Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168159.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_4, 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: 33012953
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 65000 characters in sequence are not A, C, G, or T
File 93 of 160
Found at i:17670738 original size:59 final size:57
Alignment explanation
Indices: 17670633--17670796 Score: 206
Period size: 59 Copynumber: 2.8 Consensus size: 57
17670623 ATTGGAAATA
* * *
17670633 TTTTTAGAAATTTTATTTTCAAGAAAAATTGATACTTTCAATTTTTCCTCAAATTTTG
1 TTTTTA-AAATTTTATTTTCAAGGAAAATTGATACTTTCAACTTTTCCCCAAATTTTG
* *
17670691 TTTTTAAAATTTTTATTTTTTAAGGAAAATT-AGTAC-TTCTAACTTTTCCCCAAATTTTT
1 TTTTTAAAA-TTTTA-TTTTCAAGGAAAATTGA-TACTTTC-AACTTTTCCCCAAATTTTG
*
17670750 TTTTTGAAAATTTTATTTTCAAGGAAAATTGATATTTTCAACTTTTC
1 TTTTT-AAAATTTTATTTTCAAGGAAAATTGATACTTTCAACTTTTC
17670797 TTTAAAAATA
Statistics
Matches: 92, Mismatches: 7, Indels: 14
0.81 0.06 0.12
Matches are distributed among these distances:
57 3 0.03
58 39 0.42
59 46 0.50
60 4 0.04
ACGTcount: A:0.32, C:0.10, G:0.07, T:0.51
Consensus pattern (57 bp):
TTTTTAAAATTTTATTTTCAAGGAAAATTGATACTTTCAACTTTTCCCCAAATTTTG
Found at i:17670811 original size:58 final size:56
Alignment explanation
Indices: 17670628--17670817 Score: 152
Period size: 58 Copynumber: 3.3 Consensus size: 56
17670618 TAGAAATTGG
* * * *
17670628 AAATATTTTTAG-AAATTTTATTTTCAAGAAAAATTGATACTTTCAATTTTTCCT-C
1 AAATATTTTTTGAAAATTTTATTTTCAAGGAAAATTGATA-TTTCAACTTTTCCTAA
* * * * *
17670683 AAATTTTGTTTTTAAAATTTTTATTTTTTAAGGAAAATT-AGTACTTCTAACTTTTCCCCAA
1 AAATATT-TTTTGAAAA-TTTTA-TTTTCAAGGAAAATTGA-TATTTC-AACTTTT-CCTAA
** * *
17670744 ATTTTTTTTTTGAAAATTTTATTTTCAAGGAAAATTGATATTTTCAACTTTTCTTTAA
1 AAATATTTTTTGAAAATTTTATTTTCAAGGAAAATTGATA-TTTCAACTTTTC-CTAA
17670802 AAATATTTTTTAGAAA
1 AAATATTTTTT-GAAA
17670818 TTGGAAATAT
Statistics
Matches: 104, Mismatches: 19, Indels: 20
0.73 0.13 0.14
Matches are distributed among these distances:
55 6 0.06
56 3 0.03
57 4 0.04
58 42 0.40
59 34 0.33
60 10 0.10
61 5 0.05
ACGTcount: A:0.35, C:0.09, G:0.06, T:0.50
Consensus pattern (56 bp):
AAATATTTTTTGAAAATTTTATTTTCAAGGAAAATTGATATTTCAACTTTTCCTAA
Found at i:17670819 original size:58 final size:56
Alignment explanation
Indices: 17670628--17670819 Score: 174
Period size: 59 Copynumber: 3.3 Consensus size: 56
17670618 TAGAAATTGG
* *
17670628 AAATA-TTTTTAGAAATTTTATTTTCAAGAAAAATTGATACTTTCAATTTTTCCTCA
1 AAATATTTTTTAGAAATTTTATTTTCAAGGAAAATTGATA-TTTCAACTTTTCCTCA
* * * * *
17670684 AATTTTGTTTTTA-AAATTTTTATTTTTTAAGGAAAATT-AGTACTTCTAACTTTTCCCCA
1 AAATAT-TTTTTAGAAA-TTTTA-TTTTCAAGGAAAATTGA-TATTTC-AACTTTTCCTCA
* * * * *
17670743 AATTTTTTTTTTGAAAATTTTATTTTCAAGGAAAATTGATATTTTCAACTTTTCTTTAA
1 AAATATTTTTTAG-AAATTTTATTTTCAAGGAAAATTGATA-TTTCAACTTTTC-CTCA
17670802 AAATATTTTTTAGAAATT
1 AAATATTTTTTAGAAATT
17670820 GGAAATATTT
Statistics
Matches: 109, Mismatches: 16, Indels: 20
0.75 0.11 0.14
Matches are distributed among these distances:
56 3 0.03
57 3 0.03
58 49 0.45
59 51 0.47
60 3 0.03
ACGTcount: A:0.34, C:0.09, G:0.06, T:0.51
Consensus pattern (56 bp):
AAATATTTTTTAGAAATTTTATTTTCAAGGAAAATTGATATTTCAACTTTTCCTCA
Found at i:17670909 original size:77 final size:74
Alignment explanation
Indices: 17670742--17670909 Score: 169
Period size: 77 Copynumber: 2.2 Consensus size: 74
17670732 ACTTTTCCCC
* * * * *
17670742 AAATTTTT-TTTTTGAAAATTTTATTTTCAAGGAAAATTGATATTTTCAACTTTTCTTTAAAAAT
1 AAATTTTTATTTTAGAAAATTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAAT
17670806 ATTTTTTAG
66 ATTTTTTAG
** *
17670815 AAATTGGAAATATTTTTAG-AAATTTTATTTTCAAGAAAAATTTATACTTTCAACTTTTCCTCAA
1 AAATT---TTTA-TTTTAGAAAATTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTCCTCAA
*
17670879 AAATATTATGTTTTTG
62 AAATA-T-T-TTTTAG
17670895 AAAATTTTTATTTTA
1 -AAATTTTTATTTTA
17670910 TTTTTATTTA
Statistics
Matches: 75, Mismatches: 11, Indels: 14
0.75 0.11 0.14
Matches are distributed among these distances:
73 5 0.07
76 1 0.01
77 50 0.67
78 8 0.11
79 1 0.01
80 5 0.07
81 5 0.07
ACGTcount: A:0.36, C:0.07, G:0.07, T:0.51
Consensus pattern (74 bp):
AAATTTTTATTTTAGAAAATTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAAT
ATTTTTTAG
Found at i:17670980 original size:16 final size:16
Alignment explanation
Indices: 17670961--17670997 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
17670951 AATTAACACA
17670961 TAAAAAAACAAATAAT
1 TAAAAAAACAAATAAT
* *
17670977 TAAATAAGCAAATAAT
1 TAAAAAAACAAATAAT
17670993 TAAAA
1 TAAAA
17670998 TACAAAAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.70, C:0.05, G:0.03, T:0.22
Consensus pattern (16 bp):
TAAAAAAACAAATAAT
Found at i:17671425 original size:21 final size:22
Alignment explanation
Indices: 17671386--17671437 Score: 63
Period size: 21 Copynumber: 2.4 Consensus size: 22
17671376 AATTTTCCAG
*
17671386 AAAAATT-TTAGAAAAAAATGAC
1 AAAAATTCTTAG-AAAAAATCAC
*
17671408 AAAAATTCTTAG-AAAAATCAT
1 AAAAATTCTTAGAAAAAATCAC
17671429 AAAAATTCT
1 AAAAATTCT
17671438 ATGATTGCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
21 16 0.59
22 7 0.26
23 4 0.15
ACGTcount: A:0.60, C:0.08, G:0.06, T:0.27
Consensus pattern (22 bp):
AAAAATTCTTAGAAAAAATCAC
Found at i:17672210 original size:19 final size:19
Alignment explanation
Indices: 17672182--17672218 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
17672172 AATCCAAAGG
17672182 TTCAGATTCACAAGAACTT
1 TTCAGATTCACAAGAACTT
*
17672201 TTCAGCTTCACAAGAACT
1 TTCAGATTCACAAGAACT
17672219 CATTAAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.35, C:0.24, G:0.11, T:0.30
Consensus pattern (19 bp):
TTCAGATTCACAAGAACTT
Found at i:17672393 original size:21 final size:21
Alignment explanation
Indices: 17672368--17672433 Score: 87
Period size: 21 Copynumber: 3.1 Consensus size: 21
17672358 GTTTCACACC
*
17672368 TCAAAGATTTTTATTTGAAAT
1 TCAAAGATTCTTATTTGAAAT
* * *
17672389 TCAAAGATTCTCATTTGACAC
1 TCAAAGATTCTTATTTGAAAT
17672410 TCAAAGATTCTTATTTGAAGAT
1 TCAAAGATTCTTATTTGAA-AT
17672432 TC
1 TC
17672434 TTTAAAGATT
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
21 34 0.92
22 3 0.08
ACGTcount: A:0.35, C:0.14, G:0.11, T:0.41
Consensus pattern (21 bp):
TCAAAGATTCTTATTTGAAAT
Found at i:17672426 original size:42 final size:44
Alignment explanation
Indices: 17672367--17672450 Score: 127
Period size: 42 Copynumber: 1.9 Consensus size: 44
17672357 GGTTTCACAC
*
17672367 CTCAAAGATTTTTATTTGAA-ATTC-AAAGATTCTCATTTGACA
1 CTCAAAGATTCTTATTTGAAGATTCTAAAGATTCTCATTTGACA
17672409 CTCAAAGATTCTTATTTGAAGATTCTTTAAAGATTCTCATTT
1 CTCAAAGATTCTTATTTGAAGATTC--TAAAGATTCTCATTT
17672451 AAGAAATCAG
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
42 19 0.51
43 4 0.11
46 14 0.38
ACGTcount: A:0.33, C:0.14, G:0.10, T:0.43
Consensus pattern (44 bp):
CTCAAAGATTCTTATTTGAAGATTCTAAAGATTCTCATTTGACA
Found at i:17673562 original size:24 final size:23
Alignment explanation
Indices: 17673490--17673562 Score: 62
Period size: 22 Copynumber: 3.1 Consensus size: 23
17673480 ACTTTTTTAT
* *
17673490 TTTTTTTATTTCTTTATTTTTTCTC
1 TTTTTTT-TTTCTCT-TCTTTTCTC
17673515 TTTTTTTTTTCATC--CATTTT-TC
1 TTTTTTTTTTC-TCTTC-TTTTCTC
17673537 TTTTTTTTTTCTCTTCTTTTCATC
1 TTTTTTTTTTCTCTTCTTTTC-TC
17673561 TT
1 TT
17673563 CCACCAATTG
Statistics
Matches: 40, Mismatches: 2, Indels: 13
0.73 0.04 0.24
Matches are distributed among these distances:
21 2 0.05
22 17 0.43
23 5 0.12
24 8 0.20
25 8 0.20
ACGTcount: A:0.07, C:0.16, G:0.00, T:0.77
Consensus pattern (23 bp):
TTTTTTTTTTCTCTTCTTTTCTC
Found at i:17673932 original size:8 final size:9
Alignment explanation
Indices: 17673915--17673948 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
17673905 GTGGCATTCA
17673915 TTTTCTTTT
1 TTTTCTTTT
17673924 TTTTCTTTTT
1 TTTTC-TTTT
17673934 TTTTCTTTT
1 TTTTCTTTT
*
17673943 ATTTCT
1 TTTTCT
17673949 CTTTCCATCT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 14 0.61
10 9 0.39
ACGTcount: A:0.03, C:0.12, G:0.00, T:0.85
Consensus pattern (9 bp):
TTTTCTTTT
Found at i:17673935 original size:10 final size:10
Alignment explanation
Indices: 17673915--17673952 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
17673905 GTGGCATTCA
17673915 TTTTC-TTTT
1 TTTTCTTTTT
17673924 TTTTCTTTTT
1 TTTTCTTTTT
17673934 TTTTCTTTTAT
1 TTTTCTTTT-T
*
17673945 TTCTCTTT
1 TTTTCTTT
17673953 CCATCTTTGA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
9 5 0.19
10 13 0.50
11 8 0.31
ACGTcount: A:0.03, C:0.13, G:0.00, T:0.84
Consensus pattern (10 bp):
TTTTCTTTTT
Found at i:17677088 original size:60 final size:59
Alignment explanation
Indices: 17677024--17677306 Score: 313
Period size: 60 Copynumber: 4.7 Consensus size: 59
17677014 TGCTTTTATA
17677024 TAAGAAAAATTGATACTTTCAACTTTTCCTTAAAAATATATTTTTTTATAATTTTATTTT
1 TAAGAAAAATTGATACTTTCAACTTTTCCTTAAAAATAT-TTTTTTTATAATTTTATTTT
* * * * * *
17677084 TAAGAAAAATTGGTACTTCCAACTTTTTCC--CAAAATGCTTTTTTTGAAAATTTTATTTT
1 TAAGAAAAATTGATACTTTCAAC-TTTTCCTTAAAAAT-ATTTTTTTTATAATTTTATTTT
* * *
17677143 CAAGAAAAATTCATACTTTCAACTTTTCCTTAAAAATATTTTTTTTTAGAATTTTATTTT
1 TAAGAAAAATTGATACTTTCAACTTTTCCTTAAAAATA-TTTTTTTTATAATTTTATTTT
* * * * * *
17677203 TAAGGAAAATTGTTACTTCCAACTTTTTCC--CAAAATGCTTTTTTTTTTTAATTTTATTTT
1 TAAGAAAAATTGATACTTTCAAC-TTTTCCTTAAAAAT--ATTTTTTTTATAATTTTATTTT
* * *
17677263 CAAGGAAAATTAATACTTTCAACTTTTCCTTAAAAATATTTTTT
1 TAAGAAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTT
17677307 ACAAATTGGA
Statistics
Matches: 184, Mismatches: 29, Indels: 21
0.79 0.12 0.09
Matches are distributed among these distances:
58 6 0.03
59 59 0.32
60 102 0.55
61 17 0.09
ACGTcount: A:0.34, C:0.12, G:0.05, T:0.49
Consensus pattern (59 bp):
TAAGAAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTTTTATAATTTTATTTT
Found at i:17677148 original size:119 final size:119
Alignment explanation
Indices: 17677025--17677306 Score: 458
Period size: 119 Copynumber: 2.4 Consensus size: 119
17677015 GCTTTTATAT
* *
17677025 AAGAAAAATTGATACTTTCAACTTTTCCTTAAAAATATATTTTTTTATAATTTTATTTTTAAGAA
1 AAGAAAAATTAATACTTTCAACTTTTCCTTAAAAATAT-TTTTTTTAGAATTTTATTTTTAAGAA
17677090 AAATTGGTACTTCCAACTTTTTCCCAAAATGC-TTTTTTTGAAAATTTTATTTTC
65 AAATTGGTACTTCCAACTTTTTCCCAAAATGCTTTTTTTTGAAAATTTTATTTTC
* *
17677144 AAGAAAAATTCATACTTTCAACTTTTCCTTAAAAATATTTTTTTTTAGAATTTTATTTTTAAGGA
1 AAGAAAAATTAATACTTTCAACTTTTCCTTAAAAATA-TTTTTTTTAGAATTTTATTTTTAAGAA
* ***
17677209 AAATTGTTACTTCCAACTTTTTCCCAAAATGCTTTTTTTTTTTAATTTTATTTTC
65 AAATTGGTACTTCCAACTTTTTCCCAAAATGCTTTTTTTTGAAAATTTTATTTTC
*
17677264 AAGGAAAATTAATACTTTCAACTTTTCCTTAAAAATATTTTTT
1 AAGAAAAATTAATACTTTCAACTTTTCCTTAAAAATATTTTTT
17677307 ACAAATTGGA
Statistics
Matches: 152, Mismatches: 9, Indels: 4
0.92 0.05 0.02
Matches are distributed among these distances:
119 97 0.64
120 55 0.36
ACGTcount: A:0.34, C:0.12, G:0.05, T:0.49
Consensus pattern (119 bp):
AAGAAAAATTAATACTTTCAACTTTTCCTTAAAAATATTTTTTTTAGAATTTTATTTTTAAGAAA
AATTGGTACTTCCAACTTTTTCCCAAAATGCTTTTTTTTGAAAATTTTATTTTC
Found at i:17677511 original size:64 final size:64
Alignment explanation
Indices: 17677328--17677512 Score: 257
Period size: 64 Copynumber: 2.9 Consensus size: 64
17677318 ATATTTTTAG
*
17677328 AAATTTTATTTTCAAGAAAAATTGATACTTTTAACTTTTCTTCCAAAATA-TTTTTTTTTTTGA
1 AAATTTTATTTTTAAGAAAAATTGATACTTTTAACTTTTCTTCCAAAATATTTTTTTTTTTTGA
* ** * *
17677391 AAATTTTTATTTTTTAAGAAAAATTGGTACTTCCAACTTTTC-CCCAAAATGCTTTTTTTTTTTT
1 AAA-TTTTA-TTTTTAAGAAAAATTGATACTTTTAACTTTTCTTCCAAAAT-ATTTTTTTTTTTT
17677455 GA
63 GA
**
17677457 AAATTTTATTTTTAAGAAAAATTGATACTTTTAACTTTTCTTTAAAAATATTTTTT
1 AAATTTTATTTTTAAGAAAAATTGATACTTTTAACTTTTCTTCCAAAATATTTTTT
17677513 AGAAATTGGA
Statistics
Matches: 104, Mismatches: 13, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
63 3 0.03
64 47 0.45
65 38 0.37
66 16 0.15
ACGTcount: A:0.33, C:0.10, G:0.05, T:0.52
Consensus pattern (64 bp):
AAATTTTATTTTTAAGAAAAATTGATACTTTTAACTTTTCTTCCAAAATATTTTTTTTTTTTGA
Found at i:17677521 original size:206 final size:201
Alignment explanation
Indices: 17677131--17677612 Score: 665
Period size: 206 Copynumber: 2.4 Consensus size: 201
17677121 CTTTTTTTGA
* * *
17677131 AAATTTTATTTTCAAGAAAAATTCATACTTTCAACTTTTCCTT--AAAAATATTTTTTTTT-AGA
1 AAATTTTATTTTCAAGAAAAATTAATACTTTCAACTTTT-CTTCCAAAAATTTTTTTTTTTGAAA
* * *
17677193 A-TTTTA-TTTTTAAGGAAAATTGTTACTTCCAACTTTTTCCCAAAATGCTTTTTTTTTTTAATT
65 ATTTTTATTTTTTAAGAAAAATTGGTACTTCCAACTTTTCCCCAAAATGCTTTTTTTTTTTAATT
*
17677256 TTATTTTCAAGGAAAATTAATACTTTCAACTTTTCCTTAAAAATATTTTTTACAAATTGGAAATA
130 TTATTTTCAAGAAAAATTAATACTTTCAACTTTTCCTTAAAAATATTTTTTACAAATTGGAAATA
17677321 TTTTTAG
195 TTTTTAG
* *
17677328 AAATTTTATTTTCAAGAAAAATTGATACTTTTAACTTTTCTTCCAAAATATTTTTTTTTTTGAAA
1 AAATTTTATTTTCAAGAAAAATTAATACTTTCAACTTTTCTTCCAAAA-ATTTTTTTTTTTGAAA
17677393 ATTTTTATTTTTTAAGAAAAATTGGTACTTCCAACTTTTCCCCAAAATGCTTTTTTTTTTTTGAA
65 ATTTTTATTTTTTAAGAAAAATTGGTACTTCCAACTTTTCCCCAAAATGC-TTTTTTTTTTT---
* * * * *
17677458 AATTTTATTTTTAAGAAAAATTGATACTTTTAACTTTTCTTTAAAAATATTTTTTAGAAATTGGA
126 AATTTTATTTTCAAGAAAAATTAATACTTTCAACTTTTCCTTAAAAATATTTTTTACAAATTGGA
17677523 AATATTTTTAG
191 AATATTTTTAG
* * *
17677534 AAATTTTATTTTTAAGGAAAATTAATACTTTCAAC-TTT-TTCACAAAAAAATTTTTTTTTTGAA
1 AAATTTTATTTTCAAGAAAAATTAATACTTTCAACTTTTCTTC-C-AAAAATTTTTTTTTTTG-A
17677597 AAATTTTT-TTATTTTA
63 AAATTTTTATT-TTTTA
17677613 TTTTTATTAA
Statistics
Matches: 253, Mismatches: 18, Indels: 19
0.87 0.06 0.07
Matches are distributed among these distances:
196 3 0.01
197 37 0.15
198 4 0.02
199 11 0.04
200 3 0.01
201 5 0.02
202 39 0.15
203 11 0.04
204 3 0.01
205 18 0.07
206 119 0.47
ACGTcount: A:0.35, C:0.09, G:0.06, T:0.50
Consensus pattern (201 bp):
AAATTTTATTTTCAAGAAAAATTAATACTTTCAACTTTTCTTCCAAAAATTTTTTTTTTTGAAAA
TTTTTATTTTTTAAGAAAAATTGGTACTTCCAACTTTTCCCCAAAATGCTTTTTTTTTTTAATTT
TATTTTCAAGAAAAATTAATACTTTCAACTTTTCCTTAAAAATATTTTTTACAAATTGGAAATAT
TTTTAG
Found at i:17677689 original size:23 final size:23
Alignment explanation
Indices: 17677650--17677694 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
17677640 ATACTCCTAA
*
17677650 AAATAAATAACTCATAAAAAAAC
1 AAATAAATAAATCATAAAAAAAC
17677673 AAATAAATAAAAT-ATAAAAAAA
1 AAATAAAT-AAATCATAAAAAAA
17677695 ATGAATGGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 17 0.85
24 3 0.15
ACGTcount: A:0.76, C:0.07, G:0.00, T:0.18
Consensus pattern (23 bp):
AAATAAATAAATCATAAAAAAAC
Found at i:17678442 original size:3 final size:3
Alignment explanation
Indices: 17678396--17678455 Score: 52
Period size: 3 Copynumber: 19.7 Consensus size: 3
17678386 TTTTTTTTAC
* * *
17678396 TAA TAA -AA TAAA TAA TTAA AAA TCAA -AA TAA AAA TAA GAA TAA TAA
1 TAA TAA TAA T-AA TAA -TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA
17678442 TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TA
17678456 GTAGTAAAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
2 4 0.09
3 34 0.74
4 8 0.17
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.27
Consensus pattern (3 bp):
TAA
Found at i:17685872 original size:3 final size:3
Alignment explanation
Indices: 17685856--17685908 Score: 70
Period size: 3 Copynumber: 17.0 Consensus size: 3
17685846 AAAATAAAGA
* *
17685856 AAT AAT AACA AAT AAT AAT AGT AAAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AA-T AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT
17685903 AAT AAT
1 AAT AAT
17685909 TTTAATGAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
3 40 0.91
4 4 0.09
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:17685874 original size:13 final size:12
Alignment explanation
Indices: 17685837--17685908 Score: 65
Period size: 12 Copynumber: 5.9 Consensus size: 12
17685827 TATTGAAAAT
* *
17685837 ATAAAAGTAAAA
1 ATAAAAATAATA
*
17685849 ATAAAGA-AATA
1 ATAAAAATAATA
17685860 ATAACAAATAATA
1 ATAA-AAATAATA
*
17685873 ATAGTAAATAATA
1 ATA-AAAATAATA
*
17685886 ATAATAATAATA
1 ATAAAAATAATA
*
17685898 ATAATAATAAT
1 ATAAAAATAAT
17685909 TTTAATGAAA
Statistics
Matches: 50, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
11 7 0.14
12 25 0.50
13 18 0.36
ACGTcount: A:0.68, C:0.01, G:0.04, T:0.26
Consensus pattern (12 bp):
ATAAAAATAATA
Found at i:17686034 original size:27 final size:27
Alignment explanation
Indices: 17686001--17686057 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
17685991 TAAAATTTTG
* * * *
17686001 AAACCTTAAAGTGAATCCGTAAAGCCT
1 AAACCTTAAAATGAAACCCTAAACCCT
17686028 AAACCTTAAAATGAAACCCTAAACCCT
1 AAACCTTAAAATGAAACCCTAAACCCT
17686055 AAA
1 AAA
17686058 ATAAAATCAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.47, C:0.25, G:0.09, T:0.19
Consensus pattern (27 bp):
AAACCTTAAAATGAAACCCTAAACCCT
Found at i:17686070 original size:20 final size:20
Alignment explanation
Indices: 17686027--17686075 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
17686017 CCGTAAAGCC
* * *
17686027 TAAACCTTAAAATGAAACCC
1 TAAACCCTAAAATAAAACCA
*
17686047 TAAACCCTAAAATAAAATCA
1 TAAACCCTAAAATAAAACCA
17686067 TAAACCCTA
1 TAAACCCTA
17686076 TATGCAAACC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.53, C:0.24, G:0.02, T:0.20
Consensus pattern (20 bp):
TAAACCCTAAAATAAAACCA
Found at i:17701658 original size:21 final size:21
Alignment explanation
Indices: 17701634--17701677 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
17701624 TAGCTTAGCT
*
17701634 TTGCTTTTCTTTGCTTTTTCC
1 TTGCTTTACTTTGCTTTTTCC
*
17701655 TTGCTTTACTTTGTTTTTTCC
1 TTGCTTTACTTTGCTTTTTCC
17701676 TT
1 TT
17701678 CCTCTCTCTC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.02, C:0.20, G:0.09, T:0.68
Consensus pattern (21 bp):
TTGCTTTACTTTGCTTTTTCC
Found at i:17708103 original size:16 final size:16
Alignment explanation
Indices: 17708059--17708105 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
17708049 TATATATTTT
* *
17708059 ATTAGTTATTTAATTAT
1 ATTA-TTATTTAATAAA
17708076 A-TATTATATTAATAAA
1 ATTATTAT-TTAATAAA
17708092 ATTATTATTTAATA
1 ATTATTATTTAATA
17708106 TTTTAATTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 4 0.15
16 15 0.58
17 7 0.27
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (16 bp):
ATTATTATTTAATAAA
Found at i:17708116 original size:13 final size:13
Alignment explanation
Indices: 17708080--17708131 Score: 54
Period size: 13 Copynumber: 4.2 Consensus size: 13
17708070 AATTATATAT
**
17708080 TATATTAATAAAA
1 TATATTAATTTAA
17708093 T-TATT-ATTTAA
1 TATATTAATTTAA
*
17708104 TATTTTAATTTAA
1 TATATTAATTTAA
*
17708117 AATATTAATTTAA
1 TATATTAATTTAA
17708130 TA
1 TA
17708132 AAAAATAATA
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
11 5 0.16
12 7 0.23
13 19 0.61
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
TATATTAATTTAA
Found at i:17712261 original size:23 final size:26
Alignment explanation
Indices: 17712201--17712263 Score: 78
Period size: 26 Copynumber: 2.5 Consensus size: 26
17712191 TCAATGTTCT
*
17712201 ATTTGTAAAACATTTATACTATTTGC
1 ATTTGTAAAATATTTATACTATTTGC
* *
17712227 ATTTGTATAATATTTAT-GTATTT-C
1 ATTTGTAAAATATTTATACTATTTGC
17712251 -TTTGTAAAATATT
1 ATTTGTAAAATATT
17712264 AGTATAATAG
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
23 12 0.36
24 1 0.03
25 5 0.15
26 15 0.45
ACGTcount: A:0.33, C:0.06, G:0.08, T:0.52
Consensus pattern (26 bp):
ATTTGTAAAATATTTATACTATTTGC
Found at i:17712539 original size:10 final size:10
Alignment explanation
Indices: 17712526--17712692 Score: 78
Period size: 10 Copynumber: 16.5 Consensus size: 10
17712516 AAAATTAAGC
17712526 AAAAATTCTA
1 AAAAATTCTA
17712536 AAAAATT-T-
1 AAAAATTCTA
*
17712544 AAAAAGT-TA
1 AAAAATTCTA
* *
17712553 AAAAAATATA
1 AAAAATTCTA
*
17712563 TAAAAATTCAAAAA
1 -AAAAATTC---TA
*
17712577 AAAAAAT-TA
1 AAAAATTCTA
* *
17712586 AAAATTTTTA
1 AAAAATTCTA
*
17712596 CAAAATTCTA
1 AAAAATTCTA
*
17712606 AAAAAATCTA
1 AAAAATTCTA
17712616 AAAAATTCAAATA
1 AAAAATTC---TA
17712629 AAAAA-TCTA
1 AAAAATTCTA
*
17712638 AAAATTTCTA
1 AAAAATTCTA
* *
17712648 AAAATTTTTAA
1 AAAAATTCT-A
17712659 AAAAATTCTA
1 AAAAATTCTA
**
17712669 CAACCATT-TA
1 -AAAAATTCTA
17712679 AAAAATT-TA
1 AAAAATTCTA
17712688 AAAAA
1 AAAAA
17712693 AGATCTACAA
Statistics
Matches: 121, Mismatches: 23, Indels: 27
0.71 0.13 0.16
Matches are distributed among these distances:
8 7 0.06
9 31 0.26
10 48 0.40
11 19 0.16
12 2 0.02
13 13 0.11
14 1 0.01
ACGTcount: A:0.63, C:0.07, G:0.01, T:0.29
Consensus pattern (10 bp):
AAAAATTCTA
Found at i:17712620 original size:52 final size:53
Alignment explanation
Indices: 17712526--17712664 Score: 155
Period size: 52 Copynumber: 2.7 Consensus size: 53
17712516 AAAATTAAGC
* * *
17712526 AAAAATTCTAAAAAATT-TAAAAA-GT-TAAAAAAATATATAAAAATTCAAAAA
1 AAAAAATCTAAAAATTTCTAAAAATTTCTAAAAAAATATATAAAAATTC-AAAA
* * *
17712577 AAAAAAT-TAAAAATTTTTACAAAA-TTCTAAAAAAATCTA-AAAAATTCAAAT
1 AAAAAATCTAAAAATTTCTA-AAAATTTCTAAAAAAATATATAAAAATTCAAAA
*
17712628 AAAAAATCTAAAAATTTCTAAAAATTTTTAAAAAAAT
1 AAAAAATCTAAAAATTTCTAAAAATTTCTAAAAAAAT
17712665 TCTACAACCA
Statistics
Matches: 76, Mismatches: 7, Indels: 9
0.83 0.08 0.10
Matches are distributed among these distances:
50 8 0.11
51 22 0.29
52 35 0.46
53 11 0.14
ACGTcount: A:0.65, C:0.06, G:0.01, T:0.29
Consensus pattern (53 bp):
AAAAAATCTAAAAATTTCTAAAAATTTCTAAAAAAATATATAAAAATTCAAAA
Found at i:17712661 original size:21 final size:21
Alignment explanation
Indices: 17712637--17712686 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
17712627 TAAAAAATCT
**
17712637 AAAAATTTCTAAAAATTTTTA
1 AAAAATTTCTAAAAACATTTA
* * *
17712658 AAAAAATTCTACAACCATTTA
1 AAAAATTTCTAAAAACATTTA
17712679 AAAAATTT
1 AAAAATTT
17712687 AAAAAAAGAT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.54, C:0.10, G:0.00, T:0.36
Consensus pattern (21 bp):
AAAAATTTCTAAAAACATTTA
Found at i:17712663 original size:31 final size:30
Alignment explanation
Indices: 17712583--17712715 Score: 83
Period size: 31 Copynumber: 4.3 Consensus size: 30
17712573 AAAAAAAAAA
* * *
17712583 TTAAAAATTTTT-ACAAAATTCTAAAAAAAT
1 TTAAAAATTTTTAAAAAAAATCT-AAAAATT
* * **
17712613 CTAAAAAATTCAAATAAAAAATCTAAAAATT
1 TTAAAAATTTTTAA-AAAAAATCTAAAAATT
* *
17712644 TCTAAAAATTTTTAAAAAAATTCTACAACCA-T
1 T-TAAAAATTTTTAAAAAAAATCTA-AA-AATT
* *
17712676 TTAAAAA-ATTTAAAAAAAGATCTACAAATT
1 TTAAAAATTTTTAAAAAAA-ATCTAAAAATT
17712706 TTAGAAAATT
1 TTA-AAAATT
17712716 CAAAATAATT
Statistics
Matches: 76, Mismatches: 18, Indels: 16
0.69 0.16 0.15
Matches are distributed among these distances:
29 1 0.01
30 23 0.30
31 30 0.39
32 21 0.28
33 1 0.01
ACGTcount: A:0.57, C:0.09, G:0.02, T:0.32
Consensus pattern (30 bp):
TTAAAAATTTTTAAAAAAAATCTAAAAATT
Found at i:17712784 original size:17 final size:17
Alignment explanation
Indices: 17712762--17712822 Score: 65
Period size: 18 Copynumber: 3.6 Consensus size: 17
17712752 TTTTATAAAT
17712762 TTTTTTATAAATTTATA
1 TTTTTTATAAATTTATA
17712779 TTTTTTATAAAATTTA-A
1 TTTTTTAT-AAATTTATA
*
17712796 -TTTTTATAATTTTAGT-
1 TTTTTTATAAATTTA-TA
17712812 TGTTTTTATAA
1 T-TTTTTATAA
17712823 TTTTTTTATT
Statistics
Matches: 38, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
15 6 0.16
16 7 0.18
17 9 0.24
18 16 0.42
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (17 bp):
TTTTTTATAAATTTATA
Found at i:17712799 original size:16 final size:18
Alignment explanation
Indices: 17712762--17712804 Score: 65
Period size: 16 Copynumber: 2.6 Consensus size: 18
17712752 TTTTATAAAT
17712762 TTTTTTAT-AAATTTATA
1 TTTTTTATAAAATTTATA
17712779 TTTTTTATAAAATTTA-A
1 TTTTTTATAAAATTTATA
17712796 -TTTTTATAA
1 TTTTTTATAA
17712805 TTTTAGTTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
16 9 0.36
17 9 0.36
18 7 0.28
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (18 bp):
TTTTTTATAAAATTTATA
Found at i:17712835 original size:18 final size:17
Alignment explanation
Indices: 17712762--17712849 Score: 54
Period size: 18 Copynumber: 5.1 Consensus size: 17
17712752 TTTTATAAAT
* *
17712762 TTTTTTATAAATTTATA
1 TTTTTTATAATTTTTTA
**
17712779 TTTTTTATAA-AATTTA
1 TTTTTTATAATTTTTTA
*
17712795 ATTTTTATAATTTTAGTT-
1 TTTTTTATAATTTT--TTA
*
17712813 GTTTTTATAATTTTTTTA
1 TTTTTTATAA-TTTTTTA
* *
17712831 TTTTTGAAAAATTTTTTA
1 TTTTT-TATAATTTTTTA
17712849 T
1 T
17712850 AAGTTTAAAA
Statistics
Matches: 55, Mismatches: 10, Indels: 11
0.72 0.13 0.14
Matches are distributed among these distances:
16 12 0.22
17 13 0.24
18 21 0.38
19 9 0.16
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (17 bp):
TTTTTTATAATTTTTTA
Found at i:17713017 original size:17 final size:19
Alignment explanation
Indices: 17712987--17713027 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 19
17712977 ATTTTTTAGT
17712987 ATTTTTTAGAAA-TT-AAA
1 ATTTTTTAGAAATTTAAAA
**
17713004 ATTTTTTATCAATTTAAAA
1 ATTTTTTAGAAATTTAAAA
17713023 ATTTT
1 ATTTT
17713028 AAAAATATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
17 10 0.50
18 2 0.10
19 8 0.40
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.54
Consensus pattern (19 bp):
ATTTTTTAGAAATTTAAAA
Found at i:17713109 original size:11 final size:10
Alignment explanation
Indices: 17713081--17713128 Score: 51
Period size: 10 Copynumber: 4.7 Consensus size: 10
17713071 TGTTGTTTTG
*
17713081 AATTTTTTTA
1 AATTTTTTAA
*
17713091 AAGTTTTTAA
1 AATTTTTTAA
*
17713101 AATTATTTTGA
1 AATT-TTTTAA
*
17713112 AGTTTTTTAA
1 AATTTTTTAA
17713122 AATTTTT
1 AATTTTT
17713129 AGAATATTTA
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
10 22 0.73
11 8 0.27
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.60
Consensus pattern (10 bp):
AATTTTTTAA
Found at i:17713109 original size:20 final size:21
Alignment explanation
Indices: 17713081--17713125 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
17713071 TGTTGTTTTG
*
17713081 AATTTTTTTAAAG-TTTTTAA
1 AATTATTTTAAAGTTTTTTAA
*
17713101 AATTATTTTGAAGTTTTTTAA
1 AATTATTTTAAAGTTTTTTAA
17713122 AATT
1 AATT
17713126 TTTAGAATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 11 0.50
21 11 0.50
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.58
Consensus pattern (21 bp):
AATTATTTTAAAGTTTTTTAA
Found at i:17713110 original size:30 final size:29
Alignment explanation
Indices: 17713076--17713137 Score: 88
Period size: 30 Copynumber: 2.1 Consensus size: 29
17713066 ATTAGTGTTG
* *
17713076 TTTTGAATTTTTTTAAAGTTTTTAAAATTA
1 TTTTGAAGTTTTTTAAAATTTTTAAAA-TA
*
17713106 TTTTGAAGTTTTTTAAAATTTTTAGAATA
1 TTTTGAAGTTTTTTAAAATTTTTAAAATA
17713135 TTT
1 TTT
17713138 AAAATATTGT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 5 0.17
30 24 0.83
ACGTcount: A:0.32, C:0.00, G:0.08, T:0.60
Consensus pattern (29 bp):
TTTTGAAGTTTTTTAAAATTTTTAAAATA
Found at i:17713137 original size:11 final size:9
Alignment explanation
Indices: 17713085--17713242 Score: 59
Period size: 9 Copynumber: 16.6 Consensus size: 9
17713075 GTTTTGAATT
*
17713085 TTTTTAAAG
1 TTTTTAAAA
17713094 TTTTTAAAA
1 TTTTTAAAA
**
17713103 TTATTTTGAAGT
1 -T-TTTT-AAAA
17713115 TTTTTAAAA
1 TTTTTAAAA
*
17713124 TTTTTAGAA
1 TTTTTAAAA
*
17713133 TATTTAAAATA
1 T-TTTTAAA-A
*
17713144 TTGTTTGAAA
1 TT-TTTAAAA
17713154 -TTTTAAAA
1 TTTTTAAAA
**** *
17713162 AAAATAATA
1 TTTTTAAAA
* *
17713171 TTTTTGAGA
1 TTTTTAAAA
17713180 TTTTTAAAAA
1 TTTTT-AAAA
*
17713190 TATTTTATAA
1 T-TTTTAAAA
17713200 -TTTTAAGAA
1 TTTTTAA-AA
17713209 TTTTTAAAA
1 TTTTTAAAA
*
17713218 TTTTTTAGAA
1 -TTTTTAAAA
*
17713228 TTATTTATAA
1 TT-TTTAAAA
17713238 TTTTT
1 TTTTT
17713243 TGAAATTAAA
Statistics
Matches: 109, Mismatches: 27, Indels: 26
0.67 0.17 0.16
Matches are distributed among these distances:
8 11 0.10
9 41 0.38
10 40 0.37
11 15 0.14
12 2 0.02
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.54
Consensus pattern (9 bp):
TTTTTAAAA
Found at i:17713212 original size:28 final size:28
Alignment explanation
Indices: 17713172--17713229 Score: 71
Period size: 28 Copynumber: 2.1 Consensus size: 28
17713162 AAAATAATAT
* * *
17713172 TTTTGAGATTTTTAAAAATATTTTATAA
1 TTTTAAGAATTTTAAAAATATTTTAGAA
* *
17713200 TTTTAAGAATTTTTAAAATTTTTTAGAA
1 TTTTAAGAATTTTAAAAATATTTTAGAA
17713228 TT
1 TT
17713230 ATTTATAATT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (28 bp):
TTTTAAGAATTTTAAAAATATTTTAGAA
Found at i:17713222 original size:19 final size:19
Alignment explanation
Indices: 17713179--17713242 Score: 76
Period size: 19 Copynumber: 3.3 Consensus size: 19
17713169 TATTTTTGAG
*
17713179 ATTTTTAAAAATATTTTATA
1 ATTTTTAAGAAT-TTTTATA
*
17713199 A-TTTTAAGAATTTTTAAA
1 ATTTTTAAGAATTTTTATA
*
17713217 ATTTTTTAGAATTATTTATA
1 ATTTTTAAGAATT-TTTATA
17713237 ATTTTT
1 ATTTTT
17713243 TGAAATTAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
18 7 0.18
19 19 0.50
20 12 0.32
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (19 bp):
ATTTTTAAGAATTTTTATA
Found at i:17713243 original size:20 final size:19
Alignment explanation
Indices: 17713192--17713243 Score: 70
Period size: 20 Copynumber: 2.7 Consensus size: 19
17713182 TTTAAAAATA
*
17713192 TTTTATAA-TTTTAAGAAT
1 TTTTATAATTTTTTAGAAT
*
17713210 TTTTAAAATTTTTTAGAAT
1 TTTTATAATTTTTTAGAAT
17713229 TATTTATAATTTTTT
1 T-TTTATAATTTTTT
17713244 GAAATTAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
18 7 0.24
19 10 0.34
20 12 0.41
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.62
Consensus pattern (19 bp):
TTTTATAATTTTTTAGAAT
Found at i:17713249 original size:20 final size:20
Alignment explanation
Indices: 17713193--17713250 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
17713183 TTAAAAATAT
**
17713193 TTTATAATTTTAAG-AATT-
1 TTTATAATTTTTTGAAATTA
*
17713211 TTTAAAATTTTTT-AGAATTA
1 TTTATAATTTTTTGA-AATTA
17713231 TTTATAATTTTTTGAAATTA
1 TTTATAATTTTTTGAAATTA
17713251 AAAATTTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
18 10 0.31
19 4 0.12
20 17 0.53
21 1 0.03
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (20 bp):
TTTATAATTTTTTGAAATTA
Found at i:17713312 original size:10 final size:10
Alignment explanation
Indices: 17713297--17713343 Score: 60
Period size: 10 Copynumber: 4.6 Consensus size: 10
17713287 TTTATAATTT
17713297 TTTTTTAGAA
1 TTTTTTAGAA
17713307 TTTTTTAGAA
1 TTTTTTAGAA
*
17713317 CTTTTTTATAA
1 -TTTTTTAGAA
17713328 TTGTTTT-GAA
1 TT-TTTTAGAA
17713338 TTTTTT
1 TTTTTT
17713344 TTTAGTTTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
9 4 0.12
10 16 0.48
11 13 0.39
ACGTcount: A:0.23, C:0.02, G:0.09, T:0.66
Consensus pattern (10 bp):
TTTTTTAGAA
Found at i:17713323 original size:21 final size:21
Alignment explanation
Indices: 17713297--17713344 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
17713287 TTTATAATTT
17713297 TTTTTTAGAATT-TTTTAGAAC
1 TTTTTTAGAATTGTTTT-GAAC
* *
17713318 TTTTTTATAATTGTTTTGAAT
1 TTTTTTAGAATTGTTTTGAAC
17713339 TTTTTT
1 TTTTTT
17713345 TTAGTTTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.23, C:0.02, G:0.08, T:0.67
Consensus pattern (21 bp):
TTTTTTAGAATTGTTTTGAAC
Found at i:17713381 original size:9 final size:10
Alignment explanation
Indices: 17713349--17713432 Score: 55
Period size: 10 Copynumber: 8.4 Consensus size: 10
17713339 TTTTTTTTAG
*
17713349 TTTTAAAACT
1 TTTTAAAAAT
** *
17713359 TTTTTGAAGT
1 TTTTAAAAAT
17713369 TTTTAAAAAT
1 TTTTAAAAAT
17713379 TTTTAAAAA-
1 TTTTAAAAAT
* *
17713388 TTTTAATATT
1 TTTTAAAAAT
*
17713398 TTTTGAAGAAT
1 TTTT-AAAAAT
**
17713409 TTTT-TTAAT
1 TTTTAAAAAT
17713418 TTTTAAAAAAT
1 TTTT-AAAAAT
17713429 TTTT
1 TTTT
17713433 CTTTTTATAC
Statistics
Matches: 56, Mismatches: 14, Indels: 7
0.73 0.18 0.09
Matches are distributed among these distances:
9 14 0.25
10 27 0.48
11 15 0.27
ACGTcount: A:0.37, C:0.01, G:0.05, T:0.57
Consensus pattern (10 bp):
TTTTAAAAAT
Found at i:17713487 original size:2 final size:2
Alignment explanation
Indices: 17713480--17713508 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
17713470 ATTAGACTTT
17713480 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
17713509 GTTAGCAACT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:17714132 original size:23 final size:22
Alignment explanation
Indices: 17714088--17714156 Score: 70
Period size: 23 Copynumber: 3.1 Consensus size: 22
17714078 GAGGCCTAAA
*
17714088 TTTTTTTCTTTCTTCTC-TTTTTG
1 TTTTTTT-TTTCTT-TCATTTTTC
17714111 TTTTTTTTTTCTTTCATATTTTC
1 TTTTTTTTTTCTTTCAT-TTTTC
* *
17714134 CTCTTTTTTTC-TTCATTTTTC
1 TTTTTTTTTTCTTTCATTTTTC
17714155 TT
1 TT
17714157 CTCCTTTTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
21 8 0.20
22 12 0.30
23 20 0.50
ACGTcount: A:0.04, C:0.17, G:0.01, T:0.77
Consensus pattern (22 bp):
TTTTTTTTTTCTTTCATTTTTC
Found at i:17714164 original size:22 final size:23
Alignment explanation
Indices: 17714116--17714169 Score: 60
Period size: 22 Copynumber: 2.4 Consensus size: 23
17714106 TTTTGTTTTT
*
17714116 TTTTTCTTTCATATTTTCCTCTT
1 TTTTTCTTTCATATTTTCCTCTC
*
17714139 TTTTTC-TTCAT-TTTTCTTCTCC
1 TTTTTCTTTCATATTTTCCTCT-C
17714161 TTTTT-TTTC
1 TTTTTCTTTC
17714170 GGACACTTAC
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
21 8 0.30
22 13 0.48
23 6 0.22
ACGTcount: A:0.06, C:0.22, G:0.00, T:0.72
Consensus pattern (23 bp):
TTTTTCTTTCATATTTTCCTCTC
Found at i:17714164 original size:23 final size:23
Alignment explanation
Indices: 17714115--17714166 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
17714105 TTTTTGTTTT
*
17714115 TTTTTTCTTTCATATTTTCCTCT
1 TTTTTTCTTTCATATTTTCCTCC
17714138 TTTTTTC-TTCAT-TTTTCTTCTCC
1 TTTTTTCTTTCATATTTTC--CTCC
17714161 TTTTTT
1 TTTTTT
17714167 TTCGGACACT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
21 5 0.19
22 5 0.19
23 16 0.62
ACGTcount: A:0.06, C:0.21, G:0.00, T:0.73
Consensus pattern (23 bp):
TTTTTTCTTTCATATTTTCCTCC
Found at i:17714865 original size:18 final size:18
Alignment explanation
Indices: 17714830--17714872 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
17714820 TGAATTAAGT
* *
17714830 ACAAACATGGAAATAAAG
1 ACAAACATGCAAACAAAG
*
17714848 ACAAAGATGCAAACAAAG
1 ACAAACATGCAAACAAAG
17714866 A-AAACAT
1 ACAAACAT
17714873 TTGAATTGGA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.63, C:0.14, G:0.14, T:0.09
Consensus pattern (18 bp):
ACAAACATGCAAACAAAG
Found at i:17715676 original size:22 final size:22
Alignment explanation
Indices: 17715650--17715707 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
17715640 TATGTATATA
* *
17715650 TTATTATAAGTATGTGCACATG
1 TTATTATAAGTATATACACATG
* * *
17715672 TTATTGTAAGTTTATATACATG
1 TTATTATAAGTATATACACATG
*
17715694 TTACTATAAGTATA
1 TTATTATAAGTATA
17715708 GAAGAGAGAT
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.34, C:0.07, G:0.14, T:0.45
Consensus pattern (22 bp):
TTATTATAAGTATATACACATG
Found at i:17715875 original size:22 final size:22
Alignment explanation
Indices: 17715845--17715896 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
17715835 AATAGATCCC
17715845 TACTCATAAGTATATGTATATAT
1 TACT-ATAAGTATATGTATATAT
* *
17715868 TACTATAATTATATGTGTATAT
1 TACTATAAGTATATGTATATAT
*
17715890 TATTATA
1 TACTATA
17715897 TGTACATTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
22 22 0.85
23 4 0.15
ACGTcount: A:0.38, C:0.06, G:0.08, T:0.48
Consensus pattern (22 bp):
TACTATAAGTATATGTATATAT
Found at i:17715992 original size:22 final size:22
Alignment explanation
Indices: 17715941--17716039 Score: 99
Period size: 22 Copynumber: 4.5 Consensus size: 22
17715931 TAAGATCAAC
* * *
17715941 AATTATATGTATATGTTAGTAA
1 AATTATATGTACATGTTACTAT
** * *
17715963 AAAAATATATACATGTTATTAT
1 AATTATATGTACATGTTACTAT
*
17715985 AATTATATGTACATGTTGCTAT
1 AATTATATGTACATGTTACTAT
* *
17716007 GATTATATGTACATGTTGCTAT
1 AATTATATGTACATGTTACTAT
*
17716029 AAGTATATGTA
1 AATTATATGTA
17716040 TATTAATTAT
Statistics
Matches: 63, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 63 1.00
ACGTcount: A:0.38, C:0.05, G:0.13, T:0.43
Consensus pattern (22 bp):
AATTATATGTACATGTTACTAT
Found at i:17721035 original size:32 final size:32
Alignment explanation
Indices: 17720999--17721067 Score: 93
Period size: 32 Copynumber: 2.2 Consensus size: 32
17720989 AATTTAACTT
17720999 TATAAGCTTAATACTCAAACCTAACATTAAAA
1 TATAAGCTTAATACTCAAACCTAACATTAAAA
** * * *
17721031 TATAATTTTTATACTCGAACCTGACATTAAAA
1 TATAAGCTTAATACTCAAACCTAACATTAAAA
17721063 TATAA
1 TATAA
17721068 TTTTTTATAT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.46, C:0.16, G:0.04, T:0.33
Consensus pattern (32 bp):
TATAAGCTTAATACTCAAACCTAACATTAAAA
Found at i:17721068 original size:32 final size:32
Alignment explanation
Indices: 17721009--17721072 Score: 110
Period size: 32 Copynumber: 2.0 Consensus size: 32
17720999 TATAAGCTTA
17721009 ATACTCAAACCTAACATTAAAATATAATTTTT
1 ATACTCAAACCTAACATTAAAATATAATTTTT
* *
17721041 ATACTCGAACCTGACATTAAAATATAATTTTT
1 ATACTCAAACCTAACATTAAAATATAATTTTT
17721073 TATATAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.44, C:0.16, G:0.03, T:0.38
Consensus pattern (32 bp):
ATACTCAAACCTAACATTAAAATATAATTTTT
Found at i:17721096 original size:17 final size:17
Alignment explanation
Indices: 17721074--17721166 Score: 53
Period size: 17 Copynumber: 5.9 Consensus size: 17
17721064 ATAATTTTTT
17721074 ATATAAAAAATTATTTA
1 ATATAAAAAATTATTTA
17721091 ATAT--AAAA-T-TTT-
1 ATATAAAAAATTATTTA
*
17721103 ATA-AAATATAATTGTTT-
1 ATATAAA-A-AATTATTTA
* *
17721120 ATAGAAAATATTATTTA
1 ATATAAAAAATTATTTA
*
17721137 ATAT--AAAATT-TGTA
1 ATATAAAAAATTATTTA
*
17721151 ATATAAAATATTATTT
1 ATATAAAAAATTATTT
17721167 TTTAAAAAAT
Statistics
Matches: 58, Mismatches: 7, Indels: 22
0.67 0.08 0.25
Matches are distributed among these distances:
12 3 0.05
13 4 0.07
14 9 0.16
15 11 0.19
16 12 0.21
17 16 0.28
18 3 0.05
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (17 bp):
ATATAAAAAATTATTTA
Found at i:17721110 original size:46 final size:49
Alignment explanation
Indices: 17721058--17721170 Score: 160
Period size: 46 Copynumber: 2.3 Consensus size: 49
17721048 AACCTGACAT
*
17721058 TAAAATATAATTTTTTATATAAAAAATTATTTAATATAAAA-TT-T-TA
1 TAAAATATAATTTTTTATAGAAAAAATTATTTAATATAAAATTTGTATA
* *
17721104 TAAAATATAATTGTTTATAGAAAATATTATTTAATATAAAATTTGTAATA
1 TAAAATATAATTTTTTATAGAAAAAATTATTTAATATAAAATTTGT-ATA
*
17721154 TAAAATATTATTTTTTA
1 TAAAATATAATTTTTTA
17721171 AAAAATATAT
Statistics
Matches: 58, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
46 38 0.66
47 2 0.03
48 1 0.02
50 17 0.29
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.48
Consensus pattern (49 bp):
TAAAATATAATTTTTTATAGAAAAAATTATTTAATATAAAATTTGTATA
Found at i:17721127 original size:29 final size:30
Alignment explanation
Indices: 17721070--17721142 Score: 71
Period size: 29 Copynumber: 2.5 Consensus size: 30
17721060 AAATATAATT
*
17721070 TTTTATATAAA-A-AATTATTTAATATAAAA
1 TTTTATA-AAATATAATTATTTAATAGAAAA
*
17721099 TTTTATAAAATATAATTGTTT-ATAGAAAA
1 TTTTATAAAATATAATTATTTAATAGAAAA
* **
17721128 TATTATTTAATATAA
1 TTTTATAAAATATAA
17721143 AATTTGTAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
28 3 0.08
29 27 0.73
30 7 0.19
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.47
Consensus pattern (30 bp):
TTTTATAAAATATAATTATTTAATAGAAAA
Found at i:17721216 original size:2 final size:2
Alignment explanation
Indices: 17721209--17721274 Score: 64
Period size: 2 Copynumber: 34.0 Consensus size: 2
17721199 ATATTTTAAA
* * * * *
17721209 AT AT AT AT AT AT AT AT AA AT AT -T AA AT -T AA AC AA AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
17721249 AT AT AT AT AT AT AT AT AC AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
17721275 CGAGTTCAAG
Statistics
Matches: 52, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
1 2 0.04
2 50 0.96
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (2 bp):
AT
Found at i:17721227 original size:34 final size:33
Alignment explanation
Indices: 17721151--17721264 Score: 97
Period size: 34 Copynumber: 3.4 Consensus size: 33
17721141 AAAATTTGTA
** * *
17721151 ATATA-AAATATTATTTTTTAAAAAATATATAAA
1 ATATATAAATATTAAATTTTAAAATATATAT-AT
*
17721184 ATTAAATAAAT-TTAAATATTTTAAAATATATATAT
1 A-TATATAAATATT-AA-ATTTTAAAATATATATAT
**
17721219 ATATATAAATATTAAATTAAACAAATATATATAT
1 ATATATAAATATTAAATTTTA-AAATATATATAT
*
17721253 ATATATATATAT
1 ATATATAAATAT
17721265 ACATATATAT
Statistics
Matches: 66, Mismatches: 9, Indels: 11
0.77 0.10 0.13
Matches are distributed among these distances:
33 5 0.08
34 38 0.58
35 9 0.14
36 14 0.21
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (33 bp):
ATATATAAATATTAAATTTTAAAATATATATAT
Found at i:17728665 original size:16 final size:17
Alignment explanation
Indices: 17728628--17728675 Score: 62
Period size: 16 Copynumber: 2.8 Consensus size: 17
17728618 ATATTTGCAT
*
17728628 AATTATTAAAATATTAAA
1 AATTATT-AATTATTAAA
*
17728646 AATTATTTATTATT-AA
1 AATTATTAATTATTAAA
17728662 AATTATTAATTATT
1 AATTATTAATTATT
17728676 TTAATAATAG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
16 15 0.56
17 5 0.19
18 7 0.26
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
AATTATTAATTATTAAA
Found at i:17728788 original size:17 final size:17
Alignment explanation
Indices: 17728768--17728819 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 17
17728758 TTCAAAATAT
17728768 TTAAAATAGTAATTTTA
1 TTAAAATAGTAATTTTA
**
17728785 TT--AATA-TAATAATA
1 TTAAAATAGTAATTTTA
17728799 TTAAAATAGTAATATTTA
1 TTAAAATAGTAAT-TTTA
17728817 TTA
1 TTA
17728820 TTAAAATATT
Statistics
Matches: 27, Mismatches: 4, Indels: 7
0.71 0.11 0.18
Matches are distributed among these distances:
14 8 0.30
15 4 0.15
16 4 0.15
17 6 0.22
18 5 0.19
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (17 bp):
TTAAAATAGTAATTTTA
Found at i:17728837 original size:31 final size:31
Alignment explanation
Indices: 17728761--17728834 Score: 109
Period size: 31 Copynumber: 2.4 Consensus size: 31
17728751 TTAATATTTC
17728761 AAAATATTTAAAATAGTAATTTTATTAATAT
1 AAAATATTTAAAATAGTAATTTTATTAATAT
17728792 AATAATA-TTAAAATAGTAATATTTATT-AT-T
1 AA-AATATTTAAAATAGTAAT-TTTATTAATAT
17728822 AAAATATTTAAAA
1 AAAATATTTAAAA
17728835 ATATTTATAC
Statistics
Matches: 40, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
29 4 0.10
30 9 0.22
31 17 0.43
32 10 0.25
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (31 bp):
AAAATATTTAAAATAGTAATTTTATTAATAT
Found at i:17729119 original size:43 final size:42
Alignment explanation
Indices: 17729019--17729120 Score: 102
Period size: 40 Copynumber: 2.4 Consensus size: 42
17729009 ATATTATGAA
*
17729019 AATATAATATTATTATATT-ATTTATTATTAATTATCAAAATAAT
1 AATATAATATT-TT-T-TTAATATATTATTAATTATCAAAATAAT
* * * *
17729063 AAAATGATA--TTTTTAATATATTATTATTTATTAAAATAAT
1 AATATAATATTTTTTTAATATATTATTAATTATCAAAATAAT
17729103 AATATAATATTGTTTTTA
1 AATATAATATT-TTTTTA
17729121 TTGAAATATT
Statistics
Matches: 47, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
39 2 0.04
40 30 0.64
41 2 0.04
43 6 0.13
44 7 0.15
ACGTcount: A:0.46, C:0.01, G:0.02, T:0.51
Consensus pattern (42 bp):
AATATAATATTTTTTTAATATATTATTAATTATCAAAATAAT
Found at i:17730058 original size:24 final size:24
Alignment explanation
Indices: 17730007--17730051 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
17729997 ACAACAATAA
17730007 TTAATACAAATTTTATCATTTATC
1 TTAATACAAATTTTATCATTTATC
* *
17730031 TTAATA-AATTTTTATCTTTTA
1 TTAATACAAATTTTATCATTTA
17730052 ATTTTAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.36, C:0.09, G:0.00, T:0.56
Consensus pattern (24 bp):
TTAATACAAATTTTATCATTTATC
Found at i:17730684 original size:72 final size:72
Alignment explanation
Indices: 17730608--17730742 Score: 207
Period size: 72 Copynumber: 1.9 Consensus size: 72
17730598 TCCTACGGTT
* * *
17730608 ATTCTTATATTTTATTACATTTAAAATTGTTGTAGCCATTTCTTATTATGTTACAACACTTTTCT
1 ATTCTTATATTCTATTACATTTAAAATTGTTATAGCCATTTCTTAGTATGTTACAACACTTTTCT
17730673 TATTATC
66 TATTATC
* * * *
17730680 ATTCTTATCTTCTATTTCATTTAAAGTTGTTATAGCCATTTTTTAGTATGTTACAACACTTTT
1 ATTCTTATATTCTATTACATTTAAAATTGTTATAGCCATTTCTTAGTATGTTACAACACTTTT
17730743 AATCCATTTT
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
72 56 1.00
ACGTcount: A:0.27, C:0.14, G:0.07, T:0.53
Consensus pattern (72 bp):
ATTCTTATATTCTATTACATTTAAAATTGTTATAGCCATTTCTTAGTATGTTACAACACTTTTCT
TATTATC
Found at i:17731741 original size:25 final size:25
Alignment explanation
Indices: 17731713--17731766 Score: 60
Period size: 24 Copynumber: 2.2 Consensus size: 25
17731703 TTCTAATTTG
17731713 TTTATGTTA-CTAATTTT-TTATATTA
1 TTTAT-TTATCTAATTTTCTTATA-TA
*
17731738 TTTA-TTATCTATTTTTCTTATATA
1 TTTATTTATCTAATTTTCTTATATA
17731762 TTTAT
1 TTTAT
17731767 AAAAATAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
23 3 0.12
24 13 0.52
25 9 0.36
ACGTcount: A:0.26, C:0.06, G:0.02, T:0.67
Consensus pattern (25 bp):
TTTATTTATCTAATTTTCTTATATA
Found at i:17732898 original size:21 final size:23
Alignment explanation
Indices: 17732873--17732920 Score: 73
Period size: 21 Copynumber: 2.2 Consensus size: 23
17732863 ATTCAAACTT
17732873 AAATCAAACCAAA-TAAAATA-A
1 AAATCAAACCAAACTAAAATATA
*
17732894 AAATCAATCCAAACTAAAATATA
1 AAATCAAACCAAACTAAAATATA
17732917 AAAT
1 AAAT
17732921 ATTCAAACTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 12 0.50
22 7 0.29
23 5 0.21
ACGTcount: A:0.67, C:0.15, G:0.00, T:0.19
Consensus pattern (23 bp):
AAATCAAACCAAACTAAAATATA
Found at i:17732929 original size:21 final size:22
Alignment explanation
Indices: 17732881--17732938 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 22
17732871 TTAAATCAAA
17732881 CCAAA-TAAAATA-AAAATCAAT
1 CCAAACTAAAATATAAAAT-AAT
17732902 CCAAACTAAAATATAAAAT-AT
1 CCAAACTAAAATATAAAATAAT
* *
17732923 TCAAACTTAAAT-TAAA
1 CCAAACTAAAATATAAA
17732939 TTAAATAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
20 4 0.12
21 17 0.52
22 7 0.21
23 5 0.15
ACGTcount: A:0.62, C:0.14, G:0.00, T:0.24
Consensus pattern (22 bp):
CCAAACTAAAATATAAAATAAT
Found at i:17736068 original size:16 final size:16
Alignment explanation
Indices: 17736038--17736068 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
17736028 AATAATCTAA
*
17736038 AAAGTGATAATAAAAG
1 AAAGTGATAAAAAAAG
17736054 AAAGTGATAAAAAAA
1 AAAGTGATAAAAAAA
17736069 ATTTTCCTAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.68, C:0.00, G:0.16, T:0.16
Consensus pattern (16 bp):
AAAGTGATAAAAAAAG
Found at i:17737269 original size:3 final size:3
Alignment explanation
Indices: 17737263--17737324 Score: 124
Period size: 3 Copynumber: 20.7 Consensus size: 3
17737253 CTTCAAAATC
17737263 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
17737311 ATT ATT ATT ATT AT
1 ATT ATT ATT ATT AT
17737325 AAAAAACATA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:17738835 original size:145 final size:143
Alignment explanation
Indices: 17738660--17739055 Score: 456
Period size: 145 Copynumber: 2.7 Consensus size: 143
17738650 TTTAAAACAA
* * *
17738660 AAAAATCATGAAATATTATGAAATTAAGATCTGAAAAGTTTCGTGAAAAT-TAGATCTCAGAAAG
1 AAAAATCATGAAATATTATGAAATTGAGATCTGAAAAGTTTCATGAAAATCTAGAACTCAGAAA-
* * * * * *
17738724 GTGAAATTACGAAAATACCCCAATAAGGTTATTTTGGTAATTTCACACTTTTTTGGGAACTACTG
65 GTCAAATTACGAAAATACCTCTATAAGGGTATTTTGGTAATTTCACAC-TTATCGGG-ACTACTG
17738789 TGATTTCAAATGCACC
128 TGATTTCAAATGCACC
* * ** * **
17738805 AAAAATCATGAAATATTATGAAATTGAGATCTAAAAAGTTTTACAAAAATCCA-AACTTGGAAAG
1 AAAAATCATGAAATATTATGAAATTGAGATCTGAAAAGTTTCATGAAAATCTAGAACTCAGAAAG
* * * *
17738869 TCAAATTACAAAAATACCATTTATAAGGGTATTTTGGTAATTTTACACTTATCGGGACTATTGTG
66 TCAAATTACGAAAATACC-TCTATAAGGGTATTTTGGTAATTTCACACTTATCGGGACTACTGTG
* *
17738934 ATTTTAAATGCATC
130 ATTTCAAATGCACC
* * * *
17738948 AAAAATCATGAAATATTATAAAATTGAGATTTGAAAAGATTCATGAAAATCT-GAGCTCAGAAAA
1 AAAAATCATGAAATATTATGAAATTGAGATCTGAAAAGTTTCATGAAAATCTAGAACTCAG-AAA
* * *
17739012 GTCCAATTATGAAAATACTCTCTATAAGGGTATTTTGATAATTT
65 GTCAAATTACGAAAATAC-CTCTATAAGGGTATTTTGGTAATTT
17739056 TGCCCTTTCT
Statistics
Matches: 208, Mismatches: 38, Indels: 11
0.81 0.15 0.04
Matches are distributed among these distances:
143 68 0.33
144 63 0.30
145 76 0.37
146 1 0.00
ACGTcount: A:0.42, C:0.11, G:0.14, T:0.33
Consensus pattern (143 bp):
AAAAATCATGAAATATTATGAAATTGAGATCTGAAAAGTTTCATGAAAATCTAGAACTCAGAAAG
TCAAATTACGAAAATACCTCTATAAGGGTATTTTGGTAATTTCACACTTATCGGGACTACTGTGA
TTTCAAATGCACC
Found at i:17740083 original size:129 final size:127
Alignment explanation
Indices: 17739870--17740228 Score: 400
Period size: 129 Copynumber: 2.8 Consensus size: 127
17739860 CCTGAAGGTC
* * * *
17739870 TTAAAGATTTTAAAATCTTTGAATGT-TCCTCATATATTAGAGGCGTTGAAACGTTAAAAATTTA
1 TTAAAGA-TTTAAAATCTTTGAAT-TCTCCTCATA-AATAAAGACGTTGAAACTTTAAAAATTTA
* * * *
17739934 AAATTATTTTGCCTAAAGGTCTTAGAAATTATGCCCAGAA-GTCTTAGAAATTATGCCCGGATAT
63 AAATTATTTTACCTAGAGGTCTTAAAAATTATGCCC-GAAGGTCTTAGAAATTATGCCCGGAGAT
17739998 A
127 A
* *
17739999 TTAAAGATTTCAAAATCTTTGAATTCTCCTCATACAATAAAGATGTTGAAACTTTGAAAATTTAA
1 TTAAAGATTT-AAAATCTTTGAATTCTCCTCATA-AATAAAGACGTTGAAACTTTAAAAATTTAA
* * * * * * *
17740064 AATTGTTTTACCTTGAGGTCTTAAAAATTATGCTCGAAGGTCTTAGAGATTATGTCCGGAGGTC
64 AATTATTTTACCTAGAGGTCTTAAAAATTATGCCCGAAGGTCTTAGAAATTATGCCCGGAGATA
* * * * *
17740128 TTAAAAATCTTAAAATCTTTGAATGCTCATCATATAT-TAGACGCATTGAAACTTTAAAAATTTA
1 TTAAAGAT-TTAAAATCTTTGAATTCTCCTCATAAATAAAGACG--TTGAAACTTTAAAAATTTA
* *
17740192 AAATTATTTTACCTAGAGGTCTCAAAAATTGTGCCCG
63 AAATTATTTTACCTAGAGGTCTTAAAAATTATGCCCG
17740229 GAGATCTCAA
Statistics
Matches: 194, Mismatches: 30, Indels: 12
0.82 0.13 0.05
Matches are distributed among these distances:
127 4 0.02
128 9 0.05
129 179 0.92
130 2 0.01
ACGTcount: A:0.36, C:0.13, G:0.14, T:0.36
Consensus pattern (127 bp):
TTAAAGATTTAAAATCTTTGAATTCTCCTCATAAATAAAGACGTTGAAACTTTAAAAATTTAAAA
TTATTTTACCTAGAGGTCTTAAAAATTATGCCCGAAGGTCTTAGAAATTATGCCCGGAGATA
Found at i:17740106 original size:22 final size:22
Alignment explanation
Indices: 17740079--17740135 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
17740069 TTTTACCTTG
17740079 AGGTCTTAAAAATTATG-CTCGA
1 AGGTCTTAAAAATTATGTC-CGA
* * *
17740101 AGGTCTTAGAGATTATGTCCGG
1 AGGTCTTAAAAATTATGTCCGA
17740123 AGGTCTTAAAAAT
1 AGGTCTTAAAAAT
17740136 CTTAAAATCT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
22 28 0.97
23 1 0.03
ACGTcount: A:0.33, C:0.12, G:0.23, T:0.32
Consensus pattern (22 bp):
AGGTCTTAAAAATTATGTCCGA
Found at i:17740247 original size:98 final size:98
Alignment explanation
Indices: 17740134--17740435 Score: 356
Period size: 98 Copynumber: 3.0 Consensus size: 98
17740124 GGTCTTAAAA
* * * *
17740134 ATCTTAAAATCTTTGAATGCTCATCATATATTAGACGCATTGAAACTTTAAAAATTTAAAATTAT
1 ATCTCAAAATCTTTGAATGCTCATCATATATTAAAGGCATTGAAACTTTAAAAATTTAAAATTGT
* *
17740199 TTTACCTAGAGGTCTCAAAAATTGTGCCCGGAG
66 TTTACCTAGAGGTCTTAAAAATTGTGCCAGGAG
* * *
17740232 ATCTCAAAATCTTTGAATGCTCCTTATATATTAAAGGTATTGAAACTTTAAAAATTTAAAATTGT
1 ATCTCAAAATCTTTGAATGCTCATCATATATTAAAGGCATTGAAACTTTAAAAATTTAAAATTGT
* * * *
17740297 TTTGCCTTGAGGTCTTAAAAATTATGCTTGGAGGTCTTAAAG
66 TTTACCTAGAGGTCTTAAAAATTGTGC---CAGG------AG
*
17740339 ATCTCAAAATCTTTGAATGCTCATCATAAATTAAAGGCATTGAAACTTTAAAAATTTAAAA-TGT
1 ATCTCAAAATCTTTGAATGCTCATCATATATTAAAGGCATTGAAACTTTAAAAATTTAAAATTGT
* *
17740403 TTTA-CTCGGAGGTCTTAAAAATTGTGCCTGGAG
66 TTTACCT-AGAGGTCTTAAAAATTGTGCCAGGAG
17740436 GCCTTAGAGT
Statistics
Matches: 172, Mismatches: 22, Indels: 21
0.80 0.10 0.10
Matches are distributed among these distances:
97 2 0.01
98 81 0.47
101 2 0.01
103 2 0.01
105 2 0.01
106 24 0.14
107 59 0.34
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.36
Consensus pattern (98 bp):
ATCTCAAAATCTTTGAATGCTCATCATATATTAAAGGCATTGAAACTTTAAAAATTTAAAATTGT
TTTACCTAGAGGTCTTAAAAATTGTGCCAGGAG
Found at i:17740854 original size:12 final size:12
Alignment explanation
Indices: 17740839--17740872 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
17740829 AAATAATGCT
*
17740839 AATGGAAATGTC
1 AATGCAAATGTC
17740851 AATGCAAATGTC
1 AATGCAAATGTC
*
17740863 AATGCTAATG
1 AATGCAAATG
17740873 CAAGAATGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.41, C:0.12, G:0.21, T:0.26
Consensus pattern (12 bp):
AATGCAAATGTC
Found at i:17741122 original size:41 final size:41
Alignment explanation
Indices: 17741044--17741128 Score: 109
Period size: 41 Copynumber: 2.1 Consensus size: 41
17741034 ACAAGTGCAC
* * * *
17741044 ATGCAAGTGATGCAAATGCGAATGTCTTTCTTGTGATGAAG
1 ATGCAAGCGATGCAAATCCAAATGTCTTTCTTATGATGAAG
*
17741085 ATGCAAGCGATGCAAATCCAAATGTCTTT-TATATGATGTAG
1 ATGCAAGCGATGCAAATCCAAATGTCTTTCT-TATGATGAAG
17741126 ATG
1 ATG
17741129 TGAATGAAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
40 1 0.03
41 37 0.97
ACGTcount: A:0.32, C:0.13, G:0.24, T:0.32
Consensus pattern (41 bp):
ATGCAAGCGATGCAAATCCAAATGTCTTTCTTATGATGAAG
Found at i:17741272 original size:40 final size:36
Alignment explanation
Indices: 17741175--17741318 Score: 128
Period size: 38 Copynumber: 3.8 Consensus size: 36
17741165 GCAAATGTAA
* * *
17741175 GTGATGCAAATGCGAATATAT-ATATTTTTTATACAAAT
1 GTGATGCAAATGC-AA-ATGTCAT-TTTTTTATATAGAT
* * *
17741213 GAGGATGCAAATGCGAATGTCTTTTTTTTATGATGTAGAT
1 G-TGATGCAAATGCAAATGTCATTTTTTTAT-A--TAGAT
17741253 GTAGATGCAAATGCAAATGTCCATTTTTTTATATAGAT
1 GT-GATGCAAATGCAAATGT-CATTTTTTTATATAGAT
*
17741291 GTGAATGCAAATGCAAATGTCCTTTTTT
1 GTG-ATGCAAATGCAAATGTCATTTTTT
17741319 GTGATACAGA
Statistics
Matches: 88, Mismatches: 10, Indels: 17
0.77 0.09 0.15
Matches are distributed among these distances:
37 19 0.22
38 27 0.31
39 11 0.12
40 21 0.24
41 10 0.11
ACGTcount: A:0.33, C:0.10, G:0.18, T:0.40
Consensus pattern (36 bp):
GTGATGCAAATGCAAATGTCATTTTTTTATATAGAT
Found at i:17741299 original size:38 final size:37
Alignment explanation
Indices: 17741199--17741318 Score: 134
Period size: 38 Copynumber: 3.1 Consensus size: 37
17741189 AATATATATA
* * * * * *
17741199 TTTTTTATACAAATGAGGATGCAAATGCGAATGTCTT
1 TTTTTTATATAGATGTGAATGCAAATGCAAATGTCCT
17741236 TTTTTTATGATGTAGATGT-AGATGCAAATGCAAATGTCCAT
1 TTTTTTAT-A--TAGATGTGA-ATGCAAATGCAAATGTCC-T
17741277 TTTTTTATATAGATGTGAATGCAAATGCAAATGTCCT
1 TTTTTTATATAGATGTGAATGCAAATGCAAATGTCCT
17741314 TTTTT
1 TTTTT
17741319 GTGATACAGA
Statistics
Matches: 71, Mismatches: 6, Indels: 12
0.80 0.07 0.13
Matches are distributed among these distances:
37 14 0.20
38 26 0.37
39 1 0.01
40 21 0.30
41 9 0.13
ACGTcount: A:0.31, C:0.10, G:0.17, T:0.42
Consensus pattern (37 bp):
TTTTTTATATAGATGTGAATGCAAATGCAAATGTCCT
Found at i:17741411 original size:52 final size:54
Alignment explanation
Indices: 17741333--17741433 Score: 134
Period size: 52 Copynumber: 1.9 Consensus size: 54
17741323 TACAGATGCA
* * *
17741333 AGTGATACAAAAATGAATGTCCTTTTTT-T-ATGTAGACGTGAATGCAAATGTG
1 AGTGATACAAAAACGAATATCCTTTTTTGTGATGCAGACGTGAATGCAAATGTG
* * *
17741385 AGTGATGCAAATACGAATATCCTTTTTTGTGATGCAGATGTGAATGCAA
1 AGTGATACAAAAACGAATATCCTTTTTTGTGATGCAGACGTGAATGCAA
17741434 GTACAAATGC
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
52 24 0.59
53 1 0.02
54 16 0.39
ACGTcount: A:0.34, C:0.11, G:0.22, T:0.34
Consensus pattern (54 bp):
AGTGATACAAAAACGAATATCCTTTTTTGTGATGCAGACGTGAATGCAAATGTG
Found at i:17741860 original size:34 final size:34
Alignment explanation
Indices: 17741817--17742171 Score: 237
Period size: 34 Copynumber: 10.6 Consensus size: 34
17741807 TTTCTTTGGT
* *
17741817 GCCAAATAAATTAGGCTTAAAATTTTCATCAAGG
1 GCCAGATAAACTAGGCTTAAAATTTTCATCAAGG
* * *
17741851 GCCAGATAAACTGGGCTT-AAATTTTCATTAGGG
1 GCCAGATAAACTAGGCTTAAAATTTTCATCAAGG
**
17741884 GCCAGATAAACTAGGCTTAAAATCTTT-AT-TGGG
1 GCCAGATAAACTAGGCTTAAAAT-TTTCATCAAGG
* * * * * *
17741917 AGCTAGCTAAATTAGGCTTAAAATTTTTATTATGG
1 -GCCAGATAAACTAGGCTTAAAATTTTCATCAAGG
* * * *
17741952 GCCAAATAAATTGGGCTT-AAATTTTCA-C-TGG
1 GCCAGATAAACTAGGCTTAAAATTTTCATCAAGG
* * * * * *
17741983 TGCTAGCTAAGCTGGGCTTTAAAATTTTTAT-TAGG
1 -GCCAGATAAACTAGGC-TTAAAATTTTCATCAAGG
* * * *
17742018 AGCTAGATAAATTAGGCTTAAATTTTTC-TCAAAG
1 -GCCAGATAAACTAGGCTTAAAATTTTCATCAAGG
*
17742052 GCCAGATAAACTAGGCTTAAAATTTTCATCAAGT
1 GCCAGATAAACTAGGCTTAAAATTTTCATCAAGG
* * * *
17742086 GTCAGGTAAA-TTGAGCTTAAAATTTTCATCATGG
1 GCCAGATAAACTAG-GCTTAAAATTTTCATCAAGG
* * *
17742120 GTCAGATAAACT-GGGTCT-AAATTTTCATCAAGT
1 GCCAGATAAACTAGGCT-TAAAATTTTCATCAAGG
* *
17742153 GTCAAATAAACTAGGCTTA
1 GCCAGATAAACTAGGCTTA
17742172 TGTGCTAGCT
Statistics
Matches: 254, Mismatches: 50, Indels: 34
0.75 0.15 0.10
Matches are distributed among these distances:
31 3 0.01
32 11 0.04
33 100 0.39
34 120 0.47
35 20 0.08
ACGTcount: A:0.34, C:0.14, G:0.19, T:0.33
Consensus pattern (34 bp):
GCCAGATAAACTAGGCTTAAAATTTTCATCAAGG
Found at i:17741902 original size:67 final size:68
Alignment explanation
Indices: 17741817--17742171 Score: 273
Period size: 67 Copynumber: 5.3 Consensus size: 68
17741807 TTTCTTTGGT
17741817 GCCAAATAAATTAGGCTTAAAATTTTCATCAAGGGCCAGATAAACTGGGCTT-AAATTTTCATTA
1 GCCAAATAAATTAGGCTTAAAATTTTCATCAAGGGCCAGATAAACTGGGCTTAAAATTTTCATTA
*
17741881 GGG
66 AGG
* * ** * * * * *
17741884 GCCAGATAAACTAGGCTTAAAATCTTT-AT-TGGGAGCTAGCTAAATTAGGCTTAAAATTTTTAT
1 GCCAAATAAATTAGGCTTAAAAT-TTTCATCAAGG-GCCAGATAAACTGGGCTTAAAATTTTCAT
*
17741947 TATGG
64 TAAGG
* * * * * *
17741952 GCCAAATAAATTGGGCTT-AAATTTTCA-C-TGGTGCTAGCTAAGCTGGGCTTTAAAATTTTTAT
1 GCCAAATAAATTAGGCTTAAAATTTTCATCAAGG-GCCAGATAAACTGGGC-TTAAAATTTTCAT
17742014 T-AGG
64 TAAGG
* * * * * *
17742018 AGCTAGATAAATTAGGCTTAAATTTTTC-TCAAAGGCCAGATAAACTAGGCTTAAAATTTTCATC
1 -GCCAAATAAATTAGGCTTAAAATTTTCATCAAGGGCCAGATAAACTGGGCTTAAAATTTTCATT
*
17742082 AAGT
65 AAGG
* ** * *
17742086 GTCAGGTAAATT-GAGCTTAAAATTTTCATCATGGGTCAGATAAACTGGG-TCT-AAATTTTCAT
1 GCCAAATAAATTAG-GCTTAAAATTTTCATCAAGGGCCAGATAAACTGGGCT-TAAAATTTTCAT
* *
17742148 CAAGT
64 TAAGG
* *
17742153 GTCAAATAAACTAGGCTTA
1 GCCAAATAAATTAGGCTTA
17742172 TGTGCTAGCT
Statistics
Matches: 230, Mismatches: 43, Indels: 30
0.76 0.14 0.10
Matches are distributed among these distances:
66 23 0.10
67 134 0.58
68 72 0.31
69 1 0.00
ACGTcount: A:0.34, C:0.14, G:0.19, T:0.33
Consensus pattern (68 bp):
GCCAAATAAATTAGGCTTAAAATTTTCATCAAGGGCCAGATAAACTGGGCTTAAAATTTTCATTA
AGG
Found at i:17741910 original size:101 final size:100
Alignment explanation
Indices: 17741789--17742080 Score: 334
Period size: 101 Copynumber: 2.9 Consensus size: 100
17741779 GGGTGTCGGG
* * * * * * *
17741789 TAAACTAGGTTTAAATTCTTTCTTTGGTGCCAAATAAATTAGGCTTAAAATTTTCATCAAGGGCC
1 TAAACTAGGCTTAAAATCTTTATTAGGAGCTAGATAAATTAGGCTTAAAATTTTCATCAAGGGCC
17741854 AGATAAACTGGGCTTAAATTTTCATTAGGGGCCAGA
66 AGATAAACTGGGCTTAAATTTTCATT-GGGGCCAGA
* * * * *
17741890 TAAACTAGGCTTAAAATCTTTATTGGGAGCTAGCTAAATTAGGCTTAAAATTTTTATTATGGGCC
1 TAAACTAGGCTTAAAATCTTTATTAGGAGCTAGATAAATTAGGCTTAAAATTTTCATCAAGGGCC
* * * * * *
17741955 AAATAAATTGGGCTTAAATTTTCACTGGTGCTAGC
66 AGATAAACTGGGCTTAAATTTTCATTGGGGCCAGA
* * * * *
17741990 TAAGCTGGGCTTTAAAATTTTTATTAGGAGCTAGATAAATTAGGCTTAAATTTTTC-TCAAAGGC
1 TAAACTAGGC-TTAAAATCTTTATTAGGAGCTAGATAAATTAGGCTTAAAATTTTCATCAAGGGC
*
17742054 CAGATAAACTAGGCTTAAAATTTTCAT
65 CAGATAAACTGGGCTT-AAATTTTCAT
17742081 CAAGTGTCAG
Statistics
Matches: 158, Mismatches: 31, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
100 32 0.20
101 126 0.80
ACGTcount: A:0.33, C:0.13, G:0.18, T:0.35
Consensus pattern (100 bp):
TAAACTAGGCTTAAAATCTTTATTAGGAGCTAGATAAATTAGGCTTAAAATTTTCATCAAGGGCC
AGATAAACTGGGCTTAAATTTTCATTGGGGCCAGA
Found at i:17742106 original size:101 final size:99
Alignment explanation
Indices: 17741822--17742111 Score: 314
Period size: 101 Copynumber: 2.9 Consensus size: 99
17741812 TTGGTGCCAA
* * *
17741822 ATAAATTAGGCTTAAAATTTTCATCAAGGGCCAGATAAACTGGGCTTAAATTTTCATTAGGGGCC
1 ATAAATTAGGCTTAAATTTTTC-TCAAGGGCCAGATAAACTGGGCTTAAATTTTCATCAGGTG-C
* *
17741887 AGATAAACT-AGGCTTAAAATCTTTATTGGGAGCTAG
64 AGATAAACTGA-GCTTAAAATTTTTATTAGGAGCTAG
* * * * * * *
17741923 CTAAATTAGGCTTAAAATTTTTATTATGGGCCAAATAAATTGGGCTTAAATTTTCA-CTGGTGCT
1 ATAAATTAGGCTT-AAATTTTTCTCAAGGGCCAGATAAACTGGGCTTAAATTTTCATCAGGTGC-
* * *
17741987 AGCTAAGCTGGGCTTTAAAATTTTTATTAGGAGCTAG
64 AGATAAACTGAGC-TTAAAATTTTTATTAGGAGCTAG
* * *
17742024 ATAAATTAGGCTTAAATTTTTCTCAAAGGCCAGATAAACTAGGCTTAAAATTTTCATCAAGTGTC
1 ATAAATTAGGCTTAAATTTTTCTCAAGGGCCAGATAAACTGGGCTT-AAATTTTCATCAGGTG-C
* *
17742089 AGGTAAATTGAGCTTAAAATTTT
64 AGATAAACTGAGCTTAAAATTTT
17742112 CATCATGGGT
Statistics
Matches: 153, Mismatches: 29, Indels: 14
0.78 0.15 0.07
Matches are distributed among these distances:
99 1 0.01
100 38 0.25
101 93 0.61
102 20 0.13
103 1 0.01
ACGTcount: A:0.34, C:0.13, G:0.19, T:0.34
Consensus pattern (99 bp):
ATAAATTAGGCTTAAATTTTTCTCAAGGGCCAGATAAACTGGGCTTAAATTTTCATCAGGTGCAG
ATAAACTGAGCTTAAAATTTTTATTAGGAGCTAG
Found at i:17742127 original size:101 final size:98
Alignment explanation
Indices: 17741822--17742171 Score: 261
Period size: 101 Copynumber: 3.5 Consensus size: 98
17741812 TTGGTGCCAA
* * * * * *
17741822 ATAAATTAGGCTTAAAATTTTCATCAAGGGCCAGATAAACTGGGCTTAAATTTTCATTAGGGGCC
1 ATAAATTAGGCTTAAATTTTTCATCAAAGGCCAAATAAACTAGGCTTAAATTTTCATCAGGTG-C
17741887 AGATAAACT-AGGCTTAAAATCTTTAT-TGGGAGCTAG
65 AGATAAACTGA-GCTTAAAAT-TTTATAT-GG-GCTAG
* * ** * * *
17741923 CTAAATTAGGCTTAAAATTTTT-ATTATGGGCCAAATAAATTGGGCTTAAATTTTCA-CTGGTGC
1 ATAAATTAGGCTT-AAATTTTTCATCAAAGGCCAAATAAACTAGGCTTAAATTTTCATCAGGTGC
* * *
17741986 TAGCTAAGCTGGGCTTTAAAATTTT-TATTAGGAGCTAG
65 -AGATAAACTGAGC-TTAAAATTTTATA-T-GG-GCTAG
* *
17742024 ATAAATTAGGCTTAAATTTTTC-TCAAAGGCCAGATAAACTAGGCTTAAAATTTTCATCAAGTGT
1 ATAAATTAGGCTTAAATTTTTCATCAAAGGCCAAATAAACTAGGCTT-AAATTTTCATCAGGTG-
* *
17742088 CAGGTAAATTGAGCTTAAAATTTTCATCATGGG-TCAG
64 CAGATAAACTGAGCTTAAAATTTT-AT-ATGGGCT-AG
* * *
17742125 ATAAACT-GGGTCTAAA-TTTTCATC-AAGTGTCAAATAAACTAGGCTTA
1 ATAAATTAGGCT-TAAATTTTTCATCAAAG-GCCAAATAAACTAGGCTTA
17742172 TGTGCTAGCT
Statistics
Matches: 202, Mismatches: 30, Indels: 35
0.76 0.11 0.13
Matches are distributed among these distances:
99 2 0.01
100 54 0.27
101 120 0.59
102 22 0.11
103 3 0.01
104 1 0.00
ACGTcount: A:0.34, C:0.13, G:0.19, T:0.34
Consensus pattern (98 bp):
ATAAATTAGGCTTAAATTTTTCATCAAAGGCCAAATAAACTAGGCTTAAATTTTCATCAGGTGCA
GATAAACTGAGCTTAAAATTTTATATGGGCTAG
Found at i:17742744 original size:9 final size:8
Alignment explanation
Indices: 17742719--17742747 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
17742709 CCTACTTTTA
17742719 TTTTTA-T
1 TTTTTATT
17742726 TTTTTATT
1 TTTTTATT
17742734 TTTTTATT
1 TTTTTATT
17742742 TTTTTA
1 TTTTTA
17742748 ACACAACATC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
7 6 0.29
8 15 0.71
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (8 bp):
TTTTTATT
Found at i:17747284 original size:16 final size:16
Alignment explanation
Indices: 17747263--17747293 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
17747253 ATAGATATAA
*
17747263 TGGAAATAAACTTTAT
1 TGGAAACAAACTTTAT
17747279 TGGAAACAAACTTTA
1 TGGAAACAAACTTTA
17747294 AGCTTTATAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.10, G:0.13, T:0.32
Consensus pattern (16 bp):
TGGAAACAAACTTTAT
Found at i:17748118 original size:32 final size:32
Alignment explanation
Indices: 17748077--17748174 Score: 178
Period size: 32 Copynumber: 3.1 Consensus size: 32
17748067 TTCAGGAAGA
**
17748077 CTACCTTCCCTCTTATTTTCTTTAAGAGTTTT
1 CTACCTTCCCTCCCATTTTCTTTAAGAGTTTT
17748109 CTACCTTCCCTCCCATTTTCTTTAAGAGTTTT
1 CTACCTTCCCTCCCATTTTCTTTAAGAGTTTT
17748141 CTACCTTCCCTCCCATTTTCTTTAAGAGTTTT
1 CTACCTTCCCTCCCATTTTCTTTAAGAGTTTT
17748173 CT
1 CT
17748175 TTTCTTTTGC
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 64 1.00
ACGTcount: A:0.15, C:0.30, G:0.06, T:0.49
Consensus pattern (32 bp):
CTACCTTCCCTCCCATTTTCTTTAAGAGTTTT
Found at i:17749000 original size:145 final size:145
Alignment explanation
Indices: 17748721--17749098 Score: 508
Period size: 145 Copynumber: 2.6 Consensus size: 145
17748711 GGATTCTAAA
* * * * *
17748721 ACACCAAAAATCATGAAATATTATGAAATTAAGATATAAAAAGTTTCGTGAAAATCTGAACTCGT
1 ACACCAAAAATCATGAAATATTATGAAATTGAGATATGAAAAGTTTCATGAAAATCTGAGCTCGA
* * * * *
17748786 GAAGGTCAAATTACGAAAATACCCTTATAAGGTTATTTTTGTAATTTTACACTTTTAGGAGAACT
66 AAAGGTCAAATTATGAAAATACCCTTATAAGGTTATTTTGGTAATTTCACACTTTTAGGAGAACG
17748851 GCTGTGATTTCAAAT
131 GCTGTGATTTCAAAT
* *
17748866 ATACCAAAAATCATGAAATATTATGAAACTGAGATATGAAAAGTTTCATGAAAATCTGAGCTCGA
1 ACACCAAAAATCATGAAATATTATGAAATTGAGATATGAAAAGTTTCATGAAAATCTGAGCTCGA
* * * *
17748931 AAAGGTTAAACTATGAAAATACCCTTATAA-GTGTATTTTGGTAATTTCACATTTTTTAGG-GGA
66 AAAGGTCAAATTATGAAAATACCCTTATAAGGT-TATTTTGGTAATTTCACA-CTTTTAGGAGAA
17748994 CGGCTGTGATTTCAAAT
129 CGGCTGTGATTTCAAAT
* * * * * * * *
17749011 GCATCAAAAATTATGAAATATTATAAAATTGAGATTTGAAAAGTTTCATAAAAATTTGAGCTTGA
1 ACACCAAAAATCATGAAATATTATGAAATTGAGATATGAAAAGTTTCATGAAAATCTGAGCTCGA
17749076 AAAGGTCAAATTATGAAAATACC
66 AAAGGTCAAATTATGAAAATACC
17749099 TCCATAAAGG
Statistics
Matches: 203, Mismatches: 28, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
144 2 0.01
145 194 0.96
146 7 0.03
ACGTcount: A:0.41, C:0.11, G:0.15, T:0.32
Consensus pattern (145 bp):
ACACCAAAAATCATGAAATATTATGAAATTGAGATATGAAAAGTTTCATGAAAATCTGAGCTCGA
AAAGGTCAAATTATGAAAATACCCTTATAAGGTTATTTTGGTAATTTCACACTTTTAGGAGAACG
GCTGTGATTTCAAAT
Found at i:17749858 original size:16 final size:15
Alignment explanation
Indices: 17749839--17749880 Score: 59
Period size: 16 Copynumber: 2.8 Consensus size: 15
17749829 ATAGACCTTC
*
17749839 AAAACCCTAAAATTTT
1 AAAACCCTAAAA-TCT
17749855 AAAACCCTAAAATCT
1 AAAACCCTAAAATCT
17749870 AAAA-CCTAAAA
1 AAAACCCTAAAA
17749881 CTCCAAAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 7 0.28
15 6 0.24
16 12 0.48
ACGTcount: A:0.57, C:0.21, G:0.00, T:0.21
Consensus pattern (15 bp):
AAAACCCTAAAATCT
Found at i:17749881 original size:22 final size:21
Alignment explanation
Indices: 17749854--17749909 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 21
17749844 CCTAAAATTT
17749854 TAAAACCCTAAAATCTAAAACC
1 TAAAACCCTAAAATCTAAAA-C
*
17749876 TAAAACTCC-AAAATTTAAAAC
1 TAAAAC-CCTAAAATCTAAAAC
17749897 TCAAAA-CCTAAAA
1 T-AAAACCCTAAAA
17749910 CCCCAAATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
20 2 0.07
21 6 0.20
22 20 0.67
23 2 0.07
ACGTcount: A:0.57, C:0.23, G:0.00, T:0.20
Consensus pattern (21 bp):
TAAAACCCTAAAATCTAAAAC
Found at i:17749888 original size:15 final size:15
Alignment explanation
Indices: 17749855--17749916 Score: 65
Period size: 15 Copynumber: 4.2 Consensus size: 15
17749845 CTAAAATTTT
*
17749855 AAAACCCTAAAA-TCT
1 AAAA-CCTAAAACTCC
17749870 AAAACCTAAAACTCC
1 AAAACCTAAAACTCC
**
17749885 AAAATTTAAAACT-C
1 AAAACCTAAAACTCC
*
17749899 AAAACCTAAAACCCC
1 AAAACCTAAAACTCC
17749914 AAA
1 AAA
17749917 TTTGTTACAC
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
14 18 0.46
15 21 0.54
ACGTcount: A:0.56, C:0.27, G:0.00, T:0.16
Consensus pattern (15 bp):
AAAACCTAAAACTCC
Found at i:17749910 original size:14 final size:14
Alignment explanation
Indices: 17749855--17749910 Score: 60
Period size: 14 Copynumber: 3.9 Consensus size: 14
17749845 CTAAAATTTT
17749855 AAAACCCTAAAA-TC
1 AAAA-CCTAAAACTC
17749869 TAAAACCTAAAACTCC
1 -AAAACCTAAAACT-C
**
17749885 AAAATTTAAAACTC
1 AAAACCTAAAACTC
17749899 AAAACCTAAAAC
1 AAAACCTAAAAC
17749911 CCCAAATTTG
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
14 18 0.51
15 16 0.46
16 1 0.03
ACGTcount: A:0.57, C:0.25, G:0.00, T:0.18
Consensus pattern (14 bp):
AAAACCTAAAACTC
Found at i:17751586 original size:4 final size:4
Alignment explanation
Indices: 17751577--17751618 Score: 57
Period size: 4 Copynumber: 10.5 Consensus size: 4
17751567 TATAATATAC
* * *
17751577 TTAT TTAT TTGT TTAT TTAT TTAC TTAT TTAT TTAT TCAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TT
17751619 TATTAACATT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.21, C:0.05, G:0.02, T:0.71
Consensus pattern (4 bp):
TTAT
Found at i:17756629 original size:127 final size:127
Alignment explanation
Indices: 17756403--17756655 Score: 398
Period size: 127 Copynumber: 2.0 Consensus size: 127
17756393 AGTCAAGGTT
* *
17756403 TTCAGCCAGTGGTAAGTCCAAAAATACAAATTAACAAACCAATATTAAAGAAAAAAACCTGTGAG
1 TTCAGCCAGTGGTAAGTCCAAAAATACAAATCAACAAACCAATATTAAAGAAAAAAACCTATGAG
* * *
17756468 TTTTTAAAAGTCATTAAGCACAACGAGTACAGTGTGATCGACCAACTGAATAAACTACCAGC
66 TTCTTAAAAGTCATTAAGCACAACAAGTACAGTGTGATCAACCAACTGAATAAACTACCAGC
* * * *
17756530 TTCAGCCAGTGGTAAGTCCAAAAGTTCAAATCAACAAACCAATATTAGAGAAAAAAGCCTATGAG
1 TTCAGCCAGTGGTAAGTCCAAAAATACAAATCAACAAACCAATATTAAAGAAAAAAACCTATGAG
* * *
17756595 TTCTTAAAAGTCATTAAGCATAGCAAGTACAGTGTGGTCAACCAACTGAATAAACTACCAG
66 TTCTTAAAAGTCATTAAGCACAACAAGTACAGTGTGATCAACCAACTGAATAAACTACCAG
17756656 TTTATATTTT
Statistics
Matches: 114, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
127 114 1.00
ACGTcount: A:0.43, C:0.19, G:0.16, T:0.22
Consensus pattern (127 bp):
TTCAGCCAGTGGTAAGTCCAAAAATACAAATCAACAAACCAATATTAAAGAAAAAAACCTATGAG
TTCTTAAAAGTCATTAAGCACAACAAGTACAGTGTGATCAACCAACTGAATAAACTACCAGC
Found at i:17762329 original size:3 final size:3
Alignment explanation
Indices: 17762321--17762366 Score: 85
Period size: 3 Copynumber: 15.7 Consensus size: 3
17762311 GATTGCATCT
17762321 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
17762367 CACAATCATT
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 40 0.95
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:17762728 original size:69 final size:68
Alignment explanation
Indices: 17762655--17762884 Score: 203
Period size: 69 Copynumber: 3.4 Consensus size: 68
17762645 TCTAATCTCA
* * * * * *
17762655 TTATTCTT-TGACTCATGATTTAATTATGATCATCTTTATTTTTTAACTTGCGATTTAATCTCGG
1 TTATT-TTCTGACTCATGGTTCAATTATGATC-TCATTATTTTTTAACTTGCGATTCAATCCCAG
17762719 TCTTT
64 TCTTT
* *** * *
17762724 TTATTTTCTGACTCAAGGTTCAATCCCGATCTCATTATTTTTTGACTTGTGATTCAATCCCAGTC
1 TTATTTTCTGACTCATGGTTCAATTATGATCTCATTATTTTTTAACTTGCGATTCAATCCCAGTC
17762789 TTT
66 TTT
* * * * * * *
17762792 TTATTTTCTGACTCATGGTTCAATTAT-AGTCGACACTATTCTTTGACTCGCGATTTAATCCCTG
1 TTATTTTCTGACTCATGGTTCAATTATGA-TC-TCATTATTTTTTAACTTGCGATTCAATCCCAG
*
17762856 TCTCT
64 TCTTT
* * *
17762861 TTATTTTTTAACTCATGCTTCAAT
1 TTATTTTCTGACTCATGGTTCAAT
17762885 CTCAATCGTA
Statistics
Matches: 131, Mismatches: 27, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
67 1 0.01
68 58 0.44
69 72 0.55
ACGTcount: A:0.21, C:0.20, G:0.11, T:0.48
Consensus pattern (68 bp):
TTATTTTCTGACTCATGGTTCAATTATGATCTCATTATTTTTTAACTTGCGATTCAATCCCAGTC
TTT
Found at i:17762762 original size:34 final size:34
Alignment explanation
Indices: 17762724--17762989 Score: 133
Period size: 34 Copynumber: 7.7 Consensus size: 34
17762714 CTCGGTCTTT
*
17762724 TTATTTTCTGACTCAAGGTTCAATCCC-GATCTCA
1 TTATTTTCTGACTCATGGTTCAATCCCAG-TCTCA
* ** * **
17762758 TTATTTTTTGACTTGTGATTCAATCCCAGTCTTT
1 TTATTTTCTGACTCATGGTTCAATCCCAGTCTCA
*** *
17762792 TTATTTTCTGACTCATGGTTCAATTATAGTCGACA
1 TTATTTTCTGACTCATGGTTCAATCCCAGTC-TCA
* ** * * * *
17762827 CTATTCTT-TGACTCGCGATTTAATCCCTGTCTCT
1 TTATT-TTCTGACTCATGGTTCAATCCCAGTCTCA
* * * * *
17762861 TTATTTTTTAACTCATGCTTCAATCTCAATCGT-A
1 TTATTTTCTGACTCATGGTTCAATCCCAGTC-TCA
* ** *
17762895 TTTATTTTCTAACTCGCGGTTCAATCCCAATCTCA
1 -TTATTTTCTGACTCATGGTTCAATCCCAGTCTCA
** * * * * *
17762930 TTATTCCCTAACTCAAGGTTCAATCTCAGTTGTCG
1 TTATTTTCTGACTCATGGTTCAATCCCAG-TCTCA
* *
17762965 TTATTTTCTGACTCGTGGTTTAATC
1 TTATTTTCTGACTCATGGTTCAATC
17762990 ATGGTCATCT
Statistics
Matches: 167, Mismatches: 57, Indels: 15
0.70 0.24 0.06
Matches are distributed among these distances:
33 2 0.01
34 93 0.56
35 70 0.42
36 2 0.01
ACGTcount: A:0.21, C:0.23, G:0.12, T:0.44
Consensus pattern (34 bp):
TTATTTTCTGACTCATGGTTCAATCCCAGTCTCA
Found at i:17762908 original size:35 final size:35
Alignment explanation
Indices: 17762856--17762957 Score: 102
Period size: 35 Copynumber: 3.0 Consensus size: 35
17762846 TTAATCCCTG
* * *
17762856 TCTC-TTTATTTTTTAACTCATGCTTCAATCTCAA
1 TCTCATTTATTTTCTAACTCAAGGTTCAATCTCAA
** *
17762890 TCGT-ATTTATTTTCTAACTCGCGGTTCAATCCCAA
1 TC-TCATTTATTTTCTAACTCAAGGTTCAATCTCAA
**
17762925 TCTCA-TTATTCCCTAACTCAAGGTTCAATCTCA
1 TCTCATTTATTTTCTAACTCAAGGTTCAATCTCA
17762958 GTTGTCGTTA
Statistics
Matches: 55, Mismatches: 10, Indels: 6
0.77 0.14 0.08
Matches are distributed among these distances:
34 26 0.47
35 29 0.53
ACGTcount: A:0.25, C:0.26, G:0.07, T:0.42
Consensus pattern (35 bp):
TCTCATTTATTTTCTAACTCAAGGTTCAATCTCAA
Found at i:17762910 original size:69 final size:69
Alignment explanation
Indices: 17762837--17763012 Score: 174
Period size: 69 Copynumber: 2.5 Consensus size: 69
17762827 CTATTCTTTG
* * *
17762837 ACTCGCGATTTAATCCCTGTCTCTTTATTTTTTAACTCATGCTTCAATCTCAATCGTATTTATTT
1 ACTCGCGGTTTAATCCCTGTCTCTTTATTTTTTAACTCAAGCTTCAATCTCAATCGTAGTTATTT
17762902 TCTA
66 TCTA
* ** * *** * * * *
17762906 ACTCGCGGTTCAATCCCAATCTCATTATTCCCTAACTCAAGGTTCAATCTCAGTTGTCGTTATTT
1 ACTCGCGGTTTAATCCCTGTCTCTTTATTTTTTAACTCAAGCTTCAATCTCAATCGTAGTTATTT
*
17762971 TCTG
66 TCTA
* *
17762975 ACTCGTGGTTTAAT-CATGGTCATCTTTATTTTTTAACT
1 ACTCGCGGTTTAATCCCT-GTC-TCTTTATTTTTTAACT
17763013 TACGATTTTT
Statistics
Matches: 81, Mismatches: 24, Indels: 3
0.75 0.22 0.03
Matches are distributed among these distances:
68 1 0.01
69 68 0.84
70 12 0.15
ACGTcount: A:0.22, C:0.23, G:0.11, T:0.44
Consensus pattern (69 bp):
ACTCGCGGTTTAATCCCTGTCTCTTTATTTTTTAACTCAAGCTTCAATCTCAATCGTAGTTATTT
TCTA
Found at i:17763107 original size:34 final size:35
Alignment explanation
Indices: 17763032--17763122 Score: 116
Period size: 34 Copynumber: 2.7 Consensus size: 35
17763022 TGACTCCCTA
* *
17763032 TTCAATCCCGATCTCTTTATTTTTTAACTCACGGC
1 TTCAATCCTGATCTCTTTATTTTCTAACTCACGGC
*
17763067 TT-AATCCTGATCTCTTTATTTTCTAACTCATGG-
1 TTCAATCCTGATCTCTTTATTTTCTAACTCACGGC
*
17763100 TTCAATCCT-AGTCTCATTATTTT
1 TTCAATCCTGA-TCTCTTTATTTT
17763123 ACTTGTGATT
Statistics
Matches: 50, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
33 3 0.06
34 45 0.90
35 2 0.04
ACGTcount: A:0.21, C:0.24, G:0.08, T:0.47
Consensus pattern (35 bp):
TTCAATCCTGATCTCTTTATTTTCTAACTCACGGC
Found at i:17763186 original size:34 final size:33
Alignment explanation
Indices: 17763069--17763187 Score: 90
Period size: 34 Copynumber: 3.6 Consensus size: 33
17763059 CTCACGGCTT
*
17763069 AATCCT-GATCTCTTTATTTTCTAACTCATGG-TTC
1 AATCCTAGATCTCATTA-TTTCTAACT--TGGATTC
17763103 AATCCTAG-TCTCATTATTT-T-ACTTGTGATTC
1 AATCCTAGATCTCATTATTTCTAACTTG-GATTC
* *
17763134 AAT-CTTGATCGTCATTATTCTCTAACTTGCGATTT
1 AATCCTAGATC-TCATTATT-TCTAACTTG-GATTC
*
17763169 AATCCTAG-TCTCTTTATTT
1 AATCCTAGATCTCATTATTT
17763188 TTTGACTTGT
Statistics
Matches: 70, Mismatches: 6, Indels: 19
0.74 0.06 0.20
Matches are distributed among these distances:
29 2 0.03
30 4 0.06
31 11 0.16
32 9 0.13
33 5 0.07
34 21 0.30
35 15 0.21
36 3 0.04
ACGTcount: A:0.22, C:0.21, G:0.09, T:0.48
Consensus pattern (33 bp):
AATCCTAGATCTCATTATTTCTAACTTGGATTC
Found at i:17763196 original size:34 final size:35
Alignment explanation
Indices: 17763158--17763229 Score: 85
Period size: 35 Copynumber: 2.1 Consensus size: 35
17763148 TTATTCTCTA
*
17763158 ACTTGCGATTTAATCCTA-G-TCTCTTTATTTTTTG
1 ACTTGCGATTCAATCC-AGGTTCTCTTTATTTTTTG
* * *
17763192 ACTTGTGGTTCAATCCAGGTTGTCTTTATTTTTTG
1 ACTTGCGATTCAATCCAGGTTCTCTTTATTTTTTG
17763227 ACT
1 ACT
17763230 AATGGTTCAA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
33 1 0.03
34 14 0.44
35 17 0.53
ACGTcount: A:0.17, C:0.17, G:0.15, T:0.51
Consensus pattern (35 bp):
ACTTGCGATTCAATCCAGGTTCTCTTTATTTTTTG
Found at i:17763255 original size:34 final size:33
Alignment explanation
Indices: 17763169--17763255 Score: 102
Period size: 35 Copynumber: 2.5 Consensus size: 33
17763159 CTTGCGATTT
**
17763169 AATCCTAGTCTCTTTATTTTTTGACTTGTGGTTC
1 AATCC-AGTCTCTTTATTTTTTGACTAATGGTTC
*
17763203 AATCCAGGTTGTCTTTATTTTTTGACTAATGGTTC
1 AATCCA-G-TCTCTTTATTTTTTGACTAATGGTTC
*
17763238 AATTCCAGTCTCATTATT
1 AA-TCCAGTCTCTTTATT
17763256 CTCTGACTCA
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
33 1 0.02
34 14 0.31
35 26 0.58
36 4 0.09
ACGTcount: A:0.20, C:0.17, G:0.14, T:0.49
Consensus pattern (33 bp):
AATCCAGTCTCTTTATTTTTTGACTAATGGTTC
Found at i:17764984 original size:16 final size:16
Alignment explanation
Indices: 17764965--17764998 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
17764955 ATAATAAAAA
17764965 AATAAAATAAAATAAT
1 AATAAAATAAAATAAT
* *
17764981 AATAAAGTATAATAAT
1 AATAAAATAAAATAAT
17764997 AA
1 AA
17764999 CCAAAAAATG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (16 bp):
AATAAAATAAAATAAT
Found at i:17765156 original size:18 final size:17
Alignment explanation
Indices: 17765135--17765180 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 17
17765125 ATAAAAAAGT
17765135 ATAAAAAGATAATAAATA
1 ATAAAAAGATAATAAA-A
17765153 ATAAAACA-ATAATAAAA
1 ATAAAA-AGATAATAAAA
*
17765170 ATAAATAGATA
1 ATAAAAAGATA
17765181 TTATTAATAG
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
16 1 0.04
17 9 0.36
18 14 0.56
19 1 0.04
ACGTcount: A:0.72, C:0.02, G:0.04, T:0.22
Consensus pattern (17 bp):
ATAAAAAGATAATAAAA
Found at i:17765405 original size:15 final size:15
Alignment explanation
Indices: 17765335--17765408 Score: 64
Period size: 15 Copynumber: 4.9 Consensus size: 15
17765325 TAAACCTTTC
*
17765335 AAACCCTAAACCCTA
1 AAACCTTAAACCCTA
*
17765350 AAA--TATAAA-CCTT
1 AAACCT-TAAACCCTA
17765363 AAACCTTCCAAACCCTA
1 AAACCTT--AAACCCTA
**
17765380 AAACCAAAAACCCTA
1 AAACCTTAAACCCTA
17765395 AAACCTTAAACCCT
1 AAACCTTAAACCCT
17765409 TAATTTGAAA
Statistics
Matches: 46, Mismatches: 7, Indels: 12
0.71 0.11 0.18
Matches are distributed among these distances:
13 6 0.13
14 5 0.11
15 24 0.52
16 3 0.07
17 8 0.17
ACGTcount: A:0.49, C:0.34, G:0.00, T:0.18
Consensus pattern (15 bp):
AAACCTTAAACCCTA
Found at i:17765527 original size:15 final size:16
Alignment explanation
Indices: 17765485--17765535 Score: 70
Period size: 16 Copynumber: 3.3 Consensus size: 16
17765475 CCCAAAACTA
*
17765485 TAAACTTTCAAAACCC
1 TAAAATTTCAAAACCC
*
17765501 CAAAATTTCAAAACCC
1 TAAAATTTCAAAACCC
17765517 TAAAA-TTCAAAA-CC
1 TAAAATTTCAAAACCC
17765531 TAAAA
1 TAAAA
17765536 CTCTAAAATT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
14 7 0.22
15 7 0.22
16 18 0.56
ACGTcount: A:0.53, C:0.25, G:0.00, T:0.22
Consensus pattern (16 bp):
TAAAATTTCAAAACCC
Found at i:17765536 original size:22 final size:22
Alignment explanation
Indices: 17765510--17765564 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 22
17765500 CCAAAATTTC
17765510 AAAACCCTAAAATTCAAAACCT
1 AAAACCCTAAAATTCAAAACCT
* * *
17765532 AAAACTCTAAAATTTAAAACTT
1 AAAACCCTAAAATTCAAAACCT
17765554 AAAA-CCTAAAA
1 AAAACCCTAAAA
17765565 CCCCAAATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
21 6 0.21
22 23 0.79
ACGTcount: A:0.58, C:0.20, G:0.00, T:0.22
Consensus pattern (22 bp):
AAAACCCTAAAATTCAAAACCT
Found at i:17765565 original size:14 final size:14
Alignment explanation
Indices: 17765510--17765565 Score: 60
Period size: 14 Copynumber: 3.9 Consensus size: 14
17765500 CCAAAATTTC
17765510 AAAACCCTAAAA-TT
1 AAAA-CCTAAAACTT
17765524 CAAAACCTAAAACTCT
1 -AAAACCTAAAACT-T
**
17765540 AAAATTTAAAACTT
1 AAAACCTAAAACTT
17765554 AAAACCTAAAAC
1 AAAACCTAAAAC
17765566 CCCAAATTTG
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
14 18 0.51
15 16 0.46
16 1 0.03
ACGTcount: A:0.57, C:0.21, G:0.00, T:0.21
Consensus pattern (14 bp):
AAAACCTAAAACTT
Found at i:17767560 original size:2 final size:2
Alignment explanation
Indices: 17767553--17767589 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
17767543 AAACAAACAA
17767553 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
17767590 AAAGAAAGAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:17768503 original size:3 final size:3
Alignment explanation
Indices: 17768489--17768532 Score: 79
Period size: 3 Copynumber: 14.7 Consensus size: 3
17768479 ATGCAAGCTC
*
17768489 AAT AAT AGT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
17768533 ACCCAAAATT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:17773513 original size:18 final size:17
Alignment explanation
Indices: 17773487--17773542 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 17
17773477 TAACTTTCTG
17773487 TTTTT-TATTTTTATAT
1 TTTTTATATTTTTATAT
*
17773503 CTTTTTATATTTATA-AT
1 -TTTTTATATTTTTATAT
17773520 TATTGTTATATTTTTATTAT
1 T-TT-TTATATTTTTA-TAT
17773540 TTT
1 TTT
17773543 ATTTTATTCT
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
16 1 0.03
17 9 0.28
18 17 0.53
19 2 0.06
20 3 0.09
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.73
Consensus pattern (17 bp):
TTTTTATATTTTTATAT
Found at i:17773543 original size:28 final size:28
Alignment explanation
Indices: 17773491--17773544 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
17773481 TTTCTGTTTT
*
17773491 TTATTTTTATATCTTTTTATATTTATAA
1 TTATTGTTATATCTTTTTATATTTATAA
*
17773519 TTATTGTTATATTTTTATTAT-TTTAT
1 TTATTGTTATATCTTT-TTATATTTAT
17773545 TTTATTCTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
28 19 0.83
29 4 0.17
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (28 bp):
TTATTGTTATATCTTTTTATATTTATAA
Found at i:17775279 original size:18 final size:18
Alignment explanation
Indices: 17775256--17775290 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
17775246 ATATTAATAT
17775256 TTTTAATAATTT-TTTAAC
1 TTTTAA-AATTTATTTAAC
17775274 TTTTAAAATTTATTTAA
1 TTTTAAAATTTATTTAA
17775291 TTATATTCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (18 bp):
TTTTAAAATTTATTTAAC
Found at i:17775579 original size:66 final size:66
Alignment explanation
Indices: 17775509--17775715 Score: 177
Period size: 67 Copynumber: 3.1 Consensus size: 66
17775499 ATTTCTATAG
17775509 TTTTTTCCCATTTATGCTAAATTAACTTTTTTTATTTTTCTCACATATTTATGTTAATATTTTAA
1 TTTTTTCCCATTTATGCTAAATTAACTTTTTTTATTTTTCTCACATATTTATGTTAATATTTTAA
17775574 A
66 A
**** * *** * * * * * ** *
17775575 TTTTTTTTGTTTTTATTCATTTTTTTA-TCATTTATAATTTTCATAATTTATTT-TGGTTGAT-T
1 -TTTTTTCCCATTTATGC-TAAATTAACT-TTTTTTATTTTTC-TCACATATTTAT-GTTAATAT
* *
17775637 TCTATAG
61 TTTA-AA
17775644 TTTTTTCCCATTTATGCTAAATTAACTTTTTTTATTTTTCTCACATATTTATGTTAATATTTTAA
1 TTTTTTCCCATTTATGCTAAATTAACTTTTTTTATTTTTCTCACATATTTATGTTAATATTTTAA
17775709 A
66 A
17775710 TTTTTT
1 TTTTTT
17775716 TTGTTTTTAT
Statistics
Matches: 96, Mismatches: 36, Indels: 17
0.64 0.24 0.11
Matches are distributed among these distances:
66 19 0.20
67 32 0.33
68 32 0.33
69 13 0.14
ACGTcount: A:0.24, C:0.10, G:0.04, T:0.62
Consensus pattern (66 bp):
TTTTTTCCCATTTATGCTAAATTAACTTTTTTTATTTTTCTCACATATTTATGTTAATATTTTAA
A
Found at i:17775608 original size:135 final size:135
Alignment explanation
Indices: 17775468--17775740 Score: 546
Period size: 135 Copynumber: 2.0 Consensus size: 135
17775458 CTTTTTAACA
17775468 CATTTATAATTTTCATAATTTATTTTGGTTGATTTCTATAGTTTTTTCCCATTTATGCTAAATTA
1 CATTTATAATTTTCATAATTTATTTTGGTTGATTTCTATAGTTTTTTCCCATTTATGCTAAATTA
17775533 ACTTTTTTTATTTTTCTCACATATTTATGTTAATATTTTAAATTTTTTTTGTTTTTATTCATTTT
66 ACTTTTTTTATTTTTCTCACATATTTATGTTAATATTTTAAATTTTTTTTGTTTTTATTCATTTT
17775598 TTTAT
131 TTTAT
17775603 CATTTATAATTTTCATAATTTATTTTGGTTGATTTCTATAGTTTTTTCCCATTTATGCTAAATTA
1 CATTTATAATTTTCATAATTTATTTTGGTTGATTTCTATAGTTTTTTCCCATTTATGCTAAATTA
17775668 ACTTTTTTTATTTTTCTCACATATTTATGTTAATATTTTAAATTTTTTTTGTTTTTATTCATTTT
66 ACTTTTTTTATTTTTCTCACATATTTATGTTAATATTTTAAATTTTTTTTGTTTTTATTCATTTT
17775733 TTTAT
131 TTTAT
17775738 CAT
1 CAT
17775741 AAACTATATT
Statistics
Matches: 138, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
135 138 1.00
ACGTcount: A:0.24, C:0.09, G:0.05, T:0.62
Consensus pattern (135 bp):
CATTTATAATTTTCATAATTTATTTTGGTTGATTTCTATAGTTTTTTCCCATTTATGCTAAATTA
ACTTTTTTTATTTTTCTCACATATTTATGTTAATATTTTAAATTTTTTTTGTTTTTATTCATTTT
TTTAT
Found at i:17775791 original size:135 final size:133
Alignment explanation
Indices: 17775473--17775792 Score: 378
Period size: 135 Copynumber: 2.4 Consensus size: 133
17775463 TAACACATTT
* * ** * **
17775473 ATAATTTTCATAATTTATTTTGGTTGATTTCTATAGTTTTTTCCCATTTATGCTAAATTAACTTT
1 ATAATTTT-AT-ATTTATTATGATTGATTTAAATAGTTTATTAACATTTATGCTAAATTAACTTT
17775538 TTTTATTTTTCTCACATATTTATGTTAATATTTTAAATTTTTTTTGTTTTTATTCATTTTTTTAT
64 TTTTATTTTTCTCACATATTTATGTTAATATTTTAAATTTTTTTTGTTTTTATTCATTTTTTTAT
**
17775603 CATTT
129 CATAA
* * ** * **
17775608 ATAATTTTCATAATTTATTTTGGTTGATTTCTATAGTTTTTTCCCATTTATGCTAAATTAACTTT
1 ATAATTTT-AT-ATTTATTATGATTGATTTAAATAGTTTATTAACATTTATGCTAAATTAACTTT
17775673 TTTTATTTTTCTCACATATTTATGTTAATATTTTAAATTTTTTTTGTTTTTATTCATTTTTTTAT
64 TTTTATTTTTCTCACATATTTATGTTAATATTTTAAATTTTTTTTGTTTTTATTCATTTTTTTAT
17775738 CATAA
129 CATAA
17775743 ACTATATTGTT-T-TTTATTAT-ATTGAATTTAAATA-TTTAAATTAACATTTA
1 A-TA-ATT-TTATATTTATTATGATTG-ATTTAAATAGTTT--ATTAACATTTA
17775793 AAGAAGGTCA
Statistics
Matches: 170, Mismatches: 9, Indels: 12
0.89 0.05 0.06
Matches are distributed among these distances:
133 6 0.04
134 14 0.08
135 142 0.84
136 3 0.02
137 3 0.02
138 2 0.01
ACGTcount: A:0.27, C:0.08, G:0.05, T:0.60
Consensus pattern (133 bp):
ATAATTTTATATTTATTATGATTGATTTAAATAGTTTATTAACATTTATGCTAAATTAACTTTTT
TTATTTTTCTCACATATTTATGTTAATATTTTAAATTTTTTTTGTTTTTATTCATTTTTTTATCA
TAA
Found at i:17776115 original size:15 final size:16
Alignment explanation
Indices: 17776076--17776116 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
17776066 ATTTTGGTAT
*
17776076 TTTTTATTTTTGTTTC
1 TTTTTAGTTTTGTTTC
*
17776092 GTTTT-GTTTTGTTT-
1 TTTTTAGTTTTGTTTC
17776106 TTTTTAGTTTT
1 TTTTTAGTTTT
17776117 ATGTATTAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
14 4 0.19
15 13 0.62
16 4 0.19
ACGTcount: A:0.05, C:0.02, G:0.12, T:0.80
Consensus pattern (16 bp):
TTTTTAGTTTTGTTTC
Found at i:17777591 original size:42 final size:42
Alignment explanation
Indices: 17777543--17777835 Score: 248
Period size: 42 Copynumber: 7.0 Consensus size: 42
17777533 TGAAAACAAT
* * *
17777543 AATGAAAGAGCTCTTCTCACTAGAGGTTATGAAAACGTTAAA
1 AATGAAAGAGCTCATCTCACTAGAGGCTATGAAAACTTTAAA
* * * *
17777585 AATGAAAGAGCTTATCTCATTAAAGGCTATG-AAATTTTAAAA
1 AATGAAAGAGCTCATCTCACTAGAGGCTATGAAAACTTT-AAA
* * * *
17777627 AAAGAAAGAGCCCATCTCACCAGAGGCTATGAAAATTTTTAAA
1 AATGAAAGAGCTCATCTCACTAGAGGCTATGAAAA-CTTTAAA
* * *
17777670 AAT--AAGAGCGCCTCTTACTAGAGGCTATG-AAACTTTAAA
1 AATGAAAGAGCTCATCTCACTAGAGGCTATGAAAACTTTAAA
* * * *
17777709 ACTAAAAGAGCTACTAT-T-ACCAAATGG-TAT-AAAACTTTAAAA
1 AATGAAAGAGCT-C-ATCTCACTAGA-GGCTATGAAAACTTT-AAA
*
17777751 AATGAAAGAGCTCATCTCACTAGAGGTTAT-AAAACTTTTAAA
1 AATGAAAGAGCTCATCTCACTAGAGGCTATGAAAAC-TTTAAA
* *
17777793 ACTAAAAGAGCTCATCTCA-TCAGAGGCTATG-AAACTTTAAA
1 AATGAAAGAGCTCATCTCACT-AGAGGCTATGAAAACTTTAAA
17777834 AA
1 AA
17777836 AAATTTAAAA
Statistics
Matches: 203, Mismatches: 32, Indels: 33
0.76 0.12 0.12
Matches are distributed among these distances:
39 8 0.04
40 5 0.02
41 59 0.29
42 115 0.57
43 12 0.06
44 4 0.02
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.26
Consensus pattern (42 bp):
AATGAAAGAGCTCATCTCACTAGAGGCTATGAAAACTTTAAA
Done.