Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008278.1 Hibiscus syriacus cultivar Beakdansim tig00110937_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: 776496
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
File 1 of 3
Found at i:12886 original size:18 final size:18
Alignment explanation
Indices: 12865--12906 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
12855 GGAGGAGGGA
*
12865 GATCGACGATAGGTTCAG
1 GATCGACGACAGGTTCAG
12883 GATCGACGACAGGTTCAG
1 GATCGACGACAGGTTCAG
12901 GATCGA
1 GATCGA
12907 TGGGAGTTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.29, C:0.19, G:0.33, T:0.19
Consensus pattern (18 bp):
GATCGACGACAGGTTCAG
Found at i:13386 original size:18 final size:17
Alignment explanation
Indices: 13363--13401 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
13353 ACTTTATAAA
13363 ATATTAGGAATGAAAAAT
1 ATATTAGGAAT-AAAAAT
**
13381 ATATTATTAATAAAAAT
1 ATATTAGGAATAAAAAT
13398 ATAT
1 ATAT
13402 AAAAAATTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.56, C:0.00, G:0.08, T:0.36
Consensus pattern (17 bp):
ATATTAGGAATAAAAAT
Found at i:28054 original size:34 final size:34
Alignment explanation
Indices: 28009--28077 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
27999 GTTGGATATT
*
28009 ATTTAACTCCTACAATCATTCTTTGATGTAGATC
1 ATTTAACTCCTACAATAATTCTTTGATGTAGATC
*
28043 ATTTAAGTCCTACAATAATTCTTTGATGTAGATC
1 ATTTAACTCCTACAATAATTCTTTGATGTAGATC
28077 A
1 A
28078 AATATGCTTG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.32, C:0.17, G:0.10, T:0.41
Consensus pattern (34 bp):
ATTTAACTCCTACAATAATTCTTTGATGTAGATC
Found at i:32833 original size:23 final size:23
Alignment explanation
Indices: 32791--32841 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
32781 ATAAATTTAT
** *
32791 TATATTTATTTATTATAAAAAAA
1 TATATTTATTTAAAAAAAAAAAA
*
32814 TATATTTATTTAAAAAAAAAAAC
1 TATATTTATTTAAAAAAAAAAAA
32837 TATAT
1 TATAT
32842 AATTGAATCA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (23 bp):
TATATTTATTTAAAAAAAAAAAA
Found at i:33284 original size:23 final size:22
Alignment explanation
Indices: 33248--33299 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 22
33238 TATTTTAATC
* * *
33248 AATTTAAATTTAAAACTAAATA
1 AATTAAAAATTAAAAATAAATA
*
33270 AATATAAAAATTAAAAATAATTA
1 AAT-TAAAAATTAAAAATAAATA
33293 AATTAAA
1 AATTAAA
33300 GTGTATGAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
22 7 0.28
23 18 0.72
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (22 bp):
AATTAAAAATTAAAAATAAATA
Found at i:35849 original size:37 final size:37
Alignment explanation
Indices: 35808--35880 Score: 96
Period size: 37 Copynumber: 2.0 Consensus size: 37
35798 ATTTTTTAAC
*
35808 AAATTGAAAAATATTTATAT-ATTTTCTTTA-AAAATTT
1 AAATTCAAAAA-ATTTATATAATTTT-TTTACAAAATTT
*
35845 AAATTCATAAAATTTATATAATTTTTTTACAAAATT
1 AAATTCAAAAAATTTATATAATTTTTTTACAAAATT
35881 AAAAATATAG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
36 12 0.38
37 20 0.62
ACGTcount: A:0.47, C:0.04, G:0.01, T:0.48
Consensus pattern (37 bp):
AAATTCAAAAAATTTATATAATTTTTTTACAAAATTT
Found at i:37099 original size:29 final size:29
Alignment explanation
Indices: 37067--37159 Score: 66
Period size: 29 Copynumber: 3.1 Consensus size: 29
37057 ATAAAATTAG
37067 AATGTTCAAAAGTTTAAGGACTAATTTAA
1 AATGTTCAAAAGTTTAAGGACTAATTTAA
* * * * *
37096 AATGAGAGTT--ATAGTCTAGGGA-TGAAATTAT
1 AAT----GTTCAAAAGTTTAAGGACT-AATTTAA
*
37127 AATATTCAAAAGTTTAAGGACTAATTTAA
1 AATGTTCAAAAGTTTAAGGACTAATTTAA
37156 AATG
1 AATG
37160 AGAGTCATAG
Statistics
Matches: 44, Mismatches: 12, Indels: 16
0.61 0.17 0.22
Matches are distributed among these distances:
27 2 0.05
29 20 0.45
30 2 0.05
31 17 0.39
33 3 0.07
ACGTcount: A:0.44, C:0.05, G:0.17, T:0.33
Consensus pattern (29 bp):
AATGTTCAAAAGTTTAAGGACTAATTTAA
Found at i:37110 original size:60 final size:60
Alignment explanation
Indices: 37014--37169 Score: 201
Period size: 60 Copynumber: 2.6 Consensus size: 60
37004 TGGAACATTT
** * *
37014 AAAAGTTTGGGGACCAATTTAGAAA-GAGTA-TCATAGT-TAAGGGATAAAATTAGAATGTTC
1 AAAAGTTTAAGGACTAATTTA-AAATGAG-AGTCATAGTCT-AGGGATAAAATTAGAATATTC
* * *
37074 AAAAGTTTAAGGACTAATTTAAAATGAGAGTTATAGTCTAGGGATGAAATTATAATATTC
1 AAAAGTTTAAGGACTAATTTAAAATGAGAGTCATAGTCTAGGGATAAAATTAGAATATTC
37134 AAAAGTTTAAGGACTAATTTAAAATGAGAGTCATAG
1 AAAAGTTTAAGGACTAATTTAAAATGAGAGTCATAG
37170 AATGTTAATA
Statistics
Matches: 85, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
59 4 0.05
60 80 0.94
61 1 0.01
ACGTcount: A:0.44, C:0.06, G:0.21, T:0.30
Consensus pattern (60 bp):
AAAAGTTTAAGGACTAATTTAAAATGAGAGTCATAGTCTAGGGATAAAATTAGAATATTC
Found at i:45754 original size:14 final size:14
Alignment explanation
Indices: 45737--45766 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
45727 TGATGACTAA
*
45737 AATTTTTATATAAT
1 AATTTTTATAAAAT
45751 AATTTTTATAAAAT
1 AATTTTTATAAAAT
45765 AA
1 AA
45767 GTATTTTTGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
AATTTTTATAAAAT
Found at i:47785 original size:17 final size:19
Alignment explanation
Indices: 47751--47792 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
47741 AGAGATGATG
*
47751 AAAATATATAAAAAAATTT
1 AAAATATATAAAAAATTTT
*
47770 AAAATATAT-AACAATTTT
1 AAAATATATAAAAAATTTT
47788 AAAAT
1 AAAAT
47793 TTTCAAGAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 12 0.57
19 9 0.43
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (19 bp):
AAAATATATAAAAAATTTT
Found at i:52125 original size:21 final size:20
Alignment explanation
Indices: 52101--52146 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
52091 ATAAATCCAT
52101 AAATCCCTAAACCTAATACCC
1 AAATCCCTAAACCTAAT-CCC
** *
52122 AAATTTCTAACCCTAATCCC
1 AAATCCCTAAACCTAATCCC
52142 AAATC
1 AAATC
52147 TATCATTCTC
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
20 7 0.33
21 14 0.67
ACGTcount: A:0.41, C:0.35, G:0.00, T:0.24
Consensus pattern (20 bp):
AAATCCCTAAACCTAATCCC
Found at i:52142 original size:20 final size:21
Alignment explanation
Indices: 52107--52145 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
52097 CCATAAATCC
52107 CTAAACCTAATACCCAAATTT
1 CTAAACCTAATACCCAAATTT
*
52128 CTAACCCTAAT-CCCAAAT
1 CTAAACCTAATACCCAAAT
52146 CTATCATTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.41, C:0.33, G:0.00, T:0.26
Consensus pattern (21 bp):
CTAAACCTAATACCCAAATTT
Found at i:63869 original size:80 final size:81
Alignment explanation
Indices: 63757--63923 Score: 237
Period size: 83 Copynumber: 2.0 Consensus size: 81
63747 GTCTGATTAA
**** * * *
63757 AAAGCAATTAGATTCAACTTAGTTTTCCTTTTTTTT-TTTTAATTCTAAACAGGATTTTAAAATA
1 AAAGCAATTAGATTCAACTTAGTTTTCCTTTTTTTTAAAAAAAATCCAAACAGGATTTTAAAAGA
63821 TATGATCTAATTTGAT
66 TATGATCTAATTTGAT
*
63837 AAAGCAATTAGATTCAACTTAGTTTTCCTTTTTTTTAAAAAAAAAATCCAAACATGATTTTAAAA
1 AAAGCAATTAGATTCAACTTAGTTTTCCTTTTTTTT--AAAAAAAATCCAAACAGGATTTTAAAA
63902 GATATGATCTAATTTGAT
64 GATATGATCTAATTTGAT
63920 AAAG
1 AAAG
63924 GAAAAAAATA
Statistics
Matches: 76, Mismatches: 8, Indels: 3
0.87 0.09 0.03
Matches are distributed among these distances:
80 36 0.47
83 40 0.53
ACGTcount: A:0.39, C:0.10, G:0.09, T:0.42
Consensus pattern (81 bp):
AAAGCAATTAGATTCAACTTAGTTTTCCTTTTTTTTAAAAAAAATCCAAACAGGATTTTAAAAGA
TATGATCTAATTTGAT
Found at i:71833 original size:29 final size:29
Alignment explanation
Indices: 71791--71923 Score: 203
Period size: 29 Copynumber: 4.6 Consensus size: 29
71781 AATTCTACAG
* *
71791 TGGCATCCGAGCGAGCTTGGAGGTTGCCA
1 TGGCATCCGAGCGACCTTGGAGGTCGCCA
71820 TGGCATCCGAGCGACCTTGGAGGTCGCCA
1 TGGCATCCGAGCGACCTTGGAGGTCGCCA
* * *
71849 TGGTATCCGGGAGACCTTGGAGGTCGCCA
1 TGGCATCCGAGCGACCTTGGAGGTCGCCA
* *
71878 TGGTATCCGGGCGACCTTGGAGGTCGCCA
1 TGGCATCCGAGCGACCTTGGAGGTCGCCA
71907 TGGCATCCGAGCGACCT
1 TGGCATCCGAGCGACCT
71924 GTGTGGTGTT
Statistics
Matches: 96, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 96 1.00
ACGTcount: A:0.17, C:0.28, G:0.36, T:0.20
Consensus pattern (29 bp):
TGGCATCCGAGCGACCTTGGAGGTCGCCA
Found at i:72185 original size:21 final size:21
Alignment explanation
Indices: 72159--72230 Score: 65
Period size: 21 Copynumber: 3.3 Consensus size: 21
72149 GGGAGATTCC
72159 TGCATCCGTAGCTGCATGCGT
1 TGCATCCGTAGCTGCATGCGT
* * * *
72180 TGCATCCATAGCTGGGAGATTC-C
1 TGCATCCGTAGCT--G-CATGCGT
*
72203 TGCATCCGTAGCTGCATGTGT
1 TGCATCCGTAGCTGCATGCGT
72224 TGCATCC
1 TGCATCC
72231 ATAGTTGCGT
Statistics
Matches: 38, Mismatches: 9, Indels: 8
0.69 0.16 0.15
Matches are distributed among these distances:
20 2 0.05
21 20 0.53
23 13 0.34
24 3 0.08
ACGTcount: A:0.17, C:0.28, G:0.26, T:0.29
Consensus pattern (21 bp):
TGCATCCGTAGCTGCATGCGT
Found at i:72207 original size:44 final size:44
Alignment explanation
Indices: 72144--72234 Score: 173
Period size: 44 Copynumber: 2.1 Consensus size: 44
72134 AGCTAGATTC
72144 TAGCTGGGAGATTCCTGCATCCGTAGCTGCATGCGTTGCATCCA
1 TAGCTGGGAGATTCCTGCATCCGTAGCTGCATGCGTTGCATCCA
*
72188 TAGCTGGGAGATTCCTGCATCCGTAGCTGCATGTGTTGCATCCA
1 TAGCTGGGAGATTCCTGCATCCGTAGCTGCATGCGTTGCATCCA
72232 TAG
1 TAG
72235 TTGCGTTATT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.19, C:0.25, G:0.27, T:0.29
Consensus pattern (44 bp):
TAGCTGGGAGATTCCTGCATCCGTAGCTGCATGCGTTGCATCCA
Found at i:72208 original size:23 final size:23
Alignment explanation
Indices: 72144--72216 Score: 80
Period size: 23 Copynumber: 3.3 Consensus size: 23
72134 AGCTAGATTC
72144 TAGCTGGGAGATTCCTGCATCCG
1 TAGCTGGGAGATTCCTGCATCCG
* * * *
72167 TAGCT--G-CATGCGTTGCATCCA
1 TAGCTGGGAGATTC-CTGCATCCG
72188 TAGCTGGGAGATTCCTGCATCCG
1 TAGCTGGGAGATTCCTGCATCCG
72211 TAGCTG
1 TAGCTG
72217 CATGTGTTGC
Statistics
Matches: 38, Mismatches: 8, Indels: 8
0.70 0.15 0.15
Matches are distributed among these distances:
20 3 0.08
21 13 0.34
23 19 0.50
24 3 0.08
ACGTcount: A:0.18, C:0.26, G:0.29, T:0.27
Consensus pattern (23 bp):
TAGCTGGGAGATTCCTGCATCCG
Found at i:72627 original size:21 final size:21
Alignment explanation
Indices: 72602--72645 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
72592 AATCTAGTTA
72602 ATTAGTTTGTTAGTATAAATT
1 ATTAGTTTGTTAGTATAAATT
* *
72623 ATTAGTTTGTTAGTTTAAGTT
1 ATTAGTTTGTTAGTATAAATT
72644 AT
1 AT
72646 ATTATATTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.16, T:0.55
Consensus pattern (21 bp):
ATTAGTTTGTTAGTATAAATT
Found at i:72655 original size:28 final size:30
Alignment explanation
Indices: 72622--72684 Score: 103
Period size: 28 Copynumber: 2.2 Consensus size: 30
72612 TAGTATAAAT
*
72622 TATTAGTTTGTTAGTTTAAG-T-TATATTA
1 TATTAGTTTATTAGTTTAAGTTATATATTA
72650 TATTAGTTTATTAGTTTAAGTTATATATTA
1 TATTAGTTTATTAGTTTAAGTTATATATTA
72680 TATTA
1 TATTA
72685 TATAAAAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 19 0.59
29 1 0.03
30 12 0.38
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (30 bp):
TATTAGTTTATTAGTTTAAGTTATATATTA
Found at i:73236 original size:20 final size:21
Alignment explanation
Indices: 73192--73236 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
73182 AAATATTGTG
**
73192 TTTAAAAATATTTAGTGTTGT
1 TTTAAAAATATTTAGTGTTAA
*
73213 TTTAAAAATATTTTGT-TTAA
1 TTTAAAAATATTTAGTGTTAA
73233 TTTA
1 TTTA
73237 CATTGTATGT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.56
Consensus pattern (21 bp):
TTTAAAAATATTTAGTGTTAA
Found at i:73526 original size:26 final size:25
Alignment explanation
Indices: 73497--73555 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 25
73487 AAATCATATT
*
73497 ATTATTAAATTATTAAATATCAAATC
1 ATTATTAAA-TAGTAAATATCAAATC
*
73523 ATTAGATT-AATAGTAATTATCAAATC
1 ATT--ATTAAATAGTAAATATCAAATC
73549 ATTATTA
1 ATTATTA
73556 GGTTTATTAG
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
24 3 0.11
26 20 0.71
27 2 0.07
28 3 0.11
ACGTcount: A:0.47, C:0.07, G:0.03, T:0.42
Consensus pattern (25 bp):
ATTATTAAATAGTAAATATCAAATC
Found at i:76469 original size:26 final size:26
Alignment explanation
Indices: 76440--76742 Score: 230
Period size: 26 Copynumber: 12.2 Consensus size: 26
76430 TTTGATGATT
76440 TAGTAATGATTTGATAATAATCATTA
1 TAGTAATGATTTGATAATAATCATTA
76466 TAGTAATGATTTGATAATAATCATTA
1 TAGTAATGATTTGATAATAATCATTA
*
76492 TAATAATGATTT-AGTAATAATCATTA
1 TAGTAATGATTTGA-TAATAATCATTA
** * *
76518 TAAAAACGA-TT--TAATAATGATT-
1 TAGTAATGATTTGATAATAATCATTA
* * * *
76540 TA--AAT-ATTTAATGATTTGATGATT-
1 TAGTAATGATTTGAT-A-ATAATCATTA
76564 TAGTAATGATTTGATAATAATCATTA
1 TAGTAATGATTTGATAATAATCATTA
76590 TAGTAATGATTTGATAATAATCATTA
1 TAGTAATGATTTGATAATAATCATTA
*
76616 TAATAATGATTT-AGTAATAATCATTA
1 TAGTAATGATTTGA-TAATAATCATTA
** *
76642 TAAAAATGA-TT--TAATAATGATT-
1 TAGTAATGATTTGATAATAATCATTA
* * * *
76664 TA--AAT-ATTTAATGATTTGATGATT-
1 TAGTAATGATTTGAT-A-ATAATCATTA
*
76688 TAGTAATGATTTGATAATAATTATTA
1 TAGTAATGATTTGATAATAATCATTA
* * *
76714 TAATAATGATTTTATAATAATTATT-
1 TAGTAATGATTTGATAATAATCATTA
76739 TAGT
1 TAGT
76743 TATTATTTAG
Statistics
Matches: 234, Mismatches: 23, Indels: 41
0.79 0.08 0.14
Matches are distributed among these distances:
19 2 0.01
20 9 0.04
22 6 0.03
23 22 0.09
24 18 0.08
25 21 0.09
26 144 0.62
27 12 0.05
ACGTcount: A:0.43, C:0.02, G:0.10, T:0.44
Consensus pattern (26 bp):
TAGTAATGATTTGATAATAATCATTA
Found at i:76605 original size:124 final size:124
Alignment explanation
Indices: 76385--76778 Score: 668
Period size: 124 Copynumber: 3.2 Consensus size: 124
76375 ATGTATTTAT
*
76385 TAATCATTATAAAAATTATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGAT
1 TAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGAT
76450 TTGATAATAATCATTATAGTAATGATTTGATAATAATCATTATAATAATGATTTAGTAA
66 TTGATAATAATCATTATAGTAATGATTTGATAATAATCATTATAATAATGATTTAGTAA
*
76509 TAATCATTATAAAAACGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGAT
1 TAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGAT
76574 TTGATAATAATCATTATAGTAATGATTTGATAATAATCATTATAATAATGATTTAGTAA
66 TTGATAATAATCATTATAGTAATGATTTGATAATAATCATTATAATAATGATTTAGTAA
76633 TAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGAT
1 TAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGAT
* * * * * * *
76698 TTGATAATAATTATTATAATAATGATTTTATAATAATTATT-TAGTTATTATTTAGTAA
66 TTGATAATAATCATTATAGTAATGATTTGATAATAATCATTATAATAATGATTTAGTAA
* *
76756 TTAT--TTATAATAATGATTTAATA
1 TAATCATTATAAAAATGATTTAATA
76779 CTAATGATTT
Statistics
Matches: 258, Mismatches: 12, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
121 18 0.07
123 17 0.07
124 223 0.86
ACGTcount: A:0.43, C:0.02, G:0.09, T:0.45
Consensus pattern (124 bp):
TAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGAT
TTGATAATAATCATTATAGTAATGATTTGATAATAATCATTATAATAATGATTTAGTAA
Found at i:76765 original size:35 final size:37
Alignment explanation
Indices: 76724--76810 Score: 99
Period size: 38 Copynumber: 2.4 Consensus size: 37
76714 TAATAATGAT
* * *
76724 TTTATAATAATTATTTAGT-T-ATTATTTAGTAATTA
1 TTTATAATAATTATTTAATATAATGATTTAATAATTA
*
76759 TTTATAATAATGATTTAATACTAATGATTTAATAATTA
1 TTTATAATAATTATTTAATA-TAATGATTTAATAATTA
76797 -TTACTAATAATTAT
1 TTTA-TAATAATTAT
76811 AGAATACTAA
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
35 17 0.40
37 4 0.09
38 22 0.51
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.52
Consensus pattern (37 bp):
TTTATAATAATTATTTAATATAATGATTTAATAATTA
Found at i:76770 original size:49 final size:48
Alignment explanation
Indices: 76457--76811 Score: 154
Period size: 49 Copynumber: 7.2 Consensus size: 48
76447 GATTTGATAA
* * * * *
76457 TAATCATTATAGTAATGATTTGATAATAATCATTATAATAATGATTTAG
1 TAATTATTATAATAATGATTTAATAATAATGATT-TAATAATTATTTAG
* * * * * *
76506 TAATAATCATTATAAAAACGA-TT--TAATAATGATTTAAATATTTAATGATT
1 TAAT--T-ATTATAATAATGATTTAATAATAATGATTT-AATAATTATTTA-G
* * * * * * *
76556 TGATGATT-TAGTAATGATTTGATAATAATCATTATAGTAATGATTT-G
1 TAATTATTATAATAATGATTTAATAATAATGATT-TAATAATTATTTAG
* * * * *
76603 ATAATAATCATTATAATAATGATTTAGTAATAATCATTATAAAAATGATTTAA
1 -TAAT--T-ATTATAATAATGATTTAATAATAATGATT-TAATAATTATTTAG
* * * * * *
76656 TAATGATT-T-A-AAT-ATTTAATGATTTGATGATTTAGTAATGATTTGATAA
1 TAATTATTATAATAATGATTTAAT-A-ATAATGATTTAATAATTA-TT--TAG
* * * *
76705 TAATTATTATAATAATGATTTTATAATAATTATTTAGTTATTATTTAG
1 TAATTATTATAATAATGATTTAATAATAATGATTTAATAATTATTTAG
* *
76753 TAATTATTTATAATAATGATTTAATACTAATGATTTAATAATTA-TTAC
1 TAATTA-TTATAATAATGATTTAATAATAATGATTTAATAATTATTTAG
*
76801 TAATAATTATA
1 TAATTATTATA
76812 GAATACTAAC
Statistics
Matches: 229, Mismatches: 52, Indels: 52
0.69 0.16 0.16
Matches are distributed among these distances:
45 6 0.03
46 17 0.07
47 19 0.08
48 21 0.09
49 83 0.36
50 7 0.03
51 19 0.08
52 51 0.22
53 6 0.03
ACGTcount: A:0.43, C:0.03, G:0.09, T:0.45
Consensus pattern (48 bp):
TAATTATTATAATAATGATTTAATAATAATGATTTAATAATTATTTAG
Found at i:76785 original size:14 final size:14
Alignment explanation
Indices: 76443--76794 Score: 128
Period size: 14 Copynumber: 26.1 Consensus size: 14
76433 GATGATTTAG
*
76443 TAATGATTTGATAA
1 TAATGATTTAATAA
* *
76457 TAATCA-TT-ATAG
1 TAATGATTTAATAA
*
76469 TAATGATTTGATAA
1 TAATGATTTAATAA
*
76483 TAATCA-TT-ATAA
1 TAATGATTTAATAA
*
76495 TAATGATTTAGTAA
1 TAATGATTTAATAA
*
76509 TAATCA-TT-ATAA
1 TAATGATTTAATAA
* *
76521 AAACGA-TT--TAA
1 TAATGATTTAATAA
*
76532 TAATGATTTAAATATT
1 TAATGATTT-AATA-A
*
76548 TAATGATTTGATGATTTAG
1 TAATGATTT-A--A--TAA
*
76567 TAATGATTTGATAA
1 TAATGATTTAATAA
* *
76581 TAATCA-TT-ATAG
1 TAATGATTTAATAA
*
76593 TAATGATTTGATAA
1 TAATGATTTAATAA
*
76607 TAATCA-TT-ATAA
1 TAATGATTTAATAA
*
76619 TAATGATTTAGTAA
1 TAATGATTTAATAA
*
76633 TAATCA-TT-ATAA
1 TAATGATTTAATAA
*
76645 AAATGA-TT--TAA
1 TAATGATTTAATAA
*
76656 TAATGATTTAAATATT
1 TAATGATTT-AATA-A
*
76672 TAATGATTTGATGATTTAG
1 TAATGATTT-A--A--TAA
*
76691 TAATGATTTGATAA
1 TAATGATTTAATAA
*
76705 TAATTA-TT-ATAA
1 TAATGATTTAATAA
*
76717 TAATGATTTTATAA
1 TAATGATTTAATAA
* *
76731 TAATTATTTAGT--
1 TAATGATTTAATAA
* *
76743 T-ATTATTTAGTAA
1 TAATGATTTAATAA
76756 T--T-ATTT-ATAA
1 TAATGATTTAATAA
*
76766 TAATGATTTAATAC
1 TAATGATTTAATAA
76780 TAATGATTTAATAA
1 TAATGATTTAATAA
76794 T
1 T
76795 TATTACTAAT
Statistics
Matches: 260, Mismatches: 44, Indels: 68
0.70 0.12 0.18
Matches are distributed among these distances:
10 4 0.02
11 29 0.11
12 67 0.26
13 29 0.11
14 81 0.31
15 4 0.02
16 22 0.08
18 2 0.01
19 18 0.07
20 4 0.02
ACGTcount: A:0.43, C:0.02, G:0.09, T:0.45
Consensus pattern (14 bp):
TAATGATTTAATAA
Found at i:76817 original size:38 final size:38
Alignment explanation
Indices: 76747--76820 Score: 96
Period size: 38 Copynumber: 1.9 Consensus size: 38
76737 TTTAGTTATT
* **
76747 ATTTAGTAATTATTTATAATAATGATTTAATACTAATG
1 ATTTAATAATTATTTATAATAATGATAGAATACTAATG
*
76785 ATTTAATAATTA-TTACTAATAATTATAGAATACTAA
1 ATTTAATAATTATTTA-TAATAATGATAGAATACTAA
76821 CAAATGAGTG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
37 3 0.10
38 28 0.90
ACGTcount: A:0.46, C:0.04, G:0.05, T:0.45
Consensus pattern (38 bp):
ATTTAATAATTATTTATAATAATGATAGAATACTAATG
Found at i:77027 original size:17 final size:17
Alignment explanation
Indices: 77002--77034 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
76992 ACTAAATATT
*
77002 TAATTATTTGATACTAG
1 TAATGATTTGATACTAG
77019 TAATGATTTGATACTA
1 TAATGATTTGATACTA
77035 AAAATCATTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.36, C:0.06, G:0.12, T:0.45
Consensus pattern (17 bp):
TAATGATTTGATACTAG
Found at i:77027 original size:25 final size:23
Alignment explanation
Indices: 76948--77027 Score: 67
Period size: 24 Copynumber: 3.3 Consensus size: 23
76938 GATTTATTTT
76948 TAATATTTAATTATTTGATAC--
1 TAATATTTAATTATTTGATACTA
* *
76969 TAATGATTTAAAATAGTTGATTTACTA
1 TAAT-ATTT-AATTATTTGA--TACTA
76996 -AATATTTAATTATTTGATACTA
1 TAATATTTAATTATTTGATACTA
77018 GTAATGATTT
1 -TAAT-ATTT
77028 GATACTAAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 14
0.72 0.06 0.22
Matches are distributed among these distances:
21 4 0.09
22 9 0.20
23 8 0.17
24 11 0.24
25 11 0.24
26 3 0.07
ACGTcount: A:0.39, C:0.04, G:0.09, T:0.49
Consensus pattern (23 bp):
TAATATTTAATTATTTGATACTA
Found at i:77966 original size:23 final size:23
Alignment explanation
Indices: 77940--77984 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
77930 AAAATTACAA
*
77940 AAATAATAAAATTGATTTAAATC
1 AAATAATAAAATTAATTTAAATC
* *
77963 AAATAATATAGTTAATTTAAAT
1 AAATAATAAAATTAATTTAAAT
77985 AATAATTAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.56, C:0.02, G:0.04, T:0.38
Consensus pattern (23 bp):
AAATAATAAAATTAATTTAAATC
Found at i:79222 original size:16 final size:16
Alignment explanation
Indices: 79189--79235 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
79179 CACTAAAATT
*
79189 TAATATAAT-AACTTA
1 TAATATAATAAACTAA
79204 TAATATAATAAACTAA
1 TAATATAATAAACTAA
*
79220 TAA-ACTAACAAACTAA
1 TAATA-TAATAAACTAA
79236 ACTTTTTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
15 10 0.36
16 18 0.64
ACGTcount: A:0.60, C:0.11, G:0.00, T:0.30
Consensus pattern (16 bp):
TAATATAATAAACTAA
Found at i:79356 original size:32 final size:34
Alignment explanation
Indices: 79276--79357 Score: 93
Period size: 34 Copynumber: 2.5 Consensus size: 34
79266 CTAAACCCTT
*
79276 AAAC-AACTAATAAAATATTCTTTTATATAACTA
1 AAACTAACTAATAAACTATTCTTTTATATAACTA
79309 AAACTAACTAATAAACTATT-TTTTCATTATAA-T-
1 AAACTAACTAATAAACTATTCTTTT-A-TATAACTA
*
79342 ATACT-ACTAATAAACT
1 AAACTAACTAATAAACT
79358 TACTAACTAA
Statistics
Matches: 44, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
32 11 0.25
33 12 0.27
34 16 0.36
35 5 0.11
ACGTcount: A:0.49, C:0.13, G:0.00, T:0.38
Consensus pattern (34 bp):
AAACTAACTAATAAACTATTCTTTTATATAACTA
Found at i:79474 original size:45 final size:45
Alignment explanation
Indices: 79397--79529 Score: 136
Period size: 45 Copynumber: 3.0 Consensus size: 45
79387 TCAACAAACA
*
79397 AATATAACTTAACTATTTAACTAACACAAACTAATTAAATAATTTTTT
1 AATATAAC-TAACTA-TTAAC-AAAACAAACTAATTAAATAATTTTTT
* *
79445 TATATAACTAACTATTAACAAAACAAACTAATT-AATTATTTTTT
1 AATATAACTAACTATTAACAAAACAAACTAATTAAATAATTTTTT
79489 AACTAT-A-TAACTA-T--C-AAACATATACTAATTAAATAATTTTT
1 AA-TATAACTAACTATTAACAAAACA-A-ACTAATTAAATAATTTTT
79530 AATTTATGTA
Statistics
Matches: 76, Mismatches: 5, Indels: 14
0.80 0.05 0.15
Matches are distributed among these distances:
39 5 0.07
40 2 0.03
41 7 0.09
42 10 0.13
43 6 0.08
44 12 0.16
45 16 0.21
46 5 0.07
47 6 0.08
48 7 0.09
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.40
Consensus pattern (45 bp):
AATATAACTAACTATTAACAAAACAAACTAATTAAATAATTTTTT
Found at i:79557 original size:41 final size:40
Alignment explanation
Indices: 79469--79557 Score: 90
Period size: 41 Copynumber: 2.2 Consensus size: 40
79459 TTAACAAAAC
* *
79469 AAACTAATTAATTATTTTTTAACTATATAACTATCAAACAT
1 AAACTAATTAAATAATTTTTAACTATATAACTAT-AAACAT
* * * *
79510 ATACTAATTAAATAATTTTTAATTTATGTATACTAT-AACTT
1 AAACTAATTAAATAATTTTTAA-CTATATA-ACTATAAACAT
79551 AAACTAA
1 AAACTAA
79558 CAATCATATA
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
41 29 0.74
42 5 0.13
43 5 0.13
ACGTcount: A:0.46, C:0.10, G:0.01, T:0.43
Consensus pattern (40 bp):
AAACTAATTAAATAATTTTTAACTATATAACTATAAACAT
Found at i:80109 original size:29 final size:29
Alignment explanation
Indices: 80076--80179 Score: 145
Period size: 29 Copynumber: 3.6 Consensus size: 29
80066 TCGTGAGCTA
**
80076 GGACTACATGGCGACCTACTTGGTCGCCG
1 GGACTACATGGCGACCTACAAGGTCGCCG
80105 GGACTACATGGCGACCTACAAGGTCGCCG
1 GGACTACATGGCGACCTACAAGGTCGCCG
* *
80134 GGACTACATTGCGACCTACAAGGTCGCCC
1 GGACTACATGGCGACCTACAAGGTCGCCG
* * *
80163 AGATTGCATGGCGACCT
1 GGACTACATGGCGACCT
80180 CTCCATTGGC
Statistics
Matches: 67, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 67 1.00
ACGTcount: A:0.22, C:0.31, G:0.29, T:0.18
Consensus pattern (29 bp):
GGACTACATGGCGACCTACAAGGTCGCCG
Found at i:85509 original size:22 final size:21
Alignment explanation
Indices: 85471--85512 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
85461 TGATCAAATG
85471 ATATTATTTTAGTATTTTTAT
1 ATATTATTTTAGTATTTTTAT
85492 ATATATATTTT-GTGATTTTTA
1 ATAT-TATTTTAGT-ATTTTTA
85513 GGTAGAATTC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.29, C:0.00, G:0.07, T:0.64
Consensus pattern (21 bp):
ATATTATTTTAGTATTTTTAT
Found at i:87800 original size:21 final size:23
Alignment explanation
Indices: 87776--87817 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
87766 TTTTAAAAAA
87776 TTTCAAAT-A-AATATATTTTAT
1 TTTCAAATAACAATATATTTTAT
*
87797 TTTCAATTAACAATATATTTT
1 TTTCAAATAACAATATATTTT
87818 CGCTCTTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 7 0.39
22 1 0.06
23 10 0.56
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.52
Consensus pattern (23 bp):
TTTCAAATAACAATATATTTTAT
Found at i:89334 original size:30 final size:27
Alignment explanation
Indices: 89280--89338 Score: 91
Period size: 27 Copynumber: 2.2 Consensus size: 27
89270 AAAGCGCCAA
*
89280 CCAAGCCACCAGTTTACCCTCCACCAC
1 CCAAGCCACCACTTTACCCTCCACCAC
* *
89307 CCAAGCCACCACTTTACCCTGCTCCAC
1 CCAAGCCACCACTTTACCCTCCACCAC
89334 CCAAG
1 CCAAG
89339 GCGCCAACCA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.25, C:0.51, G:0.08, T:0.15
Consensus pattern (27 bp):
CCAAGCCACCACTTTACCCTCCACCAC
Found at i:89362 original size:39 final size:39
Alignment explanation
Indices: 89301--89434 Score: 187
Period size: 39 Copynumber: 3.4 Consensus size: 39
89291 GTTTACCCTC
* * *
89301 CACCACCCAAGCCACCACTTTACCCTGCTCCACCCAAGG
1 CACCAACCAAGCCACCAGTTTACCCTCCTCCACCCAAGG
* * *
89340 CGCCAACCAAGCCACCAGTTTACTCTCCTCCACCCAAGA
1 CACCAACCAAGCCACCAGTTTACCCTCCTCCACCCAAGG
* *
89379 CACTACCCAAGCCACCAGTTTACCCTCCTCCACCCAAGG
1 CACCAACCAAGCCACCAGTTTACCCTCCTCCACCCAAGG
*
89418 CTCCAACCAAGCCACCA
1 CACCAACCAAGCCACCA
89435 ACTTACGCTC
Statistics
Matches: 81, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 81 1.00
ACGTcount: A:0.28, C:0.49, G:0.10, T:0.13
Consensus pattern (39 bp):
CACCAACCAAGCCACCAGTTTACCCTCCTCCACCCAAGG
Found at i:89470 original size:24 final size:24
Alignment explanation
Indices: 89417--89483 Score: 82
Period size: 24 Copynumber: 2.8 Consensus size: 24
89407 TCCACCCAAG
* *
89417 GCTCCAACCAAGCCACCAACTTAC
1 GCTCCACCCAAGCCACCAACATAC
89441 GCTCCACCCAAGCCACCAACATATC
1 GCTCCACCCAAGCCACCAACATA-C
* *
89466 -TTCCACCGAAGCCACCAA
1 GCTCCACCCAAGCCACCAA
89484 GTTACCCCAA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
24 37 0.97
25 1 0.03
ACGTcount: A:0.33, C:0.46, G:0.09, T:0.12
Consensus pattern (24 bp):
GCTCCACCCAAGCCACCAACATAC
Found at i:89472 original size:78 final size:77
Alignment explanation
Indices: 89301--89458 Score: 203
Period size: 78 Copynumber: 2.1 Consensus size: 77
89291 GTTTACCCTC
* * **
89301 CACCACCCAAGCCACCACTTTACCCTGCTCCACCCAAGGCGCCAACCAAGCCACCAGTTTACTCT
1 CACCACACAAGCCACCACTTTACCCTCCTCCACCCAAGGCGCCAACCAAGCCACCAACTTAC-CT
89366 CCTCCACCCAAGA
65 CCTCCACCCAAGA
* * * * *
89379 CACTACCCAAGCCACCAGTTTACCCTCCTCCACCCAAGGCTCCAACCAAGCCACCAACTTA-C-G
1 CACCACACAAGCCACCACTTTACCCTCCTCCACCCAAGGCGCCAACCAAGCCACCAACTTACCTC
*
89442 CTCCACCCAAGC
66 CTCCACCCAAGA
89454 CACCA
1 CACCA
89459 ACATATCTTC
Statistics
Matches: 71, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
75 15 0.21
76 1 0.01
78 55 0.77
ACGTcount: A:0.28, C:0.49, G:0.09, T:0.13
Consensus pattern (77 bp):
CACCACACAAGCCACCACTTTACCCTCCTCCACCCAAGGCGCCAACCAAGCCACCAACTTACCTC
CTCCACCCAAGA
Found at i:91112 original size:29 final size:30
Alignment explanation
Indices: 91080--91144 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 30
91070 AAACACCATA
* *
91080 TATGAAATCGAGAATT-TTTAAACATTATG
1 TATGAAATCGAAAATTAATTAAACATTATG
* * *
91109 TATGAAATTGAAAATTAATTATACTTTATG
1 TATGAAATCGAAAATTAATTAAACATTATG
91139 TATGAA
1 TATGAA
91145 TTGGGTAATT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 14 0.47
30 16 0.53
ACGTcount: A:0.43, C:0.05, G:0.12, T:0.40
Consensus pattern (30 bp):
TATGAAATCGAAAATTAATTAAACATTATG
Found at i:91650 original size:33 final size:35
Alignment explanation
Indices: 91600--91665 Score: 93
Period size: 34 Copynumber: 1.9 Consensus size: 35
91590 CCTAAAATTT
*
91600 AAAAAAAATTAATTTTGA-CCTT-TAAATATTTTAA
1 AAAAAAAATCAATTTTGACCCTTCTAAA-ATTTTAA
91634 AAAAAAAATCAA-TTTGACCCTTCTAAAATTTT
1 AAAAAAAATCAATTTTGACCCTTCTAAAATTTT
91666 TAGATATTCA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
33 5 0.17
34 20 0.69
35 4 0.14
ACGTcount: A:0.48, C:0.11, G:0.03, T:0.38
Consensus pattern (35 bp):
AAAAAAAATCAATTTTGACCCTTCTAAAATTTTAA
Found at i:92230 original size:16 final size:15
Alignment explanation
Indices: 92199--92227 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
92189 AATGAAAGAA
92199 AAAAAGTGGTCAAAT
1 AAAAAGTGGTCAAAT
92214 AAAAAGTGGTCAAA
1 AAAAAGTGGTCAAA
92228 ATATAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.55, C:0.07, G:0.21, T:0.17
Consensus pattern (15 bp):
AAAAAGTGGTCAAAT
Found at i:93304 original size:28 final size:27
Alignment explanation
Indices: 93271--93323 Score: 70
Period size: 28 Copynumber: 1.9 Consensus size: 27
93261 TCACTTAATC
*
93271 CTTTAATTTTAAATAAAATATCAATTGA
1 CTTTAAGTTTAAAT-AAATATCAATTGA
* *
93299 CTTTAAGTTTATATAAATATTAATT
1 CTTTAAGTTTAAATAAATATCAATT
93324 TAATCCTTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 10 0.45
28 12 0.55
ACGTcount: A:0.43, C:0.06, G:0.04, T:0.47
Consensus pattern (27 bp):
CTTTAAGTTTAAATAAATATCAATTGA
Found at i:94515 original size:21 final size:21
Alignment explanation
Indices: 94491--94581 Score: 98
Period size: 21 Copynumber: 4.4 Consensus size: 21
94481 AGTTCAAATT
94491 CGTTGCGATAGTCCAAGTTCA
1 CGTTGCGATAGTCCAAGTTCA
**
94512 CGTTGCGATAGTTTAAGTTCGA
1 CGTTGCGATAGTCCAAGTTC-A
** *
94534 -GTTGCGATTTTCCAAATT--
1 CGTTGCGATAGTCCAAGTTCA
*
94552 CGTTGCGATAGTCCAAGTTCG
1 CGTTGCGATAGTCCAAGTTCA
94573 CGTTGCGAT
1 CGTTGCGAT
94582 TTTCTAAAAT
Statistics
Matches: 56, Mismatches: 10, Indels: 8
0.76 0.14 0.11
Matches are distributed among these distances:
19 15 0.27
21 40 0.71
22 1 0.02
ACGTcount: A:0.21, C:0.20, G:0.25, T:0.34
Consensus pattern (21 bp):
CGTTGCGATAGTCCAAGTTCA
Found at i:94556 original size:40 final size:41
Alignment explanation
Indices: 94512--94611 Score: 148
Period size: 40 Copynumber: 2.5 Consensus size: 41
94502 TCCAAGTTCA
** *
94512 CGTTGCGATAGTTTAAGTTCGAGTTGCGATTTTC-CAAATT
1 CGTTGCGATAGTCCAAGTTCGAGTTGCGATTTTCTAAAATT
*
94552 CGTTGCGATAGTCCAAGTTCGCGTTGCGATTTTCTAAAATT
1 CGTTGCGATAGTCCAAGTTCGAGTTGCGATTTTCTAAAATT
*
94593 CGTTGCCATAGTCCAAGTT
1 CGTTGCGATAGTCCAAGTT
94612 TGCGACTAGT
Statistics
Matches: 54, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
40 31 0.57
41 23 0.43
ACGTcount: A:0.22, C:0.19, G:0.22, T:0.37
Consensus pattern (41 bp):
CGTTGCGATAGTCCAAGTTCGAGTTGCGATTTTCTAAAATT
Found at i:94558 original size:19 final size:19
Alignment explanation
Indices: 94534--94598 Score: 67
Period size: 19 Copynumber: 3.3 Consensus size: 19
94524 TTAAGTTCGA
94534 GTTGCGATTTTCCAAATTC
1 GTTGCGATTTTCCAAATTC
** *
94553 GTTGCGATAGTCCAAGTTCGC
1 GTTGCGATTTTCCAAATT--C
*
94574 GTTGCGATTTTCTAAAATTC
1 GTTGCGATTTTC-CAAATTC
94594 GTTGC
1 GTTGC
94599 CATAGTCCAA
Statistics
Matches: 36, Mismatches: 7, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
19 15 0.42
20 6 0.17
21 11 0.31
22 4 0.11
ACGTcount: A:0.20, C:0.20, G:0.22, T:0.38
Consensus pattern (19 bp):
GTTGCGATTTTCCAAATTC
Found at i:95005 original size:19 final size:20
Alignment explanation
Indices: 94980--95069 Score: 96
Period size: 19 Copynumber: 4.4 Consensus size: 20
94970 CTTATTTTGG
94980 ATTTTTCACTATCGCAACAC
1 ATTTTTCACTATCGCAACAC
95000 -TTTTTCACTATCGCAACAAC
1 ATTTTTCACTATCGCAAC-AC
*
95020 ACGTTTTTCAAACTCTCGCAA-AC
1 A--TTTTTC--ACTATCGCAACAC
*
95043 A-TTTTAACTATCGCAACAC
1 ATTTTTCACTATCGCAACAC
95062 ATTTTTCA
1 ATTTTTCA
95070 AAATCGCGTT
Statistics
Matches: 58, Mismatches: 4, Indels: 16
0.74 0.05 0.21
Matches are distributed among these distances:
18 9 0.16
19 20 0.34
20 11 0.19
23 9 0.16
25 9 0.16
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.36
Consensus pattern (20 bp):
ATTTTTCACTATCGCAACAC
Found at i:95055 original size:43 final size:41
Alignment explanation
Indices: 94991--95071 Score: 110
Period size: 43 Copynumber: 1.9 Consensus size: 41
94981 TTTTTCACTA
* *
94991 TCGCAACACTTTTTCACTATCGCAACAACACGTTTTTCAAACTC
1 TCGCAACACATTTTAACTATCGCAAC-ACA--TTTTTCAAACTC
95035 TCGCAA-ACATTTTAACTATCGCAACACATTTTTCAAA
1 TCGCAACACATTTTAACTATCGCAACACATTTTTCAAA
95072 ATCGCGTTGC
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
40 9 0.26
42 3 0.09
43 17 0.49
44 6 0.17
ACGTcount: A:0.33, C:0.28, G:0.06, T:0.32
Consensus pattern (41 bp):
TCGCAACACATTTTAACTATCGCAACACATTTTTCAAACTC
Found at i:96458 original size:27 final size:28
Alignment explanation
Indices: 96428--96491 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
96418 CGGATTTGGG
*
96428 TCGGGTCGGG-TTTTTTAAGTTTGATAT
1 TCGGGTCGGGTTTTTTTAAGTTTGATAA
96455 TCGGGTCGGGTTTTTTTAAGTTTGATAA
1 TCGGGTCGGGTTTTTTTAAGTTTGATAA
96483 TCGGGTCGG
1 TCGGGTCGG
96492 TCGGGTTTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
27 10 0.29
28 25 0.71
ACGTcount: A:0.14, C:0.09, G:0.33, T:0.44
Consensus pattern (28 bp):
TCGGGTCGGGTTTTTTTAAGTTTGATAA
Found at i:96589 original size:28 final size:28
Alignment explanation
Indices: 96557--96621 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
96547 TCGAGTCGGG
*
96557 TCGGGTCGGGTTTTTTTAAGTGTGATAT
1 TCGGGTCGGATTTTTTTAAGTGTGATAT
*
96585 TCGGGTCTGATTTTTTTAAGTGTGATAT
1 TCGGGTCGGATTTTTTTAAGTGTGATAT
*
96613 TTGGGTCGG
1 TCGGGTCGG
96622 TTCGGGTTTA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.14, C:0.08, G:0.32, T:0.46
Consensus pattern (28 bp):
TCGGGTCGGATTTTTTTAAGTGTGATAT
Found at i:99062 original size:33 final size:34
Alignment explanation
Indices: 99011--99076 Score: 80
Period size: 33 Copynumber: 1.9 Consensus size: 34
99001 ATTCAATCCG
*
99011 ATTTGAAAAAAGTTGATTT-TTTTAATTTGAATT
1 ATTTGAAAAAAGTCGATTTATTTTAATTTGAATT
**
99044 ATTTGAATCAAGTCGATTTGAATTTTAATTTGA
1 ATTTGAAAAAAGTCGATTT--ATTTTAATTTGA
99077 TTTCTAGTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
33 16 0.59
36 11 0.41
ACGTcount: A:0.35, C:0.03, G:0.14, T:0.48
Consensus pattern (34 bp):
ATTTGAAAAAAGTCGATTTATTTTAATTTGAATT
Found at i:105307 original size:15 final size:15
Alignment explanation
Indices: 105287--105320 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
105277 ATTAAAATTA
105287 AAATATTTATATTTG
1 AAATATTTATATTTG
105302 AAATATTTATATTTG
1 AAATATTTATATTTG
105317 AAAT
1 AAAT
105321 GTGAATTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (15 bp):
AAATATTTATATTTG
Found at i:107655 original size:70 final size:72
Alignment explanation
Indices: 107569--107714 Score: 262
Period size: 70 Copynumber: 2.1 Consensus size: 72
107559 TATAAGGTTT
107569 AGTAAGGAAATACCAAGTCCCTCTTTATTCTAGCCTAAACCAAAATTTTTTAGGGAAAAT-A-AC
1 AGTAAGGAAATACCAAGTCCCTCTTTATTCTAGCCTAAACCAAAA-TTTTTAGGGAAAATAACAC
107632 TCCCTCTA
65 TCCCTCTA
107640 AGTAAGG-AATACCAAGTCCCTCTTTATTCTAGCCTAAACCAAAATTTTTAGGGAAAATAACACT
1 AGTAAGGAAATACCAAGTCCCTCTTTATTCTAGCCTAAACCAAAATTTTTAGGGAAAATAACACT
107704 CCCTCTA
66 CCCTCTA
107711 AGTA
1 AGTA
107715 CTAAAGTCTA
Statistics
Matches: 73, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
69 14 0.19
70 38 0.52
71 21 0.29
ACGTcount: A:0.37, C:0.23, G:0.12, T:0.29
Consensus pattern (72 bp):
AGTAAGGAAATACCAAGTCCCTCTTTATTCTAGCCTAAACCAAAATTTTTAGGGAAAATAACACT
CCCTCTA
Found at i:115495 original size:19 final size:20
Alignment explanation
Indices: 115450--115496 Score: 62
Period size: 19 Copynumber: 2.4 Consensus size: 20
115440 CATCCCTAAC
*
115450 TATATATATTTATATAATAT
1 TATATATTTTTATATAATAT
115470 T-TAATATTTTTATA-AATAT
1 TAT-ATATTTTTATATAATAT
115489 TATATATT
1 TATATATT
115497 ACAATTATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
19 12 0.50
20 12 0.50
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
TATATATTTTTATATAATAT
Found at i:115716 original size:2 final size:2
Alignment explanation
Indices: 115711--115754 Score: 56
Period size: 2 Copynumber: 22.5 Consensus size: 2
115701 GTTTTTTTCC
*
115711 AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT AGT A- AT AT A- AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT
115752 AT A
1 AT A
115755 ATTTTTTTGA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
1 2 0.05
2 33 0.89
3 2 0.05
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:115790 original size:3 final size:3
Alignment explanation
Indices: 115782--115820 Score: 62
Period size: 3 Copynumber: 13.3 Consensus size: 3
115772 TATATAATAG
*
115782 ATT ATT ATT AAT ATT ATT ATT ATT ATT A-T ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
115821 ATACTATTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
2 2 0.06
3 31 0.94
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:115798 original size:9 final size:9
Alignment explanation
Indices: 115784--115831 Score: 60
Period size: 9 Copynumber: 5.1 Consensus size: 9
115774 TATAATAGAT
115784 TATTATTAA
1 TATTATTAA
*
115793 TATTATTAT
1 TATTATTAA
115802 TATTATTATA
1 TATTATTA-A
115812 TTATTATTAA
1 -TATTATTAA
*
115822 TACTATTAA
1 TATTATTAA
115831 T
1 T
115832 TTTGTTTTAC
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
9 25 0.74
10 1 0.03
11 8 0.24
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (9 bp):
TATTATTAA
Found at i:117490 original size:37 final size:38
Alignment explanation
Indices: 117440--117516 Score: 138
Period size: 37 Copynumber: 2.1 Consensus size: 38
117430 GTTACAGCCA
117440 ATAACCCTAGCTTTAGTTCAACTC-TAAGGATATTATG
1 ATAACCCTAGCTTTAGTTCAACTCTTAAGGATATTATG
*
117477 ATAACTCTAGCTTTAGTTCAACTCTTAAGGATATTATG
1 ATAACCCTAGCTTTAGTTCAACTCTTAAGGATATTATG
117515 AT
1 AT
117517 GTGATACATG
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
37 23 0.61
38 15 0.39
ACGTcount: A:0.32, C:0.17, G:0.13, T:0.38
Consensus pattern (38 bp):
ATAACCCTAGCTTTAGTTCAACTCTTAAGGATATTATG
Found at i:117501 original size:17 final size:17
Alignment explanation
Indices: 117446--117501 Score: 51
Period size: 17 Copynumber: 3.1 Consensus size: 17
117436 GCCAATAACC
117446 CTAGCTTTAGTTCAACT
1 CTAGCTTTAGTTCAACT
* *
117463 CTAAGGATATTATGAT-AACT
1 CT-A-GCT-TTA-GTTCAACT
117483 CTAGCTTTAGTTCAACT
1 CTAGCTTTAGTTCAACT
117500 CT
1 CT
117502 TAAGGATATT
Statistics
Matches: 30, Mismatches: 4, Indels: 10
0.68 0.09 0.23
Matches are distributed among these distances:
16 2 0.07
17 11 0.37
18 3 0.10
19 3 0.10
20 9 0.30
21 2 0.07
ACGTcount: A:0.29, C:0.20, G:0.12, T:0.39
Consensus pattern (17 bp):
CTAGCTTTAGTTCAACT
Found at i:120254 original size:26 final size:25
Alignment explanation
Indices: 120202--120254 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 25
120192 AACTCAAATT
*
120202 TTATTTATTTATTTTTCAAATCTAA
1 TTATTTATTTATGTTTCAAATCTAA
*
120227 TTATTTAAGTTTATGTTT-AAATTTAA
1 TTATTT-A-TTTATGTTTCAAATCTAA
120253 TT
1 TT
120255 GTAGATATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 6 0.25
26 10 0.42
27 8 0.33
ACGTcount: A:0.32, C:0.04, G:0.04, T:0.60
Consensus pattern (25 bp):
TTATTTATTTATGTTTCAAATCTAA
Found at i:127039 original size:9 final size:9
Alignment explanation
Indices: 127025--127050 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
127015 GAAATCGATT
127025 AATTAACCG
1 AATTAACCG
127034 AATTAACCG
1 AATTAACCG
127043 AATTAACC
1 AATTAACC
127051 TTTAAATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.46, C:0.23, G:0.08, T:0.23
Consensus pattern (9 bp):
AATTAACCG
Found at i:127187 original size:17 final size:17
Alignment explanation
Indices: 127165--127203 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
127155 TGAATCAAAT
127165 TAATTAGATATTATTTA
1 TAATTAGATATTATTTA
127182 TAATTAGATATTATTTA
1 TAATTAGATATTATTTA
127199 -AATTA
1 TAATTA
127204 ATTATAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (17 bp):
TAATTAGATATTATTTA
Found at i:129460 original size:19 final size:19
Alignment explanation
Indices: 129425--129467 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
129415 AATTATTTAA
*
129425 AGTTATAATATGATATTTT
1 AGTTATAAGATGATATTTT
129444 AGTTATAAGAT-ATTATTTT
1 AGTTATAAGATGA-TATTTT
*
129463 TGTTA
1 AGTTA
129468 AATCATTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 1 0.05
19 20 0.95
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (19 bp):
AGTTATAAGATGATATTTT
Found at i:133779 original size:28 final size:28
Alignment explanation
Indices: 133730--133784 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
133720 ATTAAATAAT
**
133730 ATATATAAAAATATTAGTTCAATAATAC
1 ATATATAAAAATAACAGTTCAATAATAC
133758 ATATATAAAAATAACA-TGTCAATAATA
1 ATATATAAAAATAACAGT-TCAATAATA
133785 TTTATTGATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 1 0.04
28 23 0.96
ACGTcount: A:0.56, C:0.07, G:0.04, T:0.33
Consensus pattern (28 bp):
ATATATAAAAATAACAGTTCAATAATAC
Found at i:135844 original size:30 final size:30
Alignment explanation
Indices: 135783--135844 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
135773 AAATTATTTT
* * *
135783 AAATTTTAAATATAAAATATAAAATATTAA
1 AAATTTTAAAAATAAAATATAAAAAAGTAA
135813 AAATATTTAAAAAT-AAATATAAAAAAGTAA
1 AAAT-TTTAAAAATAAAATATAAAAAAGTAA
135843 AA
1 AA
135845 GTAAAAATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 20 0.71
31 8 0.29
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.31
Consensus pattern (30 bp):
AAATTTTAAAAATAAAATATAAAAAAGTAA
Found at i:137745 original size:22 final size:22
Alignment explanation
Indices: 137719--137761 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
137709 TAATAAATTA
137719 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
*
137741 TTTAAAATAAATCAATTCATA
1 TTTAAAATAAATCAATCCATA
137762 CTAATAAGTT
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:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:137774 original size:54 final size:54
Alignment explanation
Indices: 137709--138007 Score: 269
Period size: 54 Copynumber: 5.6 Consensus size: 54
137699 ACAACTACAA
137709 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATTCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATTCATAC
* * * *
137763 TAATAAGTTATTTAAAATAAATCAATCCATACAACTATAATAATAAATCAATCCATA-
1 TAATAAATTATTTAAAATAAATCAATCCAT---ATTTTAA-AATAAATCAATTCATAC
** * ** * ** **
137820 TTTTAAAATAAAT-CAATCCATACTAATAAAT-TATTTAAAATAAATCAA-TC-TATC
1 TAATAAATTATTTAAAATAAAT-C-AATCCATAT-TTTAAAATAAATCAATTCATA-C
* * *
137874 CAACTACA--A--T--AATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
1 TAA-TAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATTCATAC
* *
137923 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATGC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATTCATAC
137977 TAATAAATTATTTAAAATAAATCAATCCATA
1 TAATAAATTATTTAAAATAAATCAATCCATA
138008 CAACTACAAT
Statistics
Matches: 196, Mismatches: 30, Indels: 38
0.74 0.11 0.14
Matches are distributed among these distances:
48 23 0.12
49 6 0.03
50 8 0.04
51 1 0.01
52 3 0.02
53 2 0.01
54 108 0.55
55 7 0.04
56 5 0.03
57 13 0.07
58 20 0.10
ACGTcount: A:0.52, C:0.14, G:0.01, T:0.34
Consensus pattern (54 bp):
TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATTCATAC
Found at i:137816 original size:80 final size:80
Alignment explanation
Indices: 137724--137953 Score: 415
Period size: 80 Copynumber: 2.9 Consensus size: 80
137714 AATTATTTAA
* *
137724 AATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAGTTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
*
137789 CCATACAACTATAAT
66 CCATACAACTACAAT
137804 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
* *
137869 CTATCCAACTACAAT
66 CCATACAACTACAAT
137884 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
137949 CCATA
66 CCATA
137954 TTTTAAAATA
Statistics
Matches: 143, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
80 143 1.00
ACGTcount: A:0.52, C:0.15, G:0.00, T:0.33
Consensus pattern (80 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
CCATACAACTACAAT
Found at i:137850 original size:22 final size:23
Alignment explanation
Indices: 137775--137849 Score: 89
Period size: 22 Copynumber: 3.2 Consensus size: 23
137765 ATAAGTTATT
*
137775 TAAAATAAATCAATCCATACAACTA
1 TAAAATAAATCAATCCATACTA--A
**
137800 TAATAATAAATCAATCCATA-TTT
1 TAA-AATAAATCAATCCATACTAA
137823 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATACTAA
137846 TAAA
1 TAAA
137850 TTATTTAAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
22 16 0.37
23 8 0.19
25 3 0.07
26 16 0.37
ACGTcount: A:0.55, C:0.16, G:0.00, T:0.29
Consensus pattern (23 bp):
TAAAATAAATCAATCCATACTAA
Found at i:137861 original size:134 final size:132
Alignment explanation
Indices: 137709--138169 Score: 550
Period size: 134 Copynumber: 3.4 Consensus size: 132
137699 ACAACTACAA
137709 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAGTTAT
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATTCA-ACTAAT-A--T-T
*
137774 TTAAAATAAATCAATCCATAC-AACT-A-TA-ATAATAAATCAATCCATATTTTAAAATAAATCA
61 TTAAAATAAATCAATCCATACTAA-TAATTATAAAATAAATCAATCCATATTTTAAAATAAATCA
*
137835 ATCCATAC
125 ATCCATGC
* * **
137843 TAATAAATTATTTAAAATAAATCAATCTATCCAACTACAATAATAAATCAA-TC--C--ATATTT
1 TAATAAATTATTTAAAATAAATCAATCCAT---ATTTTAA-AATAAATCAATTCAACTAATATTT
137903 TAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATC
62 TAAAATAAATCAATCCATACTAAT-AATTA--TAAAATAAATCAATCCATATTTTAAAATAAATC
137968 AATCCATGC
124 AATCCATGC
*** * * *
137977 TAATAAATTATTTAAAATAAATCAATCCATACAACTACAAT-AAT-AAATCAA-TCCATATTTTA
1 TAATAAATTATTTAAAATAAATCAATCCATA-TTTTAAAATAAATCAATTCAACT-AATATTTTA
138039 AAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAA
64 AAATAAATCAATCCATACTAAT-AATTA--TAAAATAAATCAATCCATATTTTAAAATAAATCAA
138104 TCCATGC
126 TCCATGC
*
138111 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATA
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATTCA-ACTAATA
138170 AATTATTTAA
Statistics
Matches: 286, Mismatches: 19, Indels: 42
0.82 0.05 0.12
Matches are distributed among these distances:
128 23 0.08
129 5 0.02
130 6 0.02
131 7 0.02
132 3 0.01
133 5 0.02
134 212 0.74
135 4 0.01
136 4 0.01
137 7 0.02
138 10 0.03
ACGTcount: A:0.51, C:0.14, G:0.01, T:0.34
Consensus pattern (132 bp):
TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATTCAACTAATATTTTAAA
ATAAATCAATCCATACTAATAATTATAAAATAAATCAATCCATATTTTAAAATAAATCAATCCAT
GC
Found at i:137896 original size:22 final size:22
Alignment explanation
Indices: 137861--137924 Score: 67
Period size: 22 Copynumber: 2.9 Consensus size: 22
137851 TATTTAAAAT
* *
137861 AAATCAATCTATCCA-ACTACA
1 AAATAAATCAATCCATACTACA
* **
137882 ATAATAAATCAATCCATATTTTA
1 A-AATAAATCAATCCATACTACA
137905 AAATAAATCAATCCATACTA
1 AAATAAATCAATCCATACTA
137925 ATAAATTATT
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
21 1 0.03
22 29 0.85
23 4 0.12
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (22 bp):
AAATAAATCAATCCATACTACA
Found at i:137930 original size:22 final size:23
Alignment explanation
Indices: 137884--137929 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
137874 CAACTACAAT
**
137884 AATAAATCAATCCATA-TTTTAA
1 AATAAATCAATCCATACTAATAA
137906 AATAAATCAATCCATACTAATAA
1 AATAAATCAATCCATACTAATAA
137929 A
1 A
137930 TTATTTAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 16 0.76
23 5 0.24
ACGTcount: A:0.54, C:0.15, G:0.00, T:0.30
Consensus pattern (23 bp):
AATAAATCAATCCATACTAATAA
Found at i:137959 original size:22 final size:22
Alignment explanation
Indices: 137933--137974 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
137923 TAATAAATTA
137933 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
137955 TTTAAAATAAATCAATCCAT
1 TTTAAAATAAATCAATCCAT
137975 GCTAATAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.50, C:0.14, G:0.00, T:0.36
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:137984 original size:22 final size:22
Alignment explanation
Indices: 137935--137983 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
137925 ATAAATTATT
**
137935 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
*
137957 TAAAATAAATCAATCCATGCTAA
1 TAAAATAAATCAATCCAT-ATAA
137980 TAAA
1 TAAA
137984 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.53, C:0.14, G:0.02, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:138022 original size:80 final size:80
Alignment explanation
Indices: 137938--138087 Score: 291
Period size: 80 Copynumber: 1.9 Consensus size: 80
137928 AATTATTTAA
*
137938 AATAAATCAATCCATATTTTAAAATAAATCAATCCATGCTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
138003 CCATACAACTACAAT
66 CCATACAACTACAAT
138018 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
138083 CCATA
66 CCATA
138088 TTTTAAAATA
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
80 69 1.00
ACGTcount: A:0.52, C:0.15, G:0.01, T:0.32
Consensus pattern (80 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
CCATACAACTACAAT
Found at i:138064 original size:22 final size:23
Alignment explanation
Indices: 137989--138063 Score: 82
Period size: 22 Copynumber: 3.2 Consensus size: 23
137979 ATAAATTATT
137989 TAAAATAAATCAATCCATAC-AA
1 TAAAATAAATCAATCCATACTAA
**
138011 CTACAATAATAAATCAATCCATA-TTT
1 -T--AA-AATAAATCAATCCATACTAA
138037 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATACTAA
138060 TAAA
1 TAAA
138064 TTATTTAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
22 16 0.37
23 8 0.19
25 3 0.07
26 16 0.37
ACGTcount: A:0.55, C:0.17, G:0.00, T:0.28
Consensus pattern (23 bp):
TAAAATAAATCAATCCATACTAA
Found at i:138086 original size:54 final size:54
Alignment explanation
Indices: 137804--138186 Score: 342
Period size: 54 Copynumber: 7.1 Consensus size: 54
137794 CAACTATAAT
137804 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
* * ** ** * ** *
137858 AATAAATCAATCTATCCAACTACAATAATAAATCAATCCATA-TTTTAAAATAAAT-C
1 AATAAATCAATCCAT---ATTTTAA-AATAAATCAATCCATACTAATAAATTATTTAA
** ** ** * ** *
137914 AATCCATACTAATAAAT-TATTTAAAATAAATCAATCCATA-TTTTAAAATAAAT-C
1 AATAAAT-C-AATCCATAT-TTTAAAATAAATCAATCCATACTAATAAATTATTTAA
** ** *
137968 AATCCATGCTAATAAAT-TATTTAAAATAAATCAATCCATAC-AACTACA--A--T--
1 AATAAAT-C-AATCCATAT-TTTAAAATAAATCAATCCATACTAA-TAAATTATTTAA
138018 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
*
138072 AATAAATCAATCCATATTTTAAAATAAATCAATCCATGCTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
138126 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
138180 AATAAAT
1 AATAAAT
138187 TATTTTAAAA
Statistics
Matches: 284, Mismatches: 28, Indels: 34
0.82 0.08 0.10
Matches are distributed among these distances:
48 30 0.11
49 4 0.01
50 6 0.02
51 1 0.00
52 1 0.00
53 1 0.00
54 196 0.69
55 6 0.02
56 5 0.02
57 13 0.05
58 21 0.07
ACGTcount: A:0.52, C:0.14, G:0.01, T:0.34
Consensus pattern (54 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
Found at i:138093 original size:22 final size:22
Alignment explanation
Indices: 138067--138108 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
138057 TAATAAATTA
138067 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
138089 TTTAAAATAAATCAATCCAT
1 TTTAAAATAAATCAATCCAT
138109 GCTAATAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.50, C:0.14, G:0.00, T:0.36
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:138118 original size:22 final size:22
Alignment explanation
Indices: 138069--138117 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
138059 ATAAATTATT
**
138069 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
*
138091 TAAAATAAATCAATCCATGCTAA
1 TAAAATAAATCAATCCAT-ATAA
138114 TAAA
1 TAAA
138118 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.53, C:0.14, G:0.02, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:138147 original size:22 final size:22
Alignment explanation
Indices: 138121--138220 Score: 92
Period size: 22 Copynumber: 4.4 Consensus size: 22
138111 TAATAAATTA
138121 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
138143 TTTAAAATAAATCAATCCATACT
1 TTTAAAATAAATCAATCCATA-T
** * ** * **
138166 AATAAATTATTTAAAATAAATTAT
1 TTTAAAATAAAT-CAATCCA-TAT
138190 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
*
138212 TTTATAATA
1 TTTAAAATA
138221 GTTTATTTTA
Statistics
Matches: 58, Mismatches: 17, Indels: 6
0.72 0.21 0.07
Matches are distributed among these distances:
22 32 0.55
23 12 0.21
24 12 0.21
25 2 0.03
ACGTcount: A:0.51, C:0.10, G:0.00, T:0.39
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:138195 original size:15 final size:15
Alignment explanation
Indices: 138166--138335 Score: 162
Period size: 15 Copynumber: 10.5 Consensus size: 15
138156 AATCCATACT
138166 AATAAATTA-TTTAA
1 AATAAATTATTTTAA
138180 AATAAATTATTTTAA
1 AATAAATTATTTTAA
*
138195 AATAAATCAATCCATATTTTAT
1 AAT--A--AAT---TATTTTAA
**
138217 AATAGTTTATTTTAA
1 AATAAATTATTTTAA
138232 AATAAATTATTTTAA
1 AATAAATTATTTTAA
*
138247 AATAAATCAATCCATATTTTAT
1 AAT--A--AAT---TATTTTAA
138269 AATAAATTATTTTAA
1 AATAAATTATTTTAA
*
138284 AATAAATTATTTTAT
1 AATAAATTATTTTAA
138299 AATAAATTATTTTAA
1 AATAAATTATTTTAA
138314 AATAAATTATTTTAA
1 AATAAATTATTTTAA
138329 AATAAAT
1 AATAAAT
138336 AACCTTATTA
Statistics
Matches: 131, Mismatches: 10, Indels: 29
0.77 0.06 0.17
Matches are distributed among these distances:
14 9 0.07
15 88 0.67
17 2 0.02
18 4 0.03
19 6 0.05
20 2 0.02
22 20 0.15
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.45
Consensus pattern (15 bp):
AATAAATTATTTTAA
Found at i:138250 original size:52 final size:50
Alignment explanation
Indices: 138140--138305 Score: 248
Period size: 52 Copynumber: 3.3 Consensus size: 50
138130 AATCAATCCA
* *
138140 TATTTTAAAATAAATCAATCCATA-CTAATAA-ATTA-TTTAAAATAAAT
1 TATTTTAAAATAAATCAATCCATATTTTATAATATTATTTTAAAATAAAT
138187 TATTTTAAAATAAATCAATCCATATTTTATAATAGTTTATTTTAAAATAAAT
1 TATTTTAAAATAAATCAATCCATATTTTATAATA--TTATTTTAAAATAAAT
138239 TATTTTAAAATAAATCAATCCATATTTTATAATAAATTATTTTAAAATAAAT
1 TATTTTAAAATAAATCAATCCATATTTTATAAT--ATTATTTTAAAATAAAT
*
138291 TATTTTATAATAAAT
1 TATTTTAAAATAAAT
138306 TATTTTAAAA
Statistics
Matches: 109, Mismatches: 3, Indels: 9
0.90 0.02 0.07
Matches are distributed among these distances:
47 24 0.22
48 5 0.05
49 1 0.01
51 3 0.03
52 75 0.69
54 1 0.01
ACGTcount: A:0.49, C:0.06, G:0.01, T:0.44
Consensus pattern (50 bp):
TATTTTAAAATAAATCAATCCATATTTTATAATATTATTTTAAAATAAAT
Found at i:139634 original size:21 final size:21
Alignment explanation
Indices: 139608--139647 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
139598 GTTTATCGTG
139608 ATTGTGGAT-ATAACATGTACT
1 ATTGT-GATAATAACATGTACT
*
139629 ATTGTGATAATTACATGTA
1 ATTGTGATAATAACATGTA
139648 TCGTGATCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.18
21 14 0.82
ACGTcount: A:0.35, C:0.07, G:0.17, T:0.40
Consensus pattern (21 bp):
ATTGTGATAATAACATGTACT
Found at i:141032 original size:33 final size:32
Alignment explanation
Indices: 140980--141046 Score: 89
Period size: 33 Copynumber: 2.1 Consensus size: 32
140970 CCAAAATCTA
* **
140980 AATAAACCTAACTCGAAAGAATTTGAACATAT
1 AATAAACCTAACACGAAAGAATCCGAACATAT
*
141012 AATAAACTTCAACACGAAAGAATCCGAACATAT
1 AATAAACCT-AACACGAAAGAATCCGAACATAT
141045 AA
1 AA
141047 ATGTTGAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
32 8 0.27
33 22 0.73
ACGTcount: A:0.52, C:0.18, G:0.09, T:0.21
Consensus pattern (32 bp):
AATAAACCTAACACGAAAGAATCCGAACATAT
Found at i:145447 original size:6 final size:6
Alignment explanation
Indices: 145436--145472 Score: 74
Period size: 6 Copynumber: 6.2 Consensus size: 6
145426 TGCCATTCAT
145436 TGGCAA TGGCAA TGGCAA TGGCAA TGGCAA TGGCAA T
1 TGGCAA TGGCAA TGGCAA TGGCAA TGGCAA TGGCAA T
145473 AGCTTTGGCC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.32, C:0.16, G:0.32, T:0.19
Consensus pattern (6 bp):
TGGCAA
Found at i:146591 original size:2 final size:2
Alignment explanation
Indices: 146584--146609 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
146574 ATTATGTACA
146584 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
146610 TAATTATTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:156027 original size:21 final size:21
Alignment explanation
Indices: 155989--156091 Score: 106
Period size: 22 Copynumber: 4.9 Consensus size: 21
155979 TCTGAAAATT
155989 ATATTTA--TAATATTTTAAAA
1 ATATTTATTTAAT-TTTTAAAA
156009 ATATTTATTTAATTTTTAAAA
1 ATATTTATTTAATTTTTAAAA
* *
156030 TTATATTATTTATTTTTTGAAATA
1 ATAT-TTATTTAATTTTT-AAA-A
*
156054 ATA-TTATTT-ATTTTTTAAA
1 ATATTTATTTAATTTTTAAAA
156073 ATATTTATTTAACTTTTTA
1 ATATTTATTTAA-TTTTTA
156092 TTATACTAAA
Statistics
Matches: 69, Mismatches: 6, Indels: 14
0.78 0.07 0.16
Matches are distributed among these distances:
19 4 0.06
20 15 0.22
21 17 0.25
22 27 0.39
23 3 0.04
24 3 0.04
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.59
Consensus pattern (21 bp):
ATATTTATTTAATTTTTAAAA
Found at i:156067 original size:43 final size:44
Alignment explanation
Indices: 155983--156083 Score: 115
Period size: 43 Copynumber: 2.4 Consensus size: 44
155973 AATCATTCTG
*
155983 AAAATTATATT-TATAATATTTTAAAAATATTTATTTAA-TTTTT
1 AAAATTATATTAT-TTATATTTTAAAAATATTTATTTAATTTTTT
*
156026 AAAATTATATTATTTATTTTTTGAAATAATA-TTATTT-ATTTTTT
1 AAAATTATATTATTTATATTTT-AAA-AATATTTATTTAATTTTTT
156070 AAAA-TAT-TTATTTA
1 AAAATTATATTATTTA
156084 ACTTTTTATT
Statistics
Matches: 52, Mismatches: 2, Indels: 9
0.83 0.03 0.14
Matches are distributed among these distances:
42 7 0.13
43 22 0.42
44 19 0.37
45 4 0.08
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (44 bp):
AAAATTATATTATTTATATTTTAAAAATATTTATTTAATTTTTT
Found at i:165448 original size:44 final size:43
Alignment explanation
Indices: 165381--165503 Score: 165
Period size: 44 Copynumber: 2.8 Consensus size: 43
165371 GCTGGTGGAG
* * *
165381 ACGATATCCTTCGTCGTGAAGTTGAAATCATGGATGTGTGGGC
1 ACGATATCCTTCGTCGTGGAGTTGAAATCGTGGATGCGTGGGC
* * *
165424 ACGATATCCTTCCGTCGTGGAGTTGAAATCGTGGATCCGTTGGT
1 ACGATATCCTT-CGTCGTGGAGTTGAAATCGTGGATGCGTGGGC
* *
165468 ACGATATCCTTTGTCGTGGAGTTAAAATCGTGGATG
1 ACGATATCCTTCGTCGTGGAGTTGAAATCGTGGATG
165504 GCCCTTTCGT
Statistics
Matches: 70, Mismatches: 9, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
43 33 0.47
44 37 0.53
ACGTcount: A:0.22, C:0.17, G:0.29, T:0.32
Consensus pattern (43 bp):
ACGATATCCTTCGTCGTGGAGTTGAAATCGTGGATGCGTGGGC
Found at i:165744 original size:43 final size:42
Alignment explanation
Indices: 165697--165802 Score: 142
Period size: 43 Copynumber: 2.5 Consensus size: 42
165687 GATTCCCTTT
* *
165697 GTTGTGAAGTTGAAACCGTGA-ATGTATGGGCACGATATCCTCC
1 GTTGTGGAGTTGAAATCGTGATATGT-T-GGCACGATATCCTCC
*
165740 GTTGTGGAGTTGAAATCGTGGATATGTTGGTACGATATCCTCC
1 GTTGTGGAGTTGAAATCGT-GATATGTTGGCACGATATCCTCC
*
165783 GTCGTGGAGTTGAAATCGTG
1 GTTGTGGAGTTGAAATCGTG
165803 GATGACCCCT
Statistics
Matches: 57, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
42 1 0.02
43 49 0.86
44 3 0.05
45 4 0.07
ACGTcount: A:0.23, C:0.15, G:0.31, T:0.31
Consensus pattern (42 bp):
GTTGTGGAGTTGAAATCGTGATATGTTGGCACGATATCCTCC
Found at i:165958 original size:64 final size:64
Alignment explanation
Indices: 165883--166013 Score: 226
Period size: 64 Copynumber: 2.0 Consensus size: 64
165873 GAGCAAATTG
*
165883 TGAGTTCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAATTGTTTGT
1 TGAGTACAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAATTGTTTGT
* * *
165947 TGAGTACAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAATTGTAAAGTTGTTTGT
1 TGAGTACAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAATTGTTTGT
166011 TGA
1 TGA
166014 CAGACGCTCA
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
64 63 1.00
ACGTcount: A:0.30, C:0.11, G:0.22, T:0.37
Consensus pattern (64 bp):
TGAGTACAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAATTGTTTGT
Found at i:166341 original size:32 final size:32
Alignment explanation
Indices: 166275--166346 Score: 92
Period size: 32 Copynumber: 2.2 Consensus size: 32
166265 CATCAGGATA
* *
166275 TTGAATCCCCAAATATGCCACAATATTCAATG
1 TTGAATCTCCAAATATGCCACAACATTCAATG
* *
166307 TTGAATCTCCAAATATGCC-CTAACATTTACTG
1 TTGAATCTCCAAATATGCCAC-AACATTCAATG
166339 TTGAATCT
1 TTGAATCT
166347 TTAAAGATAC
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
31 1 0.03
32 34 0.97
ACGTcount: A:0.33, C:0.24, G:0.10, T:0.33
Consensus pattern (32 bp):
TTGAATCTCCAAATATGCCACAACATTCAATG
Found at i:169383 original size:24 final size:23
Alignment explanation
Indices: 169356--169437 Score: 60
Period size: 23 Copynumber: 3.4 Consensus size: 23
169346 TGTAAATGAT
169356 AAAAAATAAAATAGAATAATAAAA
1 AAAAAATAAAATAG-ATAATAAAA
* *
169380 AAAAAAGGAAAAT-GA-AATGAGAA
1 AAAAAA-TAAAATAGATAAT-AAAA
*
169403 AAAAAATAGAGATAAGGATAATAAAA
1 AAAAAATA-AAAT-A-GATAATAAAA
*
169429 AAATAATAA
1 AAAAAATAA
169438 TGAAAATAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 13
0.70 0.09 0.20
Matches are distributed among these distances:
22 4 0.09
23 13 0.29
24 7 0.16
25 6 0.13
26 12 0.27
27 3 0.07
ACGTcount: A:0.73, C:0.00, G:0.12, T:0.15
Consensus pattern (23 bp):
AAAAAATAAAATAGATAATAAAA
Found at i:170386 original size:7 final size:6
Alignment explanation
Indices: 170355--170385 Score: 53
Period size: 6 Copynumber: 5.0 Consensus size: 6
170345 CTTAATTGCA
170355 AAAATT AAAATT AAAATT AAAATTT AAAATT
1 AAAATT AAAATT AAAATT AAAA-TT AAAATT
170386 TCGATCATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 18 0.75
7 6 0.25
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (6 bp):
AAAATT
Found at i:172644 original size:16 final size:15
Alignment explanation
Indices: 172618--172656 Score: 60
Period size: 16 Copynumber: 2.5 Consensus size: 15
172608 AATAAAAACA
172618 AATTAAAAGTTTAAT
1 AATTAAAAGTTTAAT
*
172633 GATTATAAAGTTTAAT
1 AATTA-AAAGTTTAAT
172649 AATTAAAA
1 AATTAAAA
172657 TGCAAATATC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 7 0.33
16 14 0.67
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (15 bp):
AATTAAAAGTTTAAT
Found at i:174165 original size:38 final size:39
Alignment explanation
Indices: 174082--174157 Score: 100
Period size: 40 Copynumber: 1.9 Consensus size: 39
174072 TTTTTATTAT
* * *
174082 TTTTTTTATTTTTTCAATTTAGATCTTTAATTTTATATGA
1 TTTTTTTATTTCTTCAATTTA-ATCTTTAATATTAAATGA
*
174122 TTTTTTTATTTCTTCAATTT-ATCTTTCATATTAAAT
1 TTTTTTTATTTCTTCAATTTAATCTTTAATATTAAAT
174158 TTATTTTTGA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
38 13 0.41
40 19 0.59
ACGTcount: A:0.25, C:0.08, G:0.03, T:0.64
Consensus pattern (39 bp):
TTTTTTTATTTCTTCAATTTAATCTTTAATATTAAATGA
Found at i:177851 original size:17 final size:17
Alignment explanation
Indices: 177818--177851 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
177808 AAATTTAATT
*
177818 ATAATAAACATTTATAA
1 ATAATAAACATTCATAA
*
177835 ATAATAAATATTCATAA
1 ATAATAAACATTCATAA
177852 CACCCTCCTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.35
Consensus pattern (17 bp):
ATAATAAACATTCATAA
Found at i:180885 original size:11 final size:11
Alignment explanation
Indices: 180869--180897 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
180859 AATCAACAAG
180869 AATATTTTTTA
1 AATATTTTTTA
180880 AATATTTTTTA
1 AATATTTTTTA
180891 AATATTT
1 AATATTT
180898 ATTGTATTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
AATATTTTTTA
Found at i:191473 original size:104 final size:104
Alignment explanation
Indices: 191348--191554 Score: 333
Period size: 104 Copynumber: 2.0 Consensus size: 104
191338 ATGTATTATC
* * *
191348 TTCATGTTACACATATTAACATGAAATAAACAATGTATATAATTTCTTACCAATATACTTGTCAT
1 TTCATGTTACACATATTAACATGAAATAAACAATGTATATAATTTCGTACCAATATAATTGCCAT
*
191413 TTATTCCATAAGCTCATAAGTTTAATCATCTGCTTATAT
66 TTATTCCATAAGCTCATAAGCTTAATCATCTGCTTATAT
*
191452 TTCATTTTACACATATTAACATGAAATAAACAATGTATATAATTTCGTACCAATATAATTGCCAT
1 TTCATGTTACACATATTAACATGAAATAAACAATGTATATAATTTCGTACCAATATAATTGCCAT
* * * *
191517 TTATTTCATAAGCTCTTAAGCTTGATCATCTGTTTATA
66 TTATTCCATAAGCTCATAAGCTTAATCATCTGCTTATA
191555 ATTTATTAAC
Statistics
Matches: 94, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
104 94 1.00
ACGTcount: A:0.36, C:0.16, G:0.07, T:0.41
Consensus pattern (104 bp):
TTCATGTTACACATATTAACATGAAATAAACAATGTATATAATTTCGTACCAATATAATTGCCAT
TTATTCCATAAGCTCATAAGCTTAATCATCTGCTTATAT
Found at i:197326 original size:28 final size:28
Alignment explanation
Indices: 197294--197348 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
197284 AAGATATGAA
197294 CCTTCGGAG-GATTCAATCAAA-GAAGGAG
1 CCTTCGGAGAG-TTCAAT-AAACGAAGGAG
197322 CCTTCGGAGAGTTCAATAAACGAAGGA
1 CCTTCGGAGAGTTCAATAAACGAAGGA
197349 ATTCTTATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
27 3 0.12
28 21 0.84
29 1 0.04
ACGTcount: A:0.36, C:0.18, G:0.27, T:0.18
Consensus pattern (28 bp):
CCTTCGGAGAGTTCAATAAACGAAGGAG
Found at i:201295 original size:60 final size:60
Alignment explanation
Indices: 201184--201313 Score: 147
Period size: 60 Copynumber: 2.2 Consensus size: 60
201174 TTTTGATTCG
* * * ***
201184 CATTCTAAATTAGTCTCTAAACTTTTAAACATTCCAATTTAATCTTTAAACTATGACGAT-
1 CATTCTAAATTAATCTCTAAAATTTTAAACATTCCAAATTAATCCCCAAACTATGAC-ATA
* * *
201244 CATTCTAAATTAATC-CTCAAAATTTTAAACATTTCAAATTCATCCCCAAACTATGACTTA
1 CATTCTAAATTAATCTCT-AAAATTTTAAACATTCCAAATTAATCCCCAAACTATGACATA
201304 CATTCTAAAT
1 CATTCTAAAT
201314 AGTCCCTAAC
Statistics
Matches: 59, Mismatches: 9, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
59 3 0.05
60 56 0.95
ACGTcount: A:0.38, C:0.21, G:0.03, T:0.38
Consensus pattern (60 bp):
CATTCTAAATTAATCTCTAAAATTTTAAACATTCCAAATTAATCCCCAAACTATGACATA
Found at i:203913 original size:36 final size:36
Alignment explanation
Indices: 203862--204003 Score: 250
Period size: 36 Copynumber: 4.0 Consensus size: 36
203852 GCGTTTCTAG
*
203862 TCGAACGGAAGGAAGCATCGGCACTTCCGATTCAAA
1 TCGAACGGAAAGAAGCATCGGCACTTCCGATTCAAA
*
203898 TCGAACGGAAAGAAGCATCGGCACTTCCGATTTAAA
1 TCGAACGGAAAGAAGCATCGGCACTTCCGATTCAAA
*
203934 TCGAACGGAAGGAAGCATCGGCACTTCCGATTCAAA
1 TCGAACGGAAAGAAGCATCGGCACTTCCGATTCAAA
203970 TCGAACGGAAAGAAGCATC-GCACTTCCGATTCAA
1 TCGAACGGAAAGAAGCATCGGCACTTCCGATTCAA
204004 CTAGAACGAA
Statistics
Matches: 101, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
35 15 0.15
36 86 0.85
ACGTcount: A:0.35, C:0.25, G:0.23, T:0.18
Consensus pattern (36 bp):
TCGAACGGAAAGAAGCATCGGCACTTCCGATTCAAA
Found at i:205860 original size:24 final size:23
Alignment explanation
Indices: 205810--205853 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
205800 AGTTGTTTCC
205810 CTCCTCCTCTTATTCTTTCAAGT
1 CTCCTCCTCTTATTCTTTCAAGT
*
205833 CTCCTTCCTCTTCTT-TTTCAA
1 CTCC-TCCTCTTATTCTTTCAA
205854 TTACTCCCCG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.11, C:0.36, G:0.02, T:0.50
Consensus pattern (23 bp):
CTCCTCCTCTTATTCTTTCAAGT
Found at i:210140 original size:2 final size:2
Alignment explanation
Indices: 210135--210166 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
210125 TTTAAAAAAT
210135 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
210167 AATCATATCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:213986 original size:88 final size:88
Alignment explanation
Indices: 213837--214015 Score: 225
Period size: 88 Copynumber: 2.0 Consensus size: 88
213827 AAGGCCTTGG
* * *
213837 TGTAGCTCTTCGATGGCAGTCTTATTGACAAAAGACGGAAGGGCGAGATATGGACTCTTCAAAGC
1 TGTAGCTCTTCGATGGCAGTCTCACTGACAAAAGACGGAAGGGCGAGAGATGGACTCTTCAAAGC
*
213902 TTGCCGGTGACATTTCTCTTTGT
66 TTGCCGGTGACATTTCACTTTGT
* * * * **
213925 TGTAGCTCTTCGATGGCAGT-TACACTGGCAAAATATGGAATGGCGAGAGATGGGTTCTTCAAAG
1 TGTAGCTCTTCGATGGCAGTCT-CACTGACAAAAGACGGAAGGGCGAGAGATGGACTCTTCAAAG
** *
213989 CTTGGTGGTGACTTTTCACTTTGT
65 CTTGCCGGTGACATTTCACTTTGT
214013 TGT
1 TGT
214016 TACAGTTTAT
Statistics
Matches: 77, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
87 1 0.01
88 76 0.99
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.32
Consensus pattern (88 bp):
TGTAGCTCTTCGATGGCAGTCTCACTGACAAAAGACGGAAGGGCGAGAGATGGACTCTTCAAAGC
TTGCCGGTGACATTTCACTTTGT
Found at i:218106 original size:2 final size:2
Alignment explanation
Indices: 218099--218148 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
218089 TGAACGTGCG
218099 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
218141 AT AT AT AT
1 AT AT AT AT
218149 TCATGCAATT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:220811 original size:3 final size:3
Alignment explanation
Indices: 220803--220870 Score: 118
Period size: 3 Copynumber: 22.7 Consensus size: 3
220793 ATGCCCTTTG
220803 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* *
220851 GTT ATT CTT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT AT
220871 AAGAATAATA
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 61 1.00
ACGTcount: A:0.31, C:0.01, G:0.01, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:231465 original size:29 final size:28
Alignment explanation
Indices: 231433--231520 Score: 70
Period size: 29 Copynumber: 3.0 Consensus size: 28
231423 AAATTGGTCT
231433 CTAAACTTTTAAGCATTCCAATTTCATCC
1 CTAAACTTTTAA-CATTCCAATTTCATCC
* * * *
231462 CTAAACTATGACTATCATTCTAAATTCAT-C
1 CTAAACT-T--TTAACATTCCAATTTCATCC
*
231492 CTCAAACTTTTGAACATTTCAATTTCATC
1 CT-AAACTTTT-AACATTCCAATTTCATC
231521 TTGAAACTAC
Statistics
Matches: 44, Mismatches: 9, Indels: 11
0.69 0.14 0.17
Matches are distributed among these distances:
28 1 0.02
29 19 0.43
30 5 0.11
31 17 0.39
32 2 0.05
ACGTcount: A:0.33, C:0.25, G:0.03, T:0.39
Consensus pattern (28 bp):
CTAAACTTTTAACATTCCAATTTCATCC
Found at i:231480 original size:60 final size:58
Alignment explanation
Indices: 231408--231590 Score: 183
Period size: 60 Copynumber: 3.1 Consensus size: 58
231398 ATCCTCTAAT
* *
231408 TATGACCTTCATTTTAAATTGGTCTCTAAACTTTT-AAGCATTCCAATTTCATCCCTAAAC
1 TATGA-CTTCATTCTAAATTGGTC-CTAAACTTTTGAA-CATTTCAATTTCATCCCTAAAC
** *
231468 TATGACTATCATTCTAAATTCATCCTCAAACTTTTGAACATTTCAATTTCAT-CTTGAAAC
1 TATGACT-TCATTCTAAATTGGTCCT-AAACTTTTGAACATTTCAATTTCATCCCT-AAAC
* * * *
231528 TACGTCCCTCATTCTAAATTGGTCCCCAAACTTTTTGAACATTTCAATTTCATCCC-AAAC
1 TATG-ACTTCATTCTAAATTGGT-CCTAAAC-TTTTGAACATTTCAATTTCATCCCTAAAC
231588 TAT
1 TAT
231591 ATGCATATAT
Statistics
Matches: 102, Mismatches: 13, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
59 6 0.06
60 69 0.68
61 26 0.25
62 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.06, T:0.39
Consensus pattern (58 bp):
TATGACTTCATTCTAAATTGGTCCTAAACTTTTGAACATTTCAATTTCATCCCTAAAC
Found at i:233014 original size:24 final size:25
Alignment explanation
Indices: 232981--233027 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
232971 TCGCCTCCCA
*
232981 TAAAATTTTATAAATT-ATCTTTTC
1 TAAAAATTTATAAATTCATCTTTTC
233005 TAAAAATTTATAAATTCATCTTT
1 TAAAAATTTATAAATTCATCTTT
233028 AACATAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 15 0.71
25 6 0.29
ACGTcount: A:0.40, C:0.09, G:0.00, T:0.51
Consensus pattern (25 bp):
TAAAAATTTATAAATTCATCTTTTC
Found at i:235290 original size:60 final size:58
Alignment explanation
Indices: 235192--235379 Score: 177
Period size: 59 Copynumber: 3.2 Consensus size: 58
235182 TTGCATCATA
* * * *
235192 TATCCTAAATTATAACTTTTA-TTTAAATTTAGT-TTTAAATTTTTTAATATT-TCAATTT
1 TATCCTAAA-TATAACTCTTATTTTAAA-TTAGTCCTTAAACTTTTGAATATTCT-AATTT
* *
235250 TATCCATAAACTATGACTCTTATTTTAAATTAGTCCTTAAACTTTTGAAAATTCTAATTT
1 TATCC-TAAA-TATAACTCTTATTTTAAATTAGTCCTTAAACTTTTGAATATTCTAATTT
* * * * *
235310 CATCCTTAAATATAACCCTCT-TTCTAAATTGGTCCCTAAACTTTTGAATATTCTAATTT
1 TATCC-TAAATATAACTCT-TATTTTAAATTAGTCCTTAAACTTTTGAATATTCTAATTT
235369 TATCTCTAAAT
1 TATC-CTAAAT
235380 TTATCCAAAT
Statistics
Matches: 108, Mismatches: 16, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
58 5 0.05
59 67 0.62
60 35 0.32
61 1 0.01
ACGTcount: A:0.34, C:0.15, G:0.04, T:0.48
Consensus pattern (58 bp):
TATCCTAAATATAACTCTTATTTTAAATTAGTCCTTAAACTTTTGAATATTCTAATTT
Found at i:237930 original size:16 final size:16
Alignment explanation
Indices: 237907--237946 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
237897 TTGAGTCGAG
*
237907 TCGAGCTCAGCACTAC
1 TCGAGCTCAACACTAC
*
237923 TTGAGCTCAACACTAC
1 TCGAGCTCAACACTAC
237939 TCGAGCTC
1 TCGAGCTC
237947 GACTCGGCTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.25, C:0.35, G:0.17, T:0.23
Consensus pattern (16 bp):
TCGAGCTCAACACTAC
Found at i:247557 original size:3 final size:3
Alignment explanation
Indices: 247549--247579 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
247539 TAGTTAAAAT
247549 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
247580 AAATCATGGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:251637 original size:20 final size:20
Alignment explanation
Indices: 251609--251646 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
251599 AAAAGGAATG
251609 TAAGAGTTTATTTGAAATAA
1 TAAGAGTTTATTTGAAATAA
*
251629 TAAGGGTTTATTTGAAAT
1 TAAGAGTTTATTTGAAAT
251647 GTTTTGAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.39, C:0.00, G:0.18, T:0.42
Consensus pattern (20 bp):
TAAGAGTTTATTTGAAATAA
Found at i:257525 original size:21 final size:21
Alignment explanation
Indices: 257499--257541 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 21
257489 TTCTGGGTTG
257499 TGTGCATCGATGCA-TCTTCAA
1 TGTGCATCGATGCACTC-TCAA
257520 TGTGCATCGATGCACTCTCAA
1 TGTGCATCGATGCACTCTCAA
257541 T
1 T
257542 TAAATGAACA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 19 0.90
22 2 0.10
ACGTcount: A:0.23, C:0.26, G:0.19, T:0.33
Consensus pattern (21 bp):
TGTGCATCGATGCACTCTCAA
Found at i:260182 original size:21 final size:21
Alignment explanation
Indices: 260140--260182 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
260130 AAAGTGGGAG
**
260140 AAATTAGGGATTCCTGAGATT
1 AAATTAGGGATTAATGAGATT
260161 AAATTAGGGATTGAATGA-ATT
1 AAATTAGGGATT-AATGAGATT
260182 A
1 A
260183 GAGGGGAAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.40, C:0.05, G:0.23, T:0.33
Consensus pattern (21 bp):
AAATTAGGGATTAATGAGATT
Found at i:260837 original size:21 final size:21
Alignment explanation
Indices: 260808--260853 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
260798 TTAATATCGT
**
260808 GTTCGTGTTTGTTCGTTTAAC
1 GTTCGTGTTCATTCGTTTAAC
* *
260829 GTTCTTGTTCATTCGTTTAGC
1 GTTCGTGTTCATTCGTTTAAC
260850 GTTC
1 GTTC
260854 ATGAACATGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.09, C:0.17, G:0.22, T:0.52
Consensus pattern (21 bp):
GTTCGTGTTCATTCGTTTAAC
Found at i:262938 original size:11 final size:11
Alignment explanation
Indices: 262910--262938 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
262900 ATTCGATGAC
262910 TAAATTTATTT
1 TAAATTTATTT
262921 T-AATTTATTT
1 TAAATTTATTT
262931 TAAATTTA
1 TAAATTTA
262939 ATAGATTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.59
11 7 0.41
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
TAAATTTATTT
Done.