Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01002616.1 Kokia drynarioides strain JFW-HI SEQ_114831, 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: 79446
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Found at i:3640 original size:18 final size:18
Alignment explanation
Indices: 3619--3662 Score: 79
Period size: 18 Copynumber: 2.4 Consensus size: 18
3609 GCTGCAGTCG
3619 CATAAACTGCTGCATTTA
1 CATAAACTGCTGCATTTA
*
3637 CATAAACTGTTGCATTTA
1 CATAAACTGCTGCATTTA
3655 CATAAACT
1 CATAAACT
3663 ACAGTCGCAC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.36, C:0.20, G:0.09, T:0.34
Consensus pattern (18 bp):
CATAAACTGCTGCATTTA
Found at i:3698 original size:30 final size:30
Alignment explanation
Indices: 3664--3776 Score: 127
Period size: 30 Copynumber: 3.7 Consensus size: 30
3654 ACATAAACTA
* *
3664 CAGTCGCACGAGCTGTATTTACACGTGTTG
1 CAGTCGCACGAGCTATATTTACACGAGTTG
* *
3694 CAGTCGCACGAGCTACATTTACACGAATTG
1 CAGTCGCACGAGCTATATTTACACGAGTTG
* * * *
3724 CAGTCGCATGAACTCTGATTTACACGGGTTG
1 CAGTCGCACGAGCTAT-ATTTACACGAGTTG
* *
3755 CAGTTGCACGAGCTACATTTAC
1 CAGTCGCACGAGCTATATTTAC
3777 GAGCTGTGTC
Statistics
Matches: 67, Mismatches: 15, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
30 44 0.66
31 23 0.34
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.27
Consensus pattern (30 bp):
CAGTCGCACGAGCTATATTTACACGAGTTG
Found at i:8307 original size:13 final size:13
Alignment explanation
Indices: 8261--8310 Score: 57
Period size: 13 Copynumber: 3.8 Consensus size: 13
8251 TTTACATTAA
8261 TTTTGAAAAGTGC
1 TTTTGAAAAGTGC
*
8274 TTTTAAAAAGTG-
1 TTTTGAAAAGTGC
* *
8286 TGATGGAAAAGTGC
1 T-TTTGAAAAGTGC
8300 TTTTGAAAAGT
1 TTTTGAAAAGT
8311 TTGGTTTAAT
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
12 1 0.03
13 27 0.93
14 1 0.03
ACGTcount: A:0.36, C:0.04, G:0.24, T:0.36
Consensus pattern (13 bp):
TTTTGAAAAGTGC
Found at i:12032 original size:68 final size:68
Alignment explanation
Indices: 11918--12063 Score: 220
Period size: 68 Copynumber: 2.1 Consensus size: 68
11908 ATCAAACACG
* * * *
11918 AGATTTGCTTTGTAGTCTGCCGACATCGAGAGATGCGGTGACAGGTTAGGTTATCAAGTAAAACA
1 AGATTTGCTTTGCAGTCTACCAACATCGAGAGATGCGGTGACAGGTTAGGTTAACAAGTAAAACA
11983 ACA
66 ACA
* *
11986 AGATTTGCTTTGCAGTCTACCAACATTGAGAGATGCGGTGATAGGTTAGGTTAACAAGTAAAACA
1 AGATTTGCTTTGCAGTCTACCAACATCGAGAGATGCGGTGACAGGTTAGGTTAACAAGTAAAACA
*
12051 ACG
66 ACA
*
12054 AGAGTTGCTT
1 AGATTTGCTT
12064 GGGACTAGAA
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
68 70 1.00
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.27
Consensus pattern (68 bp):
AGATTTGCTTTGCAGTCTACCAACATCGAGAGATGCGGTGACAGGTTAGGTTAACAAGTAAAACA
ACA
Found at i:29807 original size:20 final size:21
Alignment explanation
Indices: 29773--29811 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
29763 CATTTTTCTA
*
29773 TTTACTTTTATTTGTTTCACT
1 TTTACTTTTAGTTGTTTCACT
29794 TTTACTTTT-GTTGTTTCA
1 TTTACTTTTAGTTGTTTCA
29812 AATTCCTTGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.13, C:0.13, G:0.08, T:0.67
Consensus pattern (21 bp):
TTTACTTTTAGTTGTTTCACT
Found at i:31993 original size:21 final size:21
Alignment explanation
Indices: 31964--32005 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
31954 GAAGGATAAA
* *
31964 AAGAGGAAGAGGCACAAAGAC
1 AAGAAGAAGAAGCACAAAGAC
31985 AAGAAGAAGAAGCACAAAGAC
1 AAGAAGAAGAAGCACAAAGAC
32006 GAGGGTGAGC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.57, C:0.14, G:0.29, T:0.00
Consensus pattern (21 bp):
AAGAAGAAGAAGCACAAAGAC
Found at i:32725 original size:10 final size:10
Alignment explanation
Indices: 32710--32760 Score: 50
Period size: 10 Copynumber: 5.2 Consensus size: 10
32700 TCTCAGTCAT
32710 AAAAAAAAGA
1 AAAAAAAAGA
32720 AAAAAAAAG-
1 AAAAAAAAGA
* * *
32729 GAGAAAAAGG
1 AAAAAAAAGA
*
32739 AAGAAAAAGA
1 AAAAAAAAGA
*
32749 AAAAGAAAGA
1 AAAAAAAAGA
32759 AA
1 AA
32761 TTTTTGATAA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
9 7 0.21
10 27 0.79
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (10 bp):
AAAAAAAAGA
Found at i:32751 original size:16 final size:16
Alignment explanation
Indices: 32730--32760 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
32720 AAAAAAAAGG
*
32730 AGAAAAAGGAAGAAAA
1 AGAAAAAGAAAGAAAA
32746 AGAAAAAGAAAGAAA
1 AGAAAAAGAAAGAAA
32761 TTTTTGATAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (16 bp):
AGAAAAAGAAAGAAAA
Found at i:35433 original size:72 final size:72
Alignment explanation
Indices: 35330--35574 Score: 427
Period size: 72 Copynumber: 3.4 Consensus size: 72
35320 TTTCATATCC
* *
35330 AAAATCAAATATAAACAACTATTGATAAAACTAAATTACACATAAATAAGTAGAATATAAATTCA
1 AAAACCAAACATAAACAACTATTGATAAAACTAAATTACACATAAATAAGTAGAATATAAATTCA
35395 ATAACCA
66 ATAACCA
35402 AAAACCAAACATAAACAACTATTGATAAAACTAAATTACACATAAATAAGTAGAATATAAATTCA
1 AAAACCAAACATAAACAACTATTGATAAAACTAAATTACACATAAATAAGTAGAATATAAATTCA
35467 ATAACCA
66 ATAACCA
* *
35474 AAAACCAAACATAAACAACTATTGATAAAACTAGATTACACATAAATAAGTAGAACATAAATTCA
1 AAAACCAAACATAAACAACTATTGATAAAACTAAATTACACATAAATAAGTAGAATATAAATTCA
**
35539 ATATTCA
66 ATAACCA
*
35546 AAAACCAAATATAAACAACTATTGATAAA
1 AAAACCAAACATAAACAACTATTGATAAA
35575 TCTAGTTTAG
Statistics
Matches: 166, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
72 166 1.00
ACGTcount: A:0.58, C:0.14, G:0.04, T:0.23
Consensus pattern (72 bp):
AAAACCAAACATAAACAACTATTGATAAAACTAAATTACACATAAATAAGTAGAATATAAATTCA
ATAACCA
Found at i:42106 original size:3 final size:3
Alignment explanation
Indices: 42095--42151 Score: 107
Period size: 3 Copynumber: 19.3 Consensus size: 3
42085 TTTTTTTTTG
42095 TTA TT- TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
42142 TTA TTA TTA T
1 TTA TTA TTA T
42152 ACTATTAGTT
Statistics
Matches: 53, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 51 0.96
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:42957 original size:16 final size:17
Alignment explanation
Indices: 42903--42972 Score: 61
Period size: 17 Copynumber: 3.9 Consensus size: 17
42893 CACTTTACAA
*
42903 AAAAAAACAATATATAAAA
1 AAAAAAACAA-ATA-AAAT
**
42922 AAATAAATACAAATCCAAT
1 AAA-AAA-ACAAATAAAAT
*
42941 -AAAAAATAAATAAAAT
1 AAAAAAACAAATAAAAT
42957 AAAAAAACAAATAAAA
1 AAAAAAACAAATAAAA
42973 AGGATTAAAC
Statistics
Matches: 41, Mismatches: 7, Indels: 8
0.73 0.12 0.14
Matches are distributed among these distances:
16 8 0.20
17 17 0.41
18 2 0.05
19 5 0.12
20 5 0.12
21 4 0.10
ACGTcount: A:0.77, C:0.07, G:0.00, T:0.16
Consensus pattern (17 bp):
AAAAAAACAAATAAAAT
Found at i:42968 original size:21 final size:22
Alignment explanation
Indices: 42918--42971 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
42908 AACAATATAT
*
42918 AAAAAAATAAATACAAATCCAA
1 AAAAAAATAAATACAAATCAAA
*
42940 TAAAAAATAAATA-AAAT-AAA
1 AAAAAAATAAATACAAATCAAA
42960 AAAACAAATAAA
1 AAAA-AAATAAA
42972 AAGGATTAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 5 0.18
21 11 0.39
22 12 0.43
ACGTcount: A:0.78, C:0.07, G:0.00, T:0.15
Consensus pattern (22 bp):
AAAAAAATAAATACAAATCAAA
Found at i:42999 original size:18 final size:18
Alignment explanation
Indices: 42948--42999 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 18
42938 AATAAAAAAT
42948 AAATAAAATAA-AA-AAAC
1 AAATAAAA-AAGAATAAAC
* *
42965 AAATAAAAAGGATTAAAC
1 AAATAAAAAAGAATAAAC
42983 AAATAAAAAAGAATAAA
1 AAATAAAAAAGAATAAA
43000 AGATTTAATT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
16 1 0.03
17 9 0.31
18 19 0.66
ACGTcount: A:0.77, C:0.04, G:0.06, T:0.13
Consensus pattern (18 bp):
AAATAAAAAAGAATAAAC
Found at i:46724 original size:31 final size:30
Alignment explanation
Indices: 46679--46739 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 30
46669 TTTTGGACCT
* * * *
46679 CTTAAAACCTAAAAATAAAATTTTGAATCC
1 CTTAAAAACTAAAAAAAAAAATTTAAATCC
46709 CTTAAAAACTAAAAAAAAAAAATTTAAATCC
1 CTTAAAAACT-AAAAAAAAAAATTTAAATCC
46740 TTTTCAATCT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 9 0.35
31 17 0.65
ACGTcount: A:0.57, C:0.15, G:0.02, T:0.26
Consensus pattern (30 bp):
CTTAAAAACTAAAAAAAAAAATTTAAATCC
Found at i:46970 original size:75 final size:80
Alignment explanation
Indices: 46802--46983 Score: 232
Period size: 83 Copynumber: 2.3 Consensus size: 80
46792 GCCTGATTGT
*
46802 CAATATAAATTTTATCTTCATAAGATAAATTTGAACATATATAAAATTTTAAAAAAAAATTTAAA
1 CAATATAAATTTTATCTTCACAAGATAAATTTGAACATATATAAAATTTT--AAAAAAATTTAAA
* * *
46867 ATTATTCAAGATAAATGT
64 AATATGCAAGA-AAATGG
*
46885 CAATATAAATTATATCTTCACAAGATAAATTTAGAA-ATATAT-AAA-TTT-AAAAAA-TTAAAA
1 CAATATAAATTTTATCTTCACAAGATAAATTT-GAACATATATAAAATTTTAAAAAAATTTAAAA
46945 ATATGCAAG-AAATGG
65 ATATGCAAGAAAATGG
*
46960 CAATATAAATTTTATATTCACAAG
1 CAATATAAATTTTATCTTCACAAG
46984 TAGGGGCAAA
Statistics
Matches: 91, Mismatches: 7, Indels: 10
0.84 0.06 0.09
Matches are distributed among these distances:
75 27 0.30
77 13 0.14
78 6 0.07
81 3 0.03
82 3 0.03
83 36 0.40
84 3 0.03
ACGTcount: A:0.52, C:0.07, G:0.06, T:0.35
Consensus pattern (80 bp):
CAATATAAATTTTATCTTCACAAGATAAATTTGAACATATATAAAATTTTAAAAAAATTTAAAAA
TATGCAAGAAAATGG
Found at i:48627 original size:143 final size:139
Alignment explanation
Indices: 48360--48752 Score: 495
Period size: 143 Copynumber: 2.8 Consensus size: 139
48350 AAGACGATAT
* *
48360 TTTTGGGTGACACTTTTCTAAGTATTGGGATAGACTTGCCAACATACGC-TTTGTCCAACTCTTT
1 TTTTGGGCGACACTTTTCTAAGTGTTGGGATAGACTTGCCAACATACGCTTTTG-CCAACTCTTT
* * * * *
48424 GTATAACGGTTGAGATATGCATACCTAAGACAACGCTTAAATAAGAGTGAACTTTTTCTAACACT
65 GTATAAAGGTTGAGATATGCATGCCTAAGGCAACGCTTAAATAAGAATGAACTTTGTCTAACACT
*
48489 ATGCCAACAC
130 ATGACAACAC
* *
48499 TTTTGGGACGACACTTTCCTAAGTGTTGGGATAGACTTGCCAACATACACTTTTGCCAACTCTTT
1 TTTTGGG-CGACACTTTTCTAAGTGTTGGGATAGACTTGCCAACATACGCTTTTGCCAACTC---
* * * *
48564 TTTGTATAAGGGTTGGGATATGCATGTCAAAGGCAACGCTTAAATAAGAATCG-ACTTTGTCTAA
62 TTTGTATAAAGGTTGAGATATGCATGCCTAAGGCAACGCTTAAATAAGAAT-GAACTTTGTCTAA
*
48628 CACTATGACGACAC
126 CACTATGACAACAC
* ** * *
48642 TTTTGGGCCAACACTTTTCTAAGTGTTGGGATAGACTTGCTGACATACGCTTTGGTCAACTCTTT
1 TTTTGGG-CGACACTTTTCTAAGTGTTGGGATAGACTTGCCAACATACGCTTTTGCCAACTCTTT
**
48707 AAATAAAGGTTGCA-ATATGCATGCCTAAGGCAACGCTTAAATAAGA
65 GTATAAAGGTTG-AGATATGCATGCCTAAGGCAACGCTTAAATAAGA
48753 GTTGGCTTTG
Statistics
Matches: 219, Mismatches: 28, Indels: 13
0.84 0.11 0.05
Matches are distributed among these distances:
139 7 0.03
140 87 0.40
141 4 0.02
143 120 0.55
144 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32
Consensus pattern (139 bp):
TTTTGGGCGACACTTTTCTAAGTGTTGGGATAGACTTGCCAACATACGCTTTTGCCAACTCTTTG
TATAAAGGTTGAGATATGCATGCCTAAGGCAACGCTTAAATAAGAATGAACTTTGTCTAACACTA
TGACAACAC
Found at i:48804 original size:36 final size:36
Alignment explanation
Indices: 48764--48872 Score: 137
Period size: 36 Copynumber: 3.0 Consensus size: 36
48754 TTGGCTTTGT
*
48764 CAACCTTTTTAAGGTTGCCTTAGATAAGGTCTATCC
1 CAACCTTTTTAAGGTTGCCTTAGACAAGGTCTATCC
* * **
48800 CAACCATTTTAAGGTTGCCTTAAACAAGGTCTATAT
1 CAACCTTTTTAAGGTTGCCTTAGACAAGGTCTATCC
* *
48836 GAACCTTTTAAAAAGGTTGCCTTAGACAAGGTCTATC
1 CAACCTTTT--TAAGGTTGCCTTAGACAAGGTCTATC
48873 TGTAACACCC
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
36 38 0.62
38 23 0.38
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (36 bp):
CAACCTTTTTAAGGTTGCCTTAGACAAGGTCTATCC
Found at i:49187 original size:21 final size:21
Alignment explanation
Indices: 49163--49209 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
49153 ATGGTTCTAT
* *
49163 CGATACATGTGACACTACTAC
1 CGATACAAGTCACACTACTAC
* *
49184 CGATACAAGTCATACTTCTAC
1 CGATACAAGTCACACTACTAC
49205 CGATA
1 CGATA
49210 TTAAAAACTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.34, C:0.28, G:0.13, T:0.26
Consensus pattern (21 bp):
CGATACAAGTCACACTACTAC
Found at i:49946 original size:24 final size:25
Alignment explanation
Indices: 49905--49966 Score: 83
Period size: 24 Copynumber: 2.6 Consensus size: 25
49895 AATTAGCTCA
*
49905 TACGAGCCTAG-ATAGGTTAACTCT
1 TACGAGCCCAGAATAGGTTAACTCT
*
49929 TACGAGCCCAGAAT-GGTTAGCTCT
1 TACGAGCCCAGAATAGGTTAACTCT
*
49953 TACCAGCCCAGAAT
1 TACGAGCCCAGAAT
49967 CAGAATAATG
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
24 32 0.94
25 2 0.06
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (25 bp):
TACGAGCCCAGAATAGGTTAACTCT
Found at i:49998 original size:27 final size:27
Alignment explanation
Indices: 49960--50069 Score: 148
Period size: 27 Copynumber: 4.1 Consensus size: 27
49950 TCTTACCAGC
*
49960 CCAGAATCAGAATAATGCTCTTTCGAG
1 CCAGAATCAGAATAACGCTCTTTCGAG
*
49987 CCAGAATTAGAATAACGCTCTTTCGAG
1 CCAGAATCAGAATAACGCTCTTTCGAG
* **
50014 CCAGAATCAGATTAACGCTCTTTTAAG
1 CCAGAATCAGAATAACGCTCTTTCGAG
* * *
50041 CCAGAATCAGATTAATGCTTTTTCGAG
1 CCAGAATCAGAATAACGCTCTTTCGAG
50068 CC
1 CC
50070 TTCAATCTCG
Statistics
Matches: 73, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 73 1.00
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.28
Consensus pattern (27 bp):
CCAGAATCAGAATAACGCTCTTTCGAG
Found at i:51891 original size:38 final size:37
Alignment explanation
Indices: 51839--52146 Score: 358
Period size: 36 Copynumber: 8.4 Consensus size: 37
51829 AGCTGTTACA
* *
51839 CTATCCCAATCTTTTAAAAAGGTTGCCTTAGACAAGGT
1 CTATCCCAACCTTTT-TAAAGGTTGCCTTAGACAAGGT
* *
51877 CTATCCCAACCTTTTT-AAGGTTGCCTTAAACAATGT
1 CTATCCCAACCTTTTTAAAGGTTGCCTTAGACAAGGT
* *
51913 CTATCCCAACCTTTTTGAAAGGTTGCCTCAAACAAGGT
1 CTATCCCAACCTTTTT-AAAGGTTGCCTTAGACAAGGT
* * * *
51951 CTATCTCAACCTTTGTTAAAGGTTGCCTCAAACAAAGT
1 CTATCCCAACCTTT-TTAAAGGTTGCCTTAGACAAGGT
* *
51989 CTATCCCAACCTTTTT-AAGGTTGTCTTAGACATGGT
1 CTATCCCAACCTTTTTAAAGGTTGCCTTAGACAAGGT
* *
52025 TTATCCTAACCTTTTTAAA-GTTGCCTTAGACAA-GT
1 CTATCCCAACCTTTTTAAAGGTTGCCTTAGACAAGGT
* * * *
52060 CTATCCCAACCTTTTTTAAAAGTTGCCTTGGACAAAGC
1 CTATCCCAACC-TTTTTAAAGGTTGCCTTAGACAAGGT
*
52098 CTACCCCAACCTTTTTAAA-GTTGCCTTAGACAA-GT
1 CTATCCCAACCTTTTTAAAGGTTGCCTTAGACAAGGT
52133 CTATCCCAAACCTT
1 CTATCCC-AACCTT
52147 CAATAAAGGT
Statistics
Matches: 236, Mismatches: 26, Indels: 18
0.84 0.09 0.06
Matches are distributed among these distances:
35 18 0.08
36 102 0.43
37 25 0.11
38 89 0.38
39 2 0.01
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.33
Consensus pattern (37 bp):
CTATCCCAACCTTTTTAAAGGTTGCCTTAGACAAGGT
Found at i:51961 original size:74 final size:72
Alignment explanation
Indices: 51839--52146 Score: 375
Period size: 74 Copynumber: 4.2 Consensus size: 72
51829 AGCTGTTACA
* * *
51839 CTATCCCAATCTTTTAAAAAGGTTGCCTTAGACAAGGTCTATCCCAACCTTTTTAAGGTTGCCTT
1 CTATCCCAACCTTTT-TAAAGGTTGCCTTAGACAAGGTCTATCCCAACCTTTTTAAAGTTGCCTT
51904 AAACAATGT
65 AAACAA-GT
* * *
51913 CTATCCCAACCTTTTTGAAAGGTTGCCTCAAACAAGGTCTATCTCAACCTTTGTTAAAGGTTGCC
1 CTATCCCAACCTTTTT-AAAGGTTGCCTTAGACAAGGTCTATCCCAACCTTT-TTAAA-GTTGCC
*
51978 TCAAACAAAGT
63 TTAAAC-AAGT
* * * *
51989 CTATCCCAACCTTTTT-AAGGTTGTCTTAGACATGGTTTATCCTAACCTTTTTAAAGTTGCCTTA
1 CTATCCCAACCTTTTTAAAGGTTGCCTTAGACAAGGTCTATCCCAACCTTTTTAAAGTTGCCTTA
*
52053 GACAAGT
66 AACAAGT
* * * * *
52060 CTATCCCAACCTTTTTTAAAAGTTGCCTTGGACAAAGCCTACCCCAACCTTTTTAAAGTTGCCTT
1 CTATCCCAACC-TTTTTAAAGGTTGCCTTAGACAAGGTCTATCCCAACCTTTTTAAAGTTGCCTT
*
52125 AGACAAGT
65 AAACAAGT
52133 CTATCCCAAACCTT
1 CTATCCC-AACCTT
52147 CAATAAAGGT
Statistics
Matches: 202, Mismatches: 25, Indels: 15
0.83 0.10 0.06
Matches are distributed among these distances:
71 15 0.07
72 15 0.07
73 60 0.30
74 77 0.38
75 4 0.02
76 29 0.14
77 2 0.01
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.33
Consensus pattern (72 bp):
CTATCCCAACCTTTTTAAAGGTTGCCTTAGACAAGGTCTATCCCAACCTTTTTAAAGTTGCCTTA
AACAAGT
Found at i:52036 original size:112 final size:108
Alignment explanation
Indices: 51839--52146 Score: 375
Period size: 112 Copynumber: 2.8 Consensus size: 108
51829 AGCTGTTACA
* * *
51839 CTATCCCAATCTTT-TAAAAAGGTTGCCTTAGACAAGGTCTATCCCAACCTTTTTAAGGTTGCCT
1 CTATCCCAACCTTTGT-TAAAGGTTGCCTTAGACAAAGTCTATCCCAACCTTTTTAAGGTTGCCT
*
51903 TAAACAATGTCTATCCCAACCTTTTTGAAAGGTTGCCTCAAACAAGGT
65 TAGAC-ATGTCTATCCCAACCTTTTT-AAA-GTTGCCTCAAACAA-GT
* * * *
51951 CTATCTCAACCTTTGTTAAAGGTTGCCTCAAACAAAGTCTATCCCAACCTTTTTAAGGTTGTCTT
1 CTATCCCAACCTTTGTTAAAGGTTGCCTTAGACAAAGTCTATCCCAACCTTTTTAAGGTTGCCTT
* * * *
52016 AGACATGGTTTATCCTAACCTTTTTAAAGTTGCCTTAGACAAGT
66 AGACAT-GTCTATCCCAACCTTTTTAAAGTTGCCTCAAACAAGT
* * * * * *
52060 CTATCCCAACCTTTTTTAAAAGTTGCCTTGGACAAAGCCTACCCCAACCTTTTTAAAGTTGCCTT
1 CTATCCCAACCTTTGTTAAAGGTTGCCTTAGACAAAGTCTATCCCAACCTTTTTAAGGTTGCCTT
*
52125 AGACAAGTCTATCCCAAACCTT
66 AGACATGTCTATCCC-AACCTT
52147 CAATAAAGGT
Statistics
Matches: 168, Mismatches: 25, Indels: 9
0.83 0.12 0.04
Matches are distributed among these distances:
108 7 0.04
109 68 0.40
110 12 0.07
111 5 0.03
112 75 0.45
113 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.33
Consensus pattern (108 bp):
CTATCCCAACCTTTGTTAAAGGTTGCCTTAGACAAAGTCTATCCCAACCTTTTTAAGGTTGCCTT
AGACATGTCTATCCCAACCTTTTTAAAGTTGCCTCAAACAAGT
Found at i:52338 original size:76 final size:76
Alignment explanation
Indices: 52251--52402 Score: 304
Period size: 76 Copynumber: 2.0 Consensus size: 76
52241 TAGGTGTCAC
52251 GACACTTTTTTTAGTTATTTGTTGGGAACTATATTTATCTTATAATTTAGAGTTGTACTGATTCG
1 GACACTTTTTTTAGTTATTTGTTGGGAACTATATTTATCTTATAATTTAGAGTTGTACTGATTCG
52316 TTTACCTAAAA
66 TTTACCTAAAA
52327 GACACTTTTTTTAGTTATTTGTTGGGAACTATATTTATCTTATAATTTAGAGTTGTACTGATTCG
1 GACACTTTTTTTAGTTATTTGTTGGGAACTATATTTATCTTATAATTTAGAGTTGTACTGATTCG
52392 TTTACCTAAAA
66 TTTACCTAAAA
52403 TTTCTTTATC
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
76 76 1.00
ACGTcount: A:0.28, C:0.11, G:0.14, T:0.47
Consensus pattern (76 bp):
GACACTTTTTTTAGTTATTTGTTGGGAACTATATTTATCTTATAATTTAGAGTTGTACTGATTCG
TTTACCTAAAA
Found at i:54384 original size:94 final size:94
Alignment explanation
Indices: 54253--54443 Score: 310
Period size: 94 Copynumber: 2.0 Consensus size: 94
54243 TTGTCAATAA
* *
54253 GTTTGTTGATGGTTTACTAGACATTAATTGTTGTTATTTGGCTATTTCATTATGTTTGTAACTGA
1 GTTTGTTGATGATTTACTAGACATTAATTGTTGTTATTTAGCTATTTCATTATGTTTGTAACTGA
* *
54318 CTATTAGGTTCTTATTTGATGTCTTCATT
66 ATATTAGATTCTTATTTGATGTCTTCATT
* * *
54347 GTTTGTTGATGATTTACTAGACATTGATTGTTTTTATTTAGCTATTTCATTGTGTTTGTAACTGA
1 GTTTGTTGATGATTTACTAGACATTAATTGTTGTTATTTAGCTATTTCATTATGTTTGTAACTGA
*
54412 ATGTTAGATTCTTATTTGATGTCTTCATT
66 ATATTAGATTCTTATTTGATGTCTTCATT
54441 GTT
1 GTT
54444 AGGGATGTAC
Statistics
Matches: 89, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
94 89 1.00
ACGTcount: A:0.20, C:0.09, G:0.18, T:0.53
Consensus pattern (94 bp):
GTTTGTTGATGATTTACTAGACATTAATTGTTGTTATTTAGCTATTTCATTATGTTTGTAACTGA
ATATTAGATTCTTATTTGATGTCTTCATT
Found at i:55081 original size:37 final size:37
Alignment explanation
Indices: 55036--55232 Score: 290
Period size: 36 Copynumber: 5.4 Consensus size: 37
55026 CGGTCTACTA
* * * *
55036 CAACCTTTTTAAAGGTTGCCTTAAAAAAGGTATATTC
1 CAACCTTTTTAAAGGTTGCCTTAGACAAGGTCTATCC
* *
55073 CAACCTTTTT-AAGGTTGCTTTAGACAAGGTTTATCC
1 CAACCTTTTTAAAGGTTGCCTTAGACAAGGTCTATCC
55109 CAACCTTTTTAAAGGTTGCCTTAGACAAGGTCTATCC
1 CAACCTTTTTAAAGGTTGCCTTAGACAAGGTCTATCC
* *
55146 CAACCTTGTTAAAAGGTTGCCTTAGACAAGGTCTATCA
1 CAACCTT-TTTAAAGGTTGCCTTAGACAAGGTCTATCC
*
55184 CAACCTTTTT-AAGGTTGCTTTAGACAAGGTCTATCC
1 CAACCTTTTTAAAGGTTGCCTTAGACAAGGTCTATCC
55220 CAACCTTTTTAAA
1 CAACCTTTTTAAA
55233 TCTATCCCAA
Statistics
Matches: 145, Mismatches: 12, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
36 65 0.45
37 45 0.31
38 35 0.24
ACGTcount: A:0.29, C:0.21, G:0.15, T:0.35
Consensus pattern (37 bp):
CAACCTTTTTAAAGGTTGCCTTAGACAAGGTCTATCC
Found at i:55102 original size:36 final size:36
Alignment explanation
Indices: 54996--55231 Score: 255
Period size: 36 Copynumber: 6.5 Consensus size: 36
54986 TTTAAACGGA
** * *
54996 TCTA-TCCAACCTTTTTAAGGTCACTTTATAC--GG
1 TCTATTCCAACCTTTTTAAGGTTGCCTTAGACAAGG
* * * *
55029 TCTACTACAACCTTTTTAAAGGTTGCCTTAAAAAAGG
1 TCTATTCCAACCTTTTT-AAGGTTGCCTTAGACAAGG
* *
55066 TATATTCCAACCTTTTTAAGGTTGCTTTAGACAAGG
1 TCTATTCCAACCTTTTTAAGGTTGCCTTAGACAAGG
* *
55102 TTTATCCCAACCTTTTTAAAGGTTGCCTTAGACAAGG
1 TCTATTCCAACCTTTTT-AAGGTTGCCTTAGACAAGG
* *
55139 TCTATCCCAACCTTGTTAAAAGGTTGCCTTAGACAAGG
1 TCTATTCCAACCTT-TT-TAAGGTTGCCTTAGACAAGG
*
55177 TCTA-TCACAACCTTTTTAAGGTTGCTTTAGACAAGG
1 TCTATTC-CAACCTTTTTAAGGTTGCCTTAGACAAGG
*
55213 TCTATCCCAACCTTTTTAA
1 TCTATTCCAACCTTTTTAA
55232 ATCTATCCCA
Statistics
Matches: 173, Mismatches: 21, Indels: 15
0.83 0.10 0.07
Matches are distributed among these distances:
33 4 0.02
34 11 0.06
35 10 0.06
36 65 0.38
37 51 0.29
38 32 0.18
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.36
Consensus pattern (36 bp):
TCTATTCCAACCTTTTTAAGGTTGCCTTAGACAAGG
Found at i:55238 original size:20 final size:20
Alignment explanation
Indices: 55213--55251 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
55203 TTAGACAAGG
*
55213 TCTATCCCAACCTTTTTAAA
1 TCTATCCCAACCTTCTTAAA
55233 TCTATCCCAACCTTCTTAA
1 TCTATCCCAACCTTCTTAA
55252 GGTTGCCTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.33, G:0.00, T:0.38
Consensus pattern (20 bp):
TCTATCCCAACCTTCTTAAA
Found at i:55245 original size:56 final size:56
Alignment explanation
Indices: 55177--55289 Score: 174
Period size: 56 Copynumber: 2.0 Consensus size: 56
55167 TTAGACAAGG
* *
55177 TCTATCACAACCTTTTTAAGGTTGCTTTAGACAAGGTCTATCCCAACC-TTTTTAAA
1 TCTATCACAACCTTCTTAAGGTTGCCTTAGAC-AGGTCTATCCCAACCTTTTTTAAA
* *
55233 TCTATCCCAACCTTCTTAAGGTTGCCTTAGACCGGTCTATCCCAACCTTTTTTAAA
1 TCTATCACAACCTTCTTAAGGTTGCCTTAGACAGGTCTATCCCAACCTTTTTTAAA
55289 T
1 T
55290 TGTTGCCTTA
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
55 14 0.27
56 38 0.73
ACGTcount: A:0.26, C:0.27, G:0.11, T:0.37
Consensus pattern (56 bp):
TCTATCACAACCTTCTTAAGGTTGCCTTAGACAGGTCTATCCCAACCTTTTTTAAA
Found at i:55245 original size:94 final size:94
Alignment explanation
Indices: 55139--55323 Score: 259
Period size: 94 Copynumber: 2.0 Consensus size: 94
55129 TTAGACAAGG
*
55139 TCTATCCCAACCTTGTTAAAAGGTTGCCTTAGACAAGGTCTATCACAACC-TTTTT-AA-GGTTG
1 TCTATCCCAACCTTCTT--AAGGTTGCCTTAGAC-AGGTCTATCACAACCTTTTTTAAATGGTTG
* **
55201 CTTTAGACAAGGTCTATCCCAACCTTTTTAAA
63 CCTTAGACAAGACCTATCCCAACCTTTTTAAA
* * *
55233 TCTATCCCAACCTTCTTAAGGTTGCCTTAGACCGGTCTATCCCAACCTTTTTTAAATTGTTGCCT
1 TCTATCCCAACCTTCTTAAGGTTGCCTTAGACAGGTCTATCACAACCTTTTTTAAATGGTTGCCT
55298 TAGACAAGACCTATCCCAACCTTTTT
66 TAGACAAGACCTATCCCAACCTTTTT
55324 TAAAGGTTGG
Statistics
Matches: 81, Mismatches: 7, Indels: 6
0.86 0.07 0.06
Matches are distributed among these distances:
91 13 0.16
92 20 0.25
93 2 0.02
94 46 0.57
ACGTcount: A:0.26, C:0.26, G:0.12, T:0.35
Consensus pattern (94 bp):
TCTATCCCAACCTTCTTAAGGTTGCCTTAGACAGGTCTATCACAACCTTTTTTAAATGGTTGCCT
TAGACAAGACCTATCCCAACCTTTTTAAA
Found at i:55337 original size:39 final size:37
Alignment explanation
Indices: 55234--55338 Score: 124
Period size: 39 Copynumber: 2.8 Consensus size: 37
55224 CTTTTTAAAT
* * **
55234 CTATCCCAACC-TTCTT-AAGGTTGCCTTAGACCGGT
1 CTATCCCAACCTTTTTTAAAGGTTGCCTTAGACAGAC
*
55269 CTATCCCAACCTTTTTTAAATTGTTGCCTTAGACAAGAC
1 CTATCCCAACCTTTTTTAAA-GGTTGCCTTAGAC-AGAC
55308 CTATCCCAACCTTTTTTAAAGGTTGGCCTTA
1 CTATCCCAACCTTTTTTAAAGGTT-GCCTTA
55339 ACTCGGTTTT
Statistics
Matches: 59, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
35 11 0.19
36 4 0.07
37 2 0.03
38 15 0.25
39 27 0.46
ACGTcount: A:0.24, C:0.28, G:0.13, T:0.35
Consensus pattern (37 bp):
CTATCCCAACCTTTTTTAAAGGTTGCCTTAGACAGAC
Found at i:58472 original size:5 final size:5
Alignment explanation
Indices: 58462--58490 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
58452 CTGGGAAGTA
58462 TTTAT TTTAT TTTAT TTTAT TTTAT TTTA
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTA
58491 ATTATTTTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTAT
Found at i:59609 original size:78 final size:78
Alignment explanation
Indices: 59479--59686 Score: 258
Period size: 78 Copynumber: 2.7 Consensus size: 78
59469 TTGAACTGGC
* *
59479 CTGTAAACACCGTAATACTATATCGAA-CTAGCAGTGACACTTTAAACACTGCAAACCAATAATG
1 CTGTAAACACCGTAATACTATATCGAACCGA-CAGTGACACTGTAAACACTGCAAACCAATAATG
*
59543 AATTGATAGTGACA
65 AATTGACAGTGACA
* * * * *
59557 TTGTAAACATCGTAATACTATATCGAACCGACAATGACACTGTAAACACTGCAAACTAATACTGA
1 CTGTAAACACCGTAATACTATATCGAACCGACAGTGACACTGTAAACACTGCAAACCAATAATGA
*
59622 ATTGACGGTGACA
66 ATTGACAGTGACA
* * * * *
59635 CCGTAAACACCGTAATACTGTA-CTGAGCTGGCAGTGACACTGTAAACACTGC
1 CTGTAAACACCGTAATACTATATC-GAACCGACAGTGACACTGTAAACACTGC
59687 GTAGCTATGT
Statistics
Matches: 111, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
77 1 0.01
78 108 0.97
79 2 0.02
ACGTcount: A:0.38, C:0.22, G:0.16, T:0.24
Consensus pattern (78 bp):
CTGTAAACACCGTAATACTATATCGAACCGACAGTGACACTGTAAACACTGCAAACCAATAATGA
ATTGACAGTGACA
Found at i:59634 original size:39 final size:39
Alignment explanation
Indices: 59479--59724 Score: 155
Period size: 39 Copynumber: 6.3 Consensus size: 39
59469 TTGAACTGGC
* *
59479 CTGTAAACACCGTAATACTATA-TCGAACT-AGCAGTGACA
1 CTGTAAACACTGCAATACTATACT-GAACTGA-CAGTGACA
* * * * *
59518 CTTTAAACACTGCAA-ACCAATAATGAATTGATAGTGACA
1 CTGTAAACACTGCAATA-CTATACTGAACTGACAGTGACA
* * * *
59557 TTGTAAACA-TCGTAATACTATA-TCGAACCGACAATGACA
1 CTGTAAACACT-GCAATACTATACT-GAACTGACAGTGACA
* *
59596 CTGTAAACACTGCAA-ACTAATACTGAATTGACGGTGACA
1 CTGTAAACACTGCAATACT-ATACTGAACTGACAGTGACA
* * * * * *
59635 CCGTAAACACCGTAATACTGTACTGAGCTGGCAGTGACA
1 CTGTAAACACTGCAATACTATACTGAACTGACAGTGACA
* ** * * *
59674 CTGTAAACACTGC-GTAGCTATGTTGAACTGGCATTAACA
1 CTGTAAACACTGCAATA-CTATACTGAACTGACAGTGACA
59713 CTGTAAACACTG
1 CTGTAAACACTG
59725 TGATTGCTCT
Statistics
Matches: 158, Mismatches: 38, Indels: 22
0.72 0.17 0.10
Matches are distributed among these distances:
38 8 0.05
39 142 0.90
40 8 0.05
ACGTcount: A:0.37, C:0.22, G:0.17, T:0.24
Consensus pattern (39 bp):
CTGTAAACACTGCAATACTATACTGAACTGACAGTGACA
Found at i:66735 original size:16 final size:16
Alignment explanation
Indices: 66714--66744 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
66704 AATGTCATAT
66714 GTCAAATATTAAGTTG
1 GTCAAATATTAAGTTG
66730 GTCAAATATTAAGTT
1 GTCAAATATTAAGTT
66745 ACCATATCAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.39, C:0.06, G:0.16, T:0.39
Consensus pattern (16 bp):
GTCAAATATTAAGTTG
Found at i:69673 original size:12 final size:12
Alignment explanation
Indices: 69656--69743 Score: 68
Period size: 12 Copynumber: 7.3 Consensus size: 12
69646 GCTATTGTCG
*
69656 TGTTATTTTTGC
1 TGTTATTTTTGT
69668 TGTTATTTTTGT
1 TGTTATTTTTGT
* * *
69680 TGCTGTTTTTAT
1 TGTTATTTTTGT
* **
69692 TGTTGTTTTTAA
1 TGTTATTTTTGT
*
69704 TGTTATTTTTGC
1 TGTTATTTTTGT
* * *
69716 TGCTGTTTTGGT
1 TGTTATTTTTGT
*
69728 TGTTATTTTTAT
1 TGTTATTTTTGT
69740 TGTT
1 TGTT
69744 TGGATGTTAT
Statistics
Matches: 59, Mismatches: 17, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
12 59 1.00
ACGTcount: A:0.09, C:0.05, G:0.18, T:0.68
Consensus pattern (12 bp):
TGTTATTTTTGT
Found at i:69684 original size:15 final size:15
Alignment explanation
Indices: 69658--69696 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
69648 TATTGTCGTG
*
69658 TTATTTTTGCTGTTAT
1 TTATTGTTGCTGTT-T
69674 TT-TTGTTGCTGTTT
1 TTATTGTTGCTGTTT
69688 TTATTGTTG
1 TTATTGTTG
69697 TTTTTAATGT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 3 0.14
15 16 0.76
16 2 0.10
ACGTcount: A:0.08, C:0.05, G:0.18, T:0.69
Consensus pattern (15 bp):
TTATTGTTGCTGTTT
Found at i:69701 original size:36 final size:36
Alignment explanation
Indices: 69656--69743 Score: 113
Period size: 36 Copynumber: 2.4 Consensus size: 36
69646 GCTATTGTCG
** *
69656 TGTTATTTTTGCTGTTATTTTTGTTGCTGTTTTTAT
1 TGTTATTTTTAATGTTATTTTTGCTGCTGTTTTTAT
* **
69692 TGTTGTTTTTAATGTTATTTTTGCTGCTGTTTTGGT
1 TGTTATTTTTAATGTTATTTTTGCTGCTGTTTTTAT
*
69728 TGTTATTTTTATTGTT
1 TGTTATTTTTAATGTT
69744 TGGATGTTAT
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 44 1.00
ACGTcount: A:0.09, C:0.05, G:0.18, T:0.68
Consensus pattern (36 bp):
TGTTATTTTTAATGTTATTTTTGCTGCTGTTTTTAT
Found at i:69960 original size:49 final size:47
Alignment explanation
Indices: 69867--69961 Score: 120
Period size: 49 Copynumber: 2.0 Consensus size: 47
69857 TATCTTAATA
* * *
69867 TAATTTTTTAATGTATTTTAAATTTATTTATTTTTTAATGTTTGTTT
1 TAATTTTTTAATGTATTTGAAATTTATATATTTTTTAATATTTGTTT
*
69914 TAATGTTTTTAAGTGTATTTGATATATTATATATTTTTTAA-ATTTGTT
1 TAAT-TTTTTAA-TGTATTTGAAAT-TTATATATTTTTTAATATTTGTT
69962 GTATGTAATA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
47 4 0.10
48 7 0.17
49 16 0.39
50 14 0.34
ACGTcount: A:0.27, C:0.00, G:0.08, T:0.64
Consensus pattern (47 bp):
TAATTTTTTAATGTATTTGAAATTTATATATTTTTTAATATTTGTTT
Found at i:70389 original size:59 final size:59
Alignment explanation
Indices: 70297--70413 Score: 225
Period size: 59 Copynumber: 2.0 Consensus size: 59
70287 TGAATTCAAC
*
70297 CTCTTCATAAATGCAAATACTTTAATTTAACTTTGAATATTGGAATGAAAACGTTTAAT
1 CTCTTCATAAATACAAATACTTTAATTTAACTTTGAATATTGGAATGAAAACGTTTAAT
70356 CTCTTCATAAATACAAATACTTTAATTTAACTTTGAATATTGGAATGAAAACGTTTAA
1 CTCTTCATAAATACAAATACTTTAATTTAACTTTGAATATTGGAATGAAAACGTTTAA
70414 GGAGCCCATA
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 57 1.00
ACGTcount: A:0.40, C:0.12, G:0.09, T:0.38
Consensus pattern (59 bp):
CTCTTCATAAATACAAATACTTTAATTTAACTTTGAATATTGGAATGAAAACGTTTAAT
Found at i:72499 original size:25 final size:25
Alignment explanation
Indices: 72466--72516 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
72456 AAACAACCTA
*
72466 AAGGCAGAAGCTTGCAAAAATAGAT
1 AAGGCAGAAGCCTGCAAAAATAGAT
*
72491 AAGGTAGAAGCCTGCAAAAATAGAT
1 AAGGCAGAAGCCTGCAAAAATAGAT
72516 A
1 A
72517 TATCATCTCG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.49, C:0.12, G:0.24, T:0.16
Consensus pattern (25 bp):
AAGGCAGAAGCCTGCAAAAATAGAT
Found at i:74306 original size:48 final size:48
Alignment explanation
Indices: 74230--74333 Score: 199
Period size: 48 Copynumber: 2.1 Consensus size: 48
74220 CAATGAAAAA
74230 AAGGATGTTGTTCATTTTAGAGGTATCGGGTTCGAGCACATGTGTGTGC
1 AAGG-TGTTGTTCATTTTAGAGGTATCGGGTTCGAGCACATGTGTGTGC
74279 AAGGTGTTGTTCATTTTAGAGGTATCGGGTTCGAGCACATGTGTGTGC
1 AAGGTGTTGTTCATTTTAGAGGTATCGGGTTCGAGCACATGTGTGTGC
74327 AAGGTGT
1 AAGGTGT
74334 GTATGTTGTC
Statistics
Matches: 55, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
48 51 0.93
49 4 0.07
ACGTcount: A:0.20, C:0.12, G:0.34, T:0.35
Consensus pattern (48 bp):
AAGGTGTTGTTCATTTTAGAGGTATCGGGTTCGAGCACATGTGTGTGC
Found at i:76333 original size:29 final size:28
Alignment explanation
Indices: 76299--76361 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
76289 AAATGAGACT
*
76299 TTTTGGATACCCGAGGGGTAAAATGGTAA
1 TTTTGGATACCCG-GGGGCAAAATGGTAA
*** *
76328 TTTTGGATTTTCGGGTGCAAAATGGTAA
1 TTTTGGATACCCGGGGGCAAAATGGTAA
76356 TTTTGG
1 TTTTGG
76362 GAAAATTCGA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 19 0.66
29 10 0.34
ACGTcount: A:0.25, C:0.08, G:0.30, T:0.37
Consensus pattern (28 bp):
TTTTGGATACCCGGGGGCAAAATGGTAA
Found at i:76457 original size:87 final size:87
Alignment explanation
Indices: 76312--76583 Score: 218
Period size: 88 Copynumber: 3.1 Consensus size: 87
76302 TGGATACCCG
* * *
76312 AGGGGTAAAATGGTAATTTTGGATTTTCGGGTGCAAAATGGTAATTTTGGGAAAATTCGAGGTTA
1 AGGGGTAAAAGGGTAATTTTGGAGTTTCGGGTGCAAAATGGTAATTTTGGGAAAATTCGAGGGTA
76377 AAAAGGGAATTTTTAGACA-TTT
66 AAAAGGGAATTTTTAGA-AGTTT
* * *
76399 AGGGGTAAAAGGGTAATTTTGAGAGTTTCGAGGT-CGAAAATGG-AGTTTTTGG-ATATTCGAGG
1 AGGGGTAAAAGGGTAATTTTG-GAGTTTCG-GGTGC-AAAATGGTAATTTTGGGAAAATTCGAGG
* * *
76461 GTAAAAATGGATTTTTTTGAAGTTT
63 GTAAAAAGGGAATTTTTAGAAGTTT
* * * * * * **
76486 TGGGGTAAAAATGG-AATTTTTTGAAGTTTTAGGGT-CAAAAATGG-AATTTTTGG-AAGTTTAA
1 AGGGGT-AAAAGGGTAA--TTTTGGAG-TTTCGGGTGC-AAAATGGTAATTTTGGGAAAATTCGA
* * *
76547 GGGTAAAAATGGAATTTTTGGAAGTTC
61 GGGTAAAAAGGGAATTTTTAGAAGTTT
*
76574 GGGGGTAAAA
1 AGGGGTAAAA
76584 TAGAATTTTT
Statistics
Matches: 154, Mismatches: 23, Indels: 16
0.80 0.12 0.08
Matches are distributed among these distances:
86 1 0.01
87 59 0.38
88 75 0.49
89 19 0.12
ACGTcount: A:0.33, C:0.03, G:0.29, T:0.35
Consensus pattern (87 bp):
AGGGGTAAAAGGGTAATTTTGGAGTTTCGGGTGCAAAATGGTAATTTTGGGAAAATTCGAGGGTA
AAAAGGGAATTTTTAGAAGTTT
Found at i:76478 original size:30 final size:29
Alignment explanation
Indices: 76435--76629 Score: 234
Period size: 29 Copynumber: 6.7 Consensus size: 29
76425 TTCGAGGTCG
*
76435 AAAATGGAGTTTTTGGATA-TTCGAGGGTA
1 AAAATGGAATTTTTGGA-AGTTCGAGGGTA
* * *
76464 AAAATGGATTTTTTTGAAGTTTTG-GGGTA
1 AAAATGGAATTTTTGGAAG-TTCGAGGGTA
* **
76493 AAAATGGAATTTTTTGAAGTTTTAGGGTCA
1 AAAATGGAATTTTTGGAAGTTCGAGGGT-A
**
76523 AAAATGGAATTTTTGGAAGTTTAAGGGTA
1 AAAATGGAATTTTTGGAAGTTCGAGGGTA
*
76552 AAAATGGAATTTTTGGAAGTTCGGGGGT-
1 AAAATGGAATTTTTGGAAGTTCGAGGGTA
*
76580 AAAATAGAATTTTTGGAAGTTCGAGGGTA
1 AAAATGGAATTTTTGGAAGTTCGAGGGTA
*
76609 AAAATTGAATTTTTGGAAGTT
1 AAAATGGAATTTTTGGAAGTT
76630 TAGGGACCTT
Statistics
Matches: 148, Mismatches: 13, Indels: 10
0.87 0.08 0.06
Matches are distributed among these distances:
28 30 0.20
29 88 0.59
30 30 0.20
ACGTcount: A:0.33, C:0.02, G:0.28, T:0.37
Consensus pattern (29 bp):
AAAATGGAATTTTTGGAAGTTCGAGGGTA
Found at i:76607 original size:57 final size:58
Alignment explanation
Indices: 76435--76629 Score: 243
Period size: 57 Copynumber: 3.4 Consensus size: 58
76425 TTCGAGGTCG
* * *
76435 AAAATGGAGTTTTTGGATA-TTCGAGGGTAAAAATGGATTTTTTTGAAGTTTTG-GGGTA
1 AAAATGGAATTTTTGGA-AGTTCGAGGGTAAAAATGGAATTTTTGGAAG-TTTGAGGGTA
* ** *
76493 AAAATGGAATTTTTTGAAGTTTTAGGGTCAAAAATGGAATTTTTGGAAGTTTAAGGGTA
1 AAAATGGAATTTTTGGAAGTTCGAGGGT-AAAAATGGAATTTTTGGAAGTTTGAGGGTA
* * *
76552 AAAATGGAATTTTTGGAAGTTCGGGGGT-AAAATAGAATTTTTGGAAGTTCGAGGGTA
1 AAAATGGAATTTTTGGAAGTTCGAGGGTAAAAATGGAATTTTTGGAAGTTTGAGGGTA
*
76609 AAAATTGAATTTTTGGAAGTT
1 AAAATGGAATTTTTGGAAGTT
76630 TAGGGACCTT
Statistics
Matches: 119, Mismatches: 15, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
57 47 0.39
58 25 0.21
59 47 0.39
ACGTcount: A:0.33, C:0.02, G:0.28, T:0.37
Consensus pattern (58 bp):
AAAATGGAATTTTTGGAAGTTCGAGGGTAAAAATGGAATTTTTGGAAGTTTGAGGGTA
Found at i:77107 original size:20 final size:21
Alignment explanation
Indices: 77070--77108 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
77060 TTATAAATAA
*
77070 CATTTTCCACCCGTTTTTTTT
1 CATTTTCCACCCGGTTTTTTT
*
77091 CATTTT-CACCTGGTTTTT
1 CATTTTCCACCCGGTTTTT
77109 AAAAAAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.10, C:0.26, G:0.08, T:0.56
Consensus pattern (21 bp):
CATTTTCCACCCGGTTTTTTT
Done.