Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 301 of 328
Found at i:89702373 original size:32 final size:32
Alignment explanation
Indices: 89702337--89702433 Score: 185
Period size: 32 Copynumber: 3.0 Consensus size: 32
89702327 TGTATGCATT
89702337 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
*
89702369 TTAGCATTTTAATAGTTAATGAATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
89702401 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
89702433 T
1 T
89702434 GATAAGCATT
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 63 1.00
ACGTcount: A:0.32, C:0.06, G:0.24, T:0.38
Consensus pattern (32 bp):
TTAGCATTTTAATAGTTAATGGATGATGGGCA
Found at i:89708849 original size:23 final size:22
Alignment explanation
Indices: 89708814--89708863 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
89708804 CACTTGAAAC
* *
89708814 TTTTAAAAATATAATTTATTTAT
1 TTTTAAAAATAT-ATATATTAAT
* *
89708837 TTTTTAAATTATATATATTAAT
1 TTTTAAAAATATATATATTAAT
89708859 TTTTA
1 TTTTA
89708864 GGAGATGACA
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
22 12 0.55
23 10 0.45
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
TTTTAAAAATATATATATTAAT
Found at i:89712376 original size:10 final size:10
Alignment explanation
Indices: 89712335--89712376 Score: 59
Period size: 10 Copynumber: 4.3 Consensus size: 10
89712325 AAGGTTAGAT
89712335 TTTATTTTTA
1 TTTATTTTTA
*
89712345 TTT-GTTTTA
1 TTTATTTTTA
*
89712354 CTTATTTTTA
1 TTTATTTTTA
89712364 TTTATTTTTA
1 TTTATTTTTA
89712374 TTT
1 TTT
89712377 TTGTGATATG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
9 7 0.26
10 20 0.74
ACGTcount: A:0.17, C:0.02, G:0.02, T:0.79
Consensus pattern (10 bp):
TTTATTTTTA
Found at i:89713585 original size:41 final size:41
Alignment explanation
Indices: 89713522--89713600 Score: 131
Period size: 41 Copynumber: 1.9 Consensus size: 41
89713512 AGATTTTTTT
* * *
89713522 ATTGTTACTTGAGGTTAGTATGCCATTGATTTTGAATCTTG
1 ATTGGTACTTGAGGTTACTATGCCATTGATTCTGAATCTTG
89713563 ATTGGTACTTGAGGTTACTATGCCATTGATTCTGAATC
1 ATTGGTACTTGAGGTTACTATGCCATTGATTCTGAATC
89713601 CGAGTAAATG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.23, C:0.13, G:0.22, T:0.43
Consensus pattern (41 bp):
ATTGGTACTTGAGGTTACTATGCCATTGATTCTGAATCTTG
Found at i:89714905 original size:19 final size:19
Alignment explanation
Indices: 89714879--89714931 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 19
89714869 TTTTAAATTA
89714879 ATTTTAACTTGATTGAAA-
1 ATTTTAACTTGATTGAAAC
**
89714897 ATGTTTAACTCAATTGAAACC
1 AT-TTTAACTTGATTGAAA-C
89714918 ATTTTAACTTGATT
1 ATTTTAACTTGATT
89714932 TTATCATTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
18 2 0.07
19 14 0.50
20 10 0.36
21 2 0.07
ACGTcount: A:0.36, C:0.11, G:0.09, T:0.43
Consensus pattern (19 bp):
ATTTTAACTTGATTGAAAC
Found at i:89730037 original size:19 final size:21
Alignment explanation
Indices: 89730008--89730046 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 21
89729998 AGGCTTTTTT
89730008 ATAATTTATAAAATT-TATTA
1 ATAATTTATAAAATTATATTA
89730028 ATAA-TTATAAAATTATATT
1 ATAATTTATAAAATTATATT
89730047 TTGATATCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
ATAATTTATAAAATTATATTA
Found at i:89731371 original size:32 final size:32
Alignment explanation
Indices: 89731311--89731371 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
89731301 AATTAAATAC
*
89731311 TTTTAAATAATTGATATAAATTATTTTTAAAA
1 TTTTAAATAAATGATATAAATTATTTTTAAAA
89731343 TTTTAAATAAAT-ATCA-AAATTATATTTTA
1 TTTTAAATAAATGAT-ATAAATTAT-TTTTA
89731372 CTAAAGTGTC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
31 9 0.35
32 17 0.65
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.49
Consensus pattern (32 bp):
TTTTAAATAAATGATATAAATTATTTTTAAAA
Found at i:89733361 original size:11 final size:11
Alignment explanation
Indices: 89733345--89733382 Score: 53
Period size: 10 Copynumber: 3.6 Consensus size: 11
89733335 TCATGCTTAT
89733345 AATCATACCAA
1 AATCATACCAA
*
89733356 AATCATGCC-A
1 AATCATACCAA
89733366 AATCATACCAA
1 AATCATACCAA
89733377 AA-CATA
1 AATCATA
89733383 TGATTCATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
10 13 0.54
11 11 0.46
ACGTcount: A:0.53, C:0.26, G:0.03, T:0.18
Consensus pattern (11 bp):
AATCATACCAA
Found at i:89734174 original size:40 final size:39
Alignment explanation
Indices: 89734089--89734185 Score: 106
Period size: 40 Copynumber: 2.4 Consensus size: 39
89734079 CTATCTCGGT
89734089 ATCGCACACTTAGTGCCTTATATAGCCGAAACTATTCTA
1 ATCGCACACTTAGTGCCTTATATAGCCGAAACTATTCTA
* ** *
89734128 ATTCGCACACTTAGTG-CTATTTATAGCCGATGCTATTTTGA
1 A-TCGCACACTTAGTGCCT-TATATAGCCGAAACTATTCT-A
* *
89734169 ATCGCACATTTAATGCC
1 ATCGCACACTTAGTGCC
89734186 GAACATAGTC
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
39 3 0.06
40 42 0.88
41 3 0.06
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.34
Consensus pattern (39 bp):
ATCGCACACTTAGTGCCTTATATAGCCGAAACTATTCTA
Found at i:89736539 original size:30 final size:30
Alignment explanation
Indices: 89736505--89736590 Score: 154
Period size: 30 Copynumber: 2.9 Consensus size: 30
89736495 AAAACCCTAG
89736505 CCACCTTGCCTCCCACTTGCACCTACTCCA
1 CCACCTTGCCTCCCACTTGCACCTACTCCA
89736535 CCACCTTGCCTCCCACTTGCACCTACTCCA
1 CCACCTTGCCTCCCACTTGCACCTACTCCA
* *
89736565 CCACCTTGTCTTCCACTTGCACCTAC
1 CCACCTTGCCTCCCACTTGCACCTAC
89736591 ACCATCAAAT
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 54 1.00
ACGTcount: A:0.16, C:0.51, G:0.07, T:0.26
Consensus pattern (30 bp):
CCACCTTGCCTCCCACTTGCACCTACTCCA
Found at i:89737149 original size:20 final size:20
Alignment explanation
Indices: 89737120--89737173 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 20
89737110 CTATTATTTA
*
89737120 TATTATTATTATATTTCTCAT
1 TATTA-TATTATATTTATCAT
* *
89737141 GTA-TATATTTTATTTATTAT
1 -TATTATATTATATTTATCAT
89737161 TATTATATTATAT
1 TATTATATTATAT
89737174 ATACCCTCTC
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
19 2 0.07
20 21 0.78
21 2 0.07
22 2 0.07
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (20 bp):
TATTATATTATATTTATCAT
Found at i:89737270 original size:20 final size:20
Alignment explanation
Indices: 89737245--89737293 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
89737235 TTCTGACTAC
89737245 TATTATTATATATA-TATAT
1 TATTATTATATATATTATAT
* * *
89737264 GTATTATTGTTTGTATTATAT
1 -TATTATTATATATATTATAT
89737285 TATTATTAT
1 TATTATTAT
89737294 TATCACCCTA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
20 19 0.79
21 5 0.21
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (20 bp):
TATTATTATATATATTATAT
Found at i:89737499 original size:9 final size:10
Alignment explanation
Indices: 89737494--89737580 Score: 51
Period size: 9 Copynumber: 8.9 Consensus size: 10
89737484 CTATATTTAT
89737494 TATATTATTA
1 TATATTATTA
89737504 T-TATTATTA
1 TATATTATTA
89737513 T-TATTATTA
1 TATATTATTA
* *
89737522 TATAGTAGTGTG
1 TATATTA-T-TA
*
89737534 TATTTCTATTA
1 TATAT-TATTA
*
89737545 TATA-CATATA
1 TATATTAT-TA
89737555 TATATT-TTA
1 TATATTATTA
*
89737564 TATA-TAGTA
1 TATATTATTA
89737573 T-TATTATT
1 TATATTATT
89737581 TACTTTACTT
Statistics
Matches: 59, Mismatches: 10, Indels: 17
0.69 0.12 0.20
Matches are distributed among these distances:
8 3 0.05
9 32 0.54
10 12 0.20
11 5 0.08
12 5 0.08
13 2 0.03
ACGTcount: A:0.34, C:0.02, G:0.06, T:0.57
Consensus pattern (10 bp):
TATATTATTA
Found at i:89737502 original size:3 final size:3
Alignment explanation
Indices: 89737490--89737522 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
89737480 ATTTCTATAT
89737490 TTA TTA -TA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
89737523 ATAGTAGTGT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 27 0.93
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:89738532 original size:131 final size:131
Alignment explanation
Indices: 89738311--89738575 Score: 489
Period size: 131 Copynumber: 2.0 Consensus size: 131
89738301 ATCAAAATGG
89738311 TGGCGACTCCTCTATTTTCATTTCCAAAAATCTAAGTCGATTCCCGTTTTTTCAAAAAAAAAAAT
1 TGGCGACTCCTCTA-TTTCATTTCCAAAAATCTAAGTCGATTCCCGTTTTTTCAAAAAAAAAAAT
89738376 GGTTACGACAACTTGCATACTCTGAAAGGAGCCAGATGGTCTAAACAAAAAGGAATGAAATCATG
65 GGTTACGACAACTTGCATACTCTGAAAGGAGCCAGAT-GTCTAAACAAAAAGGAATGAAATCAT-
89738441 GCGT
128 GCGT
89738445 TGGCGACTCCTCTA-TTCATTTCCAAAAATCTAAGTCGATTCCCGTTTTTTC-AAAAAAAAAATG
1 TGGCGACTCCTCTATTTCATTTCCAAAAATCTAAGTCGATTCCCGTTTTTTCAAAAAAAAAAATG
89738508 GTTACGACAACTTGCATACTCTGAAAGGAGCCAGATGTCTAAACAAAAAGGAATGAAATCATGCG
66 GTTACGACAACTTGCATACTCTGAAAGGAGCCAGATGTCTAAACAAAAAGGAATGAAATCATGCG
89738573 T
131 T
89738574 TG
1 TG
89738576 CCTTCAATGA
Statistics
Matches: 131, Mismatches: 0, Indels: 5
0.96 0.00 0.04
Matches are distributed among these distances:
129 6 0.05
130 26 0.20
131 48 0.37
132 37 0.28
134 14 0.11
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.28
Consensus pattern (131 bp):
TGGCGACTCCTCTATTTCATTTCCAAAAATCTAAGTCGATTCCCGTTTTTTCAAAAAAAAAAATG
GTTACGACAACTTGCATACTCTGAAAGGAGCCAGATGTCTAAACAAAAAGGAATGAAATCATGCG
T
Found at i:89752090 original size:31 final size:32
Alignment explanation
Indices: 89752055--89752125 Score: 76
Period size: 31 Copynumber: 2.3 Consensus size: 32
89752045 ATGATGCTAG
* *
89752055 AGATATTTTGATATTTTA-TAAT-TATTTAATT
1 AGATATTTTGATATTTAATTAATAT-TTTAATA
* *
89752086 AGATA-TATGTTATTTAATTAATATTTTAATA
1 AGATATTTTGATATTTAATTAATATTTTAATA
89752117 AGATATTTT
1 AGATATTTT
89752126 ATTATTATTT
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
30 9 0.28
31 20 0.62
32 3 0.09
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (32 bp):
AGATATTTTGATATTTAATTAATATTTTAATA
Found at i:89754354 original size:29 final size:29
Alignment explanation
Indices: 89754306--89754370 Score: 94
Period size: 29 Copynumber: 2.2 Consensus size: 29
89754296 GTTGAAAGAT
* *
89754306 ACCATGGCAACCTGATATGAAATGAATAAG
1 ACCAT-GCAACCTGACATGAAAAGAATAAG
*
89754336 ACCATGCAACGTGACATGAAAAGAATAAG
1 ACCATGCAACCTGACATGAAAAGAATAAG
89754365 ACCATG
1 ACCATG
89754371 GTTGAAAGAT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
29 27 0.84
30 5 0.16
ACGTcount: A:0.45, C:0.18, G:0.20, T:0.17
Consensus pattern (29 bp):
ACCATGCAACCTGACATGAAAAGAATAAG
Found at i:89754397 original size:46 final size:46
Alignment explanation
Indices: 89754336--89754458 Score: 135
Period size: 46 Copynumber: 2.7 Consensus size: 46
89754326 AATGAATAAG
* * *
89754336 ACCAT-GCAACGTGACATGAAAA-GAATAAGACCATGGTTGAAAGAT
1 ACCATGGCAACATGACA-GAAAATGAATAAGACCATAGTTGAAAGAC
*
89754381 ACCATGGCAACATGACAGAAAATGAGTAAGACCATAGTTGAAAGAC
1 ACCATGGCAACATGACAGAAAATGAATAAGACCATAGTTGAAAGAC
* * * * *
89754427 ACTATGGCATCATGTCA-AAGATAAATAAGACC
1 ACCATGGCAACATGACAGAAAATGAATAAGACC
89754459 GTAGATGGGA
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
45 22 0.33
46 44 0.67
ACGTcount: A:0.45, C:0.17, G:0.20, T:0.18
Consensus pattern (46 bp):
ACCATGGCAACATGACAGAAAATGAATAAGACCATAGTTGAAAGAC
Found at i:89754742 original size:16 final size:17
Alignment explanation
Indices: 89754721--89754753 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
89754711 ATGATGGAGC
89754721 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
89754737 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
89754754 TACTTATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:89767018 original size:15 final size:16
Alignment explanation
Indices: 89766998--89767027 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
89766988 TGTAAAGGAC
89766998 TTTTTA-TTATTTTTG
1 TTTTTATTTATTTTTG
89767013 TTTTTATTTATTTTT
1 TTTTTATTTATTTTT
89767028 CTGTTTTTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.13, C:0.00, G:0.03, T:0.83
Consensus pattern (16 bp):
TTTTTATTTATTTTTG
Found at i:89767024 original size:19 final size:18
Alignment explanation
Indices: 89766998--89767035 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
89766988 TGTAAAGGAC
89766998 TTTTTA-TTA-TTTT-TG
1 TTTTTATTTATTTTTCTG
89767013 TTTTTATTTATTTTTCTG
1 TTTTTATTTATTTTTCTG
89767031 TTTTT
1 TTTTT
89767036 TCTAGGCTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 6 0.30
16 3 0.15
17 4 0.20
18 7 0.35
ACGTcount: A:0.11, C:0.03, G:0.05, T:0.82
Consensus pattern (18 bp):
TTTTTATTTATTTTTCTG
Found at i:89775429 original size:42 final size:42
Alignment explanation
Indices: 89775382--89775464 Score: 121
Period size: 42 Copynumber: 2.0 Consensus size: 42
89775372 TTATAAATGA
* *
89775382 AATTAATAAACTAAGCAAACATAAATTAATAGTCAAACATCC
1 AATTAATAAACTAAACAAACATAAATAAATAGTCAAACATCC
***
89775424 AATTAATAAACTAAACCCGCATAAATAAATAGTCAAACATC
1 AATTAATAAACTAAACAAACATAAATAAATAGTCAAACATC
89775465 ATAAAACATA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.54, C:0.18, G:0.05, T:0.23
Consensus pattern (42 bp):
AATTAATAAACTAAACAAACATAAATAAATAGTCAAACATCC
Found at i:89775795 original size:21 final size:21
Alignment explanation
Indices: 89775771--89775811 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
89775761 ACTTAAATTG
89775771 TCAA-TTGCACTACATAATTTA
1 TCAATTTG-ACTACATAATTTA
*
89775792 TCAATTTGACTAGATAATTT
1 TCAATTTGACTACATAATTT
89775812 TGCAACTCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.37, C:0.15, G:0.07, T:0.41
Consensus pattern (21 bp):
TCAATTTGACTACATAATTTA
Found at i:89783759 original size:46 final size:45
Alignment explanation
Indices: 89783699--89783963 Score: 310
Period size: 46 Copynumber: 5.9 Consensus size: 45
89783689 TTTGACATGA
* * * * *
89783699 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCTATCACGT
**
89783745 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTC-TATCACGT
**
89783791 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTC-TATCACGT
* * *
89783837 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCTATCACGT
*
89783883 TGCCATGGTATCTTTCAACCATGGTCTTA--CA---C--TCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCTATCACGT
*
89783921 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTC-TATCA
89783964 GAGAGCACAC
Statistics
Matches: 196, Mismatches: 13, Indels: 20
0.86 0.06 0.09
Matches are distributed among these distances:
38 35 0.18
40 2 0.01
43 1 0.01
44 2 0.01
45 4 0.02
46 149 0.76
47 3 0.02
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.40
Consensus pattern (45 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCTATCACGT
Found at i:89783928 original size:38 final size:38
Alignment explanation
Indices: 89783877--89783952 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
89783867 ACATTTTATA
89783877 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
1 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
89783915 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
1 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
89783953 ATTTCATATC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.21, C:0.26, G:0.18, T:0.34
Consensus pattern (38 bp):
TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
Found at i:89786118 original size:11 final size:11
Alignment explanation
Indices: 89786102--89786153 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
89786092 TATACTAAAT
89786102 AAATAATAATA
1 AAATAATAATA
*
89786113 AAATAAT-ATT
1 AAATAATAATA
* *
89786123 AAATATCTCATA
1 AAATA-ATAATA
*
89786135 AAATATTAATA
1 AAATAATAATA
89786146 AAATAATA
1 AAATAATA
89786154 TTTATCTAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
10 7 0.21
11 19 0.58
12 7 0.21
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (11 bp):
AAATAATAATA
Found at i:89788667 original size:27 final size:27
Alignment explanation
Indices: 89788529--89788667 Score: 201
Period size: 27 Copynumber: 5.2 Consensus size: 27
89788519 CAATTTGTAA
* *
89788529 AATTACCATTTTA-CCTCGATTTATAG
1 AATTACCGTTTTACCCTCGATTTACAG
89788555 AATTACC-TTTTACCCTCGATTTACAG
1 AATTACCGTTTTACCCTCGATTTACAG
*
89788581 AATTATCGTTTTACCCTCGATTTACAG
1 AATTACCGTTTTACCCTCGATTTACAG
*
89788608 AATTATCGTTTTACCCTCGATTTACAG
1 AATTACCGTTTTACCCTCGATTTACAG
* * *
89788635 AATTACCGTTTTACCATTGATTTACAA
1 AATTACCGTTTTACCCTCGATTTACAG
89788662 AATTAC
1 AATTAC
89788668 TGAAATACCC
Statistics
Matches: 105, Mismatches: 6, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
25 5 0.05
26 25 0.24
27 75 0.71
ACGTcount: A:0.29, C:0.22, G:0.09, T:0.40
Consensus pattern (27 bp):
AATTACCGTTTTACCCTCGATTTACAG
Found at i:89788785 original size:27 final size:27
Alignment explanation
Indices: 89788655--89788868 Score: 200
Period size: 27 Copynumber: 8.0 Consensus size: 27
89788645 TTACCATTGA
* ** *
89788655 TTTACAAAATTACTGAAATACCCTTGG
1 TTTATAAAATTACCAAAATACCCCTGG
* *
89788682 TTTAAAAAATTACCAAAATA-CCCTCG
1 TTTATAAAATTACCAAAATACCCCTGG
* *
89788708 ATTAGTAAAATTACCAAAATACCCCTAG
1 TTTA-TAAAATTACCAAAATACCCCTGG
* *
89788736 TTTGTAAAATTACTAAAATACCCCTGG
1 TTTATAAAATTACCAAAATACCCCTGG
*
89788763 TTTATAAAATTACCAAAATACCCCTAG
1 TTTATAAAATTACCAAAATACCCCTGG
* * *
89788790 CTTGTAAAATTACCAAAATACCCCTGA
1 TTTATAAAATTACCAAAATACCCCTGG
* * * * *
89788817 TTTGTGAAATTATCAAAATA-CTCTCGA
1 TTTATAAAATTACCAAAATACCCCT-GG
* *
89788844 TTTGTAAAA-TATCAAAATACCCCTG
1 TTTATAAAATTACCAAAATACCCCTG
89788869 TAGGGTAGAA
Statistics
Matches: 158, Mismatches: 25, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
26 21 0.13
27 130 0.82
28 7 0.04
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (27 bp):
TTTATAAAATTACCAAAATACCCCTGG
Found at i:89788812 original size:81 final size:82
Alignment explanation
Indices: 89788660--89788867 Score: 257
Period size: 81 Copynumber: 2.6 Consensus size: 82
89788650 ATTGATTTAC
* * * *
89788660 AAAATTACTGAAATACCCTTGGTTTAAAAAATTACCAAAATA-CCCTCGATTAGTAAAATTACCA
1 AAAATTACTAAAATACCCCTGGTTTATAAAATTACCAAAATACCCCTAGATTAGTAAAATTACCA
89788724 AAATACCCCT-AGTTTGT
66 AAATACCCCTGA-TTTGT
*
89788741 AAAATTACTAAAATACCCCTGGTTTATAAAATTACCAAAATACCCCTAGCTT-GTAAAATTACCA
1 AAAATTACTAAAATACCCCTGGTTTATAAAATTACCAAAATACCCCTAGATTAGTAAAATTACCA
89788805 AAATACCCCTGATTTGT
66 AAATACCCCTGATTTGT
* * * * *
89788822 GAAATTA-TCAAAATA-CTCTCGATTTGTAAAA-TATCAAAATACCCCT
1 AAAATTACT-AAAATACCCCT-GGTTTATAAAATTACCAAAATACCCCT
89788868 GTAGGGTAGA
Statistics
Matches: 113, Mismatches: 10, Indels: 9
0.86 0.08 0.07
Matches are distributed among these distances:
80 18 0.16
81 87 0.77
82 8 0.07
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.30
Consensus pattern (82 bp):
AAAATTACTAAAATACCCCTGGTTTATAAAATTACCAAAATACCCCTAGATTAGTAAAATTACCA
AAATACCCCTGATTTGT
Found at i:89788942 original size:80 final size:81
Alignment explanation
Indices: 89788858--89789044 Score: 252
Period size: 80 Copynumber: 2.3 Consensus size: 81
89788848 TAAAATATCA
* * *
89788858 AAATACCCCTGTAGGGTAGAATTACTGATATAACCC-TGTAAGGTAGAATTACCGAAATACCCCT
1 AAATACCCCTGTAGGGTAGAATTACCGAAAT-ACCCTTGTAAGGTAGAAATACCGAAATACCCCT
* *
89788922 GTAGGG-AGAATTACTG
65 ATAGGGTAGAATTACCG
* *
89788938 AAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAAATATCGAAATACCCCTA
1 AAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAAGGTAGAAATACCGAAATACCCCTA
89789003 TAGGGTAGAATTACCG
66 TAGGGTAGAATTACCG
* * * *
89789019 AGATACCCTTGTGGGGTAAAATTACC
1 AAATACCCCTGTAGGGTAGAATTACC
89789045 ATTTTGCCCC
Statistics
Matches: 94, Mismatches: 11, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
79 4 0.04
80 59 0.63
81 31 0.33
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (81 bp):
AAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAAGGTAGAAATACCGAAATACCCCTA
TAGGGTAGAATTACCG
Found at i:89789044 original size:27 final size:27
Alignment explanation
Indices: 89788858--89789044 Score: 250
Period size: 27 Copynumber: 7.0 Consensus size: 27
89788848 TAAAATATCA
*
89788858 AAATACCCCTGTAGGGTAGAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACCG
* * *
89788885 ATATAACCCTGTAAGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
*
89788912 AAATACCCCTGTAGGG-AGAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACCG
89788938 AAATACCCCTGTAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* * *
89788965 AAATACCCTTGTAGGGTAGAAATATCG
1 AAATACCCCTGTAGGGTAGAATTACCG
*
89788992 AAATACCCCTATAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* * * *
89789019 AGATACCCTTGTGGGGTAAAATTACC
1 AAATACCCCTGTAGGGTAGAATTACC
89789045 ATTTTGCCCC
Statistics
Matches: 138, Mismatches: 21, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
26 25 0.18
27 113 0.82
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (27 bp):
AAATACCCCTGTAGGGTAGAATTACCG
Found at i:89789284 original size:25 final size:25
Alignment explanation
Indices: 89789246--89789340 Score: 136
Period size: 25 Copynumber: 3.8 Consensus size: 25
89789236 AAGAAGTGCT
* *
89789246 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTAACG
*
89789271 AAAAGGGCTTTGCCCCAATTTAACG
1 AAAAGGGCTTTGCCCCAGTTTAACG
* * *
89789296 AAAAAGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTAACG
89789321 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
89789341 ATTAAAAGAG
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 62 1.00
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTAACG
Found at i:89789353 original size:24 final size:23
Alignment explanation
Indices: 89789246--89789367 Score: 91
Period size: 25 Copynumber: 5.0 Consensus size: 23
89789236 AAGAAGTGCT
* * *
89789246 AAAAGGGCTATGCCCCAGTTTACC
1 AAAAAGGCTTTGCCCCAG-TTATC
* * *
89789270 GAAAAGGGCTTTGCCCCAATTTAAC
1 -AAAAAGGCTTTGCCCC-AGTTATC
89789295 GAAAAAGGCTTTGCCCCAGTTTATC
1 -AAAAAGGCTTTGCCCCAG-TTATC
*
89789320 AAAAAGGGCTTTGCCCCAGTTATT
1 AAAAA-GGCTTTGCCCCAGTTATC
**
89789344 AAAAGAGGCTAGGCCTCCAGTTAT
1 AAAA-AGGCTTTGCC-CCAGTTAT
89789368 ATGATAAAGC
Statistics
Matches: 83, Mismatches: 9, Indels: 10
0.81 0.09 0.10
Matches are distributed among these distances:
24 21 0.25
25 61 0.73
26 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.21, T:0.25
Consensus pattern (23 bp):
AAAAAGGCTTTGCCCCAGTTATC
Found at i:89789364 original size:50 final size:48
Alignment explanation
Indices: 89789245--89789365 Score: 136
Period size: 50 Copynumber: 2.5 Consensus size: 48
89789235 GAAGAAGTGC
*
89789245 TAAAAG-GGCTATGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAATTT
1 TAAAAGAGGCTATGCCCCAGTTTACCAAAAAGGGCTTTGCCCCAATTT
* * * * *
89789292 AACGAAAAAGGCTTTGCCCCAGTTTATCAAAAAGGGCTTTGCCCCAGTTAT
1 TA--AAAGAGGCTATGCCCCAGTTTACCAAAAAGGGCTTTGCCCCAATT-T
*
89789343 TAAAAGAGGCTAGGCCTCCAGTT
1 TAAAAGAGGCTATGCC-CCAGTT
89789366 ATATGATAAA
Statistics
Matches: 59, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
47 1 0.02
49 14 0.24
50 42 0.71
51 2 0.03
ACGTcount: A:0.30, C:0.24, G:0.21, T:0.25
Consensus pattern (48 bp):
TAAAAGAGGCTATGCCCCAGTTTACCAAAAAGGGCTTTGCCCCAATTT
Found at i:89798004 original size:26 final size:26
Alignment explanation
Indices: 89797973--89798026 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
89797963 AGTTGTTTAA
*
89797973 CATGCCAGCAAGTAAAGGCAAAACAT
1 CATGCCAACAAGTAAAGGCAAAACAT
* * *
89797999 CATGCCAATAAGTGAAGGCAGAACAT
1 CATGCCAACAAGTAAAGGCAAAACAT
89798025 CA
1 CA
89798027 AGTTCCCATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.44, C:0.22, G:0.20, T:0.13
Consensus pattern (26 bp):
CATGCCAACAAGTAAAGGCAAAACAT
Found at i:89804313 original size:29 final size:29
Alignment explanation
Indices: 89804278--89804351 Score: 139
Period size: 30 Copynumber: 2.5 Consensus size: 29
89804268 ACTTTTCCCT
89804278 CAAAACTTTTACTCCTTCCCACTTTCTCC
1 CAAAACTTTTACTCCTTCCCACTTTCTCC
89804307 CAAAACTTTTTACTCCTTCCCACTTTCTCC
1 CAAAAC-TTTTACTCCTTCCCACTTTCTCC
89804337 CAAAACTTTTACTCC
1 CAAAACTTTTACTCC
89804352 CCTTCCATCC
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
29 15 0.34
30 29 0.66
ACGTcount: A:0.23, C:0.39, G:0.00, T:0.38
Consensus pattern (29 bp):
CAAAACTTTTACTCCTTCCCACTTTCTCC
Found at i:89804943 original size:34 final size:33
Alignment explanation
Indices: 89804884--89804947 Score: 78
Period size: 34 Copynumber: 1.9 Consensus size: 33
89804874 GGTATTAATT
89804884 TCACATTTTATCTTTAAAATAATTTTATTAAAAA
1 TCACATTTTATCTTTAAAATAATTTT-TTAAAAA
*
89804918 TCACATTTT-TACATTTAATAT-ATTTTTTAA
1 TCACATTTTAT-C-TTTAAAATAATTTTTTAA
89804948 TTCCAAAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
33 5 0.19
34 15 0.56
35 7 0.26
ACGTcount: A:0.39, C:0.09, G:0.00, T:0.52
Consensus pattern (33 bp):
TCACATTTTATCTTTAAAATAATTTTTTAAAAA
Found at i:89810777 original size:24 final size:24
Alignment explanation
Indices: 89810750--89810796 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
89810740 GGTCTTTAAC
89810750 ATTTAATTTACTAACTGAGTCACG
1 ATTTAATTTACTAACTGAGTCACG
89810774 ATTTAATTTACTAACTGAGTCAC
1 ATTTAATTTACTAACTGAGTCAC
89810797 TGAACACAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.34, C:0.17, G:0.11, T:0.38
Consensus pattern (24 bp):
ATTTAATTTACTAACTGAGTCACG
Found at i:89820440 original size:13 final size:13
Alignment explanation
Indices: 89820422--89820446 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
89820412 TCCAAGTTTC
89820422 TTTTTCTTTTTTT
1 TTTTTCTTTTTTT
89820435 TTTTTCTTTTTT
1 TTTTTCTTTTTT
89820447 GATCCATATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (13 bp):
TTTTTCTTTTTTT
Found at i:89828560 original size:24 final size:23
Alignment explanation
Indices: 89828528--89828575 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 23
89828518 GAATCATTGA
89828528 ATGATGACGTGGTAGATTATATG
1 ATGATGACGTGGTAGATTATATG
*
89828551 ATGATTGACGTGGTAGTTTATATG
1 ATGA-TGACGTGGTAGATTATATG
89828575 A
1 A
89828576 AAAATTGATG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 4 0.17
24 19 0.83
ACGTcount: A:0.29, C:0.04, G:0.29, T:0.38
Consensus pattern (23 bp):
ATGATGACGTGGTAGATTATATG
Found at i:89828729 original size:12 final size:12
Alignment explanation
Indices: 89828697--89828740 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 12
89828687 GATAGATAAT
89828697 TTATAAAAAAAA
1 TTATAAAAAAAA
* *
89828709 CTAT-TAAAAAA
1 TTATAAAAAAAA
*
89828720 TTATAAAAAAAT
1 TTATAAAAAAAA
89828732 TTATAAAAA
1 TTATAAAAA
89828741 TGAATTAAGA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
11 9 0.35
12 17 0.65
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (12 bp):
TTATAAAAAAAA
Found at i:89828740 original size:23 final size:23
Alignment explanation
Indices: 89828697--89828740 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
89828687 GATAGATAAT
*
89828697 TTATAAAAAAAACTATTAAAAAA
1 TTATAAAAAAAACTATAAAAAAA
**
89828720 TTATAAAAAAATTTATAAAAA
1 TTATAAAAAAAACTATAAAAA
89828741 TGAATTAAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (23 bp):
TTATAAAAAAAACTATAAAAAAA
Found at i:89828741 original size:10 final size:11
Alignment explanation
Indices: 89828697--89828740 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
89828687 GATAGATAAT
89828697 TTATAAAAAAAA
1 TTAT-AAAAAAA
* *
89828709 CTATTAAAAAA
1 TTATAAAAAAA
89828720 TTATAAAAAAA
1 TTATAAAAAAA
89828731 TTTATAAAAA
1 -TTATAAAAA
89828741 TGAATTAAGA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
11 15 0.56
12 12 0.44
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (11 bp):
TTATAAAAAAA
Found at i:89834262 original size:22 final size:22
Alignment explanation
Indices: 89834237--89834281 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
89834227 TAAACACACA
* *
89834237 AACATACCAAAGTAAAGAAAAT
1 AACAAACCAAAGCAAAGAAAAT
* *
89834259 AACAAATCAAAGCAAATAAAAT
1 AACAAACCAAAGCAAAGAAAAT
89834281 A
1 A
89834282 GAAATTTCTA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.67, C:0.13, G:0.07, T:0.13
Consensus pattern (22 bp):
AACAAACCAAAGCAAAGAAAAT
Found at i:89836466 original size:9 final size:9
Alignment explanation
Indices: 89836452--89836481 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
89836442 GATCGAGTAA
89836452 AATTAAATT
1 AATTAAATT
89836461 AATTAAATT
1 AATTAAATT
89836470 AATTTAAATT
1 AA-TTAAATT
89836480 AA
1 AA
89836482 AATAATATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 11 0.55
10 9 0.45
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (9 bp):
AATTAAATT
Found at i:89836976 original size:62 final size:59
Alignment explanation
Indices: 89836897--89837030 Score: 189
Period size: 62 Copynumber: 2.2 Consensus size: 59
89836887 TCCAAAAATG
* * *
89836897 ATATTATTTTAGT-AGATTTAATATTAAATTTAATTTAATATTTATCTTGTAGATAAATATT
1 ATATTAATTTAATAAGATTTAATATTAAATTTAATCTAATATTTATC-T-T-GATAAATATT
* *
89836958 CTATTAGTTTAATAAGATTTAATATTAAATTTAATCTAATATTTATCTTGATAAATATT
1 ATATTAATTTAATAAGATTTAATATTAAATTTAATCTAATATTTATCTTGATAAATATT
89837017 ATATTAATTTAATA
1 ATATTAATTTAATA
89837031 TTGAAATAAT
Statistics
Matches: 66, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
59 22 0.33
60 1 0.02
61 11 0.17
62 32 0.48
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (59 bp):
ATATTAATTTAATAAGATTTAATATTAAATTTAATCTAATATTTATCTTGATAAATATT
Found at i:89840822 original size:43 final size:43
Alignment explanation
Indices: 89840774--89840900 Score: 157
Period size: 43 Copynumber: 2.9 Consensus size: 43
89840764 TTCCGATATA
* *
89840774 TGATTTCGTGTAAGACCATGTCTGGGACGTTGACATCAATTTG
1 TGATTTCGTGTAAGACCTTGTCTGGGACATTGACATCAATTTG
* * *
89840817 TGATTTCGTGTAAGA-CTTCGTTTGGGACATTGGCATCGATTTG
1 TGATTTCGTGTAAGACCTT-GTCTGGGACATTGACATCAATTTG
* * *
89840860 TGATTTACGTGTAAGACCTTGTCTAGGACAGTGGCATCAAT
1 TGATTT-CGTGTAAGACCTTGTCTGGGACATTGACATCAAT
89840901 AGTTGATTAC
Statistics
Matches: 72, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
42 2 0.03
43 41 0.57
44 26 0.36
45 3 0.04
ACGTcount: A:0.23, C:0.16, G:0.26, T:0.35
Consensus pattern (43 bp):
TGATTTCGTGTAAGACCTTGTCTGGGACATTGACATCAATTTG
Found at i:89840889 original size:44 final size:42
Alignment explanation
Indices: 89840774--89840939 Score: 154
Period size: 43 Copynumber: 3.9 Consensus size: 42
89840764 TTCCGATATA
* * *
89840774 TGATTTCGTGTAAGACCATGTCTGGGACGTTGACATCAATTTG
1 TGATTTCGTGTAAGACCATGTCTAGGACATTGGCATC-ATTTG
* * *
89840817 TGATTTCGTGTAAGA-CTTCGTTTGGGACATTGGCATCGATTTG
1 TGATTTCGTGTAAGACCAT-GTCTAGGACATTGGCATC-ATTTG
* * * *
89840860 TGATTTACGTGTAAGACCTTGTCTAGGACAGTGGCATCAATAG
1 TGATTT-CGTGTAAGACCATGTCTAGGACATTGGCATCATTTG
* * * *
89840903 TTGATTACATGTAAGACCACGTCTAAGACATTGGCAT
1 -TGATTTCGTGTAAGACCATGTCTAGGACATTGGCAT
89840940 TGTACGAGCT
Statistics
Matches: 103, Mismatches: 16, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
42 2 0.02
43 69 0.67
44 29 0.28
45 3 0.03
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.34
Consensus pattern (42 bp):
TGATTTCGTGTAAGACCATGTCTAGGACATTGGCATCATTTG
Found at i:89846801 original size:20 final size:21
Alignment explanation
Indices: 89846776--89846816 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
89846766 ATGAGCTTTT
*
89846776 TCTT-AAATGATAAAAAAAAA
1 TCTTAAAATAATAAAAAAAAA
89846796 TCTTAAAATAATAAAAAAAAA
1 TCTTAAAATAATAAAAAAAAA
89846817 GAAGCGCCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.68, C:0.05, G:0.02, T:0.24
Consensus pattern (21 bp):
TCTTAAAATAATAAAAAAAAA
Found at i:89847716 original size:7 final size:7
Alignment explanation
Indices: 89847704--89847742 Score: 78
Period size: 7 Copynumber: 5.6 Consensus size: 7
89847694 TTTTAAAATT
89847704 TTAAAAA
1 TTAAAAA
89847711 TTAAAAA
1 TTAAAAA
89847718 TTAAAAA
1 TTAAAAA
89847725 TTAAAAA
1 TTAAAAA
89847732 TTAAAAA
1 TTAAAAA
89847739 TTAA
1 TTAA
89847743 TAAAAAAATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (7 bp):
TTAAAAA
Found at i:89848995 original size:15 final size:13
Alignment explanation
Indices: 89848966--89848991 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
89848956 TGATAAACCA
89848966 TTAAAAAATTAAT
1 TTAAAAAATTAAT
89848979 TTAAAAAATTAAT
1 TTAAAAAATTAAT
89848992 ATTTTCAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
TTAAAAAATTAAT
Found at i:89851358 original size:6 final size:6
Alignment explanation
Indices: 89851347--89851371 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
89851337 CACCCAAGCC
89851347 ATCCAA ATCCAA ATCCAA ATCCAA A
1 ATCCAA ATCCAA ATCCAA ATCCAA A
89851372 CACAAGATAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.52, C:0.32, G:0.00, T:0.16
Consensus pattern (6 bp):
ATCCAA
Found at i:89854025 original size:5 final size:5
Alignment explanation
Indices: 89854005--89854037 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
89853995 TGAAGGAATT
89854005 AAAAG ACAAA- AAAAG AAAAG AAAAG AAAAG AAA
1 AAAAG A-AAAG AAAAG AAAAG AAAAG AAAAG AAA
89854038 CAGGTTTTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
4 3 0.12
5 20 0.77
6 3 0.12
ACGTcount: A:0.82, C:0.03, G:0.15, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:89854080 original size:7 final size:7
Alignment explanation
Indices: 89854068--89854102 Score: 70
Period size: 7 Copynumber: 5.0 Consensus size: 7
89854058 AATGAGACCG
89854068 GTTCCAA
1 GTTCCAA
89854075 GTTCCAA
1 GTTCCAA
89854082 GTTCCAA
1 GTTCCAA
89854089 GTTCCAA
1 GTTCCAA
89854096 GTTCCAA
1 GTTCCAA
89854103 TTTCTAACCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.29, C:0.29, G:0.14, T:0.29
Consensus pattern (7 bp):
GTTCCAA
Found at i:89855157 original size:20 final size:20
Alignment explanation
Indices: 89855103--89855157 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 20
89855093 TCAAATATAC
*
89855103 TATATTAAAAAATAATTTAAAA
1 TATATT-AAAAAT-ATTCAAAA
*
89855125 TTTA-TAAAAATATTCAAAA
1 TATATTAAAAATATTCAAAA
89855144 TATATTAAAAATAT
1 TATATTAAAAATAT
89855158 ATAGAAAAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
19 10 0.34
20 15 0.52
21 1 0.03
22 3 0.10
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (20 bp):
TATATTAAAAATATTCAAAA
Found at i:89855165 original size:11 final size:11
Alignment explanation
Indices: 89855103--89855159 Score: 50
Period size: 11 Copynumber: 5.5 Consensus size: 11
89855093 TCAAATATAC
89855103 TATATTAAAAA
1 TATATTAAAAA
*
89855114 -ATAATTTAAAA
1 TAT-ATTAAAAA
*
89855125 TTTA-T-AAAA
1 TATATTAAAAA
*
89855134 -ATATTCAAAA
1 TATATTAAAAA
89855144 TATATTAAAAA
1 TATATTAAAAA
89855155 TATAT
1 TATAT
89855160 AGAAAAACTC
Statistics
Matches: 37, Mismatches: 4, Indels: 10
0.73 0.08 0.20
Matches are distributed among these distances:
8 2 0.05
9 5 0.14
10 7 0.19
11 22 0.59
12 1 0.03
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.39
Consensus pattern (11 bp):
TATATTAAAAA
Found at i:89858539 original size:19 final size:19
Alignment explanation
Indices: 89858485--89858539 Score: 67
Period size: 21 Copynumber: 2.8 Consensus size: 19
89858475 TATTGAATTG
*
89858485 TTTTGAA-TTTAATAAAAT
1 TTTTGAATTTTAATATAAT
*
89858503 TTTTTAATTTTTATATATAAT
1 TTTTGAA-TTTTA-ATATAAT
89858524 TTTTGAATTTTAATAT
1 TTTTGAATTTTAATAT
89858540 TAGTAGATAT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
18 6 0.19
19 4 0.13
20 9 0.29
21 12 0.39
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (19 bp):
TTTTGAATTTTAATATAAT
Found at i:89859808 original size:25 final size:26
Alignment explanation
Indices: 89859780--89859848 Score: 70
Period size: 27 Copynumber: 2.7 Consensus size: 26
89859770 CCACATAAGC
89859780 AATTAATTATTTTTAAA-TATAAAAA
1 AATTAATTATTTTTAAAGTATAAAAA
**
89859805 AATTAAAGTTATTTAAAAAGTATAAAAA
1 AATT-AA-TTATTTTTAAAGTATAAAAA
* *
89859833 TATGAATT-TTTTTAAA
1 AATTAATTATTTTTAAA
89859849 ATTATTAAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
25 10 0.29
26 4 0.11
27 11 0.31
28 10 0.29
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (26 bp):
AATTAATTATTTTTAAAGTATAAAAA
Found at i:89859862 original size:20 final size:20
Alignment explanation
Indices: 89859840--89859876 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 20
89859830 AAATATGAAT
*
89859840 TTTTTTAAAATT-ATTAAAA
1 TTTTTAAAAATTAATTAAAA
89859859 TTTTTAAAAATTAATTAA
1 TTTTTAAAAATTAATTAA
89859877 TTGCTAATGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 11 0.69
20 5 0.31
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
TTTTTAAAAATTAATTAAAA
Found at i:89862857 original size:14 final size:14
Alignment explanation
Indices: 89862838--89862868 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
89862828 TCAAGTTGAG
*
89862838 TTGAATTTTAAAAT
1 TTGAATATTAAAAT
89862852 TTGAATATTAAAAT
1 TTGAATATTAAAAT
89862866 TTG
1 TTG
89862869 GATAACTCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.42, C:0.00, G:0.10, T:0.48
Consensus pattern (14 bp):
TTGAATATTAAAAT
Found at i:89864590 original size:15 final size:14
Alignment explanation
Indices: 89864570--89864617 Score: 51
Period size: 15 Copynumber: 3.3 Consensus size: 14
89864560 AGTATACTTG
89864570 TTATTTTAAATAATA
1 TTATTTTAAATAA-A
*
89864585 TTATTTTAAATTAA
1 TTATTTTAAATAAA
* *
89864599 TTACTTAAAATAAAA
1 TTATTTTAAAT-AAA
89864614 TTAT
1 TTAT
89864618 ATTATCAATA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
14 10 0.37
15 17 0.63
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (14 bp):
TTATTTTAAATAAA
Found at i:89865200 original size:9 final size:9
Alignment explanation
Indices: 89865175--89865214 Score: 55
Period size: 9 Copynumber: 4.3 Consensus size: 9
89865165 TCAAAGTCTT
89865175 TAATATTTTA
1 TAAT-TTTTA
89865185 T-ATTTTTA
1 TAATTTTTA
89865193 TAATTTTTAA
1 TAATTTTT-A
89865203 TAATTTTTA
1 TAATTTTTA
89865212 TAA
1 TAA
89865215 GTTTATATCA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
8 6 0.21
9 12 0.43
10 10 0.36
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (9 bp):
TAATTTTTA
Found at i:89865263 original size:16 final size:16
Alignment explanation
Indices: 89865242--89865272 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
89865232 TTTTTTCAAT
89865242 ATTTTTATATTTTATG
1 ATTTTTATATTTTATG
*
89865258 ATTTTTATTTTTTAT
1 ATTTTTATATTTTAT
89865273 TTTTTCTGAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (16 bp):
ATTTTTATATTTTATG
Found at i:89865272 original size:23 final size:23
Alignment explanation
Indices: 89865243--89865286 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
89865233 TTTTTCAATA
89865243 TTTTTATATTTTATGATTTTTAT
1 TTTTTATATTTTATGATTTTTAT
* *
89865266 TTTTTATTTTTTCTGATTTTT
1 TTTTTATATTTTATGATTTTT
89865287 TAATAATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.16, C:0.02, G:0.05, T:0.77
Consensus pattern (23 bp):
TTTTTATATTTTATGATTTTTAT
Found at i:89868414 original size:26 final size:26
Alignment explanation
Indices: 89868377--89868460 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
89868367 TGATACAAAT
* *
89868377 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
89868403 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
89868429 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
89868455 TGATAA
1 TGATAA
89868461 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:89870111 original size:27 final size:27
Alignment explanation
Indices: 89870070--89870183 Score: 131
Period size: 27 Copynumber: 4.2 Consensus size: 27
89870060 GAGGAAGCGT
*
89870070 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
89870097 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
89870124 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
89870152 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
89870178 TCTGGT
1 TCTGGT
89870184 AGCCATGCTG
Statistics
Matches: 76, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
26 6 0.08
27 55 0.72
28 15 0.20
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.37
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:89870175 original size:54 final size:54
Alignment explanation
Indices: 89870068--89870183 Score: 171
Period size: 54 Copynumber: 2.1 Consensus size: 54
89870058 TGGAGGAAGC
*
89870068 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT
* * * *
89870122 GTTCTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCT
1 GTTCTGGTGGCTATGCCACAAATATCTG-ATCTGGTGACTCTGCCACATATATCT
89870176 GTTCTGGT
1 GTTCTGGT
89870184 AGCCATGCTG
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
54 38 0.68
55 18 0.32
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.37
Consensus pattern (54 bp):
GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT
Found at i:89872485 original size:2 final size:2
Alignment explanation
Indices: 89872480--89872515 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
89872470 GTATAACAAC
89872480 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
89872516 TGAACTTGGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:89875245 original size:20 final size:19
Alignment explanation
Indices: 89875218--89875255 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
89875208 TACTGAGTTA
89875218 GTTTTTTT-TTGATAATTAC
1 GTTTTTTTCTT-ATAATTAC
89875237 GTTTATTTTCTTATAATTA
1 GTTT-TTTTCTTATAATTA
89875256 AGAGTTGTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 4 0.24
20 11 0.65
21 2 0.12
ACGTcount: A:0.24, C:0.05, G:0.08, T:0.63
Consensus pattern (19 bp):
GTTTTTTTCTTATAATTAC
Found at i:89876155 original size:23 final size:23
Alignment explanation
Indices: 89876123--89876167 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
89876113 TGAAAAATAA
* *
89876123 ATTTTTAATTTTTAATTGAAAAC
1 ATTTTCAATTTTAAATTGAAAAC
89876146 ATTTTCAATTTTAAATTGAAAA
1 ATTTTCAATTTTAAATTGAAAA
89876168 ATTAAAAGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.49
Consensus pattern (23 bp):
ATTTTCAATTTTAAATTGAAAAC
Found at i:89881278 original size:43 final size:43
Alignment explanation
Indices: 89881165--89881278 Score: 133
Period size: 43 Copynumber: 2.7 Consensus size: 43
89881155 ATCGATGTCA
* * * *
89881165 ATGTCTCACACAGGGTCTTACATGAAATTGATTAACGATGCTG
1 ATGTCTCACACAGGGTCTTACATGTAATTGATAAACAATGCTC
* *
89881208 ATGTCTCACACATGGTCTTACACGTAATTG-TAACACAATGC-C
1 ATGTCTCACACAGGGTCTTACATGTAATTGATAA-ACAATGCTC
*
89881250 ACTGTCCCACACAGGGTCTTACATGTAAT
1 A-TGTCTCACACAGGGTCTTACATGTAAT
89881279 CACATTTCAA
Statistics
Matches: 60, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
42 3 0.05
43 57 0.95
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.29
Consensus pattern (43 bp):
ATGTCTCACACAGGGTCTTACATGTAATTGATAAACAATGCTC
Found at i:89882554 original size:2 final size:2
Alignment explanation
Indices: 89882547--89882589 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
89882537 AGCAACAAAA
89882547 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
89882589 A
1 A
89882590 AAAATATGAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:89885926 original size:31 final size:31
Alignment explanation
Indices: 89885883--89885997 Score: 214
Period size: 31 Copynumber: 3.7 Consensus size: 31
89885873 TTAGTCTTGA
*
89885883 CATAT-ACTGGGCCGAAGCCTTTCCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
89885913 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
89885944 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
89885975 CATATCACTGGGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
89885998 ACTGTAAACG
Statistics
Matches: 83, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
30 5 0.06
31 78 0.94
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.28
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATAAAT
Found at i:89886068 original size:42 final size:42
Alignment explanation
Indices: 89886021--89886112 Score: 184
Period size: 42 Copynumber: 2.2 Consensus size: 42
89886011 TGGCCCTTAG
89886021 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
89886063 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
89886105 GCCCATTT
1 GCCCATTT
89886113 GGGGAGACTA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 50 1.00
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.32
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
Found at i:89886288 original size:25 final size:25
Alignment explanation
Indices: 89886257--89886352 Score: 129
Period size: 25 Copynumber: 3.8 Consensus size: 25
89886247 CCTCTTTAAT
***
89886257 AACTGGGGCAAAGCCCTTTTTGGTA
1 AACTGGGGCAAAGCCCTTTTCAATA
*
89886282 AATTGGGGCAAAGCCCTTTTCAATA
1 AACTGGGGCAAAGCCCTTTTCAATA
*
89886307 AACTGGGGCATAGCCCTTTTCAATA
1 AACTGGGGCAAAGCCCTTTTCAATA
*
89886332 AACTGGGGTATAAGCCCTTTT
1 AACTGGGGCA-AAGCCCTTTT
89886353 GCACTTCCTT
Statistics
Matches: 62, Mismatches: 8, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
25 53 0.85
26 9 0.15
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCAATA
Found at i:89886427 original size:20 final size:20
Alignment explanation
Indices: 89886402--89886458 Score: 75
Period size: 20 Copynumber: 3.0 Consensus size: 20
89886392 TTATGAATTC
*
89886402 ATCATGTGCATTTCATA-CA
1 ATCATGTGCATATCATATCA
89886421 TATCATGTGCATATCATATCA
1 -ATCATGTGCATATCATATCA
89886442 ATCATGT--ATATCATATC
1 ATCATGTGCATATCATATC
89886459 CCACGTATCA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
18 10 0.29
20 23 0.66
21 2 0.06
ACGTcount: A:0.33, C:0.19, G:0.09, T:0.39
Consensus pattern (20 bp):
ATCATGTGCATATCATATCA
Found at i:89887172 original size:27 final size:28
Alignment explanation
Indices: 89887141--89887209 Score: 83
Period size: 27 Copynumber: 2.6 Consensus size: 28
89887131 TACGAAACAT
*
89887141 AAGGGCATATT-C-GTCATTTTACCATAC
1 AAGGGC-TATTACGGTCACTTTACCATAC
*
89887168 AAGGG-TATTACGGTCACTTTACCCTAC
1 AAGGGCTATTACGGTCACTTTACCATAC
89887195 AAGGGCT-TTACGGTC
1 AAGGGCTATTACGGTC
89887210 TTTTTACCTA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
25 4 0.11
26 1 0.03
27 31 0.84
28 1 0.03
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.30
Consensus pattern (28 bp):
AAGGGCTATTACGGTCACTTTACCATAC
Found at i:89887215 original size:27 final size:27
Alignment explanation
Indices: 89887153--89887217 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
89887143 GGGCATATTC
89887153 GTCATTTTACCATACAAGGGTATTACG
1 GTCATTTTACCATACAAGGGTATTACG
* *
89887180 GTCACTTTACCCTACAAGGGCT-TTACG
1 GTCATTTTACCATACAAGGG-TATTACG
*
89887207 GTCTTTTTACC
1 GTCATTTTACC
89887218 TATTACGGGT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 32 0.97
28 1 0.03
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (27 bp):
GTCATTTTACCATACAAGGGTATTACG
Found at i:89887301 original size:27 final size:27
Alignment explanation
Indices: 89887248--89887512 Score: 131
Period size: 27 Copynumber: 9.7 Consensus size: 27
89887238 TTTCATCCTA
* * * * *
89887248 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTCGGTAATTTTATAAAC
* *
89887275 CAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTCGGTAATTTTATAAAC
* ** * *
89887302 CAATGGTATTTCTATAATTTTTAGAAAGT
1 CAAGGGTATTTCGGTAA-TTTTATAAA-C
* * *
89887331 CAAGGGTATTTCTGTAATTTTGTAAAT
1 CAAGGGTATTTCGGTAATTTTATAAAC
* * * * *
89887358 TAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTCGGTAATTTTATAAAC
** * *
89887385 TGAGGGTATTTCGGTAATTTCACAAAC
1 CAAGGGTATTTCGGTAATTTTATAAAC
*
89887412 C-AGTGGTATTTCGGTAATTTTACAAA-
1 CAAG-GGTATTTCGGTAATTTTATAAAC
* * * *
89887438 CTAGAGGTATTTTGGTAATTGTACAAAC
1 CAAG-GGTATTTCGGTAATTTTATAAAC
* * ** * **
89887466 TAGGGGTATTTTTGTAATTCTATCCTA-
1 CAAGGGTATTTCGGTAATTTTAT-AAAC
*
89887493 CAAGGGTATTTCAGTAATTT
1 CAAGGGTATTTCGGTAATTT
89887513 CACAATCAAG
Statistics
Matches: 186, Mismatches: 46, Indels: 12
0.76 0.19 0.05
Matches are distributed among these distances:
26 3 0.02
27 152 0.82
28 16 0.09
29 15 0.08
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.40
Consensus pattern (27 bp):
CAAGGGTATTTCGGTAATTTTATAAAC
Found at i:89887376 original size:56 final size:54
Alignment explanation
Indices: 89887268--89887512 Score: 147
Period size: 54 Copynumber: 4.5 Consensus size: 54
89887258 TTGGTAAATC
* *
89887268 TACAAACCAAGGGTATTTCAGTAATTTTGTAAACCAATGGTATTTCTATAATTTT
1 TACAAATCAAGGGTATTTCAGTAATTTTGTAAACCAAGGGTATTTCTATAA-TTT
* * ** * *
89887323 TAGAAAGTCAAGGGTATTTCTGTAATTTTGTAAATTAGGGGTATTT-TGGTAATTT
1 TACAAA-TCAAGGGTATTTCAGTAATTTTGTAAACCAAGGGTATTTCT-ATAATTT
** * *** **
89887378 TACAAATTGAGGGTATTTCGGTAATTTCACAAACC-AGTGGTATTTCGGTAATTT
1 TACAAATCAAGGGTATTTCAGTAATTTTGTAAACCAAG-GGTATTTCTATAATTT
* ** * ** * * * * *
89887432 TACAAA-CTAGAGGTATTTTGGTAATTGTACAAACTAGGGGTATTTTTGTAATTC
1 TACAAATCAAG-GGTATTTCAGTAATTTTGTAAACCAAGGGTATTTCTATAATTT
**
89887486 TATCCTA-CAAGGGTATTTCAGTAATTT
1 TA-CAAATCAAGGGTATTTCAGTAATTT
89887513 CACAATCAAG
Statistics
Matches: 148, Mismatches: 35, Indels: 15
0.75 0.18 0.08
Matches are distributed among these distances:
53 3 0.02
54 89 0.60
55 20 0.14
56 36 0.24
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.40
Consensus pattern (54 bp):
TACAAATCAAGGGTATTTCAGTAATTTTGTAAACCAAGGGTATTTCTATAATTT
Found at i:89887420 original size:54 final size:54
Alignment explanation
Indices: 89887359--89887484 Score: 166
Period size: 54 Copynumber: 2.3 Consensus size: 54
89887349 TTTGTAAATT
*
89887359 AGGGGTATTTTGGTAATTTTACAAA-TTGAGGGTATTTCGGTAATT-TCACAAACC
1 AGGGGTATTTTGGTAATTTTACAAACTAGA-GGTATTTCGGTAATTGT-ACAAACC
* * * *
89887413 AGTGGTATTTCGGTAATTTTACAAACTAGAGGTATTTTGGTAATTGTACAAACT
1 AGGGGTATTTTGGTAATTTTACAAACTAGAGGTATTTCGGTAATTGTACAAACC
*
89887467 AGGGGTATTTTTGTAATT
1 AGGGGTATTTTGGTAATT
89887485 CTATCCTACA
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
54 58 0.94
55 4 0.06
ACGTcount: A:0.29, C:0.09, G:0.22, T:0.40
Consensus pattern (54 bp):
AGGGGTATTTTGGTAATTTTACAAACTAGAGGTATTTCGGTAATTGTACAAACC
Found at i:89887501 original size:81 final size:80
Alignment explanation
Indices: 89887331--89887517 Score: 198
Period size: 81 Copynumber: 2.3 Consensus size: 80
89887321 TTTAGAAAGT
* ** * * * *
89887331 CAAGGGTATTTCTGTAATTTTGTAAATTAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTT
1 CAAGGGTATTTCAGTAATTTTACAAACTAGAGGTATTTTGGTAATTGTACAAATAGAGGGTATTT
89887396 CGGTAATTTCACAAA
66 CGGTAATTTCACAAA
* *
89887411 CCAGTGGTATTTCGGTAATTTTACAAACTAGAGGTATTTTGGTAATTGTACAAACTAG-GGGTAT
1 CAAG-GGTATTTCAGTAATTTTACAAACTAGAGGTATTTTGGTAATTGTACAAA-TAGAGGGTAT
** **
89887475 TTTTGTAA-TTCTATCCTA
64 TTCGGTAATTTC-A-CAAA
*
89887493 CAAGGGTATTTCAGTAATTTCACAA
1 CAAGGGTATTTCAGTAATTTTACAA
89887518 TCAAGGGTAA
Statistics
Matches: 88, Mismatches: 15, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
80 6 0.07
81 75 0.85
82 7 0.08
ACGTcount: A:0.30, C:0.11, G:0.20, T:0.40
Consensus pattern (80 bp):
CAAGGGTATTTCAGTAATTTTACAAACTAGAGGTATTTTGGTAATTGTACAAATAGAGGGTATTT
CGGTAATTTCACAAA
Found at i:89887556 original size:27 final size:27
Alignment explanation
Indices: 89887516--89887686 Score: 166
Period size: 27 Copynumber: 6.3 Consensus size: 27
89887506 GTAATTTCAC
* *
89887516 AATCAAGGGTAAAACAGTAATTTTGTA
1 AATCGAGGGTAAAATAGTAATTTTGTA
* *
89887543 AA-CTTAGGGTAAAATGGTAATTTTGTA
1 AATC-GAGGGTAAAATAGTAATTTTGTA
* *
89887570 AATCGAGGGTAAAA-AGGTAATTCTATA
1 AATCGAGGGTAAAATA-GTAATTTTGTA
*
89887597 AATCGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAATAGTAATTTTGTA
* ** * *
89887624 AATCGAGGGTGAAACGGTAATTCTATA
1 AATCGAGGGTAAAATAGTAATTTTGTA
* * **
89887651 AATCGAGGGTAAAATGGTAATTCTACA
1 AATCGAGGGTAAAATAGTAATTTTGTA
89887678 AATCGAGGG
1 AATCGAGGG
89887687 CATTTCAGTA
Statistics
Matches: 123, Mismatches: 17, Indels: 8
0.83 0.11 0.05
Matches are distributed among these distances:
26 1 0.01
27 121 0.98
28 1 0.01
ACGTcount: A:0.40, C:0.08, G:0.24, T:0.29
Consensus pattern (27 bp):
AATCGAGGGTAAAATAGTAATTTTGTA
Found at i:89887590 original size:54 final size:54
Alignment explanation
Indices: 89887548--89887686 Score: 233
Period size: 54 Copynumber: 2.6 Consensus size: 54
89887538 TTGTAAACTT
89887548 AGGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAAAGGTAATTCTATAAATCG
1 AGGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAAAGGTAATTCTATAAATCG
* *
89887602 AGGGTAAAATGGTAATTTTGTAAATCGAGGGTGAAACGGTAATTCTATAAATCG
1 AGGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAAAGGTAATTCTATAAATCG
* **
89887656 AGGGTAAAATGGTAATTCTACAAATCGAGGG
1 AGGGTAAAATGGTAATTTTGTAAATCGAGGG
89887687 CATTTCAGTA
Statistics
Matches: 80, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 80 1.00
ACGTcount: A:0.39, C:0.07, G:0.26, T:0.28
Consensus pattern (54 bp):
AGGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAAAGGTAATTCTATAAATCG
Found at i:89887633 original size:81 final size:81
Alignment explanation
Indices: 89887516--89887686 Score: 236
Period size: 81 Copynumber: 2.1 Consensus size: 81
89887506 GTAATTTCAC
* * * * *
89887516 AATCAAGGGTAAAACAGTAATTTTGTAAACTTAGGGTAAAATGGTAATTTTGTAAATCGAGGGTA
1 AATCGAGGGTAAAACAGTAATTTTGTAAACTGAGGGTAAAACGGTAATTCTATAAATCGAGGGTA
*
89887581 AAAAGGTAATTCTATA
66 AAAAGGTAATTCTACA
** *
89887597 AATCGAGGGTAAAATGGTAATTTTGTAAA-TCGAGGGTGAAACGGTAATTCTATAAATCGAGGGT
1 AATCGAGGGTAAAACAGTAATTTTGTAAACT-GAGGGTAAAACGGTAATTCTATAAATCGAGGGT
*
89887661 AAAATGGTAATTCTACA
65 AAAAAGGTAATTCTACA
89887678 AATCGAGGG
1 AATCGAGGG
89887687 CATTTCAGTA
Statistics
Matches: 79, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
80 1 0.01
81 78 0.99
ACGTcount: A:0.40, C:0.08, G:0.24, T:0.29
Consensus pattern (81 bp):
AATCGAGGGTAAAACAGTAATTTTGTAAACTGAGGGTAAAACGGTAATTCTATAAATCGAGGGTA
AAAAGGTAATTCTACA
Found at i:89887698 original size:81 final size:82
Alignment explanation
Indices: 89887516--89887708 Score: 232
Period size: 81 Copynumber: 2.4 Consensus size: 82
89887506 GTAATTTCAC
* * * * *
89887516 AATCAAGGGTAAAA-CAGTAATTTTGTAAACTTAGGGTAAAATGGTAATTTTGTAAATCGAGGGT
1 AATCGAGGGTAAAATCAGTAATTTTGTAAACTGAGGGTAAAACGGTAATTCTATAAATCGAGGGT
*
89887580 AAAAAGGTAATTCTATA
66 AAAAAGGTAATTCTACA
* *
89887597 AATCGAGGGTAAAAT-GGTAATTTTGTAAA-TCGAGGGTGAAACGGTAATTCTATAAATCGAGGG
1 AATCGAGGGTAAAATCAGTAATTTTGTAAACT-GAGGGTAAAACGGTAATTCTATAAATCGAGGG
*
89887660 TAAAATGGTAATTCTACA
65 TAAAAAGGTAATTCTACA
* ** *
89887678 AATCGAGGG-CATTTCAGTAATTTGGTAAACT
1 AATCGAGGGTAAAATCAGTAATTTTGTAAACT
89887709 AAAGTATTCT
Statistics
Matches: 94, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
80 3 0.03
81 90 0.96
82 1 0.01
ACGTcount: A:0.39, C:0.08, G:0.23, T:0.30
Consensus pattern (82 bp):
AATCGAGGGTAAAATCAGTAATTTTGTAAACTGAGGGTAAAACGGTAATTCTATAAATCGAGGGT
AAAAAGGTAATTCTACA
Found at i:89887699 original size:54 final size:54
Alignment explanation
Indices: 89887516--89887686 Score: 184
Period size: 54 Copynumber: 3.2 Consensus size: 54
89887506 GTAATTTCAC
* * * * * * **
89887516 AATCAAGGGTAAAACAGTAATTTTGTAAA-CTTAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTCAAACAGTAATTCTATAAATC-GAGGGTAAAATGGTAATTCTACA
* * **
89887570 AATCGAGGGT-AAAAAGGTAATTCTATAAATCGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTCAAACA-GTAATTCTATAAATCGAGGGTAAAATGGTAATTCTACA
* *
89887624 AATCGAGGGTGAAACGGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTACA
1 AATCGAGGGTCAAACAGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTACA
89887678 AATCGAGGG
1 AATCGAGGG
89887687 CATTTCAGTA
Statistics
Matches: 104, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
53 4 0.04
54 96 0.92
55 4 0.04
ACGTcount: A:0.40, C:0.08, G:0.24, T:0.29
Consensus pattern (54 bp):
AATCGAGGGTCAAACAGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTACA
Found at i:89889013 original size:23 final size:24
Alignment explanation
Indices: 89888987--89889032 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 24
89888977 GTTTTTCCTT
89888987 TTGTAGGAGTG-TTTTTTTCTCAA
1 TTGTAGGAGTGTTTTTTTTCTCAA
89889010 TTGTAGGAGTGTTTTTTTTCTCA
1 TTGTAGGAGTGTTTTTTTTCTCA
89889033 GTTGATTGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 11 0.50
24 11 0.50
ACGTcount: A:0.15, C:0.09, G:0.22, T:0.54
Consensus pattern (24 bp):
TTGTAGGAGTGTTTTTTTTCTCAA
Found at i:89891060 original size:40 final size:40
Alignment explanation
Indices: 89890988--89891099 Score: 122
Period size: 40 Copynumber: 2.8 Consensus size: 40
89890978 GTTATAATAG
*
89890988 CTCGCACAAATGCCTTCGGGACTTA-ACTCGGATTTGGGAA
1 CTCGCACAAATGCCTTCGGGACTTAGAC-CGGATATGGGAA
* **
89891028 CTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATGGTCA
1 CTCGCACAAATGCCTTCGGGA-CTTAGACCGGATATGGGAA
* *
89891068 CTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 C-TCGCACAAATGCCTTCGGGACTTAGACCGGA
89891100 CATCATTCGA
Statistics
Matches: 62, Mismatches: 6, Indels: 8
0.82 0.08 0.11
Matches are distributed among these distances:
39 3 0.05
40 47 0.76
41 12 0.19
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
CTCGCACAAATGCCTTCGGGACTTAGACCGGATATGGGAA
Found at i:89891813 original size:2 final size:2
Alignment explanation
Indices: 89891806--89891837 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
89891796 ATGTGCAAAC
89891806 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
89891838 GCTAGAGCCG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:89893938 original size:42 final size:42
Alignment explanation
Indices: 89893891--89893975 Score: 161
Period size: 42 Copynumber: 2.0 Consensus size: 42
89893881 AAAATTTTAT
*
89893891 CTATAATTGTTTAGATGTTCATCGTTAAATTTTATTTTAAAA
1 CTATAATTGTTTAGATGTTCATCATTAAATTTTATTTTAAAA
89893933 CTATAATTGTTTAGATGTTCATCATTAAATTTTATTTTAAAA
1 CTATAATTGTTTAGATGTTCATCATTAAATTTTATTTTAAAA
89893975 C
1 C
89893976 AACTATAATT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.34, C:0.08, G:0.08, T:0.49
Consensus pattern (42 bp):
CTATAATTGTTTAGATGTTCATCATTAAATTTTATTTTAAAA
Found at i:89896771 original size:10 final size:10
Alignment explanation
Indices: 89896749--89896800 Score: 52
Period size: 10 Copynumber: 5.1 Consensus size: 10
89896739 AATTCTATCG
*
89896749 AAAA-TAATC
1 AAAATTAATT
89896758 AAAATTAATT
1 AAAATTAATT
*
89896768 AAAATTTATTAT
1 AAAA-TTAAT-T
89896780 AAAATTAATT
1 AAAATTAATT
*
89896790 AAAATTCATT
1 AAAATTAATT
89896800 A
1 A
89896801 TGTTAATAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
9 4 0.11
10 19 0.53
11 8 0.22
12 5 0.14
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (10 bp):
AAAATTAATT
Found at i:89896811 original size:22 final size:22
Alignment explanation
Indices: 89896758--89896801 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
89896748 GAAAATAATC
*
89896758 AAAATTAATTAAAATTTATTAT
1 AAAATTAATTAAAATTCATTAT
89896780 AAAATTAATTAAAATTCATTAT
1 AAAATTAATTAAAATTCATTAT
89896802 GTTAATAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (22 bp):
AAAATTAATTAAAATTCATTAT
Found at i:89903022 original size:40 final size:40
Alignment explanation
Indices: 89902967--89903042 Score: 125
Period size: 40 Copynumber: 1.9 Consensus size: 40
89902957 TGCAGTACCT
89902967 TATGGTGTGTAGGGATGGATGGGTCAATTTGATCCCTATA
1 TATGGTGTGTAGGGATGGATGGGTCAATTTGATCCCTATA
* * *
89903007 TATGGTGTGTAGGGATGGGTGGGTCGATTTTATCCC
1 TATGGTGTGTAGGGATGGATGGGTCAATTTGATCCC
89903043 CACATGGTGT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.18, C:0.11, G:0.36, T:0.36
Consensus pattern (40 bp):
TATGGTGTGTAGGGATGGATGGGTCAATTTGATCCCTATA
Found at i:89904945 original size:23 final size:25
Alignment explanation
Indices: 89904919--89904965 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
89904909 TATCATTCAT
*
89904919 TTCATTATAT-CA-ATATTTTATGC
1 TTCATCATATCCATATATTTTATGC
*
89904942 TTCATCATTTCCATATATTTTATG
1 TTCATCATATCCATATATTTTATG
89904966 TATATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 2 0.10
25 10 0.50
ACGTcount: A:0.28, C:0.15, G:0.04, T:0.53
Consensus pattern (25 bp):
TTCATCATATCCATATATTTTATGC
Found at i:89905120 original size:13 final size:13
Alignment explanation
Indices: 89905102--89905131 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
89905092 TTCTTGTAAA
89905102 CATTTCACATAAC
1 CATTTCACATAAC
*
89905115 CATTTCATATAAC
1 CATTTCACATAAC
89905128 CATT
1 CATT
89905132 CGTCATCTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.27, G:0.00, T:0.37
Consensus pattern (13 bp):
CATTTCACATAAC
Found at i:89905280 original size:46 final size:46
Alignment explanation
Indices: 89905220--89905612 Score: 552
Period size: 46 Copynumber: 8.7 Consensus size: 46
89905210 TTTGACGTGA
* * * * * * *
89905220 TGCCATAGTGTCTTTCTACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
** * * *
89905266 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATTTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
89905312 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
89905358 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* *
89905404 TACCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
89905450 TGCCATGGTATCTTTCAACCATGGTCTTTCACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
89905496 TGCCATGGTATCTTTCAACCATAGTCTT--ACA---C--A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
89905534 TGCCATGGTATCTTTCAACCATGGTCTTTCACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
89905580 TGCCATGGTATCTTTCAACCATGGTCTTACACA
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA
89905613 CAGGTTGCCA
Statistics
Matches: 315, Mismatches: 23, Indels: 18
0.88 0.06 0.05
Matches are distributed among these distances:
38 32 0.10
39 1 0.00
40 3 0.01
41 1 0.00
43 1 0.00
44 3 0.01
45 5 0.02
46 269 0.85
ACGTcount: A:0.22, C:0.25, G:0.15, T:0.38
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:89905336 original size:92 final size:92
Alignment explanation
Indices: 89905220--89905660 Score: 576
Period size: 92 Copynumber: 5.0 Consensus size: 92
89905210 TTTGACGTGA
* * * * * * * *
89905220 TGCCATAGTGTCTTTCTACTATGGTCTTACTCATTTTC-TGTCATGTTGCCATGGTATCTTTCAA
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TCTCATATCAGGTTGCCATGGTATCTTTCAA
* * * *
89905284 CCATGGTCTTAT-TCTTTTCATTTCACGT
65 CCATGGTCTT-TCACATTTCATATCAGGT
89905312 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGTTGCCATGGTATCTTTCAAC
*
89905377 CATGGTCTTACACATTTCATATCAGGT
66 CATGGTCTTTCACATTTCATATCAGGT
*
89905404 TACCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGTTGCCATGGTATCTTTCAAC
89905469 CATGGTCTTTCACATTTCATATCAGGT
66 CATGGTCTTTCACATTTCATATCAGGT
*
89905496 TGCCATGGTATCTTTCAACCATAGTCTT--ACA---C--A-CAGGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGTTGCCATGGTATCTTTCAAC
89905553 CATGGTCTTTCACATTTCATATCAGGT
66 CATGGTCTTTCACATTTCATATCAGGT
**
89905580 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--A-CAGGTTGCCATAATATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGTTGCCATGGTATCTTTCAAC
*
89905637 CATGGTCTTACACATTTCATATCA
66 CATGGTCTTTCACATTTCATATCA
89905661 AAGAGCACAC
Statistics
Matches: 326, Mismatches: 21, Indels: 12
0.91 0.06 0.03
Matches are distributed among these distances:
84 128 0.39
85 1 0.00
87 1 0.00
90 3 0.01
91 3 0.01
92 190 0.58
ACGTcount: A:0.23, C:0.25, G:0.14, T:0.38
Consensus pattern (92 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGTTGCCATGGTATCTTTCAAC
CATGGTCTTTCACATTTCATATCAGGT
Found at i:89905468 original size:138 final size:135
Alignment explanation
Indices: 89905220--89905660 Score: 566
Period size: 138 Copynumber: 3.3 Consensus size: 135
89905210 TTTGACGTGA
* * * * * *
89905220 TGCCATAGTGTCTTTCTACTATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTTTCAAC
1 TGCCATAGTATCTTTCAACCATGGTCTTACACA-TTTCTATCAGGTTGCCATGGTATCTTTCAAC
** * * *
89905285 CATGGTCTTATTCTTTTCATTTCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATCTCA
65 CATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTT-CACAT-TCA
89905350 TATCAGGT
128 TATCAGGT
* *
89905358 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTACCATGGTATCTTTCAAC
1 TGCCATAGTATCTTTCAACCATGGTCTTACACATTTC-TATCAGGTTGCCATGGTATCTTTCAAC
*
89905423 CATGGTCTTACACATCTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTTCACATTTCA
65 CATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTC-TTCACA-TTCA
89905488 TATCAGGT
128 TATCAGGT
* *
89905496 TGCCATGGTATCTTTCAACCATAGTCTT--ACA---C-A-CAGGTTGCCATGGTATCTTTCAACC
1 TGCCATAGTATCTTTCAACCATGGTCTTACACATTTCTATCAGGTTGCCATGGTATCTTTCAACC
*
89905554 ATGGTCTTTCACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTT-ACA--C--A-
66 ATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTCACATTCATAT
89905613 CAGGT
131 CAGGT
*
89905618 TGCCATAATATCTTTCAACCATGGTCTTACACATTTCATATCA
1 TGCCATAGTATCTTTCAACCATGGTCTTACACATTTC-TATCA
89905661 AAGAGCACAC
Statistics
Matches: 271, Mismatches: 21, Indels: 30
0.84 0.07 0.09
Matches are distributed among these distances:
122 30 0.11
123 1 0.00
124 3 0.01
125 1 0.00
127 1 0.00
128 3 0.01
129 3 0.01
130 76 0.28
131 1 0.00
133 1 0.00
136 3 0.01
137 4 0.01
138 141 0.52
139 3 0.01
ACGTcount: A:0.23, C:0.25, G:0.14, T:0.38
Consensus pattern (135 bp):
TGCCATAGTATCTTTCAACCATGGTCTTACACATTTCTATCAGGTTGCCATGGTATCTTTCAACC
ATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTCACATTCATAT
CAGGT
Found at i:89905542 original size:38 final size:38
Alignment explanation
Indices: 89905491--89905650 Score: 221
Period size: 38 Copynumber: 4.0 Consensus size: 38
89905481 CATTTCATAT
*
89905491 CAGGTTGCCATGGTATCTTTCAACCATAGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
89905529 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTTCACATTTCATA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTC-TT-ACA---C--A
89905574 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 -CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
**
89905613 CAGGTTGCCATAATATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
89905651 TTTCATATCA
Statistics
Matches: 111, Mismatches: 3, Indels: 16
0.85 0.02 0.12
Matches are distributed among these distances:
38 66 0.59
39 3 0.03
40 3 0.03
41 1 0.01
43 1 0.01
44 3 0.03
45 3 0.03
46 31 0.28
ACGTcount: A:0.25, C:0.26, G:0.16, T:0.34
Consensus pattern (38 bp):
CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
Found at i:89905586 original size:84 final size:84
Alignment explanation
Indices: 89905445--89905660 Score: 396
Period size: 84 Copynumber: 2.6 Consensus size: 84
89905435 CATCTCATAT
89905445 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTTCACATTTCATATCAGGTTGCCATGGTATCTT
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTTCACATTTCATATCAGGTTGCCATGGTATCTT
89905510 TCAACCATAGTCTTACACA
66 TCAACCATAGTCTTACACA
89905529 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTTCACATTTCATATCAGGTTGCCATGGTATCTT
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTTCACATTTCATATCAGGTTGCCATGGTATCTT
*
89905594 TCAACCATGGTCTTACACA
66 TCAACCATAGTCTTACACA
** *
89905613 CAGGTTGCCATAATATCTTTCAACCATGGTCTTACACATTTCATATCA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTTCACATTTCATATCA
89905661 AAGAGCACAC
Statistics
Matches: 128, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
84 128 1.00
ACGTcount: A:0.25, C:0.25, G:0.15, T:0.36
Consensus pattern (84 bp):
CAGGTTGCCATGGTATCTTTCAACCATGGTCTTTCACATTTCATATCAGGTTGCCATGGTATCTT
TCAACCATAGTCTTACACA
Found at i:89913980 original size:40 final size:40
Alignment explanation
Indices: 89913925--89914002 Score: 129
Period size: 40 Copynumber: 1.9 Consensus size: 40
89913915 TGCAGTACCT
* *
89913925 TATGGTGTGTAGGGATGGATGGGTCGATTTTATCCCCATA
1 TATGGTGTGCAGGGATGGATGGATCGATTTTATCCCCATA
*
89913965 TATGGTGTGCAGGGATGGGTGGATCGATTTTATCCCCA
1 TATGGTGTGCAGGGATGGATGGATCGATTTTATCCCCA
89914003 CATGGTGTGT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.19, C:0.14, G:0.33, T:0.33
Consensus pattern (40 bp):
TATGGTGTGCAGGGATGGATGGATCGATTTTATCCCCATA
Found at i:89915609 original size:41 final size:41
Alignment explanation
Indices: 89915552--89915701 Score: 212
Period size: 41 Copynumber: 3.7 Consensus size: 41
89915542 TCAGGGTTTA
*
89915552 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAACCAGTGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
89915593 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
* * * * * * * *
89915634 AA-CCGAACCTAGTTTCGAAGGGCCTTCGGGCCAATGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
89915674 AATCCGAGCTTGGTCTCGAAGGGCTTTT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTT
89915702 TGAGTCAGCG
Statistics
Matches: 93, Mismatches: 15, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
40 32 0.34
41 61 0.66
ACGTcount: A:0.21, C:0.23, G:0.27, T:0.28
Consensus pattern (41 bp):
AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
Found at i:89916057 original size:90 final size:90
Alignment explanation
Indices: 89915904--89916084 Score: 362
Period size: 90 Copynumber: 2.0 Consensus size: 90
89915894 TATGACTTTG
89915904 AAATTGGTGGGGATGCTTAGGCCATTGTTTAAAATCATTCGAACGTTTATGATCTGATTATGATG
1 AAATTGGTGGGGATGCTTAGGCCATTGTTTAAAATCATTCGAACGTTTATGATCTGATTATGATG
89915969 TATGAGTTCCGAATTAGAGAGTTCA
66 TATGAGTTCCGAATTAGAGAGTTCA
89915994 AAATTGGTGGGGATGCTTAGGCCATTGTTTAAAATCATTCGAACGTTTATGATCTGATTATGATG
1 AAATTGGTGGGGATGCTTAGGCCATTGTTTAAAATCATTCGAACGTTTATGATCTGATTATGATG
89916059 TATGAGTTCCGAATTAGAGAGTTCA
66 TATGAGTTCCGAATTAGAGAGTTCA
89916084 A
1 A
89916085 CTTCACAAAT
Statistics
Matches: 91, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
90 91 1.00
ACGTcount: A:0.29, C:0.11, G:0.24, T:0.35
Consensus pattern (90 bp):
AAATTGGTGGGGATGCTTAGGCCATTGTTTAAAATCATTCGAACGTTTATGATCTGATTATGATG
TATGAGTTCCGAATTAGAGAGTTCA
Found at i:89918480 original size:24 final size:24
Alignment explanation
Indices: 89918453--89918501 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
89918443 TTGTTTGAAG
89918453 AGGGTGATTAAAAATTAAGAGTTT
1 AGGGTGATTAAAAATTAAGAGTTT
*
89918477 AGGGTGATTAAAAATTAAGATTTT
1 AGGGTGATTAAAAATTAAGAGTTT
89918501 A
1 A
89918502 AACTAAGTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.43, C:0.00, G:0.22, T:0.35
Consensus pattern (24 bp):
AGGGTGATTAAAAATTAAGAGTTT
Found at i:89920046 original size:10 final size:10
Alignment explanation
Indices: 89920022--89920073 Score: 52
Period size: 10 Copynumber: 5.1 Consensus size: 10
89920012 AATTCTGTCG
*
89920022 AAAATT-ATC
1 AAAATTAATT
89920031 AAAATTAATT
1 AAAATTAATT
*
89920041 AAAATTTATTAT
1 AAAA-TTAAT-T
89920053 AAAATTAATT
1 AAAATTAATT
*
89920063 AAAATTCATT
1 AAAATTAATT
89920073 A
1 A
89920074 TGTTAATAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
9 6 0.17
10 17 0.47
11 8 0.22
12 5 0.14
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (10 bp):
AAAATTAATT
Found at i:89920058 original size:22 final size:23
Alignment explanation
Indices: 89920025--89920074 Score: 84
Period size: 22 Copynumber: 2.2 Consensus size: 23
89920015 TCTGTCGAAA
*
89920025 ATTATCAAAATTAATTAAAATTT
1 ATTATCAAAATTAATTAAAATTC
89920048 ATTAT-AAAATTAATTAAAATTC
1 ATTATCAAAATTAATTAAAATTC
89920070 ATTAT
1 ATTAT
89920075 GTTAATAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
22 21 0.81
23 5 0.19
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (23 bp):
ATTATCAAAATTAATTAAAATTC
Found at i:89922114 original size:20 final size:18
Alignment explanation
Indices: 89922091--89922129 Score: 60
Period size: 20 Copynumber: 2.1 Consensus size: 18
89922081 ATAATAATTA
89922091 TATTTTATTAAATTATGTAT
1 TATTTTATT-AATT-TGTAT
89922111 TATTTTATTAATTTGTAT
1 TATTTTATTAATTTGTAT
89922129 T
1 T
89922130 TAATAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 6 0.32
19 4 0.21
20 9 0.47
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (18 bp):
TATTTTATTAATTTGTAT
Found at i:89922129 original size:15 final size:15
Alignment explanation
Indices: 89922061--89922130 Score: 50
Period size: 15 Copynumber: 4.2 Consensus size: 15
89922051 ATATTATAAT
*
89922061 TTTTATTAATTCATA
1 TTTTATTAATTTATA
*
89922076 TTTTAATAATAATTATA
1 TTTTATTAAT--TTATA
89922093 TTTTATTAAATTATGTATTA
1 TTTTATT-AA-T-T-TA-TA
*
89922113 TTTTATTAATTTGTA
1 TTTTATTAATTTATA
89922128 TTT
1 TTT
89922131 AATAAAAATT
Statistics
Matches: 45, Mismatches: 4, Indels: 12
0.74 0.07 0.20
Matches are distributed among these distances:
15 14 0.31
16 1 0.02
17 11 0.24
18 5 0.11
19 5 0.11
20 9 0.20
ACGTcount: A:0.34, C:0.01, G:0.03, T:0.61
Consensus pattern (15 bp):
TTTTATTAATTTATA
Found at i:89922375 original size:16 final size:16
Alignment explanation
Indices: 89922354--89922388 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
89922344 AGAATTACTG
**
89922354 ATTACAACTTTATTTC
1 ATTACAACCCTATTTC
89922370 ATTACAACCCTATTTC
1 ATTACAACCCTATTTC
89922386 ATT
1 ATT
89922389 CCCCTAACCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.31, C:0.23, G:0.00, T:0.46
Consensus pattern (16 bp):
ATTACAACCCTATTTC
Found at i:89923551 original size:17 final size:16
Alignment explanation
Indices: 89923516--89923560 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
89923506 CCATATTTGA
*
89923516 TTTTTTTAAAATTAGT
1 TTTTTTTAAAATAAGT
89923532 TTTTATTTAAAATAA-T
1 TTTT-TTTAAAATAAGT
*
89923548 TTTTTTAAAAATA
1 TTTTTTTAAAATA
89923561 TAATACACTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
15 8 0.31
16 9 0.35
17 9 0.35
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (16 bp):
TTTTTTTAAAATAAGT
Found at i:89924662 original size:16 final size:18
Alignment explanation
Indices: 89924641--89924673 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
89924631 AAATATCTTT
89924641 ATTTTTA-GTA-AATATA
1 ATTTTTATGTATAATATA
89924657 ATTTTTATGTATAATAT
1 ATTTTTATGTATAATAT
89924674 TTTTTTTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 3 0.20
18 5 0.33
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (18 bp):
ATTTTTATGTATAATATA
Found at i:89924763 original size:30 final size:30
Alignment explanation
Indices: 89924727--89924824 Score: 121
Period size: 30 Copynumber: 3.2 Consensus size: 30
89924717 GTGGAGAAAG
*
89924727 TAAATATTTTTAACTAATGTTTATAATTAA
1 TAAATATTTTTAATTAATGTTTATAATTAA
*
89924757 TAAATATATTATT--TTAAT-TTTTTAATTAAAA
1 TAAATAT-TT-TTAATTAATGTTTATAATT--AA
89924788 TAAATATTTTTAATTAATGTTTATAATTAA
1 TAAATATTTTTAATTAATGTTTATAATTAA
89924818 TAAATAT
1 TAAATAT
89924825 ATTATTTTCA
Statistics
Matches: 58, Mismatches: 3, Indels: 14
0.77 0.04 0.19
Matches are distributed among these distances:
29 10 0.17
30 22 0.38
31 16 0.28
32 10 0.17
ACGTcount: A:0.45, C:0.01, G:0.02, T:0.52
Consensus pattern (30 bp):
TAAATATTTTTAATTAATGTTTATAATTAA
Found at i:89924792 original size:31 final size:29
Alignment explanation
Indices: 89924741--89924842 Score: 109
Period size: 30 Copynumber: 3.3 Consensus size: 29
89924731 TATTTTTAAC
*
89924741 TAATGTTTATAATTAATAAATATATTATTT
1 TAAT-TTTTTAATTAATAAATATATTATTT
89924771 TAATTTTTTAATTAAAATAAATAT-TT-TTAAT
1 TAATTTTTTAATT--AATAAATATATTATT--T
*
89924802 TAATGTTTATAATTAATAAATATATTATTT
1 TAAT-TTTTTAATTAATAAATATATTATTT
89924832 TCAATTTTTTA
1 T-AATTTTTTA
89924843 TTTTTAATTC
Statistics
Matches: 61, Mismatches: 3, Indels: 16
0.76 0.04 0.20
Matches are distributed among these distances:
29 10 0.16
30 22 0.36
31 19 0.31
32 10 0.16
ACGTcount: A:0.42, C:0.01, G:0.02, T:0.55
Consensus pattern (29 bp):
TAATTTTTTAATTAATAAATATATTATTT
Found at i:89924796 original size:61 final size:62
Alignment explanation
Indices: 89924727--89924842 Score: 216
Period size: 61 Copynumber: 1.9 Consensus size: 62
89924717 GTGGAGAAAG
89924727 TAAATATTTTTAACTAATGTTTATAATTAATAAATATATTATTTT-AATTTTTTAATTAAAA
1 TAAATATTTTTAACTAATGTTTATAATTAATAAATATATTATTTTCAATTTTTTAATTAAAA
*
89924788 TAAATATTTTTAATTAATGTTTATAATTAATAAATATATTATTTTCAATTTTTTA
1 TAAATATTTTTAACTAATGTTTATAATTAATAAATATATTATTTTCAATTTTTTA
89924843 TTTTTAATTC
Statistics
Matches: 53, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
61 44 0.83
62 9 0.17
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (62 bp):
TAAATATTTTTAACTAATGTTTATAATTAATAAATATATTATTTTCAATTTTTTAATTAAAA
Found at i:89924920 original size:32 final size:35
Alignment explanation
Indices: 89924884--89924947 Score: 80
Period size: 32 Copynumber: 1.9 Consensus size: 35
89924874 TTTATTTATA
89924884 AAATAAAATAATTAT-TGT-A-ATTTATTTTTAGT
1 AAATAAAATAATTATGTGTAATATTTATTTTTAGT
* **
89924916 AAATATAATTTTTATGTGTAATATTTATTTTT
1 AAATAAAATAATTATGTGTAATATTTATTTTT
89924948 CAATCCATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
32 12 0.46
33 3 0.12
34 1 0.04
35 10 0.38
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (35 bp):
AAATAAAATAATTATGTGTAATATTTATTTTTAGT
Found at i:89928283 original size:37 final size:37
Alignment explanation
Indices: 89928233--89928308 Score: 143
Period size: 37 Copynumber: 2.1 Consensus size: 37
89928223 TTAGCAAGTG
*
89928233 GTTAGATAAGTGCATAGACAAAGCCCAAAGCATTTTT
1 GTTAGATAAGTGCATAGACAAAGCCCAAAGCACTTTT
89928270 GTTAGATAAGTGCATAGACAAAGCCCAAAGCACTTTT
1 GTTAGATAAGTGCATAGACAAAGCCCAAAGCACTTTT
89928307 GT
1 GT
89928309 ACCAAGTAAC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.37, C:0.17, G:0.20, T:0.26
Consensus pattern (37 bp):
GTTAGATAAGTGCATAGACAAAGCCCAAAGCACTTTT
Found at i:89932360 original size:14 final size:16
Alignment explanation
Indices: 89932340--89932378 Score: 55
Period size: 14 Copynumber: 2.6 Consensus size: 16
89932330 CAAAATCAAC
89932340 ATAATTAACCATAA-T
1 ATAATTAACCATAAGT
*
89932355 -TAATTAACCTTAAGT
1 ATAATTAACCATAAGT
89932370 ATAATTAAC
1 ATAATTAAC
89932379 AAATTTAGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 12 0.57
15 1 0.05
16 8 0.38
ACGTcount: A:0.49, C:0.13, G:0.03, T:0.36
Consensus pattern (16 bp):
ATAATTAACCATAAGT
Found at i:89944534 original size:29 final size:27
Alignment explanation
Indices: 89944500--89944602 Score: 89
Period size: 29 Copynumber: 3.6 Consensus size: 27
89944490 TACTCGATCA
*
89944500 CGCACACTTAGTGCCATGTGATTTAAGCC
1 CGCACACTTAGTGCCAT-T-ATTTAAGCT
* ** *
89944529 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTTAAGCT
*
89944558 CGCACACTTAGTGCCATACATTTCAAGCT
1 CGCACACTTAGTGCCAT-TATTT-AAGCT
*
89944587 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
89944603 ATCTCGTCAC
Statistics
Matches: 60, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
28 2 0.03
29 58 0.97
ACGTcount: A:0.28, C:0.32, G:0.17, T:0.23
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTTAAGCT
Found at i:89947043 original size:46 final size:46
Alignment explanation
Indices: 89946993--89947307 Score: 358
Period size: 46 Copynumber: 6.8 Consensus size: 46
89946983 TGGTTGAGCA
*
89946993 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * *
89947039 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---G
* *
89947084 CATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * *
89947132 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * *
89947178 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---G
89947223 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* *
89947271 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
89947308 GCGGGTTACA
Statistics
Matches: 227, Mismatches: 24, Indels: 36
0.79 0.08 0.13
Matches are distributed among these distances:
42 4 0.02
43 8 0.04
45 6 0.03
46 132 0.58
47 57 0.25
48 6 0.03
50 8 0.04
51 6 0.03
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Done.