Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008974.1 Hibiscus syriacus cultivar Beakdansim tig00112322_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 47767
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.32
Found at i:8596 original size:15 final size:15
Alignment explanation
Indices: 8562--8606 Score: 60
Period size: 14 Copynumber: 3.1 Consensus size: 15
8552 AACAAGTGTC
8562 ATAAAAATTAAAT-T-
1 ATAAAAA-TAAATATA
8576 ATAAAAAT-AATATA
1 ATAAAAATAAATATA
8590 ATAAAAATAAATATA
1 ATAAAAATAAATATA
8605 AT
1 AT
8607 TAATACGGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
12 3 0.11
13 2 0.07
14 15 0.54
15 8 0.29
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
ATAAAAATAAATATA
Found at i:9561 original size:20 final size:20
Alignment explanation
Indices: 9522--9605 Score: 107
Period size: 20 Copynumber: 4.2 Consensus size: 20
9512 AATATATATC
*
9522 TAATAGCACTATAGATAAAA
1 TAATAGCACTATAAATAAAA
9542 TAATAAGCACTATAAA-AAAA
1 TAAT-AGCACTATAAATAAAA
**
9562 TAATAAGCACTATAAATATTA
1 TAAT-AGCACTATAAATAAAA
*
9583 TAATAGCACTAAAAATAAAA
1 TAATAGCACTATAAATAAAA
9603 TAA
1 TAA
9606 AATGAAGTGG
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
20 40 0.71
21 16 0.29
ACGTcount: A:0.60, C:0.10, G:0.06, T:0.25
Consensus pattern (20 bp):
TAATAGCACTATAAATAAAA
Found at i:9586 original size:41 final size:40
Alignment explanation
Indices: 9522--9605 Score: 107
Period size: 41 Copynumber: 2.1 Consensus size: 40
9512 AATATATATC
* *
9522 TAATAGCACTATAGATAAAATAATAAGCACTATAAA-AAAA
1 TAATAGCACTATAAATAAAATAAT-AGCACTAAAAATAAAA
**
9562 TAATAAGCACTATAAATATTATAATAGCACTAAAAATAAAA
1 TAAT-AGCACTATAAATAAAATAATAGCACTAAAAATAAAA
9603 TAA
1 TAA
9606 AATGAAGTGG
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
40 14 0.37
41 24 0.63
ACGTcount: A:0.60, C:0.10, G:0.06, T:0.25
Consensus pattern (40 bp):
TAATAGCACTATAAATAAAATAATAGCACTAAAAATAAAA
Found at i:10198 original size:60 final size:58
Alignment explanation
Indices: 10100--10274 Score: 192
Period size: 60 Copynumber: 3.0 Consensus size: 58
10090 TTTCGGTTAT
* * * * *
10100 GGTGTTATTTTCGTAATTATTTTTAAAAGTGTGTTATTTTCGTATTTATTTTTAAAAAA
1 GGTGTTATTTTCGTAATTAATTTTAAAAG-GTGATATTTTGGTAATTATTATTAAAAAA
* *
10159 GGGTGTTATTTTCGTAATTAATTTTAAAACGGTGATATTTTGGCAATTATTATTAAAACA
1 -GGTGTTATTTTCGTAATTAATTTTAAAA-GGTGATATTTTGGTAATTATTATTAAAAAA
* * * *
10219 -GTGATATTTTGGTAATT-ATTGTTAAAATGGTGCTATTTTGGTAATTATTGTTAAAA
1 GGTGTTATTTTCGTAATTAATT-TTAAAA-GGTGATATTTTGGTAATTATTATTAAAA
10275 TAGTGATAAT
Statistics
Matches: 100, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
57 3 0.03
58 46 0.46
60 50 0.50
61 1 0.01
ACGTcount: A:0.31, C:0.04, G:0.17, T:0.49
Consensus pattern (58 bp):
GGTGTTATTTTCGTAATTAATTTTAAAAGGTGATATTTTGGTAATTATTATTAAAAAA
Found at i:10256 original size:58 final size:56
Alignment explanation
Indices: 10105--10320 Score: 191
Period size: 58 Copynumber: 3.7 Consensus size: 56
10095 GTTATGGTGT
* * * * *
10105 TATTTTCGTAATTATTTTTAAAAGTGTGTTATTTTCGTATTTATTTTTAAAAAAGGGTGT
1 TATTTTCGTAATTA-TTTTAAAAG-GTGATATTTTGGTAATTATTATTAAAAAA--GTGA
* *
10165 TATTTTCGTAATTAATTTTAAAACGGTGATATTTTGGCAATTATTATTAAAACAGTGA
1 TATTTTCGTAATT-ATTTTAAAA-GGTGATATTTTGGTAATTATTATTAAAAAAGTGA
* * * *
10223 TATTTTGGTAATTATTGTTAAAATGGTGCTATTTTGGTAATTATTGTTAAAATAGTGA
1 TATTTTCGTAATTATT-TTAAAA-GGTGATATTTTGGTAATTATTATTAAAAAAGTGA
* * * * **
10281 TAATTTGGTAATTGTTTAAAAATATGATATTTCT-GTAATT
1 TATTTTCGTAATTATTTTAAAAGGTGATATTT-TGGTAATT
10321 TTTTACGTGG
Statistics
Matches: 133, Mismatches: 19, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
56 13 0.10
57 9 0.07
58 65 0.49
60 44 0.33
61 2 0.02
ACGTcount: A:0.32, C:0.04, G:0.15, T:0.49
Consensus pattern (56 bp):
TATTTTCGTAATTATTTTAAAAGGTGATATTTTGGTAATTATTATTAAAAAAGTGA
Found at i:10275 original size:29 final size:29
Alignment explanation
Indices: 10098--10293 Score: 180
Period size: 29 Copynumber: 6.7 Consensus size: 29
10088 ATTTTCGGTT
* * *
10098 ATGGTGTTATTTTCGTAATTATTTTTAAA
1 ATGGTGATATTTTGGTAATTATTGTTAAA
* * * *
10127 A-GTGTGTTATTTTCGTATTTATTTTTAAAAA
1 ATG-GTGATATTTTGGTAATTATTGTT--AAA
* * *
10158 AGGGTGTTATTTTCGTAATTAATT-TTAAA
1 ATGGTGATATTTTGGTAATT-ATTGTTAAA
* * *
10187 ACGGTGATATTTTGGCAATTATTATTAAA
1 ATGGTGATATTTTGGTAATTATTGTTAAA
**
10216 ACAGTGATATTTTGGTAATTATTGTTAAA
1 ATGGTGATATTTTGGTAATTATTGTTAAA
*
10245 ATGGTGCTATTTTGGTAATTATTGTTAAA
1 ATGGTGATATTTTGGTAATTATTGTTAAA
* *
10274 ATAGTGATAATTTGGTAATT
1 ATGGTGATATTTTGGTAATT
10294 GTTTAAAAAT
Statistics
Matches: 146, Mismatches: 15, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
28 4 0.03
29 116 0.79
31 22 0.15
32 4 0.03
ACGTcount: A:0.31, C:0.04, G:0.17, T:0.48
Consensus pattern (29 bp):
ATGGTGATATTTTGGTAATTATTGTTAAA
Found at i:10288 original size:87 final size:88
Alignment explanation
Indices: 10114--10293 Score: 202
Period size: 87 Copynumber: 2.0 Consensus size: 88
10104 TTATTTTCGT
* ** * * * *
10114 AATTATTTTTAAAAGTGTGTTATTTTCGTATTTATTTTTAAAAAAGGGTGTTATTTTCGTAATTA
1 AATTATTATTAAAACAGTGATATTTTCGTAATTATTGTT-AAAAAGGGTGCTATTTTCGTAATTA
* *
10179 ATTTTAAAACGGTGATATTTTGGC
65 ATTTTAAAACAGTGATAATTTGGC
* * *
10203 AATTATTATTAAAACAGTGATATTTTGGTAATTATTGTT-AAAATGGTGCTATTTTGGTAATT-A
1 AATTATTATTAAAACAGTGATATTTTCGTAATTATTGTTAAAAAGGGTGCTATTTTCGTAATTAA
* *
10266 TTGTTAAAATAGTGATAATTTGGT
66 TT-TTAAAACAGTGATAATTTGGC
10290 AATT
1 AATT
10294 GTTTAAAAAT
Statistics
Matches: 76, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
86 3 0.04
87 41 0.54
89 32 0.42
ACGTcount: A:0.33, C:0.03, G:0.16, T:0.48
Consensus pattern (88 bp):
AATTATTATTAAAACAGTGATATTTTCGTAATTATTGTTAAAAAGGGTGCTATTTTCGTAATTAA
TTTTAAAACAGTGATAATTTGGC
Found at i:10308 original size:27 final size:29
Alignment explanation
Indices: 10190--10309 Score: 118
Period size: 29 Copynumber: 4.2 Consensus size: 29
10180 TTTTAAAACG
* * * * *
10190 GTGATATTTTGGCAATTATTATTAAAACA
1 GTGATAATTTGGTAATTATTGTAAAAATA
* * *
10219 GTGATATTTTGGTAATTATTGTTAAAATG
1 GTGATAATTTGGTAATTATTGTAAAAATA
* * *
10248 GTGCTATTTTGGTAATTATTGTTAAAATA
1 GTGATAATTTGGTAATTATTGTAAAAATA
*
10277 GTGATAATTTGGTAATTGTT-TAAAAATA
1 GTGATAATTTGGTAATTATTGTAAAAATA
10305 -TGATA
1 GTGATA
10310 TTTCTGTAAT
Statistics
Matches: 81, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
27 5 0.06
28 7 0.09
29 69 0.85
ACGTcount: A:0.35, C:0.03, G:0.17, T:0.45
Consensus pattern (29 bp):
GTGATAATTTGGTAATTATTGTAAAAATA
Found at i:16957 original size:24 final size:23
Alignment explanation
Indices: 16925--16992 Score: 88
Period size: 24 Copynumber: 3.0 Consensus size: 23
16915 TATATATATC
*
16925 TAATAGCACTATAAATAAAATAA
1 TAATAGCACTACAAATAAAATAA
16948 TAATAAGCACTACAAATAAAATAA
1 TAAT-AGCACTACAAATAAAATAA
16972 T-A-AGCACTA-AGAATAAAATAA
1 TAATAGCACTACA-AATAAAATAA
16993 AATGAAGTGG
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
20 1 0.02
21 17 0.40
23 5 0.12
24 19 0.45
ACGTcount: A:0.62, C:0.10, G:0.06, T:0.22
Consensus pattern (23 bp):
TAATAGCACTACAAATAAAATAA
Found at i:16972 original size:21 final size:21
Alignment explanation
Indices: 16946--16992 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 21
16936 TAAATAAAAT
16946 AATAATAAGCACTACA-AATAA
1 AATAATAAGCACTA-AGAATAA
16967 AATAATAAGCACTAAGAATAA
1 AATAATAAGCACTAAGAATAA
16988 AATAA
1 AATAA
16993 AATGAAGTGG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 1 0.04
21 24 0.96
ACGTcount: A:0.64, C:0.11, G:0.06, T:0.19
Consensus pattern (21 bp):
AATAATAAGCACTAAGAATAA
Found at i:17540 original size:29 final size:29
Alignment explanation
Indices: 17508--17652 Score: 159
Period size: 29 Copynumber: 4.9 Consensus size: 29
17498 TTCGGTTATG
17508 GTGTTATTTTCGTAATTATTTTTAAAAGT
1 GTGTTATTTTCGTAATTATTTTTAAAAGT
* *
17537 GTGTTATTTTCGTATTTATTTTTAAAAAAGG
1 GTGTTATTTTCGTAATTATTTTT--AAAAGT
*
17568 GTGTTATTTTCGTAATTAATTTTAAAACG-
1 GTGTTATTTTCGTAATTATTTTTAAAA-GT
* * *
17597 GTGATATTTTGGTAATTATTGTTAAAA-T
1 GTGTTATTTTCGTAATTATTTTTAAAAGT
* * *
17625 AGTGATATTTTGGTAATTATTGTTAAAA
1 -GTGTTATTTTCGTAATTATTTTTAAAA
17653 CGATGCAATT
Statistics
Matches: 103, Mismatches: 8, Indels: 10
0.85 0.07 0.08
Matches are distributed among these distances:
29 76 0.74
30 1 0.01
31 26 0.25
ACGTcount: A:0.31, C:0.03, G:0.16, T:0.50
Consensus pattern (29 bp):
GTGTTATTTTCGTAATTATTTTTAAAAGT
Found at i:17576 original size:60 final size:59
Alignment explanation
Indices: 17507--17681 Score: 203
Period size: 60 Copynumber: 3.0 Consensus size: 59
17497 TTTCGGTTAT
* * *
17507 GGTGTTATTTTCGTAATTATTTTTAAAA-GTGTGTTATTTTCGTATTTATTTTTAAAAAA
1 GGTGTTATTTTCGTAATTATTTTTAAAACG-GTGATATTTTCGTAATTATTGTTAAAAAA
* * *
17566 GGGTGTTATTTTCGTAATTAATTTTAAAACGGTGATATTTTGGTAATTATTGTTAAAATA
1 -GGTGTTATTTTCGTAATTATTTTTAAAACGGTGATATTTTCGTAATTATTGTTAAAAAA
* * * * *
17626 -GTGATATTTTGGTAATTATTGTTAAAACGATGCA-ATTTTGGTAATTATTGTTAAAA
1 GGTGTTATTTTCGTAATTATTTTTAAAACGGTG-ATATTTTCGTAATTATTGTTAAAA
17682 CAGTGATAAT
Statistics
Matches: 102, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
58 49 0.48
59 1 0.01
60 51 0.50
61 1 0.01
ACGTcount: A:0.31, C:0.03, G:0.17, T:0.49
Consensus pattern (59 bp):
GGTGTTATTTTCGTAATTATTTTTAAAACGGTGATATTTTCGTAATTATTGTTAAAAAA
Found at i:17654 original size:58 final size:57
Alignment explanation
Indices: 17512--17709 Score: 202
Period size: 58 Copynumber: 3.4 Consensus size: 57
17502 GTTATGGTGT
* * * * *
17512 TATTTTCGTAATTATTTTTAAAA-GTGTGTTATTTTCGTATTTATTTTTAAAAAAGGGTGT
1 TATTTTCGTAATTA-TTTTAAAACG-GTGATATTTTGGTAATTATTGTTAAAAAA--GTGA
*
17572 TATTTTCGTAATTAATTTTAAAACGGTGATATTTTGGTAATTATTGTTAAAATAGTGA
1 TATTTTCGTAATT-ATTTTAAAACGGTGATATTTTGGTAATTATTGTTAAAAAAGTGA
* * *
17630 TATTTTGGTAATTATTGTTAAAACGATGCA-ATTTTGGTAATTATTGTTAAAACAGTGA
1 TATTTTCGTAATTATT-TTAAAACGGTG-ATATTTTGGTAATTATTGTTAAAAAAGTGA
* * * *
17688 TAATTTGGTAATTGTTTAAAAA
1 TATTTTCGTAATTATTTTAAAA
17710 AATGATATTT
Statistics
Matches: 122, Mismatches: 12, Indels: 11
0.84 0.08 0.08
Matches are distributed among these distances:
57 8 0.07
58 66 0.54
59 1 0.01
60 45 0.37
61 2 0.02
ACGTcount: A:0.33, C:0.04, G:0.16, T:0.47
Consensus pattern (57 bp):
TATTTTCGTAATTATTTTAAAACGGTGATATTTTGGTAATTATTGTTAAAAAAGTGA
Found at i:17663 original size:29 final size:29
Alignment explanation
Indices: 17572--17700 Score: 158
Period size: 29 Copynumber: 4.4 Consensus size: 29
17562 AAAAGGGTGT
* *
17572 TATTTTCGTAATTAATT-TTAAAACGGTGA
1 TATTTTGGTAATT-ATTGTTAAAACGATGA
*
17601 TATTTTGGTAATTATTGTTAAAA-TAGTGA
1 TATTTTGGTAATTATTGTTAAAACGA-TGA
17630 TATTTTGGTAATTATTGTTAAAACGATGCA
1 TATTTTGGTAATTATTGTTAAAACGATG-A
17660 -ATTTTGGTAATTATTGTTAAAAC-AGTGA
1 TATTTTGGTAATTATTGTTAAAACGA-TGA
*
17688 TAATTTGGTAATT
1 TATTTTGGTAATT
17701 GTTTAAAAAA
Statistics
Matches: 89, Mismatches: 5, Indels: 12
0.84 0.05 0.11
Matches are distributed among these distances:
28 5 0.06
29 82 0.92
30 2 0.02
ACGTcount: A:0.34, C:0.04, G:0.16, T:0.46
Consensus pattern (29 bp):
TATTTTGGTAATTATTGTTAAAACGATGA
Found at i:17719 original size:26 final size:29
Alignment explanation
Indices: 17598--17716 Score: 100
Period size: 29 Copynumber: 4.2 Consensus size: 29
17588 TTTAAAACGG
* * * *
17598 TGATATTTTGGTAATTATTGTTAAAATAG
1 TGATAATTTGGTAATTAGTGTTAAAAAAA
* * **
17627 TGATATTTTGGTAATTATTGTTAAAACGA
1 TGATAATTTGGTAATTAGTGTTAAAAAAA
* * * *
17656 TGCA-ATTTTGGTAATTATTGTTAAAACAG
1 TG-ATAATTTGGTAATTAGTGTTAAAAAAA
17685 TGATAATTTGGTAATT-GT-TTAAAAAAA
1 TGATAATTTGGTAATTAGTGTTAAAAAAA
17712 TGATA
1 TGATA
17717 TTTCTGTAAT
Statistics
Matches: 79, Mismatches: 9, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
27 12 0.15
28 2 0.03
29 64 0.81
30 1 0.01
ACGTcount: A:0.37, C:0.03, G:0.17, T:0.44
Consensus pattern (29 bp):
TGATAATTTGGTAATTAGTGTTAAAAAAA
Found at i:24588 original size:29 final size:29
Alignment explanation
Indices: 24554--24612 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
24544 CCTAAATTAA
24554 TTTGATGTCATTGCTTACATCAATTTAGT
1 TTTGATGTCATTGCTTACATCAATTTAGT
24583 TTTGATGTCATTGCTTACATCAATTTAGT
1 TTTGATGTCATTGCTTACATCAATTTAGT
24612 T
1 T
24613 AGGTGAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.24, C:0.14, G:0.14, T:0.49
Consensus pattern (29 bp):
TTTGATGTCATTGCTTACATCAATTTAGT
Found at i:29274 original size:29 final size:29
Alignment explanation
Indices: 29240--29298 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
29230 CCTAAATTAA
29240 TTTGATGTCATTGCTTACATCAATTTAGT
1 TTTGATGTCATTGCTTACATCAATTTAGT
29269 TTTGATGTCATTGCTTACATCAATTTAGT
1 TTTGATGTCATTGCTTACATCAATTTAGT
29298 T
1 T
29299 AGGTGAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.24, C:0.14, G:0.14, T:0.49
Consensus pattern (29 bp):
TTTGATGTCATTGCTTACATCAATTTAGT
Found at i:35368 original size:35 final size:35
Alignment explanation
Indices: 35329--35403 Score: 114
Period size: 35 Copynumber: 2.1 Consensus size: 35
35319 AAAATACTTT
*
35329 AATTTAGGGTTTATAATATAATTAAAGTATTTTGG
1 AATTTAGGGTTTAGAATATAATTAAAGTATTTTGG
* * *
35364 AATTTAGGGTTTAGAATGTAATTGAAGTGTTTTGG
1 AATTTAGGGTTTAGAATATAATTAAAGTATTTTGG
35399 AATTT
1 AATTT
35404 TGAACATGAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.45
Consensus pattern (35 bp):
AATTTAGGGTTTAGAATATAATTAAAGTATTTTGG
Found at i:37938 original size:3 final size:3
Alignment explanation
Indices: 37930--37967 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
37920 ACTATCATAT
37930 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
37968 TTCTTTAGGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:41498 original size:15 final size:15
Alignment explanation
Indices: 41460--41521 Score: 63
Period size: 15 Copynumber: 4.2 Consensus size: 15
41450 GGATATTTAG
* *
41460 GGGCGGGTGGATG-T
1 GGGCGGGCGGATGCA
*
41474 GGGTGGGCGGATGCA
1 GGGCGGGCGGATGCA
**
41489 GGGCGGGCGGATGTG
1 GGGCGGGCGGATGCA
*
41504 GGGCGGGTGGATGCA
1 GGGCGGGCGGATGCA
41519 GGG
1 GGG
41522 GGTAAGGTCT
Statistics
Matches: 38, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
14 11 0.29
15 27 0.71
ACGTcount: A:0.10, C:0.11, G:0.65, T:0.15
Consensus pattern (15 bp):
GGGCGGGCGGATGCA
Found at i:41502 original size:29 final size:30
Alignment explanation
Indices: 41460--41521 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
41450 GGATATTTAG
* *
41460 GGGCGGGTGGATGT-GGGTGGGCGGATGCA
1 GGGCGGGCGGATGTGGGGCGGGCGGATGCA
*
41489 GGGCGGGCGGATGTGGGGCGGGTGGATGCA
1 GGGCGGGCGGATGTGGGGCGGGCGGATGCA
41519 GGG
1 GGG
41522 GGTAAGGTCT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 13 0.45
30 16 0.55
ACGTcount: A:0.10, C:0.11, G:0.65, T:0.15
Consensus pattern (30 bp):
GGGCGGGCGGATGTGGGGCGGGCGGATGCA
Found at i:43496 original size:21 final size:22
Alignment explanation
Indices: 43472--43512 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
43462 ATTTGGGAGT
* *
43472 TTTTAT-TCTCTTTGTGCTTTA
1 TTTTATATCTATTTGGGCTTTA
43493 TTTTATATCTATTTGGGCTT
1 TTTTATATCTATTTGGGCTT
43513 GTACTAAACT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.12, C:0.12, G:0.12, T:0.63
Consensus pattern (22 bp):
TTTTATATCTATTTGGGCTTTA
Found at i:46654 original size:20 final size:20
Alignment explanation
Indices: 46614--46654 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
46604 GAGGAGAAGA
*
46614 AGAAGAAAAGGAAGAAGAAG
1 AGAAGAAAAGGAAGAAAAAG
46634 AGAAG-AAAGGAAGGAAAAAG
1 AGAAGAAAAGGAA-GAAAAAG
46654 A
1 A
46655 AGTTGCCACA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 7 0.37
20 12 0.63
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (20 bp):
AGAAGAAAAGGAAGAAAAAG
Done.