Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 109 of 362
Found at i:35916165 original size:21 final size:20
Alignment explanation
Indices: 35916141--35916329 Score: 76
Period size: 21 Copynumber: 9.2 Consensus size: 20
35916131 TTTTAAATTG
*
35916141 TATATATATTATTTTATGTAT
1 TATATATATTATATTAT-TAT
*
35916162 TATATATTTTATATTATTAT
1 TATATATATTATATTATTAT
*
35916182 T-TACT-TATTTTATTA-TAT
1 TATA-TATATTATATTATTAT
35916200 TATAT-TACTTCATATT-TT-T
1 TATATATA-TT-ATATTATTAT
35916219 CTATTATCATATTAATATATATT-T
1 -TA-TAT-ATATT-ATAT-TATTAT
* *
35916243 TAACATATATCATTACTTATTAT
1 T-ATATATATTA-TA-TTATTAT
*
35916266 T-TATTATATTATATTTTTAT
1 TATA-TATATTATATTATTAT
* * *
35916286 CACATAATATT-TATATATTTT
1 TATAT-ATATTATAT-TATTAT
*
35916307 TACAT-TATTATATTATT-T
1 TATATATATTATATTATTAT
35916325 TATAT
1 TATAT
35916330 TTTAAAAATA
Statistics
Matches: 131, Mismatches: 17, Indels: 43
0.69 0.09 0.23
Matches are distributed among these distances:
18 12 0.09
19 23 0.18
20 25 0.19
21 36 0.27
22 22 0.17
23 9 0.07
24 4 0.03
ACGTcount: A:0.34, C:0.06, G:0.01, T:0.60
Consensus pattern (20 bp):
TATATATATTATATTATTAT
Found at i:35916171 original size:16 final size:18
Alignment explanation
Indices: 35916139--35916206 Score: 61
Period size: 18 Copynumber: 3.7 Consensus size: 18
35916129 TATTTTAAAT
35916139 TGTATATATATTATTTTA
1 TGTATATATATTATTTTA
35916157 TGTAT-TATA-TATTTTA
1 TGTATATATATTATTTTA
* *
35916173 TATTATTATTTACTTATTTTA
1 T-GTA-TATATA-TTATTTTA
35916194 T-TATATTATATTA
1 TGTATA-TATATTA
35916207 CTTCATATTT
Statistics
Matches: 41, Mismatches: 3, Indels: 12
0.73 0.05 0.21
Matches are distributed among these distances:
16 8 0.20
17 6 0.15
18 11 0.27
19 8 0.20
21 8 0.20
ACGTcount: A:0.32, C:0.01, G:0.03, T:0.63
Consensus pattern (18 bp):
TGTATATATATTATTTTA
Found at i:35916319 original size:24 final size:27
Alignment explanation
Indices: 35916261--35916332 Score: 82
Period size: 24 Copynumber: 2.9 Consensus size: 27
35916251 ATCATTACTT
35916261 ATTATT-TATTATATTATATTTTTATC
1 ATTATTATATTATATTATATTTTTATC
* *
35916287 A-CATAATATT-TA-TATATTTTTA-C
1 ATTATTATATTATATTATATTTTTATC
*
35916310 ATTATTATATTATTTTATATTTT
1 ATTATTATATTATATTATATTTT
35916333 AAAAATATAT
Statistics
Matches: 37, Mismatches: 5, Indels: 8
0.74 0.10 0.16
Matches are distributed among these distances:
23 2 0.05
24 17 0.46
25 5 0.14
26 13 0.35
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.62
Consensus pattern (27 bp):
ATTATTATATTATATTATATTTTTATC
Found at i:35916321 original size:8 final size:8
Alignment explanation
Indices: 35916145--35916323 Score: 60
Period size: 8 Copynumber: 23.1 Consensus size: 8
35916135 AAATTGTATA
35916145 TATATTAT
1 TATATTAT
*
35916153 TTTATGTAT
1 TATAT-TAT
*
35916162 TATATATTT
1 TATAT-TAT
35916171 TATATTAT
1 TATATTAT
*
35916179 TAT-TTAC
1 TATATTAT
35916186 T-TATT-T
1 TATATTAT
35916192 TAT-TATAT
1 TATAT-TAT
35916200 TATATTACT
1 TATATTA-T
*
35916209 TCATATTTT
1 T-ATATTAT
*
35916218 TCTATTAT
1 TATATTAT
* *
35916226 CATATTAA
1 TATATTAT
35916234 TATA-TAT
1 TATATTAT
* **
35916241 TTTAACA-
1 TATATTAT
*
35916248 TATATCAT
1 TATATTAT
*
35916256 TA-CTTAT
1 TATATTAT
35916263 TAT-TTAT
1 TATATTAT
35916270 TATATTA-
1 TATATTAT
35916277 TAT-TT-T
1 TATATTAT
*
35916283 TATCA-CAT
1 TAT-ATTAT
*
35916291 AATATT-T
1 TATATTAT
*
35916298 ATATATTTT
1 -TATATTAT
*
35916307 TACATTAT
1 TATATTAT
35916315 TATATTAT
1 TATATTAT
35916323 T
1 T
35916324 TTATATTTTA
Statistics
Matches: 124, Mismatches: 28, Indels: 38
0.65 0.15 0.20
Matches are distributed among these distances:
6 8 0.06
7 35 0.28
8 56 0.45
9 20 0.16
10 5 0.04
ACGTcount: A:0.34, C:0.06, G:0.01, T:0.60
Consensus pattern (8 bp):
TATATTAT
Found at i:35916354 original size:41 final size:41
Alignment explanation
Indices: 35916298--35916375 Score: 115
Period size: 43 Copynumber: 1.9 Consensus size: 41
35916288 CATAATATTT
*
35916298 ATATATTTTTACATTATTA-TAT-TATTTTATATTTTAAAA
1 ATATATTTTTACATTATTATTATCTATTATATATTTTAAAA
35916337 ATATATTATTTCACATTATTATTATCTATTATATATTTT
1 ATATATT-TTT-ACATTATTATTATCTATTATATATTTT
35916376 TTCATGTATA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
39 7 0.21
40 3 0.09
41 9 0.26
42 3 0.09
43 12 0.35
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (41 bp):
ATATATTTTTACATTATTATTATCTATTATATATTTTAAAA
Found at i:35916562 original size:21 final size:22
Alignment explanation
Indices: 35916528--35916571 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
35916518 TATTTCAAAA
*
35916528 TTCATTATTAATT-ACTATGTT
1 TTCATTATTAATTAAATATGTT
35916549 TTCATGTATT-ATTAAATATGTT
1 TTCAT-TATTAATTAAATATGTT
35916571 T
1 T
35916572 ATTATCTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.30, C:0.07, G:0.07, T:0.57
Consensus pattern (22 bp):
TTCATTATTAATTAAATATGTT
Found at i:35925054 original size:46 final size:48
Alignment explanation
Indices: 35924992--35925114 Score: 160
Period size: 46 Copynumber: 2.6 Consensus size: 48
35924982 GGTGGTATGT
* * * *
35924992 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGA-CGA-
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCATCGAGATAGAC
* * * *
35925038 GTGCTAGTTTAAGACATGTCTGGGACATGCATCAGCCTCGAGATATAC
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCATCGAGATAGAC
35925086 GAGCTAGTGTAAGACATGTCTGGGACATG
1 GAGCTAGTGTAAGACATGTCTGGGACATG
35925115 GCGTCAGCTT
Statistics
Matches: 65, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
46 37 0.57
47 1 0.02
48 27 0.42
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.24
Consensus pattern (48 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCATCGAGATAGAC
Found at i:35928470 original size:24 final size:24
Alignment explanation
Indices: 35928429--35928496 Score: 82
Period size: 24 Copynumber: 2.8 Consensus size: 24
35928419 TCATAATCAA
** *
35928429 ATACAAATGCTTATATAGATTCAG
1 ATACAAATGCAGACATAGATTCAG
*
35928453 ATACAAATGCAGACATAGATTCAT
1 ATACAAATGCAGACATAGATTCAG
* *
35928477 ATATAGATGCAGACATAGAT
1 ATACAAATGCAGACATAGAT
35928497 CCTACTCTTA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.44, C:0.13, G:0.15, T:0.28
Consensus pattern (24 bp):
ATACAAATGCAGACATAGATTCAG
Found at i:35935396 original size:20 final size:21
Alignment explanation
Indices: 35935363--35935409 Score: 69
Period size: 20 Copynumber: 2.3 Consensus size: 21
35935353 TTTGCCTCAC
*
35935363 TTTTCTCACTTTTTCATTTCT
1 TTTTCTCACATTTTCATTTCT
*
35935384 TTTTCTCA-ATTTTCTTTTCT
1 TTTTCTCACATTTTCATTTCT
35935404 TTTTCT
1 TTTTCT
35935410 TTTTCATTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 16 0.67
21 8 0.33
ACGTcount: A:0.09, C:0.21, G:0.00, T:0.70
Consensus pattern (21 bp):
TTTTCTCACATTTTCATTTCT
Found at i:35935407 original size:6 final size:6
Alignment explanation
Indices: 35935379--35935442 Score: 60
Period size: 6 Copynumber: 10.3 Consensus size: 6
35935369 CACTTTTTCA
*
35935379 TTTCTT TTTCTCAAT TTTC-T TTTCTT TTTCTT TTTCATT ATT-TT TTTCTT
1 TTTCTT TTTCT---T TTTCTT TTTCTT TTTCTT TTTC-TT TTTCTT TTTCTT
*
35935429 GTTCTT TTTCTT TT
1 TTTCTT TTTCTT TT
35935443 GGTTTTTCCA
Statistics
Matches: 48, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
5 9 0.19
6 30 0.62
7 4 0.08
9 5 0.10
ACGTcount: A:0.06, C:0.16, G:0.02, T:0.77
Consensus pattern (6 bp):
TTTCTT
Found at i:35935436 original size:12 final size:12
Alignment explanation
Indices: 35935371--35935440 Score: 54
Period size: 12 Copynumber: 5.8 Consensus size: 12
35935361 ACTTTTCTCA
*
35935371 CTTTTTCAT-TT
1 CTTTTTCTTATT
*
35935382 CTTTTTCTCAATT
1 CTTTTTCT-TATT
* *
35935395 TTCTTTTCTTTTT
1 CT-TTTTCTTATT
35935408 CTTTTTCATTATT
1 CTTTTTC-TTATT
*
35935421 -TTTTTCTTGTT
1 CTTTTTCTTATT
35935432 CTTTTTCTT
1 CTTTTTCTT
35935441 TTGGTTTTTC
Statistics
Matches: 46, Mismatches: 8, Indels: 9
0.73 0.13 0.14
Matches are distributed among these distances:
11 11 0.24
12 19 0.41
13 10 0.22
14 6 0.13
ACGTcount: A:0.07, C:0.17, G:0.01, T:0.74
Consensus pattern (12 bp):
CTTTTTCTTATT
Found at i:35938580 original size:43 final size:43
Alignment explanation
Indices: 35938532--35938643 Score: 206
Period size: 43 Copynumber: 2.6 Consensus size: 43
35938522 CCGGCATTAT
35938532 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
35938575 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACTAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
35938618 GCCTGCTAGGCACGAAGGTCCGAATA
1 GCCTGCTAGGCACGAAGGCCCGAATA
35938644 TAATACCAGC
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
43 67 1.00
ACGTcount: A:0.29, C:0.33, G:0.26, T:0.12
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
Found at i:35938708 original size:38 final size:38
Alignment explanation
Indices: 35938641--35938715 Score: 105
Period size: 38 Copynumber: 2.0 Consensus size: 38
35938631 GAAGGTCCGA
* * *
35938641 ATATAATACCAGCACTAGGCCTGCAGGATTTATCCCAG
1 ATATAATACCAGCACAAAGCCTGCAGGATTTAACCCAG
* *
35938679 ATATAATACCAGCACAAAGCTTGCGGGATTTAACCCA
1 ATATAATACCAGCACAAAGCCTGCAGGATTTAACCCA
35938716 AATACACATC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 32 1.00
ACGTcount: A:0.35, C:0.25, G:0.17, T:0.23
Consensus pattern (38 bp):
ATATAATACCAGCACAAAGCCTGCAGGATTTAACCCAG
Found at i:35942845 original size:46 final size:45
Alignment explanation
Indices: 35942738--35942854 Score: 121
Period size: 46 Copynumber: 2.6 Consensus size: 45
35942728 CTAAGATAAG
*
35942738 TTAAATAACTCAAGACAAATTAAATGGTCGTAGTAATTAGAACAAA
1 TTAAATAACTCAAGACAAATT-AATTGTCGTAGTAATTAGAACAAA
* * * * *
35942784 TTAATTATCTTAAGACATATTAATTGTCGTA-TATACTTAG-ACATA
1 TTAAATAACTCAAGACAAATTAATTGTCGTAGTA-A-TTAGAACAAA
*
35942829 TTAAATAAACTCAAGACACATTAATT
1 TTAAAT-AACTCAAGACAAATTAATT
35942855 ACTTAAACTA
Statistics
Matches: 58, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
44 2 0.03
45 19 0.33
46 37 0.64
ACGTcount: A:0.45, C:0.12, G:0.09, T:0.33
Consensus pattern (45 bp):
TTAAATAACTCAAGACAAATTAATTGTCGTAGTAATTAGAACAAA
Found at i:35944847 original size:3 final size:3
Alignment explanation
Indices: 35944800--35944834 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
35944790 AATTTAACAA
*
35944800 AAT AAT AAT AAT AGT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
35944835 CAATGTTAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:35945498 original size:16 final size:16
Alignment explanation
Indices: 35945477--35945508 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
35945467 TCTTTTGTAT
*
35945477 TTTTTAATATTAAATA
1 TTTTTAAAATTAAATA
35945493 TTTTTAAAATTAAATA
1 TTTTTAAAATTAAATA
35945509 ACATTAATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
TTTTTAAAATTAAATA
Found at i:35949565 original size:93 final size:92
Alignment explanation
Indices: 35949433--35949627 Score: 286
Period size: 93 Copynumber: 2.1 Consensus size: 92
35949423 TTGATTTTAG
* *
35949433 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCACTA-TATAATTA
1 TAAATTCATATAAGAAAATTTTATTATCAAGAATTTTATGAAATTATATATCACTATTA-AATTA
* *
35949497 TATTTAAT-ATTAATTATTTTAAATTGTA
65 TATGTAATAATT-ATTATTTTAAATTATA
* *
35949525 TAAATTCATATAAGAAAATTTTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTA
1 TAAATTCATATAAGAAAA-TTTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTA
35949590 TATGTAATAATTATTATTTTAAATTATA
65 TATGTAATAATTATTATTTTAAATTATA
*
35949618 CAAATTCATA
1 TAAATTCATA
35949628 AACTATAATC
Statistics
Matches: 93, Mismatches: 7, Indels: 5
0.89 0.07 0.05
Matches are distributed among these distances:
92 17 0.18
93 71 0.76
94 5 0.05
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (92 bp):
TAAATTCATATAAGAAAATTTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTAT
ATGTAATAATTATTATTTTAAATTATA
Found at i:35949685 original size:17 final size:17
Alignment explanation
Indices: 35949660--35949711 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 17
35949650 ATAATTTTAA
*
35949660 ATTTTATTAAATCATAT
1 ATTTAATTAAATCATAT
35949677 ATTTAATTAAAT-A-AT
1 ATTTAATTAAATCATAT
*
35949692 A-TTAGTTATAATCATAT
1 ATTTAATTA-AATCATAT
35949709 ATT
1 ATT
35949712 ATGATTTGAG
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
14 6 0.21
15 6 0.21
16 2 0.07
17 14 0.48
18 1 0.03
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.50
Consensus pattern (17 bp):
ATTTAATTAAATCATAT
Found at i:35949770 original size:61 final size:61
Alignment explanation
Indices: 35949705--35949891 Score: 190
Period size: 61 Copynumber: 3.1 Consensus size: 61
35949695 AGTTATAATC
35949705 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
* * * * * * * * * *
35949766 ATATATTTTAATTAT-ATTATATT-A-ATAATAATTATGTTATT-TT-A-TATTTTA-CAGTATC
1 ATATATTATGATT-TGAGTAAATTCATATAAGAA-TAT-TAATTATTAAGAATTTTATTA-AATT
*
35949824 ATATATTATGGTTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
35949885 ATATATT
1 ATATATT
35949892 TTAATTAAAA
Statistics
Matches: 94, Mismatches: 21, Indels: 22
0.69 0.15 0.16
Matches are distributed among these distances:
57 2 0.02
58 28 0.30
59 13 0.14
60 13 0.14
61 36 0.38
62 2 0.02
ACGTcount: A:0.42, C:0.02, G:0.07, T:0.49
Consensus pattern (61 bp):
ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
Found at i:35949784 original size:18 final size:17
Alignment explanation
Indices: 35949753--35949787 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
35949743 ATTATTAAGA
35949753 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
*
35949770 ATTTTAATTATATTATAT
1 ATTTT-ATTAAATTATAT
35949788 TAATAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:35949813 original size:119 final size:119
Alignment explanation
Indices: 35949702--35949920 Score: 395
Period size: 119 Copynumber: 1.8 Consensus size: 119
35949692 ATTAGTTATA
35949702 ATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTA
1 ATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTA
* *
35949767 TATATTTTAATTATATTATA-TTAATAATAATTATGTTATTTTATATTTTACAG
66 TATATTTTAATTAAAATATATTTAATAATAATTATGTTATTTTATATTTTACAG
*
35949820 TATCATATATTATGGTTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
1 -ATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
35949885 ATATATTTTAATTAAAATATATTTAATAATAATTAT
65 ATATATTTTAATTAAAATATATTTAATAATAATTAT
35949921 ATTTAAATAT
Statistics
Matches: 96, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
119 82 0.85
120 14 0.15
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.49
Consensus pattern (119 bp):
ATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTA
TATATTTTAATTAAAATATATTTAATAATAATTATGTTATTTTATATTTTACAG
Found at i:35949900 original size:18 final size:18
Alignment explanation
Indices: 35949872--35949922 Score: 56
Period size: 18 Copynumber: 3.0 Consensus size: 18
35949862 ATTATTAAGA
35949872 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAATTATAT
35949889 ATTTTAATTAAA--ATAT
1 ATTTTAATTAAATTATAT
*
35949905 A-TTTAATAATAATTATAT
1 ATTTTAATTA-AATTATAT
35949923 TTAAATATGA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
15 7 0.24
16 7 0.24
17 5 0.17
18 10 0.34
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
ATTTTAATTAAATTATAT
Found at i:35950018 original size:144 final size:147
Alignment explanation
Indices: 35949860--35950131 Score: 478
Period size: 144 Copynumber: 1.9 Consensus size: 147
35949850 ATAAGAATAT
*
35949860 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATATTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATATTT
35949925 AAATATGATTAAATTATTTATTATTGAT-AT-TAATCTTATTAAAATTTAAATAA-AATAATTTA
66 AAATATGATTAAATTATTTATTATTGATAATATAATCTTATTAAAATTTAAATAACAATAATTTA
35949987 CCAAAACAAATTTCTGC
131 CCAAAACAAATTTCTGC
*
35950004 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATATTT
*
35950069 AAATATGATTAAATTATTTATTTTTGATAATAAATAATCTTATTAAAATTTAAATAACAATAA
66 AAATATGATTAAATTATTTATTATTGATAAT--ATAATCTTATTAAAATTTAAATAACAATAA
35950132 CAATAATCAT
Statistics
Matches: 120, Mismatches: 3, Indels: 5
0.94 0.02 0.04
Matches are distributed among these distances:
144 90 0.75
145 2 0.02
148 23 0.19
149 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (147 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATATTT
AAATATGATTAAATTATTTATTATTGATAATATAATCTTATTAAAATTTAAATAACAATAATTTA
CCAAAACAAATTTCTGC
Found at i:35950044 original size:18 final size:17
Alignment explanation
Indices: 35950016--35950050 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
35950006 ATTATTAAGA
*
35950016 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
35950033 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
35950051 TAAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:35950261 original size:44 final size:45
Alignment explanation
Indices: 35950212--35950306 Score: 138
Period size: 45 Copynumber: 2.1 Consensus size: 45
35950202 TTACACCTCT
* *
35950212 ATTACATTCAACCAAACA-CAGTTTTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
** *
35950256 ATTACATTCAACCAAACAGTTGATTTGCTATTACACCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
35950301 ATTACA
1 ATTACA
35950307 CCTCTAATCC
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.33, C:0.27, G:0.05, T:0.35
Consensus pattern (45 bp):
ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
Found at i:35950306 original size:16 final size:16
Alignment explanation
Indices: 35950285--35950317 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
35950275 TTGATTTGCT
*
35950285 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
35950301 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
35950317 A
1 A
35950318 ATCCAATACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.30, C:0.36, G:0.00, T:0.33
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:35950327 original size:21 final size:21
Alignment explanation
Indices: 35950298--35950340 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
35950288 ACACCTCTAT
*
35950298 TCCATTACACCTCTAATCCAA
1 TCCAATACACCTCTAATCCAA
35950319 TCCAATACACCTCTAATCCAA
1 TCCAATACACCTCTAATCCAA
35950340 T
1 T
35950341 ACAGCGAACC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.28
Consensus pattern (21 bp):
TCCAATACACCTCTAATCCAA
Found at i:35955467 original size:29 final size:28
Alignment explanation
Indices: 35955425--35955534 Score: 107
Period size: 27 Copynumber: 3.9 Consensus size: 28
35955415 CATGAGATTG
* *
35955425 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGGATTT-AATTATACA
* *
35955454 GCACTAAGTGTGC-GATTTGATTATATA
1 GCACTAAGTGTGCGGATTTAATTATACA
* * *
35955481 GCACTAAGTGTGC-GAGTTGATTATATA
1 GCACTAAGTGTGCGGATTTAATTATACA
* *
35955508 GCACTGAGTGTGCGGACTTAATATATA
1 GCACTAAGTGTGCGGATTTAAT-TATA
35955535 TTTTTGAATC
Statistics
Matches: 71, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
27 44 0.62
28 10 0.14
29 17 0.24
ACGTcount: A:0.29, C:0.13, G:0.25, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGGATTTAATTATACA
Found at i:35955491 original size:27 final size:27
Alignment explanation
Indices: 35955425--35955521 Score: 122
Period size: 27 Copynumber: 3.5 Consensus size: 27
35955415 CATGAGATTG
* * * *
35955425 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GATTT-GATTATATA
35955454 GCACTAAGTGTGCGATTTGATTATATA
1 GCACTAAGTGTGCGATTTGATTATATA
*
35955481 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGATTTGATTATATA
*
35955508 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
35955522 GACTTAATAT
Statistics
Matches: 62, Mismatches: 6, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
27 45 0.73
28 4 0.06
29 13 0.21
ACGTcount: A:0.27, C:0.13, G:0.28, T:0.32
Consensus pattern (27 bp):
GCACTAAGTGTGCGATTTGATTATATA
Found at i:35955532 original size:27 final size:27
Alignment explanation
Indices: 35955453--35955535 Score: 112
Period size: 27 Copynumber: 3.0 Consensus size: 27
35955443 TAAATTGTAC
*
35955453 AGCACTAAGTGTGCGATTTGATTATAT
1 AGCACTAAGTGTGCGACTTGATTATAT
*
35955480 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGATTATAT
* *
35955507 AGCACTGAGTGTGCGGACTTAATATATAT
1 AGCACTAAGTGTGC-GACTTGAT-TATAT
35955536 TTTTGAATCA
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
27 39 0.78
28 6 0.12
29 5 0.10
ACGTcount: A:0.30, C:0.12, G:0.24, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGATTATAT
Found at i:35955535 original size:56 final size:56
Alignment explanation
Indices: 35955425--35955535 Score: 127
Period size: 56 Copynumber: 2.0 Consensus size: 56
35955415 CATGAGATTG
* * * *
35955425 GCACTAAGTGTGCGGGTTTAAATTGTACAGCACTAAGTGTGCGATTTGATTATATA
1 GCACTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGACTTAATTATATA
* * *
35955481 GCACTAAGTGTGCGAG-TT-GATTATATAGCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGC-GACTTAAT-TATAT
35955536 TTTTGAATCA
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
54 18 0.39
55 8 0.17
56 20 0.43
ACGTcount: A:0.29, C:0.13, G:0.25, T:0.33
Consensus pattern (56 bp):
GCACTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGACTTAATTATATA
Found at i:36035200 original size:40 final size:40
Alignment explanation
Indices: 36035140--36035320 Score: 267
Period size: 40 Copynumber: 4.5 Consensus size: 40
36035130 ACCCAAGTAT
* * *
36035140 CTTCGGGATTTAG-TCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* **
36035179 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
36035219 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
36035259 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
36035299 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
36035321 CATCCGAATA
Statistics
Matches: 129, Mismatches: 11, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
39 11 0.09
40 117 0.91
41 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:36039051 original size:41 final size:41
Alignment explanation
Indices: 36038940--36039050 Score: 150
Period size: 41 Copynumber: 2.7 Consensus size: 41
36038930 GACATGAGAA
* * *
36038940 AGGTTTGTAGTTAATGTGTATATGTTTTTGTCATGTGTAAT
1 AGGTTTGTAGTTAATGTGTATATGTTTTTGTCAGGTATAAC
* *
36038981 TGGTATGTAGTTAATGTGTATATGTTTTTGTCAGGTATATAC
1 AGGTTTGTAGTTAATGTGTATATGTTTTTGTCAGGTATA-AC
* *
36039023 AGGTTTTTAGTTAATGAGTATATGTTTT
1 AGGTTTGTAGTTAATGTGTATATGTTTT
36039051 GAGACAGACG
Statistics
Matches: 60, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
41 35 0.58
42 25 0.42
ACGTcount: A:0.23, C:0.03, G:0.23, T:0.50
Consensus pattern (41 bp):
AGGTTTGTAGTTAATGTGTATATGTTTTTGTCAGGTATAAC
Found at i:36040128 original size:14 final size:13
Alignment explanation
Indices: 36040105--36040136 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
36040095 AGGATATCAA
36040105 AACAATAATTAAG
1 AACAATAATTAAG
36040118 AACACATAATTAAG
1 AACA-ATAATTAAG
36040132 AACAA
1 AACAA
36040137 GTTAAATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.62, C:0.12, G:0.06, T:0.19
Consensus pattern (13 bp):
AACAATAATTAAG
Found at i:36040514 original size:13 final size:13
Alignment explanation
Indices: 36040496--36040520 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
36040486 CTCGGCAGGG
36040496 ACACGCCCGTGTA
1 ACACGCCCGTGTA
36040509 ACACGCCCGTGT
1 ACACGCCCGTGT
36040521 GCGATTACTT
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:0.20, C:0.40, G:0.24, T:0.16
Consensus pattern (13 bp):
ACACGCCCGTGTA
Found at i:36042671 original size:35 final size:35
Alignment explanation
Indices: 36042632--36042698 Score: 107
Period size: 35 Copynumber: 1.9 Consensus size: 35
36042622 AGAGAGATGA
* * *
36042632 TCTACCGAGACAGTAAACACGAAATAGAAATATGG
1 TCTACCGAGACAATAAACACAAAATAAAAATATGG
36042667 TCTACCGAGACAATAAACACAAAATAAAAATA
1 TCTACCGAGACAATAAACACAAAATAAAAATA
36042699 GTCCATTGGC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 29 1.00
ACGTcount: A:0.52, C:0.18, G:0.13, T:0.16
Consensus pattern (35 bp):
TCTACCGAGACAATAAACACAAAATAAAAATATGG
Found at i:36042735 original size:33 final size:33
Alignment explanation
Indices: 36042676--36042752 Score: 84
Period size: 33 Copynumber: 2.3 Consensus size: 33
36042666 GTCTACCGAG
* *
36042676 ACAATAAACACAAAATAAAAATAGTCCAT-TGGC
1 ACAATAAACACAAAACAAAAACAGTCC-TCTGGC
* * *
36042709 ACAATAAACACAAAACAGAGACAGTCCTCTGGG
1 ACAATAAACACAAAACAAAAACAGTCCTCTGGC
*
36042742 ATAATAAACAC
1 ACAATAAACAC
36042753 GAGGTAAGTC
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
32 1 0.03
33 36 0.97
ACGTcount: A:0.52, C:0.21, G:0.12, T:0.16
Consensus pattern (33 bp):
ACAATAAACACAAAACAAAAACAGTCCTCTGGC
Found at i:36044630 original size:37 final size:37
Alignment explanation
Indices: 36044577--36044651 Score: 123
Period size: 37 Copynumber: 2.0 Consensus size: 37
36044567 CTAAGTTTAT
36044577 AATTAATAGGCAAAAAGTCAAAACTTAATTATAAATC
1 AATTAATAGGCAAAAAGTCAAAACTTAATTATAAATC
* * *
36044614 AATTAATAGGCGAAAAGTCAAAACTTTATTTTAAATC
1 AATTAATAGGCAAAAAGTCAAAACTTAATTATAAATC
36044651 A
1 A
36044652 TTTGAGTCTC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.51, C:0.11, G:0.09, T:0.29
Consensus pattern (37 bp):
AATTAATAGGCAAAAAGTCAAAACTTAATTATAAATC
Found at i:36047049 original size:24 final size:24
Alignment explanation
Indices: 36047022--36047073 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
36047012 TTAGTAAGTC
*
36047022 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
36047046 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
36047070 AAAT
1 AAAT
36047074 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:36049019 original size:24 final size:24
Alignment explanation
Indices: 36048992--36049043 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
36048982 TTAGTAAGTC
*
36048992 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
36049016 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
36049040 AAAT
1 AAAT
36049044 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:36050990 original size:24 final size:24
Alignment explanation
Indices: 36050963--36051014 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
36050953 TTAGTAAGTC
*
36050963 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
36050987 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
36051011 AAAT
1 AAAT
36051015 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:36051738 original size:14 final size:14
Alignment explanation
Indices: 36051719--36051746 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
36051709 GCATGCATAG
36051719 TTCAACTAGTTAAT
1 TTCAACTAGTTAAT
36051733 TTCAACTAGTTAAT
1 TTCAACTAGTTAAT
36051747 CAAAAATACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.14, G:0.07, T:0.43
Consensus pattern (14 bp):
TTCAACTAGTTAAT
Found at i:36056624 original size:31 final size:29
Alignment explanation
Indices: 36056568--36056630 Score: 72
Period size: 31 Copynumber: 2.1 Consensus size: 29
36056558 TATTAAGCAG
* ** *
36056568 TTTTATAACTTAAATTCAATGTTTAATTT
1 TTTTAAAACTTAAATTCAACATTTAAATT
36056597 TTTTAAAACTTAAATTTTCAACATTTAAATT
1 TTTTAAAACTTAAA--TTCAACATTTAAATT
36056628 TTT
1 TTT
36056631 AATTCATCAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 13 0.46
31 15 0.54
ACGTcount: A:0.37, C:0.08, G:0.02, T:0.54
Consensus pattern (29 bp):
TTTTAAAACTTAAATTCAACATTTAAATT
Found at i:36058749 original size:3 final size:3
Alignment explanation
Indices: 36058741--36058774 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
36058731 TCTCTCCTCT
*
36058741 ATA ATA ATA ATA GTA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
36058775 AAGTAACATA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:36059248 original size:43 final size:43
Alignment explanation
Indices: 36059196--36059282 Score: 174
Period size: 43 Copynumber: 2.0 Consensus size: 43
36059186 TTAGTTGTAG
36059196 AGTAGTTGCTTTATATATTTATATGCAAGAAGAAAGTTGATGT
1 AGTAGTTGCTTTATATATTTATATGCAAGAAGAAAGTTGATGT
36059239 AGTAGTTGCTTTATATATTTATATGCAAGAAGAAAGTTGATGT
1 AGTAGTTGCTTTATATATTTATATGCAAGAAGAAAGTTGATGT
36059282 A
1 A
36059283 CTGTACTGTA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.36, C:0.05, G:0.21, T:0.39
Consensus pattern (43 bp):
AGTAGTTGCTTTATATATTTATATGCAAGAAGAAAGTTGATGT
Found at i:36065862 original size:27 final size:27
Alignment explanation
Indices: 36065832--36065887 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
36065822 CTCGGGCTTG
36065832 ACCTGCCCATATTAAAATTTTTATATA
1 ACCTGCCCATATTAAAATTTTTATATA
* *
36065859 ACCTGTCCATATTAAATTTTTTATATA
1 ACCTGCCCATATTAAAATTTTTATATA
36065886 AC
1 AC
36065888 TTTTTTTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.36, C:0.18, G:0.04, T:0.43
Consensus pattern (27 bp):
ACCTGCCCATATTAAAATTTTTATATA
Found at i:36069542 original size:44 final size:44
Alignment explanation
Indices: 36069478--36069562 Score: 143
Period size: 44 Copynumber: 1.9 Consensus size: 44
36069468 ACATGTATCT
*
36069478 CATCCATAGTGAACTAGGACCAACTCAACGAGCTCGGATGCTCG
1 CATCCATAATGAACTAGGACCAACTCAACGAGCTCGGATGCTCG
* *
36069522 CATCCATAATGAACTCGGACCAACTCAATGAGCTCGGATGC
1 CATCCATAATGAACTAGGACCAACTCAACGAGCTCGGATGC
36069563 CTCATAATAG
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 38 1.00
ACGTcount: A:0.31, C:0.29, G:0.21, T:0.19
Consensus pattern (44 bp):
CATCCATAATGAACTAGGACCAACTCAACGAGCTCGGATGCTCG
Found at i:36069580 original size:44 final size:44
Alignment explanation
Indices: 36069488--36069597 Score: 134
Period size: 44 Copynumber: 2.5 Consensus size: 44
36069478 CATCCATAGT
* * * *
36069488 GAACTAGGACCAACTCAACGAGCTCGGATGCTCGCATCCATAAT
1 GAACTCGGACCAACTCAATGAGCTCGGATGCTCGCATCAATAAC
*
36069532 GAACTCGGACCAACTCAATGAGCTCGGATGC-CTCAT-AATAGCAC
1 GAACTCGGACCAACTCAATGAGCTCGGATGCTCGCATCAATA--AC
*
36069576 GAACTCAGACCAACTCAATGAG
1 GAACTCGGACCAACTCAATGAG
36069598 TTCAGATTTC
Statistics
Matches: 58, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
42 3 0.05
43 4 0.07
44 51 0.88
ACGTcount: A:0.34, C:0.29, G:0.20, T:0.17
Consensus pattern (44 bp):
GAACTCGGACCAACTCAATGAGCTCGGATGCTCGCATCAATAAC
Found at i:36073559 original size:21 final size:21
Alignment explanation
Indices: 36073535--36073583 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
36073525 AAAAAGTATA
36073535 AATAAAATATATGTTAAACAT
1 AATAAAATATATGTTAAACAT
36073556 AATAAAATATATGTTAAACAT
1 AATAAAATATATGTTAAACAT
*
36073577 AACAAAA
1 AATAAAA
36073584 AATAAATTCA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.61, C:0.06, G:0.04, T:0.29
Consensus pattern (21 bp):
AATAAAATATATGTTAAACAT
Found at i:36077484 original size:2 final size:2
Alignment explanation
Indices: 36077477--36077509 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
36077467 AAACAAAATT
36077477 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
36077510 AATCCTAGTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:36086714 original size:62 final size:62
Alignment explanation
Indices: 36086623--36086747 Score: 189
Period size: 62 Copynumber: 2.0 Consensus size: 62
36086613 AGCACTTATA
* * *
36086623 ATTGGACTTAATACAGGAGAGCCCTAAAACCCTTCATAATATTTATGAGAGTCAGCAACCCT
1 ATTGAACTTAATACAAGAGAGCCCTAAAACCCTTCATAATATTTATGAGAGGCAGCAACCCT
* *
36086685 ATTGAACTTGATACAAGAGAGACCC-AAAACCTTTCATAATATTTATGAGAGGCAGCAACCCT
1 ATTGAACTTAATACAAGAGAG-CCCTAAAACCCTTCATAATATTTATGAGAGGCAGCAACCCT
36086747 A
1 A
36086748 CTGTATGTAA
Statistics
Matches: 57, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
62 54 0.95
63 3 0.05
ACGTcount: A:0.38, C:0.22, G:0.16, T:0.25
Consensus pattern (62 bp):
ATTGAACTTAATACAAGAGAGCCCTAAAACCCTTCATAATATTTATGAGAGGCAGCAACCCT
Found at i:36090285 original size:42 final size:42
Alignment explanation
Indices: 36090164--36090317 Score: 136
Period size: 42 Copynumber: 3.6 Consensus size: 42
36090154 GTATACAGCA
* * * *
36090164 ATGCCATATCCCAGATATGGTCTTACATG-GGATCTCGTGTCG
1 ATGCCATATCCCAGATATGGTCTTACAAGAAG-TCTCATATCG
* * *** *
36090206 ATGCTAATAGCCCA-ACTATAACCTTACATA-AAATCTCATATCG
1 ATGC-CATATCCCAGA-TATGGTCTTACA-AGAAGTCTCATATCG
36090249 ATGCCATATCCCAGATATGGTCTTACAAGAAGTCTCATAAT-G
1 ATGCCATATCCCAGATATGGTCTTACAAGAAGTCTCAT-ATCG
*
36090291 ATGCCATATCCCAAATATGGTCTTACA
1 ATGCCATATCCCAGATATGGTCTTACA
36090318 CATAGCCTCG
Statistics
Matches: 88, Mismatches: 17, Indels: 14
0.74 0.14 0.12
Matches are distributed among these distances:
41 1 0.01
42 56 0.64
43 31 0.35
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.29
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACAAGAAGTCTCATATCG
Found at i:36096173 original size:15 final size:15
Alignment explanation
Indices: 36096147--36096203 Score: 80
Period size: 15 Copynumber: 3.9 Consensus size: 15
36096137 CATATATATT
36096147 ATATAA-TTCAATCA
1 ATATAATTTCAATCA
*
36096161 ATATAGTTTCAATCA
1 ATATAATTTCAATCA
*
36096176 AAATAATTTCAATCA
1 ATATAATTTCAATCA
*
36096191 ATATAAATTCAAT
1 ATATAATTTCAAT
36096204 AATTCATCGT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
14 5 0.14
15 32 0.86
ACGTcount: A:0.49, C:0.12, G:0.02, T:0.37
Consensus pattern (15 bp):
ATATAATTTCAATCA
Found at i:36097539 original size:8 final size:8
Alignment explanation
Indices: 36097526--36097559 Score: 68
Period size: 8 Copynumber: 4.2 Consensus size: 8
36097516 TTTTATTATT
36097526 TAATAATA
1 TAATAATA
36097534 TAATAATA
1 TAATAATA
36097542 TAATAATA
1 TAATAATA
36097550 TAATAATA
1 TAATAATA
36097558 TA
1 TA
36097560 CTAAACATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
TAATAATA
Found at i:36100347 original size:50 final size:50
Alignment explanation
Indices: 36100273--36100372 Score: 137
Period size: 50 Copynumber: 2.0 Consensus size: 50
36100263 TAAGATGGTT
** * * *
36100273 TTAGGTCACGTGTGTAGGACTAAGTGTAGGCTACTACGTGTACCAGATAG
1 TTAGGTCACACGTGTAGGAATAAGTGCAGGCTACTACGCGTACCAGATAG
* *
36100323 TTAGGTCACACGTGTAGTAATAAGTGCAGGCTACTATGCGTACCAGATAG
1 TTAGGTCACACGTGTAGGAATAAGTGCAGGCTACTACGCGTACCAGATAG
36100373 CTTCAGTTAC
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
50 43 1.00
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.27
Consensus pattern (50 bp):
TTAGGTCACACGTGTAGGAATAAGTGCAGGCTACTACGCGTACCAGATAG
Found at i:36100591 original size:16 final size:15
Alignment explanation
Indices: 36100570--36100599 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
36100560 GAATGGAGTA
36100570 AGTGAAATTATGTAAG
1 AGTGAAATT-TGTAAG
36100586 AGTGAAATTTGTAA
1 AGTGAAATTTGTAA
36100600 TAAAACAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.43, C:0.00, G:0.23, T:0.33
Consensus pattern (15 bp):
AGTGAAATTTGTAAG
Found at i:36102638 original size:40 final size:40
Alignment explanation
Indices: 36102537--36102787 Score: 377
Period size: 39 Copynumber: 6.4 Consensus size: 40
36102527 TGATAACCGA
* *
36102537 GCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCCGG
36102577 GCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATATCCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGG
36102616 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGG
*
36102656 GCTAAGT-CCGAAGGCATTTGTGCGAGTTACTATAACCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGG
*
36102695 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGG
* * *
36102735 GCT-AGTCCCGAAGACATTTGAGCGAGTTGCTATATCC-G
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGG
* *
36102773 GTTAAATCCCGAAGG
1 GCTAAGTCCCGAAGG
36102788 TACTTGGTTT
Statistics
Matches: 197, Mismatches: 10, Indels: 9
0.91 0.05 0.04
Matches are distributed among these distances:
38 3 0.02
39 112 0.57
40 82 0.42
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGG
Found at i:36102668 original size:79 final size:79
Alignment explanation
Indices: 36102537--36102787 Score: 373
Period size: 79 Copynumber: 3.2 Consensus size: 79
36102527 TGATAACCGA
* * *
36102537 GCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCCGGGCTAAGCCCGAAGGCATTTGTGCG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCCGGGCTAAGTCCGAAGGCATTTGTGCG
36102601 AGTTACTATATCCGG
65 AGTTACTATATCCGG
36102616 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCGAAGGCATTTGTGCGA
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCGAAGGCATTTGTGCGA
*
36102681 GTTACTATAACCGG
66 GTTACTATATCCGG
* * *
36102695 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCT-AGTCCCGAAGACATTTGAGCG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGT-CCGAAGGCATTTGTGCG
*
36102759 AGTTGCTATATCC-G
65 AGTTACTATATCCGG
* *
36102773 GTTAAATCCCGAAGG
1 GCTAAGTCCCGAAGG
36102788 TACTTGGTTT
Statistics
Matches: 159, Mismatches: 11, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
78 17 0.11
79 141 0.89
80 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.26
Consensus pattern (79 bp):
GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCGAAGGCATTTGTGCGA
GTTACTATATCCGG
Found at i:36105423 original size:16 final size:16
Alignment explanation
Indices: 36105404--36105441 Score: 76
Period size: 16 Copynumber: 2.4 Consensus size: 16
36105394 TGCATGTGAT
36105404 TGAATGTTTTAAAATA
1 TGAATGTTTTAAAATA
36105420 TGAATGTTTTAAAATA
1 TGAATGTTTTAAAATA
36105436 TGAATG
1 TGAATG
36105442 AAATTTTATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.42, C:0.00, G:0.16, T:0.42
Consensus pattern (16 bp):
TGAATGTTTTAAAATA
Found at i:36105892 original size:145 final size:143
Alignment explanation
Indices: 36105601--36105931 Score: 391
Period size: 145 Copynumber: 2.3 Consensus size: 143
36105591 CATCAAAGTT
36105601 GATGCCATGTCCCAGACATGGTCTTACACT-GACTCTCATATATCGACGCCGATGCCATGTCCCA
1 GATGCCATGTCCCAGACATGGTCTTACACTAG-CTCTCATATATCGACGCCGATGCCATGTCCCA
* ** * * *
36105665 GACATGGTCTTACACTGGCTCTCATCTATCGGTGGCGATGCTATGCCCCAGACATGGTCTTACAC
65 GACATGGTCTTACACTGGC-CACA-CTATCGAAGCCGATGCCATGCCCCAGACATGGTATTACAC
36105730 TGACACATATAAAGCC
128 TGACACATATAAAGCC
* * ** *
36105746 GATGCCATGTCCCAGACATGGTCTTACATTAGCTCTCATCTATCGGTGCCGATGCCATGTCCTAG
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATATCGACGCCGATGCCATGTCCCAG
*
36105811 ACATGGTCTTACACTGG-CACA-TATC-AAGCCGATGCCATGTCCCAGACATGGTATTACACTAG
66 ACATGGTCTTACACTGGCCACACTATCGAAGCCGATGCCATGCCCCAGACATGGTATTACACT-G
* * * *
36105873 CTCTCATATCTCGAGGCC
130 -ACACATA--T-AAAGCC
* * *
36105891 GATGCCATGTCCCAGACACGATTTTACACTAGCTCTCATAT
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAT
36105932 CTCCCTAGCA
Statistics
Matches: 159, Mismatches: 21, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
140 29 0.18
141 5 0.03
142 5 0.03
143 3 0.02
144 1 0.01
145 115 0.72
146 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (143 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATATCGACGCCGATGCCATGTCCCAG
ACATGGTCTTACACTGGCCACACTATCGAAGCCGATGCCATGCCCCAGACATGGTATTACACTGA
CACATATAAAGCC
Found at i:36105920 original size:95 final size:95
Alignment explanation
Indices: 36105601--36105908 Score: 438
Period size: 95 Copynumber: 3.2 Consensus size: 95
36105591 CATCAAAGTT
* *
36105601 GATGCCATGTCCCAGACATGGTCTTACACTGACTCTCATATATCGACGCCGATGCCATGTCCCAG
1 GATGCCATGTCCCAGACATGGTCTTACACTGA--CACATATA---AAGCCGATGCCATGTCCCAG
* *
36105666 ACATGGTCTTACACTGGCTCTCATCTATCGGTGGC
61 ACATGGTCTTACACTAGCTCTCATCTATCGGTGCC
* *
36105701 GATGCTATGCCCCAGACATGGTCTTACACTGACACATATAAAGCCGATGCCATGTCCCAGACATG
1 GATGCCATGTCCCAGACATGGTCTTACACTGACACATATAAAGCCGATGCCATGTCCCAGACATG
*
36105766 GTCTTACATTAGCTCTCATCTATCGGTGCC
66 GTCTTACACTAGCTCTCATCTATCGGTGCC
* * *
36105796 GATGCCATGTCCTAGACATGGTCTTACACTGGCACATATCAAGCCGATGCCATGTCCCAGACATG
1 GATGCCATGTCCCAGACATGGTCTTACACTGACACATATAAAGCCGATGCCATGTCCCAGACATG
* * *
36105861 GTATTACACTAGCTCTCATATCTCGAG-GCC
66 GTCTTACACTAGCTCTCATCTATCG-GTGCC
36105891 GATGCCATGTCCCAGACA
1 GATGCCATGTCCCAGACA
36105909 CGATTTTACA
Statistics
Matches: 190, Mismatches: 17, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
95 152 0.80
96 1 0.01
98 7 0.04
100 30 0.16
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (95 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGACACATATAAAGCCGATGCCATGTCCCAGACATG
GTCTTACACTAGCTCTCATCTATCGGTGCC
Found at i:36105934 original size:50 final size:49
Alignment explanation
Indices: 36105552--36105931 Score: 359
Period size: 50 Copynumber: 7.8 Consensus size: 49
36105542 GGTAAGGTGT
* * * * * * * * *
36105552 CGATGCCATGTCCCGGACATGGTCTTTCAGTG-GCTCACACATCAAAGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGCTCTCATATATCGAGGC
* *
36105600 TGATGCCATGTCCCAGACATGGTCTTACACTGACTCTCATATATCGACGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTG-CTCTCATATATCGAGGC
* *
36105650 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTATCG-GTGG
1 CGATGCCATGTCCCAGACATGGTCTTACACT-GCTCTCATATATCGAG-GC
* * * * *
36105700 CGATGCTATGCCCCAGACATGGTCTTACACTG-ACACATATA---AAGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGCTCTCATATATCGAGGC
* *
36105745 CGATGCCATGTCCCAGACATGGTCTTACATTAGCTCTCATCTATCG-GTGC
1 CGATGCCATGTCCCAGACATGGTCTTACACT-GCTCTCATATATCGAG-GC
* * * *
36105795 CGATGCCATGTCCTAGACATGGTCTTACACTG---GCACATATC-AAGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGCTCTCATATATCGAGGC
* *
36105840 CGATGCCATGTCCCAGACATGGTATTACACTAGCTCTCATATCTCGAGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACT-GCTCTCATATATCGAGGC
* * *
36105890 CGATGCCATGTCCCAGACACGATTTTACACTAGCTCTCATAT
1 CGATGCCATGTCCCAGACATGGTCTTACACT-GCTCTCATAT
36105932 CTCCCTAGCA
Statistics
Matches: 272, Mismatches: 43, Indels: 32
0.78 0.12 0.09
Matches are distributed among these distances:
45 60 0.22
46 8 0.03
47 6 0.02
48 34 0.12
49 8 0.03
50 155 0.57
51 1 0.00
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.27
Consensus pattern (49 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGCTCTCATATATCGAGGC
Found at i:36106243 original size:21 final size:21
Alignment explanation
Indices: 36106219--36106262 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
36106209 AATTCAATAT
36106219 AATCATAGCAAGATAGATTTC
1 AATCATAGCAAGATAGATTTC
36106240 AATCATAGCAAGATAGATTTC
1 AATCATAGCAAGATAGATTTC
36106261 AA
1 AA
36106263 GTATATTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.45, C:0.14, G:0.14, T:0.27
Consensus pattern (21 bp):
AATCATAGCAAGATAGATTTC
Found at i:36116885 original size:24 final size:24
Alignment explanation
Indices: 36116833--36116914 Score: 83
Period size: 24 Copynumber: 3.4 Consensus size: 24
36116823 AGCCTTGTAA
* * *
36116833 CGGGAAGCTCACACAGAGCCATTT
1 CGGGAAGCTCACAAAGAACCATAT
** * *
36116857 CGGGAAGCTCGTAAAGAACCTTGT
1 CGGGAAGCTCACAAAGAACCATAT
* *
36116881 TGGGAAGTTCACAAAGAACCATAT
1 CGGGAAGCTCACAAAGAACCATAT
36116905 CGGGAAGCTC
1 CGGGAAGCTC
36116915 TGAATAGCCA
Statistics
Matches: 44, Mismatches: 14, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
24 44 1.00
ACGTcount: A:0.32, C:0.23, G:0.27, T:0.18
Consensus pattern (24 bp):
CGGGAAGCTCACAAAGAACCATAT
Found at i:36120147 original size:42 final size:42
Alignment explanation
Indices: 36120101--36120187 Score: 174
Period size: 42 Copynumber: 2.1 Consensus size: 42
36120091 TATTCTGTCT
36120101 AAGAAGAAAATGCTTAGTGAGTTCGAGATTGTAGCACTAACA
1 AAGAAGAAAATGCTTAGTGAGTTCGAGATTGTAGCACTAACA
36120143 AAGAAGAAAATGCTTAGTGAGTTCGAGATTGTAGCACTAACA
1 AAGAAGAAAATGCTTAGTGAGTTCGAGATTGTAGCACTAACA
36120185 AAG
1 AAG
36120188 GAGTGCAATG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.41, C:0.11, G:0.24, T:0.23
Consensus pattern (42 bp):
AAGAAGAAAATGCTTAGTGAGTTCGAGATTGTAGCACTAACA
Found at i:36121789 original size:10 final size:10
Alignment explanation
Indices: 36121776--36121808 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
36121766 AAGCTCGGTT
36121776 GAGCTGAAAC
1 GAGCTGAAAC
*
36121786 GAGCTGAAAT
1 GAGCTGAAAC
36121796 GAGCTGAAAC
1 GAGCTGAAAC
36121806 GAG
1 GAG
36121809 TTGGATGGGC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.39, C:0.15, G:0.33, T:0.12
Consensus pattern (10 bp):
GAGCTGAAAC
Found at i:36123691 original size:50 final size:48
Alignment explanation
Indices: 36123559--36123880 Score: 226
Period size: 46 Copynumber: 6.8 Consensus size: 48
36123549 CATGGGTAAA
* *
36123559 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATCTTC
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTATCATCTCC
* * *
36123607 GAGGCTGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCA-CATAACC
1 G-TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTATCATC-T--CC
*
36123658 GTGCCGATGCCATGTCCCAGACATGGTCGTACACT-GAC-A-CATCT-C
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTAG-CTATCATCTCC
* * *
36123703 GTAGCCGATG-CATGTCCCAAACAT-GTCTTATACTAGCT-TACGTCT-C
1 GT-GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTAT-CATCTCC
* ** * * *
36123749 GAGGCTAATG-CATGTCCAAGACAT-GTCTTACACTAGC-ACTCGTCTCA
1 G-TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTA-TCATCTCC
* * * * *
36123796 ATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAAT--
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTATCAT-CTCC
***
36123843 GTGGCCGATG-CATGTCTTTGACAT-GTCTTACACTAGCT
1 GT-GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCT
36123881 CACACAAATG
Statistics
Matches: 218, Mismatches: 36, Indels: 42
0.74 0.12 0.14
Matches are distributed among these distances:
44 9 0.04
45 17 0.08
46 65 0.30
47 24 0.11
48 27 0.12
49 42 0.19
50 32 0.15
51 2 0.01
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (48 bp):
GTGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTATCATCTCC
Found at i:36123858 original size:94 final size:96
Alignment explanation
Indices: 36123561--36123879 Score: 295
Period size: 94 Copynumber: 3.4 Consensus size: 96
36123551 TGGGTAAAGT
* * *
36123561 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTA-TCATCTTCGAGGCTGATGCCATGTCC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGC-ACTCATC-TC-ATGCCGATGCCATGTCC
* *
36123625 CAGACATGGTCTTACACTAGCTCTCACATAACCGT-
63 CAAACATGGTCTTACACTAGCTCT-ACATAA-TGTG
* * *
36123660 GCCGATGCCATGTCCCAGACATGGTCGTACACT-G-ACACATCTCGTAGCCGATG-CATGTCCCA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCATCTCAT-GCCGATGCCATGTCCCA
* * * *
36123722 AACAT-GTCTTATACTAGCT-TACGT-CTCGAG
65 AACATGGTCTTACACTAGCTCTACATAAT-GTG
** * *
36123752 GCTAATG-CATGTCCAAGACAT-GTCTTACACTAGCACTCGTCTCAATGCCGATGCCATGTCCCA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCATCTC-ATGCCGATGCCATGTCCCA
*
36123815 AACATGGTCTTACACTGGCTCT-CATAATGTG
65 AACATGGTCTTACACTAGCTCTACATAATGTG
***
36123846 GCCGATG-CATGTCTTTGACAT-GTCTTACACTAGC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGC
36123880 TCACACAAAT
Statistics
Matches: 181, Mismatches: 28, Indels: 27
0.77 0.12 0.11
Matches are distributed among these distances:
90 9 0.05
91 15 0.08
92 22 0.12
93 16 0.09
94 58 0.32
95 15 0.08
96 9 0.05
97 4 0.02
98 1 0.01
99 32 0.18
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.27
Consensus pattern (96 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCATCTCATGCCGATGCCATGTCCCAA
ACATGGTCTTACACTAGCTCTACATAATGTG
Found at i:36123872 original size:140 final size:140
Alignment explanation
Indices: 36123561--36123831 Score: 345
Period size: 138 Copynumber: 1.9 Consensus size: 140
36123551 TGGGTAAAGT
* * * *
36123561 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGC-TATCATCTTCGAGGCTGATGCCATGTCC
1 GCCGATG-CATGTCCCAAACAT-GTCTTACACTAGCTTA-CGTC-TCGAGGCTAATGCCATGTCC
* * *
36123625 CAGACATGGTCTTACACTAGCTCTCACATAACCGTGCCGATGCCATGTCCCAGACATGGTCGTAC
62 AAGACATGGTCTTACACTAGCACTCACATAA-C-TGCCGATGCCATGTCCCAAACATGGTCGTAC
36123690 ACTGACACATCTCGTA
125 ACTGACACATCTCGTA
*
36123706 GCCGATGCATGTCCCAAACATGTCTTATACTAGCTTACGTCTCGAGGCTAATG-CATGTCCAAGA
1 GCCGATGCATGTCCCAAACATGTCTTACACTAGCTTACGTCTCGAGGCTAATGCCATGTCCAAGA
* *
36123770 CAT-GTCTTACACTAGCACTCGTC-TCAA-TGCCGATGCCATGTCCCAAACATGGTCTTACACTG
66 CATGGTCTTACACTAGCACTC-ACAT-AACTGCCGATGCCATGTCCCAAACATGGTCGTACACTG
36123832 GCTCTCATAA
Statistics
Matches: 113, Mismatches: 10, Indels: 13
0.83 0.07 0.10
Matches are distributed among these distances:
138 33 0.29
140 17 0.15
141 16 0.14
142 11 0.10
143 14 0.12
144 15 0.13
145 7 0.06
ACGTcount: A:0.24, C:0.31, G:0.20, T:0.26
Consensus pattern (140 bp):
GCCGATGCATGTCCCAAACATGTCTTACACTAGCTTACGTCTCGAGGCTAATGCCATGTCCAAGA
CATGGTCTTACACTAGCACTCACATAACTGCCGATGCCATGTCCCAAACATGGTCGTACACTGAC
ACATCTCGTA
Found at i:36123878 original size:140 final size:142
Alignment explanation
Indices: 36123561--36123880 Score: 350
Period size: 140 Copynumber: 2.2 Consensus size: 142
36123551 TGGGTAAAGT
* *
36123561 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGC-TATCATCTTCGAGGCTGATGCCATGTCC
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTTATCATCTTCGAGGCTAATGCCATGTCC
* * *
36123625 CAGACATGGTCTTACACTAGCTCTCACATAACCGTGCCGATGCCATGTCCCAGACATGGTCGTAC
64 AAGACATGGTCTTACACTAGCACTCACATAA-C-TGCCGATGCCATGTCCCAAACATGGTCGTAC
36123690 ACTGACACATCTCGTA
127 ACTGACACATCTCGTA
* * *
36123706 GCCGATGCATGTCCCAAACATGTCTTATACTAGCTTA-CGTC-TCGAGGCTAATG-CATGTCCAA
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTTATCATCTTCGAGGCTAATGCCATGTCCAA
* *
36123768 GACAT-GTCTTACACTAGCACTCGTC-TCAA-TGCCGATGCCATGTCCCAAACATGGTCTTACAC
66 GACATGGTCTTACACTAGCACTC-ACAT-AACTGCCGATGCCATGTCCCAAACATGGTCGTACAC
* * * *
36123830 TGGCTC-TCATAATGTG
129 TGACACATC-T--CGTA
***
36123846 GCCGATGCATGTCTTTGACATGTCTTACACTAGCT
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCT
36123881 CACACAAATG
Statistics
Matches: 150, Mismatches: 19, Indels: 17
0.81 0.10 0.09
Matches are distributed among these distances:
137 2 0.01
138 36 0.24
140 49 0.33
141 16 0.11
142 11 0.07
143 14 0.09
144 15 0.10
145 7 0.05
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (142 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCTTATCATCTTCGAGGCTAATGCCATGTCCAA
GACATGGTCTTACACTAGCACTCACATAACTGCCGATGCCATGTCCCAAACATGGTCGTACACTG
ACACATCTCGTA
Found at i:36129647 original size:21 final size:21
Alignment explanation
Indices: 36129601--36129647 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
36129591 AATAAAGAAC
*
36129601 GAGCTAAAAGTAAGCTCGGTT
1 GAGCTAAAAGTAAGCTCGATT
*
36129622 GAGCTAAAAGTAAGCTTGATT
1 GAGCTAAAAGTAAGCTCGATT
*
36129643 TAGCT
1 GAGCT
36129648 CAAACGAGCT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.34, C:0.13, G:0.26, T:0.28
Consensus pattern (21 bp):
GAGCTAAAAGTAAGCTCGATT
Found at i:36135752 original size:30 final size:28
Alignment explanation
Indices: 36135656--36135763 Score: 96
Period size: 30 Copynumber: 3.8 Consensus size: 28
36135646 TAGGGAAAAG
*
36135656 AAGAAGAGAAAGTAGATGAAGAGAAAAGAA
1 AAGAAAAGAAAGTAGATGAAGAG--AAGAA
* * *
36135686 AAGAAAAAAAAGAAG-GGAA-AGAAGAA
1 AAGAAAAGAAAGTAGATGAAGAGAAGAA
36135712 GAAG-AAAGAAAGTAGATGAAGAGAGGAGAA
1 -AAGAAAAGAAAGTAGATGAAGAGA--AGAA
* *
36135742 AAGAAAAGAAAATAGAAGAAGA
1 AAGAAAAGAAAGTAGATGAAGA
36135764 AGAAAAACTG
Statistics
Matches: 63, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
26 14 0.22
27 6 0.10
28 5 0.08
29 6 0.10
30 32 0.51
ACGTcount: A:0.66, C:0.00, G:0.30, T:0.05
Consensus pattern (28 bp):
AAGAAAAGAAAGTAGATGAAGAGAAGAA
Found at i:36136849 original size:19 final size:18
Alignment explanation
Indices: 36136812--36136855 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
36136802 ATACATACAG
36136812 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
36136829 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
36136848 TACTAATT
1 TAATAATT
36136856 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:36137940 original size:56 final size:56
Alignment explanation
Indices: 36137871--36138035 Score: 242
Period size: 56 Copynumber: 2.9 Consensus size: 56
36137861 TTACATGTAA
* * *
36137871 TCACATATCGATGCCACTATATTAAACGTTGTCTTACTCACACACATATATCGGAG
1 TCACATATCGATGCCACTGTATTAAACGTAGTCTTACTCGCACACATATATCGGAG
* * * * *
36137927 TCACATATTGATGCCAATGTATTAAACATAGTCTTACTCGCAGACATATATCAGAG
1 TCACATATCGATGCCACTGTATTAAACGTAGTCTTACTCGCACACATATATCGGAG
36137983 TCACATATCGATGCCAAC-GTATTAAACGTAGTCTTACTCGCACACATATATCG
1 TCACATATCGATGCC-ACTGTATTAAACGTAGTCTTACTCGCACACATATATCG
36138036 ATGCCATGGT
Statistics
Matches: 95, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
56 94 0.99
57 1 0.01
ACGTcount: A:0.33, C:0.24, G:0.13, T:0.30
Consensus pattern (56 bp):
TCACATATCGATGCCACTGTATTAAACGTAGTCTTACTCGCACACATATATCGGAG
Found at i:36145400 original size:47 final size:47
Alignment explanation
Indices: 36145341--36145781 Score: 675
Period size: 47 Copynumber: 9.4 Consensus size: 47
36145331 GATGTACAAG
* * *
36145341 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
36145388 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* * **
36145435 GTGTGTATATGTGATAAGGCCTAATGGCTGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
36145482 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* * *
36145529 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
36145576 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* *
36145623 GTGTATATATGTGATAAGGCCGAGTGGCCAACGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* * * * * * *
36145670 GTGTATATATGAGACAAGACCTAATGGCCGATGTGATGGATGTGAAG
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* *
36145717 GTGTAAATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* *
36145764 GTGTTTAAATGTGATAAG
1 GTGTATATATGTGATAAG
36145782 TCTCGAAGGG
Statistics
Matches: 356, Mismatches: 38, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 356 1.00
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.28
Consensus pattern (47 bp):
GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
Found at i:36168865 original size:46 final size:46
Alignment explanation
Indices: 36168813--36168952 Score: 255
Period size: 46 Copynumber: 3.0 Consensus size: 46
36168803 GTTGAATTTA
36168813 AAGCTTGTTAAATTGCTCTTAATATTTCCGGATAAGTTACTTAGTT
1 AAGCTTGTTAAATTGCTCTTAATATTTCCGGATAAGTTACTTAGTT
*
36168859 AAGCTTGTTAAATTGCTCTTAATATTTCTGGATAAGTTACTTAG-T
1 AAGCTTGTTAAATTGCTCTTAATATTTCCGGATAAGTTACTTAGTT
36168904 AAGCTTGTTAAACTTGCTCTTAATATTTCCGGATAAGTTACTTAGTT
1 AAGCTTGTTAAA-TTGCTCTTAATATTTCCGGATAAGTTACTTAGTT
36168951 AA
1 AA
36168953 AGAAAATTTT
Statistics
Matches: 90, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
45 13 0.14
46 74 0.82
47 3 0.03
ACGTcount: A:0.29, C:0.13, G:0.15, T:0.43
Consensus pattern (46 bp):
AAGCTTGTTAAATTGCTCTTAATATTTCCGGATAAGTTACTTAGTT
Found at i:36169821 original size:45 final size:44
Alignment explanation
Indices: 36169754--36169956 Score: 259
Period size: 45 Copynumber: 4.6 Consensus size: 44
36169744 ATATCACACA
*
36169754 ATACTATTCGGGCCTTTAAGCCTAGCAGGCTATAATGCCAGTGAG
1 ATACTATTCGGG-CTTTGAGCCTAGCAGGCTATAATGCCAGTGAG
*
36169799 ATACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAG
1 ATACTATTCGGG-CTTTGAGCCTAGCAGGCTATAATGCCAGTGAG
** * * *
36169844 ATACTATTTAGGCTTCGAGCCTAGCAGGCGA-AATGCCAGTAAG
1 ATACTATTCGGGCTTTGAGCCTAGCAGGCTATAATGCCAGTGAG
* *
36169887 ATACTATTCGGGCTTTCGAGCCTAGTAGGCTATAATGCCAGTGAA
1 ATACTATTCGGGCTTT-GAGCCTAGCAGGCTATAATGCCAGTGAG
*
36169932 ATGA-TA-TCGGGCTTCGAGCCTAGCA
1 AT-ACTATTCGGGCTTTGAGCCTAGCA
36169957 AGCGAAATGC
Statistics
Matches: 138, Mismatches: 17, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
43 32 0.23
44 38 0.28
45 67 0.49
46 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (44 bp):
ATACTATTCGGGCTTTGAGCCTAGCAGGCTATAATGCCAGTGAG
Found at i:36169922 original size:88 final size:87
Alignment explanation
Indices: 36169772--36169967 Score: 270
Period size: 88 Copynumber: 2.2 Consensus size: 87
36169762 CGGGCCTTTA
* *
36169772 AGCCTAGCAGGCTATAATGCCAGTGAGATACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGC
1 AGCCTAGCAGGCGA-AATGCCAGTAAGATACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGC
* * *
36169837 CGGTGAGAT-ACTATTTAGGCTTCG
65 CAGTGAAATGA-TA-TCAGGCTTCG
*
36169861 AGCCTAGCAGGCGAAATGCCAGTAAGATACTATTCGGG-CTTTCGAGCCTAGTAGGCTATAATGC
1 AGCCTAGCAGGCGAAATGCCAGTAAGATACTATTCGGGCCTTT-GAGCCTAGCAGGCTATAATGC
*
36169925 CAGTGAAATGATATCGGGCTTCG
65 CAGTGAAATGATATCAGGCTTCG
*
36169948 AGCCTAGCAAGCGAAATGCC
1 AGCCTAGCAGGCGAAATGCC
36169968 GGTGAATGAA
Statistics
Matches: 97, Mismatches: 8, Indels: 6
0.87 0.07 0.05
Matches are distributed among these distances:
87 31 0.32
88 52 0.54
89 14 0.14
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (87 bp):
AGCCTAGCAGGCGAAATGCCAGTAAGATACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCC
AGTGAAATGATATCAGGCTTCG
Found at i:36170531 original size:16 final size:18
Alignment explanation
Indices: 36170500--36170532 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
36170490 AACTCGTCAC
36170500 ACTATCTATCATTTTGGT
1 ACTATCTATCATTTTGGT
36170518 ACTA-CTAT-ATTTTGG
1 ACTATCTATCATTTTGG
36170533 AGCTTGTATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 4 0.27
18 4 0.27
ACGTcount: A:0.24, C:0.15, G:0.12, T:0.48
Consensus pattern (18 bp):
ACTATCTATCATTTTGGT
Found at i:36179032 original size:43 final size:43
Alignment explanation
Indices: 36178877--36179033 Score: 131
Period size: 43 Copynumber: 3.7 Consensus size: 43
36178867 TGCGTTATTG
* * * *
36178877 TGTAAGACCGCATCTGGGACATTGGCATCGACT-TATGATTTACT
1 TGTAAGACCACATCTGGGACATTGGCATC-AATATTTGA-TTACA
** * * * * * *
36178921 TGTAAGACCATGTCTAGGACATCGACATC-GTATTTGATTTCG
1 TGTAAGACCACATCTGGGACATTGGCATCAATATTTGATTACA
* *
36178963 TGTAAGACC-CTATCCGGGACAGTGGCATCAATATTTGATTACA
1 TGTAAGACCAC-ATCTGGGACATTGGCATCAATATTTGATTACA
*
36179006 TGTAAGACCACATCTGGGACCTTGGCAT
1 TGTAAGACCACATCTGGGACATTGGCAT
36179034 TGTACAAGTT
Statistics
Matches: 86, Mismatches: 23, Indels: 9
0.73 0.19 0.08
Matches are distributed among these distances:
42 25 0.29
43 37 0.43
44 24 0.28
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.30
Consensus pattern (43 bp):
TGTAAGACCACATCTGGGACATTGGCATCAATATTTGATTACA
Found at i:36184385 original size:15 final size:17
Alignment explanation
Indices: 36184355--36184386 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
36184345 TTGACACTTG
36184355 TGAATGTGAGTTTGGTA
1 TGAATGTGAGTTTGGTA
36184372 TGAAT-TGA-TTTGGTA
1 TGAATGTGAGTTTGGTA
36184387 AAATATGCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.25, C:0.00, G:0.31, T:0.44
Consensus pattern (17 bp):
TGAATGTGAGTTTGGTA
Found at i:36190088 original size:22 final size:22
Alignment explanation
Indices: 36190063--36190116 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
36190053 AGCAGATGTT
*
36190063 TGTTTTATGAATTATAA-TGAAA
1 TGTTTTATGAAGTA-AATTGAAA
** *
36190085 TGTTAAATTAAGTAAATTGAAA
1 TGTTTTATGAAGTAAATTGAAA
36190107 TGTTTTATGA
1 TGTTTTATGA
36190117 TTGAGTTCAT
Statistics
Matches: 24, Mismatches: 7, Indels: 2
0.73 0.21 0.06
Matches are distributed among these distances:
21 2 0.08
22 22 0.92
ACGTcount: A:0.41, C:0.00, G:0.15, T:0.44
Consensus pattern (22 bp):
TGTTTTATGAAGTAAATTGAAA
Found at i:36192290 original size:28 final size:29
Alignment explanation
Indices: 36192200--36192312 Score: 176
Period size: 29 Copynumber: 4.0 Consensus size: 29
36192190 AGCATGAATC
36192200 TGAATGTGATTTGGGCCTAATGGGCCATA
1 TGAATGTGATTTGGGCCTAATGGGCCATA
36192229 TGAATGTGATTTGGGCCTAATGGGCCATA
1 TGAATGTGATTTGGGCCTAATGGGCCATA
*
36192258 CGAATGTGATTTGGGCC-AATGGGCCATA
1 TGAATGTGATTTGGGCCTAATGGGCCATA
* * *
36192286 TGAATGAGA-TTGGGCTTAGTGGGCCAT
1 TGAATGTGATTTGGGCCTAATGGGCCAT
36192313 GTGCATGTAT
Statistics
Matches: 78, Mismatches: 5, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
27 6 0.08
28 27 0.35
29 45 0.58
ACGTcount: A:0.24, C:0.14, G:0.33, T:0.29
Consensus pattern (29 bp):
TGAATGTGATTTGGGCCTAATGGGCCATA
Found at i:36192290 original size:57 final size:57
Alignment explanation
Indices: 36192201--36192312 Score: 181
Period size: 57 Copynumber: 2.0 Consensus size: 57
36192191 GCATGAATCT
*
36192201 GAATGTGATTTGGGCCTAATGGGCCATATGAATGTGATTTGGGCCTAATGGGCCATAC
1 GAATGTGATTTGGGCCTAATGGGCCATATGAATGAGA-TTGGGCCTAATGGGCCATAC
* *
36192259 GAATGTGATTTGGGCC-AATGGGCCATATGAATGAGATTGGGCTTAGTGGGCCAT
1 GAATGTGATTTGGGCCTAATGGGCCATATGAATGAGATTGGGCCTAATGGGCCAT
36192313 GTGCATGTAT
Statistics
Matches: 51, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
56 16 0.31
57 19 0.37
58 16 0.31
ACGTcount: A:0.24, C:0.14, G:0.33, T:0.29
Consensus pattern (57 bp):
GAATGTGATTTGGGCCTAATGGGCCATATGAATGAGATTGGGCCTAATGGGCCATAC
Found at i:36193382 original size:17 final size:18
Alignment explanation
Indices: 36193349--36193382 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
36193339 TTTAAGGAAG
36193349 GGTTTTCAATGAAAACAA
1 GGTTTTCAATGAAAACAA
*
36193367 GGTTTTCGAT-AAAACA
1 GGTTTTCAATGAAAACA
36193383 CTTCAATGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (18 bp):
GGTTTTCAATGAAAACAA
Found at i:36200153 original size:15 final size:15
Alignment explanation
Indices: 36200129--36200159 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
36200119 GCCACGTTCA
36200129 TGAGGAGGGTGTTAT
1 TGAGGAGGGTGTTAT
*
36200144 TGAGGTGGGTGTTAT
1 TGAGGAGGGTGTTAT
36200159 T
1 T
36200160 ACTTCAAGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.16, C:0.00, G:0.45, T:0.39
Consensus pattern (15 bp):
TGAGGAGGGTGTTAT
Found at i:36206564 original size:18 final size:18
Alignment explanation
Indices: 36206530--36206572 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
36206520 TATTAATCAG
*
36206530 TGCAGTAACCATGAACAA
1 TGCAGTAACCATAAACAA
*
36206548 TGCAGTAA-CAGTAAACAG
1 TGCAGTAACCA-TAAACAA
36206566 TGCAGTA
1 TGCAGTA
36206573 TGCAAGCAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 2 0.09
18 20 0.91
ACGTcount: A:0.42, C:0.19, G:0.21, T:0.19
Consensus pattern (18 bp):
TGCAGTAACCATAAACAA
Found at i:36206930 original size:27 final size:27
Alignment explanation
Indices: 36206906--36206996 Score: 141
Period size: 27 Copynumber: 3.4 Consensus size: 27
36206896 GGGATATTAT
36206906 AGTCATTTTACCCTAT-AGGAGTATTTC
1 AGTCATTTTACCCTATGAGG-GTATTTC
*
36206933 GGTCATTTTACCCTATGAGGGTATTTC
1 AGTCATTTTACCCTATGAGGGTATTTC
36206960 AGTCATTTTACCCTATGAGGGTATTTC
1 AGTCATTTTACCCTATGAGGGTATTTC
36206987 -GATCATTTTA
1 AG-TCATTTTA
36206997 TCACATAAGG
Statistics
Matches: 60, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
26 1 0.02
27 56 0.93
28 3 0.05
ACGTcount: A:0.23, C:0.18, G:0.18, T:0.42
Consensus pattern (27 bp):
AGTCATTTTACCCTATGAGGGTATTTC
Found at i:36206943 original size:54 final size:54
Alignment explanation
Indices: 36206880--36206996 Score: 150
Period size: 54 Copynumber: 2.2 Consensus size: 54
36206870 GAACAAATCT
*
36206880 GTCATTTTACCTTACCG-GGATATTAT-AGTCATTTTACCCTAT-AGGAGTATTTCG
1 GTCATTTTACCCTA-CGAGGATATT-TCAGTCATTTTACCCTATGAGG-GTATTTCG
* *
36206934 GTCATTTTACCCTATGAGGGTATTTCAGTCATTTTACCCTATGAGGGTATTTCG
1 GTCATTTTACCCTACGAGGATATTTCAGTCATTTTACCCTATGAGGGTATTTCG
*
36206988 ATCATTTTA
1 GTCATTTTA
36206997 TCACATAAGG
Statistics
Matches: 56, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
53 2 0.04
54 51 0.91
55 3 0.05
ACGTcount: A:0.23, C:0.18, G:0.17, T:0.42
Consensus pattern (54 bp):
GTCATTTTACCCTACGAGGATATTTCAGTCATTTTACCCTATGAGGGTATTTCG
Found at i:36207018 original size:27 final size:27
Alignment explanation
Indices: 36206989--36207275 Score: 353
Period size: 27 Copynumber: 10.7 Consensus size: 27
36206979 GGTATTTCGA
* **
36206989 TCATTTTATCACATAAGGGAAAAATTA
1 TCATTTTATCACATGAGGGAAAAATCG
* *
36207016 TCATTTTATCATATGAGGGAAAAATTG
1 TCATTTTATCACATGAGGGAAAAATCG
* *
36207043 TCATTTTATAACATGAGGGCAAAATCG
1 TCATTTTATCACATGAGGGAAAAATCG
* *
36207070 TCATTTTATCACATGAAGGCAAAATCG
1 TCATTTTATCACATGAGGGAAAAATCG
*
36207097 TCATTTTACCACATGAGGGAAAAATCG
1 TCATTTTATCACATGAGGGAAAAATCG
* *
36207124 TCA--TTACCACATAAGGGAAAAATCG
1 TCATTTTATCACATGAGGGAAAAATCG
* *
36207149 TCATATTATCACATGAGGGAAAAATTG
1 TCATTTTATCACATGAGGGAAAAATCG
* * *
36207176 TCATTTTACCATATGAGGGGAAAATCG
1 TCATTTTATCACATGAGGGAAAAATCG
*
36207203 TCATTTTATCACATGAGGGCAAAATCG
1 TCATTTTATCACATGAGGGAAAAATCG
* * * *
36207230 TTATTTTATAACATGAGGGCAAAATCA
1 TCATTTTATCACATGAGGGAAAAATCG
*
36207257 TCATTTTATCACATTAGGG
1 TCATTTTATCACATGAGGG
36207276 TTCAGGTACG
Statistics
Matches: 228, Mismatches: 30, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
25 24 0.11
27 204 0.89
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.31
Consensus pattern (27 bp):
TCATTTTATCACATGAGGGAAAAATCG
Found at i:36207179 original size:133 final size:133
Alignment explanation
Indices: 36206998--36207261 Score: 402
Period size: 133 Copynumber: 2.0 Consensus size: 133
36206988 ATCATTTTAT
* * * *
36206998 CACATAAGGGAAAAATTATCATTTTATCATATGAGGGAAAAATTGTCATTTTATAACATGAGGGC
1 CACATAAGGGAAAAATCATCATATTATCACATGAGGGAAAAATTGTCATTTTACAACATGAGGGC
* *
36207063 AAAATCGTCATTTTATCACATGAAGGCAAAATCGTCATTTTACCACATGAGGGAAAAATCGTCAT
66 AAAATCGTCATTTTATCACATGAAGGCAAAATCGTCATTTTACAACATGAGGGAAAAATCATCAT
36207128 TAC
131 TAC
* * * *
36207131 CACATAAGGGAAAAATCGTCATATTATCACATGAGGGAAAAATTGTCATTTTACCATATGAGGGG
1 CACATAAGGGAAAAATCATCATATTATCACATGAGGGAAAAATTGTCATTTTACAACATGAGGGC
* * * *
36207196 AAAATCGTCATTTTATCACATGAGGGCAAAATCGTTATTTTATAACATGAGGGCAAAATCATCAT
66 AAAATCGTCATTTTATCACATGAAGGCAAAATCGTCATTTTACAACATGAGGGAAAAATCATCAT
36207261 T
131 T
36207262 TTATCACATT
Statistics
Matches: 117, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
133 117 1.00
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.29
Consensus pattern (133 bp):
CACATAAGGGAAAAATCATCATATTATCACATGAGGGAAAAATTGTCATTTTACAACATGAGGGC
AAAATCGTCATTTTATCACATGAAGGCAAAATCGTCATTTTACAACATGAGGGAAAAATCATCAT
TAC
Found at i:36213086 original size:15 final size:16
Alignment explanation
Indices: 36213068--36213101 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
36213058 AAATTAAATT
*
36213068 AATTAA-CTAGATGCA
1 AATTAACCTAAATGCA
36213083 AATTAACCTAAATGCA
1 AATTAACCTAAATGCA
36213099 AAT
1 AAT
36213102 GAGATGAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.50, C:0.15, G:0.09, T:0.26
Consensus pattern (16 bp):
AATTAACCTAAATGCA
Found at i:36218198 original size:42 final size:42
Alignment explanation
Indices: 36218083--36218200 Score: 132
Period size: 43 Copynumber: 2.8 Consensus size: 42
36218073 ATACCAATGT
**
36218083 CATATCCTAGATATGGTCTTACA-TGGGATCTCATATCGATGC
1 CATATCCTAGATATGGTCTTACACT-AAATCTCATATCGATGC
* * * *
36218125 CAATAGCCCA-AGTATGGTCTCACACGAAATCTCATATCGATGC
1 C-ATATCCTAGA-TATGGTCTTACACTAAATCTCATATCGATGC
*
36218168 CATATCCTAGATATGGTCTTACACTTAATCTCA
1 CATATCCTAGATATGGTCTTACACTAAATCTCA
36218201 ACTAACCCTA
Statistics
Matches: 61, Mismatches: 11, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
42 27 0.44
43 34 0.56
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.31
Consensus pattern (42 bp):
CATATCCTAGATATGGTCTTACACTAAATCTCATATCGATGC
Found at i:36219796 original size:6 final size:6
Alignment explanation
Indices: 36219778--36219970 Score: 148
Period size: 6 Copynumber: 31.3 Consensus size: 6
36219768 AAGAAACATT
36219778 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAG-
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
* * * *
36219825 GTGACAGA ATCAAA ATCAAA ATCAGA ATCAGA ATTAGGTA A-CAGA ATCAGA
1 AT--CAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA
* * * *
36219876 ATCA-A TATCACGTA A-CAGA ATCAGA ATCAGA ACCAAA ATCAAA ATTAGGTA
1 ATCAGA -ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A
*
36219927 AT-AGA ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAGA ATCAGA AT
1 ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
36219971 GTGAATGCAA
Statistics
Matches: 155, Mismatches: 13, Indels: 38
0.75 0.06 0.18
Matches are distributed among these distances:
5 12 0.08
6 122 0.79
7 12 0.08
8 8 0.05
9 1 0.01
ACGTcount: A:0.50, C:0.16, G:0.16, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:36219799 original size:18 final size:18
Alignment explanation
Indices: 36219778--36219970 Score: 148
Period size: 19 Copynumber: 10.4 Consensus size: 18
36219768 AAGAAACATT
36219778 ATCAGAA-CTAGAATCAGA
1 ATCAGAATC-AGAATCAGA
36219796 ATCAGAATCAGAATCAGA
1 ATCAGAATCAGAATCAGA
*
36219814 ATCAGAATCAG-GTGACAGA
1 ATCAGAATCAGAAT--CAGA
* *
36219833 ATCAAAATCAAAATCAGA
1 ATCAGAATCAGAATCAGA
*
36219851 ATCAGAATTAGGTAA-CAGA
1 ATCAGAATCA-G-AATCAGA
36219870 ATCAGAATCA-ATATCACGTA
1 ATCAGAATCAGA-ATCA-G-A
36219890 A-CAGAATCAGAATCAGA
1 ATCAGAATCAGAATCAGA
* * * *
36219907 ACCAAAATCAAAATTAGGTA
1 ATCAGAATCAGAATCA-G-A
*
36219927 AT-AGAATCAGAATCAGT
1 ATCAGAATCAGAATCAGA
36219944 ATCAGGTAA-CAGAATCAGA
1 ATCA-G-AATCAGAATCAGA
36219963 ATCAGAAT
1 ATCAGAAT
36219971 GTGAATGCAA
Statistics
Matches: 140, Mismatches: 17, Indels: 36
0.73 0.09 0.19
Matches are distributed among these distances:
16 1 0.01
17 8 0.06
18 56 0.40
19 65 0.46
20 10 0.07
ACGTcount: A:0.50, C:0.16, G:0.16, T:0.19
Consensus pattern (18 bp):
ATCAGAATCAGAATCAGA
Found at i:36219842 original size:37 final size:37
Alignment explanation
Indices: 36219792--36219970 Score: 147
Period size: 37 Copynumber: 4.8 Consensus size: 37
36219782 GAACTAGAAT
* *
36219792 CAGAATCAGAATCAGAATCAGAATCAGAATCAGGTGA
1 CAGAATCAGAATCAAAATCAGAATCAGAATCAGGTAA
* *
36219829 CAGAATCAAAATCAAAATCAGAATCAGAATTAGGTAA
1 CAGAATCAGAATCAAAATCAGAATCAGAATCAGGTAA
*
36219866 CAGAATCAGAATCAATATCACGTAA-CAGAATCA-G-AA
1 CAGAATCAGAATCAAAATCA-G-AATCAGAATCAGGTAA
* * *
36219902 TCAGAACCAAAATCAAAATTAGGTAAT-AGAATCA-G-AA
1 -CAGAATCAGAATCAAAATCA-G-AATCAGAATCAGGTAA
* *
36219939 TCAGTATCAGGTAA-CAGAATCAGAATCAGAAT
1 -CAGAATCA-G-AATCAAAATCAGAATCAGAAT
36219971 GTGAATGCAA
Statistics
Matches: 118, Mismatches: 17, Indels: 14
0.79 0.11 0.09
Matches are distributed among these distances:
36 5 0.04
37 95 0.81
38 14 0.12
39 4 0.03
ACGTcount: A:0.50, C:0.16, G:0.16, T:0.18
Consensus pattern (37 bp):
CAGAATCAGAATCAAAATCAGAATCAGAATCAGGTAA
Found at i:36219872 original size:25 final size:25
Alignment explanation
Indices: 36219792--36219907 Score: 100
Period size: 25 Copynumber: 4.7 Consensus size: 25
36219782 GAACTAGAAT
36219792 CAGAATCAGAATCAGAATCA-G-AA
1 CAGAATCAGAATCAGAATCACGTAA
* *
36219815 TCAGAATCAG-GTGACAGAATCA--AAA
1 -CAGAATCAGAAT--CAGAATCACGTAA
* * *
36219840 TCAAAATCAGAATCAGAATTAGGTAA
1 -CAGAATCAGAATCAGAATCACGTAA
36219866 CAGAATCAGAATCA-ATATCACGTAA
1 CAGAATCAGAATCAGA-ATCACGTAA
36219891 CAGAATCAGAATCAGAA
1 CAGAATCAGAATCAGAA
36219908 CCAAAATCAA
Statistics
Matches: 76, Mismatches: 8, Indels: 15
0.77 0.08 0.15
Matches are distributed among these distances:
23 1 0.01
24 17 0.22
25 54 0.71
26 4 0.05
ACGTcount: A:0.50, C:0.16, G:0.16, T:0.17
Consensus pattern (25 bp):
CAGAATCAGAATCAGAATCACGTAA
Found at i:36219940 original size:25 final size:25
Alignment explanation
Indices: 36219903--36219966 Score: 74
Period size: 25 Copynumber: 2.6 Consensus size: 25
36219893 GAATCAGAAT
* * *
36219903 CAGAACCAAAATCAAAATTAGGTAA
1 CAGAATCAGAATCAAAATCAGGTAA
* **
36219928 TAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAGAATCAAAATCAGGTAA
36219953 CAGAATCAGAATCA
1 CAGAATCAGAATCA
36219967 GAATGTGAAT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.50, C:0.16, G:0.16, T:0.19
Consensus pattern (25 bp):
CAGAATCAGAATCAAAATCAGGTAA
Found at i:36219967 original size:62 final size:62
Alignment explanation
Indices: 36219804--36219969 Score: 242
Period size: 62 Copynumber: 2.7 Consensus size: 62
36219794 GAATCAGAAT
* * * * * * *
36219804 CAGAATCAGAATCAGAATCAGGTGACAGAATCAAAATCAAAATCAGAATCAGAATTAGGTAA
1 CAGAATCAGAATCAGTATCAGGTAACAGAATCAGAATCAGAACCAAAATCAAAATTAGGTAA
* *
36219866 CAGAATCAGAATCAATATCACGTAACAGAATCAGAATCAGAACCAAAATCAAAATTAGGTAA
1 CAGAATCAGAATCAGTATCAGGTAACAGAATCAGAATCAGAACCAAAATCAAAATTAGGTAA
*
36219928 TAGAATCAGAATCAGTATCAGGTAACAGAATCAGAATCAGAA
1 CAGAATCAGAATCAGTATCAGGTAACAGAATCAGAATCAGAA
36219970 TGTGAATGCA
Statistics
Matches: 92, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
62 92 1.00
ACGTcount: A:0.50, C:0.16, G:0.16, T:0.18
Consensus pattern (62 bp):
CAGAATCAGAATCAGTATCAGGTAACAGAATCAGAATCAGAACCAAAATCAAAATTAGGTAA
Found at i:36220161 original size:33 final size:32
Alignment explanation
Indices: 36220110--36220173 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 32
36220100 ACGAAGTTAC
* *
36220110 CAGATACAGATATTGTGGCTAGGCCACCAGAA
1 CAGATACAGATATTGTGGCGAAGCCACCAGAA
* *
36220142 CAGATATATATATGTGTGGCGAAGCCACCAGA
1 CAGATACAGATAT-TGTGGCGAAGCCACCAGA
36220174 TTGCAGCGAG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 11 0.41
33 16 0.59
ACGTcount: A:0.34, C:0.20, G:0.25, T:0.20
Consensus pattern (32 bp):
CAGATACAGATATTGTGGCGAAGCCACCAGAA
Found at i:36220517 original size:27 final size:27
Alignment explanation
Indices: 36220486--36220626 Score: 131
Period size: 27 Copynumber: 5.2 Consensus size: 27
36220476 GGGTAAAATG
* * *
36220486 GTAATTTTACCCCACAAGGGTATCTC-
1 GTAATTCTACCCTACAGGGGTATCTCA
*
36220512 GATAATTCTACCCTACAGGGGTATTTCA
1 G-TAATTCTACCCTACAGGGGTATCTCA
* **
36220540 GTAATTCTACCCTACAGGGGTATTTTG
1 GTAATTCTACCCTACAGGGGTATCTCA
* * * * *
36220567 GTATTTCTACCCTATAAGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATCTCA
* * *
36220594 GTAATTCTACCCTATAGGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATCTCA
36220621 GTAATT
1 GTAATT
36220627 TTTTAAATCG
Statistics
Matches: 99, Mismatches: 14, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
26 1 0.01
27 97 0.98
28 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.37
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATCTCA
Found at i:36220606 original size:54 final size:54
Alignment explanation
Indices: 36220485--36220619 Score: 171
Period size: 54 Copynumber: 2.5 Consensus size: 54
36220475 GGGGTAAAAT
* * * * * *
36220485 GGTAATTTTACCCCACAAGGGTATCTCGATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTTGATAATTCTACCCTACAAGGGTATTTC
* * * *
36220539 AGTAATTCTACCCTACAGGGGTATTTTGGTATTTCTACCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTTGATAATTCTACCCTACAAGGGTATTTC
*
36220593 GGTAATTCTACCCTATAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTT
36220620 AGTAATTTTT
Statistics
Matches: 69, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
54 69 1.00
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.36
Consensus pattern (54 bp):
GGTAATTCTACCCTACAGGGGTATTTTGATAATTCTACCCTACAAGGGTATTTC
Found at i:36220650 original size:81 final size:81
Alignment explanation
Indices: 36220474--36220626 Score: 191
Period size: 81 Copynumber: 1.9 Consensus size: 81
36220464 TTAACACCCT
36220474 AGGGGTAAAATGGTAATTT-TACCCCACAAGGGTATCTCGATAATTCTACCCTACAGGGGTATTT
1 AGGGGTAAAATGGT-ATTTCTACCCCACAAGGGTATCTCGATAATTCTACCCTACAGGGGTATTT
**
36220538 CAGTAATTCTACCCTAC
65 CAGTAATTCTACAATAC
*** * * * * * *
36220555 AGGGGTATTTTGGTATTTCTACCCTATAAGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTT
1 AGGGGTAAAATGGTATTTCTACCCCACAAGGGTATCTCGATAATTCTACCCTACAGGGGTATTTC
36220620 AGTAATT
66 AGTAATT
36220627 TTTTAAATCG
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
80 4 0.06
81 58 0.94
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.35
Consensus pattern (81 bp):
AGGGGTAAAATGGTATTTCTACCCCACAAGGGTATCTCGATAATTCTACCCTACAGGGGTATTTC
AGTAATTCTACAATAC
Found at i:36220695 original size:27 final size:27
Alignment explanation
Indices: 36220675--36220951 Score: 147
Period size: 27 Copynumber: 10.3 Consensus size: 27
36220665 GGGTGCTTTG
*
36220675 GTAATTTTACAAGTCGAGGGTATTTCA
1 GTAATTTTACAAGTCGAGGGTATTTTA
* * *
36220702 ATAATTTTACAGGTTGAGGGTATTTTA
1 GTAATTTTACAAGTCGAGGGTATTTTA
* * *
36220729 GTAATTTCACAAATC-AGGGGTATTTTG
1 GTAATTTTACAAGTCGA-GGGTATTTTA
* *
36220756 GTAATTTTACAA-ACTAGGGGTATTTT-
1 GTAATTTTACAAGTCGA-GGGTATTTTA
* * *
36220782 GATAATTTTACAA-ACCAGGGGTATTTTG
1 G-TAATTTTACAAGTCGA-GGGTATTTTA
* * *
36220810 GTAATTTTACAA-ACTAAGGGTATTTTG
1 GTAATTTTACAAGTC-GAGGGTATTTTA
* * * *
36220837 GTAATTTTATAA-ACAAAGAGTATTTTA
1 GTAATTTTACAAGTC-GAGGGTATTTTA
* * *
36220864 GTAATTTTACAA-ACCAGGGGTATTTTG
1 GTAATTTTACAAGTCGA-GGGTATTTTA
* * ** * *
36220891 GTGATTTTATAAACCAATGGTATTTTA
1 GTAATTTTACAAGTCGAGGGTATTTTA
* * *
36220918 GTAATTTTACAA-ACCAGGGATATTTTG
1 GTAATTTTACAAGTCGAGGG-TATTTTA
36220945 GTAATTT
1 GTAATTT
36220952 GGTAAACTAA
Statistics
Matches: 208, Mismatches: 34, Indels: 16
0.81 0.13 0.06
Matches are distributed among these distances:
26 8 0.04
27 196 0.94
28 4 0.02
ACGTcount: A:0.32, C:0.08, G:0.19, T:0.40
Consensus pattern (27 bp):
GTAATTTTACAAGTCGAGGGTATTTTA
Found at i:36220721 original size:81 final size:81
Alignment explanation
Indices: 36220636--36220793 Score: 176
Period size: 81 Copynumber: 2.0 Consensus size: 81
36220626 TTTTTAAATC
* ** * *
36220636 GAGGGTAAAATGGTAA-TTCTGTAAATCAGGGGTGCTTTGGTAATTTTACAAGTCGA-GGGTATT
1 GAGGGTAAAATAGTAATTTC-ACAAATCAGGGGTACTTTGGTAATTTTACAA-ACGAGGGGTATT
36220699 TCAATAATTTTACAGGTT
64 TCAATAATTTTACAGGTT
*** * * *
36220717 GAGGGTATTTTAGTAATTTCACAAATCAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTT
1 GAGGGTAAAATAGTAATTTCACAAATCAGGGGTACTTTGGTAATTTTACAAACGAGGGGTATTTC
*
36220782 GATAATTTTACA
66 AATAATTTTACA
36220794 AACCAGGGGT
Statistics
Matches: 63, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
80 2 0.03
81 58 0.92
82 3 0.05
ACGTcount: A:0.30, C:0.08, G:0.23, T:0.38
Consensus pattern (81 bp):
GAGGGTAAAATAGTAATTTCACAAATCAGGGGTACTTTGGTAATTTTACAAACGAGGGGTATTTC
AATAATTTTACAGGTT
Found at i:36220958 original size:27 final size:27
Alignment explanation
Indices: 36220719--36220951 Score: 304
Period size: 27 Copynumber: 8.6 Consensus size: 27
36220709 TACAGGTTGA
* * *
36220719 GGGTATTTTAGTAATTTCACAAATCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
*
36220746 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
*
36220773 GGGTATTTTGATAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
36220800 GGGTATTTTGGTAATTTTACAAACTAA
1 GGGTATTTTGGTAATTTTACAAACCAG
* * *
36220827 GGGTATTTTGGTAATTTTATAAACAAA
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
36220854 GAGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* * *
36220881 GGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
36220908 TGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
*
36220935 GGATATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
36220952 GGTAAACTAA
Statistics
Matches: 177, Mismatches: 29, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 177 1.00
ACGTcount: A:0.33, C:0.08, G:0.19, T:0.40
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCAG
Found at i:36222813 original size:24 final size:24
Alignment explanation
Indices: 36222786--36222833 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
36222776 TTCATAAAAA
*
36222786 GTCATTAAGGGTATTTTAGTCATT
1 GTCATTAAGGGCATTTTAGTCATT
36222810 GTCATTAAGGGCATTTTAGTCATT
1 GTCATTAAGGGCATTTTAGTCATT
36222834 TTGTAAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.25, C:0.10, G:0.21, T:0.44
Consensus pattern (24 bp):
GTCATTAAGGGCATTTTAGTCATT
Found at i:36230224 original size:16 final size:16
Alignment explanation
Indices: 36230205--36230235 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
36230195 CTTCTTCACT
36230205 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
36230221 TACTTACTTACTTAA
1 TACTCACTTACTTAA
36230236 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:36230241 original size:20 final size:20
Alignment explanation
Indices: 36230202--36230241 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
36230192 AAACTTCTTC
* *
36230202 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
36230222 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
36230242 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:36230617 original size:55 final size:53
Alignment explanation
Indices: 36230486--36230618 Score: 160
Period size: 53 Copynumber: 2.5 Consensus size: 53
36230476 CTTACCATTT
*
36230486 CCATGTCTTGACATGGTCTTACATGGTATCCGTGCCTTATGAACTCACCAATA
1 CCATGTCTTGACATGGTCTTACATGGGATCCGTGCCTTATGAACTCACCAATA
* * * * * * *
36230539 CCATGCCTTGGCATGGTCTTACATGGGA-CCTTTTCCTTATAGTAACTTATCAATG
1 CCATGTCTTGACATGGTCTTACATGGGATCC-GTGCCTTAT-G-AACTCACCAATA
36230594 CCATGTCTTGACATGGTCTTACATG
1 CCATGTCTTGACATGGTCTTACATG
36230619 ATTTCCTTGC
Statistics
Matches: 67, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
52 2 0.03
53 32 0.48
54 1 0.01
55 32 0.48
ACGTcount: A:0.23, C:0.25, G:0.18, T:0.35
Consensus pattern (53 bp):
CCATGTCTTGACATGGTCTTACATGGGATCCGTGCCTTATGAACTCACCAATA
Found at i:36230632 original size:55 final size:52
Alignment explanation
Indices: 36230486--36230681 Score: 162
Period size: 55 Copynumber: 3.6 Consensus size: 52
36230476 CTTACCATTT
*
36230486 CCATGTCTTGACATGGTCTTACATGGTATCCGTGCCTTATGAACTCACCAATA
1 CCATGTCTTGACATGGTCTTACAT-GTATCCTTGCCTTATGAACTCACCAATA
* * * * * * *
36230539 CCATGCCTTGGCATGGTCTTACATGGGA-CCTTTTCCTTATAGTAACTTATCAATG
1 CCATGTCTTGACATGGTCTTACAT-GTATCC-TTGCCTTAT-G-AACTCACCAATA
* * *
36230594 CCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTA-GAAACCTTACCAATT
1 CCATGTCTTGACATGGTCTTACATG-TATCCTTGCCTTATG-AA-CTCACCAATA
** *
36230648 CTCATACCTTGGCATGGTCTTACATGGTATCCTT
1 C-CATGTCTTGACATGGTCTTACAT-GTATCCTT
36230682 AAACCCTAAT
Statistics
Matches: 115, Mismatches: 20, Indels: 14
0.77 0.13 0.09
Matches are distributed among these distances:
52 2 0.02
53 35 0.30
54 11 0.10
55 64 0.56
56 3 0.03
ACGTcount: A:0.22, C:0.26, G:0.16, T:0.36
Consensus pattern (52 bp):
CCATGTCTTGACATGGTCTTACATGTATCCTTGCCTTATGAACTCACCAATA
Found at i:36237959 original size:16 final size:16
Alignment explanation
Indices: 36237940--36237970 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
36237930 CTTCTTCACT
36237940 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
36237956 TACTTACTTACTTAA
1 TACTCACTTACTTAA
36237971 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:36237976 original size:20 final size:20
Alignment explanation
Indices: 36237937--36237976 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
36237927 AAACTTCTTC
* *
36237937 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
36237957 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
36237977 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:36238087 original size:23 final size:24
Alignment explanation
Indices: 36238049--36238093 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
36238039 TTTGCTCTTC
*
36238049 TAGCATGAACTTGTCTTACCTTTT
1 TAGCATGAACTCGTCTTACCTTTT
36238073 TAGCAT-AACTCGTCTTACCTT
1 TAGCATGAACTCGTCTTACCTT
36238094 ACCTTACCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.22, C:0.24, G:0.11, T:0.42
Consensus pattern (24 bp):
TAGCATGAACTCGTCTTACCTTTT
Found at i:36240875 original size:28 final size:26
Alignment explanation
Indices: 36240820--36240932 Score: 145
Period size: 27 Copynumber: 4.2 Consensus size: 26
36240810 AGCATGGTTG
* *
36240820 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
36240846 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
36240874 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
36240901 CCAGATCAGATAATTTGTGGCATAGCCA
1 CCAGAACAGATAA--TGTGGCAGAGCCA
36240929 CCAG
1 CCAG
36240933 GACGCTTCCT
Statistics
Matches: 78, Mismatches: 4, Indels: 8
0.87 0.04 0.09
Matches are distributed among these distances:
26 6 0.08
27 39 0.50
28 33 0.42
ACGTcount: A:0.36, C:0.23, G:0.24, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:36240903 original size:55 final size:54
Alignment explanation
Indices: 36240820--36240932 Score: 165
Period size: 55 Copynumber: 2.1 Consensus size: 54
36240810 AGCATGGTTG
*
36240820 CCAGAACAGATAATGTGACAGAGTCACCAGATACAGATAA-TCGTGGCAGAGCCA
1 CCAGAACAGATAATGTGACAGAGCCACCAGAT-CAGATAATTCGTGGCAGAGCCA
* * *
36240874 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGACAGAGCCACCAGATCAGATAATTCGTGGCAGAGCCA
36240929 CCAG
1 CCAG
36240933 GACGCTTCCT
Statistics
Matches: 53, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
54 19 0.36
55 34 0.64
ACGTcount: A:0.36, C:0.23, G:0.24, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATAATGTGACAGAGCCACCAGATCAGATAATTCGTGGCAGAGCCA
Found at i:36248306 original size:27 final size:27
Alignment explanation
Indices: 36248276--36248453 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
36248266 ATATTGAGTC
* * * *
36248276 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
36248303 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
36248330 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
36248358 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
36248385 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
36248412 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
36248439 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
36248454 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:36248415 original size:82 final size:81
Alignment explanation
Indices: 36248297--36248452 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
36248287 TGCTATATAA
* *
36248297 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
36248362 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
36248379 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
36248443 CACTTAGTGC
65 CACTTAGTGC
36248453 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:36276608 original size:35 final size:37
Alignment explanation
Indices: 36276568--36276776 Score: 227
Period size: 35 Copynumber: 5.6 Consensus size: 37
36276558 GCTACTTGCT
36276568 CAAATGCCTTCGGACTTAGCCCGG-TTGTAACTCG-A
1 CAAATGCCTTCGGACTTAGCCCGGATTGTAACTCGCA
36276603 CAAATGCCTTCGGACTTAG--CGGATATAGTAACTCGCA
1 CAAATGCCTTCGGACTTAGCCCGGAT-T-GTAACTCGCA
*
36276640 CAAATGCCTTCGGACTTAGCCCGGTTATAGTAACTACGCCA
1 CAAATGCCTTCGGACTTAGCCCGG--ATTGTAACT-CG-CA
*
36276681 CAAATGCCTTCGGACTTAG-CCGGAATAGTAACTCGCA
1 CAAATGCCTTCGGACTTAGCCCGG-ATTGTAACTCGCA
* * * * *
36276718 CAAATGCC--C-GAGCTTAGCCAGAATAGTCACTAGCA
1 CAAATGCCTTCGGA-CTTAGCCCGGATTGTAACTCGCA
36276753 CAAATGCCTTCGGACTTAGCCCGG
1 CAAATGCCTTCGGACTTAGCCCGG
36276777 TTATCATCCG
Statistics
Matches: 151, Mismatches: 8, Indels: 28
0.81 0.04 0.15
Matches are distributed among these distances:
33 3 0.02
34 3 0.02
35 45 0.30
36 10 0.07
37 39 0.26
38 4 0.03
39 18 0.12
40 6 0.04
41 23 0.15
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (37 bp):
CAAATGCCTTCGGACTTAGCCCGGATTGTAACTCGCA
Found at i:36276734 original size:113 final size:112
Alignment explanation
Indices: 36276568--36276780 Score: 308
Period size: 113 Copynumber: 1.9 Consensus size: 112
36276558 GCTACTTGCT
* *
36276568 CAAATGCCTTCGGACTTAGCCCGGTTGTAACTCGACAAATGCCTTCGGACTTAG-CGGATATAGT
1 CAAATGCCTTCGGACTTAGCCCGGTAGTAACTCGACAAATGCC-TCGGACTTAGCCAGA-ATAGT
*
36276632 AACTCGCACAAATGCCTTCGGACTTAGCCCGGTTATAGTAACTACGCCA
64 AACTAGCACAAATGCCTTCGGACTTAGCCCGGTTATAGTAACTACGCCA
36276681 CAAATGCCTTCGGACTTAG-CCGGAATAGTAACTCGCACAAATGCC-C-GAGCTTAGCCAGAATA
1 CAAATGCCTTCGGACTTAGCCCGG--TAGTAACTCG-ACAAATGCCTCGGA-CTTAGCCAGAATA
*
36276743 GTCACTAGCACAAATGCCTTCGGACTTAGCCCGGTTAT
62 GTAACTAGCACAAATGCCTTCGGACTTAGCCCGGTTAT
36276781 CATCCGAATA
Statistics
Matches: 91, Mismatches: 4, Indels: 10
0.87 0.04 0.10
Matches are distributed among these distances:
112 6 0.07
113 64 0.70
114 12 0.13
115 9 0.10
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (112 bp):
CAAATGCCTTCGGACTTAGCCCGGTAGTAACTCGACAAATGCCTCGGACTTAGCCAGAATAGTAA
CTAGCACAAATGCCTTCGGACTTAGCCCGGTTATAGTAACTACGCCA
Done.