Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold746
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: 18764
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.32
Found at i:2686 original size:29 final size:29
Alignment explanation
Indices: 2644--3402 Score: 738
Period size: 28 Copynumber: 26.5 Consensus size: 29
2634 GGTTGCGACA
*
2644 CCACTGACTTGTGGGCTTTGAGAAGGATG
1 CCACTGACTTGTGGGCTTTGAAAAGGATG
*
2673 CCACTGACTTGTGGGCTTTGAGAAGGATG
1 CCACTGACTTGTGGGCTTTGAAAAGGATG
* **
2702 CCACAGACTTGTGGGCTTTGAAAAAAATG
1 CCACTGACTTGTGGGCTTTGAAAAGGATG
2731 CCACTGACTTGTGGGCTTTGAAAAGG-TG
1 CCACTGACTTGTGGGCTTTGAAAAGGATG
*
2759 CCACTGACTTGTGGGCTTTG-AAAGGGTG
1 CCACTGACTTGTGGGCTTTGAAAAGGATG
* **
2787 CCACTAACTCATGGGCTTTG-AAAGGATG
1 CCACTGACTTGTGGGCTTTGAAAAGGATG
* *
2815 CCACTGACTTGTGGGCTTTAAAAAGAGTTG
1 CCACTGACTTGTGGGCTTTGAAAAG-GATG
*
2845 CCACTGACTCGTGTGGGCTTTG-AAATGATG
1 CCACTGACT--TGTGGGCTTTGAAAAGGATG
2875 CCACTGACTTGTGTGGGCTTTGAAAAGGATG
1 CCACTGAC-T-TGTGGGCTTTGAAAAGGATG
2906 CCACTGACTTGTGGGCTTTGAAAAGG-TG
1 CCACTGACTTGTGGGCTTTGAAAAGGATG
* *
2934 CCACTGATATGTGTGGGCTTTGAGAAGGATG
1 CCACTGA-CT-TGTGGGCTTTGAAAAGGATG
*
2965 CCACTGACTTGTGGGCTTTGAGAAGGATG
1 CCACTGACTTGTGGGCTTTGAAAAGGATG
* *
2994 CCACCGACTTGTGGGCTTTGAAAAGAATG
1 CCACTGACTTGTGGGCTTTGAAAAGGATG
* *
3023 CCACTAACTTGTGGGCTTTG-AAAGGGTG
1 CCACTGACTTGTGGGCTTTGAAAAGGATG
**
3051 CCACTGACTTACGGGCTTTGAAAAGG-TG
1 CCACTGACTTGTGGGCTTTGAAAAGGATG
* **
3079 CCACTAACTCATGGGCTTT-AAAAGGATG
1 CCACTGACTTGTGGGCTTTGAAAAGGATG
* *
3107 CCATTGACTTGTGGGCTTT-AAAAAGACTTG
1 CCACTGACTTGTGGGCTTTGAAAAGGA--TG
*
3137 CCACCGACTCGTGTGGGCTTTGAAAA-GATG
1 CCACTGACT--TGTGGGCTTTGAAAAGGATG
* *
3167 CCATTGACTTATGGGCTTTGAAAA-GAGTG
1 CCACTGACTTGTGGGCTTTGAAAAGGA-TG
* * *
3196 CCACTAACTTGTGGGC-TT-AGAATGATG
1 CCACTGACTTGTGGGCTTTGAAAAGGATG
* *
3223 CCACTAACTTGTGGGCTTTG-AAATGATG
1 CCACTGACTTGTGGGCTTTGAAAAGGATG
* * *
3251 CCACTAACTTGTGGGCTTTAAAAAGGTGTTG
1 CCACTGACTTGTGGGCTTTGAAAA-G-GATG
* * *
3282 CCACGGAGTTGT-GAC-TT-AAAAGGATG
1 CCACTGACTTGTGGGCTTTGAAAAGGATG
* * * *
3308 CCACAGAGTTGTGGAC-TT-AAAAGAATG
1 CCACTGACTTGTGGGCTTTGAAAAGGATG
* * *
3335 CCA-TAGAGTTGTGGAC-TT-AAAAGGGTG
1 CCACT-GACTTGTGGGCTTTGAAAAGGATG
* * * *
3362 CCACGGAGTTGTGGAC-TT-AAAAGGTTG
1 CCACTGACTTGTGGGCTTTGAAAAGGATG
* *
3389 CCACGGAGTTGTGG
1 CCACTGACTTGTGG
3403 ACTTAAATGG
Statistics
Matches: 637, Mismatches: 66, Indels: 56
0.84 0.09 0.07
Matches are distributed among these distances:
26 14 0.02
27 107 0.17
28 189 0.30
29 188 0.30
30 73 0.11
31 40 0.06
32 22 0.03
33 4 0.01
ACGTcount: A:0.25, C:0.18, G:0.30, T:0.28
Consensus pattern (29 bp):
CCACTGACTTGTGGGCTTTGAAAAGGATG
Found at i:3335 original size:27 final size:27
Alignment explanation
Indices: 3278--3476 Score: 274
Period size: 27 Copynumber: 7.4 Consensus size: 27
3268 TTAAAAAGGT
3278 GTTGCCACGGAGTTGT-GACTTAAAAG
1 GTTGCCACGGAGTTGTGGACTTAAAAG
* *
3304 GATGCCACAGAGTTGTGGACTTAAAAG
1 GTTGCCACGGAGTTGTGGACTTAAAAG
** **
3331 AATGCCATAGAGTTGTGGACTTAAAAG
1 GTTGCCACGGAGTTGTGGACTTAAAAG
*
3358 GGTGCCACGGAGTTGTGGACTTAAAAG
1 GTTGCCACGGAGTTGTGGACTTAAAAG
*
3385 GTTGCCACGGAGTTGTGGACTTAAATG
1 GTTGCCACGGAGTTGTGGACTTAAAAG
**
3412 GTTGCCACGGAGTTGTCTACTTAAAAG
1 GTTGCCACGGAGTTGTGGACTTAAAAG
* *
3439 GTTGCCACGAAGTTGTTGACTTAAAAG
1 GTTGCCACGGAGTTGTGGACTTAAAAG
*
3466 GGTGCCACGGA
1 GTTGCCACGGA
3477 ATCGTGACTT
Statistics
Matches: 154, Mismatches: 18, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
26 14 0.09
27 140 0.91
ACGTcount: A:0.28, C:0.16, G:0.31, T:0.26
Consensus pattern (27 bp):
GTTGCCACGGAGTTGTGGACTTAAAAG
Found at i:12115 original size:18 final size:18
Alignment explanation
Indices: 12092--12150 Score: 70
Period size: 17 Copynumber: 3.4 Consensus size: 18
12082 ATTTATTTAA
12092 AATTTAATTTAAATAAAT
1 AATTTAATTTAAATAAAT
12110 AATTTAATTT--ATAAAT
1 AATTTAATTTAAATAAAT
* *
12126 AAATTTAAATTAAAT-TAT
1 -AATTTAATTTAAATAAAT
12144 AATTTAA
1 AATTTAA
12151 AATTTTTATA
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
16 6 0.17
17 16 0.44
18 12 0.33
19 2 0.06
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
AATTTAATTTAAATAAAT
Found at i:12273 original size:19 final size:19
Alignment explanation
Indices: 12225--12275 Score: 54
Period size: 18 Copynumber: 2.8 Consensus size: 19
12215 ATTTTTTTAA
*
12225 TAAATATAAA-TAAAATAT
1 TAAATTTAAATTAAAATAT
*
12243 TAAATTT-TATTAAAA-AT
1 TAAATTTAAATTAAAATAT
12260 TATAATTTAAATTAAA
1 TA-AATTTAAATTAAA
12276 TTGATATATA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
17 5 0.19
18 16 0.59
19 6 0.22
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
TAAATTTAAATTAAAATAT
Found at i:14795 original size:23 final size:22
Alignment explanation
Indices: 14769--14824 Score: 94
Period size: 22 Copynumber: 2.5 Consensus size: 22
14759 TGGACATGTT
14769 AAAAATGCATGAAACATAATAA
1 AAAAATGCATGAAACATAATAA
*
14791 AAAAACGCATGAAACATAATAAA
1 AAAAATGCATGAAACATAAT-AA
14814 AAAAATGCATG
1 AAAAATGCATG
14825 GTCAAAGGCT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
22 19 0.61
23 12 0.39
ACGTcount: A:0.62, C:0.11, G:0.11, T:0.16
Consensus pattern (22 bp):
AAAAATGCATGAAACATAATAA
Found at i:15422 original size:20 final size:20
Alignment explanation
Indices: 15397--15452 Score: 94
Period size: 20 Copynumber: 2.8 Consensus size: 20
15387 ATTTTAACTA
15397 GATGTATCGATACATTATTC
1 GATGTATCGATACATTATTC
*
15417 GATGTATTGATACATTATTC
1 GATGTATCGATACATTATTC
*
15437 AATGTATCGATACATT
1 GATGTATCGATACATT
15453 TAGGTAAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.32, C:0.12, G:0.14, T:0.41
Consensus pattern (20 bp):
GATGTATCGATACATTATTC
Found at i:15515 original size:20 final size:20
Alignment explanation
Indices: 15468--15542 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
15458 AAAAAGACAT
*
15468 AATGTATCGATACATT-GTA
1 AATGTATCGATACATTCATA
*
15487 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTCATA
* * * *
15508 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCATA
15528 AATGTATCGATACAT
1 AATGTATCGATACAT
15543 CAGGGTATGA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTCATA
Found at i:15536 original size:40 final size:39
Alignment explanation
Indices: 15465--15542 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
15455 GGTAAAAAGA
* *
15465 CATAATGTATCGATACATTGTAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
15504 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
15543 CAGGGTATGA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.35
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:16577 original size:28 final size:28
Alignment explanation
Indices: 16106--17058 Score: 1000
Period size: 32 Copynumber: 32.2 Consensus size: 28
16096 AAAAAAAAAA
* *
16106 AAAGGGTGCCACTAACTTATGTGGGCCTTG
1 AAAGGGTGCCACTGAC-T-TGTGGGCTTTG
** *
16136 AAAAGAATTGCCACCGACTCGTGTGGGCTTTG
1 -AAAG-GGTGCCACTGACT--TGTGGGCTTTG
*
16168 AAATGGGTTGCCACCGACTTGTGTGGGCTTTG
1 AAA-GGG-TGCCACTGAC-T-TGTGGGCTTTG
* *
16200 AAAAGGGTTGCCACCGACTTGTGTGGGCTTTAA
1 -AAAGGG-TGCCACTGAC-T-TGTGGGCTTT-G
*
16233 AAAGGGTTGCCACCGACTTGTGTGGGCTTTG
1 AAAGGG-TGCCACTGAC-T-TGTGGGCTTTG
*
16264 AAATGGGTTGCCACCGACTTGTGTGGGCTTTGG
1 AAA-GGG-TGCCACTGAC-T-TGTGGGCTTT-G
* * *
16297 AATGGGTTGCCACCGACTTGTGTGGGCTTTAA
1 AAAGGG-TGCCACTGAC-T-TGTGGGCTTT-G
*
16329 AAAGGGTTGCCACCGACTTGTGTGGGCTTTG
1 AAAGGG-TGCCACTGAC-T-TGTGGGCTTTG
*
16360 AAAAGGGTTGCCACCGACTTGTGTGGGCTTTG
1 -AAAGGG-TGCCACTGAC-T-TGTGGGCTTTG
*
16392 AAAAGGGTTGCCACCGACTTGTGTGGGCTTTG
1 -AAAGGG-TGCCACTGAC-T-TGTGGGCTTTG
* *
16424 AAAATGGTTGCCACCGACTTGTGTGGGCTTTG
1 -AAA-GGGTGCCACTGAC-T-TGTGGGCTTTG
** * *
16456 AAAGAATGCCACTAAC-TGTGGGCTCTG
1 AAAGGGTGCCACTGACTTGTGGGCTTTG
*
16483 AAAGGGTGCCACTAACTTGTGGGCTTAGCTTTG
1 AAAGGGTGCCACTGACTTGT-GG----GCTTTG
*
16516 AAAGAGTGCCACTGAC-T-TGGGC-TTG
1 AAAGGGTGCCACTGACTTGTGGGCTTTG
*
16541 -AAGGATGCCACTGACTTGTGGGCTTTG
1 AAAGGGTGCCACTGACTTGTGGGCTTTG
*
16568 AAAGGGTGCCACTAACTTGTGGGCTTTG
1 AAAGGGTGCCACTGACTTGTGGGCTTTG
16596 AAAGGAGTGCCACTGACTTGTGGGCTTTG
1 AAAGG-GTGCCACTGACTTGTGGGCTTTG
16625 AAAGGGTGCCACTGACTTGTGGGCTTTG
1 AAAGGGTGCCACTGACTTGTGGGCTTTG
*
16653 AAAAGAGTGCCACTGACTTGTGGGCTTTG
1 -AAAGGGTGCCACTGACTTGTGGGCTTTG
16682 AAAGGGTGCCACTGACTTGTGGGCTTTG
1 AAAGGGTGCCACTGACTTGTGGGCTTTG
*
16710 AAAGGGTGCCACTAACTTGTGGGCTTTG
1 AAAGGGTGCCACTGACTTGTGGGCTTTG
* *
16738 AAAAGAGTGCCACTGATTTGTGGGCTTTG
1 -AAAGGGTGCCACTGACTTGTGGGCTTTG
*
16767 AAAAGAGTGCCACTGACTTGTGGGCTTTG
1 -AAAGGGTGCCACTGACTTGTGGGCTTTG
16796 AAAGGAAGTGCCACTGACTTGTGGGCTTTG
1 AAAGG--GTGCCACTGACTTGTGGGCTTTG
*
16826 AAAGGGTGCCACTGAGTTGTGGGCTTTG
1 AAAGGGTGCCACTGACTTGTGGGCTTTG
16854 AAAGGGTGCCACTGACTTGTGGGCTTTG
1 AAAGGGTGCCACTGACTTGTGGGCTTTG
* *
16882 AAAAGAGTGCCACTGATTTGTGGGCTTTG
1 -AAAGGGTGCCACTGACTTGTGGGCTTTG
*
16911 AAATGAGTGCCACTGACTTGTGGGCTTTG
1 AAA-GGGTGCCACTGACTTGTGGGCTTTG
*
16940 AAAGGGTGCCATTGACTTGTGGGCTTTG
1 AAAGGGTGCCACTGACTTGTGGGCTTTG
16968 AAAGGGTGCCACTGACTTGTGGGCTTTG
1 AAAGGGTGCCACTGACTTGTGGGCTTTG
* *
16996 AAAAGAGTGCCACTGATTTG-GGGCTTTG
1 -AAAGGGTGCCACTGACTTGTGGGCTTTG
*
17024 AAAAGAGTGCCACTGACTTGTGGGCTTTG
1 -AAAGGGTGCCACTGACTTGTGGGCTTTG
17053 AAAGGG
1 AAAGGG
17059 ATGAACATTC
Statistics
Matches: 841, Mismatches: 51, Indels: 63
0.88 0.05 0.07
Matches are distributed among these distances:
24 13 0.02
25 4 0.00
26 7 0.01
27 27 0.03
28 248 0.29
29 187 0.22
30 39 0.05
31 15 0.02
32 273 0.32
33 28 0.03
ACGTcount: A:0.21, C:0.18, G:0.33, T:0.28
Consensus pattern (28 bp):
AAAGGGTGCCACTGACTTGTGGGCTTTG
Found at i:17044 original size:85 final size:86
Alignment explanation
Indices: 16105--17058 Score: 1018
Period size: 85 Copynumber: 10.7 Consensus size: 86
16095 AAAAAAAAAA
* * * *
16105 AAAAGGGTGCCACTAACTTATGTGGGCCTTGAAAAGAATTGCCACCGACTCGTGTGGGCTTTGAA
1 AAAAGGGTGCCACTGA-TT-TGTGGGCTTTGAAAAG-AGTGCCACTGACT--TGTGGGCTTTGAA
*
16170 ATGGGTTGCCACCGACTTGTGTGGGCTTTG
61 A-GGG-TGCCACTGAC-T-TGTGGGCTTTG
* * * *
16200 AAAAGGGTTGCCACCGACTTGTGTGGGCTTTAAAAAGGGTTGCCACCGACTTGTGTGGGCTTTGA
1 AAAAGGG-TGCCACTGA-TT-TGTGGGCTTTGAAAAGAG-TGCCACTGAC-T-TGTGGGCTTTGA
*
16265 AATGGGTTGCCACCGACTTGTGTGGGCTTTG
60 AA-GGG-TGCCACTGAC-T-TGTGGGCTTTG
* * * * * *
16296 GAATGGGTTGCCACCGACTTGTGTGGGCTTTAAAAAGGGTTGCCACCGACTTGTGTGGGCTTTGA
1 AAAAGGG-TGCCACTGA-TT-TGTGGGCTTTGAAAAGAG-TGCCACTGAC-T-TGTGGGCTTTG-
*
16361 AAAGGGTTGCCACCGACTTGTGTGGGCTTTG
59 AAAGGG-TGCCACTGAC-T-TGTGGGCTTTG
* *
16392 AAAAGGGTTGCCACCGACTTGTGTGGGCTTTGAAAATG-GTTGCCACCGACTTGTGTGGGCTTTG
1 AAAAGGG-TGCCACTGA-TT-TGTGGGCTTTGAAAA-GAG-TGCCACTGAC-T-TGTGGGCTTTG
** * *
16456 AAAGAATGCCACTAAC-TGTGGGCTCTG
59 AAAGGGTGCCACTGACTTGTGGGCTTTG
* *
16483 -AAAGGGTGCCACTAACTTGTGGGCTTAGCTTTG-AAAGAGTGCCACTGAC-T-TGGGC-TTG-A
1 AAAAGGGTGCCACTGATTTGT-GG----GCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAA
*
16542 AGGATGCCACTGACTTGTGGGCTTTG
61 AGGGTGCCACTGACTTGTGGGCTTTG
* * *
16568 -AAAGGGTGCCACTAACTTGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAAGGGT
1 AAAAGGGTGCCACTGATTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGT
16632 GCCACTGACTTGTGGGCTTTG
66 GCCACTGACTTGTGGGCTTTG
* * *
16653 AAAAGAGTGCCACTGACTTGTGGGCTTTG-AAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGGT
1 AAAAGGGTGCCACTGATTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGT
*
16717 GCCACTAACTTGTGGGCTTTG
66 GCCACTGACTTGTGGGCTTTG
*
16738 AAAAGAGTGCCACTGATTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGAA
1 AAAAGGGTGCCACTGATTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGG--
16803 GTGCCACTGACTTGTGGGCTTTG
64 GTGCCACTGACTTGTGGGCTTTG
* * *
16826 -AAAGGGTGCCACTGAGTTGTGGGCTTTG-AAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAG
1 AAAAGGGTGCCACTGATTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG-AAAGGG
*
16889 TGCCACTGATTTGTGGGCTTTG
65 TGCCACTGACTTGTGGGCTTTG
* * * * *
16911 AAATGAGTGCCACTGACTTGTGGGCTTTG-AAAGGGTGCCATTGACTTGTGGGCTTTGAAAGGGT
1 AAAAGGGTGCCACTGATTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGT
16975 GCCACTGACTTGTGGGCTTTG
66 GCCACTGACTTGTGGGCTTTG
*
16996 AAAAGAGTGCCACTGATTTG-GGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGG
1 AAAAGGGTGCCACTGATTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGG
17059 ATGAACATTC
Statistics
Matches: 786, Mismatches: 49, Indels: 58
0.88 0.05 0.06
Matches are distributed among these distances:
80 6 0.01
81 15 0.02
82 1 0.00
83 5 0.01
84 26 0.03
85 238 0.30
86 142 0.18
87 34 0.04
88 25 0.03
89 7 0.01
90 16 0.02
91 14 0.02
92 6 0.01
94 8 0.01
95 11 0.01
96 227 0.29
97 5 0.01
ACGTcount: A:0.21, C:0.18, G:0.33, T:0.28
Consensus pattern (86 bp):
AAAAGGGTGCCACTGATTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGT
GCCACTGACTTGTGGGCTTTG
Found at i:18290 original size:1 final size:1
Alignment explanation
Indices: 18286--18344 Score: 55
Period size: 1 Copynumber: 59.0 Consensus size: 1
18276 TTTTTTGCTA
* * * * * * *
18286 TTTTTTCTTTTTTTGTTTTTTGTTTTGTTTTTTTTTGTGTTTTTTTTTGTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
18345 GGGTGTAAAG
Statistics
Matches: 44, Mismatches: 14, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 44 1.00
ACGTcount: A:0.00, C:0.02, G:0.10, T:0.88
Consensus pattern (1 bp):
T
Found at i:18299 original size:22 final size:20
Alignment explanation
Indices: 18286--18341 Score: 67
Period size: 22 Copynumber: 2.7 Consensus size: 20
18276 TTTTTTGCTA
*
18286 TTTTTTCTTTTTTTGTTTTT
1 TTTTTTGTTTTTTTGTTTTT
* *
18306 TGTTTTGTTTTTTTTTGTGTTT
1 T-TTTT-TGTTTTTTTGTTTTT
18328 TTTTTTGTTTTTTT
1 TTTTTTGTTTTTTT
18342 TTTGGGTGTA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
20 9 0.29
21 8 0.26
22 14 0.45
ACGTcount: A:0.00, C:0.02, G:0.11, T:0.88
Consensus pattern (20 bp):
TTTTTTGTTTTTTTGTTTTT
Found at i:18313 original size:12 final size:11
Alignment explanation
Indices: 18293--18345 Score: 81
Period size: 11 Copynumber: 4.7 Consensus size: 11
18283 CTATTTTTTC
18293 TTTTTTTGTTT
1 TTTTTTTGTTT
18304 TTTGTTTTG-TT
1 TTT-TTTTGTTT
18315 TTTTTTTGTGTT
1 TTTTTTTGT-TT
18327 TTTTTTTGTTT
1 TTTTTTTGTTT
18338 TTTTTTTG
1 TTTTTTTG
18346 GGTGTAAAGG
Statistics
Matches: 39, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
10 5 0.13
11 18 0.46
12 16 0.41
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (11 bp):
TTTTTTTGTTT
Done.