAGATGTTACTT-ATTGT
1 AAATT-TTTTACAAGATGTTA-TTGATGGT
4110951 AAATT
1 AAATT
4110956 AAACCTCCTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
28 5 0.17
29 23 0.77
30 2 0.07
ACGTcount: A:0.32, C:0.05, G:0.16, T:0.47
Consensus pattern (28 bp):
AAATTTTTTACAAGATGTTATTGATGGT
Found at i:4113784 original size:19 final size:19
Alignment explanation
Indices: 4113736--4113777 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
4113726 AAATACTAAT
*
4113736 TAATATTAAATAGCCTACA
1 TAATCTTAAATAGCCTACA
* *
4113755 TAATCTGAAATAGCCTAGA
1 TAATCTTAAATAGCCTACA
4113774 TAAT
1 TAAT
4113778 TATAAATGCT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.45, C:0.14, G:0.10, T:0.31
Consensus pattern (19 bp):
TAATCTTAAATAGCCTACA
Found at i:4116129 original size:20 final size:20
Alignment explanation
Indices: 4116106--4116155 Score: 50
Period size: 20 Copynumber: 2.5 Consensus size: 20
4116096 TTCCAAGTTC
4116106 TTCTGTTTCTCCCCCTAATT-
1 TTCT-TTTCTCCCCCTAATTG
*
4116126 TTCTCTCTTC-CTCCCTAATTG
1 TTCT-T-TTCTCCCCCTAATTG
4116147 TTCTTTTCT
1 TTCTTTTCT
4116156 ATTTCTGAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
19 3 0.12
20 15 0.60
21 7 0.28
ACGTcount: A:0.08, C:0.34, G:0.04, T:0.54
Consensus pattern (20 bp):
TTCTTTTCTCCCCCTAATTG
Found at i:4117513 original size:92 final size:92
Alignment explanation
Indices: 4117343--4117520 Score: 259
Period size: 92 Copynumber: 1.9 Consensus size: 92
4117333 CAACAAATTG
* * * * *
4117343 AAAATTTCGGAATTGAAAATGTTGAATCTATAGATCTGGAAGTGGCTGTCCAAGTAGTTGGAGAG
1 AAAATTTCGGAACTGAAAATGTTGAATCGACAGATCTGGAAGTGGCTGTCCAAGGAGTTGAAGAG
4117408 CATAATCAAGTCATAGGCTAAGTTTTA
66 CATAATCAAGTCATAGGCTAAGTTTTA
* *
4117435 AAAACTTT-GGAACTGAAAATGTTGAATCGACAGATTTGGAAGTGGCTGTCCAAGGGGTTGAAGA
1 AAAA-TTTCGGAACTGAAAATGTTGAATCGACAGATCTGGAAGTGGCTGTCCAAGGAGTTGAAGA
* *
4117499 GTATAATCTAGTCATAGGCTAA
65 GCATAATCAAGTCATAGGCTAA
4117521 ATATTGAAAA
Statistics
Matches: 76, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
92 73 0.96
93 3 0.04
ACGTcount: A:0.35, C:0.11, G:0.25, T:0.29
Consensus pattern (92 bp):
AAAATTTCGGAACTGAAAATGTTGAATCGACAGATCTGGAAGTGGCTGTCCAAGGAGTTGAAGAG
CATAATCAAGTCATAGGCTAAGTTTTA
Found at i:4119694 original size:36 final size:36
Alignment explanation
Indices: 4119654--4119724 Score: 133
Period size: 36 Copynumber: 2.0 Consensus size: 36
4119644 TATATTAGAA
*
4119654 TCTTGTTTTCTTTGACTTATTAAAGATCATACTAAT
1 TCTTGTTTACTTTGACTTATTAAAGATCATACTAAT
4119690 TCTTGTTTACTTTGACTTATTAAAGATCATACTAA
1 TCTTGTTTACTTTGACTTATTAAAGATCATACTAA
4119725 CTCCGTAGTA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.30, C:0.14, G:0.08, T:0.48
Consensus pattern (36 bp):
TCTTGTTTACTTTGACTTATTAAAGATCATACTAAT
Found at i:4127236 original size:22 final size:22
Alignment explanation
Indices: 4127210--4127254 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
4127200 CTGTATATTT
*
4127210 GTATTTGTATCTCTAGAATTAA
1 GTATTTGTATCCCTAGAATTAA
4127232 GTATTTGTATCCCTAGAATTAA
1 GTATTTGTATCCCTAGAATTAA
4127254 G
1 G
4127255 GACAAAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.31, C:0.11, G:0.16, T:0.42
Consensus pattern (22 bp):
GTATTTGTATCCCTAGAATTAA
Found at i:4131208 original size:22 final size:22
Alignment explanation
Indices: 4131182--4131225 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
4131172 TGTATATTTA
*
4131182 TATTTGTATCTCTAGAATTAAG
1 TATTTGTATCCCTAGAATTAAG
4131204 TATTTGTATCCCTAGAATTAAG
1 TATTTGTATCCCTAGAATTAAG
4131226 GACAAAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (22 bp):
TATTTGTATCCCTAGAATTAAG
Found at i:4136758 original size:3 final size:3
Alignment explanation
Indices: 4136750--4136787 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
4136740 ACCTATTTGA
4136750 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
4136788 AAAATATAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:4137143 original size:14 final size:14
Alignment explanation
Indices: 4137123--4137158 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 14
4137113 TATCTTCTTT
4137123 TTTTTTTTCTTTTGC
1 TTTTTTTTCTTTT-C
4137138 TTTTTTTATCTTTTC
1 TTTTTTT-TCTTTTC
4137153 TTTTTT
1 TTTTTT
4137159 ACTTTCTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 14 0.70
16 6 0.30
ACGTcount: A:0.03, C:0.11, G:0.03, T:0.83
Consensus pattern (14 bp):
TTTTTTTTCTTTTC
Found at i:4137143 original size:16 final size:15
Alignment explanation
Indices: 4137113--4137158 Score: 58
Period size: 16 Copynumber: 3.0 Consensus size: 15
4137103 GCAATACAAC
4137113 TATCTTCTT-TTTTTT
1 TATCTT-TTCTTTTTT
*
4137128 TTTCTTTTGCTTTTTT
1 TATCTTTT-CTTTTTT
4137144 TATCTTTTCTTTTTT
1 TATCTTTTCTTTTTT
4137159 ACTTTCTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
14 2 0.07
15 12 0.44
16 13 0.48
ACGTcount: A:0.04, C:0.13, G:0.02, T:0.80
Consensus pattern (15 bp):
TATCTTTTCTTTTTT
Found at i:4137164 original size:12 final size:14
Alignment explanation
Indices: 4137118--4137167 Score: 54
Period size: 12 Copynumber: 3.7 Consensus size: 14
4137108 ACAACTATCT
4137118 TCTTTT-TTTTTT-
1 TCTTTTCTTTTTTA
4137130 TCTTTTGCTTTTTTTA
1 TCTTTT-C-TTTTTTA
4137146 TCTTTTCTTTTTTA
1 TCTTTTCTTTTTTA
4137160 -C-TTTCTTT
1 TCTTTTCTTT
4137168 ATTGTTTCCT
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
12 13 0.38
13 1 0.03
14 7 0.21
15 7 0.21
16 6 0.18
ACGTcount: A:0.04, C:0.14, G:0.02, T:0.80
Consensus pattern (14 bp):
TCTTTTCTTTTTTA
Found at i:4137732 original size:25 final size:24
Alignment explanation
Indices: 4137698--4137744 Score: 76
Period size: 25 Copynumber: 1.9 Consensus size: 24
4137688 CTACCTTATG
*
4137698 TTTCTTTCCTTTTTTGGTTTTTTTT
1 TTTCTTTCCTGTTTT-GTTTTTTTT
4137723 TTTCTTTCCTGTTTTGTTTTTT
1 TTTCTTTCCTGTTTTGTTTTTT
4137745 CAACATTCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.00, C:0.13, G:0.09, T:0.79
Consensus pattern (24 bp):
TTTCTTTCCTGTTTTGTTTTTTTT
Found at i:4137870 original size:17 final size:16
Alignment explanation
Indices: 4137848--4137883 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
4137838 CTTTTGAATT
*
4137848 AAAAATTTTTTAATCAG
1 AAAAATTTTATAAT-AG
4137865 AAAAATTTTATAATAG
1 AAAAATTTTATAATAG
4137881 AAA
1 AAA
4137884 GAACTAATAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 5 0.28
17 13 0.72
ACGTcount: A:0.56, C:0.03, G:0.06, T:0.36
Consensus pattern (16 bp):
AAAAATTTTATAATAG
Found at i:4138011 original size:18 final size:17
Alignment explanation
Indices: 4137980--4138015 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
4137970 TTTTTTAAAA
4137980 TTTTATTTTTATTTTTC
1 TTTTATTTTTATTTTTC
4137997 TTTTATTTTTCATTTTTC
1 TTTTATTTTT-ATTTTTC
4138015 T
1 T
4138016 CTTTTTCCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.11, C:0.08, G:0.00, T:0.81
Consensus pattern (17 bp):
TTTTATTTTTATTTTTC
Found at i:4139826 original size:141 final size:143
Alignment explanation
Indices: 4139649--4139959 Score: 330
Period size: 144 Copynumber: 2.2 Consensus size: 143
4139639 CAGATCTTAG
* * * * *
4139649 TTCATGATTTTTTG-TGGATTTCAAATCATAACAGTACCAC-GATAGGTGTGAAATTACCAAAAT
1 TTCATGA-TTTTTGATGCATTTAAAATCACAACAGTACC-CTGAGAGATGTGAAATTACCAAAAT
* * ** * * *
4139712 ATCCCTTAAG-GGTA-TT-GTAATTTGACATTCTTGAACTTTGATTTTTACGAAAATTTTCAA-A
64 A-CCCCTAAGAGGTATTTCATAATTTGACATTCCCGAACTTAGATTTTCACG-AAACTTTCAAGA
*
4139773 TCTTAATTTCATAATAT
127 TCTCAATTTCATAATAT
* * *
4139790 TTTATGATTTTTGATGCATTTAAAATCACAGCAGTACCCTGAGAGATGTTAAATTACCAAAATAC
1 TTCATGATTTTTGATGCATTTAAAATCACAACAGTACCCTGAGAGATGTGAAATTACCAAAATAC
* * * *
4139855 CCCTAAGAGGTATTTTCATAATTTGGCCTTCCCGAGCTTAGATTTTCATGAAACTTTCAAGATCT
66 CCCTAAGAGGTA-TTTCATAATTTGACATTCCCGAACTTAGATTTTCACGAAACTTTCAAGATCT
*
4139920 CAATTTTATAATAT
130 CAATTTCATAATAT
*
4139934 TTCATGATTTTCGATGC-TTTAAAATC
1 TTCATGATTTTTGATGCATTTAAAATC
4139960 TGAAAAATGA
Statistics
Matches: 140, Mismatches: 23, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
140 14 0.10
141 51 0.36
143 20 0.14
144 55 0.39
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.39
Consensus pattern (143 bp):
TTCATGATTTTTGATGCATTTAAAATCACAACAGTACCCTGAGAGATGTGAAATTACCAAAATAC
CCCTAAGAGGTATTTCATAATTTGACATTCCCGAACTTAGATTTTCACGAAACTTTCAAGATCTC
AATTTCATAATAT
Found at i:4142560 original size:50 final size:50
Alignment explanation
Indices: 4142458--4142561 Score: 124
Period size: 49 Copynumber: 2.1 Consensus size: 50
4142448 CAAAAGAAAT
***
4142458 AAAAAAGAAACAAAATGATTTAGACTAATAATCCAAAAAGGGTGGTCTAA
1 AAAAAAGAAACAAAATGATTTAGACTAATAATCCAAAAAGGGCAATCTAA
* *
4142508 AAAAAAGAAA-AAAATGATTTAGATTGAA-AA-CCTAGAAAGGGCAATCTAA
1 AAAAAAGAAACAAAATGATTTAGACT-AATAATCC-AAAAAGGGCAATCTAA
4142557 AAAAA
1 AAAAA
4142562 TCAATTATAA
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
48 2 0.04
49 33 0.70
50 12 0.26
ACGTcount: A:0.58, C:0.09, G:0.15, T:0.18
Consensus pattern (50 bp):
AAAAAAGAAACAAAATGATTTAGACTAATAATCCAAAAAGGGCAATCTAA
Found at i:4142647 original size:74 final size:72
Alignment explanation
Indices: 4142506--4142663 Score: 167
Period size: 74 Copynumber: 2.2 Consensus size: 72
4142496 AGGGTGGTCT
* * *
4142506 AAAAAAAAGAAAAAAATGATTTAGATTGAAAACCTAGAAAGGGCAATCTAAAAAAATCAATTATA
1 AAAAAAAAGAAAAAAATGATTCAAACTGAAAACCTAGAAAGGGCAATCTAAAAAAATCAA-TATA
*
4142571 AAAAGGAA
65 AAAACGAA
* * ***
4142579 ATAAAAAAGAAAACAAATGATTCAAACTGAAAACC-AGAATGGGTGGTCTAAAAAATATTCAA-A
1 AAAAAAAAGAAAA-AAATGATTCAAACTGAAAACCTAGAAAGGGCAATCTAAAAAA-A-TCAATA
*
4142642 CTAAAAACTAA
63 -TAAAAACGAA
4142653 AAAAAAAAGAA
1 AAAAAAAAGAA
4142664 GATCTAAAAA
Statistics
Matches: 70, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
73 29 0.41
74 37 0.53
75 4 0.06
ACGTcount: A:0.61, C:0.09, G:0.13, T:0.17
Consensus pattern (72 bp):
AAAAAAAAGAAAAAAATGATTCAAACTGAAAACCTAGAAAGGGCAATCTAAAAAAATCAATATAA
AAACGAA
Found at i:4142658 original size:73 final size:71
Alignment explanation
Indices: 4142506--4142659 Score: 159
Period size: 73 Copynumber: 2.1 Consensus size: 71
4142496 AGGGTGGTCT
* * *
4142506 AAAAAAAAGAAAAAAATGATTTAGATTGAAAACCTAGAAAGGGCAATCTAAAAAAATCAATTATA
1 AAAAAAAAGAAAAAAATGATTCAAACTGAAAACCTAGAAAGGGCAATCTAAAAAAATCAA-TATA
*
4142571 AAAAGGA
65 AAAACGA
* ***
4142578 AATAAAAAAGAAAACAAATGATTCAAACTGAAAACC-AGAATGGGTGGTCTAAAAAATATTCAA-
1 AA-AAAAAAGAAAA-AAATGATTCAAACTGAAAACCTAGAAAGGGCAATCTAAAAAA-A-TCAAT
*
4142641 ACTAAAAACTA
62 A-TAAAAACGA
4142652 AAAAAAAA
1 AAAAAAAA
4142660 AGAAGATCTA
Statistics
Matches: 68, Mismatches: 9, Indels: 9
0.79 0.10 0.10
Matches are distributed among these distances:
72 2 0.03
73 34 0.50
74 28 0.41
75 4 0.06
ACGTcount: A:0.61, C:0.09, G:0.12, T:0.18
Consensus pattern (71 bp):
AAAAAAAAGAAAAAAATGATTCAAACTGAAAACCTAGAAAGGGCAATCTAAAAAAATCAATATAA
AAACGA
Found at i:4143828 original size:71 final size:73
Alignment explanation
Indices: 4143744--4143917 Score: 187
Period size: 71 Copynumber: 2.4 Consensus size: 73
4143734 CAACCATTGG
* * * * ** *
4143744 TGTTGTCTTGATCATCTTTATTTTTTTGACCTA-TGGTGTTTTCTTGATCATCTTTA-TTTTTGG
1 TGTTGTCTCGATCATATTTATTTTTTTGACCTATTAGTGTTGTCCCGATCATCATTATTTTTTGG
4143807 ACATGCAA
66 ACATGCAA
* * * *
4143815 TGTTATCTCGATCATAATTATTTTTTCGA-CTATTAGTGTTGTCCCGATCATCATTATTTTTTTG
1 TGTTGTCTCGATCATATTTATTTTTTTGACCTATTAGTGTTGTCCCGATCATCATTATTTTTTGG
*
4143879 ACATGCGA
66 ACATGCAA
*
4143887 GGTTGTCTC-AGTCATATTTA-TTTTTTGACCT
1 TGTTGTCTCGA-TCATATTTATTTTTTTGACCT
4143918 TCGATGTTAT
Statistics
Matches: 83, Mismatches: 16, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
70 3 0.04
71 50 0.60
72 30 0.36
ACGTcount: A:0.19, C:0.16, G:0.15, T:0.51
Consensus pattern (73 bp):
TGTTGTCTCGATCATATTTATTTTTTTGACCTATTAGTGTTGTCCCGATCATCATTATTTTTTGG
ACATGCAA
Found at i:4143935 original size:35 final size:34
Alignment explanation
Indices: 4143872--4144017 Score: 114
Period size: 35 Copynumber: 4.2 Consensus size: 34
4143862 TCATCATTAT
* * *
4143872 TTTTTTGACATGCGAGGTTGTCTCAGTCATATTTA
1 TTTTTTGACCTTCGATGTTGTCT-AGTCATATTTA
* *
4143907 TTTTTTGACCTTCGATGTTATCGTAGTCATTTTTA
1 TTTTTTGACCTTCGATGTTGTC-TAGTCATATTTA
* * * * * * *
4143942 CTTTTT-AACTTATGGTGATGTCATGGTCACATTTA
1 TTTTTTGACCTT-CGATGTTGTC-TAGTCATATTTA
* *
4143977 TTTTTTGACCTACGATGTTGTCTCAGTCATATTTG
1 TTTTTTGACCTTCGATGTTGTCT-AGTCATATTTA
4144012 TTTTTT
1 TTTTTT
4144018 CAACCATTGG
Statistics
Matches: 83, Mismatches: 24, Indels: 8
0.72 0.21 0.07
Matches are distributed among these distances:
34 5 0.06
35 74 0.89
36 4 0.05
ACGTcount: A:0.18, C:0.14, G:0.16, T:0.51
Consensus pattern (34 bp):
TTTTTTGACCTTCGATGTTGTCTAGTCATATTTA
Found at i:4144005 original size:70 final size:71
Alignment explanation
Indices: 4143897--4144070 Score: 185
Period size: 70 Copynumber: 2.5 Consensus size: 71
4143887 GGTTGTCTCA
* * * *
4143897 GTCATATTTATTTTTTGACCTTCGATGTTATCGTAGTCATTTTTACTTTTT-AA-CTTATGGTGA
1 GTCACATTTATTTTTTGACCTACGATGTTATCGTAGTCATATTTACTTTTTCAACCAT-TGGTGA
*
4143960 TGTCATG
65 TGACATG
* ** *
4143967 GTCACATTTATTTTTTGACCTACGATGTTGTC-TCAGTCATATTTGTTTTTTCAACCATTGGTGC
1 GTCACATTTATTTTTTGACCTACGATGTTATCGT-AGTCATATTTACTTTTTCAACCATTGGTGA
*
4144031 TGACCTG
65 TGACATG
*
4144038 ATCATC-TTTATTTTTTTGACCTACGATGTTATC
1 GTCA-CATTTA-TTTTTTGACCTACGATGTTATC
4144071 CTGATTATTT
Statistics
Matches: 87, Mismatches: 12, Indels: 8
0.81 0.11 0.07
Matches are distributed among these distances:
69 1 0.01
70 43 0.49
71 19 0.22
72 24 0.28
ACGTcount: A:0.20, C:0.17, G:0.15, T:0.49
Consensus pattern (71 bp):
GTCACATTTATTTTTTGACCTACGATGTTATCGTAGTCATATTTACTTTTTCAACCATTGGTGAT
GACATG
Found at i:4144074 original size:36 final size:36
Alignment explanation
Indices: 4143752--4144089 Score: 115
Period size: 36 Copynumber: 9.5 Consensus size: 36
4143742 GGTGTTGTCT
* * * *
4143752 TGATCATCTTTATTTTTTTGACCTATGGTGTTTTCT
1 TGATCATCTTTATTTTTTTGACCTACGATGTTATCC
* * * *
4143788 TGATCATCTTTA-TTTTTGGACATGCAATGTTAT-C
1 TGATCATCTTTATTTTTTTGACCTACGATGTTATCC
** * ** *
4143822 TCGATCATAATTATTTTTTCGA-CTATTAGTGTTGTCC
1 T-GATCATCTTTATTTTTTTGACCTACGA-TGTTATCC
* * * * * *
4143859 CGATCATCATTATTTTTTTGACATGCGAGGTTGT-C
1 TGATCATCTTTATTTTTTTGACCTACGATGTTATCC
* * * *
4143894 TCAGTCATATTTA-TTTTTTGACCTTCGATGTTATCG
1 TGA-TCATCTTTATTTTTTTGACCTACGATGTTATCC
* * * * * * * * *
4143930 T-AGTCATTTTTA-CTTTTTAACTTATGGTGATGTCA
1 TGA-TCATCTTTATTTTTTTGACCTACGATGTTATCC
* *
4143965 TGGTCA-CATTTA-TTTTTTGACCTACGATGTTGT-C
1 TGATCATC-TTTATTTTTTTGACCTACGATGTTATCC
* * * ** * * *
4143999 TCAGTCATATTTGTTTTTTCAACC-ATTGGTGCTGA-CC
1 TGA-TCATCTTTATTTTTTTGACCTA-CGATG-TTATCC
4144036 TGATCATCTTTATTTTTTTGACCTACGATGTTATCC
1 TGATCATCTTTATTTTTTTGACCTACGATGTTATCC
* *
4144072 TGATTATTTTTATTTTTT
1 TGATCATCTTTATTTTTT
4144090 GACTTGTAGT
Statistics
Matches: 213, Mismatches: 72, Indels: 34
0.67 0.23 0.11
Matches are distributed among these distances:
34 2 0.01
35 100 0.47
36 103 0.48
37 8 0.04
ACGTcount: A:0.20, C:0.16, G:0.14, T:0.50
Consensus pattern (36 bp):
TGATCATCTTTATTTTTTTGACCTACGATGTTATCC
Found at i:4144115 original size:107 final size:107
Alignment explanation
Indices: 4144003--4144209 Score: 238
Period size: 107 Copynumber: 1.9 Consensus size: 107
4143993 GTTGTCTCAG
* * ** *
4144003 TCATATTTGTTTT-TTCAACCATTGGTGCTGACCTGA-TCATCTTTATTTTTTTGACCTACGATG
1 TCATATTCGTTTTCTT-AACCATTGGTGCT-ACCTCAGTCATCTTTATTTTTGGGACCTACGATA
* *
4144066 TTATCCTGATTATTTTTATTTTTTGACTTGTAGTATTATTCTAA
64 TTATCCTGATCATCTTTATTTTTTGACTTGTAGTATTATTCTAA
* * * *
4144110 TCATATTCGTTTTCTTAACCGTTGGTGGTATCTCAGTCATCTTTATTTTTGGGACTTACGATATT
1 TCATATTCGTTTTCTTAACCATTGGTGCTACCTCAGTCATCTTTATTTTTGGGACCTACGATATT
* ** * *
4144175 GTTTTGGTCATCTTTATTTTTTGACTTGTGGTATT
66 ATCCTGATCATCTTTATTTTTTGACTTGTAGTATT
4144210 GCTTGGTCAT
Statistics
Matches: 82, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
106 4 0.05
107 76 0.93
108 2 0.02
ACGTcount: A:0.18, C:0.14, G:0.15, T:0.52
Consensus pattern (107 bp):
TCATATTCGTTTTCTTAACCATTGGTGCTACCTCAGTCATCTTTATTTTTGGGACCTACGATATT
ATCCTGATCATCTTTATTTTTTGACTTGTAGTATTATTCTAA
Found at i:4144221 original size:34 final size:36
Alignment explanation
Indices: 4144145--4144222 Score: 97
Period size: 36 Copynumber: 2.2 Consensus size: 36
4144135 TGGTATCTCA
*
4144145 GTCATCTTTATTTTTGGGACTTACGATATTGTTTTG
1 GTCATCTTTATTTTTGGGACTTACGATATTGTCTTG
* ** *
4144181 GTCATCTTTATTTTT-TGACTTGTGGTATTG-CTTG
1 GTCATCTTTATTTTTGGGACTTACGATATTGTCTTG
4144215 GTCATCTT
1 GTCATCTT
4144223 ACTTTCTCGA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
34 11 0.30
35 11 0.30
36 15 0.41
ACGTcount: A:0.14, C:0.13, G:0.19, T:0.54
Consensus pattern (36 bp):
GTCATCTTTATTTTTGGGACTTACGATATTGTCTTG
Found at i:4144331 original size:36 final size:36
Alignment explanation
Indices: 4144291--4144376 Score: 102
Period size: 36 Copynumber: 2.4 Consensus size: 36
4144281 TTTGATTATA
* *
4144291 TTTATTTTTTTGATCGT-TGATGTTATCTCGATAATC
1 TTTATTTTTTTGA-CCTATAATGTTATCTCGATAATC
* * * *
4144327 TTTATTTTTTTGACCTATAATGTTATCTTGGTTATT
1 TTTATTTTTTTGACCTATAATGTTATCTCGATAATC
4144363 TTTATTTTTTTGAC
1 TTTATTTTTTTGAC
4144377 TTGTGGTGTT
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
35 2 0.05
36 41 0.95
ACGTcount: A:0.19, C:0.09, G:0.12, T:0.60
Consensus pattern (36 bp):
TTTATTTTTTTGACCTATAATGTTATCTCGATAATC
Found at i:4145452 original size:23 final size:24
Alignment explanation
Indices: 4145422--4145466 Score: 67
Period size: 23 Copynumber: 1.9 Consensus size: 24
4145412 CCATTAATGA
4145422 TTATTA-TTTACAAAG-AATGTTAT
1 TTATTATTTTA-AAAGAAATGTTAT
4145445 TTATTATTTTAAAAGAAATGTT
1 TTATTATTTTAAAAGAAATGTT
4145467 CTGAAAAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
23 10 0.50
24 10 0.50
ACGTcount: A:0.40, C:0.02, G:0.09, T:0.49
Consensus pattern (24 bp):
TTATTATTTTAAAAGAAATGTTAT
Found at i:4145586 original size:16 final size:18
Alignment explanation
Indices: 4145565--4145602 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
4145555 TAATATTCTT
4145565 AAATAA-TTA-TTTTTAA
1 AAATAATTTATTTTTTAA
4145581 AAATAATTTTATTTTTTAA
1 AAATAA-TTTATTTTTTAA
4145600 AAA
1 AAA
4145603 CAAAGGGAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 6 0.32
18 3 0.16
19 10 0.53
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
AAATAATTTATTTTTTAA
Found at i:4147709 original size:26 final size:26
Alignment explanation
Indices: 4147680--4147745 Score: 82
Period size: 26 Copynumber: 2.6 Consensus size: 26
4147670 ACTCTAAAAC
* * *
4147680 TAAACCTAAACTCTAAAACCAATCTT
1 TAAACCTAAACCCTAAAACCAAACCT
4147706 TAAAACCT-AACCCTAAAACCAAACCT
1 T-AAACCTAAACCCTAAAACCAAACCT
4147732 T-AACCTAAACCCTA
1 TAAACCTAAACCCTA
4147746 GACCTTGGCT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
24 5 0.14
25 7 0.20
26 17 0.49
27 6 0.17
ACGTcount: A:0.47, C:0.32, G:0.00, T:0.21
Consensus pattern (26 bp):
TAAACCTAAACCCTAAAACCAAACCT
Found at i:4150779 original size:27 final size:29
Alignment explanation
Indices: 4150732--4150794 Score: 71
Period size: 27 Copynumber: 2.3 Consensus size: 29
4150722 AAATAATACT
* *
4150732 TATA-AATATTATAAATTTGAAT-TAATA
1 TATATAATATTATAAATGTGAATATAAGA
4150759 TA-ATAATATTA-AACATGTGAATATAAGA
1 TATATAATATTATAA-ATGTGAATATAAGA
4150787 TATATAAT
1 TATATAAT
4150795 GAAGATTAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
26 3 0.10
27 16 0.53
28 6 0.20
29 5 0.17
ACGTcount: A:0.52, C:0.02, G:0.06, T:0.40
Consensus pattern (29 bp):
TATATAATATTATAAATGTGAATATAAGA
Found at i:4150832 original size:15 final size:16
Alignment explanation
Indices: 4150802--4150838 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
4150792 AATGAAGATT
4150802 AAATATAAATACAAAA
1 AAATATAAATACAAAA
*
4150818 AAATTTAAA-ACAAAA
1 AAATATAAATACAAAA
4150833 AAATAT
1 AAATAT
4150839 TATAATTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
15 11 0.58
16 8 0.42
ACGTcount: A:0.73, C:0.05, G:0.00, T:0.22
Consensus pattern (16 bp):
AAATATAAATACAAAA
Found at i:4153975 original size:3 final size:3
Alignment explanation
Indices: 4153967--4154009 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
4153957 CAAATGAAAT
4153967 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
4154010 AGCTAGTAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:4154667 original size:16 final size:16
Alignment explanation
Indices: 4154646--4154679 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
4154636 ACTCTGGAAG
4154646 CTAGGCTTTCTTCTTT
1 CTAGGCTTTCTTCTTT
4154662 CTAGGCTTTCTTCTTT
1 CTAGGCTTTCTTCTTT
4154678 CT
1 CT
4154680 TTCAGAATGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.06, C:0.26, G:0.12, T:0.56
Consensus pattern (16 bp):
CTAGGCTTTCTTCTTT
Found at i:4160826 original size:21 final size:21
Alignment explanation
Indices: 4160761--4160819 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
4160751 ATTAGTTTGC
* *
4160761 TTGCAAATAGATCGATTCCTTT
1 TTGCAAATAAATTGA-TCCTTT
* *
4160783 TTGCAAATGAATTGATCCATT
1 TTGCAAATAAATTGATCCTTT
4160804 TTGCAAATAAATTGAT
1 TTGCAAATAAATTGAT
4160820 GTTTTTTAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
21 20 0.62
22 12 0.38
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.39
Consensus pattern (21 bp):
TTGCAAATAAATTGATCCTTT
Found at i:4167564 original size:72 final size:73
Alignment explanation
Indices: 4167439--4167590 Score: 236
Period size: 72 Copynumber: 2.1 Consensus size: 73
4167429 TCGTTCCGCA
*
4167439 TGATAACCACCAGCCAATGCCTCATGAACACCAGACAAATTACGCACCTCCACTAATCC-AGTAC
1 TGATCACCACCAGCCAATGCCTCATGAACACCAGACAAATTACGCACCTCCACTAATCCGAGTAC
4167503 CTGGATCC
66 CTGGATCC
* *
4167511 TGATCACCACCAGCCAGTGCCTCATGAACACCAGACAAATTATGCA-CTACCACTAATCCAGGAG
1 TGATCACCACCAGCCAATGCCTCATGAACACCAGACAAATTACGCACCT-CCACTAATCC--GAG
4167575 TACCTGGATCC
63 TACCTGGATCC
4167586 TGATC
1 TGATC
4167591 GTACGCAACA
Statistics
Matches: 73, Mismatches: 3, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
71 2 0.03
72 53 0.73
75 18 0.25
ACGTcount: A:0.32, C:0.34, G:0.14, T:0.19
Consensus pattern (73 bp):
TGATCACCACCAGCCAATGCCTCATGAACACCAGACAAATTACGCACCTCCACTAATCCGAGTAC
CTGGATCC
Found at i:4174594 original size:40 final size:42
Alignment explanation
Indices: 4174508--4174598 Score: 132
Period size: 41 Copynumber: 2.2 Consensus size: 42
4174498 TCTTTTCTCT
**
4174508 TTTTTTTAAAAACAAGAAATAAATTTAATTTAAAACAAAACA
1 TTTTTTTAAAAACAAGAAATAAATCAAATTTAAAACAAAACA
*
4174550 TTTTTTTAAACAA-AA-AAATAAATCAAATTTAAAACAAAACT
1 TTTTTTTAAA-AACAAGAAATAAATCAAATTTAAAACAAAACA
4174591 TTTTTTTA
1 TTTTTTTA
4174599 TATTTGGATA
Statistics
Matches: 45, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
41 31 0.69
42 12 0.27
43 2 0.04
ACGTcount: A:0.54, C:0.08, G:0.01, T:0.37
Consensus pattern (42 bp):
TTTTTTTAAAAACAAGAAATAAATCAAATTTAAAACAAAACA
Found at i:4174840 original size:18 final size:17
Alignment explanation
Indices: 4174801--4174841 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
4174791 TTAAGATATT
4174801 ATTTTATTTTAAAAACA
1 ATTTTATTTTAAAAACA
*
4174818 TTTTTATTTTAAAAACTA
1 ATTTTATTTTAAAAAC-A
4174836 ATTTTA
1 ATTTTA
4174842 AAAAAAATGC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 15 0.71
18 6 0.29
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTTTAAAAACA
Found at i:4174917 original size:32 final size:33
Alignment explanation
Indices: 4174846--4174920 Score: 93
Period size: 32 Copynumber: 2.3 Consensus size: 33
4174836 ATTTTAAAAA
4174846 AAATGCATGAAATGTATGAATATAATAAAATGAT
1 AAATGCATGAAA-GTATGAATATAATAAAATGAT
4174880 AAATGCATGACAA-TAT-AATATGAATAAAAT-AT
1 AAATGCATGA-AAGTATGAATAT-AATAAAATGAT
*
4174912 GAATGCATG
1 AAATGCATG
4174921 GGATGATAAG
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
32 15 0.39
33 11 0.29
34 10 0.26
35 2 0.05
ACGTcount: A:0.52, C:0.05, G:0.15, T:0.28
Consensus pattern (33 bp):
AAATGCATGAAAGTATGAATATAATAAAATGAT
Found at i:4175096 original size:7 final size:7
Alignment explanation
Indices: 4174985--4175100 Score: 64
Period size: 7 Copynumber: 17.3 Consensus size: 7
4174975 AGGATTTAGA
4174985 TTAGGG-
1 TTAGGGT
*
4174991 TTAAGG-
1 TTAGGGT
4174997 TTAGGGTT
1 TTAGGG-T
4175005 TTAGGGT
1 TTAGGGT
**
4175012 TTAAAGT
1 TTAGGGT
*
4175019 TTAGGAT
1 TTAGGGT
*
4175026 TT-GGGC
1 TTAGGGT
*
4175032 TTAGGAT
1 TTAGGGT
*
4175039 TTAAGG-
1 TTAGGGT
**
4175045 TTAAAGT
1 TTAGGGT
*
4175052 TTAAGGT
1 TTAGGGT
4175059 TTA-GGT
1 TTAGGGT
* *
4175065 TCAGGTT
1 TTAGGGT
4175072 TTAGGGT
1 TTAGGGT
*
4175079 TT-GGAT
1 TTAGGGT
4175085 TTAGGGT
1 TTAGGGT
4175092 TTAGGGT
1 TTAGGGT
4175099 TT
1 TT
4175101 GTATTTGAGG
Statistics
Matches: 83, Mismatches: 21, Indels: 11
0.72 0.18 0.10
Matches are distributed among these distances:
6 29 0.35
7 48 0.58
8 6 0.07
ACGTcount: A:0.22, C:0.02, G:0.34, T:0.43
Consensus pattern (7 bp):
TTAGGGT
Found at i:4175148 original size:27 final size:26
Alignment explanation
Indices: 4175088--4175210 Score: 86
Period size: 27 Copynumber: 4.5 Consensus size: 26
4175078 TTTGGATTTA
*
4175088 GGGTTTAGGGTTTGTATTTGAGGTTTG
1 GGGTTTAGGGTTTG-ATTTAAGGTTTG
* * *
4175115 AGATTTAGGGCTTTGATTTAAGGCTTG
1 GGGTTTAGGG-TTTGATTTAAGGTTTG
* * *
4175142 GGGTTTATGGTTTTAATTTTAGTGTTTG
1 GGGTTTA-GGGTTTGATTTAAG-GTTTG
* *
4175170 GGGTTTAGGTTTTGGATTT-GGCGTTTG
1 GGGTTTAGGGTTT-GATTTAAG-GTTTG
* *
4175197 GAGTTTAAGGTTTG
1 GGGTTTAGGGTTTG
4175211 GGTTTGGGAT
Statistics
Matches: 76, Mismatches: 16, Indels: 9
0.75 0.16 0.09
Matches are distributed among these distances:
26 1 0.01
27 54 0.71
28 21 0.28
ACGTcount: A:0.15, C:0.02, G:0.35, T:0.48
Consensus pattern (26 bp):
GGGTTTAGGGTTTGATTTAAGGTTTG
Found at i:4175211 original size:27 final size:27
Alignment explanation
Indices: 4175165--4175217 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
4175155 TAATTTTAGT
*
4175165 GTTTGGGGTTTAGGTTTTGGATTTGGC
1 GTTTGGAGTTTAGGTTTTGGATTTGGC
*
4175192 GTTTGGAGTTTAAGG-TTTGGGTTTGG
1 GTTTGGAGTTT-AGGTTTTGGATTTGG
4175218 GATTTCAAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 20 0.87
28 3 0.13
ACGTcount: A:0.09, C:0.02, G:0.42, T:0.47
Consensus pattern (27 bp):
GTTTGGAGTTTAGGTTTTGGATTTGGC
Found at i:4177382 original size:48 final size:49
Alignment explanation
Indices: 4177327--4177429 Score: 129
Period size: 49 Copynumber: 2.1 Consensus size: 49
4177317 AAGCTCCTAT
* **
4177327 AAAATAGGCATT-AACTTTAAAA-AAATTTATTTGAAAAAGGGCTCCAAC
1 AAAATAGGCATTAAACTTTAAAACAAATCTATCCG-AAAAGGGCTCCAAC
* * *
4177375 AAAATAGGTATTAAACTTTAAAACAAATCTATCCGAAAAGGGCTCCTAT
1 AAAATAGGCATTAAACTTTAAAACAAATCTATCCGAAAAGGGCTCCAAC
4177424 AAAATA
1 AAAATA
4177430 TATATCCAAC
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
48 11 0.23
49 28 0.60
50 8 0.17
ACGTcount: A:0.49, C:0.14, G:0.12, T:0.26
Consensus pattern (49 bp):
AAAATAGGCATTAAACTTTAAAACAAATCTATCCGAAAAGGGCTCCAAC
Found at i:4177441 original size:49 final size:49
Alignment explanation
Indices: 4177339--4177451 Score: 111
Period size: 49 Copynumber: 2.3 Consensus size: 49
4177329 AATAGGCATT
* ** * *
4177339 AACTTTAAAAAAATTTATTTGAAAAAGGGCTCCAACAAAATAGGTATTA
1 AACTTTAAAAAAATCTATCCGAAAAAGGGCTCCAACAAAATAGATATCA
* * * *
4177388 AACTTTAAAACAAATCTATCCG-AAAAGGGCTCCTATAAAATATATATCC
1 AACTTTAAAA-AAATCTATCCGAAAAAGGGCTCCAACAAAATAGATATCA
4177437 AACTTTTTAAAAAAA
1 AAC--TTTAAAAAAA
4177452 ATTGTCTAGA
Statistics
Matches: 52, Mismatches: 9, Indels: 5
0.79 0.14 0.08
Matches are distributed among these distances:
49 34 0.65
50 11 0.21
51 7 0.13
ACGTcount: A:0.49, C:0.14, G:0.09, T:0.28
Consensus pattern (49 bp):
AACTTTAAAAAAATCTATCCGAAAAAGGGCTCCAACAAAATAGATATCA
Found at i:4177540 original size:47 final size:47
Alignment explanation
Indices: 4177309--4177689 Score: 241
Period size: 48 Copynumber: 7.9 Consensus size: 47
4177299 TCTTTACATG
** * *
4177309 TCTGGAAAAAGCTCCTATAAAATAGGCAT-TAACTTTAAAAAAATTTA
1 TCTGGAAAGGGCTCCTATAAAATAGGCATCAAACTTT-AAAAAATCTA
* * * * * *
4177356 TTTGAAAAAGGGCTCCAACAAAATAGGTATTAAACTTTAAAACAAATCTA
1 TCTG-GAAAGGGCTCCTATAAAATAGGCATCAAACTTT-AAA-AAATCTA
* * *** * *
4177406 TCCGAAAAGGGCTCCTATAAAATATATATCCAACTTTTTAAAAAAAAT-TG
1 TCTGGAAAGGGCTCCTATAAAATAGGCATCAAAC--TTT--AAAAAATCTA
* * * * **
4177456 TCTAGAAAGAGCTCCTA-AAAAAAGGCTTTTAACTTTAAAAAATCTA
1 TCTGGAAAGGGCTCCTATAAAATAGGCATCAAACTTTAAAAAATCTA
* * * * *
4177502 TCTAGAAAGGGCTCCCATAAAATAGGTATCAAAATTTAAAACAATCTG
1 TCTGGAAAGGGCTCCTATAAAATAGGCATCAAACTTTAAAA-AATCTA
* * * * *
4177550 TTTGGAAAGAGTTCCTATAAAATAAGCATCAAACTTTTTTAAAAA-CTA
1 TCTGGAAAGGGCTCCTATAAAATAGGCATCAAAC--TTTAAAAAATCTA
* * * *
4177598 TGTTGGAAAGGGCTCCTATAAAATAGACATCAAA-TTTAAAAAAAATATG
1 T-CTGGAAAGGGCTCCTATAAAATAGGCATCAAACTTT--AAAAAATCTA
* * *
4177647 TTTGGAAAGGGCTCATATAAAATAAGCATCAAACTTTAAAAAA
1 TCTGGAAAGGGCTCCTATAAAATAGGCATCAAACTTTAAAAAA
4177690 GAATTTGTTT
Statistics
Matches: 259, Mismatches: 59, Indels: 32
0.74 0.17 0.09
Matches are distributed among these distances:
45 7 0.03
46 19 0.07
47 29 0.11
48 87 0.34
49 78 0.30
50 28 0.11
51 7 0.03
52 4 0.02
ACGTcount: A:0.46, C:0.14, G:0.12, T:0.28
Consensus pattern (47 bp):
TCTGGAAAGGGCTCCTATAAAATAGGCATCAAACTTTAAAAAATCTA
Found at i:4177558 original size:48 final size:47
Alignment explanation
Indices: 4177489--4177720 Score: 200
Period size: 48 Copynumber: 4.8 Consensus size: 47
4177479 GGCTTTTAAC
* * * * * *
4177489 TTTAAAAAATCTATCTAGAAAGGGCTCCCATAAAATAGGTATCAAAA
1 TTTAAAAAATCTGTTTGGAAAGGGCTCCTATAAAATAAGCATCAAAA
* * *
4177536 TTTAAAACAATCTGTTTGGAAAGAGTTCCTATAAAATAAGCATCAAACTT
1 TTTAAAA-AATCTGTTTGGAAAGGGCTCCTATAAAATAAGCATCAAA--A
* *
4177586 TTTTAAAAA-CTATGTTGGAAAGGGCTCCTATAAAAT-AGACATC-AAA
1 TTTAAAAAATCTGT-TTGGAAAGGGCTCCTATAAAATAAG-CATCAAAA
* * *
4177632 TTTAAAAAAAATATGTTTGGAAAGGGCTCATATAAAATAAGCATCAAAC
1 TTT--AAAAAATCTGTTTGGAAAGGGCTCCTATAAAATAAGCATCAAAA
* * *
4177681 TTTAAAAAAGAATTTGTTTGGAAAGAGTTCCTATAAAATA
1 TTT--AAAA-AATCTGTTTGGAAAGGGCTCCTATAAAATA
4177721 TGCGTCTATA
Statistics
Matches: 151, Mismatches: 23, Indels: 19
0.78 0.12 0.10
Matches are distributed among these distances:
46 3 0.02
47 7 0.05
48 68 0.45
49 41 0.27
50 32 0.21
ACGTcount: A:0.45, C:0.12, G:0.14, T:0.29
Consensus pattern (47 bp):
TTTAAAAAATCTGTTTGGAAAGGGCTCCTATAAAATAAGCATCAAAA
Found at i:4177823 original size:47 final size:46
Alignment explanation
Indices: 4177727--4178330 Score: 507
Period size: 46 Copynumber: 12.8 Consensus size: 46
4177717 AATATGCGTC
* *
4177727 TATAAAATAGGCATCAAATTTTAAAAATCTATCTAGAAAGGGCTTT
1 TATAAAATAGGCATCAAACTTTAAAAATCTATCTAGAAAGGGCTCT
* * *
4177773 TATAAAATAGGCATCAAACTTTAAAAACTCTATTTAGAAATGGCTTT
1 TATAAAATAGGCATCAAACTTTAAAAA-TCTATCTAGAAAGGGCTCT
** * *
4177820 TAT-AAATAGGCATCAAGTTTTAAAAAATCTATATGGAAAGGGCTCT
1 TATAAAATAGGCATCAAACTTT-AAAAATCTATCTAGAAAGGGCTCT
* * *
4177866 TATAAAATAGACATCAAACTTTTTTTAAAAATTATATCT-GAAAAGGGCTTT
1 TATAAAATAGGCATCAAAC----TTTAAAAA-TCTATCTAG-AAAGGGCTCT
* * * * *
4177917 TATAAAATAAGCTTCAGACTTTAAAAATGTTATCT-GAAAATGGCTCT
1 TATAAAATAGGCATCAAACTTTAAAAAT-CTATCTAG-AAAGGGCTCT
* * * * * *
4177964 TATAAAATAGACATCAAACTTTAAAAAAATCTGTTTGGAAAAGGCTCC
1 TATAAAATAGGCATCAAACTTT--AAAAATCTATCTAGAAAGGGCTCT
* * * * *
4178012 TATAAAATAGGTATCAAACTTTAAAAATTTATCTAGAAAGAGATCC
1 TATAAAATAGGCATCAAACTTTAAAAATCTATCTAGAAAGGGCTCT
* * * *
4178058 TATAAAATTGGCATCAAACTTTAAAAAAAATATGTCTGGAAAGGGCTCT
1 TATAAAATAGGCATCAAACTTT---AAAAATCTATCTAGAAAGGGCTCT
* * * * * * *
4178107 TATAAAATAAGCATCAAACTTTAAAAATCTGT-TTGAAAATGACACA
1 TATAAAATAGGCATCAAACTTTAAAAATCTATCTAG-AAAGGGCTCT
** *
4178153 TATAAAATAAACATCAAACTTTTAAAAATCTATCTAGAAAGGGTTCT
1 TATAAAATAGGCATCAAAC-TTTAAAAATCTATCTAGAAAGGGCTCT
* * * * *
4178200 TATAAAATAGGCATGAAACTTTAAAAATCTGTCCAGAAAAGGCTCC
1 TATAAAATAGGCATCAAACTTTAAAAATCTATCTAGAAAGGGCTCT
* * * * * * * * *
4178246 TATAAAATAAGTACCAAGCTTTAAAAAATCTGTTTGGAAAGGACTCG
1 TATAAAATAGGCATCAAACTTT-AAAAATCTATCTAGAAAGGGCTCT
4178293 TATAAAATAGGCATCAAACTTTAAAAATCTATCT-GAAA
1 TATAAAATAGGCATCAAACTTTAAAAATCTATCTAGAAA
4178331 AGGGTTGATC
Statistics
Matches: 449, Mismatches: 89, Indels: 41
0.78 0.15 0.07
Matches are distributed among these distances:
45 6 0.01
46 180 0.40
47 147 0.33
48 33 0.07
49 45 0.10
50 6 0.01
51 32 0.07
ACGTcount: A:0.45, C:0.13, G:0.12, T:0.30
Consensus pattern (46 bp):
TATAAAATAGGCATCAAACTTTAAAAATCTATCTAGAAAGGGCTCT
Found at i:4177869 original size:93 final size:92
Alignment explanation
Indices: 4177727--4178334 Score: 540
Period size: 93 Copynumber: 6.5 Consensus size: 92
4177717 AATATGCGTC
* * * *
4177727 TATAAAATAGGCATCAAATTTTAAAAATCTATCTAGAAAGGGCTTTTATAAAATAGGCATCAAAC
1 TATAAAATAGGCATCAAACTTTAAAAATCTATCTGGAAAGGGCTCTTATAAAATAGACATCAAAC
* * *
4177792 TTTAAAAACTCTATTTAGAAATGGCTTT
66 TTTAAAAAATCTATTTGGAAA-GGCTCT
** *
4177820 TAT-AAATAGGCATCAAGTTTTAAAAAATCTATATGGAAAGGGCTCTTATAAAATAGACATCAAA
1 TATAAAATAGGCATCAAACTTT-AAAAATCTATCTGGAAAGGGCTCTTATAAAATAGACATCAAA
* * *
4177884 CTTTTTTTAAAAAT-TATATCTGAAAAGGGCTTT
65 C---TTTAAAAAATCTAT-T-TGGAAA-GGCTCT
* * * * * *
4177917 TATAAAATAAGCTTCAGACTTTAAAAATGTTATCTGAAAATGGCTCTTATAAAATAGACATCAAA
1 TATAAAATAGGCATCAAACTTTAAAAAT-CTATCTGGAAAGGGCTCTTATAAAATAGACATCAAA
* *
4177982 CTTTAAAAAAATCTGTTTGGAAAAGGCTCC
65 CTTT-AAAAAATCTATTTGG-AAAGGCTCT
* * * * * * * *
4178012 TATAAAATAGGTATCAAACTTTAAAAATTTATCTAGAAAGAGATCCTATAAAATTGGCATCAAAC
1 TATAAAATAGGCATCAAACTTTAAAAATCTATCTGGAAAGGGCTCTTATAAAATAGACATCAAAC
**
4178077 TTTAAAAAAAATATGTCTGGAAAGGGCTCT
66 TTTAAAAAATCTAT-T-TGGAAA-GGCTCT
* * * * * * * * *
4178107 TATAAAATAAGCATCAAACTTTAAAAATCTGTTTGAAAATGACACATATAAAATAAACATCAAAC
1 TATAAAATAGGCATCAAACTTTAAAAATCTATCTGGAAAGGGCTCTTATAAAATAGACATCAAAC
* * * *
4178172 TTTTAAAAATCTATCTAGAAAGGGTTCT
66 TTTAAAAAATCTATTTGGAAA-GGCTCT
* * ** * *
4178200 TATAAAATAGGCATGAAACTTTAAAAATCTGTCCAGAAAAGGCTCCTATAAAATAAGTAC--CAA
1 TATAAAATAGGCATCAAACTTTAAAAATCTATCTGGAAAGGGCTCTTATAAAAT-AG-ACATCAA
* * *
4178263 GCTTTAAAAAATCTGTTTGGAAAGGACTCG
64 ACTTTAAAAAATCTATTTGGAAAGG-CTCT
*
4178293 TATAAAATAGGCATCAAACTTTAAAAATCTATCTGAAAAGGG
1 TATAAAATAGGCATCAAACTTTAAAAATCTATCTGGAAAGGG
4178335 TTGATCTGTC
Statistics
Matches: 412, Mismatches: 86, Indels: 34
0.77 0.16 0.06
Matches are distributed among these distances:
92 19 0.05
93 164 0.40
94 37 0.09
95 106 0.26
96 19 0.05
97 21 0.05
98 46 0.11
ACGTcount: A:0.44, C:0.12, G:0.13, T:0.30
Consensus pattern (92 bp):
TATAAAATAGGCATCAAACTTTAAAAATCTATCTGGAAAGGGCTCTTATAAAATAGACATCAAAC
TTTAAAAAATCTATTTGGAAAGGCTCT
Found at i:4182033 original size:21 final size:22
Alignment explanation
Indices: 4182009--4182049 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
4181999 TATTTAGAAA
4182009 AAAT-GAAA-AAATGTAAAAAAG
1 AAATGGAAAGAAATG-AAAAAAG
4182030 AAATGGAAAGAAATGAAAAA
1 AAATGGAAAGAAATGAAAAA
4182050 GATTATGTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 4 0.22
22 9 0.50
23 5 0.28
ACGTcount: A:0.71, C:0.00, G:0.17, T:0.12
Consensus pattern (22 bp):
AAATGGAAAGAAATGAAAAAAG
Done.