Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01011513.1 Kokia drynarioides strain JFW-HI SEQ_126498, 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: 30650
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Found at i:1525 original size:25 final size:24
Alignment explanation
Indices: 1474--1522 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
1464 CATATATATG
*
1474 GGTAATTAATTAAAAATAAAGGTT
1 GGTAATTAATTAAAAATAAACGTT
*
1498 GGTAATTAAATTAAAATATTAACGT
1 GGTAATT-AATTAAAA-ATAAACGT
1523 GGTTTGATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 7 0.33
25 8 0.38
26 6 0.29
ACGTcount: A:0.49, C:0.02, G:0.14, T:0.35
Consensus pattern (24 bp):
GGTAATTAATTAAAAATAAACGTT
Found at i:2620 original size:22 final size:23
Alignment explanation
Indices: 2575--2617 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
2565 AAATTTTAAT
2575 AATAAAAATAGATGATTTTTTTA
1 AATAAAAATAGATGATTTTTTTA
2598 AATAAAAATA-AT-ATTTTTTT
1 AATAAAAATAGATGATTTTTTT
2618 TAATGTAATG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 8 0.40
22 2 0.10
23 10 0.50
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.47
Consensus pattern (23 bp):
AATAAAAATAGATGATTTTTTTA
Found at i:2830 original size:2 final size:2
Alignment explanation
Indices: 2823--2850 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
2813 AATAATAATA
2823 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2851 TTGGTGTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7053 original size:20 final size:21
Alignment explanation
Indices: 7028--7067 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
7018 AAAACGCATA
*
7028 AAAATAACATCC-AAACAACC
1 AAAATAACAACCAAAACAACC
7048 AAAATAACAACCAAAACAAC
1 AAAATAACAACCAAAACAAC
7068 AGAAAAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.65, C:0.28, G:0.00, T:0.07
Consensus pattern (21 bp):
AAAATAACAACCAAAACAACC
Found at i:7151 original size:22 final size:21
Alignment explanation
Indices: 7126--7188 Score: 81
Period size: 22 Copynumber: 2.9 Consensus size: 21
7116 CAAAATAGTA
7126 AAAAAATTAGCACAAAAACAGC
1 AAAAAA-TAGCACAAAAACAGC
*
7148 AAAAAATAGTAACAAAAACAGC
1 AAAAAATAG-CACAAAAACAGC
* *
7170 AAAAAAGAGCACCAAAACA
1 AAAAAATAGCACAAAAACA
7189 ACAATATAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
21 11 0.31
22 25 0.69
ACGTcount: A:0.67, C:0.17, G:0.10, T:0.06
Consensus pattern (21 bp):
AAAAAATAGCACAAAAACAGC
Found at i:14743 original size:7 final size:7
Alignment explanation
Indices: 14708--14782 Score: 60
Period size: 7 Copynumber: 10.7 Consensus size: 7
14698 TTTCACATCG
*
14708 AATTCTA
1 AATTTTA
*
14715 AATTTCA
1 AATTTTA
* *
14722 AATCTTG
1 AATTTTA
*
14729 AATATTA
1 AATTTTA
14736 AATTTTA
1 AATTTTA
*
14743 AAATTTA
1 AATTTTA
* *
14750 AATCTCA
1 AATTTTA
*
14757 AACTTTA
1 AATTTTA
14764 AATTTTA
1 AATTTTA
*
14771 AAATTTA
1 AATTTTA
14778 AATTT
1 AATTT
14783 ATTTAGGGTT
Statistics
Matches: 50, Mismatches: 18, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
7 50 1.00
ACGTcount: A:0.45, C:0.08, G:0.01, T:0.45
Consensus pattern (7 bp):
AATTTTA
Found at i:14750 original size:14 final size:14
Alignment explanation
Indices: 14733--14782 Score: 73
Period size: 14 Copynumber: 3.6 Consensus size: 14
14723 ATCTTGAATA
14733 TTAAATTTTAAAAT
1 TTAAATTTTAAAAT
* * *
14747 TTAAATCTCAAACT
1 TTAAATTTTAAAAT
14761 TTAAATTTTAAAAT
1 TTAAATTTTAAAAT
14775 TTAAATTT
1 TTAAATTT
14783 ATTTAGGGTT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
14 30 1.00
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.48
Consensus pattern (14 bp):
TTAAATTTTAAAAT
Found at i:15321 original size:18 final size:18
Alignment explanation
Indices: 15298--15332 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
15288 ATATAGTTTA
15298 ATTTTAATATTAAATTTT
1 ATTTTAATATTAAATTTT
*
15316 ATTTTAATATTTAATTT
1 ATTTTAATATTAAATTT
15333 GATATCTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (18 bp):
ATTTTAATATTAAATTTT
Found at i:19687 original size:12 final size:12
Alignment explanation
Indices: 19670--19717 Score: 51
Period size: 12 Copynumber: 3.7 Consensus size: 12
19660 TATTTGTGTA
19670 AAAATTAATTTG
1 AAAATTAATTTG
19682 AAAATTAATTTAAG
1 AAAATTAATTT--G
*
19696 TTGAAATTAATTTG
1 --AAAATTAATTTG
19710 AAAATTAA
1 AAAATTAA
19718 GGTATATGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
12 18 0.60
14 2 0.07
16 10 0.33
ACGTcount: A:0.52, C:0.00, G:0.08, T:0.40
Consensus pattern (12 bp):
AAAATTAATTTG
Found at i:19983 original size:84 final size:84
Alignment explanation
Indices: 19822--20958 Score: 1607
Period size: 84 Copynumber: 13.6 Consensus size: 84
19812 ATTTAAAATT
* *
19822 AATTTAACATTATTTAAATAAAAAAGATTATTATTATATTTCAATTTATATCAAAT-A----TT-
1 AATTTAA-A-TATTTAAAT-AAAAA-ATTATTATTATATTACAATTTTTATCAAATAATGTGTTG
* *
19881 ATTTGACAATATATTATTTATTA
62 ATTTGACAATACATTATTTACTA
* *
19904 AATTCAAATATTTAAATTAAAAATTATTATTATATTACAATTTTTATCAAATAATGTGTTGATTT
1 AATTTAAATATTTAAATAAAAAATTATTATTATATTACAATTTTTATCAAATAATGTGTTGATTT
* *
19969 GACAATATATTATTTATTA
66 GACAATACATTATTTACTA
* * *
19988 AATTCAAATATTTAAATTAAAAATTATTATTATATTACAATTTTTATCAAATAATATGTTGATTT
1 AATTTAAATATTTAAATAAAAAATTATTATTATATTACAATTTTTATCAAATAATGTGTTGATTT
*
20053 GACAATACATTATTTATTA
66 GACAATACATTATTTACTA
* *
20072 AATTTTAAA-ATGTAAATAAAAAATTATTATTATATTACAATTTTTATCAAATAATGTGTTCATT
1 AA-TTTAAATATTTAAATAAAAAATTATTATTATATTACAATTTTTATCAAATAATGTGTTGATT
*
20136 TGACAATACATTATTTAGTA
65 TGACAATACATTATTTACTA
* *
20156 AATTTGAATATTTAAATAAAAAATTATTATTATAGTACAATTTTTATCAAATAATGTGTTGATTT
1 AATTTAAATATTTAAATAAAAAATTATTATTATATTACAATTTTTATCAAATAATGTGTTGATTT
20221 GACAATACATTATTTACTA
66 GACAATACATTATTTACTA
* * *
20240 AATTTTAATATTTAAATTAAAAATTATTATTATATTATAATTTTTATCAAATAATGTGTTGATTT
1 AATTTAAATATTTAAATAAAAAATTATTATTATATTACAATTTTTATCAAATAATGTGTTGATTT
20305 GACAATACAATT-TTTACTA
66 GACAATAC-ATTATTTACTA
* * *
20324 AATTTAAATATTTAAATATATAATTATTATTATATTACAATTTTTATCAAATAACGTGTTGATTT
1 AATTTAAATATTTAAATAAAAAATTATTATTATATTACAATTTTTATCAAATAATGTGTTGATTT
**
20389 GATGATACATTATTTACTA
66 GACAATACATTATTTACTA
* *
20408 AATTTGAATATTTAAATAAAAAATTATTA-TATATTACAATTTTTATAAAATAATGTGTTGATTT
1 AATTTAAATATTTAAATAAAAAATTATTATTATATTACAATTTTTATCAAATAATGTGTTGATTT
* * * *
20472 GAGAATATATTTTTTATTA
66 GACAATACATTATTTACTA
* * * * *
20491 AATTTTAATATGTAAATAAAAAATTATTATTATATTACAATTTTTATTAAAAAATATGTTGATTT
1 AATTTAAATATTTAAATAAAAAATTATTATTATATTACAATTTTTATCAAATAATGTGTTGATTT
20556 GACAATACATTATTTACTA
66 GACAATACATTATTTACTA
* *
20575 AATTTAAATATTTAAAT-AAAAATTATTATTATATTATAATTTTTATCAAATAATGTATTGATTT
1 AATTTAAATATTTAAATAAAAAATTATTATTATATTACAATTTTTATCAAATAATGTGTTGATTT
* *
20639 AACAATACATTATTTATTA
66 GACAATACATTATTTACTA
** *
20658 AATTTTCATATTTAAATAAAAAATTATTATTATATTACAATTTTTATTAAATAATGTGTTGATTT
1 AATTTAAATATTTAAATAAAAAATTATTATTATATTACAATTTTTATCAAATAATGTGTTGATTT
*
20723 GACAATACATTATTCACTA
66 GACAATACATTATTTACTA
* * * * *
20742 AATTTGAATATTTAAAT-AAAAA--AGTATTATATTACAATTTTTATAAAATAATTTATTGATTT
1 AATTTAAATATTTAAATAAAAAATTATTATTATATTACAATTTTTATCAAATAATGTGTTGATTT
* * *
20804 GATAATATATTATTTATTA
66 GACAATACATTATTTACTA
* * * *
20823 AATTTGAATATTTAAATAAAAAATTATTATTATATTACAATTTTTATCAAATAATATTTTAATTT
1 AATTTAAATATTTAAATAAAAAATTATTATTATATTACAATTTTTATCAAATAATGTGTTGATTT
20888 GACAATACATTATTTACTA
66 GACAATACATTATTTACTA
* *
20907 AATTTTAATATTTAAATAAAAAATTATTATTAAATTACAATTTTTATCAAAT
1 AATTTAAATATTTAAATAAAAAATTATTATTATATTACAATTTTTATCAAAT
20959 TTTAAATTTA
Statistics
Matches: 955, Mismatches: 85, Indels: 28
0.89 0.08 0.03
Matches are distributed among these distances:
78 28 0.03
79 5 0.01
80 9 0.01
81 69 0.07
82 11 0.01
83 163 0.17
84 662 0.69
85 8 0.01
ACGTcount: A:0.44, C:0.05, G:0.04, T:0.47
Consensus pattern (84 bp):
AATTTAAATATTTAAATAAAAAATTATTATTATATTACAATTTTTATCAAATAATGTGTTGATTT
GACAATACATTATTTACTA
Found at i:23397 original size:17 final size:17
Alignment explanation
Indices: 23372--23426 Score: 64
Period size: 17 Copynumber: 3.5 Consensus size: 17
23362 TAAATTTAAT
23372 TTCTAATTTCCTATATA
1 TTCTAATTTCCTATATA
*
23389 TTTTAATTT--TA-AT-
1 TTCTAATTTCCTATATA
*
23402 TTCTAATTTCCTGTATA
1 TTCTAATTTCCTATATA
23419 TTCTAATT
1 TTCTAATT
23427 ATTATTTTTG
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
13 8 0.26
14 2 0.06
15 3 0.10
16 2 0.06
17 16 0.52
ACGTcount: A:0.27, C:0.13, G:0.02, T:0.58
Consensus pattern (17 bp):
TTCTAATTTCCTATATA
Found at i:23426 original size:30 final size:30
Alignment explanation
Indices: 23329--23426 Score: 124
Period size: 30 Copynumber: 3.3 Consensus size: 30
23319 TCCGTTTACT
* * * * *
23329 TTTTAAATTTAATTTGTAATTTCGTTTTTA
1 TTTTAATTTTAATTTCTAATTTCCTATATA
*
23359 TTTTAAATTTAATTTCTAATTTCCTATATA
1 TTTTAATTTTAATTTCTAATTTCCTATATA
*
23389 TTTTAATTTTAATTTCTAATTTCCTGTATA
1 TTTTAATTTTAATTTCTAATTTCCTATATA
*
23419 TTCTAATT
1 TTTTAATT
23427 ATTATTTTTG
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 61 1.00
ACGTcount: A:0.29, C:0.08, G:0.03, T:0.60
Consensus pattern (30 bp):
TTTTAATTTTAATTTCTAATTTCCTATATA
Found at i:24654 original size:15 final size:16
Alignment explanation
Indices: 24634--24663 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
24624 CCACACACTT
24634 GTCTTCTTCT-TTTTC
1 GTCTTCTTCTCTTTTC
24649 GTCTTCTTCTCTTTT
1 GTCTTCTTCTCTTTT
24664 GATTCCAACA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.00, C:0.27, G:0.07, T:0.67
Consensus pattern (16 bp):
GTCTTCTTCTCTTTTC
Found at i:24937 original size:18 final size:16
Alignment explanation
Indices: 24906--24949 Score: 56
Period size: 14 Copynumber: 2.8 Consensus size: 16
24896 AGTTTAGGGT
*
24906 TTAAAAATTTTAATTAA
1 TTAAAAA-TTTATTTAA
24923 TT--AAATTTATTTAA
1 TTAAAAATTTATTTAA
24937 TTAAAAATTTATT
1 TTAAAAATTTATT
24950 CTCATTCCAT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
14 10 0.42
15 3 0.12
16 9 0.38
17 2 0.08
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
TTAAAAATTTATTTAA
Found at i:26370 original size:17 final size:17
Alignment explanation
Indices: 26348--26439 Score: 87
Period size: 17 Copynumber: 5.3 Consensus size: 17
26338 CAAACTCATT
*
26348 TTAAATTTATTTTAGGA
1 TTAAATTTATTTTAAGA
* *
26365 TTAAATTTATTTAAAAA
1 TTAAATTTATTTTAAGA
*
26382 TTTAAATTTATTTTAAGT
1 -TTAAATTTATTTTAAGA
26400 TTAAATTTATTTTCAA-A
1 TTAAATTTATTTT-AAGA
* * *
26417 TTTAAAATTATTATAAAA
1 -TTAAATTTATTTTAAGA
26435 TTAAA
1 TTAAA
26440 ATAAATAAAG
Statistics
Matches: 62, Mismatches: 9, Indels: 8
0.78 0.11 0.10
Matches are distributed among these distances:
17 34 0.55
18 28 0.45
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (17 bp):
TTAAATTTATTTTAAGA
Found at i:26386 original size:35 final size:35
Alignment explanation
Indices: 26347--26439 Score: 123
Period size: 35 Copynumber: 2.7 Consensus size: 35
26337 CCAAACTCAT
*
26347 TTTAAATTTATTTTAGGATTAAATTTATTTAAAAA
1 TTTAAATTTATTTTAAGATTAAATTTATTTAAAAA
* **
26382 TTTAAATTTATTTTAAGTTTAAATTTATTTTCAAA
1 TTTAAATTTATTTTAAGATTAAATTTATTTAAAAA
* * *
26417 TTTAAAATTATTATAAAATTAAA
1 TTTAAATTTATTTTAAGATTAAA
26440 ATAAATAAAG
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 50 1.00
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.52
Consensus pattern (35 bp):
TTTAAATTTATTTTAAGATTAAATTTATTTAAAAA
Found at i:26435 original size:18 final size:17
Alignment explanation
Indices: 26347--26441 Score: 84
Period size: 18 Copynumber: 5.4 Consensus size: 17
26337 CCAAACTCAT
**
26347 TTTAAATTTATTTTAGGA
1 TTTAAATTTA-TTTAAAA
26365 -TTAAATTTATTTAAAAA
1 TTTAAATTTATTT-AAAA
* *
26382 TTTAAATTTATTTTAAG
1 TTTAAATTTATTTAAAA
*
26399 TTTAAATTTATTTTCAAA
1 TTTAAATTTA-TTTAAAA
*
26417 TTTAAAATTATTATAAAA
1 TTTAAATTTATT-TAAAA
*
26435 TTAAAAT
1 TTTAAAT
26442 AAATAAAGTT
Statistics
Matches: 63, Mismatches: 10, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
16 3 0.05
17 25 0.40
18 35 0.56
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.52
Consensus pattern (17 bp):
TTTAAATTTATTTAAAA
Found at i:27164 original size:18 final size:19
Alignment explanation
Indices: 27126--27176 Score: 68
Period size: 18 Copynumber: 2.6 Consensus size: 19
27116 CATTAATAGG
27126 TATTAATAAAATATTTATTAA
1 TATTAATAAAA-A-TTATTAA
27147 TATTAATAAAAA-TATTAA
1 TATTAATAAAAATTATTAA
*
27165 TAATAATAAAAA
1 TATTAATAAAAA
27177 AGGGAACTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 17 0.59
20 1 0.03
21 11 0.38
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
TATTAATAAAAATTATTAA
Found at i:28225 original size:58 final size:58
Alignment explanation
Indices: 28160--28362 Score: 239
Period size: 60 Copynumber: 3.4 Consensus size: 58
28150 TTTACCCCCG
* *
28160 AACTTCCAAAAATCCTATTTTTGA-CCTCGAACTTCCAAAAATCCTATTTTTAAT-TCGA
1 AACTTCCAAAAATCC-ATTTTT-ACCCCCGAACTTCCAAAAATCCTATTTTTAATCTCAA
* * *
28218 AACTTCCAAGAATTCCGTTTTTACCCCCGAACTTCCAAAAATCCTATTTTTGATCCTCAA
1 AACTTCCAA-AAATCCATTTTTACCCCCGAACTTCCAAAAATCCTATTTTTAAT-CTCAA
* * * * *
28278 AACTTCCAAAAATTCCAATTTTACCCCCAAACTTCCAAAAATCCTATTTCTAACCCCAA
1 AACTTCCAAAAA-TCCATTTTTACCCCCGAACTTCCAAAAATCCTATTTTTAATCTCAA
*
28337 AACTTTCAAAAATTCCATTTTTACCC
1 AACTTCCAAAAA-TCCATTTTTACCC
28363 TCAAACCTCT
Statistics
Matches: 125, Mismatches: 15, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
57 1 0.01
58 42 0.34
59 35 0.28
60 47 0.38
ACGTcount: A:0.34, C:0.29, G:0.03, T:0.33
Consensus pattern (58 bp):
AACTTCCAAAAATCCATTTTTACCCCCGAACTTCCAAAAATCCTATTTTTAATCTCAA
Found at i:28303 original size:60 final size:59
Alignment explanation
Indices: 28130--28362 Score: 260
Period size: 58 Copynumber: 3.9 Consensus size: 59
28120 GAGGTCCCTA
* ** *
28130 AACTGTCCAAAAATTCTATTTTTA-CCCCCGAACTTCCAAAAA-TCCTATTTTTGA-CCTCG
1 AACT-TCCAAAAATCCTATTTTTATCCCCAAAACTTCCAAAAATTCC-ATTTTT-ACCCCCG
* * * *
28189 AACTTCCAAAAATCCTATTTTTAAT--TCGAAACTTCCAAGAATTCCGTTTTTACCCCCG
1 AACTTCCAAAAATCCTATTTTT-ATCCCCAAAACTTCCAAAAATTCCATTTTTACCCCCG
* * *
28247 AACTTCCAAAAATCCTATTTTTGATCCTCAAAACTTCCAAAAATTCCAATTTTACCCCCA
1 AACTTCCAAAAATCCTATTTTT-ATCCCCAAAACTTCCAAAAATTCCATTTTTACCCCCG
* * *
28307 AACTTCCAAAAATCCTATTTCTAACCCCAAAACTTTCAAAAATTCCATTTTTACCC
1 AACTTCCAAAAATCCTATTTTTATCCCCAAAACTTCCAAAAATTCCATTTTTACCC
28363 TCAAACCTCT
Statistics
Matches: 150, Mismatches: 18, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
57 1 0.01
58 62 0.41
59 38 0.25
60 49 0.33
ACGTcount: A:0.34, C:0.29, G:0.04, T:0.33
Consensus pattern (59 bp):
AACTTCCAAAAATCCTATTTTTATCCCCAAAACTTCCAAAAATTCCATTTTTACCCCCG
Found at i:28368 original size:29 final size:29
Alignment explanation
Indices: 28125--28368 Score: 214
Period size: 29 Copynumber: 8.3 Consensus size: 29
28115 CCCTGGAGGT
*
28125 CCCT-AAACTGTCCAAAAATTCTATTTTTA
1 CCCTCAAACT-TCCAAAAATCCTATTTTTA
* *
28154 CCCCCGAACTTCCAAAAATCCTATTTTTGA
1 CCCTCAAACTTCCAAAAATCCTATTTTT-A
*
28184 -CCTCGAACTTCCAAAAATCCTATTTTTA
1 CCCTCAAACTTCCAAAAATCCTATTTTTA
** * *
28212 -ATTCGAAACTTCCAAGAATTCC-GTTTTTA
1 CCCTC-AAACTTCCAA-AAATCCTATTTTTA
* *
28241 CCCCCGAACTTCCAAAAATCCTATTTTTGA
1 CCCTCAAACTTCCAAAAATCCTATTTTT-A
* *
28271 TCCTCAAAACTTCCAAAAATTCC-AATTTTA
1 CCCTC-AAACTTCCAAAAA-TCCTATTTTTA
* *
28301 CCCCCAAACTTCCAAAAATCCTATTTCTAA
1 CCCTCAAACTTCCAAAAATCCTATTT-TTA
*
28331 CCC-CAAAACTTTCAAAAATTCC-ATTTTTA
1 CCCTC-AAACTTCCAAAAA-TCCTATTTTTA
28360 CCCTCAAAC
1 CCCTCAAAC
28369 CTCTAAAACC
Statistics
Matches: 176, Mismatches: 25, Indels: 28
0.77 0.11 0.12
Matches are distributed among these distances:
28 11 0.06
29 101 0.57
30 41 0.23
31 20 0.11
32 3 0.02
ACGTcount: A:0.34, C:0.30, G:0.04, T:0.32
Consensus pattern (29 bp):
CCCTCAAACTTCCAAAAATCCTATTTTTA
Done.