Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D05
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: 63323194
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1953226 characters in sequence are not A, C, G, or T
File 47 of 199
Found at i:18726348 original size:22 final size:22
Alignment explanation
Indices: 18726303--18726348 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
18726293 TAATATAGAC
* *
18726303 TTAATAGATGCAGGAAAATCTT
1 TTAATAGATGAAAGAAAATCTT
18726325 TTAATAGATGAAAAGAAAAT-TT
1 TTAATAGATG-AAAGAAAATCTT
18726347 TT
1 TT
18726349 GAACTGCTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 14 0.67
23 7 0.33
ACGTcount: A:0.46, C:0.04, G:0.15, T:0.35
Consensus pattern (22 bp):
TTAATAGATGAAAGAAAATCTT
Found at i:18732663 original size:21 final size:22
Alignment explanation
Indices: 18732639--18732691 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
18732629 AATATTTTTC
*
18732639 TCATAAAATTTATTTAAAAA-A
1 TCATAAAATTTATTAAAAAATA
*
18732660 TCATAAAAAATTATTAAAAAATA
1 TCAT-AAAATTTATTAAAAAATA
*
18732683 TCAAAAAAT
1 TCATAAAAT
18732692 ATAAAAATTA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
21 4 0.15
22 18 0.69
23 4 0.15
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.32
Consensus pattern (22 bp):
TCATAAAATTTATTAAAAAATA
Found at i:18732678 original size:9 final size:9
Alignment explanation
Indices: 18732653--18732750 Score: 63
Period size: 9 Copynumber: 10.3 Consensus size: 9
18732643 AAAATTTATT
18732653 TAAAAAATCA
1 TAAAAAAT-A
18732663 TAAAAAATTA
1 TAAAAAA-TA
18732673 TTAAAAAATA
1 -TAAAAAATA
18732683 TCAAAAAATA
1 T-AAAAAATA
*
18732693 TAAAAATTA
1 TAAAAAATA
* *
18732702 TTAAATAT-
1 TAAAAAATA
*
18732710 TTAAAAATA
1 TAAAAAATA
* *
18732719 TGAAAATTGA
1 TAAAAAAT-A
* *
18732729 TATGAAATTA
1 TA-AAAAATA
18732739 TAAAAAATA
1 TAAAAAATA
18732748 TAA
1 TAA
18732751 TTTTTTTATA
Statistics
Matches: 71, Mismatches: 11, Indels: 13
0.75 0.12 0.14
Matches are distributed among these distances:
8 7 0.10
9 27 0.38
10 24 0.34
11 13 0.18
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.31
Consensus pattern (9 bp):
TAAAAAATA
Found at i:18733412 original size:19 final size:18
Alignment explanation
Indices: 18733347--18733446 Score: 62
Period size: 20 Copynumber: 5.3 Consensus size: 18
18733337 AGTTTATATC
*
18733347 AATTTAAATATTTTTAT-
1 AATTTAAATATTTTTTTA
*
18733364 AATGTTACAT-TTTTTTTA
1 AAT-TTAAATATTTTTTTA
*
18733382 AGAATTACAATATGTTTTTTA
1 A-ATTTA-AATAT-TTTTTTA
*
18733403 AATTTAAATAAGTTTTATTA
1 AATTTAAAT-A-TTTTTTTA
* *
18733423 ATTTTATAT-TTTTTTTA
1 AATTTAAATATTTTTTTA
18733440 TAATTTA
1 -AATTTA
18733447 TTAGAATTTT
Statistics
Matches: 64, Mismatches: 10, Indels: 17
0.70 0.11 0.19
Matches are distributed among these distances:
17 16 0.25
18 14 0.22
19 6 0.09
20 19 0.30
21 9 0.14
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.58
Consensus pattern (18 bp):
AATTTAAATATTTTTTTA
Found at i:18749211 original size:55 final size:55
Alignment explanation
Indices: 18749127--18749237 Score: 186
Period size: 55 Copynumber: 2.0 Consensus size: 55
18749117 CGTTTAACCC
* * *
18749127 TAATGGGTTTTAGTTCAACTCTTTTGAGCTTCGGTTTAACCCTTATGGGTTTCCG
1 TAATGAGTTTCAGTTCAACTCTTTTGAGCTTCAGTTTAACCCTTATGGGTTTCCG
*
18749182 TAATGAGTTTCAGTTCAGCTCTTTTGAGCTTCAGTTTAACCCTTATGGGTTTCCG
1 TAATGAGTTTCAGTTCAACTCTTTTGAGCTTCAGTTTAACCCTTATGGGTTTCCG
18749237 T
1 T
18749238 TCAACTCTTA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
55 52 1.00
ACGTcount: A:0.17, C:0.19, G:0.21, T:0.43
Consensus pattern (55 bp):
TAATGAGTTTCAGTTCAACTCTTTTGAGCTTCAGTTTAACCCTTATGGGTTTCCG
Found at i:18749249 original size:21 final size:21
Alignment explanation
Indices: 18749219--18749280 Score: 88
Period size: 21 Copynumber: 3.0 Consensus size: 21
18749209 GCTTCAGTTT
18749219 AACCCTTATGGGTTTCCGTTC
1 AACCCTTATGGGTTTCCGTTC
* * * *
18749240 AACTCTTATGAGCTTCTGTTC
1 AACCCTTATGGGTTTCCGTTC
18749261 AACCCTTATGGGTTTCCGTT
1 AACCCTTATGGGTTTCCGTT
18749281 TAGCACTTGT
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.16, C:0.26, G:0.18, T:0.40
Consensus pattern (21 bp):
AACCCTTATGGGTTTCCGTTC
Found at i:18749252 original size:42 final size:42
Alignment explanation
Indices: 18749188--18749280 Score: 141
Period size: 42 Copynumber: 2.2 Consensus size: 42
18749178 TCCGTAATGA
* * * *
18749188 GTTTCAGTTCAGCTCTTTTGAGCTTCAGTTTAACCCTTATGG
1 GTTTCCGTTCAACTCTTATGAGCTTCAGTTCAACCCTTATGG
*
18749230 GTTTCCGTTCAACTCTTATGAGCTTCTGTTCAACCCTTATGG
1 GTTTCCGTTCAACTCTTATGAGCTTCAGTTCAACCCTTATGG
18749272 GTTTCCGTT
1 GTTTCCGTT
18749281 TAGCACTTGT
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.15, C:0.24, G:0.18, T:0.43
Consensus pattern (42 bp):
GTTTCCGTTCAACTCTTATGAGCTTCAGTTCAACCCTTATGG
Found at i:18753343 original size:21 final size:22
Alignment explanation
Indices: 18753309--18753351 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
18753299 ATATTTTTGA
* *
18753309 AATTTTTATATTTTTTAATTTT
1 AATTTTGATATTTTATAATTTT
18753331 AATTTTGAT-TTTTATAATTTT
1 AATTTTGATATTTTATAATTTT
18753352 TGAATTATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (22 bp):
AATTTTGATATTTTATAATTTT
Found at i:18753366 original size:28 final size:27
Alignment explanation
Indices: 18753310--18753366 Score: 62
Period size: 28 Copynumber: 2.0 Consensus size: 27
18753300 TATTTTTGAA
* *
18753310 ATTTTTATATTTTTTAATTTTAATTTTG
1 ATTTTTATATTTTTGAATTTT-ATATTG
18753338 ATTTTTATAATTTTTGAATTATT-TATTG
1 ATTTTTAT-ATTTTTGAATT-TTATATTG
18753366 A
1 A
18753367 CGTGACATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
28 13 0.52
29 10 0.40
30 2 0.08
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (27 bp):
ATTTTTATATTTTTGAATTTTATATTG
Found at i:18756452 original size:30 final size:30
Alignment explanation
Indices: 18756418--18756483 Score: 75
Period size: 29 Copynumber: 2.2 Consensus size: 30
18756408 ATCGTAATAA
18756418 AATTTTTC--CACATTAATCAAATTTTTTATT
1 AATTTTTCATCAC-TTAAT-AAATTTTTTATT
* *
18756448 AA-TTTTCATCACTTCATAATTTTTTTATT
1 AATTTTTCATCACTTAATAAATTTTTTATT
18756477 AATTTTT
1 AATTTTT
18756484 TATATATTGG
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
29 18 0.58
30 10 0.32
31 3 0.10
ACGTcount: A:0.30, C:0.12, G:0.00, T:0.58
Consensus pattern (30 bp):
AATTTTTCATCACTTAATAAATTTTTTATT
Found at i:18757196 original size:30 final size:31
Alignment explanation
Indices: 18757155--18757215 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 31
18757145 GGGTTGGGAG
* * *
18757155 GGGAGAGGAGTAAAAGTTTTGGGGGGAAAGT
1 GGGAGAGGAGTAAAAATTTTGAGGGAAAAGT
18757186 GGGA-AGGAGTAAAAATTTTGAGGGAAAAGT
1 GGGAGAGGAGTAAAAATTTTGAGGGAAAAGT
18757216 AAAAAGGTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 23 0.85
31 4 0.15
ACGTcount: A:0.38, C:0.00, G:0.43, T:0.20
Consensus pattern (31 bp):
GGGAGAGGAGTAAAAATTTTGAGGGAAAAGT
Found at i:18757825 original size:14 final size:15
Alignment explanation
Indices: 18757767--18757829 Score: 58
Period size: 15 Copynumber: 4.3 Consensus size: 15
18757757 ATAACTTAAG
*
18757767 TTCATCATTTAATTT
1 TTCAACATTTAATTT
** *
18757782 TTCAGTATTTATTTT
1 TTCAACATTTAATTT
*
18757797 TTCAGACACTT-ATTT
1 TTCA-ACATTTAATTT
18757812 TT-AACATTTAATTT
1 TTCAACATTTAATTT
18757826 TTCA
1 TTCA
18757830 CTTATTCAAA
Statistics
Matches: 37, Mismatches: 8, Indels: 6
0.73 0.16 0.12
Matches are distributed among these distances:
13 5 0.14
14 7 0.19
15 22 0.59
16 3 0.08
ACGTcount: A:0.27, C:0.13, G:0.03, T:0.57
Consensus pattern (15 bp):
TTCAACATTTAATTT
Found at i:18761527 original size:24 final size:23
Alignment explanation
Indices: 18761496--18761542 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
18761486 TATTCACACA
18761496 TATTCTTA-CTTAATTTCAAATGT
1 TATTCTTACCTTAATTT-AAATGT
*
18761519 TATTACTTACCTTACTTTAAATGT
1 TATT-CTTACCTTAATTTAAATGT
18761543 CCCATGATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 4 0.19
24 10 0.48
25 7 0.33
ACGTcount: A:0.30, C:0.15, G:0.04, T:0.51
Consensus pattern (23 bp):
TATTCTTACCTTAATTTAAATGT
Found at i:18761824 original size:22 final size:24
Alignment explanation
Indices: 18761782--18761825 Score: 74
Period size: 22 Copynumber: 1.9 Consensus size: 24
18761772 TAACTAAGCT
18761782 TACTTACTTTTCTAACTTAATTCA
1 TACTTACTTTTCTAACTTAATTCA
18761806 TACTT-CTTTTCT-ACTTAATT
1 TACTTACTTTTCTAACTTAATT
18761826 TCTTGCCATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 8 0.40
23 7 0.35
24 5 0.25
ACGTcount: A:0.25, C:0.20, G:0.00, T:0.55
Consensus pattern (24 bp):
TACTTACTTTTCTAACTTAATTCA
Found at i:18762444 original size:5 final size:5
Alignment explanation
Indices: 18762425--18762495 Score: 53
Period size: 5 Copynumber: 14.6 Consensus size: 5
18762415 TTAGTTTATT
* * *
18762425 TAATA T-ATAA TAATA TAATA TTATA TAAT- TAATA TTATA TAATA TTTTATA
1 TAATA TAAT-A TAATA TAATA TAATA TAATA TAATA TAATA TAATA --TAATA
18762476 TAATA -AA-A TAATA T-ATA TAA
1 TAATA TAATA TAATA TAATA TAA
18762496 AACATAAAAA
Statistics
Matches: 52, Mismatches: 6, Indels: 16
0.70 0.08 0.22
Matches are distributed among these distances:
3 1 0.02
4 14 0.27
5 31 0.60
6 2 0.04
7 4 0.08
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (5 bp):
TAATA
Found at i:18762481 original size:29 final size:29
Alignment explanation
Indices: 18762424--18762495 Score: 76
Period size: 29 Copynumber: 2.4 Consensus size: 29
18762414 TTTAGTTTAT
18762424 TTAATATATAATAATATAATATTATAT-AA
1 TTAATATAT-ATAATATAATATTATATAAA
**
18762453 TTAATATTATATAATATTTTA-TATAATAAA
1 TTAATA-TATATAATATAATATTAT-ATAAA
*
18762483 ATAATATATATAA
1 TTAATATATATAA
18762496 AACATAAAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
28 3 0.08
29 24 0.65
30 10 0.27
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (29 bp):
TTAATATATATAATATAATATTATATAAA
Found at i:18764049 original size:21 final size:21
Alignment explanation
Indices: 18763989--18764058 Score: 70
Period size: 21 Copynumber: 3.4 Consensus size: 21
18763979 TTTCGTTGAG
* * *
18763989 CTCTTTTGAGCTTCTGTTTAA
1 CTCTTATGAGCTTCCGTTCAA
* * * *
18764010 CCCTTATG-GTTTCCATTCAG
1 CTCTTATGAGCTTCCGTTCAA
18764030 CTCTTATGAGCTTCCGTTCAA
1 CTCTTATGAGCTTCCGTTCAA
18764051 CTCTTATG
1 CTCTTATG
18764059 GGTTTCTATT
Statistics
Matches: 37, Mismatches: 11, Indels: 2
0.74 0.22 0.04
Matches are distributed among these distances:
20 14 0.38
21 23 0.62
ACGTcount: A:0.16, C:0.26, G:0.14, T:0.44
Consensus pattern (21 bp):
CTCTTATGAGCTTCCGTTCAA
Found at i:18764078 original size:42 final size:41
Alignment explanation
Indices: 18763958--18764085 Score: 112
Period size: 42 Copynumber: 3.1 Consensus size: 41
18763948 TTATATAAGT
* * * * * * *
18763958 TTCCATTCAACCCTAATGGGTTTTCGTTGAGCTCTTTTGAGC
1 TTCCGTTCAACCCTTAT-GGTTTCCATTCAGCACTTATGAGC
* * *
18764000 TTCTGTTTAACCCTTATGGTTTCCATTCAGCTCTTATGAGC
1 TTCCGTTCAACCCTTATGGTTTCCATTCAGCACTTATGAGC
* * * *
18764041 TTCCGTTCAACTCTTATGGGTTTCTATTTAGCACTTATGTGC
1 TTCCGTTCAACCCTTAT-GGTTTCCATTCAGCACTTATGAGC
18764083 TTC
1 TTC
18764086 TATCCAGCCT
Statistics
Matches: 70, Mismatches: 15, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
41 34 0.49
42 36 0.51
ACGTcount: A:0.16, C:0.23, G:0.16, T:0.44
Consensus pattern (41 bp):
TTCCGTTCAACCCTTATGGTTTCCATTCAGCACTTATGAGC
Found at i:18766826 original size:38 final size:38
Alignment explanation
Indices: 18766726--18766856 Score: 131
Period size: 38 Copynumber: 3.4 Consensus size: 38
18766716 CCTTGAGTCA
* * *
18766726 ATGAGACACTGGGTGTCACTATTTTACTTCGGATAGATTCG
1 ATGAGACACTGGGTGTCA--ACTTTACTTCGGCTAG-TCCG
* * *
18766767 ATGAGATACTGGGTATC-ACTTTACTTCGGCTAGGCCG
1 ATGAGACACTGGGTGTCAACTTTACTTCGGCTAGTCCG
* *
18766804 ATGAGACACTGGGTGTCAACTTTGCTTCGAACTA-TCCG
1 ATGAGACACTGGGTGTCAACTTTACTTCG-GCTAGTCCG
*
18766842 ATGAGGCACTGGGTG
1 ATGAGACACTGGGTG
18766857 CCAATCTGGT
Statistics
Matches: 76, Mismatches: 12, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
37 17 0.22
38 41 0.54
39 3 0.04
41 15 0.20
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (38 bp):
ATGAGACACTGGGTGTCAACTTTACTTCGGCTAGTCCG
Found at i:18769826 original size:31 final size:30
Alignment explanation
Indices: 18769791--18769851 Score: 70
Period size: 30 Copynumber: 2.0 Consensus size: 30
18769781 GAAACAGAAT
*
18769791 GAAAGCAAACGAAAC-AGAGAAGAACAGGGGA
1 GAAAG-AAACGAAACAAGA-AAGAAAAGGGGA
* *
18769822 GAAAGAAAGGAAAGAAGAAAGAAAAGGGGA
1 GAAAGAAACGAAACAAGAAAGAAAAGGGGA
18769852 AATAAGGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
30 18 0.69
31 8 0.31
ACGTcount: A:0.59, C:0.07, G:0.34, T:0.00
Consensus pattern (30 bp):
GAAAGAAACGAAACAAGAAAGAAAAGGGGA
Found at i:18771427 original size:39 final size:40
Alignment explanation
Indices: 18771320--18771430 Score: 111
Period size: 38 Copynumber: 2.8 Consensus size: 40
18771310 GACCTCGAGT
* **
18771320 CGATGAGACACTGGGTGTC-ACTATATTTCTTCGGATAGATT
1 CGATGAGACACTGGGTGTCAAC--TATTACTTCGGATAGAGC
** ** *
18771361 CGATGAGGTACTGGGTACCAACT-TTACTTCGGCTAG-GC
1 CGATGAGACACTGGGTGTCAACTATTACTTCGGATAGAGC
18771399 CGATGAGACACTGGGTGTCAACTATTACTTCG
1 CGATGAGACACTGGGTGTCAACTATTACTTCG
18771431 AACTATCCGA
Statistics
Matches: 56, Mismatches: 12, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
38 19 0.34
39 19 0.34
40 1 0.02
41 15 0.27
42 2 0.04
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.30
Consensus pattern (40 bp):
CGATGAGACACTGGGTGTCAACTATTACTTCGGATAGAGC
Found at i:18771441 original size:39 final size:39
Alignment explanation
Indices: 18771320--18771454 Score: 100
Period size: 39 Copynumber: 3.4 Consensus size: 39
18771310 GACCTCGAGT
* * *
18771320 CGATGAGACACTGGGTGTC-ACTATATTTCTTCGGATA-GATT
1 CGATGAGACACTGGGTGTCAAC--TATTACTTC-GA-ACTATC
** ** * *
18771361 CGATGAGGTACTGGGTACCAACT-TTACTTCG-GCTAGGC
1 CGATGAGACACTGGGTGTCAACTATTACTTCGAACTA-TC
18771399 CGATGAGACACTGGGTGTCAACTATTACTTCGAACTATC
1 CGATGAGACACTGGGTGTCAACTATTACTTCGAACTATC
18771438 CGATGA-AGCACTGGGTG
1 CGATGAGA-CACTGGGTG
18771455 CCATATTGGT
Statistics
Matches: 73, Mismatches: 15, Indels: 14
0.72 0.15 0.14
Matches are distributed among these distances:
37 1 0.01
38 21 0.29
39 30 0.41
40 4 0.05
41 15 0.21
42 2 0.03
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAACTATTACTTCGAACTATC
Found at i:18778137 original size:37 final size:37
Alignment explanation
Indices: 18778096--18778170 Score: 105
Period size: 37 Copynumber: 2.0 Consensus size: 37
18778086 AGTGAACCAG
* * *
18778096 TTGAGGGTGACACCGACTCAATCAGAAGCTTAAATAA
1 TTGAGGGTGACACCAACTAAATCAAAAGCTTAAATAA
* *
18778133 TTGAGGGTGATACTAACTAAATCAAAAGCTTAAATAA
1 TTGAGGGTGACACCAACTAAATCAAAAGCTTAAATAA
18778170 T
1 T
18778171 AGAATGGATG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.41, C:0.15, G:0.19, T:0.25
Consensus pattern (37 bp):
TTGAGGGTGACACCAACTAAATCAAAAGCTTAAATAA
Found at i:18778648 original size:4 final size:4
Alignment explanation
Indices: 18778639--18778666 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
18778629 ACTCTTATAT
18778639 TTAA TTAA TTAA TTAA TTAA TTAA TTAA
1 TTAA TTAA TTAA TTAA TTAA TTAA TTAA
18778667 AGCGAGCCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
TTAA
Found at i:18783544 original size:17 final size:18
Alignment explanation
Indices: 18783522--18783569 Score: 80
Period size: 18 Copynumber: 2.7 Consensus size: 18
18783512 TTTGGTTAAA
18783522 AATTAACCGAATTA-CCG
1 AATTAACCGAATTACCCG
*
18783539 AATTAACCGGATTACCCG
1 AATTAACCGAATTACCCG
18783557 AATTAACCGAATT
1 AATTAACCGAATT
18783570 GAATCACTAC
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
17 13 0.46
18 15 0.54
ACGTcount: A:0.40, C:0.23, G:0.12, T:0.25
Consensus pattern (18 bp):
AATTAACCGAATTACCCG
Found at i:18783547 original size:9 final size:9
Alignment explanation
Indices: 18783522--18783569 Score: 71
Period size: 9 Copynumber: 5.4 Consensus size: 9
18783512 TTTGGTTAAA
18783522 AATTAACCG
1 AATTAACCG
18783531 AATT-ACCG
1 AATTAACCG
18783539 AATTAACCG
1 AATTAACCG
* *
18783548 GATTACCCG
1 AATTAACCG
18783557 AATTAACCG
1 AATTAACCG
18783566 AATT
1 AATT
18783570 GAATCACTAC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
8 8 0.24
9 26 0.76
ACGTcount: A:0.40, C:0.23, G:0.12, T:0.25
Consensus pattern (9 bp):
AATTAACCG
Found at i:18801366 original size:20 final size:18
Alignment explanation
Indices: 18801334--18801384 Score: 61
Period size: 18 Copynumber: 2.8 Consensus size: 18
18801324 TTTTAGAAAA
18801334 TTTTTA-AATTTTTA-ACT
1 TTTTTATAATTTTTAGA-T
18801351 TTCTTTATATATTTTTAGAT
1 TT-TTTATA-ATTTTTAGAT
18801371 TTTTTATAATTTTT
1 TTTTTATAATTTTT
18801385 TTTATAAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
17 2 0.07
18 10 0.33
19 7 0.23
20 10 0.33
21 1 0.03
ACGTcount: A:0.25, C:0.04, G:0.02, T:0.69
Consensus pattern (18 bp):
TTTTTATAATTTTTAGAT
Found at i:18801420 original size:19 final size:20
Alignment explanation
Indices: 18801398--18801447 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
18801388 ATAAATAAAT
18801398 TTTTGAA-ATTTAAAAATTA
1 TTTTGAATATTTAAAAATTA
* *
18801417 TTTTGAATTTTTTAAAATTA
1 TTTTGAATATTTAAAAATTA
18801437 TTTT-AATATTT
1 TTTTGAATATTT
18801448 TTTTTGTAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
19 13 0.48
20 14 0.52
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (20 bp):
TTTTGAATATTTAAAAATTA
Found at i:18802693 original size:17 final size:17
Alignment explanation
Indices: 18802668--18802702 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
18802658 TTTTTATACC
18802668 TTTA-TTTTTATATATTT
1 TTTAGTTTTTATA-ATTT
18802685 TTTAGTTTTTATAATTT
1 TTTAGTTTTTATAATTT
18802702 T
1 T
18802703 AAAAGAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (17 bp):
TTTAGTTTTTATAATTT
Found at i:18805993 original size:21 final size:22
Alignment explanation
Indices: 18805964--18806010 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
18805954 CAGAAGGAGT
*
18805964 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
18805986 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
18806007 GAGT
1 GAGT
18806011 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:18812338 original size:50 final size:50
Alignment explanation
Indices: 18812267--18812367 Score: 193
Period size: 50 Copynumber: 2.0 Consensus size: 50
18812257 AAAACCTTAA
18812267 TTTTTTGCTTATTCTTCTCTTTAATCTTTTTCATGGTGCAAGATACTAAT
1 TTTTTTGCTTATTCTTCTCTTTAATCTTTTTCATGGTGCAAGATACTAAT
*
18812317 TTTTTTGCTTATTCTTCTCTTTAATCTTTTTCATGGTGCAAGATTCTAAT
1 TTTTTTGCTTATTCTTCTCTTTAATCTTTTTCATGGTGCAAGATACTAAT
18812367 T
1 T
18812368 GAAACTCACA
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.19, C:0.16, G:0.10, T:0.55
Consensus pattern (50 bp):
TTTTTTGCTTATTCTTCTCTTTAATCTTTTTCATGGTGCAAGATACTAAT
Found at i:18815506 original size:15 final size:15
Alignment explanation
Indices: 18815481--18815515 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
18815471 AACTCTATTT
*
18815481 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
18815495 TAATTAATATTAAGA
1 TAATTAATATTAAGA
18815510 TAATTA
1 TAATTA
18815516 TTAAGGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:18816899 original size:18 final size:17
Alignment explanation
Indices: 18816866--18816904 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
18816856 TTGTATAAAT
18816866 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
18816884 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
18816901 TGTG
1 TGTG
18816905 GAAGGAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:18817157 original size:23 final size:23
Alignment explanation
Indices: 18817130--18817227 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
18817120 AGTGTTATTG
18817130 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
18817153 TTCAGTGGTAGCTTTGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
18817176 -CCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
18817198 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
18817221 ATCAGTG
1 ATCAGTG
18817228 TGGCACTTAT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
22 20 0.29
23 49 0.71
ACGTcount: A:0.20, C:0.21, G:0.27, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:18817196 original size:45 final size:45
Alignment explanation
Indices: 18817132--18817220 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
18817122 TGTTATTGAT
* *
18817132 CAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTTGGCTACATC
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
18817177 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
18817221 ATCAGTGTGG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.19, C:0.22, G:0.27, T:0.31
Consensus pattern (45 bp):
CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
Found at i:18822771 original size:23 final size:23
Alignment explanation
Indices: 18822745--18822820 Score: 143
Period size: 23 Copynumber: 3.3 Consensus size: 23
18822735 ATAAGTGCCA
18822745 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
18822768 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
18822791 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
18822814 CACTGAT
1 CACTGAT
18822821 CAATAACACT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 51 1.00
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.21
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:18830083 original size:23 final size:23
Alignment explanation
Indices: 18830057--18830132 Score: 143
Period size: 23 Copynumber: 3.3 Consensus size: 23
18830047 ATAAGTGCCA
18830057 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
18830080 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
18830103 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
18830126 CACTGAT
1 CACTGAT
18830133 CAATAACACT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 51 1.00
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.21
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:18834163 original size:18 final size:17
Alignment explanation
Indices: 18834130--18834168 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
18834120 TTGTATAAAT
18834130 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
18834148 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
18834165 TGTG
1 TGTG
18834169 GAAGGAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:18834459 original size:45 final size:45
Alignment explanation
Indices: 18834395--18834483 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
18834385 TGTTATTGAT
* *
18834395 CAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTTGGCTACATC
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
18834440 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
18834484 ATCAATGTGG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.19, C:0.22, G:0.27, T:0.31
Consensus pattern (45 bp):
CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
Found at i:18834484 original size:23 final size:23
Alignment explanation
Indices: 18834393--18834487 Score: 156
Period size: 23 Copynumber: 4.2 Consensus size: 23
18834383 AGTGTTATTG
18834393 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
18834416 TTCAGTGGTAGCTTTGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
18834439 -CCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
18834461 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
18834484 ATCA
1 ATCA
18834488 ATGTGGCACT
Statistics
Matches: 66, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
22 20 0.30
23 46 0.70
ACGTcount: A:0.21, C:0.22, G:0.25, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:18842705 original size:17 final size:15
Alignment explanation
Indices: 18842664--18842708 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 15
18842654 TTTTAAAAAT
18842664 ATTTATATTATTTTAA
1 ATTTATA-TATTTTAA
18842680 ATTTA-ATATTTAATAA
1 ATTTATATATTT--TAA
18842696 ATTTATATATTTT
1 ATTTATATATTTT
18842709 TCTTGATTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
14 5 0.19
15 2 0.08
16 13 0.50
17 6 0.23
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
ATTTATATATTTTAA
Found at i:18847422 original size:13 final size:13
Alignment explanation
Indices: 18847406--18847430 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18847396 GGAAATTAAA
18847406 AAAAATAAAAAAT
1 AAAAATAAAAAAT
18847419 AAAAATAAAAAA
1 AAAAATAAAAAA
18847431 GGGAAACAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (13 bp):
AAAAATAAAAAAT
Found at i:18850193 original size:25 final size:25
Alignment explanation
Indices: 18850157--18850204 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
18850147 CTTAAAATCA
18850157 CTACCATCTCTATAGATGTTAGACT
1 CTACCATCTCTATAGATGTTAGACT
* *
18850182 CTACCA-CTTCTATGGTTGTTAGA
1 CTACCATC-TCTATAGATGTTAGA
18850205 TGCATCCATC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 1 0.05
25 19 0.95
ACGTcount: A:0.25, C:0.23, G:0.15, T:0.38
Consensus pattern (25 bp):
CTACCATCTCTATAGATGTTAGACT
Found at i:18851604 original size:15 final size:16
Alignment explanation
Indices: 18851584--18851613 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
18851574 CATCATACAA
18851584 TTATTC-TCTTCTTTC
1 TTATTCTTCTTCTTTC
18851599 TTATTCTTCTTCTTT
1 TTATTCTTCTTCTTT
18851614 GCAAATAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.07, C:0.23, G:0.00, T:0.70
Consensus pattern (16 bp):
TTATTCTTCTTCTTTC
Found at i:18855692 original size:29 final size:27
Alignment explanation
Indices: 18855644--18855698 Score: 74
Period size: 29 Copynumber: 2.0 Consensus size: 27
18855634 CGGTTTTTTT
18855644 TATAAAAATAATTAAATACAAAAATGG
1 TATAAAAATAATTAAATACAAAAATGG
* *
18855671 TATAGAAAATAGATTTATTACAAAAATG
1 TATA-AAAATA-ATTAAATACAAAAATG
18855699 AAACATTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.17
28 6 0.25
29 14 0.58
ACGTcount: A:0.58, C:0.04, G:0.09, T:0.29
Consensus pattern (27 bp):
TATAAAAATAATTAAATACAAAAATGG
Found at i:18856042 original size:21 final size:22
Alignment explanation
Indices: 18855994--18856041 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 22
18855984 AAATATACAG
18855994 TATATGGCATTTAAACTATATA
1 TATATGGCATTTAAACTATATA
**
18856016 TATATGAGCATTTAATGTATATA
1 TATATG-GCATTTAAACTATATA
18856039 TAT
1 TAT
18856042 GCTCATTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 6 0.26
23 17 0.74
ACGTcount: A:0.40, C:0.06, G:0.10, T:0.44
Consensus pattern (22 bp):
TATATGGCATTTAAACTATATA
Found at i:18856644 original size:9 final size:9
Alignment explanation
Indices: 18856630--18856668 Score: 53
Period size: 9 Copynumber: 4.3 Consensus size: 9
18856620 AATTGTAGAG
18856630 TTTAAAAAT
1 TTTAAAAAT
18856639 TTTAAAAAT
1 TTTAAAAAT
*
18856648 CTTCAAAAA-
1 -TTTAAAAAT
18856657 TTTAAAAAT
1 TTTAAAAAT
18856666 TTT
1 TTT
18856669 CATCTGAACA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
8 7 0.27
9 12 0.46
10 7 0.27
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (9 bp):
TTTAAAAAT
Found at i:18856660 original size:18 final size:19
Alignment explanation
Indices: 18856633--18856670 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
18856623 TGTAGAGTTT
18856633 AAAAATTTTAAAAATCTTC
1 AAAAATTTTAAAAATCTTC
*
18856652 AAAAA-TTTAAAAATTTTC
1 AAAAATTTTAAAAATCTTC
18856670 A
1 A
18856671 TCTGAACACA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.55, C:0.08, G:0.00, T:0.37
Consensus pattern (19 bp):
AAAAATTTTAAAAATCTTC
Found at i:18875563 original size:5 final size:5
Alignment explanation
Indices: 18875555--18875651 Score: 82
Period size: 5 Copynumber: 20.0 Consensus size: 5
18875545 ATTTAAAATA
* *
18875555 TATAT TATAT TATA- TATACG TA-AT TAATGAT TATGT T-T-T TATAT
1 TATAT TATAT TATAT TATA-T TATAT T-AT-AT TATAT TATAT TATAT
*
18875599 TGTAT TATTAT TA-A- TATAT TATAT TATAT TATAT TATAT TATAT TATA-
1 TATAT TA-TAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
18875647 TATAT
1 TATAT
18875652 AACAAAAGAA
Statistics
Matches: 77, Mismatches: 4, Indels: 22
0.75 0.04 0.21
Matches are distributed among these distances:
3 4 0.05
4 13 0.17
5 48 0.62
6 9 0.12
7 3 0.04
ACGTcount: A:0.38, C:0.01, G:0.04, T:0.57
Consensus pattern (5 bp):
TATAT
Found at i:18876536 original size:27 final size:26
Alignment explanation
Indices: 18876492--18876546 Score: 83
Period size: 27 Copynumber: 2.1 Consensus size: 26
18876482 GAATGTCGAT
*
18876492 ATTGAATTAAATGAATTAAAATATGA
1 ATTGAATAAAATGAATTAAAATATGA
*
18876518 ATTGAATAAAAGTGAATTAAATTATGA
1 ATTGAATAAAA-TGAATTAAAATATGA
18876545 AT
1 AT
18876547 ATGTGTGAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
26 10 0.38
27 16 0.62
ACGTcount: A:0.53, C:0.00, G:0.13, T:0.35
Consensus pattern (26 bp):
ATTGAATAAAATGAATTAAAATATGA
Found at i:18876539 original size:26 final size:27
Alignment explanation
Indices: 18876492--18876546 Score: 78
Period size: 26 Copynumber: 2.1 Consensus size: 27
18876482 GAATGTCGAT
*
18876492 ATTGAATTAAATGAATTAAAA-TATGA
1 ATTGAATAAAATGAATTAAAATTATGA
18876518 ATTGAATAAAAGTGAATT-AAATTATGA
1 ATTGAATAAAA-TGAATTAAAATTATGA
18876545 AT
1 AT
18876547 ATGTGTGAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
26 13 0.50
27 13 0.50
ACGTcount: A:0.53, C:0.00, G:0.13, T:0.35
Consensus pattern (27 bp):
ATTGAATAAAATGAATTAAAATTATGA
Found at i:18884136 original size:23 final size:23
Alignment explanation
Indices: 18884104--18884181 Score: 77
Period size: 23 Copynumber: 3.2 Consensus size: 23
18884094 TCACCCCATT
18884104 TTTTTAATTAAAATTAAAATTATA
1 TTTTT-ATTAAAATTAAAATTATA
*
18884128 TTTTTATTAAAATTAAAACTA-A
1 TTTTTATTAAAATTAAAATTATA
* *
18884150 TTGTTATCAAAATTGTATCAAATTATA
1 TTTTTATTAAAA-T-TA--AAATTATA
18884177 TTTTT
1 TTTTT
18884182 TGTACCAGTC
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
22 11 0.25
23 16 0.36
24 7 0.16
26 5 0.11
27 5 0.11
ACGTcount: A:0.44, C:0.04, G:0.03, T:0.50
Consensus pattern (23 bp):
TTTTTATTAAAATTAAAATTATA
Found at i:18884161 original size:22 final size:23
Alignment explanation
Indices: 18884113--18884163 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 23
18884103 TTTTTTAATT
* * *
18884113 AAAATTAAAATTATATTTTTATT
1 AAAATTAAAACTATATTGTTATC
18884136 AAAATTAAAACTA-ATTGTTATC
1 AAAATTAAAACTATATTGTTATC
18884158 AAAATT
1 AAAATT
18884164 GTATCAAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
22 13 0.52
23 12 0.48
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (23 bp):
AAAATTAAAACTATATTGTTATC
Found at i:18884314 original size:93 final size:93
Alignment explanation
Indices: 18884207--18884390 Score: 332
Period size: 93 Copynumber: 2.0 Consensus size: 93
18884197 TTTGTAAAAT
*
18884207 CTAACATTTTGTTAGTAAAATTATTAATTATTAATTGTATTAATTGTTACTAAAATTATCAAATT
1 CTAACATTTTGTTAGTAAAATTATTAATTATTAATTATATTAATTGTTACTAAAATTATCAAATT
18884272 ATATCAAATTATTAATTATTAATTGTTA
66 ATATCAAATTATTAATTATTAATTGTTA
* *
18884300 CTAACATTTTGTTAGTAAAATTATTAATTGTTAATTATATTAATTGTTAGTAAAATTATCAAATT
1 CTAACATTTTGTTAGTAAAATTATTAATTATTAATTATATTAATTGTTACTAAAATTATCAAATT
*
18884365 ATATCAAATTATTAATTGTTAATTGT
66 ATATCAAATTATTAATTATTAATTGT
18884391 ATTAATTGTT
Statistics
Matches: 87, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 87 1.00
ACGTcount: A:0.40, C:0.05, G:0.07, T:0.48
Consensus pattern (93 bp):
CTAACATTTTGTTAGTAAAATTATTAATTATTAATTATATTAATTGTTACTAAAATTATCAAATT
ATATCAAATTATTAATTATTAATTGTTA
Found at i:18884327 original size:33 final size:34
Alignment explanation
Indices: 18884285--18884358 Score: 105
Period size: 33 Copynumber: 2.2 Consensus size: 34
18884275 TCAAATTATT
*
18884285 AATTATTAATTGTTACTAACATT-TTGTTAGTAA
1 AATTATTAATTGTTAATAACATTATTGTTAGTAA
* *
18884318 AATTATTAATTGTTAATTATATTAATTGTTAGTAA
1 AATTATTAATTGTTAATAACATT-ATTGTTAGTAA
18884353 AATTAT
1 AATTAT
18884359 CAAATTATAT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
33 20 0.56
35 16 0.44
ACGTcount: A:0.39, C:0.03, G:0.08, T:0.50
Consensus pattern (34 bp):
AATTATTAATTGTTAATAACATTATTGTTAGTAA
Found at i:18884357 original size:16 final size:16
Alignment explanation
Indices: 18884289--18884357 Score: 52
Period size: 16 Copynumber: 4.2 Consensus size: 16
18884279 ATTATTAATT
* *
18884289 ATTAATTGTTACTAAC
1 ATTAATTGTTAGTAAA
18884305 ATT--TTGTTAGTAAAA
1 ATTAATTGTTAGT-AAA
* * *
18884320 TTATTAATTGTTAATTAT
1 --ATTAATTGTTAGTAAA
18884338 ATTAATTGTTAGTAAA
1 ATTAATTGTTAGTAAA
18884354 ATTA
1 ATTA
18884358 TCAAATTATA
Statistics
Matches: 40, Mismatches: 8, Indels: 10
0.69 0.14 0.17
Matches are distributed among these distances:
14 7 0.17
15 2 0.05
16 20 0.50
17 3 0.08
18 1 0.03
19 7 0.17
ACGTcount: A:0.39, C:0.03, G:0.09, T:0.49
Consensus pattern (16 bp):
ATTAATTGTTAGTAAA
Found at i:18885698 original size:27 final size:27
Alignment explanation
Indices: 18885660--18885748 Score: 124
Period size: 27 Copynumber: 3.1 Consensus size: 27
18885650 AACAGACCTT
18885660 TATCATTTCGTTTATTTTATTAAGCAA
1 TATCATTTCGTTTATTTTATTAAGCAA
18885687 TATCATTTCGTTTATTTTATTAAGGCTCAAAA
1 TATCATTTCGTTTATTTTATTAA-G--C--AA
*
18885719 TATCATTTCGTTTATTTTATTAAGTAA
1 TATCATTTCGTTTATTTTATTAAGCAA
18885746 TAT
1 TAT
18885749 GAGATATGAG
Statistics
Matches: 56, Mismatches: 1, Indels: 10
0.84 0.01 0.15
Matches are distributed among these distances:
27 28 0.50
28 1 0.02
30 1 0.02
31 1 0.02
32 25 0.45
ACGTcount: A:0.30, C:0.10, G:0.08, T:0.52
Consensus pattern (27 bp):
TATCATTTCGTTTATTTTATTAAGCAA
Found at i:18885721 original size:32 final size:28
Alignment explanation
Indices: 18885660--18885742 Score: 123
Period size: 32 Copynumber: 2.9 Consensus size: 28
18885650 AACAGACCTT
18885660 TATCATTTCGTTTATTTTATTAA-GCAA
1 TATCATTTCGTTTATTTTATTAAGGCAA
18885687 TATCATTTCGTTTATTTTATTAAGGCTCAAAA
1 TATCATTTCGTTTATTTTATTAAGG--C--AA
18885719 TATCATTTCGTTTATTTTATTAAG
1 TATCATTTCGTTTATTTTATTAAG
18885743 TAATATGAGA
Statistics
Matches: 51, Mismatches: 0, Indels: 5
0.91 0.00 0.09
Matches are distributed among these distances:
27 23 0.45
28 1 0.02
30 1 0.02
32 26 0.51
ACGTcount: A:0.29, C:0.11, G:0.08, T:0.52
Consensus pattern (28 bp):
TATCATTTCGTTTATTTTATTAAGGCAA
Found at i:18886309 original size:30 final size:30
Alignment explanation
Indices: 18886248--18886309 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 30
18886238 TAATCCAAAG
* **
18886248 AAATATAAAAATATAATTTTATTATTTTAA
1 AAATATAAAAATATAATTTTACTATGGTAA
*
18886278 AAAT-TAAAAATTATATTTTTACTATGGTAA
1 AAATATAAAAA-TATAATTTTACTATGGTAA
18886308 AA
1 AA
18886310 TTTACAATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 6 0.22
30 21 0.78
ACGTcount: A:0.52, C:0.02, G:0.03, T:0.44
Consensus pattern (30 bp):
AAATATAAAAATATAATTTTACTATGGTAA
Found at i:18901627 original size:20 final size:20
Alignment explanation
Indices: 18901553--18901627 Score: 57
Period size: 20 Copynumber: 3.8 Consensus size: 20
18901543 ATTATTATCC
*
18901553 TAATTTTTTTAAAAA--ATT
1 TAATTTTTTTAAAAATTTTT
* * *
18901571 TAACTTTATTTATACATTTTT
1 TAA-TTTTTTTAAAAATTTTT
**
18901592 TAATTTTTTTTGAAATTTTT
1 TAATTTTTTTAAAAATTTTT
18901612 ATAA-TTTTTTAAAAAT
1 -TAATTTTTTTAAAAAT
18901628 ATAAATTTTG
Statistics
Matches: 43, Mismatches: 10, Indels: 6
0.73 0.17 0.10
Matches are distributed among these distances:
18 3 0.07
19 9 0.21
20 23 0.53
21 8 0.19
ACGTcount: A:0.36, C:0.03, G:0.01, T:0.60
Consensus pattern (20 bp):
TAATTTTTTTAAAAATTTTT
Found at i:18901673 original size:21 final size:21
Alignment explanation
Indices: 18901597--18901668 Score: 60
Period size: 24 Copynumber: 3.3 Consensus size: 21
18901587 TTTTTTAATT
18901597 TTTTTTG-AAATT-TTTAT-AA
1 TTTTTTGAAAATTATTT-TGAA
* *
18901616 TTTTTTAAAAATATAAATTTTGGA
1 TTTTTTGAAAAT-T--ATTTTGAA
18901640 TTTTTTGAAAATTATTTTGAA
1 TTTTTTGAAAATTATTTTGAA
18901661 TTATTTTG
1 TT-TTTTG
18901669 TAATTTTTGT
Statistics
Matches: 42, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
19 6 0.14
20 4 0.10
21 10 0.24
22 5 0.12
23 2 0.05
24 15 0.36
ACGTcount: A:0.33, C:0.00, G:0.08, T:0.58
Consensus pattern (21 bp):
TTTTTTGAAAATTATTTTGAA
Found at i:18902789 original size:34 final size:34
Alignment explanation
Indices: 18902746--18902810 Score: 112
Period size: 34 Copynumber: 1.9 Consensus size: 34
18902736 GGTGGTAGCA
*
18902746 GAGTCCCTAGTTAAGTCCCCCAAGAACCATAACG
1 GAGTCCCTAGTCAAGTCCCCCAAGAACCATAACG
*
18902780 GAGTCCCTAGTCGAGTCCCCCAAGAACCATA
1 GAGTCCCTAGTCAAGTCCCCCAAGAACCATA
18902811 TTAAGGAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.31, C:0.34, G:0.18, T:0.17
Consensus pattern (34 bp):
GAGTCCCTAGTCAAGTCCCCCAAGAACCATAACG
Found at i:18907264 original size:7 final size:7
Alignment explanation
Indices: 18907252--18907279 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
18907242 ACTAAGGCAT
18907252 CTCATGG
1 CTCATGG
18907259 CTCATGG
1 CTCATGG
18907266 CTCATGG
1 CTCATGG
18907273 CTCATGG
1 CTCATGG
18907280 TGGCACTGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.14, C:0.29, G:0.29, T:0.29
Consensus pattern (7 bp):
CTCATGG
Found at i:18907682 original size:31 final size:30
Alignment explanation
Indices: 18907617--18907688 Score: 81
Period size: 31 Copynumber: 2.4 Consensus size: 30
18907607 TTGATACATG
* *
18907617 AACTTTGATTTGGTGCAATTGTACACATAA
1 AACTTTGATTTGCTGCAAATGTACACATAA
* * *
18907647 AACTTTGATTGTGCTTCAAATGTATACATAT
1 AACTTTGATT-TGCTGCAAATGTACACATAA
*
18907678 AACTTTAATTT
1 AACTTTGATTT
18907689 TGATTCAATC
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
30 11 0.31
31 24 0.69
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.42
Consensus pattern (30 bp):
AACTTTGATTTGCTGCAAATGTACACATAA
Found at i:18907696 original size:31 final size:31
Alignment explanation
Indices: 18907636--18907696 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 31
18907626 TTGGTGCAAT
* *
18907636 TGTACACATAAAACTTTGATTGTGCTTCAAA
1 TGTACACATAAAACTTTAATTGTGATTCAAA
* * *
18907667 TGTATACATATAACTTTAATTTTGATTCAA
1 TGTACACATAAAACTTTAATTGTGATTCAA
18907697 TCATGCATAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.36, C:0.13, G:0.10, T:0.41
Consensus pattern (31 bp):
TGTACACATAAAACTTTAATTGTGATTCAAA
Found at i:18909819 original size:300 final size:300
Alignment explanation
Indices: 18909277--18909867 Score: 1182
Period size: 300 Copynumber: 2.0 Consensus size: 300
18909267 TAAAACCCAC
18909277 ACATGATGGAATTGGGAGACCCACGTATTTAAACTTGAATATTTAGAACTTAAAACCTCCACCTT
1 ACATGATGGAATTGGGAGACCCACGTATTTAAACTTGAATATTTAGAACTTAAAACCTCCACCTT
18909342 TGTCAACTGAGTTAAGACTTCATTAATGGTCTTTATCTGACCTCTTTTTGATATTATGCATCACT
66 TGTCAACTGAGTTAAGACTTCATTAATGGTCTTTATCTGACCTCTTTTTGATATTATGCATCACT
18909407 CTAATTCGTAGATAATTTTTTCTCTCAACATATTTAGTTGAGTACTTTATTTTTTTTTATACCTA
131 CTAATTCGTAGATAATTTTTTCTCTCAACATATTTAGTTGAGTACTTTATTTTTTTTTATACCTA
18909472 TCAATATTAGATAATTACATTGAGTGAACTTATTAAACTTGAAATTGAGTTAAATAAAATCCCTA
196 TCAATATTAGATAATTACATTGAGTGAACTTATTAAACTTGAAATTGAGTTAAATAAAATCCCTA
18909537 ACAAGAGACTATACTATATTATTCATCCTCACATGATGGA
261 ACAAGAGACTATACTATATTATTCATCCTCACATGATGGA
18909577 ACATGATGGAATTGGGAGACCCACGTATTTAAACTTGAATATTTAGAACTTAAAACCTCCACCTT
1 ACATGATGGAATTGGGAGACCCACGTATTTAAACTTGAATATTTAGAACTTAAAACCTCCACCTT
18909642 TGTCAACTGAGTTAAGACTTCATTAATGGTCTTTATCTGACCTCTTTTTGATATTATGCATCACT
66 TGTCAACTGAGTTAAGACTTCATTAATGGTCTTTATCTGACCTCTTTTTGATATTATGCATCACT
18909707 CTAATTCGTAGATAATTTTTTCTCTCAACATATTTAGTTGAGTACTTTATTTTTTTTTATACCTA
131 CTAATTCGTAGATAATTTTTTCTCTCAACATATTTAGTTGAGTACTTTATTTTTTTTTATACCTA
18909772 TCAATATTAGATAATTACATTGAGTGAACTTATTAAACTTGAAATTGAGTTAAATAAAATCCCTA
196 TCAATATTAGATAATTACATTGAGTGAACTTATTAAACTTGAAATTGAGTTAAATAAAATCCCTA
18909837 ACAAGAGACTATACTATATTATTCATCCTCA
261 ACAAGAGACTATACTATATTATTCATCCTCA
18909868 AAACTCAAAC
Statistics
Matches: 291, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
300 291 1.00
ACGTcount: A:0.33, C:0.16, G:0.12, T:0.39
Consensus pattern (300 bp):
ACATGATGGAATTGGGAGACCCACGTATTTAAACTTGAATATTTAGAACTTAAAACCTCCACCTT
TGTCAACTGAGTTAAGACTTCATTAATGGTCTTTATCTGACCTCTTTTTGATATTATGCATCACT
CTAATTCGTAGATAATTTTTTCTCTCAACATATTTAGTTGAGTACTTTATTTTTTTTTATACCTA
TCAATATTAGATAATTACATTGAGTGAACTTATTAAACTTGAAATTGAGTTAAATAAAATCCCTA
ACAAGAGACTATACTATATTATTCATCCTCACATGATGGA
Found at i:18911741 original size:8 final size:8
Alignment explanation
Indices: 18911728--18911753 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
18911718 ATTTAAATTG
18911728 ATTTTAAA
1 ATTTTAAA
18911736 ATTTTAAA
1 ATTTTAAA
18911744 ATTTTAAA
1 ATTTTAAA
18911752 AT
1 AT
18911754 ATTCTAATTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (8 bp):
ATTTTAAA
Found at i:18912332 original size:90 final size:90
Alignment explanation
Indices: 18912219--18912406 Score: 367
Period size: 90 Copynumber: 2.1 Consensus size: 90
18912209 TTTTTAAAAT
*
18912219 TTTCATTTTAAATTATATCATATAAGATTTTAGGCTAAATTAACTAACAGTTACTCAACTTTGGA
1 TTTCATTTTAAATTATATCATATAAGATTTTAGGCTAAATTAACTAACAATTACTCAACTTTGGA
18912284 GTAGCTAACAAAACAATCGCCTATG
66 GTAGCTAACAAAACAATCGCCTATG
18912309 TTTCATTTTAAATTATATCATATAAGATTTTAGGCTAAATTAACTAACAATTACTCAACTTTGGA
1 TTTCATTTTAAATTATATCATATAAGATTTTAGGCTAAATTAACTAACAATTACTCAACTTTGGA
18912374 GTAGCTAACAAAACAATCGCCTATG
66 GTAGCTAACAAAACAATCGCCTATG
18912399 TTTCATTT
1 TTTCATTT
18912407 CAATCACTCA
Statistics
Matches: 97, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
90 97 1.00
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.37
Consensus pattern (90 bp):
TTTCATTTTAAATTATATCATATAAGATTTTAGGCTAAATTAACTAACAATTACTCAACTTTGGA
GTAGCTAACAAAACAATCGCCTATG
Found at i:18912588 original size:3 final size:3
Alignment explanation
Indices: 18912582--18912650 Score: 131
Period size: 3 Copynumber: 23.3 Consensus size: 3
18912572 AAAAGAGAGG
18912582 AGA AGA AGA AGA AGA AGA AGA A-A AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
18912629 AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA A
18912651 ATGGACATAC
Statistics
Matches: 65, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 2 0.03
3 63 0.97
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:18912591 original size:6 final size:6
Alignment explanation
Indices: 18912543--18912650 Score: 136
Period size: 6 Copynumber: 18.7 Consensus size: 6
18912533 GCTGGGCAAC
* * * *
18912543 AGAA-A AGAAGA A-AAGA GGAA-A AGAA-A AAAAAA AGAGAGG AGAAGA
1 AGAAGA AGAAGA AGAAGA AGAAGA AGAAGA AGAAGA AGA-AGA AGAAGA
18912588 AGAAGA AGAAGA AGAA-A AGAAGA AGAAGA AGAAGA AGAAGA AGAAGA
1 AGAAGA AGAAGA AGAAGA AGAAGA AGAAGA AGAAGA AGAAGA AGAAGA
18912635 AGAAGA AGAAGA AGAA
1 AGAAGA AGAAGA AGAA
18912651 ATGGACATAC
Statistics
Matches: 91, Mismatches: 7, Indels: 9
0.85 0.07 0.08
Matches are distributed among these distances:
5 21 0.23
6 66 0.73
7 4 0.04
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (6 bp):
AGAAGA
Found at i:18912596 original size:9 final size:9
Alignment explanation
Indices: 18912543--18912650 Score: 136
Period size: 9 Copynumber: 12.4 Consensus size: 9
18912533 GCTGGGCAAC
18912543 AGAA-AAGA
1 AGAAGAAGA
18912551 AGAA-AAGA
1 AGAAGAAGA
*
18912559 GGAA-AAGA
1 AGAAGAAGA
* *
18912567 A-AAAAAAA
1 AGAAGAAGA
*
18912575 AGAGAGGAGA
1 AGA-AGAAGA
18912585 AGAAGAAGA
1 AGAAGAAGA
18912594 AGAAGAAGA
1 AGAAGAAGA
18912603 A-AAGAAGA
1 AGAAGAAGA
18912611 AGAAGAAGA
1 AGAAGAAGA
18912620 AGAAGAAGA
1 AGAAGAAGA
18912629 AGAAGAAGA
1 AGAAGAAGA
18912638 AGAAGAAGA
1 AGAAGAAGA
18912647 AGAA
1 AGAA
18912651 ATGGACATAC
Statistics
Matches: 89, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
7 2 0.02
8 27 0.30
9 54 0.61
10 6 0.07
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (9 bp):
AGAAGAAGA
Found at i:18913197 original size:15 final size:17
Alignment explanation
Indices: 18913173--18913209 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
18913163 TTTTGGATGC
*
18913173 TTGTTATTTGGT-ATTT
1 TTGTTATTTGCTGATTT
18913189 TTGTT-TTTGCTGATTT
1 TTGTTATTTGCTGATTT
18913205 TTGTT
1 TTGTT
18913210 GTTTTGTTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 5 0.26
16 14 0.74
ACGTcount: A:0.08, C:0.03, G:0.19, T:0.70
Consensus pattern (17 bp):
TTGTTATTTGCTGATTT
Found at i:18923175 original size:5 final size:5
Alignment explanation
Indices: 18923167--18923191 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
18923157 AAATAAAAGC
18923167 GAGTT GAGTT GAGTT GAGTT GAGTT
1 GAGTT GAGTT GAGTT GAGTT GAGTT
18923192 TAGACGGAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.40, T:0.40
Consensus pattern (5 bp):
GAGTT
Found at i:18923734 original size:31 final size:31
Alignment explanation
Indices: 18923670--18923737 Score: 100
Period size: 31 Copynumber: 2.2 Consensus size: 31
18923660 TAAAAAATAG
* * *
18923670 AAATTCGACTATTTTTAAAAGGTTGATGATC
1 AAATTTGACTATTTTTAAAAGGTTAAGGATC
*
18923701 AAATTTGACTATTTTTAAAAGGTTAAGGGTC
1 AAATTTGACTATTTTTAAAAGGTTAAGGATC
18923732 AAATTT
1 AAATTT
18923738 AATTAAAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.37, C:0.07, G:0.16, T:0.40
Consensus pattern (31 bp):
AAATTTGACTATTTTTAAAAGGTTAAGGATC
Found at i:18925648 original size:14 final size:14
Alignment explanation
Indices: 18925631--18925660 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
18925621 AAATCATCAA
18925631 TTTAAAATTTAAAT
1 TTTAAAATTTAAAT
*
18925645 TTTAAAATTTATAT
1 TTTAAAATTTAAAT
18925659 TT
1 TT
18925661 CATATACCAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
TTTAAAATTTAAAT
Found at i:18934008 original size:14 final size:14
Alignment explanation
Indices: 18933965--18934010 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
18933955 TTTGGACAAT
*
18933965 TTATAATATTTTTTA
1 TTATAA-ATTTTATA
18933980 -TA-AAATTTATATA
1 TTATAAATTT-TATA
18933993 TTATAAATTTTATA
1 TTATAAATTTTATA
18934007 TTAT
1 TTAT
18934011 TTTTTACTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
12 4 0.15
13 5 0.19
14 12 0.44
15 6 0.22
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TTATAAATTTTATA
Found at i:18952678 original size:21 final size:21
Alignment explanation
Indices: 18952652--18952702 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
18952642 AGCGGTGGCG
*
18952652 GTGAGATTAGTTACTGTAGCA
1 GTGAGATTAGATACTGTAGCA
* *
18952673 GTGAGATTGGATACTGTAGCG
1 GTGAGATTAGATACTGTAGCA
18952694 GTGAGATTA
1 GTGAGATTA
18952703 AAAACAATGG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.27, C:0.08, G:0.33, T:0.31
Consensus pattern (21 bp):
GTGAGATTAGATACTGTAGCA
Found at i:18960747 original size:18 final size:18
Alignment explanation
Indices: 18960712--18960753 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
18960702 TTATTTGTAA
*
18960712 AATTTTAATATTTGTGTT
1 AATTTTAAAATTTGTGTT
18960730 AATTTTATAAATTT-TGTT
1 AATTTTA-AAATTTGTGTT
18960748 ATATTT
1 A-ATTT
18960754 AATTGAATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 12 0.57
19 9 0.43
ACGTcount: A:0.31, C:0.00, G:0.07, T:0.62
Consensus pattern (18 bp):
AATTTTAAAATTTGTGTT
Found at i:18962257 original size:20 final size:22
Alignment explanation
Indices: 18962217--18962258 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
18962207 ATTAAGAATA
*
18962217 TAATAAATATAATTTATTATTT
1 TAATAAATATAATTTAATATTT
18962239 TAATAAAT-T-ATTTAATATTT
1 TAATAAATATAATTTAATATTT
18962259 CAATTTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 10 0.53
21 1 0.05
22 8 0.42
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
TAATAAATATAATTTAATATTT
Found at i:18962306 original size:16 final size:17
Alignment explanation
Indices: 18962270--18962306 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
18962260 AATTTTATTT
*
18962270 TAATAATAAATTTTGAA
1 TAATAATAAATTTTAAA
18962287 -AATAATAAA-TTTAAA
1 TAATAATAAATTTTAAA
18962302 TAATA
1 TAATA
18962307 TTATTCACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (17 bp):
TAATAATAAATTTTAAA
Found at i:18962359 original size:15 final size:15
Alignment explanation
Indices: 18962339--18962395 Score: 60
Period size: 15 Copynumber: 3.5 Consensus size: 15
18962329 ATTCAATATT
18962339 AATATTTTAATAATA
1 AATATTTTAATAATA
*
18962354 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
*
18962373 AATATATTAATAATA
1 AATATTTTAATAATA
18962388 AATATTTT
1 AATATTTT
18962396 GTAGTATAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
15 17 0.50
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.29
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:18971866 original size:19 final size:19
Alignment explanation
Indices: 18971822--18971866 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
18971812 ATTTTATTAT
18971822 TATTATTACTAATATATAA
1 TATTATTACTAATATATAA
* *
18971841 TAATATTAACTAATTTA-AA
1 TATTATT-ACTAATATATAA
18971860 TATTATT
1 TATTATT
18971867 TAAATGCATA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 14 0.64
20 8 0.36
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (19 bp):
TATTATTACTAATATATAA
Found at i:18971988 original size:13 final size:13
Alignment explanation
Indices: 18971972--18971996 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18971962 TAAACCAAAA
18971972 TTTTCAAAAGCAT
1 TTTTCAAAAGCAT
18971985 TTTTCAAAAGCA
1 TTTTCAAAAGCA
18971997 ATGAAGAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.16, G:0.08, T:0.36
Consensus pattern (13 bp):
TTTTCAAAAGCAT
Found at i:18982808 original size:2 final size:2
Alignment explanation
Indices: 18982801--18982832 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
18982791 TACTAATGAA
18982801 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
18982833 GATTTCGCAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:18983363 original size:22 final size:23
Alignment explanation
Indices: 18983335--18983388 Score: 65
Period size: 22 Copynumber: 2.4 Consensus size: 23
18983325 AAATTTGATA
*
18983335 AAAAAAATTTAGATACCAAA-TT
1 AAAAAAATTTAAATACCAAATTT
* *
18983357 AAAAAAAGTTAAATATCAAATTT
1 AAAAAAATTTAAATACCAAATTT
*
18983380 TAAAAAATT
1 AAAAAAATT
18983389 AAAGGTTAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
22 17 0.65
23 9 0.35
ACGTcount: A:0.61, C:0.06, G:0.04, T:0.30
Consensus pattern (23 bp):
AAAAAAATTTAAATACCAAATTT
Found at i:18987918 original size:37 final size:37
Alignment explanation
Indices: 18987861--18987965 Score: 169
Period size: 37 Copynumber: 2.9 Consensus size: 37
18987851 TATGATCACT
*
18987861 TATCAC-TTGTC-CCTGATCAGATAAGTGTAGCCACC
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
* *
18987896 TATCACTTTGTTTCTTGATCAGATAAGTGTAGCCACT
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
18987933 TATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGC
18987966 TAAAGCTATC
Statistics
Matches: 64, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
35 6 0.09
36 4 0.06
37 54 0.84
ACGTcount: A:0.25, C:0.22, G:0.17, T:0.36
Consensus pattern (37 bp):
TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
Found at i:18988008 original size:52 final size:52
Alignment explanation
Indices: 18987929--18988243 Score: 411
Period size: 52 Copynumber: 6.2 Consensus size: 52
18987919 TAAGTGTAGC
* * **
18987929 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTAT
1 CACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
18987982 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
* *
18988034 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
*
18988086 CAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
* *
18988132 CAC-TTT-A----TCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
* ** *
18988178 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
18988230 CACTTTATCACTTG
1 CACTTT-TCACTTG
18988244 ATCAGAAGTA
Statistics
Matches: 235, Mismatches: 17, Indels: 20
0.86 0.06 0.07
Matches are distributed among these distances:
46 84 0.36
47 2 0.01
48 2 0.01
52 132 0.56
53 15 0.06
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.35
Consensus pattern (52 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
Found at i:18988102 original size:46 final size:46
Alignment explanation
Indices: 18988031--18988249 Score: 280
Period size: 46 Copynumber: 4.7 Consensus size: 46
18988021 AGCTATCACT
*
18988031 TATCACTT-TCCAC-TTGTCACTTGATCAGATAAGTGTAGCTGAAGC
1 TATCACTTAT-CACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGC
*
18988076 TATCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGC
1 TATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGC
* *
18988122 TATCACTTATCACTTTATCACTTGATCAGATAAGTATAGCCGAAGC
1 TATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGC
* **
18988168 TATTACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGC
1 TATCACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGC
* *
18988220 TACCACTTATCACTTTATCACTTGATCAGA
1 TATCACTTATCACTTTGTCACTTGATCAGA
18988250 AGTACTCAAA
Statistics
Matches: 155, Mismatches: 11, Indels: 15
0.86 0.06 0.08
Matches are distributed among these distances:
45 11 0.07
46 103 0.66
48 1 0.01
50 1 0.01
52 39 0.25
ACGTcount: A:0.30, C:0.22, G:0.14, T:0.34
Consensus pattern (46 bp):
TATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGC
Found at i:18988238 original size:98 final size:97
Alignment explanation
Indices: 18987928--18988249 Score: 438
Period size: 98 Copynumber: 3.3 Consensus size: 97
18987918 ATAAGTGTAG
* * *
18987928 CCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTTCACT
1 CCACTTATCACTTTATCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCAC-TTTCACT
18987993 TGTCACTTGATCAGATAAGTGTAGCCGAAGCTA
65 TGTCACTTGATCAGATAAGTGTAGCCGAAGCTA
*
18988026 TCACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCAC--
1 CCACTTATCACTTT--A----TCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCACTT
*
18988089 T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTA
60 TCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTA
* * * *
18988124 TCACTTATCACTTTATCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACT
1 CCACTTATCACTTTATCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCACTTT-CACT
**
18988189 TGTCACTTGATCAGATAAGTGTAGCTAAAGCTA
65 TGTCACTTGATCAGATAAGTGTAGCCGAAGCTA
18988222 CCACTTATCACTTTATCACTTGATCAGA
1 CCACTTATCACTTTATCACTTGATCAGA
18988250 AGTACTCAAA
Statistics
Matches: 200, Mismatches: 12, Indels: 24
0.85 0.05 0.10
Matches are distributed among these distances:
92 39 0.19
94 1 0.00
96 1 0.00
98 118 0.59
101 1 0.00
104 40 0.20
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.34
Consensus pattern (97 bp):
CCACTTATCACTTTATCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCACTTTCACTT
GTCACTTGATCAGATAAGTGTAGCCGAAGCTA
Found at i:18991427 original size:49 final size:49
Alignment explanation
Indices: 18991372--18991516 Score: 236
Period size: 49 Copynumber: 3.0 Consensus size: 49
18991362 TTCGTTTTCT
* * * *
18991372 CGATGCCATAGTCCAACTATGGTCTTACACGTAATCACAAATCACATAC
1 CGATGCCATAGCCCAGCTATGGTCTTACACGAAATCACATATCACATAC
*
18991421 CGATGCCATAGCCCAGCTATGGTCTTACACGAAATCACATATCACTTAC
1 CGATGCCATAGCCCAGCTATGGTCTTACACGAAATCACATATCACATAC
*
18991470 CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATATCACAT
1 CGATGCCATAGCCCAGCTATGGTCTTACACGAAATCACATATCACAT
18991517 GTTCACATGT
Statistics
Matches: 89, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
49 89 1.00
ACGTcount: A:0.32, C:0.30, G:0.14, T:0.24
Consensus pattern (49 bp):
CGATGCCATAGCCCAGCTATGGTCTTACACGAAATCACATATCACATAC
Found at i:18992831 original size:37 final size:37
Alignment explanation
Indices: 18992774--18992878 Score: 169
Period size: 37 Copynumber: 2.9 Consensus size: 37
18992764 TATGATCACT
*
18992774 TATCAC-TTGTC-CCTGATCAGATAAGTGTAGCCACC
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
* *
18992809 TATCACTTTGTTTCTTGATCAGATAAGTGTAGCCACT
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
18992846 TATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGC
18992879 TAAGCTATCA
Statistics
Matches: 64, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
35 6 0.09
36 4 0.06
37 54 0.84
ACGTcount: A:0.25, C:0.22, G:0.17, T:0.36
Consensus pattern (37 bp):
TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
Found at i:18992939 original size:51 final size:51
Alignment explanation
Indices: 18992842--18993145 Score: 423
Period size: 46 Copynumber: 6.1 Consensus size: 51
18992832 TAAGTGTAGC
* *
18992842 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG-CTAAGCTATCACTTAT
1 CACTT-TCAC-TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
18992894 CACTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
1 CACTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
*
18992945 CACTTTCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTAT
1 CACTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
*
18992996 CAC--T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTAT
1 CACTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
* *
18993042 CACTTT-A----TCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTAT
1 CACTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
** *
18993088 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTAT
1 CACTTT-CACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
18993140 CACTTT
1 CACTTT
18993146 ATCACTTGAT
Statistics
Matches: 231, Mismatches: 11, Indels: 20
0.88 0.04 0.08
Matches are distributed among these distances:
46 87 0.38
48 2 0.01
49 1 0.00
50 24 0.10
51 72 0.31
52 45 0.19
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (51 bp):
CACTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
Found at i:18993113 original size:52 final size:52
Alignment explanation
Indices: 18993032--18993145 Score: 149
Period size: 52 Copynumber: 2.2 Consensus size: 52
18993022 TAGCCGAAGC
* **
18993032 TATCACTTATCACTTTATCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTT-TCACTTTATCACTTGATCAGATAAGTATAGCCAAAGCTACCACT
* * *
18993085 TATCACTTTCCAC-TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTT-CACTTTATCACTTGATCAGATAAGTATAGCCAAAGCTACCACT
18993137 TATCACTTT
1 TATCACTTT
18993146 ATCACTTGAT
Statistics
Matches: 54, Mismatches: 6, Indels: 3
0.86 0.10 0.05
Matches are distributed among these distances:
52 43 0.80
53 11 0.20
ACGTcount: A:0.30, C:0.23, G:0.11, T:0.36
Consensus pattern (52 bp):
TATCACTTTCACTTTATCACTTGATCAGATAAGTATAGCCAAAGCTACCACT
Found at i:19037130 original size:48 final size:49
Alignment explanation
Indices: 19037022--19037165 Score: 209
Period size: 48 Copynumber: 2.9 Consensus size: 49
19037012 GTTTTTCTCC
* * * *
19037022 ATGCCATAGTCCAACTATGGTCTTACAACGTAATCACAAATCACATACCG
1 ATGCCATAGCCCAGCTATGGTCTTAC-ACGAAATCACATATCACATACCG
*
19037072 ATGCCATAGCCCAGCTATGGTCTTACACGAAATCAC-TATCACTTACCG
1 ATGCCATAGCCCAGCTATGGTCTTACACGAAATCACATATCACATACCG
*
19037120 ATGCCATAGCCCAGCTATGGTCCTTACACGGAATCACATATCACAT
1 ATGCCATAGCCCAGCTATGGT-CTTACACGAAATCACATATCACAT
19037166 GTTCACATGT
Statistics
Matches: 85, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
48 31 0.36
49 23 0.27
50 31 0.36
ACGTcount: A:0.32, C:0.30, G:0.14, T:0.24
Consensus pattern (49 bp):
ATGCCATAGCCCAGCTATGGTCTTACACGAAATCACATATCACATACCG
Found at i:19038459 original size:35 final size:36
Alignment explanation
Indices: 19038408--19038509 Score: 140
Period size: 35 Copynumber: 2.9 Consensus size: 36
19038398 TATGATCACT
*
19038408 TATCAC-TTGTCCCTGATCAG-TAAAGTGTAGCCACC
1 TATCACTTTGTCTCTGATCAGAT-AAGTGTAGCCACC
*
19038443 TATCACTTTGT-TCTGATCAGATAAGTGTAGCCACT
1 TATCACTTTGTCTCTGATCAGATAAGTGTAGCCACC
19038478 TATCACTTTGTCTCTTGATCAGATAAG-GTAGC
1 TATCACTTTGTCTC-TGATCAGATAAGTGTAGC
19038510 TAAAGCTATC
Statistics
Matches: 61, Mismatches: 2, Indels: 7
0.87 0.03 0.10
Matches are distributed among these distances:
35 37 0.61
36 12 0.20
37 12 0.20
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.34
Consensus pattern (36 bp):
TATCACTTTGTCTCTGATCAGATAAGTGTAGCCACC
Found at i:19038588 original size:44 final size:45
Alignment explanation
Indices: 19038540--19038786 Score: 239
Period size: 45 Copynumber: 5.3 Consensus size: 45
19038530 TTTCACTTGT
*
19038540 CACTTGATCAGAT-AGTGTAGCCGAAGCTATCACTTATCACTTTCCAC
1 CACTTGATCAGATAAGTATAGCCGAAGCTATCAC-TATCACTTT--AC
* * **
19038587 TTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTATCACTTTGT
1 ----CACTTGATCAGATAAGTATAGCCGAAGCTATCACTATCACTTTAC
*
19038636 CACTT-ATCAGATAAGTATAGCCGAAGCTATCACTATCACTTTAT
1 CACTTGATCAGATAAGTATAGCCGAAGCTATCACTATCACTTTAC
*
19038680 CACTTGATCAGATAAGTATAGCCGAAGCTATTACTATCACTTTCCAC
1 CACTTGATCAGATAAGTATAGCCGAAGCTATCACTATCACTTT--AC
* * ** * *
19038727 TTGCACTTGATCAGATAAGTGTAACTAAAGCTACCACTTATCACTTTAT
1 ---CACTTGATCAGATAAGTATAGCCGAAGCTATCAC-TATCACTTTAC
19038776 CA-TTGATCAGA
1 CACTTGATCAGA
19038787 AGTACTCAAA
Statistics
Matches: 173, Mismatches: 15, Indels: 22
0.82 0.07 0.10
Matches are distributed among these distances:
44 41 0.24
45 50 0.29
46 2 0.01
47 1 0.01
49 1 0.01
50 28 0.16
51 31 0.18
52 19 0.11
ACGTcount: A:0.31, C:0.23, G:0.14, T:0.32
Consensus pattern (45 bp):
CACTTGATCAGATAAGTATAGCCGAAGCTATCACTATCACTTTAC
Found at i:19038588 original size:58 final size:51
Alignment explanation
Indices: 19038485--19038773 Score: 331
Period size: 51 Copynumber: 5.9 Consensus size: 51
19038475 ACTTATCACT
* ** *
19038485 TTGTCTCTTGATCAGATAAG-GTAGCTAAAGCTATCACTTATCACTTTTCAC
1 TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCAC-TATCACTTTCCAC
19038536 TTGTCACTTGATCAGAT-AGTGTAGCCGAAGCTATCACTTATCACTTTCCAC
1 TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCAC-TATCACTTTCCAC
*
19038587 TTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTATCAC--T----
1 TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTATCACTTTCCAC
*
19038632 TTGTCACTT-ATCAGATAAGTATAGCCGAAGCTATCACTATCACTTT--A-
1 TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTATCACTTTCCAC
* *
19038679 ---TCACTTGATCAGATAAGTATAGCCGAAGCTATTACTATCACTTTCCAC
1 TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTATCACTTTCCAC
* ** *
19038727 TTG-CACTTGATCAGATAAGTGTAACTAAAGCTACCACTTATCACTTT
1 TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCAC-TATCACTTT
19038774 ATCATTGATC
Statistics
Matches: 211, Mismatches: 14, Indels: 26
0.84 0.06 0.10
Matches are distributed among these distances:
44 38 0.18
45 45 0.21
46 1 0.00
47 1 0.00
49 1 0.00
50 30 0.14
51 76 0.36
52 19 0.09
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.34
Consensus pattern (51 bp):
TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTATCACTTTCCAC
Found at i:19038689 original size:89 final size:93
Alignment explanation
Indices: 19038473--19038786 Score: 282
Period size: 96 Copynumber: 3.3 Consensus size: 93
19038463 ATAAGTGTAG
* * * ** *
19038473 CCACTTATCACTTTGTCTCTTGATCAGATAAG-GTAGCTAAAGCTATCACTTATCACTTTTCACT
1 CCACTTATCACTTTATCACTTGATCAGATAAGTATAGCCGAAGCTATCAC-TATCAC-TTT--CG
* * *
19038537 TGTCACTTGATCAGAT-AGTGTAGCCGAAGCTA
62 TG-CACTTGATCAGATAAGTATAACCAAAGCTA
* * *
19038569 TCACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTATCACTTT
1 CCACTTATCACTTT--A----TCACTTGATCAGATAAGTATAGCCGAAGCTATCACTATCACTTT
* *
19038634 -GT-CACTT-ATCAGATAAGTATAGCCGAAGCTA
60 CGTGCACTTGATCAGATAAGTATAACCAAAGCTA
* * *
19038665 TCAC-TATCACTTTATCACTTGATCAGATAAGTATAGCCGAAGCTATTACTATCACTTTCCACTT
1 CCACTTATCACTTTATCACTTGATCAGATAAGTATAGCCGAAGCTATCACTATCACTTT---CGT
* *
19038729 GCACTTGATCAGATAAGTGTAACTAAAGCTA
63 GCACTTGATCAGATAAGTATAACCAAAGCTA
19038760 CCACTTATCACTTTATCA-TTGATCAGA
1 CCACTTATCACTTTATCACTTGATCAGA
19038787 AGTACTCAAA
Statistics
Matches: 188, Mismatches: 15, Indels: 31
0.80 0.06 0.13
Matches are distributed among these distances:
89 41 0.22
93 2 0.01
94 5 0.03
95 48 0.26
96 50 0.27
98 1 0.01
101 3 0.02
102 22 0.12
103 16 0.09
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.34
Consensus pattern (93 bp):
CCACTTATCACTTTATCACTTGATCAGATAAGTATAGCCGAAGCTATCACTATCACTTTCGTGCA
CTTGATCAGATAAGTATAACCAAAGCTA
Found at i:19041993 original size:10 final size:11
Alignment explanation
Indices: 19041971--19042000 Score: 53
Period size: 10 Copynumber: 2.8 Consensus size: 11
19041961 CAATTTAATA
19041971 AATTCACATTC
1 AATTCACATTC
19041982 AATTCA-ATTC
1 AATTCACATTC
19041992 AATTCACAT
1 AATTCACAT
19042001 CTTTAGGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.40, C:0.23, G:0.00, T:0.37
Consensus pattern (11 bp):
AATTCACATTC
Found at i:19058445 original size:46 final size:46
Alignment explanation
Indices: 19058378--19058560 Score: 312
Period size: 46 Copynumber: 4.0 Consensus size: 46
19058368 ACAATGTTAT
* * *
19058378 AACTCAGTATGGTTTCCTTCACTAAAACACCATTCCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
19058424 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
* *
19058470 AACTCGGTATGGTTTTCTTCACTGAAACACTATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
*
19058516 AACTCAGTATGGCTTTCTTCACTGAAACACCATACCTACTTTTCA
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCA
19058561 TAATTTTCCA
Statistics
Matches: 129, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 129 1.00
ACGTcount: A:0.28, C:0.28, G:0.09, T:0.35
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
Found at i:19059812 original size:17 final size:17
Alignment explanation
Indices: 19059790--19059837 Score: 71
Period size: 17 Copynumber: 2.9 Consensus size: 17
19059780 AAATTCTTTT
19059790 TAAATCACAAAATTCAC
1 TAAATCACAAAATTCAC
*
19059807 TAAATCACAGAATTCAC
1 TAAATCACAAAATTCAC
*
19059824 TAATTCA-AAAATTC
1 TAAATCACAAAATTC
19059838 TTCTAAATTC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
16 6 0.21
17 22 0.79
ACGTcount: A:0.50, C:0.21, G:0.02, T:0.27
Consensus pattern (17 bp):
TAAATCACAAAATTCAC
Found at i:19062112 original size:15 final size:15
Alignment explanation
Indices: 19062092--19062124 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
19062082 AACTATCAAG
19062092 TCAAATCAAACGACA
1 TCAAATCAAACGACA
19062107 TCAAATCAAACGACA
1 TCAAATCAAACGACA
19062122 TCA
1 TCA
19062125 GATGGAGCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.52, C:0.27, G:0.06, T:0.15
Consensus pattern (15 bp):
TCAAATCAAACGACA
Found at i:19073866 original size:27 final size:27
Alignment explanation
Indices: 19073829--19073880 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
19073819 AATCACCTTT
*
19073829 TTTTTTCATGTTTGTAGGGTTAAGACC
1 TTTTTTAATGTTTGTAGGGTTAAGACC
19073856 TTTTTTAATGTTTGTAGGGTTAAGA
1 TTTTTTAATGTTTGTAGGGTTAAGA
19073881 ACTCAACATC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.21, C:0.06, G:0.23, T:0.50
Consensus pattern (27 bp):
TTTTTTAATGTTTGTAGGGTTAAGACC
Found at i:19076852 original size:43 final size:41
Alignment explanation
Indices: 19076790--19076922 Score: 133
Period size: 43 Copynumber: 3.1 Consensus size: 41
19076780 CAAAGCAACC
*
19076790 AATTGTTTCGGTTTATCCAATGATGCACTATGGGTGCTAATAT
1 AATTGTTTCGATTTATCCAATGATGCACTATGGGT-C-AATAT
* * *
19076833 AATTGTTTCAATTTGTCCAA-GAATGCACCTTATGTGTCAATAT
1 AATTGTTTCGATTTATCCAATG-ATGCA-C-TATGGGTCAATAT
* * *
19076876 AATTGCTTCGATTTATCCGATGATGCACTATGTGTGTCAGTAT
1 AATTGTTTCGATTTATCCAATGATGCACTATG-G-GTCAATAT
19076919 AATT
1 AATT
19076923 ACTCTGGTTT
Statistics
Matches: 74, Mismatches: 10, Indels: 12
0.77 0.10 0.12
Matches are distributed among these distances:
41 4 0.05
42 2 0.03
43 59 0.80
44 3 0.04
45 6 0.08
ACGTcount: A:0.27, C:0.15, G:0.18, T:0.40
Consensus pattern (41 bp):
AATTGTTTCGATTTATCCAATGATGCACTATGGGTCAATAT
Found at i:19076942 original size:43 final size:43
Alignment explanation
Indices: 19076796--19076942 Score: 106
Period size: 43 Copynumber: 3.4 Consensus size: 43
19076786 AACCAATTGT
* * * **
19076796 TTCGGTTTATCCAATGATGCA-C-TATGGGTGCTAATATAATTGT
1 TTCGATTTGTCCAATGATGCACCTTATGTGT-C-AATATAATTAC
* *
19076839 TTCAATTTGTCCAA-GAATGCACCTTATGTGTCAATATAATTGC
1 TTCGATTTGTCCAATG-ATGCACCTTATGTGTCAATATAATTAC
* * * *
19076882 TTCGATTTATCCGATGATGCA-CTATGTGTGTCAGTATAATTAC
1 TTCGATTTGTCCAATGATGCACCT-TATGTGTCAATATAATTAC
*
19076925 -TCTGGTTTGTCCAATGAT
1 TTC-GATTTGTCCAATGAT
19076943 ACTGTAACAG
Statistics
Matches: 84, Mismatches: 14, Indels: 12
0.76 0.13 0.11
Matches are distributed among these distances:
42 5 0.06
43 70 0.83
44 3 0.04
45 6 0.07
ACGTcount: A:0.26, C:0.16, G:0.18, T:0.39
Consensus pattern (43 bp):
TTCGATTTGTCCAATGATGCACCTTATGTGTCAATATAATTAC
Found at i:19077308 original size:28 final size:26
Alignment explanation
Indices: 19077264--19077315 Score: 86
Period size: 28 Copynumber: 1.9 Consensus size: 26
19077254 ATATTATTAA
19077264 TATAATATATATATGTTATAATAAGG
1 TATAATATATATATGTTATAATAAGG
19077290 TATAATATATTATTATGTTATAATAA
1 TATAATATA-TA-TATGTTATAATAA
19077316 ACATTAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
26 9 0.38
27 2 0.08
28 13 0.54
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (26 bp):
TATAATATATATATGTTATAATAAGG
Found at i:19078996 original size:41 final size:41
Alignment explanation
Indices: 19078951--19079083 Score: 187
Period size: 41 Copynumber: 3.2 Consensus size: 41
19078941 GGCTCGGTGC
* * * * *
19078951 CTAGCAAGCTTGATGCCAGTGATATGTTTCAGACTTTAAGT
1 CTAGCAGGCTTGATGCCGGTGAAATATTTCAGACTTTATGT
*
19078992 CTAGCAGGCTTG-TCGCCGGTGAAACATTTCAGACTTTATGT
1 CTAGCAGGCTTGAT-GCCGGTGAAATATTTCAGACTTTATGT
*
19079033 CTAGCAGGCTTGACGCCGGTGAAATATTTCAGACTTTATGT
1 CTAGCAGGCTTGATGCCGGTGAAATATTTCAGACTTTATGT
19079074 CTAGCAGGCT
1 CTAGCAGGCT
19079084 AAGTGCCAGT
Statistics
Matches: 82, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
40 1 0.01
41 81 0.99
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.32
Consensus pattern (41 bp):
CTAGCAGGCTTGATGCCGGTGAAATATTTCAGACTTTATGT
Found at i:19079249 original size:32 final size:33
Alignment explanation
Indices: 19079208--19079270 Score: 83
Period size: 32 Copynumber: 1.9 Consensus size: 33
19079198 ATAGAATATG
* * *
19079208 TATATACATTTGGTTAT-TGTGTTTGATGAGCA
1 TATAAACATTAGGTTATATGTATTTGATGAGCA
*
19079240 TATAAACATTAGTTTATATGTATTTGATGAG
1 TATAAACATTAGGTTATATGTATTTGATGAG
19079271 TATGGATTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
32 14 0.54
33 12 0.46
ACGTcount: A:0.30, C:0.05, G:0.19, T:0.46
Consensus pattern (33 bp):
TATAAACATTAGGTTATATGTATTTGATGAGCA
Found at i:19086544 original size:16 final size:16
Alignment explanation
Indices: 19086525--19086557 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
19086515 AGGGTATATT
*
19086525 GTGATAATTATCTTAG
1 GTGATAATTACCTTAG
19086541 GTGATAATTACCTTAG
1 GTGATAATTACCTTAG
19086557 G
1 G
19086558 GTTTCTAGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.39
Consensus pattern (16 bp):
GTGATAATTACCTTAG
Found at i:19088771 original size:30 final size:30
Alignment explanation
Indices: 19088728--19088820 Score: 141
Period size: 30 Copynumber: 3.1 Consensus size: 30
19088718 TTTATTATGT
* *
19088728 CAATATCTCGATACCCATATTTTTGACTTTC
1 CAATAT-TTGATACCCATATCTTTGACTTTC
*
19088759 CAATATTTGATACTCATATCTTTGACTTTC
1 CAATATTTGATACCCATATCTTTGACTTTC
*
19088789 CAATATTTGATACCCATATCTTTGATTTTC
1 CAATATTTGATACCCATATCTTTGACTTTC
19088819 CA
1 CA
19088821 TAAATATGGA
Statistics
Matches: 57, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
30 51 0.89
31 6 0.11
ACGTcount: A:0.27, C:0.23, G:0.06, T:0.44
Consensus pattern (30 bp):
CAATATTTGATACCCATATCTTTGACTTTC
Found at i:19091575 original size:15 final size:15
Alignment explanation
Indices: 19091555--19091591 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
19091545 GCTTCATGGG
*
19091555 AAATTTCTCTACTTT
1 AAATTTCTCTACTTC
19091570 AAATTTCTCTACTTC
1 AAATTTCTCTACTTC
19091585 AAATTTC
1 AAATTTC
19091592 GCATTGGTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.30, C:0.22, G:0.00, T:0.49
Consensus pattern (15 bp):
AAATTTCTCTACTTC
Found at i:19092214 original size:17 final size:17
Alignment explanation
Indices: 19092192--19092244 Score: 51
Period size: 17 Copynumber: 3.4 Consensus size: 17
19092182 CTCGATACCC
19092192 ATATTTTTGACTTTCCA
1 ATATTTTTGACTTTCCA
* *
19092209 ATA--TTTGA--TACCC
1 ATATTTTTGACTTTCCA
*
19092222 ATATATTTGACTTTCCA
1 ATATTTTTGACTTTCCA
19092239 ATATTT
1 ATATTT
19092245 GATACCCATA
Statistics
Matches: 27, Mismatches: 5, Indels: 8
0.68 0.12 0.20
Matches are distributed among these distances:
13 6 0.22
15 10 0.37
17 11 0.41
ACGTcount: A:0.28, C:0.17, G:0.06, T:0.49
Consensus pattern (17 bp):
ATATTTTTGACTTTCCA
Found at i:19092219 original size:30 final size:30
Alignment explanation
Indices: 19092175--19092268 Score: 143
Period size: 30 Copynumber: 3.1 Consensus size: 30
19092165 TTTTATTATG
* *
19092175 CCAATATCTCGATACCCATATTTTTGACTTT
1 CCAATAT-TTGATACCCATATATTTGACTTT
19092206 CCAATATTTGATACCCATATATTTGACTTT
1 CCAATATTTGATACCCATATATTTGACTTT
* *
19092236 CCAATATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATATTTGACTTT
19092266 CCA
1 CCA
19092269 TAAATATGGA
Statistics
Matches: 59, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
30 52 0.88
31 7 0.12
ACGTcount: A:0.28, C:0.23, G:0.06, T:0.43
Consensus pattern (30 bp):
CCAATATTTGATACCCATATATTTGACTTT
Found at i:19092227 original size:15 final size:15
Alignment explanation
Indices: 19092185--19092262 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
19092175 CCAATATCTC
*
19092185 GATACCCATATTTTT
1 GATACCCATATATTT
**
19092200 GACTTTCCA-ATATTT
1 GA-TACCCATATATTT
19092215 GATACCCATATATTT
1 GATACCCATATATTT
**
19092230 GACTTTCCA-ATATTT
1 GA-TACCCATATATTT
*
19092245 GATACCCATATCTTT
1 GATACCCATATATTT
19092260 GAT
1 GAT
19092263 TTTCCATAAA
Statistics
Matches: 49, Mismatches: 10, Indels: 8
0.73 0.15 0.12
Matches are distributed among these distances:
14 8 0.16
15 33 0.67
16 8 0.16
ACGTcount: A:0.28, C:0.21, G:0.08, T:0.44
Consensus pattern (15 bp):
GATACCCATATATTT
Found at i:19093087 original size:32 final size:33
Alignment explanation
Indices: 19093041--19093118 Score: 88
Period size: 32 Copynumber: 2.4 Consensus size: 33
19093031 TTTTTCTTTG
* * * *
19093041 AATTTTTTAGTTTTTTTTTTTC-AGATT-TTAG
1 AATTTTTAAATTTTTATTTTTCTAGATTCTTAA
*
19093072 AATATTTTCAATTTTTATTTTTCTAGATTCTTAA
1 AAT-TTTTAAATTTTTATTTTTCTAGATTCTTAA
19093106 AATTTTTAAATTT
1 AATTTTTAAATTT
19093119 CATAGTTTCT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
31 3 0.08
32 16 0.41
33 14 0.36
34 6 0.15
ACGTcount: A:0.27, C:0.05, G:0.05, T:0.63
Consensus pattern (33 bp):
AATTTTTAAATTTTTATTTTTCTAGATTCTTAA
Found at i:19093093 original size:33 final size:32
Alignment explanation
Indices: 19093052--19093118 Score: 84
Period size: 33 Copynumber: 2.1 Consensus size: 32
19093042 ATTTTTTAGT
* *
19093052 TTTTTTTTTTC-AGATT-TTAGAATATTTTCAA
1 TTTTTTTTTTCTAGATTCTTAAAAT-TTTTAAA
19093083 TTTTTATTTTTCTAGATTCTTAAAATTTTTAAA
1 TTTTT-TTTTTCTAGATTCTTAAAATTTTTAAA
19093116 TTT
1 TTT
19093119 CATAGTTTCT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
31 5 0.16
32 6 0.19
33 14 0.45
34 6 0.19
ACGTcount: A:0.27, C:0.06, G:0.04, T:0.63
Consensus pattern (32 bp):
TTTTTTTTTTCTAGATTCTTAAAATTTTTAAA
Found at i:19093119 original size:25 final size:25
Alignment explanation
Indices: 19093081--19093132 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
19093071 GAATATTTTC
**
19093081 AATTTTTATTTTTC-TAGATTCTTAA
1 AATTTTTAAATTTCATAGATTC-TAA
*
19093106 AATTTTTAAATTTCATAGTTTCTAA
1 AATTTTTAAATTTCATAGATTCTAA
19093131 AA
1 AA
19093133 GCTATAATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 17 0.74
26 6 0.26
ACGTcount: A:0.35, C:0.08, G:0.04, T:0.54
Consensus pattern (25 bp):
AATTTTTAAATTTCATAGATTCTAA
Found at i:19093244 original size:14 final size:14
Alignment explanation
Indices: 19093201--19093251 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
19093191 AAATTTAATA
*
19093201 TTTAAAATATTATTT
1 TTTAAATTA-TATTT
*
19093216 TTT-AATTTTAGTTT
1 TTTAAATTATA-TTT
19093230 TTTAAATTATATTT
1 TTTAAATTATATTT
*
19093244 TTAAAATT
1 TTTAAATT
19093252 TAAAACTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
13 2 0.07
14 19 0.63
15 9 0.30
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (14 bp):
TTTAAATTATATTT
Found at i:19093251 original size:29 final size:28
Alignment explanation
Indices: 19093179--19093252 Score: 71
Period size: 29 Copynumber: 2.6 Consensus size: 28
19093169 TTAATATCTT
19093179 ATATATTTTTGAAAA-TTTAATATTTAAA
1 ATATATTTTT-AAAATTTTAATATTTAAA
* * *
19093207 ATATTATTTTT-TAATTTTAGTTTTTTAAA
1 ATA-TATTTTTAAAATTTTA-ATATTTAAA
*
19093236 TTATATTTTTAAAATTT
1 ATATATTTTTAAAATTT
19093253 AAAACTTTTA
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
27 2 0.05
28 14 0.38
29 21 0.57
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (28 bp):
ATATATTTTTAAAATTTTAATATTTAAA
Found at i:19093253 original size:28 final size:27
Alignment explanation
Indices: 19093179--19093254 Score: 80
Period size: 28 Copynumber: 2.7 Consensus size: 27
19093169 TTAATATCTT
19093179 ATATATTTTTGAAAATTTAATATTTAAA
1 ATATATTTTT-AAAATTTAATATTTAAA
* * * *
19093207 ATATTATTTTTTAATTTTAGTTTTTTAAA
1 ATA-TATTTTTAAAATTTA-ATATTTAAA
*
19093236 TTATATTTTTAAAATTTAA
1 ATATATTTTTAAAATTTAA
19093255 AACTTTTATT
Statistics
Matches: 38, Mismatches: 8, Indels: 5
0.75 0.16 0.10
Matches are distributed among these distances:
28 22 0.58
29 16 0.42
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (27 bp):
ATATATTTTTAAAATTTAATATTTAAA
Done.