Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003805.1 Hibiscus syriacus cultivar Beakdansim tig00008145_pilon, whole genome shotgun sequence
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: 2300233
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 7 of 11
Found at i:1482806 original size:27 final size:27
Alignment explanation
Indices: 1482776--1482830 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
1482766 TACCTGATCT
1482776 GCGTCTTACCAAAGATATGTCGGATTC
1 GCGTCTTACCAAAGATATGTCGGATTC
1482803 GCGTCTTACCAAAGATATGTCGGATTC
1 GCGTCTTACCAAAGATATGTCGGATTC
1482830 G
1 G
1482831 GGAGTCGGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.25, C:0.22, G:0.24, T:0.29
Consensus pattern (27 bp):
GCGTCTTACCAAAGATATGTCGGATTC
Found at i:1483186 original size:28 final size:25
Alignment explanation
Indices: 1483136--1483193 Score: 64
Period size: 24 Copynumber: 2.2 Consensus size: 25
1483126 TAAATATTAG
*
1483136 ATAAAAATATATATAACAAAAAT-A
1 ATAAAAATATATACAACAAAAATAA
1483160 ATAAAAATATATACATACTAACTAAATAA
1 ATAAAAATATATACA-AC-AA--AAATAA
1483189 ATAAA
1 ATAAA
1483194 GTAAAAACGA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
24 14 0.50
25 2 0.07
26 2 0.07
28 4 0.14
29 6 0.21
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.26
Consensus pattern (25 bp):
ATAAAAATATATACAACAAAAATAA
Found at i:1484526 original size:15 final size:15
Alignment explanation
Indices: 1484501--1484543 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 15
1484491 CTGAAACATG
1484501 AAATAAAATAAAAAAT
1 AAAT-AAATAAAAAAT
*
1484517 AAATAAATAAATAAT
1 AAATAAATAAAAAAT
1484532 AAA-ATAATAAAA
1 AAATA-AATAAAA
1484544 TATGTGTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 1 0.04
15 19 0.79
16 4 0.17
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (15 bp):
AAATAAATAAAAAAT
Found at i:1484545 original size:20 final size:19
Alignment explanation
Indices: 1484501--1484542 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
1484491 CTGAAACATG
1484501 AAATAAAATAAAAAATAAAT
1 AAAT-AAATAAAAAATAAAT
1484521 AAATAAATAATAAAAT-AAT
1 AAATAAATAA-AAAATAAAT
1484540 AAA
1 AAA
1484543 ATATGTGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 12 0.57
20 9 0.43
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (19 bp):
AAATAAATAAAAAATAAAT
Found at i:1485188 original size:94 final size:94
Alignment explanation
Indices: 1485027--1485794 Score: 1257
Period size: 94 Copynumber: 8.1 Consensus size: 94
1485017 AAATTGGCTC
* * *
1485027 TGAAATTGGGAAATTGCTTATTGACAACCAGCGGTCCCTTCATCGTGAAGTTGAACTTGTGTTGT
1 TGAAATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1485092 CTGGAGTCCAATATCCTTCGTTGTGAAGT
66 CTGGAGTCCAATATCCTTCGTTGTGAAGT
*
1485121 TGAAATTGGGAAATTGTTTATTGACAATCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1 TGAAATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
*
1485186 CTGGAGTCCAATATCCTTCGTTATGAAGT
66 CTGGAGTCCAATATCCTTCGTTGTGAAGT
* * *
1485215 TGAGATTGGGAAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGT
1 TGAAATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1485280 CTGGAGTCCAATATCCTTCGTTGTGAAGT
66 CTGGAGTCCAATATCCTTCGTTGTGAAGT
* ** *
1485309 TGAAATTGGGAAATTATCGATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGT
1 TGAAATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1485374 CTGGAGTCCAATATCCTTCGTTGTGAAGT
66 CTGGAGTCCAATATCCTTCGTTGTGAAGT
1485403 TGAAATTGGCTCTGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCG
1 TGAAATTGG----GAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCG
* *
1485468 TTGTCTGGAGTCCAATATCCTTCATTGTGATGT
62 TTGTCTGGAGTCCAATATCCTTCGTTGTGAAGT
* * * *
1485501 TGAAATTGGGAGATTGTTTGTTGATAACCAGTGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1 TGAAATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1485566 CTGGAGTCCAATATCCTTCGTTGTGAAGT
66 CTGGAGTCCAATATCCTTCGTTGTGAAGT
* *
1485595 TGAAATTGGGAAATTGTTGATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGT
1 TGAAATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
*
1485660 CTAGAGTCCAATATCCTTCGTTGTGAAGT
66 CTGGAGTCCAATATCCTTCGTTGTGAAGT
1485689 TGAAATTGGCTCTGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCG
1 TGAAATTGG----GAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCG
* *
1485754 TTGTCTGGAGTCCAATATCCTTCATTATGAAGT
62 TTGTCTGGAGTCCAATATCCTTCGTTGTGAAGT
1485787 TGAAATTG
1 TGAAATTG
1485795 CCTCTGGGTA
Statistics
Matches: 627, Mismatches: 39, Indels: 12
0.92 0.06 0.02
Matches are distributed among these distances:
94 451 0.72
98 176 0.28
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (94 bp):
TGAAATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
CTGGAGTCCAATATCCTTCGTTGTGAAGT
Found at i:1485539 original size:286 final size:285
Alignment explanation
Indices: 1485027--1485794 Score: 1328
Period size: 286 Copynumber: 2.7 Consensus size: 285
1485017 AAATTGGCTC
* * * *
1485027 TGAAATTGGGAAATTGCTTATTGACAACCAGCGGTCCCTTCATCGTGAAGTTGAACTTGTGTTGT
1 TGAAATTGGGAAATTTC-GATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
*
1485092 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGG----GAAATTGTTTATTGACAATCAGC
65 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGTTTATTGACAACCAGC
*
1485153 GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTATGAAGTTGA
130 GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCATTATGAAGTTGA
*
1485218 GATTGGGAAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTG
195 AATTGGGAAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTG
1485283 GAGTCCAATATCCTTCGTTGTGAAGT
260 GAGTCCAATATCCTTCGTTGTGAAGT
*
1485309 TGAAATTGGGAAATTATCGATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGT
1 TGAAATTGGGAAATT-TCGATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1485374 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGTTTATTGACAACCAGC
65 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGTTTATTGACAACCAGC
* *
1485439 GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCATTGTGATGTTGA
130 GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCATTATGAAGTTGA
* * * *
1485504 AATTGGGAGATTGTTTGTTGATAACCAGTGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
195 AATTGGGAAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTG
1485569 GAGTCCAATATCCTTCGTTGTGAAGT
260 GAGTCCAATATCCTTCGTTGTGAAGT
* *
1485595 TGAAATTGGGAAATTGTTGATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGT
1 TGAAATTGGGAAATT-TCGATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
*
1485660 CTAGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGTTTATTGACAACCAGC
65 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGTTTATTGACAACCAGC
1485725 GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCATTATGAAGTTGA
130 GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCATTATGAAGTTGA
1485790 AATTG
195 AATTG
1485795 CCTCTGGGTA
Statistics
Matches: 460, Mismatches: 21, Indels: 6
0.94 0.04 0.01
Matches are distributed among these distances:
282 96 0.21
283 1 0.00
286 363 0.79
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (285 bp):
TGAAATTGGGAAATTTCGATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTC
TGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGTTTATTGACAACCAGCG
GTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCATTATGAAGTTGAA
ATTGGGAAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGG
AGTCCAATATCCTTCGTTGTGAAGT
Found at i:1486571 original size:11 final size:11
Alignment explanation
Indices: 1486557--1486600 Score: 54
Period size: 11 Copynumber: 4.0 Consensus size: 11
1486547 CTTTCGTTTG
1486557 TTTTTCTATTT
1 TTTTTCTATTT
*
1486568 TTTTCTCTTTTT
1 TTTT-TCTATTT
1486580 TTTTTCT-TTT
1 TTTTTCTATTT
*
1486590 TTTTTCAATTT
1 TTTTTCTATTT
1486601 AGGGCGCCAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
10 9 0.31
11 10 0.34
12 10 0.34
ACGTcount: A:0.07, C:0.11, G:0.00, T:0.82
Consensus pattern (11 bp):
TTTTTCTATTT
Found at i:1486583 original size:13 final size:12
Alignment explanation
Indices: 1486565--1486594 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
1486555 TGTTTTTCTA
1486565 TTTTTTTCTCTTT
1 TTTTTTTCT-TTT
1486578 TTTTTTTCTTTT
1 TTTTTTTCTTTT
1486590 TTTTT
1 TTTTT
1486595 CAATTTAGGG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.47
13 9 0.53
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (12 bp):
TTTTTTTCTTTT
Found at i:1486589 original size:10 final size:10
Alignment explanation
Indices: 1486557--1486595 Score: 51
Period size: 10 Copynumber: 3.6 Consensus size: 10
1486547 CTTTCGTTTG
1486557 TTTTTCTATTT
1 TTTTTCT-TTT
1486568 TTTTCTCTTTTT
1 TTTT-TC-TTTT
1486580 TTTTTCTTTT
1 TTTTTCTTTT
1486590 TTTTTC
1 TTTTTC
1486596 AATTTAGGGC
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
10 10 0.38
11 6 0.23
12 9 0.35
13 1 0.04
ACGTcount: A:0.03, C:0.13, G:0.00, T:0.85
Consensus pattern (10 bp):
TTTTTCTTTT
Found at i:1497164 original size:14 final size:14
Alignment explanation
Indices: 1497136--1497189 Score: 58
Period size: 15 Copynumber: 3.8 Consensus size: 14
1497126 TAAAAACAAT
*
1497136 AAAAATATTAGATAA
1 AAAAATA-TATATAA
1497151 AAAAATATATATAA
1 AAAAATATATATAA
1497165 CAAAAATA-ATA-AA
1 -AAAAATATATATAA
1497178 ATAAAATATATA
1 A-AAAATATATA
1497190 CATACTAACT
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
12 1 0.03
13 8 0.23
14 12 0.34
15 14 0.40
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (14 bp):
AAAAATATATATAA
Found at i:1499777 original size:16 final size:17
Alignment explanation
Indices: 1499743--1499778 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
1499733 CATTACTTTA
*
1499743 GATATCCGAAATTTTCG
1 GATATCCGAAATATTCG
1499760 GATATCCGAAA-ATTCG
1 GATATCCGAAATATTCG
1499776 GAT
1 GAT
1499779 TAAATAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 7 0.39
17 11 0.61
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Consensus pattern (17 bp):
GATATCCGAAATATTCG
Found at i:1501403 original size:13 final size:13
Alignment explanation
Indices: 1501387--1501424 Score: 51
Period size: 12 Copynumber: 2.9 Consensus size: 13
1501377 AAATTTATTT
*
1501387 ATTATGTTGAAAA
1 ATTATATTGAAAA
1501400 ATTA-ATTGAAAA
1 ATTATATTGAAAA
1501412 ATTATATATGAAA
1 ATTATAT-TGAAA
1501425 TTATAAAAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
12 11 0.50
13 6 0.27
14 5 0.23
ACGTcount: A:0.53, C:0.00, G:0.11, T:0.37
Consensus pattern (13 bp):
ATTATATTGAAAA
Found at i:1502163 original size:12 final size:12
Alignment explanation
Indices: 1502146--1502173 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
1502136 TGTTGGTACA
1502146 AATTAAATTTAT
1 AATTAAATTTAT
1502158 AATTAAATTTAT
1 AATTAAATTTAT
1502170 AATT
1 AATT
1502174 TATTATTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (12 bp):
AATTAAATTTAT
Found at i:1502454 original size:45 final size:45
Alignment explanation
Indices: 1502392--1502507 Score: 142
Period size: 50 Copynumber: 2.5 Consensus size: 45
1502382 TAAGTATGCA
* *
1502392 TTAAGTGCTACATTTTTTTATTCACTTACACTAGTGTAGCATGTG
1 TTAAGTGCTACACTTTTTTATTCACTAACACTAGTGTAGCATGTG
* *
1502437 TTAAGTGTTACACTTTTTTATTTTATTCACTAACACTAGTGTAGTATGTG
1 TTAAGTGCTACAC----TT-TTTTATTCACTAACACTAGTGTAGCATGTG
*
1502487 TTAAGTGCTATACTTTTTTAT
1 TTAAGTGCTACACTTTTTTAT
1502508 GTTATTCATT
Statistics
Matches: 60, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
45 17 0.28
46 2 0.03
49 2 0.03
50 39 0.65
ACGTcount: A:0.25, C:0.13, G:0.14, T:0.48
Consensus pattern (45 bp):
TTAAGTGCTACACTTTTTTATTCACTAACACTAGTGTAGCATGTG
Found at i:1502473 original size:50 final size:50
Alignment explanation
Indices: 1502407--1502555 Score: 217
Period size: 50 Copynumber: 3.0 Consensus size: 50
1502397 TGCTACATTT
* *
1502407 TTTTATTCACTTACACTAGTGTAGCATGTGTTAAGTGTTACACTTTTTTA
1 TTTTATTCACTTACACTAGTGTAGTATGTGTTAAGTGCTACACTTTTTTA
* *
1502457 TTTTATTCACTAACACTAGTGTAGTATGTGTTAAGTGCTATACTTTTTTA
1 TTTTATTCACTTACACTAGTGTAGTATGTGTTAAGTGCTACACTTTTTTA
* * * *
1502507 TGTTATTCATTTACACTTGTGTAAGTATGTGTTAAGTACTACACTTTTT
1 TTTTATTCACTTACACTAGTGT-AGTATGTGTTAAGTGCTACACTTTTT
1502556 GTAATATAAA
Statistics
Matches: 88, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
50 64 0.73
51 24 0.27
ACGTcount: A:0.25, C:0.13, G:0.14, T:0.48
Consensus pattern (50 bp):
TTTTATTCACTTACACTAGTGTAGTATGTGTTAAGTGCTACACTTTTTTA
Found at i:1503071 original size:13 final size:13
Alignment explanation
Indices: 1503053--1503083 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
1503043 AAATGACAAA
1503053 ACACAAACATCCT
1 ACACAAACATCCT
*
1503066 ACACAAACATCTT
1 ACACAAACATCCT
1503079 ACACA
1 ACACA
1503084 TATATACACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.48, C:0.35, G:0.00, T:0.16
Consensus pattern (13 bp):
ACACAAACATCCT
Found at i:1512561 original size:32 final size:32
Alignment explanation
Indices: 1512520--1512585 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
1512510 CAGAGTTCAA
*
1512520 CTAAATATCAGTGAATGGCGCACGTTTTTCTT
1 CTAAATATCAGTGAATGACGCACGTTTTTCTT
1512552 CTAAATATCAGTGAATGACGCACGTTTTTCTT
1 CTAAATATCAGTGAATGACGCACGTTTTTCTT
1512584 CT
1 CT
1512586 CTGGGCTCTG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.26, C:0.20, G:0.17, T:0.38
Consensus pattern (32 bp):
CTAAATATCAGTGAATGACGCACGTTTTTCTT
Found at i:1512899 original size:23 final size:23
Alignment explanation
Indices: 1512873--1512919 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
1512863 TATTCCTGGG
1512873 GTTGGATCGGTTATTTCTAAGGA
1 GTTGGATCGGTTATTTCTAAGGA
1512896 GTTGGATCGGTTATTTCTAAGGA
1 GTTGGATCGGTTATTTCTAAGGA
1512919 G
1 G
1512920 GGTTTGGTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.21, C:0.09, G:0.32, T:0.38
Consensus pattern (23 bp):
GTTGGATCGGTTATTTCTAAGGA
Found at i:1513174 original size:54 final size:54
Alignment explanation
Indices: 1513115--1513222 Score: 207
Period size: 54 Copynumber: 2.0 Consensus size: 54
1513105 TCCTCCGATT
*
1513115 GGGAGGGATGGGTAGGTGTTGGTTAAGCCTCCTCAGGAAGTCTTAAATCTTGGG
1 GGGAGGGATGGGCAGGTGTTGGTTAAGCCTCCTCAGGAAGTCTTAAATCTTGGG
1513169 GGGAGGGATGGGCAGGTGTTGGTTAAGCCTCCTCAGGAAGTCTTAAATCTTGGG
1 GGGAGGGATGGGCAGGTGTTGGTTAAGCCTCCTCAGGAAGTCTTAAATCTTGGG
1513223 TCTCAATAGT
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.20, C:0.14, G:0.39, T:0.27
Consensus pattern (54 bp):
GGGAGGGATGGGCAGGTGTTGGTTAAGCCTCCTCAGGAAGTCTTAAATCTTGGG
Found at i:1514133 original size:41 final size:38
Alignment explanation
Indices: 1514038--1514134 Score: 90
Period size: 41 Copynumber: 2.5 Consensus size: 38
1514028 AAAATGTTAG
*
1514038 ATAAATAAAATAAA-ATAAATGATAAAATAAATAAAGAA
1 ATAAATAAAATAAAGA-AAATAATAAAATAAATAAAGAA
** * *
1514076 ATTTATAATATTAAGAAAA-AACTAAAATTACAACTAAAGAA
1 ATAAATAAAATAAAGAAAATAA-TAAAA-TA-AA-TAAAGAA
1514117 ATAAATAAAATAAAGAAA
1 ATAAATAAAATAAAGAAA
1514135 CATGAACAAA
Statistics
Matches: 45, Mismatches: 9, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
37 1 0.02
38 18 0.40
39 3 0.07
40 2 0.04
41 21 0.47
ACGTcount: A:0.69, C:0.03, G:0.05, T:0.23
Consensus pattern (38 bp):
ATAAATAAAATAAAGAAAATAATAAAATAAATAAAGAA
Found at i:1514304 original size:30 final size:33
Alignment explanation
Indices: 1514247--1514308 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
1514237 AAAGTATATA
1514247 ATAAAAAATAATAATAATAAACAATATATACAC
1 ATAAAAAATAATAATAATAAACAATATATACAC
*
1514280 ATAAAAAATGATAA-AA-AAAC-ATATATACA
1 ATAAAAAATAATAATAATAAACAATATATACA
1514309 AAATTAACAG
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
30 9 0.32
31 4 0.14
32 2 0.07
33 13 0.46
ACGTcount: A:0.68, C:0.08, G:0.02, T:0.23
Consensus pattern (33 bp):
ATAAAAAATAATAATAATAAACAATATATACAC
Found at i:1515562 original size:37 final size:36
Alignment explanation
Indices: 1515512--1515917 Score: 386
Period size: 37 Copynumber: 11.0 Consensus size: 36
1515502 TCAAAAAACA
* *
1515512 TTTT-AAAATTATATATTATATATA-TTT-AAAACGT
1 TTTTAAAAACTATATATTATATATATTTTCAAAA-AT
* * *
1515546 TTTTCAAAAAACTATATATTATATATTTTTTTAAATAT
1 TTTT--AAAAACTATATATTATATATATTTTCAAAAAT
* *
1515584 TTTTAAAAACTATATGTTATATTTATGTTTTC-AAAAT
1 TTTTAAAAACTATATATTATA--TATATTTTCAAAAAT
* *
1515621 ATTTCAAAAACTATATATTATATATATGTTTTC--AATT
1 -TTTTAAAAACTATATATTATATATA--TTTTCAAAAAT
1515658 TTTTAAAAAACTATATATTATATA-AGTTTTCAAAAAT
1 TTTT-AAAAACTATATATTATATATA-TTTTCAAAAAT
* *
1515695 GTTTTCAAAACTATATATTGTATA-AGTTTTCAAAAAT
1 -TTTTAAAAACTATATATTATATATA-TTTTCAAAAAT
*
1515732 GTTTTCAAAACTATATATTATATA-AGTTTTC-AAAAT
1 -TTTTAAAAACTATATATTATATATA-TTTTCAAAAAT
*
1515768 GATTTTAAAAACTATATATTATATATATATTTTCTAAAAT
1 --TTTTAAAAACTATATA-T-TATATATATTTTCAAAAAT
1515808 GTTTTAAAAACTATATATTATATA-ATTTTCAAAAAT
1 -TTTTAAAAACTATATATTATATATATTTTCAAAAAT
*
1515844 GTTTTAAAAATTATATATTATATATATTTTC-AAAAT
1 -TTTTAAAAACTATATATTATATATATTTTCAAAAAT
*
1515880 GTTTTAAAAGCTATATATTATATACGTATTTTCAAAAA
1 -TTTTAAAAACTATATATTATATA--TATTTTCAAAAA
1515918 CCATTTGCAA
Statistics
Matches: 325, Mismatches: 24, Indels: 41
0.83 0.06 0.11
Matches are distributed among these distances:
34 4 0.01
35 6 0.02
36 89 0.27
37 134 0.41
38 52 0.16
39 34 0.10
40 6 0.02
ACGTcount: A:0.43, C:0.06, G:0.04, T:0.47
Consensus pattern (36 bp):
TTTTAAAAACTATATATTATATATATTTTCAAAAAT
Found at i:1515933 original size:111 final size:112
Alignment explanation
Indices: 1515512--1515917 Score: 439
Period size: 111 Copynumber: 3.7 Consensus size: 112
1515502 TCAAAAAACA
* * *
1515512 TTTT-AAAATTATATATTATATATA--TTT-AAAACGTTTTTCAAAAAACTATATATTATATA-T
1 TTTTAAAAACTATATATTATATATAGTTTTCAAAATGATTTT-AAAAAACTATATATTATATAGT
* * * * * *
1515572 TTTTTTAAATATTTTTAAAAACTATATGTTATATTTATGTTTTC-AAAATA
65 ATTTTCAAAAATTTTTAAAAACTATATATTATA--TA-ATTTTCAAAAATG
* *
1515622 TTTCAAAAACTATATATTATATATATGTTTTC--AAT-TTTTTAAAAAACTATATATTATATA--
1 TTTTAAAAACTATATATTATATATA-GTTTTCAAAATGATTTTAAAAAACTATATATTATATAGT
* *
1515682 AGTTTTCAAAAATGTTTTCAAAACTATATATTGTATAAGTTTTCAAAAATG
65 A-TTTTCAAAAAT-TTTTAAAAACTATATATTATATAA-TTTTCAAAAATG
* *
1515733 TTTTCAAAACTATATATTATATA-AGTTTTCAAAATGATTTT-AAAAACTATATATTATATATAT
1 TTTTAAAAACTATATATTATATATAGTTTTCAAAATGATTTTAAAAAACTATATATTATATA-GT
*
1515796 ATTTTCTAAAATGTTTTAAAAACTATATATTATATAATTTTCAAAAATG
65 ATTTTCAAAAAT-TTTTAAAAACTATATATTATATAATTTTCAAAAATG
* *
1515845 TTTTAAAAATTATATATTATATATA-TTTTCAAAATG-TTTT-AAAAGCTATATATTATATACGT
1 TTTTAAAAACTATATATTATATATAGTTTTCAAAATGATTTTAAAAAACTATATATTATATA-GT
1515907 ATTTTCAAAAA
65 ATTTTCAAAAA
1515918 CCATTTGCAA
Statistics
Matches: 257, Mismatches: 23, Indels: 31
0.83 0.07 0.10
Matches are distributed among these distances:
109 6 0.02
110 11 0.04
111 129 0.50
112 71 0.28
113 36 0.14
114 4 0.02
ACGTcount: A:0.43, C:0.06, G:0.04, T:0.47
Consensus pattern (112 bp):
TTTTAAAAACTATATATTATATATAGTTTTCAAAATGATTTTAAAAAACTATATATTATATAGTA
TTTTCAAAAATTTTTAAAAACTATATATTATATAATTTTCAAAAATG
Found at i:1515979 original size:2 final size:2
Alignment explanation
Indices: 1515930--1515962 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
1515920 ATTTGCAAAC
*
1515930 TA TA -A TA TA TA TA TA TA TA TA TA TA TG TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1515963 AAATAAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
TA
Found at i:1516741 original size:85 final size:85
Alignment explanation
Indices: 1516582--1516991 Score: 452
Period size: 85 Copynumber: 4.8 Consensus size: 85
1516572 ATGTATCACC
* * * * * * *
1516582 GAGCTGAATGGAATCAAACTCGACA-ATTTTTGTTAACAGATAG--CTTTTCTCGACTTAAGCTA
1 GAGCTGAATGTAATCGAACTCGA-AGGTCTTTGTTGACAGATAGCCCTTTTCTC--CTTGAGTTA
* *
1516644 TGTTGTAAATTTGACATGCCTTT
63 TGCTGTAAATTTGATATGCCTTT
* * * ** *
1516667 GAGTTGAGTGTAATCCAACTCGAAGGTC-TTGATTGACAGATAGCCCTCATCGCCTTGAGTTATG
1 GAGCTGAATGTAATCGAACTCGAAGGTCTTTG-TTGACAGATAGCCCTTTTCTCCTTGAGTTATG
*
1516731 TTGTAAATTTGATATGCCTTT
65 CTGTAAATTTGATATGCCTTT
* *
1516752 GAGCTGAATGTAATCGAACTCGAAGGTCTTTGTTGACATATAGCCCTTTTCTCCTTGAGCTATGC
1 GAGCTGAATGTAATCGAACTCGAAGGTCTTTGTTGACAGATAGCCCTTTTCTCCTTGAGTTATGC
*
1516817 TGTAAATTTGATGTGCCTTT
66 TGTAAATTTGATATGCCTTT
* * * * *
1516837 GAGCTGAGTGTAATCGAACTCGAAGGTCTTGGTTGACAGATAACCCTTTTTTCCTTGAGTTATAC
1 GAGCTGAATGTAATCGAACTCGAAGGTCTTTGTTGACAGATAGCCCTTTTCTCCTTGAGTTATGC
* *
1516902 TGTAAATTGGATGTGCCTTT
66 TGTAAATTTGATATGCCTTT
* * * * * *
1516922 GAGCTGAATGTAATCGAGCTCAAAGGTCTTTGTTGACAGATAGTCCTTCTCGT-CTTTAGCTATG
1 GAGCTGAATGTAATCGAACTCGAAGGTCTTTGTTGACAGATAGCCCTTTTC-TCCTTGAGTTATG
1516986 CTGTAA
65 CTGTAA
1516992 TAGGCTGTGA
Statistics
Matches: 277, Mismatches: 42, Indels: 12
0.84 0.13 0.04
Matches are distributed among these distances:
84 4 0.01
85 264 0.95
86 4 0.01
87 5 0.02
ACGTcount: A:0.25, C:0.18, G:0.21, T:0.36
Consensus pattern (85 bp):
GAGCTGAATGTAATCGAACTCGAAGGTCTTTGTTGACAGATAGCCCTTTTCTCCTTGAGTTATGC
TGTAAATTTGATATGCCTTT
Found at i:1517325 original size:25 final size:25
Alignment explanation
Indices: 1517297--1517348 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
1517287 CCAATCTTGT
1517297 GTAAATTTCACCAAATT-GATTTTGA
1 GTAAATTTCACCAAATTGGA-TTTGA
**
1517322 GTAAATTTTGCCAAATTGGATTTGA
1 GTAAATTTCACCAAATTGGATTTGA
1517347 GT
1 GT
1517349 TGGATATCCT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 22 0.92
26 2 0.08
ACGTcount: A:0.33, C:0.10, G:0.17, T:0.40
Consensus pattern (25 bp):
GTAAATTTCACCAAATTGGATTTGA
Found at i:1517561 original size:156 final size:156
Alignment explanation
Indices: 1517342--1517630 Score: 434
Period size: 156 Copynumber: 1.9 Consensus size: 156
1517332 CCAAATTGGA
* * * * *
1517342 TTTGAGTTGGATATCCTTCGTTGTGAAGTTGAAATCCAATCTTGTGCAGGTTGCATCATTTCGAG
1 TTTGAATTGGATATCATTCGTTGTGAAGTTGAAATCCAATCTTGTGCAAGTTACATCATTTCGAA
* * *
1517407 TCCAATATACTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAATTGGAAAGTTATTTGTTGACA
66 TCCAATATACTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAATTATTTATTGACA
1517472 GACGCTCCTTCGCTGTGAAGTTGAGC
131 GACGCTCCTTCGCTGTGAAGTTGAGC
* * * * **
1517498 TTTGAATTGTATATCATTTGTTGTGAAGTTGAAATCCAATCTTGTGTAAGTTACGTTGTTTCGAA
1 TTTGAATTGGATATCATTCGTTGTGAAGTTGAAATCCAATCTTGTGCAAGTTACATCATTTCGAA
* *
1517563 TCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAATGAAACTGGAAAATTATTTATTGACA
66 TCCAATATACTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAATTATTTATTGACA
1517628 GAC
131 GAC
1517631 AGCTTTTCTT
Statistics
Matches: 117, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
156 117 1.00
ACGTcount: A:0.27, C:0.15, G:0.22, T:0.37
Consensus pattern (156 bp):
TTTGAATTGGATATCATTCGTTGTGAAGTTGAAATCCAATCTTGTGCAAGTTACATCATTTCGAA
TCCAATATACTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAATTATTTATTGACA
GACGCTCCTTCGCTGTGAAGTTGAGC
Found at i:1519142 original size:99 final size:99
Alignment explanation
Indices: 1518970--1519171 Score: 316
Period size: 99 Copynumber: 2.0 Consensus size: 99
1518960 GGACAGCTCA
1518970 ATATTATAATCACCTTTATCAGGCTAGCTGAATCTTATCCATAAAGCTAGGGAGTTTAACCAATT
1 ATATTATAATCACCTTTATCAGGCTAGCTGAATCTTATCCATAAAGCTAGGGAGTTTAACCAATT
*
1519035 ACCTTAGAGGGACAACTCAAGCTTTATTGTATAG
66 ACCTTAGAGGGACAACTCAAACTTTATTGTATAG
* * * *
1519069 ATATTATAATCACCTTTATCAGGTTAGCTTAATCTTATCCATAAAGCTGGGGCGTTTAACCAATT
1 ATATTATAATCACCTTTATCAGGCTAGCTGAATCTTATCCATAAAGCTAGGGAGTTTAACCAATT
** *
1519134 A-CTCTAGAGGGACAGTTCAAACTTTATTGTATAT
66 ACCT-TAGAGGGACAACTCAAACTTTATTGTATAG
1519168 ATAT
1 ATAT
1519172 AATATTATAA
Statistics
Matches: 94, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
98 2 0.02
99 92 0.98
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (99 bp):
ATATTATAATCACCTTTATCAGGCTAGCTGAATCTTATCCATAAAGCTAGGGAGTTTAACCAATT
ACCTTAGAGGGACAACTCAAACTTTATTGTATAG
Found at i:1524557 original size:6 final size:6
Alignment explanation
Indices: 1524544--1524577 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
1524534 TGAAAACGAA
*
1524544 AAAAAT AAATAT AAAAAT -AAAAT AAAAAT AAAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAA
1524578 CCAATATATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
5 5 0.20
6 20 0.80
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (6 bp):
AAAAAT
Found at i:1524567 original size:17 final size:17
Alignment explanation
Indices: 1524545--1524577 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
1524535 GAAAACGAAA
*
1524545 AAAATAAATATAAAAAT
1 AAAATAAAAATAAAAAT
1524562 AAAATAAAAATAAAAA
1 AAAATAAAAATAAAAA
1524578 CCAATATATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (17 bp):
AAAATAAAAATAAAAAT
Found at i:1524568 original size:11 final size:11
Alignment explanation
Indices: 1524544--1524576 Score: 57
Period size: 11 Copynumber: 2.9 Consensus size: 11
1524534 TGAAAACGAA
1524544 AAAAATAAATAT
1 AAAAATAAA-AT
1524556 AAAAATAAAAT
1 AAAAATAAAAT
1524567 AAAAATAAAA
1 AAAAATAAAA
1524577 ACCAATATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 12 0.57
12 9 0.43
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (11 bp):
AAAAATAAAAT
Found at i:1524682 original size:38 final size:36
Alignment explanation
Indices: 1524632--1525058 Score: 443
Period size: 38 Copynumber: 11.4 Consensus size: 36
1524622 ATTTTCAAAT
*
1524632 TATATATTATATATA-TTTAAAAACGTTTTTCAAAAAAC
1 TATATATTATATATATTTTAAAAATG-TTTT--AAAAAC
*
1524670 TATATATTATATAT-TTTTAAAAATATTTTTAAAAAC
1 TATATATTATATATATTTTAAAAAT-GTTTTAAAAAC
* *
1524706 TATATATTGTATATATGTTTTCAAAATGTTTTAAAAAC
1 TATATA-T-TATATATATTTTAAAAATGTTTTAAAAAC
* *
1524744 TATATATTATATATATGTTTTCAAAATGTTTTTAAAAC
1 TATATATTATATATA--TTTTAAAAATGTTTTAAAAAC
* *
1524782 TATATATTGTATA-AGTTTTCAAAAATGTTTTCAAAAC
1 TATATATTATATATA-TTTT-AAAAATGTTTTAAAAAC
*
1524819 TATATATTATATA-AGTTTTCAAAAATGTTTTCAAAAC
1 TATATATTATATATA-TTTT-AAAAATGTTTTAAAAAC
*
1524856 TATATATTATATA-AGTTTTCAAAATGATTTTTAAAAAC
1 TATATATTATATATA-TTTTAAAAATG--TTTTAAAAAC
* *
1524894 TATATCTTATATATATTTTCTAAAATGTTTTAAAAAC
1 TATATATTATATATATTTT-AAAAATGTTTTAAAAAC
*
1524931 TATATATTATATAGT-TTTCAAAAATGTTTTAAAAAC
1 TATATATTATATA-TATTTTAAAAATGTTTTAAAAAC
*
1524967 TATATATTATATATATTTTCAAAATGTTTTAAAAAC
1 TATATATTATATATATTTTAAAAATGTTTTAAAAAC
* *** **
1525003 TATATAGTATATACATATTTTCAAAAACCATTTGCAAAC
1 TATATA-T-TATATATATTTT-AAAAATGTTTTAAAAAC
1525042 TATATATATATATATAT
1 TATATAT-TATATATAT
1525059 ATATATATAT
Statistics
Matches: 345, Mismatches: 27, Indels: 34
0.85 0.07 0.08
Matches are distributed among these distances:
35 1 0.00
36 84 0.24
37 99 0.29
38 128 0.37
39 33 0.10
ACGTcount: A:0.43, C:0.07, G:0.04, T:0.45
Consensus pattern (36 bp):
TATATATTATATATATTTTAAAAATGTTTTAAAAAC
Found at i:1524697 original size:12 final size:12
Alignment explanation
Indices: 1524680--1524704 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1524670 TATATATTAT
1524680 ATATTTTTAAAA
1 ATATTTTTAAAA
1524692 ATATTTTTAAAA
1 ATATTTTTAAAA
1524704 A
1 A
1524705 CTATATATTG
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
ATATTTTTAAAA
Found at i:1524813 original size:12 final size:12
Alignment explanation
Indices: 1524796--1524854 Score: 50
Period size: 12 Copynumber: 4.8 Consensus size: 12
1524786 TATTGTATAA
1524796 GTTTTCAAAAAT
1 GTTTTCAAAAAT
1524808 GTTTTCAAAACTAT
1 GTTTTCAAAA--AT
* * *
1524822 ATATT-ATATAA-
1 GTTTTCA-AAAAT
1524833 GTTTTCAAAAAT
1 GTTTTCAAAAAT
1524845 GTTTTCAAAA
1 GTTTTCAAAA
1524855 CTATATATTA
Statistics
Matches: 36, Mismatches: 6, Indels: 10
0.69 0.12 0.19
Matches are distributed among these distances:
11 6 0.17
12 22 0.61
13 1 0.03
14 7 0.19
ACGTcount: A:0.42, C:0.08, G:0.07, T:0.42
Consensus pattern (12 bp):
GTTTTCAAAAAT
Found at i:1524818 original size:37 final size:36
Alignment explanation
Indices: 1524664--1525015 Score: 469
Period size: 37 Copynumber: 9.5 Consensus size: 36
1524654 ACGTTTTTCA
* * *
1524664 AAAAACTATATATTATAT-ATTTTTAAAAATATTTTT
1 AAAAACTATATATTATATAAGTTTTCAAAAT-GTTTT
*
1524700 AAAAACTATATATTGTATATATGTTTTCAAAATGTTTT
1 AAAAACTATATA-T-TATATAAGTTTTCAAAATGTTTT
1524738 AAAAACTATATATTATATATATGTTTTCAAAATGTTTT
1 AAAAACTATATATTATATA-A-GTTTTCAAAATGTTTT
* *
1524776 TAAAACTATATATTGTATAAGTTTTCAAAAATGTTTT
1 AAAAACTATATATTATATAAGTTTTC-AAAATGTTTT
*
1524813 CAAAACTATATATTATATAAGTTTTCAAAAATGTTTT
1 AAAAACTATATATTATATAAGTTTTC-AAAATGTTTT
*
1524850 CAAAACTATATATTATATAAGTTTTCAAAATGATTTTT
1 AAAAACTATATATTATATAAGTTTTCAAAATG--TTTT
*
1524888 AAAAACTATATCTTATATATA-TTTTCTAAAATGTTTT
1 AAAAACTATATATTATATA-AGTTTTC-AAAATGTTTT
1524925 AAAAACTATATATTATAT-AGTTTTCAAAAATGTTTT
1 AAAAACTATATATTATATAAGTTTTC-AAAATGTTTT
1524961 AAAAACTATATATTATATATA-TTTTCAAAATGTTTT
1 AAAAACTATATATTATATA-AGTTTTCAAAATGTTTT
*
1524997 AAAAACTATATAGTATATA
1 AAAAACTATATATTATATA
1525016 CATATTTTCA
Statistics
Matches: 289, Mismatches: 14, Indels: 26
0.88 0.04 0.08
Matches are distributed among these distances:
35 1 0.00
36 91 0.31
37 100 0.35
38 81 0.28
39 16 0.06
ACGTcount: A:0.43, C:0.06, G:0.05, T:0.46
Consensus pattern (36 bp):
AAAAACTATATATTATATAAGTTTTCAAAATGTTTT
Found at i:1525049 original size:2 final size:2
Alignment explanation
Indices: 1525042--1525124 Score: 166
Period size: 2 Copynumber: 41.5 Consensus size: 2
1525032 ATTTGCAAAC
1525042 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1525084 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1525125 GGACTAAAAT
Statistics
Matches: 81, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 81 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1525811 original size:56 final size:57
Alignment explanation
Indices: 1525718--1525885 Score: 259
Period size: 56 Copynumber: 3.0 Consensus size: 57
1525708 CGGAGTTGTT
* *
1525718 GCAAAAGTTGAAGCCTAAGGGTAAAGGTAGGGTTGTGAATAAGAAAAAATA-GGAAA
1 GCAACAGTTGAAGCCTAAGGGTAAAGGTAGGGGTGTGAATAAGAAAAAATAGGGAAA
*
1525774 GCAACAGTTGAAGCCTAAGGGTAAAGGTGGGGGTGTGAATAAGAAAAAATAGGGAAA
1 GCAACAGTTGAAGCCTAAGGGTAAAGGTAGGGGTGTGAATAAGAAAAAATAGGGAAA
* * * *
1525831 -CAACAATTAAAGCCTAAGGGTAAAGGTAGGGGTATGAATAAGAAAAAAAAGGGAA
1 GCAACAGTTGAAGCCTAAGGGTAAAGGTAGGGGTGTGAATAAGAAAAAATAGGGAA
1525886 TGGATGGTTC
Statistics
Matches: 103, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
56 98 0.95
57 5 0.05
ACGTcount: A:0.46, C:0.07, G:0.31, T:0.16
Consensus pattern (57 bp):
GCAACAGTTGAAGCCTAAGGGTAAAGGTAGGGGTGTGAATAAGAAAAAATAGGGAAA
Found at i:1528164 original size:19 final size:20
Alignment explanation
Indices: 1528140--1528181 Score: 68
Period size: 19 Copynumber: 2.1 Consensus size: 20
1528130 AGTTCACAAA
*
1528140 TTTTCTGGTATCT-TGTGTG
1 TTTTCTGGTATCTATGTATG
1528159 TTTTCTGGTATCTATGTATG
1 TTTTCTGGTATCTATGTATG
1528179 TTT
1 TTT
1528182 CTTTTACCCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 13 0.62
20 8 0.38
ACGTcount: A:0.10, C:0.10, G:0.21, T:0.60
Consensus pattern (20 bp):
TTTTCTGGTATCTATGTATG
Found at i:1528863 original size:20 final size:20
Alignment explanation
Indices: 1528838--1528895 Score: 107
Period size: 20 Copynumber: 2.9 Consensus size: 20
1528828 TTTGGTTCAC
*
1528838 GGAATGTAAGATTATCAGTG
1 GGAATGTAAGATTACCAGTG
1528858 GGAATGTAAGATTACCAGTG
1 GGAATGTAAGATTACCAGTG
1528878 GGAATGTAAGATTACCAG
1 GGAATGTAAGATTACCAG
1528896 GGAATAAGAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.36, C:0.09, G:0.29, T:0.26
Consensus pattern (20 bp):
GGAATGTAAGATTACCAGTG
Found at i:1528905 original size:16 final size:18
Alignment explanation
Indices: 1528838--1528908 Score: 74
Period size: 20 Copynumber: 3.8 Consensus size: 18
1528828 TTTGGTTCAC
*
1528838 GGAATGTAAGATTATCAGTG
1 GGAA-GTAAGATTACCAG-G
1528858 GGAATGTAAGATTACCAGTG
1 GGAA-GTAAGATTACCAG-G
1528878 GGAATGTAAGATTACCA-G
1 GGAA-GTAAGATTACCAGG
1528896 GGAA-TAAGATTAC
1 GGAAGTAAGATTAC
1528909 TGGGAATGTT
Statistics
Matches: 50, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
16 9 0.18
18 5 0.10
20 36 0.72
ACGTcount: A:0.38, C:0.08, G:0.28, T:0.25
Consensus pattern (18 bp):
GGAAGTAAGATTACCAGG
Found at i:1530289 original size:23 final size:20
Alignment explanation
Indices: 1530236--1530282 Score: 94
Period size: 20 Copynumber: 2.4 Consensus size: 20
1530226 ATTAAGATTA
1530236 ATATTTTATTAAAATAATAG
1 ATATTTTATTAAAATAATAG
1530256 ATATTTTATTAAAATAATAG
1 ATATTTTATTAAAATAATAG
1530276 ATATTTT
1 ATATTTT
1530283 TTTATTATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (20 bp):
ATATTTTATTAAAATAATAG
Found at i:1530349 original size:24 final size:23
Alignment explanation
Indices: 1530307--1530366 Score: 79
Period size: 24 Copynumber: 2.6 Consensus size: 23
1530297 CTTAATAAAA
1530307 TAAAAATATTATTATTATTATAT
1 TAAAAATATTATTATTATTATAT
1530330 TAAAAATATGATATTA-TATTATAT
1 TAAAAATAT--TATTATTATTATAT
1530354 TATAAAA-ATTATT
1 TA-AAAATATTATT
1530367 GATAAATATA
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
22 4 0.12
23 9 0.26
24 12 0.35
25 9 0.26
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (23 bp):
TAAAAATATTATTATTATTATAT
Found at i:1530826 original size:5 final size:5
Alignment explanation
Indices: 1530814--1530872 Score: 100
Period size: 5 Copynumber: 11.8 Consensus size: 5
1530804 GTCCGTCCGT
* *
1530814 CTCGG CACGG CACGG CTCGG CTCGG CTCGG CTCGG CTCGG CTCGG CTCGG
1 CTCGG CTCGG CTCGG CTCGG CTCGG CTCGG CTCGG CTCGG CTCGG CTCGG
1530864 CTCGG CTCG
1 CTCGG CTCG
1530873 TGGTCGTGGT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 52 1.00
ACGTcount: A:0.03, C:0.41, G:0.39, T:0.17
Consensus pattern (5 bp):
CTCGG
Found at i:1530881 original size:6 final size:6
Alignment explanation
Indices: 1530870--1530906 Score: 74
Period size: 6 Copynumber: 6.2 Consensus size: 6
1530860 TCGGCTCGGC
1530870 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG T
1 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG T
1530907 AATACGGAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.00, C:0.16, G:0.49, T:0.35
Consensus pattern (6 bp):
TCGTGG
Found at i:1531168 original size:22 final size:22
Alignment explanation
Indices: 1531143--1531195 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
1531133 TCAGGAGTTA
* *
1531143 CAGGAGTTACTTGATTTAATTC
1 CAGGAGTTACATGATATAATTC
* *
1531165 CAGGGGTTACATGATATAATTT
1 CAGGAGTTACATGATATAATTC
*
1531187 CGGGAGTTA
1 CAGGAGTTA
1531196 TAACAGCTGA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.28, C:0.11, G:0.25, T:0.36
Consensus pattern (22 bp):
CAGGAGTTACATGATATAATTC
Found at i:1541575 original size:15 final size:15
Alignment explanation
Indices: 1541555--1541584 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
1541545 TATCACAATC
1541555 GCGCAGGATTCCGGG
1 GCGCAGGATTCCGGG
1541570 GCGCAGGATTCCGGG
1 GCGCAGGATTCCGGG
1541585 AGCACCGTGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.27, G:0.47, T:0.13
Consensus pattern (15 bp):
GCGCAGGATTCCGGG
Found at i:1547490 original size:37 final size:38
Alignment explanation
Indices: 1547440--1547512 Score: 130
Period size: 38 Copynumber: 1.9 Consensus size: 38
1547430 TTTTATTCGG
1547440 GTCGGGTCAGG-TTTTTTAAGTGTGATATTCGGGTCGA
1 GTCGGGTCAGGTTTTTTTAAGTGTGATATTCGGGTCGA
*
1547477 GTCGGGTCGGGTTTTTTTAAGTGTGATATTCGGGTC
1 GTCGGGTCAGGTTTTTTTAAGTGTGATATTCGGGTC
1547513 AGGTCTGGTT
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
37 10 0.29
38 24 0.71
ACGTcount: A:0.14, C:0.11, G:0.36, T:0.40
Consensus pattern (38 bp):
GTCGGGTCAGGTTTTTTTAAGTGTGATATTCGGGTCGA
Found at i:1547712 original size:254 final size:257
Alignment explanation
Indices: 1547207--1547729 Score: 773
Period size: 259 Copynumber: 2.0 Consensus size: 257
1547197 ACTTTATTTT
* * * *
1547207 GGTCGGGTCGGATTGGGTTTTTTTAAGTGTGATATTCAGGTCGGGTCGGGTCGGGTTCGGGTTTA
1 GGTCGAGTCGGATCGGGTTTTTTTAAGTGTGATATT---GTCGGGTCAGGTCGGGTTCGGATTTA
* *
1547272 GGGTGAAAAAAACTGGACCGACCCGAAAATATATATAATTCAGGTCGGGTCGGATTAAGTCACTA
63 GGGTGAAAAAAACCGGACCGACCCGAAAATATATATAATTCAGGTCGGGTCGAATTAAGTCACTA
* * * *
1547337 TTTTTATTAAATAAAAATAATTTTTTATTATTTCGGGTCGGGTCGGGTTGGATTTCTAATTCATA
128 TTTTTATTAAATAAAAACAATTTTCTATTATTTCGGGTCAGGTC--G--AGATTTCTAATTCATA
1547402 TATTCGGGTCGGGTCGGATGAAACTTTATTTTATTCGGGTCGGGTCAGGTTTTTTAAGTGTGATA
189 TATTCGGGTCGGGTCGGATGAAACTTTATTTTATTCGGGTCGGGTCAGGTTTTTTAAGTGTGATA
1547467 TTCG
254 TTCG
* * *
1547471 GGTCGAGTCGGGTCGGGTTTTTTTAAGTGTGATA-T-TCGGGTCAGGTCTGGTTTGGATTTAGGG
1 GGTCGAGTCGGATCGGGTTTTTTTAAGTGTGATATTGTCGGGTCAGGTCGGGTTCGGATTTAGGG
** * * *
1547534 TGAAAAAAACCGGACCGATTCGAAAATATATATAATTCGGGTTGGGTCGAATTAAGTCACTGTTT
66 TGAAAAAAACCGGACCGACCCGAAAATATATATAATTCAGGTCGGGTCGAATTAAGTCACTATTT
1547599 TTATTAAATAAAAACAATTTTCTATTATTTCGGGTCAGGTC-AGATTTCTAATTCATATATTCGG
131 TTATTAAATAAAAACAATTTTCTATTATTTCGGGTCAGGTCGAGATTTCTAATTCATATATTCGG
* * *
1547663 GTCGGGTCGGATGAAACTTTATTTTGTTCGGGTTGGGTCGGGTTTTTTAAGTGTGATATTCG
196 GTCGGGTCGGATGAAACTTTATTTTATTCGGGTCGGGTCAGGTTTTTTAAGTGTGATATTCG
1547725 GGTCG
1 GGTCG
1547730 GGTTTGGGTT
Statistics
Matches: 238, Mismatches: 21, Indels: 10
0.88 0.08 0.04
Matches are distributed among these distances:
254 86 0.36
259 120 0.50
263 1 0.00
264 31 0.13
ACGTcount: A:0.23, C:0.12, G:0.28, T:0.37
Consensus pattern (257 bp):
GGTCGAGTCGGATCGGGTTTTTTTAAGTGTGATATTGTCGGGTCAGGTCGGGTTCGGATTTAGGG
TGAAAAAAACCGGACCGACCCGAAAATATATATAATTCAGGTCGGGTCGAATTAAGTCACTATTT
TTATTAAATAAAAACAATTTTCTATTATTTCGGGTCAGGTCGAGATTTCTAATTCATATATTCGG
GTCGGGTCGGATGAAACTTTATTTTATTCGGGTCGGGTCAGGTTTTTTAAGTGTGATATTCG
Found at i:1547859 original size:211 final size:212
Alignment explanation
Indices: 1547477--1547940 Score: 734
Period size: 211 Copynumber: 2.2 Consensus size: 212
1547467 TTCGGGTCGA
1547477 GTCGGGTCGGGTTTTTTTAAGTGTGATATTCGGGTCAGGTCTGGTTTGGATTTAGGGTGAAAAAA
1 GTCGGGTCGGG-TTTTTTAAGTGTGATATTCGGGTC--G--TGGTTTGGATTTAGGGTGAAAAAA
** *
1547542 ACCGGACCGATTCGAAAATATATATAATTCGGGTTGGGTCGAATTAAGTCACTGTTTTTATTAAA
61 ACCGGACCGACCCGAAAATATATATAATTCGGGTCGGGTCGAATTAAGTCACTGTTTTTATTAAA
* *
1547607 TAAAAACAATTTTCTATTATTTCGGGTCAGGTCAGATTTCTAATTCATATATTCGGGTCGGGTCG
126 TAAAAACAATTTTCTATTATTTCGAGTCAGGTCAAATTTCTAATTCATATATTCGGGTCGGGTCG
1547672 GATGAAACTTTATTTTGTTCGG
191 GATGAAACTTTATTTTGTTCGG
* *
1547694 GTTGGGTCGGGTTTTTTAAGTGTGATATTCGGGTCG-GGTTTGGGTTTAGGGTG-AAAAAACTCG
1 GTCGGGTCGGGTTTTTTAAGTGTGATATTCGGGTCGTGGTTTGGATTTAGGGTGAAAAAAAC-CG
* *
1547757 GACCGACCCGAAAATATATATAATTCGGGTCGGGTTGGATTAAGTCACTGTTTTTATTAAATAAA
65 GACCGACCCGAAAATATATATAATTCGGGTCGGGTCGAATTAAGTCACTGTTTTTATTAAATAAA
* * *
1547822 AATAATTTTTTATTATTTCGAGTCGGGTCAAATTTCTAATTCATATATTCGGGTCGGGTCGGATG
130 AACAATTTTCTATTATTTCGAGTCAGGTCAAATTTCTAATTCATATATTCGGGTCGGGTCGGATG
1547887 AAACTTTATTTTGTTCGG
195 AAACTTTATTTTGTTCGG
* *
1547905 GTCGAGTCGGGTTTTTTAAGTGTGATATTTGGGTCG
1 GTCGGGTCGGGTTTTTTAAGTGTGATATTCGGGTCG
1547941 AGTGGGGTCG
Statistics
Matches: 231, Mismatches: 15, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
210 7 0.03
211 189 0.82
214 1 0.00
216 24 0.10
217 10 0.04
ACGTcount: A:0.25, C:0.11, G:0.26, T:0.38
Consensus pattern (212 bp):
GTCGGGTCGGGTTTTTTAAGTGTGATATTCGGGTCGTGGTTTGGATTTAGGGTGAAAAAAACCGG
ACCGACCCGAAAATATATATAATTCGGGTCGGGTCGAATTAAGTCACTGTTTTTATTAAATAAAA
ACAATTTTCTATTATTTCGAGTCAGGTCAAATTTCTAATTCATATATTCGGGTCGGGTCGGATGA
AACTTTATTTTGTTCGG
Found at i:1547987 original size:38 final size:37
Alignment explanation
Indices: 1547904--1547992 Score: 117
Period size: 38 Copynumber: 2.4 Consensus size: 37
1547894 ATTTTGTTCG
* **
1547904 GGTCGAGTCGGG-TTTTTTAAGTGTGATATTTGGGTC
1 GGTCGGGTCGGGTTTTTTTAAGTGTGATATTCAGGTC
*
1547940 GAGTGGGGTCGGGTTTTTTTAAGTGTGATATTCAGGTC
1 G-GTCGGGTCGGGTTTTTTTAAGTGTGATATTCAGGTC
1547978 AGGTCGGGTCGGGTT
1 -GGTCGGGTCGGGTT
1547993 CGGGTTTAGG
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
36 1 0.02
37 9 0.20
38 34 0.76
39 1 0.02
ACGTcount: A:0.13, C:0.09, G:0.39, T:0.38
Consensus pattern (37 bp):
GGTCGGGTCGGGTTTTTTTAAGTGTGATATTCAGGTC
Found at i:1548015 original size:470 final size:468
Alignment explanation
Indices: 1547119--1548021 Score: 1302
Period size: 470 Copynumber: 1.9 Consensus size: 468
1547109 CTTATTCATA
* * * *
1547119 TATTGAATAAAAATATTTTTTTATTATTTCGGGTCGGGTTTCTAATTCATATATTCAGGTCGGGT
1 TATTAAATAAAAACAATTTTCTATTATTTCGGGTCGGGTTTCTAATTCATATATT---GTCGGGT
* * *
1547184 CGGGTTGGGTGAAACTTTATTTTGGTCGGGTCGGATTGGGTTTTTTTAAGTGTGATATTCAGGTC
63 CGGGTCGGATGAAACTTTATTTTGGTCGGGTCGGATCGGGTTTTTTTAAGTGTGATATT---GTC
1547249 GGGTCGGGTCGGGTTCGGGTTTAGGGTGAAAAAAACTGGACCGACCCGAAAATATATATAATTCA
125 GGGTCGGGT---GTTCGGGTTTAGGGTGAAAAAAACTGGACCGACCCGAAAATATATATAATTCA
*
1547314 GGTCGGGTCGGATTAAGTCACTATTTTTATTAAATAAAAATAATTTTTTATTATTTCGGGTCGGG
187 GGTCGGGTCGGATTAAGTCACTATTTTTATTAAATAAAAATAATTTTTTATTATTTCGAGTCGGG
**
1547379 TCGGGTTGGATTTCTAATTCATATATTCGGGTCGGGTCGGATGAAACTTTATTTTATTCGGGTCG
252 TC--G--AAATTTCTAATTCATATATTCGGGTCGGGTCGGATGAAACTTTATTTTATTCGGGTCG
* *
1547444 GGTCAGGTTTTTTAAGTGTGATATTCGGGTCGAGTCGGGTCGGGTTTTTTTAAGTGTGATATTCG
313 AGTCAGGTTTTTTAAGTGTGATATTCGGGTCGAGTCGGGTCGGGTTTTTTTAAGTGTGATATTCA
*
1547509 GGTCAGGTCTGGTTTGGATTTAGGGTGAAAAAAACCGGACCGATTCGAAAATATATATAATTCGG
378 GGTCAGGTCTGGTTCGGATTTAGGGTGAAAAAAACCGGACCGATTCGAAAATATATATAATTCGG
1547574 GTTGGGTCGAATTAAGTCACTGTTTT
443 GTTGGGTCGAATTAAGTCACTGTTTT
1547600 TATTAAATAAAAACAATTTTCTATTATTTCGGGTCAGGTCAGATTTCTAATTCATATA-T-TCGG
1 TATTAAATAAAAACAATTTTCTATTATTTCGGGTC-GG---G-TTTCTAATTCATATATTGTCGG
* * *
1547663 GTCGGGTCGGATGAAACTTTATTTTGTTCGGGTTGGGTCGGG-TTTTTTAAGTGTGATA-T-TCG
61 GTCGGGTCGGATGAAACTTTATTTTGGTCGGGTCGGATCGGGTTTTTTTAAGTGTGATATTGTCG
*
1547725 GGTCGGGT-TT-GGGTTTAGGGTG-AAAAAACTCGGACCGACCCGAAAATATATATAATTCGGGT
126 GGTCGGGTGTTCGGGTTTAGGGTGAAAAAAACT-GGACCGACCCGAAAATATATATAATTCAGGT
* *
1547787 CGGGTTGGATTAAGTCACTGTTTTTATTAAATAAAAATAATTTTTTATTATTTCGAGTCGGGTC-
190 CGGGTCGGATTAAGTCACTATTTTTATTAAATAAAAATAATTTTTTATTATTTCGAGTCGGGTCG
* *
1547851 AAATTTCTAATTCATATATTCGGGTCGGGTCGGATGAAACTTTATTTTGTTCGGGTCGAGTCGGG
255 AAATTTCTAATTCATATATTCGGGTCGGGTCGGATGAAACTTTATTTTATTCGGGTCGAGTCAGG
* *
1547916 TTTTTTAAGTGTGATATTTGGGTCGAGTGGGGTCGGGTTTTTTTAAGTGTGATATTCAGGTCAGG
320 TTTTTTAAGTGTGATATTCGGGTCGAGTCGGGTCGGGTTTTTTTAAGTGTGATATTCAGGTCAGG
* *
1547981 TCGGGTCGGGTTCGGGTTTAGGGTGGAAAAAACCGGACCGA
385 TC---T--GGTTCGGATTTAGGGTGAAAAAAACCGGACCGA
1548022 CCCGAAAAAA
Statistics
Matches: 386, Mismatches: 25, Indels: 33
0.87 0.06 0.07
Matches are distributed among these distances:
465 124 0.32
468 1 0.00
469 8 0.02
470 133 0.34
471 2 0.01
475 11 0.03
479 1 0.00
480 16 0.04
481 71 0.18
482 2 0.01
485 2 0.01
486 15 0.04
ACGTcount: A:0.24, C:0.11, G:0.28, T:0.37
Consensus pattern (468 bp):
TATTAAATAAAAACAATTTTCTATTATTTCGGGTCGGGTTTCTAATTCATATATTGTCGGGTCGG
GTCGGATGAAACTTTATTTTGGTCGGGTCGGATCGGGTTTTTTTAAGTGTGATATTGTCGGGTCG
GGTGTTCGGGTTTAGGGTGAAAAAAACTGGACCGACCCGAAAATATATATAATTCAGGTCGGGTC
GGATTAAGTCACTATTTTTATTAAATAAAAATAATTTTTTATTATTTCGAGTCGGGTCGAAATTT
CTAATTCATATATTCGGGTCGGGTCGGATGAAACTTTATTTTATTCGGGTCGAGTCAGGTTTTTT
AAGTGTGATATTCGGGTCGAGTCGGGTCGGGTTTTTTTAAGTGTGATATTCAGGTCAGGTCTGGT
TCGGATTTAGGGTGAAAAAAACCGGACCGATTCGAAAATATATATAATTCGGGTTGGGTCGAATT
AAGTCACTGTTTT
Found at i:1548589 original size:16 final size:18
Alignment explanation
Indices: 1548568--1548613 Score: 78
Period size: 18 Copynumber: 2.7 Consensus size: 18
1548558 TATGGAATTG
1548568 GATTCCAATTCC-T-ACA
1 GATTCCAATTCCTTCACA
1548584 GATTCCAATTCCTTCACA
1 GATTCCAATTCCTTCACA
1548602 GATTCCAATTCC
1 GATTCCAATTCC
1548614 CTCATAAACA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
16 12 0.43
17 1 0.04
18 15 0.54
ACGTcount: A:0.28, C:0.33, G:0.07, T:0.33
Consensus pattern (18 bp):
GATTCCAATTCCTTCACA
Found at i:1550591 original size:13 final size:13
Alignment explanation
Indices: 1550573--1550599 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1550563 TTTATTTCTT
1550573 TTTCTTTAATTAA
1 TTTCTTTAATTAA
1550586 TTTCTTTAATTAA
1 TTTCTTTAATTAA
1550599 T
1 T
1550600 CATGTCTCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (13 bp):
TTTCTTTAATTAA
Found at i:1556461 original size:135 final size:135
Alignment explanation
Indices: 1556246--1556510 Score: 358
Period size: 135 Copynumber: 2.0 Consensus size: 135
1556236 TAGTCACTGA
* * * **
1556246 TTTCATTATTCCTTCAATTCATCCTTTATTTTAAGTCATTTTTACCATATTTGAACCACATGTTC
1 TTTCATTATTCCTTAAATTCATCATTTATTTTAAGTCATTTTTACCAAATTTGAACCACATACTC
* *
1556311 CTAAACCATAGTAGAATACATACGTACTTTCAATTCCTTTTTTTGATAACA-AATTTTATATTTT
66 CTAAACCATAGTAGAATAAATACGTACTTTCAATTCCTCTTTTTGATAA-ATAATTTTATATTTT
1556375 TATAGT
130 TATAGT
* *
1556381 TTTC-TTATTTCTTAAATTCGTCATTTATTTTAAGT-ATTTTTTTACCAAATTTGAACCACATAC
1 TTTCATTATTCCTTAAATTCATCATTTATTTTAAGTCA--TTTTTACCAAATTTGAACCACATAC
* * *
1556444 TCCTATACCATCA-TAGAATAAATATGTACTTTCAATTCCTCTTTTTGATAAATAATTTTCTATT
64 TCCTAAACCAT-AGTAGAATAAATACGTACTTTCAATTCCTCTTTTTGATAAATAATTTTATATT
1556508 TTT
128 TTT
1556511 CAATTTAGAC
Statistics
Matches: 114, Mismatches: 12, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
133 1 0.01
134 28 0.25
135 84 0.74
136 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.05, T:0.48
Consensus pattern (135 bp):
TTTCATTATTCCTTAAATTCATCATTTATTTTAAGTCATTTTTACCAAATTTGAACCACATACTC
CTAAACCATAGTAGAATAAATACGTACTTTCAATTCCTCTTTTTGATAAATAATTTTATATTTTT
ATAGT
Found at i:1556636 original size:158 final size:156
Alignment explanation
Indices: 1556371--1557224 Score: 994
Period size: 158 Copynumber: 5.5 Consensus size: 156
1556361 AAATTTTATA
* * * * *
1556371 TTTTTATAGTTTTCTTATTTCTTAAATTCGTCATTTATTTTAAGTAT-TTTTTTACCAAATTTGA
1 TTTTTATAATTTTCTTATTTCTTCAATTCATCCTTTATTTTAAGT-TCGTTTTTACCAAATTTGA
* * *
1556435 ACCACAT-ACTCCTATACCATCATAGAATAAATATGTACTTTCAATTCCTCTTTTTGATAAATAA
65 ACCACATGA-TCCTAAACCATCGTAGAATACATATGTACTTTCAATTCCTCTTTTTGATAAA-AA
* *
1556499 TTTTCTATTTTTCAATTTAGACCCTTAGTT
128 TTTTCTATTTTTCAATTTAGACCCTCA-AT
1556529 TTTTTATAATTTTCTTATTTCTTCAATTCATCCTTTATTTTAAGTTCGTTTTTACCAAATTTGAA
1 TTTTTATAATTTTCTTATTTCTTCAATTCATCCTTTATTTTAAGTTCGTTTTTACCAAATTTGAA
* * * *
1556594 CCACATGATCCGAAACCATCGTAGAATACATATTTACTTTCAATTCTTCTGTTTGATAACAAATT
66 CCACATGATCCTAAACCATCGTAGAATACATATGTACTTTCAATTCCTCTTTTTGATAA-AAATT
* *
1556659 TTTTATTTCTCAATTTA-ATCCCTC-AT
130 TTCTATTTTTCAATTTAGA-CCCTCAAT
*
1556685 TTTTTATAATTTTCTTATTTCTTCACTTCATCCTTTATTTTAAG-TCTGTTTTTACCAAATTTGA
1 TTTTTATAATTTTCTTATTTCTTCAATTCATCCTTTATTTTAAGTTC-GTTTTTACCAAATTTGA
* * * * * * * *
1556749 ACAACATGCTCCTAGACAATCGTATAATAAATATGTATTTTCAAATCCTCTTTTTGATAAAATAT
65 ACCACATGATCCTAAACCATCGTAGAATACATATGTACTTTCAATTCCTCTTTTTGATAAAA-A-
* * *
1556814 TTTTATATTTTTCAATTTAGTCCCTTAAT
128 TTTTCTATTTTTCAATTTAGACCCTCAAT
* * * * *
1556843 TTTTTATAATTTCCTTATTTTTTCAATTCATCCTTTATTGTAAATTTGTTTTTACCAAATTTGAA
1 TTTTTATAATTTTCTTATTTCTTCAATTCATCCTTTATTTTAAGTTCGTTTTTACCAAATTTGAA
* * * * *
1556908 CTACAT-ACTCCTAAATCATCATAGGATACATACGTACTTTCAATTCCTCTTTTTGATAACAAAT
66 CCACATGA-TCCTAAACCATCGTAGAATACATATGTACTTTCAATTCCTCTTTTTGATAA-AAAT
1556972 TTTCTATTTTT-AATTTAG-CCCATCAAT
129 TTTCTATTTTTCAATTTAGACCC-TCAAT
* * *
1556999 TTTTTAT-ATTTTATGTATTTCTTCAATTCATCCTTTATTTTAAG-TCTTTTTTTATCAAATTTG
1 TTTTTATAATTTTCT-TATTTCTTCAATTCATCCTTTATTTTAAGTTC-GTTTTTACCAAATTTG
* * * * * * *
1557062 AACCACATGCTCCTAAATCATCGTAGAATACATATTTACTTTCAATCCCACTCTCTGATAAAAAT
64 AACCACATGATCCTAAACCATCGTAGAATACATATGTACTTTCAATTCCTCTTTTTGATAAAAAT
* *
1557127 TTTCTATTTTT-AATTTAGTCCATCAAT
129 TTTCTATTTTTCAATTTAGACCCTCAAT
* * * * * *
1557154 TTTTCACAATTTCCTTATTTCTTCAATTCATCC-TTATTTTAGGTTTGTTTTTACCAAATTTGAG
1 TTTTTATAATTTTCTTATTTCTTCAATTCATCCTTTATTTTAAGTTCGTTTTTACCAAATTTGAA
1557218 CCACATG
66 CCACATG
1557225 CTCATATACC
Statistics
Matches: 596, Mismatches: 81, Indels: 42
0.83 0.11 0.06
Matches are distributed among these distances:
154 31 0.05
155 64 0.11
156 225 0.38
157 34 0.06
158 237 0.40
159 5 0.01
ACGTcount: A:0.28, C:0.17, G:0.06, T:0.48
Consensus pattern (156 bp):
TTTTTATAATTTTCTTATTTCTTCAATTCATCCTTTATTTTAAGTTCGTTTTTACCAAATTTGAA
CCACATGATCCTAAACCATCGTAGAATACATATGTACTTTCAATTCCTCTTTTTGATAAAAATTT
TCTATTTTTCAATTTAGACCCTCAAT
Found at i:1556948 original size:314 final size:312
Alignment explanation
Indices: 1556371--1557224 Score: 1114
Period size: 314 Copynumber: 2.7 Consensus size: 312
1556361 AAATTTTATA
* * * * *
1556371 TTTTTATAGTTTTCTTATTTCTTAAATTCGTCATTTATTTTAAGTATTTTTTTACCAAATTTGAA
1 TTTTTATAATTTTCTTATTTCTTCAATTCATCCTTTATTTTAAGTCTTTTTTTACCAAATTTGAA
* * * *
1556436 CCACATACTCCTATACCATCATAGAATAAATATGTACTTTCAATTCCTCTTTTTGAT-AAATAAT
66 CCACATGCTCCTA-AACATCGTAGAATAAATATGTACTTTCAAATCCTCTTTTTGATAAAAT-AT
* * *
1556500 TTTCTATTTTTCAATTTAGACCCTTAGTTTTTTTATAATTTTCTTATTTCTTCAATTCATCCTTT
129 TTTCTATTTTTCAATTTAGTCCCTTA-ATTTTTTATAATTTCCTTATTTCTTCAATTCATCCTTT
* * **
1556565 ATTTTAAGTTCGTTTTTACCAAATTTGAACCACATGATCCGAAACCATCGTAGAATACATATTTA
193 ATTTTAAGTTTGTTTTTACCAAATTTGAACCACATGATCCGAAACCATCATAGAATACATACGTA
* * *
1556630 CTTTCAATTCTTCTGTTTGATAACAAATTTTTTATTTCTCAATTTAATCCC-TC-AT
258 CTTTCAATTCCTCTGTTTGATAACAAATTTTCTATTT-TCAATTT-AGCCCATCAAT
* *
1556685 TTTTTATAATTTTCTTATTTCTTCACTTCATCCTTTATTTTAAGTCTGTTTTTACCAAATTTGAA
1 TTTTTATAATTTTCTTATTTCTTCAATTCATCCTTTATTTTAAGTCTTTTTTTACCAAATTTGAA
* * * *
1556750 CAACATGCTCCTAGACAATCGTATAATAAATATGTATTTTCAAATCCTCTTTTTGATAAAATATT
66 CCACATGCTCCTAAAC-ATCGTAGAATAAATATGTACTTTCAAATCCTCTTTTTGATAAAATA-T
* *
1556815 TTTATATTTTTCAATTTAGTCCCTTAATTTTTTATAATTTCCTTATTTTTTCAATTCATCCTTTA
129 TTTCTATTTTTCAATTTAGTCCCTTAATTTTTTATAATTTCCTTATTTCTTCAATTCATCCTTTA
* * * * * *
1556880 TTGTAAATTTGTTTTTACCAAATTTGAACTACAT-ACTCCTAAATCATCATAGGATACATACGTA
194 TTTTAAGTTTGTTTTTACCAAATTTGAACCACATGA-TCCGAAACCATCATAGAATACATACGTA
* *
1556944 CTTTCAATTCCTCTTTTTGATAACAAATTTTCTATTTTTAATTTAGCCCATCAAT
258 CTTTCAATTCCTCTGTTTGATAACAAATTTTCTATTTTCAATTTAGCCCATCAAT
* *
1556999 TTTTTAT-ATTTTATGTATTTCTTCAATTCATCCTTTATTTTAAGTCTTTTTTTATCAAATTTGA
1 TTTTTATAATTTTCT-TATTTCTTCAATTCATCCTTTATTTTAAGTCTTTTTTTACCAAATTTGA
* * * * *
1557063 ACCACATGCTCCTAAATCATCGTAGAATACATATTTACTTTC-AATCCCACTCTCTGATAAAA-A
65 ACCACATGCTCCTAAA-CATCGTAGAATAAATATGTACTTTCAAAT-CCTCTTTTTGATAAAATA
* * * *
1557126 TTTTCTATTTTT-AATTTAGTCCATCAATTTTTCACAATTTCCTTATTTCTTCAATTCATCC-TT
128 TTTTCTATTTTTCAATTTAGTCCCTTAATTTTTTATAATTTCCTTATTTCTTCAATTCATCCTTT
* *
1557189 ATTTTAGGTTTGTTTTTACCAAATTTGAGCCACATG
193 ATTTTAAGTTTGTTTTTACCAAATTTGAACCACATG
1557225 CTCATATACC
Statistics
Matches: 471, Mismatches: 59, Indels: 23
0.85 0.11 0.04
Matches are distributed among these distances:
310 32 0.07
311 44 0.09
312 15 0.03
313 20 0.04
314 330 0.70
315 30 0.06
ACGTcount: A:0.28, C:0.17, G:0.06, T:0.48
Consensus pattern (312 bp):
TTTTTATAATTTTCTTATTTCTTCAATTCATCCTTTATTTTAAGTCTTTTTTTACCAAATTTGAA
CCACATGCTCCTAAACATCGTAGAATAAATATGTACTTTCAAATCCTCTTTTTGATAAAATATTT
TCTATTTTTCAATTTAGTCCCTTAATTTTTTATAATTTCCTTATTTCTTCAATTCATCCTTTATT
TTAAGTTTGTTTTTACCAAATTTGAACCACATGATCCGAAACCATCATAGAATACATACGTACTT
TCAATTCCTCTGTTTGATAACAAATTTTCTATTTTCAATTTAGCCCATCAAT
Found at i:1557932 original size:95 final size:95
Alignment explanation
Indices: 1557769--1557961 Score: 386
Period size: 95 Copynumber: 2.0 Consensus size: 95
1557759 TCGACACTCG
1557769 ATCATCGAGTATCGATATTGTTAGGATAGTATTGATACTCAGGGAGAAGTATGGATACTCGTTTT
1 ATCATCGAGTATCGATATTGTTAGGATAGTATTGATACTCAGGGAGAAGTATGGATACTCGTTTT
1557834 GGATTATAGATTCTAGTAGCCAATTGTGGT
66 GGATTATAGATTCTAGTAGCCAATTGTGGT
1557864 ATCATCGAGTATCGATATTGTTAGGATAGTATTGATACTCAGGGAGAAGTATGGATACTCGTTTT
1 ATCATCGAGTATCGATATTGTTAGGATAGTATTGATACTCAGGGAGAAGTATGGATACTCGTTTT
1557929 GGATTATAGATTCTAGTAGCCAATTGTGGT
66 GGATTATAGATTCTAGTAGCCAATTGTGGT
1557959 ATC
1 ATC
1557962 GATATTCATT
Statistics
Matches: 98, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
95 98 1.00
ACGTcount: A:0.28, C:0.11, G:0.25, T:0.36
Consensus pattern (95 bp):
ATCATCGAGTATCGATATTGTTAGGATAGTATTGATACTCAGGGAGAAGTATGGATACTCGTTTT
GGATTATAGATTCTAGTAGCCAATTGTGGT
Found at i:1562565 original size:29 final size:29
Alignment explanation
Indices: 1562520--1562664 Score: 184
Period size: 29 Copynumber: 5.0 Consensus size: 29
1562510 AGTCCATTAT
*
1562520 TCTTATACTCAACAGTGTTTAACCGTTCA
1 TCTTTTACTCAACAGTGTTTAACCGTTCA
* * *
1562549 TCTTTTACTCAATAGTGTTTGACCTTTCA
1 TCTTTTACTCAACAGTGTTTAACCGTTCA
*
1562578 TCTTTTACTCAACAATGTTTAACCGTTCA
1 TCTTTTACTCAACAGTGTTTAACCGTTCA
* * * *
1562607 TC-TTTACTCAACAATTTTTGACCTTTCA
1 TCTTTTACTCAACAGTGTTTAACCGTTCA
* *
1562635 TCTTTTACTCAATAGTGTTTAACAGTTCA
1 TCTTTTACTCAACAGTGTTTAACCGTTCA
1562664 T
1 T
1562665 TTAACTGGCA
Statistics
Matches: 98, Mismatches: 17, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
28 25 0.26
29 73 0.74
ACGTcount: A:0.26, C:0.22, G:0.08, T:0.44
Consensus pattern (29 bp):
TCTTTTACTCAACAGTGTTTAACCGTTCA
Found at i:1562640 original size:57 final size:58
Alignment explanation
Indices: 1562520--1562664 Score: 220
Period size: 57 Copynumber: 2.5 Consensus size: 58
1562510 AGTCCATTAT
* * *
1562520 TCTTATACTCAACAGTGTTTAACCGTTCATCTTTTACTCAATAGTGTTTGACCTTTCA
1 TCTTTTACTCAACAGTGTTTAACCGTTCATCTTTTACTCAACAATGTTTGACCTTTCA
* *
1562578 TCTTTTACTCAACAATGTTTAACCGTTCATC-TTTACTCAACAATTTTTGACCTTTCA
1 TCTTTTACTCAACAGTGTTTAACCGTTCATCTTTTACTCAACAATGTTTGACCTTTCA
* *
1562635 TCTTTTACTCAATAGTGTTTAACAGTTCAT
1 TCTTTTACTCAACAGTGTTTAACCGTTCAT
1562665 TTAACTGGCA
Statistics
Matches: 79, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
57 50 0.63
58 29 0.37
ACGTcount: A:0.26, C:0.22, G:0.08, T:0.44
Consensus pattern (58 bp):
TCTTTTACTCAACAGTGTTTAACCGTTCATCTTTTACTCAACAATGTTTGACCTTTCA
Found at i:1563152 original size:20 final size:20
Alignment explanation
Indices: 1563129--1563323 Score: 68
Period size: 20 Copynumber: 8.7 Consensus size: 20
1563119 TTCCCTTATG
1563129 GCATCCTTTCATGCCTTAAT
1 GCATCCTTTCATGCCTTAAT
* * *
1563149 GCATCCGTTCGTGCCTTAAC
1 GCATCCTTTCATGCCTTAAT
* * * *
1563169 GAATCCGTTCATTCATTTTTAGTTAT
1 GCATCCTTTCATGC---CTTA---AT
*
1563195 GGCATCCTTTCAAGCCTTAAT
1 -GCATCCTTTCATGCCTTAAT
*
1563216 GCAT-CTGTTCATGCATTTTTAGTTAT
1 GCATCCT-TTCATGC---CTTA---AT
1563242 GGCATCCTTTCATGCCTTAAT
1 -GCATCCTTTCATGCCTTAAT
* *
1563263 GCATCCGTTCATGCATTTTTAGTTAT
1 GCATCCTTTCATGC---CTTA---AT
*
1563289 GACATCCTTTCATGGCTTAAT
1 G-CATCCTTTCATGCCTTAAT
*
1563310 GCATCCGTTCATGC
1 GCATCCTTTCATGC
1563324 ATTTTTAGTT
Statistics
Matches: 129, Mismatches: 23, Indels: 46
0.65 0.12 0.23
Matches are distributed among these distances:
19 2 0.02
20 62 0.48
21 7 0.05
23 9 0.07
24 9 0.07
26 6 0.05
27 32 0.25
28 2 0.02
ACGTcount: A:0.20, C:0.25, G:0.15, T:0.41
Consensus pattern (20 bp):
GCATCCTTTCATGCCTTAAT
Found at i:1563200 original size:47 final size:47
Alignment explanation
Indices: 1563149--1563524 Score: 536
Period size: 47 Copynumber: 8.0 Consensus size: 47
1563139 ATGCCTTAAT
* * * * *
1563149 GCATCCGTTCGTGCCTTAACGAATCCGTTCATTCATTTTTAGTTATG
1 GCATCCTTTCATGCCTTAATGCATCCGTTCATGCATTTTTAGTTATG
* *
1563196 GCATCCTTTCAAGCCTTAATGCATCTGTTCATGCATTTTTAGTTATG
1 GCATCCTTTCATGCCTTAATGCATCCGTTCATGCATTTTTAGTTATG
1563243 GCATCCTTTCATGCCTTAATGCATCCGTTCATGCATTTTTAGTTATG
1 GCATCCTTTCATGCCTTAATGCATCCGTTCATGCATTTTTAGTTATG
* *
1563290 ACATCCTTTCATGGCTTAATGCATCCGTTCATGCATTTTTAGTTATG
1 GCATCCTTTCATGCCTTAATGCATCCGTTCATGCATTTTTAGTTATG
* * *
1563337 GCATTCTTTCATGCCTTAATGCATCCGTTAATGCTTTTTTAGTTATG
1 GCATCCTTTCATGCCTTAATGCATCCGTTCATGCATTTTTAGTTATG
* * * * * **
1563384 ACAACATTTCATACCTTAATGTATATGTTCATGCATTTTTAGTTATG
1 GCATCCTTTCATGCCTTAATGCATCCGTTCATGCATTTTTAGTTATG
* *
1563431 GCATCCTTTCATGCCTTAATGCATCCGTTCATGCTTTTTTTAATTATG
1 GCATCCTTTCATGCCTTAATGCATCCGTTCATGC-ATTTTTAGTTATG
* *
1563479 GTATCCATTCATGCCTTAATGCATCCGTTCATGCATTTTTAGTTAT
1 GCATCCTTTCATGCCTTAATGCATCCGTTCATGCATTTTTAGTTAT
1563525 AGATTCGGTT
Statistics
Matches: 289, Mismatches: 39, Indels: 2
0.88 0.12 0.01
Matches are distributed among these distances:
47 246 0.85
48 43 0.15
ACGTcount: A:0.21, C:0.21, G:0.14, T:0.44
Consensus pattern (47 bp):
GCATCCTTTCATGCCTTAATGCATCCGTTCATGCATTTTTAGTTATG
Found at i:1563254 original size:27 final size:27
Alignment explanation
Indices: 1563223--1563350 Score: 97
Period size: 27 Copynumber: 5.3 Consensus size: 27
1563213 AATGCATCTG
1563223 TTCATGCATTTTTAGTTATGGCATCCT
1 TTCATGCATTTTTAGTTATGGCATCCT
* *
1563250 TTCATGC---CTTA---AT-GCATCCG
1 TTCATGCATTTTTAGTTATGGCATCCT
*
1563270 TTCATGCATTTTTAGTTATGACATCCT
1 TTCATGCATTTTTAGTTATGGCATCCT
*
1563297 TTCATGGC----TTA---AT-GCATCCG
1 TTCAT-GCATTTTTAGTTATGGCATCCT
*
1563317 TTCATGCATTTTTAGTTATGGCATTCT
1 TTCATGCATTTTTAGTTATGGCATCCT
1563344 TTCATGC
1 TTCATGC
1563351 CTTAATGCAT
Statistics
Matches: 76, Mismatches: 9, Indels: 32
0.65 0.08 0.27
Matches are distributed among these distances:
19 2 0.03
20 23 0.30
21 4 0.05
23 6 0.08
24 6 0.08
26 4 0.05
27 29 0.38
28 2 0.03
ACGTcount: A:0.20, C:0.21, G:0.15, T:0.45
Consensus pattern (27 bp):
TTCATGCATTTTTAGTTATGGCATCCT
Found at i:1564125 original size:94 final size:95
Alignment explanation
Indices: 1563951--1564144 Score: 273
Period size: 94 Copynumber: 2.1 Consensus size: 95
1563941 ACCATAGTAC
* * * ** * *
1563951 CGATACTTCTATACTATGGTACTGATACCCTCTTTTGGTATCGATACCCATTTTAGGTTCGATGT
1 CGATACTACCATACTATGGTACCGATACCCTCTTCAGGTATCGATACCAATTTTAGATTCGATGT
1564016 TGCCTGGTATCGATACCCTTACAATGGTAT
66 TGCCTGGTATCGATACCCTTACAATGGTAT
* *
1564046 CGATACTACCATACTATGGTACCGATACCC-CTTCAGGTATCGATACTAATTTTAGATTTGATGT
1 CGATACTACCATACTATGGTACCGATACCCTCTTCAGGTATCGATACCAATTTTAGATTCGATGT
* * *
1564110 TTCTTGGTATCGATACCCTTACCATGGTAT
66 TGCCTGGTATCGATACCCTTACAATGGTAT
1564140 CGATA
1 CGATA
1564145 ATAATTGAAT
Statistics
Matches: 87, Mismatches: 12, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
94 60 0.69
95 27 0.31
ACGTcount: A:0.24, C:0.22, G:0.17, T:0.37
Consensus pattern (95 bp):
CGATACTACCATACTATGGTACCGATACCCTCTTCAGGTATCGATACCAATTTTAGATTCGATGT
TGCCTGGTATCGATACCCTTACAATGGTAT
Found at i:1570459 original size:29 final size:29
Alignment explanation
Indices: 1570402--1570547 Score: 166
Period size: 29 Copynumber: 5.0 Consensus size: 29
1570392 AGTCCATTAT
* * *
1570402 TCTTATACTGAACAGTGTTTAACCATTCA
1 TCTTTTACTCAACAGTGTTTAACCTTTCA
* *
1570431 TCTTTTACTCAACAGTGTGTGACCTTTCA
1 TCTTTTACTCAACAGTGTTTAACCTTTCA
* * *
1570460 CCTTTTACTCAACAATGTTTAACCGTTCA
1 TCTTTTACTCAACAGTGTTTAACCTTTCA
* * * *
1570489 TCTTTTACTCAATAATTTTTGACCTTTCA
1 TCTTTTACTCAACAGTGTTTAACCTTTCA
* *
1570518 TCTTTTACTCAATAGTGTTTAACCGTTCA
1 TCTTTTACTCAACAGTGTTTAACCTTTCA
1570547 T
1 T
1570548 TTAACTGGCA
Statistics
Matches: 98, Mismatches: 19, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 98 1.00
ACGTcount: A:0.25, C:0.23, G:0.09, T:0.43
Consensus pattern (29 bp):
TCTTTTACTCAACAGTGTTTAACCTTTCA
Found at i:1570489 original size:58 final size:58
Alignment explanation
Indices: 1570407--1570547 Score: 201
Period size: 58 Copynumber: 2.4 Consensus size: 58
1570397 ATTATTCTTA
* * *
1570407 TACTGAACAGTGTTTAACCATTCATCTTTTACTCAACAGTGTGTGACCTTTCACCTTT
1 TACTCAACAGTGTTTAACCGTTCATCTTTTACTCAACAATGTGTGACCTTTCACCTTT
* * * * *
1570465 TACTCAACAATGTTTAACCGTTCATCTTTTACTCAATAATTTTTGACCTTTCATCTTT
1 TACTCAACAGTGTTTAACCGTTCATCTTTTACTCAACAATGTGTGACCTTTCACCTTT
*
1570523 TACTCAATAGTGTTTAACCGTTCAT
1 TACTCAACAGTGTTTAACCGTTCAT
1570548 TTAACTGGCA
Statistics
Matches: 73, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
58 73 1.00
ACGTcount: A:0.26, C:0.23, G:0.09, T:0.43
Consensus pattern (58 bp):
TACTCAACAGTGTTTAACCGTTCATCTTTTACTCAACAATGTGTGACCTTTCACCTTT
Found at i:1571037 original size:20 final size:20
Alignment explanation
Indices: 1571014--1571141 Score: 67
Period size: 20 Copynumber: 5.7 Consensus size: 20
1571004 TTCACTTATG
1571014 GCATCCTTTCATGCCTTAAT
1 GCATCCTTTCATGCCTTAAT
* *
1571034 GCATCCGTTCATGCATTTTTAGTTAT
1 GCATCCTTTCATGC---CTTA---AT
*
1571060 GGCATCCTTTCATGCATTAAT
1 -GCATCCTTTCATGCCTTAAT
* *
1571081 GCATCCATTCATGCATTTTTAGTTAT
1 GCATCCTTTCATGC---CTTA---AT
*
1571107 GACATCCTTTCATGGCTTAAT
1 G-CATCCTTTCATGCCTTAAT
*
1571128 GCATCCGTTCATGC
1 GCATCCTTTCATGC
1571142 ATTTTTATTT
Statistics
Matches: 83, Mismatches: 11, Indels: 28
0.68 0.09 0.23
Matches are distributed among these distances:
20 37 0.45
21 5 0.06
23 6 0.07
24 6 0.07
26 5 0.06
27 24 0.29
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.41
Consensus pattern (20 bp):
GCATCCTTTCATGCCTTAAT
Found at i:1571063 original size:47 final size:47
Alignment explanation
Indices: 1571009--1571341 Score: 513
Period size: 47 Copynumber: 7.1 Consensus size: 47
1570999 TTAATTTCAC
1571009 TTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGCATTTTTAG
1 TTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGCATTTTTAG
* *
1571056 TTATGGCATCCTTTCATGCATTAATGCATCCATTCATGCATTTTTAG
1 TTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGCATTTTTAG
* * *
1571103 TTATGACATCCTTTCATGGCTTAATGCATCCGTTCATGCATTTTTAT
1 TTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGCATTTTTAG
* * **
1571150 TTATGGCATTCTTTCATGCCTTAATGCATCCGTTAATGTTTTTTTAG
1 TTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGCATTTTTAG
* * * * *
1571197 TTATGACATCATTTCATACCTTAATGTATCCATTCATGCATTTTTAG
1 TTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGCATTTTTAG
*
1571244 TTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGCTTTTTTAG
1 TTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGCATTTTTAG
* *
1571291 TTATGGAATCCTTTAATGCCTTAATGCATCCGTTCATGCATTTTTAG
1 TTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGCATTTTTAG
1571338 TTAT
1 TTAT
1571342 AGATTCGGTT
Statistics
Matches: 254, Mismatches: 32, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 254 1.00
ACGTcount: A:0.22, C:0.20, G:0.13, T:0.45
Consensus pattern (47 bp):
TTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGCATTTTTAG
Found at i:1571072 original size:27 final size:26
Alignment explanation
Indices: 1571034--1571168 Score: 98
Period size: 27 Copynumber: 5.5 Consensus size: 26
1571024 ATGCCTTAAT
*
1571034 GCATCCGTTCATGCATTTTTAGTTATG
1 GCATCCTTTCATGCATTTTTA-TTATG
1571061 GCATCCTTTCATGCA---TTA--AT-
1 GCATCCTTTCATGCATTTTTATTATG
*
1571081 GCATCCATTCATGCATTTTTAGTTATG
1 GCATCCTTTCATGCATTTTTA-TTATG
*
1571108 ACATCCTTTCATGGC----TTA--AT-
1 GCATCCTTTCAT-GCATTTTTATTATG
*
1571128 GCATCCGTTCATGCATTTTTATTTATG
1 GCATCCTTTCATGCATTTTTA-TTATG
*
1571155 GCATTCTTTCATGC
1 GCATCCTTTCATGC
1571169 CTTAATGCAT
Statistics
Matches: 84, Mismatches: 8, Indels: 32
0.68 0.06 0.26
Matches are distributed among these distances:
19 2 0.02
20 24 0.29
21 4 0.05
23 6 0.07
24 6 0.07
26 4 0.05
27 36 0.43
28 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.14, T:0.44
Consensus pattern (26 bp):
GCATCCTTTCATGCATTTTTATTATG
Found at i:1571259 original size:27 final size:26
Alignment explanation
Indices: 1571224--1571309 Score: 67
Period size: 27 Copynumber: 3.5 Consensus size: 26
1571214 ACCTTAATGT
*
1571224 ATCCATTCATGCATTTTTAGTTATGGC
1 ATCCTTTCATGC-TTTTTAGTTATGGC
*
1571251 ATCCTTTCATGC--CTTA---AT-GC
1 ATCCTTTCATGCTTTTTAGTTATGGC
* *
1571271 ATCCGTTCATGCTTTTTTAGTTATGGA
1 ATCCTTTCATGC-TTTTTAGTTATGGC
*
1571298 ATCCTTTAATGC
1 ATCCTTTCATGC
1571310 CTTAATGCAT
Statistics
Matches: 45, Mismatches: 7, Indels: 14
0.68 0.11 0.21
Matches are distributed among these distances:
20 13 0.29
21 2 0.04
23 3 0.07
24 3 0.07
26 2 0.04
27 22 0.49
ACGTcount: A:0.21, C:0.21, G:0.14, T:0.44
Consensus pattern (26 bp):
ATCCTTTCATGCTTTTTAGTTATGGC
Found at i:1576135 original size:29 final size:29
Alignment explanation
Indices: 1576089--1576155 Score: 107
Period size: 29 Copynumber: 2.3 Consensus size: 29
1576079 TTCATTTATG
*
1576089 CTTCTCTCTCTAAGAGAGAGAAGCTCTCT
1 CTTCTCTCTCTAAGAGAGAGAAGCTCTCC
* *
1576118 CTTGTCTCTCTAGGAGAGAGAAGCTCTCC
1 CTTCTCTCTCTAAGAGAGAGAAGCTCTCC
1576147 CTTCTCTCT
1 CTTCTCTCT
1576156 AAAAGCCTCT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.19, C:0.30, G:0.18, T:0.33
Consensus pattern (29 bp):
CTTCTCTCTCTAAGAGAGAGAAGCTCTCC
Found at i:1576972 original size:17 final size:17
Alignment explanation
Indices: 1576950--1576990 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
1576940 TGTATTTATT
*
1576950 TATAATTGTAATAATAA
1 TATAATTCTAATAATAA
1576967 TATAATTCTAATAATAA
1 TATAATTCTAATAATAA
1576984 TAGTAAT
1 TA-TAAT
1576991 AAGTAAGATC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 18 0.82
18 4 0.18
ACGTcount: A:0.51, C:0.02, G:0.05, T:0.41
Consensus pattern (17 bp):
TATAATTCTAATAATAA
Found at i:1577296 original size:99 final size:99
Alignment explanation
Indices: 1577125--1577366 Score: 351
Period size: 99 Copynumber: 2.4 Consensus size: 99
1577115 AAAAAAAGTA
* * * * *
1577125 AAAACATCCTACCCGGAGGTTTTACAAATGACCC-AGAGGATTTAATTTTCTAGAACATTAAATT
1 AAAACATCCTGCCCTGAGGTTTTACAGATGACCCGA-AGGATTTAATTTTCTAGAACATCAAATG
*
1577189 AGAAACTTTGAAAATCGCTTTCTCATTTTCATGAG
65 AGAAACTTTGAAAATAGCTTTCTCATTTTCATGAG
*
1577224 AAAACATCTTGCCCTGAGGTTTTACAGATGACCCGAAGGATTTAATTTTCTAGAACATCAAATGA
1 AAAACATCCTGCCCTGAGGTTTTACAGATGACCCGAAGGATTTAATTTTCTAGAACATCAAATGA
*
1577289 GAAACTTTGAAAATAGCTTTCTCATTTTCATGCG
66 GAAACTTTGAAAATAGCTTTCTCATTTTCATGAG
* * * * *
1577323 AAATCATCCTGCCCTGAGGATTTATAGATGACCCGGAGGTTTTA
1 AAAACATCCTGCCCTGAGGTTTTACAGATGACCCGAAGGATTTA
1577367 CAAATCACCC
Statistics
Matches: 128, Mismatches: 14, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
99 127 0.99
100 1 0.01
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.32
Consensus pattern (99 bp):
AAAACATCCTGCCCTGAGGTTTTACAGATGACCCGAAGGATTTAATTTTCTAGAACATCAAATGA
GAAACTTTGAAAATAGCTTTCTCATTTTCATGAG
Found at i:1578430 original size:31 final size:31
Alignment explanation
Indices: 1578386--1578467 Score: 85
Period size: 31 Copynumber: 2.6 Consensus size: 31
1578376 CTTTTGGATG
** *
1578386 ATATGGGAATTCAAGATGCCGAACAT-GAATA
1 ATATGGGCCTTCAAAATGCCGAACATAG-ATA
* * **
1578417 ATATGGTCCTTCAAAATGTCTCACATAGATA
1 ATATGGGCCTTCAAAATGCCGAACATAGATA
1578448 ATATGGGCCTTCAAAATGCC
1 ATATGGGCCTTCAAAATGCC
1578468 CCACATGGCT
Statistics
Matches: 41, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
31 40 0.98
32 1 0.02
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.27
Consensus pattern (31 bp):
ATATGGGCCTTCAAAATGCCGAACATAGATA
Found at i:1578473 original size:31 final size:31
Alignment explanation
Indices: 1578414--1578473 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
1578404 CCGAACATGA
* * *
1578414 ATAATATGGTCCTTCAAAATGTCTCACATAG
1 ATAATATGGGCCTTCAAAATGCCCCACATAG
1578445 ATAATATGGGCCTTCAAAATGCCCCACAT
1 ATAATATGGGCCTTCAAAATGCCCCACAT
1578474 GGCTATTTCA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.35, C:0.23, G:0.13, T:0.28
Consensus pattern (31 bp):
ATAATATGGGCCTTCAAAATGCCCCACATAG
Found at i:1578875 original size:254 final size:254
Alignment explanation
Indices: 1578419--1578911 Score: 833
Period size: 254 Copynumber: 1.9 Consensus size: 254
1578409 CATGAATAAT
*
1578419 ATGGTCCTTCAAAATGTCTCACATAGATAATATGGGCCTTCAAAATGCCCCACATGGCTATTTCA
1 ATGGGCCTTCAAAATGTCTCACATAGATAATATGGGCCTTCAAAATGCCCCACATGGCTATTTCA
* * * *
1578484 GGTTGAACCAGGTTTCAAAAGTATCTGAACATTAATTCCTTGTTGAAATGGGCCTTCAAAAATCC
66 GGTTGAACCAGGTTTCAAAAGTATATGAACATTAATTCCTTGCTAAAATGGGCCTTCAAAAATAC
* * *
1578549 CCAAAAATGATACAGATCTTTAAAATACTCCACATACTGATGTGAGCCTTCAAGATTCCCCATAT
131 CCAAAAAGGATACAGATCTTTAAAATACTCCACATACTAATGTGAGCCTTCAAGATGCCCCATAT
*
1578614 AGATCATTTCTCTCTGAAATGGGCCTTCAAAATTCCCCAACATTATATTTCTGGATGGA
196 AGATCATTTCTCTCTGAAATGGGCCTTCAAAATGCCCCAACATTATATTTCTGGATGGA
*
1578673 ATGGGCCTTCAAAATGTCTCACATAGATAATATGGGCCTTCAAAATGCCCCACATGGTTATTTCA
1 ATGGGCCTTCAAAATGTCTCACATAGATAATATGGGCCTTCAAAATGCCCCACATGGCTATTTCA
*
1578738 GGTTGAACCAGGTTTCTAAAGTATATGAACATTAATTCCTTGCTAAAATGGGCCTTCAAAAATAC
66 GGTTGAACCAGGTTTCAAAAGTATATGAACATTAATTCCTTGCTAAAATGGGCCTTCAAAAATAC
* *
1578803 CCAAAAAGGATACAGATCTTTAATATGCTCCACATACTAATGTGAGCCTTCAAGATGCCCCATAT
131 CCAAAAAGGATACAGATCTTTAAAATACTCCACATACTAATGTGAGCCTTCAAGATGCCCCATAT
* * * *
1578868 GGATCATTTCTGTTTGAAGTGGGCCTTCAAAATGCCCCAACATT
196 AGATCATTTCTCTCTGAAATGGGCCTTCAAAATGCCCCAACATT
1578912 CCAAGTTGAT
Statistics
Matches: 222, Mismatches: 17, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
254 222 1.00
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.30
Consensus pattern (254 bp):
ATGGGCCTTCAAAATGTCTCACATAGATAATATGGGCCTTCAAAATGCCCCACATGGCTATTTCA
GGTTGAACCAGGTTTCAAAAGTATATGAACATTAATTCCTTGCTAAAATGGGCCTTCAAAAATAC
CCAAAAAGGATACAGATCTTTAAAATACTCCACATACTAATGTGAGCCTTCAAGATGCCCCATAT
AGATCATTTCTCTCTGAAATGGGCCTTCAAAATGCCCCAACATTATATTTCTGGATGGA
Found at i:1583979 original size:46 final size:48
Alignment explanation
Indices: 1583917--1584009 Score: 145
Period size: 46 Copynumber: 2.0 Consensus size: 48
1583907 CATATAAATC
* * *
1583917 CTAACCACATGCTTTCTAGTTC-TATGC-TTTATTTGGAAAAATAAAG
1 CTAACCACATGATTTCTAGTTCGCATGCATTTATTAGGAAAAATAAAG
1583963 CTAACCACATGATTTCTAGTTCGCATGCATTTATTAGGAAAAATAAA
1 CTAACCACATGATTTCTAGTTCGCATGCATTTATTAGGAAAAATAAA
1584010 ACAATACTAA
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
46 21 0.50
47 4 0.10
48 17 0.40
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.34
Consensus pattern (48 bp):
CTAACCACATGATTTCTAGTTCGCATGCATTTATTAGGAAAAATAAAG
Found at i:1585453 original size:3 final size:3
Alignment explanation
Indices: 1585445--1585478 Score: 59
Period size: 3 Copynumber: 11.0 Consensus size: 3
1585435 TATTTATTTG
1585445 TAA TAA TAA TAA TAA TAA TAA TATA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA
1585479 GTAAGATCGG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 27 0.90
4 3 0.10
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:1585783 original size:29 final size:29
Alignment explanation
Indices: 1585741--1585888 Score: 206
Period size: 29 Copynumber: 5.1 Consensus size: 29
1585731 AGTCCATTAT
1585741 TCTTTTACTCAACAGTGTTTAACCGTTCA
1 TCTTTTACTCAACAGTGTTTAACCGTTCA
* * *
1585770 TCTTTCACTCAACAGTGTTTGACCTTTCA
1 TCTTTTACTCAACAGTGTTTAACCGTTCA
* * **
1585799 TATTTTACTCAACAATGTTTAATTGTTCA
1 TCTTTTACTCAACAGTGTTTAACCGTTCA
* *
1585828 TCTTTTACTCAACAGTTTTTAACCTTTCA
1 TCTTTTACTCAACAGTGTTTAACCGTTCA
*
1585857 TCTTTTACTCAACAGTGTTTAACCATTCA
1 TCTTTTACTCAACAGTGTTTAACCGTTCA
1585886 TCT
1 TCT
1585889 AACTGGCATA
Statistics
Matches: 101, Mismatches: 18, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 101 1.00
ACGTcount: A:0.25, C:0.23, G:0.07, T:0.45
Consensus pattern (29 bp):
TCTTTTACTCAACAGTGTTTAACCGTTCA
Found at i:1585973 original size:68 final size:66
Alignment explanation
Indices: 1585882--1586068 Score: 275
Period size: 68 Copynumber: 2.7 Consensus size: 66
1585872 TGTTTAACCA
* *
1585882 TTCATCTAACTGGCATAATTGACACTTTTCTGTCAATTGCTCAGTTAGGCCTCAAAGGCACTTAG
1 TTCATCTAACTGGCATAA-TGACACCTTTCTGTCAA-TGCACAGTTAGGCCTCAAAGGCACTTAG
1585947 CCT
64 CCT
* *
1585950 TTCATCTAACTGGCATCAATGACACCTTTCTTTCCAATGCACAATTAGGCCTCAAAGGCACTTAG
1 TTCATCTAACTGGCAT-AATGACACCTTTCTGT-CAATGCACAGTTAGGCCTCAAAGGCACTTAG
1586015 CCT
64 CCT
*
1586018 TTCATCTAACTGGCATAAATGTCACCTTTCTGTCAAATGCACAGTTAGGCC
1 TTCATCTAACTGGCAT-AATGACACCTTTCTGTC-AATGCACAGTTAGGCC
1586069 ATTAATCTTG
Statistics
Matches: 108, Mismatches: 8, Indels: 6
0.89 0.07 0.05
Matches are distributed among these distances:
67 1 0.01
68 102 0.94
69 5 0.05
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.32
Consensus pattern (66 bp):
TTCATCTAACTGGCATAATGACACCTTTCTGTCAATGCACAGTTAGGCCTCAAAGGCACTTAGCC
T
Found at i:1586471 original size:27 final size:26
Alignment explanation
Indices: 1586441--1586850 Score: 164
Period size: 27 Copynumber: 17.3 Consensus size: 26
1586431 AATGCATTCG
*
1586441 TTCATGCATTTTTAGTTATGGCTTCCT
1 TTCATGCATTTTTA-TTATGGCATCCT
* *
1586468 TTCATGC---CTTA--AT-GCATCCG
1 TTCATGCATTTTTATTATGGCATCCT
*
1586488 TTCATGCATTTTTAGTTATGACATCCT
1 TTCATGCATTTTTA-TTATGGCATCCT
* *
1586515 TTCATGC---CTTA--AT-GCAT-TT
1 TTCATGCATTTTTATTATGGCATCCT
1586534 GTTCATGCATTTTTACTTATGGCATCCT
1 -TTCATGCATTTTTA-TTATGGCATCCT
*
1586562 TTCATGCA---TTA--AT-GCATCCA
1 TTCATGCATTTTTATTATGGCATCCT
1586582 TTCATGCATTTTTAGTTATGGCATCCT
1 TTCATGCATTTTTA-TTATGGCATCCT
* *
1586609 TTCATGC---CTTA-T-T-GCAT-AT
1 TTCATGCATTTTTATTATGGCATCCT
1586628 GTTCATGCATTTTTAGTTATGGCATCCT
1 -TTCATGCATTTTTA-TTATGGCATCCT
* *
1586656 TTCATGC---CTTA--AT-GCATCCG
1 TTCATGCATTTTTATTATGGCATCCT
*
1586676 TTCATGCATTTTTTGTTATGGCATCCT
1 TTCATGCA-TTTTTATTATGGCATCCT
* * *
1586703 TTCATGC---CTTA--AT-ACATCCG
1 TTCATGCATTTTTATTATGGCATCCT
*
1586723 TTCATGCATTTTTAGTTATGGAATCCT
1 TTCATGCATTTTTA-TTATGGCATCCT
* *
1586750 TTCATGC---CTTA--AT-GCATCCG
1 TTCATGCATTTTTATTATGGCATCCT
1586770 TTCATGCATTTTTAGTTATGGCATCCT
1 TTCATGCATTTTTA-TTATGGCATCCT
** * *
1586797 TTCAT---TCCTTA--AT-ACATCCG
1 TTCATGCATTTTTATTATGGCATCCT
*
1586817 TTCATGCATTTTTAGTTATGACATCCT
1 TTCATGCATTTTTA-TTATGGCATCCT
1586844 TTCATGC
1 TTCATGC
1586851 CTTAATGCAT
Statistics
Matches: 281, Mismatches: 42, Indels: 120
0.63 0.09 0.27
Matches are distributed among these distances:
19 2 0.01
20 94 0.33
21 15 0.05
22 1 0.00
23 24 0.09
24 24 0.09
25 1 0.00
26 15 0.05
27 103 0.37
28 2 0.01
ACGTcount: A:0.20, C:0.22, G:0.13, T:0.45
Consensus pattern (26 bp):
TTCATGCATTTTTATTATGGCATCCT
Found at i:1586478 original size:47 final size:47
Alignment explanation
Indices: 1586412--1586884 Score: 772
Period size: 47 Copynumber: 10.1 Consensus size: 47
1586402 TTAATTTCAC
*
1586412 TTATGGCATCC--T-ATGCCTTAATGCATTCGTTCATGCATTTTTAG
1 TTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGCATTTTTAG
*
1586456 TTATGGCTTCCTTTCATGCCTTAATGCATCCGTTCATGCATTTTTAG
1 TTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGCATTTTTAG
* ** *
1586503 TTATGACATCCTTTCATGCCTTAATGCATTTGTTCATGCATTTTTAC
1 TTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGCATTTTTAG
* *
1586550 TTATGGCATCCTTTCATGCATTAATGCATCCATTCATGCATTTTTAG
1 TTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGCATTTTTAG
* **
1586597 TTATGGCATCCTTTCATGCCTTATTGCATATGTTCATGCATTTTTAG
1 TTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGCATTTTTAG
*
1586644 TTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGCATTTTTTG
1 TTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGCATTTTTAG
*
1586691 TTATGGCATCCTTTCATGCCTTAATACATCCGTTCATGCATTTTTAG
1 TTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGCATTTTTAG
*
1586738 TTATGGAATCCTTTCATGCCTTAATGCATCCGTTCATGCATTTTTAG
1 TTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGCATTTTTAG
* *
1586785 TTATGGCATCCTTTCATTCCTTAATACATCCGTTCATGCATTTTTAG
1 TTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGCATTTTTAG
*
1586832 TTATGACATCCTTTCATGCCTTAATGCATCCGTTCATGCATTTTTAG
1 TTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGCATTTTTAG
1586879 TTATGG
1 TTATGG
1586885 ATTCGGTTTA
Statistics
Matches: 393, Mismatches: 33, Indels: 3
0.92 0.08 0.01
Matches are distributed among these distances:
44 10 0.03
46 1 0.00
47 382 0.97
ACGTcount: A:0.20, C:0.22, G:0.14, T:0.44
Consensus pattern (47 bp):
TTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGCATTTTTAG
Found at i:1587366 original size:18 final size:19
Alignment explanation
Indices: 1587321--1587367 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
1587311 TTCTATATTA
*
1587321 TGGTATCGATACCCCCTTT
1 TGGTATCGATACCCCATTT
1587340 TGGTATCGATA-CCCATTT
1 TGGTATCGATACCCCATTT
1587358 TAGGT-TCGAT
1 T-GGTATCGAT
1587368 GTTGCCTGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 12 0.46
19 14 0.54
ACGTcount: A:0.19, C:0.23, G:0.19, T:0.38
Consensus pattern (19 bp):
TGGTATCGATACCCCATTT
Found at i:1587444 original size:94 final size:95
Alignment explanation
Indices: 1587319--1587503 Score: 257
Period size: 94 Copynumber: 2.0 Consensus size: 95
1587309 AATTCTATAT
* ** * * *
1587319 TATGGTATCGATACCCCCTTTTGGTATCGATACCCATTTTAGGTTCGATGTTGCCTGGTATCGAT
1 TATGGTACCGATACCCCCTGCTGGTATCGATACCAATTTTAGATTCGAGGTTGCCTGGTATCGAT
*
1587384 AACCTTACCAT-GATATCTATACTACCATAC
66 AACCTTACCATAG-TATCGATACTACCATAC
*
1587414 TATGGTACCGATA-CCCCTGCTGGTATCGATACCAATTTTAGATTCGAGGTTTCCTGGTATCGAT
1 TATGGTACCGATACCCCCTGCTGGTATCGATACCAATTTTAGATTCGAGGTTGCCTGGTATCGAT
* *
1587478 ACCCTTACTATAGTATCGATACTACC
66 AACCTTACCATAGTATCGATACTACC
1587504 TCGTTGGTAT
Statistics
Matches: 79, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
94 66 0.84
95 13 0.16
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.35
Consensus pattern (95 bp):
TATGGTACCGATACCCCCTGCTGGTATCGATACCAATTTTAGATTCGAGGTTGCCTGGTATCGAT
AACCTTACCATAGTATCGATACTACCATAC
Found at i:1589626 original size:16 final size:16
Alignment explanation
Indices: 1589605--1589648 Score: 79
Period size: 16 Copynumber: 2.8 Consensus size: 16
1589595 TATTCGACTT
*
1589605 GTTACTTGTTAACCTC
1 GTTACTCGTTAACCTC
1589621 GTTACTCGTTAACCTC
1 GTTACTCGTTAACCTC
1589637 GTTACTCGTTAA
1 GTTACTCGTTAA
1589649 GCTTGTTGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.20, C:0.25, G:0.14, T:0.41
Consensus pattern (16 bp):
GTTACTCGTTAACCTC
Found at i:1589664 original size:16 final size:16
Alignment explanation
Indices: 1589645--1589681 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
1589635 TCGTTACTCG
1589645 TTAAGCTTGTTGTTCA
1 TTAAGCTTGTTGTTCA
*
1589661 TTAAGCTTGTTGTTCG
1 TTAAGCTTGTTGTTCA
1589677 TTAAG
1 TTAAG
1589682 TTCGATGCTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.19, C:0.11, G:0.22, T:0.49
Consensus pattern (16 bp):
TTAAGCTTGTTGTTCA
Found at i:1590123 original size:22 final size:22
Alignment explanation
Indices: 1590098--1590149 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 22
1590088 TGTTCGACTC
*
1590098 AACTCGATAAGTTCTCGAGTTG
1 AACTCGATAAGGTCTCGAGTTG
*
1590120 AACTCGTTAAGGTCTCGAGTTG
1 AACTCGATAAGGTCTCGAGTTG
*
1590142 AGCTCGAT
1 AACTCGAT
1590150 TTTGAATTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (22 bp):
AACTCGATAAGGTCTCGAGTTG
Found at i:1596295 original size:17 final size:18
Alignment explanation
Indices: 1596273--1596309 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
1596263 TTCCAGAATG
*
1596273 CCGAAAT-GGTATCGGTA
1 CCGAAATGGGTATCGATA
1596290 CCGAAATGGGTATCGATA
1 CCGAAATGGGTATCGATA
1596308 CC
1 CC
1596310 ATATAAGGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.30, C:0.22, G:0.27, T:0.22
Consensus pattern (18 bp):
CCGAAATGGGTATCGATA
Found at i:1596913 original size:23 final size:23
Alignment explanation
Indices: 1596882--1596956 Score: 114
Period size: 23 Copynumber: 3.3 Consensus size: 23
1596872 GTCGAGGGTT
1596882 CTATGTGGTCCTTCGGGACAAAA
1 CTATGTGGTCCTTCGGGACAAAA
* *
1596905 TTATGTGGTCCTTCGGGACAAAC
1 CTATGTGGTCCTTCGGGACAAAA
* *
1596928 CTATGTGGTCCTTCGAGATAAAA
1 CTATGTGGTCCTTCGGGACAAAA
1596951 CTATGT
1 CTATGT
1596957 AGTTATTCGG
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31
Consensus pattern (23 bp):
CTATGTGGTCCTTCGGGACAAAA
Found at i:1596935 original size:46 final size:45
Alignment explanation
Indices: 1596882--1596997 Score: 121
Period size: 46 Copynumber: 2.6 Consensus size: 45
1596872 GTCGAGGGTT
* *
1596882 CTATGTGGTCCTTCGGGACAAAATTATGTGGTCCTTCGGGACAAA
1 CTATGTGGTCCTTCGGGACAAAATTATGTAGTCATTCGGGACAAA
* * * * *
1596927 CCTATGTGGTCCTTCGAGATAAAACTATGTAGTTATTCGGGATAAA
1 -CTATGTGGTCCTTCGGGACAAAATTATGTAGTCATTCGGGACAAA
*
1596973 -TATGTGG-CACTTCGGTAC-AAATTAT
1 CTATGTGGTC-CTTCGGGACAAAATTAT
1596998 ACAAGCTGTG
Statistics
Matches: 58, Mismatches: 11, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
43 7 0.12
44 13 0.22
46 38 0.66
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.32
Consensus pattern (45 bp):
CTATGTGGTCCTTCGGGACAAAATTATGTAGTCATTCGGGACAAA
Found at i:1603361 original size:23 final size:22
Alignment explanation
Indices: 1603328--1603410 Score: 98
Period size: 23 Copynumber: 3.7 Consensus size: 22
1603318 GTCGAGGGTT
*
1603328 CTATGTTGTCCTTCGGGACAAA
1 CTATGTGGTCCTTCGGGACAAA
*
1603350 CCTATGTGGTCCTTCGGGATAAAA
1 -CTATGTGGTCCTTCGGGA-CAAA
*
1603374 CTATGTTGTCCTTCGGGACAAA
1 CTATGTGGTCCTTCGGGACAAA
1603396 -TATGTGG-CACTTCGG
1 CTATGTGGTC-CTTCGG
1603411 TGCAAATTAT
Statistics
Matches: 53, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
20 1 0.02
21 12 0.23
22 3 0.06
23 34 0.64
24 3 0.06
ACGTcount: A:0.22, C:0.22, G:0.25, T:0.31
Consensus pattern (22 bp):
CTATGTGGTCCTTCGGGACAAA
Found at i:1605470 original size:3 final size:3
Alignment explanation
Indices: 1605462--1605525 Score: 128
Period size: 3 Copynumber: 21.3 Consensus size: 3
1605452 ACAATTAATG
1605462 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1605510 TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA T
1605526 AAGGCTCTCA
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 61 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:1606301 original size:21 final size:21
Alignment explanation
Indices: 1606277--1606342 Score: 114
Period size: 21 Copynumber: 3.1 Consensus size: 21
1606267 GGATAGGTCA
*
1606277 TTTCTTTCGAGGGATCGATCC
1 TTTCTCTCGAGGGATCGATCC
1606298 TTTCTCTCGAGGGATCGATCC
1 TTTCTCTCGAGGGATCGATCC
*
1606319 TTTCTCCCGAGGGATCGATCC
1 TTTCTCTCGAGGGATCGATCC
1606340 TTT
1 TTT
1606343 TGAAAAGGGA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.14, C:0.27, G:0.23, T:0.36
Consensus pattern (21 bp):
TTTCTCTCGAGGGATCGATCC
Found at i:1607099 original size:15 final size:15
Alignment explanation
Indices: 1607075--1607109 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
1607065 CCCCCCAAAG
1607075 CCAACCCAATTAAGC
1 CCAACCCAATTAAGC
*
1607090 CCAACTCAATTAAGC
1 CCAACCCAATTAAGC
1607105 CCAAC
1 CCAAC
1607110 AACTTCATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.40, C:0.40, G:0.06, T:0.14
Consensus pattern (15 bp):
CCAACCCAATTAAGC
Found at i:1611564 original size:20 final size:20
Alignment explanation
Indices: 1611535--1611572 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
1611525 TTTCAAAGGA
1611535 ATGCACCGATGCACCAATCC
1 ATGCACCGATGCACCAATCC
*
1611555 ATGCATCGATGCACCAAT
1 ATGCACCGATGCACCAAT
1611573 GAATAAATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.32, C:0.34, G:0.16, T:0.18
Consensus pattern (20 bp):
ATGCACCGATGCACCAATCC
Found at i:1611695 original size:66 final size:64
Alignment explanation
Indices: 1611535--1611743 Score: 208
Period size: 65 Copynumber: 3.2 Consensus size: 64
1611525 TTTCAAAGGA
* ** * **
1611535 ATGCACCGATGCACCAATCCATGCATCGATGCAC-CAATGAATAAATTG-AACATCGAATGCATT
1 ATGCATCGATGCA-CAAGACATGCATCGATGCACTC-A-GACTATTTTGAAACATCGAATGCATT
*
1611598 TT
63 TC
*** * *
1611600 ATGCATCGATGCACACTCCATGCATCGATGCACTCAG-GTTTTTATGAAAACATCGAATGCATTT
1 ATGCATCGATGCACAAGACATGCATCGATGCACTCAGACTATTT-TG-AAACATCGAATGCATTT
*
1611664 G
64 C
* *
1611665 ATGCATTCGATGCACAAGACATGCATCGATGTACTCAGACTATTTTGAAACATCGAATGCACTTC
1 ATGCA-TCGATGCACAAGACATGCATCGATGCACTCAGACTATTTTGAAACATCGAATGCATTTC
1611730 ATGCATCGATGCAC
1 ATGCATCGATGCAC
1611744 TCTTAGTGTA
Statistics
Matches: 123, Mismatches: 15, Indels: 13
0.81 0.10 0.09
Matches are distributed among these distances:
62 2 0.02
63 3 0.02
64 29 0.24
65 55 0.45
66 30 0.24
67 4 0.03
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (64 bp):
ATGCATCGATGCACAAGACATGCATCGATGCACTCAGACTATTTTGAAACATCGAATGCATTTC
Found at i:1612379 original size:21 final size:20
Alignment explanation
Indices: 1612354--1612392 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
1612344 AAGTCGAACC
1612354 ACTTTAAATCGTTGTGCAATT
1 ACTTTAAAT-GTTGTGCAATT
* *
1612375 ACTTTCAATTTTGTGCAA
1 ACTTTAAATGTTGTGCAA
1612393 AAGCTTCCAC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.28, C:0.15, G:0.13, T:0.44
Consensus pattern (20 bp):
ACTTTAAATGTTGTGCAATT
Found at i:1619892 original size:11 final size:12
Alignment explanation
Indices: 1619876--1619908 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
1619866 TAAGGGGGAG
1619876 TAATTTCAAAC-
1 TAATTTCAAACT
1619887 TAATTTCAAACT
1 TAATTTCAAACT
*
1619899 TGATTTCAAA
1 TAATTTCAAA
1619909 ATTTATTTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 11 0.55
12 9 0.45
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.39
Consensus pattern (12 bp):
TAATTTCAAACT
Found at i:1620245 original size:20 final size:20
Alignment explanation
Indices: 1620220--1620277 Score: 89
Period size: 20 Copynumber: 2.9 Consensus size: 20
1620210 TTTCAAAGGA
1620220 ATGCACCGATGCACCAATCC
1 ATGCACCGATGCACCAATCC
* *
1620240 ATGCACTGATGCACCAATTC
1 ATGCACCGATGCACCAATCC
*
1620260 ATGCATCGATGCACCAAT
1 ATGCACCGATGCACCAAT
1620278 GAATAAATTG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.31, C:0.33, G:0.16, T:0.21
Consensus pattern (20 bp):
ATGCACCGATGCACCAATCC
Found at i:1620357 original size:65 final size:64
Alignment explanation
Indices: 1620288--1620447 Score: 187
Period size: 65 Copynumber: 2.5 Consensus size: 64
1620278 GAATAAATTG
* *** *
1620288 AACATCGAATGCATTTTATGCATCGATGCACACTCCATGCATCGATGCACTCA-GATTTTTATGA
1 AACATCGAATGCATTTCATGCATCGATGCACAAGACATGCATCGATGCACTCAGGATATTT-TG-
1620352 A
64 A
* * * * *
1620353 AACATTGAATGCATTTGATGCATCAATGCACAAGACATGCATCGATGCACTTAGGCTATTTTGA
1 AACATCGAATGCATTTCATGCATCGATGCACAAGACATGCATCGATGCACTCAGGATATTTTGA
* *
1620417 AACATCGAATGCACTTCATGCATTGATGCAC
1 AACATCGAATGCATTTCATGCATCGATGCAC
1620448 TCTTAGTGCA
Statistics
Matches: 80, Mismatches: 14, Indels: 3
0.82 0.14 0.03
Matches are distributed among these distances:
64 27 0.34
65 48 0.60
66 5 0.06
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (64 bp):
AACATCGAATGCATTTCATGCATCGATGCACAAGACATGCATCGATGCACTCAGGATATTTTGA
Found at i:1622214 original size:69 final size:69
Alignment explanation
Indices: 1622035--1622383 Score: 382
Period size: 69 Copynumber: 5.1 Consensus size: 69
1622025 TTTGAAAACA
* *
1622035 AAGGATTAGAGTGACTCGCACAAGAGCACCTAATCATAATTATTTCGGATGACTCGCAC-GGAG-
1 AAGGATTAGAGTGACTCGCACGAGAGCACCTAATCATAATTATTTCGGGTGACTCGCACGGGAGC
1622098 CCTCG
66 CCT-G
* * * *
1622103 AAGGATTAGATTGACTCACAC-ATGAGCACCTAATCATAATTATTTTGGGTGACTCGCACAGGAG
1 AAGGATTAGAGTGACTCGCACGA-GAGCACCTAATCATAATTATTTCGGGTGACTCGCACGGGAG
* *
1622167 TCCTA
65 CCCTG
* * * * * *
1622172 AAGGATTAGAGTGACTTGCACGAGAGTACCAAATCATAATTATTTCAGGTGACTCGTATGGGAGC
1 AAGGATTAGAGTGACTCGCACGAGAGCACCTAATCATAATTATTTCGGGTGACTCGCACGGGAGC
1622237 CCTG
66 CCTG
* * * * * *
1622241 AAGGATTAGAGAT-ATTTGCACGGGAGCACCTGATTATAATTATTTCGGATGACTCGCACGGGAG
1 AAGGATTAGAG-TGACTCGCACGAGAGCACCTAATCATAATTATTTCGGGTGACTCGCACGGGAG
1622305 CCCTG
65 CCCTG
* * * * * * * *
1622310 AAGGATTCGAATGACTCACATGGGAGCACCTAATCATAATTATTTTGGGAGACTCGCACGGGAAC
1 AAGGATTAGAGTGACTCGCACGAGAGCACCTAATCATAATTATTTCGGGTGACTCGCACGGGAGC
*
1622375 CCCG
66 CCTG
1622379 AAGGA
1 AAGGA
1622384 AATTTTCTAG
Statistics
Matches: 235, Mismatches: 40, Indels: 11
0.82 0.14 0.04
Matches are distributed among these distances:
67 1 0.00
68 54 0.23
69 175 0.74
70 5 0.02
ACGTcount: A:0.31, C:0.20, G:0.25, T:0.24
Consensus pattern (69 bp):
AAGGATTAGAGTGACTCGCACGAGAGCACCTAATCATAATTATTTCGGGTGACTCGCACGGGAGC
CCTG
Found at i:1623065 original size:38 final size:36
Alignment explanation
Indices: 1623011--1623117 Score: 91
Period size: 31 Copynumber: 3.0 Consensus size: 36
1623001 AAAAGATTAG
* *
1623011 AGTGACTCACACGGGAGCACCTAATCATAATTATTCCA
1 AGTGACTCGCATGGGAGC-CCTAAT-ATAATTATTCCA
* *
1623049 AGTGACTCGCATGGGAG-CCTCAA-AGAATTA----G
1 AGTGACTCGCATGGGAGCCCT-AATATAATTATTCCA
1623080 AGTGACTCGCATGGGAGCGCCTAATTATAATTATTCCA
1 AGTGACTCGCATGGGAGC-CCTAA-TATAATTATTCCA
1623118 GGTAGGGATA
Statistics
Matches: 54, Mismatches: 6, Indels: 18
0.69 0.08 0.23
Matches are distributed among these distances:
31 17 0.31
32 2 0.04
33 3 0.06
34 6 0.11
35 6 0.11
36 3 0.06
37 2 0.04
38 15 0.28
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.24
Consensus pattern (36 bp):
AGTGACTCGCATGGGAGCCCTAATATAATTATTCCA
Found at i:1626952 original size:198 final size:198
Alignment explanation
Indices: 1626614--1627010 Score: 794
Period size: 198 Copynumber: 2.0 Consensus size: 198
1626604 CAACAACAAG
1626614 GTTATAGGCTTCTGTTCATGAGGGAGAGACTACATCATAGTGGATCTACGTCGACACACACCGTA
1 GTTATAGGCTTCTGTTCATGAGGGAGAGACTACATCATAGTGGATCTACGTCGACACACACCGTA
1626679 TAGGCCACCGTCATCGGTGGCAGTTGAGGCACAAACTACGTTGGTTGACTCGCTCCGACAACGAT
66 TAGGCCACCGTCATCGGTGGCAGTTGAGGCACAAACTACGTTGGTTGACTCGCTCCGACAACGAT
1626744 AATGCATATTTGAGCTTGGATTCGCTAGAAAAGGCCCCCATCTTTACAAAAACGACCTACATCAT
131 AATGCATATTTGAGCTTGGATTCGCTAGAAAAGGCCCCCATCTTTACAAAAACGACCTACATCAT
1626809 TTC
196 TTC
1626812 GTTATAGGCTTCTGTTCATGAGGGAGAGACTACATCATAGTGGATCTACGTCGACACACACCGTA
1 GTTATAGGCTTCTGTTCATGAGGGAGAGACTACATCATAGTGGATCTACGTCGACACACACCGTA
1626877 TAGGCCACCGTCATCGGTGGCAGTTGAGGCACAAACTACGTTGGTTGACTCGCTCCGACAACGAT
66 TAGGCCACCGTCATCGGTGGCAGTTGAGGCACAAACTACGTTGGTTGACTCGCTCCGACAACGAT
1626942 AATGCATATTTGAGCTTGGATTCGCTAGAAAAGGCCCCCATCTTTACAAAAACGACCTACATCAT
131 AATGCATATTTGAGCTTGGATTCGCTAGAAAAGGCCCCCATCTTTACAAAAACGACCTACATCAT
1627007 TTC
196 TTC
1627010 G
1 G
1627011 GCTTCAAATG
Statistics
Matches: 199, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
198 199 1.00
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.25
Consensus pattern (198 bp):
GTTATAGGCTTCTGTTCATGAGGGAGAGACTACATCATAGTGGATCTACGTCGACACACACCGTA
TAGGCCACCGTCATCGGTGGCAGTTGAGGCACAAACTACGTTGGTTGACTCGCTCCGACAACGAT
AATGCATATTTGAGCTTGGATTCGCTAGAAAAGGCCCCCATCTTTACAAAAACGACCTACATCAT
TTC
Found at i:1627648 original size:15 final size:15
Alignment explanation
Indices: 1627616--1627649 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
1627606 AACTTTGCTT
* *
1627616 CAAGGTCGGCAGCTA
1 CAAGGTCGGCAACAA
1627631 CAAGGTCGGCAACAA
1 CAAGGTCGGCAACAA
1627646 CAAG
1 CAAG
1627650 CAGATTACAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.35, C:0.26, G:0.29, T:0.09
Consensus pattern (15 bp):
CAAGGTCGGCAACAA
Found at i:1651953 original size:3 final size:3
Alignment explanation
Indices: 1651852--1651937 Score: 127
Period size: 3 Copynumber: 28.0 Consensus size: 3
1651842 CCCCATTTTT
* * *
1651852 TTA TTA TTTA TTTA TCA TTT TTA TTA TTA TTA TTA TTA TAA TTA TTA
1 TTA TTA -TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1651899 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1651938 ATAAAATATA
Statistics
Matches: 76, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
3 69 0.91
4 7 0.09
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:1652682 original size:21 final size:22
Alignment explanation
Indices: 1652635--1652685 Score: 70
Period size: 21 Copynumber: 2.4 Consensus size: 22
1652625 TAGTGATTGG
*
1652635 CGGTGGCCGAAATAGTGACAGA
1 CGGTGGCTGAAATAGTGACAGA
*
1652657 -AGTGGCTGAAATAGTGA-AGA
1 CGGTGGCTGAAATAGTGACAGA
1652677 CGGTGGCTG
1 CGGTGGCTG
1652686 GCCGGTGACC
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 3 0.12
21 22 0.88
ACGTcount: A:0.29, C:0.14, G:0.39, T:0.18
Consensus pattern (22 bp):
CGGTGGCTGAAATAGTGACAGA
Found at i:1653445 original size:22 final size:21
Alignment explanation
Indices: 1653411--1653451 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
1653401 AATATTTTTA
1653411 AATAAATAAATATTTTACTTAT
1 AATAAATAAATA-TTTACTTAT
* *
1653433 AATATATATATATTTACTT
1 AATAAATAAATATTTACTT
1653452 CAGTTTTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (21 bp):
AATAAATAAATATTTACTTAT
Found at i:1658821 original size:6 final size:6
Alignment explanation
Indices: 1658809--1658853 Score: 63
Period size: 6 Copynumber: 7.5 Consensus size: 6
1658799 CAAAAAGAAA
* * *
1658809 AAAAAG AATAAG AAAGAG AAAAAG AAAAAG AAAGAG AAAAAG AAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAA
1658854 GGGAAAAAGG
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (6 bp):
AAAAAG
Found at i:1658833 original size:12 final size:12
Alignment explanation
Indices: 1658809--1658862 Score: 65
Period size: 12 Copynumber: 4.5 Consensus size: 12
1658799 CAAAAAGAAA
1658809 AAAAAGAATA-AG
1 AAAAAGAA-AGAG
* *
1658821 AAAGAGAAAAAG
1 AAAAAGAAAGAG
1658833 AAAAAGAAAGAG
1 AAAAAGAAAGAG
*
1658845 AAAAAGAAAGGG
1 AAAAAGAAAGAG
1658857 AAAAAG
1 AAAAAG
1658863 GCAAAAAGTT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
11 1 0.03
12 36 0.97
ACGTcount: A:0.74, C:0.00, G:0.24, T:0.02
Consensus pattern (12 bp):
AAAAAGAAAGAG
Found at i:1658859 original size:18 final size:18
Alignment explanation
Indices: 1658809--1658853 Score: 81
Period size: 18 Copynumber: 2.5 Consensus size: 18
1658799 CAAAAAGAAA
*
1658809 AAAAAGAATAAGAAAGAG
1 AAAAAGAAAAAGAAAGAG
1658827 AAAAAGAAAAAGAAAGAG
1 AAAAAGAAAAAGAAAGAG
1658845 AAAAAGAAA
1 AAAAAGAAA
1658854 GGGAAAAAGG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (18 bp):
AAAAAGAAAAAGAAAGAG
Found at i:1661106 original size:221 final size:222
Alignment explanation
Indices: 1660723--1661169 Score: 704
Period size: 221 Copynumber: 2.0 Consensus size: 222
1660713 TCCTCTGGGC
*
1660723 CATCCATAAGACTTCAGTGCAGGATGTTTTCAAATGAGATTTTAAAAAACTAAGTATGTTTTAGG
1 CATCCATAAGACTTCAGTGCAGGATGTTTTCAAATGAGATTTTAAAAAACTAAGTATATTTTAGG
* * *
1660788 GTTTTCTTAATTATCTCAAAAGAGTTGTTAAAGGAAGCTAAGCCTAACAAAGGGGTTATTTGACA
66 GGTTTCTTAATTATCTCAAAAGAGTTGTTAAAGGAAGATAAGCCTAACAAAGGGGTTACTTGACA
* * *
1660853 ACTAAGAAACTAAGCTTTCGAGGGTTTCTTAATTTGTATGTCCTTCGAGCCATCTGTAAGTCTTT
131 ACTAAGAAACAAAGCTTTCGAGGGTTTCTTAATTTGTAAGTCCTTCGAGCCATCAGTAAGTCTTT
* *
1660918 CAAGCATGATG-TTAAAGCCTTCGGGT
196 CAAGCATGATGTTTAAAGCCTCCGGAT
* *
1660944 CATCCATAAGACCTTTAGTGCATGATGTTTTCAAATGA-AGTTTT-AAAAACTAAGCT-TATTTT
1 CATCCATAAGA-CTTCAGTGCAGGATGTTTTCAAATGAGA-TTTTAAAAAACTAAG-TATATTTT
*
1661006 AGGGGTTTCTTAATTATCTCAAAAGAGTTGTTAAAGGAAGATAAGCCTAACAAAGGGGTTCCTTG
63 AGGGGTTTCTTAATTATCTCAAAAGAGTTGTTAAAGGAAGATAAGCCTAACAAAGGGGTTACTTG
*
1661071 ACAACTAAGAAACAAAGCTTTCGAGGGTTTCTTAATTTGTAAGTCCTTCGGGCCATCAGTAAGTC
128 ACAACTAAGAAACAAAGCTTTCGAGGGTTTCTTAATTTGTAAGTCCTTCGAGCCATCAGTAAGTC
* *
1661136 TTTCGAGCATGATGTTTAAATCCTCCGGAT
193 TTTCAAGCATGATGTTTAAAGCCTCCGGAT
1661166 CATC
1 CATC
1661170 TGTAAGCCTT
Statistics
Matches: 207, Mismatches: 15, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
221 162 0.78
222 45 0.22
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.33
Consensus pattern (222 bp):
CATCCATAAGACTTCAGTGCAGGATGTTTTCAAATGAGATTTTAAAAAACTAAGTATATTTTAGG
GGTTTCTTAATTATCTCAAAAGAGTTGTTAAAGGAAGATAAGCCTAACAAAGGGGTTACTTGACA
ACTAAGAAACAAAGCTTTCGAGGGTTTCTTAATTTGTAAGTCCTTCGAGCCATCAGTAAGTCTTT
CAAGCATGATGTTTAAAGCCTCCGGAT
Found at i:1661210 original size:41 final size:42
Alignment explanation
Indices: 1661124--1661210 Score: 113
Period size: 42 Copynumber: 2.1 Consensus size: 42
1661114 TCCTTCGGGC
* * *
1661124 CATCAGTAAGTCTTTCGAGCATGATGTTTAAATCCTCCGGAT
1 CATCAGTAAGCCTTTCGAGCAAGATGTTTAAAGCCTCCGGAT
* * *
1661166 CATCTGTAAGCCTTTCGAGCAAGATG-TTAAAGCCTCTGGGT
1 CATCAGTAAGCCTTTCGAGCAAGATGTTTAAAGCCTCCGGAT
1661207 CATC
1 CATC
1661211 CATAAGACCT
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
41 16 0.41
42 23 0.59
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.31
Consensus pattern (42 bp):
CATCAGTAAGCCTTTCGAGCAAGATGTTTAAAGCCTCCGGAT
Found at i:1661478 original size:41 final size:42
Alignment explanation
Indices: 1661377--1661483 Score: 101
Period size: 42 Copynumber: 2.5 Consensus size: 42
1661367 ATTTTTAAGT
* * *
1661377 CCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGTTTAAAC
1 CCTTCGGGCCATCAGTAAGCCTTTCAAGCAAGATGTTTAAAC
** * * *
1661419 CCCCCGGGTCAT-ATGTAAGCCTTTTAAGCAAGATG-TTAAAG
1 CCTTCGGGCCATCA-GTAAGCCTTTCAAGCAAGATGTTTAAAC
*
1661460 CCTTCGGGCCATCCGTAAGACCTT
1 CCTTCGGGCCATCAGTAAG-CCTT
1661484 CAGTACAAGA
Statistics
Matches: 50, Mismatches: 12, Indels: 6
0.74 0.18 0.09
Matches are distributed among these distances:
41 20 0.40
42 30 0.60
ACGTcount: A:0.24, C:0.26, G:0.21, T:0.28
Consensus pattern (42 bp):
CCTTCGGGCCATCAGTAAGCCTTTCAAGCAAGATGTTTAAAC
Found at i:1661511 original size:262 final size:263
Alignment explanation
Indices: 1660907--1661614 Score: 1100
Period size: 262 Copynumber: 2.7 Consensus size: 263
1660897 TCGAGCCATC
* * * *
1660907 TGTAAGTCTTTCAAGCATGATGTTAAAGCCTTCGGGTCATCCATAAGACCTTTAGTGCATGATGT
1 TGTAAGCCTTTCAAGCAAGATGTTAAAGCCTTCGGGTCATCCATAAGACCTTCAGTGCAAGATGT
*
1660972 TTTCAAATGA-AGTTTTAAAAACTAAGCTTATTTTAGGGGTTTCTTAATTATCTCAAAAGAGTTG
66 TTTCAAATGAGA-TTTTAAAAACTAAGCCTATTTTAGGGGTTTCTTAATTATCTCAAAAGAGTTG
* *
1661036 TTAAAGGAAGATAAGCCTAACAAAGGGGTTCCTTGACAACTAAGAAACAAAGCTTTCGAGGGTTT
130 TTAAAGGAAGCTAAGCCTAACAAAGGGGTTCCTTGACAACTAAGAAACTAAGCTTTCGAGGGTTT
* *
1661101 CTTAATTTGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGTTTAAATCCTCCGGAT
195 CTTAATTTGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGTTTAAACCCCCCGGAT
*
1661166 CATC
260 CATA
* *
1661170 TGTAAGCCTTTCGAGCAAGATGTTAAAGCC-TCTGGGTCATCCATAAGACCTTCAGTGCAGGATG
1 TGTAAGCCTTTCAAGCAAGATGTTAAAGCCTTC-GGGTCATCCATAAGACCTTCAGTGCAAGATG
* * *
1661234 TTTTCAAATGAGATTTTAAAAACTAAGCCTGTTTTAGGGGTTTCTTAACTATCTCAAAAGAGTTA
65 TTTTCAAATGAGATTTTAAAAACTAAGCCTATTTTAGGGGTTTCTTAATTATCTCAAAAGAGTTG
*
1661299 TTAAAGGAAGCTAAGCCTAACAAAGGGGTTCTTTGACAACTAAGAAACTAAGCTTTCGAGGG-TT
130 TTAAAGGAAGCTAAGCCTAACAAAGGGGTTCCTTGACAACTAAGAAACTAAGCTTTCGAGGGTTT
* * *
1661363 CTTGATTTTTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGTTTAAACCCCCCGGGT
195 CTTAATTTGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGTTTAAACCCCCCGGAT
1661428 CATA
260 CATA
* * * *
1661432 TGTAAGCCTTTTAAGCAAGATGTTAAAGCCTTCGGGCCATCCGTAAGACCTTCAGTACAAGATGT
1 TGTAAGCCTTTCAAGCAAGATGTTAAAGCCTTCGGGTCATCCATAAGACCTTCAGTGCAAGATGT
*
1661497 TTTCAAATGAGATTTTAAAAACTAAGCCTATTTTAGGGGTTTCTTAATTATCTCGAAAGAGTTGT
66 TTTCAAATGAGATTTTAAAAACTAAGCCTATTTTAGGGGTTTCTTAATTATCTCAAAAGAGTTGT
* *** * *
1661562 TAAAGGAAGCTAAACCT-TTTAAGGGGTTCCTTGATAACCAAGAAACTAAGCTT
131 TAAAGGAAGCTAAGCCTAACAAAGGGGTTCCTTGACAACTAAGAAACTAAGCTT
1661615 GATTCACGAT
Statistics
Matches: 407, Mismatches: 35, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
261 30 0.07
262 200 0.49
263 176 0.43
264 1 0.00
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.32
Consensus pattern (263 bp):
TGTAAGCCTTTCAAGCAAGATGTTAAAGCCTTCGGGTCATCCATAAGACCTTCAGTGCAAGATGT
TTTCAAATGAGATTTTAAAAACTAAGCCTATTTTAGGGGTTTCTTAATTATCTCAAAAGAGTTGT
TAAAGGAAGCTAAGCCTAACAAAGGGGTTCCTTGACAACTAAGAAACTAAGCTTTCGAGGGTTTC
TTAATTTGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGTTTAAACCCCCCGGATC
ATA
Found at i:1662006 original size:16 final size:16
Alignment explanation
Indices: 1661978--1662041 Score: 60
Period size: 16 Copynumber: 3.9 Consensus size: 16
1661968 CCCATTTTTT
*
1661978 ATTTTTTA-T-TTATC
1 ATTTTTTATTATTATA
1661992 ATTTTTTATTATTATAA
1 ATTTTTTATTATTAT-A
1662009 ATATTTATTATTATTATA
1 AT-TTT-TTATTATTATA
* *
1662027 AATATTTATTATTAT
1 ATTTTTTATTATTAT
1662042 TATTATTATT
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
14 8 0.19
15 1 0.02
16 14 0.33
17 4 0.10
18 5 0.12
19 10 0.24
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (16 bp):
ATTTTTTATTATTATA
Found at i:1662014 original size:19 final size:19
Alignment explanation
Indices: 1661992--1662064 Score: 101
Period size: 19 Copynumber: 3.8 Consensus size: 19
1661982 TTTATTTATC
*
1661992 ATTTTTTATTATTATAAAT
1 ATTTATTATTATTATAAAT
1662011 ATTTATTATTATTATAAAT
1 ATTTATTATTATTATAAAT
* *
1662030 ATTTATTATTATTATTATT
1 ATTTATTATTATTATAAAT
*
1662049 ATTAAATTATTATTAT
1 ATT-TATTATTATTAT
1662065 TATTAATAAA
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
19 38 0.78
20 11 0.22
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (19 bp):
ATTTATTATTATTATAAAT
Found at i:1662059 original size:17 final size:17
Alignment explanation
Indices: 1662037--1662070 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
1662027 AATATTTATT
1662037 ATTATTATTATTATTAA
1 ATTATTATTATTATTAA
1662054 ATTATTATTATTATTAA
1 ATTATTATTATTATTAA
1662071 TAAAATATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
ATTATTATTATTATTAA
Found at i:1662086 original size:3 final size:3
Alignment explanation
Indices: 1661997--1662069 Score: 76
Period size: 3 Copynumber: 24.0 Consensus size: 3
1661987 TTATCATTTT
* * * *
1661997 TTA TTA TTA TAA ATA TTTA TTA TTA TTA TAA ATA TTTA TTA TTA TTA
1 TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA
*
1662044 TTA TTA TTA -AA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA
1662070 ATAAAATATA
Statistics
Matches: 57, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
2 1 0.02
3 52 0.91
4 4 0.07
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:1665147 original size:40 final size:40
Alignment explanation
Indices: 1665072--1665165 Score: 98
Period size: 40 Copynumber: 2.4 Consensus size: 40
1665062 TTTATTCTGT
* * **
1665072 ATCCTTAAATTCTGTCGCATGTCATTCTATTATTATTTAA
1 ATCCGTAAATTCTGTCGCATGCCATTCTACAATTATTTAA
* * * **
1665112 ATCCGTAAATTTTGTCGCATGCCATTCTGCAATTATATGC
1 ATCCGTAAATTCTGTCGCATGCCATTCTACAATTATTTAA
*
1665152 ATCCATAAATTCTG
1 ATCCGTAAATTCTG
1665166 ACACATGTCG
Statistics
Matches: 43, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.28, C:0.20, G:0.11, T:0.41
Consensus pattern (40 bp):
ATCCGTAAATTCTGTCGCATGCCATTCTACAATTATTTAA
Found at i:1674011 original size:47 final size:46
Alignment explanation
Indices: 1673884--1674119 Score: 359
Period size: 46 Copynumber: 5.1 Consensus size: 46
1673874 TGGTATATGG
*
1673884 TTATGG-AAT-AATGGCAAGTATATTGGTAAAATAAGCTTACGAGC
1 TTATGGAAATAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
*
1673928 TTATGGAAATAAATGGTAAGTATATTGATAAAATAAGCTTACGAGC
1 TTATGGAAATAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
* * *
1673974 TTATGGAATTTAAAGGGTAAGTATTTTGGTAAAATAAGCTTACGAGC
1 TTATGGAA-ATAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
*
1674021 TTATGGAAATAAATGGTAAGTATATTGATAAAATAAGCTTACGAGC
1 TTATGGAAATAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
* * *
1674067 TTATGGAATTTAAATGGTAAGTATTTTGGTAAAATAAGGTTACGAGC
1 TTATGGAA-ATAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
1674114 TTATGG
1 TTATGG
1674120 TAAGAGATTT
Statistics
Matches: 174, Mismatches: 14, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
44 6 0.03
45 3 0.02
46 83 0.48
47 82 0.47
ACGTcount: A:0.39, C:0.06, G:0.22, T:0.33
Consensus pattern (46 bp):
TTATGGAAATAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
Found at i:1674058 original size:93 final size:93
Alignment explanation
Indices: 1673899--1674119 Score: 415
Period size: 93 Copynumber: 2.4 Consensus size: 93
1673889 GAATAATGGC
*
1673899 AAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAAATAAATGGTAAGTATATTGATAAAATAA
1 AAGTATTTTGGTAAAATAAGCTTACGAGCTTATGGAAATAAATGGTAAGTATATTGATAAAATAA
1673964 GCTTACGAGCTTATGGAATTTAAAGGGT
66 GCTTACGAGCTTATGGAATTTAAAGGGT
1673992 AAGTATTTTGGTAAAATAAGCTTACGAGCTTATGGAAATAAATGGTAAGTATATTGATAAAATAA
1 AAGTATTTTGGTAAAATAAGCTTACGAGCTTATGGAAATAAATGGTAAGTATATTGATAAAATAA
*
1674057 GCTTACGAGCTTATGGAATTTAAATGGT
66 GCTTACGAGCTTATGGAATTTAAAGGGT
*
1674085 AAGTATTTTGGTAAAATAAGGTTACGAGCTTATGG
1 AAGTATTTTGGTAAAATAAGCTTACGAGCTTATGG
1674120 TAAGAGATTT
Statistics
Matches: 125, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
93 125 1.00
ACGTcount: A:0.39, C:0.06, G:0.22, T:0.33
Consensus pattern (93 bp):
AAGTATTTTGGTAAAATAAGCTTACGAGCTTATGGAAATAAATGGTAAGTATATTGATAAAATAA
GCTTACGAGCTTATGGAATTTAAAGGGT
Done.