Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D01
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: 64473564
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1880000 characters in sequence are not A, C, G, or T
File 110 of 213
Found at i:31160525 original size:79 final size:80
Alignment explanation
Indices: 31160389--31160569 Score: 208
Period size: 79 Copynumber: 2.3 Consensus size: 80
31160379 TTGAATGATG
* *
31160389 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
31160453 TGTGCGAGATACTA-A
65 TGTGCGAGATACTATA
* * * **
31160468 TTCCGGGCTAAGCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAA
1 -TCCGGGCTAAGCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAA
*
31160531 TTGTGCGAGTTACTATA
64 TTGTGCGAGATACTATA
* *
31160548 ACCGGGCTATATCCCGAAGGCA
1 TCCGGGCTA-AGCCCGAAGGCA
31160570 ATTGAACGAG
Statistics
Matches: 87, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
78 1 0.01
79 56 0.64
80 30 0.34
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (80 bp):
TCCGGGCTAAGCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAATT
GTGCGAGATACTATA
Found at i:31160595 original size:79 final size:79
Alignment explanation
Indices: 31160442--31160606 Score: 192
Period size: 79 Copynumber: 2.1 Consensus size: 79
31160432 GGACTAAGAT
* * * **
31160442 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCAATTGAACGAGTTACTAA
*
31160507 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
31160521 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATATCCCGAAGGCAATTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTA-AGCCCGAAGGCAATTGAACGAGTTA-C
* *
31160584 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
31160600 CCGAAGG
1 CCGAAGG
31160607 TACGTGATTT
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
78 2 0.03
79 46 0.63
80 25 0.34
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.24
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCAATTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:31168423 original size:39 final size:40
Alignment explanation
Indices: 31168377--31168480 Score: 158
Period size: 39 Copynumber: 2.6 Consensus size: 40
31168367 GGACTAAGAT
* *
31168377 CCGAAGGCATTTGTGCGAGATACTAATTCC-AGGTTAAG-C
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGA-GTTAAGTC
31168416 CCGAAGGCATTTGTGCGAGTTACTAAATCCGAGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGAGTTAAGTC
*
31168456 CCGAAGGCAATTGTGCGAGTTACTA
1 CCGAAGGCATTTGTGCGAGTTACTA
31168481 TAACCGGGCT
Statistics
Matches: 60, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
39 34 0.57
40 26 0.43
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTACTAAATCCGAGTTAAGTC
Found at i:31168470 original size:40 final size:40
Alignment explanation
Indices: 31168377--31168508 Score: 155
Period size: 40 Copynumber: 3.3 Consensus size: 40
31168367 GGACTAAGAT
* * *
31168377 CCGAAGGCATTTGTGCGAGATACTAATTCC-AGGTTAAG-C
1 CCGAAGGCAATTGTGCGAGTTACTAAATCCGA-GTTAAGTC
*
31168416 CCGAAGGCATTTGTGCGAGTTACTAAATCCGAGTTAAGTC
1 CCGAAGGCAATTGTGCGAGTTACTAAATCCGAGTTAAGTC
* *
31168456 CCGAAGGCAATTGTGCGAGTTACTATAA-CCGGGCTATA-TC
1 CCGAAGGCAATTGTGCGAGTTACTA-AATCCGAGTTA-AGTC
31168496 CCGAAGGCAATTG
1 CCGAAGGCAATTG
31168509 AACGAGTAGC
Statistics
Matches: 84, Mismatches: 5, Indels: 7
0.88 0.05 0.07
Matches are distributed among these distances:
39 34 0.40
40 47 0.56
41 3 0.04
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (40 bp):
CCGAAGGCAATTGTGCGAGTTACTAAATCCGAGTTAAGTC
Found at i:31174960 original size:31 final size:32
Alignment explanation
Indices: 31174901--31174965 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
31174891 GGCAAATTAC
31174901 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
31174933 AAGAGTAATTGAATCCTAAT-AAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
31174964 AA
1 AA
31174966 ATTATCTAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 13 0.39
32 20 0.61
ACGTcount: A:0.48, C:0.12, G:0.09, T:0.31
Consensus pattern (32 bp):
AAGAGTAATTGAATCCTAATAAAAACTCTTTA
Found at i:31177787 original size:17 final size:17
Alignment explanation
Indices: 31177765--31177820 Score: 103
Period size: 17 Copynumber: 3.3 Consensus size: 17
31177755 CAACCAAGAA
31177765 CACATTTCCATTACATT
1 CACATTTCCATTACATT
31177782 CACATTTCCATTACATT
1 CACATTTCCATTACATT
*
31177799 CACATCTCCATTACATT
1 CACATTTCCATTACATT
31177816 CACAT
1 CACAT
31177821 GTGATATGTC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
17 38 1.00
ACGTcount: A:0.30, C:0.32, G:0.00, T:0.38
Consensus pattern (17 bp):
CACATTTCCATTACATT
Found at i:31178422 original size:20 final size:21
Alignment explanation
Indices: 31178391--31178429 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
31178381 AAGTAAACTT
*
31178391 AAATATCAATTTAACCACTAA
1 AAATATCAATTTAAACACTAA
31178412 AAATA-CAATTTAAACACT
1 AAATATCAATTTAAACACT
31178430 CAAGTTTTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.54, C:0.18, G:0.00, T:0.28
Consensus pattern (21 bp):
AAATATCAATTTAAACACTAA
Found at i:31180662 original size:27 final size:27
Alignment explanation
Indices: 31180624--31180724 Score: 96
Period size: 27 Copynumber: 3.7 Consensus size: 27
31180614 GGTCACCGAG
* *
31180624 ACCCCTGATTTGTGAAATTATCGAAAT
1 ACCCCCGATTTGTAAAATTATCGAAAT
*
31180651 ACCCCCGATTTGTAAAATTATTGAAAT
1 ACCCCCGATTTGTAAAATTATCGAAAT
* * * *
31180678 A-CCTCTAGTTTGTAAAATTACCGAAAC
1 ACCCCCGA-TTTGTAAAATTATCGAAAT
* * *
31180705 ACCCTCAATTTGTGAAATTA
1 ACCCCCGATTTGTAAAATTA
31180725 CTAAAATACC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
26 4 0.06
27 53 0.85
28 5 0.08
ACGTcount: A:0.36, C:0.20, G:0.12, T:0.33
Consensus pattern (27 bp):
ACCCCCGATTTGTAAAATTATCGAAAT
Found at i:31180716 original size:54 final size:54
Alignment explanation
Indices: 31180632--31180734 Score: 134
Period size: 54 Copynumber: 1.9 Consensus size: 54
31180622 AGACCCCTGA
* * * * * *
31180632 TTTGTGAAATTATCGAAATACCCCCGATTTGTAAAATTATTGAAATACCTCTAG
1 TTTGTAAAATTACCGAAACACCCCCAATTTGTAAAATTACTAAAATACCTCTAG
* *
31180686 TTTGTAAAATTACCGAAACACCCTCAATTTGTGAAATTACTAAAATACC
1 TTTGTAAAATTACCGAAACACCCCCAATTTGTAAAATTACTAAAATACC
31180735 CCTTTAGGGT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
54 41 1.00
ACGTcount: A:0.38, C:0.18, G:0.11, T:0.33
Consensus pattern (54 bp):
TTTGTAAAATTACCGAAACACCCCCAATTTGTAAAATTACTAAAATACCTCTAG
Found at i:31180725 original size:27 final size:27
Alignment explanation
Indices: 31180631--31180735 Score: 95
Period size: 27 Copynumber: 3.9 Consensus size: 27
31180621 GAGACCCCTG
* * * *
31180631 ATTTGTGAAATTATCGAAATACCCCCG
1 ATTTGTAAAATTACCGAAATACCCTCA
**
31180658 ATTTGTAAAATTATTGAAATA-CCTCTA
1 ATTTGTAAAATTACCGAAATACCCTC-A
* *
31180685 GTTTGTAAAATTACCGAAACACCCTCA
1 ATTTGTAAAATTACCGAAATACCCTCA
* **
31180712 ATTTGTGAAATTACTAAAATACCC
1 ATTTGTAAAATTACCGAAATACCC
31180736 CTTTAGGGTA
Statistics
Matches: 63, Mismatches: 13, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
26 3 0.05
27 56 0.89
28 4 0.06
ACGTcount: A:0.38, C:0.19, G:0.10, T:0.32
Consensus pattern (27 bp):
ATTTGTAAAATTACCGAAATACCCTCA
Found at i:31180751 original size:27 final size:27
Alignment explanation
Indices: 31180721--31180773 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
31180711 AATTTGTGAA
*
31180721 ATTACTAAAATACCCCTT-TAGGGTAAG
1 ATTACCAAAATA-CCCTTATAGGGTAAG
*
31180748 ATTACCGAAATACCCTTATAGGGTAA
1 ATTACCAAAATACCCTTATAGGGTAA
31180774 AATGACCATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 5 0.22
27 18 0.78
ACGTcount: A:0.38, C:0.19, G:0.15, T:0.28
Consensus pattern (27 bp):
ATTACCAAAATACCCTTATAGGGTAAG
Found at i:31181248 original size:28 final size:28
Alignment explanation
Indices: 31181162--31181253 Score: 123
Period size: 28 Copynumber: 3.3 Consensus size: 28
31181152 TACTGCATAC
*
31181162 TGTTTCTGTATTGGGCTAAGGCCCGCCT
1 TGTTTCTGTATTGGGCTAAGGCCCACCT
*
31181190 TATTTCTGTATTGGGCTAAGGCCCACCT
1 TGTTTCTGTATTGGGCTAAGGCCCACCT
* * * *
31181218 TGTTTCTGTATCGGGCTAAAGCCTACAT
1 TGTTTCTGTATTGGGCTAAGGCCCACCT
31181246 TG-TTCTGT
1 TGTTTCTGT
31181254 TCTGTTACTG
Statistics
Matches: 57, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
27 6 0.11
28 51 0.89
ACGTcount: A:0.15, C:0.23, G:0.24, T:0.38
Consensus pattern (28 bp):
TGTTTCTGTATTGGGCTAAGGCCCACCT
Found at i:31189360 original size:27 final size:25
Alignment explanation
Indices: 31189270--31189365 Score: 147
Period size: 25 Copynumber: 3.8 Consensus size: 25
31189260 CTTGTACATA
31189270 TATGCTCACACGAGCTGTGAATCAG
1 TATGCTCACACGAGCTGTGAATCAG
31189295 TATGCTCACACGAGCTGTGAATCAG
1 TATGCTCACACGAGCTGTGAATCAG
**
31189320 TATGCTCACACGAGCTGTGAAAATGGG
1 TATGCTCACACGAGCTGTG--AATCAG
*
31189347 TCTGCTCACACGAGCTGTG
1 TATGCTCACACGAGCTGTG
31189366 GGTCAAAATG
Statistics
Matches: 66, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
25 44 0.67
27 22 0.33
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (25 bp):
TATGCTCACACGAGCTGTGAATCAG
Found at i:31199205 original size:18 final size:18
Alignment explanation
Indices: 31199162--31199206 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
31199152 CGTTTGATAA
31199162 AACGATTTTTATGAAAAC
1 AACGATTTTTATGAAAAC
** * *
31199180 AATAATTTTTCTGAAAAT
1 AACGATTTTTATGAAAAC
31199198 AACGATTTT
1 AACGATTTT
31199207 CAAGGAAACA
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.42, C:0.09, G:0.09, T:0.40
Consensus pattern (18 bp):
AACGATTTTTATGAAAAC
Found at i:31203208 original size:3 final size:3
Alignment explanation
Indices: 31203200--31203226 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
31203190 TAACACACTT
31203200 AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG
31203227 GAATTATGTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:31211111 original size:19 final size:20
Alignment explanation
Indices: 31211069--31211111 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
31211059 TCATGCTTTC
*
31211069 TATTCACATTTTCATATTCA
1 TATTCACATTTTCAAATTCA
31211089 -ATTCACATTTTCAAATT-A
1 TATTCACATTTTCAAATTCA
31211107 TATTC
1 TATTC
31211112 CACTTAGTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 1 0.05
19 20 0.95
ACGTcount: A:0.33, C:0.19, G:0.00, T:0.49
Consensus pattern (20 bp):
TATTCACATTTTCAAATTCA
Found at i:31213406 original size:20 final size:20
Alignment explanation
Indices: 31213381--31213418 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
31213371 TTAGAAATGG
*
31213381 ATATTTTTTAGATTTTTTAT
1 ATATTTTTCAGATTTTTTAT
31213401 ATATTTTTCAGATTTTTT
1 ATATTTTTCAGATTTTTT
31213419 TTATCTCACC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.24, C:0.03, G:0.05, T:0.68
Consensus pattern (20 bp):
ATATTTTTCAGATTTTTTAT
Found at i:31226906 original size:27 final size:28
Alignment explanation
Indices: 31226876--31226958 Score: 82
Period size: 27 Copynumber: 3.1 Consensus size: 28
31226866 ACTAATGCGA
** *
31226876 TCCATTCAGGGTTTGCCAGAAAGGC-AT
1 TCCATTCAAAGTTTGCCACAAAGGCTAT
31226903 TCCATTCAAAGTTTGCCACAAAGGCTAT
1 TCCATTCAAAGTTTGCCACAAAGGCTAT
* * * *
31226931 T-CTTTCAGAGTTCG-CACAAAAGCTAT
1 TCCATTCAAAGTTTGCCACAAAGGCTAT
31226957 TC
1 TC
31226959 TTAGCTATCA
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
26 12 0.26
27 32 0.68
28 3 0.06
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (28 bp):
TCCATTCAAAGTTTGCCACAAAGGCTAT
Found at i:31252469 original size:18 final size:18
Alignment explanation
Indices: 31252436--31252485 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
31252426 GTGGCCTAAA
*
31252436 TTAG-CTAAATTAATCAAT
1 TTAGCCTAAATT-ATCAAC
31252454 TTAGCCTAAATTATCAAC
1 TTAGCCTAAATTATCAAC
**
31252472 AAAGCCTAAATTAT
1 TTAGCCTAAATTAT
31252486 TCTTGATTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
18 21 0.75
19 7 0.25
ACGTcount: A:0.44, C:0.16, G:0.06, T:0.34
Consensus pattern (18 bp):
TTAGCCTAAATTATCAAC
Found at i:31264106 original size:40 final size:40
Alignment explanation
Indices: 31264022--31264246 Score: 287
Period size: 40 Copynumber: 5.7 Consensus size: 40
31264012 TTGAATGATG
* * * *
31264022 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
31264062 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
31264102 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
31264141 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
31264181 TCCGGGTTAAGTCCCGAAGGCATTTGTACGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
31264222 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
31264247 AACGAAGAGC
Statistics
Matches: 164, Mismatches: 16, Indels: 10
0.86 0.08 0.05
Matches are distributed among these distances:
39 34 0.21
40 120 0.73
41 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:31264265 original size:80 final size:79
Alignment explanation
Indices: 31264022--31264251 Score: 227
Period size: 79 Copynumber: 2.9 Consensus size: 79
31264012 TTGAATGATG
* * * * * *
31264022 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTA--AGTGACCATATCCGGACTAAGAT-CCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCATTG-G-TACGAGTTACTAAATCCGGGCTAAG-TCCCGAAGGCA
** *
31264084 TTTGTGCGAGATACTAAT
63 TTTGAACGAG-TACTAAA
* * *
31264102 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCATTGGTACGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
**
31264166 GTGCGAGTTACTAAA
66 GAACGAG-TACTAAA
* *
31264181 TCCGGGTTAAGTCCCGAAGGCATTTGTACGAGTTACTATAA-CCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTGGTACGAGTTACTA-AATCCGGGCTAAGTCCCGAAGGCATT
31264245 TGAACGA
65 TGAACGA
31264252 AGAGCTATAT
Statistics
Matches: 129, Mismatches: 16, Indels: 10
0.83 0.10 0.06
Matches are distributed among these distances:
77 1 0.01
78 2 0.02
79 63 0.49
80 61 0.47
81 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTGGTACGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
GAACGAGTACTAAA
Found at i:31264269 original size:119 final size:118
Alignment explanation
Indices: 31264022--31264251 Score: 268
Period size: 119 Copynumber: 1.9 Consensus size: 118
31264012 TTGAATGATG
* *
31264022 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
* * **
31264087 GTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
66 GTACGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAG-TACTAAA
* * * **
31264141 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * *
31264204 TTGTACGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGA
64 TTGTACGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGA
31264252 AGAGCTATAT
Statistics
Matches: 93, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
118 3 0.03
119 67 0.72
120 23 0.25
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (118 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTACGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTACTAAA
Found at i:31271575 original size:40 final size:40
Alignment explanation
Indices: 31271491--31271715 Score: 239
Period size: 40 Copynumber: 5.7 Consensus size: 40
31271481 TTGAATGATG
* * *
31271491 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
* *
31271530 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
31271571 TCCGGGCTAAG-CCCGAAGGCA-TTGTTGCGAGTTACTAAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTG-TGCGAGTTACT-AAT
* * * *
31271611 T-CGGGTTCAGTCCCGAAGGAATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
31271650 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
31271689 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
31271716 AACGAGGAGC
Statistics
Matches: 158, Mismatches: 17, Indels: 20
0.81 0.09 0.10
Matches are distributed among these distances:
38 3 0.02
39 30 0.19
40 112 0.71
41 13 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:31271705 original size:80 final size:79
Alignment explanation
Indices: 31271491--31271715 Score: 253
Period size: 79 Copynumber: 2.8 Consensus size: 79
31271481 TTGAATGATG
* * * * *
31271491 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCT-AG-TCCCGAAGGCAT
*
31271554 TTGTGCGAGATACTAAT
63 TTGTGCGAGATACTAAA
* * *
31271571 TCCGGGCTAAG-CCCGAAGGCA-TTGTTGCGAGTTACTA-AATTCGGGTTCAGTCCCGAAGGAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTG-TGCGAGTTACTATAA-CCGGGCT-AGTCCCGAAGGCAT
*
31271633 TTGTGCGAGTTACTAAA
63 TTGTGCGAGATACTAAA
*
31271650 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTA-GTCCCGAAGGCATTT
31271715 G
65 G
31271716 AACGAGGAGC
Statistics
Matches: 122, Mismatches: 15, Indels: 16
0.80 0.10 0.10
Matches are distributed among these distances:
78 2 0.02
79 59 0.48
80 56 0.46
81 5 0.04
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAGTCCCGAAGGCATTTG
TGCGAGATACTAAA
Found at i:31279017 original size:3 final size:3
Alignment explanation
Indices: 31279011--31279084 Score: 148
Period size: 3 Copynumber: 24.7 Consensus size: 3
31279001 CTTTCTTCTT
31279011 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
31279059 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
31279085 GACTGAATCT
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 71 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:31279915 original size:22 final size:23
Alignment explanation
Indices: 31279889--31279944 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 23
31279879 TTCCTTTTTC
*
31279889 TTTTTCTTTTTAATTTCATCA-T
1 TTTTTCTTTTTAATTTAATCATT
* * * *
31279911 TTTTTATTTTGATTTTAATTATT
1 TTTTTCTTTTTAATTTAATCATT
31279934 TTTTTCTTTTT
1 TTTTTCTTTTT
31279945 TTATTTTGAT
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
22 16 0.62
23 10 0.38
ACGTcount: A:0.16, C:0.07, G:0.02, T:0.75
Consensus pattern (23 bp):
TTTTTCTTTTTAATTTAATCATT
Found at i:31280751 original size:24 final size:25
Alignment explanation
Indices: 31280698--31280753 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
31280688 AAATTCAAAC
*
31280698 GAATGAAAGAATAATTATTCAAAAA
1 GAATGAAAGAATAATTACTCAAAAA
*
31280723 GAATGAAAGAAT-ATTGGCTCAAAAA
1 GAATGAAAGAATAATT-ACTCAAAAA
31280748 -AATGAA
1 GAATGAA
31280754 TGCGAAGATG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
24 9 0.32
25 19 0.68
ACGTcount: A:0.57, C:0.05, G:0.16, T:0.21
Consensus pattern (25 bp):
GAATGAAAGAATAATTACTCAAAAA
Found at i:31284449 original size:24 final size:23
Alignment explanation
Indices: 31284422--31284474 Score: 56
Period size: 24 Copynumber: 2.3 Consensus size: 23
31284412 CTATAGATGA
*
31284422 TGAAACATATAAA-GATATAGAGTT
1 TGAAACATAAAAAGGATA-A-AGTT
31284446 TGAAA-ATAAAAAGGATAAAGTT
1 TGAAACATAAAAAGGATAAAGTT
*
31284468 TAAAACA
1 TGAAACA
31284475 ATGTTGATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
22 8 0.32
23 8 0.32
24 9 0.36
ACGTcount: A:0.57, C:0.04, G:0.15, T:0.25
Consensus pattern (23 bp):
TGAAACATAAAAAGGATAAAGTT
Found at i:31285996 original size:44 final size:43
Alignment explanation
Indices: 31285947--31286147 Score: 176
Period size: 44 Copynumber: 4.7 Consensus size: 43
31285937 CTATATTTGG
*
31285947 TCTGCTCCACTGCAACTTCAGAGGGATAAGATCTACGATTTTAA
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGATCT-CGATTTTAA
* * * * **
31285991 TCTGCTCCACTGCAACTTTAGGGAGA-AAGGAT-TGGCTTCTTTTG
1 TCTGCTCCACTGCAACTTCAGAGAGATAA-GATCTCG-AT-TTTAA
* * ***
31286035 TCTTCTCCACTGCAACTTCAGAGAGATAAGA-CTGGA-TGCGA
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGATCTCGATTTTAA
* * *
31286076 TCTGCTCTACTGCAACTTCAAAGAGATAAGATCTGTGATTTTAA
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGATCT-CGATTTTAA
* *
31286120 TCCGCTCCACTGCAACTTCAGGGAGATA
1 TCTGCTCCACTGCAACTTCAGAGAGATA
31286148 GGATTGGTTT
Statistics
Matches: 123, Mismatches: 26, Indels: 16
0.75 0.16 0.10
Matches are distributed among these distances:
41 29 0.24
42 3 0.02
43 6 0.05
44 83 0.67
45 2 0.02
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.29
Consensus pattern (43 bp):
TCTGCTCCACTGCAACTTCAGAGAGATAAGATCTCGATTTTAA
Found at i:31286185 original size:129 final size:129
Alignment explanation
Indices: 31285947--31286187 Score: 313
Period size: 129 Copynumber: 1.9 Consensus size: 129
31285937 CTATATTTGG
* * * *
31285947 TCTGCTCCACTGCAACTTCAGAGGGATAAGATCTACGATTTTAATCTGCTCCACTGCAACTTTAG
1 TCTGCTCCACTGCAACTTCAAAGAGATAAGATCTACGATTTTAATCCGCTCCACTGCAACTTCAG
*** ** * *
31286012 GGAGAAAGGATTGGCTTCTTTTGTCTTCTCCACTGCAACTTCAGAGAGATAAGACTGGATGCGA
66 GGAGAAAGGATTGGCTTCTTCAATCTGATCAACTACAACTTCAGAGAGATAAGACTGGATGCGA
* **
31286076 TCTGCTCTACTGCAACTTCAAAGAGATAAGATCTGTGATTTTAATCCGCTCCACTGCAACTTCAG
1 TCTGCTCCACTGCAACTTCAAAGAGATAAGATCTACGATTTTAATCCGCTCCACTGCAACTTCAG
* * *
31286141 GGAGATAGGATTGGTTTCTTCAATCTGATTAACTACAA-TGTCAGAGA
66 GGAGAAAGGATTGGCTTCTTCAATCTGATCAACTACAACT-TCAGAGA
31286188 AGCAAGATTC
Statistics
Matches: 94, Mismatches: 17, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
128 1 0.01
129 93 0.99
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (129 bp):
TCTGCTCCACTGCAACTTCAAAGAGATAAGATCTACGATTTTAATCCGCTCCACTGCAACTTCAG
GGAGAAAGGATTGGCTTCTTCAATCTGATCAACTACAACTTCAGAGAGATAAGACTGGATGCGA
Found at i:31286217 original size:50 final size:48
Alignment explanation
Indices: 31286158--31286314 Score: 145
Period size: 50 Copynumber: 3.1 Consensus size: 48
31286148 GGATTGGTTT
*
31286158 CTTCAATCTGATTAACTACAATGTCAGAGAAGCAAGATTC-GTCGTTGTAG
1 CTTCAATCTG-TTAACTACAATGTCAG-GAAGCAAGATTCACT-GTTGTAG
* ** * * *
31286208 CTTCAATCTGTTCCACTACACCGCCAGGGAAGTAAGATTCACTGTTGTGG
1 CTTCAATCTGTT-AACTACAATGTCA-GGAAGCAAGATTCACTGTTGTAG
* * * *
31286258 CTTCAATCTTTTTAATTGCAATGTTAGGAAAGCAAGATTCACTGTTGTAG
1 CTTCAATC-TGTTAACTACAATGTCAGG-AAGCAAGATTCACTGTTGTAG
31286308 CTTCAAT
1 CTTCAAT
31286315 TTGTGCGTTG
Statistics
Matches: 85, Mismatches: 17, Indels: 10
0.76 0.15 0.09
Matches are distributed among these distances:
49 4 0.05
50 76 0.89
51 5 0.06
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (48 bp):
CTTCAATCTGTTAACTACAATGTCAGGAAGCAAGATTCACTGTTGTAG
Found at i:31288522 original size:5 final size:5
Alignment explanation
Indices: 31288512--31288571 Score: 120
Period size: 5 Copynumber: 12.0 Consensus size: 5
31288502 AAACTATTAA
31288512 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
31288562 TATAT TATAT
1 TATAT TATAT
31288572 AACATTCTAT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 55 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATAT
Found at i:31294704 original size:59 final size:59
Alignment explanation
Indices: 31294612--31294735 Score: 239
Period size: 59 Copynumber: 2.1 Consensus size: 59
31294602 GCACTGATGG
31294612 AAAACCTATAGAAAAAATATAAATAAGTTAAATAAAACTAATATAACTAAGTAAATAAC
1 AAAACCTATAGAAAAAATATAAATAAGTTAAATAAAACTAATATAACTAAGTAAATAAC
*
31294671 AAAACCTATAGAAAAAATATAACTAAGTTAAATAAAACTAATATAACTAAGTAAATAAC
1 AAAACCTATAGAAAAAATATAAATAAGTTAAATAAAACTAATATAACTAAGTAAATAAC
31294730 AAAACC
1 AAAACC
31294736 AATTTGCAAC
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 64 1.00
ACGTcount: A:0.62, C:0.10, G:0.05, T:0.23
Consensus pattern (59 bp):
AAAACCTATAGAAAAAATATAAATAAGTTAAATAAAACTAATATAACTAAGTAAATAAC
Found at i:31299265 original size:40 final size:40
Alignment explanation
Indices: 31299228--31299453 Score: 262
Period size: 40 Copynumber: 5.7 Consensus size: 40
31299218 GCTACTCGTT
* *
31299228 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
*
31299268 CAAATGCCTTCGGGACTTAACTCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
31299308 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** *
31299348 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGTA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAACTCGCA
* ** * * * *
31299388 CAAATGCCTTC-AGATCTTAGTCCGGATATGGTCACCTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGT-AACTCGCA
*
31299429 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
31299454 CATCATTCAA
Statistics
Matches: 167, Mismatches: 15, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
39 3 0.02
40 151 0.90
41 13 0.08
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:31307259 original size:40 final size:40
Alignment explanation
Indices: 31307215--31307446 Score: 276
Period size: 40 Copynumber: 5.8 Consensus size: 40
31307205 GGATATAGCT
* *
31307215 ACTCGTTCAAATGCCTTCGGGACATAGCCCGG-TTATAGTA
1 ACTCGTACAAATGCCTTCGGGACTTAGCCCGGATT-TAGTA
*
31307255 ACTCGTACAAATGCCTTCGGGACTTACCCCGGATTTAGTA
1 ACTCGTACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* *
31307295 ACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTA
1 ACTCGTACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* *
31307335 ACTCGCACAAATGCCTTC-GGATCTTAGTCCGGATTTAGTA
1 ACTCGTACAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTA
* * *
31307375 ACTCGTACAAATGCCTTC-GGATCTTAGTCCGGATATGGTCA
1 ACTCGTACAAATGCCTTCGGGA-CTTAGCCCGGATTTAGT-A
* * *
31307416 CCTAGCACAAA-GCCTTC-GGACTTAGCCCGGA
1 ACTCGTACAAATGCCTTCGGGACTTAGCCCGGA
31307447 CATCATTCAA
Statistics
Matches: 175, Mismatches: 14, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
39 13 0.07
40 151 0.86
41 11 0.06
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
ACTCGTACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
Found at i:31314602 original size:9 final size:9
Alignment explanation
Indices: 31314562--31314614 Score: 51
Period size: 9 Copynumber: 6.1 Consensus size: 9
31314552 ATATTTTGAA
31314562 TATTAATA-
1 TATTAATAT
31314570 T-TTATATAT
1 TATTA-ATAT
31314579 TA-TAAT-T
1 TATTAATAT
*
31314586 TAAATAATAT
1 T-ATTAATAT
31314596 TATTAATAT
1 TATTAATAT
31314605 TATTAATAT
1 TATTAATAT
31314614 T
1 T
31314615 TTCTACATGT
Statistics
Matches: 38, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
7 5 0.13
8 7 0.18
9 24 0.63
10 2 0.05
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (9 bp):
TATTAATAT
Found at i:31314657 original size:29 final size:32
Alignment explanation
Indices: 31314624--31314703 Score: 89
Period size: 32 Copynumber: 2.6 Consensus size: 32
31314614 TTTCTACATG
31314624 TTTTT-ATTTTATATATTATTAA-ATTAA-TT
1 TTTTTAATTTTATATATTATTAATATTAATTT
** *
31314653 TTTTTAATGGTA-AAATTATTAATTATTAATTT
1 TTTTTAATTTTATATATTATTAA-TATTAATTT
31314685 TTTTTAATTTTATAT-TTAT
1 TTTTTAATTTTATATATTAT
31314704 ATTTGCTCTA
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
29 14 0.35
30 4 0.10
31 5 0.12
32 16 0.40
33 1 0.03
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.64
Consensus pattern (32 bp):
TTTTTAATTTTATATATTATTAATATTAATTT
Found at i:31318865 original size:21 final size:20
Alignment explanation
Indices: 31318827--31318866 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
31318817 ATATTGTAGT
*
31318827 TGGGCTTGGGTTTAGGTTAA
1 TGGGCTTGAGTTTAGGTTAA
*
31318847 TGGGCTTGTAGTTTGGGTTA
1 TGGGCTTG-AGTTTAGGTTA
31318867 TTTGGGTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.12, C:0.05, G:0.40, T:0.42
Consensus pattern (20 bp):
TGGGCTTGAGTTTAGGTTAA
Found at i:31319508 original size:44 final size:45
Alignment explanation
Indices: 31319447--31319558 Score: 138
Period size: 44 Copynumber: 2.5 Consensus size: 45
31319437 CGATCTACTT
* ** * *
31319447 CTACAACTTCAGAGAGATAAGATTTA-TGGTTTTAATCTGCTCTA
1 CTACAACTTCAGGGAGATAAGATTTATTGGCCTCAATCTGCTCCA
*
31319491 CTACAACTTCAGGGAGATAGGA-TTATTGGCCTCAATCTGCTCCA
1 CTACAACTTCAGGGAGATAAGATTTATTGGCCTCAATCTGCTCCA
* *
31319535 CTGCATCTTCAGGGAGATAAGATT
1 CTACAACTTCAGGGAGATAAGATT
31319559 CGCCATCTTC
Statistics
Matches: 57, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
43 3 0.05
44 53 0.93
45 1 0.02
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (45 bp):
CTACAACTTCAGGGAGATAAGATTTATTGGCCTCAATCTGCTCCA
Found at i:31319645 original size:50 final size:50
Alignment explanation
Indices: 31319591--31319981 Score: 223
Period size: 50 Copynumber: 7.8 Consensus size: 50
31319581 TGCAATGTCG
* * *
31319591 GGGAAACAAGATTCGCCATCGTAGCTTCAATCTGTTCCACTAGACCGCCA
1 GGGAAACAAGATTCGCCGTCGTGGCTTCAATCTATTCCACTAGACCGCCA
** * ** ** ***
31319641 GGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTATTTAACT-GCAATGTTG
1 GGGAAACAAGATTCGCCGTCGTGGCTTCAATCTATTCCACTAG-ACCGCCA
* * * * * * *
31319691 GGGAAACAAGATTCACCATCGTGACTTCAATCTGTTCCCCTACACCACCA
1 GGGAAACAAGATTCGCCGTCGTGGCTTCAATCTATTCCACTAGACCGCCA
** * * * * * ** *
31319741 GGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTCTT-TAATTGCAATGTC-
1 GGGAAACAAGATTCGCCGTCGTGGCTTCAATCTATTCCACTAG-ACCGCCA
* * * * *
31319790 GGGAAAACAAGATTCGCCGTCGTGACTTCAATTTGTTCCCCTACACCGCCA
1 GGG-AAACAAGATTCGCCGTCGTGGCTTCAATCTATTCCACTAGACCGCCA
** * * ** * ** * *
31319841 GGGAAGTAAGATTCGTCGTTGTGGCTTCAATCT-TTTTAATAGCAATGTCG
1 GGGAAACAAGATTCGCCGTCGTGGCTTCAATCTATTCCACTAG-ACCGCCA
* * * *
31319891 GGGAAACAAGATTCACCGTCGTAGCTTCAATCTATTCGACTACACCGCCA
1 GGGAAACAAGATTCGCCGTCGTGGCTTCAATCTATTCCACTAGACCGCCA
** * * *
31319941 GGGAAGTAAGATTTGTCGTTGTGGCTTCAATCTATTCCACT
1 GGGAAACAAGATTCGCCGTCGTGGCTTCAATCTATTCCACT
31319982 GTAATGCCAA
Statistics
Matches: 236, Mismatches: 97, Indels: 16
0.68 0.28 0.05
Matches are distributed among these distances:
49 9 0.04
50 218 0.92
51 9 0.04
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (50 bp):
GGGAAACAAGATTCGCCGTCGTGGCTTCAATCTATTCCACTAGACCGCCA
Found at i:31319699 original size:100 final size:100
Alignment explanation
Indices: 31319565--31319976 Score: 587
Period size: 100 Copynumber: 4.1 Consensus size: 100
31319555 GATTCGCCAT
* * *
31319565 CTTCAATCTGTCTAACTGCAATGTCGGGGAAACAAGATTCGCCATCGT-AGCTTCAATCTGTTCC
1 CTTCAATCTATTTAACTGCAATGTCGGGGAAACAAGATTCACCATCGTGA-CTTCAATCTGTTCC
*
31319629 ACTAGACCGCCAGGGAAGTAAGATTCGCCGTTGTGG
65 ACTACACCGCCAGGGAAGTAAGATTCGCCGTTGTGG
* *
31319665 CTTCAATCTATTTAACTGCAATGTTGGGGAAACAAGATTCACCATCGTGACTTCAATCTGTTCCC
1 CTTCAATCTATTTAACTGCAATGTCGGGGAAACAAGATTCACCATCGTGACTTCAATCTGTTCCA
*
31319730 CTACACCACCAGGGAAGTAAGATTCGCCGTTGTGG
66 CTACACCGCCAGGGAAGTAAGATTCGCCGTTGTGG
* * * * * * *
31319765 CTTCAATCTCTTTAATTGCAATGTCGGGAAAACAAGATTCGCCGTCGTGACTTCAATTTGTTCCC
1 CTTCAATCTATTTAACTGCAATGTCGGGGAAACAAGATTCACCATCGTGACTTCAATCTGTTCCA
*
31319830 CTACACCGCCAGGGAAGTAAGATTCGTCGTTGTGG
66 CTACACCGCCAGGGAAGTAAGATTCGCCGTTGTGG
* * *
31319865 CTTCAATCTTTTTAA-TAGCAATGTCGGGGAAACAAGATTCACCGTCGT-AGCTTCAATCTATTC
1 CTTCAATCTATTTAACT-GCAATGTCGGGGAAACAAGATTCACCATCGTGA-CTTCAATCTGTTC
* * *
31319928 GACTACACCGCCAGGGAAGTAAGATTTGTCGTTGTGG
64 CACTACACCGCCAGGGAAGTAAGATTCGCCGTTGTGG
31319965 CTTCAATCTATT
1 CTTCAATCTATT
31319977 CCACTGTAAT
Statistics
Matches: 284, Mismatches: 25, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
99 2 0.01
100 281 0.99
101 1 0.00
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (100 bp):
CTTCAATCTATTTAACTGCAATGTCGGGGAAACAAGATTCACCATCGTGACTTCAATCTGTTCCA
CTACACCGCCAGGGAAGTAAGATTCGCCGTTGTGG
Found at i:31324216 original size:15 final size:14
Alignment explanation
Indices: 31324196--31324242 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 14
31324186 TAGCCTCTCT
*
31324196 ATTTTTACTTTTTCC
1 ATTTTTAATTTTT-C
31324211 ATTTTTAATTTTTC
1 ATTTTTAATTTTTC
*
31324225 A-TTTTCA-TTTTC
1 ATTTTTAATTTTTC
31324237 ATTTTT
1 ATTTTT
31324243 TACATCATCT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
12 6 0.21
13 9 0.31
14 2 0.07
15 12 0.41
ACGTcount: A:0.17, C:0.13, G:0.00, T:0.70
Consensus pattern (14 bp):
ATTTTTAATTTTTC
Found at i:31324748 original size:1 final size:1
Alignment explanation
Indices: 31324734--31324821 Score: 50
Period size: 1 Copynumber: 88.0 Consensus size: 1
31324724 CTGGTAGAAG
* * * * * * * * * * * *
31324734 TTTTTGTTTCTTTTTGTTTTTATTTTTATTTATTTTTTTGTTTTTTATTCTTCTTTTTTGTTCTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* *
31324799 TTTTTTTGTTTTGTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTT
31324822 GGAATTTGCA
Statistics
Matches: 59, Mismatches: 28, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
1 59 1.00
ACGTcount: A:0.05, C:0.05, G:0.07, T:0.84
Consensus pattern (1 bp):
T
Found at i:31324797 original size:10 final size:9
Alignment explanation
Indices: 31324734--31324819 Score: 63
Period size: 10 Copynumber: 9.6 Consensus size: 9
31324724 CTGGTAGAAG
31324734 TTTTTGTTT
1 TTTTTGTTT
31324743 CTTTTTG-TT
1 -TTTTTGTTT
*
31324752 TTTAT-TTT
1 TTTTTGTTT
* *
31324760 TATTT-ATT
1 TTTTTGTTT
31324768 TTTTTGTTT
1 TTTTTGTTT
*
31324777 TTTATTCTTCT
1 TTT-TTGTT-T
31324788 TTTTTGTTCT
1 TTTTTGTT-T
31324798 TTTTT-TTT
1 TTTTTGTTT
*
31324806 GTTTTGTTT
1 TTTTTGTTT
31324815 TTTTT
1 TTTTT
31324820 TTGGAATTTG
Statistics
Matches: 61, Mismatches: 10, Indels: 11
0.74 0.12 0.13
Matches are distributed among these distances:
8 20 0.33
9 16 0.26
10 21 0.34
11 4 0.07
ACGTcount: A:0.05, C:0.05, G:0.07, T:0.84
Consensus pattern (9 bp):
TTTTTGTTT
Found at i:31324805 original size:13 final size:13
Alignment explanation
Indices: 31324734--31324818 Score: 59
Period size: 13 Copynumber: 6.4 Consensus size: 13
31324724 CTGGTAGAAG
31324734 TTTTTGTTTCTTTT
1 TTTTTG-TTCTTTT
* *
31324748 TGTTT-TTATTTT
1 TTTTTGTTCTTTT
*
31324760 TATTTAT-TTTTTTGT
1 T-TTT-TGTTCTTT-T
* *
31324775 TTTTTATTCTTCT
1 TTTTTGTTCTTTT
31324788 TTTTTGTTCTTTT
1 TTTTTGTTCTTTT
31324801 TTTTTGTT-TTGTT
1 TTTTTGTTCTT-TT
31324814 TTTTT
1 TTTTT
31324819 TTTGGAATTT
Statistics
Matches: 58, Mismatches: 8, Indels: 11
0.75 0.10 0.14
Matches are distributed among these distances:
12 9 0.16
13 30 0.52
14 17 0.29
15 2 0.03
ACGTcount: A:0.05, C:0.05, G:0.07, T:0.84
Consensus pattern (13 bp):
TTTTTGTTCTTTT
Found at i:31330592 original size:47 final size:47
Alignment explanation
Indices: 31330480--31330833 Score: 628
Period size: 47 Copynumber: 7.6 Consensus size: 47
31330470 ATGATAGTAT
31330480 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
31330527 GGCCTAATGGCC-----GATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
31330569 GGCCAAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
31330616 TGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
31330663 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
31330710 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
31330757 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAA
31330806 GGCCTAATGGCCGATGTGATGAATGTGA
1 GGCCTAATGGCCGATGTGATGAATGTGA
31330834 TAGTCCCGAA
Statistics
Matches: 295, Mismatches: 5, Indels: 12
0.95 0.02 0.04
Matches are distributed among these distances:
42 41 0.14
47 213 0.72
49 41 0.14
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
Found at i:31331010 original size:37 final size:37
Alignment explanation
Indices: 31330954--31331032 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
31330944 TCGAGCTCTA
* *
31330954 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
31330991 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
31331028 AAGAC
1 AAGAC
31331033 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:31333112 original size:16 final size:16
Alignment explanation
Indices: 31333091--31333146 Score: 60
Period size: 16 Copynumber: 3.4 Consensus size: 16
31333081 AAGTATTCAC
*
31333091 ATATAAAATATAAAAT
1 ATATAAAAAATAAAAT
*
31333107 ATATAAAAAATTGAAAT
1 ATATAAAAAA-TAAAAT
*
31333124 ATATAAAACAA-AAAAA
1 ATATAAAA-AATAAAAT
31333140 ATATAAA
1 ATATAAA
31333147 TAATTTTTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
16 19 0.56
17 13 0.38
18 2 0.06
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.25
Consensus pattern (16 bp):
ATATAAAAAATAAAAT
Found at i:31333171 original size:27 final size:27
Alignment explanation
Indices: 31333141--31333198 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
31333131 ACAAAAAAAA
* *
31333141 TATAAATA-ATTTTTAAAAAAAAGTATG
1 TATAAATATA-TTATAAAAAAAAGCATG
* *
31333168 TATATATATATTATAAAAAAATGCATG
1 TATAAATATATTATAAAAAAAAGCATG
31333195 TATA
1 TATA
31333199 TGTGCATGGA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
27 25 0.96
28 1 0.04
ACGTcount: A:0.53, C:0.02, G:0.07, T:0.38
Consensus pattern (27 bp):
TATAAATATATTATAAAAAAAAGCATG
Found at i:31333377 original size:29 final size:29
Alignment explanation
Indices: 31333303--31333378 Score: 75
Period size: 27 Copynumber: 2.7 Consensus size: 29
31333293 ATATATGTAT
* * *
31333303 AAAATATATACATGTATTTATAAAGTCTA
1 AAAAAATATGCATGTATATATAAAGTCTA
* * *
31333332 AAAAATATAGGCATATATAT-TAAA-TTTA
1 AAAAA-ATATGCATGTATATATAAAGTCTA
31333360 AAAAAATATGCATGTATAT
1 AAAAAATATGCATGTATAT
31333379 GTATAGAAAC
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
27 12 0.32
28 8 0.21
29 8 0.21
30 10 0.26
ACGTcount: A:0.51, C:0.05, G:0.08, T:0.36
Consensus pattern (29 bp):
AAAAAATATGCATGTATATATAAAGTCTA
Found at i:31334394 original size:21 final size:20
Alignment explanation
Indices: 31334356--31334395 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
31334346 ATATTGTAGT
*
31334356 TGGGCTTGGGTTTAGGTTAA
1 TGGGCTTGAGTTTAGGTTAA
*
31334376 TGGGCTTGTAGTTTGGGTTA
1 TGGGCTTG-AGTTTAGGTTA
31334396 TTTAGGTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.12, C:0.05, G:0.40, T:0.42
Consensus pattern (20 bp):
TGGGCTTGAGTTTAGGTTAA
Found at i:31334649 original size:16 final size:16
Alignment explanation
Indices: 31334629--31334658 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
31334619 CTTTGATGTT
31334629 TTTTTTATT-ATTAAA
1 TTTTTTATTCATTAAA
31334644 TTTTTTATTCATTAA
1 TTTTTTATTCATTAA
31334659 TTTCATATGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (16 bp):
TTTTTTATTCATTAAA
Found at i:31334962 original size:91 final size:91
Alignment explanation
Indices: 31334858--31335041 Score: 368
Period size: 91 Copynumber: 2.0 Consensus size: 91
31334848 AAATAAATAA
31334858 ATATTTGTAAATAAATATTAAATTTTTTATTTAAAAACATAATTAAAAATTAACTTTAATTTTTT
1 ATATTTGTAAATAAATATTAAATTTTTTATTTAAAAACATAATTAAAAATTAACTTTAATTTTTT
31334923 TCCTCTGCTTTGCTTTTGTTTTGCTT
66 TCCTCTGCTTTGCTTTTGTTTTGCTT
31334949 ATATTTGTAAATAAATATTAAATTTTTTATTTAAAAACATAATTAAAAATTAACTTTAATTTTTT
1 ATATTTGTAAATAAATATTAAATTTTTTATTTAAAAACATAATTAAAAATTAACTTTAATTTTTT
31335014 TCCTCTGCTTTGCTTTTGTTTTGCTT
66 TCCTCTGCTTTGCTTTTGTTTTGCTT
31335040 AT
1 AT
31335042 GTTTTATTAT
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
91 93 1.00
ACGTcount: A:0.33, C:0.09, G:0.05, T:0.53
Consensus pattern (91 bp):
ATATTTGTAAATAAATATTAAATTTTTTATTTAAAAACATAATTAAAAATTAACTTTAATTTTTT
TCCTCTGCTTTGCTTTTGTTTTGCTT
Found at i:31338586 original size:14 final size:14
Alignment explanation
Indices: 31338541--31338587 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
31338531 ACTTTATTTG
31338541 TTTATTATATAAAT
1 TTTATTATATAAAT
*
31338555 TTT-TTA-AAATAAT
1 TTTATTATATA-AAT
31338568 ATTTATTATATAAAT
1 -TTTATTATATAAAT
31338583 TTTAT
1 TTTAT
31338588 CTTATGTGCT
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
12 2 0.07
13 6 0.22
14 11 0.41
15 6 0.22
16 2 0.07
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
TTTATTATATAAAT
Found at i:31341350 original size:40 final size:39
Alignment explanation
Indices: 31341300--31341677 Score: 391
Period size: 40 Copynumber: 9.5 Consensus size: 39
31341290 CTGTCCGGGC
* * * *
31341300 TAAGTCCCGAAGGCTTTGTGCTAAGTGAATATATCCGGAT
1 TAAGTCCCGAAGGCTTTGTGC-GAGTTATTAAATCCGGAT
* * *
31341340 TAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGT
1 TAAG-TCCCGAAGG-CTTTGTGCGAGTTATTAAATCCGGAT
* *
31341380 TAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGT
1 TAAGTCCCGAAGGC-TTTGTGCGAGTTATTAAATCCGGAT
*
31341420 TAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGAT
1 TAAGTCCCGAAGGC-TTTGTGCGAGTTATTAAATCCGGAT
* * *
31341460 TAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGT
1 TAAG-TCCCGAAGG-CTTTGTGCGAGTTATTAAATCCGGAT
* *
31341500 TAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGT
1 TAAGTCCCGAAGGC-TTTGTGCGAGTTATTAAATCCGGAT
* *
31341540 TAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGT
1 TAAGTCCCGAAGGC-TTTGTGCGAGTTATTAAATCCGGAT
* * *
31341580 TAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGT
1 TAAGTCCCGAAGGC-TTTGTGCGAGTTATTAAATCCGGAT
* * * * * **
31341620 TATGTCCCGAAGGCATTGTGTGAGTTACTAAAACCGGGC
1 TAAGTCCCGAAGGCTTTGTGCGAGTTATTAAATCCGGAT
*
31341659 TATGTCCCGAAGGCATTTG
1 TAAGTCCCGAAGGC-TTTG
31341678 AACGAGGAGC
Statistics
Matches: 302, Mismatches: 27, Indels: 18
0.87 0.08 0.05
Matches are distributed among these distances:
39 36 0.12
40 255 0.84
41 11 0.04
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (39 bp):
TAAGTCCCGAAGGCTTTGTGCGAGTTATTAAATCCGGAT
Found at i:31341430 original size:80 final size:80
Alignment explanation
Indices: 31341293--31341675 Score: 504
Period size: 80 Copynumber: 4.8 Consensus size: 80
31341283 TTGAATGCTG
* * * * * * * *
31341293 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGATTAAGAT-CCGAAGGCCT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
* * *
31341356 TTGTGCGAGATACTAAA
64 TCGTGCGAGTTATTAAA
*
31341373 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTC
31341438 GTGCGAGTTATTAAA
66 GTGCGAGTTATTAAA
* * * *
31341453 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATT
31341517 CGTGCGAGTTATTAAA
65 CGTGCGAGTTATTAAA
*
31341533 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTC
*
31341598 GTGCGAGTTGTTAAA
66 GTGCGAGTTATTAAA
* * * * *
31341613 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATT
31341676 TGAACGAGGA
Statistics
Matches: 271, Mismatches: 28, Indels: 9
0.88 0.09 0.03
Matches are distributed among these distances:
79 36 0.13
80 228 0.84
81 7 0.03
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.27
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTC
GTGCGAGTTATTAAA
Found at i:31341506 original size:120 final size:120
Alignment explanation
Indices: 31341293--31341675 Score: 565
Period size: 120 Copynumber: 3.2 Consensus size: 120
31341283 TTGAATGCTG
* * * * *
31341293 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGATTAAGATCCGAAGGCCTT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGATTAAGATCCGAAGGCCTT
31341357 TGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
65 TGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
31341413 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGATTAAGATCCGAAGGCCTTT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGATTAAGATCCGAAGGCCTTT
31341478 GTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
66 GTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
31341533 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGATTAAGAT-CCGAAGGCCTT
* * ** * * *
31341597 CGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
65 TGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* *
31341652 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
31341676 TGAACGAGGA
Statistics
Matches: 243, Mismatches: 18, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
119 35 0.14
120 202 0.83
121 6 0.02
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.27
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGATTAAGATCCGAAGGCCTTT
GTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:31345132 original size:27 final size:28
Alignment explanation
Indices: 31345099--31345160 Score: 83
Period size: 27 Copynumber: 2.3 Consensus size: 28
31345089 ACTTCAGATC
*
31345099 GCCAGGCCCTCTGGCGAACACCAACT-T
1 GCCAGGCCCTCTAGCGAACACCAACTAT
* *
31345126 GCCAGGCTCTCTAGTGAACACCAACTAT
1 GCCAGGCCCTCTAGCGAACACCAACTAT
31345154 -CCAGGCC
1 GCCAGGCC
31345161 TAAAGGAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
27 29 0.97
28 1 0.03
ACGTcount: A:0.24, C:0.39, G:0.21, T:0.16
Consensus pattern (28 bp):
GCCAGGCCCTCTAGCGAACACCAACTAT
Found at i:31349494 original size:19 final size:18
Alignment explanation
Indices: 31349464--31349501 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
31349454 TGGTTTTCTC
*
31349464 AAAATGGAAATAGAAATG
1 AAAATGGAAATAAAAATG
31349482 AAAATGAGAAATAAAAATG
1 AAAATG-GAAATAAAAATG
31349501 A
1 A
31349502 TTCTTTTACA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.66, C:0.00, G:0.18, T:0.16
Consensus pattern (18 bp):
AAAATGGAAATAAAAATG
Found at i:31351736 original size:12 final size:12
Alignment explanation
Indices: 31351719--31351743 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
31351709 GTAGAATCTA
31351719 TTTTTGTATTTG
1 TTTTTGTATTTG
31351731 TTTTTGTATTTG
1 TTTTTGTATTTG
31351743 T
1 T
31351744 ATCTGTAACT
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:0.08, C:0.00, G:0.16, T:0.76
Consensus pattern (12 bp):
TTTTTGTATTTG
Found at i:31362656 original size:30 final size:31
Alignment explanation
Indices: 31362619--31362696 Score: 79
Period size: 31 Copynumber: 2.5 Consensus size: 31
31362609 ACGATTTAAA
31362619 AAAAAAAACCATTT-AACAGTCCAATGACTTT
1 AAAAAAAA-CATTTAAACAGTCCAATGACTTT
* * *
31362650 AAAAAAAACTTTTAAATAGTTCAATGAC-TT
1 AAAAAAAACATTTAAACAGTCCAATGACTTT
* *
31362680 AAATGAAAACTTTTAAA
1 AAA-AAAAACATTTAAA
31362697 TAGTTTAAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
30 9 0.22
31 32 0.78
ACGTcount: A:0.51, C:0.13, G:0.06, T:0.29
Consensus pattern (31 bp):
AAAAAAAACATTTAAACAGTCCAATGACTTT
Found at i:31362675 original size:31 final size:31
Alignment explanation
Indices: 31362640--31362701 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
31362630 TTTAACAGTC
31362640 CAATGACTTTAAA-AAAAACTTTTAAATAGTT
1 CAATGAC-TTAAATAAAAACTTTTAAATAGTT
*
31362671 CAATGACTTAAATGAAAACTTTTAAATAGTT
1 CAATGACTTAAATAAAAACTTTTAAATAGTT
31362702 TAAAACTAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 5 0.17
31 24 0.83
ACGTcount: A:0.47, C:0.10, G:0.08, T:0.35
Consensus pattern (31 bp):
CAATGACTTAAATAAAAACTTTTAAATAGTT
Found at i:31364243 original size:21 final size:19
Alignment explanation
Indices: 31364212--31364255 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 19
31364202 TTACATAATG
31364212 TAATAATATATTTAAAATAT
1 TAATAATATATTT-AAATAT
*
31364232 TAATACATATATTTAACTAT
1 TAATA-ATATATTTAAATAT
31364252 TAAT
1 TAAT
31364256 TGGTTCAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 14 0.64
21 8 0.36
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (19 bp):
TAATAATATATTTAAATAT
Found at i:31365500 original size:20 final size:19
Alignment explanation
Indices: 31365462--31365511 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
31365452 TAATAATTAA
31365462 TATATTATGT-ATTACTAT
1 TATATTATGTAATTACTAT
*
31365480 TATATTATGTAATATAGTAT
1 TATATTATGTAAT-TACTAT
* *
31365500 TAAATAATGTAA
1 TATATTATGTAA
31365512 GAATTAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
18 10 0.37
19 2 0.07
20 15 0.56
ACGTcount: A:0.42, C:0.02, G:0.08, T:0.48
Consensus pattern (19 bp):
TATATTATGTAATTACTAT
Found at i:31382779 original size:279 final size:279
Alignment explanation
Indices: 31382233--31382792 Score: 790
Period size: 279 Copynumber: 2.0 Consensus size: 279
31382223 TGTTTTAAAG
* *
31382233 TGTATTTGATATATTATATTTTAAAATTATTTATTTAATAAAATAATTTAAAATATTAATATGAG
1 TGTATTTCATATATTATATTTTAAAATTATTTATTTAATAAAATAATTTAAAAAATTAATATGAG
** ** *
31382298 TTGGACCGGGTCGAGCTTGGACTTAATTATTATATTTTGGATCGAGTTTAAACAAATTTTTAGAC
66 TCAGACCGGGTC--GCTCAGACTTAATTATTATATTTTGGATCGAGTTTAAACAAATTTTTAAAC
* *
31382363 TCATATTCAAGCCAACACAAATCCTACCCAACGCATGATCACCTCTACCCTCACCTTTGAGCTTA
129 TCATATTCAAACCAACACAAATCCAACCCAACGCATGA--ACCTCTACCCTCACCTTTGAGCTTA
*
31382428 AGTAAAATATATAATCAACCATAACATTTTGCTTAACATTAGAAATGTTTTGTCAAGTCAAAACT
192 AGTAAAATATATAATCAAACATAACATTTTGCTTAACATTAGAAATGTTTTGTCAAGTCAAAACT
31382493 CATGACTTGATAGATTATTGAAT
257 CATGACTTGATAGATTATTGAAT
* * *
31382516 TGTATTTCATATATTGTATTTTAAAATTGTTTATTTAATAAAATAATTTAAAAAAATTAATATGG
1 TGTATTTCATATATTATATTTTAAAATTATTTATTTAATAAAATAATTT-AAAAAATTAATATGA
* * * *
31382581 GTCAGACCAGGG-C-CTCAGACTTAATTATTATATTTTGGGTCGGGTTTAGACAAATTTTTAAAT
65 GTCAGACC-GGGTCGCTCAGACTTAATTATTATATTTTGGATCGAGTTTAAACAAATTTTTAAAC
* * * *
31382644 TCATATTTCAAACCAACCCAAATTCAACTCGACGCATG-ACCTCTACCCTCACCTTTGAG-TTAA
129 TCATA-TTCAAACCAACACAAATCCAACCCAACGCATGAACCTCTACCCTCACCTTTGAGCTTAA
*
31382707 GT-AAATATATAATCAAACATAACATTTT-CATTAACATTAGAATAATGTTTTGTCTAGTCAAAA
193 GTAAAATATATAATCAAACATAACATTTTGC-TTAACATTAG-A-AATGTTTTGTCAAGTCAAAA
31382770 CTCATGACTTGATAGATTATTGA
255 CTCATGACTTGATAGATTATTGA
31382793 TGAAACAAAA
Statistics
Matches: 249, Mismatches: 22, Indels: 16
0.87 0.08 0.06
Matches are distributed among these distances:
276 1 0.00
277 35 0.14
278 7 0.03
279 63 0.25
281 48 0.19
282 26 0.10
283 46 0.18
284 20 0.08
285 3 0.01
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.37
Consensus pattern (279 bp):
TGTATTTCATATATTATATTTTAAAATTATTTATTTAATAAAATAATTTAAAAAATTAATATGAG
TCAGACCGGGTCGCTCAGACTTAATTATTATATTTTGGATCGAGTTTAAACAAATTTTTAAACTC
ATATTCAAACCAACACAAATCCAACCCAACGCATGAACCTCTACCCTCACCTTTGAGCTTAAGTA
AAATATATAATCAAACATAACATTTTGCTTAACATTAGAAATGTTTTGTCAAGTCAAAACTCATG
ACTTGATAGATTATTGAAT
Found at i:31383463 original size:24 final size:24
Alignment explanation
Indices: 31383414--31383502 Score: 72
Period size: 24 Copynumber: 3.7 Consensus size: 24
31383404 TATGTGTCTA
* * *
31383414 CATCTGTATCTAAAT-TTATATCTG
1 CATCTGTATCTGAATCTAAAAT-TG
* * *
31383438 CATTTGTATTTGTATCTAAAATTG
1 CATCTGTATCTGAATCTAAAATTG
*
31383462 CATCTGTCTCTGAATCTAAAATTG
1 CATCTGTATCTGAATCTAAAATTG
* * *
31383486 TATCTATATCTGTATCT
1 CATCTGTATCTGAATCT
31383503 GATCTGTTTG
Statistics
Matches: 50, Mismatches: 14, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
24 46 0.92
25 4 0.08
ACGTcount: A:0.28, C:0.16, G:0.10, T:0.46
Consensus pattern (24 bp):
CATCTGTATCTGAATCTAAAATTG
Found at i:31385647 original size:7 final size:7
Alignment explanation
Indices: 31385630--31385665 Score: 63
Period size: 7 Copynumber: 5.0 Consensus size: 7
31385620 TATAAAAAAC
31385630 TATTAATA
1 TATT-ATA
31385638 TATTATA
1 TATTATA
31385645 TATTATA
1 TATTATA
31385652 TATTATA
1 TATTATA
31385659 TATTATA
1 TATTATA
31385666 AGATATGATA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
7 24 0.86
8 4 0.14
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (7 bp):
TATTATA
Found at i:31388088 original size:47 final size:47
Alignment explanation
Indices: 31388032--31388540 Score: 883
Period size: 47 Copynumber: 10.7 Consensus size: 47
31388022 ATGATAGTAT
31388032 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
31388079 TGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
31388126 TGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
31388173 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
31388220 TGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
31388267 TGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
31388314 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
31388361 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAA
* *
31388410 GGCCTAATGGCCGATGTGATGAATGAGAAAGTGTATATATACGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT--GTGATAA
*
31388459 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAA
31388508 GGCCTAATGGCCGATGTGATGAATGTGATAAGT
1 GGCCTAATGGCCGATGTGATGAATGTGA-AAGT
31388541 CCCGAAGGGC
Statistics
Matches: 448, Mismatches: 7, Indels: 11
0.96 0.02 0.02
Matches are distributed among these distances:
47 318 0.71
49 119 0.27
50 4 0.01
51 7 0.02
ACGTcount: A:0.31, C:0.09, G:0.29, T:0.30
Consensus pattern (47 bp):
GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
Found at i:31388714 original size:37 final size:37
Alignment explanation
Indices: 31388658--31388736 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
31388648 CCGAGCTCTA
* * *
31388658 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGAT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGAT
* *
31388695 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGAT
31388732 AAGAC
1 AAGAC
31388737 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGAT
Found at i:31390691 original size:43 final size:43
Alignment explanation
Indices: 31390591--31390693 Score: 188
Period size: 43 Copynumber: 2.4 Consensus size: 43
31390581 TTGGTTTTCA
*
31390591 GCACTAAGTGTGCGAGCAAGAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAAGAAGTGTTCACGGTTGTGAGATTG
*
31390634 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAAGAAGTGTTCACGGTTGTGAGATTG
31390677 GCACTAAGTGTGCGGGC
1 GCACTAAGTGTGCGGGC
31390694 TTGAAATGCA
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
43 58 1.00
ACGTcount: A:0.23, C:0.16, G:0.36, T:0.25
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAAGAAGTGTTCACGGTTGTGAGATTG
Found at i:31390710 original size:29 final size:29
Alignment explanation
Indices: 31390675--31390748 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
31390665 GTTGTGAGAT
* *
31390675 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
31390704 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
31390733 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
31390749 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:31391182 original size:40 final size:40
Alignment explanation
Indices: 31391059--31391373 Score: 298
Period size: 40 Copynumber: 7.9 Consensus size: 40
31391049 TCGAATGATG
** *
31391059 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCT-AGTGA-TATA
* ** * * *
31391099 TCCGGACTAAGAT-CCGAAG-GCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGAGCATTCATGCTAGTGA-TATA
*
31391139 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
*
31391179 TCCGGGCTAAGTTCCG-AGAGCATTCATGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* * * *
31391218 TCCGGGCTAAGTCCTGAGGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* *
31391258 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* ** * ** * *
31391298 TCCGTGCTAAACCCCAAAGAGCATTTGTGCTGGTGTTATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* * * *
31391338 TCCGGGCTAGGTCCCGAAGAGTAATCATGCTGGTGA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
31391374 CGTGTATTCG
Statistics
Matches: 228, Mismatches: 42, Indels: 10
0.81 0.15 0.04
Matches are distributed among these distances:
39 37 0.16
40 172 0.75
41 19 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
Found at i:31391195 original size:80 final size:80
Alignment explanation
Indices: 31391059--31391358 Score: 338
Period size: 80 Copynumber: 3.8 Consensus size: 80
31391049 TCGAATGATG
* * * *
31391059 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAG-GCA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCT-AGTGA-TATATCCGGGCTAAGTTCCGAAGAGCA
* * * *
31391121 TTGGTGCGAGTTACTAAA
64 TTCGTGCTAGTGA-TATA
* *
31391139 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTTCCG-AGAGCATT
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTTCCGAAGAGCATT
*
31391203 CATGCTAGTGATATA
66 CGTGCTAGTGATATA
* * *
31391218 TCCGGGCTAAGTCCTGAGGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTTCCGAAGAGCATT
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTTCCGAAGAGCATT
31391283 CGTGCTAGTGATATA
66 CGTGCTAGTGATATA
* ** * * * * * *
31391298 TCCGTGCTAAACCCCAAAGAGCATTTGTGCTGGTGTTATATCCGGGCTAGGTCCCGAAGAG
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTTCCGAAGAG
31391359 TAATCATGCT
Statistics
Matches: 189, Mismatches: 27, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
79 58 0.31
80 118 0.62
81 7 0.04
82 6 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTTCCGAAGAGCATT
CGTGCTAGTGATATA
Found at i:31394938 original size:22 final size:23
Alignment explanation
Indices: 31394910--31394990 Score: 67
Period size: 22 Copynumber: 3.5 Consensus size: 23
31394900 AAGTGTATAT
31394910 ATGTGAT-AATGCCTAATGGCCG
1 ATGTGATGAATGCCTAATGGCCG
*** ****
31394932 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGCCTAA-TG-GCCG
31394957 ATGTGAT-AATGCCTAATGGCCG
1 ATGTGATGAATGCCTAATGGCCG
31394979 ATGTGATGAATG
1 ATGTGATGAATG
31394991 TGAAAGTGTA
Statistics
Matches: 41, Mismatches: 14, Indels: 7
0.66 0.23 0.11
Matches are distributed among these distances:
22 14 0.34
23 12 0.29
24 8 0.20
25 7 0.17
ACGTcount: A:0.31, C:0.10, G:0.28, T:0.31
Consensus pattern (23 bp):
ATGTGATGAATGCCTAATGGCCG
Found at i:31395133 original size:49 final size:47
Alignment explanation
Indices: 31394778--31395240 Score: 793
Period size: 47 Copynumber: 9.7 Consensus size: 47
31394768 ATGATAGTAT
31394778 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
31394825 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
31394872 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
31394919 TGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
31394966 TGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
31395013 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGAT-A
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAA
*
31395061 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAA
*
31395110 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAA
*
31395159 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAA
31395208 GGCCTAATGGCCGATGTGATGAATGTGATAAGT
1 GGCCTAATGGCCGATGTGATGAATGTGA-AAGT
31395241 CCCGAAGGGC
Statistics
Matches: 409, Mismatches: 3, Indels: 5
0.98 0.01 0.01
Matches are distributed among these distances:
47 219 0.54
48 48 0.12
49 138 0.34
50 4 0.01
ACGTcount: A:0.31, C:0.09, G:0.30, T:0.30
Consensus pattern (47 bp):
GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
Found at i:31395415 original size:37 final size:37
Alignment explanation
Indices: 31395358--31395436 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
31395348 CCGAGCTCTA
* * * *
31395358 AAGACCCGATGACTAGGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
31395395 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
31395432 AAGAC
1 AAGAC
31395437 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.24, C:0.18, G:0.33, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:31397121 original size:17 final size:18
Alignment explanation
Indices: 31397096--31397133 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
31397086 ATTATAAGGT
31397096 ATAATAAGAAATAAAAAA
1 ATAATAAGAAATAAAAAA
* *
31397114 ATAA-AAGATATAAATAA
1 ATAATAAGAAATAAAAAA
31397131 ATA
1 ATA
31397134 TGACACTTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (18 bp):
ATAATAAGAAATAAAAAA
Found at i:31406927 original size:34 final size:34
Alignment explanation
Indices: 31406868--31406934 Score: 89
Period size: 34 Copynumber: 2.0 Consensus size: 34
31406858 CCCTAATGCT
* * *
31406868 TACTGATACTGGAATAGGCTCAGGCCTAAACTGA
1 TACTGATACTGAAAAAGGCTCAGGCCCAAACTGA
* *
31406902 TACTGATACTGAAAAATGCTTAGGCCCAAACTG
1 TACTGATACTGAAAAAGGCTCAGGCCCAAACTG
31406935 CGATTATCTG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.24
Consensus pattern (34 bp):
TACTGATACTGAAAAAGGCTCAGGCCCAAACTGA
Found at i:31407418 original size:20 final size:20
Alignment explanation
Indices: 31407393--31407430 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
31407383 TAAGCAAAGT
*
31407393 TACGGTTTTCCAACACAACC
1 TACGGTTTTCAAACACAACC
31407413 TACGGTTTTCAAACACAA
1 TACGGTTTTCAAACACAA
31407431 TATCATATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.34, C:0.29, G:0.11, T:0.26
Consensus pattern (20 bp):
TACGGTTTTCAAACACAACC
Found at i:31413099 original size:617 final size:617
Alignment explanation
Indices: 31411926--31413155 Score: 2147
Period size: 617 Copynumber: 2.0 Consensus size: 617
31411916 TCTAACCCTA
*
31411926 CACGCCATGTGAGGATTAAATCAACCCACCGATCCCTACACACCATGCTGTACCGAAATGTGGCA
1 CACGCCATGTGAGGATTAAATCAACCCACCCATCCCTACACACCATGCTGTACCGAAATGTGGCA
* *
31411991 CATAATCAGAAGGTTACAGCTGAGCTACCAGATAACAAGCTTAATAGCCTTTCAGACACTTCTTT
66 CATAATCAGAAGGTTACAGCTGAGCTACCAGATAACAAGCTTAATAGCCTTTCAGACACTTCCTC
31412056 CAAATATCATCAACCCACCCCGATGCAATGCAACATACAAAATATGTCATGCCATTATGCAATTA
131 CAAATATCATCAACCCACCCCGATGCAATGCAACATACAAAATATGTCATGCCATTATGCAATTA
31412121 ATAGTACATACATTTAGATATCATAAGTCATGCTCGGTATAAAAATCAAACAGACAGATCACATA
196 ATAGTACATACATTTAGATATCATAAGTCATGCTCGGTATAAAAATCAAACAGACAGATCACATA
*
31412186 TATAAGGGTCTAAGTAAAGCTTACTGACCCTATAGTAGGTTCACTGTTGACGTGGGCGACCCATG
261 TATAAGGGTCTAAGTAAAGCTTACTGACCCTACAGTAGGTTCACTGTTGACGTGGGCGACCCATG
* *
31412251 CAACCTTAGCAATCAATTCAGTGAAAATGAGCTCACACGCCCATGTGGTCCACCTGTGTAGGCCC
326 CAACCTTAGCAATCAATTCAGTGAAAATGAGCTCACACGCCCATGTGGTCCACCCGCGTAGGCCC
*
31412316 ACATGCCCGTGTGGCCCACTTGGCCCAAATTCGCCTTAGCTACATAGTCCATTTTTAATGTAACC
391 ACATGCCCGTGTGGCCCACTTGGCCCAAATTCGCCTTAGCTACATAGTCCATTTTCAATGTAACC
*
31412381 CGTGCTAGCTAAATATTCATATATGTTTTCACTATTTACTTATATGTTCCTTCAAAGCTGTCTAC
456 CGTGCTAGCTAAATATTAATATATGTTTTCACTATTTACTTATATGTTCCTTCAAAGCTGTCTAC
*
31412446 TGGAGTCATTGTTACTAAATTATTTATATCTTGAGTTACAAAATTCCAAATTAAGGTCCGCTTGA
521 TGGAGTCACTGTTACTAAATTATTTATATCTTGAGTTACAAAATTCCAAATTAAGGTCCGCTTGA
*
31412511 TGTCTTTGAAACTAGAGTCAAATACCTTTCCC
586 TGTCTTTGAAACTAGACTCAAATACCTTTCCC
* *
31412543 CACGCCATGTGGGGATTAAATCCACCCACCCATCCCTACACACCATGCTGTACCGAAATGTGGCA
1 CACGCCATGTGAGGATTAAATCAACCCACCCATCCCTACACACCATGCTGTACCGAAATGTGGCA
* *
31412608 CATAATCAGAAGGTTGCAGCTGAGCTGCCAGATAACAAGCTTAATAGCCTTTCAGACACTTCCTC
66 CATAATCAGAAGGTTACAGCTGAGCTACCAGATAACAAGCTTAATAGCCTTTCAGACACTTCCTC
*
31412673 CAAATATCATCAACCCACCTCGATGCAATGCAACATACAAAATATGTCATGCCATTATGCAATTA
131 CAAATATCATCAACCCACCCCGATGCAATGCAACATACAAAATATGTCATGCCATTATGCAATTA
* * *
31412738 TTAGTACATACATTTAGATATCATAAGTCATGCTCGGTATAAAAATCAGACAGACAGATCACTTA
196 ATAGTACATACATTTAGATATCATAAGTCATGCTCGGTATAAAAATCAAACAGACAGATCACATA
* *
31412803 TATAGGGGTCTAAGTAAAGCTTA-TCGACCCTACAGTAGGTTCACTGTTGACGTGGGTGACCCAT
261 TATAAGGGTCTAAGTAAAGCTTACT-GACCCTACAGTAGGTTCACTGTTGACGTGGGCGACCCAT
* * **
31412867 GCAACTTTAGCAATCAATTCAGTGAAAATGGGCTCACACGCCCATGTGGTGTACCCGCGTAGGCC
325 GCAACCTTAGCAATCAATTCAGTGAAAATGAGCTCACACGCCCATGTGGTCCACCCGCGTAGGCC
* * * * *
31412932 CACATGCCCGTGTGGCCCACTTGGTCCAAATTGGCCTTGGCTGCATAGTCCATTTTCATTGTAAC
390 CACATGCCCGTGTGGCCCACTTGGCCCAAATTCGCCTTAGCTACATAGTCCATTTTCAATGTAAC
*
31412997 CCGTGCTAGCTAAATATTAATATATGTTTTCACTATTTACTTATATGTTCCTTCAAAGTTGTCTA
455 CCGTGCTAGCTAAATATTAATATATGTTTTCACTATTTACTTATATGTTCCTTCAAAGCTGTCTA
* *
31413062 CTTGAGTCACTGTTACTAAATTATTTATATCTTGAGTTACAGAATTCCAAATTAAGGTCCGCTTG
520 CTGGAGTCACTGTTACTAAATTATTTATATCTTGAGTTACAAAATTCCAAATTAAGGTCCGCTTG
*
31413127 ATGTTTTTGAAACTAGACTCAAATACCTT
585 ATGTCTTTGAAACTAGACTCAAATACCTT
31413156 CCTACTATAA
Statistics
Matches: 579, Mismatches: 33, Indels: 2
0.94 0.05 0.00
Matches are distributed among these distances:
616 1 0.00
617 578 1.00
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.29
Consensus pattern (617 bp):
CACGCCATGTGAGGATTAAATCAACCCACCCATCCCTACACACCATGCTGTACCGAAATGTGGCA
CATAATCAGAAGGTTACAGCTGAGCTACCAGATAACAAGCTTAATAGCCTTTCAGACACTTCCTC
CAAATATCATCAACCCACCCCGATGCAATGCAACATACAAAATATGTCATGCCATTATGCAATTA
ATAGTACATACATTTAGATATCATAAGTCATGCTCGGTATAAAAATCAAACAGACAGATCACATA
TATAAGGGTCTAAGTAAAGCTTACTGACCCTACAGTAGGTTCACTGTTGACGTGGGCGACCCATG
CAACCTTAGCAATCAATTCAGTGAAAATGAGCTCACACGCCCATGTGGTCCACCCGCGTAGGCCC
ACATGCCCGTGTGGCCCACTTGGCCCAAATTCGCCTTAGCTACATAGTCCATTTTCAATGTAACC
CGTGCTAGCTAAATATTAATATATGTTTTCACTATTTACTTATATGTTCCTTCAAAGCTGTCTAC
TGGAGTCACTGTTACTAAATTATTTATATCTTGAGTTACAAAATTCCAAATTAAGGTCCGCTTGA
TGTCTTTGAAACTAGACTCAAATACCTTTCCC
Found at i:31414750 original size:18 final size:20
Alignment explanation
Indices: 31414726--31414775 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 20
31414716 TGAATGCAAT
31414726 TAAATATTATTAT-ATTTGA
1 TAAATATTATTATAATTTGA
*
31414745 -AAATATAAATT-TAATTTGA
1 TAAATAT-TATTATAATTTGA
31414764 TAAATATTATTA
1 TAAATATTATTA
31414776 ATATGTGTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 7
0.74 0.06 0.21
Matches are distributed among these distances:
18 7 0.28
19 12 0.48
20 6 0.24
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (20 bp):
TAAATATTATTATAATTTGA
Found at i:31421880 original size:25 final size:26
Alignment explanation
Indices: 31421829--31421882 Score: 92
Period size: 27 Copynumber: 2.1 Consensus size: 26
31421819 AACCAGAAAA
31421829 ACAAAGAAACGTGCCAAAATACGGCAG
1 ACAAAGAAACGTGCC-AAATACGGCAG
31421856 ACAAAGAAACGTGCC-AATACGGCAG
1 ACAAAGAAACGTGCCAAATACGGCAG
31421881 AC
1 AC
31421883 TAAGTATTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
25 12 0.44
27 15 0.56
ACGTcount: A:0.46, C:0.24, G:0.22, T:0.07
Consensus pattern (26 bp):
ACAAAGAAACGTGCCAAATACGGCAG
Found at i:31433576 original size:60 final size:60
Alignment explanation
Indices: 31433483--31433607 Score: 250
Period size: 60 Copynumber: 2.1 Consensus size: 60
31433473 TGAGATATTT
31433483 TGGATAGTAAAGAGTTCAAATTATCCATGCTTGACATAATGCAAGCTTCCTAAAGTTAAA
1 TGGATAGTAAAGAGTTCAAATTATCCATGCTTGACATAATGCAAGCTTCCTAAAGTTAAA
31433543 TGGATAGTAAAGAGTTCAAATTATCCATGCTTGACATAATGCAAGCTTCCTAAAGTTAAA
1 TGGATAGTAAAGAGTTCAAATTATCCATGCTTGACATAATGCAAGCTTCCTAAAGTTAAA
31433603 TGGAT
1 TGGAT
31433608 GTATCTAAGG
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 65 1.00
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.30
Consensus pattern (60 bp):
TGGATAGTAAAGAGTTCAAATTATCCATGCTTGACATAATGCAAGCTTCCTAAAGTTAAA
Found at i:31453677 original size:39 final size:40
Alignment explanation
Indices: 31453473--31453693 Score: 232
Period size: 40 Copynumber: 5.5 Consensus size: 40
31453463 TTGAATGCTG
* * * * * *
31453473 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
** * * *
31453513 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
*
31453553 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
**
31453593 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
31453633 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
31453672 ACCGGGCTATGTCCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCA
31453694 CTTGAACGAG
Statistics
Matches: 159, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
39 33 0.21
40 118 0.74
41 8 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:31453715 original size:79 final size:80
Alignment explanation
Indices: 31453548--31453730 Score: 210
Period size: 79 Copynumber: 2.3 Consensus size: 80
31453538 GTGCGAGATA
* * *
31453548 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
31453613 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * *
31453628 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
31453692 CACTT-GAACGAGGAG
66 CA-TTCGAACGAGGAG
* * *
31453707 CTATATCC-GGTTAAATTCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
31453731 TACGTGATTT
Statistics
Matches: 86, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
78 13 0.15
79 44 0.51
80 29 0.34
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:31458765 original size:6 final size:6
Alignment explanation
Indices: 31458754--31458795 Score: 57
Period size: 6 Copynumber: 6.8 Consensus size: 6
31458744 GGTTTTCTTA
* *
31458754 AAATGG AAATGG AAATGG AAATGA AAATGA AAATGAG AAATG
1 AAATGG AAATGG AAATGG AAATGG AAATGG AAATG-G AAATG
31458796 ATTCTTTTAC
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
6 28 0.85
7 5 0.15
ACGTcount: A:0.57, C:0.00, G:0.26, T:0.17
Consensus pattern (6 bp):
AAATGG
Found at i:31474737 original size:12 final size:12
Alignment explanation
Indices: 31474720--31474751 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
31474710 ATGTGTCTAC
31474720 ATTTGTATCTGA
1 ATTTGTATCTGA
*
31474732 ATTTGTATCTGC
1 ATTTGTATCTGA
31474744 ATTTGTAT
1 ATTTGTAT
31474752 TTGTATCTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.22, C:0.09, G:0.16, T:0.53
Consensus pattern (12 bp):
ATTTGTATCTGA
Found at i:31474784 original size:30 final size:30
Alignment explanation
Indices: 31474720--31474784 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 30
31474710 ATGTGTCTAC
* * * * *
31474720 ATTTGTATCTGAATTTGTATCTGCATTTGT
1 ATTTGTATCTAAAATTGTATCTACATCTGA
*
31474750 ATTTGTATCTAAAATTGTATCTATATCTGA
1 ATTTGTATCTAAAATTGTATCTACATCTGA
31474780 ATTTG
1 ATTTG
31474785 AAATTGTATC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.26, C:0.09, G:0.14, T:0.51
Consensus pattern (30 bp):
ATTTGTATCTAAAATTGTATCTACATCTGA
Found at i:31487155 original size:42 final size:42
Alignment explanation
Indices: 31487106--31487188 Score: 139
Period size: 42 Copynumber: 2.0 Consensus size: 42
31487096 AAATTCAAAA
* *
31487106 GGATAAGAATAAGAGTTAAAATGTTTGAATTTCAAATGTTTT
1 GGATAAGAACAAGAGTTAAAATGTTTGAATTTCAAACGTTTT
*
31487148 GGATAAGAACAAGAGTTCAAATGTTTGAATTTCAAACGTTT
1 GGATAAGAACAAGAGTTAAAATGTTTGAATTTCAAACGTTT
31487189 CACACATATT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.40, C:0.06, G:0.19, T:0.35
Consensus pattern (42 bp):
GGATAAGAACAAGAGTTAAAATGTTTGAATTTCAAACGTTTT
Found at i:31491132 original size:3 final size:3
Alignment explanation
Indices: 31491117--31491164 Score: 87
Period size: 3 Copynumber: 16.0 Consensus size: 3
31491107 TATCGTTTTC
*
31491117 TTA TTA ATA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
31491165 ACGCATTTAT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:31494812 original size:9 final size:9
Alignment explanation
Indices: 31494800--31494834 Score: 61
Period size: 9 Copynumber: 3.9 Consensus size: 9
31494790 AAAAAGGAAA
31494800 AAGAAAAAG
1 AAGAAAAAG
31494809 AAGAAAAAG
1 AAGAAAAAG
*
31494818 AAGAAGAAG
1 AAGAAAAAG
31494827 AAGAAAAA
1 AAGAAAAA
31494835 AGAGAGGACA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (9 bp):
AAGAAAAAG
Found at i:31494814 original size:15 final size:15
Alignment explanation
Indices: 31494796--31494828 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
31494786 TAAAAAAAAG
31494796 GAAAAAGAAAAAGAA
1 GAAAAAGAAAAAGAA
*
31494811 GAAAAAGAAGAAGAA
1 GAAAAAGAAAAAGAA
31494826 GAA
1 GAA
31494829 GAAAAAAGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (15 bp):
GAAAAAGAAAAAGAA
Found at i:31497497 original size:27 final size:27
Alignment explanation
Indices: 31497466--31497643 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
31497456 TAAATTGTAC
31497466 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
31497493 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
31497519 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
31497547 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
31497575 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
31497602 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
31497629 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
31497644 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:31497580 original size:82 final size:81
Alignment explanation
Indices: 31497467--31497622 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
31497457 AAATTGTACA
* *
31497467 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
31497531 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
31497548 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
31497613 TGCGAGTTGA
65 TGCGAATTGA
31497623 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:31497634 original size:82 final size:81
Alignment explanation
Indices: 31497463--31497643 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
31497453 GATTAAATTG
* *
31497463 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
31497528 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
31497544 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
31497608 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
31497626 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
31497644 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:31515636 original size:34 final size:34
Alignment explanation
Indices: 31515592--31515657 Score: 98
Period size: 34 Copynumber: 1.9 Consensus size: 34
31515582 AAATAATCTC
*
31515592 AGTTTGGGCCTAAGCCC-TTTTCAGTATCAGTATT
1 AGTTTAGGCCTAAGCCCATTTT-AGTATCAGTATT
*
31515626 AGTTTAGGCCTAAGCCCATTTTAGTATGAGTA
1 AGTTTAGGCCTAAGCCCATTTTAGTATCAGTA
31515658 AGCATTAGGG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
34 25 0.86
35 4 0.14
ACGTcount: A:0.24, C:0.18, G:0.21, T:0.36
Consensus pattern (34 bp):
AGTTTAGGCCTAAGCCCATTTTAGTATCAGTATT
Found at i:31515670 original size:34 final size:35
Alignment explanation
Indices: 31515597--31515678 Score: 91
Period size: 34 Copynumber: 2.4 Consensus size: 35
31515587 ATCTCAGTTT
*
31515597 GGGCCTAAGCCC-TTTTCAGTATCAGTATTAGTTTA
1 GGGCCTAAGCCCATTTTCAGTATCAGTA-TAGATTA
*
31515632 -GGCCTAAGCCCATTTT-AGTATGAGTA-AGCATTA
1 GGGCCTAAGCCCATTTTCAGTATCAGTATAG-ATTA
*
31515665 GGGCCTTAGCCCAT
1 GGGCCTAAGCCCAT
31515679 CACAGTACAG
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
32 2 0.05
33 3 0.07
34 32 0.78
35 4 0.10
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.32
Consensus pattern (35 bp):
GGGCCTAAGCCCATTTTCAGTATCAGTATAGATTA
Found at i:31519084 original size:47 final size:47
Alignment explanation
Indices: 31519030--31519440 Score: 624
Period size: 47 Copynumber: 8.6 Consensus size: 47
31519020 TATTTGAATA
31519030 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
31519077 AATGTGAAAGTGTATATATATATGTGATAAGGCCTAATGGCCGACGTGATG
1 AATGTGAAAGTG----TATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
31519128 AATGTGAGAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
31519175 AATGTGAAAGTGTCTATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
31519222 AATGTGAAAGCGTATATATGTGGTAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
31519269 AATGTGAAAGTGTATATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG----TATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
31519320 AATGTGAGAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * *
31519367 AATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
31519414 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
31519441 TCCCGAAGGG
Statistics
Matches: 334, Mismatches: 22, Indels: 16
0.90 0.06 0.04
Matches are distributed among these distances:
47 244 0.73
51 90 0.27
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:31519171 original size:22 final size:22
Alignment explanation
Indices: 31519145--31519220 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
31519135 GAGTGTATAT
31519145 ATGTGATAAGGCCTAATGGCCG
1 ATGTGATAAGGCCTAATGGCCG
* *** * **
31519167 ATGTGATGAATGTGAAAGTGTCTAT
1 ATGTGAT-AAGGCCTAA-TGGC-CG
31519192 ATGTGATAAGGCCTAATGGCCG
1 ATGTGATAAGGCCTAATGGCCG
31519214 ATGTGAT
1 ATGTGAT
31519221 GAATGTGAAA
Statistics
Matches: 37, Mismatches: 14, Indels: 6
0.65 0.25 0.11
Matches are distributed among these distances:
22 14 0.38
23 8 0.22
24 8 0.22
25 7 0.19
ACGTcount: A:0.29, C:0.12, G:0.30, T:0.29
Consensus pattern (22 bp):
ATGTGATAAGGCCTAATGGCCG
Found at i:31519293 original size:145 final size:145
Alignment explanation
Indices: 31519030--31519429 Score: 628
Period size: 145 Copynumber: 2.8 Consensus size: 145
31519020 TATTTGAATA
31519030 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG----TA
*
31519095 TATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAGAGTG----TATATATGTGATAAGG
62 TATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTATATATATATGTGATAAGG
31519156 CCTAATGGCCGATGTGATG
127 CCTAATGGCCGATGTGATG
* *
31519175 AATGTGAAAGTGTCTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGCGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* *
31519240 TGTGGTAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGATAAGGCCTA
66 TGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTATATATATATGTGATAAGGCCTA
31519305 ATGGCCGATGTGATG
131 ATGGCCGATGTGATG
*
31519320 AATGTGAGAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* * * * * *
31519385 TGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA
66 TGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTATA
31519430 AATGTGATAA
Statistics
Matches: 235, Mismatches: 16, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
141 44 0.19
145 191 0.81
ACGTcount: A:0.31, C:0.09, G:0.30, T:0.29
Consensus pattern (145 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
TGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTATATATATATGTGATAAGGCCTA
ATGGCCGATGTGATG
Found at i:31519357 original size:192 final size:192
Alignment explanation
Indices: 31519030--31519440 Score: 714
Period size: 192 Copynumber: 2.1 Consensus size: 192
31519020 TATTTGAATA
31519030 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
31519095 TATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAGAGTGTATATATGTGATAAGGCCTA
66 TATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAGAGTGTATATATGTGATAAGGCCTA
* * * * *
31519160 ATGGCCGATGTGATGAATGTGAAAGTGTCTATATGTGATAAGGCCTAATGGCCGATGTGATG
131 ATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAAGGCCGAATGGCCAACGTGATG
* *
31519222 AATGTGAAAGCGTATATATGTGGTAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
*
31519287 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAGAGTGTATATATGTGATAAGGCCTA
66 TATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAGAGTGTATATATGTGATAAGGCCTA
* *
31519352 ATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATG
131 ATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAAGGCCGAATGGCCAACGTGATG
* *
31519414 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
31519441 TCCCGAAGGG
Statistics
Matches: 205, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
192 205 1.00
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (192 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
TATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAGAGTGTATATATGTGATAAGGCCTA
ATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAAGGCCGAATGGCCAACGTGATG
Found at i:31519615 original size:37 final size:37
Alignment explanation
Indices: 31519559--31519637 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
31519549 CCGAGCTCTA
* *
31519559 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
31519596 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
31519633 AAGAC
1 AAGAC
31519638 TTCATAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:31521551 original size:43 final size:43
Alignment explanation
Indices: 31521503--31521605 Score: 206
Period size: 43 Copynumber: 2.4 Consensus size: 43
31521493 TTGGTTTTCA
31521503 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
31521546 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
31521589 GCACTAAGTGTGCGGGC
1 GCACTAAGTGTGCGGGC
31521606 TTGAAATGCA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.22, C:0.16, G:0.36, T:0.26
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
Found at i:31521625 original size:29 final size:29
Alignment explanation
Indices: 31521590--31521660 Score: 90
Period size: 29 Copynumber: 2.4 Consensus size: 29
31521580 GTGAGATTGG
* *
31521590 CACTAAGTGTGCGGGCTTGAAA-TGCATGA
1 CACTAAGTGTGCGAG-TTGAAAGTACATGA
* *
31521619 CACTAAGTGTGCGAGTTTAAAGTACATGG
1 CACTAAGTGTGCGAGTTGAAAGTACATGA
31521648 CACTAAGTGTGCG
1 CACTAAGTGTGCG
31521661 TGGTTGATTA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
28 5 0.14
29 32 0.86
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.25
Consensus pattern (29 bp):
CACTAAGTGTGCGAGTTGAAAGTACATGA
Found at i:31522030 original size:40 final size:40
Alignment explanation
Indices: 31521973--31522155 Score: 185
Period size: 40 Copynumber: 4.6 Consensus size: 40
31521963 TTGAATGATG
* * * *
31521973 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATA
1 TCCGGACTAAGTTCCGAAGAGCATTCGTGCT-AGTGA-TATA
*
31522013 TCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
31522053 TCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
* *** * *
31522093 TCCGTG-TTAAACCCCGAAGAGCATTCGTGCTGGTGTTATA
1 TCCG-GACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
* *
31522133 TCCAGG-CTAGGTCCCGAAGAGCA
1 TCC-GGACTAAGTTCCGAAGAGCA
31522156 ATCATGCTGG
Statistics
Matches: 123, Mismatches: 16, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
40 107 0.87
41 9 0.07
42 7 0.06
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
Found at i:31525630 original size:47 final size:47
Alignment explanation
Indices: 31525576--31525935 Score: 569
Period size: 47 Copynumber: 7.6 Consensus size: 47
31525566 TATTTGAATA
31525576 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
31525623 AATGTGAAAGTGTATATATATATGTGATAAGGCCTAATGGCCGACGTGATG
1 AATGTGAAAGTG----TATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
31525674 AATGTGAGAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
31525721 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
31525768 AATGTGAAAGCGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
31525815 AATGTGAGAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * *
31525862 AATGTGAAAGTGTATATATGTGA-CAGGGCTGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCT-AATGGCCGATGTGATG
* *
31525909 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
31525936 TCCCGAAGGG
Statistics
Matches: 291, Mismatches: 16, Indels: 11
0.92 0.05 0.03
Matches are distributed among these distances:
46 5 0.02
47 239 0.82
48 2 0.01
51 45 0.15
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:31526110 original size:37 final size:37
Alignment explanation
Indices: 31526054--31526132 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
31526044 CCGAGCTTTA
* *
31526054 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
31526091 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
31526128 AAGAC
1 AAGAC
31526133 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:31527937 original size:20 final size:20
Alignment explanation
Indices: 31527893--31527937 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 20
31527883 TTTGATAAAC
31527893 TCCC-CCCAATCCCTTAACT
1 TCCCTCCCAATCCCTTAACT
*
31527912 T-TCTCCCATATCCC-TAACT
1 TCCCTCCCA-ATCCCTTAACT
31527931 TCCCTCC
1 TCCCTCC
31527938 TAAAAAACCG
Statistics
Matches: 21, Mismatches: 2, Indels: 5
0.75 0.07 0.18
Matches are distributed among these distances:
18 1 0.05
19 11 0.52
20 9 0.43
ACGTcount: A:0.18, C:0.51, G:0.00, T:0.31
Consensus pattern (20 bp):
TCCCTCCCAATCCCTTAACT
Found at i:31530343 original size:42 final size:41
Alignment explanation
Indices: 31530261--31530409 Score: 165
Period size: 42 Copynumber: 3.6 Consensus size: 41
31530251 GTTACTCCGT
* * *
31530261 GGAATCAGCACTTAGCAACCAAC-TTATATTCAATGATACGG
1 GGAATCAGCACTTAGCAACC-CCTTTACAATCAATGATACGG
* * * *
31530302 GGAATCATCACATAGTAACCCCTTTCACAATCAAGGATACGG
1 GGAATCAGCACTTAGCAACCCCTTT-ACAATCAATGATACGG
* * *
31530344 TGGAATCAGCACTTAGCAACCACCTTTAGAATCAATAATTCGG
1 -GGAATCAGCACTTAGCAACC-CCTTTACAATCAATGATACGG
31530387 GGAATCAGCACTTAGCAACCCCT
1 GGAATCAGCACTTAGCAACCCCT
31530410 CGAAGAATCT
Statistics
Matches: 90, Mismatches: 14, Indels: 8
0.80 0.12 0.07
Matches are distributed among these distances:
40 1 0.01
41 22 0.24
42 33 0.37
43 29 0.32
44 5 0.06
ACGTcount: A:0.35, C:0.26, G:0.17, T:0.23
Consensus pattern (41 bp):
GGAATCAGCACTTAGCAACCCCTTTACAATCAATGATACGG
Found at i:31530465 original size:67 final size:68
Alignment explanation
Indices: 31530346--31530476 Score: 194
Period size: 67 Copynumber: 1.9 Consensus size: 68
31530336 GGATACGGTG
31530346 GAATCAGCACTTAGCAACCACCTTTAGAATCAATAATTCGGGGAATCAGCACTTAGCAACCCCTC
1 GAATCAGCACTTAGCAACCACCTTTAGAATCAATAATTCGGGGAATCAGCACTTAGCAACCCCTC
31530411 GAA
66 GAA
* * * * *
31530414 GAATCTGCACTTAGCAACC-CCTTTTTG-ATCAGTGATTCGGGGAATCTGCACTTAGCAACCCCT
1 GAATCAGCACTTAGCAACCACC-TTTAGAATCAATAATTCGGGGAATCAGCACTTAGCAACCCCT
31530477 TTTTGATTAG
Statistics
Matches: 57, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
67 35 0.61
68 22 0.39
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (68 bp):
GAATCAGCACTTAGCAACCACCTTTAGAATCAATAATTCGGGGAATCAGCACTTAGCAACCCCTC
GAA
Found at i:31530471 original size:41 final size:41
Alignment explanation
Indices: 31530414--31530556 Score: 250
Period size: 41 Copynumber: 3.5 Consensus size: 41
31530404 ACCCCTCGAA
31530414 GAATCTGCACTTAGCAACCCCTTTTTGATCAGTGATTCGGG
1 GAATCTGCACTTAGCAACCCCTTTTTGATCAGTGATTCGGG
*
31530455 GAATCTGCACTTAGCAACCCCTTTTTGATTAGTGATTCGGG
1 GAATCTGCACTTAGCAACCCCTTTTTGATCAGTGATTCGGG
* *
31530496 GAATCTCCACTTAGCAAGCCCTTTTTGATCAGTGATTCGGG
1 GAATCTGCACTTAGCAACCCCTTTTTGATCAGTGATTCGGG
*
31530537 AAATCTGCACTTAGCAACCC
1 GAATCTGCACTTAGCAACCC
31530557 TTTACATTCA
Statistics
Matches: 95, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 95 1.00
ACGTcount: A:0.24, C:0.25, G:0.20, T:0.31
Consensus pattern (41 bp):
GAATCTGCACTTAGCAACCCCTTTTTGATCAGTGATTCGGG
Found at i:31531549 original size:11 final size:13
Alignment explanation
Indices: 31531519--31531550 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
31531509 TGCTCAAACG
31531519 TCAAAATTTTCGA
1 TCAAAATTTTCGA
31531532 TCAAAATTTTC-A
1 TCAAAATTTTCGA
31531544 -CAAAATT
1 TCAAAATT
31531551 ATTCTGTGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.37
12 1 0.05
13 11 0.58
ACGTcount: A:0.44, C:0.16, G:0.03, T:0.38
Consensus pattern (13 bp):
TCAAAATTTTCGA
Found at i:31543027 original size:27 final size:27
Alignment explanation
Indices: 31542947--31543172 Score: 262
Period size: 27 Copynumber: 8.5 Consensus size: 27
31542937 GGTATAACAA
*
31542947 TCATTTTACCCTATG-GGGTATTTCGA
1 TCATTTTACCCTATGAGGGTATTTCGG
* *
31542973 TCATTTTA-CCTACG-GGGTATTTTGG
1 TCATTTTACCCTATGAGGGTATTTCGG
* * *
31542998 TCATTTTACCCCATGGGGGTATTTCAG
1 TCATTTTACCCTATGAGGGTATTTCGG
*
31543025 TCATTTTACCCTATGAGGGTACTTCGG
1 TCATTTTACCCTATGAGGGTATTTCGG
*
31543052 TCATTTTACCCTATGAGGGTACTTCGG
1 TCATTTTACCCTATGAGGGTATTTCGG
* *
31543079 TCATTTTATCCTATGAGGGTATCTCGG
1 TCATTTTACCCTATGAGGGTATTTCGG
* * * * *
31543106 TCATTTTATCCTCTG-GGCTATTTTGA
1 TCATTTTACCCTATGAGGGTATTTCGG
* *
31543132 TCATTTTACCCTATAAGAGTATTTCGG
1 TCATTTTACCCTATGAGGGTATTTCGG
*
31543159 TTATTTTACCCTAT
1 TCATTTTACCCTAT
31543173 TTTAGGGTAT
Statistics
Matches: 170, Mismatches: 27, Indels: 5
0.84 0.13 0.02
Matches are distributed among these distances:
25 22 0.13
26 31 0.18
27 117 0.69
ACGTcount: A:0.19, C:0.20, G:0.19, T:0.42
Consensus pattern (27 bp):
TCATTTTACCCTATGAGGGTATTTCGG
Found at i:31543158 original size:107 final size:105
Alignment explanation
Indices: 31542947--31543172 Score: 278
Period size: 107 Copynumber: 2.1 Consensus size: 105
31542937 GGTATAACAA
* * *
31542947 TCATTTTACCCTATGGGGTATTTCGATCATTTTACCTACGGGGTATTTTGGTCATTTTACCCCAT
1 TCATTTTACCCTATGGGGTACTTCGATCATTTTACCTACGGGGTATCTCGGTCATTTTACCCCAT
* * *
31543012 GGGGGTATTTCAGTCATTTTACCCTATGAGGGTACTTCGG
66 GGGGCTATTTCAGTCATTTTACCCTATAAGAGTACTTCGG
* *
31543052 TCATTTTACCCTATGAGGGTACTTCGGTCATTTTATCCTATGAGGGTATCTCGGTCATTTTATCC
1 TCATTTTACCCTATG-GGGTACTTCGATCATTTTA-CCTACG-GGGTATCTCGGTCATTTTA-CC
* * *
31543117 TC-T-GGGCTATTT-TGATCATTTTACCCTATAAGAGTATTTCGG
62 CCATGGGGCTATTTCAG-TCATTTTACCCTATAAGAGTACTTCGG
*
31543159 TTATTTTACCCTAT
1 TCATTTTACCCTAT
31543173 TTTAGGGTAT
Statistics
Matches: 104, Mismatches: 12, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
105 15 0.14
106 18 0.17
107 50 0.48
108 18 0.17
109 3 0.03
ACGTcount: A:0.19, C:0.20, G:0.19, T:0.42
Consensus pattern (105 bp):
TCATTTTACCCTATGGGGTACTTCGATCATTTTACCTACGGGGTATCTCGGTCATTTTACCCCAT
GGGGCTATTTCAGTCATTTTACCCTATAAGAGTACTTCGG
Found at i:31548212 original size:21 final size:21
Alignment explanation
Indices: 31548188--31548237 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
31548178 GCCATTTATT
*
31548188 GCATGAAAAGTATATAATAAA
1 GCATGAAAACTATATAATAAA
*
31548209 GCATGAAAACTATATAATAAT
1 GCATGAAAACTATATAATAAA
31548230 GCAT-AAAA
1 GCATGAAAA
31548238 TCACATTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
20 4 0.15
21 23 0.85
ACGTcount: A:0.56, C:0.08, G:0.12, T:0.24
Consensus pattern (21 bp):
GCATGAAAACTATATAATAAA
Found at i:31558879 original size:27 final size:26
Alignment explanation
Indices: 31558849--31559025 Score: 167
Period size: 27 Copynumber: 6.5 Consensus size: 26
31558839 AAATTGTACA
*
31558849 GCACTAAGTGTGCGATTCGACTATGTT
1 GCACTAAGTGTGCGATT-GACTATGTG
* *
31558876 GCACTAAGTGTGCGAAATGAATATGAT-
1 GCACTAAGTGTGCG-ATTGACTATG-TG
* *
31558903 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCG-ATTGACTATGTG
*
31558930 GCACTAAGTGTGCGAGTCTGACTATGTA
1 GCACTAAGTGTGCGA-T-TGACTATGTG
* *
31558958 GCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGA-TTGACTATGTG
* * *
31558985 GCACTAAGTGTGCGAGTTGAATATATC
1 GCACTAAGTGTGCGA-TTGACTATGTG
*
31559012 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
31559026 GGCTCAATAT
Statistics
Matches: 126, Mismatches: 19, Indels: 10
0.81 0.12 0.06
Matches are distributed among these distances:
26 1 0.01
27 99 0.79
28 26 0.21
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.28
Consensus pattern (26 bp):
GCACTAAGTGTGCGATTGACTATGTG
Found at i:31558964 original size:82 final size:81
Alignment explanation
Indices: 31558849--31559004 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
31558839 AAATTGTACA
* * *
31558849 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACG-TGGCACTAAGTG
31558913 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
31558930 GCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTG
1 GCACTAAGTGTGCGAGTC-GACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTG
*
31558995 TGCGAGTTGA
65 TGCGAATTGA
31559005 ATATATCGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 18 0.27
82 48 0.73
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:31559034 original size:27 final size:27
Alignment explanation
Indices: 31558930--31559036 Score: 70
Period size: 27 Copynumber: 3.9 Consensus size: 27
31558920 TGACCATGCG
* * * *
31558930 GCACTAAGTGTGCGAGTCTGACTATGTA
1 GCACTAAGTGTGCGAG-CTCAATATATC
** * * ** *
31558958 GCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGAGCTCAATATATC
* *
31558985 GCACTAAGTGTGCGAGTTGAATATATC
1 GCACTAAGTGTGCGAGCTCAATATATC
* *
31559012 GCACTGAGTGTGCGGGCTCAATATA
1 GCACTAAGTGTGCGAGCTCAATATA
31559037 CATTCGTGAA
Statistics
Matches: 65, Mismatches: 14, Indels: 1
0.81 0.17 0.01
Matches are distributed among these distances:
27 50 0.77
28 15 0.23
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTCAATATATC
Found at i:31579359 original size:21 final size:21
Alignment explanation
Indices: 31579335--31579384 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
31579325 AGCCATTATT
*
31579335 GCATGAAAAGTATATAATAAA
1 GCATGAAAACTATATAATAAA
*
31579356 GCATGAAAACTATATAATAAT
1 GCATGAAAACTATATAATAAA
31579377 GCAT-AAAA
1 GCATGAAAA
31579385 TCACATTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
20 4 0.15
21 23 0.85
ACGTcount: A:0.56, C:0.08, G:0.12, T:0.24
Consensus pattern (21 bp):
GCATGAAAACTATATAATAAA
Found at i:31590001 original size:27 final size:26
Alignment explanation
Indices: 31589971--31590147 Score: 167
Period size: 27 Copynumber: 6.5 Consensus size: 26
31589961 AAATTGTACA
*
31589971 GCACTAAGTGTGCGATTCGACTATGTT
1 GCACTAAGTGTGCGATT-GACTATGTG
* *
31589998 GCACTAAGTGTGCGAAATGAATATGAT-
1 GCACTAAGTGTGCG-ATTGACTATG-TG
* *
31590025 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCG-ATTGACTATGTG
*
31590052 GCACTAAGTGTGCGAGTCTGACTATGTA
1 GCACTAAGTGTGCGA-T-TGACTATGTG
* *
31590080 GCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGA-TTGACTATGTG
* * *
31590107 GCACTAAGTGTGCGAGTTGAATATATC
1 GCACTAAGTGTGCGA-TTGACTATGTG
*
31590134 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
31590148 GGCTCAATAT
Statistics
Matches: 126, Mismatches: 19, Indels: 10
0.81 0.12 0.06
Matches are distributed among these distances:
26 1 0.01
27 99 0.79
28 26 0.21
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.28
Consensus pattern (26 bp):
GCACTAAGTGTGCGATTGACTATGTG
Done.