Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167993.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_25, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 17943224
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 94000 characters in sequence are not A, C, G, or T
File 25 of 100
Found at i:4621375 original size:12 final size:11
Alignment explanation
Indices: 4621348--4621404 Score: 51
Period size: 12 Copynumber: 4.7 Consensus size: 11
4621338 CTCTTCATTT
*
4621348 TTTTTAATTTA
1 TTTTTATTTTA
4621359 TTTTTATTTTGTA
1 TTTTTA-TTT-TA
*
4621372 TTTTACATTTTTA
1 TTTT-TA-TTTTA
4621385 TTTTTATTTTTA
1 TTTTTA-TTTTA
4621397 TTTTTATT
1 TTTTTATT
4621405 ATTTTATATA
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
11 8 0.20
12 15 0.38
13 12 0.30
14 5 0.12
ACGTcount: A:0.19, C:0.02, G:0.02, T:0.77
Consensus pattern (11 bp):
TTTTTATTTTA
Found at i:4621409 original size:26 final size:26
Alignment explanation
Indices: 4621344--4621438 Score: 77
Period size: 26 Copynumber: 3.5 Consensus size: 26
4621334 TTTTCTCTTC
* *
4621344 ATTTTTTTTAATTTATTTTTATTTTGT
1 ATTTTTATTATTTTATTTTTATTTT-T
*
4621371 A-TTTTA-CATTTTTATTTTTATTTTT
1 ATTTTTATTA-TTTTATTTTTATTTTT
* *
4621396 ATTTTTATTATTTTATATATGTATATATT
1 ATTTTTATTATTTTAT-T-TTTAT-TTTT
*
4621425 ATTATTATTATTTT
1 ATTTTTATTATTTT
4621439 TATCTTAGAT
Statistics
Matches: 55, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
25 3 0.05
26 29 0.53
27 3 0.05
28 4 0.07
29 16 0.29
ACGTcount: A:0.24, C:0.01, G:0.02, T:0.73
Consensus pattern (26 bp):
ATTTTTATTATTTTATTTTTATTTTT
Found at i:4621430 original size:6 final size:6
Alignment explanation
Indices: 4621382--4621441 Score: 50
Period size: 6 Copynumber: 9.7 Consensus size: 6
4621372 TTTTACATTT
* * *
4621382 TTATTT TTATTT TTATTT TTATTA TT-TTA TATATGTA TATATTA TTATTA
1 TTATTA TTATTA TTATTA TTATTA TTATTA T-TAT-TA T-TATTA TTATTA
*
4621432 TTATTT TTAT
1 TTATTA TTAT
4621442 CTTAGATTTA
Statistics
Matches: 49, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
5 4 0.08
6 34 0.69
7 4 0.08
8 7 0.14
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.72
Consensus pattern (6 bp):
TTATTA
Found at i:4621452 original size:41 final size:37
Alignment explanation
Indices: 4621382--4621479 Score: 90
Period size: 38 Copynumber: 2.5 Consensus size: 37
4621372 TTTTACATTT
* * *
4621382 TTATTTTTATTTTTATTTTTATTATTTTATATATGTA
1 TTATTATTATTATTATTTTTATTAATTTATATATGTA
* *
4621419 TATATTATTATTATTATTTTTATCTTAGATTTATGTATTTA
1 T-TATTATTATTATTATTTTTA--TTA-ATTTATATATGTA
*
4621460 TTAATATGTA-TATTATTTTT
1 TTATTAT-TATTATTATTTTT
4621480 TTTCTTCTTC
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
37 1 0.02
38 18 0.36
40 18 0.36
41 13 0.26
ACGTcount: A:0.28, C:0.01, G:0.04, T:0.67
Consensus pattern (37 bp):
TTATTATTATTATTATTTTTATTAATTTATATATGTA
Found at i:4621550 original size:18 final size:19
Alignment explanation
Indices: 4621527--4621574 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 19
4621517 TATCTGTTAT
4621527 TTAATTTTAATTTATCT-A
1 TTAATTTTAATTTATCTAA
*
4621545 TTAATTTATCTGATTTATCTAA
1 TTAA-TT-T-TAATTTATCTAA
4621567 TTAATTTT
1 TTAATTTT
4621575 CGTTTGAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
18 4 0.16
19 3 0.12
20 2 0.08
21 11 0.44
22 5 0.20
ACGTcount: A:0.31, C:0.06, G:0.02, T:0.60
Consensus pattern (19 bp):
TTAATTTTAATTTATCTAA
Found at i:4622447 original size:18 final size:18
Alignment explanation
Indices: 4622420--4622507 Score: 53
Period size: 18 Copynumber: 5.1 Consensus size: 18
4622410 TTTTCATTTA
*
4622420 TTTATCTATTTATTTATT
1 TTTATTTATTTATTTATT
* **
4622438 TTTATTTA-TTAGATTAGA
1 TTTATTTATTTA-TTTATT
*
4622456 TTTATTTA-ATATTT-TT
1 TTTATTTATTTATTTATT
*
4622472 TTTA--TCTTTATCTTATT
1 TTTATTTATTTAT-TTATT
*
4622489 TTTA-TTCTTTATTTATT
1 TTTATTTATTTATTTATT
4622506 TT
1 TT
4622508 CACTTTTATT
Statistics
Matches: 55, Mismatches: 10, Indels: 11
0.72 0.13 0.14
Matches are distributed among these distances:
14 1 0.02
15 3 0.05
16 6 0.11
17 18 0.33
18 27 0.49
ACGTcount: A:0.23, C:0.05, G:0.02, T:0.70
Consensus pattern (18 bp):
TTTATTTATTTATTTATT
Found at i:4622463 original size:4 final size:4
Alignment explanation
Indices: 4622398--4622447 Score: 52
Period size: 4 Copynumber: 12.8 Consensus size: 4
4622388 TTTTTTTAAA
*
4622398 ATTT ATTT GATTT -TTT CATTT ATTT ATCT ATTT ATTT A-TT -TTT ATTT
1 ATTT ATTT -ATTT ATTT -ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT
4622445 ATT
1 ATT
4622448 AGATTAGATT
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
3 7 0.18
4 25 0.64
5 7 0.18
ACGTcount: A:0.22, C:0.04, G:0.02, T:0.72
Consensus pattern (4 bp):
ATTT
Found at i:4622492 original size:17 final size:17
Alignment explanation
Indices: 4622465--4622507 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
4622455 ATTTATTTAA
4622465 TATTT-TTTTTA-TCTT
1 TATTTATTTTTATTCTT
4622480 TATCTTATTTTTATTCTT
1 TAT-TTATTTTTATTCTT
4622498 TATTTATTTT
1 TATTTATTTT
4622508 CACTTTTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
15 3 0.12
16 2 0.08
17 13 0.52
18 7 0.28
ACGTcount: A:0.16, C:0.07, G:0.00, T:0.77
Consensus pattern (17 bp):
TATTTATTTTTATTCTT
Found at i:4622617 original size:59 final size:59
Alignment explanation
Indices: 4622545--4623006 Score: 728
Period size: 59 Copynumber: 7.7 Consensus size: 59
4622535 AATAAAAATC
4622545 AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCA
1 AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCA
* *
4622604 AAAAAAATGTTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTCA
1 AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCA
** * * *
4622663 AAAAAGAAGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAAGTTTC-
1 AAAAA-AATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAATTTTCA
*
4622723 AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTCCA
1 AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCA
* * *
4622782 AAAAAAGGTATTTTTGGGGAAAAGTTGAAAGTATCAATCAATTTTCCTTGAAAATAAAAGTTTCA
1 AAAAAA-ATATTTTTGGGGAAAAGTTGAAAG--T--ATCAATTTTCCTTAAAAAT-AAATTTTCA
*
4622847 AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTCCA
1 AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCA
*
4622906 AAAAAAGTATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCA
1 AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCA
4622965 AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
1 AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
4623007 CTACACAAGA
Statistics
Matches: 371, Mismatches: 23, Indels: 18
0.90 0.06 0.04
Matches are distributed among these distances:
58 6 0.02
59 214 0.58
60 88 0.24
61 7 0.02
62 2 0.01
64 41 0.11
65 13 0.04
ACGTcount: A:0.45, C:0.07, G:0.14, T:0.34
Consensus pattern (59 bp):
AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCA
Found at i:4622690 original size:119 final size:118
Alignment explanation
Indices: 4622544--4623006 Score: 734
Period size: 119 Copynumber: 3.9 Consensus size: 118
4622534 AAATAAAAAT
** *
4622544 CAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAATTTTCAAAAA
1 CAAAAAAAGGTTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAAGTTTCAAAAA
*
4622608 AAATGTTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTC
66 AAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAATTTC
* * *
4622662 AAAAAAGAAGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAAGTTTC-AAA
1 CAAAAA-AAGGTTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAAGTTTCAAAA
4622726 AAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTC
65 AAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTC
*
4622780 CAAAAAAAGGTATTTTTGGGGAAAAGTTGAAAGTATCAATCAATTTTCCTTGAAAATAAAAGTTT
1 CAAAAAAAGG--TTTTTGGGGAAAAGTTGAAAG--T--ATCAATTTTCCTTAAAAATAAAAGTTT
4622845 CAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTC
60 CAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTC
* *
4622904 CAAAAAAAGTATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAATTTTCAAAA
1 CAAAAAAAG-GTTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAAGTTTCAAAA
4622968 AAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
65 AAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
4623007 CTACACAAGA
Statistics
Matches: 323, Mismatches: 12, Indels: 20
0.91 0.03 0.06
Matches are distributed among these distances:
117 4 0.01
118 67 0.21
119 128 0.40
120 7 0.02
121 2 0.01
123 49 0.15
124 66 0.20
ACGTcount: A:0.44, C:0.08, G:0.14, T:0.34
Consensus pattern (118 bp):
CAAAAAAAGGTTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAAGTTTCAAAAA
AAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTC
Found at i:4625089 original size:23 final size:24
Alignment explanation
Indices: 4625062--4625113 Score: 65
Period size: 23 Copynumber: 2.2 Consensus size: 24
4625052 TCTTTTTTTA
4625062 ATAATTTT-T-TGATAATTTAATTT
1 ATAATTTTGTATGA-AATTTAATTT
*
4625085 ATAATTTTGTATGAATTTTAATTT
1 ATAATTTTGTATGAAATTTAATTT
4625109 -TAATT
1 ATAATT
4625114 AATCTAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
23 13 0.50
24 10 0.38
25 3 0.12
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.60
Consensus pattern (24 bp):
ATAATTTTGTATGAAATTTAATTT
Found at i:4625127 original size:4 final size:4
Alignment explanation
Indices: 4625120--4625149 Score: 51
Period size: 4 Copynumber: 7.2 Consensus size: 4
4625110 AATTAATCTA
4625120 AAAT AAAT AAAT AAAT AAAT AATAT AAAT A
1 AAAT AAAT AAAT AAAT AAAT AA-AT AAAT A
4625150 TATTTAAGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 21 0.84
5 4 0.16
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (4 bp):
AAAT
Found at i:4625780 original size:153 final size:153
Alignment explanation
Indices: 4625570--4625848 Score: 436
Period size: 153 Copynumber: 1.8 Consensus size: 153
4625560 ATTGATTTAA
* *
4625570 AATTTAATAACTAATGAATAAAAAGCGATATATTTAATGATAAATAATCATTATTAAATAAATAA
1 AATTTAATAACTAATGAATAAAAAGCGATATATTTAATGACAAATAAGCATTATTAAATAAATAA
* *
4625635 ATAATGCTAGAAATTGAAATATAAATTTGTTATTTTTTAAAATTTATAAGGGTAATTATGTTATT
66 AAAATGCTAGAAATTGAAACATAAATTTGTTATTTTTTAAAATTTATAAGGGTAATTATGTTATT
4625700 TATTTTTAACACTTTTAGATTTT
131 TATTTTTAACACTTTTAGATTTT
** *
4625723 AATTTAAATAACTAACT-AAT-AAAAGTTATATATTTAATGACAAATAAGCTTTATTAAATAAAT
1 AATTT-AATAACTAA-TGAATAAAAAGCGATATATTTAATGACAAATAAGCATTATTAAATAAAT
* * *
4625786 AAAAAATGCTAGAAATTTAAACGTAAATTTGTTATTTTTTAAAATTTATAAGGGTATTTATGT
64 AAAAAATGCTAGAAATTGAAACATAAATTTGTTATTTTTTAAAATTTATAAGGGTAATTATGT
4625849 CGTTCATTTT
Statistics
Matches: 114, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
153 101 0.89
154 12 0.11
155 1 0.01
ACGTcount: A:0.46, C:0.04, G:0.09, T:0.42
Consensus pattern (153 bp):
AATTTAATAACTAATGAATAAAAAGCGATATATTTAATGACAAATAAGCATTATTAAATAAATAA
AAAATGCTAGAAATTGAAACATAAATTTGTTATTTTTTAAAATTTATAAGGGTAATTATGTTATT
TATTTTTAACACTTTTAGATTTT
Found at i:4629918 original size:12 final size:12
Alignment explanation
Indices: 4629901--4629925 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4629891 TGTGAACTCC
4629901 AAAAATATTAAT
1 AAAAATATTAAT
4629913 AAAAATATTAAT
1 AAAAATATTAAT
4629925 A
1 A
4629926 GTAATTGACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAAATATTAAT
Found at i:4630182 original size:19 final size:17
Alignment explanation
Indices: 4630151--4630186 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 17
4630141 TTTAAATGAA
4630151 TTTTTTATTATTAGATT
1 TTTTTTATTATTAGATT
4630168 TTTTTTATATAATTAGATT
1 TTTTTTAT-T-ATTAGATT
4630187 GTGCTAAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.47
18 1 0.06
19 8 0.47
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.67
Consensus pattern (17 bp):
TTTTTTATTATTAGATT
Found at i:4631384 original size:17 final size:17
Alignment explanation
Indices: 4631359--4631410 Score: 79
Period size: 17 Copynumber: 3.1 Consensus size: 17
4631349 GTATTTTAAT
4631359 ATTTTTATATAATAAAA
1 ATTTTTATATAATAAAA
*
4631376 ATTTATATATAATAAAA
1 ATTTTTATATAATAAAA
*
4631393 ATTTTTAAATAA-AAAA
1 ATTTTTATATAATAAAA
4631409 AT
1 AT
4631411 AAATTTTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
16 6 0.19
17 26 0.81
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
ATTTTTATATAATAAAA
Found at i:4635566 original size:22 final size:23
Alignment explanation
Indices: 4635524--4635567 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
4635514 TGTTTCTATT
4635524 AACAGACAAGAAACAAAGTACAA
1 AACAGACAAGAAACAAAGTACAA
4635547 AACAGAC-AGACAA-AAAGTACA
1 AACAGACAAGA-AACAAAGTACA
4635568 GAGCCAACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 11 0.55
23 9 0.45
ACGTcount: A:0.64, C:0.18, G:0.14, T:0.05
Consensus pattern (23 bp):
AACAGACAAGAAACAAAGTACAA
Found at i:4646985 original size:23 final size:22
Alignment explanation
Indices: 4646955--4646998 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
4646945 TATTTATTTA
4646955 AATATATTTAAATATATAAATT
1 AATATATTTAAATATATAAATT
* *
4646977 AATATTATTTAATTATTTAAAT
1 AATA-TATTTAAATATATAAAT
4646999 ATTCAATATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
AATATATTTAAATATATAAATT
Found at i:4647031 original size:41 final size:41
Alignment explanation
Indices: 4646948--4647032 Score: 95
Period size: 41 Copynumber: 2.1 Consensus size: 41
4646938 TTATTTTTAT
* * *
4646948 TTATTTAAATATATTTAAATATATAAATTAATATTATTTAA
1 TTATTTAAATATATTCAAATATATAAATTAATATAATATAA
4646989 TTATTT-AA-ATATTCAATATATATAAATTACA-AGTAATATAA
1 TTATTTAAATATATTCAA-ATATATAAATTA-ATA-TAATATAA
4647030 TTA
1 TTA
4647033 CCAGTGAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
39 7 0.18
40 15 0.39
41 16 0.42
ACGTcount: A:0.49, C:0.02, G:0.01, T:0.47
Consensus pattern (41 bp):
TTATTTAAATATATTCAAATATATAAATTAATATAATATAA
Found at i:4649202 original size:24 final size:23
Alignment explanation
Indices: 4649166--4649211 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
4649156 ATATATATAT
* *
4649166 ATATTAAAAATAATATAATTAAG
1 ATATCAAAAATAATAAAATTAAG
4649189 ATATCAAAATATAATAAAATTAA
1 ATATCAAAA-ATAATAAAATTAA
4649212 ATTTTTAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (23 bp):
ATATCAAAAATAATAAAATTAAG
Found at i:4649669 original size:21 final size:21
Alignment explanation
Indices: 4649619--4649669 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
4649609 AATGAAATAA
*
4649619 TTTAAAATTTTAAGTAATAGT
1 TTTAAAATTTTAAATAATAGT
*
4649640 ATT-AAATTTTAAATAATTA-T
1 TTTAAAATTTTAAATAA-TAGT
4649660 TTTAAAATTT
1 TTTAAAATTT
4649670 GTTGTAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
20 15 0.60
21 10 0.40
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (21 bp):
TTTAAAATTTTAAATAATAGT
Found at i:4659772 original size:16 final size:16
Alignment explanation
Indices: 4659751--4659783 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
4659741 CTAAAAGAAC
4659751 TTAATTTGTTAACAGA
1 TTAATTTGTTAACAGA
4659767 TTAATTTGTTAACAGA
1 TTAATTTGTTAACAGA
4659783 T
1 T
4659784 ATTTTAAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.36, C:0.06, G:0.12, T:0.45
Consensus pattern (16 bp):
TTAATTTGTTAACAGA
Found at i:4660304 original size:17 final size:17
Alignment explanation
Indices: 4660282--4660315 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
4660272 AATTCTAAAA
4660282 GATTACATGGGTTTTTC
1 GATTACATGGGTTTTTC
4660299 GATTACATGGGTTTTTC
1 GATTACATGGGTTTTTC
4660316 AGTTCATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.18, C:0.12, G:0.24, T:0.47
Consensus pattern (17 bp):
GATTACATGGGTTTTTC
Found at i:4661325 original size:15 final size:15
Alignment explanation
Indices: 4661305--4661352 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
4661295 TAAATCTCAT
4661305 AAAATAATATATTTA
1 AAAATAATATATTTA
*
4661320 AAAATAATA-ATATA
1 AAAATAATATATTTA
*
4661334 AAAATGAAT-TAATTA
1 AAAAT-AATATATTTA
4661349 AAAA
1 AAAA
4661353 AGATAATATT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
14 9 0.32
15 19 0.68
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (15 bp):
AAAATAATATATTTA
Found at i:4664043 original size:22 final size:22
Alignment explanation
Indices: 4664009--4664084 Score: 64
Period size: 22 Copynumber: 3.5 Consensus size: 22
4663999 CAGTTACTCT
*
4664009 AGCATTGACTCCAAGCAACAAA
1 AGCATTGAATCCAAGCAACAAA
* ** ***
4664031 AGCATTTAATCC-AGTTACTCT
1 AGCATTGAATCCAAGCAACAAA
*
4664052 AGCATTGACTCCAAGCAACAAA
1 AGCATTGAATCCAAGCAACAAA
*
4664074 AGCATTTAATC
1 AGCATTGAATC
4664085 ACAAACTTGA
Statistics
Matches: 37, Mismatches: 16, Indels: 2
0.67 0.29 0.04
Matches are distributed among these distances:
21 14 0.38
22 23 0.62
ACGTcount: A:0.39, C:0.25, G:0.12, T:0.24
Consensus pattern (22 bp):
AGCATTGAATCCAAGCAACAAA
Found at i:4664060 original size:43 final size:43
Alignment explanation
Indices: 4663999--4664084 Score: 172
Period size: 43 Copynumber: 2.0 Consensus size: 43
4663989 CCAATTCAAA
4663999 CAGTTACTCTAGCATTGACTCCAAGCAACAAAAGCATTTAATC
1 CAGTTACTCTAGCATTGACTCCAAGCAACAAAAGCATTTAATC
4664042 CAGTTACTCTAGCATTGACTCCAAGCAACAAAAGCATTTAATC
1 CAGTTACTCTAGCATTGACTCCAAGCAACAAAAGCATTTAATC
4664085 ACAAACTTGA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.37, C:0.26, G:0.12, T:0.26
Consensus pattern (43 bp):
CAGTTACTCTAGCATTGACTCCAAGCAACAAAAGCATTTAATC
Found at i:4664064 original size:21 final size:21
Alignment explanation
Indices: 4663999--4664064 Score: 60
Period size: 21 Copynumber: 3.1 Consensus size: 21
4663989 CCAATTCAAA
4663999 CAGTTACTCTAGCATTGACTC
1 CAGTTACTCTAGCATTGACTC
** *** * *
4664020 CAAGCAACAAAAGCATTTAATC
1 C-AGTTACTCTAGCATTGACTC
4664042 CAGTTACTCTAGCATTGACTC
1 CAGTTACTCTAGCATTGACTC
4664063 CA
1 CA
4664065 AGCAACAAAA
Statistics
Matches: 30, Mismatches: 14, Indels: 2
0.65 0.30 0.04
Matches are distributed among these distances:
21 16 0.53
22 14 0.47
ACGTcount: A:0.33, C:0.27, G:0.12, T:0.27
Consensus pattern (21 bp):
CAGTTACTCTAGCATTGACTC
Found at i:4665745 original size:117 final size:117
Alignment explanation
Indices: 4665581--4665798 Score: 427
Period size: 117 Copynumber: 1.9 Consensus size: 117
4665571 TCGAAACTCG
*
4665581 CCCAGTCTGGATGCGCCCGAATTTGGTTCCAACCAGTCGCCCACCTGCCTGAGGTCGATCCGTCG
1 CCCAGTCTGGATGCGCCCGAATCTGGTTCCAACCAGTCGCCCACCTGCCTGAGGTCGATCCGTCG
4665646 GAAGGGACTACGCCCAGAACTGGATGCGCCCAAATCTGGTTCCAACAAGACC
66 GAAGGGACTACGCCCAGAACTGGATGCGCCCAAATCTGGTTCCAACAAGACC
4665698 CCCAGTCTGGATGCGCCCGAATCTGGTTCCAACCAGTCGCCCACCTGCCTGAGGTCGATCCGTCG
1 CCCAGTCTGGATGCGCCCGAATCTGGTTCCAACCAGTCGCCCACCTGCCTGAGGTCGATCCGTCG
4665763 GAAGGGACTACGCCCAGAACTGGATGCGCCCAAATC
66 GAAGGGACTACGCCCAGAACTGGATGCGCCCAAATC
4665799 AGTTAGTAAA
Statistics
Matches: 100, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
117 100 1.00
ACGTcount: A:0.22, C:0.35, G:0.26, T:0.17
Consensus pattern (117 bp):
CCCAGTCTGGATGCGCCCGAATCTGGTTCCAACCAGTCGCCCACCTGCCTGAGGTCGATCCGTCG
GAAGGGACTACGCCCAGAACTGGATGCGCCCAAATCTGGTTCCAACAAGACC
Found at i:4668828 original size:15 final size:17
Alignment explanation
Indices: 4668797--4668828 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
4668787 AATGTATTTT
4668797 TTTTATCAAATCTAATA
1 TTTTATCAAATCTAATA
4668814 TTTT-TCAAA-CTAATA
1 TTTTATCAAATCTAATA
4668829 AAGCAAGTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 5 0.33
17 4 0.27
ACGTcount: A:0.41, C:0.12, G:0.00, T:0.47
Consensus pattern (17 bp):
TTTTATCAAATCTAATA
Found at i:4675057 original size:20 final size:20
Alignment explanation
Indices: 4675010--4675049 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
4675000 TCTTCAGGTA
4675010 AAAACTGGAAGAGTTGAGTT
1 AAAACTGGAAGAGTTGAGTT
4675030 AAAACTGGAAGAGTTGAGTT
1 AAAACTGGAAGAGTTGAGTT
4675050 GTCACTGGTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.05, G:0.30, T:0.25
Consensus pattern (20 bp):
AAAACTGGAAGAGTTGAGTT
Found at i:4683099 original size:23 final size:23
Alignment explanation
Indices: 4683073--4683119 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
4683063 TGTTTCTGTT
*
4683073 AACAGACAAGAGACAAAGTACAA
1 AACAGACAAGACACAAAGTACAA
*
4683096 AACAGATAAGACACAAAGTACAA
1 AACAGACAAGACACAAAGTACAA
4683119 A
1 A
4683120 GCCAACAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.62, C:0.17, G:0.15, T:0.06
Consensus pattern (23 bp):
AACAGACAAGACACAAAGTACAA
Found at i:4692245 original size:15 final size:15
Alignment explanation
Indices: 4692198--4692246 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
4692188 TTTGATAAAC
*
4692198 TGAAATTTTCAATAT
1 TGAAATTTTCAATTT
** *
4692213 TGAAAAATT-AAGTT
1 TGAAATTTTCAATTT
4692227 TGAAATTTTCAATTT
1 TGAAATTTTCAATTT
4692242 TGAAA
1 TGAAA
4692247 ATAAATTTGT
Statistics
Matches: 26, Mismatches: 7, Indels: 2
0.74 0.20 0.06
Matches are distributed among these distances:
14 10 0.38
15 16 0.62
ACGTcount: A:0.43, C:0.04, G:0.10, T:0.43
Consensus pattern (15 bp):
TGAAATTTTCAATTT
Found at i:4693797 original size:11 final size:11
Alignment explanation
Indices: 4693766--4693842 Score: 65
Period size: 10 Copynumber: 7.2 Consensus size: 11
4693756 TGGCAACCTA
4693766 TGATATAATTT
1 TGATATAATTT
4693777 TGATA-AATTT
1 TGATATAATTT
*
4693787 TGATATTATTT
1 TGATATAATTT
*
4693798 T-A-AAAATTT
1 TGATATAATTT
4693807 ATGATATAATTT
1 -TGATATAATTT
4693819 T-A-ATAATTAT
1 TGATATAATT-T
*
4693829 TGAATACAATTT
1 TG-ATATAATTT
4693841 TG
1 TG
4693843 GTAAGCTTTG
Statistics
Matches: 53, Mismatches: 5, Indels: 15
0.73 0.07 0.21
Matches are distributed among these distances:
9 11 0.21
10 15 0.28
11 12 0.23
12 10 0.19
13 5 0.09
ACGTcount: A:0.40, C:0.01, G:0.08, T:0.51
Consensus pattern (11 bp):
TGATATAATTT
Found at i:4693806 original size:20 final size:20
Alignment explanation
Indices: 4693766--4693841 Score: 80
Period size: 21 Copynumber: 3.6 Consensus size: 20
4693756 TGGCAACCTA
*
4693766 TGATATAATTTTGATAAATTT
1 TGATATAATTTT-AAAAATTT
*
4693787 TGATATTATTTTAAAAATTT
1 TGATATAATTTTAAAAATTT
*
4693807 ATGATATAATTTTAATAATTAT
1 -TGATATAATTTTAAAAATT-T
*
4693829 TGAATACAATTTT
1 TG-ATATAATTTT
4693842 GGTAAGCTTT
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
20 7 0.15
21 30 0.64
22 10 0.21
ACGTcount: A:0.41, C:0.01, G:0.07, T:0.51
Consensus pattern (20 bp):
TGATATAATTTTAAAAATTT
Found at i:4693973 original size:27 final size:27
Alignment explanation
Indices: 4693935--4693988 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
4693925 ATCTTGAATA
* * *
4693935 TAATTTTGATAACTTTTTATAAAATTT
1 TAATTTTAATAACCTTTAATAAAATTT
*
4693962 TAATTTTAATAACCTTTAATATAATTT
1 TAATTTTAATAACCTTTAATAAAATTT
4693989 AGTAACCGTA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.06, G:0.02, T:0.54
Consensus pattern (27 bp):
TAATTTTAATAACCTTTAATAAAATTT
Found at i:4694052 original size:21 final size:21
Alignment explanation
Indices: 4693980--4694100 Score: 93
Period size: 21 Copynumber: 5.8 Consensus size: 21
4693970 ATAACCTTTA
* * *
4693980 ATATAA-TTTAGTAACCGTAG
1 ATATAATTTTGGTAATCTTAG
* * * *
4694000 ATAAAATTTTGATAACCTTTG
1 ATATAATTTTGGTAATCTTAG
* *
4694021 TTATAAGTTTGGTAATCTTAG
1 ATATAATTTTGGTAATCTTAG
* *
4694042 ATAAAATTTTGGTAATCTTTG
1 ATATAATTTTGGTAATCTTAG
* *
4694063 ATATTATTTTAGTAAT-TTATG
1 ATATAATTTTGGTAATCTTA-G
*
4694084 ATATAATTTTGATAATC
1 ATATAATTTTGGTAATC
4694101 CCGAATATAA
Statistics
Matches: 76, Mismatches: 22, Indels: 4
0.75 0.22 0.04
Matches are distributed among these distances:
20 7 0.09
21 69 0.91
ACGTcount: A:0.36, C:0.06, G:0.12, T:0.46
Consensus pattern (21 bp):
ATATAATTTTGGTAATCTTAG
Found at i:4694052 original size:42 final size:41
Alignment explanation
Indices: 4693963--4694270 Score: 155
Period size: 42 Copynumber: 7.3 Consensus size: 41
4693953 ATAAAATTTT
* * * *
4693963 AATTTTAATAACCTTTAATATAATTTAGTAACCGTAGATAA
1 AATTTTGATAACCTTTGATATAATTTAGTAATCTTAGATAA
* *
4694004 AATTTTGATAACCTTTGTTATAAGTTTGGTAATCTTAGATAA
1 AATTTTGATAACCTTTGATATAA-TTTAGTAATCTTAGATAA
* * * *
4694046 AATTTTGGTAATCTTTGATATTATTTTAGTAAT-TTATGATAT
1 AATTTTGATAACCTTTGATA-TAATTTAGTAATCTTA-GATAA
* * *
4694088 AATTTTGATAATCC--CGAATATAATTTTGTAA-CTTTTGATAA
1 AATTTTGATAA-CCTTTG-ATATAATTTAGTAATC-TTAGATAA
* * *
4694129 AATGTTGATAATAACCTATTAATATAACTTTAGTAACTTTTA-ATACA
1 AAT-TT--TGATAACCT-TTGATATAA-TTTAGTAA-TCTTAGATA-A
* * * *
4694176 ATTTTTGATAA-TTTATGATATAATATTGGTGATCATT-GATAA
1 AATTTTGATAACCTT-TGATATAAT-TTAGTAATC-TTAGATAA
** * * * *
4694218 AATTTTTG-TAATTTTTGATAGAATCTTTGTAATCTTGGATAC
1 AA-TTTTGATAACCTTTGATATAAT-TTAGTAATCTTAGATAA
*
4694260 AATTTTAATAA
1 AATTTTGATAA
4694271 ACTCTTAATT
Statistics
Matches: 203, Mismatches: 39, Indels: 49
0.70 0.13 0.17
Matches are distributed among these distances:
41 46 0.23
42 93 0.46
43 31 0.15
44 10 0.05
45 6 0.03
46 12 0.06
47 5 0.02
ACGTcount: A:0.37, C:0.07, G:0.11, T:0.46
Consensus pattern (41 bp):
AATTTTGATAACCTTTGATATAATTTAGTAATCTTAGATAA
Found at i:4694235 original size:21 final size:21
Alignment explanation
Indices: 4694161--4694265 Score: 75
Period size: 21 Copynumber: 5.0 Consensus size: 21
4694151 TATAACTTTA
* *
4694161 GTAACTTTTAATACAATTTTT
1 GTAATTTTTGATACAATTTTT
* * * *
4694182 GATAATTTATGATATAATATTG
1 G-TAATTTTTGATACAATTTTT
* ** *
4694204 GTGATCATTGATAAAATTTTT
1 GTAATTTTTGATACAATTTTT
* *
4694225 GTAATTTTTGATAGAATCTTT
1 GTAATTTTTGATACAATTTTT
* *
4694246 GTAATCTTGGATACAATTTT
1 GTAATTTTTGATACAATTTT
4694266 AATAAACTCT
Statistics
Matches: 61, Mismatches: 22, Indels: 2
0.72 0.26 0.02
Matches are distributed among these distances:
21 46 0.75
22 15 0.25
ACGTcount: A:0.33, C:0.06, G:0.12, T:0.49
Consensus pattern (21 bp):
GTAATTTTTGATACAATTTTT
Found at i:4694290 original size:20 final size:21
Alignment explanation
Indices: 4694260--4694309 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
4694250 TCTTGGATAC
*
4694260 AATTTTAATAAACTCTTA-AT
1 AATTTTGATAAACTCTTATAT
* * *
4694280 TATTTTGATAAGCTTTTATAT
1 AATTTTGATAAACTCTTATAT
4694301 AATTTTGAT
1 AATTTTGAT
4694310 TTGAATAAAT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
20 14 0.58
21 10 0.42
ACGTcount: A:0.36, C:0.06, G:0.06, T:0.52
Consensus pattern (21 bp):
AATTTTGATAAACTCTTATAT
Found at i:4697601 original size:19 final size:19
Alignment explanation
Indices: 4697577--4697637 Score: 65
Period size: 19 Copynumber: 3.3 Consensus size: 19
4697567 GCAATAATAC
*
4697577 AAAATACAAAATATCAAAA
1 AAAATACAAAATACCAAAA
*
4697596 AAAATATAAAATACCAAAA
1 AAAATACAAAATACCAAAA
4697615 ACAAA-A-AAAGA-ACCAAAA
1 A-AAATACAAA-ATACCAAAA
4697633 AAAAT
1 AAAAT
4697638 GGGGGATGGC
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
17 3 0.08
18 11 0.30
19 20 0.54
20 3 0.08
ACGTcount: A:0.75, C:0.11, G:0.02, T:0.11
Consensus pattern (19 bp):
AAAATACAAAATACCAAAA
Found at i:4697601 original size:26 final size:25
Alignment explanation
Indices: 4697572--4697623 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 25
4697562 TAAATGCAAT
4697572 AATACAAAATA-CAAAATATCAAAAAA
1 AATACAAAATACCAAAA-A-CAAAAAA
*
4697598 AATATAAAATACCAAAAACAAAAAA
1 AATACAAAATACCAAAAACAAAAAA
4697623 A
1 A
4697624 GAACCAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
25 8 0.33
26 11 0.46
27 5 0.21
ACGTcount: A:0.75, C:0.12, G:0.00, T:0.13
Consensus pattern (25 bp):
AATACAAAATACCAAAAACAAAAAA
Found at i:4698554 original size:12 final size:12
Alignment explanation
Indices: 4698537--4698561 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4698527 GTAAAAAAAA
4698537 TTTTTTTAATTT
1 TTTTTTTAATTT
4698549 TTTTTTTAATTT
1 TTTTTTTAATTT
4698561 T
1 T
4698562 CTCTTATTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (12 bp):
TTTTTTTAATTT
Found at i:4698954 original size:11 final size:10
Alignment explanation
Indices: 4698929--4698953 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
4698919 TAAATAATAT
4698929 AAAAATAAGG
1 AAAAATAAGG
4698939 AAAAATAAGG
1 AAAAATAAGG
4698949 AAAAA
1 AAAAA
4698954 AAAATTTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.76, C:0.00, G:0.16, T:0.08
Consensus pattern (10 bp):
AAAAATAAGG
Found at i:4699117 original size:9 final size:9
Alignment explanation
Indices: 4699103--4699140 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
4699093 TCAAAATTTT
4699103 AATAAAAAA
1 AATAAAAAA
4699112 AATAAAAAA
1 AATAAAAAA
*
4699121 AAT-AAAAC
1 AATAAAAAA
*
4699129 AATAAATAA
1 AATAAAAAA
4699138 AAT
1 AAT
4699141 TTGTAAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
8 7 0.28
9 18 0.72
ACGTcount: A:0.82, C:0.03, G:0.00, T:0.16
Consensus pattern (9 bp):
AATAAAAAA
Found at i:4699132 original size:17 final size:17
Alignment explanation
Indices: 4699107--4699140 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
4699097 AATTTTAATA
4699107 AAAAAAATAAAAAAAAT
1 AAAAAAATAAAAAAAAT
* *
4699124 AAAACAATAAATAAAAT
1 AAAAAAATAAAAAAAAT
4699141 TTGTAAAAAA
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:0.82, C:0.03, G:0.00, T:0.15
Consensus pattern (17 bp):
AAAAAAATAAAAAAAAT
Found at i:4701904 original size:21 final size:21
Alignment explanation
Indices: 4701862--4701904 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
4701852 TTAAGCTTGT
* * **
4701862 AAAAAAAAATTAGAAGCTAAA
1 AAAAAAAAATAAAAAGAGAAA
4701883 AAAAAAAAATAAAAAGAGAAA
1 AAAAAAAAATAAAAAGAGAAA
4701904 A
1 A
4701905 TTTAAGACTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.79, C:0.02, G:0.09, T:0.09
Consensus pattern (21 bp):
AAAAAAAAATAAAAAGAGAAA
Found at i:4707373 original size:159 final size:158
Alignment explanation
Indices: 4707084--4707394 Score: 475
Period size: 159 Copynumber: 2.0 Consensus size: 158
4707074 GAAAAAGTGA
* * **
4707084 GAATGTGTGTTGACTATCGAGATTTGAATAATGCAAGTCCTAAGGATAATTTTCTTTTTCTTCAT
1 GAATGTGTGTTGACTATCGAGATTTGAATAATGCAAGTCCTAAGGATAATTTTCCTTTGCCCCAT
* *
4707149 ATAGATACCCTAGTAGATAATACTACTAGGCACTCCATATTTTCCTTTATGGATGGCTTCTCAAG
66 ATAGATACCCTAGTAGATAATACTACTAAGCACTCCACATTTTCCTTTATGGATGGCTTCTCAAG
4707214 CTATAACCAGATCAAAAATGGCTTGGGAT
131 CTATAACCAGATC-AAAATGGCTTGGGAT
4707243 GAATGTGTGTTGACTATCGAGATCTT-AATAGA-GCAAG-CCTTAAGGATAATTTTCCTTTGCCC
1 GAATGTGTGTTGACTATCGAGAT-TTGAATA-ATGCAAGTCC-TAAGGATAATTTTCCTTTGCCC
* * * *
4707305 CATATCGATACCCTAGTGGATAATACTACTAAGCACTCTACATTTTCCTTTATGGATGGTTTCTC
63 CATATAGATACCCTAGTAGATAATACTACTAAGCACTCCACATTTTCCTTTATGGATGGCTTCTC
4707370 AAGCTATAACCAGATCAAAATGGCT
128 AAGCTATAACCAGATCAAAATGGCT
4707395 CGAGATGATA
Statistics
Matches: 139, Mismatches: 10, Indels: 7
0.89 0.06 0.04
Matches are distributed among these distances:
158 11 0.08
159 125 0.90
160 3 0.02
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (158 bp):
GAATGTGTGTTGACTATCGAGATTTGAATAATGCAAGTCCTAAGGATAATTTTCCTTTGCCCCAT
ATAGATACCCTAGTAGATAATACTACTAAGCACTCCACATTTTCCTTTATGGATGGCTTCTCAAG
CTATAACCAGATCAAAATGGCTTGGGAT
Found at i:4711027 original size:47 final size:48
Alignment explanation
Indices: 4710911--4711329 Score: 397
Period size: 47 Copynumber: 8.8 Consensus size: 48
4710901 ACAGATGAGA
* **
4710911 TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCTAAAATAAAT
1 TTTTAAAGTTGTTGAACCTCTGCTGAGAGGAGCTTTTTCT-AAATGGAT
* * *
4710960 TTTTAAAGTTGTTGAGCCTCTGCTGATATGAGCTTTTTC-AAATGGAT
1 TTTTAAAGTTGTTGAACCTCTGCTGAGAGGAGCTTTTTCTAAATGGAT
* * **
4711007 TTTTAAAGTTATTTAACCTCTGCTGAGAGGAGC-TTTTCTAAATAAAT
1 TTTTAAAGTTGTTGAACCTCTGCTGAGAGGAGCTTTTTCTAAATGGAT
* * *
4711054 TTTTAAAGTTGTTGAGCCTTTGCTGAAAGGAGC-TTTTCTAAATGGAT
1 TTTTAAAGTTGTTGAACCTCTGCTGAGAGGAGCTTTTTCTAAATGGAT
* * * * * *
4711101 TTTTAAAATTATTGAACCTCTACTGAGATGAGCCTTTCCATATAA--GA-
1 TTTTAAAGTTGTTGAACCTCTGCTGAGAGGAGCTTTTTC-TA-AATGGAT
* * * * *
4711148 TTTTAAAGTTGTT-AAGTCTTTGCTGAGAGAAAC-TTTTCCAAATGGAT
1 TTTTAAAGTTGTTGAA-CCTCTGCTGAGAGGAGCTTTTTCTAAATGGAT
* * * * *
4711195 TTTTAAAGTTGTTGAGCCTCTGCTGAAAGAAG-TTTTTCCAAATGAAT
1 TTTTAAAGTTGTTGAACCTCTGCTGAGAGGAGCTTTTTCTAAATGGAT
* * * * *
4711242 TTTTAAAGTTATTGAACCTTTGTTGAAAGGGGCTTTTTCTAAGATGAGAT
1 TTTTAAAGTTGTTGAACCTCTGCTGAGAGGAGCTTTTTCTAA-ATG-GAT
* *
4711292 TTTTAAAATTGTTGAACCTCTGCTGAGAGGAGTTTTTT
1 TTTTAAAGTTGTTGAACCTCTGCTGAGAGGAGCTTTTT
4711330 TTTAGATTTT
Statistics
Matches: 300, Mismatches: 57, Indels: 25
0.79 0.15 0.07
Matches are distributed among these distances:
44 2 0.01
45 1 0.00
46 13 0.04
47 192 0.64
48 15 0.05
49 42 0.14
50 35 0.12
ACGTcount: A:0.28, C:0.12, G:0.19, T:0.40
Consensus pattern (48 bp):
TTTTAAAGTTGTTGAACCTCTGCTGAGAGGAGCTTTTTCTAAATGGAT
Found at i:4711078 original size:94 final size:95
Alignment explanation
Indices: 4710911--4711328 Score: 484
Period size: 94 Copynumber: 4.4 Consensus size: 95
4710901 ACAGATGAGA
* *
4710911 TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCTAAAATAAATTTTTAAAGTTGTTGAG
1 TTTTAAAGTTGTTGAACCTCTGCTGAGAGGAGC-TTTTC-CAAATAAATTTTTAAAGTTGTTGAG
* * *
4710976 CCTCTGCTGATATGAGCTTTTTC-AAATGGAT
64 CCTTTGCTGAAAGGAGCTTTTTCTAAATGGAT
* * *
4711007 TTTTAAAGTTATTTAACCTCTGCTGAGAGGAGCTTTTCTAAATAAATTTTTAAAGTTGTTGAGCC
1 TTTTAAAGTTGTTGAACCTCTGCTGAGAGGAGCTTTTCCAAATAAATTTTTAAAGTTGTTGAGCC
4711072 TTTGCTGAAAGGAGC-TTTTCTAAATGGAT
66 TTTGCTGAAAGGAGCTTTTTCTAAATGGAT
* * * * * * * *
4711101 TTTTAAAATTATTGAACCTCTACTGAGATGAGCCTTTCCATATAAGA-TTTTAAAGTTGTTAAGT
1 TTTTAAAGTTGTTGAACCTCTGCTGAGAGGAGCTTTTCCAAATAA-ATTTTTAAAGTTGTTGAGC
* * * *
4711165 CTTTGCTGAGAGAAAC-TTTTCCAAATGGAT
65 CTTTGCTGAAAGGAGCTTTTTCTAAATGGAT
* * * * * * *
4711195 TTTTAAAGTTGTTGAGCCTCTGCTGAAAGAAGTTTTTCCAAATGAATTTTTAAAGTTATTGAACC
1 TTTTAAAGTTGTTGAACCTCTGCTGAGAGGAGCTTTTCCAAATAAATTTTTAAAGTTGTTGAGCC
* *
4711260 TTTGTTGAAAGGGGCTTTTTCTAAGATGAGAT
66 TTTGCTGAAAGGAGCTTTTTCTAA-ATG-GAT
* *
4711292 TTTTAAAATTGTTGAACCTCTGCTGAGAGGAGTTTTT
1 TTTTAAAGTTGTTGAACCTCTGCTGAGAGGAGCTTTT
4711329 TTTTAGATTT
Statistics
Matches: 271, Mismatches: 45, Indels: 11
0.83 0.14 0.03
Matches are distributed among these distances:
93 6 0.02
94 183 0.68
95 13 0.05
96 33 0.12
97 36 0.13
ACGTcount: A:0.28, C:0.12, G:0.19, T:0.40
Consensus pattern (95 bp):
TTTTAAAGTTGTTGAACCTCTGCTGAGAGGAGCTTTTCCAAATAAATTTTTAAAGTTGTTGAGCC
TTTGCTGAAAGGAGCTTTTTCTAAATGGAT
Found at i:4711342 original size:141 final size:140
Alignment explanation
Indices: 4710911--4711327 Score: 460
Period size: 141 Copynumber: 2.9 Consensus size: 140
4710901 ACAGATGAGA
* * * *
4710911 TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCTAAAATAAATTTTTAAAGTTGTTGAG
1 TTTTAAAGTTGTTGAGCCTCTGCTGAAAGGAG-TTTTTC-AAAATGAATTTTTAAAGTTATTGAA
* *
4710976 CCTCTGCTGATATGAGCTTTTTCAAATG-GATTTTTAAAGTTATTTAACCTCTGCTGAGAGGAGC
64 CCTCTGCTGAAATGAGCTTTTTCAAATGAGATTTTTAAAGTT-GTTAACCTCTGCTGAGAGGAG-
*
4711040 TTTTCTAAATAAAT
127 TTTTCTAAATAGAT
* * * * *
4711054 TTTTAAAGTTGTTGAGCCTTTGCTGAAAGGAGCTTTTCTAAATGGATTTTTAAAATTATTGAACC
1 TTTTAAAGTTGTTGAGCCTCTGCTGAAAGGAGTTTTTCAAAATGAATTTTTAAAGTTATTGAACC
* * * * * * * * * *
4711119 TCTACTGAGATGAGCCTTTCCATATAAGA-TTTTAAAGTTGTTAAGTCTTTGCTGAGAGAAACTT
66 TCTGCTGAAATGAGCTTTTTCAAATGAGATTTTTAAAGTTGTTAA-CCTCTGCTGAGAG-GAGTT
* *
4711183 TTCCAAATGGAT
129 TTCTAAATAGAT
* *
4711195 TTTTAAAGTTGTTGAGCCTCTGCTGAAAGAAGTTTTTCCAAATGAATTTTTAAAGTTATTGAACC
1 TTTTAAAGTTGTTGAGCCTCTGCTGAAAGGAGTTTTTCAAAATGAATTTTTAAAGTTATTGAACC
* * * * *
4711260 TTTGTTGAAAGGGGCTTTTTCTAAGATGAGATTTTTAAAATTGTTGAACCTCTGCTGAGAGGAGT
66 TCTGCTGAAATGAGCTTTTTC-AA-ATGAGATTTTTAAAGTTGTT-AACCTCTGCTGAGAGGAGT
4711325 TTT
128 TTT
4711328 TTTTTAGATT
Statistics
Matches: 223, Mismatches: 44, Indels: 14
0.79 0.16 0.05
Matches are distributed among these distances:
140 4 0.02
141 145 0.65
142 9 0.04
143 40 0.18
144 23 0.10
145 2 0.01
ACGTcount: A:0.29, C:0.12, G:0.19, T:0.40
Consensus pattern (140 bp):
TTTTAAAGTTGTTGAGCCTCTGCTGAAAGGAGTTTTTCAAAATGAATTTTTAAAGTTATTGAACC
TCTGCTGAAATGAGCTTTTTCAAATGAGATTTTTAAAGTTGTTAACCTCTGCTGAGAGGAGTTTT
CTAAATAGAT
Found at i:4713095 original size:20 final size:21
Alignment explanation
Indices: 4713072--4713114 Score: 70
Period size: 20 Copynumber: 2.1 Consensus size: 21
4713062 CTTCAAAATT
4713072 TTAATAAAAAAATAAA-AAAA
1 TTAATAAAAAAATAAATAAAA
*
4713092 TTAATAAAACAATAAATAAAA
1 TTAATAAAAAAATAAATAAAA
4713113 TT
1 TT
4713115 TCTAAAAGAG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 15 0.71
21 6 0.29
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (21 bp):
TTAATAAAAAAATAAATAAAA
Found at i:4719395 original size:17 final size:18
Alignment explanation
Indices: 4719373--4719410 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
4719363 GCAAGATGAC
4719373 TGCTCAG-CGAAAACTTT
1 TGCTCAGTCGAAAACTTT
* *
4719390 TGCTCAGTGGAAACCTTT
1 TGCTCAGTCGAAAACTTT
4719408 TGC
1 TGC
4719411 GAACTTTAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.24, C:0.24, G:0.21, T:0.32
Consensus pattern (18 bp):
TGCTCAGTCGAAAACTTT
Found at i:4725415 original size:217 final size:217
Alignment explanation
Indices: 4725035--4725865 Score: 1352
Period size: 215 Copynumber: 3.9 Consensus size: 217
4725025 TAAAAGTATA
* * *
4725035 AACTTCAAAAGTGATAATATTGAACGATCAAAATACCCTTAGTAAATTAAAAGTGATTATAAAAT
1 AACTCCAAAAGTGATAATAGTGAACGATCAAAATACCCTTAGTAAATCAAAAGTGATTATAAAAT
*
4725100 GATTTTTTATTATTAAATTTTTATTAAAATAAATTATAATTTGAACTCTTTTATTATTAGACTTC
66 GACTTTTTATTATTAAATTTTTATTAAAATAAATTATAATTTGAACTCTTTTATTATTAGACTTC
4725165 TTAAAAATTATAATTTAAACTCTTTTTTTATATTATTAGACTTCTATACCAAAAAAAATTAAAAT
131 TTAAAAATTATAATTTAAACTCTTTTTTTATATTATTAGACTTCTATACCAAAAAAAATTAAAAT
4725230 GACTTTTTATTATTAAATTATG
196 GACTTTTTATTATTAAATTATG
**
4725252 AACTCCAAAAGTGATAATAGTGAGTG-TCTAAAATACCCTTAGTAAATCAAAAGTGATTATAAAA
1 AACTCCAAAAGTGATAATAGTGAACGATC-AAAATACCCTTAGTAAATCAAAAGTGATTATAAAA
*
4725316 TGACTTTTTATTATTAAATTTTTATTGAAATAAATTATAATTTGAACTCTTTTATTATTAGACTT
65 TGACTTTTTATTATTAAATTTTTATTAAAATAAATTATAATTTGAACTCTTTTATTATTAGACTT
*
4725381 CTTATAAATTATAATTTAAACTCTTTTTTTATATTATTAGACTTCTATACCAAAAAAAATTAAAA
130 CTTAAAAATTATAATTTAAACTCTTTTTTTATATTATTAGACTTCTATACCAAAAAAAATTAAAA
4725446 TGAC--TTTATTATTAAATTATG
195 TGACTTTTTATTATTAAATTATG
* **
4725467 AACTCCAAAAGTGATAATAGTGAACGA-CTAAATTACTTTTAGTAAATCAAAAGTGATTATAAAA
1 AACTCCAAAAGTGATAATAGTGAACGATC-AAAATACCCTTAGTAAATCAAAAGTGATTATAAAA
4725531 TGACTTTTTATTATTAAATTTTTATTAAAATAAATTATAATTTGAACTCTTTTATTATTAGACTT
65 TGACTTTTTATTATTAAATTTTTATTAAAATAAATTATAATTTGAACTCTTTTATTATTAGACTT
* *
4725596 CTTAAAAATTATAATATAAACTCTTTTTTTATATTATTAGATTTCTATACCAAAAAAAATTAAAA
130 CTTAAAAATTATAATTTAAACTCTTTTTTTATATTATTAGACTTCTATACCAAAAAAAATTAAAA
*
4725661 TGACTTTTTATTATTAAATT-TT
195 TGACTTTTTATTATTAAATTATG
* * * * *
4725683 TA-T-TAAAAGTGATAATAATGAACGATCAAAATACCCTTAGTAAATTAAAAGTGATAATAAAAT
1 AACTCCAAAAGTGATAATAGTGAACGATCAAAATACCCTTAGTAAATCAAAAGTGATTATAAAAT
* * * * * *
4725746 GATTTTTTATTATTAAATTTTTATTGAGATAAATTATAATTTGAACTATTTTATTATTACACTTT
66 GACTTTTTATTATTAAATTTTTATTAAAATAAATTATAATTTGAACTCTTTTATTATTAGACTTC
* *
4725811 TTAAAAATTGTAATTTAAACTCTTTTTTTATATTATTAGACTTCTATAACAAAAA
131 TTAAAAATTATAATTTAAACTCTTTTTTTATATTATTAGACTTCTATACCAAAAA
4725866 TAGTTAAATA
Statistics
Matches: 573, Mismatches: 36, Indels: 13
0.92 0.06 0.02
Matches are distributed among these distances:
214 161 0.28
215 207 0.36
216 4 0.01
217 201 0.35
ACGTcount: A:0.42, C:0.08, G:0.07, T:0.43
Consensus pattern (217 bp):
AACTCCAAAAGTGATAATAGTGAACGATCAAAATACCCTTAGTAAATCAAAAGTGATTATAAAAT
GACTTTTTATTATTAAATTTTTATTAAAATAAATTATAATTTGAACTCTTTTATTATTAGACTTC
TTAAAAATTATAATTTAAACTCTTTTTTTATATTATTAGACTTCTATACCAAAAAAAATTAAAAT
GACTTTTTATTATTAAATTATG
Found at i:4729878 original size:30 final size:30
Alignment explanation
Indices: 4729838--4729904 Score: 107
Period size: 30 Copynumber: 2.2 Consensus size: 30
4729828 TTTTTAGTTA
**
4729838 CTTTAACATTTGTACAAGTTTTTAGCATTT
1 CTTTAACATTTGTACAAGTTCGTAGCATTT
*
4729868 CTTTAGCATTTGTACAAGTTCGTAGCATTT
1 CTTTAACATTTGTACAAGTTCGTAGCATTT
4729898 CTTTAAC
1 CTTTAAC
4729905 TTATTGATAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.25, C:0.16, G:0.12, T:0.46
Consensus pattern (30 bp):
CTTTAACATTTGTACAAGTTCGTAGCATTT
Found at i:4736744 original size:18 final size:18
Alignment explanation
Indices: 4736721--4736767 Score: 85
Period size: 18 Copynumber: 2.6 Consensus size: 18
4736711 ACCACTATTG
4736721 CCGCTATTCACCGTTATA
1 CCGCTATTCACCGTTATA
4736739 CCGCTATTCACCGTTATA
1 CCGCTATTCACCGTTATA
*
4736757 CCGCAATTCAC
1 CCGCTATTCAC
4736768 GGCCGTGATT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.23, C:0.36, G:0.11, T:0.30
Consensus pattern (18 bp):
CCGCTATTCACCGTTATA
Found at i:4738256 original size:23 final size:22
Alignment explanation
Indices: 4738198--4738264 Score: 59
Period size: 23 Copynumber: 3.1 Consensus size: 22
4738188 ATATCTTCAT
* * *
4738198 TTTTTTATTTAGAT-TTATATG
1 TTTTTTATCTATATATTATATA
*
4738219 TATTTTATCTATATAGTTATATA
1 TTTTTTATCTATATA-TTATATA
4738242 TTTTTTAT-TATTATATTAT-TA
1 TTTTTTATCTA-TATATTATATA
4738263 TT
1 TT
4738265 ATTATTTTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
21 15 0.39
22 6 0.16
23 17 0.45
ACGTcount: A:0.28, C:0.01, G:0.04, T:0.66
Consensus pattern (22 bp):
TTTTTTATCTATATATTATATA
Found at i:4738257 original size:17 final size:17
Alignment explanation
Indices: 4738238--4738270 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
4738228 TATATAGTTA
4738238 TATATT-TT-TTATTAT
1 TATATTATTATTATTAT
4738253 TATATTATTATTATTAT
1 TATATTATTATTATTAT
4738270 T
1 T
4738271 TTTTTGTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
16 2 0.12
17 8 0.50
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (17 bp):
TATATTATTATTATTAT
Found at i:4738391 original size:14 final size:15
Alignment explanation
Indices: 4738372--4738403 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
4738362 GATTATTATC
4738372 TTTCTTT-TTTTTTT
1 TTTCTTTCTTTTTTT
4738386 TTTCTTTCTTTTTTT
1 TTTCTTTCTTTTTTT
4738401 TTT
1 TTT
4738404 GGATGGTTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (15 bp):
TTTCTTTCTTTTTTT
Found at i:4739304 original size:25 final size:24
Alignment explanation
Indices: 4739268--4739319 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 24
4739258 TTTTTTTTGA
*
4739268 ATTTTTTTTTTATT-TGTTTTATTT
1 ATTTTTTATTTATTAT-TTTTATTT
4739292 ATTTATTTATTTATTATTTTTATTT
1 ATTT-TTTATTTATTATTTTTATTT
4739317 ATT
1 ATT
4739320 AGATTAGGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
24 4 0.16
25 20 0.80
26 1 0.04
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (24 bp):
ATTTTTTATTTATTATTTTTATTT
Found at i:4739313 original size:17 final size:17
Alignment explanation
Indices: 4739274--4739402 Score: 65
Period size: 17 Copynumber: 7.7 Consensus size: 17
4739264 TTGAATTTTT
*
4739274 TTTTTATTTGTTTTATT-
1 TTTTTATTT-ATTTATTA
*
4739291 TATTTATTTATTTATTA
1 TTTTTATTTATTTATTA
*
4739308 TTTTTATTTATTAGATTA
1 TTTTTATTTATT-TATTA
** * *
4739326 GGTTTATTTA-ATATTC
1 TTTTTATTTATTTATTA
4739342 TTTTTATCTT-TATT-TTA
1 TTTTTAT-TTAT-TTATTA
*
4739359 TTTTTATTT-TTGTTTTA
1 TTTTTATTTATT-TATTA
* *
4739376 CTTTTCTTT-TTT-TTA
1 TTTTTATTTATTTATTA
*
4739391 TTTTTTTTTATT
1 TTTTTATTTATT
4739403 ATTCTATTTT
Statistics
Matches: 87, Mismatches: 17, Indels: 17
0.72 0.14 0.14
Matches are distributed among these distances:
15 11 0.13
16 21 0.24
17 42 0.48
18 13 0.15
ACGTcount: A:0.18, C:0.03, G:0.04, T:0.75
Consensus pattern (17 bp):
TTTTTATTTATTTATTA
Found at i:4739320 original size:13 final size:12
Alignment explanation
Indices: 4739268--4739319 Score: 70
Period size: 13 Copynumber: 4.2 Consensus size: 12
4739258 TTTTTTTTGA
4739268 ATTTTTTT-TTT
1 ATTTTTTTATTT
4739279 ATTTGTTTTATTT
1 ATTT-TTTTATTT
*
4739292 ATTTATTTATTT
1 ATTTTTTTATTT
4739304 ATTATTTTTATTT
1 ATT-TTTTTATTT
4739317 ATT
1 ATT
4739320 AGATTAGGTT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
11 4 0.11
12 14 0.39
13 18 0.50
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (12 bp):
ATTTTTTTATTT
Found at i:4739335 original size:4 final size:4
Alignment explanation
Indices: 4739285--4739319 Score: 52
Period size: 4 Copynumber: 8.5 Consensus size: 4
4739275 TTTTATTTGT
*
4739285 TTTA TTTA TTTA TTTA TTTA TTATT TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TT-TA TTTA TTTA TT
4739320 AGATTAGGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
4 25 0.89
5 3 0.11
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:4739360 original size:5 final size:5
Alignment explanation
Indices: 4739343--4739402 Score: 50
Period size: 5 Copynumber: 11.4 Consensus size: 5
4739333 TTAATATTCT
* *
4739343 TTTTA TCTTTA TTTTA TTTTTA TTTTTG TTTTA CTTTTC TTTT- TTTTA
1 TTTTA T-TTTA TTTTA -TTTTA -TTTTA TTTTA -TTTTA TTTTA TTTTA
*
4739391 TTTTT TTTTA TT
1 TTTTA TTTTA TT
4739403 ATTCTATTTT
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
4 4 0.09
5 23 0.50
6 19 0.41
ACGTcount: A:0.12, C:0.05, G:0.02, T:0.82
Consensus pattern (5 bp):
TTTTA
Found at i:4739394 original size:25 final size:26
Alignment explanation
Indices: 4739351--4739413 Score: 78
Period size: 25 Copynumber: 2.5 Consensus size: 26
4739341 CTTTTTATCT
*
4739351 TTATTTTA-TTTTTATTTTTGTTTTA
1 TTATTCTATTTTTTATTTTTGTTTTA
*
4739376 CTT-TTCTTTTTTTTATTTTT-TTTTA
1 -TTATTCTATTTTTTATTTTTGTTTTA
4739401 TTATTCTATTTTT
1 TTATTCTATTTTT
4739414 CTTTAAATAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
24 2 0.06
25 17 0.53
26 13 0.41
ACGTcount: A:0.13, C:0.05, G:0.02, T:0.81
Consensus pattern (26 bp):
TTATTCTATTTTTTATTTTTGTTTTA
Found at i:4739512 original size:58 final size:58
Alignment explanation
Indices: 4739442--4739658 Score: 330
Period size: 58 Copynumber: 3.7 Consensus size: 58
4739432 AAAGTTCCAA
*
4739442 AAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTC
1 AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTC
* * *
4739500 AAAAAAACATTTTTGGGGAAAAGTTGAAAGTATAAATTTTCCTTAAAAACAAAATTTC
1 AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTC
* *
4739558 AAAAAAA-AGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAAT-AAATTTC
1 AAAAAAATA--TTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTC
*
4739616 CAAAAAATATTTTTCGGGGAAAAGTTGAAAGTATCAATTTTCC
1 AAAAAAATATTTTT-GGGGAAAAGTTGAAAGTATCAATTTTCC
4739659 CCACACAAAA
Statistics
Matches: 144, Mismatches: 11, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
57 6 0.04
58 100 0.69
59 38 0.26
ACGTcount: A:0.46, C:0.08, G:0.13, T:0.33
Consensus pattern (58 bp):
AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTC
Found at i:4739572 original size:117 final size:117
Alignment explanation
Indices: 4739441--4739658 Score: 350
Period size: 117 Copynumber: 1.9 Consensus size: 117
4739431 AAAAGTTCCA
*
4739441 AAAAAAAATATTTTT-AGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTCAAAAA
1 AAAAAAAAGATTTTTGA-GGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAATTTCAAAAA
4739505 AACATTTTT-GGGGAAAAGTTGAAAGTATAAATTTTCCTTAAAAACAAAATTTC
64 AACATTTTTCGGGGAAAAGTTGAAAGTATAAATTTTCCTTAAAAACAAAATTTC
* * *
4739558 AAAAAAAAGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTCCAAAAAA
1 AAAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTCAAAAAAA
* *
4739623 TATTTTTCGGGGAAAAGTTGAAAGTATCAATTTTCC
66 CATTTTTCGGGGAAAAGTTGAAAGTATAAATTTTCC
4739659 CCACACAAAA
Statistics
Matches: 93, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
116 19 0.20
117 73 0.78
118 1 0.01
ACGTcount: A:0.46, C:0.08, G:0.13, T:0.33
Consensus pattern (117 bp):
AAAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTCAAAAAAA
CATTTTTCGGGGAAAAGTTGAAAGTATAAATTTTCCTTAAAAACAAAATTTC
Found at i:4742926 original size:34 final size:33
Alignment explanation
Indices: 4742869--4742939 Score: 83
Period size: 33 Copynumber: 2.2 Consensus size: 33
4742859 GAAAAATGAG
*
4742869 GAAAAAAAGATGATGAAAAAAAAAAGAGAAAAAA
1 GAAAAAAAGATGAT-AAAAAAAAAAAAGAAAAAA
* *
4742903 GAAAGAAAGATGA-AAAAATAAAAAAATAAAAAA
1 GAAAAAAAGATGATAAAAA-AAAAAAAGAAAAAA
4742936 -AAAA
1 GAAAA
4742940 TTCAAATTGA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
32 8 0.25
33 12 0.38
34 12 0.38
ACGTcount: A:0.79, C:0.00, G:0.14, T:0.07
Consensus pattern (33 bp):
GAAAAAAAGATGATAAAAAAAAAAAAGAAAAAA
Found at i:4744247 original size:42 final size:41
Alignment explanation
Indices: 4744167--4744539 Score: 548
Period size: 42 Copynumber: 9.1 Consensus size: 41
4744157 TGATTGTCAG
*
4744167 GGAGTAATTTACTTTTCAAAGTTCGT--TGCCTCTGTTTAGA
1 GGAGCAATTTACTTTTCAAAG-TCGTGGTGCCTCTGTTTAGA
*
4744207 GGAGCAATTTACTTTTTCAAAGTCGTGGTACCTCTGTTTAGA
1 GGAGCAATTTAC-TTTTCAAAGTCGTGGTGCCTCTGTTTAGA
*
4744249 GGAGCAATTTACTTTTCCAAAGTCGTGGTACCTCTGTTTAGA
1 GGAGCAATTTACTTTT-CAAAGTCGTGGTGCCTCTGTTTAGA
4744291 GGAGCAATTTACTTTTCAAAGTCCGT--TGCCTCTGTTTAGA
1 GGAGCAATTTACTTTTCAAAGT-CGTGGTGCCTCTGTTTAGA
*
4744331 GGAGCAATTTACTTTTTCAAAGTCGTGGTACCTCTGTTTAGA
1 GGAGCAATTTAC-TTTTCAAAGTCGTGGTGCCTCTGTTTAGA
4744373 GGAGCAATTTACTTTTCAAAGTTCGT--TGCCTCTGTTTAGA
1 GGAGCAATTTACTTTTCAAAG-TCGTGGTGCCTCTGTTTAGA
*
4744413 GGAGCAATTTACTTTTTCAAAGTCGTGGTACCTCTGTTTAGA
1 GGAGCAATTTAC-TTTTCAAAGTCGTGGTGCCTCTGTTTAGA
4744455 GGAGCAATTTACTTTTCAAAGTTCGT--TGCCTCTGTTTAGA
1 GGAGCAATTTACTTTTCAAAG-TCGTGGTGCCTCTGTTTAGA
* *
4744495 GGAGCAATTTA-GTTCCAAAGTCGTGGTGCCTCTGTTTAGA
1 GGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGA
4744535 GGAGC
1 GGAGC
4744540 TTTGGTTAAA
Statistics
Matches: 309, Mismatches: 9, Indels: 30
0.89 0.03 0.09
Matches are distributed among these distances:
38 4 0.01
39 7 0.02
40 115 0.37
41 56 0.18
42 127 0.41
ACGTcount: A:0.23, C:0.17, G:0.22, T:0.38
Consensus pattern (41 bp):
GGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGA
Found at i:4744334 original size:82 final size:82
Alignment explanation
Indices: 4744167--4744539 Score: 596
Period size: 82 Copynumber: 4.6 Consensus size: 82
4744157 TGATTGTCAG
* *
4744167 GGAGTAATTTACTTTT-CAAAGTTCGT--TGCCTCTGTTTAGAGGAGCAATTTACTTTTTCAAAG
1 GGAGCAATTTACTTTTCCAAAG-TCGTGGTACCTCTGTTTAGAGGAGCAATTTAC-TTTTCAAAG
*
4744229 -TCGTGGTACCTCTGTTTAGA
64 TTCGT--TGCCTCTGTTTAGA
*
4744249 GGAGCAATTTACTTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTC
1 GGAGCAATTTACTTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTT
4744314 CGTTGCCTCTGTTTAGA
66 CGTTGCCTCTGTTTAGA
*
4744331 GGAGCAATTTACTTTTTCAAAGTCGTGGTACCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTT
1 GGAGCAATTTACTTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTT
4744396 CGTTGCCTCTGTTTAGA
66 CGTTGCCTCTGTTTAGA
*
4744413 GGAGCAATTTACTTTTTCAAAGTCGTGGTACCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTT
1 GGAGCAATTTACTTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTT
4744478 CGTTGCCTCTGTTTAGA
66 CGTTGCCTCTGTTTAGA
* *
4744495 GGAGCAATTTA--GTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGC
1 GGAGCAATTTACTTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGC
4744540 TTTGGTTAAA
Statistics
Matches: 278, Mismatches: 9, Indels: 10
0.94 0.03 0.03
Matches are distributed among these distances:
80 31 0.11
82 205 0.74
83 14 0.05
84 28 0.10
ACGTcount: A:0.23, C:0.17, G:0.22, T:0.38
Consensus pattern (82 bp):
GGAGCAATTTACTTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTT
CGTTGCCTCTGTTTAGA
Found at i:4744447 original size:124 final size:121
Alignment explanation
Indices: 4744167--4744539 Score: 567
Period size: 124 Copynumber: 3.0 Consensus size: 121
4744157 TGATTGTCAG
*
4744167 GGAGTAATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTTCAAAGTCG
1 GGAGCAATTTACTTTTCAAAG-TCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTTCAAAGTCG
*
4744232 TGGTACCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTACCTCTGTTTAGA
65 TGGTACCTCTGTTTAGAGGAGCAATTTACTTTT-CAAAGTCGT-GTGCCTCTGTTTAGA
4744291 GGAGCAATTTACTTTTCAAAGTCCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTTCAAAGTCG
1 GGAGCAATTTACTTTTCAAAGT-CGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTTCAAAGTCG
4744356 TGGTACCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGT-TGCCTCTGTTTAGA
65 TGGTACCTCTGTTTAGAGGAGCAATTTACTTTTCAAAG-TCGTGTGCCTCTGTTTAGA
*
4744413 GGAGCAATTTACTTTTTCAAAGTCGTGGTACCTCTGTTTAGAGGAGCAATTTAC-TTTTCAAAGT
1 GGAGCAATTTAC-TTTTCAAAGTCGT--TGCCTCTGTTTAGAGGAGCAATTTACTTTTTCAAAG-
* * *
4744477 TCGT--TGCCTCTGTTTAGAGGAGCAATTTA-GTTCCAAAGTCGTGGTGCCTCTGTTTAGA
62 TCGTGGTACCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGT-GTGCCTCTGTTTAGA
4744535 GGAGC
1 GGAGC
4744540 TTTGGTTAAA
Statistics
Matches: 235, Mismatches: 6, Indels: 18
0.91 0.02 0.07
Matches are distributed among these distances:
120 4 0.02
121 7 0.03
122 71 0.30
123 25 0.11
124 128 0.54
ACGTcount: A:0.23, C:0.17, G:0.22, T:0.38
Consensus pattern (121 bp):
GGAGCAATTTACTTTTCAAAGTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTTCAAAGTCGT
GGTACCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGTGCCTCTGTTTAGA
Found at i:4744553 original size:1 final size:1
Alignment explanation
Indices: 4744547--4744648 Score: 87
Period size: 1 Copynumber: 102.0 Consensus size: 1
4744537 AGCTTTGGTT
* * * * * * *
4744547 AAAAAAACAAAAAAAAATAATAAAAACAAAAAAACAAAAAAAAAAAAAAAAAACAAAAAAAAACA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * * * *
4744612 ACAAAAAACAACAAAAAAAATACAAAAAAACAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
4744649 TGAAAATGTT
Statistics
Matches: 75, Mismatches: 26, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
1 75 1.00
ACGTcount: A:0.87, C:0.10, G:0.00, T:0.03
Consensus pattern (1 bp):
A
Found at i:4744562 original size:10 final size:10
Alignment explanation
Indices: 4744547--4744648 Score: 115
Period size: 10 Copynumber: 10.4 Consensus size: 10
4744537 AGCTTTGGTT
4744547 AAAAAAACAA
1 AAAAAAACAA
*
4744557 AAAAAAA-TA
1 AAAAAAACAA
*
4744566 ATAAAAAC--
1 AAAAAAACAA
4744574 AAAAAAACAA
1 AAAAAAACAA
4744584 AAAAAAA-AA
1 AAAAAAACAA
4744593 AAAAAAACAA
1 AAAAAAACAA
4744603 AAAAAAACAA
1 AAAAAAACAA
*
4744613 CAAAAAACAA
1 AAAAAAACAA
4744623 CAAAAAAA-ATA
1 -AAAAAAACA-A
4744634 CAAAAAAACAA
1 -AAAAAAACAA
4744645 AAAA
1 AAAA
4744649 TGAAAATGTT
Statistics
Matches: 80, Mismatches: 5, Indels: 14
0.81 0.05 0.14
Matches are distributed among these distances:
8 7 0.09
9 16 0.20
10 40 0.50
11 16 0.20
12 1 0.01
ACGTcount: A:0.87, C:0.10, G:0.00, T:0.03
Consensus pattern (10 bp):
AAAAAAACAA
Found at i:4744573 original size:19 final size:17
Alignment explanation
Indices: 4744547--4744648 Score: 109
Period size: 19 Copynumber: 5.8 Consensus size: 17
4744537 AGCTTTGGTT
4744547 AAAAAAACAAAAAAAAA
1 AAAAAAACAAAAAAAAA
4744564 TAATAAAAACAAAAAAACAA
1 -AA-AAAAACAAAAAAA-AA
4744584 AAAAAAA-AAAAAAAAA
1 AAAAAAACAAAAAAAAA
* * *
4744600 CAAAAAA-AAACAACAA
1 AAAAAAACAAAAAAAAA
*
4744616 AAAACAACAAAAAAAATA
1 AAAAAAACAAAAAAAA-A
4744634 CAAAAAAACAAAAAA
1 -AAAAAAACAAAAAA
4744649 TGAAAATGTT
Statistics
Matches: 71, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
16 20 0.28
17 13 0.18
18 8 0.11
19 28 0.39
20 2 0.03
ACGTcount: A:0.87, C:0.10, G:0.00, T:0.03
Consensus pattern (17 bp):
AAAAAAACAAAAAAAAA
Found at i:4744642 original size:32 final size:32
Alignment explanation
Indices: 4744548--4744648 Score: 132
Period size: 32 Copynumber: 3.1 Consensus size: 32
4744538 GCTTTGGTTA
*
4744548 AAAAAACAAAAAAAAATAATAAAAACAAAAAAAC
1 AAAAAACAAAAAAAAA-AATAAAAA-AAAACAAC
* *
4744582 AAAAAAAAAAAAAAAAAACAAAAAAAAACAAC
1 AAAAAACAAAAAAAAAAATAAAAAAAAACAAC
* *
4744614 AAAAAACAACAAAAAAAATACAAAAAAACAA-
1 AAAAAACAAAAAAAAAAATAAAAAAAAACAAC
4744645 AAAA
1 AAAA
4744649 TGAAAATGTT
Statistics
Matches: 60, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
31 4 0.07
32 34 0.57
33 7 0.12
34 15 0.25
ACGTcount: A:0.87, C:0.10, G:0.00, T:0.03
Consensus pattern (32 bp):
AAAAAACAAAAAAAAAAATAAAAAAAAACAAC
Found at i:4744932 original size:23 final size:22
Alignment explanation
Indices: 4744874--4744940 Score: 59
Period size: 23 Copynumber: 3.1 Consensus size: 22
4744864 ATATCTTCAT
* * *
4744874 TTTTTTATTTAGAT-TTATATG
1 TTTTTTATCTATATATTATATA
*
4744895 TATTTTATCTATATAGTTATATA
1 TTTTTTATCTATATA-TTATATA
4744918 TTTTTTAT-TATTATATTAT-TA
1 TTTTTTATCTA-TATATTATATA
4744939 TT
1 TT
4744941 ATTATTTTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
21 15 0.39
22 6 0.16
23 17 0.45
ACGTcount: A:0.28, C:0.01, G:0.04, T:0.66
Consensus pattern (22 bp):
TTTTTTATCTATATATTATATA
Found at i:4744933 original size:17 final size:17
Alignment explanation
Indices: 4744914--4744946 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
4744904 TATATAGTTA
4744914 TATATT-TT-TTATTAT
1 TATATTATTATTATTAT
4744929 TATATTATTATTATTAT
1 TATATTATTATTATTAT
4744946 T
1 T
4744947 TTTTTGTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
16 2 0.12
17 8 0.50
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (17 bp):
TATATTATTATTATTAT
Found at i:4745516 original size:20 final size:20
Alignment explanation
Indices: 4745489--4745538 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
4745479 GGCCCAGTTT
4745489 TCGACGAAGAATCCCAGAAA
1 TCGACGAAGAATCCCAGAAA
* * *
4745509 TCGGCGAATATTCCCAGAAA
1 TCGACGAAGAATCCCAGAAA
4745529 TCGACGAAGA
1 TCGACGAAGA
4745539 TTTAGGCCAG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.40, C:0.24, G:0.22, T:0.14
Consensus pattern (20 bp):
TCGACGAAGAATCCCAGAAA
Found at i:4754074 original size:2 final size:2
Alignment explanation
Indices: 4754067--4754091 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4754057 AGTTACAAAA
4754067 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
4754092 GCTTAGTGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4756699 original size:21 final size:21
Alignment explanation
Indices: 4756675--4756740 Score: 80
Period size: 21 Copynumber: 3.1 Consensus size: 21
4756665 ATAATAAAAG
4756675 TTTGGTAATTTATTATATAAT
1 TTTGGTAATTTATTATATAAT
* *
4756696 TTTGATAAATTT-TTATATTAT
1 TTTGGT-AATTTATTATATAAT
* *
4756717 TTTAGTAATTTATGATATAAT
1 TTTGGTAATTTATTATATAAT
4756738 TTT
1 TTT
4756741 AATAACCATT
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
20 5 0.14
21 27 0.73
22 5 0.14
ACGTcount: A:0.33, C:0.00, G:0.08, T:0.59
Consensus pattern (21 bp):
TTTGGTAATTTATTATATAAT
Found at i:4756741 original size:31 final size:29
Alignment explanation
Indices: 4756684--4756741 Score: 71
Period size: 31 Copynumber: 1.9 Consensus size: 29
4756674 GTTTGGTAAT
*
4756684 TTATTATATAATTTTGATAAATTTTTATA
1 TTATTATATAATTTTGATAAAATTTTATA
* *
4756713 TTATTTTAGTAATTTATGATATAATTTTA
1 TTATTATA-TAATTT-TGATAAAATTTTA
4756742 ATAACCATTG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 7 0.29
30 6 0.25
31 11 0.46
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (29 bp):
TTATTATATAATTTTGATAAAATTTTATA
Found at i:4756897 original size:21 final size:21
Alignment explanation
Indices: 4756825--4756897 Score: 74
Period size: 21 Copynumber: 3.5 Consensus size: 21
4756815 ATACAATTGA
*
4756825 GATAACTTATGATATAATTTT
1 GATAACTTTTGATATAATTTT
* * * * *
4756846 GGTGACATTGGATACAATTTT
1 GATAACTTTTGATATAATTTT
* *
4756867 GGTAAGTTTTGATATAATTTT
1 GATAACTTTTGATATAATTTT
4756888 GATAACTTTT
1 GATAACTTTT
4756898 AATAAAAATT
Statistics
Matches: 39, Mismatches: 13, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.32, C:0.05, G:0.16, T:0.47
Consensus pattern (21 bp):
GATAACTTTTGATATAATTTT
Found at i:4756937 original size:20 final size:20
Alignment explanation
Indices: 4756912--4757010 Score: 100
Period size: 20 Copynumber: 5.2 Consensus size: 20
4756902 AAAATTTAAT
4756912 TTTGATAACCTTTAATATAA
1 TTTGATAACCTTTAATATAA
* **
4756932 TTTGATAACCATTGTTATAA
1 TTTGATAACCTTTAATATAA
* *
4756952 GTTTGATAATCTTT--GAT-A
1 -TTTGATAACCTTTAATATAA
4756970 --TGATAACCTTTAATATAA
1 TTTGATAACCTTTAATATAA
*
4756988 TTTGATAACCTTTTATATAA
1 TTTGATAACCTTTAATATAA
4757008 TTT
1 TTT
4757011 TTATTTTAAA
Statistics
Matches: 64, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
15 10 0.16
17 2 0.03
18 2 0.03
19 2 0.03
20 37 0.58
21 11 0.17
ACGTcount: A:0.35, C:0.09, G:0.08, T:0.47
Consensus pattern (20 bp):
TTTGATAACCTTTAATATAA
Found at i:4757026 original size:103 final size:104
Alignment explanation
Indices: 4756878--4757072 Score: 306
Period size: 103 Copynumber: 1.9 Consensus size: 104
4756868 GTAAGTTTTG
*
4756878 ATATAATTTTGATAACTTTTAATAAAAATTTAATTTTGATAACCTTTAATATAATTTGATAACCA
1 ATATAATTTTGATAACTTTTAATAAAAATTTAATTTTAATAACCTTTAATATAATTTGATAACCA
4756943 TTGTTATAAGTTTGATAATCTTTGATATGATAACCTTTA
66 TTGTTATAAGTTTGATAATCTTTGATATGATAACCTTTA
* * * *
4756982 ATATAA-TTTGATAACCTTTT-ATATAATTTTTATTTTAA-ATACCTTTGATATAATTTGATAAC
1 ATATAATTTTGATAA-CTTTTAATAAAAATTTAATTTTAATA-ACCTTTAATATAATTTGATAAC
4757044 CATTGTTATAAGTTTGATAATCTTTGATA
64 CATTGTTATAAGTTTGATAATCTTTGATA
4757073 AAATTTTAGT
Statistics
Matches: 84, Mismatches: 5, Indels: 5
0.89 0.05 0.05
Matches are distributed among these distances:
102 1 0.01
103 72 0.86
104 11 0.13
ACGTcount: A:0.37, C:0.08, G:0.08, T:0.48
Consensus pattern (104 bp):
ATATAATTTTGATAACTTTTAATAAAAATTTAATTTTAATAACCTTTAATATAATTTGATAACCA
TTGTTATAAGTTTGATAATCTTTGATATGATAACCTTTA
Found at i:4757202 original size:21 final size:22
Alignment explanation
Indices: 4757168--4757218 Score: 79
Period size: 21 Copynumber: 2.4 Consensus size: 22
4757158 AATTGTGATA
4757168 ATAACTTATTAATATAATTTT-
1 ATAACTTATTAATATAATTTTG
4757189 AGTAACTT-TTAATATAATTTTG
1 A-TAACTTATTAATATAATTTTG
4757211 ATAACTTA
1 ATAACTTA
4757219 CGATATAATG
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
21 20 0.74
22 7 0.26
ACGTcount: A:0.41, C:0.06, G:0.04, T:0.49
Consensus pattern (22 bp):
ATAACTTATTAATATAATTTTG
Found at i:4757319 original size:21 final size:21
Alignment explanation
Indices: 4757288--4757338 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
4757278 TCTTGGATAC
*
4757288 AATTTTAATAAACTTTTATAT
1 AATTTTGATAAACTTTTATAT
* **
4757309 GATTTTGATAAGTTTTTATAT
1 AATTTTGATAAACTTTTATAT
*
4757330 AAATTTGAT
1 AATTTTGAT
4757339 TTTGATAACT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.37, C:0.02, G:0.08, T:0.53
Consensus pattern (21 bp):
AATTTTGATAAACTTTTATAT
Found at i:4757346 original size:27 final size:25
Alignment explanation
Indices: 4757308--4757363 Score: 76
Period size: 27 Copynumber: 2.2 Consensus size: 25
4757298 AACTTTTATA
* *
4757308 TGATTTTGATAAGTTTTTATATAAATT
1 TGATTTTGATAACTTTTGAT-T-AATT
4757335 TGATTTTGATAACTTTTGATTAATT
1 TGATTTTGATAACTTTTGATTAATT
4757360 TGAT
1 TGAT
4757364 AGCCTTTGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
25 8 0.30
26 1 0.04
27 18 0.67
ACGTcount: A:0.30, C:0.02, G:0.12, T:0.55
Consensus pattern (25 bp):
TGATTTTGATAACTTTTGATTAATT
Found at i:4757450 original size:21 final size:21
Alignment explanation
Indices: 4757337--4757456 Score: 99
Period size: 21 Copynumber: 5.8 Consensus size: 21
4757327 TATAAATTTG
*
4757337 ATTTTGATAACTTTTGAT-TA
1 ATTTTGATAACTTTTGATAAA
* * *
4757357 A-TTTGATAGCCTTTGTTAAA
1 ATTTTGATAACTTTTGATAAA
4757377 AGTTTT-ATAA-TTTTGTATAAA
1 A-TTTTGATAACTTTTG-ATAAA
*
4757398 ATTTTGATAA-TATTTGATACA
1 ATTTTGATAACT-TTTGATAAA
* *
4757419 ATTTAT-ATAACCTTTGATATA
1 ATTT-TGATAACTTTTGATAAA
4757440 ATTTTGATAACTTTTGA
1 ATTTTGATAACTTTTGA
4757457 AATTATTAAT
Statistics
Matches: 80, Mismatches: 11, Indels: 17
0.74 0.10 0.16
Matches are distributed among these distances:
19 13 0.16
20 12 0.15
21 47 0.59
22 8 0.10
ACGTcount: A:0.34, C:0.06, G:0.10, T:0.50
Consensus pattern (21 bp):
ATTTTGATAACTTTTGATAAA
Found at i:4757890 original size:5 final size:5
Alignment explanation
Indices: 4757880--4757912 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
4757870 TCAATTATTC
4757880 TTATA TTATA TTATA TTATA TTATA TTATA TTA
1 TTATA TTATA TTATA TTATA TTATA TTATA TTA
4757913 AGCAATTGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TTATA
Found at i:4762684 original size:24 final size:23
Alignment explanation
Indices: 4762655--4762719 Score: 78
Period size: 25 Copynumber: 2.7 Consensus size: 23
4762645 TAACATACCT
4762655 TAGTTTTATCAAACCATGAAAACC
1 TAGTTTTATCAAACCATGAAAA-C
4762679 TAGTTTTTAGT-AAACCATGAAAAC
1 TAG-TTTTA-TCAAACCATGAAAAC
*
4762703 TCAATTTTATCAAACCA
1 T-AGTTTTATCAAACCA
4762720 CAACCCAAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
23 1 0.03
24 16 0.44
25 18 0.50
26 1 0.03
ACGTcount: A:0.42, C:0.18, G:0.08, T:0.32
Consensus pattern (23 bp):
TAGTTTTATCAAACCATGAAAAC
Found at i:4763961 original size:35 final size:35
Alignment explanation
Indices: 4763915--4763982 Score: 136
Period size: 35 Copynumber: 1.9 Consensus size: 35
4763905 TTTTGAACCA
4763915 CATACTTTACTTTTATCTTCTCCCACCTAATATCT
1 CATACTTTACTTTTATCTTCTCCCACCTAATATCT
4763950 CATACTTTACTTTTATCTTCTCCCACCTAATAT
1 CATACTTTACTTTTATCTTCTCCCACCTAATAT
4763983 TTTTTCTCTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.24, C:0.31, G:0.00, T:0.46
Consensus pattern (35 bp):
CATACTTTACTTTTATCTTCTCCCACCTAATATCT
Found at i:4771301 original size:3 final size:3
Alignment explanation
Indices: 4771287--4771344 Score: 64
Period size: 3 Copynumber: 19.3 Consensus size: 3
4771277 CAAGATATTA
* * **
4771287 AAT AAT AGT AAT AAT AAT ACAT ATT AA- AAT AAT GGT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT
4771332 AAT AAT AAT AAT A
1 AAT AAT AAT AAT A
4771345 TTCGTATTAT
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
2 2 0.04
3 40 0.89
4 3 0.07
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:4771324 original size:27 final size:26
Alignment explanation
Indices: 4771281--4771344 Score: 87
Period size: 27 Copynumber: 2.5 Consensus size: 26
4771271 ACTATTCAAG
4771281 ATATTAAATAATAGTAATAATAATAC
1 ATATTAAATAATAGTAATAATAATAC
*
4771307 ATATTAAAATAATGGTAATAATAATA-
1 ATATT-AAATAATAGTAATAATAATAC
*
4771333 ATAAT-AATAATA
1 ATATTAAATAATA
4771345 TTCGTATTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
24 6 0.18
26 9 0.26
27 19 0.56
ACGTcount: A:0.59, C:0.02, G:0.05, T:0.34
Consensus pattern (26 bp):
ATATTAAATAATAGTAATAATAATAC
Found at i:4773571 original size:2 final size:2
Alignment explanation
Indices: 4773560--4773598 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
4773550 TGTTTACAAC
*
4773560 AT AT -T AT AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4773599 TGATTTCTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:4780014 original size:19 final size:19
Alignment explanation
Indices: 4779990--4780031 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
4779980 TTTTTAGACC
4779990 AAGGCTTGTCGAAGCAATG
1 AAGGCTTGTCGAAGCAATG
4780009 AAGGCTTGTCGAAGCAATG
1 AAGGCTTGTCGAAGCAATG
4780028 AAGG
1 AAGG
4780032 GGATTCCTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.33, C:0.14, G:0.33, T:0.19
Consensus pattern (19 bp):
AAGGCTTGTCGAAGCAATG
Found at i:4787051 original size:17 final size:20
Alignment explanation
Indices: 4787009--4787052 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
4786999 ATTTTAGTTA
4787009 TATTATTTTTAATAAAATTT
1 TATTATTTTTAATAAAATTT
* *
4787029 TATTATTTTTAATATATTTT
1 TATTATTTTTAATAAAATTT
4787049 TATT
1 TATT
4787053 GTATTAATTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (20 bp):
TATTATTTTTAATAAAATTT
Found at i:4789348 original size:107 final size:108
Alignment explanation
Indices: 4789216--4789428 Score: 338
Period size: 107 Copynumber: 2.0 Consensus size: 108
4789206 GTGTGAACTC
* * *
4789216 TAAAAGTATTAAAAGTGAATGACATAAATACCCTTATAAATTTTAAAAAATAACAAATTTACGTT
1 TAAAAGTATTAAAAATGAATAACATAAATACCCTTATAAATTTTAAAAAATAACAAATTTACATT
*
4789281 TAAATTTCTAGCATT-TTTATTTATTTAATAAAGATTATTTTT
66 GAAATTTCTAGCATTATTTATTTATTTAATAAAGATTATTTTT
* * *
4789323 TAAAAGTGTTAAAAATGAATAACATAATTACCCTTATAAATTTTAAAAAATAACAAATTTATATT
1 TAAAAGTATTAAAAATGAATAACATAAATACCCTTATAAATTTTAAAAAATAACAAATTTACATT
* *
4789388 GCAATTTCTAGCATTATTTATTTATTTAATAATGATTATTT
66 GAAATTTCTAGCATTATTTATTTATTTAATAAAGATTATTT
4789429 ATCATTAAAT
Statistics
Matches: 96, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
107 72 0.75
108 24 0.25
ACGTcount: A:0.44, C:0.08, G:0.06, T:0.42
Consensus pattern (108 bp):
TAAAAGTATTAAAAATGAATAACATAAATACCCTTATAAATTTTAAAAAATAACAAATTTACATT
GAAATTTCTAGCATTATTTATTTATTTAATAAAGATTATTTTT
Found at i:4789971 original size:23 final size:24
Alignment explanation
Indices: 4789924--4789975 Score: 65
Period size: 23 Copynumber: 2.2 Consensus size: 24
4789914 ATTTTAGATT
*
4789924 AATTA-AAATTAAAGTTCATACAA
1 AATTATAAATTAAAGTTCATAAAA
4789947 AATTATAAATTAAA-TT-ATCAAAA
1 AATTATAAATTAAAGTTCAT-AAAA
4789970 AATTAT
1 AATTAT
4789976 TAAAAAAGAG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
22 2 0.08
23 16 0.62
24 8 0.31
ACGTcount: A:0.58, C:0.06, G:0.02, T:0.35
Consensus pattern (24 bp):
AATTATAAATTAAAGTTCATAAAA
Found at i:4792437 original size:22 final size:22
Alignment explanation
Indices: 4792412--4792459 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
4792402 AATTTAGACA
*
4792412 AAATCAGTAATAACTT-TATATT
1 AAATCAATAATAA-TTATATATT
*
4792434 AAATCAATGATAATTATATATT
1 AAATCAATAATAATTATATATT
4792456 AAAT
1 AAAT
4792460 TATGGATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 2 0.09
22 21 0.91
ACGTcount: A:0.50, C:0.06, G:0.04, T:0.40
Consensus pattern (22 bp):
AAATCAATAATAATTATATATT
Found at i:4792467 original size:22 final size:20
Alignment explanation
Indices: 4792421--4792483 Score: 63
Period size: 22 Copynumber: 2.9 Consensus size: 20
4792411 AAAATCAGTA
*
4792421 ATAACTTTATATTAAATCAATG
1 ATAA-TTTATATTAAAT-TATG
4792443 ATAATTATATATTAAATTATGG
1 ATAATT-TATATTAAATTAT-G
*
4792465 ATAATTTAATAGTAAATTA
1 ATAATTT-ATATTAAATTA
4792484 ATAATAACAT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
21 5 0.14
22 31 0.86
ACGTcount: A:0.48, C:0.03, G:0.06, T:0.43
Consensus pattern (20 bp):
ATAATTTATATTAAATTATG
Found at i:4792490 original size:22 final size:22
Alignment explanation
Indices: 4792465--4792742 Score: 110
Period size: 22 Copynumber: 12.8 Consensus size: 22
4792455 TAAATTATGG
4792465 ATAATTTAATAGTAAATTAATA
1 ATAATTTAATAGTAAATTAATA
** *
4792487 ATAACATAATAGTAAATAAATA
1 ATAATTTAATAGTAAATTAATA
* *
4792509 ATAATTT-GTAGTAAA-TAATTG
1 ATAATTTAATAGTAAATTAA-TA
** * * *
4792530 ATAAGATAGTTGTATGCAATTGATA
1 ATAATTTAATAGTA---AATTAATA
* *
4792555 A-CA--TAATAATAAA-TACATA
1 ATAATTTAATAGTAAATTA-ATA
* *
4792574 ATAATATAATAGTAAA-TAACAA
1 ATAATTTAATAGTAAATTAA-TA
* * * * *
4792596 ATAACTTAATATTAAATCATTT
1 ATAATTTAATAGTAAATTAATA
* * *
4792618 AT-ATATAATTGTAAA-TACAAA
1 ATAATTTAATAGTAAATTA-ATA
* * * **
4792639 AAAATATAGTAGTAAATTAAGG
1 ATAATTTAATAGTAAATTAATA
*
4792661 ATAATTTAATA--AAAATAAGTA
1 ATAATTTAATAGTAAATTAA-TA
* *
4792682 ATAACTTAATAGTAAATTAATG
1 ATAATTTAATAGTAAATTAATA
* * *
4792704 ATAACTTAGTAATAAATTAATA
1 ATAATTTAATAGTAAATTAATA
4792726 ATAATTTAATAGTAAAT
1 ATAATTTAATAGTAAAT
4792743 AAGATTCAGT
Statistics
Matches: 182, Mismatches: 56, Indels: 36
0.66 0.20 0.13
Matches are distributed among these distances:
18 1 0.01
19 6 0.03
20 10 0.05
21 34 0.19
22 115 0.63
23 9 0.05
24 1 0.01
25 4 0.02
26 2 0.01
ACGTcount: A:0.54, C:0.04, G:0.08, T:0.35
Consensus pattern (22 bp):
ATAATTTAATAGTAAATTAATA
Found at i:4792524 original size:65 final size:66
Alignment explanation
Indices: 4792412--4792742 Score: 187
Period size: 65 Copynumber: 5.1 Consensus size: 66
4792402 AATTTAGACA
* * * * * * *
4792412 AAATC-AGTAATAACTTTATATTAAATCAATGATAATTATATATTAAATTATGGATAATTTAATA
1 AAATCAAGTAATAACATAATAGTAAATAAATAATAATTA-GTAGTAAATTATGGATAATTTAATA
4792476 GT
65 GT
* * * * ** * *
4792478 AAATTAA-TAATAACATAATAGTAAATAAATAATAATTTGTAGTAAATAATTGATAAGATAGTTG
1 AAATCAAGTAATAACATAATAGTAAATAAATAATAATTAGTAGTAAATTATGGATAATTTAATAG
4792542 T
66 T
* * * * * * *** *
4792543 --ATGCAATTGATAACATAATAATAAATACATAATAATATAATAGTAAATAACAAATAACTTAAT
1 AAAT-CAAGTAATAACATAATAGTAAATAAATAATAAT-TAGTAGTAAATTATGGATAATTTAAT
*
4792606 ATT
64 AGT
* * * * * *
4792609 AAATC-ATTTAT-ATATAATTGTAAATACAA-AAAAATATAGTAGTAAATTAAGGATAATTTAAT
1 AAATCAAGTAATAACATAATAGTAAATA-AATAATAAT-TAGTAGTAAATTATGGATAATTTAAT
*
4792671 A-A
64 AGT
* * * * *
4792673 AAAT-AAGTAATAACTTAATAGTAAATTAATGATAACTTAGTAATAAATTAAT-AATAATTTAAT
1 AAATCAAGTAATAACATAATAGTAAATAAATAATAA-TTAGTAGTAAATT-ATGGATAATTTAAT
4792736 AGT
64 AGT
4792739 AAAT
1 AAAT
4792743 AAGATTCAGT
Statistics
Matches: 198, Mismatches: 54, Indels: 26
0.71 0.19 0.09
Matches are distributed among these distances:
63 2 0.01
64 12 0.06
65 120 0.61
66 60 0.30
67 2 0.01
68 2 0.01
ACGTcount: A:0.53, C:0.04, G:0.08, T:0.36
Consensus pattern (66 bp):
AAATCAAGTAATAACATAATAGTAAATAAATAATAATTAGTAGTAAATTATGGATAATTTAATAG
T
Found at i:4792574 original size:14 final size:15
Alignment explanation
Indices: 4792555--4792584 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
4792545 GCAATTGATA
4792555 ACATAATAATA-AAT
1 ACATAATAATATAAT
4792569 ACATAATAATATAAT
1 ACATAATAATATAAT
4792584 A
1 A
4792585 GTAAATAACA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (15 bp):
ACATAATAATATAAT
Found at i:4792630 original size:87 final size:87
Alignment explanation
Indices: 4792471--4792630 Score: 191
Period size: 87 Copynumber: 1.8 Consensus size: 87
4792461 ATGGATAATT
* **
4792471 TAATAGTAAATTAATAATAACATAATAGTAAATAAATAATAATTTGTAGTAAATAATTGATAAGA
1 TAATAATAAATTAATAATAACATAATAGTAAATAAATAATAATTAATAGTAAATAATTGATAAGA
*
4792536 TAGTTGTATGCAATTGATAACA
66 TAATTGTATGCAATTGATAACA
* * * *
4792558 TAATAATAAA-TACATAATAATATAATAGTAAATAACA-AATAACTTAATATTAAATCATTTAT-
1 TAATAATAAATTA-ATAATAACATAATAGTAAATAA-ATAATAA-TTAATAGTAAATAATTGATA
*
4792620 ATATAATTGTA
63 AGATAATTGTA
4792631 AATACAAAAA
Statistics
Matches: 61, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
86 2 0.03
87 44 0.72
88 15 0.25
ACGTcount: A:0.53, C:0.04, G:0.07, T:0.36
Consensus pattern (87 bp):
TAATAATAAATTAATAATAACATAATAGTAAATAAATAATAATTAATAGTAAATAATTGATAAGA
TAATTGTATGCAATTGATAACA
Found at i:4792718 original size:11 final size:11
Alignment explanation
Indices: 4792651--4792742 Score: 71
Period size: 11 Copynumber: 8.5 Consensus size: 11
4792641 AATATAGTAG
**
4792651 TAAATTAAGGA
1 TAAATTAATAA
*
4792662 TAATTTAATAA
1 TAAATTAATAA
4792673 -AAA-TAAGTAA
1 TAAATTAA-TAA
* *
4792683 TAACTTAATAG
1 TAAATTAATAA
*
4792694 TAAATTAATGA
1 TAAATTAATAA
* *
4792705 TAACTTAGTAA
1 TAAATTAATAA
4792716 TAAATTAATAA
1 TAAATTAATAA
* *
4792727 TAATTTAATAG
1 TAAATTAATAA
4792738 TAAAT
1 TAAAT
4792743 AAGATTCAGT
Statistics
Matches: 61, Mismatches: 17, Indels: 6
0.73 0.20 0.07
Matches are distributed among these distances:
9 3 0.05
10 5 0.08
11 50 0.82
12 3 0.05
ACGTcount: A:0.54, C:0.02, G:0.08, T:0.36
Consensus pattern (11 bp):
TAAATTAATAA
Found at i:4796396 original size:22 final size:22
Alignment explanation
Indices: 4796354--4796402 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
4796344 CAATAGTAAT
4796354 ATAATAGTAAATACATAATAAC
1 ATAATAGTAAATACATAATAAC
* *
4796376 TTAATAGTAAAT-CAGTTATAAC
1 ATAATAGTAAATACA-TAATAAC
4796398 ATAAT
1 ATAAT
4796403 TATAACATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 2 0.09
22 21 0.91
ACGTcount: A:0.53, C:0.08, G:0.06, T:0.33
Consensus pattern (22 bp):
ATAATAGTAAATACATAATAAC
Found at i:4796430 original size:33 final size:33
Alignment explanation
Indices: 4796371--4796435 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 33
4796361 TAAATACATA
* * *
4796371 ATAACTTAATAGTAAATCAGTTATAACATAATT
1 ATAACATAATAGTAAATCAATGATAACATAATT
* *
4796404 ATAACATATTAGTAAATCAATGATAACTTAAT
1 ATAACATAATAGTAAATCAATGATAACATAAT
4796436 AAAAAAATAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.49, C:0.09, G:0.06, T:0.35
Consensus pattern (33 bp):
ATAACATAATAGTAAATCAATGATAACATAATT
Found at i:4796498 original size:22 final size:22
Alignment explanation
Indices: 4796470--4796525 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
4796460 TATTGATAAT
4796470 TTAGTAGTAAATCAATGAAAAC
1 TTAGTAGTAAATCAATGAAAAC
* * * *
4796492 TTAGTAGTAAGTTACTGATAAC
1 TTAGTAGTAAATCAATGAAAAC
*
4796514 TTAATAGTAAAT
1 TTAGTAGTAAAT
4796526 TTGTTTTAGT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.45, C:0.07, G:0.14, T:0.34
Consensus pattern (22 bp):
TTAGTAGTAAATCAATGAAAAC
Found at i:4796670 original size:43 final size:44
Alignment explanation
Indices: 4796605--4796710 Score: 135
Period size: 43 Copynumber: 2.4 Consensus size: 44
4796595 AACTTAGCAA
* *
4796605 TAAATCAATGATAATTTAGTAGTTAAGCACTAA-AA-CTCTATAG
1 TAAATCATTGATAATTTAGTAGTAAAGCACTAATAATCTC-ATAG
* * *
4796648 TAAATCATTGATAATTTTGTAGTAAATCACTAATAATGTCATAG
1 TAAATCATTGATAATTTAGTAGTAAAGCACTAATAATCTCATAG
*
4796692 TAAATCATTGATAACTTAG
1 TAAATCATTGATAATTTAG
4796711 CTATAAATTA
Statistics
Matches: 54, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
43 29 0.54
44 23 0.43
45 2 0.04
ACGTcount: A:0.42, C:0.10, G:0.11, T:0.36
Consensus pattern (44 bp):
TAAATCATTGATAATTTAGTAGTAAAGCACTAATAATCTCATAG
Found at i:4796671 original size:22 final size:22
Alignment explanation
Indices: 4796644--4796705 Score: 79
Period size: 22 Copynumber: 2.8 Consensus size: 22
4796634 CTAAAACTCT
* *
4796644 ATAGTAAATCATTGATAATTTT
1 ATAGTAAATCATTGATAATGTC
* * *
4796666 GTAGTAAATCACTAATAATGTC
1 ATAGTAAATCATTGATAATGTC
4796688 ATAGTAAATCATTGATAA
1 ATAGTAAATCATTGATAA
4796706 CTTAGCTATA
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.44, C:0.08, G:0.11, T:0.37
Consensus pattern (22 bp):
ATAGTAAATCATTGATAATGTC
Found at i:4796717 original size:22 final size:22
Alignment explanation
Indices: 4796692--4796749 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
4796682 AATGTCATAG
*
4796692 TAAATCATTGATAACTTAGCTA
1 TAAATCAATGATAACTTAGCTA
* * *
4796714 TAAATTAATGATAATTTAGTTA
1 TAAATCAATGATAACTTAGCTA
* *
4796736 TAAATTAATAATAA
1 TAAATCAATGATAA
4796750 TTTAATTGTA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.48, C:0.05, G:0.07, T:0.40
Consensus pattern (22 bp):
TAAATCAATGATAACTTAGCTA
Found at i:4796728 original size:44 final size:44
Alignment explanation
Indices: 4796605--4796728 Score: 110
Period size: 44 Copynumber: 2.8 Consensus size: 44
4796595 AACTTAGCAA
* * * * * *
4796605 TAAATCAATGATAATTTAGTAGTTAAGCACTAA-AA-CTCTATAG
1 TAAATCATTGATAACTTAGTAGTAAATCAATAATAATGTC-ATAG
* * *
4796648 TAAATCATTGATAATTTTGTAGTAAATCACTAATAATGTCATAG
1 TAAATCATTGATAACTTAGTAGTAAATCAATAATAATGTCATAG
* *
4796692 TAAATCATTGATAACTTAGCTA-TAAATTAATGATAAT
1 TAAATCATTGATAACTTAG-TAGTAAATCAATAATAAT
4796729 TTAGTTATAA
Statistics
Matches: 68, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
43 29 0.43
44 35 0.51
45 4 0.06
ACGTcount: A:0.44, C:0.10, G:0.10, T:0.36
Consensus pattern (44 bp):
TAAATCATTGATAACTTAGTAGTAAATCAATAATAATGTCATAG
Found at i:4796750 original size:22 final size:22
Alignment explanation
Indices: 4796702--4796764 Score: 81
Period size: 22 Copynumber: 2.9 Consensus size: 22
4796692 TAAATCATTG
* * *
4796702 ATAACTTAGCTATAAATTAATG
1 ATAATTTAGTTATAAATTAATA
4796724 ATAATTTAGTTATAAATTAATA
1 ATAATTTAGTTATAAATTAATA
* *
4796746 ATAATTTAATTGTAAATTA
1 ATAATTTAGTTATAAATTA
4796765 GTTAATTATT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.48, C:0.03, G:0.06, T:0.43
Consensus pattern (22 bp):
ATAATTTAGTTATAAATTAATA
Found at i:4796788 original size:22 final size:22
Alignment explanation
Indices: 4796763--4796902 Score: 147
Period size: 22 Copynumber: 6.4 Consensus size: 22
4796753 AATTGTAAAT
* *
4796763 TAGTTAATTATTAATAACTTCA
1 TAGTAAATTATTAATAACTTAA
* * *
4796785 TAGTAAATCATCAATAACTTCA
1 TAGTAAATTATTAATAACTTAA
* *
4796807 TAGTAAATTAATAATAACTTTA
1 TAGTAAATTATTAATAACTTAA
*
4796829 TAATAAATTATCT-ATAACTTAA
1 TAGTAAATTAT-TAATAACTTAA
* * *
4796851 TAGTAAATTATCAAAAACTTAG
1 TAGTAAATTATTAATAACTTAA
* *
4796873 TAGTAAATCATTTATAACTTAA
1 TAGTAAATTATTAATAACTTAA
4796895 TAGTAAAT
1 TAGTAAAT
4796903 CATCTATGAC
Statistics
Matches: 97, Mismatches: 19, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
22 96 0.99
23 1 0.01
ACGTcount: A:0.47, C:0.09, G:0.05, T:0.39
Consensus pattern (22 bp):
TAGTAAATTATTAATAACTTAA
Found at i:4796835 original size:96 final size:95
Alignment explanation
Indices: 4796678--4796860 Score: 221
Period size: 96 Copynumber: 1.9 Consensus size: 95
4796668 AGTAAATCAC
** * *
4796678 TAATAATGTCATAGTAAATCATTGATAACTTAGCTATAAATTAATGATAATTTAGTTATAAATTA
1 TAATAATGTCATAGTAAATCATCAATAACTTA-CTATAAATTAATAATAATTTAGTAATAAATT-
* *
4796743 AT-AATAATTTAATTGTAAATTAGTTAATTAT
64 ATCAATAACTTAATAGTAAATTAGTTAATTAT
4796774 TAATAACT-TCATAGTAAATCATCAATAACTT-CATAGTAAATTAATAATAACTTTA-TAATAAA
1 TAATAA-TGTCATAGTAAATCATCAATAACTTAC-TA-TAAATTAATAATAA-TTTAGTAATAAA
*
4796836 TTATCTATAACTTAATAGTAAATTA
62 TTATCAATAACTTAATAGTAAATTA
4796861 TCAAAAACTT
Statistics
Matches: 75, Mismatches: 7, Indels: 10
0.82 0.08 0.11
Matches are distributed among these distances:
94 1 0.01
95 4 0.05
96 65 0.87
97 5 0.07
ACGTcount: A:0.46, C:0.07, G:0.06, T:0.40
Consensus pattern (95 bp):
TAATAATGTCATAGTAAATCATCAATAACTTACTATAAATTAATAATAATTTAGTAATAAATTAT
CAATAACTTAATAGTAAATTAGTTAATTAT
Found at i:4796836 original size:44 final size:44
Alignment explanation
Indices: 4796763--4796902 Score: 167
Period size: 44 Copynumber: 3.2 Consensus size: 44
4796753 AATTGTAAAT
* * * * *
4796763 TAGTTAATTATTAATAACTTCATAGTAAATCATCAATAACTTCA
1 TAGTAAATTAATAATAACTTTATAGTAAATCATCTATAACTTAA
* *
4796807 TAGTAAATTAATAATAACTTTATAATAAATTATCTATAACTTAA
1 TAGTAAATTAATAATAACTTTATAGTAAATCATCTATAACTTAA
* *
4796851 TAGTAAATT-ATCAAAAAC-TTAGTAGTAAATCATTTATAACTTAA
1 TAGTAAATTAAT-AATAACTTTA-TAGTAAATCATCTATAACTTAA
4796895 TAGTAAAT
1 TAGTAAAT
4796903 CATCTATGAC
Statistics
Matches: 83, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
43 5 0.06
44 78 0.94
ACGTcount: A:0.47, C:0.09, G:0.05, T:0.39
Consensus pattern (44 bp):
TAGTAAATTAATAATAACTTTATAGTAAATCATCTATAACTTAA
Found at i:4796923 original size:22 final size:22
Alignment explanation
Indices: 4796776--4796948 Score: 115
Period size: 22 Copynumber: 7.9 Consensus size: 22
4796766 TTAATTATTA
*
4796776 ATAACTTCA-TAGTAAATCATCA
1 ATAACTT-AGTAGTAAATCATCT
* *
4796798 ATAACTTCA-TAGTAAATTAAT-A
1 ATAACTT-AGTAGTAAA-TCATCT
* *
4796820 ATAACTTTA-TAATAAATTATCT
1 ATAAC-TTAGTAGTAAATCATCT
* * *
4796842 ATAACTTAATAGTAAATTATCA
1 ATAACTTAGTAGTAAATCATCT
* *
4796864 AAAACTTAGTAGTAAATCATTT
1 ATAACTTAGTAGTAAATCATCT
*
4796886 ATAACTTAATAGTAAATCATCT
1 ATAACTTAGTAGTAAATCATCT
* * *
4796908 ATGACTTAGT-GATAAATTGAT-G
1 ATAACTTAGTAG-TAAA-TCATCT
*
4796930 ATAATTTAGTAGTAAATCA
1 ATAACTTAGTAGTAAATCA
4796949 ATGATAAAAT
Statistics
Matches: 123, Mismatches: 21, Indels: 15
0.77 0.13 0.09
Matches are distributed among these distances:
21 9 0.07
22 105 0.85
23 9 0.07
ACGTcount: A:0.46, C:0.10, G:0.08, T:0.37
Consensus pattern (22 bp):
ATAACTTAGTAGTAAATCATCT
Found at i:4796924 original size:66 final size:66
Alignment explanation
Indices: 4796776--4796955 Score: 186
Period size: 66 Copynumber: 2.7 Consensus size: 66
4796766 TTAATTATTA
* * * * *
4796776 ATAACTTCATAGTAAATCATCAATAACTTCA-TAGTAAATTAATAATAACTTTATAATAAATTAT
1 ATAACTTAATAGTAAATTATCAATAACTT-AGTAGTAAATCAATAATAACTTAATAATAAATCAT
4796840 CT
65 CT
* * * *
4796842 ATAACTTAATAGTAAATTATCAAAAACTTAGTAGTAAATCATTTATAACTTAATAGTAAATCATC
1 ATAACTTAATAGTAAATTATCAATAACTTAGTAGTAAATCAATAATAACTTAATAATAAATCATC
4796907 T
66 T
* * * * *
4796908 ATGACTTAGT-GATAAATTGAT-GATAATTTAGTAGTAAATCAATGATAA
1 ATAACTTAATAG-TAAATT-ATCAATAACTTAGTAGTAAATCAATAATAA
4796956 AATAGTAATA
Statistics
Matches: 95, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
65 2 0.02
66 91 0.96
67 2 0.02
ACGTcount: A:0.46, C:0.09, G:0.08, T:0.37
Consensus pattern (66 bp):
ATAACTTAATAGTAAATTATCAATAACTTAGTAGTAAATCAATAATAACTTAATAATAAATCATC
T
Found at i:4797269 original size:22 final size:23
Alignment explanation
Indices: 4797223--4797275 Score: 81
Period size: 23 Copynumber: 2.3 Consensus size: 23
4797213 TAAATCATAA
* *
4797223 ATAACTTAGTATTAATTGAATTG
1 ATAACTTAGTAATAAATGAATTG
4797246 ATAACTTAGTAATAAAT-AATTG
1 ATAACTTAGTAATAAATGAATTG
4797268 ATAACTTA
1 ATAACTTA
4797276 ATAGCTAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
22 13 0.46
23 15 0.54
ACGTcount: A:0.45, C:0.06, G:0.09, T:0.40
Consensus pattern (23 bp):
ATAACTTAGTAATAAATGAATTG
Found at i:4797463 original size:22 final size:22
Alignment explanation
Indices: 4797455--4797606 Score: 146
Period size: 22 Copynumber: 7.0 Consensus size: 22
4797445 CATAATTTTG
*
4797455 TAGTAAATCATTGATAACTTCA
1 TAGTAAATCATTGATAACTTAA
* * *
4797477 TAGAAAATTAGTT-ATAACTTTA
1 TAGTAAATCA-TTGATAACTTAA
* * * *
4797499 TAATAAATTATTAATAACTTAG
1 TAGTAAATCATTGATAACTTAA
*
4797521 TAGTAAATCATTCATAA-TTAA
1 TAGTAAATCATTGATAACTTAA
*
4797542 TAGTAAATCATTGATAATTTAA
1 TAGTAAATCATTGATAACTTAA
* * *
4797564 TAATAAATCATTGATAACATAG
1 TAGTAAATCATTGATAACTTAA
* *
4797586 TAATAAATCAATGATAACTTA
1 TAGTAAATCATTGATAACTTA
4797607 GTTATCAATC
Statistics
Matches: 109, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
21 21 0.19
22 86 0.79
23 2 0.02
ACGTcount: A:0.47, C:0.08, G:0.07, T:0.38
Consensus pattern (22 bp):
TAGTAAATCATTGATAACTTAA
Found at i:4797581 original size:65 final size:66
Alignment explanation
Indices: 4797438--4797606 Score: 182
Period size: 65 Copynumber: 2.6 Consensus size: 66
4797428 TAAATTAGTC
* * * * * *
4797438 AATCATTCATAATTTTGTAGTAAATCATTGATAACTTCATAGAAAATTAGTTATAACTTTATAAT
1 AATCATTAATAACTTAGTAGTAAATCATTCATAACTTAATAGAAAATCAGTTATAACTTTATAAT
4797503 A
66 A
* *
4797504 AATTATTAATAACTTAGTAGTAAATCATTCATAA-TTAATAGTAAATCA-TTGATAA-TTTAATA
1 AATCATTAATAACTTAGTAGTAAATCATTCATAACTTAATAGAAAATCAGTT-ATAACTTT-ATA
4797566 ATA
64 ATA
* * * * *
4797569 AATCATTGATAACATAGTAATAAATCAATGATAACTTA
1 AATCATTAATAACTTAGTAGTAAATCATTCATAACTTA
4797607 GTTATCAATC
Statistics
Matches: 86, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
64 5 0.06
65 49 0.57
66 32 0.37
ACGTcount: A:0.46, C:0.08, G:0.07, T:0.38
Consensus pattern (66 bp):
AATCATTAATAACTTAGTAGTAAATCATTCATAACTTAATAGAAAATCAGTTATAACTTTATAAT
A
Done.