Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01009768.1 Kokia drynarioides strain JFW-HI SEQ_124488, 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: 174551
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.34
Warning! 15 characters in sequence are not A, C, G, or T
Found at i:1658 original size:30 final size:31
Alignment explanation
Indices: 1601--1658 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
1591 TGTAAATTCG
* *
1601 AAAAGTTAAAGGACTAAAAATGCAAATAATC
1 AAAAGTAAAAGGACTAAAAATGAAAATAATC
*
1632 AAAAGTAAAAGGAC-ATAAATGAAAATA
1 AAAAGTAAAAGGACTAAAAATGAAAATA
1659 TGAAATTTGA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 11 0.46
31 13 0.54
ACGTcount: A:0.62, C:0.07, G:0.14, T:0.17
Consensus pattern (31 bp):
AAAAGTAAAAGGACTAAAAATGAAAATAATC
Found at i:6830 original size:27 final size:28
Alignment explanation
Indices: 6778--6835 Score: 75
Period size: 27 Copynumber: 2.1 Consensus size: 28
6768 TGGGTCAAAT
* *
6778 AAAAAATATTAAAAGTTTAAATAAAACA
1 AAAAAATATTAAAAGATTAAACAAAACA
6806 AAAAAATATCTAAAA-ATT-AACAAAACA
1 AAAAAATAT-TAAAAGATTAAACAAAACA
6833 AAA
1 AAA
6836 TTCAACTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
27 11 0.41
28 11 0.41
29 5 0.19
ACGTcount: A:0.71, C:0.07, G:0.02, T:0.21
Consensus pattern (28 bp):
AAAAAATATTAAAAGATTAAACAAAACA
Found at i:9617 original size:31 final size:31
Alignment explanation
Indices: 9582--9641 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
9572 GACATTGACG
*
9582 TTACACATTTTTATCATTTTAATCACCGTCA
1 TTACACACTTTTATCATTTTAATCACCGTCA
*
9613 TTACATACTTTTATCATTTTAATCACCGT
1 TTACACACTTTTATCATTTTAATCACCGT
9642 TACATACACT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.28, C:0.22, G:0.03, T:0.47
Consensus pattern (31 bp):
TTACACACTTTTATCATTTTAATCACCGTCA
Found at i:9654 original size:28 final size:29
Alignment explanation
Indices: 9592--9654 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 29
9582 TTACACATTT
**
9592 TTATCATTTTAATCACCGTCATTACATACTT
1 TTATCATTTTAATCACCG--ATTACATACAC
9623 TTATCATTTTAATCACCG-TTACATACAC
1 TTATCATTTTAATCACCGATTACATACAC
9651 TTAT
1 TTAT
9655 TTTAATTACT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
28 12 0.40
31 18 0.60
ACGTcount: A:0.30, C:0.22, G:0.03, T:0.44
Consensus pattern (29 bp):
TTATCATTTTAATCACCGATTACATACAC
Found at i:10324 original size:38 final size:39
Alignment explanation
Indices: 10274--10350 Score: 106
Period size: 38 Copynumber: 2.0 Consensus size: 39
10264 ATAAAAAATT
10274 ATTAAAATTAAGTGATTAAAAT-GAAA-ATATATAATAAA
1 ATTAAAATTAAGTGATTAAAATAGAAAGATA-ATAATAAA
10312 ATTAACAA-TAAGTGATTAAAATAAGAAAGATAATAATAA
1 ATTAA-AATTAAGTGATTAAAAT-AGAAAGATAATAATAA
10351 TGACTAAAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
38 19 0.54
39 2 0.06
40 11 0.31
41 3 0.09
ACGTcount: A:0.61, C:0.01, G:0.09, T:0.29
Consensus pattern (39 bp):
ATTAAAATTAAGTGATTAAAATAGAAAGATAATAATAAA
Found at i:34554 original size:60 final size:60
Alignment explanation
Indices: 34461--34580 Score: 231
Period size: 60 Copynumber: 2.0 Consensus size: 60
34451 TTAGAAGCTC
*
34461 AAGACTGTTTTAACACAATCTCCTATATTGGTACAACCAATGTCAGGTAAGGAGTTTATG
1 AAGACTGTTTTAACACAATCTCCTATATTGGTACAACCAATGTCAGGTAAAGAGTTTATG
34521 AAGACTGTTTTAACACAATCTCCTATATTGGTACAACCAATGTCAGGTAAAGAGTTTATG
1 AAGACTGTTTTAACACAATCTCCTATATTGGTACAACCAATGTCAGGTAAAGAGTTTATG
34581 GTATATAATG
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 59 1.00
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Consensus pattern (60 bp):
AAGACTGTTTTAACACAATCTCCTATATTGGTACAACCAATGTCAGGTAAAGAGTTTATG
Found at i:44050 original size:19 final size:19
Alignment explanation
Indices: 44026--44063 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
44016 CCACTTCACT
44026 TGTCAGGCATTTCAAATTA
1 TGTCAGGCATTTCAAATTA
44045 TGTCAGGCATTTCAAATTA
1 TGTCAGGCATTTCAAATTA
44064 ATCTATCTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.37
Consensus pattern (19 bp):
TGTCAGGCATTTCAAATTA
Found at i:47200 original size:15 final size:15
Alignment explanation
Indices: 47170--47213 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
47160 TTCTATCTTG
47170 TCGATCCCTTTC--TT
1 TCGAT-CCTTTCATTT
47184 TCGATCCTTTCATTT
1 TCGATCCTTTCATTT
*
47199 TCGATGCTTTCATTT
1 TCGATCCTTTCATTT
47214 GTTTGACAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 6 0.22
14 5 0.19
15 16 0.59
ACGTcount: A:0.11, C:0.27, G:0.09, T:0.52
Consensus pattern (15 bp):
TCGATCCTTTCATTT
Found at i:55593 original size:52 final size:52
Alignment explanation
Indices: 55508--55687 Score: 274
Period size: 52 Copynumber: 3.5 Consensus size: 52
55498 TAAATGAAAT
* * * * *
55508 AGGTCCGATGACTATGTGTCATCGTGAATATATGAATCATTTATGGATTATA
1 AGGTTCGATGACTATGTGTTATCGTGAGTATATGAATCCTTTATGGATTATG
*
55560 AGGTTCAATGACTATGTGTTATCGTGAGTATATGAATCCTTTATGGATTATG
1 AGGTTCGATGACTATGTGTTATCGTGAGTATATGAATCCTTTATGGATTATG
55612 AGG-TCTGATGACTATGTGTTATCGTGAGTATATGAATCCTTTATGGATTATG
1 AGGTTC-GATGACTATGTGTTATCGTGAGTATATGAATCCTTTATGGATTATG
*
55664 AGGTCCGATGACTAT-TGTTATCGT
1 AGGTTCGATGACTATGTGTTATCGT
55688 ACGGACTATA
Statistics
Matches: 118, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
51 11 0.09
52 106 0.90
53 1 0.01
ACGTcount: A:0.27, C:0.11, G:0.23, T:0.39
Consensus pattern (52 bp):
AGGTTCGATGACTATGTGTTATCGTGAGTATATGAATCCTTTATGGATTATG
Found at i:55766 original size:52 final size:52
Alignment explanation
Indices: 55688--55831 Score: 202
Period size: 52 Copynumber: 2.8 Consensus size: 52
55678 TTGTTATCGT
*
55688 ACGGACTATAAGGTCCGATGACTATGTGTCATTGTGAGTATATGAATTCTTC
1 ACGGATTATAAGGTCCGATGACTATGTGTCATTGTGAGTATATGAATTCTTC
* * *
55740 ACGGATTATGAGGTCCGATTACTATGTGTCATCT-TGAGTATATGAATTCTTT
1 ACGGATTATAAGGTCCGATGACTATGTGTCAT-TGTGAGTATATGAATTCTTC
* * *
55792 ACGGATTA-AAGGTTCGATGACTCTGTGTCATCGTGAGTAT
1 ACGGATTATAAGGTCCGATGACTATGTGTCATTGTGAGTAT
55832 CAAATACACA
Statistics
Matches: 81, Mismatches: 9, Indels: 5
0.85 0.09 0.05
Matches are distributed among these distances:
51 26 0.32
52 54 0.67
53 1 0.01
ACGTcount: A:0.26, C:0.15, G:0.24, T:0.36
Consensus pattern (52 bp):
ACGGATTATAAGGTCCGATGACTATGTGTCATTGTGAGTATATGAATTCTTC
Found at i:55825 original size:138 final size:138
Alignment explanation
Indices: 55556--55825 Score: 371
Period size: 138 Copynumber: 2.0 Consensus size: 138
55546 ATTTATGGAT
* * * * *
55556 TATAAGGTTCAATGACTATGTGTTATCGTGAGTATATGAATCCTTTATGGATTATGAGGTCTGAT
1 TATAAGGTCCAATGACTATGTGTCATCGTGAGTATATGAATCCTTCACGGATTATGAGGTCCGAT
* * * *
55621 GACTATGTGTTATCGTGAGTATATGAATCCTTTATGGATTATGAGGTCCGATGACTATTGTTATC
66 GACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATAAGGTCCGATGACTATTGTCATC
55686 GTACGGAC
131 GTACGGAC
* * *
55694 TATAAGGTCCGATGACTATGTGTCATTGTGAGTATATGAATTCTTCACGGATTATGAGGTCCGAT
1 TATAAGGTCCAATGACTATGTGTCATCGTGAGTATATGAATCCTTCACGGATTATGAGGTCCGAT
* * * * *
55759 TACTATGTGTCATCTTGAGTATATGAATTCTTTACGGATTA-AAGGTTCGATGACTCTGTGTCAT
66 GACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATAAGGTCCGATGACTAT-TGTCAT
55823 CGT
130 CGT
55826 GAGTATCAAA
Statistics
Matches: 114, Mismatches: 17, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
137 13 0.11
138 101 0.89
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.38
Consensus pattern (138 bp):
TATAAGGTCCAATGACTATGTGTCATCGTGAGTATATGAATCCTTCACGGATTATGAGGTCCGAT
GACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATAAGGTCCGATGACTATTGTCATC
GTACGGAC
Found at i:61374 original size:33 final size:33
Alignment explanation
Indices: 61337--61438 Score: 109
Period size: 33 Copynumber: 3.1 Consensus size: 33
61327 GAACAAAATG
*
61337 ATGAAGCTGCCCCTAGAGATGTTCCAATCAATT
1 ATGAAGCTGCCCCTATAGATGTTCCAATCAATT
* * * *
61370 ATGAAGCTACCGCGATAAATGTTCCAATC-ATT
1 ATGAAGCTGCCCCTATAGATGTTCCAATCAATT
* *
61402 GATGAAGCTG-CCTTGATAGATGTTCCAATCACTT
1 -ATGAAGCTGCCCCT-ATAGATGTTCCAATCAATT
61436 ATG
1 ATG
61439 TTGAGGATTT
Statistics
Matches: 55, Mismatches: 11, Indels: 6
0.76 0.15 0.08
Matches are distributed among these distances:
32 4 0.07
33 49 0.89
34 2 0.04
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.29
Consensus pattern (33 bp):
ATGAAGCTGCCCCTATAGATGTTCCAATCAATT
Found at i:66181 original size:12 final size:12
Alignment explanation
Indices: 66164--66188 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
66154 AATGAAGTAT
66164 ATGCAAATTGCC
1 ATGCAAATTGCC
66176 ATGCAAATTGCC
1 ATGCAAATTGCC
66188 A
1 A
66189 CGTTGATTCC
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:0.36, C:0.24, G:0.16, T:0.24
Consensus pattern (12 bp):
ATGCAAATTGCC
Found at i:70700 original size:14 final size:15
Alignment explanation
Indices: 70681--70727 Score: 55
Period size: 14 Copynumber: 3.3 Consensus size: 15
70671 AGTGTTCAAT
70681 GGTTTTGA-ATTTAG
1 GGTTTTGAGATTTAG
*
70695 GGTTTT-AGATTT-T
1 GGTTTTGAGATTTAG
*
70708 GGATTTGAGATTTAG
1 GGTTTTGAGATTTAG
70723 GGTTT
1 GGTTT
70728 AGGATTTGAC
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
13 6 0.23
14 16 0.62
15 4 0.15
ACGTcount: A:0.19, C:0.00, G:0.30, T:0.51
Consensus pattern (15 bp):
GGTTTTGAGATTTAG
Found at i:72293 original size:4 final size:4
Alignment explanation
Indices: 72277--72375 Score: 53
Period size: 4 Copynumber: 24.0 Consensus size: 4
72267 AATACCATAA
*
72277 AAAT AAA- AAAT AAAT AAAAT ACAT AAA- ACAAT AAAT AAAAT GAAAT
1 AAAT AAAT AAAT AAAT -AAAT AAAT AAAT A-AAT AAAT -AAAT -AAAT
* * * * *
72323 AAAA ACAAG AATGT AAAT -AAT AAAC AAAT AAAT AAAT -AAT CAAT AAATT
1 AAAT A-AAT AA-AT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA-T
72372 AAAT
1 AAAT
72376 GCCAAAATAA
Statistics
Matches: 74, Mismatches: 11, Indels: 20
0.70 0.10 0.19
Matches are distributed among these distances:
3 10 0.14
4 42 0.57
5 22 0.30
ACGTcount: A:0.71, C:0.05, G:0.03, T:0.21
Consensus pattern (4 bp):
AAAT
Found at i:72311 original size:21 final size:21
Alignment explanation
Indices: 72277--72327 Score: 77
Period size: 21 Copynumber: 2.4 Consensus size: 21
72267 AATACCATAA
72277 AAATAAAAAATAAATAAAAT-
1 AAATAAAAAATAAATAAAATG
*
72297 ACATAAAACAATAAATAAAATG
1 AAATAAAA-AATAAATAAAATG
72319 AAATAAAAA
1 AAATAAAAA
72328 CAAGAATGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
20 7 0.26
21 13 0.48
22 7 0.26
ACGTcount: A:0.76, C:0.04, G:0.02, T:0.18
Consensus pattern (21 bp):
AAATAAAAAATAAATAAAATG
Found at i:72317 original size:26 final size:28
Alignment explanation
Indices: 72259--72323 Score: 73
Period size: 26 Copynumber: 2.4 Consensus size: 28
72249 AATAAAGGCA
*
72259 AAAATATAAATACCATAAAAATAAAAAAT
1 AAAATA-AAATACCATAAAAACAAAAAAT
*
72288 -AAATAAAATA-CAT-AAAACAATAAAT
1 AAAATAAAATACCATAAAAACAAAAAAT
*
72313 AAAATGAAATA
1 AAAATAAAATA
72324 AAAACAAGAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
25 10 0.31
26 12 0.38
27 5 0.16
28 5 0.16
ACGTcount: A:0.72, C:0.06, G:0.02, T:0.20
Consensus pattern (28 bp):
AAAATAAAATACCATAAAAACAAAAAAT
Found at i:72342 original size:18 final size:18
Alignment explanation
Indices: 72306--72349 Score: 56
Period size: 17 Copynumber: 2.5 Consensus size: 18
72296 TACATAAAAC
*
72306 AATAAATAA-AATGAAAT
1 AATAAACAAGAATGAAAT
72323 AA-AAACAAGAATGTAAAT
1 AATAAACAAGAATG-AAAT
72341 AATAAACAA
1 AATAAACAA
72350 ATAAATAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
16 5 0.22
17 6 0.26
18 6 0.26
19 6 0.26
ACGTcount: A:0.70, C:0.05, G:0.07, T:0.18
Consensus pattern (18 bp):
AATAAACAAGAATGAAAT
Found at i:72349 original size:19 final size:17
Alignment explanation
Indices: 72306--72350 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
72296 TACATAAAAC
*
72306 AATAAATAAAATGAAAT
1 AATAAACAAAATGAAAT
72323 AA-AAACAAGAATGTAAAT
1 AATAAACAA-AATG-AAAT
72341 AATAAACAAA
1 AATAAACAAA
72351 TAAATAAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
16 5 0.21
17 6 0.25
18 7 0.29
19 6 0.25
ACGTcount: A:0.71, C:0.04, G:0.07, T:0.18
Consensus pattern (17 bp):
AATAAACAAAATGAAAT
Found at i:72401 original size:3 final size:3
Alignment explanation
Indices: 72393--72421 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
72383 TAAACAAGTA
72393 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
72422 GACGAACTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:82695 original size:24 final size:24
Alignment explanation
Indices: 82668--82714 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
82658 ATAATCTTTT
*
82668 AATTAAACTCTGTTTATTTGTTTC
1 AATTAAACTCTATTTATTTGTTTC
*
82692 AATTAAACTTTATTTATTTGTTT
1 AATTAAACTCTATTTATTTGTTT
82715 GAGTCAAACT
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:0.28, C:0.09, G:0.06, T:0.57
Consensus pattern (24 bp):
AATTAAACTCTATTTATTTGTTTC
Found at i:85668 original size:3 final size:3
Alignment explanation
Indices: 85660--85690 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
85650 CTAAAGATTC
85660 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
85691 TATGGATTCC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:85921 original size:11 final size:12
Alignment explanation
Indices: 85878--85924 Score: 60
Period size: 12 Copynumber: 4.0 Consensus size: 12
85868 GTTCACAAAC
*
85878 AAGCTCATTTAT
1 AAGCTCGTTTAT
* *
85890 TAGCTTGTTTAT
1 AAGCTCGTTTAT
85902 AAGCTCGTTTAT
1 AAGCTCGTTTAT
85914 AA-CTCGTTTAT
1 AAGCTCGTTTAT
85925 TTATTAATGA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
11 9 0.30
12 21 0.70
ACGTcount: A:0.26, C:0.15, G:0.13, T:0.47
Consensus pattern (12 bp):
AAGCTCGTTTAT
Found at i:86069 original size:23 final size:24
Alignment explanation
Indices: 86018--86078 Score: 88
Period size: 23 Copynumber: 2.6 Consensus size: 24
86008 ACATTATTCG
* *
86018 TGAACATGTTCAATTATATGTTCA
1 TGAACATGTTCGATTATATGGTCA
*
86042 TGAACATGTTCGTTTA-ATGGTCA
1 TGAACATGTTCGATTATATGGTCA
86065 TGAACATGTTCGAT
1 TGAACATGTTCGAT
86079 AAAATTAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
23 19 0.58
24 14 0.42
ACGTcount: A:0.30, C:0.13, G:0.18, T:0.39
Consensus pattern (24 bp):
TGAACATGTTCGATTATATGGTCA
Found at i:86090 original size:23 final size:23
Alignment explanation
Indices: 86064--86122 Score: 109
Period size: 23 Copynumber: 2.6 Consensus size: 23
86054 TTTAATGGTC
86064 ATGAACATGTTCGATAAAATTAA
1 ATGAACATGTTCGATAAAATTAA
*
86087 ATGAACATGTTCGATAAAGTTAA
1 ATGAACATGTTCGATAAAATTAA
86110 ATGAACATGTTCG
1 ATGAACATGTTCG
86123 TGAACATTAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.42, C:0.10, G:0.17, T:0.31
Consensus pattern (23 bp):
ATGAACATGTTCGATAAAATTAA
Found at i:87359 original size:130 final size:129
Alignment explanation
Indices: 87162--87438 Score: 314
Period size: 130 Copynumber: 2.1 Consensus size: 129
87152 TTGATTTTCG
87162 TTACAAATTTTATTAAG-AGTTCACGACAAACTGTATCGTTGCAATGAACAAGCATAAACATAAA
1 TTACAAATTTTATTAAGAAGTTCACGACAAACTGTATCGTTGCAATGAACAAGCATAAACATAAA
* * * *
87226 TTACATAATG-CTATTTTAAGGTTGTTGCTAATATTTTACCATTTA-CAACTACTTGTTTTGTCT
66 TTACATAATGAC-ATTTTAAGGTTGTTGCTAATATTTTAACATTTAGCAACGACTTGTTTGGTCC
* * *
87289 TTACAAATTTTATTAAGAAGTTGCAATGATAAATCATGT-T-GTTGCAATGAATAAGCATAAA-A
1 TTACAAATTTTATTAAGAAGTT-C-ACGACAAA-C-TGTATCGTTGCAATGAACAAGCATAAACA
* * * * * *
87351 TTAAATTACGTAATGACATTTTAAGTTTTTTGTTAATATTTTAACGTTTAGCAACGGCTTGTTTG
62 -TAAATTACATAATGACATTTTAAGGTTGTTGCTAATATTTTAACATTTAGCAACGACTTGTTTG
87416 GTCC
126 GTCC
***
87420 TTACGCGTTTTATTAAGAA
1 TTACAAATTTTATTAAGAA
87439 TTCGTAACTT
Statistics
Matches: 126, Mismatches: 16, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
127 17 0.13
128 4 0.03
129 2 0.02
130 67 0.53
131 33 0.26
132 3 0.02
ACGTcount: A:0.34, C:0.12, G:0.14, T:0.40
Consensus pattern (129 bp):
TTACAAATTTTATTAAGAAGTTCACGACAAACTGTATCGTTGCAATGAACAAGCATAAACATAAA
TTACATAATGACATTTTAAGGTTGTTGCTAATATTTTAACATTTAGCAACGACTTGTTTGGTCC
Found at i:92028 original size:22 final size:22
Alignment explanation
Indices: 92000--92043 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
91990 TTATATATTA
92000 TAAAAATAATATATTTATTCAT
1 TAAAAATAATATATTTATTCAT
* * *
92022 TAAAAATTATATTTTTGTTCAT
1 TAAAAATAATATATTTATTCAT
92044 CATAACTTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.43, C:0.05, G:0.02, T:0.50
Consensus pattern (22 bp):
TAAAAATAATATATTTATTCAT
Found at i:92151 original size:14 final size:14
Alignment explanation
Indices: 92129--92176 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 14
92119 GTTTTGTACA
92129 ATTTATAAAATTTT
1 ATTTATAAAATTTT
* *
92143 ATTTCTAAAGATTAT
1 ATTTATAAA-ATTTT
92158 ATATTATAAAATTTAT
1 AT-TTATAAAATTT-T
92174 ATT
1 ATT
92177 ATTTTTACTT
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
14 8 0.30
15 10 0.37
16 9 0.33
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (14 bp):
ATTTATAAAATTTT
Found at i:92173 original size:16 final size:15
Alignment explanation
Indices: 92129--92176 Score: 55
Period size: 16 Copynumber: 3.2 Consensus size: 15
92119 GTTTTGTACA
92129 ATTTATAAAATTT-T
1 ATTTATAAAATTTAT
*
92143 ATTTCTAAAGA-TTAT
1 ATTTATAAA-ATTTAT
92158 ATATTATAAAATTTAT
1 AT-TTATAAAATTTAT
92174 ATT
1 ATT
92177 ATTTTTACTT
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
14 10 0.36
15 6 0.21
16 12 0.43
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (15 bp):
ATTTATAAAATTTAT
Found at i:92177 original size:14 final size:14
Alignment explanation
Indices: 92131--92178 Score: 53
Period size: 14 Copynumber: 3.3 Consensus size: 14
92121 TTTGTACAAT
92131 TTATAAAATTT-TA
1 TTATAAAATTTATA
*
92144 TTTCTAAAGATTATATA
1 -TTATAAA-ATT-TATA
92161 TTATAAAATTTATA
1 TTATAAAATTTATA
92175 TTAT
1 TTAT
92179 TTTTACTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
14 14 0.48
15 6 0.21
16 7 0.24
17 2 0.07
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (14 bp):
TTATAAAATTTATA
Found at i:98335 original size:3 final size:3
Alignment explanation
Indices: 98327--98358 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
98317 TTAAAATCTT
*
98327 TTA TTA TTA TTA TTA TTA TTA TCA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
98359 CATTTCTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:108619 original size:44 final size:45
Alignment explanation
Indices: 108561--108657 Score: 144
Period size: 44 Copynumber: 2.2 Consensus size: 45
108551 GTATTAAAAC
* *
108561 TAGTTCGATTTCTGTAATCAACCTG-TTAGAGATGACAACATTAA
1 TAGTTCGATTTCTGTAATCAACCTGTTTAGAGATAACAACATCAA
* *
108605 TAGTTCGATTTCTGTAATCAACTTGTTTAGATATAACAACATCAA
1 TAGTTCGATTTCTGTAATCAACCTGTTTAGAGATAACAACATCAA
108650 T-GTTCGAT
1 TAGTTCGAT
108658 ATTTTGCCAT
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
44 31 0.65
45 17 0.35
ACGTcount: A:0.33, C:0.15, G:0.14, T:0.37
Consensus pattern (45 bp):
TAGTTCGATTTCTGTAATCAACCTGTTTAGAGATAACAACATCAA
Found at i:113367 original size:43 final size:44
Alignment explanation
Indices: 113311--113413 Score: 156
Period size: 43 Copynumber: 2.4 Consensus size: 44
113301 ATTAGATACA
* *
113311 GCGC-TTTATCCACAAACACCGCTAAAGAACATGGTCTTTAGCG
1 GCGCTTTTACCCACAAACACCGCTAAAGAACATGATCTTTAGCG
* *
113354 GGGCTTTTA-CCACAAACACCGCTAAAGAATATGATCTTTAGCG
1 GCGCTTTTACCCACAAACACCGCTAAAGAACATGATCTTTAGCG
113397 GCGCTTTTACCCACAAA
1 GCGCTTTTACCCACAAA
113414 TGCCACTATA
Statistics
Matches: 54, Mismatches: 4, Indels: 3
0.89 0.07 0.05
Matches are distributed among these distances:
43 43 0.80
44 11 0.20
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.24
Consensus pattern (44 bp):
GCGCTTTTACCCACAAACACCGCTAAAGAACATGATCTTTAGCG
Found at i:113885 original size:47 final size:47
Alignment explanation
Indices: 113816--113909 Score: 188
Period size: 47 Copynumber: 2.0 Consensus size: 47
113806 ACTCGGTTAT
113816 CAATGTCCTCTAAATTAACCGAACTATCACTTGAAGCCATTGCTTCA
1 CAATGTCCTCTAAATTAACCGAACTATCACTTGAAGCCATTGCTTCA
113863 CAATGTCCTCTAAATTAACCGAACTATCACTTGAAGCCATTGCTTCA
1 CAATGTCCTCTAAATTAACCGAACTATCACTTGAAGCCATTGCTTCA
113910 TACTCTGCCT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.32, C:0.28, G:0.11, T:0.30
Consensus pattern (47 bp):
CAATGTCCTCTAAATTAACCGAACTATCACTTGAAGCCATTGCTTCA
Found at i:119959 original size:21 final size:21
Alignment explanation
Indices: 119910--119976 Score: 73
Period size: 21 Copynumber: 3.0 Consensus size: 21
119900 GATTGCTAGA
* *
119910 GAAGAAGACAAGGGCGTGCAT
1 GAAGAAGAGAAGGGCGTGCGT
119931 GACA-AAGAGAAGGGCGTGCGT
1 GA-AGAAGAGAAGGGCGTGCGT
119952 GAAGAAGAAGGGAAGGGCGTGCGT
1 GAAGAAG-A--GAAGGGCGTGCGT
119976 G
1 G
119977 CGTGCGTGAA
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
20 1 0.03
21 22 0.56
22 2 0.05
24 14 0.36
ACGTcount: A:0.34, C:0.12, G:0.45, T:0.09
Consensus pattern (21 bp):
GAAGAAGAGAAGGGCGTGCGT
Found at i:120559 original size:19 final size:20
Alignment explanation
Indices: 120520--120560 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
120510 TTAATGATAT
*
120520 TTTATTAAATGAAAATAATA
1 TTTAATAAATGAAAATAATA
*
120540 TTTAATAAAT-AAAATTATA
1 TTTAATAAATGAAAATAATA
120559 TT
1 TT
120561 ATAAAATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (20 bp):
TTTAATAAATGAAAATAATA
Found at i:121375 original size:41 final size:41
Alignment explanation
Indices: 121305--121733 Score: 305
Period size: 41 Copynumber: 10.3 Consensus size: 41
121295 TTTAAATAAA
* ** **
121305 TTAGCGGCGCTTATGGGAAAATGTTGCTAATGACCTAACCT
1 TTAGCGGCGCTTATGAGAAAGCGCCGCTAATGACCTAACCT
* * *
121346 TTAGCGGCGCCTATGGGAAAGCGCCGCTAATG-CCTTGACCT
1 TTAGCGGCGCTTATGAGAAAGCGCCGCTAATGACC-TAACCT
* ** * * *
121387 TTAGTGGCGCTTACAATAAA--G-CACTACTGACCTAACCT
1 TTAGCGGCGCTTATGAGAAAGCGCCGCTAATGACCTAACCT
* * * * *
121425 TTAGCGACGCTTTTGAAAAAGAGCCGCTAATG-CCCAGACCT
1 TTAGCGGCGCTTATGAGAAAGCGCCGCTAATGACCTA-ACCT
* * * *
121466 TTAGCGACGCTTTTGAGAAAGCACTGCTAATGACCTAACCT
1 TTAGCGGCGCTTATGAGAAAGCGCCGCTAATGACCTAACCT
* * * *
121507 TTAGCGGTGCTTATGAGAAAGCACCACTAATGCCCTGACAATGCCCTGACCT
1 TTAGCGGCGCTTATGAGAAAGC-GC-C----G--CT---AATGACCTAACCT
* * *
121559 TTAGCGACGCTTATGAGGAAGCGCCGCTAAT-ACCCTGACCT
1 TTAGCGGCGCTTATGAGAAAGCGCCGCTAATGA-CCTAACCT
*
121600 TTAGCGTCGCTTATGAGAAAGCGCCGCTAATG-CCTTAACCT
1 TTAGCGGCGCTTATGAGAAAGCGCCGCTAATGACC-TAACCT
* * * *
121641 TTAGCGGAGCTTATGGGAAAGCGCCTCTAATGACCTGACCT
1 TTAGCGGCGCTTATGAGAAAGCGCCGCTAATGACCTAACCT
* * ** * *
121682 TTAGCAGCGCTTATGGGAAAGCATCGCTAATGTCCTAACGT
1 TTAGCGGCGCTTATGAGAAAGCGCCGCTAATGACCTAACCT
121723 TTAGCGGCGCT
1 TTAGCGGCGCT
121734 CTGATATTAA
Statistics
Matches: 308, Mismatches: 58, Indels: 44
0.75 0.14 0.11
Matches are distributed among these distances:
38 25 0.08
39 3 0.01
40 8 0.03
41 228 0.74
42 6 0.02
44 2 0.01
46 1 0.00
47 1 0.00
49 2 0.01
50 1 0.00
51 1 0.00
52 30 0.10
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (41 bp):
TTAGCGGCGCTTATGAGAAAGCGCCGCTAATGACCTAACCT
Found at i:121487 original size:79 final size:80
Alignment explanation
Indices: 121331--121512 Score: 204
Period size: 79 Copynumber: 2.3 Consensus size: 80
121321 GAAAATGTTG
* ** * ** * *
121331 CTAATGACCTAACCTTTAGCGGCGCCTATGGGAAAGCGCCGCTAATGCCTTGACCTTTAGTGGCG
1 CTAATGACCTAACCTTTAGCGACGCCTATGAAAAAGAGCCGCTAATGCCCAGACCTTTAGCGACG
*
121396 CTTACAATAAAGCA-
66 CTTACAAGAAAGCAC
* * *
121410 CTACTGACCTAACCTTTAGCGACGCTTTTGAAAAAGAGCCGCTAATGCCCAGACCTTTAGCGACG
1 CTAATGACCTAACCTTTAGCGACGCCTATGAAAAAGAGCCGCTAATGCCCAGACCTTTAGCGACG
***
121475 CTTTTGAGAAAGCAC
66 CTTACAAGAAAGCAC
121490 TGCTAATGACCTAACCTTTAGCG
1 --CTAATGACCTAACCTTTAGCG
121513 GTGCTTATGA
Statistics
Matches: 84, Mismatches: 16, Indels: 3
0.82 0.16 0.03
Matches are distributed among these distances:
79 64 0.76
82 20 0.24
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (80 bp):
CTAATGACCTAACCTTTAGCGACGCCTATGAAAAAGAGCCGCTAATGCCCAGACCTTTAGCGACG
CTTACAAGAAAGCAC
Found at i:121589 original size:52 final size:52
Alignment explanation
Indices: 121494--121597 Score: 136
Period size: 52 Copynumber: 2.0 Consensus size: 52
121484 AAGCACTGCT
** *
121494 AATGACCTAACCTTTAGCGGTGCTTATGAGAAAGCACCACTAATGCCCTGAC
1 AATGACCTAACCTTTAGCGACGCTTATGAGAAAGCACCACTAATACCCTGAC
* * * * *
121546 AATGCCCTGACCTTTAGCGACGCTTATGAGGAAGCGCCGCTAATACCCTGAC
1 AATGACCTAACCTTTAGCGACGCTTATGAGAAAGCACCACTAATACCCTGAC
121598 CTTTAGCGTC
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
52 44 1.00
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (52 bp):
AATGACCTAACCTTTAGCGACGCTTATGAGAAAGCACCACTAATACCCTGAC
Found at i:121612 original size:93 final size:93
Alignment explanation
Indices: 121453--121633 Score: 258
Period size: 93 Copynumber: 1.9 Consensus size: 93
121443 AAGAGCCGCT
* *
121453 AATGCCCAGACCTTTAGCGACGCTTTTGAGAAAGCACTGCTAATGACCTAACCTTTAGCGGTGCT
1 AATGCCCAGACCTTTAGCGACGCTTATGAGAAAGCACCGCTAATGACCTAACCTTTAGCGGTGCT
121518 TATGAGAAAGCACCACTAATGCCCTGAC
66 TATGAGAAAGCACCACTAATGCCCTGAC
* * * *
121546 AATGCCCTGACCTTTAGCGACGCTTATGAGGAAGCGCCGCTAAT-ACCCTGACCTTTAGC-GTCG
1 AATGCCCAGACCTTTAGCGACGCTTATGAGAAAGCACCGCTAATGA-CCTAACCTTTAGCGGT-G
* *
121609 CTTATGAGAAAGCGCCGCTAATGCC
64 CTTATGAGAAAGCACCACTAATGCC
121634 TTAACCTTTA
Statistics
Matches: 78, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
92 3 0.04
93 75 0.96
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (93 bp):
AATGCCCAGACCTTTAGCGACGCTTATGAGAAAGCACCGCTAATGACCTAACCTTTAGCGGTGCT
TATGAGAAAGCACCACTAATGCCCTGAC
Found at i:121661 original size:134 final size:134
Alignment explanation
Indices: 121421--121679 Score: 367
Period size: 134 Copynumber: 1.9 Consensus size: 134
121411 TACTGACCTA
* * *
121421 ACCTTTAGCGACGCTTTTGAAAAAGAGCCGCTAATGCCCAGACCTTTAGCGACGCTTTTGAGAAA
1 ACCTTTAGCGACGCTTATGAAAAAGAGCCGCTAATACCCAGACCTTTAGCGACGCTTATGAGAAA
* * *
121486 GCACTGCTAATGACCTAACCTTTAGCGGTGCTTATGAGAAAGCACCACTAATGCCCTGACAATGC
66 GCACCGCTAATGACCTAACCTTTAGCGGAGCTTATGAGAAAGCACCACTAATGACCTGACAATGC
121551 CCTG
131 CCTG
** * * *
121555 ACCTTTAGCGACGCTTATGAGGAAGCGCCGCTAATACCCTGACCTTTAGCGTCGCTTATGAGAAA
1 ACCTTTAGCGACGCTTATGAAAAAGAGCCGCTAATACCCAGACCTTTAGCGACGCTTATGAGAAA
* * * *
121620 GCGCCGCTAATG-CCTTAACCTTTAGCGGAGCTTATGGGAAAGCGCCTCTAATGACCTGAC
66 GCACCGCTAATGACC-TAACCTTTAGCGGAGCTTATGAGAAAGCACCACTAATGACCTGAC
121680 CTTTAGCAGC
Statistics
Matches: 109, Mismatches: 15, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
133 2 0.02
134 107 0.98
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (134 bp):
ACCTTTAGCGACGCTTATGAAAAAGAGCCGCTAATACCCAGACCTTTAGCGACGCTTATGAGAAA
GCACCGCTAATGACCTAACCTTTAGCGGAGCTTATGAGAAAGCACCACTAATGACCTGACAATGC
CCTG
Found at i:121844 original size:40 final size:40
Alignment explanation
Indices: 121789--121887 Score: 126
Period size: 40 Copynumber: 2.5 Consensus size: 40
121779 CTATAAATGT
** *
121789 CGCTATTGCTTTACCTTTTGCGATGCTTATGGAAAAACGC
1 CGCTATTGCTTTACCTTTTGCGACACTTATGGAAAAACAC
* * * *
121829 CGCTATTGCTTTACCTTTTGTGACATTTATGGGAAAACAT
1 CGCTATTGCTTTACCTTTTGCGACACTTATGGAAAAACAC
*
121869 CGCTATTACTTTACCTTTT
1 CGCTATTGCTTTACCTTTT
121888 ACGGTGTTTT
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 51 1.00
ACGTcount: A:0.22, C:0.21, G:0.16, T:0.40
Consensus pattern (40 bp):
CGCTATTGCTTTACCTTTTGCGACACTTATGGAAAAACAC
Found at i:124448 original size:19 final size:19
Alignment explanation
Indices: 124426--124463 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
124416 TCTCTAATAC
124426 AAAGAAAAATATCCTTTGA
1 AAAGAAAAATATCCTTTGA
124445 AAAGAAAAATATCCTTTGA
1 AAAGAAAAATATCCTTTGA
124464 TTCTTCTCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.53, C:0.11, G:0.11, T:0.26
Consensus pattern (19 bp):
AAAGAAAAATATCCTTTGA
Found at i:126286 original size:14 final size:14
Alignment explanation
Indices: 126260--126297 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
126250 TTTGAAGGTA
126260 ATTTTATTTCTG-C
1 ATTTTATTTCTGCC
126273 ATTTTATATTCTGCC
1 ATTTTAT-TTCTGCC
126288 ATTTTCATTT
1 ATTTT-ATTT
126298 TCGAAGCAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 7 0.32
14 5 0.23
15 8 0.36
16 2 0.09
ACGTcount: A:0.18, C:0.16, G:0.05, T:0.61
Consensus pattern (14 bp):
ATTTTATTTCTGCC
Found at i:139465 original size:38 final size:38
Alignment explanation
Indices: 139401--140268 Score: 465
Period size: 38 Copynumber: 22.8 Consensus size: 38
139391 CAAAAGACAT
* **
139401 CAATCTCTTACCTCGATCATGA-GGCAGATTGAAGCATC
1 CAATCTTTTACCTTAATCA-GAGGGCAGATTGAAGCATC
** *
139439 CAATCTTTTACCCCAATCAGAGGGCAGATTGAAGACACAC
1 CAATCTTTTACCTTAATCAGAGGGCAGATTGAAG-CA-TC
* * *
139479 CAATCTCTTA-CTCTGATCATG-GAGCAGATTGAAGCATC
1 CAATCTTTTACCT-TAATCA-GAGGGCAGATTGAAGCATC
** *
139517 CAATCTTTTACCTCGATCATG-GGGCAGATTGAAGAATC
1 CAATCTTTTACCTTAATCA-GAGGGCAGATTGAAGCATC
* * * *
139555 CAATCTCTTACCTTAATCAGAAGGCAGATTGCAGAATC
1 CAATCTTTTACCTTAATCAGAGGGCAGATTGAAGCATC
* * * * *
139593 CAATCTCTTACCTTAATCAAAAGGCAGATT-AAGAATT
1 CAATCTTTTACCTTAATCAGAGGGCAGATTGAAGCATC
* * * * *
139630 CAATCTTTTACCTTAATTAAAAGGCAAATTGAAG-ATAGG
1 CAATCTTTTACCTTAATCAGAGGGCAGATTGAAGCAT--C
** * *
139669 CAATCTTTTA-CTCCGATCATG-GAGCAAATTGAAGCATC
1 CAATCTTTTACCT-TAATCA-GAGGGCAGATTGAAGCATC
** *
139707 CAATCTTTTACCTCGATCATGA-GGCAGATTGAAGAATC
1 CAATCTTTTACCTTAATCA-GAGGGCAGATTGAAGCATC
* * * *
139745 CAATCTCTTACCTTAATCAGAAGGCAGATTGAAGAATA
1 CAATCTTTTACCTTAATCAGAGGGCAGATTGAAGCATC
* * * * **
139783 CAATCTGTTACCTTAATTAGAAGGCAAATTGAAGACAAA
1 CAATCTTTTACCTTAATCAGAGGGCAGATTGAAG-CATC
* * *
139822 CAATCTTTTA-ATCTGATCATG-GAGCAGATTGAAGCATC
1 CAATCTTTTACCT-TAATCA-GAGGGCAGATTGAAGCATC
* *** * * *
139860 CAACCTTTTACCCCGATCATGA-GGCAGATCGAAGAATT
1 CAATCTTTTACCTTAATCA-GAGGGCAGATTGAAGCATC
** * *
139898 CAATC---T--CTTAATCAGAAAGCAAATTGAAGACATG
1 CAATCTTTTACCTTAATCAGAGGGCAGATTGAAG-CATC
** *
139932 CAATCTTTTA-CTCCGATCATG-GAGCAGATTGAAGCATC
1 CAATCTTTTACCT-TAATCA-GAGGGCAGATTGAAGCATC
** *
139970 CAATCTTTTAACC-CGATCATG-GGGCAGATTGAAGAATC
1 CAATCTTTT-ACCTTAATCA-GAGGGCAGATTGAAGCATC
* * *
140008 CAATCTTTTACCCTAATCAG-GAGGCAGATTGAAAACATT
1 CAATCTTTTACCTTAATCAGAG-GGCAGATTG-AAGCATC
* * * * **
140047 CAATCTCTTACCTTAATTAGAAGGCAGATTGAAAACAGG
1 CAATCTTTTACCTTAATCAGAGGGCAGATTG-AAGCATC
* * * * * *
140086 TAATCTCTTA--TTCCAATCATAGAGCAGATTAAAGAATC
1 CAATCTTTTACCTT--AATCAGAGGGCAGATTGAAGCATC
* * *
140124 TAATCTTTTACCTTAATTAGAGGGCAGATTGAAGACATT
1 CAATCTTTTACCTTAATCAGAGGGCAGATTGAAG-CATC
* * *
140163 CAATCTTTTACCTTAATCAGAAGGCAGATTGAAGAAAC
1 CAATCTTTTACCTTAATCAGAGGGCAGATTGAAGCATC
* * * * *
140201 CAAT-TTTTAACTCCAATTATG-GAGTAGATTGAAGCATC
1 CAATCTTTTACCT-TAATCA-GAGGGCAGATTGAAGCATC
* * *
140239 CAATTTTTTACCTTAAATCAAAAGGCAGAT
1 CAATCTTTTACCTT-AATCAGAGGGCAGAT
140269 CAAAGATAGG
Statistics
Matches: 658, Mismatches: 127, Indels: 89
0.75 0.15 0.10
Matches are distributed among these distances:
32 2 0.00
33 14 0.02
34 7 0.01
35 1 0.00
37 54 0.08
38 365 0.55
39 181 0.28
40 33 0.05
41 1 0.00
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.28
Consensus pattern (38 bp):
CAATCTTTTACCTTAATCAGAGGGCAGATTGAAGCATC
Found at i:139726 original size:190 final size:192
Alignment explanation
Indices: 139401--139831 Score: 596
Period size: 190 Copynumber: 2.2 Consensus size: 192
139391 CAAAAGACAT
** ** * * * * *
139401 CAATCTCTTACCTCGATCATGAGGCAGATTGAAGCATCCAATCTTTTACCCCAATCAGAGGGCAG
1 CAATCTCTTACCTTAATCAAAAGGCAGATTGAAGAATACAATCTTTTACCCCAATCAAAAGGCAA
* *
139466 ATTGAAGACACACCAATCTCTTACTCTGATCATGGAGCAGATTGAAGCATCCAATCTTTTACCTC
66 ATTGAAGACACACCAATCTCTTACTCCGATCATGGAGCAAATTGAAGCATCCAATCTTTTACCTC
* * *
139531 GATCATGGGGCAGATTGAAGAATCCAATCTCTTACCTTAATCAGAAGGCAGATTGCAGAATC
131 GATCATGAGGCAGATTGAAGAATCCAATCTCTTACCTTAATCAGAAGGCAGATTGAAGAATA
* ** *
139593 CAATCTCTTACCTTAATCAAAAGGCAGATT-AAGAATTCAATCTTTTACCTTAATTAAAAGGCAA
1 CAATCTCTTACCTTAATCAAAAGGCAGATTGAAGAATACAATCTTTTACCCCAATCAAAAGGCAA
* ** *
139657 ATTGAAGATA-GGCAATCTTTTACTCCGATCATGGAGCAAATTGAAGCATCCAATCTTTTACCTC
66 ATTGAAGACACACCAATCTCTTACTCCGATCATGGAGCAAATTGAAGCATCCAATCTTTTACCTC
139721 GATCATGAGGCAGATTGAAGAATCCAATCTCTTACCTTAATCAGAAGGCAGATTGAAGAATA
131 GATCATGAGGCAGATTGAAGAATCCAATCTCTTACCTTAATCAGAAGGCAGATTGAAGAATA
* * * * *
139783 CAATCTGTTACCTTAATTAGAAGGCAAATTGAAGACAAACAATCTTTTA
1 CAATCTCTTACCTTAATCAAAAGGCAGATTGAAGA-ATACAATCTTTTA
139832 ATCTGATCAT
Statistics
Matches: 210, Mismatches: 27, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
190 134 0.64
191 39 0.19
192 37 0.18
ACGTcount: A:0.35, C:0.21, G:0.16, T:0.28
Consensus pattern (192 bp):
CAATCTCTTACCTTAATCAAAAGGCAGATTGAAGAATACAATCTTTTACCCCAATCAAAAGGCAA
ATTGAAGACACACCAATCTCTTACTCCGATCATGGAGCAAATTGAAGCATCCAATCTTTTACCTC
GATCATGAGGCAGATTGAAGAATCCAATCTCTTACCTTAATCAGAAGGCAGATTGAAGAATA
Found at i:139958 original size:110 final size:111
Alignment explanation
Indices: 139401--140013 Score: 438
Period size: 115 Copynumber: 5.4 Consensus size: 111
139391 CAAAAGACAT
* * * * ** ** *
139401 CAATCTCTTACCTCGATCATGAGGCAGATTGAAGCATCCAATCTTTTACCCCAATCAGAGGGCAG
1 CAATCTTTTACCCCGATCATGAGGCAGATTGAAGAATACAATC---TA-CTTAATCAGAAAGCAA
* * *
139466 ATTGAAGACACACCAATCTCTTACTCTGATCATGGAGCAGATTGAAGCATC
62 ATTGAAGACATA-CAATCTTTTACTCCGATCATGGAGCAGATTGAAGCATC
* * * * *
139517 CAATCTTTTACCTCGATCATGGGGCAGATTGAAGAATCCAATCTCTTACCTTAATCAGAAGGCAG
1 CAATCTTTTACCCCGATCATGAGGCAGATTGAAGAATACAA--TC-TA-CTTAATCAGAAAGCAA
* * * ** ** * *
139582 ATTGCAGA-ATCCAATCTCTTAC-CTTAATCA-AAAGGCAGATT-AAGAATT
62 ATTGAAGACATACAATCTTTTACTC-CGATCATGGA-GCAGATTGAAGCATC
*** * ** * ** *
139630 CAATCTTTTACCTTAATTAAAAGGCAAATTGAAG-ATAGGCAATCTTTTACTCCGATCATG-GAG
1 CAATCTTTTACCCCGATCATGAGGCAGATTGAAGAATA--CAATC---TACT-TAATCA-GAAAG
* *
139693 CAAATTGAAG-CATCCAATCTTTTAC-CTCGATCAT-GAGGCAGATTGAAGAATC
59 CAAATTGAAGACATACAATCTTTTACTC-CGATCATGGA-GCAGATTGAAGCATC
* *** * *
139745 CAATCTCTTACCTTAATCA-GAAGGCAGATTGAAGAATACAATCTGTTACCTTAATTAGAAGGCA
1 CAATCTTTTACCCCGATCATG-AGGCAGATTGAAGAATACAATC---TA-CTTAATCAGAAAGCA
* * *
139809 AATTGAAGACAAACAATCTTTTAATCTGATCATGGAGCAGATTGAAGCATC
61 AATTGAAGACATACAATCTTTTACTCCGATCATGGAGCAGATTGAAGCATC
* * *
139860 CAACCTTTTACCCCGATCATGAGGCAGATCGAAGAATTCAATCT-CTTAATCAGAAAGCAAATTG
1 CAATCTTTTACCCCGATCATGAGGCAGATTGAAGAATACAATCTACTTAATCAGAAAGCAAATTG
*
139924 AAGACATGCAATCTTTTACTCCGATCATGGAGCAGATTGAAGCATC
66 AAGACATACAATCTTTTACTCCGATCATGGAGCAGATTGAAGCATC
* * *
139970 CAATCTTTTAACCCGATCATGGGGCAGATTGAAGAATCCAATCT
1 CAATCTTTTACCCCGATCATGAGGCAGATTGAAGAATACAATCT
140014 TTTACCCTAA
Statistics
Matches: 410, Mismatches: 66, Indels: 48
0.78 0.13 0.09
Matches are distributed among these distances:
110 99 0.24
112 5 0.01
113 37 0.09
114 93 0.23
115 105 0.26
116 69 0.17
118 2 0.00
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.27
Consensus pattern (111 bp):
CAATCTTTTACCCCGATCATGAGGCAGATTGAAGAATACAATCTACTTAATCAGAAAGCAAATTG
AAGACATACAATCTTTTACTCCGATCATGGAGCAGATTGAAGCATC
Found at i:140198 original size:77 final size:77
Alignment explanation
Indices: 139394--140268 Score: 565
Period size: 77 Copynumber: 11.5 Consensus size: 77
139384 AAAAAGCCAA
* ** * **
139394 AAGACAT-CAATCTCTTACCTCGATCATG-AGGCAGATTGAAGCATCCAATCTTTTACCCCAATC
1 AAGACATCCAATCTTTTACCTTAATCA-GAAGGCAGATTGAAGAATCCAATCTTTTACCTTAATC
139457 AGAGGGCAGATTG
65 AGAGGGCAGATTG
* * * * * **
139470 AAGACACACCAATCTCTTA-CTCTGATCATGGA-GCAGATTGAAGCATCCAATCTTTTACCTCGA
1 AAGACA-TCCAATCTTTTACCT-TAATCA-GAAGGCAGATTGAAGAATCCAATCTTTTACCTTAA
139533 TCATG-GGGCAGATTG
63 TCA-GAGGGCAGATTG
* * *
139548 AAGA-ATCCAATCTCTTACCTTAATCAGAAGGCAGATTGCAGAATCCAATCTCTTACCTTAATCA
1 AAGACATCCAATCTTTTACCTTAATCAGAAGGCAGATTGAAGAATCCAATCTTTTACCTTAATCA
* *
139612 AAAGGCAGATT-
66 GAGGGCAGATTG
* * * * ** **
139623 AAGA-ATTCAATCTTTTACCTTAATTAAAAGGCAAATTGAAGATAGGCAATCTTTTA-CTCCGAT
1 AAGACATCCAATCTTTTACCTTAATCAGAAGGCAGATTGAAGA-ATCCAATCTTTTACCT-TAAT
* *
139686 CATG-GAGCAAATTG
64 CA-GAGGGCAGATTG
** *
139700 AAG-CATCCAATCTTTTACCTCGATCATG-AGGCAGATTGAAGAATCCAATCTCTTACCTTAATC
1 AAGACATCCAATCTTTTACCTTAATCA-GAAGGCAGATTGAAGAATCCAATCTTTTACCTTAATC
*
139763 AGAAGGCAGATTG
65 AGAGGGCAGATTG
* * * * ** * *
139776 AAGA-ATACAATCTGTTACCTTAATTAGAAGGCAAATTGAAGACAAACAATCTTTTA-ATCTGAT
1 AAGACATCCAATCTTTTACCTTAATCAGAAGGCAGATTGAAGA-ATCCAATCTTTTACCT-TAAT
*
139839 CATG-GAGCAGATTG
64 CA-GAGGGCAGATTG
* *** * *
139853 AAG-CATCCAACCTTTTACCCCGATCATG-AGGCAGATCGAAGAATTCAATC---T--CTTAATC
1 AAGACATCCAATCTTTTACCTTAATCA-GAAGGCAGATTGAAGAATCCAATCTTTTACCTTAATC
** *
139911 AGAAAGCAAATTG
65 AGAGGGCAGATTG
* ** * * **
139924 AAGACATGCAATCTTTTA-CTCCGATCATGGA-GCAGATTGAAGCATCCAATCTTTTAACC-CGA
1 AAGACATCCAATCTTTTACCT-TAATCA-GAAGGCAGATTGAAGAATCCAATCTTTT-ACCTTAA
139986 TCATG-GGGCAGATTG
63 TCA-GAGGGCAGATTG
* * * * * *
140001 AAGA-ATCCAATCTTTTACCCTAATCAGGAGGCAGATTGAAAACATTCAATCTCTTACCTTAATT
1 AAGACATCCAATCTTTTACCTTAATCAGAAGGCAGATTGAAGA-ATCCAATCTTTTACCTTAATC
*
140065 AGAAGGCAGATTG
65 AGAGGGCAGATTG
* *** * * * *
140078 AAAACAGGTAATCTCTTA--TTCCAATCA-TAGAGCAGATTAAAGAATCTAATCTTTTACCTTAA
1 AAGACATCCAATCTTTTACCTT--AATCAGAAG-GCAGATTGAAGAATCCAATCTTTTACCTTAA
*
140140 TTAGAGGGCAGATTG
63 TCAGAGGGCAGATTG
* * * * *
140155 AAGACATTCAATCTTTTACCTTAATCAGAAGGCAGATTGAAGAAACCAAT-TTTTAACTCCAATT
1 AAGACATCCAATCTTTTACCTTAATCAGAAGGCAGATTGAAGAATCCAATCTTTTACCT-TAATC
* *
140219 ATG-GAGTAGATTG
65 A-GAGGGCAGATTG
* *
140232 AAG-CATCCAATTTTTTACCTTAAATCAAAAGGCAGAT
1 AAGACATCCAATCTTTTACCTT-AATCAGAAGGCAGAT
140269 CAAAGATAGG
Statistics
Matches: 627, Mismatches: 123, Indels: 97
0.74 0.15 0.11
Matches are distributed among these distances:
70 1 0.00
71 17 0.03
72 38 0.06
73 2 0.00
75 46 0.07
76 194 0.31
77 231 0.37
78 94 0.15
79 4 0.01
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.28
Consensus pattern (77 bp):
AAGACATCCAATCTTTTACCTTAATCAGAAGGCAGATTGAAGAATCCAATCTTTTACCTTAATCA
GAGGGCAGATTG
Found at i:140437 original size:6 final size:6
Alignment explanation
Indices: 140420--140458 Score: 51
Period size: 6 Copynumber: 6.2 Consensus size: 6
140410 AAATAAAACC
*
140420 AAATAA ATATAA AAATAA AAATAAA AAATAAA AAATAA A
1 AAATAA AAATAA AAATAA AAAT-AA AAAT-AA AAATAA A
140459 TTATTATTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
6 17 0.57
7 13 0.43
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (6 bp):
AAATAA
Found at i:140441 original size:14 final size:14
Alignment explanation
Indices: 140424--140458 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
140414 AAAACCAAAT
140424 AAATATAAAAATAA
1 AAATATAAAAATAA
140438 AAATA-AAAAATAA
1 AAATATAAAAATAA
140451 AAA-ATAAA
1 AAATATAAA
140459 TTATTATTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 1 0.05
13 14 0.70
14 5 0.25
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (14 bp):
AAATATAAAAATAA
Found at i:140446 original size:7 final size:7
Alignment explanation
Indices: 140424--140458 Score: 54
Period size: 7 Copynumber: 5.0 Consensus size: 7
140414 AAAACCAAAT
140424 AAATATAA
1 AAATA-AA
140432 AAAT-AA
1 AAATAAA
140438 AAATAAA
1 AAATAAA
140445 AAATAAA
1 AAATAAA
140452 AAATAAA
1 AAATAAA
140459 TTATTATTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
6 6 0.23
7 16 0.62
8 4 0.15
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (7 bp):
AAATAAA
Found at i:143499 original size:201 final size:201
Alignment explanation
Indices: 143131--143530 Score: 595
Period size: 201 Copynumber: 2.0 Consensus size: 201
143121 CTAATTCTTC
* *
143131 CTCACACGTAACCGACTCCCGGACTTATTTTTTGAATTTCGAAGACCAAATTGGTTTTTTTATAA
1 CTCACACGTAACCGACTCCCGGACTTATTTTTTGAATTTCGAAAACCAAATTAGTTTTTTTATAA
* * * * *
143196 AATAAATTCAAATATTTTAGGTGATTCAATCACACCAAATTAAAAAAGATTAGTGACGACTCTCA
66 AAAAAATTCAAATATTTCAAGTAATTCAATCACACCAAATTAAAAAAGACTAGTGACGACTCTCA
* * * *
143261 TTTTCGATTTTAAAAATATTTTCGAAACTTGATTTTAAAAATGGTTTCGACAATTCTAACATGAC
131 TTTTCAATTTTAAAAATATTTTCAAAACTTAATTTTAAAAATGATTTCGACAATTCTAACATGAC
143326 AACTTT
196 AACTTT
* * *
143332 CTCACATGTAACTGACTCCCGGACTTATTTTTTGAATTTCGAAAACCAAATTATTTTTTTTATAA
1 CTCACACGTAACCGACTCCCGGACTTATTTTTTGAATTTCGAAAACCAAATTAGTTTTTTTATAA
* * * * * *
143397 AAAAAATTCAAATGTTTCAAGTAA-TCTAATCATACCAAATTAAAAAGGACTAGTGATGACTTTT
66 AAAAAATTCAAATATTTCAAGTAATTC-AATCACACCAAATTAAAAAAGACTAGTGACGACTCTC
*
143461 ATTTTCAATTTTAAAAATATTTTCAAAATTTAATTTTAAAAATGATTTCGACAATTCTAACATGA
130 ATTTTCAATTTTAAAAATATTTTCAAAACTTAATTTTAAAAATGATTTCGACAATTCTAACATGA
143526 CAACT
195 CAACT
143531 CATGTCTAAC
Statistics
Matches: 177, Mismatches: 21, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
200 2 0.01
201 175 0.99
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.37
Consensus pattern (201 bp):
CTCACACGTAACCGACTCCCGGACTTATTTTTTGAATTTCGAAAACCAAATTAGTTTTTTTATAA
AAAAAATTCAAATATTTCAAGTAATTCAATCACACCAAATTAAAAAAGACTAGTGACGACTCTCA
TTTTCAATTTTAAAAATATTTTCAAAACTTAATTTTAAAAATGATTTCGACAATTCTAACATGAC
AACTTT
Found at i:150894 original size:3 final size:3
Alignment explanation
Indices: 150886--150940 Score: 92
Period size: 3 Copynumber: 18.3 Consensus size: 3
150876 AGACAGTAGC
* *
150886 AGA AGA AGA AGA AGA AGC AGA AGA AGA AGA AGA AGA AGA AGA AGT AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
150934 AGA AGA A
1 AGA AGA A
150941 TACGTGTAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.64, C:0.02, G:0.33, T:0.02
Consensus pattern (3 bp):
AGA
Found at i:151943 original size:20 final size:21
Alignment explanation
Indices: 151905--151944 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
151895 CATCAACTAT
*
151905 GATTTGAGTAGTATAATATCG
1 GATTTGAATAGTATAATATCG
151926 GATTTGAATAGT-TAATATC
1 GATTTGAATAGTATAATATC
151945 TTTTATATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.35, C:0.05, G:0.20, T:0.40
Consensus pattern (21 bp):
GATTTGAATAGTATAATATCG
Found at i:157742 original size:18 final size:19
Alignment explanation
Indices: 157714--157750 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
157704 TAAAAAAAAT
157714 TTTGTTTTTGTTTATTTGG
1 TTTGTTTTTGTTTATTTGG
*
157733 TTTG-TTTTGTTTTTTTGG
1 TTTGTTTTTGTTTATTTGG
157751 CCCCAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.03, C:0.00, G:0.22, T:0.76
Consensus pattern (19 bp):
TTTGTTTTTGTTTATTTGG
Found at i:158600 original size:202 final size:206
Alignment explanation
Indices: 158162--158705 Score: 704
Period size: 202 Copynumber: 2.6 Consensus size: 206
158152 TCATTGATTT
* * * * *
158162 TTTGGTCTACTTCATTGTATCTCATAAGGAAGATGACCACTTCATTGTTTTAATCCACTTCTCTG
1 TTTGGTCTACTTCTTTGTATCTCATCAGGAAGATGACCGCCTCATTGTTTCAATCCACTTCTCTG
* * * * *
158227 TATCTCATAAAAAAAGACGGATTTTGGGTTCACTTCTCTACATTTCGTCA-AGAAGATGTCCCTT
66 TATCTCAT-AAAGAAGAC-GAATTT-GGTTCACTTCTCTACATCTCGTCAGA-AAGATGACACTT
* *
158291 TATTGCTTTGACCCACTTCTGTTGTATCTCATCAAGAAGATGGGGTTTGAAGTCTCATTCGTATT
127 TATTGCTTCGACCCACTTC-GTTGTA-CTCATCAAGAAGATGGAGTTTGAAGTCTCATTCGTATT
** *
158356 GAGCTTCGCTTTATTGA
190 GAGCTTCAATTCATTGA
* * *
158373 TTTTGTATACTTCTCTGTATCTCATCAGGAAGATGACCGCCTCATTGTTTCAATCCACTTCTCTG
1 TTTGGTCTACTTCTTTGTATCTCATCAGGAAGATGACCGCCTCATTGTTTCAATCCACTTCTCTG
* * * * *
158438 TATCTCATCAGGAAGACAAATTTGGTTCACTTCTTTGCATCTCGTCAGAAAGATGACTACTTTAT
66 TATCTCATAAAGAAGACGAATTTGGTTCACTTCTCTACATCTCGTCAGAAAGATGAC-ACTTTAT
* *
158503 TGCTTCGACCCACTTC-TT-TA-T-ATTAGGAAGAT-GAGTTTGAAGTCTCATTCGTATTGAGCT
130 TGCTTCGACCCACTTCGTTGTACTCATCAAGAAGATGGAGTTTGAAGTCTCATTCGTATTGAGCT
*
158563 TTAATTCATTGA
195 TCAATTCATTGA
* *
158575 TTTGGTCTACTTCTTTGTATCTCATCAGAAAGATGACCGTCTCATTGTTTCAATCCACTTCTCTG
1 TTTGGTCTACTTCTTTGTATCTCATCAGGAAGATGACCGCCTCATTGTTTCAATCCACTTCTCTG
* *
158640 TATCTCATTAAGAAGACGAATTTGGTTCACTTCTCTACATCTCGTCAGGAAGATGACCACTTTAT
66 TATCTCATAAAGAAGACGAATTTGGTTCACTTCTCTACATCTCGTCAGAAAGATGA-CACTTTAT
158705 T
130 T
158706 NNNNNNNNNN
Statistics
Matches: 293, Mismatches: 37, Indels: 15
0.85 0.11 0.04
Matches are distributed among these distances:
202 153 0.52
203 10 0.03
204 1 0.00
206 2 0.01
207 2 0.01
208 28 0.10
209 26 0.09
210 6 0.02
211 65 0.22
ACGTcount: A:0.24, C:0.21, G:0.16, T:0.39
Consensus pattern (206 bp):
TTTGGTCTACTTCTTTGTATCTCATCAGGAAGATGACCGCCTCATTGTTTCAATCCACTTCTCTG
TATCTCATAAAGAAGACGAATTTGGTTCACTTCTCTACATCTCGTCAGAAAGATGACACTTTATT
GCTTCGACCCACTTCGTTGTACTCATCAAGAAGATGGAGTTTGAAGTCTCATTCGTATTGAGCTT
CAATTCATTGA
Found at i:160528 original size:18 final size:19
Alignment explanation
Indices: 160500--160536 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
160490 TAAAAAAAAT
160500 TTTGTTTTTGTTTATTTGG
1 TTTGTTTTTGTTTATTTGG
*
160519 TTTG-TTTTGTTTTTTTGG
1 TTTGTTTTTGTTTATTTGG
160537 CCCCAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.03, C:0.00, G:0.22, T:0.76
Consensus pattern (19 bp):
TTTGTTTTTGTTTATTTGG
Found at i:161635 original size:208 final size:208
Alignment explanation
Indices: 160948--161815 Score: 1076
Period size: 208 Copynumber: 4.2 Consensus size: 208
160938 TCATTGATTT
* * *
160948 TTTGGTCTACTTCAT-TGTATCTCAT-AAGGAAGATGACCACTTCATTGTTTTAATCCACTTCTC
1 TTTGGTCTACTTC-TCTGTATCTCATCAA-GAAGATGACCGCCTCATTGTTTCAATCCACTTCTC
* * * * * *
161011 TGTATCTCATAAAAAAAGACGGATTTTGGGTTCACTTCTCTACATTTCGTCAAGAAGATGTCC-C
64 TGTATCTCAT-CAAGAAGAC-GAATTT-GGTTCACTTCTCTACATCTCGTCAGGAAGATGACCAC
* *
161075 TTTATTGCTTTGACCCACTTCTGTTGTATCTCATCAAGAAGATGGGGTTTGAAGTCTCATTCGTA
126 TTTATTGCTTCGACCCACTTCT-TTGTATCTCATCAGGAAGATGGGGTTTGAAGTCTCATTCGTA
* *
161140 TTGAGCTTCGCTTTATTGA
190 TTGAGCTTCGATTCATTGA
* * *
161159 TTTTGTATACTTCTCTGTATCTCATCAGGAAGATGACCGCCTCATTGTTTCAATCCACTTCTCTG
1 TTTGGTCTACTTCTCTGTATCTCATCAAGAAGATGACCGCCTCATTGTTTCAATCCACTTCTCTG
* * * * * *
161224 TATCTCATCAGGAAGACAAATTTGGTTCACTTCTTTGCATCTCGTCAGAAAGATGACTACTTTAT
66 TATCTCATCAAGAAGACGAATTTGGTTCACTTCTCTACATCTCGTCAGGAAGATGACCACTTTAT
* *
161289 TGCTTCGACCCACTTC-TT-TA--T-ATTAGGAAGAT-GAGTTTGAAGTCTCATTCGTATTGAGC
131 TGCTTCGACCCACTTCTTTGTATCTCATCAGGAAGATGGGGTTTGAAGTCTCATTCGTATTGAGC
**
161348 TTTAATTCATTGA
196 TTCGATTCATTGA
* *
161361 TTTGGTCTACTTCTTTGTATCTCATC-AGAAAGATGACCGTCTCATTGTTTCAATCCACTTCTCT
1 TTTGGTCTACTTCTCTGTATCTCATCAAG-AAGATGACCGCCTCATTGTTTCAATCCACTTCTCT
*
161425 GTATCTCATTAAGAAGACGAATTTGGTTCACTTCTCTACATCTCGTCAGGAAGATGACCACTTTA
65 GTATCTCATCAAGAAGACGAATTTGGTTCACTTCTCTACATCTCGTCAGGAAGATGACCACTTTA
* * * * * *
161490 TTGCTTCGACCTACTTCTTTGTGTCTCATCAGGAAAATGGGGTTTGGACTCTCATTCTTATTGAG
130 TTGCTTCGACCCACTTCTTTGTATCTCATCAGGAAGATGGGGTTTGAAGTCTCATTCGTATTGAG
*
161555 CTTCGATTAATTGA
195 CTTCGATTCATTGA
* * * *
161569 TTCGGTCTACTTCTCTATATCTCATCAAGAAGATGATCGCCTCATTATTTCAATCCACTTCTCTG
1 TTTGGTCTACTTCTCTGTATCTCATCAAGAAGATGACCGCCTCATTGTTTCAATCCACTTCTCTG
* * *
161634 TATCTCATCAGGAAAACGGATTTGGTTCACTTCTCTACATCTCGTCAGGAAGATGACCACTTTAT
66 TATCTCATCAAGAAGACGAATTTGGTTCACTTCTCTACATCTCGTCAGGAAGATGACCACTTTAT
* * * * *
161699 TACTTCGACCCACTTCTCTGTATCTCATCAGGAAGATGAGGCTTGGAAGTTTCACTT--TCATTG
131 TGCTTCGACCCACTTCTTTGTATCTCATCAGGAAGATG-GGGTTTGAAGTCTCA-TTCGT-ATTG
* ** *
161762 AGTTTCTCTTCATTGT
193 AGCTTCGATTCATTGA
**
161778 TTTGGTCTGTTTCTCTGTATCTCATCAAGAAGATGACC
1 TTTGGTCTACTTCTCTGTATCTCATCAAGAAGATGACC
161816 TTTTAAAGTT
Statistics
Matches: 564, Mismatches: 79, Indels: 30
0.84 0.12 0.04
Matches are distributed among these distances:
201 1 0.00
202 166 0.29
203 11 0.02
204 2 0.00
206 3 0.01
207 11 0.02
208 212 0.38
209 85 0.15
210 9 0.02
211 63 0.11
212 1 0.00
ACGTcount: A:0.24, C:0.22, G:0.16, T:0.38
Consensus pattern (208 bp):
TTTGGTCTACTTCTCTGTATCTCATCAAGAAGATGACCGCCTCATTGTTTCAATCCACTTCTCTG
TATCTCATCAAGAAGACGAATTTGGTTCACTTCTCTACATCTCGTCAGGAAGATGACCACTTTAT
TGCTTCGACCCACTTCTTTGTATCTCATCAGGAAGATGGGGTTTGAAGTCTCATTCGTATTGAGC
TTCGATTCATTGA
Found at i:161711 original size:410 final size:413
Alignment explanation
Indices: 160948--161715 Score: 1159
Period size: 410 Copynumber: 1.9 Consensus size: 413
160938 TCATTGATTT
* *
160948 TTTGGTCTACTTCATTGTATCTCATAAGGAAGATGACCACTTCATTGTTTTAATCCACTTCTCTG
1 TTTGGTCTACTTCATTGTATCTCATAAGAAAGATGACCACTTCATTGTTTCAATCCACTTCTCTG
* * *
161013 TATCTCATAAAAAAAGACGGATTTTGGGTTCACTTCTCTACATTTCGTCAAGAAGATGTCCCTTT
66 TATCTCATAAAAAAAGACGGAATTTGGGTTCACTTCTCTACATCTCGTCAAGAAGATGACCCTTT
* * *
161078 ATTGCTTTGACCCACTTCTGTTGTATCTCATCAAGAAGATGGGGTTTGAAGTCTCATTCGTATTG
131 ATTGCTTCGACCCACTTCTGTTGTATCTCATCAAGAAAATGGGGTTTGAACTCTCATTCGTATTG
* * ** * * *
161143 AGCTTCGCTTTATTGATTTTGTATACTTCTCTGTATCTCATCAGGAAGATGACCGCCTCATTGTT
196 AGCTTCGATTAATTGATTCGGTATACTTCTCTATATCTCATCAAGAAGATGACCGCCTCATTATT
* * *
161208 TCAATCCACTTCTCTGTATCTCATCAGGAAGACAAATTTGGTTCACTTCTTTGCATCTCGTCAGA
261 TCAATCCACTTCTCTGTATCTCATCAGGAAAACAAATTTGGTTCACTTCTCTACATCTCGTCAGA
* *
161273 AAGATGACTACTTTATTGCTTCGACCCACTTCTTTATATTAGGAAGATGAGTTTGAAGTCTCATT
326 AAGATGACCACTTTATTACTTCGACCCACTTCTTTATATTAGGAAGATGAGTTTGAAGTCTCATT
161338 CGTATTGAGCTTTAATTCATTGA
391 CGTATTGAGCTTTAATTCATTGA
* * *
161361 TTTGGTCTACTTCTTTGTATCTCATCAGAAAGATGACC-GTCTCATTGTTTCAATCCACTTCTCT
1 TTTGGTCTACTTCATTGTATCTCATAAGAAAGATGACCACT-TCATTGTTTCAATCCACTTCTCT
* * *
161425 GTATCTCAT-TAAGAAGAC-GAATTT-GGTTCACTTCTCTACATCTCGTCAGGAAGATGACCACT
65 GTATCTCATAAAAAAAGACGGAATTTGGGTTCACTTCTCTACATCTCGTCAAGAAGATGACC-CT
* * * * *
161487 TTATTGCTTCGACCTACTTCT-TTGTGTCTCATCAGGAAAATGGGGTTTGGACTCTCATTCTTAT
129 TTATTGCTTCGACCCACTTCTGTTGTATCTCATCAAGAAAATGGGGTTTGAACTCTCATTCGTAT
* *
161551 TGAGCTTCGATTAATTGATTCGGTCTACTTCTCTATATCTCATCAAGAAGATGATCGCCTCATTA
194 TGAGCTTCGATTAATTGATTCGGTATACTTCTCTATATCTCATCAAGAAGATGACCGCCTCATTA
**
161616 TTTCAATCCACTTCTCTGTATCTCATCAGGAAAACGGATTTGGTTCACTTCTCTACATCTCGTCA
259 TTTCAATCCACTTCTCTGTATCTCATCAGGAAAACAAATTTGGTTCACTTCTCTACATCTCGTCA
*
161681 GGAAGATGACCACTTTATTACTTCGACCCACTTCT
324 GAAAGATGACCACTTTATTACTTCGACCCACTTCT
161716 CTGTATCTCA
Statistics
Matches: 317, Mismatches: 36, Indels: 7
0.88 0.10 0.02
Matches are distributed among these distances:
410 217 0.68
411 26 0.08
412 8 0.03
413 66 0.21
ACGTcount: A:0.24, C:0.22, G:0.16, T:0.38
Consensus pattern (413 bp):
TTTGGTCTACTTCATTGTATCTCATAAGAAAGATGACCACTTCATTGTTTCAATCCACTTCTCTG
TATCTCATAAAAAAAGACGGAATTTGGGTTCACTTCTCTACATCTCGTCAAGAAGATGACCCTTT
ATTGCTTCGACCCACTTCTGTTGTATCTCATCAAGAAAATGGGGTTTGAACTCTCATTCGTATTG
AGCTTCGATTAATTGATTCGGTATACTTCTCTATATCTCATCAAGAAGATGACCGCCTCATTATT
TCAATCCACTTCTCTGTATCTCATCAGGAAAACAAATTTGGTTCACTTCTCTACATCTCGTCAGA
AAGATGACCACTTTATTACTTCGACCCACTTCTTTATATTAGGAAGATGAGTTTGAAGTCTCATT
CGTATTGAGCTTTAATTCATTGA
Found at i:161720 original size:85 final size:85
Alignment explanation
Indices: 161577--161732 Score: 222
Period size: 85 Copynumber: 1.8 Consensus size: 85
161567 GATTCGGTCT
* * * * *
161577 ACTTCTCTATATCTCATCAAGAAGATGATCGCCTCATTATTTCAATCCACTTCTCTGTATCTCAT
1 ACTTCTCTACATCTCATCAAGAAGATGACCACCTCATTACTTCAACCCACTTCTCTGTATCTCAT
161642 CAGGAAAACGGATTTGGTTC
66 CAGGAAAACGGATTTGGTTC
* * * * *
161662 ACTTCTCTACATCTCGTCAGGAAGATGACCACTTTATTACTTCGACCCACTTCTCTGTATCTCAT
1 ACTTCTCTACATCTCATCAAGAAGATGACCACCTCATTACTTCAACCCACTTCTCTGTATCTCAT
161727 CAGGAA
66 CAGGAA
161733 GATGAGGCTT
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
85 61 1.00
ACGTcount: A:0.26, C:0.27, G:0.13, T:0.34
Consensus pattern (85 bp):
ACTTCTCTACATCTCATCAAGAAGATGACCACCTCATTACTTCAACCCACTTCTCTGTATCTCAT
CAGGAAAACGGATTTGGTTC
Done.