Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002322.1 Hibiscus syriacus cultivar Beakdansim tig00004732_pilon, 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: 168257
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
File 1 of 2
Found at i:465 original size:16 final size:16
Alignment explanation
Indices: 440--472 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
430 TCGTACGCCG
*
440 ACGAATTTCACTATTC
1 ACGAAATTCACTATTC
456 ACGAAATTCACTATTC
1 ACGAAATTCACTATTC
472 A
1 A
473 TGTGAATAAT
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:0.36, C:0.24, G:0.06, T:0.33
Consensus pattern (16 bp):
ACGAAATTCACTATTC
Found at i:951 original size:22 final size:23
Alignment explanation
Indices: 913--955 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
903 CCGAATTGTG
913 CCCCCCTTTGTTGAAAAATCATT
1 CCCCCCTTTGTTGAAAAATCATT
936 CCCCCCTTTGTT-AAAAATCA
1 CCCCCCTTTGTTGAAAAATCA
956 CCCGCCGGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.28, C:0.33, G:0.07, T:0.33
Consensus pattern (23 bp):
CCCCCCTTTGTTGAAAAATCATT
Found at i:13051 original size:20 final size:20
Alignment explanation
Indices: 13026--13082 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 20
13016 TTTGTCCGGG
13026 TTATAAATATTATATTAAAA
1 TTATAAATATTATATTAAAA
* **
13046 TTAT-AATTTTATTATTATTA
1 TTATAAATATTA-TATTAAAA
*
13066 TTATAACTATTATATTA
1 TTATAAATATTATATTA
13083 TAATACATTA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
19 6 0.20
20 19 0.63
21 5 0.17
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (20 bp):
TTATAAATATTATATTAAAA
Found at i:13062 original size:3 final size:3
Alignment explanation
Indices: 13045--13122 Score: 79
Period size: 3 Copynumber: 26.3 Consensus size: 3
13035 TTATATTAAA
* * * * *
13045 ATT ATA ATT -TT ATT ATT ATT ATT ATA ACT ATT A-T ATT ATA ATAC
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T
*
13089 ATT ATT ATT ATT ATT ATT ATT ATT ACT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
13123 ATGTTACATA
Statistics
Matches: 61, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
2 4 0.07
3 55 0.90
4 2 0.03
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (3 bp):
ATT
Found at i:14484 original size:16 final size:16
Alignment explanation
Indices: 14463--14494 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
14453 ATAGGTTATA
14463 ATGTAATTATAAAAAT
1 ATGTAATTATAAAAAT
14479 ATGTAATTATAAAAAT
1 ATGTAATTATAAAAAT
14495 GTAATTGCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (16 bp):
ATGTAATTATAAAAAT
Found at i:14498 original size:14 final size:15
Alignment explanation
Indices: 14462--14500 Score: 62
Period size: 16 Copynumber: 2.6 Consensus size: 15
14452 AATAGGTTAT
14462 AATGTAATTATAAAA
1 AATGTAATTATAAAA
14477 ATATGTAATTAT-AAA
1 A-ATGTAATTATAAAA
14492 AATGTAATT
1 AATGTAATT
14501 GCAATTCTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 8 0.35
15 5 0.22
16 10 0.43
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (15 bp):
AATGTAATTATAAAA
Found at i:16469 original size:55 final size:54
Alignment explanation
Indices: 16385--16526 Score: 212
Period size: 55 Copynumber: 2.6 Consensus size: 54
16375 ACATTCAAGT
* *
16385 GATTCATGAAGAATGACGTCCGATGAATGAAGAAATTTGAACCTGATTGAAGAAC
1 GATTCATGAAG-ATGACATCCGATGAATGAAGAAATTTGAAACTGATTGAAGAAC
*
16440 GATTCATGAAGATGGACATCCGATGAATGAAGAAATTTGAAACTGATTGAAGACC
1 GATTCATGAAGAT-GACATCCGATGAATGAAGAAATTTGAAACTGATTGAAGAAC
* *
16495 GATCCATGAAGAAAGACATCCGATGAATGAAG
1 GATTCATGAAG-ATGACATCCGATGAATGAAG
16527 TTTGAAGTTG
Statistics
Matches: 80, Mismatches: 5, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
54 2 0.03
55 77 0.96
56 1 0.01
ACGTcount: A:0.41, C:0.13, G:0.24, T:0.22
Consensus pattern (54 bp):
GATTCATGAAGATGACATCCGATGAATGAAGAAATTTGAAACTGATTGAAGAAC
Found at i:19207 original size:28 final size:28
Alignment explanation
Indices: 19167--19224 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 28
19157 TGACATCACG
* *
19167 AAGAAAAGAAAGAATG-TAGAAAGAGAAA
1 AAGAAAAGAAAG-ATGAAAAAAAGAGAAA
19195 AAGAAAAGAAAGATGAAAAAAAGAGAAA
1 AAGAAAAGAAAGATGAAAAAAAGAGAAA
19223 AA
1 AA
19225 AATTGGAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
27 3 0.11
28 24 0.89
ACGTcount: A:0.72, C:0.00, G:0.22, T:0.05
Consensus pattern (28 bp):
AAGAAAAGAAAGATGAAAAAAAGAGAAA
Found at i:25451 original size:22 final size:21
Alignment explanation
Indices: 25399--25452 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 21
25389 CCAAAATAAT
* *
25399 AAAAAAATATTATTTTTATTC
1 AAAAAAATATGATTTTAATTC
*
25420 AATAAAAATATGATTTTAATTG
1 AA-AAAAATATGATTTTAATTC
25442 AAAAATAATAT
1 AAAAA-AATAT
25453 ATAGAGGGGG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 5 0.18
22 23 0.82
ACGTcount: A:0.54, C:0.02, G:0.04, T:0.41
Consensus pattern (21 bp):
AAAAAAATATGATTTTAATTC
Found at i:26145 original size:12 final size:12
Alignment explanation
Indices: 26104--26146 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
26094 TAAAGTGATG
26104 TAAAATTTATTT
1 TAAAATTTATTT
* *
26116 TTAAATTCTTTTT
1 TAAAATT-TATTT
26129 ATAAAATTTATTT
1 -TAAAATTTATTT
26142 TAAAA
1 TAAAA
26147 AAAAATCATA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
12 11 0.44
13 8 0.32
14 6 0.24
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (12 bp):
TAAAATTTATTT
Found at i:26750 original size:19 final size:19
Alignment explanation
Indices: 26726--26765 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
26716 CAAGCCCCTG
26726 CCAGCCCCGTTGTCCTGGT
1 CCAGCCCCGTTGTCCTGGT
26745 CCAGCCCCGTTGTCCTGGT
1 CCAGCCCCGTTGTCCTGGT
26764 CC
1 CC
26766 TTGTTTAGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.05, C:0.45, G:0.25, T:0.25
Consensus pattern (19 bp):
CCAGCCCCGTTGTCCTGGT
Found at i:36733 original size:212 final size:212
Alignment explanation
Indices: 36462--36892 Score: 654
Period size: 212 Copynumber: 2.0 Consensus size: 212
36452 CGATAACGGG
*
36462 GAAAATCAGCATTAATTCGACAAATGAGACAAAATAAGATGTGCAATATAATCTCCAAAACCAAC
1 GAAAATCAGCATGAATTCGACAAATGAGACAAAATAAGATGTGCAATATAATCTCCAAAACCAAC
* *
36527 ATGTCTCAGCAGAAAGAACGTGAATCATAATCTCAAAGAAACTTT-A-GACTCTTCAAGAGCCAA
66 ATGTCTCAGCAGAAAGAACATGAATCATAATCTCAAAGAAACTTTAAGGACTCCTCAAGAGCCAA
* * *
36590 ATGATTCTTTTGCATTATTGCATATCTCGACAT-TTCAATCGATTGCTCAATCACAACATAGACT
131 ATGATTCTTTTGCATTATTACATATCTCGACATCTTAAATCGACTGCTCAATCACAACATAGACT
36654 AGTAACTTCAGGCTGGC
196 AGTAACTTCAGGCTGGC
* *
36671 GAAAATCAGCATGAATTCGACAAATGAGTCAACTCAATAAGATGTGCAATATTATCTCCAAAACC
1 GAAAATCAGCATGAATTCGACAAATGAGACAA---AATAAGATGTGCAATATAATCTCCAAAACC
* *
36736 AACATGTCTCAGCAGAAAGAATATGAATCATAATCTCAAAGAAACTTTACAGAGGACTCCTCCAG
63 AACATGTCTCAGCAGAAAGAACATGAATCATAATCTCAAAGAAACTTT--A-AGGACTCCTCAAG
* *
36801 AGCCAAATGATTCTTTTGCATTATTACATATCTCGACATCTTAAATCGACTGCTCGATCATAACA
125 AGCCAAATGATTCTTTTGCATTATTACATATCTCGACATCTTAAATCGACTGCTCAATCACAACA
* *
36866 TAGACTCGTAGCTTCAGGCTGGC
190 TAGACTAGTAACTTCAGGCTGGC
36889 -AAAA
1 GAAAA
36893 GTATACTAAT
Statistics
Matches: 199, Mismatches: 14, Indels: 10
0.89 0.06 0.04
Matches are distributed among these distances:
209 30 0.15
212 75 0.38
216 1 0.01
217 51 0.26
218 42 0.21
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (212 bp):
GAAAATCAGCATGAATTCGACAAATGAGACAAAATAAGATGTGCAATATAATCTCCAAAACCAAC
ATGTCTCAGCAGAAAGAACATGAATCATAATCTCAAAGAAACTTTAAGGACTCCTCAAGAGCCAA
ATGATTCTTTTGCATTATTACATATCTCGACATCTTAAATCGACTGCTCAATCACAACATAGACT
AGTAACTTCAGGCTGGC
Found at i:38218 original size:18 final size:19
Alignment explanation
Indices: 38183--38219 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
38173 CACGGAATGT
38183 AAGATTACCAGTGGGAATAA
1 AAGATTACCAG-GGGAATAA
38203 AAGATTACCA-GGGAATA
1 AAGATTACCAGGGGAATA
38220 GGATTACTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
20 10 0.59
ACGTcount: A:0.46, C:0.11, G:0.24, T:0.19
Consensus pattern (19 bp):
AAGATTACCAGGGGAATAA
Found at i:41164 original size:26 final size:25
Alignment explanation
Indices: 41108--41164 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 25
41098 AAATTAAAAT
*
41108 ATAAATATAATTTATTTATATATTA
1 ATAAATATAATTTATTTAAATATTA
*
41133 AGTAAATA-AATTTATTATAAATTTTCA
1 A-TAAATATAATTTATT-TAAATATT-A
41160 ATAAA
1 ATAAA
41165 ATTTATACAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
25 9 0.33
26 16 0.59
27 2 0.07
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.46
Consensus pattern (25 bp):
ATAAATATAATTTATTTAAATATTA
Found at i:42933 original size:24 final size:24
Alignment explanation
Indices: 42901--42975 Score: 150
Period size: 24 Copynumber: 3.1 Consensus size: 24
42891 TGCTAGTTGT
42901 GGATATGAGAAGGGAACTCAATGG
1 GGATATGAGAAGGGAACTCAATGG
42925 GGATATGAGAAGGGAACTCAATGG
1 GGATATGAGAAGGGAACTCAATGG
42949 GGATATGAGAAGGGAACTCAATGG
1 GGATATGAGAAGGGAACTCAATGG
42973 GGA
1 GGA
42976 AACGAGGCAT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 51 1.00
ACGTcount: A:0.37, C:0.08, G:0.39, T:0.16
Consensus pattern (24 bp):
GGATATGAGAAGGGAACTCAATGG
Found at i:44273 original size:14 final size:15
Alignment explanation
Indices: 44185--44279 Score: 70
Period size: 15 Copynumber: 6.1 Consensus size: 15
44175 ATTAAAATAA
44185 TTTAAAATAATTTA-
1 TTTAAAATAATTTAT
* * *
44199 -ATAAGATTATTTAT
1 TTTAAAATAATTTAT
44213 TTTAAAATAATTTAT
1 TTTAAAATAATTTAT
*
44228 TATAAAATATGAATTGATTTAT
1 T-TTAAA-AT--A---ATTTAT
44250 TTTAAAATAATTTAT
1 TTTAAAATAATTTAT
44265 TTT-AAATAATTTAT
1 TTTAAAATAATTTAT
44279 T
1 T
44280 AGTATGGATT
Statistics
Matches: 64, Mismatches: 8, Indels: 18
0.71 0.09 0.20
Matches are distributed among these distances:
13 10 0.16
14 12 0.19
15 21 0.33
16 4 0.06
17 2 0.03
18 1 0.02
19 1 0.02
20 2 0.03
21 4 0.06
22 7 0.11
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (15 bp):
TTTAAAATAATTTAT
Found at i:44298 original size:22 final size:23
Alignment explanation
Indices: 44273--44346 Score: 71
Period size: 22 Copynumber: 3.2 Consensus size: 23
44263 ATTTTAAATA
44273 ATTTAT-TAGTATGGATTGATTT
1 ATTTATATAGTATGGATTGATTT
* *
44295 ATTT-TAAAATATGGATTGATTT
1 ATTTATATAGTATGGATTGATTT
* *
44317 ATTATTGTAGTTGTATGGATTGATTT
1 A-T-TTATA-TAGTATGGATTGATTT
44343 ATTT
1 ATTT
44347 TAAATAATTT
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
21 1 0.02
22 19 0.45
23 1 0.02
24 4 0.10
25 3 0.07
26 14 0.33
ACGTcount: A:0.28, C:0.00, G:0.18, T:0.54
Consensus pattern (23 bp):
ATTTATATAGTATGGATTGATTT
Found at i:44370 original size:32 final size:32
Alignment explanation
Indices: 44329--44522 Score: 221
Period size: 32 Copynumber: 6.7 Consensus size: 32
44319 TATTGTAGTT
44329 GTATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
44361 GTATGGATTGATTTA-TTT---TAA---A--A
1 GTATGGATTGATTTATTTTAAATAATTTATTA
44384 -TATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
44415 GTATGGATTGATTTA-TTT---TAA---A--A
1 GTATGGATTGATTTATTTTAAATAATTTATTA
44438 -TATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
* *
44469 GTATAGATTGATTTATTTTAAATAATTTATTT
1 GTATGGATTGATTTATTTTAAATAATTTATTA
*
44501 GTATGGACTGATTTATTTTAAA
1 GTATGGATTGATTTATTTTAAA
44523 ATATTGATTT
Statistics
Matches: 138, Mismatches: 4, Indels: 40
0.76 0.02 0.22
Matches are distributed among these distances:
22 28 0.20
23 8 0.06
25 2 0.01
26 6 0.04
28 6 0.04
29 2 0.01
31 8 0.06
32 78 0.57
ACGTcount: A:0.35, C:0.01, G:0.13, T:0.52
Consensus pattern (32 bp):
GTATGGATTGATTTATTTTAAATAATTTATTA
Found at i:44387 original size:22 final size:22
Alignment explanation
Indices: 44362--44404 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
44352 AATTTATTAG
44362 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
44384 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
44405 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:44399 original size:54 final size:54
Alignment explanation
Indices: 44330--44835 Score: 491
Period size: 54 Copynumber: 9.3 Consensus size: 54
44320 ATTGTAGTTG
44330 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
44384 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
*
44438 TATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTT-AAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
* * * ** * * * * *
44491 TA---ATTTATTTGTATGGACTGATTTATTTTAAAATATTGATTTATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTA--TT--AGTATGGATTGATTTATTTTAAAA
*
44546 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTGATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
44600 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
** *
44654 TATATATTGATTTATTATT--AT-A---GTT-GTATGGATTGATTTATTTTAAATAA
1 TATGGATTGATTTATT-TTAAATAATTTATTAGTATGGATTGATTTATTTT-AA-AA
** ** * ** * * *
44704 TTTATTAGAATAGATTGATTTATTTTAAA-ATATGGATT-G-ATTTATTTTAAATAATTTATTAG
1 --TA-T-G----GATTGATTTATTTTAAATA-ATTTATTAGTATGGA-TTGATTTATTTTA-AAA
* * *
44766 TATGGATTGATTTATTTTAAATAATTTATTTGTATGAATTAATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
*
44820 TATTGATTGATTTATT
1 TATGGATTGATTTATT
44836 ATTGTAGTTG
Statistics
Matches: 373, Mismatches: 48, Indels: 62
0.77 0.10 0.13
Matches are distributed among these distances:
48 19 0.05
49 4 0.01
50 18 0.05
52 5 0.01
53 8 0.02
54 245 0.66
55 18 0.05
56 5 0.01
57 2 0.01
58 28 0.08
59 2 0.01
60 3 0.01
62 5 0.01
63 11 0.03
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (54 bp):
TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
Found at i:44441 original size:22 final size:22
Alignment explanation
Indices: 44416--44458 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
44406 AATTTATTAG
44416 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
44438 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
44459 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:44466 original size:14 final size:14
Alignment explanation
Indices: 44447--44500 Score: 54
Period size: 14 Copynumber: 3.6 Consensus size: 14
44437 ATATGGATTG
44447 ATTTATTTTAAATA
1 ATTTATTTTAAATA
* *
44461 ATTTATTAGTATAGATTG
1 ATTTATT--T-TA-AATA
44479 ATTTATTTTAAATA
1 ATTTATTTTAAATA
44493 ATTTATTT
1 ATTTATTT
44501 GTATGGACTG
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
14 17 0.53
15 2 0.06
16 2 0.06
17 2 0.06
18 9 0.28
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.57
Consensus pattern (14 bp):
ATTTATTTTAAATA
Found at i:44536 original size:22 final size:22
Alignment explanation
Indices: 44502--44566 Score: 103
Period size: 22 Copynumber: 3.0 Consensus size: 22
44492 AATTTATTTG
*
44502 TATGGACTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
* *
44524 TATTGATTTATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
44546 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
44567 TAATTTATTA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.35, C:0.02, G:0.11, T:0.52
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:44584 original size:32 final size:32
Alignment explanation
Indices: 44546--44652 Score: 135
Period size: 32 Copynumber: 3.7 Consensus size: 32
44536 TATTTTAAAA
44546 TATGGATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
*
44578 TATGGATTGATTGA-TTT---TAA---A--A-
1 TATGGATTGATTTATTTTAAATAATTTATTAG
44600 TATGGATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
44632 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
44653 ATATATATTG
Statistics
Matches: 63, Mismatches: 2, Indels: 20
0.74 0.02 0.24
Matches are distributed among these distances:
22 13 0.21
23 4 0.06
25 1 0.02
26 3 0.05
28 3 0.05
29 1 0.02
31 4 0.06
32 34 0.54
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (32 bp):
TATGGATTGATTTATTTTAAATAATTTATTAG
Found at i:44603 original size:22 final size:22
Alignment explanation
Indices: 44578--44620 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
44568 AATTTATTAG
44578 TATGGATTGATTGATTTTAAAA
1 TATGGATTGATTGATTTTAAAA
*
44600 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTGATTTTAAA
44621 TAATTTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.35, C:0.00, G:0.16, T:0.49
Consensus pattern (22 bp):
TATGGATTGATTGATTTTAAAA
Found at i:44688 original size:80 final size:80
Alignment explanation
Indices: 44600--44915 Score: 456
Period size: 80 Copynumber: 3.9 Consensus size: 80
44590 GATTTTAAAA
* **
44600 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATATATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTGAT
44665 TTATTATTATAGTTG
66 TTATTATTATAGTTG
*
44680 TATGGATTGATTTATTTTAAATAATTTATTAGAATAGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTGAT
*
44745 TTATT-TTAAATAATTTATTAG
66 TTATTATT--AT-A---GTT-G
* * *
44766 TATGGATTGATTTATTTTAAATAATTTATTTGTAT-GAATTAATTTATTTTAAAATATTGATTGA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATAG-ATTGATTTATTTTAAAATATGGATTGA
*
44830 TTTATTATTGTAGTTG
65 TTTATTATTATAGTTG
*
44846 TATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAAAATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTGAT
44911 TTATT
66 TTATT
44916 TTAAATAATT
Statistics
Matches: 211, Mismatches: 15, Indels: 20
0.86 0.06 0.08
Matches are distributed among these distances:
79 2 0.01
80 131 0.62
81 5 0.02
82 1 0.00
84 1 0.00
85 4 0.02
86 65 0.31
87 2 0.01
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (80 bp):
TATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTGAT
TTATTATTATAGTTG
Found at i:44725 original size:32 final size:31
Alignment explanation
Indices: 44679--44818 Score: 154
Period size: 32 Copynumber: 4.7 Consensus size: 31
44669 TATTATAGTT
44679 GTATGGATTGATTTATTTTAAATAATTTATTA
1 GTAT-GATTGATTTATTTTAAATAATTTATTA
*
44711 GAATAGATTGATTTATTTT-AA-AA--TA-T-
1 GTAT-GATTGATTTATTTTAAATAATTTATTA
44737 G---GATTGATTTATTTTAAATAATTTATTA
1 GTATGATTGATTTATTTTAAATAATTTATTA
*
44765 GTATGGATTGATTTATTTTAAATAATTTATTT
1 GTAT-GATTGATTTATTTTAAATAATTTATTA
*
44797 GTATGAATTAATTTATTTTAAA
1 GTATG-ATTGATTTATTTTAAA
44819 ATATTGATTG
Statistics
Matches: 93, Mismatches: 4, Indels: 22
0.78 0.03 0.18
Matches are distributed among these distances:
22 14 0.15
23 2 0.02
24 2 0.02
26 3 0.03
27 2 0.02
28 3 0.03
30 2 0.02
31 3 0.03
32 62 0.67
ACGTcount: A:0.36, C:0.00, G:0.11, T:0.52
Consensus pattern (31 bp):
GTATGATTGATTTATTTTAAATAATTTATTA
Found at i:44762 original size:14 final size:14
Alignment explanation
Indices: 44743--44818 Score: 53
Period size: 18 Copynumber: 4.9 Consensus size: 14
44733 ATATGGATTG
44743 ATTTATTTTAAATA
1 ATTTATTTTAAATA
* * *
44757 ATTTATTAGTATGGATTG
1 ATTTATT--T-T-AAATA
44775 ATTTATTTTAAATA
1 ATTTATTTTAAATA
44789 ATTTATTTGTATGAATTA
1 ATTTATTT-TA--AA-TA
44807 ATTTATTTTAAA
1 ATTTATTTTAAA
44819 ATATTGATTG
Statistics
Matches: 48, Mismatches: 6, Indels: 15
0.70 0.09 0.22
Matches are distributed among these distances:
14 17 0.35
15 5 0.10
16 2 0.04
17 5 0.10
18 19 0.40
ACGTcount: A:0.37, C:0.00, G:0.08, T:0.55
Consensus pattern (14 bp):
ATTTATTTTAAATA
Found at i:44808 original size:18 final size:18
Alignment explanation
Indices: 44755--44814 Score: 65
Period size: 18 Copynumber: 3.6 Consensus size: 18
44745 TTATTTTAAA
* *
44755 TAATTTATTAGTATGGAT
1 TAATTTATTTGTATGAAT
*
44773 TGATTTATTT-TA--AA-
1 TAATTTATTTGTATGAAT
44787 TAATTTATTTGTATGAAT
1 TAATTTATTTGTATGAAT
44805 TAATTTATTT
1 TAATTTATTT
44815 TAAAATATTG
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
14 9 0.26
15 3 0.09
17 4 0.12
18 18 0.53
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.57
Consensus pattern (18 bp):
TAATTTATTTGTATGAAT
Found at i:44813 original size:166 final size:166
Alignment explanation
Indices: 44259--44598 Score: 310
Period size: 162 Copynumber: 2.1 Consensus size: 166
44249 TTTTAAAATA
* * * *
44259 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTG
1 ATTTATTTTAAATAATTTATTAGTATGAATTAATTTATTTTAAAATATTGATTGATTTATTATTA
* * *
44324 TAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGG
66 TAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGAATAGATTGATTTATTTTAAAAAATGG
*
44389 ATTGATTTATTTTAAATAATTTATTAGTATGGATTG
131 ATTGATTTATTTTAAATAATTCATTAGTATGGATTG
* * * * * * * *
44425 ATTTATTTTAAAATATGGATTGATTTA-TTTTAAATAATTTATTAGT-ATAGATTGATTTATTTT
1 ATTTATTTT-AAATA---ATTTA-TTAGTATGAATTAATTTATT-TTAAAATATTGATTGA-TTT
* * *
44488 AAATAATT-TATTTGTATGGACTGATTTATTTT-AA-AA--TATT-G-AT---TT-ATTTATTTT
59 --ATTATTATAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGAATAGATTGATTTATTTT
* *
44542 AAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTG
122 AAAAAATGGATTGATTTATTTTAAATAATTCATTAGTATGGATTG
*
44587 ATTGATTTTAAA
1 ATTTATTTTAAA
44599 ATATGGATTG
Statistics
Matches: 150, Mismatches: 15, Indels: 23
0.80 0.08 0.12
Matches are distributed among these distances:
161 3 0.02
162 62 0.41
163 2 0.01
166 11 0.07
167 6 0.04
168 4 0.03
170 26 0.17
171 9 0.06
172 22 0.15
173 5 0.03
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (166 bp):
ATTTATTTTAAATAATTTATTAGTATGAATTAATTTATTTTAAAATATTGATTGATTTATTATTA
TAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGAATAGATTGATTTATTTTAAAAAATGG
ATTGATTTATTTTAAATAATTCATTAGTATGGATTG
Found at i:45003 original size:31 final size:31
Alignment explanation
Indices: 44945--45003 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
44935 AGTTGTATGG
* *
44945 ATTATTTAAATTTCAGTATTGTAAAACTAAA
1 ATTATTTAAATCTCAGTATTGCAAAACTAAA
*
44976 ATTATTTAAATCTCAGTATTGCGAAACT
1 ATTATTTAAATCTCAGTATTGCAAAACT
45004 CTTTTATGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.41, C:0.10, G:0.08, T:0.41
Consensus pattern (31 bp):
ATTATTTAAATCTCAGTATTGCAAAACTAAA
Found at i:50654 original size:21 final size:21
Alignment explanation
Indices: 50611--50656 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
50601 TATAGAGCGA
*
50611 TTTAGAGAGAGAATGAGAGTT
1 TTTAGAGAGAGAAGGAGAGTT
*
50632 TTTAGAGAGAGAAAGGAGATTT
1 TTTAGAGAGAG-AAGGAGAGTT
50654 TTT
1 TTT
50657 TTTTGAAAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 11 0.50
22 11 0.50
ACGTcount: A:0.37, C:0.00, G:0.30, T:0.33
Consensus pattern (21 bp):
TTTAGAGAGAGAAGGAGAGTT
Found at i:51616 original size:48 final size:48
Alignment explanation
Indices: 51545--51638 Score: 143
Period size: 48 Copynumber: 2.0 Consensus size: 48
51535 AAATTACTTT
* *
51545 GATGATCGAATGCAACACTCGTGAACTCGATCAAATGTGACACCCTTC
1 GATGATCGAATGCAACACTCGTGAACTCAATCAAATGAGACACCCTTC
* * *
51593 GATGATCGAATGCGACATTCGTGAACTCAATCGAATGAGACACCCT
1 GATGATCGAATGCAACACTCGTGAACTCAATCAAATGAGACACCCT
51639 AAGTCGAAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 41 1.00
ACGTcount: A:0.32, C:0.26, G:0.20, T:0.22
Consensus pattern (48 bp):
GATGATCGAATGCAACACTCGTGAACTCAATCAAATGAGACACCCTTC
Found at i:53289 original size:4 final size:4
Alignment explanation
Indices: 53280--53318 Score: 78
Period size: 4 Copynumber: 9.8 Consensus size: 4
53270 AATTCTCCAC
53280 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATG
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATG
53319 CATGCATGCA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 35 1.00
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.49
Consensus pattern (4 bp):
ATGT
Found at i:62740 original size:12 final size:12
Alignment explanation
Indices: 62725--62781 Score: 66
Period size: 12 Copynumber: 5.0 Consensus size: 12
62715 CTTCAGCAAT
62725 ATCCTCATCATC
1 ATCCTCATCATC
62737 ATCCTCATCATC
1 ATCCTCATCATC
*
62749 -TCC-C-TCGTC
1 ATCCTCATCATC
*
62758 ATCATCATCATC
1 ATCCTCATCATC
*
62770 ATCCCCATCATC
1 ATCCTCATCATC
62782 TGCCATGTCA
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
9 4 0.11
10 3 0.08
11 4 0.11
12 26 0.70
ACGTcount: A:0.23, C:0.44, G:0.02, T:0.32
Consensus pattern (12 bp):
ATCCTCATCATC
Found at i:62766 original size:33 final size:33
Alignment explanation
Indices: 62729--62803 Score: 107
Period size: 33 Copynumber: 2.3 Consensus size: 33
62719 AGCAATATCC
* *
62729 TCATCATCATCCTCATCATCT-CCCTCGTCATCA
1 TCATCATCATCCCCATCATCTGCCAT-GTCATCA
62762 TCATCATCATCCCCATCATCTGCCATGTCATCA
1 TCATCATCATCCCCATCATCTGCCATGTCATCA
*
62795 TCTTCATCA
1 TCATCATCA
62804 CCCATATCAT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
33 35 0.92
34 3 0.08
ACGTcount: A:0.23, C:0.40, G:0.04, T:0.33
Consensus pattern (33 bp):
TCATCATCATCCCCATCATCTGCCATGTCATCA
Found at i:70504 original size:3 final size:3
Alignment explanation
Indices: 70496--70566 Score: 142
Period size: 3 Copynumber: 23.7 Consensus size: 3
70486 ACCTCCTTGT
70496 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
70544 TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TT
70567 GGTAAATAAC
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 68 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:73507 original size:146 final size:146
Alignment explanation
Indices: 73313--73592 Score: 411
Period size: 146 Copynumber: 1.9 Consensus size: 146
73303 CCTGATTTCA
*
73313 TTATTTCTTCAATTCCTCCTTCATTTTAAGTCTATTTTTTACCAAATTTGAGCCACATGCTCCTA
1 TTATTTCTTCAATTCCTCCTTCATTTTAAGTCTAGTTTTTACCAAATTTGAGCCACATGCTCCTA
* * * *
73378 AATTATAGTAGAATACATGTGTAGTTTCAATTCCTCTTTTTGTTAACAA-TTTTTTTATTTTTCA
66 AACTATAGTAGAATACATGTGTACTTTCAATTCCTCTTATTGATAACAATTTTTTTTATTTTTCA
73442 ATTTTTTATAATCTCG
131 ATTTTTTATAATCTCG
* * * *
73458 TTATTTCTTCAATTCGTCATTTATATTTTAAGTCT-GTTTTTACCAAATTTGAGTCACATGCTCC
1 TTATTTCTTCAATTCCTC-CTT-CATTTTAAGTCTAGTTTTTACCAAATTTGAGCCACATGCTCC
* * *
73522 TAAACTATAGTGGAATATATTTGTACTTTCAATTCCTCTTATTGATAACAATTTTTTTTATTTTT
64 TAAACTATAGTAGAATACATGTGTACTTTCAATTCCTCTTATTGATAACAATTTTTTTTATTTTT
*
73587 TAATTT
129 CAATTT
73593 AGTCCTTCAA
Statistics
Matches: 119, Mismatches: 13, Indels: 4
0.88 0.10 0.03
Matches are distributed among these distances:
145 17 0.14
146 73 0.61
147 29 0.24
ACGTcount: A:0.26, C:0.16, G:0.08, T:0.50
Consensus pattern (146 bp):
TTATTTCTTCAATTCCTCCTTCATTTTAAGTCTAGTTTTTACCAAATTTGAGCCACATGCTCCTA
AACTATAGTAGAATACATGTGTACTTTCAATTCCTCTTATTGATAACAATTTTTTTTATTTTTCA
ATTTTTTATAATCTCG
Found at i:76348 original size:16 final size:16
Alignment explanation
Indices: 76327--76357 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
76317 ATATAATCAA
76327 ATATAAATTAATTCTT
1 ATATAAATTAATTCTT
76343 ATATAAATTAATTCT
1 ATATAAATTAATTCT
76358 CATTTGCAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.48
Consensus pattern (16 bp):
ATATAAATTAATTCTT
Found at i:76380 original size:19 final size:19
Alignment explanation
Indices: 76356--76395 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
76346 TAAATTAATT
*
76356 CTCATTTGCAAATCATATA
1 CTCATTTGCAAATCAGATA
*
76375 CTCATTTTCAAATCAGATA
1 CTCATTTGCAAATCAGATA
76394 CT
1 CT
76396 ATGAAATAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.35, C:0.23, G:0.05, T:0.38
Consensus pattern (19 bp):
CTCATTTGCAAATCAGATA
Found at i:76637 original size:20 final size:20
Alignment explanation
Indices: 76614--76659 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
76604 AATTTGTAAA
76614 TCGCAACACAGA-AGTCAAAT
1 TCGCAACA-AGATAGTCAAAT
76634 TCGCAACAAGATAGTCAAAT
1 TCGCAACAAGATAGTCAAAT
*
76654 TTGCAA
1 TCGCAA
76660 AGCGCGTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 3 0.12
20 21 0.88
ACGTcount: A:0.43, C:0.22, G:0.15, T:0.20
Consensus pattern (20 bp):
TCGCAACAAGATAGTCAAAT
Found at i:76687 original size:13 final size:13
Alignment explanation
Indices: 76669--76693 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
76659 AAGCGCGTTT
76669 ATTTTCGCAACAA
1 ATTTTCGCAACAA
76682 ATTTTCGCAACA
1 ATTTTCGCAACA
76694 TTGTTTACCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.24, G:0.08, T:0.32
Consensus pattern (13 bp):
ATTTTCGCAACAA
Found at i:76764 original size:57 final size:56
Alignment explanation
Indices: 76695--76914 Score: 232
Period size: 57 Copynumber: 3.9 Consensus size: 56
76685 TTCGCAACAT
*
76695 TGTTTACCTATATCGGTAATTAGCGTTGCGAATTTGTAAATCGCGTTGCGATAGTA
1 TGTTTACCTATATCGGTAATTAGCGTTGCGAATTTGAAAATCGCGTTGCGATAGTA
* *
76751 CTGTTTACCTATATCGGTAATTAGCGTTGCGAATTTGAAAATCTCGTTGCGAATTTGTA
1 -TGTTTACCTATATCGGTAATTAGCGTTGCGAATTTGAAAATCGCGTTGCG-A-TAGTA
* * ** * ** * *
76810 AG-TTGCGAAT-TTGAAAATCT--CGTTGCGAATTTGTAAATCGCGTTGTGATAGTA
1 TGTTTACCTATATCGGTAAT-TAGCGTTGCGAATTTGAAAATCGCGTTGCGATAGTA
* * *
76863 TTGTGTACCTATATCGGTAATTAACGTTGCGAATTTGAAAATCTCGTTGCGA
1 -TGTTTACCTATATCGGTAATTAGCGTTGCGAATTTGAAAATCGCGTTGCGA
76915 ATTTGTAAAT
Statistics
Matches: 130, Mismatches: 25, Indels: 16
0.76 0.15 0.09
Matches are distributed among these distances:
53 4 0.03
54 2 0.02
55 29 0.22
56 10 0.08
57 79 0.61
58 2 0.02
59 4 0.03
ACGTcount: A:0.26, C:0.14, G:0.22, T:0.37
Consensus pattern (56 bp):
TGTTTACCTATATCGGTAATTAGCGTTGCGAATTTGAAAATCGCGTTGCGATAGTA
Found at i:76800 original size:20 final size:20
Alignment explanation
Indices: 76775--76854 Score: 98
Period size: 20 Copynumber: 4.2 Consensus size: 20
76765 CGGTAATTAG
76775 CGTTGCGAATTTGAAAATCT
1 CGTTGCGAATTTGAAAATCT
*
76795 CGTTGCGAATTTG-TAA---
1 CGTTGCGAATTTGAAAATCT
76811 -GTTGCGAATTTGAAAATCT
1 CGTTGCGAATTTGAAAATCT
* *
76830 CGTTGCGAATTTGTAAATCG
1 CGTTGCGAATTTGAAAATCT
76850 CGTTG
1 CGTTG
76855 TGATAGTATT
Statistics
Matches: 51, Mismatches: 4, Indels: 10
0.78 0.06 0.15
Matches are distributed among these distances:
15 12 0.24
16 2 0.04
19 2 0.04
20 35 0.69
ACGTcount: A:0.26, C:0.14, G:0.24, T:0.36
Consensus pattern (20 bp):
CGTTGCGAATTTGAAAATCT
Found at i:76822 original size:35 final size:35
Alignment explanation
Indices: 76776--76845 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
76766 GGTAATTAGC
76776 GTTGCGAATTTGAAAATCTCGTTGCGAATTTGTAA
1 GTTGCGAATTTGAAAATCTCGTTGCGAATTTGTAA
76811 GTTGCGAATTTGAAAATCTCGTTGCGAATTTGTAA
1 GTTGCGAATTTGAAAATCTCGTTGCGAATTTGTAA
76846 ATCGCGTTGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.29, C:0.11, G:0.23, T:0.37
Consensus pattern (35 bp):
GTTGCGAATTTGAAAATCTCGTTGCGAATTTGTAA
Found at i:76912 original size:20 final size:20
Alignment explanation
Indices: 76887--76932 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
76877 CGGTAATTAA
*
76887 CGTTGCGAATTTGAAAATCT
1 CGTTGCGAATTTGAAAATCG
*
76907 CGTTGCGAATTTGTAAATCG
1 CGTTGCGAATTTGAAAATCG
76927 CGTTGC
1 CGTTGC
76933 AATAGTATTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.24, C:0.17, G:0.24, T:0.35
Consensus pattern (20 bp):
CGTTGCGAATTTGAAAATCG
Found at i:76915 original size:112 final size:112
Alignment explanation
Indices: 76718--76922 Score: 374
Period size: 112 Copynumber: 1.8 Consensus size: 112
76708 CGGTAATTAG
* *
76718 CGTTGCGAATTTGTAAATCGCGTTGCGATAGTACTGTTTACCTATATCGGTAATTAGCGTTGCGA
1 CGTTGCGAATTTGTAAATCGCGTTGCGATAGTACTGTGTACCTATATCGGTAATTAACGTTGCGA
76783 ATTTGAAAATCTCGTTGCGAATTTGTAAGTTGCGAATTTGAAAATCT
66 ATTTGAAAATCTCGTTGCGAATTTGTAAGTTGCGAATTTGAAAATCT
* *
76830 CGTTGCGAATTTGTAAATCGCGTTGTGATAGTATTGTGTACCTATATCGGTAATTAACGTTGCGA
1 CGTTGCGAATTTGTAAATCGCGTTGCGATAGTACTGTGTACCTATATCGGTAATTAACGTTGCGA
76895 ATTTGAAAATCTCGTTGCGAATTTGTAA
66 ATTTGAAAATCTCGTTGCGAATTTGTAA
76923 ATCGCGTTGC
Statistics
Matches: 89, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
112 89 1.00
ACGTcount: A:0.27, C:0.14, G:0.22, T:0.37
Consensus pattern (112 bp):
CGTTGCGAATTTGTAAATCGCGTTGCGATAGTACTGTGTACCTATATCGGTAATTAACGTTGCGA
ATTTGAAAATCTCGTTGCGAATTTGTAAGTTGCGAATTTGAAAATCT
Found at i:76938 original size:77 final size:77
Alignment explanation
Indices: 76811--77146 Score: 546
Period size: 77 Copynumber: 4.4 Consensus size: 77
76801 GAATTTGTAA
* * *
76811 GTTGCGAATTTGAAAATCTCGTTGCGAATTTGTAAATCGCGTTGTGATAGTATTGTGTACCTATA
1 GTTGCGAATTTGAAAATCTCGTTGCGAATTTGTAAATCGCGTTGCGATAGTACTGTTTACCTATA
*
76876 TCGGTAATTAAC
66 TCGGTAATTAGC
* *
76888 GTTGCGAATTTGAAAATCTCGTTGCGAATTTGTAAATCGCGTTGCAATAGTATTGTTTACCTATA
1 GTTGCGAATTTGAAAATCTCGTTGCGAATTTGTAAATCGCGTTGCGATAGTACTGTTTACCTATA
76953 TCGGTAATTAGC
66 TCGGTAATTAGC
* *
76965 GTTGCGAGTTTGAAAATCTCGTTGCAAATTTGTAAATCGCGTTGCGATAGTACTGTTTACCTATA
1 GTTGCGAATTTGAAAATCTCGTTGCGAATTTGTAAATCGCGTTGCGATAGTACTGTTTACCTATA
*
77030 TCGATAATTAGC
66 TCGGTAATTAGC
* * * *
77042 GCTGCGAATTTGAAAATCTCGTTGCGTATTTGTAAATCGCGTTGCGACAGTACTGTTTACCTATG
1 GTTGCGAATTTGAAAATCTCGTTGCGAATTTGTAAATCGCGTTGCGATAGTACTGTTTACCTATA
77107 TCGGTAATTAGC
66 TCGGTAATTAGC
*
77119 GTTGCGAATTTGAAAATCACGTTGCGAA
1 GTTGCGAATTTGAAAATCTCGTTGCGAA
77147 AGTACTGTTT
Statistics
Matches: 240, Mismatches: 19, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
77 240 1.00
ACGTcount: A:0.27, C:0.15, G:0.22, T:0.36
Consensus pattern (77 bp):
GTTGCGAATTTGAAAATCTCGTTGCGAATTTGTAAATCGCGTTGCGATAGTACTGTTTACCTATA
TCGGTAATTAGC
Found at i:76989 original size:20 final size:20
Alignment explanation
Indices: 76963--77011 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
76953 TCGGTAATTA
*
76963 GCGTTGCGAGTTTGAAAATC
1 GCGTTGCGAATTTGAAAATC
* * *
76983 TCGTTGCAAATTTGTAAATC
1 GCGTTGCGAATTTGAAAATC
77003 GCGTTGCGA
1 GCGTTGCGA
77012 TAGTACTGTT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.33
Consensus pattern (20 bp):
GCGTTGCGAATTTGAAAATC
Found at i:77072 original size:20 final size:20
Alignment explanation
Indices: 77044--77088 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
77034 TAATTAGCGC
*
77044 TGCGAATTTGAAAATCTCGT
1 TGCGAATTTGAAAATCGCGT
* *
77064 TGCGTATTTGTAAATCGCGT
1 TGCGAATTTGAAAATCGCGT
77084 TGCGA
1 TGCGA
77089 CAGTACTGTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.24, C:0.16, G:0.24, T:0.36
Consensus pattern (20 bp):
TGCGAATTTGAAAATCGCGT
Found at i:77151 original size:57 final size:57
Alignment explanation
Indices: 77061--77203 Score: 196
Period size: 57 Copynumber: 2.5 Consensus size: 57
77051 TTGAAAATCT
* * * * ** *
77061 CGTTGCGTATTTGTAAATCGCGTTGCGACAGTACTGTTTACCTATGTCGGTAATTAG
1 CGTTGCGAATTTGAAAATCACGTTGCGAAAGTACTGTTTACCTACATCGGTAATCAG
77118 CGTTGCGAATTTGAAAATCACGTTGCGAAAGTACTGTTTACCTACATCGGTAATCAG
1 CGTTGCGAATTTGAAAATCACGTTGCGAAAGTACTGTTTACCTACATCGGTAATCAG
* *
77175 TGTTGCGAATTTGGAAAACCACGTTGCGA
1 CGTTGCGAATTT-GAAAATCACGTTGCGA
77204 TTTTGAAACA
Statistics
Matches: 76, Mismatches: 9, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
57 61 0.80
58 15 0.20
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (57 bp):
CGTTGCGAATTTGAAAATCACGTTGCGAAAGTACTGTTTACCTACATCGGTAATCAG
Found at i:77240 original size:20 final size:20
Alignment explanation
Indices: 77217--77264 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
77207 TGAAACATGT
77217 GTTGCGAAATTAGAGTTCGC
1 GTTGCGAAATTAGAGTTCGC
*
77237 GTTGCGAAATTGGAGTTCGC
1 GTTGCGAAATTAGAGTTCGC
77257 GTTGCGAA
1 GTTGCGAA
77265 TTTGTTGGTG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.23, C:0.15, G:0.33, T:0.29
Consensus pattern (20 bp):
GTTGCGAAATTAGAGTTCGC
Found at i:78847 original size:39 final size:40
Alignment explanation
Indices: 78769--78848 Score: 144
Period size: 40 Copynumber: 2.0 Consensus size: 40
78759 ACATCAAATT
78769 ATACTGATTAAAAATATCAATATAATATTTCTAACCTCAA
1 ATACTGATTAAAAATATCAATATAATATTTCTAACCTCAA
*
78809 ATACTGATTAAAAATATCAATAT-ATATTTTTAACCTCAA
1 ATACTGATTAAAAATATCAATATAATATTTCTAACCTCAA
78848 A
1 A
78849 CTACATTCCT
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
39 16 0.41
40 23 0.59
ACGTcount: A:0.47, C:0.14, G:0.03, T:0.36
Consensus pattern (40 bp):
ATACTGATTAAAAATATCAATATAATATTTCTAACCTCAA
Found at i:81684 original size:2 final size:2
Alignment explanation
Indices: 81679--81705 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
81669 TTTACTCTTT
81679 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
81706 CATTTTTAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:86066 original size:23 final size:23
Alignment explanation
Indices: 86001--86072 Score: 117
Period size: 23 Copynumber: 3.1 Consensus size: 23
85991 GCCTGAGACC
** *
86001 TTACTTAAACGATATCAAGCTGC
1 TTACTTAAACGATATCAAATTGT
86024 TTACTTAAACGATATCAAATTGT
1 TTACTTAAACGATATCAAATTGT
86047 TTACTTAAACGATATCAAATTGT
1 TTACTTAAACGATATCAAATTGT
86070 TTA
1 TTA
86073 TTATTTGAAC
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.38
Consensus pattern (23 bp):
TTACTTAAACGATATCAAATTGT
Found at i:101872 original size:21 final size:21
Alignment explanation
Indices: 101826--101895 Score: 104
Period size: 21 Copynumber: 3.3 Consensus size: 21
101816 ATTTTTTTGG
* * *
101826 GTCTTGCTTGGGATCTCCCGGC
1 GTCTTGTTTGGGAT-TTCCAGC
101848 GTCTTGTTTGGGATTTCCAGC
1 GTCTTGTTTGGGATTTCCAGC
101869 GTCTTGTTTGGGATTTCCAGC
1 GTCTTGTTTGGGATTTCCAGC
101890 GTCTTG
1 GTCTTG
101896 AGGGTGTTGG
Statistics
Matches: 45, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
21 32 0.71
22 13 0.29
ACGTcount: A:0.07, C:0.23, G:0.30, T:0.40
Consensus pattern (21 bp):
GTCTTGTTTGGGATTTCCAGC
Found at i:102630 original size:22 final size:22
Alignment explanation
Indices: 102604--102645 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
102594 CTGAGTAAAC
*
102604 TTATATAAAAT-TTATAAAAATT
1 TTATAGAAAATATT-TAAAAATT
102626 TTATAGAAAATATTTAAAAA
1 TTATAGAAAATATTTAAAAA
102646 ATTGTTAGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 16 0.89
23 2 0.11
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (22 bp):
TTATAGAAAATATTTAAAAATT
Found at i:111100 original size:27 final size:26
Alignment explanation
Indices: 111053--111106 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 26
111043 GTCGTTAATT
111053 ATTTATTTATTTTTGTTTAGATAAAG
1 ATTTATTTATTTTTGTTTAGATAAAG
*
111079 ATTTATTCTTTTTTTGTTTAGATAAAG
1 ATTTATT-TATTTTTGTTTAGATAAAG
111106 A
1 A
111107 GTTGTACTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
26 7 0.27
27 19 0.73
ACGTcount: A:0.30, C:0.02, G:0.11, T:0.57
Consensus pattern (26 bp):
ATTTATTTATTTTTGTTTAGATAAAG
Found at i:111759 original size:21 final size:20
Alignment explanation
Indices: 111733--111897 Score: 107
Period size: 21 Copynumber: 8.0 Consensus size: 20
111723 CGCAAATCAG
111733 TTTCCAGATTCGCAATGCGAT
1 TTTCCA-ATTCGCAATGCGAT
**
111754 TTTCCAATTTCGCGTTGCGAT
1 TTTCCAA-TTCGCAATGCGAT
111775 TTTCCCAATTCGCAATGCGAT
1 TTT-CCAATTCGCAATGCGAT
** * *
111796 ACT-GACTATCGCAATGCGAAT
1 TTTCCAAT-TCGCAATGCG-AT
*** *
111817 TTGGAAAATCGCAATGCGAT
1 TTTCCAATTCGCAATGCGAT
*
111837 TTTCCTAATTCGCATTGCGAT
1 TTTCC-AATTCGCAATGCGAT
* ** **
111858 TTACGTATTCGCGTTGCGAT
1 TTTCCAATTCGCAATGCGAT
*
111878 TTTCATAATTCGCAATGCGA
1 TTTC-CAATTCGCAATGCGA
111898 ATACGTAAAT
Statistics
Matches: 109, Mismatches: 28, Indels: 14
0.72 0.19 0.09
Matches are distributed among these distances:
19 2 0.02
20 31 0.28
21 71 0.65
22 5 0.05
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.35
Consensus pattern (20 bp):
TTTCCAATTCGCAATGCGAT
Found at i:111912 original size:20 final size:20
Alignment explanation
Indices: 111887--111998 Score: 129
Period size: 20 Copynumber: 5.5 Consensus size: 20
111877 TTTTCATAAT
111887 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
*
111907 TCGCAACGCGAATTA-GTAAA
1 TCGCAATGCGAA-TACGTAAA
* * *
111927 TCGCAATGCAAATTAGGAAAA
1 TCGCAATGCGAA-TACGTAAA
111948 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* *
111968 TCGCAATGCGAAT-CTTACTA
1 TCGCAATGCGAATACGTA-AA
111988 TCGCAATGCGA
1 TCGCAATGCGA
111999 TTTACATAGC
Statistics
Matches: 80, Mismatches: 9, Indels: 6
0.84 0.09 0.06
Matches are distributed among these distances:
19 3 0.04
20 60 0.75
21 17 0.21
ACGTcount: A:0.38, C:0.21, G:0.20, T:0.21
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:111953 original size:41 final size:40
Alignment explanation
Indices: 111887--111976 Score: 119
Period size: 41 Copynumber: 2.2 Consensus size: 40
111877 TTTTCATAAT
* *
111887 TCGCAATGCGAATACGTAAATCGCAACGCGAATTA-GTAAA
1 TCGCAATGCAAATACGAAAATCGCAACGCGAA-TACGTAAA
* *
111927 TCGCAATGCAAATTAGGAAAATCGCAATGCGAATACGTAAA
1 TCGCAATGCAAA-TACGAAAATCGCAACGCGAATACGTAAA
111968 TCGCAATGC
1 TCGCAATGC
111977 GAATCTTACT
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
40 13 0.30
41 31 0.70
ACGTcount: A:0.40, C:0.20, G:0.20, T:0.20
Consensus pattern (40 bp):
TCGCAATGCAAATACGAAAATCGCAACGCGAATACGTAAA
Found at i:112570 original size:19 final size:19
Alignment explanation
Indices: 112546--112590 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
112536 GCAACGAGAG
*
112546 AATCGCAACGCGAAATAAA
1 AATCGCAACGCGAAACAAA
*
112565 AATCGCAACGCGAAACCAA
1 AATCGCAACGCGAAACAAA
112584 AATCGCA
1 AATCGCA
112591 TTGCGATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.49, C:0.27, G:0.16, T:0.09
Consensus pattern (19 bp):
AATCGCAACGCGAAACAAA
Found at i:112608 original size:19 final size:19
Alignment explanation
Indices: 112586--112736 Score: 186
Period size: 19 Copynumber: 8.1 Consensus size: 19
112576 GAAACCAAAA
*
112586 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
112605 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
112624 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
112643 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
112662 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* **
112676 TCTCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
*
112695 TCCGCGTTGCGATTCTCATT
1 T-CGCGTTGCGATTTTCATT
* *
112715 ATCTCGTTGTGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
112735 TC
1 TC
112737 AACCAAAAGA
Statistics
Matches: 116, Mismatches: 9, Indels: 14
0.83 0.06 0.10
Matches are distributed among these distances:
14 10 0.09
16 2 0.02
17 3 0.03
19 70 0.60
20 30 0.26
21 1 0.01
ACGTcount: A:0.12, C:0.23, G:0.20, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:116301 original size:14 final size:14
Alignment explanation
Indices: 116282--116317 Score: 72
Period size: 14 Copynumber: 2.6 Consensus size: 14
116272 ATTGTTTAAA
116282 TGATTTGTAAAAGT
1 TGATTTGTAAAAGT
116296 TGATTTGTAAAAGT
1 TGATTTGTAAAAGT
116310 TGATTTGT
1 TGATTTGT
116318 TTAATTGATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGT
Found at i:116485 original size:19 final size:19
Alignment explanation
Indices: 116424--116476 Score: 88
Period size: 19 Copynumber: 2.8 Consensus size: 19
116414 AAAAAGTACT
*
116424 ATCGCAATGCGAAATAAAA
1 ATCGCAACGCGAAATAAAA
*
116443 ATCGCAACGCGAAATGAAA
1 ATCGCAACGCGAAATAAAA
116462 ATCGCAACGCGAAAT
1 ATCGCAACGCGAAAT
116477 TAAATTCGCG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.47, C:0.21, G:0.19, T:0.13
Consensus pattern (19 bp):
ATCGCAACGCGAAATAAAA
Found at i:116527 original size:33 final size:33
Alignment explanation
Indices: 116485--116611 Score: 168
Period size: 33 Copynumber: 3.8 Consensus size: 33
116475 ATTAAATTCG
* *
116485 CGTTGCGATTTTCAGTTCGCATTGTGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
*
116518 CGTTGCGATTTTCATTTCGCATTGCGAAATTCGCT
1 CGTTGCGATTTTCATTTCGCATTGCG--ATTCCCT
*
116553 --TTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
* *
116584 CGTTGTGATTTTCATTTCGCGTTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
116612 AGACATTAAG
Statistics
Matches: 84, Mismatches: 6, Indels: 8
0.86 0.06 0.08
Matches are distributed among these distances:
31 6 0.07
33 72 0.86
35 6 0.07
ACGTcount: A:0.13, C:0.22, G:0.20, T:0.44
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
Found at i:116544 original size:19 final size:19
Alignment explanation
Indices: 116520--116611 Score: 69
Period size: 19 Copynumber: 5.4 Consensus size: 19
116510 GATTCCCTCG
116520 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
* *
116539 TTGCGA-----AATTCGCT
1 TTGCGATTTTCATTTCGCA
116553 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
116572 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
* *
116586 TTGTGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCA
116605 TTGCGAT
1 TTGCGAT
116612 AGACATTAAG
Statistics
Matches: 55, Mismatches: 8, Indels: 20
0.66 0.10 0.24
Matches are distributed among these distances:
14 17 0.31
16 7 0.13
17 7 0.13
19 24 0.44
ACGTcount: A:0.14, C:0.21, G:0.20, T:0.46
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:116574 original size:66 final size:66
Alignment explanation
Indices: 116478--116610 Score: 212
Period size: 66 Copynumber: 2.0 Consensus size: 66
116468 ACGCGAAATT
*
116478 AAATTCGCGTTGCGATTTTCAGTTCGCATTGTGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
1 AAATTCGCGTTGCGATTTTCAGTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
116543 G
66 G
* * * * *
116544 AAATTCGCTTTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGTGATTTTCATTTCGCGTTGC
1 AAATTCGCGTTGCGATTTTCAGTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
116609 G
66 G
116610 A
1 A
116611 TAGACATTAA
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
66 61 1.00
ACGTcount: A:0.15, C:0.22, G:0.20, T:0.43
Consensus pattern (66 bp):
AAATTCGCGTTGCGATTTTCAGTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
G
Found at i:117416 original size:24 final size:24
Alignment explanation
Indices: 117382--117435 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
117372 TTTCGTTATC
*
117382 ATCAAAATCCGAGTATTGACCAAT
1 ATCAAAATCCGAGTATTGACCAAG
* * *
117406 ATCAAAGTCCGGGTATTGATCAAG
1 ATCAAAATCCGAGTATTGACCAAG
117430 ATCAAA
1 ATCAAA
117436 TTTCGAATAC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.41, C:0.19, G:0.17, T:0.24
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:118241 original size:21 final size:21
Alignment explanation
Indices: 118217--118271 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 21
118207 CGATTTTCCT
*
118217 AATTCGCAATGCGAATAAGTA
1 AATTCGCAATGCGAATAAGGA
**
118238 AATT-GCAATGCGAATTTGGA
1 AATTCGCAATGCGAATAAGGA
*
118258 AAATCGCAATGCGA
1 AATTCGCAATGCGA
118272 TACTGATTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 16 0.55
21 13 0.45
ACGTcount: A:0.40, C:0.15, G:0.22, T:0.24
Consensus pattern (21 bp):
AATTCGCAATGCGAATAAGGA
Found at i:118302 original size:41 final size:40
Alignment explanation
Indices: 118257--118348 Score: 105
Period size: 41 Copynumber: 2.3 Consensus size: 40
118247 GCGAATTTGG
* *
118257 AAAATCGCAATGCGATACTGA-TTATCGCAATGAGATAATA
1 AAAATCGCAATGAGATACTGACTT-TCGCAACGAGATAATA
* * **
118297 CAAAATCGCAACGAGATTCTGACTTTCGCAACGAGATTCTA
1 -AAAATCGCAATGAGATACTGACTTTCGCAACGAGATAATA
118338 AAAATCGCAAT
1 AAAATCGCAAT
118349 CATCTTCAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
40 10 0.23
41 31 0.72
42 2 0.05
ACGTcount: A:0.40, C:0.20, G:0.16, T:0.24
Consensus pattern (40 bp):
AAAATCGCAATGAGATACTGACTTTCGCAACGAGATAATA
Found at i:118345 original size:20 final size:20
Alignment explanation
Indices: 118298--118347 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
118288 GAGATAATAC
*
118298 AAAATCGCAACGAGATTCTG
1 AAAATCGCAACGAGATTCTA
***
118318 ACTTTCGCAACGAGATTCTA
1 AAAATCGCAACGAGATTCTA
118338 AAAATCGCAA
1 AAAATCGCAA
118348 TCATCTTCAA
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.40, C:0.22, G:0.16, T:0.22
Consensus pattern (20 bp):
AAAATCGCAACGAGATTCTA
Found at i:118607 original size:20 final size:20
Alignment explanation
Indices: 118555--118642 Score: 88
Period size: 20 Copynumber: 4.4 Consensus size: 20
118545 CAACGGGGAA
*
118555 ATCGCAACGCAAAAATGGCT
1 ATCGCAACGCGAAAATGGCT
118575 ATCGCAACGCGAAAATGGCT
1 ATCGCAACGCGAAAATGGCT
* ** ***
118595 ATCGTAATTCG-AAATGAAAA
1 ATCGCAACGCGAAAATG-GCT
118615 ATCGCAACGCGAAAATGGCT
1 ATCGCAACGCGAAAATGGCT
*
118635 ATTGCAAC
1 ATCGCAAC
118643 TAGAAAATCG
Statistics
Matches: 52, Mismatches: 14, Indels: 4
0.74 0.20 0.06
Matches are distributed among these distances:
19 5 0.10
20 42 0.81
21 5 0.10
ACGTcount: A:0.40, C:0.22, G:0.20, T:0.18
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGGCT
Found at i:118712 original size:19 final size:19
Alignment explanation
Indices: 118688--118736 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
118678 GATTTTCTCG
**
118688 TTGCGATTTTCATTTTGCA
1 TTGCGATTTTCATTTCACA
118707 TTGCGATTTTCATTTCACA
1 TTGCGATTTTCATTTCACA
118726 TTGCGATTTTC
1 TTGCGATTTTC
118737 TCGTTGCGAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.16, C:0.18, G:0.14, T:0.51
Consensus pattern (19 bp):
TTGCGATTTTCATTTCACA
Found at i:120361 original size:21 final size:21
Alignment explanation
Indices: 120337--120406 Score: 56
Period size: 21 Copynumber: 3.3 Consensus size: 21
120327 TGACAGTGGC
120337 CTCTTGAACGGTGTGGGGGGA
1 CTCTTGAACGGTGTGGGGGGA
* * *
120358 CTCTTG-AGGGATGAT-AGGGGC
1 CTCTTGAACGG-TG-TGGGGGGA
*
120379 CTCTTGAACGAT-TGGAGGGGA
1 CTCTTGAACGGTGTGG-GGGGA
120400 CTCTTGA
1 CTCTTGA
120407 GGGATGATAG
Statistics
Matches: 37, Mismatches: 7, Indels: 10
0.69 0.13 0.19
Matches are distributed among these distances:
19 1 0.03
20 3 0.08
21 30 0.81
22 3 0.08
ACGTcount: A:0.19, C:0.16, G:0.40, T:0.26
Consensus pattern (21 bp):
CTCTTGAACGGTGTGGGGGGA
Found at i:120414 original size:42 final size:42
Alignment explanation
Indices: 120325--120417 Score: 143
Period size: 42 Copynumber: 2.2 Consensus size: 42
120315 CCTCTTCAAC
* * *
120325 GATGACAGTGGCCTCTTGAACGGTGTGGGGGGACTCTTGAGG
1 GATGATAGGGGCCTCTTGAACGATGTGGGGGGACTCTTGAGG
120367 GATGATAGGGGCCTCTTGAACGAT-TGGAGGGGACTCTTGAGG
1 GATGATAGGGGCCTCTTGAACGATGTGG-GGGGACTCTTGAGG
120409 GATGATAGG
1 GATGATAGG
120418 TGAGTCGGGC
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
41 3 0.06
42 44 0.94
ACGTcount: A:0.20, C:0.14, G:0.42, T:0.24
Consensus pattern (42 bp):
GATGATAGGGGCCTCTTGAACGATGTGGGGGGACTCTTGAGG
Found at i:120840 original size:19 final size:18
Alignment explanation
Indices: 120776--120908 Score: 93
Period size: 20 Copynumber: 7.5 Consensus size: 18
120766 ACGAAACTTA
*
120776 AAATCGCAACGCGAAAATG
1 AAATCGCAATGCG-AAATG
* *
120795 ACTATCGCAACGCGGAAATGG
1 A-AATCGCAATGC-GAAAT-G
**
120816 CTATCGCAATGCGAAATG
1 AAATCGCAATGCGAAATG
*
120834 CAAATCGCAA--CGACA--
1 -AAATCGCAATGCGAAATG
120849 AAATCGCAATGCGAAATG
1 AAATCGCAATGCGAAATG
*
120867 AAAATCGCAA--CGACA--
1 -AAATCGCAATGCGAAATG
120882 AAATCGCAATGCGAAATG
1 AAATCGCAATGCGAAATG
120900 AAATCGCAA
1 AAATCGCAA
120909 CGACAAAATC
Statistics
Matches: 92, Mismatches: 9, Indels: 27
0.72 0.07 0.21
Matches are distributed among these distances:
14 18 0.20
16 8 0.09
17 8 0.09
18 10 0.11
19 22 0.24
20 24 0.26
21 2 0.02
ACGTcount: A:0.44, C:0.23, G:0.20, T:0.14
Consensus pattern (18 bp):
AAATCGCAATGCGAAATG
Found at i:120854 original size:14 final size:14
Alignment explanation
Indices: 120835--120924 Score: 81
Period size: 14 Copynumber: 5.8 Consensus size: 14
120825 TGCGAAATGC
120835 AAATCGCAACGACA
1 AAATCGCAACGACA
*
120849 AAATCGCAATGCGAAATGA
1 AAATCGCAA--CG--A-CA
120868 AAATCGCAACGACA
1 AAATCGCAACGACA
*
120882 AAATCGCAATGCGAAA
1 AAATCGCAA--CGACA
120898 TGAAATCGCAACGACA
1 --AAATCGCAACGACA
120914 AAATCGCAACG
1 AAATCGCAACG
120925 CGAAACACAA
Statistics
Matches: 63, Mismatches: 4, Indels: 18
0.74 0.05 0.21
Matches are distributed among these distances:
14 30 0.48
15 1 0.02
16 10 0.16
17 2 0.03
18 10 0.16
19 10 0.16
ACGTcount: A:0.48, C:0.23, G:0.18, T:0.11
Consensus pattern (14 bp):
AAATCGCAACGACA
Found at i:120860 original size:33 final size:33
Alignment explanation
Indices: 120818--120940 Score: 203
Period size: 33 Copynumber: 3.8 Consensus size: 33
120808 GGAAATGGCT
120818 ATCGCAATGCGAAATGCAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGCAAATCGCAACGACAAA
*
120851 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGCAAATCGCAACGACAAA
120884 ATCGCAATGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAATGCGAAATGCAAATCGCAACGACAAA
* **
120916 ATCGCAACGCGAAACACAAATCGCA
1 ATCGCAATGCGAAATGCAAATCGCA
120941 TTGCGATTTT
Statistics
Matches: 85, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
32 29 0.34
33 56 0.66
ACGTcount: A:0.46, C:0.24, G:0.18, T:0.11
Consensus pattern (33 bp):
ATCGCAATGCGAAATGCAAATCGCAACGACAAA
Found at i:120937 original size:65 final size:66
Alignment explanation
Indices: 120818--120940 Score: 205
Period size: 65 Copynumber: 1.9 Consensus size: 66
120808 GGAAATGGCT
* *
120818 ATCGCAATGCGAAATGCAAATCGCAACGACAAAATCGCAATGCGAAATGAAAATCGCAACGACAA
1 ATCGCAATGCGAAATGCAAATCGCAACGACAAAATCGCAACGCGAAATCAAAATCGCAACGACAA
120883 A
66 A
120884 ATCGCAATGCGAAATG-AAATCGCAACGACAAAATCGCAACGCGAAA-CACAAATCGCA
1 ATCGCAATGCGAAATGCAAATCGCAACGACAAAATCGCAACGCGAAATCA-AAATCGCA
120941 TTGCGATTTT
Statistics
Matches: 54, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
64 1 0.02
65 37 0.69
66 16 0.30
ACGTcount: A:0.46, C:0.24, G:0.18, T:0.11
Consensus pattern (66 bp):
ATCGCAATGCGAAATGCAAATCGCAACGACAAAATCGCAACGCGAAATCAAAATCGCAACGACAA
A
Found at i:120975 original size:14 final size:14
Alignment explanation
Indices: 120952--121016 Score: 60
Period size: 14 Copynumber: 4.4 Consensus size: 14
120942 TGCGATTTTC
120952 ATTTTG-CGTTGCG
1 ATTTTGTCGTTGCG
120965 ATTTTGTCGTTGCG
1 ATTTTGTCGTTGCG
* *
120979 ATTATCATTTCGTATTGTG
1 ATT-T--TGTCG--TTGCG
120998 ATTTTGTCGTTGCG
1 ATTTTGTCGTTGCG
121012 ATTTT
1 ATTTT
121017 TATTTCGCAT
Statistics
Matches: 42, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
13 6 0.14
14 19 0.45
15 1 0.02
16 4 0.10
17 4 0.10
18 1 0.02
19 7 0.17
ACGTcount: A:0.12, C:0.12, G:0.23, T:0.52
Consensus pattern (14 bp):
ATTTTGTCGTTGCG
Found at i:120987 original size:33 final size:33
Alignment explanation
Indices: 120941--121032 Score: 130
Period size: 33 Copynumber: 2.8 Consensus size: 33
120931 ACAAATCGCA
* *
120941 TTGCGATTTTCATTTTGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
* * *
120974 TTGCGATTATCATTTCGTATTGTGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
*
121007 TTGCGATTTTTATTTCGCATTGCGAT
1 TTGCGATTTTCATTTCGCATTGCGAT
121033 AGCCATTTTC
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 50 1.00
ACGTcount: A:0.13, C:0.14, G:0.22, T:0.51
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
Found at i:121068 original size:20 final size:20
Alignment explanation
Indices: 121019--121070 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
121009 GCGATTTTTA
*
121019 TTTCGCATTGCGATAGCCAT
1 TTTCGCGTTGCGATAGCCAT
*
121039 TTTCGCGTTGCGATAGTCAT
1 TTTCGCGTTGCGATAGCCAT
*
121059 TTTCGTGTTGCG
1 TTTCGCGTTGCG
121071 GAAGTAAACT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.13, C:0.21, G:0.25, T:0.40
Consensus pattern (20 bp):
TTTCGCGTTGCGATAGCCAT
Found at i:121580 original size:18 final size:18
Alignment explanation
Indices: 121554--121598 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
121544 GTCGATCAGA
*
121554 TGATGGCTCTGGGTGAGG
1 TGATGGCTCTGGGCGAGG
*
121572 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTGGGCGAGG
121590 TGATGGCTC
1 TGATGGCTC
121599 CCGAAGTGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.13, C:0.16, G:0.44, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTGGGCGAGG
Found at i:122876 original size:19 final size:19
Alignment explanation
Indices: 122854--122902 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
122844 TATTTAATAA
*
122854 GCAATGCGATCGCTAATTC
1 GCAACGCGATCGCTAATTC
*
122873 GCAACGCGATCGCTAATTT
1 GCAACGCGATCGCTAATTC
122892 GCAACGCGATC
1 GCAACGCGATC
122903 TCTATTATCG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (19 bp):
GCAACGCGATCGCTAATTC
Found at i:123018 original size:20 final size:21
Alignment explanation
Indices: 122993--123044 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
122983 TTTTTCCAAT
*
122993 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
123013 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
123034 TCGCAATGCGA
1 TCGCAATGCGA
123045 TACTGACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:123058 original size:20 final size:20
Alignment explanation
Indices: 123033--123127 Score: 75
Period size: 20 Copynumber: 4.7 Consensus size: 20
123023 AATTGGGAAA
*
123033 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * * *
123053 ATCGCAATGCAATAAT-ACAAA
1 ATCGCAACGCGATACTGAC--T
**
123074 ATCGCAACAAGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
123094 TTCGCAACGCGATTCTGACT
1 ATCGCAACGCGATACTGACT
*
123114 TTCGCAACGCGATA
1 ATCGCAACGCGATA
123128 ATACATAATC
Statistics
Matches: 58, Mismatches: 14, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
19 2 0.03
20 43 0.74
21 11 0.19
22 2 0.03
ACGTcount: A:0.35, C:0.25, G:0.17, T:0.23
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:123334 original size:22 final size:22
Alignment explanation
Indices: 123306--123349 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
123296 CACTCTCTCA
123306 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
* *
123328 CCCATCTTCGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
123350 TATCTAAATC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.20, C:0.43, G:0.16, T:0.20
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:124281 original size:20 final size:20
Alignment explanation
Indices: 124258--124303 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
124248 AAATGAAAAG
124258 CGCAACACGAAAATGACTAT
1 CGCAACACGAAAATGACTAT
* **
124278 CGCAACGCGAATTTGACTAT
1 CGCAACACGAAAATGACTAT
124298 CGCAAC
1 CGCAAC
124304 GAGAGAATCA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.37, C:0.28, G:0.17, T:0.17
Consensus pattern (20 bp):
CGCAACACGAAAATGACTAT
Found at i:124594 original size:22 final size:22
Alignment explanation
Indices: 124567--124610 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
124557 GATGGAGATA
124567 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
124589 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
124611 TGAGAGAGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.18, C:0.16, G:0.45, T:0.20
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:124875 original size:20 final size:20
Alignment explanation
Indices: 124769--124883 Score: 81
Period size: 20 Copynumber: 5.7 Consensus size: 20
124759 CGCTTTGAAA
*
124769 ATCGCATTGCGATTATGT-ATT
1 ATCGCATTGCGA-TA-GTCAGT
* * *
124790 ATCGCGTTGCGAAAGTCAGA
1 ATCGCATTGCGATAGTCAGT
* *
124810 ATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATAGTCAGT
*** * *
124830 ATCTTGTTGCGATTTTGT-ATT
1 ATCGCATTGCGA--TAGTCAGT
124851 ATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATAGTCAGT
124871 ATCGCATTGCGAT
1 ATCGCATTGCGAT
124884 TTTCCCAATT
Statistics
Matches: 75, Mismatches: 15, Indels: 9
0.76 0.15 0.09
Matches are distributed among these distances:
19 5 0.07
20 46 0.61
21 22 0.29
22 2 0.03
ACGTcount: A:0.23, C:0.17, G:0.24, T:0.35
Consensus pattern (20 bp):
ATCGCATTGCGATAGTCAGT
Found at i:124902 original size:41 final size:41
Alignment explanation
Indices: 124810--124904 Score: 102
Period size: 41 Copynumber: 2.3 Consensus size: 41
124800 GAAAGTCAGA
* *** ** *
124810 ATCGCGTTGCGAAAGTCAGTATCTTGTTGCGATTTTGTATT
1 ATCGCGTTGCGATAGTCAGTATCGCATTGCGATTTTCCAAT
*
124851 ATCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCCCAAT
1 ATCGCGTTGCGATAGTCAGTATCGCATTGCGATTTT-CCAAT
124893 -TCGCGTTGCGAT
1 ATCGCGTTGCGAT
124905 TTACTTATTC
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
41 42 0.95
42 2 0.05
ACGTcount: A:0.20, C:0.20, G:0.23, T:0.37
Consensus pattern (41 bp):
ATCGCGTTGCGATAGTCAGTATCGCATTGCGATTTTCCAAT
Found at i:124994 original size:21 final size:21
Alignment explanation
Indices: 124954--124994 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
124944 ACTGTAGACC
** *
124954 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGAAATGCAACT
124975 ATCGCAACGCGAAATGCAAC
1 ATCGCAACGCGAAATGCAAC
124995 GCGAATTTGC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.34, C:0.29, G:0.17, T:0.20
Consensus pattern (21 bp):
ATCGCAACGCGAAATGCAACT
Found at i:125024 original size:20 final size:20
Alignment explanation
Indices: 125001--125046 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
124991 CAACGCGAAT
*
125001 TTGCGATAATAGAGATCGCG
1 TTGCGATAATAGAGATCGCA
* *
125021 TTGCGA-ATTAGCGATCGCA
1 TTGCGATAATAGAGATCGCA
125040 TTGCGAT
1 TTGCGAT
125047 TTTGTTGGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.28
Consensus pattern (20 bp):
TTGCGATAATAGAGATCGCA
Found at i:128464 original size:20 final size:20
Alignment explanation
Indices: 128441--128534 Score: 82
Period size: 20 Copynumber: 4.7 Consensus size: 20
128431 GAATAAGTAA
*
128441 ATCGCAATGCGATACTTACT
1 ATCGCAACGCGATACTTACT
* * *
128461 ATCGCAATGCGATA-ATACAAA
1 ATCGCAACGCGATACTTAC--T
*
128482 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTTACT
* *
128502 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTTACT
* *
128522 TTCGCAACACGAT
1 ATCGCAACGCGAT
128535 TTACATAATC
Statistics
Matches: 61, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
19 3 0.05
20 43 0.70
21 12 0.20
22 3 0.05
ACGTcount: A:0.34, C:0.26, G:0.16, T:0.24
Consensus pattern (20 bp):
ATCGCAACGCGATACTTACT
Found at i:128750 original size:22 final size:22
Alignment explanation
Indices: 128722--128765 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
128712 CACTCTCTCA
128722 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
*
128744 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
128766 TATCTAAATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.45, G:0.16, T:0.18
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:130444 original size:14 final size:14
Alignment explanation
Indices: 130425--130478 Score: 63
Period size: 14 Copynumber: 3.5 Consensus size: 14
130415 GAAACTGACT
130425 ATCGCAACGAGAAA
1 ATCGCAACGAGAAA
130439 ATCGCAATGCGAAATGAAA
1 ATCGCAA--CG--A-GAAA
130458 ATCGCAACGAGAAA
1 ATCGCAACGAGAAA
130472 ATCGCAA
1 ATCGCAA
130479 TGCGATTTTC
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
14 18 0.51
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 11 0.31
ACGTcount: A:0.48, C:0.20, G:0.20, T:0.11
Consensus pattern (14 bp):
ATCGCAACGAGAAA
Found at i:130595 original size:20 final size:20
Alignment explanation
Indices: 130510--130597 Score: 97
Period size: 20 Copynumber: 4.4 Consensus size: 20
130500 CAATTTTCTA
*
130510 GTTGCAATAGCCATTTTCGC
1 GTTGCGATAGCCATTTTCGC
*** *
130530 GTTGCGATTTTTCA-TTTCGA
1 GTTGCGA-TAGCCATTTTCGC
* *
130550 ATTACGATAGCCATTTTCGC
1 GTTGCGATAGCCATTTTCGC
130570 GTTGCGATAGCCATTTTCGC
1 GTTGCGATAGCCATTTTCGC
130590 GTTGCGAT
1 GTTGCGAT
130598 TTCCCCGTTG
Statistics
Matches: 53, Mismatches: 13, Indels: 4
0.76 0.19 0.06
Matches are distributed among these distances:
19 3 0.06
20 47 0.89
21 3 0.06
ACGTcount: A:0.18, C:0.22, G:0.22, T:0.39
Consensus pattern (20 bp):
GTTGCGATAGCCATTTTCGC
Found at i:130740 original size:19 final size:19
Alignment explanation
Indices: 130718--130804 Score: 139
Period size: 19 Copynumber: 4.8 Consensus size: 19
130708 ATCGCAACGA
130718 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
130737 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
130756 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
130775 GAAAATCGCAA--CG--A-
1 GAAAATCGCAATGCGAAAT
130789 GAAAATCGCAATGCGA
1 GAAAATCGCAATGCGA
130805 TTTTCATTTC
Statistics
Matches: 65, Mismatches: 0, Indels: 8
0.89 0.00 0.11
Matches are distributed among these distances:
14 11 0.17
15 1 0.02
16 2 0.03
17 2 0.03
19 49 0.75
ACGTcount: A:0.47, C:0.17, G:0.22, T:0.14
Consensus pattern (19 bp):
GAAAATCGCAATGCGAAAT
Found at i:130769 original size:38 final size:33
Alignment explanation
Indices: 130689--130804 Score: 151
Period size: 33 Copynumber: 3.4 Consensus size: 33
130679 AAAACAGACT
* ***
130689 ATCGCAACGCGAAATGGCTATCGCAACGAGAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAAA
130722 ATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAAA
130760 ATCGCAATGCGAAATGAAAATCGCAACGAGAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAAA
130793 ATCGCAATGCGA
1 ATCGCAATGCGA
130805 TTTTCATTTC
Statistics
Matches: 74, Mismatches: 4, Indels: 10
0.84 0.05 0.11
Matches are distributed among these distances:
33 38 0.51
34 1 0.01
35 2 0.03
36 2 0.03
37 1 0.01
38 30 0.41
ACGTcount: A:0.44, C:0.20, G:0.22, T:0.14
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAAA
Found at i:130880 original size:20 final size:20
Alignment explanation
Indices: 130823--130880 Score: 89
Period size: 20 Copynumber: 2.9 Consensus size: 20
130813 TCGCATTGCG
* * *
130823 ATTTTCTCGTTGCGGTAACC
1 ATTTTCGCGTTGCGATAGCC
130843 ATTTTCGCGTTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
130863 ATTTTCGCGTTGCGATAG
1 ATTTTCGCGTTGCGATAG
130881 TCAAATGAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.16, C:0.22, G:0.24, T:0.38
Consensus pattern (20 bp):
ATTTTCGCGTTGCGATAGCC
Found at i:131967 original size:24 final size:24
Alignment explanation
Indices: 131940--131993 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
131930 GTATTCGAAA
* *
131940 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACACGGAC
*
131964 TTTGATATTGGTCAATACACGGAT
1 TTTGATATTGGTCAATACACGGAC
131988 TTTGAT
1 TTTGAT
131994 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (24 bp):
TTTGATATTGGTCAATACACGGAC
Found at i:132185 original size:12 final size:12
Alignment explanation
Indices: 132168--132192 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
132158 ATATAATCCT
132168 GAAGAAGAAAAA
1 GAAGAAGAAAAA
132180 GAAGAAGAAAAA
1 GAAGAAGAAAAA
132192 G
1 G
132193 TCCCCGAAGA
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:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:134527 original size:33 final size:33
Alignment explanation
Indices: 134481--134607 Score: 175
Period size: 33 Copynumber: 3.8 Consensus size: 33
134471 GAAAATTACT
*
134481 ATCGCAATGCGAAATGAAAATCGTAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* **
134514 ATCACAATGCGAAATGAAAATCGCAACGCTA-A
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* * *
134546 TTTCGCAATGCGAAATTAAAATCGCAACGAGGGA
1 -ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
134580 ATCGCAATGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
134608 CGAATTTAAT
Statistics
Matches: 80, Mismatches: 12, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
32 1 0.01
33 78 0.98
34 1 0.01
ACGTcount: A:0.43, C:0.19, G:0.21, T:0.17
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:134588 original size:66 final size:66
Alignment explanation
Indices: 134482--134614 Score: 221
Period size: 66 Copynumber: 2.0 Consensus size: 66
134472 AAAATTACTA
* *
134482 TCGCAATGCGAAATGAAAATCGTAACGAGAGAATCACAATGCGAAATGAAAATCGCAACGCTAAT
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCACAATGCGAAATGAAAATCGCAACGCGAAT
134547 T
66 T
* * *
134548 TCGCAATGCGAAATTAAAATCGCAACGAGGGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCACAATGCGAAATGAAAATCGCAACGCGAAT
134613 T
66 T
134614 T
1 T
134615 AATTTCGCGT
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
66 62 1.00
ACGTcount: A:0.42, C:0.19, G:0.21, T:0.18
Consensus pattern (66 bp):
TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCACAATGCGAAATGAAAATCGCAACGCGAAT
T
Found at i:134629 original size:19 final size:20
Alignment explanation
Indices: 134607--134649 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
134597 AAATCGCAAC
134607 GCGAATTT-AATTTCGCGTT
1 GCGAATTTCAATTTCGCGTT
* *
134626 GCGATTTTCATTTTCGCGTT
1 GCGAATTTCAATTTCGCGTT
134646 GCGA
1 GCGA
134650 TTCTCTCGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.16, C:0.19, G:0.23, T:0.42
Consensus pattern (20 bp):
GCGAATTTCAATTTCGCGTT
Found at i:134791 original size:14 final size:14
Alignment explanation
Indices: 134772--134808 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
134762 CATCAATTAA
134772 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
134786 ACAAATCACCTTTT
1 ACAAATCAACTTTT
134800 ACAAATCAA
1 ACAAATCAA
134809 TTAAACAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:136226 original size:21 final size:21
Alignment explanation
Indices: 136160--136226 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
136150 GTGAATCAGG
*
136160 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
136180 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
136202 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
136223 CTCT
1 CTCT
136227 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:136245 original size:42 final size:41
Alignment explanation
Indices: 136160--136282 Score: 113
Period size: 42 Copynumber: 2.9 Consensus size: 41
136150 GTGAATCAGG
* * * * *
136160 CTCTTGAATGGTGGGA-GGGACCTCTTCAACGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGGA-CTC-TCGAGGATGATAGGGGC
136202 CTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGAGGGGACTCTCGAGG-ATGATAGGGGC
* * * * *
136244 CTCTTCAACGATAGGAGTGGACTCTTGAGGGATGATAGG
1 CTCTTGAACGGTGGGAGGGGACTCTCGA-GGATGATAGG
136283 CGAGTCGGGC
Statistics
Matches: 68, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
41 4 0.06
42 58 0.85
43 6 0.09
ACGTcount: A:0.23, C:0.18, G:0.37, T:0.23
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGGACTCTCGAGGATGATAGGGGC
Found at i:138354 original size:33 final size:33
Alignment explanation
Indices: 138296--138394 Score: 135
Period size: 33 Copynumber: 3.0 Consensus size: 33
138286 ACGAGATAAT
* *
138296 GAGAATCGCAACGCGGAAATAACTATCGCAACGA
1 GAGAATCGCAACGC-GAAATGACTATCGCAACCA
*
138330 GAGAATCGCAACGCGAAATGACTATCGCGACCA
1 GAGAATCGCAACGCGAAATGACTATCGCAACCA
* **
138363 GACAATCGCAACGCGAAATGAAAATCGCAACC
1 GAGAATCGCAACGCGAAATGACTATCGCAACC
138395 GCGAAATAAA
Statistics
Matches: 58, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
33 44 0.76
34 14 0.24
ACGTcount: A:0.40, C:0.26, G:0.22, T:0.11
Consensus pattern (33 bp):
GAGAATCGCAACGCGAAATGACTATCGCAACCA
Found at i:138388 original size:19 final size:19
Alignment explanation
Indices: 138271--138455 Score: 167
Period size: 19 Copynumber: 10.1 Consensus size: 19
138261 TCTTTTGGTT
*
138271 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
*
138290 GATAATGAGAATCGCAACGC
1 GA-AATGAAAATCGCAACGC
*
138310 GGAAAT-AACTATCGCAA--C
1 -GAAATGAA-AATCGCAACGC
*
138328 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
** *
138344 GAAATGACTATCGCGAC-C
1 GAAATGAAAATCGCAACGC
*
138362 ---A-GACAATCGCAACGC
1 GAAATGAAAATCGCAACGC
138377 GAAATGAAAATCGCAACCGC
1 GAAATGAAAATCGCAA-CGC
*
138397 GAAATAAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
138416 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
138435 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
138454 GA
1 GA
138456 TTTTGGTTTC
Statistics
Matches: 136, Mismatches: 15, Indels: 30
0.75 0.08 0.17
Matches are distributed among these distances:
14 17 0.12
15 4 0.03
16 2 0.01
17 1 0.01
18 4 0.03
19 63 0.46
20 43 0.32
21 2 0.01
ACGTcount: A:0.44, C:0.22, G:0.22, T:0.12
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:138409 original size:39 final size:38
Alignment explanation
Indices: 138366--138455 Score: 153
Period size: 39 Copynumber: 2.3 Consensus size: 38
138356 GCGACCAGAC
138366 AATCGCAACGCGAAATGAAAATCGCAACCGCGAAATAAA
1 AATCGCAACGCGAAATGAAAATCGCAA-CGCGAAATAAA
*
138405 AATCGCAACGCGAAATGAAAATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAAAATCGCAACGCGAAATAAA
*
138443 AATCGCAATGCGA
1 AATCGCAACGCGA
138456 TTTTGGTTTC
Statistics
Matches: 49, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
38 22 0.45
39 27 0.55
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (38 bp):
AATCGCAACGCGAAATGAAAATCGCAACGCGAAATAAA
Found at i:138484 original size:19 final size:19
Alignment explanation
Indices: 138451--138531 Score: 73
Period size: 19 Copynumber: 4.5 Consensus size: 19
138441 AAAATCGCAA
**
138451 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTTATTTCGCGT
138470 TGCGATTTTTATTTCGCGT
1 TGCGATTTTTATTTCGCGT
*
138489 TGCGA---TTA--TCTCGT
1 TGCGATTTTTATTTCGCGT
**
138503 TGCGATAGTTATTTCCGCGT
1 TGCGATTTTTATTT-CGCGT
138523 TGCGATTTT
1 TGCGATTTT
138532 CATTCTCGAA
Statistics
Matches: 50, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
14 10 0.20
16 3 0.06
17 3 0.06
19 23 0.46
20 11 0.22
ACGTcount: A:0.11, C:0.17, G:0.25, T:0.47
Consensus pattern (19 bp):
TGCGATTTTTATTTCGCGT
Found at i:139140 original size:21 final size:21
Alignment explanation
Indices: 139111--139203 Score: 91
Period size: 20 Copynumber: 4.5 Consensus size: 21
139101 ATAGTAAGTA
139111 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
139132 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
139152 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * * **
139173 TCGCGTTACGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
139193 TCGCATTGCGA
1 TCGCATTGCGA
139204 ATTGGGAAAA
Statistics
Matches: 56, Mismatches: 15, Indels: 3
0.76 0.20 0.04
Matches are distributed among these distances:
20 31 0.55
21 25 0.45
ACGTcount: A:0.18, C:0.25, G:0.17, T:0.40
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCCAAT
Found at i:139156 original size:41 final size:41
Alignment explanation
Indices: 139111--139203 Score: 177
Period size: 41 Copynumber: 2.3 Consensus size: 41
139101 ATAGTAAGTA
*
139111 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTACGATTTACTTAT
139152 TCGCATTGCGATTTTCCCAATTCGCGTTACGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTACGATTTACTTAT
139193 TCGCATTGCGA
1 TCGCATTGCGA
139204 ATTGGGAAAA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.18, C:0.25, G:0.17, T:0.40
Consensus pattern (41 bp):
TCGCATTGCGATTTTCCCAATTCGCGTTACGATTTACTTAT
Found at i:141124 original size:2 final size:2
Alignment explanation
Indices: 141117--141141 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
141107 ACGCTTGGTA
141117 CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT C
141142 ACACACACAC
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:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:141803 original size:59 final size:59
Alignment explanation
Indices: 141694--141805 Score: 138
Period size: 59 Copynumber: 1.9 Consensus size: 59
141684 TTAGTCAAAT
* * ** *
141694 GATCATTTTGTATCTTTTAATAGTCAGAGTACTCAATAAAGTAATATCCTATAGTCGGG
1 GATCATTTTATATCTTTTAATAGTCAGAATACTCAATAAAACAACATCCTATAGTCGGG
*
141753 GATCATTTTATAAT-TTTTAATAGTC-GAATGACTCAATAAAACAACGTCCTATA
1 GATCATTTTAT-ATCTTTTAATAGTCAGAAT-ACTCAATAAAACAACATCCTATA
141806 ACCGAATGAT
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
58 3 0.07
59 40 0.89
60 2 0.04
ACGTcount: A:0.36, C:0.14, G:0.13, T:0.37
Consensus pattern (59 bp):
GATCATTTTATATCTTTTAATAGTCAGAATACTCAATAAAACAACATCCTATAGTCGGG
Found at i:143380 original size:44 final size:44
Alignment explanation
Indices: 143292--143380 Score: 142
Period size: 44 Copynumber: 2.0 Consensus size: 44
143282 AAGTAATGGA
* * *
143292 GAAAACTGTAGGCACTTAAAAGTAGGCATGTAGACGAGCCGAAC
1 GAAAACTGTAGGCACCTAAAAGTAGGCATGTAAACGAACCGAAC
*
143336 GAAAACTGTAGGCACCTAAAAGTAGGCATGTAAACGAACTGAAC
1 GAAAACTGTAGGCACCTAAAAGTAGGCATGTAAACGAACCGAAC
143380 G
1 G
143381 TTCAGCAAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.40, C:0.18, G:0.26, T:0.16
Consensus pattern (44 bp):
GAAAACTGTAGGCACCTAAAAGTAGGCATGTAAACGAACCGAAC
Found at i:143965 original size:99 final size:99
Alignment explanation
Indices: 143856--144056 Score: 314
Period size: 99 Copynumber: 2.0 Consensus size: 99
143846 CGAACATGAA
*
143856 AAAGAAATTCAATTTGTTTAGTTATTCT-TGTTTGTTCGTTTAAAGTTAAACGAACGAACATGAA
1 AAAGAAATTCAATTTGTTTAGTT-TTCTGTGTTTGTTCGTTTAAAGTTAAACGAACGAACATAAA
* * * *
143920 CATACCCCCATTCGTGTTCGTTTATATGTCTACCT
65 CATACCCCCATTCATGTTCGTTTACAGGCCTACCT
* *
143955 AAAGAAATTCAGTTTGTTTAGTTTTTTGTGTTTGTTCGTTTAAAGTTAAACGAACGAACATAAAC
1 AAAGAAATTCAATTTGTTTAGTTTTCTGTGTTTGTTCGTTTAAAGTTAAACGAACGAACATAAAC
*
144020 ATACCCCCGTTCATGTTCGTTTACAGGCCTACCT
66 ATACCCCCATTCATGTTCGTTTACAGGCCTACCT
144054 AAA
1 AAA
144057 AGTATAACGG
Statistics
Matches: 93, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
98 3 0.03
99 90 0.97
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.38
Consensus pattern (99 bp):
AAAGAAATTCAATTTGTTTAGTTTTCTGTGTTTGTTCGTTTAAAGTTAAACGAACGAACATAAAC
ATACCCCCATTCATGTTCGTTTACAGGCCTACCT
Found at i:148400 original size:55 final size:55
Alignment explanation
Indices: 148316--148424 Score: 200
Period size: 55 Copynumber: 2.0 Consensus size: 55
148306 TCTCAAATGC
*
148316 TGGACTTGTGTTCATGAAGTCGAATCTGAAGATCAAAACATGACATCATATACAG
1 TGGACTTGTGTTCATGAAGTCCAATCTGAAGATCAAAACATGACATCATATACAG
*
148371 TGGACTTGTGTTCATGAAGTCCAATCTGAAGATCGAAACATGACATCATATACA
1 TGGACTTGTGTTCATGAAGTCCAATCTGAAGATCAAAACATGACATCATATACA
148425 TTCGAGAGCA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 52 1.00
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.28
Consensus pattern (55 bp):
TGGACTTGTGTTCATGAAGTCCAATCTGAAGATCAAAACATGACATCATATACAG
Done.