Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01005743.1 Kokia drynarioides strain JFW-HI SEQ_119986, 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: 67965
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.35
Warning! 46 characters in sequence are not A, C, G, or T
Found at i:4558 original size:30 final size:30
Alignment explanation
Indices: 4497--4562 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 30
4487 AGTTTATATG
* * *
4497 TTTATAATTTTTAAAAAATTAAATTAAAAT
1 TTTATTATTTTTAAAAAACTAAAATAAAAT
* **
4527 TTTATTATTTTTAGAAAACTAAAATGTAAT
1 TTTATTATTTTTAAAAAACTAAAATAAAAT
4557 TTTATT
1 TTTATT
4563 TTTATTATTT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.50
Consensus pattern (30 bp):
TTTATTATTTTTAAAAAACTAAAATAAAAT
Found at i:16272 original size:30 final size:32
Alignment explanation
Indices: 16202--16280 Score: 90
Period size: 32 Copynumber: 2.5 Consensus size: 32
16192 AATAATCGAT
* * * *
16202 ATTTTTATAATTTTTAGAGGGTTAAAAATTTA
1 ATTTTTATTATTTTTAAAAGGTTAAAAATGTA
*
16234 ATTTTTATTATTTTTAAAAGGTT-AAAGTGTA
1 ATTTTTATTATTTTTAAAAGGTTAAAAATGTA
*
16265 A-TTTTATTATTATTAA
1 ATTTTTATTATTTTTAA
16281 TTTAAAATTT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
30 14 0.34
31 7 0.17
32 20 0.49
ACGTcount: A:0.37, C:0.00, G:0.10, T:0.53
Consensus pattern (32 bp):
ATTTTTATTATTTTTAAAAGGTTAAAAATGTA
Found at i:17991 original size:2 final size:2
Alignment explanation
Indices: 17984--18010 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
17974 AAAATAAACT
17984 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
18011 CAATTAAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:20802 original size:107 final size:107
Alignment explanation
Indices: 20616--20831 Score: 432
Period size: 107 Copynumber: 2.0 Consensus size: 107
20606 TGTCCAAACT
20616 TTTCCAAGGTGCTTAAAGGATTTCCATGCACTTTGGGTAGTTTGTGGTTCAAAATTCTGCATGTT
1 TTTCCAAGGTGCTTAAAGGATTTCCATGCACTTTGGGTAGTTTGTGGTTCAAAATTCTGCATGTT
20681 TAGAATAAAATACATGACAACTGAGTTAGATATTACTATAAA
66 TAGAATAAAATACATGACAACTGAGTTAGATATTACTATAAA
20723 TTTCCAAGGTGCTTAAAGGATTTCCATGCACTTTGGGTAGTTTGTGGTTCAAAATTCTGCATGTT
1 TTTCCAAGGTGCTTAAAGGATTTCCATGCACTTTGGGTAGTTTGTGGTTCAAAATTCTGCATGTT
20788 TAGAATAAAATACATGACAACTGAGTTAGATATTACTATAAA
66 TAGAATAAAATACATGACAACTGAGTTAGATATTACTATAAA
20830 TT
1 TT
20832 GCGTGTTTAT
Statistics
Matches: 109, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
107 109 1.00
ACGTcount: A:0.32, C:0.13, G:0.19, T:0.36
Consensus pattern (107 bp):
TTTCCAAGGTGCTTAAAGGATTTCCATGCACTTTGGGTAGTTTGTGGTTCAAAATTCTGCATGTT
TAGAATAAAATACATGACAACTGAGTTAGATATTACTATAAA
Found at i:27469 original size:16 final size:16
Alignment explanation
Indices: 27443--27490 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
27433 ATTTTAATTT
*
27443 TAATGTC-TTTTTTTT
1 TAATGTCATTTTTTTG
*
27458 TAAT-TCAGTTTTGTTG
1 TAATGTCA-TTTTTTTG
27474 TAATGTCATTTTTTTG
1 TAATGTCATTTTTTTG
27490 T
1 T
27491 TACATGGTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
14 2 0.07
15 4 0.15
16 18 0.67
17 3 0.11
ACGTcount: A:0.17, C:0.06, G:0.12, T:0.65
Consensus pattern (16 bp):
TAATGTCATTTTTTTG
Found at i:29233 original size:28 final size:28
Alignment explanation
Indices: 29202--29263 Score: 88
Period size: 28 Copynumber: 2.2 Consensus size: 28
29192 AAAATGAGAT
* *
29202 TTTTGGATACACGGGGGCAAAATGGTAA
1 TTTTGGACACACGAGGGCAAAATGGTAA
**
29230 TTTTGGACACTTGAGGGCAAAATGGTAA
1 TTTTGGACACACGAGGGCAAAATGGTAA
29258 TTTTGG
1 TTTTGG
29264 GAAAGTTCGG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.29, C:0.10, G:0.31, T:0.31
Consensus pattern (28 bp):
TTTTGGACACACGAGGGCAAAATGGTAA
Found at i:29326 original size:59 final size:59
Alignment explanation
Indices: 29242--29523 Score: 263
Period size: 59 Copynumber: 4.8 Consensus size: 59
29232 TTGGACACTT
* * ** * *
29242 GAGGGCAAAATGGTAATTTTGGGAAAGTTCGGGGTCAAAAACGGAATTTTTAGACATCT-
1 GAGGGTAAAATGGTAATTTTTGGAAAAATCGGGGTCAAAAATGGAATTTTTAGA-AGCTC
* * * *
29301 GGGGGTGAAATGGTAATTTTTGGAAAAATCAGGGTCAAAAATGGAATTTTTGGAAGCTC
1 GAGGGTAAAATGGTAATTTTTGGAAAAATCGGGGTCAAAAATGGAATTTTTAGAAGCTC
* * *
29360 GAGGGTAAAATGGTAA-TTTTGGAAAAATCGAGGTCAAAAATGGAATTTTTGGAAG-TT
1 GAGGGTAAAATGGTAATTTTTGGAAAAATCGGGGTCAAAAATGGAATTTTTAGAAGCTC
* * * * * *
29417 TA--GTAAAATGGTAATTTTTGGAAAAATTGAGGTAAAAAATGGAATTTTTGGAAG-TT
1 GAGGGTAAAATGGTAATTTTTGGAAAAATCGGGGTCAAAAATGGAATTTTTAGAAGCTC
* ** ** *
29473 TAGGGGTAAAAAT-GTAATTTTTGGAAAGTTCAAGGTAAAAAATGGAATTTT
1 GA-GGGT-AAAATGGTAATTTTTGGAAAAATCGGGGTCAAAAATGGAATTTT
29524 GGAAAAGTTC
Statistics
Matches: 195, Mismatches: 22, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
55 12 0.06
56 41 0.21
57 2 0.01
58 40 0.21
59 95 0.49
60 5 0.03
ACGTcount: A:0.38, C:0.05, G:0.27, T:0.31
Consensus pattern (59 bp):
GAGGGTAAAATGGTAATTTTTGGAAAAATCGGGGTCAAAAATGGAATTTTTAGAAGCTC
Found at i:29351 original size:30 final size:29
Alignment explanation
Indices: 29308--29557 Score: 166
Period size: 30 Copynumber: 8.6 Consensus size: 29
29298 TCTGGGGGTG
*
29308 AAATGGTAATTTTTGGAAAAATCAGGGTCAA
1 AAATGG-AATTTTTGGAAAATTCAGGGT-AA
**
29339 AAATGGAATTTTTGG-AAGCTCGAGGGT-A
1 AAATGGAATTTTTGGAAAATTC-AGGGTAA
*
29367 AAATGGTAA-TTTTGGAAAAATC-GAGGTCAA
1 AAATGG-AATTTTTGGAAAATTCAG-GGT-AA
* *
29397 AAATGGAATTTTTGG-AAGTTTA--GT-A
1 AAATGGAATTTTTGGAAAATTCAGGGTAA
*
29422 AAATGGTAATTTTTGGAAAAATTGA-GGTAAA
1 AAATGG-AATTTTTGG-AAAATTCAGGGT-AA
* *
29453 AAATGGAATTTTTGG-AAGTTTAGGGGTAA
1 AAATGGAATTTTTGGAAAATTCA-GGGTAA
* * *
29482 AAATGTAATTTTTGGAAAGTTCAAGGTAAA
1 AAATGGAATTTTTGGAAAATTCAGGGT-AA
29512 AAATGGAA-TTTTGGAAAAGTTCAAGGGTCAA
1 AAATGGAATTTTTGGAAAA-TTC-AGGGT-AA
29543 AATAT-G-ATTTTTGGA
1 AA-ATGGAATTTTTGGA
29558 CAGTTTAGGG
Statistics
Matches: 179, Mismatches: 18, Indels: 44
0.74 0.07 0.18
Matches are distributed among these distances:
25 7 0.04
26 9 0.05
27 3 0.02
28 26 0.15
29 45 0.25
30 58 0.32
31 29 0.16
32 2 0.01
ACGTcount: A:0.40, C:0.04, G:0.25, T:0.32
Consensus pattern (29 bp):
AAATGGAATTTTTGGAAAATTCAGGGTAA
Found at i:29379 original size:28 final size:29
Alignment explanation
Indices: 29220--29498 Score: 115
Period size: 29 Copynumber: 9.7 Consensus size: 29
29210 ACACGGGGGC
* *
29220 AAAATGGTAA-TTTTGGACA-CTTGAGGGC
1 AAAATGGTAATTTTTGGA-AGCTCGAGGGT
* *
29248 AAAATGGTAATTTTGGGAAAGTTCG-GGGT
1 AAAATGGTAATTTTTGG-AAGCTCGAGGGT
* * * *
29277 CAAAAACGG-AATTTTTAGACATCT-GGGGGT
1 --AAAATGGTAATTTTTGGA-AGCTCGAGGGT
* **
29307 GAAATGGTAATTTTTGGAAAAATC-AGGGT
1 AAAATGGTAATTTTTGG-AAGCTCGAGGGT
29336 CAAAAATGG-AATTTTTGGAAGCTCGAGGGT
1 --AAAATGGTAATTTTTGGAAGCTCGAGGGT
**
29366 AAAATGGTAA-TTTTGGAAAAATCGA-GGT
1 AAAATGGTAATTTTTGG-AAGCTCGAGGGT
**
29394 CAAAAATGG-AATTTTTGGAAG-TTTA--GT
1 --AAAATGGTAATTTTTGGAAGCTCGAGGGT
** *
29421 AAAATGGTAATTTTTGGAAAAATTGA-GGT
1 AAAATGGTAATTTTTGG-AAGCTCGAGGGT
**
29450 AAAAAATGG-AATTTTTGGAAG-TTTAGGGGT
1 --AAAATGGTAATTTTTGGAAGCTCGA-GGGT
29480 AAAAAT-GTAATTTTTGGAA
1 -AAAATGGTAATTTTTGGAA
29499 AGTTCAAGGT
Statistics
Matches: 197, Mismatches: 27, Indels: 53
0.71 0.10 0.19
Matches are distributed among these distances:
25 7 0.04
26 9 0.05
27 4 0.02
28 40 0.20
29 62 0.31
30 56 0.28
31 19 0.10
ACGTcount: A:0.37, C:0.05, G:0.27, T:0.31
Consensus pattern (29 bp):
AAAATGGTAATTTTTGGAAGCTCGAGGGT
Found at i:31322 original size:6 final size:6
Alignment explanation
Indices: 31313--31359 Score: 60
Period size: 6 Copynumber: 8.0 Consensus size: 6
31303 TTATAATGAT
** *
31313 TTTAAA TTTAAA AATAAA TTTAAA CTTAAA -TTAAA TTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
31360 ACAAATTTAA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
5 5 0.14
6 30 0.86
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (6 bp):
TTTAAA
Found at i:31349 original size:17 final size:17
Alignment explanation
Indices: 31313--31387 Score: 96
Period size: 17 Copynumber: 4.4 Consensus size: 17
31303 TTATAATGAT
*
31313 TTTAAATTTAAAAATAAA
1 TTTAAACTT-AAAATAAA
*
31331 TTTAAACTTAAATTAAA
1 TTTAAACTTAAAATAAA
* *
31348 TTTAAATTTAAAACAAA
1 TTTAAACTTAAAATAAA
*
31365 TTTAATCTTAAAATAAA
1 TTTAAACTTAAAATAAA
31382 TTTAAA
1 TTTAAA
31388 ATGGGTTTGG
Statistics
Matches: 48, Mismatches: 9, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
17 40 0.83
18 8 0.17
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (17 bp):
TTTAAACTTAAAATAAA
Found at i:31352 original size:11 final size:12
Alignment explanation
Indices: 31314--31376 Score: 60
Period size: 12 Copynumber: 5.4 Consensus size: 12
31304 TATAATGATT
*
31314 TTAAATTTAAAA
1 TTAAATTTAAAC
*
31326 ATAAATTTAAAC
1 TTAAATTTAAAC
*
31338 TTAAA-TTAAAT
1 TTAAATTTAAAC
31349 TTAAATTTAAAAC
1 TTAAATTT-AAAC
*
31362 --AAATTTAATC
1 TTAAATTTAAAC
31372 TTAAA
1 TTAAA
31377 ATAAATTTAA
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
10 3 0.07
11 16 0.39
12 19 0.46
13 3 0.07
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.40
Consensus pattern (12 bp):
TTAAATTTAAAC
Found at i:31375 original size:34 final size:35
Alignment explanation
Indices: 31295--31387 Score: 116
Period size: 34 Copynumber: 2.7 Consensus size: 35
31285 GTTTTTATTT
* * * * *
31295 ATTTAAATTTATAATGATTTTAAATTTAAAAATAA
1 ATTTAAACTTAAAATAAATTTAAATTTAAAAACAA
*
31330 ATTTAAACTTAAATTAAATTTAAATTT-AAAACAA
1 ATTTAAACTTAAAATAAATTTAAATTTAAAAACAA
*
31364 ATTTAATCTTAAAATAAATTTAAA
1 ATTTAAACTTAAAATAAATTTAAA
31388 ATGGGTTTGG
Statistics
Matches: 50, Mismatches: 8, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
34 28 0.56
35 22 0.44
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (35 bp):
ATTTAAACTTAAAATAAATTTAAATTTAAAAACAA
Found at i:31854 original size:49 final size:48
Alignment explanation
Indices: 31801--32205 Score: 311
Period size: 49 Copynumber: 8.3 Consensus size: 48
31791 AGGTTCGTTA
* *
31801 TTGCGACTTAAACCTTTCCCCTTGTGTCTTCGCGGTACTGGATTCGCCG
1 TTGCGACTTAAACCTTT-CCCTTATGTCTTCGAGGTACTGGATTCGCCG
* * * * * *
31850 TTGCGGCTTAAATCTCTCCCTTCATGTC-TCTGAGGTACT-AAATCTGCCA
1 TTGCGACTTAAACCTTTCCCTT-ATGTCTTC-GAGGTACTGGATTC-GCCG
* * *
31899 TTGCAACTTAAACCTTTCCCTTGTGTCTTCGCGGTACTGGATTCGCCG
1 TTGCGACTTAAACCTTTCCCTTATGTCTTCGAGGTACTGGATTCGCCG
* * * * *
31947 TTGCAACTTAAATCTTTCCCTTCATGTC-TCTGAGGTACTAGG-TTTGTCA
1 TTGCGACTTAAACCTTTCCCTT-ATGTCTTC-GAGGTACT-GGATTCGCCG
* * * *
31996 TTGCGACTTAAACCTTTCCCTTGTGTTTTCGTGGTACTGGATTCACCG
1 TTGCGACTTAAACCTTTCCCTTATGTCTTCGAGGTACTGGATTCGCCG
* * * * * * *
32044 TTACGGCTTAAATCTTTCCCTTCTTGTCTTTGAGGTACTAGG-TTTGCCA
1 TTGCGACTTAAACCTTTCCCTT-ATGTCTTCGAGGTACT-GGATTCGCCG
* * *
32093 TTGCGACTTAAACCTTTCCCTTATGTCTTCGTGGTACTGGATTCACTG
1 TTGCGACTTAAACCTTTCCCTTATGTCTTCGAGGTACTGGATTCGCCG
* ** * * **
32141 TTGCGGCTTAATTCTTTTCCTTCATGT-TTCTAAGGTAC-AAAGTTCGCCG
1 TTGCGACTTAAACCTTTCCCTT-ATGTCTTC-GAGGTACTGGA-TTCGCCG
*
32190 TTACGACTTAAACCTT
1 TTGCGACTTAAACCTT
32206 CCTCCTCGTG
Statistics
Matches: 274, Mismatches: 66, Indels: 32
0.74 0.18 0.09
Matches are distributed among these distances:
47 4 0.01
48 117 0.43
49 149 0.54
50 4 0.01
ACGTcount: A:0.17, C:0.26, G:0.19, T:0.39
Consensus pattern (48 bp):
TTGCGACTTAAACCTTTCCCTTATGTCTTCGAGGTACTGGATTCGCCG
Found at i:31928 original size:97 final size:97
Alignment explanation
Indices: 31745--32227 Score: 569
Period size: 97 Copynumber: 5.0 Consensus size: 97
31735 ATGGTACTAA
* * * * * **
31745 ATTCGCCGTAGCGACTTAAAT-TTTCCTTTCATG-CTTCTGAGGTA-TAAGGTTCGTTATTGCGA
1 ATTCACCGTTGCGGCTTAAATCTTTCCCTTCATGTC-TCTGAGGTACT-AGGTTTGCCATTGCGA
31807 CTTAAACCTTTCCCCTTGTGTCTTCGCGGTACTGG
64 CTTAAACCTTT-CCCTTGTGTCTTCGCGGTACTGG
* * ** * *
31842 ATTCGCCGTTGCGGCTTAAATCTCTCCCTTCATGTCTCTGAGGTACTAAATCTGCCATTGCAACT
1 ATTCACCGTTGCGGCTTAAATCTTTCCCTTCATGTCTCTGAGGTACTAGGTTTGCCATTGCGACT
31907 TAAACCTTTCCCTTGTGTCTTCGCGGTACTGG
66 TAAACCTTTCCCTTGTGTCTTCGCGGTACTGG
* ** *
31939 ATTCGCCGTTGCAACTTAAATCTTTCCCTTCATGTCTCTGAGGTACTAGGTTTGTCATTGCGACT
1 ATTCACCGTTGCGGCTTAAATCTTTCCCTTCATGTCTCTGAGGTACTAGGTTTGCCATTGCGACT
* *
32004 TAAACCTTTCCCTTGTGTTTTCGTGGTACTGG
66 TAAACCTTTCCCTTGTGTCTTCGCGGTACTGG
* * *
32036 ATTCACCGTTACGGCTTAAATCTTTCCCTTCTTGTCTTTGAGGTACTAGGTTTGCCATTGCGACT
1 ATTCACCGTTGCGGCTTAAATCTTTCCCTTCATGTCTCTGAGGTACTAGGTTTGCCATTGCGACT
* *
32101 TAAACCTTTCCCTTATGTCTTCGTGGTACTGG
66 TAAACCTTTCCCTTGTGTCTTCGCGGTACTGG
* * * * * * * * * *
32133 ATTCACTGTTGCGGCTTAATTCTTTTCCTTCATGTTTCTAAGGTACAAAGTTCGCCGTTACGACT
1 ATTCACCGTTGCGGCTTAAATCTTTCCCTTCATGTCTCTGAGGTACTAGGTTTGCCATTGCGACT
* * *
32198 TAAACCTTCCTCCTCGTGT-TTCGCCGTACT
66 TAAACCTTTC-CCTTGTGTCTTCGCGGTACT
32228 AAGACTTGGA
Statistics
Matches: 334, Mismatches: 48, Indels: 8
0.86 0.12 0.02
Matches are distributed among these distances:
97 287 0.86
98 45 0.13
99 2 0.01
ACGTcount: A:0.17, C:0.26, G:0.19, T:0.39
Consensus pattern (97 bp):
ATTCACCGTTGCGGCTTAAATCTTTCCCTTCATGTCTCTGAGGTACTAGGTTTGCCATTGCGACT
TAAACCTTTCCCTTGTGTCTTCGCGGTACTGG
Found at i:32191 original size:146 final size:144
Alignment explanation
Indices: 31737--32201 Score: 403
Period size: 146 Copynumber: 3.2 Consensus size: 144
31727 CAATCCGCAT
*
31737 GGTACTAAATTCGCCG-TAGCGACTTAAAT-TTTCCTTTCATG-CTTCTGAGGTA-TAAGGTTCG
1 GGTACTAAATTCGCCGTTA-CGACTTAAATCTTTCCCTTCATGTCTT-TGAGGTACT-AGGTTCG
** * * *
31798 TTATTGCGACTTAAACCTTTCCCCTTGTGTCTTCGCGGTACTGGATTCGCCGTTGCGGCTTAAAT
63 CCATTGCGACTTAAACCTTT-CCCTTATGTCTTCGAGGTACTGGATTC-ACGTTGCGGCTTAAAT
* *
31863 CTCTCCCTTCATGTCTCTGA
126 CTTTCCCTTCATGTTTCT-A
* * * * * * *
31883 GGTACTAAA-TCTGCCATTGCAACTTAAACCTTTCCCTT-GTGTCTTCGCGGTACT-GGATTCGC
1 GGTACTAAATTC-GCCGTTACGACTTAAATCTTTCCCTTCATGTCTTTGAGGTACTAGG-TTCGC
* * * * ** * * *
31945 CGTTGCAACTTAAATCTTTCCCTTCATGTC-TCTGAGGTACTAGGTTTGTCATTGCGACTTAAAC
64 CATTGCGACTTAAACCTTTCCCTT-ATGTCTTC-GAGGTACT-GGATTCACGTTGCGGCTTAAAT
*
32009 CTTTCCCTT-GTGTTTTCGT-
126 CTTTCCCTTCATG-TTTC-TA
** * * * *
32028 GGTACTGGATTCACCGTTACGGCTTAAATCTTTCCCTTCTTGTCTTTGAGGTACTAGGTTTGCCA
1 GGTACTAAATTCGCCGTTACGACTTAAATCTTTCCCTTCATGTCTTTGAGGTACTAGGTTCGCCA
* *
32093 TTGCGACTTAAACCTTTCCCTTATGTCTTCGTGGTACTGGATTCACTGTTGCGGCTTAATTCTTT
66 TTGCGACTTAAACCTTTCCCTTATGTCTTCGAGGTACTGGATTCAC-GTTGCGGCTTAAATCTTT
*
32158 TCCTTCATGTTTCTAA
130 CCCTTCATGTTTCT-A
32174 GGTAC-AAAGTTCGCCGTTACGACTTAAA
1 GGTACTAAA-TTCGCCGTTACGACTTAAA
32202 CCTTCCTCCT
Statistics
Matches: 246, Mismatches: 53, Indels: 40
0.73 0.16 0.12
Matches are distributed among these distances:
144 6 0.02
145 75 0.30
146 146 0.59
147 19 0.08
ACGTcount: A:0.18, C:0.25, G:0.19, T:0.38
Consensus pattern (144 bp):
GGTACTAAATTCGCCGTTACGACTTAAATCTTTCCCTTCATGTCTTTGAGGTACTAGGTTCGCCA
TTGCGACTTAAACCTTTCCCTTATGTCTTCGAGGTACTGGATTCACGTTGCGGCTTAAATCTTTC
CCTTCATGTTTCTA
Found at i:36950 original size:18 final size:19
Alignment explanation
Indices: 36920--36963 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 19
36910 ACTGGTCTTG
36920 CTTTTCTCATCTCTCGCTT
1 CTTTTCTCATCTCTCGCTT
**
36939 CTTTTC-CATCTCTTTCTT
1 CTTTTCTCATCTCTCGCTT
36957 CTTTTCT
1 CTTTTCT
36964 TTCACATCTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 16 0.73
19 6 0.27
ACGTcount: A:0.05, C:0.34, G:0.02, T:0.59
Consensus pattern (19 bp):
CTTTTCTCATCTCTCGCTT
Found at i:44597 original size:20 final size:23
Alignment explanation
Indices: 44551--44604 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 23
44541 TATTATTATT
**
44551 ATTATTATTATTATTAAATAGTT
1 ATTATTATTATTATTAAATAGAA
44574 ATTATTATTATT-TTAAA-A-AA
1 ATTATTATTATTATTAAATAGAA
44594 ATTATTATTAT
1 ATTATTATTAT
44605 CACTATTATC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 11 0.38
21 1 0.03
22 5 0.17
23 12 0.41
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.56
Consensus pattern (23 bp):
ATTATTATTATTATTAAATAGAA
Found at i:44604 original size:3 final size:3
Alignment explanation
Indices: 44525--44585 Score: 86
Period size: 3 Copynumber: 19.7 Consensus size: 3
44515 TTCAACTTTT
* *
44525 TTA TTA ATA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTAA ATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA
44571 GTTA TTA TTA TTA TT
1 -TTA TTA TTA TTA TT
44586 TTAAAAAAAT
Statistics
Matches: 52, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
3 48 0.92
4 4 0.08
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:45329 original size:17 final size:17
Alignment explanation
Indices: 45307--45363 Score: 71
Period size: 17 Copynumber: 3.4 Consensus size: 17
45297 TTTTTATTTT
*
45307 TTTAAATTTAGAATAAA
1 TTTAAATTTAAAATAAA
*
45324 TTTAAAATTAAAATAAA
1 TTTAAATTTAAAATAAA
*
45341 TCT-AATCTTAAAATAAA
1 TTTAAAT-TTAAAATAAA
45358 TTTAAA
1 TTTAAA
45364 ATGAGTTTGA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
16 2 0.06
17 29 0.88
18 2 0.06
ACGTcount: A:0.56, C:0.04, G:0.02, T:0.39
Consensus pattern (17 bp):
TTTAAATTTAAAATAAA
Found at i:47302 original size:24 final size:24
Alignment explanation
Indices: 47253--47302 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
47243 TTGGATATAT
* * *
47253 TAAATATAGATATTGTTGTGTCAA
1 TAAATATAAATATTATTGTATCAA
*
47277 TAAATATAAATATTATTGTATTAA
1 TAAATATAAATATTATTGTATCAA
47301 TA
1 TA
47303 TGATATGTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.44, C:0.02, G:0.10, T:0.44
Consensus pattern (24 bp):
TAAATATAAATATTATTGTATCAA
Found at i:48692 original size:30 final size:30
Alignment explanation
Indices: 48648--48735 Score: 158
Period size: 30 Copynumber: 2.9 Consensus size: 30
48638 GTTTAGAGAG
*
48648 TTGACAAAATATCTCTTATGTGAGATTTTTT
1 TTGA-AAAAAATCTCTTATGTGAGATTTTTT
48679 TTGAAAAAAATCTCTTATGTGAGATTTTTT
1 TTGAAAAAAATCTCTTATGTGAGATTTTTT
48709 TTGAAAAAAATCTCTTATGTGAGATTT
1 TTGAAAAAAATCTCTTATGTGAGATTT
48736 GATGAAGAGT
Statistics
Matches: 56, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
30 52 0.93
31 4 0.07
ACGTcount: A:0.33, C:0.08, G:0.14, T:0.45
Consensus pattern (30 bp):
TTGAAAAAAATCTCTTATGTGAGATTTTTT
Found at i:51876 original size:327 final size:329
Alignment explanation
Indices: 51434--52056 Score: 810
Period size: 327 Copynumber: 1.9 Consensus size: 329
51424 AATCTTTTGA
* * * * *
51434 ATTTTGAATTCTTCGCGTAGTTTAATCTGGTCTAAATCTCGGAAGCGTCGTCAGTTCGTTCGTCA
1 ATTTTGAATTATTCGAGTAGTGTAAGCTGATCTAAATCTCGGAA-CGTCG-CAGTTCGTTCGTCA
* ** * *
51499 GCTCAGATTTGTACTTCTCGAATTGAATTTATGTTTGTTATGGATTGGATTTAGATTTCTCTTTT
64 GCTCAGATTTGTACTTCTCGAATTGAATTTATATTTGTTACAGATTGGATTTAGA-TTATCATTT
*
51564 AAGTGTTGATCTGCTAAAAAATTGGTGTGTAAAATCTTTTGGATTTTCAATTATTCGCGTAGTGT
128 ---TGTTGATCTGCTAAAAAATTGGTGTGTAAAATCTTTTGAATTTTCAATTATTCGCGTAGTGT
* * * *
51629 TATCTGATCTGAA-TCTCTG-A-TCTTGAGTTCGTTGGTTTGCTCAGATTTGTAATTCTCGAATT
190 CATCTGATCT-AATTCTCAGAAGTCGTGAGTTCCTTGGTTTGCTCAGATTTGTAATTCTCGAATT
51691 GAATTTATGTTTGTAAC-AATTGGATTTAGATTATTTTTCATATGTTACTCCGCTCGGAAATTGT
254 GAATTTATGTTTGTAACGAATTGGATTTAGATTATTTTTCATATGTTACTCCGCTCGGAAATTGT
51755 TGTGTCTAATC
319 TGTGTCTAATC
* * **
51766 ATTTTGAATTATTCGAGTAGTGTCAGCTGATCTAAATCTCGGAA-GT-G-AGTTCGTTGGTTTGC
1 ATTTTGAATTATTCGAGTAGTGTAAGCTGATCTAAATCTCGGAACGTCGCAGTTCGTTCGTCAGC
* *
51828 TCAGATTTGTACTTTTCTAATTGAATTTATATTTGTTACAGATTGGATTTAGATTATCATTTTGT
66 TCAGATTTGTACTTCTCGAATTGAATTTATATTTGTTACAGATTGGATTTAGATTATCATTTTGT
* * * * *
51893 TGATCTGCTCAGAAATTGTTGTGTCAAATCTTTTGAATTTTGAATTATTCGCGTAGTGTCATCTG
131 TGATCTGCTAAAAAATTGGTGTGTAAAATCTTTTGAATTTTCAATTATTCGCGTAGTGTCATCTG
** * *
51958 ATCTAATTCTCAGAAGCGTCGTGAGTTCCTTGGTTTGCTTGGATTTGTATTTCTCGATTTGAATT
196 ATCTAATTCTCAGAA--GTCGTGAGTTCCTTGGTTTGCTCAGATTTGTAATTCTCGAATTGAATT
* * * *
52023 TATGTTTGTTACGGATTGGATTTAGCTTCTTTTT
259 TATGTTTGTAACGAATTGGATTTAGATTATTTTT
52057 ACGTGTTGCT
Statistics
Matches: 251, Mismatches: 34, Indels: 16
0.83 0.11 0.05
Matches are distributed among these distances:
322 2 0.01
323 70 0.28
324 1 0.00
326 7 0.03
327 112 0.45
328 18 0.07
329 1 0.00
330 2 0.01
332 38 0.15
ACGTcount: A:0.22, C:0.13, G:0.20, T:0.45
Consensus pattern (329 bp):
ATTTTGAATTATTCGAGTAGTGTAAGCTGATCTAAATCTCGGAACGTCGCAGTTCGTTCGTCAGC
TCAGATTTGTACTTCTCGAATTGAATTTATATTTGTTACAGATTGGATTTAGATTATCATTTTGT
TGATCTGCTAAAAAATTGGTGTGTAAAATCTTTTGAATTTTCAATTATTCGCGTAGTGTCATCTG
ATCTAATTCTCAGAAGTCGTGAGTTCCTTGGTTTGCTCAGATTTGTAATTCTCGAATTGAATTTA
TGTTTGTAACGAATTGGATTTAGATTATTTTTCATATGTTACTCCGCTCGGAAATTGTTGTGTCT
AATC
Found at i:52160 original size:167 final size:166
Alignment explanation
Indices: 51416--52209 Score: 682
Period size: 167 Copynumber: 4.8 Consensus size: 166
51406 TTCGAAATTG
* * * * * * * *
51416 TTGTGTCAAATCTTTTGAATTTTGAATTCTTCGCGTAGTTTAATCTGGTCTA-AATCTCGGAAGC
1 TTGTGTCAAATCTTTTGAATTTTGAATTATTCACGTAGTGTCATCTGATC-AGAAACTC-TAAGT
* * * ** * **
51480 GTCGTCAGTTCGTTCGTCAGCTCAGATTTGTACTTCTCGAATTGAATTTATGTTTGTTATGGATT
64 GAC-TGAGTTCGTTGGTTTGCTCAGATTTGTATTTCTCGAATTGAATTTATGTTTGTTACAGATT
* * *
51545 GGATTTAGATTTCTCTTTTAAGTGTTGATCTGCTAAAAAAT
128 GGATTTAGA-TTATCTTTT-AGTGTTGATCTGCTCAGAAAT
* * * * * * * *
51586 TGGTGTGTAAAATCTTTTGGATTTTCAATTATTCGCGTAGTGTTATCTGATCTGAATCTCTGA-T
1 T--TGTGTCAAATCTTTTGAATTTTGAATTATTCACGTAGTGTCATCTGATCAGAAACTCTAAGT
* *
51650 --CTTGAGTTCGTTGGTTTGCTCAGATTTGTAATTCTCGAATTGAATTTATGTTTGTAACA-ATT
64 GAC-TGAGTTCGTTGGTTTGCTCAGATTTGTATTTCTCGAATTGAATTTATGTTTGTTACAGATT
* * *
51712 GGATTTAGATTAT-TTTTCATATGTT-ACTCCGCTCGGAAATT
128 GGATTTAGATTATCTTTT-A-GTGTTGA-TCTGCTCAGAAA-T
* * * *
51753 GTTGTGTCTAATC------ATTTTGAATTATTCGA-GTAGTGTCAGCTGATC-TAAA-TCT-CG-
1 -TTGTGTCAAATCTTTTGAATTTTGAATTATTC-ACGTAGTGTCATCTGATCAGAAACTCTAAGT
* * *
51807 GAAGTGAGTTCGTTGGTTTGCTCAGATTTGTACTTT-TCTAATTGAATTTATATTTGTTACAGAT
64 G-ACTGAGTTCGTTGGTTTGCTCAGATTTGTA-TTTCTCGAATTGAATTTATGTTTGTTACAGAT
*
51871 TGGATTTAGATTATCATTT--TGTTGATCTGCTCAGAAATT
127 TGGATTTAGATTATCTTTTAGTGTTGATCTGCTCAGAAA-T
* ** *
51910 GTTGTGTCAAATCTTTTGAATTTTGAATTATTCGCGTAGTGTCATCTGATCTA-ATTCTCAGAAG
1 -TTGTGTCAAATCTTTTGAATTTTGAATTATTCACGTAGTGTCATCTGATC-AGAAACTC-TAAG
* * * ** * *
51974 CGTCGTGAGTTCCTTGGTTTGCTTGGATTTGTATTTCTCGATTTGAATTTATGTTTGTTACGGAT
63 TGAC-TGAGTTCGTTGGTTTGCTCAGATTTGTATTTCTCGAATTGAATTTATGTTTGTTACAGAT
* * *
52039 TGGATTTAGCTTCT-TTTTACGTGTTGCTCTGCTCAGAAA-
127 TGGATTTAGATTATCTTTTA-GTGTTGATCTGCTCAGAAAT
*
52078 TTGTGTCAAATCTTTTGAATTTTGAATTATTCACGTATTGTCATCTGATCAGAAACTCATAAGTG
1 TTGTGTCAAATCTTTTGAATTTTGAATTATTCACGTAGTGTCATCTGATCAGAAACTC-TAAGTG
* * *
52143 ACTCGAGTTTGTTGGTTTGCTCAGATTTGTATATCTCGAAATGAATTTATGTTTGTTACAGATTG
65 ACT-GAGTTCGTTGGTTTGCTCAGATTTGTATTTCTCGAATTGAATTTATGTTTGTTACAGATTG
52208 GA
129 GA
52210 CTTGGGTTTT
Statistics
Matches: 509, Mismatches: 79, Indels: 75
0.77 0.12 0.11
Matches are distributed among these distances:
157 28 0.06
158 4 0.01
159 52 0.10
160 45 0.09
161 3 0.01
163 29 0.06
164 1 0.00
165 8 0.02
166 26 0.05
167 133 0.26
168 113 0.22
170 18 0.04
171 1 0.00
172 48 0.09
ACGTcount: A:0.23, C:0.13, G:0.20, T:0.44
Consensus pattern (166 bp):
TTGTGTCAAATCTTTTGAATTTTGAATTATTCACGTAGTGTCATCTGATCAGAAACTCTAAGTGA
CTGAGTTCGTTGGTTTGCTCAGATTTGTATTTCTCGAATTGAATTTATGTTTGTTACAGATTGGA
TTTAGATTATCTTTTAGTGTTGATCTGCTCAGAAAT
Found at i:58437 original size:30 final size:30
Alignment explanation
Indices: 58323--58666 Score: 159
Period size: 30 Copynumber: 11.6 Consensus size: 30
58313 GAAAATTTGA
* *
58323 GGTCGAAAATGTGATTTTTG-GATGTTC-GG
1 GGTC-AAAATGTAATTTTTGAGAAGTTCAGG
* * * *
58352 GGGCAAAATGGTAATTTTGGAAAAGTTCA-A
1 GGTCAAAAT-GTAATTTTTGAGAAGTTCAGG
* * *
58382 GGTCAAAATGGCAATCTTT-ACGAAGTTCGGG
1 GGTCAAAAT-GTAATTTTTGA-GAAGTTCAGG
* **
58413 GGTCAAAATGTAATTTTTGTGAAGTTTGGG
1 GGTCAAAATGTAATTTTTGAGAAGTTCAGG
* * * *
58443 GGTCAAATTTTAACTTTTT-TGAAGTTCAAG
1 GGTCAAAATGTAA-TTTTTGAGAAGTTCAGG
* * * * *
58473 GGTAAAAAATGCAATTTTGGAAAAGTT-TGG
1 GGT-CAAAATGTAATTTTTGAGAAGTTCAGG
* * * * * *
58503 GGTGAAAATGTGATTTTGGA-AAATTTAAG
1 GGTCAAAATGTAATTTTTGAGAAGTTCAGG
* * *
58532 GGTTAAAATGTAATTTTGGAGAAGTTTTA-G
1 GGTCAAAATGTAATTTTTGAGAAG-TTCAGG
* * *
58562 GGTCAAAATGTAATTTTGGA-AATTTTAGG
1 GGTCAAAATGTAATTTTTGAGAAGTTCAGG
* * *
58591 GGTCAAAGTGTGATTTTTGAGAAGTTCAAG
1 GGTCAAAATGTAATTTTTGAGAAGTTCAGG
* * * * *
58621 GGT-TAAATGCAATTTTAGAAAAGTTTAGG
1 GGTCAAAATGTAATTTTTGAGAAGTTCAGG
* * *
58650 GGTTAAAGTGAAATTTT
1 GGTCAAAATGTAATTTT
58667 GGAAGAGTTT
Statistics
Matches: 241, Mismatches: 59, Indels: 29
0.73 0.18 0.09
Matches are distributed among these distances:
28 13 0.05
29 86 0.36
30 113 0.47
31 29 0.12
ACGTcount: A:0.33, C:0.05, G:0.27, T:0.35
Consensus pattern (30 bp):
GGTCAAAATGTAATTTTTGAGAAGTTCAGG
Found at i:58510 original size:29 final size:29
Alignment explanation
Indices: 58478--58688 Score: 167
Period size: 29 Copynumber: 7.2 Consensus size: 29
58468 TCAAGGGTAA
* *
58478 AAAATGCAATTTTGGAAAAGTTTGGGGTG
1 AAAATGTAATTTTGGAAAAGTTTGGGGTT
* *
58507 AAAATGTGATTTTGGAAAA-TTTAAGGGTT
1 AAAATGTAATTTTGGAAAAGTTT-GGGGTT
* * *
58536 AAAATGTAATTTTGGAGAAGTTTTAGGGTC
1 AAAATGTAATTTTGGAAAAG-TTTGGGGTT
* *
58566 AAAATGTAATTTTGG-AAATTTTAGGGGTC
1 AAAATGTAATTTTGGAAAAGTTT-GGGGTT
* * * * **
58595 AAAGTGTGATTTTTGAGAAGTTCAAGGGTT
1 AAAATGTAATTTTGGAAAAGTT-TGGGGTT
* *
58625 -AAATGCAATTTTAGAAAAGTTTAGGGGTT
1 AAAATGTAATTTTGGAAAAGTTT-GGGGTT
* * *
58654 AAAGTGAAATTTTGGAAGAGTTTGAGGGTT
1 AAAATGTAATTTTGGAAAAGTTTG-GGGTT
58684 AAAAT
1 AAAAT
58689 ATGATTTCTA
Statistics
Matches: 143, Mismatches: 30, Indels: 17
0.75 0.16 0.09
Matches are distributed among these distances:
28 6 0.04
29 79 0.55
30 55 0.38
31 3 0.02
ACGTcount: A:0.36, C:0.02, G:0.27, T:0.35
Consensus pattern (29 bp):
AAAATGTAATTTTGGAAAAGTTTGGGGTT
Found at i:58579 original size:59 final size:58
Alignment explanation
Indices: 58478--58688 Score: 201
Period size: 59 Copynumber: 3.6 Consensus size: 58
58468 TCAAGGGTAA
* * * * *
58478 AAAATGCAATTTTGGAAAAG-TTTGGGGTGAAAATGTGATTTTGGAAAATTTAAGGGTT
1 AAAATGTAATTTTGGAGAAGTTTTAGGGT-AAAATGTAATTTTGGAAAATTTAGGGGTT
* *
58536 AAAATGTAATTTTGGAGAAGTTTTAGGGTCAAAATGTAATTTTGGAAATTTTAGGGGTC
1 AAAATGTAATTTTGGAGAAGTTTTAGGGT-AAAATGTAATTTTGGAAAATTTAGGGGTT
* * * ** * * *
58595 AAAGTGTGATTTTTGAGAAGTTCAAGGGTTAAATGCAATTTTAGAAAAGTTTAGGGGTT
1 AAAATGTAATTTTGGAGAAGTTTTAGGGTAAAATGTAATTTTGGAAAA-TTTAGGGGTT
* * *
58654 AAAGTGAAATTTTGGA-AGAGTTTGAGGGTTAAAAT
1 AAAATGTAATTTTGGAGA-AGTTTTAGGG-TAAAAT
58689 ATGATTTCTA
Statistics
Matches: 125, Mismatches: 24, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
58 34 0.27
59 86 0.69
60 5 0.04
ACGTcount: A:0.36, C:0.02, G:0.27, T:0.35
Consensus pattern (58 bp):
AAAATGTAATTTTGGAGAAGTTTTAGGGTAAAATGTAATTTTGGAAAATTTAGGGGTT
Found at i:60807 original size:61 final size:62
Alignment explanation
Indices: 60695--60814 Score: 152
Period size: 61 Copynumber: 2.0 Consensus size: 62
60685 CAGGTATAAT
* * ** * *
60695 AATAAATTTAACTTTCAATATTTAACCATTTTGTTAATTTAATCCCGATTTT-AAAATTTTC
1 AATAAATTTAACTCTCAATATTTAAACATACTGTCAATTTAATCCCAATTTTGAAAATTTTC
* **
60756 AATAAATTTAACTCTCAATATTTAAATATACTGTCAATTTAATCTTAATTTTGAAAATT
1 AATAAATTTAACTCTCAATATTTAAACATACTGTCAATTTAATCCCAATTTTGAAAATT
60815 AAAAATTGAA
Statistics
Matches: 49, Mismatches: 9, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
61 43 0.88
62 6 0.12
ACGTcount: A:0.39, C:0.12, G:0.03, T:0.46
Consensus pattern (62 bp):
AATAAATTTAACTCTCAATATTTAAACATACTGTCAATTTAATCCCAATTTTGAAAATTTTC
Found at i:61017 original size:23 final size:22
Alignment explanation
Indices: 60991--61060 Score: 67
Period size: 23 Copynumber: 3.3 Consensus size: 22
60981 TATTAATTGT
60991 GATTTTTGATTTAGGGTTCATTC
1 GATTTTTGATTTAGGGTT-ATTC
* *
61014 GA-TTTTGATTT--GGAT-TTG
1 GATTTTTGATTTAGGGTTATTC
*
61032 GATTTTTTATTTAGGGTTATTTC
1 GATTTTTGATTTAGGGTTA-TTC
61055 GATTTT
1 GATTTT
61061 GTTTGGATTT
Statistics
Matches: 37, Mismatches: 5, Indels: 10
0.71 0.10 0.19
Matches are distributed among these distances:
18 4 0.11
19 8 0.22
20 3 0.08
21 3 0.08
22 9 0.24
23 10 0.27
ACGTcount: A:0.17, C:0.04, G:0.21, T:0.57
Consensus pattern (22 bp):
GATTTTTGATTTAGGGTTATTC
Found at i:61048 original size:41 final size:40
Alignment explanation
Indices: 60991--61075 Score: 127
Period size: 41 Copynumber: 2.1 Consensus size: 40
60981 TATTAATTGT
60991 GATTTTTGATTTAGGGTTCA-TTCGATTTTGATTTGGATTTG
1 GATTTTTGATTTAGGGTT-ATTTCGATTTTG-TTTGGATTTG
* *
61032 GATTTTTTATTTAGGGTTATTTCGATTTTGTTTGGATTTT
1 GATTTTTGATTTAGGGTTATTTCGATTTTGTTTGGATTTG
61072 GATT
1 GATT
61076 ACTATTGTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
40 14 0.34
41 27 0.66
ACGTcount: A:0.16, C:0.04, G:0.22, T:0.58
Consensus pattern (40 bp):
GATTTTTGATTTAGGGTTATTTCGATTTTGTTTGGATTTG
Found at i:61266 original size:30 final size:31
Alignment explanation
Indices: 61199--61269 Score: 103
Period size: 31 Copynumber: 2.3 Consensus size: 31
61189 ACTATTAATC
61199 AGTGACTGTTTTGTCACTTTTCGATAACGTT
1 AGTGACTGTTTTGTCACTTTTCGATAACGTT
61230 AGTGACTGTTTTGTCACATTTTC-A-AA-GTT
1 AGTGACTGTTTTGTCAC-TTTTCGATAACGTT
61259 GAGTGACTGTT
1 -AGTGACTGTT
61270 GTGTTAAATG
Statistics
Matches: 38, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
29 3 0.08
30 12 0.32
31 18 0.47
32 5 0.13
ACGTcount: A:0.21, C:0.14, G:0.21, T:0.44
Consensus pattern (31 bp):
AGTGACTGTTTTGTCACTTTTCGATAACGTT
Done.