Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 253 of 333
Found at i:83345154 original size:150 final size:150
Alignment explanation
Indices: 83344883--83345154 Score: 323
Period size: 150 Copynumber: 1.8 Consensus size: 150
83344873 TTTAACAACC
* * * *
83344883 TAGGAGGAAATTGTTAAGCATCTATGTGATAGGGGAATACAAATGTTGAACTTCACTTATGAACT
1 TAGGAGGAAATGGTCAAGCATCTATGTGATAAGGGAATACAAATGTTGAACTTCACCTATGAACT
* * * * *
83344948 CAATATTATTCATGATGAATGGCAGCTAAGTGACAGTTCCGATGGAATCACCCTTCCCATCTACC
66 CAACATTATTCATAATGAATGCCAGCTAAGTGACAATTCCAATGGAATCACCCTTCCCATCTACC
83345013 TATTCTAGTGTTCAACGACA
131 TATTCTAGTGTTCAACGACA
* * * ** *
83345033 TAGGAGGAAATGGTCAGGCATCTATAG-GCTAAGGGAATACAAGTGTTGAACTTTGCCTATGAAT
1 TAGGAGGAAATGGTCAAGCATCTAT-GTGATAAGGGAATACAAATGTTGAACTTCACCTATGAAC
* * * * * *
83345097 TTAACATTGTTCATAATGAATGCC-GATTAAGTGATAATTCTAATGGAATCATCCTTCC
65 TCAACATTATTCATAATGAATGCCAG-CTAAGTGACAATTCCAATGGAATCACCCTTCC
83345155 TATTTACATG
Statistics
Matches: 99, Mismatches: 21, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
149 1 0.01
150 97 0.98
151 1 0.01
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.31
Consensus pattern (150 bp):
TAGGAGGAAATGGTCAAGCATCTATGTGATAAGGGAATACAAATGTTGAACTTCACCTATGAACT
CAACATTATTCATAATGAATGCCAGCTAAGTGACAATTCCAATGGAATCACCCTTCCCATCTACC
TATTCTAGTGTTCAACGACA
Found at i:83347739 original size:21 final size:22
Alignment explanation
Indices: 83347715--83347759 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
83347705 TATTTAACCG
*
83347715 AAAATAAATTGGATTA-AAATT
1 AAAATAAATTAGATTATAAATT
* *
83347736 AAAATTAATTATATTATAAATT
1 AAAATAAATTAGATTATAAATT
83347758 AA
1 AA
83347760 TATTCATAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (22 bp):
AAAATAAATTAGATTATAAATT
Found at i:83349807 original size:34 final size:34
Alignment explanation
Indices: 83349766--83349833 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
83349756 CTTGAAAGTG
*
83349766 AAAACTTCATGAAAACATAACTAATTTCCTTTCC
1 AAAACTTCATGAAAACACAACTAATTTCCTTTCC
83349800 AAAACTTCATGAAAACACAACTAATTTCCTTTCC
1 AAAACTTCATGAAAACACAACTAATTTCCTTTCC
83349834 TACGAGCTCA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.41, C:0.25, G:0.03, T:0.31
Consensus pattern (34 bp):
AAAACTTCATGAAAACACAACTAATTTCCTTTCC
Found at i:83351181 original size:27 final size:27
Alignment explanation
Indices: 83351139--83351317 Score: 227
Period size: 27 Copynumber: 6.7 Consensus size: 27
83351129 ACATTGGGGT
* * * *
83351139 AAAACAACCATCTTACCATAAAAGGGC
1 AAAACAATCATTTTACCACATAAGGGC
*
83351166 AAAACAATTATTTTACCACATAAGGGC
1 AAAACAATCATTTTACCACATAAGGGC
* * *
83351193 AAAATAGTCATTTTACCACATAAGAG-
1 AAAACAATCATTTTACCACATAAGGGC
*
83351219 AAAACTAGTCATTTTACCACATAAGGGC
1 AAAAC-AATCATTTTACCACATAAGGGC
*
83351247 AAAACAATCATTTTACCTCATAAGGGC
1 AAAACAATCATTTTACCACATAAGGGC
* *
83351274 AAAACAACCATTTTACCTCATAAGGGC
1 AAAACAATCATTTTACCACATAAGGGC
83351301 AAAACAATCA-TTTACCA
1 AAAACAATCATTTTACCA
83351318 ACTTGAGGGT
Statistics
Matches: 134, Mismatches: 16, Indels: 5
0.86 0.10 0.03
Matches are distributed among these distances:
26 10 0.07
27 119 0.89
28 5 0.04
ACGTcount: A:0.44, C:0.22, G:0.11, T:0.23
Consensus pattern (27 bp):
AAAACAATCATTTTACCACATAAGGGC
Found at i:83355939 original size:27 final size:27
Alignment explanation
Indices: 83355909--83356116 Score: 222
Period size: 27 Copynumber: 7.7 Consensus size: 27
83355899 TTTAACCACG
* * * *
83355909 TAAGGGCAAAATAGTTATTTTACTTCA
1 TAAGGGCAAAACAATCATTTTACCTCA
* *
83355936 TAAGGGCAAAACAGTCATTATACCTCA
1 TAAGGGCAAAACAATCATTTTACCTCA
* * *
83355963 TAAAGGAAAAACAATCATTTTACCCCA
1 TAAGGGCAAAACAATCATTTTACCTCA
*
83355990 TAAGGGCAAAACAATTATTTTACCTCA
1 TAAGGGCAAAACAATCATTTTACCTCA
* * *
83356017 TAAGGGCAAAACAATCATATAACCACA
1 TAAGGGCAAAACAATCATTTTACCTCA
*
83356044 -AGAGGGCAAAACAGTCATTTTACAC-CA
1 TA-AGGGCAAAACAATCATTTTAC-CTCA
*
83356071 TAAGGGGAAAACAATCATTTTACCTCA
1 TAAGGGCAAAACAATCATTTTACCTCA
* * *
83356098 AAAAGGCAAAACAGTCATT
1 TAAGGGCAAAACAATCATT
83356117 CACCAATTTG
Statistics
Matches: 151, Mismatches: 26, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
26 2 0.01
27 147 0.97
28 2 0.01
ACGTcount: A:0.44, C:0.19, G:0.13, T:0.24
Consensus pattern (27 bp):
TAAGGGCAAAACAATCATTTTACCTCA
Found at i:83355994 original size:81 final size:82
Alignment explanation
Indices: 83355909--83356116 Score: 269
Period size: 81 Copynumber: 2.6 Consensus size: 82
83355899 TTTAACCACG
* * * *
83355909 TAAGGGCAAAATAGTTATTTTACTTCATAAGGGCAAAACAGTCATTAT-ACCTCATA-AAGGAAA
1 TAAGGGCAAAACAATTATTTTACCTCATAAGGGCAAAACAGTCATTATAACCACA-AGAAGGAAA
*
83355972 AACAATCATTTTACCCCA
65 AACAATCATTTTACACCA
* * *
83355990 TAAGGGCAAAACAATTATTTTACCTCATAAGGGCAAAACAATCA-TATAACCACAAGAGGGCAAA
1 TAAGGGCAAAACAATTATTTTACCTCATAAGGGCAAAACAGTCATTATAACCACAAGAAGGAAAA
*
83356054 ACAGTCATTTTACACCA
66 ACAATCATTTTACACCA
* * * *
83356071 TAAGGGGAAAACAATCATTTTACCTCAAAAAGGCAAAACAGTCATT
1 TAAGGGCAAAACAATTATTTTACCTCATAAGGGCAAAACAGTCATT
83356117 CACCAATTTG
Statistics
Matches: 110, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
80 4 0.04
81 105 0.95
82 1 0.01
ACGTcount: A:0.44, C:0.19, G:0.13, T:0.24
Consensus pattern (82 bp):
TAAGGGCAAAACAATTATTTTACCTCATAAGGGCAAAACAGTCATTATAACCACAAGAAGGAAAA
ACAATCATTTTACACCA
Found at i:83356113 original size:54 final size:54
Alignment explanation
Indices: 83355853--83356116 Score: 253
Period size: 54 Copynumber: 4.9 Consensus size: 54
83355843 GTATACATTA
* * * ** * * *
83355853 CATAGGGGTAAAATAATCATTTTACCAT-AAAAGGGGGAAACAGTTATTTAACCA
1 CATAAGGGCAAAACAATCATTTTACC-TCAAAAGGGCAAAACAGTCATTTTACCT
* * * * * * *
83355907 CGTAAGGGCAAAATAGTTATTTTACTTCATAAGGGCAAAACAGTCATTATACCT
1 CATAAGGGCAAAACAATCATTTTACCTCAAAAGGGCAAAACAGTCATTTTACCT
* * * * * *
83355961 CATAAAGGAAAAACAATCATTTTACCCCATAAGGGCAAAACAATTATTTTACCT
1 CATAAGGGCAAAACAATCATTTTACCTCAAAAGGGCAAAACAGTCATTTTACCT
* * * *
83356015 CATAAGGGCAAAACAATCATATAACCACAAGAGGGCAAAACAGTCATTTTACAC-
1 CATAAGGGCAAAACAATCATTTTACCTCAAAAGGGCAAAACAGTCATTTTAC-CT
* *
83356069 CATAAGGGGAAAACAATCATTTTACCTCAAAAAGGCAAAACAGTCATT
1 CATAAGGGCAAAACAATCATTTTACCTCAAAAGGGCAAAACAGTCATT
83356117 CACCAATTTG
Statistics
Matches: 169, Mismatches: 39, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
53 1 0.01
54 167 0.99
55 1 0.01
ACGTcount: A:0.43, C:0.18, G:0.15, T:0.24
Consensus pattern (54 bp):
CATAAGGGCAAAACAATCATTTTACCTCAAAAGGGCAAAACAGTCATTTTACCT
Found at i:83358896 original size:46 final size:45
Alignment explanation
Indices: 83358829--83358920 Score: 175
Period size: 46 Copynumber: 2.0 Consensus size: 45
83358819 TAATCACTTG
83358829 TATTTCTACAAGCTCAAGCACACTTTAGACAAGAAAGATAAAAAAA
1 TATTTCTACAAGCTCAAGCACACTTTAGACAAGAAAGA-AAAAAAA
83358875 TATTTCTACAAGCTCAAGCACACTTTAGACAAGAAAGAAAAAAAA
1 TATTTCTACAAGCTCAAGCACACTTTAGACAAGAAAGAAAAAAAA
83358920 T
1 T
83358921 TATGAAAAAA
Statistics
Matches: 46, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
45 8 0.17
46 38 0.83
ACGTcount: A:0.50, C:0.17, G:0.11, T:0.22
Consensus pattern (45 bp):
TATTTCTACAAGCTCAAGCACACTTTAGACAAGAAAGAAAAAAAA
Found at i:83358939 original size:45 final size:46
Alignment explanation
Indices: 83358841--83358939 Score: 121
Period size: 46 Copynumber: 2.2 Consensus size: 46
83358831 TTTCTACAAG
*** * *
83358841 CTCAAGCACACTTTAGACAAGAAAGATAAAAAAATATTTCTACAAG
1 CTCAAGCACACTTTAGACAAGAAAGATAAAAAAATATTGAAAAAAA
83358887 CTCAAGCACACTTTAGACAAGAAAGA-AAAAAAAT-TATGAAAAAAA
1 CTCAAGCACACTTTAGACAAGAAAGATAAAAAAATAT-TGAAAAAAA
*
83358932 CTTAAGCA
1 CTCAAGCA
83358940 TAAAATAAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
44 1 0.02
45 19 0.41
46 26 0.57
ACGTcount: A:0.54, C:0.16, G:0.11, T:0.19
Consensus pattern (46 bp):
CTCAAGCACACTTTAGACAAGAAAGATAAAAAAATATTGAAAAAAA
Found at i:83360502 original size:36 final size:36
Alignment explanation
Indices: 83360455--83360526 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
83360445 TAGTAGGAAT
83360455 GCCTCTTCTCATGCACCAATGGCAAACATGTAGAAA
1 GCCTCTTCTCATGCACCAATGGCAAACATGTAGAAA
83360491 GCCTCTTCTCATGCACCAATGGCAAACATGTAGAAA
1 GCCTCTTCTCATGCACCAATGGCAAACATGTAGAAA
83360527 CTAAATTCAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.33, C:0.28, G:0.17, T:0.22
Consensus pattern (36 bp):
GCCTCTTCTCATGCACCAATGGCAAACATGTAGAAA
Found at i:83366856 original size:5 final size:5
Alignment explanation
Indices: 83366844--83366907 Score: 112
Period size: 5 Copynumber: 13.0 Consensus size: 5
83366834 TTACTTTATT
*
83366844 TAAT- TAATA TAATA TGATA TAATA TAATA TAATA TAATA TAATA TAATA
1 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
83366893 TAATA TAATA TAATA
1 TAATA TAATA TAATA
83366908 ATATTTTATA
Statistics
Matches: 57, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
4 4 0.07
5 53 0.93
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.41
Consensus pattern (5 bp):
TAATA
Found at i:83369894 original size:20 final size:20
Alignment explanation
Indices: 83369851--83369892 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
83369841 TAAATAAAGT
83369851 AAATGCAATGGAAAGTAATG
1 AAATGCAATGGAAAGTAATG
83369871 AAATGCAAAT-GAAAGTAA-G
1 AAATGC-AATGGAAAGTAATG
83369890 AAA
1 AAA
83369893 ATTAGAAAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 4 0.19
20 14 0.67
21 3 0.14
ACGTcount: A:0.57, C:0.05, G:0.21, T:0.17
Consensus pattern (20 bp):
AAATGCAATGGAAAGTAATG
Found at i:83373249 original size:40 final size:41
Alignment explanation
Indices: 83373156--83373250 Score: 147
Period size: 41 Copynumber: 2.3 Consensus size: 41
83373146 TCTTACATCA
83373156 CACACTAAGTGCCAAATATAGCCAAACCTATCTCGATCTCG
1 CACACTAAGTGCCAAATATAGCCAAACCTATCTCGATCTCG
* * * *
83373197 CACACTAAGTGCCATATATAGCCGAAGCTATGTCGAT-TCG
1 CACACTAAGTGCCAAATATAGCCAAACCTATCTCGATCTCG
83373237 CACACTAAGTGCCA
1 CACACTAAGTGCCA
83373251 CAAATAAATG
Statistics
Matches: 50, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
40 17 0.34
41 33 0.66
ACGTcount: A:0.33, C:0.29, G:0.16, T:0.22
Consensus pattern (41 bp):
CACACTAAGTGCCAAATATAGCCAAACCTATCTCGATCTCG
Found at i:83397732 original size:40 final size:40
Alignment explanation
Indices: 83397664--83397840 Score: 225
Period size: 40 Copynumber: 4.5 Consensus size: 40
83397654 ACACAAGTAT
*
83397664 CTTCGGGAT-TTAG-CCGGATATAACAACTCGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAGCAACTCGCACAAATGC
83397703 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* * *
83397743 CTTCGGGTCTTAGCCCGGATATAATC-ACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATAT-AGCAACTCGCACAAATGC
* * * *
83397783 CTTCGGGACATAGCTCGGATATAGCAACTCGCACGAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* *
83397823 CTTCGGATCTTAGTCCGG
1 CTTCGGGTCTTAGCCCGG
83397841 TTATCAAACA
Statistics
Matches: 118, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
38 1 0.01
39 13 0.11
40 102 0.86
41 2 0.02
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
Found at i:83400467 original size:23 final size:23
Alignment explanation
Indices: 83400437--83400485 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
83400427 ATCTGATTGT
*
83400437 CTTGAAAATATTCTCATTAAGGA
1 CTTGAAAACATTCTCATTAAGGA
*
83400460 CTTGAAAACATTCTTATTAAGGA
1 CTTGAAAACATTCTCATTAAGGA
83400483 CTT
1 CTT
83400486 AGTCATATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.37
Consensus pattern (23 bp):
CTTGAAAACATTCTCATTAAGGA
Found at i:83402681 original size:18 final size:18
Alignment explanation
Indices: 83402658--83402695 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
83402648 TTTAGACCAT
83402658 AAAATATAATAAAAATAA
1 AAAATATAATAAAAATAA
83402676 AAAATATAATAAAAATAA
1 AAAATATAATAAAAATAA
83402694 AA
1 AA
83402696 TTTCTTACAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (18 bp):
AAAATATAATAAAAATAA
Found at i:83402684 original size:9 final size:9
Alignment explanation
Indices: 83402656--83402693 Score: 51
Period size: 9 Copynumber: 4.1 Consensus size: 9
83402646 ATTTTAGACC
83402656 ATAAAATATA
1 ATAAAA-ATA
83402666 ATAAAAATA
1 ATAAAAATA
83402675 A-AAAATATA
1 ATAAAA-ATA
83402684 ATAAAAATA
1 ATAAAAATA
83402693 A
1 A
83402694 AATTTCTTAC
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
8 4 0.15
9 12 0.46
10 10 0.38
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (9 bp):
ATAAAAATA
Found at i:83411301 original size:48 final size:48
Alignment explanation
Indices: 83411117--83411394 Score: 224
Period size: 48 Copynumber: 6.0 Consensus size: 48
83411107 CACATAGTAA
*
83411117 GATGCCAATGCCATATCCTAGAAATGGTCTTACATGGGATCATACATATC
1 GATGCCAATGCCATATCCTAGACATGGTCTTACATGGGATC-T-CATATC
* * * * *
83411167 GATG----T-CGATAGCCTAG-CTATGGTCTTACACGATG-TTTCATATC
1 GATGCCAATGCCATATCCTAGAC-ATGGTCTTACATG-GGATCTCATATC
* * ** ** *
83411210 GATG-----G-CATGTCCCAGACATGGTCTTACATGAAATAACAAATC
1 GATGCCAATGCCATATCCTAGACATGGTCTTACATGGGATCTCATATC
* *
83411252 GATGCCAATGTCATATCCTAGATATGGTCTTACATGGGATCTCATATC
1 GATGCCAATGCCATATCCTAGACATGGTCTTACATGGGATCTCATATC
** * *
83411300 GATGTGAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCATATC
1 GATGCCAATGCCATATCCTAGACATGGTCTTACATGGGATCTCATATC
* *
83411348 GATGCCAATGCCATGTCC-CGAACATGGTCTTACATGGGATCTCATAT
1 GATGCCAATGCCATATCCTAG-ACATGGTCTTACATGGGATCTCATAT
83411395 AACCCTAATG
Statistics
Matches: 183, Mismatches: 33, Indels: 26
0.76 0.14 0.11
Matches are distributed among these distances:
42 28 0.15
43 11 0.06
44 1 0.01
45 22 0.12
46 2 0.01
47 2 0.01
48 113 0.62
50 4 0.02
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.29
Consensus pattern (48 bp):
GATGCCAATGCCATATCCTAGACATGGTCTTACATGGGATCTCATATC
Found at i:83411349 original size:96 final size:96
Alignment explanation
Indices: 83411215--83411394 Score: 263
Period size: 96 Copynumber: 1.9 Consensus size: 96
83411205 ATATCGATGG
* *
83411215 CATGTCCCAGACATGGTCTTACATGAAATAACAAATCGATGCCAATGTCATATCCTAG-ATATGG
1 CATGTCCCAGACATGGTCTTACATGAAATAACAAATCGATGCCAATGCCATATCC-AGAACATGG
83411279 TCTTACATGGGATCTCATATCGATGTGAATGC
65 TCTTACATGGGATCTCATATCGATGTGAATGC
** ** * * *
83411311 CATGTCCCAGACATGGTCTTACATGGGATCTCATATCGATGCCAATGCCATGTCCCGAACATGGT
1 CATGTCCCAGACATGGTCTTACATGAAATAACAAATCGATGCCAATGCCATATCCAGAACATGGT
83411376 CTTACATGGGATCTCATAT
66 CTTACATGGGATCTCATAT
83411395 AACCCTAATG
Statistics
Matches: 74, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
95 1 0.01
96 73 0.99
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.29
Consensus pattern (96 bp):
CATGTCCCAGACATGGTCTTACATGAAATAACAAATCGATGCCAATGCCATATCCAGAACATGGT
CTTACATGGGATCTCATATCGATGTGAATGC
Found at i:83415555 original size:40 final size:40
Alignment explanation
Indices: 83415497--83415688 Score: 296
Period size: 40 Copynumber: 4.8 Consensus size: 40
83415487 CGGATGATAA
* *
83415497 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAT
* *
83415537 CCAGGCTAAGTCCCGAAGGCATTTGTGCGAATTACCAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAT
83415577 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAT
* *
83415617 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCA-AAT
* *
83415657 CCGGGCTATGTCCCGAAGGCATTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
83415689 AGCTATATCC
Statistics
Matches: 140, Mismatches: 11, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
40 138 0.99
41 2 0.01
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAT
Found at i:83419553 original size:38 final size:38
Alignment explanation
Indices: 83419511--83419642 Score: 115
Period size: 38 Copynumber: 3.4 Consensus size: 38
83419501 TAAAGACCTA
* *
83419511 CAGGCTATATGCTGGAAATATATTCAGGTTAAATCCCG
1 CAGGCTATATGCTGGTATTATATTCAGGTTAAATCCCG
* * * *
83419549 CAGGCT-TCGTGCTAGTATTATATCCGGGTTAAATCCCG
1 CAGGCTAT-ATGCTGGTATTATATTCAGGTTAAATCCCG
* * *
83419587 CAGGCCTA-GTGCTGGTATTATATCTAAGCTTAAAGTCCCG
1 CAGG-CTATATGCTGGTATTATAT-TCAGGTTAAA-TCCCG
* *
83419627 CAGGTTTTATGCTGGT
1 CAGGCTATATGCTGGT
83419643 GACTGGATTC
Statistics
Matches: 74, Mismatches: 14, Indels: 10
0.76 0.14 0.10
Matches are distributed among these distances:
37 1 0.01
38 48 0.65
39 9 0.12
40 16 0.22
ACGTcount: A:0.24, C:0.20, G:0.23, T:0.32
Consensus pattern (38 bp):
CAGGCTATATGCTGGTATTATATTCAGGTTAAATCCCG
Found at i:83424104 original size:12 final size:12
Alignment explanation
Indices: 83424087--83424114 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
83424077 GTTATATATA
83424087 TGTGGTTGTATG
1 TGTGGTTGTATG
83424099 TGTGGTTGTATG
1 TGTGGTTGTATG
83424111 TGTG
1 TGTG
83424115 TGATTATTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.07, C:0.00, G:0.43, T:0.50
Consensus pattern (12 bp):
TGTGGTTGTATG
Found at i:83424846 original size:38 final size:39
Alignment explanation
Indices: 83424804--83424956 Score: 172
Period size: 38 Copynumber: 4.0 Consensus size: 39
83424794 AAAGACCTGT
* * *
83424804 AGGCTAT-ATGCTGGAAATATATCTGGGTTAAATCCCGC
1 AGGCTATCGTGCTGGTATTATATCTGGGTTAAATCCCGC
* *
83424842 AGGCT-TCGTACTGGTATTATATCCGGGTTAAATCCCGC
1 AGGCTATCGTGCTGGTATTATATCTGGGTTAAATCCCGC
* *
83424880 AGG-TTTCGTGCTGGTATTATATCTGAGTTAAATCCCGC
1 AGGCTATCGTGCTGGTATTATATCTGGGTTAAATCCCGC
*
83424918 AGGCCTA--GTGCTGGTATTATATCTGAGCTTAAAGTCCCG
1 AGG-CTATCGTGCTGGTATTATATCTG-GGTTAAA-TCCCG
83424957 TAAGTTTTGT
Statistics
Matches: 98, Mismatches: 11, Indels: 10
0.82 0.09 0.08
Matches are distributed among these distances:
37 2 0.02
38 85 0.87
39 5 0.05
40 6 0.06
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.32
Consensus pattern (39 bp):
AGGCTATCGTGCTGGTATTATATCTGGGTTAAATCCCGC
Found at i:83424901 original size:76 final size:78
Alignment explanation
Indices: 83424812--83424972 Score: 209
Period size: 76 Copynumber: 2.1 Consensus size: 78
83424802 GTAGGCTATA
* * * * *
83424812 TGCTGGAAATATATCTGGGTTAAATCCCGCAGGCTTCGTACTGGTATTATATCCG-GGTTAAA-T
1 TGCTGGTAATATATCTGAGTTAAATCCCGCAGGCCTAGTACTGGTATTATATCCGAGCTTAAAGT
*
83424875 CCCGCAGGTTTCG
66 CCCGCAAGTTTCG
* * *
83424888 TGCTGGTATTATATCTGAGTTAAATCCCGCAGGCCTAGTGCTGGTATTATATCTGAGCTTAAAGT
1 TGCTGGTAATATATCTGAGTTAAATCCCGCAGGCCTAGTACTGGTATTATATCCGAGCTTAAAGT
* *
83424953 CCCGTAAGTTTTG
66 CCCGCAAGTTTCG
83424966 TGCTGGT
1 TGCTGGT
83424973 GACTGGATTC
Statistics
Matches: 72, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
76 48 0.67
77 6 0.08
78 18 0.25
ACGTcount: A:0.22, C:0.19, G:0.25, T:0.34
Consensus pattern (78 bp):
TGCTGGTAATATATCTGAGTTAAATCCCGCAGGCCTAGTACTGGTATTATATCCGAGCTTAAAGT
CCCGCAAGTTTCG
Found at i:83431685 original size:12 final size:12
Alignment explanation
Indices: 83431668--83431695 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
83431658 TATATATATA
83431668 TGTGGTTGTATG
1 TGTGGTTGTATG
83431680 TGTGGTTGTATG
1 TGTGGTTGTATG
83431692 TGTG
1 TGTG
83431696 TGATTATTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.07, C:0.00, G:0.43, T:0.50
Consensus pattern (12 bp):
TGTGGTTGTATG
Found at i:83435690 original size:46 final size:46
Alignment explanation
Indices: 83435638--83435768 Score: 199
Period size: 46 Copynumber: 2.8 Consensus size: 46
83435628 GATGGTTGAG
*
83435638 CATCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
** *
83435684 TGTCCGAACTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCGAA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
* * *
83435730 CACCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
83435769 GCGGGTTACA
Statistics
Matches: 75, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 75 1.00
ACGTcount: A:0.21, C:0.21, G:0.27, T:0.30
Consensus pattern (46 bp):
CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
Found at i:83440781 original size:9 final size:9
Alignment explanation
Indices: 83440766--83440881 Score: 103
Period size: 9 Copynumber: 12.7 Consensus size: 9
83440756 ATATTTATGT
83440766 ATTATGTAA
1 ATTATGTAA
*
83440775 GTTATGTAA
1 ATTATGTAA
83440784 ATTATGTAA
1 ATTATGTAA
* ***
83440793 GTTATCCGA
1 ATTATGTAA
83440802 ATTATGTAA
1 ATTATGTAA
83440811 ATTATGTAA
1 ATTATGTAA
83440820 GA-TATGATATA
1 -ATTATG-TA-A
83440831 TATTTATGT--
1 -A-TTATGTAA
83440840 ATTATGTAA
1 ATTATGTAA
*
83440849 GTTATGTAA
1 ATTATGTAA
83440858 ATTATGTAA
1 ATTATGTAA
83440867 ATTATGTAA
1 ATTATGTAA
*
83440876 AATATG
1 ATTATG
83440882 ATATATATTT
Statistics
Matches: 86, Mismatches: 14, Indels: 14
0.75 0.12 0.12
Matches are distributed among these distances:
7 6 0.07
8 1 0.01
9 69 0.80
10 3 0.03
11 2 0.02
12 1 0.01
13 4 0.05
ACGTcount: A:0.40, C:0.02, G:0.15, T:0.44
Consensus pattern (9 bp):
ATTATGTAA
Found at i:83440847 original size:56 final size:56
Alignment explanation
Indices: 83440784--83440895 Score: 188
Period size: 56 Copynumber: 2.0 Consensus size: 56
83440774 AGTTATGTAA
* *
83440784 ATTATGTAAGTTATCCGAATTATGTAAATTATGTAAGATATGATATATATTTATGT
1 ATTATGTAAGTTATCCAAATTATGTAAATTATGTAAAATATGATATATATTTATGT
**
83440840 ATTATGTAAGTTATGTAAATTATGTAAATTATGTAAAATATGATATATATTTATGT
1 ATTATGTAAGTTATCCAAATTATGTAAATTATGTAAAATATGATATATATTTATGT
83440896 TGATGGGATT
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
56 52 1.00
ACGTcount: A:0.39, C:0.02, G:0.13, T:0.46
Consensus pattern (56 bp):
ATTATGTAAGTTATCCAAATTATGTAAATTATGTAAAATATGATATATATTTATGT
Found at i:83441169 original size:91 final size:91
Alignment explanation
Indices: 83441063--83441356 Score: 482
Period size: 91 Copynumber: 3.2 Consensus size: 91
83441053 ATTTACAAGT
* * *
83441063 TTTTTCGTGATTAAAATAAAATAAAATAAAACTTTAAATACAATTTAATTTATTTAGGTAATTTG
1 TTTTTCCTAATTAAAATAAAATAAAATAAAACTTTAAATACAATTTAATTTATTTAGGTAATTTA
83441128 AAAATAAAATAAAAGTAGACAAAATA
66 AAAATAAAATAAAAGTAGACAAAATA
* *
83441154 TTTTTCCTAATTAAAATAAAATAAAATAAAACTTTAAATACAATTTACTTTAATTAGGTAATTTA
1 TTTTTCCTAATTAAAATAAAATAAAATAAAACTTTAAATACAATTTAATTTATTTAGGTAATTTA
*
83441219 AAAATAAAATAAAAGTAGACAAAGGT-
66 AAAATAAAATAAAAGTAGACAAA-ATA
* * *
83441245 TTTTTCGTGATTAAAATAAAATAAAATAAAACTTTAAATACAATTTAATTTATTCAGGTAATTTA
1 TTTTTCCTAATTAAAATAAAATAAAATAAAACTTTAAATACAATTTAATTTATTTAGGTAATTTA
83441310 AAAATAAAATAAAAGTAGACAAAATA
66 AAAATAAAATAAAAGTAGACAAAATA
*
83441336 TTTTCCCTAATTAAAATAAAA
1 TTTTTCCTAATTAAAATAAAA
83441357 CTTTAAATAC
Statistics
Matches: 186, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
90 1 0.01
91 184 0.99
92 1 0.01
ACGTcount: A:0.53, C:0.06, G:0.06, T:0.35
Consensus pattern (91 bp):
TTTTTCCTAATTAAAATAAAATAAAATAAAACTTTAAATACAATTTAATTTATTTAGGTAATTTA
AAAATAAAATAAAAGTAGACAAAATA
Found at i:83441370 original size:172 final size:171
Alignment explanation
Indices: 83441061--83441526 Score: 738
Period size: 172 Copynumber: 2.7 Consensus size: 171
83441051 TTATTTACAA
83441061 GTTTTTTCGTGATTAAAATAAAATAAAATAAAACTTTAAATACAATTTAATTTATTTAGGTAATT
1 GTTTTTTCGTGATTAAAATAAAATAAAATAAAACTTTAAATACAATTTAATTTA-TTAGGTAATT
* *
83441126 TGAAAATAAAATAAAAGTAGACAAAATATTTTTCCTAATTAAAATAAAATAAAATAAAACTTTAA
65 TAAAAATAAAATAAAAGTAGACAAAATA-TTTTCC---CT--AAT----TAAAATAAAACTTTAA
83441191 ATACAATTTACTTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAG
120 ATACAATTTACTTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAG
83441243 GTTTTTTCGTGATTAAAATAAAATAAAATAAAACTTTAAATACAATTTAATTTATTCAGGTAATT
1 GTTTTTTCGTGATTAAAATAAAATAAAATAAAACTTTAAATACAATTTAATTTATT-AGGTAATT
83441308 TAAAAATAAAATAAAAGTAGACAAAATATTTTCCCTAATTAAAATAAAACTTTAAATACAATTTA
65 TAAAAATAAAATAAAAGTAGACAAAATATTTTCCCTAATTAAAATAAAACTTTAAATACAATTTA
83441373 CTTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAG
130 CTTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAG
*
83441415 GCTTTTTCGTGATTAAAATAAAATAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATT
1 GTTTTTTCGTGATTAAAATAAAATAAAATAAAACTTTAAATACAATTTAATTT-ATTAGGTAATT
* * * *
83441480 TATAAATAAAATAAAAGTAGAC-AAGT-TTTTTCCTGATTAAAATAAAA
65 TAAAAATAAAATAAAAGTAGACAAAATATTTTCCCTAATTAAAATAAAA
83441527 TAAAATAAAA
Statistics
Matches: 275, Mismatches: 7, Indels: 16
0.92 0.02 0.05
Matches are distributed among these distances:
170 19 0.07
171 3 0.01
172 149 0.54
173 3 0.01
176 3 0.01
178 1 0.00
181 8 0.03
182 89 0.32
ACGTcount: A:0.52, C:0.06, G:0.07, T:0.35
Consensus pattern (171 bp):
GTTTTTTCGTGATTAAAATAAAATAAAATAAAACTTTAAATACAATTTAATTTATTAGGTAATTT
AAAAATAAAATAAAAGTAGACAAAATATTTTCCCTAATTAAAATAAAACTTTAAATACAATTTAC
TTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAG
Found at i:83441372 original size:81 final size:80
Alignment explanation
Indices: 83441266--83441526 Score: 319
Period size: 81 Copynumber: 3.1 Consensus size: 80
83441256 TAAAATAAAA
83441266 TAAAATAAAACTTTAAATACAATTTAATTT-ATTCAGGTAATTTAAAAATAAAATAAAAGTAGAC
1 TAAAATAAAACTTTAAATACAATTTAATTTAATT-AGGTAATTTAAAAATAAAATAAAAGTAGAC
83441330 AAAATATTTTCCCTAAT
65 AAAAT-TTTTCCCTAAT
*
83441347 TAAAATAAAACTTTAAATACAATTTACTTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACA
1 TAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACA
* **
83441412 AAGGCTTTTTCGTGATTAAAAT
66 AA--ATTTTTC---CCT--AAT
*
83441434 AAAATAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATTTATAAATAAAATAAAAGTA
1 ----TAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTA
* * *
83441499 GAC-AAGTTTTTTCCTGAT
62 GACAAAATTTTTCCCTAAT
83441517 TAAAATAAAA
1 TAAAATAAAA
83441527 TAAAATAAAA
Statistics
Matches: 157, Mismatches: 11, Indels: 26
0.81 0.06 0.13
Matches are distributed among these distances:
79 10 0.06
81 62 0.39
82 8 0.05
83 3 0.02
85 2 0.01
87 3 0.02
88 5 0.03
90 2 0.01
91 62 0.39
ACGTcount: A:0.52, C:0.07, G:0.07, T:0.34
Consensus pattern (80 bp):
TAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACA
AAATTTTTCCCTAAT
Found at i:83441403 original size:48 final size:48
Alignment explanation
Indices: 83441347--83441495 Score: 125
Period size: 48 Copynumber: 3.2 Consensus size: 48
83441337 TTTCCCTAAT
83441347 TAAAATAAAACTTTAAATACAATTTACTTTAATTAGGTAATTTAAAAA
1 TAAAATAAAACTTTAAATACAATTTACTTTAATTAGGTAATTTAAAAA
* * *** * * *
83441395 TAAAATAAAA--GT--AGACAA-AGGCTTT--TT-CGTGATTAAAATAAAA
1 TAAAATAAAACTTTAAATACAATTTACTTTAATTAGGTAATT--TA-AAAA
* *
83441438 TAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATTTATAAA
1 TAAAATAAAACTTTAAATACAATTTACTTTAATTAGGTAATTTAAAAA
83441486 TAAAATAAAA
1 TAAAATAAAA
83441496 GTAGACAAGT
Statistics
Matches: 72, Mismatches: 18, Indels: 22
0.64 0.16 0.20
Matches are distributed among these distances:
40 5 0.07
41 2 0.03
42 1 0.01
43 18 0.25
44 5 0.07
45 1 0.01
46 1 0.01
47 5 0.07
48 26 0.36
49 1 0.01
50 2 0.03
51 5 0.07
ACGTcount: A:0.54, C:0.05, G:0.07, T:0.34
Consensus pattern (48 bp):
TAAAATAAAACTTTAAATACAATTTACTTTAATTAGGTAATTTAAAAA
Found at i:83441454 original size:104 final size:91
Alignment explanation
Indices: 83441347--83441536 Score: 314
Period size: 91 Copynumber: 2.1 Consensus size: 91
83441337 TTTCCCTAAT
*
83441347 TAAAATAAAACTTTAAATACAATTTACTTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACA
1 TAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACA
*
83441412 AAGGCTTTTTCGTGATTAAAAT-AAAA
66 AA-GCTTTTTCCTGATTAAAATAAAAA
*
83441438 TAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATTTATAAATAAAATAAAAGTAGAC-
1 TAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACA
*
83441502 AAGTTTTTTCCTGATTAAAAT-AAAA
66 AAGCTTTTTCCTGATTAAAATAAAAA
83441527 TAAAATAAAA
1 TAAAATAAAA
83441537 TAAAATAAAA
Statistics
Matches: 95, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
89 31 0.33
90 2 0.02
91 62 0.65
ACGTcount: A:0.53, C:0.06, G:0.07, T:0.34
Consensus pattern (91 bp):
TAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACA
AAGCTTTTTCCTGATTAAAATAAAAA
Found at i:83441527 original size:5 final size:5
Alignment explanation
Indices: 83441517--83441551 Score: 70
Period size: 5 Copynumber: 7.0 Consensus size: 5
83441507 TTTTCCTGAT
83441517 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA
83441552 CTTTAAATAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:83441573 original size:263 final size:262
Alignment explanation
Indices: 83441084--83441556 Score: 763
Period size: 263 Copynumber: 1.8 Consensus size: 262
83441074 TAAAATAAAA
* *
83441084 TAAAATAAAACTTTAAATACAATTTAATTTATTTAGGTAATTTGAAAATAAAATAAAAGTAGACA
1 TAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACA
* *
83441149 AAATATTTTTCCTAATTAAAATAAAATAAAATAAAACTTTAAATACAATTTACTTTAATTAGGTA
66 AAAGATTTTTCCTAATTAAAATAAAATAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTA
*
83441214 ATTTAAAAATAAAATAAAAGTAGACAAAGGTTTTTTCGTGATTAAAATAAAATAAAATAAAACTT
131 ATTTAAAAATAAAATAAAAGTAGACAAAGGTTTTTTCCTGATTAAAATAAAATAAAATAAAAC-T
* * ** *
83441279 TAAATACAATTTAATTTATTCAGGTAATTTAAAAATAAAATAAAAGTAGACAAAATATTTTCCCT
195 AAAATAAAATAAAATTTATACAGGTAATTTAAAAATAAAATAAAAGTAGACAAAATATTTTCCCT
83441344 AAT
260 AAT
*
83441347 TAAAATAAAACTTTAAATACAATTTACTTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACA
1 TAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACA
* * * *
83441412 AAGGCTTTTTCGTGATTAAAATAAAATAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTA
66 AAAGATTTTTCCTAATTAAAATAAAATAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTA
*
83441477 ATTTATAAATAAAATAAAAGTAGAC-AA-GTTTTTTCCTGATTAAAATAAAATAAAATAAAA-TA
131 ATTTAAAAATAAAATAAAAGTAGACAAAGGTTTTTTCCTGATTAAAATAAAATAAAATAAAACTA
83441539 AAATAAAATAAAACTTTA
196 AAATAAAATAAAA-TTTA
83441557 AATACAATTT
Statistics
Matches: 194, Mismatches: 15, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
259 11 0.06
260 4 0.02
261 32 0.16
262 2 0.01
263 145 0.75
ACGTcount: A:0.53, C:0.06, G:0.07, T:0.34
Consensus pattern (262 bp):
TAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACA
AAAGATTTTTCCTAATTAAAATAAAATAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTA
ATTTAAAAATAAAATAAAAGTAGACAAAGGTTTTTTCCTGATTAAAATAAAATAAAATAAAACTA
AAATAAAATAAAATTTATACAGGTAATTTAAAAATAAAATAAAAGTAGACAAAATATTTTCCCTA
AT
Found at i:83441740 original size:99 final size:99
Alignment explanation
Indices: 83441621--83441954 Score: 616
Period size: 99 Copynumber: 3.4 Consensus size: 99
83441611 ATTTTAAACA
* * *
83441621 TTGTTAAGTCTTTCTTTTAATTTGCATTTATTGATTTGTTAATTTAAAAATTAGGTAATTTAAAA
1 TTGTTAAGTCTTTCTTTTAATTTGCATTTATTAATTTTTTAATTTAAAAATTAGGTAATATAAAA
83441686 ATAAAATAAAATATTTAAATTAATGACATTAACC
66 ATAAAATAAAATATTTAAATTAATGACATTAACC
83441720 TTGTTAAGTCTTTCTTTTAATTTGCATTTATTAATTTTTTAATTTAAAAATTAGGTAATATAAAA
1 TTGTTAAGTCTTTCTTTTAATTTGCATTTATTAATTTTTTAATTTAAAAATTAGGTAATATAAAA
83441785 ATAAAATAAAATATTTAAATTAATGACATTAACC
66 ATAAAATAAAATATTTAAATTAATGACATTAACC
83441819 TTGTTAAGTCTTTCTTTTAATTTGCATTTATTAATTTTTTAATTTAAAAATTAGGTAATATAAAA
1 TTGTTAAGTCTTTCTTTTAATTTGCATTTATTAATTTTTTAATTTAAAAATTAGGTAATATAAAA
*
83441884 ATAAAATAAAATATTTAAATTAATGACATTAAAC
66 ATAAAATAAAATATTTAAATTAATGACATTAACC
83441918 TTGTTAAGTCTTTCTTTTAATTTG-AGTTTATTAATTT
1 TTGTTAAGTCTTTCTTTTAATTTGCA-TTTATTAATTT
83441955 AAGTAAACAC
Statistics
Matches: 230, Mismatches: 4, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
98 1 0.00
99 229 1.00
ACGTcount: A:0.40, C:0.06, G:0.07, T:0.47
Consensus pattern (99 bp):
TTGTTAAGTCTTTCTTTTAATTTGCATTTATTAATTTTTTAATTTAAAAATTAGGTAATATAAAA
ATAAAATAAAATATTTAAATTAATGACATTAACC
Found at i:83442631 original size:8 final size:8
Alignment explanation
Indices: 83442618--83442664 Score: 51
Period size: 8 Copynumber: 6.0 Consensus size: 8
83442608 CAAAAAATTC
83442618 CACTATTA
1 CACTATTA
83442626 CACTATTA
1 CACTATTA
*
83442634 CACTA-TG
1 CACTATTA
* *
83442641 CGCAATTA
1 CACTATTA
*
83442649 CACTATTC
1 CACTATTA
83442657 CACTATTA
1 CACTATTA
83442665 TCATAATCAT
Statistics
Matches: 30, Mismatches: 8, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
7 4 0.13
8 26 0.87
ACGTcount: A:0.34, C:0.28, G:0.04, T:0.34
Consensus pattern (8 bp):
CACTATTA
Found at i:83446031 original size:81 final size:78
Alignment explanation
Indices: 83445934--83446133 Score: 240
Period size: 81 Copynumber: 2.5 Consensus size: 78
83445924 ACGATTCTTA
* * *
83445934 ACACTGGCTC-AAAGCCCTTCGAGACCAAGCTCGGATTAGGCCACTGGCTCGAAGGCCCTTTGGA
1 ACACTGGCTCAAAAGCCCTTCGA-ACCAAGCTCGGATTA-G-CACTGGCTCAAAAGCCCTTCGGA
83445998 ACTAAGTCCGGTTATG
63 ACTAAGTCCGGTTATG
* * *
83446014 ACACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTAGCACTGGCTCAAAAGCCCTTCGTA
1 ACACTGGCTCAAAAGCCCTTCG-AACCAAGCTCGG--ATTAGCACTGGCTCAAAAGCCCTTCGGA
* * *
83446079 ATTAAGTTCGGTTATT
63 ACTAAGTCCGGTTATG
83446095 AGCACTGGCTCAAAAGCCCTTCGAACCCAAGCTCGGATT
1 A-CACTGGCTCAAAAGCCCTTCGAA-CCAAGCTCGGATT
83446134 TACACCCCGA
Statistics
Matches: 103, Mismatches: 11, Indels: 12
0.82 0.09 0.10
Matches are distributed among these distances:
80 13 0.13
81 55 0.53
82 31 0.30
83 4 0.04
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.24
Consensus pattern (78 bp):
ACACTGGCTCAAAAGCCCTTCGAACCAAGCTCGGATTAGCACTGGCTCAAAAGCCCTTCGGAACT
AAGTCCGGTTATG
Found at i:83446072 original size:41 final size:41
Alignment explanation
Indices: 83445935--83446119 Score: 225
Period size: 41 Copynumber: 4.6 Consensus size: 41
83445925 CGATTCTTAA
* * *
83445935 CACTGGCTC-AAAGCCCTTCGAGACCAAGCTCGG--ATTAGG
1 CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTA-G
* * * * * *
83445974 CCACTGGCTCGAAGGCCCTTTGGAACTAAGTCCGGTTATGA-
1 -CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTAG
83446015 CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTAG
1 CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTAG
* *
83446056 CACTGGCTCAAAAGCCCTTCGTAATTAAGTTCGGTTATTAG
1 CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTAG
83446097 CACTGGCTCAAAAGCCCTTCGAA
1 CACTGGCTCAAAAGCCCTTCGAA
83446120 CCCAAGCTCG
Statistics
Matches: 124, Mismatches: 17, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
40 43 0.35
41 78 0.63
43 3 0.02
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.24
Consensus pattern (41 bp):
CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTAG
Found at i:83448601 original size:158 final size:157
Alignment explanation
Indices: 83448384--83448718 Score: 410
Period size: 158 Copynumber: 2.1 Consensus size: 157
83448374 GATGTTTATT
* * *
83448384 TAAAAAACACCGCTAATC-CCTATATATTCAACTAAAACGATGACGTGTATAGTAAACTTTAATT
1 TAAAAAACGCCGCTAATCTCCTATATATTCAACTAAAACGACGACGTGTACAGTAAACTTTAATT
* * *
83448448 ATTTTGTGGTGTTTTT-AAAAGCGCCACTAATACCCTCAT-ATACTAAAACGGCGCCGTTTTCTT
66 ATGTTGCGGTGTTTTTCAAAA-CGCCACTAATACCCT-ATCA-ACTAAAACGACGCCGTTTTCTT
*
83448511 TAAACTAAACTGTCTTCTGTGGCGTTTTCTA
128 TAAACTAAACTATCTTCTGTGGCGTTTT-TA
* * * *
83448542 T-AAAAACGCTGCTAATCTCCTATATATTCAACTAAAACGACGACGCT-TCCAGTACACTTTACT
1 TAAAAAACGCCGCTAATCTCCTATATATTCAACTAAAACGACGACG-TGTACAGTAAACTTTAAT
* *
83448605 TCTGTTGCGGTGTTTTTCAAAACGCCACTAATACTCTATCCAACTAAAACGACGCCGTTTTCTTT
65 TATGTTGCGGTGTTTTTCAAAACGCCACTAATACCCTAT-CAACTAAAACGACGCCGTTTTCTTT
* * * * *
83448670 CAACTATACTATTTTTTGTGGCGTTTTTT
129 AAACTAAACTATCTTCTGTGGCGTTTTTA
*
83448699 TAAAAAACGCCACTAATCTC
1 TAAAAAACGCCGCTAATCTC
83448719 TTAATTTTTA
Statistics
Matches: 151, Mismatches: 20, Indels: 12
0.83 0.11 0.07
Matches are distributed among these distances:
157 18 0.12
158 127 0.84
159 6 0.04
ACGTcount: A:0.30, C:0.23, G:0.12, T:0.35
Consensus pattern (157 bp):
TAAAAAACGCCGCTAATCTCCTATATATTCAACTAAAACGACGACGTGTACAGTAAACTTTAATT
ATGTTGCGGTGTTTTTCAAAACGCCACTAATACCCTATCAACTAAAACGACGCCGTTTTCTTTAA
ACTAAACTATCTTCTGTGGCGTTTTTA
Found at i:83449533 original size:15 final size:15
Alignment explanation
Indices: 83449504--83449546 Score: 54
Period size: 14 Copynumber: 3.0 Consensus size: 15
83449494 ACATATCTAA
*
83449504 TTAAACTAT-AACCC
1 TTAAACCATAAACCC
83449518 TTAAACCATAAACCC
1 TTAAACCATAAACCC
*
83449533 TT-AACCCTAAACCC
1 TTAAACCATAAACCC
83449547 CTAACCCCTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
14 19 0.73
15 7 0.27
ACGTcount: A:0.42, C:0.35, G:0.00, T:0.23
Consensus pattern (15 bp):
TTAAACCATAAACCC
Found at i:83449548 original size:15 final size:14
Alignment explanation
Indices: 83449513--83449553 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
83449503 ATTAAACTAT
*
83449513 AACCCTTAAACCATA
1 AACCCTT-AACCCTA
83449528 AACCCTTAACCCTA
1 AACCCTTAACCCTA
*
83449542 AACCCCTAACCC
1 AACCCTTAACCC
83449554 CTAATCCAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 17 0.71
15 7 0.29
ACGTcount: A:0.39, C:0.44, G:0.00, T:0.17
Consensus pattern (14 bp):
AACCCTTAACCCTA
Found at i:83449716 original size:14 final size:14
Alignment explanation
Indices: 83449672--83449710 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
83449662 TCCTACACCT
*
83449672 TAAACCCTGAATCA
1 TAAACCCTAAATCA
*
83449686 TATACCCTAAATCA
1 TAAACCCTAAATCA
83449700 TAAACCCTAAA
1 TAAACCCTAAA
83449711 CTATAATGAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.46, C:0.28, G:0.03, T:0.23
Consensus pattern (14 bp):
TAAACCCTAAATCA
Found at i:83450224 original size:41 final size:40
Alignment explanation
Indices: 83450178--83450267 Score: 119
Period size: 41 Copynumber: 2.2 Consensus size: 40
83450168 CTCCAAGGCA
* *
83450178 CCGCTAATGGTCAAGC-TATAGTGGCGTTTCTCATATAAGCG
1 CCGCTAATGCTCAA-CATATAGCGGCGTTTC-CATATAAGCG
* *
83450219 CCGCTAATTCTCAACATATAGCGGCGTTTCCTTATAAGCG
1 CCGCTAATGCTCAACATATAGCGGCGTTTCCATATAAGCG
83450259 CCGCTAATG
1 CCGCTAATG
83450268 TTAGTTTTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
40 18 0.42
41 25 0.58
ACGTcount: A:0.24, C:0.26, G:0.21, T:0.29
Consensus pattern (40 bp):
CCGCTAATGCTCAACATATAGCGGCGTTTCCATATAAGCG
Found at i:83450329 original size:40 final size:40
Alignment explanation
Indices: 83450254--83450345 Score: 105
Period size: 40 Copynumber: 2.3 Consensus size: 40
83450244 GTTTCCTTAT
* * * *
83450254 AAGCGCCGCTAATGTTAGTTTTTTAGTGGCATTTTTGTGG
1 AAGCGCCACTAATGCTACTTTTTTAGTGGCATTTTTGTGA
* *
83450294 AAGCGCCACTAATGCT-CTTTTTTAGTGGCCTTTTTTGTTA
1 AAGCGCCACTAATGCTACTTTTTTAGTGG-CATTTTTGTGA
*
83450334 AAACGCCACTAA
1 AAGCGCCACTAA
83450346 AAGCGCCGCT
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
39 11 0.25
40 33 0.75
ACGTcount: A:0.22, C:0.18, G:0.21, T:0.39
Consensus pattern (40 bp):
AAGCGCCACTAATGCTACTTTTTTAGTGGCATTTTTGTGA
Found at i:83458956 original size:18 final size:18
Alignment explanation
Indices: 83458933--83458968 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
83458923 AATTAATTAA
83458933 AAATTAATTA-TTTTAATT
1 AAATT-ATTATTTTTAATT
83458951 AAATTATTATTTTTAATT
1 AAATTATTATTTTTAATT
83458969 CGATTTTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (18 bp):
AAATTATTATTTTTAATT
Found at i:83463840 original size:20 final size:20
Alignment explanation
Indices: 83463817--83463863 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
83463807 AAACTTATTC
83463817 ACTTACTCGA-TTACTTAAAT
1 ACTTACT-GACTTACTTAAAT
*
83463837 ACTTACTTACTTACTTAAAT
1 ACTTACTGACTTACTTAAAT
83463857 ACTTACT
1 ACTTACT
83463864 TAATCAAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 1 0.04
20 24 0.96
ACGTcount: A:0.34, C:0.21, G:0.02, T:0.43
Consensus pattern (20 bp):
ACTTACTGACTTACTTAAAT
Found at i:83463842 original size:12 final size:12
Alignment explanation
Indices: 83463827--83463866 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
83463817 ACTTACTCGA
83463827 TTACTTAAATAC
1 TTACTTAAATAC
83463839 TTAC-T---TAC
1 TTACTTAAATAC
83463847 TTACTTAAATAC
1 TTACTTAAATAC
83463859 TTACTTAA
1 TTACTTAA
83463867 TCAAATTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 8
0.75 0.00 0.25
Matches are distributed among these distances:
8 7 0.29
9 1 0.04
11 1 0.04
12 15 0.62
ACGTcount: A:0.38, C:0.17, G:0.00, T:0.45
Consensus pattern (12 bp):
TTACTTAAATAC
Found at i:83463983 original size:23 final size:24
Alignment explanation
Indices: 83463945--83463989 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
83463935 TTTGCTCTTG
*
83463945 TAGCATGAACTTGTCTTACCTTTT
1 TAGCATGAACTCGTCTTACCTTTT
83463969 TAGCAT-AACTCGTCTTACCTT
1 TAGCATGAACTCGTCTTACCTT
83463990 ACCTTACCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.22, C:0.24, G:0.11, T:0.42
Consensus pattern (24 bp):
TAGCATGAACTCGTCTTACCTTTT
Found at i:83464187 original size:53 final size:54
Alignment explanation
Indices: 83464074--83464312 Score: 278
Period size: 55 Copynumber: 4.5 Consensus size: 54
83464064 ATTTCTATGA
* * * *
83464074 CTTGTCATGGTCTTACGTGGTATCC-T---TT-TGAAACTTACCATTGCCATGT
1 CTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAACTTACCAATGCCATGC
*
83464123 CTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AACTCACCAATGCCATGC
1 CTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAACTTACCAATGCCATGC
* * * *
83464176 CTTGACATGGTCTTACATGGGA-CCTTTGCCTTATAGTAACTTATCAATGCCATGT
1 CTTGACATGGTCTTACATGGTATCC-TTGCCTTAT-GAAACTTACCAATGCCATGC
* *
83464231 CTTGACATGGTCTTACATGATTTCCTTGCCTTA-GAAACCTTACCAATTGCCATGC
1 CTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA-CTTACCAA-TGCCATGC
*
83464286 CTTGGCATGGTCTTACATGGTATCCTT
1 CTTGACATGGTCTTACATGGTATCCTT
83464313 AAACCCTAAT
Statistics
Matches: 161, Mismatches: 18, Indels: 16
0.83 0.09 0.08
Matches are distributed among these distances:
49 23 0.14
50 1 0.01
52 2 0.01
53 50 0.31
54 10 0.06
55 73 0.45
56 2 0.01
ACGTcount: A:0.21, C:0.25, G:0.18, T:0.36
Consensus pattern (54 bp):
CTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAACTTACCAATGCCATGC
Found at i:83465340 original size:16 final size:16
Alignment explanation
Indices: 83465319--83465350 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
83465309 CTTAGTACCT
83465319 TTGTGAACTAGAACAC
1 TTGTGAACTAGAACAC
83465335 TTGTGAACTAGAACAC
1 TTGTGAACTAGAACAC
83465351 ACATTTTACA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.25
Consensus pattern (16 bp):
TTGTGAACTAGAACAC
Found at i:83471498 original size:23 final size:24
Alignment explanation
Indices: 83471460--83471504 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
83471450 TTTGCTCTTG
*
83471460 TAGCATGAACTTGTCTTACCTTTT
1 TAGCATGAACTCGTCTTACCTTTT
83471484 TAGCAT-AACTCGTCTTACCTT
1 TAGCATGAACTCGTCTTACCTT
83471505 ACCTTACCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.22, C:0.24, G:0.11, T:0.42
Consensus pattern (24 bp):
TAGCATGAACTCGTCTTACCTTTT
Found at i:83471768 original size:55 final size:53
Alignment explanation
Indices: 83471578--83471832 Score: 234
Period size: 55 Copynumber: 4.8 Consensus size: 53
83471568 ACACGGGTAC
* * * * * *
83471578 CTTACCATTGCCATGACTTGTCATGGTCTTACGTGGTATCCTT---TTGA-AA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTAAGAA
* * *
83471627 CTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTAAGAA
* * *
83471680 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTAAAGTAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCC-TTGCCTT-AAG-AA
* ***
83471735 CTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTT-AGAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTAAG-AA
* * * *
83471788 CCTTACCCATTGCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 -CTTA-CCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTT
83471833 AAACCCTAAT
Statistics
Matches: 171, Mismatches: 25, Indels: 14
0.81 0.12 0.07
Matches are distributed among these distances:
49 40 0.23
52 4 0.02
53 46 0.27
54 6 0.04
55 73 0.43
56 2 0.01
ACGTcount: A:0.21, C:0.25, G:0.18, T:0.36
Consensus pattern (53 bp):
CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTAAGAA
Found at i:83471769 original size:108 final size:110
Alignment explanation
Indices: 83471625--83471825 Score: 318
Period size: 108 Copynumber: 1.8 Consensus size: 110
83471615 ATCCTTTTGA
* *
83471625 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AA-CTCA-CCA
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTA-GAAACCTCACCCA
83471687 ATGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTAAAGT
65 ATGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTAAAGT
* * * *
83471733 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAACCTTACCCAT
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCCAA
83471798 TGCCATGCCTTGGCATGGTCTTACATGG
66 TGCCATGCCTTGGCATGGTCTTACATGG
83471826 TATCCTTAAA
Statistics
Matches: 84, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
107 1 0.01
108 49 0.58
109 3 0.04
110 31 0.37
ACGTcount: A:0.22, C:0.26, G:0.18, T:0.34
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCCAA
TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTAAAGT
Found at i:83481575 original size:23 final size:23
Alignment explanation
Indices: 83481549--83481602 Score: 90
Period size: 23 Copynumber: 2.3 Consensus size: 23
83481539 AAAGCACACT
*
83481549 GGCGTGTGCATTGTCTCCACATG
1 GGCGTGTGCATTGTCTCCACAAG
83481572 GGCGTGTGCATTGTCTCCACAAG
1 GGCGTGTGCATTGTCTCCACAAG
*
83481595 GGTGTGTG
1 GGCGTGTG
83481603 AGTCTTAACC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.13, C:0.22, G:0.35, T:0.30
Consensus pattern (23 bp):
GGCGTGTGCATTGTCTCCACAAG
Found at i:83484034 original size:2 final size:2
Alignment explanation
Indices: 83484027--83484058 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
83484017 CACTAAGAGC
83484027 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
83484059 TATATATATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:83484118 original size:40 final size:40
Alignment explanation
Indices: 83484069--83484144 Score: 100
Period size: 40 Copynumber: 1.9 Consensus size: 40
83484059 TATATATATA
*
83484069 TAGCTGAAGCTATCACAAA-TCGCACACCAAGTGCCACATT
1 TAGCCGAAGCTATCACAAACT-GCACACCAAGTGCCACATT
** *
83484109 TAGCCGAAGCTATTTCAAACTGCACACTAAGTGCCA
1 TAGCCGAAGCTATCACAAACTGCACACCAAGTGCCA
83484145 TTCTTAGCTG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
40 30 0.97
41 1 0.03
ACGTcount: A:0.34, C:0.29, G:0.16, T:0.21
Consensus pattern (40 bp):
TAGCCGAAGCTATCACAAACTGCACACCAAGTGCCACATT
Found at i:83490835 original size:55 final size:53
Alignment explanation
Indices: 83490710--83490907 Score: 146
Period size: 55 Copynumber: 3.7 Consensus size: 53
83490700 TAGAGTTTAG
* * * * * * * * *
83490710 GGATACCAAGTAAGACCATGCCAAGGCATGACATTGGTAAGTTCTACAAGGCAA
1 GGATACCATGTAAGACCATGTCAAGACATGGCAATGATAACTAC-ATAAGGCAA
* * * *
83490764 GAAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAACTACTATAAGGCCAA
1 GGATACCATGTAAGACCATGTCAAGACATGGCAATGAT-AACTAC-ATAAGG-CAA
* * * * * * * *
83490820 -GATCCCATGTAAGACCATGCCGAGGCATGGCAATGGTGAGTTCATAAGGCAA
1 GGATACCATGTAAGACCATGTCAAGACATGGCAATGATAACTACATAAGGCAA
* *
83490872 GGATACCACGTAAGACCATGTCAAGACATGACAATG
1 GGATACCATGTAAGACCATGTCAAGACATGGCAATG
83490908 GTAAGTTTAA
Statistics
Matches: 112, Mismatches: 29, Indels: 7
0.76 0.20 0.05
Matches are distributed among these distances:
52 3 0.03
53 35 0.31
54 33 0.29
55 38 0.34
56 3 0.03
ACGTcount: A:0.37, C:0.20, G:0.23, T:0.19
Consensus pattern (53 bp):
GGATACCATGTAAGACCATGTCAAGACATGGCAATGATAACTACATAAGGCAA
Found at i:83490890 original size:53 final size:54
Alignment explanation
Indices: 83490710--83490914 Score: 198
Period size: 53 Copynumber: 3.8 Consensus size: 54
83490700 TAGAGTTTAG
* * * *
83490710 GGATACCAAGTAAGACCATGCCAAGGCATGACATTGGTAAGTTCTACAAGGCAA
1 GGATACCATGTAAGACCATGCCAAGACATGACAATGGTAAGTTCTATAAGGCAA
* * * * * * * * *
83490764 GAAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAACTACTATAAGGCCAA
1 GGATACCATGTAAGACCATGCCAAGACATGACAATGGT-AAGTTCTATAAGG-CAA
* * * * *
83490820 -GATCCCATGTAAGACCATGCCGAGGCATGGCAATGGTGAGTTC-ATAAGGCAA
1 GGATACCATGTAAGACCATGCCAAGACATGACAATGGTAAGTTCTATAAGGCAA
* *
83490872 GGATACCACGTAAGACCATGTCAAGACATGACAATGGTAAGTT
1 GGATACCATGTAAGACCATGCCAAGACATGACAATGGTAAGTT
83490915 TAAAAAGGAA
Statistics
Matches: 118, Mismatches: 30, Indels: 7
0.76 0.19 0.05
Matches are distributed among these distances:
52 3 0.03
53 41 0.35
54 33 0.28
55 38 0.32
56 3 0.03
ACGTcount: A:0.37, C:0.20, G:0.23, T:0.20
Consensus pattern (54 bp):
GGATACCATGTAAGACCATGCCAAGACATGACAATGGTAAGTTCTATAAGGCAA
Found at i:83490962 original size:49 final size:49
Alignment explanation
Indices: 83490904--83491007 Score: 201
Period size: 49 Copynumber: 2.1 Consensus size: 49
83490894 AAGACATGAC
83490904 AATGG-TAAGTTTAAAAAGGAAAGGTACTTGTGTATCCTTAGTATTCCA
1 AATGGTTAAGTTTAAAAAGGAAAGGTACTTGTGTATCCTTAGTATTCCA
83490952 AATGGTTAAGTTTAAAAAGGAAAGGTACTTGTGTATCCTTAGTATTCCA
1 AATGGTTAAGTTTAAAAAGGAAAGGTACTTGTGTATCCTTAGTATTCCA
83491001 AATGGTT
1 AATGGTT
83491008 CAACGGAAAA
Statistics
Matches: 55, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
48 5 0.09
49 50 0.91
ACGTcount: A:0.35, C:0.10, G:0.21, T:0.35
Consensus pattern (49 bp):
AATGGTTAAGTTTAAAAAGGAAAGGTACTTGTGTATCCTTAGTATTCCA
Found at i:83499267 original size:28 final size:27
Alignment explanation
Indices: 83499209--83499268 Score: 66
Period size: 28 Copynumber: 2.2 Consensus size: 27
83499199 ATTTTAATGT
* **
83499209 GTCTTAGTTCATACATGTTTTTAATTT
1 GTCTTAGTTCATACATGTTTTAAATAA
* *
83499236 GTCTTAGTTTATTGCATGTTTTAAATAA
1 GTCTTAGTTCA-TACATGTTTTAAATAA
83499264 GTCTT
1 GTCTT
83499269 TGAGTCAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
27 10 0.37
28 17 0.63
ACGTcount: A:0.23, C:0.10, G:0.13, T:0.53
Consensus pattern (27 bp):
GTCTTAGTTCATACATGTTTTAAATAA
Found at i:83505082 original size:53 final size:55
Alignment explanation
Indices: 83505020--83505170 Score: 164
Period size: 55 Copynumber: 2.8 Consensus size: 55
83505010 TTAAACTTAC
* *
83505020 CATTTCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-G-AACTCAT
1 CATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATCGTAACTCAT
* * * * ** *
83505073 CATTGCCATG-CGTTGGCATGGTCTTACATGGGATCTTTGCATTATCGTAGTTTAT
1 CATTGCCATGTC-TTGACATGGTCTTACATGGTATCCTTGCCTTATCGTAACTCAT
* * *
83505128 CAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTT
1 CATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTT
83505171 GTAAAACTTA
Statistics
Matches: 78, Mismatches: 16, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
52 1 0.01
53 37 0.47
54 1 0.01
55 38 0.49
56 1 0.01
ACGTcount: A:0.19, C:0.23, G:0.19, T:0.40
Consensus pattern (55 bp):
CATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATCGTAACTCAT
Found at i:83508452 original size:77 final size:75
Alignment explanation
Indices: 83508286--83508454 Score: 169
Period size: 77 Copynumber: 2.2 Consensus size: 75
83508276 ATTTATTCAG
* * * * * * *
83508286 CTAGCATTGGGTGCAACTTTCGTCAGTTTATCTGACTAGTGCTGGGCACATCATTATATTTTCCA
1 CTAGCACTGGGTGCAAATTTCGTCAATTTATCTGACTAATGCTGGACACATCACTATATTGTCCA
****
83508351 GTTTATTTGA
66 GTTTACCCAA
* * * *
83508361 CTAGCGCTAGGTGCAAATCTTCGTCAATTTATCTGACTAATGCTGTACACACTTACTATATCTGT
1 CTAGCACTGGGTGCAAAT-TTCGTCAATTTATCTGACTAATGCTGGACACA-TCACTATAT-TGT
83508426 -CAGTTTACCCAA
63 CCAGTTTACCCAA
83508438 CTAGCACTGGGTGCAAA
1 CTAGCACTGGGTGCAAA
83508455 ACTTATTTAC
Statistics
Matches: 74, Mismatches: 17, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
75 14 0.19
76 28 0.38
77 30 0.41
78 2 0.03
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.35
Consensus pattern (75 bp):
CTAGCACTGGGTGCAAATTTCGTCAATTTATCTGACTAATGCTGGACACATCACTATATTGTCCA
GTTTACCCAA
Found at i:83513533 original size:21 final size:22
Alignment explanation
Indices: 83513492--83513533 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
83513482 GTCAAGAAGG
83513492 CCACACGGGCATGTCGCCCCTT
1 CCACACGGGCATGTCGCCCCTT
83513514 CCACACGGGCATGT-GCCCCT
1 CCACACGGGCATGTCGCCCCT
83513534 GTTTCAAGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.14, C:0.45, G:0.24, T:0.17
Consensus pattern (22 bp):
CCACACGGGCATGTCGCCCCTT
Found at i:83514626 original size:28 final size:29
Alignment explanation
Indices: 83514585--83514730 Score: 167
Period size: 28 Copynumber: 5.2 Consensus size: 29
83514575 TAAACATGTC
* ** *
83514585 ATGAAAA-AGAAAGCCTTTGTGGTGATAT
1 ATGAAAAGAGGAAGCCTTTGTGGCAATCT
*
83514613 ATGAAAAGA-GAAGCTTTTGTGGCAATCT
1 ATGAAAAGAGGAAGCCTTTGTGGCAATCT
* *
83514641 A-GAAAAAAGGAAACCTTTGTGGCAATCT
1 ATGAAAAGAGGAAGCCTTTGTGGCAATCT
**
83514669 ATGAAAA-AGGAAGCCTTTGTCACAATCT
1 ATGAAAAGAGGAAGCCTTTGTGGCAATCT
*
83514697 ATGAAAAG-GGAAGTCTTTGTGGCAATCT
1 ATGAAAAGAGGAAGCCTTTGTGGCAATCT
83514725 ATGAAA
1 ATGAAA
83514731 TGGAAGCCTG
Statistics
Matches: 100, Mismatches: 14, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
27 6 0.06
28 88 0.88
29 6 0.06
ACGTcount: A:0.39, C:0.12, G:0.23, T:0.26
Consensus pattern (29 bp):
ATGAAAAGAGGAAGCCTTTGTGGCAATCT
Found at i:83518619 original size:33 final size:28
Alignment explanation
Indices: 83518551--83518609 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
83518541 TTATTATTAA
83518551 TGTTAAATTTTATTACTAAAATAAAAAT
1 TGTTAAATTTTATTACTAAAATAAAAAT
83518579 TGTTAAATTTTATTACTAAAATAAAAAT
1 TGTTAAATTTTATTACTAAAATAAAAAT
83518607 TGT
1 TGT
83518610 CATATTAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.44
Consensus pattern (28 bp):
TGTTAAATTTTATTACTAAAATAAAAAT
Found at i:83521105 original size:19 final size:19
Alignment explanation
Indices: 83521077--83521118 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
83521067 GATGTCGGCA
*
83521077 TAGTGTATGCAATTTCTGG
1 TAGTGAATGCAATTTCTGG
83521096 TAGTGAATGCAATTTCTGG
1 TAGTGAATGCAATTTCTGG
83521115 TAGT
1 TAGT
83521119 TCAACATAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.24, C:0.10, G:0.26, T:0.40
Consensus pattern (19 bp):
TAGTGAATGCAATTTCTGG
Found at i:83521875 original size:16 final size:16
Alignment explanation
Indices: 83521854--83521884 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
83521844 TTTATTATTC
*
83521854 TGTCTTTTGTATTTTA
1 TGTCTTTTATATTTTA
83521870 TGTCTTTTATATTTT
1 TGTCTTTTATATTTT
83521885 GATTGTGACA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.13, C:0.06, G:0.10, T:0.71
Consensus pattern (16 bp):
TGTCTTTTATATTTTA
Found at i:83522585 original size:13 final size:13
Alignment explanation
Indices: 83522567--83522592 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
83522557 CATGCAAATT
83522567 AAAGAAAGAAAAG
1 AAAGAAAGAAAAG
83522580 AAAGAAAGAAAAG
1 AAAGAAAGAAAAG
83522593 GAGAAGAAGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (13 bp):
AAAGAAAGAAAAG
Found at i:83526984 original size:27 final size:27
Alignment explanation
Indices: 83526953--83527130 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
83526943 TAAATTGTAC
83526953 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
83526980 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
83527006 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
83527034 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
83527062 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
83527089 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
83527116 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
83527131 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:83527067 original size:82 final size:81
Alignment explanation
Indices: 83526954--83527109 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
83526944 AAATTGTACA
* *
83526954 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
83527018 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
83527035 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
83527100 TGCGAGTTGA
65 TGCGAATTGA
83527110 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:83527121 original size:82 final size:81
Alignment explanation
Indices: 83526950--83527130 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
83526940 GATTAAATTG
* *
83526950 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
83527015 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
83527031 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
83527095 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
83527113 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
83527131 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:83535175 original size:27 final size:27
Alignment explanation
Indices: 83535144--83535321 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
83535134 TAAATTGTAC
83535144 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
83535171 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
83535197 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
83535225 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
83535253 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
83535280 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
83535307 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
83535322 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:83535258 original size:82 final size:81
Alignment explanation
Indices: 83535145--83535300 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
83535135 AAATTGTACA
* *
83535145 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
83535209 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
83535226 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
83535291 TGCGAGTTGA
65 TGCGAATTGA
83535301 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:83535312 original size:82 final size:81
Alignment explanation
Indices: 83535141--83535321 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
83535131 GATTAAATTG
* *
83535141 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
83535206 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
83535222 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
83535286 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
83535304 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
83535322 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:83539099 original size:22 final size:22
Alignment explanation
Indices: 83539071--83539144 Score: 62
Period size: 22 Copynumber: 3.2 Consensus size: 22
83539061 ATATATATGC
83539071 GTGATAAGGCCGAATGGCCAAT
1 GTGATAAGGCCGAATGGCCAAT
* * *
83539093 GTGATAAAGG-TGAACATGTG-TATGT
1 GTGAT-AAGGCCG-A-ATG-GCCA-AT
83539118 GTGATAAGGCCGAATGGCCAAT
1 GTGATAAGGCCGAATGGCCAAT
83539140 GTGAT
1 GTGAT
83539145 GAATGTGAAC
Statistics
Matches: 39, Mismatches: 6, Indels: 14
0.66 0.10 0.24
Matches are distributed among these distances:
22 13 0.33
23 9 0.23
24 9 0.23
25 8 0.21
ACGTcount: A:0.31, C:0.12, G:0.32, T:0.24
Consensus pattern (22 bp):
GTGATAAGGCCGAATGGCCAAT
Found at i:83539407 original size:47 final size:47
Alignment explanation
Indices: 83539015--83539378 Score: 525
Period size: 47 Copynumber: 7.7 Consensus size: 47
83539005 TGTACAAGTA
* * *
83539015 TATATATGTGATAGGGCCGAGTGGCCAATGTGATGAATGTGAA-AGTA
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TG
* *
83539062 TATATATGCGTGATAAGGCCGAATGGCCAATGTGATAAAGGTGAACATG
1 TATATAT--GTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG
* *
83539111 TGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG
* *
83539158 TGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG
* * *
83539205 TGTATGTGTGATAAGGCCGAATGGCCAGTGTGATGAATGTGAACATG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG
* * *
83539252 TGTATGTGTGATAAGGCCGAATGGCCAGTGTGATGAATGTGAACATG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG
* *
83539299 CATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-AGTG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TG
83539346 TATATATGTGATAAGGCCGAATGGCCAATGTGA
1 TATATATGTGATAAGGCCGAATGGCCAATGTGA
83539379 CGGATATGGA
Statistics
Matches: 296, Mismatches: 17, Indels: 8
0.92 0.05 0.02
Matches are distributed among these distances:
46 1 0.00
47 256 0.86
49 38 0.13
50 1 0.00
ACGTcount: A:0.31, C:0.11, G:0.31, T:0.27
Consensus pattern (47 bp):
TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG
Found at i:83541902 original size:38 final size:38
Alignment explanation
Indices: 83541838--83541912 Score: 107
Period size: 38 Copynumber: 2.0 Consensus size: 38
83541828 AATCCGAGTT
*
83541838 TAAAGACCCGCTGACTATATGAAGAGATTATGTCCGGG
1 TAAAGACCCGATGACTATATGAAGAGATTATGTCCGGG
* *
83541876 TAAAGACCCGATGGCTATGT-ACAGAGATTATGTCCGG
1 TAAAGACCCGATGACTATATGA-AGAGATTATGTCCGG
83541913 ATTAAAATTT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 1 0.03
38 32 0.97
ACGTcount: A:0.31, C:0.19, G:0.27, T:0.24
Consensus pattern (38 bp):
TAAAGACCCGATGACTATATGAAGAGATTATGTCCGGG
Found at i:83545632 original size:30 final size:31
Alignment explanation
Indices: 83545595--83545670 Score: 93
Period size: 30 Copynumber: 2.5 Consensus size: 31
83545585 TTTAAAATGC
* *
83545595 AACAAGTACTTTGTACC-GATGTTTA-ATTGT
1 AACAAGTACTATGTACCAG-TGTTTATATTAT
* *
83545625 ATCAAGTACTATGTATCAGTGTTTATATTAT
1 AACAAGTACTATGTACCAGTGTTTATATTAT
83545656 AACAAGTACTATGTA
1 AACAAGTACTATGTA
83545671 TTGGTGTTCG
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
30 20 0.51
31 19 0.49
ACGTcount: A:0.34, C:0.12, G:0.14, T:0.39
Consensus pattern (31 bp):
AACAAGTACTATGTACCAGTGTTTATATTAT
Found at i:83545678 original size:31 final size:30
Alignment explanation
Indices: 83545595--83545678 Score: 96
Period size: 31 Copynumber: 2.8 Consensus size: 30
83545585 TTTAAAATGC
* * * *
83545595 AACAAGTACTTTGTACCGATGTTTAATTGT
1 AACAAGTACTATGTATCGGTGTTTAATTAT
* *
83545625 ATCAAGTACTATGTATCAGTGTTTATATTAT
1 AACAAGTACTATGTATCGGTGTTTA-ATTAT
*
83545656 AACAAGTACTATGTATTGGTGTT
1 AACAAGTACTATGTATCGGTGTT
83545679 CGATATCTTA
Statistics
Matches: 44, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
30 20 0.45
31 24 0.55
ACGTcount: A:0.31, C:0.11, G:0.17, T:0.42
Consensus pattern (30 bp):
AACAAGTACTATGTATCGGTGTTTAATTAT
Found at i:83547220 original size:20 final size:20
Alignment explanation
Indices: 83547182--83547229 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
83547172 TCAATTCTAA
* **
83547182 AAAGATAAATACATTTAATT
1 AAAGATAAATAAAGATAATT
83547202 AAAGATAAATAAAGATAATT
1 AAAGATAAATAAAGATAATT
83547222 AAA-ATAAA
1 AAAGATAAA
83547230 ATCCTAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (20 bp):
AAAGATAAATAAAGATAATT
Found at i:83547254 original size:27 final size:27
Alignment explanation
Indices: 83547224--83547281 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
83547214 AGATAATTAA
83547224 AATAA-AATCCTAAAATTAAATAATCCT
1 AATAATAATCCTAAAATT-AATAATCCT
* * * *
83547251 AATAATTATCTTAATATTAATTATCCT
1 AATAATAATCCTAAAATTAATAATCCT
83547278 AATA
1 AATA
83547282 TAAGTAAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
27 17 0.65
28 9 0.35
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (27 bp):
AATAATAATCCTAAAATTAATAATCCT
Found at i:83547273 original size:15 final size:15
Alignment explanation
Indices: 83547253--83547282 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
83547243 ATAATCCTAA
*
83547253 TAATTATCTTAATAT
1 TAATTATCCTAATAT
83547268 TAATTATCCTAATAT
1 TAATTATCCTAATAT
83547283 AAGTAAAATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (15 bp):
TAATTATCCTAATAT
Found at i:83550646 original size:5 final size:5
Alignment explanation
Indices: 83550632--83550732 Score: 82
Period size: 5 Copynumber: 19.6 Consensus size: 5
83550622 GAATTTTATT
* * * * *
83550632 AATAT AATAA AAT-A ATTAAA AATAA AACAA ATTGA AATAA AATAA AATAAGA
1 AATAA AATAA AATAA AAT-AA AATAA AATAA AATAA AATAA AATAA AAT-A-A
83550684 AATAA AAT-- AATAA AATAA TAATAA AATAA TAATAA AATAGA AATAA
1 AATAA AATAA AATAA AATAA -AATAA AATAA -AATAA AATA-A AATAA
83550730 AAT
1 AAT
83550733 TTAAAATTAA
Statistics
Matches: 78, Mismatches: 9, Indels: 18
0.74 0.09 0.17
Matches are distributed among these distances:
3 3 0.04
4 3 0.04
5 48 0.62
6 20 0.26
7 4 0.05
ACGTcount: A:0.72, C:0.01, G:0.03, T:0.24
Consensus pattern (5 bp):
AATAA
Found at i:83550705 original size:11 final size:11
Alignment explanation
Indices: 83550635--83550732 Score: 80
Period size: 11 Copynumber: 8.9 Consensus size: 11
83550625 TTTTATTAAT
83550635 ATAATAAAATA
1 ATAATAAAATA
*
83550646 ATTA-AAAATA
1 ATAATAAAATA
* * *
83550656 A-AACAAATTG
1 ATAATAAAATA
83550666 A-AATAAAATA
1 ATAATAAAATA
83550676 A-AATAAGAAATAAA
1 ATAAT-A-AAAT--A
83550690 ATAATAAAATA
1 ATAATAAAATA
83550701 ATAATAAAATA
1 ATAATAAAATA
83550712 ATAATAAAATA
1 ATAATAAAATA
83550723 GA-AATAAAAT
1 -ATAATAAAAT
83550733 TTAAAATTAA
Statistics
Matches: 73, Mismatches: 7, Indels: 14
0.78 0.07 0.15
Matches are distributed among these distances:
9 1 0.01
10 22 0.30
11 35 0.48
12 5 0.07
13 4 0.05
14 3 0.04
15 3 0.04
ACGTcount: A:0.72, C:0.01, G:0.03, T:0.23
Consensus pattern (11 bp):
ATAATAAAATA
Found at i:83550718 original size:47 final size:48
Alignment explanation
Indices: 83550637--83550729 Score: 120
Period size: 47 Copynumber: 2.0 Consensus size: 48
83550627 TTATTAATAT
* *
83550637 AATAAAATAATTAAAAATAAAACAAATTGAAATAAAATA-AAATAAGA
1 AATAAAATAATTAAAAATAAAACAAAATAAAATAAAATAGAAATAAGA
*
83550684 AATAAAATAA-T-AAAATAATAATAAAATAATAATAAAATAGAAATAA
1 AATAAAATAATTAAAAATAA-AACAAAATAA-AATAAAATAGAAATAA
83550730 AATTTAAAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
45 7 0.17
46 8 0.20
47 19 0.47
48 6 0.15
ACGTcount: A:0.73, C:0.01, G:0.03, T:0.23
Consensus pattern (48 bp):
AATAAAATAATTAAAAATAAAACAAAATAAAATAAAATAGAAATAAGA
Found at i:83565581 original size:29 final size:29
Alignment explanation
Indices: 83565518--83565585 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
83565508 TAATCAACCG
83565518 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
83565547 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
83565576 CGCACACTTA
1 CGCACACTTA
83565586 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:83565755 original size:29 final size:29
Alignment explanation
Indices: 83565692--83565759 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
83565682 TACTCAACCG
83565692 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
83565721 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
83565750 CGCACACTTA
1 CGCACACTTA
83565760 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:83565900 original size:29 final size:30
Alignment explanation
Indices: 83565861--83565939 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
83565851 CTTAATAATC
83565861 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
83565891 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
83565920 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
83565940 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:83565933 original size:174 final size:174
Alignment explanation
Indices: 83565407--83565908 Score: 950
Period size: 174 Copynumber: 2.9 Consensus size: 174
83565397 AACTCAAGGT
* *
83565407 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
83565472 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
83565537 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
*
83565581 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTGTA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
83565646 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATACTCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
83565711 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
83565755 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
83565820 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
*
83565885 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
83565909 TGTACAATTT
Statistics
Matches: 320, Mismatches: 8, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
174 320 1.00
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:83568915 original size:80 final size:79
Alignment explanation
Indices: 83568831--83569002 Score: 220
Period size: 79 Copynumber: 2.2 Consensus size: 79
83568821 GGACTAAGAT
*
83568831 CCGAAGGCATTTGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACT
1 CCGAAGGCATTTGTGCGAGATATCAAA-TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACT
* *
83568895 AAATCCGGGTTAAGTC
64 AAAACCGGGCTAAGTC
* * * * * * *
83568911 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
83568976 AACCGGGCTATGTC
66 AACCGGGCTAAGTC
83568990 CCGAAGGCATTTG
1 CCGAAGGCATTTG
83569003 AACGAGGAGC
Statistics
Matches: 79, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
79 38 0.48
80 38 0.48
81 3 0.04
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
AACCGGGCTAAGTC
Found at i:83568982 original size:39 final size:39
Alignment explanation
Indices: 83568778--83569000 Score: 209
Period size: 40 Copynumber: 5.6 Consensus size: 39
83568768 TTGAATGCTG
* * * * *
83568778 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTA-AGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGA-T-ACTAAA
**
83568818 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGATACTAAA
* *
83568857 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 -TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGATACTAAA
* *
83568898 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGATACTAAA
* * *
83568938 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
* * *
83568977 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
83569001 TGAACGAGGA
Statistics
Matches: 157, Mismatches: 18, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
39 40 0.25
40 103 0.66
41 13 0.08
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:83569020 original size:79 final size:80
Alignment explanation
Indices: 83568858--83569025 Score: 180
Period size: 79 Copynumber: 2.1 Consensus size: 80
83568848 AGATACAAAT
* * *
83568858 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGCCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
83568923 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * * * *
83568938 TCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGCCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
83569002 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
83569017 TCC-GGTTAA
1 TCCGGGTTAA
83569026 ATTCCGAAGG
Statistics
Matches: 72, Mismatches: 15, Indels: 4
0.79 0.16 0.04
Matches are distributed among these distances:
78 6 0.08
79 48 0.67
80 18 0.25
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
TCCGGGTTAAGCCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:83583509 original size:28 final size:27
Alignment explanation
Indices: 83583452--83583603 Score: 232
Period size: 27 Copynumber: 5.6 Consensus size: 27
83583442 TAAATTGTGC
*
83583452 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
83583479 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
83583507 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
83583534 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
* * *
83583562 AGCACAAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
83583589 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
83583604 GACTTAATAT
Statistics
Matches: 117, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
27 65 0.56
28 52 0.44
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:83583516 original size:55 final size:55
Alignment explanation
Indices: 83583452--83583603 Score: 250
Period size: 55 Copynumber: 2.8 Consensus size: 55
83583442 TAAATTGTGC
*
83583452 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
*
83583507 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
* * * *
83583562 AGCACAAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCG
83583604 GACTTAATAT
Statistics
Matches: 91, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
55 91 1.00
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.30
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:83587253 original size:15 final size:14
Alignment explanation
Indices: 83587205--83587259 Score: 60
Period size: 15 Copynumber: 3.9 Consensus size: 14
83587195 ATGTTGTGTA
83587205 TATATTATTATTAC
1 TATATTATTATTAC
*
83587219 TA-ATTATTATTGC
1 TATATTATTATTAC
*
83587232 TAGTATTATTATAAC
1 TA-TATTATTATTAC
83587247 TATTATTA-TATTA
1 TA-TATTATTATTA
83587260 GTGTATATTT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
13 12 0.35
14 6 0.18
15 16 0.47
ACGTcount: A:0.36, C:0.05, G:0.04, T:0.55
Consensus pattern (14 bp):
TATATTATTATTAC
Found at i:83589098 original size:12 final size:12
Alignment explanation
Indices: 83589078--83589113 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
83589068 ATTCATTTGA
*
83589078 CATTTATGCATT
1 CATTCATGCATT
83589090 CATTCATGCATT
1 CATTCATGCATT
*
83589102 CATTCATTCATT
1 CATTCATGCATT
83589114 GCATATCTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.25, C:0.22, G:0.06, T:0.47
Consensus pattern (12 bp):
CATTCATGCATT
Found at i:83597500 original size:72 final size:72
Alignment explanation
Indices: 83597384--83598233 Score: 1051
Period size: 72 Copynumber: 11.5 Consensus size: 72
83597374 CCGTTTTCAA
**
83597384 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTC
83597449 TGTTTTC
66 TGTTTTC
* * *
83597456 AAAATTTAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTC
83597521 TGTTTTTC
66 TG-TTTTC
** *
83597529 AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAAT
1 ---AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAAT
83597594 TTCTGTTTTC
63 TTCTGTTTTC
* * * ** *
83597604 AAAATTCAACCCATATTACGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTC
83597669 TGTTTTC
66 TGTTTTC
** * * *
83597676 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGAGGTATTTTCAAT
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG---ACACGCTGAGGTAATTTCAAT
83597740 TTCTGTCTTTC
63 TTCTGT-TTTC
*
83597751 AAAAAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAA
1 ---AAAAA-TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAA
*
83597816 TTTCTATCTTTC
62 TTTCTGT-TTTC
*
83597828 AAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATT
1 --AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATT
83597893 TCTGTTTTC
64 TCTGTTTTC
* * *
83597902 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTC
*
83597967 TATCTTTC
66 TGT-TTTC
** * * *
83597975 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCATCAGGACACGCTGAGGTAATTTCGATT
1 --AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATT
**
83598040 TCTGTTGTAAA
64 TCTGTT-T-TC
** **
83598051 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTC
83598116 TGTTTTC
66 TGTTTTC
* * * *
83598123 -AAATTCAACT-ATATTGCGAGAAATGAGTTGAGCCTCAAGACATG-TTATGGTATTTTCAATTT
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGA-GGTAATTTCAATTT
*
83598185 CTGCCTTTC
65 CTG-TTTTC
**
83598194 AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
1 ---AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCT
83598234 TGGGTCATAC
Statistics
Matches: 685, Mismatches: 68, Indels: 46
0.86 0.09 0.06
Matches are distributed among these distances:
69 2 0.00
70 45 0.07
71 14 0.02
72 223 0.33
73 10 0.01
74 95 0.14
75 140 0.20
76 91 0.13
77 28 0.04
78 5 0.01
79 31 0.05
80 1 0.00
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.32
Consensus pattern (72 bp):
AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTC
TGTTTTC
Found at i:83597950 original size:147 final size:146
Alignment explanation
Indices: 83597376--83598233 Score: 1147
Period size: 147 Copynumber: 5.8 Consensus size: 146
83597366 TGTTACTTCC
*
83597376 GTTTTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCGGGACACGCTGAGGTAATT
1 GTTTTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATT
*
83597441 TCAATTTCTGTTTTCAAAATTTAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGA
66 TCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGA
83597506 GGTAATTTCAATTTCT
131 GGTAATTTCAATTTCT
**
83597522 GTTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAA
1 G-TTTTC-AAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAA
* * *
83597587 TTTCAATTTCTGTTTTCAAAATTCAACCCATATTACGAGAAATGAGTTGAGCCTCAAGACACATT
64 TTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTT
*
83597652 GAGGTATTTTCAATTTCT
129 GAGGTAATTTCAATTTCT
** *
83597670 GTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGAGGTA
1 GTTTTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGG---ACACGCTGAGGTA
*
83597732 TTTTCAATTTCTGTCTTTCAAAAAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGA
63 ATTTCAATTTCTGT-TTTC----AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGA
83597797 CACGTTGAGGTAATTTCAATTTCT
123 CACGTTGAGGTAATTTCAATTTCT
* * *
83597821 ATCTTTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAAT
1 GT-TTTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAAT
83597886 TTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTG
65 TTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTG
*
83597951 AGGTATTTTCAATTTCT
130 AGGTAATTTCAATTTCT
* ** *
83597968 ATCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCATCAGGACACGCTGAGGTAAT
1 GT-TTTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAAT
* ** * ** ** *
83598033 TTCGATTTCTGTTGTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGC
65 TTCAATTTCTGTT-T-TCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGT
83598098 TGAGGTAATTTCAATTTCT
128 TGAGGTAATTTCAATTTCT
* * * * *
83598117 GTTTTC---AAATTCAACT-ATATTGCGAGAAATGAGTTGAGCCTCAAGACATG-TTATGGTATT
1 GTTTTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGA-GGTAAT
* * **
83598177 TTCAATTTCTGCCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
65 TTCAATTTCTG-TTTTC---AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCT
83598234 TGGGTCATAC
Statistics
Matches: 641, Mismatches: 50, Indels: 42
0.87 0.07 0.06
Matches are distributed among these distances:
143 4 0.01
144 83 0.13
145 10 0.02
146 63 0.10
147 151 0.24
148 138 0.22
149 60 0.09
151 67 0.10
152 28 0.04
154 36 0.06
155 1 0.00
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.32
Consensus pattern (146 bp):
GTTTTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATT
TCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGA
GGTAATTTCAATTTCT
Found at i:83599711 original size:23 final size:23
Alignment explanation
Indices: 83599683--83599743 Score: 86
Period size: 23 Copynumber: 2.7 Consensus size: 23
83599673 TGGTCGGCGG
*
83599683 CGGCGGCGGCGGCTAGCGGTGGT
1 CGGCGGCGGCGGCCAGCGGTGGT
* *
83599706 CGGCGGCGACGGCCAGTGGTGGT
1 CGGCGGCGGCGGCCAGCGGTGGT
*
83599729 CGGCGACGGCGGCCA
1 CGGCGGCGGCGGCCA
83599744 TCGAAGGTCC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.08, C:0.30, G:0.52, T:0.10
Consensus pattern (23 bp):
CGGCGGCGGCGGCCAGCGGTGGT
Found at i:83600367 original size:18 final size:16
Alignment explanation
Indices: 83600337--83600370 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 16
83600327 CTAATACGTA
83600337 TTTATATTATATGTAT
1 TTTATATTATATGTAT
83600353 TTTATATATATTATGTAT
1 TTTATAT-TA-TATGTAT
83600371 ATATTTTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 2 0.12
18 7 0.44
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (16 bp):
TTTATATTATATGTAT
Found at i:83610792 original size:13 final size:13
Alignment explanation
Indices: 83610760--83610793 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
83610750 ACCCTGATTC
83610760 TATAAAAAACTTA
1 TATAAAAAACTTA
*
83610773 TAAAAAAAACTTA
1 TATAAAAAACTTA
*
83610786 TTTAAAAA
1 TATAAAAA
83610794 GAAGAAAATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (13 bp):
TATAAAAAACTTA
Found at i:83611203 original size:20 final size:20
Alignment explanation
Indices: 83611158--83611206 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
83611148 AATTCAAAAA
* *
83611158 CGATTTAAACATTTTTAACT
1 CGATTGAAACATTTTTAAAT
83611178 -GTATTGAAACATTTTTAAAT
1 CG-ATTGAAACATTTTTAAAT
83611198 CGATTGAAA
1 CGATTGAAA
83611207 AATTGTAACA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
19 1 0.04
20 23 0.92
21 1 0.04
ACGTcount: A:0.39, C:0.10, G:0.10, T:0.41
Consensus pattern (20 bp):
CGATTGAAACATTTTTAAAT
Found at i:83613883 original size:16 final size:16
Alignment explanation
Indices: 83613862--83613915 Score: 81
Period size: 16 Copynumber: 3.4 Consensus size: 16
83613852 TTTGGTTCAC
83613862 TGTAATAGAATAGAGT
1 TGTAATAGAATAGAGT
*
83613878 TGTAATTGAATAGAGT
1 TGTAATAGAATAGAGT
* *
83613894 TGTATTGGAATAGAGT
1 TGTAATAGAATAGAGT
83613910 TGTAAT
1 TGTAAT
83613916 CAGTAATTCA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.37, C:0.00, G:0.26, T:0.37
Consensus pattern (16 bp):
TGTAATAGAATAGAGT
Found at i:83614116 original size:26 final size:25
Alignment explanation
Indices: 83614069--83614120 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 25
83614059 ATGATTACTG
*
83614069 TTATTGTTATTAAATTTTAATAAAA
1 TTATTGTTAATAAATTTTAATAAAA
*
83614094 TTATTGTTAAATATATTTTAATAAAA
1 TTATTGTT-AATAAATTTTAATAAAA
83614120 T
1 T
83614121 AATAATAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 8 0.33
26 16 0.67
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (25 bp):
TTATTGTTAATAAATTTTAATAAAA
Found at i:83614261 original size:23 final size:21
Alignment explanation
Indices: 83614230--83614272 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
83614220 TTAAATATGA
83614230 ATTAAAAAATCATAATATATAAT
1 ATTAAAAAA--ATAATATATAAT
*
83614253 ATTATAAAAATAATATATAA
1 ATTAAAAAAATAATATATAA
83614273 CCTACTTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 11 0.58
23 8 0.42
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (21 bp):
ATTAAAAAAATAATATATAAT
Found at i:83619562 original size:55 final size:54
Alignment explanation
Indices: 83619501--83619680 Score: 279
Period size: 55 Copynumber: 3.3 Consensus size: 54
83619491 ATATTAAGTC
* * *
83619501 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCA-ACT
*
83619556 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATC-AACT
* *
83619611 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATATTCAATT
1 CGCACACTTAGTGCTACATAGTC-AACTCGCACACTTAGTGCTACATAATCAACT
83619666 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
83619681 GCACAATTTA
Statistics
Matches: 117, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
55 90 0.77
56 27 0.23
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAACT
Found at i:83619565 original size:28 final size:27
Alignment explanation
Indices: 83619501--83619680 Score: 279
Period size: 28 Copynumber: 6.6 Consensus size: 27
83619491 ATATTAAGTC
* * *
83619501 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
*
83619528 CGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAGTCA-ACT
83619556 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
83619583 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
83619611 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
* *
83619639 CGCACACTTAGTGCTACATATTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
83619666 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
83619681 GCACAATTTA
Statistics
Matches: 146, Mismatches: 5, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
27 66 0.45
28 80 0.55
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:83619621 original size:83 final size:82
Alignment explanation
Indices: 83619501--83619680 Score: 288
Period size: 83 Copynumber: 2.2 Consensus size: 82
83619491 ATATTAAGTC
* * *
83619501 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCATACTCGCACACTTA
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
83619566 GTGCTACATAGTCAACT
66 GTGCTACATAGTCAACT
* *
83619583 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATAGTCAAACTCGCACACTT
1 CGCACACTTAGTGCTACATAATC-AACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTT
* *
83619648 AGTGCTACATATTCAATT
65 AGTGCTACATAGTCAACT
83619666 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
83619681 GCACAATTTA
Statistics
Matches: 90, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
82 20 0.22
83 70 0.78
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (82 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
GTGCTACATAGTCAACT
Found at i:83627764 original size:28 final size:27
Alignment explanation
Indices: 83627703--83627879 Score: 264
Period size: 28 Copynumber: 6.4 Consensus size: 27
83627693 TTAAGTTCGT
* * *
83627703 ACACTCAGTGCTATATAATCAACTCGC
1 ACACTTAGTGCTACATAGTCAACTCGC
*
83627730 ACACTTAGTGCTACATAATCATACTCGC
1 ACACTTAGTGCTACATAGTCA-ACTCGC
83627758 ACACTTAGTGCTACATAGTCAACTCGC
1 ACACTTAGTGCTACATAGTCAACTCGC
83627785 ACACTTAGTGCTACATAGTCAAACTCGC
1 ACACTTAGTGCTACATAGTC-AACTCGC
*
83627813 ACTCTTAGTGCTACATAGTCAAACTCGC
1 ACACTTAGTGCTACATAGTC-AACTCGC
* *
83627841 ACACTTAGTGCTACATATTCAATTCGC
1 ACACTTAGTGCTACATAGTCAACTCGC
83627868 ACACTTAGTGCT
1 ACACTTAGTGCT
83627880 GCACAATTTA
Statistics
Matches: 141, Mismatches: 7, Indels: 4
0.93 0.05 0.03
Matches are distributed among these distances:
27 63 0.45
28 78 0.55
ACGTcount: A:0.31, C:0.28, G:0.13, T:0.28
Consensus pattern (27 bp):
ACACTTAGTGCTACATAGTCAACTCGC
Found at i:83627780 original size:55 final size:54
Alignment explanation
Indices: 83627703--83627879 Score: 264
Period size: 55 Copynumber: 3.2 Consensus size: 54
83627693 TTAAGTTCGT
* * *
83627703 ACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCATACTCGC
1 ACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCA-ACTCGC
*
83627758 ACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACTCGC
1 ACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATC-AACTCGC
* * *
83627813 ACTCTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATATTCAATTCGC
1 ACACTTAGTGCTACATAGTC-AACTCGCACACTTAGTGCTACATAATCAACTCGC
83627868 ACACTTAGTGCT
1 ACACTTAGTGCT
83627880 GCACAATTTA
Statistics
Matches: 112, Mismatches: 8, Indels: 4
0.90 0.06 0.03
Matches are distributed among these distances:
55 85 0.76
56 27 0.24
ACGTcount: A:0.31, C:0.28, G:0.13, T:0.28
Consensus pattern (54 bp):
ACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAACTCGC
Found at i:83627820 original size:83 final size:82
Alignment explanation
Indices: 83627703--83627879 Score: 273
Period size: 83 Copynumber: 2.1 Consensus size: 82
83627693 TTAAGTTCGT
* * *
83627703 ACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCATACTCGCACACTTAGTG
1 ACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTG
83627768 CTACATAGTCAACTCGC
66 CTACATAGTCAACTCGC
* * *
83627785 ACACTTAGTGCTACATAGTCAAACTCGCACTCTTAGTGCTACATAGTCAAACTCGCACACTTAGT
1 ACACTTAGTGCTACATAATC-AACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGT
* *
83627850 GCTACATATTCAATTCGC
65 GCTACATAGTCAACTCGC
83627868 ACACTTAGTGCT
1 ACACTTAGTGCT
83627880 GCACAATTTA
Statistics
Matches: 86, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
82 17 0.20
83 69 0.80
ACGTcount: A:0.31, C:0.28, G:0.13, T:0.28
Consensus pattern (82 bp):
ACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTG
CTACATAGTCAACTCGC
Found at i:83635060 original size:16 final size:16
Alignment explanation
Indices: 83635041--83635071 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
83635031 CTTCTTCACT
83635041 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
83635057 TACTTACTTACTTAA
1 TACTCACTTACTTAA
83635072 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:83635077 original size:20 final size:20
Alignment explanation
Indices: 83635038--83635077 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
83635028 AAACTTCTTC
* *
83635038 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
83635058 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
83635078 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:83635395 original size:53 final size:53
Alignment explanation
Indices: 83635263--83635513 Score: 217
Period size: 55 Copynumber: 4.7 Consensus size: 53
83635253 ACACGGGTAC
* ** * * *
83635263 CTTACCATTGCCATGAATTGTCATGGTCTTACATGGTA---T-CATTTTGAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTACCTTGCCTTATGAAA
* *
83635312 CTTACCATTGCCATGTCTTGACATGGTCTTACATGGTAGCCTTGCCTTATG-AA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTA-CCTTGCCTTATGAAA
* * * * *
83635365 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTAATAGTAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTACC-TTGCCTTAT-GAAA
* * * * *
83635420 CTTATCAATTCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTA-GAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATG-GTACCTTGCCTTATGAAA
* * *
83635473 CCTTACCAATTTCCATGCCTTGGCATGGTCTTACACGGTAC
1 -CTTACCAA-TGCCATGCCTTGACATGGTCTTACATGGTAC
83635514 TCTTAAACCC
Statistics
Matches: 164, Mismatches: 27, Indels: 17
0.79 0.13 0.08
Matches are distributed among these distances:
49 35 0.21
52 2 0.01
53 47 0.29
54 15 0.09
55 63 0.38
56 2 0.01
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (53 bp):
CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTACCTTGCCTTATGAAA
Found at i:83635453 original size:55 final size:53
Alignment explanation
Indices: 83635310--83635454 Score: 175
Period size: 53 Copynumber: 2.7 Consensus size: 53
83635300 ATCATTTTGA
* * * *
83635310 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTAGCCTTGCCTTATG
1 AACTCACCAATGCCATGTCTTGACATGGTCTTACATGGGAGCCTTGCCTAATG
* *
83635363 AACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTAATAG
1 AACTCACCAATGCCATGTCTTGACATGGTCTTACATGGGAGCC-TTGCCTAAT-G
* * *
83635417 TAACTTATCAATTCCATGTCTTGACATGGTCTTACATG
1 -AACTCACCAATGCCATGTCTTGACATGGTCTTACATG
83635455 ATTTCCTTGC
Statistics
Matches: 78, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
52 2 0.03
53 43 0.55
54 1 0.01
55 32 0.41
ACGTcount: A:0.23, C:0.25, G:0.18, T:0.34
Consensus pattern (53 bp):
AACTCACCAATGCCATGTCTTGACATGGTCTTACATGGGAGCCTTGCCTAATG
Found at i:83637863 original size:28 final size:28
Alignment explanation
Indices: 83637821--83637876 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
83637811 GGATAATGAT
*
83637821 GATCTCAAGTTTGAGGATCATATACATA
1 GATCTCAAGTCTGAGGATCATATACATA
83637849 GATCTCAAGTCTGAGGATCATATACATA
1 GATCTCAAGTCTGAGGATCATATACATA
83637877 TTAATCACTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.30
Consensus pattern (28 bp):
GATCTCAAGTCTGAGGATCATATACATA
Found at i:83639239 original size:18 final size:19
Alignment explanation
Indices: 83639209--83639260 Score: 63
Period size: 18 Copynumber: 2.7 Consensus size: 19
83639199 TCTAATTTCT
83639209 TTTTATGTTTATTATTATT-
1 TTTTAT-TTTATTATTATTA
*
83639228 TATTTA-TTTATTAATATTA
1 T-TTTATTTTATTATTATTA
83639247 TTTTATTTTATTAT
1 TTTTATTTTATTAT
83639261 GCTTACTGCC
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
18 15 0.54
19 9 0.32
20 4 0.14
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (19 bp):
TTTTATTTTATTATTATTA
Found at i:83640852 original size:18 final size:18
Alignment explanation
Indices: 83640821--83640878 Score: 71
Period size: 18 Copynumber: 3.2 Consensus size: 18
83640811 AGCCCATTTG
* *
83640821 TTTTTATGTCTATTTTTC
1 TTTTTATATTTATTTTTC
*
83640839 TTTTTCTATTTATTTTTC
1 TTTTTATATTTATTTTTC
*
83640857 TTTTTATGTTTATTTTGTC
1 TTTTTATATTTATTTT-TC
83640876 TTT
1 TTT
83640879 ATACTTTGAA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
18 29 0.85
19 5 0.15
ACGTcount: A:0.10, C:0.09, G:0.05, T:0.76
Consensus pattern (18 bp):
TTTTTATATTTATTTTTC
Found at i:83646630 original size:99 final size:100
Alignment explanation
Indices: 83646502--83646780 Score: 332
Period size: 99 Copynumber: 2.7 Consensus size: 100
83646492 TTAAAATTTT
*
83646502 TATTGATACTATCAACCCATAATATAACCAATTAAAATACTTCTATTAAACTGAGAAAAAAATTA
1 TATTGATACTAT-AATCCATAATATAACCAATTAAAATACTTCTATTAAACTGAGAAAAAAATTA
*
83646567 AAAAAATTTAAAAGTCAATCCATAATTGC-GACATTG
65 AAAAAATTTAAAAGTCAATCCATAATT-CTGACAGTG
* **
83646603 TATTGATACTAT-ATCCATAATATAACCAATTAAAGTACTTCTATTAAACCAAGAAAAAAATTAG
1 TATTGATACTATAATCCATAATATAACCAATTAAAATACTTCTATTAAACTGAGAAAAAAATTA-
**
83646667 AAAAAA-TTAAAAGTCAATCCATAATTCTGTTAGTG
65 AAAAAATTTAAAAGTCAATCCATAATTCTGACAGTG
* * *
83646702 TGTTGATACTATCAATCCATAATACAACTAATTAAAATTCAATACTTCTATTAAA-TCGAGAAAA
1 TATTGATACTAT-AATCCATAATATAACCAATT--AA---AATACTTCTATTAAACT-GAGAAAA
*
83646766 AAATAGAAAAAAATT
59 AAAT-TAAAAAAATT
83646781 AAACCGAGAA
Statistics
Matches: 152, Mismatches: 14, Indels: 18
0.83 0.08 0.10
Matches are distributed among these distances:
98 1 0.01
99 82 0.54
100 6 0.04
101 29 0.19
103 2 0.01
106 30 0.20
107 2 0.01
ACGTcount: A:0.49, C:0.14, G:0.07, T:0.30
Consensus pattern (100 bp):
TATTGATACTATAATCCATAATATAACCAATTAAAATACTTCTATTAAACTGAGAAAAAAATTAA
AAAAATTTAAAAGTCAATCCATAATTCTGACAGTG
Done.