Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 739 of 770
Found at i:234039685 original size:35 final size:35
Alignment explanation
Indices: 234039646--234039718 Score: 146
Period size: 35 Copynumber: 2.1 Consensus size: 35
234039636 ACACATTCTT
234039646 TATTCTCGTCAGATCAATCTCACATAAATAATATA
1 TATTCTCGTCAGATCAATCTCACATAAATAATATA
234039681 TATTCTCGTCAGATCAATCTCACATAAATAATATA
1 TATTCTCGTCAGATCAATCTCACATAAATAATATA
234039716 TAT
1 TAT
234039719 ATCACATACC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.40, C:0.19, G:0.05, T:0.36
Consensus pattern (35 bp):
TATTCTCGTCAGATCAATCTCACATAAATAATATA
Found at i:234044704 original size:28 final size:28
Alignment explanation
Indices: 234044639--234044739 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
234044629 ATAGTGAATC
*
234044639 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
234044668 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
234044696 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
234044726 CGCACACTTAGTGC
1 CGCACACTTAGTGC
234044740 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:234052652 original size:28 final size:28
Alignment explanation
Indices: 234052587--234052687 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
234052577 ATAGTGAATC
*
234052587 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
234052616 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
234052644 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
234052674 CGCACACTTAGTGC
1 CGCACACTTAGTGC
234052688 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:234061332 original size:9 final size:9
Alignment explanation
Indices: 234061320--234061376 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
234061310 TTTGATAAAC
234061320 ATGATATGT
1 ATGATATGT
*
234061329 ATGATATGCAC
1 ATGATATG--T
*
234061340 ATGACATGT
1 ATGATATGT
*
234061349 ATGATATGCAC
1 ATGATATG--T
234061360 ATGATATGT
1 ATGATATGT
234061369 ATGATATG
1 ATGATATG
234061377 CACATGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:234061343 original size:20 final size:20
Alignment explanation
Indices: 234061318--234061388 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
234061308 ATTTTGATAA
234061318 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
234061338 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
234061358 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
234061378 ACATGAGATGT
1 ACATGATATGT
234061389 TCATAAATGC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:234061365 original size:11 final size:11
Alignment explanation
Indices: 234061329--234061383 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
234061319 CATGATATGT
234061329 ATGATATGCAC
1 ATGATATGCAC
* *
234061340 ATGACATG--T
1 ATGATATGCAC
234061349 ATGATATGCAC
1 ATGATATGCAC
*
234061360 ATGATATG--T
1 ATGATATGCAC
234061369 ATGATATGCAC
1 ATGATATGCAC
234061380 ATGA
1 ATGA
234061384 GATGTTCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:234061458 original size:23 final size:23
Alignment explanation
Indices: 234061432--234061595 Score: 269
Period size: 23 Copynumber: 7.1 Consensus size: 23
234061422 AGGAAGTGCA
234061432 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
234061455 AAAGGGCTTATG-CCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
*
234061478 AAAGGGCTTATGCCCCAGTTATC
1 AAAGGGCTTATGCCCCAGTTATT
234061501 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
234061524 AAAGGGCTTATG-CCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
234061546 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
234061569 AAAAGGGCTTTTGCCCCAGTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
234061593 AAA
1 AAA
234061596 AGAGGCTAGG
Statistics
Matches: 133, Mismatches: 4, Indels: 8
0.92 0.03 0.06
Matches are distributed among these distances:
22 31 0.23
23 71 0.53
24 31 0.23
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.29
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:234061842 original size:31 final size:30
Alignment explanation
Indices: 234061807--234061891 Score: 102
Period size: 31 Copynumber: 2.7 Consensus size: 30
234061797 CGTTTACAGT
234061807 AAAGGCTTCGGCCCAGTAATATGAAACT-TGA
1 AAAGGCTTCGGCCCAGT-ATATGAAA-TATGA
*
234061838 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGT-ATATGAAATATGA
234061869 AAAGGGCTAT-GGCCCAGTATATG
1 AAA-GGCT-TCGGCCCAGTATATG
234061892 TTTGAGATTG
Statistics
Matches: 48, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
30 1 0.02
31 34 0.71
32 12 0.25
33 1 0.02
ACGTcount: A:0.33, C:0.18, G:0.26, T:0.24
Consensus pattern (30 bp):
AAAGGCTTCGGCCCAGTATATGAAATATGA
Found at i:234065251 original size:39 final size:39
Alignment explanation
Indices: 234065195--234065376 Score: 230
Period size: 40 Copynumber: 4.7 Consensus size: 39
234065185 TCGAATGATG
* *
234065195 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA
*
234065234 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA
234065273 TTCC-GGCTAAG-CCCGAAGGCA-TTGTGCGAGTTACTAAA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AA
*
234065311 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-A
* *
234065351 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
234065377 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 8, Indels: 17
0.83 0.05 0.11
Matches are distributed among these distances:
37 17 0.13
38 17 0.13
39 43 0.34
40 49 0.39
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
Found at i:234065334 original size:77 final size:79
Alignment explanation
Indices: 234065196--234065374 Score: 233
Period size: 77 Copynumber: 2.3 Consensus size: 79
234065186 CGAATGATGT
*
234065196 CCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAATCCGGACTAAGATCCGAAGGCATTTGT
1 CCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAATCCGGACTAAGATCCGAAGGCATTTGT
*
234065261 GCGAGTTACTA-ATT
66 GCGAGTTACTATA-A
* * **
234065275 CC-GGCTAAG-CCCGAAGGCATTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACT-AATCCGGACTAAGAT-CCGAAGGCATTT
234065336 GTGCGAGTTACTATAA
64 GTGCGAGTTACTATAA
*
234065352 CCGGGCTATGTCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATT
234065375 TGAACGAGTA
Statistics
Matches: 88, Mismatches: 7, Indels: 10
0.84 0.07 0.10
Matches are distributed among these distances:
76 7 0.08
77 53 0.60
78 14 0.16
79 14 0.16
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAATCCGGACTAAGATCCGAAGGCATTTGT
GCGAGTTACTATAA
Found at i:234073263 original size:40 final size:40
Alignment explanation
Indices: 234073206--234073388 Score: 243
Period size: 40 Copynumber: 4.7 Consensus size: 40
234073196 TCGAATGATG
* *
234073206 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
234073246 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
234073286 TCC-GGCTAAG-CCCGAAGGCA-TTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
234073323 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
234073364 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
234073389 AACGAGTAGC
Statistics
Matches: 127, Mismatches: 9, Indels: 14
0.85 0.06 0.09
Matches are distributed among these distances:
37 19 0.15
38 15 0.12
39 16 0.13
40 67 0.53
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:234073340 original size:77 final size:80
Alignment explanation
Indices: 234073207--234073386 Score: 244
Period size: 77 Copynumber: 2.3 Consensus size: 80
234073197 CGAATGATGT
*
234073207 CCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTTG
*
234073272 TGCGAGTTACTA-ATT
66 TGCGAGTTACTATA-A
* * **
234073287 CC-GGCTAAG-CCCGAAGGCATTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCATTT
234073348 GTGCGAGTTACTATAA
65 GTGCGAGTTACTATAA
*
234073364 CCGGGCTATGTCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATT
234073387 TGAACGAGTA
Statistics
Matches: 89, Mismatches: 7, Indels: 9
0.85 0.07 0.09
Matches are distributed among these distances:
76 1 0.01
77 45 0.51
78 22 0.25
79 19 0.21
80 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTTG
TGCGAGTTACTATAA
Found at i:234081279 original size:40 final size:40
Alignment explanation
Indices: 234081222--234081405 Score: 252
Period size: 40 Copynumber: 4.7 Consensus size: 40
234081212 TCGAATGATG
* *
234081222 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
234081262 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
234081302 TCCGGGCTAAG-CCCGAAGGCA-TTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
234081340 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
234081381 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
234081406 AACGAGTAGC
Statistics
Matches: 129, Mismatches: 9, Indels: 12
0.86 0.06 0.08
Matches are distributed among these distances:
38 26 0.20
39 19 0.15
40 74 0.57
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:234081357 original size:78 final size:80
Alignment explanation
Indices: 234081222--234081403 Score: 255
Period size: 78 Copynumber: 2.3 Consensus size: 80
234081212 TCGAATGATG
*
234081222 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
234081287 GTGCGAGTTACTA-A
66 GTGCGAGTTACTATA
* * **
234081301 TTCCGGGCTAAG-CCCGAAGGCATTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 -TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCAT
234081363 TTGTGCGAGTTACTATA
64 TTGTGCGAGTTACTATA
* *
234081380 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
234081404 TGAACGAGTA
Statistics
Matches: 92, Mismatches: 7, Indels: 7
0.87 0.07 0.07
Matches are distributed among these distances:
77 1 0.01
78 52 0.57
79 28 0.30
80 11 0.12
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGTTACTATA
Found at i:234083866 original size:41 final size:42
Alignment explanation
Indices: 234083821--234083911 Score: 139
Period size: 41 Copynumber: 2.2 Consensus size: 42
234083811 TGGCCCATAG
* **
234083821 GCCCATTTCAATATCACATGTAATGTCAATG-ATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
*
234083862 GCCCATTTCAATATCATATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
234083904 GCCCATTT
1 GCCCATTT
234083912 GGGGAGACTA
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
41 27 0.60
42 18 0.40
ACGTcount: A:0.35, C:0.21, G:0.13, T:0.31
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:234084123 original size:26 final size:25
Alignment explanation
Indices: 234084055--234084144 Score: 137
Period size: 26 Copynumber: 3.6 Consensus size: 25
234084045 CCTCTTTAAT
234084055 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
**
234084080 AACT-GGGCAAAGCCCTTTTCAATA
1 AACTGGGGCAAAGCCCTTTTCGGTA
234084104 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCA-AAGCCCTTTTCGGTA
234084130 AACTGGGGCATAAGC
1 AACTGGGGCA-AAGC
234084145 TGTAACACCC
Statistics
Matches: 59, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
24 22 0.37
25 9 0.15
26 28 0.47
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGGTA
Found at i:234085556 original size:40 final size:40
Alignment explanation
Indices: 234085511--234085684 Score: 174
Period size: 40 Copynumber: 4.3 Consensus size: 40
234085501 CGGAATATAA
234085511 CCGGATATATTCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATATTCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
234085551 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATTCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
234085591 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATATTCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
234085631 CCGGATATAATTTC-C-AGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATAT-A-TTCACTAGCACAAATGCCTTCGGGTCTTAGC
234085671 CCGGATATCATTCA
1 CCGGATAT-ATTCA
234085685 ATTTGTCATG
Statistics
Matches: 111, Mismatches: 19, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
39 4 0.04
40 104 0.94
41 2 0.02
42 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (40 bp):
CCGGATATATTCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:234085661 original size:80 final size:80
Alignment explanation
Indices: 234085527--234085678 Score: 200
Period size: 80 Copynumber: 1.9 Consensus size: 80
234085517 ATATTCACGT
* *
234085527 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGGCTTAGCC
234085592 CGGATATAGCCACTA
66 CGGATATAGCCACTA
* * ** * *
234085607 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGGCTTAG
234085670 CCCGGATAT
64 CCCGGATAT
234085679 CATTCAATTT
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
79 3 0.05
80 59 0.95
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATATAGCCACTA
Found at i:234096359 original size:40 final size:39
Alignment explanation
Indices: 234096194--234096377 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
234096184 AAATTGAATG
* * *
234096194 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
234096234 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
234096274 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
234096314 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
234096353 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
234096378 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:234096402 original size:80 final size:81
Alignment explanation
Indices: 234096234--234096422 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
234096224 GCTGGAAATT
* * * *
234096234 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
234096299 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
234096315 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
234096378 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
234096394 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
234096423 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:234098205 original size:29 final size:29
Alignment explanation
Indices: 234098172--234098236 Score: 121
Period size: 29 Copynumber: 2.2 Consensus size: 29
234098162 GTGACGAGAT
234098172 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
234098201 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
234098230 CGGCACT
1 TGGCACT
234098237 GGGTGTGCGA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:234108702 original size:66 final size:66
Alignment explanation
Indices: 234108580--234108709 Score: 179
Period size: 66 Copynumber: 2.0 Consensus size: 66
234108570 TCTGTGTATG
* * * *
234108580 TCAAATAACTAGGATGTTATGATCGAGATGAATCAAGTGCTCCTAGCTAAACGTGTTATGAATGG
1 TCAAATAACTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAAACGTGTTATGAATGG
234108645 A
66 A
* * * * *
234108646 TCAAATAACTAGGATGCTATGATTGAAATGAATCAAATGCTCTTAATTAGATGTGTTATGAATG
1 TCAAATAACTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAAACGTGTTATGAATG
234108710 ATGTATGAAT
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
66 55 1.00
ACGTcount: A:0.36, C:0.12, G:0.21, T:0.32
Consensus pattern (66 bp):
TCAAATAACTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAAACGTGTTATGAATGG
A
Found at i:234128685 original size:40 final size:39
Alignment explanation
Indices: 234128641--234128860 Score: 273
Period size: 40 Copynumber: 5.6 Consensus size: 39
234128631 GCCACTAGCT
*
234128641 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAACTCGCA
*
234128681 CAAATGCCTTCGGGACTTAGCCCGGTATAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTATAGTAACTCGCA
* *
234128720 CAAATGCCTTCGGGACTTAGCCCGGATATAATAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAACTCGCA
* *
234128760 CAAACGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAACTCGCA
* * ** * *
234128800 CGAATGCCTTC-GGACTTAGCCCGGAATTAGCCACTAGCT
1 CAAATGCCTTCGGGACTTAGCCCGGTA-TAGTAACTCGCA
234128839 CAAATG-CTCTCGGGACTTAGCC
1 CAAATGCCT-TCGGGACTTAGCC
234128861 GGTTATCATC
Statistics
Matches: 162, Mismatches: 14, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
38 3 0.02
39 64 0.40
40 95 0.59
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGTATAGTAACTCGCA
Found at i:234128726 original size:39 final size:40
Alignment explanation
Indices: 234128641--234128824 Score: 282
Period size: 40 Copynumber: 4.7 Consensus size: 40
234128631 GCCACTAGCT
* * *
234128641 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCA
234128681 CAAATGCCTTCGGGACTTAGCCCGG-TATAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCA
*
234128720 CAAATGCCTTCGGGACTTAGCCCGGATATAATAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCA
* * *
234128760 CAAACGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCA
*
234128800 CGAATGCCTTC-GGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
234128825 ATTAGCCACT
Statistics
Matches: 136, Mismatches: 7, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
39 51 0.38
40 85 0.62
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCA
Found at i:234128761 original size:79 final size:80
Alignment explanation
Indices: 234128641--234128824 Score: 282
Period size: 79 Copynumber: 2.3 Consensus size: 80
234128631 GCCACTAGCT
* * * *
234128641 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCACAAACGCCTTCGGGACTTAGCCCGG
234128706 -TATAATAACTCGCA
66 ATATAATAACTCGCA
*
234128720 CAAATGCCTTCGGGACTTAGCCCGGATATAATAGCTCGCACAAACGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCACAAACGCCTTCGGGACTTAGCCCGG
* *
234128785 ATATAGTAGCTCGCA
66 ATATAATAACTCGCA
*
234128800 CGAATGCCTTC-GGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
234128825 ATTAGCCACT
Statistics
Matches: 96, Mismatches: 8, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
79 74 0.77
80 22 0.23
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCACAAACGCCTTCGGGACTTAGCCCGG
ATATAATAACTCGCA
Found at i:234128843 original size:119 final size:119
Alignment explanation
Indices: 234128641--234128860 Score: 309
Period size: 119 Copynumber: 1.8 Consensus size: 119
234128631 GCCACTAGCT
* * *
234128641 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGG
1 CAAACGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
* * *
234128706 TATAATAACTCGCACAAATGC-CTTCGGGACTTAGCCCGGATATAATAGCTCGCA
66 AATAACAACTAGCACAAATGCTC-TCGGGACTTAGCCCGGATATAATAGCTCGCA
* *
234128760 CAAACGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACGAATGCCTTC-GGACTTAGCCCGG
1 CAAACGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
* * *
234128824 AATTAGCCACTAGCTCAAATGCTCTCGGGACTTAGCC
66 AA-TAACAACTAGCACAAATGCTCTCGGGACTTAGCC
234128861 GGTTATCATC
Statistics
Matches: 88, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
118 14 0.16
119 73 0.83
120 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (119 bp):
CAAACGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
AATAACAACTAGCACAAATGCTCTCGGGACTTAGCCCGGATATAATAGCTCGCA
Found at i:234128852 original size:79 final size:78
Alignment explanation
Indices: 234128641--234128860 Score: 261
Period size: 79 Copynumber: 2.8 Consensus size: 78
234128631 GCCACTAGCT
* *
234128641 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAG--ACTAGCACAAATGCCTTCGGGACTTAGCCCG
234128705 GTATAATAACTCGCA
64 GTATAATAACTCGCA
* *
234128720 CAAATGCCTTCGGGACTTAGCCCGGATATAATAG-CTCGCACAAACGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCGGA-AT-ATAGACTAGCACAAATGCCTTCGGGACTTAGCCCG
* *
234128784 GATATAGTAGCTCGCA
64 G-TATAATAACTCGCA
* *
234128800 CGAATGCCTTC-GGACTTAGCCCGGAAT-TAGCCACTAGCTCAAATG-CTCTCGGGACTTAGCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAG--ACTAGCACAAATGCCT-TCGGGACTTAGCC
234128861 GGTTATCATC
Statistics
Matches: 124, Mismatches: 9, Indels: 16
0.83 0.06 0.11
Matches are distributed among these distances:
76 3 0.02
78 4 0.03
79 90 0.73
80 22 0.18
81 1 0.01
82 4 0.03
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (78 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGACTAGCACAAATGCCTTCGGGACTTAGCCCGGT
ATAATAACTCGCA
Found at i:234136849 original size:40 final size:39
Alignment explanation
Indices: 234136805--234137024 Score: 273
Period size: 40 Copynumber: 5.6 Consensus size: 39
234136795 GCCACTAGCT
*
234136805 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAACTCGCA
*
234136845 CAAATGCCTTCGGGACTTAGCCCGGTATAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTATAGTAACTCGCA
* *
234136884 CAAATGCCTTCGGGACTTAGCCCGGATATAATAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAACTCGCA
* *
234136924 CAAA-ACCTTCGGGACTTAGCCCGGATATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAACTCGCA
* * ** * *
234136963 CGAATGCCTTCGGGACTTAGCCCGGAATTAGCCACTAGCT
1 CAAATGCCTTCGGGACTTAGCCCGGTA-TAGTAACTCGCA
234137003 CAAATG-CTCTCGGGACTTAGCC
1 CAAATGCCT-TCGGGACTTAGCC
234137025 GGTTATCATC
Statistics
Matches: 162, Mismatches: 14, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
39 76 0.47
40 86 0.53
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGTATAGTAACTCGCA
Found at i:234136890 original size:39 final size:40
Alignment explanation
Indices: 234136805--234136988 Score: 282
Period size: 39 Copynumber: 4.7 Consensus size: 40
234136795 GCCACTAGCT
* * *
234136805 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCA
234136845 CAAATGCCTTCGGGACTTAGCCCGG-TATAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCA
*
234136884 CAAATGCCTTCGGGACTTAGCCCGGATATAATAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCA
* * *
234136924 CAAA-ACCTTCGGGACTTAGCCCGGATATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCA
*
234136963 CGAATGCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
234136989 ATTAGCCACT
Statistics
Matches: 135, Mismatches: 7, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
39 73 0.54
40 62 0.46
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCA
Found at i:234136961 original size:79 final size:79
Alignment explanation
Indices: 234136805--234136988 Score: 280
Period size: 79 Copynumber: 2.3 Consensus size: 79
234136795 GCCACTAGCT
* * * *
234136805 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCACAAATACCTTCGGGACTTAGCCCGG
234136870 TATAATAACTCGCA
66 TATAATAACTCGCA
*
234136884 CAAATGCCTTCGGGACTTAGCCCGGATATAATAGCTCGCACAAA-ACCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCACAAATACCTTCGGGACTTAGCCCGG
* *
234136948 ATATAGTAGCTCGCA
66 -TATAATAACTCGCA
*
234136963 CGAATGCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
234136989 ATTAGCCACT
Statistics
Matches: 96, Mismatches: 8, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
78 19 0.20
79 77 0.80
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCACAAATACCTTCGGGACTTAGCCCGG
TATAATAACTCGCA
Found at i:234138947 original size:49 final size:49
Alignment explanation
Indices: 234138820--234139077 Score: 380
Period size: 49 Copynumber: 5.3 Consensus size: 49
234138810 CCCTTCGGGA
* * * * * *
234138820 CTTATCACAT-T-TATACACTTCCACATCCATCACTTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
234138867 CCTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
234138914 CTTATCACATATATATACACCTTCTCATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
234138963 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
234139012 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
234139061 CTTATCACATATATATA
1 CTTATCACATATATATA
234139078 TCTCATACAT
Statistics
Matches: 193, Mismatches: 14, Indels: 6
0.91 0.07 0.03
Matches are distributed among these distances:
46 1 0.01
47 45 0.23
49 147 0.76
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.32
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:234145826 original size:40 final size:40
Alignment explanation
Indices: 234145733--234145953 Score: 362
Period size: 40 Copynumber: 5.6 Consensus size: 40
234145723 ACTCTAGCTC
234145733 AATGCCTTCGGGAC-TAGCCCGGATATAGTAACTCGCAC-
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
234145771 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
234145811 AATGCCTTCGGGACTTAGCCCGGATATA-TAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
*
234145850 AATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
*
234145890 AATGCCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCA-A
1 AATGCCTTCGGGACTTAGCCCGGATA-TAGTAACT--CGCACA
234145931 AATGCCTTCGGGACTTAGCCCGG
1 AATGCCTTCGGGACTTAGCCCGG
234145954 TTATCATCCA
Statistics
Matches: 175, Mismatches: 2, Indels: 9
0.94 0.01 0.05
Matches are distributed among these distances:
38 14 0.08
39 64 0.37
40 69 0.39
41 24 0.14
42 4 0.02
ACGTcount: A:0.27, C:0.29, G:0.23, T:0.22
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
Found at i:234145863 original size:79 final size:80
Alignment explanation
Indices: 234145733--234145953 Score: 362
Period size: 79 Copynumber: 2.8 Consensus size: 80
234145723 ACTCTAGCTC
234145733 AATGCCTTCGGGAC-TAGCCCGGATATAGTAACTCGCAC-AATGCCTTCGGGACTTAGCCCGGAT
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAT
*
234145796 ATAGTAACTCGCACA
66 ATAATAACTCGCACA
234145811 AATGCCTTCGGGACTTAGCCCGGATATA-TAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAT
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAT
234145875 ATAATAACTCGCACA
66 ATAATAACTCGCACA
*
234145890 AATGCCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCA-AAATGCCTTCGGGACTTAGCCCG
1 AATGCCTTCGGGACTTAGCCCGGATA-TAGTAACT--CGCACAAATGCCTTCGGGACTTAGCCCG
234145953 G
63 G
234145954 TTATCATCCA
Statistics
Matches: 135, Mismatches: 2, Indels: 9
0.92 0.01 0.06
Matches are distributed among these distances:
78 25 0.19
79 78 0.58
80 4 0.03
81 24 0.18
82 4 0.03
ACGTcount: A:0.27, C:0.29, G:0.23, T:0.22
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAT
ATAATAACTCGCACA
Found at i:234153945 original size:40 final size:40
Alignment explanation
Indices: 234153852--234154109 Score: 373
Period size: 40 Copynumber: 6.5 Consensus size: 40
234153842 AAGCCAAGTA
* * *
234153852 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
234153890 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
234153930 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
234153970 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
234154010 CCTTCGGGACTTAGCCCGGATATAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
234154050 CCTTCGGGACTTAGCCCGGA-ACTATTCACTAGCGCA-AAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACT--CGCACAAATG
234154091 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
234154110 TTATCATCCA
Statistics
Matches: 205, Mismatches: 9, Indels: 9
0.92 0.04 0.04
Matches are distributed among these distances:
38 12 0.06
39 18 0.09
40 147 0.72
41 24 0.12
42 4 0.02
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:234162146 original size:37 final size:38
Alignment explanation
Indices: 234162019--234162242 Score: 305
Period size: 40 Copynumber: 5.8 Consensus size: 38
234162009 GGATATAGCT
* *
234162019 ACTCGCTC-AATGCCTTCGGGACATAGCCCGGATATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGA-ATA-TA
*
234162058 ACTCGCACCAATGCCTTCGGGACTTAGCCCGGATATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGA-ATA-TA
234162098 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG-ATATA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATATA
234162135 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG-ATATA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATATA
* *
234162172 ACTCACACAAATGCCTTC-GGACTTAGCCCGGAACTATC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAA-TATA
234162210 ACTAGCGCA-AAATGCCTTCGGGACTTAGCCCGG
1 ACT--CGCACAAATGCCTTCGGGACTTAGCCCGG
234162243 TTATCATCCA
Statistics
Matches: 173, Mismatches: 6, Indels: 11
0.91 0.03 0.06
Matches are distributed among these distances:
36 13 0.08
37 57 0.33
38 9 0.05
39 17 0.10
40 77 0.45
ACGTcount: A:0.26, C:0.30, G:0.22, T:0.21
Consensus pattern (38 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATATA
Found at i:234162160 original size:77 final size:78
Alignment explanation
Indices: 234161993--234162242 Score: 320
Period size: 77 Copynumber: 3.2 Consensus size: 78
234161983 AAGCCAAGTA
* * * *
234161993 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTC-AATGCCTTCGGGACATAGCCCGGATATA
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA-ATA
*
234162055 GTAACTCGCACCAATG
64 -TAACTCGCACAAATG
234162071 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG-ATATA
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATATA
234162135 ACTCGCACAAATG
66 ACTCGCACAAATG
*
234162148 CCTTCGGGACTTAGCCCGG--ATA-TAACTCACACAAATGCCTTC-GGACTTAGCCCGGAACTAT
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAA-TAT
*
234162209 CACTAGCGCA-AAATG
65 AACT--CGCACAAATG
234162224 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
234162243 TTATCATCCA
Statistics
Matches: 158, Mismatches: 7, Indels: 16
0.87 0.04 0.09
Matches are distributed among these distances:
73 13 0.08
74 20 0.13
75 9 0.06
76 24 0.15
77 37 0.23
78 16 0.10
79 17 0.11
80 22 0.14
ACGTcount: A:0.26, C:0.30, G:0.22, T:0.22
Consensus pattern (78 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATATA
ACTCGCACAAATG
Found at i:234166274 original size:40 final size:40
Alignment explanation
Indices: 234166208--234166374 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
234166198 AAATTGAATG
* * *
234166208 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
234166247 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
234166287 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
234166327 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
234166367 ATATCCGG
1 ATATCCGG
234166375 TTATATTCCG
Statistics
Matches: 103, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
39 16 0.16
40 85 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:234174253 original size:40 final size:40
Alignment explanation
Indices: 234174187--234174353 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
234174177 AAATTGAATG
* * *
234174187 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
234174226 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
234174266 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
234174306 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
234174346 ATATCCGG
1 ATATCCGG
234174354 TTATATTCCG
Statistics
Matches: 103, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
39 16 0.16
40 85 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:234182236 original size:40 final size:40
Alignment explanation
Indices: 234182170--234182336 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
234182160 AAATTGAATG
* * *
234182170 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
234182209 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
234182249 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
234182289 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
234182329 ATATCCGG
1 ATATCCGG
234182337 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:234188143 original size:46 final size:47
Alignment explanation
Indices: 234188037--234188203 Score: 177
Period size: 46 Copynumber: 3.6 Consensus size: 47
234188027 ACATTATGAG
** * *
234188037 AGCTAGTGGAAGACCATGTCTGGGACATGGCACCGGCATTGAGATG-A
1 AGCTAGTATAAGACCATGTCTGGGACAT-GCATCGGCCTTGAGATGTA
* *
234188084 GCGCTAGTGTAAGA-CATGTCTGGGACATGCATCGGCCTTGAGATGTA
1 -AGCTAGTATAAGACCATGTCTGGGACATGCATCGGCCTTGAGATGTA
*
234188131 AGCTAGTATAAGA-CATGTCTGGGACATGCATCTG-CTATGAGATGT-
1 AGCTAGTATAAGACCATGTCTGGGACATGCATCGGCCT-TGAGATGTA
*
234188176 -G-TCAGTATAAGACCATGTTTGGGACATG
1 AGCT-AGTATAAGACCATGTCTGGGACATG
234188204 GCATTGGTAC
Statistics
Matches: 107, Mismatches: 8, Indels: 11
0.85 0.06 0.09
Matches are distributed among these distances:
43 1 0.01
44 10 0.09
45 16 0.15
46 54 0.50
47 15 0.14
48 11 0.10
ACGTcount: A:0.27, C:0.17, G:0.31, T:0.25
Consensus pattern (47 bp):
AGCTAGTATAAGACCATGTCTGGGACATGCATCGGCCTTGAGATGTA
Found at i:234188490 original size:29 final size:29
Alignment explanation
Indices: 234188449--234188506 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
234188439 TAAGAGTAAG
234188449 TTTTACTTATGCCACTTGTGTATTATGAT
1 TTTTACTTATGCCACTTGTGTATTATGAT
234188478 TTTTACTTATGCCACTTGTGTATTATGAT
1 TTTTACTTATGCCACTTGTGTATTATGAT
234188507 ACTTGTTGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.21, C:0.14, G:0.14, T:0.52
Consensus pattern (29 bp):
TTTTACTTATGCCACTTGTGTATTATGAT
Found at i:234191067 original size:46 final size:45
Alignment explanation
Indices: 234190903--234191076 Score: 215
Period size: 46 Copynumber: 3.8 Consensus size: 45
234190893 TGGTTGGCAT
* *
234190903 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAACGC
*** * * * *
234190948 CCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-ACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGCAACGC
234190993 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC-AACGC
*
234191041 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
234191077 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 16, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
45 31 0.29
46 45 0.42
47 29 0.27
48 3 0.03
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (45 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAACGC
Found at i:234194036 original size:15 final size:15
Alignment explanation
Indices: 234193997--234194046 Score: 68
Period size: 15 Copynumber: 3.5 Consensus size: 15
234193987 GTATCTTGGG
*
234193997 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
234194012 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
234194027 TTTCTTTATTC-GG-
1 TTTCTTTATTCTGGA
234194040 TTTCTTT
1 TTTCTTT
234194047 GTTATCTTTG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
13 7 0.22
14 2 0.06
15 23 0.72
ACGTcount: A:0.10, C:0.18, G:0.12, T:0.60
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:234196463 original size:46 final size:45
Alignment explanation
Indices: 234196413--234196585 Score: 176
Period size: 46 Copynumber: 3.8 Consensus size: 45
234196403 ATGGTGAGCA
234196413 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAA-G
* * *
234196459 TCCGAACTCGTTGAGTT-AGTCCGAGTTC-GTGA--GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A-G
* * *
234196503 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAAC
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAG
* * *
234196550 ACCG-ACTCGTTGAGTTGAGTCTGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
234196586 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 13, Indels: 18
0.77 0.09 0.13
Matches are distributed among these distances:
42 6 0.06
44 33 0.31
45 14 0.13
46 34 0.32
47 11 0.10
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAG
Found at i:234199541 original size:15 final size:15
Alignment explanation
Indices: 234199507--234199545 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
234199497 ATCTTGGGTT
*
234199507 TCTTTATCCTGGATA
1 TCTTTATTCTGGATA
234199522 TCTTTATTCTGGAT-
1 TCTTTATTCTGGATA
234199536 TGCTTTATTC
1 T-CTTTATTC
234199546 CGGGTTTTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 1 0.05
15 21 0.95
ACGTcount: A:0.15, C:0.18, G:0.13, T:0.54
Consensus pattern (15 bp):
TCTTTATTCTGGATA
Found at i:234199567 original size:31 final size:31
Alignment explanation
Indices: 234199531--234199594 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
234199521 ATCTTTATTC
234199531 TGGATTGCTTTATTCCGGGTTTTC-T-CTATCT
1 TGGATTGCTTTATT-C-GGTTTTCTTGCTATCT
*
234199562 TGGATTTCTTTATTCGGTTTTCTTGCTATCT
1 TGGATTGCTTTATTCGGTTTTCTTGCTATCT
234199593 TG
1 TG
234199595 TTCCATAATT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
29 7 0.23
30 2 0.07
31 21 0.70
ACGTcount: A:0.09, C:0.17, G:0.19, T:0.55
Consensus pattern (31 bp):
TGGATTGCTTTATTCGGTTTTCTTGCTATCT
Found at i:234201979 original size:46 final size:46
Alignment explanation
Indices: 234201929--234202104 Score: 162
Period size: 46 Copynumber: 3.8 Consensus size: 46
234201919 GGTTGAGGCA
*
234201929 TCCGAACTCGTTGAGTTGAGT-TCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCT-GAGTTCACTTATGGATGCAAACG
* * * * * *
234201975 TCCGAACTCGTTGAGTTTAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAA--A--CG
* * *
234202022 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTCATGGATGCGAACA
1 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAACG
* * *
234202068 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGG
234202105 GCGGGTTACA
Statistics
Matches: 105, Mismatches: 17, Indels: 16
0.76 0.12 0.12
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 61 0.58
47 27 0.26
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAACG
Found at i:234202083 original size:93 final size:93
Alignment explanation
Indices: 234201924--234202097 Score: 260
Period size: 93 Copynumber: 1.9 Consensus size: 93
234201914 AGGATGGTTG
* ***
234201924 AGGCATCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGA
1 AGGCATCCGAACTCGTTGAGTTGAGTTCGAGTTCACTCATGGATGCAAACACCCGAACTCGTTGA
*
234201989 GTTTAGTCCGAGTTCGTGAGATGTAACT
66 GTTGAGTCCGAGTTCGTGAGATGTAACT
* *
234202017 AGGCATCCGAACTCGTTGAGTTGAG-TCTGAGTTCACTCATGGATGCGAACACCCGAGCTCGTTG
1 AGGCATCCGAACTCGTTGAGTTGAGTTC-GAGTTCACTCATGGATGCAAACACCCGAACTCGTTG
*
234202081 AGTTGAGTCTGAGTTCG
65 AGTTGAGTCCGAGTTCG
234202098 CTTATGGGCG
Statistics
Matches: 72, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
92 2 0.03
93 70 0.97
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.29
Consensus pattern (93 bp):
AGGCATCCGAACTCGTTGAGTTGAGTTCGAGTTCACTCATGGATGCAAACACCCGAACTCGTTGA
GTTGAGTCCGAGTTCGTGAGATGTAACT
Found at i:234216706 original size:59 final size:56
Alignment explanation
Indices: 234216608--234216718 Score: 136
Period size: 59 Copynumber: 1.9 Consensus size: 56
234216598 TATGAAAAAA
*
234216608 AAAAGAAAAAAAATGTTCATCCTTCTCCATAGGTTGGCCG-AATGTACTAAGGAAAG
1 AAAAGAAAAAAAATGTTCATCCTTCTCCATAGCTTGGCCGAAAT-TACTAAGGAAAG
**
234216664 AAAAGAAAAAAAAATTGTTCATCCTT-TCTCATCTTCTTGGCCGAAATTACTAAGG
1 AAAAG-AAAAAAAA-TGTTCATCCTTCTC-CAT-AGCTTGGCCGAAATTACTAAGG
234216719 GAAAAGGGGA
Statistics
Matches: 47, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
56 5 0.11
57 10 0.21
58 14 0.30
59 15 0.32
60 3 0.06
ACGTcount: A:0.40, C:0.17, G:0.16, T:0.27
Consensus pattern (56 bp):
AAAAGAAAAAAAATGTTCATCCTTCTCCATAGCTTGGCCGAAATTACTAAGGAAAG
Found at i:234218032 original size:39 final size:40
Alignment explanation
Indices: 234217909--234218074 Score: 162
Period size: 40 Copynumber: 4.2 Consensus size: 40
234217899 AAATTGAATG
* * *
234217909 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTG-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGTAATT
* * ***
234217948 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTAATT
*
234217988 ATATCCGGGCTAAG-CCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTAATT
* * *
234218027 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGA-GTAATT
234218067 ATATCCGG
1 ATATCCGG
234218075 TTATATTCCG
Statistics
Matches: 104, Mismatches: 17, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
38 3 0.03
39 44 0.42
40 55 0.53
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTAATT
Found at i:234218041 original size:79 final size:79
Alignment explanation
Indices: 234217909--234218058 Score: 205
Period size: 79 Copynumber: 1.9 Consensus size: 79
234217899 AAATTGAATG
*
234217909 ATATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCAA
1 ATATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCAA
234217974 TTGTGCTAGTGGCT
66 TTGTGCTAGTGGCT
* * ** *
234217988 ATATCCGGGCTAAGCCCGAAGGC-ATTCGTGC-GAGTTATTCTATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGCCCGAAGACAATT-ATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGGC
*
234218051 ATTTGTGC
64 AATTGTGC
234218059 ACGTGATTAT
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
78 4 0.06
79 58 0.94
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (79 bp):
ATATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCAA
TTGTGCTAGTGGCT
Found at i:234225564 original size:83 final size:83
Alignment explanation
Indices: 234225411--234225610 Score: 267
Period size: 83 Copynumber: 2.4 Consensus size: 83
234225401 ATATGTTATG
** * *
234225411 CACTCACAACAAGTGGCAGTAACTATAAATATGTGGCTTATCCAAAAACCCAGTGGCGGTTTGTT
1 CACTCACAACAAGTGGCAGTAACT-GCAA-ATGTGGCTTATCCAAAAACCCAGTGACAGTTTGTT
234225476 TAATTTGCAACCATGTTGTA
64 TAATTTGCAACCATGTTGTA
* *
234225496 CACTTACAACAAGTGGCAGTAACTGCAAATGTGGCTTGT-CAACAAACCCAGTGACAGTTTGTTT
1 CACTCACAACAAGTGGCAGTAACTGCAAATGTGGCTTATCCAA-AAACCCAGTGACAGTTTGTTT
* *
234225560 AATTTGCAACTATGTTGTG
65 AATTTGCAACCATGTTGTA
* * *
234225579 CACTCACAACCAGTGGCAATAACAGCAAATGT
1 CACTCACAACAAGTGGCAGTAACTGCAAATGT
234225611 TTTTATCTAA
Statistics
Matches: 102, Mismatches: 12, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
82 3 0.03
83 74 0.73
84 2 0.02
85 23 0.23
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.28
Consensus pattern (83 bp):
CACTCACAACAAGTGGCAGTAACTGCAAATGTGGCTTATCCAAAAACCCAGTGACAGTTTGTTTA
ATTTGCAACCATGTTGTA
Found at i:234228568 original size:23 final size:21
Alignment explanation
Indices: 234228533--234228592 Score: 61
Period size: 23 Copynumber: 2.8 Consensus size: 21
234228523 CCTATTACTG
234228533 TTATAT-CTATTTTATACATGTA
1 TTATATACT-TTTTATACA-GTA
*
234228555 TATATATACTTTTTATATAGTA
1 T-TATATACTTTTTATACAGTA
234228577 TTAT-TATCTTTTTATA
1 TTATATA-CTTTTTATA
234228593 TATTATGGTG
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
20 2 0.06
21 12 0.35
22 5 0.15
23 13 0.38
24 2 0.06
ACGTcount: A:0.32, C:0.07, G:0.03, T:0.58
Consensus pattern (21 bp):
TTATATACTTTTTATACAGTA
Found at i:234228589 original size:21 final size:22
Alignment explanation
Indices: 234228534--234228595 Score: 74
Period size: 21 Copynumber: 2.8 Consensus size: 22
234228524 CTATTACTGT
*
234228534 TATATCTATTTTATACATGTATA
1 TATATCT-TTTTATATATGTATA
234228557 TATATACTTTTTATATA-GTAT-
1 TATAT-CTTTTTATATATGTATA
234228578 TATTATCTTTTTATATAT
1 TA-TATCTTTTTATATAT
234228596 TATGGTGCTT
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
21 13 0.37
22 7 0.20
23 13 0.37
24 2 0.06
ACGTcount: A:0.32, C:0.06, G:0.03, T:0.58
Consensus pattern (22 bp):
TATATCTTTTTATATATGTATA
Found at i:234229220 original size:14 final size:15
Alignment explanation
Indices: 234229201--234229229 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
234229191 TTCATTATCA
234229201 TTGCCAT-TTTTATT
1 TTGCCATGTTTTATT
234229215 TTGCCATGTTTTATT
1 TTGCCATGTTTTATT
234229230 CACTTTTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.14, C:0.14, G:0.10, T:0.62
Consensus pattern (15 bp):
TTGCCATGTTTTATT
Found at i:234239215 original size:83 final size:83
Alignment explanation
Indices: 234239064--234239262 Score: 265
Period size: 83 Copynumber: 2.4 Consensus size: 83
234239054 ATATGTTATG
** * *
234239064 CACTCACAACAAGTGGCAGTAACTATAAATATGTGGCTTATCCAAAAACCCAGTGGCGGTTTGTT
1 CACTCACAACAAGTGGCAGTAACT-GCAA-ATGTGGCTTATCCAAAAACCCAGTGACAGTTTGTT
234239129 TAATTTGCAACCATGTTGTA
64 TAATTTGCAACCATGTTGTA
* *
234239149 CACTTACAACAAGTGGCAGTAACTGCAAATGTGGCTTGT-CAACAAACCCAGTGACAGTTTGTTT
1 CACTCACAACAAGTGGCAGTAACTGCAAATGTGGCTTATCCAA-AAACCCAGTGACAGTTTGTTT
* *
234239213 AATTTGCAACTATGTTGTG
65 AATTTGCAACCATGTTGTA
* * *
234239232 CACTCACAACCAGTGGCAATAACAGCAAATG
1 CACTCACAACAAGTGGCAGTAACTGCAAATG
234239263 ATTTTATCTA
Statistics
Matches: 101, Mismatches: 12, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
82 3 0.03
83 73 0.72
84 2 0.02
85 23 0.23
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.27
Consensus pattern (83 bp):
CACTCACAACAAGTGGCAGTAACTGCAAATGTGGCTTATCCAAAAACCCAGTGACAGTTTGTTTA
ATTTGCAACCATGTTGTA
Found at i:234242208 original size:23 final size:20
Alignment explanation
Indices: 234242180--234242239 Score: 66
Period size: 23 Copynumber: 2.8 Consensus size: 20
234242170 CTTATTACTG
234242180 TTATATCTATTTTATACATGTA
1 TTATATCT-TTTTATACA-GTA
*
234242202 TATATATACTTTTTATATAGTA
1 T-TATAT-CTTTTTATACAGTA
234242224 TTATTATCTTTTTATA
1 TTA-TATCTTTTTATA
234242240 TATTATGGTG
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
21 11 0.32
22 8 0.24
23 13 0.38
24 2 0.06
ACGTcount: A:0.32, C:0.07, G:0.03, T:0.58
Consensus pattern (20 bp):
TTATATCTTTTTATACAGTA
Found at i:234242236 original size:21 final size:22
Alignment explanation
Indices: 234242181--234242242 Score: 74
Period size: 21 Copynumber: 2.8 Consensus size: 22
234242171 TTATTACTGT
*
234242181 TATATCTATTTTATACATGTATA
1 TATATCT-TTTTATATATGTATA
234242204 TATATACTTTTTATATA-GTAT-
1 TATAT-CTTTTTATATATGTATA
234242225 TATTATCTTTTTATATAT
1 TA-TATCTTTTTATATAT
234242243 TATGGTGCTT
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
21 13 0.37
22 7 0.20
23 13 0.37
24 2 0.06
ACGTcount: A:0.32, C:0.06, G:0.03, T:0.58
Consensus pattern (22 bp):
TATATCTTTTTATATATGTATA
Found at i:234244046 original size:27 final size:27
Alignment explanation
Indices: 234244006--234244061 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
234243996 ACGTTCTTCT
*
234244006 TGATCAAATTGTTGGTGGATATATCAG
1 TGATCAAATCGTTGGTGGATATATCAG
234244033 TGATCAAATCGTTGGTGGATATATCAG
1 TGATCAAATCGTTGGTGGATATATCAG
234244060 TG
1 TG
234244062 GTGAATTTAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.29, C:0.09, G:0.27, T:0.36
Consensus pattern (27 bp):
TGATCAAATCGTTGGTGGATATATCAG
Found at i:234248016 original size:40 final size:40
Alignment explanation
Indices: 234247979--234248164 Score: 227
Period size: 40 Copynumber: 4.7 Consensus size: 40
234247969 GCTACTCGTT
*
234247979 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
234248019 CAGATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
234248059 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * * *
234248099 CGAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
234248140 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
234248165 CATCATTCGA
Statistics
Matches: 130, Mismatches: 12, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
39 3 0.02
40 115 0.88
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:234256053 original size:39 final size:40
Alignment explanation
Indices: 234256008--234256192 Score: 227
Period size: 40 Copynumber: 4.7 Consensus size: 40
234255998 GCTACTCGTT
*
234256008 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
234256048 C-AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
234256087 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * * *
234256127 CGAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
234256168 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
234256193 CATCATTCGA
Statistics
Matches: 130, Mismatches: 10, Indels: 10
0.87 0.07 0.07
Matches are distributed among these distances:
39 37 0.28
40 83 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:234262600 original size:39 final size:40
Alignment explanation
Indices: 234262555--234262739 Score: 227
Period size: 40 Copynumber: 4.7 Consensus size: 40
234262545 GCTACTCGTT
*
234262555 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
234262595 C-AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
234262634 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * * *
234262674 CGAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
234262715 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
234262740 CATCATTCGA
Statistics
Matches: 130, Mismatches: 10, Indels: 10
0.87 0.07 0.07
Matches are distributed among these distances:
39 37 0.28
40 83 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:234267000 original size:80 final size:80
Alignment explanation
Indices: 234266916--234267064 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
234266906 TATGGTAACC
* * * *
234266916 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
234266980 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
234266996 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
234267061 CCGG
66 CCGG
234267065 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:234267006 original size:40 final size:38
Alignment explanation
Indices: 234266957--234267064 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
234266947 ATCACGATTT
*
234266957 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
234266997 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
234267037 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
234267065 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:234275118 original size:80 final size:80
Alignment explanation
Indices: 234275034--234275182 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
234275024 TATGGTAACC
* * * *
234275034 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
234275098 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
234275114 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
234275179 CCGG
66 CCGG
234275183 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:234275124 original size:40 final size:38
Alignment explanation
Indices: 234275075--234275182 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
234275065 ATCACGATTT
*
234275075 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
234275115 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
234275155 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
234275183 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:234284129 original size:38 final size:38
Alignment explanation
Indices: 234284019--234284148 Score: 203
Period size: 36 Copynumber: 3.5 Consensus size: 38
234284009 TAGATTGGAA
234284019 ATATCCGGACATGAGGTCCGCAGGCTATATGCTGGAAAT
1 ATATCCGGACATGAGGTCCGCA-GCTATATGCTGGAAAT
* *
234284058 ATATCCGGACATGAGGTCAG--GCTATATACTGGAAAT
1 ATATCCGGACATGAGGTCCGCAGCTATATGCTGGAAAT
234284094 ATATCCGGACATGAGGTCCGCAGCTATATGCTGGAAAT
1 ATATCCGGACATGAGGTCCGCAGCTATATGCTGGAAAT
*
234284132 ATATCTGGAC-TGAGGTC
1 ATATCCGGACATGAGGTC
234284149 ACAAACTACG
Statistics
Matches: 84, Mismatches: 5, Indels: 6
0.88 0.05 0.06
Matches are distributed among these distances:
36 34 0.40
37 7 0.08
38 24 0.29
39 19 0.23
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (38 bp):
ATATCCGGACATGAGGTCCGCAGCTATATGCTGGAAAT
Found at i:234286038 original size:30 final size:30
Alignment explanation
Indices: 234286004--234286100 Score: 90
Period size: 30 Copynumber: 3.2 Consensus size: 30
234285994 TAAACTAAAA
234286004 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
* * * * * *
234286034 TGAGCTGAGGC-TAAACTCCTAAGCTGAAGT
1 TGAGCT-AAGCTTTAGCTCGTGAGCTAAAGT
* *
234286064 TGAGCTAAGGTTTAGCTCGTGAGTTGAAAG-
1 TGAGCTAAGCTTTAGCTCGTGAGCT-AAAGT
234286094 TGAGCTA
1 TGAGCTA
234286101 GGAGTGAGCT
Statistics
Matches: 50, Mismatches: 14, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
29 2 0.04
30 42 0.84
31 6 0.12
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
Found at i:234288523 original size:30 final size:30
Alignment explanation
Indices: 234288489--234288585 Score: 81
Period size: 30 Copynumber: 3.2 Consensus size: 30
234288479 TAAACTAAAA
*
234288489 TGAGCTAAGCTTTAGCTCATGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCATAAGCTAAAGT
* * * * *
234288519 TGAGCTGAGGC-TAAACTCCTAAGCTGAAGT
1 TGAGCT-AAGCTTTAGCTCATAAGCTAAAGT
* * *
234288549 TGAGCTAAGGTTTAGCTCGTAAGTTGAAAG-
1 TGAGCTAAGCTTTAGCTCATAAGCT-AAAGT
234288579 TGAGCTA
1 TGAGCTA
234288586 GGAGTGAGCT
Statistics
Matches: 51, Mismatches: 13, Indels: 6
0.73 0.19 0.09
Matches are distributed among these distances:
29 2 0.04
30 43 0.84
31 6 0.12
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCATAAGCTAAAGT
Found at i:234291509 original size:20 final size:20
Alignment explanation
Indices: 234291486--234291556 Score: 90
Period size: 20 Copynumber: 3.5 Consensus size: 20
234291476 AATGAGCTGA
234291486 AACGAGCTAAAATCAAGCTC
1 AACGAGCTAAAATCAAGCTC
234291506 AACGAGCTAAAATCAAGCTC
1 AACGAGCTAAAATCAAGCTC
* * *
234291526 AACAAGCTGAAA-CGAGCTC
1 AACGAGCTAAAATCAAGCTC
*
234291545 AAGTGAGCTAAA
1 AA-CGAGCTAAA
234291557 TGGAGCTTGG
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
19 8 0.18
20 36 0.82
ACGTcount: A:0.45, C:0.23, G:0.18, T:0.14
Consensus pattern (20 bp):
AACGAGCTAAAATCAAGCTC
Found at i:234293050 original size:19 final size:19
Alignment explanation
Indices: 234293026--234293065 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
234293016 AGCTCCCATG
234293026 TAGCTCCACACCAGCTCAT
1 TAGCTCCACACCAGCTCAT
* *
234293045 TAGCTCGAGACCAGCTCAT
1 TAGCTCCACACCAGCTCAT
234293064 TA
1 TA
234293066 TCAGCTCACG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.28, C:0.35, G:0.15, T:0.23
Consensus pattern (19 bp):
TAGCTCCACACCAGCTCAT
Found at i:234295866 original size:30 final size:30
Alignment explanation
Indices: 234295772--234295868 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
234295762 TAAACTAAAA
* *
234295772 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGATTTAGCTCGTGAGCTGAAGT
* * * *
234295802 TGAGCTAAGATTAAACTCCTAAGCTGAAGT
1 TGAGCTAAGATTTAGCTCGTGAGCTGAAGT
* *
234295832 TGAGCTAAGGTTTAGCTCGTGAGTTGAA-T
1 TGAGCTAAGATTTAGCTCGTGAGCTGAAGT
234295861 ATGAGCTA
1 -TGAGCTA
234295869 GGAGTGAGCT
Statistics
Matches: 54, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
29 1 0.02
30 53 0.98
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.30
Consensus pattern (30 bp):
TGAGCTAAGATTTAGCTCGTGAGCTGAAGT
Found at i:234302016 original size:19 final size:19
Alignment explanation
Indices: 234301992--234302031 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
234301982 AGCTCCCATG
*
234301992 TAGCTCCACACCAGTTCAT
1 TAGCTCCACACCAGCTCAT
* *
234302011 TAGCTCGAGACCAGCTCAT
1 TAGCTCCACACCAGCTCAT
234302030 TA
1 TA
234302032 TCAGCTCACG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.25
Consensus pattern (19 bp):
TAGCTCCACACCAGCTCAT
Found at i:234302529 original size:14 final size:14
Alignment explanation
Indices: 234302510--234302554 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
234302500 AACTCATCTT
*
234302510 AGTTTAATTAAATG
1 AGTTTAATTTAATG
*
234302524 AGTTT-ATTTGATG
1 AGTTTAATTTAATG
*
234302537 AATTTAATTTAATG
1 AGTTTAATTTAATG
234302551 AGTT
1 AGTT
234302555 GCTTCTTTAA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
13 10 0.40
14 15 0.60
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.49
Consensus pattern (14 bp):
AGTTTAATTTAATG
Found at i:234303567 original size:29 final size:29
Alignment explanation
Indices: 234303534--234303593 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
234303524 ATAACCAAAC
*
234303534 CTACAAAAACTTTATATCCATAAACCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
*
234303563 CTACATAAACTTCATATCCATAAACCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
234303592 CT
1 CT
234303594 TTGAATCCTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.42, C:0.30, G:0.00, T:0.28
Consensus pattern (29 bp):
CTACAAAAACTTCATATCCATAAACCCAT
Found at i:234303586 original size:15 final size:15
Alignment explanation
Indices: 234303540--234303587 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
234303530 AAACCTACAA
*
234303540 AAACTTTATATCCAT
1 AAACTTCATATCCAT
* * *
234303555 AAAC-CCATCTACAT
1 AAACTTCATATCCAT
234303569 AAACTTCATATCCAT
1 AAACTTCATATCCAT
234303584 AAAC
1 AAAC
234303588 CCATCTTTGA
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.44, C:0.27, G:0.00, T:0.29
Consensus pattern (15 bp):
AAACTTCATATCCAT
Found at i:234306937 original size:40 final size:40
Alignment explanation
Indices: 234306870--234307039 Score: 220
Period size: 40 Copynumber: 4.3 Consensus size: 40
234306860 GCCCAAGTAT
*
234306870 CTTCGGGAT-TTAG-CCGGATATAACAACTCGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAGCAACTCGCACAAATGC
234306909 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* * *
234306949 CTTCGGGTCTTAGCCCGGATATAATC-ACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATAT-AGCAACTCGCACAAATGC
* * * *
234306989 CTTTGGGACATAGCCCGGATATAGCAACTCGCACGAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
*
234307029 CTTCGGATCTT
1 CTTCGGGTCTT
234307040 TGTCCGGTTA
Statistics
Matches: 112, Mismatches: 15, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
38 1 0.01
39 13 0.12
40 96 0.86
41 2 0.02
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
Found at i:234314811 original size:40 final size:40
Alignment explanation
Indices: 234314765--234314921 Score: 217
Period size: 40 Copynumber: 3.9 Consensus size: 40
234314755 CGGGATTGAG
234314765 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGC
*
234314805 CCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGC
* * * * *
234314845 CCGGATATAATC-ACTAGCATAAATGCCTTTGGGACATAGC
1 CCGGATATAA-CAACTCGCACAAATGCCTTCGGGTCTTAGC
* * *
234314885 CCGGATATAGCAACTCGCACGAATGCCTTCGGATCTT
1 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTT
234314922 TGTCCGGTTA
Statistics
Matches: 100, Mismatches: 15, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
39 1 0.01
40 98 0.98
41 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGC
Found at i:234315284 original size:20 final size:20
Alignment explanation
Indices: 234315259--234315296 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
234315249 GTTTATTCGC
*
234315259 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
234315279 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
234315297 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:234321675 original size:20 final size:20
Alignment explanation
Indices: 234321650--234321687 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
234321640 GTTTATTCGC
*
234321650 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
234321670 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
234321688 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:234327779 original size:40 final size:40
Alignment explanation
Indices: 234327720--234327850 Score: 172
Period size: 40 Copynumber: 3.3 Consensus size: 40
234327710 CGGGACTTTA
* * *
234327720 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
234327760 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
234327800 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
234327840 CCCGGATATAA
1 CCCGGATATAA
234327851 TTTCAGCATA
Statistics
Matches: 78, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 78 1.00
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.27
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:234327883 original size:39 final size:40
Alignment explanation
Indices: 234327737--234327887 Score: 180
Period size: 40 Copynumber: 3.8 Consensus size: 40
234327727 ATCACGATTT
* * * *
234327737 GCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACTA
*
234327777 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAACTACTA
* * *
234327817 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-A
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACTA
* * *
234327856 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
234327888 CATTCAATTT
Statistics
Matches: 97, Mismatches: 12, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
39 31 0.32
40 64 0.66
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACTA
Found at i:234335811 original size:40 final size:40
Alignment explanation
Indices: 234335752--234335920 Score: 173
Period size: 40 Copynumber: 4.2 Consensus size: 40
234335742 CGGGACTTTA
* * *
234335752 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
234335792 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
234335832 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * *
234335872 CCCGGATAT-A-AA-TTTCAGCATAATTGTCTTCGGGGCTTAG
1 CCCGGATATAACAACTTGCA-CA-AA-TGCCTTCGGGTCTTAG
234335912 CCCGGATAT
1 CCCGGATAT
234335921 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 1 0.01
40 99 0.93
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:234340910 original size:43 final size:45
Alignment explanation
Indices: 234340751--234340911 Score: 206
Period size: 45 Copynumber: 3.6 Consensus size: 45
234340741 TATCGTATAG
* *
234340751 TACTATTCGGGCCTTTGAGCC-AGCAGGCTATAATGTCGGTGAGA
1 TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGA
* * * *
234340795 TACTATTCGGGCCTTTGAGCCTAGTAGACTATAATTCCGGTGAGA
1 TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGA
*
234340840 TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAA
1 TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGA
234340885 TGA-TA-TCGGG-CTTCGAAG-CTAGCAGGC
1 T-ACTATTCGGGCCTTCG-AGCCTAGCAGGC
234340912 AAAATACCGA
Statistics
Matches: 105, Mismatches: 9, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
43 14 0.13
44 28 0.27
45 62 0.59
46 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.27
Consensus pattern (45 bp):
TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGA
Found at i:234346833 original size:40 final size:40
Alignment explanation
Indices: 234346725--234346934 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
234346715 CGGGATTTAA
* * * * *
234346725 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
234346765 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
234346805 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
234346845 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
234346885 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
234346925 CCGGATATAT
1 CCGGATATAT
234346935 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:234354968 original size:40 final size:40
Alignment explanation
Indices: 234354860--234355069 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
234354850 CGGGATTTAA
* * * * *
234354860 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
234354900 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
234354940 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
234354980 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
234355020 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
234355060 CCGGATATAT
1 CCGGATATAT
234355070 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:234363098 original size:40 final size:40
Alignment explanation
Indices: 234362990--234363239 Score: 385
Period size: 40 Copynumber: 6.2 Consensus size: 40
234362980 CGGGATTTAA
* * * * *
234362990 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
234363030 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
234363070 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
234363110 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
234363150 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
234363190 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
234363230 CCGGATATAT
1 CCGGATATAT
234363240 TTCCAATGTT
Statistics
Matches: 193, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
39 1 0.01
40 192 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:234367684 original size:29 final size:29
Alignment explanation
Indices: 234367651--234367810 Score: 180
Period size: 29 Copynumber: 5.5 Consensus size: 29
234367641 GTGACGAGAT
234367651 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
234367680 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
234367709 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* ** * ***
234367738 CGGCACTGGGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTAAGTGTGC-ATGCTGGAAATATA
* ** * *
234367767 TGGCACTATGTGTGCGGGCT-TAAATCACA
1 TGGCACTAAGTGTGCATGCTGGAAAT-ATA
234367796 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
234367811 GAAATCGAGT
Statistics
Matches: 111, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
28 2 0.02
29 108 0.97
30 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:234375710 original size:29 final size:29
Alignment explanation
Indices: 234375677--234375836 Score: 180
Period size: 29 Copynumber: 5.5 Consensus size: 29
234375667 GTGACGAGAT
234375677 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
234375706 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
234375735 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* ** * ***
234375764 CGGCACTGGGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTAAGTGTGC-ATGCTGGAAATATA
* ** * *
234375793 TGGCACTATGTGTGCGGGCT-TAAATCACA
1 TGGCACTAAGTGTGCATGCTGGAAAT-ATA
234375822 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
234375837 GAAATCGAGT
Statistics
Matches: 111, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
28 2 0.02
29 108 0.97
30 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:234387886 original size:29 final size:29
Alignment explanation
Indices: 234387862--234387955 Score: 179
Period size: 29 Copynumber: 3.2 Consensus size: 29
234387852 TCGCACACCC
*
234387862 AGTGCCGTATATTTCCAGCATGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
234387891 AGTGCCATATATTTCCAGCATGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
234387920 AGTGCCATATATTTCCAGCATGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
234387949 AGTGCCA
1 AGTGCCA
234387956 ATCTCGTCAC
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 64 1.00
ACGTcount: A:0.27, C:0.28, G:0.16, T:0.30
Consensus pattern (29 bp):
AGTGCCATATATTTCCAGCATGCACACTT
Found at i:234387887 original size:58 final size:58
Alignment explanation
Indices: 234387825--234387955 Score: 174
Period size: 58 Copynumber: 2.3 Consensus size: 58
234387815 ATTTAAGCCC
* * * *
234387825 GCACACATAGTGCCATACCCTTCGAGC-TCGCACACCCAGTGCCGTATATTTCCAGCAT
1 GCACACTTAGTGCCATACACTTCCAGCAT-GCACACCCAGTGCCATATATTTCCAGCAT
* * **
234387883 GCACACTTAGTGCCATATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATACACTTCCAGCATGCACACCCAGTGCCATATATTTCCAGCAT
234387941 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
234387956 ATCTCGTCAC
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
58 63 0.98
59 1 0.02
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (58 bp):
GCACACTTAGTGCCATACACTTCCAGCATGCACACCCAGTGCCATATATTTCCAGCAT
Found at i:234395725 original size:29 final size:29
Alignment explanation
Indices: 234395701--234395794 Score: 179
Period size: 29 Copynumber: 3.2 Consensus size: 29
234395691 TCGCACACCC
*
234395701 AGTGCCGTATATTTCCAGCATGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
234395730 AGTGCCATATATTTCCAGCATGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
234395759 AGTGCCATATATTTCCAGCATGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
234395788 AGTGCCA
1 AGTGCCA
234395795 ATCTCGTCAC
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 64 1.00
ACGTcount: A:0.27, C:0.28, G:0.16, T:0.30
Consensus pattern (29 bp):
AGTGCCATATATTTCCAGCATGCACACTT
Found at i:234395726 original size:58 final size:58
Alignment explanation
Indices: 234395664--234395794 Score: 174
Period size: 58 Copynumber: 2.3 Consensus size: 58
234395654 ATTTAAGCCC
* * * *
234395664 GCACACATAGTGCCATACCCTTCGAGC-TCGCACACCCAGTGCCGTATATTTCCAGCAT
1 GCACACTTAGTGCCATACACTTCCAGCAT-GCACACCCAGTGCCATATATTTCCAGCAT
* * **
234395722 GCACACTTAGTGCCATATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATACACTTCCAGCATGCACACCCAGTGCCATATATTTCCAGCAT
234395780 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
234395795 ATCTCGTCAC
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
58 63 0.98
59 1 0.02
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (58 bp):
GCACACTTAGTGCCATACACTTCCAGCATGCACACCCAGTGCCATATATTTCCAGCAT
Found at i:234403553 original size:29 final size:29
Alignment explanation
Indices: 234403529--234403622 Score: 179
Period size: 29 Copynumber: 3.2 Consensus size: 29
234403519 TCGCACACCC
*
234403529 AGTGCCGTATATTTCCAGCATGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
234403558 AGTGCCATATATTTCCAGCATGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
234403587 AGTGCCATATATTTCCAGCATGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
234403616 AGTGCCA
1 AGTGCCA
234403623 ATCTCGTCAC
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 64 1.00
ACGTcount: A:0.27, C:0.28, G:0.16, T:0.30
Consensus pattern (29 bp):
AGTGCCATATATTTCCAGCATGCACACTT
Found at i:234403554 original size:58 final size:58
Alignment explanation
Indices: 234403492--234403622 Score: 174
Period size: 58 Copynumber: 2.3 Consensus size: 58
234403482 ATTTAAGCCC
* * * *
234403492 GCACACATAGTGCCATACCCTTCGAGC-TCGCACACCCAGTGCCGTATATTTCCAGCAT
1 GCACACTTAGTGCCATACACTTCCAGCAT-GCACACCCAGTGCCATATATTTCCAGCAT
* * **
234403550 GCACACTTAGTGCCATATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATACACTTCCAGCATGCACACCCAGTGCCATATATTTCCAGCAT
234403608 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
234403623 ATCTCGTCAC
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
58 63 0.98
59 1 0.02
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (58 bp):
GCACACTTAGTGCCATACACTTCCAGCATGCACACCCAGTGCCATATATTTCCAGCAT
Found at i:234407641 original size:40 final size:40
Alignment explanation
Indices: 234407533--234407782 Score: 385
Period size: 40 Copynumber: 6.2 Consensus size: 40
234407523 CGGGATTTAA
* * * * *
234407533 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
234407573 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
234407613 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
234407653 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
234407693 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
234407733 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
234407773 CCGGATATAT
1 CCGGATATAT
234407783 TTCCAATGTT
Statistics
Matches: 193, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
39 1 0.01
40 192 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:234415804 original size:40 final size:40
Alignment explanation
Indices: 234415696--234415865 Score: 225
Period size: 40 Copynumber: 4.2 Consensus size: 40
234415686 CGGGATTTAA
* * * * *
234415696 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
234415736 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
234415776 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
234415816 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
234415856 CCGGATATAT
1 CCGGATATAT
234415866 TCCAATGTTC
Statistics
Matches: 113, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
39 1 0.01
40 112 0.99
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:234423289 original size:30 final size:30
Alignment explanation
Indices: 234423234--234423393 Score: 213
Period size: 29 Copynumber: 5.5 Consensus size: 30
234423224 ATAGTGAATC
234423234 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
234423263 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
234423293 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
* *
234423322 CGCACACTTAGTGCTGTATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AGCT
* * * * *
234423350 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAGCT
234423380 CGCACACTTAGTGC
1 CGCACACTTAGTGC
234423394 CAATCTTGTC
Statistics
Matches: 120, Mismatches: 5, Indels: 11
0.88 0.04 0.08
Matches are distributed among these distances:
27 2 0.02
28 23 0.19
29 47 0.39
30 47 0.39
31 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.33
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAGCT
Found at i:234423326 original size:59 final size:57
Alignment explanation
Indices: 234423234--234423393 Score: 214
Period size: 59 Copynumber: 2.8 Consensus size: 57
234423224 ATAGTGAATC
*
234423234 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTC-AGCT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAA---TCAAACT
*
234423293 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTGTATAATCAAACT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
* * * * *
234423350 CGCACACTTAGTGCTGTACAATTTTAAACCCGCACACTTAGTGC
1 CGCACACTTAGTGCTATA-TATTTTCAGCTCGCACACTTAGTGC
234423394 CAATCTTGTC
Statistics
Matches: 92, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
56 2 0.02
57 20 0.22
58 21 0.23
59 49 0.53
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.33
Consensus pattern (57 bp):
CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
Found at i:234439104 original size:68 final size:67
Alignment explanation
Indices: 234439032--234439181 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
234439022 CATCATGTGT
* * * *
234439032 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
234439094 ATGTAG
62 ATGTAG
** * *
234439100 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
234439165 AG
66 AG
234439167 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
234439182 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:234439137 original size:64 final size:64
Alignment explanation
Indices: 234439056--234439239 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
234439046 AGACATTATG
* *
234439056 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
234439120 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
234439185 AA
63 AA
* * * *
234439187 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
234439240 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:234439391 original size:17 final size:18
Alignment explanation
Indices: 234439369--234439406 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
234439359 GAACTTGGTT
234439369 ATGTGAA-TGATGTGTTC
1 ATGTGAAGTGATGTGTTC
234439386 ATGTGAAGGTGATGTGTTC
1 ATGTGAA-GTGATGTGTTC
234439405 AT
1 AT
234439407 TAAGTGACCA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.37
19 12 0.63
ACGTcount: A:0.24, C:0.05, G:0.32, T:0.39
Consensus pattern (18 bp):
ATGTGAAGTGATGTGTTC
Found at i:234447990 original size:71 final size:70
Alignment explanation
Indices: 234447901--234448063 Score: 299
Period size: 71 Copynumber: 2.3 Consensus size: 70
234447891 GAATGTTATC
*
234447901 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTGGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
234447966 AGGACA
66 A-GACA
*
234447972 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCATGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
234448037 AGACA
66 AGACA
234448042 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
234448064 AGACAAATCG
Statistics
Matches: 90, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
70 26 0.29
71 64 0.71
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGACA
Found at i:234453282 original size:13 final size:13
Alignment explanation
Indices: 234453266--234453294 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
234453256 AGATCCAAGA
234453266 TTTACCTCGAGAT
1 TTTACCTCGAGAT
234453279 TTTACCTCGAGAT
1 TTTACCTCGAGAT
234453292 TTT
1 TTT
234453295 GGAAAAGTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.21, C:0.21, G:0.14, T:0.45
Consensus pattern (13 bp):
TTTACCTCGAGAT
Found at i:234457642 original size:20 final size:20
Alignment explanation
Indices: 234457617--234457662 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
234457607 AATAGTGGAG
* *
234457617 GGGTTCGAATGTAAATTCAA
1 GGGTTCAAATGCAAATTCAA
234457637 GGGTTCAAATGCAAATTCAA
1 GGGTTCAAATGCAAATTCAA
234457657 GGGTTC
1 GGGTTC
234457663 TTCAAGGGCT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.28
Consensus pattern (20 bp):
GGGTTCAAATGCAAATTCAA
Found at i:234460656 original size:14 final size:14
Alignment explanation
Indices: 234460639--234460672 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
234460629 ACCACGGTAA
234460639 ATAAAACATAAATC
1 ATAAAACATAAATC
**
234460653 ATAAATTATAAATC
1 ATAAAACATAAATC
234460667 ATAAAA
1 ATAAAA
234460673 ATCCAAAAAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.65, C:0.09, G:0.00, T:0.26
Consensus pattern (14 bp):
ATAAAACATAAATC
Found at i:234460863 original size:6 final size:6
Alignment explanation
Indices: 234460852--234460876 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
234460842 TAAGCACCTT
234460852 TCAGTA TCAGTA TCAGTA TCAGTA T
1 TCAGTA TCAGTA TCAGTA TCAGTA T
234460877 GCACAAGGGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (6 bp):
TCAGTA
Found at i:234461928 original size:22 final size:20
Alignment explanation
Indices: 234461889--234461928 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
234461879 GCTGGAAATT
*
234461889 TCCTTGAAGTTTCTTGAACA
1 TCCTTGAAGTTCCTTGAACA
234461909 TCCTTGCAAGCTTCCTTGAA
1 TCCTTG-AAG-TTCCTTGAA
234461929 GTTTCCTAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 3 0.18
22 8 0.47
ACGTcount: A:0.23, C:0.25, G:0.15, T:0.38
Consensus pattern (20 bp):
TCCTTGAAGTTCCTTGAACA
Found at i:234462680 original size:24 final size:25
Alignment explanation
Indices: 234462653--234462707 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 25
234462643 GCAACAGCTA
*
234462653 ATTAATT-TGTTCTAA-ATTAGACAC
1 ATTAATTATGTCCTAAGA-TAGACAC
234462677 ATTAAATTATGTCCTAAGATAGACAC
1 ATT-AATTATGTCCTAAGATAGACAC
234462703 ATTAA
1 ATTAA
234462708 ACACATATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
24 3 0.11
25 6 0.22
26 17 0.63
27 1 0.04
ACGTcount: A:0.42, C:0.13, G:0.09, T:0.36
Consensus pattern (25 bp):
ATTAATTATGTCCTAAGATAGACAC
Found at i:234467775 original size:40 final size:39
Alignment explanation
Indices: 234467730--234467937 Score: 209
Period size: 40 Copynumber: 5.2 Consensus size: 39
234467720 CGGAATACAA
*
234467730 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
234467770 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
234467810 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** * * *
234467850 CCGGATTTAGTCACTAGCATAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
* * * * *
234467890 CCGGATTTAACTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
234467930 CCGGATAT
1 CCGGATAT
234467938 CATTTAATTG
Statistics
Matches: 142, Mismatches: 25, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
39 1 0.01
40 141 0.99
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:234467877 original size:80 final size:81
Alignment explanation
Indices: 234467730--234467935 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 81
234467720 CGGAATACAA
* * * *
234467730 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGA-TAGAACGACTTGCACAAAT
1 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
*
234467794 GCCTTCGGGTATTAGC
66 GCCTTCGGGTATTAAC
* * *
234467810 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTTAG-TC-ACTAGCATAAT
1 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGA-TTAGAACGACTAGCACAAA
*
234467873 TGCCTTCGGGTCTTAAC
65 TGCCTTCGGGTATTAAC
* * ** * *
234467890 CCGGATTTAACTACTAGCATAAATGTCTTCGGGACTTAGCCCGGAT
1 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT
234467936 ATCATTTAAT
Statistics
Matches: 109, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
79 1 0.01
80 104 0.95
81 1 0.01
82 3 0.03
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (81 bp):
CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
GCCTTCGGGTATTAAC
Found at i:234475816 original size:40 final size:39
Alignment explanation
Indices: 234475771--234475978 Score: 209
Period size: 40 Copynumber: 5.2 Consensus size: 39
234475761 CGGAATACAA
*
234475771 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
234475811 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
234475851 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** * * *
234475891 CCGGATTTAGTCACTAGCATAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
* * * * *
234475931 CCGGATTTAACTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
234475971 CCGGATAT
1 CCGGATAT
234475979 CATTTAATTG
Statistics
Matches: 142, Mismatches: 25, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
39 1 0.01
40 141 0.99
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:234475918 original size:80 final size:81
Alignment explanation
Indices: 234475771--234475976 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 81
234475761 CGGAATACAA
* * * *
234475771 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGA-TAGAACGACTTGCACAAAT
1 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
*
234475835 GCCTTCGGGTATTAGC
66 GCCTTCGGGTATTAAC
* * *
234475851 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTTAG-TC-ACTAGCATAAT
1 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGA-TTAGAACGACTAGCACAAA
*
234475914 TGCCTTCGGGTCTTAAC
65 TGCCTTCGGGTATTAAC
* * ** * *
234475931 CCGGATTTAACTACTAGCATAAATGTCTTCGGGACTTAGCCCGGAT
1 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT
234475977 ATCATTTAAT
Statistics
Matches: 109, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
79 1 0.01
80 104 0.95
81 1 0.01
82 3 0.03
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (81 bp):
CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
GCCTTCGGGTATTAAC
Found at i:234481294 original size:25 final size:26
Alignment explanation
Indices: 234481266--234481350 Score: 86
Period size: 25 Copynumber: 3.4 Consensus size: 26
234481256 CACACTAACG
234481266 GGAAGCTC-TGTCGAGCCATATAATA
1 GGAAGCTCATGTCGAGCCATATAATA
* * *
234481291 GGAAGCTCATGT-GAGTCATGTAATG
1 GGAAGCTCATGTCGAGCCATATAATA
** * *
234481316 GGAAGCTCAT-TCGAGCTGTGTAATG
1 GGAAGCTCATGTCGAGCCATATAATA
234481341 GGAAGCTCAT
1 GGAAGCTCAT
234481351 AAGAGCCATA
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
24 1 0.02
25 48 0.92
26 3 0.06
ACGTcount: A:0.28, C:0.16, G:0.29, T:0.26
Consensus pattern (26 bp):
GGAAGCTCATGTCGAGCCATATAATA
Found at i:234481356 original size:25 final size:25
Alignment explanation
Indices: 234481309--234481356 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
234481299 ATGTGAGTCA
**
234481309 TGTAATGGGAAGCTCATTCGAGCTG
1 TGTAATGGGAAGCTCATAAGAGCTG
234481334 TGTAATGGGAAGCTCATAAGAGC
1 TGTAATGGGAAGCTCATAAGAGC
234481357 CATAATTAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.29, C:0.15, G:0.31, T:0.25
Consensus pattern (25 bp):
TGTAATGGGAAGCTCATAAGAGCTG
Found at i:234482639 original size:10 final size:9
Alignment explanation
Indices: 234482612--234482638 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
234482602 ATAAGAGTAT
234482612 GAAAAAAAA
1 GAAAAAAAA
234482621 GAAAAAAAA
1 GAAAAAAAA
234482630 GAAAAAAAA
1 GAAAAAAAA
234482639 ATGTTCATCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (9 bp):
GAAAAAAAA
Found at i:234483997 original size:40 final size:40
Alignment explanation
Indices: 234483931--234484097 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
234483921 AAATTGAATG
* * *
234483931 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
234483970 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
234484010 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
234484050 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
234484090 ATATCCGG
1 ATATCCGG
234484098 TTATATTCCG
Statistics
Matches: 103, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
39 16 0.16
40 85 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:234495090 original size:29 final size:29
Alignment explanation
Indices: 234495057--234495187 Score: 106
Period size: 29 Copynumber: 4.6 Consensus size: 29
234495047 TGACGAGATC
*
234495057 GGCACTAAGTGTGCGTGCTGGAAATATAT
1 GGCACTAAGTGTGCGAGCTGGAAATATAT
* *
234495086 GGCACTAAGTGTGCAAGCTGGAAA-ATAC
1 GGCACTAAGTGTGCGAGCTGGAAATATAT
** * ***
234495114 GGCACTGGGTGTGCGAGCTCGAAGGGTAT
1 GGCACTAAGTGTGCGAGCTGGAAATATAT
** * *
234495143 GGCACTGTGTGTGCGGGCT-TAAAT-TACGT
1 GGCACTAAGTGTGCGAGCTGGAAATATA--T
234495172 GGCACTAAGTGTGCGA
1 GGCACTAAGTGTGCGA
234495188 AATCGAGTAG
Statistics
Matches: 81, Mismatches: 18, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
27 2 0.02
28 24 0.30
29 55 0.68
ACGTcount: A:0.24, C:0.17, G:0.35, T:0.24
Consensus pattern (29 bp):
GGCACTAAGTGTGCGAGCTGGAAATATAT
Found at i:234501639 original size:12 final size:12
Alignment explanation
Indices: 234501622--234501646 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
234501612 TATGTAGAAA
234501622 AAAAAAAAAATG
1 AAAAAAAAAATG
234501634 AAAAAAAAAATG
1 AAAAAAAAAATG
234501646 A
1 A
234501647 GCATGGATGC
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:0.84, C:0.00, G:0.08, T:0.08
Consensus pattern (12 bp):
AAAAAAAAAATG
Found at i:234502825 original size:29 final size:29
Alignment explanation
Indices: 234502792--234502865 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
234502782 GTGACGAGAT
234502792 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
234502821 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
234502850 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
234502866 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Done.