Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008341.1 Hibiscus syriacus cultivar Beakdansim tig00111067_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: 1248125
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 6
Found at i:761780 original size:2 final size:2
Alignment explanation
Indices: 761773--761842 Score: 140
Period size: 2 Copynumber: 35.0 Consensus size: 2
761763 TTAAATTAAA
761773 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
761815 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
761843 GCATGTATGA
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 68 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:769404 original size:1 final size:1
Alignment explanation
Indices: 769400--769456 Score: 69
Period size: 1 Copynumber: 57.0 Consensus size: 1
769390 AAATTGTGGC
* * * * *
769400 TTTTTGTTTTTTTTTTTTGTTTTTTTTTCTTTTTGTTTTTTTTTTTTGTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
769457 GAAAAAAAAT
Statistics
Matches: 46, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
1 46 1.00
ACGTcount: A:0.00, C:0.02, G:0.07, T:0.91
Consensus pattern (1 bp):
T
Found at i:769418 original size:13 final size:13
Alignment explanation
Indices: 769400--769456 Score: 87
Period size: 13 Copynumber: 4.2 Consensus size: 13
769390 AAATTGTGGC
769400 TTTTTGTTTTTTT
1 TTTTTGTTTTTTT
769413 TTTTTGTTTTTTTTT
1 TTTTTG--TTTTTTT
769428 CTTTTTGTTTTTTT
1 -TTTTTGTTTTTTT
769442 TTTTTGTTTTTTT
1 TTTTTGTTTTTTT
769455 TT
1 TT
769457 GAAAAAAAAT
Statistics
Matches: 41, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
13 21 0.51
14 7 0.17
15 7 0.17
16 6 0.15
ACGTcount: A:0.00, C:0.02, G:0.07, T:0.91
Consensus pattern (13 bp):
TTTTTGTTTTTTT
Found at i:769431 original size:29 final size:29
Alignment explanation
Indices: 769399--769456 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
769389 GAAATTGTGG
769399 CTTTTTGTTTTTTTTTTTTGTTTTTTTTT
1 CTTTTTGTTTTTTTTTTTTGTTTTTTTTT
769428 CTTTTTGTTTTTTTTTTTTGTTTTTTTTT
1 CTTTTTGTTTTTTTTTTTTGTTTTTTTTT
769457 GAAAAAAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.00, C:0.03, G:0.07, T:0.90
Consensus pattern (29 bp):
CTTTTTGTTTTTTTTTTTTGTTTTTTTTT
Found at i:776873 original size:14 final size:14
Alignment explanation
Indices: 776854--776880 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
776844 TTGACTTTTT
776854 GGGTCAAAGTCAAC
1 GGGTCAAAGTCAAC
776868 GGGTCAAAGTCAA
1 GGGTCAAAGTCAA
776881 TGGATTGACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.19, G:0.30, T:0.15
Consensus pattern (14 bp):
GGGTCAAAGTCAAC
Found at i:780144 original size:12 final size:12
Alignment explanation
Indices: 780129--780153 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
780119 GAACTCATGT
780129 ATGAACAGTGTC
1 ATGAACAGTGTC
780141 ATGAACAGTGTC
1 ATGAACAGTGTC
780153 A
1 A
780154 AATAGTGACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.24
Consensus pattern (12 bp):
ATGAACAGTGTC
Found at i:780448 original size:15 final size:16
Alignment explanation
Indices: 780430--780472 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 16
780420 CTCCCTTTAG
* *
780430 AAAAATATATTTTGA-
1 AAAAAAATATTTTAAT
*
780445 AAAAAAATAATTTAAT
1 AAAAAAATATTTTAAT
780461 AAAAAAATATTT
1 AAAAAAATATTT
780473 AAGCTCCCCT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
15 12 0.52
16 11 0.48
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (16 bp):
AAAAAAATATTTTAAT
Found at i:780452 original size:17 final size:17
Alignment explanation
Indices: 780430--780470 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
780420 CTCCCTTTAG
*
780430 AAAAATATATTTTGA-AA
1 AAAAATATA-TTTAATAA
780447 AAAAATA-ATTTAATAA
1 AAAAATATATTTAATAA
780463 AAAAATAT
1 AAAAATAT
780471 TTAAGCTCCC
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 4 0.19
16 10 0.48
17 7 0.33
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (17 bp):
AAAAATATATTTAATAA
Found at i:780473 original size:15 final size:16
Alignment explanation
Indices: 780445--780474 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
780435 TATATTTTGA
780445 AAAAAAATAATTTAAT
1 AAAAAAATAATTTAAT
780461 AAAAAAAT-ATTTAA
1 AAAAAAATAATTTAA
780475 GCTCCCCTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
AAAAAAATAATTTAAT
Found at i:781588 original size:81 final size:80
Alignment explanation
Indices: 781453--781614 Score: 263
Period size: 81 Copynumber: 2.0 Consensus size: 80
781443 AATGTTCACC
781453 ATAACACATTTTAACATACATAACATATAAAAAATAACAAATGATCATTTATGTTCAAAAACTCA
1 ATAACACATTTTAACATACATAACATATAAAAAATAACAAATGATCATTTATGTTCAAAAACTCA
*
781518 CGCATGCATAAAACA
66 CGCATACATAAAACA
* *
781533 ATAACACATTTTAACATACATGAGAT-TGAAAAAAATAACAAATGATCATTTATGTTCAAAAACT
1 ATAACACATTTTAACATACATAACATAT--AAAAAATAACAAATGATCATTTATGTTCAAAAACT
*
781597 CACGCATACATATAACA
64 CACGCATACATAAAACA
781614 A
1 A
781615 ATAGGCAACC
Statistics
Matches: 76, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
79 1 0.01
80 24 0.32
81 51 0.67
ACGTcount: A:0.51, C:0.17, G:0.06, T:0.27
Consensus pattern (80 bp):
ATAACACATTTTAACATACATAACATATAAAAAATAACAAATGATCATTTATGTTCAAAAACTCA
CGCATACATAAAACA
Found at i:783551 original size:26 final size:26
Alignment explanation
Indices: 783520--783579 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 26
783510 CTATCTATAT
* *
783520 TAAAATTAAA-TTGTTTAATTAAATGG
1 TAAAATTAAACTT-TTTAACTAAATGA
*
783546 TCAAATTAAACTTTTTAACTAAATGA
1 TAAAATTAAACTTTTTAACTAAATGA
783572 TAAAATTA
1 TAAAATTA
783580 TATATTTGGC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
26 27 0.93
27 2 0.07
ACGTcount: A:0.48, C:0.05, G:0.07, T:0.40
Consensus pattern (26 bp):
TAAAATTAAACTTTTTAACTAAATGA
Found at i:784133 original size:17 final size:17
Alignment explanation
Indices: 784111--784143 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
784101 AAATACATTC
784111 AAAATACTAAA-TTAAGT
1 AAAATAC-AAAGTTAAGT
784128 AAAATACAAAGTTAAG
1 AAAATACAAAGTTAAG
784144 GAGCCAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.61, C:0.06, G:0.09, T:0.24
Consensus pattern (17 bp):
AAAATACAAAGTTAAGT
Found at i:789409 original size:15 final size:15
Alignment explanation
Indices: 789372--789411 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
789362 AACGTATTTG
*
789372 ATTTTTTTCTTTTTC
1 ATTTTTTTCTTTTCC
* *
789387 ATATTTTTGTTTTCC
1 ATTTTTTTCTTTTCC
789402 ATTTTTTTCT
1 ATTTTTTTCT
789412 CACGTCTTTC
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.10, C:0.12, G:0.03, T:0.75
Consensus pattern (15 bp):
ATTTTTTTCTTTTCC
Found at i:800626 original size:2 final size:2
Alignment explanation
Indices: 800614--800660 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
800604 TCTAACCATA
*
800614 AT AT GT 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
800656 AT AT A
1 AT AT A
800661 ACATTACAAT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:801510 original size:31 final size:30
Alignment explanation
Indices: 801440--801511 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 30
801430 ACCCTTGAAT
** *
801440 TTTAGATAAAATATTAATTTGATCATATAC
1 TTTAGATAAAATATTAACGTGAACATATAC
*
801470 TTTAAATAAAATATTAACGT-AACATATAAAC
1 TTTAGATAAAATATTAACGTGAACATAT--AC
801501 TTTAGATAAAA
1 TTTAGATAAAA
801512 CATCAATTTG
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
29 6 0.17
30 17 0.49
31 12 0.34
ACGTcount: A:0.50, C:0.07, G:0.06, T:0.38
Consensus pattern (30 bp):
TTTAGATAAAATATTAACGTGAACATATAC
Found at i:803811 original size:21 final size:21
Alignment explanation
Indices: 803787--803828 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
803777 AATTAATGTC
*
803787 ACTTGTCTAA-ACACTATAATA
1 ACTTATCTAAGACA-TATAATA
*
803808 ACTTATTTAAGACATATAATA
1 ACTTATCTAAGACATATAATA
803829 TCTTTTGATA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.45, C:0.14, G:0.05, T:0.36
Consensus pattern (21 bp):
ACTTATCTAAGACATATAATA
Found at i:809305 original size:61 final size:61
Alignment explanation
Indices: 809185--809341 Score: 188
Period size: 61 Copynumber: 2.5 Consensus size: 61
809175 GCAAGTTTAT
* * * * * *
809185 ATTAGCACTAGTGTGTAAGGACACTAAGTGCAGATGGTGGGCACGACCTTATGTGTCATATCCAA
1 ATTAGCACTAGAGTGTAA--AC-CT-AGTGTAGGTGGTGGGCACGACCCTACGTATCATATCCAA
*
809250 ATTAGCACTAGAGTGTAAACCTAGTGTAGGTGGTGGGCACGACCCTACGTATCATATCCAG
1 ATTAGCACTAGAGTGTAAACCTAGTGTAGGTGGTGGGCACGACCCTACGTATCATATCCAA
* * *
809311 ATTAGCACTAGAGCGTAAACTTAGTTTAGGT
1 ATTAGCACTAGAGTGTAAACCTAGTGTAGGT
809342 TTAGCACTAC
Statistics
Matches: 82, Mismatches: 10, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
61 61 0.74
62 2 0.02
63 2 0.02
65 17 0.21
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.27
Consensus pattern (61 bp):
ATTAGCACTAGAGTGTAAACCTAGTGTAGGTGGTGGGCACGACCCTACGTATCATATCCAA
Found at i:816155 original size:14 final size:14
Alignment explanation
Indices: 816129--816172 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
816119 TCTAATAAAA
*
816129 TAAAATAAAATAAT
1 TAAAATGAAATAAT
**
816143 TGGAATGAAATAAAT
1 TAAAATGAAAT-AAT
816158 TAAAATGAAATAAT
1 TAAAATGAAATAAT
816172 T
1 T
816173 TTGCAAAAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
14 12 0.50
15 12 0.50
ACGTcount: A:0.61, C:0.00, G:0.09, T:0.30
Consensus pattern (14 bp):
TAAAATGAAATAAT
Found at i:816158 original size:15 final size:15
Alignment explanation
Indices: 816122--816170 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
816112 TTAAGCATCT
* *
816122 AATAAAATAAAATAA
1 AATAAATTAAAATGA
**
816137 AAT-AATTGGAATGA
1 AATAAATTAAAATGA
816151 AATAAATTAAAATGA
1 AATAAATTAAAATGA
816166 AATAA
1 AATAA
816171 TTTTGCAAAA
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
14 10 0.37
15 17 0.63
ACGTcount: A:0.67, C:0.00, G:0.08, T:0.24
Consensus pattern (15 bp):
AATAAATTAAAATGA
Found at i:820920 original size:43 final size:42
Alignment explanation
Indices: 820773--820952 Score: 270
Period size: 42 Copynumber: 4.2 Consensus size: 42
820763 TAAAACAGCT
*
820773 TGGGGAAACTGTAAGGCTTACCCTTGCACAGAACAAAGGAACC
1 TGGGG-AACTGTAAGGCTTACCCTTGCACACAACAAAGGAACC
* *
820816 TGGGAAACTGTAAGGCTTACCCTTACACACAACAAAGGAACC
1 TGGGGAACTGTAAGGCTTACCCTTGCACACAACAAAGGAACC
* *
820858 TGGGGAACTGTAAGGCTTACCCTTGCACACAACAAAGGGACT
1 TGGGGAACTGTAAGGCTTACCCTTGCACACAACAAAGGAACC
* *
820900 TGGGGGAACTGTAAGGCTTACCCTTGCACACAGCAAAGGGACC
1 T-GGGGAACTGTAAGGCTTACCCTTGCACACAACAAAGGAACC
820943 TAGGGGAACT
1 T-GGGGAACT
820953 ATAACGGTAA
Statistics
Matches: 126, Mismatches: 10, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
42 74 0.59
43 52 0.41
ACGTcount: A:0.33, C:0.24, G:0.26, T:0.17
Consensus pattern (42 bp):
TGGGGAACTGTAAGGCTTACCCTTGCACACAACAAAGGAACC
Found at i:820930 original size:85 final size:84
Alignment explanation
Indices: 820773--820952 Score: 270
Period size: 85 Copynumber: 2.1 Consensus size: 84
820763 TAAAACAGCT
*
820773 TGGGGAAACTGTAAGGCTTACCCTTGCACAGAACAAAGGAACCTGGGAAACTGTAAGGCTTACCC
1 TGGGG-AACTGTAAGGCTTACCCTTGCACACAACAAAGGAACCTGGGAAACTGTAAGGCTTACCC
820838 TTACACACAACAAAGGAACC
65 TTACACACAACAAAGGAACC
* * *
820858 TGGGGAACTGTAAGGCTTACCCTTGCACACAACAAAGGGACTTGGGGGAACTGTAAGGCTTACCC
1 TGGGGAACTGTAAGGCTTACCCTTGCACACAACAAAGGAACCT-GGGAAACTGTAAGGCTTACCC
* * *
820923 TTGCACACAGCAAAGGGACC
65 TTACACACAACAAAGGAACC
820943 TAGGGGAACT
1 T-GGGGAACT
820953 ATAACGGTAA
Statistics
Matches: 86, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
84 35 0.41
85 43 0.50
86 8 0.09
ACGTcount: A:0.33, C:0.24, G:0.26, T:0.17
Consensus pattern (84 bp):
TGGGGAACTGTAAGGCTTACCCTTGCACACAACAAAGGAACCTGGGAAACTGTAAGGCTTACCCT
TACACACAACAAAGGAACC
Found at i:823136 original size:13 final size:13
Alignment explanation
Indices: 823118--823178 Score: 50
Period size: 13 Copynumber: 4.3 Consensus size: 13
823108 GCCGGTCAAC
*
823118 GGTCAATGGGTCG
1 GGTCAACGGGTCG
823131 GGTCAACGGATCAGGTCG
1 GGTCAACGG----G-TCG
*
823149 GGTCAATGGGTCG
1 GGTCAACGGGTCG
*
823162 GGTCAACGGGTCA
1 GGTCAACGGGTCG
823175 GGTC
1 GGTC
823179 GAGTTGTGAC
Statistics
Matches: 39, Mismatches: 4, Indels: 10
0.74 0.08 0.19
Matches are distributed among these distances:
13 26 0.67
14 1 0.03
17 1 0.03
18 11 0.28
ACGTcount: A:0.18, C:0.20, G:0.43, T:0.20
Consensus pattern (13 bp):
GGTCAACGGGTCG
Found at i:823156 original size:31 final size:31
Alignment explanation
Indices: 823118--823179 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
823108 GCCGGTCAAC
823118 GGTCAATGGGTCGGGTCAACGGATCAGGTCG
1 GGTCAATGGGTCGGGTCAACGGATCAGGTCG
*
823149 GGTCAATGGGTCGGGTCAACGGGTCAGGTCG
1 GGTCAATGGGTCGGGTCAACGGATCAGGTCG
823180 AGTTGTGACC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.18, C:0.19, G:0.44, T:0.19
Consensus pattern (31 bp):
GGTCAATGGGTCGGGTCAACGGATCAGGTCG
Found at i:823178 original size:18 final size:17
Alignment explanation
Indices: 823111--823179 Score: 56
Period size: 18 Copynumber: 4.0 Consensus size: 17
823101 GGTCAACGCC
823111 GGTCAACGGTCAATGGGTCG
1 GGTCAACGGTC-A--GGTCG
823131 GGTCAACGGATCAGGTCG
1 GGTCAACGG-TCAGGTCG
*
823149 GGTCAA---T-GGGTCG
1 GGTCAACGGTCAGGTCG
823162 GGTCAACGGGTCAGGTCG
1 GGTCAAC-GGTCAGGTCG
823180 AGTTGTGACC
Statistics
Matches: 41, Mismatches: 2, Indels: 14
0.72 0.04 0.25
Matches are distributed among these distances:
13 11 0.27
14 1 0.02
17 1 0.02
18 16 0.39
20 10 0.24
21 2 0.05
ACGTcount: A:0.19, C:0.20, G:0.42, T:0.19
Consensus pattern (17 bp):
GGTCAACGGTCAGGTCG
Found at i:825211 original size:42 final size:43
Alignment explanation
Indices: 825127--825357 Score: 297
Period size: 43 Copynumber: 5.4 Consensus size: 43
825117 AGGTCTTATA
* * * *
825127 CTTGCACATAGCAAAAG-AGCTTGGGGAAGCTGTAAGGCTTACC
1 CTTGCACACAGCAAAGGAACCTGGGGGAA-CTGTAAGGCTTACC
**
825170 CTTGCACACAGCAAAGGAACCT-GGAAAACTGTAAGGCTTACC
1 CTTGCACACAGCAAAGGAACCTGGGGGAACTGTAAGGCTTACC
* *
825212 CTTACACACAGCAAAGGAACCTGGGGGAACTATAAGGCTTACC
1 CTTGCACACAGCAAAGGAACCTGGGGGAACTGTAAGGCTTACC
* * * *
825255 CTTGCACACATCAAAGGGACTTGGGGGAACTGTAAGGCATACC
1 CTTGCACACAGCAAAGGAACCTGGGGGAACTGTAAGGCTTACC
*
825298 CTTGCACACAGCAAAAGG-ACCTGGGGGAACTGTAAGACTTACC
1 CTTGCACACAGC-AAAGGAACCTGGGGGAACTGTAAGGCTTACC
*
825341 CTTACACACAGCAAAGG
1 CTTGCACACAGCAAAGG
825358 TGGATTATGT
Statistics
Matches: 165, Mismatches: 20, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
42 40 0.24
43 117 0.71
44 8 0.05
ACGTcount: A:0.33, C:0.25, G:0.25, T:0.17
Consensus pattern (43 bp):
CTTGCACACAGCAAAGGAACCTGGGGGAACTGTAAGGCTTACC
Found at i:837651 original size:54 final size:54
Alignment explanation
Indices: 837525--837867 Score: 431
Period size: 54 Copynumber: 6.4 Consensus size: 54
837515 TTCCGTAGGG
* ** **
837525 TGCACACGTAGTGCCGATACGGTTATTCAT-AACTCGTTATGAATTTCGTGGGT
1 TGCACACTTAGTGCCGATACGGTCGTTCATAAACTTATTATGAATTTCGTGGGT
* * * * *
837578 TGCACACTCAGTGCTGATACGGTCATTCATAAACTTATTATGAATTCCATGGGT
1 TGCACACTTAGTGCCGATACGGTCGTTCATAAACTTATTATGAATTTCGTGGGT
* * * * *
837632 TGTACATTTAGTGTCGATACGGTCGTTCATAAACTTATTATGAATTTTGTGGTT
1 TGCACACTTAGTGCCGATACGGTCGTTCATAAACTTATTATGAATTTCGTGGGT
* * * *
837686 TGTACACTTAGTGTCGATACGGTTGTTCATAAACTTATTATGAATTTCGTGGTT
1 TGCACACTTAGTGCCGATACGGTCGTTCATAAACTTATTATGAATTTCGTGGGT
* * * *
837740 TGTACACTTAGTGTCGATACGGTTGTTCATAAACGTATTATGAA-TTCTGTGGGT
1 TGCACACTTAGTGCCGATACGGTCGTTCATAAACTTATTATGAATTTC-GTGGGT
*
837794 TGCACACTTAGTGCCGATACGGTCGTTAATAAACTTATTATGAATTAT-GTGGGT
1 TGCACACTTAGTGCCGATACGGTCGTTCATAAACTTATTATGAATT-TCGTGGGT
837848 TGCACACTTAGTGCCGATAC
1 TGCACACTTAGTGCCGATAC
837868 ATAAAAAAAT
Statistics
Matches: 258, Mismatches: 28, Indels: 7
0.88 0.10 0.02
Matches are distributed among these distances:
53 29 0.11
54 227 0.88
55 1 0.00
56 1 0.00
ACGTcount: A:0.25, C:0.16, G:0.22, T:0.37
Consensus pattern (54 bp):
TGCACACTTAGTGCCGATACGGTCGTTCATAAACTTATTATGAATTTCGTGGGT
Found at i:837721 original size:27 final size:27
Alignment explanation
Indices: 837691--837773 Score: 71
Period size: 27 Copynumber: 3.1 Consensus size: 27
837681 TGGTTTGTAC
837691 ACTTAGTGTCGATACGGTTGTTCATAA
1 ACTTAGTGTCGATACGGTTGTTCATAA
* * * * ** *
837718 ACTTATTAT-GAATTTC-GTGGTTTGTAC
1 ACTTAGTGTCG-A-TACGGTTGTTCATAA
837745 ACTTAGTGTCGATACGGTTGTTCATAA
1 ACTTAGTGTCGATACGGTTGTTCATAA
837772 AC
1 AC
837774 GTATTATGAA
Statistics
Matches: 38, Mismatches: 14, Indels: 8
0.63 0.23 0.13
Matches are distributed among these distances:
26 3 0.08
27 32 0.84
28 3 0.08
ACGTcount: A:0.25, C:0.14, G:0.20, T:0.40
Consensus pattern (27 bp):
ACTTAGTGTCGATACGGTTGTTCATAA
Found at i:837814 original size:162 final size:161
Alignment explanation
Indices: 837525--837867 Score: 481
Period size: 162 Copynumber: 2.1 Consensus size: 161
837515 TTCCGTAGGG
* *
837525 TGCACACGTAGTGCCGATACGGTTATTCATAACTCGTTATGAATTTCGTGGGTTGCACACTCAGT
1 TGCACACTTAGTGCCGATACGGTTATTCATAACTCATTATGAATTTCGTGGGTTGCACACTCAGT
* * * *
837590 GCTGATACGGTCATTCATAAACTTATTATGAATTCCATGGGTTGTACATTTAGTGTCGATACGGT
66 GCTGATACGGTCATTCATAAACGTATTATGAATTCCATGGGTTGCACACTTAGTGCCGATACGGT
* * *
837655 CGTTCATAAACTTATTATGAATTTTGTGGTT
131 CGTTAATAAACTTATTATGAATTATGTGGGT
* * * * * * *
837686 TGTACACTTAGTGTCGATACGGTTGTTCATAAACTTATTATGAATTTCGTGGTTTGTACACTTAG
1 TGCACACTTAGTGCCGATACGGTTATTCAT-AACTCATTATGAATTTCGTGGGTTGCACACTCAG
** **
837751 TG-TCGATACGGTTGTTCATAAACGTATTATGAATTCTGTGGGTTGCACACTTAGTGCCGATACG
65 TGCT-GATACGGTCATTCATAAACGTATTATGAATTCCATGGGTTGCACACTTAGTGCCGATACG
837815 GTCGTTAATAAACTTATTATGAATTATGTGGGT
129 GTCGTTAATAAACTTATTATGAATTATGTGGGT
837848 TGCACACTTAGTGCCGATAC
1 TGCACACTTAGTGCCGATAC
837868 ATAAAAAAAT
Statistics
Matches: 158, Mismatches: 22, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
161 27 0.17
162 131 0.83
ACGTcount: A:0.25, C:0.16, G:0.22, T:0.37
Consensus pattern (161 bp):
TGCACACTTAGTGCCGATACGGTTATTCATAACTCATTATGAATTTCGTGGGTTGCACACTCAGT
GCTGATACGGTCATTCATAAACGTATTATGAATTCCATGGGTTGCACACTTAGTGCCGATACGGT
CGTTAATAAACTTATTATGAATTATGTGGGT
Found at i:839006 original size:8 final size:8
Alignment explanation
Indices: 838995--839021 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
838985 CTAAATTTCC
838995 CTTCCATT
1 CTTCCATT
839003 CTTCCATT
1 CTTCCATT
839011 CTTCCATT
1 CTTCCATT
839019 CTT
1 CTT
839022 AATAATTAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.11, C:0.37, G:0.00, T:0.52
Consensus pattern (8 bp):
CTTCCATT
Found at i:841271 original size:70 final size:70
Alignment explanation
Indices: 841165--841303 Score: 174
Period size: 70 Copynumber: 2.0 Consensus size: 70
841155 GGAATCGGTT
* * *
841165 CCCCCCTGGGGGTATCGGTTCCCTCAAGCAATCTGGAATTTCATATACGATG-AGGGGTATCGTT
1 CCCCCCTGGGGGTATCGATTCCCTCAAGCAATCTGGAAATTCAT-TACGATGAAGGGGTATCGGT
841229 TCCCCC
65 TCCCCC
** * * *
841235 CCCCCCT-GGGGTATCGATTCCCCTCTTGCATTCTGGAAATTCATTTCGTTGAAGGGGTATCGGT
1 CCCCCCTGGGGGTATCGATT-CCCTCAAGCAATCTGGAAATTCATTACGATGAAGGGGTATCGGT
841299 TCCCC
65 TCCCC
841304 TTGAATGGGT
Statistics
Matches: 59, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
69 16 0.27
70 43 0.73
ACGTcount: A:0.17, C:0.30, G:0.24, T:0.29
Consensus pattern (70 bp):
CCCCCCTGGGGGTATCGATTCCCTCAAGCAATCTGGAAATTCATTACGATGAAGGGGTATCGGTT
CCCCC
Found at i:841313 original size:21 final size:21
Alignment explanation
Indices: 841283--841325 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
841273 ATTCATTTCG
* *
841283 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
841304 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
841325 T
1 T
841326 ACCCAGAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.16, C:0.26, G:0.28, T:0.30
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:850809 original size:24 final size:22
Alignment explanation
Indices: 850767--850810 Score: 61
Period size: 24 Copynumber: 1.9 Consensus size: 22
850757 TTATATTTTT
*
850767 TTATTTTTTAATAATAAAAATA
1 TTATTTTTTAATAAAAAAAATA
850789 TTATTTTTAATAATAAAAAAAA
1 TTATTTTT--TAATAAAAAAAA
850811 CTTAATTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 8 0.42
24 11 0.58
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
TTATTTTTTAATAAAAAAAATA
Found at i:852774 original size:23 final size:23
Alignment explanation
Indices: 852748--852791 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
852738 TACACGTGTG
*
852748 AATAACCGTAGGGATCCCCGAAA
1 AATAACCATAGGGATCCCCGAAA
*
852771 AATAATCATAGGGATCCCCGA
1 AATAACCATAGGGATCCCCGA
852792 TATTTTACAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.39, C:0.25, G:0.20, T:0.16
Consensus pattern (23 bp):
AATAACCATAGGGATCCCCGAAA
Found at i:856880 original size:18 final size:18
Alignment explanation
Indices: 856857--856920 Score: 71
Period size: 18 Copynumber: 3.6 Consensus size: 18
856847 TTAATTGAAA
856857 AACCGAAAAACCGAACCG
1 AACCGAAAAACCGAACCG
856875 AACCGAAAAACCCGAACCG
1 AACCGAAAAA-CCGAACCG
*
856894 TTAA---AAAACCCGAACCG
1 --AACCGAAAAACCGAACCG
856911 AACCGAAAAA
1 AACCGAAAAA
856921 ACCGGTTTCG
Statistics
Matches: 38, Mismatches: 2, Indels: 12
0.73 0.04 0.23
Matches are distributed among these distances:
15 2 0.05
17 8 0.21
18 18 0.47
19 8 0.21
21 2 0.05
ACGTcount: A:0.52, C:0.31, G:0.14, T:0.03
Consensus pattern (18 bp):
AACCGAAAAACCGAACCG
Found at i:856891 original size:14 final size:14
Alignment explanation
Indices: 856872--856912 Score: 55
Period size: 17 Copynumber: 2.7 Consensus size: 14
856862 AAAAACCGAA
856872 CCGAACCGAAAAAC
1 CCGAACCGAAAAAC
856886 CCGAACCGTTAAAAAAC
1 CCGAACCG---AAAAAC
856903 CCGAACCGAA
1 CCGAACCGAA
856913 CCGAAAAAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
14 10 0.42
17 14 0.58
ACGTcount: A:0.46, C:0.34, G:0.15, T:0.05
Consensus pattern (14 bp):
CCGAACCGAAAAAC
Found at i:857196 original size:31 final size:31
Alignment explanation
Indices: 857155--857213 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
857145 AATTTGGTGC
*
857155 TAAATTTTAGATAAAAGATTAATTTAACCTA
1 TAAACTTTAGATAAAAGATTAATTTAACCTA
*
857186 TAAACTTTAGATAAAATATTAATTTAAC
1 TAAACTTTAGATAAAAGATTAATTTAAC
857214 TCTTGAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.49, C:0.07, G:0.05, T:0.39
Consensus pattern (31 bp):
TAAACTTTAGATAAAAGATTAATTTAACCTA
Found at i:860911 original size:23 final size:23
Alignment explanation
Indices: 860885--860957 Score: 71
Period size: 23 Copynumber: 3.2 Consensus size: 23
860875 CATAAATGAA
860885 ATGAATAACGGTGCATTAAAGGC
1 ATGAATAACGGTGCATTAAAGGC
* **
860908 ATGAA-AA-GATGCCA-TAAATGAA
1 ATGAATAACGGTG-CATTAAA-GGC
*
860930 ATGCATAACGGTGCATTAAAGGC
1 ATGAATAACGGTGCATTAAAGGC
860953 ATGAA
1 ATGAA
860958 AGGACACCAT
Statistics
Matches: 37, Mismatches: 8, Indels: 10
0.67 0.15 0.18
Matches are distributed among these distances:
21 7 0.19
22 9 0.24
23 14 0.38
24 7 0.19
ACGTcount: A:0.44, C:0.12, G:0.23, T:0.21
Consensus pattern (23 bp):
ATGAATAACGGTGCATTAAAGGC
Found at i:861036 original size:44 final size:45
Alignment explanation
Indices: 860875--861064 Score: 312
Period size: 45 Copynumber: 4.3 Consensus size: 45
860865 GTTTTTGTTA
* *
860875 CATAAATGAAATGAATAACGGTGCATTAAAGGCATGAAAAGATGC
1 CATAAATGAAATGCATAACGGTGCATTAAAGGCATGAAAGGATGC
**
860920 CATAAATGAAATGCATAACGGTGCATTAAAGGCATGAAAGGACAC
1 CATAAATGAAATGCATAACGGTGCATTAAAGGCATGAAAGGATGC
*
860965 CATAAATGAAATGCATAATGGTGCATTAAAGGCATGAAAGGATG-
1 CATAAATGAAATGCATAACGGTGCATTAAAGGCATGAAAGGATGC
*
861009 CATAAATGAAATGCATAACGGTACATTAAA-GCATGAAAGGATGC
1 CATAAATGAAATGCATAACGGTGCATTAAAGGCATGAAAGGATGC
861053 CATAAATGAAAT
1 CATAAATGAAAT
861065 AATGAATAAT
Statistics
Matches: 135, Mismatches: 9, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
43 13 0.10
44 40 0.30
45 82 0.61
ACGTcount: A:0.46, C:0.12, G:0.22, T:0.21
Consensus pattern (45 bp):
CATAAATGAAATGCATAACGGTGCATTAAAGGCATGAAAGGATGC
Found at i:866488 original size:17 final size:18
Alignment explanation
Indices: 866455--866488 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
866445 ATAAATGTTA
*
866455 AAGTATAAGGAATAATTT
1 AAGTAAAAGGAATAATTT
866473 AAGTAAAAGG-ATAATT
1 AAGTAAAAGGAATAATT
866489 GAAAGGGTAT
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:0.53, C:0.00, G:0.18, T:0.29
Consensus pattern (18 bp):
AAGTAAAAGGAATAATTT
Found at i:867716 original size:45 final size:45
Alignment explanation
Indices: 867647--867974 Score: 521
Period size: 45 Copynumber: 7.3 Consensus size: 45
867637 GTTTTTATTA
** * *
867647 CATAAATGAAATGCATAATAGTGCATTAAAGGCAAGAAAGGATGT
1 CATAAATGAAATGCATAACGGTGCATTAAAGGCATGAAAGGATGC
*
867692 CATAAATGAAATGCATAACGGTGCATTAAAGGCATGAAAGGATGT
1 CATAAATGAAATGCATAACGGTGCATTAAAGGCATGAAAGGATGC
* * *
867737 CATAAATGAAATGTATAACGGCGCATTAAAGGCATGAAATGATGC
1 CATAAATGAAATGCATAACGGTGCATTAAAGGCATGAAAGGATGC
*
867782 CATAAATGAAATGCATAACAGTGCATTAAAGGCATGAAAGGATGC
1 CATAAATGAAATGCATAACGGTGCATTAAAGGCATGAAAGGATGC
* *
867827 CATAAATGAAATGCATAACGGTGCATTAAAGTCATGAAAGGATAC
1 CATAAATGAAATGCATAACGGTGCATTAAAGGCATGAAAGGATGC
*
867872 CATAAATGAAATGCATAACGGTGCATTAAAGGTATGAAAGGATGC
1 CATAAATGAAATGCATAACGGTGCATTAAAGGCATGAAAGGATGC
* *
867917 CATAAATGAAATGCATAACGGTGCAATAAAAGCATGAAAGGATGC
1 CATAAATGAAATGCATAACGGTGCATTAAAGGCATGAAAGGATGC
867962 CATAAATGGAAAT
1 CATAAAT-GAAAT
867975 AATGAATAAT
Statistics
Matches: 262, Mismatches: 20, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
45 257 0.98
46 5 0.02
ACGTcount: A:0.45, C:0.12, G:0.22, T:0.21
Consensus pattern (45 bp):
CATAAATGAAATGCATAACGGTGCATTAAAGGCATGAAAGGATGC
Found at i:868988 original size:14 final size:14
Alignment explanation
Indices: 868965--868995 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
868955 AAAATATTAA
868965 ATTTAATAATTTTT
1 ATTTAATAATTTTT
*
868979 ATTTATTAATTTTT
1 ATTTAATAATTTTT
868993 ATT
1 ATT
868996 AAAAATAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (14 bp):
ATTTAATAATTTTT
Found at i:875259 original size:141 final size:141
Alignment explanation
Indices: 875045--875513 Score: 524
Period size: 140 Copynumber: 3.3 Consensus size: 141
875035 AACTTAGCTA
* * * * * *
875045 AATTTAGGTGAATTTTTAATTTGGTCC--CCGCTTTTT-CTTGGGGTTCCAATTTAATTATTCGA
1 AATTTAGGTGAATTTTTAATTTGGTCCTTGCACTTTTTGCTCGAGGTTACAATTTAATTATTTGA
* * *
875107 TTCAATGAAATTTCTAAACTTTGTTAGGTTTTAATATTAGAGCCTTCACTTTAGGTTTAACTTCA
66 TTCAATAAAATTTCTAAAATTTGTTACGTTTTAATATTAGAGCCTTCACTTTAGGTTTAA-TTCA
*
875172 CCTTAGCCCTTT
130 CCTTAGTCCTTT
* *
875184 AATTTAAGTGAATTTTTAATTTGGTCCTTGC-CTTTTTACTCGAGGTTACAATTTAATTATTTGA
1 AATTTAGGTGAATTTTTAATTTGGTCCTTGCACTTTTTGCTCGAGGTTACAATTTAATTATTTGA
* * *
875248 TTCAATAAAATTTCTAAAATTTGTTACGTTCTAATATTAGAGCCTTCACTCTAGG-TTAATATTA
66 TTCAATAAAATTTCTAAAATTTGTTACGTTTTAATATTAGAGCCTTCACTTTAGGTTTAAT-TCA
875312 CCTTAGTCCTTT
130 CCTTAGTCCTTT
* * * * * * *
875324 AATCTGGGTGAATTTTTTATTTGG-GCTT-CTATTTTTTGTTCGAGGTTTCAATTTAATTATTTG
1 AATTTAGGTGAATTTTTAATTTGGTCCTTGC-ACTTTTTGCTCGAGGTTACAATTTAATTATTTG
* * *
875387 ATTCAATAAAAATTT-TAAAATTGGTTACTTTTTTATATTATG-GCCTTCACTTTAGGTTTTAAT
65 ATTCAAT-AAAATTTCTAAAATTTGTTACGTTTTAATATTA-GAGCCTTCACTTTAGG-TTTAA-
**
875450 TTCGTCTTAGTCCTTT
126 TTCACCTTAGTCCTTT
* * * *
875466 AATTTAGGTAAAATTTTAATTTAGTCCTTGACATTTTTTGCTCGAGGT
1 AATTTAGGTGAATTTTTAATTTGGTCCTTG-CACTTTTTGCTCGAGGT
875514 CATTGTTTTG
Statistics
Matches: 278, Mismatches: 38, Indels: 23
0.82 0.11 0.07
Matches are distributed among these distances:
138 1 0.00
139 30 0.11
140 112 0.40
141 81 0.29
142 34 0.12
143 4 0.01
144 15 0.05
145 1 0.00
ACGTcount: A:0.25, C:0.13, G:0.14, T:0.48
Consensus pattern (141 bp):
AATTTAGGTGAATTTTTAATTTGGTCCTTGCACTTTTTGCTCGAGGTTACAATTTAATTATTTGA
TTCAATAAAATTTCTAAAATTTGTTACGTTTTAATATTAGAGCCTTCACTTTAGGTTTAATTCAC
CTTAGTCCTTT
Found at i:877209 original size:59 final size:59
Alignment explanation
Indices: 877071--877216 Score: 152
Period size: 60 Copynumber: 2.5 Consensus size: 59
877061 AACATAATGA
* * * * * **
877071 ATAGTCGGATGACCATTTTGTAACTTTTAATAGTCGAGGACTTAATAAGGCAACATTCT
1 ATAGTCGAAGGACCATTTTGTAACTTTCAATAGTCAAGGACTTAATAAAGCAACACCCT
* * *
877130 ATAGTCGAAGGATCATTTTGTAACTTTCAATAGTCAAGGGACTTAATAAAGTAATACCCT
1 ATAGTCGAAGGACCATTTTGTAACTTTCAATAGTCAA-GGACTTAATAAAGCAACACCCT
*
877190 ATAGTC-AGGGGACCATTTGTGT-ACTTT
1 ATAGTCGA-AGGACCATTT-TGTAACTTT
877217 ACTCTATTTT
Statistics
Matches: 72, Mismatches: 12, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
59 33 0.46
60 36 0.50
61 3 0.04
ACGTcount: A:0.32, C:0.15, G:0.19, T:0.34
Consensus pattern (59 bp):
ATAGTCGAAGGACCATTTTGTAACTTTCAATAGTCAAGGACTTAATAAAGCAACACCCT
Found at i:879953 original size:19 final size:20
Alignment explanation
Indices: 879890--879957 Score: 70
Period size: 20 Copynumber: 3.5 Consensus size: 20
879880 GGCTGCTGGA
*
879890 AACCGGTTT-AACCGTTTTCA
1 AACCGGTTTCAACCG-TTTCG
* *
879910 AACCGGTTTCTGACCGTTTTG
1 AACCGGTTTC-AACCGTTTCG
879931 -ACCGGTTTCAACCG-TTCG
1 AACCGGTTTCAACCGTTTCG
879949 AACCGGTTT
1 AACCGGTTT
879958 GACCGGTCTA
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
18 3 0.08
19 12 0.30
20 18 0.45
21 3 0.08
22 4 0.10
ACGTcount: A:0.19, C:0.26, G:0.21, T:0.34
Consensus pattern (20 bp):
AACCGGTTTCAACCGTTTCG
Found at i:879993 original size:5 final size:5
Alignment explanation
Indices: 879983--880059 Score: 73
Period size: 5 Copynumber: 14.2 Consensus size: 5
879973 TTTGACCGGT
* *
879983 CCGAC CCGAC CCGAC CTTTGAC CCGAC CCGAC CCGAC CGTTGAC CCGAC
1 CCGAC CCGAC CCGAC C--CGAC CCGAC CCGAC CCGAC C--CGAC CCGAC
*
880032 CCGAC CCGAC CGTTGAC CCGAC CCGAC C
1 CCGAC CCGAC C--CGAC CCGAC CCGAC C
880060 GTTGACCGAC
Statistics
Matches: 60, Mismatches: 6, Indels: 12
0.77 0.08 0.15
Matches are distributed among these distances:
5 48 0.80
7 12 0.20
ACGTcount: A:0.18, C:0.52, G:0.21, T:0.09
Consensus pattern (5 bp):
CCGAC
Found at i:880008 original size:22 final size:22
Alignment explanation
Indices: 879983--880059 Score: 145
Period size: 22 Copynumber: 3.5 Consensus size: 22
879973 TTTGACCGGT
*
879983 CCGACCCGACCCGACCTTTGAC
1 CCGACCCGACCCGACCGTTGAC
880005 CCGACCCGACCCGACCGTTGAC
1 CCGACCCGACCCGACCGTTGAC
880027 CCGACCCGACCCGACCGTTGAC
1 CCGACCCGACCCGACCGTTGAC
880049 CCGACCCGACC
1 CCGACCCGACC
880060 GTTGACCGAC
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
22 54 1.00
ACGTcount: A:0.18, C:0.52, G:0.21, T:0.09
Consensus pattern (22 bp):
CCGACCCGACCCGACCGTTGAC
Found at i:880027 original size:17 final size:17
Alignment explanation
Indices: 880007--880070 Score: 76
Period size: 17 Copynumber: 3.5 Consensus size: 17
879997 CCTTTGACCC
880007 GACCCGACCCGACCGTT
1 GACCCGACCCGACCGTT
880024 GACCCGACCCGACCCGACCGTT
1 G-----ACCCGACCCGACCGTT
880046 GACCCGACCCGACCGTT
1 GACCCGACCCGACCGTT
880063 GA-CCGACC
1 GACCCGACC
880071 GTTGACTTTC
Statistics
Matches: 42, Mismatches: 0, Indels: 11
0.79 0.00 0.21
Matches are distributed among these distances:
16 6 0.14
17 19 0.45
22 17 0.40
ACGTcount: A:0.19, C:0.48, G:0.23, T:0.09
Consensus pattern (17 bp):
GACCCGACCCGACCGTT
Found at i:887168 original size:9 final size:9
Alignment explanation
Indices: 887154--887247 Score: 71
Period size: 10 Copynumber: 9.8 Consensus size: 9
887144 GGCTGCTGGA
887154 AACCGGTTT
1 AACCGGTTT
887163 AACCGGTTTT
1 AACCGG-TTT
887173 CAACCGGTTCT
1 -AACCGGTT-T
*
887184 GACCGGTTT
1 AACCGGTTT
*
887193 GACCGGTTT
1 AACCGGTTT
*
887202 CAACCGGTTCG
1 -AACCGGTT-T
887213 AACCGGTTT
1 AACCGGTTT
* *
887222 GACCGGTCTA
1 AACCGGT-TT
*
887232 AATCGGTTT
1 AACCGGTTT
*
887241 GACCGGT
1 AACCGGT
887248 CCGACCCGAC
Statistics
Matches: 68, Mismatches: 11, Indels: 12
0.75 0.12 0.13
Matches are distributed among these distances:
9 28 0.41
10 33 0.49
11 7 0.10
ACGTcount: A:0.18, C:0.26, G:0.27, T:0.30
Consensus pattern (9 bp):
AACCGGTTT
Found at i:887199 original size:19 final size:20
Alignment explanation
Indices: 887153--887247 Score: 81
Period size: 19 Copynumber: 4.8 Consensus size: 20
887143 TGGCTGCTGG
* *
887153 AAACCGGTTTAACCGGTTTT
1 AAACCGGTTTGACCGGTTCT
*
887173 CAACCGGTTCTGACCGGTT-T
1 AAACCGGTT-TGACCGGTTCT
* *
887193 -GACCGGTTTCAACCGGTTC-
1 AAACCGGTTT-GACCGGTTCT
*
887212 GAACCGGTTTGACCGG-TCT
1 AAACCGGTTTGACCGGTTCT
*
887231 AAATCGGTTTGACCGGT
1 AAACCGGTTTGACCGGT
887248 CCGACCCGAC
Statistics
Matches: 61, Mismatches: 8, Indels: 12
0.75 0.10 0.15
Matches are distributed among these distances:
18 3 0.05
19 33 0.54
20 17 0.28
21 8 0.13
ACGTcount: A:0.19, C:0.25, G:0.26, T:0.29
Consensus pattern (20 bp):
AAACCGGTTTGACCGGTTCT
Found at i:887217 original size:29 final size:30
Alignment explanation
Indices: 887154--887228 Score: 118
Period size: 29 Copynumber: 2.5 Consensus size: 30
887144 GGCTGCTGGA
*
887154 AACCGGTTTAACCGGTTTTCAACCGGTTCTG
1 AACCGGTTTGACCGG-TTTCAACCGGTTCTG
887185 -ACCGGTTTGACCGGTTTCAACCGGTTC-G
1 AACCGGTTTGACCGGTTTCAACCGGTTCTG
887213 AACCGGTTTGACCGGT
1 AACCGGTTTGACCGGT
887229 CTAAATCGGT
Statistics
Matches: 42, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
28 1 0.02
29 28 0.67
30 13 0.31
ACGTcount: A:0.17, C:0.27, G:0.27, T:0.29
Consensus pattern (30 bp):
AACCGGTTTGACCGGTTTCAACCGGTTCTG
Found at i:887238 original size:29 final size:28
Alignment explanation
Indices: 887155--887247 Score: 96
Period size: 29 Copynumber: 3.2 Consensus size: 28
887145 GCTGCTGGAA
* * *
887155 ACCGGTTTAACCGGTTTTCAACCGGTTCTG
1 ACCGGTTTGACCGG-TCTAAACCGGTTC-G
* *
887185 ACCGGTTTGACCGGTTTCAACCGGTTCG
1 ACCGGTTTGACCGGTCTAAACCGGTTCG
* *
887213 AACCGGTTTGACCGGTCTAAATCGGTTTG
1 -ACCGGTTTGACCGGTCTAAACCGGTTCG
887242 ACCGGT
1 ACCGGT
887248 CCGACCCGAC
Statistics
Matches: 57, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
28 7 0.12
29 37 0.65
30 13 0.23
ACGTcount: A:0.17, C:0.26, G:0.27, T:0.30
Consensus pattern (28 bp):
ACCGGTTTGACCGGTCTAAACCGGTTCG
Found at i:887258 original size:5 final size:5
Alignment explanation
Indices: 887248--887323 Score: 64
Period size: 5 Copynumber: 14.2 Consensus size: 5
887238 TTTGACCGGT
* *
887248 CCGAC CCGA- CCGAC CTTTGAC CCGAC CCGAC CCGAC CGTTGAC CCGAC
1 CCGAC CCGAC CCGAC C--CGAC CCGAC CCGAC CCGAC C--CGAC CCGAC
*
887296 CCGAC CCGAC CGTTGAC CCGAC CCGAC C
1 CCGAC CCGAC C--CGAC CCGAC CCGAC C
887324 GTTGACCGTT
Statistics
Matches: 58, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
4 4 0.07
5 42 0.72
7 12 0.21
ACGTcount: A:0.18, C:0.51, G:0.21, T:0.09
Consensus pattern (5 bp):
CCGAC
Found at i:887289 original size:22 final size:22
Alignment explanation
Indices: 887248--887337 Score: 137
Period size: 22 Copynumber: 4.0 Consensus size: 22
887238 TTTGACCGGT
*
887248 CCGACCCGA-CCGACCTTTGAC
1 CCGACCCGACCCGACCGTTGAC
887269 CCGACCCGACCCGACCGTTGAC
1 CCGACCCGACCCGACCGTTGAC
887291 CCGACCCGACCCGACCGTTGAC
1 CCGACCCGACCCGACCGTTGAC
*
887313 CCGACCCGACCGTTGACCGTTGAC
1 CCGACCCGACC--CGACCGTTGAC
887337 C
1 C
887338 GTTGACTTTC
Statistics
Matches: 64, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
21 9 0.14
22 44 0.69
24 11 0.17
ACGTcount: A:0.18, C:0.48, G:0.22, T:0.12
Consensus pattern (22 bp):
CCGACCCGACCCGACCGTTGAC
Found at i:887291 original size:17 final size:17
Alignment explanation
Indices: 887271--887330 Score: 75
Period size: 17 Copynumber: 3.2 Consensus size: 17
887261 CCTTTGACCC
887271 GACCCGACCCGACCGTT
1 GACCCGACCCGACCGTT
887288 GACCCGACCCGACCCGACCGTT
1 G-----ACCCGACCCGACCGTT
887310 GACCCGACCCGACCGTT
1 GACCCGACCCGACCGTT
887327 GACC
1 GACC
887331 GTTGACCGTT
Statistics
Matches: 38, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
17 21 0.55
22 17 0.45
ACGTcount: A:0.18, C:0.48, G:0.23, T:0.10
Consensus pattern (17 bp):
GACCCGACCCGACCGTT
Found at i:891392 original size:22 final size:24
Alignment explanation
Indices: 891344--891392 Score: 66
Period size: 22 Copynumber: 2.1 Consensus size: 24
891334 AGTTATTTTA
*
891344 TTTTTTATATTATGTCTTTATATT
1 TTTTTTATATTATGTCTTTATAAT
*
891368 TTTTTTAT-TTA-GTCTTTTTAAT
1 TTTTTTATATTATGTCTTTATAAT
891390 TTT
1 TTT
891393 GAATAAACAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 12 0.52
23 3 0.13
24 8 0.35
ACGTcount: A:0.18, C:0.04, G:0.04, T:0.73
Consensus pattern (24 bp):
TTTTTTATATTATGTCTTTATAAT
Found at i:891687 original size:19 final size:19
Alignment explanation
Indices: 891646--891687 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
891636 AAATAGAAGG
* *
891646 TTTTAATTTTTTTTTGTAT
1 TTTTAATTTTTTATTGTAC
891665 TTTTAAGTTTTTTATT-TAC
1 TTTTAA-TTTTTTATTGTAC
891684 TTTT
1 TTTT
891688 CTTCGAGTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.17, C:0.02, G:0.05, T:0.76
Consensus pattern (19 bp):
TTTTAATTTTTTATTGTAC
Found at i:892054 original size:17 final size:17
Alignment explanation
Indices: 892032--892065 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
892022 TCATTCTGTC
892032 ATATTCT-ATTTATATAT
1 ATATTCTGATTT-TATAT
892049 ATATTCTGATTTTATAT
1 ATATTCTGATTTTATAT
892066 TTAACTTTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.32, C:0.06, G:0.03, T:0.59
Consensus pattern (17 bp):
ATATTCTGATTTTATAT
Found at i:895177 original size:20 final size:19
Alignment explanation
Indices: 895145--895192 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
895135 GTCAATATGT
*
895145 AATTTTCTTTTTTACTTTGG
1 AATTTT-TTTTTTAATTTGG
*
895165 AATTTTTTATTTTAATTTTG
1 AATTTTTT-TTTTAATTTGG
895185 AATATTTT
1 AAT-TTTT
895193 GTAGAAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 18 0.75
21 4 0.17
ACGTcount: A:0.23, C:0.04, G:0.06, T:0.67
Consensus pattern (19 bp):
AATTTTTTTTTTAATTTGG
Found at i:898606 original size:19 final size:19
Alignment explanation
Indices: 898584--898648 Score: 66
Period size: 19 Copynumber: 3.6 Consensus size: 19
898574 CTTCTATTTG
*
898584 TAATATTATTTAATAATAA
1 TAATATTATATAATAATAA
*
898603 TAATATTA-ATAAT-AT-C
1 TAATATTATATAATAATAA
898619 TAATATTATAT-ATAATAA
1 TAATATTATATAATAATAA
*
898637 TATATATAATAT
1 TA-ATATTATAT
898649 TAACGATACT
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
16 10 0.26
17 6 0.16
18 6 0.16
19 16 0.42
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (19 bp):
TAATATTATATAATAATAA
Found at i:898612 original size:12 final size:13
Alignment explanation
Indices: 898584--898647 Score: 62
Period size: 12 Copynumber: 5.2 Consensus size: 13
898574 CTTCTATTTG
* *
898584 TAATATTATTTAA
1 TAATAATATATAA
*
898597 TAATAATA-ATAT
1 TAATAATATATAA
*
898609 TAATAATATCTAA
1 TAATAATATATAA
*
898622 T-ATTATATATAA
1 TAATAATATATAA
898634 TAAT-ATATATAA
1 TAATAATATATAA
898646 TA
1 TA
898648 TTAACGATAC
Statistics
Matches: 42, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
12 30 0.71
13 12 0.29
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (13 bp):
TAATAATATATAA
Found at i:898613 original size:15 final size:15
Alignment explanation
Indices: 898593--898639 Score: 60
Period size: 15 Copynumber: 3.1 Consensus size: 15
898583 GTAATATTAT
898593 TTAATAATAATAATA
1 TTAATAATAATAATA
*
898608 TTAATAATATCTAATA
1 TTAATAATA-ATAATA
898624 TT-ATATATAATAATA
1 TTAATA-ATAATAATA
898639 T
1 T
898640 ATATAATATT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
15 18 0.64
16 10 0.36
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (15 bp):
TTAATAATAATAATA
Found at i:899063 original size:174 final size:173
Alignment explanation
Indices: 898774--899193 Score: 628
Period size: 174 Copynumber: 2.4 Consensus size: 173
898764 GCTTGTTGAG
* ** *
898774 AAATTCGTTCCACTACTCTTTCGTGGAGATC-GAACTTTGATCTTGTTCTTGCTTCACTACTCTT
1 AAATTCGTTCCACTACTCTTCCGTGGAGATCTGATTTTTTATCTTGTT-TTGCTTCACTACTCTT
** *
898838 TTGTGAAGGCTGAAGATGACTTGCAAATGACTTACTTCACTACTCTTCTGTGAAGGTTGAATTTG
65 CCGTGAAGGCTGAAGATGACTTGCAAATGACTTACTTCACTACTCTTCTGTGAAGGCTGAATTT-
*
898903 T-ATTACTTCATTACTCTTTCATGAAGGCTTCATACTTTGCTGAA
129 TCATTACTTCATTACTCTTTCATGAAAGCTTCATACTTTGCTGAA
898947 AAATTCGTTCCACTACTCTTCCGTGGAGATCTGATTTTTTATCTTGCTTTTGCTTCACTACTCTT
1 AAATTCGTTCCACTACTCTTCCGTGGAGATCTGATTTTTTATCTTG-TTTTGCTTCACTACTCTT
* * * *
899012 CCCTGAAGGCTGAATATGATTTGCAAATGACTTGCTTCACTACTCTTCTGTGAAGGCTGAATTTT
65 CCGTGAAGGCTGAAGATGACTTGCAAATGACTTACTTCACTACTCTTCTGTGAAGGCTGAATTTT
* * *
899077 CATTACTTCATTACTTTTTCATGAAAGTTTCATACTTTGTTGAA
130 CATTACTTCATTACTCTTTCATGAAAGCTTCATACTTTGCTGAA
* * *
899121 AAATCCGTTCCACTACTCTTCCGTGGAGATCTAATTTTTTATCTTATTTTTGCTTCACTACTCTT
1 AAATTCGTTCCACTACTCTTCCGTGGAGATCTGATTTTTTATCTT-GTTTTGCTTCACTACTCTT
899186 CCGTGAAG
65 CCGTGAAG
899194 TTTAATTTGA
Statistics
Matches: 224, Mismatches: 19, Indels: 7
0.90 0.08 0.03
Matches are distributed among these distances:
173 31 0.14
174 191 0.85
175 2 0.01
ACGTcount: A:0.22, C:0.21, G:0.15, T:0.41
Consensus pattern (173 bp):
AAATTCGTTCCACTACTCTTCCGTGGAGATCTGATTTTTTATCTTGTTTTGCTTCACTACTCTTC
CGTGAAGGCTGAAGATGACTTGCAAATGACTTACTTCACTACTCTTCTGTGAAGGCTGAATTTTC
ATTACTTCATTACTCTTTCATGAAAGCTTCATACTTTGCTGAA
Found at i:899302 original size:20 final size:19
Alignment explanation
Indices: 899279--899341 Score: 90
Period size: 20 Copynumber: 3.2 Consensus size: 19
899269 GGTTTTACCT
899279 ATGACTCGGAGGCTTTACAA
1 ATGAC-CGGAGGCTTTACAA
899299 ATGACCCGGAGGCTTTACAA
1 ATGA-CCGGAGGCTTTACAA
*
899319 ATGACCTGGAGGTTTTACAA
1 ATGACC-GGAGGCTTTACAA
899339 ATG
1 ATG
899342 GTGGGAAATA
Statistics
Matches: 40, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
19 2 0.05
20 37 0.93
21 1 0.03
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.25
Consensus pattern (19 bp):
ATGACCGGAGGCTTTACAA
Found at i:899630 original size:17 final size:19
Alignment explanation
Indices: 899598--899632 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
899588 TGTATCAATG
899598 AAATGCATGATTTTTATGC
1 AAATGCATGATTTTTATGC
899617 AAATG-ATG-TTTTTATG
1 AAATGCATGATTTTTATG
899633 AATGCATCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
18 3 0.19
19 5 0.31
ACGTcount: A:0.31, C:0.06, G:0.17, T:0.46
Consensus pattern (19 bp):
AAATGCATGATTTTTATGC
Found at i:907504 original size:22 final size:23
Alignment explanation
Indices: 907479--907524 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
907469 GAGTCTGGAT
*
907479 CGGGCTCGGATTTG-GTTGTAAC
1 CGGGCTCGAATTTGCGTTGTAAC
* *
907501 CGGGCTTGAATTTGCTTTGTAAC
1 CGGGCTCGAATTTGCGTTGTAAC
907524 C
1 C
907525 TGGCCTCCTC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.15, C:0.20, G:0.30, T:0.35
Consensus pattern (23 bp):
CGGGCTCGAATTTGCGTTGTAAC
Found at i:907583 original size:9 final size:9
Alignment explanation
Indices: 907558--907628 Score: 55
Period size: 9 Copynumber: 8.3 Consensus size: 9
907548 GCTTCCATTT
907558 ATAATATTA
1 ATAATATTA
*
907567 TTTAATATTA
1 -ATAATATTA
907577 ATAATATTA
1 ATAATATTA
*
907586 AAAATA-T-
1 ATAATATTA
907593 ATAATATT-
1 ATAATATTA
907601 A-AATA-TA
1 ATAATATTA
*
907608 ACAATA-TA
1 ATAATATTA
907616 TATAATATTA
1 -ATAATATTA
907626 ATA
1 ATA
907629 TTACTCGGAC
Statistics
Matches: 51, Mismatches: 5, Indels: 11
0.76 0.07 0.16
Matches are distributed among these distances:
6 1 0.02
7 10 0.20
8 9 0.18
9 21 0.41
10 10 0.20
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.42
Consensus pattern (9 bp):
ATAATATTA
Found at i:907584 original size:16 final size:16
Alignment explanation
Indices: 907559--907628 Score: 54
Period size: 16 Copynumber: 4.3 Consensus size: 16
907549 CTTCCATTTA
*
907559 TAATATTATTTAATAT
1 TAATAATATTTAATAT
* *
907575 TAATAATA-TTAAAAA
1 TAATAATATTTAATAT
*
907590 TATATAATATTAAATA-
1 TA-ATAATATTTAATAT
*
907606 TAACAATATATATAATAT
1 TAATAATAT-T-TAATAT
907624 TAATA
1 TAATA
907629 TTACTCGGAC
Statistics
Matches: 41, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
15 13 0.32
16 16 0.39
17 8 0.20
18 4 0.10
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (16 bp):
TAATAATATTTAATAT
Found at i:907616 original size:22 final size:25
Alignment explanation
Indices: 907585--907631 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
907575 TAATAATATT
907585 AAAA-ATATATAATATTAAATA-TA
1 AAAATATATATAATATTAAATATTA
*
907608 ACAATATATATAATATT-AATATTA
1 AAAATATATATAATATTAAATATTA
907632 CTCGGACAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 7 0.33
24 14 0.67
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (25 bp):
AAAATATATATAATATTAAATATTA
Found at i:907726 original size:27 final size:27
Alignment explanation
Indices: 907684--907746 Score: 108
Period size: 27 Copynumber: 2.3 Consensus size: 27
907674 AATTACATAT
907684 ATCCGAATAACGTATATCTGATGTCTG
1 ATCCGAATAACGTATATCTGATGTCTG
* *
907711 ATCTGAATAACGTATATGTGATGTCTG
1 ATCCGAATAACGTATATCTGATGTCTG
907738 ATCCGAATA
1 ATCCGAATA
907747 GCAATATTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.33
Consensus pattern (27 bp):
ATCCGAATAACGTATATCTGATGTCTG
Found at i:914033 original size:20 final size:20
Alignment explanation
Indices: 913943--914030 Score: 122
Period size: 20 Copynumber: 4.4 Consensus size: 20
913933 TGAAGAATAA
*
913943 TATCGATATTGTTCTTCTAG
1 TATCGATATTGTTCTTCCAG
* * * *
913963 TGTCGATATTATTTTTTCAG
1 TATCGATATTGTTCTTCCAG
913983 TATCGATATTGTTCTTCCAG
1 TATCGATATTGTTCTTCCAG
*
914003 TATCGATACTGTTCTTCCAG
1 TATCGATATTGTTCTTCCAG
914023 TATCGATA
1 TATCGATA
914031 CTGACAGACC
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 58 1.00
ACGTcount: A:0.22, C:0.17, G:0.15, T:0.47
Consensus pattern (20 bp):
TATCGATATTGTTCTTCCAG
Found at i:917805 original size:17 final size:17
Alignment explanation
Indices: 917755--917826 Score: 74
Period size: 17 Copynumber: 4.2 Consensus size: 17
917745 CAATTAGAGT
* *
917755 TAGTTTAATAAATGAAT
1 TAGTTTAATTAATGAAC
* *
917772 TAGTTTGATGAATGAAC
1 TAGTTTAATTAATGAAC
917789 TAGTTTAATTAATGAAC
1 TAGTTTAATTAATGAAC
*
917806 TAACTTT-ATTCAATGAAC
1 T-AGTTTAATT-AATGAAC
917824 TAG
1 TAG
917827 ATGCATGAAT
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
17 34 0.74
18 12 0.26
ACGTcount: A:0.40, C:0.07, G:0.14, T:0.39
Consensus pattern (17 bp):
TAGTTTAATTAATGAAC
Found at i:917820 original size:18 final size:18
Alignment explanation
Indices: 917782--917825 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
917772 TAGTTTGATG
*
917782 AATGAACT-AGTTTAATT
1 AATGAACTAACTTTAATT
917799 AATGAACTAACTTT-ATT
1 AATGAACTAACTTTAATT
917816 CAATGAACTA
1 -AATGAACTA
917826 GATGCATGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 11 0.46
18 13 0.54
ACGTcount: A:0.43, C:0.11, G:0.09, T:0.36
Consensus pattern (18 bp):
AATGAACTAACTTTAATT
Found at i:921679 original size:17 final size:17
Alignment explanation
Indices: 921657--921706 Score: 73
Period size: 17 Copynumber: 2.9 Consensus size: 17
921647 TAAGAGTTAA
921657 TTTGATAAATGAACTAG
1 TTTGATAAATGAACTAG
*
921674 TTTGATGAATGAACTAG
1 TTTGATAAATGAACTAG
* *
921691 TTTAATTAATGAACTA
1 TTTGATAAATGAACTA
921707 ACTTTATTCA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 30 1.00
ACGTcount: A:0.40, C:0.06, G:0.16, T:0.38
Consensus pattern (17 bp):
TTTGATAAATGAACTAG
Found at i:921719 original size:18 final size:18
Alignment explanation
Indices: 921681--921724 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
921671 TAGTTTGATG
*
921681 AATGAACT-AGTTTAATT
1 AATGAACTAACTTTAATT
921698 AATGAACTAACTTT-ATT
1 AATGAACTAACTTTAATT
921715 CAATGAACTA
1 -AATGAACTA
921725 GATGCATGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 11 0.46
18 13 0.54
ACGTcount: A:0.43, C:0.11, G:0.09, T:0.36
Consensus pattern (18 bp):
AATGAACTAACTTTAATT
Found at i:926213 original size:54 final size:53
Alignment explanation
Indices: 926025--926724 Score: 635
Period size: 54 Copynumber: 13.2 Consensus size: 53
926015 TCGTCCCTCA
* ** * *
926025 AACAATC-T-TGCATACGGGTTCGCTCCTCTTGC-TCAGGGAGTA-GAACTCG
1 AACAATCTTCTGCCTACGGGTTCATTCCTCTTTCTTTAGGGAGTAGGAACTCG
* * *
926074 AATAATCTTCTGCTTACGGGTTCACTTCCTC-TTCTTTAGGGAGTA-GAACTTG
1 AACAATCTTCTGCCTACGGGTTCA-TTCCTCTTTCTTTAGGGAGTAGGAACTCG
* * *
926126 AAC-ATCTT-TGCCAATGGGTTCGTTCCCTCTTTCTTTCAGGGAGTAGGAACTCG
1 AACAATCTTCTGCCTACGGGTTCATT-CCTCTTTCTTT-AGGGAGTAGGAACTCG
* * * * *
926179 AATATTCTTCTGCCCATGGGTTCATTCCTCTTTCTTTCAGGGAGTA-GAACTCA
1 AACAATCTTCTGCCTACGGGTTCATTCCTCTTTCTTT-AGGGAGTAGGAACTCG
* ** *
926232 AACAA---TCTGCCTACGTGTTCGCTCC-CTTTTCTTTCAGGGAGTAGAAACTC-
1 AACAATCTTCTGCCTACGGGTTCATTCCTC-TTTCTTT-AGGGAGTAGGAACTCG
* * * *
926282 AAC-ATATTCTG-CAACGGGTTCGCTCCCTCTTTCTTTCAGGGAGTAGGAACTCG
1 AACAATCTTCTGCCTACGGGTTC-ATTCCTCTTTCTTT-AGGGAGTAGGAACTCG
* * *** *
926335 ATCAATCTTCTGCTTACATATTCACTCCCTCTTTCTTTAGGGAGTAGGAACTCG
1 AACAATCTTCTGCCTACGGGTTCA-TTCCTCTTTCTTTAGGGAGTAGGAACTCG
* * * * * * * *
926389 AACAATATTTTGCTTACAGGTTCGTTCCCTCTTTCTTTAGGAAGTAGGAATTCA
1 AACAATCTTCTGCCTACGGGTTCATT-CCTCTTTCTTTAGGGAGTAGGAACTCG
* * *
926443 AACAATCTTCTGCCTACGAGTTC-TCTCCCTCTTTCTTTAAGGAGTACGAACTCG
1 AACAATCTTCTGCCTACGGGTTCAT-T-CCTCTTTCTTTAGGGAGTAGGAACTCG
* * * * *
926497 AACAATCTTCTGTCTACGGGTTCGCTCCCTCTTTCTTTAGGGAGTAGGATCTTG
1 AACAATCTTCTGCCTACGGGTTC-ATTCCTCTTTCTTTAGGGAGTAGGAACTCG
* ** * *
926551 AATAATCTTCTATCTACGGGTTTGC-TCCCTCTTTCTTTAGGCAGTAGGAACTCG
1 AACAATCTTCTGCCTACGGG-TT-CATTCCTCTTTCTTTAGGGAGTAGGAACTCG
* *
926605 ATCAATCTTCTGCCTACGGGTTCACTCCCTCTTTCTTTAGGGAGTAGGAACTCG
1 AACAATCTTCTGCCTACGGGTTCA-TTCCTCTTTCTTTAGGGAGTAGGAACTCG
*
926659 AACAATCTTCTGCCTACGGGTTCACTTCCTCTTTCTTTAGGGTGTAGGAACTCG
1 AACAATCTTCTGCCTACGGGTTCA-TTCCTCTTTCTTTAGGGAGTAGGAACTCG
926713 AACAATCTTCTG
1 AACAATCTTCTG
926725 GTGTGATTCT
Statistics
Matches: 542, Mismatches: 80, Indels: 53
0.80 0.12 0.08
Matches are distributed among these distances:
49 10 0.02
50 49 0.09
51 38 0.07
52 59 0.11
53 24 0.04
54 326 0.60
55 34 0.06
56 2 0.00
ACGTcount: A:0.21, C:0.25, G:0.19, T:0.35
Consensus pattern (53 bp):
AACAATCTTCTGCCTACGGGTTCATTCCTCTTTCTTTAGGGAGTAGGAACTCG
Found at i:926453 original size:108 final size:108
Alignment explanation
Indices: 925940--926724 Score: 745
Period size: 108 Copynumber: 7.4 Consensus size: 108
925930 TCAATAAGTT
* * * * *
925940 CTCCCTC-TGCTTCAGGGAGTA-GAACTC-AACAATCTTCTG-TTACGGGTTCACT-CCTCTTGC
1 CTCCCTCTTTCTTTAGGGAGTAGGAACTCGAACAATCTTCTGCCTACGGGTTCGCTCCCTCTTTC
* * * *
926000 TTCAGGTAGTA-GAACTCGTCCCTCAAACAATC-T-TGCATACGGGTTCG
66 TTTAGGGAGTAGGAACTCG-------AACAATCTTCTGCCTACGGGTTCA
* * * * * *
926047 CT-CCTCTTGC-TCAGGGAGTA-GAACTCGAATAATCTTCTGCTTACGGGTTCACTTCCTC-TTC
1 CTCCCTCTTTCTTTAGGGAGTAGGAACTCGAACAATCTTCTGCCTACGGGTTCGCTCCCTCTTTC
* * * *
926108 TTTAGGGAGTA-GAACTTGAAC-ATCTT-TGCCAATGGGTTCG
66 TTTAGGGAGTAGGAACTCGAACAATCTTCTGCCTACGGGTTCA
* * * * * * *
926148 TTCCCTCTTTCTTTCAGGGAGTAGGAACTCGAATATTCTTCTGCCCATGGGTTC-ATTCCTCTTT
1 CTCCCTCTTTCTTT-AGGGAGTAGGAACTCGAACAATCTTCTGCCTACGGGTTCGCTCCCTCTTT
* * *
926212 CTTTCAGGGAGTA-GAACTCAAACAA---TCTGCCTACGTGTTCG
65 CTTT-AGGGAGTAGGAACTCGAACAATCTTCTGCCTACGGGTTCA
* * *
926253 CTCCCT-TTTCTTTCAGGGAGTAGAAACTC-AAC-ATATTCTG-CAACGGGTTCGCTCCCTCTTT
1 CTCCCTCTTTCTTT-AGGGAGTAGGAACTCGAACAATCTTCTGCCTACGGGTTCGCTCCCTCTTT
* * ***
926314 CTTTCAGGGAGTAGGAACTCGATCAATCTTCTGCTTACATATTCA
65 CTTT-AGGGAGTAGGAACTCGAACAATCTTCTGCCTACGGGTTCA
* * * * *
926359 CTCCCTCTTTCTTTAGGGAGTAGGAACTCGAACAATATTTTGCTTACAGGTTCGTTCCCTCTTTC
1 CTCCCTCTTTCTTTAGGGAGTAGGAACTCGAACAATCTTCTGCCTACGGGTTCGCTCCCTCTTTC
* * * * *
926424 TTTAGGAAGTAGGAATTCAAACAATCTTCTGCCTACGAGTTCT
66 TTTAGGGAGTAGGAACTCGAACAATCTTCTGCCTACGGGTTCA
* * *
926467 CTCCCTCTTTCTTTAAGGAGTACGAACTCGAACAATCTTCTGTCTACGGGTTCGCTCCCTCTTTC
1 CTCCCTCTTTCTTTAGGGAGTAGGAACTCGAACAATCTTCTGCCTACGGGTTCGCTCCCTCTTTC
* * * ** **
926532 TTTAGGGAGTAGGATCTTGAATAATCTTCTATCTACGGGTTTG
66 TTTAGGGAGTAGGAACTCGAACAATCTTCTGCCTACGGGTTCA
* * *
926575 CTCCCTCTTTCTTTAGGCAGTAGGAACTCGATCAATCTTCTGCCTACGGGTTCACTCCCTCTTTC
1 CTCCCTCTTTCTTTAGGGAGTAGGAACTCGAACAATCTTCTGCCTACGGGTTCGCTCCCTCTTTC
926640 TTTAGGGAGTAGGAACTCGAACAATCTTCTGCCTACGGGTTCA
66 TTTAGGGAGTAGGAACTCGAACAATCTTCTGCCTACGGGTTCA
* *
926683 CTTCCTCTTTCTTTAGGGTGTAGGAACTCGAACAATCTTCTG
1 CTCCCTCTTTCTTTAGGGAGTAGGAACTCGAACAATCTTCTG
926725 GTGTGATTCT
Statistics
Matches: 569, Mismatches: 87, Indels: 43
0.81 0.12 0.06
Matches are distributed among these distances:
100 3 0.01
101 24 0.04
102 34 0.06
103 13 0.02
104 37 0.07
105 48 0.08
106 68 0.12
107 27 0.05
108 290 0.51
109 25 0.04
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.34
Consensus pattern (108 bp):
CTCCCTCTTTCTTTAGGGAGTAGGAACTCGAACAATCTTCTGCCTACGGGTTCGCTCCCTCTTTC
TTTAGGGAGTAGGAACTCGAACAATCTTCTGCCTACGGGTTCA
Found at i:926529 original size:162 final size:162
Alignment explanation
Indices: 926025--926724 Score: 747
Period size: 162 Copynumber: 4.4 Consensus size: 162
926015 TCGTCCCTCA
* * * * * *
926025 AACAATC-T-TGCATACGGGTTCGCT-CCTCTTGC-TCAGGGAGTA-GAACTCGAATAATCTTCT
1 AACAATCTTCTGCCTACGGGTTCACTCCCTCTTTCTTTAGGGAGTAGGAACTCGAACAATATTCT
* * * *
926085 GCTTACGGGTTCACTTCCTC-TTCTTTAGGGAGTA-GAACTTGAACATCTT-TGCCAATGGGTTC
66 GCTTACGGGTTCGCTCCCTCTTTCTTTAGGGAGTAGGAACTCGAACATCTTCTGCCAACGGGTTC
926147 GT-TCCCTCTTTCTTTCAGGGAGTAGGAACTCG
131 -TCTCCCTCTTTCTTTCAGGGAGTAGGAACTCG
* * * * * *
926179 AATATTCTTCTGCCCATGGGTTCA-TTCCTCTTTCTTTCAGGGAGTA-GAACTCAAAC-A-A-TC
1 AACAATCTTCTGCCTACGGGTTCACTCCCTCTTTCTTT-AGGGAGTAGGAACTCGAACAATATTC
* * * *
926239 TGCCTACGTGTTCGCTCCCT-TTTCTTTCAGGGAGTAGAAACTC-AACATATTCTG-CAACGGGT
65 TGCTTACGGGTTCGCTCCCTCTTTCTTT-AGGGAGTAGGAACTCGAACATCTTCTGCCAACGGGT
*
926301 TCGCTCCCTCTTTCTTTCAGGGAGTAGGAACTCG
129 TCTCTCCCTCTTTCTTTCAGGGAGTAGGAACTCG
* * *** *
926335 ATCAATCTTCTGCTTACATATTCACTCCCTCTTTCTTTAGGGAGTAGGAACTCGAACAATATTTT
1 AACAATCTTCTGCCTACGGGTTCACTCCCTCTTTCTTTAGGGAGTAGGAACTCGAACAATATTCT
* * * * * * *
926400 GCTTACAGGTTCGTTCCCTCTTTCTTTAGGAAGTAGGAATTCAAACAATCTTCTGCCTACGAGTT
66 GCTTACGGGTTCGCTCCCTCTTTCTTTAGGGAGTAGGAACTCGAAC-ATCTTCTGCCAACGGGTT
* *
926465 CTCTCCCTCTTTCTTT-AAGGAGTACGAACTCG
130 CTCTCCCTCTTTCTTTCAGGGAGTAGGAACTCG
* * * * * *
926497 AACAATCTTCTGTCTACGGGTTCGCTCCCTCTTTCTTTAGGGAGTAGGATCTTGAATAATCTTCT
1 AACAATCTTCTGCCTACGGGTTCACTCCCTCTTTCTTTAGGGAGTAGGAACTCGAACAATATTCT
* * * * *
926562 -ATCTACGGGTTTGCTCCCTCTTTCTTTAGGCAGTAGGAACTCGATCAATCTTCTGCCTACGGGT
66 GCT-TACGGGTTCGCTCCCTCTTTCTTTAGGGAGTAGGAACTCGAAC-ATCTTCTGCCAACGGGT
*
926626 TCACTCCCTCTTTCTTT-AGGGAGTAGGAACTCG
129 TCTCTCCCTCTTTCTTTCAGGGAGTAGGAACTCG
* * *
926659 AACAATCTTCTGCCTACGGGTTCACTTCCTCTTTCTTTAGGGTGTAGGAACTCGAACAATCTTCT
1 AACAATCTTCTGCCTACGGGTTCACTCCCTCTTTCTTTAGGGAGTAGGAACTCGAACAATATTCT
926724 G
66 G
926725 GTGTGATTCT
Statistics
Matches: 449, Mismatches: 76, Indels: 33
0.80 0.14 0.06
Matches are distributed among these distances:
154 5 0.01
155 26 0.06
156 94 0.21
157 29 0.06
158 17 0.04
159 1 0.00
160 29 0.06
161 11 0.02
162 215 0.48
163 22 0.05
ACGTcount: A:0.21, C:0.25, G:0.19, T:0.35
Consensus pattern (162 bp):
AACAATCTTCTGCCTACGGGTTCACTCCCTCTTTCTTTAGGGAGTAGGAACTCGAACAATATTCT
GCTTACGGGTTCGCTCCCTCTTTCTTTAGGGAGTAGGAACTCGAACATCTTCTGCCAACGGGTTC
TCTCCCTCTTTCTTTCAGGGAGTAGGAACTCG
Found at i:927268 original size:42 final size:42
Alignment explanation
Indices: 927222--927304 Score: 121
Period size: 42 Copynumber: 2.0 Consensus size: 42
927212 ATAAATTACC
* *
927222 CGAAGGATTTAATCATCACGTTCGAAAGACTTACTGATGGCT
1 CGAAGGATTTAATAATCACGCTCGAAAGACTTACTGATGGCT
* * *
927264 CGAAGGATTTCATAATCATGCTCGAAAGACTTACTGGTGGC
1 CGAAGGATTTAATAATCACGCTCGAAAGACTTACTGATGGC
927305 ACTTATTGAT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (42 bp):
CGAAGGATTTAATAATCACGCTCGAAAGACTTACTGATGGCT
Found at i:927283 original size:122 final size:121
Alignment explanation
Indices: 927119--927456 Score: 367
Period size: 135 Copynumber: 2.7 Consensus size: 121
927109 TTATTATCTT
** * *
927119 GCTCGAAAGACTTACAAATGACCCGAAGGATTTAATCATCATGC-CTGAAAGACTTACTAATGGA
1 GCTCGAAAGACTTACTGATGGCCCGAAGGATTTCATCATCATGCTC-GAAAGACTTACTAATGGA
* *
927183 TTTGCTTCACTATTCTTCCGTG-AAGACTTATAAATTACCCGAAGGATTTAATCATCAC
65 TTTGCTTCACTATTCTTCC-TGAAAG-CTTACAAATTACCCGAAGGATTTAATCATCAA
* * *
927241 GTTCGAAAGACTTACTGATGGCTCGAAGGATTTCATAATCATGCTCGAAAGACTTACTGGTGGCA
1 GCTCGAAAGACTTACTGATGGCCCGAAGGATTTCATCATCATGCTCGAAAG----ACT--T---A
*
927306 CTTATTGATGGATTTGCTTCACTACTAT-TTCCTGAAAGCTTACAAATTACCCGAAGGGTTTAAT
57 C-TA---ATGGATTTGCTTCACTA-T-TCTTCCTGAAAGCTTACAAATTACCCGAAGGATTTAAT
927370 CATCAA
116 CATCAA
* * *
927376 GCTCGAAAGACTTACTGATGGCCCAAAAGATTTCATCATCATGCTCGAAAGACTTACTGATGGAT
1 GCTCGAAAGACTTACTGATGGCCCGAAGGATTTCATCATCATGCTCGAAAGACTTACTAATGGAT
*
927441 TTGCTTCACTACTCTT
66 TTGCTTCACTATTCTT
927457 AGGTGAAGGC
Statistics
Matches: 181, Mismatches: 17, Indels: 37
0.77 0.07 0.16
Matches are distributed among these distances:
120 1 0.01
121 2 0.01
122 59 0.33
123 1 0.01
125 1 0.01
126 5 0.03
128 1 0.01
129 1 0.01
131 5 0.03
132 2 0.01
135 94 0.52
136 8 0.04
137 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (121 bp):
GCTCGAAAGACTTACTGATGGCCCGAAGGATTTCATCATCATGCTCGAAAGACTTACTAATGGAT
TTGCTTCACTATTCTTCCTGAAAGCTTACAAATTACCCGAAGGATTTAATCATCAA
Found at i:927417 original size:135 final size:135
Alignment explanation
Indices: 927178--927434 Score: 394
Period size: 135 Copynumber: 1.9 Consensus size: 135
927168 AGACTTACTA
* * *
927178 ATGGATTTGCTTCACTATTCTTCCGTGAAGACTTATAAATTACCCGAAGGATTTAATCATCACGT
1 ATGGATTTGCTTCACTATTCTTCCGTGAAGACTTACAAATTACCCGAAGGATTTAATCATCAAGC
* * *
927243 TCGAAAGACTTACTGATGGCTCGAAGGATTTCATAATCATGCTCGAAAGACTTACTGGTGGCACT
66 TCGAAAGACTTACTGATGGCCCAAAAGATTTCATAATCATGCTCGAAAGACTTACTGGTGGCACT
927308 TATTG
131 TATTG
*
927313 ATGGATTTGCTTCACTACTAT-TTCC-TGAA-AGCTTACAAATTACCCGAAGGGTTTAATCATCA
1 ATGGATTTGCTTCACTA-T-TCTTCCGTGAAGA-CTTACAAATTACCCGAAGGATTTAATCATCA
*
927375 AGCTCGAAAGACTTACTGATGGCCCAAAAGATTTCATCATCATGCTCGAAAGACTTACTG
63 AGCTCGAAAGACTTACTGATGGCCCAAAAGATTTCATAATCATGCTCGAAAGACTTACTG
927435 ATGGATTTGC
Statistics
Matches: 111, Mismatches: 8, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
134 1 0.01
135 104 0.94
136 5 0.05
137 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (135 bp):
ATGGATTTGCTTCACTATTCTTCCGTGAAGACTTACAAATTACCCGAAGGATTTAATCATCAAGC
TCGAAAGACTTACTGATGGCCCAAAAGATTTCATAATCATGCTCGAAAGACTTACTGGTGGCACT
TATTG
Found at i:927475 original size:37 final size:37
Alignment explanation
Indices: 927434--927552 Score: 184
Period size: 37 Copynumber: 3.2 Consensus size: 37
927424 AAGACTTACT
*
927434 GATGGATTTGCTTCACTACTCTTAGGTGAAGGCTTAA
1 GATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTAA
* * *
927471 GATGGATTTGCTTCACTACCCTTCGATGAAGGCTTAG
1 GATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTAA
* *
927508 GATGGATTTTCTTCACTACTCTTCGGTGAAGGCTTAT
1 GATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTAA
927545 GATGGATT
1 GATGGATT
927553 CACTTCTTCG
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 74 1.00
ACGTcount: A:0.22, C:0.18, G:0.24, T:0.36
Consensus pattern (37 bp):
GATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTAA
Found at i:930006 original size:19 final size:19
Alignment explanation
Indices: 929966--930006 Score: 64
Period size: 19 Copynumber: 2.1 Consensus size: 19
929956 TATTTTTTTC
*
929966 AAAAAAAACAAAAAAGGAA
1 AAAAAAAACAAAAAAGCAA
929985 AAAAAAAACAAAAAAGCCAA
1 AAAAAAAACAAAAAAG-CAA
930005 AA
1 AA
930007 TTTCAAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.83, C:0.10, G:0.07, T:0.00
Consensus pattern (19 bp):
AAAAAAAACAAAAAAGCAA
Found at i:934418 original size:10 final size:10
Alignment explanation
Indices: 934403--934504 Score: 62
Period size: 10 Copynumber: 10.9 Consensus size: 10
934393 TTTAGACCTA
934403 TTTTTTTCTC
1 TTTTTTTCTC
934413 TTTTTTT-T-
1 TTTTTTTCTC
*
934421 TTCTTTTTTTC
1 TT-TTTTTCTC
934432 -TTTTTTC-C
1 TTTTTTTCTC
934440 TTTTTTT-TC
1 TTTTTTTCTC
*
934449 -ATTTTT-TC
1 TTTTTTTCTC
*
934457 ATTTTTTCAT-
1 TTTTTTTC-TC
934467 TTTTTTT-TC
1 TTTTTTTCTC
*
934476 ATTTTTATC-C
1 -TTTTTTTCTC
934486 TTTTTTTCTC
1 TTTTTTTCTC
*
934496 TTTTCTTCT
1 TTTTTTTCT
934505 TCAAGCAAAA
Statistics
Matches: 73, Mismatches: 7, Indels: 24
0.70 0.07 0.23
Matches are distributed among these distances:
8 11 0.15
9 30 0.41
10 31 0.42
11 1 0.01
ACGTcount: A:0.05, C:0.16, G:0.00, T:0.79
Consensus pattern (10 bp):
TTTTTTTCTC
Found at i:934427 original size:8 final size:8
Alignment explanation
Indices: 934416--934505 Score: 72
Period size: 9 Copynumber: 10.2 Consensus size: 8
934406 TTTTCTCTTT
934416 TTTTTTTC
1 TTTTTTTC
934424 TTTTTTTC
1 TTTTTTTC
*
934432 TTTTTTCC
1 TTTTTTTC
934440 TTTTTTTTC
1 -TTTTTTTC
*
934449 ATTTTTTC
1 TTTTTTTC
*
934457 ATTTTTTCATT
1 -TTTTTT--TC
934468 TTTTTTTC
1 TTTTTTTC
*
934476 ATTTTTATCC
1 -TTTTT-TTC
934486 TTTTTTTC
1 TTTTTTTC
934494 TCTTTTCTTC
1 T-TTTT-TTC
934504 TT
1 TT
934506 CAAGCAAAAT
Statistics
Matches: 66, Mismatches: 8, Indels: 15
0.74 0.09 0.17
Matches are distributed among these distances:
8 26 0.39
9 27 0.41
10 12 0.18
11 1 0.02
ACGTcount: A:0.06, C:0.16, G:0.00, T:0.79
Consensus pattern (8 bp):
TTTTTTTC
Found at i:934433 original size:19 final size:19
Alignment explanation
Indices: 934404--934505 Score: 70
Period size: 20 Copynumber: 5.5 Consensus size: 19
934394 TTAGACCTAT
934404 TTTTTTCTCTTTTTTTTTTC
1 TTTTTT-TCTTTTTTTTTTC
934424 TTTTTTTC----TTTTTTC
1 TTTTTTTCTTTTTTTTTTC
* **
934439 CTTTTTT-TTCATTTTTTC
1 TTTTTTTCTTTTTTTTTTC
* *
934457 ATTTTTTCATTTTTTTTTC
1 TTTTTTTCTTTTTTTTTTC
* * *
934476 ATTTTTATCCTTTTTTTCTC
1 -TTTTTTTCTTTTTTTTTTC
*
934496 TTTTCTTCTT
1 TTTTTTTCTT
934506 CAAGCAAAAT
Statistics
Matches: 64, Mismatches: 12, Indels: 13
0.72 0.13 0.15
Matches are distributed among these distances:
15 13 0.20
18 13 0.20
19 17 0.27
20 21 0.33
ACGTcount: A:0.05, C:0.16, G:0.00, T:0.79
Consensus pattern (19 bp):
TTTTTTTCTTTTTTTTTTC
Found at i:934435 original size:26 final size:26
Alignment explanation
Indices: 934405--934491 Score: 104
Period size: 27 Copynumber: 3.2 Consensus size: 26
934395 TAGACCTATT
*
934405 TTTTTCTCTTTTTTTTTTCTTTTTTTC-
1 TTTTT-TC-TTTTTTTTTCATTTTTTCA
*
934432 TTTTTTCCTTTTTTTTCATTTTTTCA
1 TTTTTTCTTTTTTTTTCATTTTTTCA
*
934458 TTTTTTCATTTTTTTTTCATTTTTATCC
1 TTTTTTC-TTTTTTTTTCATTTTT-TCA
934486 TTTTTT
1 TTTTTT
934492 TCTCTTTTCT
Statistics
Matches: 53, Mismatches: 4, Indels: 5
0.85 0.06 0.08
Matches are distributed among these distances:
25 16 0.30
26 9 0.17
27 20 0.38
28 8 0.15
ACGTcount: A:0.06, C:0.14, G:0.00, T:0.80
Consensus pattern (26 bp):
TTTTTTCTTTTTTTTTCATTTTTTCA
Found at i:934435 original size:27 final size:26
Alignment explanation
Indices: 934404--934499 Score: 97
Period size: 25 Copynumber: 3.5 Consensus size: 26
934394 TTAGACCTAT
934404 TTTTTTCTCTTTTTTTTTTCTTTTTTTC
1 TTTTTTCTC--TTTTTTTTCTTTTTTTC
*
934432 TTTTTTC-CTTTTTTTTCATTTTTTC
1 TTTTTTCTCTTTTTTTTCTTTTTTTC
*
934457 ATTTTTTCAT-TTTTTTTTCATTTTTATCC
1 -TTTTTTC-TCTTTTTTTTC-TTTTT-TTC
934486 TTTTTTTCTCTTTT
1 -TTTTTTCTCTTTT
934500 CTTCTTCAAG
Statistics
Matches: 58, Mismatches: 4, Indels: 11
0.79 0.05 0.15
Matches are distributed among these distances:
25 16 0.28
26 7 0.12
27 10 0.17
28 12 0.21
29 13 0.22
ACGTcount: A:0.05, C:0.15, G:0.00, T:0.80
Consensus pattern (26 bp):
TTTTTTCTCTTTTTTTTCTTTTTTTC
Found at i:934443 original size:25 final size:25
Alignment explanation
Indices: 934415--934505 Score: 92
Period size: 28 Copynumber: 3.4 Consensus size: 25
934405 TTTTTCTCTT
934415 TTTTTTTTCTTTTTTTCTTTTTTCC
1 TTTTTTTTCTTTTTTTCTTTTTTCC
* *
934440 TTTTTTTTCATTTTTTCATTTTTTCAT
1 TTTTTTTTCTTTTTTTC-TTTTTTC-C
* *
934467 TTTTTTTTCATTTTTATCCTTTTTTTC
1 TTTTTTTTC-TTTTT-TTCTTTTTTCC
*
934494 TCTTTTCTTCTT
1 T-TTTTTTTCTT
934506 CAAGCAAAAT
Statistics
Matches: 54, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
25 16 0.30
26 7 0.13
27 12 0.22
28 17 0.31
29 2 0.04
ACGTcount: A:0.05, C:0.15, G:0.00, T:0.79
Consensus pattern (25 bp):
TTTTTTTTCTTTTTTTCTTTTTTCC
Found at i:949496 original size:2 final size:2
Alignment explanation
Indices: 949489--949513 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
949479 TCAATCTACA
949489 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
949514 ATTTACGAAA
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:949681 original size:85 final size:85
Alignment explanation
Indices: 949533--949698 Score: 192
Period size: 85 Copynumber: 2.0 Consensus size: 85
949523 ATACAATCAC
* * * * * *
949533 GACACACGAATGTGTGCCATCTTTTTTAATGACGTGTGCTTCAATGACATGCAATGTGAGTCATA
1 GACACACAAATGTGTGCCATCTTATTTAATGACGGGGGCTTCAATAACATGCAATGCGAGTCATA
* *
949598 CATGCGTGTCATAAATTTAT
66 AATGCGAGTCATAAATTTAT
* * *
949618 GACACACAAATGTGTGTCATCTTCATTT-ATGACGGGGGCTTCAATAACGCT-CAATGCGCGTCA
1 GACACACAAATGTGTGCCATCTT-ATTTAATGACGGGGGCTTCAATAAC-ATGCAATGCGAGTCA
*
949681 TAAATGTGAGTCATAAAT
64 TAAATGCGAGTCATAAAT
949699 GCGTGTCACC
Statistics
Matches: 67, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
85 63 0.94
86 4 0.06
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.31
Consensus pattern (85 bp):
GACACACAAATGTGTGCCATCTTATTTAATGACGGGGGCTTCAATAACATGCAATGCGAGTCATA
AATGCGAGTCATAAATTTAT
Found at i:956366 original size:29 final size:29
Alignment explanation
Indices: 956324--956381 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
956314 TATCTAATTA
956324 GATCTCGAACAAGGCTATTTGGACCATAT
1 GATCTCGAACAAGGCTATTTGGACCATAT
956353 GATCTCGAACAAGGCTATTTGGACCATAT
1 GATCTCGAACAAGGCTATTTGGACCATAT
956382 CATGTCGAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.28
Consensus pattern (29 bp):
GATCTCGAACAAGGCTATTTGGACCATAT
Found at i:956389 original size:29 final size:29
Alignment explanation
Indices: 956325--956389 Score: 112
Period size: 29 Copynumber: 2.2 Consensus size: 29
956315 ATCTAATTAG
*
956325 ATCTCGAACAAGGCTATTTGGACCATATG
1 ATCTCGAACAAGGCTATTTGGACCATATC
956354 ATCTCGAACAAGGCTATTTGGACCATATC
1 ATCTCGAACAAGGCTATTTGGACCATATC
*
956383 ATGTCGA
1 ATCTCGA
956390 GATGTTTTAC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.28
Consensus pattern (29 bp):
ATCTCGAACAAGGCTATTTGGACCATATC
Found at i:959929 original size:42 final size:42
Alignment explanation
Indices: 959870--959951 Score: 112
Period size: 42 Copynumber: 2.0 Consensus size: 42
959860 CCCGAATTTG
* *
959870 TAAATCATTCGAGTCATC-AGTAAGTCTTTCGAGCATGATGTT
1 TAAATCATTCGAGTCATCTA-TAAGCCTTTCGAGCAAGATGTT
* *
959912 TAAATCCTTCGGGTCATCTATAAGCCTTTCGAGCAAGATG
1 TAAATCATTCGAGTCATCTATAAGCCTTTCGAGCAAGATG
959952 ATAAGACCTT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
42 34 0.97
43 1 0.03
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.33
Consensus pattern (42 bp):
TAAATCATTCGAGTCATCTATAAGCCTTTCGAGCAAGATGTT
Found at i:959976 original size:41 final size:42
Alignment explanation
Indices: 959890--959981 Score: 98
Period size: 42 Copynumber: 2.2 Consensus size: 42
959880 GAGTCATCAG
* * * * * *
959890 TAAGTCTTTCGAGCATGATGTTTAAATCCTTCGGGTCATCTA
1 TAAGCCTTTCGAGCAAGATGTATAAATCCTTCAGGCCATCCA
959932 TAAGCCTTTCGAGCAAGATG-ATAAGA-CCTTCAGGCCATCCA
1 TAAGCCTTTCGAGCAAGATGTATAA-ATCCTTCAGGCCATCCA
959973 TAAGACCTT
1 TAAG-CCTT
959982 CGGGTAGAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
41 19 0.45
42 23 0.55
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.30
Consensus pattern (42 bp):
TAAGCCTTTCGAGCAAGATGTATAAATCCTTCAGGCCATCCA
Found at i:960456 original size:42 final size:42
Alignment explanation
Indices: 960397--960478 Score: 119
Period size: 42 Copynumber: 2.0 Consensus size: 42
960387 TCTTGATTTG
* * *
960397 TAAATCTTTCGGGTCATCCGTAAGTCTTTCGAGCATGATGCT
1 TAAATCCTTCGGGTCATCCGTAAGCCTTTCGAGCAAGATGCT
**
960439 TAAATCCTTCGGGTCATCTTTAAGCCTTTCGAGCAAGATG
1 TAAATCCTTCGGGTCATCCGTAAGCCTTTCGAGCAAGATG
960479 ATAAGTCCTT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.23, C:0.22, G:0.21, T:0.34
Consensus pattern (42 bp):
TAAATCCTTCGGGTCATCCGTAAGCCTTTCGAGCAAGATGCT
Found at i:960498 original size:41 final size:42
Alignment explanation
Indices: 960397--960503 Score: 108
Period size: 42 Copynumber: 2.6 Consensus size: 42
960387 TCTTGATTTG
* * ** * * *
960397 TAAATCTTTCGGGTCATCCGTAAGTCTTTCGAGCATGATGCT
1 TAAATCCTTCGGGCCATCTATAAGCCTTTCGAGCAAGATGCA
* *
960439 TAAATCCTTCGGGTCATCTTTAAGCCTTTCGAGCAAGATG-A
1 TAAATCCTTCGGGCCATCTATAAGCCTTTCGAGCAAGATGCA
* *
960480 TAAGTCCTTTGGGCCATCTATAAG
1 TAAATCCTTCGGGCCATCTATAAG
960504 AACTTCGGGC
Statistics
Matches: 55, Mismatches: 10, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
41 20 0.36
42 35 0.64
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.34
Consensus pattern (42 bp):
TAAATCCTTCGGGCCATCTATAAGCCTTTCGAGCAAGATGCA
Found at i:960569 original size:264 final size:264
Alignment explanation
Indices: 959865--961054 Score: 1728
Period size: 263 Copynumber: 4.5 Consensus size: 264
959855 TATTTCCCGA
* * *
959865 ATTTGTAAATCATTCGAGTCATCAGTAAGTCTTTCGAGCATGATGTTTAAATCCTTCGGGTCATC
1 ATTTGTAAATCATTCGGGTCATCCGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATC
** * *
959930 TATAAGCCTTTCGAGCAAGATGATAAGACCTTCAGGCCATCCATAAGACCTTCGGGTAGAATGTT
66 TATAAGCCTTTCGAGCAAGATGATAAGACCTTTGGGCCATCTATAAGACCTTCGGGCAGAATGTT
* *
959995 TTCAAATGAGATTTTAGAAACTAAGCCTAATTTTAAGAGATTTCCTAATTATCTCAAAAGAGTTG
131 TTCAAATGAGATTTTAGAAACTAAGCCTAATTTTAAGGGGTTTCCTAATTATCTCAAAAGAGTTG
* * *
960060 TTAAAGGAAGCTAAGCCTAACAAAGAGGTTCATTGACAACTAAGAAACTAAGATTTCGAGGGTTT
196 TTAAAGGAAGCTAAGCCTAACAAAGGGGTTCCTTGACAACTAAGAAACTAAGCTTTCGAGGGTTT
960125 CTTG
261 CTTG
** * * *** * *
960129 ATTCATAAGTCATTCGGGCCATATTTAAGTCTTTCGAGCATGATGTTTAATTCCTTC-GGTCATC
1 ATTTGTAAATCATTCGGGTCATCCGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATC
* *
960193 TATAAGCCTTTTGAGCAAGATGATAAGACCTTCT-GGCCATCTATAAGACCTTCGGGCAGGATGT
66 TATAAGCCTTTCGAGCAAGATGATAAGACCTT-TGGGCCATCTATAAGACCTTCGGGCAGAATGT
*
960257 TTTCAAATGAGATTTTAGAAACTAAGCCTAATTTTAAGGGGTTTCCTAATGATCTCAAAAGAGTT
130 TTTCAAATGAGATTTTAGAAACTAAGCCTAATTTTAAGGGGTTTCCTAATTATCTCAAAAGAGTT
*
960322 GTTAAAGGAAGCTAAGCCTAACTAAGGGGTTCCTTGACAACTAAGAAACTAAGCTTTCGAGGGTT
195 GTTAAAGGAAGCTAAGCCTAACAAAGGGGTTCCTTGACAACTAAGAAACTAAGCTTTCGAGGGTT
960387 TCTTG
260 TCTTG
*
960392 ATTTGTAAATCTTTCGGGTCATCCGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATC
1 ATTTGTAAATCATTCGGGTCATCCGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATC
* * *
960457 TTTAAGCCTTTCGAGCAAGATGATAAGTCCTTTGGGCCATCTATAAGAACTTCGGGCAGAATGTT
66 TATAAGCCTTTCGAGCAAGATGATAAGACCTTTGGGCCATCTATAAGACCTTCGGGCAGAATGTT
960522 TTCAAATGAGATTTTAGAAACTAAGCCTAATTTTAAGGGGTTTCCTAATTATCTCAAAAGAGTTG
131 TTCAAATGAGATTTTAGAAACTAAGCCTAATTTTAAGGGGTTTCCTAATTATCTCAAAAGAGTTG
* * *
960587 TTAAAGGAAGCTAACCCTAACAAAGGCGTTCCTTGATAACTAAGAAACTAAGCTTTCGAGGG-TT
196 TTAAAGGAAGCTAAGCCTAACAAAGGGGTTCCTTGACAACTAAGAAACTAAGCTTTCGAGGGTTT
960651 CTTG
261 CTTG
* * * *
960655 ATTTTTAAATCCTTCGGGTCATCCGTAAGTCTTTCGACCATGATGCTTAAATCCTTCAGGTCATC
1 ATTTGTAAATCATTCGGGTCATCCGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATC
* * * * * *
960720 TGTAAGCCTTTCGAACAAGATGATAAGACCTTTGGGCC-TACCATAAGACCTTCAGGCAGGATAT
66 TATAAGCCTTTCGAGCAAGATGATAAGACCTTTGGGCCAT-CTATAAGACCTTCGGGCAGAATGT
* * *
960784 TTCCAAATGAGATTTTAGAAACTAAGCCTAATTTTGAGGGG-TTCACTAATTATATCAAAAGAGT
130 TTTCAAATGAGATTTTAGAAACTAAGCCTAATTTTAAGGGGTTTC-CTAATTATCTCAAAAGAGT
** * *
960848 TGTTAAAGGAAGCTAAGGATAACAAAGGGATTCCTTGATAACTAAGAAACTAAGCTTTCGAGGGT
194 TGTTAAAGGAAGCTAAGCCTAACAAAGGGGTTCCTTGACAACTAAGAAACTAAGCTTTCGAGGGT
*
960913 TTATTG
259 TTCTTG
* * * ** * *
960919 ATTCGTAAGTCCTTCGGGAT-ATATGCAAGTCTTTTGAGCATGATGCTTAAATCCTTCGGGTCAT
1 ATTTGTAAATCATTCGGG-TCATCCGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCAT
* * * * *
960983 CTATAATCCTTTCGAGCAAGATGATAAGTCCTTCGGGCCAT-TCATAAGACCTTCAGGTAGAATG
65 CTATAAGCCTTTCGAGCAAGATGATAAGACCTTTGGGCCATCT-ATAAGACCTTCGGGCAGAATG
961047 TTTTCAAA
129 TTTTCAAA
961055 ATTTCCATTG
Statistics
Matches: 836, Mismatches: 81, Indels: 18
0.89 0.09 0.02
Matches are distributed among these distances:
262 4 0.00
263 478 0.57
264 352 0.42
265 2 0.00
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.32
Consensus pattern (264 bp):
ATTTGTAAATCATTCGGGTCATCCGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATC
TATAAGCCTTTCGAGCAAGATGATAAGACCTTTGGGCCATCTATAAGACCTTCGGGCAGAATGTT
TTCAAATGAGATTTTAGAAACTAAGCCTAATTTTAAGGGGTTTCCTAATTATCTCAAAAGAGTTG
TTAAAGGAAGCTAAGCCTAACAAAGGGGTTCCTTGACAACTAAGAAACTAAGCTTTCGAGGGTTT
CTTG
Found at i:960858 original size:527 final size:527
Alignment explanation
Indices: 959865--961054 Score: 1793
Period size: 527 Copynumber: 2.3 Consensus size: 527
959855 TATTTCCCGA
* *
959865 ATTTGTAAATCATTCGAGTCATCAGTAAGTCTTTCGAGCATGATGTTTAAATCCTTCGGGTCATC
1 ATTTGTAAATCATTCGGGTCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATC
* * *
959930 TATAAGCCTTTCGAGCAAGATGATAAGACCTTCAGGCCATCCATAAGACCTTCGGGTAGAATGTT
66 TATAAGCCTTTCGAGCAAGATGATAAGTCCTTCGGGCCATCTATAAGACCTTCGGGTAGAATGTT
959995 TTCAAATGAGATTTTAGAAACTAAGCCTAATTTTAAGAGATTTCCTAATTATCTCAAAAGAGTTG
131 TTCAAATGAGATTTTAGAAACTAAGCCTAATTTTAAGAGATTTCCTAATTATCTCAAAAGAGTTG
*
960060 TTAAAGGAAGCTAAGCCTAACAAAGAGGTTCATTGACAACTAAGAAACTAAGATTTCGAGGGTTT
196 TTAAAGGAAGCTAACCCTAACAAAGAGGTTCATTGACAACTAAGAAACTAAGATTTCGAGGGTTT
* ** * * *
960125 CTTGATTCATAAGTCATTCGGGCCATATTTAAGTCTTTCGAGCATGATGTTTAATTCCTTCGGTC
261 CTTGATTCATAAATCATTCGGGCCATACGTAAGTCTTTCGACCATGATGCTTAAATCCTTCGGTC
* * * *
960190 ATCTATAAGCCTTTTGAGCAAGATGATAAGACCTTCTGGCCATCTATAAGACCTTCGGGCAGGAT
326 ATCTATAAGCCTTTCGAACAAGATGATAAGACCTTCTGGCCATCCATAAGACCTTCAGGCAGGAT
* * *
960255 GTTTTCAAATGAGATTTTAGAAACTAAGCCTAATTTTAAGGGGTTTCCTAATGATCTCAAAAGAG
391 ATTTCCAAATGAGATTTTAGAAACTAAGCCTAATTTTAAGGGGTTTCCTAATGATATCAAAAGAG
* * *
960320 TTGTTAAAGGAAGCTAAGCCTAACTAAGGGGTTCCTTGACAACTAAGAAACTAAGCTTTCGAGGG
456 TTGTTAAAGGAAGCTAAGCATAACAAAGGGATTCCTTGACAACTAAGAAACTAAGCTTTCGAGGG
*
960385 TTTCTTG
521 TTTATTG
* *
960392 ATTTGTAAATCTTTCGGGTCATCCGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATC
1 ATTTGTAAATCATTCGGGTCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATC
* * * *
960457 TTTAAGCCTTTCGAGCAAGATGATAAGTCCTTTGGGCCATCTATAAGAACTTCGGGCAGAATGTT
66 TATAAGCCTTTCGAGCAAGATGATAAGTCCTTCGGGCCATCTATAAGACCTTCGGGTAGAATGTT
* *
960522 TTCAAATGAGATTTTAGAAACTAAGCCTAATTTTAAGGGGTTTCCTAATTATCTCAAAAGAGTTG
131 TTCAAATGAGATTTTAGAAACTAAGCCTAATTTTAAGAGATTTCCTAATTATCTCAAAAGAGTTG
* * *
960587 TTAAAGGAAGCTAACCCTAACAAAG-GCGTTCCTTGATAACTAAGAAACTAAGCTTTCGAGGG-T
196 TTAAAGGAAGCTAACCCTAACAAAGAG-GTTCATTGACAACTAAGAAACTAAGATTTCGAGGGTT
** * * *
960650 TCTTGATTTTTAAATCCTTCGGGTCATCCGTAAGTCTTTCGACCATGATGCTTAAATCCTTCAGG
260 TCTTGATTCATAAATCATTCGGGCCATACGTAAGTCTTTCGACCATGATGCTTAAATCCTTC-GG
*
960715 TCATCTGTAAGCCTTTCGAACAAGATGATAAGACCTT-TGGGCC-TACCATAAGACCTTCAGGCA
324 TCATCTATAAGCCTTTCGAACAAGATGATAAGACCTTCT-GGCCAT-CCATAAGACCTTCAGGCA
* *
960778 GGATATTTCCAAATGAGATTTTAGAAACTAAGCCTAATTTTGAGGGG-TTCACTAATTATATCAA
387 GGATATTTCCAAATGAGATTTTAGAAACTAAGCCTAATTTTAAGGGGTTTC-CTAATGATATCAA
* *
960842 AAGAGTTGTTAAAGGAAGCTAAGGATAACAAAGGGATTCCTTGATAACTAAGAAACTAAGCTTTC
451 AAGAGTTGTTAAAGGAAGCTAAGCATAACAAAGGGATTCCTTGACAACTAAGAAACTAAGCTTTC
960907 GAGGGTTTATTG
516 GAGGGTTTATTG
* * * * *
960919 ATTCGTAAGTCCTTCGGGAT-AT-ATGCAAGTCTTTTGAGCATGATGCTTAAATCCTTCGGGTCA
1 ATTTGTAAATCATTCGGG-TCATCA-GTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCA
* *
960982 TCTATAATCCTTTCGAGCAAGATGATAAGTCCTTCGGGCCAT-TCATAAGACCTTCAGGTAGAAT
64 TCTATAAGCCTTTCGAGCAAGATGATAAGTCCTTCGGGCCATCT-ATAAGACCTTCGGGTAGAAT
961046 GTTTTCAAA
128 GTTTTCAAA
961055 ATTTCCATTG
Statistics
Matches: 599, Mismatches: 56, Indels: 16
0.89 0.08 0.02
Matches are distributed among these distances:
526 59 0.10
527 539 0.90
528 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.32
Consensus pattern (527 bp):
ATTTGTAAATCATTCGGGTCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATC
TATAAGCCTTTCGAGCAAGATGATAAGTCCTTCGGGCCATCTATAAGACCTTCGGGTAGAATGTT
TTCAAATGAGATTTTAGAAACTAAGCCTAATTTTAAGAGATTTCCTAATTATCTCAAAAGAGTTG
TTAAAGGAAGCTAACCCTAACAAAGAGGTTCATTGACAACTAAGAAACTAAGATTTCGAGGGTTT
CTTGATTCATAAATCATTCGGGCCATACGTAAGTCTTTCGACCATGATGCTTAAATCCTTCGGTC
ATCTATAAGCCTTTCGAACAAGATGATAAGACCTTCTGGCCATCCATAAGACCTTCAGGCAGGAT
ATTTCCAAATGAGATTTTAGAAACTAAGCCTAATTTTAAGGGGTTTCCTAATGATATCAAAAGAG
TTGTTAAAGGAAGCTAAGCATAACAAAGGGATTCCTTGACAACTAAGAAACTAAGCTTTCGAGGG
TTTATTG
Found at i:961713 original size:15 final size:16
Alignment explanation
Indices: 961693--961724 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
961683 CTTCCAGCCG
961693 CCACTACC-GATGCCT
1 CCACTACCAGATGCCT
961708 CCACTACCAGATGCCT
1 CCACTACCAGATGCCT
961724 C
1 C
961725 AGCCCGCCCC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.22, C:0.47, G:0.12, T:0.19
Consensus pattern (16 bp):
CCACTACCAGATGCCT
Found at i:962834 original size:2 final size:2
Alignment explanation
Indices: 962827--962852 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
962817 AGTCACATTA
962827 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
962853 GAAATATTTG
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:964768 original size:41 final size:41
Alignment explanation
Indices: 964684--964803 Score: 130
Period size: 41 Copynumber: 3.1 Consensus size: 41
964674 TAAAATGTTC
964684 GTAAGTTAGTAAGAACAATAAAAATAAAAA---AGACA-A-TA
1 GTAAGTTAGTAAGAACAATAAAAA-AAAAAGTTAGA-ATATTA
*
964722 -T--GTTAGTATGAACAATAAAAAAAAAAGTTAGAATATTA
1 GTAAGTTAGTAAGAACAATAAAAAAAAAAGTTAGAATATTA
* * *
964760 GTAAGTTAGTAAGAACAATAAAAATAAAAGTTATAATGTTA
1 GTAAGTTAGTAAGAACAATAAAAAAAAAAGTTAGAATATTA
964801 GTA
1 GTA
964804 TGAAAAATAA
Statistics
Matches: 69, Mismatches: 5, Indels: 13
0.79 0.06 0.15
Matches are distributed among these distances:
34 5 0.07
35 19 0.28
36 1 0.01
37 5 0.07
38 2 0.03
39 1 0.01
41 36 0.52
ACGTcount: A:0.57, C:0.03, G:0.14, T:0.26
Consensus pattern (41 bp):
GTAAGTTAGTAAGAACAATAAAAAAAAAAGTTAGAATATTA
Found at i:964821 original size:32 final size:33
Alignment explanation
Indices: 964764--964836 Score: 112
Period size: 32 Copynumber: 2.2 Consensus size: 33
964754 ATATTAGTAA
* *
964764 GTTAGTAAGAACAATAAAAATAAAAGTTATAAT
1 GTTAGTAAGAAAAATAAAAATAAAAGTTAGAAT
*
964797 GTTAGTATGAAAAAT-AAAATAAAAGTTAGAAT
1 GTTAGTAAGAAAAATAAAAATAAAAGTTAGAAT
964829 GTTAGTAA
1 GTTAGTAA
964837 ATTAGAAAAG
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
32 23 0.64
33 13 0.36
ACGTcount: A:0.55, C:0.01, G:0.15, T:0.29
Consensus pattern (33 bp):
GTTAGTAAGAAAAATAAAAATAAAAGTTAGAAT
Found at i:964954 original size:18 final size:17
Alignment explanation
Indices: 964929--964969 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
964919 GAATAATGCA
964929 AAAAAATATAAA-AAAAT
1 AAAAAATA-AAATAAAAT
964946 AATAAAATAAAATAAAAT
1 AA-AAAATAAAATAAAAT
964964 AAAAAA
1 AAAAAA
964970 GTTAGGGGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (17 bp):
AAAAAATAAAATAAAAT
Found at i:964971 original size:124 final size:125
Alignment explanation
Indices: 964842--965159 Score: 480
Period size: 124 Copynumber: 2.6 Consensus size: 125
964832 AGTAAATTAG
* *
964842 AAAAGTTAGCGGTTAGCAGAGTCCGGACCATAATAATGTGGATCTTACCCCAGATCGGGTTACCA
1 AAAAGTTAGCGGTTAGCAGAGTCCGAACCATAATAATGTGGATCTTACCCCAGATCGGGTCACCA
* * *
964907 TAAGGTCGAATCGAATAATGCAAAA-AAATATAAAAAAATAATA-AAATAAAATAAAATAA
66 CAAGGTCGAATCAAATAATG-AAAACAAATATAAAAAAATAAAATAAATAAAATAAAATAA
* * *
964966 AAAAGTTAGGGGTTAGCAGAGTCTGAACCATAATAATGTGGATCTTACCCCGGATCGGGTCACCA
1 AAAAGTTAGCGGTTAGCAGAGTCCGAACCATAATAATGTGGATCTTACCCCAGATCGGGTCACCA
*
965031 CAAGGTCGAATCAAATAATGAAAACAAATATATAAAAATAAAATAAATAAAATAAAATAA
66 CAAGGTCGAATCAAATAATGAAAACAAATATAAAAAAATAAAATAAATAAAATAAAATAA
* * * * *
965091 AAAAGTTAGTGGTTAGGAGAGTTCGAACCATAATAATGTGGATCTTA-CCCTGATCTGGTCACCA
1 AAAAGTTAGCGGTTAGCAGAGTCCGAACCATAATAATGTGGATCTTACCCCAGATCGGGTCACCA
965155 CAAGG
66 CAAGG
965160 CCGAGTAATA
Statistics
Matches: 177, Mismatches: 15, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
123 4 0.02
124 114 0.64
125 59 0.33
ACGTcount: A:0.44, C:0.14, G:0.19, T:0.23
Consensus pattern (125 bp):
AAAAGTTAGCGGTTAGCAGAGTCCGAACCATAATAATGTGGATCTTACCCCAGATCGGGTCACCA
CAAGGTCGAATCAAATAATGAAAACAAATATAAAAAAATAAAATAAATAAAATAAAATAA
Found at i:965078 original size:19 final size:19
Alignment explanation
Indices: 965051--965092 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
965041 TCAAATAATG
*
965051 AAAACAAAT-ATATAAAAAT
1 AAAACAAATAAAAT-AAAAT
*
965070 AAAATAAATAAAATAAAAT
1 AAAACAAATAAAATAAAAT
965089 AAAA
1 AAAA
965093 AAGTTAGTGG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 17 0.85
20 3 0.15
ACGTcount: A:0.79, C:0.02, G:0.00, T:0.19
Consensus pattern (19 bp):
AAAACAAATAAAATAAAAT
Found at i:965082 original size:14 final size:14
Alignment explanation
Indices: 965065--965091 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
965055 CAAATATATA
965065 AAAATAAAATAAAT
1 AAAATAAAATAAAT
965079 AAAATAAAATAAA
1 AAAATAAAATAAA
965092 AAAGTTAGTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (14 bp):
AAAATAAAATAAAT
Found at i:965251 original size:29 final size:29
Alignment explanation
Indices: 965197--965252 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
965187 ACAGTTAGAA
*
965197 TGCAAGAAAATAAAATTCAGTGGTTAATG
1 TGCAAGAAAATAAAATTCAGTAGTTAATG
*
965226 TGCAATAAAATAAAAATT-AGTAGTTAA
1 TGCAAGAAAAT-AAAATTCAGTAGTTAA
965253 CTTGAAATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 18 0.75
30 6 0.25
ACGTcount: A:0.50, C:0.05, G:0.16, T:0.29
Consensus pattern (29 bp):
TGCAAGAAAATAAAATTCAGTAGTTAATG
Found at i:965261 original size:29 final size:29
Alignment explanation
Indices: 965203--965263 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
965193 AGAATGCAAG
* *
965203 AAAATAAAATTCAGTGGTTAATGTGCAAT
1 AAAATAAAATTCAGTAGTTAATGTGAAAT
965232 AAAATAAAAATT-AGTAGTTAACT-TGAAAT
1 AAAAT-AAAATTCAGTAGTTAA-TGTGAAAT
965261 AAA
1 AAA
965264 TAACATAACA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
29 21 0.75
30 7 0.25
ACGTcount: A:0.52, C:0.05, G:0.13, T:0.30
Consensus pattern (29 bp):
AAAATAAAATTCAGTAGTTAATGTGAAAT
Found at i:967430 original size:36 final size:36
Alignment explanation
Indices: 967390--967459 Score: 115
Period size: 36 Copynumber: 1.9 Consensus size: 36
967380 TCTCCATAGG
967390 GTATCGATACCAAAAAGGGTA-GTATCGATACCATGA
1 GTATCGATACCAAAAA-GGTAGGTATCGATACCATGA
*
967426 GTATCGATACCAGAAAGGTAGGTATCGATACCAT
1 GTATCGATACCAAAAAGGTAGGTATCGATACCAT
967460 TTTTTGAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
35 4 0.12
36 28 0.88
ACGTcount: A:0.37, C:0.17, G:0.23, T:0.23
Consensus pattern (36 bp):
GTATCGATACCAAAAAGGTAGGTATCGATACCATGA
Found at i:968199 original size:23 final size:22
Alignment explanation
Indices: 968173--968238 Score: 69
Period size: 23 Copynumber: 2.9 Consensus size: 22
968163 TTTTACATGG
*
968173 CACTTCAGTGCATTTCTACGCGA
1 CACTTCGGTGCATTT-TACGCGA
* *
968196 CACTTCGGTGCAATTTTACGTGG
1 CACTTCGGTGC-ATTTTACGCGA
*
968219 CATTTCGGTGCATTTATACG
1 CACTTCGGTGCATTT-TACG
968239 AGCTGTGATG
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
22 4 0.11
23 29 0.78
24 4 0.11
ACGTcount: A:0.20, C:0.24, G:0.21, T:0.35
Consensus pattern (22 bp):
CACTTCGGTGCATTTTACGCGA
Found at i:968450 original size:13 final size:14
Alignment explanation
Indices: 968425--968453 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
968415 ACTCCATTTC
968425 ATTATAGTATTATT
1 ATTATAGTATTATT
968439 ATTATA-TATTATT
1 ATTATAGTATTATT
968452 AT
1 AT
968454 GCCTCACTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (14 bp):
ATTATAGTATTATT
Found at i:973333 original size:18 final size:18
Alignment explanation
Indices: 973312--973347 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
973302 TAATGGCGAC
973312 ATCAGCACAAATGGTCGT
1 ATCAGCACAAATGGTCGT
973330 ATCAGCACAAATGGTCGT
1 ATCAGCACAAATGGTCGT
973348 GGTTGGCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.22
Consensus pattern (18 bp):
ATCAGCACAAATGGTCGT
Found at i:976478 original size:55 final size:55
Alignment explanation
Indices: 976332--976592 Score: 418
Period size: 55 Copynumber: 4.8 Consensus size: 55
976322 ACACTATGCA
* *
976332 TGCAAAACTAATAAATTCATACTAAGTTTATGAATTT-CGTATGGGCACTTTGTG
1 TGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTTTGTG
*
976386 TGCAAAACTAA-AAATTCATAATAAGTTTATGAATTTCCTTATGGGCACTTTGTG
1 TGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTTTGTG
*
976440 TGCAAAACTAAGAAATTCATAATACGTTTATGAATTTCCGTATGGGCACTTTGTG
1 TGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTTTGTG
* * *
976495 TGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCATATGGGAACTTTATG
1 TGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTTTGTG
* * *
976550 TGCAAAACTAAGAAATTTATAATGAGTTTATGAATTTTCGTAT
1 TGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTAT
976593 CGATAGTTGG
Statistics
Matches: 193, Mismatches: 12, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
53 24 0.12
54 38 0.20
55 131 0.68
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.36
Consensus pattern (55 bp):
TGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTTTGTG
Found at i:976865 original size:81 final size:80
Alignment explanation
Indices: 976742--977048 Score: 416
Period size: 81 Copynumber: 3.8 Consensus size: 80
976732 TTCCAAAATA
* * * * * *
976742 AAAGATTAACGGCCTAGGTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTATATGAAAGGT
1 AAAGTTTAATGGCCTAGCTGTGCATTTGGAAGAAATGTGTCAATTATGCAAGTTAGATGAAAGGT
976807 TAAATACCTTTGAGT
66 TAAATACCTTTGAGT
* * * * *
976822 AAAGGTTTAATGGCCTAGCTTTGCATTTGGAATAAGTGTGTCAATTGTGCAAGGTAGATGAAAGG
1 AAA-GTTTAATGGCCTAGCTGTGCATTTGGAAGAAATGTGTCAATTATGCAAGTTAGATGAAAGG
*
976887 TTAAATACCTTTGAAT
65 TTAAATACCTTTGAGT
* * *
976903 AAAATATTAATGGCCTAGCTGTGCATTTGGAAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGG
1 AAAGT-TTAATGGCCTAGCTGTGCATTTGGAAGAAATGTGTCAATTATGCAAGTTAGATGAAAGG
976968 TTAAATACCTTTGAGT
65 TTAAATACCTTTGAGT
* * * *
976984 AATAGATTAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATCATGCAAGTTAAATGAAAGG
1 AA-AGTTTAATGGCCTAGCTGTGCATTTGGAAGAAATGTGTCAATTATGCAAGTTAGATGAAAGG
977049 CTATATGTCA
Statistics
Matches: 196, Mismatches: 28, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
80 4 0.02
81 191 0.97
82 1 0.01
ACGTcount: A:0.34, C:0.11, G:0.24, T:0.31
Consensus pattern (80 bp):
AAAGTTTAATGGCCTAGCTGTGCATTTGGAAGAAATGTGTCAATTATGCAAGTTAGATGAAAGGT
TAAATACCTTTGAGT
Found at i:976946 original size:162 final size:162
Alignment explanation
Indices: 976738--977048 Score: 471
Period size: 162 Copynumber: 1.9 Consensus size: 162
976728 ACTATTCCAA
* * * *
976738 AATAAAAGATTAACGGCCTAGGTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTATATGAA
1 AATAAAAGATTAACGGCCTAGCTGTGCATTTGGAAGAAAGGTGTCAATTATGCCAGTTAGATGAA
* * * *
976803 AGGTTAAATACCTTTGAGTAA-AGGTTTAATGGCCTAGCTTTGCATTTGGAATAAGTGTGTCAAT
66 AGGTTAAATACCTTTGAGTAATA-GATTAATGGCCTAGCTGTGCATTTGGAAGAAATGTGTCAAT
** *
976867 TGTGCAAGGTAGATGAAAGGTTAAATACCTTTG
130 CATGCAAGGTAAATGAAAGGTTAAATACCTTTG
* *
976900 AATAAAATATTAATGGCCTAGCTGTGCATTTGGAAGAAAGGTGTCAATTATGCCAGTTAGATGAA
1 AATAAAAGATTAACGGCCTAGCTGTGCATTTGGAAGAAAGGTGTCAATTATGCCAGTTAGATGAA
*
976965 AGGTTAAATACCTTTGAGTAATAGATTAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATC
66 AGGTTAAATACCTTTGAGTAATAGATTAATGGCCTAGCTGTGCATTTGGAAGAAATGTGTCAATC
*
977030 ATGCAAGTTAAATGAAAGG
131 ATGCAAGGTAAATGAAAGG
977049 CTATATGTCA
Statistics
Matches: 133, Mismatches: 15, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
162 132 0.99
163 1 0.01
ACGTcount: A:0.34, C:0.11, G:0.24, T:0.31
Consensus pattern (162 bp):
AATAAAAGATTAACGGCCTAGCTGTGCATTTGGAAGAAAGGTGTCAATTATGCCAGTTAGATGAA
AGGTTAAATACCTTTGAGTAATAGATTAATGGCCTAGCTGTGCATTTGGAAGAAATGTGTCAATC
ATGCAAGGTAAATGAAAGGTTAAATACCTTTG
Found at i:982186 original size:54 final size:55
Alignment explanation
Indices: 982030--982247 Score: 368
Period size: 55 Copynumber: 4.0 Consensus size: 55
982020 ATTACCAAAT
* * *
982030 GGCACTATGCGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATG
1 GGCACTTTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCTGTATG
982085 GGCACTTTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCTGTATG
1 GGCACTTTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCTGTATG
*
982140 GGCACTTTGTGTGCAAAA-TAAGAAATTCATAATAAGTTTATGAATTTCTATATG
1 GGCACTTTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCTGTATG
*
982194 GGCACTTTGTGTG-AGAAACTAAGAAATTCATAATAAATTTATGAATTTCTGTAT
1 GGCACTTTGTGTGCA-AAACTAAGAAATTCATAATAAGTTTATGAATTTCTGTAT
982248 CGGTAGTGGA
Statistics
Matches: 155, Mismatches: 6, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
53 1 0.01
54 51 0.33
55 103 0.66
ACGTcount: A:0.36, C:0.11, G:0.17, T:0.35
Consensus pattern (55 bp):
GGCACTTTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCTGTATG
Found at i:982240 original size:109 final size:110
Alignment explanation
Indices: 982030--982247 Score: 368
Period size: 109 Copynumber: 2.0 Consensus size: 110
982020 ATTACCAAAT
*
982030 GGCACTATGCGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTTTGT
1 GGCACTATGCGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCATATGGGCACTTTGT
*
982095 GTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCTGTATG
66 GTGCAAAACTAAGAAATTCATAATAAATTTATGAATTTCTGTATG
* * *
982140 GGCACTTTGTGTGCAAAA-TAAGAAATTCATAATAAGTTTATGAATTTCTATATGGGCACTTTGT
1 GGCACTATGCGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCATATGGGCACTTTGT
982204 GTG-AGAAACTAAGAAATTCATAATAAATTTATGAATTTCTGTAT
66 GTGCA-AAACTAAGAAATTCATAATAAATTTATGAATTTCTGTAT
982248 CGGTAGTGGA
Statistics
Matches: 102, Mismatches: 5, Indels: 3
0.93 0.05 0.03
Matches are distributed among these distances:
108 1 0.01
109 85 0.83
110 16 0.16
ACGTcount: A:0.36, C:0.11, G:0.17, T:0.35
Consensus pattern (110 bp):
GGCACTATGCGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCATATGGGCACTTTGT
GTGCAAAACTAAGAAATTCATAATAAATTTATGAATTTCTGTATG
Found at i:982307 original size:109 final size:108
Alignment explanation
Indices: 982041--982322 Score: 327
Period size: 109 Copynumber: 2.6 Consensus size: 108
982031 GCACTATGCG
*
982041 TGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTTTGTGTGCAAAACTA
1 TGCAAAAC-AAGAAATTCATAATAAGTTTATGAATTTCTGTATGGGCACTTTGTGTG-AAAACTA
* * * * *
982106 AGAAATTCATAATAAGTTTATGAATTTCTGTATGGGCACTTTGTG
64 AGAAATTCATAATAAATTTATGAATTTCTGTATCGGCACGTGGTA
* *
982151 TGCAAAATAAGAAATTCATAATAAGTTTATGAATTTCTATATGGGCACTTTGTGTGAGAAACTAA
1 TGCAAAACAAGAAATTCATAATAAGTTTATGAATTTCTGTATGGGCACTTTGTGTGA-AAACTAA
*
982216 GAAATTCATAATAAATTTATGAATTTCTGTATCGGTA-GTGGATA
65 GAAATTCATAATAAATTTATGAATTTCTGTATCGGCACGTGG-TA
* ** * * * * **
982260 TGTAACCCACGTAAATT-ATAATAAG-TTGTGAATTACTGTAATTGGCACTAAGTGTGAAAACTA
1 TGCAAAACAAG-AAATTCATAATAAGTTTATGAATTTCTGT-ATGGGCACTTTGTGTGAAAACTA
982323 TAGAGTTTAA
Statistics
Matches: 148, Mismatches: 20, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
108 20 0.14
109 116 0.78
110 12 0.08
ACGTcount: A:0.37, C:0.11, G:0.18, T:0.35
Consensus pattern (108 bp):
TGCAAAACAAGAAATTCATAATAAGTTTATGAATTTCTGTATGGGCACTTTGTGTGAAAACTAAG
AAATTCATAATAAATTTATGAATTTCTGTATCGGCACGTGGTA
Found at i:982492 original size:81 final size:81
Alignment explanation
Indices: 982393--982782 Score: 546
Period size: 81 Copynumber: 4.8 Consensus size: 81
982383 CTATTCCAAG
* *
982393 GTAAAAGATTAATGGCCTAGCTGAGCATTTGGCAGAAAGGTGTCAATTATGTCAGTTAGATGAAA
1 GTAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAA
*
982458 TGTTAAATACCTTTGA
66 GGTTAAATACCTTTGA
*
982474 GTAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTTAATTATGCCAGTTAGATGAAA
1 GTAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAA
*
982539 TGTTAAATACCTTTGA
66 GGTTAAATACCTTTGA
* * * *
982555 GTAAAAGATTAATGGCCTAGTTGTGCATTTGGCATAAAGGTGACAATTATGTCAGTTAGATGAAA
1 GTAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAA
**
982620 GGTTAAATACCTTCAA
66 GGTTAAATACCTTTGA
* * * * * *
982636 GTAAAATATTAATGGCCCAGCTGTGTAATTGGTAGAAAGGTGTCAATCATGCCAGTTAGATGAAA
1 GTAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAA
*
982701 GGTTAAATACATTTGA
66 GGTTAAATACCTTTGA
* * * * * * * *
982717 ATAATAGATTAATGGCTTAGCTGTGCATTTGACAGGAATGTGTCAATCATGCAAGTTAGATGAAA
1 GTAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAA
982782 G
66 G
982783 CTATATGGCT
Statistics
Matches: 273, Mismatches: 36, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
81 273 1.00
ACGTcount: A:0.35, C:0.11, G:0.23, T:0.31
Consensus pattern (81 bp):
GTAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAA
GGTTAAATACCTTTGA
Found at i:985182 original size:18 final size:18
Alignment explanation
Indices: 985159--985207 Score: 80
Period size: 18 Copynumber: 2.7 Consensus size: 18
985149 CCTTTATATC
985159 TAGAATAGGCACAAGTCT
1 TAGAATAGGCACAAGTCT
985177 TAGAATAGGCACAAGTCT
1 TAGAATAGGCACAAGTCT
* *
985195 TGGAATAGTCACA
1 TAGAATAGGCACA
985208 CTTGTGTAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.22
Consensus pattern (18 bp):
TAGAATAGGCACAAGTCT
Done.