Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D04
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: 52479919
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Warning! 336953 characters in sequence are not A, C, G, or T
File 154 of 173
Found at i:46523455 original size:15 final size:16
Alignment explanation
Indices: 46523430--46523459 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
46523420 ATATTTTAAA
46523430 AATATTCCACAAGGGG
1 AATATTCCACAAGGGG
46523446 AATA-TCCACAAGGG
1 AATATTCCACAAGGG
46523460 AAAGTACCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.40, C:0.20, G:0.23, T:0.17
Consensus pattern (16 bp):
AATATTCCACAAGGGG
Found at i:46526424 original size:15 final size:15
Alignment explanation
Indices: 46526406--46526455 Score: 55
Period size: 15 Copynumber: 3.2 Consensus size: 15
46526396 ACTAATTTTT
46526406 TTTATTTTTTATATA
1 TTTATTTTTTATATA
* *
46526421 TTTATTTTTTTTGAATT
1 TTTATTTTTTAT--ATA
*
46526438 TTTATATTTTATATA
1 TTTATTTTTTATATA
46526453 TTT
1 TTT
46526456 TTAAATTGTT
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
15 16 0.57
17 12 0.43
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (15 bp):
TTTATTTTTTATATA
Found at i:46526439 original size:25 final size:23
Alignment explanation
Indices: 46526400--46526459 Score: 75
Period size: 24 Copynumber: 2.5 Consensus size: 23
46526390 ATTTAAACTA
*
46526400 ATTTTTTTTATTTTTTATATATTT
1 ATTTTTTTTAATTTTTATAT-TTT
46526424 ATTTTTTTTGAATTTTTATATTTT
1 ATTTTTTTT-AATTTTTATATTTT
*
46526448 ATATATTTTTAA
1 AT-TTTTTTTAA
46526460 ATTGTTTAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
24 16 0.50
25 16 0.50
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (23 bp):
ATTTTTTTTAATTTTTATATTTT
Found at i:46526441 original size:17 final size:15
Alignment explanation
Indices: 46526404--46526458 Score: 56
Period size: 17 Copynumber: 3.4 Consensus size: 15
46526394 AAACTAATTT
46526404 TTTTTATTTTTTATA
1 TTTTTATTTTTTATA
* *
46526419 TATTTATTTTTTTTGAA
1 TTTTTATTTTTTAT--A
46526436 TTTTTATATTTTATATA
1 TTTTTAT-TTTT-TATA
46526453 TTTTTA
1 TTTTTA
46526459 AATTGTTTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
15 12 0.38
17 14 0.44
18 4 0.12
19 2 0.06
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.75
Consensus pattern (15 bp):
TTTTTATTTTTTATA
Found at i:46526452 original size:9 final size:8
Alignment explanation
Indices: 46526404--46526458 Score: 51
Period size: 8 Copynumber: 6.8 Consensus size: 8
46526394 AAACTAATTT
46526404 TTTTTAT-
1 TTTTTATA
46526411 TTTTTATA
1 TTTTTATA
*
46526419 TATTTAT-
1 TTTTTATA
*
46526426 TTTTTTTGAA
1 TTTTTAT--A
46526436 TTTTTATA
1 TTTTTATA
46526444 TTTTATATA
1 TTTT-TATA
46526453 TTTTTA
1 TTTTTA
46526459 AATTGTTTAA
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
7 12 0.31
8 13 0.33
9 8 0.21
10 6 0.15
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.75
Consensus pattern (8 bp):
TTTTTATA
Found at i:46526462 original size:25 final size:25
Alignment explanation
Indices: 46526411--46526467 Score: 71
Period size: 25 Copynumber: 2.2 Consensus size: 25
46526401 TTTTTTTTAT
* *
46526411 TTTTTATATATTTATTTTTTTTGAA
1 TTTTTATATATTTATTATTTTTAAA
46526436 TTTTTATAT-TTTATATATTTTTAAA
1 TTTTTATATATTTAT-TATTTTTAAA
46526461 TTGTTTA
1 TT-TTTA
46526468 AAGATGAGGA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
24 5 0.18
25 19 0.68
26 4 0.14
ACGTcount: A:0.26, C:0.00, G:0.04, T:0.70
Consensus pattern (25 bp):
TTTTTATATATTTATTATTTTTAAA
Found at i:46535546 original size:29 final size:29
Alignment explanation
Indices: 46535513--46535575 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 29
46535503 AATCTCTATT
46535513 TTTAAAT-TTTAAAAATATGTTAAT-TTTTA
1 TTTAAATATTTAAAAAT-T-TTAATATTTTA
*
46535542 TTT-AATATTTAAAAATTTTATTATTTTA
1 TTTAAATATTTAAAAATTTTAATATTTTA
46535570 TTTAAA
1 TTTAAA
46535576 GATTATTTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
27 4 0.13
28 12 0.40
29 14 0.47
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (29 bp):
TTTAAATATTTAAAAATTTTAATATTTTA
Found at i:46535569 original size:28 final size:29
Alignment explanation
Indices: 46535520--46535574 Score: 78
Period size: 28 Copynumber: 1.9 Consensus size: 29
46535510 ATTTTTAAAT
46535520 TTTAAAAATATGTTAATTTTTATTTAATA
1 TTTAAAAATATGTTAATTTTTATTTAATA
*
46535549 TTTAAAAAT-T-TTATTATTTTATTTAA
1 TTTAAAAATATGTTAAT-TTTTATTTAA
46535575 AGATTATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 4 0.17
28 11 0.46
29 9 0.38
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (29 bp):
TTTAAAAATATGTTAATTTTTATTTAATA
Found at i:46538484 original size:30 final size:31
Alignment explanation
Indices: 46538448--46538511 Score: 78
Period size: 30 Copynumber: 2.1 Consensus size: 31
46538438 CGTACTTAGG
*
46538448 TTTCTCTTCTTTCTTTCTT-TTTTTG-GTTTT
1 TTTCTC-TCTTTCTTTCTTGTTTTTGTATTTT
* *
46538478 TTTCTCTCTTTTTTTTTTGTTTTTGTATTTT
1 TTTCTCTCTTTCTTTCTTGTTTTTGTATTTT
46538509 TTT
1 TTT
46538512 TTTTGGTAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
29 10 0.34
30 12 0.41
31 7 0.24
ACGTcount: A:0.02, C:0.12, G:0.06, T:0.80
Consensus pattern (31 bp):
TTTCTCTCTTTCTTTCTTGTTTTTGTATTTT
Found at i:46538487 original size:25 final size:23
Alignment explanation
Indices: 46538454--46538501 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 23
46538444 TAGGTTTCTC
*
46538454 TTCTTTCTTTCTTTTTTTGGTTTTT
1 TTCTCTCTTT-TTTTTTT-GTTTTT
46538479 TTCTCTCTTTTTTTTTTGTTTTT
1 TTCTCTCTTTTTTTTTTGTTTTT
46538502 GTATTTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 6 0.27
24 7 0.32
25 9 0.41
ACGTcount: A:0.00, C:0.12, G:0.06, T:0.81
Consensus pattern (23 bp):
TTCTCTCTTTTTTTTTTGTTTTT
Found at i:46538500 original size:21 final size:21
Alignment explanation
Indices: 46538457--46538516 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 21
46538447 GTTTCTCTTC
* *
46538457 TTTCTTTCTTTTTTTGGTT-TT
1 TTTCTATCTTTTTTT-TTTGTT
*
46538478 TTTCTCTCTTTTTTTTTTGTT
1 TTTCTATCTTTTTTTTTTGTT
*
46538499 TTTGTAT-TTTTTTTTTTG
1 TTTCTATCTTTTTTTTTTG
46538517 GTAATTAGTG
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
20 13 0.38
21 21 0.62
ACGTcount: A:0.02, C:0.08, G:0.08, T:0.82
Consensus pattern (21 bp):
TTTCTATCTTTTTTTTTTGTT
Found at i:46540530 original size:22 final size:22
Alignment explanation
Indices: 46540485--46540531 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
46540475 TCTTTATTAG
*
46540485 TAATCTTTTTAATTATTTTAAT
1 TAATCTTTTTAATTATTTGAAT
*
46540507 TAATCTTTTTAATTATTTGCAT
1 TAATCTTTTTAATTATTTGAAT
46540529 TAA
1 TAA
46540532 CAAAAGGGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.32, C:0.06, G:0.02, T:0.60
Consensus pattern (22 bp):
TAATCTTTTTAATTATTTGAAT
Found at i:46541949 original size:19 final size:19
Alignment explanation
Indices: 46541925--46541967 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
46541915 AGTGTATTAT
*
46541925 ATTATTTAGTATTTTTGTA
1 ATTATTTAGCATTTTTGTA
46541944 ATTATTTAGCATTTTTGTA
1 ATTATTTAGCATTTTTGTA
46541963 ATTAT
1 ATTAT
46541968 ATTATTGTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.28, C:0.02, G:0.09, T:0.60
Consensus pattern (19 bp):
ATTATTTAGCATTTTTGTA
Found at i:46542088 original size:29 final size:28
Alignment explanation
Indices: 46542034--46542129 Score: 77
Period size: 29 Copynumber: 3.2 Consensus size: 28
46542024 TGAATTGAAC
*
46542034 TGATTTGGTGCAATTCGATACATGAACTT
1 TGATTTGGTGCAATTC-ATACATGAAATT
*
46542063 TGATTTGGTGTAATT-ATACATGTGAAATT
1 TGATTTGGTGCAATTCATACA--TGAAATT
* * *
46542092 TGAATTGTGATTCACATTTATACATGAAATT
1 TG-ATT-TGGTGCA-ATTCATACATGAAATT
46542123 TCGATTT
1 T-GATTT
46542130 TAATTCAACT
Statistics
Matches: 55, Mismatches: 5, Indels: 13
0.75 0.07 0.18
Matches are distributed among these distances:
27 5 0.09
29 22 0.40
30 4 0.07
31 15 0.27
32 4 0.07
33 5 0.09
ACGTcount: A:0.30, C:0.09, G:0.18, T:0.43
Consensus pattern (28 bp):
TGATTTGGTGCAATTCATACATGAAATT
Found at i:46542585 original size:30 final size:30
Alignment explanation
Indices: 46542545--46542646 Score: 125
Period size: 30 Copynumber: 3.4 Consensus size: 30
46542535 AAAAAAATAA
* *
46542545 AAATTACATTTTGACCCCTAAACTTTTC-CT
1 AAATTTCATTTTGACCCCTAAAC-TTTCATT
* *
46542575 AAATTTCATTTTGACCCTTAAACTTTCTTT
1 AAATTTCATTTTGACCCCTAAACTTTCATT
* * *
46542605 AAATTTCACTTAGACCCCTAAAATTTCATT
1 AAATTTCATTTTGACCCCTAAACTTTCATT
46542635 AAATTTCATTTT
1 AAATTTCATTTT
46542647 AATCCTAAAT
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
29 4 0.07
30 57 0.93
ACGTcount: A:0.31, C:0.22, G:0.03, T:0.44
Consensus pattern (30 bp):
AAATTTCATTTTGACCCCTAAACTTTCATT
Found at i:46542609 original size:60 final size:59
Alignment explanation
Indices: 46542542--46542680 Score: 156
Period size: 60 Copynumber: 2.4 Consensus size: 59
46542532 TTAAAAAAAA
* * *
46542542 TAAAAATTACATTTTGACCCCTAAACTTTTC-CTAAATTTCATTTTGACCCTTAAACTTTC
1 TAAAAATTACATTTAGACCCCTAAA-ATTTCACTAAATTTCATTTTAACCC-TAAACTTTC
** * * * * *
46542602 TTTAAATTTCACTTAGACCCCTAAAATTTCATTAAATTTCATTTTAATCCTAAATTTTC
1 TAAAAATTACATTTAGACCCCTAAAATTTCACTAAATTTCATTTTAACCCTAAACTTTC
46542661 TAAAAATTACATTTAG-CCCC
1 TAAAAATTACATTTAGACCCC
46542681 AGAAGTTTTG
Statistics
Matches: 64, Mismatches: 14, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
58 4 0.06
59 24 0.38
60 36 0.56
ACGTcount: A:0.34, C:0.22, G:0.03, T:0.42
Consensus pattern (59 bp):
TAAAAATTACATTTAGACCCCTAAAATTTCACTAAATTTCATTTTAACCCTAAACTTTC
Found at i:46542660 original size:29 final size:28
Alignment explanation
Indices: 46542545--46542661 Score: 92
Period size: 30 Copynumber: 4.0 Consensus size: 28
46542535 AAAAAAATAA
* * *
46542545 AAATTACATTTTGACCCCTAAACTTTTCCT
1 AAATTTCATTTT-AACCCTAAA-TTTTCTT
* *
46542575 AAATTTCATTTTGACCCTTAAACTTTCTTT
1 AAATTTCATTTTAACCC-TAAATTTTC-TT
* *
46542605 AAATTTCA-CTTAGACCCCTAAAATTTCATT
1 AAATTTCATTTTA-A-CCCTAAATTTTC-TT
*
46542635 AAATTTCATTTTAATCCTAAATTTTCT
1 AAATTTCATTTTAACCCTAAATTTTCT
46542662 AAAAATTACA
Statistics
Matches: 70, Mismatches: 12, Indels: 12
0.74 0.13 0.13
Matches are distributed among these distances:
28 1 0.01
29 19 0.27
30 44 0.63
31 6 0.09
ACGTcount: A:0.32, C:0.21, G:0.03, T:0.44
Consensus pattern (28 bp):
AAATTTCATTTTAACCCTAAATTTTCTT
Found at i:46543023 original size:3 final size:3
Alignment explanation
Indices: 46543015--46543063 Score: 53
Period size: 3 Copynumber: 15.0 Consensus size: 3
46543005 GCTCGGTTTT
*
46543015 GAA GAA GAA TAA GAA GAA GAA GAAA GAAA GAGA GAA GAA GAAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA G-AA G-AA GA-A GAA GAA G-AA GAA GAA
46543064 AAAAAAAGGA
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
3 28 0.68
4 13 0.32
ACGTcount: A:0.67, C:0.00, G:0.31, T:0.02
Consensus pattern (3 bp):
GAA
Found at i:46543030 original size:9 final size:9
Alignment explanation
Indices: 46543015--46543063 Score: 53
Period size: 10 Copynumber: 5.0 Consensus size: 9
46543005 GCTCGGTTTT
46543015 GAAGAAGAA
1 GAAGAAGAA
*
46543024 TAAGAAGAA
1 GAAGAAGAA
46543033 GAAGAAAGAAA
1 GAAG-AAG-AA
46543044 GAGAGAAGAA
1 GA-AGAAGAA
46543054 GAAAGAAGAA
1 G-AAGAAGAA
46543064 AAAAAAAGGA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
9 11 0.32
10 13 0.38
11 8 0.24
12 2 0.06
ACGTcount: A:0.67, C:0.00, G:0.31, T:0.02
Consensus pattern (9 bp):
GAAGAAGAA
Found at i:46543219 original size:23 final size:21
Alignment explanation
Indices: 46543183--46543236 Score: 58
Period size: 23 Copynumber: 2.5 Consensus size: 21
46543173 AGTAGCCCAA
46543183 CAAAAAAAAAGAAA-AA-CAAAG
1 CAAAAAAAAAGAAAGAAGC--AG
46543204 CAAAAAAAAAGGGAAAGAAGCAG
1 CAAAAAAAAA--GAAAGAAGCAG
46543227 CAAAAAAAAA
1 CAAAAAAAAA
46543237 AAGAGGGCAG
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
21 10 0.34
23 16 0.55
24 2 0.07
25 1 0.03
ACGTcount: A:0.76, C:0.09, G:0.15, T:0.00
Consensus pattern (21 bp):
CAAAAAAAAAGAAAGAAGCAG
Found at i:46543366 original size:9 final size:8
Alignment explanation
Indices: 46543341--46543405 Score: 64
Period size: 8 Copynumber: 8.4 Consensus size: 8
46543331 GCAGCCCAGC
46543341 AGAAAAAA
1 AGAAAAAA
**
46543349 A-AAAGGA
1 AGAAAAAA
46543356 AGAAAAAGA
1 AGAAAAA-A
46543365 AG-AAAAA
1 AGAAAAAA
*
46543372 AGGAAAAA
1 AGAAAAAA
46543380 AGAAAAAA
1 AGAAAAAA
46543388 AG-AAAAA
1 AGAAAAAA
*
46543395 AGAAAGAA
1 AGAAAAAA
46543403 AGA
1 AGA
46543406 GGGGGTTCAA
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
7 15 0.32
8 29 0.62
9 3 0.06
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (8 bp):
AGAAAAAA
Found at i:46543370 original size:23 final size:23
Alignment explanation
Indices: 46543341--46543405 Score: 87
Period size: 24 Copynumber: 2.8 Consensus size: 23
46543331 GCAGCCCAGC
* *
46543341 AGAAAAAAAAAAGGAAGAAAAAGA
1 AGAAAAAAGAAAGAAAGAAAAA-A
46543365 AGAAAAAAGGAAA-AAAGAAAAAA
1 AGAAAAAA-GAAAGAAAGAAAAAA
46543388 AGAAAAAAGAAAGAAAGA
1 AGAAAAAAGAAAGAAAGA
46543406 GGGGGTTCAA
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
22 4 0.11
23 14 0.38
24 16 0.43
25 3 0.08
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (23 bp):
AGAAAAAAGAAAGAAAGAAAAAA
Found at i:46543405 original size:15 final size:15
Alignment explanation
Indices: 46543341--46543405 Score: 69
Period size: 15 Copynumber: 4.2 Consensus size: 15
46543331 GCAGCCCAGC
* *
46543341 AGAAAAAAAAAAGGA
1 AGAAAAAAGAAAGAA
46543356 AGAAAAAGAAGAAA-AA
1 AG-AAAA-AAGAAAGAA
*
46543372 AGGAAAAAAGAAAAAA
1 A-GAAAAAAGAAAGAA
46543388 AGAAAAAAGAAAGAA
1 AGAAAAAAGAAAGAA
46543403 AGA
1 AGA
46543406 GGGGGTTCAA
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
15 24 0.56
16 13 0.30
17 6 0.14
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (15 bp):
AGAAAAAAGAAAGAA
Found at i:46544050 original size:18 final size:17
Alignment explanation
Indices: 46544019--46544541 Score: 190
Period size: 18 Copynumber: 29.0 Consensus size: 17
46544009 AAAAAAATAA
*
46544019 TTTCGTATTTCAAAAAT
1 TTTCGTGTTTCAAAAAT
*
46544036 TTTCGTGTTTCCAAAAT
1 TTTCGTGTTTCAAAAAT
*
46544053 TTTGCGTGTTTTAAAAAT
1 TTT-CGTGTTTCAAAAAT
**
46544071 CCTCGTGTTTTCAAAAA-
1 TTTCGTG-TTTCAAAAAT
* **
46544088 TTTCAATGTTTTGAAAAT
1 TTTC-GTGTTTCAAAAAT
* *
46544106 TTTTGTGTTTTTTTTTAAAAAAT
1 TTTCGTG------TTTCAAAAAT
* *
46544129 CTT-GTGTTTCATAAAT
1 TTTCGTGTTTCAAAAAT
* *
46544145 TTTCGTTTTTTTAAAAAAAT
1 TTTCG--TGTTT-CAAAAAT
46544165 AATAATT-GT-TTTCAAAAAT
1 --T--TTCGTGTTTCAAAAAT
* *
46544184 CTTCGTGTTTTC-AAGA-
1 TTTCGTG-TTTCAAAAAT
*
46544200 TTTCGGTGTTTCAAAATT
1 TTTC-GTGTTTCAAAAAT
*
46544218 TTTCATGTTTTCAAAAAAT
1 TTTCGTG-TTTC-AAAAAT
46544237 TTTC-TCGTGTTCAAAAAAAAAAT
1 TTTCGT-GT-TTC-----AAAAAT
46544260 TTTCGTGTTTCAAAAAT
1 TTTCGTGTTTCAAAAAT
46544277 TTTCACGT-TTTCAAAAAT
1 TTT--CGTGTTTCAAAAAT
* * *
46544295 TCTCATG-ATCAAAAAAAAAT
1 TTTCGTGTTTC----AAAAAT
46544315 TTT-GTGTTTTCAAAAAAT
1 TTTCGTG-TTTC-AAAAAT
*
46544333 TTTCATGTTTCAAAAAT
1 TTTCGTGTTTCAAAAAT
46544350 TTTCGTGTTTTCAAAAAT
1 TTTCGTG-TTTCAAAAAT
*
46544368 TTTCGTGTTTTCAACAAT
1 TTTCGTG-TTTCAAAAAT
* * **
46544386 TCTCATGTTTCACGAAT
1 TTTCGTGTTTCAAAAAT
* * *
46544403 TTTCGCGCTTCAAAAAA
1 TTTCGTGTTTCAAAAAT
**
46544420 AATCAG-GTTTTCAAAAAAAT
1 TTTC-GTG-TTTC--AAAAAT
** *
46544440 TCGCGTATTTC-AAAAT
1 TTTCGTGTTTCAAAAAT
46544456 TTTCGTGTTCTCAAAAAT
1 TTTCGTGTT-TCAAAAAT
* *
46544474 TTTCGTGTTTTAAGAAT
1 TTTCGTGTTTCAAAAAT
* *
46544491 TTTCGTGTCTCTAAAAT
1 TTTCGTGTTTCAAAAAT
* *
46544508 TCTCGTGTTTTAAAAATT
1 TTTCGTGTTTCAAAAA-T
*
46544526 TTTCTTGTTT-AAAAAT
1 TTTCGTGTTTCAAAAAT
46544542 AAAAATAAAA
Statistics
Matches: 380, Mismatches: 74, Indels: 105
0.68 0.13 0.19
Matches are distributed among these distances:
15 2 0.01
16 35 0.09
17 124 0.33
18 125 0.33
19 35 0.09
20 22 0.06
21 3 0.01
22 7 0.02
23 24 0.06
24 3 0.01
ACGTcount: A:0.32, C:0.12, G:0.10, T:0.46
Consensus pattern (17 bp):
TTTCGTGTTTCAAAAAT
Found at i:46544116 original size:35 final size:35
Alignment explanation
Indices: 46544030--46544116 Score: 95
Period size: 35 Copynumber: 2.5 Consensus size: 35
46544020 TTCGTATTTC
* * *
46544030 AAAAATTTTCGTGTTTCCAAAATTTTGCGTGTTTT
1 AAAAATTTTCGTGTTTTCAAAAATTTGCATGTTTT
**
46544065 AAAAATCCTCGTGTTTTCAAAAATTT-CAATGTTTT
1 AAAAATTTTCGTGTTTTCAAAAATTTGC-ATGTTTT
* *
46544100 GAAAATTTTTGTGTTTT
1 AAAAATTTTCGTGTTTT
46544117 TTTTTAAAAA
Statistics
Matches: 42, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
34 1 0.02
35 41 0.98
ACGTcount: A:0.29, C:0.10, G:0.13, T:0.48
Consensus pattern (35 bp):
AAAAATTTTCGTGTTTTCAAAAATTTGCATGTTTT
Found at i:46544260 original size:23 final size:22
Alignment explanation
Indices: 46544230--46544275 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
46544220 TCATGTTTTC
*
46544230 AAAAAATTTTCTCGTG-TTCAAA
1 AAAAAAATTT-TCGTGTTTCAAA
46544252 AAAAAAATTTTCGTGTTTCAAA
1 AAAAAAATTTTCGTGTTTCAAA
46544274 AA
1 AA
46544276 TTTTCACGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 5 0.23
22 17 0.77
ACGTcount: A:0.46, C:0.11, G:0.09, T:0.35
Consensus pattern (22 bp):
AAAAAAATTTTCGTGTTTCAAA
Found at i:46544280 original size:40 final size:42
Alignment explanation
Indices: 46544212--46544293 Score: 114
Period size: 40 Copynumber: 2.0 Consensus size: 42
46544202 TCGGTGTTTC
* *
46544212 AAAATTTTTCATGTTTTCAAAAAATTTTCTCGTGTTCAAAAA
1 AAAAATTTTCATGTTTTCAAAAAATTTTCACGTGTTCAAAAA
* *
46544254 AAAAATTTTCGTG-TTTC-AAAAATTTTCACGTTTTCAAAAA
1 AAAAATTTTCATGTTTTCAAAAAATTTTCACGTGTTCAAAAA
46544294 TTCTCATGAT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
40 21 0.58
41 4 0.11
42 11 0.31
ACGTcount: A:0.39, C:0.12, G:0.07, T:0.41
Consensus pattern (42 bp):
AAAAATTTTCATGTTTTCAAAAAATTTTCACGTGTTCAAAAA
Found at i:46544293 original size:35 final size:35
Alignment explanation
Indices: 46544254--46544527 Score: 180
Period size: 35 Copynumber: 7.7 Consensus size: 35
46544244 TGTTCAAAAA
*
46544254 AAAAATTTTCGTGTTTCAAAAATTTTCACGTTTTC
1 AAAAATTTTCGTGTTTCAAAAATTTTCATGTTTTC
* * * *
46544289 AAAAATTCTCATG-ATCAAAAAAAAATTTT-GTGTTTTC
1 AAAAATTTTCGTGTTTC----AAAAATTTTCATGTTTTC
* *
46544326 AAAAAATTTTCATGTTTCAAAAATTTTCGTGTTTTC
1 -AAAAATTTTCGTGTTTCAAAAATTTTCATGTTTTC
* *
46544362 AAAAATTTTCGTGTTTTCAACAATTCTCATG-TTTC
1 AAAAATTTTCGTG-TTTCAAAAATTTTCATGTTTTC
** * * *** *
46544397 ACGAATTTTCGCGCTTCAAAAAAAATCAGGTTTTC
1 AAAAATTTTCGTGTTTCAAAAATTTTCATGTTTTC
** * * *
46544432 AAAAAAATTCGCGTATTTC-AAAATTTTCGTGTTCTC
1 --AAAAATTTTCGTGTTTCAAAAATTTTCATGTTTTC
* * * *
46544468 AAAAATTTTCGTGTTTTAAGAATTTTCGTG-TCTC
1 AAAAATTTTCGTGTTTCAAAAATTTTCATGTTTTC
* * *
46544502 TAAAATTCTCGTGTTTTAAAAATTTT
1 AAAAATTTTCGTGTTTCAAAAATTTT
46544528 TCTTGTTTAA
Statistics
Matches: 186, Mismatches: 41, Indels: 25
0.74 0.16 0.10
Matches are distributed among these distances:
34 53 0.28
35 61 0.33
36 33 0.18
37 16 0.09
38 21 0.11
39 2 0.01
ACGTcount: A:0.33, C:0.14, G:0.10, T:0.43
Consensus pattern (35 bp):
AAAAATTTTCGTGTTTCAAAAATTTTCATGTTTTC
Found at i:46544313 original size:38 final size:39
Alignment explanation
Indices: 46544271--46544348 Score: 97
Period size: 38 Copynumber: 2.0 Consensus size: 39
46544261 TTCGTGTTTC
46544271 AAAAATTTTCACGTTTTC-AAAAATTCTCATG-ATCAAAA
1 AAAAATTTT-ACGTTTTCAAAAAATTCTCATGTATCAAAA
** * *
46544309 AAAAATTTTGTGTTTTCAAAAAATTTTCATGTTTCAAAA
1 AAAAATTTTACGTTTTCAAAAAATTCTCATGTATCAAAA
46544348 A
1 A
46544349 TTTTCGTGTT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
37 6 0.18
38 21 0.62
39 7 0.21
ACGTcount: A:0.44, C:0.12, G:0.06, T:0.38
Consensus pattern (39 bp):
AAAAATTTTACGTTTTCAAAAAATTCTCATGTATCAAAA
Found at i:46544541 original size:34 final size:34
Alignment explanation
Indices: 46544434--46544541 Score: 114
Period size: 34 Copynumber: 3.2 Consensus size: 34
46544424 AGGTTTTCAA
* * *
46544434 AAAAATTCGCGT-ATTTCAAAATTTTCGTGTTCT
1 AAAAATTCTCGTGTTTTAAAAATTTTCGTGTTCT
* *
46544467 CAAAAATTTTCGTGTTTTAAGAATTTTCGTGTCTCT
1 -AAAAATTCTCGTGTTTTAAAAATTTTCGTGT-TCT
*
46544503 -AAAATTCTCGTGTTTTAAAAATTTTTCTTGTT-T
1 AAAAATTCTCGTGTTTTAAAAA-TTTTCGTGTTCT
46544536 AAAAAT
1 AAAAAT
46544542 AAAAATAAAA
Statistics
Matches: 62, Mismatches: 8, Indels: 8
0.79 0.10 0.10
Matches are distributed among these distances:
33 1 0.02
34 35 0.56
35 23 0.37
36 3 0.05
ACGTcount: A:0.31, C:0.12, G:0.11, T:0.46
Consensus pattern (34 bp):
AAAAATTCTCGTGTTTTAAAAATTTTCGTGTTCT
Found at i:46544634 original size:17 final size:16
Alignment explanation
Indices: 46544569--46544666 Score: 54
Period size: 17 Copynumber: 5.8 Consensus size: 16
46544559 CAAAAAATGT
* *
46544569 TCGTGTTTTAAATTTT
1 TCGTGTTTTAAAATTC
*
46544585 TTGTGTTTTGAATAAATTTC
1 TCGTGTTTT--A-AAA-TTC
* * *
46544605 TCGTGCTTCAAAAGTTG
1 TCGTGTTTTAAAA-TTC
*
46544622 TCGTGTTTTAAAAATTT
1 TCGTGTTTT-AAAATTC
*
46544639 TCATGTTTCTAAAATTC
1 TCGTGTTT-TAAAATTC
46544656 TCGT-TTTTAAA
1 TCGTGTTTTAAA
46544667 GAAATTGTGT
Statistics
Matches: 62, Mismatches: 14, Indels: 13
0.70 0.16 0.15
Matches are distributed among these distances:
15 4 0.06
16 11 0.18
17 30 0.48
18 7 0.11
19 2 0.03
20 8 0.13
ACGTcount: A:0.26, C:0.10, G:0.13, T:0.51
Consensus pattern (16 bp):
TCGTGTTTTAAAATTC
Found at i:46556717 original size:192 final size:192
Alignment explanation
Indices: 46556384--46557383 Score: 1831
Period size: 192 Copynumber: 5.2 Consensus size: 192
46556374 CTTTCCAAGG
* *
46556384 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTAAGGTATTTTAAAATTTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
46556449 TTAAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTA
66 TT-AAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTA
46556514 GTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
130 GTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
46556577 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
* *
46556642 TTAAAAAAATCAGCTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGTACGCCGAGGTATTTTTAG
66 TTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAG
46556707 TTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
131 TTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
46556769 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
*
46556834 TTAAAAAAATCAGCTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAG
66 TTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAG
46556899 TTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
131 TTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
46556961 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAA-TTT
*
46557026 TTTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATGTTTA
65 TTTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTA
*
46557091 GTTTATGTTTTAAATTGACTCATGTTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
130 GTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
*
46557154 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCATCAAGACATGTTGAGGTA-TTTTAAATTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCC-TCAAGACACGTTGAGGTATTTTTAAATTT
** *
46557218 TAAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTA
65 TTTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTA
46557283 GTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
130 GTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
* **
46557346 AAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTC
1 -AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTC
46557384 GGCTCACATG
Statistics
Matches: 787, Mismatches: 17, Indels: 7
0.97 0.02 0.01
Matches are distributed among these distances:
192 503 0.64
193 267 0.34
194 17 0.02
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (192 bp):
AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
TTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAG
TTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
Found at i:46557094 original size:385 final size:384
Alignment explanation
Indices: 46556384--46557383 Score: 1831
Period size: 385 Copynumber: 2.6 Consensus size: 384
46556374 CTTTCCAAGG
* *
46556384 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTAAGGTATTTTAAAATTTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
46556449 TTAAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTA
66 TT-AAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTA
46556514 GTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAA
130 GTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAA
46556579 AATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTTTT
195 AATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTTTT
* * *
46556644 AAAAAAATCAGCTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGTACGCCGAGGTATTTTTAGTT
260 AAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATGTTTAGTT
46556709 TATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
325 TATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
46556769 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
*
46556834 TTAAAAAAATCAGCTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAG
66 TTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAG
46556899 TTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAA
131 TTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAA
46556964 ATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTTTTT
196 ATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAA-TTTTTT
46557029 AAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATGTTTAGTT
260 AAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATGTTTAGTT
*
46557094 TATGTTTTAAATTGACTCATGTTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
325 TATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
*
46557154 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCATCAAGACATGTTGAGGTA-TTTTAAATTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCC-TCAAGACACGTTGAGGTATTTTTAAATTT
** *
46557218 TAAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTA
65 TTTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTA
46557283 GTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAA
130 GTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC-A
* **
46557348 AAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTC
194 AAATCAACTCATATTGCGAGAAATGAGTTGAGCCTC
46557384 GGCTCACATG
Statistics
Matches: 597, Mismatches: 15, Indels: 5
0.97 0.02 0.01
Matches are distributed among these distances:
384 185 0.31
385 361 0.60
386 51 0.09
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (384 bp):
AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
TTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAG
TTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAA
ATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTTTTA
AAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATGTTTAGTTT
ATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
Found at i:46557423 original size:16 final size:17
Alignment explanation
Indices: 46557402--46557435 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
46557392 TGCTGAGGTA
*
46557402 TTTTCAATTTATG-TTT
1 TTTTCAATCTATGCTTT
46557418 TTTTCAATCTATGCTTT
1 TTTTCAATCTATGCTTT
46557435 T
1 T
46557436 CAAAAATCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.18, C:0.12, G:0.06, T:0.65
Consensus pattern (17 bp):
TTTTCAATCTATGCTTT
Found at i:46557599 original size:85 final size:88
Alignment explanation
Indices: 46557341--46557599 Score: 309
Period size: 91 Copynumber: 2.9 Consensus size: 88
46557331 TAATTTTTGT
*
46557341 TTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTC-GGCTCACATGCTGAGGTATTT
1 TTTTC-AAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGC-CACACGCTGAGGTATTT
*
46557405 TCAATTTATGTTTTTTTCAA-TCTATGC
64 TCAATTTCTG-TTTTTT-AATTCTA-GC
* *
46557432 TTTTCAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAAGG---CACGCTGAGGTATTT
1 TTTTC-AAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTC-AGGCCACACGCTGAGGTATTT
**
46557494 TCAATTTCTGCTTTACTAATTCTA-C
64 TCAATTTCTG-TTTTTTAATTCTAGC
* *
46557519 TTTTC-AAATCAACTCATATTGCAAGAGGTGAGTTGAGTCTCAGGCCACACGCTGAGGTCTTTTC
1 TTTTCAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGCCACACGCTGAGGTATTTTC
*
46557583 AAATTCTG-TTTTTAATT
66 AATTTCTGTTTTTTAATT
46557600 TTTGTTTTTT
Statistics
Matches: 148, Mismatches: 14, Indels: 18
0.82 0.08 0.10
Matches are distributed among these distances:
84 3 0.02
85 40 0.27
87 29 0.20
88 2 0.01
89 31 0.21
91 41 0.28
93 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.37
Consensus pattern (88 bp):
TTTTCAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGCCACACGCTGAGGTATTTTC
AATTTCTGTTTTTTAATTCTAGC
Found at i:46557778 original size:54 final size:55
Alignment explanation
Indices: 46557693--46557909 Score: 306
Period size: 54 Copynumber: 4.1 Consensus size: 55
46557683 TCAATTTCTA
* *
46557693 CTTTTCAATTTCTGTTTTTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGC
1 CTTTTCAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
*
46557748 CTTTT-AATTTCTATTTTTCAAAAACCAACTCATATTGCGAGAGGTGAGTTGAGC
1 CTTTTCAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
46557802 C---T---TTTCTATTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
1 CTTTTCAATTTCTATTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
* * *
46557852 CTTTTGCAAATTCT-GTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGC
1 CTTTT-CAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
46557907 CTT
1 CTT
46557910 GGCTCACGTG
Statistics
Matches: 147, Mismatches: 7, Indels: 16
0.86 0.04 0.09
Matches are distributed among these distances:
49 12 0.08
50 35 0.24
51 1 0.01
53 1 0.01
54 47 0.32
55 42 0.29
56 5 0.03
57 4 0.03
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.37
Consensus pattern (55 bp):
CTTTTCAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
Found at i:46558176 original size:14 final size:15
Alignment explanation
Indices: 46558151--46558186 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
46558141 TTTAATTTTC
46558151 AAAATTTCAAAAAAA
1 AAAATTTCAAAAAAA
*
46558166 AAAATTT-AAAAAAT
1 AAAATTTCAAAAAAA
46558180 AAAATTT
1 AAAATTT
46558187 GCATTTTGAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 13 0.65
15 7 0.35
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (15 bp):
AAAATTTCAAAAAAA
Found at i:46558223 original size:30 final size:30
Alignment explanation
Indices: 46558181--46558283 Score: 127
Period size: 30 Copynumber: 3.4 Consensus size: 30
46558171 TTAAAAAATA
*
46558181 AAATTTGCATTTTGACCCCTAAACTTTTC-CT
1 AAATTT-CATTTTGACCCCTAAAC-TTTCATT
** *
46558212 AAATTTCATTTTGACCTTTAAACTTTCTTT
1 AAATTTCATTTTGACCCCTAAACTTTCATT
* *
46558242 AAATTTCACTTAGACCCCTAAACTTTCATT
1 AAATTTCATTTTGACCCCTAAACTTTCATT
46558272 AAATTTCATTTT
1 AAATTTCATTTT
46558284 AATCCTAAAT
Statistics
Matches: 61, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
29 4 0.07
30 51 0.84
31 6 0.10
ACGTcount: A:0.29, C:0.21, G:0.04, T:0.46
Consensus pattern (30 bp):
AAATTTCATTTTGACCCCTAAACTTTCATT
Found at i:46558657 original size:3 final size:3
Alignment explanation
Indices: 46558649--46558704 Score: 67
Period size: 3 Copynumber: 17.0 Consensus size: 3
46558639 GCTCGGTTTT
46558649 GAA GAA GAA GAA GAA GGAA GAA GAA GAA GAAA GAAA GAGA GAA GAA GAAA
1 GAA GAA GAA GAA GAA -GAA GAA GAA GAA G-AA G-AA GA-A GAA GAA G-AA
46558699 GAA GAA
1 GAA GAA
46558705 AAAAAAAATT
Statistics
Matches: 49, Mismatches: 0, Indels: 8
0.86 0.00 0.14
Matches are distributed among these distances:
3 33 0.67
4 16 0.33
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:46558670 original size:10 final size:9
Alignment explanation
Indices: 46558649--46558704 Score: 67
Period size: 10 Copynumber: 5.7 Consensus size: 9
46558639 GCTCGGTTTT
46558649 GAAGAAGAA
1 GAAGAAGAA
46558658 GAAGAAGGAA
1 GAAGAA-GAA
46558668 GAAGAAGAA
1 GAAGAAGAA
46558677 GAAAGAAAGAGA
1 G-AAG-AAGA-A
46558689 GAAGAAGAAA
1 GAAGAAG-AA
46558699 GAAGAA
1 GAAGAA
46558705 AAAAAAAATT
Statistics
Matches: 42, Mismatches: 0, Indels: 9
0.82 0.00 0.18
Matches are distributed among these distances:
9 10 0.24
10 22 0.52
11 8 0.19
12 2 0.05
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (9 bp):
GAAGAAGAA
Found at i:46558670 original size:13 final size:14
Alignment explanation
Indices: 46558652--46558704 Score: 67
Period size: 13 Copynumber: 3.9 Consensus size: 14
46558642 CGGTTTTGAA
46558652 GAAG-AAGAAGAAG
1 GAAGAAAGAAGAAG
46558665 GAAG-AAGAAGAAG
1 GAAGAAAGAAGAAG
*
46558678 AAAGAAAGAGAGAA-
1 GAAGAAAGA-AGAAG
46558692 GAAGAAAGAAGAA
1 GAAGAAAGAAGAA
46558705 AAAAAAAATT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
13 20 0.56
14 12 0.33
15 4 0.11
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (14 bp):
GAAGAAAGAAGAAG
Found at i:46559014 original size:15 final size:15
Alignment explanation
Indices: 46558989--46559026 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
46558979 AAAAGGAAGA
46558989 AAAAGAAGAAAAA-AGG
1 AAAA-AAGAAAAATA-G
46559005 AAAAAAGAAAAATAG
1 AAAAAAGAAAAATAG
46559020 AAAAAAG
1 AAAAAAG
46559027 GAAGAAAGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 16 0.76
16 5 0.24
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (15 bp):
AAAAAAGAAAAATAG
Found at i:46559015 original size:23 final size:23
Alignment explanation
Indices: 46558985--46559035 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
46558975 AAAAAAAAGG
*
46558985 AAGAAAAAGAAGAAAAAAGGAAAA
1 AAGAAAAA-TAGAAAAAAGGAAAA
*
46559009 AAGAAAAATAGAAAAAAGGAAGA
1 AAGAAAAATAGAAAAAAGGAAAA
46559032 AAGA
1 AAGA
46559036 GGGGGTTCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 17 0.68
24 8 0.32
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.02
Consensus pattern (23 bp):
AAGAAAAATAGAAAAAAGGAAAA
Found at i:46559746 original size:17 final size:17
Alignment explanation
Indices: 46559649--46559746 Score: 81
Period size: 17 Copynumber: 5.6 Consensus size: 17
46559639 AAAAAAATAA
* *
46559649 TTTCGTATTTCAAAAAT
1 TTTCGTGTTTTAAAAAT
* **
46559666 TTTTGTGTTTCCAAAAT
1 TTTCGTGTTTTAAAAAT
46559683 TTTGCGTGTTTTAAAAAT
1 TTT-CGTGTTTTAAAAAT
**
46559701 CCTCGTGTTTTCAAAAA-
1 TTTCGTGTTTT-AAAAAT
*
46559718 TTTCAGTGTTTTGAAAAT
1 TTTC-GTGTTTTAAAAAT
*
46559736 TTTTGTGTTTT
1 TTTCGTGTTTT
46559747 TTTTAAAAAA
Statistics
Matches: 65, Mismatches: 12, Indels: 8
0.76 0.14 0.09
Matches are distributed among these distances:
17 38 0.58
18 27 0.42
ACGTcount: A:0.26, C:0.10, G:0.13, T:0.51
Consensus pattern (17 bp):
TTTCGTGTTTTAAAAAT
Found at i:46559746 original size:35 final size:35
Alignment explanation
Indices: 46559647--46559746 Score: 105
Period size: 35 Copynumber: 2.9 Consensus size: 35
46559637 AAAAAAAAAT
* * *
46559647 AATTT-CGTATTTCAAAAATTTTTGTGTTTCCAAA
1 AATTTGCGTGTTTTAAAAATTTTTGTGTTTTCAAA
* ** *
46559681 ATTTTGCGTGTTTTAAAAATCCTCGTGTTTTCAAA
1 AATTTGCGTGTTTTAAAAATTTTTGTGTTTTCAAA
*
46559716 AATTT-CAGTGTTTTGAAAATTTTTGTGTTTT
1 AATTTGC-GTGTTTTAAAAATTTTTGTGTTTT
46559747 TTTTAAAAAA
Statistics
Matches: 52, Mismatches: 12, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
34 5 0.10
35 47 0.90
ACGTcount: A:0.27, C:0.10, G:0.13, T:0.50
Consensus pattern (35 bp):
AATTTGCGTGTTTTAAAAATTTTTGTGTTTTCAAA
Found at i:46559747 original size:18 final size:18
Alignment explanation
Indices: 46559660--46559747 Score: 56
Period size: 18 Copynumber: 5.0 Consensus size: 18
46559650 TTCGTATTTC
*
46559660 AAAAATTTTTGTG-TTTC
1 AAAAATTTTTGTGTTTTT
* *
46559677 CAAAA-TTTTGCGTGTTTT
1 AAAAATTTTTGTGT-TTTT
** * *
46559695 AAAAATCCTCGTGTTTTC
1 AAAAATTTTTGTGTTTTT
**
46559713 AAAAATTTCAGTG-TTTT
1 AAAAATTTTTGTGTTTTT
*
46559730 GAAAATTTTTGTGTTTTT
1 AAAAATTTTTGTGTTTTT
46559748 TTTAAAAAAA
Statistics
Matches: 50, Mismatches: 17, Indels: 7
0.68 0.23 0.09
Matches are distributed among these distances:
16 6 0.12
17 17 0.34
18 23 0.46
19 4 0.08
ACGTcount: A:0.27, C:0.09, G:0.14, T:0.50
Consensus pattern (18 bp):
AAAAATTTTTGTGTTTTT
Found at i:46559805 original size:36 final size:36
Alignment explanation
Indices: 46559742--46559821 Score: 92
Period size: 36 Copynumber: 2.2 Consensus size: 36
46559732 AAATTTTTGT
* *
46559742 GTTTTTTTTAAAAAAATCTTGTGTTTCATAAATTTTC
1 GTTTTTTTTAAAAAAA-CTTGTGTTTCAAAAATCTTC
46559779 GTTTTTTTTAAATAATAA-TTGT-TTTCAAAAATCTTC
1 GTTTTTTTTAAA-AA-AACTTGTGTTTCAAAAATCTTC
*
46559815 GTGTTTT
1 GTTTTTT
46559822 CAAGATTTCG
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
36 18 0.47
37 16 0.42
38 2 0.05
39 2 0.05
ACGTcount: A:0.29, C:0.07, G:0.09, T:0.55
Consensus pattern (36 bp):
GTTTTTTTTAAAAAAACTTGTGTTTCAAAAATCTTC
Found at i:46559819 original size:18 final size:17
Alignment explanation
Indices: 46559798--46559861 Score: 60
Period size: 18 Copynumber: 3.7 Consensus size: 17
46559788 AAATAATAAT
46559798 TGTTTTCAAAAATCTTCG
1 TGTTTTCAAAAAT-TTCG
*
46559816 TGTTTTC-AAGATTTCG
1 TGTTTTCAAAAATTTCG
* *
46559832 -GTGTTTCAAAATTTTTCA
1 TGT-TTTCAAAA-ATTTCG
46559850 TGTTTTCAAAAA
1 TGTTTTCAAAAA
46559862 ATTTTCTCGT
Statistics
Matches: 37, Mismatches: 5, Indels: 9
0.73 0.10 0.18
Matches are distributed among these distances:
15 2 0.05
16 8 0.22
17 6 0.16
18 19 0.51
19 2 0.05
ACGTcount: A:0.28, C:0.12, G:0.12, T:0.47
Consensus pattern (17 bp):
TGTTTTCAAAAATTTCG
Found at i:46559881 original size:21 final size:21
Alignment explanation
Indices: 46559857--46559896 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
46559847 TCATGTTTTC
46559857 AAAAAATTTTCTCGTGTTCAA
1 AAAAAATTTTCTCGTGTTCAA
*
46559878 AAAAAATTTTTTCGTGTTC
1 AAAAAATTTTCTCGTGTTC
46559897 TTTTTTTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.35, C:0.12, G:0.10, T:0.42
Consensus pattern (21 bp):
AAAAAATTTTCTCGTGTTCAA
Found at i:46559928 original size:17 final size:17
Alignment explanation
Indices: 46559908--46560194 Score: 129
Period size: 18 Copynumber: 16.4 Consensus size: 17
46559898 TTTTTTAAAA
*
46559908 AAAAACTTTCGTGTTTC
1 AAAAATTTTCGTGTTTC
46559925 AAAAATTTTCACGT-TTTC
1 AAAAATTTT--CGTGTTTC
* * *
46559943 AAAAATTCTCATG-ATC
1 AAAAATTTTCGTGTTTC
*
46559959 AAAAAAAAATTT-GTGTTTTC
1 ---AAAAATTTTCGTG-TTTC
*
46559979 AAAAAATTTTCATGTTTC
1 -AAAAATTTTCGTGTTTC
46559997 AAAAATTTTCGTGTTTTC
1 AAAAATTTTCGTG-TTTC
46560015 AAAAATTTTCGTGTTTTC
1 AAAAATTTTCGTG-TTTC
* * *
46560033 AACAATTCTCATGTTTC
1 AAAAATTTTCGTGTTTC
** * * *
46560050 ACGAATTTCCGCGCTTCC
1 AAAAATTTTCGTG-TTTC
**
46560068 AAAAA-AATCAG-GTTTTC
1 AAAAATTTTC-GTG-TTTC
** *
46560085 AAAAAAATTCGCGTATTTC
1 --AAAAATTTTCGTGTTTC
*
46560104 -AAAATTGTCGTGTTCTC
1 AAAAATTTTCGTGTT-TC
*
46560121 AAAAATTTTCGTGTTTT
1 AAAAATTTTCGTGTTTC
* *
46560138 AAGAATTTTCGTGTCTC
1 AAAAATTTTCGTGTTTC
* * *
46560155 TAAAATTCTCGTGTTTT
1 AAAAATTTTCGTGTTTC
* *
46560172 AAAATTTTTTCTTGTTT-
1 AAAA-ATTTTCGTGTTTC
46560189 AAAAAT
1 AAAAAT
46560195 AAAAATAAAA
Statistics
Matches: 201, Mismatches: 50, Indels: 39
0.69 0.17 0.13
Matches are distributed among these distances:
16 16 0.08
17 72 0.36
18 88 0.44
19 22 0.11
20 3 0.01
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.42
Consensus pattern (17 bp):
AAAAATTTTCGTGTTTC
Found at i:46559965 original size:36 final size:36
Alignment explanation
Indices: 46559925--46560021 Score: 101
Period size: 37 Copynumber: 2.7 Consensus size: 36
46559915 TTCGTGTTTC
**
46559925 AAAAATTTTCACGTTTTCAAAAATTCTCATG-ATCAAA
1 AAAAATTTTCGTGTTTTCAAAAATTCTCATGTATC--A
* * *
46559962 AAAAAATTT-GTGTTTTCAAAAAATTTTCATGTTTC-
1 AAAAATTTTCGTGTTTTC-AAAAATTCTCATGTATCA
46559997 AAAAATTTTCGTGTTTTCAAAAATT
1 AAAAATTTTCGTGTTTTCAAAAATT
46560022 TTCGTGTTTT
Statistics
Matches: 51, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
35 15 0.29
36 14 0.27
37 20 0.39
38 2 0.04
ACGTcount: A:0.40, C:0.11, G:0.07, T:0.41
Consensus pattern (36 bp):
AAAAATTTTCGTGTTTTCAAAAATTCTCATGTATCA
Found at i:46560033 original size:36 final size:36
Alignment explanation
Indices: 46559908--46560180 Score: 152
Period size: 35 Copynumber: 7.8 Consensus size: 36
46559898 TTTTTTAAAA
* **
46559908 AAAAACTTTCGTG-TTTCAAAAATTTTCACGTTTTC
1 AAAAATTTTCGTGTTTTCAAAAATTTTCGTGTTTTC
* * **** *
46559943 AAAAATTCTCATGATCAAAAAAAAATTT-GTGTTTTC
1 AAAAATTTTCGTG-TTTTCAAAAATTTTCGTGTTTTC
*
46559979 AAAAAATTTTCATG-TTTCAAAAATTTTCGTGTTTTC
1 -AAAAATTTTCGTGTTTTCAAAAATTTTCGTGTTTTC
* * *
46560015 AAAAATTTTCGTGTTTTCAACAATTCTCATG-TTTC
1 AAAAATTTTCGTGTTTTCAAAAATTTTCGTGTTTTC
** * * * * **
46560050 ACGAATTTCCGCGCTTCCAAAAA-AATCAG-GTTTTC
1 AAAAATTTTCGTGTTTTCAAAAATTTTC-GTGTTTTC
** * * *
46560085 AAAAAAATTCGCGTATTTC-AAAATTGTCGTGTTCTC
1 AAAAATTTTCGTGT-TTTCAAAAATTTTCGTGTTTTC
* *
46560121 AAAAATTTTCGTGTTTT-AAGAATTTTCGTG-TCTC
1 AAAAATTTTCGTGTTTTCAAAAATTTTCGTGTTTTC
* * *
46560155 TAAAATTCTCGTGTTTT-AAAATTTTT
1 AAAAATTTTCGTGTTTTCAAAAATTTT
46560181 TCTTGTTTAA
Statistics
Matches: 178, Mismatches: 49, Indels: 23
0.71 0.20 0.09
Matches are distributed among these distances:
34 29 0.16
35 80 0.45
36 49 0.28
37 20 0.11
ACGTcount: A:0.33, C:0.15, G:0.11, T:0.42
Consensus pattern (36 bp):
AAAAATTTTCGTGTTTTCAAAAATTTTCGTGTTTTC
Found at i:46560125 original size:18 final size:18
Alignment explanation
Indices: 46560104--46560169 Score: 73
Period size: 17 Copynumber: 3.8 Consensus size: 18
46560094 CGCGTATTTC
*
46560104 AAAATTGTCGTGTTCTCA
1 AAAATTTTCGTGTTCTCA
*
46560122 AAAATTTTCGTGTT-TTA
1 AAAATTTTCGTGTTCTCA
* *
46560139 AGAATTTTCGTG-TCTCT
1 AAAATTTTCGTGTTCTCA
*
46560156 AAAATTCTCGTGTT
1 AAAATTTTCGTGTT
46560170 TTAAAATTTT
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
16 1 0.03
17 24 0.62
18 14 0.36
ACGTcount: A:0.26, C:0.14, G:0.15, T:0.45
Consensus pattern (18 bp):
AAAATTTTCGTGTTCTCA
Found at i:46560160 original size:34 final size:34
Alignment explanation
Indices: 46560087--46560179 Score: 116
Period size: 34 Copynumber: 2.7 Consensus size: 34
46560077 AGGTTTTCAA
* * * *
46560087 AAAAATTCGCGTATTTCAAAATTGTCGTGTTCTC
1 AAAAATTCTCGTGTTTTAAAATTTTCGTGTTCTC
*
46560121 AAAAATTTTCGTGTTTTAAGAATTTTCGTG-TCTC
1 AAAAATTCTCGTGTTTTAA-AATTTTCGTGTTCTC
*
46560155 TAAAATTCTCGTGTTTTAAAATTTT
1 AAAAATTCTCGTGTTTTAAAATTTT
46560180 TTCTTGTTTA
Statistics
Matches: 51, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
33 6 0.12
34 36 0.71
35 9 0.18
ACGTcount: A:0.29, C:0.13, G:0.13, T:0.45
Consensus pattern (34 bp):
AAAAATTCTCGTGTTTTAAAATTTTCGTGTTCTC
Found at i:46560176 original size:16 final size:16
Alignment explanation
Indices: 46560088--46560177 Score: 72
Period size: 17 Copynumber: 5.4 Consensus size: 16
46560078 GGTTTTCAAA
* * *
46560088 AAAATTCGCGTATTTC
1 AAAATTCTCGTGTTTT
* *
46560104 AAAATTGTCGTGTTCTCA
1 AAAATTCTCGTGTT-T-T
*
46560122 AAAATTTTCGTGTTTT
1 AAAATTCTCGTGTTTT
* *
46560138 AAGAATTTTCGTGTCTCT
1 AA-AATTCTCGTGT-TTT
46560156 AAAATTCTCGTGTTTT
1 AAAATTCTCGTGTTTT
46560172 AAAATT
1 AAAATT
46560178 TTTTCTTGTT
Statistics
Matches: 61, Mismatches: 9, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
16 21 0.34
17 23 0.38
18 17 0.28
ACGTcount: A:0.29, C:0.13, G:0.13, T:0.44
Consensus pattern (16 bp):
AAAATTCTCGTGTTTT
Found at i:46560287 original size:17 final size:16
Alignment explanation
Indices: 46560222--46560319 Score: 54
Period size: 17 Copynumber: 5.8 Consensus size: 16
46560212 CAAAAAATGT
* *
46560222 TCGTGTTTTAAATTTT
1 TCGTGTTTTAAAATTC
*
46560238 TTGTGTTTTGAATAAATTTC
1 TCGTGTTTT--A-AAA-TTC
* * *
46560258 TCGTGCTTCAAAAGTTG
1 TCGTGTTTTAAAA-TTC
*
46560275 TCGTGTTTTAAAAATTT
1 TCGTGTTTT-AAAATTC
*
46560292 TCATGTTTCTAAAATTC
1 TCGTGTTT-TAAAATTC
46560309 TCGT-TTTTAAA
1 TCGTGTTTTAAA
46560320 GAAATTGTGT
Statistics
Matches: 62, Mismatches: 14, Indels: 13
0.70 0.16 0.15
Matches are distributed among these distances:
15 4 0.06
16 11 0.18
17 30 0.48
18 7 0.11
19 2 0.03
20 8 0.13
ACGTcount: A:0.26, C:0.10, G:0.13, T:0.51
Consensus pattern (16 bp):
TCGTGTTTTAAAATTC
Found at i:46563812 original size:34 final size:34
Alignment explanation
Indices: 46563769--46563842 Score: 121
Period size: 34 Copynumber: 2.2 Consensus size: 34
46563759 CTCAAACAAA
* *
46563769 AACCCTAAACCCTACTTTAAATAAACAAAACCCT
1 AACCTTAAACCCTAATTTAAATAAACAAAACCCT
46563803 AACCTTAAACCCTAATTTAAATAAACAAAACCCT
1 AACCTTAAACCCTAATTTAAATAAACAAAACCCT
*
46563837 ACCCTT
1 AACCTT
46563843 TAAAAATGAC
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.46, C:0.31, G:0.00, T:0.23
Consensus pattern (34 bp):
AACCTTAAACCCTAATTTAAATAAACAAAACCCT
Found at i:46570001 original size:30 final size:31
Alignment explanation
Indices: 46569967--46570031 Score: 89
Period size: 30 Copynumber: 2.1 Consensus size: 31
46569957 TTTTTAAGTT
46569967 AAATTT-ACCATCAACATTTTAAAAAGAGT-A
1 AAATTTGACCATCAAC-TTTTAAAAAGAGTCA
**
46569997 AAATTTGACCATCAACTTTTTGAAAGAGTCA
1 AAATTTGACCATCAACTTTTAAAAAGAGTCA
46570028 AAAT
1 AAAT
46570032 GATGTTTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
30 17 0.55
31 14 0.45
ACGTcount: A:0.46, C:0.14, G:0.09, T:0.31
Consensus pattern (31 bp):
AAATTTGACCATCAACTTTTAAAAAGAGTCA
Found at i:46572686 original size:25 final size:24
Alignment explanation
Indices: 46572649--46572764 Score: 83
Period size: 25 Copynumber: 4.6 Consensus size: 24
46572639 CACAACTTTT
*
46572649 ATGAGCATCCCGATATTTGGCTCTC
1 ATGAGC-TTCCGATATTTGGCTCTC
* *
46572674 ACGAGCTTTCCGAT-TAATGGCTCTC
1 ATGAGC-TTCCGATAT-TTGGCTCTC
* * * *
46572699 TTGAACTTCCCGATAATTGGCTCGC
1 ATGAGCTT-CCGATATTTGGCTCTC
*
46572724 ATGAGCTTCTCGAT-TTATGGCTCTT
1 ATGAGCTTC-CGATATT-TGGCTCTC
46572749 ATGAGCTTCTCGATAT
1 ATGAGCTTC-CGATAT
46572765 ATAGCTTGAT
Statistics
Matches: 70, Mismatches: 15, Indels: 11
0.73 0.16 0.11
Matches are distributed among these distances:
24 5 0.07
25 64 0.91
26 1 0.01
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.35
Consensus pattern (24 bp):
ATGAGCTTCCGATATTTGGCTCTC
Found at i:46572763 original size:50 final size:50
Alignment explanation
Indices: 46572647--46572763 Score: 139
Period size: 50 Copynumber: 2.3 Consensus size: 50
46572637 ACCACAACTT
* * *
46572647 TTATGAGCATCCCGATATTTGGCTCTCACGAGCTTTCCGATTAATGGCTC
1 TTATGAGCTTCCCGATAATTGGCTCGCACGAGCTTTCCGATTAATGGCTC
* * *
46572697 TCT-TGAACTTCCCGATAATTGGCTCGCATGAGC-TTCTCGATTTATGGCTC
1 T-TATGAGCTTCCCGATAATTGGCTCGCACGAGCTTTC-CGATTAATGGCTC
*
46572747 TTATGAGCTTCTCGATA
1 TTATGAGCTTCCCGATA
46572764 TATAGCTTGA
Statistics
Matches: 56, Mismatches: 8, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
49 4 0.07
50 51 0.91
51 1 0.02
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.36
Consensus pattern (50 bp):
TTATGAGCTTCCCGATAATTGGCTCGCACGAGCTTTCCGATTAATGGCTC
Found at i:46572778 original size:25 final size:25
Alignment explanation
Indices: 46572724--46572782 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 25
46572714 ATTGGCTCGC
* * *
46572724 ATGAGCTTCTCGATTTATGGCTCTT
1 ATGAGCTTCTCGATATATAGCTCTG
46572749 ATGAGCTTCTCGATATATAGCT-TG
1 ATGAGCTTCTCGATATATAGCTCTG
46572773 ATTGAGCTTC
1 A-TGAGCTTC
46572783 CCATTATACA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
24 2 0.07
25 28 0.93
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (25 bp):
ATGAGCTTCTCGATATATAGCTCTG
Found at i:46572790 original size:25 final size:25
Alignment explanation
Indices: 46572749--46572834 Score: 68
Period size: 25 Copynumber: 3.4 Consensus size: 25
46572739 TATGGCTCTT
*
46572749 ATGAGCTTCTCGA-TATATAGCTTGA
1 ATGAGCTTC-CCATTATATAGCTTGA
* * * *
46572774 TTGAGCTTCCCATTATACA-ATTTA
1 ATGAGCTTCCCATTATATAGCTTGA
* *
46572798 CATGAGCTTCCCATTATATGGCTCGA
1 -ATGAGCTTCCCATTATATAGCTTGA
*
46572824 AAGAGCTTCCC
1 ATGAGCTTCCC
46572835 GTTTACATAT
Statistics
Matches: 46, Mismatches: 12, Indels: 6
0.72 0.19 0.09
Matches are distributed among these distances:
24 5 0.11
25 39 0.85
26 2 0.04
ACGTcount: A:0.27, C:0.23, G:0.16, T:0.34
Consensus pattern (25 bp):
ATGAGCTTCCCATTATATAGCTTGA
Found at i:46585170 original size:19 final size:19
Alignment explanation
Indices: 46585148--46585187 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
46585138 TTTTCTGCTT
*
46585148 TCCCATCTGTTTTGCTTTA
1 TCCCATCTGCTTTGCTTTA
* *
46585167 TCCCCTTTGCTTTGCTTTA
1 TCCCATCTGCTTTGCTTTA
46585186 TC
1 TC
46585188 TCAAAAATCT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.07, C:0.30, G:0.10, T:0.53
Consensus pattern (19 bp):
TCCCATCTGCTTTGCTTTA
Found at i:46597483 original size:28 final size:28
Alignment explanation
Indices: 46597451--46597508 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
46597441 ACTGGATACG
46597451 ATTTAGAGCCAAGTATTAAATTATCCCA
1 ATTTAGAGCCAAGTATTAAATTATCCCA
46597479 ATTTAGAGCCAAGTATTAAATTATCCCA
1 ATTTAGAGCCAAGTATTAAATTATCCCA
46597507 AT
1 AT
46597509 ACTTATGTAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.40, C:0.17, G:0.10, T:0.33
Consensus pattern (28 bp):
ATTTAGAGCCAAGTATTAAATTATCCCA
Found at i:46609400 original size:17 final size:17
Alignment explanation
Indices: 46609378--46609411 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
46609368 CTTTTCAAGA
46609378 TTATATATTTATCATGG
1 TTATATATTTATCATGG
46609395 TTATATATTTATCATGG
1 TTATATATTTATCATGG
46609412 AACGAGGTAA
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:0.29, C:0.06, G:0.12, T:0.53
Consensus pattern (17 bp):
TTATATATTTATCATGG
Found at i:46612572 original size:162 final size:162
Alignment explanation
Indices: 46612379--46612698 Score: 516
Period size: 162 Copynumber: 2.0 Consensus size: 162
46612369 CTATAACCTT
*
46612379 GGACCTTTCTCCTTAATCACCAAAGCTATACTCATCAGCTCTTGACACCACAATGCGAACAATCA
1 GGACCTTTCTCCTTAATCACCAAAGCTATACTCATCAGCTCTTGACACCACAATGCAAACAATCA
* * * *
46612444 TCAACCACCATT-ACTAGGTGAGAGTAATTGGTTTTTAGTTGGATTGGTCGATTTTCATGACTTA
66 TCAACCACCATTAAC-AGGGGAGAATAATTGGTTGTTAGTTAGATTGGTCGATTTTCATGACTTA
* *
46612508 TCCGCCTTAGCCAACCACCGCCAAATTTACATA
130 TCCGACTTAACCAACCACCGCCAAATTTACATA
*
46612541 GGACCTTTCTCCTTAATCACCAAAGCTATACTCATCGGCTCTTGACACCACAATGCAAACAATCA
1 GGACCTTTCTCCTTAATCACCAAAGCTATACTCATCAGCTCTTGACACCACAATGCAAACAATCA
* * *
46612606 TCAACCACCATTAACAGGGGAGAATACTTGGTTGTTAGTTAGTTTGGTCGATTTTCCTGACTTAT
66 TCAACCACCATTAACAGGGGAGAATAATTGGTTGTTAGTTAGATTGGTCGATTTTCATGACTTAT
*
46612671 CCGACTTAACCGACCACCGCCAAATTTA
131 CCGACTTAACCAACCACCGCCAAATTTA
46612699 ACCAACTAAC
Statistics
Matches: 145, Mismatches: 12, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
162 143 0.99
163 2 0.01
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (162 bp):
GGACCTTTCTCCTTAATCACCAAAGCTATACTCATCAGCTCTTGACACCACAATGCAAACAATCA
TCAACCACCATTAACAGGGGAGAATAATTGGTTGTTAGTTAGATTGGTCGATTTTCATGACTTAT
CCGACTTAACCAACCACCGCCAAATTTACATA
Found at i:46613039 original size:12 final size:12
Alignment explanation
Indices: 46613019--46613058 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
46613009 CTATATTCAT
*
46613019 ATATTTTTATAA
1 ATATATTTATAA
46613031 ATATATTTATAAA
1 ATATATTTAT-AA
*
46613044 ATATATTTAAAA
1 ATATATTTATAA
46613056 ATA
1 ATA
46613059 CATATAACCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
12 14 0.56
13 11 0.44
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (12 bp):
ATATATTTATAA
Found at i:46613047 original size:13 final size:13
Alignment explanation
Indices: 46613017--46613058 Score: 59
Period size: 13 Copynumber: 3.2 Consensus size: 13
46613007 ACCTATATTC
*
46613017 ATATATTTTTATAA
1 ATATATTTATA-AA
46613031 ATATATTTATAAA
1 ATATATTTATAAA
46613044 ATATATTTA-AAA
1 ATATATTTATAAA
46613056 ATA
1 ATA
46613059 CATATAACCA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
12 6 0.22
13 11 0.41
14 10 0.37
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
ATATATTTATAAA
Found at i:46616065 original size:21 final size:21
Alignment explanation
Indices: 46616040--46616088 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
46616030 GTGTTTTACT
*
46616040 TTCTGTTTAGCTTTTATGAGC
1 TTCTGTTTAGCTTTTACGAGC
46616061 TTCTGTTTAGCTTTTACGAGC
1 TTCTGTTTAGCTTTTACGAGC
46616082 TTCTGTT
1 TTCTGTT
46616089 CAACTCTAGA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.12, C:0.16, G:0.18, T:0.53
Consensus pattern (21 bp):
TTCTGTTTAGCTTTTACGAGC
Found at i:46616106 original size:19 final size:20
Alignment explanation
Indices: 46616075--46616150 Score: 66
Period size: 19 Copynumber: 3.8 Consensus size: 20
46616065 GTTTAGCTTT
*
46616075 TACGAGCTTCTGTTCAACTC
1 TACGAGTTTCTGTTCAACTC
**
46616095 TA-GAGTTTCTGTTCGTCT-
1 TACGAGTTTCTGTTCAACTC
* *
46616113 TATGAGTTTCTGTTCCAGCTC
1 TACGAGTTTCTGTT-CAACTC
*
46616134 TTACGAGCTTCTGTTCA
1 -TACGAGTTTCTGTTCA
46616151 GCTTTAAGCT
Statistics
Matches: 45, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
18 2 0.04
19 24 0.53
20 5 0.11
21 2 0.04
22 12 0.27
ACGTcount: A:0.16, C:0.24, G:0.18, T:0.42
Consensus pattern (20 bp):
TACGAGTTTCTGTTCAACTC
Found at i:46617766 original size:23 final size:23
Alignment explanation
Indices: 46617733--46617789 Score: 78
Period size: 23 Copynumber: 2.5 Consensus size: 23
46617723 AATTAAAACA
* *
46617733 ATTTTCAAAAATTCAAAATATAT
1 ATTTTTAAAAATCCAAAATATAT
* *
46617756 ATTTTTTAAAATCCAAAATTTAT
1 ATTTTTAAAAATCCAAAATATAT
46617779 ATTTTTAAAAA
1 ATTTTTAAAAA
46617790 ATTTATAAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.49, C:0.07, G:0.00, T:0.44
Consensus pattern (23 bp):
ATTTTTAAAAATCCAAAATATAT
Found at i:46617790 original size:17 final size:17
Alignment explanation
Indices: 46617770--46617807 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
46617760 TTTAAAATCC
**
46617770 AAAATTTATATTTTTAA
1 AAAATTTATAAATTTAA
46617787 AAAATTTATAAATTTAA
1 AAAATTTATAAATTTAA
46617804 AAAA
1 AAAA
46617808 ATTCTAAAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
AAAATTTATAAATTTAA
Found at i:46617808 original size:18 final size:17
Alignment explanation
Indices: 46617770--46617810 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
46617760 TTTAAAATCC
* *
46617770 AAAATTTATATTTTTAA
1 AAAATTTATAATTTAAA
46617787 AAAATTTATAAATTTAAA
1 AAAATTTAT-AATTTAAA
46617805 AAAATT
1 AAAATT
46617811 CTAAAGAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 9 0.43
18 12 0.57
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
AAAATTTATAATTTAAA
Found at i:46617815 original size:17 final size:17
Alignment explanation
Indices: 46617782--46617815 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
46617772 AATTTATATT
*
46617782 TTTAAAAAATTTATAAA
1 TTTAAAAAAATTATAAA
*
46617799 TTTAAAAAAATTCTAAA
1 TTTAAAAAAATTATAAA
46617816 GAATATATAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (17 bp):
TTTAAAAAAATTATAAA
Found at i:46617865 original size:19 final size:19
Alignment explanation
Indices: 46617824--46617868 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
46617814 AAGAATATAT
**
46617824 AAATTTTTTTTATAAATTT
1 AAATTTTTTTTATAAATAA
46617843 AAATTTTTTTCTA-AAATAA
1 AAATTTTTTT-TATAAATAA
46617862 AAATTTT
1 AAATTTT
46617869 AAGGATCTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 21 0.91
20 2 0.09
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (19 bp):
AAATTTTTTTTATAAATAA
Found at i:46620002 original size:24 final size:24
Alignment explanation
Indices: 46619970--46620019 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
46619960 GAATGTGAAA
*
46619970 GGGGTTGCTATGTGCTGATTCCCC
1 GGGGTTGCTAAGTGCTGATTCCCC
46619994 GGGGTTGCTAAGTGCTGATTCCCC
1 GGGGTTGCTAAGTGCTGATTCCCC
46620018 GG
1 GG
46620020 TTCATTGGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.10, C:0.24, G:0.36, T:0.30
Consensus pattern (24 bp):
GGGGTTGCTAAGTGCTGATTCCCC
Found at i:46620033 original size:99 final size:102
Alignment explanation
Indices: 46619909--46620112 Score: 294
Period size: 99 Copynumber: 2.0 Consensus size: 102
46619899 GTTGCTGGTG
* *
46619909 GCTGATCCCCGATTTATGGGTGGTGCTATGTGCG-TGATCCACCATATC-TTTG-AATGTGAAA-
1 GCTGATCCCCGATTCATGGGTGGTGCTAAGTGCGAT-ATCCACCATATCTTTTGAAATGTGAAAG
46619970 GGGGTTGCTATGTGCTGATT-CCCC-GGGGTTGCTAAGT
65 GGGGTTGCTATGT-CTGATTCCCCCAGGGGTTGCTAAGT
* *
46620007 GCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTTTTGAAATGTGAAAG
1 GCTGA-TCCCCGATTCATGGGTGGTGCTAAGTGCGATATCCACCATATCTTTTGAAATGTGAAAG
46620072 GGGGTTGCTATGTCTGATTCCCCCGAGGGGTTGCTAAGT
65 GGGGTTGCTATGTCTGATTCCCCC-AGGGGTTGCTAAGT
46620111 GC
1 GC
46620113 GATATCCATT
Statistics
Matches: 94, Mismatches: 4, Indels: 10
0.87 0.04 0.09
Matches are distributed among these distances:
98 5 0.05
99 37 0.39
100 5 0.05
101 15 0.16
102 17 0.18
104 15 0.16
ACGTcount: A:0.18, C:0.20, G:0.30, T:0.32
Consensus pattern (102 bp):
GCTGATCCCCGATTCATGGGTGGTGCTAAGTGCGATATCCACCATATCTTTTGAAATGTGAAAGG
GGGTTGCTATGTCTGATTCCCCCAGGGGTTGCTAAGT
Found at i:46620117 original size:72 final size:69
Alignment explanation
Indices: 46620031--46620180 Score: 205
Period size: 72 Copynumber: 2.1 Consensus size: 69
46620021 TCATTGGTGG
*
46620031 TGCTAAGTGCGATATCCACCATATCTTTTGAAATGTGAAAG-GGGGTTGCTATGT-CTGATTCCC
1 TGCTAAGTGCGATATCCACCATAT-ATTTGAAA--TGAAAGAGGGGTTGCTATGTGCTGATT-CC
46620094 CCGAGGGGT
62 CCGA-GGGT
***
46620103 TGCTAAGTGCGATATCCATTGTATATTTGAAATGAAAGAGGGGTTGCTATGTGCTGATTCCCCGA
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGAAAGAGGGGTTGCTATGTGCTGATTCCCCGA
46620168 GGGT
66 GGGT
46620172 TGCTAAGTG
1 TGCTAAGTG
46620181 ATGATTCCCC
Statistics
Matches: 72, Mismatches: 4, Indels: 7
0.87 0.05 0.08
Matches are distributed among these distances:
69 19 0.26
70 19 0.26
71 13 0.18
72 21 0.29
ACGTcount: A:0.23, C:0.17, G:0.29, T:0.31
Consensus pattern (69 bp):
TGCTAAGTGCGATATCCACCATATATTTGAAATGAAAGAGGGGTTGCTATGTGCTGATTCCCCGA
GGGT
Found at i:46620175 original size:25 final size:25
Alignment explanation
Indices: 46620143--46620192 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
46620133 AATGAAAGAG
* *
46620143 GGGTTGCTATGTGCTGATTCCCCGA
1 GGGTTGCTAAGTGATGATTCCCCGA
46620168 GGGTTGCTAAGTGATGATTCCCCGA
1 GGGTTGCTAAGTGATGATTCCCCGA
46620193 TTCAGTGGTG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.16, C:0.22, G:0.32, T:0.30
Consensus pattern (25 bp):
GGGTTGCTAAGTGATGATTCCCCGA
Found at i:46627325 original size:26 final size:26
Alignment explanation
Indices: 46627290--46627340 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
46627280 AATGTGAAAG
*
46627290 GGGGTTGCTATGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
46627316 GGGGTTGCTAAGTGCTGATTCCCCG
1 GGGGTTGCTAAGTGCTGATTCCCCG
46627341 GTTCATTGGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.12, C:0.24, G:0.35, T:0.29
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTGATTCCCCGA
Found at i:46627391 original size:103 final size:103
Alignment explanation
Indices: 46627213--46627438 Score: 368
Period size: 103 Copynumber: 2.2 Consensus size: 103
46627203 TTGTATATAA
** * *
46627213 AGGGGTTGCTGTGTGCTGATT-CCCGATTTATGGGTGGTGCTATGTGCGTGATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGTGATCCACCATATCTT
46627277 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
66 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
* *
46627315 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCG-TGATCCACCATATCT
46627379 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
65 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
46627418 AGGGGTTGCTAAGTGC-GATTC
1 AGGGGTTGCTAAGTGCTGATTC
46627439 ATTGTATATG
Statistics
Matches: 116, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
102 24 0.21
103 91 0.78
104 1 0.01
ACGTcount: A:0.18, C:0.18, G:0.32, T:0.32
Consensus pattern (103 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGTGATCCACCATATCTT
TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
Found at i:46631601 original size:43 final size:42
Alignment explanation
Indices: 46631497--46631601 Score: 138
Period size: 42 Copynumber: 2.5 Consensus size: 42
46631487 GATTTGAGAT
*
46631497 TTACGTGTAAGACCATGTCTAGGACATTGCCATCGTATATGA
1 TTACGTGTAAGACCATGTCTAGGACAGTGCCATCGTATATGA
* * * *
46631539 TTTCGTGTAAGACCCTGTCTAGGACAGTGGCATCGATATTTGA
1 TTACGTGTAAGACCATGTCTAGGACAGTGCCATCG-TATATGA
* *
46631582 TTACATGTAAGATCATGTCT
1 TTACGTGTAAGACCATGTCT
46631602 GGGATGTTGG
Statistics
Matches: 53, Mismatches: 9, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
42 31 0.58
43 22 0.42
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.33
Consensus pattern (42 bp):
TTACGTGTAAGACCATGTCTAGGACAGTGCCATCGTATATGA
Found at i:46633603 original size:29 final size:29
Alignment explanation
Indices: 46633569--46633628 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 29
46633559 TCAAGCAATT
46633569 CCTCTCCC-AAATCAAGAAAAATCGTCCAC
1 CCTCTCCCTAAATCAAG-AAAATCGTCCAC
* *
46633598 CCTCTCCCTTGAATCAAGCAAATCGTCCAC
1 CCTCTCCC-TAAATCAAGAAAATCGTCCAC
46633628 C
1 C
46633629 TATAAGGAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
29 8 0.30
30 12 0.44
31 7 0.26
ACGTcount: A:0.32, C:0.40, G:0.08, T:0.20
Consensus pattern (29 bp):
CCTCTCCCTAAATCAAGAAAATCGTCCAC
Found at i:46637610 original size:10 final size:10
Alignment explanation
Indices: 46637595--46637753 Score: 59
Period size: 10 Copynumber: 16.4 Consensus size: 10
46637585 CACATGTGAC
46637595 AAAAAATTAT
1 AAAAAATTAT
46637605 -AAAAA--AT
1 AAAAAATTAT
*
46637612 -AAAAATCA-
1 AAAAAATTAT
46637620 ATAAAAATTAT
1 A-AAAAATTAT
46637631 -AAAAATTAT
1 AAAAAATTAT
* **
46637640 TAAACTTTAAT
1 AAAAAATT-AT
*
46637651 AAAAAAATAT
1 AAAAAATTAT
*
46637661 TAAAAATT-T
1 AAAAAATTAT
*
46637670 ACTAAAAATTAG
1 A--AAAAATTAT
**
46637682 AAAAAAAAAT
1 AAAAAATTAT
**
46637692 ATAAAAATCGT
1 A-AAAAATTAT
46637703 AAAAAA-TAT
1 AAAAAATTAT
*
46637712 -AAAAATTGT
1 AAAAAATTAT
***
46637721 AAAGTTTTAT
1 AAAAAATTAT
*
46637731 -AAAAATCAT
1 AAAAAATTAT
46637740 AAAAAATTAT
1 AAAAAATTAT
46637750 AAAA
1 AAAA
46637754 TCCATAAAAA
Statistics
Matches: 106, Mismatches: 29, Indels: 28
0.65 0.18 0.17
Matches are distributed among these distances:
7 7 0.07
8 5 0.05
9 24 0.23
10 49 0.46
11 20 0.19
12 1 0.01
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.28
Consensus pattern (10 bp):
AAAAAATTAT
Found at i:46637634 original size:8 final size:9
Alignment explanation
Indices: 46637596--46637753 Score: 77
Period size: 9 Copynumber: 16.4 Consensus size: 9
46637586 ACATGTGACA
46637596 AAAAATTAT
1 AAAAATTAT
46637605 AAAAA--AT
1 AAAAATTAT
*
46637612 AAAAATCAAT
1 AAAAAT-TAT
46637622 AAAAATTAT
1 AAAAATTAT
46637631 AAAAATTATT
1 AAAAATTA-T
**
46637641 AAACTTTAAT
1 AAAAATT-AT
*
46637651 AAAAAAATATT
1 -AAAAATTA-T
46637662 AAAAATTTACT
1 AAAAA-TTA-T
*
46637673 AAAAATTAGAAA
1 AAAAATT---AT
*
46637685 AAAAAATAT
1 AAAAATTAT
**
46637694 AAAAATCGT
1 AAAAATTAT
*
46637703 AAAAAATAT
1 AAAAATTAT
*
46637712 AAAAATTGT
1 AAAAATTAT
**
46637721 AAAGTTTTAT
1 AAA-AATTAT
*
46637731 AAAAATCAT
1 AAAAATTAT
46637740 AAAAAATTAT
1 -AAAAATTAT
46637750 AAAA
1 AAAA
46637754 TCCATAAAAA
Statistics
Matches: 110, Mismatches: 26, Indels: 26
0.68 0.16 0.16
Matches are distributed among these distances:
7 7 0.06
9 45 0.41
10 37 0.34
11 14 0.13
12 6 0.05
13 1 0.01
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.28
Consensus pattern (9 bp):
AAAAATTAT
Found at i:46637670 original size:22 final size:21
Alignment explanation
Indices: 46637631--46637677 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
46637621 TAAAAATTAT
* *
46637631 AAAAATTATTAAACTTTAATA
1 AAAAAATATTAAAATTTAATA
*
46637652 AAAAAATATTAAAAATTTACTA
1 AAAAAATATT-AAAATTTAATA
46637674 AAAA
1 AAAA
46637678 TTAGAAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 9 0.41
22 13 0.59
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (21 bp):
AAAAAATATTAAAATTTAATA
Found at i:46637764 original size:19 final size:19
Alignment explanation
Indices: 46637684--46637765 Score: 78
Period size: 19 Copynumber: 4.4 Consensus size: 19
46637674 AAAATTAGAA
* *
46637684 AAAAAAATATAAAAATCGT
1 AAAAAATTATAAAAATCAT
**
46637703 AAAAAA-TATAAAAATTGT
1 AAAAAATTATAAAAATCAT
***
46637721 AAAGTTTTATAAAAATCAT
1 AAAAAATTATAAAAATCAT
46637740 AAAAAATTAT-AAAATCCAT
1 AAAAAATTATAAAAAT-CAT
46637759 AAAAAAT
1 AAAAAAT
46637766 GCCCTTTAAC
Statistics
Matches: 52, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
18 19 0.37
19 33 0.63
ACGTcount: A:0.65, C:0.05, G:0.04, T:0.27
Consensus pattern (19 bp):
AAAAAATTATAAAAATCAT
Found at i:46638042 original size:19 final size:19
Alignment explanation
Indices: 46638007--46638111 Score: 78
Period size: 19 Copynumber: 5.6 Consensus size: 19
46637997 TAAAATTGTA
*
46638007 TATATATTTT-TCTATTTTT
1 TATATATTTTAT-AATTTTT
46638026 TATATATTTTATAATTTTT
1 TATATATTTTATAATTTTT
**
46638045 TATCAT-TTTTATAA-AATT
1 TAT-ATATTTTATAATTTTT
*
46638063 TACA-ATTTTTATAATTTTT
1 TATATA-TTTTATAATTTTT
46638082 TATGAT-TTTTATAATCTTTT
1 TAT-ATATTTTATAAT-TTTT
*
46638102 TCTA-ATTTTA
1 TATATATTTTA
46638112 ATAAAATTAA
Statistics
Matches: 69, Mismatches: 8, Indels: 18
0.73 0.08 0.19
Matches are distributed among these distances:
17 1 0.01
18 12 0.17
19 46 0.67
20 10 0.14
ACGTcount: A:0.30, C:0.05, G:0.01, T:0.65
Consensus pattern (19 bp):
TATATATTTTATAATTTTT
Found at i:46638090 original size:9 final size:9
Alignment explanation
Indices: 46638007--46638115 Score: 76
Period size: 9 Copynumber: 11.6 Consensus size: 9
46637997 TAAAATTGTA
46638007 TATATATTTT
1 TATA-ATTTT
* *
46638017 TCTATTTTT
1 TATAATTTT
46638026 TAT-ATATTT
1 TATAAT-TTT
46638035 TATAATTTTT
1 TATAA-TTTT
*
46638045 TATCATTTT
1 TATAATTTT
**
46638054 TATAAAATT
1 TATAATTTT
*
46638063 TACAATTTT
1 TATAATTTT
46638072 TATAATTTTT
1 TATAA-TTTT
*
46638082 TATGATTTT
1 TATAATTTT
46638091 TATAATCTTTT
1 TATAA--TTTT
*
46638102 TCTAATTTT
1 TATAATTTT
*
46638111 AATAA
1 TATAA
46638116 AATTAAATAT
Statistics
Matches: 76, Mismatches: 17, Indels: 13
0.72 0.16 0.12
Matches are distributed among these distances:
8 1 0.01
9 47 0.62
10 19 0.25
11 9 0.12
ACGTcount: A:0.31, C:0.05, G:0.01, T:0.63
Consensus pattern (9 bp):
TATAATTTT
Found at i:46641881 original size:35 final size:35
Alignment explanation
Indices: 46641835--46641902 Score: 118
Period size: 35 Copynumber: 1.9 Consensus size: 35
46641825 TTTTAGGTTT
* *
46641835 TTCCGAATCAAACTAAAAGTTTCGAGAATAATTCC
1 TTCCGAATCAAACTAAAAGATTCAAGAATAATTCC
46641870 TTCCGAATCAAACTAAAAGATTCAAGAATAATT
1 TTCCGAATCAAACTAAAAGATTCAAGAATAATT
46641903 ACTTTGAGTG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.44, C:0.18, G:0.10, T:0.28
Consensus pattern (35 bp):
TTCCGAATCAAACTAAAAGATTCAAGAATAATTCC
Found at i:46642758 original size:31 final size:31
Alignment explanation
Indices: 46642723--46642783 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
46642713 TATTTAAATG
* *
46642723 TATACAATTGAATCCA-GATTAAAATTTTATA
1 TATACAATTGAA-CCACAATCAAAATTTTATA
*
46642754 TATACATTTGAACCACAATCAAAATTTTAT
1 TATACAATTGAACCACAATCAAAATTTTAT
46642784 TTGTATAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 3 0.12
31 23 0.88
ACGTcount: A:0.44, C:0.13, G:0.05, T:0.38
Consensus pattern (31 bp):
TATACAATTGAACCACAATCAAAATTTTATA
Found at i:46645454 original size:9 final size:9
Alignment explanation
Indices: 46645436--46645474 Score: 71
Period size: 9 Copynumber: 4.4 Consensus size: 9
46645426 TTAATTTTTT
46645436 AAAA-TTAA
1 AAAATTTAA
46645444 AAAATTTAA
1 AAAATTTAA
46645453 AAAATTTAA
1 AAAATTTAA
46645462 AAAATTTAA
1 AAAATTTAA
46645471 AAAA
1 AAAA
46645475 AAATTATTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
8 4 0.13
9 26 0.87
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (9 bp):
AAAATTTAA
Found at i:46649769 original size:20 final size:21
Alignment explanation
Indices: 46649731--46649771 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
46649721 TGTCCCAACA
46649731 AAACAGTTAGAACTATAAATC
1 AAACAGTTAGAACTATAAATC
*
46649752 AAACAGTTAGTA-TATAAATC
1 AAACAGTTAGAACTATAAATC
46649772 TCTGAAAGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.51, C:0.12, G:0.10, T:0.27
Consensus pattern (21 bp):
AAACAGTTAGAACTATAAATC
Found at i:46650953 original size:121 final size:124
Alignment explanation
Indices: 46650804--46651062 Score: 308
Period size: 124 Copynumber: 2.1 Consensus size: 124
46650794 GGTAAATAGG
* * * * * *
46650804 ATAATTGTCTTGTGCTTTTTATTATCTTCATAAAGATATTT-AAAGGAATGTTCATAAG-T-TAT
1 ATAATTGTTTTGTTCTCTTTATCATCTTCATAAAGACATTTAAAAGGAAAGTTCATAAGCTATAT
* * * *
46650866 ATGTCTTCCAGTGAAAGAGATGAACTTGACCGAGAGAAGAGAAGAAGTCAATAGTTAGA
66 ATATCTTCCAGTGAAAGAGATGAACTTGACCGAGAGAAGAAAAGAAATCAATAATTAGA
* * * *
46650925 ATAATTGTTTTGTTCTCTTTATCGTCTTCATAATGACATTTAAAATGAAAGTTCATTAGCTATAT
1 ATAATTGTTTTGTTCTCTTTATCATCTTCATAAAGACATTTAAAAGGAAAGTTCATAAGCTATAT
* * * * ** *
46650990 ATATCTTCCCGTGGAAGAGATGAAGTTGGCCGAGAGAAGAAAAGAAATTGATAATTAGG
66 ATATCTTCCAGTGAAAGAGATGAACTTGACCGAGAGAAGAAAAGAAATCAATAATTAGA
46651049 ATAATTGTTTTGTT
1 ATAATTGTTTTGTT
46651063 GTCTATGTTC
Statistics
Matches: 114, Mismatches: 21, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
121 34 0.30
122 14 0.12
123 1 0.01
124 65 0.57
ACGTcount: A:0.35, C:0.10, G:0.19, T:0.36
Consensus pattern (124 bp):
ATAATTGTTTTGTTCTCTTTATCATCTTCATAAAGACATTTAAAAGGAAAGTTCATAAGCTATAT
ATATCTTCCAGTGAAAGAGATGAACTTGACCGAGAGAAGAAAAGAAATCAATAATTAGA
Found at i:46653770 original size:20 final size:21
Alignment explanation
Indices: 46653741--46653781 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
46653731 ATTAAACAAG
*
46653741 AAGAAAATAG-TAAGAAAATA
1 AAGAAAATAGATAAAAAAATA
*
46653761 AAGAAGATAGATAAAAAAATA
1 AAGAAAATAGATAAAAAAATA
46653782 TATATGAATG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.71, C:0.00, G:0.15, T:0.15
Consensus pattern (21 bp):
AAGAAAATAGATAAAAAAATA
Found at i:46654078 original size:18 final size:19
Alignment explanation
Indices: 46654055--46654092 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
46654045 AACAAAAATG
46654055 AATGAAT-TG-ATTCTATAT
1 AATGAATATGCATT-TATAT
46654073 AATGAATATGCATTTATAT
1 AATGAATATGCATTTATAT
46654092 A
1 A
46654093 GGCAAATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 7 0.39
19 8 0.44
20 3 0.17
ACGTcount: A:0.42, C:0.05, G:0.11, T:0.42
Consensus pattern (19 bp):
AATGAATATGCATTTATAT
Found at i:46658374 original size:37 final size:37
Alignment explanation
Indices: 46658333--46658408 Score: 143
Period size: 37 Copynumber: 2.1 Consensus size: 37
46658323 ACAATTCTTT
46658333 GGTATTTATAATGCATGGTCTTTTATATGATATGTTA
1 GGTATTTATAATGCATGGTCTTTTATATGATATGTTA
*
46658370 GGTATTTATAATGTATGGTCTTTTATATGATATGTTA
1 GGTATTTATAATGCATGGTCTTTTATATGATATGTTA
46658407 GG
1 GG
46658409 GAATAATTAG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.26, C:0.04, G:0.21, T:0.49
Consensus pattern (37 bp):
GGTATTTATAATGCATGGTCTTTTATATGATATGTTA
Found at i:46658396 original size:17 final size:17
Alignment explanation
Indices: 46658337--46658396 Score: 50
Period size: 17 Copynumber: 3.4 Consensus size: 17
46658327 TTCTTTGGTA
*
46658337 TTTATAATGCATGGTCT
1 TTTATAATGTATGGTCT
* *
46658354 TTTAT-ATGATATGTTAGGT
1 TTTATAATG-TATGGT--CT
46658373 ATTTATAATGTATGGTCT
1 -TTTATAATGTATGGTCT
46658391 TTTATA
1 TTTATA
46658397 TGATATGTTA
Statistics
Matches: 33, Mismatches: 5, Indels: 10
0.69 0.10 0.21
Matches are distributed among these distances:
16 3 0.09
17 15 0.45
18 1 0.03
19 1 0.03
20 10 0.30
21 3 0.09
ACGTcount: A:0.27, C:0.05, G:0.17, T:0.52
Consensus pattern (17 bp):
TTTATAATGTATGGTCT
Found at i:46658404 original size:21 final size:21
Alignment explanation
Indices: 46658347--46658404 Score: 56
Period size: 16 Copynumber: 3.0 Consensus size: 21
46658337 TTTATAATGC
46658347 ATGGTCTTTTATATGATATGT
1 ATGGTCTTTTATATGATATGT
*
46658368 -TAGG--TATT-TAT-A-ATGT
1 AT-GGTCTTTTATATGATATGT
46658384 ATGGTCTTTTATATGATATGT
1 ATGGTCTTTTATATGATATGT
46658405 TAGGGAATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 14
0.64 0.05 0.32
Matches are distributed among these distances:
16 6 0.21
17 2 0.07
18 6 0.21
19 6 0.21
20 2 0.07
21 6 0.21
ACGTcount: A:0.26, C:0.03, G:0.19, T:0.52
Consensus pattern (21 bp):
ATGGTCTTTTATATGATATGT
Found at i:46660413 original size:21 final size:21
Alignment explanation
Indices: 46660387--46660428 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
46660377 AAATACATTG
46660387 ACCAGGATTTTTCTTAATGTA
1 ACCAGGATTTTTCTTAATGTA
46660408 ACCAGGATTTTTCTTAATGTA
1 ACCAGGATTTTTCTTAATGTA
46660429 TCTCACAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.43
Consensus pattern (21 bp):
ACCAGGATTTTTCTTAATGTA
Found at i:46662208 original size:3 final size:3
Alignment explanation
Indices: 46662191--46662240 Score: 50
Period size: 3 Copynumber: 17.3 Consensus size: 3
46662181 AAATGACATT
* * * *
46662191 TTA TTA TT- TTG TTA TTA TTG TTA TTA TTA ATA TTA TTG TTA TTA -TA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
46662237 TTA T
1 TTA T
46662241 GAAATAAATT
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
2 4 0.11
3 34 0.89
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:46662213 original size:9 final size:9
Alignment explanation
Indices: 46662194--46662235 Score: 59
Period size: 9 Copynumber: 4.8 Consensus size: 9
46662184 TGACATTTTA
46662194 TTATT-TTG
1 TTATTATTG
46662202 TTATTATTG
1 TTATTATTG
*
46662211 TTATTATTA
1 TTATTATTG
*
46662220 ATATTATTG
1 TTATTATTG
46662229 TTATTAT
1 TTATTAT
46662236 ATTATGAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
8 5 0.17
9 24 0.83
ACGTcount: A:0.26, C:0.00, G:0.07, T:0.67
Consensus pattern (9 bp):
TTATTATTG
Found at i:46668056 original size:32 final size:32
Alignment explanation
Indices: 46668011--46668087 Score: 111
Period size: 32 Copynumber: 2.4 Consensus size: 32
46668001 TTGCCTCCTA
*
46668011 AACTTGTC-CAAAAGTATCTAGTTGATACCGG
1 AACTTGTCAAAAAAGTATCTAGTTGATACCGG
* * *
46668042 AACTTGTCAAAAAAGTATCTAGTTGGTTCCTG
1 AACTTGTCAAAAAAGTATCTAGTTGATACCGG
46668074 AACTTGTCAAAAAA
1 AACTTGTCAAAAAA
46668088 ATATTATATT
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
31 8 0.20
32 33 0.80
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.30
Consensus pattern (32 bp):
AACTTGTCAAAAAAGTATCTAGTTGATACCGG
Found at i:46669425 original size:27 final size:28
Alignment explanation
Indices: 46669386--46669453 Score: 84
Period size: 28 Copynumber: 2.5 Consensus size: 28
46669376 TAGAGTTTAG
* *
46669386 GGTTAAGGCTTTTTAA-AAATAAATTAA
1 GGTTTAGGGTTTTTAATAAATAAATTAA
** *
46669413 GGTTTAGGGTTTTTAATAAATGTATTAG
1 GGTTTAGGGTTTTTAATAAATAAATTAA
46669441 GGTTTAGGGTTTT
1 GGTTTAGGGTTTT
46669454 AAGATTTTTA
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
27 14 0.40
28 21 0.60
ACGTcount: A:0.31, C:0.01, G:0.24, T:0.44
Consensus pattern (28 bp):
GGTTTAGGGTTTTTAATAAATAAATTAA
Found at i:46669454 original size:27 final size:26
Alignment explanation
Indices: 46669382--46669455 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 26
46669372 GTTTTAGAGT
* *
46669382 TTAGGGTTAAGGCTTTTTAAAAATAAA
1 TTAGGGTTTAGG-GTTTTAAAAATAAA
* **
46669409 TTAAGGTTTAGGGTTTTTAATAAATGTA
1 TTAGGGTTTAGGG-TTTTAA-AAATAAA
46669437 TTAGGGTTTAGGGTTTTAA
1 TTAGGGTTTAGGGTTTTAA
46669456 GATTTTTAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
27 22 0.56
28 17 0.44
ACGTcount: A:0.32, C:0.01, G:0.23, T:0.43
Consensus pattern (26 bp):
TTAGGGTTTAGGGTTTTAAAAATAAA
Found at i:46669543 original size:28 final size:28
Alignment explanation
Indices: 46669477--46669545 Score: 68
Period size: 28 Copynumber: 2.4 Consensus size: 28
46669467 TTGTAAGTTT
* *
46669477 TGTTCTGGAAAAAATAAATTTAGGGTTTAG
1 TGTTCT-G-AAAAATAAATTTAGGCTTGAG
* *
46669507 GGTTATGAAAAATAAATTT-GGCTTGATG
1 TGTTCTGAAAAATAAATTTAGGCTTGA-G
46669535 TGTTCTGAAAA
1 TGTTCTGAAAA
46669546 GATTATTTTT
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
27 5 0.16
28 22 0.69
29 1 0.03
30 4 0.12
ACGTcount: A:0.36, C:0.04, G:0.23, T:0.36
Consensus pattern (28 bp):
TGTTCTGAAAAATAAATTTAGGCTTGAG
Found at i:46669774 original size:156 final size:156
Alignment explanation
Indices: 46669611--46669911 Score: 469
Period size: 156 Copynumber: 1.9 Consensus size: 156
46669601 CTTCTAGCTG
* *
46669611 GACGCTTTTTTTGTGCAATTGATTCTGAAAAAATAATTT-TAAGAAGATGGTTCTGAAAAAATAT
1 GACGCTTTTTTTGTACAATTGATTCTGAAAAAATAATTTCGAA-AAGATGGTTCTGAAAAAATAT
* *
46669675 CTCGAAATTCACGGGAAATCTGATAGTTAGGGATGAAAAACGCTTTAAGCAGGATACACTGTCAG
65 CTCGAAATTCACGGGAAATCTGATAGTTAGGGATGAAAAACACTTCAAGCAGGATACACTGTCAG
46669740 CAAAAGTACTGAAAAAGCTCCCAGTTT
130 CAAAAGTACTGAAAAAGCTCCCAGTTT
*
46669767 GACGCTTTTTTTGTACAGTTGATTCTGAAAAAATAATTTCGAAAAGATGGTTCTGAAAAAATATC
1 GACGCTTTTTTTGTACAATTGATTCTGAAAAAATAATTTCGAAAAGATGGTTCTGAAAAAATATC
** * * * * *
46669832 TCGGGATTCATGGGAAATCTGATAGTTGGGGTTGAAAAACACTTCAAGTAGGATGCACTGTCAGC
66 TCGAAATTCACGGGAAATCTGATAGTTAGGGATGAAAAACACTTCAAGCAGGATACACTGTCAGC
*
46669897 AAATGTACTGAAAAA
131 AAAAGTACTGAAAAA
46669912 AAAGCTCCTA
Statistics
Matches: 131, Mismatches: 13, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
156 129 0.98
157 2 0.02
ACGTcount: A:0.37, C:0.13, G:0.21, T:0.29
Consensus pattern (156 bp):
GACGCTTTTTTTGTACAATTGATTCTGAAAAAATAATTTCGAAAAGATGGTTCTGAAAAAATATC
TCGAAATTCACGGGAAATCTGATAGTTAGGGATGAAAAACACTTCAAGCAGGATACACTGTCAGC
AAAAGTACTGAAAAAGCTCCCAGTTT
Found at i:46682166 original size:21 final size:21
Alignment explanation
Indices: 46682127--46682167 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
46682117 CTAGGCAAAA
* **
46682127 AGTCCAATTTATTTTATTCTT
1 AGTCAAATTTATTAAATTCTT
46682148 AGTCAAATTTATTAAATTCT
1 AGTCAAATTTATTAAATTCT
46682168 CATTTGGAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.32, C:0.12, G:0.05, T:0.51
Consensus pattern (21 bp):
AGTCAAATTTATTAAATTCTT
Found at i:46682228 original size:15 final size:15
Alignment explanation
Indices: 46682205--46682234 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
46682195 TTTTATAGAA
*
46682205 AATATTATGAATAAT
1 AATAATATGAATAAT
46682220 AATAATATGAATAAT
1 AATAATATGAATAAT
46682235 CAAAGACAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.37
Consensus pattern (15 bp):
AATAATATGAATAAT
Found at i:46689269 original size:43 final size:43
Alignment explanation
Indices: 46689208--46689295 Score: 167
Period size: 43 Copynumber: 2.0 Consensus size: 43
46689198 TTTCAAAAGG
46689208 TTACAAGGAAAAAGGCTTATTTTCCGTTGACCTGTAAGCCATT
1 TTACAAGGAAAAAGGCTTATTTTCCGTTGACCTGTAAGCCATT
*
46689251 TTACAAGGAAAAAGGCTTATTTTCCGTTGACCTGTAAGTCATT
1 TTACAAGGAAAAAGGCTTATTTTCCGTTGACCTGTAAGCCATT
46689294 TT
1 TT
46689296 CCGTTCACCA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.35
Consensus pattern (43 bp):
TTACAAGGAAAAAGGCTTATTTTCCGTTGACCTGTAAGCCATT
Found at i:46692692 original size:46 final size:46
Alignment explanation
Indices: 46692613--46693005 Score: 564
Period size: 46 Copynumber: 8.8 Consensus size: 46
46692603 TACGTATGAT
* *
46692613 CACTTATCAC-TTGTC-CCTAATCAGATAAGTGTAGCTAAGACTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGACTAC
* *
46692657 CACTTATCACTTTGTCACTTGATCAGATAAATGTAGCTAAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGACTAC
*
46692703 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGACTAC
*
46692749 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAA-AGCTAA
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGA-CTAC
*
46692795 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAA-AGTTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGA-CTAC
46692841 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAA-AGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGA-CTAC
*
46692887 CACTTATCACTTTGTCTCTTGATCAGATAA--GT-G-T-AG--T--
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGACTAC
*
46692924 -ACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAACTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGACTAC
*
46692969 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGC
46693006 ACTTATCACT
Statistics
Matches: 321, Mismatches: 14, Indels: 26
0.89 0.04 0.07
Matches are distributed among these distances:
36 28 0.09
38 2 0.01
39 2 0.01
40 1 0.00
41 2 0.01
42 1 0.00
43 2 0.01
44 12 0.04
45 5 0.02
46 266 0.83
ACGTcount: A:0.30, C:0.21, G:0.15, T:0.34
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGACTAC
Found at i:46692928 original size:36 final size:36
Alignment explanation
Indices: 46692888--46693025 Score: 159
Period size: 36 Copynumber: 3.6 Consensus size: 36
46692878 TAAAGCTACC
*
46692888 ACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGT
1 ACTTATCACTTTGTCACTTGATCAGATAAGTGTAGT
46692924 ACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAACT
1 ACTTATCACTTTGTCACTTGATCAGATAAGTGTAG-------T
* *
46692967 ACCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 ---ACTTATCACTTTGTCACTTGATCAGATAAGTGTAGT
46693006 ACTTATCACTTTGTCACTTG
1 ACTTATCACTTTGTCACTTG
46693026 GTGTAGCTAA
Statistics
Matches: 88, Mismatches: 4, Indels: 20
0.79 0.04 0.18
Matches are distributed among these distances:
36 53 0.60
43 1 0.01
46 34 0.39
ACGTcount: A:0.27, C:0.20, G:0.14, T:0.38
Consensus pattern (36 bp):
ACTTATCACTTTGTCACTTGATCAGATAAGTGTAGT
Found at i:46692935 original size:82 final size:82
Alignment explanation
Indices: 46692841--46693066 Score: 362
Period size: 82 Copynumber: 2.9 Consensus size: 82
46692831 CTAAAGTTAC
46692841 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
46692906 TGATCAGATAAGTGTAG
66 TGATCAGATAAGTGTAG
* *
46692923 TACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAACTACCACTTATCACTTTGTCTCT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
46692988 TGATCAGATAAGTGTAG
66 TGATCAGATAAGTGTAG
*
46693005 CACTTATCACTTTGTCAC-T--T--G----GTGTAGCTAAAGCTACCACTTATCACTTTATCTCT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
46693061 TGATCA
66 TGATCA
46693067 AAAGTACTCA
Statistics
Matches: 139, Mismatches: 5, Indels: 9
0.91 0.03 0.06
Matches are distributed among these distances:
73 39 0.28
77 1 0.01
79 1 0.01
81 1 0.01
82 97 0.70
ACGTcount: A:0.27, C:0.22, G:0.14, T:0.37
Consensus pattern (82 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
TGATCAGATAAGTGTAG
Found at i:46696887 original size:110 final size:110
Alignment explanation
Indices: 46696615--46696942 Score: 566
Period size: 110 Copynumber: 3.0 Consensus size: 110
46696605 GAAATTCAAG
* * * * * *
46696615 AGGATATTTGGCTATTCGGTTAAATGAGAAAAATCGACACCCAGCACCTTAAGGCACATTTTCTC
1 AGGATATTTAGCCATTTGGTTGAATGAGAAAAATCGACACCCAGCACCTTAGGGCACGTTTTCTC
46696680 GAATTTCCCAAACGCAAAACATTGCCTTATTTGAAAATTTTTTAAA
66 GAATTTCCCAAACGCAAAACATTGCCTTATTTGAAAA-TTTTTAAA
46696726 AGGATATTTAGCCATTTGGTTGAATGAGAAAAATCGACACCCAGCACCTTAGGGCACGTTTTCTC
1 AGGATATTTAGCCATTTGGTTGAATGAGAAAAATCGACACCCAGCACCTTAGGGCACGTTTTCTC
*
46696791 GAATTTCCCAAACGCAAAACATTGCATTATTTGAAAATTTTTAAA
66 GAATTTCCCAAACGCAAAACATTGCCTTATTTGAAAATTTTTAAA
*
46696836 AGGATATTTAGCCATTTGGTTGAATGAGAAAAATCGACACCCACCACCTTAGGGCACGTTTTCTC
1 AGGATATTTAGCCATTTGGTTGAATGAGAAAAATCGACACCCAGCACCTTAGGGCACGTTTTCTC
*
46696901 GAATTTCCCAAACGCAAAACATTGCCTTATTTGAAAAATTTT
66 GAATTTCCCAAACGCAAAACATTGCCTTATTTGAAAATTTTT
46696943 GTTTTTGATA
Statistics
Matches: 207, Mismatches: 10, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
110 112 0.54
111 95 0.46
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.30
Consensus pattern (110 bp):
AGGATATTTAGCCATTTGGTTGAATGAGAAAAATCGACACCCAGCACCTTAGGGCACGTTTTCTC
GAATTTCCCAAACGCAAAACATTGCCTTATTTGAAAATTTTTAAA
Found at i:46697081 original size:18 final size:17
Alignment explanation
Indices: 46697050--46697085 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
46697040 ATATATAATG
*
46697050 AAAAGAAATCAACAAAT
1 AAAAGAAATAAACAAAT
46697067 AAAAGTAAATAAACAAAT
1 AAAAG-AAATAAACAAAT
46697085 A
1 A
46697086 TAAAATTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.72, C:0.08, G:0.06, T:0.14
Consensus pattern (17 bp):
AAAAGAAATAAACAAAT
Found at i:46697420 original size:20 final size:19
Alignment explanation
Indices: 46697397--46697441 Score: 65
Period size: 18 Copynumber: 2.4 Consensus size: 19
46697387 TGTGTGTAAG
*
46697397 TATATAAAAAAATATGTATA
1 TATATAAAAAAA-ACGTATA
46697417 TATAT-AAAAAAACGTATA
1 TATATAAAAAAAACGTATA
46697435 TATATAA
1 TATATAA
46697442 GGGCAATTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 11 0.48
19 7 0.30
20 5 0.22
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.33
Consensus pattern (19 bp):
TATATAAAAAAAACGTATA
Found at i:46698614 original size:21 final size:22
Alignment explanation
Indices: 46698577--46698617 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
46698567 TTTAGGCTAG
46698577 TTGGGTCTGGTTCTGTTTGGAT
1 TTGGGTCTGGTTCTGTTTGGAT
*
46698599 TTGGGT-TGGTTGTGTTTGG
1 TTGGGTCTGGTTCTGTTTGG
46698618 GTAGCTGAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.02, C:0.05, G:0.41, T:0.51
Consensus pattern (22 bp):
TTGGGTCTGGTTCTGTTTGGAT
Found at i:46709324 original size:3 final size:3
Alignment explanation
Indices: 46709316--46709348 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
46709306 TAAAAATATT
46709316 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
46709349 TTAGCAATAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:46711406 original size:132 final size:132
Alignment explanation
Indices: 46711248--46711943 Score: 883
Period size: 132 Copynumber: 5.3 Consensus size: 132
46711238 TAAGATCCAT
* *
46711248 GATCTGCTCCACTACTGCTTAGGGAGACAGTATCTACATTCTTCAACCTACTCCACTGCTGCTCA
1 GATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTACTCCACTGCTGCTCA
** * * * * *
46711313 GGGAGATAGGACCGGTGGCTTAAATCTGCTTCACTACTATCTTAGGAAGATAAGATTTGCCATCC
66 GGGAGATAGGACCAATGGCTTAAATCTGCTTCTCCACTATCTTGGGAAGATAAGATTCGCCATCT
46711378 TC
131 TC
* * * *
46711380 GACCTGCTCCTCTACTACTTAGGGAGACAGGATCTACAATCTTCAACCTACTCCACTGCTGTTCA
1 GATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTACTCCACTGCTGCTCA
* ** * * *
46711445 GGGAAATAGG---AGGGGCTTAAATTTTCTTC-CCTACTACCTTGGGAAGATAAGA-T--CCA--
66 GGGAGATAGGACCAATGGCTTAAATCTGCTTCTCC-ACTATCTTGGGAAGATAAGATTCGCCATC
46711501 -T-
130 TTC
* * * * *
46711502 GATCTGCTCCACTACTGCTTAGGGAGACAGTATTTACATTCTTCAACCTACTCTACTACTGCTCA
1 GATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTACTCCACTGCTGCTCA
* * *
46711567 AGGAGATAGGACCAATGGCTTAAATCTGCTTCTCCACTATCTTGGGAAAATAAGATTCGCCGTCT
66 GGGAGATAGGACCAATGGCTTAAATCTGCTTCTCCACTATCTTGGGAAGATAAGATTCGCCATCT
46711632 TC
131 TC
* **
46711634 GATCTGCTCCTCTACTGCTTAGGGAGACAGGATCTGTAATCTTCAACCTACTCCACTGCTGCTCA
1 GATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTACTCCACTGCTGCTCA
* * ** *
46711699 GGGAGATAGGACTAATGGCTTAAATCTACTTCTCCACTATCTTGGGAAGATAAGATTCATCATTT
66 GGGAGATAGGACCAATGGCTTAAATCTGCTTCTCCACTATCTTGGGAAGATAAGATTCGCCATCT
46711764 TC
131 TC
* * * *
46711766 GATCTGCTCCGCTACTGCTTAGGGAGACAGGATCTGCAATCTTTAACCTACTCCACTGCTACTCA
1 GATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTACTCCACTGCTGCTCA
* * * *
46711831 AGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACTATTTTGGGAAGATAAGATTCGCCGTCT
66 GGGAGATAGGACCAATGGCTTAAATCTGCTTCTCCACTATCTTGGGAAGATAAGATTCGCCATCT
46711896 TC
131 TC
* * * *
46711898 GATCTGCTCCGCTACTGATTAGGGAGACAAGATCTGCAATCTTCAA
1 GATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAA
46711944 TGGTCTATTC
Statistics
Matches: 490, Mismatches: 62, Indels: 24
0.85 0.11 0.04
Matches are distributed among these distances:
122 64 0.13
123 1 0.00
125 33 0.07
126 6 0.01
128 4 0.01
129 33 0.07
131 1 0.00
132 348 0.71
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.29
Consensus pattern (132 bp):
GATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTACTCCACTGCTGCTCA
GGGAGATAGGACCAATGGCTTAAATCTGCTTCTCCACTATCTTGGGAAGATAAGATTCGCCATCT
TC
Found at i:46711677 original size:254 final size:255
Alignment explanation
Indices: 46711219--46711943 Score: 1013
Period size: 254 Copynumber: 2.8 Consensus size: 255
46711209 GGTGCTTCGA
*
46711219 TCCACTCCACTTGGGAAGATAAGATCCATGATCTGCTCCACTACTGCTTAGGGAGACAGTATCTA
1 TCCACTAC-CTTGGGAAGATAAGATCCATGATCTGCTCCACTACTGCTTAGGGAGACAGTATCTA
* ** * *
46711284 CATTCTTCAACCTACTCCACTGCTGCTCAGGGAGATAGGACCGGTGGCTTAAATCTGCTTCACTA
65 CATTCTTCAACCTACTCCACTGCTGCTCAAGGAGATAGGACCAATGGCTTAAATCTGCTTCTCCA
* * * * * *
46711349 CTATCTTAGGAAGATAAGATTTGCCATCCTCGACCTGCTCCTCTACTACTTAGGGAGACAGGATC
130 CTATCTTGGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCTCTACTGCTTAGGGAGACAGGATC
* * * * *
46711414 TACAATCTTCAACCTACTCCACTGCTGTTCAGGGAAATAGG-AGGGGCTTAAATTTTCTTC
195 TGCAATCTTCAACCTACTCCACTGCTGCTCAGGGAAATAGGAAAGGGCTTAAATCTACTTC
*
46711474 -CCTACTACCTTGGGAAGATAAGATCCATGATCTGCTCCACTACTGCTTAGGGAGACAGTATTTA
1 TCC-ACTACCTTGGGAAGATAAGATCCATGATCTGCTCCACTACTGCTTAGGGAGACAGTATCTA
* *
46711538 CATTCTTCAACCTACTCTACTACTGCTCAAGGAGATAGGACCAATGGCTTAAATCTGCTTCTCCA
65 CATTCTTCAACCTACTCCACTGCTGCTCAAGGAGATAGGACCAATGGCTTAAATCTGCTTCTCCA
*
46711603 CTATCTTGGGAAAATAAGATTCGCCGTCTTCGATCTGCTCCTCTACTGCTTAGGGAGACAGGATC
130 CTATCTTGGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCTCTACTGCTTAGGGAGACAGGATC
* * *
46711668 TGTAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAGGACTAATGGCTTAAATCTACTTC
195 TGCAATCTTCAACCTACTCCACTGCTGCTCAGGGAAATAGGA--AAGGGCTTAAATCTACTTC
* *
46711731 TCCACTATCTTGGGAAGATAAGATTCATCATTTTCGATCTGCTCCGCTACTGCTTAGGGAGACAG
1 TCCACTACCTTGGGAAGATAAGA-TC--CA---T-GATCTGCTCCACTACTGCTTAGGGAGACAG
* * * * * *
46711796 GATCTGCAATCTTTAACCTACTCCACTGCTACTCAAGGAGATAGGACTAATGGCTTAAATCTGCT
59 TATCTACATTCTTCAACCTACTCCACTGCTGCTCAAGGAGATAGGACCAATGGCTTAAATCTGCT
* * *
46711861 TCTCCACTATTTTGGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTACTGATTAGGGAGAC
124 TCTCCACTATCTTGGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCTCTACTGCTTAGGGAGAC
*
46711926 AAGATCTGCAATCTTCAA
189 AGGATCTGCAATCTTCAA
46711944 TGGTCTATTC
Statistics
Matches: 417, Mismatches: 41, Indels: 15
0.88 0.09 0.03
Matches are distributed among these distances:
254 210 0.50
255 4 0.01
257 34 0.08
258 4 0.01
260 2 0.00
263 1 0.00
264 162 0.39
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.29
Consensus pattern (255 bp):
TCCACTACCTTGGGAAGATAAGATCCATGATCTGCTCCACTACTGCTTAGGGAGACAGTATCTAC
ATTCTTCAACCTACTCCACTGCTGCTCAAGGAGATAGGACCAATGGCTTAAATCTGCTTCTCCAC
TATCTTGGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCTCTACTGCTTAGGGAGACAGGATCT
GCAATCTTCAACCTACTCCACTGCTGCTCAGGGAAATAGGAAAGGGCTTAAATCTACTTC
Done.