Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008593.1 Hibiscus syriacus cultivar Beakdansim tig00111542_pilon, 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: 1058705
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
File 4 of 5
Found at i:879100 original size:9 final size:9
Alignment explanation
Indices: 879086--879154 Score: 57
Period size: 9 Copynumber: 7.3 Consensus size: 9
879076 GCTGCTGGAA
879086 ACCGGTTTG
1 ACCGGTTTG
879095 ACCGGTTTCG
1 ACCGGTTT-G
* *
879105 ATCGGTTCG
1 ACCGGTTTG
*
879114 AACCGTTTTG
1 -ACCGGTTTG
**
879124 ACCGGTCTAA
1 ACCGGT-TTG
879134 ACCGGTTTG
1 ACCGGTTTG
*
879143 ACCGGTCTG
1 ACCGGTTTG
879152 ACC
1 ACC
879155 CGACCCGACC
Statistics
Matches: 46, Mismatches: 11, Indels: 6
0.73 0.17 0.10
Matches are distributed among these distances:
9 26 0.57
10 20 0.43
ACGTcount: A:0.16, C:0.28, G:0.28, T:0.29
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:879129 original size:19 final size:20
Alignment explanation
Indices: 879095--879148 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 20
879085 AACCGGTTTG
* *
879095 ACCGGTTTCGATCGGTTC-GA
1 ACCGGTTT-GACCGGTTCTAA
*
879115 ACCGTTTTGACCGG-TCTAA
1 ACCGGTTTGACCGGTTCTAA
879134 ACCGGTTTGACCGGT
1 ACCGGTTTGACCGGT
879149 CTGACCCGAC
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
18 2 0.07
19 19 0.68
20 7 0.25
ACGTcount: A:0.17, C:0.26, G:0.28, T:0.30
Consensus pattern (20 bp):
ACCGGTTTGACCGGTTCTAA
Found at i:879149 original size:19 final size:19
Alignment explanation
Indices: 879114--879150 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
879104 GATCGGTTCG
*
879114 AACCGTTTTGACCGGTCTA
1 AACCGGTTTGACCGGTCTA
879133 AACCGGTTTGACCGGTCT
1 AACCGGTTTGACCGGTCT
879151 GACCCGACCC
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:0.19, C:0.27, G:0.24, T:0.30
Consensus pattern (19 bp):
AACCGGTTTGACCGGTCTA
Found at i:879161 original size:5 final size:5
Alignment explanation
Indices: 879151--879192 Score: 50
Period size: 5 Copynumber: 8.6 Consensus size: 5
879141 TGACCGGTCT
* * *
879151 GACCC GACCC GACCC GACCC TA-CC GTCCC GACTC GACCC GAC
1 GACCC GACCC GACCC GACCC GACCC GACCC GACCC GACCC GAC
879193 TGTTGACCGT
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
4 2 0.07
5 28 0.93
ACGTcount: A:0.19, C:0.55, G:0.19, T:0.07
Consensus pattern (5 bp):
GACCC
Found at i:880739 original size:4 final size:4
Alignment explanation
Indices: 880730--880764 Score: 70
Period size: 4 Copynumber: 8.8 Consensus size: 4
880720 TTTACAAGTT
880730 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
880765 TATATATATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.51, C:0.23, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:881546 original size:25 final size:26
Alignment explanation
Indices: 881518--881566 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 26
881508 TACATTGTAC
881518 TCGAACGTGTA-AACTCTTTTAGTAT
1 TCGAACGTGTAGAACTCTTTTAGTAT
*
881543 TCGAACGTGTAGAACTTTTTTAGT
1 TCGAACGTGTAGAACTCTTTTAGT
881567 TTTACATCGT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 11 0.50
26 11 0.50
ACGTcount: A:0.27, C:0.14, G:0.18, T:0.41
Consensus pattern (26 bp):
TCGAACGTGTAGAACTCTTTTAGTAT
Found at i:883796 original size:69 final size:69
Alignment explanation
Indices: 883723--883856 Score: 171
Period size: 69 Copynumber: 1.9 Consensus size: 69
883713 AGGTCGGATA
* *
883723 AAATCAGATACATGTCA-AGTCAGGTAAATTTGACACCAGATCCAGATCGGGTTCAGTTCAGGTC
1 AAATCA-ATACAGGTCATAGTCAGGTAAATTTGACACCAGATCCAGATCGGGTTCAGGTCAGGTC
883787 AGGTC
65 AGGTC
* * * ** **
883792 AAATCAATTCGGGTTATTTTCAGGTTGATTTGACACCAGATCCAGATCGGGTTCAGGTCAGGTCA
1 AAATCAATACAGGTCATAGTCAGGTAAATTTGACACCAGATCCAGATCGGGTTCAGGTCAGGTCA
883857 TTTTCAGTTC
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
68 6 0.11
69 49 0.89
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (69 bp):
AAATCAATACAGGTCATAGTCAGGTAAATTTGACACCAGATCCAGATCGGGTTCAGGTCAGGTCA
GGTC
Found at i:884773 original size:210 final size:210
Alignment explanation
Indices: 884160--885176 Score: 1487
Period size: 210 Copynumber: 4.8 Consensus size: 210
884150 ATTTAAGAAT
* *
884160 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAAAAACACACATTGATGAG
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATATATTAAACAACACA-A---A--AG
* * **
884225 GGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAAAAACTAAATTATA
60 GGATCAAATCAAAATAATTTTAAATTTTGAGGTTGAAATTAATAC-AAAAAAGTACTAAATTATA
* * * * * *
884290 CCCATTTAAAAAGTTATGGGACAATTAAAAAATTGAATTAAGTAATAAGTATGGATCAATTTCAT
124 CCCATTTAAAAAGTTATGGGCCAATTTAAAAATAGAAATAAGTAATAAGTATGGGTCAATTTCAG
* *
884355 ATGAAAATAAAATTTGGAGGAT
189 ATGCAAATAAAATTTGGAGGAC
* * *
884377 TAAATTAAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACATTGATGGG
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATATATTAAACAACACA-A---AAGGG
* * *
884442 ATCAAATCTAAATAATTTTAAAATTGTGATGTTGAAATTAATACAAAAAAGTACTAAATTATACC
62 ATCAAATCAAAATAATTTT-AAATTTTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATACC
* *
884507 CATTTAAAAAGTTATGGGCCAATTTAAAAATATAAATAAGTAATAAGTATGGGTCAATTTTAGAT
126 CATTTAAAAAGTTATGGGCCAATTTAAAAATAGAAATAAGTAATAAGTATGGGTCAATTTCAGAT
884572 GCAAATAAAATTTGGAGGAC
191 GCAAATAAAATTTGGAGGAC
*
884592 TAAATTGAACAAATATTAAATTACAAATAAAAATTTAAATATATTAAACAACACAAAAGGGATCA
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATATATTAAACAACACAAAAGGGATCA
*
884657 AATCAAAATAATTTTAAATTTTGAGGTTAAAATTAATACAAAAAAGTACTAAATTATACCCATTT
66 AATCAAAATAATTTTAAATTTTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATACCCATTT
* *
884722 AAAAAGTTATGTGCCAATTTAAAAATAGAAATAAGTAATAAGTATGGGTCAATTTTAGATGCAAA
131 AAAAAGTTATGGGCCAATTTAAAAATAGAAATAAGTAATAAGTATGGGTCAATTTCAGATGCAAA
884787 TAAAATTTGGAGGAC
196 TAAAATTTGGAGGAC
884802 TAAATTGAACAAATATGAAATTAC------AAA--TAAA-ATATTAAACAACACAAAAGGGATCA
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATATATTAAACAACACAAAAGGGATCA
*
884858 AATCAAAATAATTTTAAATTTTGAGGTTAAAATTAATACAAAAAAAGTACTAAATTATACCCATT
66 AATCAAAATAATTTTAAATTTTGAGGTTGAAATTAATAC-AAAAAAGTACTAAATTATACCCATT
* *
884923 TAAAAAGTTATGGGCCAATTTAAAAATAGAAATAAGTAATAAGTATGGGTTAATTTCAGGTGCAA
130 TAAAAAGTTATGGGCCAATTTAAAAATAGAAATAAGTAATAAGTATGGGTCAATTTCAGATGCAA
884988 ATAAAATTTGGAGGAC
195 ATAAAATTTGGAGGAC
* *
885004 TAAATTGAACAAATATGAAATTACAAATTAAAATTTAAATATATTAAACAACACTAAAGGGATCA
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATATATTAAACAACACAAAAGGGATCA
* * *
885069 AATCAAAATAATTTTAAATTTTGAGGTTGAAATTAATACAAAAATGTACTAAAATATACTCATTT
66 AATCAAAATAATTTTAAATTTTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATACCCATTT
* * * * *
885134 ATAAAGCTATGAGCCAA-TTAATAAATATAAATAAGGAATAAGT
131 AAAAAGTTATGGGCCAATTTAA-AAATAGAAATAAGTAATAAGT
885177 TGAGAAAAAA
Statistics
Matches: 746, Mismatches: 42, Indels: 31
0.91 0.05 0.04
Matches are distributed among these distances:
201 64 0.09
202 130 0.17
204 3 0.00
208 3 0.00
209 4 0.01
210 208 0.28
211 84 0.11
214 1 0.00
215 167 0.22
216 23 0.03
217 59 0.08
ACGTcount: A:0.51, C:0.08, G:0.12, T:0.30
Consensus pattern (210 bp):
TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATATATTAAACAACACAAAAGGGATCA
AATCAAAATAATTTTAAATTTTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATACCCATTT
AAAAAGTTATGGGCCAATTTAAAAATAGAAATAAGTAATAAGTATGGGTCAATTTCAGATGCAAA
TAAAATTTGGAGGAC
Found at i:885205 original size:2 final size:2
Alignment explanation
Indices: 885200--885300 Score: 66
Period size: 2 Copynumber: 50.5 Consensus size: 2
885190 AAAACAACTA
* *
885200 AT AT AT AT AT AT AT AT AT AT A- AT AT AA AGT AT AT GT AT -T AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT
* * * * *
885241 AT AT AT AA ACT AT AT AGT TT TT AT AT AT AT AT AT -T AT GT AT AA
1 AT AT AT AT A-T AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT
*
885284 AGT AT AA AT -T AT AT AT A
1 A-T AT AT AT AT AT AT AT A
885301 CCATGTATAA
Statistics
Matches: 77, Mismatches: 14, Indels: 16
0.72 0.13 0.15
Matches are distributed among these distances:
1 4 0.05
2 69 0.90
3 4 0.05
ACGTcount: A:0.48, C:0.01, G:0.05, T:0.47
Consensus pattern (2 bp):
AT
Found at i:885306 original size:27 final size:28
Alignment explanation
Indices: 885266--885326 Score: 79
Period size: 27 Copynumber: 2.2 Consensus size: 28
885256 AGTTTTTATA
** * *
885266 TATATATATTATGTATAAAGTATAA-AT
1 TATATATACCATGTATAAACTATAATAC
885293 TATATATACCATGTATAAACTATAATAC
1 TATATATACCATGTATAAACTATAATAC
885321 TATATA
1 TATATA
885327 GTTTATATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
27 22 0.76
28 7 0.24
ACGTcount: A:0.48, C:0.07, G:0.05, T:0.41
Consensus pattern (28 bp):
TATATATACCATGTATAAACTATAATAC
Found at i:885471 original size:22 final size:22
Alignment explanation
Indices: 885443--885506 Score: 80
Period size: 22 Copynumber: 3.0 Consensus size: 22
885433 ATATATTGTG
885443 TAAATTATATAGTTTAT-TGATA
1 TAAATTATATAGTTTATAT-ATA
885465 TAAATTATATAGTTTATATATA
1 TAAATTATATAGTTTATATATA
* *
885487 TATA-TATATA-TATATATATA
1 TAAATTATATAGTTTATATATA
885507 GTATATATGG
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
20 9 0.23
21 6 0.15
22 23 0.59
23 1 0.03
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (22 bp):
TAAATTATATAGTTTATATATA
Found at i:885484 original size:2 final size:2
Alignment explanation
Indices: 885479--885514 Score: 63
Period size: 2 Copynumber: 17.5 Consensus size: 2
885469 TTATATAGTT
885479 TA TA TA TA TA TA TA TA TA TA TA TA TA TA GTA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA T
885515 GGTTTAGGGT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 31 0.94
3 2 0.06
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:885525 original size:7 final size:7
Alignment explanation
Indices: 885515--885562 Score: 51
Period size: 7 Copynumber: 6.9 Consensus size: 7
885505 TAGTATATAT
885515 GGTTTAG
1 GGTTTAG
885522 GGTTTAG
1 GGTTTAG
*
885529 GGTTTAT
1 GGTTTAG
*
885536 GGTTTAA
1 GGTTTAG
** *
885543 TATTTAT
1 GGTTTAG
885550 GGTTTAG
1 GGTTTAG
885557 GGTTTA
1 GGTTTA
885563 TATTTATATT
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
7 33 1.00
ACGTcount: A:0.19, C:0.00, G:0.31, T:0.50
Consensus pattern (7 bp):
GGTTTAG
Found at i:885534 original size:14 final size:14
Alignment explanation
Indices: 885515--885563 Score: 62
Period size: 14 Copynumber: 3.5 Consensus size: 14
885505 TAGTATATAT
*
885515 GGTTTAGGGTTTAG
1 GGTTTATGGTTTAG
*
885529 GGTTTATGGTTTAA
1 GGTTTATGGTTTAG
**
885543 TATTTATGGTTTAG
1 GGTTTATGGTTTAG
885557 GGTTTAT
1 GGTTTAT
885564 ATTTATATTT
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.18, C:0.00, G:0.31, T:0.51
Consensus pattern (14 bp):
GGTTTATGGTTTAG
Found at i:885548 original size:21 final size:20
Alignment explanation
Indices: 885524--885568 Score: 63
Period size: 21 Copynumber: 2.2 Consensus size: 20
885514 TGGTTTAGGG
*
885524 TTTAGGGTTTATGGTTTAATA
1 TTTAGGGTTTAGGGTTT-ATA
*
885545 TTTATGGTTTAGGGTTTATA
1 TTTAGGGTTTAGGGTTTATA
885565 TTTA
1 TTTA
885569 TATTTATATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 7 0.32
21 15 0.68
ACGTcount: A:0.22, C:0.00, G:0.22, T:0.56
Consensus pattern (20 bp):
TTTAGGGTTTAGGGTTTATA
Found at i:885557 original size:28 final size:26
Alignment explanation
Indices: 885517--885575 Score: 82
Period size: 28 Copynumber: 2.2 Consensus size: 26
885507 GTATATATGG
* *
885517 TTTAGGGTTTAGGGTTTATGGTTTAATA
1 TTTATGGTTTAGGGTTTAT-ATTT-ATA
885545 TTTATGGTTTAGGGTTTATATTTATA
1 TTTATGGTTTAGGGTTTATATTTATA
885571 TTTAT
1 TTTAT
885576 ATTTATATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 8 0.28
27 3 0.10
28 18 0.62
ACGTcount: A:0.22, C:0.00, G:0.22, T:0.56
Consensus pattern (26 bp):
TTTATGGTTTAGGGTTTATATTTATA
Found at i:885570 original size:6 final size:6
Alignment explanation
Indices: 885559--885583 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
885549 TGGTTTAGGG
885559 TTTATA TTTATA TTTATA TTTATA T
1 TTTATA TTTATA TTTATA TTTATA T
885584 AAACTACATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
TTTATA
Found at i:885616 original size:20 final size:20
Alignment explanation
Indices: 885591--885663 Score: 83
Period size: 20 Copynumber: 3.4 Consensus size: 20
885581 TATAAACTAC
885591 ATACTATAATTTATATTTAT
1 ATACTATAATTTATATTTAT
*
885611 ATACTATATTTTATACTATTTAT
1 ATACTATA-ATT-TA-TATTTAT
*
885634 ATAAACTATAGTTTATATTTAT
1 AT--ACTATAATTTATATTTAT
885656 ATACTATA
1 ATACTATA
885664 TATATATGAA
Statistics
Matches: 46, Mismatches: 2, Indels: 10
0.79 0.03 0.17
Matches are distributed among these distances:
20 14 0.30
21 2 0.04
22 11 0.24
23 11 0.24
24 2 0.04
25 6 0.13
ACGTcount: A:0.40, C:0.07, G:0.01, T:0.52
Consensus pattern (20 bp):
ATACTATAATTTATATTTAT
Found at i:885627 original size:12 final size:13
Alignment explanation
Indices: 885602--885651 Score: 59
Period size: 13 Copynumber: 3.8 Consensus size: 13
885592 TACTATAATT
885602 TATATTTATATAC
1 TATATTTATATAC
885615 TATATTT-TATAC
1 TATATTTATATAC
*
885627 TAT-TTATATAAAC
1 TATATT-TATATAC
885640 TATAGTTTATAT
1 TATA-TTTATAT
885652 TTATATACTA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
11 2 0.06
12 9 0.29
13 14 0.45
14 4 0.13
15 2 0.06
ACGTcount: A:0.38, C:0.06, G:0.02, T:0.54
Consensus pattern (13 bp):
TATATTTATATAC
Found at i:885642 original size:25 final size:23
Alignment explanation
Indices: 885604--885663 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 23
885594 CTATAATTTA
*
885604 TATTTATATACTATATTTTATAC
1 TATTTATATACTATAGTTTATAC
885627 TATTTATATAAACTATAG-TT-TA-
1 TATTTATAT--ACTATAGTTTATAC
885649 TATTTATATACTATA
1 TATTTATATACTATA
885664 TATATATGAA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
20 6 0.18
22 9 0.26
23 11 0.32
24 2 0.06
25 6 0.18
ACGTcount: A:0.38, C:0.07, G:0.02, T:0.53
Consensus pattern (23 bp):
TATTTATATACTATAGTTTATAC
Found at i:885677 original size:35 final size:32
Alignment explanation
Indices: 885615--885708 Score: 102
Period size: 35 Copynumber: 2.9 Consensus size: 32
885605 ATTTATATAC
885615 TATATTTTATACTATTTATATAAACTATAGTT
1 TATATTTTATACTATTTATATAAACTATAGTT
*
885647 TATATTTATATACTATATATATATGAACTATAGTT
1 TATATTT-TATACTAT-T-TATATAAACTATAGTT
* * * *
885682 TACATATGA-ACTATATATATAAA-TATA
1 TATATTTTATACTATTTATATAAACTATA
885709 TATATACACT
Statistics
Matches: 53, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
30 4 0.08
31 7 0.13
32 7 0.13
33 13 0.25
34 2 0.04
35 20 0.38
ACGTcount: A:0.43, C:0.06, G:0.04, T:0.47
Consensus pattern (32 bp):
TATATTTTATACTATTTATATAAACTATAGTT
Found at i:885699 original size:80 final size:74
Alignment explanation
Indices: 885615--885846 Score: 201
Period size: 80 Copynumber: 3.1 Consensus size: 74
885605 ATTTATATAC
* *
885615 TATATTTTATACTATTTATATAAACTATAGTTTATATTTATATACTATATATATATGAACTATAG
1 TATATTTTATACTATATATATAAACTATAG--TATAGTTA-ATA-T-T-TATATATGAACTATAG
885680 TTTACATATGAACTA
60 TTTACATATGAACTA
* * * *
885695 TATA-TATA-AATATATATATACACTA-AG----GTTGATATTTATATATGAACTATAGTTTACA
1 TATATTTTATACTATATATATAAACTATAGTATAGTTAATATTTATATATGAACTATAGTTTACA
*
885753 TATAAACTA
66 TATGAACTA
* * *
885762 TATAGTTTATATACTAACTATAGTTTACATA-TAAACTATAGTTAATATTTATATATGAACTATA
1 TATA-TTT-TATACT-A-TATA-TATA-A-ACTATAGTATAGTTAATATTTATATATGAACTATA
885826 GTTTACATATGAACTA
59 GTTTACATATGAACTA
885842 TATAT
1 TATAT
885847 ATAAACTATA
Statistics
Matches: 124, Mismatches: 14, Indels: 29
0.74 0.08 0.17
Matches are distributed among these distances:
67 34 0.27
68 1 0.01
69 2 0.02
70 5 0.04
71 4 0.03
72 1 0.01
73 4 0.03
74 3 0.02
75 2 0.02
76 2 0.02
77 2 0.02
78 14 0.11
79 4 0.03
80 46 0.37
ACGTcount: A:0.42, C:0.08, G:0.06, T:0.44
Consensus pattern (74 bp):
TATATTTTATACTATATATATAAACTATAGTATAGTTAATATTTATATATGAACTATAGTTTACA
TATGAACTA
Found at i:885755 original size:18 final size:18
Alignment explanation
Indices: 885729--885843 Score: 97
Period size: 18 Copynumber: 5.9 Consensus size: 18
885719 AAGGTTGATA
*
885729 TTTATATATGAACTATAG
1 TTTACATATGAACTATAG
*
885747 TTTACATATAAACTATATAG
1 TTTACATATGAAC--TATAG
*
885767 TTTATATACT-AACTATAG
1 TTTACATA-TGAACTATAG
*
885785 TTTACATATAAACTATAG
1 TTTACATATGAACTATAG
*
885803 TTAATATTTATATATGAACTATAG
1 ------TTTACATATGAACTATAG
885827 TTTACATATGAACTATA
1 TTTACATATGAACTATA
885844 TATATAAACT
Statistics
Matches: 80, Mismatches: 7, Indels: 20
0.75 0.07 0.19
Matches are distributed among these distances:
17 1 0.01
18 47 0.59
20 15 0.19
21 1 0.01
24 16 0.20
ACGTcount: A:0.42, C:0.09, G:0.07, T:0.43
Consensus pattern (18 bp):
TTTACATATGAACTATAG
Found at i:885771 original size:38 final size:39
Alignment explanation
Indices: 885726--885848 Score: 178
Period size: 38 Copynumber: 3.1 Consensus size: 39
885716 ACTAAGGTTG
885726 ATATTTATATATGAACTATAGTTTACATATAAACTATAT
1 ATATTTATATATGAACTATAGTTTACATATAAACTATAT
*
885765 A-GTTTATATACT-AACTATAGTTTACATATAAACTATAGTT
1 ATATTTATATA-TGAACTATAGTTTACATATAAACTATA--T
*
885805 AATATTTATATATGAACTATAGTTTACATATGAACTATAT
1 -ATATTTATATATGAACTATAGTTTACATATAAACTATAT
885845 ATAT
1 ATAT
885849 AAACTATATA
Statistics
Matches: 75, Mismatches: 3, Indels: 12
0.83 0.03 0.13
Matches are distributed among these distances:
38 33 0.44
39 6 0.08
40 2 0.03
41 2 0.03
42 32 0.43
ACGTcount: A:0.42, C:0.08, G:0.07, T:0.43
Consensus pattern (39 bp):
ATATTTATATATGAACTATAGTTTACATATAAACTATAT
Found at i:885848 original size:31 final size:32
Alignment explanation
Indices: 885811--885961 Score: 103
Period size: 33 Copynumber: 4.7 Consensus size: 32
885801 AGTTAATATT
* *
885811 TATATATGAAC-TATAGTTTACATATGAACTA
1 TATATATAAACATATAGTTTACACATGAACTA
*
885842 TATATATAAACTATATAGTTTACACATGACCTA
1 TATATATAAAC-ATATAGTTTACACATGAACTA
* * * **
885875 TATATATATATATATATA-TATATACTAT-AGTTGA
1 TATATATA-A-ACATATAGTTTACAC-ATGAACT-A
* * * *
885909 TATTTATATACTATATAGTTTACATATGACCTA
1 TATATATAAAC-ATATAGTTTACACATGAACTA
*
885942 TATATATATAC-TATAGTTTA
1 TATATATAAACATATAGTTTA
885962 GATTTATATA
Statistics
Matches: 94, Mismatches: 17, Indels: 18
0.73 0.13 0.14
Matches are distributed among these distances:
31 19 0.20
32 1 0.01
33 51 0.54
34 22 0.23
35 1 0.01
ACGTcount: A:0.41, C:0.09, G:0.07, T:0.43
Consensus pattern (32 bp):
TATATATAAACATATAGTTTACACATGAACTA
Found at i:885880 original size:2 final size:2
Alignment explanation
Indices: 885873--886012 Score: 81
Period size: 2 Copynumber: 67.0 Consensus size: 2
885863 ACACATGACC
*
885873 TA TA TA TA TA TA TA TA TA TA TA TA TA CTA TA GT- TGA TA TT TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA -TA T-A TA TA TA
* * ** *
885915 TA TA CTA TA TA GTT TA CA TA TGA CC TA TA TA TA TA TA CTA TA GTT
1 TA TA -TA TA TA -TA TA TA TA T-A TA TA TA TA TA TA TA -TA TA -TA
* * *
885960 TA GA TT TA TA TA T- TA TA TA -A TA TA TA TA TA AA CTA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA
886001 -A TA TA TA GTA TA
1 TA TA TA TA -TA TA
886013 ATTTACATAT
Statistics
Matches: 106, Mismatches: 18, Indels: 28
0.70 0.12 0.18
Matches are distributed among these distances:
1 4 0.04
2 88 0.83
3 14 0.13
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.46
Consensus pattern (2 bp):
TA
Found at i:885895 original size:80 final size:79
Alignment explanation
Indices: 885726--885906 Score: 205
Period size: 80 Copynumber: 2.3 Consensus size: 79
885716 ACTAAGGTTG
*
885726 ATAT-TTATATATGAACTATAGTTTACATATAAACTATATAGTTTATATACTAACTATAGTTTAC
1 ATATATTATATATGAACTATAGTTTACATATAAACTATATA--TTATAAACTAACTATAGTTTAC
* *
885790 ATATAAACTATAGTTA
64 ACATAAACTATAATTA
*
885806 ATAT-TTATATATGAACTATAGTTTACATATGAACTATATA-TATAAACT-A-TATAGTTTACAC
1 ATATATTATATATGAACTATAGTTTACATATAAACTATATATTATAAACTAACTATAGTTTACAC
* *
885867 ATGACCTAT-ATATA
66 ATAAACTATAAT-TA
885881 TATATATATATATAT-ATACTATAGTT
1 -ATATAT-TATATATGA-ACTATAGTT
885907 GATATTTATA
Statistics
Matches: 90, Mismatches: 6, Indels: 12
0.83 0.06 0.11
Matches are distributed among these distances:
74 1 0.01
75 20 0.22
76 5 0.06
77 9 0.10
78 16 0.18
80 39 0.43
ACGTcount: A:0.43, C:0.09, G:0.06, T:0.43
Consensus pattern (79 bp):
ATATATTATATATGAACTATAGTTTACATATAAACTATATATTATAAACTAACTATAGTTTACAC
ATAAACTATAATTA
Found at i:885943 original size:100 final size:91
Alignment explanation
Indices: 885790--886034 Score: 266
Period size: 87 Copynumber: 2.6 Consensus size: 91
885780 TATAGTTTAC
885790 ATATAAACTATAGTTAATATTTATATATGAACTATAGTTTACATATGAACTATATATATAAACTA
1 ATATAAACTATAGTT-ATATTTATATAT--A-TATAGTTTACATATGAACTATATATATAAAC--
885855 TATAGTTTACACATGACCTATATATATATATATATAT
60 TATAGTTTACA-ATGA--TATAT-TATATA-ATATAT
* * *
885892 ATATATACTATAGTTGATATTTATATACTATATAGTTTACATATGACCTATATATATATACTATA
1 ATATAAACTATAGTT-ATATTTATATA-TATATAGTTTACATATGAACTATATATATAAACTATA
* * *
885957 GTTTAGATTTATATATTATATAATATAT
64 GTTTACAATGATATATTATATAATATAT
*
885985 ATATAAACTATA--TATA---ATATATAGTATAATTTACATATGAACTATATATA
1 ATATAAACTATAGTTATATTTATATATA-TATAGTTTACATATGAACTATATATA
886035 AAAATCCTAA
Statistics
Matches: 131, Mismatches: 10, Indels: 19
0.82 0.06 0.12
Matches are distributed among these distances:
86 2 0.02
87 29 0.22
90 3 0.02
91 1 0.01
93 17 0.13
94 6 0.05
95 5 0.04
97 2 0.02
98 10 0.08
100 29 0.22
101 1 0.01
102 25 0.19
103 1 0.01
ACGTcount: A:0.44, C:0.07, G:0.06, T:0.43
Consensus pattern (91 bp):
ATATAAACTATAGTTATATTTATATATATATAGTTTACATATGAACTATATATATAAACTATAGT
TTACAATGATATATTATATAATATAT
Found at i:885949 original size:53 final size:53
Alignment explanation
Indices: 885874--886009 Score: 161
Period size: 53 Copynumber: 2.6 Consensus size: 53
885864 CACATGACCT
* * *
885874 ATATATATATATA-TATATATATATACTATAGTTGATATTTATATACTATATA
1 ATATACATATAAACTATATATATATACTATAGTTGAGATTTATATACTATATA
* * * * * *
885926 GTTTACATATGACCTATATATATATACTATAGTTTAGATTTATATATTATATA
1 ATATACATATAAACTATATATATATACTATAGTTGAGATTTATATACTATATA
*
885979 ATATATATATAAACTATATATA-ATA-TATAGT
1 ATATACATATAAACTATATATATATACTATAGT
886010 ATAATTTACA
Statistics
Matches: 69, Mismatches: 14, Indels: 3
0.80 0.16 0.03
Matches are distributed among these distances:
51 6 0.09
52 10 0.14
53 53 0.77
ACGTcount: A:0.43, C:0.05, G:0.05, T:0.46
Consensus pattern (53 bp):
ATATACATATAAACTATATATATATACTATAGTTGAGATTTATATACTATATA
Found at i:885950 original size:33 final size:33
Alignment explanation
Indices: 885822--885956 Score: 150
Period size: 33 Copynumber: 4.1 Consensus size: 33
885812 ATATATGAAC
* *
885822 TATAGTTTACATATGAACTATATATATAAACTA
1 TATAGTTTACATATGACCTATATATATATACTA
*
885855 TATAGTTTACACATGACCTATATATATATA-TA
1 TATAGTTTACATATGACCTATATATATATACTA
* ** *
885887 TATA-TATATATACTAT-AGTTGATATTTATATACTA
1 TATAGT-T-TACA-TATGACCT-ATATATATATACTA
885922 TATAGTTTACATATGACCTATATATATATACTA
1 TATAGTTTACATATGACCTATATATATATACTA
885955 TA
1 TA
885957 GTTTAGATTT
Statistics
Matches: 83, Mismatches: 12, Indels: 14
0.76 0.11 0.13
Matches are distributed among these distances:
31 1 0.01
32 7 0.08
33 50 0.60
34 17 0.20
35 7 0.08
36 1 0.01
ACGTcount: A:0.41, C:0.10, G:0.06, T:0.43
Consensus pattern (33 bp):
TATAGTTTACATATGACCTATATATATATACTA
Found at i:885984 original size:67 final size:66
Alignment explanation
Indices: 885840--885989 Score: 191
Period size: 67 Copynumber: 2.3 Consensus size: 66
885830 ACATATGAAC
* *
885840 TATATATATAAACTATATAGTTTACACATGACCTATATATATATATATATATATATATACTATAG
1 TATATATATATACTATATAGTTTACACATGACCTATATATATATATATATATAGATATACTATAG
885905 T
66 T
* * * *
885906 TGATATTTATATACTATATAGTTTACATATGACCTATATATATATACTATAGTTTAGATTTA-TA
1 T-ATATATATATACTATATAGTTTACACATGACCTATATATATATA-TATA-TATAGATATACTA
885970 TA-T
63 TAGT
885973 TATATA-ATATA-TATATA
1 TATATATATATACTATATA
885990 AACTATATAT
Statistics
Matches: 74, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
64 6 0.08
65 5 0.07
66 5 0.07
67 43 0.58
68 8 0.11
69 7 0.09
ACGTcount: A:0.42, C:0.07, G:0.05, T:0.45
Consensus pattern (66 bp):
TATATATATATACTATATAGTTTACACATGACCTATATATATATATATATATAGATATACTATAG
T
Found at i:886005 original size:34 final size:34
Alignment explanation
Indices: 885967--886035 Score: 95
Period size: 34 Copynumber: 2.0 Consensus size: 34
885957 GTTTAGATTT
*
885967 ATATATTA-TATAATATATATATAAACTATATATA
1 ATATA-TAGTATAATATACATATAAACTATATATA
* *
886001 ATATATAGTATAATTTACATATGAACTATATATA
1 ATATATAGTATAATATACATATAAACTATATATA
886035 A
1 A
886036 AAATCCTAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
33 2 0.06
34 29 0.94
ACGTcount: A:0.51, C:0.04, G:0.03, T:0.42
Consensus pattern (34 bp):
ATATATAGTATAATATACATATAAACTATATATA
Found at i:886090 original size:33 final size:33
Alignment explanation
Indices: 886052--886257 Score: 187
Period size: 33 Copynumber: 6.3 Consensus size: 33
886042 TAAACCCTAG
886052 ACTATACATTATATAGTTTATTAGTATATATAA
1 ACTATACATTATATAGTTTATTAGTATATATAA
* ** *
886085 ACTATATAATATATATAGACTATATGGTATATATAA
1 ACTATA-CAT-TATATAGTTTAT-TAGTATATATAA
886121 ACTATACATTATATA-TAATTCATTAGTATATATAA
1 ACTATACATTATATAGT--TT-ATTAGTATATATAA
* *
886156 ACTATATATTATATAGTTCATTAGTATATAT-A
1 ACTATACATTATATAGTTTATTAGTATATATAA
* * *
886188 AC----C--TATATAGTATA-TGGTATATACAA
1 ACTATACATTATATAGTTTATTAGTATATATAA
* *
886214 ACTATATATTATATAGTTCATTAGTATATATAA
1 ACTATACATTATATAGTTTATTAGTATATATAA
*
886247 ACTATATATTA
1 ACTATACATTA
886258 ATTTATTAAT
Statistics
Matches: 138, Mismatches: 20, Indels: 30
0.73 0.11 0.16
Matches are distributed among these distances:
25 8 0.06
26 12 0.09
32 12 0.09
33 39 0.28
34 9 0.07
35 38 0.28
36 20 0.14
ACGTcount: A:0.44, C:0.07, G:0.06, T:0.43
Consensus pattern (33 bp):
ACTATACATTATATAGTTTATTAGTATATATAA
Found at i:886099 original size:18 final size:18
Alignment explanation
Indices: 886073--886202 Score: 119
Period size: 18 Copynumber: 7.4 Consensus size: 18
886063 TATAGTTTAT
886073 TAGTATATATAAACTATA
1 TAGTATATATAAACTATA
* *
886091 TAATATATATAGACTATA
1 TAGTATATATAAACTATA
*
886109 TGGTATATATAAACTATA
1 TAGTATATATAAACTATA
* * *
886127 CATTATATAT-AATTCAT-
1 TAGTATATATAAACT-ATA
886144 TAGTATATATAAACTATA
1 TAGTATATATAAACTATA
**
886162 TA-T-TATAT-AGTTCAT-
1 TAGTATATATAAACT-ATA
*
886177 TAGTATATATAACCTATA
1 TAGTATATATAAACTATA
886195 TAGTATAT
1 TAGTATAT
886203 GGTATATACA
Statistics
Matches: 88, Mismatches: 16, Indels: 16
0.73 0.13 0.13
Matches are distributed among these distances:
15 4 0.05
16 8 0.09
17 21 0.24
18 55 0.62
ACGTcount: A:0.45, C:0.07, G:0.06, T:0.42
Consensus pattern (18 bp):
TAGTATATATAAACTATA
Found at i:886152 original size:17 final size:17
Alignment explanation
Indices: 886130--886188 Score: 61
Period size: 17 Copynumber: 3.5 Consensus size: 17
886120 AACTATACAT
886130 TATATATAATTCATTAG
1 TATATATAATTCATTAG
*
886147 TATATATAA-AC-TATA-
1 TATATATAATTCAT-TAG
*
886162 TATTATATAGTTCATTAG
1 TA-TATATAATTCATTAG
886180 TATATATAA
1 TATATATAA
886189 CCTATATAGT
Statistics
Matches: 33, Mismatches: 4, Indels: 10
0.70 0.09 0.21
Matches are distributed among these distances:
15 3 0.09
16 9 0.27
17 18 0.55
18 3 0.09
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.46
Consensus pattern (17 bp):
TATATATAATTCATTAG
Found at i:886218 original size:25 final size:25
Alignment explanation
Indices: 886179--886227 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
886169 TAGTTCATTA
* *
886179 GTATATATAACCTATATAGTATATG
1 GTATATACAAACTATATAGTATATG
*
886204 GTATATACAAACTATATATTATAT
1 GTATATACAAACTATATAGTATAT
886228 AGTTCATTAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.43, C:0.08, G:0.08, T:0.41
Consensus pattern (25 bp):
GTATATACAAACTATATAGTATATG
Found at i:886298 original size:26 final size:25
Alignment explanation
Indices: 886241--886298 Score: 64
Period size: 26 Copynumber: 2.3 Consensus size: 25
886231 TCATTAGTAT
* **
886241 ATATAAACTATATATTAATTTATTA
1 ATATAAACTATATATTAATTAAAGA
886266 ATATAAACATATATATTAATTGAAAGA
1 ATATAAAC-TATATATTAATT-AAAGA
886293 AT-TAAA
1 ATATAAA
886299 AAAATATAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 8 0.29
26 16 0.57
27 4 0.14
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.40
Consensus pattern (25 bp):
ATATAAACTATATATTAATTAAAGA
Found at i:888997 original size:14 final size:14
Alignment explanation
Indices: 888978--889024 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 14
888968 ATTTTTTCTT
888978 TATATAAATTAAAC
1 TATATAAATTAAAC
888992 TATAT-AATT----
1 TATATAAATTAAAC
889001 TATATAAATTAAAC
1 TATATAAATTAAAC
*
889015 TATATTAATT
1 TATATAAATT
889025 TTCATTTGTA
Statistics
Matches: 27, Mismatches: 1, Indels: 10
0.71 0.03 0.26
Matches are distributed among these distances:
9 5 0.19
10 4 0.15
13 4 0.15
14 14 0.52
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (14 bp):
TATATAAATTAAAC
Found at i:889002 original size:23 final size:24
Alignment explanation
Indices: 888976--889025 Score: 93
Period size: 23 Copynumber: 2.1 Consensus size: 24
888966 TTATTTTTTC
888976 TTTATATAAATTAAACTATA-TAA
1 TTTATATAAATTAAACTATATTAA
888999 TTTATATAAATTAAACTATATTAA
1 TTTATATAAATTAAACTATATTAA
889023 TTT
1 TTT
889026 TCATTTGTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 20 0.77
24 6 0.23
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (24 bp):
TTTATATAAATTAAACTATATTAA
Found at i:889326 original size:16 final size:16
Alignment explanation
Indices: 889294--889348 Score: 83
Period size: 16 Copynumber: 3.4 Consensus size: 16
889284 CGGATCATTT
* *
889294 ACAGGTCATGTTAAAA
1 ACAGGTCAGGTTGAAA
*
889310 ACATGTCAGGTTGAAA
1 ACAGGTCAGGTTGAAA
889326 ACAGGTCAGGTTGAAA
1 ACAGGTCAGGTTGAAA
889342 ACAGGTC
1 ACAGGTC
889349 GGGTAATACC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.38, C:0.15, G:0.25, T:0.22
Consensus pattern (16 bp):
ACAGGTCAGGTTGAAA
Found at i:903911 original size:15 final size:16
Alignment explanation
Indices: 903893--903926 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
903883 CATTAACTTA
*
903893 TTAAT-ATCTTTTATT
1 TTAATCATCATTTATT
903908 TTAATCATCATTTATT
1 TTAATCATCATTTATT
903924 TTA
1 TTA
903927 TAAAAGTGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.29, C:0.09, G:0.00, T:0.62
Consensus pattern (16 bp):
TTAATCATCATTTATT
Found at i:904621 original size:29 final size:29
Alignment explanation
Indices: 904588--904672 Score: 125
Period size: 29 Copynumber: 2.9 Consensus size: 29
904578 TCCCAACACA
904588 TAGGTCGCCATGCCCTCCGGGCGACCTTG
1 TAGGTCGCCATGCCCTCCGGGCGACCTTG
** *
904617 TAGGTCGCCATGCCCTCTAGGCGATCTTG
1 TAGGTCGCCATGCCCTCCGGGCGACCTTG
* *
904646 TAGGTCGCCATGCACTCCGAGCGACCT
1 TAGGTCGCCATGCCCTCCGGGCGACCT
904673 ACCCTCGCTC
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 48 1.00
ACGTcount: A:0.14, C:0.35, G:0.28, T:0.22
Consensus pattern (29 bp):
TAGGTCGCCATGCCCTCCGGGCGACCTTG
Found at i:904717 original size:33 final size:33
Alignment explanation
Indices: 904676--904760 Score: 109
Period size: 33 Copynumber: 2.6 Consensus size: 33
904666 GCGACCTACC
*
904676 CTCGCTCGGCTT-CCCTCGGATTCCCTCGCATAG
1 CTCGCTCGG-TTGCCCTCGGATGCCCTCGCATAG
*
904709 CTCGCTCGGTTGTCCTCGGATGCCCTCGCATAG
1 CTCGCTCGGTTGCCCTCGGATGCCCTCGCATAG
* * *
904742 CTCGTTCGGATGGCCTCGG
1 CTCGCTCGGTTGCCCTCGG
904761 TCGGATGGCC
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
32 2 0.04
33 44 0.96
ACGTcount: A:0.08, C:0.38, G:0.27, T:0.27
Consensus pattern (33 bp):
CTCGCTCGGTTGCCCTCGGATGCCCTCGCATAG
Found at i:904764 original size:14 final size:14
Alignment explanation
Indices: 904742--904788 Score: 85
Period size: 14 Copynumber: 3.4 Consensus size: 14
904732 CCTCGCATAG
*
904742 CTCGTTCGGATGGC
1 CTCGGTCGGATGGC
904756 CTCGGTCGGATGGC
1 CTCGGTCGGATGGC
904770 CTCGGTCGGATGGC
1 CTCGGTCGGATGGC
904784 CTCGG
1 CTCGG
904789 ATGCTCTCGG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
14 32 1.00
ACGTcount: A:0.06, C:0.30, G:0.40, T:0.23
Consensus pattern (14 bp):
CTCGGTCGGATGGC
Found at i:904774 original size:10 final size:10
Alignment explanation
Indices: 904775--904828 Score: 67
Period size: 10 Copynumber: 5.4 Consensus size: 10
904765 ATGGCCTCGG
904775 TCGGATGGCC
1 TCGGATGGCC
904785 TCGGAT-GCTC
1 TCGGATGGC-C
904795 TCGGATGGCC
1 TCGGATGGCC
904805 TCGGAT-GCTC
1 TCGGATGGC-C
*
904815 TCGGATGGCA
1 TCGGATGGCC
904825 TCGG
1 TCGG
904829 TCGGATGGCC
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
9 4 0.10
10 31 0.79
11 4 0.10
ACGTcount: A:0.11, C:0.28, G:0.37, T:0.24
Consensus pattern (10 bp):
TCGGATGGCC
Found at i:904800 original size:20 final size:20
Alignment explanation
Indices: 904775--904828 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
904765 ATGGCCTCGG
904775 TCGGATGGCCTCGGATGCTC
1 TCGGATGGCCTCGGATGCTC
904795 TCGGATGGCCTCGGATGCTC
1 TCGGATGGCCTCGGATGCTC
*
904815 TCGGATGGCATCGG
1 TCGGATGGCCTCGG
904829 TCGGATGGCC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.11, C:0.28, G:0.37, T:0.24
Consensus pattern (20 bp):
TCGGATGGCCTCGGATGCTC
Found at i:904811 original size:30 final size:34
Alignment explanation
Indices: 904724--904845 Score: 92
Period size: 34 Copynumber: 3.5 Consensus size: 34
904714 TCGGTTGTCC
* * * *
904724 TCGGATGCCCTCGCATAGCTCGTTCGGATGGCCTCGG
1 TCGGATGGCCTCGGATGGCTC--TCGGATGGCATC-G
904761 TCGGATGGCCTCGGTCGGATGGC-CTCGGAT-GC-TC-
1 TCGGATGG-C-C--TCGGATGGCTCTCGGATGGCATCG
904795 TCGGATGGCCTCGGAT-GCTCTCGGATGGCATCGG
1 TCGGATGGCCTCGGATGGCTCTCGGATGGCATC-G
*
904829 TCGGATGGCCTCAGATG
1 TCGGATGGCCTCGGATG
904846 CCCAGCGTGT
Statistics
Matches: 71, Mismatches: 4, Indels: 22
0.73 0.04 0.23
Matches are distributed among these distances:
29 2 0.03
30 13 0.18
31 2 0.03
32 3 0.04
33 1 0.01
34 23 0.32
36 2 0.03
37 9 0.13
38 7 0.10
39 1 0.01
40 1 0.01
41 7 0.10
ACGTcount: A:0.11, C:0.29, G:0.36, T:0.24
Consensus pattern (34 bp):
TCGGATGGCCTCGGATGGCTCTCGGATGGCATCG
Found at i:904922 original size:29 final size:29
Alignment explanation
Indices: 904885--904942 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
904875 GCAATCTCTT
* *
904885 GTAGCTCGCCGGGAAGACATGGCGACCTA
1 GTAGCTCGCCCGGAAGACATGACGACCTA
* *
904914 GTAGGTCGCCCGGAAGGCATGACGACCTA
1 GTAGCTCGCCCGGAAGACATGACGACCTA
904943 CGGCCAACAC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.24, C:0.28, G:0.34, T:0.14
Consensus pattern (29 bp):
GTAGCTCGCCCGGAAGACATGACGACCTA
Found at i:908667 original size:43 final size:43
Alignment explanation
Indices: 908543--908668 Score: 153
Period size: 43 Copynumber: 2.9 Consensus size: 43
908533 TTTGCATCAA
* * * * * *
908543 AAAAACGCCACTAAATCTCAAAACTTATTGCGGAGTTTGTAAT
1 AAAAACGCCGCTAAATATCAACACCTATTGCGGAGTTTTTAAG
* *
908586 AAAAACACCGCTAAATATCAACACCTATTGCGGCGTTTTTAAG
1 AAAAACGCCGCTAAATATCAACACCTATTGCGGAGTTTTTAAG
* * *
908629 ACAAACGCCGCTAAATATCAGCACCTATTGCGGTGTTTTT
1 AAAAACGCCGCTAAATATCAACACCTATTGCGGAGTTTTT
908669 CGTTAACAAA
Statistics
Matches: 71, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 71 1.00
ACGTcount: A:0.35, C:0.22, G:0.15, T:0.28
Consensus pattern (43 bp):
AAAAACGCCGCTAAATATCAACACCTATTGCGGAGTTTTTAAG
Found at i:910098 original size:43 final size:43
Alignment explanation
Indices: 910050--910151 Score: 118
Period size: 43 Copynumber: 2.4 Consensus size: 43
910040 CGTTTTTTTT
*
910050 AAAACGCCGCAATAGG-TTACAACATATAGCGGCGTTT-TCTGA
1 AAAACGCCGCAATAGGATT-CAACATATAGCGGCGTTTGTCAGA
**** *
910092 ACAAACGCCGCAATAGGATTTGTTATTTAGCGGCGTTTGTCAGA
1 A-AAACGCCGCAATAGGATTCAACATATAGCGGCGTTTGTCAGA
910136 AAAACGCCGCAATAGG
1 AAAACGCCGCAATAGG
910152 CGTTGATGTT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
42 1 0.02
43 43 0.84
44 7 0.14
ACGTcount: A:0.32, C:0.21, G:0.24, T:0.24
Consensus pattern (43 bp):
AAAACGCCGCAATAGGATTCAACATATAGCGGCGTTTGTCAGA
Found at i:910170 original size:43 final size:42
Alignment explanation
Indices: 910079--910189 Score: 132
Period size: 43 Copynumber: 2.6 Consensus size: 42
910069 CAACATATAG
* * * *
910079 CGGCGTTTTCTGAACAAACGCCGCAATAGGATTTGTTATTTAG
1 CGGCGTTTTCAGAA-AAACGCCGCAATAGGAGTTGATATTTAA
* *
910122 CGGCGTTTGTCAGAAAAACGCCGCAATAGGCGTTGATGTTTAA
1 CGGCGTTT-TCAGAAAAACGCCGCAATAGGAGTTGATATTTAA
* *
910165 TGGCGTTTTTAGAAAAACGCCGCAA
1 CGGCGTTTTCAGAAAAACGCCGCAA
910190 ATGGTTTGAG
Statistics
Matches: 59, Mismatches: 8, Indels: 3
0.84 0.11 0.04
Matches are distributed among these distances:
42 16 0.27
43 38 0.64
44 5 0.08
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (42 bp):
CGGCGTTTTCAGAAAAACGCCGCAATAGGAGTTGATATTTAA
Found at i:910542 original size:21 final size:21
Alignment explanation
Indices: 910518--910573 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 21
910508 GCTGATATGT
* *
910518 TGCTTCTCTCTGTGCTGCCGC
1 TGCTTCTCTCTCTGCTGCCAC
* *
910539 TGCTTCTTTCTCTGCTTCCAC
1 TGCTTCTCTCTCTGCTGCCAC
*
910560 TGCTGCTCTCTCTG
1 TGCTTCTCTCTCTG
910574 ATTCCCTTGC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.02, C:0.38, G:0.18, T:0.43
Consensus pattern (21 bp):
TGCTTCTCTCTCTGCTGCCAC
Found at i:910578 original size:21 final size:21
Alignment explanation
Indices: 910538--910578 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
910528 TGTGCTGCCG
* * *
910538 CTGCTTCTTTCTCTGCTTCCA
1 CTGCTGCTCTCTCTGATTCCA
910559 CTGCTGCTCTCTCTGATTCC
1 CTGCTGCTCTCTCTGATTCC
910579 CTTGCTTCAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.05, C:0.39, G:0.12, T:0.44
Consensus pattern (21 bp):
CTGCTGCTCTCTCTGATTCCA
Found at i:912689 original size:223 final size:220
Alignment explanation
Indices: 912269--912717 Score: 846
Period size: 222 Copynumber: 2.0 Consensus size: 220
912259 ACTCTCTTAA
912269 TTGCAACGACTCAAGAAAAAAACAGTAGAGAAATGCCACAAATGTAGTATTCACTGGTTAGGAGA
1 TTGC-ACGACTCAAGAAAAAAACAGTAGAGAAATGCCACAAATGTAGTATTCACTGGTTAGGAGA
912334 AATAAAAATCCTGAATAACAAACACAAATGCAAATCAAACATAAGTACAAGACTAAACATTAACA
65 AATAAAAATCCTGAATAACAAACACAAATGCAAATCAAACATAAGTACAAGACTAAACATTAACA
912399 AATTAAAATAAAACAACTGTGTATATCTATACAAATTTAAGATCTCTGCTCAACAACTGTGGATA
130 AATTAAAATAAAACAACTGTGTATATCTATACAAATTTAAGATCTCTGCTCAACAACTGTGG--A
912464 TATATATAAATACCACAATAAAAAGCTC
193 TATATATAAATACCACAATAAAAAGCTC
912492 TTGCACGACTCAAGAAAAAAACAGTAGAGAAATGCCACAAATGTAGTATTCACTGGTTAGGAGAA
1 TTGCACGACTCAAGAAAAAAACAGTAGAGAAATGCCACAAATGTAGTATTCACTGGTTAGGAGAA
912557 ATAAAAATCCTGAATTAACAAACACAAATGCAAATCAAACATAAGTACAAGACTAAACATTAACA
66 ATAAAAATCCTGAA-TAACAAACACAAATGCAAATCAAACATAAGTACAAGACTAAACATTAACA
912622 AATTTAAAATAAAACAACTGTGTATATCTATACAAATTTAAGATCT-TGCTCAACAACTGTGGAT
130 AA-TTAAAATAAAACAACTGTGTATATCTATACAAATTTAAGATCTCTGCTCAACAACTGTGGAT
912686 ATATATAAATACCACAATAAAAAGCTC
194 ATATATAAATACCACAATAAAAAGCTC
912713 TTGCA
1 TTGCA
912718 GGTTAGTTTG
Statistics
Matches: 224, Mismatches: 0, Indels: 6
0.97 0.00 0.03
Matches are distributed among these distances:
221 34 0.15
222 75 0.33
223 72 0.32
224 43 0.19
ACGTcount: A:0.48, C:0.16, G:0.12, T:0.23
Consensus pattern (220 bp):
TTGCACGACTCAAGAAAAAAACAGTAGAGAAATGCCACAAATGTAGTATTCACTGGTTAGGAGAA
ATAAAAATCCTGAATAACAAACACAAATGCAAATCAAACATAAGTACAAGACTAAACATTAACAA
ATTAAAATAAAACAACTGTGTATATCTATACAAATTTAAGATCTCTGCTCAACAACTGTGGATAT
ATATAAATACCACAATAAAAAGCTC
Found at i:915598 original size:41 final size:44
Alignment explanation
Indices: 915552--915632 Score: 107
Period size: 41 Copynumber: 1.9 Consensus size: 44
915542 CGATTGTTAT
* *
915552 AAACGCCATTAATAA-AC-AAT-TTTTGCGGCGTTT-TTATTTAA
1 AAACGCCAATAA-AATACAAATATTTTACGGCGTTTGTTATTTAA
915593 AAACGCCAATAAAATACAAATATTTTACGGCGTTTGTTAT
1 AAACGCCAATAAAATACAAATATTTTACGGCGTTTGTTAT
915633 AAGAACGCGA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
40 2 0.06
41 13 0.38
42 3 0.09
43 12 0.35
44 4 0.12
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.36
Consensus pattern (44 bp):
AAACGCCAATAAAATACAAATATTTTACGGCGTTTGTTATTTAA
Found at i:915666 original size:42 final size:42
Alignment explanation
Indices: 915492--915727 Score: 152
Period size: 42 Copynumber: 5.7 Consensus size: 42
915482 AATTCACATA
* * * * *
915492 TATTGCGGCGTTTGGTAAAAAAACGCCTCTATATAGTACACC
1 TATTGCGGCGTTTGTTATAAAAACGCCACTATATAATACAAC
* * * *
915534 TATTACGGCGATTGTTAT--AAACGCCATTA-ATAA-ACAAT
1 TATTGCGGCGTTTGTTATAAAAACGCCACTATATAATACAAC
* * *
915572 TTTTGCGGCGTTT-TTATTTAAAAACGCCA--ATAAAATACAAA
1 TATTGCGGCGTTTGTTA--TAAAAACGCCACTATATAATACAAC
* * * *
915613 TATTTTACGGCGTTTGTTATAAGAACGCGACTATATAATACACC
1 TA--TTGCGGCGTTTGTTATAAAAACGCCACTATATAATACAAC
*
915657 TATTGCGGCGTTTG-TA-AAAAACCGCCACTAT-T-ATACTAC
1 TATTGCGGCGTTTGTTATAAAAA-CGCCACTATATAATACAAC
* *
915696 TCATTAGCGGCGTTTATATCTAAAAACGCCAC
1 T-ATT-GCGGCGTTTGT-TATAAAAACGCCAC
915728 AAAATGTGTA
Statistics
Matches: 149, Mismatches: 28, Indels: 33
0.71 0.13 0.16
Matches are distributed among these distances:
37 3 0.02
38 13 0.09
39 11 0.07
40 20 0.13
41 32 0.21
42 34 0.23
43 17 0.11
44 19 0.13
ACGTcount: A:0.34, C:0.19, G:0.15, T:0.31
Consensus pattern (42 bp):
TATTGCGGCGTTTGTTATAAAAACGCCACTATATAATACAAC
Found at i:915966 original size:52 final size:52
Alignment explanation
Indices: 915899--916057 Score: 300
Period size: 52 Copynumber: 3.1 Consensus size: 52
915889 TAACAACAAA
915899 ATACATTATAATTTAGAAACATTAAAGTACTTATGCATAAACAGTCTTCACC
1 ATACATTATAATTTAGAAACATTAAAGTACTTATGCATAAACAGTCTTCACC
*
915951 ATACATTATAATTTAGAAACATTAAAGTACTTATGCATAAACAGTCTTCAAC
1 ATACATTATAATTTAGAAACATTAAAGTACTTATGCATAAACAGTCTTCACC
*
916003 ATACATTATAATTTAGAAATATTAAAGTACTTATGCATAAACAGTCTTCACC
1 ATACATTATAATTTAGAAACATTAAAGTACTTATGCATAAACAGTCTTCACC
916055 ATA
1 ATA
916058 TTGTTCAGTA
Statistics
Matches: 104, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 104 1.00
ACGTcount: A:0.43, C:0.16, G:0.08, T:0.33
Consensus pattern (52 bp):
ATACATTATAATTTAGAAACATTAAAGTACTTATGCATAAACAGTCTTCACC
Found at i:930292 original size:20 final size:21
Alignment explanation
Indices: 930267--930318 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
930257 TTTTCCCAAT
*
930267 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* *
930287 TCGCAACGCGAATTGAGAAAA
1 TCGCAATGCGAATTAAGAAAA
930308 TCGCAATGCGA
1 TCGCAATGCGA
930319 TACTGATTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
20 11 0.41
21 16 0.59
ACGTcount: A:0.40, C:0.19, G:0.23, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:930332 original size:20 final size:20
Alignment explanation
Indices: 930307--930441 Score: 94
Period size: 20 Copynumber: 6.7 Consensus size: 20
930297 AATTGAGAAA
930307 ATCGCAATGCGATACTGATT
1 ATCGCAATGCGATACTGATT
* *
930327 ATCGCAATGCGATACTTACT
1 ATCGCAATGCGATACTGATT
* * **
930347 ATCGCAATGCGATAATACAAA
1 ATCGCAATGCGATACT-GATT
* *
930368 ATCGCAACGAGATACTGACTT
1 ATCGCAATGCGATACTGA-TT
* *
930389 -TCGCAACGCGATTCTGACTT
1 ATCGCAATGCGATACTGA-TT
* * * *
930409 -TCGCAACGCGATAATACATA
1 ATCGCAATGCGATACT-GATT
930429 ATCGCAATGCGAT
1 ATCGCAATGCGAT
930442 TTTCAAAGCG
Statistics
Matches: 92, Mismatches: 19, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
20 66 0.72
21 26 0.28
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.25
Consensus pattern (20 bp):
ATCGCAATGCGATACTGATT
Found at i:930351 original size:61 final size:61
Alignment explanation
Indices: 930286--930441 Score: 190
Period size: 61 Copynumber: 2.6 Consensus size: 61
930276 GAATAAGTAA
* * * *
930286 ATCGCAACGCGA-ATTGAGAAAATCGCAATGCGATACTGA-TTATCGCAATGCGATACTTACT
1 ATCGCAACGCGATAAT-ACAAAATCGCAATGCGATACTGACTT-TCGCAACGCGATACTGACT
* * * *
930347 ATCGCAATGCGATAATACAAAATCGCAACGAGATACTGACTTTCGCAACGCGATTCTGACT
1 ATCGCAACGCGATAATACAAAATCGCAATGCGATACTGACTTTCGCAACGCGATACTGACT
* *
930408 TTCGCAACGCGATAATACATAATCGCAATGCGAT
1 ATCGCAACGCGATAATACAAAATCGCAATGCGAT
930442 TTTCAAAGCG
Statistics
Matches: 80, Mismatches: 13, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
61 76 0.95
62 4 0.05
ACGTcount: A:0.35, C:0.23, G:0.19, T:0.24
Consensus pattern (61 bp):
ATCGCAACGCGATAATACAAAATCGCAATGCGATACTGACTTTCGCAACGCGATACTGACT
Found at i:930635 original size:21 final size:21
Alignment explanation
Indices: 930609--930648 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
930599 CACTCTCTCA
930609 CCCATCTCCGACGAAATCCAT
1 CCCATCTCCGACGAAATCCAT
930630 CCCATCTCCGACGAAATCC
1 CCCATCTCCGACGAAATCC
930649 GTCTATCTCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.28, C:0.45, G:0.10, T:0.17
Consensus pattern (21 bp):
CCCATCTCCGACGAAATCCAT
Found at i:930738 original size:14 final size:15
Alignment explanation
Indices: 930719--930747 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
930709 CCAACGAGGG
930719 TTATTTT-TTTTTAA
1 TTATTTTCTTTTTAA
930733 TTATTTTCTTTTTAA
1 TTATTTTCTTTTTAA
930748 AATTTTTGCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (15 bp):
TTATTTTCTTTTTAA
Found at i:930882 original size:19 final size:19
Alignment explanation
Indices: 930858--930904 Score: 94
Period size: 19 Copynumber: 2.5 Consensus size: 19
930848 ATCAACCGAG
930858 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
930877 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
930896 AATCGCAAC
1 AATCGCAAC
930905 ACGGTTTTAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.47, C:0.23, G:0.19, T:0.11
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:930988 original size:20 final size:20
Alignment explanation
Indices: 930934--930992 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
930924 GCGATTCTCT
**
930934 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCATTTTCG
930954 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
* **
930974 TGTTGCGATTTTCATTTTC
1 CGTTGCGATAGTCATTTTC
930993 AGAAACTATT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.17, C:0.19, G:0.22, T:0.42
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTTCG
Found at i:932322 original size:18 final size:18
Alignment explanation
Indices: 932301--932345 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
932291 TCCACTTCGG
*
932301 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
*
932319 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
*
932337 AAGCCATCA
1 GAGCCATCA
932346 TCTGATCGAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.29, C:0.44, G:0.13, T:0.13
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:932847 original size:20 final size:20
Alignment explanation
Indices: 932822--932867 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
932812 TAGTTTACTT
932822 TCGCAACACGAAAATGACTA
1 TCGCAACACGAAAATGACTA
** * *
932842 TCGCAATGCGGAAATGGCTA
1 TCGCAACACGAAAATGACTA
932862 TCGCAA
1 TCGCAA
932868 TGCGAAAAGA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.37, C:0.24, G:0.22, T:0.17
Consensus pattern (20 bp):
TCGCAACACGAAAATGACTA
Found at i:932868 original size:20 final size:20
Alignment explanation
Indices: 932833--932871 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
932823 CGCAACACGA
932833 AAATGACTATCGCAATGCGG
1 AAATGACTATCGCAATGCGG
*
932853 AAATGGCTATCGCAATGCG
1 AAATGACTATCGCAATGCG
932872 AAAAGAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.33, C:0.21, G:0.26, T:0.21
Consensus pattern (20 bp):
AAATGACTATCGCAATGCGG
Found at i:932883 original size:19 final size:19
Alignment explanation
Indices: 932861--932915 Score: 57
Period size: 19 Copynumber: 3.2 Consensus size: 19
932851 GGAAATGGCT
932861 ATCGCAATGCGAAAAGAAA
1 ATCGCAATGCGAAAAGAAA
*
932880 ATCGCAA--CG---ACAAA
1 ATCGCAATGCGAAAAGAAA
*
932894 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAAAGAAA
932913 ATC
1 ATC
932916 ACAACGACAA
Statistics
Matches: 28, Mismatches: 3, Indels: 10
0.68 0.07 0.24
Matches are distributed among these distances:
14 11 0.39
16 2 0.07
17 2 0.07
19 13 0.46
ACGTcount: A:0.49, C:0.20, G:0.18, T:0.13
Consensus pattern (19 bp):
ATCGCAATGCGAAAAGAAA
Found at i:932903 original size:33 final size:33
Alignment explanation
Indices: 932861--932952 Score: 148
Period size: 33 Copynumber: 2.8 Consensus size: 33
932851 GGAAATGGCT
*
932861 ATCGCAATGCGAAAAGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
932894 ATCGCAATGCGAAATGAAAATCACAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
* *
932927 ATTGCAACGCGAAATGAAAATCGCAA
1 ATCGCAATGCGAAATGAAAATCGCAA
932953 TGTGATTTGT
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 54 1.00
ACGTcount: A:0.50, C:0.21, G:0.17, T:0.12
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:932952 original size:19 final size:18
Alignment explanation
Indices: 932861--932952 Score: 56
Period size: 19 Copynumber: 5.4 Consensus size: 18
932851 GGAAATGGCT
*
932861 ATCGCAATGCGAAAAGAAA
1 ATCGCAA-GCGAAATGAAA
*
932880 ATCGCAA-CG--A-CAAA
1 ATCGCAAGCGAAATGAAA
932894 ATCGCAATGCGAAATGAAA
1 ATCGCAA-GCGAAATGAAA
* *
932913 ATCACAA-CG--A-CAAA
1 ATCGCAAGCGAAATGAAA
*
932927 ATTGCAACGCGAAATGAAA
1 ATCGCAA-GCGAAATGAAA
932946 ATCGCAA
1 ATCGCAA
932953 TGTGATTTGT
Statistics
Matches: 55, Mismatches: 8, Indels: 20
0.66 0.10 0.24
Matches are distributed among these distances:
14 18 0.33
15 2 0.04
16 4 0.07
17 4 0.07
18 2 0.04
19 25 0.45
ACGTcount: A:0.50, C:0.21, G:0.17, T:0.12
Consensus pattern (18 bp):
ATCGCAAGCGAAATGAAA
Found at i:932988 original size:14 final size:14
Alignment explanation
Indices: 932969--933058 Score: 81
Period size: 14 Copynumber: 5.8 Consensus size: 14
932959 TTGTGTTTCG
932969 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
932983 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
932999 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
*
933015 CGTTGCGATTTTCATTT
1 CGTTGCGA-TTT--TGT
933032 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
933048 CGTTGCGATTT
1 CGTTGCGATTT
933059 GCATTTCGCA
Statistics
Matches: 63, Mismatches: 4, Indels: 18
0.74 0.05 0.21
Matches are distributed among these distances:
14 26 0.41
15 3 0.05
16 12 0.19
17 4 0.06
18 12 0.19
19 6 0.10
ACGTcount: A:0.11, C:0.18, G:0.23, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:933033 original size:33 final size:33
Alignment explanation
Indices: 932964--933075 Score: 199
Period size: 33 Copynumber: 3.4 Consensus size: 33
932954 GTGATTTGTG
*
932964 TTTCGCGTTGCGATTTTGTCGTTGCGA-TTTCA
1 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
932996 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
1 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
*
933029 TTTCGCATTGCGATTTTGTCGTTGCGATTTGCA
1 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
933062 TTTCGCATTGCGAT
1 TTTCGCATTGCGAT
933076 AGCCATTTCC
Statistics
Matches: 77, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
32 26 0.34
33 51 0.66
ACGTcount: A:0.12, C:0.19, G:0.23, T:0.46
Consensus pattern (33 bp):
TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
Found at i:933090 original size:20 final size:19
Alignment explanation
Indices: 933060--933115 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 19
933050 TTGCGATTTG
933060 CATTTCGCATTGCGATAGC
1 CATTTCGCATTGCGATAGC
*
933079 CATTTCCGCATTGCGATAGT
1 CATTT-CGCATTGCGATAGC
*
933099 CATTTTCGCGTTGCGAT
1 CA-TTTCGCATTGCGAT
933116 TTTAAGTTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
19 5 0.15
20 25 0.76
21 3 0.09
ACGTcount: A:0.18, C:0.25, G:0.21, T:0.36
Consensus pattern (19 bp):
CATTTCGCATTGCGATAGC
Found at i:934789 original size:23 final size:23
Alignment explanation
Indices: 934763--934807 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
934753 CACCACAGCT
*
934763 CGTATAAATGCACCGAAGTGCCC
1 CGTAGAAATGCACCGAAGTGCCC
* *
934786 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
934808 ATATAATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.29, G:0.24, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCC
Found at i:935056 original size:149 final size:149
Alignment explanation
Indices: 934786--935089 Score: 581
Period size: 149 Copynumber: 2.0 Consensus size: 149
934776 CGAAGTGCCC
*
934786 CGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAATTCTTTAAGAAT
1 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCTTTAAGAAT
934851 CATATACATATGCTAGGGATCAAGTATATGTCTTTCCAGACTTCACACATGTTCCAAAGAATATA
66 CATATACATATGCTAGGGATCAAGTATATGTCTTTCCAGACTTCACACATGTTCCAAAGAATATA
*
934916 CATATGTCCTGAAGAACCG
131 CATATGTCCCGAAGAACCG
934935 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCTTTAAGAAT
1 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCTTTAAGAAT
*
935000 CATATACATATGCTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACATGTTCCAAAGAATATA
66 CATATACATATGCTAGGGATCAAGTATATGTCTTTCCAGACTTCACACATGTTCCAAAGAATATA
935065 CATATGTCCCGAAGAACCG
131 CATATGTCCCGAAGAACCG
935084 CGTAGA
1 CGTAGA
935090 CCCTCGACTC
Statistics
Matches: 152, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
149 152 1.00
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (149 bp):
CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCTTTAAGAAT
CATATACATATGCTAGGGATCAAGTATATGTCTTTCCAGACTTCACACATGTTCCAAAGAATATA
CATATGTCCCGAAGAACCG
Found at i:935972 original size:18 final size:18
Alignment explanation
Indices: 935951--935985 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
935941 TCCCATCTAG
935951 CTTATC-TTATATGTTCAT
1 CTTATCATT-TATGTTCAT
935969 CTTATCATTTATGTTCA
1 CTTATCATTTATGTTCA
935986 AATCTCCTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.23, C:0.17, G:0.06, T:0.54
Consensus pattern (18 bp):
CTTATCATTTATGTTCAT
Found at i:936647 original size:21 final size:21
Alignment explanation
Indices: 936623--936667 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
936613 TCTTGTTCGT
*
936623 TTGAAGGGGTA-TCGGTTCCCC
1 TTGAAGGGGTACT-GATTCCCC
*
936644 TTGAATGGGTACTGATTCCCC
1 TTGAAGGGGTACTGATTCCCC
936665 TTG
1 TTG
936668 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 20 0.95
22 1 0.05
ACGTcount: A:0.16, C:0.22, G:0.29, T:0.33
Consensus pattern (21 bp):
TTGAAGGGGTACTGATTCCCC
Found at i:937892 original size:33 final size:33
Alignment explanation
Indices: 937853--938002 Score: 169
Period size: 33 Copynumber: 4.5 Consensus size: 33
937843 TCGCAACGCG
** *
937853 GAAATGACTATCGCTACGAGAGAATCGCAATAC
1 GAAATGAAAATCGCAACGAGAGAATCGCAATAC
* * * *
937886 GAAATGAAAATCGCAACGCGA-ATTTCGAAATGC
1 GAAATGAAAATCGCAACGAGAGA-ATCGCAATAC
* *
937919 GAAATGAAAATCGCAACGAGGGAATCGCAATGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAATAC
* *
937952 GAAATGAAAATCGTAACGAGGGAATCGCAA-AGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAATA-C
937985 GAAATGAAAATCGCAACG
1 GAAATGAAAATCGCAACG
938003 TGAATTTAGT
Statistics
Matches: 100, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
32 1 0.01
33 98 0.98
34 1 0.01
ACGTcount: A:0.43, C:0.18, G:0.24, T:0.15
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAATAC
Found at i:937959 original size:66 final size:65
Alignment explanation
Indices: 937842--938002 Score: 191
Period size: 66 Copynumber: 2.4 Consensus size: 65
937832 CTTAATGTCT
* ** *
937842 ATCGCAACGCGGAAATGACTATCGCTACGAGAGAATCGCAATACGAAATGAAAATCGCAAC-GCG
1 ATCGCAAAGC-GAAATGAAAATCGCAACGAGAGAATCGCAATACGAAATGAAAATCGCAACAGCG
937906 A
65 A
* * *
937907 ATTTCG-AAATGCGAAATGAAAATCGCAACGAGGGAATCGCAATGCGAAATGAAAATCGTAACGA
1 A--TCGCAAA-GCGAAATGAAAATCGCAACGAGAGAATCGCAATACGAAATGAAAATCGCAAC-A
*
937971 GGGA
62 GCGA
937975 ATCGCAAAGCGAAATGAAAATCGCAACG
1 ATCGCAAAGCGAAATGAAAATCGCAACG
938003 TGAATTTAGT
Statistics
Matches: 82, Mismatches: 8, Indels: 11
0.81 0.08 0.11
Matches are distributed among these distances:
65 1 0.01
66 69 0.84
67 8 0.10
68 4 0.05
ACGTcount: A:0.42, C:0.19, G:0.24, T:0.14
Consensus pattern (65 bp):
ATCGCAAAGCGAAATGAAAATCGCAACGAGAGAATCGCAATACGAAATGAAAATCGCAACAGCGA
Found at i:938175 original size:14 final size:14
Alignment explanation
Indices: 938156--938192 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
938146 CATCAATTAA
938156 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
938170 ACAAATCACCTTTT
1 ACAAATCAACTTTT
938184 ACAAATCAA
1 ACAAATCAA
938193 TTAAACAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:939609 original size:21 final size:21
Alignment explanation
Indices: 939541--939609 Score: 59
Period size: 21 Copynumber: 3.3 Consensus size: 21
939531 ATGTGAATCA
*
939541 GACTCTTGAATGGTGGGA-TG
1 GACTCTTGAACGGTGGGAGTG
* * **
939561 GACCTCTTCAACGATGACAGTG
1 GA-CTCTTGAACGGTGGGAGTG
* *
939583 GCCTCTTGAACGGTGGGAGGG
1 GACTCTTGAACGGTGGGAGTG
939604 GACTCT
1 GACTCT
939610 CGAGGAATGA
Statistics
Matches: 35, Mismatches: 12, Indels: 3
0.70 0.24 0.06
Matches are distributed among these distances:
20 2 0.06
21 30 0.86
22 3 0.09
ACGTcount: A:0.20, C:0.20, G:0.35, T:0.25
Consensus pattern (21 bp):
GACTCTTGAACGGTGGGAGTG
Found at i:939628 original size:42 final size:42
Alignment explanation
Indices: 939582--939661 Score: 106
Period size: 42 Copynumber: 1.9 Consensus size: 42
939572 CGATGACAGT
* * *
939582 GGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGG
1 GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATGATAGG
* * *
939624 GGCCTCTTCAACGATAGGAGTGGACTCTTGAGGGATGA
1 GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATGA
939662 CAGGCGAGTC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 32 1.00
ACGTcount: A:0.23, C:0.17, G:0.39, T:0.21
Consensus pattern (42 bp):
GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATGATAGG
Found at i:939992 original size:93 final size:91
Alignment explanation
Indices: 939883--940067 Score: 275
Period size: 91 Copynumber: 2.0 Consensus size: 91
939873 ATTTCAAACT
* *
939883 TTCAACCAAAAGACAAAA-CAAAA-ACAAATACTAACTTCACAGTGTTAAAGAATACACAGTTTA
1 TTCAACCAAAAGACAAAATAAAAAGACAAATACTAACTTCACAGTGTT----AATAAACAGTTTA
*
939946 GCAGAATTGGCAGCAACCGAATAAATTTAC
62 ACAGAATTGGCAGCAACCGAATAAATTTAC
*
939976 TTCAACCAAAAGACAAAATAAAAAGACAAATATTAACTTCACAGTGTTAATAAACAGTTTAACAG
1 TTCAACCAAAAGACAAAATAAAAAGACAAATACTAACTTCACAGTGTTAATAAACAGTTTAACAG
*
940041 TATTGGCAGCAACCGAATAAATTTAC
66 AATTGGCAGCAACCGAATAAATTTAC
940067 T
1 T
940068 AAGCAATCTA
Statistics
Matches: 85, Mismatches: 5, Indels: 6
0.89 0.05 0.06
Matches are distributed among these distances:
91 41 0.48
93 18 0.21
94 4 0.05
95 22 0.26
ACGTcount: A:0.48, C:0.18, G:0.11, T:0.23
Consensus pattern (91 bp):
TTCAACCAAAAGACAAAATAAAAAGACAAATACTAACTTCACAGTGTTAATAAACAGTTTAACAG
AATTGGCAGCAACCGAATAAATTTAC
Found at i:941773 original size:20 final size:20
Alignment explanation
Indices: 941748--941786 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
941738 TTTTGGTTGA
941748 AATGAAAATCGCAACGAGAT
1 AATGAAAATCGCAACGAGAT
941768 AATGAAAATCGCAACGAGA
1 AATGAAAATCGCAACGAGA
941787 GAATCGCAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.51, C:0.15, G:0.21, T:0.13
Consensus pattern (20 bp):
AATGAAAATCGCAACGAGAT
Found at i:941848 original size:19 final size:19
Alignment explanation
Indices: 941815--941886 Score: 81
Period size: 19 Copynumber: 3.7 Consensus size: 19
941805 AAAATCGCAA
**
941815 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTTATTTCGCGT
941834 TGCGATTTTTATTTCGCGT
1 TGCGATTTTTATTTCGCGT
** *
941853 TGCGATAGTTATTTCCGCAT
1 TGCGATTTTTATTT-CGCGT
*
941873 TGCGATTTTCATTT
1 TGCGATTTTTATTT
941887 TTGAAACTAT
Statistics
Matches: 44, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
19 29 0.66
20 15 0.34
ACGTcount: A:0.12, C:0.17, G:0.22, T:0.49
Consensus pattern (19 bp):
TGCGATTTTTATTTCGCGT
Found at i:942460 original size:20 final size:20
Alignment explanation
Indices: 942417--942613 Score: 107
Period size: 20 Copynumber: 9.7 Consensus size: 20
942407 CGATAGTAAG
*
942417 ATTCGCATTGCGATTTTCCTA
1 ATTCGCATTGCGA-TTTACTA
*
942438 ATTCGCTTTGCGATTTACTA
1 ATTCGCATTGCGATTTACTA
*
942458 ATTCGCGTTGCGATTTACGT-
1 ATTCGCATTGCGATTTAC-TA
*
942478 ATTCGCATTGCGAATTA-TGAA
1 ATTCGCATTGCGATTTACT--A
* ** *
942499 AATCGCAACGCGA-ATACGTA
1 ATTCGCATTGCGATTTAC-TA
* * * **
942519 AATCGCAATGCGAATTAGGAA
1 ATTCGCATTGCGATTTA-CTA
* *
942540 AATCGCATTGCGA--TAGTCA
1 ATTCGCATTGCGATTTACT-A
* * *
942559 GTATCGCATTGCGATTTTCCAA
1 AT-TCGCATTGCGA-TTTACTA
*
942581 ATTCGCATTGCGATTTACTT
1 ATTCGCATTGCGATTTACTA
942601 ATTCGCATTGCGA
1 ATTCGCATTGCGA
942614 ATTGGGAAAA
Statistics
Matches: 139, Mismatches: 24, Indels: 27
0.73 0.13 0.14
Matches are distributed among these distances:
18 2 0.01
19 3 0.02
20 81 0.58
21 49 0.35
22 3 0.02
23 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.34
Consensus pattern (20 bp):
ATTCGCATTGCGATTTACTA
Found at i:942551 original size:21 final size:21
Alignment explanation
Indices: 942480--942657 Score: 96
Period size: 21 Copynumber: 8.6 Consensus size: 21
942470 ATTTACGTAT
*
942480 TCGCATTGCGAATTATGAAAA
1 TCGCATTGCGAATTAGGAAAA
** * *
942501 TCGCAACGCGAA-TACGTAAA
1 TCGCATTGCGAATTAGGAAAA
*
942521 TCGCAATGCGAATTAGGAAAA
1 TCGCATTGCGAATTAGGAAAA
* **
942542 TCGCATTGCG-A-TAGTCAGTA
1 TCGCATTGCGAATTAG-GAAAA
* *** *
942562 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGAATTAGGAAAA
* *** *
942583 TCGCATTGCGATTTA-CTTAT
1 TCGCATTGCGAATTAGGAAAA
*
942603 TCGCATTGCGAATTGGGAAAA
1 TCGCATTGCGAATTAGGAAAA
**
942624 TCGCAACGCGAAATT-GGAAAA
1 TCGCATTGCG-AATTAGGAAAA
*
942645 TCGCATTACGAAT
1 TCGCATTGCGAAT
942658 CTGGAAACTG
Statistics
Matches: 120, Mismatches: 31, Indels: 13
0.73 0.19 0.08
Matches are distributed among these distances:
19 3 0.03
20 49 0.41
21 63 0.52
22 5 0.04
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (21 bp):
TCGCATTGCGAATTAGGAAAA
Found at i:942565 original size:41 final size:41
Alignment explanation
Indices: 942480--942635 Score: 120
Period size: 41 Copynumber: 3.8 Consensus size: 41
942470 ATTTACGTAT
*
942480 TCGCATTGCGAATTATGAAAATCGCAACGCGAATACGTAAA
1 TCGCATTGCGAATTAGGAAAATCGCAACGCGAATACGTAAA
* ** *
942521 TCGCAATGCGAATTAGGAAAATCGCATTGCG-ATA-GTCAGTA
1 TCGCATTGCGAATTAGGAAAATCGCAACGCGAATACGT-A-AA
* *** * ** * * *
942562 TCGCATTGCGATTTTCCAAATTCGCATTGCGATTTAC-TTAT
1 TCGCATTGCGAATTAGGAAAATCGCAACGCGA-ATACGTAAA
*
942603 TCGCATTGCGAATTGGGAAAATCGCAACGCGAA
1 TCGCATTGCGAATTAGGAAAATCGCAACGCGAA
942636 ATTGGAAAAT
Statistics
Matches: 87, Mismatches: 23, Indels: 11
0.72 0.19 0.09
Matches are distributed among these distances:
39 2 0.02
40 4 0.05
41 78 0.90
43 3 0.03
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (41 bp):
TCGCATTGCGAATTAGGAAAATCGCAACGCGAATACGTAAA
Found at i:943328 original size:83 final size:83
Alignment explanation
Indices: 943176--943394 Score: 322
Period size: 83 Copynumber: 2.7 Consensus size: 83
943166 AATTAATTTT
* *
943176 TTTTAATATCTAAATTTAAAC--A-GATAATATCTTTTAAATTTAAAATATTAAATCTAATAGTT
1 TTTTAATATCTAAATTTAAACAAATAATAATATCTTTTAAATTTAAAATATTAAATCTAATAATT
943238 TTACTCCAACTAAACATC
66 TTACTCCAACTAAACATC
*
943256 TTTTAATATTTAAATTTAAACAAATAATAATATCTTTTAAATTTAAAATATTAGAA-CTGAA-AA
1 TTTTAATATCTAAATTTAAACAAATAATAATATCTTTTAAATTTAAAATATTA-AATCT-AATAA
* *
943319 TTTTTCTCCAATTAAACATC
64 TTTTACTCCAACTAAACATC
* *
943339 TTTCAATATCTAAATTTAAACAAATAATAATATCTTTTAAATTTAATATATTAAAT
1 TTTTAATATCTAAATTTAAACAAATAATAATATCTTTTAAATTTAAAATATTAAAT
943395 AGATATACAT
Statistics
Matches: 125, Mismatches: 8, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
80 20 0.16
82 3 0.02
83 98 0.78
84 4 0.03
ACGTcount: A:0.46, C:0.10, G:0.02, T:0.42
Consensus pattern (83 bp):
TTTTAATATCTAAATTTAAACAAATAATAATATCTTTTAAATTTAAAATATTAAATCTAATAATT
TTACTCCAACTAAACATC
Found at i:962283 original size:20 final size:20
Alignment explanation
Indices: 962242--962287 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
962232 AGGCCTCTGA
962242 GTCTCCATACGAAAAAACTG
1 GTCTCCATACGAAAAAACTG
* *
962262 GTCTTCATACCGAAAATA-TG
1 GTCTCCATA-CGAAAAAACTG
962282 GTCTCC
1 GTCTCC
962288 GTACTGGAGG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
20 15 0.68
21 7 0.32
ACGTcount: A:0.33, C:0.26, G:0.15, T:0.26
Consensus pattern (20 bp):
GTCTCCATACGAAAAAACTG
Found at i:962357 original size:21 final size:20
Alignment explanation
Indices: 962295--962357 Score: 74
Period size: 20 Copynumber: 3.1 Consensus size: 20
962285 TCCGTACTGG
*
962295 AGGACTGATATCCATACCAA
1 AGGATTGATATCCATACCAA
962315 A-GATTGAGTATCCATACCAA
1 AGGATTGA-TATCCATACCAA
* *
962335 AGGCTTGATATCAATACCTAA
1 AGGATTGATATCCATACC-AA
962356 AG
1 AG
962358 TGGTTGAGTG
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
19 5 0.14
20 23 0.62
21 9 0.24
ACGTcount: A:0.40, C:0.21, G:0.16, T:0.24
Consensus pattern (20 bp):
AGGATTGATATCCATACCAA
Found at i:968900 original size:12 final size:13
Alignment explanation
Indices: 968883--968912 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
968873 GATCTAGCCA
968883 AAAGAAAAAA-AG
1 AAAGAAAAAACAG
968895 AAAGAAAAAACAG
1 AAAGAAAAAACAG
968908 AAAGA
1 AAAGA
968913 GGCAGGTTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.59
13 7 0.41
ACGTcount: A:0.80, C:0.03, G:0.17, T:0.00
Consensus pattern (13 bp):
AAAGAAAAAACAG
Found at i:974287 original size:2 final size:2
Alignment explanation
Indices: 974282--974307 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
974272 TATTTTTCTA
974282 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
974308 GCTAAACAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:976390 original size:2 final size:2
Alignment explanation
Indices: 976383--976408 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
976373 GTTTACCCTA
976383 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
976409 GACTATTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:978858 original size:2 final size:2
Alignment explanation
Indices: 978851--978903 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
978841 TTTTCATCAA
978851 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT 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
978893 AT AT AT AT AT A
1 AT AT AT AT AT A
978904 GAAGAACAAG
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:979763 original size:2 final size:2
Alignment explanation
Indices: 979756--979818 Score: 126
Period size: 2 Copynumber: 31.5 Consensus size: 2
979746 GTTGTACGGA
979756 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT 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
979798 AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT A
979819 GGATTAATGA
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 61 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:980041 original size:5 final size:5
Alignment explanation
Indices: 980031--980074 Score: 88
Period size: 5 Copynumber: 8.8 Consensus size: 5
980021 TTCCTATGCT
980031 GAAGA GAAGA GAAGA GAAGA GAAGA GAAGA GAAGA GAAGA GAAG
1 GAAGA GAAGA GAAGA GAAGA GAAGA GAAGA GAAGA GAAGA GAAG
980075 GGGAATGAGT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 39 1.00
ACGTcount: A:0.59, C:0.00, G:0.41, T:0.00
Consensus pattern (5 bp):
GAAGA
Found at i:982858 original size:56 final size:56
Alignment explanation
Indices: 982798--982927 Score: 224
Period size: 56 Copynumber: 2.3 Consensus size: 56
982788 CATATTCCTA
*
982798 AGCTTTTCTAAGCTTCACCCTCTCTCTTTAATAGCTTTGTTAAACTATTTTTCATT
1 AGCTTTTCTAAGCTTCACCCTCTCTCTTTAATAGCTTTGCTAAACTATTTTTCATT
*
982854 AGCTTTTCTAAGCTTCACCCTCTCTCTTTAATAGCTTTGCTAAGCTATTTTTCATT
1 AGCTTTTCTAAGCTTCACCCTCTCTCTTTAATAGCTTTGCTAAACTATTTTTCATT
*
982910 GGCTTTTCTAAGCCTTCA
1 AGCTTTTCTAAG-CTTCA
982928 TTTTTTTCTC
Statistics
Matches: 70, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
56 65 0.93
57 5 0.07
ACGTcount: A:0.20, C:0.25, G:0.09, T:0.46
Consensus pattern (56 bp):
AGCTTTTCTAAGCTTCACCCTCTCTCTTTAATAGCTTTGCTAAACTATTTTTCATT
Found at i:985154 original size:21 final size:22
Alignment explanation
Indices: 985121--985161 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
985111 GGTTAAAATA
985121 AAAAATAAGAATTAAATAAAAG
1 AAAAATAAGAATTAAATAAAAG
*
985143 AAAAA-AATAATTAAATAAA
1 AAAAATAAGAATTAAATAAA
985162 CAAATTAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.76, C:0.00, G:0.05, T:0.20
Consensus pattern (22 bp):
AAAAATAAGAATTAAATAAAAG
Found at i:985846 original size:19 final size:19
Alignment explanation
Indices: 985790--985852 Score: 54
Period size: 19 Copynumber: 3.2 Consensus size: 19
985780 CTATTTAAAC
**
985790 TAAAATACCTAAAAAATAAT
1 TAAAATA-CTAAAACCTAAT
* * *
985810 ATAATATTCTAAATCCTAAT
1 -TAAAATACTAAAACCTAAT
*
985830 TAAAATACTAAAACCTATT
1 TAAAATACTAAAACCTAAT
985849 TAAA
1 TAAA
985853 CTAAAATACA
Statistics
Matches: 33, Mismatches: 9, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
19 19 0.58
20 9 0.27
21 5 0.15
ACGTcount: A:0.56, C:0.13, G:0.00, T:0.32
Consensus pattern (19 bp):
TAAAATACTAAAACCTAAT
Found at i:985880 original size:64 final size:68
Alignment explanation
Indices: 985755--985952 Score: 208
Period size: 64 Copynumber: 2.8 Consensus size: 68
985745 TAAAACATCT
* ** *
985755 TAAATCCTAATTAAAACACTTAAAA-CTATTTAAACTAAAATAC--CTA-AAAAAT-AATATAAT
1 TAAATCCTAATTAAAATAC-TAAAACCTATTTAAACTAAAATACAAAGATAAAAATAAAAATAAT
*
985815 ATTC
65 ATCC
985819 TAAATCCTAATTAAAATACTAAAACCTATTTAAACTAAAATACAAAGATAAAGATAAAATATAAA
1 TAAATCCTAATTAAAATACTAAAACCTATTTAAACTAAAATAC------AAAGATAAAA-ATAAA
985884 AATAATATCC
59 AATAATATCC
* *
985894 TAAAACTTAATTAAAATACTAAAAACCTATTTAAACTAAAATACAAAGATAAAATATAA
1 TAAATCCTAATTAAAATACT-AAAACCTATTTAAACTAAAATACAAAGATAAAA-ATAA
985953 TTTTTAAAAT
Statistics
Matches: 114, Mismatches: 7, Indels: 20
0.81 0.05 0.14
Matches are distributed among these distances:
63 5 0.04
64 36 0.32
70 15 0.13
72 1 0.01
73 4 0.04
74 2 0.02
75 28 0.25
76 23 0.20
ACGTcount: A:0.58, C:0.12, G:0.02, T:0.28
Consensus pattern (68 bp):
TAAATCCTAATTAAAATACTAAAACCTATTTAAACTAAAATACAAAGATAAAAATAAAAATAATA
TCC
Found at i:985897 original size:75 final size:76
Alignment explanation
Indices: 985810--985974 Score: 244
Period size: 76 Copynumber: 2.2 Consensus size: 76
985800 AAAAAATAAT
*
985810 ATAATATTCTAAATCCTAATTAAAATACT-AAAACCTATTTAAACTAAAATACAAAGATAAAGAT
1 ATAATATCCTAAATCCTAATTAAAATACTAAAAACCTATTTAAACTAAAATACAAAGATAAA-AT
985874 A-AAATATAAAA
65 ATAAATATAAAA
* *
985885 ATAATATCCTAAAACTTAATTAAAATACTAAAAACCTATTTAAACTAAAATACAAAGATAAAATA
1 ATAATATCCTAAATCCTAATTAAAATACTAAAAACCTATTTAAACTAAAATACAAAGATAAAATA
* * *
985950 TAATTTTTAAA
66 TAAATATAAAA
*
985961 ATATTATCCTAAAT
1 ATAATATCCTAAAT
985975 TTGAGTTTAA
Statistics
Matches: 80, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
75 29 0.36
76 51 0.64
ACGTcount: A:0.56, C:0.11, G:0.02, T:0.31
Consensus pattern (76 bp):
ATAATATCCTAAATCCTAATTAAAATACTAAAAACCTATTTAAACTAAAATACAAAGATAAAATA
TAAATATAAAA
Found at i:987668 original size:15 final size:15
Alignment explanation
Indices: 987648--987687 Score: 71
Period size: 15 Copynumber: 2.7 Consensus size: 15
987638 CTGTTCAGAA
987648 AAAATAAAATTAATC
1 AAAATAAAATTAATC
987663 AAAATAAAATTAATC
1 AAAATAAAATTAATC
*
987678 CAAATAAAAT
1 AAAATAAAAT
987688 AAATAGAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.68, C:0.07, G:0.00, T:0.25
Consensus pattern (15 bp):
AAAATAAAATTAATC
Found at i:990657 original size:22 final size:21
Alignment explanation
Indices: 990632--990673 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
990622 AATAAACAAT
*
990632 AAATAAAAATAAATATGAAATG
1 AAATAAAAAGAAATAT-AAATG
*
990654 AAATGAAAAGAAATATAAAT
1 AAATAAAAAGAAATATAAAT
990674 ATAAATATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.69, C:0.00, G:0.10, T:0.21
Consensus pattern (21 bp):
AAATAAAAAGAAATATAAATG
Found at i:990693 original size:19 final size:19
Alignment explanation
Indices: 990671--990715 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
990661 AAGAAATATA
990671 AATATAAATATATAATAAT
1 AATATAAATATATAATAAT
* **
990690 AATACATCTATATAATAAT
1 AATATAAATATATAATAAT
990709 ATATATA
1 A-ATATA
990716 CACAAATAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 17 0.81
20 4 0.19
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (19 bp):
AATATAAATATATAATAAT
Found at i:991207 original size:16 final size:17
Alignment explanation
Indices: 991188--991224 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
991178 AAATAGTCCA
991188 AAAAT-AACAGTAAA-AT
1 AAAATAAACA-TAAACAT
991204 AAAATAAACATAAACAT
1 AAAATAAACATAAACAT
991221 AAAA
1 AAAA
991225 GACCACAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 9 0.47
17 10 0.53
ACGTcount: A:0.73, C:0.08, G:0.03, T:0.16
Consensus pattern (17 bp):
AAAATAAACATAAACAT
Found at i:992805 original size:157 final size:157
Alignment explanation
Indices: 992519--992832 Score: 628
Period size: 157 Copynumber: 2.0 Consensus size: 157
992509 CACTTGCTAG
992519 CTGGAAGCTGGAGGGTTGTTGGATTGAGTGATGGTTGGCTTCAGTTTAGGGTTTGAAAACCCTAG
1 CTGGAAGCTGGAGGGTTGTTGGATTGAGTGATGGTTGGCTTCAGTTTAGGGTTTGAAAACCCTAG
992584 TTAAACCGGGTTGATTCGGGTCTAATCTGAGCGGGTCTGGTGTTTGGGTACCCCTGGTGGGCTTG
66 TTAAACCGGGTTGATTCGGGTCTAATCTGAGCGGGTCTGGTGTTTGGGTACCCCTGGTGGGCTTG
992649 AACTGATATGTTGGGGTGGCCTGGGTT
131 AACTGATATGTTGGGGTGGCCTGGGTT
992676 CTGGAAGCTGGAGGGTTGTTGGATTGAGTGATGGTTGGCTTCAGTTTAGGGTTTGAAAACCCTAG
1 CTGGAAGCTGGAGGGTTGTTGGATTGAGTGATGGTTGGCTTCAGTTTAGGGTTTGAAAACCCTAG
992741 TTAAACCGGGTTGATTCGGGTCTAATCTGAGCGGGTCTGGTGTTTGGGTACCCCTGGTGGGCTTG
66 TTAAACCGGGTTGATTCGGGTCTAATCTGAGCGGGTCTGGTGTTTGGGTACCCCTGGTGGGCTTG
992806 AACTGATATGTTGGGGTGGCCTGGGTT
131 AACTGATATGTTGGGGTGGCCTGGGTT
992833 GGGCCTTGTA
Statistics
Matches: 157, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
157 157 1.00
ACGTcount: A:0.16, C:0.14, G:0.38, T:0.32
Consensus pattern (157 bp):
CTGGAAGCTGGAGGGTTGTTGGATTGAGTGATGGTTGGCTTCAGTTTAGGGTTTGAAAACCCTAG
TTAAACCGGGTTGATTCGGGTCTAATCTGAGCGGGTCTGGTGTTTGGGTACCCCTGGTGGGCTTG
AACTGATATGTTGGGGTGGCCTGGGTT
Found at i:992876 original size:3 final size:3
Alignment explanation
Indices: 992868--992908 Score: 66
Period size: 3 Copynumber: 14.0 Consensus size: 3
992858 TACAAAAGTG
*
992868 TAA TAA TAA TAT TAA -AA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
992909 ATTAAAATAA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
2 2 0.06
3 33 0.94
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:994961 original size:21 final size:21
Alignment explanation
Indices: 994936--994975 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
994926 AAGATATATT
994936 AAAATAAAATAATAATAAAGA
1 AAAATAAAATAATAATAAAGA
*
994957 AAAATAATATAATAATAAA
1 AAAATAAAATAATAATAAA
994976 TTAATAGTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.23
Consensus pattern (21 bp):
AAAATAAAATAATAATAAAGA
Found at i:995057 original size:21 final size:21
Alignment explanation
Indices: 995024--995063 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
995014 GGTTAAAATA
995024 AAAAATAAGAATTAAATAAAAG
1 AAAAATAAGAATT-AATAAAAG
*
995046 AAAAA-AATAATTAATAAA
1 AAAAATAAGAATTAATAAA
995064 CAAATTAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 6 0.35
22 5 0.29
ACGTcount: A:0.75, C:0.00, G:0.05, T:0.20
Consensus pattern (21 bp):
AAAAATAAGAATTAATAAAAG
Found at i:995788 original size:69 final size:68
Alignment explanation
Indices: 995644--995848 Score: 260
Period size: 64 Copynumber: 3.1 Consensus size: 68
995634 TAAAACATCT
* * * *
995644 TAAATCCTAATTAAAACACTTAAAA-CTATTTAAACTAAAATAC----CTAAAAAATAAAATAAT
1 TAAAACCTAATTAAAATAC-TAAAACCTATTTAAACTAAAATACAAAGATAAAATATAAAATAAT
*
995704 ATTC
65 ATCC
*
995708 TAAATCCTAATTAAAATACTAAAACCTATTTAAACTAAAATACAAAGATAAAATATAAAAATAAT
1 TAAAACCTAATTAAAATACTAAAACCTATTTAAACTAAAATACAAAGATAAAATAT-AAAATAAT
995773 ATCC
65 ATCC
* * *
995777 TAAAACTTAATTAAAATACTAAAAACCTATTTAAACTAAAATACAAAGATATAAT-TAAAATATT
1 TAAAACCTAATTAAAATACT-AAAACCTATTTAAACTAAAATACAAAGATAAAATATAAAATAAT
995841 ATCC
65 ATCC
995845 TAAA
1 TAAA
995849 TTTGAGTTTA
Statistics
Matches: 126, Mismatches: 8, Indels: 10
0.88 0.06 0.07
Matches are distributed among these distances:
63 5 0.04
64 36 0.29
68 22 0.17
69 30 0.24
70 33 0.26
ACGTcount: A:0.57, C:0.13, G:0.01, T:0.29
Consensus pattern (68 bp):
TAAAACCTAATTAAAATACTAAAACCTATTTAAACTAAAATACAAAGATAAAATATAAAATAATA
TCC
Found at i:998203 original size:18 final size:18
Alignment explanation
Indices: 998180--998217 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
998170 AGGTAAAGCG
998180 ACCCTCTTTCTCTCTTCT
1 ACCCTCTTTCTCTCTTCT
998198 ACCCTCTTTCTCTCTTCT
1 ACCCTCTTTCTCTCTTCT
998216 AC
1 AC
998218 TTTGTTCTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.08, C:0.45, G:0.00, T:0.47
Consensus pattern (18 bp):
ACCCTCTTTCTCTCTTCT
Found at i:999103 original size:53 final size:53
Alignment explanation
Indices: 999001--999259 Score: 310
Period size: 53 Copynumber: 4.9 Consensus size: 53
998991 TCTTCAAATG
* * * * ***
999001 ACGGGTCCGCTCCCTCTTG-TTCCGGGATTAAGAAAATCGAACAATCTTCTAAAA
1 ACGGGTTCGCTCCCTCTTGCTTCAGGGAGT-AG-AACTCGAACAATCTTCTACTT
* * * *
999055 ATGGGTTCGCTCCCTATTGCTTCAGGGAGTAGAACTCGAATAATCTTCTGCTT
1 ACGGGTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTACTT
* *
999108 ACGGGTTCGCTCCCTCTTGCTTCAGGGGGTAGAACTCGAATAATCTTCTACTT
1 ACGGGTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTACTT
* * * *
999161 ACAGGTTCGCTCCCTCTTGTTTCAGGGAGTAGACCTCGAACAATCTTCTGCTT
1 ACGGGTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTACTT
*
999214 AC-GG-TC-CTCCCTCTTGCTTCAGGGAGTAAAACTCGAACAATCTTCT
1 ACGGGTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCT
999260 GGTGTGATTA
Statistics
Matches: 180, Mismatches: 24, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
50 37 0.21
51 2 0.01
52 2 0.01
53 113 0.63
54 18 0.10
55 8 0.04
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.31
Consensus pattern (53 bp):
ACGGGTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTACTT
Found at i:999300 original size:17 final size:17
Alignment explanation
Indices: 999278--999313 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
999268 TAATCTTCTG
999278 CTACCATCTGAACCTTT
1 CTACCATCTGAACCTTT
999295 CTACCATCTGAACCTTT
1 CTACCATCTGAACCTTT
999312 CT
1 CT
999314 CTTCCTGGGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.22, C:0.36, G:0.06, T:0.36
Consensus pattern (17 bp):
CTACCATCTGAACCTTT
Found at i:999629 original size:80 final size:80
Alignment explanation
Indices: 999525--999725 Score: 332
Period size: 80 Copynumber: 2.5 Consensus size: 80
999515 TAATGAATGG
* * *
999525 CCCGAAGGACTTCATCATCATGCTCGAAAGACTTACTGATGTGA-TTGCTTCACTACTCTTCCGT
1 CCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATG-AATTTGCTTCACTACTCTTCCGT
999589 GAAGGCTTACAAATTA
65 GAAGGCTTACAAATTA
*
999605 CCCGAAGGATTTAATTATCATGCTCGAAAGACTTACTGATGAATTTGCTTCACTACTCTTCCGTG
1 CCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGAATTTGCTTCACTACTCTTCCGTG
* *
999670 AAGGCTTACCAGTTA
66 AAGGCTTACAAATTA
999685 CCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATG
1 CCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATG
999726 GCCCGAAGGA
Statistics
Matches: 113, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
79 1 0.01
80 112 0.99
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.30
Consensus pattern (80 bp):
CCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGAATTTGCTTCACTACTCTTCCGTG
AAGGCTTACAAATTA
Found at i:1014177 original size:59 final size:59
Alignment explanation
Indices: 1014077--1014219 Score: 173
Period size: 59 Copynumber: 2.4 Consensus size: 59
1014067 TATGACACTT
* * * *
1014077 ATTCTAAATTAGTCCTTAAAATTTTAAACATTCCAATTTCATCTCTAAACCAT-GTCTGAC
1 ATTCTAAATTAGTCC-TCAAACTTTAAACATTCCAATTTCATCCCTAAACCATAATCT-AC
* * *
1014137 ATTCTAAATTAGTCCTCAAACTTTAAACATTTCATTTTCATCCCTAAACCATAATCTTC
1 ATTCTAAATTAGTCCTCAAACTTTAAACATTCCAATTTCATCCCTAAACCATAATCTAC
*
1014196 ATTCTAAATTAATCC-CTAAACTTT
1 ATTCTAAATTAGTCCTC-AAACTTT
1014220 TTGAACATTT
Statistics
Matches: 73, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
58 1 0.01
59 54 0.74
60 18 0.25
ACGTcount: A:0.35, C:0.23, G:0.03, T:0.39
Consensus pattern (59 bp):
ATTCTAAATTAGTCCTCAAACTTTAAACATTCCAATTTCATCCCTAAACCATAATCTAC
Found at i:1014864 original size:56 final size:57
Alignment explanation
Indices: 1014756--1014867 Score: 147
Period size: 56 Copynumber: 1.9 Consensus size: 57
1014746 CTCCGAACAA
* *
1014756 CGATTACCTAAATTTCCCTAAGTAACAAATATTAACCACATCGGTAATTAGGCTTTCATG
1 CGATTACCTAAATTTCCC--A-TAACAAAGATTAACCACATCAGTAATTAGGCTTTCATG
*
1014816 CGATTACCTAAATTTCCC-TAACAACGATT-ACCTACATCAGTAATTAGGCTTT
1 CGATTACCTAAATTTCCCATAACAAAGATTAACC-ACATCAGTAATTAGGCTTT
1014868 TTAACTACGC
Statistics
Matches: 48, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
55 3 0.06
56 27 0.56
60 18 0.38
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (57 bp):
CGATTACCTAAATTTCCCATAACAAAGATTAACCACATCAGTAATTAGGCTTTCATG
Found at i:1015451 original size:71 final size:71
Alignment explanation
Indices: 1015335--1015477 Score: 286
Period size: 71 Copynumber: 2.0 Consensus size: 71
1015325 ATGTCAAGTC
1015335 TAGCCAAGATTGTTATCCGTATGTATGGAAAGTAGACGAATAAACATAATTGTCCGACAAAATAT
1 TAGCCAAGATTGTTATCCGTATGTATGGAAAGTAGACGAATAAACATAATTGTCCGACAAAATAT
1015400 CTGACT
66 CTGACT
1015406 TAGCCAAGATTGTTATCCGTATGTATGGAAAGTAGACGAATAAACATAATTGTCCGACAAAATAT
1 TAGCCAAGATTGTTATCCGTATGTATGGAAAGTAGACGAATAAACATAATTGTCCGACAAAATAT
1015471 CTGACT
66 CTGACT
1015477 T
1 T
1015478 TAATAGATCT
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 72 1.00
ACGTcount: A:0.38, C:0.15, G:0.18, T:0.29
Consensus pattern (71 bp):
TAGCCAAGATTGTTATCCGTATGTATGGAAAGTAGACGAATAAACATAATTGTCCGACAAAATAT
CTGACT
Found at i:1021604 original size:20 final size:20
Alignment explanation
Indices: 1021579--1021619 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
1021569 CTACTATTAG
1021579 TTGTATGACAACTAATAATT
1 TTGTATGACAACTAATAATT
1021599 TTGTATGACAACTAATAATT
1 TTGTATGACAACTAATAATT
1021619 T
1 T
1021620 GGGCAGGTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.39, C:0.10, G:0.10, T:0.41
Consensus pattern (20 bp):
TTGTATGACAACTAATAATT
Found at i:1031276 original size:31 final size:31
Alignment explanation
Indices: 1031236--1031360 Score: 241
Period size: 31 Copynumber: 4.0 Consensus size: 31
1031226 CCCTTTACTA
1031236 CCACTGGATGTTATGCTTTATTCTCTCTCTT
1 CCACTGGATGTTATGCTTTATTCTCTCTCTT
*
1031267 CCACCGGATGTTATGCTTTATTCTCTCTCTT
1 CCACTGGATGTTATGCTTTATTCTCTCTCTT
1031298 CCACTGGATGTTATGCTTTATTCTCTCTCTT
1 CCACTGGATGTTATGCTTTATTCTCTCTCTT
1031329 CCACTGGATGTTATGCTTTATTCTCTCTCTT
1 CCACTGGATGTTATGCTTTATTCTCTCTCTT
1031360 C
1 C
1031361 GTATAGTAAA
Statistics
Matches: 92, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 92 1.00
ACGTcount: A:0.13, C:0.27, G:0.13, T:0.47
Consensus pattern (31 bp):
CCACTGGATGTTATGCTTTATTCTCTCTCTT
Done.