Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
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: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 206 of 295
Found at i:65856474 original size:25 final size:24
Alignment explanation
Indices: 65856436--65856518 Score: 87
Period size: 25 Copynumber: 3.4 Consensus size: 24
65856426 AGGAAGTGCT
*
65856436 AAAAGGGCTCTGCCCCAGTTTACTG
1 AAAAGGGCTTTGCCCCAGTTTA-TG
* *
65856461 AAAAGGGCTTTGCCCTAGTTTATT
1 AAAAGGGCTTTGCCCCAGTTTATG
* *
65856485 AGAAAGGACTTTGCCCCAG-TTATT
1 A-AAAGGGCTTTGCCCCAGTTTATG
65856509 AAAAGAGGCT
1 AAAAG-GGCT
65856519 AGGCCTCTAG
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
23 4 0.08
24 11 0.22
25 35 0.70
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTATG
Found at i:65856712 original size:42 final size:42
Alignment explanation
Indices: 65856653--65856744 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
65856643 TAGTCTCCCC
* * *
65856653 AAATGGGCTTGCATACATTCGTTGAAATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGAAATTACATGTGATATTA
*
65856695 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTA
1 AAATGGGCTTGCATACATCCATTGAAATTACATGTGATATTA
65856737 AAATGGGC
1 AAATGGGC
65856745 CTAAGGGCCA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.33, C:0.14, G:0.21, T:0.33
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGAAATTACATGTGATATTA
Found at i:65856806 original size:31 final size:31
Alignment explanation
Indices: 65856768--65856851 Score: 134
Period size: 31 Copynumber: 2.7 Consensus size: 31
65856758 CGTTTACAGT
*
65856768 AAAGGCTTCAGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
65856799 AAAGGCTTCGGCCCAGTGATATGATTTATGG
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
65856830 AAAGGCTTCGGCCTAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
65856852 TCAAGACTAA
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
30 5 0.10
31 45 0.90
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.29
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:65872269 original size:40 final size:39
Alignment explanation
Indices: 65872118--65872302 Score: 158
Period size: 40 Copynumber: 4.6 Consensus size: 39
65872108 TTGAATGATG
* * * *
65872118 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
65872158 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
**
65872198 TCCGGGCTAAGCCCGAAGGCATTTGCACGAGTTACTAAA
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
* * * * *
65872237 TCTGGGTTAAGTCCCGAAGACAATTGTGCGAGTTATTATAA
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
*
65872278 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAG-CCCGAAGGCATTTG
65872303 ACCGAGTAGC
Statistics
Matches: 115, Mismatches: 27, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
39 32 0.28
40 74 0.64
41 9 0.08
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:65880181 original size:39 final size:40
Alignment explanation
Indices: 65880080--65880264 Score: 191
Period size: 40 Copynumber: 4.7 Consensus size: 40
65880070 TTGAATGATG
* * * *
65880080 TCCGGGCTAAGTCCCGATGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
* *
65880119 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
65880160 TCCGGGCTAAG-CCCGAAGGCATTTGCGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
65880199 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
65880238 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
65880265 AACGAGTAGC
Statistics
Matches: 121, Mismatches: 18, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
39 35 0.29
40 76 0.63
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:65880286 original size:79 final size:79
Alignment explanation
Indices: 65880133--65880297 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
65880123 GGACTAAGAT
* * **
65880133 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGCGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
65880198 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
65880212 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
65880275 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
65880291 CCGAAGG
1 CCGAAGG
65880298 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 25 0.34
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:65884581 original size:32 final size:33
Alignment explanation
Indices: 65884535--65884606 Score: 119
Period size: 32 Copynumber: 2.2 Consensus size: 33
65884525 ATAACACAGC
*
65884535 ATCAGTACAGTCTGGGCCAAAGCCCTATTCAGT
1 ATCAGTACAGTCTGGACCAAAGCCCTATTCAGT
65884568 ATCAGTA-AGTCTGGACCAAAGCCCTATTCAGT
1 ATCAGTACAGTCTGGACCAAAGCCCTATTCAGT
*
65884600 AACAGTA
1 ATCAGTA
65884607 TAGTGCAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
32 30 0.81
33 7 0.19
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.24
Consensus pattern (33 bp):
ATCAGTACAGTCTGGACCAAAGCCCTATTCAGT
Found at i:65892340 original size:33 final size:33
Alignment explanation
Indices: 65892298--65892374 Score: 136
Period size: 33 Copynumber: 2.3 Consensus size: 33
65892288 ATAACACAGC
65892298 ATCAGTACAGTCTGGGCAAAAGCCCTAGTCAGT
1 ATCAGTACAGTCTGGGCAAAAGCCCTAGTCAGT
* *
65892331 ATCAGTACAGTCTGGGCCAAAGCCCTATTCAGT
1 ATCAGTACAGTCTGGGCAAAAGCCCTAGTCAGT
65892364 ATCAGTACAGT
1 ATCAGTACAGT
65892375 GCAAAATGCA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 42 1.00
ACGTcount: A:0.30, C:0.25, G:0.22, T:0.23
Consensus pattern (33 bp):
ATCAGTACAGTCTGGGCAAAAGCCCTAGTCAGT
Found at i:65896142 original size:14 final size:15
Alignment explanation
Indices: 65896125--65896153 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
65896115 TTACAAAAAT
65896125 TTCACACAT-ATAAA
1 TTCACACATGATAAA
65896139 TTCACACATGATAAA
1 TTCACACATGATAAA
65896154 CACAAAATAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.48, C:0.21, G:0.03, T:0.28
Consensus pattern (15 bp):
TTCACACATGATAAA
Found at i:65904424 original size:14 final size:15
Alignment explanation
Indices: 65904407--65904435 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
65904397 TCATGAAAAT
65904407 TTCACACAT-ATAAA
1 TTCACACATAATAAA
65904421 TTCACACATAATAAA
1 TTCACACATAATAAA
65904436 CACAAAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:65907318 original size:29 final size:29
Alignment explanation
Indices: 65907284--65907354 Score: 106
Period size: 29 Copynumber: 2.4 Consensus size: 29
65907274 ATTCATATTT
*
65907284 CCCATTAGGCCCAAATCACCTGTATATGG
1 CCCATTAGGCCCAAATCACATGTATATGG
* *
65907313 CCCATTAGGCCCAAATCATATTTATATGG
1 CCCATTAGGCCCAAATCACATGTATATGG
*
65907342 CCCGTTAGGCCCA
1 CCCATTAGGCCCA
65907355 GTCACATTCA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 38 1.00
ACGTcount: A:0.27, C:0.31, G:0.17, T:0.25
Consensus pattern (29 bp):
CCCATTAGGCCCAAATCACATGTATATGG
Found at i:65907353 original size:58 final size:57
Alignment explanation
Indices: 65907244--65907354 Score: 141
Period size: 58 Copynumber: 1.9 Consensus size: 57
65907234 AAATTCACAT
* * **
65907244 ACCTATATCTGGCCCATTAAGCCCATTCATATTCATATTTCCCATTAGGCCCAAATC
1 ACCTATATATGGCCCATTAAGCCCAATCATATTCATATGGCCCATTAGGCCCAAATC
* * * *
65907301 ACCTGTATATGGCCCATTAGGCCCAAATCATATTTATATGGCCCGTTAGGCCCA
1 ACCTATATATGGCCCATTAAGCCC-AATCATATTCATATGGCCCATTAGGCCCA
65907355 GTCACATTCA
Statistics
Matches: 45, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
57 21 0.47
58 24 0.53
ACGTcount: A:0.27, C:0.30, G:0.14, T:0.30
Consensus pattern (57 bp):
ACCTATATATGGCCCATTAAGCCCAATCATATTCATATGGCCCATTAGGCCCAAATC
Found at i:65907605 original size:8 final size:8
Alignment explanation
Indices: 65907577--65907628 Score: 52
Period size: 8 Copynumber: 6.6 Consensus size: 8
65907567 TATAGCCAAA
65907577 CTTTT-GG
1 CTTTTCGG
65907584 CTTTTCGG
1 CTTTTCGG
* *
65907592 CATTTCAG
1 CTTTTCGG
**
65907600 CTTTTCAA
1 CTTTTCGG
65907608 CTTTTCGG
1 CTTTTCGG
*
65907616 CATTTCGG
1 CTTTTCGG
65907624 CTTTT
1 CTTTT
65907629 GCTGATACAA
Statistics
Matches: 36, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
7 5 0.14
8 31 0.86
ACGTcount: A:0.10, C:0.23, G:0.17, T:0.50
Consensus pattern (8 bp):
CTTTTCGG
Found at i:65910745 original size:67 final size:67
Alignment explanation
Indices: 65910668--65910843 Score: 273
Period size: 67 Copynumber: 2.6 Consensus size: 67
65910658 ATATTTATAT
*
65910668 ATATATGTGGCGAAGCCACC-GAATTACAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGAA
1 ATATATGTGGCGAGGCCACCAG-ATTACAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGAA
65910732 CAG
65 CAG
* * * *
65910735 ATATATGTGGCGAGGCCACCAGATTACAGCGAGGTTGCAAGATATTGTGAGGAAGTCACCAGAAT
1 ATATATGTGGCGAGGCCACCAGATTACAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGAAC
65910800 AG
66 AG
* *
65910802 ATATATGTGGCGAGGCCACCAGATTGCAGCGAGTCTGCCAGA
1 ATATATGTGGCGAGGCCACCAGATTACAGCGAGGCTGCCAGA
65910844 ATGCTTCCTC
Statistics
Matches: 99, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
67 98 0.99
68 1 0.01
ACGTcount: A:0.31, C:0.20, G:0.29, T:0.19
Consensus pattern (67 bp):
ATATATGTGGCGAGGCCACCAGATTACAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGAAC
AG
Found at i:65910754 original size:27 final size:26
Alignment explanation
Indices: 65910706--65910757 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
65910696 GCGAGGCTGC
*
65910706 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
65910732 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
65910758 TTACAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:65911504 original size:27 final size:27
Alignment explanation
Indices: 65911474--65911618 Score: 168
Period size: 27 Copynumber: 5.4 Consensus size: 27
65911464 AGGGCAAAAT
* *
65911474 GGTAACTT-TACCCCACAAGGGTATCTC
1 GGTAA-TTCTACCCTACAAGGGTATTTC
* * *
65911501 GGTAATTCAACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
*
65911528 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
65911555 GGTAATTCTATCCTA-GAGGGATATTTC
1 GGTAATTCTACCCTACAAGGG-TATTTC
* *
65911582 GGTAATTCTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
65911609 GGTAATTCTA
1 GGTAATTCTA
65911619 AAACTTATCC
Statistics
Matches: 99, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
26 6 0.06
27 90 0.91
28 3 0.03
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.34
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:65918711 original size:8 final size:8
Alignment explanation
Indices: 65918700--65918726 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
65918690 TTTTTCAACA
65918700 TTTCGGCT
1 TTTCGGCT
65918708 TTTCGGCT
1 TTTCGGCT
65918716 TTTCGGCT
1 TTTCGGCT
65918724 TTT
1 TTT
65918727 GCCGATCTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.00, C:0.22, G:0.22, T:0.56
Consensus pattern (8 bp):
TTTCGGCT
Found at i:65922362 original size:46 final size:46
Alignment explanation
Indices: 65922295--65922384 Score: 171
Period size: 46 Copynumber: 2.0 Consensus size: 46
65922285 TTTAAGTGTA
65922295 AAAAAAAATATCTGTTCTGAATTGGGTTAGAATCGGTAATGCCTCG
1 AAAAAAAATATCTGTTCTGAATTGGGTTAGAATCGGTAATGCCTCG
*
65922341 AAAAAAAATATTTGTTCTGAATTGGGTTAGAATCGGTAATGCCT
1 AAAAAAAATATCTGTTCTGAATTGGGTTAGAATCGGTAATGCCT
65922385 TGTAACCCCA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.36, C:0.11, G:0.21, T:0.32
Consensus pattern (46 bp):
AAAAAAAATATCTGTTCTGAATTGGGTTAGAATCGGTAATGCCTCG
Found at i:65924062 original size:27 final size:26
Alignment explanation
Indices: 65924014--65924073 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
65924004 GCGAAGCTGC
*
65924014 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
65924041 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
65924067 CAGATAT
1 CAGATAT
65924074 ATATATGTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:65924118 original size:71 final size:67
Alignment explanation
Indices: 65924041--65924182 Score: 176
Period size: 67 Copynumber: 2.1 Consensus size: 67
65924031 TCACCAGATA
* * *
65924041 CAGATATTGTGGCTAGGCCACCAGAACAGATATATATATGTGGCGAAGCCACCAGATTGCAACGA
1 CAGATATTGTGACGAAGCCACCAGAACAG----ATATATGTGGCGAAGCCACCAGATTGCAACGA
65924106 GGCTAC
62 GGCTAC
* * * *
65924112 CAGATATTGTGACGAAGTCACCAGAACAGATATATGTGGCGAGGCCACCAGATTGCAGCGAGTCT
1 CAGATATTGTGACGAAGCCACCAGAACAGATATATGTGGCGAAGCCACCAGATTGCAACGAGGCT
*
65924177 GC
66 AC
65924179 CAGA
1 CAGA
65924183 ACGCTTCCTC
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
67 38 0.60
71 25 0.40
ACGTcount: A:0.32, C:0.23, G:0.27, T:0.19
Consensus pattern (67 bp):
CAGATATTGTGACGAAGCCACCAGAACAGATATATGTGGCGAAGCCACCAGATTGCAACGAGGCT
AC
Found at i:65924160 original size:27 final size:26
Alignment explanation
Indices: 65924112--65924163 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
65924102 ACGAGGCTAC
*
65924112 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
65924138 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
65924164 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:65928503 original size:46 final size:45
Alignment explanation
Indices: 65928446--65928618 Score: 161
Period size: 46 Copynumber: 3.8 Consensus size: 45
65928436 TTGGGCATCC
*
65928446 GAACTCATTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGTCT
1 GAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATG-GAATGTCT
* *** * * *
65928492 GAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCA--TCC
1 GAACTCGTTGAGTTGAGTCTGAGTTC-ACTTATG-GA-T-GGAATGTCT
* *
65928539 GAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGTGAATGCCT
1 GAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATG-GAATGTCT
* * *
65928585 GAGCTCGTTGAATTGAGTCTAAGTTCACTTATGG
1 GAACTCGTTGAGTTGAGTCTGAGTTCACTTATGG
65928619 GCGGGTTACA
Statistics
Matches: 101, Mismatches: 19, Indels: 14
0.75 0.14 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 61 0.60
47 30 0.30
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.23, C:0.16, G:0.28, T:0.32
Consensus pattern (45 bp):
GAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGGAATGTCT
Found at i:65928610 original size:93 final size:93
Alignment explanation
Indices: 65928439--65928610 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
65928429 AGGATATTTG
* *
65928439 GGCATCCGAACTCATTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGTCTGAACTCGTTGAG
1 GGCATCCGAACTCATTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGCCTGAACTCGTTGAA
*
65928504 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCAAGTTCGAGAGATGTAACTA
* * * *
65928532 GGCATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGTGAATGCCTGAGCTCGTTGAA
1 GGCATCCGAACTCATTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGCCTGAACTCGTTGAA
*
65928597 TTGAGTCTAAGTTC
66 TTGAGTCCAAGTTC
65928611 ACTTATGGGC
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.31
Consensus pattern (93 bp):
GGCATCCGAACTCATTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGCCTGAACTCGTTGAA
TTGAGTCCAAGTTCGAGAGATGTAACTA
Found at i:65938479 original size:33 final size:33
Alignment explanation
Indices: 65938434--65938497 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 33
65938424 GGTAACAGTA
*
65938434 TGGGCCTGAGCCCTATTA-AGAAACAGTACAGAG
1 TGGGCCTGAGCCC-AATACAGAAACAGTACAGAG
*
65938467 TGGGCCTTAGCCCAATACAGAAACAGTACAG
1 TGGGCCTGAGCCCAATACAGAAACAGTACAG
65938498 TACAGTAATG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 3 0.11
33 25 0.89
ACGTcount: A:0.34, C:0.23, G:0.25, T:0.17
Consensus pattern (33 bp):
TGGGCCTGAGCCCAATACAGAAACAGTACAGAG
Found at i:65938627 original size:26 final size:26
Alignment explanation
Indices: 65938596--65938650 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
65938586 AACACACCAA
* *
65938596 TATCGCAGCAAGGCTACCAGTAATAG
1 TATCGCAACAAAGCTACCAGTAATAG
*
65938622 TATCGCAACAAAGCTTCCAGTAATAG
1 TATCGCAACAAAGCTACCAGTAATAG
65938648 TAT
1 TAT
65938651 TATAGCAAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.36, C:0.22, G:0.18, T:0.24
Consensus pattern (26 bp):
TATCGCAACAAAGCTACCAGTAATAG
Found at i:65938659 original size:26 final size:26
Alignment explanation
Indices: 65938602--65938703 Score: 96
Period size: 26 Copynumber: 3.9 Consensus size: 26
65938592 CCAATATCGC
* * *
65938602 AGCAAGGCTACCAGTAATAGTATCGC
1 AGCAAAGCTACCAGTAATAGTATTGT
* * *
65938628 AACAAAGCTTCCAGTAATAGTATTAT
1 AGCAAAGCTACCAGTAATAGTATTGT
* *
65938654 AGCAAAGCTGCCAGTAACAGTATATGT
1 AGCAAAGCTACCAGTAATAGTAT-TGT
* * *
65938681 GGCAAAGCCACCAGAAATAGTAT
1 AGCAAAGCTACCAGTAATAGTAT
65938704 ATGTGGCGAA
Statistics
Matches: 60, Mismatches: 15, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
26 40 0.67
27 20 0.33
ACGTcount: A:0.39, C:0.20, G:0.20, T:0.22
Consensus pattern (26 bp):
AGCAAAGCTACCAGTAATAGTATTGT
Found at i:65938694 original size:27 final size:27
Alignment explanation
Indices: 65938638--65938719 Score: 94
Period size: 27 Copynumber: 3.1 Consensus size: 27
65938628 AACAAAGCTT
* * **
65938638 CCAGTAATAGTAT-TATAGCAAAGCTG
1 CCAGTAATAGTATATGTGGCAAAGCCA
*
65938664 CCAGTAACAGTATATGTGGCAAAGCCA
1 CCAGTAATAGTATATGTGGCAAAGCCA
* *
65938691 CCAGAAATAGTATATGTGGCGAAGCCA
1 CCAGTAATAGTATATGTGGCAAAGCCA
65938718 CC
1 CC
65938720 GGTATAATAC
Statistics
Matches: 47, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
26 12 0.26
27 35 0.74
ACGTcount: A:0.37, C:0.21, G:0.22, T:0.21
Consensus pattern (27 bp):
CCAGTAATAGTATATGTGGCAAAGCCA
Found at i:65942265 original size:25 final size:25
Alignment explanation
Indices: 65942218--65942265 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
65942208 ATATAACATG
* * * *
65942218 AAAATGACCGTTTTGCCCTTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
65942243 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
65942266 GTTTATGTAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:65942332 original size:20 final size:20
Alignment explanation
Indices: 65942309--65942347 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
65942299 TAAACATGGT
65942309 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
65942329 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
65942348 TGTATTCATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.31
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:65942429 original size:23 final size:23
Alignment explanation
Indices: 65942399--65942565 Score: 235
Period size: 23 Copynumber: 7.1 Consensus size: 23
65942389 AGGAAGTGAA
65942399 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
65942422 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
65942446 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
* * *
65942469 AAAGGGCTTATGCCCTAGATATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
* * *
65942493 AAATGGCTTATGCCCAAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
*
65942517 AAAGGGCTTACGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
65942540 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
65942563 AAA
1 AAA
65942566 AGAGGCTAGG
Statistics
Matches: 129, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
23 67 0.52
24 62 0.48
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.28
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:65942454 original size:24 final size:23
Alignment explanation
Indices: 65942398--65942572 Score: 233
Period size: 24 Copynumber: 7.4 Consensus size: 23
65942388 GAGGAAGTGA
65942398 AAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
65942421 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
65942444 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
* * *
65942468 TAAAGGGCTTATGCCCTAGATAT
1 AAAAGGGCTTATGCCCCAGTTAT
* *
65942491 CAAAATGGCTTATGCCCAAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
65942515 CAAAAGGGCTTACGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
65942539 TAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-T
65942563 AAAAGAGGCT
1 AAAAG-GGCT
65942573 AGGCCTCCAA
Statistics
Matches: 133, Mismatches: 15, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
23 62 0.47
24 67 0.50
25 4 0.03
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (23 bp):
AAAAGGGCTTATGCCCCAGTTAT
Found at i:65942567 original size:47 final size:47
Alignment explanation
Indices: 65942398--65942565 Score: 257
Period size: 47 Copynumber: 3.6 Consensus size: 47
65942388 GAGGAAGTGA
65942398 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATC
* *
65942445 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCTAGATATC
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATC
* * * *
65942492 AAAATGGCTTATGCCCAAGTTATCAAAAGGGCTTACGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAGTTATC
*
65942539 TAAAGGGCTTATGCCCCAGTTATTAAA
1 AAAAGGGCTTATGCCCCAGTTATTAAA
65942566 AGAGGCTAGG
Statistics
Matches: 108, Mismatches: 12, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
46 3 0.03
47 86 0.80
48 19 0.18
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.27
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATC
Found at i:65955703 original size:27 final size:27
Alignment explanation
Indices: 65955673--65955966 Score: 480
Period size: 27 Copynumber: 10.9 Consensus size: 27
65955663 TTTGTAAAAC
*
65955673 TACCGTTTTACCCTCGATTTATAGAAT
1 TACCATTTTACCCTCGATTTATAGAAT
* *
65955700 TACCGTTTTACCCTCTATTTATAGAAT
1 TACCATTTTACCCTCGATTTATAGAAT
* *
65955727 TACTATTTTACCCTCGATTTACAGAAT
1 TACCATTTTACCCTCGATTTATAGAAT
65955754 TACCATTTTACCCTCGATTTATAGAAT
1 TACCATTTTACCCTCGATTTATAGAAT
*
65955781 TATCATTTTACCCTCGATTTATAGAAT
1 TACCATTTTACCCTCGATTTATAGAAT
65955808 TACCATTTTACCCTCGATTTATAGAAT
1 TACCATTTTACCCTCGATTTATAGAAT
*
65955835 TAACATTTTACCCTCGATTTATAGAAT
1 TACCATTTTACCCTCGATTTATAGAAT
*
65955862 TACCATTTTACCCTCAATTTATAGAAT
1 TACCATTTTACCCTCGATTTATAGAAT
*
65955889 TACTATTTTACCCTCGATTTATAGAAT
1 TACCATTTTACCCTCGATTTATAGAAT
*
65955916 TACTATTTTACCCTCGATTTATAGAAT
1 TACCATTTTACCCTCGATTTATAGAAT
* *
65955943 TACCGTTTTACTCTCGATTTATAG
1 TACCATTTTACCCTCGATTTATAG
65955967 TCGATTTATA
Statistics
Matches: 250, Mismatches: 17, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 250 1.00
ACGTcount: A:0.29, C:0.21, G:0.08, T:0.43
Consensus pattern (27 bp):
TACCATTTTACCCTCGATTTATAGAAT
Found at i:65955736 original size:54 final size:54
Alignment explanation
Indices: 65955678--65956066 Score: 487
Period size: 54 Copynumber: 7.0 Consensus size: 54
65955668 AAAACTACCG
* *
65955678 TTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCTATTTATAGAATTACTA
1 TTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACTA
*
65955732 TTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTATAGAATTA-TCA
1 TTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACT-A
65955786 TTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTAAC-A
1 TTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTATAGAATT-ACTA
*
65955840 TTTTACCCTCGATTTATAGAATTACCATTTTACCCTCAATTTATAGAATTACTA
1 TTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACTA
* **
65955894 TTTTACCCTCGATTTATAGAATTACTATTTTACCCTCGATTTATAGAATTACCG
1 TTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACTA
***
65955948 TTTTACTCTCGATTTATAGTCGATTTATAGAATTATTGTTTTACCCTCGATTTATAGAATTA-TC
1 TTTTAC-C-C---------TCGATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACT-
*
65956012 G
54 A
* ** * *
65956013 TTTTACCCTCGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACTA
1 TTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACTA
65956067 AAATACTCTT
Statistics
Matches: 301, Mismatches: 17, Indels: 34
0.86 0.05 0.10
Matches are distributed among these distances:
53 3 0.01
54 244 0.81
55 3 0.01
56 1 0.00
63 1 0.00
64 1 0.00
65 48 0.16
ACGTcount: A:0.29, C:0.20, G:0.08, T:0.43
Consensus pattern (54 bp):
TTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACTA
Found at i:65955778 original size:81 final size:81
Alignment explanation
Indices: 65955673--65956066 Score: 527
Period size: 81 Copynumber: 4.7 Consensus size: 81
65955663 TTTGTAAAAC
* *
65955673 TACCGTTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCTATTTATAGAATTACTATTTTAC
1 TACCATTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTATAGAATTACTATTTTAC
*
65955738 CCTCGATTTACAGAAT
66 CCTCGATTTATAGAAT
* * *
65955754 TACCATTTTACCCTCGATTTATAGAATTATCATTTTACCCTCGATTTATAGAATTACCATTTTAC
1 TACCATTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTATAGAATTACTATTTTAC
65955819 CCTCGATTTATAGAAT
66 CCTCGATTTATAGAAT
* * *
65955835 TAACATTTTACCCTCGATTTATAGAATTACCATTTTACCCTCAATTTATAGAATTACTATTTTAC
1 TACCATTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTATAGAATTACTATTTTAC
65955900 CCTCGATTTATAGAAT
66 CCTCGATTTATAGAAT
*
65955916 TACTATTTTACCCTCGATTTATAGAATTACCGTTTTACTCTCGATTTATAGTCGATTTATAGAAT
1 TACCATTTTACCCTCGATTTATAGAATTACCGTTTTAC-C-C---------TCGATTTATAGAAT
* *
65955981 TATTGTTTTACCCTCGATTTATAGAAT
55 TACTATTTTACCCTCGATTTATAGAAT
* * * * * *
65956008 TATCGTTTTACCCTCGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACTA
1 TACCATTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTATAGAATTACTA
65956067 AAATACTCTT
Statistics
Matches: 277, Mismatches: 25, Indels: 22
0.85 0.08 0.07
Matches are distributed among these distances:
81 202 0.73
82 1 0.00
83 1 0.00
90 1 0.00
91 1 0.00
92 71 0.26
ACGTcount: A:0.29, C:0.20, G:0.08, T:0.43
Consensus pattern (81 bp):
TACCATTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTATAGAATTACTATTTTAC
CCTCGATTTATAGAAT
Found at i:65955971 original size:38 final size:38
Alignment explanation
Indices: 65955929--65956004 Score: 125
Period size: 38 Copynumber: 2.0 Consensus size: 38
65955919 TATTTTACCC
*
65955929 TCGATTTATAGAATTACCGTTTTACTCTCGATTTATAG
1 TCGATTTATAGAATTACCGTTTTACCCTCGATTTATAG
**
65955967 TCGATTTATAGAATTATTGTTTTACCCTCGATTTATAG
1 TCGATTTATAGAATTACCGTTTTACCCTCGATTTATAG
65956005 AATTATCGTT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.26, C:0.14, G:0.13, T:0.46
Consensus pattern (38 bp):
TCGATTTATAGAATTACCGTTTTACCCTCGATTTATAG
Found at i:65955978 original size:65 final size:65
Alignment explanation
Indices: 65955902--65956028 Score: 218
Period size: 65 Copynumber: 2.0 Consensus size: 65
65955892 TATTTTACCC
*
65955902 TCGATTTATAGAATTACTATTTTACCCTCGATTTATAGAATTACCGTTTTACTCTCGATTTATAG
1 TCGATTTATAGAATTACTATTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTATAG
* * *
65955967 TCGATTTATAGAATTATTGTTTTACCCTCGATTTATAGAATTATCGTTTTACCCTCGATTTA
1 TCGATTTATAGAATTACTATTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTA
65956029 CAGAATTACT
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
65 58 1.00
ACGTcount: A:0.27, C:0.17, G:0.11, T:0.46
Consensus pattern (65 bp):
TCGATTTATAGAATTACTATTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTATAG
Found at i:65955990 original size:27 final size:27
Alignment explanation
Indices: 65955967--65956055 Score: 151
Period size: 27 Copynumber: 3.3 Consensus size: 27
65955957 CGATTTATAG
65955967 TCGATTTATAGAATTATTGTTTTACCC
1 TCGATTTATAGAATTATTGTTTTACCC
*
65955994 TCGATTTATAGAATTATCGTTTTACCC
1 TCGATTTATAGAATTATTGTTTTACCC
* *
65956021 TCGATTTACAGAATTACTGTTTTACCC
1 TCGATTTATAGAATTATTGTTTTACCC
65956048 TCGATTTA
1 TCGATTTA
65956056 CAAAATTACT
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 58 1.00
ACGTcount: A:0.26, C:0.18, G:0.11, T:0.45
Consensus pattern (27 bp):
TCGATTTATAGAATTATTGTTTTACCC
Found at i:65956035 original size:92 final size:92
Alignment explanation
Indices: 65955878--65956055 Score: 286
Period size: 92 Copynumber: 1.9 Consensus size: 92
65955868 TTTACCCTCA
*
65955878 ATTTATAGAATTACTATTTTACCCTCGATTTATAGAATTACTATTTTACCCTCGATTTATAGAAT
1 ATTTATAGAATTACTATTTTACCCTCGATTTATAGAATTACTATTTTACCCTCGATTTACAGAAT
*
65955943 TACCGTTTTACTCTCGATTTATAGTCG
66 TACCGTTTTACCCTCGATTTATAGTCG
* * *
65955970 ATTTATAGAATTATTGTTTTACCCTCGATTTATAGAATTA-TCGTTTTACCCTCGATTTACAGAA
1 ATTTATAGAATTACTATTTTACCCTCGATTTATAGAATTACT-ATTTTACCCTCGATTTACAGAA
*
65956034 TTACTGTTTTACCCTCGATTTA
65 TTACCGTTTTACCCTCGATTTA
65956056 CAAAATTACT
Statistics
Matches: 79, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
91 1 0.01
92 78 0.99
ACGTcount: A:0.28, C:0.17, G:0.10, T:0.45
Consensus pattern (92 bp):
ATTTATAGAATTACTATTTTACCCTCGATTTATAGAATTACTATTTTACCCTCGATTTACAGAAT
TACCGTTTTACCCTCGATTTATAGTCG
Found at i:65956056 original size:27 final size:27
Alignment explanation
Indices: 65955967--65956065 Score: 146
Period size: 27 Copynumber: 3.7 Consensus size: 27
65955957 CGATTTATAG
* *
65955967 TCGATTTATAGAATTATTGTTTTACCC
1 TCGATTTACAGAATTACTGTTTTACCC
*
65955994 TCGATTTATAGAATTA-TCGTTTTACCC
1 TCGATTTACAGAATTACT-GTTTTACCC
65956021 TCGATTTACAGAATTACTGTTTTACCC
1 TCGATTTACAGAATTACTGTTTTACCC
*
65956048 TCGATTTACAAAATTACT
1 TCGATTTACAGAATTACT
65956066 AAAATACTCT
Statistics
Matches: 68, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
26 1 0.01
27 66 0.97
28 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.10, T:0.43
Consensus pattern (27 bp):
TCGATTTACAGAATTACTGTTTTACCC
Found at i:65956063 original size:119 final size:119
Alignment explanation
Indices: 65955848--65956064 Score: 337
Period size: 119 Copynumber: 1.8 Consensus size: 119
65955838 CATTTTACCC
*
65955848 TCGATTTATAGAATTACCATTTTACCCTCAATTTATAGAATTACTATTTTACCCTCGATTTATAG
1 TCGATTTATAGAATTACCATTTTACCCTCAATTTATAGAATTACTATTTTACCCTCGATTTACAG
* *
65955913 AATTACTATTTTACCCTCGATTTATAGAATTACCGTTTTACTCTCGATTTATAG
66 AATTACTATTTTACCCTCGATTTACAAAATTACCGTTTTACTCTCGATTTATAG
*** * *
65955967 TCGATTTATAGAATTATTGTTTTACCCTCGATTTATAGAATTA-TCGTTTTACCCTCGATTTACA
1 TCGATTTATAGAATTACCATTTTACCCTCAATTTATAGAATTACT-ATTTTACCCTCGATTTACA
*
65956031 GAATTACTGTTTTACCCTCGATTTACAAAATTAC
65 GAATTACTATTTTACCCTCGATTTACAAAATTAC
65956065 TAAAATACTC
Statistics
Matches: 88, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
118 1 0.01
119 87 0.99
ACGTcount: A:0.29, C:0.18, G:0.09, T:0.43
Consensus pattern (119 bp):
TCGATTTATAGAATTACCATTTTACCCTCAATTTATAGAATTACTATTTTACCCTCGATTTACAG
AATTACTATTTTACCCTCGATTTACAAAATTACCGTTTTACTCTCGATTTATAG
Found at i:65956105 original size:146 final size:146
Alignment explanation
Indices: 65955821--65956107 Score: 367
Period size: 146 Copynumber: 2.0 Consensus size: 146
65955811 CATTTTACCC
*
65955821 TCGATTTATAGAATTAACATTTTACCCTCGATTTATAGAATTACCATTTTACCCTCAATTTATAG
1 TCGATTTATAGAATTAACATTTTACCCTCGATTTATAGAATTACCATTTTACCCTCAATTTACAG
* * *** * * ****
65955886 AATTACTATTTTACCCTCGATTTATAGAATTACTATTTTACCCTCGATTTATAGAATTACCGTTT
66 AATTACTATTTTACCCTCGATTTACAAAATTACTAAAATACCCTCGATTTACAAAATTACCAAAA
*
65955951 TACTCTCGATTTATAG
131 TACCCTCGATTTATAG
*** * * *
65955967 TCGATTTATAGAATTATTGTTTTACCCTCGATTTATAGAATTATCGTTTTACCCTCGATTTACAG
1 TCGATTTATAGAATTAACATTTTACCCTCGATTTATAGAATTACCATTTTACCCTCAATTTACAG
* * * *
65956032 AATTACTGTTTTACCCTCGATTTACAAAATTACTAAAATACTCTTGGTTTACAAAATTACCAAAA
66 AATTACTATTTTACCCTCGATTTACAAAATTACTAAAATACCCTCGATTTACAAAATTACCAAAA
65956097 TACCCTCGATT
131 TACCCTCGATT
65956108 AGTAAAATTA
Statistics
Matches: 118, Mismatches: 23, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
146 118 1.00
ACGTcount: A:0.31, C:0.19, G:0.09, T:0.41
Consensus pattern (146 bp):
TCGATTTATAGAATTAACATTTTACCCTCGATTTATAGAATTACCATTTTACCCTCAATTTACAG
AATTACTATTTTACCCTCGATTTACAAAATTACTAAAATACCCTCGATTTACAAAATTACCAAAA
TACCCTCGATTTATAG
Found at i:65956218 original size:27 final size:27
Alignment explanation
Indices: 65956043--65956292 Score: 200
Period size: 27 Copynumber: 9.3 Consensus size: 27
65956033 ATTACTGTTT
* ** *
65956043 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTTGATTTGTAAAATTACCAAAA
* * **
65956070 TACTCTTGGTTTACAAAATTACCAAAA
1 TACCCTTGATTTGTAAAATTACCAAAA
* *
65956097 TACCCTCGATTAGTAAAATTACCAAAA
1 TACCCTTGATTTGTAAAATTACCAAAA
* * *
65956124 TACCCCTGGTTTGTAAAATTACTAAAA
1 TACCCTTGATTTGTAAAATTACCAAAA
*
65956151 TACCCCT-AGTTTGTAAAATTACCAAAA
1 TACCCTTGA-TTTGTAAAATTACCAAAA
* **
65956178 TACCCCTGGCTTGTAAAATTACCAAAA
1 TACCCTTGATTTGTAAAATTACCAAAA
* **
65956205 TACCCTTGATTTGTGAAATTTTCAAAA
1 TACCCTTGATTTGTAAAATTACCAAAA
* ** * *
65956232 TACTCTCAATTTGTAAAA-TATCGAAA
1 TACCCTTGATTTGTAAAATTACCAAAA
** *
65956258 TACCCCTTG-TAGGATAGAATTACCAAAA
1 TA-CCCTTGATTTG-TAAAATTACCAAAA
65956286 TACCCTT
1 TACCCTT
65956293 ATAGGGTAGA
Statistics
Matches: 179, Mismatches: 39, Indels: 10
0.79 0.17 0.04
Matches are distributed among these distances:
26 10 0.06
27 161 0.90
28 8 0.04
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (27 bp):
TACCCTTGATTTGTAAAATTACCAAAA
Found at i:65956218 original size:81 final size:80
Alignment explanation
Indices: 65956043--65956292 Score: 229
Period size: 81 Copynumber: 3.1 Consensus size: 80
65956033 ATTACTGTTT
* ** * * * **
65956043 TACCCTCGATTTACAAAATTACTAAAATACTCTTGGTTTACAAAATTACCAAAATA-CCCTCGAT
1 TACCCTTGATTTGTAAAATTACTAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTCG-T
65956107 TAGTAAAATTACCAAAA
65 T-GTAAAATTACCAAAA
* * *
65956124 TACCCCTGGTTTGTAAAATTACTAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTGGCT
1 TACCCTTGATTTGTAAAATTACTAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTCG-T
65956189 TGTAAAATTACCAAAA
65 TGTAAAATTACCAAAA
* * * * * * *
65956205 TACCCTTGATTTGTGAAATT-TTCAAAATA-CTCTCAATTTGTAAAA-TATCGAAATACCCCTTG
1 TACCCTTGATTTGTAAAATTACT-AAAATACCCCT-AGTTTGTAAAATTACCAAAATACCCCTCG
* *
65956267 TAGGATAGAATTACCAAAA
64 T-TG-TAAAATTACCAAAA
65956286 TACCCTT
1 TACCCTT
65956293 ATAGGGTAGA
Statistics
Matches: 141, Mismatches: 23, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
79 1 0.01
80 19 0.13
81 114 0.81
82 7 0.05
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (80 bp):
TACCCTTGATTTGTAAAATTACTAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTCGTT
GTAAAATTACCAAAA
Found at i:65956250 original size:54 final size:54
Alignment explanation
Indices: 65956043--65956234 Score: 224
Period size: 54 Copynumber: 3.6 Consensus size: 54
65956033 ATTACTGTTT
* ** * * * **
65956043 TACCCTCGATTTACAAAATTACTAAAATACTCTTGGTTTACAAAATTACCAAAA
1 TACCCTTGATTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAA
* * *
65956097 TACCCTCGATTAGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAA
1 TACCCTTGATTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAA
* *
65956151 TACCCCT-AGTTTGTAAAATTACCAAAATACCCCTGGCTTGTAAAATTACCAAAA
1 TACCCTTGA-TTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAA
* **
65956205 TACCCTTGATTTGTGAAATTTTCAAAATAC
1 TACCCTTGATTTGTAAAATTACCAAAATAC
65956235 TCTCAATTTG
Statistics
Matches: 118, Mismatches: 18, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
53 1 0.01
54 116 0.98
55 1 0.01
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (54 bp):
TACCCTTGATTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAA
Found at i:65956297 original size:27 final size:27
Alignment explanation
Indices: 65956253--65956482 Score: 273
Period size: 27 Copynumber: 8.5 Consensus size: 27
65956243 TGTAAAATAT
*
65956253 CGAAATACCCCTTGTAGGATAGAATTAC
1 CGAAATA-CCCTTGTAGGGTAGAATTAC
* * *
65956281 CAAAATACCCTTATAGGGTAGAATTAT
1 CGAAATACCCTTGTAGGGTAGAATTAC
* *
65956308 CGAAATACCCCTATAGGGTAGAATTAC
1 CGAAATACCCTTGTAGGGTAGAATTAC
*
65956335 TGAAATAACCC-TGTAGGGTAGAATTAC
1 CGAAAT-ACCCTTGTAGGGTAGAATTAC
* * * * *
65956362 CGAAATACCCCTGTTGGGTAAAAATAT
1 CGAAATACCCTTGTAGGGTAGAATTAC
* * *
65956389 TGAAATACCCCTGTAGGGTAGAATTAT
1 CGAAATACCCTTGTAGGGTAGAATTAC
*
65956416 CGAAATACCCTTGTAGGGTAGAAGTAC
1 CGAAATACCCTTGTAGGGTAGAATTAC
65956443 CGAAATACCCTTGTAGGGTAGAATTAC
1 CGAAATACCCTTGTAGGGTAGAATTAC
* *
65956470 CGAGATATCCTTG
1 CGAAATACCCTTG
65956483 GGTAAAATTA
Statistics
Matches: 175, Mismatches: 25, Indels: 5
0.85 0.12 0.02
Matches are distributed among these distances:
26 4 0.02
27 161 0.92
28 10 0.06
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.26
Consensus pattern (27 bp):
CGAAATACCCTTGTAGGGTAGAATTAC
Found at i:65956725 original size:25 final size:25
Alignment explanation
Indices: 65956697--65956766 Score: 88
Period size: 25 Copynumber: 2.8 Consensus size: 25
65956687 AGGAAGTGCT
*
65956697 AAAAGGG-TTATGCCCCAGTTTACCG
1 AAAAGGGCTT-TGCCCCAGTTTACCA
*
65956722 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
* *
65956747 AAAAGGGCTTTACTCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
65956767 ATTAAAAGAG
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
25 38 0.95
26 2 0.05
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:65962029 original size:42 final size:41
Alignment explanation
Indices: 65961971--65962079 Score: 105
Period size: 43 Copynumber: 2.6 Consensus size: 41
65961961 TTGATGGCTC
* * * *
65961971 TGTCCCAGATAGGGTCTTACACGAAA-TCAGATACGATG-TTG
1 TGTCCCAGACACGGTCTTACACGAAACTCA-AT-CGAGGCCTG
* *
65962012 ATGTCCCAGACATGGTCTTATACGTAAATCTCAATCGAGGCCTG
1 -TGTCCCAGACACGGTCTTACACG-AAA-CTCAATCGAGGCCTG
65962056 TGTCCCAGACACGGTCTTACACGA
1 TGTCCCAGACACGGTCTTACACGA
65962080 TGTCTCAGAC
Statistics
Matches: 56, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
42 21 0.38
43 28 0.50
44 4 0.07
45 3 0.05
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.26
Consensus pattern (41 bp):
TGTCCCAGACACGGTCTTACACGAAACTCAATCGAGGCCTG
Found at i:65969382 original size:85 final size:84
Alignment explanation
Indices: 65969266--65969469 Score: 293
Period size: 85 Copynumber: 2.4 Consensus size: 84
65969256 GTAATTCAAT
* * * * *
65969266 ATCGATGCCTCTGTCCCAGACAGGGTTTTACATGAAATCAGATACGATGTCGATGTCCCAGACAT
1 ATCGAAGCCTGTGTCCCAGACACGGTCTTACATGAAATCAGATACGATGCCGATGTCCCA-ACAT
*
65969331 GGTCTTATACGTATATCTCA
65 GGTCTTATACGTAAATCTCA
* *
65969351 ATCGAAGCCTGTGTCCCAAACACGGTCTTACACGAAATCAGATACGATGCCGATGTCCCAACATG
1 ATCGAAGCCTGTGTCCCAGACACGGTCTTACATGAAATCAGATACGATGCCGATGTCCCAACATG
*
65969416 GTCTTATACGTAAATCTCG
66 GTCTTATACGTAAATCTCA
*
65969435 ATC-AAGGCCTGTGTCCTAGACACGGTCTTACATGA
1 ATCGAA-GCCTGTGTCCCAGACACGGTCTTACATGA
65969470 TGTCTCTGAC
Statistics
Matches: 106, Mismatches: 12, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
83 2 0.02
84 51 0.48
85 53 0.50
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.26
Consensus pattern (84 bp):
ATCGAAGCCTGTGTCCCAGACACGGTCTTACATGAAATCAGATACGATGCCGATGTCCCAACATG
GTCTTATACGTAAATCTCA
Found at i:65969411 original size:42 final size:42
Alignment explanation
Indices: 65969245--65969431 Score: 150
Period size: 42 Copynumber: 4.4 Consensus size: 42
65969235 GTCCCGAATG
* * ** *
65969245 TGGTCTTACATGTAATTCAATATCGATGCCTCTGTCCCAGACA
1 TGGTCTTACACGTAAATCAATA-CGATGCCGATGTCCCAAACA
* * * * *
65969288 GGGTTTTACATG-AAATCAGATACGATGTCGATGTCCCAGACA
1 TGGTCTTACACGTAAATCA-ATACGATGCCGATGTCCCAAACA
* * *
65969330 TGGTCTTATACGTATATCTCAAT-CGAAGCCTG-TGTCCCAAACA
1 TGGTCTTACACGTA-A-ATCAATACGATGCC-GATGTCCCAAACA
*
65969373 CGGTCTTACACG-AAATCAGATACGATGCCGATGTCCC-AACA
1 TGGTCTTACACGTAAATCA-ATACGATGCCGATGTCCCAAACA
*
65969414 TGGTCTTATACGTAAATC
1 TGGTCTTACACGTAAATC
65969432 TCGATCAAGG
Statistics
Matches: 115, Mismatches: 20, Indels: 19
0.75 0.13 0.12
Matches are distributed among these distances:
40 3 0.03
41 18 0.16
42 48 0.42
43 39 0.34
44 4 0.03
45 3 0.03
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (42 bp):
TGGTCTTACACGTAAATCAATACGATGCCGATGTCCCAAACA
Found at i:65969450 original size:42 final size:42
Alignment explanation
Indices: 65969319--65969464 Score: 138
Period size: 43 Copynumber: 3.5 Consensus size: 42
65969309 ACGATGTCGA
* * *
65969319 TGTCCCAGACATGGTCTTATACGTATATCTCAATCGAAGCCTG
1 TGTCCCAGACACGGTCTTATACGTAAATCTCGATC-AAGCCTG
* * * *
65969362 TGTCCCAAACACGGTCTTACACG-AAATC-AGATACGATGCC-G
1 TGTCCCAGACACGGTCTTATACGTAAATCTCGAT-C-AAGCCTG
*
65969403 ATGTCCCA-ACATGGTCTTATACGTAAATCTCGATCAAGGCCTG
1 -TGTCCCAGACACGGTCTTATACGTAAATCTCGATCAA-GCCTG
*
65969446 TGTCCTAGACACGGTCTTA
1 TGTCCCAGACACGGTCTTA
65969465 CATGATGTCT
Statistics
Matches: 83, Mismatches: 13, Indels: 14
0.75 0.12 0.13
Matches are distributed among these distances:
41 17 0.20
42 32 0.39
43 34 0.41
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (42 bp):
TGTCCCAGACACGGTCTTATACGTAAATCTCGATCAAGCCTG
Found at i:65972377 original size:39 final size:40
Alignment explanation
Indices: 65972260--65972388 Score: 181
Period size: 40 Copynumber: 3.2 Consensus size: 40
65972250 GCTACTCGTT
* *
65972260 CAAATGCTTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
65972300 CAATTGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
65972340 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
65972379 CAAATGCCTT
1 CAAATGCCTT
65972389 GCCTAGTAAC
Statistics
Matches: 80, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
39 32 0.40
40 46 0.57
41 2 0.03
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:65980348 original size:78 final size:79
Alignment explanation
Indices: 65980212--65980434 Score: 274
Period size: 78 Copynumber: 2.8 Consensus size: 79
65980202 GCTACTCGTT
*
65980212 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAATGCCTTCGGGACTTAACCCGGA
1 CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAATGCCTTCGGGACTTAACCCGGA
65980277 TTTAGTAACTCGCA
66 TTTAGTAACTCGCA
* *
65980291 CAAATGCCTTC-GG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCAC-AATGCCTTCGGGACTTAACCCG
65980353 GATTTAGTAACTCGCA
64 GATTTAGTAACTCGCA
** * * * * * * *
65980369 CAAATGCCTTC-ATATCTTAGTCCGGATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CATAGCCCGGATATAGTAAC-TCGCACAATGCCTTCGGGACTTAACCCG
65980433 GA
64 GA
65980435 CATCATTCAA
Statistics
Matches: 126, Mismatches: 12, Indels: 11
0.85 0.08 0.07
Matches are distributed among these distances:
76 1 0.01
77 21 0.17
78 51 0.40
79 11 0.09
80 36 0.29
81 6 0.05
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAATGCCTTCGGGACTTAACCCGGA
TTTAGTAACTCGCA
Found at i:65980395 original size:40 final size:40
Alignment explanation
Indices: 65980212--65980379 Score: 254
Period size: 40 Copynumber: 4.3 Consensus size: 40
65980202 GCTACTCGTT
* *
65980212 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
65980252 C-AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
65980291 CAAATGCCTTC-GG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
65980329 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
65980369 CAAATGCCTTC
1 CAAATGCCTTC
65980380 ATATCTTAGT
Statistics
Matches: 116, Mismatches: 8, Indels: 8
0.88 0.06 0.06
Matches are distributed among these distances:
38 33 0.28
39 38 0.33
40 45 0.39
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:65980428 original size:40 final size:40
Alignment explanation
Indices: 65980212--65980434 Score: 233
Period size: 40 Copynumber: 5.7 Consensus size: 40
65980202 GCTACTCGTT
* * *
65980212 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCA
* * *
65980252 C-AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCA
* *
65980291 CAAATGCCTTC-GG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTAGCA
* * *
65980329 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCA
** * * *
65980369 CAAATGCCTTC-ATATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TAGCA
65980410 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
65980435 CATCATTCAA
Statistics
Matches: 154, Mismatches: 21, Indels: 16
0.81 0.11 0.08
Matches are distributed among these distances:
38 32 0.21
39 40 0.26
40 73 0.47
41 9 0.06
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCA
Found at i:65987322 original size:13 final size:13
Alignment explanation
Indices: 65987299--65987351 Score: 79
Period size: 13 Copynumber: 4.1 Consensus size: 13
65987289 AGTTCTTCAT
65987299 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
* *
65987312 TGCTGTGGAAAAG
1 TGCTTTTGAAAAG
*
65987325 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
65987338 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
65987351 T
1 T
65987352 TTAGTTTAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 34 1.00
ACGTcount: A:0.28, C:0.08, G:0.28, T:0.36
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:65990641 original size:40 final size:40
Alignment explanation
Indices: 65990541--65990711 Score: 177
Period size: 40 Copynumber: 4.3 Consensus size: 40
65990531 GCTCCTCGTT
* * * *
65990541 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGAGACATAACCCGGATTTAGTAACTCGCA
* *
65990581 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGAGACATAACCCGGATTTAGTAACTCGCA
* * * *
65990620 CGAATGCCTTCGAAACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGAGACATAACCCGGATTTAGTAACTCGCA
* * * *
65990660 CAAAGGCCTTC-AGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGA-GACATAACCCGG-ATTTAGTAACTCGCA
65990700 CAAATGCCTTCG
1 CAAATGCCTTCG
65990712 GATCTTAGTC
Statistics
Matches: 113, Mismatches: 14, Indels: 7
0.84 0.10 0.05
Matches are distributed among these distances:
39 36 0.32
40 73 0.65
41 4 0.04
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGAGACATAACCCGGATTTAGTAACTCGCA
Found at i:65998499 original size:38 final size:40
Alignment explanation
Indices: 65998455--65998621 Score: 211
Period size: 38 Copynumber: 4.3 Consensus size: 40
65998445 GCTCCTCGTT
* *
65998455 CAAATGCCTTCGGGACATAGCCCGG-TTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
65998494 C-AATGCCTTCGGGACATAACCCGGATTTA-TAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
65998532 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
65998572 CAAAGGCCTTCGGG-C-TTACCCGGAATT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
65998609 CAAATGCCTTCGG
1 CAAATGCCTTCGG
65998622 ATCTTAGTCC
Statistics
Matches: 116, Mismatches: 9, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
37 22 0.19
38 41 0.35
39 33 0.28
40 20 0.17
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:65998553 original size:39 final size:39
Alignment explanation
Indices: 65998457--65998674 Score: 205
Period size: 38 Copynumber: 5.6 Consensus size: 39
65998447 TCCTCGTTCA
* * *
65998457 AATGCCTTCGGGACATAGCCCGG-TTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
65998495 AATGCCTTCGGGACATAACCCGGATTTA-TAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
65998533 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
65998573 AAAGGCCTTCGGG-CTT-ACCCGGAATT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
** * * * *
65998610 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
65998651 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
65998675 CAGCATTCAA
Statistics
Matches: 153, Mismatches: 18, Indels: 16
0.82 0.10 0.09
Matches are distributed among these distances:
36 2 0.01
37 20 0.13
38 43 0.28
39 40 0.26
40 40 0.26
41 8 0.05
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:65998634 original size:77 final size:76
Alignment explanation
Indices: 65998455--65998674 Score: 230
Period size: 77 Copynumber: 2.8 Consensus size: 76
65998445 GCTCCTCGTT
* * * *
65998455 CAAATGCCTTCGGGACATAGCCCGG-TTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGT-ACTCGCACAAAGCCTTCGGGAC-TTACCCGGA
*
65998519 TTTATAACTCGCA
64 ATTATAACTCGCA
* *
65998532 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGG-CTTACCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTA-CTCGCACAAA-GCCTTCGGGACTTACCCGGA
* *
65998596 ATTGTATCTCGCA
64 ATTATAACTCGCA
* * * *
65998609 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGT-AC-TCGCACAAAGCCTTCGGGACTTA-CCCG
65998673 GA
62 GA
65998675 CAGCATTCAA
Statistics
Matches: 120, Mismatches: 15, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
76 3 0.03
77 74 0.62
78 28 0.23
79 15 0.12
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.25
Consensus pattern (76 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTACTCGCACAAAGCCTTCGGGACTTACCCGGAAT
TATAACTCGCA
Found at i:65998683 original size:41 final size:41
Alignment explanation
Indices: 65998606--65998683 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
65998596 ATTGTATCTC
* * *
65998606 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
65998647 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
65998684 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:65999688 original size:53 final size:53
Alignment explanation
Indices: 65999624--65999736 Score: 185
Period size: 53 Copynumber: 2.1 Consensus size: 53
65999614 TTTATTAGTA
65999624 TGCCATCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCAT-ACATGTTT
1 TGCCATCTTCTTATTTTATTCTTCCATTAACACAACATG-TTCATGACATGTTT
*
65999677 T-CCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTCATGACATGTTT
1 TGCCAT-CTTCTTATTTTATTCTTCCATTAACACAACATGTTCATGACATGTTT
65999730 TGCCATC
1 TGCCATC
65999737 ATCCCTTGTC
Statistics
Matches: 56, Mismatches: 1, Indels: 6
0.89 0.02 0.10
Matches are distributed among these distances:
52 9 0.16
53 43 0.77
54 4 0.07
ACGTcount: A:0.24, C:0.23, G:0.07, T:0.46
Consensus pattern (53 bp):
TGCCATCTTCTTATTTTATTCTTCCATTAACACAACATGTTCATGACATGTTT
Found at i:66001765 original size:39 final size:39
Alignment explanation
Indices: 66001592--66001815 Score: 195
Period size: 40 Copynumber: 5.7 Consensus size: 39
66001582 TTGAATGCTG
* * ** *
66001592 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGT-TCTAAA
** *
66001632 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAG-TTCTAAA
* * *
66001671 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 -TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAG-TTCTAAA
* *
66001712 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTCTAAA
* *
66001751 TCCGGGTTATGTCCCGAAGGCA-TTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTT-CTAAA
* * *
66001790 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
66001816 AACGAGGAGC
Statistics
Matches: 157, Mismatches: 19, Indels: 16
0.82 0.10 0.08
Matches are distributed among these distances:
38 9 0.06
39 52 0.33
40 84 0.54
41 12 0.08
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTCTAAA
Found at i:66001804 original size:78 final size:80
Alignment explanation
Indices: 66001645--66001813 Score: 216
Period size: 78 Copynumber: 2.1 Consensus size: 80
66001635 GGACTAAGAT
* *
66001645 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTA
1 CCGAAGGCATTCGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCATTGTGCGAGATACTA
* *
66001710 AATCCGGGTTAAGTC
66 AAACCGGGCTAAGTC
* ** * * * *
66001725 CCGAAGGCATTCGTGCGAGTTTTAAA-TCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTA
1 CCGAAGGCATTCGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCATTGTGCGAGATACTA
*
66001788 AAACCGGGCTATGTC
66 AAACCGGGCTAAGTC
66001803 CCGAAGGCATT
1 CCGAAGGCATT
66001814 TGAACGAGGA
Statistics
Matches: 77, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
78 37 0.48
79 18 0.23
80 22 0.29
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGAAGGCATTCGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCATTGTGCGAGATACTA
AAACCGGGCTAAGTC
Found at i:66009117 original size:39 final size:39
Alignment explanation
Indices: 66009015--66009192 Score: 198
Period size: 39 Copynumber: 4.5 Consensus size: 39
66009005 GTGCTATGAT
66009015 TTAAGATCCGAAGGCATTTGTGCGAGATAC-AAATTCCGGG
1 TTAAG-TCCGAAGGCATTTGTGCGAGATACTAAA-TCCGGG
* *
66009055 TTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGG
1 TTAAG-TCCGAAGGCATTTGTGCGAGATACTAAATCCGGG
* * *
66009095 TTAAGTCCGAAGGCATTCGTGCGAGTTATTAAATCCGGG
1 TTAAGTCCGAAGGCATTTGTGCGAGATACTAAATCCGGG
* * * *
66009134 TTATGTCCCGAAGGCA-TTGTGTGAGTTACTAAAACCGGG
1 TTAAGT-CCGAAGGCATTTGTGCGAGATACTAAATCCGGG
* *
66009173 CTATGTCCCGAAGGCATTTG
1 TTAAGT-CCGAAGGCATTTG
66009193 AACGAGGAGC
Statistics
Matches: 121, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
39 68 0.56
40 50 0.41
41 3 0.02
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (39 bp):
TTAAGTCCGAAGGCATTTGTGCGAGATACTAAATCCGGG
Found at i:66009184 original size:79 final size:79
Alignment explanation
Indices: 66009016--66009190 Score: 210
Period size: 79 Copynumber: 2.2 Consensus size: 79
66009006 TGCTATGATT
* *
66009016 TAAGATCCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAG
1 TAAG-TCCGAAGGCATTCGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCATTGTGCGAG
* *
66009081 ATACTAAATCCGGGT
65 ATACTAAAACCGGGC
* * * * *
66009096 TAAGTCCGAAGGCATTCGTGCGAGTTATTAAA-TCCGGGTTATGTCCCGAAGG-CATTGTGTGAG
1 TAAGTCCGAAGGCATTCGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCCATTGTGCGAG
*
66009159 TTACTAAAACCGGGC
65 ATACTAAAACCGGGC
*
66009174 TATGTCCCGAAGGCATT
1 TAAGT-CCGAAGGCATT
66009191 TGAACGAGGA
Statistics
Matches: 82, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
78 25 0.30
79 50 0.61
80 7 0.09
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
TAAGTCCGAAGGCATTCGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCATTGTGCGAGA
TACTAAAACCGGGC
Found at i:66014197 original size:5 final size:5
Alignment explanation
Indices: 66014187--66014226 Score: 57
Period size: 5 Copynumber: 8.4 Consensus size: 5
66014177 ATTTGTGAAA
*
66014187 AAAAT AAAAT AAAAT AAAAT -AAAG AAAA- AAAAT AAAAT AA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AA
66014227 CACACAAATT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
4 7 0.22
5 25 0.78
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (5 bp):
AAAAT
Found at i:66014202 original size:10 final size:10
Alignment explanation
Indices: 66014187--66014226 Score: 57
Period size: 9 Copynumber: 4.2 Consensus size: 10
66014177 ATTTGTGAAA
66014187 AAAATAAAAT
1 AAAATAAAAT
66014197 AAAATAAAAT
1 AAAATAAAAT
*
66014207 -AAAGAAAA-
1 AAAATAAAAT
66014215 AAAATAAAAT
1 AAAATAAAAT
66014225 AA
1 AA
66014227 CACACAAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
9 14 0.54
10 12 0.46
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (10 bp):
AAAATAAAAT
Found at i:66015145 original size:16 final size:16
Alignment explanation
Indices: 66015126--66015157 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
66015116 TAATTATTCA
66015126 ATTGTCACCTTATAAT
1 ATTGTCACCTTATAAT
66015142 ATTGTCACCTTATAAT
1 ATTGTCACCTTATAAT
66015158 TTAAATGTAA
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:0.31, C:0.19, G:0.06, T:0.44
Consensus pattern (16 bp):
ATTGTCACCTTATAAT
Found at i:66035886 original size:46 final size:46
Alignment explanation
Indices: 66035835--66036007 Score: 158
Period size: 46 Copynumber: 3.7 Consensus size: 46
66035825 TTGGGCATCC
66035835 GAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCT
1 GAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCT
* * * * *
66035881 GAACTCATTGAGTTGGGTCCGAGTTC-GTGA--GATG-TAACTAGGCATCC
1 GAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---G--TCT
* * *
66035928 GAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAAC-TCCT
1 GAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGT-CT
* * *
66035974 GAGCTCATTGAGTTGAGTCCAAGTTCTCTTATGG
1 GAACTCATTGAGTTGAGTCCGAGTTCACTTATGG
66036008 GCGGGTTACA
Statistics
Matches: 101, Mismatches: 16, Indels: 20
0.74 0.12 0.15
Matches are distributed among these distances:
42 3 0.03
43 4 0.04
45 4 0.04
46 57 0.56
47 25 0.25
48 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.31
Consensus pattern (46 bp):
GAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCT
Found at i:66035941 original size:93 final size:93
Alignment explanation
Indices: 66035828--66035999 Score: 274
Period size: 93 Copynumber: 1.8 Consensus size: 93
66035818 TGGATATTTG
*
66035828 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGT-CTGAACTCATTGA
1 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATACGAAC-TCCTGAACTCATTGA
* *
66035892 GTTGGGTCCGAGTTCGTGAGATGTAACTA
65 GTTGAGTCCAAGTTCGTGAGATGTAACTA
* * *
66035921 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACTCCTGAGCTCATTGAG
1 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATACGAACTCCTGAACTCATTGAG
66035986 TTGAGTCCAAGTTC
66 TTGAGTCCAAGTTC
66036000 TCTTATGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 1 0.01
93 71 0.99
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (93 bp):
GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATACGAACTCCTGAACTCATTGAG
TTGAGTCCAAGTTCGTGAGATGTAACTA
Found at i:66039991 original size:43 final size:42
Alignment explanation
Indices: 66039943--66040089 Score: 170
Period size: 43 Copynumber: 3.4 Consensus size: 42
66039933 TAACCTAGAT
* * **
66039943 ATGGTCTTACATGTTATCATATATCAATGCCAACATCCCAGAC
1 ATGGTCTTACATGTAATCATATA-CAATGCAAATGTCCCAGAC
*** * *
66039986 ATGGTCTTACACAAAATCATATAACGATGCTAATGTCCCAGAC
1 ATGGTCTTACATGTAATCATAT-ACAATGCAAATGTCCCAGAC
66040029 ATGGTCTTACATGTAATCCCA-ATACAATGCAAATGTCCCAGAC
1 ATGGTCTTACATGTAAT--CATATACAATGCAAATGTCCCAGAC
66040072 ATGGTCTTACATGTAATC
1 ATGGTCTTACATGTAATC
66040090 TCATCTCGAT
Statistics
Matches: 88, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
41 1 0.01
43 82 0.93
44 3 0.03
45 2 0.02
ACGTcount: A:0.34, C:0.24, G:0.14, T:0.29
Consensus pattern (42 bp):
ATGGTCTTACATGTAATCATATACAATGCAAATGTCCCAGAC
Found at i:66041702 original size:11 final size:11
Alignment explanation
Indices: 66041686--66041710 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
66041676 TGTTAGCTCG
66041686 TTTTGAATTTA
1 TTTTGAATTTA
66041697 TTTTGAATTTA
1 TTTTGAATTTA
66041708 TTT
1 TTT
66041711 CATTTTAGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.24, C:0.00, G:0.08, T:0.68
Consensus pattern (11 bp):
TTTTGAATTTA
Found at i:66043553 original size:11 final size:11
Alignment explanation
Indices: 66043537--66043562 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
66043527 AACTAAAATG
66043537 AAATAAATTCA
1 AAATAAATTCA
66043548 AAATAAATTCA
1 AAATAAATTCA
66043559 AAAT
1 AAAT
66043563 GAGCAAACAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.65, C:0.08, G:0.00, T:0.27
Consensus pattern (11 bp):
AAATAAATTCA
Found at i:66047902 original size:11 final size:11
Alignment explanation
Indices: 66047886--66047911 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
66047876 AACTAAAATG
66047886 AAATAAATTCA
1 AAATAAATTCA
66047897 AAATAAATTCA
1 AAATAAATTCA
66047908 AAAT
1 AAAT
66047912 GAGCAAACAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.65, C:0.08, G:0.00, T:0.27
Consensus pattern (11 bp):
AAATAAATTCA
Found at i:66055966 original size:44 final size:44
Alignment explanation
Indices: 66055903--66055991 Score: 169
Period size: 44 Copynumber: 2.0 Consensus size: 44
66055893 AAGAAGCTAC
66055903 TTTGGAAAAGGAAAGTTTAAAGAAAGAACAATACACTGAAATTT
1 TTTGGAAAAGGAAAGTTTAAAGAAAGAACAATACACTGAAATTT
*
66055947 TTTGGAAAATGAAAGTTTAAAGAAAGAACAATACACTGAAATTT
1 TTTGGAAAAGGAAAGTTTAAAGAAAGAACAATACACTGAAATTT
66055991 T
1 T
66055992 CACAAGTATA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.49, C:0.07, G:0.17, T:0.27
Consensus pattern (44 bp):
TTTGGAAAAGGAAAGTTTAAAGAAAGAACAATACACTGAAATTT
Found at i:66057275 original size:65 final size:63
Alignment explanation
Indices: 66057153--66057300 Score: 197
Period size: 65 Copynumber: 2.3 Consensus size: 63
66057143 ACGGGCACCA
* * * *
66057153 GACATGCCCGTGTGCCAGGTTGTGTGAAATTTAGGGAGGTTACTGACTTGTACCACACGGCCAAG
1 GACACGCCCATGTGCCAGGCTGTGTGAAATTTAGGGAGGTTACTGACTTGGACCACACGGCC--G
**
66057218 GACACGCCCATGTGCCAGGCTGTGTGAAATTTAGGGAGGTTACTGACTTGGGTCACACGGCCG
1 GACACGCCCATGTGCCAGGCTGTGTGAAATTTAGGGAGGTTACTGACTTGGACCACACGGCCG
*
66057281 GCCACACGCCTATGTGCCAG
1 G--ACACGCCCATGTGCCAG
66057301 CCCGTGTGCC
Statistics
Matches: 74, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
63 2 0.03
65 72 0.97
ACGTcount: A:0.22, C:0.25, G:0.31, T:0.22
Consensus pattern (63 bp):
GACACGCCCATGTGCCAGGCTGTGTGAAATTTAGGGAGGTTACTGACTTGGACCACACGGCCG
Found at i:66059315 original size:28 final size:27
Alignment explanation
Indices: 66059230--66059319 Score: 76
Period size: 27 Copynumber: 3.2 Consensus size: 27
66059220 GTGACAGAGT
* *
66059230 CACCAGATACAGATATTTTATGGCAGTGC
1 CACCAGA-ACAGATAATTTGTGGCA-TGC
* * *
66059259 CACTAGAACAGATACA--CGTGGCAGGGC
1 CACCAGAACAGATA-ATTTGTGGCA-TGC
66059286 CACCAGAACAGATAATTTGTGGCATAGC
1 CACCAGAACAGATAATTTGTGGCAT-GC
66059314 CACCAG
1 CACCAG
66059320 GACGCTTCCT
Statistics
Matches: 49, Mismatches: 8, Indels: 9
0.74 0.12 0.14
Matches are distributed among these distances:
26 1 0.02
27 21 0.43
28 21 0.43
29 6 0.12
ACGTcount: A:0.33, C:0.24, G:0.23, T:0.19
Consensus pattern (27 bp):
CACCAGAACAGATAATTTGTGGCATGC
Found at i:66059553 original size:28 final size:28
Alignment explanation
Indices: 66059425--66059545 Score: 197
Period size: 28 Copynumber: 4.3 Consensus size: 28
66059415 AAATTAACCC
* * **
66059425 TAGGGGTATAAAGGTCATTTTGCACGCA
1 TAGGGGTATAATGGTAATTTTGCATACA
66059453 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
*
66059481 TAGGGGTATAATGGTAATTTTACATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
66059509 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
66059537 TAGGGGTAT
1 TAGGGGTAT
66059546 TCTAGTAAAT
Statistics
Matches: 87, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 87 1.00
ACGTcount: A:0.31, C:0.08, G:0.26, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAATGGTAATTTTGCATACA
Found at i:66060632 original size:12 final size:13
Alignment explanation
Indices: 66060613--66060645 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
66060603 GGGTTCGGCT
66060613 ATGGAGAAGGAAG
1 ATGGAGAAGGAAG
*
66060626 A-GGAGAAGGTAG
1 ATGGAGAAGGAAG
66060638 ATGGAGAA
1 ATGGAGAA
66060646 AAAGAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.45, C:0.00, G:0.45, T:0.09
Consensus pattern (13 bp):
ATGGAGAAGGAAG
Found at i:66068687 original size:450 final size:450
Alignment explanation
Indices: 66067846--66068744 Score: 1710
Period size: 450 Copynumber: 2.0 Consensus size: 450
66067836 TCGAATATAT
*
66067846 TGGTTGAACCAATCATTCATTACGCTATAGAAAGCTTGTCTAGCTTCTTCATTCGGATTACTAGC
1 TGGTTGAACCAATCATTCATTACGCTATAGAAAGCTTGTCTAGCTTCGTCATTCGGATTACTAGC
*
66067911 AATCGATTGAGAGTCTGCCGGAGATGTCCCTTGTGCGGGAGCAGGCGCCACACTCTCAAGATCAT
66 AATCGATTGAGAGTCTGCCGGAGATGTCCCTTATGCGGGAGCAGGCGCCACACTCTCAAGATCAT
66067976 CAGCTACCGCTCGGTCGGGATCGGGATCCATTACTATAAATAAACACATTTTCAATCGTCAGAAA
131 CAGCTACCGCTCGGTCGGGATCGGGATCCATTACTATAAATAAACACATTTTCAATCGTCAGAAA
66068041 TCACCACACTATCAAATAATCACAAAATGGCATGTATAGCTAGACCCAAACGTATTACGGTAGTC
196 TCACCACACTATCAAATAATCACAAAATGGCATGTATAGCTAGACCCAAACGTATTACGGTAGTC
66068106 CTAGAATCGACTAAACCGTAGCTCTGATACCAATAAAATTGTAACACCCCGTACCCGAGTCCGTC
261 CTAGAATCGACTAAACCGTAGCTCTGATACCAATAAAATTGTAACACCCCGTACCCGAGTCCGTC
66068171 GCCGGAGTCGGACACAAGGGGTTTGCAGACTTAAATCACTTCTTTGCACAATCCATTTTAAATTT
326 GCCGGAGTCGGACACAAGGGGTTTGCAGACTTAAATCACTTCTTTGCACAATCCATTTTAAATTT
*
66068236 TCCAGGTAAGCTGGCTAACTGCGTCACTGTCACCTTAAAAATCATATCTTGAGTTTCACG
391 TCCAGGCAAGCTGGCTAACTGCGTCACTGTCACCTTAAAAATCATATCTTGAGTTTCACG
66068296 TGGTTGAACCAATCATTCATTACGCTATAGAAAGCTTGTCTAGCTTCGTCATTCGGATTACTAGC
1 TGGTTGAACCAATCATTCATTACGCTATAGAAAGCTTGTCTAGCTTCGTCATTCGGATTACTAGC
* *
66068361 AATCGGTTGAGAGTCTGCCGGAGCTGTCCCTTATGCGGGAGCAGGCGCCACACTCTCAAGATCAT
66 AATCGATTGAGAGTCTGCCGGAGATGTCCCTTATGCGGGAGCAGGCGCCACACTCTCAAGATCAT
66068426 CAGCTACCGCTCGGTCGGGATCGGGATCCATTACTATAAATAAACACATTTTCAATCGTCAGAAA
131 CAGCTACCGCTCGGTCGGGATCGGGATCCATTACTATAAATAAACACATTTTCAATCGTCAGAAA
66068491 TCACCACACTATCAAATAATCACAAAATGGCATGTATAGCTAGACCCAAACGTATTACGGTAGTC
196 TCACCACACTATCAAATAATCACAAAATGGCATGTATAGCTAGACCCAAACGTATTACGGTAGTC
66068556 CTAGAATCGACTAAACCGTAGCTCTGATACCAATAAAATTGTAACACCCCGTACCCGAGTCCGTC
261 CTAGAATCGACTAAACCGTAGCTCTGATACCAATAAAATTGTAACACCCCGTACCCGAGTCCGTC
66068621 GCCGGAGTCGGACACGAA-GGGTTTGCAGACTTAAATCACTTCTTTGCACAATCCATTTTAAATT
326 GCCGGAGTCGGACAC-AAGGGGTTTGCAGACTTAAATCACTTCTTTGCACAATCCATTTTAAATT
* * *
66068685 TTCCAGGCAAGCTGGCTAACTGCGTCACTTTTACCTTCAAAATCATATCTTGAGTTTCAC
390 TTCCAGGCAAGCTGGCTAACTGCGTCACTGTCACCTTAAAAATCATATCTTGAGTTTCAC
66068745 AACTCAAAAA
Statistics
Matches: 440, Mismatches: 8, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
450 438 1.00
451 2 0.00
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (450 bp):
TGGTTGAACCAATCATTCATTACGCTATAGAAAGCTTGTCTAGCTTCGTCATTCGGATTACTAGC
AATCGATTGAGAGTCTGCCGGAGATGTCCCTTATGCGGGAGCAGGCGCCACACTCTCAAGATCAT
CAGCTACCGCTCGGTCGGGATCGGGATCCATTACTATAAATAAACACATTTTCAATCGTCAGAAA
TCACCACACTATCAAATAATCACAAAATGGCATGTATAGCTAGACCCAAACGTATTACGGTAGTC
CTAGAATCGACTAAACCGTAGCTCTGATACCAATAAAATTGTAACACCCCGTACCCGAGTCCGTC
GCCGGAGTCGGACACAAGGGGTTTGCAGACTTAAATCACTTCTTTGCACAATCCATTTTAAATTT
TCCAGGCAAGCTGGCTAACTGCGTCACTGTCACCTTAAAAATCATATCTTGAGTTTCACG
Found at i:66070009 original size:39 final size:40
Alignment explanation
Indices: 66069964--66070131 Score: 106
Period size: 40 Copynumber: 4.2 Consensus size: 40
66069954 CGGGGTTTAG
* * *
66069964 CCGGATATAACCACTCGCA-CAAGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
*** * *
66070003 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
** * * * **
66070043 CCGGATATAGTCGCTAGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGA-CTTAAC
* ** * * * *
66070083 CCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAACCAC-TAGCATAAAGGCCTTCGGGACTTAAC
66070124 CCGGATAT
1 CCGGATAT
66070132 CATTCGAGTA
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
39 18 0.17
40 61 0.56
41 27 0.25
42 3 0.03
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
Found at i:66070114 original size:41 final size:40
Alignment explanation
Indices: 66069987--66070131 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
66069977 CTCGCACAAG
* * * * *
66069987 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
66070027 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
66070067 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
66070108 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
66070132 CATTCGAGTA
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 3 0.03
40 59 0.64
41 27 0.29
42 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:66075406 original size:24 final size:24
Alignment explanation
Indices: 66075374--66075421 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
66075364 ATACAATTTG
66075374 ACATGTCACTGGAACTATATGAGT
1 ACATGTCACTGGAACTATATGAGT
66075398 ACATGTCACTGGAACTATATGAGT
1 ACATGTCACTGGAACTATATGAGT
66075422 TGAACTCATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (24 bp):
ACATGTCACTGGAACTATATGAGT
Found at i:66082869 original size:81 final size:82
Alignment explanation
Indices: 66082744--66082942 Score: 253
Period size: 81 Copynumber: 2.5 Consensus size: 82
66082734 CGATTCTTAA
* * *
66082744 CACTGGCTC-AAAGCCCTTCGAGACCAAGCTCGGATTAGGCCACTGGCTCGAAGGCCCTTCGGAA
1 CACTGGCTCAAAAGCCCTTCGAAACCAAGCTCGGATTAGGCCACTGGCTCAAAAGCCCTTCGGAA
66082808 CTAAGTCCGGTTATGA-
66 CTAAGTCCGGTTATGAG
* * * *
66082824 CATTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTA-G-CACTGGCTCAAAAGCCCTTCGT
1 CACTGGCTCAAAAGCCCTTCGAAACCAAGCTCGG--ATTAGGCCACTGGCTCAAAAGCCCTTCGG
* * *
66082887 AATTAAGTTCGGTTATTAG
64 AACTAAGTCCGGTTATGAG
*
66082906 CACTGGCTCAAAAGCCCTTCGAACCCAAGCTCGGATT
1 CACTGGCTCAAAAGCCCTTCGAAACCAAGCTCGGATT
66082943 TACACCCCGA
Statistics
Matches: 101, Mismatches: 14, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
80 11 0.11
81 55 0.54
82 31 0.31
83 4 0.04
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (82 bp):
CACTGGCTCAAAAGCCCTTCGAAACCAAGCTCGGATTAGGCCACTGGCTCAAAAGCCCTTCGGAA
CTAAGTCCGGTTATGAG
Found at i:66082884 original size:41 final size:41
Alignment explanation
Indices: 66082744--66082928 Score: 225
Period size: 41 Copynumber: 4.6 Consensus size: 41
66082734 CGATTCTTAA
* * *
66082744 CACTGGCTC-AAAGCCCTTCGAGACCAAGCTCGG--ATTAGG
1 CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTA-G
* * * * *
66082783 CCACTGGCTCGAAGGCCCTTCGGAACTAAGTCCGGTTATGA-
1 -CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTAG
*
66082824 CATTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTAG
1 CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTAG
* *
66082865 CACTGGCTCAAAAGCCCTTCGTAATTAAGTTCGGTTATTAG
1 CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTAG
66082906 CACTGGCTCAAAAGCCCTTCGAA
1 CACTGGCTCAAAAGCCCTTCGAA
66082929 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:66093387 original size:77 final size:77
Alignment explanation
Indices: 66093277--66093422 Score: 186
Period size: 77 Copynumber: 1.9 Consensus size: 77
66093267 AGGGGATATA
* * * * *
66093277 TTGAGTTGGCTTTGGGCCATGAAATTAGCACTTCGGGTATGAGTTATAC-TGATTTGGCTTCGAG
1 TTGAGTTGGCTTTGGGCAATGAAATCAGCACTTCGGATATAAGTTA-ACTTAATTTGGCTTCGAG
66093341 CCATGAATATAGG
65 CCATGAATATAGG
* * * * *
66093354 TTGATTTGGCTTTGGGCAATGATATCAGTACTTCGGATATAAGTTACCTTAATTTGGCTTCGGGC
1 TTGAGTTGGCTTTGGGCAATGAAATCAGCACTTCGGATATAAGTTAACTTAATTTGGCTTCGAGC
66093419 CATG
66 CATG
66093423 GTATAGTTAC
Statistics
Matches: 58, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
76 1 0.02
77 57 0.98
ACGTcount: A:0.23, C:0.15, G:0.27, T:0.36
Consensus pattern (77 bp):
TTGAGTTGGCTTTGGGCAATGAAATCAGCACTTCGGATATAAGTTAACTTAATTTGGCTTCGAGC
CATGAATATAGG
Found at i:66095983 original size:17 final size:16
Alignment explanation
Indices: 66095957--66095988 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
66095947 GGATTAGCCA
66095957 TTTTGCGAACTCTAGT
1 TTTTGCGAACTCTAGT
66095973 TTTTGGCGAACTCTAG
1 TTTT-GCGAACTCTAG
66095989 GTTTGGCAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.19, C:0.19, G:0.22, T:0.41
Consensus pattern (16 bp):
TTTTGCGAACTCTAGT
Found at i:66095993 original size:16 final size:17
Alignment explanation
Indices: 66095961--66095995 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
66095951 TAGCCATTTT
*
66095961 GCGAACTCTAGTTTTTG
1 GCGAACTCTAGTGTTTG
66095978 GCGAACTCTAG-GTTTG
1 GCGAACTCTAGTGTTTG
66095994 GC
1 GC
66095996 AGACTCTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.17, C:0.20, G:0.29, T:0.34
Consensus pattern (17 bp):
GCGAACTCTAGTGTTTG
Found at i:66096472 original size:782 final size:785
Alignment explanation
Indices: 66094966--66097531 Score: 3700
Period size: 786 Copynumber: 3.3 Consensus size: 785
66094956 TCTTACAGGT
* *
66094966 AATTTTAATGAACA-AA-AGATACACTCAACTTTTCACAAGTATAAATATTAAGGATGGAATTTT
1 AATTTTAATGAA-AGAACA-ATACACTCAACTTTTCACAAGTATAAATATCAAGGATGAAATTTT
* * * **
66095029 CTAAGTGGGGAAGAATTGTAACTGTCTGCCCGGCAGAGACCTAATATTCAGTTATT-TTCTGGTG
64 CTAAGTGGGGGAGAATTGTAACTGTCTGCCCGGCAGAGACCCAATATTAAGTTATTGTT-TGGCA
* * * *
66095093 TATAATTGGTAAAGTCAATGGTAAAATTGAGTAAGTAACA-TATTTGT-TTTGGCTACATAAAGC
128 TATAATTGGTAAAGTCAAGGGTAGAATTGAGTAAGTAA-AGTATTT-TATTTGGCTAAATAGAGC
* *
66095156 ACTTTGTGGGATTAGCCATTTTGCGAACTCCAATTTTTGGCGAGCTCTAGTGTTTGGCAGACTCT
191 ACTTTGTGGGATTAGCCATTTTGCGAACTCAAATTTTTGGCGAACTCTAG-GTTTGGCAGACTCT
* *
66095221 TTAGCAAAGTATCCACCCACCCCAATTGTTTTGAAAGAACTCGTTAAGTTCACATTTTGATTAGA
255 TTAGCAAAGTATCCACCCACCCCAAATGTTTTGAAAGAACTCGTTAAGTTCACAATTTGATTAGA
66095286 CTTGTTTTATATTTAGTGTTTGATGACTTAGAAAGTAATGTTTGGATTTAGTTAAGACTTAGTTA
320 CTTGTTTTATATTTAGTGTTTGATGACTTAGAAAGTAATGTTTGGATTTAGTTAAGACTTAGTTA
* * * * * * *
66095351 GAACCGAGCTAGAATTCTATAGATGATTTGACCTAAAACCTGTTAAGTGCATTTAATCATGGGAA
385 GAACCAAACTAGAATTCTGTAGATGATTTGACCTAAAACTTCTTAAGAGCGTTTAATCATGGGAA
* * * * *
66095416 TCAAAGGTGTCAATGGAATTATCTGATTTTTCCACCAAACCTTGTC-TCTGTTTCTTGAGTATGT
450 TCAAGGGTGTCAATGGAATTATTTGATTTTTCCACTAAACCTTGTCTTC-GTTTCATGAGTATAT
* * *
66095480 AAGGATAATGTTGGCCATCAAGAGTTGGTATTACCACAAGAACTATCGAAA-ACTCACAATGTGT
514 AAGGATAATGTTGGCCATCAAGAGTTGGAATTACCACCAGAACTATC-AAAGATTCACAATGTGT
* * **
66095544 TCCACATGTCTATGTCATGAAGGTATTGATTAAATCCAGATAATGTGGTACAAA-TAGAAGACAT
578 TCCACATGTCTATGTTACGAAGGTATTGACCAAATCCAGATAATGTGGTACAAATTA-AAGACAT
*
66095608 AGAAGTAGAGCCAAATCTATCTTATGAAGAGGAGCTTGTTTGCATTTTAGCTAAAGAAGTGAAAG
642 AGAAGTAGAGCCAAATCTATCTTATGAAGAGGAGCTTGTTTGCATTTTAGCCAAAGAAGTGAAAG
66095673 AGTTAAGAAATAAGAGGATCGCATTAGTAAAAGTGTTAT-GAGGAATCATAATGA-AGAAGAAGC
707 AGTTAAGAAATAAGAGGATCGCATTAGTAAAAGTGTTATGGAGGAATCATAAT-ATAGAAGAAGC
* * *
66095736 TACTTCGAAAATGGA
771 TACTTGGGAAAGGGA
* * *
66095751 AATTTTAATGAAAGAACAATACACTCAACTTTTCACAAGTATAAATATAAATGATGAAATTTTTT
1 AATTTTAATGAAAGAACAATACACTCAACTTTTCACAAGTATAAATATCAAGGATGAAATTTTCT
*
66095816 AAGTGGGGGAGAATTGTAACTGACTGCCCGGCAGAGACCCAATATTAAGTTATTGTTTGGCATAT
66 AAGTGGGGGAGAATTGTAACTGTCTGCCCGGCAGAGACCCAATATTAAGTTATTGTTTGGCATAT
* * *
66095881 AATTGGTAAAGTAAAGGGCAGAATTGAGTAAGTAAAGTA-TTT-TTTGGCTAAATAGAGCATTTT
131 AATTGGTAAAGTCAAGGGTAGAATTGAGTAAGTAAAGTATTTTATTTGGCTAAATAGAGCACTTT
* *
66095944 GTGGGATTAGCCATTTTGCGAACTCTAGTTTTTGGCGAACTCTAGGTTTGGCAGACTCTTTAGCA
196 GTGGGATTAGCCATTTTGCGAACTCAAATTTTTGGCGAACTCTAGGTTTGGCAGACTCTTTAGCA
* * * *
66096009 AAGTATCCACCCACCCCAAATGTTTTAAAAGAACTTGTTAAGTTCACAATTAGATTAGGCTTGTT
261 AAGTATCCACCCACCCCAAATGTTTTGAAAGAACTCGTTAAGTTCACAATTTGATTAGACTTGTT
* * *
66096074 TTATGTTTAGTGTTTGATGACTTAGAAAGTAATTTTTGGATTTAGTTAAGACTTAGTTAGAATCA
326 TTATATTTAGTGTTTGATGACTTAGAAAGTAATGTTTGGATTTAGTTAAGACTTAGTTAGAACCA
66096139 AACTAGAATTCTGTAGATGATTTGACCTAAAACTTCTTAAGAGCGTTTAAGT-A-GGGCAATCAA
391 AACTAGAATTCTGTAGATGATTTGACCTAAAACTTCTTAAGAGCGTTTAA-TCATGGG-AATCAA
* * *
66096202 GGGTGTTAATGGAATTATTTGATTTTTCCACTAAACTTTGTCTTCGTTTCATGAGTTTATAAGGA
454 GGGTGTCAATGGAATTATTTGATTTTTCCACTAAACCTTGTCTTCGTTTCATGAGTATATAAGGA
* *
66096267 TAATGTTGGTCATCAAGAGTTGGAATTACCACCAGAAATATCAAAGATTCACAATGTGTTCCACA
519 TAATGTTGGCCATCAAGAGTTGGAATTACCACCAGAACTATCAAAGATTCACAATGTGTTCCACA
* *
66096332 TTTCTATGTTACGAAGGTATTGACCAAATCCAGATAATGTGGTTCAAATTAAAGACATAGAAGTA
584 TGTCTATGTTACGAAGGTATTGACCAAATCCAGATAATGTGGTACAAATTAAAGACATAGAAGTA
* * * *
66096397 AAGCCAAATCTATCTTATGTAGAGGAGCCTGTTTGCATTTTAGCCAAAGAAGTGGAAGAGTTAAG
649 GAGCCAAATCTATCTTATGAAGAGGAGCTTGTTTGCATTTTAGCCAAAGAAGTGAAAGAGTTAAG
* * * * *
66096462 AAATAAGAGGATTGCCTTAGTAAAAATGTTATGGAAGAATCATCATATAGAAGAAGCTACTTGGG
714 AAATAAGAGGATCGCATTAGTAAAAGTGTTATGGAGGAATCATAATATAGAAGAAGCTACTTGGG
66096527 AAAGGGA
779 AAAGGGA
* * *
66096534 AAGTTTAATGAAAGAAAAATACACTCAACTTTTCACAAGTATAAATATCAAGAATGAAATTTTCT
1 AATTTTAATGAAAGAACAATACACTCAACTTTTCACAAGTATAAATATCAAGGATGAAATTTTCT
** * * * * * *
66096599 AAGTGGAAGAGAATTTTAACTGTCTGCCTGGTAGAGACCAAATATTCAA-TTATTTTTTGGCGTA
66 AAGTGGGGGAGAATTGTAACTGTCTGCCCGGCAGAGACCCAATATT-AAGTTATTGTTTGGCATA
* *
66096663 CAATTGGTAAAGTCAAGGGTAGAATTGAGTAAGTAAAGTATTTTCTTTGGCTAAATAGAGCACTT
130 TAATTGGTAAAGTCAAGGGTAGAATTGAGTAAGTAAAGTATTTTATTTGGCTAAATAGAGCACTT
* * * *
66096728 TGTGGGATTACCCATTTTGCAAACTCAAATTTTTGGTGAACTCTAGGGTTTGGCAGACTATTTAG
195 TGTGGGATTAGCCATTTTGCGAACTCAAATTTTTGGCGAACTCTA-GGTTTGGCAGACTCTTTAG
* * * * * *
66096793 CTAACTGGAT--ACCCACCCCAAATGTTTTGAAAGAACTCGTTATGTTTACAGTTTGAATAGACT
259 C-AA-AGTATCCACCCACCCCAAATGTTTTGAAAGAACTCGTTAAGTTCACAATTTGATTAGACT
* * * * * *
66096856 TGTTTTATATTTAATGTTTAATTACTTAGAAAATACTGTTTGAATTTAGTTAAGACTTAGTTAGA
322 TGTTTTATATTTAGTGTTTGATGACTTAGAAAGTAATGTTTGGATTTAGTTAAGACTTAGTTAGA
* * *
66096921 ACCAGACTAGAATTCTGTAGATGATTTGAACTAAAACTTCTTAAGTA-CGTTTAATCATAGGAAT
387 ACCAAACTAGAATTCTGTAGATGATTTGACCTAAAACTTCTTAAG-AGCGTTTAATCATGGGAAT
* * *
66096985 CAAGGGTGTCAATGGAATT-TTATGATTGTTCCACTAAACCTTGTCTCCATTTCATGAGTATATA
451 CAAGGGTGTCAATGGAATTATT-TGATTTTTCCACTAAACCTTGTCTTCGTTTCATGAGTATATA
* ** *
66097049 AGGATAATGTTGGCCATCAAGAGTTAGCTTTACCACCAGAACTATCGAAGATTCACAATGTGTTC
515 AGGATAATGTTGGCCATCAAGAGTTGGAATTACCACCAGAACTATCAAAGATTCACAATGTGTTC
* * *
66097114 CACGTGTCTATGTTACGAAGGTATTGACCAAATCCAGATAATGTGGTACAAATTGAAGACACAGA
580 CACATGTCTATGTTACGAAGGTATTGACCAAATCCAGATAATGTGGTACAAATTAAAGACATAGA
*
66097179 AGTAGAGCCAAATCTATCTTATGAAGAGGAGCTTGTTTGCATTTTAGTCAAAGAAGTGAAAGAGT
645 AGTAGAGCCAAATCTATCTTATGAAGAGGAGCTTGTTTGCATTTTAGCCAAAGAAGTGAAAGAGT
* * *
66097244 TAAGAAATAAGAGGATCCCATTAGTAAATGTGTTTTGGAGGAATCATAATATAGAAGAAGCTACT
710 TAAGAAATAAGAGGATCGCATTAGTAAAAGTGTTATGGAGGAATCATAATATAGAAGAAGCTACT
66097309 TGGGAAAGGGA
775 TGGGAAAGGGA
66097320 CAA-TTTAATGAAAGAACAATACACTCAACTTTTCACAAGTATAAATATCAAGGATGAAATTTTC
1 -AATTTTAATGAAAGAACAATACACTCAACTTTTCACAAGTATAAATATCAAGGATGAAATTTTC
* * * *
66097384 TAAGTGGGGGAGAATTGTAGCTGTCTGCCCGGTAGAGACCCAATATTCAGTTATTGTATGG-AGT
65 TAAGTGGGGGAGAATTGTAACTGTCTGCCCGGCAGAGACCCAATATTAAGTTATTGTTTGGCA-T
*
66097448 ATAATTGGTAAAGTCAAGGGTAGAATTGAGTAAGTAAAGTA-TTTATATTGCCTAAATAGAGCAC
129 ATAATTGGTAAAGTCAAGGGTAGAATTGAGTAAGTAAAGTATTTTAT-TTGGCTAAATAGAGCAC
66097512 TTTGTGGGATTAGCCATTTT
193 TTTGTGGGATTAGCCATTTT
66097532 ACTGCAACAC
Statistics
Matches: 1595, Mismatches: 161, Indels: 49
0.88 0.09 0.03
Matches are distributed among these distances:
781 6 0.00
782 447 0.28
783 246 0.15
784 9 0.01
785 213 0.13
786 664 0.42
787 7 0.00
788 3 0.00
ACGTcount: A:0.34, C:0.13, G:0.20, T:0.32
Consensus pattern (785 bp):
AATTTTAATGAAAGAACAATACACTCAACTTTTCACAAGTATAAATATCAAGGATGAAATTTTCT
AAGTGGGGGAGAATTGTAACTGTCTGCCCGGCAGAGACCCAATATTAAGTTATTGTTTGGCATAT
AATTGGTAAAGTCAAGGGTAGAATTGAGTAAGTAAAGTATTTTATTTGGCTAAATAGAGCACTTT
GTGGGATTAGCCATTTTGCGAACTCAAATTTTTGGCGAACTCTAGGTTTGGCAGACTCTTTAGCA
AAGTATCCACCCACCCCAAATGTTTTGAAAGAACTCGTTAAGTTCACAATTTGATTAGACTTGTT
TTATATTTAGTGTTTGATGACTTAGAAAGTAATGTTTGGATTTAGTTAAGACTTAGTTAGAACCA
AACTAGAATTCTGTAGATGATTTGACCTAAAACTTCTTAAGAGCGTTTAATCATGGGAATCAAGG
GTGTCAATGGAATTATTTGATTTTTCCACTAAACCTTGTCTTCGTTTCATGAGTATATAAGGATA
ATGTTGGCCATCAAGAGTTGGAATTACCACCAGAACTATCAAAGATTCACAATGTGTTCCACATG
TCTATGTTACGAAGGTATTGACCAAATCCAGATAATGTGGTACAAATTAAAGACATAGAAGTAGA
GCCAAATCTATCTTATGAAGAGGAGCTTGTTTGCATTTTAGCCAAAGAAGTGAAAGAGTTAAGAA
ATAAGAGGATCGCATTAGTAAAAGTGTTATGGAGGAATCATAATATAGAAGAAGCTACTTGGGAA
AGGGA
Found at i:66100248 original size:42 final size:42
Alignment explanation
Indices: 66100202--66100284 Score: 103
Period size: 42 Copynumber: 2.0 Consensus size: 42
66100192 TGACGTTGAT
* * *
66100202 ATGAGAATTCGTGTAAGACCGCGTCTAGGACATGGCATCGAA
1 ATGAGAATTCATATAAGACCGCATCTAGGACATGGCATCGAA
* ** *
66100244 ATGAGATTTCATATAAGACCTTATCTAGGATATGGCATCGA
1 ATGAGAATTCATATAAGACCGCATCTAGGACATGGCATCGA
66100285 TGTAAGATTC
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.27
Consensus pattern (42 bp):
ATGAGAATTCATATAAGACCGCATCTAGGACATGGCATCGAA
Found at i:66115505 original size:16 final size:17
Alignment explanation
Indices: 66115484--66115516 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
66115474 TTACTTGTGT
66115484 GGGGCCCACAC-GCCCA
1 GGGGCCCACACGGCCCA
*
66115500 GGGGCCTACACGGCCCA
1 GGGGCCCACACGGCCCA
66115517 TTTCAGCTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.18, C:0.45, G:0.33, T:0.03
Consensus pattern (17 bp):
GGGGCCCACACGGCCCA
Found at i:66116551 original size:18 final size:18
Alignment explanation
Indices: 66116478--66116559 Score: 94
Period size: 18 Copynumber: 4.6 Consensus size: 18
66116468 ATTAAGTAAA
*
66116478 AGTAAACAGTGCAGTAAC
1 AGTAAACAGTGCAGTATC
* *
66116496 AATAAATAGTGCAGTATC
1 AGTAAACAGTGCAGTATC
*
66116514 AGTAAACAATGTCA-TATC
1 AGTAAACAGTG-CAGTATC
* *
66116532 AGTAAATAGTGCAGTGTC
1 AGTAAACAGTGCAGTATC
66116550 AGTAAACAGT
1 AGTAAACAGT
66116560 ATGCAAGTCC
Statistics
Matches: 52, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
17 2 0.04
18 48 0.92
19 2 0.04
ACGTcount: A:0.43, C:0.13, G:0.20, T:0.24
Consensus pattern (18 bp):
AGTAAACAGTGCAGTATC
Found at i:66116951 original size:27 final size:27
Alignment explanation
Indices: 66116909--66117093 Score: 289
Period size: 27 Copynumber: 6.9 Consensus size: 27
66116899 TACATTATAT
66116909 AGGGCAAAACAGTCATTTTACCACATA
1 AGGGCAAAACAGTCATTTTACCACATA
* *
66116936 AGGGAAAAACAATCATTTTACCACATA
1 AGGGCAAAACAGTCATTTTACCACATA
* *
66116963 AGGGAAAAATAGTCATTTTACCACATA
1 AGGGCAAAACAGTCATTTTACCACATA
* * *
66116990 AGGGCAAAATAGTCATTTTTCCATATA
1 AGGGCAAAACAGTCATTTTACCACATA
* *
66117017 AGGGTAAAACAGTCATTTTACCAGATA
1 AGGGCAAAACAGTCATTTTACCACATA
66117044 AGGGCAAAACAGTCATTTTACCACATA
1 AGGGCAAAACAGTCATTTTACCACATA
66117071 AGGGCAAAACAGTCATTTTACCA
1 AGGGCAAAACAGTCATTTTACCA
66117094 ATTTGAGGGT
Statistics
Matches: 145, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 145 1.00
ACGTcount: A:0.42, C:0.18, G:0.15, T:0.25
Consensus pattern (27 bp):
AGGGCAAAACAGTCATTTTACCACATA
Found at i:66130436 original size:16 final size:16
Alignment explanation
Indices: 66130415--66130449 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
66130405 TGTTATGGAG
*
66130415 GAATCATTATATAAAA
1 GAATCATAATATAAAA
66130431 GAATCATAATATAAAA
1 GAATCATAATATAAAA
66130447 GAA
1 GAA
66130450 GCTACTTCGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.60, C:0.06, G:0.09, T:0.26
Consensus pattern (16 bp):
GAATCATAATATAAAA
Found at i:66142593 original size:12 final size:12
Alignment explanation
Indices: 66142536--66142567 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
66142526 TTGAGTTCGA
66142536 TTATTTTTATGT
1 TTATTTTTATGT
*
66142548 TTATGTTTATGT
1 TTATTTTTATGT
66142560 TTATTTTT
1 TTATTTTT
66142568 TTCTCTTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.16, C:0.00, G:0.09, T:0.75
Consensus pattern (12 bp):
TTATTTTTATGT
Found at i:66150925 original size:30 final size:30
Alignment explanation
Indices: 66150891--66150950 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
66150881 CCATGACAAA
66150891 TTCCACACAGGCTGAG-CACATGCCCATGTG
1 TTCCACACAGGCTG-GCCACATGCCCATGTG
* * *
66150921 TTCCATACGGGCTGGCCATATGCCCATGTG
1 TTCCACACAGGCTGGCCACATGCCCATGTG
66150951 GAAGCCCGTG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 1 0.04
30 25 0.96
ACGTcount: A:0.20, C:0.32, G:0.25, T:0.23
Consensus pattern (30 bp):
TTCCACACAGGCTGGCCACATGCCCATGTG
Found at i:66153524 original size:27 final size:27
Alignment explanation
Indices: 66153488--66153543 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
66153478 CCCTCAGTTG
*
66153488 TAAAATTA-CCAAAGTACCCCCGATTTA
1 TAAAACTACCCAAA-TACCCCCGATTTA
* *
66153515 TAAAACTACCCAAATATCCTCGATTTA
1 TAAAACTACCCAAATACCCCCGATTTA
66153542 TA
1 TA
66153544 GAGTTACCAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 20 0.80
28 5 0.20
ACGTcount: A:0.41, C:0.25, G:0.05, T:0.29
Consensus pattern (27 bp):
TAAAACTACCCAAATACCCCCGATTTA
Found at i:66153560 original size:54 final size:54
Alignment explanation
Indices: 66153502--66153624 Score: 149
Period size: 54 Copynumber: 2.3 Consensus size: 54
66153492 ATTACCAAAG
* * *
66153502 TACCCCCGATTTATAAAACTACCCA-AATATCCTCGATTTATAGAGTTACCATTT
1 TACCCTCGATTTATAAAACTA-CCATAATACCCTCGATTTATAGAATTACCATTT
* * * * **
66153556 TACCCTCGATTTACAGAATTATCATTTTACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAAAACTACCATAATACCCTCGATTTATAGAATTACCATTT
66153610 TACCCTCGATTTATA
1 TACCCTCGATTTATA
66153625 GAATTATCGT
Statistics
Matches: 58, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
53 2 0.03
54 56 0.97
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.37
Consensus pattern (54 bp):
TACCCTCGATTTATAAAACTACCATAATACCCTCGATTTATAGAATTACCATTT
Found at i:66153648 original size:26 final size:27
Alignment explanation
Indices: 66153532--66153657 Score: 182
Period size: 27 Copynumber: 4.7 Consensus size: 27
66153522 ACCCAAATAT
*
66153532 CCTCGATTTATAGAGTTACCATTTTAC
1 CCTCGATTTATAGAATTACCATTTTAC
* *
66153559 CCTCGATTTACAGAATTATCATTTTAC
1 CCTCGATTTATAGAATTACCATTTTAC
66153586 CCTCGATTTATAGAATTACCATTTTAC
1 CCTCGATTTATAGAATTACCATTTTAC
* * *
66153613 CCTCGATTTATAGAATTATC-GTTTGC
1 CCTCGATTTATAGAATTACCATTTTAC
*
66153639 CCTCGATTTACAGAATTAC
1 CCTCGATTTATAGAATTAC
66153658 TAAAATACCC
Statistics
Matches: 89, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
26 21 0.24
27 68 0.76
ACGTcount: A:0.28, C:0.22, G:0.10, T:0.40
Consensus pattern (27 bp):
CCTCGATTTATAGAATTACCATTTTAC
Found at i:66153667 original size:53 final size:54
Alignment explanation
Indices: 66153532--66153683 Score: 153
Period size: 54 Copynumber: 2.8 Consensus size: 54
66153522 ACCCAAATAT
* * *** *
66153532 CCTCGATTTATAGAGTTACCATTTTACCCTCGATTTACAGAATTATCATTTTAC
1 CCTCGATTTACAGAATTACCAAAATACCCTCGATTTACAGAATTATCAGTTTAC
* *** * *
66153586 CCTCGATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTATC-GTTTGC
1 CCTCGATTTACAGAATTACCAAAATACCCTCGATTTACAGAATTATCAGTTTAC
* * * *
66153639 CCTCGATTTACAGAATTACTAAAATACCCTTGGTTTACAAAATTA
1 CCTCGATTTACAGAATTACCAAAATACCCTCGATTTACAGAATTA
66153684 CCAAAATACC
Statistics
Matches: 85, Mismatches: 13, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
53 40 0.47
54 45 0.53
ACGTcount: A:0.30, C:0.21, G:0.10, T:0.39
Consensus pattern (54 bp):
CCTCGATTTACAGAATTACCAAAATACCCTCGATTTACAGAATTATCAGTTTAC
Found at i:66153694 original size:80 final size:81
Alignment explanation
Indices: 66153491--66153696 Score: 209
Period size: 80 Copynumber: 2.6 Consensus size: 81
66153481 TCAGTTGTAA
* * * * * * * *
66153491 AATTACCAAAGTACCCCCGATTTATAAAACTACCCAAATATCCTCGATTTATAGAGTTACCATTT
1 AATTATCAAAATACCCTCGATTTATAAAATTACCAAAATACCCTCGATTTATAGAATTACCAGTT
66153556 TACCCTCGATTTACAG
66 TACCCTCGATTTACAG
*** * *** *
66153572 AATTATCATTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTATC-GTT
1 AATTATCAAAATACCCTCGATTTATAAAATTACCAAAATACCCTCGATTTATAGAATTACCAGTT
*
66153636 TGCCCTCGATTTACAG
66 TACCCTCGATTTACAG
* * *
66153652 AATTA-CTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTC
1 AATTATC-AAAATACCCTCGATTTATAAAATTACCAAAATACCCTC
66153697 AAACAATAAA
Statistics
Matches: 98, Mismatches: 26, Indels: 3
0.77 0.20 0.02
Matches are distributed among these distances:
79 1 0.01
80 50 0.51
81 47 0.48
ACGTcount: A:0.33, C:0.24, G:0.08, T:0.34
Consensus pattern (81 bp):
AATTATCAAAATACCCTCGATTTATAAAATTACCAAAATACCCTCGATTTATAGAATTACCAGTT
TACCCTCGATTTACAG
Found at i:66153876 original size:27 final size:27
Alignment explanation
Indices: 66153703--66153926 Score: 163
Period size: 27 Copynumber: 8.4 Consensus size: 27
66153693 CCTCAAACAA
* **
66153703 TAAAATTACCAAAATACCCCTAGT-TTG
1 TAAAATTACCGAAATACCCCT-GTAGGG
** **
66153730 TAAAATTACTAAAATACCCCTGGT-TTG
1 TAAAATTACCGAAATACCCCT-GTAGGG
* ** **
66153757 TAAAATTACCAAAATACCATTG-ATTTG
1 TAAAATTACCGAAATACCCCTGTA-GGG
66153784 TAAAA-TACCGAAATACCCCTGTAGGG
1 TAAAATTACCGAAATACCCCTGTAGGG
* **
66153810 TAGAATTATTGAAATA-CCCTGTAGGG
1 TAAAATTACCGAAATACCCCTGTAGGG
* ** *
66153836 TAGAATTATAGAAATACCCTTGTAGGG
1 TAAAATTACCGAAATACCCCTGTAGGG
*
66153863 TAAAAATACCGAAATACCCCTGTAGGG
1 TAAAATTACCGAAATACCCCTGTAGGG
* * *
66153890 -AAGAATTACCGAGATACCCTTGTTGGG
1 TAA-AATTACCGAAATACCCCTGTAGGG
66153917 TAAAATTACC
1 TAAAATTACC
66153927 ATTTTGCCCC
Statistics
Matches: 166, Mismatches: 24, Indels: 14
0.81 0.12 0.07
Matches are distributed among these distances:
26 46 0.28
27 118 0.71
28 2 0.01
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.28
Consensus pattern (27 bp):
TAAAATTACCGAAATACCCCTGTAGGG
Found at i:66154167 original size:25 final size:25
Alignment explanation
Indices: 66154129--66154197 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 25
66154119 AGAAAGTGCT
* * *
66154129 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTCACCA
*
66154154 AAAAGGGCTTTGCCCCAGTTCATCA
1 AAAAGGGCTTTGCCCCAGTTCACCA
66154179 AAAAGGGC-TTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
66154198 ATTAAAAGAG
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
24 11 0.28
25 29 0.73
ACGTcount: A:0.28, C:0.28, G:0.23, T:0.22
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTCACCA
Found at i:66154401 original size:40 final size:40
Alignment explanation
Indices: 66154346--66154567 Score: 304
Period size: 40 Copynumber: 5.6 Consensus size: 40
66154336 TATTCGAATG
* *
66154346 ATATCCGGGTTAAGTCCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
*
66154386 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
*
66154426 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
* * *
66154466 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
* * * * *
66154506 ATATCTGGGCGAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGATT
*
66154546 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
66154568 TACTTGGGTT
Statistics
Matches: 162, Mismatches: 19, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
39 13 0.08
40 147 0.91
41 2 0.01
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.29
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
Found at i:66166622 original size:25 final size:25
Alignment explanation
Indices: 66166571--66166622 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
66166561 TAACAGAAAG
*
66166571 TAGTTGAAGTCTGTTAGCAGTTGAT
1 TAGTTGAAGTCTGTTAGCAGTTCAT
66166596 TAGTTGAAGTCTGTTAGCTAG-TCAT
1 TAGTTGAAGTCTGTTAGC-AGTTCAT
66166621 TA
1 TA
66166623 CTTTCTACAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 23 0.92
26 2 0.08
ACGTcount: A:0.25, C:0.10, G:0.25, T:0.40
Consensus pattern (25 bp):
TAGTTGAAGTCTGTTAGCAGTTCAT
Found at i:66170157 original size:19 final size:19
Alignment explanation
Indices: 66170112--66170151 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
66170102 TAATCACTGG
66170112 GACAGATTCTCAGGCTATA
1 GACAGATTCTCAGGCTATA
66170131 GACAGATTCTCAGGCTATA
1 GACAGATTCTCAGGCTATA
66170150 GA
1 GA
66170152 TCGATTTGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.25
Consensus pattern (19 bp):
GACAGATTCTCAGGCTATA
Found at i:66171157 original size:25 final size:25
Alignment explanation
Indices: 66171106--66171157 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
66171096 TAACAGAAAG
* *
66171106 TAGTTGAAGTCTGTTAGTAGTTGAT
1 TAGTTAAAGTCTGTTAGTAGTTCAT
66171131 TAGTTAAAGTCTGTTAGCTAG-TCAT
1 TAGTTAAAGTCTGTTAG-TAGTTCAT
66171156 TA
1 TA
66171158 CTTTCTACAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 21 0.88
26 3 0.12
ACGTcount: A:0.27, C:0.08, G:0.23, T:0.42
Consensus pattern (25 bp):
TAGTTAAAGTCTGTTAGTAGTTCAT
Found at i:66171861 original size:49 final size:49
Alignment explanation
Indices: 66171805--66171909 Score: 122
Period size: 49 Copynumber: 2.1 Consensus size: 49
66171795 GTATCAGTAG
* * *
66171805 GCTACTACGTGTATCAGA-GGTTAGGTCACGTGTGTAGTACTAAGTACAA
1 GCTACTACATGTACCAGATGGTT-GGTCACATGTGTAGTACTAAGTACAA
* * * * *
66171854 GCTACTACATGTACCCGATTGTTGGTCATATGTGTAGTACTAAGTGCAG
1 GCTACTACATGTACCAGATGGTTGGTCACATGTGTAGTACTAAGTACAA
66171903 GCTACTA
1 GCTACTA
66171910 TGCGTACCAG
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
49 44 0.94
50 3 0.06
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (49 bp):
GCTACTACATGTACCAGATGGTTGGTCACATGTGTAGTACTAAGTACAA
Found at i:66178931 original size:69 final size:69
Alignment explanation
Indices: 66178820--66178956 Score: 247
Period size: 69 Copynumber: 2.0 Consensus size: 69
66178810 TAGGAAAAAT
*
66178820 AGGTTCCAAAACAAGAATAACAGTGGCTGTAGAATTTTCAGCAGGTTTTGTAGTTGTGGTAGGGC
1 AGGTTCCAAAACAAGAATAACAGTGGCTGTAGAATTTTCAGCAGGTTTTGTAGTGGTGGTAGGGC
66178885 TGAC
66 TGAC
* *
66178889 AGGTTCCAAAACAGGAATAACAGTGGCTGTAGGATTTTCAGCAGGTTTTGTAGTGGTGGTAGGGC
1 AGGTTCCAAAACAAGAATAACAGTGGCTGTAGAATTTTCAGCAGGTTTTGTAGTGGTGGTAGGGC
66178954 TGA
66 TGA
66178957 TAGAGTCTTG
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
69 65 1.00
ACGTcount: A:0.28, C:0.12, G:0.31, T:0.28
Consensus pattern (69 bp):
AGGTTCCAAAACAAGAATAACAGTGGCTGTAGAATTTTCAGCAGGTTTTGTAGTGGTGGTAGGGC
TGAC
Found at i:66183134 original size:16 final size:16
Alignment explanation
Indices: 66183113--66183145 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
66183103 CTTTTTAAGG
*
66183113 TAACTTTATTTGTATC
1 TAACTTTATTCGTATC
66183129 TAACTTTATTCGTATC
1 TAACTTTATTCGTATC
66183145 T
1 T
66183146 TTCATTTTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.24, C:0.15, G:0.06, T:0.55
Consensus pattern (16 bp):
TAACTTTATTCGTATC
Found at i:66186006 original size:49 final size:49
Alignment explanation
Indices: 66185944--66186068 Score: 137
Period size: 49 Copynumber: 2.6 Consensus size: 49
66185934 AAGTCGGTGC
*
66185944 CATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAG-GCTGATGA
1 CATGTCCCAGACAGGTCTTACACTGACTCTCATATATCG-GTGCTGATGA
* * * * *
66185993 CGTGTCCCAGACAGGTCCTACACT-AGCTCTCATCTATCGGTGTTGATGC
1 CATGTCCCAGACAGGTCTTACACTGA-CTCTCATATATCGGTGCTGATGA
* * *
66186042 CATGTCCCAAATAGGTCTTACATTGAC
1 CATGTCCCAGACAGGTCTTACACTGAC
66186069 ACACAACAAG
Statistics
Matches: 62, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
48 2 0.03
49 59 0.95
50 1 0.02
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (49 bp):
CATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGGTGCTGATGA
Found at i:66190267 original size:3 final size:3
Alignment explanation
Indices: 66190261--66190304 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
66190251 TAGTTGCAGA
66190261 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
66190305 AAAAGATGGG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:66191401 original size:18 final size:20
Alignment explanation
Indices: 66191364--66191400 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
66191354 TATGTATAAA
66191364 CATTATAAAAATATAAAAAT
1 CATTATAAAAATATAAAAAT
66191384 CATTATAAAAATA-AAAA
1 CATTATAAAAATATAAAA
66191401 TATAGAAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (20 bp):
CATTATAAAAATATAAAAAT
Found at i:66191419 original size:24 final size:25
Alignment explanation
Indices: 66191368--66191432 Score: 80
Period size: 24 Copynumber: 2.6 Consensus size: 25
66191358 TATAAACATT
66191368 ATAAAAATATAAAAATCATTATAAAA
1 ATAAAAATATAAAAATCA-TATAAAA
*
66191394 ATAAAAATATAGAAAA-C-TATAGAA
1 ATAAAAATATA-AAAATCATATAAAA
66191418 ATAAAAATCATAAAA
1 ATAAAAAT-ATAAAA
66191433 GAATTATAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
24 17 0.47
25 3 0.08
26 12 0.33
27 4 0.11
ACGTcount: A:0.69, C:0.05, G:0.03, T:0.23
Consensus pattern (25 bp):
ATAAAAATATAAAAATCATATAAAA
Found at i:66191451 original size:20 final size:18
Alignment explanation
Indices: 66191428--66191501 Score: 71
Period size: 20 Copynumber: 3.9 Consensus size: 18
66191418 ATAAAAATCA
66191428 TAAAAGAATTATAAAAGTTG
1 TAAAA-AATTATAAAA-TTG
*
66191448 TAAAAAATTTATAAAAAATCG
1 TAAAAAA-TTAT--AAAATTG
66191469 T-AAAAA-TATAAAATTG
1 TAAAAAATTATAAAATTG
*
66191485 TAAAAAAATATAAAATT
1 TAAAAAATTATAAAATT
66191502 TTATAAAAAA
Statistics
Matches: 47, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
16 7 0.15
17 5 0.11
18 12 0.26
19 2 0.04
20 14 0.30
21 3 0.06
22 4 0.09
ACGTcount: A:0.62, C:0.01, G:0.07, T:0.30
Consensus pattern (18 bp):
TAAAAAATTATAAAATTG
Found at i:66191487 original size:16 final size:17
Alignment explanation
Indices: 66191437--66191515 Score: 61
Period size: 18 Copynumber: 4.3 Consensus size: 17
66191427 ATAAAAGAAT
66191437 TATAAAAGTTGTAAAAAA
1 TATAAAA-TTGTAAAAAA
*
66191455 TTTATAAAAAATCGT-AAAAA
1 --TAT--AAAATTGTAAAAAA
66191475 TATAAAATTGTAAAAAAA
1 TATAAAATTGT-AAAAAA
*
66191493 TATAAAATTTTATAAAAA
1 TATAAAATTGTA-AAAAA
*
66191511 AATAA
1 TATAA
66191516 TATCTAGGAC
Statistics
Matches: 50, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
16 7 0.14
17 1 0.02
18 27 0.54
20 8 0.16
21 3 0.06
22 4 0.08
ACGTcount: A:0.63, C:0.01, G:0.05, T:0.30
Consensus pattern (17 bp):
TATAAAATTGTAAAAAA
Found at i:66191491 original size:18 final size:19
Alignment explanation
Indices: 66191470--66191515 Score: 69
Period size: 18 Copynumber: 2.5 Consensus size: 19
66191460 AAAAAATCGT
66191470 AAAAATATAAAATTGTA-A
1 AAAAATATAAAATTGTATA
*
66191488 AAAAATATAAAATTTTATA
1 AAAAATATAAAATTGTATA
66191507 AAAAA-ATAA
1 AAAAATATAA
66191516 TATCTAGGAC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
18 20 0.77
19 6 0.23
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (19 bp):
AAAAATATAAAATTGTATA
Found at i:66192334 original size:10 final size:10
Alignment explanation
Indices: 66192319--66192364 Score: 51
Period size: 9 Copynumber: 4.6 Consensus size: 10
66192309 ATTTTTTAAA
66192319 ATTAAAAATT
1 ATTAAAAATT
66192329 ATT-AAAATT
1 ATTAAAAATT
*
66192338 A-TAAAAAAT
1 ATTAAAAATT
66192347 ATTAAAAAATT
1 ATT-AAAAATT
66192358 AATTAAA
1 -ATTAAA
66192365 TGTTAACATG
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
8 1 0.03
9 13 0.43
10 4 0.13
11 9 0.30
12 3 0.10
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (10 bp):
ATTAAAAATT
Found at i:66192458 original size:16 final size:16
Alignment explanation
Indices: 66192437--66192480 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
66192427 GGTAATTTGA
*
66192437 TAAAAAAATAAAAGTT
1 TAAAAAAATAAAAGAT
66192453 TAAAAATAA-AAAAGAT
1 TAAAAA-AATAAAAGAT
*
66192469 GAAAAAAATAAA
1 TAAAAAAATAAA
66192481 TGAAGGATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
15 2 0.08
16 20 0.83
17 2 0.08
ACGTcount: A:0.75, C:0.00, G:0.07, T:0.18
Consensus pattern (16 bp):
TAAAAAAATAAAAGAT
Done.