Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr8
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: 78745976
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 2640508 characters in sequence are not A, C, G, or T
File 22 of 235
Found at i:6740450 original size:31 final size:30
Alignment explanation
Indices: 6740409--6740504 Score: 106
Period size: 31 Copynumber: 3.1 Consensus size: 30
6740399 ATTCCCATTT
*
6740409 TGATTTTGATTCTGTTACCTGATATTGATTC
1 TGATTCTGATTCTGTTACCTGAT-TTGATTC
* * *
6740440 TGATTCTGATTCTGTCACCTAATTTTGATTT
1 TGATTCTGATTCTGTTACCTGA-TTTGATTC
6740471 TGATTCTGATTCTGATT--CTGATTCTGATTC
1 TGATTCTGATTCTG-TTACCTGATT-TGATTC
6740501 TGAT
1 TGAT
6740505 AATCTTTCTT
Statistics
Matches: 55, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
29 2 0.04
30 12 0.22
31 39 0.71
32 2 0.04
ACGTcount: A:0.19, C:0.15, G:0.16, T:0.51
Consensus pattern (30 bp):
TGATTCTGATTCTGTTACCTGATTTGATTC
Found at i:6740513 original size:18 final size:19
Alignment explanation
Indices: 6740473--6740524 Score: 58
Period size: 18 Copynumber: 2.9 Consensus size: 19
6740463 TTTGATTTTG
6740473 ATTCTGATTCTGAT--TCT
1 ATTCTGATTCTGATAATCT
6740490 GATTCTGATTCTGATAATCT
1 -ATTCTGATTCTGATAATCT
*
6740510 -TTCTTATTCTG-TAAT
1 ATTCTGATTCTGATAAT
6740525 GGGTTAAAGC
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
17 4 0.13
18 24 0.77
20 3 0.10
ACGTcount: A:0.21, C:0.15, G:0.12, T:0.52
Consensus pattern (19 bp):
ATTCTGATTCTGATAATCT
Found at i:6740519 original size:6 final size:6
Alignment explanation
Indices: 6740434--6740504 Score: 81
Period size: 6 Copynumber: 11.7 Consensus size: 6
6740424 TACCTGATAT
* * * *
6740434 TGATTC TGATTC TGATTC TG-TCACC TAATTT TGATTT TGATTC TGATTC
1 TGATTC TGATTC TGATTC TGAT--TC TGATTC TGATTC TGATTC TGATTC
6740483 TGATTC TGATTC TGATTC TGAT
1 TGATTC TGATTC TGATTC TGAT
6740505 AATCTTTCTT
Statistics
Matches: 56, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
5 1 0.02
6 52 0.93
7 2 0.04
8 1 0.02
ACGTcount: A:0.18, C:0.15, G:0.15, T:0.51
Consensus pattern (6 bp):
TGATTC
Found at i:6753111 original size:67 final size:67
Alignment explanation
Indices: 6753038--6753188 Score: 159
Period size: 67 Copynumber: 2.3 Consensus size: 67
6753028 CATCATGTGT
* * * *
6753038 ACAAGAGAGCTAGGAGAAATTATGATGTAGCTAGGT-GCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTAGGAG-AA-TAT-ATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCA
6753100 TGTAG
63 TGTAG
* *
6753105 ACAAGAGAGCTACGG-G-ATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCAT
1 ACAAGAGAGCTA-GGAGAATATATGTAGCTAGGTCGCATGCGTGATACCA-GTGAAGGACACCAT
6753168 GTAG
64 GTAG
*
6753172 ACAAGAGAGCTACGAGA
1 ACAAGAGAGCTAGGAGA
6753189 TAAACTGGCT
Statistics
Matches: 70, Mismatches: 7, Indels: 13
0.78 0.08 0.14
Matches are distributed among these distances:
63 12 0.17
64 14 0.20
65 1 0.01
66 3 0.04
67 38 0.54
68 2 0.03
ACGTcount: A:0.32, C:0.15, G:0.31, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTAGGAGAATATATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATGT
AG
Found at i:6759323 original size:19 final size:19
Alignment explanation
Indices: 6759301--6759341 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
6759291 TTGCATGCAA
6759301 ATAATAAGCAACATTAATC
1 ATAATAAGCAACATTAATC
6759320 ATAATAAGCAACATTAATC
1 ATAATAAGCAACATTAATC
6759339 ATA
1 ATA
6759342 CATTAATCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.54, C:0.15, G:0.05, T:0.27
Consensus pattern (19 bp):
ATAATAAGCAACATTAATC
Found at i:6759346 original size:11 final size:11
Alignment explanation
Indices: 6759311--6759352 Score: 54
Period size: 11 Copynumber: 4.1 Consensus size: 11
6759301 ATAATAAGCA
6759311 ACATTAATCAT
1 ACATTAATCAT
*
6759322 A-A-TAAGCA-
1 ACATTAATCAT
6759330 ACATTAATCAT
1 ACATTAATCAT
6759341 ACATTAATCAT
1 ACATTAATCAT
6759352 A
1 A
6759353 TGATTATTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
8 1 0.04
9 6 0.23
10 6 0.23
11 13 0.50
ACGTcount: A:0.50, C:0.17, G:0.02, T:0.31
Consensus pattern (11 bp):
ACATTAATCAT
Found at i:6768238 original size:28 final size:28
Alignment explanation
Indices: 6768198--6768251 Score: 108
Period size: 28 Copynumber: 1.9 Consensus size: 28
6768188 TGTCCCTAGC
6768198 CCGTGTCATTTACACGGTCTAGACACGT
1 CCGTGTCATTTACACGGTCTAGACACGT
6768226 CCGTGTCATTTACACGGTCTAGACAC
1 CCGTGTCATTTACACGGTCTAGACAC
6768252 ATCTGTGCGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.28
Consensus pattern (28 bp):
CCGTGTCATTTACACGGTCTAGACACGT
Found at i:6770354 original size:53 final size:53
Alignment explanation
Indices: 6770287--6770390 Score: 154
Period size: 53 Copynumber: 2.0 Consensus size: 53
6770277 TAAACTACGC
* * * *
6770287 TAAGGCAAAGATCCCATGTAAGACCATGCCAAGGCATGGCAATGGTGAGTTCA
1 TAAGGCAAAGATCCCACGTAAGACCATGCCAAGACATGGAAATGGTAAGTTCA
* *
6770340 TAAGGCAAGGATCCCACGTAAGACCATGTCAAGACATGGAAATGGTAAGTT
1 TAAGGCAAAGATCCCACGTAAGACCATGCCAAGACATGGAAATGGTAAGTT
6770391 TAAAAAGGAA
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
53 45 1.00
ACGTcount: A:0.36, C:0.19, G:0.26, T:0.19
Consensus pattern (53 bp):
TAAGGCAAAGATCCCACGTAAGACCATGCCAAGACATGGAAATGGTAAGTTCA
Found at i:6776796 original size:17 final size:18
Alignment explanation
Indices: 6776774--6776819 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 18
6776764 ACTCATTATA
*
6776774 GCCCGATAAATGAA-AGT
1 GCCCGATAAATGAATAAT
*
6776791 GCCCGATCAAT-AATAAT
1 GCCCGATAAATGAATAAT
*
6776808 GCCTGATAAATG
1 GCCCGATAAATG
6776820 GTAAATGATA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
16 2 0.09
17 21 0.91
ACGTcount: A:0.39, C:0.20, G:0.20, T:0.22
Consensus pattern (18 bp):
GCCCGATAAATGAATAAT
Found at i:6783092 original size:18 final size:19
Alignment explanation
Indices: 6783063--6783106 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
6783053 CTTTTGCCGA
6783063 ATATACTTTTCATATGCA-C
1 ATATA-TTTTCATATGCATC
*
6783082 ATATATTTTCATTTGCATC
1 ATATATTTTCATATGCATC
6783101 ATATAT
1 ATATAT
6783107 AATTTGTATC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 11 0.48
19 12 0.52
ACGTcount: A:0.32, C:0.16, G:0.05, T:0.48
Consensus pattern (19 bp):
ATATATTTTCATATGCATC
Found at i:6784048 original size:15 final size:15
Alignment explanation
Indices: 6784025--6784055 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
6784015 TCAAAAATTC
6784025 CAATACAAAACATAT
1 CAATACAAAACATAT
*
6784040 CAATCCAAAACATAT
1 CAATACAAAACATAT
6784055 C
1 C
6784056 TTTCATATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.26, G:0.00, T:0.19
Consensus pattern (15 bp):
CAATACAAAACATAT
Found at i:6788080 original size:40 final size:40
Alignment explanation
Indices: 6788049--6788378 Score: 502
Period size: 40 Copynumber: 8.3 Consensus size: 40
6788039 GGACTAAGAT
* * * *
6788049 CCGAAGGCATTTGTGCGAGATA-CAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGTTATTAAA-TCCGGGTTAAGTC
* * * *
6788089 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
6788129 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
6788169 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
6788209 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
6788249 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
* *
6788289 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
* * * * *
6788329 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
6788368 CCGAAGGCATT
1 CCGAAGGCATT
6788379 TGAACGAGGA
Statistics
Matches: 275, Mismatches: 14, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
39 34 0.12
40 238 0.87
41 3 0.01
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
Found at i:6788133 original size:80 final size:80
Alignment explanation
Indices: 6787996--6788378 Score: 504
Period size: 80 Copynumber: 4.8 Consensus size: 80
6787986 TTGAATGCTG
* * * * * * **
6787996 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
* * *
6788059 TTGTGCGAGATA-CAAA
64 TCGTGCGAGTTATTAAA
* * * *
6788075 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATT
1 -TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATT
6788140 CGTGCGAGTTATTAAA
65 CGTGCGAGTTATTAAA
*
6788156 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTC
6788221 GTGCGAGTTATTAAA
66 GTGCGAGTTATTAAA
*
6788236 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTC
*
6788301 GTGCGAGTTGTTAAA
66 GTGCGAGTTATTAAA
* * * * *
6788316 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATT
6788379 TGAACGAGGA
Statistics
Matches: 276, Mismatches: 24, Indels: 7
0.90 0.08 0.02
Matches are distributed among these distances:
79 35 0.13
80 231 0.84
81 10 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTC
GTGCGAGTTATTAAA
Found at i:6788212 original size:120 final size:120
Alignment explanation
Indices: 6787996--6788378 Score: 504
Period size: 120 Copynumber: 3.2 Consensus size: 120
6787986 TTGAATGCTG
* * * * * **
6787996 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
* * * * *
6788059 TTGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
64 TCGTGCGAGTTATTAAA-TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGTTACTAAA
*
6788116 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
* * *
6788181 GTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
66 GTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGTTACTAAA
*
6788236 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
* * * *
6788301 GTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAA
66 GTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGTTACTAAA
* *
6788355 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
6788379 TGAACGAGGA
Statistics
Matches: 234, Mismatches: 26, Indels: 7
0.88 0.10 0.03
Matches are distributed among these distances:
119 36 0.15
120 189 0.81
121 9 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
GTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGTTACTAAA
Found at i:6798315 original size:40 final size:40
Alignment explanation
Indices: 6798271--6798494 Score: 308
Period size: 40 Copynumber: 5.6 Consensus size: 40
6798261 AAGTGAATAT
* * * * **
6798271 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAA
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTGTTAA
6798311 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
6798351 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
6798391 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
* * **
6798431 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
* * *
6798470 AACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATT
6798495 TGAACGAGGA
Statistics
Matches: 171, Mismatches: 12, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
39 35 0.20
40 136 0.80
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
Found at i:6798369 original size:80 final size:80
Alignment explanation
Indices: 6798232--6798494 Score: 318
Period size: 80 Copynumber: 3.3 Consensus size: 80
6798222 TTGAATGCTG
* * * * *
6798232 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAG-TGAATATATCCGGATTAAGAT-CCGAAGGCC
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGC-GAGTTG-TTAAATCCGGGTTAAG-TCCCGAAGGCC
*
6798294 TTTGTGCGAGATACTAAA
63 TTTGTGCGAGTTACTAAA
* * *
6798312 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCCTTT
**
6798377 GTGCGAGTTGTTAAA
66 GTGCGAGTTACTAAA
* * *
6798392 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGG-CATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCCTTT
*
6798456 GTGTGAGTTACTAAA
66 GTGCGAGTTACTAAA
* *
6798471 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
6798495 TGAACGAGGA
Statistics
Matches: 159, Mismatches: 21, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
79 35 0.22
80 116 0.73
81 8 0.05
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCCTTT
GTGCGAGTTACTAAA
Found at i:6798446 original size:120 final size:120
Alignment explanation
Indices: 6798232--6798494 Score: 318
Period size: 120 Copynumber: 2.2 Consensus size: 120
6798222 TTGAATGCTG
* * *
6798232 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGATTAAGATCCGAAGGCCTT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGATTAAGATCCGAAGGCATT
* **
6798296 TGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
66 CGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAA
* * * *
6798352 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTG-TTAAATCCGGGTTAAG-TCCCGAAGGCA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAG-TGAATAAATCCGGATTAAGAT-CCGAAGGCA
* ** * *
6798414 TTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
64 TTCGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
* *
6798471 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
6798495 TGAACGAGGA
Statistics
Matches: 122, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
119 34 0.28
120 80 0.66
121 8 0.07
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGATTAAGATCCGAAGGCATT
CGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:6803648 original size:22 final size:21
Alignment explanation
Indices: 6803598--6803653 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
6803588 CACAGTCTCT
**
6803598 AACACGGGCATGTCCCAGGGT
1 AACACGGGCATGTCCCAGGAA
* *
6803619 CACACGGGCATGTCCCTTGGAA
1 AACACGGGCATGTCCC-AGGAA
6803641 AACACGGGCATGT
1 AACACGGGCATGT
6803654 GAACCCTACA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 15 0.52
22 14 0.48
ACGTcount: A:0.25, C:0.29, G:0.30, T:0.16
Consensus pattern (21 bp):
AACACGGGCATGTCCCAGGAA
Found at i:6809209 original size:8 final size:8
Alignment explanation
Indices: 6809187--6809220 Score: 59
Period size: 8 Copynumber: 4.1 Consensus size: 8
6809177 GTATATAGAA
6809187 ATTTTGTG
1 ATTTTGTG
6809195 TATTTTGTG
1 -ATTTTGTG
6809204 ATTTTGTG
1 ATTTTGTG
6809212 ATTTTGTG
1 ATTTTGTG
6809220 A
1 A
6809221 ATTAGGGACT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 17 0.68
9 8 0.32
ACGTcount: A:0.15, C:0.00, G:0.24, T:0.62
Consensus pattern (8 bp):
ATTTTGTG
Found at i:6809732 original size:42 final size:43
Alignment explanation
Indices: 6809684--6809781 Score: 108
Period size: 43 Copynumber: 2.3 Consensus size: 43
6809674 TGTGTAAGGT
* * * * *
6809684 CATGTCTGGGACATTTACATCG-TATTTGATTTCGTGTAAGAC
1 CATGTCTAGGACAGTGACATCGATATTTGATTACATGTAAGAC
* * *
6809726 CCTGTCTAGGATAGTGGCATCGATATTTGATTACATGTAAGAC
1 CATGTCTAGGACAGTGACATCGATATTTGATTACATGTAAGAC
*
6809769 CATGTCTACGACA
1 CATGTCTAGGACA
6809782 TTGGCATTGT
Statistics
Matches: 44, Mismatches: 11, Indels: 1
0.79 0.20 0.02
Matches are distributed among these distances:
42 16 0.36
43 28 0.64
ACGTcount: A:0.27, C:0.18, G:0.21, T:0.34
Consensus pattern (43 bp):
CATGTCTAGGACAGTGACATCGATATTTGATTACATGTAAGAC
Found at i:6809787 original size:43 final size:42
Alignment explanation
Indices: 6809701--6809788 Score: 113
Period size: 43 Copynumber: 2.1 Consensus size: 42
6809691 GGGACATTTA
* * * * *
6809701 CATCGTATTTGATTTCGTGTAAGACCCTGTCTAGGATAGTGG
1 CATCGTATTTGATTACATGTAAGACCATGTCTACGACAGTGG
*
6809743 CATCGATATTTGATTACATGTAAGACCATGTCTACGACATTGG
1 CATCG-TATTTGATTACATGTAAGACCATGTCTACGACAGTGG
6809786 CAT
1 CAT
6809789 TGTACGAGCT
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
42 5 0.13
43 34 0.87
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.34
Consensus pattern (42 bp):
CATCGTATTTGATTACATGTAAGACCATGTCTACGACAGTGG
Found at i:6822819 original size:27 final size:26
Alignment explanation
Indices: 6822786--6822865 Score: 97
Period size: 27 Copynumber: 3.0 Consensus size: 26
6822776 CAAATTATTG
*
6822786 AAATACCCTCGACTTGTAAAATTACC
1 AAATACCCTCGATTTGTAAAATTACC
* * *
6822812 AGAGTACCCCCGATTTATAAAATTACCC
1 A-AATACCCTCGATTTGTAAAATTA-CC
*
6822840 AAATATCCTCGATTTGTAAAATTACC
1 AAATACCCTCGATTTGTAAAATTACC
6822866 GAAAAAGATA
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
26 3 0.07
27 38 0.86
28 3 0.07
ACGTcount: A:0.38, C:0.25, G:0.09, T:0.29
Consensus pattern (26 bp):
AAATACCCTCGATTTGTAAAATTACC
Found at i:6822905 original size:27 final size:27
Alignment explanation
Indices: 6822875--6822963 Score: 133
Period size: 27 Copynumber: 3.3 Consensus size: 27
6822865 CGAAAAAGAT
*
6822875 AGAATTACCATTTTACTCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
* *
6822902 AGAATTATCGTTTTACCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
*
6822929 AGAATTACCATTTGACCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
*
6822956 AAAATTAC
1 AGAATTAC
6822964 TGAAATACCA
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 55 1.00
ACGTcount: A:0.31, C:0.22, G:0.09, T:0.37
Consensus pattern (27 bp):
AGAATTACCATTTTACCCTCGATTTAC
Found at i:6822981 original size:27 final size:27
Alignment explanation
Indices: 6822951--6823053 Score: 98
Period size: 27 Copynumber: 3.8 Consensus size: 27
6822941 TGACCCTCGA
** *
6822951 TTTACAAAATTACTGAAATACCATTGG
1 TTTACAAAATTACCAAAATACCACTGG
*
6822978 TTTACAAAATTACCAAAATACCCCTGG
1 TTTACAAAATTACCAAAATACCACTGG
* * * **
6823005 TTTATAAATTTACCAAAATACCCCTAA
1 TTTACAAAATTACCAAAATACCACTGG
***
6823032 TTTGTGAAATTACCAAAATACC
1 TTTACAAAATTACCAAAATACC
6823054 CCTGTAGGGT
Statistics
Matches: 65, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 65 1.00
ACGTcount: A:0.42, C:0.20, G:0.07, T:0.31
Consensus pattern (27 bp):
TTTACAAAATTACCAAAATACCACTGG
Found at i:6822982 original size:54 final size:54
Alignment explanation
Indices: 6822875--6822992 Score: 130
Period size: 54 Copynumber: 2.2 Consensus size: 54
6822865 CGAAAAAGAT
* * * *** *
6822875 AGAATTACCATTTTACTCTCGATTTACAGAATTATCGTTTTACCCTCGATTTAC
1 AGAATTACCATTTGACCCTCGATTTACAAAATTATCGAAATACCATCGATTTAC
* *
6822929 AGAATTACCATTTGACCCTCGATTTACAAAATTA-CTGAAATACCATTGGTTTAC
1 AGAATTACCATTTGACCCTCGATTTACAAAATTATC-GAAATACCATCGATTTAC
*
6822983 AAAATTACCA
1 AGAATTACCA
6822993 AAATACCCCT
Statistics
Matches: 53, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
53 1 0.02
54 52 0.98
ACGTcount: A:0.34, C:0.21, G:0.09, T:0.36
Consensus pattern (54 bp):
AGAATTACCATTTGACCCTCGATTTACAAAATTATCGAAATACCATCGATTTAC
Found at i:6823054 original size:27 final size:26
Alignment explanation
Indices: 6822984--6823056 Score: 101
Period size: 27 Copynumber: 2.7 Consensus size: 26
6822974 TTGGTTTACA
**
6822984 AAATTACCAAAATACCCCTGGTTTAT
1 AAATTACCAAAATACCCCTAATTTAT
*
6823010 AAATTTACCAAAATACCCCTAATTTGT
1 AAA-TTACCAAAATACCCCTAATTTAT
6823037 GAAATTACCAAAATACCCCT
1 -AAATTACCAAAATACCCCT
6823057 GTAGGGTAGA
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
26 3 0.07
27 36 0.86
28 3 0.07
ACGTcount: A:0.41, C:0.25, G:0.05, T:0.29
Consensus pattern (26 bp):
AAATTACCAAAATACCCCTAATTTAT
Found at i:6823069 original size:27 final size:27
Alignment explanation
Indices: 6823039--6823261 Score: 302
Period size: 27 Copynumber: 8.3 Consensus size: 27
6823029 TAATTTGTGA
*
6823039 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
6823066 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
6823093 AATTACCGAAATACCTCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
6823120 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** *
6823147 AATTATTGAAATACCCCTGTATGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
6823174 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** * *
6823201 AATTACTAAAATACCCCTATAGGGTGG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
6823228 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
6823255 AATTACC
1 AATTACC
6823262 ATTTTGCCCT
Statistics
Matches: 171, Mismatches: 25, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 171 1.00
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:6823099 original size:81 final size:81
Alignment explanation
Indices: 6823014--6823262 Score: 297
Period size: 81 Copynumber: 3.1 Consensus size: 81
6823004 GTTTATAAAT
* * *
6823014 TTACCAAAATACCCCTAATTTGTG-A-AATTACCAAAATACCCCTGTAGGGTAGAATTATCGAAA
1 TTACCAAAATACCCCT--TTAGGGTAGAATTACTAAAATACCCCTGTAGGGTAGAATTATCGAAA
6823077 TACCCCTGTAGGGTAGAA
64 TACCCCTGTAGGGTAGAA
* * * * *
6823095 TTACCGAAATACCTCTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTATTGAAATA
1 TTACCAAAATACCCCTTTAGGGTAGAATTACTAAAATACCCCTGTAGGGTAGAATTATCGAAATA
*
6823160 CCCCTGTATGGTAGAA
66 CCCCTGTAGGGTAGAA
* * * * *
6823176 TTACCGAAATA-CCCTTGTAGGGTAGAATTACTAAAATACCCCTATAGGGTGGAATTACCGAGAT
1 TTACCAAAATACCCCTT-TAGGGTAGAATTACTAAAATACCCCTGTAGGGTAGAATTATCGAAAT
* * *
6823240 ACCCTTGTGGGGTAAAA
65 ACCCCTGTAGGGTAGAA
6823257 TTACCA
1 TTACCA
6823263 TTTTGCCCTA
Statistics
Matches: 143, Mismatches: 22, Indels: 6
0.84 0.13 0.04
Matches are distributed among these distances:
79 3 0.02
80 4 0.03
81 136 0.95
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.27
Consensus pattern (81 bp):
TTACCAAAATACCCCTTTAGGGTAGAATTACTAAAATACCCCTGTAGGGTAGAATTATCGAAATA
CCCCTGTAGGGTAGAA
Found at i:6823707 original size:31 final size:31
Alignment explanation
Indices: 6823666--6823761 Score: 115
Period size: 31 Copynumber: 3.1 Consensus size: 31
6823656 ATTCCCATTT
* *
6823666 TGATTTTGATTCTGTTACCTGATACTGATTC
1 TGATTCTGATTCTGTTACCTGATTCTGATTC
* * * *
6823697 TGATTCTGATTCTGTCACCTAATTTTGATTT
1 TGATTCTGATTCTGTTACCTGATTCTGATTC
6823728 TGATTCTGATTCTGATT--CTGATTCTGATTC
1 TGATTCTGATTCTG-TTACCTGATTCTGATTC
6823758 TGAT
1 TGAT
6823762 AATCTTTCTT
Statistics
Matches: 54, Mismatches: 10, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
30 14 0.26
31 39 0.72
32 1 0.02
ACGTcount: A:0.19, C:0.16, G:0.16, T:0.50
Consensus pattern (31 bp):
TGATTCTGATTCTGTTACCTGATTCTGATTC
Found at i:6823770 original size:18 final size:19
Alignment explanation
Indices: 6823730--6823781 Score: 58
Period size: 18 Copynumber: 2.9 Consensus size: 19
6823720 TTTGATTTTG
6823730 ATTCTGATTCTGAT--TCT
1 ATTCTGATTCTGATAATCT
6823747 GATTCTGATTCTGATAATCT
1 -ATTCTGATTCTGATAATCT
*
6823767 -TTCTTATTCTG-TAAT
1 ATTCTGATTCTGATAAT
6823782 GGGTTAAAGC
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
17 4 0.13
18 24 0.77
20 3 0.10
ACGTcount: A:0.21, C:0.15, G:0.12, T:0.52
Consensus pattern (19 bp):
ATTCTGATTCTGATAATCT
Found at i:6823776 original size:6 final size:6
Alignment explanation
Indices: 6823666--6823761 Score: 88
Period size: 6 Copynumber: 15.7 Consensus size: 6
6823656 ATTCCCATTT
* * *
6823666 TGATTT TGATTC TG-TTACC TGATAC TGATTC TGATTC TGATTC TG-TCACC
1 TGATTC TGATTC TGATT--C TGATTC TGATTC TGATTC TGATTC TGAT--TC
* * *
6823716 TAATTT TGATTT TGATTC TGATTC TGATTC TGATTC TGATTC TGAT
1 TGATTC TGATTC TGATTC TGATTC TGATTC TGATTC TGATTC TGAT
6823762 AATCTTTCTT
Statistics
Matches: 75, Mismatches: 9, Indels: 12
0.78 0.09 0.12
Matches are distributed among these distances:
5 3 0.04
6 65 0.87
7 5 0.07
8 2 0.03
ACGTcount: A:0.19, C:0.16, G:0.16, T:0.50
Consensus pattern (6 bp):
TGATTC
Found at i:6836412 original size:67 final size:68
Alignment explanation
Indices: 6836339--6836489 Score: 161
Period size: 67 Copynumber: 2.2 Consensus size: 68
6836329 CATCATGTGT
* * * *
6836339 ACAAGAGAGCTAGGAGAAATTATGATGTAGCTAGGT-GCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAGGAG-AA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
6836400 ATGTAG
63 ATGTAG
* *
6836406 ACAAGAGAGCTACGG-G-ATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCAT
1 ACAAGAGAGCTA-GGAGAATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCAT
6836469 GTAG
65 GTAG
*
6836473 ACAAGAGAGCTACGAGA
1 ACAAGAGAGCTAGGAGA
6836490 TAAACTGGCT
Statistics
Matches: 70, Mismatches: 7, Indels: 13
0.78 0.08 0.14
Matches are distributed among these distances:
63 12 0.17
64 10 0.14
65 5 0.07
66 3 0.04
67 38 0.54
68 2 0.03
ACGTcount: A:0.33, C:0.15, G:0.30, T:0.21
Consensus pattern (68 bp):
ACAAGAGAGCTAGGAGAATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATG
TAG
Found at i:6842624 original size:19 final size:19
Alignment explanation
Indices: 6842602--6842642 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
6842592 TTGCATGCAA
6842602 ATAATAAGCAACATTAATC
1 ATAATAAGCAACATTAATC
6842621 ATAATAAGCAACATTAATC
1 ATAATAAGCAACATTAATC
6842640 ATA
1 ATA
6842643 CATTAATCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.54, C:0.15, G:0.05, T:0.27
Consensus pattern (19 bp):
ATAATAAGCAACATTAATC
Found at i:6842647 original size:11 final size:11
Alignment explanation
Indices: 6842612--6842653 Score: 54
Period size: 11 Copynumber: 4.1 Consensus size: 11
6842602 ATAATAAGCA
6842612 ACATTAATCAT
1 ACATTAATCAT
*
6842623 A-A-TAAGCA-
1 ACATTAATCAT
6842631 ACATTAATCAT
1 ACATTAATCAT
6842642 ACATTAATCAT
1 ACATTAATCAT
6842653 A
1 A
6842654 TGATTATTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
8 1 0.04
9 6 0.23
10 6 0.23
11 13 0.50
ACGTcount: A:0.50, C:0.17, G:0.02, T:0.31
Consensus pattern (11 bp):
ACATTAATCAT
Found at i:6851620 original size:28 final size:28
Alignment explanation
Indices: 6851580--6851640 Score: 113
Period size: 28 Copynumber: 2.2 Consensus size: 28
6851570 TGTCCCTAGC
*
6851580 CCGTGTCATTTACACGGTCTAGACACGT
1 CCGTGTCATTTACACGGTCTAGACACAT
6851608 CCGTGTCATTTACACGGTCTAGACACAT
1 CCGTGTCATTTACACGGTCTAGACACAT
6851636 CCGTG
1 CCGTG
6851641 CGTCACCCGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.21, C:0.30, G:0.21, T:0.28
Consensus pattern (28 bp):
CCGTGTCATTTACACGGTCTAGACACAT
Found at i:6853744 original size:53 final size:53
Alignment explanation
Indices: 6853566--6853772 Score: 173
Period size: 53 Copynumber: 3.8 Consensus size: 53
6853556 ATTAGGGTTT
* * * * *
6853566 AAGGACACCAAGTAAGACCATGCCAAGGCATGG-AATTGGTAAGTTTTACAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAA-TGGTAAG-TTCATAAGGC
* * ** * * * * * *
6853620 AAGGAAATCATGTAAGACCATGTTAAGACATAGCATTGATAAACTACGCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGT-AAGTTC-ATAAGGC
* * * *
6853675 AAAGATCCCATGTAAGACCATGCCAAGGCATGGCAATGGTGAGTTCATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGC
* * *
6853728 AAGGATACCACGTAAGACCATGTCAAGACATGGAAATGGTAAGTT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTT
6853773 TAAAAAGGAA
Statistics
Matches: 115, Mismatches: 35, Indels: 7
0.73 0.22 0.04
Matches are distributed among these distances:
53 44 0.38
54 33 0.29
55 38 0.33
ACGTcount: A:0.38, C:0.18, G:0.24, T:0.20
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGC
Found at i:6866473 original size:18 final size:19
Alignment explanation
Indices: 6866444--6866487 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
6866434 CTTTTGCCGA
6866444 ATATACTTTTCATATGCA-C
1 ATATA-TTTTCATATGCATC
*
6866463 ATATATTTTCATTTGCATC
1 ATATATTTTCATATGCATC
6866482 ATATAT
1 ATATAT
6866488 AATTTGTATC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 11 0.48
19 12 0.52
ACGTcount: A:0.32, C:0.16, G:0.05, T:0.48
Consensus pattern (19 bp):
ATATATTTTCATATGCATC
Found at i:6885305 original size:40 final size:40
Alignment explanation
Indices: 6885257--6885462 Score: 299
Period size: 40 Copynumber: 5.2 Consensus size: 40
6885247 GGACTAAGAT
*
6885257 CCGAAGGCATTTGTGCTAGTGACTATATCCAGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTGACTATATCCAGGCTAAGTC
* *
6885297 TCGAAGGCATTTGTGCGAGTGACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTGACTATATCCAGGCTAAGTC
* *
6885337 TCGAAGGCATTTGTGCGAGTTACTATATCCAGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTGACTATATCCAGGCTAAGTC
* *
6885377 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTGACTATATCCAGGCTAAGTC
** *
6885417 CCGAAGGCATTTGTGCGAGTTG-CTATAT-CTTGCTAAATC
1 CCGAAGGCATTTGTGCGAG-TGACTATATCCAGGCTAAGTC
6885456 CCGAAGG
1 CCGAAGG
6885463 TACTTGGGTT
Statistics
Matches: 154, Mismatches: 11, Indels: 3
0.92 0.07 0.02
Matches are distributed among these distances:
39 15 0.10
40 138 0.90
41 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTGACTATATCCAGGCTAAGTC
Found at i:6897861 original size:13 final size:13
Alignment explanation
Indices: 6897845--6897872 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
6897835 CCATACATGT
6897845 TTAAATTCTTACC
1 TTAAATTCTTACC
6897858 TTAAATTCTTACC
1 TTAAATTCTTACC
6897871 TT
1 TT
6897873 TGTTTAACCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.21, G:0.00, T:0.50
Consensus pattern (13 bp):
TTAAATTCTTACC
Found at i:6900323 original size:47 final size:46
Alignment explanation
Indices: 6900251--6900568 Score: 210
Period size: 47 Copynumber: 6.7 Consensus size: 46
6900241 AGGGTATAAT
* *
6900251 GCCGATGCCATGTCCCTGACATGGTCTTACACTGGCTCATCCATCAA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGACTC-TCCATCAA
* * *
6900298 GCTGATGCCATGTCCCAGACATGGTCTTACACTAACTAC-CAAAATCGAA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGACT-CTC--CATC-AA
** * * * * *
6900347 GCCGACACCATGTCCAAGACATGCTCTTGCACTAACTCTCACAT-ATTC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGACTCTC-CATCA--A
* * * *
6900395 GTTCCGATGCCATGTCCCAAAGATGGTCTTACACTGACACAT-C-TCGTA
1 G--CCGATGCCATGTCCCAGACATGGTCTTACACTGACTC-TCCATC-AA
*
6900443 GCCGATG-CATGTCCCAGACAT-GTCTTACAGT-ATCTCTCGTC-TCAA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGA-CTCTC--CATCAA
*
6900488 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CAT-AA
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTGACTCTCCATCAA
6900533 TGTGGCCGATG-CATGTCCCAGACAT-GTCTTACACTG
1 ----GCCGATGCCATGTCCCAGACATGGTCTTACACTG
6900569 GCACACAAAT
Statistics
Matches: 215, Mismatches: 32, Indels: 49
0.73 0.11 0.17
Matches are distributed among these distances:
43 2 0.01
44 11 0.05
45 16 0.07
46 30 0.14
47 61 0.28
48 31 0.14
49 35 0.16
50 28 0.13
51 1 0.00
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.26
Consensus pattern (46 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGACTCTCCATCAA
Found at i:6902559 original size:57 final size:58
Alignment explanation
Indices: 6902463--6902599 Score: 188
Period size: 57 Copynumber: 2.4 Consensus size: 58
6902453 AACATATAAC
** *
6902463 AGGATTACCAGTCTAGGCTAAATCCTTTTTGAAATATATGCTCAGAAGAGC-TCA-ATT
1 AGGATTACCAGTCTAGGCTAAATCCTAATTGAAACATATGCTCAGAAGA-CATCATATT
* * * *
6902520 AGGATTACCAGTCCAGGCTAAATCCTAATTGTAACATATGCTCAGGAGACATTATATT
1 AGGATTACCAGTCTAGGCTAAATCCTAATTGAAACATATGCTCAGAAGACATCATATT
6902578 AGGATTACCAGTCTAGGCTAAA
1 AGGATTACCAGTCTAGGCTAAA
6902600 CTTCGTCAGC
Statistics
Matches: 70, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
56 1 0.01
57 45 0.64
58 24 0.34
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.29
Consensus pattern (58 bp):
AGGATTACCAGTCTAGGCTAAATCCTAATTGAAACATATGCTCAGAAGACATCATATT
Found at i:6903496 original size:9 final size:9
Alignment explanation
Indices: 6903482--6903506 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
6903472 TTTATCATCT
6903482 TTTAATTAA
1 TTTAATTAA
6903491 TTTAATTAA
1 TTTAATTAA
6903500 TTTAATT
1 TTTAATT
6903507 TCCAATTTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (9 bp):
TTTAATTAA
Found at i:6909723 original size:30 final size:30
Alignment explanation
Indices: 6909665--6909723 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
6909655 ATTTTCGAGC
**
6909665 CTAGGGGCAAAACGGTCATTTTGTCAAAGT
1 CTAGGGGCAAAACGGTCATTTTACCAAAGT
* **
6909695 CTAGGGGCAAAATGGTTGTTTTACCAAAG
1 CTAGGGGCAAAACGGTCATTTTACCAAAG
6909724 ATATGTATTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.31, C:0.15, G:0.27, T:0.27
Consensus pattern (30 bp):
CTAGGGGCAAAACGGTCATTTTACCAAAGT
Found at i:6913016 original size:66 final size:69
Alignment explanation
Indices: 6912887--6913016 Score: 169
Period size: 66 Copynumber: 1.9 Consensus size: 69
6912877 GGGATGTATC
* *
6912887 CCATGTAGAAAGAGAGCTACCGGAGAGGATAAATGTAGCTAGGTCACATGTGTGATTCCAAGTGA
1 CCATGTAGAAAGAGAGCTACC-G-GAGGATAAATGTAGCTAGGTCACATGGGTGATACCAAGTGA
6912952 AGGACA
64 AGGACA
* *
6912958 CCATGTAGACAAGAGAGCTA-C-GA-GATAAAT-TGGCTAGGTCACATGGGTGATACTAAGTG
1 CCATGTAGA-AAGAGAGCTACCGGAGGATAAATGTAGCTAGGTCACATGGGTGATACCAAGTG
6913017 TTCACCATGT
Statistics
Matches: 54, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
66 25 0.46
67 7 0.13
68 2 0.04
71 10 0.19
72 10 0.19
ACGTcount: A:0.35, C:0.15, G:0.29, T:0.21
Consensus pattern (69 bp):
CCATGTAGAAAGAGAGCTACCGGAGGATAAATGTAGCTAGGTCACATGGGTGATACCAAGTGAAG
GACA
Found at i:6916153 original size:22 final size:22
Alignment explanation
Indices: 6916128--6916169 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
6916118 GTTTCACATT
* *
6916128 CATTTTCATACCAAAAACATAC
1 CATTTCCATAACAAAAACATAC
*
6916150 CATTTCCATAACTAAAACAT
1 CATTTCCATAACAAAAACAT
6916170 TACTAACTTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.45, C:0.26, G:0.00, T:0.29
Consensus pattern (22 bp):
CATTTCCATAACAAAAACATAC
Found at i:6916931 original size:12 final size:13
Alignment explanation
Indices: 6916895--6916932 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
6916885 AAATATTTGA
6916895 CTTGTTCTTAATT
1 CTTGTTCTTAATT
*
6916908 ATGTGTTCTTAATT
1 CT-TGTTCTTAATT
6916922 CTTG-TCTTAAT
1 CTTGTTCTTAAT
6916933 ATTCTAGGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 7 0.32
13 3 0.14
14 12 0.55
ACGTcount: A:0.18, C:0.13, G:0.11, T:0.58
Consensus pattern (13 bp):
CTTGTTCTTAATT
Found at i:6922772 original size:11 final size:11
Alignment explanation
Indices: 6922759--6922795 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
6922749 TTTAAGTACT
6922759 TTTTATTTT-A
1 TTTTATTTTAA
6922769 TTTTATTTTAA
1 TTTTATTTTAA
*
6922780 TATTATTTTAA
1 TTTTATTTTAA
6922791 TTTTA
1 TTTTA
6922796 GGTTCTATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
10 9 0.38
11 15 0.62
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (11 bp):
TTTTATTTTAA
Found at i:6925251 original size:12 final size:13
Alignment explanation
Indices: 6925215--6925252 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
6925205 AAATATTTGA
6925215 CTTGTTCTTAATT
1 CTTGTTCTTAATT
*
6925228 ATGTGTTCTTAATT
1 CT-TGTTCTTAATT
6925242 CTTG-TCTTAAT
1 CTTGTTCTTAAT
6925253 ATTCCAGGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 7 0.32
13 3 0.14
14 12 0.55
ACGTcount: A:0.18, C:0.13, G:0.11, T:0.58
Consensus pattern (13 bp):
CTTGTTCTTAATT
Found at i:6926573 original size:42 final size:43
Alignment explanation
Indices: 6926505--6926625 Score: 120
Period size: 44 Copynumber: 2.8 Consensus size: 43
6926495 AAAGCTCGTA
* * *
6926505 CAATGCCACTGTCCCAGGCAGGGTCTTACACGAAATCA-AA-T
1 CAATGCCAATGTCCCAGACATGGTCTTACACGAAATCATAAGT
* ** *
6926546 ACGATGCTGATGTCCCAGACATGGTCTTACATGTAAATCATAAGT
1 -CAATGCCAATGTCCCAGACATGGTCTTACACG-AAATCATAAGT
** *
6926591 CAATGCCAACATCCCAGACGTGGTCTTACACGAAA
1 CAATGCCAATGTCCCAGACATGGTCTTACACGAAA
6926626 ACACATATCG
Statistics
Matches: 62, Mismatches: 14, Indels: 5
0.77 0.17 0.06
Matches are distributed among these distances:
42 25 0.40
43 9 0.15
44 27 0.44
45 1 0.02
ACGTcount: A:0.32, C:0.26, G:0.19, T:0.22
Consensus pattern (43 bp):
CAATGCCAATGTCCCAGACATGGTCTTACACGAAATCATAAGT
Found at i:6927399 original size:12 final size:12
Alignment explanation
Indices: 6927382--6927408 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
6927372 ATAAGCATGG
6927382 AAAATAATATTT
1 AAAATAATATTT
6927394 AAAATAATATTT
1 AAAATAATATTT
6927406 AAA
1 AAA
6927409 TATTTTCTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (12 bp):
AAAATAATATTT
Found at i:6929650 original size:24 final size:23
Alignment explanation
Indices: 6929607--6929652 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 23
6929597 TTTATGGTTT
6929607 AAAATTTCACGAAATTATTTCGTG
1 AAAATTTCACGAAA-TATTTCGTG
6929631 AAAATTTCATTCGAAA-ATTTCG
1 AAAATTTCA--CGAAATATTTCG
6929653 ACATTTGGGC
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
24 15 0.75
26 5 0.25
ACGTcount: A:0.39, C:0.13, G:0.11, T:0.37
Consensus pattern (23 bp):
AAAATTTCACGAAATATTTCGTG
Found at i:6932956 original size:210 final size:210
Alignment explanation
Indices: 6932594--6933013 Score: 840
Period size: 210 Copynumber: 2.0 Consensus size: 210
6932584 CTATATTTTG
6932594 CAACAAGGTAAGTTGTGTGTAAGTAATTCAACAACTCCAATATTACGTATTTAATATATTTGACA
1 CAACAAGGTAAGTTGTGTGTAAGTAATTCAACAACTCCAATATTACGTATTTAATATATTTGACA
6932659 TTATATGATACATGAATGTATGCTTTAATAAAATTGACTTGTGATGATCCAATGGAAGTTTAGTG
66 TTATATGATACATGAATGTATGCTTTAATAAAATTGACTTGTGATGATCCAATGGAAGTTTAGTG
6932724 ATAGCCTCGTGTCTTAGAAGCCCGGGTAACCCAAAGGAATACTTAGGACTTGGATGTCGTGACAC
131 ATAGCCTCGTGTCTTAGAAGCCCGGGTAACCCAAAGGAATACTTAGGACTTGGATGTCGTGACAC
6932789 CATGCTAAATGTGCC
196 CATGCTAAATGTGCC
6932804 CAACAAGGTAAGTTGTGTGTAAGTAATTCAACAACTCCAATATTACGTATTTAATATATTTGACA
1 CAACAAGGTAAGTTGTGTGTAAGTAATTCAACAACTCCAATATTACGTATTTAATATATTTGACA
6932869 TTATATGATACATGAATGTATGCTTTAATAAAATTGACTTGTGATGATCCAATGGAAGTTTAGTG
66 TTATATGATACATGAATGTATGCTTTAATAAAATTGACTTGTGATGATCCAATGGAAGTTTAGTG
6932934 ATAGCCTCGTGTCTTAGAAGCCCGGGTAACCCAAAGGAATACTTAGGACTTGGATGTCGTGACAC
131 ATAGCCTCGTGTCTTAGAAGCCCGGGTAACCCAAAGGAATACTTAGGACTTGGATGTCGTGACAC
6932999 CATGCTAAATGTGCC
196 CATGCTAAATGTGCC
6933014 TGTGTAAGAC
Statistics
Matches: 210, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
210 210 1.00
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (210 bp):
CAACAAGGTAAGTTGTGTGTAAGTAATTCAACAACTCCAATATTACGTATTTAATATATTTGACA
TTATATGATACATGAATGTATGCTTTAATAAAATTGACTTGTGATGATCCAATGGAAGTTTAGTG
ATAGCCTCGTGTCTTAGAAGCCCGGGTAACCCAAAGGAATACTTAGGACTTGGATGTCGTGACAC
CATGCTAAATGTGCC
Found at i:6937317 original size:10 final size:10
Alignment explanation
Indices: 6937291--6937320 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
6937281 CGCGAATCTG
*
6937291 TCAAAAATAA
1 TCAAAATTAA
6937301 TCAAAATTAA
1 TCAAAATTAA
6937311 TCAAAATTAA
1 TCAAAATTAA
6937321 GTATAAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.63, C:0.10, G:0.00, T:0.27
Consensus pattern (10 bp):
TCAAAATTAA
Found at i:6944747 original size:40 final size:40
Alignment explanation
Indices: 6944661--6944754 Score: 102
Period size: 40 Copynumber: 2.4 Consensus size: 40
6944651 TCAACTATGT
*
6944661 TGGCACTTAGTGTGAGTTTCGAGATAGCTTCGGCTATATA
1 TGGCACTTAGTGTGAGATTCGAGATAGCTTCGGCTATATA
* * * *
6944701 TAGCACTTAGTGTGCGAATTGGA-ATAGCTTTGGCTATATGA
1 TGGCACTTAGTGTGAG-ATTCGAGATAGCTTCGGCTATAT-A
*
6944742 -GGCACTAAGTGTG
1 TGGCACTTAGTGTG
6944755 TGATACTAAG
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
40 40 0.89
41 5 0.11
ACGTcount: A:0.24, C:0.14, G:0.29, T:0.33
Consensus pattern (40 bp):
TGGCACTTAGTGTGAGATTCGAGATAGCTTCGGCTATATA
Found at i:6949102 original size:14 final size:15
Alignment explanation
Indices: 6949078--6949119 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
6949068 TACTTAGTTT
*
6949078 AAATCTTAATTAATC
1 AAATATTAATTAATC
*
6949093 AAA-ATTAATTAATT
1 AAATATTAATTAATC
*
6949107 AAATCTTAATTAA
1 AAATATTAATTAA
6949120 CTAAACATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.40
Consensus pattern (15 bp):
AAATATTAATTAATC
Found at i:6949117 original size:15 final size:15
Alignment explanation
Indices: 6949076--6949124 Score: 64
Period size: 15 Copynumber: 3.3 Consensus size: 15
6949066 TATACTTAGT
6949076 TTAAATCTTAATTAA
1 TTAAATCTTAATTAA
* *
6949091 TCAAA-ATTAATTAA
1 TTAAATCTTAATTAA
6949105 TTAAATCTTAATTAA
1 TTAAATCTTAATTAA
*
6949120 CTAAA
1 TTAAA
6949125 CATTAATCAT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
14 12 0.43
15 16 0.57
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (15 bp):
TTAAATCTTAATTAA
Found at i:6950385 original size:30 final size:25
Alignment explanation
Indices: 6950321--6950370 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
6950311 ATTGATTATG
6950321 AATGAGAATTTTTTTACCATTCCAA
1 AATGAGAATTTTTTTACCATTCCAA
6950346 AATGAGAATTTTTTTACCATTCCAA
1 AATGAGAATTTTTTTACCATTCCAA
6950371 GTATGCTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.36, C:0.16, G:0.08, T:0.40
Consensus pattern (25 bp):
AATGAGAATTTTTTTACCATTCCAA
Found at i:6953507 original size:55 final size:54
Alignment explanation
Indices: 6953403--6953594 Score: 212
Period size: 55 Copynumber: 3.5 Consensus size: 54
6953393 GGGTTTCAGG
* * *
6953403 ATACCGTGTAAGACCATGCCAAGGCATGGCTATTGGTAAGGTT-TCTAAGGCAAGA
1 ATACCATGTAAGACCATGCCAAGACATGGC-ATTGGTAA-GTTCTATAAGGCAAGA
* * *
6953458 ATATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGG-AA-A
1 ATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT-CTATAAGGCAAGA
* * *
6953511 AGGTCCCATGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTC-ATATGGCAAGA
1 A--TACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCTATAAGGCAAGA
* *
6953566 ATACCATGTAAGACCATGTCGAGACATGG
1 ATACCATGTAAGACCATGCCAAGACATGG
6953595 AAATGGCAAG
Statistics
Matches: 115, Mismatches: 16, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
53 34 0.30
54 12 0.10
55 69 0.60
ACGTcount: A:0.34, C:0.18, G:0.24, T:0.23
Consensus pattern (54 bp):
ATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCTATAAGGCAAGA
Found at i:6953606 original size:108 final size:110
Alignment explanation
Indices: 6953409--6953606 Score: 303
Period size: 108 Copynumber: 1.8 Consensus size: 110
6953399 CAGGATACCG
*
6953409 TGTAAGACCATGCCAAGGCATGGCTATTGGTAAGGTTTCTAAGGCAAGAATATCATGTAAGACCA
1 TGTAAGACCATGCCAAGGCATGGCTATTGGTAAGGTTTCTAAGGCAAGAATACCATGTAAGACCA
* * *
6953474 TGTCAAGACATGGCATTGATAAGTTACTATAAGGAAAAGGTCCCA
66 TGTCAAGACATGGAAATGACAAGTTACTATAAGGAAAAGGTCCCA
*
6953519 TGTAAGACCATGCCAAGGCATGGC-ATTGGTAA-G-TTCATATGGCAAGAATACCATGTAAGACC
1 TGTAAGACCATGCCAAGGCATGGCTATTGGTAAGGTTTC-TAAGGCAAGAATACCATGTAAGACC
* *
6953581 ATGTCGAGACATGGAAATGGCAAGTT
65 ATGTCAAGACATGGAAATGACAAGTT
6953607 TAAAAAGGAT
Statistics
Matches: 80, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
107 3 0.04
108 45 0.56
109 8 0.10
110 24 0.30
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.24
Consensus pattern (110 bp):
TGTAAGACCATGCCAAGGCATGGCTATTGGTAAGGTTTCTAAGGCAAGAATACCATGTAAGACCA
TGTCAAGACATGGAAATGACAAGTTACTATAAGGAAAAGGTCCCA
Found at i:6955481 original size:40 final size:40
Alignment explanation
Indices: 6955437--6955698 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
6955427 GCTCCTCGTT
* *
6955437 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
6955477 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
6955517 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
6955556 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
6955595 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
6955634 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
6955675 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
6955699 CATCATTCAA
Statistics
Matches: 205, Mismatches: 9, Indels: 17
0.89 0.04 0.07
Matches are distributed among these distances:
38 2 0.01
39 128 0.62
40 64 0.31
41 11 0.05
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:6960012 original size:108 final size:108
Alignment explanation
Indices: 6959821--6960037 Score: 362
Period size: 108 Copynumber: 2.0 Consensus size: 108
6959811 AGAACATTGA
* * * * *
6959821 GGCTCCCTTCAGTTGGTCGAACAAATCATCGATACGCGGTAACGGATATTTGTTCTTTATCGTCA
1 GGCTCCCTTCAATTGATCGAACAAATCATCAATACGCGGTAACGGATACTTATTCTTTATCGTCA
*
6959886 CTTTATTCAGTTGGCGATAGTCAATGCACAACCTCATGGTTCC
66 CTTTATTCAGTTGACGATAGTCAATGCACAACCTCATGGTTCC
* *
6959929 GGCTCCCTTTAATTGATCGAACAGATCATCAATACGCGGTAACGGATACTTATTCTTTATCGTCA
1 GGCTCCCTTCAATTGATCGAACAAATCATCAATACGCGGTAACGGATACTTATTCTTTATCGTCA
6959994 CTTTATTCAGTTGACGATAGTCAATGCACAACCTCATGGTTCC
66 CTTTATTCAGTTGACGATAGTCAATGCACAACCTCATGGTTCC
6960037 G
1 G
6960038 TCCTTCTTTT
Statistics
Matches: 101, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
108 101 1.00
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (108 bp):
GGCTCCCTTCAATTGATCGAACAAATCATCAATACGCGGTAACGGATACTTATTCTTTATCGTCA
CTTTATTCAGTTGACGATAGTCAATGCACAACCTCATGGTTCC
Found at i:6963674 original size:39 final size:40
Alignment explanation
Indices: 6963553--6963775 Score: 239
Period size: 39 Copynumber: 5.7 Consensus size: 40
6963543 GCTCCTCGTT
* * *
6963553 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * * *
6963593 CAAATGCCTTCGGGACTTATCCCCGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
6963633 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
6963672 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* * *
6963711 CAAATGCCTT-TGGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
6963752 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
6963776 CATCATCCAA
Statistics
Matches: 161, Mismatches: 14, Indels: 17
0.84 0.07 0.09
Matches are distributed among these distances:
38 2 0.01
39 86 0.53
40 62 0.39
41 11 0.07
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:6963759 original size:78 final size:79
Alignment explanation
Indices: 6963553--6963775 Score: 235
Period size: 79 Copynumber: 2.8 Consensus size: 79
6963543 GCTCCTCGTT
* * * *
6963553 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TTGCACAAATGCCTTCGGGACTTATCCC
1 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGT-ATCTAGCACAAATGCCTTCGGGACTTAGCCC
* *
6963616 CGATTTAGTAACTCGCA
63 GGAATTAGTAACTCGCA
*
6963633 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGG-CTTAGCCCGGA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTAGCACAAATGCCTTCGGGACTTAGCCCGGA
*
6963697 ATTAGTATCTCGCA
66 ATTAGTAACTCGCA
* * *
6963711 CAAATGCCTTTGGATCTTAGTCCGGATATT-GTCA-CTTAGCAC-AA-GCCTTCGGGACTTAGCC
1 CAAATGCCTTCGG-GCTTAGCCCGGA-ATTAGT-ATC-TAGCACAAATGCCTTCGGGACTTAGCC
6963772 CGGA
62 CGGA
6963776 CATCATCCAA
Statistics
Matches: 125, Mismatches: 11, Indels: 15
0.83 0.07 0.10
Matches are distributed among these distances:
78 44 0.35
79 57 0.46
80 24 0.19
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (79 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTAGCACAAATGCCTTCGGGACTTAGCCCGGA
ATTAGTAACTCGCA
Found at i:6967220 original size:46 final size:46
Alignment explanation
Indices: 6967096--6967304 Score: 149
Period size: 46 Copynumber: 4.5 Consensus size: 46
6967086 GTGTCGATGC
* * *
6967096 CATGTCCCAAACATGGTCTTACACT-ACACATC-TCGT-A-GCCGATG
1 CATGTCCCAGACAT-GTCTTACACTAACAC-TCGTCTTGAGGCCAATG
** * *
6967140 CATGTCCCAGACATGTCTTACACTGGC-TTACGTCTTGAGGCCAAAG
1 CATGTCCCAGACATGTCTTACACTAACACT-CGTCTTGAGGCCAATG
** * * * *
6967186 CATGTCCCAGACATGTCTTACACTAACACTCGTCTCAATGCTGATTC
1 CATGTCCCAGACATGTCTTACACTAACACTCGTCTTGAGGC-CAATG
** * * ** * *
6967233 CATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATG
1 CATGTCCCAGACAT-GTCTTACACTAACACTCGTCTTGAGGCCAATG
6967280 CATGTCCCAGACATGTCTTACACTA
1 CATGTCCCAGACATGTCTTACACTA
6967305 GCTCACACAA
Statistics
Matches: 126, Mismatches: 31, Indels: 14
0.74 0.18 0.08
Matches are distributed among these distances:
42 1 0.01
43 11 0.09
44 17 0.13
45 1 0.01
46 48 0.38
47 31 0.25
48 17 0.13
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTAACACTCGTCTTGAGGCCAATG
Found at i:6967283 original size:94 final size:92
Alignment explanation
Indices: 6967039--6967304 Score: 267
Period size: 94 Copynumber: 2.9 Consensus size: 92
6967029 GGGTCAGGTA
* ** * * *
6967039 CTGATGCCATGTCCCAGACATGGTCTTACACAAGTTCTACCATATTTGTGTCGATGCCATGTCCC
1 CTGATTCCATGTCCCAGACATGGTCTTACACTGGCTCTA-CATATGTG-GCCGATG-CATGTCCC
*
6967104 AAACATGGTCTTACACT-ACACATCTCGTAG
63 AGACAT-GTCTTACACTAACACATCTCGTAG
* * * * * * *
6967134 CCGA-TGCATGTCCCAGACAT-GTCTTACACTGGCT-TACGTCTTGAGGCCAAAGCATGTCCCAG
1 CTGATTCCATGTCCCAGACATGGTCTTACACTGGCTCTACAT-ATGTGGCCGATGCATGTCCCAG
6967196 ACATGTCTTACACTAACAC-TCGTC-TCAATG
65 ACATGTCTTACACTAACACATC-TCGT--A-G
6967226 CTGATTCCATGTCCCAGACATGGTCTTACACTGGCTCT-CATAATGTGGCCGATGCATGTCCCAG
1 CTGATTCCATGTCCCAGACATGGTCTTACACTGGCTCTACAT-ATGTGGCCGATGCATGTCCCAG
6967290 ACATGTCTTACACTA
65 ACATGTCTTACACTA
6967305 GCTCACACAA
Statistics
Matches: 140, Mismatches: 22, Indels: 19
0.77 0.12 0.10
Matches are distributed among these distances:
89 13 0.09
90 19 0.14
91 7 0.05
92 8 0.06
93 26 0.19
94 63 0.45
95 4 0.03
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.28
Consensus pattern (92 bp):
CTGATTCCATGTCCCAGACATGGTCTTACACTGGCTCTACATATGTGGCCGATGCATGTCCCAGA
CATGTCTTACACTAACACATCTCGTAG
Found at i:6971887 original size:91 final size:91
Alignment explanation
Indices: 6971706--6972074 Score: 684
Period size: 91 Copynumber: 4.0 Consensus size: 91
6971696 TTCGAGGATG
* * * *
6971706 AAATTTCTTTAAAGGGGAGAGAATTGTAACATCCCCAGTTTAAAAAAAAAGAATATTTAAGGTAG
1 AAATTTCTTTAAAGGGGGGAGAATTGTAACATCCCCACTTTAAAAAAATA-TATATTTAAGGTAG
6971771 AAGTCCTTGAATAAGTGACCTATAAAT
65 AAGTCCTTGAATAAGTGACCTATAAAT
6971798 AAATTTCTTTAAAGGGGGGAGAATTGTAACATCCCCACTTTAAAAAAATATATATTTAAGGTAGA
1 AAATTTCTTTAAAGGGGGGAGAATTGTAACATCCCCACTTTAAAAAAATATATATTTAAGGTAGA
6971863 AGTCCTTGAATAAGTGACCTATAAAT
66 AGTCCTTGAATAAGTGACCTATAAAT
6971889 AAATTTCTTTAAAGGGGGGAGAATTGTAACATCCCCACTTTAAAAAAATATATATTTAAGGTAGA
1 AAATTTCTTTAAAGGGGGGAGAATTGTAACATCCCCACTTTAAAAAAATATATATTTAAGGTAGA
6971954 AGTCCTTGAATAAGTGACCTATAAAT
66 AGTCCTTGAATAAGTGACCTATAAAT
6971980 AAATTTCTTTAAAGGGGGGAGAATTGTAACATCCCCACTTTAAAAAAATATATATTTAAGGTAGA
1 AAATTTCTTTAAAGGGGGGAGAATTGTAACATCCCCACTTTAAAAAAATATATATTTAAGGTAGA
*
6972045 AGTCCTTGAATAAGTGATCTATAAAT
66 AGTCCTTGAATAAGTGACCTATAAAT
6972071 AAAT
1 AAAT
6972075 AATAGTATGA
Statistics
Matches: 272, Mismatches: 5, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
91 225 0.83
92 47 0.17
ACGTcount: A:0.42, C:0.11, G:0.17, T:0.30
Consensus pattern (91 bp):
AAATTTCTTTAAAGGGGGGAGAATTGTAACATCCCCACTTTAAAAAAATATATATTTAAGGTAGA
AGTCCTTGAATAAGTGACCTATAAAT
Found at i:6972075 original size:46 final size:45
Alignment explanation
Indices: 6971838--6972075 Score: 110
Period size: 46 Copynumber: 5.2 Consensus size: 45
6971828 ATCCCCACTT
6971838 TAAAAAAATATATATTTAAGGTAGAAGTCCTTGAATAAGTGACCTA
1 TAAAAAAATATATATTTAAGGTAGAAGTCCTTGAATAAGTGA-CTA
* * ** * ** * **** *
6971884 TAAATAAAT-T-TCTTTAAAGGGGGGAG-AATTGTAACATCCCCACTT
1 TAAAAAAATATATATTT-AAGGTAGAAGTCCTTG-AATA-AGTGACTA
6971929 TAAAAAAATATATATTTAAGGTAGAAGTCCTTGAATAAGTGACCTA
1 TAAAAAAATATATATTTAAGGTAGAAGTCCTTGAATAAGTGA-CTA
* * ** * ** * **** *
6971975 TAAATAAAT-T-TCTTTAAAGGGGGGAG-AATTGTAACATCCCCACTT
1 TAAAAAAATATATATTT-AAGGTAGAAGTCCTTG-AATA-AGTGACTA
6972020 TAAAAAAATATATATTTAAGGTAGAAGTCCTTGAATAAGTGATCTA
1 TAAAAAAATATATATTTAAGGTAGAAGTCCTTGAATAAGTGA-CTA
*
6972066 TAAATAAATA
1 TAAAAAAATA
6972076 ATAGTATGAG
Statistics
Matches: 125, Mismatches: 53, Indels: 28
0.61 0.26 0.14
Matches are distributed among these distances:
44 14 0.11
45 44 0.35
46 53 0.42
47 14 0.11
ACGTcount: A:0.43, C:0.11, G:0.16, T:0.31
Consensus pattern (45 bp):
TAAAAAAATATATATTTAAGGTAGAAGTCCTTGAATAAGTGACTA
Found at i:6974063 original size:40 final size:40
Alignment explanation
Indices: 6974016--6974179 Score: 242
Period size: 40 Copynumber: 4.1 Consensus size: 40
6974006 CGGGCTTCAA
* *
6974016 CCGGATATAGCCACTCGCTCAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTCACTCGCACAAATGCCTTCGGGACTTAGC
* *
6974056 CCGGATATAGT-AGTTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTCA-CTCGCACAAATGCCTTCGGGACTTAGC
*
6974096 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTCACTCGCACAAATGCCTTCGGGACTTAGC
*
6974136 CCGGA-ATTAGTCACTAGCACAAATGCCTTCGGGACTTAGC
1 CCGGATA-TAGTCACTCGCACAAATGCCTTCGGGACTTAGC
6974176 CCGG
1 CCGG
6974180 TTATCATCCG
Statistics
Matches: 113, Mismatches: 8, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
39 2 0.02
40 110 0.97
41 1 0.01
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.23
Consensus pattern (40 bp):
CCGGATATAGTCACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:6975400 original size:30 final size:29
Alignment explanation
Indices: 6975363--6975422 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 29
6975353 TAGTGAACCA
6975363 CCATAGCCGATTTTCTCCAAGCTCTTTCC
1 CCATAGCCGATTTTCTCCAAGCTCTTTCC
*
6975392 CNCATAGCCGATTTTCTCCAAGTTCTTTCC
1 C-CATAGCCGATTTTCTCCAAGCTCTTTCC
6975422 C
1 C
6975423 TTCTTTTTCT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 1 0.03
30 28 0.97
ACGTcount: A:0.17, C:0.37, G:0.10, T:0.35
Consensus pattern (29 bp):
CCATAGCCGATTTTCTCCAAGCTCTTTCC
Found at i:6978728 original size:23 final size:24
Alignment explanation
Indices: 6978680--6978729 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
6978670 ATATCATATC
6978680 AATAAATAATTTTAAAAATATAAA
1 AATAAATAATTTTAAAAATATAAA
* *
6978704 AATAAA-AATATTTAAAATTCTAAA
1 AATAAATAAT-TTTAAAAATATAAA
6978728 AA
1 AA
6978730 ATTATTATAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 3 0.13
24 20 0.87
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (24 bp):
AATAAATAATTTTAAAAATATAAA
Found at i:6983186 original size:32 final size:32
Alignment explanation
Indices: 6983124--6983197 Score: 87
Period size: 32 Copynumber: 2.3 Consensus size: 32
6983114 ATACAGCTTT
* *
6983124 AAGCCTTCAGTAGCGGTATTACAATTGGCACA
1 AAGCCATCAGTAGCGGTAATACAATTGGCACA
* *
6983156 AAGCCATCAGTAGCTGTAATA-AGTTCGGCACA
1 AAGCCATCAGTAGCGGTAATACAATT-GGCACA
*
6983188 TAGCCATCAG
1 AAGCCATCAG
6983198 CTATGGTAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
31 3 0.08
32 33 0.92
ACGTcount: A:0.32, C:0.23, G:0.22, T:0.23
Consensus pattern (32 bp):
AAGCCATCAGTAGCGGTAATACAATTGGCACA
Found at i:6992810 original size:30 final size:31
Alignment explanation
Indices: 6992750--6992811 Score: 74
Period size: 31 Copynumber: 2.0 Consensus size: 31
6992740 TTATTTAATT
*
6992750 AATTATCATCTTTTATTTTTTTTCACTTTCC
1 AATTATCATCTTTTATTTATTTTCACTTTCC
* *
6992781 AATT-TCATCATTTTCTTTATTTT-ATTTTCC
1 AATTATCATC-TTTTATTTATTTTCACTTTCC
6992811 A
1 A
6992812 TGGATGAATC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
30 12 0.44
31 15 0.56
ACGTcount: A:0.21, C:0.18, G:0.00, T:0.61
Consensus pattern (31 bp):
AATTATCATCTTTTATTTATTTTCACTTTCC
Found at i:6994587 original size:21 final size:21
Alignment explanation
Indices: 6994563--6994609 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
6994553 TATGTCTTGC
6994563 TAAGGAATTATCTTCCTCTCG
1 TAAGGAATTATCTTCCTCTCG
*
6994584 TAAGAAATTATCTTCCTCTCG
1 TAAGGAATTATCTTCCTCTCG
6994605 TAAGG
1 TAAGG
6994610 TGGCAACACT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.28, C:0.21, G:0.15, T:0.36
Consensus pattern (21 bp):
TAAGGAATTATCTTCCTCTCG
Found at i:6995048 original size:66 final size:66
Alignment explanation
Indices: 6994941--6995119 Score: 195
Period size: 66 Copynumber: 2.7 Consensus size: 66
6994931 GAAAAATTAA
* * *
6994941 ATATC-AGATCTTCCCAAGCTCCTGGACTAGATAT-TCA-GTCTTCTCAATCCCAAGCTCCTGAA
1 ATATCAAG-TCTTCCCAAGCTCCT-GA-AAGAAATATCAGGTCTTCTCAATCCCAAGATCCTGAA
**
6995003 CTCG
63 CAAG
* *
6995007 ATATTAAGTCTTCCCAAGCTCCTGAAAGAAATATCAGGTCTTCTCAATCCCAAGATCTTGAACAA
1 ATATCAAGTCTTCCCAAGCTCCTGAAAGAAATATCAGGTCTTCTCAATCCCAAGATCCTGAACAA
6995072 G
66 G
* * * *
6995073 ATATCGAGTCTTCTCAAGCTCCT-AAACAAGATATCGGGTCTTCTCAA
1 ATATCAAGTCTTCCCAAGCTCCTGAAAGAA-ATATCAGGTCTTCTCAA
6995120 GTTCTTGAAC
Statistics
Matches: 97, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
64 5 0.05
65 10 0.10
66 80 0.82
67 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.28
Consensus pattern (66 bp):
ATATCAAGTCTTCCCAAGCTCCTGAAAGAAATATCAGGTCTTCTCAATCCCAAGATCCTGAACAA
G
Found at i:6998047 original size:14 final size:14
Alignment explanation
Indices: 6998028--6998057 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
6998018 CTTACCCTTG
6998028 AATCATAAACTATA
1 AATCATAAACTATA
*
6998042 AATCATATACTATA
1 AATCATAAACTATA
6998056 AA
1 AA
6998058 AGAGGGAATC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.57, C:0.13, G:0.00, T:0.30
Consensus pattern (14 bp):
AATCATAAACTATA
Found at i:7002142 original size:2 final size:2
Alignment explanation
Indices: 7002137--7002165 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
7002127 ACATGAGACC
7002137 CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
7002166 ACTGGAAACA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:7005611 original size:93 final size:93
Alignment explanation
Indices: 7005482--7005653 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
7005472 CGCCCATAAG
* * *
7005482 CGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
7005547 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
7005575 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
7005640 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
7005654 TCAACCATCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:7005650 original size:46 final size:46
Alignment explanation
Indices: 7005475--7005650 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
7005465 TGTAACCCGC
* * * *
7005475 CCATAAGCGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
7005521 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
7005571 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
7005614 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
7005651 TGCTCAACCA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 62 0.56
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:7005669 original size:46 final size:46
Alignment explanation
Indices: 7005524--7005662 Score: 144
Period size: 47 Copynumber: 3.0 Consensus size: 46
7005514 TTCGCATCCA
7005524 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATC
* * * * *
7005572 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA--
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCTCAACCATC
7005617 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATC
7005663 CTAGTGACAT
Statistics
Matches: 75, Mismatches: 9, Indels: 16
0.75 0.09 0.16
Matches are distributed among these distances:
44 8 0.11
45 2 0.03
46 28 0.37
47 30 0.40
48 2 0.03
49 4 0.05
50 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATC
Found at i:7008876 original size:48 final size:49
Alignment explanation
Indices: 7008822--7008923 Score: 163
Period size: 48 Copynumber: 2.1 Consensus size: 49
7008812 AGGACTAAAT
*
7008822 CATAAAAGATGGAAAAGTTATTTACTATT-AATTTCTTAACATAATGGC
1 CATAAAAGATGGAAAAGTTAGTTACTATTGAATTTCTTAACATAATGGC
* *
7008870 CATAAAAGATGGAAAAGTTAGTTACTATTGATTTTTTTAACATAATGGC
1 CATAAAAGATGGAAAAGTTAGTTACTATTGAATTTCTTAACATAATGGC
7008919 C-TAAA
1 CATAAA
7008924 CATTTAAAGT
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
48 32 0.64
49 18 0.36
ACGTcount: A:0.41, C:0.10, G:0.14, T:0.35
Consensus pattern (49 bp):
CATAAAAGATGGAAAAGTTAGTTACTATTGAATTTCTTAACATAATGGC
Found at i:7023140 original size:20 final size:20
Alignment explanation
Indices: 7023115--7023161 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
7023105 CCGTACACCA
7023115 CACACGGCC-TACCTAGCCAT
1 CACACGGCCGT-CCTAGCCAT
*
7023135 CACACGGCCGTTCTAGCCAT
1 CACACGGCCGTCCTAGCCAT
7023155 CACACGG
1 CACACGG
7023162 TAGTGCCTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 24 0.96
21 1 0.04
ACGTcount: A:0.23, C:0.43, G:0.19, T:0.15
Consensus pattern (20 bp):
CACACGGCCGTCCTAGCCAT
Found at i:7027835 original size:30 final size:30
Alignment explanation
Indices: 7027801--7027860 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
7027791 ATTTAATACG
7027801 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
*** *
7027831 AACTTTTTCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
7027861 TGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.38
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:7030094 original size:13 final size:13
Alignment explanation
Indices: 7030076--7030100 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7030066 ATTTACAAGA
7030076 TTACATAATCAAT
1 TTACATAATCAAT
7030089 TTACATAATCAA
1 TTACATAATCAA
7030101 ATCAAATCAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.16, G:0.00, T:0.36
Consensus pattern (13 bp):
TTACATAATCAAT
Found at i:7033435 original size:12 final size:12
Alignment explanation
Indices: 7033420--7033444 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
7033410 ACATGTATAA
7033420 AAAAATTAAACC
1 AAAAATTAAACC
7033432 AAAAATTAAACC
1 AAAAATTAAACC
7033444 A
1 A
7033445 TTTTACCTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.68, C:0.16, G:0.00, T:0.16
Consensus pattern (12 bp):
AAAAATTAAACC
Found at i:7035012 original size:17 final size:18
Alignment explanation
Indices: 7034974--7035012 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
7034964 ATTAAATGAA
7034974 AATTATCTCAATTAAAAT
1 AATTATCTCAATTAAAAT
*
7034992 -ATTATTTCAA-TAAAAT
1 AATTATCTCAATTAAAAT
7035008 AATTA
1 AATTA
7035013 AATTTTACAG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
16 6 0.32
17 13 0.68
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (18 bp):
AATTATCTCAATTAAAAT
Found at i:7042569 original size:19 final size:20
Alignment explanation
Indices: 7042535--7042574 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
7042525 AAAAATAATT
7042535 TTTTCCACTTTTTTTTTATGA
1 TTTTCCAC-TTTTTTTTATGA
7042556 TTTTCCAC-TTTTTTTATGA
1 TTTTCCACTTTTTTTTATGA
7042575 ATAATTTAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 11 0.58
21 8 0.42
ACGTcount: A:0.15, C:0.15, G:0.05, T:0.65
Consensus pattern (20 bp):
TTTTCCACTTTTTTTTATGA
Found at i:7061819 original size:32 final size:32
Alignment explanation
Indices: 7061775--7061839 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
7061765 TTTTGGGAAA
7061775 AAGAAAAATGATAAATTTTGCCCTTAACATTT
1 AAGAAAAATGATAAATTTTGCCCTTAACATTT
* *
7061807 AAGAAAAGTGATAAATTTTTCCCTTAACATTT
1 AAGAAAAATGATAAATTTTGCCCTTAACATTT
7061839 A
1 A
7061840 TATCTTTTGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.43, C:0.12, G:0.09, T:0.35
Consensus pattern (32 bp):
AAGAAAAATGATAAATTTTGCCCTTAACATTT
Found at i:7065207 original size:30 final size:30
Alignment explanation
Indices: 7065173--7065232 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
7065163 AGAATCTCAG
*
7065173 ATAAAACAGATTAACAAATTTCAAAATTAA
1 ATAAAACAGATTAACAAATATCAAAATTAA
7065203 ATAAAACAGATTAACAAATATCAAAATTAA
1 ATAAAACAGATTAACAAATATCAAAATTAA
7065233 CATATCATGC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.62, C:0.10, G:0.03, T:0.25
Consensus pattern (30 bp):
ATAAAACAGATTAACAAATATCAAAATTAA
Found at i:7065784 original size:11 final size:11
Alignment explanation
Indices: 7065770--7065808 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
7065760 AGAGAGGAAA
7065770 AAAACAAAATT
1 AAAACAAAATT
*
7065781 AAAATAAAATT
1 AAAACAAAATT
* *
7065792 AAAATAAAATA
1 AAAACAAAATT
7065803 AAAACA
1 AAAACA
7065809 CTATCCCAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.77, C:0.05, G:0.00, T:0.18
Consensus pattern (11 bp):
AAAACAAAATT
Found at i:7071167 original size:30 final size:30
Alignment explanation
Indices: 7071119--7071175 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
7071109 TTTACGAGCC
***
7071119 TAGGGGCAAAAGTGTAATTTTGACAAAGTT
1 TAGGGGCAAAAACATAATTTTGACAAAGTT
*
7071149 TAGGGGCAAAAACATAATTTTGTCAAA
1 TAGGGGCAAAAACATAATTTTGACAAA
7071176 ATATGATTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAAACATAATTTTGACAAAGTT
Found at i:7080098 original size:52 final size:52
Alignment explanation
Indices: 7080016--7080177 Score: 299
Period size: 52 Copynumber: 3.1 Consensus size: 52
7080006 TTGTTTAGTA
*
7080016 GAAT-AATCCAAGCTCACTTGGTGTTTAACCAGCCAGTCCATTCCCAGTATT
1 GAATCAATCCAAGCTCACTCGGTGTTTAACCAGCCAGTCCATTCCCAGTATT
7080067 GAATCAATCCAAGCTCACTCGGTGTTTAACCAGCCAGTCCATTCCCAGTATT
1 GAATCAATCCAAGCTCACTCGGTGTTTAACCAGCCAGTCCATTCCCAGTATT
*
7080119 GAATCAATCCAAGCTCACTCGGTGTTTAACCAGCCAGTTCATTCCCAGTATT
1 GAATCAATCCAAGCTCACTCGGTGTTTAACCAGCCAGTCCATTCCCAGTATT
7080171 GAATCAA
1 GAATCAA
7080178 ACTATCCAAG
Statistics
Matches: 108, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
51 4 0.04
52 104 0.96
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.28
Consensus pattern (52 bp):
GAATCAATCCAAGCTCACTCGGTGTTTAACCAGCCAGTCCATTCCCAGTATT
Found at i:7087170 original size:18 final size:18
Alignment explanation
Indices: 7087134--7087173 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
7087124 TTACGCCTAG
*
7087134 AAAACCAAAATAAAACCC
1 AAAACCAAAAGAAAACCC
* *
7087152 AAAACCAAAAGCAATCCC
1 AAAACCAAAAGAAAACCC
7087170 AAAA
1 AAAA
7087174 AGTCCAGAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.65, C:0.28, G:0.03, T:0.05
Consensus pattern (18 bp):
AAAACCAAAAGAAAACCC
Found at i:7088315 original size:15 final size:15
Alignment explanation
Indices: 7088295--7088326 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
7088285 ACCCAAACCG
7088295 AAAAGAAAGAAAGGA
1 AAAAGAAAGAAAGGA
*
7088310 AAAAGAAATAAAGGA
1 AAAAGAAAGAAAGGA
7088325 AA
1 AA
7088327 TGGACAAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.75, C:0.00, G:0.22, T:0.03
Consensus pattern (15 bp):
AAAAGAAAGAAAGGA
Found at i:7095551 original size:21 final size:21
Alignment explanation
Indices: 7095515--7095557 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
7095505 ACCTTTTCTA
*
7095515 AAGTTAAAAATCAAAATTATT
1 AAGTTAAAAATCAAAATAATT
7095536 AAGTTAAAAAAT-AAAATAATT
1 AAGTT-AAAAATCAAAATAATT
7095557 A
1 A
7095558 TATTGTTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 14 0.70
22 6 0.30
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.30
Consensus pattern (21 bp):
AAGTTAAAAATCAAAATAATT
Found at i:7100998 original size:14 final size:15
Alignment explanation
Indices: 7100971--7100999 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
7100961 AATTTTATGA
7100971 ATTTCATGATGTATT
1 ATTTCATGATGTATT
7100986 ATTTCAT-ATGTATT
1 ATTTCATGATGTATT
7101000 GATGATAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.28, C:0.07, G:0.10, T:0.55
Consensus pattern (15 bp):
ATTTCATGATGTATT
Found at i:7101192 original size:50 final size:51
Alignment explanation
Indices: 7101115--7101237 Score: 187
Period size: 50 Copynumber: 2.4 Consensus size: 51
7101105 GACCATGGCA
7101115 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGA-AAAGTG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAA-TG
* *
7101166 A-AAGTGATAAGTTATAGCTTCGGCTACACTTATCTGATCAATGACAAATG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
* *
7101216 ACAAGTGAAAAGTGGTAGCTTC
1 ACAAGTGATAAGTGATAGCTTC
7101238 AGTTACCTAA
Statistics
Matches: 65, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
50 44 0.68
51 21 0.32
ACGTcount: A:0.36, C:0.15, G:0.22, T:0.27
Consensus pattern (51 bp):
ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
Found at i:7101257 original size:31 final size:31
Alignment explanation
Indices: 7101219--7101367 Score: 183
Period size: 31 Copynumber: 4.8 Consensus size: 31
7101209 ACAAATGACA
* *
7101219 AGTGAAAAGTGGTAGCTTCAGTTACCTAATC
1 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
*
7101250 AGTGAAAAGTGGTAG-TTCCAGCTACTTGATC
1 AGTGAAAAGTGGTAGCTT-CAGCTACCTGATC
* *
7101281 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
* * * *
7101312 AGTGAAAAATGGTAGCTCCGGCTACCTGATT
1 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
* *
7101343 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCAGCTAC
7101368 AAGTGACAAG
Statistics
Matches: 105, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
30 2 0.02
31 102 0.97
32 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.27
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
Found at i:7101478 original size:47 final size:46
Alignment explanation
Indices: 7101392--7101557 Score: 153
Period size: 47 Copynumber: 3.7 Consensus size: 46
7101382 AAGTGATTTC
** * *
7101392 CGTATAAGACCATATCTGGGATATGGCATTGGTGTGATATATGCTA
1 CGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGATA
* *
7101438 CTGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATGTGATT
1 C-GTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGATA
* * * *
7101485 CGTGTAAGACCATAGCTAGGCTATGGCATC-----GATATATGAATA
1 CGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATG-ATA
* * * *
7101527 TGTGTAAGACCATAGCTGGGCTATGGCATCA
1 CGTATAAGACCATATCTGGGATATGGCATCA
7101558 TTATGTGAAG
Statistics
Matches: 103, Mismatches: 14, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
41 7 0.07
42 30 0.29
46 26 0.25
47 40 0.39
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.30
Consensus pattern (46 bp):
CGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGATA
Found at i:7101510 original size:46 final size:43
Alignment explanation
Indices: 7101443--7101602 Score: 148
Period size: 42 Copynumber: 3.7 Consensus size: 43
7101433 TGCTACTGTA
* * *
7101443 TAAGACCATATCTGGGATATGGCATCAGTGAGATATGTGAT-TCGTG
1 TAAGACCATAGCTGGGCTATGGCATCA--GAGATATG-AATAT-GTG
* *
7101489 TAAGACCATAGCTAGGCTATGGCATC-GATATATGAATATGTG
1 TAAGACCATAGCTGGGCTATGGCATCAGAGATATGAATATGTG
** * *
7101531 TAAGACCATAGCTGGGCTATGGCATCA-TTATGTGAAGATGTG
1 TAAGACCATAGCTGGGCTATGGCATCAGAGATATGAATATGTG
* **
7101573 TAAGACCATAGTTGAACTATGGCATC-GAGA
1 TAAGACCATAGCTGGGCTATGGCATCAGAGA
7101603 AAACAAAGTA
Statistics
Matches: 97, Mismatches: 14, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
42 66 0.68
43 8 0.08
46 23 0.24
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.28
Consensus pattern (43 bp):
TAAGACCATAGCTGGGCTATGGCATCAGAGATATGAATATGTG
Found at i:7101549 original size:42 final size:43
Alignment explanation
Indices: 7101486--7101600 Score: 162
Period size: 42 Copynumber: 2.7 Consensus size: 43
7101476 TATGTGATTC
* *
7101486 GTGTAAGACCATAGCTAGGCTATGGCATCGA-TATATGAATAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
*
7101528 GTGTAAGACCATAGCTGGGCTATGGCATC-ATTATGTGAAGAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
* **
7101570 GTGTAAGACCATAGTTGAACTATGGCATCGA
1 GTGTAAGACCATAGCTGGGCTATGGCATCGA
7101601 GAAAACAAAG
Statistics
Matches: 65, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
41 1 0.02
42 63 0.97
43 1 0.02
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.28
Consensus pattern (43 bp):
GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
Found at i:7104209 original size:46 final size:46
Alignment explanation
Indices: 7104151--7104371 Score: 397
Period size: 46 Copynumber: 4.8 Consensus size: 46
7104141 TGTAACCCGC
* * * * *
7104151 CCATAAGCGAACTCGGACTCAACTCAACAAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
7104197 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
7104243 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
7104289 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
7104335 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
7104372 TGCTCAACCA
Statistics
Matches: 170, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
46 170 1.00
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:7108773 original size:19 final size:19
Alignment explanation
Indices: 7108749--7108786 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
7108739 AATCTCGAGT
*
7108749 TCCCTACACTGTCTGCAGA
1 TCCCTACACTGGCTGCAGA
7108768 TCCCTACACTGGCTGCAGA
1 TCCCTACACTGGCTGCAGA
7108787 AGTATTCTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.21, C:0.37, G:0.18, T:0.24
Consensus pattern (19 bp):
TCCCTACACTGGCTGCAGA
Found at i:7117497 original size:39 final size:40
Alignment explanation
Indices: 7117450--7117555 Score: 144
Period size: 40 Copynumber: 2.7 Consensus size: 40
7117440 CGGGATTTAA
*
7117450 CCGGATATAGCT-ACACGC-TCAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACACGCACCAATGCCTTCGGGACATAGC
* *
7117489 CCGGATATAGTAACTCGCACCAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACACGCACCAATGCCTTCGGGACATAGC
* *
7117529 CCGGATATAGTAACTCGCACAAATGCC
1 CCGGATATAGTAACACGCACCAATGCC
7117556 ATATCAATAA
Statistics
Matches: 61, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
38 1 0.02
39 15 0.25
40 45 0.74
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (40 bp):
CCGGATATAGTAACACGCACCAATGCCTTCGGGACATAGC
Found at i:7117518 original size:40 final size:40
Alignment explanation
Indices: 7117469--7117555 Score: 156
Period size: 40 Copynumber: 2.2 Consensus size: 40
7117459 GCTACACGCT
7117469 CAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCAC
1 CAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCAC
*
7117509 CAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCAC
1 CAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCAC
*
7117549 AAATGCC
1 CAATGCC
7117556 ATATCAATAA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 45 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (40 bp):
CAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCAC
Found at i:7120073 original size:21 final size:20
Alignment explanation
Indices: 7120049--7120088 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
7120039 ATGTTCAAGT
7120049 TCCACACAGGCGTGTTGCCCA
1 TCCACACAGGCGTG-TGCCCA
*
7120070 TCCACACGGGCGTGTGCCC
1 TCCACACAGGCGTGTGCCC
7120089 TATCAAAGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.15, C:0.40, G:0.28, T:0.17
Consensus pattern (20 bp):
TCCACACAGGCGTGTGCCCA
Found at i:7121252 original size:16 final size:16
Alignment explanation
Indices: 7121231--7121262 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
7121221 CCGTGTGAGA
7121231 TTACTGAAAGGATAGG
1 TTACTGAAAGGATAGG
7121247 TTACTGAAAGGATAGG
1 TTACTGAAAGGATAGG
7121263 GCCTGCAGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.06, G:0.31, T:0.25
Consensus pattern (16 bp):
TTACTGAAAGGATAGG
Found at i:7125208 original size:64 final size:64
Alignment explanation
Indices: 7125130--7125313 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
7125120 AGACATTACG
* * *
7125130 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
7125194 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
7125259 AA
63 AA
* * * *
7125261 AT-TGGCTAGGTCACATGGGTGGTATTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGC
7125314 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 25 0.26
66 20 0.20
67 33 0.34
ACGTcount: A:0.29, C:0.16, G:0.31, T:0.24
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:7127210 original size:56 final size:56
Alignment explanation
Indices: 7127123--7127228 Score: 176
Period size: 56 Copynumber: 1.9 Consensus size: 56
7127113 GTAACCACAT
*
7127123 ATATCGATGCCAACGTACTAGACGTGGTCTTACTCGCACACATATATCGAAATCAC
1 ATATCGATGCCAACGTACTAAACGTGGTCTTACTCGCACACATATATCGAAATCAC
* * *
7127179 ATATCGATGCCAACGTATTAAATGTGTTCTTACTCGCACACATATATCGA
1 ATATCGATGCCAACGTACTAAACGTGGTCTTACTCGCACACATATATCGA
7127229 TGCCATGGTC
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
56 46 1.00
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.28
Consensus pattern (56 bp):
ATATCGATGCCAACGTACTAAACGTGGTCTTACTCGCACACATATATCGAAATCAC
Found at i:7131893 original size:39 final size:40
Alignment explanation
Indices: 7131724--7131892 Score: 205
Period size: 40 Copynumber: 4.2 Consensus size: 40
7131714 GGACTAAGAT
* * *
7131724 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
* * *
7131764 CCGAGGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
** *
7131804 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTACGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
* * * * *
7131844 CCGAAGGCA-TGGTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
7131883 CCGAAGGCAT
1 CCGAAGGCAT
7131893 GTGAACGAGG
Statistics
Matches: 111, Mismatches: 17, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
39 32 0.29
40 79 0.71
ACGTcount: A:0.24, C:0.22, G:0.30, T:0.24
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
Found at i:7131913 original size:79 final size:80
Alignment explanation
Indices: 7131724--7131928 Score: 204
Period size: 79 Copynumber: 2.6 Consensus size: 80
7131714 GGACTAAGAT
* * * * *
7131724 CCGAAGGCCTTTGTGCGA-GATACTAAATCCGGGTTAAGTCCCGAGGGCATTCGTGCGAGTTATT
1 CCGAAGGCATTCGTGCGAGGA-GCTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACT
* *
7131788 AAAGCCGGGTTAAGTC
65 AAAACCGGGCTAAGTC
** * * * *
7131804 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTACGTCCCGAAGGCA-TGGTGTGAGTTACTA
1 CCGAAGGCATTCGTGCGAGGAGCTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTA
*
7131868 AAACCGGGCTATGTC
66 AAACCGGGCTAAGTC
* *
7131883 CCGAAGGCA-T-GTGAACGAGGAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGAAGGCATTCGTG--CGAGGAGCTAAATCCGGGTTAAGTCCCGAAGG
7131929 TACGTGAATT
Statistics
Matches: 102, Mismatches: 20, Indels: 8
0.78 0.15 0.06
Matches are distributed among these distances:
77 3 0.03
78 15 0.15
79 44 0.43
80 40 0.39
ACGTcount: A:0.25, C:0.21, G:0.30, T:0.23
Consensus pattern (80 bp):
CCGAAGGCATTCGTGCGAGGAGCTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTA
AAACCGGGCTAAGTC
Found at i:7142243 original size:30 final size:29
Alignment explanation
Indices: 7142181--7142244 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 29
7142171 TTGTTCTGGG
* *
7142181 AAAAATAATTTTGACAAGATAGGTTATGA
1 AAAAATAAATTTGACAAGATAGATTATGA
** *
7142210 AAAAATAAATTTGACGTGATATATTATGA
1 AAAAATAAATTTGACAAGATAGATTATGA
7142239 AAAAAT
1 AAAAAT
7142245 TATTTGATGA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.52, C:0.03, G:0.14, T:0.31
Consensus pattern (29 bp):
AAAAATAAATTTGACAAGATAGATTATGA
Found at i:7142479 original size:59 final size:58
Alignment explanation
Indices: 7142298--7142497 Score: 307
Period size: 59 Copynumber: 3.4 Consensus size: 58
7142288 CACAGTCAGT
7142298 AATATATTTGTACAAAAATATTCAAAAGAGCTTCTATTTTATTAAATGAAACAATATAAA
1 AATA-ATTTGTACAAAAATATTCAAAAGA-CTTCTATTTTATTAAATGAAACAATATAAA
* *
7142358 AATAATTTGTACAAAAATATT-AAAA-A-ATCTATTTTATTAAATGAAACAATATTAA
1 AATAATTTGTACAAAAATATTCAAAAGACTTCTATTTTATTAAATGAAACAATATAAA
* *
7142413 AATAATTTGTACAAAAATATTGAAAAGTACTTCTTTTTTATTAAATGAAACAATATAAA
1 AATAATTTGTACAAAAATATTCAAAAG-ACTTCTATTTTATTAAATGAAACAATATAAA
*
7142472 AACAATTTGTACAAAAATATTCAAAA
1 AATAATTTGTACAAAAATATTCAAAA
7142498 ATAAATCAAT
Statistics
Matches: 129, Mismatches: 7, Indels: 9
0.89 0.05 0.06
Matches are distributed among these distances:
55 48 0.37
56 4 0.03
57 1 0.01
58 5 0.04
59 67 0.52
60 4 0.03
ACGTcount: A:0.52, C:0.07, G:0.06, T:0.35
Consensus pattern (58 bp):
AATAATTTGTACAAAAATATTCAAAAGACTTCTATTTTATTAAATGAAACAATATAAA
Found at i:7142879 original size:36 final size:36
Alignment explanation
Indices: 7142832--7142902 Score: 133
Period size: 36 Copynumber: 2.0 Consensus size: 36
7142822 TCGAGTGGAT
7142832 GAGCGGACAATGCGTACCCGGTCACCGTAAGTCGAA
1 GAGCGGACAATGCGTACCCGGTCACCGTAAGTCGAA
*
7142868 GAGCGGCCAATGCGTACCCGGTCACCGTAAGTCGA
1 GAGCGGACAATGCGTACCCGGTCACCGTAAGTCGA
7142903 TTTTGTGCTC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.25, C:0.30, G:0.31, T:0.14
Consensus pattern (36 bp):
GAGCGGACAATGCGTACCCGGTCACCGTAAGTCGAA
Found at i:7143517 original size:24 final size:24
Alignment explanation
Indices: 7143474--7143519 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
7143464 AAGATTTAGT
*
7143474 ATTTATTAGTATAATATATTTGGC
1 ATTTATTAGCATAATATATTTGGC
* *
7143498 ATTTATTAGCATAGTTTATTTG
1 ATTTATTAGCATAATATATTTG
7143520 ACTTACTAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.30, C:0.04, G:0.13, T:0.52
Consensus pattern (24 bp):
ATTTATTAGCATAATATATTTGGC
Found at i:7146553 original size:18 final size:18
Alignment explanation
Indices: 7146513--7146563 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
7146503 TAAAAAGAAT
* *
7146513 TATTAAAAAATTTAATTA
1 TATTAAAAAATTAAATGA
* *
7146531 AATTATAAAATTAAATGA
1 TATTAAAAAATTAAATGA
*
7146549 TATTAAAAAAATAAA
1 TATTAAAAAATTAAA
7146564 ATTAACCCTT
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (18 bp):
TATTAAAAAATTAAATGA
Found at i:7147342 original size:12 final size:12
Alignment explanation
Indices: 7147325--7147358 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
7147315 CGGCCCGCCC
7147325 ATATTAATTTTT
1 ATATTAATTTTT
*
7147337 ATATTATTTTTT
1 ATATTAATTTTT
7147349 ATA-TAATTTT
1 ATATTAATTTT
7147359 AAAATATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 6 0.30
12 14 0.70
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:7147525 original size:30 final size:31
Alignment explanation
Indices: 7147482--7147544 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
7147472 CTTAACAAGA
* *
7147482 AAATGGTTCTAAAATAGT-AACAAAATTAAC
1 AAATGGTTCTAAAATAATAAAAAAAATTAAC
7147512 AAATGTGTT-TAAAATAATAAAAAAAATTAAC
1 AAATG-GTTCTAAAATAATAAAAAAAATTAAC
7147543 AA
1 AA
7147545 TAAAATAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
30 13 0.45
31 16 0.55
ACGTcount: A:0.59, C:0.06, G:0.08, T:0.27
Consensus pattern (31 bp):
AAATGGTTCTAAAATAATAAAAAAAATTAAC
Found at i:7148816 original size:23 final size:23
Alignment explanation
Indices: 7148790--7148833 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
7148780 TTCAACATTT
*
7148790 TTATATTATTTATTT-TAAAATAA
1 TTAT-TTATTAATTTGTAAAATAA
*
7148813 TTATTTCTTAATTTGTAAAAT
1 TTATTTATTAATTTGTAAAAT
7148834 TATGATAACT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 8 0.44
23 10 0.56
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (23 bp):
TTATTTATTAATTTGTAAAATAA
Found at i:7149982 original size:42 final size:41
Alignment explanation
Indices: 7149889--7149982 Score: 95
Period size: 41 Copynumber: 2.3 Consensus size: 41
7149879 AAGCAACATA
* *
7149889 GGAAAGCAACATCAATGTCTAGACAAAAAATAAAGCAACTT
1 GGAAAGCAACATCAATGTCTAAACAAAAAATAAAACAACTT
* *
7149930 GAAAACCAACATCCAA-GT-TCAAACAAAAAA-AGAAACAACTT
1 GGAAAGCAACAT-CAATGTCT-AAACAAAAAATA-AAACAACTT
7149971 GGGAAAGCAACA
1 -GGAAAGCAACA
7149983 GTTTAGGAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
40 2 0.05
41 29 0.67
42 12 0.28
ACGTcount: A:0.54, C:0.19, G:0.14, T:0.13
Consensus pattern (41 bp):
GGAAAGCAACATCAATGTCTAAACAAAAAATAAAACAACTT
Found at i:7151913 original size:34 final size:34
Alignment explanation
Indices: 7151875--7151943 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
7151865 TTAACAACAA
7151875 TGAAATGCTTCTCTTCTATTGTTCGAAAACAAGT
1 TGAAATGCTTCTCTTCTATTGTTCGAAAACAAGT
7151909 TGAAATGCTTCTCTTCTATTGTTCGAAAACAAGT
1 TGAAATGCTTCTCTTCTATTGTTCGAAAACAAGT
7151943 T
1 T
7151944 TATAAGGAAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.29, C:0.17, G:0.14, T:0.39
Consensus pattern (34 bp):
TGAAATGCTTCTCTTCTATTGTTCGAAAACAAGT
Done.