Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007085.1 Hibiscus syriacus cultivar Beakdansim tig00018484_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: 155070
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Found at i:2294 original size:78 final size:79
Alignment explanation
Indices: 2194--2371 Score: 286
Period size: 80 Copynumber: 2.2 Consensus size: 79
2184 GAACGCACCT
2194 GTATATCTCGTATACATGAGTGCTCTGT-GTTGTTCCAAGTTAATCTAATTCAGATACGAGTGTT
1 GTATATCT-GTATACATGAGTGCTCTGTGGTTGTTCCAAGTTAATCTAATTCAGATACGAGTGTT
*
2258 GAATACATGCAAATA
65 GAATACATGCAAACA
**
2273 GTATATCTGTATACATGAGTGCTCTGTGGGTTGTTCTGAGTTAATCTAATTCAGATACGAGTGTT
1 GTATATCTGTATACATGAGTGCTCTGT-GGTTGTTCCAAGTTAATCTAATTCAGATACGAGTGTT
*
2338 GAATACATGCACACA
65 GAATACATGCAAACA
2353 GTATATCTTGTATACATGA
1 GTATATC-TGTATACATGA
2372 TCGCTCTCTG
Statistics
Matches: 92, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
78 19 0.21
79 8 0.09
80 54 0.59
81 11 0.12
ACGTcount: A:0.29, C:0.15, G:0.20, T:0.36
Consensus pattern (79 bp):
GTATATCTGTATACATGAGTGCTCTGTGGTTGTTCCAAGTTAATCTAATTCAGATACGAGTGTTG
AATACATGCAAACA
Found at i:3848 original size:2 final size:2
Alignment explanation
Indices: 3841--3877 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
3831 AAGAACGTCT
3841 TA TA TA TA TA 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 TA TA TA TA TA T
3878 GTTGCAGTCA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:8273 original size:14 final size:15
Alignment explanation
Indices: 8244--8276 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
8234 ACTAAATCAT
8244 AAGAAAATTAAATAA
1 AAGAAAATTAAATAA
*
8259 AAGAAGATT-AATAA
1 AAGAAAATTAAATAA
8273 AAGA
1 AAGA
8277 GAGAGACGAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.70, C:0.00, G:0.12, T:0.18
Consensus pattern (15 bp):
AAGAAAATTAAATAA
Found at i:30702 original size:2 final size:2
Alignment explanation
Indices: 30695--30740 Score: 53
Period size: 2 Copynumber: 24.0 Consensus size: 2
30685 ATAAACAATG
*
30695 CT CT CT CT C- CT TT CT CT C- CT CT CT CT CT CAT CT CT CT C- CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C-T CT CT CT CT CT
30735 CT CT CT
1 CT CT CT
30741 TGTAAATTTA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
1 3 0.08
2 33 0.87
3 2 0.05
ACGTcount: A:0.02, C:0.50, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:30712 original size:9 final size:9
Alignment explanation
Indices: 30695--30740 Score: 65
Period size: 9 Copynumber: 4.9 Consensus size: 9
30685 ATAAACAATG
30695 CTCTCTCTC
1 CTCTCTCTC
*
30704 CTTTCTCTC
1 CTCTCTCTC
30713 CTCTCTCTC
1 CTCTCTCTC
30722 TCATCTCTCTC
1 -C-TCTCTCTC
30733 CTCTCTCT
1 CTCTCTCT
30741 TGTAAATTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
9 23 0.70
10 2 0.06
11 8 0.24
ACGTcount: A:0.02, C:0.50, G:0.00, T:0.48
Consensus pattern (9 bp):
CTCTCTCTC
Found at i:30720 original size:20 final size:20
Alignment explanation
Indices: 30695--30740 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
30685 ATAAACAATG
* *
30695 CTCTCTCTCCTTTCTCTCCT
1 CTCTCTCTCATCTCTCTCCT
30715 CTCTCTCTCATCTCTCTCCT
1 CTCTCTCTCATCTCTCTCCT
30735 CTCTCT
1 CTCTCT
30741 TGTAAATTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.02, C:0.50, G:0.00, T:0.48
Consensus pattern (20 bp):
CTCTCTCTCATCTCTCTCCT
Found at i:34873 original size:26 final size:27
Alignment explanation
Indices: 34833--34886 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
34823 ATGATCGCTT
34833 AAATTTGATATGAATCAAAATTAACTC
1 AAATTTGATATGAATCAAAATTAACTC
* * *
34860 AAATTTTA-ATGAATCGATATTAACTC
1 AAATTTGATATGAATCAAAATTAACTC
34886 A
1 A
34887 TAGTTAACTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 17 0.71
27 7 0.29
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.35
Consensus pattern (27 bp):
AAATTTGATATGAATCAAAATTAACTC
Found at i:41162 original size:17 final size:17
Alignment explanation
Indices: 41140--41174 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
41130 TACAGAGTAA
41140 AATTATTTAATATAGGT
1 AATTATTTAATATAGGT
41157 AATTATTTAATATAGGT
1 AATTATTTAATATAGGT
41174 A
1 A
41175 GATACTGAGT
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:0.43, C:0.00, G:0.11, T:0.46
Consensus pattern (17 bp):
AATTATTTAATATAGGT
Found at i:41925 original size:14 final size:14
Alignment explanation
Indices: 41906--41932 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
41896 AGATTTTTTT
41906 AAAAAAAAAATTAC
1 AAAAAAAAAATTAC
41920 AAAAAAAAAATTA
1 AAAAAAAAAATTA
41933 AAACTGACCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.81, C:0.04, G:0.00, T:0.15
Consensus pattern (14 bp):
AAAAAAAAAATTAC
Found at i:44390 original size:2 final size:2
Alignment explanation
Indices: 44383--44454 Score: 81
Period size: 2 Copynumber: 36.0 Consensus size: 2
44373 TTATCTATTA
* * * *
44383 AG AG AG AG AG AG TG AG AG AG GG GG AG AG AG AG AG AG AG AG GG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
* * *
44425 AG GG AG GG AG AG GG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
44455 GACTTATGAT
Statistics
Matches: 58, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
2 58 1.00
ACGTcount: A:0.40, C:0.00, G:0.58, T:0.01
Consensus pattern (2 bp):
AG
Found at i:44422 original size:28 final size:28
Alignment explanation
Indices: 44383--44450 Score: 100
Period size: 28 Copynumber: 2.4 Consensus size: 28
44373 TTATCTATTA
* *
44383 AGAGAGAGAGAGTGAGAGAGGGGGAGAG
1 AGAGAGAGAGAGGGAGAGAGGGAGAGAG
* *
44411 AGAGAGAGAGAGGGAGGGAGGGAGAGGG
1 AGAGAGAGAGAGGGAGAGAGGGAGAGAG
44439 AGAGAGAGAGAG
1 AGAGAGAGAGAG
44451 AGAGGACTTA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.40, C:0.00, G:0.59, T:0.01
Consensus pattern (28 bp):
AGAGAGAGAGAGGGAGAGAGGGAGAGAG
Found at i:46164 original size:16 final size:18
Alignment explanation
Indices: 46143--46180 Score: 62
Period size: 16 Copynumber: 2.2 Consensus size: 18
46133 AAGTAATAAA
46143 TAAAATATAT-AT-ATTT
1 TAAAATATATAATAATTT
46159 TAAAATATATAATAATTT
1 TAAAATATATAATAATTT
46177 TAAA
1 TAAA
46181 TTTTCAAAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 10 0.50
17 2 0.10
18 8 0.40
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
TAAAATATATAATAATTT
Found at i:50027 original size:19 final size:19
Alignment explanation
Indices: 50003--50040 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
49993 TCCATTTTCT
*
50003 CTTGTATACAGTGTATGGA
1 CTTGTATACAATGTATGGA
50022 CTTGTATACAATGTATGGA
1 CTTGTATACAATGTATGGA
50041 GCCTTATTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.11, G:0.24, T:0.37
Consensus pattern (19 bp):
CTTGTATACAATGTATGGA
Found at i:51763 original size:31 final size:32
Alignment explanation
Indices: 51728--51792 Score: 105
Period size: 32 Copynumber: 2.1 Consensus size: 32
51718 TGATGATCAC
*
51728 ATCTTAATTGAAT-AAAAACAAAAGTGACCAT
1 ATCTTAATTAAATAAAAAACAAAAGTGACCAT
*
51759 ATCTTAATTAAATAAAAAACGAAAGTGACCAT
1 ATCTTAATTAAATAAAAAACAAAAGTGACCAT
51791 AT
1 AT
51793 ACTATGTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
31 12 0.39
32 19 0.61
ACGTcount: A:0.52, C:0.12, G:0.09, T:0.26
Consensus pattern (32 bp):
ATCTTAATTAAATAAAAAACAAAAGTGACCAT
Found at i:65785 original size:2 final size:2
Alignment explanation
Indices: 65778--65812 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
65768 AGAAAAGATA
65778 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
65813 CTAAATGTAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:66461 original size:16 final size:16
Alignment explanation
Indices: 66442--66475 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
66432 CAATATACGA
66442 ATAAAAATATATTTAT
1 ATAAAAATATATTTAT
**
66458 ATAAATGTATATTTAT
1 ATAAAAATATATTTAT
66474 AT
1 AT
66476 TTAGATGTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (16 bp):
ATAAAAATATATTTAT
Found at i:66549 original size:16 final size:18
Alignment explanation
Indices: 66517--66550 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
66507 TATTAATGTA
66517 TGAATCATTTATATTTTT
1 TGAATCATTTATATTTTT
66535 TGAAT-ATTT-TATTTTT
1 TGAATCATTTATATTTTT
66551 AATAAGAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 4 0.25
18 5 0.31
ACGTcount: A:0.26, C:0.03, G:0.06, T:0.65
Consensus pattern (18 bp):
TGAATCATTTATATTTTT
Found at i:66794 original size:114 final size:114
Alignment explanation
Indices: 66674--67037 Score: 334
Period size: 114 Copynumber: 3.1 Consensus size: 114
66664 TAAATCTTAA
66674 ATTTATTCTTTTAAAATATTGTATCAACTAATATTTAAAAAATATATTAAATCTATCAAACAATT
1 ATTTATTCTTTTAAAATATTGTATCAACTAATATTTAAAAAATATATTAAATCTATCAAACAATT
66739 TATCAAATATAATATTTTTTATTGTAAAAAAATATAATATTTTCTCATC
66 TATCAAATATAATATTTTTTATTGTAAAAAAATATAATATTTTCTCATC
* * * ** * * * * *
66788 ATTTATTGC-TTTCAAATTTTTTGCCGAAGTTACTCAACTT-AAGATTATATATATAATC-AT-A
1 ATTTATT-CTTTTAAAATATTGTATC-AA-CTAAT--ATTTAAAAAATATAT-TA-AATCTATCA
* ** * * * * *
66849 AATTATAAATATGAAAAATATAATTATTAAATTTAGTT-TAAAAATATATAA-A---TCTTA-A
59 AA-CA-ATTTAT--CAAATATAA-TATT--TTTTA-TTGTAAAAAAATATAATATTTTCTCATC
*
66907 ATTTATTCTTTTACAATATTGTATCAACTAATATTTAAAAAATATATTAAATCTATCAAACAATT
1 ATTTATTCTTTTAAAATATTGTATCAACTAATATTTAAAAAATATATTAAATCTATCAAACAATT
66972 TATCAAATATAATATTTTTTATTGTAAAAAAATATAATATTTTCTCATC
66 TATCAAATATAATATTTTTTATTGTAAAAAAATATAATATTTTCTCATC
* *
67021 ATTTATTGTTTTCAAAT
1 ATTTATTCTTTTAAAAT
67038 TTTTTGCCGA
Statistics
Matches: 185, Mismatches: 40, Indels: 50
0.67 0.15 0.18
Matches are distributed among these distances:
108 2 0.01
109 16 0.09
110 1 0.01
111 4 0.02
112 8 0.04
113 4 0.02
114 40 0.22
115 11 0.06
116 14 0.08
117 14 0.08
118 11 0.06
119 25 0.14
120 4 0.02
121 8 0.04
122 4 0.02
123 1 0.01
124 16 0.09
125 2 0.01
ACGTcount: A:0.44, C:0.09, G:0.03, T:0.45
Consensus pattern (114 bp):
ATTTATTCTTTTAAAATATTGTATCAACTAATATTTAAAAAATATATTAAATCTATCAAACAATT
TATCAAATATAATATTTTTTATTGTAAAAAAATATAATATTTTCTCATC
Found at i:66842 original size:233 final size:233
Alignment explanation
Indices: 66585--67051 Score: 907
Period size: 233 Copynumber: 2.0 Consensus size: 233
66575 ATATTAGAAA
*
66585 TACTCAACTTAAGATTATATATATAATCATGAATTATAAATATGAAAAATATAATTATTAAATTT
1 TACTCAACTTAAGATTATATATATAATCATAAATTATAAATATGAAAAATATAATTATTAAATTT
66650 AGTTTAAAAATATATAAATCTTAAATTTATTCTTTTAAAATATTGTATCAACTAATATTTAAAAA
66 AGTTTAAAAATATATAAATCTTAAATTTATTCTTTTAAAATATTGTATCAACTAATATTTAAAAA
66715 ATATATTAAATCTATCAAACAATTTATCAAATATAATATTTTTTATTGTAAAAAAATATAATATT
131 ATATATTAAATCTATCAAACAATTTATCAAATATAATATTTTTTATTGTAAAAAAATATAATATT
66780 TTCTCATCATTTATTGCTTTCAAATTTTTTGCCGAAGT
196 TTCTCATCATTTATTGCTTTCAAATTTTTTGCCGAAGT
66818 TACTCAACTTAAGATTATATATATAATCATAAATTATAAATATGAAAAATATAATTATTAAATTT
1 TACTCAACTTAAGATTATATATATAATCATAAATTATAAATATGAAAAATATAATTATTAAATTT
*
66883 AGTTTAAAAATATATAAATCTTAAATTTATTCTTTTACAATATTGTATCAACTAATATTTAAAAA
66 AGTTTAAAAATATATAAATCTTAAATTTATTCTTTTAAAATATTGTATCAACTAATATTTAAAAA
66948 ATATATTAAATCTATCAAACAATTTATCAAATATAATATTTTTTATTGTAAAAAAATATAATATT
131 ATATATTAAATCTATCAAACAATTTATCAAATATAATATTTTTTATTGTAAAAAAATATAATATT
*
67013 TTCTCATCATTTATTGTTTTCAAATTTTTTGCCGAAGT
196 TTCTCATCATTTATTGCTTTCAAATTTTTTGCCGAAGT
67051 T
1 T
67052 CAAATCTCAT
Statistics
Matches: 231, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
233 231 1.00
ACGTcount: A:0.44, C:0.08, G:0.04, T:0.44
Consensus pattern (233 bp):
TACTCAACTTAAGATTATATATATAATCATAAATTATAAATATGAAAAATATAATTATTAAATTT
AGTTTAAAAATATATAAATCTTAAATTTATTCTTTTAAAATATTGTATCAACTAATATTTAAAAA
ATATATTAAATCTATCAAACAATTTATCAAATATAATATTTTTTATTGTAAAAAAATATAATATT
TTCTCATCATTTATTGCTTTCAAATTTTTTGCCGAAGT
Found at i:67458 original size:130 final size:130
Alignment explanation
Indices: 67255--67502 Score: 442
Period size: 130 Copynumber: 1.9 Consensus size: 130
67245 AATTTTCTTC
*
67255 TAATTAGGTGGTGACATGTGTCACCAATAACACATATCATGATCATGTGTTAACACATGTCAGAT
1 TAATTAGGTGGTGACATGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
*
67320 CCTGATTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGATAGCATATATAAA
66 CCTAATTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGATAGCATATATAAA
* * * *
67385 TAATTAGGTGGTGACATGTGTCATCAATGACACGTGTCATGATCATGTGCTAACACATGTCAGAT
1 TAATTAGGTGGTGACATGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
67450 CCTAATTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGAT
66 CCTAATTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGAT
67503 TATATAAATA
Statistics
Matches: 112, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
130 112 1.00
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.37
Consensus pattern (130 bp):
TAATTAGGTGGTGACATGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
CCTAATTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGATAGCATATATAAA
Found at i:67945 original size:35 final size:35
Alignment explanation
Indices: 67899--67974 Score: 116
Period size: 35 Copynumber: 2.2 Consensus size: 35
67889 AACTGAATTT
* *
67899 AATTGAATTATTTTGGAATTTAGGGTTTAAAATGA
1 AATTGAATTATTTTAGAAATTAGGGTTTAAAATGA
* *
67934 AATTGAATTATTTTAGAAATTGGGGTTTAGAATGA
1 AATTGAATTATTTTAGAAATTAGGGTTTAAAATGA
67969 AATTGA
1 AATTGA
67975 GGACTGTTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.38, C:0.00, G:0.21, T:0.41
Consensus pattern (35 bp):
AATTGAATTATTTTAGAAATTAGGGTTTAAAATGA
Found at i:74809 original size:19 final size:18
Alignment explanation
Indices: 74775--74828 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 18
74765 CCTGTTTTGT
*
74775 CGGTTTTCAGCCGGTTCACCC
1 CGGTTTT-A-CCGGTTCA-AC
74796 CGGTTTTACCGGTTTCAAC
1 CGGTTTTACCGG-TTCAAC
*
74815 CGGTTCTACCGGTT
1 CGGTTTTACCGGTT
74829 TTCAGCCGGT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
18 2 0.07
19 16 0.53
20 5 0.17
21 7 0.23
ACGTcount: A:0.11, C:0.31, G:0.24, T:0.33
Consensus pattern (18 bp):
CGGTTTTACCGGTTCAAC
Found at i:74829 original size:19 final size:20
Alignment explanation
Indices: 74795--74839 Score: 65
Period size: 19 Copynumber: 2.3 Consensus size: 20
74785 CCGGTTCACC
*
74795 CCGGTTTTACCGG-TTTCAA
1 CCGGTTCTACCGGTTTTCAA
*
74814 CCGGTTCTACCGGTTTTCAG
1 CCGGTTCTACCGGTTTTCAA
74834 CCGGTT
1 CCGGTT
74840 TATTGCCAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 12 0.52
20 11 0.48
ACGTcount: A:0.11, C:0.29, G:0.24, T:0.36
Consensus pattern (20 bp):
CCGGTTCTACCGGTTTTCAA
Found at i:75722 original size:31 final size:31
Alignment explanation
Indices: 75651--75730 Score: 88
Period size: 31 Copynumber: 2.6 Consensus size: 31
75641 AACTTTTAAA
* * * *
75651 ATTTACAATACAATCCCCTAATATTTAGTTT
1 ATTTACAATATAATCCCCCAACATTTAGTCT
* *
75682 ATTTGCAATATGATCCCCCAACATTTAGTCT
1 ATTTACAATATAATCCCCCAACATTTAGTCT
* *
75713 GTTTACAATATAGTCCCC
1 ATTTACAATATAATCCCC
75731 GACCTTTTGA
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.38
Consensus pattern (31 bp):
ATTTACAATATAATCCCCCAACATTTAGTCT
Found at i:94124 original size:19 final size:19
Alignment explanation
Indices: 94083--94125 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
94073 TATGGAAAGA
* *
94083 ATTTTATACTATCATTTTC
1 ATTTTATACTATCAATATC
94102 ATTTTATACTATCAAATAT-
1 ATTTTATACTATC-AATATC
94121 ATTTT
1 ATTTT
94126 TAAAAAACAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 18 0.86
20 3 0.14
ACGTcount: A:0.33, C:0.12, G:0.00, T:0.56
Consensus pattern (19 bp):
ATTTTATACTATCAATATC
Found at i:94423 original size:10 final size:11
Alignment explanation
Indices: 94401--94435 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
94391 TGTTATTAAA
94401 AAATTATTTTT
1 AAATTATTTTT
*
94412 AAATTATTTTA
1 AAATTATTTTT
94423 AAATATATTTTT
1 AAAT-TATTTTT
94435 A
1 A
94436 TAAGTATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 14 0.67
12 7 0.33
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (11 bp):
AAATTATTTTT
Found at i:96908 original size:28 final size:27
Alignment explanation
Indices: 96877--96933 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
96867 ATAATTTGTA
* * *
96877 TAAATATTGCTATTATTTGTAATTGGAT
1 TAAATATTGATAGT-TTAGTAATTGGAT
*
96905 TAAATTTTGATAGTTTAGTAATTGGAT
1 TAAATATTGATAGTTTAGTAATTGGAT
96932 TA
1 TA
96934 TGACTATCAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
27 14 0.56
28 11 0.44
ACGTcount: A:0.33, C:0.02, G:0.16, T:0.49
Consensus pattern (27 bp):
TAAATATTGATAGTTTAGTAATTGGAT
Found at i:96979 original size:16 final size:17
Alignment explanation
Indices: 96958--96990 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
96948 GATATTAATT
*
96958 TAATTGGATTA-ATTTG
1 TAATTGAATTATATTTG
96974 TAATTGAATTATATTTG
1 TAATTGAATTATATTTG
96991 GATTAAGTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.52
Consensus pattern (17 bp):
TAATTGAATTATATTTG
Found at i:97025 original size:15 final size:15
Alignment explanation
Indices: 97005--97035 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
96995 AAGTTTTGAT
97005 AGTCTAGGTAATTAA
1 AGTCTAGGTAATTAA
97020 AGTCTAGGTAATTAA
1 AGTCTAGGTAATTAA
97035 A
1 A
97036 TTATTTAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.42, C:0.06, G:0.19, T:0.32
Consensus pattern (15 bp):
AGTCTAGGTAATTAA
Found at i:97343 original size:17 final size:18
Alignment explanation
Indices: 97316--97350 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
97306 CGAGTACCCG
97316 AATTACGGGTACCCACAA
1 AATTACGGGTACCCACAA
97334 AATT-CGGGTACCCACAA
1 AATTACGGGTACCCACAA
97351 CATCCGGGTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.37, C:0.29, G:0.17, T:0.17
Consensus pattern (18 bp):
AATTACGGGTACCCACAA
Found at i:97358 original size:17 final size:17
Alignment explanation
Indices: 97321--97359 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
97311 ACCCGAATTA
*
97321 CGGGTACCCACAAAATT
1 CGGGTACCCACAAAATC
*
97338 CGGGTACCCACAACATC
1 CGGGTACCCACAAAATC
97355 CGGGT
1 CGGGT
97360 CGGGACACGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.28, C:0.33, G:0.23, T:0.15
Consensus pattern (17 bp):
CGGGTACCCACAAAATC
Found at i:100057 original size:33 final size:33
Alignment explanation
Indices: 99957--100058 Score: 80
Period size: 33 Copynumber: 3.1 Consensus size: 33
99947 TGTGGCGGGT
* *
99957 GCAACAGGTCTTGGTCATCGTGCAAAGGGTGCG
1 GCAACTGGTCTTGGTCATCATGCAAAGGGTGCG
* ** * ** ** *
99990 GCAGCTCTTCTT-GTGGAGGATGCAGTGGGGGCG
1 GCAACTGGTCTTGGT-CATCATGCAAAGGGTGCG
*
100023 GCAACTGGTCTTGGTCATCCTGCAAAGGGTGCG
1 GCAACTGGTCTTGGTCATCATGCAAAGGGTGCG
100056 GCA
1 GCA
100059 GCATGTCGTG
Statistics
Matches: 46, Mismatches: 21, Indels: 4
0.65 0.30 0.06
Matches are distributed among these distances:
32 2 0.04
33 42 0.91
34 2 0.04
ACGTcount: A:0.18, C:0.22, G:0.38, T:0.23
Consensus pattern (33 bp):
GCAACTGGTCTTGGTCATCATGCAAAGGGTGCG
Found at i:100957 original size:17 final size:17
Alignment explanation
Indices: 100935--100968 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
100925 GAATGATATT
100935 TTTGAAAATAAAAATAA
1 TTTGAAAATAAAAATAA
100952 TTTGAAAATAAAAATAA
1 TTTGAAAATAAAAATAA
100969 AAATTTAAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (17 bp):
TTTGAAAATAAAAATAA
Found at i:102809 original size:31 final size:31
Alignment explanation
Indices: 102733--102798 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
102723 AGTTACGTCG
* *
102733 GGGATCATATTACAAACAGACTAAATGTTGA
1 GGGACCATATTACAAACAGACTAAATATTGA
* *
102764 GGGACCATATTACAAACTGACTAAATATTGG
1 GGGACCATATTACAAACAGACTAAATATTGA
102795 GGGA
1 GGGA
102799 TTGTATTACA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.39, C:0.14, G:0.23, T:0.24
Consensus pattern (31 bp):
GGGACCATATTACAAACAGACTAAATATTGA
Found at i:110186 original size:31 final size:31
Alignment explanation
Indices: 110110--110175 Score: 105
Period size: 31 Copynumber: 2.1 Consensus size: 31
110100 AGTTACGTCG
*
110110 GGGACCATATTGCAAACGGACTAAATGTTGA
1 GGGACCATATTGTAAACGGACTAAATGTTGA
* *
110141 GGGACCATATTGTAAATGGACTAAATGTTGT
1 GGGACCATATTGTAAACGGACTAAATGTTGA
110172 GGGA
1 GGGA
110176 TTGTATTGTA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.33, C:0.12, G:0.29, T:0.26
Consensus pattern (31 bp):
GGGACCATATTGTAAACGGACTAAATGTTGA
Found at i:110441 original size:15 final size:16
Alignment explanation
Indices: 110418--110451 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
110408 TTGATTGAAG
110418 AAAAAT-AAAGAAAGT
1 AAAAATAAAAGAAAGT
*
110433 AAAATTAAAAGAAAGT
1 AAAAATAAAAGAAAGT
110449 AAA
1 AAA
110452 TTTGAAGTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.74, C:0.00, G:0.12, T:0.15
Consensus pattern (16 bp):
AAAAATAAAAGAAAGT
Found at i:111881 original size:21 final size:20
Alignment explanation
Indices: 111795--111952 Score: 77
Period size: 21 Copynumber: 7.8 Consensus size: 20
111785 AAATGACCAA
**
111795 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
111814 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
111834 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
111854 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
111875 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
111896 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* * *
111916 CCAGAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
111937 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
111953 ACACATAAAT
Statistics
Matches: 102, Mismatches: 31, Indels: 11
0.71 0.22 0.08
Matches are distributed among these distances:
19 16 0.16
20 40 0.39
21 46 0.45
ACGTcount: A:0.38, C:0.25, G:0.18, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:111945 original size:20 final size:20
Alignment explanation
Indices: 111920--112113 Score: 87
Period size: 20 Copynumber: 9.7 Consensus size: 20
111910 GATTTTCCAG
* *
111920 AATCGCAACGCGAATATGA-A
1 AATCGCAACGCGAACA-CATA
111940 AATCGCAACGCGAACACATA
1 AATCGCAACGCGAACACATA
* *
111960 AATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* * *
111980 AATCGCAACGTGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* *
112000 AATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* * *
112020 AATCGCAATGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* * *
112040 TATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
** *
112060 AATCGCAACGATAATACATAA
1 AATCGCAACGCGAACACAT-A
* *
112081 AATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
112101 AATCGCAACGCGA
1 AATCGCAACGCGA
112114 TATTTAAAGC
Statistics
Matches: 149, Mismatches: 20, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
19 3 0.02
20 130 0.87
21 15 0.10
22 1 0.01
ACGTcount: A:0.36, C:0.27, G:0.19, T:0.19
Consensus pattern (20 bp):
AATCGCAACGCGAACACATA
Found at i:111967 original size:40 final size:39
Alignment explanation
Indices: 111920--112113 Score: 217
Period size: 40 Copynumber: 4.8 Consensus size: 39
111910 GATTTTCCAG
* ** *
111920 AATCGCAACGCGAATATGAAAATCGCAACGCGAACACATA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAAC-CATA
* * *
111960 AATCGCAACGCGTATCCGTAAATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCG-AACCATA
* * *
112000 AATCGCAACGCGTATCCGTAAATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCG-AACCATA
* ** *
112040 TATCGCAACGCGTATCCGTAAATCGCAACGATAATACATAA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAA-CCAT-A
112081 AATCGCAACGCGTATCCGTAAATCGCAACGCGA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGA
112114 TATTTAAAGC
Statistics
Matches: 132, Mismatches: 19, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
39 1 0.01
40 98 0.74
41 33 0.25
ACGTcount: A:0.36, C:0.27, G:0.19, T:0.19
Consensus pattern (39 bp):
AATCGCAACGCGTATCCGTAAATCGCAACGCGAACCATA
Found at i:112003 original size:60 final size:60
Alignment explanation
Indices: 111920--112112 Score: 253
Period size: 60 Copynumber: 3.2 Consensus size: 60
111910 GATTTTCCAG
* ** *
111920 AATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGTA
* * * *
111980 AATCGCAACGTGTATCCGTAAATCGCAACGCGTATC-CGTAAATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCG-AACACATAAATCGCAACGCGTATCCGTA
* ** *
112040 TATCGCAACGCGTATCCGTAAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAACACAT-AAATCGCAACGCGTATCCGTA
112101 AATCGCAACGCG
1 AATCGCAACGCG
112113 ATATTTAAAG
Statistics
Matches: 113, Mismatches: 17, Indels: 5
0.84 0.13 0.04
Matches are distributed among these distances:
59 1 0.01
60 79 0.70
61 33 0.29
ACGTcount: A:0.35, C:0.27, G:0.19, T:0.19
Consensus pattern (60 bp):
AATCGCAACGCGTATCCGTAAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGTA
Found at i:112509 original size:33 final size:33
Alignment explanation
Indices: 112470--112540 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
112460 TTCACTTAGA
112470 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
112503 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
112536 TTTCA
1 TTTCA
112541 AGTTAGTATT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.11, C:0.24, G:0.17, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:112677 original size:41 final size:41
Alignment explanation
Indices: 112619--112696 Score: 147
Period size: 41 Copynumber: 1.9 Consensus size: 41
112609 TTGCAGAAGA
*
112619 GTCGCAACGAGATAAATGAAAATCGCAACGAGAGAATGACT
1 GTCGCAACGAGAGAAATGAAAATCGCAACGAGAGAATGACT
112660 GTCGCAACGAGAGAAATGAAAATCGCAACGAGAGAAT
1 GTCGCAACGAGAGAAATGAAAATCGCAACGAGAGAAT
112697 CGCAACGCGA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.45, C:0.17, G:0.26, T:0.13
Consensus pattern (41 bp):
GTCGCAACGAGAGAAATGAAAATCGCAACGAGAGAATGACT
Found at i:112693 original size:21 final size:21
Alignment explanation
Indices: 112620--112695 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
112610 TGCAGAAGAG
*
112620 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAGAGAAATGAAAA
***
112641 TCGCAACGAGAG-AATGACTG
1 TCGCAACGAGAGAAATGAAAA
112661 TCGCAACGAGAGAAATGAAAA
1 TCGCAACGAGAGAAATGAAAA
112682 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
112696 TCGCAACGCG
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
20 17 0.36
21 30 0.64
ACGTcount: A:0.46, C:0.17, G:0.25, T:0.12
Consensus pattern (21 bp):
TCGCAACGAGAGAAATGAAAA
Found at i:112755 original size:14 final size:14
Alignment explanation
Indices: 112736--112792 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
112726 TTTCATTTCG
112736 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
112750 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
112769 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
112783 CGTTGCGATT
1 CGTTGCGATT
112793 TTCATTTATC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
16 3 0.08
17 3 0.08
19 10 0.28
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:112767 original size:33 final size:33
Alignment explanation
Indices: 112720--112841 Score: 156
Period size: 33 Copynumber: 3.5 Consensus size: 33
112710 CAAAATCGCA
112720 TTGCGA-TTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
112752 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
*
112785 TTGCGATTTTCATTTATCTCGTTGCGACAGTCATTCTCTCG
1 TTGCGATTTTCA-TT-TCGCGTT--G-C-G--ATTCTCTCG
112826 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
112842 AACCAAAGAC
Statistics
Matches: 80, Mismatches: 1, Indels: 11
0.87 0.01 0.12
Matches are distributed among these distances:
32 6 0.08
33 38 0.47
34 2 0.03
35 6 0.08
37 1 0.01
38 1 0.01
39 3 0.04
40 2 0.03
41 21 0.26
ACGTcount: A:0.11, C:0.24, G:0.19, T:0.46
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:112806 original size:21 final size:21
Alignment explanation
Indices: 112780--112840 Score: 79
Period size: 20 Copynumber: 3.0 Consensus size: 21
112770 GTTGCGATTC
112780 TCTCGTTGCGATTTTCATTTA
1 TCTCGTTGCGATTTTCATTTA
*** *
112801 TCTCGTTGCGACAGTCA-TTC
1 TCTCGTTGCGATTTTCATTTA
112821 TCTCGTTGCGATTTTCATTT
1 TCTCGTTGCGATTTTCATTT
112841 CAACCAAAGA
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
20 16 0.50
21 16 0.50
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (21 bp):
TCTCGTTGCGATTTTCATTTA
Found at i:112826 original size:20 final size:20
Alignment explanation
Indices: 112776--112831 Score: 67
Period size: 21 Copynumber: 2.8 Consensus size: 20
112766 TCGCGTTGCG
***
112776 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGACAGTC
*
112796 ATTTATCTCGTTGCGACAGTC
1 A-TTCTCTCGTTGCGACAGTC
112817 ATTCTCTCGTTGCGA
1 ATTCTCTCGTTGCGA
112832 TTTTCATTTC
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
20 14 0.47
21 16 0.53
ACGTcount: A:0.14, C:0.25, G:0.18, T:0.43
Consensus pattern (20 bp):
ATTCTCTCGTTGCGACAGTC
Found at i:114695 original size:93 final size:93
Alignment explanation
Indices: 114536--114817 Score: 532
Period size: 93 Copynumber: 3.1 Consensus size: 93
114526 TAGATTGCTT
114536 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
114601 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
114629 AGTAAATTTTTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
114694 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
114722 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTC-TTAACACTGTGAAATAGTA
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
114786 TTTGTCTTTGTTTTGTCTTTTGGTTG-A
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
114813 AGTAA
1 AGTAA
114818 TGCAATTCAT
Statistics
Matches: 187, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
91 6 0.03
92 45 0.24
93 136 0.73
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:114902 original size:19 final size:19
Alignment explanation
Indices: 114862--114990 Score: 134
Period size: 19 Copynumber: 7.3 Consensus size: 19
114852 TAGTTTACTT
* *
114862 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
114882 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
114901 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
114920 TCGCAA--C-AAA--AGAA
1 TCGCAACGCGAAACCAAAA
114934 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
114953 TCGCAA--CG--A-CAAAA
1 TCGCAACGCGAAACCAAAA
114967 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
114986 TCGCA
1 TCGCA
114991 TTGCGATTTT
Statistics
Matches: 93, Mismatches: 6, Indels: 21
0.77 0.05 0.17
Matches are distributed among these distances:
14 20 0.22
15 1 0.01
16 6 0.06
17 6 0.06
18 1 0.01
19 46 0.49
20 13 0.14
ACGTcount: A:0.48, C:0.28, G:0.16, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:114936 original size:33 final size:33
Alignment explanation
Indices: 114897--114990 Score: 145
Period size: 33 Copynumber: 2.8 Consensus size: 33
114887 ACGCGAAACC
**
114897 AAAATCGCAACGCGAAATGAAAATCGCAAC-AA
1 AAAATCGCAACGCGAAACCAAAATCGCAACGAA
*
114929 AAGAATCGCAACGCGAAACCAAAATCGCAACGAC
1 AA-AATCGCAACGCGAAACCAAAATCGCAACGAA
114963 AAAATCGCAACGCGAAACCAAAATCGCA
1 AAAATCGCAACGCGAAACCAAAATCGCA
114991 TTGCGATTTT
Statistics
Matches: 57, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
32 2 0.04
33 52 0.91
34 3 0.05
ACGTcount: A:0.50, C:0.27, G:0.16, T:0.07
Consensus pattern (33 bp):
AAAATCGCAACGCGAAACCAAAATCGCAACGAA
Found at i:114967 original size:14 final size:14
Alignment explanation
Indices: 114948--114974 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
114938 AACGCGAAAC
114948 CAAAATCGCAACGA
1 CAAAATCGCAACGA
114962 CAAAATCGCAACG
1 CAAAATCGCAACG
114975 CGAAACCAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.48, C:0.30, G:0.15, T:0.07
Consensus pattern (14 bp):
CAAAATCGCAACGA
Found at i:114988 original size:52 final size:52
Alignment explanation
Indices: 114862--114990 Score: 147
Period size: 52 Copynumber: 2.5 Consensus size: 52
114852 TAGTTTACTT
** *
114862 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
1 TCGCAACACGAAACAAAAAATCGCAACGCGAAACCAAAATCGCAACGCAAAA
* *
114914 T-G-AAAATCGCAACAAAAGAATCGCAACGCGAAACCAAAATCGCAACGACAAAA
1 TCGCAACA-CGAAACAAAA-AATCGCAACGCGAAACCAAAATCGCAACG-CAAAA
* *
114967 TCGCAACGCGAAAC-CAAAATCGCA
1 TCGCAACACGAAACAAAAAATCGCA
114991 TTGCGATTTT
Statistics
Matches: 63, Mismatches: 9, Indels: 10
0.77 0.11 0.12
Matches are distributed among these distances:
50 3 0.05
51 8 0.13
52 37 0.59
53 7 0.11
54 6 0.10
55 2 0.03
ACGTcount: A:0.48, C:0.28, G:0.16, T:0.09
Consensus pattern (52 bp):
TCGCAACACGAAACAAAAAATCGCAACGCGAAACCAAAATCGCAACGCAAAA
Found at i:115008 original size:19 final size:19
Alignment explanation
Indices: 114986--115158 Score: 168
Period size: 19 Copynumber: 9.6 Consensus size: 19
114976 GAAACCAAAA
*
114986 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
115005 TCGCGTTGCGA--TTC-TT
1 TCGCGTTGCGATTTTCATT
115021 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
115038 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
115054 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
115071 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
**
115090 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
* *
115109 TCTCGTTGCGATTATCATT
1 TCGCGTTGCGATTTTCATT
*
115128 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
115148 TCGTGTTGCGA
1 TCGCGTTGCGA
115159 AAGTAAACTA
Statistics
Matches: 128, Mismatches: 15, Indels: 21
0.78 0.09 0.13
Matches are distributed among these distances:
14 15 0.12
16 11 0.09
17 11 0.09
19 79 0.62
20 12 0.09
ACGTcount: A:0.11, C:0.19, G:0.24, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:115027 original size:14 final size:14
Alignment explanation
Indices: 115008--115064 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
114998 TTTCATTTCG
115008 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
115022 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
*
115039 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTTT
115055 CGTTGCGATT
1 CGTTGCGATT
115065 TTCATTTCGC
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 16 0.43
16 7 0.19
17 8 0.22
19 6 0.16
ACGTcount: A:0.11, C:0.21, G:0.23, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:115116 original size:38 final size:38
Alignment explanation
Indices: 114986--115158 Score: 168
Period size: 33 Copynumber: 4.8 Consensus size: 38
114976 GAAACCAAAA
*
114986 TCGCATTGCGATTTTCATTTCGCGTTGCGA-T-TC-TT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTATCATT
* *
115021 T--CGTTGCGATTTTCATTTCGCATTGCGA-T-TC-TG
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTATCATT
* **
115054 T--CGTTGCGATTTTCATTTCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTATCATT
** *
115090 TCGCGTTGCGATTTTGGTTTCTCGTTGCGATTATCATT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTATCATT
* *
115128 TCGCGTTGCGATTTTAAGTTTCGTGTTGCGA
1 TCGCGTTGCGATTTTCA-TTTCGCGTTGCGA
115159 AAGTAAACTA
Statistics
Matches: 116, Mismatches: 16, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
33 56 0.48
34 1 0.01
35 2 0.02
36 2 0.02
38 44 0.38
39 11 0.09
ACGTcount: A:0.11, C:0.19, G:0.24, T:0.46
Consensus pattern (38 bp):
TCGCGTTGCGATTTTCATTTCGCGTTGCGATTATCATT
Found at i:117100 original size:14 final size:14
Alignment explanation
Indices: 117081--117116 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
117071 ATTGTTTAAT
117081 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
117095 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
117109 TGATTTGT
1 TGATTTGT
117117 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:117239 original size:19 final size:19
Alignment explanation
Indices: 117223--117286 Score: 128
Period size: 19 Copynumber: 3.4 Consensus size: 19
117213 AAAAATGACT
117223 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
117242 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
117261 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
117280 ATCGCAA
1 ATCGCAA
117287 AGGGAGAATC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 45 1.00
ACGTcount: A:0.47, C:0.17, G:0.20, T:0.16
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:117302 original size:33 final size:35
Alignment explanation
Indices: 117223--117305 Score: 107
Period size: 38 Copynumber: 2.3 Consensus size: 35
117213 AAAAATGACT
*
117223 ATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAAATCGCAAAGCG--A-GAAA
*
117261 ATCGCAATGCGAAATGAAAATCGCAAAG-G-GAGA
1 ATCGCAATGCGAAATGAAAATCGCAAAGCGAGAAA
117294 ATCGCAATGCGA
1 ATCGCAATGCGA
117306 TTTTAATTTC
Statistics
Matches: 43, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
33 15 0.35
37 1 0.02
38 27 0.63
ACGTcount: A:0.45, C:0.17, G:0.24, T:0.14
Consensus pattern (35 bp):
ATCGCAATGCGAAATGAAAATCGCAAAGCGAGAAA
Found at i:117323 original size:19 final size:19
Alignment explanation
Indices: 117295--117517 Score: 216
Period size: 19 Copynumber: 12.7 Consensus size: 19
117285 AAAGGGAGAA
* *
117295 TCGCAATGCGATTTTAATT
1 TCGCATTGCGATTTTCATT
*
117314 TCGCATTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
117330 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
117347 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
117366 TCGCATTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
*
117382 TCG--TTGCGATTTTAATT
1 TCGCATTGCGATTTTCATT
*
117399 TCCCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
117418 TCCGCATTGCGA--TTC-TC
1 T-CGCATTGCGATTTTCATT
117435 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
117452 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
117471 TCCGCATTGCGATTTTCA--
1 T-CGCATTGCGATTTTCATT
*
117489 T-G--TTGGGATTTTCATT
1 TCGCATTGCGATTTTCATT
117505 TCGCATTGCGATT
1 TCGCATTGCGATT
117518 CTCTCGTTGC
Statistics
Matches: 168, Mismatches: 14, Indels: 44
0.74 0.06 0.19
Matches are distributed among these distances:
14 29 0.17
16 20 0.12
17 19 0.11
18 4 0.02
19 71 0.42
20 25 0.15
ACGTcount: A:0.15, C:0.22, G:0.17, T:0.45
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:117338 original size:33 final size:33
Alignment explanation
Indices: 117301--117464 Score: 161
Period size: 33 Copynumber: 4.8 Consensus size: 33
117291 AGAATCGCAA
*
117301 TGCGATTTTAATTTCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
*
117334 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCAT
1 TGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG--T
* * *** * *
117372 TGCGATTCTCTCGTTGCG-ATTTTAATT-TCCCAT
1 TGCGATT-T-TCATTTCGCATTGCGATTCTCTCGT
117405 TGCGATTTTCATTTCCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTT-CGCATTGCGATTCTCTCGT
117439 TGCGATTTTCATTTCGCATTGCGATT
1 TGCGATTTTCATTTCGCATTGCGATT
117465 TTCATTTCCG
Statistics
Matches: 104, Mismatches: 17, Indels: 20
0.74 0.12 0.14
Matches are distributed among these distances:
31 4 0.04
32 3 0.03
33 49 0.47
34 18 0.17
35 5 0.05
36 4 0.04
37 2 0.02
38 8 0.08
39 5 0.05
40 6 0.06
ACGTcount: A:0.15, C:0.23, G:0.17, T:0.46
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
Found at i:117446 original size:53 final size:52
Alignment explanation
Indices: 117295--117517 Score: 358
Period size: 53 Copynumber: 4.2 Consensus size: 52
117285 AAAGGGAGAA
* *
117295 TCGCAATGCGATTTTAATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
*
117347 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTAATT
1 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
*
117399 TCCCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTCATTT-CGCATTGCGATTCTCTCGTTGCGATTTTCATT
* *
117452 TCGCATTGCGATTTTCATTTCCGCATTGCGATTTTCAT-GTTGGGATTTTCATT
1 TCGCATTGCGATTTTCATTT-CGCATTGCGATTCTC-TCGTTGCGATTTTCATT
117505 TCGCATTGCGATT
1 TCGCATTGCGATT
117518 CTCTCGTTGC
Statistics
Matches: 161, Mismatches: 8, Indels: 3
0.94 0.05 0.02
Matches are distributed among these distances:
52 68 0.42
53 92 0.57
54 1 0.01
ACGTcount: A:0.15, C:0.22, G:0.17, T:0.45
Consensus pattern (52 bp):
TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
Found at i:117462 original size:86 final size:85
Alignment explanation
Indices: 117352--117531 Score: 231
Period size: 86 Copynumber: 2.1 Consensus size: 85
117342 TCATTTCGCA
* **
117352 TTGCGATTTTCATTTCGCATTGCGATTCTCTC-GTTGCG-ATTTTAATTTCCCA-TTGCGATTTT
1 TTGCGATTTTCATTTCGCATTGCGATT-T-TCAGTTCCGCATTGCAATTT-CCAGTTGCGATTTT
117414 CATTTCCGCATTGCGATTCTCTCG
63 CATTT-CGCATTGCGATTCTCTCG
* * * *
117438 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTTTCATGTTGGGATTTTCA
1 TTGCGATTTTCATTTCGCATTGCGATTTTCAGTTCCGCATTGCAATTTCCA-GTTGCGATTTTCA
117503 TTTCGCATTGCGATTCTCTCG
65 TTTCGCATTGCGATTCTCTCG
117524 TTGCGATT
1 TTGCGATT
117532 GTAATTTCCG
Statistics
Matches: 83, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
84 2 0.02
85 7 0.08
86 60 0.72
87 14 0.17
ACGTcount: A:0.14, C:0.22, G:0.18, T:0.46
Consensus pattern (85 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTCAGTTCCGCATTGCAATTTCCAGTTGCGATTTTCAT
TTCGCATTGCGATTCTCTCG
Found at i:117515 original size:33 final size:34
Alignment explanation
Indices: 117333--117531 Score: 167
Period size: 33 Copynumber: 5.7 Consensus size: 34
117323 GATTCTCTCG
117333 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCA
1 TTGCGATTTTCA--TCG--TTGCGATTTTCATTTCGCA
* * *
117371 TTGCGATTCTC-TCGTTGCGATTTTAATTTCCCA
1 TTGCGATTTTCATCGTTGCGATTTTCATTTCGCA
* * * *
117404 TTGCGATTTTCAT--TTCCGCA-TTGCGATTCTCTCG
1 TTGCGATTTTCATCGTTGCG-ATTTTC-ATT-TCGCA
117438 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCA--TCG--TTGCGATTTTCATTT-CGCA
*
117477 TTGCGATTTTCAT-GTTGGGATTTTCATTTCGCA
1 TTGCGATTTTCATCGTTGCGATTTTCATTTCGCA
*
117510 TTGCGATTCTC-TCGTTGCGATT
1 TTGCGATTTTCATCGTTGCGATT
117532 GTAATTTCCG
Statistics
Matches: 132, Mismatches: 16, Indels: 31
0.74 0.09 0.17
Matches are distributed among these distances:
32 7 0.05
33 53 0.40
34 30 0.23
35 3 0.02
36 2 0.02
37 1 0.01
38 11 0.08
39 18 0.14
40 7 0.05
ACGTcount: A:0.14, C:0.22, G:0.18, T:0.46
Consensus pattern (34 bp):
TTGCGATTTTCATCGTTGCGATTTTCATTTCGCA
Found at i:117546 original size:53 final size:53
Alignment explanation
Indices: 117332--117550 Score: 218
Period size: 53 Copynumber: 4.2 Consensus size: 53
117322 CGATTCTCTC
* *
117332 GTTGCGATTTTCATTTCGCATTGCGATTTTCA-TTTCGCATTGCGA-TTCTC-T
1 GTTGCGATTTTCATTTCGCATTGCGATTTTCAGTTCCGCATTGCAATTTC-CAT
* * * *
117383 CGTTGCGATTTTAATTTCCCATTGCGATTTTCATTTCCGCATTGCGA-TTCTC-T
1 -GTTGCGATTTTCATTTCGCATTGCGATTTTCAGTTCCGCATTGCAATTTC-CAT
* * *
117436 CGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTTTCAT
1 -GTTGCGATTTTCATTTCGCATTGCGATTTTCAGTTCCGCATTGCAATTTCCAT
* * * *
117490 GTTGGGATTTTCATTTCGCATTGCGATTCTCTC-GTTGCG-ATTGTAATTTCCGT
1 GTTGCGATTTTCATTTCGCATTGCGATT-T-TCAGTTCCGCATTGCAATTTCCAT
117543 GTTGCGAT
1 GTTGCGAT
117551 AGTCAAATGC
Statistics
Matches: 148, Mismatches: 14, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
52 30 0.20
53 108 0.73
54 8 0.05
55 2 0.01
ACGTcount: A:0.14, C:0.21, G:0.19, T:0.46
Consensus pattern (53 bp):
GTTGCGATTTTCATTTCGCATTGCGATTTTCAGTTCCGCATTGCAATTTCCAT
Found at i:119166 original size:12 final size:12
Alignment explanation
Indices: 119149--119173 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
119139 TCTTCGGGGA
119149 CTTTTTCTTCTT
1 CTTTTTCTTCTT
119161 CTTTTTCTTCTT
1 CTTTTTCTTCTT
119173 C
1 C
119174 AGGATTATAG
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:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:119386 original size:24 final size:23
Alignment explanation
Indices: 119347--119392 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
119337 CTGAAACATC
119347 ATCAAATCCGTGTATTGACCAAT
1 ATCAAATCCGTGTATTGACCAAT
119370 ATCAAAGTCCG-GATATTGACCAA
1 ATCAAA-TCCGTG-TATTGACCAA
119393 GACCAAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 7 0.33
24 14 0.67
ACGTcount: A:0.37, C:0.22, G:0.15, T:0.26
Consensus pattern (23 bp):
ATCAAATCCGTGTATTGACCAAT
Found at i:120113 original size:20 final size:20
Alignment explanation
Indices: 120085--120313 Score: 253
Period size: 20 Copynumber: 11.4 Consensus size: 20
120075 AAATTTCAGT
* * *
120085 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
120105 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
120125 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
120145 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
*
120165 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
120185 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
120205 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
120225 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATTCGC
*
120245 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
*
120265 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCGC
* **
120285 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATTCGC
120305 GTTGCGATT
1 GTTGCGATT
120314 CTGGAAAATC
Statistics
Matches: 185, Mismatches: 22, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
20 184 0.99
21 1 0.01
ACGTcount: A:0.20, C:0.18, G:0.26, T:0.37
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCGC
Found at i:121766 original size:2 final size:2
Alignment explanation
Indices: 121759--121814 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
121749 TCCCATATCA
121759 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
121801 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
121815 CCCTCTTGCA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:124757 original size:18 final size:17
Alignment explanation
Indices: 124736--124781 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 17
124726 TTCTCTTATT
124736 TTTTTTTACTTTAATCG
1 TTTTTTTACTTTAATCG
124753 CTTTTATTTA-TTTAATCG
1 -TTTT-TTTACTTTAATCG
124771 TTTTTATTACT
1 TTTTT-TTACT
124782 ACTTAAATCT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
16 1 0.04
17 7 0.28
18 13 0.52
19 4 0.16
ACGTcount: A:0.20, C:0.11, G:0.04, T:0.65
Consensus pattern (17 bp):
TTTTTTTACTTTAATCG
Found at i:131035 original size:20 final size:20
Alignment explanation
Indices: 131012--131068 Score: 73
Period size: 18 Copynumber: 2.9 Consensus size: 20
131002 TTCTCTTTTT
131012 TTTTATTTTACTTTAATCGC
1 TTTTATTTTACTTTAATCGC
*
131032 TTTTA-TTTA-TTTAATCGT
1 TTTTATTTTACTTTAATCGC
*
131050 TTTTATTATTACTTAAATC
1 TTTTATT-TTACTTTAATC
131069 TCATTCTACC
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
18 13 0.41
19 5 0.16
20 8 0.25
21 6 0.19
ACGTcount: A:0.25, C:0.11, G:0.04, T:0.61
Consensus pattern (20 bp):
TTTTATTTTACTTTAATCGC
Found at i:133765 original size:13 final size:13
Alignment explanation
Indices: 133747--133841 Score: 65
Period size: 12 Copynumber: 7.7 Consensus size: 13
133737 AATTGGCCTG
*
133747 TAAAAATGATTAA
1 TAAAAATAATTAA
133760 TAAAAATAATTAA
1 TAAAAATAATTAA
**
133773 TAAACCTAA-TAA
1 TAAAAATAATTAA
**
133785 TATTAATAA-TAA
1 TAAAAATAATTAA
*
133797 TAATAATAA-TAA
1 TAAAAATAATTAA
* *
133809 TAATAA-AATTTA
1 TAAAAATAATTAA
*
133821 TATAAATAA-TAA
1 TAAAAATAATTAA
*
133833 TAATAATAA
1 TAAAAATAA
133842 AAAAGACCCG
Statistics
Matches: 66, Mismatches: 14, Indels: 5
0.78 0.16 0.06
Matches are distributed among these distances:
11 2 0.03
12 43 0.65
13 21 0.32
ACGTcount: A:0.63, C:0.02, G:0.01, T:0.34
Consensus pattern (13 bp):
TAAAAATAATTAA
Found at i:133794 original size:3 final size:3
Alignment explanation
Indices: 133757--133841 Score: 77
Period size: 3 Copynumber: 28.0 Consensus size: 3
133747 TAAAAATGAT
* * *
133757 TAA TAA AAA TAA TTAA TAA -ACC TAA TAA TAT TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA -TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA
*
133803 TAA TAA TAA TAA -AA T-T TATA TAAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TA-A T-AA TAA TAA TAA TAA TAA
133842 AAAAGACCCG
Statistics
Matches: 67, Mismatches: 8, Indels: 14
0.75 0.09 0.16
Matches are distributed among these distances:
2 4 0.06
3 55 0.82
4 7 0.10
5 1 0.01
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:138090 original size:16 final size:16
Alignment explanation
Indices: 138069--138102 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
138059 TAAATAAAAT
138069 TAAAAA-AATAATCAGA
1 TAAAAAGAATAAT-AGA
138085 TAAAAAGAATAATAGA
1 TAAAAAGAATAATAGA
138101 TA
1 TA
138103 CAAACAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.68, C:0.03, G:0.09, T:0.21
Consensus pattern (16 bp):
TAAAAAGAATAATAGA
Found at i:138565 original size:26 final size:25
Alignment explanation
Indices: 138536--138586 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 25
138526 AACAAGCAAC
138536 CCATATGATTCTTACAAACCCTAATG
1 CCATATGATTCTTACAAA-CCTAATG
138562 CCATATGATTCTTACAAACCTAATG
1 CCATATGATTCTTACAAACCTAATG
138587 ATGGAAACCT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 7 0.28
26 18 0.72
ACGTcount: A:0.35, C:0.25, G:0.08, T:0.31
Consensus pattern (25 bp):
CCATATGATTCTTACAAACCTAATG
Found at i:139968 original size:11 final size:12
Alignment explanation
Indices: 139952--139980 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
139942 TATGTGAATC
139952 ATATATGAAAAA
1 ATATATGAAAAA
139964 A-ATATGAAAAA
1 ATATATGAAAAA
139975 ATATAT
1 ATATAT
139981 ATGTATTGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.69
12 5 0.31
ACGTcount: A:0.66, C:0.00, G:0.07, T:0.28
Consensus pattern (12 bp):
ATATATGAAAAA
Found at i:143154 original size:9 final size:10
Alignment explanation
Indices: 143140--143173 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
143130 GATAGCGGGT
143140 CGTTA-TTCC
1 CGTTATTTCC
143149 CGTTATTTCC
1 CGTTATTTCC
*
143159 CATTATTTCC
1 CGTTATTTCC
143169 CGTTA
1 CGTTA
143174 CACCAAATCA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 5 0.23
10 17 0.77
ACGTcount: A:0.15, C:0.29, G:0.09, T:0.47
Consensus pattern (10 bp):
CGTTATTTCC
Found at i:145148 original size:14 final size:14
Alignment explanation
Indices: 145129--145156 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
145119 AATTCAGGTT
145129 TAACCACTTGTGAC
1 TAACCACTTGTGAC
145143 TAACCACTTGTGAC
1 TAACCACTTGTGAC
145157 GGGTTATTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.29, G:0.14, T:0.29
Consensus pattern (14 bp):
TAACCACTTGTGAC
Found at i:148832 original size:14 final size:14
Alignment explanation
Indices: 148813--148839 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
148803 TCATTTTTTC
148813 TTATTCGAGTCAAG
1 TTATTCGAGTCAAG
148827 TTATTCGAGTCAA
1 TTATTCGAGTCAA
148840 CTCGAATTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.15, G:0.19, T:0.37
Consensus pattern (14 bp):
TTATTCGAGTCAAG
Found at i:150140 original size:29 final size:29
Alignment explanation
Indices: 150101--150181 Score: 146
Period size: 29 Copynumber: 2.8 Consensus size: 29
150091 TATGTGATAT
150101 GAGAACATGACATGAGCTACATGATCACAA
1 GAGAA-ATGACATGAGCTACATGATCACAA
150131 GAGAAATGACATGAGCTACATGATCACAA
1 GAGAAATGACATGAGCTACATGATCACAA
150160 GAGAAATGACATGAG-TACATGA
1 GAGAAATGACATGAGCTACATGA
150182 ACATATGGAA
Statistics
Matches: 51, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
28 7 0.14
29 39 0.76
30 5 0.10
ACGTcount: A:0.44, C:0.16, G:0.22, T:0.17
Consensus pattern (29 bp):
GAGAAATGACATGAGCTACATGATCACAA
Found at i:150284 original size:15 final size:15
Alignment explanation
Indices: 150264--150297 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
150254 GAGGGTATAA
150264 TAGTCCTTCGGGACG
1 TAGTCCTTCGGGACG
*
150279 TAGTCCTTCGGGATG
1 TAGTCCTTCGGGACG
150294 TAGT
1 TAGT
150298 GGTCCTACGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.15, C:0.21, G:0.32, T:0.32
Consensus pattern (15 bp):
TAGTCCTTCGGGACG
Found at i:151206 original size:19 final size:18
Alignment explanation
Indices: 151149--151212 Score: 58
Period size: 19 Copynumber: 3.4 Consensus size: 18
151139 AACAAGTTTT
151149 TTATTTTTCAATTTAGTCC
1 TTATTTTTCAATTTA-TCC
* * *
151168 TCATTTTTTTATAATT-TCC
1 TTA-TTTTTCA-ATTTATCC
151187 TTATTTCTTCAATTTATCC
1 TTATTT-TTCAATTTATCC
151206 TTATTTT
1 TTATTTT
151213 AAGTCATTTT
Statistics
Matches: 35, Mismatches: 6, Indels: 9
0.70 0.12 0.18
Matches are distributed among these distances:
18 7 0.20
19 19 0.54
20 6 0.17
21 3 0.09
ACGTcount: A:0.20, C:0.16, G:0.02, T:0.62
Consensus pattern (18 bp):
TTATTTTTCAATTTATCC
Found at i:154918 original size:21 final size:19
Alignment explanation
Indices: 154876--154921 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 19
154866 CGATCAAGCT
*
154876 GTTGACCGAGCTGACCGGC
1 GTTGACCGAGCTGACAGGC
*
154895 GTTGACCGATGTTGACTAGGC
1 GTTGACCGA-GCTGAC-AGGC
154916 GTTGAC
1 GTTGAC
154922 TTTTTTGGAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 9 0.39
20 5 0.22
21 9 0.39
ACGTcount: A:0.17, C:0.24, G:0.35, T:0.24
Consensus pattern (19 bp):
GTTGACCGAGCTGACAGGC
Done.