Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009587.1 Hibiscus syriacus cultivar Beakdansim tig00116965_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: 6483253
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 26 of 29
Found at i:5724339 original size:17 final size:17
Alignment explanation
Indices: 5724317--5724349 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
5724307 TCCTCTTTCT
*
5724317 TCTCTCGACTCTCATCG
1 TCTCTCAACTCTCATCG
5724334 TCTCTCAACTCTCATC
1 TCTCTCAACTCTCATC
5724350 ACCAGAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.15, C:0.42, G:0.06, T:0.36
Consensus pattern (17 bp):
TCTCTCAACTCTCATCG
Found at i:5726508 original size:53 final size:54
Alignment explanation
Indices: 5726450--5726554 Score: 203
Period size: 53 Copynumber: 2.0 Consensus size: 54
5726440 ATAGAAATCT
5726450 TCTTCTATGTATTTTACTTTTGAAATAATTTTGTTTTAGAGTTAT-TTTTTTGC
1 TCTTCTATGTATTTTACTTTTGAAATAATTTTGTTTTAGAGTTATATTTTTTGC
5726503 TCTTCTATGTATTTTACTTTTGAAATAATTTTGTTTTAGAGTTATATTTTTT
1 TCTTCTATGTATTTTACTTTTGAAATAATTTTGTTTTAGAGTTATATTTTTT
5726555 TTGCAATTTT
Statistics
Matches: 51, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
53 45 0.88
54 6 0.12
ACGTcount: A:0.22, C:0.07, G:0.10, T:0.61
Consensus pattern (54 bp):
TCTTCTATGTATTTTACTTTTGAAATAATTTTGTTTTAGAGTTATATTTTTTGC
Found at i:5726664 original size:21 final size:21
Alignment explanation
Indices: 5726635--5726686 Score: 86
Period size: 21 Copynumber: 2.5 Consensus size: 21
5726625 TGGCATATTT
*
5726635 TTTTTAATATTTTTATTTAAC
1 TTTTAAATATTTTTATTTAAC
*
5726656 TTTTAAATATTTTTATTTTAC
1 TTTTAAATATTTTTATTTAAC
5726677 TTTTAAATAT
1 TTTTAAATAT
5726687 AATTGAATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (21 bp):
TTTTAAATATTTTTATTTAAC
Found at i:5727255 original size:18 final size:19
Alignment explanation
Indices: 5727220--5727255 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
5727210 TTTCTTTAGA
*
5727220 TTAATATAATATTTTCATT
1 TTAATATAATATTGTCATT
5727239 TTAATAT-ATATTGTCAT
1 TTAATATAATATTGTCAT
5727256 ATTATGGTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.36, C:0.06, G:0.03, T:0.56
Consensus pattern (19 bp):
TTAATATAATATTGTCATT
Found at i:5732651 original size:2 final size:2
Alignment explanation
Indices: 5732644--5732684 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
5732634 GGGTTCATCG
5732644 AT AT 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 AT AT A
5732685 GAACAACAGC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:5733243 original size:27 final size:27
Alignment explanation
Indices: 5733210--5733280 Score: 88
Period size: 27 Copynumber: 2.6 Consensus size: 27
5733200 GAAAAATATG
*
5733210 AAAAATATATATATTAATAATAATAAT
1 AAAAATATATATATAAATAATAATAAT
* * * *
5733237 AATAATAAATAAATAAATTATAATAAT
1 AAAAATATATATATAAATAATAATAAT
*
5733264 AAAAATATAAATATAAA
1 AAAAATATATATATAAA
5733281 ACATGGTCAA
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (27 bp):
AAAAATATATATATAAATAATAATAAT
Found at i:5733261 original size:21 final size:20
Alignment explanation
Indices: 5733235--5733279 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 20
5733225 AATAATAATA
5733235 ATAATAATAAATAA-ATAAATT
1 ATAATAATAAA-AATATAAA-T
5733256 ATAATAATAAAAATATAAAT
1 ATAATAATAAAAATATAAAT
5733276 ATAA
1 ATAA
5733280 AACATGGTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 7 0.30
21 16 0.70
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (20 bp):
ATAATAATAAAAATATAAAT
Found at i:5752907 original size:7 final size:7
Alignment explanation
Indices: 5752895--5752919 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
5752885 AAGTCAAATT
5752895 TGGAGGC
1 TGGAGGC
5752902 TGGAGGC
1 TGGAGGC
5752909 TGGAGGC
1 TGGAGGC
5752916 TGGA
1 TGGA
5752920 AATTAAACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.16, C:0.12, G:0.56, T:0.16
Consensus pattern (7 bp):
TGGAGGC
Found at i:5768305 original size:2 final size:2
Alignment explanation
Indices: 5768298--5768322 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
5768288 TTCTTATAGG
5768298 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
5768323 CACGATCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:5768609 original size:3 final size:3
Alignment explanation
Indices: 5768601--5768680 Score: 151
Period size: 3 Copynumber: 26.3 Consensus size: 3
5768591 ACTAATAAAT
5768601 TTA TTA TTA TTA TTA TTA TTA TTA TTAA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA
5768647 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
5768681 AGTTTTAATT
Statistics
Matches: 76, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
3 73 0.96
4 3 0.04
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:5769813 original size:11 final size:11
Alignment explanation
Indices: 5769797--5769821 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
5769787 TGGTTAACCC
5769797 AAAAAAAATTA
1 AAAAAAAATTA
5769808 AAAAAAAATTA
1 AAAAAAAATTA
5769819 AAA
1 AAA
5769822 CATCCATTGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (11 bp):
AAAAAAAATTA
Found at i:5774079 original size:20 final size:20
Alignment explanation
Indices: 5774054--5774104 Score: 102
Period size: 20 Copynumber: 2.5 Consensus size: 20
5774044 TGGAGCGTGG
5774054 GGGGAATCGGTACCCCCTAT
1 GGGGAATCGGTACCCCCTAT
5774074 GGGGAATCGGTACCCCCTAT
1 GGGGAATCGGTACCCCCTAT
5774094 GGGGAATCGGT
1 GGGGAATCGGT
5774105 TCCCTAAGTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.20, C:0.25, G:0.35, T:0.20
Consensus pattern (20 bp):
GGGGAATCGGTACCCCCTAT
Found at i:5774246 original size:22 final size:22
Alignment explanation
Indices: 5774219--5774260 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
5774209 AAACCATTCA
5774219 GGGGGGAATCGGTACCCTCTTG
1 GGGGGGAATCGGTACCCTCTTG
*
5774241 GGGGGGAATCGGTTCCCTCT
1 GGGGGGAATCGGTACCCTCT
5774261 GAGCAATCTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.12, C:0.24, G:0.40, T:0.24
Consensus pattern (22 bp):
GGGGGGAATCGGTACCCTCTTG
Found at i:5776859 original size:21 final size:21
Alignment explanation
Indices: 5776833--5776872 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
5776823 CAGAACCCCA
*
5776833 GGGGGGTATCGATTCCCCTGT
1 GGGGGGAATCGATTCCCCTGT
*
5776854 GGGGGGAATCGGTTCCCCT
1 GGGGGGAATCGATTCCCCT
5776873 TCAAAGGGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.10, C:0.25, G:0.40, T:0.25
Consensus pattern (21 bp):
GGGGGGAATCGATTCCCCTGT
Found at i:5776881 original size:23 final size:21
Alignment explanation
Indices: 5776855--5776912 Score: 75
Period size: 23 Copynumber: 2.8 Consensus size: 21
5776845 TTCCCCTGTG
5776855 GGGGGAATCGGTTCCCCTTCAAA
1 GGGGGAATCGGTTCCCC-TC-AA
5776878 GGGGGAATCGGTT-CCCTCAA
1 GGGGGAATCGGTTCCCCTCAA
*
5776898 GGGGG-ATCGATTCCC
1 GGGGGAATCGGTTCCC
5776913 TCTGCACCAA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
19 6 0.18
20 9 0.27
21 2 0.06
22 3 0.09
23 13 0.39
ACGTcount: A:0.19, C:0.26, G:0.34, T:0.21
Consensus pattern (21 bp):
GGGGGAATCGGTTCCCCTCAA
Found at i:5779352 original size:15 final size:15
Alignment explanation
Indices: 5779332--5779361 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
5779322 GCCATTTCTT
5779332 CTAAATCACCTTGAA
1 CTAAATCACCTTGAA
5779347 CTAAATCACCTTGAA
1 CTAAATCACCTTGAA
5779362 TTAGCTGTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.27, G:0.07, T:0.27
Consensus pattern (15 bp):
CTAAATCACCTTGAA
Found at i:5786877 original size:20 final size:20
Alignment explanation
Indices: 5786852--5786902 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 20
5786842 TCATACATTG
5786852 GGTATCGATAC-TGT-AGGT
1 GGTATCGATACTTGTAAGGT
5786870 AAGGTATCGATACTTGTAAGGT
1 --GGTATCGATACTTGTAAGGT
5786892 GGTATCGATAC
1 GGTATCGATAC
5786903 CATGTTCACT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
20 22 0.76
21 3 0.10
22 4 0.14
ACGTcount: A:0.27, C:0.12, G:0.29, T:0.31
Consensus pattern (20 bp):
GGTATCGATACTTGTAAGGT
Found at i:5790075 original size:2 final size:2
Alignment explanation
Indices: 5790068--5790107 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
5790058 GAATTGGCCA
5790068 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
5790108 TCTATGTTTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5799390 original size:24 final size:23
Alignment explanation
Indices: 5799329--5799390 Score: 72
Period size: 24 Copynumber: 2.7 Consensus size: 23
5799319 AACCATAAGG
5799329 AACGTGTCAC-AAGAGCAGAGAA
1 AACGTGTCACAAAGAGCAGAGAA
* * *
5799351 AAAGTGTGACACAAGAGTAGAGAA
1 AACGTGTCACA-AAGAGCAGAGAA
5799375 AAGCGTGTCACAAAGA
1 AA-CGTGTCACAAAGA
5799391 AAAAAAATTC
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
22 8 0.25
24 17 0.53
25 7 0.22
ACGTcount: A:0.47, C:0.15, G:0.27, T:0.11
Consensus pattern (23 bp):
AACGTGTCACAAAGAGCAGAGAA
Found at i:5805527 original size:24 final size:24
Alignment explanation
Indices: 5805500--5805556 Score: 105
Period size: 24 Copynumber: 2.4 Consensus size: 24
5805490 CTATCTACAA
*
5805500 CTGAAGTTGAATACATGGCAGCGG
1 CTGAAGCTGAATACATGGCAGCGG
5805524 CTGAAGCTGAATACATGGCAGCGG
1 CTGAAGCTGAATACATGGCAGCGG
5805548 CTGAAGCTG
1 CTGAAGCTG
5805557 CAAAAGAAGC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.28, C:0.19, G:0.33, T:0.19
Consensus pattern (24 bp):
CTGAAGCTGAATACATGGCAGCGG
Found at i:5807623 original size:17 final size:18
Alignment explanation
Indices: 5807601--5807644 Score: 56
Period size: 17 Copynumber: 2.4 Consensus size: 18
5807591 TATATTCATC
5807601 CTCTTTATTTTT-TTT-TT
1 CTCTTT-TTTTTCTTTATT
5807618 CTCTTTTTTTTCTTTATT
1 CTCTTTTTTTTCTTTATT
5807636 CTTCTTTTT
1 C-TCTTTTT
5807645 CATCCTCTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
16 5 0.21
17 9 0.38
18 3 0.12
19 7 0.29
ACGTcount: A:0.05, C:0.16, G:0.00, T:0.80
Consensus pattern (18 bp):
CTCTTTTTTTTCTTTATT
Found at i:5810919 original size:26 final size:26
Alignment explanation
Indices: 5810888--5810945 Score: 98
Period size: 26 Copynumber: 2.2 Consensus size: 26
5810878 CTTATTTTCA
*
5810888 AGTTATCGATAAGCGTCGATTCACAT
1 AGTTATCGATAAGCGTCGACTCACAT
*
5810914 ATTTATCGATAAGCGTCGACTCACAT
1 AGTTATCGATAAGCGTCGACTCACAT
5810940 AGTTAT
1 AGTTAT
5810946 ACCACATCTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (26 bp):
AGTTATCGATAAGCGTCGACTCACAT
Found at i:5813277 original size:16 final size:17
Alignment explanation
Indices: 5813247--5813279 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
5813237 ATTGATAGTG
5813247 CTGCTGTGGAACTTCTC
1 CTGCTGTGGAACTTCTC
*
5813264 CTGCT-TGGAGCTTCTC
1 CTGCTGTGGAACTTCTC
5813280 TCTTCTTTTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.09, C:0.30, G:0.24, T:0.36
Consensus pattern (17 bp):
CTGCTGTGGAACTTCTC
Found at i:5817571 original size:31 final size:32
Alignment explanation
Indices: 5817533--5817610 Score: 115
Period size: 31 Copynumber: 2.5 Consensus size: 32
5817523 CTTTTAAAAC
* * *
5817533 TTGCAATATAATCCCCT-AATATTTAGTTTGT
1 TTGCAATATGATCCCCTCAACATTTAGTATGT
5817564 TTGCAATATGAT-CCCTCAACATTTAGTATGT
1 TTGCAATATGATCCCCTCAACATTTAGTATGT
5817595 TTGCAATATGATCCCC
1 TTGCAATATGATCCCC
5817611 GATGTAATTG
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
30 4 0.10
31 35 0.83
32 3 0.07
ACGTcount: A:0.28, C:0.21, G:0.12, T:0.40
Consensus pattern (32 bp):
TTGCAATATGATCCCCTCAACATTTAGTATGT
Found at i:5819080 original size:12 final size:11
Alignment explanation
Indices: 5819063--5819105 Score: 50
Period size: 12 Copynumber: 3.7 Consensus size: 11
5819053 TTTATTAACG
5819063 ATTATATATAAA
1 ATTATAT-TAAA
5819075 ATTATATTTAAA
1 ATTATA-TTAAA
*
5819087 ATTAAATTAAA
1 ATTATATTAAA
*
5819098 ATTTTATT
1 ATTATATT
5819106 TAACATACCC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
11 11 0.41
12 15 0.56
13 1 0.04
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (11 bp):
ATTATATTAAA
Found at i:5823250 original size:28 final size:28
Alignment explanation
Indices: 5823194--5823250 Score: 64
Period size: 28 Copynumber: 2.0 Consensus size: 28
5823184 TTTCTTTATA
* *
5823194 TTAATTCTGAAATTTGATTTTTATTATT
1 TTAATTCTGAAATTTGATATTTATCATT
5823222 TTAATTCTGTGAAATTT-ATATTT-TCATT
1 TTAATTC--TGAAATTTGATATTTATCATT
5823250 T
1 T
5823251 CTTATAGAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
28 12 0.48
29 5 0.20
30 8 0.32
ACGTcount: A:0.28, C:0.05, G:0.07, T:0.60
Consensus pattern (28 bp):
TTAATTCTGAAATTTGATATTTATCATT
Found at i:5823623 original size:21 final size:20
Alignment explanation
Indices: 5823599--5823637 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
5823589 TATCGAATAG
5823599 TACAA-TAATATTATAAATATT
1 TACAATTAA-ATT-TAAATATT
5823620 TACAATTAAATTTAAATA
1 TACAATTAAATTTAAATA
5823638 GAAACTCAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 6 0.35
21 8 0.47
22 3 0.18
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (20 bp):
TACAATTAAATTTAAATATT
Found at i:5826455 original size:21 final size:21
Alignment explanation
Indices: 5826431--5826474 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
5826421 CATCGTCTTG
5826431 TTTACCCCCGGGATCTTCTGA
1 TTTACCCCCGGGATCTTCTGA
5826452 TTTACCCCCGGGATCTTCTGA
1 TTTACCCCCGGGATCTTCTGA
5826473 TT
1 TT
5826475 CGGTCCTCCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.14, C:0.32, G:0.18, T:0.36
Consensus pattern (21 bp):
TTTACCCCCGGGATCTTCTGA
Found at i:5827581 original size:20 final size:19
Alignment explanation
Indices: 5827522--5827581 Score: 59
Period size: 20 Copynumber: 3.1 Consensus size: 19
5827512 GTTAGATTGC
*
5827522 AAAAATA-AAAATAAATAA
1 AAAAATATAAAAAAAATAA
* *
5827540 ATAAATATGAAAAAAAAGAA
1 AAAAATAT-AAAAAAAATAA
*
5827560 AAAAATTATAAAAAATATAA
1 AAAAA-TATAAAAAAAATAA
5827580 AA
1 AA
5827582 TCAAGTTCAA
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
18 6 0.18
20 24 0.73
21 3 0.09
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.18
Consensus pattern (19 bp):
AAAAATATAAAAAAAATAA
Found at i:5827628 original size:24 final size:25
Alignment explanation
Indices: 5827569--5827628 Score: 95
Period size: 25 Copynumber: 2.4 Consensus size: 25
5827559 AAAAAATTAT
*
5827569 AAAAAATATAAAATCAAGTTCAAAG
1 AAAAAACATAAAATCAAGTTCAAAG
*
5827594 AAAAAACATAAAATCAAGTTTAAAG
1 AAAAAACATAAAATCAAGTTCAAAG
5827619 AAAAAA-ATAA
1 AAAAAACATAA
5827629 CGAAAAACAA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
24 4 0.12
25 29 0.88
ACGTcount: A:0.68, C:0.07, G:0.07, T:0.18
Consensus pattern (25 bp):
AAAAAACATAAAATCAAGTTCAAAG
Found at i:5827786 original size:16 final size:16
Alignment explanation
Indices: 5827761--5827793 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
5827751 AATTTCTAAA
*
5827761 TACACCAAATGAATAC
1 TACACAAAATGAATAC
5827777 TACACAAAATGAATAC
1 TACACAAAATGAATAC
5827793 T
1 T
5827794 TTCAAGTCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.52, C:0.21, G:0.06, T:0.21
Consensus pattern (16 bp):
TACACAAAATGAATAC
Found at i:5830292 original size:15 final size:14
Alignment explanation
Indices: 5830263--5830290 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
5830253 AAAATATAAT
5830263 TTATTTTCCAGAAA
1 TTATTTTCCAGAAA
5830277 TTATTTTCCAGAAA
1 TTATTTTCCAGAAA
5830291 ATAATTTCAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.14, G:0.07, T:0.43
Consensus pattern (14 bp):
TTATTTTCCAGAAA
Found at i:5830986 original size:20 final size:20
Alignment explanation
Indices: 5830961--5831000 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
5830951 TTAAGTTCTC
*
5830961 ATTTTA-TATATTTTTTAATT
1 ATTTTATTA-ATTATTTAATT
5830981 ATTTTATTAATTATTTAATT
1 ATTTTATTAATTATTTAATT
5831001 TTATTATCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 16 0.89
21 2 0.11
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (20 bp):
ATTTTATTAATTATTTAATT
Found at i:5841156 original size:6 final size:6
Alignment explanation
Indices: 5841145--5841169 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
5841135 TGGGATGAAT
5841145 GTGATG GTGATG GTGATG GTGATG G
1 GTGATG GTGATG GTGATG GTGATG G
5841170 GAAGCTTTCA
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:0.16, C:0.00, G:0.52, T:0.32
Consensus pattern (6 bp):
GTGATG
Found at i:5843993 original size:2 final size:2
Alignment explanation
Indices: 5843986--5844016 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
5843976 ACTTAAAACA
5843986 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 A
5844017 ACATCCATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:5846216 original size:3 final size:3
Alignment explanation
Indices: 5846208--5846296 Score: 101
Period size: 3 Copynumber: 29.3 Consensus size: 3
5846198 AAAAGATGTA
* * *
5846208 AAT AAT AAT -AT AAAT AAT AAAT AAT ATT ATT AAT AAT -AT TAT GAAT
1 AAT AAT AAT AAT -AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT -AAT
*
5846254 AAA AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
5846297 CTAAGTAATC
Statistics
Matches: 76, Mismatches: 5, Indels: 10
0.84 0.05 0.11
Matches are distributed among these distances:
2 4 0.05
3 65 0.86
4 7 0.09
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:5847245 original size:217 final size:216
Alignment explanation
Indices: 5846855--5847455 Score: 632
Period size: 217 Copynumber: 2.8 Consensus size: 216
5846845 ACTATGCATC
* * *** * *
5846855 TGAAGACAACATTGTTCCTTCTTATTGGGGAAATTTGATTGCCTAGAGATAATTTGATGTTGAAA
1 TGAAGACAACATTATTCCTTCTTGTTGAAAAAATATGATTACCTAGAGATAATTTGATGTTGAAA
* ** * ** *
5846920 ACAATACTGCTCATCCATGATTAAGAGAATCTGGTCGT-TTCCCGGGTGATTTGTTCAATATCAA
66 ACGATACTGCTCATCCACAATGAAGAG-ATCTGGTCGTCTT-TGGGGTGATTTATTCAATATCAA
* * * *
5846984 ATATGTTGCTGGCATTGCTCCTTCATGTCGAAGAGGTTTAGTCAGCAGACAACATTATTCCTAT-
129 ATATGGTGCTGACATTGCTCCTTCATGTTGAAGAGGTCTAGTCAGCAGACAACATTATTCCT-TC
* **
5847048 TTGATGAGGACGACTAGTCGTATA
193 TTGATAAGGACGACTAGTCACATA
* * * * *
5847072 TGAAGATAACATTATTCCTTCTTGTTTAAAAAATATGATTATCTGGAGATAATTTGATGTTGGAA
1 TGAAGACAACATTATTCCTTCTTGTTGAAAAAATATGATTACCTAGAGATAATTTGATGTTGAAA
* * * *
5847137 ACGACACTGCTCATCCACAATGAAGAGTATTTGGCCGTCTTTGGGGTGATTTAATCAATATCAAA
66 ACGATACTGCTCATCCACAATGAAGAG-ATCTGGTCGTCTTTGGGGTGATTTATTCAATATCAAA
* * * * *
5847202 TATGGTGTTGACATTGCTCATTCATATTGAGGAGGTCTAGTCAGCGGACAACATTATTCCTTCTT
130 TATGGTGCTGACATTGCTCCTTCATGTTGAAGAGGTCTAGTCAGCAGACAACATTATTCCTTCTT
* *
5847267 GATAAGGACGTCTAGTCACATT
195 GATAAGGACGACTAGTCACATA
* * * * ** *
5847289 TGATGACAATATTGTTCCTTTTTGTTGAGGAAATATGATTGCCTAGAGATAATTTGATGTTGAAA
1 TGAAGACAACATTATTCCTTCTTGTTGAAAAAATATGATTACCTAGAGATAATTTGATGTTGAAA
* * ** * * * *
5847354 ATGATAATATTCATCCACAATGAAGAGATCTGGTC-ACTTTCGGTGTAATTTTTTCAATATCAAA
66 ACGATACTGCTCATCCACAATGAAGAGATCTGGTCGTCTTT-GGGGTGATTTATTCAATATCAAA
* * * *
5847418 TCTAGTACTGACATTGCTCCTTCATGTTGACGAGGTCT
130 TATGGTGCTGACATTGCTCCTTCATGTTGAAGAGGTCT
5847456 GGTTTTTACC
Statistics
Matches: 312, Mismatches: 69, Indels: 7
0.80 0.18 0.02
Matches are distributed among these distances:
215 4 0.01
216 57 0.18
217 249 0.80
218 2 0.01
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.35
Consensus pattern (216 bp):
TGAAGACAACATTATTCCTTCTTGTTGAAAAAATATGATTACCTAGAGATAATTTGATGTTGAAA
ACGATACTGCTCATCCACAATGAAGAGATCTGGTCGTCTTTGGGGTGATTTATTCAATATCAAAT
ATGGTGCTGACATTGCTCCTTCATGTTGAAGAGGTCTAGTCAGCAGACAACATTATTCCTTCTTG
ATAAGGACGACTAGTCACATA
Found at i:5852918 original size:19 final size:19
Alignment explanation
Indices: 5852894--5852931 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
5852884 CCAAACACCC
5852894 CCTTAGGGTCCTTTGAATT
1 CCTTAGGGTCCTTTGAATT
5852913 CCTTAGGGTCCTTTGAATT
1 CCTTAGGGTCCTTTGAATT
5852932 AAGGAAAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.16, C:0.21, G:0.21, T:0.42
Consensus pattern (19 bp):
CCTTAGGGTCCTTTGAATT
Found at i:5853391 original size:24 final size:21
Alignment explanation
Indices: 5853364--5853420 Score: 60
Period size: 24 Copynumber: 2.5 Consensus size: 21
5853354 ATTATTTAGG
5853364 ATTAATTTTTATAAAATATTTCAT
1 ATTAATTTTT-TAAAAT-TTTC-T
*
5853388 ATTATATTTTTTAATATTTTCT
1 ATTA-ATTTTTTAAAATTTTCT
*
5853410 ATCAATTTTTT
1 ATTAATTTTTT
5853421 TATATAATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
21 7 0.23
22 4 0.13
23 4 0.13
24 9 0.30
25 6 0.20
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.61
Consensus pattern (21 bp):
ATTAATTTTTTAAAATTTTCT
Found at i:5853406 original size:22 final size:22
Alignment explanation
Indices: 5853378--5853445 Score: 68
Period size: 22 Copynumber: 3.0 Consensus size: 22
5853368 ATTTTTATAA
*
5853378 AATATTTCATATTATATTTTTT
1 AATATTTCATATAATATTTTTT
5853400 AATATTTTC-TATCAAT-TTTTTT
1 AATA-TTTCATAT-AATATTTTTT
*
5853422 ATATAATTTGATATAATATTTTTT
1 A-AT-ATTTCATATAATATTTTTT
5853446 GGTACAATGC
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
22 14 0.37
23 14 0.37
24 10 0.26
ACGTcount: A:0.32, C:0.04, G:0.01, T:0.62
Consensus pattern (22 bp):
AATATTTCATATAATATTTTTT
Found at i:5854849 original size:13 final size:13
Alignment explanation
Indices: 5854831--5854855 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5854821 GAGTCAACTC
5854831 GTTGACTTTGACT
1 GTTGACTTTGACT
5854844 GTTGACTTTGAC
1 GTTGACTTTGAC
5854856 CAAAAAAGTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.16, G:0.24, T:0.44
Consensus pattern (13 bp):
GTTGACTTTGACT
Found at i:5855766 original size:19 final size:18
Alignment explanation
Indices: 5855730--5855764 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
5855720 AGTATGTTCA
5855730 GGGGGTATCGATTCCCCT
1 GGGGGTATCGATTCCCCT
5855748 GGGGGTATCGATTCCCC
1 GGGGGTATCGATTCCCC
5855765 CTAAATGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.11, C:0.29, G:0.34, T:0.26
Consensus pattern (18 bp):
GGGGGTATCGATTCCCCT
Found at i:5856364 original size:31 final size:31
Alignment explanation
Indices: 5856326--5856665 Score: 623
Period size: 31 Copynumber: 11.0 Consensus size: 31
5856316 AGGGTCGAGG
*
5856326 GTTTACCTATGTTCTTTGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
5856357 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
5856388 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
5856419 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
5856450 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
5856481 GTTTACCTATGTT-TTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
5856511 G-TTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
5856541 GTTTACCTATGTTCTTCGGGACATATTGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
5856572 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
5856603 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
5856634 GTTTACCTATGTTCTTCGGAATC-TATGGACT
1 GTTTACCTATGTTCTTCGGGA-CATATGGACT
5856665 G
1 G
5856666 GTCCTTCGGG
Statistics
Matches: 302, Mismatches: 4, Indels: 6
0.97 0.01 0.02
Matches are distributed among these distances:
29 11 0.04
30 36 0.12
31 254 0.84
32 1 0.00
ACGTcount: A:0.19, C:0.19, G:0.22, T:0.39
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:5856637 original size:184 final size:184
Alignment explanation
Indices: 5856328--5856665 Score: 633
Period size: 184 Copynumber: 1.8 Consensus size: 184
5856318 GGTCGAGGGT
*
5856328 TTACCTATGTTCTTTGGGACATATGGACTGTTTACCTATGTTCTTCGGGACATATGGACTGTTTA
1 TTACCTATGTTCTTCGGGACATATGGACTGTTTACCTATGTTCTTCGGGACATATGGACTGTTTA
5856393 CCTATGTTCTTCGGGACATATGGACTGTTTACCTATGTTCTTCGGGACATATGGACTGTTTACCT
66 CCTATGTTCTTCGGGACATATGGACTGTTTACCTATGTTCTTCGGGACATATGGACTGTTTACCT
*
5856458 ATGTTCTTCGGGA-CATATGGACTGTTTACCTATGTTTTCGGGACATATGGACTG
131 ATGTTCTTCGGAATC-TATGGACTGTTTACCTATGTTTTCGGGACATATGGACTG
*
5856512 TTACCTATGTTCTTCGGGACATATGGACTGTTTACCTATGTTCTTCGGGACATATTGACTGTTTA
1 TTACCTATGTTCTTCGGGACATATGGACTGTTTACCTATGTTCTTCGGGACATATGGACTGTTTA
5856577 CCTATGTTCTTCGGGACATATGGACTGTTTACCTATGTTCTTCGGGACATATGGACTGTTTACCT
66 CCTATGTTCTTCGGGACATATGGACTGTTTACCTATGTTCTTCGGGACATATGGACTGTTTACCT
5856642 ATGTTCTTCGGAATCTATGGACTG
131 ATGTTCTTCGGAATCTATGGACTG
5856666 GTCCTTCGGG
Statistics
Matches: 150, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
184 149 0.99
185 1 0.01
ACGTcount: A:0.20, C:0.19, G:0.22, T:0.39
Consensus pattern (184 bp):
TTACCTATGTTCTTCGGGACATATGGACTGTTTACCTATGTTCTTCGGGACATATGGACTGTTTA
CCTATGTTCTTCGGGACATATGGACTGTTTACCTATGTTCTTCGGGACATATGGACTGTTTACCT
ATGTTCTTCGGAATCTATGGACTGTTTACCTATGTTTTCGGGACATATGGACTG
Found at i:5868781 original size:18 final size:18
Alignment explanation
Indices: 5868760--5868795 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
5868750 AAAGGGATTT
5868760 GAGAAATTAAAAATTTAG
1 GAGAAATTAAAAATTTAG
**
5868778 GAGATTTTAAAAATTTAG
1 GAGAAATTAAAAATTTAG
5868796 AAAATTTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.17, T:0.33
Consensus pattern (18 bp):
GAGAAATTAAAAATTTAG
Found at i:5868802 original size:18 final size:18
Alignment explanation
Indices: 5868766--5868803 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
5868756 ATTTGAGAAA
* *
5868766 TTAAAAATTTAGGAGATT
1 TTAAAAATTTAGAAAATT
5868784 TTAAAAATTTAGAAAATT
1 TTAAAAATTTAGAAAATT
5868802 TT
1 TT
5868804 TTTTATTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.47, C:0.00, G:0.11, T:0.42
Consensus pattern (18 bp):
TTAAAAATTTAGAAAATT
Found at i:5875364 original size:30 final size:30
Alignment explanation
Indices: 5875318--5875381 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 30
5875308 GAAGGACCTG
* *
5875318 TCCAGAGGTTACAAAGAACC-CAGATAACTA
1 TCCAGAGGTCACAAAGAACCTC-GACAACTA
* *
5875348 TCCAGAGGTCATAAAGATCCTCGACAACTA
1 TCCAGAGGTCACAAAGAACCTCGACAACTA
5875378 TCCA
1 TCCA
5875382 TATGTTCCTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 28 0.97
31 1 0.03
ACGTcount: A:0.39, C:0.27, G:0.16, T:0.19
Consensus pattern (30 bp):
TCCAGAGGTCACAAAGAACCTCGACAACTA
Found at i:5876104 original size:64 final size:64
Alignment explanation
Indices: 5875993--5876140 Score: 192
Period size: 64 Copynumber: 2.3 Consensus size: 64
5875983 TCTTTCAATG
* * * * *
5875993 AAGGTATGCATCGATGCACTACTTGTGCATCGGTGCATAAAATGCATTCGATGTTTTTATTTTAA
1 AAGGAATGCATCGATGCACTACTTATGCATCGATGCATAAAAGGCATTCGATGTTCTTATTTT-A
* * *
5876058 AAGG-ATGCATCGATGCATTAGC-TATGCATCGATGCATCAAAGGCATTCGATGTTCTTCTTTTA
1 AAGGAATGCATCGATGCACTA-CTTATGCATCGATGCATAAAAGGCATTCGATGTTCTTATTTTA
5876121 AAGGAATGCATCGATGCACT
1 AAGGAATGCATCGATGCACT
5876141 TATGAATGTG
Statistics
Matches: 73, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
63 5 0.07
64 63 0.86
65 5 0.07
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.33
Consensus pattern (64 bp):
AAGGAATGCATCGATGCACTACTTATGCATCGATGCATAAAAGGCATTCGATGTTCTTATTTTA
Found at i:5878160 original size:20 final size:20
Alignment explanation
Indices: 5878116--5878164 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 20
5878106 GATGAACATC
5878116 ATCGATACTGATTGAAGTAGT
1 ATCGATACTGATTGAAG-AGT
*
5878137 ATCGATACTGATGTGGAG-GT
1 ATCGATACTGAT-TGAAGAGT
5878157 ATCGATAC
1 ATCGATAC
5878165 CAAGAGTAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 10 0.38
21 12 0.46
22 4 0.15
ACGTcount: A:0.31, C:0.12, G:0.27, T:0.31
Consensus pattern (20 bp):
ATCGATACTGATTGAAGAGT
Found at i:5878285 original size:14 final size:14
Alignment explanation
Indices: 5878266--5878298 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
5878256 GATAAGTATC
5878266 AGTACTGTGTGTAG
1 AGTACTGTGTGTAG
5878280 AGTACTGTGTGTAG
1 AGTACTGTGTGTAG
5878294 AGTAC
1 AGTAC
5878299 CGATACTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.24, C:0.09, G:0.33, T:0.33
Consensus pattern (14 bp):
AGTACTGTGTGTAG
Found at i:5878808 original size:23 final size:23
Alignment explanation
Indices: 5878782--5878851 Score: 77
Period size: 23 Copynumber: 3.0 Consensus size: 23
5878772 GATTCTACGC
5878782 GGTCCTTAGGGACAAATCTATGT
1 GGTCCTTAGGGACAAATCTATGT
* * * * *
5878805 GGTCCTTTGGGACAATTATACGC
1 GGTCCTTAGGGACAAATCTATGT
* *
5878828 GGTCCTTCGGGGCAAATCTATGT
1 GGTCCTTAGGGACAAATCTATGT
5878851 G
1 G
5878852 CACTTTCGTG
Statistics
Matches: 36, Mismatches: 11, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (23 bp):
GGTCCTTAGGGACAAATCTATGT
Found at i:5882395 original size:12 final size:12
Alignment explanation
Indices: 5882378--5882410 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
5882368 TTTTTGTTTC
*
5882378 ATTATTATTACT
1 ATTATTATTAAT
5882390 ATTATTATTAAT
1 ATTATTATTAAT
5882402 ATT-TTATTA
1 ATTATTATTA
5882411 TTATAAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 6 0.30
12 14 0.70
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (12 bp):
ATTATTATTAAT
Found at i:5894879 original size:20 final size:22
Alignment explanation
Indices: 5894832--5894880 Score: 66
Period size: 20 Copynumber: 2.3 Consensus size: 22
5894822 AAGAAAATAA
*
5894832 AGTTTAGGTACCAAAACTAGTTT
1 AGTTTAGGTACCAAAAC-AGTGT
5894855 AGTTTAGGTA-CAAAA-AGTGT
1 AGTTTAGGTACCAAAACAGTGT
5894875 AGTTTA
1 AGTTTA
5894881 CCCAATTCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 10 0.40
22 5 0.20
23 10 0.40
ACGTcount: A:0.37, C:0.08, G:0.20, T:0.35
Consensus pattern (22 bp):
AGTTTAGGTACCAAAACAGTGT
Found at i:5897816 original size:20 final size:20
Alignment explanation
Indices: 5897791--5897829 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
5897781 TAATTAGGTC
5897791 TTTTTA-TTTATGTTATTTTA
1 TTTTTATTTTATGTT-TTTTA
5897811 TTTTTATTTTATGTTTTTT
1 TTTTTATTTTATGTTTTTT
5897830 CACTATTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.15, C:0.00, G:0.05, T:0.79
Consensus pattern (20 bp):
TTTTTATTTTATGTTTTTTA
Found at i:5897841 original size:21 final size:20
Alignment explanation
Indices: 5897792--5897843 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 20
5897782 AATTAGGTCT
*
5897792 TTTTATTTATGTTATTTTATT
1 TTTT-TTTATGTTATTTTATA
5897813 TTTATTTTATGTT-TTTTCACTA
1 TTT-TTTTATGTTATTTT-A-TA
5897835 TTTTTTTAT
1 TTTTTTTAT
5897844 TCTTTGTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
20 4 0.15
21 18 0.67
22 5 0.19
ACGTcount: A:0.17, C:0.04, G:0.04, T:0.75
Consensus pattern (20 bp):
TTTTTTTATGTTATTTTATA
Found at i:5913530 original size:20 final size:20
Alignment explanation
Indices: 5913501--5913543 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
5913491 ATTTCACCAC
*
5913501 ATGCAACTATATGCTCCTAA
1 ATGCAACTATATGATCCTAA
*
5913521 ATGCATCTATATGATCCTAA
1 ATGCAACTATATGATCCTAA
5913541 ATG
1 ATG
5913544 GGCTTTTAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.35, C:0.21, G:0.12, T:0.33
Consensus pattern (20 bp):
ATGCAACTATATGATCCTAA
Found at i:5918805 original size:136 final size:136
Alignment explanation
Indices: 5918599--5919258 Score: 950
Period size: 136 Copynumber: 4.9 Consensus size: 136
5918589 TACAATGAAA
* * *
5918599 AGTTCATAATGTGAAGAACTCATCCGACAGAAGGAGAAGAAGTTCATAATGAGAAGAACTTGTTT
1 AGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCATAATGAGAAGAACTTGTTC
* * * *
5918664 AACCTATTGCTCAATTCACAACACTTCAAATCAGCGATGCCTCGCTTGAGGGATTGACATTTCCA
66 GACCTATTGCTCAATTCACAACACTTCGAATCAGCGACGCCTCACTTGAGGGATTGACATTTCCA
5918729 ATGGAG
131 ATGGAG
* *
5918735 AGTTTATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCATAATGAGTAGAACTTGTTC
1 AGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCATAATGAGAAGAACTTGTTC
* * * * * * *
5918800 GACCTATTGTTCGATTCACAAAACTTCGAATCAGCAACACCTCACTTGAGGTATTAACATTTCCA
66 GACCTATTGCTCAATTCACAACACTTCGAATCAGCGACGCCTCACTTGAGGGATTGACATTTCCA
5918865 ATGGAG
131 ATGGAG
* *
5918871 AGTTCATAATGAGAAGAACTCATCTGATAGAGGGAGAAGAAGTTCATAATGAGAAGAACTTGTTC
1 AGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCATAATGAGAAGAACTTGTTC
* *
5918936 GACCTATTGCTCTATTCACAACACTTCGAATCAG-GAATGCCTCACTTGAGGGATTGACATTTCC
66 GACCTATTGCTCAATTCACAACACTTCGAATCAGCG-ACGCCTCACTTGAGGGATTGACATTTCC
5919000 AATGGAG
130 AATGGAG
* * *
5919007 AGTTCATAATGAGAAGAACGCATCCAACAGAGGGAGAAGAAGTTCATAATGAAAAGAACTTGTTC
1 AGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCATAATGAGAAGAACTTGTTC
* * ** *
5919072 GACCTATTGCTCGATTCACAACACTT-GAATCA-CAACGCCTCGTTTGAGGGATTGACATTTCCG
66 GACCTATTGCTCAATTCACAACACTTCGAATCAGCGACGCCTCACTTGAGGGATTGACATTTCCA
5919135 ATGGAG
131 ATGGAG
* * * * *
5919141 AGTTCAT-ATTAGAAGAACTCATTCAACAGAAGGAGAAGAAGTTCATAATGAGAAGAATTTGTTC
1 AGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCATAATGAGAAGAACTTGTTC
* * * *
5919205 AACCTATTGTTCAATTCACAACACTTCGAATCAGCGGCACCTCACTTGAGGGAT
66 GACCTATTGCTCAATTCACAACACTTCGAATCAGCGACGCCTCACTTGAGGGAT
5919259 CAATATTTCT
Statistics
Matches: 467, Mismatches: 53, Indels: 9
0.88 0.10 0.02
Matches are distributed among these distances:
133 74 0.16
134 44 0.09
135 21 0.04
136 328 0.70
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.26
Consensus pattern (136 bp):
AGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCATAATGAGAAGAACTTGTTC
GACCTATTGCTCAATTCACAACACTTCGAATCAGCGACGCCTCACTTGAGGGATTGACATTTCCA
ATGGAG
Found at i:5919473 original size:47 final size:48
Alignment explanation
Indices: 5919411--5919510 Score: 168
Period size: 47 Copynumber: 2.1 Consensus size: 48
5919401 TTTCCATTTT
*
5919411 ATTTATTTTACACCCAAAACCCAAC-T-AAAAACCTAAACCCTTTTACA
1 ATTTATTTTACACCCAAAACCCAACTTAAAAAACCCAAA-CCTTTTACA
5919458 ATTTATTTTACACCCAAAACCCAACTTAAAAAACCCAAACCTTTTACA
1 ATTTATTTTACACCCAAAACCCAACTTAAAAAACCCAAACCTTTTACA
5919506 ATTTA
1 ATTTA
5919511 AACCCAACCA
Statistics
Matches: 50, Mismatches: 1, Indels: 3
0.93 0.02 0.06
Matches are distributed among these distances:
47 25 0.50
48 15 0.30
49 10 0.20
ACGTcount: A:0.43, C:0.28, G:0.00, T:0.29
Consensus pattern (48 bp):
ATTTATTTTACACCCAAAACCCAACTTAAAAAACCCAAACCTTTTACA
Found at i:5920996 original size:21 final size:21
Alignment explanation
Indices: 5920965--5921010 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
5920955 AATTAGGTCC
5920965 TTTTATTTATGTTATTTTA-T
1 TTTTATTTATGTTATTTTACT
*
5920985 TTTTATTTTATGTTTTTTTACT
1 TTTTA-TTTATGTTATTTTACT
5921007 TTTT
1 TTTT
5921011 TTATTATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 5 0.22
21 13 0.57
22 5 0.22
ACGTcount: A:0.15, C:0.02, G:0.04, T:0.78
Consensus pattern (21 bp):
TTTTATTTATGTTATTTTACT
Found at i:5921616 original size:14 final size:14
Alignment explanation
Indices: 5921597--5921634 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
5921587 TAGTACCTAC
5921597 ACTTCTAGGTTTGT
1 ACTTCTAGGTTTGT
5921611 ACTTCTAGGTTTGT
1 ACTTCTAGGTTTGT
* *
5921625 GCTTTTAGGT
1 ACTTCTAGGT
5921635 CCTTTAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.13, C:0.13, G:0.24, T:0.50
Consensus pattern (14 bp):
ACTTCTAGGTTTGT
Found at i:5924555 original size:28 final size:27
Alignment explanation
Indices: 5924522--5924578 Score: 71
Period size: 28 Copynumber: 2.1 Consensus size: 27
5924512 ATTACTAAAA
*
5924522 AATATAAT-ATAATATTTATAATTAATTT
1 AATATAATAATAAT-TTTA-AATTAAATT
*
5924550 AATATATTAATAATTTTAAATTAAATT
1 AATATAATAATAATTTTAAATTAAATT
5924577 AA
1 AA
5924579 ATTTATTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
27 10 0.38
28 11 0.42
29 5 0.19
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (27 bp):
AATATAATAATAATTTTAAATTAAATT
Found at i:5924608 original size:10 final size:10
Alignment explanation
Indices: 5924582--5924611 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
5924572 AAATTAAATT
5924582 TATTTATTTA
1 TATTTATTTA
5924592 T-TTTATTTA
1 TATTTATTTA
5924601 TATTTATTTA
1 TATTTATTTA
5924611 T
1 T
5924612 TAATGATTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.47
10 10 0.53
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (10 bp):
TATTTATTTA
Found at i:5924644 original size:12 final size:12
Alignment explanation
Indices: 5924623--5924664 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
5924613 AATGATTATA
*
5924623 TATATATAAAAT
1 TATATTTAAAAT
5924635 TATATTTAAAAT
1 TATATTTAAAAT
*
5924647 TA-AATTAAAAT
1 TATATTTAAAAT
*
5924658 TTTATTT
1 TATATTT
5924665 CACATTCCCG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
11 9 0.36
12 16 0.64
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (12 bp):
TATATTTAAAAT
Found at i:5933654 original size:14 final size:14
Alignment explanation
Indices: 5933631--5933666 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
5933621 ATGATCGCGG
*
5933631 TTGGGTTCTATCTT
1 TTGGGCTCTATCTT
5933645 TTGGGCTCTATCTT
1 TTGGGCTCTATCTT
5933659 TTGGGCTC
1 TTGGGCTC
5933667 CAAGTCGGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.06, C:0.19, G:0.25, T:0.50
Consensus pattern (14 bp):
TTGGGCTCTATCTT
Found at i:5933818 original size:14 final size:14
Alignment explanation
Indices: 5933785--5933829 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 14
5933775 GATGATTTTA
5933785 AATAATAATAATATT
1 AATAATAATAATA-T
*
5933800 TATAAT-ATAAATAT
1 AATAATAAT-AATAT
5933814 AATAATAATAATAT
1 AATAATAATAATAT
5933828 AA
1 AA
5933830 GGGTAGATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
14 15 0.58
15 11 0.42
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (14 bp):
AATAATAATAATAT
Found at i:5936593 original size:44 final size:43
Alignment explanation
Indices: 5936521--5936636 Score: 126
Period size: 44 Copynumber: 2.7 Consensus size: 43
5936511 ATATGTGTTC
* * * *
5936521 TTTAGCGGCGTTTGTAAC-AAAAAAGCCGCTATATACCATACA
1 TTTAGCAGCGTTTGTATCTAAAAATGCCGCTAAATACCATACA
* * *
5936563 TTTTGCAGCGTTTTTATCCTAAAAATGCCGCTAAATACCATACC
1 TTTAGCAGCGTTTGTAT-CTAAAAATGCCGCTAAATACCATACA
** *
5936607 TTTAGTGGCGTTTGTATTTAAAAATGCCGC
1 TTTAGCAGCGTTTGTATCTAAAAATGCCGC
5936637 AAAAATATCT
Statistics
Matches: 60, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
42 13 0.22
43 13 0.22
44 34 0.57
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.33
Consensus pattern (43 bp):
TTTAGCAGCGTTTGTATCTAAAAATGCCGCTAAATACCATACA
Found at i:5936767 original size:43 final size:42
Alignment explanation
Indices: 5936700--5936780 Score: 101
Period size: 43 Copynumber: 1.9 Consensus size: 42
5936690 CATTTTACGA
* **
5936700 CGTTTGTGGGAAAATGTTGTTAAATCTCA-ACACCTATTGCGT
1 CGTTTGTGGAAAAATGCCGTTAAATCTCACA-ACCTATTGCGT
*
5936742 CGTTTGTGAGAAAAATGCCGTTAAATGTCACAACCTATT
1 CGTTTGTG-GAAAAATGCCGTTAAATCTCACAACCTATT
5936781 ACGGCATTTG
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
42 8 0.24
43 24 0.73
44 1 0.03
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33
Consensus pattern (42 bp):
CGTTTGTGGAAAAATGCCGTTAAATCTCACAACCTATTGCGT
Found at i:5936791 original size:43 final size:43
Alignment explanation
Indices: 5936718--5936894 Score: 137
Period size: 43 Copynumber: 4.1 Consensus size: 43
5936708 GGAAAATGTT
* * *
5936718 GTTAAATCTCA-ACACCTATTGCGTCGTTTGTGAGAAAAATGCC
1 GTTAAATGTCACA-ACCTATTGCGGCGTTTGTGAGAAAAACGCC
* * *** * *
5936761 GTTAAATGTCACAACCTATTACGGCATTTGTCTTACAACCGCC
1 GTTAAATGTCACAACCTATTGCGGCGTTTGTGAGAAAAACGCC
* * *
5936804 GCTAAATGTCACAACATATTGCGGCGTTTGTGAGAAAAACGTC
1 GTTAAATGTCACAACCTATTGCGGCGTTTGTGAGAAAAACGCC
* * * *
5936847 GCTAAATAT--TAACACTATTACGGCGTTTGTG-GAAAAAACGCC
1 GTTAAATGTCACAAC-CTATTGCGGCGTTTGTGAG-AAAAACGCC
*
5936889 GCTAAA
1 GTTAAA
5936895 CCTCCGCACC
Statistics
Matches: 106, Mismatches: 25, Indels: 7
0.77 0.18 0.05
Matches are distributed among these distances:
41 4 0.04
42 29 0.27
43 72 0.68
44 1 0.01
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.28
Consensus pattern (43 bp):
GTTAAATGTCACAACCTATTGCGGCGTTTGTGAGAAAAACGCC
Found at i:5936877 original size:42 final size:41
Alignment explanation
Indices: 5936816--5936894 Score: 115
Period size: 42 Copynumber: 1.9 Consensus size: 41
5936806 TAAATGTCAC
* *
5936816 AACATATTGCGGCGTTTGT-GAGAAAAACGTCGCTAAATATT
1 AACATATTACGGCGTTTGTGGA-AAAAACGCCGCTAAATATT
5936857 AACACTATTACGGCGTTTGTGGAAAAAACGCCGCTAAA
1 AACA-TATTACGGCGTTTGTGGAAAAAACGCCGCTAAA
5936895 CCTCCGCACC
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
41 4 0.12
42 28 0.82
43 2 0.06
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.25
Consensus pattern (41 bp):
AACATATTACGGCGTTTGTGGAAAAAACGCCGCTAAATATT
Found at i:5937457 original size:18 final size:18
Alignment explanation
Indices: 5937436--5937475 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
5937426 AAAATATCAA
5937436 TAAAATATATAAAAAATT
1 TAAAATATATAAAAAATT
* *
5937454 TAAAATATATGAGAAATT
1 TAAAATATATAAAAAATT
5937472 TAAA
1 TAAA
5937476 TCTTTTAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (18 bp):
TAAAATATATAAAAAATT
Found at i:5950307 original size:2 final size:2
Alignment explanation
Indices: 5950302--5950348 Score: 76
Period size: 2 Copynumber: 23.5 Consensus size: 2
5950292 ATACATAGAT
* *
5950302 AG AG AG AG AA AG AG AG AG AA AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
5950344 AG AG A
1 AG AG A
5950349 CGTATAATAC
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.55, C:0.00, G:0.45, T:0.00
Consensus pattern (2 bp):
AG
Found at i:5950641 original size:14 final size:14
Alignment explanation
Indices: 5950622--5950651 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
5950612 ATAATTGATT
*
5950622 TTCTGGAAATTGAA
1 TTCTGGAAAATGAA
5950636 TTCTGGAAAATGAA
1 TTCTGGAAAATGAA
5950650 TT
1 TT
5950652 ATTAGAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.37, C:0.07, G:0.20, T:0.37
Consensus pattern (14 bp):
TTCTGGAAAATGAA
Found at i:5950855 original size:7 final size:7
Alignment explanation
Indices: 5950843--5950868 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
5950833 TTAAAATAAT
5950843 TTATTTA
1 TTATTTA
5950850 TTATTTA
1 TTATTTA
5950857 TTATTTA
1 TTATTTA
5950864 TTATT
1 TTATT
5950869 ATTTTTAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (7 bp):
TTATTTA
Found at i:5950988 original size:21 final size:21
Alignment explanation
Indices: 5950964--5951015 Score: 61
Period size: 23 Copynumber: 2.4 Consensus size: 21
5950954 AAAGTAATAG
5950964 TATTATATTATATTTTAAAAA
1 TATTATATTATATTTTAAAAA
* *
5950985 TATTAATTAGTATATTTTAAATA
1 TATT-A-TATTATATTTTAAAAA
5951008 TATT-TATT
1 TATTATATT
5951016 TAAATATTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
20 3 0.12
21 4 0.15
22 1 0.04
23 18 0.69
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (21 bp):
TATTATATTATATTTTAAAAA
Found at i:5951119 original size:18 final size:18
Alignment explanation
Indices: 5951096--5951135 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
5951086 ATATTATTTC
5951096 TATAAAATTAATAAATAA
1 TATAAAATTAATAAATAA
* * *
5951114 TATAAATTTTATTAATAA
1 TATAAAATTAATAAATAA
5951132 TATA
1 TATA
5951136 TTATATTATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
TATAAAATTAATAAATAA
Found at i:5951161 original size:18 final size:17
Alignment explanation
Indices: 5951110--5951199 Score: 60
Period size: 18 Copynumber: 5.1 Consensus size: 17
5951100 AAATTAATAA
5951110 ATAATATAAATT-TTATT
1 ATAATAT-AATTATTATT
*
5951127 AATAATATATTATATTATT
1 -ATAATATAAT-TATTATT
5951146 ATAATATAATTGATTATT
1 ATAATATAATT-ATTATT
* * *
5951164 TTATTATAA-TATTAAAAAT
1 ATAATATAATTATT---ATT
5951183 ATAATATAA-TATTATT
1 ATAATATAATTATTATT
5951199 A
1 A
5951200 GAAATATTAA
Statistics
Matches: 58, Mismatches: 8, Indels: 14
0.73 0.10 0.17
Matches are distributed among these distances:
16 6 0.10
17 4 0.07
18 30 0.52
19 18 0.31
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (17 bp):
ATAATATAATTATTATT
Found at i:5951204 original size:22 final size:22
Alignment explanation
Indices: 5951173--5951235 Score: 65
Period size: 23 Copynumber: 2.8 Consensus size: 22
5951163 TTTATTATAA
5951173 TATTAAAAATA-TAATATAATAT
1 TATTAAAAATATTAATA-AATAT
*
5951195 TATTAGAAATATTAATAAATAT
1 TATTAAAAATATTAATAAATAT
* * *
5951217 ATTTTAAATATTTTAATAA
1 -TATTAAAAATATTAATAA
5951236 TTAATATTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
22 15 0.44
23 19 0.56
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (22 bp):
TATTAAAAATATTAATAAATAT
Found at i:5951219 original size:21 final size:22
Alignment explanation
Indices: 5951172--5951228 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
5951162 TTTTATTATA
5951172 ATATTAAAAATA-TAATATAAT
1 ATATTAAAAATATTAATATAAT
*
5951193 ATTATTAGAAATATTAATA-AAT
1 A-TATTAAAAATATTAATATAAT
**
5951215 ATATTTTAAATATT
1 ATATTAAAAATATT
5951229 TTAATAATTA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
21 12 0.39
22 14 0.45
23 5 0.16
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (22 bp):
ATATTAAAAATATTAATATAAT
Found at i:5951497 original size:41 final size:41
Alignment explanation
Indices: 5951442--5951533 Score: 139
Period size: 41 Copynumber: 2.2 Consensus size: 41
5951432 TTCCTCCAAC
* *
5951442 CAAACACTGGAAAACATTTTTCGGAAAACGAATTACGTAAAA
1 CAAACAC-GGAAAACATTTTCCGAAAAACGAATTACGTAAAA
*
5951484 CAAACACGGAAAACATTTTCCGAAAAACGAATTACGTGAAA
1 CAAACACGGAAAACATTTTCCGAAAAACGAATTACGTAAAA
*
5951525 TAAACACGG
1 CAAACACGG
5951534 GATTTTGAGG
Statistics
Matches: 46, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
41 39 0.85
42 7 0.15
ACGTcount: A:0.48, C:0.18, G:0.15, T:0.18
Consensus pattern (41 bp):
CAAACACGGAAAACATTTTCCGAAAAACGAATTACGTAAAA
Found at i:5953696 original size:18 final size:17
Alignment explanation
Indices: 5953673--5953706 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
5953663 CCGTTATTAG
5953673 TGAACCGATCAGAACCGT
1 TGAACCGATC-GAACCGT
*
5953691 TGAACCGTTCGAACCG
1 TGAACCGATCGAACCG
5953707 GACCGACTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.29, G:0.24, T:0.18
Consensus pattern (17 bp):
TGAACCGATCGAACCGT
Found at i:5966846 original size:25 final size:24
Alignment explanation
Indices: 5966804--5966934 Score: 105
Period size: 25 Copynumber: 5.6 Consensus size: 24
5966794 TTCCAAAACA
5966804 CATCAAACTTTTTCAAAATTATTT
1 CATCAAACTTTTTCAAAATTATTT
*
5966828 TATCAAACATTTTTCAAAATTATTT
1 CATCAAAC-TTTTTCAAAATTATTT
**
5966853 CATCAATGTGTTTTCAAAATTA---
1 CATCAAACT-TTTTCAAAATTATTT
* * * *
5966875 AAGC--A-TTATTCAAAATTGTTT
1 CATCAAACTTTTTCAAAATTATTT
* *
5966896 CATAAAACATTTTCAAAACTT-TTT
1 CATCAAACTTTTTCAAAA-TTATTT
5966920 CATCAAACTTTTTCA
1 CATCAAACTTTTTCA
5966935 CCTTTTGAAA
Statistics
Matches: 82, Mismatches: 16, Indels: 18
0.71 0.14 0.16
Matches are distributed among these distances:
18 10 0.12
19 1 0.01
21 1 0.01
22 2 0.02
23 1 0.01
24 32 0.39
25 35 0.43
ACGTcount: A:0.38, C:0.15, G:0.03, T:0.44
Consensus pattern (24 bp):
CATCAAACTTTTTCAAAATTATTT
Found at i:5966852 original size:13 final size:13
Alignment explanation
Indices: 5966812--5966852 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
5966802 CACATCAAAC
5966812 TTTTTCAAAATTA
1 TTTTTCAAAATTA
*
5966825 TTTTATC-AAA-CA
1 TTTT-TCAAAATTA
5966837 TTTTTCAAAATTA
1 TTTTTCAAAATTA
5966850 TTT
1 TTT
5966853 CATCAATGTG
Statistics
Matches: 23, Mismatches: 2, Indels: 6
0.74 0.06 0.19
Matches are distributed among these distances:
11 2 0.09
12 8 0.35
13 11 0.48
14 2 0.09
ACGTcount: A:0.37, C:0.10, G:0.00, T:0.54
Consensus pattern (13 bp):
TTTTTCAAAATTA
Found at i:5966909 original size:13 final size:13
Alignment explanation
Indices: 5966893--5966934 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
5966883 TTCAAAATTG
*
5966893 TTTCATAAAACAT
1 TTTCATAAAACTT
5966906 TTTC--AAAACTT
1 TTTCATAAAACTT
*
5966917 TTTCATCAAACTT
1 TTTCATAAAACTT
5966930 TTTCA
1 TTTCA
5966935 CCTTTTGAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
11 10 0.40
13 15 0.60
ACGTcount: A:0.36, C:0.19, G:0.00, T:0.45
Consensus pattern (13 bp):
TTTCATAAAACTT
Found at i:5972945 original size:27 final size:27
Alignment explanation
Indices: 5972865--5972954 Score: 72
Period size: 27 Copynumber: 3.2 Consensus size: 27
5972855 CGAGGCAATC
*
5972865 TTCAAGATCTCATTATTCTAGGTAATT
1 TTCAAGATCTCAATATTCTAGGTAATT
* ** * *
5972892 TTCTTGGAAGATCTTAACCTGCAAGGTAATT
1 TTC----AAGATCTCAATATTCTAGGTAATT
* *
5972923 TTCAAGATCTCAATATTCTAGGTTATC
1 TTCAAGATCTCAATATTCTAGGTAATT
5972950 TTCAA
1 TTCAA
5972955 CAATGAATTC
Statistics
Matches: 46, Mismatches: 13, Indels: 8
0.69 0.19 0.12
Matches are distributed among these distances:
27 25 0.54
31 21 0.46
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (27 bp):
TTCAAGATCTCAATATTCTAGGTAATT
Found at i:5976297 original size:39 final size:39
Alignment explanation
Indices: 5976211--5976299 Score: 101
Period size: 39 Copynumber: 2.3 Consensus size: 39
5976201 AACTGTTCTG
* * *
5976211 TAGCGGCGTTTAAAGTAAACGCCACAAAATTTAAACATC
1 TAGCGGCGTTTAAACTAAAAGCCACAAAATTGAAACATC
* *
5976250 TAGTGGCGTTTACAATCTAAAAGCCACAAAA-TGAAAC-TT
1 TAGCGGCGTTTA-AA-CTAAAAGCCACAAAATTGAAACATC
5976289 TAGCGGCGTTT
1 TAGCGGCGTTT
5976300 CTTTAACAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
39 22 0.52
40 7 0.17
41 13 0.31
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.26
Consensus pattern (39 bp):
TAGCGGCGTTTAAACTAAAAGCCACAAAATTGAAACATC
Found at i:5981927 original size:64 final size:64
Alignment explanation
Indices: 5981826--5981953 Score: 256
Period size: 64 Copynumber: 2.0 Consensus size: 64
5981816 AACCGAAATC
5981826 CCCGAGCTTGGCATTGAATTCATCATCAAGAATTATGTGCAGGGTTTCATATCTCTATGAATAA
1 CCCGAGCTTGGCATTGAATTCATCATCAAGAATTATGTGCAGGGTTTCATATCTCTATGAATAA
5981890 CCCGAGCTTGGCATTGAATTCATCATCAAGAATTATGTGCAGGGTTTCATATCTCTATGAATAA
1 CCCGAGCTTGGCATTGAATTCATCATCAAGAATTATGTGCAGGGTTTCATATCTCTATGAATAA
5981954 TCTGTCTCTG
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 64 1.00
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.33
Consensus pattern (64 bp):
CCCGAGCTTGGCATTGAATTCATCATCAAGAATTATGTGCAGGGTTTCATATCTCTATGAATAA
Found at i:5984876 original size:25 final size:25
Alignment explanation
Indices: 5984848--5984906 Score: 100
Period size: 25 Copynumber: 2.4 Consensus size: 25
5984838 AATTAAATCC
5984848 TTGAAGTTCACCAAGACTGATTCAA
1 TTGAAGTTCACCAAGACTGATTCAA
5984873 TTGAAGTTCACCAAGACTGATTCAA
1 TTGAAGTTCACCAAGACTGATTCAA
**
5984898 AGGAAGTTC
1 TTGAAGTTC
5984907 TACCTTACTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.27
Consensus pattern (25 bp):
TTGAAGTTCACCAAGACTGATTCAA
Found at i:5985135 original size:17 final size:17
Alignment explanation
Indices: 5985115--5985173 Score: 50
Period size: 17 Copynumber: 3.5 Consensus size: 17
5985105 TTTAGGGAAG
5985115 TAGTTCATTTATGCATC
1 TAGTTCATTTATGCATC
* *
5985132 TAG-TCATTTAAT-AAAC
1 TAGTTCATTT-ATGCATC
* * *
5985148 TACTTCATTCATGCATT
1 TAGTTCATTTATGCATC
5985165 TAGTTCATT
1 TAGTTCATT
5985174 AATAAAGTTT
Statistics
Matches: 31, Mismatches: 8, Indels: 6
0.69 0.18 0.13
Matches are distributed among these distances:
16 12 0.39
17 19 0.61
ACGTcount: A:0.29, C:0.17, G:0.08, T:0.46
Consensus pattern (17 bp):
TAGTTCATTTATGCATC
Found at i:5988803 original size:18 final size:19
Alignment explanation
Indices: 5988780--5988822 Score: 70
Period size: 20 Copynumber: 2.3 Consensus size: 19
5988770 CAGTAATCCT
5988780 ATTCC-CTGGTAATCTTAC
1 ATTCCACTGGTAATCTTAC
5988798 ATTCCCACTGGTAATCTTAC
1 ATT-CCACTGGTAATCTTAC
5988818 ATTCC
1 ATTCC
5988823 GTGAACCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 3 0.13
19 4 0.17
20 16 0.70
ACGTcount: A:0.23, C:0.30, G:0.09, T:0.37
Consensus pattern (19 bp):
ATTCCACTGGTAATCTTAC
Found at i:5988810 original size:20 final size:20
Alignment explanation
Indices: 5988785--5988822 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
5988775 ATCCTATTCC
5988785 CTGGTAATCTTACATTCCCA
1 CTGGTAATCTTACATTCCCA
5988805 CTGGTAATCTTACATTCC
1 CTGGTAATCTTACATTCC
5988823 GTGAACCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.24, C:0.29, G:0.11, T:0.37
Consensus pattern (20 bp):
CTGGTAATCTTACATTCCCA
Found at i:5994931 original size:18 final size:18
Alignment explanation
Indices: 5994908--5994965 Score: 50
Period size: 18 Copynumber: 3.3 Consensus size: 18
5994898 AAGACAGACC
5994908 ATGAAAGATTGAAATCAT
1 ATGAAAGATTGAAATCAT
* * * *
5994926 ATGAAA-CTT-CAGT-AGC
1 ATGAAAGATTGAAATCA-T
5994942 ATGAAAGATTGAAATCAT
1 ATGAAAGATTGAAATCAT
5994960 ATGAAA
1 ATGAAA
5994966 CTTCAGTAGT
Statistics
Matches: 28, Mismatches: 8, Indels: 8
0.64 0.18 0.18
Matches are distributed among these distances:
15 1 0.04
16 8 0.29
17 4 0.14
18 14 0.50
19 1 0.04
ACGTcount: A:0.48, C:0.09, G:0.17, T:0.26
Consensus pattern (18 bp):
ATGAAAGATTGAAATCAT
Found at i:5994950 original size:34 final size:34
Alignment explanation
Indices: 5994907--5994974 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
5994897 TAAGACAGAC
5994907 CATGAAAGATTGAAATCATATGAAACTTCAGTAG
1 CATGAAAGATTGAAATCATATGAAACTTCAGTAG
5994941 CATGAAAGATTGAAATCATATGAAACTTCAGTAG
1 CATGAAAGATTGAAATCATATGAAACTTCAGTAG
5994975 TTCTCTGAGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.44, C:0.12, G:0.18, T:0.26
Consensus pattern (34 bp):
CATGAAAGATTGAAATCATATGAAACTTCAGTAG
Found at i:6000570 original size:22 final size:21
Alignment explanation
Indices: 6000545--6000585 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
6000535 TTATTTAGAT
*
6000545 TAATTAATTATTAAATTAAATA
1 TAATTAATAATT-AATTAAATA
6000567 TAATTAATAATTAATTAAA
1 TAATTAATAATTAATTAAA
6000586 AATTTAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
TAATTAATAATTAATTAAATA
Found at i:6005740 original size:32 final size:31
Alignment explanation
Indices: 6005704--6005766 Score: 81
Period size: 32 Copynumber: 2.0 Consensus size: 31
6005694 TCTAAGGGAG
***
6005704 TACCTTGAGGCCTTTGAGCCTACCCAAAGGGT
1 TACCTTGAGGCCTAAAAGCCTACCC-AAGGGT
*
6005736 TACCTTGGGGCCTAAAAGCCTACCCAAGGGT
1 TACCTTGAGGCCTAAAAGCCTACCCAAGGGT
6005767 CATCTTTTGT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
31 6 0.22
32 21 0.78
ACGTcount: A:0.24, C:0.29, G:0.25, T:0.22
Consensus pattern (31 bp):
TACCTTGAGGCCTAAAAGCCTACCCAAGGGT
Found at i:6007184 original size:31 final size:31
Alignment explanation
Indices: 6007146--6007217 Score: 144
Period size: 31 Copynumber: 2.3 Consensus size: 31
6007136 GCTGCTAAGA
6007146 TCATAATCAAGAGAAACGTTAGCCATTGGTT
1 TCATAATCAAGAGAAACGTTAGCCATTGGTT
6007177 TCATAATCAAGAGAAACGTTAGCCATTGGTT
1 TCATAATCAAGAGAAACGTTAGCCATTGGTT
6007208 TCATAATCAA
1 TCATAATCAA
6007218 TATTCATAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.29
Consensus pattern (31 bp):
TCATAATCAAGAGAAACGTTAGCCATTGGTT
Found at i:6009982 original size:32 final size:33
Alignment explanation
Indices: 6009941--6010006 Score: 98
Period size: 32 Copynumber: 2.0 Consensus size: 33
6009931 GTAACCATGC
*
6009941 AAATAAGCTTATGAGCTTACGGAAT-AATGGTA
1 AAATAAGCTTACGAGCTTACGGAATAAATGGTA
* *
6009973 AAATAAGCTTACGAGCTTATGGGATAAATGGTA
1 AAATAAGCTTACGAGCTTACGGAATAAATGGTA
6010006 A
1 A
6010007 GAGATTTTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 22 0.73
33 8 0.27
ACGTcount: A:0.41, C:0.09, G:0.23, T:0.27
Consensus pattern (33 bp):
AAATAAGCTTACGAGCTTACGGAATAAATGGTA
Found at i:6012509 original size:20 final size:20
Alignment explanation
Indices: 6012486--6012563 Score: 95
Period size: 20 Copynumber: 3.9 Consensus size: 20
6012476 GAACCCTCAG
6012486 GGGGTATCGATTTCCCTACA
1 GGGGTATCGATTTCCCTACA
6012506 GGGGTATCGATTTCCCTACA
1 GGGGTATCGATTTCCCTACA
* * * *
6012526 GGGGAATCGGTTCCCCTTCAA
1 GGGGTATCGATTTCCCTAC-A
6012547 GGGGGTATCGA-TTCCCT
1 -GGGGTATCGATTTCCCT
6012564 CTGTACTAAA
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
20 35 0.71
21 6 0.12
22 8 0.16
ACGTcount: A:0.18, C:0.26, G:0.28, T:0.28
Consensus pattern (20 bp):
GGGGTATCGATTTCCCTACA
Found at i:6018795 original size:77 final size:77
Alignment explanation
Indices: 6018663--6018825 Score: 236
Period size: 77 Copynumber: 2.1 Consensus size: 77
6018653 TGTTTTCAAC
* * **
6018663 AGAAGAACTTGTTCAAACTTGACTTATCCATCATAGAAGGAGGTGAATCAACATTTCTGACGGAA
1 AGAAGAACTTGTTCAAACCTGACTCATCCATCATAGAAGGAGGTGAATCAACATTTCAAACGGAA
6018728 GGGTTCATAATG
66 GGGTTCATAATG
* * * * * *
6018740 AGAAGGACTTGTTCAACCCTGACTCGTCCATCATAGAAGGAGGTGAATCAGCATTTGAAATGGAA
1 AGAAGAACTTGTTCAAACCTGACTCATCCATCATAGAAGGAGGTGAATCAACATTTCAAACGGAA
6018805 GGGTTCATAATG
66 GGGTTCATAATG
6018817 AGAAGAACT
1 AGAAGAACT
6018826 CGTCAGATAA
Statistics
Matches: 75, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
77 75 1.00
ACGTcount: A:0.35, C:0.16, G:0.24, T:0.25
Consensus pattern (77 bp):
AGAAGAACTTGTTCAAACCTGACTCATCCATCATAGAAGGAGGTGAATCAACATTTCAAACGGAA
GGGTTCATAATG
Found at i:6019033 original size:116 final size:113
Alignment explanation
Indices: 6018730--6019091 Score: 417
Period size: 116 Copynumber: 3.2 Consensus size: 113
6018720 TGACGGAAGG
* * * *
6018730 GTTCATAATGAGAAGGACTTGTTCAACCCTGACTCGTCCATCATAGAAGGAGGTGAATCAGCATT
1 GTTCATAATGAGAAGAACTTGTTCAACCCTGGCTCGTCCATCACAGAAGGAGGTGAATCAACATT
** * *
6018795 TGAAATGGAAGGGTTCATAATGAGAAGAACTCGTCAGATAAAGGAGAATAA
66 TCCAATGGAA-GGTTCATAATGAGAAGAGCTCATC-GAT-AAGGAGAATAA
* * * ** *
6018846 ATTCCTAATGAGAAAAACTTAATCAACCCTGGCTCGTCCATCACAGAAGGAGGTGTATCAACATT
1 GTTCATAATGAGAAGAACTTGTTCAACCCTGGCTCGTCCATCACAGAAGGAGGTGAATCAACATT
* *
6018911 TTCAATGGAAGTGTTCATAATGAGAAGAGCTCATTCGATAAGGGAGAAGAA
66 TCCAATGGAAG-GTTCATAATGAGAAGAGCTCA-TCGATAA-GGAGAATAA
* * ** *
6018962 GTTCCTAATGAGAAGAACTTGTTCAACCTTGGCTTATCCATCACAGAAGGAGGTGGATCAACATT
1 GTTCATAATGAGAAGAACTTGTTCAACCCTGGCTCGTCCATCACAGAAGGAGGTGAATCAACATT
* * *
6019027 TCCAAT-GAA-GTTCAT-ATAAGAAGAGCTCATCCA-AAGAAGAATAA
66 TCCAATGGAAGGTTCATAATGAGAAGAGCTCATCGATAAGGAGAATAA
*
6019071 GTTCATAATGACAAGAACTTG
1 GTTCATAATGAGAAGAACTTG
6019092 GAGATCGAGA
Statistics
Matches: 213, Mismatches: 30, Indels: 13
0.83 0.12 0.05
Matches are distributed among these distances:
109 26 0.12
110 2 0.01
111 3 0.01
112 13 0.06
113 6 0.03
115 6 0.03
116 155 0.73
117 2 0.01
ACGTcount: A:0.37, C:0.17, G:0.22, T:0.24
Consensus pattern (113 bp):
GTTCATAATGAGAAGAACTTGTTCAACCCTGGCTCGTCCATCACAGAAGGAGGTGAATCAACATT
TCCAATGGAAGGTTCATAATGAGAAGAGCTCATCGATAAGGAGAATAA
Found at i:6022495 original size:69 final size:66
Alignment explanation
Indices: 6022378--6022562 Score: 246
Period size: 69 Copynumber: 2.8 Consensus size: 66
6022368 GTGAGGTGGT
* *
6022378 GGTGGTGACTTGTACTTGTATGGTTCCTTGGGAGGAGGAGGAGACTTGTACTTGTAAACCGGAGG
1 GGTGGGGACTTGTACTTGTATGGCTCCTTGGGAGGAGGAGGAGACTTGTACTTGTAAACCGGAGG
6022443 A
66 A
* *
6022444 GGTGGGGACTTGTACTTGTATGGCTCCTTAGGAGGAGGAGGAGGAGACTTGTACTTGTAGACTGG
1 GGTGGGGACTTGTACTTGTATGGCTCCTT--G-GGAGGAGGAGGAGACTTGTACTTGTAAACCGG
* *
6022509 TGGG
63 AGGA
* * *
6022513 GGTGGGG-GTGGTGACTTGTATGACTCCTTGGGAGGAGGAGGAGACTTGTA
1 GGTGGGGACTTGT-ACTTGTATGGCTCCTTGGGAGGAGGAGGAGACTTGTA
6022563 TGACTCCTTA
Statistics
Matches: 106, Mismatches: 9, Indels: 8
0.86 0.07 0.07
Matches are distributed among these distances:
66 47 0.44
67 1 0.01
68 4 0.04
69 54 0.51
ACGTcount: A:0.19, C:0.11, G:0.42, T:0.28
Consensus pattern (66 bp):
GGTGGGGACTTGTACTTGTATGGCTCCTTGGGAGGAGGAGGAGACTTGTACTTGTAAACCGGAGG
A
Found at i:6022559 original size:30 final size:30
Alignment explanation
Indices: 6022525--6022592 Score: 127
Period size: 30 Copynumber: 2.3 Consensus size: 30
6022515 TGGGGGTGGT
*
6022525 GACTTGTATGACTCCTTGGGAGGAGGAGGA
1 GACTTGTATGACTCCTTAGGAGGAGGAGGA
6022555 GACTTGTATGACTCCTTAGGAGGAGGAGGA
1 GACTTGTATGACTCCTTAGGAGGAGGAGGA
6022585 GACTTGTA
1 GACTTGTA
6022593 CTTGTAAACT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.25, C:0.13, G:0.37, T:0.25
Consensus pattern (30 bp):
GACTTGTATGACTCCTTAGGAGGAGGAGGA
Found at i:6022596 original size:66 final size:66
Alignment explanation
Indices: 6022384--6022598 Score: 181
Period size: 66 Copynumber: 3.2 Consensus size: 66
6022374 TGGTGGTGGT
** **
6022384 GACTTGTACTTGTATGGTTCCTTG-GGAGGAGGAGGAGACTTGTACTTGTAAACC-GGAGGAGGT
1 GACTTGTACTTGTATGACTCCTTGAGGAGGAGGAGGAGACTTGTAC-TGTACTCCTGGAGGAGG-
*
6022447 GGG
64 AGG
* ** * *
6022450 GACTTGTACTTGTATGGCTCCTTAGGAGGAGGAGGAGGAGACTTGTACTTGTA-GACTGGTGGGG
1 GACTTGTACTTGTATGACTCCTT--GAGGAGGAGGAGGAGACTTGTAC-TGTACTCCTGGAGGAG
*
6022514 GTGG
63 GAGG
** *
6022518 GGGTGGTGACTTGTATGACTCCTTG-GGAGGAGGAGGAGACTTGTA-TG-ACTCCTTAGGAGGAG
1 GACTTGT-ACTTGTATGACTCCTTGAGGAGGAGGAGGAGACTTGTACTGTACTCC-T-GGAGGAG
6022580 GAGG
63 GAGG
6022584 AGACTTGTACTTGTA
1 -GACTTGTACTTGTA
6022599 AACTGGAGGA
Statistics
Matches: 122, Mismatches: 18, Indels: 18
0.77 0.11 0.11
Matches are distributed among these distances:
63 1 0.01
64 3 0.02
65 1 0.01
66 57 0.47
67 5 0.04
68 8 0.07
69 47 0.39
ACGTcount: A:0.21, C:0.12, G:0.40, T:0.27
Consensus pattern (66 bp):
GACTTGTACTTGTATGACTCCTTGAGGAGGAGGAGGAGACTTGTACTGTACTCCTGGAGGAGGAG
G
Found at i:6022613 original size:96 final size:97
Alignment explanation
Indices: 6022457--6022649 Score: 298
Period size: 96 Copynumber: 2.0 Consensus size: 97
6022447 GGGGACTTGT
* * * * *
6022457 ACTTGTATGGCTCCTTAGGAGGAGGAGGAGGAGACTTGTACTTGTAGACTGGTGGGGGTGGGGGT
1 ACTTGTATGACTCCTT--GAGGAGGAGGAGGAGACTTGTACTTGTAAACTGGAGGAGGTGGAGGT
*
6022522 GGTGACTTGTATGACTCCTTGGGAGGAGGAGGAG
64 GGAGACTTGTATGACTCCTTGGGAGGAGGAGGAG
6022556 ACTTGTATGACTCCTT-AGGAGGAGGAGGAGACTTGTACTTGTAAACTGGAGGAGGTGGAGGTGG
1 ACTTGTATGACTCCTTGAGGAGGAGGAGGAGACTTGTACTTGTAAACTGGAGGAGGTGGAGGTGG
*
6022620 AGACTTGTATGACTCCTTGGGGGGAGGAGG
66 AGACTTGTATGACTCCTTGGGAGGAGGAGG
6022650 TGGAGACTTG
Statistics
Matches: 87, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
96 72 0.83
99 15 0.17
ACGTcount: A:0.21, C:0.11, G:0.42, T:0.25
Consensus pattern (97 bp):
ACTTGTATGACTCCTTGAGGAGGAGGAGGAGACTTGTACTTGTAAACTGGAGGAGGTGGAGGTGG
AGACTTGTATGACTCCTTGGGAGGAGGAGGAG
Found at i:6023387 original size:17 final size:17
Alignment explanation
Indices: 6023367--6023441 Score: 61
Period size: 17 Copynumber: 4.6 Consensus size: 17
6023357 AGTAAAGAAT
6023367 TTTAAAATATAAAAATA
1 TTTAAAATATAAAAATA
6023384 TTTAAAATAT--AAATA
1 TTTAAAATATAAAAATA
*
6023399 -TTAGAAT-TATAAAATA
1 TTTAAAATATA-AAAATA
* * *
6023415 -TTAAAATTTAAAATTC
1 TTTAAAATATAAAAATA
*
6023431 TTAAAAATATA
1 TTTAAAATATA
6023442 TAAAGTATTA
Statistics
Matches: 47, Mismatches: 6, Indels: 10
0.75 0.10 0.16
Matches are distributed among these distances:
13 1 0.02
14 6 0.13
15 5 0.11
16 15 0.32
17 20 0.43
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.39
Consensus pattern (17 bp):
TTTAAAATATAAAAATA
Found at i:6023427 original size:15 final size:15
Alignment explanation
Indices: 6023368--6023428 Score: 61
Period size: 15 Copynumber: 3.9 Consensus size: 15
6023358 GTAAAGAATT
*
6023368 TTAAAATATAAAAATA
1 TTAAAAT-TTAAAATA
*
6023384 TTTAAAATAT-AAATA
1 -TTAAAATTTAAAATA
*
6023399 TTAGAATTATAAAATA
1 TTAAAATT-TAAAATA
6023415 TTAAAATTTAAAAT
1 TTAAAATTTAAAAT
6023429 TCTTAAAAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
14 6 0.16
15 12 0.32
16 12 0.32
17 7 0.19
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.38
Consensus pattern (15 bp):
TTAAAATTTAAAATA
Found at i:6027775 original size:324 final size:323
Alignment explanation
Indices: 6027187--6027806 Score: 920
Period size: 324 Copynumber: 1.9 Consensus size: 323
6027177 AAGAAGAAAC
*
6027187 GAATGGAAGAAGATGAAATGAGACAGACAAAAGCTCTCATCCTTTAAAATAGGGTAATTATGCTT
1 GAATGGAAGAAGATGAAATGAGACAGACAAAAGCTCTCATCCTTTAAAAGAGGGTAATTATGCTT
* * *
6027252 TTGGTCCAATCTCATATTTATACAATTCAAAAACCTTTTTTTAATGGAAATTGAGCTCAATTCTA
66 TAGGTCCAATCTCATATTTATACAATTCAAAAACCTGTTTTTAATGGAAATTGAGCTCAATTCCA
*
6027317 ACCCAATTTATCTCACAGTTGGCCCAACGACTATAATTATGAATTCCATGAGGCTCACATACATC
131 ACCCAATTTAGCTCACAGTTGGCCCAACGACTATAATTATGAATTCCATGAGGCTCACATACATC
* * * *
6027382 TCGGTAAACCCGAAACTACTATCCCAAAATTTAGGGTGTTACATGATGTAGTTATTGTGAGATAA
196 TCAGTAAACCCAAAACTACTAGCCCAAAATTTAGGGTGTTACATGATGTAGTTATCGTGAGATAA
6027447 TGATAATGATGATAAAAATGAAGGATAAATGTCCTACTAAGAAAAGGTGAAATGAAGATAAAT
261 TGATAATGATGATAAAAATGAAGGATAAATGTCCTACTAAGAAAAGGTGAAATGAAGATAAAT
** * * * *
6027510 GAATGGAAGAAGATGAAATGAGAGTGATAAAAGCTCTCATCCTTTAAAAGGGGGTAATTTTTCTT
1 GAATGGAAGAAGATGAAATGAGACAGACAAAAGCTCTCATCCTTTAAAAGAGGGTAATTATGCTT
* * * ** *
6027575 TAGGTCCATTCTCATCTTTCTACAATTTTAAAACCTCGTTTTT-ATGGAAAATTGGGCTCAATTC
66 TAGGTCCAATCTCATATTTATACAATTCAAAAACCT-GTTTTTAATGG-AAATTGAGCTCAATTC
* * * *
6027639 CAACTCAATTTAGCTCACCGTTGGCCCAACGACTGTAATTATGAATTCCATGAGG-TCTACTTAC
129 CAACCCAATTTAGCTCACAGTTGGCCCAACGACTATAATTATGAATTCCATGAGGCTC-ACATAC
* * * **
6027703 CTCTCAGTAAACCTAAAACTAGTAGCCCATGATTTAGGGTGTTACATGATGTAGTTATCGTGAGA
193 ATCTCAGTAAACCCAAAACTACTAGCCCAAAATTTAGGGTGTTACATGATGTAGTTATCGTGAGA
*
6027768 TAATGATAATGATGATAAAGATGAAGGATAAATGTCCTA
258 TAATGATAATGATGATAAAAATGAAGGATAAATGTCCTA
6027807 TGAGCCCTCA
Statistics
Matches: 263, Mismatches: 31, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
323 94 0.36
324 169 0.64
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.31
Consensus pattern (323 bp):
GAATGGAAGAAGATGAAATGAGACAGACAAAAGCTCTCATCCTTTAAAAGAGGGTAATTATGCTT
TAGGTCCAATCTCATATTTATACAATTCAAAAACCTGTTTTTAATGGAAATTGAGCTCAATTCCA
ACCCAATTTAGCTCACAGTTGGCCCAACGACTATAATTATGAATTCCATGAGGCTCACATACATC
TCAGTAAACCCAAAACTACTAGCCCAAAATTTAGGGTGTTACATGATGTAGTTATCGTGAGATAA
TGATAATGATGATAAAAATGAAGGATAAATGTCCTACTAAGAAAAGGTGAAATGAAGATAAAT
Found at i:6028142 original size:51 final size:50
Alignment explanation
Indices: 6028084--6028198 Score: 149
Period size: 50 Copynumber: 2.3 Consensus size: 50
6028074 GTAATTACTG
* *
6028084 AATAAAATAATAAAAAACTAAAGATAATATTATGATTATATCCTAATCCCT
1 AATAAAATAATAAAAAACTAAA-ATAACATTATGACTATATCCTAATCCCT
* * * * * *
6028135 AGTAAAATAATAATAAACTAAAATAACATTTTGACTCTATCTTAATTCCT
1 AATAAAATAATAAAAAACTAAAATAACATTATGACTATATCCTAATCCCT
6028185 AATAAAATAATAAA
1 AATAAAATAATAAA
6028199 TTTAATCCTA
Statistics
Matches: 54, Mismatches: 10, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
50 34 0.63
51 20 0.37
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.32
Consensus pattern (50 bp):
AATAAAATAATAAAAAACTAAAATAACATTATGACTATATCCTAATCCCT
Found at i:6028897 original size:33 final size:32
Alignment explanation
Indices: 6028860--6028932 Score: 85
Period size: 31 Copynumber: 2.3 Consensus size: 32
6028850 AAAATTTGGG
* * *
6028860 TTGGGTCGGAGTCGGGTGGAAGATATATATTTT
1 TTGGGTCGGAGT-GGATAGAAGATATATAATTT
*
6028893 TTGGGTC-GAGTGGATAGAGGATATATAATTT
1 TTGGGTCGGAGTGGATAGAAGATATATAATTT
*
6028924 TAGGGTCGG
1 TTGGGTCGG
6028933 GTCAAGTTCA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
31 22 0.65
32 5 0.15
33 7 0.21
ACGTcount: A:0.23, C:0.05, G:0.37, T:0.34
Consensus pattern (32 bp):
TTGGGTCGGAGTGGATAGAAGATATATAATTT
Found at i:6029057 original size:21 final size:21
Alignment explanation
Indices: 6029031--6029081 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
6029021 GATGCTAACG
6029031 TGTCATCATAAGGTAATATTA
1 TGTCATCATAAGGTAATATTA
* *
6029052 TGTCATTATAAGGTAATGTTA
1 TGTCATCATAAGGTAATATTA
*
6029073 TGTTATCAT
1 TGTCATCAT
6029082 TAAAAAAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.33, C:0.08, G:0.16, T:0.43
Consensus pattern (21 bp):
TGTCATCATAAGGTAATATTA
Found at i:6037900 original size:36 final size:36
Alignment explanation
Indices: 6037860--6038173 Score: 190
Period size: 36 Copynumber: 9.0 Consensus size: 36
6037850 TGGTGGTGGT
* *
6037860 GACTTGTACTTATATGTCTCCTTAGGAGGAGGAGGA
1 GACTTGTACTTGTATGACTCCTTAGGAGGAGGAGGA
*** * *
6037896 GACTTGTACTTGTAT-AC-CAGAAGAGGTGGAGGTGGA
1 GACTTGTACTTGTATGACTC--CTTAGGAGGAGGAGGA
*
6037932 GACTTGTACTTGTATGGCTCCTTAGGAGGAGGAGGAGGA
1 GACTTGTACTTGTATGACTCCTT---AGGAGGAGGAGGA
* ** ** * * * *
6037971 GACTTGTACTTATA-GACTGGTGGGGGTGGCGGTGGT
1 GACTTGTACTTGTATGACTCCT-TAGGAGGAGGAGGA
* * *
6038007 GACTTATACTTGTATGTCTCCTTGGGAGGAGGAGGA
1 GACTTGTACTTGTATGACTCCTTAGGAGGAGGAGGA
* ***** *
6038043 GACTTGTA---G-ACG--GGAGGAGGTGGAGGAGGA
1 GACTTGTACTTGTATGACTCCTTAGGAGGAGGAGGA
6038073 GACTTGTACTTGTATGACTCCTTAGGAGGAGGAGGA
1 GACTTGTACTTGTATGACTCCTTAGGAGGAGGAGGA
* *
6038109 GACTTGTACTTGTA--A--AC-T-GGAGGAGGTGGA
1 GACTTGTACTTGTATGACTCCTTAGGAGGAGGAGGA
* *
6038139 GACTTATACTTGTATGACTCCTTGGGAGGAGGAGG
1 GACTTGTACTTGTATGACTCCTTAGGAGGAGGAGG
6038174 TGGAGACTTG
Statistics
Matches: 203, Mismatches: 54, Indels: 42
0.68 0.18 0.14
Matches are distributed among these distances:
30 43 0.21
31 1 0.00
32 4 0.02
33 2 0.01
34 5 0.02
35 2 0.01
36 112 0.55
37 5 0.02
38 5 0.02
39 24 0.12
ACGTcount: A:0.24, C:0.12, G:0.38, T:0.27
Consensus pattern (36 bp):
GACTTGTACTTGTATGACTCCTTAGGAGGAGGAGGA
Found at i:6037930 original size:72 final size:71
Alignment explanation
Indices: 6037846--6038173 Score: 343
Period size: 66 Copynumber: 4.7 Consensus size: 71
6037836 TAGTGGTGAC
* * *
6037846 GAGGTGGTGGTGGTGACTTGTACTTATATGTCTCCTTAGGAGGAGGAGGAGACTTGTACTTGTAT
1 GAGGTGGAGGTGGAGACTTGTACTTGTATGTCTCCTTAGGAGGAGGAGGAGACTTGTACTTGTA-
* *
6037911 ACCAGAA
65 ACCGGAG
* *
6037918 GAGGTGGAGGTGGAGACTTGTACTTGTATGGCTCCTTAGGAGGAGGAGGAGGAGACTTGTACTTA
1 GAGGTGGAGGTGGAGACTTGTACTTGTATGTCTCCTT---AGGAGGAGGAGGAGACTTGTACTTG
* *
6037983 TAGACTGGTG
63 TA-ACCGGAG
* * * * *
6037993 GGGGTGGCGGTGGTGACTTATACTTGTATGTCTCCTTGGGAGGAGGAGGAGACTTGTA---G--A
1 GAGGTGGAGGTGGAGACTTGTACTTGTATGTCTCCTTAGGAGGAGGAGGAGACTTGTACTTGTAA
*
6038053 CGGGAG
66 CCGGAG
* *
6038059 GAGGTGGAGGAGGAGACTTGTACTTGTATGACTCCTTAGGAGGAGGAGGAGACTTGTACTTGTAA
1 GAGGTGGAGGTGGAGACTTGTACTTGTATGTCTCCTTAGGAGGAGGAGGAGACTTGTACTTGTAA
* *
6038124 AC--TG
66 CCGGAG
* * *
6038128 GA---GGAGGTGGAGACTTATACTTGTATGACTCCTTGGGAGGAGGAGG
1 GAGGTGGAGGTGGAGACTTGTACTTGTATGTCTCCTTAGGAGGAGGAGG
6038174 TGGAGACTTG
Statistics
Matches: 216, Mismatches: 32, Indels: 22
0.80 0.12 0.08
Matches are distributed among these distances:
66 97 0.45
69 4 0.02
71 1 0.00
72 53 0.25
75 61 0.28
ACGTcount: A:0.23, C:0.12, G:0.39, T:0.27
Consensus pattern (71 bp):
GAGGTGGAGGTGGAGACTTGTACTTGTATGTCTCCTTAGGAGGAGGAGGAGACTTGTACTTGTAA
CCGGAG
Found at i:6038912 original size:17 final size:15
Alignment explanation
Indices: 6038891--6038974 Score: 71
Period size: 15 Copynumber: 5.2 Consensus size: 15
6038881 GTAAAGAATT
6038891 TTAAAATATAACAATA
1 TTAAAATATAA-AATA
6038907 TTTAAAATA-AAAATA
1 -TTAAAATATAAAATA
*
6038922 TTAGAATTATAAAATA
1 TTA-AAATATAAAATA
* *
6038938 TTAAAATTTAAAATTC
1 TTAAAATATAAAA-TA
6038954 TTAAAAATATATAAAGTA
1 TT-AAAATATA-AAA-TA
6038972 TTA
1 TTA
6038975 GAATGTTTAA
Statistics
Matches: 55, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
14 3 0.05
15 16 0.29
16 14 0.25
17 16 0.29
18 6 0.11
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.37
Consensus pattern (15 bp):
TTAAAATATAAAATA
Found at i:6038944 original size:8 final size:8
Alignment explanation
Indices: 6038891--6038974 Score: 52
Period size: 8 Copynumber: 10.4 Consensus size: 8
6038881 GTAAAGAATT
6038891 TTAAAATA
1 TTAAAATA
6038899 -TAACAATA
1 TTAA-AATA
6038907 TTTAAAATA
1 -TTAAAATA
6038916 --AAAATA
1 TTAAAATA
*
6038922 TTAGAAT-
1 TTAAAATA
6038929 TATAAAATA
1 T-TAAAATA
6038938 TTAAAAT-
1 TTAAAATA
*
6038945 TTAAAATTC
1 TTAAAA-TA
6038954 TTAAAAATA
1 TT-AAAATA
*
6038963 TATAAAGTA
1 T-TAAAATA
6038972 TTA
1 TTA
6038975 GAATGTTTAA
Statistics
Matches: 61, Mismatches: 4, Indels: 22
0.70 0.05 0.25
Matches are distributed among these distances:
6 6 0.10
7 10 0.16
8 22 0.36
9 15 0.25
10 8 0.13
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.37
Consensus pattern (8 bp):
TTAAAATA
Found at i:6038951 original size:15 final size:15
Alignment explanation
Indices: 6038891--6038951 Score: 61
Period size: 16 Copynumber: 3.9 Consensus size: 15
6038881 GTAAAGAATT
*
6038891 TTAAAATATAACAATA
1 TTAAAATTTAA-AATA
*
6038907 TTTAAAA-TAAAAATA
1 -TTAAAATTTAAAATA
*
6038922 TTAGAATTATAAAATA
1 TTAAAATT-TAAAATA
6038938 TTAAAATTTAAAAT
1 TTAAAATTTAAAAT
6038952 TCTTAAAAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
14 5 0.14
15 11 0.30
16 15 0.41
17 6 0.16
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.36
Consensus pattern (15 bp):
TTAAAATTTAAAATA
Found at i:6041729 original size:32 final size:32
Alignment explanation
Indices: 6041693--6041762 Score: 86
Period size: 32 Copynumber: 2.2 Consensus size: 32
6041683 TCTAAATGTG
*
6041693 ACACTGACACTCCTCTGCATTATCTGAATACA
1 ACACTGACACTCATCTGCATTATCTGAATACA
* * * *
6041725 ACACTGACTCTGATGTGCATTATCTGAATGCA
1 ACACTGACACTCATCTGCATTATCTGAATACA
*
6041757 TCACTG
1 ACACTG
6041763 TTAGTATCTA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.30
Consensus pattern (32 bp):
ACACTGACACTCATCTGCATTATCTGAATACA
Found at i:6043119 original size:26 final size:26
Alignment explanation
Indices: 6043083--6043143 Score: 104
Period size: 26 Copynumber: 2.3 Consensus size: 26
6043073 TGAAACACTA
*
6043083 AAATGATCAAATACCCAAATCTCAAC
1 AAATCATCAAATACCCAAATCTCAAC
6043109 AAATCATCAAATACCCAAATCTCAAC
1 AAATCATCAAATACCCAAATCTCAAC
*
6043135 AAAACATCA
1 AAATCATCA
6043144 TGCTTATAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.52, C:0.28, G:0.02, T:0.18
Consensus pattern (26 bp):
AAATCATCAAATACCCAAATCTCAAC
Found at i:6044032 original size:326 final size:326
Alignment explanation
Indices: 6043429--6044038 Score: 920
Period size: 326 Copynumber: 1.9 Consensus size: 326
6043419 AGAAAGGAAA
* * *
6043429 AAGATGAAATGAAGGGAAGAAGATGAAATGAGAGAGATAAAGCTCTTATCCTTTAAAATGGGGGT
1 AAGATGAAATAAAGGGAAGAAGATGAAATGAGAGAGATAAAGCTCTCACCCTTTAAAATGGGGGT
*
6043494 AATTATGCTTTTGGCACATTCTCATATTTATATCATTCAAAAACCTATTTTTTTATGGAAAATTG
66 AATTATGCTTTTGGCACATTCTCATATTTATACCATTCAAAAACCTATTTTTTTATGGAAAATTG
* *
6043559 GGCTCAATTCCAACCCAATATAGCTCACCATTGGCCCAACGACTGTAATTATGAATTCCATGAGG
131 GGCTCAATTCCAACCCAATATAGCTCACCATTAGCCCAACGACTGTAATTATGAATTCCATAAGG
* * * **
6043624 TTCACTTACCTCTCGGTAAACCTGAAACTACTAGTCCAAAATTTAGGGTGTTACATGATTTAGTT
196 TTCACTTACCTCTCGGTAAACCCGAAACTACTAGCCCAAAATTTAAGGTGTTACATGAAGTAGTT
* *
6043689 GTCGTGAGATAATGATAATGATGATAAAGATGAAGGATAAATGTCCTACGAAGAAAAGGTAAAAT
261 GTCGCGAGATAATGATAAAGATGATAAAGATGAAGGATAAATGTCCTACGAAGAAAAGGTAAAAT
6043754 G
326 G
*
6043755 AAGA-GAAATAAAGGGAAGAAGATGAAATGAGATAGATAAAAGCTCTCACCCTTTAAAAT-GGGG
1 AAGATGAAATAAAGGGAAGAAGATGAAATGAGAGAGAT-AAAGCTCTCACCCTTTAAAATGGGGG
** * * *
6043818 TAATTATGCTTTTTGGTGCATTCTCTTCTTTTTACCATTCAAAAACCT-TCTTTTTTATGGAAAA
65 TAATTATGC-TTTTGGCACATTCTCATATTTATACCATTCAAAAACCTAT-TTTTTTATGGAAAA
* * * * * * *
6043882 TTGGGCTCAGTTCCAACCCAATTTAGCTCATCGTTAGCCGAATGACTGTAATTATGAATTTCATA
128 TTGGGCTCAATTCCAACCCAATATAGCTCACCATTAGCCCAACGACTGTAATTATGAATTCCATA
* *
6043947 AGGTTTACTTACCTCTCGGTAAACCCGAAACTACTAGCCCATAATTTAAGGTGTTACATGAAGTA
193 AGGTTCACTTACCTCTCGGTAAACCCGAAACTACTAGCCCAAAATTTAAGGTGTTACATGAAGTA
6044012 GTTGTCGCGAGATAATGATAAAGATGA
258 GTTGTCGCGAGATAATGATAAAGATGA
6044039 AGGATAAATG
Statistics
Matches: 253, Mismatches: 28, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
325 45 0.18
326 208 0.82
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.31
Consensus pattern (326 bp):
AAGATGAAATAAAGGGAAGAAGATGAAATGAGAGAGATAAAGCTCTCACCCTTTAAAATGGGGGT
AATTATGCTTTTGGCACATTCTCATATTTATACCATTCAAAAACCTATTTTTTTATGGAAAATTG
GGCTCAATTCCAACCCAATATAGCTCACCATTAGCCCAACGACTGTAATTATGAATTCCATAAGG
TTCACTTACCTCTCGGTAAACCCGAAACTACTAGCCCAAAATTTAAGGTGTTACATGAAGTAGTT
GTCGCGAGATAATGATAAAGATGATAAAGATGAAGGATAAATGTCCTACGAAGAAAAGGTAAAAT
G
Found at i:6045074 original size:17 final size:17
Alignment explanation
Indices: 6045049--6045090 Score: 75
Period size: 17 Copynumber: 2.4 Consensus size: 17
6045039 GTTGTGGTTA
6045049 AAATAAAAAATAATAATT
1 AAAT-AAAAATAATAATT
6045067 AAATAAAAATAATAATT
1 AAATAAAAATAATAATT
6045084 AAATAAA
1 AAATAAA
6045091 CAAATTAAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 20 0.83
18 4 0.17
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (17 bp):
AAATAAAAATAATAATT
Found at i:6045817 original size:64 final size:64
Alignment explanation
Indices: 6045692--6045886 Score: 191
Period size: 64 Copynumber: 2.9 Consensus size: 64
6045682 TAAAACATCT
* *
6045692 TAAATCCTAATTAAAACACTTAAAA-CTATTTAAACTAAAATACCTAAA-A-AATAATATAATAT
1 TAAATCCTAATTAAAATAC-TAAAACCTATTTAAACTAAAATA-C-AAAGATAA-AATAAAATAT
*
6045754 -TA
62 AAA
6045756 TAAATCCTAATTAAAATACTAAAACCTATTTAAACTAAAATACAAAGATAAAGATAAAATATAAA
1 TAAATCCTAATTAAAATACTAAAACCTATTTAAACTAAAATACAAAGATAAA-ATAAAATAT--A
6045821 AA
63 AA
6045823 TAATATCCTAAAACTTAATTAAAATACTAAAAACCTATTTAAACTAAAATACAAAGATAAAATA
1 TAA-AT-C-----C-TAATTAAAATACT-AAAACCTATTTAAACTAAAATACAAAGATAAAATA
6045887 TAATGTTTAA
Statistics
Matches: 112, Mismatches: 3, Indels: 21
0.82 0.02 0.15
Matches are distributed among these distances:
62 3 0.03
63 8 0.07
64 45 0.40
67 4 0.04
68 2 0.02
69 1 0.01
74 1 0.01
75 16 0.14
76 32 0.29
ACGTcount: A:0.58, C:0.12, G:0.02, T:0.28
Consensus pattern (64 bp):
TAAATCCTAATTAAAATACTAAAACCTATTTAAACTAAAATACAAAGATAAAATAAAATATAAA
Found at i:6055620 original size:243 final size:243
Alignment explanation
Indices: 6055192--6055681 Score: 980
Period size: 243 Copynumber: 2.0 Consensus size: 243
6055182 AGTTAAATTT
6055192 TAAAAATTAAAATATCCGGAGAAAGTAACTATTGACTTTTTGTGTAGAAAAAATAAATTTTAATT
1 TAAAAATTAAAATATCCGGAGAAAGTAACTATTGACTTTTTGTGTAGAAAAAATAAATTTTAATT
6055257 TTTTAATTATTAATTAAAAAAATGGGACTTATATTTTAAAGGGTTTCAAAACTTTCTTGAAAGAA
66 TTTTAATTATTAATTAAAAAAATGGGACTTATATTTTAAAGGGTTTCAAAACTTTCTTGAAAGAA
6055322 GTGTCATTTTTTTATTTTTATACCATATATATTAAAATTATATAAAAAATAACTTTTTTTTAAAC
131 GTGTCATTTTTTTATTTTTATACCATATATATTAAAATTATATAAAAAATAACTTTTTTTTAAAC
6055387 TTTGTGGTGTAAATTGACACCGCTCATGTAATGTGGCTCAATCCATGA
196 TTTGTGGTGTAAATTGACACCGCTCATGTAATGTGGCTCAATCCATGA
6055435 TAAAAATTAAAATATCCGGAGAAAGTAACTATTGACTTTTTGTGTAGAAAAAATAAATTTTAATT
1 TAAAAATTAAAATATCCGGAGAAAGTAACTATTGACTTTTTGTGTAGAAAAAATAAATTTTAATT
6055500 TTTTAATTATTAATTAAAAAAATGGGACTTATATTTTAAAGGGTTTCAAAACTTTCTTGAAAGAA
66 TTTTAATTATTAATTAAAAAAATGGGACTTATATTTTAAAGGGTTTCAAAACTTTCTTGAAAGAA
6055565 GTGTCATTTTTTTATTTTTATACCATATATATTAAAATTATATAAAAAATAACTTTTTTTTAAAC
131 GTGTCATTTTTTTATTTTTATACCATATATATTAAAATTATATAAAAAATAACTTTTTTTTAAAC
6055630 TTTGTGGTGTAAATTGACACCGCTCATGTAATGTGGCTCAATCCATGA
196 TTTGTGGTGTAAATTGACACCGCTCATGTAATGTGGCTCAATCCATGA
6055678 TAAA
1 TAAA
6055682 CAACAATTTT
Statistics
Matches: 247, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
243 247 1.00
ACGTcount: A:0.39, C:0.09, G:0.12, T:0.40
Consensus pattern (243 bp):
TAAAAATTAAAATATCCGGAGAAAGTAACTATTGACTTTTTGTGTAGAAAAAATAAATTTTAATT
TTTTAATTATTAATTAAAAAAATGGGACTTATATTTTAAAGGGTTTCAAAACTTTCTTGAAAGAA
GTGTCATTTTTTTATTTTTATACCATATATATTAAAATTATATAAAAAATAACTTTTTTTTAAAC
TTTGTGGTGTAAATTGACACCGCTCATGTAATGTGGCTCAATCCATGA
Done.