Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D02
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: 67659327
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 461372 characters in sequence are not A, C, G, or T
File 47 of 216
Found at i:13508198 original size:71 final size:72
Alignment explanation
Indices: 13508110--13508275 Score: 271
Period size: 71 Copynumber: 2.3 Consensus size: 72
13508100 GCTAAGCTAC
* *
13508110 CACTTATCACTTATCACTTATCACTTGTCACTGATCAGATAAGTGTAGCT-AAGCTACTACTTAT
1 CACTTGTCACTTATCACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTAT
13508174 CACTTAT
66 CACTTAT
*
13508181 CACTTGTCACTTATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTAT
1 CACTTGTCACTTATCACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTAT
*
13508246 CACTTGT
66 CACTTAT
* *
13508253 CACTTGTCACTTGTCACTGATCA
1 CACTTGTCACTTATCACTTATCA
13508276 GATAAGTGCA
Statistics
Matches: 87, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
71 48 0.55
72 39 0.45
ACGTcount: A:0.27, C:0.25, G:0.12, T:0.36
Consensus pattern (72 bp):
CACTTGTCACTTATCACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTAT
CACTTAT
Found at i:13508255 original size:7 final size:7
Alignment explanation
Indices: 13508239--13508270 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
13508229 CTAAAGCTAC
*
13508239 CACTTAT
1 CACTTGT
13508246 CACTTGT
1 CACTTGT
13508253 CACTTGT
1 CACTTGT
13508260 CACTTGT
1 CACTTGT
13508267 CACT
1 CACT
13508271 GATCAGATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.19, C:0.31, G:0.09, T:0.41
Consensus pattern (7 bp):
CACTTGT
Found at i:13508262 original size:14 final size:14
Alignment explanation
Indices: 13508239--13508275 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
13508229 CTAAAGCTAC
13508239 CACTTATCACTTGT
1 CACTTATCACTTGT
*
13508253 CACTTGTCACTTGT
1 CACTTATCACTTGT
*
13508267 CACTGATCA
1 CACTTATCA
13508276 GATAAGTGCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.22, C:0.30, G:0.11, T:0.38
Consensus pattern (14 bp):
CACTTATCACTTGT
Found at i:13508271 original size:58 final size:58
Alignment explanation
Indices: 13508181--13508314 Score: 241
Period size: 58 Copynumber: 2.3 Consensus size: 58
13508171 TATCACTTAT
* * *
13508181 CACTTGTCACTTATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTGTCACTTGTCACTTGTCACTGATCAGATAAGTGCAGCTAAAGCTAC
13508239 CACTTATCACTTGTCACTTGTCACTTGTCACTGATCAGATAAGTGCAGCTAAAGCTAC
1 CACTTATCACTTGTCACTTGTCACTTGTCACTGATCAGATAAGTGCAGCTAAAGCTAC
13508297 CACTTATCACTTGTCACT
1 CACTTATCACTTGTCACT
13508315 GATCAGAAGT
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
58 73 1.00
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.33
Consensus pattern (58 bp):
CACTTATCACTTGTCACTTGTCACTTGTCACTGATCAGATAAGTGCAGCTAAAGCTAC
Found at i:13511578 original size:21 final size:21
Alignment explanation
Indices: 13511539--13511576 Score: 62
Period size: 19 Copynumber: 1.9 Consensus size: 21
13511529 ATGTGTTTTT
13511539 ATTTATTTATATATATTTTAA
1 ATTTATTTATATATATTTTAA
13511560 ATTTA-TTAT-TATATTTT
1 ATTTATTTATATATATTTT
13511577 TTTGAAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 8 0.47
20 4 0.24
21 5 0.29
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (21 bp):
ATTTATTTATATATATTTTAA
Found at i:13514595 original size:18 final size:20
Alignment explanation
Indices: 13514572--13514608 Score: 60
Period size: 18 Copynumber: 1.9 Consensus size: 20
13514562 TTATTTAAAA
13514572 ATTATTGT-T-GTTTGTGTG
1 ATTATTGTATAGTTTGTGTG
13514590 ATTATTGTATAGTTTGTGT
1 ATTATTGTATAGTTTGTGT
13514609 TTGTGTTCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 8 0.47
19 1 0.06
20 8 0.47
ACGTcount: A:0.16, C:0.00, G:0.24, T:0.59
Consensus pattern (20 bp):
ATTATTGTATAGTTTGTGTG
Found at i:13518251 original size:50 final size:50
Alignment explanation
Indices: 13518172--13518365 Score: 253
Period size: 50 Copynumber: 3.9 Consensus size: 50
13518162 CATTTGGGTA
*
13518172 GAGAGGTCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCACCGAGAT
1 GAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
* *
13518222 GAGAGGTCCCATGTAAGACCATGTCTGGGACATGGTGTTGGCAACGAGAT
1 GAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
*** * * *
13518272 GAGAGGTCCCCCATAAGACCATGTCTGGGACATGGCATGGGCACCGATAT
1 GAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
** * * *
13518322 GAGAACATCCCATGTAAGACCATGTCTAGGACATCGCTTTGGCA
1 GAG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA
13518366 TGTTATGATT
Statistics
Matches: 123, Mismatches: 20, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
50 92 0.75
51 31 0.25
ACGTcount: A:0.26, C:0.22, G:0.30, T:0.21
Consensus pattern (50 bp):
GAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
Found at i:13524393 original size:17 final size:17
Alignment explanation
Indices: 13524336--13524394 Score: 57
Period size: 17 Copynumber: 3.4 Consensus size: 17
13524326 ATATTAAAAA
* *
13524336 ATATTTTAAATATTTTT
1 ATATTTTTAATTTTTTT
* *
13524353 ATACTTTTTTA-TATTTT
1 ATA-TTTTTAATTTTTTT
13524370 ATAATTTTTAATTTTTTT
1 AT-ATTTTTAATTTTTTT
13524388 ATATTTT
1 ATATTTT
13524395 AAAAAATTAA
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
17 20 0.61
18 13 0.39
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (17 bp):
ATATTTTTAATTTTTTT
Found at i:13525412 original size:21 final size:19
Alignment explanation
Indices: 13525370--13525407 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
13525360 AATAGAATCG
*
13525370 TATCATATCTAAGATTACA
1 TATCATATATAAGATTACA
13525389 TATCATATATAAGATTACA
1 TATCATATATAAGATTACA
13525408 CATATTTGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.45, C:0.13, G:0.05, T:0.37
Consensus pattern (19 bp):
TATCATATATAAGATTACA
Found at i:13528680 original size:30 final size:29
Alignment explanation
Indices: 13528622--13528709 Score: 101
Period size: 29 Copynumber: 3.1 Consensus size: 29
13528612 CGAATATAAT
* *
13528622 AAATATATATTTTTTATTTTTTAATTTTA
1 AAATAAATTTTTTTTATTTTTTAATTTTA
*
13528651 AAATAAATTTTTTTTATTTTTCTATTTTTA
1 AAATAAATTTTTTTTATTTTT-TAATTTTA
* *
13528681 AAAT-AA-TTTTTTTAATGTTT-ATTTTA
1 AAATAAATTTTTTTTATTTTTTAATTTTA
13528707 AAA
1 AAA
13528710 ATGGGCCGGG
Statistics
Matches: 52, Mismatches: 6, Indels: 5
0.83 0.10 0.08
Matches are distributed among these distances:
26 8 0.15
27 1 0.02
28 11 0.21
29 21 0.40
30 11 0.21
ACGTcount: A:0.35, C:0.01, G:0.01, T:0.62
Consensus pattern (29 bp):
AAATAAATTTTTTTTATTTTTTAATTTTA
Found at i:13529223 original size:13 final size:13
Alignment explanation
Indices: 13529205--13529229 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13529195 TAGATTAGAT
13529205 TTGATTATGTAAA
1 TTGATTATGTAAA
13529218 TTGATTATGTAA
1 TTGATTATGTAA
13529230 TCTTGTAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.48
Consensus pattern (13 bp):
TTGATTATGTAAA
Found at i:13530543 original size:21 final size:22
Alignment explanation
Indices: 13530519--13530559 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
13530509 ATTTTATTGT
*
13530519 AATT-ATTTTAATTAATTATAC
1 AATTAATTTAAATTAATTATAC
*
13530540 AATTAATTTAAATTATTTAT
1 AATTAATTTAAATTAATTAT
13530560 TAGATACAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (22 bp):
AATTAATTTAAATTAATTATAC
Found at i:13540119 original size:18 final size:18
Alignment explanation
Indices: 13540096--13540131 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
13540086 AAGCAAAAAA
*
13540096 AAAATGTTAATGCACATG
1 AAAATGCTAATGCACATG
13540114 AAAATGCTAATGCACATG
1 AAAATGCTAATGCACATG
13540132 CAATCTAGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.44, C:0.14, G:0.17, T:0.25
Consensus pattern (18 bp):
AAAATGCTAATGCACATG
Found at i:13550365 original size:18 final size:19
Alignment explanation
Indices: 13550344--13550388 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
13550334 AAGGTGAAAA
*
13550344 AGAAAAAGAAAAG-AAGTC
1 AGAAAAAGAAAAGAAAGGC
13550362 AGAAAAA-AAAAGAAAGGC
1 AGAAAAAGAAAAGAAAGGC
13550380 A-AAAAAGAA
1 AGAAAAAGAA
13550389 TTGAAAATGA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
17 10 0.42
18 14 0.58
ACGTcount: A:0.73, C:0.04, G:0.20, T:0.02
Consensus pattern (19 bp):
AGAAAAAGAAAAGAAAGGC
Found at i:13555319 original size:12 final size:11
Alignment explanation
Indices: 13555300--13555335 Score: 54
Period size: 12 Copynumber: 3.1 Consensus size: 11
13555290 TGGCCGTGCA
13555300 TTTTCTTTCTT
1 TTTTCTTTCTT
13555311 TTCTTCTTTCTCT
1 TT-TTCTTTCT-T
13555324 TTTTCTTTCTT
1 TTTTCTTTCTT
13555335 T
1 T
13555336 CTTTTCTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 4 0.17
12 16 0.70
13 3 0.13
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (11 bp):
TTTTCTTTCTT
Found at i:13555359 original size:28 final size:28
Alignment explanation
Indices: 13555301--13555359 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 28
13555291 GGCCGTGCAT
* **
13555301 TTTCTTTCTTTTCTTCTTTCTCTTTTTC
1 TTTCTTTCTTTTCTTATTTCTCTTTGGC
*
13555329 TTTCTTTCTTTTCTTAATTT-TGTTTGGC
1 TTTCTTTCTTTTCTT-ATTTCTCTTTGGC
13555357 TTT
1 TTT
13555360 ATCTATTTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 23 0.88
29 3 0.12
ACGTcount: A:0.03, C:0.19, G:0.05, T:0.73
Consensus pattern (28 bp):
TTTCTTTCTTTTCTTATTTCTCTTTGGC
Found at i:13560527 original size:22 final size:21
Alignment explanation
Indices: 13560495--13560537 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
13560485 AAAAAATTAA
*
13560495 AAATATAAAAAGAATGAAAAAT
1 AAATATAAAAAAAAT-AAAAAT
*
13560517 AAATATTAAAAAAATAAAAAT
1 AAATATAAAAAAAATAAAAAT
13560538 GATAAAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (21 bp):
AAATATAAAAAAAATAAAAAT
Found at i:13560544 original size:17 final size:15
Alignment explanation
Indices: 13560486--13560537 Score: 52
Period size: 15 Copynumber: 3.4 Consensus size: 15
13560476 ATTTATTAAA
*
13560486 AAAAATTAAAAATAT
1 AAAAATTAAAAAAAT
*
13560501 AAAAA-GAATGAAAAAT
1 AAAAATTAA--AAAAAT
*
13560517 AAATATTAAAAAAAT
1 AAAAATTAAAAAAAT
13560532 AAAAAT
1 AAAAAT
13560538 GATAAAATTT
Statistics
Matches: 29, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
14 2 0.07
15 16 0.55
16 9 0.31
17 2 0.07
ACGTcount: A:0.75, C:0.00, G:0.04, T:0.21
Consensus pattern (15 bp):
AAAAATTAAAAAAAT
Found at i:13560665 original size:25 final size:26
Alignment explanation
Indices: 13560636--13560684 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
13560626 TTCATTTTGG
13560636 ATATAATT-TTAAAATTATAAAAAAT
1 ATATAATTATTAAAATTATAAAAAAT
* *
13560661 ATATATTTATTAAAATTGTAAAAA
1 ATATAATTATTAAAATTATAAAAA
13560685 TATTATGAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 7 0.33
26 14 0.67
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (26 bp):
ATATAATTATTAAAATTATAAAAAAT
Found at i:13562119 original size:22 final size:21
Alignment explanation
Indices: 13562088--13562133 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 21
13562078 AATTTTTAAA
13562088 TATTTTTATTCTTT-TAAATTT
1 TATTTTTATT-TTTATAAATTT
*
13562109 TATTTCTTATTTTTATAAGTTT
1 TATTT-TTATTTTTATAAATTT
13562131 TAT
1 TAT
13562134 AATACGTTAC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 8 0.36
22 14 0.64
ACGTcount: A:0.24, C:0.04, G:0.02, T:0.70
Consensus pattern (21 bp):
TATTTTTATTTTTATAAATTT
Found at i:13568215 original size:45 final size:45
Alignment explanation
Indices: 13568166--13568255 Score: 180
Period size: 45 Copynumber: 2.0 Consensus size: 45
13568156 AATGCACAGG
13568166 GATGAGCTATTACTTTACCAACTTTGTCTAAAAGAAAATTTTATT
1 GATGAGCTATTACTTTACCAACTTTGTCTAAAAGAAAATTTTATT
13568211 GATGAGCTATTACTTTACCAACTTTGTCTAAAAGAAAATTTTATT
1 GATGAGCTATTACTTTACCAACTTTGTCTAAAAGAAAATTTTATT
13568256 CTTTAGTAAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.36, C:0.13, G:0.11, T:0.40
Consensus pattern (45 bp):
GATGAGCTATTACTTTACCAACTTTGTCTAAAAGAAAATTTTATT
Found at i:13571961 original size:770 final size:770
Alignment explanation
Indices: 13570482--13572023 Score: 3057
Period size: 770 Copynumber: 2.0 Consensus size: 770
13570472 TCGGCCCCTC
13570482 TACTGAAGAAATGGGCAAATTAGCCCTTATATATTTCGAAACTTACAAATTAGCCCATCTATTAA
1 TACTGAAGAAATGGGCAAATTAGCCCTTATATATTTCGAAACTTACAAATTAGCCCATCTATTAA
13570547 ATTTTATTTGTTAAATAACGACATGCATCGATAAATCATGCTGAAAATTATTTTCTTTATGGATA
66 ATTTTATTTGTTAAATAACGACATGCATCGATAAATCATGCTGAAAATTATTTTCTTTATGGATA
13570612 AACTATAAAAATGGTTATCCAACTATGCCTTTCATTCTATTTTGGTCACCCAATTATTATTTTTT
131 AACTATAAAAATGGTTATCCAACTATGCCTTTCATTCTATTTTGGTCACCCAATTATTATTTTTT
13570677 TCATTTTAGTCACTAAAATTTTCGAAATTAAATATGTTAACCACTCTAAGCTGATGTGAGCCTTT
196 TCATTTTAGTCACTAAAATTTTCGAAATTAAATATGTTAACCACTCTAAGCTGATGTGAGCCTTT
13570742 TTTTATTCCTCTAGTAACAAAATTAGCCCTCTAATATTTGCACATTCTATCATTTTGATGCTAAA
261 TTTTATTCCTCTAGTAACAAAATTAGCCCTCTAATATTTGCACATTCTATCATTTTGATGCTAAA
13570807 TATAAAAAACTCAACAAATTTAGCCTTCAATGTTTGCAAAATTTGTCATTTTAGTTCTAATTCTA
326 TATAAAAAACTCAACAAATTTAGCCTTCAATGTTTGCAAAATTTGTCATTTTAGTTCTAATTCTA
13570872 AAAAATCCAATGAATTTGGCCCTCAAAATCTAAAACATCTATATCAATTTAGTCCTAACCCTCAA
391 AAAAATCCAATGAATTTGGCCCTCAAAATCTAAAACATCTATATCAATTTAGTCCTAACCCTCAA
13570937 AATTAAAAAATATTTTTTTAAAAGTCAGTTTTAGCCCTTTATAACCCATCGACTAACCCTTGTGA
456 AATTAAAAAATATTTTTTTAAAAGTCAGTTTTAGCCCTTTATAACCCATCGACTAACCCTTGTGA
13571002 GATGTTAAAATAAGAAAAAGAGTACCCTCTTTCGAGTCACTTGCAAAATAACTCTAAAAAGATAG
521 GATGTTAAAATAAGAAAAAGAGTACCCTCTTTCGAGTCACTTGCAAAATAACTCTAAAAAGATAG
13571067 GATAAAACACATAAAAATTTAAGATCCAAAAGAAAATGAAGGCATTAAAAATGTTATTTGTCCGG
586 GATAAAACACATAAAAATTTAAGATCCAAAAGAAAATGAAGGCATTAAAAATGTTATTTGTCCGG
13571132 GAAGTAATGCAACCAATTATTCCATATAGGTTCTAAATCAATTGATTTGGTCCAGTATAAAGCCT
651 GAAGTAATGCAACCAATTATTCCATATAGGTTCTAAATCAATTGATTTGGTCCAGTATAAAGCCT
13571197 AAATTATAGTAAAAGAAATTGATGCGAGTGACTTGAAAGAGGGTACATTTTTTCT
716 AAATTATAGTAAAAGAAATTGATGCGAGTGACTTGAAAGAGGGTACATTTTTTCT
13571252 TACTGAAGAAATGGGCAAATTAGCCCTTATATATTTCGAAACTTACAAATTAGCCCATCTATTAA
1 TACTGAAGAAATGGGCAAATTAGCCCTTATATATTTCGAAACTTACAAATTAGCCCATCTATTAA
*
13571317 ATTTTATTTGTTAAATAACGACATGCATCGTTAAATCATGCTGAAAATTATTTTCTTTATGGATA
66 ATTTTATTTGTTAAATAACGACATGCATCGATAAATCATGCTGAAAATTATTTTCTTTATGGATA
13571382 AACTATAAAAATGGTTATCCAACTATGCCTTTCATTCTATTTTGGTCACCCAATTATTATTTTTT
131 AACTATAAAAATGGTTATCCAACTATGCCTTTCATTCTATTTTGGTCACCCAATTATTATTTTTT
13571447 TCATTTTAGTCACTAAAATTTTCGAAATTAAATATGTTAACCACTCTAAGCTGATGTGAGCCTTT
196 TCATTTTAGTCACTAAAATTTTCGAAATTAAATATGTTAACCACTCTAAGCTGATGTGAGCCTTT
13571512 TTTTATTCCTCTAGTAACAAAATTAGCCCTCTAATATTTGCACATTCTATCATTTTGATGCTAAA
261 TTTTATTCCTCTAGTAACAAAATTAGCCCTCTAATATTTGCACATTCTATCATTTTGATGCTAAA
*
13571577 TATAAAAAATTCAACAAATTTAGCCTTCAATGTTTGCAAAATTTGTCATTTTAGTTCTAATTCTA
326 TATAAAAAACTCAACAAATTTAGCCTTCAATGTTTGCAAAATTTGTCATTTTAGTTCTAATTCTA
13571642 AAAAATCCAATGAATTTGGCCCTCAAAATCTAAAACATCTATATCAATTTAGTCCTAACCCTCAA
391 AAAAATCCAATGAATTTGGCCCTCAAAATCTAAAACATCTATATCAATTTAGTCCTAACCCTCAA
13571707 AATTAAAAAATATTTTTTTAAAAGTCAGTTTTAGCCCTTTATAACCCATCGACTAACCCTTGTGA
456 AATTAAAAAATATTTTTTTAAAAGTCAGTTTTAGCCCTTTATAACCCATCGACTAACCCTTGTGA
13571772 GATGTTAAAATAAGAAAAAGAGTACCCTCTTTCGAGTCACTTGCAAAATAACTCTAAAAAGATAG
521 GATGTTAAAATAAGAAAAAGAGTACCCTCTTTCGAGTCACTTGCAAAATAACTCTAAAAAGATAG
13571837 GATAAAACACATAAAAATTTAAGATCCAAAAGAAAATGAAGGCATTAAAAATGTTATTTGTCCGG
586 GATAAAACACATAAAAATTTAAGATCCAAAAGAAAATGAAGGCATTAAAAATGTTATTTGTCCGG
13571902 GAAGTAATGCAACCAATTATTCCATATAGGTTCTAAATCAATTGATTTGGTCCAGTATAAAGCCT
651 GAAGTAATGCAACCAATTATTCCATATAGGTTCTAAATCAATTGATTTGGTCCAGTATAAAGCCT
*
13571967 AAATTATAGTAAAAGAAATTGATGCGAGTGACTTGAAAGAGGGTATATTTTTTCT
716 AAATTATAGTAAAAGAAATTGATGCGAGTGACTTGAAAGAGGGTACATTTTTTCT
13572022 TA
1 TA
13572024 TTTTAATATC
Statistics
Matches: 769, Mismatches: 3, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
770 769 1.00
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.35
Consensus pattern (770 bp):
TACTGAAGAAATGGGCAAATTAGCCCTTATATATTTCGAAACTTACAAATTAGCCCATCTATTAA
ATTTTATTTGTTAAATAACGACATGCATCGATAAATCATGCTGAAAATTATTTTCTTTATGGATA
AACTATAAAAATGGTTATCCAACTATGCCTTTCATTCTATTTTGGTCACCCAATTATTATTTTTT
TCATTTTAGTCACTAAAATTTTCGAAATTAAATATGTTAACCACTCTAAGCTGATGTGAGCCTTT
TTTTATTCCTCTAGTAACAAAATTAGCCCTCTAATATTTGCACATTCTATCATTTTGATGCTAAA
TATAAAAAACTCAACAAATTTAGCCTTCAATGTTTGCAAAATTTGTCATTTTAGTTCTAATTCTA
AAAAATCCAATGAATTTGGCCCTCAAAATCTAAAACATCTATATCAATTTAGTCCTAACCCTCAA
AATTAAAAAATATTTTTTTAAAAGTCAGTTTTAGCCCTTTATAACCCATCGACTAACCCTTGTGA
GATGTTAAAATAAGAAAAAGAGTACCCTCTTTCGAGTCACTTGCAAAATAACTCTAAAAAGATAG
GATAAAACACATAAAAATTTAAGATCCAAAAGAAAATGAAGGCATTAAAAATGTTATTTGTCCGG
GAAGTAATGCAACCAATTATTCCATATAGGTTCTAAATCAATTGATTTGGTCCAGTATAAAGCCT
AAATTATAGTAAAAGAAATTGATGCGAGTGACTTGAAAGAGGGTACATTTTTTCT
Found at i:13573881 original size:36 final size:36
Alignment explanation
Indices: 13573832--13574023 Score: 201
Period size: 36 Copynumber: 5.3 Consensus size: 36
13573822 ATTCCAACCA
* *
13573832 AAACACACTAGATGCTCATAAGAGCTAATCCATCCG
1 AAACACACCAGATGCTCATAAGAGCTAGTCCATCCG
* * *
13573868 AAACACACCAGATGTTCATAAGAGCTAATCCATCCA
1 AAACACACCAGATGCTCATAAGAGCTAGTCCATCCG
* * *
13573904 AAACACACCAGATGCTCATATGAGCCAGTCTATCCG
1 AAACACACCAGATGCTCATAAGAGCTAGTCCATCCG
* * *
13573940 ATAACACACCA-ATGCTCATACGAGCCAGTCCATTCG
1 A-AACACACCAGATGCTCATAAGAGCTAGTCCATCCG
* *
13573976 ATAACACACCA-ATGGCTC-TAAAGAGCTAGTCCAACAG
1 A-AACACACCAGAT-GCTCAT-AAGAGCTAGTCCATCCG
13574013 AAAACACACCA
1 -AAACACACCA
13574024 AAACAAATAG
Statistics
Matches: 135, Mismatches: 17, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
36 100 0.74
37 34 0.25
38 1 0.01
ACGTcount: A:0.39, C:0.30, G:0.14, T:0.18
Consensus pattern (36 bp):
AAACACACCAGATGCTCATAAGAGCTAGTCCATCCG
Found at i:13580363 original size:21 final size:18
Alignment explanation
Indices: 13580317--13580363 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 18
13580307 AATTCTTATC
13580317 AAAAAATAATTAAATATT
1 AAAAAATAATTAAATATT
*
13580335 ATAAAATAATTAAATTATGTT
1 AAAAAATAATTAAA-TA--TT
13580356 AAAAAATA
1 AAAAAATA
13580364 TGAACATGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 13 0.54
19 2 0.08
21 9 0.38
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (18 bp):
AAAAAATAATTAAATATT
Found at i:13585270 original size:27 final size:28
Alignment explanation
Indices: 13585210--13585263 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
13585200 AGGAATTAGT
* *
13585210 GTTTTAGATTTATTTATTTTCTTTAGGA
1 GTTTTAGATTTACTTATTTTCATTAGGA
*
13585238 GTTTTAGTTTTACTTATTTT-ATTAGG
1 GTTTTAGATTTACTTATTTTCATTAGG
13585264 TTTTTTATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.20, C:0.04, G:0.15, T:0.61
Consensus pattern (28 bp):
GTTTTAGATTTACTTATTTTCATTAGGA
Found at i:13588875 original size:16 final size:17
Alignment explanation
Indices: 13588845--13588877 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
13588835 CATGGTAAAT
*
13588845 AATAAAAAGTCAACAAA
1 AATAAAAAGTAAACAAA
13588862 AATAAAAA-TAAACAAA
1 AATAAAAAGTAAACAAA
13588878 TAAGAATAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.76, C:0.09, G:0.03, T:0.12
Consensus pattern (17 bp):
AATAAAAAGTAAACAAA
Found at i:13590903 original size:43 final size:44
Alignment explanation
Indices: 13590851--13591261 Score: 187
Period size: 43 Copynumber: 9.5 Consensus size: 44
13590841 ATTTAACCCA
* * *
13590851 CTCCACTGTAACTTCAGGGAGATAGGAT-AGTGCCTTCGATCTG
1 CTCCACTGTAACTTCAGGGAGATAAGATCACTGCCTTCAATCTG
* * * *
13590894 CTCCGCTGTAA-TCTCGGGGAGATAAGATCTCTGGCTTCAATCTG
1 CTCCACTGTAACT-TCAGGGAGATAAGATCACTGCCTTCAATCTG
** *
13590938 CTCCACTGTAACTTCAGGG-GATAAGAT--CTGCAATTCTTCGGTCTA
1 CTCCACTGTAACTTCAGGGAGATAAGATCACTGC----CTTCAATCTG
* * *** * * **
13590983 CTCCACTGTAACCTCAGAGAGATAAGA-C-CTTTATTTTAACCCA
1 CTCCACTGTAACTTCAGGGAGATAAGATCAC-TGCCTTCAATCTG
* * * * *
13591026 CTCCACTGTAACTTCAGGGCGATAGGAT-AGTGTCTTCGA--T-
1 CTCCACTGTAACTTCAGGGAGATAAGATCACTGCCTTCAATCTG
* * *
13591066 CTCCGCTGTAA-TCTC-GGGAGATAAGATCTCTGGCTTCAATCTG
1 CTCCACTGTAACT-TCAGGGAGATAAGATCACTGCCTTCAATCTG
** *
13591109 CTCCACTGTAACTTCAGGG-GATAAGAT--CTGCAATTCTTCGGTCTA
1 CTCCACTGTAACTTCAGGGAGATAAGATCACTGC----CTTCAATCTG
* * * * * *
13591154 CTCCACTGTAACCTCAGAGAGATAAGATC-C-G-ATGCGATCTA
1 CTCCACTGTAACTTCAGGGAGATAAGATCACTGCCTTCAATCTG
* * * *** * *
13591195 CTCTACTGTAAC-TCAGAGAGATAAGATCATTTATTTTAATCCG
1 CTCCACTGTAACTTCAGGGAGATAAGATCACTGCCTTCAATCTG
13591238 CTCCACTGTAACTTCAGGGAGATA
1 CTCCACTGTAACTTCAGGGAGATA
13591262 GGATTATATC
Statistics
Matches: 277, Mismatches: 62, Indels: 57
0.70 0.16 0.14
Matches are distributed among these distances:
39 11 0.04
40 35 0.13
41 24 0.09
42 2 0.01
43 97 0.35
44 40 0.14
45 49 0.18
46 17 0.06
47 2 0.01
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.29
Consensus pattern (44 bp):
CTCCACTGTAACTTCAGGGAGATAAGATCACTGCCTTCAATCTG
Found at i:13590987 original size:45 final size:44
Alignment explanation
Indices: 13590928--13591182 Score: 156
Period size: 45 Copynumber: 5.9 Consensus size: 44
13590918 AGATCTCTGG
* *
13590928 CTTCAATCTGCTCCACTGTAACTTCAGGGGATAAGATCTGCAATT
1 CTTCAGTCTACTCCACTGTAACTTCAGGGGATAAGATCT-CAATT
* * * * **
13590973 CTTCGGTCTACTCCACTGTAACCTCAGAGAGATAAGACCTTTATT
1 CTTCAGTCTACTCCACTGTAACTTCAG-GGGATAAGATCTCAATT
** * * *
13591018 -TT-AACCCACTCCACTGTAACTTCAGGGCGATAGGA--T-AGTGT
1 CTTCAGTCTACTCCACTGTAACTTCAGGG-GATAAGATCTCAAT-T
* * *
13591059 CTTC-G-AT-CTCCGCTGTAA-TCTC-GGGAGATAAGATCTC--TGG
1 CTTCAGTCTACTCCACTGTAACT-TCAGGG-GATAAGATCTCAAT-T
* *
13591099 CTTCAATCTGCTCCACTGTAACTTCAGGGGATAAGATCTGCAATT
1 CTTCAGTCTACTCCACTGTAACTTCAGGGGATAAGATCT-CAATT
* * *
13591144 CTTCGGTCTACTCCACTGTAACCTCAGAGAGATAAGATC
1 CTTCAGTCTACTCCACTGTAACTTCAG-GGGATAAGATC
13591183 CGATGCGATC
Statistics
Matches: 159, Mismatches: 33, Indels: 35
0.70 0.15 0.15
Matches are distributed among these distances:
39 10 0.06
40 19 0.12
41 3 0.02
42 4 0.03
43 46 0.29
44 7 0.04
45 49 0.31
46 21 0.13
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.29
Consensus pattern (44 bp):
CTTCAGTCTACTCCACTGTAACTTCAGGGGATAAGATCTCAATT
Found at i:13591112 original size:171 final size:174
Alignment explanation
Indices: 13590813--13591183 Score: 678
Period size: 171 Copynumber: 2.1 Consensus size: 174
13590803 ACCTACTCTG
13590813 CTGTAACCTCAGAGAGATAAGATCCTTTATTTAACCCACTCCACTGTAACTTCAGGGAGATAGGA
1 CTGTAACCTCAGAGAGATAAGATCCTTTATTTAACCCACTCCACTGTAACTTCAGGGAGATAGGA
13590878 TAGTGCCTTCGATCTGCTCCGCTGTAATCTCGGGGAGATAAGATCTCTGGCTTCAATCTGCTCCA
66 TAGTGCCTTCGA-CTGCTCCGCTGTAATCTCGGGGAGATAAGATCTCTGGCTTCAATCTGCTCCA
13590943 CTGTAACTTCAGGGGATAAGATCTGCAATTCTTCGGTCTACTCCA
130 CTGTAACTTCAGGGGATAAGATCTGCAATTCTTCGGTCTACTCCA
*
13590988 CTGTAACCTCAGAGAGATAAGA-CCTTTATTTTAACCCACTCCACTGTAACTTCAGGGCGATAGG
1 CTGTAACCTCAGAGAGATAAGATCCTTTA-TTTAACCCACTCCACTGTAACTTCAGGGAGATAGG
*
13591052 ATAGTGTCTTCGA-T-CTCCGCTGTAATCTC-GGGAGATAAGATCTCTGGCTTCAATCTGCTCCA
65 ATAGTGCCTTCGACTGCTCCGCTGTAATCTCGGGGAGATAAGATCTCTGGCTTCAATCTGCTCCA
13591114 CTGTAACTTCAGGGGATAAGATCTGCAATTCTTCGGTCTACTCCA
130 CTGTAACTTCAGGGGATAAGATCTGCAATTCTTCGGTCTACTCCA
13591159 CTGTAACCTCAGAGAGATAAGATCC
1 CTGTAACCTCAGAGAGATAAGATCC
13591184 GATGCGATCT
Statistics
Matches: 192, Mismatches: 2, Indels: 7
0.96 0.01 0.03
Matches are distributed among these distances:
171 100 0.52
172 17 0.09
173 1 0.01
174 6 0.03
175 68 0.35
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (174 bp):
CTGTAACCTCAGAGAGATAAGATCCTTTATTTAACCCACTCCACTGTAACTTCAGGGAGATAGGA
TAGTGCCTTCGACTGCTCCGCTGTAATCTCGGGGAGATAAGATCTCTGGCTTCAATCTGCTCCAC
TGTAACTTCAGGGGATAAGATCTGCAATTCTTCGGTCTACTCCA
Found at i:13591281 original size:171 final size:172
Alignment explanation
Indices: 13590813--13591477 Score: 596
Period size: 171 Copynumber: 3.9 Consensus size: 172
13590803 ACCTACTCTG
* * * * * * * *
13590813 CTGTAACCTCAGAGAGATAAGATCCTTTATTTAACCCACTCCACTGTAACTTCAGGGAGATAGGA
1 CTGTAACCTCAGAGAGATAAGA-CC-TGATGTGATCTACTCTACTGTAACTTCAGAGAGATAAGA
* ** * * * * * ** *
13590878 T-AGTGCCTTCGATCTGCTCCGCTGTAATCTCGGGGAGATAAGATCTCTGGCTTCAATCTGCTCC
64 TCA-T-TCTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGAT-TATATCTTCGATCTGCTCC
13590942 ACTGTAACTTCAGGG-GATAAGATCTGCAATTCTTCGGTCTACTCCA
126 ACTGTAACTTCAGGGAGATAAGATCTGCAATTCTTCGGTCTACTCCA
* * * * * * * * *
13590988 CTGTAACCTCAGAGAGATAAGACCTTTATTTTAACCCACTCCACTGTAACTTCAGGGCGATAGGA
1 CTGTAACCTCAGAGAGATAAGACC-TGA-TGTGATCTACTCTACTGTAACTTCAGAGAGATAAGA
** * * * ** *
13591053 T-AGTGTCTTCGAT---CTCCGCTGTAATCTC-GGGAGATAAGATCTCTGGCTTCAATCTGCTCC
64 TCA-T-TCTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGAT-TATATCTTCGATCTGCTCC
13591113 ACTGTAACTTCAGGG-GATAAGATCTGCAATTCTTCGGTCTACTCCA
126 ACTGTAACTTCAGGGAGATAAGATCTGCAATTCTTCGGTCTACTCCA
*
13591159 CTGTAACCTCAGAGAGATAAGATCC-GATGCGATCTACTCTACTGTAAC-TCAGAGAGATAAGAT
1 CTGTAACCTCAGAGAGATAAGA-CCTGATGTGATCTACTCTACTGTAACTTCAGAGAGATAAGAT
* *
13591222 CATTTATTTTAATCCGCTCCACTGTAA-CTTCAGGGAGATAGGATTATATC-TCGATCTGCTCCG
65 CA-TT-CTTTAATCCGCTCCACTGTAATC-TCAGGGAGATAGGATTATATCTTCGATCTGCTCCA
* * **
13591285 C-GTACACCTCAGGGAGACAAGATCTGCAATTCTTCGGTCTGTTCCA
127 CTGTA-ACTTCAGGGAGATAAGATCTGCAATTCTTCGGTCTACTCCA
* *
13591331 CTGTAATCTCAG-GAGAT-AGACCTGATGTGATCTTCTCTACTGTAACTTCAGAGAGATAAGATC
1 CTGTAACCTCAGAGAGATAAGACCTGATGTGATCTACTCTACTGTAACTTCAGAGAGATAAGATC
* * *
13591394 ---CTTTAATCCGCTCCA-TGTAATCTCAAGGAGATAGGATTACTATCTTTGATCTGCTCCGCTG
66 ATTCTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTA-TATCTTCGATCTGCTCCACTG
13591455 TAA-TCTCAGGGAGATAAAGATCT
130 TAACT-TCAGGGAGAT-AAGATCT
13591478 CTGGCTTCAA
Statistics
Matches: 436, Mismatches: 35, Indels: 45
0.84 0.07 0.09
Matches are distributed among these distances:
165 21 0.05
166 19 0.04
167 23 0.05
168 23 0.05
169 23 0.05
170 28 0.06
171 142 0.33
172 71 0.16
173 11 0.03
174 6 0.01
175 69 0.16
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.30
Consensus pattern (172 bp):
CTGTAACCTCAGAGAGATAAGACCTGATGTGATCTACTCTACTGTAACTTCAGAGAGATAAGATC
ATTCTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTATATCTTCGATCTGCTCCACTGT
AACTTCAGGGAGATAAGATCTGCAATTCTTCGGTCTACTCCA
Found at i:13591669 original size:86 final size:86
Alignment explanation
Indices: 13591534--13591825 Score: 405
Period size: 86 Copynumber: 3.4 Consensus size: 86
13591524 TTTGATCTTT
13591534 GATCTGCTTCGCTGTTAAT-CAGG-A-GCAAGATCTACTTCTTTAACTAGCTCCAATGCGATCGA
1 GATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTACTTCTTTAACTAGCTCCAATGCGATCGA
13591596 TGGATGCAAGGCTTTGTTTTC
66 TGGATGCAAGGCTTTGTTTTC
13591617 GATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTACTTCTTTAACTAGCTCCAATGCGATCGA
1 GATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTACTTCTTTAACTAGCTCCAATGCGATCGA
13591682 TGGATGCAAGGCTTTGTTTTC
66 TGGATGCAAGGCTTTGTTTTC
* ** * * * * * *
13591703 GATCTGCTTCGCTGTTAATGTAGGAAGGCAAGATCTTTTGTCTTCAACCAGCT-CTATCACAACC
1 GATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTACT-TCTTTAACTAGCTCCAAT-GCGATC
** *
13591767 GAAAGAGGCAAGG-TTTGTGTCTTC
64 GATGGATGCAAGGCTTTGT-T-TTC
13591791 GATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATC
1 GATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATC
13591826 CTTTGTCTTC
Statistics
Matches: 189, Mismatches: 13, Indels: 9
0.90 0.06 0.04
Matches are distributed among these distances:
83 19 0.10
84 4 0.02
85 1 0.01
86 103 0.54
87 25 0.13
88 37 0.20
ACGTcount: A:0.24, C:0.21, G:0.23, T:0.32
Consensus pattern (86 bp):
GATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTACTTCTTTAACTAGCTCCAATGCGATCGA
TGGATGCAAGGCTTTGTTTTC
Found at i:13591835 original size:45 final size:45
Alignment explanation
Indices: 13591693--13591835 Score: 105
Period size: 44 Copynumber: 3.2 Consensus size: 45
13591683 GGATGCAAGG
* *
13591693 CTTTGTTTTCGATCTGCTTCGCTGTTAATGTAGGAAGGCAAGATC
1 CTTTGTCTTCGATCTGCTTCGCTGTTAATGAAGGAAGGCAAGATC
* * * * ** *** * * *
13591738 TTTTGTCTTCAACCAGC-TCTATCACAACCGAAAG-AGGCAAGGT-
1 CTTTGTCTTCGATCTGCTTCGCTGTTAA-TGAAGGAAGGCAAGATC
*
13591781 -TTGTGTCTTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATC
1 CTT-TGTCTTCGATCTGCTTCGCTGTTAATGAAGGAAGGCAAGATC
13591826 CTTTGTCTTC
1 CTTTGTCTTC
13591836 ATTGATCTGT
Statistics
Matches: 66, Mismatches: 26, Indels: 12
0.63 0.25 0.12
Matches are distributed among these distances:
42 2 0.03
43 14 0.21
44 26 0.39
45 22 0.33
46 2 0.03
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.34
Consensus pattern (45 bp):
CTTTGTCTTCGATCTGCTTCGCTGTTAATGAAGGAAGGCAAGATC
Found at i:13593076 original size:1 final size:1
Alignment explanation
Indices: 13593070--13593098 Score: 58
Period size: 1 Copynumber: 29.0 Consensus size: 1
13593060 CTCTCCAAAG
13593070 TTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTT
13593099 AGGAAGCAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:13603901 original size:17 final size:17
Alignment explanation
Indices: 13603870--13603903 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
13603860 CATGGTAAAT
* *
13603870 AATAAAAAGTCAACAAA
1 AATAAAAAATAAACAAA
13603887 AATAAAAAATAAACAAA
1 AATAAAAAATAAACAAA
13603904 TAAGAATAAA
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:0.76, C:0.09, G:0.03, T:0.12
Consensus pattern (17 bp):
AATAAAAAATAAACAAA
Found at i:13607404 original size:25 final size:25
Alignment explanation
Indices: 13607376--13607430 Score: 92
Period size: 25 Copynumber: 2.2 Consensus size: 25
13607366 TTCCTTATAA
*
13607376 ACTTTAAATTAGGAATTTTATTAGG
1 ACTTTAAATTAGGAATTCTATTAGG
*
13607401 ACTTTAAATTGGGAATTCTATTAGG
1 ACTTTAAATTAGGAATTCTATTAGG
13607426 ACTTT
1 ACTTT
13607431 CCCTTTGTGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.33, C:0.07, G:0.16, T:0.44
Consensus pattern (25 bp):
ACTTTAAATTAGGAATTCTATTAGG
Found at i:13615934 original size:20 final size:20
Alignment explanation
Indices: 13615900--13615941 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
13615890 AACTATTTAA
** *
13615900 ATAATATTATTTGAATAGTT
1 ATAATATTAAATGAATAATT
13615920 ATAATATTAAATGAATAATT
1 ATAATATTAAATGAATAATT
13615940 AT
1 AT
13615942 GTGTTTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (20 bp):
ATAATATTAAATGAATAATT
Found at i:13622751 original size:21 final size:21
Alignment explanation
Indices: 13622722--13622773 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
13622712 TTAATATTTG
13622722 GAGAAATAAAACAA-AGAAAA
1 GAGAAATAAAACAATAGAAAA
* * *
13622742 TGATAAATAATATAATAGAAAA
1 -GAGAAATAAAACAATAGAAAA
13622764 GAGAAATAAA
1 GAGAAATAAA
13622774 TTTTGTATGG
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
21 19 0.76
22 6 0.24
ACGTcount: A:0.69, C:0.02, G:0.13, T:0.15
Consensus pattern (21 bp):
GAGAAATAAAACAATAGAAAA
Found at i:13622919 original size:36 final size:38
Alignment explanation
Indices: 13622874--13622960 Score: 115
Period size: 39 Copynumber: 2.3 Consensus size: 38
13622864 GGAGTTGTAA
* * *
13622874 GTGACTATTCATCTATATCAC-TAAATGC-TAGGAGTT
1 GTGACTATTCATCTACATAACTTAAATACATAGGAGTT
*
13622910 GTGACTATTCATTTACATAACTTAAATACTATAGGAGTT
1 GTGACTATTCATCTACATAACTTAAATAC-ATAGGAGTT
13622949 GTGACTATTCAT
1 GTGACTATTCAT
13622961 GCATGTGTGT
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
36 18 0.41
37 6 0.14
39 20 0.45
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.38
Consensus pattern (38 bp):
GTGACTATTCATCTACATAACTTAAATACATAGGAGTT
Found at i:13623012 original size:32 final size:32
Alignment explanation
Indices: 13622970--13623045 Score: 89
Period size: 32 Copynumber: 2.4 Consensus size: 32
13622960 TGCATGTGTG
* * *
13622970 TAACTTTTCATCTTCAAGTCTCTTCGCATTAT
1 TAACTCTTCATATTCAAGTCTCTTCACATTAT
* **
13623002 TAACTCTTCATATTCAAGTCTTTTCACATTCG
1 TAACTCTTCATATTCAAGTCTCTTCACATTAT
*
13623034 TAACTTTTCATA
1 TAACTCTTCATA
13623046 ATTTATTTTG
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.25, C:0.24, G:0.05, T:0.46
Consensus pattern (32 bp):
TAACTCTTCATATTCAAGTCTCTTCACATTAT
Found at i:13627429 original size:36 final size:38
Alignment explanation
Indices: 13627384--13627470 Score: 106
Period size: 39 Copynumber: 2.3 Consensus size: 38
13627374 GGAGTTGTAA
* * *
13627384 GTGACTATTCATCTATATCAC-TAAATGC-TAGGAGTT
1 GTGACTATTCATCTACATAACTTAAATACATAGGAGTT
*
13627420 GTGACTATTCATTTACATAACTTAAATACTATAGGAGTT
1 GTGACTATTCATCTACATAACTTAAATAC-ATAGGAGTT
*
13627459 GTGTCTATTCAT
1 GTGACTATTCAT
13627471 GCATGTGTGT
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
36 18 0.42
37 6 0.14
39 19 0.44
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.39
Consensus pattern (38 bp):
GTGACTATTCATCTACATAACTTAAATACATAGGAGTT
Found at i:13627516 original size:32 final size:32
Alignment explanation
Indices: 13627479--13627555 Score: 93
Period size: 32 Copynumber: 2.4 Consensus size: 32
13627469 ATGCATGTGT
* *
13627479 GTAACTTTTCATCTTCAAGTCTCTTT-GCATTA
1 GTAACTTTTCATATTCAAGTCT-TTTCACATTA
* * *
13627511 TTAACTCTTCATATTCAAGTCTTTTCACATTC
1 GTAACTTTTCATATTCAAGTCTTTTCACATTA
13627543 GTAACTTTTCATA
1 GTAACTTTTCATA
13627556 ATTTATTTTG
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
31 3 0.08
32 34 0.92
ACGTcount: A:0.25, C:0.22, G:0.06, T:0.47
Consensus pattern (32 bp):
GTAACTTTTCATATTCAAGTCTTTTCACATTA
Found at i:13629305 original size:26 final size:26
Alignment explanation
Indices: 13629276--13629333 Score: 98
Period size: 26 Copynumber: 2.2 Consensus size: 26
13629266 GAGCTTATTG
*
13629276 TCTTAATTAGTTTATTCAGTTTAAAA
1 TCTTAATCAGTTTATTCAGTTTAAAA
13629302 TCTTAATCAGTTTATTCAGTTTAAAA
1 TCTTAATCAGTTTATTCAGTTTAAAA
*
13629328 TGTTAA
1 TCTTAA
13629334 AACCAAAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.34, C:0.09, G:0.09, T:0.48
Consensus pattern (26 bp):
TCTTAATCAGTTTATTCAGTTTAAAA
Found at i:13640743 original size:7 final size:7
Alignment explanation
Indices: 13640731--13640755 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
13640721 TAATGTAACC
13640731 AAATTAG
1 AAATTAG
13640738 AAATTAG
1 AAATTAG
13640745 AAATTAG
1 AAATTAG
13640752 AAAT
1 AAAT
13640756 CACTTTCAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.00, G:0.12, T:0.28
Consensus pattern (7 bp):
AAATTAG
Found at i:13641148 original size:7 final size:7
Alignment explanation
Indices: 13641136--13641189 Score: 99
Period size: 7 Copynumber: 7.7 Consensus size: 7
13641126 TAAGATGAAA
13641136 AGAAAAG
1 AGAAAAG
13641143 AGAAAAG
1 AGAAAAG
13641150 AGAAAAG
1 AGAAAAG
13641157 AGAAAAG
1 AGAAAAG
*
13641164 GGAAAAG
1 AGAAAAG
13641171 AGAAAAG
1 AGAAAAG
13641178 AGAAAAG
1 AGAAAAG
13641185 AGAAA
1 AGAAA
13641190 GAGCAATTAA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 45 1.00
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (7 bp):
AGAAAAG
Found at i:13641350 original size:23 final size:22
Alignment explanation
Indices: 13641320--13641362 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
13641310 TTTAGATCGA
*
13641320 AAGAAGAGAAAATAAATGAAAAG
1 AAGAAGAGAAAAGAAA-GAAAAG
13641343 AAGAAGAGAAAAGAAAGAAA
1 AAGAAGAGAAAAGAAAGAAA
13641363 TAATATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.72, C:0.00, G:0.23, T:0.05
Consensus pattern (22 bp):
AAGAAGAGAAAAGAAAGAAAAG
Found at i:13641372 original size:2 final size:2
Alignment explanation
Indices: 13641365--13641394 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
13641355 GAAAGAAATA
13641365 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13641395 GAGTGGTGGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13643209 original size:16 final size:16
Alignment explanation
Indices: 13643188--13643225 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
13643178 ATTGTCGATG
13643188 TTAATATTTTAAAAAT
1 TTAATATTTTAAAAAT
* *
13643204 TTAATATTTTTAGAAT
1 TTAATATTTTAAAAAT
13643220 TTAATA
1 TTAATA
13643226 CTCGAGCTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (16 bp):
TTAATATTTTAAAAAT
Found at i:13643417 original size:3 final size:3
Alignment explanation
Indices: 13643409--13643434 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
13643399 TTTTTAATCT
13643409 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
13643435 CTTTTTAGCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:13659865 original size:33 final size:33
Alignment explanation
Indices: 13659821--13659899 Score: 90
Period size: 33 Copynumber: 2.4 Consensus size: 33
13659811 CATATTTAAA
* * *
13659821 AAATATAAAAAAAAAGTTCT-AAAATATGTGTAT
1 AAATATTAAAAAAAA-TTCTAAAAATATATATAT
*
13659854 AAAT-TTTAAAAAAATTCTAAAAAATATATATAT
1 AAATATTAAAAAAAATTCT-AAAAATATATATAT
13659887 AAATATTAAAAAA
1 AAATATTAAAAAA
13659900 TAAGAAATAT
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
31 4 0.11
32 8 0.21
33 19 0.50
34 7 0.18
ACGTcount: A:0.62, C:0.03, G:0.04, T:0.32
Consensus pattern (33 bp):
AAATATTAAAAAAAATTCTAAAAATATATATAT
Found at i:13659872 original size:31 final size:33
Alignment explanation
Indices: 13659829--13659899 Score: 92
Period size: 33 Copynumber: 2.2 Consensus size: 33
13659819 AAAAATATAA
* * *
13659829 AAAAAAAGTTCT-AAAATATGTGTATAAATTTT
1 AAAAAAAGTTCTAAAAATATATATATAAATATT
13659861 AAAAAAA-TTCTAAAAAATATATATATAAATATT
1 AAAAAAAGTTCT-AAAAATATATATATAAATATT
13659894 AAAAAA
1 AAAAAA
13659900 TAAGAAATAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
31 4 0.12
32 7 0.21
33 23 0.68
ACGTcount: A:0.61, C:0.03, G:0.04, T:0.32
Consensus pattern (33 bp):
AAAAAAAGTTCTAAAAATATATATATAAATATT
Found at i:13660022 original size:22 final size:22
Alignment explanation
Indices: 13659997--13660038 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
13659987 ATATAAAAAA
13659997 TTTT-AAAAAATTAAAAATATAT
1 TTTTCAAAAAA-TAAAAATATAT
13660019 TTTTCAAAAAATAAAAATAT
1 TTTTCAAAAAATAAAAATAT
13660039 TTAAAAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (22 bp):
TTTTCAAAAAATAAAAATATAT
Found at i:13673001 original size:68 final size:68
Alignment explanation
Indices: 13672890--13673034 Score: 182
Period size: 68 Copynumber: 2.1 Consensus size: 68
13672880 TTATGTTATG
* * * ***
13672890 ATCTTAAATTAGCTAACATTTATAATATCAACTATAAATGTAGGTCAGTGAGCTGTTTAGGAGTT
1 ATCTTAAATTAGCTAACATATATAATATCAACTACAAACGTAGGTCAACAAGCTGTTTAGGAGTT
13672955 GCA
66 GCA
* * * * *
13672958 ATCTTAAATTAGCTAACCTATATAATATCAGCTGCAAACGTAGGTTAACAAGTTGTTTAGGAGTT
1 ATCTTAAATTAGCTAACATATATAATATCAACTACAAACGTAGGTCAACAAGCTGTTTAGGAGTT
*
13673023 GCG
66 GCA
13673026 ATCTTAAAT
1 ATCTTAAAT
13673035 CATCTAACTC
Statistics
Matches: 65, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
68 65 1.00
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.34
Consensus pattern (68 bp):
ATCTTAAATTAGCTAACATATATAATATCAACTACAAACGTAGGTCAACAAGCTGTTTAGGAGTT
GCA
Found at i:13673266 original size:105 final size:104
Alignment explanation
Indices: 13672952--13673343 Score: 475
Period size: 105 Copynumber: 3.8 Consensus size: 104
13672942 CTGTTTAGGA
* * * ** * * *
13672952 GTTGCAATCTTAAATTAGCTAACCTATATAATATCAGCTGCAAACGTAGGTTAACAAGTTGTTTA
1 GTTGCAATCTTAAATCAGCTAACCTTTATAATATCAGTTGTGAACGTAGGTCAACGAGCTGTTTA
* *
13673017 GGAGTTGCGATCTTAAATCATCTAACTCAAATAAGCTTAG
66 GGAGTTGCGATCTTAAAT-AACTAACTCAAATAAACTTAG
* * *
13673057 GTTGCGATCTTAAATCAACTAACCTTTATAATATCAGTTGTGAACGTAGGT-TA-GAGCTGTTTA
1 GTTGCAATCTTAAATCAGCTAACCTTTATAATATCAGTTGTGAACGTAGGTCAACGAGCTGTTTA
**
13673120 GGAGTTATGATCTTAAATCAACTAACTCAAATAAACTTAG
66 GGAGTTGCGATCTTAAAT-AACTAACTCAAATAAACTTAG
* * * * *
13673160 GTTGTAATATTAAATCAGCTAACCTTTATAATATCAGCTAG-GAACGTAGGTCAGCGAGTTGTTT
1 GTTGCAATCTTAAATCAGCTAACCTTTATAATATCAG-TTGTGAACGTAGGTCAACGAGCTGTTT
* * *
13673224 AAGAGTTGCGTTATTAAATAAGCTAACTCAAATAAACTTAG
65 AGGAGTTGCGATCTTAAATAA-CTAACTCAAATAAACTTAG
* * * *
13673265 GTTGCGATCTTAAATCATCTAACCTTTATAATATCAGTTGTGAACATAGGTCAATGAGCTGTTTA
1 GTTGCAATCTTAAATCAGCTAACCTTTATAATATCAGTTGTGAACGTAGGTCAACGAGCTGTTTA
*
13673330 GGAGTTGCAATCTT
66 GGAGTTGCGATCTT
13673344 CATGCATGAC
Statistics
Matches: 242, Mismatches: 40, Indels: 10
0.83 0.14 0.03
Matches are distributed among these distances:
103 87 0.36
104 7 0.03
105 148 0.61
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Consensus pattern (104 bp):
GTTGCAATCTTAAATCAGCTAACCTTTATAATATCAGTTGTGAACGTAGGTCAACGAGCTGTTTA
GGAGTTGCGATCTTAAATAACTAACTCAAATAAACTTAG
Found at i:13674158 original size:27 final size:27
Alignment explanation
Indices: 13674090--13674168 Score: 99
Period size: 26 Copynumber: 3.0 Consensus size: 27
13674080 ACTAACCTAT
* *
13674090 TAATTTAAATTCCTAATTATCTTAACTA
1 TAATTTAAACTCCTAATTATCATAA-TA
*
13674118 -AATTAAAACT-CTAATTATCATAATA
1 TAATTTAAACTCCTAATTATCATAATA
*
13674143 TAATTTAAACTCCTAATTATCCTAAT
1 TAATTTAAACTCCTAATTATCATAAT
13674169 TTACACAAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
25 2 0.05
26 21 0.48
27 21 0.48
ACGTcount: A:0.43, C:0.15, G:0.00, T:0.42
Consensus pattern (27 bp):
TAATTTAAACTCCTAATTATCATAATA
Found at i:13676580 original size:25 final size:24
Alignment explanation
Indices: 13676552--13676609 Score: 89
Period size: 25 Copynumber: 2.3 Consensus size: 24
13676542 CTTCTCCTAG
*
13676552 TTAAACTTTGTTTTTAGTTTCTCAC
1 TTAAA-TTTGTTTTTAGTTTCCCAC
13676577 TTAAATTATGTTTTTAGTTTCCCAC
1 TTAAATT-TGTTTTTAGTTTCCCAC
13676602 TTAAATTT
1 TTAAATTT
13676610 TGATTAGTGT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
24 3 0.10
25 28 0.90
ACGTcount: A:0.24, C:0.14, G:0.07, T:0.55
Consensus pattern (24 bp):
TTAAATTTGTTTTTAGTTTCCCAC
Found at i:13682963 original size:23 final size:23
Alignment explanation
Indices: 13682929--13682992 Score: 101
Period size: 23 Copynumber: 2.8 Consensus size: 23
13682919 CTACCATGTT
*
13682929 TTGGACAGCATTTATATATCAAA
1 TTGGACAGCATTTATACATCAAA
*
13682952 TTGGACATCATTTATACATCAAA
1 TTGGACAGCATTTATACATCAAA
*
13682975 TTGGACAGCATTAATACA
1 TTGGACAGCATTTATACA
13682993 ATTTAAATTT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.39, C:0.16, G:0.12, T:0.33
Consensus pattern (23 bp):
TTGGACAGCATTTATACATCAAA
Found at i:13683374 original size:57 final size:57
Alignment explanation
Indices: 13683311--13683488 Score: 236
Period size: 57 Copynumber: 3.1 Consensus size: 57
13683301 TTCATGCGTA
* *
13683311 TTTTCTTACAGGGAATATTTACTGTTTTTGTTAGAGAATATTTTCTGCTCACTTGTC
1 TTTTCTTGCAGGGAATATTTACTGTTTTTGTCAGAGAATATTTTCTGCTCACTTGTC
* ** * *
13683368 TTTTCTTGCAGGGAATATTTATTGTTTACGCCAGAGAATA-TTTCATGTTCACTTGTC
1 TTTTCTTGCAGGGAATATTTACTGTTTTTGTCAGAGAATATTTTC-TGCTCACTTGTC
* *
13683425 TTTTCTTGCA-GGAATATTTACTATTTTT-TCCAGAGAATATTTCCTGCTCACTTGTC
1 TTTTCTTGCAGGGAATATTTACTGTTTTTGT-CAGAGAATATTTTCTGCTCACTTGTC
13683481 TTTTCTTG
1 TTTTCTTG
13683489 TATCATCTGT
Statistics
Matches: 104, Mismatches: 14, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
56 46 0.44
57 58 0.56
ACGTcount: A:0.21, C:0.16, G:0.15, T:0.48
Consensus pattern (57 bp):
TTTTCTTGCAGGGAATATTTACTGTTTTTGTCAGAGAATATTTTCTGCTCACTTGTC
Found at i:13690801 original size:23 final size:23
Alignment explanation
Indices: 13690771--13690964 Score: 228
Period size: 23 Copynumber: 8.4 Consensus size: 23
13690761 GTCTGGTATT
13690771 ACAGCATTAATACATCAAATTGG
1 ACAGCATTAATACATCAAATTGG
* *
13690794 ACAGCATTTATACATCAAATTGC
1 ACAGCATTAATACATCAAATTGG
* * *
13690817 ATAACATTAATACATTAAATTGG
1 ACAGCATTAATACATCAAATTGG
*
13690840 ACAGCATTAATATATCAAATTGG
1 ACAGCATTAATACATCAAATTGG
* * * *
13690863 ATAGCATTTATGCATTAAATTGG
1 ACAGCATTAATACATCAAATTGG
* *
13690886 ACAACATTAATACATCAAATTTG
1 ACAGCATTAATACATCAAATTGG
*
13690909 ACAGCATTTATACATCAAATTGG
1 ACAGCATTAATACATCAAATTGG
* *
13690932 GCAGCATTAATATGC-TCAAAATGG
1 ACAGCATTAATA--CATCAAATTGG
13690956 ACAGCATTA
1 ACAGCATTA
13690965 TAACATGTAA
Statistics
Matches: 140, Mismatches: 29, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
23 123 0.88
24 16 0.11
25 1 0.01
ACGTcount: A:0.42, C:0.15, G:0.12, T:0.30
Consensus pattern (23 bp):
ACAGCATTAATACATCAAATTGG
Found at i:13691733 original size:41 final size:40
Alignment explanation
Indices: 13691675--13691804 Score: 136
Period size: 41 Copynumber: 3.2 Consensus size: 40
13691665 TCATAAAACC
* * * *
13691675 GAAGCTATTATAATCTCGTACACTAAGTGCCTTACATAGCT
1 GAAGCTA-TATCATCTCGCACACTAAGTGCCATAAATAGCT
*
13691716 GAAGCTATATCAGTCTCGCACACTAAGTGCCATATATAG-T
1 GAAGCTATATCA-TCTCGCACACTAAGTGCCATAAATAGCT
* ** * *
13691756 CGAAGCTATTTCAAATCGCACACTAAGTGCAATAAATAGCA
1 -GAAGCTATATCATCTCGCACACTAAGTGCCATAAATAGCT
13691797 GAAGCTAT
1 GAAGCTAT
13691805 CCCAAATTTC
Statistics
Matches: 76, Mismatches: 10, Indels: 7
0.82 0.11 0.08
Matches are distributed among these distances:
40 35 0.46
41 41 0.54
ACGTcount: A:0.35, C:0.22, G:0.16, T:0.27
Consensus pattern (40 bp):
GAAGCTATATCATCTCGCACACTAAGTGCCATAAATAGCT
Found at i:13691801 original size:40 final size:40
Alignment explanation
Indices: 13691694--13691804 Score: 125
Period size: 40 Copynumber: 2.7 Consensus size: 40
13691684 ATAATCTCGT
* * **
13691694 ACACTAAGTGCCTTACATAGCTGAAGCTATATCAGTCTCGC
1 ACACTAAGTGCCATAAATAGC-GAAGCTATATCAGAATCGC
* *
13691735 ACACTAAGTGCCATATATAGTCGAAGCTATTTCA-AATCGC
1 ACACTAAGTGCCATAAATAG-CGAAGCTATATCAGAATCGC
*
13691775 ACACTAAGTGCAATAAATAGCAGAAGCTAT
1 ACACTAAGTGCCATAAATAGC-GAAGCTAT
13691805 CCCAAATTTC
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
39 1 0.02
40 30 0.49
41 29 0.48
42 1 0.02
ACGTcount: A:0.36, C:0.23, G:0.16, T:0.25
Consensus pattern (40 bp):
ACACTAAGTGCCATAAATAGCGAAGCTATATCAGAATCGC
Found at i:13691811 original size:40 final size:40
Alignment explanation
Indices: 13691731--13691838 Score: 112
Period size: 40 Copynumber: 2.7 Consensus size: 40
13691721 TATATCAGTC
* * **
13691731 TCGCACACTAAGTGCCATATATAGTCGAAGCTATTTCAAA
1 TCGCACACTAAGTGCAATAAATAGTCGAAGCTATCCCAAA
13691771 TCGCACACTAAGTGCAATAAATAG-CAGAAGCTATCCCAAA
1 TCGCACACTAAGTGCAATAAATAGTC-GAAGCTATCCCAAA
** * *
13691811 TTTCATACTAAGTGCTAA-AGATAGTCGA
1 TCGCACACTAAGTGC-AATAAATAGTCGA
13691839 TTTATCGTTA
Statistics
Matches: 57, Mismatches: 8, Indels: 6
0.80 0.11 0.08
Matches are distributed among these distances:
39 1 0.02
40 53 0.93
41 3 0.05
ACGTcount: A:0.38, C:0.21, G:0.16, T:0.25
Consensus pattern (40 bp):
TCGCACACTAAGTGCAATAAATAGTCGAAGCTATCCCAAA
Found at i:13694255 original size:64 final size:64
Alignment explanation
Indices: 13694152--13694272 Score: 181
Period size: 64 Copynumber: 1.9 Consensus size: 64
13694142 AGCCTATATT
* *
13694152 AGGATGCTCATAAAGAGCTGCAGTATGTCTACAATACATGCAAGATCAATACCGATCATATAAC
1 AGGATGCTCACAAAGAGCTGCAGTATGTCTACAAGACATGCAAGATCAATACCGATCATATAAC
* * *
13694216 AGGATGCTCACAAAGAGCTGC-GATATTTCTGCAAGACATGCAGGATCAATACCGATC
1 AGGATGCTCACAAAGAGCTGCAG-TATGTCTACAAGACATGCAAGATCAATACCGATC
13694273 GAGATGCTCG
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
63 1 0.02
64 50 0.98
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.22
Consensus pattern (64 bp):
AGGATGCTCACAAAGAGCTGCAGTATGTCTACAAGACATGCAAGATCAATACCGATCATATAAC
Found at i:13694670 original size:11 final size:11
Alignment explanation
Indices: 13694654--13694686 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
13694644 TACTTTAATA
13694654 CAATTCACATT
1 CAATTCACATT
*
13694665 CAATTC-CATC
1 CAATTCACATT
13694675 CAATTCACATT
1 CAATTCACATT
13694686 C
1 C
13694687 TAGGAAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (11 bp):
CAATTCACATT
Found at i:13698821 original size:34 final size:33
Alignment explanation
Indices: 13698717--13698825 Score: 112
Period size: 34 Copynumber: 3.2 Consensus size: 33
13698707 AATGTCACCC
*
13698717 AATGAGTTAGGATATGATTTTTCTCATCCTTAAA
1 AATGAGTTAGGATATGA-TTTTCTCATCCTCAAA
* ** * * **
13698751 AATGAGTTTGTCCTTTGATTTT-TAAAACTCAAA
1 AATGAGTTAG-GATATGATTTTCTCATCCTCAAA
13698784 AATGAGTTAGGATATGATGTTTCTCATCCTCAAA
1 AATGAGTTAGGATATGAT-TTTCTCATCCTCAAA
13698818 AATGAGTT
1 AATGAGTT
13698826 TGTCCTTTGA
Statistics
Matches: 57, Mismatches: 15, Indels: 6
0.73 0.19 0.08
Matches are distributed among these distances:
32 5 0.09
33 19 0.33
34 29 0.51
35 4 0.07
ACGTcount: A:0.33, C:0.12, G:0.16, T:0.39
Consensus pattern (33 bp):
AATGAGTTAGGATATGATTTTCTCATCCTCAAA
Found at i:13698825 original size:67 final size:67
Alignment explanation
Indices: 13698717--13698848 Score: 246
Period size: 67 Copynumber: 2.0 Consensus size: 67
13698707 AATGTCACCC
* *
13698717 AATGAGTTAGGATATGATTTTTCTCATCCTTAAAAATGAGTTTGTCCTTTGATTTTTAAAACTCA
1 AATGAGTTAGGATATGATGTTTCTCATCCTCAAAAATGAGTTTGTCCTTTGATTTTTAAAACTCA
13698782 AA
66 AA
13698784 AATGAGTTAGGATATGATGTTTCTCATCCTCAAAAATGAGTTTGTCCTTTGATTTTTAAAACTCA
1 AATGAGTTAGGATATGATGTTTCTCATCCTCAAAAATGAGTTTGTCCTTTGATTTTTAAAACTCA
13698849 TACAATGAAG
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
67 63 1.00
ACGTcount: A:0.32, C:0.13, G:0.14, T:0.41
Consensus pattern (67 bp):
AATGAGTTAGGATATGATGTTTCTCATCCTCAAAAATGAGTTTGTCCTTTGATTTTTAAAACTCA
AA
Found at i:13698856 original size:34 final size:33
Alignment explanation
Indices: 13698748--13698848 Score: 114
Period size: 33 Copynumber: 3.0 Consensus size: 33
13698738 TCTCATCCTT
13698748 AAAAATGAGTTTGTCCTTTGATTTTTAAAACTC
1 AAAAATGAGTTTGTCCTTTGATTTTTAAAACTC
* ** * * **
13698781 AAAAATGAGTTAG-GATATGATGTTTCTCATCCTC
1 AAAAATGAGTTTGTCCTTTGAT-TTT-TAAAACTC
13698815 AAAAATGAGTTTGTCCTTTGATTTTTAAAACTC
1 AAAAATGAGTTTGTCCTTTGATTTTTAAAACTC
13698848 A
1 A
13698849 TACAATGAAG
Statistics
Matches: 51, Mismatches: 14, Indels: 6
0.72 0.20 0.08
Matches are distributed among these distances:
32 5 0.10
33 21 0.41
34 20 0.39
35 5 0.10
ACGTcount: A:0.34, C:0.13, G:0.14, T:0.40
Consensus pattern (33 bp):
AAAAATGAGTTTGTCCTTTGATTTTTAAAACTC
Found at i:13699266 original size:20 final size:20
Alignment explanation
Indices: 13699253--13699290 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
13699243 AAAATAATTT
13699253 ATAAAATATTAAAATAAAGA
1 ATAAAATATTAAAATAAAGA
*
13699273 ATCAAATATTAAAATAAA
1 ATAAAATATTAAAATAAA
13699291 AATGAAATGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.26
Consensus pattern (20 bp):
ATAAAATATTAAAATAAAGA
Found at i:13701180 original size:45 final size:45
Alignment explanation
Indices: 13701080--13701193 Score: 131
Period size: 45 Copynumber: 2.5 Consensus size: 45
13701070 CAATTTGCCC
* * *
13701080 CACTGTAACTTTAGAGGGATAAGATTTGATATCTTCAACCTGCTG
1 CACTGTAACTTCAGAGAGATAAGATTTGATATCTTCAACCTGCTA
* ** *
13701125 CATTGTAACTTCAGAGAGATAA-ATTTTGATATCTTCAGTCTGTTA
1 CACTGTAACTTCAGAGAGATAAGA-TTTGATATCTTCAACCTGCTA
* *
13701170 CACTGCAACTTCAGGGAGATAAGA
1 CACTGTAACTTCAGAGAGATAAGA
13701194 CTTGTTATAG
Statistics
Matches: 57, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
44 1 0.02
45 55 0.96
46 1 0.02
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.32
Consensus pattern (45 bp):
CACTGTAACTTCAGAGAGATAAGATTTGATATCTTCAACCTGCTA
Found at i:13701275 original size:44 final size:45
Alignment explanation
Indices: 13701221--13701412 Score: 105
Period size: 44 Copynumber: 4.2 Consensus size: 45
13701211 AATTCGACCT
* * * *
13701221 ACTGTAACTTCAGAGG-TATAGGATTCATCAT-TTTAATCTGTTCC
1 ACTGCAACTTCAGAGGAGATAGGATTCAT-ATCTTTAACCTGCTCC
* **
13701265 ACTGCAACTTC-GGGGAGATAGGATTTGTATCTTTAACCTGCTCC
1 ACTGCAACTTCAGAGGAGATAGGATTCATATCTTTAACCTGCTCC
* *
13701309 ACTACAACTTCAGA-GAGAT-GAGA-TCTATAATTTAGCTTTAATCTGCTCC
1 ACTGCAACTTCAGAGGAGATAG-GATTC-AT-A--T--CTTTAACCTGCTCC
* **
13701358 ACTGCAACTTCAG-GGAAAT-GAGATTTGC-TATCTTTAGTCTGCTCC
1 ACTGCAACTTCAGAGGAGATAG-GA-TT-CATATCTTTAACCTGCTCC
*
13701403 ACTACAACTT
1 ACTGCAACTT
13701413 TAGGGATATA
Statistics
Matches: 118, Mismatches: 16, Indels: 27
0.73 0.10 0.17
Matches are distributed among these distances:
43 7 0.06
44 48 0.41
45 24 0.20
47 2 0.02
49 34 0.29
50 1 0.01
51 1 0.01
52 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (45 bp):
ACTGCAACTTCAGAGGAGATAGGATTCATATCTTTAACCTGCTCC
Found at i:13701497 original size:45 final size:43
Alignment explanation
Indices: 13701252--13701516 Score: 149
Period size: 44 Copynumber: 5.9 Consensus size: 43
13701242 GATTCATCAT
* * * *
13701252 TTTAATCTGTTCCACTGCAACTTCGGGGAGATAGGATT-TGTATC
1 TTTAATCTGCTCCACTGCAACTTCAGGGAAATAAGATTGTG-A-C
* * * * * * *
13701296 TTTAACCTGCTCCACTACAACTTCAGAGAGATGAGATCTATAATTTAGC
1 TTTAATCTGCTCCACTGCAACTTCAGGGAAATAAGA--T-T--GTGA-C
*
13701345 TTTAATCTGCTCCACTGCAACTTCAGGGAAATGAGATT-TGCTATC
1 TTTAATCTGCTCCACTGCAACTTCAGGGAAATAAGATTGTG--A-C
* * * * *
13701390 TTTAGTCTGCTCCACTACAACTTTAGGGATATAAGAATTGTGGC
1 TTTAATCTGCTCCACTGCAACTTCAGGGAAATAAG-ATTGTGAC
* * **
13701434 TTCAATCTAAC-CCACTGCAACTTCAGGGAGGGTAAGATTAGTGAC
1 TTTAATCT-GCTCCACTGCAACTTCAGGGA-AATAAGATT-GTGAC
* * * *
13701479 TTTAATCTGCTCCGCTGCAACTCCAAGGAGATAAGATT
1 TTTAATCTGCTCCACTGCAACTTCAGGGAAATAAGATT
13701517 TGCCATAATA
Statistics
Matches: 172, Mismatches: 35, Indels: 28
0.73 0.15 0.12
Matches are distributed among these distances:
43 1 0.01
44 64 0.37
45 63 0.37
46 5 0.03
47 4 0.02
49 34 0.20
50 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.31
Consensus pattern (43 bp):
TTTAATCTGCTCCACTGCAACTTCAGGGAAATAAGATTGTGAC
Found at i:13702892 original size:46 final size:46
Alignment explanation
Indices: 13702805--13702893 Score: 115
Period size: 46 Copynumber: 1.9 Consensus size: 46
13702795 TCTTTTTCTA
*
13702805 TTTTTTTACGACTCAAAGCACCCTTTGTGGATTTTCGCCTTGGTCT
1 TTTTTTTACGACTCAAAGCACCCTTTGTGGATTTTCACCTTGGTCT
* ** * * *
13702851 TTTTTTTAGGACTCAAAGCGTCCTTTTTGGGTTTTTACCTTGG
1 TTTTTTTACGACTCAAAGCACCCTTTGTGGATTTTCACCTTGG
13702894 CCCCTTCTCC
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 36 1.00
ACGTcount: A:0.15, C:0.20, G:0.19, T:0.46
Consensus pattern (46 bp):
TTTTTTTACGACTCAAAGCACCCTTTGTGGATTTTCACCTTGGTCT
Found at i:13710041 original size:19 final size:19
Alignment explanation
Indices: 13710000--13710045 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
13709990 GGTGGACTTT
* *
13710000 AATGCAAATGATGTAATCT
1 AATGCAAATGATGAAATCG
13710019 AATGCAAATGCATGAAAT-G
1 AATGCAAATG-ATGAAATCG
13710038 AATGCAAA
1 AATGCAAA
13710046 AAGGCATCGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.75
20 6 0.25
ACGTcount: A:0.48, C:0.11, G:0.17, T:0.24
Consensus pattern (19 bp):
AATGCAAATGATGAAATCG
Found at i:13716473 original size:20 final size:20
Alignment explanation
Indices: 13716460--13716497 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
13716450 AAAATAATTT
13716460 ATAAAATATTAAAATAAAGA
1 ATAAAATATTAAAATAAAGA
*
13716480 ATCAAATATTAAAATAAA
1 ATAAAATATTAAAATAAA
13716498 AATGAAATGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.26
Consensus pattern (20 bp):
ATAAAATATTAAAATAAAGA
Found at i:13722484 original size:13 final size:13
Alignment explanation
Indices: 13722466--13722490 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13722456 TGATTGCAGA
13722466 TTTTTCTTCTTTC
1 TTTTTCTTCTTTC
13722479 TTTTTCTTCTTT
1 TTTTTCTTCTTT
13722491 GGATTCTTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTTTCTTCTTTC
Found at i:13723375 original size:24 final size:24
Alignment explanation
Indices: 13723339--13723408 Score: 83
Period size: 24 Copynumber: 2.9 Consensus size: 24
13723329 CATATTTTTG
13723339 AAGTTATCG-TGTATTATTATTCTAA
1 AAGTTAT-GTTGTATTATTATT-TAA
*
13723364 AA-TTAT-TATGTATTATTACTTAA
1 AAGTTATGT-TGTATTATTATTTAA
13723387 AAGTTATGTTGTATTATTATTT
1 AAGTTATGTTGTATTATTATTT
13723409 TATTATTTGT
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
23 5 0.13
24 31 0.79
25 3 0.08
ACGTcount: A:0.33, C:0.04, G:0.10, T:0.53
Consensus pattern (24 bp):
AAGTTATGTTGTATTATTATTTAA
Found at i:13725182 original size:16 final size:16
Alignment explanation
Indices: 13725161--13725212 Score: 95
Period size: 16 Copynumber: 3.2 Consensus size: 16
13725151 TTTGGTTCGC
13725161 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
13725177 TGTATTAGATTAGAGG
1 TGTATTGGATTAGAGG
13725193 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
13725209 TGTA
1 TGTA
13725213 ATAGCAAATC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.27, C:0.00, G:0.35, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:13725460 original size:16 final size:16
Alignment explanation
Indices: 13725423--13725464 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
13725413 TTAATCATAT
*
13725423 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
13725439 TT-AAATATATTATAA
1 TTAAAATATATTATAA
13725454 TTAAAATATAT
1 TTAAAATATAT
13725465 AATTTAGTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:13725591 original size:14 final size:15
Alignment explanation
Indices: 13725542--13725593 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
13725532 ATAAAATATA
13725542 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
13725557 TATTAAATATATTAT
1 AATTAAATATATTAT
13725572 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
13725585 AATTTAATA
1 AATTAAATA
13725594 AAATTATTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:13734695 original size:27 final size:26
Alignment explanation
Indices: 13734664--13734718 Score: 83
Period size: 27 Copynumber: 2.1 Consensus size: 26
13734654 TAACTAAAAT
13734664 TAAATTGAATTAGAGAAACATATTAAA
1 TAAATTGAATTAGAG-AACATATTAAA
* *
13734691 TAAATTGGATTAGAGAATATATTAAA
1 TAAATTGAATTAGAGAACATATTAAA
13734717 TA
1 TA
13734719 TGAATGAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
26 12 0.46
27 14 0.54
ACGTcount: A:0.53, C:0.02, G:0.13, T:0.33
Consensus pattern (26 bp):
TAAATTGAATTAGAGAACATATTAAA
Found at i:13735857 original size:6 final size:6
Alignment explanation
Indices: 13735849--13735883 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
13735839 GCTAAAACAA
*
13735849 CTTCAA CTTCAC CTTCAC CTTCAC CTTCAC CTTCA
1 CTTCAC CTTCAC CTTCAC CTTCAC CTTCAC CTTCA
13735884 ATTGCTGTTG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.20, C:0.46, G:0.00, T:0.34
Consensus pattern (6 bp):
CTTCAC
Found at i:13743888 original size:16 final size:17
Alignment explanation
Indices: 13743849--13743890 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
13743839 GATTGCTAAT
13743849 ATTTTAATTTGTTTACA
1 ATTTTAATTTGTTTACA
* *
13743866 ATATTAATTT-TTTATA
1 ATTTTAATTTGTTTACA
13743882 ATTTTAATT
1 ATTTTAATT
13743891 CAATATACTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
16 13 0.59
17 9 0.41
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (17 bp):
ATTTTAATTTGTTTACA
Found at i:13743943 original size:5 final size:5
Alignment explanation
Indices: 13743933--13743976 Score: 88
Period size: 5 Copynumber: 8.8 Consensus size: 5
13743923 TAAAAATCTA
13743933 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATA
1 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATA
13743977 ATCAAATTAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 39 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
AATAT
Found at i:13745959 original size:14 final size:13
Alignment explanation
Indices: 13745937--13745966 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
13745927 TAATTAATCA
13745937 TAATTAATTTAAT
1 TAATTAATTTAAT
13745950 TAATTAAATTTAAT
1 TAATT-AATTTAAT
13745964 TAA
1 TAA
13745967 AAAATAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.31
14 11 0.69
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
TAATTAATTTAAT
Found at i:13752735 original size:4 final size:4
Alignment explanation
Indices: 13752728--13752756 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
13752718 TAATTAAACA
13752728 TAAT TAAT TAAT TAAT T-AT TAAT TAAT TA
1 TAAT TAAT TAAT TAAT TAAT TAAT TAAT TA
13752757 GGACTTAATC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
3 3 0.12
4 21 0.88
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (4 bp):
TAAT
Found at i:13754184 original size:18 final size:18
Alignment explanation
Indices: 13754161--13754203 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
13754151 ACCCAATCTA
**
13754161 AACCCAAGTATTCAACCC
1 AACCCAAGTACCCAACCC
*
13754179 AACCCAATTACCCAACCC
1 AACCCAAGTACCCAACCC
13754197 AACCCAA
1 AACCCAA
13754204 TCATAAAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.42, C:0.44, G:0.02, T:0.12
Consensus pattern (18 bp):
AACCCAAGTACCCAACCC
Found at i:13754325 original size:9 final size:9
Alignment explanation
Indices: 13754311--13754385 Score: 82
Period size: 9 Copynumber: 8.4 Consensus size: 9
13754301 GTAGTGATTC
*
13754311 AATTTGGTT
1 AATTCGGTT
*
13754320 AATTTGGTT
1 AATTCGGTT
13754329 AATTCGG-T
1 AATTCGGTT
*
13754337 AATTC-ATGT
1 AATTCGGT-T
13754346 AATTCGGTT
1 AATTCGGTT
*
13754355 AATTCGGGT
1 AATTCGGTT
*
13754364 GATTCGGTT
1 AATTCGGTT
13754373 AATTCGGTT
1 AATTCGGTT
13754382 AATT
1 AATT
13754386 TTTAACCAAA
Statistics
Matches: 56, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
8 6 0.11
9 49 0.88
10 1 0.02
ACGTcount: A:0.24, C:0.08, G:0.23, T:0.45
Consensus pattern (9 bp):
AATTCGGTT
Found at i:13754784 original size:40 final size:40
Alignment explanation
Indices: 13754716--13754794 Score: 104
Period size: 40 Copynumber: 2.0 Consensus size: 40
13754706 TACGTGGACA
* *
13754716 CAAAGCGCGCTTACGAGGATGCGATTTGTTCCCACGTAGG
1 CAAAGCGCGCTGACGAGGACGCGATTTGTTCCCACGTAGG
* * * *
13754756 CAAAGCGCGCTGACGTGGACGCGTTTTGTTGCCATGTAG
1 CAAAGCGCGCTGACGAGGACGCGATTTGTTCCCACGTAG
13754795 CGCGCCCCTG
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.20, C:0.24, G:0.32, T:0.24
Consensus pattern (40 bp):
CAAAGCGCGCTGACGAGGACGCGATTTGTTCCCACGTAGG
Found at i:13755010 original size:51 final size:51
Alignment explanation
Indices: 13754943--13755040 Score: 135
Period size: 51 Copynumber: 1.9 Consensus size: 51
13754933 AATTATTTTC
*
13754943 TTAATTTCCTCTCAATTTGCT-TCCAAATTTCTCTCAAATCCATATTTAATT
1 TTAATTTCCTCTCAATTTCCTCT-CAAATTTCTCTCAAATCCATATTTAATT
* * * *
13754994 TTAATTTTCTCTCAATTTCCTCTTAAATTTCTCTTAAATCCCTATTT
1 TTAATTTCCTCTCAATTTCCTCTCAAATTTCTCTCAAATCCATATTT
13755041 TTAATTATTT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
51 40 0.98
52 1 0.02
ACGTcount: A:0.26, C:0.23, G:0.01, T:0.50
Consensus pattern (51 bp):
TTAATTTCCTCTCAATTTCCTCTCAAATTTCTCTCAAATCCATATTTAATT
Found at i:13756881 original size:18 final size:18
Alignment explanation
Indices: 13756858--13756900 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
13756848 TGCCAGGTGC
* *
13756858 GTATCCTAGCCCTTTTAT
1 GTATCCTAACCCTTATAT
13756876 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
*
13756894 GTTTCCT
1 GTATCCT
13756901 TTTTTGAGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.19, C:0.28, G:0.09, T:0.44
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:13757845 original size:21 final size:22
Alignment explanation
Indices: 13757454--13757843 Score: 547
Period size: 21 Copynumber: 18.4 Consensus size: 22
13757444 CCCTAACCCT
*
13757454 AACCCT-ATCCCTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAA
*
13757475 AACCCT-AACTCTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAA
13757496 AACCCTAAACCCTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAA
13757518 AACCCTAAACCCTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAA
13757540 AACCCT-AA-CCTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAA
* *
13757560 AACCTTAAATCCTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAA
* *
13757582 AACCTTAAACCTTTAACTT-AA
1 AACCCTAAACCCTTAACTTAAA
13757603 AACCCTAAACCCTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAA
*
13757625 AACCCT-AACCTTTAACTT-AA
1 AACCCTAAACCCTTAACTTAAA
*
13757645 AATCCTAAACCCTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAA
13757667 AACCCT-AA-CCTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAA
*
13757687 AACCCTAAATCCTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAA
** *
13757709 AACATTAAACCTTTAACTT-AA
1 AACCCTAAACCCTTAACTTAAA
13757730 AACCCTAAACCCTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAA
*
13757752 AACCCT-AACCTTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAA
*
13757773 AACCCT-AACCTTTAACTT-AA
1 AACCCTAAACCCTTAACTTAAA
*
13757793 AATCCTAAACCCTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAA
13757815 AACCCT-AACCCTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAA
13757836 AACCCTAA
1 AACCCTAA
13757844 CCGTAACCCT
Statistics
Matches: 334, Mismatches: 23, Indels: 23
0.88 0.06 0.06
Matches are distributed among these distances:
20 49 0.15
21 156 0.47
22 129 0.39
ACGTcount: A:0.44, C:0.29, G:0.00, T:0.27
Consensus pattern (22 bp):
AACCCTAAACCCTTAACTTAAA
Found at i:13757856 original size:127 final size:128
Alignment explanation
Indices: 13757465--13757839 Score: 607
Period size: 127 Copynumber: 2.9 Consensus size: 128
13757455 ACCCTATCCC
* *
13757465 TTAACTTAAAAACCCT-AACTCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCTAAACC
1 TTAACTT-AAAACCCTAAACCCTTAACTTAAAAACCCT-AACCTTTAACTTAAAAACCCTAAACC
*
13757529 CTTAACTTAAAAACCCTAACCTTAACTTAAAAACCTTAAATCCTTAACTTAAAAACCTTAAACCT
64 CTTAACTTAAAAACCCTAACCTTAACTTAAAAACCCTAAATCCTTAACTTAAAAACCTTAAACCT
*
13757594 TTAACTTAAAACCCTAAACCCTTAACTTAAAAACCCTAACCTTTAACTT-AAAATCCTAAACCCT
1 TTAACTTAAAACCCTAAACCCTTAACTTAAAAACCCTAACCTTTAACTTAAAAACCCTAAACCCT
*
13757658 TAACTTAAAAACCCTAACCTTAACTTAAAAACCCTAAATCCTTAACTTAAAAACATTAAACCT
66 TAACTTAAAAACCCTAACCTTAACTTAAAAACCCTAAATCCTTAACTTAAAAACCTTAAACCT
*
13757721 TTAACTTAAAACCCTAAACCCTTAACTTAAAAACCCTAACCTTTAACTTAAAAACCCT-AACCTT
1 TTAACTTAAAACCCTAAACCCTTAACTTAAAAACCCTAACCTTTAACTTAAAAACCCTAAACCCT
* *
13757785 TAACTT-AAAATCCTAAACCCTTAACTTAAAAACCCT-AACCCTTAACTTAAAAACC
66 TAACTTAAAAACCCT-AA-CCTTAACTTAAAAACCCTAAATCCTTAACTTAAAAACC
13757840 CTAACCGTAA
Statistics
Matches: 232, Mismatches: 10, Indels: 10
0.92 0.04 0.04
Matches are distributed among these distances:
126 7 0.03
127 154 0.66
128 44 0.19
129 27 0.12
ACGTcount: A:0.45, C:0.28, G:0.00, T:0.27
Consensus pattern (128 bp):
TTAACTTAAAACCCTAAACCCTTAACTTAAAAACCCTAACCTTTAACTTAAAAACCCTAAACCCT
TAACTTAAAAACCCTAACCTTAACTTAAAAACCCTAAATCCTTAACTTAAAAACCTTAAACCT
Found at i:13758062 original size:112 final size:112
Alignment explanation
Indices: 13757912--13758124 Score: 372
Period size: 112 Copynumber: 1.9 Consensus size: 112
13757902 AACCTAACCC
13757912 TAATATGATATAATTTGATAAATTTACTAACAATTAATACAATTAACAATTAATAATTTGACTAA
1 TAATATGATATAATTTGATAAATTTACTAACAATTAATACAATTAACAATTAATAATTTGACTAA
*
13757977 CAAAATGTTAGATTTTACAAAATGTTTTGACTGGTATTAACAATTAA
66 CAAAATGTTAGATTTTACAAAATATTTTGACTGGTATTAACAATTAA
* * * *
13758024 TAATTTGATATAATTTGGTAATTTTACTAACAATTAATACAATTAACAATTAATAATTTTACTAA
1 TAATATGATATAATTTGATAAATTTACTAACAATTAATACAATTAACAATTAATAATTTGACTAA
*
13758089 CAAAATGTTAGATTTTATAAAATATTTTGACTGGTA
66 CAAAATGTTAGATTTTACAAAATATTTTGACTGGTA
13758125 CAAAAAAATA
Statistics
Matches: 95, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
112 95 1.00
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (112 bp):
TAATATGATATAATTTGATAAATTTACTAACAATTAATACAATTAACAATTAATAATTTGACTAA
CAAAATGTTAGATTTTACAAAATATTTTGACTGGTATTAACAATTAA
Found at i:13758089 original size:19 final size:19
Alignment explanation
Indices: 13758042--13758091 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 19
13758032 TATAATTTGG
13758042 TAATTTTACTAACAATTAA
1 TAATTTTACTAACAATTAA
*
13758061 TACA----ATTAACAATTAA
1 TA-ATTTTACTAACAATTAA
13758077 TAATTTTACTAACAA
1 TAATTTTACTAACAA
13758092 AATGTTAGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 10
0.67 0.06 0.28
Matches are distributed among these distances:
15 1 0.04
16 13 0.54
19 9 0.38
20 1 0.04
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (19 bp):
TAATTTTACTAACAATTAA
Found at i:13761363 original size:125 final size:125
Alignment explanation
Indices: 13761135--13761440 Score: 470
Period size: 125 Copynumber: 2.4 Consensus size: 125
13761125 CCCAAATATG
* * * *
13761135 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCATAAATTCTTCTGATAAAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCAGAAATTTTTTTGATAAAGCATCCTGC
* *
13761200 TTGAAGCGTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTTAGG-A
66 TTGAAGCGTTTTTTATACTATTTACTCAGAAACGTCAACTCGAAATTATTTTTTCAGGAA
* * * *
13761259 CTTACTATAGCAAAAGCGCGTCCATGTGAGCGTGATTTCAGAAATTTTTTTGATAAAGCATCCTG
1 C-TACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCAGAAATTTTTTTGATAAAGCATCCTG
*
13761324 CTTGAAGTGTTTTTTATACTATTTACTCAGAAACGTCAACTCGAAATTATTTTTTCAGGAA
65 CTTGAAGCGTTTTTTATACTATTTACTCAGAAACGTCAACTCGAAATTATTTTTTCAGGAA
* * *
13761385 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTTAGAATTTTTTTTGTTAAA
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCAGAAATTTTTTTGATAAA
13761441 AATCTTAGAA
Statistics
Matches: 162, Mismatches: 18, Indels: 3
0.89 0.10 0.02
Matches are distributed among these distances:
124 1 0.01
125 159 0.98
126 2 0.01
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.35
Consensus pattern (125 bp):
CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCAGAAATTTTTTTGATAAAGCATCCTGC
TTGAAGCGTTTTTTATACTATTTACTCAGAAACGTCAACTCGAAATTATTTTTTCAGGAA
Found at i:13772171 original size:26 final size:26
Alignment explanation
Indices: 13772118--13772172 Score: 69
Period size: 26 Copynumber: 2.1 Consensus size: 26
13772108 CCCCACCTAT
*
13772118 TTTTTTTTTCACACAATTTCCTTGAA
1 TTTTTTTTTCACACAATTTCCTTAAA
13772144 TTTTTTTTTC-CA-AATTTCTCTCTAAA
1 TTTTTTTTTCACACAATTTC-CT-TAAA
13772170 TTT
1 TTT
13772173 CTCAAAGCTC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
24 6 0.23
25 4 0.15
26 16 0.62
ACGTcount: A:0.22, C:0.18, G:0.02, T:0.58
Consensus pattern (26 bp):
TTTTTTTTTCACACAATTTCCTTAAA
Found at i:13773959 original size:18 final size:18
Alignment explanation
Indices: 13773936--13773973 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
13773926 TGCCAGGTGC
*
13773936 GTATCCTAGCCCTTATAT
1 GTATCCTAACCCTTATAT
13773954 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
13773972 GT
1 GT
13773974 TTCTTTTTCC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.24, C:0.26, G:0.11, T:0.39
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:13775361 original size:14 final size:14
Alignment explanation
Indices: 13775342--13775378 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
13775332 TATTTGTGGC
13775342 AATTAAATATTACA
1 AATTAAATATTACA
13775356 AATTAAATATTACA
1 AATTAAATATTACA
*
13775370 AATGAAATA
1 AATTAAATA
13775379 ATATTAGTGG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.59, C:0.05, G:0.03, T:0.32
Consensus pattern (14 bp):
AATTAAATATTACA
Found at i:13777077 original size:51 final size:50
Alignment explanation
Indices: 13776956--13777084 Score: 141
Period size: 50 Copynumber: 2.6 Consensus size: 50
13776946 GGTAAAGAGG
* * * * * **
13776956 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGTACCGAGAGGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGACATGGGCACCAAGAGGAGACA
* ** * *
13777006 TCCCCTGTAAGATTATGTCTGGGACATGACATGGGCACCAATATGAGAACA
1 TCCCATGTAAGACCATGTCTGGGACATGACATGGGCACCAAGAGGAG-ACA
13777057 TCCCATGTAAGACCATGTCTGGGACATG
1 TCCCATGTAAGACCATGTCTGGGACATG
13777085 GCTTTGGCAT
Statistics
Matches: 63, Mismatches: 15, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
50 37 0.59
51 26 0.41
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.22
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGACATGGGCACCAAGAGGAGACA
Found at i:13778615 original size:25 final size:25
Alignment explanation
Indices: 13778528--13778617 Score: 130
Period size: 25 Copynumber: 3.6 Consensus size: 25
13778518 ACCAACACCC
13778528 AACTTCTTCAATTT-ATATTCTTCTG
1 AACTTCTTCAATTTCA-ATTCTTCTG
*
13778553 AACTTCTTCAATTTCTATTCTTCTG
1 AACTTCTTCAATTTCAATTCTTCTG
*
13778578 AACTTCTTCAATTTCAATTCTTATG
1 AACTTCTTCAATTTCAATTCTTCTG
13778603 AACTTCTAT-AATTTC
1 AACTTCT-TCAATTTC
13778618 TCTTGCTATA
Statistics
Matches: 60, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
25 59 0.98
26 1 0.02
ACGTcount: A:0.26, C:0.21, G:0.03, T:0.50
Consensus pattern (25 bp):
AACTTCTTCAATTTCAATTCTTCTG
Found at i:13778972 original size:126 final size:126
Alignment explanation
Indices: 13778686--13779362 Score: 946
Period size: 126 Copynumber: 5.4 Consensus size: 126
13778676 AAGCAGGATG
* **
13778686 TACTGTAGAAAAAGAGCATCCAGGTGGGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATCCTAT
1 TACTGTAGAAAAAGAGCGTCCAGGTGGGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATCCTGC
* * *
13778751 TTGAAGTGTTTTTGACACTATTTTTTCAAAACCATCTTCTCAAAATCATTTTTT-AGAAAC
66 TTGAAGCGTTTTTGACACTATTTTTTCAGAACCATCTTCTCAAAATTATTTTTTCAGAAAC
* *
13778811 TACTGTAGAAAAAGAGCATCCATGTGGGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATCCTGC
1 TACTGTAGAAAAAGAGCGTCCAGGTGGGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATCCTGC
* *
13778876 TTGAAGTGTTTTTGACATTATTTTTTCAGAACCATCTTCTCAAAATTATTTTTTCAGAAAC
66 TTGAAGCGTTTTTGACACTATTTTTTCAGAACCATCTTCTCAAAATTATTTTTTCAGAAAC
* * * *
13778937 TACTGTAGAAAAAGAGCGTCAATGTGAGAGCTTTTTTCAGTACTTTTGCTGACTGTGCATCCTGC
1 TACTGTAGAAAAAGAGCGTCCAGGTGGGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATCCTGC
* *
13779002 TTGAAGCATTTTTGACACTATTTTTTCAGAACCATCTTCTCAAAGTTATTTTTTCAGAAAC
66 TTGAAGCGTTTTTGACACTATTTTTTCAGAACCATCTTCTCAAAATTATTTTTTCAGAAAC
* **
13779063 TACTATAGAAAAAGAGCGTTAAGGTGGGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATCCTGC
1 TACTGTAGAAAAAGAGCGTCCAGGTGGGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATCCTGC
* *
13779128 TTGAAGAGTTTTTGACACTATTTTTTCAGAATCATCTTCTCAAAATTATTTTTTCAGAAAC
66 TTGAAGCGTTTTTGACACTATTTTTTCAGAACCATCTTCTCAAAATTATTTTTTCAGAAAC
* * * ** * * * * * **
13779189 TACTATAGAAAAATGA-AGTCTATATGGGTGTTTTTTTTAGTACTTTTGCTAAAAGTGCATTTTG
1 TACTGTAGAAAAA-GAGCGTCCAGGTGGGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATCCTG
* * * * * *
13779253 TTTGAAGCGATTTTAAGACTATTTTTTCAGAACCGTCTTCTCAAAATTA-TTTTTCAAAAAC
65 CTTGAAGCGTTTTTGACACTATTTTTTCAGAACCATCTTCTCAAAATTATTTTTTCAGAAAC
* * *
13779314 TACTGTAGAAAAAAAGAGTCCAGGTGGGAGCTTTTTTCACTACTTTTGC
1 TACTGTAGAAAAAGAGCGTCCAGGTGGGAGCTTTTTTCAGTACTTTTGC
13779363 CGACTAAACA
Statistics
Matches: 497, Mismatches: 52, Indels: 6
0.90 0.09 0.01
Matches are distributed among these distances:
124 1 0.00
125 162 0.33
126 332 0.67
127 2 0.00
ACGTcount: A:0.29, C:0.16, G:0.17, T:0.39
Consensus pattern (126 bp):
TACTGTAGAAAAAGAGCGTCCAGGTGGGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATCCTGC
TTGAAGCGTTTTTGACACTATTTTTTCAGAACCATCTTCTCAAAATTATTTTTTCAGAAAC
Found at i:13779518 original size:28 final size:28
Alignment explanation
Indices: 13779452--13779584 Score: 117
Period size: 28 Copynumber: 4.6 Consensus size: 28
13779442 TAAAAACCCT
* * *
13779452 AAAACCTTAAACACAAATTTA-TTTTTA
1 AAAACCATAAACCCTAATTTATTTTTTA
*
13779479 AAAATCCCTAAACCCTAATTTATTTTTTA
1 AAAA-CCATAAACCCTAATTTATTTTTTA
* * *
13779508 TAAACAATAAATCCTAATTTAATTTATTTTTTA
1 AAAACCATAAA-CC----CTAATTTATTTTTTA
*
13779541 AAAACCATAAACCATAATTTA-TTTTTA
1 AAAACCATAAACCCTAATTTATTTTTTA
*
13779568 AAAACCCTAAACCCTAA
1 AAAACCATAAACCCTAA
13779585 ACATATAAAA
Statistics
Matches: 87, Mismatches: 12, Indels: 14
0.77 0.11 0.12
Matches are distributed among these distances:
27 25 0.29
28 26 0.30
29 11 0.13
32 2 0.02
33 23 0.26
ACGTcount: A:0.45, C:0.17, G:0.00, T:0.38
Consensus pattern (28 bp):
AAAACCATAAACCCTAATTTATTTTTTA
Found at i:13779536 original size:33 final size:33
Alignment explanation
Indices: 13779494--13779561 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
13779484 CCCTAAACCC
*
13779494 TAATTTATTTTTTATAAACAATAAATCC-TAATT
1 TAATTTATTTTTTAAAAACAATAAA-CCATAATT
*
13779527 TAATTTATTTTTTAAAAACCATAAACCATAATT
1 TAATTTATTTTTTAAAAACAATAAACCATAATT
13779560 TA
1 TA
13779562 TTTTTAAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
32 2 0.06
33 30 0.94
ACGTcount: A:0.44, C:0.10, G:0.00, T:0.46
Consensus pattern (33 bp):
TAATTTATTTTTTAAAAACAATAAACCATAATT
Found at i:13787007 original size:27 final size:29
Alignment explanation
Indices: 13786954--13787012 Score: 77
Period size: 30 Copynumber: 2.1 Consensus size: 29
13786944 GAACATTGTA
*
13786954 TTAGAACCCATATCTTCAAAATTATTATTT
1 TTAGAACCCATATCGTCAAAA-TATTATTT
*
13786984 TTAGAACCCATCTCGTC-AAA-ATTATTT
1 TTAGAACCCATATCGTCAAAATATTATTT
13787011 TT
1 TT
13787013 CATAACCCCT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
27 9 0.33
29 3 0.11
30 15 0.56
ACGTcount: A:0.34, C:0.19, G:0.05, T:0.42
Consensus pattern (29 bp):
TTAGAACCCATATCGTCAAAATATTATTT
Found at i:13787171 original size:22 final size:21
Alignment explanation
Indices: 13787143--13787216 Score: 73
Period size: 22 Copynumber: 3.5 Consensus size: 21
13787133 TAGAATACTA
13787143 AAACCCTAATTTTATAAACCTT
1 AAACCCTAATTTTATAAACC-T
*
13787165 AAGCCCTAA--TTA-AAACACT
1 AAACCCTAATTTTATAAAC-CT
*
13787184 AAACCCTAATTTAATAAACCCT
1 AAACCCTAATTTTATAAA-CCT
*
13787206 AAACCATAATT
1 AAACCCTAATT
13787217 AAATAATTTA
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
19 13 0.30
20 4 0.09
21 2 0.05
22 23 0.53
23 1 0.02
ACGTcount: A:0.46, C:0.24, G:0.01, T:0.28
Consensus pattern (21 bp):
AAACCCTAATTTTATAAACCT
Found at i:13787221 original size:22 final size:22
Alignment explanation
Indices: 13787177--13787222 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
13787167 GCCCTAATTA
* *
13787177 AAACACTAAACCCTAATTTAAT
1 AAACACTAAACCATAATTAAAT
*
13787199 AAACCCTAAACCATAATTAAAT
1 AAACACTAAACCATAATTAAAT
13787221 AA
1 AA
13787223 TTTAAACCCT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.54, C:0.22, G:0.00, T:0.24
Consensus pattern (22 bp):
AAACACTAAACCATAATTAAAT
Found at i:13787709 original size:23 final size:23
Alignment explanation
Indices: 13787657--13787711 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 23
13787647 TATGCTTCCT
13787657 TTAATTAATATTTTATTAAATTGA
1 TTAATTAATATTTTATT-AATTGA
* *
13787681 AT-ATTAATAGTTTTATT-GTTGA
1 TTAATTAATA-TTTTATTAATTGA
13787703 TTAATTAAT
1 TTAATTAAT
13787712 TTGTTAAACT
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
22 5 0.19
23 13 0.50
24 8 0.31
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (23 bp):
TTAATTAATATTTTATTAATTGA
Found at i:13788217 original size:39 final size:38
Alignment explanation
Indices: 13788140--13788218 Score: 88
Period size: 39 Copynumber: 2.1 Consensus size: 38
13788130 TACAACGAAA
*** *
13788140 AAATAATTAACATTTTATTGTAATAAAATTTTAGAATT
1 AAATAATTAACATTTTATTGTAATAAAAGAATACAATT
*
13788178 AAATAATTAAC-TTTATAATTTTAATAAAAGAATACAATT
1 AAATAATTAACATTT-T-ATTGTAATAAAAGAATACAATT
13788217 AA
1 AA
13788219 GCATTTGATT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
37 3 0.09
38 12 0.35
39 19 0.56
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.41
Consensus pattern (38 bp):
AAATAATTAACATTTTATTGTAATAAAAGAATACAATT
Found at i:13791475 original size:315 final size:319
Alignment explanation
Indices: 13790886--13791518 Score: 1028
Period size: 315 Copynumber: 2.0 Consensus size: 319
13790876 GTTGAATAGA
13790886 ATGTTTGTACAATGAATTAATGAAATCAAATGCTAAAAACAAAGAATTGATATGACAAATAAAAT
1 ATGTTTGTACAATGAATTAATGAAATCAAATGCTAAAAACAAAGAATTGATATGACAAATAAAAT
13790951 GTAGTGGAAAATTACAAAGAAAAGCAAGAGTAATTCTATTGTTGAATGAATAGGGCTAGAATTAT
66 GTAGTGGAAAATTA-AAAGAAAAGCAAGAGTAATTCTATTGTTGAATGAATAGGGCTAGAATTAT
* * * * *
13791016 TCAGGTGAAATGCTTATATAAAAAAATGTCATGGAAAAATATTGTCTAATCAATTGCTTAGAGAG
130 TCAGGTGAAATACTTATATAAAAAAATATCATGGAAAAATATTGTCTAATCAACTACTCAGAGAG
13791081 TCACTACTATAACCTGCCTCTTTCGATAGCTAGATCTTAAGCTAAAAATCTAAGTTATTGTATGT
195 TCACTACTATAACCTGCCTCTTTCGATAGCTAGATCTTAAGCTAAAAATCTAAGTTATTGTATGT
* *
13791146 CTACAGAACTCTGGATTAATAACTACAATGAACGTTATTCTCTGTACAACTCGCAACAGG
260 CTACAGAACTCTGGATTAATAACTACAATGAACGTTATTCTCTGCACAACTCACAACAGG
13791206 ATGTTTGTACAATGAATTAATGAAATCAAATGCTAAAAACAAAGAATTGATATGGA-AAATAAAA
1 ATGTTTGTACAATGAATTAATGAAATCAAATGCTAAAAACAAAGAATTGATAT-GACAAATAAAA
* *
13791270 TGTAGTTGCAAA-T-AAA-AAAA-CAAGAGTAATTCTATTGTTGAATGAATAGGGCTCA-AATTA
65 TGTAGTGGAAAATTAAAAGAAAAGCAAGAGTAATTCTATTGTTGAATGAATAGGGCT-AGAATTA
*
13791330 TTCAGGTGAAATACTTATATCAAAAAAATATTATGGAAAAATATTGTCTAATCAACTACTCAGAG
129 TTCAGGTGAAATACTTATAT-AAAAAAATATCATGGAAAAATATTGTCTAATCAACTACTCAGAG
* * * * *
13791395 AGTGACTATTGTAACCTGCCTCTTTCGATAGCTATATCTTAAGCTAAATATCTAAG-TATTGTAT
193 AGTCACTACTATAACCTGCCTCTTTCGATAGCTAGATCTTAAGCTAAAAATCTAAGTTATTGTAT
* *
13791459 GTCTACAGAACTCTGGATTAGTAACTACAATGAACGTTATTCTTTGCACAACTCACAACA
258 GTCTACAGAACTCTGGATTAATAACTACAATGAACGTTATTCTCTGCACAACTCACAACA
13791519 TCTATATCTA
Statistics
Matches: 293, Mismatches: 17, Indels: 11
0.91 0.05 0.03
Matches are distributed among these distances:
315 121 0.41
316 95 0.32
317 3 0.01
319 1 0.00
320 71 0.24
321 2 0.01
ACGTcount: A:0.41, C:0.13, G:0.15, T:0.30
Consensus pattern (319 bp):
ATGTTTGTACAATGAATTAATGAAATCAAATGCTAAAAACAAAGAATTGATATGACAAATAAAAT
GTAGTGGAAAATTAAAAGAAAAGCAAGAGTAATTCTATTGTTGAATGAATAGGGCTAGAATTATT
CAGGTGAAATACTTATATAAAAAAATATCATGGAAAAATATTGTCTAATCAACTACTCAGAGAGT
CACTACTATAACCTGCCTCTTTCGATAGCTAGATCTTAAGCTAAAAATCTAAGTTATTGTATGTC
TACAGAACTCTGGATTAATAACTACAATGAACGTTATTCTCTGCACAACTCACAACAGG
Found at i:13795153 original size:16 final size:15
Alignment explanation
Indices: 13795132--13795163 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
13795122 CAAAATCTAT
13795132 AAAACAATGACAAATA
1 AAAACAAT-ACAAATA
13795148 AAAACAATACAAATA
1 AAAACAATACAAATA
13795163 A
1 A
13795164 GCTAACTTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.72, C:0.12, G:0.03, T:0.12
Consensus pattern (15 bp):
AAAACAATACAAATA
Found at i:13795579 original size:41 final size:41
Alignment explanation
Indices: 13795504--13795698 Score: 212
Period size: 41 Copynumber: 4.8 Consensus size: 41
13795494 GATACCATAT
* * * * ** * *
13795504 CGGCATAAAGCCTACTAGACACAAATCCAAATATGATACAT
1 CGGCATAAAGCCTGCTAGGCATAAAGCCTGATATAATACAC
* **
13795545 CGGCACAAAGCCTGCTAGGCATAAAGCCTGATATGGTACAC
1 CGGCATAAAGCCTGCTAGGCATAAAGCCTGATATAATACAC
* *
13795586 CGGCATGAAGCGTGCTAGGCATAAAGCCTGATATAATTA-AC
1 CGGCATAAAGCCTGCTAGGCATAAAGCCTGATATAA-TACAC
* * *
13795627 CGGCATAAAGCCTGCTAGACATAAAGCCTGTTATAATTCAC
1 CGGCATAAAGCCTGCTAGGCATAAAGCCTGATATAATACAC
* *
13795668 CGACATAAAGCCTACTAGGCATAAAGCCTGA
1 CGGCATAAAGCCTGCTAGGCATAAAGCCTGA
13795699 ATATTATTGA
Statistics
Matches: 129, Mismatches: 23, Indels: 4
0.83 0.15 0.03
Matches are distributed among these distances:
40 1 0.01
41 126 0.98
42 2 0.02
ACGTcount: A:0.36, C:0.24, G:0.19, T:0.20
Consensus pattern (41 bp):
CGGCATAAAGCCTGCTAGGCATAAAGCCTGATATAATACAC
Found at i:13796159 original size:28 final size:26
Alignment explanation
Indices: 13796128--13796179 Score: 77
Period size: 28 Copynumber: 1.9 Consensus size: 26
13796118 TTTTTAATGT
13796128 TTATTATAACATAATAATATATTATACC
1 TTATTATAACAT--TAATATATTATACC
*
13796156 TTATTATAACATTTATATATTATA
1 TTATTATAACATTAATATATTATA
13796180 TTAATAATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 11 0.48
28 12 0.52
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (26 bp):
TTATTATAACATTAATATATTATACC
Found at i:13797549 original size:9 final size:9
Alignment explanation
Indices: 13797535--13797629 Score: 93
Period size: 9 Copynumber: 10.4 Consensus size: 9
13797525 TTTGGTTAAA
13797535 AATTACCCG
1 AATTACCCG
13797544 AATTACCCG
1 AATTACCCG
*
13797553 AATTAACCG
1 AATTACCCG
**
13797562 AATTAATCG
1 AATTACCCG
*
13797571 AATTAACCG
1 AATTACCCG
**
13797580 AATTAATCG
1 AATTACCCG
13797589 AATTA-CCG
1 AATTACCCG
* *
13797597 AAAAATACCTG
1 --AATTACCCG
13797608 AATTACCCG
1 AATTACCCG
13797617 AATTACCCG
1 AATTACCCG
13797626 AATT
1 AATT
13797630 TTTTTTTATT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
8 2 0.03
9 66 0.89
10 4 0.05
11 2 0.03
ACGTcount: A:0.41, C:0.23, G:0.11, T:0.25
Consensus pattern (9 bp):
AATTACCCG
Found at i:13797749 original size:40 final size:39
Alignment explanation
Indices: 13797704--13797792 Score: 124
Period size: 39 Copynumber: 2.3 Consensus size: 39
13797694 GACTTTAGTA
*
13797704 AATTGGGTTGTCTTTTAGTTTTAGTTTTATTGGATTGGAT
1 AATTGGGTTGAC-TTTAGTTTTAGTTTTATTGGATTGGAT
** * *
13797744 AATTGGGTAAACTTTAGTTTTAGTTTTATTGGGTTGGGT
1 AATTGGGTTGACTTTAGTTTTAGTTTTATTGGATTGGAT
13797783 AATTGGGTTG
1 AATTGGGTTG
13797793 GGTAATTGAG
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
39 33 0.79
40 9 0.21
ACGTcount: A:0.19, C:0.02, G:0.28, T:0.51
Consensus pattern (39 bp):
AATTGGGTTGACTTTAGTTTTAGTTTTATTGGATTGGAT
Found at i:13797789 original size:13 final size:13
Alignment explanation
Indices: 13797771--13797800 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
13797761 TTTTAGTTTT
13797771 ATTGGGTTGGGTA
1 ATTGGGTTGGGTA
13797784 ATTGGGTTGGGTA
1 ATTGGGTTGGGTA
13797797 ATTG
1 ATTG
13797801 AGTTTGGGCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.17, C:0.00, G:0.43, T:0.40
Consensus pattern (13 bp):
ATTGGGTTGGGTA
Found at i:13809261 original size:67 final size:67
Alignment explanation
Indices: 13809153--13809808 Score: 658
Period size: 67 Copynumber: 9.8 Consensus size: 67
13809143 ATGGGCTATA
** * *
13809153 ATGGGGTATAATGTGTAAGATTATAGCTCGACTATGGCAACATAGAGACTCCGCCAAGACATTAA
1 ATGGGGTATAATGTGTAAGACCATAGCTCGACTATGACAACATAGAGAGTCCGCCAAGACATTAA
13809218 AC
66 AC
*
13809220 ATGGGTTATAATGTGTAAGACCATAGCTCGACTATGACAACATAGAGAGTCCGCCAAGACATTAA
1 ATGGGGTATAATGTGTAAGACCATAGCTCGACTATGACAACATAGAGAGTCCGCCAAGACATTAA
13809285 AC
66 AC
* **
13809287 ATGGGGTATAATGTGTAAGACCATAGCTCAACTATGGA-AACATAGAGAGTCTACCAAGACATTA
1 ATGGGGTATAATGTGTAAGACCATAGCTCGACTAT-GACAACATAGAGAGTCCGCCAAGACATTA
13809351 AAC
65 AAC
* * * **
13809354 ATGGGGCATAATGTGTAAGACCATAGCTTGACTATGGCAACATAGAGAGTTTGCC-AGAACATTA
1 ATGGGGTATAATGTGTAAGACCATAGCTCGACTATGACAACATAGAGAGTCCGCCAAG-ACATTA
13809418 AAC
65 AAC
* * * * * *** * *
13809421 ATGGGATATAATGTGTAAAACCATAGCTCAACAATTG-CAATATAGAGAGTTTTCCAGGATATTA
1 ATGGGGTATAATGTGTAAGACCATAGCTCGACTA-TGACAACATAGAGAGTCCGCCAAGACATTA
*
13809485 AAT
65 AAC
* * * * * * *
13809488 ATGGGGTATAATCTGTGACACCATAGCTTGACTATGACAACATAGAAAGTTCTCCAAGACATTAA
1 ATGGGGTATAATGTGTAAGACCATAGCTCGACTATGACAACATAGAGAGTCCGCCAAGACATTAA
13809553 AC
66 AC
* * * ** * * *
13809555 ATAGGGTATAATGTGTAAAACCATATCTCGACTATGGTAACATAGAGAGTCTGTCAGGACATTAA
1 ATGGGGTATAATGTGTAAGACCATAGCTCGACTATGACAACATAGAGAGTCCGCCAAGACATTAA
13809620 AC
66 AC
** ** * *
13809622 ATAAGGTATAATGTGTAAGGTCATAGCTCGACTATGGA-AA-ATAAAGAGTTCGCCAAGACATTA
1 ATGGGGTATAATGTGTAAGACCATAGCTCGACTAT-GACAACATAGAGAGTCCGCCAAGACATTA
13809685 AAC
65 AAC
* * * * * * * * *
13809688 ATGAGATATAATGCGTAAGACCATAGCTTGGCTATGGA-AACATAAAGGGTCTGTCAAGACATTA
1 ATGGGGTATAATGTGTAAGACCATAGCTCGACTAT-GACAACATAGAGAGTCCGCCAAGACATTA
13809752 AAC
65 AAC
* * * * * * * * *
13809755 ATGGGGTATGACGTGTAAGACTAAAGCTCGGCTATGGCAGCATACAGACTCCGC
1 ATGGGGTATAATGTGTAAGACCATAGCTCGACTATGACAACATAGAGAGTCCGC
13809809 GGGGATAGGA
Statistics
Matches: 490, Mismatches: 90, Indels: 18
0.82 0.15 0.03
Matches are distributed among these distances:
66 60 0.12
67 424 0.87
68 6 0.01
ACGTcount: A:0.37, C:0.17, G:0.22, T:0.24
Consensus pattern (67 bp):
ATGGGGTATAATGTGTAAGACCATAGCTCGACTATGACAACATAGAGAGTCCGCCAAGACATTAA
AC
Found at i:13809395 original size:134 final size:134
Alignment explanation
Indices: 13809153--13809798 Score: 747
Period size: 134 Copynumber: 4.8 Consensus size: 134
13809143 ATGGGCTATA
** * * *
13809153 ATGGGGTATAATGTGTAAGATTATAGCTCGACTATGGCAACATAGAGACTCCGCCAAGACATTAA
1 ATGGGGTATAATGTGTAAGACCATAGCTCGACTATGGAAACATAGAGAGTCTGCCAAGACATTAA
* * *
13809218 ACATGGGTTATAATGTGTAAGACCATAGCTCGACTATGACAACATAGAGAGTCCGCCAAGACATT
66 ACATGGGGTATAATGTGTAAGACCATAGCTCGACTATGGCAACATAGAGAGTTCGCCAAGACATT
13809283 AAAC
131 AAAC
* *
13809287 ATGGGGTATAATGTGTAAGACCATAGCTCAACTATGGAAACATAGAGAGTCTACCAAGACATTAA
1 ATGGGGTATAATGTGTAAGACCATAGCTCGACTATGGAAACATAGAGAGTCTGCCAAGACATTAA
* * *
13809352 ACATGGGGCATAATGTGTAAGACCATAGCTTGACTATGGCAACATAGAGAGTTTGCC-AGAACAT
66 ACATGGGGTATAATGTGTAAGACCATAGCTCGACTATGGCAACATAGAGAGTTCGCCAAG-ACAT
13809416 TAAAC
130 TAAAC
* * * * * * * * * * *
13809421 ATGGGATATAATGTGTAAAACCATAGCTCAACAATTGCAATATAGAGAGTTTTCCAGGATATTAA
1 ATGGGGTATAATGTGTAAGACCATAGCTCGACTATGGAAACATAGAGAGTCTGCCAAGACATTAA
* * * * * * * *
13809486 ATATGGGGTATAATCTGTGACACCATAGCTTGACTATGACAACATAGAAAGTTCTCCAAGACATT
66 ACATGGGGTATAATGTGTAAGACCATAGCTCGACTATGGCAACATAGAGAGTTCGCCAAGACATT
13809551 AAAC
131 AAAC
* * * * * *
13809555 ATAGGGTATAATGTGTAAAACCATATCTCGACTATGGTAACATAGAGAGTCTGTCAGGACATTAA
1 ATGGGGTATAATGTGTAAGACCATAGCTCGACTATGGAAACATAGAGAGTCTGCCAAGACATTAA
** ** * *
13809620 ACATAAGGTATAATGTGTAAGGTCATAGCTCGACTATGG-AAAATAAAGAGTTCGCCAAGACATT
66 ACATGGGGTATAATGTGTAAGACCATAGCTCGACTATGGCAACATAGAGAGTTCGCCAAGACATT
13809684 AAAC
131 AAAC
* * * * * * * *
13809688 ATGAGATATAATGCGTAAGACCATAGCTTGGCTATGGAAACATAAAGGGTCTGTCAAGACATTAA
1 ATGGGGTATAATGTGTAAGACCATAGCTCGACTATGGAAACATAGAGAGTCTGCCAAGACATTAA
* * * * * *
13809753 ACATGGGGTATGACGTGTAAGACTAAAGCTCGGCTATGGCAGCATA
66 ACATGGGGTATAATGTGTAAGACCATAGCTCGACTATGGCAACATA
13809799 CAGACTCCGC
Statistics
Matches: 428, Mismatches: 81, Indels: 6
0.83 0.16 0.01
Matches are distributed among these distances:
133 110 0.26
134 316 0.74
135 2 0.00
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.25
Consensus pattern (134 bp):
ATGGGGTATAATGTGTAAGACCATAGCTCGACTATGGAAACATAGAGAGTCTGCCAAGACATTAA
ACATGGGGTATAATGTGTAAGACCATAGCTCGACTATGGCAACATAGAGAGTTCGCCAAGACATT
AAAC
Found at i:13809513 original size:201 final size:198
Alignment explanation
Indices: 13809153--13809798 Score: 749
Period size: 201 Copynumber: 3.2 Consensus size: 198
13809143 ATGGGCTATA
** * *
13809153 ATGGGGTATAATGTGTAAGATTATAGCTCGACTATGGCAACATAGAGACTCCGCCA-AGACATTA
1 ATGGGGTATAATGTGTAAGACCATAGCTCGACTATGGCAACATAGAGAGTCTGCCAGA-ACATTA
* *
13809217 AACATGGGTTATAATGTGTAAGACCATAGCTCGACTATGACAACATAGAGAGTCCGCCAAGACAT
65 AACATGGG-TATAATGTGTAAGACCATAGCTCGACTATG-CAAAATAGAGAGTTCGCCAAGACAT
* **
13809282 TAAACATGGGGTATAATGTGTAAGACCATAGCTCAACTATGGAAACATAGAGAGTCTACCAAGAC
128 TAAACATGGGGTATAATCTGTAAGACCATAGCTTGACTATGGAAACATAGAGAGTCT-CCAAGAC
13809347 ATTAAAC
192 ATTAAAC
* * *
13809354 ATGGGGCATAATGTGTAAGACCATAGCTTGACTATGGCAACATAGAGAGTTTGCCAGAACATTAA
1 ATGGGGTATAATGTGTAAGACCATAGCTCGACTATGGCAACATAGAGAGTCTGCCAGAACATTAA
* * * * ** * *
13809419 ACATGGGATATAATGTGTAAAACCATAGCTCAACAATTGCAATATAGAGAGTTTTCCAGGATATT
66 ACATGGG-TATAATGTGTAAGACCATAGCTCGACTA-TGCAAAATAGAGAGTTCGCCAAGACATT
* * * *
13809484 AAATATGGGGTATAATCTGTGACACCATAGCTTGACTAT-GACAACATAGAAAGTTCTCCAAGAC
129 AAACATGGGGTATAATCTGTAAGACCATAGCTTGACTATGGA-AACATAGAGAG-TCTCCAAGAC
13809548 ATTAAAC
192 ATTAAAC
* * * * * *
13809555 ATAGGGTATAATGTGTAAAACCATATCTCGACTATGGTAACATAGAGAGTCTGTCAGGACATTAA
1 ATGGGGTATAATGTGTAAGACCATAGCTCGACTATGGCAACATAGAGAGTCTGCCAGAACATTAA
* ** * *
13809620 ACATAAGGTATAATGTGTAAGGTCATAGCTCGACTATGGAAAATAAAGAGTTCGCCAAGACATTA
66 ACAT-GGGTATAATGTGTAAGACCATAGCTCGACTATGCAAAATAGAGAGTTCGCCAAGACATTA
* * * * * *
13809685 AACATGAGATATAATGC-GTAAGACCATAGCTTGGCTATGGAAACATAAAGGGTCTGTCAAGACA
130 AACATGGGGTATAAT-CTGTAAGACCATAGCTTGACTATGGAAACATAGAGAGTCT-CCAAGACA
13809749 TTAAAC
193 TTAAAC
* * * * * *
13809755 ATGGGGTATGACGTGTAAGACTAAAGCTCGGCTATGGCAGCATA
1 ATGGGGTATAATGTGTAAGACCATAGCTCGACTATGGCAACATA
13809799 CAGACTCCGC
Statistics
Matches: 371, Mismatches: 66, Indels: 17
0.82 0.15 0.04
Matches are distributed among these distances:
199 3 0.01
200 109 0.29
201 251 0.68
202 8 0.02
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.25
Consensus pattern (198 bp):
ATGGGGTATAATGTGTAAGACCATAGCTCGACTATGGCAACATAGAGAGTCTGCCAGAACATTAA
ACATGGGTATAATGTGTAAGACCATAGCTCGACTATGCAAAATAGAGAGTTCGCCAAGACATTAA
ACATGGGGTATAATCTGTAAGACCATAGCTTGACTATGGAAACATAGAGAGTCTCCAAGACATTA
AAC
Found at i:13823279 original size:67 final size:67
Alignment explanation
Indices: 13823171--13823485 Score: 265
Period size: 67 Copynumber: 4.7 Consensus size: 67
13823161 ATGGGTTATA
* **** *
13823171 ATGGGGTATAATGTGTAAGACCATAGCTTGGTTATGGCAACATAGAGAGTTTTCT-AGAACATTA
1 ATGGGGTATAATGTGTAAGACCACAGCTCAACTATGGCAACATAGAGAGTTTGCTAAG-ACATTA
13823235 AAC
65 AAC
* * *
13823238 ATGGGGTTTAATGTGTAAGACCACATCTCAACTATGGCAACATAGAGAGTTTGCTAAGGCATTAA
1 ATGGGGTATAATGTGTAAGACCACAGCTCAACTATGGCAACATAGAGAGTTTGCTAAGACATTAA
13823303 AC
66 AC
**** ** * ***
13823305 ATGGGGTATAATGTGTAAGA-TTGTGCTCGGCTATGGCAACATAGAGAGTCTGCCGGGACATTAA
1 ATGGGGTATAATGTGTAAGACCACAGCTCAACTATGGCAACATAGAGAGTTTGCTAAGACATTAA
13823369 AC
66 AC
* * * * ** * * * *** * *
13823371 ATGAGGTATAATATGTAAGATCATAGCTCAGTTATGGAAACATAAATAGTCCACCAAGATATTAA
1 ATGGGGTATAATGTGTAAGACCACAGCTCAACTATGGCAACATAGAGAGTTTGCTAAGACATTAA
*
13823436 GC
66 AC
* * * *
13823438 ATGGGGTATAATGTGTAAGACCATAGCTCCAGTATGACAACATAGAGA
1 ATGGGGTATAATGTGTAAGACCACAGCTCAACTATGGCAACATAGAGA
13823486 ACGAAACAAT
Statistics
Matches: 197, Mismatches: 49, Indels: 4
0.79 0.20 0.02
Matches are distributed among these distances:
66 52 0.26
67 143 0.73
68 2 0.01
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (67 bp):
ATGGGGTATAATGTGTAAGACCACAGCTCAACTATGGCAACATAGAGAGTTTGCTAAGACATTAA
AC
Found at i:13823413 original size:133 final size:134
Alignment explanation
Indices: 13823171--13823485 Score: 337
Period size: 133 Copynumber: 2.4 Consensus size: 134
13823161 ATGGGTTATA
* * * * *
13823171 ATGGGGTATAATGTGTAAGACCATAGCTTGGTTATGGCAACATAGAGAGTTTTCTAGAACATTAA
1 ATGGGGTATAATGTGTAAGACCATAGCTCGGCTATGGCAACATAGAGAGTCTGCCAGAACATTAA
* * * * * * *** * *
13823236 ACATGGGGTTTAATGTGTAAGACCACATCTCAACTATGGCAACATAGAGAGTTTGCTAAGGCATT
66 ACATGAGGTATAATATGTAAGACCACAGCTCAACTATGGAAACATAAAGAGTCCACCAAGACATT
13823301 AAAC
131 AAAC
*** * *
13823305 ATGGGGTATAATGTGTAAGATTGT-GCTCGGCTATGGCAACATAGAGAGTCTGCCGGGACATTAA
1 ATGGGGTATAATGTGTAAGACCATAGCTCGGCTATGGCAACATAGAGAGTCTGCCAGAACATTAA
* * ** * *
13823369 ACATGAGGTATAATATGTAAGATCATAGCTCAGTTATGGAAACATAAATAGTCCACCAAGATATT
66 ACATGAGGTATAATATGTAAGACCACAGCTCAACTATGGAAACATAAAGAGTCCACCAAGACATT
*
13823434 AAGC
131 AAAC
* *
13823438 ATGGGGTATAATGTGTAAGACCATAGCTCCAG-TATGACAACATAGAGA
1 ATGGGGTATAATGTGTAAGACCATAGCT-CGGCTATGGCAACATAGAGA
13823486 ACGAAACAAT
Statistics
Matches: 146, Mismatches: 33, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
133 105 0.72
134 39 0.27
135 2 0.01
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (134 bp):
ATGGGGTATAATGTGTAAGACCATAGCTCGGCTATGGCAACATAGAGAGTCTGCCAGAACATTAA
ACATGAGGTATAATATGTAAGACCACAGCTCAACTATGGAAACATAAAGAGTCCACCAAGACATT
AAAC
Found at i:13831350 original size:7 final size:7
Alignment explanation
Indices: 13831338--13831363 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
13831328 TTACTTTCAA
13831338 AAATCTC
1 AAATCTC
13831345 AAATCTC
1 AAATCTC
13831352 AAATCTC
1 AAATCTC
13831359 AAATC
1 AAATC
13831364 CTAATTTTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.46, C:0.27, G:0.00, T:0.27
Consensus pattern (7 bp):
AAATCTC
Done.