Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004263.1 Hibiscus syriacus cultivar Beakdansim tig00009339_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: 116794
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Found at i:6282 original size:16 final size:17
Alignment explanation
Indices: 6252--6285 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
6242 CAATGAAACA
6252 AATAACTATAAAATAAT
1 AATAACTATAAAATAAT
6269 AATAACTA-AAAATAAT
1 AATAACTATAAAATAAT
6285 A
1 A
6286 TTTTAACTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (17 bp):
AATAACTATAAAATAAT
Found at i:8617 original size:18 final size:17
Alignment explanation
Indices: 8563--8611 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
8553 TTTGACCCTT
* *
8563 AGTGCATCGGTGCACTAA
1 AGTGCATCGATGCA-TCA
8581 GAGTGCATCGATGCATCA
1 -AGTGCATCGATGCATCA
8599 AGTGCATTCGATG
1 AGTGCA-TCGATG
8612 TTTCAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 6 0.22
18 8 0.30
19 13 0.48
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (17 bp):
AGTGCATCGATGCATCA
Found at i:8680 original size:46 final size:46
Alignment explanation
Indices: 8582--8703 Score: 126
Period size: 45 Copynumber: 2.7 Consensus size: 46
8572 GTGCACTAAG
* *
8582 AGTGCATCGATGCAT-CAAGTGCATTCGATGTTTCAAAATAGCCAG
1 AGTGCATCGATGCATGGAAGTGCATTCGATGTTTCAAAATAGCCAC
* * *
8627 AGTGCATCAATGCATGGAA-TGCATTCGATGTTTTCATAAA-ATCCTC
1 AGTGCATCGATGCATGGAAGTGCATTCGATG-TTTCA-AAATAGCCAC
* *
8673 AGTGCATCGGTGCATGGTATGTGCA-TCGATG
1 AGTGCATCGATGCATGG-AAGTGCATTCGATG
8704 CATGAAATGC
Statistics
Matches: 64, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
45 25 0.39
46 25 0.39
47 10 0.16
48 4 0.06
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.30
Consensus pattern (46 bp):
AGTGCATCGATGCATGGAAGTGCATTCGATGTTTCAAAATAGCCAC
Found at i:17389 original size:65 final size:64
Alignment explanation
Indices: 17191--17400 Score: 223
Period size: 65 Copynumber: 3.2 Consensus size: 64
17181 TGCACTAAGA
* * ** *
17191 GTGCATCGATGCATCAAGTGCATTCGATGTTTCAAAAT-AGCCAGAGTGCATCGATGCATGGCTG
1 GTGCATCGATGCATCAAATGCATTCGATGTTTCAATATAATTCAG-GTGCATCGATGCATGGTTG
* *
17255 GTGCATCGATGCATCAAATGCATTCGATGTTTTC-ATAAAATCCTCA-GTGCATCGGTGCATGGT
1 GTGCATCGATGCATCAAATGCATTCGATG-TTTCAATATAAT--TCAGGTGCATCGATGCATGGT
17318 AT-
63 -TG
* * *
17320 GTGCATCGATGCATGAAATGCATTCGATG-TTCAATTTAATTCATGGTACATCGATGCATGGATT
1 GTGCATCGATGCATCAAATGCATTCGATGTTTCAATATAATTCA-GGTGCATCGATGCATGG-TT
17384 G
64 G
*
17385 GTGCATCGGTGCATCA
1 GTGCATCGATGCATCA
17401 CTCTAAAAAA
Statistics
Matches: 122, Mismatches: 14, Indels: 19
0.79 0.09 0.12
Matches are distributed among these distances:
62 3 0.02
63 3 0.02
64 50 0.41
65 63 0.52
66 1 0.01
67 2 0.02
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.30
Consensus pattern (64 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTTCAATATAATTCAGGTGCATCGATGCATGGTTG
Found at i:18732 original size:30 final size:31
Alignment explanation
Indices: 18682--18744 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 31
18672 GACCGAAATA
* *
18682 TAATAAAACGATAACGTAAGTGACTAAAACT
1 TAATAAAACAATAACGTAAGTGACAAAAACT
*
18713 TAAT-AAACAATAACTTAAGTGACAAAAACT
1 TAATAAAACAATAACGTAAGTGACAAAAACT
18743 TA
1 TA
18745 TGTTGTTTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 25 0.86
31 4 0.14
ACGTcount: A:0.54, C:0.13, G:0.10, T:0.24
Consensus pattern (31 bp):
TAATAAAACAATAACGTAAGTGACAAAAACT
Found at i:19136 original size:21 final size:20
Alignment explanation
Indices: 19112--19189 Score: 66
Period size: 22 Copynumber: 3.5 Consensus size: 20
19102 CAATTAACAA
19112 TTACAATTAAATGAATATTTT
1 TTACAATTAAAT-AATATTTT
19133 TTACTATTAATTAATATAATATTTT
1 TTAC----AATTAA-ATAATATTTT
*
19158 TATAAAATTAAATTAATATTTT
1 T-TACAATTAAA-TAATATTTT
*
19180 TTACTATTAA
1 TTACAATTAA
19190 TTAACAAAAT
Statistics
Matches: 47, Mismatches: 3, Indels: 14
0.73 0.05 0.22
Matches are distributed among these distances:
21 12 0.26
22 16 0.34
25 15 0.32
26 4 0.09
ACGTcount: A:0.44, C:0.04, G:0.01, T:0.51
Consensus pattern (20 bp):
TTACAATTAAATAATATTTT
Found at i:19153 original size:25 final size:24
Alignment explanation
Indices: 19116--19215 Score: 107
Period size: 25 Copynumber: 4.1 Consensus size: 24
19106 TAACAATTAC
19116 AATTAAATGAATATTTTTTACTATT
1 AATTAAAT-AATATTTTTTACTATT
*
19141 AATTAATATAATA-TTTTTA-TA-A
1 AATTAA-ATAATATTTTTTACTATT
19163 AATTAAATTAATATTTTTTACTATT
1 AATTAAA-TAATATTTTTTACTATT
* *
19188 AATTAACAAAATAATTTTTACTAGTT
1 AATTAA-ATAATATTTTTTACTA-TT
19214 AA
1 AA
19216 ATATTCAAAT
Statistics
Matches: 64, Mismatches: 4, Indels: 13
0.79 0.05 0.16
Matches are distributed among these distances:
21 1 0.02
22 11 0.17
23 8 0.12
24 8 0.12
25 29 0.45
26 7 0.11
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.49
Consensus pattern (24 bp):
AATTAAATAATATTTTTTACTATT
Found at i:19170 original size:47 final size:48
Alignment explanation
Indices: 19116--19207 Score: 150
Period size: 47 Copynumber: 1.9 Consensus size: 48
19106 TAACAATTAC
* *
19116 AATTAAATGAATATTTTTTACTATTAATTAATATAAT-ATTTTTATAA
1 AATTAAATGAATATTTTTTACTATTAATTAACAAAATAATTTTTATAA
*
19163 AATTAAATTAATATTTTTTACTATTAATTAACAAAATAATTTTTA
1 AATTAAATGAATATTTTTTACTATTAATTAACAAAATAATTTTTA
19208 CTAGTTAAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
47 34 0.83
48 7 0.17
ACGTcount: A:0.46, C:0.03, G:0.01, T:0.50
Consensus pattern (48 bp):
AATTAAATGAATATTTTTTACTATTAATTAACAAAATAATTTTTATAA
Found at i:19714 original size:64 final size:63
Alignment explanation
Indices: 19547--19721 Score: 212
Period size: 64 Copynumber: 2.7 Consensus size: 63
19537 CACTCACCAT
* * *
19547 ATCGAATGTATTTTATGCATCGATGCACTACCATGCATCGATACACTCAGGTTTTATGAAAAT
1 ATCGAATGCATTTTATGCATCGATGCACTACCATGCATCGATGCACTCAGGTTTTATGAAAAC
* * *
19610 ATTGAATGCATTTTATGCATCAATGCACATACCATACATCGATGCACTCAGGCTTGTT-TG-AAA
1 ATCGAATGCATTTTATGCATCGATGCAC-TACCATGCATCGATGCACTCAGG-TT-TTATGAAAA
19673 C
63 C
* *
19674 ATCGAATGCATTTTATACATCGATGCACT-CTTAGTGCATCGATGCACT
1 ATCGAATGCATTTTATGCATCGATGCACTAC-CA-TGCATCGATGCACT
19722 AAGTGTTCCA
Statistics
Matches: 96, Mismatches: 11, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
62 1 0.01
63 27 0.28
64 62 0.65
65 4 0.04
66 2 0.02
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.33
Consensus pattern (63 bp):
ATCGAATGCATTTTATGCATCGATGCACTACCATGCATCGATGCACTCAGGTTTTATGAAAAC
Found at i:28374 original size:64 final size:63
Alignment explanation
Indices: 28245--28399 Score: 251
Period size: 64 Copynumber: 2.4 Consensus size: 63
28235 CACTCACCAT
*
28245 ATCGAATGCATTTTATGCATCGATGCACTACCATGCATCGATACACTCAGGTTTTATGAAAAC
1 ATCGAATGCATTTTATGCATCGATGCACGACCATGCATCGATACACTCAGGTTTTATGAAAAC
*
28308 ATCGAATGCATTTTATGCATCGATGCACAGACCATGCATCGATGCACTCAGGCTTGTT-TG-AAA
1 ATCGAATGCATTTTATGCATCGATGCAC-GACCATGCATCGATACACTCAGG-TT-TTATGAAAA
28371 C
63 C
28372 ATCGAATGCATTTTATGCATCGATGCAC
1 ATCGAATGCATTTTATGCATCGATGCAC
28400 TCTTAGTGCA
Statistics
Matches: 87, Mismatches: 2, Indels: 5
0.93 0.02 0.05
Matches are distributed among these distances:
63 28 0.32
64 53 0.61
65 4 0.05
66 2 0.02
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.30
Consensus pattern (63 bp):
ATCGAATGCATTTTATGCATCGATGCACGACCATGCATCGATACACTCAGGTTTTATGAAAAC
Found at i:28415 original size:64 final size:62
Alignment explanation
Indices: 28245--28419 Score: 237
Period size: 64 Copynumber: 2.7 Consensus size: 62
28235 CACTCACCAT
*
28245 ATCGAATGCATTTTATGCATCGATGCACTACCATGCATCGATACACTCAGGTTTTATGAAAAC
1 ATCGAATGCATTTTATGCATCGATGCACT-CCATGCATCGATGCACTCAGGTTTTATGAAAAC
*
28308 ATCGAATGCATTTTATGCATCGATGCACAGACCATGCATCGATGCACTCAGGCTTGTT-TG-AAA
1 ATCGAATGCATTTTATGCATCGATGCAC--TCCATGCATCGATGCACTCAGG-TT-TTATGAAAA
28371 C
62 C
* *
28372 ATCGAATGCATTTTATGCATCGATGCACTCTTAGTGCACCGATGCACT
1 ATCGAATGCATTTTATGCATCGATGCACTC-CA-TGCATCGATGCACT
28420 AAGTGTTCCA
Statistics
Matches: 101, Mismatches: 5, Indels: 11
0.86 0.04 0.09
Matches are distributed among these distances:
62 1 0.01
63 29 0.29
64 65 0.64
65 4 0.04
66 2 0.02
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (62 bp):
ATCGAATGCATTTTATGCATCGATGCACTCCATGCATCGATGCACTCAGGTTTTATGAAAAC
Found at i:29610 original size:100 final size:100
Alignment explanation
Indices: 29487--29682 Score: 340
Period size: 100 Copynumber: 2.0 Consensus size: 100
29477 CAATATCAAT
*
29487 CGGTTTGAACCTCCACTTAGTTTCACCCAAACTTAAT-TCTGGTCATGGATAGATCACCCACATA
1 CGGTTTAAACCTCCACTTAGTTTCACCCAAACTTAATCT-TGGTCATGGATAGATCACCCACATA
*
29551 GAGGGTGAATCAAACCCATGTTTGAATTAAAACTGA
65 GAGGGTGAATCAAACCCATGTTTAAATTAAAACTGA
* *
29587 CGGTTTAAACCTCCACTTAGTTTCACCCAAGCTTCATCTTGGTCATGGATAGATCACCCACATAG
1 CGGTTTAAACCTCCACTTAGTTTCACCCAAACTTAATCTTGGTCATGGATAGATCACCCACATAG
29652 AGGGTGAATCAAACCCATGTTTAAATTAAAA
66 AGGGTGAATCAAACCCATGTTTAAATTAAAA
29683 TTGAGATACT
Statistics
Matches: 91, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
100 90 0.99
101 1 0.01
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.28
Consensus pattern (100 bp):
CGGTTTAAACCTCCACTTAGTTTCACCCAAACTTAATCTTGGTCATGGATAGATCACCCACATAG
AGGGTGAATCAAACCCATGTTTAAATTAAAACTGA
Found at i:30104 original size:12 final size:12
Alignment explanation
Indices: 30087--30111 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
30077 GATTGAGGTG
30087 AAAAATGACAAC
1 AAAAATGACAAC
30099 AAAAATGACAAC
1 AAAAATGACAAC
30111 A
1 A
30112 TTGGATTGAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.68, C:0.16, G:0.08, T:0.08
Consensus pattern (12 bp):
AAAAATGACAAC
Found at i:34742 original size:20 final size:21
Alignment explanation
Indices: 34706--34747 Score: 52
Period size: 20 Copynumber: 2.0 Consensus size: 21
34696 AATATACTGC
34706 TTATATTATTCAATAAA-ATA
1 TTATATTATTCAATAAACATA
*
34726 TTATATTAATT-ATTAAACATA
1 TTATATT-ATTCAATAAACATA
34747 T
1 T
34748 AATTGTTGGG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (21 bp):
TTATATTATTCAATAAACATA
Found at i:39728 original size:4 final size:4
Alignment explanation
Indices: 39719--39749 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
39709 CTGAGATTAG
39719 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGA
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGA
39750 CAGACAGACA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.26, T:0.23
Consensus pattern (4 bp):
AGAT
Found at i:40042 original size:8 final size:8
Alignment explanation
Indices: 40043--42315 Score: 3452
Period size: 8 Copynumber: 284.4 Consensus size: 8
40033 ACAGACAGAC
40043 AGATAGAT
1 AGATAGAT
40051 AGATAGAT
1 AGATAGAT
40059 AGATAGAT
1 AGATAGAT
40067 AGATAGAT
1 AGATAGAT
40075 AGATAGAT
1 AGATAGAT
40083 AGATAGAT
1 AGATAGAT
40091 AGATAGAT
1 AGATAGAT
40099 AGATAGAT
1 AGATAGAT
40107 AGATAGAT
1 AGATAGAT
40115 AGATAGAT
1 AGATAGAT
40123 AGATAGAT
1 AGATAGAT
40131 AGATAGAT
1 AGATAGAT
40139 AGATAGAT
1 AGATAGAT
40147 AGATAGAT
1 AGATAGAT
40155 AGATAGAT
1 AGATAGAT
40163 AGATAGAT
1 AGATAGAT
40171 AGATAGAT
1 AGATAGAT
40179 AGATAGAT
1 AGATAGAT
40187 AGATAGAT
1 AGATAGAT
*
40195 AGATAGAC
1 AGATAGAT
*
40203 AGATAGAC
1 AGATAGAT
40211 AGATAGAT
1 AGATAGAT
*
40219 AGATAGAC
1 AGATAGAT
40227 AGATAGAT
1 AGATAGAT
* *
40235 AGACAGAC
1 AGATAGAT
40243 AGATAGAT
1 AGATAGAT
*
40251 AGACAGAT
1 AGATAGAT
*
40259 AGATAGAC
1 AGATAGAT
40267 AGATAGAT
1 AGATAGAT
40275 AGATAGAT
1 AGATAGAT
40283 AGATAGAT
1 AGATAGAT
*
40291 AGACAGAT
1 AGATAGAT
40299 AGATAGAT
1 AGATAGAT
*
40307 AGATAGAC
1 AGATAGAT
*
40315 AGATAGAC
1 AGATAGAT
40323 AGATAGAT
1 AGATAGAT
*
40331 AGATAGAC
1 AGATAGAT
*
40339 AGACAGAT
1 AGATAGAT
*
40347 AGACAGAT
1 AGATAGAT
*
40355 AGACAGAT
1 AGATAGAT
* *
40363 GGACAGAT
1 AGATAGAT
*
40371 AGACAGAT
1 AGATAGAT
40379 AGATAGAT
1 AGATAGAT
40387 AGATAGAT
1 AGATAGAT
*
40395 AGACAGAT
1 AGATAGAT
*
40403 AGACAGAT
1 AGATAGAT
40411 AGATAGAT
1 AGATAGAT
* *
40419 AGACAGAC
1 AGATAGAT
40427 AGATAGAT
1 AGATAGAT
*
40435 AGATAGAC
1 AGATAGAT
*
40443 AGATAGAC
1 AGATAGAT
40451 AGATAGAT
1 AGATAGAT
*
40459 AGATAGAC
1 AGATAGAT
* *
40467 AGACAGAC
1 AGATAGAT
* *
40475 AGACAGAC
1 AGATAGAT
* *
40483 AGACAGAC
1 AGATAGAT
40491 AGATAGAT
1 AGATAGAT
* *
40499 AGACAGAC
1 AGATAGAT
*
40507 AGACAGAT
1 AGATAGAT
40515 AGATAGAT
1 AGATAGAT
40523 AGATAGAT
1 AGATAGAT
40531 AGATAGAT
1 AGATAGAT
40539 AGATAGAT
1 AGATAGAT
40547 AGATAGAT
1 AGATAGAT
40555 AGATAGAT
1 AGATAGAT
40563 AGATAGAT
1 AGATAGAT
40571 AGATAGAT
1 AGATAGAT
40579 AGATAGAT
1 AGATAGAT
40587 AGATAGAT
1 AGATAGAT
40595 AGATAGAT
1 AGATAGAT
40603 AGATAGAT
1 AGATAGAT
40611 AGATAGAT
1 AGATAGAT
40619 AGATAGAT
1 AGATAGAT
40627 AGATAGAT
1 AGATAGAT
40635 AGATAGAT
1 AGATAGAT
40643 AGATAGAT
1 AGATAGAT
40651 AGATAGAT
1 AGATAGAT
40659 AGATAGAT
1 AGATAGAT
40667 AGATAGAT
1 AGATAGAT
40675 AGATAGAT
1 AGATAGAT
40683 AGATAGAT
1 AGATAGAT
40691 AGATAGAT
1 AGATAGAT
40699 AGATAGAT
1 AGATAGAT
40707 AGATAGAT
1 AGATAGAT
40715 AGATAGAT
1 AGATAGAT
40723 AGATAGAT
1 AGATAGAT
40731 AGATAGAT
1 AGATAGAT
40739 AGATAGAT
1 AGATAGAT
40747 AGATAGAT
1 AGATAGAT
40755 AGATAGAT
1 AGATAGAT
40763 AGATAGAT
1 AGATAGAT
40771 AGATAGAT
1 AGATAGAT
40779 AGATAGAT
1 AGATAGAT
40787 AGATAGAT
1 AGATAGAT
40795 AGATAGAT
1 AGATAGAT
40803 AGATAGAT
1 AGATAGAT
40811 AGATAGAT
1 AGATAGAT
40819 AGATAGAT
1 AGATAGAT
40827 AGATAGAT
1 AGATAGAT
40835 AGATAGAT
1 AGATAGAT
40843 AGATAGAT
1 AGATAGAT
40851 AGATAGAT
1 AGATAGAT
40859 AGATAGAT
1 AGATAGAT
40867 AGATAGAT
1 AGATAGAT
40875 AGATAGAT
1 AGATAGAT
40883 AGATAGAT
1 AGATAGAT
40891 AGATAGAT
1 AGATAGAT
40899 AGATAGAT
1 AGATAGAT
40907 AGATAGAT
1 AGATAGAT
40915 AGATAGAT
1 AGATAGAT
40923 AGATAGAT
1 AGATAGAT
40931 AGATAGAT
1 AGATAGAT
40939 AGATAGAT
1 AGATAGAT
40947 AGATAGAT
1 AGATAGAT
40955 AGATAGAT
1 AGATAGAT
40963 AGATAGAT
1 AGATAGAT
40971 AGATAGAT
1 AGATAGAT
40979 AGATAGAT
1 AGATAGAT
40987 AGATAGAT
1 AGATAGAT
40995 AGATAGAT
1 AGATAGAT
41003 AGATAGAT
1 AGATAGAT
41011 AGATAGAT
1 AGATAGAT
41019 AGATAGAT
1 AGATAGAT
41027 AGATAGAT
1 AGATAGAT
41035 AGATAGAT
1 AGATAGAT
41043 AGATAGAT
1 AGATAGAT
41051 AGATAGAT
1 AGATAGAT
41059 AGATAGAT
1 AGATAGAT
41067 AGATAGAT
1 AGATAGAT
41075 AGATAGAT
1 AGATAGAT
41083 AGATAGAT
1 AGATAGAT
41091 AGATAGAT
1 AGATAGAT
41099 AGATAGAT
1 AGATAGAT
41107 AGATAGAT
1 AGATAGAT
41115 AGATAGAT
1 AGATAGAT
41123 AGATAGAT
1 AGATAGAT
41131 AGATAGAT
1 AGATAGAT
41139 AGATAGAT
1 AGATAGAT
41147 AGATAGAT
1 AGATAGAT
41155 AGATAGAT
1 AGATAGAT
41163 AGATAGAT
1 AGATAGAT
41171 AGATAGAT
1 AGATAGAT
41179 AGATAGAT
1 AGATAGAT
41187 AGATAGAT
1 AGATAGAT
41195 AGATAGAT
1 AGATAGAT
41203 AGATAGAT
1 AGATAGAT
41211 AGATAGAT
1 AGATAGAT
41219 AGATAGAT
1 AGATAGAT
41227 AGATAGAT
1 AGATAGAT
41235 AGATAGAT
1 AGATAGAT
41243 AGATAGAT
1 AGATAGAT
41251 AGATAGAT
1 AGATAGAT
41259 AGATAGAT
1 AGATAGAT
41267 AGATAGAT
1 AGATAGAT
41275 AGATAGAT
1 AGATAGAT
41283 AGATAGAT
1 AGATAGAT
41291 AGATAGAT
1 AGATAGAT
41299 AGATAGAT
1 AGATAGAT
41307 AGATAGAT
1 AGATAGAT
41315 AGATAGAT
1 AGATAGAT
41323 AGATAGAT
1 AGATAGAT
41331 AGATAGAT
1 AGATAGAT
41339 AGATAGAT
1 AGATAGAT
41347 AGATAGAT
1 AGATAGAT
41355 AGATAGAT
1 AGATAGAT
41363 AGATAGAT
1 AGATAGAT
41371 AGATAGAT
1 AGATAGAT
41379 AGATAGAT
1 AGATAGAT
41387 AGATAGAT
1 AGATAGAT
41395 AGATAGAT
1 AGATAGAT
41403 AGATAGAT
1 AGATAGAT
41411 AGATAGAT
1 AGATAGAT
41419 AGATAGAT
1 AGATAGAT
41427 AGATAGAT
1 AGATAGAT
41435 AGATAGAT
1 AGATAGAT
41443 AGATAGAT
1 AGATAGAT
41451 AGATAGAT
1 AGATAGAT
41459 AGATAGAT
1 AGATAGAT
41467 AGATAGAT
1 AGATAGAT
41475 AGATAGAT
1 AGATAGAT
41483 AGATAGAT
1 AGATAGAT
41491 AGATAGAT
1 AGATAGAT
41499 AGATAGAT
1 AGATAGAT
41507 AGATAGAT
1 AGATAGAT
41515 AGATAGAT
1 AGATAGAT
41523 AGATAGAT
1 AGATAGAT
41531 AGATAGAT
1 AGATAGAT
41539 AGATAGAT
1 AGATAGAT
41547 AGATAGAT
1 AGATAGAT
41555 AGATAGAT
1 AGATAGAT
41563 AGATAGAT
1 AGATAGAT
41571 AGATAGAT
1 AGATAGAT
41579 AGATAGAT
1 AGATAGAT
41587 AGATAGAT
1 AGATAGAT
41595 AGATAGAT
1 AGATAGAT
41603 AGATAGAT
1 AGATAGAT
41611 AGATAGAT
1 AGATAGAT
41619 AGATAGAT
1 AGATAGAT
41627 AGATAGAT
1 AGATAGAT
41635 AGATAGAT
1 AGATAGAT
41643 AGATAGAT
1 AGATAGAT
41651 AGATAGAT
1 AGATAGAT
41659 AGATAGAT
1 AGATAGAT
41667 AGATAGAT
1 AGATAGAT
41675 AGATAGAT
1 AGATAGAT
41683 AGATAGAT
1 AGATAGAT
41691 AGATAGAT
1 AGATAGAT
41699 AGATAGAT
1 AGATAGAT
41707 AGATAGAT
1 AGATAGAT
41715 AGATAGAT
1 AGATAGAT
41723 AGATAGAT
1 AGATAGAT
41731 AGATAGAT
1 AGATAGAT
41739 AGATAGAT
1 AGATAGAT
41747 AGATAGAT
1 AGATAGAT
41755 AGATAGAT
1 AGATAGAT
41763 AGATAGAT
1 AGATAGAT
*
41771 AGATAGAC
1 AGATAGAT
*
41779 AGATAGAC
1 AGATAGAT
*
41787 AGATAGAC
1 AGATAGAT
*
41795 AGACAGAT
1 AGATAGAT
*
41803 AGATAGAC
1 AGATAGAT
41811 AGATAGAT
1 AGATAGAT
41819 AGA-AG-T
1 AGATAGAT
41825 AGATAGAT
1 AGATAGAT
*
41833 AGACAGAT
1 AGATAGAT
*
41841 AGACAGAT
1 AGATAGAT
*
41849 AGACAGAT
1 AGATAGAT
*
41857 AGATAGAC
1 AGATAGAT
*
41865 AGATAGAC
1 AGATAGAT
41873 AGATAGAT
1 AGATAGAT
*
41881 AGATAGAC
1 AGATAGAT
*
41889 AGATAGAC
1 AGATAGAT
*
41897 AGATAGAC
1 AGATAGAT
*
41905 AGATAGAC
1 AGATAGAT
* *
41913 AGACAGAC
1 AGATAGAT
* *
41921 AGACAGAC
1 AGATAGAT
*
41929 AGATAGAC
1 AGATAGAT
* *
41937 AGACAGAC
1 AGATAGAT
*
41945 AGACAGAT
1 AGATAGAT
* *
41953 AGACAGAC
1 AGATAGAT
* *
41961 AGACAGAC
1 AGATAGAT
* *
41969 AGACAGAC
1 AGATAGAT
* *
41977 AGACAGAC
1 AGATAGAT
*
41985 AGACAGAT
1 AGATAGAT
*
41993 AGACAGAT
1 AGATAGAT
*
42001 AGACAGAT
1 AGATAGAT
*
42009 AGACAGAT
1 AGATAGAT
* *
42017 AGACAGAC
1 AGATAGAT
*
42025 AGACAGAT
1 AGATAGAT
* *
42033 AGACAGAC
1 AGATAGAT
* *
42041 AGACAGAC
1 AGATAGAT
* *
42049 AGACAGAC
1 AGATAGAT
* **
42057 AGACAGGC
1 AGATAGAT
* *
42065 AGACAGAC
1 AGATAGAT
* *
42073 AGACAGAC
1 AGATAGAT
* *
42081 AGACAGAC
1 AGATAGAT
* *
42089 AGACAGAC
1 AGATAGAT
* *
42097 AGACAGAC
1 AGATAGAT
* *
42105 AGACAGAC
1 AGATAGAT
* *
42113 AGACAGAC
1 AGATAGAT
* *
42121 AGACAGAC
1 AGATAGAT
* *
42129 AGACAGAC
1 AGATAGAT
*
42137 AGATAGAC
1 AGATAGAT
*
42145 AGATAGAC
1 AGATAGAT
*
42153 AGATAGAC
1 AGATAGAT
* *
42161 AGATACAC
1 AGATAGAT
*
42169 AGATAGAC
1 AGATAGAT
* *
42177 AGATACAC
1 AGATAGAT
*
42185 AGATAGAC
1 AGATAGAT
*
42193 AGATAGAC
1 AGATAGAT
*
42201 AGATAGAC
1 AGATAGAT
*
42209 AGATAGAC
1 AGATAGAT
* *
42217 ATATAGAC
1 AGATAGAT
*
42225 AGATAGAC
1 AGATAGAT
*
42233 AGATAGAC
1 AGATAGAT
*
42241 AGATAGAC
1 AGATAGAT
*
42249 AGATAGAC
1 AGATAGAT
*
42257 AGATAGAC
1 AGATAGAT
*
42265 AGATAGAC
1 AGATAGAT
*
42273 AGATAGAC
1 AGATAGAT
*
42281 AGATAGAC
1 AGATAGAT
*
42289 AGATAGAC
1 AGATAGAT
42297 AGATAGAT
1 AGATAGAT
42305 AGATAGAT
1 AGATAGAT
42313 AGA
1 AGA
42316 GAAAATGAAT
Statistics
Matches: 2195, Mismatches: 68, Indels: 4
0.97 0.03 0.00
Matches are distributed among these distances:
6 4 0.00
7 4 0.00
8 2187 1.00
ACGTcount: A:0.50, C:0.05, G:0.25, T:0.20
Consensus pattern (8 bp):
AGATAGAT
Found at i:44105 original size:222 final size:220
Alignment explanation
Indices: 43671--44107 Score: 673
Period size: 222 Copynumber: 2.0 Consensus size: 220
43661 GGTTGAGTTC
* * *
43671 GGGTTTAGGGTGAAAAATTCCAGACCCGAAAATATATATAATTTTACCCTATATATTTAGGAATA
1 GGGTTTAGGGTGAAAAATACCAGACCCGAAAAAATATATAATTTTACACTATATATTTAGGAATA
43736 ATTACAATAATACCCCTCTAAATATAATTTTTTTCAATTAAGTCACTATTTTTATTGAATAAAAA
66 ATTACAATAATACCCCTCT-AATATAATTTTTTTCAATTAAGTCACTATTTTTATTGAATAAAAA
43801 TAATTTTTATATTATTTCAGGTCGGGTCGGATTTCTAATTCATATATTCGGGTCGGGTCGAGTGA
130 TAATTTTTATATTATTTCAGGTCGGGTCGGATTTCTAATTCATATATTCGGGTCGGGTCGAGTGA
43866 AAATTTATTTTGGTCGGGTCGGGTTT
195 AAATTTATTTTGGTCGGGTCGGGTTT
** *
43892 GGGTTTAGGGTGAAAAATACCCTACCCGACCCAAAAATATATAATTTTACATTATATATTTAGGA
1 GGGTTTAGGGTGAAAAATACCAGACCCGA---AAAAATATATAATTTTACACTATATATTTAGGA
* *
43957 ATAATTACAATAATACCCCTCT-ATAT-ATTTTTTTCCTAATTAAGTCATTGTTTTTATTGAATA
63 ATAATTACAATAATACCCCTCTAATATAATTTTTTT-C-AATTAAGTCACTATTTTTATTGAATA
* * * * *
44020 AAAAT-ATTTTTTTATTATTTCGGGTCGGGTCGGGTTTCTAATTCATATATTCGGGTTGGGTCGG
126 AAAATAATTTTTATATTATTTCAGGTCGGGTCGGATTTCTAATTCATATATTCGGGTCGGGTCGA
*
44084 GTGAAACTTTATTTTGGTCGGGTC
191 GTGAAAATTTATTTTGGTCGGGTC
44108 AGGTCTCGGA
Statistics
Matches: 197, Mismatches: 14, Indels: 9
0.90 0.06 0.04
Matches are distributed among these distances:
221 34 0.17
222 82 0.42
223 29 0.15
224 52 0.26
ACGTcount: A:0.30, C:0.13, G:0.17, T:0.40
Consensus pattern (220 bp):
GGGTTTAGGGTGAAAAATACCAGACCCGAAAAAATATATAATTTTACACTATATATTTAGGAATA
ATTACAATAATACCCCTCTAATATAATTTTTTTCAATTAAGTCACTATTTTTATTGAATAAAAAT
AATTTTTATATTATTTCAGGTCGGGTCGGATTTCTAATTCATATATTCGGGTCGGGTCGAGTGAA
AATTTATTTTGGTCGGGTCGGGTTT
Found at i:44550 original size:92 final size:92
Alignment explanation
Indices: 44439--44622 Score: 332
Period size: 92 Copynumber: 2.0 Consensus size: 92
44429 AATTCATGAC
*
44439 AGATTCTAATTCTTTCACAGATTTCAATTCCCTCATAAACATTTCAACGAACCAAATACTACCTT
1 AGATTCTAATTCCTTCACAGATTTCAATTCCCTCATAAACATTTCAACGAACCAAATACTACCTT
*
44504 ATAAATGTGAAAAAAGAAAGATACTGT
66 AGAAATGTGAAAAAAGAAAGATACTGT
* *
44531 AGATTTTAATTCCTTCACAGATTTCAATTCCCTCATAAACATTTCAACGAATCAAATACTACCTT
1 AGATTCTAATTCCTTCACAGATTTCAATTCCCTCATAAACATTTCAACGAACCAAATACTACCTT
44596 AGAAATGTGAAAAAAGAAAGATACTGT
66 AGAAATGTGAAAAAAGAAAGATACTGT
44623 TGCTTTGGAT
Statistics
Matches: 88, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
92 88 1.00
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.30
Consensus pattern (92 bp):
AGATTCTAATTCCTTCACAGATTTCAATTCCCTCATAAACATTTCAACGAACCAAATACTACCTT
AGAAATGTGAAAAAAGAAAGATACTGT
Found at i:45336 original size:18 final size:18
Alignment explanation
Indices: 45313--45349 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
45303 AATACATAAA
45313 ATTAAACTTCATTTATTG
1 ATTAAACTTCATTTATTG
45331 ATTAAACTTCATTTATTG
1 ATTAAACTTCATTTATTG
45349 A
1 A
45350 ATTGTTATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.35, C:0.11, G:0.05, T:0.49
Consensus pattern (18 bp):
ATTAAACTTCATTTATTG
Found at i:46790 original size:15 final size:16
Alignment explanation
Indices: 46770--46807 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
46760 AGGTTTGATT
46770 TTATTTTTAAA-TAAA
1 TTATTTTTAAATTAAA
46785 TTATTTTTTAAATTAAA
1 TTA-TTTTTAAATTAAA
*
46802 ATATTT
1 TTATTT
46808 ATGAGTTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
15 3 0.15
16 11 0.55
17 6 0.30
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
TTATTTTTAAATTAAA
Found at i:46794 original size:16 final size:17
Alignment explanation
Indices: 46773--46807 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
46763 TTTGATTTTA
*
46773 TTTTTAAA-TAAATTAT
1 TTTTTAAATTAAAATAT
46789 TTTTTAAATTAAAATAT
1 TTTTTAAATTAAAATAT
46806 TT
1 TT
46808 ATGAGTTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
TTTTTAAATTAAAATAT
Found at i:49157 original size:22 final size:22
Alignment explanation
Indices: 49129--49171 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
49119 TAAATACGGT
49129 ATGAACAATACCATGAACAGTA
1 ATGAACAATACCATGAACAGTA
*
49151 ATGAACAATATCATGAACAGT
1 ATGAACAATACCATGAACAGT
49172 GCTACAGTGC
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:0.49, C:0.16, G:0.14, T:0.21
Consensus pattern (22 bp):
ATGAACAATACCATGAACAGTA
Found at i:49953 original size:30 final size:31
Alignment explanation
Indices: 49914--49980 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 31
49904 GAAGGACCTA
* * *
49914 TCCAGAGGTCATAAAGAACCTCGGC-AACTG
1 TCCATAGGTCACAAAGAACCTAGGCAAACTG
* **
49944 TCCATAGGTCCCGTAGAACCTAGGCAAACTG
1 TCCATAGGTCACAAAGAACCTAGGCAAACTG
49975 TCCATA
1 TCCATA
49981 TGTTCCTTAG
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
30 19 0.63
31 11 0.37
ACGTcount: A:0.31, C:0.28, G:0.21, T:0.19
Consensus pattern (31 bp):
TCCATAGGTCACAAAGAACCTAGGCAAACTG
Found at i:49977 original size:31 final size:31
Alignment explanation
Indices: 49928--50018 Score: 112
Period size: 31 Copynumber: 3.0 Consensus size: 31
49918 GAGGTCATAA
* *
49928 AGAACCTCGGC-AACTGTCCATAGGTCCCGT
1 AGAACCTAGGCAAACTGTCCATATGTCCCGT
* *
49958 AGAACCTAGGCAAACTGTCCATATGTTCCTT
1 AGAACCTAGGCAAACTGTCCATATGTCCCGT
* * *
49989 AGAACTTAGGTATACTGTCCATATGTCCCG
1 AGAACCTAGGCAAACTGTCCATATGTCCCG
50019 AAAGACACAT
Statistics
Matches: 51, Mismatches: 9, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
30 10 0.20
31 41 0.80
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.26
Consensus pattern (31 bp):
AGAACCTAGGCAAACTGTCCATATGTCCCGT
Found at i:52848 original size:17 final size:17
Alignment explanation
Indices: 52826--52860 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
52816 TTGCTGAGTT
52826 GATAGATGAAATTATGG
1 GATAGATGAAATTATGG
52843 GATAGATGAAATTATGG
1 GATAGATGAAATTATGG
52860 G
1 G
52861 CGACCATGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.40, C:0.00, G:0.31, T:0.29
Consensus pattern (17 bp):
GATAGATGAAATTATGG
Found at i:54977 original size:6 final size:6
Alignment explanation
Indices: 54966--55002 Score: 74
Period size: 6 Copynumber: 6.2 Consensus size: 6
54956 GACACGTATT
54966 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG A
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG A
55003 GCCGAGACGA
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:0.35, C:0.49, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:56784 original size:2 final size:2
Alignment explanation
Indices: 56779--56805 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
56769 GTGACGTGTG
56779 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
56806 TTTAGTAATT
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:65416 original size:18 final size:18
Alignment explanation
Indices: 65393--65431 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
65383 ACCGGTTATA
*
65393 ACCCGACCCGACCCGTTG
1 ACCCGACCCAACCCGTTG
65411 ACCCGACCCAACCCGTTG
1 ACCCGACCCAACCCGTTG
65429 ACC
1 ACC
65432 GTTGACCACA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.21, C:0.51, G:0.18, T:0.10
Consensus pattern (18 bp):
ACCCGACCCAACCCGTTG
Found at i:71884 original size:25 final size:25
Alignment explanation
Indices: 71825--71887 Score: 108
Period size: 25 Copynumber: 2.5 Consensus size: 25
71815 TATTCTATGC
* *
71825 GGCATTTTCAAGTGCAACTCTACAT
1 GGCACTTTCGAGTGCAACTCTACAT
71850 GGCACTTTCGAGTGCAACTCTACAT
1 GGCACTTTCGAGTGCAACTCTACAT
71875 GGCACTTTCGAGT
1 GGCACTTTCGAGT
71888 TCATTTATAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.30
Consensus pattern (25 bp):
GGCACTTTCGAGTGCAACTCTACAT
Found at i:74796 original size:66 final size:68
Alignment explanation
Indices: 74687--74822 Score: 163
Period size: 66 Copynumber: 2.0 Consensus size: 68
74677 ATATATTAAT
* *
74687 ATTTTATTATATTTATATACGATACGTATTCAAATATTGAAATAGATTAT-G-TT-AAAAAAAGT
1 ATTTTATTATATTTATATACGATACATATTCAAATATTAAAATAGATT-TCGATTGAAAAAAAGT
74749 AAGA
65 AAGA
* *** *
74753 ATTTTATTATA-TTAGTATACTATACATATTTGGATATTAAAATAGATTTCGATTGTAAAAAAGT
1 ATTTTATTATATTTA-TATACGATACATATTCAAATATTAAAATAGATTTCGATTGAAAAAAAGT
74817 AAGA
65 AAGA
74821 AT
1 AT
74823 GTAAGGGGTG
Statistics
Matches: 59, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
65 4 0.07
66 39 0.66
67 2 0.03
68 14 0.24
ACGTcount: A:0.44, C:0.04, G:0.11, T:0.40
Consensus pattern (68 bp):
ATTTTATTATATTTATATACGATACATATTCAAATATTAAAATAGATTTCGATTGAAAAAAAGTA
AGA
Found at i:78709 original size:17 final size:16
Alignment explanation
Indices: 78675--78709 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
78665 TATGATACAT
*
78675 ACACTTTAATTCTATG
1 ACACTTTAATACTATG
78691 ACACTTTAATACTTATG
1 ACACTTTAATAC-TATG
78708 AC
1 AC
78710 TCATATAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.34, C:0.20, G:0.06, T:0.40
Consensus pattern (16 bp):
ACACTTTAATACTATG
Found at i:79712 original size:20 final size:21
Alignment explanation
Indices: 79687--79738 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
79677 TTTTCCCAAT
*
79687 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
79707 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
79728 TCGCAATGCGA
1 TCGCAATGCGA
79739 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:79751 original size:41 final size:41
Alignment explanation
Indices: 79724--79801 Score: 111
Period size: 41 Copynumber: 1.9 Consensus size: 41
79714 GCGAATTGGG
* * *
79724 AAAATCGCAATGCGATACTGACTATCGCAATGCGATAATAA
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATAATAA
* *
79765 AAAATCGCAACGAGATACTTACTTTCGCAACGCGATA
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATA
79802 CTGACTTTCG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 32 1.00
ACGTcount: A:0.40, C:0.22, G:0.17, T:0.22
Consensus pattern (41 bp):
AAAATCGCAACGAGATACTGACTATCGCAACGCGATAATAA
Found at i:79752 original size:20 final size:20
Alignment explanation
Indices: 79727--79821 Score: 91
Period size: 20 Copynumber: 4.7 Consensus size: 20
79717 AATTGGGAAA
*
79727 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * * **
79747 ATCGCAATGCGATAATAAAAA
1 ATCGCAACGCGATACT-GACT
* *
79768 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTGACT
*
79788 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
*
79808 TTCGCAACGCGATA
1 ATCGCAACGCGATA
79822 ATACATAATC
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
20 47 0.77
21 14 0.23
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.23
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:80035 original size:22 final size:22
Alignment explanation
Indices: 80009--80052 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
79999 CACTCTCTCA
*
80009 CCCATTTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
*
80031 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
80053 TATCTCCATC
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:80354 original size:20 final size:20
Alignment explanation
Indices: 80331--80373 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
80321 GATAGTCGAA
80331 TTCGCGTTGCGATTTTCATT
1 TTCGCGTTGCGATTTTCATT
*
80351 TTCGTGTTGCGATTTTCATT
1 TTCGCGTTGCGATTTTCATT
80371 TTC
1 TTC
80374 AGAAACTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.09, C:0.19, G:0.19, T:0.53
Consensus pattern (20 bp):
TTCGCGTTGCGATTTTCATT
Found at i:81714 original size:18 final size:18
Alignment explanation
Indices: 81688--81732 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
81678 TCCACTTCGG
*
81688 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
*
81706 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
81724 GAGCCATCA
1 GAGCCATCA
81733 TCTGATCGAC
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:0.27, C:0.44, G:0.16, T:0.13
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:82268 original size:19 final size:20
Alignment explanation
Indices: 82214--82280 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
82204 TAGTTTACTT
* *
82214 TCGCAACACGAAAATGACTA
1 TCGCAACGCGGAAATGACTA
*
82234 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGGAAATGACTA
* **
82254 TCGCAATGC-GAAATGAAAA
1 TCGCAACGCGGAAATGACTA
82273 TCGCAACG
1 TCGCAACG
82281 ACAAAATCGC
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
19 14 0.36
20 25 0.64
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.15
Consensus pattern (20 bp):
TCGCAACGCGGAAATGACTA
Found at i:82288 original size:14 final size:14
Alignment explanation
Indices: 82269--82326 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
82259 ATGCGAAATG
82269 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
82283 AAAATCGCAATGCGAA
1 AAAATCGCAA--CGAC
82299 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
82315 AAAATCGCAACG
1 AAAATCGCAACG
82327 CGAAATGAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.48, C:0.24, G:0.17, T:0.10
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:82311 original size:32 final size:33
Alignment explanation
Indices: 82253--82343 Score: 166
Period size: 32 Copynumber: 2.8 Consensus size: 33
82243 GGAAATGGCT
82253 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
82286 ATCGCAATGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
82318 ATCGCAACGCGAAATGAAAATCGCAA
1 ATCGCAATGCGAAATGAAAATCGCAA
82344 TGCGATTTGT
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
32 31 0.55
33 25 0.45
ACGTcount: A:0.47, C:0.22, G:0.19, T:0.12
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:82379 original size:14 final size:14
Alignment explanation
Indices: 82360--82417 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
82350 TTGTGTTTCG
82360 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
82374 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
82390 CGCGTTGCGATTTTGT
1 --CGTTGCGATTTTGT
82406 CGTTGCGATTTT
1 CGTTGCGATTTT
82418 CATTTCGCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 23 0.61
16 4 0.11
18 11 0.29
ACGTcount: A:0.09, C:0.17, G:0.26, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:82394 original size:32 final size:33
Alignment explanation
Indices: 82355--82433 Score: 142
Period size: 32 Copynumber: 2.4 Consensus size: 33
82345 GCGATTTGTG
82355 TTTCGCGTTGCGATTTTGTCGTTGCGA-TTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
82387 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
*
82420 TTTCGCATTGCGAT
1 TTTCGCGTTGCGAT
82434 AGCCATTTCC
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
32 27 0.60
33 18 0.40
ACGTcount: A:0.10, C:0.19, G:0.24, T:0.47
Consensus pattern (33 bp):
TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
Found at i:82432 original size:19 final size:19
Alignment explanation
Indices: 82374--82491 Score: 95
Period size: 20 Copynumber: 6.4 Consensus size: 19
82364 GCGATTTTGT
82374 CGTTGCGA-TTTCATTTCG
1 CGTTGCGATTTTCATTTCG
*
82392 CGTTGCGA-TTT--TGT--
1 CGTTGCGATTTTCATTTCG
82406 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
* ***
82425 CATTGCGATAGCCATTTCCG
1 CGTTGCGATTTTCATTT-CG
**
82445 CGTTGCGATAGTCATTTCG
1 CGTTGCGATTTTCATTTCG
*
82464 CGTTGCGATTTTAAGTTTCG
1 CGTTGCGATTTTCA-TTTCG
*
82484 TGTTGCGA
1 CGTTGCGA
82492 AAGTAAACTA
Statistics
Matches: 81, Mismatches: 12, Indels: 12
0.77 0.11 0.11
Matches are distributed among these distances:
14 8 0.10
15 3 0.04
16 2 0.02
17 2 0.02
18 11 0.14
19 26 0.32
20 29 0.36
ACGTcount: A:0.14, C:0.20, G:0.25, T:0.42
Consensus pattern (19 bp):
CGTTGCGATTTTCATTTCG
Found at i:84360 original size:14 final size:14
Alignment explanation
Indices: 84341--84376 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
84331 ATTGTTTAAT
84341 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
84355 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
84369 TGATTTGT
1 TGATTTGT
84377 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:84509 original size:33 final size:33
Alignment explanation
Indices: 84464--84541 Score: 122
Period size: 33 Copynumber: 2.4 Consensus size: 33
84454 AAAACAGACT
* *
84464 ATCGCAACGCGAAATGGCT-ATCGCAACGAGAAA
1 ATCGCAATGCGAAAT-GATGATCGCAACGAGAAA
84497 ATCGCAATGCGAAATGATGATCGCAACGAGAAA
1 ATCGCAATGCGAAATGATGATCGCAACGAGAAA
84530 ATCGCAATGCGA
1 ATCGCAATGCGA
84542 TTTTCATTTC
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
32 2 0.05
33 40 0.95
ACGTcount: A:0.40, C:0.22, G:0.24, T:0.14
Consensus pattern (33 bp):
ATCGCAATGCGAAATGATGATCGCAACGAGAAA
Found at i:84607 original size:20 final size:20
Alignment explanation
Indices: 84560--84618 Score: 100
Period size: 21 Copynumber: 2.9 Consensus size: 20
84550 TCGCATTGCG
*
84560 ATTTTCTCGTTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
84580 ATTTTTCGCGTTGCGATAGCC
1 A-TTTTCGCGTTGCGATAGCC
84601 ATTTTCGCGTTGCGATAG
1 ATTTTCGCGTTGCGATAG
84619 TCAAATGAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
20 18 0.49
21 19 0.51
ACGTcount: A:0.15, C:0.22, G:0.24, T:0.39
Consensus pattern (20 bp):
ATTTTCGCGTTGCGATAGCC
Found at i:85702 original size:24 final size:24
Alignment explanation
Indices: 85670--85716 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
85660 AGCCAGTATT
*
85670 CGAAATTTGATCTTGGTCAATACC
1 CGAAATTTGATATTGGTCAATACC
*
85694 CGAACTTTGATATTGGTCAATAC
1 CGAAATTTGATATTGGTCAATAC
85717 ACGGATTTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (24 bp):
CGAAATTTGATATTGGTCAATACC
Found at i:85726 original size:24 final size:24
Alignment explanation
Indices: 85670--85728 Score: 73
Period size: 24 Copynumber: 2.5 Consensus size: 24
85660 AGCCAGTATT
* * *
85670 CGAAATTTGATCTTGGTCAATACC
1 CGAACTTTGATATTGGTCAATACA
85694 CGAACTTTGATATTGGTCAATACA
1 CGAACTTTGATATTGGTCAATACA
* *
85718 CGGATTTTGAT
1 CGAACTTTGAT
85729 GATGTTTCAG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.36
Consensus pattern (24 bp):
CGAACTTTGATATTGGTCAATACA
Found at i:85920 original size:12 final size:12
Alignment explanation
Indices: 85903--85927 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
85893 ATATAATCCT
85903 GAAGAAGAAAAA
1 GAAGAAGAAAAA
85915 GAAGAAGAAAAA
1 GAAGAAGAAAAA
85927 G
1 G
85928 TTCCCGAAGA
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:88245 original size:19 final size:19
Alignment explanation
Indices: 88223--88287 Score: 68
Period size: 19 Copynumber: 3.7 Consensus size: 19
88213 GGAAATTACT
88223 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
**
88242 ATCGCAA--CG--A-GGGA
1 ATCGCAATGCGAAATGAAA
88256 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
88275 ATCGCAACGCGAA
1 ATCGCAATGCGAA
88288 TTTTATTTCG
Statistics
Matches: 36, Mismatches: 5, Indels: 10
0.71 0.10 0.20
Matches are distributed among these distances:
14 9 0.25
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 21 0.58
ACGTcount: A:0.43, C:0.20, G:0.25, T:0.12
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:88246 original size:39 final size:33
Alignment explanation
Indices: 88223--88285 Score: 117
Period size: 33 Copynumber: 1.9 Consensus size: 33
88213 GGAAATTACT
*
88223 ATCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 ATCGCAATGCGAAATGAAAATCGCAACGCGGGA
88256 ATCGCAATGCGAAATGAAAATCGCAACGCG
1 ATCGCAATGCGAAATGAAAATCGCAACGCG
88286 AATTTTATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.41, C:0.21, G:0.25, T:0.13
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGCGGGA
Found at i:88465 original size:14 final size:14
Alignment explanation
Indices: 88446--88482 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
88436 CATCAATTAA
88446 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
88460 ACAAATCACCTTTT
1 ACAAATCAACTTTT
88474 ACAAATCAA
1 ACAAATCAA
88483 TTAAACAATC
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:89905 original size:21 final size:21
Alignment explanation
Indices: 89839--89905 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
89829 GTGAATCGGG
*
89839 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
89859 TCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
89881 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
89902 CTCT
1 CTCT
89906 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:0.19, G:0.36, T:0.25
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:89924 original size:42 final size:41
Alignment explanation
Indices: 89839--89961 Score: 113
Period size: 42 Copynumber: 2.9 Consensus size: 41
89829 GTGAATCGGG
* * * * *
89839 CTCTTGAATGGTGGGA-GGGATCTCTTCAACGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGGA-CTC-TCGAGGATGATAGGGGC
89881 CTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGAGGGGACTCTCGAGG-ATGATAGGGGC
* * * * *
89923 CTCTTCAACGATAGGAGTGGACTCTTGAGGGATGATAGG
1 CTCTTGAACGGTGGGAGGGGACTCTCGA-GGATGATAGG
89962 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:0.17, G:0.37, T:0.24
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGGACTCTCGAGGATGATAGGGGC
Found at i:91992 original size:20 final size:19
Alignment explanation
Indices: 91961--92140 Score: 112
Period size: 19 Copynumber: 9.8 Consensus size: 19
91951 TCTTTTGGTT
91961 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGA
* *
91980 GATAATGAGAATCGCAACGCG
1 GA-AATGAAAATCGCAACG-A
**
92001 GAAATGACTATCGCAACGA
1 GAAATGAAAATCGCAACGA
92020 G--A-G--AATCGCAAC-A
1 GAAATGAAAATCGCAACGA
**
92033 CGAAATGACTATCG---CGA
1 -GAAATGAAAATCGCAACGA
** * *
92050 -CCA-GACAATCGCAACGC
1 GAAATGAAAATCGCAACGA
*
92067 GAAATGAAAATCGCAACCGC
1 GAAATGAAAATCGCAA-CGA
* *
92087 GAAATAAAAATCGCAACGC
1 GAAATGAAAATCGCAACGA
*
92106 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGA
*
92125 GAAATAAAAATCGCAA
1 GAAATGAAAATCGCAA
92141 TGCGATTTTT
Statistics
Matches: 129, Mismatches: 17, Indels: 30
0.73 0.10 0.17
Matches are distributed among these distances:
13 1 0.01
14 16 0.12
15 1 0.01
16 3 0.02
17 5 0.04
18 1 0.01
19 53 0.41
20 47 0.36
21 2 0.02
ACGTcount: A:0.46, C:0.22, G:0.21, T:0.12
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGA
Found at i:92043 original size:33 final size:33
Alignment explanation
Indices: 91986--92084 Score: 135
Period size: 33 Copynumber: 3.0 Consensus size: 33
91976 ACGAGATAAT
*
91986 GAGAATCGCAACGCGGAAATGACTATCGCAACGA
1 GAGAATCGCAACGC-GAAATGACTATCGCAACCA
* *
92020 GAGAATCGCAACACGAAATGACTATCGCGACCA
1 GAGAATCGCAACGCGAAATGACTATCGCAACCA
* **
92053 GACAATCGCAACGCGAAATGAAAATCGCAACC
1 GAGAATCGCAACGCGAAATGACTATCGCAACC
92085 GCGAAATAAA
Statistics
Matches: 57, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
33 44 0.77
34 13 0.23
ACGTcount: A:0.40, C:0.26, G:0.22, T:0.11
Consensus pattern (33 bp):
GAGAATCGCAACGCGAAATGACTATCGCAACCA
Found at i:92078 original size:19 final size:19
Alignment explanation
Indices: 92056--92145 Score: 144
Period size: 19 Copynumber: 4.7 Consensus size: 19
92046 GCGACCAGAC
*
92056 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATAAA
92075 AATCGCAACCGCGAAATAAA
1 AATCGCAA-CGCGAAATAAA
*
92095 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATAAA
92114 AATCGCAACGCGAAATAAA
1 AATCGCAACGCGAAATAAA
*
92133 AATCGCAATGCGA
1 AATCGCAACGCGA
92146 TTTTTGTTTC
Statistics
Matches: 66, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
19 48 0.73
20 18 0.27
ACGTcount: A:0.48, C:0.22, G:0.19, T:0.11
Consensus pattern (19 bp):
AATCGCAACGCGAAATAAA
Found at i:92099 original size:39 final size:38
Alignment explanation
Indices: 92056--92145 Score: 162
Period size: 39 Copynumber: 2.3 Consensus size: 38
92046 GCGACCAGAC
92056 AATCGCAACGCGAAATGAAAATCGCAACCGCGAAATAAA
1 AATCGCAACGCGAAATGAAAATCGCAA-CGCGAAATAAA
92095 AATCGCAACGCGAAATGAAAATCGCAACGCGAAATAAA
1 AATCGCAACGCGAAATGAAAATCGCAACGCGAAATAAA
*
92133 AATCGCAATGCGA
1 AATCGCAACGCGA
92146 TTTTTGTTTC
Statistics
Matches: 50, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
38 23 0.46
39 27 0.54
ACGTcount: A:0.48, C:0.22, G:0.19, T:0.11
Consensus pattern (38 bp):
AATCGCAACGCGAAATGAAAATCGCAACGCGAAATAAA
Found at i:92768 original size:20 final size:20
Alignment explanation
Indices: 92745--92790 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
92735 GTAAATCGCT
92745 TTGCGAAAGTCAGAATCGT-G
1 TTGCGAAAGTCAGAAT-GTCG
*
92765 TTGCGAAAGTCAGTATGTCG
1 TTGCGAAAGTCAGAATGTCG
92785 TTGCGA
1 TTGCGA
92791 TTTTGTATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 2 0.08
20 22 0.92
ACGTcount: A:0.26, C:0.15, G:0.30, T:0.28
Consensus pattern (20 bp):
TTGCGAAAGTCAGAATGTCG
Found at i:92943 original size:21 final size:21
Alignment explanation
Indices: 92903--92943 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
92893 GTTGTATACC
**
92903 ATCGCAACGCGATTTCCAACT
1 ATCGCAACGCGAAATCCAACT
*
92924 ATCGCAACGCGAAATGCAAC
1 ATCGCAACGCGAAATCCAAC
92944 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:0.32, G:0.17, T:0.17
Consensus pattern (21 bp):
ATCGCAACGCGAAATCCAACT
Found at i:93304 original size:31 final size:32
Alignment explanation
Indices: 93266--93335 Score: 83
Period size: 32 Copynumber: 2.2 Consensus size: 32
93256 AAATTAAATT
*
93266 TTAATTTAA-TCATTTAA-TTTTAGATAA-AATA
1 TTAATTTAACTCA-TAAACTTTT-GATAACAATA
*
93297 TTGATTTAACTCATAAACTTTTGATAACAATA
1 TTAATTTAACTCATAAACTTTTGATAACAATA
93329 TTAATTT
1 TTAATTT
93336 GACCCTTAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
31 16 0.48
32 17 0.52
ACGTcount: A:0.41, C:0.07, G:0.04, T:0.47
Consensus pattern (32 bp):
TTAATTTAACTCATAAACTTTTGATAACAATA
Found at i:95172 original size:64 final size:64
Alignment explanation
Indices: 95040--95192 Score: 177
Period size: 64 Copynumber: 2.4 Consensus size: 64
95030 AGGTGTATCG
* * * * *
95040 ATGCACAGGTAGTGCATCGATGCACTCTTTTAAAATATAAACATCGAATGCAATTAGTGCATCA
1 ATGCACAAGCAGTGCATCGATGCATTCTATTAAAATATAAACATCGAATGCAATTAGTGCACCA
* *
95104 ATGCATAAGGCA-TGCATCGATGCATTCTATTAATAATA-AAACATCGAATGCATTTTA-TGCAC
1 ATGCACAA-GCAGTGCATCGATGCATTCTATTAA-AATATAAACATCGAATGCA-ATTAGTGCAC
*
95166 CG
63 CA
*
95168 ATGCACAAGTAGTGCATCGATGCAT
1 ATGCACAAGCAGTGCATCGATGCAT
95193 ACCTTCATTA
Statistics
Matches: 75, Mismatches: 10, Indels: 8
0.81 0.11 0.09
Matches are distributed among these distances:
63 2 0.03
64 64 0.85
65 9 0.12
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.28
Consensus pattern (64 bp):
ATGCACAAGCAGTGCATCGATGCATTCTATTAAAATATAAACATCGAATGCAATTAGTGCACCA
Found at i:97285 original size:64 final size:63
Alignment explanation
Indices: 97174--97332 Score: 151
Period size: 63 Copynumber: 2.5 Consensus size: 63
97164 ATTGTTTAAG
* * * * * * *
97174 GTGTATCGATGCACATGGAGTGTATTGATACACTCCTTTAAAATAAAAACATCGAATGCCATCA
1 GTGTATCGATGCACAAGTAGTGCATCGATGCACTCCCTTAAAAT-AAAACATCGAAGGCCATCA
* * * ** **
97238 GTGTATCGATGCACAAGTAGTGCATCGATGCAC-CCCTTAAGATTAAAATATCGAGGGTGATTT
1 GTGTATCGATGCACAAGTAGTGCATCGATGCACTCCCTTAA-AATAAAACATCGAAGGCCATCA
*
97301 GTGTACCGATGCACAAGTAGTGCATCG-TGCAC
1 GTGTATCGATGCACAAGTAGTGCATCGATGCAC
97333 ACGTTATGGA
Statistics
Matches: 79, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
62 5 0.06
63 44 0.56
64 30 0.38
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.27
Consensus pattern (63 bp):
GTGTATCGATGCACAAGTAGTGCATCGATGCACTCCCTTAAAATAAAACATCGAAGGCCATCA
Found at i:97934 original size:22 final size:22
Alignment explanation
Indices: 97882--97934 Score: 88
Period size: 22 Copynumber: 2.4 Consensus size: 22
97872 TCGAGGGTTA
* *
97882 CAGTGGTCATTTGGGACATATC
1 CAGTGGTCCTTCGGGACATATC
97904 CAGTGGTCCTTCGGGACATATC
1 CAGTGGTCCTTCGGGACATATC
97926 CAGTGGTCC
1 CAGTGGTCC
97935 GGGACGTAGT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.19, C:0.25, G:0.28, T:0.28
Consensus pattern (22 bp):
CAGTGGTCCTTCGGGACATATC
Found at i:99971 original size:20 final size:20
Alignment explanation
Indices: 99935--99972 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
99925 TATAACAGGC
*
99935 ACATGTCTATTGTTTGATAA
1 ACATGTCTATGGTTTGATAA
99955 ACATGT-TATGGTATTGAT
1 ACATGTCTATGGT-TTGAT
99973 TGATCCAGGG
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 5 0.31
20 11 0.69
ACGTcount: A:0.29, C:0.08, G:0.18, T:0.45
Consensus pattern (20 bp):
ACATGTCTATGGTTTGATAA
Found at i:104126 original size:64 final size:63
Alignment explanation
Indices: 104014--104132 Score: 141
Period size: 64 Copynumber: 1.9 Consensus size: 63
104004 TTGGGCATGG
* * * * *
104014 AGTGTATTGATGCACATGGAGTGTATCGATTCACTCCTTTAAAATAAAAACATCGAATGCCATC
1 AGTGTATAGATGCACAAGGAGTGCATCGATGCACTCCCTTAAAAT-AAAACATCGAATGCCATC
* * *
104078 AGTGTATAGATGCAGAAGTAGTGCATCGATGCAC-CCCTTAAGATTAAAACATCGA
1 AGTGTATAGATGCACAAGGAGTGCATCGATGCACTCCCTTAA-AATAAAACATCGA
104133 GGGTGATTTG
Statistics
Matches: 46, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
63 16 0.35
64 30 0.65
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.27
Consensus pattern (63 bp):
AGTGTATAGATGCACAAGGAGTGCATCGATGCACTCCCTTAAAATAAAACATCGAATGCCATC
Found at i:104193 original size:24 final size:24
Alignment explanation
Indices: 104165--104218 Score: 108
Period size: 24 Copynumber: 2.2 Consensus size: 24
104155 CAGGTAGTGT
104165 ATCGATGCACACGTTATGGAATGC
1 ATCGATGCACACGTTATGGAATGC
104189 ATCGATGCACACGTTATGGAATGC
1 ATCGATGCACACGTTATGGAATGC
104213 ATCGAT
1 ATCGAT
104219 ACACTGTAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (24 bp):
ATCGATGCACACGTTATGGAATGC
Found at i:104776 original size:22 final size:22
Alignment explanation
Indices: 104748--104808 Score: 95
Period size: 22 Copynumber: 2.8 Consensus size: 22
104738 TCGAGGGTTA
*
104748 CAGTGGTCCTTTGGGACATATC
1 CAGTGGTCCTTCGGGACATATC
*
104770 CAGTGGTCCTTCGAGACATATC
1 CAGTGGTCCTTCGGGACATATC
*
104792 CAGTGGTCATTCGGGAC
1 CAGTGGTCCTTCGGGAC
104809 GTAGTGGTCT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.20, C:0.25, G:0.28, T:0.28
Consensus pattern (22 bp):
CAGTGGTCCTTCGGGACATATC
Found at i:104816 original size:18 final size:18
Alignment explanation
Indices: 104793--104845 Score: 70
Period size: 18 Copynumber: 2.9 Consensus size: 18
104783 AGACATATCC
*
104793 AGTGGTCATTCGGGACGT
1 AGTGGTCATTCGGGACAT
*
104811 AGTGGTCTTTCGGGACAT
1 AGTGGTCATTCGGGACAT
* *
104829 AGTGGTTATTTGGGACA
1 AGTGGTCATTCGGGACA
104846 AATATTCAGT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.19, C:0.13, G:0.36, T:0.32
Consensus pattern (18 bp):
AGTGGTCATTCGGGACAT
Found at i:112479 original size:31 final size:30
Alignment explanation
Indices: 112422--112510 Score: 81
Period size: 31 Copynumber: 3.0 Consensus size: 30
112412 TTTTTCATTT
* * **
112422 AAGTACTTAAAGTGT-TTTTTTATCAAAAC
1 AAGTACCTAAAGTATCTTTTTGGTCAAAAC
** *
112451 AAGTATTTAAAGTTATCTTTTTGGTCAAAAT
1 AAGTACCTAAAG-TATCTTTTTGGTCAAAAC
* *
112482 AGGTACCTAAAGTATTTTTTTGGTCAAAA
1 AAGTACCTAAAGTATCTTTTTGGTCAAAA
112511 TAGGTACTTA
Statistics
Matches: 49, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
29 11 0.22
30 18 0.37
31 20 0.41
ACGTcount: A:0.36, C:0.09, G:0.13, T:0.42
Consensus pattern (30 bp):
AAGTACCTAAAGTATCTTTTTGGTCAAAAC
Found at i:112504 original size:30 final size:31
Alignment explanation
Indices: 112458--112523 Score: 107
Period size: 30 Copynumber: 2.2 Consensus size: 31
112448 AACAAGTATT
112458 TAAAGTTATCTTTTTGGTCAAAATAGGTACC
1 TAAAGTTATCTTTTTGGTCAAAATAGGTACC
* *
112489 TAAAG-TATTTTTTTGGTCAAAATAGGTACT
1 TAAAGTTATCTTTTTGGTCAAAATAGGTACC
112519 TAAAG
1 TAAAG
112524 AATCCAAAGT
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
30 28 0.85
31 5 0.15
ACGTcount: A:0.35, C:0.09, G:0.17, T:0.39
Consensus pattern (31 bp):
TAAAGTTATCTTTTTGGTCAAAATAGGTACC
Found at i:112667 original size:28 final size:28
Alignment explanation
Indices: 112610--112666 Score: 89
Period size: 28 Copynumber: 2.1 Consensus size: 28
112600 AAAAAAATTG
* *
112610 AATAGTTTAGGTACCTATTTTGACATAA
1 AATACTTTAGGAACCTATTTTGACATAA
112638 AATACTTTAGGAACCTATTTTGAC-TAA
1 AATACTTTAGGAACCTATTTTGACATAA
112665 AA
1 AA
112667 AGATGATTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
27 5 0.19
28 22 0.81
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.37
Consensus pattern (28 bp):
AATACTTTAGGAACCTATTTTGACATAA
Found at i:113532 original size:40 final size:40
Alignment explanation
Indices: 113477--113556 Score: 133
Period size: 40 Copynumber: 2.0 Consensus size: 40
113467 TAGGTTAGTT
*
113477 TTTTTAGGAGAATTTCATAAACGATTTTACCATTTTAGGA
1 TTTTTAAGAGAATTTCATAAACGATTTTACCATTTTAGGA
* *
113517 TTTTTAAGATAATTTCATAAATGATTTTACCATTTTAGGA
1 TTTTTAAGAGAATTTCATAAACGATTTTACCATTTTAGGA
113557 GTTCAAAACC
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.34, C:0.09, G:0.12, T:0.45
Consensus pattern (40 bp):
TTTTTAAGAGAATTTCATAAACGATTTTACCATTTTAGGA
Found at i:115540 original size:60 final size:60
Alignment explanation
Indices: 115427--115540 Score: 151
Period size: 60 Copynumber: 1.9 Consensus size: 60
115417 CTATAGCTTA
* * *
115427 TTGCTTTGTTGAGTCCTCTGACTATTAAAAGTTACAAAATGATCCTTCGACTATAGGGCG
1 TTGCTTTGTTGAGTCCTCTAACTATTAAAAGTTACAAAATGATCATTCAACTATAGGGCG
* *
115487 TTGCTTTGTTGAGTTCCTC-AACTATTAGAAGTTACAAAATGGTCA-TCTAACTAT
1 TTGCTTTGTTGAG-TCCTCTAACTATTAAAAGTTACAAAATGATCATTC-AACTAT
115541 TCATTATATT
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
59 2 0.04
60 40 0.85
61 5 0.11
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.37
Consensus pattern (60 bp):
TTGCTTTGTTGAGTCCTCTAACTATTAAAAGTTACAAAATGATCATTCAACTATAGGGCG
Found at i:115858 original size:60 final size:60
Alignment explanation
Indices: 115746--115861 Score: 144
Period size: 60 Copynumber: 1.9 Consensus size: 60
115736 ATAGTCGAGT
* * **
115746 GACCATTTTGTAACTTTTCATAGTTGAGGGACTCAACAAAGTAACATTCTATAGTCAGGC
1 GACCATTTTGTAACTTTTCATAGTCGAGGGACTCAACAAAGCAACAACCTATAGTCAGGC
* * * *
115806 GACCATTTTGTATCTTTTGATAGTCGGGGGACTC-GCTAAAGCAACAACCTATAGTC
1 GACCATTTTGTAACTTTTCATAGTCGAGGGACTCAAC-AAAGCAACAACCTATAGTC
115862 GGGTACCATT
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
59 1 0.02
60 46 0.98
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (60 bp):
GACCATTTTGTAACTTTTCATAGTCGAGGGACTCAACAAAGCAACAACCTATAGTCAGGC
Done.