Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009152.1 Hibiscus syriacus cultivar Beakdansim tig00112678_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 885575
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
File 1 of 4
Found at i:1622 original size:27 final size:28
Alignment explanation
Indices: 1570--1622 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
1560 GATTCCCTCT
* *
1570 GCACCAAATGCTAAATCCAATTTTTTAA
1 GCACAAAATGCTAAATCCAATCTTTTAA
*
1598 GCACAAAATGCTAAAT-TAATCTTTT
1 GCACAAAATGCTAAATCCAATCTTTT
1623 CTAGTGGTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 7 0.32
28 15 0.68
ACGTcount: A:0.40, C:0.19, G:0.08, T:0.34
Consensus pattern (28 bp):
GCACAAAATGCTAAATCCAATCTTTTAA
Found at i:5217 original size:20 final size:20
Alignment explanation
Indices: 5180--5218 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
5170 GAAGTTTTAA
** *
5180 GATCATCATTTTCTTTTGAT
1 GATCATCATTGACCTTTGAT
5200 GATCATCATTGACCTTTGA
1 GATCATCATTGACCTTTGA
5219 AAGTAAATTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.23, C:0.18, G:0.13, T:0.46
Consensus pattern (20 bp):
GATCATCATTGACCTTTGAT
Found at i:7390 original size:73 final size:75
Alignment explanation
Indices: 7283--7474 Score: 237
Period size: 74 Copynumber: 2.6 Consensus size: 75
7273 CCGTTGAACA
* * ** *
7283 GGGAATCGGTACCCCCTGGGGGGGGAATCGGTTCCCTCCGAGCATACTGGAATTCTC-GA-ACAA
1 GGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATACTGGAAATCTCGGAGACAA
** *
7346 AATGTTTAGGG
66 AACATTCA-GG
* * *
7357 GGGAATCGGTTCCTCCTAT-GGGGGAATCGGTTCCCTCCGATCATTCTGGAAATCTCGGAGCCAA
1 GGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATACTGGAAATCTCGGAGACAA
*
7421 ACCATTCAGG
66 AACATTCAGG
*
7431 GGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCTGAGCA
1 GGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCA
7475 ATCTGTAATT
Statistics
Matches: 101, Mismatches: 14, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
73 34 0.34
74 38 0.38
75 29 0.29
ACGTcount: A:0.21, C:0.25, G:0.31, T:0.23
Consensus pattern (75 bp):
GGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATACTGGAAATCTCGGAGACAA
AACATTCAGG
Found at i:18751 original size:14 final size:14
Alignment explanation
Indices: 18732--18761 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
18722 TTTACTTTTT
18732 GGTCAAAGTCAATG
1 GGTCAAAGTCAATG
18746 GGTCAAAGTCAATG
1 GGTCAAAGTCAATG
18760 GG
1 GG
18762 ATGACTCGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.33, C:0.13, G:0.33, T:0.20
Consensus pattern (14 bp):
GGTCAAAGTCAATG
Found at i:18794 original size:28 final size:29
Alignment explanation
Indices: 18756--18828 Score: 85
Period size: 28 Copynumber: 2.5 Consensus size: 29
18746 GGTCAAAGTC
*
18756 AATGGGATGACTCGGA-CGAGTTGACTCA
1 AATGGGTTGACTCGGACCGAGTTGACTCA
* * *
18784 AATGGGTTGACTCAGACCGAGTTGAGTTA
1 AATGGGTTGACTCGGACCGAGTTGACTCA
*
18813 AACTGAGTTGACTCGG
1 AA-TGGGTTGACTCGG
18829 TGACTGGACC
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
28 14 0.38
29 12 0.32
30 11 0.30
ACGTcount: A:0.27, C:0.16, G:0.32, T:0.25
Consensus pattern (29 bp):
AATGGGTTGACTCGGACCGAGTTGACTCA
Found at i:20339 original size:11 final size:11
Alignment explanation
Indices: 20325--20376 Score: 63
Period size: 10 Copynumber: 4.9 Consensus size: 11
20315 ATAATGTGAA
*
20325 ATTTAAGAAAT
1 ATTTTAGAAAT
*
20336 ATTTTATAAA-
1 ATTTTAGAAAT
20346 ATTTTAGAAAT
1 ATTTTAGAAAT
*
20357 ATTTTATAAA-
1 ATTTTAGAAAT
20367 ATTTTAGAAA
1 ATTTTAGAAA
20377 GATTAAAATT
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
10 18 0.51
11 17 0.49
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (11 bp):
ATTTTAGAAAT
Found at i:20348 original size:21 final size:21
Alignment explanation
Indices: 20323--20376 Score: 99
Period size: 21 Copynumber: 2.6 Consensus size: 21
20313 AAATAATGTG
*
20323 AAATTTAAGAAATATTTTATA
1 AAATTTTAGAAATATTTTATA
20344 AAATTTTAGAAATATTTTATA
1 AAATTTTAGAAATATTTTATA
20365 AAATTTTAGAAA
1 AAATTTTAGAAA
20377 GATTAAAATT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.43
Consensus pattern (21 bp):
AAATTTTAGAAATATTTTATA
Found at i:23668 original size:627 final size:622
Alignment explanation
Indices: 22823--24073 Score: 1925
Period size: 627 Copynumber: 2.0 Consensus size: 622
22813 ATATAAAAGT
* *
22823 TTTAAATATGGTCATTTATTAATAGATTTATAGTGCATGAATGATGGTTCAAATTCAAAACTTTT
1 TTTAAATATGGTCATTTATTAATAGATTTATAGTGCATGAACGATGGTTCAAATTCAAAACTGTT
* *
22888 TCTATACTTCGTTATATTTACATTTAGGAATAATTCAACTTGTATTATGATATTTTATGAAGAAT
66 TCTATACTTCGTTATATTTACATTTAAGAATAATTCAACTTGTATTATAATATTTTATGAAGAAT
* * * *
22953 CTTATATATAGTATAAGAACTATTGACATGATTAAAAACTCTATAAAATAATGTCAAACTTAAAA
131 CTTATATATAGCATAAAAACTATTGACATGATTAAAAAATCTATAAAATAATGTCAAACTGAAAA
* *
23018 CAATAATATAAAATGATATGGATGTAAATATATTGTATTCTAAACAATTAAACCACCTAAAATAT
196 CAATAATATAAAATGATATGGATGTAAATATATTGTATTATAAACAATTAAACCAACTAAAATAT
* *
23083 AATAAATTTATATAAATATAAAATCATTTATAGCGGATTTTGAAATAAATATGTGAATTCTTAAC
261 AATAAATTTATATAAATATAAAATCATTTATAGCGAATTTTGAAATAAATATGTGAATTATTAAC
* *
23148 TTTTAGTTAAATGTAACCGATTAAAATTCTTTCGATGTAAAAGGGTTAT-TATTAAAATCCAACC
326 TTTAAGTTAAATGTAACCGATTAAAATTCTTTCAATGTAAAAGGGTTATCT-TTAAAATCCAACC
* *
23212 ACATTGTATCTGTTTGAACAAACTTTGAATGTTTAGGAAAAAATAGAAATATCACTATGTTATCC
390 ACATTGTATCTGTTTGAACAAACTTTGAATGTTTA--AAAAAATAGAAATATCACTATGATATCA
* * * * *
23277 AAGTTTATAAATATATCCATCAACCCATTGAAAGAACAAAT-TAAAACTTTGTTTCAACATTTAA
453 AAGTTTATAAATATATCCATCAACCCATGGAAAGAAC-AATGTAAAACCTTATTTCAACAATCAA
*
23341 ATGGCTAGTTTAAAAGTTTTATTTTTGTTTTCCCTATATGTTATGTTCGTGGTTTTGATATCTA-
517 ATGGCTAGTTTAAAAGTTTTATTTTTGTTTTCCCTATATGTTATGTTCGTGGTTTTAATATC-AG
*
23405 CAGTACGTTCACTTCATCCATTTTCAATATCTCATCAAATGA
581 CAATACGTTCACTTCATCCATTTTCAATATCTCATCAAATGA
* *
23447 TTTAAATATGGTCATTTATTGATAGATTTATAGTGCATTAACGATGGTTCAAATTCAAAAC-GTT
1 TTTAAATATGGTCATTTATTAATAGATTTATAGTGCATGAACGATGGTTCAAATTCAAAACTGTT
* *
23511 TCTATACTTGGTTATATTTACATTTAAGAATAATTTAACTTGTATTATAATATTTTATGAAGAAT
66 TCTATACTTCGTTATATTTACATTTAAGAATAATTCAACTTGTATTATAATATTTTATGAAGAAT
* *
23576 CTTATATATATATAGCATAAAAACTATTGACGTGATTAAAAAATCTATAAAATATTGTCAAACTG
131 C---T-TATATATAGCATAAAAACTATTGACATGATTAAAAAATCTATAAAATAATGTCAAACTG
* * *
23641 AAAACAATAATATAAAATGATATGGATGTAAATATGTTGTATTATAAACAATTAAACCAACTGAC
192 AAAACAATAATATAAAATGATATGGATGTAAATATATTGTATTATAAACAATTAAACCAACTAAA
* *
23706 ATATAATAAATTTATATAAATATAAAATCATTTATATCGAATTTTTAAATAAATATGTGAATTAT
257 ATATAATAAATTTATATAAATATAAAATCATTTATAGCGAATTTTGAAATAAATATGTGAATTAT
* * *
23771 TAAGTTTAAGTTGATTGTAACCGATTAAAATTCTTTCAATGTAAAAGGGTTATCTTTAAAATCCA
322 TAACTTTAAGTTAAATGTAACCGATTAAAATTCTTTCAATGTAAAAGGGTTATCTTTAAAATCCA
* * * * *
23836 ACCATATTGTATCTTTTTTAACAAACTTTGAATGTTTATAAAAATAGAAATATCAGTATGATATC
387 ACCACATTGTATCTGTTTGAACAAACTTTGAATGTTTAAAAAAATAGAAATATCACTATGATATC
* * * *
23901 AAAGTTTATAAATATATCCATCAACCCATGGAAAGGACATTGTGAAACCTTATTTCAATAATCAA
452 AAAGTTTATAAATATATCCATCAACCCATGGAAAGAACAATGTAAAACCTTATTTCAACAATCAA
* * * *
23966 ATGGCTAGTTTCAATGTTTTCTTTTTGTTTTTCCTATATGTTATGTTCGTGGTTTTAATATCAGC
517 ATGGCTAGTTTAAAAGTTTTATTTTTGTTTTCCCTATATGTTATGTTCGTGGTTTTAATATCAGC
* *
24031 AATACGTTCACTTTATCCATTTTCAATATCTCATCAAGTGA
582 AATACGTTCACTTCATCCATTTTCAATATCTCATCAAATGA
24072 TT
1 TT
24074 GAAAATGAAG
Statistics
Matches: 568, Mismatches: 52, Indels: 13
0.90 0.08 0.02
Matches are distributed among these distances:
623 64 0.11
624 61 0.11
625 174 0.31
626 1 0.00
627 267 0.47
628 1 0.00
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.39
Consensus pattern (622 bp):
TTTAAATATGGTCATTTATTAATAGATTTATAGTGCATGAACGATGGTTCAAATTCAAAACTGTT
TCTATACTTCGTTATATTTACATTTAAGAATAATTCAACTTGTATTATAATATTTTATGAAGAAT
CTTATATATAGCATAAAAACTATTGACATGATTAAAAAATCTATAAAATAATGTCAAACTGAAAA
CAATAATATAAAATGATATGGATGTAAATATATTGTATTATAAACAATTAAACCAACTAAAATAT
AATAAATTTATATAAATATAAAATCATTTATAGCGAATTTTGAAATAAATATGTGAATTATTAAC
TTTAAGTTAAATGTAACCGATTAAAATTCTTTCAATGTAAAAGGGTTATCTTTAAAATCCAACCA
CATTGTATCTGTTTGAACAAACTTTGAATGTTTAAAAAAATAGAAATATCACTATGATATCAAAG
TTTATAAATATATCCATCAACCCATGGAAAGAACAATGTAAAACCTTATTTCAACAATCAAATGG
CTAGTTTAAAAGTTTTATTTTTGTTTTCCCTATATGTTATGTTCGTGGTTTTAATATCAGCAATA
CGTTCACTTCATCCATTTTCAATATCTCATCAAATGA
Found at i:39991 original size:138 final size:137
Alignment explanation
Indices: 39804--40056 Score: 330
Period size: 138 Copynumber: 1.8 Consensus size: 137
39794 AAAAATTGTA
* * * * *
39804 TATAACAGTTATCGATCAATTTTTTTAAAGCAGAACGGCGCATTTTCGTATGAGTATTGTGTATA
1 TATAAAAGTTATCGATCAATTTTTTTAAAGCAGAACGGCGCATTTTCGTATCAGTACTATATATA
* * *
39869 CTTTCGGCACTA-GATGTGCAAT-CATGGTATTTATAATGAGTTTATGAATTACTATTTTGATAT
66 CTTTCGGCACTATG-TGTGC-ATCCATGGAATTCATAATAAGTTTATGAATTACTATTTTGATAT
39932 ACAACTATG
129 ACAACTATG
* * * * *
39941 TATAAAAGTTATCGATCGATTTTGTTTAATGCATAACGGTGCATTTTCGTATCAGTACTATATGT
1 TATAAAAGTTATCGATCAATTTT-TTTAAAGCAGAACGGCGCATTTTCGTATCAGTACTATATAT
* *
40006 ACTTTTGGCACTATGTGTGCATCCATGGAATTCATAATAAGTTTGTGAATT
65 ACTTTCGGCACTATGTGTGCATCCATGGAATTCATAATAAGTTTATGAATT
40057 TCCATTTCGG
Statistics
Matches: 98, Mismatches: 15, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
137 23 0.23
138 74 0.76
139 1 0.01
ACGTcount: A:0.30, C:0.13, G:0.18, T:0.40
Consensus pattern (137 bp):
TATAAAAGTTATCGATCAATTTTTTTAAAGCAGAACGGCGCATTTTCGTATCAGTACTATATATA
CTTTCGGCACTATGTGTGCATCCATGGAATTCATAATAAGTTTATGAATTACTATTTTGATATAC
AACTATG
Found at i:41877 original size:59 final size:59
Alignment explanation
Indices: 41804--42161 Score: 533
Period size: 59 Copynumber: 6.1 Consensus size: 59
41794 ATAACAATTT
* * * * * * *
41804 GCACACAAAGTGCCC-ATTTCGGAAATTTATACACTTAGTATGAATTACTTAACAGTTTA
1 GCACACGAAGTGCCCTATCT-GGAAATTCATACACTTAGTATGATTTCCTTACCATTTTA
* *
41863 GCACACGAAGTGCCCTATCTAGAAATTCATACGCTTAGTATGATTTCCTTACCATTTTA
1 GCACACGAAGTGCCCTATCTGGAAATTCATACACTTAGTATGATTTCCTTACCATTTTA
* *
41922 GCACAC-AGAGTGCCCTATCTGAAAATT-ATACACTTAATATGATTTCCTTACCATTTTA
1 GCACACGA-AGTGCCCTATCTGGAAATTCATACACTTAGTATGATTTCCTTACCATTTTA
*
41980 GCACACGAAGTGCCCTATCTAGAAATTCATACACTTAGTATGATTTCCTTACCATTTTA
1 GCACACGAAGTGCCCTATCTGGAAATTCATACACTTAGTATGATTTCCTTACCATTTTA
*
42039 GCACACGAAGTGCCCTAACTGGAAATTCATACACTTAGTATGATTTCCTTACCATTTTA
1 GCACACGAAGTGCCCTATCTGGAAATTCATACACTTAGTATGATTTCCTTACCATTTTA
* * *
42098 ACACACGAAGTGCCCTATCTGGAAATTCATACATTTAGTATAATTTCCTTACCATTTTA
1 GCACACGAAGTGCCCTATCTGGAAATTCATACACTTAGTATGATTTCCTTACCATTTTA
42157 GCACA
1 GCACA
42162 TTTAGTGTCA
Statistics
Matches: 272, Mismatches: 23, Indels: 8
0.90 0.08 0.03
Matches are distributed among these distances:
58 53 0.19
59 216 0.79
60 3 0.01
ACGTcount: A:0.32, C:0.23, G:0.12, T:0.33
Consensus pattern (59 bp):
GCACACGAAGTGCCCTATCTGGAAATTCATACACTTAGTATGATTTCCTTACCATTTTA
Found at i:41980 original size:117 final size:117
Alignment explanation
Indices: 41804--42161 Score: 538
Period size: 117 Copynumber: 3.0 Consensus size: 117
41794 ATAACAATTT
* * * * * * * *
41804 GCACACAAAGTGCCCATTTCGGAAATTTATACACTTAGTATGAATTACTTAACAGTTTAGCACAC
1 GCACACAGAGTGCCC-TATCTGAAAATTATACACTTAGTATGATTTCCTTACCATTTTAGCACAC
*
41869 GAAGTGCCCTATCTAGAAATTCATACGCTTAGTATGATTTCCTTACCATTTTA
65 GAAGTGCCCTATCTAGAAATTCATACACTTAGTATGATTTCCTTACCATTTTA
*
41922 GCACACAGAGTGCCCTATCTGAAAATTATACACTTAATATGATTTCCTTACCATTTTAGCACACG
1 GCACACAGAGTGCCCTATCTGAAAATTATACACTTAGTATGATTTCCTTACCATTTTAGCACACG
41987 AAGTGCCCTATCTAGAAATTCATACACTTAGTATGATTTCCTTACCATTTTA
66 AAGTGCCCTATCTAGAAATTCATACACTTAGTATGATTTCCTTACCATTTTA
* * *
42039 GCACAC-GAAGTGCCCTAACTGGAAATTCATACACTTAGTATGATTTCCTTACCATTTTAACACA
1 GCACACAG-AGTGCCCTATCTGAAAATT-ATACACTTAGTATGATTTCCTTACCATTTTAGCACA
* * *
42103 CGAAGTGCCCTATCTGGAAATTCATACATTTAGTATAATTTCCTTACCATTTTA
64 CGAAGTGCCCTATCTAGAAATTCATACACTTAGTATGATTTCCTTACCATTTTA
42157 GCACA
1 GCACA
42162 TTTAGTGTCA
Statistics
Matches: 221, Mismatches: 17, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
116 1 0.00
117 116 0.52
118 104 0.47
ACGTcount: A:0.32, C:0.23, G:0.12, T:0.33
Consensus pattern (117 bp):
GCACACAGAGTGCCCTATCTGAAAATTATACACTTAGTATGATTTCCTTACCATTTTAGCACACG
AAGTGCCCTATCTAGAAATTCATACACTTAGTATGATTTCCTTACCATTTTA
Found at i:42112 original size:176 final size:177
Alignment explanation
Indices: 41825--42161 Score: 534
Period size: 176 Copynumber: 1.9 Consensus size: 177
41815 GCCCATTTCG
* *
41825 GAAATTTATACACTTAGTATGAATTACTTAACAGTTTAGCACACGAAGTGCCCTATCTAGAAATT
1 GAAATTCATACACTTAGTATGAATTACTTAACAGTTTAGCACACGAAGTGCCCTAACTAGAAATT
* *
41890 CATACGCTTAGTATGATTTCCTTACCATTTTAGCACACAGAGTGCCCTATCTGAAAATT-ATACA
66 CATACACTTAGTATGATTTCCTTACCATTTTAACACACAGAGTGCCCTATCTGAAAATTCATACA
*
41954 CTTAATATGATTTCCTTACCATTTTAGCACACGAAGTGCCCTATCTA
131 CTTAATATAATTTCCTTACCATTTTAGCACACGAAGTGCCCTATCTA
* * * * *
42001 GAAATTCATACACTTAGTATGATTTCCTTACCATTTTAGCACACGAAGTGCCCTAACTGGAAATT
1 GAAATTCATACACTTAGTATGAATTACTTAACAGTTTAGCACACGAAGTGCCCTAACTAGAAATT
*
42066 CATACACTTAGTATGATTTCCTTACCATTTTAACACAC-GAAGTGCCCTATCTGGAAATTCATAC
66 CATACACTTAGTATGATTTCCTTACCATTTTAACACACAG-AGTGCCCTATCTGAAAATTCATAC
* *
42130 ATTTAGTATAATTTCCTTACCATTTTAGCACA
130 ACTTAATATAATTTCCTTACCATTTTAGCACA
42162 TTTAGTGTCA
Statistics
Matches: 146, Mismatches: 13, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
175 1 0.01
176 112 0.77
177 33 0.23
ACGTcount: A:0.32, C:0.22, G:0.12, T:0.34
Consensus pattern (177 bp):
GAAATTCATACACTTAGTATGAATTACTTAACAGTTTAGCACACGAAGTGCCCTAACTAGAAATT
CATACACTTAGTATGATTTCCTTACCATTTTAACACACAGAGTGCCCTATCTGAAAATTCATACA
CTTAATATAATTTCCTTACCATTTTAGCACACGAAGTGCCCTATCTA
Found at i:50437 original size:13 final size:13
Alignment explanation
Indices: 50419--50459 Score: 82
Period size: 13 Copynumber: 3.2 Consensus size: 13
50409 TCAATGCATT
50419 AATAAGATTGAAG
1 AATAAGATTGAAG
50432 AATAAGATTGAAG
1 AATAAGATTGAAG
50445 AATAAGATTGAAG
1 AATAAGATTGAAG
50458 AA
1 AA
50460 AAGGCAATCC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 28 1.00
ACGTcount: A:0.56, C:0.00, G:0.22, T:0.22
Consensus pattern (13 bp):
AATAAGATTGAAG
Found at i:59110 original size:58 final size:59
Alignment explanation
Indices: 59045--59420 Score: 271
Period size: 59 Copynumber: 6.4 Consensus size: 59
59035 TTTCCCATAT
* * *
59045 GGAAATTCATACATTTAGTATG-ACT-CTCATAACAATTT-GTACACAAAGTGCCC-ATTCC
1 GGAAATTCATACACTTAGTATGAATTACT-A-AACAATTTAGCACACAAAGTGCCCTA-TCC
* * * *
59103 GGAAATTCATACACTTAATATGAATTACTAAACAGTTTAGCACACGAAGTGCCCTATCT
1 GGAAATTCATACACTTAGTATGAATTACTAAACAATTTAGCACACAAAGTGCCCTATCC
* * * * * * * **
59162 GGAAATTCATACACTTAGTATG-ATATCCTTACCATTTTATCACACGAAGTACCCTATTT
1 GGAAATTCATACACTTAGTATGAAT-TACTAAACAATTTAGCACACAAAGTGCCCTATCC
* * * * * * *
59221 GGAAATTCATACACTTAGTATGATTTCCTTACCATTTTAACACACAAAGTGCCCTATCT
1 GGAAATTCATACACTTAGTATGAATTACTAAACAATTTAGCACACAAAGTGCCCTATCC
* * * * * * * **
59280 AGAAACTCATACACTTAGTTTGATTTCCT-TACCATTCTAGCACATGAAGTGCCCTA-CC
1 GGAAATTCATACACTTAGTATGAATTACTAAACAATT-TAGCACACAAAGTGCCCTATCC
* * * * * * * * *
59338 TAGATATTCATACACTTAGTATGATTTCCTTACCATTTTAGCACACGAAGTGCCCTATCT
1 -GGAAATTCATACACTTAGTATGAATTACTAAACAATTTAGCACACAAAGTGCCCTATCC
*
59398 AGAAATTCATACACTTAGTATGA
1 GGAAATTCATACACTTAGTATGA
59421 TTTCCTTACC
Statistics
Matches: 267, Mismatches: 41, Indels: 19
0.82 0.13 0.06
Matches are distributed among these distances:
58 33 0.12
59 226 0.85
60 8 0.03
ACGTcount: A:0.33, C:0.23, G:0.12, T:0.33
Consensus pattern (59 bp):
GGAAATTCATACACTTAGTATGAATTACTAAACAATTTAGCACACAAAGTGCCCTATCC
Found at i:59265 original size:118 final size:116
Alignment explanation
Indices: 59046--59436 Score: 489
Period size: 118 Copynumber: 3.3 Consensus size: 116
59036 TTCCCATATG
* * * * * *
59046 GAAATTCATACATTTAGTATGACTCTCATAACAATTTGTACACA-AAGTGCCC-ATTCCGGAAAT
1 GAAATTCATACACTTAGTATGA-TTTCCTTACCATTT-TACACAGAAGTGCCCTATT-TGGAAAT
* * * * * * *
59109 TCATACACTTAATATGAATTACTAAACAGTTTAGCACACGAAGTGCCCTATCTG
63 TCATACACTTAGTATGATTTCCTTACCATTTTAGCACACGAAGTGCCCTATCTA
* *
59163 GAAATTCATACACTTAGTATGATATCCTTACCATTTTATCACACGAAGTACCCTATTTGGAAATT
1 GAAATTCATACACTTAGTATGATTTCCTTACCATTTTA-CACA-GAAGTGCCCTATTTGGAAATT
* *
59228 CATACACTTAGTATGATTTCCTTACCATTTTAACACACAAAGTGCCCTATCTA
64 CATACACTTAGTATGATTTCCTTACCATTTTAGCACACGAAGTGCCCTATCTA
* * * ** * *
59281 GAAACTCATACACTTAGTTTGATTTCCTTACCATTCTAGCACATGAAGTGCCCTACCTAGATATT
1 GAAATTCATACACTTAGTATGATTTCCTTACCATTTTA-CACA-GAAGTGCCCTATTTGGAAATT
59346 CATACACTTAGTATGATTTCCTTACCATTTTAGCACACGAAGTGCCCTATCTA
64 CATACACTTAGTATGATTTCCTTACCATTTTAGCACACGAAGTGCCCTATCTA
59399 GAAATTCATACACTTAGTATGATTTCCTTACCATTTTA
1 GAAATTCATACACTTAGTATGATTTCCTTACCATTTTA
59437 GTACATTTAG
Statistics
Matches: 238, Mismatches: 32, Indels: 7
0.86 0.12 0.03
Matches are distributed among these distances:
115 2 0.01
116 14 0.06
117 21 0.09
118 198 0.83
119 3 0.01
ACGTcount: A:0.32, C:0.23, G:0.11, T:0.34
Consensus pattern (116 bp):
GAAATTCATACACTTAGTATGATTTCCTTACCATTTTACACAGAAGTGCCCTATTTGGAAATTCA
TACACTTAGTATGATTTCCTTACCATTTTAGCACACGAAGTGCCCTATCTA
Found at i:59450 original size:59 final size:59
Alignment explanation
Indices: 59104--59437 Score: 488
Period size: 59 Copynumber: 5.7 Consensus size: 59
59094 GCCCATTCCG
* * * * * * *
59104 GAAATTCATACACTTAATATGAATTACTAAACAGTTTAGCACACGAAGTGCCCTATCTG
1 GAAATTCATACACTTAGTATGATTTCCTTACCATTTTAGCACACGAAGTGCCCTATCTA
* * * * *
59163 GAAATTCATACACTTAGTATGATATCCTTACCATTTTATCACACGAAGTACCCTATTTG
1 GAAATTCATACACTTAGTATGATTTCCTTACCATTTTAGCACACGAAGTGCCCTATCTA
* *
59222 GAAATTCATACACTTAGTATGATTTCCTTACCATTTTAACACACAAAGTGCCCTATCTA
1 GAAATTCATACACTTAGTATGATTTCCTTACCATTTTAGCACACGAAGTGCCCTATCTA
* * * * *
59281 GAAACTCATACACTTAGTTTGATTTCCTTACCATTCTAGCACATGAAGTGCCCTACCTA
1 GAAATTCATACACTTAGTATGATTTCCTTACCATTTTAGCACACGAAGTGCCCTATCTA
*
59340 GATATTCATACACTTAGTATGATTTCCTTACCATTTTAGCACACGAAGTGCCCTATCTA
1 GAAATTCATACACTTAGTATGATTTCCTTACCATTTTAGCACACGAAGTGCCCTATCTA
59399 GAAATTCATACACTTAGTATGATTTCCTTACCATTTTAG
1 GAAATTCATACACTTAGTATGATTTCCTTACCATTTTAG
59438 TACATTTAGT
Statistics
Matches: 245, Mismatches: 30, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
59 245 1.00
ACGTcount: A:0.32, C:0.23, G:0.11, T:0.34
Consensus pattern (59 bp):
GAAATTCATACACTTAGTATGATTTCCTTACCATTTTAGCACACGAAGTGCCCTATCTA
Found at i:67417 original size:30 final size:30
Alignment explanation
Indices: 67381--67439 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
67371 ATTAATATTA
67381 TGCATCGATACGCTACAGTAACTGCTACAG
1 TGCATCGATACGCTACAGTAACTGCTACAG
* *
67411 TGCATCGATACGCTATAGTGACTGCTACA
1 TGCATCGATACGCTACAGTAACTGCTACA
67440 ATAACTGCTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.25
Consensus pattern (30 bp):
TGCATCGATACGCTACAGTAACTGCTACAG
Found at i:68134 original size:59 final size:59
Alignment explanation
Indices: 68041--68172 Score: 174
Period size: 59 Copynumber: 2.2 Consensus size: 59
68031 CATCGTAATG
* * * **
68041 CAATCCCGAGTATGACACATAAGGTCGTGTCCACCATCTGTACTAGGTATCCTTAAGTA
1 CAATCCCGAATATGACACATAAGGTCGTGCCCACCATATACACTAGGTATCCTTAAGTA
* * *
68100 CAATCCCGAATATGACACATAAGGTTGTGCCCACCATATACACTAGGTATCCTTTAGTG
1 CAATCCCGAATATGACACATAAGGTCGTGCCCACCATATACACTAGGTATCCTTAAGTA
* *
68159 TATTCCCGAATATG
1 CAATCCCGAATATG
68173 CAGCCTGTTG
Statistics
Matches: 63, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
59 63 1.00
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (59 bp):
CAATCCCGAATATGACACATAAGGTCGTGCCCACCATATACACTAGGTATCCTTAAGTA
Found at i:69290 original size:13 final size:14
Alignment explanation
Indices: 69272--69305 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
69262 ATTGTTTTTC
*
69272 ATCAATTC-TTACA
1 ATCAATTCTTTAAA
69285 ATCAATTCTTTAAA
1 ATCAATTCTTTAAA
69299 ATCAATT
1 ATCAATT
69306 AACTCTTCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 8 0.42
14 11 0.58
ACGTcount: A:0.41, C:0.18, G:0.00, T:0.41
Consensus pattern (14 bp):
ATCAATTCTTTAAA
Found at i:70594 original size:59 final size:59
Alignment explanation
Indices: 70231--70567 Score: 534
Period size: 59 Copynumber: 5.7 Consensus size: 59
70221 GCCCATTCCG
* * * * *
70231 GAAATTCATACACTTAGTATGAATTACTTAACAGTTTAGCCCACGAAGTG-CCTATCT-
1 GAAATTCATACACTTAGTATGATTTCCTTACCATTTTAGCACACGAAGTGCCCTATCTA
* *
70288 GAAAATTCATACACTTATTATGATTTCCTTACCATTTTAGCACACGAAGTGCCCTATTTA
1 G-AAATTCATACACTTAGTATGATTTCCTTACCATTTTAGCACACGAAGTGCCCTATCTA
70348 GAAATTCATACACTTAGTATGATTTCCTTACCATTTTAGCACACGAAGTGCCCTATCTA
1 GAAATTCATACACTTAGTATGATTTCCTTACCATTTTAGCACACGAAGTGCCCTATCTA
* *
70407 GAAATTCATACACTTAGTGTGATTTCCTTACCATTTTAGCACACTAAGTGCCCTATCTA
1 GAAATTCATACACTTAGTATGATTTCCTTACCATTTTAGCACACGAAGTGCCCTATCTA
* *
70466 GATATTCATACACTTAGTATGATTTCCTTACCATTTTAGCACACGAAGTGCCCTATCTG
1 GAAATTCATACACTTAGTATGATTTCCTTACCATTTTAGCACACGAAGTGCCCTATCTA
* *
70525 GAAATTCATACGCTTAGTATGATTTCCTTACCATTTTAACACA
1 GAAATTCATACACTTAGTATGATTTCCTTACCATTTTAGCACA
70568 TTTAGTGCCA
Statistics
Matches: 259, Mismatches: 18, Indels: 4
0.92 0.06 0.01
Matches are distributed among these distances:
57 1 0.00
58 43 0.17
59 214 0.83
60 1 0.00
ACGTcount: A:0.31, C:0.23, G:0.12, T:0.35
Consensus pattern (59 bp):
GAAATTCATACACTTAGTATGATTTCCTTACCATTTTAGCACACGAAGTGCCCTATCTA
Found at i:71059 original size:21 final size:21
Alignment explanation
Indices: 71033--71106 Score: 139
Period size: 21 Copynumber: 3.5 Consensus size: 21
71023 TGCCTCTTCG
71033 GTATCGATACTGATTGAATTA
1 GTATCGATACTGATTGAATTA
71054 GTATCGATACTGATTGAATTA
1 GTATCGATACTGATTGAATTA
*
71075 GTATCGATACTGATTGAATCA
1 GTATCGATACTGATTGAATTA
71096 GTATCGATACT
1 GTATCGATACT
71107 ACTTAGCTAA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
21 52 1.00
ACGTcount: A:0.32, C:0.12, G:0.19, T:0.36
Consensus pattern (21 bp):
GTATCGATACTGATTGAATTA
Found at i:73542 original size:2 final size:2
Alignment explanation
Indices: 73535--73583 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
73525 CCGTAAATGT
73535 TA TA TA TA TA TA TA 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 TA TA TA TA TA TA TA
73577 TA TA TA T
1 TA TA TA T
73584 CTGACATCTT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:75582 original size:46 final size:45
Alignment explanation
Indices: 75532--75620 Score: 115
Period size: 46 Copynumber: 2.0 Consensus size: 45
75522 AAATATGCAT
* * *
75532 TTTCATTTATGACAAATGTTCATATCTTTTTATACACTATTATAGA
1 TTTCATTTAGGACAAATGTTCAT-GCCTTTTATACACTATTATAGA
* * *
75578 TTTCATTTAGGGCATATTTTCATGCCTTTTATACACTATTATA
1 TTTCATTTAGGACAAATGTTCATGCCTTTTATACACTATTATA
75621 CATTGTTATA
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
45 18 0.49
46 19 0.51
ACGTcount: A:0.29, C:0.15, G:0.08, T:0.48
Consensus pattern (45 bp):
TTTCATTTAGGACAAATGTTCATGCCTTTTATACACTATTATAGA
Found at i:76121 original size:59 final size:59
Alignment explanation
Indices: 76040--76214 Score: 296
Period size: 59 Copynumber: 3.0 Consensus size: 59
76030 ATTGCACAAA
* *
76040 AAGTGCCCATTCTAGAAATTCATACACTTAGTATGATTTCCTTACCATTTTAGCACACG
1 AAGTGCCCTTTCTGGAAATTCATACACTTAGTATGATTTCCTTACCATTTTAGCACACG
* *
76099 AAGTTCCCTTTCTGGAAATTCATACACTTAGTATGATTTCCTTACCATTTTAGCACATG
1 AAGTGCCCTTTCTGGAAATTCATACACTTAGTATGATTTCCTTACCATTTTAGCACACG
* *
76158 AAGTGCCCTATCTGGAAATTCATACACTTAGTATGATTTCCTTACCATCTTAGCACA
1 AAGTGCCCTTTCTGGAAATTCATACACTTAGTATGATTTCCTTACCATTTTAGCACA
76215 TTTAGTGCCA
Statistics
Matches: 109, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
59 109 1.00
ACGTcount: A:0.29, C:0.23, G:0.12, T:0.35
Consensus pattern (59 bp):
AAGTGCCCTTTCTGGAAATTCATACACTTAGTATGATTTCCTTACCATTTTAGCACACG
Found at i:76242 original size:59 final size:57
Alignment explanation
Indices: 76040--76234 Score: 255
Period size: 59 Copynumber: 3.3 Consensus size: 57
76030 ATTGCACAAA
* *
76040 AAGTGCCCATTCTAGAAATTCATACACTTAGTATGATTTCCTTACCATTTTAGCACACG
1 AAGTG-CCATT-TGGAAATTCATACACTTAGTATGATTTCCTTACCATTTTAGCACATG
* *
76099 AAGTTCCCTTTCTGGAAATTCATACACTTAGTATGATTTCCTTACCATTTTAGCACATG
1 AAG-TGCCATT-TGGAAATTCATACACTTAGTATGATTTCCTTACCATTTTAGCACATG
* * *
76158 AAGTGCCCTATCTGGAAATTCATACACTTAGTATGATTTCCTTACCATCTTAGCACATT
1 AAGTG-CC-ATTTGGAAATTCATACACTTAGTATGATTTCCTTACCATTTTAGCACATG
* *
76217 TAGTGCCATTTGGTAATT
1 AAGTGCCATTTGGAAATT
76235 ACTATACATA
Statistics
Matches: 121, Mismatches: 12, Indels: 8
0.86 0.09 0.06
Matches are distributed among these distances:
57 9 0.07
58 3 0.02
59 107 0.88
60 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.13, T:0.37
Consensus pattern (57 bp):
AAGTGCCATTTGGAAATTCATACACTTAGTATGATTTCCTTACCATTTTAGCACATG
Found at i:76703 original size:21 final size:21
Alignment explanation
Indices: 76677--76732 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
76667 TACTGCCTCT
76677 TTGGTATCGATACTGATTGAA
1 TTGGTATCGATACTGATTGAA
76698 TTGGTATCGATACTGATTGAA
1 TTGGTATCGATACTGATTGAA
**
76719 TCAGTATCGATACT
1 TTGGTATCGATACT
76733 ACTTAGCTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.29, C:0.12, G:0.21, T:0.38
Consensus pattern (21 bp):
TTGGTATCGATACTGATTGAA
Found at i:84334 original size:137 final size:137
Alignment explanation
Indices: 84162--84421 Score: 344
Period size: 137 Copynumber: 1.9 Consensus size: 137
84152 AAAATTTGTA
* * ** * *
84162 TATAATAGTTATCGATCGATTTTGTTTAATGCATAACAGTGCATTTTCGTATCAGCGTTGTGTGT
1 TATAATAGTTACCGACCGATTTTGTTTAATGCATAACAGTGCATTTTCGTATCAGCACTATATGT
* * * * *
84227 ACTTTCGGCACTA-GATGTGCAATCATGGTATTCATAATGAGTTTGTGAATTACCATTTCGATAT
66 ACTTTCGACACTATG-TGTGCAACCATGGAATTCAT-ATAAGTTTATGAATTACCATTTCGATAT
84291 ACAACTATG
129 ACAACTATG
* * *
84300 TATAA-AGTTACCGACCGATTTTGTTTAATGCATAACGGTTCATTTTCGTATCAGTACTATATGT
1 TATAATAGTTACCGACCGATTTTGTTTAATGCATAACAGTGCATTTTCGTATCAGCACTATATGT
* *
84364 ACTTTCGACACTATGTGTGCACCCATGGAATTCATATAAGTTTATGAATTTCCATTTC
66 ACTTTCGACACTATGTGTGCAACCATGGAATTCATATAAGTTTATGAATTACCATTTC
84422 AACACTTCAG
Statistics
Matches: 105, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
136 20 0.19
137 79 0.75
138 6 0.06
ACGTcount: A:0.28, C:0.16, G:0.17, T:0.39
Consensus pattern (137 bp):
TATAATAGTTACCGACCGATTTTGTTTAATGCATAACAGTGCATTTTCGTATCAGCACTATATGT
ACTTTCGACACTATGTGTGCAACCATGGAATTCATATAAGTTTATGAATTACCATTTCGATATAC
AACTATG
Found at i:86258 original size:28 final size:28
Alignment explanation
Indices: 86225--86283 Score: 109
Period size: 28 Copynumber: 2.1 Consensus size: 28
86215 TGTATATGAT
*
86225 AATGTGCTAAGTGAAAAGGTTCTACGTG
1 AATGTGCTAAGTGAAAAAGTTCTACGTG
86253 AATGTGCTAAGTGAAAAAGTTCTACGTG
1 AATGTGCTAAGTGAAAAAGTTCTACGTG
86281 AAT
1 AAT
86284 ATACCCTATG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.36, C:0.10, G:0.25, T:0.29
Consensus pattern (28 bp):
AATGTGCTAAGTGAAAAAGTTCTACGTG
Found at i:86450 original size:23 final size:23
Alignment explanation
Indices: 86424--86565 Score: 103
Period size: 23 Copynumber: 6.1 Consensus size: 23
86414 GGTTCTACGC
*
86424 GGTCCTTTGGGACAATTCTATGT
1 GGTCCTTCGGGACAATTCTATGT
* * * *
86447 GGTCATTCGGGAAAAATTCTACGC
1 GGTCCTTCGGG-ACAATTCTATGT
* *
86471 GATCCTTCGGGACATTTCTATGT
1 GGTCCTTCGGGACAATTCTATGT
* *
86494 GCTCCTTCGGGACATTTCTATGT
1 GGTCCTTCGGGACAATTCTATGT
* *
86517 GG-CACTTCGGTG-CATATTCTACGC
1 GGTC-CTTCGG-GACA-ATTCTATGT
86541 GG-CACTTCGGTG-CAATTCTATGT
1 GGTC-CTTCGG-GACAATTCTATGT
86564 GG
1 GG
86566 CAATTTCGAC
Statistics
Matches: 97, Mismatches: 18, Indels: 8
0.79 0.15 0.07
Matches are distributed among these distances:
22 1 0.01
23 57 0.59
24 39 0.40
ACGTcount: A:0.18, C:0.23, G:0.25, T:0.34
Consensus pattern (23 bp):
GGTCCTTCGGGACAATTCTATGT
Found at i:86479 original size:24 final size:24
Alignment explanation
Indices: 86416--86482 Score: 73
Period size: 24 Copynumber: 2.8 Consensus size: 24
86406 GAGTCGAGGG
* *
86416 TTCTACGCGGTCCTTTGGG-ACAA
1 TTCTACGCGGTCCTTCGGGAAAAA
* * *
86439 TTCTATGTGGTCATTCGGGAAAAA
1 TTCTACGCGGTCCTTCGGGAAAAA
*
86463 TTCTACGCGATCCTTCGGGA
1 TTCTACGCGGTCCTTCGGGA
86483 CATTTCTATG
Statistics
Matches: 34, Mismatches: 9, Indels: 1
0.77 0.20 0.02
Matches are distributed among these distances:
23 15 0.44
24 19 0.56
ACGTcount: A:0.21, C:0.22, G:0.25, T:0.31
Consensus pattern (24 bp):
TTCTACGCGGTCCTTCGGGAAAAA
Found at i:86490 original size:47 final size:47
Alignment explanation
Indices: 86416--86505 Score: 135
Period size: 47 Copynumber: 1.9 Consensus size: 47
86406 GAGTCGAGGG
* * *
86416 TTCTACGCGGTCCTTTGGGACAATTCTATGTGGTCATTCGGGAAAAA
1 TTCTACGCGATCCTTCGGGACAATTCTATGTGCTCATTCGGGAAAAA
* *
86463 TTCTACGCGATCCTTCGGGACATTTCTATGTGCTCCTTCGGGA
1 TTCTACGCGATCCTTCGGGACAATTCTATGTGCTCATTCGGGA
86506 CATTTCTATG
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 38 1.00
ACGTcount: A:0.19, C:0.23, G:0.24, T:0.33
Consensus pattern (47 bp):
TTCTACGCGATCCTTCGGGACAATTCTATGTGCTCATTCGGGAAAAA
Found at i:86549 original size:70 final size:70
Alignment explanation
Indices: 86426--86564 Score: 160
Period size: 70 Copynumber: 2.0 Consensus size: 70
86416 TTCTACGCGG
* * *
86426 TCCTTTGGGACAATTCTATGTGGTCATTCGGGAAAAATTCTACGCGATCCTTCGG-GACATTTCT
1 TCCTTCGGGACAATTCTATGTGGTCATTCGGGAAAAATTCTACGCGAGCCTTCGGTG-CAATTCT
86490 ATGTGC
65 ATGTGC
* * *
86496 TCCTTCGGGACATTTCTATGTGG-CACTTCGGTG-CATATTCTACGCG-GCACTTCGGTGCAATT
1 TCCTTCGGGACAATTCTATGTGGTCA-TTCGG-GAAAAATTCTACGCGAGC-CTTCGGTGCAATT
86558 CTATGTG
63 CTATGTG
86565 GCAATTTCGA
Statistics
Matches: 59, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
69 3 0.05
70 54 0.92
71 2 0.03
ACGTcount: A:0.19, C:0.23, G:0.24, T:0.35
Consensus pattern (70 bp):
TCCTTCGGGACAATTCTATGTGGTCATTCGGGAAAAATTCTACGCGAGCCTTCGGTGCAATTCTA
TGTGC
Found at i:86573 original size:24 final size:24
Alignment explanation
Indices: 86509--86567 Score: 93
Period size: 24 Copynumber: 2.5 Consensus size: 24
86499 TTCGGGACAT
86509 TTCTATGTGGCACTTCGGTGCATA
1 TTCTATGTGGCACTTCGGTGCATA
* *
86533 TTCTACGCGGCACTTCGGTGCA-A
1 TTCTATGTGGCACTTCGGTGCATA
86556 TTCTATGTGGCA
1 TTCTATGTGGCA
86568 ATTTCGACTG
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
23 11 0.35
24 20 0.65
ACGTcount: A:0.17, C:0.24, G:0.25, T:0.34
Consensus pattern (24 bp):
TTCTATGTGGCACTTCGGTGCATA
Found at i:87508 original size:15 final size:15
Alignment explanation
Indices: 87488--87538 Score: 52
Period size: 15 Copynumber: 3.4 Consensus size: 15
87478 GTGATAAACC
87488 TTTTAGATTTAGAAT
1 TTTTAGATTTAGAAT
87503 TTTTAG-TTT-GATTAT
1 TTTTAGATTTAGA--AT
* *
87518 TTTTATATTTAGGAT
1 TTTTAGATTTAGAAT
87533 TTTTAG
1 TTTTAG
87539 TTTGATTATT
Statistics
Matches: 29, Mismatches: 3, Indels: 8
0.73 0.08 0.20
Matches are distributed among these distances:
13 2 0.07
14 3 0.10
15 20 0.69
16 3 0.10
17 1 0.03
ACGTcount: A:0.25, C:0.00, G:0.14, T:0.61
Consensus pattern (15 bp):
TTTTAGATTTAGAAT
Found at i:87528 original size:30 final size:30
Alignment explanation
Indices: 87488--87550 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
87478 GTGATAAACC
87488 TTTTAGATTTAGAATTTTTAGTTTGATTAT
1 TTTTAGATTTAGAATTTTTAGTTTGATTAT
* *
87518 TTTTATATTTAGGATTTTTAGTTTGATTAT
1 TTTTAGATTTAGAATTTTTAGTTTGATTAT
87548 TTT
1 TTT
87551 ATTATTATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.24, C:0.00, G:0.13, T:0.63
Consensus pattern (30 bp):
TTTTAGATTTAGAATTTTTAGTTTGATTAT
Found at i:87549 original size:15 final size:15
Alignment explanation
Indices: 87501--87550 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
87491 TAGATTTAGA
87501 ATTTTTAGTTTGATT
1 ATTTTTAGTTTGATT
* **
87516 ATTTTTA-TATTTAGG
1 ATTTTTAGT-TTGATT
87531 ATTTTTAGTTTGATT
1 ATTTTTAGTTTGATT
87546 ATTTT
1 ATTTT
87551 ATTATTATTT
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
14 1 0.04
15 25 0.93
16 1 0.04
ACGTcount: A:0.22, C:0.00, G:0.12, T:0.66
Consensus pattern (15 bp):
ATTTTTAGTTTGATT
Found at i:95084 original size:562 final size:550
Alignment explanation
Indices: 94014--95125 Score: 2073
Period size: 562 Copynumber: 2.0 Consensus size: 550
94004 AAGAAGTTTG
94014 GACTGGAAAATGGGAAGCCACATAACACTCCAATGAGCTCATCGACAAAACTTGACATAGATGAA
1 GACTGGAAAATGGGAAGCCACATAACACTCCAATGAGCTCATCGACAAAACTTGACATAGATGAA
94079 GGAGGTAAATGTCTAGATGTTAAATTATACGTCAATGATTGGATCTTTGCTTATCTAACTGCAAG
66 GGAGGTAAATGTCTAGATGTTAAATTATACGTCAATGATTGGATCTTTGCTTATCTAACTGCAAG
94144 TAGACCGGACATTATGTTTAGTTTTGCTTATGTGCTAGATTTCAATCATGCCCTAAGGAATCACA
131 TAGACCGGACATTATGTTTAGTTTTGCTTATGTGCTAGATTTCAATCATGCCCTAAGGAATCACA
94209 TTTACTATTGTTAAGATGATCTTTAGATACCTTAAGGACACTCTAGTTTAGGACTTTGGTATCCT
196 TTTACTATTGTTAAGATGATCTTTAGATACCTTAAGGACACTCTAGTTTAGGACTTTGGTATCCT
94274 AGAGACTCTAGCTTTAGCTTGCATGCCTTCTCTAATGCGGATTATGGGATGCAAATTAGATAGGA
261 AGAGACTCTAGCTTTAGCTTGCATGCCTTCTCTAATGCGGATTATGGGATGCAAATTAGATAGGA
* *
94339 AAATCACCTCCGTACTTGCCAATTTCTTGGAAATATGTTGATTTCTTGGTTTTCAAAGAAACAAA
326 AAAGCACCTCCGTACTTGCCAATTCCTTGGAAATATGTTGATTTCTTGGTTTTCAAAGAAACAAA
*
94404 ATTGTGTCGCATTATCTGCCACGAAGGAATATATTTCAGCTGGTAGTGTTGTGCACAAGTTTTAT
391 ATTGTGTCGCATTATCTACCACGAAGGAATATATTTCAGCTGGTAGTGTTGTGCACAAGTTTTAT
94469 GGATGAAACAACAACTTTTTGATTATGGAATTGAAGTAGGTACCATTCCTATCAAGTGTGACAAT
456 GGATGAAACAACAACTTTTTGATTATGGAATTGAAGTAGGTACCATTCCTATCAAGTGTGACAAT
94534 ACTAGTGCTATTTGTCTCACTAAAAATCCC
521 ACTAGTGCTATTTGTCTCACTAAAAATCCC
94564 GACTGGAAAATGGGAAGCCACATAACACTCCAATGAGCTCATCGACAAAACTTGACATAGATGAA
1 GACTGGAAAATGGGAAGCCACATAACACTCCAATGAGCTCATCGACAAAACTTGACATAGATGAA
94629 GGAGGT-AATGTCTAGATGTTAAATTATATACGTCAATGATTGGATCTTTGCTTTATCTAACTGC
66 GGAGGTAAATGTCTAGATGTTAAA-T-TATACGTCAATGATTGGATCTTTGC-TTATCTAACTGC
94693 AAGTAGACCGGACATTATGTTTAGTGTTTGCTTATGTGCTAGATTTCAATCATGCCCTAAGGAAT
128 AAGTAGACCGGACATTATGTTTAGT-TTTGCTTATGTGCTAGATTTCAATCATGCCCTAAGGAAT
94758 CACATTTACTAGTTGTTAAGATGATCTTTAGATACCTTAAGGACACTCTTAGTTTAGGACTTTGG
192 CACATTTACTA-TTGTTAAGATGATCTTTAGATACCTTAAGGACACTC-TAGTTTAGGACTTTGG
94823 TATCCTAGAGACTCTAGCTTTAGCTTGCATGCCTTCTCTAATGCGGATTATGGAGGATGCAAATT
255 TATCCTAGAGACTCTAGCTTTAGCTTGCATGCCTTCTCTAATGCGGATTAT-G-GGATGCAAATT
94888 AGATAGGAAAAGCACCTCCGGTACTTGCCAATTCCTTGGAAATATGTTGATTTCTTGGTTTTCAA
318 AGATAGGAAAAGCACCTCC-GTACTTGCCAATTCCTTGGAAATATGTTGATTTCTTGGTTTTCAA
94953 AGAAACAAAATTGTGTCGCATTATCTACCACTGAAGCGGAATATATTTCAGCTGGTAGTTGTTGT
382 AGAAACAAAATTGTGTCGCATTATCTACCAC-GAA--GGAATATATTTCAGCTGGTAG-TGTTGT
95018 GCACAAGTTTTATGGATGAAACAACAACTTTTTGATTATGGAATTGAAGTAGGTACCATTCCTAT
443 GCACAAGTTTTATGGATGAAACAACAACTTTTTGATTATGGAATTGAAGTAGGTACCATTCCTAT
95083 CAAGTGTGACAATACTAGTGCTATTTGTCTCACTAAAAATCCC
508 CAAGTGTGACAATACTAGTGCTATTTGTCTCACTAAAAATCCC
95126 ATCCAACACT
Statistics
Matches: 546, Mismatches: 3, Indels: 14
0.97 0.01 0.02
Matches are distributed among these distances:
549 17 0.03
550 72 0.13
551 25 0.05
552 37 0.07
553 50 0.09
554 36 0.07
555 67 0.12
556 1 0.00
557 29 0.05
558 74 0.14
559 3 0.01
561 21 0.04
562 114 0.21
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.33
Consensus pattern (550 bp):
GACTGGAAAATGGGAAGCCACATAACACTCCAATGAGCTCATCGACAAAACTTGACATAGATGAA
GGAGGTAAATGTCTAGATGTTAAATTATACGTCAATGATTGGATCTTTGCTTATCTAACTGCAAG
TAGACCGGACATTATGTTTAGTTTTGCTTATGTGCTAGATTTCAATCATGCCCTAAGGAATCACA
TTTACTATTGTTAAGATGATCTTTAGATACCTTAAGGACACTCTAGTTTAGGACTTTGGTATCCT
AGAGACTCTAGCTTTAGCTTGCATGCCTTCTCTAATGCGGATTATGGGATGCAAATTAGATAGGA
AAAGCACCTCCGTACTTGCCAATTCCTTGGAAATATGTTGATTTCTTGGTTTTCAAAGAAACAAA
ATTGTGTCGCATTATCTACCACGAAGGAATATATTTCAGCTGGTAGTGTTGTGCACAAGTTTTAT
GGATGAAACAACAACTTTTTGATTATGGAATTGAAGTAGGTACCATTCCTATCAAGTGTGACAAT
ACTAGTGCTATTTGTCTCACTAAAAATCCC
Found at i:95625 original size:24 final size:23
Alignment explanation
Indices: 95598--95678 Score: 71
Period size: 23 Copynumber: 3.6 Consensus size: 23
95588 ACACTTAACA
95598 GTGCATCGATGCATCCCTTTGAAT
1 GTGCATCGATGCATCCC-TTGAAT
* * *
95622 GTGCATTGATTCAT--CTTG-TT
1 GTGCATCGATGCATCCCTTGAAT
*
95642 GATGCACCGATGCA-CGCCTTGAAT
1 G-TGCATCGATGCATC-CCTTGAAT
95666 GTGCATCGATGCA
1 GTGCATCGATGCA
95679 CAGGTTCATG
Statistics
Matches: 44, Mismatches: 8, Indels: 11
0.70 0.13 0.17
Matches are distributed among these distances:
20 2 0.05
21 12 0.27
22 1 0.02
23 15 0.34
24 14 0.32
ACGTcount: A:0.21, C:0.23, G:0.23, T:0.32
Consensus pattern (23 bp):
GTGCATCGATGCATCCCTTGAAT
Found at i:96692 original size:23 final size:23
Alignment explanation
Indices: 96643--96692 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 23
96633 AATATTTTAT
* * *
96643 TTTAATTAAATTATATTTAAATT
1 TTTAACTAAATTATAATTAAATG
* *
96666 TTTAACTAATTTATAATTATATG
1 TTTAACTAAATTATAATTAAATG
96689 TTTA
1 TTTA
96693 GTACTTCATA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (23 bp):
TTTAACTAAATTATAATTAAATG
Found at i:96968 original size:56 final size:56
Alignment explanation
Indices: 96907--97020 Score: 151
Period size: 56 Copynumber: 2.0 Consensus size: 56
96897 TTAAAATACA
*
96907 TAAATGAT-TCCCGACTATAGGATACTACTTTGTTGAGTCTC-CCGGCTATTAAAAGT
1 TAAATGATCTCCCGACTATAAG-TACTACTTTGTTGAGTC-CACCGGCTATTAAAAGT
* * * *
96963 TAAATGATCTCTCGATTATAAGTATTACTTTGTTGAGTCCATCGGCTATTAAAAGT
1 TAAATGATCTCCCGACTATAAGTACTACTTTGTTGAGTCCACCGGCTATTAAAAGT
97019 TA
1 TA
97021 TAAAATGACC
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
55 1 0.02
56 40 0.78
57 10 0.20
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.37
Consensus pattern (56 bp):
TAAATGATCTCCCGACTATAAGTACTACTTTGTTGAGTCCACCGGCTATTAAAAGT
Found at i:98256 original size:16 final size:17
Alignment explanation
Indices: 98218--98263 Score: 76
Period size: 18 Copynumber: 2.7 Consensus size: 17
98208 TGTTTATGAG
98218 GGAATTGGAATCTGTGAA
1 GGAATTGGAATCTGT-AA
98236 GGAATTGGAATCTGT-A
1 GGAATTGGAATCTGTAA
98252 GGAATTGGAATC
1 GGAATTGGAATC
98264 CAATTTCATA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
16 13 0.46
18 15 0.54
ACGTcount: A:0.33, C:0.07, G:0.33, T:0.28
Consensus pattern (17 bp):
GGAATTGGAATCTGTAA
Found at i:98949 original size:31 final size:31
Alignment explanation
Indices: 98857--98950 Score: 82
Period size: 31 Copynumber: 2.9 Consensus size: 31
98847 CACTTAAAAA
* ** *
98857 ACCCGACCCGACCCGAACAAAATAAAGTTTC
1 ACCCGACCCGACCCGAACATAATAAAAATCC
* *
98888 ATCCGACCCGACCCGAATATATGAATTAAAAATCC
1 ACCCGACCCGACCCG-A-ACAT-AA-TAAAAATCC
98923 GACCCGACCCGACCCGAA-ATAATAAAAA
1 -ACCCGACCCGACCCGAACATAATAAAAA
98951 ATTATTTTTA
Statistics
Matches: 51, Mismatches: 7, Indels: 10
0.75 0.10 0.15
Matches are distributed among these distances:
31 20 0.39
32 3 0.06
33 4 0.08
34 3 0.06
35 7 0.14
36 14 0.27
ACGTcount: A:0.41, C:0.32, G:0.13, T:0.14
Consensus pattern (31 bp):
ACCCGACCCGACCCGAACATAATAAAAATCC
Found at i:99123 original size:36 final size:37
Alignment explanation
Indices: 99038--99130 Score: 143
Period size: 38 Copynumber: 2.5 Consensus size: 37
99028 TCTTCACCCT
99038 AAACCCGAACCCGACCCGACCCGAATATCACACTTAAAA
1 AAACCCG-ACCCGACCCGACCCGAATATCACACTT-AAA
*
99077 AAACCCGACCCGACTCGACCCGAATATCACACTT-AA
1 AAACCCGACCCGACCCGACCCGAATATCACACTTAAA
*
99113 AAACCTGACCCGACCCGA
1 AAACCCGACCCGACCCGA
99131 ACAAAATAAA
Statistics
Matches: 51, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
36 18 0.35
38 26 0.51
39 7 0.14
ACGTcount: A:0.38, C:0.40, G:0.12, T:0.11
Consensus pattern (37 bp):
AAACCCGACCCGACCCGACCCGAATATCACACTTAAA
Found at i:99139 original size:258 final size:256
Alignment explanation
Indices: 98821--99318 Score: 754
Period size: 257 Copynumber: 1.9 Consensus size: 256
98811 TAAACCCGAT
98821 CCCGACCCGACCTAACCCGAATATCACACTTAAAAAACCCGACCCGACCCGAACAAAATAAAGTT
1 CCCGACCCGACCTAACCCGAATATCACACTTAAAAAACCCGACCCGACCCGAACAAAATAAAGTT
98886 TCATCCGA-C-CCGACCCGAATATATGAATTAAAAATCCGACCCGACCCGACCCGAAATAATAAA
66 TCATCCGACCACCGACCCGAATATATGAATTAAAAAT-----CCGACCCGACCCGAAATAATAAA
* * *
98949 AAATTATTTTTATTTAATAAAAACAGTTACTTAATCCGACCCGACCCGAATTATATATATTTTCG
126 AAATTAATTTTATTTAATAAAAACAGTGACTTAATCCAACCCGACCCGAATTATATATATTTTCG
99014 AGTCGG-TCTGGTTTTCTTCACCCTAAACCCGAACCCGACCCGACCCGAATATCACACTTAAAAA
191 AGTCGGTTC-GGTTTTCTTCACCCTAAACCCGAACCCGACCCGACCCGAATATCACACTTAAAAA
99078 AA
255 AA
* *
99080 CCCGACCCGA-CTCGACCCGAATATCACACTT-AAAAACCTGACCCGACCCGAACAAAATAAAGT
1 CCCGACCCGACCT-AACCCGAATATCACACTTAAAAAACCCGACCCGACCCGAACAAAATAAAGT
* *
99143 TTCATCCGACCCGACCGACCCGAATATATGAATTAGAAATCCGATCCGACCCGAAATAATAAAAA
65 TTCATCCGA-CC-ACCGACCCGAATATATGAATTAAAAATCCGACCCGACCCGAAATAATAAAAA
* * * * *
99208 ATTAATTTTATTTAATAAAAATAGTGACTTAATTCAACCTGACCTGAATTATATATATTTTCGGG
128 ATTAATTTTATTTAATAAAAACAGTGACTTAATCCAACCCGACCCGAATTATATATATTTTCGAG
* *
99273 TTGGTTCGGTTTTTTTCACCCTAAACCCGAACCCGACCCGACCCGA
193 TCGGTTCGGTTTTCTTCACCCTAAACCCGAACCCGACCCGACCCGA
99319 CCCGACCCGA
Statistics
Matches: 219, Mismatches: 14, Indels: 14
0.89 0.06 0.06
Matches are distributed among these distances:
257 122 0.56
258 44 0.20
259 27 0.12
260 1 0.00
262 25 0.11
ACGTcount: A:0.36, C:0.29, G:0.12, T:0.23
Consensus pattern (256 bp):
CCCGACCCGACCTAACCCGAATATCACACTTAAAAAACCCGACCCGACCCGAACAAAATAAAGTT
TCATCCGACCACCGACCCGAATATATGAATTAAAAATCCGACCCGACCCGAAATAATAAAAAATT
AATTTTATTTAATAAAAACAGTGACTTAATCCAACCCGACCCGAATTATATATATTTTCGAGTCG
GTTCGGTTTTCTTCACCCTAAACCCGAACCCGACCCGACCCGAATATCACACTTAAAAAAA
Found at i:99192 original size:66 final size:66
Alignment explanation
Indices: 99081--99205 Score: 157
Period size: 66 Copynumber: 1.9 Consensus size: 66
99071 TTAAAAAAAC
*
99081 CCGACCCGACTCGACCCGAATATCACACTTAAAAACCTGACCCGACCCGAACAAAATAAAGTTTC
1 CCGACCCGACTCGACCCGAATATCACAATTAAAAACCTGACCCGACCCGAA-AAAATAAAGTTTC
99146 AT
65 AT
* * * *
99148 CCGACCCGAC-CGACCCGAATAT-ATGAATTAGAAATCC-GATCCGACCCGAAATAATAAA
1 CCGACCCGACTCGACCCGAATATCA-CAATTA-AAAACCTGACCCGACCCGAAAAAATAAA
99206 AAATTAATTT
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
65 8 0.16
66 28 0.55
67 15 0.29
ACGTcount: A:0.38, C:0.32, G:0.14, T:0.16
Consensus pattern (66 bp):
CCGACCCGACTCGACCCGAATATCACAATTAAAAACCTGACCCGACCCGAAAAAATAAAGTTTCA
T
Found at i:99313 original size:5 final size:5
Alignment explanation
Indices: 99297--99328 Score: 55
Period size: 5 Copynumber: 6.2 Consensus size: 5
99287 TTCACCCTAA
99297 ACCCG AACCCG ACCCG ACCCG ACCCG ACCCG A
1 ACCCG -ACCCG ACCCG ACCCG ACCCG ACCCG A
99329 ATATATGAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 21 0.81
6 5 0.19
ACGTcount: A:0.25, C:0.56, G:0.19, T:0.00
Consensus pattern (5 bp):
ACCCG
Found at i:99491 original size:27 final size:24
Alignment explanation
Indices: 99452--99513 Score: 61
Period size: 24 Copynumber: 2.5 Consensus size: 24
99442 CTCCAACAAA
* *
99452 GGAATTGAATTTCATCCATTTTTGGAT
1 GGAATTCAATTTC-CCCA-TTTT-GAT
*
99479 GGAATTCACTTTCCCCATTTTGAT
1 GGAATTCAATTTCCCCATTTTGAT
*
99503 GGAATTGAATT
1 GGAATTCAATT
99514 CCATCAGAGA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
24 12 0.40
25 4 0.13
26 3 0.10
27 11 0.37
ACGTcount: A:0.26, C:0.15, G:0.18, T:0.42
Consensus pattern (24 bp):
GGAATTCAATTTCCCCATTTTGAT
Found at i:99894 original size:23 final size:24
Alignment explanation
Indices: 99864--99918 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
99854 GAATATCTCT
* *
99864 TTGTGACACAT-TTTTCTTTGCCC
1 TTGTGACACATATTTTATCTGCCC
* *
99887 TTGTGACACTTATTTTATCTGCTC
1 TTGTGACACATATTTTATCTGCCC
99911 TTGTGACA
1 TTGTGACA
99919 TGATTCTTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
23 10 0.37
24 17 0.63
ACGTcount: A:0.16, C:0.22, G:0.15, T:0.47
Consensus pattern (24 bp):
TTGTGACACATATTTTATCTGCCC
Found at i:99913 original size:24 final size:23
Alignment explanation
Indices: 99857--99918 Score: 65
Period size: 24 Copynumber: 2.7 Consensus size: 23
99847 TGAATAAGAA
99857 TATCT-CT-TTGTGACACATTTT
1 TATCTGCTCTTGTGACACATTTT
* * * *
99878 TCTTTGCCCTTGTGACACTTATTT
1 TATCTGCTCTTGTGACACAT-TTT
99902 TATCTGCTCTTGTGACA
1 TATCTGCTCTTGTGACA
99919 TGATTCTTAT
Statistics
Matches: 31, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
21 3 0.10
22 1 0.03
23 10 0.32
24 17 0.55
ACGTcount: A:0.16, C:0.23, G:0.13, T:0.48
Consensus pattern (23 bp):
TATCTGCTCTTGTGACACATTTT
Found at i:100265 original size:21 final size:21
Alignment explanation
Indices: 100236--100288 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
100226 ATTCTGACTA
100236 TCGCATTGCGATTTCCCAAAT
1 TCGCATTGCGATTTCCCAAAT
* * *
100257 TCGCGTTGCGATTTTCCTAAT
1 TCGCATTGCGATTTCCCAAAT
*
100278 TCGCAATGCGA
1 TCGCATTGCGA
100289 ATACGTAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTCCCAAAT
Found at i:100303 original size:20 final size:20
Alignment explanation
Indices: 100278--100364 Score: 104
Period size: 20 Copynumber: 4.3 Consensus size: 20
100268 TTTTCCTAAT
100278 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* ** *
100298 TCGCAACGCGAATTTGGAAAA
1 TCGCAATGCGAA-TACGTAAA
100319 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
*
100339 TCTCAATGCGAAT-CTGTAAA
1 TCGCAATGCGAATAC-GTAAA
100359 TCGCAA
1 TCGCAA
100365 CGAGATTCTG
Statistics
Matches: 55, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
19 1 0.02
20 38 0.69
21 16 0.29
ACGTcount: A:0.38, C:0.21, G:0.20, T:0.22
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:100324 original size:41 final size:40
Alignment explanation
Indices: 100278--100364 Score: 129
Period size: 41 Copynumber: 2.1 Consensus size: 40
100268 TTTTCCTAAT
*
100278 TCGCAATGCGAATACGTAAATCGCAACGCGAATTTGGAAAA
1 TCGCAATGCGAATACGTAAATCGCAACGCGAATCT-GAAAA
* * *
100319 TCGCAATGCGAATACGTAAATCTCAATGCGAATCTGTAAA
1 TCGCAATGCGAATACGTAAATCGCAACGCGAATCTGAAAA
100359 TCGCAA
1 TCGCAA
100365 CGAGATTCTG
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
40 10 0.24
41 32 0.76
ACGTcount: A:0.38, C:0.21, G:0.20, T:0.22
Consensus pattern (40 bp):
TCGCAATGCGAATACGTAAATCGCAACGCGAATCTGAAAA
Found at i:101240 original size:24 final size:24
Alignment explanation
Indices: 101213--101266 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
101203 GTATTCGAAA
101213 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
101237 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
101261 TTTGAT
1 TTTGAT
101267 GATTTTTCAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:103692 original size:20 final size:21
Alignment explanation
Indices: 103667--103755 Score: 105
Period size: 20 Copynumber: 4.4 Consensus size: 21
103657 CAACGCGGAA
103667 ATCGCAACGC-GAATATGACT
1 ATCGCAACGCGGAATATGACT
* * *
103687 ATCGCAACAC-AAAAATGACT
1 ATCGCAACGCGGAATATGACT
*
103707 ATCGCAATGCGGAAT-TGACT
1 ATCGCAACGCGGAATATGACT
*
103727 ATCGCAACACGGAA-ATGACT
1 ATCGCAACGCGGAATATGACT
103747 ATCGCAACG
1 ATCGCAACG
103756 AGAGAATCGC
Statistics
Matches: 57, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
20 55 0.96
21 2 0.04
ACGTcount: A:0.38, C:0.25, G:0.19, T:0.18
Consensus pattern (21 bp):
ATCGCAACGCGGAATATGACT
Found at i:103726 original size:40 final size:40
Alignment explanation
Indices: 103667--103755 Score: 135
Period size: 40 Copynumber: 2.2 Consensus size: 40
103657 CAACGCGGAA
103667 ATCGCAACGCGAATATGACTATCGCAACACAAAAATGACT
1 ATCGCAACGCGAATATGACTATCGCAACACAAAAATGACT
* **
103707 ATCGCAATGCGGAAT-TGACTATCGCAACACGGAAATGACT
1 ATCGCAACGC-GAATATGACTATCGCAACACAAAAATGACT
103747 ATCGCAACG
1 ATCGCAACG
103756 AGAGAATCGC
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
40 40 0.91
41 4 0.09
ACGTcount: A:0.38, C:0.25, G:0.19, T:0.18
Consensus pattern (40 bp):
ATCGCAACGCGAATATGACTATCGCAACACAAAAATGACT
Found at i:103815 original size:34 final size:33
Alignment explanation
Indices: 103738--103822 Score: 134
Period size: 33 Copynumber: 2.5 Consensus size: 33
103728 TCGCAACACG
**
103738 GAAATGACTATCGCAACGAGAGAATCGCAATGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAATGC
*
103771 GAAATGAAAATCGCAACGAGTGAATCGCAATGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAATGC
103804 GAAAATGAAAATCGCAACG
1 G-AAATGAAAATCGCAACG
103823 TGAAATTAGT
Statistics
Matches: 48, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
33 31 0.65
34 17 0.35
ACGTcount: A:0.44, C:0.19, G:0.24, T:0.14
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAATGC
Found at i:103881 original size:33 final size:34
Alignment explanation
Indices: 103839--103932 Score: 129
Period size: 33 Copynumber: 2.8 Consensus size: 34
103829 TAGTTTTGCA
103839 TTGCGATTTTCATTTTCGCATT-CGATTCACTCG
1 TTGCGATTTTCATTTTCGCATTGCGATTCACTCG
*
103872 TTGCGATTTTCA-TTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTTCGCATTGCGATTCACTCG
** *
103905 TTGCGATAGTCATTTTCGGCGTTGCGAT
1 TTGCGATTTTCATTTTC-GCATTGCGAT
103933 AGTCTGTTTT
Statistics
Matches: 54, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
32 9 0.17
33 32 0.59
34 4 0.07
35 9 0.17
ACGTcount: A:0.14, C:0.22, G:0.20, T:0.44
Consensus pattern (34 bp):
TTGCGATTTTCATTTTCGCATTGCGATTCACTCG
Found at i:103896 original size:19 final size:19
Alignment explanation
Indices: 103836--103898 Score: 66
Period size: 19 Copynumber: 3.6 Consensus size: 19
103826 AATTAGTTTT
103836 GCATTGCGATTTTCATTTTC
1 GCATTGCGATTTTCA-TTTC
*
103856 GCATT-CGA--TTCA-CTC
1 GCATTGCGATTTTCATTTC
103871 G--TTGCGATTTTCATTTC
1 GCATTGCGATTTTCATTTC
103888 GCATTGCGATT
1 GCATTGCGATT
103899 CTCTCGTTGC
Statistics
Matches: 35, Mismatches: 2, Indels: 13
0.70 0.04 0.26
Matches are distributed among these distances:
13 2 0.06
14 3 0.09
15 3 0.09
16 4 0.11
17 7 0.20
19 11 0.31
20 5 0.14
ACGTcount: A:0.16, C:0.22, G:0.17, T:0.44
Consensus pattern (19 bp):
GCATTGCGATTTTCATTTC
Found at i:105843 original size:33 final size:33
Alignment explanation
Indices: 105786--105869 Score: 96
Period size: 33 Copynumber: 2.5 Consensus size: 33
105776 GCAAATGACT
** * * *
105786 ATCGCAACGCGAAAATGACTATCGCAACGAGAGA
1 ATCGCAACGCG-AAATGAAAATCGCAACAAAAAA
* *
105820 ATTGCAATGCGAAATGAAAATCGCAACAAAAAA
1 ATCGCAACGCGAAATGAAAATCGCAACAAAAAA
105853 ATCGCAACGCGAAATGA
1 ATCGCAACGCGAAATGA
105870 CTATCGGAAA
Statistics
Matches: 41, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
33 32 0.78
34 9 0.22
ACGTcount: A:0.46, C:0.20, G:0.20, T:0.13
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACAAAAAA
Found at i:105970 original size:20 final size:20
Alignment explanation
Indices: 105945--106067 Score: 143
Period size: 20 Copynumber: 6.5 Consensus size: 20
105935 GATTCTTTCG
**
105945 TTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCATTTTCGCA
105965 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
*
105985 TTGAGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
* *
106005 TTGTG--A-TC--TCTCG--
1 TTGCGATAGTCATTTTCGCA
*
106018 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCATTTTCGCA
106038 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
106058 TTGCGATAGT
1 TTGCGATAGT
106068 AAACTATTCT
Statistics
Matches: 88, Mismatches: 8, Indels: 14
0.80 0.07 0.13
Matches are distributed among these distances:
13 4 0.05
15 5 0.06
16 2 0.02
17 2 0.02
18 5 0.06
20 70 0.80
ACGTcount: A:0.20, C:0.19, G:0.22, T:0.39
Consensus pattern (20 bp):
TTGCGATAGTCATTTTCGCA
Found at i:106026 original size:73 final size:74
Alignment explanation
Indices: 105924--106067 Score: 218
Period size: 73 Copynumber: 2.0 Consensus size: 74
105914 GCGATTTTCA
*
105924 TTTCACATTGCGATTCTTTCGTTGCGATAGTCAAATTCGCATTGCGATAGTCATTTTCGCATTGA
1 TTTCACATTGCGATTCTCTCGTTGCGATAGTCAAATTCGCATTGCGATAGTCATTTTCGCATTGA
105989 GATAGTCAT
66 GATAGTCAT
* * ** * *
105998 TTTCGCATTGTGA-TCTCTCGTTGCGATAGTCATTTTCGCGTTGCGATAGTCATTTTCGCATTGC
1 TTTCACATTGCGATTCTCTCGTTGCGATAGTCAAATTCGCATTGCGATAGTCATTTTCGCATTGA
106062 GATAGT
66 GATAGT
106068 AAACTATTCT
Statistics
Matches: 63, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
73 52 0.83
74 11 0.17
ACGTcount: A:0.19, C:0.19, G:0.21, T:0.40
Consensus pattern (74 bp):
TTTCACATTGCGATTCTCTCGTTGCGATAGTCAAATTCGCATTGCGATAGTCATTTTCGCATTGA
GATAGTCAT
Found at i:107936 original size:21 final size:21
Alignment explanation
Indices: 107912--107952 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
107902 CTGAAACTTT
107912 AAATCGCAACACGAAAATGAA
1 AAATCGCAACACGAAAATGAA
107933 AAATCGCAACACGAAAATGA
1 AAATCGCAACACGAAAATGA
107953 CTATCGCAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.56, C:0.20, G:0.15, T:0.10
Consensus pattern (21 bp):
AAATCGCAACACGAAAATGAA
Found at i:107960 original size:20 final size:20
Alignment explanation
Indices: 107914--107982 Score: 84
Period size: 20 Copynumber: 3.4 Consensus size: 20
107904 GAAACTTTAA
**
107914 ATCGCAACACGAAAATGAAAA
1 ATCGCAACACGAAAATG-ACT
107935 ATCGCAACACGAAAATGACT
1 ATCGCAACACGAAAATGACT
* **
107955 ATCGCAACGCGAATTTGACT
1 ATCGCAACACGAAAATGACT
107975 ATCGCAAC
1 ATCGCAAC
107983 GCAAGAATCG
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
20 26 0.60
21 17 0.40
ACGTcount: A:0.43, C:0.25, G:0.16, T:0.16
Consensus pattern (20 bp):
ATCGCAACACGAAAATGACT
Found at i:108057 original size:20 final size:20
Alignment explanation
Indices: 108032--108074 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
108022 CTCTCGTTGT
108032 GATAGTCAAATTCGCATTGC
1 GATAGTCAAATTCGCATTGC
** *
108052 GATAGTCATTTTCGCGTTGC
1 GATAGTCAAATTCGCATTGC
108072 GAT
1 GAT
108075 TCACTCGTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.35
Consensus pattern (20 bp):
GATAGTCAAATTCGCATTGC
Found at i:108467 original size:22 final size:22
Alignment explanation
Indices: 108406--108467 Score: 62
Period size: 18 Copynumber: 3.0 Consensus size: 22
108396 TGACCGTGAA
* *
108406 TGATTTCGCCGGAGATGGAGAC
1 TGATTTCGTCGGAGATGGGGAC
108428 TG-TTATCGTC---G-TGGGGAC
1 TGATT-TCGTCGGAGATGGGGAC
108446 TGATTTCGTCGGAGATGGGGAC
1 TGATTTCGTCGGAGATGGGGAC
108468 GGATGTCGCC
Statistics
Matches: 32, Mismatches: 2, Indels: 12
0.70 0.04 0.26
Matches are distributed among these distances:
18 13 0.41
19 3 0.09
21 3 0.09
22 13 0.41
ACGTcount: A:0.18, C:0.16, G:0.39, T:0.27
Consensus pattern (22 bp):
TGATTTCGTCGGAGATGGGGAC
Found at i:108734 original size:20 final size:21
Alignment explanation
Indices: 108663--108739 Score: 70
Period size: 20 Copynumber: 3.7 Consensus size: 21
108653 CGATAGTCAG
*
108663 ATTCGCATTGCGA-TTTACGT
1 ATTCGCATTGCAATTTTACGT
* * **
108683 AATCGCATTGCAATTTTCCAA
1 ATTCGCATTGCAATTTTACGT
108704 ATTCG-AGTTGC-ATTTTACGT
1 ATTCGCA-TTGCAATTTTACGT
108724 ATTCGCATTGCGAATT
1 ATTCGCATTGC-AATT
108740 AGGAAAATCG
Statistics
Matches: 43, Mismatches: 9, Indels: 8
0.72 0.15 0.13
Matches are distributed among these distances:
20 27 0.63
21 13 0.30
22 3 0.07
ACGTcount: A:0.25, C:0.19, G:0.17, T:0.39
Consensus pattern (21 bp):
ATTCGCATTGCAATTTTACGT
Found at i:108750 original size:21 final size:21
Alignment explanation
Indices: 108726--108778 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
108716 TTTTACGTAT
*
108726 TCGCATTGCGAATTAGGAAAA
1 TCGCAATGCGAATTAGGAAAA
* * *
108747 TCGCAACGCGAATTTGGGAAA
1 TCGCAATGCGAATTAGGAAAA
108768 TCGCAATGCGA
1 TCGCAATGCGA
108779 TAGTCAGAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.34, C:0.19, G:0.26, T:0.21
Consensus pattern (21 bp):
TCGCAATGCGAATTAGGAAAA
Found at i:112641 original size:2 final size:2
Alignment explanation
Indices: 112634--112668 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
112624 ATTTACCAAA
112634 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
112669 GCATCCTCGG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:112941 original size:21 final size:21
Alignment explanation
Indices: 112826--112941 Score: 60
Period size: 21 Copynumber: 5.6 Consensus size: 21
112816 GCGAAATAAA
**
112826 AATCGCAACGCGA-TCCCCAG
1 AATCGCAACGCGATTTTCCAG
** * *
112846 AATCGCAAATC-AGTTTCCAA
1 AATCGCAACGCGATTTTCCAG
* *
112866 AATCGCAACGCGATTCTT-GAC
1 AATCGCAACGCGATT-TTCCAG
* ** *
112887 AATCGCAATGCGATAGTACA-
1 AATCGCAACGCGATTTTCCAG
**
112907 AATTCGCATTGCGATTTTCCAG
1 AA-TCGCAACGCGATTTTCCAG
112929 AATCGCAACGCGA
1 AATCGCAACGCGA
112942 ATATGAAAAT
Statistics
Matches: 70, Mismatches: 20, Indels: 11
0.69 0.20 0.11
Matches are distributed among these distances:
19 1 0.01
20 25 0.36
21 40 0.57
22 4 0.06
ACGTcount: A:0.33, C:0.28, G:0.18, T:0.22
Consensus pattern (21 bp):
AATCGCAACGCGATTTTCCAG
Found at i:112954 original size:20 final size:20
Alignment explanation
Indices: 112929--113121 Score: 246
Period size: 20 Copynumber: 9.6 Consensus size: 20
112919 GATTTTCCAG
* ** *
112929 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
112949 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
112969 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
112989 AACCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
113009 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
113029 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
113049 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
113069 AATCGCAACGAC-AATACGTAA
1 AATCGCAACG-CGTATCCGT-A
113090 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
113110 AATCGCAACGCG
1 AATCGCAACGCG
113122 ATTTTTAAAG
Statistics
Matches: 151, Mismatches: 17, Indels: 10
0.85 0.10 0.06
Matches are distributed among these distances:
19 1 0.01
20 131 0.87
21 19 0.13
ACGTcount: A:0.35, C:0.28, G:0.19, T:0.18
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:113537 original size:33 final size:33
Alignment explanation
Indices: 113498--113568 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
113488 TTCACTTAGA
113498 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
113531 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
113564 TTTCA
1 TTTCA
113569 AGTTAGTATT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.11, C:0.24, G:0.17, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:113674 original size:21 final size:20
Alignment explanation
Indices: 113648--113754 Score: 93
Period size: 21 Copynumber: 5.5 Consensus size: 20
113638 TGCAGAAGAG
113648 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAGA-AAATGAAAA
* * **
113669 TCGCAATGTGAAAATGACTA
1 TCGCAACGAGAAAATGAAAA
113689 TCTGCAACGAGAAAAATGAAAA
1 TC-GCAACGAG-AAAATGAAAA
113711 TCGCAACGAG---A-G--AA
1 TCGCAACGAGAAAATGAAAA
*
113725 TCGCAACGCG-AAATGAAAA
1 TCGCAACGAGAAAATGAAAA
113744 TCGCAACGAGA
1 TCGCAACGAGA
113755 GAATCGCAAC
Statistics
Matches: 68, Mismatches: 10, Indels: 17
0.72 0.11 0.18
Matches are distributed among these distances:
14 11 0.16
16 2 0.03
17 2 0.03
19 11 0.16
20 9 0.13
21 23 0.34
22 10 0.15
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.14
Consensus pattern (20 bp):
TCGCAACGAGAAAATGAAAA
Found at i:113728 original size:14 final size:14
Alignment explanation
Indices: 113709--113765 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
113699 GAAAAATGAA
113709 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
113723 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
113742 AATCGCAACGAGAG
1 AATCGCAACGAGAG
113756 AATCGCAACG
1 AATCGCAACG
113766 CGAAACCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.44, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:113740 original size:33 final size:33
Alignment explanation
Indices: 113702--113781 Score: 142
Period size: 33 Copynumber: 2.4 Consensus size: 33
113692 GCAACGAGAA
113702 AAATGAAAATCGCAACGAGAGAATCGCAACGCG
1 AAATGAAAATCGCAACGAGAGAATCGCAACGCG
113735 AAATGAAAATCGCAACGAGAGAATCGCAACGCG
1 AAATGAAAATCGCAACGAGAGAATCGCAACGCG
**
113768 AAACCAAAATCGCA
1 AAATGAAAATCGCA
113782 TTGCGATTTT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.47, C:0.23, G:0.21, T:0.09
Consensus pattern (33 bp):
AAATGAAAATCGCAACGAGAGAATCGCAACGCG
Found at i:113799 original size:19 final size:19
Alignment explanation
Indices: 113777--113837 Score: 69
Period size: 19 Copynumber: 3.5 Consensus size: 19
113767 GAAACCAAAA
*
113777 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
113796 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
113810 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
113829 TCGCGTTGC
1 TCGCGTTGC
113838 TATTCTCTCG
Statistics
Matches: 34, Mismatches: 3, Indels: 10
0.72 0.06 0.21
Matches are distributed among these distances:
14 10 0.29
16 3 0.09
17 3 0.09
19 18 0.53
ACGTcount: A:0.10, C:0.25, G:0.21, T:0.44
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:113818 original size:14 final size:14
Alignment explanation
Indices: 113799--113855 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
113789 TTTCATTTCG
113799 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
113813 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
*
113832 CGTTGCTATTCTCT
1 CGTTGCGATTCTCT
113846 CGTTGCGATT
1 CGTTGCGATT
113856 TTCATTTCTC
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
14 19 0.56
16 3 0.09
17 3 0.09
19 9 0.26
ACGTcount: A:0.09, C:0.25, G:0.21, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:113824 original size:33 final size:33
Alignment explanation
Indices: 113782--113863 Score: 155
Period size: 33 Copynumber: 2.5 Consensus size: 33
113772 CAAAATCGCA
113782 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
*
113815 TTGCGATTTTCATTTCGCGTTGCTATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
113848 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
113864 TCTCTTTGCG
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 48 1.00
ACGTcount: A:0.10, C:0.23, G:0.18, T:0.49
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:113866 original size:21 final size:21
Alignment explanation
Indices: 113840--113904 Score: 87
Period size: 21 Copynumber: 3.1 Consensus size: 21
113830 CGCGTTGCTA
113840 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
* ***
113861 TTCTCTCTTTGCGACAGTCA-
1 TTCTCTCGTTGCGATTTTCAT
113881 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
113902 TTC
1 TTC
113905 AACCAAAAGA
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
20 16 0.46
21 19 0.54
ACGTcount: A:0.11, C:0.26, G:0.14, T:0.49
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:115744 original size:93 final size:93
Alignment explanation
Indices: 115581--115896 Score: 607
Period size: 93 Copynumber: 3.4 Consensus size: 93
115571 TAGATTGCTT
*
115581 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
115646 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
115674 AG-ACAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGT
1 AGTA-AATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGT
115738 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
65 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
115767 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
115832 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
115860 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
115897 AATACCCTGA
Statistics
Matches: 220, Mismatches: 1, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
92 1 0.00
93 218 0.99
94 1 0.00
ACGTcount: A:0.22, C:0.14, G:0.19, T:0.45
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:116031 original size:14 final size:14
Alignment explanation
Indices: 116012--116068 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
116002 CGAAACTTAA
116012 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
116026 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
*
116045 AATCGCAACGACAG
1 AATCGCAACGAGAG
116059 AATCGCAACG
1 AATCGCAACG
116069 CGAAACCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 19 0.54
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.44, C:0.25, G:0.23, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:116047 original size:33 final size:33
Alignment explanation
Indices: 116010--116117 Score: 180
Period size: 33 Copynumber: 3.3 Consensus size: 33
116000 CACGAAACTT
* **
116010 AAAATCGCAACGAGAGAATCGCAACGCGAAATG
1 AAAATCGCAACGACAGAATCGCAACGCGAAACC
116043 AAAATCGCAACGACAGAATCGCAACGCGAAACC
1 AAAATCGCAACGACAGAATCGCAACGCGAAACC
*
116076 AAAATCGCAACGACAAAATCGCAACGCGAAACC
1 AAAATCGCAACGACAGAATCGCAACGCGAAACC
116109 AAAATCGCA
1 AAAATCGCA
116118 TTGCGATTTT
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 71 1.00
ACGTcount: A:0.47, C:0.27, G:0.19, T:0.07
Consensus pattern (33 bp):
AAAATCGCAACGACAGAATCGCAACGCGAAACC
Found at i:116050 original size:19 final size:18
Alignment explanation
Indices: 116026--116117 Score: 65
Period size: 19 Copynumber: 5.4 Consensus size: 18
116016 GCAACGAGAG
116026 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAA-GAA
*
116045 AATCGCAA--CGACAG--
1 AATCGCAACGCGAAAGAA
*
116059 AATCGCAACGCGAAACCAA
1 AATCGCAACGCGAAA-GAA
*
116078 AATCGCAA--CG--ACAA
1 AATCGCAACGCGAAAGAA
*
116092 AATCGCAACGCGAAACCAA
1 AATCGCAACGCGAAA-GAA
116111 AATCGCA
1 AATCGCA
116118 TTGCGATTTT
Statistics
Matches: 60, Mismatches: 3, Indels: 20
0.72 0.04 0.24
Matches are distributed among these distances:
14 19 0.32
15 1 0.02
16 7 0.12
17 6 0.10
18 1 0.02
19 26 0.43
ACGTcount: A:0.47, C:0.28, G:0.17, T:0.08
Consensus pattern (18 bp):
AATCGCAACGCGAAAGAA
Found at i:116094 original size:14 final size:14
Alignment explanation
Indices: 116043--116101 Score: 64
Period size: 14 Copynumber: 3.9 Consensus size: 14
116033 ACGCGAAATG
116043 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
116057 AGAATCGCAACGCGAAACC
1 AAAATCGCAA--CG--A-C
116076 AAAATCGCAACGAC
1 AAAATCGCAACGAC
116090 AAAATCGCAACG
1 AAAATCGCAACG
116102 CGAAACCAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
14 22 0.58
15 1 0.03
16 2 0.05
17 2 0.05
18 1 0.03
19 10 0.26
ACGTcount: A:0.47, C:0.29, G:0.17, T:0.07
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:116135 original size:19 final size:19
Alignment explanation
Indices: 116113--116285 Score: 159
Period size: 19 Copynumber: 9.6 Consensus size: 19
116103 GAAACCAAAA
*
116113 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
116132 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
116146 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
116165 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
116181 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
116198 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
**
116217 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
* *
116236 TCTCGTTGCGATTCTCATT
1 TCGCGTTGCGATTTTCATT
*
116255 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
116275 TCGTGTTGCGA
1 TCGCGTTGCGA
116286 AAGTAAACTA
Statistics
Matches: 126, Mismatches: 17, Indels: 21
0.77 0.10 0.13
Matches are distributed among these distances:
14 17 0.13
16 8 0.06
17 8 0.06
19 81 0.64
20 12 0.10
ACGTcount: A:0.10, C:0.20, G:0.24, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:116154 original size:14 final size:14
Alignment explanation
Indices: 116135--116191 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
116125 TTTCATTTCG
116135 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
116149 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TCT
*
116166 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTCT
116182 CGTTGCGATT
1 CGTTGCGATT
116192 TTCATTTCGC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 16 0.44
16 7 0.19
17 7 0.19
19 6 0.17
ACGTcount: A:0.11, C:0.23, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:116243 original size:38 final size:38
Alignment explanation
Indices: 116113--116285 Score: 168
Period size: 33 Copynumber: 4.8 Consensus size: 38
116103 GAAACCAAAA
*
116113 TCGCATTGCGATTTTCATTTCGCGTTGCGATTCTC---
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCATT
* *
116148 T--CGTTGCGATTTTCATTTCGCATTGCGA-T-TC-TG
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCATT
* **
116181 T--CGTTGCGATTTTCATTTCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCATT
** *
116217 TCGCGTTGCGATTTTGGTTTCTCGTTGCGATTCTCATT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCATT
* *
116255 TCGCGTTGCGATTTTAAGTTTCGTGTTGCGA
1 TCGCGTTGCGATTTTCA-TTTCGCGTTGCGA
116286 AAGTAAACTA
Statistics
Matches: 115, Mismatches: 15, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
31 2 0.02
32 1 0.01
33 52 0.45
34 1 0.01
35 2 0.02
36 2 0.02
38 44 0.38
39 11 0.10
ACGTcount: A:0.10, C:0.20, G:0.24, T:0.46
Consensus pattern (38 bp):
TCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCATT
Found at i:118242 original size:14 final size:14
Alignment explanation
Indices: 118207--118242 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
118197 GATTGTTTAA
118207 TTGATTTGTAAAAG
1 TTGATTTGTAAAAG
*
118221 ATGA-TTGTAAAAG
1 TTGATTTGTAAAAG
118234 TTGATTTGT
1 TTGATTTGT
118243 GTAATTGATG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
13 12 0.63
14 7 0.37
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TTGATTTGTAAAAG
Found at i:118425 original size:20 final size:19
Alignment explanation
Indices: 118349--118447 Score: 127
Period size: 20 Copynumber: 5.4 Consensus size: 19
118339 AAAAATGACT
118349 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
118368 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
118387 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
118401 ATCGCAATGCAGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
118421 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
*
118441 ATTGCAA
1 ATCGCAA
118448 CGAGAGAATC
Statistics
Matches: 70, Mismatches: 4, Indels: 11
0.82 0.05 0.13
Matches are distributed among these distances:
14 10 0.14
15 1 0.01
16 1 0.01
17 3 0.04
19 27 0.39
20 28 0.40
ACGTcount: A:0.46, C:0.16, G:0.22, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:118452 original size:54 final size:52
Alignment explanation
Indices: 118349--118466 Score: 209
Period size: 54 Copynumber: 2.2 Consensus size: 52
118339 AAAAATGACT
118349 ATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
118401 ATCGCAATGCAGAAATGAAAATCGCAATGCGGAAATGAAAATTGCAACGAGAGA
1 ATCGCAATGC-GAAATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
118455 ATCGCAATGCGA
1 ATCGCAATGCGA
118467 TTTTCATTTC
Statistics
Matches: 63, Mismatches: 1, Indels: 3
0.94 0.01 0.04
Matches are distributed among these distances:
52 10 0.16
53 21 0.33
54 32 0.51
ACGTcount: A:0.45, C:0.17, G:0.24, T:0.14
Consensus pattern (52 bp):
ATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:118484 original size:19 final size:19
Alignment explanation
Indices: 118456--118698 Score: 274
Period size: 19 Copynumber: 13.7 Consensus size: 19
118446 AACGAGAGAA
*
118456 TCGCAATGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
118475 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
118494 TCCGCATTGCGA--TTC-TC
1 T-CGCATTGCGATTTTCATT
118511 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
118528 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
118547 TCGCATTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
118563 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
118580 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
118599 TCCGCATTGCGA--TTC-TC
1 T-CGCATTGCGATTTTCATT
118616 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
118633 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
118652 TCCGCATTGCGATTTTCA--
1 T-CGCATTGCGATTTTCATT
*
118670 T-G--TTGGGATTTTCATT
1 TCGCATTGCGATTTTCATT
118686 TCGCATTGCGATT
1 TCGCATTGCGATT
118699 CTCTCGTTGC
Statistics
Matches: 192, Mismatches: 9, Indels: 46
0.78 0.04 0.19
Matches are distributed among these distances:
14 29 0.15
16 19 0.10
17 20 0.10
18 7 0.04
19 81 0.42
20 36 0.19
ACGTcount: A:0.14, C:0.23, G:0.18, T:0.45
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:118627 original size:86 final size:84
Alignment explanation
Indices: 118533--118712 Score: 242
Period size: 86 Copynumber: 2.1 Consensus size: 84
118523 TCATTTCGCA
118533 TTGCGATTTTCATTTCGCATTGCGA-TTC-TCT-CG-TTGCGATTTTCATTTCGCATTGCGATTT
1 TTGCGATTTTCATTTCGCATTGCGATTTCATCTCCGATTGCGATTTTCA--T-G--TTGCGATTT
118594 TCATTTCCGCATTGCGATTCTCTCG
61 TCATTT-CGCATTGCGATTCTCTCG
* *
118619 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTTTCATGTTGGGATTTTCA
1 TTGCGATTTTCATTTCGCATTGCGA-TTTCATCTCCG-ATTGCGATTTTCATGTTGCGATTTTCA
118684 TTTCGCATTGCGATTCTCTCG
64 TTTCGCATTGCGATTCTCTCG
118705 TTGCGATT
1 TTGCGATT
118713 GTAATTTCCG
Statistics
Matches: 86, Mismatches: 2, Indels: 12
0.86 0.02 0.12
Matches are distributed among these distances:
86 51 0.59
87 14 0.16
88 3 0.03
89 3 0.03
90 3 0.03
92 12 0.14
ACGTcount: A:0.13, C:0.22, G:0.18, T:0.46
Consensus pattern (84 bp):
TTGCGATTTTCATTTCGCATTGCGATTTCATCTCCGATTGCGATTTTCATGTTGCGATTTTCATT
TCGCATTGCGATTCTCTCG
Found at i:118644 original size:105 final size:106
Alignment explanation
Indices: 118462--118698 Score: 433
Period size: 105 Copynumber: 2.2 Consensus size: 106
118452 AGAATCGCAA
118462 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGTTGCGATTTTCAT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGTTGCGATTTTCAT
118527 TTCGCATTGCGATTTTCATTT-CGCATTGCGATTCTC-TCGT
66 TTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCAT-GT
118567 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGTTGCGATTTTCAT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGTTGCGATTTTCAT
*
118632 TTCGCATTGCGATTTTCATTTCCGCATTGCGATTTTCATGT
66 TTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCATGT
*
118673 TGGGATTTTCATTTCGCATTGCGATT
1 TGCGATTTTCATTTCGCATTGCGATT
118699 CTCTCGTTGC
Statistics
Matches: 128, Mismatches: 2, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
105 86 0.67
106 41 0.32
107 1 0.01
ACGTcount: A:0.14, C:0.22, G:0.18, T:0.46
Consensus pattern (106 bp):
TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGTTGCGATTTTCAT
TTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCATGT
Found at i:118696 original size:33 final size:34
Alignment explanation
Indices: 118462--118712 Score: 205
Period size: 33 Copynumber: 7.2 Consensus size: 34
118452 AGAATCGCAA
118462 TGCGATTTTCATTTCGCATTGCGATTTTCAT--T
1 TGCGATTTTCATTTCGCATTGCGATTTTCATCGT
* * * *
118494 TCCGCA-TTGCGATTCTCTCGTTGCGATTTTCATTTCGCAT
1 TGCG-ATTTTC-ATT-TCGCATTGCGATTTTCA--TCG--T
*
118534 TGCGATTTTCATTTCGCATTGCGATTCTC-TCGT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATCGT
118567 TGCGATTTTCATTTCGCATTGCGATTTTCAT--T
1 TGCGATTTTCATTTCGCATTGCGATTTTCATCGT
* * * *
118599 TCCGCA-TTGCGATTCTCTCGTTGCGATTTTCATTTCGCAT
1 TGCG-ATTTTC-ATT-TCGCATTGCGATTTTCA--TCG--T
118639 TGCGATTTTCATTTCCGCATTGCGATTTTCAT-GT
1 TGCGATTTTCATTT-CGCATTGCGATTTTCATCGT
* *
118673 TGGGATTTTCATTTCGCATTGCGATTCTC-TCGT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATCGT
118706 TGCGATT
1 TGCGATT
118713 GTAATTTCCG
Statistics
Matches: 175, Mismatches: 21, Indels: 45
0.73 0.09 0.19
Matches are distributed among these distances:
32 14 0.08
33 59 0.34
34 45 0.26
35 3 0.02
36 3 0.02
37 1 0.01
38 14 0.08
39 22 0.13
40 14 0.08
ACGTcount: A:0.14, C:0.23, G:0.18, T:0.46
Consensus pattern (34 bp):
TGCGATTTTCATTTCGCATTGCGATTTTCATCGT
Found at i:118727 original size:53 final size:53
Alignment explanation
Indices: 118462--118698 Score: 433
Period size: 53 Copynumber: 4.5 Consensus size: 53
118452 AGAATCGCAA
118462 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGT
118515 TGCGATTTTCATTTCGCATTGCGATTTTCATTT-CGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGT
118567 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGT
*
118620 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTTTCAT-GT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTC-TCGT
*
118673 TGGGATTTTCATTTCGCATTGCGATT
1 TGCGATTTTCATTTCGCATTGCGATT
118699 CTCTCGTTGC
Statistics
Matches: 180, Mismatches: 2, Indels: 4
0.97 0.01 0.02
Matches are distributed among these distances:
52 52 0.29
53 127 0.71
54 1 0.01
ACGTcount: A:0.14, C:0.22, G:0.18, T:0.46
Consensus pattern (53 bp):
TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGT
Found at i:121968 original size:3 final size:3
Alignment explanation
Indices: 121955--122010 Score: 78
Period size: 3 Copynumber: 18.3 Consensus size: 3
121945 GTAAATGTAA
*
121955 AAT AAT AAAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAC AAT
1 AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
122001 -AT AATT AAT A
1 AAT AA-T AAT A
122011 TTTATAATAT
Statistics
Matches: 48, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
2 2 0.04
3 40 0.83
4 6 0.12
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:122307 original size:51 final size:51
Alignment explanation
Indices: 122252--122543 Score: 332
Period size: 51 Copynumber: 5.5 Consensus size: 51
122242 CATAAAACAA
* * *
122252 GTCCGTTCTCTATTCCTTCAGAGAGTATAGGACTAAATCTTCAACAAATGT
1 GTCCGCTCCCTATTCCTTCAGAGAGTATAGGACTAAATCTTCAACAAACGT
* *
122303 GTCCGCTCCCCATTCCTTCAGAGAGTATAGGACTCAATCTTCAATCAAACGT
1 GTCCGCTCCCTATTCCTTCAGAGAGTATAGGACTAAATCTTCAA-CAAACGT
* * *
122355 GTCCGCTCCCTATTTCTTCAGAGAGTATATGACTTGAACAACCTTCAACAAACGT
1 GTCCGCTCCCTATTCCTTCAGAGAGTATAGGAC-T--A-AATCTTCAACAAACGT
* * * *
122410 GTCCTCTCCCTATTCCTTCAGAAAGTATAGGACTCAATCTTCAACAAATGT
1 GTCCGCTCCCTATTCCTTCAGAGAGTATAGGACTAAATCTTCAACAAACGT
* * * **
122461 GTCTGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAATAATTTTCAACATTCGT
1 GTCCGCTCCCTATTCCTTCAGAGAGTATAGGACT---A-AATCTTCAACAAACGT
* *
122516 GTCTGCTCCCTATTTCTTCAGAGAGTAT
1 GTCCGCTCCCTATTCCTTCAGAGAGTAT
122544 TAGACTCGAA
Statistics
Matches: 205, Mismatches: 27, Indels: 14
0.83 0.11 0.06
Matches are distributed among these distances:
51 84 0.41
52 36 0.18
53 1 0.00
54 1 0.00
55 75 0.37
56 8 0.04
ACGTcount: A:0.27, C:0.26, G:0.15, T:0.32
Consensus pattern (51 bp):
GTCCGCTCCCTATTCCTTCAGAGAGTATAGGACTAAATCTTCAACAAACGT
Found at i:122419 original size:55 final size:55
Alignment explanation
Indices: 122261--122672 Score: 404
Period size: 55 Copynumber: 7.7 Consensus size: 55
122251 AGTCCGTTCT
* *
122261 CTATTCCTTCAGAGAGTATAGGAC-T--A-AATCTTCAACAAATGTGTCCGCTCC
1 CTATTCCTTCAGAGAGTATAGGACTTGAACAATCTTCAACAAACGTGTCTGCTCC
* *
122312 CCATTCCTTCAGAGAGTATAGGAC-T---CAATCTTCAATCAAACGTGTCCGCTCC
1 CTATTCCTTCAGAGAGTATAGGACTTGAACAATCTTCAA-CAAACGTGTCTGCTCC
* * *
122364 CTATTTCTTCAGAGAGTATATGACTTGAACAACCTTCAACAAACGTGTCCT-CTCC
1 CTATTCCTTCAGAGAGTATAGGACTTGAACAATCTTCAACAAACGTGT-CTGCTCC
* *
122419 CTATTCCTTCAGAAAGTATAGGAC-T---CAATCTTCAACAAATGTGTCTGCTCC
1 CTATTCCTTCAGAGAGTATAGGACTTGAACAATCTTCAACAAACGTGTCTGCTCC
* * * * **
122470 CTATTCCTTCAGAGAGTATAAGACTCGAATAATTTTCAACATTCGTGTCTGCTCC
1 CTATTCCTTCAGAGAGTATAGGACTTGAACAATCTTCAACAAACGTGTCTGCTCC
* * * * ** *
122525 CTATTTCTTCAGAGAGTATTA-GACTCGAACAATTTTCAATATTCATGTCTGCTCC
1 CTATTCCTTCAGAGAGTA-TAGGACTTGAACAATCTTCAACAAACGTGTCTGCTCC
* * * * *
122580 CTATTGCTTAAGAGAGTAT-GAGACTTGAACAATCTTCAACAATCGTGTCTCCTCT
1 CTATTCCTTCAGAGAGTATAG-GACTTGAACAATCTTCAACAAACGTGTCTGCTCC
** * *
122635 CTATTTGTTCAGAGAGTATAAGACTCGAACAATCTTCA
1 CTATTCCTTCAGAGAGTATAGGACTTGAACAATCTTCA
122673 TTTGCTTCAC
Statistics
Matches: 307, Mismatches: 38, Indels: 28
0.82 0.10 0.08
Matches are distributed among these distances:
50 2 0.01
51 76 0.25
52 36 0.12
53 1 0.00
54 2 0.01
55 178 0.58
56 12 0.04
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.32
Consensus pattern (55 bp):
CTATTCCTTCAGAGAGTATAGGACTTGAACAATCTTCAACAAACGTGTCTGCTCC
Found at i:122489 original size:158 final size:158
Alignment explanation
Indices: 122201--122556 Score: 443
Period size: 158 Copynumber: 2.2 Consensus size: 158
122191 CATTGGGTTT
* * * * * ** *
122201 GCTCCCT-TTTGCTTCAGGGAGTATAAAACTCAAACAATCTTCATA-AAACAAGTCCGT-TCTCT
1 GCTCCCTATTT-CTTCAGAGAGTATTAGACTCGAACAACCTTCA-ACAAACGTGTCC-TCTCCCT
*
122263 ATTCCTTCAGAGAGTATAGGACTAAATCTTCAACAAATGTGTCCGCTCCCCATTCCTTCAGAGAG
63 ATTCCTTCAGAAAGTATAGGACTAAATCTTCAACAAATGTGTCCGCTCCCCATTCCTTCAGAGAG
*
122328 TATAGGACTC-AATCTTCAATCAAACGTGTCC
128 TATAAGACTCAAATCTTCAA-CAAACGTGTCC
*
122359 GCTCCCTATTTCTTCAGAGAGTA-TATGACTTGAACAACCTTCAACAAACGTGTCCTCTCCCTAT
1 GCTCCCTATTTCTTCAGAGAGTATTA-GACTCGAACAACCTTCAACAAACGTGTCCTCTCCCTAT
* * *
122423 TCCTTCAGAAAGTATAGGACTCAATCTTCAACAAATGTGTCTGCTCCCTATTCCTTCAGAGAGTA
65 TCCTTCAGAAAGTATAGGACTAAATCTTCAACAAATGTGTCCGCTCCCCATTCCTTCAGAGAGTA
* ** *
122488 TAAGACTCGAATAATTTTCAACATTCGTGTCT
130 TAAGACTC--A-AATCTTCAACAAACGTGTCC
122520 GCTCCCTATTTCTTCAGAGAGTATTAGACTCGAACAA
1 GCTCCCTATTTCTTCAGAGAGTATTAGACTCGAACAA
122557 TTTTCAATAT
Statistics
Matches: 170, Mismatches: 19, Indels: 15
0.83 0.09 0.07
Matches are distributed among these distances:
157 3 0.02
158 113 0.66
159 3 0.02
161 41 0.24
162 10 0.06
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.31
Consensus pattern (158 bp):
GCTCCCTATTTCTTCAGAGAGTATTAGACTCGAACAACCTTCAACAAACGTGTCCTCTCCCTATT
CCTTCAGAAAGTATAGGACTAAATCTTCAACAAATGTGTCCGCTCCCCATTCCTTCAGAGAGTAT
AAGACTCAAATCTTCAACAAACGTGTCC
Found at i:122618 original size:110 final size:108
Alignment explanation
Indices: 122175--122672 Score: 384
Period size: 106 Copynumber: 4.6 Consensus size: 108
122165 TCCCTCTTCT
* * * * * * * * *
122175 TTGAACAATCTTCGACCATTGGGTTTGCTCCCT-TTTGCTTCAGGGAGTATAAAACTCAAACAAT
1 TTGAACAATCTTCAACAATCGTGTCT-CTCCCTATTT-CTTCAGAGAGTATTAGACTCGAACAAT
* * * * *
122239 CTTCATA-AAACAAGTCCGTTCTCTATTCCTTCAGAGAGTATAGGAC
64 CTTCA-ACAAATATGTCTGCTCCCTATTCCTTCAGAGAGTATA-GAC
* * *
122285 -T--A-AATCTTCAACAAAT-GTGTCCGCTCCCCATTCCTTCAGAGAGTA-TAGGACT----CAA
1 TTGAACAATCTTCAAC-AATCGTGT-CTCTCCCTATTTCTTCAGAGAGTATTA-GACTCGAACAA
** * *
122340 TCTTCAATCAAACGTGTCCGCTCCCTATTTCTTCAGAGAGTATATGAC
63 TCTTCAA-CAAATATGTCTGCTCCCTATTCCTTCAGAGAGTATA-GAC
* * * *
122388 TTGAACAACCTTCAACAAACGTGTCCTCTCCCTATTCCTTCAGAAAGTA-TAGGACT----CAAT
1 TTGAACAATCTTCAACAATCGTGT-CTCTCCCTATTTCTTCAGAGAGTATTA-GACTCGAACAAT
*
122448 CTTCAACAAATGTGTCTGCTCCCTATTCCTTCAGAGAGTATAAGAC
64 CTTCAACAAATATGTCTGCTCCCTATTCCTTCAGAGAGTAT-AGAC
* * * * *
122494 TCGAATAATTTTCAACATTCGTGTCTGCTCCCTATTTCTTCAGAGAGTATTAGACTCGAACAATT
1 TTGAACAATCTTCAACAATCGTGTCT-CTCCCTATTTCTTCAGAGAGTATTAGACTCGAACAATC
* * * *
122559 TTCAA-TATTCATGTCTGCTCCCTATTGCTTAAGAGAGTATGAGAC
65 TTCAACAAAT-ATGTCTGCTCCCTATTCCTTCAGAGAGTAT-AGAC
* * *
122604 TTGAACAATCTTCAACAATCGTGTCTCCTCTCTATTTGTTCAGAGAGTATAAGACTCGAACAATC
1 TTGAACAATCTTCAACAATCGTGTCT-CTCCCTATTTCTTCAGAGAGTATTAGACTCGAACAATC
122669 TTCA
65 TTCA
122673 TTTGCTTCAC
Statistics
Matches: 321, Mismatches: 48, Indels: 38
0.79 0.12 0.09
Matches are distributed among these distances:
101 1 0.00
102 9 0.03
103 33 0.10
104 1 0.00
105 3 0.01
106 111 0.35
107 60 0.19
109 3 0.01
110 100 0.31
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.32
Consensus pattern (108 bp):
TTGAACAATCTTCAACAATCGTGTCTCTCCCTATTTCTTCAGAGAGTATTAGACTCGAACAATCT
TCAACAAATATGTCTGCTCCCTATTCCTTCAGAGAGTATAGAC
Found at i:123981 original size:22 final size:24
Alignment explanation
Indices: 123948--123991 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
123938 AACCCTCCCT
123948 TTTTCTTTTTC-TTCCTTTTTTCA
1 TTTTCTTTTTCTTTCCTTTTTTCA
123971 TTTT-TTTTTCTTTCCTTTTTT
1 TTTTCTTTTTCTTTCCTTTTTT
123992 AAGCAAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.80
Consensus pattern (24 bp):
TTTTCTTTTTCTTTCCTTTTTTCA
Found at i:133524 original size:2 final size:2
Alignment explanation
Indices: 133517--133592 Score: 152
Period size: 2 Copynumber: 38.0 Consensus size: 2
133507 AAGCAAACCG
133517 TA TA TA TA TA TA TA 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 TA TA TA TA TA TA TA
133559 TA TA TA 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 TA TA TA
133593 AGAGTGTAAT
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 74 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:135542 original size:3 final size:3
Alignment explanation
Indices: 135536--135568 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
135526 TATGTAACAT
*
135536 TAA TAA TAA TAT TAA TAA TAA TAA TAA T-A TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
135569 TTTAATATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:135551 original size:6 final size:6
Alignment explanation
Indices: 135523--135582 Score: 52
Period size: 6 Copynumber: 10.2 Consensus size: 6
135513 GTAAAAAAAA
* * * * *
135523 TAATAT GTAACAT TAATAA TAATAT TAATAA TAATAA TAATA- TAATTT
1 TAATAT -TAATAT TAATAT TAATAT TAATAT TAATAT TAATAT TAATAT
135571 TAATA- TAATAT T
1 TAATAT TAATAT T
135583 TATAATCCGG
Statistics
Matches: 44, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
5 9 0.20
6 30 0.68
7 5 0.11
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (6 bp):
TAATAT
Found at i:137182 original size:12 final size:12
Alignment explanation
Indices: 137165--137189 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
137155 TCTTCGGGGA
137165 CTTTTTCTTCTT
1 CTTTTTCTTCTT
137177 CTTTTTCTTCTT
1 CTTTTTCTTCTT
137189 C
1 C
137190 AGGATTATAT
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:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:138011 original size:22 final size:21
Alignment explanation
Indices: 137963--138012 Score: 57
Period size: 22 Copynumber: 2.4 Consensus size: 21
137953 AAAACCTGTT
*
137963 GCCGGAT-TGGGAAGGATGTC
1 GCCGGATATAGGAAGGATGTC
**
137983 GTTGGATATAGGAACGGATGTC
1 GCCGGATATAGGAA-GGATGTC
138005 GCCGGATA
1 GCCGGATA
138013 GAGTGATAGA
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
20 5 0.22
21 5 0.22
22 13 0.57
ACGTcount: A:0.24, C:0.14, G:0.40, T:0.22
Consensus pattern (21 bp):
GCCGGATATAGGAAGGATGTC
Found at i:138131 original size:20 final size:20
Alignment explanation
Indices: 138103--138331 Score: 217
Period size: 20 Copynumber: 11.4 Consensus size: 20
138093 AAATTTCAGT
* * *
138103 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
138123 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
138143 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
* **
138163 GTTACGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
138183 GTTGCGATTTACGAATACGC
1 GTTGCGATTTACGGATTCGC
* *
138203 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
138223 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* * *
138243 GTTGCTATTTACGGATACAC
1 GTTGCGATTTACGGATTCGC
* *
138263 GTTGCGGTTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
*
138283 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCGC
* **
138303 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATTCGC
138323 GTTGCGATT
1 GTTGCGATT
138332 CTTGAAAATC
Statistics
Matches: 177, Mismatches: 30, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
20 176 0.99
21 1 0.01
ACGTcount: A:0.20, C:0.18, G:0.25, T:0.37
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCGC
Found at i:138390 original size:21 final size:21
Alignment explanation
Indices: 138299--138396 Score: 78
Period size: 21 Copynumber: 4.7 Consensus size: 21
138289 ATTTATGTGT
*
138299 TCGCGTTGCGATTTTC-ATAT
1 TCGCGTTGCGATTTTCAATAA
*
138319 TCGCGTTGCGATTCTTGAA-AA
1 TCGCGTTGCGATT-TTCAATAA
** *
138340 TCGCAATGCGAATTTGT-ACTAA
1 TCGCGTTGCG-ATTT-TCAATAA
* *
138362 -CGCATTGCGATTTTCAAGAA
1 TCGCGTTGCGATTTTCAATAA
138382 TCGCGTTGCGATTTT
1 TCGCGTTGCGATTTT
138397 GGAAACTGAT
Statistics
Matches: 62, Mismatches: 9, Indels: 13
0.74 0.11 0.15
Matches are distributed among these distances:
19 1 0.02
20 20 0.32
21 34 0.55
22 7 0.11
ACGTcount: A:0.22, C:0.19, G:0.21, T:0.37
Consensus pattern (21 bp):
TCGCGTTGCGATTTTCAATAA
Found at i:140330 original size:87 final size:88
Alignment explanation
Indices: 140177--140348 Score: 301
Period size: 87 Copynumber: 2.0 Consensus size: 88
140167 AACATGAAAA
*
140177 AACTTTCATCTCAAAATCAACTATCCATTTACCAGAAAAATAAATTATAGTTTAGAACCTAATCA
1 AACTTTCATCTCAAAATCAACTATCCATTTACCAGAAAAATAAAATATAGTTTAGAACCTAATCA
140242 AGTAAATTAAATATTCTTGGAAC
66 AGTAAATTAAATATTCTTGGAAC
* *
140265 AACTTTCATCTCAAAATCAACTATCCATTTGCCA-TAAAATAAAATATAGTTTAGAACCTAATCA
1 AACTTTCATCTCAAAATCAACTATCCATTTACCAGAAAAATAAAATATAGTTTAGAACCTAATCA
*
140329 AGTAAATTAAATCTTCTTGG
66 AGTAAATTAAATATTCTTGG
140349 GTTTATTGTA
Statistics
Matches: 80, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
87 47 0.59
88 33 0.41
ACGTcount: A:0.43, C:0.17, G:0.07, T:0.33
Consensus pattern (88 bp):
AACTTTCATCTCAAAATCAACTATCCATTTACCAGAAAAATAAAATATAGTTTAGAACCTAATCA
AGTAAATTAAATATTCTTGGAAC
Found at i:141838 original size:24 final size:24
Alignment explanation
Indices: 141806--141886 Score: 99
Period size: 24 Copynumber: 3.4 Consensus size: 24
141796 GATATTAGAA
* * *
141806 ATCAAAACAGAATTCAGATCATAT
1 ATCAGAACAGAATCCAGATCAGAT
*
141830 ATCAGAACAGAATCCAGATCAGAA
1 ATCAGAACAGAATCCAGATCAGAT
* * *
141854 ATCAGAACAGGATCCAGGTCAGGT
1 ATCAGAACAGAATCCAGATCAGAT
141878 ATCAGAACA
1 ATCAGAACA
141887 TAATTCAAAT
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 49 1.00
ACGTcount: A:0.46, C:0.20, G:0.17, T:0.17
Consensus pattern (24 bp):
ATCAGAACAGAATCCAGATCAGAT
Found at i:144178 original size:11 final size:11
Alignment explanation
Indices: 144162--144229 Score: 82
Period size: 11 Copynumber: 5.9 Consensus size: 11
144152 ACGGTTAACG
144162 GTCAACGGTCA
1 GTCAACGGTCA
144173 GTCAACGGTCA
1 GTCAACGGTCA
* *
144184 GTCAAAGTGTCG
1 GTCAACG-GTCA
144196 GTCAACGGTCA
1 GTCAACGGTCA
*
144207 GTCAACGAGTCG
1 GTCAACG-GTCA
144219 GTCAACAGGTC
1 GTCAAC-GGTC
144230 GGGTCGGACC
Statistics
Matches: 49, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
11 27 0.55
12 21 0.43
13 1 0.02
ACGTcount: A:0.26, C:0.25, G:0.29, T:0.19
Consensus pattern (11 bp):
GTCAACGGTCA
Found at i:144183 original size:34 final size:34
Alignment explanation
Indices: 144160--144231 Score: 110
Period size: 34 Copynumber: 2.1 Consensus size: 34
144150 GCACGGTTAA
144160 CGGTCAACGGTCAGTCAACGGTCAGTCAAAGTGT
1 CGGTCAACGGTCAGTCAACGGTCAGTCAAAGTGT
*
144194 CGGTCAACGGTCAGTCAACGAGTCGGTCAACAG-GT
1 CGGTCAACGGTCAGTCAACG-GTCAGTCAA-AGTGT
144229 CGG
1 CGG
144232 GTCGGACCAG
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
34 20 0.57
35 13 0.37
36 2 0.06
ACGTcount: A:0.25, C:0.25, G:0.32, T:0.18
Consensus pattern (34 bp):
CGGTCAACGGTCAGTCAACGGTCAGTCAAAGTGT
Found at i:144200 original size:23 final size:23
Alignment explanation
Indices: 144173--144229 Score: 87
Period size: 23 Copynumber: 2.4 Consensus size: 23
144163 TCAACGGTCA
*
144173 GTCAACGGTCAGTCAAAGTGTCG
1 GTCAACGGTCAGTCAAAGAGTCG
*
144196 GTCAACGGTCAGTCAACGAGTCG
1 GTCAACGGTCAGTCAAAGAGTCG
144219 GTCAACAGGTC
1 GTCAAC-GGTC
144230 GGGTCGGACC
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
23 27 0.87
24 4 0.13
ACGTcount: A:0.26, C:0.25, G:0.30, T:0.19
Consensus pattern (23 bp):
GTCAACGGTCAGTCAAAGAGTCG
Found at i:162315 original size:19 final size:19
Alignment explanation
Indices: 162288--162332 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
162278 TGGCTCGGCT
* *
162288 CGGTCCAGATCGATCCAGC
1 CGGTTCAGACCGATCCAGC
*
162307 CGGTTCAGACCGGTCCAGC
1 CGGTTCAGACCGATCCAGC
*
162326 CGATTCA
1 CGGTTCA
162333 ACATTCTCCC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.20, C:0.36, G:0.27, T:0.18
Consensus pattern (19 bp):
CGGTTCAGACCGATCCAGC
Found at i:164648 original size:5 final size:5
Alignment explanation
Indices: 164638--164691 Score: 58
Period size: 5 Copynumber: 11.2 Consensus size: 5
164628 TGACCGGTCT
* * * *
164638 GACCC GACCC GACCC GACCC AAACC GACCC GA-CT GA-CC GACCC GACCT
1 GACCC GACCC GACCC GACCC GACCC GACCC GACCC GACCC GACCC GACCC
164686 GACCC G
1 GACCC G
164692 TTGGCCCCTT
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
4 6 0.15
5 34 0.85
ACGTcount: A:0.24, C:0.52, G:0.20, T:0.04
Consensus pattern (5 bp):
GACCC
Found at i:164678 original size:13 final size:14
Alignment explanation
Indices: 164646--164689 Score: 54
Period size: 13 Copynumber: 3.1 Consensus size: 14
164636 CTGACCCGAC
**
164646 CCGACCCGACCCAAA
1 CCGACCCGA-CCTGA
164661 CCGACCCGA-CTGA
1 CCGACCCGACCTGA
164674 CCGACCCGACCTGA
1 CCGACCCGACCTGA
164688 CC
1 CC
164690 CGTTGGCCCC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
13 11 0.42
14 6 0.23
15 9 0.35
ACGTcount: A:0.25, C:0.52, G:0.18, T:0.05
Consensus pattern (14 bp):
CCGACCCGACCTGA
Found at i:167758 original size:22 final size:21
Alignment explanation
Indices: 167727--167771 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
167717 TGAAAACTTG
167727 TTTTAATTTTGAATATTAATAAA
1 TTTTAATTTTG--TATTAATAAA
*
167750 TTTT-ATTTTGTATTCATAAA
1 TTTTAATTTTGTATTAATAAA
167770 TT
1 TT
167772 ATTTTATGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 11 0.52
22 6 0.29
23 4 0.19
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.58
Consensus pattern (21 bp):
TTTTAATTTTGTATTAATAAA
Found at i:171981 original size:31 final size:31
Alignment explanation
Indices: 171946--172047 Score: 80
Period size: 31 Copynumber: 3.2 Consensus size: 31
171936 GATCAATAAT
171946 GAATTACCAGTCGGTGCTGAACCTATAAAAG
1 GAATTACCAGTCGGTGCTGAACCTATAAAAG
* *** * *
171977 GAATTACCA-ACAACGACTGAACCTGCCAGAGATAG
1 GAATTACCAGTCGGTG-CTGAACCT---ATA-AAAG
* *
172012 GAATTACCAGTCGGTGCAGAACCTATACAAG
1 GAATTACCAGTCGGTGCTGAACCTATAAAAG
172043 GAATT
1 GAATT
172048 TCCTGCAGTG
Statistics
Matches: 51, Mismatches: 14, Indels: 12
0.66 0.18 0.16
Matches are distributed among these distances:
30 2 0.04
31 24 0.47
32 2 0.04
34 2 0.04
35 19 0.37
36 2 0.04
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.20
Consensus pattern (31 bp):
GAATTACCAGTCGGTGCTGAACCTATAAAAG
Found at i:172061 original size:66 final size:66
Alignment explanation
Indices: 171946--172073 Score: 184
Period size: 66 Copynumber: 1.9 Consensus size: 66
171936 GATCAATAAT
* *
171946 GAATTACCAGTCGGTGCTGAACCTATAAAAGGAATTACCAACAACGACTGAACCTGCCAGAGATA
1 GAATTACCAGTCGGTGCAGAACCTATAAAAGGAATTACCAACAACGACTGAACCTACCAGAGATA
172011 G
66 G
* * ** **
172012 GAATTACCAGTCGGTGCAGAACCTATACAAGGAATTTCCTGCAGTGACTGAACCTACCAGAG
1 GAATTACCAGTCGGTGCAGAACCTATAAAAGGAATTACCAACAACGACTGAACCTACCAGAG
172074 TCTTCATACC
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
66 54 1.00
ACGTcount: A:0.35, C:0.23, G:0.22, T:0.20
Consensus pattern (66 bp):
GAATTACCAGTCGGTGCAGAACCTATAAAAGGAATTACCAACAACGACTGAACCTACCAGAGATA
G
Found at i:178117 original size:18 final size:18
Alignment explanation
Indices: 178094--178129 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
178084 GGATCGGTCA
*
178094 ACGGCTCGGCTCTGCTCG
1 ACGGCTCGACTCTGCTCG
*
178112 ACGGCTCGACTCTTCTCG
1 ACGGCTCGACTCTGCTCG
178130 GTAGCTCAGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.08, C:0.39, G:0.28, T:0.25
Consensus pattern (18 bp):
ACGGCTCGACTCTGCTCG
Found at i:180134 original size:32 final size:32
Alignment explanation
Indices: 180088--180170 Score: 148
Period size: 32 Copynumber: 2.6 Consensus size: 32
180078 GCACCTTGGT
*
180088 GCCTAAGAGCCTACCCAAGAAAGATTATCGGG
1 GCCTCAGAGCCTACCCAAGAAAGATTATCGGG
*
180120 GCCTCAGAGCCTACCCAAGAAAGATTCTCGGG
1 GCCTCAGAGCCTACCCAAGAAAGATTATCGGG
180152 GCCTCAGAGCCTACCCAAG
1 GCCTCAGAGCCTACCCAAG
180171 GGTCGCCTTA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
32 49 1.00
ACGTcount: A:0.30, C:0.31, G:0.24, T:0.14
Consensus pattern (32 bp):
GCCTCAGAGCCTACCCAAGAAAGATTATCGGG
Done.