Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008527.1 Hibiscus syriacus cultivar Beakdansim tig00111402_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 9057482
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 27 of 37
Found at i:6632073 original size:33 final size:33
Alignment explanation
Indices: 6632031--6632157 Score: 193
Period size: 33 Copynumber: 3.8 Consensus size: 33
6632021 GGAAATTACT
*
6632031 ATCGCAATGCGAAATGAAAATCACAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
**
6632064 ATCGCAATGCGAAATGAAAATCGCAACGCTA-A
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* *
6632096 TTTCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 -ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
6632130 ATCGCAATGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
6632158 CGAATTTAAT
Statistics
Matches: 84, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
32 1 0.01
33 82 0.98
34 1 0.01
ACGTcount: A:0.43, C:0.20, G:0.22, T:0.15
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:6632114 original size:66 final size:66
Alignment explanation
Indices: 6632032--6632164 Score: 239
Period size: 66 Copynumber: 2.0 Consensus size: 66
6632022 GAAATTACTA
*
6632032 TCGCAATGCGAAATGAAAATCACAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCTAAT
1 TCGCAATGCGAAATGAAAATCACAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
6632097 T
66 T
* *
6632098 TCGCAATGCGAAATGAAAATCGCAACGAGGGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
1 TCGCAATGCGAAATGAAAATCACAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
6632163 T
66 T
6632164 T
1 T
6632165 AATTTCGCGT
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
66 64 1.00
ACGTcount: A:0.42, C:0.20, G:0.22, T:0.17
Consensus pattern (66 bp):
TCGCAATGCGAAATGAAAATCACAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
T
Found at i:6632208 original size:33 final size:33
Alignment explanation
Indices: 6632157--6632246 Score: 135
Period size: 33 Copynumber: 2.7 Consensus size: 33
6632147 AAATCGCAAC
* *
6632157 GCGAATTTAATTTCGCGTTGCGATTCTCTCATT
1 GCGATTTTCATTTCGCGTTGCGATTCTCTCATT
* *
6632190 GCGATTTTCATTTCGCGTTGCGAATCTCTCGTT
1 GCGATTTTCATTTCGCGTTGCGATTCTCTCATT
*
6632223 GCGATTTTCATTTCGCATTGCGAT
1 GCGATTTTCATTTCGCGTTGCGAT
6632247 AGTACTTTTT
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 51 1.00
ACGTcount: A:0.16, C:0.22, G:0.20, T:0.42
Consensus pattern (33 bp):
GCGATTTTCATTTCGCGTTGCGATTCTCTCATT
Found at i:6632212 original size:19 final size:19
Alignment explanation
Indices: 6632188--6632246 Score: 56
Period size: 19 Copynumber: 3.4 Consensus size: 19
6632178 GATTCTCTCA
6632188 TTGCGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCG
* *
6632207 TTGCGA-----ATCTCTCG
1 TTGCGATTTTCATTTCGCG
*
6632221 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCG
6632240 TTGCGAT
1 TTGCGAT
6632247 AGTACTTTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 10
0.67 0.11 0.22
Matches are distributed among these distances:
14 12 0.40
19 18 0.60
ACGTcount: A:0.14, C:0.22, G:0.20, T:0.44
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCG
Found at i:6632374 original size:14 final size:14
Alignment explanation
Indices: 6632355--6632391 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
6632345 CATCAATTAA
6632355 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
6632369 ACAAATCACCTTTT
1 ACAAATCAACTTTT
6632383 ACAAATCAA
1 ACAAATCAA
6632392 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:6633832 original size:42 final size:42
Alignment explanation
Indices: 6633786--6633949 Score: 193
Period size: 42 Copynumber: 3.9 Consensus size: 42
6633776 CGATGACAGT
* * *
6633786 GGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGG
1 GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATGATAGG
* * * * * *
6633828 GGCCTCTTCAACGATATGAGTGGACTCTTGAGGGATGACAGT
1 GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATGATAGG
* * * *
6633870 AGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGG
1 GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATGATAGG
* *
6633912 GGCCTCTTCAACGATAGGAGTGGACTCTTGAGGAATGA
1 GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATGA
6633950 CAGGCGAGTC
Statistics
Matches: 97, Mismatches: 25, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
42 97 1.00
ACGTcount: A:0.24, C:0.18, G:0.37, T:0.22
Consensus pattern (42 bp):
GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATGATAGG
Found at i:6633888 original size:84 final size:84
Alignment explanation
Indices: 6633777--6633952 Score: 325
Period size: 84 Copynumber: 2.1 Consensus size: 84
6633767 CCTCTTCAAC
*
6633777 GATGACAGTGGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGCCTCTTCAACGA
1 GATGACAGTAGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGCCTCTTCAACGA
*
6633842 TATGAGTGGACTCTTGAGG
66 TAGGAGTGGACTCTTGAGG
6633861 GATGACAGTAGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGCCTCTTCAACGA
1 GATGACAGTAGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGCCTCTTCAACGA
6633926 TAGGAGTGGACTCTTGAGG
66 TAGGAGTGGACTCTTGAGG
*
6633945 AATGACAG
1 GATGACAG
6633953 GCGAGTCGGG
Statistics
Matches: 89, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
84 89 1.00
ACGTcount: A:0.24, C:0.18, G:0.36, T:0.22
Consensus pattern (84 bp):
GATGACAGTAGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGCCTCTTCAACGA
TAGGAGTGGACTCTTGAGG
Found at i:6634343 original size:91 final size:90
Alignment explanation
Indices: 6634171--6634355 Score: 248
Period size: 91 Copynumber: 2.0 Consensus size: 90
6634161 ATTTCAAACT
* * * * *
6634171 TTCAACCAAAAGATAAAACAAATACAAATATTAACTTCACAGTGTTAAAGAATACACAGTTTAGC
1 TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTATT--A-AATAAACAGTTTAGC
6634236 AGAATTAGCAGCAACCGAATAAATTTAC
63 AGAATTAGCAGCAACCGAATAAATTTAC
6634264 TTCAACCAAAAGACAAAACAAAAAGACAAATACTAACTTCACAGTATT-AATAAACAGTTTAGCA
1 TTCAACCAAAAGACAAAAC--AAAGACAAATACTAACTTCACAGTATTAAATAAACAGTTTAGCA
*
6634328 GTATT-GACAGCAACCGAATAAATTTAC
64 GAATTAG-CAGCAACCGAATAAATTTAC
6634355 T
1 T
6634356 AAACAATCTA
Statistics
Matches: 83, Mismatches: 6, Indels: 8
0.86 0.06 0.08
Matches are distributed among these distances:
90 1 0.01
91 40 0.48
93 18 0.22
95 24 0.29
ACGTcount: A:0.49, C:0.18, G:0.10, T:0.23
Consensus pattern (90 bp):
TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTATTAAATAAACAGTTTAGCAGA
ATTAGCAGCAACCGAATAAATTTAC
Found at i:6636092 original size:19 final size:19
Alignment explanation
Indices: 6636041--6636149 Score: 120
Period size: 19 Copynumber: 5.9 Consensus size: 19
6636031 TCTTTTGGTT
* *
6636041 GAAAAGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
*
6636060 GATAATGAGAATCGCAACGC
1 GA-AATGAAAATCGCAACGC
**
6636080 GAAATGACTATCGCAA--C
1 GAAATGAAAATCGCAACGC
*
6636097 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
6636113 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
6636132 GAAATGAAAATCGCAACG
1 GAAATGAAAATCGCAACG
6636150 AGAGAATCGC
Statistics
Matches: 76, Mismatches: 8, Indels: 12
0.79 0.08 0.12
Matches are distributed among these distances:
14 9 0.12
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 45 0.59
20 16 0.21
ACGTcount: A:0.46, C:0.20, G:0.23, T:0.11
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:6636108 original size:33 final size:33
Alignment explanation
Indices: 6636066--6636130 Score: 112
Period size: 33 Copynumber: 2.0 Consensus size: 33
6636056 ACGAGATAAT
**
6636066 GAGAATCGCAACGCGAAATGACTATCGCAACGA
1 GAGAATCGCAACGCGAAATGAAAATCGCAACGA
6636099 GAGAATCGCAACGCGAAATGAAAATCGCAACG
1 GAGAATCGCAACGCGAAATGAAAATCGCAACG
6636131 CGAAATGAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.42, C:0.23, G:0.25, T:0.11
Consensus pattern (33 bp):
GAGAATCGCAACGCGAAATGAAAATCGCAACGA
Found at i:6636125 original size:52 final size:53
Alignment explanation
Indices: 6636049--6636167 Score: 186
Period size: 52 Copynumber: 2.3 Consensus size: 53
6636039 TTGAAAAGAA
* * **
6636049 AATCGCAACGAGATAATGAGAATCGCAACGCGAAATGACTATCGCAACGAGAG
1 AATCGCAACGCGATAATGAAAATCGCAACGCGAAATGAAAATCGCAACGAGAG
6636102 AATCGCAACGCGA-AATGAAAATCGCAACGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAACGCGATAATGAAAATCGCAACGCGAAATGAAAATCGCAACGAGAG
*
6636154 AATCGCAATGCGAT
1 AATCGCAACGCGAT
6636168 TTTGGTTTCG
Statistics
Matches: 60, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
52 48 0.80
53 12 0.20
ACGTcount: A:0.43, C:0.21, G:0.24, T:0.13
Consensus pattern (53 bp):
AATCGCAACGCGATAATGAAAATCGCAACGCGAAATGAAAATCGCAACGAGAG
Found at i:6636823 original size:16 final size:16
Alignment explanation
Indices: 6636802--6636834 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
6636792 GATTTTGTAT
6636802 TATCGCATTGCGATAG
1 TATCGCATTGCGATAG
6636818 TATCGCATTGCGATAG
1 TATCGCATTGCGATAG
6636834 T
1 T
6636835 CAGTATCGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.33
Consensus pattern (16 bp):
TATCGCATTGCGATAG
Found at i:6636954 original size:21 final size:21
Alignment explanation
Indices: 6636914--6636954 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
6636904 ACTGTAGATC
**
6636914 ATCGCAACGCGATTTCCAACT
1 ATCGCAACGCGAAATCCAACT
*
6636935 ATCGCAACGCGAAATGCAAC
1 ATCGCAACGCGAAATCCAAC
6636955 GCGAATTTGC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.34, C:0.32, G:0.17, T:0.17
Consensus pattern (21 bp):
ATCGCAACGCGAAATCCAACT
Found at i:6639106 original size:36 final size:36
Alignment explanation
Indices: 6639059--6639323 Score: 406
Period size: 36 Copynumber: 7.4 Consensus size: 36
6639049 ATTTCCGATA
* *
6639059 CACTTCCGATTCAAATCGAATGGAAGAAAGCATCGG
1 CACTTCCGATTCAAATCGAACGGAAGGAAGCATCGG
* * *
6639095 CACTTCCGATTCAAATCGAACAGAAGAAAGCATCGA
1 CACTTCCGATTCAAATCGAACGGAAGGAAGCATCGG
*
6639131 CACTTCCGATTCAAATCGAACGGAAGGAAGCATCGA
1 CACTTCCGATTCAAATCGAACGGAAGGAAGCATCGG
*
6639167 CACTTCCGATTCAAGT-GAACGGAAGGAAGCATCGG
1 CACTTCCGATTCAAATCGAACGGAAGGAAGCATCGG
* * *
6639202 CACTTCCGATTCAAGTCGAACGGAGGGAAGCATCGA
1 CACTTCCGATTCAAATCGAACGGAAGGAAGCATCGG
*
6639238 CACTTTCGATTCAAATCGAACGGAAGGAAGCATCGG
1 CACTTCCGATTCAAATCGAACGGAAGGAAGCATCGG
* *
6639274 CACTTCCGATTCAAATCGAACGAAAGGAAGCATTGG
1 CACTTCCGATTCAAATCGAACGGAAGGAAGCATCGG
6639310 CACTTCCGATTCAA
1 CACTTCCGATTCAA
6639324 GTGTTCATCT
Statistics
Matches: 212, Mismatches: 16, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
35 34 0.16
36 178 0.84
ACGTcount: A:0.35, C:0.24, G:0.23, T:0.18
Consensus pattern (36 bp):
CACTTCCGATTCAAATCGAACGGAAGGAAGCATCGG
Found at i:6639317 original size:143 final size:143
Alignment explanation
Indices: 6639059--6639326 Score: 428
Period size: 143 Copynumber: 1.9 Consensus size: 143
6639049 ATTTCCGATA
* *
6639059 CACTTCCGATTCAAATCGAATGGAAGAAAGCATCGGCACTTCCGATTCAAATCGAACAGAAGAAA
1 CACTTCCGATTCAAATCGAACGGAAGAAAGCATCGACACTTCCGATTCAAATCGAACAGAAGAAA
*
6639124 GCATCGACACTTCCGATTCAAATCGAACGGAAGGAAGCATCGACACTTCCGATTCAAGTGAACGG
66 GCATCGACACTTCCGATTCAAATCGAACGAAAGGAAGCATCGACACTTCCGATTCAAGTGAACGG
6639189 AAGGAAGCATCGG
131 AAGGAAGCATCGG
* * * * * *
6639202 CACTTCCGATTCAAGTCGAACGGAGGGAAGCATCGACACTTTCGATTCAAATCGAACGGAAGGAA
1 CACTTCCGATTCAAATCGAACGGAAGAAAGCATCGACACTTCCGATTCAAATCGAACAGAAGAAA
* * *
6639267 GCATCGGCACTTCCGATTCAAATCGAACGAAAGGAAGCATTGGCACTTCCGATTCAAGTG
66 GCATCGACACTTCCGATTCAAATCGAACGAAAGGAAGCATCGACACTTCCGATTCAAGTG
6639327 TTCATCTTTT
Statistics
Matches: 113, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
143 113 1.00
ACGTcount: A:0.34, C:0.24, G:0.23, T:0.19
Consensus pattern (143 bp):
CACTTCCGATTCAAATCGAACGGAAGAAAGCATCGACACTTCCGATTCAAATCGAACAGAAGAAA
GCATCGACACTTCCGATTCAAATCGAACGAAAGGAAGCATCGACACTTCCGATTCAAGTGAACGG
AAGGAAGCATCGG
Found at i:6640443 original size:2 final size:2
Alignment explanation
Indices: 6640436--6640466 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
6640426 TATGTAATAC
6640436 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6640467 AATTTTAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6642484 original size:42 final size:42
Alignment explanation
Indices: 6642425--6642547 Score: 178
Period size: 42 Copynumber: 3.0 Consensus size: 42
6642415 TGGTTCCCGA
* *
6642425 GTTGGAGTGTTCTGCTGCTATCGAAGTTCATGCGCACAATGT
1 GTTGGAGGGTTGTGCTGCTATCGAAGTTCATGCGCACAATGT
*
6642467 GTTGGAGGGTTGTGCTGCTATCGAAGTTCATGTGCACAATGT
1 GTTGGAGGGTTGTGCTGCTATCGAAGTTCATGCGCACAATGT
* *
6642509 GTTGGA-GGTTGTGCTGCTCTCGATAG-TAATGCGCACAAT
1 GTTGGAGGGTTGTGCTGCTATCGA-AGTTCATGCGCACAAT
6642548 AACTCTATTT
Statistics
Matches: 74, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
41 27 0.36
42 47 0.64
ACGTcount: A:0.20, C:0.17, G:0.31, T:0.33
Consensus pattern (42 bp):
GTTGGAGGGTTGTGCTGCTATCGAAGTTCATGCGCACAATGT
Found at i:6648157 original size:65 final size:65
Alignment explanation
Indices: 6648080--6648205 Score: 189
Period size: 65 Copynumber: 1.9 Consensus size: 65
6648070 ATTCTACGGC
* **
6648080 AAAATATATTTGGATTCGGATATAAATAACAAATATAAATACGTATTTAATATGAATATTAGGGT
1 AAAATATATTTGGATTCGGATATAAATAACAAATATAAATACATATTTAATACAAATATTAGGGT
* * * *
6648145 AAAATATATTTGGATTCGGATATGAATATCAAATATCAATATATATTTAATACAAATATTA
1 AAAATATATTTGGATTCGGATATAAATAACAAATATAAATACATATTTAATACAAATATTA
6648206 ATTTAATATG
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
65 54 1.00
ACGTcount: A:0.47, C:0.06, G:0.11, T:0.37
Consensus pattern (65 bp):
AAAATATATTTGGATTCGGATATAAATAACAAATATAAATACATATTTAATACAAATATTAGGGT
Found at i:6648219 original size:23 final size:23
Alignment explanation
Indices: 6648164--6648220 Score: 62
Period size: 23 Copynumber: 2.4 Consensus size: 23
6648154 TTGGATTCGG
6648164 ATATGAATATCAAATATCAATAT
1 ATATGAATATCAAATATCAATAT
* * *
6648187 ATATTTAATA-CAAATATTAATTT
1 ATA-TGAATATCAAATATCAATAT
6648210 AATATGAATAT
1 -ATATGAATAT
6648221 TAGGATAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
23 19 0.70
24 8 0.30
ACGTcount: A:0.51, C:0.05, G:0.04, T:0.40
Consensus pattern (23 bp):
ATATGAATATCAAATATCAATAT
Found at i:6648221 original size:17 final size:18
Alignment explanation
Indices: 6648176--6648222 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 18
6648166 ATGAATATCA
*
6648176 AATATCAATA-TATATTT
1 AATATAAATATTATATTT
*
6648193 AATACAAATATTA-ATTT
1 AATATAAATATTATATTT
*
6648210 AATATGAATATTA
1 AATATAAATATTA
6648223 GGATAAAATA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
17 23 0.92
18 2 0.08
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (18 bp):
AATATAAATATTATATTT
Found at i:6648248 original size:82 final size:82
Alignment explanation
Indices: 6648124--6648288 Score: 321
Period size: 82 Copynumber: 2.0 Consensus size: 82
6648114 ATAAATACGT
*
6648124 ATTTAATATGAATATTAGGGTAAAATATATTTGGATTCGGATATGAATATCAAATATCAATATAT
1 ATTTAATATGAATATTAGGATAAAATATATTTGGATTCGGATATGAATATCAAATATCAATATAT
6648189 ATTTAATACAAATATTA
66 ATTTAATACAAATATTA
6648206 ATTTAATATGAATATTAGGATAAAATATATTTGGATTCGGATATGAATATCAAATATCAATATAT
1 ATTTAATATGAATATTAGGATAAAATATATTTGGATTCGGATATGAATATCAAATATCAATATAT
6648271 ATTTAATACAAATATTA
66 ATTTAATACAAATATTA
6648288 A
1 A
6648289 GATAAAATAC
Statistics
Matches: 82, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
82 82 1.00
ACGTcount: A:0.46, C:0.05, G:0.10, T:0.39
Consensus pattern (82 bp):
ATTTAATATGAATATTAGGATAAAATATATTTGGATTCGGATATGAATATCAAATATCAATATAT
ATTTAATACAAATATTA
Found at i:6652489 original size:33 final size:33
Alignment explanation
Indices: 6652446--6652555 Score: 148
Period size: 33 Copynumber: 3.3 Consensus size: 33
6652436 TATGCCGGCA
*
6652446 GATAAGGATACATGCTCATCTCATGAGGCGTCG
1 GATAAGGATACATGCTCATCCCATGAGGCGTCG
* *
6652479 GATAATGATACATGCTCATCCCATGCGGCGTCG
1 GATAAGGATACATGCTCATCCCATGAGGCGTCG
* * ***
6652512 GATAAGGATACATGCTCGTCCCATGCGGCGGAT
1 GATAAGGATACATGCTCATCCCATGAGGCGTCG
6652545 GATAAGGATAC
1 GATAAGGATAC
6652556 GAACCACCGT
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 69 1.00
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (33 bp):
GATAAGGATACATGCTCATCCCATGAGGCGTCG
Found at i:6661397 original size:16 final size:16
Alignment explanation
Indices: 6661376--6661409 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
6661366 TTACTATTCA
*
6661376 CGTGAATAGTGAATTT
1 CGTGAATAGTGAAATT
6661392 CGTGAATAGTGAAATT
1 CGTGAATAGTGAAATT
6661408 CG
1 CG
6661410 ATCGGCGATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.32, C:0.09, G:0.26, T:0.32
Consensus pattern (16 bp):
CGTGAATAGTGAAATT
Found at i:6667418 original size:20 final size:20
Alignment explanation
Indices: 6667395--6667438 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
6667385 GTTAAAATTT
6667395 AAATT-TTAAATTTAAAAAAA
1 AAATTATTAAA-TTAAAAAAA
*
6667415 AAATTATTAAATTAATAAAA
1 AAATTATTAAATTAAAAAAA
6667435 AAAT
1 AAAT
6667439 GTCAAATTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 17 0.77
21 5 0.23
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (20 bp):
AAATTATTAAATTAAAAAAA
Found at i:6668177 original size:10 final size:10
Alignment explanation
Indices: 6668162--6668186 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
6668152 TGTGTGCCAT
6668162 AAGAAAAAAG
1 AAGAAAAAAG
6668172 AAGAAAAAAG
1 AAGAAAAAAG
6668182 AAGAA
1 AAGAA
6668187 GAGAGATTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (10 bp):
AAGAAAAAAG
Found at i:6680466 original size:7 final size:7
Alignment explanation
Indices: 6680454--6680480 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
6680444 GAATTTATAG
6680454 GGAAAAA
1 GGAAAAA
6680461 GGAAAAA
1 GGAAAAA
6680468 GGAAAAA
1 GGAAAAA
6680475 GGAAAA
1 GGAAAA
6680481 GTGAAAAGGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (7 bp):
GGAAAAA
Found at i:6682036 original size:16 final size:19
Alignment explanation
Indices: 6681986--6682029 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
6681976 TTTGATTCAC
*
6681986 GGAATGTAAGATTACCAGT
1 GGAATATAAGATTACCAGT
6682005 GGAAATATAAGATTACCAG-
1 GG-AATATAAGATTACCAGT
6682024 GGAATA
1 GGAATA
6682030 AGATTACTGG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 4 0.17
19 4 0.17
20 15 0.65
ACGTcount: A:0.43, C:0.09, G:0.25, T:0.23
Consensus pattern (19 bp):
GGAATATAAGATTACCAGT
Found at i:6682043 original size:15 final size:16
Alignment explanation
Indices: 6681992--6682036 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 16
6681982 TCACGGAATG
6681992 TAAGATTACCAGTGGAAATA
1 TAAGATTACCAG-GG--A-A
6682012 TAAGATTACCAGGGAA
1 TAAGATTACCAGGGAA
6682028 TAAGATTAC
1 TAAGATTAC
6682037 TGGGAATGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
16 10 0.40
17 1 0.04
19 2 0.08
20 12 0.48
ACGTcount: A:0.44, C:0.11, G:0.20, T:0.24
Consensus pattern (16 bp):
TAAGATTACCAGGGAA
Found at i:6682250 original size:35 final size:37
Alignment explanation
Indices: 6682179--6682251 Score: 105
Period size: 36 Copynumber: 2.0 Consensus size: 37
6682169 GTTAGAAAAT
* *
6682179 ATTTATATATTTTCTTTAAAAAATTTAAATTCATAAA
1 ATTTATATATTTTCTTTAAAAAATTAAAAATCATAAA
*
6682216 ATTTATATATTTT-TTTACAAAATTAAAAAT-ATAAA
1 ATTTATATATTTTCTTTAAAAAATTAAAAATCATAAA
6682251 A
1 A
6682252 AGGTTTAATG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
35 6 0.18
36 14 0.42
37 13 0.39
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (37 bp):
ATTTATATATTTTCTTTAAAAAATTAAAAATCATAAA
Found at i:6685616 original size:2 final size:2
Alignment explanation
Indices: 6685611--6685660 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
6685601 GCGCGTGCGC
6685611 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6685653 AT AT AT AT
1 AT AT AT AT
6685661 TTACGTGAAA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6686632 original size:22 final size:22
Alignment explanation
Indices: 6686604--6686654 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
6686594 CTACGGCGAC
6686604 ATCCGTCCCCATCTCCGACGAA
1 ATCCGTCCCCATCTCCGACGAA
* *
6686626 ATTCGTCCCCATTTCCGACGAA
1 ATCCGTCCCCATCTCCGACGAA
6686648 ATCCGTC
1 ATCCGTC
6686655 TATCTCCATC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.22, C:0.41, G:0.14, T:0.24
Consensus pattern (22 bp):
ATCCGTCCCCATCTCCGACGAA
Found at i:6687090 original size:20 final size:20
Alignment explanation
Indices: 6687065--6687112 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
6687055 CGATTATCTC
6687065 GTTGCGATAATCATTTTCGT
1 GTTGCGATAATCATTTTCGT
** *
6687085 GTTGCGATTTTTATTTTCGT
1 GTTGCGATAATCATTTTCGT
*
6687105 GTTACGAT
1 GTTGCGAT
6687113 TTTAAGTTTC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.17, C:0.12, G:0.21, T:0.50
Consensus pattern (20 bp):
GTTGCGATAATCATTTTCGT
Found at i:6687113 original size:20 final size:20
Alignment explanation
Indices: 6687077--6687115 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
6687067 TGCGATAATC
*
6687077 ATTTTCGTGTTGCGATTTTT
1 ATTTTCGTGTTACGATTTTT
6687097 ATTTTCGTGTTACGATTTT
1 ATTTTCGTGTTACGATTTT
6687116 AAGTTTCATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.13, C:0.10, G:0.18, T:0.59
Consensus pattern (20 bp):
ATTTTCGTGTTACGATTTTT
Found at i:6687122 original size:20 final size:20
Alignment explanation
Indices: 6687079--6687122 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
6687069 CGATAATCAT
* * *
6687079 TTTCGTGTTGCGATTTTTAT
1 TTTCGTGTTACGATTTTAAG
6687099 TTTCGTGTTACGATTTTAAG
1 TTTCGTGTTACGATTTTAAG
6687119 TTTC
1 TTTC
6687123 ATAAACTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.14, C:0.11, G:0.18, T:0.57
Consensus pattern (20 bp):
TTTCGTGTTACGATTTTAAG
Found at i:6689023 original size:20 final size:20
Alignment explanation
Indices: 6689000--6689048 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
6688990 GAAACTTAAA
*
6689000 ATCGCAATGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
**
6689020 ATCGCAACGCGAATTTGACT
1 ATCGCAACGCGAAAATGACT
6689040 ATCGCAACG
1 ATCGCAACG
6689049 GGATAATCGC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.35, C:0.24, G:0.20, T:0.20
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:6689303 original size:20 final size:20
Alignment explanation
Indices: 6689089--6689305 Score: 161
Period size: 20 Copynumber: 11.4 Consensus size: 20
6689079 AACGCGAATT
*
6689089 TAGTCATTTTCGCGTCGCGA
1 TAGTCATTTTCGCGTTGCGA
** *
6689109 TAGTCAAATTCGCATTGCGA
1 TAGTCATTTTCGCGTTGCGA
* *
6689129 T--T-A---TCGTGTTACGA
1 TAGTCATTTTCGCGTTGCGA
** *
6689143 TAGTCAAATTCACGTTGCGA
1 TAGTCATTTTCGCGTTGCGA
*
6689163 TAGTCATTTTTGCGTTGCGA
1 TAGTCATTTTCGCGTTGCGA
*
6689183 TAGTCATTTTCGCATTGCGA
1 TAGTCATTTTCGCGTTGCGA
** * *
6689203 TAGTCAAATTCCCATTGCGA
1 TAGTCATTTTCGCGTTGCGA
*
6689223 T--T-A---TCGTGTTGCGA
1 TAGTCATTTTCGCGTTGCGA
**
6689237 TAGTCAAATTCGCGTTGCGA
1 TAGTCATTTTCGCGTTGCGA
* *
6689257 TAGTCATTTCCGCGTTACGA
1 TAGTCATTTTCGCGTTGCGA
*
6689277 TAGTCATTTTCGCGTTACGA
1 TAGTCATTTTCGCGTTGCGA
6689297 TAGTCATTT
1 TAGTCATTT
6689306 CCGCATTACG
Statistics
Matches: 157, Mismatches: 28, Indels: 24
0.75 0.13 0.11
Matches are distributed among these distances:
14 18 0.11
16 2 0.01
17 4 0.03
18 2 0.01
20 131 0.83
ACGTcount: A:0.22, C:0.20, G:0.21, T:0.37
Consensus pattern (20 bp):
TAGTCATTTTCGCGTTGCGA
Found at i:6689314 original size:20 final size:20
Alignment explanation
Indices: 6689234--6689317 Score: 116
Period size: 20 Copynumber: 4.2 Consensus size: 20
6689224 TATCGTGTTG
* *
6689234 CGATAGTCAAATT-CGCGTTG
1 CGATAGTC-ATTTCCGCGTTA
6689254 CGATAGTCATTTCCGCGTTA
1 CGATAGTCATTTCCGCGTTA
*
6689274 CGATAGTCATTTTCGCGTTA
1 CGATAGTCATTTCCGCGTTA
*
6689294 CGATAGTCATTTCCGCATTA
1 CGATAGTCATTTCCGCGTTA
6689314 CGAT
1 CGAT
6689318 TTTAAGTTTT
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
19 3 0.05
20 55 0.95
ACGTcount: A:0.23, C:0.23, G:0.20, T:0.35
Consensus pattern (20 bp):
CGATAGTCATTTCCGCGTTA
Found at i:6689318 original size:94 final size:95
Alignment explanation
Indices: 6689089--6689318 Score: 349
Period size: 94 Copynumber: 2.5 Consensus size: 95
6689079 AACGCGAATT
*
6689089 TAGTCATTTTCGCGTCGCGATAGTCAAATT-CGCATTGCGATTATCGTGTTACGATAGTCAAATT
1 TAGTCATTTTCGCGTTGCGATAGTCAAATTCCGCATTGCGATTATCGTGTTACGATAGTCAAATT
** *
6689153 CACGTTGCGATAGTCATTTTTGCGTTGCGA
66 CACGTTGCGATAGTCATTTCCGCGTTACGA
* *
6689183 TAGTCATTTTCGCATTGCGATAGTCAAATTCC-CATTGCGATTATCGTGTTGCGATAGTCAAATT
1 TAGTCATTTTCGCGTTGCGATAGTCAAATTCCGCATTGCGATTATCGTGTTACGATAGTCAAATT
*
6689247 CGCGTTGCGATAGTCATTTCCGCGTTACGA
66 CACGTTGCGATAGTCATTTCCGCGTTACGA
* * *
6689277 TAGTCATTTTCGCGTTACGATAGTC-ATTTCCGCATTACGATT
1 TAGTCATTTTCGCGTTGCGATAGTCAAATTCCGCATTGCGATT
6689319 TTAAGTTTTG
Statistics
Matches: 123, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
93 5 0.04
94 117 0.95
95 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.21, T:0.37
Consensus pattern (95 bp):
TAGTCATTTTCGCGTTGCGATAGTCAAATTCCGCATTGCGATTATCGTGTTACGATAGTCAAATT
CACGTTGCGATAGTCATTTCCGCGTTACGA
Found at i:6691431 original size:20 final size:20
Alignment explanation
Indices: 6691406--6691463 Score: 89
Period size: 20 Copynumber: 2.9 Consensus size: 20
6691396 AGGTACACTT
*
6691406 TCGCAATGCGAAAGTCATAA
1 TCGCAATGCGAAAGTCAAAA
*
6691426 TCGCAATGCGAAAGCCAAAA
1 TCGCAATGCGAAAGTCAAAA
*
6691446 TCGCAACGCGAAAGTCAA
1 TCGCAATGCGAAAGTCAA
6691464 TTCGTGTTGC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.41, C:0.24, G:0.21, T:0.14
Consensus pattern (20 bp):
TCGCAATGCGAAAGTCAAAA
Found at i:6691507 original size:20 final size:20
Alignment explanation
Indices: 6691482--6691732 Score: 343
Period size: 20 Copynumber: 12.8 Consensus size: 20
6691472 GCGATTTTCT
*
6691482 CGTTGCGATAGTCAAATTCC
1 CGTTGCGATAGTCAAATTCG
* *
6691502 CGTTGCGATAATCAAATTCA
1 CGTTGCGATAGTCAAATTCG
*
6691522 TGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
* *
6691542 CGTTGAGAT--T----TTTG
1 CGTTGCGATAGTCAAATTCG
6691556 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
* *
6691576 CGTTGCAATAGTCATATTCG
1 CGTTGCGATAGTCAAATTCG
* *
6691596 CGTTACGATAGTCAAACTCG
1 CGTTGCGATAGTCAAATTCG
6691616 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
*
6691636 CGTTGCGATAGACAAATTCG
1 CGTTGCGATAGTCAAATTCG
*
6691656 GGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
6691676 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
6691696 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
*
6691716 CGTTGCGATATTCAAAT
1 CGTTGCGATAGTCAAAT
6691733 GAATGTGTAA
Statistics
Matches: 202, Mismatches: 23, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
14 11 0.05
16 1 0.00
18 1 0.00
20 189 0.94
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.31
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTCG
Found at i:6691507 original size:34 final size:34
Alignment explanation
Indices: 6691453--6691704 Score: 141
Period size: 40 Copynumber: 6.7 Consensus size: 34
6691443 AAATCGCAAC
* *
6691453 GCGAAAGTC-AATTCGTGTTGCGATTTTCTCGTT
1 GCGATAGTCAAATTCGCGTTGCGATTTTCTCGTT
*
6691486 GCGATAGTCAAATTCCCGTTGCGATAATCAAATTCAT-GTT
1 GCGATAGTCAAATTCGCGTTGCGAT--T----TTC-TCGTT
*
6691526 GCGATAGTCAAATTCGCGTTGAGATTTT-TGCGTT
1 GCGATAGTCAAATTCGCGTTGCGATTTTCT-CGTT
* *
6691560 GCGATAGTCAAATTCGCGTTGCAATAGTCATATTCGCGTT
1 GCGATAGTCAAATTCGCGTTGC----G--ATTTTCTCGTT
* * *
6691600 ACGATAGTCAAACTCGCGTTGCGATAGTCAAATTCGCGTT
1 GCGATAGTCAAATTCGCGTTGCGAT--T----TTCTCGTT
* * *
6691640 GCGATAGACAAATTCGGGTTGCGATAGTCAAATTCGCGTT
1 GCGATAGTCAAATTCGCGTTGCGAT--T----TTCTCGTT
6691680 GCGATAGTCAAATTCGCGTTGCGAT
1 GCGATAGTCAAATTCGCGTTGCGAT
6691705 AGTCAAATTC
Statistics
Matches: 179, Mismatches: 17, Indels: 39
0.76 0.07 0.17
Matches are distributed among these distances:
32 1 0.01
33 8 0.04
34 41 0.23
36 2 0.01
38 2 0.01
40 124 0.69
41 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (34 bp):
GCGATAGTCAAATTCGCGTTGCGATTTTCTCGTT
Found at i:6692069 original size:18 final size:18
Alignment explanation
Indices: 6692046--6692080 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
6692036 AAGCCGGTTG
*
6692046 TGATTGGGATATTGATTT
1 TGATTGCGATATTGATTT
*
6692064 TGATTGCGATTTTGATT
1 TGATTGCGATATTGATT
6692081 GCCTTTTGCT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.20, C:0.03, G:0.26, T:0.51
Consensus pattern (18 bp):
TGATTGCGATATTGATTT
Found at i:6695018 original size:20 final size:20
Alignment explanation
Indices: 6694993--6695040 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
6694983 GAAATTCAGT
6694993 GTTGCGATAGTCAGAATCGC
1 GTTGCGATAGTCAGAATCGC
*
6695013 GTTGCGATAGTCAGTATCGC
1 GTTGCGATAGTCAGAATCGC
*
6695033 ATTGCGAT
1 GTTGCGAT
6695041 TTACATATTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.29
Consensus pattern (20 bp):
GTTGCGATAGTCAGAATCGC
Found at i:6695171 original size:19 final size:19
Alignment explanation
Indices: 6695147--6695183 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
6695137 TGCGATACTG
* *
6695147 GAGATCGCGTTGCGATTTA
1 GAGATCGCATTGCAATTTA
6695166 GAGATCGCATTGCAATTT
1 GAGATCGCATTGCAATTT
6695184 TGTTGGTCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.32
Consensus pattern (19 bp):
GAGATCGCATTGCAATTTA
Found at i:6697858 original size:18 final size:18
Alignment explanation
Indices: 6697837--6697892 Score: 94
Period size: 18 Copynumber: 3.1 Consensus size: 18
6697827 CTCTGCTACA
*
6697837 CAAAACGAGTCTGATACC
1 CAAAACGAGTCTAATACC
*
6697855 CAAAACGAGTGTAATACC
1 CAAAACGAGTCTAATACC
6697873 CAAAACGAGTCTAATACC
1 CAAAACGAGTCTAATACC
6697891 CA
1 CA
6697893 TGAAACTTTC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.43, C:0.27, G:0.14, T:0.16
Consensus pattern (18 bp):
CAAAACGAGTCTAATACC
Found at i:6698174 original size:23 final size:23
Alignment explanation
Indices: 6698144--6698189 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
6698134 TGATGGTAGT
6698144 TCATCATATCTCTCCAACAACAC
1 TCATCATATCTCTCCAACAACAC
*
6698167 TCATCATATCTCTTCAACAACAC
1 TCATCATATCTCTCCAACAACAC
6698190 CTTCAATGCA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.28
Consensus pattern (23 bp):
TCATCATATCTCTCCAACAACAC
Found at i:6699832 original size:30 final size:30
Alignment explanation
Indices: 6699623--6699815 Score: 359
Period size: 30 Copynumber: 6.4 Consensus size: 30
6699613 TCCGAAGGAC
*
6699623 CTATCCAGAGGTCATAAAGATCTTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
6699653 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
6699683 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
*
6699713 CTATCAAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
6699743 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
6699773 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
*
6699803 CTATCCATAGGTC
1 CTATCCAGAGGTC
6699816 CCGAAGAACC
Statistics
Matches: 159, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 159 1.00
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.24
Consensus pattern (30 bp):
CTATCCAGAGGTCATAAAGATCCTCGGTAA
Found at i:6699832 original size:90 final size:90
Alignment explanation
Indices: 6699623--6699840 Score: 319
Period size: 90 Copynumber: 2.4 Consensus size: 90
6699613 TCCGAAGGAC
* * * * *
6699623 CTATCCAGAGGTCATAAAGATCTTCGGTAACTATCCAGAGGTCATAAAGATCCTCGGTAACTATC
1 CTATCAAGAGGTCACAAAGAACCTAGGTAACTATCCAGAGGTCATAAAGATCCTCGGTAACTATC
6699688 CAGAGGTCATAAAGATCCTCGGTAA
66 CAGAGGTCATAAAGATCCTCGGTAA
* * *
6699713 CTATCAAGAGGTCATAAAGATCCTCGGTAACTATCCAGAGGTCATAAAGATCCTCGGTAACTATC
1 CTATCAAGAGGTCACAAAGAACCTAGGTAACTATCCAGAGGTCATAAAGATCCTCGGTAACTATC
6699778 CAGAGGTCATAAAGATCCTCGGTAA
66 CAGAGGTCATAAAGATCCTCGGTAA
* * * *
6699803 CTATCCATAGGTCCCGAAGAACCTAGGTAAACTATCCA
1 CTATCAAGAGGTCACAAAGAACCTAGGT-AACTATCCA
6699841 TATGTTCCTT
Statistics
Matches: 118, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
90 109 0.92
91 9 0.08
ACGTcount: A:0.34, C:0.23, G:0.19, T:0.23
Consensus pattern (90 bp):
CTATCAAGAGGTCACAAAGAACCTAGGTAACTATCCAGAGGTCATAAAGATCCTCGGTAACTATC
CAGAGGTCATAAAGATCCTCGGTAA
Found at i:6699855 original size:31 final size:31
Alignment explanation
Indices: 6699801--6699893 Score: 98
Period size: 31 Copynumber: 3.0 Consensus size: 31
6699791 GATCCTCGGT
* *
6699801 AACTATCCATAGGTCCCGAAGAACCTAGGTA
1 AACTATCCATATGTCCCGAAGAACATAGGTA
* **
6699832 AACTATCCATATGTTCCTTAGAACATAGGTA
1 AACTATCCATATGTCCCGAAGAACATAGGTA
* * *
6699863 TACTGTCCATATGTCTCGAA-AGACATAGGTA
1 AACTATCCATATGTCCCGAAGA-ACATAGGTA
6699894 GTTCTTTGAC
Statistics
Matches: 50, Mismatches: 11, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
30 1 0.02
31 49 0.98
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.27
Consensus pattern (31 bp):
AACTATCCATATGTCCCGAAGAACATAGGTA
Found at i:6700972 original size:19 final size:20
Alignment explanation
Indices: 6700935--6700972 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
6700925 TTTTTCATTA
*
6700935 TGGGGGAATCGGTTCCCCCC
1 TGGGGGAATCGATTCCCCCC
*
6700955 TGGGGGTATCGATTCCCC
1 TGGGGGAATCGATTCCCC
6700973 TCTAGCATTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.11, C:0.32, G:0.34, T:0.24
Consensus pattern (20 bp):
TGGGGGAATCGATTCCCCCC
Found at i:6704408 original size:30 final size:30
Alignment explanation
Indices: 6704372--6704564 Score: 350
Period size: 30 Copynumber: 6.4 Consensus size: 30
6704362 TCCGAAGGAC
*
6704372 CTATCCAGAGGTCATAAAGATCTTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
6704402 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
6704432 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
6704462 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
*
6704492 CTATCCAGAGGTCATAAAGATCCTCAGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
*
6704522 CTATCCAGAGGTCATAAAGATCCTCGATAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
*
6704552 CTATCCATAGGTC
1 CTATCCAGAGGTC
6704565 CCGAAGAACC
Statistics
Matches: 158, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 158 1.00
ACGTcount: A:0.34, C:0.23, G:0.19, T:0.24
Consensus pattern (30 bp):
CTATCCAGAGGTCATAAAGATCCTCGGTAA
Found at i:6704581 original size:90 final size:90
Alignment explanation
Indices: 6704372--6704589 Score: 319
Period size: 90 Copynumber: 2.4 Consensus size: 90
6704362 TCCGAAGGAC
* * * * *
6704372 CTATCCAGAGGTCATAAAGATCTTCGGTAACTATCCAGAGGTCATAAAGATCCTCGGTAACTATC
1 CTATCCAGAGGTCACAAAGAACCTAGGTAACTATCCAGAGGTCATAAAGATCCTCAGTAACTATC
*
6704437 CAGAGGTCATAAAGATCCTCGGTAA
66 CAGAGGTCATAAAGATCCTCGATAA
* * *
6704462 CTATCCAGAGGTCATAAAGATCCTCGGTAACTATCCAGAGGTCATAAAGATCCTCAGTAACTATC
1 CTATCCAGAGGTCACAAAGAACCTAGGTAACTATCCAGAGGTCATAAAGATCCTCAGTAACTATC
6704527 CAGAGGTCATAAAGATCCTCGATAA
66 CAGAGGTCATAAAGATCCTCGATAA
* * *
6704552 CTATCCATAGGTCCCGAAGAACCTAGGTAAACTATCCA
1 CTATCCAGAGGTCACAAAGAACCTAGGT-AACTATCCA
6704590 TATGTTCCTT
Statistics
Matches: 118, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
90 109 0.92
91 9 0.08
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.23
Consensus pattern (90 bp):
CTATCCAGAGGTCACAAAGAACCTAGGTAACTATCCAGAGGTCATAAAGATCCTCAGTAACTATC
CAGAGGTCATAAAGATCCTCGATAA
Found at i:6704604 original size:31 final size:31
Alignment explanation
Indices: 6704550--6704639 Score: 92
Period size: 31 Copynumber: 2.9 Consensus size: 31
6704540 GATCCTCGAT
* *
6704550 AACTATCCATAGGTCCCGAAGAACCTAGGTA
1 AACTATCCATATGTCCCGAAGAACATAGGTA
* **
6704581 AACTATCCATATGTTCCTTAGAACATAGGTA
1 AACTATCCATATGTCCCGAAGAACATAGGTA
* * *
6704612 TACTGTCCATATGTCTCGAA-AGACATAG
1 AACTATCCATATGTCCCGAAGA-ACATAG
6704640 ATAGTTCTTT
Statistics
Matches: 47, Mismatches: 11, Indels: 2
0.78 0.18 0.03
Matches are distributed among these distances:
30 1 0.02
31 46 0.98
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.27
Consensus pattern (31 bp):
AACTATCCATATGTCCCGAAGAACATAGGTA
Found at i:6704825 original size:4 final size:4
Alignment explanation
Indices: 6704816--6704844 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
6704806 ATATAACCAT
6704816 TACA TACA TACA TACA TACA TACA TACA T
1 TACA TACA TACA TACA TACA TACA TACA T
6704845 GTCATCATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.48, C:0.24, G:0.00, T:0.28
Consensus pattern (4 bp):
TACA
Found at i:6705728 original size:19 final size:20
Alignment explanation
Indices: 6705691--6705728 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
6705681 TTTTTCATTA
*
6705691 TGGGGGAATCGGTTCCCCCC
1 TGGGGGAATCGATTCCCCCC
*
6705711 TGGGGGTATCGATTCCCC
1 TGGGGGAATCGATTCCCC
6705729 TATAGCATTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.11, C:0.32, G:0.34, T:0.24
Consensus pattern (20 bp):
TGGGGGAATCGATTCCCCCC
Found at i:6709782 original size:25 final size:25
Alignment explanation
Indices: 6709754--6709821 Score: 127
Period size: 25 Copynumber: 2.7 Consensus size: 25
6709744 TTACCTGAGG
6709754 CAAATTTTGCATCAGGAATGAGTGA
1 CAAATTTTGCATCAGGAATGAGTGA
6709779 CAAATTTTGCATCAGGAATGAGTGA
1 CAAATTTTGCATCAGGAATGAGTGA
*
6709804 CAAATTTTGCACCAGGAA
1 CAAATTTTGCATCAGGAA
6709822 GTGCCTCAGC
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.37, C:0.15, G:0.22, T:0.26
Consensus pattern (25 bp):
CAAATTTTGCATCAGGAATGAGTGA
Found at i:6715399 original size:17 final size:17
Alignment explanation
Indices: 6715369--6715407 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
6715359 TTGACCGGTT
* *
6715369 TTGACTCGATCCGACCG
1 TTGACCCGACCCGACCG
6715386 TTGACCCGACCCGACCG
1 TTGACCCGACCCGACCG
6715403 TTGAC
1 TTGAC
6715408 ATTCTGGGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.18, C:0.38, G:0.23, T:0.21
Consensus pattern (17 bp):
TTGACCCGACCCGACCG
Found at i:6715458 original size:29 final size:29
Alignment explanation
Indices: 6715412--6715482 Score: 97
Period size: 29 Copynumber: 2.4 Consensus size: 29
6715402 GTTGACATTC
* *
6715412 TGGGAATTAATTCGATTTTGGTTATATTA
1 TGGGAATTAATTCAATTTTGGTGATATTA
* *
6715441 TGGGAATTAATTCAATTTTGGTGCTATTT
1 TGGGAATTAATTCAATTTTGGTGATATTA
*
6715470 TGGGAATTTATTC
1 TGGGAATTAATTC
6715483 GGAAAAGGTG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.25, C:0.06, G:0.21, T:0.48
Consensus pattern (29 bp):
TGGGAATTAATTCAATTTTGGTGATATTA
Found at i:6715574 original size:29 final size:29
Alignment explanation
Indices: 6715460--6715563 Score: 158
Period size: 29 Copynumber: 3.6 Consensus size: 29
6715450 ATTCAATTTT
*
6715460 GGTGCTATTTTGGGAATTT-ATTCGGAAAA
1 GGTGCTATTTTGGGAATTTAATT-TGAAAA
6715489 GGTGCTATTTTGGGAATTTAATTTGAAAA
1 GGTGCTATTTTGGGAATTTAATTTGAAAA
*
6715518 -GTACTATTTTGGGAATTTAATTTGAAAA
1 GGTGCTATTTTGGGAATTTAATTTGAAAA
*
6715546 GGTGCTATTTTGGTAATT
1 GGTGCTATTTTGGGAATT
6715564 ATTTTTAAAA
Statistics
Matches: 69, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
28 27 0.39
29 39 0.57
30 3 0.04
ACGTcount: A:0.29, C:0.05, G:0.24, T:0.42
Consensus pattern (29 bp):
GGTGCTATTTTGGGAATTTAATTTGAAAA
Found at i:6716309 original size:24 final size:24
Alignment explanation
Indices: 6716277--6716340 Score: 74
Period size: 24 Copynumber: 2.7 Consensus size: 24
6716267 ATAGTTTATC
*
6716277 TGATTTTTGACCTGGATTCTAATA
1 TGATATTTGACCTGGATTCTAATA
* * *
6716301 TGATATTTGACCTGAATTTTTATA
1 TGATATTTGACCTGGATTCTAATA
* *
6716325 TGATACTTGACATGGA
1 TGATATTTGACCTGGA
6716341 CTCTGATTTG
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.28, C:0.11, G:0.17, T:0.44
Consensus pattern (24 bp):
TGATATTTGACCTGGATTCTAATA
Found at i:6716388 original size:2 final size:2
Alignment explanation
Indices: 6716381--6716428 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
6716371 TTAATTTTTG
6716381 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6716423 AT AT AT
1 AT AT AT
6716429 GTTATAAGCG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6716915 original size:17 final size:19
Alignment explanation
Indices: 6716888--6716926 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
6716878 ATATCTGTAT
6716888 TATTAATATTT-TGTTCTA
1 TATTAATATTTATGTTCTA
6716906 TATT-ATATTTAATGTTCTA
1 TATTAATATTT-ATGTTCTA
6716925 TA
1 TA
6716927 AGTTATAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 6 0.32
18 4 0.21
19 9 0.47
ACGTcount: A:0.31, C:0.05, G:0.05, T:0.59
Consensus pattern (19 bp):
TATTAATATTTATGTTCTA
Found at i:6722114 original size:17 final size:17
Alignment explanation
Indices: 6722092--6722130 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
6722082 TTGACCGGTT
6722092 TTGACCCGACCCGACCG
1 TTGACCCGACCCGACCG
6722109 TTGACCCGACCCGACCG
1 TTGACCCGACCCGACCG
6722126 TTGAC
1 TTGAC
6722131 TGTTGACCGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.18, C:0.44, G:0.23, T:0.15
Consensus pattern (17 bp):
TTGACCCGACCCGACCG
Found at i:6722205 original size:29 final size:29
Alignment explanation
Indices: 6722139--6722219 Score: 90
Period size: 29 Copynumber: 2.8 Consensus size: 29
6722129 ACTGTTGACC
* **
6722139 GGTGATATTCTGAGAATTAATTTGATTTT
1 GGTGATATTCTGGGAATTAATTCAATTTT
*
6722168 GGTTATATTCTGGGAATTAATTCAATTTT
1 GGTGATATTCTGGGAATTAATTCAATTTT
* * * *
6722197 GGTGCTATTTTAGGAATTTATTC
1 GGTGATATTCTGGGAATTAATTC
6722220 GAAAAAGGTG
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.26, C:0.06, G:0.20, T:0.48
Consensus pattern (29 bp):
GGTGATATTCTGGGAATTAATTCAATTTT
Found at i:6722229 original size:29 final size:30
Alignment explanation
Indices: 6722197--6722322 Score: 163
Period size: 29 Copynumber: 4.3 Consensus size: 30
6722187 ATTCAATTTT
* *
6722197 GGTGCTATTTTAGGAATTT-ATTCGAAAAA
1 GGTGCTATTTTGGGAATTTAATTTGAAAAA
6722226 GGTGCTATTTTGGGAATTTAATTTGAAAAA
1 GGTGCTATTTTGGGAATTTAATTTGAAAAA
6722256 -GTGCTATTTTGGGAATTTAATTTG-AAAA
1 GGTGCTATTTTGGGAATTTAATTTGAAAAA
* * *
6722284 TGTGCTATTTTGGTAA-TT-ATTTTAAAAA
1 GGTGCTATTTTGGGAATTTAATTTGAAAAA
6722312 GGGTGCTATTT
1 -GGTGCTATTT
6722323 CTATAAAATA
Statistics
Matches: 88, Mismatches: 5, Indels: 8
0.87 0.05 0.08
Matches are distributed among these distances:
27 4 0.05
28 10 0.11
29 65 0.74
30 9 0.10
ACGTcount: A:0.31, C:0.05, G:0.21, T:0.43
Consensus pattern (30 bp):
GGTGCTATTTTGGGAATTTAATTTGAAAAA
Found at i:6723044 original size:24 final size:24
Alignment explanation
Indices: 6723008--6723078 Score: 61
Period size: 24 Copynumber: 3.0 Consensus size: 24
6722998 ATAGTTTATC
* *
6723008 TGATTTTTTACCTGGATTCTGATA
1 TGATATTTAACCTGGATTCTGATA
* * *
6723032 TGATATTTAACCTGAATTTTTATA
1 TGATATTTAACCTGGATTCTGATA
* * * *
6723056 TGATACTTGACATGGACTCTGAT
1 TGATATTTAACCTGGATTCTGAT
6723079 TTGTACTTGA
Statistics
Matches: 35, Mismatches: 12, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.27, C:0.13, G:0.15, T:0.45
Consensus pattern (24 bp):
TGATATTTAACCTGGATTCTGATA
Found at i:6732307 original size:23 final size:23
Alignment explanation
Indices: 6732250--6732308 Score: 68
Period size: 21 Copynumber: 2.7 Consensus size: 23
6732240 AAAAATGTTG
*
6732250 AAAATCCACCGAAAGGTGGAATT
1 AAAATCCACCGAAAAGTGGAATT
* *
6732273 --AATCCACAGAAAAGTGGATTT
1 AAAATCCACCGAAAAGTGGAATT
*
6732294 AAAATCTACCGAAAA
1 AAAATCCACCGAAAA
6732309 ACAAAATGTC
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
21 18 0.62
23 11 0.38
ACGTcount: A:0.47, C:0.17, G:0.17, T:0.19
Consensus pattern (23 bp):
AAAATCCACCGAAAAGTGGAATT
Found at i:6736461 original size:32 final size:32
Alignment explanation
Indices: 6736420--6736494 Score: 123
Period size: 32 Copynumber: 2.3 Consensus size: 32
6736410 ATGATATGTG
6736420 TTCAAAGTTGCTGGTGGAGCTGTAAGCTAGGT
1 TTCAAAGTTGCTGGTGGAGCTGTAAGCTAGGT
* *
6736452 TTCAAAGTTGCTGGTGGAGTTGTAAGCTGGGT
1 TTCAAAGTTGCTGGTGGAGCTGTAAGCTAGGT
*
6736484 TTCAAAATTGC
1 TTCAAAGTTGC
6736495 AATCAGTTGT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.23, C:0.12, G:0.32, T:0.33
Consensus pattern (32 bp):
TTCAAAGTTGCTGGTGGAGCTGTAAGCTAGGT
Found at i:6736949 original size:23 final size:23
Alignment explanation
Indices: 6736892--6736950 Score: 68
Period size: 21 Copynumber: 2.7 Consensus size: 23
6736882 GAGATTGTTG
*
6736892 AAAATCTACCGAAAGGTGGAATT
1 AAAATCTACCGAAAAGTGGAATT
* * *
6736915 --AATCCACAGAAAAGTGGATTT
1 AAAATCTACCGAAAAGTGGAATT
6736936 AAAATCTACCGAAAA
1 AAAATCTACCGAAAA
6736951 ACAAAATGTC
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
21 17 0.61
23 11 0.39
ACGTcount: A:0.47, C:0.15, G:0.17, T:0.20
Consensus pattern (23 bp):
AAAATCTACCGAAAAGTGGAATT
Found at i:6764500 original size:28 final size:29
Alignment explanation
Indices: 6764414--6764609 Score: 209
Period size: 29 Copynumber: 6.8 Consensus size: 29
6764404 GACCGTATGC
6764414 TATTTTCGTAATTATTTTTAAAATAGTGT
1 TATTTTCGTAATTATTTTTAAAATAGTGT
* * * *
6764443 TTTTTTTGTAATTATTTTGAAAATGGTGT
1 TATTTTCGTAATTATTTTTAAAATAGTGT
**
6764472 TATTTTCAAAATTATTTTTAAAA-AGTGT
1 TATTTTCGTAATTATTTTTAAAATAGTGT
* *
6764500 TATTTTCGTACTTATTTTTAAAAT-GTTGC
1 TATTTTCGTAATTATTTTTAAAATAG-TGT
* *
6764529 TATTTT-GTAATTATTTTTAAAAGAGTGA
1 TATTTTCGTAATTATTTTTAAAATAGTGT
* ** *
6764557 TAGTTTCGTAATTATTTTTAAAAGGGTGA
1 TATTTTCGTAATTATTTTTAAAATAGTGT
* *
6764586 TAGTTTCGTAAATATTTCTTAAAA
1 TATTTTCGTAATTATTT-TTAAAA
6764610 GGGTGATAAT
Statistics
Matches: 142, Mismatches: 20, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
28 47 0.33
29 89 0.63
30 6 0.04
ACGTcount: A:0.32, C:0.04, G:0.13, T:0.52
Consensus pattern (29 bp):
TATTTTCGTAATTATTTTTAAAATAGTGT
Found at i:6764533 original size:57 final size:58
Alignment explanation
Indices: 6764411--6764610 Score: 242
Period size: 57 Copynumber: 3.5 Consensus size: 58
6764401 GTTGACCGTA
* * * *
6764411 TGCTATTTTCGTAATTATTTTTAAAATAGTGTTTTTTTTGTAATTATTTTGAAAATGG
1 TGCTATTTTCGTAATTATTTTTAAAAGAGTGTTATTTTCGTAATTATTTTTAAAATGG
* ** * *
6764469 TGTTATTTTCAAAATTATTTTTAAAA-AGTGTTATTTTCGTACTTATTTTTAAAATGT
1 TGCTATTTTCGTAATTATTTTTAAAAGAGTGTTATTTTCGTAATTATTTTTAAAATGG
* * *
6764526 TGCTATTTT-GTAATTATTTTTAAAAGAGTGATAGTTTCGTAATTATTTTTAAAAGGG
1 TGCTATTTTCGTAATTATTTTTAAAAGAGTGTTATTTTCGTAATTATTTTTAAAATGG
* * *
6764583 TGATAGTTTCGTAAATATTTCTTAAAAG
1 TGCTATTTTCGTAATTATTT-TTAAAAG
6764611 GGTGATAATT
Statistics
Matches: 120, Mismatches: 19, Indels: 5
0.83 0.13 0.03
Matches are distributed among these distances:
56 14 0.12
57 67 0.56
58 32 0.27
59 7 0.06
ACGTcount: A:0.31, C:0.04, G:0.14, T:0.51
Consensus pattern (58 bp):
TGCTATTTTCGTAATTATTTTTAAAAGAGTGTTATTTTCGTAATTATTTTTAAAATGG
Found at i:6765342 original size:24 final size:24
Alignment explanation
Indices: 6765315--6765397 Score: 87
Period size: 24 Copynumber: 3.5 Consensus size: 24
6765305 ATAGTTTATC
*
6765315 TGATTTTTGACATGGATTTTGATA
1 TGATATTTGACATGGATTTTGATA
* *
6765339 TGATATTTGACCTGGATTTTTATA
1 TGATATTTGACATGGATTTTGATA
* *
6765363 TAATACTTT-ACATGGATTCTGATA
1 TGATA-TTTGACATGGATTTTGATA
* *
6765387 TGCTACTTGAC
1 TGATATTTGAC
6765398 CTGAATTATG
Statistics
Matches: 47, Mismatches: 10, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
23 2 0.04
24 42 0.89
25 3 0.06
ACGTcount: A:0.27, C:0.11, G:0.17, T:0.46
Consensus pattern (24 bp):
TGATATTTGACATGGATTTTGATA
Found at i:6765427 original size:2 final size:2
Alignment explanation
Indices: 6765420--6765477 Score: 116
Period size: 2 Copynumber: 29.0 Consensus size: 2
6765410 TCAATTTTTG
6765420 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6765462 AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT
6765478 CGTTACGAAT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 56 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6774641 original size:18 final size:18
Alignment explanation
Indices: 6774618--6774652 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
6774608 CCGCGTAGAA
6774618 ATGTCCC-AGAGGACCACT
1 ATGTCCCGA-AGGACCACT
6774636 ATGTCCCGAAGGACCAC
1 ATGTCCCGAAGGACCAC
6774653 ATATCACATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 15 0.94
19 1 0.06
ACGTcount: A:0.29, C:0.34, G:0.23, T:0.14
Consensus pattern (18 bp):
ATGTCCCGAAGGACCACT
Found at i:6774791 original size:23 final size:23
Alignment explanation
Indices: 6774761--6774804 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
6774751 ATTACATATA
6774761 TGTCCCGAAGGACCACGTAGAAT
1 TGTCCCGAAGGACCACGTAGAAT
*
6774784 TGTCCCGAAGGACCGCGTAGA
1 TGTCCCGAAGGACCACGTAGA
6774805 CCCTCGACTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.27, C:0.27, G:0.30, T:0.16
Consensus pattern (23 bp):
TGTCCCGAAGGACCACGTAGAAT
Found at i:6778457 original size:2 final size:2
Alignment explanation
Indices: 6778450--6778475 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
6778440 TCATCAAACC
6778450 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
6778476 CCAGTCAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6784416 original size:22 final size:22
Alignment explanation
Indices: 6784391--6784449 Score: 100
Period size: 22 Copynumber: 2.7 Consensus size: 22
6784381 GGAGGACTAT
6784391 TATGTCCCGAAGGACCACTAGA
1 TATGTCCCGAAGGACCACTAGA
*
6784413 TATGTCCCGAAGGACCACTGGA
1 TATGTCCCGAAGGACCACTAGA
*
6784435 TACGTCCCGAAGGAC
1 TATGTCCCGAAGGAC
6784450 TAATATACCC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.29, C:0.29, G:0.25, T:0.17
Consensus pattern (22 bp):
TATGTCCCGAAGGACCACTAGA
Found at i:6806523 original size:18 final size:18
Alignment explanation
Indices: 6806500--6806534 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
6806490 TTCCATCCGG
*
6806500 TCTTATTATTTAATTCAA
1 TCTTATCATTTAATTCAA
*
6806518 TCTTATCATTTACTTCA
1 TCTTATCATTTAATTCA
6806535 GTCCTTTCGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.17, G:0.00, T:0.54
Consensus pattern (18 bp):
TCTTATCATTTAATTCAA
Found at i:6807874 original size:18 final size:18
Alignment explanation
Indices: 6807848--6807890 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
6807838 GGGTCAACGA
*
6807848 GTCGAGTCAACGGGTCGG
1 GTCGGGTCAACGGGTCGG
6807866 GTCGGGTCAACGGGTCGG
1 GTCGGGTCAACGGGTCGG
6807884 GTCGGGT
1 GTCGGGT
6807891 TGTGACCGGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.12, C:0.21, G:0.49, T:0.19
Consensus pattern (18 bp):
GTCGGGTCAACGGGTCGG
Found at i:6813026 original size:18 final size:18
Alignment explanation
Indices: 6813000--6813042 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
6812990 GGGTCAACGA
*
6813000 GTCGAGTCAACGGGTCGG
1 GTCGGGTCAACGGGTCGG
6813018 GTCGGGTCAACGGGTCGG
1 GTCGGGTCAACGGGTCGG
6813036 GTCGGGT
1 GTCGGGT
6813043 TGTGACCGGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.12, C:0.21, G:0.49, T:0.19
Consensus pattern (18 bp):
GTCGGGTCAACGGGTCGG
Found at i:6816834 original size:18 final size:18
Alignment explanation
Indices: 6816811--6816845 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
6816801 TTCCATCCGG
*
6816811 TCTTATTATTTAATTCAA
1 TCTTATCATTTAATTCAA
*
6816829 TCTTATCATTTACTTCA
1 TCTTATCATTTAATTCA
6816846 GTCCTTTCGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.17, G:0.00, T:0.54
Consensus pattern (18 bp):
TCTTATCATTTAATTCAA
Found at i:6818165 original size:18 final size:18
Alignment explanation
Indices: 6818166--6818211 Score: 83
Period size: 18 Copynumber: 2.6 Consensus size: 18
6818156 GTCGGGTCAA
6818166 CGGGTCGGGTAAACGGGT
1 CGGGTCGGGTAAACGGGT
*
6818184 CGGGTCTGGTAAACGGGT
1 CGGGTCGGGTAAACGGGT
6818202 CGGGTCGGGT
1 CGGGTCGGGT
6818212 TGTGACCGGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.13, C:0.17, G:0.50, T:0.20
Consensus pattern (18 bp):
CGGGTCGGGTAAACGGGT
Found at i:6818169 original size:13 final size:13
Alignment explanation
Indices: 6818153--6818189 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
6818143 GTCAACGGGT
6818153 CGGGTCGGGTCAA
1 CGGGTCGGGTCAA
*
6818166 CGGGTCGGGTAAA
1 CGGGTCGGGTCAA
6818179 CGGGTCGGGTC
1 CGGGTCGGGTC
6818190 TGGTAAACGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.14, C:0.22, G:0.49, T:0.16
Consensus pattern (13 bp):
CGGGTCGGGTCAA
Found at i:6818184 original size:31 final size:31
Alignment explanation
Indices: 6818146--6818206 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
6818136 GTCAACGGTC
*
6818146 AACGGGTCGGGTCGGGTCAACGGGTCGGGTA
1 AACGGGTCGGGTCGGGTAAACGGGTCGGGTA
*
6818177 AACGGGTCGGGTCTGGTAAACGGGTCGGGT
1 AACGGGTCGGGTCGGGTAAACGGGTCGGGT
6818207 CGGGTTGTGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.16, C:0.18, G:0.48, T:0.18
Consensus pattern (31 bp):
AACGGGTCGGGTCGGGTAAACGGGTCGGGTA
Found at i:6823481 original size:6 final size:6
Alignment explanation
Indices: 6823470--6823512 Score: 86
Period size: 6 Copynumber: 7.2 Consensus size: 6
6823460 TGGAATGCTC
6823470 TATGTT TATGTT TATGTT TATGTT TATGTT TATGTT TATGTT T
1 TATGTT TATGTT TATGTT TATGTT TATGTT TATGTT TATGTT T
6823513 CGATCTATTG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.16, C:0.00, G:0.16, T:0.67
Consensus pattern (6 bp):
TATGTT
Found at i:6823587 original size:6 final size:6
Alignment explanation
Indices: 6823576--6823600 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
6823566 CTTTTTGTAG
6823576 CTGGTT CTGGTT CTGGTT CTGGTT C
1 CTGGTT CTGGTT CTGGTT CTGGTT C
6823601 ATTGAACATC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.20, G:0.32, T:0.48
Consensus pattern (6 bp):
CTGGTT
Found at i:6824249 original size:45 final size:45
Alignment explanation
Indices: 6824185--6824276 Score: 175
Period size: 45 Copynumber: 2.0 Consensus size: 45
6824175 CATCAAGGTA
6824185 TGCACAATAATCAACCACTCTAGTCCCTTCAATCTTAACATTATG
1 TGCACAATAATCAACCACTCTAGTCCCTTCAATCTTAACATTATG
*
6824230 TGCACAATAATCAACCACTCTTGTCCCTTCAATCTTAACATTATG
1 TGCACAATAATCAACCACTCTAGTCCCTTCAATCTTAACATTATG
6824275 TG
1 TG
6824277 ACTCCATGTT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.32, C:0.28, G:0.08, T:0.33
Consensus pattern (45 bp):
TGCACAATAATCAACCACTCTAGTCCCTTCAATCTTAACATTATG
Found at i:6826411 original size:18 final size:18
Alignment explanation
Indices: 6826388--6826422 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
6826378 CTAGGAGATT
6826388 TGAACATA-AATGATAAGA
1 TGAACATATAA-GATAAGA
6826406 TGAACATATAAGATAAG
1 TGAACATATAAGATAAG
6826423 CTAGATGGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.54, C:0.06, G:0.17, T:0.23
Consensus pattern (18 bp):
TGAACATATAAGATAAGA
Found at i:6826759 original size:2 final size:2
Alignment explanation
Indices: 6826752--6826791 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
6826742 GAACATGTGA
6826752 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6826792 GTCTAAGAGA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6827510 original size:149 final size:149
Alignment explanation
Indices: 6827339--6827653 Score: 544
Period size: 149 Copynumber: 2.1 Consensus size: 149
6827329 GAGTCGAGGG
* **
6827339 TCTACGCGGTCCTTCGGGATATATATATATTCTTTGGAACATGTGTGAAGTCTGGTGAGACAAAT
1 TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTGGAAAGACAAAT
6827404 A-TATGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATT
66 ACT-TGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATT
6827468 ATATGGCACTACGGTGCAAT
130 ATATGGCACTACGGTGCAAT
* *
6827488 TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACACAT
1 TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTGGAAAGACAAAT
*
6827553 ACTTGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATTATTA
66 ACTTGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
6827618 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
6827637 TCTACGCGG-CACTTCGG
1 TCTACGCGGTC-CTTCGG
6827654 TGCAATTATA
Statistics
Matches: 158, Mismatches: 6, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
148 1 0.01
149 156 0.99
150 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.22, T:0.34
Consensus pattern (149 bp):
TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTGGAAAGACAAAT
ACTTGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
TATGGCACTACGGTGCAAT
Found at i:6827654 original size:23 final size:23
Alignment explanation
Indices: 6827621--6827665 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
6827611 ATTATTATAT
*
6827621 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTATACGC
*
6827644 GGCACTTCGGTGCAATTATACG
1 GGCACTACGGTGCAATTATACG
6827666 AGCTGTGGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.22, C:0.27, G:0.27, T:0.24
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGC
Found at i:6830958 original size:65 final size:65
Alignment explanation
Indices: 6830798--6830958 Score: 204
Period size: 64 Copynumber: 2.5 Consensus size: 65
6830788 TTGTTTAAGG
* * * **
6830798 TGCATCGATGCACATGCAGTGCATCGATGCAT--GAATTTAAATAGAAAACATCGAATAGGATTT
1 TGCATCGATGCATAAGGAGTGCATCGATGCATCCCCA-TTAAATAGAAAACATCGAATAGGATTT
6830861 A
65 A
*
6830862 TGCATCGATGCATAAGGAGTGCATCGATGCATCCCCATTAAATA-CAAACATCGAATAGGATTTA
1 TGCATCGATGCATAAGGAGTGCATCGATGCATCCCCATTAAATAGAAAACATCGAATAGGATTTA
*
6830926 TGCATCGATGCAT-GGTGTAGTGCATCGATGCAT
1 TGCATCGATGCATAAG-G-AGTGCATCGATGCAT
6830959 ACCTTCATTA
Statistics
Matches: 86, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
63 1 0.01
64 62 0.72
65 22 0.26
66 1 0.01
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.27
Consensus pattern (65 bp):
TGCATCGATGCATAAGGAGTGCATCGATGCATCCCCATTAAATAGAAAACATCGAATAGGATTTA
Found at i:6831473 original size:18 final size:18
Alignment explanation
Indices: 6831450--6831484 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
6831440 CTAGGAGATT
6831450 TGAACATA-AATGATAAGA
1 TGAACATATAA-GATAAGA
6831468 TGAACATATAAGATAAG
1 TGAACATATAAGATAAG
6831485 CTAGATGGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.54, C:0.06, G:0.17, T:0.23
Consensus pattern (18 bp):
TGAACATATAAGATAAGA
Found at i:6832556 original size:149 final size:149
Alignment explanation
Indices: 6832385--6832699 Score: 544
Period size: 149 Copynumber: 2.1 Consensus size: 149
6832375 GAGTCGAGGG
* **
6832385 TCTACGCGGTCCTTCGGGATATATATATATTCTTTGGAACATGTGTGAAGTCTGGTGAGACAAAT
1 TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTGGAAAGACAAAT
6832450 A-TATGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATT
66 ACT-TGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATT
6832514 ATATGGCACTACGGTGCAAT
130 ATATGGCACTACGGTGCAAT
* *
6832534 TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACACAT
1 TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTGGAAAGACAAAT
*
6832599 ACTTGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATTATTA
66 ACTTGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
6832664 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
6832683 TCTACGCGG-CACTTCGG
1 TCTACGCGGTC-CTTCGG
6832700 TGCAATTATA
Statistics
Matches: 158, Mismatches: 6, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
148 1 0.01
149 156 0.99
150 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.22, T:0.34
Consensus pattern (149 bp):
TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTGGAAAGACAAAT
ACTTGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
TATGGCACTACGGTGCAAT
Found at i:6832700 original size:23 final size:23
Alignment explanation
Indices: 6832667--6832711 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
6832657 ATTATTATAT
*
6832667 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTATACGC
*
6832690 GGCACTTCGGTGCAATTATACG
1 GGCACTACGGTGCAATTATACG
6832712 AGCTGTGGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.22, C:0.27, G:0.27, T:0.24
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGC
Found at i:6844137 original size:23 final size:23
Alignment explanation
Indices: 6844100--6844163 Score: 74
Period size: 23 Copynumber: 2.8 Consensus size: 23
6844090 CAGTTCGTAT
*
6844100 AAATGCACCTAAGTGCCACATAG
1 AAATGCACCGAAGTGCCACATAG
* * * * *
6844123 AATTGCATCGTAGTGCCGCGTAG
1 AAATGCACCGAAGTGCCACATAG
6844146 AAATGCACCGAAGTGCCA
1 AAATGCACCGAAGTGCCA
6844164 TATAAGATTG
Statistics
Matches: 31, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.33, C:0.25, G:0.23, T:0.19
Consensus pattern (23 bp):
AAATGCACCGAAGTGCCACATAG
Found at i:6845696 original size:14 final size:14
Alignment explanation
Indices: 6845679--6845710 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
6845669 AAGGAAGAAG
6845679 AGAAAACAAGCTCC
1 AGAAAACAAGCTCC
6845693 AGAAAACAAGCTCC
1 AGAAAACAAGCTCC
6845707 AGAA
1 AGAA
6845711 TTTTCTTTCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.53, C:0.25, G:0.16, T:0.06
Consensus pattern (14 bp):
AGAAAACAAGCTCC
Found at i:6846436 original size:59 final size:59
Alignment explanation
Indices: 6846339--6846459 Score: 206
Period size: 59 Copynumber: 2.1 Consensus size: 59
6846329 TCCATCAACA
* *
6846339 TTTCATATCACAACACACAAATACCTTCCCTTTCAATAAAATACTAGCTAATTTCTTGT
1 TTTCATATCACAACACACAAATACATGCCCTTTCAATAAAATACTAGCTAATTTCTTGT
* *
6846398 TTTCATATCACAACACACAAATACATGCCCTTTTAATAAAATACTAGCTAGTTTCTTGT
1 TTTCATATCACAACACACAAATACATGCCCTTTCAATAAAATACTAGCTAATTTCTTGT
6846457 TTT
1 TTT
6846460 AGAGTCAAAA
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
59 58 1.00
ACGTcount: A:0.35, C:0.23, G:0.05, T:0.37
Consensus pattern (59 bp):
TTTCATATCACAACACACAAATACATGCCCTTTCAATAAAATACTAGCTAATTTCTTGT
Found at i:6847871 original size:2 final size:2
Alignment explanation
Indices: 6847864--6847902 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
6847854 TTTTTAAAAC
6847864 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6847903 CCCCCATCCG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:6848037 original size:35 final size:35
Alignment explanation
Indices: 6847968--6848037 Score: 86
Period size: 35 Copynumber: 2.0 Consensus size: 35
6847958 CAAGTCCAGT
* **
6847968 AGGCCCTGAGCACACAGCCGAGGAGCCGGTAAGTA
1 AGGCCCTGAGCACACAGCCAAGGAGCCGCCAAGTA
* * *
6848003 AGGCCCTGAGCACACAGTCAAGGAGTCTCCAAGTA
1 AGGCCCTGAGCACACAGCCAAGGAGCCGCCAAGTA
6848038 TACTTCCTCC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
35 29 1.00
ACGTcount: A:0.30, C:0.29, G:0.30, T:0.11
Consensus pattern (35 bp):
AGGCCCTGAGCACACAGCCAAGGAGCCGCCAAGTA
Found at i:6848128 original size:24 final size:24
Alignment explanation
Indices: 6848100--6848178 Score: 88
Period size: 24 Copynumber: 3.3 Consensus size: 24
6848090 TATATAAAAA
*
6848100 ATCATAACATAATCCAGGTCAAGT
1 ATCATAACAAAATCCAGGTCAAGT
*
6848124 ATCATATCAAAATCCAGGTCAAGT
1 ATCATAACAAAATCCAGGTCAAGT
* * *
6848148 ATC-TGATCAGAATCCAGGTCATGT
1 ATCAT-AACAAAATCCAGGTCAAGT
*
6848172 ATTATAA
1 ATCATAA
6848179 TAGAAATCAA
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
23 1 0.02
24 45 0.96
25 1 0.02
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.28
Consensus pattern (24 bp):
ATCATAACAAAATCCAGGTCAAGT
Found at i:6848712 original size:18 final size:18
Alignment explanation
Indices: 6848691--6848729 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
6848681 GTCAACGCCA
*
6848691 GTCAACGGGTCGGGTCGG
1 GTCAACGGGACGGGTCGG
6848709 GTCAACGGGACGGGTCGG
1 GTCAACGGGACGGGTCGG
6848727 GTC
1 GTC
6848730 GGGTTGTAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.13, C:0.23, G:0.49, T:0.15
Consensus pattern (18 bp):
GTCAACGGGACGGGTCGG
Found at i:6850621 original size:2 final size:2
Alignment explanation
Indices: 6850614--6850688 Score: 150
Period size: 2 Copynumber: 37.5 Consensus size: 2
6850604 TTTTTAAAAC
6850614 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6850656 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6850689 CCCCCATCCG
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 73 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:6850878 original size:24 final size:24
Alignment explanation
Indices: 6850851--6850948 Score: 110
Period size: 24 Copynumber: 4.1 Consensus size: 24
6850841 TATATCAAAA
* * *
6850851 ATCATAACATAATCCATGTCAAGT
1 ATCATATCAAAATCCAGGTCAAGT
* *
6850875 ATCAGATCAAAATTCAGGTCAAGT
1 ATCATATCAAAATCCAGGTCAAGT
*
6850899 ATTCA-ATCAGAATCCAGGTCAAGT
1 A-TCATATCAAAATCCAGGTCAAGT
6850923 ATC-TGATCAAAATCCAGGTCAAGT
1 ATCAT-ATCAAAATCCAGGTCAAGT
6850947 AT
1 AT
6850949 TATAATAGAA
Statistics
Matches: 63, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
23 2 0.03
24 58 0.92
25 3 0.05
ACGTcount: A:0.40, C:0.19, G:0.14, T:0.27
Consensus pattern (24 bp):
ATCATATCAAAATCCAGGTCAAGT
Found at i:6855148 original size:2 final size:2
Alignment explanation
Indices: 6855141--6855168 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
6855131 CTATAGGCTA
6855141 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
6855169 TTCATTTAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:6857263 original size:28 final size:29
Alignment explanation
Indices: 6857224--6857281 Score: 66
Period size: 29 Copynumber: 2.0 Consensus size: 29
6857214 CCTAAATCAA
** *
6857224 TAATTGTATCCT-TTCTTTTTAATTATAT
1 TAATTGTATCCTAAACTTTTCAATTATAT
6857252 TAATT-TAGTCCTAAACTTTTCAATTATAT
1 TAATTGTA-TCCTAAACTTTTCAATTATAT
6857281 T
1 T
6857282 GTTTTTCTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
27 2 0.08
28 9 0.36
29 14 0.56
ACGTcount: A:0.29, C:0.12, G:0.03, T:0.55
Consensus pattern (29 bp):
TAATTGTATCCTAAACTTTTCAATTATAT
Found at i:6861601 original size:480 final size:481
Alignment explanation
Indices: 6860695--6861633 Score: 1808
Period size: 480 Copynumber: 2.0 Consensus size: 481
6860685 TTTTTTTTTA
6860695 TTTTTCACCATTAATATGATAATACATATCCTCCTCTTATTAGATAAAATAATTTAATAAAAAAA
1 TTTTTCACCATTAATATGATAATACATATCCTCCTCTTATTAGATAAAATAATTTAATAAAAAAA
6860760 CAAATAATATTAATTTAATAAATAAAGAATTAAAATATTTTTTATTGATATAATATATCATCACT
66 CAAATAATATTAATTTAATAAATAAAGAATTAAAATATTTTTTATTGATATAATATATCATCACT
6860825 TGATGCACATGATATATTTCACATCATCATTATTTAGTACACGTGAAATATATCACATTAATAAT
131 TGATGCACATGATATATTTCACATCATCATTATTTAGTACACGTGAAATATATCACATTAATAAT
*
6860890 AAATAATTAACGATTTTTATTTAAAGAATAATATTTTGATAAAATAAAACATTAAAAACTAAAAT
196 AAATAATTAACGATTTTTATTTAAAGAAGAATATTTTGATAAAATAAAACATTAAAAACTAAAAT
* *
6860955 ACTTAAGTAATCGAATCCATTGAATGGTCTTAGTGGTTAAAGAGATTGTCACTCTCTCTTGATGT
261 ACATAAGAAATCGAATCCATTGAATGGTCTTAGTGGTTAAAGAGATTGTCACTCTCTCTTGATGT
6861020 TATGGATTCGACCAAATGTTTTAGCAAGATGTGTATGCATTATCAATTGCTAAAAAAGATTACAA
326 TATGGATTCGACCAAATGTTTTAGCAAGATGTGTATGCATTATCAATTGCTAAAAAAGATTACAA
6861085 ACAGGTAATACATTTTAATGACCCGACTACTAAAGAAAAGTGATTAAGAATTCTGCATGTAACAA
391 ACAGGTAATACATTTTAATGACCCGACTACTAAAGAAAAGTGATTAAGAATTCTGCATGTAACAA
6861150 CAAGGTTTGAATCCTCACTTGTAATT
456 CAAGGTTTGAATCCTCACTTGTAATT
6861176 TTTTTCACCATTAATATGATAATACATATCCTCCTCTTATTAGATAAAATAATTTAATAAAAAAA
1 TTTTTCACCATTAATATGATAATACATATCCTCCTCTTATTAGATAAAATAATTTAATAAAAAAA
6861241 CAAATAATATTAATTTAATAAATAAAGAATTAAAATA-TTTTTATTGATATAATATATCATCACT
66 CAAATAATATTAATTTAATAAATAAAGAATTAAAATATTTTTTATTGATATAATATATCATCACT
*
6861305 TGATGCACATGATATATTTCACATCATCATTATTTAGTACATGTGAAATATATCACATTAATAAT
131 TGATGCACATGATATATTTCACATCATCATTATTTAGTACACGTGAAATATATCACATTAATAAT
*
6861370 AAATAATTAACGATTTTTATTTAAATAAGAATATTTTGATAAAATAAAACATTAAAAACTAAAAT
196 AAATAATTAACGATTTTTATTTAAAGAAGAATATTTTGATAAAATAAAACATTAAAAACTAAAAT
6861435 ACATAAGAAATCGAATCCATTGAATGGTCTTAGTGGTTAAAGAGATTGTCACTCTCTCTTGATGT
261 ACATAAGAAATCGAATCCATTGAATGGTCTTAGTGGTTAAAGAGATTGTCACTCTCTCTTGATGT
*
6861500 TCTGGATTCGACCAAATGTTTTAGCAAGATGTGTATGCATTATCAATTGCTAAAAAAGATTACAA
326 TATGGATTCGACCAAATGTTTTAGCAAGATGTGTATGCATTATCAATTGCTAAAAAAGATTACAA
*
6861565 ACAGGTAATACATTTTAATGACCCGACTATTAAAGAAAAGTGATTAAGAATTCTGCATGTAACAA
391 ACAGGTAATACATTTTAATGACCCGACTACTAAAGAAAAGTGATTAAGAATTCTGCATGTAACAA
6861630 CAAG
456 CAAG
6861634 TACTCATTAG
Statistics
Matches: 451, Mismatches: 7, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
480 349 0.77
481 102 0.23
ACGTcount: A:0.42, C:0.12, G:0.11, T:0.35
Consensus pattern (481 bp):
TTTTTCACCATTAATATGATAATACATATCCTCCTCTTATTAGATAAAATAATTTAATAAAAAAA
CAAATAATATTAATTTAATAAATAAAGAATTAAAATATTTTTTATTGATATAATATATCATCACT
TGATGCACATGATATATTTCACATCATCATTATTTAGTACACGTGAAATATATCACATTAATAAT
AAATAATTAACGATTTTTATTTAAAGAAGAATATTTTGATAAAATAAAACATTAAAAACTAAAAT
ACATAAGAAATCGAATCCATTGAATGGTCTTAGTGGTTAAAGAGATTGTCACTCTCTCTTGATGT
TATGGATTCGACCAAATGTTTTAGCAAGATGTGTATGCATTATCAATTGCTAAAAAAGATTACAA
ACAGGTAATACATTTTAATGACCCGACTACTAAAGAAAAGTGATTAAGAATTCTGCATGTAACAA
CAAGGTTTGAATCCTCACTTGTAATT
Found at i:6862283 original size:20 final size:21
Alignment explanation
Indices: 6862260--6862301 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
6862250 CCAAATTACA
6862260 ATGCATTATG-AACCATTATT
1 ATGCATTATGCAACCATTATT
*
6862280 ATGCATTATGCAACTATTATT
1 ATGCATTATGCAACCATTATT
6862301 A
1 A
6862302 GTTGCATGAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.36, C:0.14, G:0.10, T:0.40
Consensus pattern (21 bp):
ATGCATTATGCAACCATTATT
Found at i:6863794 original size:290 final size:290
Alignment explanation
Indices: 6863274--6863858 Score: 1145
Period size: 290 Copynumber: 2.0 Consensus size: 290
6863264 CCTTTATTTC
6863274 AAATTCCCTAGCCAGTTGTGCCTTCAATTCTTCAATATGATCTTTGTTGGGTCCTGCAACCAACA
1 AAATTCCCTAGCCAGTTGTGCCTTCAATTCTTCAATATGATCTTTGTTGGGTCCTGCAACCAACA
6863339 TGTCATCCACATACAACATCAATATAACAAAATCGTTATCACCAGACCTCTTGAAATAAGCACAA
66 TGTCATCCACATACAACATCAATATAACAAAATCGTTATCACCAGACCTCTTGAAATAAGCACAA
6863404 GATTCAGCATTAAGTTTGTTGTATCCAAAACACATAATGAAGGAATCAAATCTCTTATACCAACA
131 GATTCAGCATTAAGTTTGTTGTATCCAAAACACATAATGAAGGAATCAAATCTCTTATACCAACA
6863469 CCTCGGCGTCTGCTTTAGACCATACAAAGATTTATTCAACCTGCAAACCAAGTTCTTCTTTTCTT
196 CCTCGGCGTCTGCTTTAGACCATACAAAGATTTATTCAACCTGCAAACCAAGTTCTTCTTTTCTT
6863534 TTTCTTCAAAACCTTCAGGCTGGAGCATAT
261 TTTCTTCAAAACCTTCAGGCTGGAGCATAT
6863564 AAATTCCCTAGCCAGTTGTGCCTTCAATTCTTCAATATGATCTTTGTTGGGTCCTGCAACCAACA
1 AAATTCCCTAGCCAGTTGTGCCTTCAATTCTTCAATATGATCTTTGTTGGGTCCTGCAACCAACA
6863629 TGTCATCCACATACAACATCAATATAACAAAATCGTTATCACCAGACCTCTTGAAATAAGCACAA
66 TGTCATCCACATACAACATCAATATAACAAAATCGTTATCACCAGACCTCTTGAAATAAGCACAA
*
6863694 GAGTT-AGCATTAAGTTTGTTGTATCCAAGACACATAATGAAGGAATCAAATCTCTTATACCAAC
131 GA-TTCAGCATTAAGTTTGTTGTATCCAAAACACATAATGAAGGAATCAAATCTCTTATACCAAC
6863758 ACCTCGGCGTCTGCTTTAGACCATACAAAGATTTATTCAACCTGCAAACCAAGTTCTTCTTTTCT
195 ACCTCGGCGTCTGCTTTAGACCATACAAAGATTTATTCAACCTGCAAACCAAGTTCTTCTTTTCT
6863823 TTTTCTTCAAAACCTTCAGGCTGGAGCATAT
260 TTTTCTTCAAAACCTTCAGGCTGGAGCATAT
6863854 AAATT
1 AAATT
6863859 TCTTCTTCAA
Statistics
Matches: 293, Mismatches: 1, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
290 291 0.99
291 2 0.01
ACGTcount: A:0.32, C:0.24, G:0.13, T:0.31
Consensus pattern (290 bp):
AAATTCCCTAGCCAGTTGTGCCTTCAATTCTTCAATATGATCTTTGTTGGGTCCTGCAACCAACA
TGTCATCCACATACAACATCAATATAACAAAATCGTTATCACCAGACCTCTTGAAATAAGCACAA
GATTCAGCATTAAGTTTGTTGTATCCAAAACACATAATGAAGGAATCAAATCTCTTATACCAACA
CCTCGGCGTCTGCTTTAGACCATACAAAGATTTATTCAACCTGCAAACCAAGTTCTTCTTTTCTT
TTTCTTCAAAACCTTCAGGCTGGAGCATAT
Found at i:6867387 original size:21 final size:21
Alignment explanation
Indices: 6867361--6867405 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
6867351 GATTTCTGGG
* *
6867361 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
6867382 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
6867403 CAA
1 CAA
6867406 ACGACAAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:6868010 original size:18 final size:18
Alignment explanation
Indices: 6867987--6868021 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
6867977 CTAGGAGATT
6867987 TGAACATA-AATGATAAGA
1 TGAACATATAA-GATAAGA
6868005 TGAACATATAAGATAAG
1 TGAACATATAAGATAAG
6868022 CTAGATGGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.54, C:0.06, G:0.17, T:0.23
Consensus pattern (18 bp):
TGAACATATAAGATAAGA
Found at i:6869085 original size:149 final size:149
Alignment explanation
Indices: 6868905--6869208 Score: 590
Period size: 149 Copynumber: 2.0 Consensus size: 149
6868895 GAGTCGAGGG
6868905 TCTACGCGGTTCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACAT
1 TCTACGCGGTTCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACAT
*
6868970 ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATTATTA
66 ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATCATTA
6869035 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
6869054 TCTACGCGGTTCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACAT
1 TCTACGCGGTTCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACAT
*
6869119 ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTATTTGGTCCTTATGGACATCATTA
66 ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATCATTA
6869184 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
6869203 TCTACG
1 TCTACG
6869209 GGGCACTTCG
Statistics
Matches: 153, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
149 153 1.00
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.35
Consensus pattern (149 bp):
TCTACGCGGTTCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACAT
ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATCATTA
TATGGCACTACGGTGCAAT
Found at i:6869231 original size:23 final size:23
Alignment explanation
Indices: 6869187--6869231 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
6869177 ATCATTATAT
*
6869187 GGCACTACGGTGCAATTCTACGG
1 GGCACTACGGTGCAATTATACGG
* *
6869210 GGCACTTCGGTGCATTTATACG
1 GGCACTACGGTGCAATTATACG
6869232 AGCTGTGGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.24, G:0.29, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGG
Found at i:6870479 original size:21 final size:20
Alignment explanation
Indices: 6870442--6870480 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
6870432 ACTTATAATT
6870442 CATTATGAACCATTATTATG
1 CATTATGAACCATTATTATG
*
6870462 CATTATGCAACTATTATTA
1 CATTATG-AACCATTATTA
6870481 ATTGCATGAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.36, C:0.15, G:0.08, T:0.41
Consensus pattern (20 bp):
CATTATGAACCATTATTATG
Found at i:6881648 original size:17 final size:16
Alignment explanation
Indices: 6881627--6881665 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
6881617 TTCTAAAAAT
* *
6881627 TTTTTAGTATTTTTAA
1 TTTTTAATATTATTAA
6881643 TATTTTAATATTATTAA
1 T-TTTTAATATTATTAA
6881660 TTTTTA
1 TTTTTA
6881666 TTTAAAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (16 bp):
TTTTTAATATTATTAA
Found at i:6886421 original size:27 final size:28
Alignment explanation
Indices: 6886366--6886428 Score: 119
Period size: 27 Copynumber: 2.3 Consensus size: 28
6886356 ATCTTTCATG
6886366 GAAATCACTCATAAGCAAACCGTATTCA
1 GAAATCACTCATAAGCAAACCGTATTCA
6886394 GAAATCACTCATAAGC-AACCGTATTCA
1 GAAATCACTCATAAGCAAACCGTATTCA
6886421 GAAATCAC
1 GAAATCAC
6886429 CCTCCCATCA
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 19 0.54
28 16 0.46
ACGTcount: A:0.43, C:0.25, G:0.11, T:0.21
Consensus pattern (28 bp):
GAAATCACTCATAAGCAAACCGTATTCA
Found at i:6891354 original size:2 final size:2
Alignment explanation
Indices: 6891347--6891377 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
6891337 AAATAACGTA
6891347 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6891378 ACATATAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6892073 original size:15 final size:16
Alignment explanation
Indices: 6892053--6892090 Score: 69
Period size: 15 Copynumber: 2.4 Consensus size: 16
6892043 TTGCCATTTA
6892053 TTTATTTCTATTT-TT
1 TTTATTTCTATTTATT
6892068 TTTATTTCTATTTATT
1 TTTATTTCTATTTATT
6892084 TTTATTT
1 TTTATTT
6892091 TACTAACTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 13 0.59
16 9 0.41
ACGTcount: A:0.16, C:0.05, G:0.00, T:0.79
Consensus pattern (16 bp):
TTTATTTCTATTTATT
Found at i:6895102 original size:10 final size:9
Alignment explanation
Indices: 6895063--6895125 Score: 51
Period size: 8 Copynumber: 7.0 Consensus size: 9
6895053 AGATTCAATC
6895063 AAGAACAAAA
1 AAGAA-AAAA
*
6895073 AAG-AAAAT
1 AAGAAAAAA
*
6895081 AAG-CAAAA
1 AAGAAAAAA
6895089 AAGAAAAAA
1 AAGAAAAAA
6895098 CAAGAACAAAA
1 -AAGAA-AAAA
*
6895109 AAG-AAAAG
1 AAGAAAAAA
6895117 AAGAAAAAA
1 AAGAAAAAA
6895126 TCAAAAGGAA
Statistics
Matches: 43, Mismatches: 6, Indels: 9
0.74 0.10 0.16
Matches are distributed among these distances:
8 18 0.42
9 10 0.23
10 11 0.26
11 4 0.09
ACGTcount: A:0.79, C:0.06, G:0.13, T:0.02
Consensus pattern (9 bp):
AAGAAAAAA
Found at i:6895120 original size:18 final size:18
Alignment explanation
Indices: 6895062--6895125 Score: 71
Period size: 18 Copynumber: 3.6 Consensus size: 18
6895052 AAGATTCAAT
6895062 CAAGAACAAAAAAGAAAA
1 CAAGAACAAAAAAGAAAA
*
6895080 TAAG--CAAAAAAGAAAAAA
1 CAAGAACAAAAAAG--AAAA
6895098 CAAGAACAAAAAAGAAAA
1 CAAGAACAAAAAAGAAAA
*
6895116 GAAGAA-AAAA
1 CAAGAACAAAA
6895126 TCAAAAGGAA
Statistics
Matches: 39, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
16 8 0.21
17 4 0.10
18 19 0.49
20 8 0.21
ACGTcount: A:0.78, C:0.08, G:0.12, T:0.02
Consensus pattern (18 bp):
CAAGAACAAAAAAGAAAA
Done.