Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01007157.1 Kokia drynarioides strain JFW-HI SEQ_121769, 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: 76552
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.35
Warning! 158 characters in sequence are not A, C, G, or T
Found at i:404 original size:36 final size:36
Alignment explanation
Indices: 349--417 Score: 93
Period size: 36 Copynumber: 1.9 Consensus size: 36
339 CACGCGCTAC
* *
349 ATTAAAATATGTTATGTGTAAAAATTTTATATACGT
1 ATTAAAATATATTACGTGTAAAAATTTTATATACGT
* * *
385 ATTAAATTATATTACGTGTAAATATTTTTTATA
1 ATTAAAATATATTACGTGTAAAAATTTTATATA
418 TAAAAATATG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 28 1.00
ACGTcount: A:0.41, C:0.03, G:0.09, T:0.48
Consensus pattern (36 bp):
ATTAAAATATATTACGTGTAAAAATTTTATATACGT
Found at i:690 original size:3 final size:3
Alignment explanation
Indices: 682--711 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
672 GCACGAGTAA
682 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
712 TATTATTATT
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:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:716 original size:3 final size:3
Alignment explanation
Indices: 710--753 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
700 AATAATAATA
710 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
754 ATGAGTTTTA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:3339 original size:16 final size:15
Alignment explanation
Indices: 3302--3345 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 15
3292 TTAAAATGGT
3302 AAATTTTTAATTTAA
1 AAATTTTTAATTTAA
*
3317 ATTATTTTTAATTTATA
1 A-AATTTTTAATTTA-A
*
3334 AAATTTTAAATT
1 AAATTTTTAATT
3346 AGTAATGATA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
15 1 0.04
16 21 0.88
17 2 0.08
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
AAATTTTTAATTTAA
Found at i:5606 original size:17 final size:17
Alignment explanation
Indices: 5586--5622 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
5576 TTAAAATTGG
5586 ATTGAGAAAATAATTTA
1 ATTGAGAAAATAATTTA
*
5603 ATTGAGAAATTAATTTA
1 ATTGAGAAAATAATTTA
5620 ATT
1 ATT
5623 AATTAATTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.49, C:0.00, G:0.11, T:0.41
Consensus pattern (17 bp):
ATTGAGAAAATAATTTA
Found at i:10412 original size:75 final size:75
Alignment explanation
Indices: 10289--10438 Score: 300
Period size: 75 Copynumber: 2.0 Consensus size: 75
10279 TACTATAAAG
10289 AAAAAAATTATTTTTTCCAATTAAAGGAAAAAATAAAGTTTAAAATGATAAAGGCAAGAGTAATT
1 AAAAAAATTATTTTTTCCAATTAAAGGAAAAAATAAAGTTTAAAATGATAAAGGCAAGAGTAATT
10354 TTGGTTTTCT
66 TTGGTTTTCT
10364 AAAAAAATTATTTTTTCCAATTAAAGGAAAAAATAAAGTTTAAAATGATAAAGGCAAGAGTAATT
1 AAAAAAATTATTTTTTCCAATTAAAGGAAAAAATAAAGTTTAAAATGATAAAGGCAAGAGTAATT
10429 TTGGTTTTCT
66 TTGGTTTTCT
10439 TATAATATAT
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
75 75 1.00
ACGTcount: A:0.47, C:0.05, G:0.13, T:0.35
Consensus pattern (75 bp):
AAAAAAATTATTTTTTCCAATTAAAGGAAAAAATAAAGTTTAAAATGATAAAGGCAAGAGTAATT
TTGGTTTTCT
Found at i:23005 original size:20 final size:22
Alignment explanation
Indices: 22982--23032 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
22972 ATAAATTGTT
22982 AAAATAT-TATAAT-TTAA-ATA
1 AAAATATATA-AATATTAATATA
23002 AAAATATATAAATATTAATATA
1 AAAATATATAAATATTAATATA
*
23024 AAATTATAT
1 AAAATATAT
23033 TTATAATATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
20 10 0.37
21 6 0.22
22 11 0.41
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (22 bp):
AAAATATATAAATATTAATATA
Found at i:25632 original size:2 final size:2
Alignment explanation
Indices: 25625--25652 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
25615 TTCAATTTTG
25625 TA TA 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
25653 AACTCTTTCA
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):
TA
Found at i:30211 original size:21 final size:22
Alignment explanation
Indices: 30170--30214 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
30160 AATAAAATAA
*
30170 ATTTAGTTTTTATTGTAAATTT
1 ATTTAGTTTTCATTGTAAATTT
30192 ATTTAGTTTTGCATT-T-AATTT
1 ATTTAGTTTT-CATTGTAAATTT
30213 AT
1 AT
30215 CAAATAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 7 0.33
22 11 0.52
23 3 0.14
ACGTcount: A:0.27, C:0.02, G:0.09, T:0.62
Consensus pattern (22 bp):
ATTTAGTTTTCATTGTAAATTT
Found at i:36117 original size:28 final size:28
Alignment explanation
Indices: 36085--36164 Score: 70
Period size: 28 Copynumber: 3.1 Consensus size: 28
36075 TAAAATTTAT
36085 TATTATCAAACGACATAAATATGTACAA
1 TATTATCAAACGACATAAATATGTACAA
* *
36113 TATTA--AAA--A-A-AAA-A--AAAAA
1 TATTATCAAACGACATAAATATGTACAA
36132 NTATTATCAAACGACATAAATATGTACAA
1 -TATTATCAAACGACATAAATATGTACAA
36161 TATT
1 TATT
36165 TAAAAAAAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 20
0.61 0.06 0.32
Matches are distributed among these distances:
19 3 0.08
20 5 0.13
21 1 0.03
22 6 0.16
23 1 0.03
24 2 0.05
25 1 0.03
26 6 0.16
27 1 0.03
28 9 0.24
29 3 0.08
ACGTcount: A:0.56, C:0.10, G:0.05, T:0.28
Consensus pattern (28 bp):
TATTATCAAACGACATAAATATGTACAA
Found at i:36121 original size:48 final size:49
Alignment explanation
Indices: 36083--36177 Score: 174
Period size: 48 Copynumber: 2.0 Consensus size: 49
36073 ATTAAAATTT
36083 ATTATTATCAAACGACATAAATATGTACAATA-TTAAAAAAAAAAAAAA
1 ATTATTATCAAACGACATAAATATGTACAATATTTAAAAAAAAAAAAAA
*
36131 ANTATTATCAAACGACATAAATATGTACAATATTTAAAAAAAAAAAA
1 ATTATTATCAAACGACATAAATATGTACAATATTTAAAAAAAAAAAA
36178 GAGTCAATTT
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
48 31 0.69
49 14 0.31
ACGTcount: A:0.61, C:0.08, G:0.04, T:0.25
Consensus pattern (49 bp):
ATTATTATCAAACGACATAAATATGTACAATATTTAAAAAAAAAAAAAA
Found at i:36781 original size:27 final size:26
Alignment explanation
Indices: 36740--36809 Score: 97
Period size: 27 Copynumber: 2.7 Consensus size: 26
36730 TAAGTATAAA
* *
36740 AAAAAATTATCTGAATTACCCGAATT
1 AAAAAATTAACTGAATTACCCAAATT
*
36766 AATCAAATTAACTGAATTACCCAAATT
1 AA-AAAATTAACTGAATTACCCAAATT
36793 AAAAAATTAAC-GAATTA
1 AAAAAATTAACTGAATTA
36810 AAGTATTGAA
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
25 6 0.15
26 10 0.26
27 23 0.59
ACGTcount: A:0.51, C:0.14, G:0.06, T:0.29
Consensus pattern (26 bp):
AAAAAATTAACTGAATTACCCAAATT
Found at i:36930 original size:24 final size:27
Alignment explanation
Indices: 36901--36949 Score: 68
Period size: 24 Copynumber: 1.9 Consensus size: 27
36891 TCTATTTGTA
*
36901 TTCATTT-CTTCT-CTT-CAAAAAATC
1 TTCATTTGCTTATACTTACAAAAAATC
36925 TTCATTTGCTTATACTTACAAAAAA
1 TTCATTTGCTTATACTTACAAAAAA
36950 ATTATGTGCA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 7 0.33
25 4 0.19
26 3 0.14
27 7 0.33
ACGTcount: A:0.35, C:0.20, G:0.02, T:0.43
Consensus pattern (27 bp):
TTCATTTGCTTATACTTACAAAAAATC
Found at i:37588 original size:16 final size:15
Alignment explanation
Indices: 37561--37595 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
37551 ATGATTTTTT
37561 TAAATTTAAATTAGA
1 TAAATTTAAATTAGA
*
37576 TAAATTATAAATTATA
1 TAAATT-TAAATTAGA
37592 TAAA
1 TAAA
37596 ATATCATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 6 0.33
16 12 0.67
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (15 bp):
TAAATTTAAATTAGA
Found at i:37735 original size:31 final size:30
Alignment explanation
Indices: 37685--37743 Score: 73
Period size: 31 Copynumber: 1.9 Consensus size: 30
37675 TTTCTTTTTT
* *
37685 TGAATTTTTCATAATTTTTAAATTTTTTAAA
1 TGAATTTTTAATAAGTTTT-AATTTTTTAAA
* *
37716 TGAATTTTTAATTAGTTTTATTTTTTTA
1 TGAATTTTTAATAAGTTTTAATTTTTTA
37744 TAATATTTGG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 8 0.33
31 16 0.67
ACGTcount: A:0.31, C:0.02, G:0.05, T:0.63
Consensus pattern (30 bp):
TGAATTTTTAATAAGTTTTAATTTTTTAAA
Found at i:44214 original size:31 final size:31
Alignment explanation
Indices: 44179--44241 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
44169 TTAACATCTT
*
44179 AGTGACTTAGATAAAAATTGCTAAATAATTC
1 AGTGACTTAAATAAAAATTGCTAAATAATTC
* * **
44210 AGTGATTTAAATGAAAATTTTTAAATAATTC
1 AGTGACTTAAATAAAAATTGCTAAATAATTC
44241 A
1 A
44242 ATGATTATTT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.46, C:0.06, G:0.11, T:0.37
Consensus pattern (31 bp):
AGTGACTTAAATAAAAATTGCTAAATAATTC
Found at i:49666 original size:6 final size:6
Alignment explanation
Indices: 49655--49695 Score: 73
Period size: 6 Copynumber: 6.8 Consensus size: 6
49645 ATAATATAAT
*
49655 ATATAG ATATAG ATATAG ATATAG ATGTAG ATATAG ATATA
1 ATATAG ATATAG ATATAG ATATAG ATATAG ATATAG ATATA
49696 TGTAATGCTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.17, T:0.34
Consensus pattern (6 bp):
ATATAG
Found at i:52617 original size:18 final size:19
Alignment explanation
Indices: 52583--52620 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
52573 ATTATTTTTT
52583 ATTTAAGTTAATCCGAATA
1 ATTTAAGTTAATCCGAATA
*
52602 ATTTAA-TTAATTCGAATA
1 ATTTAAGTTAATCCGAATA
52620 A
1 A
52621 CTCAAACTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.45, C:0.08, G:0.08, T:0.39
Consensus pattern (19 bp):
ATTTAAGTTAATCCGAATA
Found at i:53618 original size:12 final size:12
Alignment explanation
Indices: 53603--53633 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
53593 TTAAAAAAAA
*
53603 AACATAGTAATG
1 AACACAGTAATG
53615 AACACAGTAATG
1 AACACAGTAATG
53627 AACACAG
1 AACACAG
53634 AGAGCGAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.52, C:0.16, G:0.16, T:0.16
Consensus pattern (12 bp):
AACACAGTAATG
Found at i:54749 original size:27 final size:30
Alignment explanation
Indices: 54710--54779 Score: 78
Period size: 27 Copynumber: 2.5 Consensus size: 30
54700 ACTCTAATAA
* *
54710 AAAATAAA-T-AAATATTTAATTAAA-A-T
1 AAAATAAACTCAAATACTAAATTAAACATT
54736 AAAA-AAACTCAAATACTAAATTAAACATT
1 AAAATAAACTCAAATACTAAATTAAACATT
54765 AAAATTAAACTCAAA
1 AAAA-TAAACTCAAA
54780 CAAAAACAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
25 3 0.08
26 5 0.14
27 13 0.36
28 1 0.03
29 5 0.14
31 9 0.25
ACGTcount: A:0.64, C:0.09, G:0.00, T:0.27
Consensus pattern (30 bp):
AAAATAAACTCAAATACTAAATTAAACATT
Found at i:62394 original size:2 final size:2
Alignment explanation
Indices: 62389--62421 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
62379 ACCACACAAA
62389 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
62422 GATTGATGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:64312 original size:31 final size:31
Alignment explanation
Indices: 64277--64335 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
64267 TAACAATCCT
64277 GTGACTTAAATAAAAACTTT-AGAATAGTCCA
1 GTGACTTAAATAAAAACTTTCA-AATAGTCCA
64308 GTGACTTAAATAAAAACTTTCAAATAGT
1 GTGACTTAAATAAAAACTTTCAAATAGT
64336 TCAATGATCA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
31 26 0.96
32 1 0.04
ACGTcount: A:0.46, C:0.12, G:0.12, T:0.31
Consensus pattern (31 bp):
GTGACTTAAATAAAAACTTTCAAATAGTCCA
Found at i:73305 original size:84 final size:84
Alignment explanation
Indices: 73153--73307 Score: 193
Period size: 84 Copynumber: 1.8 Consensus size: 84
73143 AAACTAAAAC
* ** * * * * ** *
73153 TTTCTTGCGATTCAGAGCTCTCCTGTGGTGGAGATTCATATTCATCTGAATTTTCTTTAATGTTG
1 TTTCTTGCGATTCAGAGCTCTCATCAGGTGGAGATTCATATGCATCTGAATTTCCATAAACATAG
73218 GAATCCTCATGATTTTCAT
66 GAATCCTCATGATTTTCAT
* * *
73237 TTTCTTGTGATTCGGAGCTCTCATCAGGTGGAGATTCATATGCATCTGAGTTTCCATAAACATAG
1 TTTCTTGCGATTCAGAGCTCTCATCAGGTGGAGATTCATATGCATCTGAATTTCCATAAACATAG
73302 GAATCC
66 GAATCC
73308 CCCGAAACTT
Statistics
Matches: 58, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
84 58 1.00
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.39
Consensus pattern (84 bp):
TTTCTTGCGATTCAGAGCTCTCATCAGGTGGAGATTCATATGCATCTGAATTTCCATAAACATAG
GAATCCTCATGATTTTCAT
Found at i:75290 original size:61 final size:60
Alignment explanation
Indices: 75181--75424 Score: 241
Period size: 61 Copynumber: 4.1 Consensus size: 60
75171 ATATCCCTTT
* * * * * * *
75181 TTTTATTTGAT-AAAAAACT-AATTTTTTTTGTGTTGGTCAT-TATATGGTCGACATCACG
1 TTTTATCTGATAAAAAAATTCAATTTTTTTGGTGTTGGCCATGCAT-TGGTCGACACCACC
* *
75239 TTTTATCTTATAAAAAAATTTCAATTTTTTTGGTGTTGGCCAAGCATTGGTCGACACCACC
1 TTTTATCTGATAAAAAAA-TTCAATTTTTTTGGTGTTGGCCATGCATTGGTCGACACCACC
* * * *
75300 TATTATCTGATTAAAAAAATT-AA-ATTTTTGGTGTTGGTCATTGCA-TGG-CCAGCACCACC
1 TTTTATCTGA-TAAAAAAATTCAATTTTTTTGGTGTTGGCCA-TGCATTGGTCGA-CACCACC
* *
75359 TTTCTATCTGATAAAAAAATTCAAATTTTTTTTGTGTTGGCCATGCATTGATCGACACCACC
1 TTT-TATCTGATAAAAAAATTC-AATTTTTTTGGTGTTGGCCATGCATTGGTCGACACCACC
75421 TTTT
1 TTTT
75425 TATTTGAAAA
Statistics
Matches: 152, Mismatches: 21, Indels: 23
0.78 0.11 0.12
Matches are distributed among these distances:
58 11 0.07
59 43 0.28
60 13 0.09
61 47 0.31
62 36 0.24
63 2 0.01
ACGTcount: A:0.28, C:0.16, G:0.15, T:0.41
Consensus pattern (60 bp):
TTTTATCTGATAAAAAAATTCAATTTTTTTGGTGTTGGCCATGCATTGGTCGACACCACC
Found at i:75379 original size:121 final size:118
Alignment explanation
Indices: 75203--75460 Score: 317
Period size: 121 Copynumber: 2.2 Consensus size: 118
75193 AAAAACTAAT
* ** * * * *
75203 TTTTTTTGTGTTGGTCATTATATGGTC-GACATCACGTTT-TATCTTATAAAAAAATTTC-AATT
1 TTTTTTGGTGTTGGTCATTGCATGGCCAG-CACCACCTTTCTATCTGATAAAAAAA-TTCAAATT
* *
75265 TTTTTGGTGTTGGCCAAGCATTGGTCGACACCACCTATTATCTGATTAAAAAAATTAAA
64 TTTTTGGTGTTGGCCAAGCATTGATCGACACCACCT-TT-T-T-ATTAAAAAAATCAAA
75324 -TTTTTGGTGTTGGTCATTGCATGGCCAGCACCACCTTTCTATCTGATAAAAAAATTCAAATTTT
1 TTTTTTGGTGTTGGTCATTGCATGGCCAGCACCACCTTTCTATCTGATAAAAAAATTCAAATTTT
* * **
75388 TTTTGTGTTGGCCATGCATTGATCGACACCACCTTTTTATTTGAAAAATCAAA
66 TTTGGTGTTGGCCAAGCATTGATCGACACCACCTTTTTATTAAAAAAATCAAA
75441 TTTTTTGGTGTTGGTCATTG
1 TTTTTTGGTGTTGGTCATTG
75461 TTTGGTCGAT
Statistics
Matches: 120, Mismatches: 13, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
117 12 0.10
118 20 0.17
119 1 0.01
120 35 0.29
121 52 0.43
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.41
Consensus pattern (118 bp):
TTTTTTGGTGTTGGTCATTGCATGGCCAGCACCACCTTTCTATCTGATAAAAAAATTCAAATTTT
TTTGGTGTTGGCCAAGCATTGATCGACACCACCTTTTTATTAAAAAAATCAAA
Found at i:75421 original size:62 final size:61
Alignment explanation
Indices: 75200--75454 Score: 239
Period size: 61 Copynumber: 4.3 Consensus size: 61
75190 ATAAAAAACT
* * * * * *
75200 AATTTTTTTTGTGTTGGTCAT-TATATGGTCGACATCACGTTTTATCTTATAAAAAAATTTC-
1 AATTTTTTTGGTGTTGGCCATGCAT-TGGTCGACACCACCTTTTATCTGATAAAAAAA-TTCA
* *
75261 AATTTTTTTGGTGTTGGCCAAGCATTGGTCGACACCACCTATTATCTGATTAAAAAAATT-A
1 AATTTTTTTGGTGTTGGCCATGCATTGGTCGACACCACCTTTTATCTGA-TAAAAAAATTCA
* *
75322 AA--TTTTTGGTGTTGGTCATTGCA-TGG-CCAGCACCACCTTTCTATCTGATAAAAAAATTCA
1 AATTTTTTTGGTGTTGGCCA-TGCATTGGTCGA-CACCACCTTT-TATCTGATAAAAAAATTCA
* * *
75382 AATTTTTTTTGTGTTGGCCATGCATTGATCGACACCACCTTTTTAT-T--T-GAAAAA-TCA
1 AATTTTTTTGGTGTTGGCCATGCATTGGTCGACACCACC-TTTTATCTGATAAAAAAATTCA
75439 AA-TTTTTTGGTGTTGG
1 AATTTTTTTGGTGTTGG
75455 TCATTGTTTG
Statistics
Matches: 164, Mismatches: 18, Indels: 29
0.78 0.09 0.14
Matches are distributed among these distances:
56 13 0.08
57 5 0.03
58 7 0.04
59 38 0.23
60 13 0.08
61 47 0.29
62 36 0.22
63 5 0.03
ACGTcount: A:0.27, C:0.15, G:0.16, T:0.41
Consensus pattern (61 bp):
AATTTTTTTGGTGTTGGCCATGCATTGGTCGACACCACCTTTTATCTGATAAAAAAATTCA
Found at i:76352 original size:30 final size:30
Alignment explanation
Indices: 76318--76439 Score: 154
Period size: 30 Copynumber: 4.1 Consensus size: 30
76308 AAAAACTAAT
* * *
76318 AATTAGAAATGAAATTTAAAATATAAATGA
1 AATTACAAATTAAATTTAAAATATAAACGA
* * * *
76348 AATTACAAGTTAAAATTAAAATATATAGGA
1 AATTACAAATTAAATTTAAAATATAAACGA
*
76378 AATTAGAAATTAAATTTAAAATATAAACGA
1 AATTACAAATTAAATTTAAAATATAAACGA
* *
76408 AATTACAAATTAAATTAAAAAAATAAACGA
1 AATTACAAATTAAATTTAAAATATAAACGA
76438 AA
1 AA
76440 AATATCAAAA
Statistics
Matches: 78, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 78 1.00
ACGTcount: A:0.61, C:0.03, G:0.07, T:0.28
Consensus pattern (30 bp):
AATTACAAATTAAATTTAAAATATAAACGA
Done.