Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 114 of 345
Found at i:30556207 original size:14 final size:14
Alignment explanation
Indices: 30556188--30556215 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
30556178 CTGAGGTCTT
30556188 TTCAATTTCTGTTC
1 TTCAATTTCTGTTC
30556202 TTCAATTTCTGTTC
1 TTCAATTTCTGTTC
30556216 GTAAAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.21, G:0.07, T:0.57
Consensus pattern (14 bp):
TTCAATTTCTGTTC
Found at i:30556446 original size:14 final size:14
Alignment explanation
Indices: 30556427--30556453 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
30556417 CTGAGGTCTT
30556427 TTCAATTTCTGTTC
1 TTCAATTTCTGTTC
30556441 TTCAATTTCTGTT
1 TTCAATTTCTGTT
30556454 TGTAAAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.19, G:0.07, T:0.59
Consensus pattern (14 bp):
TTCAATTTCTGTTC
Found at i:30556469 original size:164 final size:163
Alignment explanation
Indices: 30556296--30556603 Score: 444
Period size: 164 Copynumber: 1.9 Consensus size: 163
30556286 TCTATTTTTC
* *
30556296 AAAAATCAACTCATATTGCA-AGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTA-ATTTCAATT
1 AAAAATCAACTCATATTG-AGAGAGGTGAGTTGAGCCTCAGGACACGCTGA-GTATATTTAAATT
* * *
30556359 TCTGTTTGTC-AAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGCTCACATGCTGAG
64 TCTGTTTGTCAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCAGG---ACACGCTGAG
**
30556422 GTCTTTTCAATTTCTGTTCTTCAATTTCTGTTTGTAAA
126 GTAATTTCAATTTCTGTTCTTCAATTTCTGTTTGTAAA
*
30556460 AAAAATCAACTCATATTGAGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGTATTTTTAAATTTC
1 AAAAATCAACTCATATTGAGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGTATATTTAAATTTC
* *
30556525 TGTTTTTCAAAAAAATCAACTCATATTGTGAAAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAA
66 TGTTTGTC-AAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAA
30556590 TTTCAATTTCTGTT
130 TTTCAATTTCTGTT
30556604 TGTCAAAAAT
Statistics
Matches: 129, Mismatches: 10, Indels: 10
0.87 0.07 0.07
Matches are distributed among these distances:
163 4 0.03
164 88 0.68
166 35 0.27
167 2 0.02
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.33
Consensus pattern (163 bp):
AAAAATCAACTCATATTGAGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGTATATTTAAATTTC
TGTTTGTCAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAAT
TTCAATTTCTGTTCTTCAATTTCTGTTTGTAAA
Found at i:30556523 original size:89 final size:87
Alignment explanation
Indices: 30556352--30556534 Score: 235
Period size: 89 Copynumber: 2.1 Consensus size: 87
30556342 CTGAGGTAAT
* * * *
30556352 TTCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATG
1 TTCAATTTCTGTTTGTAAAAAATCAACTCATATTGAGAGAGGTGAGTTGAGCCTCGG--CACACG
*
30556417 CTGAGGTCTTTTCAATTTCTGTTC
64 CTGAGGTCTTTTAAATTTCTGTTC
30556441 TTCAATTTCTGTTTGTAAAAAAAATCAACTCATATTGAGAGAGGTGAGTTGAGCCTCAGG-ACAC
1 TTCAATTTCTGTTTGT--AAAAAATCAACTCATATTGAGAGAGGTGAGTTGAGCCTC-GGCACAC
* *
30556505 GCTGA-GTATTTTTAAATTTCTGTTT
63 GCTGAGGT-CTTTTAAATTTCTGTTC
30556530 TTCAA
1 TTCAA
30556535 AAAAATCAAC
Statistics
Matches: 83, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
88 2 0.02
89 43 0.52
91 36 0.43
92 2 0.02
ACGTcount: A:0.27, C:0.16, G:0.19, T:0.38
Consensus pattern (87 bp):
TTCAATTTCTGTTTGTAAAAAATCAACTCATATTGAGAGAGGTGAGTTGAGCCTCGGCACACGCT
GAGGTCTTTTAAATTTCTGTTC
Found at i:30556538 original size:75 final size:75
Alignment explanation
Indices: 30556444--30556641 Score: 294
Period size: 75 Copynumber: 2.7 Consensus size: 75
30556434 TCTGTTCTTC
*
30556444 AATTTCTGTTTGTAAAAAAAATCAACTCATATTGAGAGAGGTGAGTTGAGCCTCAGGACACGCTG
1 AATTTCTGTTTGTCAAAAAAATCAACTCATATTGAGAGAGGTGAGTTGAGCCTCAGGACACGCTG
*
30556509 A-GTATTTTTA
66 AGGTA-ATTTA
* * *
30556519 AATTTCTGTTTTTCAAAAAAATCAACTCATATTGTGAAAGGTGAGTTGAGCCTCAGGACACGCTG
1 AATTTCTGTTTGTCAAAAAAATCAACTCATATTGAGAGAGGTGAGTTGAGCCTCAGGACACGCTG
*
30556584 AGGTAATTTC
66 AGGTAATTTA
* *
30556594 AATTTCTGTTTGTC--AAAAATTAACTCATATTGCGAGAGGTGAGTTGAG
1 AATTTCTGTTTGTCAAAAAAATCAACTCATATTGAGAGAGGTGAGTTGAG
30556642 TCTCGGGCCA
Statistics
Matches: 112, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
73 31 0.28
75 78 0.70
76 3 0.03
ACGTcount: A:0.32, C:0.14, G:0.21, T:0.33
Consensus pattern (75 bp):
AATTTCTGTTTGTCAAAAAAATCAACTCATATTGAGAGAGGTGAGTTGAGCCTCAGGACACGCTG
AGGTAATTTA
Found at i:30556660 original size:75 final size:73
Alignment explanation
Indices: 30556441--30556679 Score: 291
Period size: 75 Copynumber: 3.2 Consensus size: 73
30556431 ATTTCTGTTC
*
30556441 TTCAATTTCTGTTTGTAAAAAAAATCAACTCATATTGAGAGAGGTGAGTTGAGCCTCAGGACACG
1 TTCAATTTCTGTTTGT--CAAAAATCAACTCATATTGAGAGAGGTGAGTTGAGCCTCAGGACACG
30556506 CTGA-GTATTT
64 CTGAGGTA-TT
* * * *
30556516 TTAAATTTCTGTTTTTCAAAAAAATCAACTCATATTGTGAAAGGTGAGTTGAGCCTCAGGACACG
1 TTCAATTTCTGTTTGTC--AAAAATCAACTCATATTGAGAGAGGTGAGTTGAGCCTCAGGACACG
*
30556581 CTGAGGTAAT
64 CTGAGGTATT
* * * * *
30556591 TTCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGTCTCGGGCCACACA
1 TTCAATTTCTGTTTGTCAAAAATCAACTCATATTGAGAGAGGTGAGTTGAGCCTCAGG--ACACG
*
30556656 CTGAGGTCTT
64 CTGAGGTATT
*
30556666 TTCAAATTCTGTTT
1 TTCAATTTCTGTTT
30556680 TAATTTCTGC
Statistics
Matches: 142, Mismatches: 17, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
73 36 0.25
75 103 0.73
76 3 0.02
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.34
Consensus pattern (73 bp):
TTCAATTTCTGTTTGTCAAAAATCAACTCATATTGAGAGAGGTGAGTTGAGCCTCAGGACACGCT
GAGGTATT
Found at i:30556700 original size:14 final size:14
Alignment explanation
Indices: 30556663--30556716 Score: 58
Period size: 15 Copynumber: 3.9 Consensus size: 14
30556653 ACACTGAGGT
*
30556663 CTTTTCAAATTCTG
1 CTTTTCAATTTCTG
30556677 -TTTT-AATTTCTG
1 CTTTTCAATTTCTG
*
30556689 CTTTTCAATTTCTAT
1 CTTTTCAATTTCT-G
*
30556704 TTTTTCAATTTCT
1 CTTTTCAATTTCT
30556717 ATTTTTCAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
12 7 0.21
13 8 0.24
14 7 0.21
15 12 0.35
ACGTcount: A:0.19, C:0.17, G:0.04, T:0.61
Consensus pattern (14 bp):
CTTTTCAATTTCTG
Found at i:30556710 original size:15 final size:15
Alignment explanation
Indices: 30556690--30556722 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
30556680 TAATTTCTGC
30556690 TTTTCAATTTCTATT
1 TTTTCAATTTCTATT
30556705 TTTTCAATTTCTATT
1 TTTTCAATTTCTATT
30556720 TTT
1 TTT
30556723 CAAAAATCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.18, C:0.12, G:0.00, T:0.70
Consensus pattern (15 bp):
TTTTCAATTTCTATT
Found at i:30556721 original size:14 final size:14
Alignment explanation
Indices: 30556664--30556725 Score: 65
Period size: 14 Copynumber: 4.5 Consensus size: 14
30556654 CACTGAGGTC
* *
30556664 TTTTCAAATTCT-G
1 TTTTCAATTTCTAT
**
30556677 TTTT-AATTTCTGC
1 TTTTCAATTTCTAT
30556690 TTTTCAATTTCTATT
1 TTTTCAATTTCTA-T
30556705 TTTTCAATTTCTAT
1 TTTTCAATTTCTAT
30556719 TTTTCAA
1 TTTTCAA
30556726 AAATCAACTC
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
12 6 0.14
13 8 0.19
14 15 0.36
15 13 0.31
ACGTcount: A:0.21, C:0.15, G:0.03, T:0.61
Consensus pattern (14 bp):
TTTTCAATTTCTAT
Found at i:30557509 original size:30 final size:30
Alignment explanation
Indices: 30557473--30557647 Score: 237
Period size: 30 Copynumber: 5.8 Consensus size: 30
30557463 ACTTTTCTCA
*
30557473 ACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTCTCCACCACCAACTCC
*
30557503 ACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTCTCCACCACCAACTCC
* *
30557533 ACTAGCCACTCCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTCTCCACCACCAACTCC
*
30557563 ACTAGCCACACCTTCTCCACCACCAAATCC
1 ACTAGCCACACCTTCTCCACCACCAACTCC
** *
30557593 ACTAGCCACA-CTTGCTCCATTACCTACTCC
1 ACTAGCCACACCTT-CTCCACCACCAACTCC
*
30557623 ACTAACCACA-CTTGCTCCACCACCA
1 ACTAGCCACACCTT-CTCCACCACCA
30557648 CTTGTACCTA
Statistics
Matches: 132, Mismatches: 12, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
29 3 0.02
30 129 0.98
ACGTcount: A:0.27, C:0.49, G:0.04, T:0.21
Consensus pattern (30 bp):
ACTAGCCACACCTTCTCCACCACCAACTCC
Found at i:30558217 original size:2 final size:2
Alignment explanation
Indices: 30558210--30558293 Score: 81
Period size: 2 Copynumber: 44.5 Consensus size: 2
30558200 CTATATTACG
* * * *
30558210 TA TA TA TA TA TA TA TA T- TA TA CTA T- TT TA TG TA TA TA TC TT
1 TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA
30558251 TA -A TA T- TA TA T- TA T- TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
30558289 TA TA T
1 TA TA T
30558294 TTTTTTACAT
Statistics
Matches: 69, Mismatches: 6, Indels: 14
0.78 0.07 0.16
Matches are distributed among these distances:
1 6 0.09
2 61 0.88
3 2 0.03
ACGTcount: A:0.42, C:0.02, G:0.01, T:0.55
Consensus pattern (2 bp):
TA
Found at i:30558338 original size:22 final size:24
Alignment explanation
Indices: 30558310--30558368 Score: 68
Period size: 25 Copynumber: 2.5 Consensus size: 24
30558300 ACATGTTATC
30558310 TTATGTATATATCTT-A-ACTATA
1 TTATGTATATATCTTAACACTATA
* *
30558332 TTATGTATGTATTTTTAACACTATA
1 TTATGTATATA-TCTTAACACTATA
*
30558357 TTATGTACATAT
1 TTATGTATATAT
30558369 TTTTAATATT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
22 10 0.33
23 3 0.10
24 2 0.07
25 15 0.50
ACGTcount: A:0.34, C:0.08, G:0.07, T:0.51
Consensus pattern (24 bp):
TTATGTATATATCTTAACACTATA
Found at i:30558358 original size:25 final size:25
Alignment explanation
Indices: 30558326--30558374 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
30558316 ATATATCTTA
**
30558326 ACTATATTATGTATGTATTTTTAAC
1 ACTATATTATGTACATATTTTTAAC
30558351 ACTATATTATGTACATATTTTTAA
1 ACTATATTATGTACATATTTTTAA
30558375 TATTATCACG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.35, C:0.08, G:0.06, T:0.51
Consensus pattern (25 bp):
ACTATATTATGTACATATTTTTAAC
Found at i:30558552 original size:16 final size:15
Alignment explanation
Indices: 30558528--30558575 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
30558518 TAATTATTAT
*
30558528 TATTCTAATATTTTGA
1 TATTTTAATATTTT-A
30558544 TATTTTAATATTTTA
1 TATTTTAATATTTTA
30558559 TATTTTATATATTTTA
1 TATTTTA-ATATTTTA
30558575 T
1 T
30558576 TATTCACATC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (15 bp):
TATTTTAATATTTTA
Found at i:30558563 original size:7 final size:8
Alignment explanation
Indices: 30558528--30558579 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
30558518 TAATTATTAT
*
30558528 TATTCTAA
1 TATTTTAA
*
30558536 TATTTTGA
1 TATTTTAA
30558544 TATTTTAA
1 TATTTTAA
30558552 TATTTT-A
1 TATTTTAA
30558559 TATTTTATA
1 TATTTTA-A
*
30558568 TATTTTAT
1 TATTTTAA
30558576 TATT
1 TATT
30558580 CACATCATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 23 0.61
9 8 0.21
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (8 bp):
TATTTTAA
Found at i:30560772 original size:148 final size:145
Alignment explanation
Indices: 30560500--30560929 Score: 603
Period size: 148 Copynumber: 2.9 Consensus size: 145
30560490 TAAATAGAAT
* * * * * * * *
30560500 TGATAATTGTGCATAATAAAACTCAAATATGAGCCCCAAATTTTAATTGTTGAGGAAAGGTATAG
1 TGATAATTGTGTATAATAAAACTCGAATTTGGGTCTCAAATTTTAATTGTTAAGGAAAGCTATAG
* * *
30560565 TTTTGATTTGAACAATGTAACCTTTCACATCTCTAACATTTTATCTTGTTTTCAGAGGATGAGTC
66 TTTTTATTTGAACAATGTAA-CTTTCACGTCTCTAACATTTTATCTTGTTTTCAAAGGATGAGTC
30560630 ACATTAGAGACTCACATA
130 ACATTAGAGACT--CATA
30560648 TGATAATTGTGTATAATAAAACTCGAATTTGGGTCTCAAATTTTAATTGCTT-AGGAAAGCTATA
1 TGATAATTGTGTATAATAAAACTCGAATTTGGGTCTCAAATTTTAATTG-TTAAGGAAAGCTATA
*
30560712 GTTTTTATTTGAACAATGTAACTTTCTACGCCTCTAACATTTTATCTTGTTTTCAAAGGATGAGT
65 GTTTTTATTTGAACAATGTAACTTTC-ACGTCTCTAACATTTTATCTTGTTTTCAAAGGATGAGT
30560777 CACATTAGAGACTCATA
129 CACATTAGAGACTCATA
* *
30560794 TGAAAATTGTGTATAATAAAACTCGAATTTGGGTCTCAAATTTTAATTGTTAAGGAGAGCTATAG
1 TGATAATTGTGTATAATAAAACTCGAATTTGGGTCTCAAATTTTAATTGTTAAGGAAAGCTATAG
* * * * *
30560859 TTTTTATTTGAACAATGTAAACCTCCATGTCTATAACATTTTATCTTGTTCTCAAAATGG-TGAG
66 TTTTTATTTGAACAATGT-AACTTTCACGTCTCTAACATTTTATCTTGTTTTC-AAA-GGATGAG
30560923 TCACATT
128 TCACATT
30560930 GGATATTCAC
Statistics
Matches: 257, Mismatches: 19, Indels: 13
0.89 0.07 0.04
Matches are distributed among these distances:
145 2 0.01
146 105 0.41
147 24 0.09
148 124 0.48
149 2 0.01
ACGTcount: A:0.33, C:0.14, G:0.15, T:0.38
Consensus pattern (145 bp):
TGATAATTGTGTATAATAAAACTCGAATTTGGGTCTCAAATTTTAATTGTTAAGGAAAGCTATAG
TTTTTATTTGAACAATGTAACTTTCACGTCTCTAACATTTTATCTTGTTTTCAAAGGATGAGTCA
CATTAGAGACTCATA
Found at i:30563756 original size:2 final size:2
Alignment explanation
Indices: 30563751--30563782 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
30563741 TTTATTATTT
30563751 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
30563783 ATAGATTCAA
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):
TA
Found at i:30568609 original size:27 final size:26
Alignment explanation
Indices: 30568572--30568737 Score: 215
Period size: 27 Copynumber: 6.2 Consensus size: 26
30568562 AGCATGGCTG
* * *
30568572 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGATCAGATAATGTGGCAGAGCCA
30568598 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAT-CAGATAAT-GTGGCAGAGCCA
*
30568626 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGATCAGATA-ATGTGGCAGAGCCA
*
30568653 CCAGATCAGATATTGTGGCAGAGCCA
1 CCAGATCAGATAATGTGGCAGAGCCA
*
30568679 CCAGATCAGATATTTGTGGCAGAGCCA
1 CCAGATCAGATA-ATGTGGCAGAGCCA
* *
30568706 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGATCAGATA-ATGTGGCAGAGCCA
30568733 CCAGA
1 CCAGA
30568738 ACGCTTCCTC
Statistics
Matches: 129, Mismatches: 7, Indels: 7
0.90 0.05 0.05
Matches are distributed among these distances:
26 30 0.23
27 82 0.64
28 17 0.13
ACGTcount: A:0.34, C:0.23, G:0.25, T:0.18
Consensus pattern (26 bp):
CCAGATCAGATAATGTGGCAGAGCCA
Found at i:30568689 original size:53 final size:53
Alignment explanation
Indices: 30568572--30568739 Score: 248
Period size: 53 Copynumber: 3.1 Consensus size: 53
30568562 AGCATGGCTG
* * *
30568572 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCACCAGAT-CAGAT-ATTGTGGCAGAGCCA
30568626 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTGTGGCAGAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTGTGGCAGAGCCA
* * *
30568679 CCAGATCAGATATTTGTGGCAGAGCCACCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATA-TTGTGGCAGAGCCA
30568733 CCAGAAC
1 CCAGAAC
30568740 GCTTCCTCCA
Statistics
Matches: 105, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
53 51 0.49
54 36 0.34
55 18 0.17
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (53 bp):
CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTGTGGCAGAGCCA
Found at i:30568706 original size:80 final size:81
Alignment explanation
Indices: 30568572--30568739 Score: 248
Period size: 80 Copynumber: 2.1 Consensus size: 81
30568562 AGCATGGCTG
*
30568572 CCAGAACAGATAATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCACCAGAACAGAT
1 CCAGAACAGATAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCACCAGAACAGAT
30568637 ATATGTGGCAGAGCCA
66 ATATGTGGCAGAGCCA
* * * * * *
30568653 CCAGATCAGATATTGTGGCAGAGCCACCAGAT-CAGATATTTGTGGCAGAGCCACCAGATCAGAT
1 CCAGAACAGATAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCACCAGAACAGAT
* *
30568717 ATTTGTGGCATAGCCA
66 ATATGTGGCAGAGCCA
30568733 CCAGAAC
1 CCAGAAC
30568740 GCTTCCTCCA
Statistics
Matches: 77, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
80 49 0.64
81 28 0.36
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (81 bp):
CCAGAACAGATAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCACCAGAACAGAT
ATATGTGGCAGAGCCA
Found at i:30570393 original size:26 final size:26
Alignment explanation
Indices: 30570355--30570438 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
30570345 CATGAAATTC
* *
30570355 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTA
30570381 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
30570407 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
30570433 TTATCA
1 TTATCA
30570439 ATTTGTATCA
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:0.36, C:0.24, G:0.06, T:0.35
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCTA
Found at i:30574398 original size:26 final size:26
Alignment explanation
Indices: 30574369--30574509 Score: 183
Period size: 27 Copynumber: 5.3 Consensus size: 26
30574359 AGCATGGCTG
* *
30574369 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
30574395 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
30574423 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
30574450 CCAGATCAGATATTGTGGCAGAGCCA
1 CCAGAACAGATAATGTGGCAGAGCCA
* * *
30574476 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
30574503 CCAGAAC
1 CCAGAAC
30574510 GCTTCCTCCA
Statistics
Matches: 105, Mismatches: 6, Indels: 7
0.89 0.05 0.06
Matches are distributed among these distances:
26 30 0.29
27 58 0.55
28 17 0.16
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:30574486 original size:53 final size:55
Alignment explanation
Indices: 30574369--30574507 Score: 203
Period size: 53 Copynumber: 2.6 Consensus size: 55
30574359 AGCATGGCTG
* *
30574369 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
*
30574423 CCAGAACAGATATATGTGGCAGAGCCACCAGAT-CAGAT-ATTGTGGCAGAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
* * *
30574476 CCAGATCAGATATTTGTGGCATAGCCACCAGA
1 CCAGAACAGATATATGTGGCAGAGCCACCAGA
30574508 ACGCTTCCTC
Statistics
Matches: 78, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
53 43 0.55
54 17 0.22
55 18 0.23
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.17
Consensus pattern (55 bp):
CCAGAACAGATATATGTGGCAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
Found at i:30576191 original size:26 final size:26
Alignment explanation
Indices: 30576122--30576204 Score: 141
Period size: 26 Copynumber: 3.2 Consensus size: 26
30576112 CATGAAATTC
* *
30576122 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTA
30576148 TTATCAT-GAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
30576173 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
30576199 TTATCA
1 TTATCA
30576205 ATTTGTATCA
Statistics
Matches: 54, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
25 23 0.43
26 31 0.57
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCTA
Found at i:30576868 original size:19 final size:20
Alignment explanation
Indices: 30576841--30576879 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
30576831 GTTTTAGTCA
30576841 AATTGAAAAC-TTTAAAAAT
1 AATTGAAAACATTTAAAAAT
* *
30576860 AATTTAAAACATTTAGAAAT
1 AATTGAAAACATTTAAAAAT
30576880 TGATATGGAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.56, C:0.05, G:0.05, T:0.33
Consensus pattern (20 bp):
AATTGAAAACATTTAAAAAT
Found at i:30579074 original size:30 final size:30
Alignment explanation
Indices: 30578926--30579074 Score: 237
Period size: 30 Copynumber: 5.0 Consensus size: 30
30578916 GCTACCTCCA
30578926 ACTCCACTAGCCACACTTGCTCCACCA-CT
1 ACTCCACTAGCCACACTTGCTCCACCACCT
* *
30578955 AACTCCACTAACCACACTTGCTCCACCACCA
1 -ACTCCACTAGCCACACTTGCTCCACCACCT
*
30578986 ACTCCACTAGCCACACTTGCTCCACTACCT
1 ACTCCACTAGCCACACTTGCTCCACCACCT
*
30579016 ACTCTACTAGCCACACTTGCTCCACCACCT
1 ACTCCACTAGCCACACTTGCTCCACCACCT
*
30579046 ACTCCATTAGCCACACTTGCTCCACCACC
1 ACTCCACTAGCCACACTTGCTCCACCACC
30579075 ACTTGTACCT
Statistics
Matches: 109, Mismatches: 9, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
30 108 0.99
31 1 0.01
ACGTcount: A:0.26, C:0.48, G:0.06, T:0.21
Consensus pattern (30 bp):
ACTCCACTAGCCACACTTGCTCCACCACCT
Found at i:30579599 original size:24 final size:23
Alignment explanation
Indices: 30579551--30579602 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 23
30579541 TTTTTTTTGT
*
30579551 TATTATTATATTTCTTAATATTA
1 TATTATTATATTTCTTAATAATA
*
30579574 TATTATATATATATTCTT-TTAATA
1 TATTAT-TATAT-TTCTTAATAATA
30579598 TATTA
1 TATTA
30579603 GGTATATTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 6 0.24
24 14 0.56
25 5 0.20
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.60
Consensus pattern (23 bp):
TATTATTATATTTCTTAATAATA
Found at i:30579644 original size:23 final size:22
Alignment explanation
Indices: 30579618--30579693 Score: 75
Period size: 23 Copynumber: 3.3 Consensus size: 22
30579608 ATTCTAAATT
30579618 CTATATTACGTATATATATTATA
1 CTATATTA-GTATATATATTATA
* *
30579641 CTATTTTATGTATATATCTTTAATA
1 CTATATTA-GTATATAT-ATT-ATA
30579666 CTATATTA-TATATATATATATA
1 CTATATTAGTATATATAT-TATA
30579688 -TATATT
1 CTATATT
30579694 TTTCTACATG
Statistics
Matches: 45, Mismatches: 5, Indels: 8
0.78 0.09 0.14
Matches are distributed among these distances:
21 6 0.13
22 4 0.09
23 23 0.51
24 2 0.04
25 10 0.22
ACGTcount: A:0.38, C:0.07, G:0.03, T:0.53
Consensus pattern (22 bp):
CTATATTAGTATATATATTATA
Found at i:30579656 original size:25 final size:25
Alignment explanation
Indices: 30579628--30579695 Score: 79
Period size: 25 Copynumber: 2.8 Consensus size: 25
30579618 CTATATTACG
*
30579628 TATATATATTATACTATTTTATGTA
1 TATATATATTATACTATTTTATATA
* *
30579653 TATATCT-TTAATACTATATTATATA
1 TATATATATT-ATACTATTTTATATA
30579678 TATATATA-TATA-TATTTT
1 TATATATATTATACTATTTT
30579696 TCTACATGTT
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
23 5 0.14
24 5 0.14
25 26 0.72
ACGTcount: A:0.38, C:0.04, G:0.01, T:0.56
Consensus pattern (25 bp):
TATATATATTATACTATTTTATATA
Found at i:30579733 original size:26 final size:25
Alignment explanation
Indices: 30579709--30579771 Score: 74
Period size: 25 Copynumber: 2.5 Consensus size: 25
30579699 ACATGTTATT
*
30579709 TATGTATATATTTTA-ATTATATTATG
1 TATGTAT-T-TTTTACACTATATTATG
30579735 TATGTATTTTTTACACTATATTATG
1 TATGTATTTTTTACACTATATTATG
**
30579760 TACATATTTTTT
1 TATGTATTTTTT
30579772 TATATCTATT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
24 5 0.15
25 21 0.64
26 7 0.21
ACGTcount: A:0.30, C:0.05, G:0.06, T:0.59
Consensus pattern (25 bp):
TATGTATTTTTTACACTATATTATG
Found at i:30579780 original size:27 final size:25
Alignment explanation
Indices: 30579714--30579785 Score: 67
Period size: 25 Copynumber: 2.8 Consensus size: 25
30579704 TTATTTATGT
* *
30579714 ATATATTTTAAT-TATATTATGTAT
1 ATATTTTTTAATCTATATTATGTAC
*
30579738 GTATTTTTTACA-CTATATTATGTAC
1 ATATTTTTTA-ATCTATATTATGTAC
*
30579763 ATATTTTTTTATATCTATTTTAT
1 ATA-TTTTTTA-ATCTATATTAT
30579786 ACATATGTAT
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
24 8 0.21
25 14 0.37
26 8 0.21
27 8 0.21
ACGTcount: A:0.31, C:0.06, G:0.04, T:0.60
Consensus pattern (25 bp):
ATATTTTTTAATCTATATTATGTAC
Found at i:30579860 original size:25 final size:24
Alignment explanation
Indices: 30579832--30579887 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
30579822 GTTATATTTT
*
30579832 CACTATTTTAT-GTATATACTTCAAA
1 CACTATTATATAGTATAT--TTCAAA
*
30579857 CACTA-TATATAGTATATTTCTAA
1 CACTATTATATAGTATATTTCAAA
30579880 CACTATTA
1 CACTATTA
30579888 CTATTTATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 10 0.37
24 6 0.22
25 11 0.41
ACGTcount: A:0.38, C:0.16, G:0.04, T:0.43
Consensus pattern (24 bp):
CACTATTATATAGTATATTTCAAA
Found at i:30586017 original size:39 final size:39
Alignment explanation
Indices: 30585949--30586204 Score: 338
Period size: 39 Copynumber: 6.5 Consensus size: 39
30585939 ACAAAGCATG
* * * *
30585949 CGGGACTTTAAGCTCGGATATAATACCAGCAC-AAAGCCTG
1 CGGGAC-TT-AGCCCGGATATAACACCAGCACGAATGCCTT
* * *
30585989 CGGGACTTTAGCCCGGATATAATACCAGCAC-AAAGCCTG
1 CGGGAC-TTAGCCCGGATATAACACCAGCACGAATGCCTT
30586028 CGGGACTTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGAC-TTAGCCCGGATATAACACCAGCACGAATGCCTT
*
30586068 CGGG-CTTAACCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
* *
30586106 CAGGACTTAGCTCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
30586145 CGGGACTTAGCCCGGATATAACACCAGTACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
* *
30586184 CAGGACTTAGCCCGGGTATAA
1 CGGGACTTAGCCCGGATATAA
30586205 TTCTCCATTA
Statistics
Matches: 201, Mismatches: 13, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
38 35 0.17
39 147 0.73
40 19 0.09
ACGTcount: A:0.30, C:0.28, G:0.23, T:0.20
Consensus pattern (39 bp):
CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
Found at i:30586167 original size:116 final size:117
Alignment explanation
Indices: 30585963--30586204 Score: 337
Period size: 116 Copynumber: 2.1 Consensus size: 117
30585953 ACTTTAAGCT
* * *
30585963 CGGATATAATACCAGCACAAAGCCTGCGGGACTTTAGCCCGGATATAATACCAGCACAAAGCCTG
1 CGGATATAACACCAGCACAAAGCCTGCAGGACTTTAGCCCGGATATAACACCAGCACAAAGCCTG
*
30586028 CGGGACTTTAGCCCGGATATAACACCAGCACGAATGCCTTC-GGGCTTAACC
66 CGGGACTTTAGCCCGGATATAACACCAGCACGAATGCCTTCAGGACTTAACC
* * * *
30586079 CGGATATAACACCAGCACGAATGCCTTCAGGAC-TTAGCTCGGATATAACACCAGCACGAATGCC
1 CGGATATAACACCAGCAC-AAAGCCTGCAGGACTTTAGCCCGGATATAACACCAGCAC-AAAGCC
* * *
30586143 TTCGGGAC-TTAGCCCGGATATAACACCAGTACGAATGCCTTCAGGACTTAGCC
64 TGCGGGACTTTAGCCCGGATATAACACCAGCACGAATGCCTTCAGGACTTAACC
*
30586196 CGGGTATAA
1 CGGATATAA
30586205 TTCTCCATTA
Statistics
Matches: 111, Mismatches: 12, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
116 72 0.65
117 39 0.35
ACGTcount: A:0.30, C:0.29, G:0.22, T:0.19
Consensus pattern (117 bp):
CGGATATAACACCAGCACAAAGCCTGCAGGACTTTAGCCCGGATATAACACCAGCACAAAGCCTG
CGGGACTTTAGCCCGGATATAACACCAGCACGAATGCCTTCAGGACTTAACC
Found at i:30586742 original size:110 final size:110
Alignment explanation
Indices: 30586549--30586768 Score: 422
Period size: 110 Copynumber: 2.0 Consensus size: 110
30586539 TGTGGATAGG
*
30586549 CTACTCGATTGCTTTCTCCTTTCCCCTATCTGATTTAGTTCCTCTTTGCTCTTGAGCTTTAAATT
1 CTACTAGATTGCTTTCTCCTTTCCCCTATCTGATTTAGTTCCTCTTTGCTCTTGAGCTTTAAATT
30586614 TAAACAAATGAATTTGTTTAATTACTTACTCAACTTTAATTCTAT
66 TAAACAAATGAATTTGTTTAATTACTTACTCAACTTTAATTCTAT
*
30586659 CTACTAGATTGCTTTCTCCTTTCCCCTATCTGATTTAGTTCCTCTTTGCTCTTGAGTTTTAAATT
1 CTACTAGATTGCTTTCTCCTTTCCCCTATCTGATTTAGTTCCTCTTTGCTCTTGAGCTTTAAATT
30586724 TAAACAAATGAATTTGTTTAATTACTTACTCAACTTTAATTCTAT
66 TAAACAAATGAATTTGTTTAATTACTTACTCAACTTTAATTCTAT
30586769 AATAGTCACA
Statistics
Matches: 108, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
110 108 1.00
ACGTcount: A:0.24, C:0.21, G:0.08, T:0.47
Consensus pattern (110 bp):
CTACTAGATTGCTTTCTCCTTTCCCCTATCTGATTTAGTTCCTCTTTGCTCTTGAGCTTTAAATT
TAAACAAATGAATTTGTTTAATTACTTACTCAACTTTAATTCTAT
Found at i:30594866 original size:8 final size:8
Alignment explanation
Indices: 30594853--30594882 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
30594843 GGGCATCTTA
30594853 AAAAAAAG
1 AAAAAAAG
30594861 AAAAAAAG
1 AAAAAAAG
30594869 AAAAAAAAG
1 -AAAAAAAG
30594878 AAAAA
1 AAAAA
30594883 GAGAGAGGGA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 13 0.62
9 8 0.38
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (8 bp):
AAAAAAAG
Found at i:30594866 original size:9 final size:9
Alignment explanation
Indices: 30594852--30594882 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
30594842 AGGGCATCTT
30594852 AAAAAAAAG
1 AAAAAAAAG
30594861 -AAAAAAAG
1 AAAAAAAAG
30594869 AAAAAAAAG
1 AAAAAAAAG
30594878 AAAAA
1 AAAAA
30594883 GAGAGAGGGA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.38
9 13 0.62
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:30595844 original size:17 final size:17
Alignment explanation
Indices: 30595810--30595844 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
30595800 CGCTGAGGTA
* *
30595810 TTTTCAATTTCTGTTTT
1 TTTTCAATTTATGCTTT
30595827 TTTTCAATTTATGCTTT
1 TTTTCAATTTATGCTTT
30595844 T
1 T
30595845 CAAAAATCAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.14, C:0.11, G:0.06, T:0.69
Consensus pattern (17 bp):
TTTTCAATTTATGCTTT
Found at i:30595940 original size:13 final size:13
Alignment explanation
Indices: 30595896--30595940 Score: 72
Period size: 13 Copynumber: 3.4 Consensus size: 13
30595886 GCACGAGGTA
30595896 TTTTTAATTTCTG
1 TTTTTAATTTCTG
30595909 TTTTTCAATTTCTG
1 TTTTT-AATTTCTG
*
30595923 CTTTTAATTTCTG
1 TTTTTAATTTCTG
30595936 TTTTT
1 TTTTT
30595941 CAAAAATCAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
13 17 0.59
14 12 0.41
ACGTcount: A:0.13, C:0.11, G:0.07, T:0.69
Consensus pattern (13 bp):
TTTTTAATTTCTG
Found at i:30596071 original size:99 final size:99
Alignment explanation
Indices: 30595828--30596204 Score: 414
Period size: 99 Copynumber: 3.9 Consensus size: 99
30595818 TTCTGTTTTT
* * *
30595828 TTTCAATTTATGCTTTTCAAAAATCAACTCATATTGCGA-AGGTGAGCTGAGCCTCGAGG-CA--
1 TTTCAAATTCTGCTTTTC-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGGACACG
* *
30595889 C-GAGGTATTTTTAATTTCTGTTTTTCAATTTCTGC
64 CTGAGGTATTTTCAATTTCTGTTTTTCAATTTATGC
* * * *
30595924 TTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGC
1 TTTCAAATTCTGCTTTTC-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
*
30595989 TGAGGTATTTTCAATTTCTGTTTTTCAATTTTTGCC
65 TGAGGTATTTTCAATTTCTGTTTTTCAATTTATG-C
*
30596025 TTACAAATTCTGCTTTTC-AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCT
1 TTTCAAATTCTGCTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCT
*
30596089 GAGGTATTTTCAATTT-TCGTTTTTTTAATTTATG-
66 GAGGTATTTTCAATTTCT-G-TTTTTCAATTTATGC
*
30596123 TTTCTAAA-----------AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGC
1 TTTC-AAATTCTGCTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
* * *
30596177 TGAGGTAATTTCAATTTTTGTTTGTCAA
65 TGAGGTATTTTCAATTTCTGTTTTTCAA
30596205 AACTCAACTC
Statistics
Matches: 252, Mismatches: 18, Indels: 30
0.84 0.06 0.10
Matches are distributed among these distances:
88 6 0.02
89 61 0.24
90 1 0.00
96 39 0.15
97 17 0.07
98 4 0.02
99 66 0.26
100 43 0.17
101 15 0.06
ACGTcount: A:0.26, C:0.17, G:0.19, T:0.39
Consensus pattern (99 bp):
TTTCAAATTCTGCTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCT
GAGGTATTTTCAATTTCTGTTTTTCAATTTATGC
Found at i:30596481 original size:75 final size:74
Alignment explanation
Indices: 30596115--30596603 Score: 642
Period size: 75 Copynumber: 6.7 Consensus size: 74
30596105 TCGTTTTTTT
* * * * *
30596115 AATTTATG-TTTCTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGCTG
1 AATTTCTGTTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACGTTG
30596179 AGGTAATTTC
65 AGGTAATTTC
* * * *
30596189 AATTTTTGTTTGTC--AAAACTCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAAGACACGTTG
1 AATTTCTGTTT-TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACGTTG
30596252 AGGT-ATTTC
65 AGGTAATTTC
* * * **
30596261 AATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGATAGGTGAGTTGAGCCTCAGGACACGCAG
1 AATTTCTG-TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACGTTG
30596326 AGGTAATTTC
65 AGGTAATTTC
*
30596336 AATTTTTGTTTGTC--AAAAATCAACTCATATTGCGAGAGGTGA---G--CCTCAAGACACGTTG
1 AATTTCTGTTT-TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACGTTG
*
30596394 AGGTATTTTC
65 AGGTAATTTC
* *
30596404 AATTTCTGTCTTTAAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACGTTG
1 AATTTCTGT-TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACGTTG
*
30596469 AGGTATTTTC
65 AGGTAATTTC
*
30596479 AATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGATAGGTGAGTTGAACCTCAAGACACGTTG
1 AATTTCTG-TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACGTTG
30596544 AGGTAATTTC
65 AGGTAATTTC
* *
30596554 AATTTTTGTTTTCAAAAAAA-CAGCTCATATTGCGAGAGGTGAGTTGAACC
1 AATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACC
30596604 AAGACGCTGA
Statistics
Matches: 370, Mismatches: 29, Indels: 33
0.86 0.07 0.08
Matches are distributed among these distances:
68 30 0.08
69 2 0.01
70 28 0.08
72 14 0.04
73 107 0.29
74 69 0.19
75 117 0.32
76 3 0.01
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (74 bp):
AATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACGTTGA
GGTAATTTC
Found at i:30596520 original size:218 final size:215
Alignment explanation
Indices: 30596115--30596596 Score: 698
Period size: 218 Copynumber: 2.2 Consensus size: 215
30596105 TCGTTTTTTT
* * *
30596115 AATTTATGTTTCTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGCTGA
1 AATTTTTGTTT-TCAAAAAATCAACTCATATTGCGAG-A--G-G-TGAGCCTCAAGACACGCTGA
* * * *
30596180 GGTAATTTCAATTTTTGTTTGTCAAAACTCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAAGA
60 GGTAATTTCAATTTCTGTTTGTAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAACCTCAAGA
30596245 CACGTTGAGGTATTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGATAGGTGAGTTGA
125 CACGTTGAGGTATTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGATAGGTGAGTTGA
* *
30596310 GCCTCAGGACACGCAGAGGTAATTTC
190 ACCTCAAGACACGCAGAGGTAATTTC
* *
30596336 AATTTTTGTTTGTC-AAAAATCAACTCATATTGCGAGAGGTGAGCCTCAAGACACGTTGAGGTAT
1 AATTTTTGTTT-TCAAAAAATCAACTCATATTGCGAGAGGTGAGCCTCAAGACACGCTGAGGTAA
* *
30596400 TTTCAATTTCTGTCTT-TAAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGACA
65 TTTCAATTTCTGT-TTGT--AAAAAATCAACTCATATTGCAAGAGGTGAGTTGAACCTCAAGACA
30596464 CGTTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGATAGGTGAGTTGAA
127 CGTTGAGGTA-TTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGATAGGTGAGTTGAA
**
30596529 CCTCAAGACACGTTGAGGTAATTTC
191 CCTCAAGACACGCAGAGGTAATTTC
* *
30596554 AATTTTTGTTTTCAAAAAAACAGCTCATATTGCGAGAGGTGAG
1 AATTTTTGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAG
30596597 TTGAACCAAG
Statistics
Matches: 238, Mismatches: 18, Indels: 13
0.88 0.07 0.05
Matches are distributed among these distances:
215 35 0.15
216 3 0.01
217 53 0.22
218 113 0.47
219 1 0.00
220 22 0.09
221 11 0.05
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (215 bp):
AATTTTTGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGCCTCAAGACACGCTGAGGTAAT
TTCAATTTCTGTTTGTAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAACCTCAAGACACGTT
GAGGTATTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGATAGGTGAGTTGAACCTCA
AGACACGCAGAGGTAATTTC
Found at i:30596628 original size:75 final size:80
Alignment explanation
Indices: 30596256--30596685 Score: 304
Period size: 75 Copynumber: 5.7 Consensus size: 80
30596246 ACGTTGAGGT
* * * * *
30596256 ATTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGATAGGTGAGTTGAGCCTCAGGACA
1 ATTTCAATTTCTGTCTTTCAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGA-A
**
30596321 CGCAGA-G-G---T-A
65 CGTTGAGGTGTTTTCA
* *
30596331 ATTTCAATTTTTGT-TTGTC--AAAAATCAACTCATATTGCGAGAGGTGA---G--CCTCAAGAC
1 ATTTCAATTTCTGTCTT-TCAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGA-
30596388 ACGTTGA-G-G---T-A
64 ACGTTGAGGTGTTTTCA
* *
30596399 TTTTCAATTTCTGTCTTTAAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGACA
1 ATTTCAATTTCTGTCTTTCAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGA-A
30596464 CGTTGA-G-G---T-A
65 CGTTGAGGTGTTTTCA
* * * *
30596474 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGATAGGTGAGTTGAACCTCAAGACA
1 ATTTCAATTTCTGTCTTTCAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGA-A
30596539 CGTTGA-G-G---T-A
65 CGTTGAGGTGTTTTCA
*
30596549 ATTTCAATTTTTGT-TTTCAAAAAAA-CAGCTCATATTGCGAGAGGTGAGTTGAA-C-CAAG-AC
1 ATTTCAATTTCTGTCTTTCAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGAAC
*
30596609 GCTGAGGTGTTTTCCA
66 GTTGAGGTGTTTT-CA
* * *
30596625 TTTCTGTTCTTCAATTTCTGTGTTTCAAAAAAATCAGCTCATATTGCGAGTGGTGAGTTGA
1 ------AT-TTCAATTTCTGTCTTTCAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGA
30596686 GCCTTGACTC
Statistics
Matches: 309, Mismatches: 21, Indels: 40
0.84 0.06 0.11
Matches are distributed among these distances:
68 30 0.10
69 8 0.03
70 29 0.09
71 5 0.02
72 1 0.00
73 54 0.17
74 14 0.05
75 118 0.38
76 1 0.00
82 1 0.00
83 11 0.04
84 11 0.04
85 26 0.08
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.34
Consensus pattern (80 bp):
ATTTCAATTTCTGTCTTTCAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGAAC
GTTGAGGTGTTTTCA
Found at i:30596745 original size:15 final size:14
Alignment explanation
Indices: 30596709--30596741 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
30596699 CGCTGAGGTA
30596709 TTTTCAAATTCTGT
1 TTTTCAAATTCTGT
*
30596723 TTTTCAAATTTTGT
1 TTTTCAAATTCTGT
30596737 TTTTC
1 TTTTC
30596742 CAAAAAATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.18, C:0.12, G:0.06, T:0.64
Consensus pattern (14 bp):
TTTTCAAATTCTGT
Found at i:30596855 original size:90 final size:87
Alignment explanation
Indices: 30596550--30597120 Score: 515
Period size: 91 Copynumber: 6.5 Consensus size: 87
30596540 GTTGAGGTAA
* * *
30596550 TTTCAATTTTTGTTTTCAAAAAAA-CAGCTCATATTGCGAGAGGTGAGTTGA-AC-CA--AGACG
1 TTTCAA-TTTTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCACACG
* *
30596610 CTGAGGTGTTTTCCATTTCTGTT
65 CTGAGGTATTTTCAATTTCTGTT
* * * * *
30596633 CTTCAATTTCTGTGTTTCAAAAAAATCAGCTCATATTGCGAGTGGTGAGTTGAGCCTTGACTCAC
1 TTTCAATTT-TGT-TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-TCA-GCAC
*
30596698 ACGCTGAGGTATTTTCAAATTCTGTT
62 ACGCTGAGGTATTTTCAATTTCTGTT
* * *
30596724 TTTCAAATTTTGTTTTTCCAAAAAATCAACTCATATTGCGAGAGGTGAGTTCAGCCTCAGGACAC
1 TTTC-AATTTTG-TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCACAC
* *
30596789 GCTGAGATATTTTCAATTTCTTTTT
64 GCTGAGGTATTTTCAATTTC-TGTT
30596814 TTTCAATTTATGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCAC
1 TTTCAATTT-TGTTT-TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG--CAC
* * *
30596879 ACGCCGAGGTATTTTCAATTGATTTTTT
62 ACGCTGAGGTATTTTCAATT--TCTGTT
* * *
30596907 TTTCAATTTATGCTTTGC--AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGTCAC
1 TTTCAATTT-TG-TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AG-CAC
** **
30596970 ATAC-GAGGTATTTTCAAAATCTGTT
62 ACGCTGAGGTATTTTCAATTTCTGTT
* * ** *
30596995 TTACAAATTTTGTTTT---AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACG
1 TTTC-AATTTTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCACAC-
*
30597057 TGCTGAGCTATTTTCAATTT-TGTT
64 -GCTGAGGTATTTTCAATTTCTGTT
* * *
30597081 TTT-AATGTTTAGTTTT--AAAGAGTCAATTCATATTGCGAGA
1 TTTCAAT-TTT-GTTTTCAAAAAAATCAACTCATATTGCGAGA
30597121 AATGAGTTAA
Statistics
Matches: 412, Mismatches: 49, Indels: 50
0.81 0.10 0.10
Matches are distributed among these distances:
82 3 0.01
83 8 0.02
84 17 0.04
85 31 0.08
86 48 0.12
87 36 0.09
88 10 0.02
89 35 0.08
90 66 0.16
91 110 0.27
92 27 0.07
93 17 0.04
94 4 0.01
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.37
Consensus pattern (87 bp):
TTTCAATTTTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCACACGC
TGAGGTATTTTCAATTTCTGTT
Found at i:30596865 original size:181 final size:175
Alignment explanation
Indices: 30596550--30597138 Score: 578
Period size: 181 Copynumber: 3.3 Consensus size: 175
30596540 GTTGAGGTAA
* * * * *
30596550 TTTCAATTTTTGTTTTCAAAAAAACAGCTCATATTGCGAGAGGTGAGTTGA-AC-CA--AGACGC
1 TTTCAAATTTTGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
* * * * *
30596611 TGAGGTGTTTTCCATTTCTGTTCTTCAATTTCTGTGTTTCAAAAAAATCAGCTCATATTGCGAGT
66 TGAGGTATTTTCAATTTCTGTTTTTCAATTT-TGT-TTTCAAAAAAATCAACTCATATTGCGAGA
30596676 GGTGAGTTGAGCCTTGACTCACACGCTGAGGTATTTTCAAATTCTGTT
129 GGTGAGTTGAGCCTTGACTCACACGCTGAGGTATTTTCAAATT-TGTT
*
30596724 TTTCAAATTTTGTTTTTCCAAAAAATCAACTCATATTGCGAGAGGTGAGTTCAGCCTCAGGACAC
1 TTTCAAATTTTG-TTTT-CAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
* *
30596789 GCTGAGATATTTTCAATTTCTTTTTTTTCAATTTATGTTTGTCAAAAAAATCAACTCATATTGCG
64 GCTGAGGTATTTTCAATTTC-TGTTTTTCAATTT-TGTTT-TCAAAAAAATCAACTCATATTGCG
* * *
30596854 AGAGGTGAGTTGAGCCTCAGA-TCACACGCCGAGGTATTTTCAATTGATTTTTT
126 AGAGGTGAGTTGAGCCT-TGACTCACACGCTGAGGTATTTTCAA---ATTTGTT
* * * *
30596907 TTTC-AATTTATGCTTTGC-AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGTCAC
1 TTTCAAATTT-TG-TTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
* ** *
30596970 -ATACGAGGTATTTTCAAAATCTGTTTTACAAATTTTGTTTT---AAAAATCAACTCATATTGCG
64 GCT--GAGGTATTTTCAATTTCTGTTTTTC-AATTTTGTTTTCAAAAAAATCAACTCATATTGCG
* * ** * *
30597031 AGAAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAATTTTGTT
126 AGAGGTGAGTTGAGCCTTGACTCACACGCTGAGGTATTTTCAAATTTGTT
* * * ** *
30597081 TTT--AATGTTTAGTTTT-AAAGAGTCAATTCATATTGCGAGAAATGAGTTAAG-CTCAGGA
1 TTTCAAAT-TTT-GTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA
30597139 TCACATGCCG
Statistics
Matches: 347, Mismatches: 48, Indels: 42
0.79 0.11 0.10
Matches are distributed among these distances:
172 5 0.01
173 34 0.10
174 22 0.06
175 4 0.01
176 33 0.10
177 55 0.16
178 2 0.01
180 24 0.07
181 126 0.36
182 27 0.08
183 12 0.03
184 3 0.01
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.37
Consensus pattern (175 bp):
TTTCAAATTTTGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
TGAGGTATTTTCAATTTCTGTTTTTCAATTTTGTTTTCAAAAAAATCAACTCATATTGCGAGAGG
TGAGTTGAGCCTTGACTCACACGCTGAGGTATTTTCAAATTTGTT
Found at i:30597846 original size:14 final size:14
Alignment explanation
Indices: 30597825--30597870 Score: 62
Period size: 14 Copynumber: 3.5 Consensus size: 14
30597815 ACTTGCTCCA
30597825 CCAC-CTCCACTAG
1 CCACACTCCACTAG
30597838 CCACACTCCACTA-
1 CCACACTCCACTAG
*
30597851 CC-TACTCCACTAG
1 CCACACTCCACTAG
30597864 CCACACT
1 CCACACT
30597871 TGCTCTACCA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
12 9 0.32
13 8 0.29
14 11 0.39
ACGTcount: A:0.26, C:0.52, G:0.04, T:0.17
Consensus pattern (14 bp):
CCACACTCCACTAG
Found at i:30597912 original size:30 final size:30
Alignment explanation
Indices: 30597771--30597912 Score: 183
Period size: 30 Copynumber: 5.0 Consensus size: 30
30597761 GCTACCTCCA
30597771 ACTCCACTAGCCACACTTGCTCCACCA-CT
1 ACTCCACTAGCCACACTTGCTCCACCACCT
*
30597800 AACTCCACTAACCACACTTGCTCCACCA-C-
1 -ACTCCACTAGCCACACTTGCTCCACCACCT
*
30597829 -CTCCACTAGCCACA----CTCCACTACCT
1 ACTCCACTAGCCACACTTGCTCCACCACCT
*
30597854 ACTCCACTAGCCACACTTGCTCTACCACCT
1 ACTCCACTAGCCACACTTGCTCCACCACCT
*
30597884 ACTCCATTAGCCACACTTGCTCCACCACC
1 ACTCCACTAGCCACACTTGCTCCACCACC
30597913 ACTTGTACCT
Statistics
Matches: 98, Mismatches: 7, Indels: 14
0.82 0.06 0.12
Matches are distributed among these distances:
23 7 0.07
24 1 0.01
26 14 0.14
27 13 0.13
30 63 0.64
ACGTcount: A:0.25, C:0.49, G:0.06, T:0.20
Consensus pattern (30 bp):
ACTCCACTAGCCACACTTGCTCCACCACCT
Found at i:30598106 original size:16 final size:16
Alignment explanation
Indices: 30598070--30598108 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
30598060 CAAGGAGAAG
*
30598070 AGTTATTGTAAAGGCT
1 AGTTTTTGTAAAGGCT
*
30598086 AGTTTTTGTAGAGGCT
1 AGTTTTTGTAAAGGCT
30598102 AGTTTTT
1 AGTTTTT
30598109 TTTTTGGAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.23, C:0.05, G:0.26, T:0.46
Consensus pattern (16 bp):
AGTTTTTGTAAAGGCT
Found at i:30598438 original size:24 final size:24
Alignment explanation
Indices: 30598390--30598519 Score: 70
Period size: 23 Copynumber: 5.5 Consensus size: 24
30598380 TTTTTTTTGT
*
30598390 TATTAT-TATATTTCTTAATATTA
1 TATTATATATATTTCTTAATAATA
*
30598413 TATTATATATATATTCTT-TTAATA
1 TATTATATATAT-TTCTTAATAATA
* * **
30598437 TATTAGATATA-TTCTAAATTCTA
1 TATTATATATATTTCTTAATAATA
** * * *
30598460 TATTACGTATATATATT-ATACTA
1 TATTATATATATTTCTTAATAATA
* * * *
30598483 TTTTATGTATATATCTTTAATACTA
1 TATTATATATATTTC-TTAATAATA
*
30598508 TATTATTTATAT
1 TATTATATATAT
30598520 ATATATTTTT
Statistics
Matches: 83, Mismatches: 18, Indels: 10
0.75 0.16 0.09
Matches are distributed among these distances:
22 4 0.05
23 35 0.42
24 23 0.28
25 21 0.25
ACGTcount: A:0.36, C:0.06, G:0.02, T:0.55
Consensus pattern (24 bp):
TATTATATATATTTCTTAATAATA
Found at i:30598495 original size:25 final size:26
Alignment explanation
Indices: 30598467--30598526 Score: 79
Period size: 25 Copynumber: 2.4 Consensus size: 26
30598457 CTATATTACG
*
30598467 TATATATATT-ATACTATTTTATGTA
1 TATATATATTAATACTATATTATGTA
* *
30598492 TATATCT-TTAATACTATATTATTTA
1 TATATATATTAATACTATATTATGTA
30598517 TATATATATT
1 TATATATATT
30598527 TTTTCTACAT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
24 2 0.07
25 25 0.86
26 2 0.07
ACGTcount: A:0.37, C:0.05, G:0.02, T:0.57
Consensus pattern (26 bp):
TATATATATTAATACTATATTATGTA
Found at i:30598517 original size:29 final size:28
Alignment explanation
Indices: 30598484--30598574 Score: 89
Period size: 29 Copynumber: 3.2 Consensus size: 28
30598474 ATTATACTAT
30598484 TTTATGTATATATCTTTAATACTATATTA
1 TTTATGTATATAT-TTTAATACTATATTA
* ** *
30598513 TTTATATATATATTTTTTCTAC-ATGTTA
1 TTTATGTATATA-TTTTAATACTATATTA
30598541 TCTTATGTATATATTTTAAT--TATATTA
1 T-TTATGTATATATTTTAATACTATATTA
*
30598568 TGTATGT
1 TTTATGT
30598575 TTTTTTACAC
Statistics
Matches: 50, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
26 5 0.10
27 6 0.12
28 11 0.22
29 27 0.54
30 1 0.02
ACGTcount: A:0.31, C:0.05, G:0.05, T:0.58
Consensus pattern (28 bp):
TTTATGTATATATTTTAATACTATATTA
Found at i:30598579 original size:22 final size:24
Alignment explanation
Indices: 30598538--30598603 Score: 66
Period size: 22 Copynumber: 2.9 Consensus size: 24
30598528 TTTCTACATG
*
30598538 TTATCTTATGTATA-TATTTTA-A
1 TTATATTATGTATATTATTTTACA
* *
30598560 TTATATTATGTATGTTTTTTTACA
1 TTATATTATGTATATTATTTTACA
* *
30598584 CTATATTATGTACA-TATTTT
1 TTATATTATGTATATTATTTT
30598604 TTTATATCTA
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
22 12 0.34
23 11 0.31
24 12 0.34
ACGTcount: A:0.29, C:0.06, G:0.06, T:0.59
Consensus pattern (24 bp):
TTATATTATGTATATTATTTTACA
Found at i:30598603 original size:24 final size:23
Alignment explanation
Indices: 30598543--30598604 Score: 72
Period size: 24 Copynumber: 2.7 Consensus size: 23
30598533 ACATGTTATC
*
30598543 TTATGTATATA-TTTTAATTATA
1 TTATGTATATATTTTTAACTATA
* *
30598565 TTATGTATGTTTTTTTACACTATA
1 TTATGTATATATTTTTA-ACTATA
*
30598589 TTATGTACATATTTTT
1 TTATGTATATATTTTT
30598605 TTATATCTAT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
22 9 0.28
23 5 0.16
24 18 0.56
ACGTcount: A:0.29, C:0.05, G:0.06, T:0.60
Consensus pattern (23 bp):
TTATGTATATATTTTTAACTATA
Found at i:30598614 original size:27 final size:24
Alignment explanation
Indices: 30598543--30598619 Score: 70
Period size: 24 Copynumber: 3.2 Consensus size: 24
30598533 ACATGTTATC
*
30598543 TTATGTATA-TATTTTAAT-TATA
1 TTATGTATATTTTTTTAATCTATA
*
30598565 TTATGTATGTTTTTTTACA-CTATA
1 TTATGTATATTTTTTTA-ATCTATA
*
30598589 TTATGTACATATTTTTTTATATCTATT
1 TTATGT--ATATTTTTTTA-ATCTATA
30598616 TTAT
1 TTAT
30598620 ACATATGTAT
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
22 8 0.18
23 6 0.14
24 11 0.25
26 11 0.25
27 8 0.18
ACGTcount: A:0.29, C:0.05, G:0.05, T:0.61
Consensus pattern (24 bp):
TTATGTATATTTTTTTAATCTATA
Found at i:30598694 original size:25 final size:24
Alignment explanation
Indices: 30598666--30598721 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
30598656 GTTATATTTT
*
30598666 CACTATTTTAT-GTATATACTTCAAA
1 CACTATTATATAGTATAT--TTCAAA
*
30598691 CACTA-TATATAGTATATTTCTAA
1 CACTATTATATAGTATATTTCAAA
30598714 CACTATTA
1 CACTATTA
30598722 CTATTTATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 10 0.37
24 6 0.22
25 11 0.41
ACGTcount: A:0.38, C:0.16, G:0.04, T:0.43
Consensus pattern (24 bp):
CACTATTATATAGTATATTTCAAA
Found at i:30599624 original size:22 final size:22
Alignment explanation
Indices: 30599577--30599627 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
30599567 AATGGAACTA
* *
30599577 CTATTTTCTTGTTGTTTTAATG
1 CTATTTTCTTATTGTTTTAATC
**
30599599 CTATTTTCTTATTGTTTTCTTC
1 CTATTTTCTTATTGTTTTAATC
30599621 CTATTTT
1 CTATTTT
30599628 GTTACCATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.12, C:0.14, G:0.08, T:0.67
Consensus pattern (22 bp):
CTATTTTCTTATTGTTTTAATC
Found at i:30599970 original size:2 final size:2
Alignment explanation
Indices: 30599963--30600003 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
30599953 CCAAATCGAG
30599963 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
30600004 TCATTTATAC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:30601301 original size:18 final size:17
Alignment explanation
Indices: 30601269--30601320 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 17
30601259 GATGATTCAC
*
30601269 TTTAAATATTTTAAAAT
1 TTTAAATAATTTAAAAT
30601286 TTTAAATCAATTTAAAAT
1 TTTAAAT-AATTTAAAAT
*
30601304 TTCAACAATAATTTAAA
1 TT-TA-AATAATTTAAA
30601321 GATAATAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
17 7 0.23
18 11 0.37
19 9 0.30
20 3 0.10
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (17 bp):
TTTAAATAATTTAAAAT
Found at i:30610241 original size:18 final size:17
Alignment explanation
Indices: 30610210--30610244 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
30610200 GATTTAGGGT
30610210 TTAAATTTTTTAATTAA
1 TTAAATTTTTTAATTAA
30610227 TTAAATTTATTTAATTAA
1 TTAAATTT-TTTAATTAA
30610245 AAATCTATTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
TTAAATTTTTTAATTAA
Found at i:30614023 original size:13 final size:13
Alignment explanation
Indices: 30614005--30614029 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
30613995 GGTATTTGTA
30614005 TGAATGAAATTAT
1 TGAATGAAATTAT
30614018 TGAATGAAATTA
1 TGAATGAAATTA
30614030 GCATAATTGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.16, T:0.36
Consensus pattern (13 bp):
TGAATGAAATTAT
Found at i:30615787 original size:26 final size:26
Alignment explanation
Indices: 30615754--30615861 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
30615744 TGATACAAAT
30615754 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
30615780 TGACAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
30615806 TGATAATGGGTTAGGTAAATGTTCTA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
30615832 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
30615858 TGAT
1 TGAT
30615862 GGGAATTTCA
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 73 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:30621567 original size:46 final size:46
Alignment explanation
Indices: 30621500--30621865 Score: 504
Period size: 46 Copynumber: 8.0 Consensus size: 46
30621490 AGTGTGCTCT
30621500 CTGATA-GAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
30621546 CTGATATAAAACT-TGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAA-TGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
30621592 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
30621638 CTGATATGAAACGTGTAAGGCCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
30621684 CTGATATGAAATGTGTAAGATCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
30621730 GTGACATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *** * ** *
30621776 GTGACGGGGAATGAATAAGACCATGGTTGAATGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
30621822 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
30621866 TCATGTCGAA
Statistics
Matches: 292, Mismatches: 24, Indels: 8
0.90 0.07 0.02
Matches are distributed among these distances:
45 2 0.01
46 289 0.99
47 1 0.00
ACGTcount: A:0.38, C:0.15, G:0.25, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:30625329 original size:17 final size:17
Alignment explanation
Indices: 30625307--30625339 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
30625297 TGATATGCAT
*
30625307 ATAATATATATACACAC
1 ATAATATATACACACAC
30625324 ATAATATATACACACA
1 ATAATATATACACACA
30625340 ATTATAATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.55, C:0.18, G:0.00, T:0.27
Consensus pattern (17 bp):
ATAATATATACACACAC
Found at i:30631045 original size:23 final size:23
Alignment explanation
Indices: 30631002--30631046 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
30630992 TAATGTTATA
*
30631002 AAATTAAAGAATTAAATTATTCT
1 AAATTAAAGAATTAAAATATTCT
*
30631025 AAATTAAAGCA-TAAAGATATTC
1 AAATTAAAGAATTAAA-ATATTC
30631047 ACCATTTGAG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.53, C:0.07, G:0.07, T:0.33
Consensus pattern (23 bp):
AAATTAAAGAATTAAAATATTCT
Found at i:30631630 original size:14 final size:13
Alignment explanation
Indices: 30631607--30631641 Score: 61
Period size: 13 Copynumber: 2.6 Consensus size: 13
30631597 TACTCCGGAA
30631607 TTTATTTTTTTAT
1 TTTATTTTTTTAT
30631620 TTTATTTTTTTAT
1 TTTATTTTTTTAT
30631633 TATTATTTT
1 T-TTATTTT
30631642 AAAAAAACTC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 14 0.67
14 7 0.33
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (13 bp):
TTTATTTTTTTAT
Found at i:30632376 original size:21 final size:21
Alignment explanation
Indices: 30632352--30632469 Score: 61
Period size: 21 Copynumber: 5.9 Consensus size: 21
30632342 AAGTCTAGCT
30632352 GAAGCACATAAGTGCTAAACG
1 GAAGCACATAAGTGCTAAACG
**
30632373 GAAGC-C-TGAAG-GCT-AATT
1 GAAGCACAT-AAGTGCTAAACG
* * *
30632391 GAAGTACACAAGTGCTAAACA
1 GAAGCACATAAGTGCTAAACG
* ** *
30632412 TAAGC-CCGAAG-GCT-AACT
1 GAAGCACATAAGTGCTAAACG
*
30632430 GAAGCACACAAGTGCTAAACG
1 GAAGCACATAAGTGCTAAACG
* * *
30632451 GAAGCCCATCAGAGCTAAA
1 GAAGCACATAAGTGCTAAA
30632470 TTGAAACCCC
Statistics
Matches: 70, Mismatches: 19, Indels: 16
0.67 0.18 0.15
Matches are distributed among these distances:
18 13 0.19
19 15 0.21
20 14 0.20
21 28 0.40
ACGTcount: A:0.41, C:0.22, G:0.23, T:0.14
Consensus pattern (21 bp):
GAAGCACATAAGTGCTAAACG
Found at i:30632394 original size:39 final size:39
Alignment explanation
Indices: 30632334--30632457 Score: 176
Period size: 39 Copynumber: 3.2 Consensus size: 39
30632324 ATCGTAATCT
* * *
30632334 GAAGCCCGAAGTCTAGCTGAAGCACATAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
* * * *
30632373 GAAGCCTGAAGGCTAATTGAAGTACACAAGTGCTAAACA
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
*
30632412 TAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
30632451 GAAGCCC
1 GAAGCCC
30632458 ATCAGAGCTA
Statistics
Matches: 72, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 72 1.00
ACGTcount: A:0.38, C:0.23, G:0.24, T:0.15
Consensus pattern (39 bp):
GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
Found at i:30632848 original size:28 final size:28
Alignment explanation
Indices: 30632816--30632874 Score: 109
Period size: 28 Copynumber: 2.1 Consensus size: 28
30632806 TTTCTAGAAC
30632816 TATTCCGGAATTTTCTCTTTTCCTCGTT
1 TATTCCGGAATTTTCTCTTTTCCTCGTT
*
30632844 TATTCTGGAATTTTCTCTTTTCCTCGTT
1 TATTCCGGAATTTTCTCTTTTCCTCGTT
30632872 TAT
1 TAT
30632875 CCTCGATTTC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.12, C:0.22, G:0.10, T:0.56
Consensus pattern (28 bp):
TATTCCGGAATTTTCTCTTTTCCTCGTT
Found at i:30637965 original size:14 final size:14
Alignment explanation
Indices: 30637946--30637982 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
30637936 GTACCACCTA
30637946 TCATCATTCTGATT
1 TCATCATTCTGATT
30637960 TCATCATTCTGATT
1 TCATCATTCTGATT
*
30637974 TCATTATTC
1 TCATCATTC
30637983 AACCCTTCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.22, C:0.22, G:0.05, T:0.51
Consensus pattern (14 bp):
TCATCATTCTGATT
Found at i:30639031 original size:13 final size:13
Alignment explanation
Indices: 30639013--30639048 Score: 63
Period size: 13 Copynumber: 2.7 Consensus size: 13
30639003 TACTCCAGAA
30639013 TTTATTTTATTAT
1 TTTATTTTATTAT
30639026 TTTATTTTATTAT
1 TTTATTTTATTAT
30639039 TATTATTTTA
1 T-TTATTTTA
30639049 AAAAAACTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 14 0.64
14 8 0.36
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (13 bp):
TTTATTTTATTAT
Found at i:30639772 original size:39 final size:39
Alignment explanation
Indices: 30639712--30639851 Score: 165
Period size: 39 Copynumber: 3.6 Consensus size: 39
30639702 ATCGTGATCT
* * * **
30639712 GAAGCCCGAAGTCTAGA-TGAAGCACATAGGTGCTAAATA
1 GAAGCCCGAAGGCTA-ACTGAAGCACACAAGTGCTAAACG
*
30639751 GAAGCCCGAAGGCTAACTGAAGTACACAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
* * *
30639790 GAAGCCCAAAGGCTAACTGAAGCACACAAGTTCTAACCG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
* *
30639829 GAATCCCGAAGGCTAACTAAAGC
1 GAAGCCCGAAGGCTAACTGAAGC
30639852 TCATCAGAGC
Statistics
Matches: 87, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
38 1 0.01
39 86 0.99
ACGTcount: A:0.39, C:0.24, G:0.24, T:0.14
Consensus pattern (39 bp):
GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
Found at i:30642252 original size:3 final size:3
Alignment explanation
Indices: 30642244--30642345 Score: 168
Period size: 3 Copynumber: 34.0 Consensus size: 3
30642234 AAAAAGAAAT
* * * *
30642244 ATA ATA ATA GTA ATA ATA ATA ATA ATA GTA ATA ATA ATA GTA ATG ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
30642292 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
30642340 ATA ATA
1 ATA ATA
30642346 CAATGTTAAG
Statistics
Matches: 91, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 91 1.00
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:30642968 original size:2 final size:2
Alignment explanation
Indices: 30642961--30642985 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
30642951 ACTCTTTTTA
30642961 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
30642986 GAAATGGTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:30643020 original size:43 final size:42
Alignment explanation
Indices: 30642973--30643054 Score: 101
Period size: 42 Copynumber: 1.9 Consensus size: 42
30642963 ATATATATAT
*
30642973 ATATATATATATAGAAATGGTTTTAAAAAAAGAAAATAAAGAG
1 ATATATATATATAGAAATAG-TTTAAAAAAAGAAAATAAAGAG
* * * **
30643016 ATATATGTGTATATAAATAGTTTCGAAAAAGAAAATAAA
1 ATATATATATATAGAAATAGTTTAAAAAAAGAAAATAAA
30643055 ATCAAAGACT
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
42 17 0.52
43 16 0.48
ACGTcount: A:0.56, C:0.01, G:0.13, T:0.29
Consensus pattern (42 bp):
ATATATATATATAGAAATAGTTTAAAAAAAGAAAATAAAGAG
Found at i:30643821 original size:44 final size:44
Alignment explanation
Indices: 30643772--30643857 Score: 118
Period size: 44 Copynumber: 2.0 Consensus size: 44
30643762 CTTCGAGGAG
* *
30643772 TTGTAGTTTCAATCCACTCCACTACAATTTCAGGGAGATAAGAC
1 TTGTAGTTTCAATCCACTCCACTACAACTTCAAGGAGATAAGAC
* * * *
30643816 TTGTAGTTTCAATCTAGTCCGCTGCAACTTCAAGGAGATAAG
1 TTGTAGTTTCAATCCACTCCACTACAACTTCAAGGAGATAAG
30643858 GTTTATAGCT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
44 36 1.00
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.30
Consensus pattern (44 bp):
TTGTAGTTTCAATCCACTCCACTACAACTTCAAGGAGATAAGAC
Found at i:30644074 original size:140 final size:140
Alignment explanation
Indices: 30643816--30644090 Score: 410
Period size: 140 Copynumber: 2.0 Consensus size: 140
30643806 GAGATAAGAC
* * *
30643816 TTGTAGTTTCAATCTAGTCCGCTGCAACTTCAAGGAGATAAGGTTTATAGCTTTAATATGCTCTA
1 TTGTAGTTTCAATCTACTCCACTGCAACTTCAAGAAGATAAGGTTTATAGCTTTAATATGCTCTA
* * * * * **
30643881 CTGTAACTTTAGAGAGATAATATTTGCTATCTTCGATCTACTCCATTGTAACTTCAAGGAGTTAA
66 CTGCAACTTCAGAGAGATAAGATTTGCTATCTTCGATCTACTCCACTGCAACTTCAAGGAAATAA
30643946 GATTTGTAAT
131 GATTTGTAAT
*
30643956 TTGTAGCTTT-AATCTACTCCACTGCAACTTC-AGAAAGATAAGGTTTATAGCTTTAATTTGCTC
1 TTGTAG-TTTCAATCTACTCCACTGCAACTTCAAG-AAGATAAGGTTTATAGCTTTAATATGCTC
*
30644019 TACTGCGACTTCAGAGAGATAAGATTTGCTATCTTCGATCTACTCCACTGCAACTTCAAGGAAAT
64 TACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCGATCTACTCCACTGCAACTTCAAGGAAAT
30644084 AAGATTT
129 AAGATTT
30644091 TCTATCTTTA
Statistics
Matches: 121, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
139 2 0.02
140 116 0.96
141 3 0.02
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.36
Consensus pattern (140 bp):
TTGTAGTTTCAATCTACTCCACTGCAACTTCAAGAAGATAAGGTTTATAGCTTTAATATGCTCTA
CTGCAACTTCAGAGAGATAAGATTTGCTATCTTCGATCTACTCCACTGCAACTTCAAGGAAATAA
GATTTGTAAT
Found at i:30644086 original size:45 final size:44
Alignment explanation
Indices: 30643782--30644539 Score: 278
Period size: 44 Copynumber: 16.8 Consensus size: 44
30643772 TTGTAGTTTC
* * * * * * *
30643782 AATCCACTCCACTACAATTTCAGGGAGATAAGACTTGTAGT-TTC
1 AATCTACTCCACTGCAACTTCAGGAAGATAAGATTTCTA-TCTTT
* * * * *
30643826 AATCTAGTCCGCTGCAACTTCAAGG-AGATAAGGTTTATAGCTTT
1 AATCTACTCCACTGCAACTTC-AGGAAGATAAGATTTCTATCTTT
* * * * * * *
30643870 AATATGCTCTACTGTAACTTTA-GAGAGATAATATTTGCTATCTTC
1 AATCTACTCCACTGCAACTTCAGGA-AGATAAGATTT-CTATCTTT
* * * * *
30643915 GATCTACTCCATTGTAACTTCAAGG-AGTTAAGATTTGTAATTTGTAGCTTT
1 AATCTACTCCACTGCAACTTC-AGGAAGATAAGATTTCT-A----T--CTTT
* * * *
30643966 AATCTACTCCACTGCAACTTCAGAAAGATAAGGTTTATAGCTTT
1 AATCTACTCCACTGCAACTTCAGGAAGATAAGATTTCTATCTTT
* * * * *
30644010 AATTTGCTCTACTGCGACTTCA-GAGAGATAAGATTTGCTATCTTC
1 AATCTACTCCACTGCAACTTCAGGA-AGATAAGATTT-CTATCTTT
*
30644055 GATCTACTCCACTGCAACTTCAAGGAA-ATAAGATTTTCTATCTTT
1 AATCTACTCCACTGCAACTTC-AGGAAGATAAGA-TTTCTATCTTT
* * * * *
30644100 AATTTGCTCCACTGCAACTTCAGGAAGATAAGACTTGTATTTTT
1 AATCTACTCCACTGCAACTTCAGGAAGATAAGATTTCTATCTTT
* * * * * ** * *
30644144 AA-CTTGCTCCACTACAACTTTAGGGAGATAAGGTTAGTGGT-TGT
1 AATC-TACTCCACTGCAACTTCAGGAAGATAAGATTTCT-ATCTTT
* * * * * *
30644188 AATCTGCTTCACTGCAACTTCAGGGAGATAAGATTCGCCATCTTC
1 AATCTACTCCACTGCAACTTCAGGAAGATAAGATT-TCTATCTTT
* * * * * * * * * *
30644233 AGTCTGCTTCACAGCAACTTCAGGGAGATAAAACTTGTAACTTC
1 AATCTACTCCACTGCAACTTCAGGAAGATAAGATTTCTATCTTT
* * * * *
30644277 AACCTGCTCCACTTCAACTTCAGGGAGATAAGATTTGTAACTTGATAGCCTT
1 AATCTACTCCACTGCAACTTCAGGAAGATAAGA-TT-T--C-T-AT--CTTT
* * * * * *
30644329 AATCTACTCCACTGTAGCCTCAAGAAAATAAGATTTTCTATTTTT
1 AATCTACTCCACTGCAACTTCAGGAAGATAAGA-TTTCTATCTTT
* * * * * * * * *
30644374 AACCTGCTTCATTGCAACTTTAGGGAGATAAGGTTTATAGCTTT
1 AATCTACTCCACTGCAACTTCAGGAAGATAAGATTTCTATCTTT
* * * *
30644418 AATCTGCTCTACTGCAACTTCA-GAGAGATAAAATTTGCTATCTTC
1 AATCTACTCCACTGCAACTTCAGGA-AGATAAGATTT-CTATCTTT
* * * * * * *
30644463 GATCTACTCCACTACAACTTTAGGGAGATAATATCTGTGA-CTTT
1 AATCTACTCCACTGCAACTTCAGGAAGATAAGATTTCT-ATCTTT
* *
30644507 AATATGCTCCACTGCAACTTCA-GAGAGATAAGA
1 AATCTACTCCACTGCAACTTCAGGA-AGATAAGA
30644540 CTTGCCAGAA
Statistics
Matches: 522, Mismatches: 153, Indels: 78
0.69 0.20 0.10
Matches are distributed among these distances:
42 1 0.00
43 4 0.01
44 254 0.49
45 181 0.35
46 8 0.02
47 5 0.01
48 1 0.00
49 3 0.01
50 4 0.01
51 32 0.06
52 29 0.06
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.33
Consensus pattern (44 bp):
AATCTACTCCACTGCAACTTCAGGAAGATAAGATTTCTATCTTT
Found at i:30644129 original size:90 final size:89
Alignment explanation
Indices: 30643967--30644313 Score: 258
Period size: 89 Copynumber: 3.9 Consensus size: 89
30643957 TGTAGCTTTA
* *
30643967 ATCTACTCCACTGCAACTTCAGAAAGATAAGGTTTATAGCTTTAATTTGCTCTACTGCGACTTCA
1 ATCTACTCCACTGCAACTTCAGAAAGATAAGGTTTATAGCTTTAATTTGCTCCACTGCAACTTCA
30644032 GAGAGATAAGATTTGCTATCTTCG
66 GAGAGATAAGATTTGCTATCTTCG
* * * *
30644056 ATCTACTCCACTGCAACTTCAAGGAA-ATAAGATTTTCTATCTTTAATTTGCTCCACTGCAACTT
1 ATCTACTCCACTGCAACTTC-AGAAAGATAAG-GTTTATAGCTTTAATTTGCTCCACTGCAACTT
* **
30644120 CAG-GAAGATAAGACTTG-TAT-TTTT
64 CAGAG-AGATAAGATTTGCTATCTTCG
* * * * ** * * *
30644144 AACTTGCTCCACTACAACTTTAGGGAGATAAGG-TTAGT-GGTTGTAATCTGCTTCACTGCAACT
1 ATC-TACTCCACTGCAACTTCAGAAAGATAAGGTTTA-TAGCTT-TAATTTGCTCCACTGCAACT
* * *
30644207 TCAGGGAGATAAGATTCGCCATCTTC-
63 TCAGAGAGATAAGATTTGCTATCTTCG
* * * ** *** * * * ** *
30644233 AGTCTGCTTCACAGCAACTTCAGGGAGATAAAACTTGTAACTTCAACCTGCTCCACTTCAACTTC
1 A-TCTACTCCACTGCAACTTCAGAAAGATAAGGTTTATAGCTTTAATTTGCTCCACTGCAACTTC
*
30644298 AGGGAGATAAGATTTG
65 AGAGAGATAAGATTTG
30644314 TAACTTGATA
Statistics
Matches: 206, Mismatches: 39, Indels: 26
0.76 0.14 0.10
Matches are distributed among these distances:
87 4 0.02
88 41 0.20
89 109 0.53
90 52 0.25
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.32
Consensus pattern (89 bp):
ATCTACTCCACTGCAACTTCAGAAAGATAAGGTTTATAGCTTTAATTTGCTCCACTGCAACTTCA
GAGAGATAAGATTTGCTATCTTCG
Found at i:30644256 original size:133 final size:133
Alignment explanation
Indices: 30644064--30644308 Score: 328
Period size: 133 Copynumber: 1.8 Consensus size: 133
30644054 CGATCTACTC
** * * * *
30644064 CACTGCAACTTCAAGGAAATAAGATTTTCTATCTTTAATTTGCTCCACTGCAACTTCAGGAAGAT
1 CACTGCAACTTCAAGGAAATAAGATTCGCCATCTTCAATCTGCTCCACAGCAACTTCAGGAAGAT
* ** * * *
30644129 AAGACTTGTATTTTTAACTTGCTCCACTACAACTTTAGGGAGATAAGGTTAGTGGTTGTAATCTG
66 AAAACTTGTAACTTCAACCTGCTCCACTACAACTTCAGGGAGATAAGGTTAGTGGTTGTAATCTG
30644194 CTT
131 CTT
* * * * *
30644197 CACTGCAACTTCAGGGAGATAAGATTCGCCATCTTCAGTCTGCTTCACAGCAACTTCAGGGAGAT
1 CACTGCAACTTCAAGGAAATAAGATTCGCCATCTTCAATCTGCTCCACAGCAACTTCAGGAAGAT
*
30644262 AAAACTTGTAACTTCAACCTGCTCCACTTCAACTTCAGGGAGATAAG
66 AAAACTTGTAACTTCAACCTGCTCCACTACAACTTCAGGGAGATAAG
30644309 ATTTGTAACT
Statistics
Matches: 94, Mismatches: 18, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
133 94 1.00
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.31
Consensus pattern (133 bp):
CACTGCAACTTCAAGGAAATAAGATTCGCCATCTTCAATCTGCTCCACAGCAACTTCAGGAAGAT
AAAACTTGTAACTTCAACCTGCTCCACTACAACTTCAGGGAGATAAGGTTAGTGGTTGTAATCTG
CTT
Found at i:30647146 original size:29 final size:29
Alignment explanation
Indices: 30647104--30647170 Score: 91
Period size: 29 Copynumber: 2.3 Consensus size: 29
30647094 ACATGGCTTG
30647104 GAAT-TGATTCGGGCCAAATGGACCATAT
1 GAATGTGATTCGGGCCAAATGGACCATAT
* * *
30647132 GAATGTGATTTGGGCCTAATGGGCCATAT
1 GAATGTGATTCGGGCCAAATGGACCATAT
*
30647161 GAATGAGATT
1 GAATGTGATT
30647171 AGGCCTAGTG
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
28 4 0.12
29 30 0.88
ACGTcount: A:0.30, C:0.13, G:0.28, T:0.28
Consensus pattern (29 bp):
GAATGTGATTCGGGCCAAATGGACCATAT
Found at i:30647184 original size:28 final size:29
Alignment explanation
Indices: 30647115--30647189 Score: 98
Period size: 29 Copynumber: 2.6 Consensus size: 29
30647105 AATTGATTCG
* * * *
30647115 GGCCAAATGGACCATATGAATGTGATTTG
1 GGCCTAATGGGCCATATGAATGAGATTTA
30647144 GGCCTAATGGGCCATATGAATGAGA-TTA
1 GGCCTAATGGGCCATATGAATGAGATTTA
*
30647172 GGCCTAGTGGGCCATATG
1 GGCCTAATGGGCCATATG
30647190 CATGTATGTA
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
28 19 0.46
29 22 0.54
ACGTcount: A:0.28, C:0.16, G:0.31, T:0.25
Consensus pattern (29 bp):
GGCCTAATGGGCCATATGAATGAGATTTA
Found at i:30663331 original size:18 final size:19
Alignment explanation
Indices: 30663289--30663333 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
30663279 CAAAATAATC
*
30663289 ATCATTTTTCTCATACTATT
1 ATCATTTTGCTCATA-TATT
*
30663309 TTCATTTTGCTCAT-TATT
1 ATCATTTTGCTCATATATT
30663327 ATCATTT
1 ATCATTT
30663334 ACTTTGCATT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 10 0.45
20 12 0.55
ACGTcount: A:0.22, C:0.18, G:0.02, T:0.58
Consensus pattern (19 bp):
ATCATTTTGCTCATATATT
Found at i:30664882 original size:40 final size:40
Alignment explanation
Indices: 30664802--30664880 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 40
30664792 ATGAAGATGT
**
30664802 TTAAAAATATTTATTTATTATTTTATGTTTTTAATTTTTA
1 TTAAAAATATTTATTTATTATTTTATAATTTTAATTTTTA
* *
30664842 TTAAAACTATTTTTTTATTAGATTTTATAATTTT-ATTTT
1 TTAAAAATATTTATTTATT--ATTTTATAATTTTAATTTT
30664881 ATAATTATCA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
40 17 0.52
41 5 0.15
42 11 0.33
ACGTcount: A:0.32, C:0.01, G:0.03, T:0.65
Consensus pattern (40 bp):
TTAAAAATATTTATTTATTATTTTATAATTTTAATTTTTA
Found at i:30670876 original size:7 final size:6
Alignment explanation
Indices: 30670829--30670875 Score: 58
Period size: 6 Copynumber: 7.5 Consensus size: 6
30670819 ATAATTTAAT
* *
30670829 AAATAA AAATAA AAATCTAA AACTAA AACTAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAA--TAA AAATAA AAATAA AAATAA AAATAA AAA
30670876 ACATATAATT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
6 32 0.86
8 5 0.14
ACGTcount: A:0.77, C:0.06, G:0.00, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:30670909 original size:9 final size:9
Alignment explanation
Indices: 30670895--30670971 Score: 100
Period size: 9 Copynumber: 8.6 Consensus size: 9
30670885 TTTATACAAA
*
30670895 TAATTCGAT
1 TAATTCGGT
30670904 TAATTCGGT
1 TAATTCGGT
*
30670913 TAATTTGGT
1 TAATTCGGT
*
30670922 TAATTTGGT
1 TAATTCGGT
* *
30670931 TAATTTGGG
1 TAATTCGGT
*
30670940 TAATTCGAT
1 TAATTCGGT
30670949 TAATTCGGT
1 TAATTCGGT
30670958 TAATTCGGT
1 TAATTCGGT
30670967 TAATT
1 TAATT
30670972 TTATACTTAT
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 61 1.00
ACGTcount: A:0.26, C:0.06, G:0.19, T:0.48
Consensus pattern (9 bp):
TAATTCGGT
Found at i:30670944 original size:36 final size:36
Alignment explanation
Indices: 30670904--30670972 Score: 111
Period size: 36 Copynumber: 1.9 Consensus size: 36
30670894 ATAATTCGAT
* * *
30670904 TAATTCGGTTAATTTGGTTAATTTGGTTAATTTGGG
1 TAATTCGATTAATTCGGTTAATTCGGTTAATTTGGG
30670940 TAATTCGATTAATTCGGTTAATTCGGTTAATTT
1 TAATTCGATTAATTCGGTTAATTCGGTTAATTT
30670973 TATACTTATT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.25, C:0.06, G:0.20, T:0.49
Consensus pattern (36 bp):
TAATTCGATTAATTCGGTTAATTCGGTTAATTTGGG
Found at i:30681451 original size:94 final size:94
Alignment explanation
Indices: 30681331--30681808 Score: 537
Period size: 94 Copynumber: 5.1 Consensus size: 94
30681321 TCGTTACAAA
* * ** * ** * * * *
30681331 TTCAAGGAGATAAGATTTGTTGTTGTAGTTTCATTCTAACCCACTGCAACTTTAGAGGCATAAGA
1 TTCAGGGAGATAAGATTCGTCATTGTAGTTTCAATCCGACCCACTGCAACTTCAGGGGTATAGGA
* *
30681396 TTTATAGCTTCATCTTACTCCACTGCAAT
66 TTTGTAGCTTCATCTTACTCCACTGCAAC
** * *
30681425 TTCAGGGAGATAAGATTTTTCATTGTAGTTTTAACCCGACCCACTGCAACTTCAGGGGTATAGGA
1 TTCAGGGAGATAAGATTCGTCATTGTAGTTTCAATCCGACCCACTGCAACTTCAGGGGTATAGGA
* * * *
30681490 TTTGTAGTTTTATCTT-GTCCCACTGTAAC
66 TTTGTAGCTTCATCTTACT-CCACTGCAAC
* ** *
30681519 TTCAGAGAGATAAGATTCACCATTGTAGTTTCAATCCGACCCACTGAAACTTCAGGGGTATAGGA
1 TTCAGGGAGATAAGATTCGTCATTGTAGTTTCAATCCGACCCACTGCAACTTCAGGGGTATAGGA
** *
30681584 TTTGTAGCTTCATCTTGTTCCACTGCAAT
66 TTTGTAGCTTCATCTTACTCCACTGCAAC
* * * ** *
30681613 TTTAGGGAGATAAGATTCGTCATTTGTAGTTTTAATCCGACCCACTGCAACTTTAAAGGTTTAGG
1 TTCAGGGAGATAAGATTCGTCA-TTGTAGTTTCAATCCGACCCACTGCAACTTCAGGGGTATAGG
*
30681678 ATTTGTAGCTTCATCTTACTCCACTGTAAC
65 ATTTGTAGCTTCATCTTACTCCACTGCAAC
* * * *
30681708 TTCAGGGAGATAAGATTCGTCATTATAATTTCATTCCGACCTACTGCAACTTCAGGGGTATAGGA
1 TTCAGGGAGATAAGATTCGTCATTGTAGTTTCAATCCGACCCACTGCAACTTCAGGGGTATAGGA
* **
30681773 ATTGTAGCTTCAATCCGAC-CCACTGCAAC
66 TTTGTAGCTTC-ATCTTACTCCACTGCAAC
30681802 TTCAGGG
1 TTCAGGG
30681809 GTATAGGATT
Statistics
Matches: 321, Mismatches: 59, Indels: 8
0.83 0.15 0.02
Matches are distributed among these distances:
93 1 0.00
94 231 0.72
95 89 0.28
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.34
Consensus pattern (94 bp):
TTCAGGGAGATAAGATTCGTCATTGTAGTTTCAATCCGACCCACTGCAACTTCAGGGGTATAGGA
TTTGTAGCTTCATCTTACTCCACTGCAAC
Found at i:30681492 original size:50 final size:48
Alignment explanation
Indices: 30681415--30681586 Score: 129
Period size: 50 Copynumber: 3.6 Consensus size: 48
30681405 TCATCTTACT
*
30681415 CCACTGCAATTTCAGGGAGATAAGATTTTTCATTGTAGTTTTAACCCGAC
1 CCACTGCAACTTCAGGG-GATAAGA-TTTTCATTGTAGTTTTAACCCGAC
* * ** *
30681465 CCACTGCAACTTCAGGGGTATAGGA---T--TTGTAGTTTTATCTTGTC
1 CCACTGCAACTTCAGGGG-ATAAGATTTTCATTGTAGTTTTAACCCGAC
* * ** * *
30681509 CCACTGTAACTTCAGAGAGATAAGATTCACCATTGTAGTTTCAATCCGAC
1 CCACTGCAACTTCAG-GGGATAAGATT-TTCATTGTAGTTTTAACCCGAC
* *
30681559 CCACTGAAACTTCAGGGGTATAGGATTT
1 CCACTGCAACTTCAGGGG-ATAAGATTT
30681587 GTAGCTTCAT
Statistics
Matches: 93, Mismatches: 20, Indels: 19
0.70 0.15 0.14
Matches are distributed among these distances:
44 33 0.35
45 2 0.02
46 1 0.01
49 3 0.03
50 54 0.58
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (48 bp):
CCACTGCAACTTCAGGGGATAAGATTTTCATTGTAGTTTTAACCCGAC
Found at i:30681512 original size:44 final size:44
Alignment explanation
Indices: 30681462--30681847 Score: 205
Period size: 44 Copynumber: 8.3 Consensus size: 44
30681452 GTTTTAACCC
*
30681462 GACCCACTGCAACTTCAGGGGTATAGGATTTGTAGTTTTATCTT
1 GACCCACTGCAACTTCAGGGGTATAGGATTTGTAGTTTCATCTT
* * * * *
30681506 GTCCCACTGTAACTTCAGAGAG-ATAAGATTCACCATTGTAGTTTCAATC-C
1 GACCCACTGCAACTTCAG-GGGTATAGGA-T-----TTGTAGTTTC-ATCTT
* *
30681556 GACCCACTGAAACTTCAGGGGTATAGGATTTGTAGCTTCATCTT
1 GACCCACTGCAACTTCAGGGGTATAGGATTTGTAGTTTCATCTT
** * * * *
30681600 GTTCCACTGCAATTTTAGGGAG-ATAAGATTCGTCATTTGTAGTTTTAATC-C
1 GACCCACTGCAACTTCAGGG-GTAT-AG----G--ATTTGTAG-TTTCATCTT
* ** * *
30681651 GACCCACTGCAACTTTAAAGGTTTAGGATTTGTAGCTTCATCTT
1 GACCCACTGCAACTTCAGGGGTATAGGATTTGTAGTTTCATCTT
* * * *
30681695 -ACTCCACTGTAACTTCAGGGAG-ATAAGATTCGTCA-TTATAATTTCATT
1 GAC-CCACTGCAACTTCAGGG-GTATAGGATTTGT-AGTT-TCA--TC-TT
* * * *
30681743 CCGACCTACTGCAACTTCAGGGGTATAGGAATTGTAGCTTCAATC-C
1 --GACCCACTGCAACTTCAGGGGTATAGGATTTGTAGTTTC-ATCTT
*
30681789 GACCCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTCATCTT
1 GACCCACTGCAACTTCAGGGGTATAGGATTTGTAGTTTCATCTT
30681833 G-CTCCACTGCAACTT
1 GAC-CCACTGCAACTT
30681848 TAAGGAGATA
Statistics
Matches: 257, Mismatches: 49, Indels: 72
0.68 0.13 0.19
Matches are distributed among these distances:
43 14 0.05
44 127 0.49
45 10 0.04
46 1 0.00
47 2 0.01
48 4 0.02
49 7 0.03
50 58 0.23
51 29 0.11
52 5 0.02
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.33
Consensus pattern (44 bp):
GACCCACTGCAACTTCAGGGGTATAGGATTTGTAGTTTCATCTT
Found at i:30681723 original size:189 final size:188
Alignment explanation
Indices: 30681353--30681808 Score: 583
Period size: 189 Copynumber: 2.4 Consensus size: 188
30681343 AGATTTGTTG
** * * * * *
30681353 TTGTAGTTTCATTCTAACCCACTGCAACTTTAGAGGCATAAGATTTATAGCTTCATCTTACTCCA
1 TTGTAGTTTCATTCCGACCCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTCATCTTACTCCA
** **
30681418 CTGCAATTTCAGGGAGATAAGATTTTTCATTGTAGTTTTAACCCGACCCACTGCAACTTCAGGGG
66 CTGCAATTTCAGGGAGATAAGATTCGTCATTGTAGTTTTAACCCGACCCACTGCAACTTCAAAGG
* * *
30681483 TATAGGATTTGTAGTTTTATCTTGTCCCACTGTAACTTCAGAGAGATAAGATTCACCA
131 TATAGGATTTGTAGCTTCATCTTCTCCCACTGTAACTTCAGAGAGATAAGATTCACCA
* * **
30681541 TTGTAGTTTCAATCCGACCCACTGAAACTTCAGGGGTATAGGATTTGTAGCTTCATCTTGTTCCA
1 TTGTAGTTTCATTCCGACCCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTCATCTTACTCCA
* * *
30681606 CTGCAATTTTAGGGAGATAAGATTCGTCATTTGTAGTTTTAATCCGACCCACTGCAACTTTAAAG
66 CTGCAATTTCAGGGAGATAAGATTCGTCA-TTGTAGTTTTAACCCGACCCACTGCAACTTCAAAG
* * **
30681671 GTTTAGGATTTGTAGCTTCATCTTACT-CCACTGTAACTTCAGGGAGATAAGATTCGTCA
130 GTATAGGATTTGTAGCTTCATCTT-CTCCCACTGTAACTTCAGAGAGATAAGATTCACCA
* * * * **
30681730 TTATAATTTCATTCCGACCTACTGCAACTTCAGGGGTATAGGAATTGTAGCTTCAATCCGAC-CC
1 TTGTAGTTTCATTCCGACCCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTC-ATCTTACTCC
*
30681794 ACTGCAACTTCAGGG
65 ACTGCAATTTCAGGG
30681809 GTATAGGATT
Statistics
Matches: 228, Mismatches: 37, Indels: 5
0.84 0.14 0.02
Matches are distributed among these distances:
188 80 0.35
189 144 0.63
190 4 0.02
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (188 bp):
TTGTAGTTTCATTCCGACCCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTCATCTTACTCCA
CTGCAATTTCAGGGAGATAAGATTCGTCATTGTAGTTTTAACCCGACCCACTGCAACTTCAAAGG
TATAGGATTTGTAGCTTCATCTTCTCCCACTGTAACTTCAGAGAGATAAGATTCACCA
Found at i:30681801 original size:138 final size:138
Alignment explanation
Indices: 30681636--30681922 Score: 430
Period size: 138 Copynumber: 2.1 Consensus size: 138
30681626 GATTCGTCAT
* * * *
30681636 TTGTAGTTTTAATCCGACCCACTGCAACTTTAAAGGTTTAGGATTTGTAGCTTCATCTTACTCCA
1 TTGTAGCTTCAATCCGACCCACTGCAACTTCAAAGGTATAGGATTTGTAGCTTCATCTTACTCCA
* * * *
30681701 CTGTAACTTCAGGGAGATAAGATTCGTCATTATAATTTCATTCCGACCTACTGCAACTTCAGGGG
66 CTGCAACTTCAAGGAGATAAGATTCGCCATTATAATTTCATTCCGACCTACTGCAACTTCAAGGG
30681766 TATAGGAA
131 TATAGGAA
** *
30681774 TTGTAGCTTCAATCCGACCCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTCATCTTGCTCCA
1 TTGTAGCTTCAATCCGACCCACTGCAACTTCAAAGGTATAGGATTTGTAGCTTCATCTTACTCCA
* * * * *
30681839 CTGCAACTTTAAGGAGATAAGATTCGCCATTGTAATTTTATTCTGACCTACTGCAAGTTCAAGGG
66 CTGCAACTTCAAGGAGATAAGATTCGCCATTATAATTTCATTCCGACCTACTGCAACTTCAAGGG
30681904 TATAGGAA
131 TATAGGAA
30681912 TTGTAGCTTCA
1 TTGTAGCTTCA
30681923 TCTGTTTCCC
Statistics
Matches: 133, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
138 133 1.00
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.33
Consensus pattern (138 bp):
TTGTAGCTTCAATCCGACCCACTGCAACTTCAAAGGTATAGGATTTGTAGCTTCATCTTACTCCA
CTGCAACTTCAAGGAGATAAGATTCGCCATTATAATTTCATTCCGACCTACTGCAACTTCAAGGG
TATAGGAA
Found at i:30692064 original size:3 final size:3
Alignment explanation
Indices: 30692058--30692085 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
30692048 AAACGTAAAC
30692058 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
30692086 TAAAGTAAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:30693938 original size:56 final size:54
Alignment explanation
Indices: 30693825--30693988 Score: 256
Period size: 56 Copynumber: 3.0 Consensus size: 54
30693815 GTGACCCGAA
*
30693825 GCTCAAATCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAG
* *
30693879 GCTCAACTCATCTCTCGCAATATAAGTTGATTTTTTTGAAAAACAGAAATTAAAAG
1 GCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAATTAAAAG
* *
30693935 GCTCAACTTACCTCTCGTAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATT-AAAA
30693989 TACCTCAGCG
Statistics
Matches: 100, Mismatches: 7, Indels: 5
0.89 0.06 0.04
Matches are distributed among these distances:
54 46 0.46
55 4 0.04
56 50 0.50
ACGTcount: A:0.40, C:0.16, G:0.14, T:0.30
Consensus pattern (54 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAG
Found at i:30694253 original size:89 final size:88
Alignment explanation
Indices: 30694060--30694277 Score: 287
Period size: 89 Copynumber: 2.5 Consensus size: 88
30694050 AGAAATTAAA
* * * * **
30694060 AGGCTCAACTCACCTCTCGTAATATGAGTTGA-TTTTTGAAACTTAACTTGAAAAGCAGATTTTG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAACATAAATTGAAAAACAGAAATTG
*
30694124 AAAATACCTCGACATGTGACCCG
66 AAAATACCTCGACATGTGAACCG
*
30694147 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAACATAAATTGAAAGAATAGAAATT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAACATAAATTGAAA-AACAGAAATT
* * *
30694212 GGAAATACCTC-AGTATGTGAACTG
65 GAAAATACCTCGA-CATGTGAACCG
* *
30694236 AGGTTCAACTCATCTCTCGCAATATGAGTTGATTTTTTGAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAA
30694278 AACAGAAATT
Statistics
Matches: 115, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
87 31 0.27
88 20 0.17
89 64 0.56
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.31
Consensus pattern (88 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAACATAAATTGAAAAACAGAAATTG
AAAATACCTCGACATGTGAACCG
Found at i:30694554 original size:304 final size:304
Alignment explanation
Indices: 30693937--30694655 Score: 1282
Period size: 303 Copynumber: 2.4 Consensus size: 304
30693927 ATTAAAAGGC
* * *
30693937 TCAACTTACCTCTCGTAATATGAGTTGA-TTTTTGAAAAACAGAAATTGAAAA-TACCTCAGCGT
1 TCAACTCATCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATT-AAAATTACCTCAGCGT
**** *
30694000 GTATTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAATTAAAAGGCT
65 GCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCT
*
30694065 CAACTCACCTCTCGTAATATGAGTTGATTTTTGAAACTTAACTTGAAAAGCAGATTTTGAAAATA
130 CAACTCACCTCTCGTAATATGAGTTGATTTTTGAAAATTAACTTGAAAAGCAGATTTTGAAAATA
30694130 CCTCGACATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAACATAAA
195 CCTCGACATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAACATAAA
* *
30694195 TTGAAAGAATAGAAATTGGAAATACCTCAGTATGTGAACTGAGGT
260 TTGAAAGAACAGAAATTGGAAATACCTCAGTATGTGAACCGAGGT
*
30694240 TCAACTCATCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTAAAATTACCTCAGCTTG
1 TCAACTCATCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTAAAATTACCTCAGCGTG
30694305 -CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTC
66 CCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTC
30694369 AACTCACCTCTCGTAATATGAGTTGATTTTTGAAAATTAACTTGAAAAGCAGATTTTGAAAATAC
131 AACTCACCTCTCGTAATATGAGTTGATTTTTGAAAATTAACTTGAAAAGCAGATTTTGAAAATAC
30694434 CTCGACATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAACATAAA
196 CTCGACATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAACATAAA
30694499 TTGAAAGAACAGAAATTGGAAATACCTCAGTATGTGAACCGAGGT
260 TTGAAAGAACAGAAATTGGAAATACCTCAGTATGTGAACCGAGGT
*
30694544 TCAACTCATCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTGAAATTACCTCAGCGTG
1 TCAACTCATCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTAAAATTACCTCAGCGTG
30694609 CCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAA
66 CCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAA
30694656 GTATAAATTT
Statistics
Matches: 399, Mismatches: 13, Indels: 6
0.95 0.03 0.01
Matches are distributed among these distances:
303 201 0.50
304 152 0.38
305 46 0.12
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.30
Consensus pattern (304 bp):
TCAACTCATCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTAAAATTACCTCAGCGTG
CCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTC
AACTCACCTCTCGTAATATGAGTTGATTTTTGAAAATTAACTTGAAAAGCAGATTTTGAAAATAC
CTCGACATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAACATAAAT
TGAAAGAACAGAAATTGGAAATACCTCAGTATGTGAACCGAGGT
Found at i:30694557 original size:90 final size:88
Alignment explanation
Indices: 30694363--30694595 Score: 292
Period size: 90 Copynumber: 2.6 Consensus size: 88
30694353 AGAAATTAAA
* * * **
30694363 AGGCTCAACTCACCTCTCGTAATATGAGTTGA-TTTTTGAAA-ATTAACTTGAAAAGCAGATTTT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAACA-TAAATTGAAAAACAGAAATT
*
30694426 GAAAATACCTCGACATGTGACCCG
65 GAAAATACCTCGACATGTGAACCG
30694450 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAACATAAATTGAAAGAACAGAAAT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAACATAAATTGAAA-AACAGAAAT
* *
30694515 TGGAAATACCTC-AGTATGTGAACCG
64 TGAAAATACCTCGA-CATGTGAACCG
* * *
30694540 AGGTTCAACTCATCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTGAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG--AAACATAAATTGAAA
30694596 TTACCTCAGC
Statistics
Matches: 128, Mismatches: 11, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
87 31 0.24
89 26 0.20
90 57 0.45
91 14 0.11
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.30
Consensus pattern (88 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAACATAAATTGAAAAACAGAAATTG
AAAATACCTCGACATGTGAACCG
Found at i:30694631 original size:74 final size:74
Alignment explanation
Indices: 30694499--30694655 Score: 219
Period size: 74 Copynumber: 2.1 Consensus size: 74
30694489 GAAACATAAA
* * *
30694499 TTGAAAGAACAGAAATTGGAAATACCTCAGTATGTGAACCGAGGTTCAACTCATCTCTCGCAATA
1 TTGAAA-AACAGAAATTGGAAATACCTCAG-ACGTGAACCGAGGCTCAACTCACCTCTCGCAATA
30694564 TGAGTTGATTTT
64 TGAGTTGA-TTT
**
30694576 TTGAAAAACAGAAATT-GAAATTACCTCAG-CGTGCCCCGAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAAAACAGAAATTGGAAA-TACCTCAGACGTGAACCGAGGCTCAACTCACCTCTCGCAATAT
30694639 GAGTTGATTT
65 GAGTTGATTT
30694649 TTGAAAA
1 TTGAAAA
30694656 GTATAAATTT
Statistics
Matches: 74, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
73 10 0.14
74 36 0.49
75 4 0.05
76 18 0.24
77 6 0.08
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.28
Consensus pattern (74 bp):
TTGAAAAACAGAAATTGGAAATACCTCAGACGTGAACCGAGGCTCAACTCACCTCTCGCAATATG
AGTTGATTT
Found at i:30711400 original size:25 final size:24
Alignment explanation
Indices: 30711366--30711419 Score: 65
Period size: 23 Copynumber: 2.2 Consensus size: 24
30711356 CTTTGTTTTA
* *
30711366 TTTTATTTCTTTTATTTTATGTTATG
1 TTTTATTTCTATTA--TTATATTATG
30711392 TTTTA-TTCTATTATTATATTATG
1 TTTTATTTCTATTATTATATTATG
30711415 TTTTA
1 TTTTA
30711420 GTAATAATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 14 0.54
25 7 0.27
26 5 0.19
ACGTcount: A:0.20, C:0.04, G:0.06, T:0.70
Consensus pattern (24 bp):
TTTTATTTCTATTATTATATTATG
Found at i:30712390 original size:3 final size:3
Alignment explanation
Indices: 30712319--30712379 Score: 59
Period size: 3 Copynumber: 19.3 Consensus size: 3
30712309 ATTAATAAGA
* * * *
30712319 AAT AAT AAT AAC AAT AAT AAT AAT ATT CAATT AAT AAT ACT ATAT GAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT -AA-T AAT AAT AAT A-AT AAT
30712367 AAT AAT AAT AAT A
1 AAT AAT AAT AAT A
30712380 GTGAAATAAT
Statistics
Matches: 47, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
3 42 0.89
4 4 0.09
5 1 0.02
ACGTcount: A:0.59, C:0.05, G:0.02, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:30713568 original size:6 final size:6
Alignment explanation
Indices: 30713557--30713601 Score: 54
Period size: 6 Copynumber: 7.2 Consensus size: 6
30713547 CATGATATTA
* *
30713557 GTTTTT GTTTTT GTTTTT TTTTTT GCTTTCTT CTTTTT GTTTTT G
1 GTTTTT GTTTTT GTTTTT GTTTTT G-TTT-TT GTTTTT GTTTTT G
30713602 CTATTCCTGC
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
6 25 0.76
7 6 0.18
8 2 0.06
ACGTcount: A:0.00, C:0.07, G:0.13, T:0.80
Consensus pattern (6 bp):
GTTTTT
Found at i:30713614 original size:22 final size:20
Alignment explanation
Indices: 30713557--30713621 Score: 62
Period size: 20 Copynumber: 3.2 Consensus size: 20
30713547 CATGATATTA
*
30713557 GTTTTTG-TTTTTG-TTTTT
1 GTTTTTGCTTTCTGCTTTTT
* *
30713575 TTTTTTGCTTTCTTCTTTTT
1 GTTTTTGCTTTCTGCTTTTT
30713595 GTTTTTGCTATTCCTGCTTTTGT
1 GTTTTTGCT-TT-CTGCTTTT-T
30713618 GTTT
1 GTTT
30713622 CTACTGCTCT
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
18 6 0.16
19 4 0.11
20 13 0.35
21 2 0.05
22 7 0.19
23 5 0.14
ACGTcount: A:0.02, C:0.11, G:0.14, T:0.74
Consensus pattern (20 bp):
GTTTTTGCTTTCTGCTTTTT
Found at i:30714244 original size:26 final size:26
Alignment explanation
Indices: 30714215--30714324 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
30714205 TGGTACAAAT
*
30714215 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
* *
30714241 TGATAATGGGTTAGGTAAATATTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
30714267 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
* *
30714293 TGATAATGGGTTAGGCAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
30714319 TGATAA
1 TGATAA
30714325 GAATTTAATG
Statistics
Matches: 77, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:30714271 original size:52 final size:52
Alignment explanation
Indices: 30714215--30714324 Score: 193
Period size: 52 Copynumber: 2.1 Consensus size: 52
30714205 TGGTACAAAT
*
30714215 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATATTTCA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTAGGCAAATATTTCA
* *
30714267 TGATAATAGGTTAGGTAAATGTTTCATGATAATGGGTTAGGCAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTAGGCAAATATTTCA
30714319 TGATAA
1 TGATAA
30714325 GAATTTAATG
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 55 1.00
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.36
Consensus pattern (52 bp):
TGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTAGGCAAATATTTCA
Found at i:30715986 original size:27 final size:27
Alignment explanation
Indices: 30715944--30716083 Score: 167
Period size: 27 Copynumber: 5.2 Consensus size: 27
30715934 GAGGAAGCGT
30715944 TCTGGTGGCTAC-GCCACAAATATCTGA
1 TCTGGTGGCT-CTGCCACAAATATCTGA
30715971 TCTGGTGGCTCTGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
30715998 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* * *
30716025 TCTGGTGGCTCTGCCACGATTATCTATA
1 TCTGGTGGCTCTGCCACAAATATCT-GA
* * * *
30716053 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
30716079 TCTGG
1 TCTGG
30716084 CAGCCATGCT
Statistics
Matches: 100, Mismatches: 11, Indels: 5
0.86 0.09 0.04
Matches are distributed among these distances:
26 6 0.06
27 79 0.79
28 15 0.15
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.34
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:30716029 original size:54 final size:55
Alignment explanation
Indices: 30715944--30716083 Score: 187
Period size: 54 Copynumber: 2.6 Consensus size: 55
30715934 GAGGAAGCGT
* *
30715944 TCTGGTGGCTAC-GCCACAAATATCTGATCTGGTGGCTCTGCCACAAATATCT-GA
1 TCTGGTGGCT-CTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTAGA
* * *
30715998 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACGATTATCTATA
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTAGA
* *
30716053 TCTGGTGACTCTGTCACAT-TATCTGTTCTGG
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGG
30716084 CAGCCATGCT
Statistics
Matches: 77, Mismatches: 7, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
53 1 0.01
54 58 0.75
55 18 0.23
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.34
Consensus pattern (55 bp):
TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTAGA
Found at i:30716169 original size:19 final size:22
Alignment explanation
Indices: 30716145--30716184 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 22
30716135 CTCCCCACAC
30716145 GGTGTA-A-GGTTGG-TATGGG
1 GGTGTATACGGTTGGATATGGG
30716164 GGTGTATACGGTTGGATATGG
1 GGTGTATACGGTTGGATATGG
30716185 TTGGGTTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
20 1 0.06
21 6 0.33
22 5 0.28
ACGTcount: A:0.17, C:0.03, G:0.47, T:0.33
Consensus pattern (22 bp):
GGTGTATACGGTTGGATATGGG
Found at i:30717480 original size:9 final size:9
Alignment explanation
Indices: 30717466--30717491 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
30717456 TTTATTTTTA
30717466 AAATTATTT
1 AAATTATTT
30717475 AAATTATTT
1 AAATTATTT
30717484 AAATTATT
1 AAATTATT
30717492 AATATAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (9 bp):
AAATTATTT
Found at i:30717522 original size:31 final size:31
Alignment explanation
Indices: 30717477--30717549 Score: 89
Period size: 31 Copynumber: 2.4 Consensus size: 31
30717467 AATTATTTAA
*
30717477 ATTATTTAA-ATTATTAATATAAA-ATATTAT
1 ATTATTTAATATTATTAA-ACAAACATATTAT
* *
30717507 ATTTTTTAATATTATTAAACAAACATATTTT
1 ATTATTTAATATTATTAAACAAACATATTAT
30717538 ATTATTT-ATATT
1 ATTATTTAATATT
30717550 TAGCCATATA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
30 17 0.46
31 20 0.54
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (31 bp):
ATTATTTAATATTATTAAACAAACATATTAT
Found at i:30717600 original size:16 final size:15
Alignment explanation
Indices: 30717557--30717602 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 15
30717547 ATTTAGCCAT
*
30717557 ATAATAAATTACT-A
1 ATAATAAATTATTAA
*
30717571 AT-ATAATTTATTAA
1 ATAATAAATTATTAA
*
30717585 ATAATAAATTATTTA
1 ATAATAAATTATTAA
30717600 ATA
1 ATA
30717603 TTTTAATTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
13 8 0.31
14 5 0.19
15 13 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.43
Consensus pattern (15 bp):
ATAATAAATTATTAA
Found at i:30726667 original size:12 final size:12
Alignment explanation
Indices: 30726628--30726667 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
30726618 TTTAATAATA
30726628 TAAAA-ATAT-T
1 TAAAATATATAT
*
30726638 TAAAACATATAT
1 TAAAATATATAT
30726650 TAAAATATATAT
1 TAAAATATATAT
30726662 TAAAAT
1 TAAAAT
30726668 GAAAAATTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
10 5 0.19
11 4 0.15
12 18 0.67
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.38
Consensus pattern (12 bp):
TAAAATATATAT
Found at i:30735931 original size:15 final size:15
Alignment explanation
Indices: 30735908--30735946 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
30735898 TCCTCAGAAG
30735908 AAGTTATCGACGAGA
1 AAGTTATCGACGAGA
* *
30735923 AATTTATCGACGATA
1 AAGTTATCGACGAGA
30735938 AAGTTATCG
1 AAGTTATCG
30735947 CTGAAAATGG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.38, C:0.13, G:0.21, T:0.28
Consensus pattern (15 bp):
AAGTTATCGACGAGA
Found at i:30736124 original size:25 final size:26
Alignment explanation
Indices: 30736081--30736130 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 26
30736071 GCATATGGTA
30736081 TTGTCTTATTTTTTTGTTTTTATTTG
1 TTGTCTTATTTTTTTGTTTTTATTTG
30736107 TTGTCTTA-TTTTTTGTTTTTATTT
1 TTGTCTTATTTTTTTGTTTTTATTT
30736131 TATGTTAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 16 0.67
26 8 0.33
ACGTcount: A:0.08, C:0.04, G:0.10, T:0.78
Consensus pattern (26 bp):
TTGTCTTATTTTTTTGTTTTTATTTG
Found at i:30736131 original size:13 final size:13
Alignment explanation
Indices: 30736090--30736136 Score: 60
Period size: 13 Copynumber: 3.7 Consensus size: 13
30736080 ATTGTCTTAT
30736090 TTTTTTGTTTTTA
1 TTTTTTGTTTTTA
* *
30736103 TTTGTTG-TCTTA
1 TTTTTTGTTTTTA
30736115 TTTTTTGTTTTTA
1 TTTTTTGTTTTTA
*
30736128 TTTTATGTT
1 TTTTTTGTT
30736137 AATTGAATAG
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
12 10 0.36
13 18 0.64
ACGTcount: A:0.09, C:0.02, G:0.11, T:0.79
Consensus pattern (13 bp):
TTTTTTGTTTTTA
Found at i:30739375 original size:3 final size:3
Alignment explanation
Indices: 30739367--30739404 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
30739357 CCATCCAAAC
30739367 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
30739405 GGGATAAAGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:30742267 original size:26 final size:26
Alignment explanation
Indices: 30742238--30742295 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
30742228 CCCGATATAT
*
30742238 GGCTGTTCATGAGCTTCCAGATTAAA
1 GGCTCTTCATGAGCTTCCAGATTAAA
** * *
30742264 GGCTCTTTGTGAGCTTCCTGATTAAT
1 GGCTCTTCATGAGCTTCCAGATTAAA
30742290 GGCTCT
1 GGCTCT
30742296 CCGGAGCTTC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.19, C:0.21, G:0.24, T:0.36
Consensus pattern (26 bp):
GGCTCTTCATGAGCTTCCAGATTAAA
Found at i:30742426 original size:24 final size:23
Alignment explanation
Indices: 30742385--30742432 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
30742375 TACCCGTTAT
**
30742385 TGGCTCGTATGAGCTTCCTAATTA
1 TGGCTCGTATGAAATTCCT-ATTA
*
30742409 TGGCTCTTATGAAATTCCTATTA
1 TGGCTCGTATGAAATTCCTATTA
30742432 T
1 T
30742433 ACAGCCCGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 5 0.24
24 16 0.76
ACGTcount: A:0.23, C:0.19, G:0.17, T:0.42
Consensus pattern (23 bp):
TGGCTCGTATGAAATTCCTATTA
Found at i:30753505 original size:4 final size:4
Alignment explanation
Indices: 30753496--30753523 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
30753486 TAAAACATAT
30753496 ATAA ATAA ATAA ATAA ATAA ATAA ATAA
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA
30753524 TAATAGGAGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
ATAA
Found at i:30753629 original size:21 final size:23
Alignment explanation
Indices: 30753594--30753636 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 23
30753584 GGTAATAAAC
30753594 AAATAGATGAATAGATAATAATG
1 AAATAGATGAATAGATAATAATG
30753617 AAATA-AT-AATAGATAATAAT
1 AAATAGATGAATAGATAATAAT
30753637 ATACCAATAG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 13 0.65
22 2 0.10
23 5 0.25
ACGTcount: A:0.60, C:0.00, G:0.12, T:0.28
Consensus pattern (23 bp):
AAATAGATGAATAGATAATAATG
Found at i:30753634 original size:10 final size:10
Alignment explanation
Indices: 30753603--30753637 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
30753593 CAAATAGATG
30753603 AATAGATAAT
1 AATAGATAAT
*
30753613 AATGAAATAAT
1 AAT-AGATAAT
30753624 AATAGATAAT
1 AATAGATAAT
30753634 AATA
1 AATA
30753638 TACCAATAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
10 13 0.59
11 9 0.41
ACGTcount: A:0.63, C:0.00, G:0.09, T:0.29
Consensus pattern (10 bp):
AATAGATAAT
Done.