Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01013785.1 Kokia drynarioides strain JFW-HI SEQ_128813, 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: 192177
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Warning! 48 characters in sequence are not A, C, G, or T
Found at i:14179 original size:27 final size:27
Alignment explanation
Indices: 14123--14181 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
14113 GATGAGGAGA
* *
14123 AAGAAGAAGTAAAAAAAGAAGAACGAG
1 AAGAAGAAGGAAAAAAAGAAGAAAGAG
* *
14150 AAGAGGAAGGAAAAGAAGGAAGAAAG-G
1 AAGAAGAAGGAAAA-AAAGAAGAAAGAG
14177 AAGAA
1 AAGAA
14182 CCTACTGTCA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
27 17 0.65
28 9 0.35
ACGTcount: A:0.64, C:0.02, G:0.32, T:0.02
Consensus pattern (27 bp):
AAGAAGAAGGAAAAAAAGAAGAAAGAG
Found at i:29500 original size:15 final size:17
Alignment explanation
Indices: 29469--29507 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
29459 AAAAACAAAA
29469 ATAAGATAAAGAAGAAGG
1 ATAA-ATAAAGAAGAAGG
29487 A-AAATAAA-AAGAAGG
1 ATAAATAAAGAAGAAGG
29502 ATAAAT
1 ATAAAT
29508 TGCTGAAATG
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 8 0.40
16 9 0.45
17 2 0.10
18 1 0.05
ACGTcount: A:0.67, C:0.00, G:0.21, T:0.13
Consensus pattern (17 bp):
ATAAATAAAGAAGAAGG
Found at i:38720 original size:16 final size:15
Alignment explanation
Indices: 38677--38743 Score: 57
Period size: 14 Copynumber: 4.5 Consensus size: 15
38667 TTTGTTTGGA
**
38677 AAAAATATTTT-TAA
1 AAAAATATTTTATTT
* *
38691 AAAAATAATCTATTT
1 AAAAATATTTTATTT
38706 AAAAATATTTTTATTT
1 AAAAATA-TTTTATTT
*
38722 CAAAAGTATTTT-TTT
1 -AAAAATATTTTATTT
38737 AAAAATA
1 AAAAATA
38744 ATACTATAAC
Statistics
Matches: 42, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
14 15 0.36
15 11 0.26
16 10 0.24
17 6 0.14
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.45
Consensus pattern (15 bp):
AAAAATATTTTATTT
Found at i:38726 original size:17 final size:16
Alignment explanation
Indices: 38701--38743 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
38691 AAAAATAATC
38701 TATTTAAAAATATTTT
1 TATTTAAAAATATTTT
*
38717 TATTTCAAAAGTA-TTT
1 TATTT-AAAAATATTTT
38733 T-TTTAAAAATA
1 TATTTAAAAATA
38744 ATACTATAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
14 6 0.25
15 3 0.12
16 9 0.38
17 6 0.25
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (16 bp):
TATTTAAAAATATTTT
Found at i:41101 original size:19 final size:19
Alignment explanation
Indices: 41077--41115 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
41067 GTTGAACACG
41077 AAGTCTAGATTCAAATCCA
1 AAGTCTAGATTCAAATCCA
41096 AAGTCTAGATTCAAATCCA
1 AAGTCTAGATTCAAATCCA
41115 A
1 A
41116 CTCTATATAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.44, C:0.21, G:0.10, T:0.26
Consensus pattern (19 bp):
AAGTCTAGATTCAAATCCA
Found at i:44354 original size:28 final size:28
Alignment explanation
Indices: 44314--44376 Score: 108
Period size: 28 Copynumber: 2.2 Consensus size: 28
44304 ATTAGGGTAA
*
44314 CACACTTATGAAAAGGTCATTGGACAAG
1 CACAATTATGAAAAGGTCATTGGACAAG
*
44342 CACAATTATGAAAAGGTCGTTGGACAAG
1 CACAATTATGAAAAGGTCATTGGACAAG
44370 CACAATT
1 CACAATT
44377 TGAGTTACTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.40, C:0.17, G:0.21, T:0.22
Consensus pattern (28 bp):
CACAATTATGAAAAGGTCATTGGACAAG
Found at i:47434 original size:58 final size:57
Alignment explanation
Indices: 47366--47485 Score: 134
Period size: 57 Copynumber: 2.1 Consensus size: 57
47356 AGAAATGGTC
* * *
47366 AAATGGAGAAATAGGAAA-CATTTGAAAATGATTAAGATTTTCTCGAAAATGAAAATGA
1 AAATGAAGAAATA--AAATCATTTGAAAATAAATAAGATTTTCTCGAAAATGAAAATGA
* ** * * *
47424 AAATGAAGAAATAAAATCATTTGGAAATAAATGTGATTTTCTCTAAAATGGAAATGG
1 AAATGAAGAAATAAAATCATTTGAAAATAAATAAGATTTTCTCGAAAATGAAAATGA
47481 AAATG
1 AAATG
47486 GAAATGAAAA
Statistics
Matches: 52, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
56 3 0.06
57 37 0.71
58 12 0.23
ACGTcount: A:0.49, C:0.05, G:0.18, T:0.28
Consensus pattern (57 bp):
AAATGAAGAAATAAAATCATTTGAAAATAAATAAGATTTTCTCGAAAATGAAAATGA
Found at i:49616 original size:31 final size:29
Alignment explanation
Indices: 49541--49617 Score: 93
Period size: 29 Copynumber: 2.6 Consensus size: 29
49531 GCCTATGGGC
*
49541 TTATTTCTAAAATCCAATAAAACATTACT
1 TTATTTCAAAAATCCAATAAAACATTACT
* *
49570 TTATTTCTAAAATCCAATAAAACATTGTTATT
1 TTATTTCAAAAATCCAATAAAACA---TTACT
49602 TTATTT-AAAAATCCAA
1 TTATTTCAAAAATCCAA
49618 ACTTTTAACA
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
29 24 0.56
31 9 0.21
32 10 0.23
ACGTcount: A:0.44, C:0.14, G:0.01, T:0.40
Consensus pattern (29 bp):
TTATTTCAAAAATCCAATAAAACATTACT
Found at i:52331 original size:18 final size:18
Alignment explanation
Indices: 52296--52330 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
52286 CATTTCTTTC
52296 ACTTTAAGTTTTATTTTT
1 ACTTTAAGTTTTATTTTT
52314 ACTTTAA-TTTTATTTTT
1 ACTTTAAGTTTTATTTTT
52331 TTACTCTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.23, C:0.06, G:0.03, T:0.69
Consensus pattern (18 bp):
ACTTTAAGTTTTATTTTT
Found at i:56042 original size:23 final size:23
Alignment explanation
Indices: 56012--56055 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
56002 CTTTGTCAGT
56012 GCAGGTATCCTCATTGGCCAAGC
1 GCAGGTATCCTCATTGGCCAAGC
56035 GCAGGTATCCTCATTGGCCAA
1 GCAGGTATCCTCATTGGCCAA
56056 TATTATAAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.23
Consensus pattern (23 bp):
GCAGGTATCCTCATTGGCCAAGC
Found at i:60433 original size:14 final size:15
Alignment explanation
Indices: 60414--60447 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
60404 GACGTATTTC
60414 TTTGTTTC-CTTTTA
1 TTTGTTTCACTTTTA
*
60428 TTTGTTTCACTTTTT
1 TTTGTTTCACTTTTA
60443 TTTGT
1 TTTGT
60448 GTTGTTTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.06, C:0.12, G:0.09, T:0.74
Consensus pattern (15 bp):
TTTGTTTCACTTTTA
Found at i:85246 original size:23 final size:25
Alignment explanation
Indices: 85215--85276 Score: 78
Period size: 24 Copynumber: 2.6 Consensus size: 25
85205 AAATGATAAG
85215 AAATGTTAATA-ATAA-TGTCAGTGC
1 AAATGTTAATATA-AAGTGTCAGTGC
85239 AAAT-TTAATATAAAGTGTCAGTGC
1 AAATGTTAATATAAAGTGTCAGTGC
*
85263 AACTG-TAATATAAA
1 AAATGTTAATATAAA
85277 ATGAATTGAT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
23 8 0.24
24 26 0.76
ACGTcount: A:0.45, C:0.08, G:0.15, T:0.32
Consensus pattern (25 bp):
AAATGTTAATATAAAGTGTCAGTGC
Found at i:91689 original size:12 final size:11
Alignment explanation
Indices: 91664--91709 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 11
91654 TAATAATAAA
91664 TTTTTTTTCTTC
1 TTTTTTTTC-TC
91676 TTTTCTTTTCTC
1 TTTT-TTTTCTC
91688 TTTCTTTTTCTC
1 TTT-TTTTTCTC
91700 ATTTTTTTTC
1 -TTTTTTTTC
91710 AGATGACTGA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
12 22 0.71
13 9 0.29
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (11 bp):
TTTTTTTTCTC
Found at i:97390 original size:29 final size:29
Alignment explanation
Indices: 97314--97373 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
97304 GCAATTCAGA
97314 ATGTTTCAGTTCCAAAGTTGTGTCACTAC
1 ATGTTTCAGTTCCAAAGTTGTGTCACTAC
97343 ATGTTTCAGTTCCAAAGTTGTGTCACTAC
1 ATGTTTCAGTTCCAAAGTTGTGTCACTAC
97372 AT
1 AT
97374 TCTTAGTATC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.25, C:0.20, G:0.17, T:0.38
Consensus pattern (29 bp):
ATGTTTCAGTTCCAAAGTTGTGTCACTAC
Found at i:97434 original size:16 final size:16
Alignment explanation
Indices: 97413--97443 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
97403 GTTTTCCGTA
97413 GTTTTCAGAATCTAGT
1 GTTTTCAGAATCTAGT
*
97429 GTTTTCAGAGTCTAG
1 GTTTTCAGAATCTAG
97444 AGTCTCACAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.23, C:0.13, G:0.23, T:0.42
Consensus pattern (16 bp):
GTTTTCAGAATCTAGT
Found at i:108711 original size:11 final size:11
Alignment explanation
Indices: 108680--108719 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
108670 AAGGCCCAAC
108680 GACGGTGGTC-
1 GACGGTGGTCT
*
108690 GACGATGGTCT
1 GACGGTGGTCT
*
108701 GATGGTGGTCT
1 GACGGTGGTCT
108712 GACGGTGG
1 GACGGTGG
108720 CAACACAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
10 9 0.36
11 16 0.64
ACGTcount: A:0.12, C:0.15, G:0.47, T:0.25
Consensus pattern (11 bp):
GACGGTGGTCT
Found at i:112300 original size:43 final size:42
Alignment explanation
Indices: 112189--112337 Score: 167
Period size: 42 Copynumber: 3.5 Consensus size: 42
112179 GGAAGTTTAT
* *
112189 CTGCAATACTAGTGG-TTGTCCACATATTTCTAGCAGCTTGA
1 CTGCAATACTAGTGGCTTGTCCACATATTTTTGGCAGCTTGA
* * *
112230 TTGCAATGCTAGTGGCTTGTCCTCATATTTTTGGCAGCTTGA
1 CTGCAATACTAGTGGCTTGTCCACATATTTTTGGCAGCTTGA
* * *
112272 CTGCATTTACTAGTGGCTCGTCCACATATTTTTGGCAG-TTTA
1 CTGCA-ATACTAGTGGCTTGTCCACATATTTTTGGCAGCTTGA
***
112314 TCTATGATACTAGTGGCTTGTCCA
1 -CTGCAATACTAGTGGCTTGTCCA
112338 TAAACTAGTT
Statistics
Matches: 89, Mismatches: 16, Indels: 5
0.81 0.15 0.05
Matches are distributed among these distances:
41 13 0.15
42 46 0.52
43 30 0.34
ACGTcount: A:0.20, C:0.21, G:0.21, T:0.38
Consensus pattern (42 bp):
CTGCAATACTAGTGGCTTGTCCACATATTTTTGGCAGCTTGA
Found at i:122342 original size:15 final size:15
Alignment explanation
Indices: 122324--122387 Score: 58
Period size: 15 Copynumber: 4.3 Consensus size: 15
122314 CACTCAGGCC
*
122324 GCGAACACTGA-AGCT
1 GCGAACACTGACA-TT
* *
122339 GCGAGCACTCACATT
1 GCGAACACTGACATT
*
122354 GCGAACACTGATATT
1 GCGAACACTGACATT
* *
122369 GCGAACACTCACGTT
1 GCGAACACTGACATT
122384 GCGA
1 GCGA
122388 GCATGGACGA
Statistics
Matches: 39, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
15 38 0.97
16 1 0.03
ACGTcount: A:0.30, C:0.28, G:0.23, T:0.19
Consensus pattern (15 bp):
GCGAACACTGACATT
Found at i:122358 original size:30 final size:30
Alignment explanation
Indices: 122324--122387 Score: 85
Period size: 30 Copynumber: 2.1 Consensus size: 30
122314 CACTCAGGCC
*
122324 GCGAACACTGA-AGCTGCGAGCACTCACATT
1 GCGAACACTGATA-CTGCGAACACTCACATT
* *
122354 GCGAACACTGATATTGCGAACACTCACGTT
1 GCGAACACTGATACTGCGAACACTCACATT
122384 GCGA
1 GCGA
122388 GCATGGACGA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
30 29 0.97
31 1 0.03
ACGTcount: A:0.30, C:0.28, G:0.23, T:0.19
Consensus pattern (30 bp):
GCGAACACTGATACTGCGAACACTCACATT
Found at i:134193 original size:33 final size:33
Alignment explanation
Indices: 134155--134222 Score: 127
Period size: 33 Copynumber: 2.1 Consensus size: 33
134145 ACCAAGGTAC
134155 ACGCCATTTACTAAAATAACAAAAAAAAAATTT
1 ACGCCATTTACTAAAATAACAAAAAAAAAATTT
*
134188 ACGCCATTTACTAAAATAACAGAAAAAAAATTT
1 ACGCCATTTACTAAAATAACAAAAAAAAAATTT
134221 AC
1 AC
134223 TCTTTTCTTG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.56, C:0.16, G:0.04, T:0.24
Consensus pattern (33 bp):
ACGCCATTTACTAAAATAACAAAAAAAAAATTT
Found at i:139157 original size:10 final size:10
Alignment explanation
Indices: 139138--139184 Score: 87
Period size: 10 Copynumber: 4.8 Consensus size: 10
139128 TCTATATTAT
139138 CAAT-CCACG
1 CAATGCCACG
139147 CAATGCCACG
1 CAATGCCACG
139157 CAATGCCACG
1 CAATGCCACG
139167 CAATGCCACG
1 CAATGCCACG
139177 CAATGCCA
1 CAATGCCA
139185 ATGAGAAGAT
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
9 4 0.11
10 33 0.89
ACGTcount: A:0.32, C:0.40, G:0.17, T:0.11
Consensus pattern (10 bp):
CAATGCCACG
Found at i:145591 original size:9 final size:9
Alignment explanation
Indices: 145577--145602 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
145567 TTATATAGGA
145577 AGAGTTCAG
1 AGAGTTCAG
145586 AGAGTTCAG
1 AGAGTTCAG
145595 AGAGTTCA
1 AGAGTTCA
145603 ACTATGATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.35, C:0.12, G:0.31, T:0.23
Consensus pattern (9 bp):
AGAGTTCAG
Found at i:150919 original size:17 final size:17
Alignment explanation
Indices: 150888--150923 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
150878 ACAGTATACA
150888 TTTTTAATCTAAAATATT
1 TTTTTAATCTAAAAT-TT
150906 TTTTTAATCT-AAATTT
1 TTTTTAATCTAAAATTT
150922 TT
1 TT
150924 AATGCCTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 4 0.22
17 4 0.22
18 10 0.56
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (17 bp):
TTTTTAATCTAAAATTT
Found at i:151098 original size:16 final size:17
Alignment explanation
Indices: 151063--151108 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
151053 CACCTCAAAT
**
151063 ATTTTAACACAGTATAC
1 ATTTTAACATTGTATAC
151080 ATTTTAACATTGT-TAC
1 ATTTTAACATTGTATAC
151096 ATTGTTAA-ATTGT
1 ATT-TTAACATTGT
151109 CAAAATTTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
16 11 0.42
17 15 0.58
ACGTcount: A:0.35, C:0.11, G:0.09, T:0.46
Consensus pattern (17 bp):
ATTTTAACATTGTATAC
Found at i:152243 original size:187 final size:188
Alignment explanation
Indices: 152001--152376 Score: 517
Period size: 187 Copynumber: 2.0 Consensus size: 188
151991 GTTATCAACC
* *
152001 ATATATATCAACATATTCCAGCATTTTCAGGAAATACAAATGAACTAATGACTTACCTTTGATGA
1 ATATATATCAACATATTCAAGCATTTTCAGGAAATAAAAATGAACTAATGACTTACCTTTGATGA
* *
152066 TTCAACAATGGATTACTCCAAAAAACT-AATCATCAACCGAAACTGCAAAC-AAAAAAA-CATAG
66 TTCAACAATAGATTACTCCAAAAAA-TGAATCATCAACCGAAACTGCAAACAAAAAAAAGCATAC
* *
152128 GGTTAGAAATAATCAAATATACTCACATTCTA-CCCTTACACACTGGGTTTTAGACCACA
130 GATTAGAAACAATCAAATATACTCACATTCTATCCC-TACACACTGGGTTTTAGACCACA
** * * * * *
152187 ATATAATATCAACATATTCAATTATTTTTAGGAAATAAAAATTAATTGATGACTTACCTTTGGTG
1 ATAT-ATATCAACATATTCAAGCATTTTCAGGAAATAAAAATGAACTAATGACTTACCTTTGATG
* * * *
152252 ATTCAACAATAGATTACTCTAGAAAATGAATCGTCAACCGAACCTGCAAACAAAAAAAAAGCATA
65 ATTCAACAATAGATTACTCCAAAAAATGAATCATCAACCGAAACTGCAAAC-AAAAAAAAGCATA
* *
152317 CGATTAGAAACAATCAAATATACTCACATTGTATCCCTACCCACTGGGTTTTAGACCACA
129 CGATTAGAAACAATCAAATATACTCACATTCTATCCCTACACACTGGGTTTTAGACCACA
152377 TGTATGAAAA
Statistics
Matches: 165, Mismatches: 19, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
186 5 0.03
187 95 0.58
189 7 0.04
190 55 0.33
191 3 0.02
ACGTcount: A:0.42, C:0.20, G:0.11, T:0.27
Consensus pattern (188 bp):
ATATATATCAACATATTCAAGCATTTTCAGGAAATAAAAATGAACTAATGACTTACCTTTGATGA
TTCAACAATAGATTACTCCAAAAAATGAATCATCAACCGAAACTGCAAACAAAAAAAAGCATACG
ATTAGAAACAATCAAATATACTCACATTCTATCCCTACACACTGGGTTTTAGACCACA
Found at i:155018 original size:3 final size:3
Alignment explanation
Indices: 155010--155051 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
155000 AAGAGTCCAA
155010 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
155052 TTAGGGTTTC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:155862 original size:148 final size:145
Alignment explanation
Indices: 155467--155846 Score: 433
Period size: 148 Copynumber: 2.5 Consensus size: 145
155457 TGATTTTGAG
* * * * *
155467 AAAAGTTTTGATTTTTTAAACAATTTCGAAATACATATTTTAATTTTTAAGAAAAATAGTGATTT
1 AAAA-TTTTGATTTTTTTAACTATTTCGAAATA-AAAATTTAATTTTTAAGTAAAATAGTGATTT
* * *
155532 TCTTTTAAAAAGAGAAAATTTAGATTTTTAAAAATAAAAATCTGCTTTTTAGTCATTTTAAAAGA
64 T-TTTTAAAAA-AGAAAATTTAGATTTTAAAAAATAAAAATATGCTTTTTAGTCATTTTAAAAAA
*
155597 AAAGTTTAAATTTTTAAAC
127 AAAATTTAAATTTTTAAAC
* * * * * *
155616 AAAATTTTGATTTTTTTAACTACTTCAAAATAGAAGTTTGGATTTTTAAGTAAAGTAGTGATTTT
1 AAAATTTTGATTTTTTTAACTATTTCGAAATAAAAATTT-AATTTTTAAGTAAAATAGTGATTTT
** * *
155681 CATTAAAAAAAAAAAGTTTAGATTTTAAAAAAAATAAAAATATG-TTTTTAGTGATTTTAAAGAA
65 TTTTAAAAAAGAAAA-TTTAGATTTT--AAAAAATAAAAATATGCTTTTTAGTCATTTTAAA-AA
155745 AAAAATTTAAA-TTTTAAAC
126 AAAAATTTAAATTTTTAAAC
*
155764 AAAATGTTT-ATTTTTTTAACTATTTCGAAATAAAAATTCTAATTTTGAAGTAAAATAGTGATTT
1 AAAAT-TTTGATTTTTTTAACTATTTCGAAATAAAAATT-TAATTTTTAAGTAAAATAGTGATTT
155828 TGTTTTAATTAAAAGAAAA
64 T-TTTTAA--AAAAGAAAA
155847 CTTTTTATTT
Statistics
Matches: 193, Mismatches: 28, Indels: 18
0.81 0.12 0.08
Matches are distributed among these distances:
146 5 0.03
147 21 0.11
148 122 0.63
149 37 0.19
151 8 0.04
ACGTcount: A:0.45, C:0.04, G:0.09, T:0.42
Consensus pattern (145 bp):
AAAATTTTGATTTTTTTAACTATTTCGAAATAAAAATTTAATTTTTAAGTAAAATAGTGATTTTT
TTTAAAAAAGAAAATTTAGATTTTAAAAAATAAAAATATGCTTTTTAGTCATTTTAAAAAAAAAA
TTTAAATTTTTAAAC
Found at i:159228 original size:4 final size:4
Alignment explanation
Indices: 159219--159270 Score: 59
Period size: 4 Copynumber: 12.0 Consensus size: 4
159209 AATAAAATAA
*
159219 AAAT AAAT AAAT AAAT AAAT AGAT AAAT AAAT CAAAT GAAAT GAAAT GAAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT -AAAT -AAAT -AAAT -AAAT
159271 CCAATTTGAA
Statistics
Matches: 44, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
4 26 0.59
5 18 0.41
ACGTcount: A:0.67, C:0.02, G:0.08, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:160306 original size:12 final size:12
Alignment explanation
Indices: 160291--160315 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
160281 ATTAAAGAAT
160291 TAATAGCATTCA
1 TAATAGCATTCA
160303 TAATAGCATTCA
1 TAATAGCATTCA
160315 T
1 T
160316 CATATAACAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.16, G:0.08, T:0.36
Consensus pattern (12 bp):
TAATAGCATTCA
Found at i:168258 original size:14 final size:14
Alignment explanation
Indices: 168239--168279 Score: 66
Period size: 14 Copynumber: 2.9 Consensus size: 14
168229 TTGTTTAAAT
168239 AAAAAAAAGAGAGA
1 AAAAAAAAGAGAGA
168253 AAAAAAAAGA-AGA
1 AAAAAAAAGAGAGA
168266 AAAAATAAAGAGAG
1 AAAAA-AAAGAGAG
168280 CAAGAGAAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
13 8 0.32
14 15 0.60
15 2 0.08
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (14 bp):
AAAAAAAAGAGAGA
Found at i:168719 original size:42 final size:42
Alignment explanation
Indices: 168672--168832 Score: 225
Period size: 42 Copynumber: 3.9 Consensus size: 42
168662 AAGGAAATCA
* *
168672 TTCATTGCATTTAAAGGTCTAGGTGTGGAGGTCCATTTACTT
1 TTCATTGCATTTAAAGGCCTAAGTGTGGAGGTCCATTTACTT
168714 TTCATTGCATTTAAAGGCCTAAGTGTGGAGGTCCATTTACTT
1 TTCATTGCATTTAAAGGCCTAAGTGTGGAGGTCCATTTACTT
* * * * *
168756 GTCATTGCATTTAGAGGCCCAAGTGTGGAGGTTCATTTATTT
1 TTCATTGCATTTAAAGGCCTAAGTGTGGAGGTCCATTTACTT
* * *
168798 TTCATCGCATTTAGAGGCCTATGTGTGGAGG-CCAT
1 TTCATTGCATTTAAAGGCCTAAGTGTGGAGGTCCAT
168833 CGCATTTAGA
Statistics
Matches: 107, Mismatches: 12, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
41 3 0.03
42 104 0.97
ACGTcount: A:0.22, C:0.16, G:0.25, T:0.37
Consensus pattern (42 bp):
TTCATTGCATTTAAAGGCCTAAGTGTGGAGGTCCATTTACTT
Found at i:168834 original size:30 final size:30
Alignment explanation
Indices: 168800--168858 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
168790 ATTTATTTTT
*
168800 CATCGCATTTAGAGGCCTATGTGTGGAGGC
1 CATCGCATTTAGAGGCCTAGGTGTGGAGGC
168830 CATCGCATTTAGAGGCCTAGGTGTGGAGG
1 CATCGCATTTAGAGGCCTAGGTGTGGAGG
168859 TCTATTTACT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.20, C:0.19, G:0.36, T:0.25
Consensus pattern (30 bp):
CATCGCATTTAGAGGCCTAGGTGTGGAGGC
Found at i:168846 original size:72 final size:73
Alignment explanation
Indices: 168762--168905 Score: 211
Period size: 72 Copynumber: 2.0 Consensus size: 73
168752 ACTTGTCATT
* * * *
168762 GCATTTAGAGGCCCAAGTGTGGAGGT-TCATTTATTTTTCATCGCATTTAGAGGCCTATGTGTGG
1 GCATTTAGAGGCCCAAGTGTGGAGGTCT-ATTTACTTTTCATCACATTTAGAGACCTAAGTGTGG
168826 AGG-CCATC
65 AGGTCCATC
* *
168834 GCATTTAGAGGCCTAGGTGTGGAGGTCTATTTACTTTTCATCACATTTAGAGACCTAAGTGTGGA
1 GCATTTAGAGGCCCAAGTGTGGAGGTCTATTTACTTTTCATCACATTTAGAGACCTAAGTGTGGA
168899 GGTCCAT
66 GGTCCAT
168906 TTACTTTTTA
Statistics
Matches: 64, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
72 59 0.92
73 5 0.08
ACGTcount: A:0.22, C:0.17, G:0.27, T:0.33
Consensus pattern (73 bp):
GCATTTAGAGGCCCAAGTGTGGAGGTCTATTTACTTTTCATCACATTTAGAGACCTAAGTGTGGA
GGTCCATC
Found at i:168882 original size:42 final size:42
Alignment explanation
Indices: 168830--169116 Score: 298
Period size: 42 Copynumber: 6.9 Consensus size: 42
168820 GTGTGGAGGC
*
168830 CATCGCATTTAGAGGCCTAGGTGTGGAGGTCTATTTACTTTT
1 CATCGCATTTAGAGGCCTAAGTGTGGAGGTCTATTTACTTTT
* * *
168872 CATCACATTTAGAGACCTAAGTGTGGAGGTCCATTTACTTTT
1 CATCGCATTTAGAGGCCTAAGTGTGGAGGTCTATTTACTTTT
* ** * * *
168914 TATTTCATTTAGAGG-CTCAGGTATGGAAG-CTCATTTACTTTT
1 CATCGCATTTAGAGGCCT-AAGTGTGGAGGTCT-ATTTACTTTT
* * * * * *
168956 CATTGCATTTAGAAGCCCATGTGTGAAGGTCCATTTACTTTT
1 CATCGCATTTAGAGGCCTAAGTGTGGAGGTCTATTTACTTTT
* *
168998 CATCGCATTTAGAGGCCCATGTGTGGAGGT-TCATTTACTTTT
1 CATCGCATTTAGAGGCCTAAGTGTGGAGGTCT-ATTTACTTTT
*
169040 CATCGCATTTAGAGG-CTCAAGTGTGGAGGTCCATTTACTTTT
1 CATCGCATTTAGAGGCCT-AAGTGTGGAGGTCTATTTACTTTT
* *
169082 CATTC-CATTTAGAGGCCCAAATGT-GAGGTCTATTT
1 CA-TCGCATTTAGAGGCCTAAGTGTGGAGGTCTATTT
169117 GCATTTCTTT
Statistics
Matches: 205, Mismatches: 31, Indels: 19
0.80 0.12 0.07
Matches are distributed among these distances:
41 14 0.07
42 186 0.91
43 5 0.02
ACGTcount: A:0.23, C:0.18, G:0.22, T:0.38
Consensus pattern (42 bp):
CATCGCATTTAGAGGCCTAAGTGTGGAGGTCTATTTACTTTT
Found at i:168923 original size:114 final size:114
Alignment explanation
Indices: 168720--169073 Score: 311
Period size: 114 Copynumber: 3.0 Consensus size: 114
168710 ACTTTTCATT
** *
168720 GCATTTAAAGGCCTAAGTGTGGAGGTCCATTTACTTGTCATTGCATTTAGAGGCCCAAGTGTGGA
1 GCATTTAAAGGCCTAAGTGTGGAGGTCCATTTACTTGTCATCACATTTAGAGACCCAAGTGTGGA
*
168785 GGTTCATTTATTTTTCATCGCATTTAGAGGCCTATGTGTGGAGGCCATC
66 GGTCCATTTATTTTTCATCGCATTTAGAGGCCTATGTGTGGAGGCCATC
* * * * *
168834 GCATTTAGAGGCCTAGGTGTGGAGGTCTATTTACTTTTCATCACATTTAGAGACCTAAGTGTGGA
1 GCATTTAAAGGCCTAAGTGTGGAGGTCCATTTACTTGTCATCACATTTAGAGACCCAAGTGTGGA
** * * *
168899 GGTCCATTTACTTTTT-ATTTCATTTAGAGG-CTCAGGTATGGAAGCTCATTTACTTTTC
66 GGTCCATTTA-TTTTTCATCGCATTTAGAGGCCT-ATGTGTGGAGGC-C----A----TC
* * * * * * *
168957 ATTGCATTTAGAA-GCCCATGTGTGAAGGTCCATTTACTTTTCATCGCATTTAGAGGCCCATGTG
1 ---GCATTTA-AAGGCCTAAGTGTGGAGGTCCATTTACTTGTCATCACATTTAGAGACCCAAGTG
* * *
169021 TGGAGGTTCATTTACTTTTCATCGCATTTAGAGG-CTCAAGTGTGGAGGTCCAT
62 TGGAGGTCCATTTATTTTTCATCGCATTTAGAGGCCT-ATGTGTGGAGG-CCAT
169074 TTACTTTTCA
Statistics
Matches: 193, Mismatches: 30, Indels: 30
0.76 0.12 0.12
Matches are distributed among these distances:
113 2 0.01
114 87 0.45
115 6 0.03
118 1 0.01
119 1 0.01
122 1 0.01
123 2 0.01
125 4 0.02
126 87 0.45
127 2 0.01
ACGTcount: A:0.22, C:0.18, G:0.24, T:0.36
Consensus pattern (114 bp):
GCATTTAAAGGCCTAAGTGTGGAGGTCCATTTACTTGTCATCACATTTAGAGACCCAAGTGTGGA
GGTCCATTTATTTTTCATCGCATTTAGAGGCCTATGTGTGGAGGCCATC
Found at i:169099 original size:84 final size:82
Alignment explanation
Indices: 168835--169100 Score: 345
Period size: 84 Copynumber: 3.2 Consensus size: 82
168825 GAGGCCATCG
* * *
168835 CATTTAGAGGCCTAGGTGTGGAGGTCTATTTACTTTTCATCACATTTAGAGACCTAAGTGTGGAG
1 CATTTAGAGGCCCAGGTGTGGAGGTC-ATTTACTTTTCATCGCATTTAGAGGCC-AAGTGTGGAG
* *
168900 GTCCATTTACTTTTTATTT
64 GTCCATTTACTTTTCATTC
* * * * * * *
168919 CATTTAGAGGCTCAGGTATGGAAGCTCATTTACTTTTCATTGCATTTAGAAGCCCATGTGTGAAG
1 CATTTAGAGGCCCAGGTGTGG-AGGTCATTTACTTTTCATCGCATTTAG-AGGCCAAGTGTGGAG
168984 GTCCATTTACTTTTCA-TC
64 GTCCATTTACTTTTCATTC
*
169002 GCATTTAGAGGCCCATGTGTGGAGGTTCATTTACTTTTCATCGCATTTAGAGGCTCAAGTGTGGA
1 -CATTTAGAGGCCCAGGTGTGGAGG-TCATTTACTTTTCATCGCATTTAGAGGC-CAAGTGTGGA
169067 GGTCCATTTACTTTTCATTC
63 GGTCCATTTACTTTTCATTC
169087 CATTTAGAGGCCCA
1 CATTTAGAGGCCCA
169101 AATGTGAGGT
Statistics
Matches: 157, Mismatches: 19, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
83 6 0.04
84 141 0.90
85 10 0.06
ACGTcount: A:0.23, C:0.18, G:0.21, T:0.38
Consensus pattern (82 bp):
CATTTAGAGGCCCAGGTGTGGAGGTCATTTACTTTTCATCGCATTTAGAGGCCAAGTGTGGAGGT
CCATTTACTTTTCATTC
Found at i:169107 original size:126 final size:125
Alignment explanation
Indices: 168835--169116 Score: 368
Period size: 126 Copynumber: 2.2 Consensus size: 125
168825 GAGGCCATCG
* * *
168835 CATTTAGAGGCCTAGGTGTGGAGGTCTATTTACTTTTCATCACATTTAGAGACCTAAGTGTGGAG
1 CATTTAGAGGCCCAAGTGT-GAGGTCTATTTACTTTTCATCACATTTAGAGACCCAAGTGTGGAG
* ** * *
168900 GTCCATTTACTTTTTATTTCATTTAGAGGCTCAGGTATGGAAGCTCATTTACTTTTCATTG
65 GTCCATTTACTTTTCATCGCATTTAGAGGCTCAAGTATGGAAGCTCATTTACTTTTCATTC
* * * * * *
168961 CATTTAGAAGCCCATGTGTGAAGGTCCATTTACTTTTCATCGCATTTAGAGGCCCATGTGTGGAG
1 CATTTAGAGGCCCAAGTGTG-AGGTCTATTTACTTTTCATCACATTTAGAGACCCAAGTGTGGAG
* * *
169026 GTTCATTTACTTTTCATCGCATTTAGAGGCTCAAGTGTGG-AGGTCCATTTACTTTTCATTC
65 GTCCATTTACTTTTCATCGCATTTAGAGGCTCAAGTATGGAAGCT-CATTTACTTTTCATTC
*
169087 CATTTAGAGGCCCAAATGTGAGGTCTATTT
1 CATTTAGAGGCCCAAGTGTGAGGTCTATTT
169117 GCATTTCTTT
Statistics
Matches: 134, Mismatches: 20, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
125 13 0.10
126 121 0.90
ACGTcount: A:0.23, C:0.18, G:0.22, T:0.38
Consensus pattern (125 bp):
CATTTAGAGGCCCAAGTGTGAGGTCTATTTACTTTTCATCACATTTAGAGACCCAAGTGTGGAGG
TCCATTTACTTTTCATCGCATTTAGAGGCTCAAGTATGGAAGCTCATTTACTTTTCATTC
Found at i:169453 original size:3 final size:3
Alignment explanation
Indices: 169445--169475 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
169435 AAGAGCCCAA
169445 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
169476 GGGTTTCATG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:170190 original size:146 final size:148
Alignment explanation
Indices: 169917--170228 Score: 427
Period size: 146 Copynumber: 2.1 Consensus size: 148
169907 TTTTTAAATA
* * * * *
169917 ATTTCAAAATAAAAATTTTGATTTTTAAGAAAAATAGTGATTTTCTTTTAAAAAGGGAAACTTTA
1 ATTTCGAAATAAAAGTTTGGATTTTTAAGAAAAATAGTGATTTTCTATTAAAAAGAGAAACTTTA
*
169982 GATTTTTAAAAATAAAAATATGTTTTTTAGTCATTTTAAAAGAAAAGTTTAAAATTTTAAACAAA
66 GATTTTTAAAAATAAAAATATGTTTTTTAGTCATTTTAAAAGAAAAGATTAAAATTTTAAACAAA
170047 ATTTTGATTTGTTTAACT
131 ATTTTGATTTGTTTAACT
* * *
170065 ATTTCGAAATAAAAGTTTGGATTTTTAAGTAAAGTAGTGATTTTC-ATTAAAAA-AGAAA-TTTT
1 ATTTCGAAATAAAAGTTTGGATTTTTAAGAAAAATAGTGATTTTCTATTAAAAAGAGAAACTTTA
* * *
170127 TATTTTTGAAAAAATAAAAATATG-TTTTTAGTGATTTT-AAAGAAAAAGATTAAATTTTTAAAC
66 GATTTTT--AAAAATAAAAATATGTTTTTTAGTCATTTTAAAAG-AAAAGATTAAAATTTTAAAC
* * *
170190 AAATTTTTTATTTTTTTAACT
128 AAAATTTTGATTTGTTTAACT
170211 ATTTCGAAATAAAAGTTT
1 ATTTCGAAATAAAAGTTT
170229 TGAAGTAAAG
Statistics
Matches: 146, Mismatches: 15, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
145 13 0.09
146 71 0.49
147 22 0.15
148 40 0.27
ACGTcount: A:0.43, C:0.04, G:0.10, T:0.43
Consensus pattern (148 bp):
ATTTCGAAATAAAAGTTTGGATTTTTAAGAAAAATAGTGATTTTCTATTAAAAAGAGAAACTTTA
GATTTTTAAAAATAAAAATATGTTTTTTAGTCATTTTAAAAGAAAAGATTAAAATTTTAAACAAA
ATTTTGATTTGTTTAACT
Found at i:170286 original size:146 final size:143
Alignment explanation
Indices: 169989--170285 Score: 359
Period size: 146 Copynumber: 2.0 Consensus size: 143
169979 TTAGATTTTT
*
169989 AAAAATAAAAATATGTTTTTTAGTCATTTTAAAAGAAAAGTTTAAAATTTTAAACAAAATTTTGA
1 AAAAATAAAAATATGTTTTTTAGTCATTTTAAAAGAAAAGATTAAAATTTTAAACAAAATTTTGA
*
170054 TTTGTTTAACTATTTCGAAATAAAAGTTTGGATTTTTAAGTAAAGTAGTGATTTTCATTAAAAAA
66 TTTGTTTAACTATTTCGAAATAAAA---T-GATTTTGAAGTAAAGTAGTGATTTTCATTAAAAAA
* ***
170119 GAAATTTTTATTTTTGA
127 GAAATTTTGATTTAAAA
* * * *
170136 AAAAATAAAAATATG-TTTTTAGTGATTTT-AAAGAAAAAGATTAAATTTTTAAACAAATTTTTT
1 AAAAATAAAAATATGTTTTTTAGTCATTTTAAAAG-AAAAGATTAAAATTTTAAACAAAATTTTG
* **
170199 ATTTTTTTAACTATTTCGAAATAAAA-G-TTTTGAAGTAAAGTAGTGATTTTGTTTTAATCAAAA
65 ATTTGTTTAACTATTTCGAAATAAAATGATTTTGAAGTAAAGTAGTGATTTT-CATTAA--AAAA
170262 GAAAACTTTTGATTTAAAA
127 G-AAA-TTTTGATTTAAAA
170281 AAAAA
1 AAAAA
170286 AAGAAGAAGA
Statistics
Matches: 131, Mismatches: 13, Indels: 14
0.83 0.08 0.09
Matches are distributed among these distances:
140 22 0.17
141 5 0.04
143 5 0.04
144 3 0.02
145 18 0.14
146 63 0.48
147 15 0.11
ACGTcount: A:0.44, C:0.03, G:0.10, T:0.42
Consensus pattern (143 bp):
AAAAATAAAAATATGTTTTTTAGTCATTTTAAAAGAAAAGATTAAAATTTTAAACAAAATTTTGA
TTTGTTTAACTATTTCGAAATAAAATGATTTTGAAGTAAAGTAGTGATTTTCATTAAAAAAGAAA
TTTTGATTTAAAA
Found at i:173345 original size:14 final size:14
Alignment explanation
Indices: 173304--173349 Score: 60
Period size: 14 Copynumber: 3.3 Consensus size: 14
173294 TAAGCTAACA
173304 AACAAAATAGCAAAG
1 AACAAAATAG-AAAG
173319 AACAAAA-AGAAAG
1 AACAAAATAGAAAG
173332 AA-AGAAATAGAAAG
1 AACA-AAATAGAAAG
173346 AACA
1 AACA
173350 TTAGTAACTC
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
12 1 0.04
13 9 0.32
14 10 0.36
15 8 0.29
ACGTcount: A:0.72, C:0.09, G:0.15, T:0.04
Consensus pattern (14 bp):
AACAAAATAGAAAG
Found at i:173784 original size:17 final size:17
Alignment explanation
Indices: 173762--173808 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 17
173752 AATTAAAAGT
*
173762 TATTAAAATAATATTTA
1 TATTAAAATAATATTAA
173779 TATTAAAAATAA-ATTAA
1 TATT-AAAATAATATTAA
*
173796 TAATATAAATAAT
1 TATTA-AAATAAT
173809 TAAAATGTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
16 1 0.04
17 17 0.68
18 7 0.28
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
TATTAAAATAATATTAA
Found at i:187139 original size:23 final size:23
Alignment explanation
Indices: 187109--187185 Score: 79
Period size: 24 Copynumber: 3.4 Consensus size: 23
187099 AAGGTGGAAG
*
187109 TTATGTGGTCATTAATGGCAAAA
1 TTATGTGGTCATTATTGGCAAAA
*
187132 TTATGTGG-CAATTTATTTGCAAAA
1 TTATGTGGTC-A-TTATTGGCAAAA
* *
187156 CTATGTGGCCATTATTGGC-AAA
1 TTATGTGGTCATTATTGGCAAAA
187178 -TATGTGGT
1 TTATGTGGT
187186 GGCTTGTCCA
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
21 7 0.15
22 4 0.09
23 16 0.35
24 18 0.39
25 1 0.02
ACGTcount: A:0.30, C:0.10, G:0.22, T:0.38
Consensus pattern (23 bp):
TTATGTGGTCATTATTGGCAAAA
Found at i:187604 original size:18 final size:19
Alignment explanation
Indices: 187571--187606 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
187561 ATTATTTTGG
187571 ATTTTGTGGATTTTACTTT
1 ATTTTGTGGATTTTACTTT
*
187590 ATTTTG-GGCTTTTACTT
1 ATTTTGTGGATTTTACTT
187607 CATAATTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.14, C:0.08, G:0.17, T:0.61
Consensus pattern (19 bp):
ATTTTGTGGATTTTACTTT
Done.