Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold127
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: 3416254
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 147187 characters in sequence are not A, C, G, or T
File 1 of 10
Found at i:316 original size:23 final size:23
Alignment explanation
Indices: 277--339 Score: 94
Period size: 23 Copynumber: 2.7 Consensus size: 23
267 TCTACTGACT
277 AACAAATCAAGAACAATTTCCAG
1 AACAAATCAAGAACAATTTCCAG
300 CAGAC-AATCAA-AACAATTTCCAG
1 -A-ACAAATCAAGAACAATTTCCAG
323 AACAAATCAAGAACAAT
1 AACAAATCAAGAACAAT
340 ATCAAAACAA
Statistics
Matches: 36, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
21 2 0.06
22 7 0.19
23 18 0.50
24 7 0.19
25 2 0.06
ACGTcount: A:0.54, C:0.22, G:0.08, T:0.16
Consensus pattern (23 bp):
AACAAATCAAGAACAATTTCCAG
Found at i:1698 original size:36 final size:37
Alignment explanation
Indices: 1618--1721 Score: 131
Period size: 36 Copynumber: 2.8 Consensus size: 37
1608 GAAACTGAGC
* *
1618 AAATCGGCCGAAAAAGAAAAGAAAAGAAACGGGGGGAGC
1 AAATCGGCAG-AAAAGAAAAGAAAAGAAAC-GGGGGAGA
* *
1657 AAATCGGCAGAAAAGAAAAGAAAATAAAC-TGGGAGA
1 AAATCGGCAGAAAAGAAAAGAAAAGAAACGGGGGAGA
1693 AAATCGGCAGAAAAGAAAA-ACAAAGAAAC
1 AAATCGGCAGAAAAGAAAAGA-AAAGAAAC
1722 AAGGAAGCAA
Statistics
Matches: 59, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
35 1 0.02
36 31 0.53
38 18 0.31
39 9 0.15
ACGTcount: A:0.58, C:0.12, G:0.26, T:0.05
Consensus pattern (37 bp):
AAATCGGCAGAAAAGAAAAGAAAAGAAACGGGGGAGA
Found at i:6046 original size:50 final size:50
Alignment explanation
Indices: 5991--6093 Score: 170
Period size: 50 Copynumber: 2.1 Consensus size: 50
5981 ATGCGGGCGA
* * * *
5991 AAAACAAATTATGTAACAAATACATTTATTAAAAATTTGATATAAATAAT
1 AAAACAAATTATATAACAAATACATTTATAAAAAAATTAATATAAATAAT
6041 AAAACAAATTATATAACAAATACATTTATAAAAAAATTAATATAAATAAT
1 AAAACAAATTATATAACAAATACATTTATAAAAAAATTAATATAAATAAT
6091 AAA
1 AAA
6094 TAATAAATTG
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.61, C:0.06, G:0.02, T:0.31
Consensus pattern (50 bp):
AAAACAAATTATATAACAAATACATTTATAAAAAAATTAATATAAATAAT
Found at i:6638 original size:23 final size:24
Alignment explanation
Indices: 6612--6677 Score: 77
Period size: 22 Copynumber: 2.9 Consensus size: 24
6602 AACTAATCCT
*
6612 CTCTCAAATTTCCTCT-TAATTTC
1 CTCTCAAATTTCCTCTCAAATTTC
*
6635 CTCTC-AATTTGCTCTCAAATTTC
1 CTCTCAAATTTCCTCTCAAATTTC
*
6658 TTC-CAAATTT-CTCTCAAATT
1 CTCTCAAATTTCCTCTCAAATT
6678 CATATTTAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
22 20 0.53
23 18 0.47
ACGTcount: A:0.24, C:0.29, G:0.02, T:0.45
Consensus pattern (24 bp):
CTCTCAAATTTCCTCTCAAATTTC
Found at i:6675 original size:11 final size:11
Alignment explanation
Indices: 6611--6677 Score: 68
Period size: 11 Copynumber: 6.0 Consensus size: 11
6601 AAACTAATCC
6611 TCTCTCAAATT
1 TCTCTCAAATT
*
6622 TC-CTCTTAATT
1 TCTCTC-AAATT
6633 TCCTCTC-AATT
1 T-CTCTCAAATT
6644 TGCTCTCAAATT
1 T-CTCTCAAATT
6656 TCT-TCCAAATT
1 TCTCT-CAAATT
6667 TCTCTCAAATT
1 TCTCTCAAATT
6678 CATATTTAAT
Statistics
Matches: 48, Mismatches: 2, Indels: 12
0.77 0.03 0.19
Matches are distributed among these distances:
10 4 0.08
11 34 0.71
12 7 0.15
13 3 0.06
ACGTcount: A:0.24, C:0.28, G:0.01, T:0.46
Consensus pattern (11 bp):
TCTCTCAAATT
Found at i:8575 original size:18 final size:18
Alignment explanation
Indices: 8548--8587 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
8538 CAGGTGAGTT
* *
8548 TCCTAGCCCTTTTATGTA
1 TCCTAACCCTTATATGTA
*
8566 TCCTAACCCTTATATGTT
1 TCCTAACCCTTATATGTA
8584 TCCT
1 TCCT
8588 TTTCCGAGTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.17, C:0.30, G:0.07, T:0.45
Consensus pattern (18 bp):
TCCTAACCCTTATATGTA
Found at i:8887 original size:20 final size:21
Alignment explanation
Indices: 8849--8888 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
8839 CGTACCGGAA
*
8849 GAACCAGAATCCCCACCAGAG
1 GAACCACAATCCCCACCAGAG
*
8870 GAACCACAA-CCCCGCCAGA
1 GAACCACAATCCCCACCAGA
8889 AGCTGGACAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.38, C:0.42, G:0.17, T:0.03
Consensus pattern (21 bp):
GAACCACAATCCCCACCAGAG
Found at i:9087 original size:23 final size:22
Alignment explanation
Indices: 9056--11485 Score: 1860
Period size: 23 Copynumber: 108.4 Consensus size: 22
9046 GAGTTATTAC
9056 TTAAAAACCCTAAACCCTTAAAA
1 TTAAAAACCCTAAACCCTT-AAA
* *
9079 TTTAAAACCCTAAACCCTTAAC
1 TTAAAAACCCTAAACCCTTAAA
** **
9101 TTAAAAACCCTAAACTAATTTCA
1 TTAAAAACCCTAAAC-CCTTAAA
*
9124 TTAAAAAACCTAAACCCTTAAAA
1 TTAAAAACCCTAAACCCTT-AAA
* *
9147 TTTAAAACCCTAAACCCTTAAC
1 TTAAAAACCCTAAACCCTTAAA
*
9169 TTAAAAA-CCTTAACCCTTAAA
1 TTAAAAACCCTAAACCCTTAAA
9190 TTAAAAACCCT-AACCCTTAAA
1 TTAAAAACCCTAAACCCTTAAA
* *
9211 TT-AAAACCCTAAACTCTTAAC
1 TTAAAAACCCTAAACCCTTAAA
* *** *
9232 TTAAAAACCATAAAATAATTTAA
1 TTAAAAACCCT-AAACCCTTAAA
9255 TTAAAAACCCTAAACCCTTAAA
1 TTAAAAACCCTAAACCCTTAAA
9277 TTAAAAAACCCTAAACCCTTAAA
1 TT-AAAAACCCTAAACCCTTAAA
9300 TTAAAAACCCTAAACCCTTAAAA
1 TTAAAAACCCTAAACCCTT-AAA
* * *
9323 TTAAAAACCCTAAGCCATTAAC
1 TTAAAAACCCTAAACCCTTAAA
* ** *
9345 TTCAAAACCCTAAACTAATTTAA
1 TTAAAAACCCTAAAC-CCTTAAA
*
9368 TTAAAAACCCTAAACTCTTAAAA
1 TTAAAAACCCTAAACCCTT-AAA
*
9391 TT-AAAACCCTAAACCCTTAAC
1 TTAAAAACCCTAAACCCTTAAA
* * *
9412 TCAAAAA-CCTGAACCCTTAAC
1 TTAAAAACCCTAAACCCTTAAA
*
9433 TTAAAAATCCT-AA-CCTGTAAA
1 TTAAAAACCCTAAACCCT-TAAA
9454 TTAAAAACCCTAAACCCTTAAAA
1 TTAAAAACCCTAAACCCTT-AAA
9477 TTAAAAACCCTAAACCCTTAACTTAA
1 TTAAAAACCCTAAACCCTT-A---AA
**
9503 TTAAAAACCCTAAACTAATTAAA
1 TTAAAAACCCTAAAC-CCTTAAA
9526 TTAAAAACCCTAAACCCTTAAA
1 TTAAAAACCCTAAACCCTTAAA
* *
9548 -AACAAAACCCTAAACCCTAACCCTTAAC
1 TTA-AAAACCCT--A----AACCCTTAAA
**
9576 TTAAAAACCCTAAACTAAGTT-AA
1 TTAAAAACCCTAAAC--CCTTAAA
*
9599 TTTAAAACCCTAAACCCTTAAA
1 TTAAAAACCCTAAACCCTTAAA
* *
9621 CTTAAAAACTCT-AACCCTTAAC
1 -TTAAAAACCCTAAACCCTTAAA
** *
9643 TTAAAAACCCTAAACAAATTTAA
1 TTAAAAACCCTAAAC-CCTTAAA
*
9666 TTAAAAACCCTAAACCCTTAAC
1 TTAAAAACCCTAAACCCTTAAA
* ** *
9688 TTAAAAACCTTAAACTAATTCAA
1 TTAAAAACCCTAAAC-CCTTAAA
*
9711 TTAAAAACCTTAAACCCTTAAA
1 TTAAAAACCCTAAACCCTTAAA
* *
9733 TTAAAAAACCCCAAACCCGAACTCTTAAC
1 TT-AAAAACCCTAAA--C---C-CTTAAA
** *
9762 TTAAAAACCCTAAACTAATTTAA
1 TTAAAAACCCTAAAC-CCTTAAA
9785 TTAAAAACCCTAAACCCTTAAA
1 TTAAAAACCCTAAACCCTTAAA
*
9807 CTTAAAAACCCT-AACCCTTAAC
1 -TTAAAAACCCTAAACCCTTAAA
* ** *
9829 TTAAAAACTCTAAACTAATTTAA
1 TTAAAAACCCTAAAC-CCTTAAA
** *
9852 TTAAAAACCCTAAACTAATTTAA
1 TTAAAAACCCTAAAC-CCTTAAA
* *
9875 TTTAAAACCCTAAACCCTTAAT
1 TTAAAAACCCTAAACCCTTAAA
*
9897 TTAAAAA-CCT--AGCCTTAAA
1 TTAAAAACCCTAAACCCTTAAA
*
9916 TT-AAAACACTAAACCCTTAAAA
1 TTAAAAACCCTAAACCCTT-AAA
* * *
9938 TTAAAAACCTTAAACCATTAAC
1 TTAAAAACCCTAAACCCTTAAA
9960 TTAAAAACCCT-AACCCTTAAAA
1 TTAAAAACCCTAAACCCTT-AAA
** * *
9982 TTAAAAACCCTACGCCTTTAAC
1 TTAAAAACCCTAAACCCTTAAA
*
10004 TTAAAAACCCT-AACCCGTAAA
1 TTAAAAACCCTAAACCCTTAAA
* *
10025 TTAAAAACCTTAAACTCTTAAAA
1 TTAAAAACCCTAAACCCTT-AAA
* *
10048 TTAAAAACTCTAAACCCTTAAC
1 TTAAAAACCCTAAACCCTTAAA
* * ** *
10070 TTAAAAATCTTAAACTAATTTAA
1 TTAAAAACCCTAAAC-CCTTAAA
10093 TTAAAAACCCTAAACCCTTAAAA
1 TTAAAAACCCTAAACCCTT-AAA
* *
10116 ATAAAAACTCTAAACCC-TAAA
1 TTAAAAACCCTAAACCCTTAAA
**** *
10137 CCCTAAACCCT-AACCCTTAAC
1 TTAAAAACCCTAAACCCTTAAA
** *
10158 TTAAAAACCCTAAACTAATTTAA
1 TTAAAAACCCTAAAC-CCTTAAA
* **
10181 TTAAAAACCTTAAACCCACAAA
1 TTAAAAACCCTAAACCCTTAAA
*
10203 -AAAACCCTAACCCT-AACCCTTAACA
1 TTAAA----AACCCTAAACCCTTAA-A
*** *
10228 -T-AAAACCCTAAATAATTTAA
1 TTAAAAACCCTAAACCCTTAAA
*
10248 TTAAAAACCCT-AACCCTTAAC
1 TTAAAAACCCTAAACCCTTAAA
** **
10269 TTAAAAACCCTAAACTAATTTCA
1 TTAAAAACCCTAAAC-CCTTAAA
* * *
10292 TTAAAAACCCTAAATCCTCAAC
1 TTAAAAACCCTAAACCCTTAAA
** * *
10314 TTAAAAACCCTAAACTAATTTAC
1 TTAAAAACCCTAAAC-CCTTAAA
*
10337 TTAAAAACCCTAAATCCTTAAA
1 TTAAAAACCCTAAACCCTTAAA
* ** * *
10359 TTAAAAACCCTAATCTAATTTAC
1 TTAAAAACCCTAAAC-CCTTAAA
*
10382 TTAAAAACCATAAACCCTTAAA
1 TTAAAAACCCTAAACCCTTAAA
*
10404 TTAAAAACCCTAAACCCTAACCCTTAAC
1 TTAAAAACCCT--A----AACCCTTAAA
* ** *
10432 TTAAAAACCCGAAACTAATTTAA
1 TTAAAAACCCTAAAC-CCTTAAA
* * * * *
10455 TTAAAAATCGTAGACTCTTAAC
1 TTAAAAACCCTAAACCCTTAAA
* *
10477 TT-AAAACCCTAAACGCTTAAC
1 TTAAAAACCCTAAACCCTTAAA
* *
10498 TTAAAAACCAT-AACCCTCAAA
1 TTAAAAACCCTAAACCCTTAAA
10519 TTAAAAACCCTAAACCCTTAAAA
1 TTAAAAACCCTAAACCCTT-AAA
10542 TTAAAAACCCTAAACCCTTAAAA
1 TTAAAAACCCTAAACCCTT-AAA
* *
10565 TTAAAAACCCTAAGCCCTTAAC
1 TTAAAAACCCTAAACCCTTAAA
** *
10587 TTAAAAACCCTAAACTAATTTAA
1 TTAAAAACCCTAAAC-CCTTAAA
10610 TTAAAAACCCTAAACCCTTAAA
1 TTAAAAACCCTAAACCCTTAAA
*
10632 CTTAAAAACCCT-AACCTCTTAAC
1 -TTAAAAACCCTAAACC-CTTAAA
** *
10655 TTAAAAACCCTAAACTAATTTAA
1 TTAAAAACCCTAAAC-CCTTAAA
10678 TTAAAAACCCTAAACCCTTAAA
1 TTAAAAACCCTAAACCCTTAAA
** *
10700 TTTAAAAACCCT-AACTAATTTAA
1 -TTAAAAACCCTAAAC-CCTTAAA
* * * *
10723 TTAAAAACCGTAGACTCTTAAC
1 TTAAAAACCCTAAACCCTTAAA
* *
10745 TT-AAAACCCTAAACGCTTAAC
1 TTAAAAACCCTAAACCCTTAAA
*
10766 TTAAAAACCAT-AACCCTTAAA
1 TTAAAAACCCTAAACCCTTAAA
10787 TTAAAAACCCTAAACCCTTAAAA
1 TTAAAAACCCTAAACCCTT-AAA
10810 TTAAAAACCCTAAACCCTTAAAA
1 TTAAAAACCCTAAACCCTT-AAA
* *
10833 TTAAAAACCCTAAGCCCTTAAC
1 TTAAAAACCCTAAACCCTTAAA
** *
10855 TTAAAAACCCTAAACTAATTTAA
1 TTAAAAACCCTAAAC-CCTTAAA
*
10878 TTAAAAACCCAAAACCCTTAAA
1 TTAAAAACCCTAAACCCTTAAA
*
10900 CTTAAAAACCCT-AACCTCTTAAC
1 -TTAAAAACCCTAAACC-CTTAAA
** *
10923 TTAAAAACCCTAAACTAATTTAA
1 TTAAAAACCCTAAAC-CCTTAAA
10946 TTAAAAACCCTAAACCCTTAAA
1 TTAAAAACCCTAAACCCTTAAA
* *
10968 TTTAAAAACACT-AACCCTTTAAC
1 -TTAAAAACCCTAAACCC-TTAAA
10991 TTAAAAACCCTAAA--C-TAAA
1 TTAAAAACCCTAAACCCTTAAA
11010 TTAATTAAAACCCTAAACCCTTAAA
1 TT-A--AAAACCCTAAACCCTTAAA
** *
11035 CTTAAAAACCCT-AACTAATTTAA
1 -TTAAAAACCCTAAAC-CCTTAAA
* * * *
11058 TTAAAAACCGTAGACTCTTAAC
1 TTAAAAACCCTAAACCCTTAAA
* *
11080 TT-AAAACCCTAAACGCTTAAC
1 TTAAAAACCCTAAACCCTTAAA
*
11101 TTAAAAACCAT-AACCCTTAAA
1 TTAAAAACCCTAAACCCTTAAA
11122 TTAAAAACCCTAAACCCTTAAAA
1 TTAAAAACCCTAAACCCTT-AAA
11145 TTAAAAACCCTAAACCCTTAAAA
1 TTAAAAACCCTAAACCCTT-AAA
* *
11168 TTAAAAACCCTAAGCCCTTAAC
1 TTAAAAACCCTAAACCCTTAAA
** *
11190 TTAAAAACCCTAAACTAATTTAA
1 TTAAAAACCCTAAAC-CCTTAAA
** *
11213 TTAAAAACCCTAAACTAATTTAA
1 TTAAAAACCCTAAAC-CCTTAAA
* *
11236 TTTAAAACCCTAAACCCTTAAT
1 TTAAAAACCCTAAACCCTTAAA
*
11258 TTAAAAA-CCT--AGCCTTAAA
1 TTAAAAACCCTAAACCCTTAAA
*
11277 TT-AAAACACTAAACCCTTAAAA
1 TTAAAAACCCTAAACCCTT-AAA
* *
11299 TTAAATAAAAACACT--ACCCTTTAAC
1 -T---TAAAAACCCTAAACCC-TTAAA
**
11324 TTAAAAACCCTAAACTAAATT-AA
1 TTAAAAACCCTAAAC--CCTTAAA
*
11347 TTAAAAACCCTAAACTCTTAAA
1 TTAAAAACCCTAAACCCTTAAA
** *
11369 CTTAAAAACCCT-AACTAATTTAA
1 -TTAAAAACCCTAAAC-CCTTAAA
*
11392 TTAAAAACCCTAAACCCTTAAC
1 TTAAAAACCCTAAACCCTTAAA
* *
11414 TTAAAAACCCT-AACCCTCAAC
1 TTAAAAACCCTAAACCCTTAAA
* *
11435 TTAAAAA-CCTTAACCCTTAAC
1 TTAAAAACCCTAAACCCTTAAA
* *
11456 TTAAAAACCCTTAACCCTTAAC
1 TTAAAAACCCTAAACCCTTAAA
*
11478 TTTAAAAC
1 TTAAAAAC
11486 TTTAAACTAG
Statistics
Matches: 1923, Mismatches: 351, Indels: 267
0.76 0.14 0.11
Matches are distributed among these distances:
18 8 0.00
19 27 0.01
20 27 0.01
21 332 0.17
22 575 0.30
23 827 0.43
24 17 0.01
25 18 0.01
26 26 0.01
27 10 0.01
28 48 0.02
29 8 0.00
ACGTcount: A:0.48, C:0.25, G:0.01, T:0.26
Consensus pattern (22 bp):
TTAAAAACCCTAAACCCTTAAA
Found at i:9104 original size:45 final size:44
Alignment explanation
Indices: 9054--11485 Score: 1814
Period size: 45 Copynumber: 54.2 Consensus size: 44
9044 TTGAGTTATT
*
9054 ACTTAAAAACCCTAAACCCTTAAAATTTAAAACCCTAAACCCTTA
1 ACTTAAAAACCCTAAACCCTT-AAATTAAAAACCCTAAACCCTTA
** ** *
9099 ACTTAAAAACCCTAAACTAATTTCATTAAAAAACCTAAACCCTTAA
1 ACTTAAAAACCCTAAAC-CCTTAAATTAAAAACCCTAAACCCTT-A
* * * *
9145 AATTTAAAACCCTAAACCCTTAACTTAAAAA-CCTTAACCCTTA
1 ACTTAAAAACCCTAAACCCTTAAATTAAAAACCCTAAACCCTTA
* *
9188 AATTAAAAACCCT-AACCCTTAAATT-AAAACCCTAAACTCTTA
1 ACTTAAAAACCCTAAACCCTTAAATTAAAAACCCTAAACCCTTA
* *** *
9230 ACTTAAAAACCATAAAATAATTTAATTAAAAACCCTAAACCCTTA
1 ACTTAAAAACCCT-AAACCCTTAAATTAAAAACCCTAAACCCTTA
*
9275 AATTAAAAAACCCTAAACCCTTAAATTAAAAACCCTAAACCCTTAA
1 ACTT-AAAAACCCTAAACCCTTAAATTAAAAACCCTAAACCCTT-A
* * * * * **
9321 AATTAAAAACCCTAAGCCATTAACTTCAAAACCCTAAACTAATTTA
1 ACTTAAAAACCCTAAACCCTTAAATTAAAAACCCTAAAC--CCTTA
*
9367 A-TTAAAAACCCTAAACTCTTAAAATT-AAAACCCTAAACCCTTA
1 ACTTAAAAACCCTAAACCCTT-AAATTAAAAACCCTAAACCCTTA
* * * *
9410 ACTCAAAAA-CCTGAACCCTTAACTTAAAAATCCT-AA-CCTGTA
1 ACTTAAAAACCCTAAACCCTTAAATTAAAAACCCTAAACCCT-TA
*
9452 AATTAAAAACCCTAAACCCTTAAAATTAAAAACCCTAAACCCTTA
1 ACTTAAAAACCCTAAACCCTT-AAATTAAAAACCCTAAACCCTTA
**
9497 ACTTAATTAAAAACCCTAAACTAATTAAATTAAAAACCCTAAACCCTTA
1 AC----TTAAAAACCCTAAAC-CCTTAAATTAAAAACCCTAAACCCTTA
** * **
9546 A-AAACAAAACCCTAAACCCTAACCCTTAACTTAAAAACCCTAAACTAAGTTA
1 ACTTA-AAAACCCT--A----AACCCTTAAATTAAAAACCCTAAAC--CCTTA
* *
9598 A-TTTAAAACCCTAAACCCTTAAACTTAAAAACTCT-AACCCTTA
1 ACTTAAAAACCCTAAACCCTTAAA-TTAAAAACCCTAAACCCTTA
** *
9641 ACTTAAAAACCCTAAACAAATTTAATTAAAAACCCTAAACCCTTA
1 ACTTAAAAACCCTAAAC-CCTTAAATTAAAAACCCTAAACCCTTA
* ** * *
9686 ACTTAAAAACCTTAAACTAATTCAATTAAAAACCTTAAACCCTTA
1 ACTTAAAAACCCTAAAC-CCTTAAATTAAAAACCCTAAACCCTTA
* * * **
9731 AATTAAAAAACCCCAAACCCGAACTCTTAACTTAAAAACCCTAAACTAATTTA
1 ACTT-AAAAACCCTAAA--C---C-CTTAAATTAAAAACCCTAAAC--CCTTA
9784 A-TTAAAAACCCTAAACCCTTAAACTTAAAAACCCT-AACCCTTA
1 ACTTAAAAACCCTAAACCCTTAAA-TTAAAAACCCTAAACCCTTA
* ** * **
9827 ACTTAAAAACTCTAAACTAATTTAATTAAAAACCCTAAACTAATTTA
1 ACTTAAAAACCCTAAAC-CCTTAAATTAAAAACCCTAAAC--CCTTA
* * *
9874 A-TTTAAAACCCTAAACCCTTAATTTAAAAA-CCT--AGCCTTA
1 ACTTAAAAACCCTAAACCCTTAAATTAAAAACCCTAAACCCTTA
* * * *
9914 AATT-AAAACACTAAACCCTTAAAATTAAAAACCTTAAACCATTA
1 ACTTAAAAACCCTAAACCCTT-AAATTAAAAACCCTAAACCCTTA
** *
9958 ACTTAAAAACCCT-AACCCTTAAAATTAAAAACCCTACGCCTTTA
1 ACTTAAAAACCCTAAACCCTT-AAATTAAAAACCCTAAACCCTTA
* * *
10002 ACTTAAAAACCCT-AACCCGTAAATTAAAAACCTTAAACTCTTAA
1 ACTTAAAAACCCTAAACCCTTAAATTAAAAACCCTAAACCCTT-A
* * * * * **
10046 AATTAAAAACTCTAAACCCTTAACTTAAAAATCTTAAACTAATTTA
1 ACTTAAAAACCCTAAACCCTTAAATTAAAAACCCTAAAC--CCTTA
* * *
10092 A-TTAAAAACCCTAAACCCTTAAAAATAAAAACTCTAAACCCTAA
1 ACTTAAAAACCCTAAACCCTT-AAATTAAAAACCCTAAACCCTTA
* * **
10136 ACCCT--AAACCCT-AACCCTTAACTTAAAAACCCTAAACTAATTTA
1 A-CTTAAAAACCCTAAACCCTTAAATTAAAAACCCTAAAC--CCTTA
* ** *
10180 A-TTAAAAACCTTAAACCCACAAA-AAAACCCTAACCCT-AACCCTTA
1 ACTTAAAAACCCTAAACCCTTAAATTAAA----AACCCTAAACCCTTA
* *** *
10225 ACAT-AAAACCCTAAATAATTTAATTAAAAACCCT-AACCCTTA
1 ACTTAAAAACCCTAAACCCTTAAATTAAAAACCCTAAACCCTTA
** ** * *
10267 ACTTAAAAACCCTAAACTAATTTCATTAAAAACCCTAAATCCTCA
1 ACTTAAAAACCCTAAAC-CCTTAAATTAAAAACCCTAAACCCTTA
** * * *
10312 ACTTAAAAACCCTAAACTAATTTACTTAAAAACCCTAAATCCTTA
1 ACTTAAAAACCCTAAAC-CCTTAAATTAAAAACCCTAAACCCTTA
* * ** * * *
10357 AATTAAAAACCCTAATCTAATTTACTTAAAAACCATAAACCCTTA
1 ACTTAAAAACCCTAAAC-CCTTAAATTAAAAACCCTAAACCCTTA
* * * **
10402 AATTAAAAACCCTAAACCCTAACCCTTAACTTAAAAACCCGAAACTAATTTA
1 ACTTAAAAACCCT--A----AACCCTTAAATTAAAAACCCTAAAC--CCTTA
* * * * * *
10454 A-TTAAAAATCGTAGACTCTTAACTT-AAAACCCTAAACGCTTA
1 ACTTAAAAACCCTAAACCCTTAAATTAAAAACCCTAAACCCTTA
* *
10496 ACTTAAAAACCAT-AACCCTCAAATTAAAAACCCTAAACCCTTAA
1 ACTTAAAAACCCTAAACCCTTAAATTAAAAACCCTAAACCCTT-A
* *
10540 AATTAAAAACCCTAAACCCTTAAAATTAAAAACCCTAAGCCCTTA
1 ACTTAAAAACCCTAAACCCTT-AAATTAAAAACCCTAAACCCTTA
** *
10585 ACTTAAAAACCCTAAACTAATTTAATTAAAAACCCTAAACCCTTAA
1 ACTTAAAAACCCTAAAC-CCTTAAATTAAAAACCCTAAACCCTT-A
* **
10631 ACTTAAAAACCCT-AACCTCTTAACTTAAAAACCCTAAACTAATTTA
1 ACTTAAAAACCCTAAACC-CTTAAATTAAAAACCCTAAAC--CCTTA
**
10677 A-TTAAAAACCCTAAACCCTTAAATTTAAAAACCCT-AACTAATTTA
1 ACTTAAAAACCCTAAACCCTTAAA-TTAAAAACCCTAAAC--CCTTA
* * * * *
10722 A-TTAAAAACCGTAGACTCTTAACTT-AAAACCCTAAACGCTTA
1 ACTTAAAAACCCTAAACCCTTAAATTAAAAACCCTAAACCCTTA
*
10764 ACTTAAAAACCAT-AACCCTTAAATTAAAAACCCTAAACCCTTAA
1 ACTTAAAAACCCTAAACCCTTAAATTAAAAACCCTAAACCCTT-A
* *
10808 AATTAAAAACCCTAAACCCTTAAAATTAAAAACCCTAAGCCCTTA
1 ACTTAAAAACCCTAAACCCTT-AAATTAAAAACCCTAAACCCTTA
** * *
10853 ACTTAAAAACCCTAAACTAATTTAATTAAAAACCCAAAACCCTTAA
1 ACTTAAAAACCCTAAAC-CCTTAAATTAAAAACCCTAAACCCTT-A
* **
10899 ACTTAAAAACCCT-AACCTCTTAACTTAAAAACCCTAAACTAATTTA
1 ACTTAAAAACCCTAAACC-CTTAAATTAAAAACCCTAAAC--CCTTA
*
10945 A-TTAAAAACCCTAAACCCTTAAATTTAAAAACACT-AACCCTTTA
1 ACTTAAAAACCCTAAACCCTTAAA-TTAAAAACCCTAAACCC-TTA
10989 ACTTAAAAACCCTAAA--C-TAAATTAATTAAAACCCTAAACCCTTAA
1 ACTTAAAAACCCTAAACCCTTAAATT-A--AAAACCCTAAACCCTT-A
** * * * *
11034 ACTTAAAAACCCT-AACTAATTTAATTAAAAACCGTAGACTCTTA
1 ACTTAAAAACCCTAAAC-CCTTAAATTAAAAACCCTAAACCCTTA
* * *
11078 ACTT-AAAACCCTAAACGCTTAACTTAAAAACCAT-AACCCTTA
1 ACTTAAAAACCCTAAACCCTTAAATTAAAAACCCTAAACCCTTA
*
11120 AATTAAAAACCCTAAACCCTTAAAATTAAAAACCCTAAACCCTTAA
1 ACTTAAAAACCCTAAACCCTT-AAATTAAAAACCCTAAACCCTT-A
* * * **
11166 AATTAAAAACCCTAAGCCCTTAACTTAAAAACCCTAAACTAATTTA
1 ACTTAAAAACCCTAAACCCTTAAATTAAAAACCCTAAAC--CCTTA
** * *
11212 A-TTAAAAACCCTAAACTAATTTAATTTAAAACCCTAAACCCTTA
1 ACTTAAAAACCCTAAAC-CCTTAAATTAAAAACCCTAAACCCTTA
* * *
11256 ATTTAAAAA-CCT--AGCCTTAAATT-AAAACACTAAACCCTTAAA
1 ACTTAAAAACCCTAAACCCTTAAATTAAAAACCCTAAACCCTT--A
* * * **
11298 ATTAAATAAAAACACT--ACCCTTTAACTTAAAAACCCTAAACTAAATTA
1 ACT---TAAAAACCCTAAACCC-TTAAATTAAAAACCCTAAAC--CCTTA
* **
11346 A-TTAAAAACCCTAAACTCTTAAACTTAAAAACCCT-AACTAATTTA
1 ACTTAAAAACCCTAAACCCTTAAA-TTAAAAACCCTAAAC--CCTTA
* *
11391 A-TTAAAAACCCTAAACCCTTAACTTAAAAACCCT-AACCCTCA
1 ACTTAAAAACCCTAAACCCTTAAATTAAAAACCCTAAACCCTTA
* * *
11433 ACTTAAAAA-CCTTAACCCTTAACTTAAAAACCCTTAACCCTTA
1 ACTTAAAAACCCTAAACCCTTAAATTAAAAACCCTAAACCCTTA
*
11476 ACTTTAAAAC
1 ACTTAAAAAC
11486 TTTAAACTAG
Statistics
Matches: 1942, Mismatches: 299, Indels: 293
0.77 0.12 0.12
Matches are distributed among these distances:
40 34 0.02
41 26 0.01
42 154 0.08
43 202 0.10
44 299 0.15
45 758 0.39
46 271 0.14
47 27 0.01
48 25 0.01
49 42 0.02
50 40 0.02
51 50 0.03
52 10 0.01
53 4 0.00
ACGTcount: A:0.48, C:0.25, G:0.01, T:0.26
Consensus pattern (44 bp):
ACTTAAAAACCCTAAACCCTTAAATTAAAAACCCTAAACCCTTA
Found at i:9512 original size:19 final size:18
Alignment explanation
Indices: 9488--9525 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
9478 TAAAAACCCT
*
9488 AAACCCTTAACTTAATTAA
1 AAACCCTAAAC-TAATTAA
9507 AAACCCTAAACTAATTAA
1 AAACCCTAAACTAATTAA
9525 A
1 A
9526 TTAAAAACCC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.53, C:0.21, G:0.00, T:0.26
Consensus pattern (18 bp):
AAACCCTAAACTAATTAA
Found at i:9776 original size:74 final size:67
Alignment explanation
Indices: 9638--11485 Score: 988
Period size: 68 Copynumber: 27.5 Consensus size: 67
9628 ACTCTAACCC
** * *
9638 TTAACTTAAAAACCCTAAACAAATTTAA-TTAAAAACCCTAAACCCTTAACTTAAAAACCTTAAA
1 TTAA-TTAAAAACCCTAAAC-CCTTAAACTTAAAAACCC-AAACCCTTAACTTAAAAACCCTAAA
9702 CTAAT
63 CTAAT
* *
9707 TCAATTAAAAACCTTAAACCCTTAAA-TTAAAAAACCCCAAACCCGAACTCTTAACTTAAAAACC
1 TTAATTAAAAACCCTAAACCCTTAAACTT-AAAAA-CCCAAA--C---C-CTTAACTTAAAAACC
9771 CTAAACTAAT
58 CTAAACTAAT
* *
9781 TTAATTAAAAACCCTAAACCCTTAAACTTAAAAACCCTAACCCTTAACTTAAAAACTCTAAACTA
1 TTAATTAAAAACCCTAAACCCTTAAACTTAAAAACCCAAACCCTTAACTTAAAAACCCTAAACTA
9846 AT
66 AT
** * * * *
9848 TTAATTAAAAACCCTAAACTAATTTAA-TTTAAAACCCTAAACCCTTAATTTAAAAA-CCT-AGC
1 TTAATTAAAAACCCTAAAC-CCTTAAACTTAAAAACCC-AAACCCTTAACTTAAAAACCCTAAAC
*
9910 --CT
64 TAAT
* * * * * *
9912 TAAATT-AAAACACTAAACCCTTAAAATTAAAAACCTTAAACCATTAACTTAAAAACCCTAACCC
1 TTAATTAAAAACCCTAAACCCTTAAACTTAAAAACC-CAAACCCTTAACTTAAAAACCCTAA-AC
9976 TTAA-
64 -TAAT
* * * * *
9980 --AATTAAAAACCCT--ACGCCTTTAACTTAAAAACCCTAACCCGTAAATTAAAAACCTTAAACT
1 TTAATTAAAAACCCTAAAC-CCTTAAACTTAAAAACCCAAACCCTTAACTTAAAAACCCTAAACT
*
10041 -CT
65 AAT
* * ** **
10043 TAAAATTAAAAACTCTAAACCCTT-AACTTAAAAATCTTAAACTAATTTAA-TTAAAAACCCTAA
1 T-TAATTAAAAACCCTAAACCCTTAAACTTAAAAA-CCCAAAC--CCTTAACTTAAAAACCCTAA
**
10106 AC-CCT
62 ACTAAT
* * * * *
10111 TAAAAATAAAAACTCTAAACCC-TAAACCCT--AAACCCTAACCCTTAACTTAAAAACCCTAAAC
1 T-TAATTAAAAACCCTAAACCCTTAAA-CTTAAAAACCCAAACCCTTAACTTAAAAACCCTAAAC
10173 TAAT
64 TAAT
* ** * * *
10177 TTAATTAAAAACCTTAAACCCACAAA--AAAACCCTAACCCTAACCCTTAACAT-AAAACCCTAA
1 TTAATTAAAAACCCTAAACCCTTAAACTTAAA----AACCCAAACCCTTAACTTAAAAACCCTAA
10239 A-TAAT
62 ACTAAT
** *
10244 TTAATTAAAAACCCT-AACCCTT-AACTTAAAAACCCTAAACTAATT-TCATTAAAAACCCTAAA
1 TTAATTAAAAACCCTAAACCCTTAAACTTAAAAACCC-AAAC-CCTTAAC-TTAAAAACCCTAAA
**
10306 -T-CC
63 CTAAT
* ** * * * *
10309 TCAACTTAAAAACCCTAAACTAATT-TACTTAAAAACCCTAAATCCTTAAATTAAAAACCCTAAT
1 TTAA-TTAAAAACCCTAAAC-CCTTAAACTTAAAAACCC-AAACCCTTAACTTAAAAACCCTAAA
10373 CTAAT
63 CTAAT
* *
10378 TTACTTAAAAACCATAAACCCTTAAA-TTAAAAACCCTAAACCCTAACCCTTAACTTAAAAACCC
1 TTAATTAAAAACCCTAAACCCTTAAACTTAAAAACCC---A----AACCCTTAACTTAAAAACCC
*
10442 GAAACTAAT
59 TAAACTAAT
* * * * * * *
10451 TTAATTAAAAATCGTAGACTCTT-AACTT-AAAACCCTAAACGCTTAACTTAAAAACCATAACCC
1 TTAATTAAAAACCCTAAACCCTTAAACTTAAAAACCC-AAACCCTTAACTTAAAAACCCTAA-AC
*
10514 TCA-
64 TAAT
* * *
10517 --AATTAAAAACCCTAAACCCTTAAAATTAAAAACCCTAAACCCTTAAAATTAAAAACCCTAAGC
1 TTAATTAAAAACCCTAAACCCTTAAACTTAAAAACCC-AAACCCTT-AACTTAAAAACCCTAAAC
**
10580 --CC
64 TAAT
** *
10582 TTAACTTAAAAACCCTAAACTAATTTAA-TTAAAAACCCTAAACCCTTAAACTTAAAAACCCTAA
1 TTAA-TTAAAAACCCTAAAC-CCTTAAACTTAAAAACCC-AAACCCTT-AACTTAAAAACCCTAA
* *
10646 CCT--C
62 ACTAAT
** * *
10650 TTAACTTAAAAACCCTAAACTAATTTAA-TTAAAAACCCTAAACCCTTAAATTTAAAAACCCT-A
1 TTAA-TTAAAAACCCTAAAC-CCTTAAACTTAAAAACCC-AAACCCTT-AACTTAAAAACCCTAA
10713 ACTAAT
62 ACTAAT
* * * * *
10719 TTAATTAAAAACCGTAGACTCTT-AACTT-AAAACCCTAAACGCTTAACTTAAAAACCAT-AAC-
1 TTAATTAAAAACCCTAAACCCTTAAACTTAAAAACCC-AAACCCTTAACTTAAAAACCCTAAACT
**
10780 CCT
65 AAT
* * * *
10783 TAAATTAAAAACCCTAAACCCTTAAAATTAAAAACCCTAAACCCTTAAAATTAAAAACCCTAAGC
1 TTAATTAAAAACCCTAAACCCTTAAACTTAAAAACCC-AAACCCTT-AACTTAAAAACCCTAAAC
**
10848 --CC
64 TAAT
** *
10850 TTAACTTAAAAACCCTAAACTAATTTAA-TTAAAAACCCAAAACCCTTAAACTTAAAAACCCTAA
1 TTAA-TTAAAAACCCTAAAC-CCTTAAACTTAAAAACCC-AAACCCTT-AACTTAAAAACCCTAA
* *
10914 CCT--C
62 ACTAAT
** * * *
10918 TTAACTTAAAAACCCTAAACTAATTTAA-TTAAAAACCCTAAACCCTTAAATTTAAAAACACT-A
1 TTAA-TTAAAAACCCTAAAC-CCTTAAACTTAAAAACCC-AAACCCTT-AACTTAAAAACCCTAA
**
10981 AC-CCT
62 ACTAAT
10986 TTAACTTAAAAACCCTAAA--C-TAAA-TTAATTAAAACCCTAAACCCTTAAACTTAAAAACCCT
1 TTAA-TTAAAAACCCTAAACCCTTAAACTT-A--AAAACCC-AAACCCTT-AACTTAAAAACCCT
11047 -AACTAAT
60 AAACTAAT
* * * * *
11054 TTAATTAAAAACCGTAGACTCTT-AACTT-AAAACCCTAAACGCTTAACTTAAAAACCAT-AAC-
1 TTAATTAAAAACCCTAAACCCTTAAACTTAAAAACCC-AAACCCTTAACTTAAAAACCCTAAACT
**
11115 CCT
65 AAT
* * * *
11118 TAAATTAAAAACCCTAAACCCTTAAAATTAAAAACCCTAAACCCTTAAAATTAAAAACCCTAAGC
1 TTAATTAAAAACCCTAAACCCTTAAACTTAAAAACCC-AAACCCTT-AACTTAAAAACCCTAAAC
**
11183 --CC
64 TAAT
** * ** *
11185 TTAACTTAAAAACCCTAAACTAATTTAA-TTAAAAACCCTAAACTAATTTAA-TTTAAAACCCTA
1 TTAA-TTAAAAACCCTAAAC-CCTTAAACTTAAAAACCC-AAAC--CCTTAACTTAAAAACCCTA
**
11248 AAC--CC
61 AACTAAT
* * * *
11253 TTAATTTAAAAA-CCT--AGCCTTAAA-TT-AAAACACTAAACCCTTAAAATTAAATAA---AAA
1 TTAA-TTAAAAACCCTAAACCCTTAAACTTAAAAAC-CCAAACCCTT-AACTTAAA-AACCCTAA
*
11310 CACTACCCT
62 -ACTA--AT
* * *
11319 TTAACTTAAAAACCCTAAA--CTAAATTAATTAAAAACCCTAAACTCTTAAACTTAAAAACCCT-
1 TTAA-TTAAAAACCCTAAACCCTTAA--ACTTAAAAACCC-AAACCCTT-AACTTAAAAACCCTA
11381 AACTAAT
61 AACTAAT
* * *
11388 TTAATTAAAAACCCTAAACCCTT-AACTTAAAAACCCTAACCCTCAACTTAAAAA-CCTTAAC--
1 TTAATTAAAAACCCTAAACCCTTAAACTTAAAAACCCAAACCCTTAACTTAAAAACCCTAAACTA
**
11449 CC
66 AT
* *
11451 TTAACTTAAAAACCCTTAACCCTT-AACTTTAAAAC
1 TTAA-TTAAAAACCCTAAACCCTTAAACTTAAAAAC
11486 TTTAAACTAG
Statistics
Matches: 1439, Mismatches: 216, Indels: 253
0.75 0.11 0.13
Matches are distributed among these distances:
61 4 0.00
62 8 0.01
63 58 0.04
64 120 0.08
65 120 0.08
66 196 0.14
67 255 0.18
68 463 0.32
69 60 0.04
70 14 0.01
71 25 0.02
72 10 0.01
73 51 0.04
74 53 0.04
75 2 0.00
ACGTcount: A:0.48, C:0.25, G:0.01, T:0.26
Consensus pattern (67 bp):
TTAATTAAAAACCCTAAACCCTTAAACTTAAAAACCCAAACCCTTAACTTAAAAACCCTAAACTA
AT
Found at i:10172 original size:7 final size:7
Alignment explanation
Indices: 10120--10153 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
10110 TTAAAAATAA
*
10120 AAACTCT
1 AAACCCT
10127 AAACCCT
1 AAACCCT
10134 AAACCCT
1 AAACCCT
10141 AAACCCT
1 AAACCCT
10148 -AACCCT
1 AAACCCT
10154 TAACTTAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
6 6 0.23
7 20 0.77
ACGTcount: A:0.41, C:0.41, G:0.00, T:0.18
Consensus pattern (7 bp):
AAACCCT
Found at i:11327 original size:25 final size:26
Alignment explanation
Indices: 11271--11328 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 26
11261 AAAACCTAGC
*
11271 CTTAAATTAAAACACTAAACCCTTAAA
1 CTTAAATAAAAACACT-AACCCTTAAA
* *
11298 ATTAAATAAAAACACT-ACCCTTTAA
1 CTTAAATAAAAACACTAACCCTTAAA
11323 CTTAAA
1 CTTAAA
11329 AACCCTAAAC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 13 0.48
27 14 0.52
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (26 bp):
CTTAAATAAAAACACTAACCCTTAAA
Found at i:13315 original size:125 final size:125
Alignment explanation
Indices: 13093--13466 Score: 595
Period size: 125 Copynumber: 3.0 Consensus size: 125
13083 AACATGCTAT
* * * * * * *
13093 TGTAGCAAAAGTGCGTCCACAAGGGCGCGCTTTCACAAATTATTCTCAAATAGCATCCTGCTAGA
1 TGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAACAACATACTGCTAGA
*
13158 AGCGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCATGACCTAC
66 AGCGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGACCTAC
* *
13218 TGTAGTAAAAGCGCGTCTACGAGGGCGCGATTTCACAAATTCTTCTCAAACAACATACTGCTAGA
1 TGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAACAACATACTGCTAGA
*
13283 AGCAATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGACCTAC
66 AGCGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGACCTAC
* * * *
13343 TGTAGCAGAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTATCAAACAACATTCTACTAGA
1 TGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAACAACATACTGCTAGA
* *
13408 AGTGATTTTATACTATTTGATCAGAAACGTCAACTCGAAATTATTTCTTCCAGGACCTA
66 AGCGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGACCTA
13467 AAAACCCTAA
Statistics
Matches: 229, Mismatches: 20, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
125 229 1.00
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.29
Consensus pattern (125 bp):
TGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAACAACATACTGCTAGA
AGCGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGACCTAC
Found at i:21372 original size:68 final size:68
Alignment explanation
Indices: 21300--21507 Score: 192
Period size: 69 Copynumber: 3.0 Consensus size: 68
21290 GATCTTAAAT
* *
21300 TGCAAACCTTTATGACATCAGTTGGGAGCGTAGGTCCACTAGCTGTGTTGGAGCTGCGAACTTAA
1 TGCAAACCTTTATGACATCAGTTGGGAGAGTAGGTCCGCTAGCTGTGTTGGAGCTGCGAACTTAA
21365 CTC
66 CTC
* * * * * * * * *
21368 TGC-AAGCTCTTATAATATTAGTTGGGAGAGTAGGTCCGTTAGCTACT-TTGGAGGTTGTGATCT
1 TGCAAACCT-TTATGACATCAGTTGGGAGAGTAGGTCCGCTAGCT-GTGTTGGA-GCTGCGAACT
*
21431 TAAATC
63 TAACTC
* * *
21437 -G-ATATACCTTTATGACATCAGTTGAGAGAGTAGGTCCGCTAGCTGTGTTAGAGCTAC-AAGCT
1 TGCA-A-ACCTTTATGACATCAGTTGGGAGAGTAGGTCCGCTAGCTGTGTTGGAGCTGCGAA-CT
21499 TAACTC
63 TAACTC
21505 TGC
1 TGC
21508 CAGCTTTTAG
Statistics
Matches: 105, Mismatches: 25, Indels: 18
0.71 0.17 0.12
Matches are distributed among these distances:
67 5 0.05
68 48 0.46
69 49 0.47
70 3 0.03
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.31
Consensus pattern (68 bp):
TGCAAACCTTTATGACATCAGTTGGGAGAGTAGGTCCGCTAGCTGTGTTGGAGCTGCGAACTTAA
CTC
Found at i:21501 original size:137 final size:136
Alignment explanation
Indices: 21277--21585 Score: 374
Period size: 137 Copynumber: 2.3 Consensus size: 136
21267 TTGCTAGTTG
* * * *
21277 CTTTGGAGGTTGGGATCTTAAATTGCAAACCTTTATGACATCAGTTGGGAGCGTAGGTCCACTAG
1 CTTTGGAGGTTGCGATCTTAAATCGCAAACCTTTATGACATCAGTTGAGAGAGTAGGTCCACTAG
* * * * * * *
21342 CTGTGTTGGAGCTGCGAACTTAACTCTGCAAGCTCTTATAATATTAGTTGGGAG-AGTAGGTCCG
66 CTGTGTTAGAGCTACGAACTTAACTCTGCAAGCTCTTAGAATATCAGCTAGGAGCA-TAGGTCCA
*
21406 TTAGCTA
130 CTAGCTA
* *
21413 CTTTGGAGGTTGTGATCTTAAATCG-ATATACCTTTATGACATCAGTTGAGAGAGTAGGTCCGCT
1 CTTTGGAGGTTGCGATCTTAAATCGCA-A-ACCTTTATGACATCAGTTGAGAGAGTAGGTCCACT
* * *
21477 AGCTGTGTTAGAGCTAC-AAGCTTAACTCTGCCAGCTTTTAGAATGTCAGCTAGGAGCATAGGTC
64 AGCTGTGTTAGAGCTACGAA-CTTAACTCTGCAAGCTCTTAGAATATCAGCTAGGAGCATAGGTC
*
21541 CACTAGCTG
128 CACTAGCTA
21550 CTTTGGAGGTTGCGATCTTAAA-CAGACAAACCTTTA
1 CTTTGGAGGTTGCGATCTTAAATC-G-CAAACCTTTA
21586 GACTATACCA
Statistics
Matches: 148, Mismatches: 18, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
135 1 0.01
136 27 0.18
137 117 0.79
138 2 0.01
139 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (136 bp):
CTTTGGAGGTTGCGATCTTAAATCGCAAACCTTTATGACATCAGTTGAGAGAGTAGGTCCACTAG
CTGTGTTAGAGCTACGAACTTAACTCTGCAAGCTCTTAGAATATCAGCTAGGAGCATAGGTCCAC
TAGCTA
Found at i:40792 original size:36 final size:36
Alignment explanation
Indices: 40752--40830 Score: 104
Period size: 36 Copynumber: 2.2 Consensus size: 36
40742 GGCAGTGGTC
40752 TTGGGCCAGCTGTTGGGCGTGATTATGGGCACAATT
1 TTGGGCCAGCTGTTGGGCGTGATTATGGGCACAATT
* * * * * *
40788 TTGGGCCATCTTTTGTGCGTGGTTTTGGGCGCAATT
1 TTGGGCCAGCTGTTGGGCGTGATTATGGGCACAATT
40824 TTGGGCC
1 TTGGGCC
40831 GTATGTTGGC
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.11, C:0.18, G:0.35, T:0.35
Consensus pattern (36 bp):
TTGGGCCAGCTGTTGGGCGTGATTATGGGCACAATT
Found at i:52010 original size:16 final size:16
Alignment explanation
Indices: 51989--52023 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
51979 TGCTACTTGT
51989 TTTCATT-TTATTTTTA
1 TTTCATTGTTA-TTTTA
52005 TTTCATTGTTATTTTA
1 TTTCATTGTTATTTTA
52021 TTT
1 TTT
52024 ACTCATTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 15 0.83
17 3 0.17
ACGTcount: A:0.17, C:0.06, G:0.03, T:0.74
Consensus pattern (16 bp):
TTTCATTGTTATTTTA
Found at i:59000 original size:28 final size:28
Alignment explanation
Indices: 58960--59031 Score: 126
Period size: 28 Copynumber: 2.6 Consensus size: 28
58950 GGTTTTATTG
58960 TAAATAAATCAACTTTCTTAGTTAATTT
1 TAAATAAATCAACTTTCTTAGTTAATTT
58988 TAAATAAATCAACTTTCTTAGTTAATTT
1 TAAATAAATCAACTTTCTTAGTTAATTT
* *
59016 TAAATTAATCATCTTT
1 TAAATAAATCAACTTT
59032 AAGCTTAATT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.39, C:0.11, G:0.03, T:0.47
Consensus pattern (28 bp):
TAAATAAATCAACTTTCTTAGTTAATTT
Found at i:70315 original size:44 final size:44
Alignment explanation
Indices: 70127--70339 Score: 175
Period size: 45 Copynumber: 4.8 Consensus size: 44
70117 AAAGTAGTGT
* * * * * * *
70127 CATAGTATCTTTCAACTATGGTCTTGATCGTTACTGATGTGATGT
1 CATAGTATCTTTCAACTATGGTCTTTATCATTTC-GGTTTAATGC
* * * *
70172 CATAGTATCTTTCAACTATGGTC-TTATTCGTATTAGATTTAATGT
1 CATAGTATCTTTCAACTATGGTCTTTA-TCAT-TTCGGTTTAATGC
* * * *
70217 CATAATATCTTTCAACTATGG-CCTTACACATTTTCGGTTTAGTGC
1 CATAGTATCTTTCAACTATGGTCTTTA-TCA-TTTCGGTTTAATGC
*
70262 CATAGTATCTTTCAACTATGGTCTTTATCATTTCGGGTTAATGC
1 CATAGTATCTTTCAACTATGGTCTTTATCATTTCGGTTTAATGC
70306 CAT-GATATCTTTCAA-TCATGGTCTTTCA-CATTTC
1 CATAG-TATCTTTCAACT-ATGGTCTTT-ATCATTTC
70340 TCAATCCAAT
Statistics
Matches: 142, Mismatches: 18, Indels: 17
0.80 0.10 0.10
Matches are distributed among these distances:
43 2 0.01
44 43 0.30
45 91 0.64
46 6 0.04
ACGTcount: A:0.24, C:0.18, G:0.15, T:0.43
Consensus pattern (44 bp):
CATAGTATCTTTCAACTATGGTCTTTATCATTTCGGTTTAATGC
Found at i:70421 original size:12 final size:12
Alignment explanation
Indices: 70404--70435 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
70394 AACATCAATT
70404 AATTAACTATTA
1 AATTAACTATTA
70416 AATTAACTATTA
1 AATTAACTATTA
70428 AATTAACT
1 AATTAACT
70436 TACAAACTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.50, C:0.09, G:0.00, T:0.41
Consensus pattern (12 bp):
AATTAACTATTA
Found at i:78762 original size:12 final size:13
Alignment explanation
Indices: 78745--78775 Score: 55
Period size: 12 Copynumber: 2.5 Consensus size: 13
78735 AGAAAATTAT
78745 TTAATTGAGA-AA
1 TTAATTGAGATAA
78757 TTAATTGAGATAA
1 TTAATTGAGATAA
78770 TTAATT
1 TTAATT
78776 TAATTTAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 10 0.56
13 8 0.44
ACGTcount: A:0.45, C:0.00, G:0.13, T:0.42
Consensus pattern (13 bp):
TTAATTGAGATAA
Found at i:82840 original size:4 final size:4
Alignment explanation
Indices: 82831--82863 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
82821 ACATAGTAAG
82831 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT A
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT A
82864 ATATTTAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (4 bp):
ATTT
Found at i:84142 original size:41 final size:41
Alignment explanation
Indices: 84093--84279 Score: 266
Period size: 41 Copynumber: 4.6 Consensus size: 41
84083 ATCGGCATAA
* *
84093 AGCCTGCTAGACACAAAGCCCGATACATTTCACCGGCACAG
1 AGCCTGCTAGGCATAAAGCCCGATACATTTCACCGGCACAG
* * * *
84134 AGCCTGCTAGGCATAAATCCTGATACATTTCACCAGTACAG
1 AGCCTGCTAGGCATAAAGCCCGATACATTTCACCGGCACAG
* * *
84175 AACCTGCTAGGCATAAAGCCCAATACATTTCACCGACACAG
1 AGCCTGCTAGGCATAAAGCCCGATACATTTCACCGGCACAG
* * *
84216 AGCTTGCTAGGCATAAAGCCCAATACATTTCATCGGCACAG
1 AGCCTGCTAGGCATAAAGCCCGATACATTTCACCGGCACAG
84257 AGCCTGCTAGGCATAAAGCCCGA
1 AGCCTGCTAGGCATAAAGCCCGA
84280 ACTTACAAAA
Statistics
Matches: 127, Mismatches: 19, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 127 1.00
ACGTcount: A:0.33, C:0.30, G:0.19, T:0.19
Consensus pattern (41 bp):
AGCCTGCTAGGCATAAAGCCCGATACATTTCACCGGCACAG
Found at i:84463 original size:47 final size:47
Alignment explanation
Indices: 84403--84504 Score: 134
Period size: 47 Copynumber: 2.2 Consensus size: 47
84393 CAATGCATAC
* * * *
84403 AACAAATATATATACATTCGGCCATAGTTTAATTCATTTCTC-TGTAT
1 AACAAATACATATACATTCAGCCATAGATTAATTCATTT-TCATGCAT
* *
84450 AACAATTACATATACATTCAGCTATAGATTAATTCATTTTCATGCAT
1 AACAAATACATATACATTCAGCCATAGATTAATTCATTTTCATGCAT
84497 AACAAATA
1 AACAAATA
84505 TATTTATATA
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
46 2 0.04
47 45 0.96
ACGTcount: A:0.39, C:0.17, G:0.07, T:0.37
Consensus pattern (47 bp):
AACAAATACATATACATTCAGCCATAGATTAATTCATTTTCATGCAT
Found at i:94431 original size:18 final size:18
Alignment explanation
Indices: 94408--94445 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
94398 AGTAGGACCA
*
94408 GGACTACTATCACCAGTG
1 GGACTACTATCACCAATG
94426 GGACTACTATCACCAATG
1 GGACTACTATCACCAATG
94444 GG
1 GG
94446 TAAGGAGACA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.29, C:0.26, G:0.24, T:0.21
Consensus pattern (18 bp):
GGACTACTATCACCAATG
Found at i:97010 original size:40 final size:40
Alignment explanation
Indices: 96961--97100 Score: 133
Period size: 40 Copynumber: 3.5 Consensus size: 40
96951 AACACACCAG
* *
96961 TTTGGCACCCAGTGCCTCATCGGATAATTTGAAGTAATAA
1 TTTGACACCCAGTGCCTCATCGGATAATCTGAAGTAATAA
* * * * * *
97001 TTTGACACCCAATGTCTCATTGGTTAAACCGAAGT-A-AA
1 TTTGACACCCAGTGCCTCATCGGATAATCTGAAGTAATAA
* * *
97039 -TTGGCACCCAGTGCCTCATCGAATTAATCTGAAGTAGTAA
1 TTTGACACCCAGTGCCTCATCGGA-TAATCTGAAGTAATAA
* *
97079 ATTGACACCCAGTGTCTCATCG
1 TTTGACACCCAGTGCCTCATCG
97101 ACTCGAAGTC
Statistics
Matches: 77, Mismatches: 19, Indels: 7
0.75 0.18 0.07
Matches are distributed among these distances:
37 17 0.22
38 11 0.14
39 1 0.01
40 29 0.38
41 19 0.25
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.29
Consensus pattern (40 bp):
TTTGACACCCAGTGCCTCATCGGATAATCTGAAGTAATAA
Found at i:97088 original size:41 final size:41
Alignment explanation
Indices: 96966--97101 Score: 129
Period size: 41 Copynumber: 3.4 Consensus size: 41
96956 ACCAGTTTGG
* * * *
96966 CACCCAGTGCCTCATCGGA-TAATTTGAAGTAATAATTTGA
1 CACCCAGTGCCTCATCGAATTAATCTGAAGTAGTAAATTGA
* * * * * * *
97006 CACCCAATGTCTCATTG-GTTAAACCG-A--AGTAAATTGG
1 CACCCAGTGCCTCATCGAATTAATCTGAAGTAGTAAATTGA
97043 CACCCAGTGCCTCATCGAATTAATCTGAAGTAGTAAATTGA
1 CACCCAGTGCCTCATCGAATTAATCTGAAGTAGTAAATTGA
*
97084 CACCCAGTGTCTCATCGA
1 CACCCAGTGCCTCATCGA
97102 CTCGAAGTCG
Statistics
Matches: 73, Mismatches: 18, Indels: 9
0.73 0.18 0.09
Matches are distributed among these distances:
37 21 0.29
38 6 0.08
39 2 0.03
40 18 0.25
41 26 0.36
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.27
Consensus pattern (41 bp):
CACCCAGTGCCTCATCGAATTAATCTGAAGTAGTAAATTGA
Found at i:98065 original size:20 final size:20
Alignment explanation
Indices: 98034--98090 Score: 64
Period size: 20 Copynumber: 2.8 Consensus size: 20
98024 TCATTATAAT
98034 ATAATATAATATATATACTTA
1 ATAAT-TAATATATATACTTA
*
98055 ATAATTAATATATAATATTTA
1 ATAATTAATATAT-ATACTTA
98076 AT-ATTACA-ATATATA
1 ATAATTA-ATATATATA
98091 TTTTAACTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
19 3 0.09
20 16 0.48
21 14 0.42
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.44
Consensus pattern (20 bp):
ATAATTAATATATATACTTA
Found at i:106755 original size:19 final size:18
Alignment explanation
Indices: 106722--106758 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
106712 TTATTATTAC
*
106722 AATTTTACTTTAATAATA
1 AATTTTACATTAATAATA
106740 AATTTTAACATTAATAATA
1 AATTTT-ACATTAATAATA
106759 TTTTTAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (18 bp):
AATTTTACATTAATAATA
Found at i:106779 original size:20 final size:20
Alignment explanation
Indices: 106750--106792 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
106740 AATTTTAACA
*
106750 TTAATAATATTTTTAA-ATT
1 TTAATAATATTCTTAATATT
106769 TTAAGTAATATTCTTAATATT
1 TTAA-TAATATTCTTAATATT
106790 TTA
1 TTA
106793 CTAGAAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 4 0.19
20 11 0.52
21 6 0.29
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (20 bp):
TTAATAATATTCTTAATATT
Found at i:106911 original size:24 final size:26
Alignment explanation
Indices: 106869--106917 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 26
106859 AATTGTTCAT
106869 AATATAAATTATGAATATTT-TTTAG
1 AATATAAATTATGAATATTTGTTTAG
**
106894 AATATAAA-TATGGTTATTTGTTTA
1 AATATAAATTATGAATATTTGTTTA
106918 TATCCTACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 9 0.43
25 12 0.57
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (26 bp):
AATATAAATTATGAATATTTGTTTAG
Found at i:111112 original size:162 final size:162
Alignment explanation
Indices: 110845--111168 Score: 585
Period size: 162 Copynumber: 2.0 Consensus size: 162
110835 AAATTTTTTG
* * *
110845 AGTGGCTAACTTTTGATTTATTGCTTCAAAGTTCAGCTTGTTTAGCTTTGCCTTTATACATTATG
1 AGTGGCTAACTTTTGATTTATCGCTTCAAAGCTCAGCTTGTTTAGCTCTGCCTTTATACATTATG
**
110910 TAGTGGAATGTATAACTTGTCCTTTATTACGAATGTAGTTGTCATGTTGAGTTGACAGATGAGTG
66 TAGTGGAATGTATAACTCATCCTTTATTACGAATGTAGTTGTCATGTTGAGTTGACAGATGAGTG
*
110975 ATGTTAGATTGGTCTTGTTGATTTTCAGGATT
131 ATGCTAGATTGGTCTTGTTGATTTTCAGGATT
111007 AGTGGCTAACTTTTGATTTATCGCTTCAAAGCTCAGCTTGTTTAGCTCTGCCTTTATACATTATG
1 AGTGGCTAACTTTTGATTTATCGCTTCAAAGCTCAGCTTGTTTAGCTCTGCCTTTATACATTATG
*
111072 TAGTGGAATGTATAACTCATCCTTTATTATGAATGTAGTTGTCATGTTGAGTTGACAGATGAGTG
66 TAGTGGAATGTATAACTCATCCTTTATTACGAATGTAGTTGTCATGTTGAGTTGACAGATGAGTG
111137 ATGCTAGATTGGTCTTGTTGATTTTCAGGATT
131 ATGCTAGATTGGTCTTGTTGATTTTCAGGATT
111169 CTAAATGCCT
Statistics
Matches: 155, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
162 155 1.00
ACGTcount: A:0.23, C:0.12, G:0.22, T:0.43
Consensus pattern (162 bp):
AGTGGCTAACTTTTGATTTATCGCTTCAAAGCTCAGCTTGTTTAGCTCTGCCTTTATACATTATG
TAGTGGAATGTATAACTCATCCTTTATTACGAATGTAGTTGTCATGTTGAGTTGACAGATGAGTG
ATGCTAGATTGGTCTTGTTGATTTTCAGGATT
Found at i:114784 original size:17 final size:18
Alignment explanation
Indices: 114758--114791 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
114748 TACAATAATC
*
114758 TTTTCTTTCTTG-AAGTG
1 TTTTCGTTCTTGCAAGTG
114775 TTTTCGTTCTTGCAAGT
1 TTTTCGTTCTTGCAAGT
114792 ATAATCTTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.12, C:0.15, G:0.18, T:0.56
Consensus pattern (18 bp):
TTTTCGTTCTTGCAAGTG
Found at i:124866 original size:22 final size:22
Alignment explanation
Indices: 124827--124868 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
124817 CCTGGAGTTC
*
124827 ACAGAGAATGTCAGTACTAGGG
1 ACAGAGAATGTCAATACTAGGG
124849 ACAGAGAATG-CTAATACTAG
1 ACAGAGAATGTC-AATACTAG
124869 AGGCAGCGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 1 0.06
22 17 0.94
ACGTcount: A:0.40, C:0.14, G:0.26, T:0.19
Consensus pattern (22 bp):
ACAGAGAATGTCAATACTAGGG
Found at i:129538 original size:69 final size:69
Alignment explanation
Indices: 129347--129740 Score: 389
Period size: 69 Copynumber: 5.7 Consensus size: 69
129337 TTCAACTTTT
* * * * * * * * * *
129347 ACTAACTATGTTGGAGGATGCAGTATTTATCCTACAAGCCTTAGTATGACAGGTAGGAGATTTGC
1 ACTAACTGTGTTAGAGGCTGTAGTTTTTATCCTACGAGCCTTAATATGACAGTTGGGAGCTTTGC
*
129412 TCTT
66 TCTC
* * * ** * * * *
129416 GCTAACTATGTTGGAGGC-GGCGATCTTGTCCT-CTGAGCCTTAGTATGACAGTTGGGAGCTTTG
1 ACTAACTGTGTTAGAGGCTGTAGTTTTTATCCTAC-GAGCCTTAATATGACAGTTGGGAGCTTTG
129479 CTCTC
65 CTCTC
* * * *
129484 ATTAATTGTGTTAGAAGCTGTAGTTTTTATCCTACGAGCCTTAATATGATAGTTGGGAGCTTTGC
1 ACTAACTGTGTTAGAGGCTGTAGTTTTTATCCTACGAGCCTTAATATGACAGTTGGGAGCTTTGC
129549 TCTC
66 TCTC
* * * * *
129553 GCTAACTATGTTAGAGGCTGTGGTTTTTATCCTACGAGCCTTAAGATGACAGTTGGGAGCTTTAC
1 ACTAACTGTGTTAGAGGCTGTAGTTTTTATCCTACGAGCCTTAATATGACAGTTGGGAGCTTTGC
* *
129618 TTTT
66 TCTC
* *
129622 GCTAACTGTGTTAGAGGCTGCAGTTTTTTATCCTACGAGCCTTAATATGACAGTTGGGAGCTTTG
1 ACTAACTGTGTTAGAGGCTGTAG-TTTTTATCCTACGAGCCTTAATATGACAGTTGGGAGCTTTG
129687 CTCTC
65 CTCTC
* * ** * *
129692 ACTAACTGTGTTGGAGGTTACAATTTTTATCCTGA-GAGCCTTAAGATGA
1 ACTAACTGTGTTAGAGGCTGTAGTTTTTATCCT-ACGAGCCTTAATATGA
129741 TATAAATGTT
Statistics
Matches: 270, Mismatches: 50, Indels: 10
0.82 0.15 0.03
Matches are distributed among these distances:
67 1 0.00
68 49 0.18
69 158 0.59
70 62 0.23
ACGTcount: A:0.23, C:0.17, G:0.24, T:0.36
Consensus pattern (69 bp):
ACTAACTGTGTTAGAGGCTGTAGTTTTTATCCTACGAGCCTTAATATGACAGTTGGGAGCTTTGC
TCTC
Found at i:129688 original size:139 final size:137
Alignment explanation
Indices: 129341--129740 Score: 448
Period size: 139 Copynumber: 2.9 Consensus size: 137
129331 GGAGTTTTCA
* * * * * * * *
129341 ACTTTTACTAACTATGTTGGAGGATGCAGTATTTATCCTACAAGCCTTAGTATGACAGGTAGGAG
1 ACTTTTACTAACTGTGTTAGAGGCTGCAGTTTTTATCCTACGAGCCTTAATATGACAGTTGGGAG
* * * * *
129406 ATTTGCTCTTGCTAACTATGTTGGAGGC-GGCGATCTTGTCCT-CTGAGCCTT-AGTATGACAGT
66 CTTTGCTCTCGCTAACTATGTTGGAGGCTGG-GTTTTTATCCTAC-GAGCCTTAAG-ATGACAGT
129468 TGGGAGCTTT
128 TGGGAGCTTT
* * * * * * * *
129478 GCTCTCATTAATTGTGTTAGAAGCTGTAGTTTTTATCCTACGAGCCTTAATATGATAGTTGGGAG
1 ACTTTTACTAACTGTGTTAGAGGCTGCAGTTTTTATCCTACGAGCCTTAATATGACAGTTGGGAG
*
129543 CTTTGCTCTCGCTAACTATGTTAGAGGCTGTGGTTTTTATCCTACGAGCCTTAAGATGACAGTTG
66 CTTTGCTCTCGCTAACTATGTTGGAGGCTG-GGTTTTTATCCTACGAGCCTTAAGATGACAGTTG
129608 GGAGCTTT
130 GGAGCTTT
*
129616 ACTTTTGCTAACTGTGTTAGAGGCTGCAGTTTTTTATCCTACGAGCCTTAATATGACAGTTGGGA
1 ACTTTTACTAACTGTGTTAGAGGCTGCAG-TTTTTATCCTACGAGCCTTAATATGACAGTTGGGA
* * * ***
129681 GCTTTGCTCTCACTAACTGTGTTGGAGGTTACAATTTTTATCCTGA-GAGCCTTAAGATGA
65 GCTTTGCTCTCGCTAACTATGTTGGAGGCT-GGGTTTTTATCCT-ACGAGCCTTAAGATGA
129741 TATAAATGTT
Statistics
Matches: 218, Mismatches: 38, Indels: 12
0.81 0.14 0.04
Matches are distributed among these distances:
137 74 0.34
138 55 0.25
139 88 0.40
140 1 0.00
ACGTcount: A:0.23, C:0.17, G:0.24, T:0.36
Consensus pattern (137 bp):
ACTTTTACTAACTGTGTTAGAGGCTGCAGTTTTTATCCTACGAGCCTTAATATGACAGTTGGGAG
CTTTGCTCTCGCTAACTATGTTGGAGGCTGGGTTTTTATCCTACGAGCCTTAAGATGACAGTTGG
GAGCTTT
Found at i:136531 original size:24 final size:24
Alignment explanation
Indices: 136491--136536 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
136481 AAATCATATT
*
136491 TTTTAAAAATATTTTTTATTTTTA
1 TTTTAAAAATATATTTTATTTTTA
136515 TTTTAGAAAATA-ATTTTATTTT
1 TTTTA-AAAATATATTTTATTTT
136537 CTTTGAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (24 bp):
TTTTAAAAATATATTTTATTTTTA
Found at i:139148 original size:19 final size:19
Alignment explanation
Indices: 139106--139144 Score: 71
Period size: 18 Copynumber: 2.1 Consensus size: 19
139096 ACATTCTATT
139106 AATTTGACTCTAAATATAA
1 AATTTGACTCTAAATATAA
139125 AATTTGAC-CTAAATATAA
1 AATTTGACTCTAAATATAA
139143 AA
1 AA
139145 ATTTAACAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.51, C:0.10, G:0.05, T:0.33
Consensus pattern (19 bp):
AATTTGACTCTAAATATAA
Found at i:150338 original size:22 final size:22
Alignment explanation
Indices: 150291--150332 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
150281 ACCAATTTGG
*
150291 TAATAGGCAAAAAGTTTATAAA
1 TAATAGGCAAAAAGTTTAGAAA
150313 TAATAGGCAAAAAG-TTAGAA
1 TAATAGGCAAAAAGTTTAGAA
150333 CTTAATTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.55, C:0.05, G:0.17, T:0.24
Consensus pattern (22 bp):
TAATAGGCAAAAAGTTTAGAAA
Found at i:150558 original size:56 final size:55
Alignment explanation
Indices: 150451--150638 Score: 209
Period size: 56 Copynumber: 3.3 Consensus size: 55
150441 ATAAAAATGG
* * * *
150451 TGAAAATGTAGAAATGAGAAACATTTGGAAATGATTATGGATTTCTGCAAAATAAAAA
1 TGAAAATG-AGAAATGA-AATCATTTGGAAATGA-TATGGTTTTCTCCAAAATGAAAA
*
150509 TGAAAATAGAGAAATGAAATCATTTGAAAATGATATGGTTTTCTCCAAAATGAAAA
1 TGAAAAT-GAGAAATGAAATCATTTGGAAATGATATGGTTTTCTCCAAAATGAAAA
* * * * *
150565 TGAAAATGGAGAAATGGAATCATTCGGAAATGA-ACTTGGTTTTCTCTAAAACGGAAA
1 TGAAAAT-GAGAAATGAAATCATTTGGAAATGATA--TGGTTTTCTCCAAAATGAAAA
150622 TGAAAATGA-AAATGAAA
1 TGAAAATGAGAAATGAAA
150639 AATGAAACTG
Statistics
Matches: 114, Mismatches: 13, Indels: 9
0.84 0.10 0.07
Matches are distributed among these distances:
55 8 0.07
56 51 0.45
57 39 0.34
58 15 0.13
59 1 0.01
ACGTcount: A:0.47, C:0.07, G:0.19, T:0.27
Consensus pattern (55 bp):
TGAAAATGAGAAATGAAATCATTTGGAAATGATATGGTTTTCTCCAAAATGAAAA
Found at i:157675 original size:28 final size:28
Alignment explanation
Indices: 157636--157696 Score: 106
Period size: 28 Copynumber: 2.2 Consensus size: 28
157626 CTATTCAGTA
157636 ACAGT-ACAATGTGGGCCTCAGCCCAAT
1 ACAGTAACAATGTGGGCCTCAGCCCAAT
*
157663 ACAGTAACAATGTGGGCCTTAGCCCAAT
1 ACAGTAACAATGTGGGCCTCAGCCCAAT
157691 ACAGTA
1 ACAGTA
157697 TCGGTACAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
27 5 0.16
28 27 0.84
ACGTcount: A:0.33, C:0.26, G:0.21, T:0.20
Consensus pattern (28 bp):
ACAGTAACAATGTGGGCCTCAGCCCAAT
Found at i:158109 original size:27 final size:26
Alignment explanation
Indices: 158060--158120 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 26
158050 GGGTATAACA
*
158060 ATCATTTTACCCTATGGGAGTAATTC
1 ATCATTTTACACTATGGGAGTAATTC
*
158086 GATCATTTTACACTGT-GGAGGTAATTC
1 -ATCATTTTACACTATGGGA-GTAATTC
158113 AGTCATTT
1 A-TCATTT
158121 AATGACCTCT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
26 4 0.13
27 26 0.87
ACGTcount: A:0.26, C:0.16, G:0.18, T:0.39
Consensus pattern (26 bp):
ATCATTTTACACTATGGGAGTAATTC
Found at i:161836 original size:2 final size:2
Alignment explanation
Indices: 161829--161858 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
161819 AAATCTCAAC
161829 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
161859 TTTAAATATG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:163832 original size:6 final size:6
Alignment explanation
Indices: 163821--163848 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
163811 GTAAAACATA
163821 ATAATT ATAATT ATAATT ATAATT ATAA
1 ATAATT ATAATT ATAATT ATAATT ATAA
163849 AAAGTCACTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (6 bp):
ATAATT
Found at i:165896 original size:18 final size:19
Alignment explanation
Indices: 165865--165901 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
165855 TTTTAATTAA
165865 TTAATTAGATAAATGTTAT
1 TTAATTAGATAAATGTTAT
165884 TTAATTA-ATAAATGTTAT
1 TTAATTAGATAAATGTTAT
165902 AGTAGATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.43, C:0.00, G:0.08, T:0.49
Consensus pattern (19 bp):
TTAATTAGATAAATGTTAT
Found at i:174673 original size:12 final size:12
Alignment explanation
Indices: 174656--174680 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
174646 TAGAGGCTAT
174656 TAACAATATTTA
1 TAACAATATTTA
174668 TAACAATATTTA
1 TAACAATATTTA
174680 T
1 T
174681 GTTACAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (12 bp):
TAACAATATTTA
Found at i:177498 original size:47 final size:48
Alignment explanation
Indices: 177414--177525 Score: 122
Period size: 47 Copynumber: 2.4 Consensus size: 48
177404 ATGGTTTAAC
*
177414 CACATATCT-ATTCTGGCAGCTTGACTGCTATTATGGTGGCTCGACCA
1 CACATATCTGATTCTGGTAGCTTGACTGCTATTATGGTGGCTCGACCA
* * * *
177461 CCCATATCTGATTCTGGTAGCTT-ATTTGC-ATTTTGGTGGCTTGACCA
1 CACATATCTGATTCTGGTAGCTTGA-CTGCTATTATGGTGGCTCGACCA
* * *
177508 TACTTATCTGATTTTGGT
1 CACATATCTGATTCTGGT
177526 GGGTTACTGC
Statistics
Matches: 54, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
47 39 0.72
48 15 0.28
ACGTcount: A:0.19, C:0.21, G:0.21, T:0.39
Consensus pattern (48 bp):
CACATATCTGATTCTGGTAGCTTGACTGCTATTATGGTGGCTCGACCA
Found at i:177758 original size:17 final size:17
Alignment explanation
Indices: 177716--177761 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
177706 AAAACCTACT
*
177716 TTATT-TTTTCAAAATA
1 TTATTATTTTTAAAATA
* *
177732 -TAATACTTTTAAAATA
1 TTATTATTTTTAAAATA
177748 TTATTATTTTTAAA
1 TTATTATTTTTAAA
177762 TTTATCTTTA
Statistics
Matches: 23, Mismatches: 5, Indels: 3
0.74 0.16 0.10
Matches are distributed among these distances:
15 3 0.13
16 9 0.39
17 11 0.48
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.54
Consensus pattern (17 bp):
TTATTATTTTTAAAATA
Found at i:188986 original size:21 final size:22
Alignment explanation
Indices: 188949--189000 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
188939 AGTATTTGTC
188949 AATATAAATATTTTTAAAAAGA
1 AATATAAATATTTTTAAAAAGA
* * *
188971 AATATAATTATTTTAAAAAATA
1 AATATAAATATTTTTAAAAAGA
*
188993 TATATAAA
1 AATATAAA
189001 GTAATGTAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (22 bp):
AATATAAATATTTTTAAAAAGA
Found at i:192533 original size:19 final size:19
Alignment explanation
Indices: 192506--192558 Score: 65
Period size: 19 Copynumber: 2.9 Consensus size: 19
192496 GAAAAAAAGG
*
192506 AAAAA-AATAAATAAATGA
1 AAAAATAATAAATAAATAA
* *
192524 AAAAATAATAATTACATAA
1 AAAAATAATAAATAAATAA
192543 AAAAATAATAAA-AAAT
1 AAAAATAATAAATAAAT
192559 TACTAAATTG
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
18 8 0.28
19 21 0.72
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.21
Consensus pattern (19 bp):
AAAAATAATAAATAAATAA
Found at i:193335 original size:13 final size:13
Alignment explanation
Indices: 193317--193346 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
193307 TTAGTAGAGT
*
193317 AAAAAAATAATAG
1 AAAAAAATAAAAG
193330 AAAAAAATAAAAG
1 AAAAAAATAAAAG
193343 AAAA
1 AAAA
193347 TAAAACGATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.83, C:0.00, G:0.07, T:0.10
Consensus pattern (13 bp):
AAAAAAATAAAAG
Found at i:194137 original size:45 final size:44
Alignment explanation
Indices: 194014--194741 Score: 333
Period size: 44 Copynumber: 16.7 Consensus size: 44
194004 AATTTGCTAT
* *
194014 CTTAGTCTTGCTCCACTGCAACTTCAGGGAGATAAGGCTTGTA-A
1 CTTAGTC-TGCTCCACTGCAACTTCAGGGAGATAAGACTTGCATA
* * *
194058 CTTTAATTTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCAT-
1 C-TTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTG-CATA
*
194103 CTTCAGTCTGC-CTCACTGCAACTTCA-GGAGGATAAGACTTGCTTA
1 CTT-AGTCTGCTC-CACTGCAACTTCAGGGA-GATAAGACTTGCATA
* *
194148 CTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAAACTAG-ATA
1 CTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCATA
* * ** * * *
194191 C-GA-TCTACT-CTTTGCAACTTCAGAGAGATAAGA--TCCAAA
1 CTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCATA
* * * *
194230 GTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGA-TT--ATCA
1 --CTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCAT-A
** * * **
194274 GCTTTAACCTGCTCCACTACAACTTTAGGGAGATAAGGTTTGCAGT-
1 -C-TTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCA-TA
* * * *
194320 CTTCAGTTTGC-CTCACTGTAACTTCA-GAAGAATAAGACTTGCTTA
1 CTT-AGTCTGCTC-CACTGCAACTTCAGGGAG-ATAAGACTTGCATA
*
194365 CTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAG-AT-
1 CTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCATA
*** * * * * *
194407 GGGA-TCT-ATTCTCTGCAACTTCAGAGAGATAAGA--TCCA-A
1 CTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCATA
* * * * * * *
194446 GGTTTTAATCCGCTCCACTGCCAGTTCAGGGAGATAGGA-TT--ATCGG
1 ---CTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCAT--A
** * * * *
194492 CTTTAACCTGCTCCACTGTAACTTCAGGAAGATAAG-GTCTGTA-A
1 C-TTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACT-TGCATA
* *
194536 TCTTCAGTCTGC-CTCACTGCAACTTTA-GGAGGATAAGACTTGCTTA
1 -CTT-AGTCTGCTC-CACTGCAACTTCAGGGA-GATAAGACTTGCATA
* **
194582 CTTAGTCTGCTCTACTGCAACTTCA-GGAGGATAAGACTTGTTTA
1 CTTAGTCTGCTCCACTGCAACTTCAGGGA-GATAAGACTTGCATA
* * *
194626 CTTAGTCTGCTCTACTGCAACTTCAGGGAGATAAGACTAG-ATG
1 CTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCATA
* * * * *
194669 C-GA-TCTGCT-CTCTGCAACTTCAGAGAGATAAGA--TCCAAGGA
1 CTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGC-A-TA
* * *
194710 TTTAATCCGCTCCACTGCAACTTCAGGGAGAT
1 CTTAGTCTGCTCCACTGCAACTTCAGGGAGAT
194742 GAATTATTGG
Statistics
Matches: 516, Mismatches: 110, Indels: 116
0.70 0.15 0.16
Matches are distributed among these distances:
39 3 0.01
40 65 0.13
41 14 0.03
42 6 0.01
43 19 0.04
44 295 0.57
45 109 0.21
46 2 0.00
47 2 0.00
48 1 0.00
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (44 bp):
CTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCATA
Found at i:194159 original size:89 final size:89
Alignment explanation
Indices: 194005--194663 Score: 279
Period size: 89 Copynumber: 7.5 Consensus size: 89
193995 AAAGAACAAA
* * *
194005 ATTTGCTATCTTAGTCTTGCTCCACTGCAACTTCAGGGAGATAAGGCTTGTAACTTTAATTTGCT
1 ATTTGCCATCTTAGTCTTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTTAATCTGCT
194070 CCACTGCAACTTCAGGGAGATAAG
66 CCACTGCAACTTCAGGGAGATAAG
* *
194094 ATTTGCCATCTTCAGTC-TGC-CTCACTGCAACTTCA-GGAGGATAAGACTTGCTTAC-TTAGTC
1 ATTTGCCATCTT-AGTCTTGCTC-CACTGCAACTTCAGGGA-GATAAGACTTG-TAACTTTAATC
*
194155 TGCTCCACTGCAACTTCAGGGAGATAAA
62 TGCTCCACTGCAACTTCAGGGAGATAAG
* * * * ** * *** * *
194183 ACTAG--ATAC-GA-TC-TACT-CTTTGCAACTTCAGAGAGATAAGA-TCCAAAGTTTTAATCCG
1 ATTTGCCAT-CTTAGTCTTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAA-CTTTAATCTG
*
194241 CTCCACTGCAACTTCAGGGAGATAGG
64 CTCCACTGCAACTTCAGGGAGATAAG
* * * * * ** * * * * *
194267 ATTAT--CAGCTTTA-ACCTGCTCCACTACAACTTTAGGGAGATAAGGTTTGCAGTCTTCAGTTT
1 ATT-TGCCATC-TTAGTCTTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTA-ACTTTAATCT
* *
194329 GC-CTCACTGTAACTTCA-GAAGAATAAG
63 GCTC-CACTGCAACTTCAGGGAG-ATAAG
* * * *** *
194356 ACTTG-CTTACTTAGTC-TGCTCCACTGCAACTTCAGGGAGATAAGACTAG--A-TGGGATCT-A
1 ATTTGCCAT-CTTAGTCTTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTTAATCTGC
* * *
194415 TTCTCTGCAACTTCAGAGAGATAAG
65 TCCACTGCAACTTCAGGGAGATAAG
* * * * * * * ** *
194440 A--T-CCAAGGTTTTAATC-CGCTCCACTGCCAGTTCAGGGAGATAGGA-TTATCGGCTTTAACC
1 ATTTGCC-A--TCTTAGTCTTGCTCCACTGCAACTTCAGGGAGATAAGACTTGT-AACTTTAATC
* *
194500 TGCTCCACTGTAACTTCAGGAAGATAAG
62 TGCTCCACTGCAACTTCAGGGAGATAAG
* * ** * * *
194528 GTCTGTAATCTTCAGTC-TGC-CTCACTGCAACTTTA-GGAGGATAAGACTTGCTTAC-TTAGTC
1 ATTTGCCATCTT-AGTCTTGCTC-CACTGCAACTTCAGGGA-GATAAGACTTG-TAACTTTAATC
*
194589 TGCTCTACTGCAACTTCA-GGAGGATAAG
62 TGCTCCACTGCAACTTCAGGGA-GATAAG
* ** *
194617 ACTTG-TTTACTTAGTC-TGCTCTACTGCAACTTCAGGGAGATAAGACT
1 ATTTGCCAT-CTTAGTCTTGCTCCACTGCAACTTCAGGGAGATAAGACT
194664 AGATGCGATC
Statistics
Matches: 413, Mismatches: 112, Indels: 91
0.67 0.18 0.15
Matches are distributed among these distances:
82 3 0.01
83 2 0.00
84 98 0.24
85 13 0.03
86 3 0.01
87 9 0.02
88 85 0.21
89 185 0.45
90 14 0.03
91 1 0.00
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (89 bp):
ATTTGCCATCTTAGTCTTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTTAATCTGCT
CCACTGCAACTTCAGGGAGATAAG
Found at i:194325 original size:217 final size:216
Alignment explanation
Indices: 194023--194661 Score: 886
Period size: 217 Copynumber: 2.9 Consensus size: 216
194013 TCTTAGTCTT
* * * **
194023 GCTCCACTGCAACTTCAGGGAGATAAGGCTTGT-AACTTTAATTTGCTCCACTGCAACTTCAGGG
1 GCTCCACTGCAACTTCAGGGAGAT-AGGATTATCAGCTTTAACCTGCTCCACTGCAACTTCAGGG
*
194087 AGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTA
65 AGATAAGGTTTG-CATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTA
*
194152 GTCTGCTCCACTGCAACTTCAGGGAGATAAAACTAGATACGATCTACTCTTTGCAACTTCAGAGA
129 GTCTGCTCCACTGCAACTTCAGGGAGATAAAACTAGATACGATCTACTCTCTGCAACTTCAGAGA
194217 GATAAGATCCAAAGTTTTAATCC
194 GATAAGATCCAAAGTTTTAATCC
* *
194240 GCTCCACTGCAACTTCAGGGAGATAGGATTATCAGCTTTAACCTGCTCCACTACAACTTTAGGGA
1 GCTCCACTGCAACTTCAGGGAGATAGGATTATCAGCTTTAACCTGCTCCACTGCAACTTCAGGGA
* * * *
194305 GATAAGGTTTGCAGTCTTCAGTTTGCCTCACTGTAACTTCAGAAGAATAAGACTTGCTTACTTAG
66 GATAAGGTTTGCA-TCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAG
* ** *
194370 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGGGATCTATTCTCTGCAACTTCAGAGAG
130 TCTGCTCCACTGCAACTTCAGGGAGATAAAACTAGATACGATCTACTCTCTGCAACTTCAGAGAG
*
194435 ATAAGATCCAAGGTTTTAATCC
195 ATAAGATCCAAAGTTTTAATCC
* * * * *
194457 GCTCCACTGCCAGTTCAGGGAGATAGGATTATCGGCTTTAACCTGCTCCACTGTAACTTCAGGAA
1 GCTCCACTGCAACTTCAGGGAGATAGGATTATCAGCTTTAACCTGCTCCACTGCAACTTCAGGGA
* * *
194522 GATAAGGTCTGTAATCTTCAGTCTGCCTCACTGCAACTTTAGGAGGATAAGACTTGCTTACTTAG
66 GATAAGGTTTG-CATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAG
* * * * * *
194587 TCTGCTCTACTGCAACTTCA-GGAGGATAAGACTTGTTTACTTAGTCTGCTCTACTGCAACTTCA
130 TCTGCTCCACTGCAACTTCAGGGA-GATAAAACTAG-ATAC-GA-TCTACTCT-CTGCAACTTCA
*
194651 GGGAGATAAGA
190 GAGAGATAAGA
194662 CTAGATGCGA
Statistics
Matches: 373, Mismatches: 41, Indels: 12
0.88 0.10 0.03
Matches are distributed among these distances:
216 11 0.03
217 332 0.89
218 2 0.01
219 1 0.00
220 6 0.02
221 21 0.06
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (216 bp):
GCTCCACTGCAACTTCAGGGAGATAGGATTATCAGCTTTAACCTGCTCCACTGCAACTTCAGGGA
GATAAGGTTTGCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGT
CTGCTCCACTGCAACTTCAGGGAGATAAAACTAGATACGATCTACTCTCTGCAACTTCAGAGAGA
TAAGATCCAAAGTTTTAATCC
Found at i:194515 original size:128 final size:128
Alignment explanation
Indices: 194371--194741 Score: 342
Period size: 133 Copynumber: 2.9 Consensus size: 128
194361 CTTACTTAGT
* *
194371 CTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGGGATCTATTCTCTGCAACTTCAGAGAGA
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTACTCTCTGCAACTTCAGAGAGA
* * * *
194436 TAAGATCCAAGGTTTTAATCCGCTCCACTGCCAGTTCAGGGAGATAGGA-TTATCGGCTTTAAC
66 TAAGATCCAAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGACTTATCGAC-TTAAC
* * * * * * *
194499 CTGCTCCACTGTAACTTCAGGAAGATAAGGTCT-GTAAT-CTTCAGTCTGCCTCACTGCAACTTT
1 CTGCTCCACTGCAACTTCAGGGAGATAA-GACTAG--ATGC--GA-TCT-ACTCTCTGCAACTTC
** * * * * *
194562 AG-GAGGATAAGA--CTTGCTTACTTAGTCTGCTCTACTGCAACTTCA-GGAGGATAAGACTTGT
59 AGAGA-GATAAGATCCAAGGTT--TTAATCCGCTCCACTGCAACTTCAGGGA-GATAAGACTTAT
** **
194623 TTACTTAGT
120 CGACTTAAC
* *
194632 CTGCTCTACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGA
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTACTCTCTGCAACTTCAGAGAGA
*
194697 TAAGATCCAAGGATTTAATCCGCTCCACTGCAACTTCAGGGAGAT
66 TAAGATCCAAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGAT
194742 GAATTATTGG
Statistics
Matches: 186, Mismatches: 39, Indels: 36
0.71 0.15 0.14
Matches are distributed among these distances:
128 72 0.39
129 11 0.06
130 6 0.03
131 7 0.04
132 12 0.06
133 74 0.40
134 4 0.02
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.28
Consensus pattern (128 bp):
CTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTACTCTCTGCAACTTCAGAGAGA
TAAGATCCAAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGACTTATCGACTTAAC
Found at i:194724 original size:217 final size:216
Alignment explanation
Indices: 194023--194741 Score: 857
Period size: 217 Copynumber: 3.3 Consensus size: 216
194013 TCTTAGTCTT
* * * **
194023 GCTCCACTGCAACTTCAGGGAGATAAGGCTTGTA-ACTTTAATTTGCTCCACTGCAACTTCAGGG
1 GCTCCACTGCAACTTCAGGGAGAT-AGGATTATAGGCTTTAACCTGCTCCACTGCAACTTCAGGG
* *
194087 AGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTA
65 AGATAAGGTTTGCAATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTA
* *
194152 GTCTGCTCCACTGCAACTTCAGGGAGATAAAACTAGATAC-GA-TCTACTCTTTGCAACTTCAGA
130 GTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAG-TACTGAGTCTACTCTCTGCAACTTCAGA
194215 GAGATAAGATCCAAAGTTTTAATCC
194 GAGATAAGA-CC-AAGTTTTAATCC
* *
194240 GCTCCACTGCAACTTCAGGGAGATAGGATTATCA-GCTTTAACCTGCTCCACTACAACTTTAGGG
1 GCTCCACTGCAACTTCAGGGAGATAGGATTAT-AGGCTTTAACCTGCTCCACTGCAACTTCAGGG
* * * * *
194304 AGATAAGGTTTGCAGTCTTCAGTTTGCCTCACTGTAACTTCAGAAGAATAAGACTTGCTTACTTA
65 AGATAAGGTTTGCAATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTA
* *
194369 GTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAG-A-TGGGATCTATTCTCTGCAACTTCAGA
130 GTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGTACTGAG-TCTACTCTCTGCAACTTCAGA
194432 GAGATAAGATCCAAGGTTTTAATCC
194 GAGATAAGA-CCAA-GTTTTAATCC
* * * * *
194457 GCTCCACTGCCAGTTCAGGGAGATAGGATTATCGGCTTTAACCTGCTCCACTGTAACTTCAGGAA
1 GCTCCACTGCAACTTCAGGGAGATAGGATTATAGGCTTTAACCTGCTCCACTGCAACTTCAGGGA
* * *
194522 GATAAGGTCTGTAATCTTCAGTCTGCCTCACTGCAACTTTAGGAGGATAAGACTTGCTTACTTAG
66 GATAAGGTTTGCAATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAG
* * * *
194587 TCTGCTCTACTGCAACTTCA-GGAGGATAAGACTTGTTTACTTAGTCTGCTCTACTGCAACTTCA
131 TCTGCTCCACTGCAACTTCAGGGA-GATAAGACTAG--TACTGAGTCTACTCT-CTGCAACTTCA
* * * *** *
194651 GGGAGATAAGA-CTAGATGCGATCT
192 GAGAGATAAGACCAAGTTTTAATCC
* * * * *
194675 GCT-CTCTGCAACTTCAGAGAGATAAGATCCA-AGGATTTAATCC-GCTCCACTGCAACTTCAGG
1 GCTCCACTGCAACTTCAGGGAGATAGGAT-TATAGGCTTTAA-CCTGCTCCACTGCAACTTCAGG
194737 GAGAT
64 GAGAT
194742 GAATTATTGG
Statistics
Matches: 432, Mismatches: 56, Indels: 28
0.84 0.11 0.05
Matches are distributed among these distances:
215 2 0.00
216 11 0.03
217 376 0.87
218 11 0.03
219 2 0.00
220 7 0.02
221 23 0.05
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (216 bp):
GCTCCACTGCAACTTCAGGGAGATAGGATTATAGGCTTTAACCTGCTCCACTGCAACTTCAGGGA
GATAAGGTTTGCAATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAG
TCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGTACTGAGTCTACTCTCTGCAACTTCAGAGA
GATAAGACCAAGTTTTAATCC
Found at i:202905 original size:24 final size:24
Alignment explanation
Indices: 202877--202922 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
202867 ATCATTTTTT
* *
202877 GCTGCTCATTCATTTGCTTTTGAA
1 GCTGCTCATGCATTTCCTTTTGAA
*
202901 GCTGCTCCTGCATTTCCTTTTG
1 GCTGCTCATGCATTTCCTTTTG
202923 GGACTGTTCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.11, C:0.26, G:0.17, T:0.46
Consensus pattern (24 bp):
GCTGCTCATGCATTTCCTTTTGAA
Found at i:207276 original size:4 final size:4
Alignment explanation
Indices: 207267--207301 Score: 52
Period size: 4 Copynumber: 8.5 Consensus size: 4
207257 AAAAAAAGGA
*
207267 AAAT AAAT AAAT AAAT AAAT AAAT GAAAA AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT -AAAT AAAT AA
207302 TGATTACATA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
4 25 0.89
5 3 0.11
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.20
Consensus pattern (4 bp):
AAAT
Found at i:208119 original size:13 final size:13
Alignment explanation
Indices: 208101--208130 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
208091 TTAGTAGAGT
*
208101 AAAAAAATAATAG
1 AAAAAAATAAAAG
208114 AAAAAAATAAAAG
1 AAAAAAATAAAAG
208127 AAAA
1 AAAA
208131 TAAAACGATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.83, C:0.00, G:0.07, T:0.10
Consensus pattern (13 bp):
AAAAAAATAAAAG
Found at i:215249 original size:43 final size:42
Alignment explanation
Indices: 215180--215281 Score: 100
Period size: 43 Copynumber: 2.4 Consensus size: 42
215170 AATGCCAACA
* * *
215180 TCCCAGAC-GTGGTCTTACATGTAATTACATATCGACGCCACTG
1 TCCCAGACAG-GGTCTTACAAGTAATTACATA-CGACACCAATG
* *
215223 TCCCAGACAGGGTCTTACACAG-AATTATATACTACACCAATG
1 TCCCAGACAGGGTCTTACA-AGTAATTACATACGACACCAATG
* *
215265 TCCCAGGCATGGTCTTA
1 TCCCAGACAGGGTCTTA
215282 TATGTAAATA
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
42 23 0.46
43 25 0.50
44 2 0.04
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.26
Consensus pattern (42 bp):
TCCCAGACAGGGTCTTACAAGTAATTACATACGACACCAATG
Found at i:222636 original size:90 final size:92
Alignment explanation
Indices: 222480--222664 Score: 259
Period size: 90 Copynumber: 2.0 Consensus size: 92
222470 GCTTGTAAAG
* * *
222480 ATATTTGCAAAAAGAGACAACTAATTTCAATATTTAGAAAAAGAACAACCAAAATTTTCAAATAA
1 ATATTTACAAAAAGAGA-AACTAATTTAAATATTTACAAAAAGAACAACCAAAATTTTCAAATAA
222545 TTCAATTAAGTACCTAAACTTAAA-AAA
65 TTCAATTAAGTACCTAAACTTAAAGAAA
* * * *
222572 ATATTTACAAAAAGAG-AGCTAATTTAAATATTTACAACAAGAGCAA-CAAAATTTTGCAATTAA
1 ATATTTACAAAAAGAGAAACTAATTTAAATATTTACAAAAAGAACAACCAAAATTTT-CAAATAA
*
222635 TTCAATTAAGTACCTAGACTTAAAGAAA
65 TTCAATTAAGTACCTAAACTTAAAGAAA
222663 AT
1 AT
222665 TTGAAAACTG
Statistics
Matches: 83, Mismatches: 8, Indels: 5
0.86 0.08 0.05
Matches are distributed among these distances:
89 9 0.11
90 54 0.65
91 5 0.06
92 15 0.18
ACGTcount: A:0.51, C:0.12, G:0.08, T:0.28
Consensus pattern (92 bp):
ATATTTACAAAAAGAGAAACTAATTTAAATATTTACAAAAAGAACAACCAAAATTTTCAAATAAT
TCAATTAAGTACCTAAACTTAAAGAAA
Found at i:225691 original size:18 final size:17
Alignment explanation
Indices: 225663--225697 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
225653 TCTTATAAGA
*
225663 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
225680 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
225698 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:225847 original size:18 final size:17
Alignment explanation
Indices: 225819--225853 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
225809 AATTATAAGA
*
225819 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
225836 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
225854 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:225939 original size:156 final size:156
Alignment explanation
Indices: 225655--229398 Score: 7461
Period size: 156 Copynumber: 24.0 Consensus size: 156
225645 TTATATCATC
225655 TTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAAT
1 TTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAAT
225720 ATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACATTAACAATAAT
66 ATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACATTAACAATAAT
225785 CATTTACCAAAACAATTTTCTGCTAA
131 CATTTACCAAAACAATTTTCTGCTAA
225811 TTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAAT
1 TTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAAT
225876 ATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACATTAACAATAAT
66 ATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACATTAACAATAAT
225941 CATTTACCAAAACAATTTTCTGCTAA
131 CATTTACCAAAACAATTTTCTGCTAA
225967 TTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAAT
1 TTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAAT
226032 ATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACATTAACAATAAT
66 ATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACATTAACAATAAT
226097 CATTTACCAAAACAATTTTCTGCTAA
131 CATTTACCAAAACAATTTTCTGCTAA
226123 TTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAAT
1 TTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAAT
226188 ATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACATTAACAATAAT
66 ATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACATTAACAATAAT
226253 CATTTACCAAAACAATTTTCTGCTAA
131 CATTTACCAAAACAATTTTCTGCTAA
226279 TTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAAT
1 TTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAAT
226344 ATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACATTAACAATAAT
66 ATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACATTAACAATAAT
226409 CATTTACCAAAACAATTTTCTGCTAA
131 CATTTACCAAAACAATTTTCTGCTAA
226435 TTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAAT
1 TTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAAT
226500 ATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACATTAACAATAAT
66 ATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACATTAACAATAAT
226565 CATTTACCAAAACAATTTTCTGCTAA
131 CATTTACCAAAACAATTTTCTGCTAA
226591 TTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAAT
1 TTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAAT
226656 ATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACATTAACAATAAT
66 ATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACATTAACAATAAT
226721 CATTTACCAAAACAATTTTCTGCTAA
131 CATTTACCAAAACAATTTTCTGCTAA
226747 TTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAAT
1 TTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAAT
226812 ATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACATTAACAATAAT
66 ATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACATTAACAATAAT
226877 CATTTACCAAAACAATTTTCTGCTAA
131 CATTTACCAAAACAATTTTCTGCTAA
226903 TTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAAT
1 TTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAAT
226968 ATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACATTAACAATAAT
66 ATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACATTAACAATAAT
227033 CATTTACCAAAACAATTTTCTGCTAA
131 CATTTACCAAAACAATTTTCTGCTAA
227059 TTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAAT
1 TTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAAT
227124 ATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACATTAACAATAAT
66 ATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACATTAACAATAAT
227189 CATTTACCAAAACAATTTTCTGCTAA
131 CATTTACCAAAACAATTTTCTGCTAA
227215 TTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAAT
1 TTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAAT
227280 ATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACATTAACAATAAT
66 ATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACATTAACAATAAT
227345 CATTTACCAAAACAATTTTCTGCTAA
131 CATTTACCAAAACAATTTTCTGCTAA
227371 TTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAAT
1 TTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAAT
227436 ATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACATTAACAATAAT
66 ATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACATTAACAATAAT
227501 CATTTACCAAAACAATTTTCTGCTAA
131 CATTTACCAAAACAATTTTCTGCTAA
227527 TTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAAT
1 TTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAAT
227592 ATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACATTAACAATAAT
66 ATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACATTAACAATAAT
227657 CATTTACCAAAACAATTTTCTGCTAA
131 CATTTACCAAAACAATTTTCTGCTAA
227683 TTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAAT
1 TTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAAT
227748 ATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACATTAACAATAAT
66 ATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACATTAACAATAAT
227813 CATTTACCAAAACAATTTTCTGCTAA
131 CATTTACCAAAACAATTTTCTGCTAA
227839 TTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAAT
1 TTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAAT
227904 ATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACATTAACAATAAT
66 ATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACATTAACAATAAT
227969 CATTTACCAAAACAATTTTCTGCTAA
131 CATTTACCAAAACAATTTTCTGCTAA
227995 TTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAAT
1 TTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAAT
228060 ATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACATTAACAATAAT
66 ATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACATTAACAATAAT
228125 CATTTACCAAAACAATTTTCTGCTAA
131 CATTTACCAAAACAATTTTCTGCTAA
228151 TTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAAT
1 TTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAAT
228216 ATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACATTAACAATAAT
66 ATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACATTAACAATAAT
228281 CATTTACCAAAACAATTTTCTGCTAA
131 CATTTACCAAAACAATTTTCTGCTAA
228307 TTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAAT
1 TTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAAT
228372 ATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACATTAACAATAAT
66 ATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACATTAACAATAAT
228437 CATTTACCAAAACAATTTTCTGCTAA
131 CATTTACCAAAACAATTTTCTGCTAA
228463 TTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAAT
1 TTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAAT
228528 ATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACATTAACAATAAT
66 ATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACATTAACAATAAT
228593 CATTTACCAAAACAATTTTCTGCTAA
131 CATTTACCAAAACAATTTTCTGCTAA
228619 TTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAAT
1 TTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAAT
228684 ATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACATTAACAATAAT
66 ATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACATTAACAATAAT
228749 CATTTACCAAAACAATTTTCTGCTAA
131 CATTTACCAAAACAATTTTCTGCTAA
228775 TTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAAT
1 TTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAAT
228840 ATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACATTAACAATAAT
66 ATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACATTAACAATAAT
228905 CATTTACCAAAACAATTTTCTGCTAA
131 CATTTACCAAAACAATTTTCTGCTAA
228931 TTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAAT
1 TTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAAT
228996 ATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACATTAACAATAAT
66 ATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACATTAACAATAAT
229061 CATTTACCAAAACAATTTTCTGCTAA
131 CATTTACCAAAACAATTTTCTGCTAA
229087 TTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAAT
1 TTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAAT
229152 ATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACATTAACAATAAT
66 ATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACATTAACAATAAT
229217 CATTTACCAAAACAATTTTCTGCTAA
131 CATTTACCAAAACAATTTTCTGCTAA
*
229243 TTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATTATAATTATGTTTAAAT
1 TTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAAT
*
229308 ATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAATAAT
66 ATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACATTAACAATAAT
*
229373 CATTTACCAAAACAATTTTATGCTAA
131 CATTTACCAAAACAATTTTCTGCTAA
229399 GGGTATTCTA
Statistics
Matches: 3585, Mismatches: 3, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
156 3585 1.00
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.44
Consensus pattern (156 bp):
TTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAAT
ATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACATTAACAATAAT
CATTTACCAAAACAATTTTCTGCTAA
Found at i:226003 original size:18 final size:17
Alignment explanation
Indices: 225975--226009 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
225965 AATTATAAGA
*
225975 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
225992 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
226010 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:226159 original size:18 final size:17
Alignment explanation
Indices: 226131--226165 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
226121 AATTATAAGA
*
226131 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
226148 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
226166 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:226315 original size:18 final size:17
Alignment explanation
Indices: 226287--226321 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
226277 AATTATAAGA
*
226287 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
226304 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
226322 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:226471 original size:18 final size:17
Alignment explanation
Indices: 226443--226477 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
226433 AATTATAAGA
*
226443 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
226460 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
226478 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:226627 original size:18 final size:17
Alignment explanation
Indices: 226599--226633 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
226589 AATTATAAGA
*
226599 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
226616 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
226634 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:226783 original size:18 final size:17
Alignment explanation
Indices: 226755--226789 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
226745 AATTATAAGA
*
226755 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
226772 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
226790 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:226939 original size:18 final size:17
Alignment explanation
Indices: 226911--226945 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
226901 AATTATAAGA
*
226911 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
226928 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
226946 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:227095 original size:18 final size:17
Alignment explanation
Indices: 227067--227101 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
227057 AATTATAAGA
*
227067 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
227084 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
227102 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:227251 original size:18 final size:17
Alignment explanation
Indices: 227223--227257 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
227213 AATTATAAGA
*
227223 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
227240 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
227258 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:227407 original size:18 final size:17
Alignment explanation
Indices: 227379--227413 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
227369 AATTATAAGA
*
227379 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
227396 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
227414 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:227563 original size:18 final size:17
Alignment explanation
Indices: 227535--227569 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
227525 AATTATAAGA
*
227535 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
227552 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
227570 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:227719 original size:18 final size:17
Alignment explanation
Indices: 227691--227725 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
227681 AATTATAAGA
*
227691 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
227708 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
227726 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:227875 original size:18 final size:17
Alignment explanation
Indices: 227847--227881 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
227837 AATTATAAGA
*
227847 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
227864 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
227882 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:228031 original size:18 final size:17
Alignment explanation
Indices: 228003--228037 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
227993 AATTATAAGA
*
228003 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
228020 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
228038 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:228187 original size:18 final size:17
Alignment explanation
Indices: 228159--228193 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
228149 AATTATAAGA
*
228159 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
228176 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
228194 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:228343 original size:18 final size:17
Alignment explanation
Indices: 228315--228349 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
228305 AATTATAAGA
*
228315 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
228332 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
228350 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:228499 original size:18 final size:17
Alignment explanation
Indices: 228471--228505 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
228461 AATTATAAGA
*
228471 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
228488 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
228506 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:228655 original size:18 final size:17
Alignment explanation
Indices: 228627--228661 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
228617 AATTATAAGA
*
228627 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
228644 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
228662 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:228811 original size:18 final size:17
Alignment explanation
Indices: 228783--228817 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
228773 AATTATAAGA
*
228783 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
228800 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
228818 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:228967 original size:18 final size:17
Alignment explanation
Indices: 228939--228973 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
228929 AATTATAAGA
*
228939 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
228956 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
228974 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:229123 original size:18 final size:17
Alignment explanation
Indices: 229095--229129 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
229085 AATTATAAGA
*
229095 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
229112 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
229130 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:229279 original size:18 final size:18
Alignment explanation
Indices: 229251--229299 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 18
229241 AATTATAAGA
229251 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAATTATAT
229268 ATTTTAATTAAA--ATAT
1 ATTTTAATTAAATTATAT
229284 A-TTTAATTATAATTAT
1 ATTTTAATTA-AATTAT
229300 GTTTAAATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
15 8 0.29
16 7 0.25
17 5 0.18
18 8 0.29
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
ATTTTAATTAAATTATAT
Found at i:229285 original size:16 final size:16
Alignment explanation
Indices: 229251--229305 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
229241 AATTATAAGA
229251 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAA--ATAT
229268 ATTTTAATTAAAATAT
1 ATTTTAATTAAAATAT
*
229284 A-TTTAATTATAAT-T
1 ATTTTAATTAAAATAT
229298 ATGTTTAA
1 AT-TTTAA
229306 ATATGATTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 2 0.06
15 11 0.32
16 10 0.29
17 5 0.15
18 6 0.18
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (16 bp):
ATTTTAATTAAAATAT
Found at i:229538 original size:16 final size:16
Alignment explanation
Indices: 229517--229556 Score: 80
Period size: 16 Copynumber: 2.5 Consensus size: 16
229507 ACCCCCTATC
229517 CCAATACACCTCTAAT
1 CCAATACACCTCTAAT
229533 CCAATACACCTCTAAT
1 CCAATACACCTCTAAT
229549 CCAATACA
1 CCAATACA
229557 GCGAACCAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.40, C:0.38, G:0.00, T:0.23
Consensus pattern (16 bp):
CCAATACACCTCTAAT
Found at i:237490 original size:64 final size:64
Alignment explanation
Indices: 237389--237513 Score: 214
Period size: 64 Copynumber: 2.0 Consensus size: 64
237379 TCAAACTTGG
237389 CCACAATCCTATCCCCCTGAGTAAGGTTCATAAACTCGTGTCTACAAGCATCCACATAACTGGA
1 CCACAATCCTATCCCCCTGAGTAAGGTTCATAAACTCGTGTCTACAAGCATCCACATAACTGGA
** * *
237453 CCACAATCCTATCCCTTTGGGTAAGGTTCATAAACTCGTGTCTACGAGCATCCACATAACT
1 CCACAATCCTATCCCCCTGAGTAAGGTTCATAAACTCGTGTCTACAAGCATCCACATAACT
237514 CGCCCCCATA
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
64 57 1.00
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.26
Consensus pattern (64 bp):
CCACAATCCTATCCCCCTGAGTAAGGTTCATAAACTCGTGTCTACAAGCATCCACATAACTGGA
Found at i:250868 original size:355 final size:356
Alignment explanation
Indices: 250207--250917 Score: 1415
Period size: 355 Copynumber: 2.0 Consensus size: 356
250197 TATATTTTTT
250207 TAATGAAAATTTTAAATATATTTAATTTTATAACACTTGTAATTAAATTTATATTATTTTGTAAT
1 TAATGAAAATTTTAAATATATTTAATTTTATAACACTTGTAATTAAATTTATATTATTTTGTAAT
250272 TAAAACTGAAAAAAAGAATAAACTAAATAAAAAATACATATATAAACAATAAAGCTTATAATTAA
66 TAAAACTGAAAAAAAGAATAAACTAAATAAAAAATACATATATAAACAATAAAGCTTATAATTAA
250337 GCGTAGTGAAAATTCTTAGAAATCATAAGTCTAAACTATATTTTACACTAAACCTTATAAAGCCT
131 GCGTAGTGAAAATTCTTAGAAATCATAAGTCTAAACTATATTTTACACTAAACCTTATAAAGCCT
250402 TTGATTTGAGATGTTTAGTAATATGCGTACATATTCCCACAATTATAAAAAAATAAAATAAATAC
196 TTGATTTGAGATGTTTAGTAATATGCGTACATATTCCCACAATTATAAAAAAATAAAATAAATAC
250467 GGAACACGATATCTAAGACTATTATGGATACTAATTAATTTCCATCTTTCTCTAGAAAATCCCGG
261 GGAACACGATATCTAAGACTATTATGGATACTAATTAATTTCCATCTTTCTCTAGAAAATCCCGG
250532 TAGGCTTTCAAAGATTTTATTTCTTTTCTGA
326 TAGGCTTTCAAAGATTTTATTTCTTTTCTGA
250563 TAATGAAAA-TTTAAATATATTTAATTTTATAACACTTGTAATTAAATTTATATTATTTTGTAAT
1 TAATGAAAATTTTAAATATATTTAATTTTATAACACTTGTAATTAAATTTATATTATTTTGTAAT
250627 TAAAACTGAAAAAAAGAATAAACTAAATAAAAAATACATATATAAACAATAAAGCTTATAATTAA
66 TAAAACTGAAAAAAAGAATAAACTAAATAAAAAATACATATATAAACAATAAAGCTTATAATTAA
250692 GCGTAGTGAAAATTCTTAGAAATCATAAGTCTAAACTATATTTTACACTAAACCTTATAAAGCCT
131 GCGTAGTGAAAATTCTTAGAAATCATAAGTCTAAACTATATTTTACACTAAACCTTATAAAGCCT
250757 TTGATTTGAGATGTTTAGTAATATGCGTACATATTCCCACAATTATAAAAAAATAAAATAAATAC
196 TTGATTTGAGATGTTTAGTAATATGCGTACATATTCCCACAATTATAAAAAAATAAAATAAATAC
250822 GGAACACGATATCTAAGACTATTATGGATACTAATTAATTTCCATCTTTCTCTAGAAAATCCCGG
261 GGAACACGATATCTAAGACTATTATGGATACTAATTAATTTCCATCTTTCTCTAGAAAATCCCGG
250887 TAGGCTTTCAAAGATTTTATTTCTTTTCTGA
326 TAGGCTTTCAAAGATTTTATTTCTTTTCTGA
250918 AGAAGAATAT
Statistics
Matches: 355, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
355 346 0.97
356 9 0.03
ACGTcount: A:0.43, C:0.12, G:0.09, T:0.36
Consensus pattern (356 bp):
TAATGAAAATTTTAAATATATTTAATTTTATAACACTTGTAATTAAATTTATATTATTTTGTAAT
TAAAACTGAAAAAAAGAATAAACTAAATAAAAAATACATATATAAACAATAAAGCTTATAATTAA
GCGTAGTGAAAATTCTTAGAAATCATAAGTCTAAACTATATTTTACACTAAACCTTATAAAGCCT
TTGATTTGAGATGTTTAGTAATATGCGTACATATTCCCACAATTATAAAAAAATAAAATAAATAC
GGAACACGATATCTAAGACTATTATGGATACTAATTAATTTCCATCTTTCTCTAGAAAATCCCGG
TAGGCTTTCAAAGATTTTATTTCTTTTCTGA
Found at i:255838 original size:13 final size:13
Alignment explanation
Indices: 255820--255845 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
255810 CTTGGTGGCT
255820 TAAATCTGCTTCC
1 TAAATCTGCTTCC
255833 TAAATCTGCTTCC
1 TAAATCTGCTTCC
255846 CACTATCTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.31, G:0.08, T:0.38
Consensus pattern (13 bp):
TAAATCTGCTTCC
Found at i:255907 original size:44 final size:44
Alignment explanation
Indices: 255859--256305 Score: 165
Period size: 44 Copynumber: 10.1 Consensus size: 44
255849 TATCTTGGAA
*
255859 AGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATTTGCCGTCTTCAATCTGCTCCACTACTGCTTAGGG
* * ** * * * * *
255903 AGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGG
1 AGATAAGATTTGCCGTCTTCAATCTGCTCCACTACTGCTTAGGG
* ** ** * * *
255947 AGACAAGGCTTGGTGGCTTAAATCTGCTTTCCACTA-T-CTT-GGAA
1 AGATAAGATTTGCCGTCTTCAATCTGC--TCCACTACTGCTTAGG-G
* **
255991 AGATAAGATTTGTCGTCTTTGATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATTTGCCGTCTTCAATCTGCTCCACTACTGCTTAGGG
* * ** * * * * *
256035 AGATAAGATCTACAATTTTCAACCTACTCCACTGCTGCTCAGGG
1 AGATAAGATTTGCCGTCTTCAATCTGCTCCACTACTGCTTAGGG
* ** ** * * ***
256079 AGACAAGGCTTGGTGGCTTTAAATCTGCTACCCACTA-T-CTTAAAA
1 AGATAAGATTTGCCGTC-TTCAATCTGCT--CCACTACTGCTTAGGG
* * **
256124 AGATAAGATTTGTCATCTTTGATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATTTGCCGTCTTCAATCTGCTCCACTACTGCTTAGGG
* * ** * * * * *
256168 AGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGG
1 AGATAAGATTTGCCGTCTTCAATCTGCTCCACTACTGCTTAGGG
* * * * * *
256212 AGACAAGGCTTTG-TGGCTTTAATCTGCTTCCCACTA-T-CTT-GGAA
1 AGATAA-GATTTGCCGTCTTCAATCTGC-T-CCACTACTGCTTAGG-G
* ** * *
256256 AGATAAGATTTGTCGTCTTTTATCTGTTCCACTACTACTTAGGG
1 AGATAAGATTTGCCGTCTTCAATCTGCTCCACTACTGCTTAGGG
256300 AGATAA
1 AGATAA
256306 AATCTACAAT
Statistics
Matches: 275, Mismatches: 109, Indels: 38
0.65 0.26 0.09
Matches are distributed among these distances:
42 19 0.07
43 13 0.05
44 197 0.72
45 31 0.11
46 10 0.04
47 5 0.02
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.32
Consensus pattern (44 bp):
AGATAAGATTTGCCGTCTTCAATCTGCTCCACTACTGCTTAGGG
Found at i:256070 original size:132 final size:132
Alignment explanation
Indices: 255833--256358 Score: 892
Period size: 132 Copynumber: 4.0 Consensus size: 132
255823 ATCTGCTTCC
* *
255833 TAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCT
1 TAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGTCGTCTTTGATCTGCTCCACTACTGCT
255898 TAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGG
66 TAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGG
255963 CT
131 CT
*
255965 TAAATCTGCTTTCCACTATCTTGGAAAGATAAGATTTGTCGTCTTTGATCTGCTCCACTACTGCT
1 TAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGTCGTCTTTGATCTGCTCCACTACTGCT
* *
256030 TAGGGAGATAAGATCTACAATTTTCAACCTACTCCACTGCTGCTCAGGGAGACAAGGCTTGGTGG
66 TAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGG
256095 CTT
131 C-T
* ** *
256098 TAAATCTGCTACCCACTATCTTAAAAAGATAAGATTTGTCATCTTTGATCTGCTCCACTACTGCT
1 TAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGTCGTCTTTGATCTGCTCCACTACTGCT
*
256163 TAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTTGTGG
66 TAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGG
256228 CT
131 CT
* * * *
256230 TTAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGTCGTCTTTTATCTGTTCCACTACTACT
1 TAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGTCGTCTTTGATCTGCTCCACTACTGCT
*
256295 TAGGGAGATAAAATCTACAATCTTCAACCTTA-TCCGCTGCTGCTCAGGGAGACAAGGCTTGGTG
66 TAGGGAGATAAGATCTACAATCTTCAACC-TACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTG
256359 TTTCACCGGT
Statistics
Matches: 369, Mismatches: 23, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
132 243 0.66
133 126 0.34
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.31
Consensus pattern (132 bp):
TAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGTCGTCTTTGATCTGCTCCACTACTGCT
TAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGG
CT
Found at i:256313 original size:265 final size:265
Alignment explanation
Indices: 255833--256358 Score: 901
Period size: 265 Copynumber: 2.0 Consensus size: 265
255823 ATCTGCTTCC
* ** *
255833 TAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCT
1 TAAATCTGCTACCCACTATCTTAAAAAGATAAGATTTGCCATCTTCGATCTGCTCCACTACTGCT
255898 TAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGG
66 TAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGG
* *
255963 CTTAAATCTGCTTTCCACTATCTTGGAAAGATAAGATTTGTCGTCTTTGATCTGCTCCACTACTG
131 CTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGTCGTCTTTGATCTGCTCCACTACTA
* *
256028 CTTAGGGAGATAAGATCTACAATTTTCAACC-TACTCCACTGCTGCTCAGGGAGACAAGGCTTGG
196 CTTAGGGAGATAAAATCTACAATCTTCAACCTTA-TCCACTGCTGCTCAGGGAGACAAGGCTTGG
256092 TGGCTT
260 TGGCTT
* *
256098 TAAATCTGCTACCCACTATCTTAAAAAGATAAGATTTGTCATCTTTGATCTGCTCCACTACTGCT
1 TAAATCTGCTACCCACTATCTTAAAAAGATAAGATTTGCCATCTTCGATCTGCTCCACTACTGCT
*
256163 TAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTTGTGG
66 TAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGG
* * *
256228 CTTTAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGTCGTCTTTTATCTGTTCCACTACTA
131 CTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGTCGTCTTTGATCTGCTCCACTACTA
*
256293 CTTAGGGAGATAAAATCTACAATCTTCAACCTTATCCGCTGCTGCTCAGGGAGACAAGGCTTGGT
196 CTTAGGGAGATAAAATCTACAATCTTCAACCTTATCCACTGCTGCTCAGGGAGACAAGGCTTGGT
256358 G
261 G
256359 TTTCACCGGT
Statistics
Matches: 245, Mismatches: 15, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
265 243 0.99
266 2 0.01
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.31
Consensus pattern (265 bp):
TAAATCTGCTACCCACTATCTTAAAAAGATAAGATTTGCCATCTTCGATCTGCTCCACTACTGCT
TAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGG
CTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGTCGTCTTTGATCTGCTCCACTACTA
CTTAGGGAGATAAAATCTACAATCTTCAACCTTATCCACTGCTGCTCAGGGAGACAAGGCTTGGT
GGCTT
Found at i:270199 original size:28 final size:28
Alignment explanation
Indices: 270156--270215 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
270146 TAATCCAAAC
* * *
270156 AAAACATAAACGTAAAACAACTCTCTAT
1 AAAACATAAACATAAAACAACTCCCAAT
*
270184 AAAACATAACCATAAAACAACTCCCAAT
1 AAAACATAAACATAAAACAACTCCCAAT
270212 AAAA
1 AAAA
270216 ATGAAAGCCA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.58, C:0.23, G:0.02, T:0.17
Consensus pattern (28 bp):
AAAACATAAACATAAAACAACTCCCAAT
Found at i:272586 original size:26 final size:26
Alignment explanation
Indices: 272534--272619 Score: 95
Period size: 26 Copynumber: 3.3 Consensus size: 26
272524 GTACATAGTA
* *
272534 CCTGCTAAATAAAACACCG-CCACAAAG
1 CCTGCTAAAT-ATACACCGACTA-AAAG
*
272561 CCTGCTAAATATACACCGACTTAAAG
1 CCTGCTAAATATACACCGACTAAAAG
*
272587 CCTGCTAAATATACACTGA-TAAAAAG
1 CCTGCTAAATATACACCGACT-AAAAG
272613 CCTGCTA
1 CCTGCTA
272620 CACCCTAATG
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
25 1 0.02
26 40 0.77
27 11 0.21
ACGTcount: A:0.41, C:0.28, G:0.12, T:0.20
Consensus pattern (26 bp):
CCTGCTAAATATACACCGACTAAAAG
Found at i:272929 original size:18 final size:18
Alignment explanation
Indices: 272899--272933 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
272889 TTTCTTGATC
272899 TAAATATAATAATTTAAT
1 TAAATATAATAATTTAAT
272917 TAAAT-TAACTAATTTAA
1 TAAATATAA-TAATTTAA
272934 ACATATTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 3 0.19
18 13 0.81
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (18 bp):
TAAATATAATAATTTAAT
Found at i:274389 original size:17 final size:18
Alignment explanation
Indices: 274367--274405 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
274357 AGAGAAAACA
*
274367 AAAATG-AAACTATAATT
1 AAAATGAAAACTATAAAT
274384 AAAATGTAAAACTATAAAT
1 AAAATG-AAAACTATAAAT
274403 AAA
1 AAA
274406 TAAGGTGCCC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 6 0.32
19 13 0.68
ACGTcount: A:0.64, C:0.05, G:0.05, T:0.26
Consensus pattern (18 bp):
AAAATGAAAACTATAAAT
Found at i:278268 original size:33 final size:32
Alignment explanation
Indices: 278220--278377 Score: 127
Period size: 33 Copynumber: 4.8 Consensus size: 32
278210 TTTGTAGTGC
* *
278220 CATAACCCAGTTATGGTCTTATCATCAAAATGT
1 CATAGCCCAGCTATGGTCTTA-CATCAAAATGT
*
278253 CATAGCCCAGCTATGGTCTTACATATAAACACTGT
1 CATAGCCCAGCTATGGTCTTACAT-CAAA-A-TGT
** * * * * * *
278288 CACGGTCCAACCATGGTCTTACATTCATAGTGC
1 CATAGCCCAGCTATGGTCTTACA-TCAAAATGT
* ** *
278321 CATAACCCAATTATGGTCTTATCATCAGAATGT
1 CATAGCCCAGCTATGGTCTTA-CATCAAAATGT
278354 CATAGCCCAGCTATGGTCTTACAT
1 CATAGCCCAGCTATGGTCTTACAT
278378 ATAAATACTG
Statistics
Matches: 96, Mismatches: 24, Indels: 11
0.73 0.18 0.08
Matches are distributed among these distances:
32 6 0.06
33 63 0.66
34 3 0.03
35 23 0.24
36 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (32 bp):
CATAGCCCAGCTATGGTCTTACATCAAAATGT
Found at i:278380 original size:101 final size:101
Alignment explanation
Indices: 278205--278444 Score: 390
Period size: 101 Copynumber: 2.4 Consensus size: 101
278195 AATTCATCAT
** *
278205 TTACATTTGTAGTGCCATAACCCAGTTATGGTCTTATCATCAAAATGTCATAGCCCAGCTATGGT
1 TTACATTCATAGTGCCATAACCCAATTATGGTCTTATCATCAAAATGTCATAGCCCAGCTATGGT
*
278270 CTTACATATAAACACTGTCACGGTCCAACCATGGTC
66 CTTACATATAAACACTGCCACGGTCCAACCATGGTC
*
278306 TTACATTCATAGTGCCATAACCCAATTATGGTCTTATCATCAGAATGTCATAGCCCAGCTATGGT
1 TTACATTCATAGTGCCATAACCCAATTATGGTCTTATCATCAAAATGTCATAGCCCAGCTATGGT
* * *
278371 CTTACATATAAATACTGCCATGGTCCAACCATTGTC
66 CTTACATATAAACACTGCCACGGTCCAACCATGGTC
* *
278407 TTACGTTCATAGTGTCATAACCCAATTATGGTCTTATC
1 TTACATTCATAGTGCCATAACCCAATTATGGTCTTATC
278445 CGTCAATTCA
Statistics
Matches: 129, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
101 129 1.00
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.33
Consensus pattern (101 bp):
TTACATTCATAGTGCCATAACCCAATTATGGTCTTATCATCAAAATGTCATAGCCCAGCTATGGT
CTTACATATAAACACTGCCACGGTCCAACCATGGTC
Found at i:278841 original size:19 final size:20
Alignment explanation
Indices: 278803--278841 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
278793 TACAAATTCT
*
278803 TTTAAATTCAATTTGTCTTA
1 TTTAAATTCAATTTGACTTA
*
278823 TTTAATTTCAATTT-ACTTA
1 TTTAAATTCAATTTGACTTA
278842 CCATTTTGCC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.31, C:0.10, G:0.03, T:0.56
Consensus pattern (20 bp):
TTTAAATTCAATTTGACTTA
Found at i:279592 original size:15 final size:15
Alignment explanation
Indices: 279572--279601 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
279562 GAAATAGATT
*
279572 TTTATTTTATTTATA
1 TTTATTATATTTATA
279587 TTTATTATATTTATA
1 TTTATTATATTTATA
279602 AATATAAACT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
TTTATTATATTTATA
Found at i:281803 original size:29 final size:29
Alignment explanation
Indices: 281732--281811 Score: 98
Period size: 28 Copynumber: 2.9 Consensus size: 29
281722 TAGCAATTAA
281732 TTATT-TTTTTAAAAATTTAAAAATATTT
1 TTATTATTTTTAAAAATTTAAAAATATTT
*
281760 TTATTATTTTT--AAATTTATATAAT-TATT
1 TTATTATTTTTAAAAATTTA-AAAATAT-TT
281788 TT-TTATTTTTAAAAATTTAAAAAT
1 TTATTATTTTTAAAAATTTAAAAAT
281812 TAATTAATTG
Statistics
Matches: 45, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
27 16 0.36
28 17 0.38
29 12 0.27
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (29 bp):
TTATTATTTTTAAAAATTTAAAAATATTT
Found at i:282093 original size:23 final size:25
Alignment explanation
Indices: 282046--282093 Score: 73
Period size: 23 Copynumber: 2.0 Consensus size: 25
282036 GTGGTGAATC
*
282046 TTTAATAAATTGAAATATTAAACTG
1 TTTAATAAATTAAAATATTAAACTG
282071 TTTAAT-AATTAAAAT-TTAAACTG
1 TTTAATAAATTAAAATATTAAACTG
282094 ATAAAATATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 8 0.36
24 8 0.36
25 6 0.27
ACGTcount: A:0.48, C:0.04, G:0.06, T:0.42
Consensus pattern (25 bp):
TTTAATAAATTAAAATATTAAACTG
Found at i:287711 original size:2 final size:2
Alignment explanation
Indices: 287704--287738 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
287694 AATATGCGCA
287704 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
287739 AATTGAAATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:291001 original size:18 final size:19
Alignment explanation
Indices: 290964--291005 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
290954 TGAGATTGCA
*
290964 AAATAAAATTAAGTGAATT
1 AAATAAAATTAAGGGAATT
*
290983 AAATCAAATT-AGGGAATT
1 AAATAAAATTAAGGGAATT
291001 AAATA
1 AAATA
291006 TATTAAAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
18 11 0.55
19 9 0.45
ACGTcount: A:0.57, C:0.02, G:0.12, T:0.29
Consensus pattern (19 bp):
AAATAAAATTAAGGGAATT
Found at i:291847 original size:14 final size:14
Alignment explanation
Indices: 291830--291861 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
291820 AAATATCAAC
*
291830 TAAAAATTAAAATT
1 TAAAAATCAAAATT
291844 TAAAAATCAAAATT
1 TAAAAATCAAAATT
291858 TAAA
1 TAAA
291862 CTAAGGATCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (14 bp):
TAAAAATCAAAATT
Found at i:292521 original size:91 final size:91
Alignment explanation
Indices: 292393--292559 Score: 255
Period size: 91 Copynumber: 1.8 Consensus size: 91
292383 TTATATATTT
* * *
292393 GAGACATAGTCAAATCTTTTTATACGACATGAGATGACAACCCAAGCACCTTACCTCAGTTACTC
1 GAGACATAGTCAAATCTTTTTACACGAAATGAGATGACAACCCAAGCACCTCACCTC-GTTACTC
*
292458 GATTCGACATGTTTTTTTAACAAATCC
65 AATTCGACATGTTTTTTTAACAAATCC
* *
292485 GAGACATAGTCAAATC-TTTTACGCGAAATGAGATGACAACTCAAGCACCTCACCTCGTTACTCA
1 GAGACATAGTCAAATCTTTTTACACGAAATGAGATGACAACCCAAGCACCTCACCTCGTTACTCA
*
292549 ATTTGACATGT
66 ATTCGACATGT
292560 CTCTAATCAA
Statistics
Matches: 68, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
90 17 0.25
91 35 0.51
92 16 0.24
ACGTcount: A:0.33, C:0.24, G:0.14, T:0.29
Consensus pattern (91 bp):
GAGACATAGTCAAATCTTTTTACACGAAATGAGATGACAACCCAAGCACCTCACCTCGTTACTCA
ATTCGACATGTTTTTTTAACAAATCC
Found at i:292750 original size:4 final size:4
Alignment explanation
Indices: 292741--292765 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
292731 GCAGATTTTC
292741 ATTT ATTT ATTT ATTT ATTT ATTT A
1 ATTT ATTT ATTT ATTT ATTT ATTT A
292766 AATGAGTACT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (4 bp):
ATTT
Found at i:297978 original size:17 final size:17
Alignment explanation
Indices: 297958--297995 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
297948 TATTATCCAT
*
297958 AATTAAT-TTTTAAGATA
1 AATTAATGTTTGAA-ATA
297975 AATTAATGTTTGAAATA
1 AATTAATGTTTGAAATA
297992 AATT
1 AATT
297996 TAATAAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 14 0.74
18 5 0.26
ACGTcount: A:0.47, C:0.00, G:0.08, T:0.45
Consensus pattern (17 bp):
AATTAATGTTTGAAATA
Found at i:299973 original size:12 final size:13
Alignment explanation
Indices: 299952--299980 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
299942 AATAAACGTT
299952 TAAATAAAATAAA
1 TAAATAAAATAAA
299965 TAAAT-AAATAAA
1 TAAATAAAATAAA
299977 TAAA
1 TAAA
299981 AATTCAATCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (13 bp):
TAAATAAAATAAA
Found at i:308780 original size:101 final size:101
Alignment explanation
Indices: 308601--308828 Score: 262
Period size: 101 Copynumber: 2.3 Consensus size: 101
308591 AATTGACGGA
* * *** *
308601 TAAGACCATGGTTGGACCATGGCAATGTTTATTTGTAAGACCATAGCTGGGCCATGGCATTTTAA
1 TAAGACCATGGTTGGACCATGACAATATTTATAAATAAGACCATAGCTGGGCCATGGCATTTAAA
* **
308666 TGAAAAGAACATAACTGGGTTAA-AGCACTTTGAACG
66 TGAAAAGAACATAACTAGGTTAAGA-CACTACGAACG
* *
308702 TAAGACCATGGTTGGACCATGACAATATTTATAAATAAGACCATGGCTGGGCTATGGCA-TTAAG
1 TAAGACCATGGTTGGACCATGACAATATTTATAAATAAGACCATAGCTGGGCCATGGCATTTAA-
* * * **
308766 ATGATAAGACCATAACTAGGTTATGACACTACGAATT
65 ATGAAAAGAACATAACTAGGTTAAGACACTACGAACG
* *
308803 TAAGACCATGGCTGGGCCATGACAAT
1 TAAGACCATGGTTGGACCATGACAAT
308829 GCATGTGTAA
Statistics
Matches: 107, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
100 3 0.03
101 103 0.96
102 1 0.01
ACGTcount: A:0.34, C:0.17, G:0.23, T:0.26
Consensus pattern (101 bp):
TAAGACCATGGTTGGACCATGACAATATTTATAAATAAGACCATAGCTGGGCCATGGCATTTAAA
TGAAAAGAACATAACTAGGTTAAGACACTACGAACG
Found at i:314444 original size:82 final size:82
Alignment explanation
Indices: 314304--314458 Score: 201
Period size: 82 Copynumber: 1.9 Consensus size: 82
314294 ATTGAAATGT
* *
314304 TCAGGTTTAAAACCTAGCAGGCTTAAGGCCGGTGAAATAATTCGGACTTTAAGTCTAGCAGGCTA
1 TCAGGTTTAAAACCTAGCAGGCTTAAGGCCGGTGAAATAATTCGGACTATAAGCCTAGCAGGCTA
314369 AGTGCCGGCGATCTGAA
66 AGTGCCGGCGATCTGAA
**
314386 TCAGG-TTATAAACCTAGCAGGC-TAAGTGCCGGTGATCTGAA-TCAGG-CTATAAGCCTAGCAG
1 TCAGGTTTA-AAACCTAGCAGGCTTAAG-GCCGGTGAAAT-AATTC-GGACTATAAGCCTAGCAG
*
314447 GCTAATTGCCGG
62 GCTAAGTGCCGG
314459 TGAATATGTT
Statistics
Matches: 64, Mismatches: 5, Indels: 8
0.83 0.06 0.10
Matches are distributed among these distances:
81 7 0.11
82 53 0.83
83 4 0.06
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.24
Consensus pattern (82 bp):
TCAGGTTTAAAACCTAGCAGGCTTAAGGCCGGTGAAATAATTCGGACTATAAGCCTAGCAGGCTA
AGTGCCGGCGATCTGAA
Found at i:314459 original size:41 final size:41
Alignment explanation
Indices: 314353--314461 Score: 173
Period size: 41 Copynumber: 2.7 Consensus size: 41
314343 ATTCGGACTT
* * *
314353 TAAGTCTAGCAGGCTAAGTGCCGGCGATCTGAATCAGGTTA
1 TAAGCCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTA
*
314394 TAAACCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTA
1 TAAGCCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTA
*
314435 TAAGCCTAGCAGGCTAATTGCCGGTGA
1 TAAGCCTAGCAGGCTAAGTGCCGGTGA
314462 ATATGTTAAA
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 62 1.00
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (41 bp):
TAAGCCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTA
Found at i:317335 original size:9 final size:9
Alignment explanation
Indices: 317305--317335 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
317295 TCAAGCCCTC
317305 TTTTCTTCT
1 TTTTCTTCT
*
317314 TCTTCTTCT
1 TTTTCTTCT
317323 TTTTCTTCT
1 TTTTCTTCT
317332 TTTT
1 TTTT
317336 TTTAGAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (9 bp):
TTTTCTTCT
Found at i:321331 original size:88 final size:88
Alignment explanation
Indices: 321218--321700 Score: 750
Period size: 88 Copynumber: 5.5 Consensus size: 88
321208 AAGACTGATG
* * * *
321218 TCTTCGATCTGCTTCACTGCCAGTACAGGAAGGCAAGATCTGCCATTTTCGACCTACTCCACTGC
1 TCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCCATTTTCAACCTACTCCACTAC
321283 TGCCCAGGGAGACAAGGCTGGTA
66 TGCCCAGGGAGACAAGGCTGGTA
* * * * *
321306 TCTTCGATCTGCTTCGTTGTTAGTACAGGAAGGCAAGATCTGTCATTTTCAACCTGCTCCGCTAC
1 TCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCCATTTTCAACCTACTCCACTAC
*
321371 TGCTCAGGGAGACAAGGCTGGTA
66 TGCCCAGGGAGACAAGGCTGGTA
* * *
321394 TCTTCGATCTACTTCTCTGTCAGTACAGGAAGGCAAGATCTGCTATTTTCAACCTACTCCACTAC
1 TCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCCATTTTCAACCTACTCCACTAC
321459 TGCCCAGGGAGACAAGGCTGGTA
66 TGCCCAGGGAGACAAGGCTGGTA
* * * * *
321482 TCTTTGATCTGTTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATTTTCAACCTGCTCCGCTAC
1 TCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCCATTTTCAACCTACTCCACTAC
*
321547 TGTCCAGGGAGACAAGGCTGGTA
66 TGCCCAGGGAGACAAGGCTGGTA
* * * *
321570 TCTTCGATCTTCTTCTCTGTCAGTATAGGAAGGCAAGATCTGTCATTTTCAACCTACTCCACTAC
1 TCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCCATTTTCAACCTACTCCACTAC
321635 TGCCCAGGGAGACAAGGCTGGTA
66 TGCCCAGGGAGACAAGGCTGGTA
*
321658 TCTTCGATTTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGC
1 TCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGC
321701 TCTCTTCAGT
Statistics
Matches: 354, Mismatches: 41, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
88 354 1.00
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (88 bp):
TCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCCATTTTCAACCTACTCCACTAC
TGCCCAGGGAGACAAGGCTGGTA
Found at i:323003 original size:21 final size:20
Alignment explanation
Indices: 322975--323019 Score: 63
Period size: 21 Copynumber: 2.2 Consensus size: 20
322965 GCCTCTCCAC
322975 TTTTATTTTTCCATTTTCAT
1 TTTTATTTTTCCATTTTCAT
**
322995 TTTTCATTTTTTTATTTTCAT
1 TTTT-ATTTTTCCATTTTCAT
323016 TTTT
1 TTTT
323020 TCACATATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 4 0.18
21 18 0.82
ACGTcount: A:0.13, C:0.11, G:0.00, T:0.76
Consensus pattern (20 bp):
TTTTATTTTTCCATTTTCAT
Found at i:323552 original size:12 final size:11
Alignment explanation
Indices: 323525--323581 Score: 69
Period size: 12 Copynumber: 4.9 Consensus size: 11
323515 CCGGTAGAGG
323525 TTTTTTTGTTTC
1 TTTTTTT-TTTC
*
323537 TTTTTGTTTTTG
1 TTTTT-TTTTTC
*
323549 TTTTTTTGTTC
1 TTTTTTTTTTC
323560 TTTTTTTTTCTC
1 TTTTTTTTT-TC
323572 TTTTTTTTTT
1 TTTTTTTTTT
323582 GCATTGAATT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
11 13 0.33
12 24 0.62
13 2 0.05
ACGTcount: A:0.00, C:0.07, G:0.07, T:0.86
Consensus pattern (11 bp):
TTTTTTTTTTC
Found at i:323579 original size:24 final size:24
Alignment explanation
Indices: 323524--323578 Score: 78
Period size: 23 Copynumber: 2.3 Consensus size: 24
323514 CCCGGTAGAG
323524 GTTTTTTTGTTTCTTTTTGTTTTT
1 GTTTTTTTGTTTCTTTTTGTTTTT
323548 GTTTTTTTG-TTCTTTTT-TTTTCT
1 GTTTTTTTGTTTCTTTTTGTTTT-T
*
323571 CTTTTTTT
1 GTTTTTTT
323579 TTTGCATTGA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
22 4 0.14
23 16 0.55
24 9 0.31
ACGTcount: A:0.00, C:0.07, G:0.09, T:0.84
Consensus pattern (24 bp):
GTTTTTTTGTTTCTTTTTGTTTTT
Done.