Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01013670.1 Kokia drynarioides strain JFW-HI SEQ_128698, 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: 137090
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Warning! 58 characters in sequence are not A, C, G, or T
Found at i:6350 original size:16 final size:17
Alignment explanation
Indices: 6331--6363 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
6321 AGTTATTTGC
6331 TATTCCTTAA-TTAAAT
1 TATTCCTTAATTTAAAT
*
6347 TATTTCTTAATTTAAAT
1 TATTCCTTAATTTAAAT
6364 ACGTTTTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.36, C:0.09, G:0.00, T:0.55
Consensus pattern (17 bp):
TATTCCTTAATTTAAAT
Found at i:13623 original size:17 final size:17
Alignment explanation
Indices: 13601--13639 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
13591 CTCCACCTTG
* *
13601 ACAAGAATTCTCTACGA
1 ACAAGAACTCTCAACGA
13618 ACAAGAACTCTCAACGA
1 ACAAGAACTCTCAACGA
13635 ACAAG
1 ACAAG
13640 TTCTTCACCT
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:0.46, C:0.26, G:0.13, T:0.15
Consensus pattern (17 bp):
ACAAGAACTCTCAACGA
Found at i:28774 original size:3 final size:3
Alignment explanation
Indices: 28766--28795 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
28756 ATATTTCCAT
28766 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
28796 CTGTTTCTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:33225 original size:99 final size:102
Alignment explanation
Indices: 33112--33381 Score: 370
Period size: 99 Copynumber: 2.7 Consensus size: 102
33102 TAAAACATAC
* * * * *
33112 AAATTTTTTTGTGTTGACCATACAATGGTCGACA-CCTCTTTTTGAGAAAAAAAATTGCATTTTT
1 AAATTTTTTGGTGTTGGCCATGCAATGGTCGACACCCCCTGTTTGAGAAAAAAAATTGCATTTTT
*
33176 GGGTGTCGGCCATG-CATTTGAGAAAAAAAAATTT-A
66 GAGTGTCGGCCATGCCATTTGAGAAAAAAAAATTTCA
*
33211 AAATTTTTTGGTGTTGGCCATGCAATGGCCGACACCCCCTGTTTGA-AAAAAAAATTGCATTTTT
1 AAATTTTTTGGTGTTGGCCATGCAATGGTCGACACCCCCTGTTTGAGAAAAAAAATTGCATTTTT
* * ** *
33275 GAGTATCGGCCATGCCCTTTTTGAGAAAAAAATTTCA
66 GAGTGTCGGCCATGCCATTTGAGAAAAAAAAATTTCA
* *
33312 AAATTTTTTGGTGTTGGCAATGCAATGATCGACACCCCCTGTTTGAGAAAAAAAA-TGCATTTTT
1 AAATTTTTTGGTGTTGGCCATGCAATGGTCGACACCCCCTGTTTGAGAAAAAAAATTGCATTTTT
*
33376 GCGTGT
66 GAGTGT
33382 TGGTTATTGC
Statistics
Matches: 150, Mismatches: 17, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
99 60 0.40
100 25 0.17
101 57 0.38
102 8 0.05
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (102 bp):
AAATTTTTTGGTGTTGGCCATGCAATGGTCGACACCCCCTGTTTGAGAAAAAAAATTGCATTTTT
GAGTGTCGGCCATGCCATTTGAGAAAAAAAAATTTCA
Found at i:33384 original size:56 final size:55
Alignment explanation
Indices: 33316--33420 Score: 131
Period size: 56 Copynumber: 1.9 Consensus size: 55
33306 ATTTCAAAAT
* *
33316 TTTTTGGTGTTGG-CAATGCAATGATCGACACCCCCTGTTTGAGAAAAAAAATGCA
1 TTTTTGGTGTTGGTCAATGC-ATGACCAACACCCCCTGTTTGAGAAAAAAAATGCA
* * * *
33371 TTTTTGCGTGTTGGTTATTGCATGGCCAACACCCCCTTTTTGAGAAAAAA
1 TTTTTG-GTGTTGGTCAATGCATGACCAACACCCCCTGTTTGAGAAAAAA
33421 TAATTTCAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
55 6 0.14
56 32 0.76
57 4 0.10
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.32
Consensus pattern (55 bp):
TTTTTGGTGTTGGTCAATGCATGACCAACACCCCCTGTTTGAGAAAAAAAATGCA
Found at i:33463 original size:61 final size:61
Alignment explanation
Indices: 33371--33579 Score: 212
Period size: 61 Copynumber: 3.4 Consensus size: 61
33361 AAAAAATGCA
* *
33371 TTTTTGCGTGTTGGTTATTGC-ATGGCCAACACCCCCTTTT-TGAGAAAAAATAATTTCAAAAT
1 TTTTTG-GTGTTGGTCA-TGCAATGGACAACACCCCCTTTTCTGAGAAAAAA-AATTTCAAAAT
* *
33433 TTTTTGGTGTTGGTCATGCAATGGACAACACCCCTTTTTCTCG-GATAAAAAAATTGT-AAATT
1 TTTTTGGTGTTGGTCATGCAATGGACAACACCCCCTTTTCT-GAGA-AAAAAAATT-TCAAAAT
* * * * * * *
33495 TTTTTTGTGTTAGTCATGAAATGGTCGACACCCCCTTTTCAT-ATAAAAAAATTTTCAAAAT
1 TTTTTGGTGTTGGTCATGCAATGGACAACACCCCCTTTTC-TGAGAAAAAAAATTTCAAAAT
*
33556 TTTTTGTTGTTGGTCATGCAATGG
1 TTTTTGGTGTTGGTCATGCAATGG
33580 CTGACACCAA
Statistics
Matches: 122, Mismatches: 17, Indels: 17
0.78 0.11 0.11
Matches are distributed among these distances:
60 4 0.03
61 58 0.48
62 52 0.43
63 8 0.07
ACGTcount: A:0.28, C:0.16, G:0.17, T:0.39
Consensus pattern (61 bp):
TTTTTGGTGTTGGTCATGCAATGGACAACACCCCCTTTTCTGAGAAAAAAAATTTCAAAAT
Found at i:33556 original size:62 final size:61
Alignment explanation
Indices: 33399--33587 Score: 192
Period size: 62 Copynumber: 3.1 Consensus size: 61
33389 TGCATGGCCA
* * * *
33399 ACACCCCCTTTT-TGAGAAAAAATAATTTCAAAA-TTTTTTGGTGTTGGTCATGCAATGGACA
1 ACACCCCCTTTTCTGATAAAAAA-ATTTTCAAAATTTTTTTTGTGTTGGTCATGCAATGG-CG
* * * *
33460 ACACCCCTTTTTCTCGGATAAAAAAATTGT--AAATTTTTTTTGTGTTAGTCATGAAATGGTCG
1 ACACCCCCTTTTCT--GATAAAAAAATTTTCAAAATTTTTTTTGTGTTGGTCATGCAATGG-CG
*
33522 ACACCCCCTTTTCAT-ATAAAAAAATTTTCAAAATTTTTTGT-TGTTGGTCATGCAATGGCTG
1 ACACCCCCTTTTC-TGATAAAAAAATTTTCAAAATTTTTTTTGTGTTGGTCATGCAATGGC-G
33583 ACACC
1 ACACC
33588 AACTTCCCCT
Statistics
Matches: 106, Mismatches: 14, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
60 13 0.12
61 35 0.33
62 46 0.43
63 4 0.04
64 8 0.08
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.37
Consensus pattern (61 bp):
ACACCCCCTTTTCTGATAAAAAAATTTTCAAAATTTTTTTTGTGTTGGTCATGCAATGGCG
Found at i:37567 original size:86 final size:85
Alignment explanation
Indices: 37334--37644 Score: 423
Period size: 86 Copynumber: 3.6 Consensus size: 85
37324 TAATTTGAAA
* * * * *
37334 ATTAA-TTTAACATTATTTAAAAAAAAAGATTATTATTTTATTACAATTTATATCAAATATTGTG
1 ATTAATTTTAA-A-TATTTAAATAAAAATATTATTATTATATTACAATTTTTATCAAATAATGTG
*
37398 TTAATTTGACAATACATTATTT
64 TTGATTTGACAATACATTATTT
* * *
37420 ATTAAATTTT-TATATTTAAAGT-ACAA-ATTATTATTACATTACAATTTTTATCAAATAATGTG
1 ATT-AATTTTAAATATTTAAA-TAAAAATATTATTATTATATTACAATTTTTATCAAATAATGTG
37482 TTGATTTGACAATACATTATTT
64 TTGATTTGACAATACATTATTT
37504 ATTAATTTTAAATATTTAAATAAAAATTATTATTATTATATTACAATTTTTATCAAATAATGTGT
1 ATTAATTTTAAATATTTAAATAAAAA-TATTATTATTATATTACAATTTTTATCAAATAATGTGT
* *
37569 TGATTTGATAATATATTATTT
65 TGATTTGACAATACATTATTT
* *
37590 ATTAATTTTATATATTTAAATAAAAACTATTATTATTATATTGCAATTTTTATCA
1 ATTAATTTTAAATATTTAAATAAAAA-TATTATTATTATATTACAATTTTTATCA
37645 TATTTTAAAT
Statistics
Matches: 202, Mismatches: 16, Indels: 14
0.87 0.07 0.06
Matches are distributed among these distances:
83 7 0.03
84 68 0.34
85 11 0.05
86 111 0.55
87 2 0.01
88 3 0.01
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.49
Consensus pattern (85 bp):
ATTAATTTTAAATATTTAAATAAAAATATTATTATTATATTACAATTTTTATCAAATAATGTGTT
GATTTGACAATACATTATTT
Found at i:40148 original size:30 final size:30
Alignment explanation
Indices: 40086--40177 Score: 112
Period size: 30 Copynumber: 3.1 Consensus size: 30
40076 TTCGTTTACT
* * * *
40086 TTTTAAATTTAATTTGTAATTTCGTTTTTA
1 TTTTAAATTTAATTTCTAATTTCCTGTATA
*
40116 TTTTAAATTTAATTTCTAGTTTCCTGTATA
1 TTTTAAATTTAATTTCTAATTTCCTGTATA
* **
40146 TTTTAATTTTTTTTTCTAATTTCCTGTATA
1 TTTTAAATTTAATTTCTAATTTCCTGTATA
40176 TT
1 TT
40178 CTAATTATTA
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 53 1.00
ACGTcount: A:0.24, C:0.08, G:0.05, T:0.63
Consensus pattern (30 bp):
TTTTAAATTTAATTTCTAATTTCCTGTATA
Found at i:40181 original size:17 final size:17
Alignment explanation
Indices: 40129--40183 Score: 55
Period size: 17 Copynumber: 3.5 Consensus size: 17
40119 TAAATTTAAT
*
40129 TTCTAGTTTCCTGTATA
1 TTCTAATTTCCTGTATA
* *
40146 TTTTAATTT--T-T-TT
1 TTCTAATTTCCTGTATA
40159 TTCTAATTTCCTGTATA
1 TTCTAATTTCCTGTATA
40176 TTCTAATT
1 TTCTAATT
40184 ATTATTTTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 8
0.69 0.12 0.19
Matches are distributed among these distances:
13 9 0.31
14 1 0.03
15 2 0.07
16 1 0.03
17 16 0.55
ACGTcount: A:0.20, C:0.13, G:0.05, T:0.62
Consensus pattern (17 bp):
TTCTAATTTCCTGTATA
Found at i:40183 original size:30 final size:32
Alignment explanation
Indices: 40128--40192 Score: 98
Period size: 30 Copynumber: 2.1 Consensus size: 32
40118 TTAAATTTAA
* *
40128 TTTCTAGTTTCCTGTATATTTTAATT-TT-TT
1 TTTCTAATTTCCTGTATATTCTAATTATTATT
40158 TTTCTAATTTCCTGTATATTCTAATTATTATT
1 TTTCTAATTTCCTGTATATTCTAATTATTATT
40190 TTT
1 TTT
40193 TTAAAATTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
30 24 0.77
31 2 0.06
32 5 0.16
ACGTcount: A:0.20, C:0.11, G:0.05, T:0.65
Consensus pattern (32 bp):
TTTCTAATTTCCTGTATATTCTAATTATTATT
Found at i:41253 original size:57 final size:58
Alignment explanation
Indices: 41047--41461 Score: 362
Period size: 57 Copynumber: 6.9 Consensus size: 58
41037 TTTACCAAAT
41047 AAAAAGGGGGTGTCGGCCATTGCATGGCCAACACCAAAAAAATTTGCAATTTTTTTATC-C
1 AAAAAGGGGGTGTCGGCCATTGCATGGCCAACACC-AAAAAA-TTGCAATTTTTTT-TCTC
* *
41107 GAAAAAAGGGGATGTCGGCCATTGCATGACCAACACCAAAAAATTTTG-AATTTTTTTTTCTC
1 --AAAAAGGGGGTGTCGGCCATTGCATGGCCAACACCAAAAAA--TTGCAA-TTTTTTTTCTC
* * * *
41169 AAAAAGAGGTTGTC-GACAATGCAATGGCCAACACCAAAAAA-TGCAATTTTTTTTCTC
1 AAAAAGGGGGTGTCGGCCATTGC-ATGGCCAACACCAAAAAATTGCAATTTTTTTTCTC
* * *
41226 AAACAGGGGGTGTCAGCCATTGCATGGCCAACACCAAAAAATTTTG-AAATTTTTTTCTC
1 AAAAAGGGGGTGTCGGCCATTGCATGGCCAACACCAAAAAA--TTGCAATTTTTTTTCTC
* * *
41285 AAAAAGGGGGTGTCGGCCA-TGCAATGGCCTACACCCAAAAA-TGCATTTTTTTTTCTC
1 AAAAAGGGGGTGTCGGCCATTGC-ATGGCCAACACCAAAAAATTGCAATTTTTTTTCTC
* * * * **
41342 AAACAGGGGGTGTCGACTATTGCATGACCAACATAAAATTTTTTTGAAATTAATGCAA-TTTTTT
1 AAAAAGGGGGTGTCGGCCATTGCATGGCCAACACCAAA--------AAA-T--TGCAATTTTTTT
41406 TCTC
55 TCTC
* * * *
41410 AAAAAGGGGGTGTCGACCATTGCATGACCAACACAAAAAAATTG-TATTTTTT
1 AAAAAGGGGGTGTCGGCCATTGCATGGCCAACACCAAAAAATTGCAATTTTTT
41462 ATCTGACAAA
Statistics
Matches: 296, Mismatches: 32, Indels: 55
0.77 0.08 0.14
Matches are distributed among these distances:
56 3 0.01
57 86 0.29
58 14 0.05
59 52 0.18
60 34 0.11
61 10 0.03
62 45 0.15
65 3 0.01
68 45 0.15
69 4 0.01
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.29
Consensus pattern (58 bp):
AAAAAGGGGGTGTCGGCCATTGCATGGCCAACACCAAAAAATTGCAATTTTTTTTCTC
Found at i:41392 original size:116 final size:116
Alignment explanation
Indices: 41010--41374 Score: 429
Period size: 116 Copynumber: 3.1 Consensus size: 116
41000 TGGTGTCGGC
*
41010 CATGACCAACACCAAAAAA-TTT--AATTTTTTAC-CAAATAAAAAGGGGGTGTCGGCCATTGC-
1 CATGACCAACACCAAAAAATTTTGAAATTTTTTTCTC----AAAAAGGGGGTGTCGGCCA-TGCA
* * * *
41070 ATGGCCAACACCAAAAAAATTTGCAATTTTTTTATC-CGAAAAAAGGGGATGTCGGCCATTG
61 ATGGCCAACACC-AAAAAA--TGC-ATTTTTTTTTCTC--AAACAGGGGGTGTCGACCATTG
* * * * *
41131 CATGACCAACACCAAAAAATTTTGAATTTTTTTTTCTCAAAAAGAGGTTGTCGACAATGCAATGG
1 CATGACCAACACCAAAAAATTTTGAA-ATTTTTTTCTCAAAAAGGGGGTGTCGGCCATGCAATGG
*
41196 CCAACACCAAAAAATGCAATTTTTTTTCTCAAACAGGGGGTGTC-AGCCATTG
65 CCAACACCAAAAAATGCATTTTTTTTTCTCAAACAGGGGGTGTCGA-CCATTG
*
41248 CATGGCCAACACCAAAAAATTTTGAAATTTTTTTCTCAAAAAGGGGGTGTCGGCCATGCAATGGC
1 CATGACCAACACCAAAAAATTTTGAAATTTTTTTCTCAAAAAGGGGGTGTCGGCCATGCAATGGC
* * *
41313 CTACACCCAAAAATGCATTTTTTTTTCTCAAACAGGGGGTGTCGACTATTG
66 CAACACCAAAAAATGCATTTTTTTTTCTCAAACAGGGGGTGTCGACCATTG
41364 CATGACCAACA
1 CATGACCAACA
41375 TAAAATTTTT
Statistics
Matches: 213, Mismatches: 22, Indels: 23
0.83 0.09 0.09
Matches are distributed among these distances:
116 89 0.42
117 44 0.21
118 9 0.04
119 4 0.02
121 28 0.13
122 30 0.14
124 1 0.00
125 7 0.03
126 1 0.00
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.27
Consensus pattern (116 bp):
CATGACCAACACCAAAAAATTTTGAAATTTTTTTCTCAAAAAGGGGGTGTCGGCCATGCAATGGC
CAACACCAAAAAATGCATTTTTTTTTCTCAAACAGGGGGTGTCGACCATTG
Found at i:43011 original size:28 final size:30
Alignment explanation
Indices: 42980--43040 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 30
42970 AATAAATAAA
42980 ATTTTAG-TTAAAATGCTAAAA-TTGAGAT
1 ATTTTAGTTTAAAATGCTAAAAGTTGAGAT
** *
43008 ATTTTAGTTTATGATGTTAAAAGTTGAGAT
1 ATTTTAGTTTAAAATGCTAAAAGTTGAGAT
43038 ATT
1 ATT
43041 AAAAGTTAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 7 0.25
29 11 0.39
30 10 0.36
ACGTcount: A:0.38, C:0.02, G:0.16, T:0.44
Consensus pattern (30 bp):
ATTTTAGTTTAAAATGCTAAAAGTTGAGAT
Found at i:43980 original size:23 final size:23
Alignment explanation
Indices: 43937--43980 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
43927 CGAATTTTGC
* *
43937 TAAATCTGGTTATTAATTTAGTG
1 TAAATCTGGTTATCAAATTAGTG
43960 TAAAT-TGGTATATCAAATTAG
1 TAAATCTGGT-TATCAAATTAG
43981 GTTCTTCAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 4 0.22
23 14 0.78
ACGTcount: A:0.36, C:0.05, G:0.16, T:0.43
Consensus pattern (23 bp):
TAAATCTGGTTATCAAATTAGTG
Found at i:48818 original size:6 final size:6
Alignment explanation
Indices: 48807--48855 Score: 82
Period size: 6 Copynumber: 8.3 Consensus size: 6
48797 TTAGTATATC
*
48807 TATTTT TATTTT TATTTT TATTTT TAGTTT TA-TTT TATTTT TATTTT
1 TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT
48854 TA
1 TA
48856 GTTTAATTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
5 5 0.12
6 36 0.88
ACGTcount: A:0.18, C:0.00, G:0.02, T:0.80
Consensus pattern (6 bp):
TATTTT
Found at i:48846 original size:23 final size:24
Alignment explanation
Indices: 48810--48859 Score: 93
Period size: 23 Copynumber: 2.1 Consensus size: 24
48800 GTATATCTAT
48810 TTTTATTTTTATTTTTATTTTTAG
1 TTTTATTTTTATTTTTATTTTTAG
48834 TTTTA-TTTTATTTTTATTTTTAG
1 TTTTATTTTTATTTTTATTTTTAG
48857 TTT
1 TTT
48860 AATTATGCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 21 0.81
24 5 0.19
ACGTcount: A:0.16, C:0.00, G:0.04, T:0.80
Consensus pattern (24 bp):
TTTTATTTTTATTTTTATTTTTAG
Found at i:53340 original size:3 final size:3
Alignment explanation
Indices: 53332--53362 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
53322 TTCAATTTTA
53332 GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT G
1 GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT G
53363 AAGTAGAATC
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:0.00, C:0.00, G:0.68, T:0.32
Consensus pattern (3 bp):
GGT
Found at i:55433 original size:9 final size:9
Alignment explanation
Indices: 55415--55444 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
55405 TGGATTTTAC
*
55415 AATTTAAAT
1 AATTTGAAT
55424 AATTTGAAT
1 AATTTGAAT
55433 AATTTGAAT
1 AATTTGAAT
55442 AAT
1 AAT
55445 AGATTGATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (9 bp):
AATTTGAAT
Found at i:70826 original size:27 final size:26
Alignment explanation
Indices: 70785--70837 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 26
70775 AAAAGATATT
* *
70785 TAAAAAATTATAAAAGATAAAATTAC
1 TAAAAAATTACAAAAGAAAAAATTAC
*
70811 TAAAAAATTTACAAAATAAAAAATTAC
1 TAAAAAA-TTACAAAAGAAAAAATTAC
70838 AAAGTTTATG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 7 0.30
27 16 0.70
ACGTcount: A:0.66, C:0.06, G:0.02, T:0.26
Consensus pattern (26 bp):
TAAAAAATTACAAAAGAAAAAATTAC
Found at i:70837 original size:15 final size:16
Alignment explanation
Indices: 70811--70840 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
70801 ATAAAATTAC
70811 TAAAAAATTTACAAAA
1 TAAAAAATTTACAAAA
70827 TAAAAAA-TTACAAA
1 TAAAAAATTTACAAA
70841 GTTTATGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.70, C:0.07, G:0.00, T:0.23
Consensus pattern (16 bp):
TAAAAAATTTACAAAA
Found at i:71013 original size:15 final size:15
Alignment explanation
Indices: 70956--71013 Score: 52
Period size: 15 Copynumber: 4.1 Consensus size: 15
70946 ATCTCTCTCC
*
70956 AAATTACAAA-ATAT
1 AAATTATAAATATAT
*
70970 AAA--ATAAATATAC
1 AAATTATAAATATAT
70983 AAATTATAAACT-TAT
1 AAATTATAAA-TATAT
*
70998 AAATTATTAATATAT
1 AAATTATAAATATAT
71013 A
1 A
71014 TGTATATATA
Statistics
Matches: 35, Mismatches: 4, Indels: 9
0.73 0.08 0.19
Matches are distributed among these distances:
12 4 0.11
13 6 0.17
14 4 0.11
15 20 0.57
16 1 0.03
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.34
Consensus pattern (15 bp):
AAATTATAAATATAT
Found at i:74990 original size:24 final size:24
Alignment explanation
Indices: 74962--75036 Score: 123
Period size: 24 Copynumber: 3.1 Consensus size: 24
74952 AGAAATAATC
* *
74962 TTTCAGTTAAACTCTATTTATTTG
1 TTTCAATTAAACTCTGTTTATTTG
74986 TTTCAATTAAACTCTGTTTATTTG
1 TTTCAATTAAACTCTGTTTATTTG
*
75010 TTTCAATTAAACTCTGTTTAGTTG
1 TTTCAATTAAACTCTGTTTATTTG
75034 TTT
1 TTT
75037 GATTCAAATT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 48 1.00
ACGTcount: A:0.24, C:0.12, G:0.09, T:0.55
Consensus pattern (24 bp):
TTTCAATTAAACTCTGTTTATTTG
Found at i:77012 original size:24 final size:24
Alignment explanation
Indices: 76984--77058 Score: 116
Period size: 24 Copynumber: 3.1 Consensus size: 24
76974 AGAAATAATC
*
76984 TTTCAGTTAAACTCTGTTTGTTTG
1 TTTCAATTAAACTCTGTTTGTTTG
*
77008 TTTCAATTAAACTCTGTTTATTTG
1 TTTCAATTAAACTCTGTTTGTTTG
77032 TTTCAATTAAACTCTGTTTAG-TTG
1 TTTCAATTAAACTCTGTTT-GTTTG
77056 TTT
1 TTT
77059 GAGTCAAATT
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
24 47 1.00
ACGTcount: A:0.21, C:0.12, G:0.12, T:0.55
Consensus pattern (24 bp):
TTTCAATTAAACTCTGTTTGTTTG
Found at i:77928 original size:17 final size:17
Alignment explanation
Indices: 77903--77961 Score: 66
Period size: 17 Copynumber: 3.4 Consensus size: 17
77893 CCTAGGTAGT
77903 AGAAGAAAAGAAAAAGA
1 AGAAGAAAAGAAAAAGA
* *
77920 AGAATAAAAGCAAAAATGG
1 AGAAGAAAAG-AAAAA-GA
77939 AGAAGAAGAA-AAAAAGA
1 AGAAGAA-AAGAAAAAGA
77956 AGAAGA
1 AGAAGA
77962 GAAAATGAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
17 16 0.46
18 10 0.29
19 7 0.20
20 2 0.06
ACGTcount: A:0.71, C:0.02, G:0.24, T:0.03
Consensus pattern (17 bp):
AGAAGAAAAGAAAAAGA
Found at i:86924 original size:7 final size:7
Alignment explanation
Indices: 86912--86940 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
86902 TAGTCGTCAA
86912 TCCTGAT
1 TCCTGAT
86919 TCCTGAT
1 TCCTGAT
86926 TCCTGAT
1 TCCTGAT
86933 TCCTGAT
1 TCCTGAT
86940 T
1 T
86941 ACAGTGAATC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.14, C:0.28, G:0.14, T:0.45
Consensus pattern (7 bp):
TCCTGAT
Found at i:91623 original size:58 final size:59
Alignment explanation
Indices: 91490--91626 Score: 154
Period size: 58 Copynumber: 2.3 Consensus size: 59
91480 ATTGCACCCG
* * * *
91490 AAAATGTAATTTTTTTTATTCGAGAAAAGAAGGTGTCGGCCATTGCATGGTCAATATAA
1 AAAATGTAATTTTTTTTATTCGAGAAAAGAACGTGTCGACCATTGCATGGCCAACATAA
* ** *
91549 AAAATTTTAAAATTTTTT-TTCTGA-AAAAG-ACGTGTCGACCATTGCATGGCCAACACTCA
1 AAAA-TGTAATTTTTTTTATTC-GAGAAAAGAACGTGTCGACCATTGCATGGCCAACA-TAA
91608 AAAATGTAATTTTTTTTAT
1 AAAATGTAATTTTTTTTAT
91627 CAGATAAATA
Statistics
Matches: 63, Mismatches: 11, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
58 32 0.51
59 19 0.30
60 12 0.19
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.36
Consensus pattern (59 bp):
AAAATGTAATTTTTTTTATTCGAGAAAAGAACGTGTCGACCATTGCATGGCCAACATAA
Found at i:92364 original size:11 final size:12
Alignment explanation
Indices: 92341--92376 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
92331 AAAATTTTAA
*
92341 TTTAATAATTAT
1 TTTAATAAGTAT
92353 TTTAATAA-TAT
1 TTTAATAAGTAT
92364 TTTAATAAGTAT
1 TTTAATAAGTAT
92376 T
1 T
92377 AATTTAATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 11 0.48
12 12 0.52
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.56
Consensus pattern (12 bp):
TTTAATAAGTAT
Found at i:93382 original size:58 final size:59
Alignment explanation
Indices: 93205--93440 Score: 245
Period size: 57 Copynumber: 4.0 Consensus size: 59
93195 AAATTGCATT
* * * *
93205 AAATTTCAAAAATTTTTGGTGTTGGTCATGCAATAGCCGACATCCTTTTTTTTGAGAAAAAA
1 AAATTTC-AAATTTTTTGGTGTTGGCCATGCAATGGCCGACA-CCCTTTTTTTGAG-AAAAA
* * * * *
93267 AAAATT-ATATTTTTGGGTGTTGGTCATTGC-ATGGCCGACACCCTCTTTTTGAG--AAA
1 AAATTTCAAATTTTTTGGTGTTGGCCA-TGCAATGGCCGACACCCTTTTTTTGAGAAAAA
93323 AAATTTCAAAATTTTTTGGTGTTGGCCATGC-ATGGCCGACACCCTTTTTTTGAGAAAAA
1 AAATTTC-AAATTTTTTGGTGTTGGCCATGCAATGGCCGACACCCTTTTTTTGAGAAAAA
* * *
93382 AAATTTGC--ATTTTTTGGTGTTGGCTATGCAATGACCGACACCAC-ATTTTTGAGAAAAA
1 AAATTT-CAAATTTTTTGGTGTTGGCCATGCAATGGCCGACACC-CTTTTTTTGAGAAAAA
93440 A
1 A
93441 TTGCATTTTG
Statistics
Matches: 151, Mismatches: 15, Indels: 20
0.81 0.08 0.11
Matches are distributed among these distances:
56 8 0.05
57 45 0.30
58 42 0.28
59 21 0.14
60 27 0.18
61 3 0.02
62 5 0.03
ACGTcount: A:0.30, C:0.15, G:0.19, T:0.36
Consensus pattern (59 bp):
AAATTTCAAATTTTTTGGTGTTGGCCATGCAATGGCCGACACCCTTTTTTTGAGAAAAA
Found at i:93432 original size:115 final size:118
Alignment explanation
Indices: 93205--93442 Score: 317
Period size: 115 Copynumber: 2.0 Consensus size: 118
93195 AAATTGCATT
* *
93205 AAATTTCAAAAATTTTTGGTGTTGGTCATGCAATAGCCGACATCCTTTTTTTTGAGAAAAAAAAA
1 AAATTTCAAAAATTTTTGGTGTTGGCCATGCAATAGCCGACATCCCTTTTTTTGAGAAAAAAAAA
* * *
93270 ATTATATTTTTGGGTGTTGGTCATTGCATGGCCGACACCCTCTTTTTGAGAAA
66 ATTACATTTTTGGGTGTTGGTCATTGCATGACCGACACCCTATTTTTGAGAAA
* *
93323 AAATTTCAAAATTTTTTGGTGTTGGCCATGC-ATGGCCGACA-CCCTTTTTTTGAG-AAAAAAAA
1 AAATTTCAAAAATTTTTGGTGTTGGCCATGCAATAGCCGACATCCCTTTTTTTGAGAAAAAAAAA
* * *
93385 TTTGCATTTTTTGGTGTTGG-C-TATGCAATGACCGACACCAC-ATTTTTGAGAAA
66 ATTACATTTTTGGGTGTTGGTCAT-TGC-ATGACCGACACC-CTATTTTTGAGAAA
93438 AAATT
1 AAATT
93443 GCATTTTGAC
Statistics
Matches: 107, Mismatches: 10, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
113 1 0.01
114 4 0.04
115 51 0.48
116 13 0.12
117 9 0.08
118 29 0.27
ACGTcount: A:0.30, C:0.15, G:0.18, T:0.37
Consensus pattern (118 bp):
AAATTTCAAAAATTTTTGGTGTTGGCCATGCAATAGCCGACATCCCTTTTTTTGAGAAAAAAAAA
ATTACATTTTTGGGTGTTGGTCATTGCATGACCGACACCCTATTTTTGAGAAA
Found at i:94698 original size:6 final size:6
Alignment explanation
Indices: 94687--94716 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
94677 AGGAGAGAAG
*
94687 TTTACT TTTACT TTTGCT TTTACT TTTACT
1 TTTACT TTTACT TTTACT TTTACT TTTACT
94717 GTGTCTTCCT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.13, C:0.17, G:0.03, T:0.67
Consensus pattern (6 bp):
TTTACT
Found at i:98084 original size:21 final size:21
Alignment explanation
Indices: 98043--98084 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
98033 ACTTCTACCG
* *
98043 ATACAAGCATTCTAAATACTA
1 ATACAAACATTCTAAAAACTA
98064 ATACAAACATTC-ACAAAACTA
1 ATACAAACATTCTA-AAAACTA
98085 CCAAAACTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.52, C:0.21, G:0.02, T:0.24
Consensus pattern (21 bp):
ATACAAACATTCTAAAAACTA
Found at i:98778 original size:40 final size:43
Alignment explanation
Indices: 98734--98839 Score: 164
Period size: 40 Copynumber: 2.5 Consensus size: 43
98724 ACACTCATTT
* *
98734 TGAGACATGAGTCTTCCTTTAATAT-AA-TCTCATTCTC-ATC
1 TGAGACATGAGTCTTCCTTTAATATAAATTCTCATGCTCAACC
98774 TGAGACATGAGTCTTCCTTTAATATAAATTCTCATGCTCAACC
1 TGAGACATGAGTCTTCCTTTAATATAAATTCTCATGCTCAACC
98817 TGAGACATGAGTCTTCCATTTAA
1 TGAGACATGAGTCTTCC-TTTAA
98840 ATATCGAGTT
Statistics
Matches: 60, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
40 25 0.42
41 2 0.03
42 9 0.15
43 19 0.32
44 5 0.08
ACGTcount: A:0.29, C:0.22, G:0.12, T:0.37
Consensus pattern (43 bp):
TGAGACATGAGTCTTCCTTTAATATAAATTCTCATGCTCAACC
Found at i:100904 original size:105 final size:104
Alignment explanation
Indices: 100760--100949 Score: 283
Period size: 105 Copynumber: 1.8 Consensus size: 104
100750 AATCCTCGAG
* * * **
100760 AGATTTATATACTCACGATGACATAGAGTTATCGAACCTCTTAATCCGTAAAGGATCCATATACT
1 AGATTTATATACTCACGATGACAAAGAGTCATCGAACCTCGTAATCCACAAAGGATCCATATACT
*
100825 CACGATGGCACTTAGTCATCAAACCTTTAATTCCATAAA
66 CACGATGACACTTAGTCATCAAACCTTTAATTCCATAAA
* *
100864 AGATTTCATATACTCACGATGACAAAGAGTCATC-AGACCTCGTAATCCACAAAGGATTCATTTA
1 AGATTT-ATATACTCACGATGACAAAGAGTCATCGA-ACCTCGTAATCCACAAAGGATCCATATA
100928 CTCACGATGACACTTAGTCATC
64 CTCACGATGACACTTAGTCATC
100950 GGACCCTTTT
Statistics
Matches: 76, Mismatches: 8, Indels: 3
0.87 0.09 0.03
Matches are distributed among these distances:
104 7 0.09
105 69 0.91
ACGTcount: A:0.35, C:0.23, G:0.13, T:0.28
Consensus pattern (104 bp):
AGATTTATATACTCACGATGACAAAGAGTCATCGAACCTCGTAATCCACAAAGGATCCATATACT
CACGATGACACTTAGTCATCAAACCTTTAATTCCATAAA
Found at i:100947 original size:52 final size:52
Alignment explanation
Indices: 100710--100954 Score: 196
Period size: 52 Copynumber: 4.7 Consensus size: 52
100700 ATTTCACTTC
* * * * **
100710 ATTCATATACTCACAATGACACAT-AGACACCGGACCT-TATAATCC-TCGAGAG
1 ATTCATATACTCACGATGACAC-TGAGTCATCAGACCTCT-TAATCCATAAAG-G
* * *
100762 ATTTATATACTCACGATGACA-TAGAGTTATC-GAACCTCTTAATCCGTAAAGG
1 ATTCATATACTCACGATGACACT-GAGTCATCAG-ACCTCTTAATCCATAAAGG
* * * * *
100814 ATCCATATACTCACGATGGCACTTAGTCATCAAACCT-TTAATTCCATAAAAG
1 ATTCATATACTCACGATGACACTGAGTCATCAGACCTCTTAA-TCCATAAAGG
** * *
100866 ATTTCATATACTCACGATGACAAAGAGTCATCAGACCTCGTAATCCACAAAGG
1 A-TTCATATACTCACGATGACACTGAGTCATCAGACCTCTTAATCCATAAAGG
* * *
100919 ATTCATTTACTCACGATGACACTTAGTCATCGGACC
1 ATTCATATACTCACGATGACACTGAGTCATCAGACC
100955 CTTTTTCGTT
Statistics
Matches: 154, Mismatches: 29, Indels: 20
0.76 0.14 0.10
Matches are distributed among these distances:
50 1 0.01
51 5 0.03
52 101 0.66
53 44 0.29
54 3 0.02
ACGTcount: A:0.35, C:0.24, G:0.13, T:0.27
Consensus pattern (52 bp):
ATTCATATACTCACGATGACACTGAGTCATCAGACCTCTTAATCCATAAAGG
Found at i:102723 original size:23 final size:23
Alignment explanation
Indices: 102693--102742 Score: 93
Period size: 23 Copynumber: 2.2 Consensus size: 23
102683 AGTTGAAGGA
102693 GTGG-GTATTATGTGGTTACATT
1 GTGGTGTATTATGTGGTTACATT
102715 GTGGTGTATTATGTGGTTACATT
1 GTGGTGTATTATGTGGTTACATT
102738 GTGGT
1 GTGGT
102743 CACTAGTTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 4 0.15
23 23 0.85
ACGTcount: A:0.16, C:0.04, G:0.34, T:0.46
Consensus pattern (23 bp):
GTGGTGTATTATGTGGTTACATT
Found at i:105783 original size:3 final size:3
Alignment explanation
Indices: 105775--105810 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
105765 GTTTGTGAGC
105775 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
105811 TACGAACTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:106294 original size:13 final size:13
Alignment explanation
Indices: 106276--106300 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
106266 TTTGTATGAG
106276 TTTTTATTTTTTA
1 TTTTTATTTTTTA
106289 TTTTTATTTTTT
1 TTTTTATTTTTT
106301 GTATTTTTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTTATTTTTTA
Found at i:108263 original size:4 final size:4
Alignment explanation
Indices: 108254--108279 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
108244 AATGGAATTG
108254 AATA AATA AATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AA
108280 AAAGGGAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:112066 original size:2 final size:2
Alignment explanation
Indices: 112059--112100 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
112049 AGTGTACAAA
112059 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
112101 TTGACGTACA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:112400 original size:6 final size:6
Alignment explanation
Indices: 112386--112418 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
112376 TCTCTCCAAC
*
112386 CCCATT CCCACT CCCACT CCCACT CCCACT CCC
1 CCCACT CCCACT CCCACT CCCACT CCCACT CCC
112419 TCCATTACAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.15, C:0.67, G:0.00, T:0.18
Consensus pattern (6 bp):
CCCACT
Found at i:113273 original size:83 final size:84
Alignment explanation
Indices: 113185--113357 Score: 339
Period size: 83 Copynumber: 2.1 Consensus size: 84
113175 AATAAATTAA
113185 TATATACGAAAATATTTTGAATTTATGTTTATTTAGTATTTATATAGTTGATACTTGAAAACAAT
1 TATATACGAAAATATTTTGAATTTATGTTTATTTAGTATTTATATAGTTGATACTTGAAAACAAT
113250 AAATTAATTTGATA-TTTT
66 AAATTAATTTGATATTTTT
113268 TATATACGAAAATATTTTGAATTTATGTTTATTTAGTATTTATATAGTTGATACTTGAAAACAAT
1 TATATACGAAAATATTTTGAATTTATGTTTATTTAGTATTTATATAGTTGATACTTGAAAACAAT
113333 AAATTAATTTGATATTTTT
66 AAATTAATTTGATATTTTT
113352 TATATA
1 TATATA
113358 TCTAATTAAC
Statistics
Matches: 89, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
83 79 0.89
84 10 0.11
ACGTcount: A:0.39, C:0.03, G:0.09, T:0.49
Consensus pattern (84 bp):
TATATACGAAAATATTTTGAATTTATGTTTATTTAGTATTTATATAGTTGATACTTGAAAACAAT
AAATTAATTTGATATTTTT
Found at i:113473 original size:59 final size:59
Alignment explanation
Indices: 113391--113503 Score: 165
Period size: 59 Copynumber: 1.9 Consensus size: 59
113381 ACTACATCTG
*
113391 TTGATATTAATATCACGTTAATTTATTTTAACAGTATTACA-TAAATTAAAAAAATTAAA
1 TTGATATTAATATCACGTCAATTTATTTTAACAGTATTA-AGTAAATTAAAAAAATTAAA
* * * *
113450 TTGATGTTAATTTCATGTCAATTTATTTTAATAGTATTAAGTAAATTAAAAAAA
1 TTGATATTAATATCACGTCAATTTATTTTAACAGTATTAAGTAAATTAAAAAAA
113504 ACCAAATTGA
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
58 1 0.02
59 47 0.98
ACGTcount: A:0.45, C:0.05, G:0.07, T:0.42
Consensus pattern (59 bp):
TTGATATTAATATCACGTCAATTTATTTTAACAGTATTAAGTAAATTAAAAAAATTAAA
Found at i:126246 original size:2 final size:2
Alignment explanation
Indices: 126234--126263 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
126224 CCCTAACCCC
*
126234 TA TA GA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
126264 ACATGGTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
TA
Found at i:130216 original size:7 final size:7
Alignment explanation
Indices: 130206--130239 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
130196 CCTAACCCTG
130206 ACTCTTC
1 ACTCTTC
130213 ACTCTTC
1 ACTCTTC
130220 ACTCTTC
1 ACTCTTC
130227 ACTCTTC
1 ACTCTTC
130234 ACTCTT
1 ACTCTT
130240 GTTTATTGCG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.15, C:0.41, G:0.00, T:0.44
Consensus pattern (7 bp):
ACTCTTC
Found at i:130664 original size:14 final size:15
Alignment explanation
Indices: 130639--130667 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
130629 TATGTATGTA
130639 TTTTAAACTTATAAT
1 TTTTAAACTTATAAT
130654 TTTTAAA-TTATAAT
1 TTTTAAACTTATAAT
130668 GAAAAATATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.55
Consensus pattern (15 bp):
TTTTAAACTTATAAT
Done.