Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01012362.1 Corchorus olitorius cultivar O-4 contig12395, 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: 81392
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.33
Found at i:7 original size:2 final size:2
Alignment explanation
Indices: 1--107 Score: 214
Period size: 2 Copynumber: 53.5 Consensus size: 2
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
43 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
85 CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT C
108 GTTATCTTCA
Statistics
Matches: 105, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 105 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:2378 original size:331 final size:330
Alignment explanation
Indices: 1213--2520 Score: 1638
Period size: 332 Copynumber: 4.0 Consensus size: 330
1203 ATCGTGTAGT
* *
1213 ATCACGGTATTTGGCTAAAAACGCGCTACGAGGTCCCGGGTCAGTTTTGCAAGATTTTCGGAGCC
1 ATCACGGTATTTGGCTAAAAACGCGCTACGA-GT-CCGGGTCAGTTTTGCAAGATTTTTGGCGCC
* * * * *
1278 CAAACTCCTTGAAATATTTATATTTATCTAACCAAATCTCACCAACATTTGATACATGAATTTGT
64 CAGACTCCTTGAAATATTTATATTCATCTAACCAAATCTCGCCAACATTTGATATATGGATTTGT
** * * * * *
1343 TTTTTCGATTATCGGAAACTAGTTTCAATTTAATTACAAATTACTTCAGAAAAAATAGGAAAAAT
129 TTTTTCGAGCATCAGAAACTAGTTTCGATTTAATTTCAAATTAATTCAGAAAAAATAGGAAAAAC
* * * *
1408 GATATTGGAAGCGTGGAAAGCCCTTCAATCTTTTTGGCATTTAATTATATGTTTTTCATTAGTAT
194 GATATTGGAAGCGTGAAAAGCCCTCCAATCTTTTTGGCATTGAATTATATATTTTTCATTAGTAT
** * *
1473 TTTGGCCAAAAATTGTGGAAAAATATTTTTGGTCAGTTCTCGTAAATTTTTAACCTAACTCGTGT
259 TTTGGCCAAAAATTGTGGAAAAATATTTCGGGTCAGTTCTCGTAAAATTTTAACCTAAATCGTGT
*
1538 ACTAATC
324 ACTAACC
* * ** ** *
1545 ATCACGGTATTTGGCTAAAAACGCGTTACGGGGTCGCGACTCAGTTTTGCTTGATTTTTGGCGTC
1 ATCACGGTATTTGGCTAAAAACGCGCTAC-GAGTC-CGGGTCAGTTTTGCAAGATTTTTGGCGCC
* * * * *
1610 CAGACTCCTTCAAATATCTATATTCATCTAAACAAATCTCGTCTACATTTGATATATGGATTTGT
64 CAGACTCCTTGAAATATTTATATTCATCTAACCAAATCTCGCCAACATTTGATATATGGATTTGT
* * * *
1675 TTTTTCGAGCATTAGAAAATGGTTTCGATTTAATTTCAAATTAATTCAGAAAAAATTGGAAAAAC
129 TTTTTCGAGCATCAGAAACTAGTTTCGATTTAATTTCAAATTAATTCAGAAAAAATAGGAAAAAC
* * *
1740 GATATTGAAAGCGTGAAAAGCCCTTCAATCTTTTTGGCTTTGAATTATATATTTTTCATTAGTAT
194 GATATTGGAAGCGTGAAAAGCCCTCCAATCTTTTTGGCATTGAATTATATATTTTTCATTAGTAT
* ** * * *
1805 TTTGGCCAAAAATTGTGGAAAAATATTTTGAATCAGTTCTCGCAAAATTTTAGCCTAAATCGTGC
259 TTTGGCCAAAAATTGTGGAAAAATATTTCGGGTCAGTTCTCGTAAAATTTTAACCTAAATCGTGT
*
1870 ACTAACT
324 ACTAACC
** * * * * *
1877 ATCTTGGTATCTGAAC-AAAAACGCGTTAC-A----GGGTC------CCAAG-TTTTTGGCGCCT
1 ATCACGGTATTTG-GCTAAAAACGCGCTACGAGTCCGGGTCAGTTTTGCAAGATTTTTGGCGCCC
* * *
1929 ATACTCCTTGAAATATATATATTCATCTAACCAAATCTTC-CCAATATTTGATATATGGATTTGT
65 AGACTCCTTGAAATATTTATATTCATCTAACCAAATC-TCGCCAACATTTGATATATGGATTTGT
* * *
1993 TTTTTCGAGCATCAAAAACTGGTTTCGATTTAATTTCAAATTAATTCAGAAAAAATAGGGAAAAC
129 TTTTTCGAGCATCAGAAACTAGTTTCGATTTAATTTCAAATTAATTCAGAAAAAATAGGAAAAAC
* * * *
2058 GATATTGGAAGCGTGAAAAGCCCTCCATTCTTTATGG-AGTTGAATCATGTATTTTTCATTAGTA
194 GATATTGGAAGCGTGAAAAGCCCTCCAATCTTTTTGGCA-TTGAATTATATATTTTTCATTAGTA
* * * *
2122 TTTTGGCCAAAAATTGTGGAAAAGTATTTCGGGTCAGTTCTCGTAAAATTTTAGCCTAAATTGTA
258 TTTTGGCCAAAAATTGTGGAAAAATATTTCGGGTCAGTTCTCGTAAAATTTTAACCTAAATCGTG
2187 TACTAACC
323 TACTAACC
* **
2195 GTCACGGTATTTGGCTAAAAACGCGCTACGAGTCTCGGGTCAGTTTTGCTTGATTTTTGGCGCCC
1 ATCACGGTATTTGGCTAAAAACGCGCTACGAGTC-CGGGTCAGTTTTGCAAGATTTTTGGCGCCC
* *
2260 AGACTCCTTGAAATATTTATATTTATCTAACCAAATCTCGCCAATATTTGATATATGGATTTGTT
65 AGACTCCTTGAAATATTTATATTCATCTAACCAAATCTCGCCAACATTTGATATATGGATTTGTT
* * * * *
2325 TTTTTGATCATCGGAAACTAGTTTCGATTTAATTTCAAATTAATTCAGAAAAAATAGGGAAAATG
130 TTTTCGAGCATCAGAAACTAGTTTCGATTTAATTTCAAATTAATTCAGAAAAAATAGGAAAAACG
* * * *
2390 ATATTGGATGCGTGGAAAGCCCTCCAATCTTTTTGGCATTTAATTATATGTTTTTCATTAGTATT
195 ATATTGGAAGCGTGAAAAGCCCTCCAATCTTTTTGGCATTGAATTATATATTTTTCATTAGTATT
* * * * *
2455 TTGGCCCAAAATTGGGGGAAAATATTTCTGGTCAGTTCTCGTAAATTTTTAACCTAAATCGTGTA
260 TTGGCCAAAAATTGTGGAAAAATATTTCGGGTCAGTTCTCGTAAAATTTTAACCTAAATCGTGTA
2520 C
325 C
2521 GTTAGGGTTA
Statistics
Matches: 834, Mismatches: 121, Indels: 43
0.84 0.12 0.04
Matches are distributed among these distances:
317 1 0.00
318 265 0.32
319 5 0.01
324 5 0.01
325 3 0.00
330 4 0.00
331 242 0.29
332 307 0.37
333 2 0.00
ACGTcount: A:0.31, C:0.16, G:0.17, T:0.36
Consensus pattern (330 bp):
ATCACGGTATTTGGCTAAAAACGCGCTACGAGTCCGGGTCAGTTTTGCAAGATTTTTGGCGCCCA
GACTCCTTGAAATATTTATATTCATCTAACCAAATCTCGCCAACATTTGATATATGGATTTGTTT
TTTCGAGCATCAGAAACTAGTTTCGATTTAATTTCAAATTAATTCAGAAAAAATAGGAAAAACGA
TATTGGAAGCGTGAAAAGCCCTCCAATCTTTTTGGCATTGAATTATATATTTTTCATTAGTATTT
TGGCCAAAAATTGTGGAAAAATATTTCGGGTCAGTTCTCGTAAAATTTTAACCTAAATCGTGTAC
TAACC
Found at i:3058 original size:28 final size:28
Alignment explanation
Indices: 3015--3068 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
3005 TAGACCATGA
3015 GGTTTTAGGTTCAACTCTCACGAAATGT
1 GGTTTTAGGTTCAACTCTCACGAAATGT
*
3043 GGTTTTAGGTTTAACTCTCACGAAAT
1 GGTTTTAGGTTCAACTCTCACGAAAT
3069 TTAAGTTTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.26, C:0.17, G:0.20, T:0.37
Consensus pattern (28 bp):
GGTTTTAGGTTCAACTCTCACGAAATGT
Found at i:3226 original size:50 final size:50
Alignment explanation
Indices: 3169--3271 Score: 181
Period size: 50 Copynumber: 2.1 Consensus size: 50
3159 AGAGATTTAT
*
3169 TTGAATTGTAATGAGATTTCACTGGGTTTGTTTGTTTGG-GAAGGGGTTTG
1 TTGAATTGTAATGAGATTTCACTGGGTTTATTTG-TTGGAGAAGGGGTTTG
3219 TTGAATTGTAATGAGATTTCACTGGGTTTATTTGTTGGAGAAGGGGTTTG
1 TTGAATTGTAATGAGATTTCACTGGGTTTATTTGTTGGAGAAGGGGTTTG
3269 TTG
1 TTG
3272 GCTCATAGAT
Statistics
Matches: 51, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
49 4 0.08
50 47 0.92
ACGTcount: A:0.19, C:0.04, G:0.33, T:0.44
Consensus pattern (50 bp):
TTGAATTGTAATGAGATTTCACTGGGTTTATTTGTTGGAGAAGGGGTTTG
Found at i:10200 original size:2 final size:2
Alignment explanation
Indices: 10195--10222 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
10185 GTGTGTGCAT
10195 GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA
10223 CCAACAACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:13463 original size:28 final size:28
Alignment explanation
Indices: 13410--13463 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
13400 ATAGATTTTA
** *
13410 ATATTAAGTAATTAATTTTTTTTGAACT
1 ATATTAAGTAATTAATTAATTATGAACT
13438 ATATTAAGTAATTAATTAATTATGAA
1 ATATTAAGTAATTAATTAATTATGAA
13464 ATAAGTATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.43, C:0.02, G:0.07, T:0.48
Consensus pattern (28 bp):
ATATTAAGTAATTAATTAATTATGAACT
Found at i:16582 original size:17 final size:17
Alignment explanation
Indices: 16560--16595 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
16550 AAACTAAGAA
16560 ATTACCATAAATAAACT
1 ATTACCATAAATAAACT
16577 ATTACCATAAATAAACT
1 ATTACCATAAATAAACT
16594 AT
1 AT
16596 CTACTTACCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.53, C:0.17, G:0.00, T:0.31
Consensus pattern (17 bp):
ATTACCATAAATAAACT
Found at i:16625 original size:16 final size:16
Alignment explanation
Indices: 16604--16636 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
16594 ATCTACTTAC
16604 CAAATACACAAA-TAAA
1 CAAATA-ACAAACTAAA
16620 CAAATAACAAACTAAA
1 CAAATAACAAACTAAA
16636 C
1 C
16637 TCATATTTCG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.67, C:0.21, G:0.00, T:0.12
Consensus pattern (16 bp):
CAAATAACAAACTAAA
Found at i:16684 original size:79 final size:79
Alignment explanation
Indices: 16579--16728 Score: 282
Period size: 79 Copynumber: 1.9 Consensus size: 79
16569 AATAAACTAT
*
16579 TACCATAAATAAACTATCTACTTACCAAATACACAAATAAACAAATAACAAACTAAACTCATATT
1 TACCATAAATAAACTATCTACTTACCAAATACACAAATAAACAAATAACAAACTAAACTCACATT
*
16644 TCGTGAATTCAAAC
66 CCGTGAATTCAAAC
16658 TACCATAAATAAACTATCTACTTACCAAATACACAAATAAACAAATAACAAACTAAACTCACATT
1 TACCATAAATAAACTATCTACTTACCAAATACACAAATAAACAAATAACAAACTAAACTCACATT
16723 CCGTGA
66 CCGTGA
16729 GATTTGAACT
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
79 69 1.00
ACGTcount: A:0.51, C:0.23, G:0.03, T:0.24
Consensus pattern (79 bp):
TACCATAAATAAACTATCTACTTACCAAATACACAAATAAACAAATAACAAACTAAACTCACATT
CCGTGAATTCAAAC
Found at i:16704 original size:16 final size:16
Alignment explanation
Indices: 16683--16715 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
16673 ATCTACTTAC
16683 CAAATACACAAA-TAAA
1 CAAATA-ACAAACTAAA
16699 CAAATAACAAACTAAA
1 CAAATAACAAACTAAA
16715 C
1 C
16716 TCACATTCCG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.67, C:0.21, G:0.00, T:0.12
Consensus pattern (16 bp):
CAAATAACAAACTAAA
Found at i:17552 original size:7 final size:7
Alignment explanation
Indices: 17540--17581 Score: 59
Period size: 7 Copynumber: 6.0 Consensus size: 7
17530 TCCATTACTA
17540 TATATAT
1 TATATAT
17547 TATATAT
1 TATATAT
*
17554 TATATAA
1 TATATAT
17561 TATA-AT
1 TATATAT
17567 TATATAT
1 TATATAT
17574 ATATATAT
1 -TATATAT
17582 ATGGAGTATA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
6 5 0.16
7 19 0.61
8 7 0.23
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (7 bp):
TATATAT
Found at i:17596 original size:2 final size:2
Alignment explanation
Indices: 17538--17583 Score: 57
Period size: 2 Copynumber: 25.5 Consensus size: 2
17528 ACTCCATTAC
17538 TA TA TA TA T- TA TA TA T- TA TA TA -A TA TA -A T- 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
17575 TA TA TA TA T
1 TA TA TA TA T
17584 GGAGTATATA
Statistics
Matches: 39, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
1 5 0.13
2 34 0.87
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:23984 original size:3 final size:3
Alignment explanation
Indices: 23978--24040 Score: 126
Period size: 3 Copynumber: 21.0 Consensus size: 3
23968 ATTATTATAT
23978 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
24026 ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA
24041 TATCATGATA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 60 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:26148 original size:29 final size:29
Alignment explanation
Indices: 26074--26152 Score: 83
Period size: 31 Copynumber: 2.7 Consensus size: 29
26064 GGTTAAATAT
*
26074 CCAAATTGGATCTAAACCTTTCACGATCTA
1 CCAAATTGGGTCTAAACCTTTCAC-ATCTA
26104 CTCAAATTGAGG-CTAAACCTTT-AC-TCGGTA
1 C-CAAATTG-GGTCTAAACCTTTCACATC--TA
26134 CCAAATTGGGTCTAAACCT
1 CCAAATTGGGTCTAAACCT
26153 ATTCGAGGGT
Statistics
Matches: 43, Mismatches: 1, Indels: 11
0.78 0.02 0.20
Matches are distributed among these distances:
28 4 0.09
29 15 0.35
30 6 0.14
31 17 0.40
32 1 0.02
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.29
Consensus pattern (29 bp):
CCAAATTGGGTCTAAACCTTTCACATCTA
Found at i:27450 original size:19 final size:20
Alignment explanation
Indices: 27413--27464 Score: 70
Period size: 19 Copynumber: 2.6 Consensus size: 20
27403 ACGCGGACTG
*
27413 TTCCATGTGGCCTCTGATAA
1 TTCCACGTGGCCTCTGATAA
*
27433 TTCCACGTGGCC-CTGATAT
1 TTCCACGTGGCCTCTGATAA
*
27452 TTCCACCTGGCCT
1 TTCCACGTGGCCT
27465 ATATTTATGC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 17 0.61
20 11 0.39
ACGTcount: A:0.15, C:0.33, G:0.19, T:0.33
Consensus pattern (20 bp):
TTCCACGTGGCCTCTGATAA
Found at i:29602 original size:14 final size:14
Alignment explanation
Indices: 29583--29610 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
29573 TGCTAGTATG
29583 TCTTGAGTACCTGA
1 TCTTGAGTACCTGA
29597 TCTTGAGTACCTGA
1 TCTTGAGTACCTGA
29611 GTCTGATGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.36
Consensus pattern (14 bp):
TCTTGAGTACCTGA
Found at i:32906 original size:6 final size:6
Alignment explanation
Indices: 32895--32920 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
32885 CTGGCCGAGC
32895 TTGGGA TTGGGA TTGGGA TTGGGA TT
1 TTGGGA TTGGGA TTGGGA TTGGGA TT
32921 CTCATTTCCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.46, T:0.38
Consensus pattern (6 bp):
TTGGGA
Found at i:48686 original size:40 final size:40
Alignment explanation
Indices: 48631--48709 Score: 158
Period size: 40 Copynumber: 2.0 Consensus size: 40
48621 CCCGGTGGGA
48631 GGCGCCCCATGAGAAAGCCTCCGCGCCTGAATCAATTTTG
1 GGCGCCCCATGAGAAAGCCTCCGCGCCTGAATCAATTTTG
48671 GGCGCCCCATGAGAAAGCCTCCGCGCCTGAATCAATTTT
1 GGCGCCCCATGAGAAAGCCTCCGCGCCTGAATCAATTTT
48710 TAAAAAAATA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.23, C:0.33, G:0.24, T:0.20
Consensus pattern (40 bp):
GGCGCCCCATGAGAAAGCCTCCGCGCCTGAATCAATTTTG
Found at i:52137 original size:13 final size:13
Alignment explanation
Indices: 52119--52144 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
52109 AGAATTAATC
52119 TATATATATATAT
1 TATATATATATAT
52132 TATATATATATAT
1 TATATATATATAT
52145 AAAACTTCTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
TATATATATATAT
Found at i:54509 original size:7 final size:7
Alignment explanation
Indices: 54497--54522 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
54487 ATTCTCATAA
54497 ATAAATC
1 ATAAATC
54504 ATAAATC
1 ATAAATC
54511 ATAAATC
1 ATAAATC
54518 ATAAA
1 ATAAA
54523 ATAAAACCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.62, C:0.12, G:0.00, T:0.27
Consensus pattern (7 bp):
ATAAATC
Found at i:61271 original size:6 final size:6
Alignment explanation
Indices: 61260--61285 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
61250 TTACTTCCTT
61260 TGTTAG TGTTAG TGTTAG TGTTAG TG
1 TGTTAG TGTTAG TGTTAG TGTTAG TG
61286 GAGGATAGAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.35, T:0.50
Consensus pattern (6 bp):
TGTTAG
Found at i:61779 original size:3 final size:3
Alignment explanation
Indices: 61771--61805 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
61761 TTGTCCATAG
61771 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
61806 ATATAATATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:64261 original size:3 final size:3
Alignment explanation
Indices: 64253--64281 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
64243 TCCATTGACC
64253 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
64282 ATTCCTTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:65769 original size:27 final size:27
Alignment explanation
Indices: 65720--65929 Score: 88
Period size: 27 Copynumber: 7.9 Consensus size: 27
65710 CTTTTTTTTC
* *
65720 AAATATATTTCTAA-ATTGGCATTATCA
1 AAATATATTT-TAATTTTGTCATTATCA
*
65747 AAATATATTTTAATTTTGTCATTAT-T
1 AAATATATTTTAATTTTGTCATTATCA
* *
65773 AAATATAATTTT-GTGTATT-T--TT-TTA
1 AAATAT-ATTTTAAT-T-TTGTCATTATCA
* *
65798 AAATATATTTCTAAATTTGGT-ATTACCA
1 AAATATATTT-T-AATTTTGTCATTATCA
* * *
65826 AAATATATTTTAATTATGTAATTATTA
1 AAATATATTTTAATTTTGTCATTATCA
* *
65853 AAATATAATTTT-GTGTATT-T--TTTTC-
1 AAATAT-ATTTTAAT-T-TTGTCATTATCA
* *
65878 AAATATATTTCTAA-ATTGCCATTATCA
1 AAATATATTT-TAATTTTGTCATTATCA
* *
65905 AAATATATTTTAATTATGCCATTAT
1 AAATATATTTTAATTTTGTCATTAT
65930 TACAGTATAA
Statistics
Matches: 138, Mismatches: 23, Indels: 44
0.67 0.11 0.21
Matches are distributed among these distances:
23 2 0.01
24 9 0.07
25 17 0.12
26 28 0.20
27 61 0.44
28 20 0.14
29 1 0.01
ACGTcount: A:0.38, C:0.07, G:0.06, T:0.50
Consensus pattern (27 bp):
AAATATATTTTAATTTTGTCATTATCA
Found at i:65850 original size:79 final size:78
Alignment explanation
Indices: 65712--65974 Score: 384
Period size: 79 Copynumber: 3.3 Consensus size: 78
65702 GATTGTACCT
*
65712 TTTTTTTCAAATATATTTCTAAATTGGCATTATCAAAATATATTTTAATTTTGTCATTATTAAAT
1 TTTTTTTCAAATATATTTCTAAATTGGCATTATCAAAATATATTTTAATTATGTCATTATTAAAT
65777 ATAATTTTGTGTA
66 ATAATTTTGTGTA
* * * *
65790 TTTTTTTAAAATATATTTCTAAATTTGGTATTACCAAAATATATTTTAATTATGTAATTATTAAA
1 TTTTTTTCAAATATATTTCTAAA-TTGGCATTATCAAAATATATTTTAATTATGTCATTATT-AA
65855 ATATAATTTTGTGTA
64 ATATAATTTTGTGTA
* * *
65870 TTTTTTTCAAATATATTTCTAAATTGCCATTATCAAAATATATTTTAATTATGCCATTATTACAG
1 TTTTTTTCAAATATATTTCTAAATTGGCATTATCAAAATATATTTTAATTATGTCATTATTA-AA
65935 TATAATTTT-TGGTA
65 TATAATTTTGT-GTA
65949 CCTTTATTTTCAAATATATTTCTAAA
1 --TTT-TTTTCAAATATATTTCTAAA
65975 ATTCCATTAT
Statistics
Matches: 166, Mismatches: 12, Indels: 10
0.88 0.06 0.05
Matches are distributed among these distances:
78 24 0.14
79 80 0.48
80 39 0.23
81 3 0.02
82 20 0.12
ACGTcount: A:0.36, C:0.08, G:0.06, T:0.51
Consensus pattern (78 bp):
TTTTTTTCAAATATATTTCTAAATTGGCATTATCAAAATATATTTTAATTATGTCATTATTAAAT
ATAATTTTGTGTA
Found at i:66116 original size:26 final size:26
Alignment explanation
Indices: 66081--66131 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
66071 ATTAAAATAA
*
66081 TTTATTTAGATAA-TTTCAATTTCTAT
1 TTTATCTAGA-AATTTTCAATTTCTAT
66107 TTTATCTAGAAATTTTCAATTTCTA
1 TTTATCTAGAAATTTTCAATTTCTA
66132 CTGTATCATC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 2 0.09
26 21 0.91
ACGTcount: A:0.31, C:0.10, G:0.04, T:0.55
Consensus pattern (26 bp):
TTTATCTAGAAATTTTCAATTTCTAT
Found at i:66444 original size:22 final size:22
Alignment explanation
Indices: 66416--66499 Score: 107
Period size: 22 Copynumber: 3.8 Consensus size: 22
66406 TCAAAATTTA
66416 TGGTTACCAAAATTTCATAGTG
1 TGGTTACCAAAATTTCATAGTG
66438 TGGTTACCAAAATTTCA-AGTG
1 TGGTTACCAAAATTTCATAGTG
** * *
66459 AAAGTTATCAAAATTTCATAGAG
1 -TGGTTACCAAAATTTCATAGTG
*
66482 TGGTTATCAAAATTTCAT
1 TGGTTACCAAAATTTCAT
66500 TGGATCAGAT
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
21 4 0.07
22 47 0.87
23 3 0.06
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.36
Consensus pattern (22 bp):
TGGTTACCAAAATTTCATAGTG
Found at i:66617 original size:15 final size:15
Alignment explanation
Indices: 66597--66627 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
66587 CATATTTCAA
66597 TTATGAATTGAATCG
1 TTATGAATTGAATCG
66612 TTATGAATTGAATCG
1 TTATGAATTGAATCG
66627 T
1 T
66628 CACCAATTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.06, G:0.19, T:0.42
Consensus pattern (15 bp):
TTATGAATTGAATCG
Found at i:66942 original size:22 final size:22
Alignment explanation
Indices: 66914--66955 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
66904 CCGCCAGTGA
*
66914 TAGGAAGGTTATTAAAATTTAT
1 TAGGAAGGTTATCAAAATTTAT
66936 TAGGAAGGTTATCAAAATTT
1 TAGGAAGGTTATCAAAATTT
66956 TAAAGTGTGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.40, C:0.02, G:0.19, T:0.38
Consensus pattern (22 bp):
TAGGAAGGTTATCAAAATTTAT
Found at i:67042 original size:22 final size:22
Alignment explanation
Indices: 66919--67435 Score: 214
Period size: 22 Copynumber: 23.3 Consensus size: 22
66909 AGTGATAGGA
*
66919 AGGTTATTAAAATTT-ATTAG-G
1 AGGTTATCAAAATTTCA-TAGTG
* *
66940 AAGGTTATCAAAATTTTAAAGTG
1 -AGGTTATCAAAATTTCATAGTG
* ** *
66963 TGGTTATCGGAATTTCATAGCG
1 AGGTTATCAAAATTTCATAGTG
* * *
66985 AGATTATCATAATTTCATAGCG
1 AGGTTATCAAAATTTCATAGTG
* *
67007 AGATTATCATAATTTCATAGTG
1 AGGTTATCAAAATTTCATAGTG
* * **
67029 TGGTTACCAAAATTTCATAGAA
1 AGGTTATCAAAATTTCATAGTG
* * **
67051 AGGTTA-CTGAAGTTTCATAGCA
1 AGGTTATC-AAAATTTCATAGTG
* * *
67073 AGGTTATAAAAAATTCATAATG
1 AGGTTATCAAAATTTCATAGTG
* *
67095 TGGTTATCGAAATTTCAT-GATG
1 AGGTTATCAAAATTTCATAG-TG
* * * **
67117 TGGTTACCAAAATTTCACAGAA
1 AGGTTATCAAAATTTCATAGTG
* **
67139 AGGTTATAAATCTCAATTTCATAAAG
1 AGGTTATCAA----AATTTCATAGTG
* *
67165 AGATTATCAAAATTTTATAGTG
1 AGGTTATCAAAATTTCATAGTG
* * *
67187 TGGTTATCGAAATTTGATAAG-G
1 AGGTTATCAAAATTTCAT-AGTG
* * *
67209 AGGTAATCAAAATCTCATAGAG
1 AGGTTATCAAAATTTCATAGTG
*** * *
67231 TTATTATCAACATTTCATAGAGATA
1 AGGTTATCAAAATTTCAT--AG-TG
* *
67256 AGATTATCAAATTTTCATAG-G
1 AGGTTATCAAAATTTCATAGTG
*
67277 AAAGTTATCAAAATTTCATAGTG
1 -AGGTTATCAAAATTTCATAGTG
* *
67300 TA-GTTATCAAAATTTTATAGGG
1 -AGGTTATCAAAATTTCATAGTG
* * **
67322 AGGTTATTAAAATTTCAAAAAAG
1 AGGTTATCAAAATTTC-ATAGTG
*
67345 AGGTTATTAAAATTTCATTA-TG
1 AGGTTATCAAAATTTCA-TAGTG
* * *
67367 TA-GTTGTCAAAATTTTATAGCG
1 -AGGTTATCAAAATTTCATAGTG
* **
67389 AGG-T-T--AAATTTCAAAAAG
1 AGGTTATCAAAATTTCATAGTG
*
67407 AGGTCATCAAAATTTCATAGTG
1 AGGTTATCAAAATTTCATAGTG
*
67429 TGGTTAT
1 AGGTTAT
67436 GAATTAGGTT
Statistics
Matches: 368, Mismatches: 100, Indels: 54
0.70 0.19 0.10
Matches are distributed among these distances:
18 12 0.03
20 2 0.01
21 8 0.02
22 283 0.77
23 30 0.08
24 2 0.01
25 14 0.04
26 17 0.05
ACGTcount: A:0.38, C:0.09, G:0.17, T:0.36
Consensus pattern (22 bp):
AGGTTATCAAAATTTCATAGTG
Found at i:67265 original size:25 final size:22
Alignment explanation
Indices: 67233--67297 Score: 78
Period size: 25 Copynumber: 2.8 Consensus size: 22
67223 TCATAGAGTT
67233 ATTATCAACATTTCATAGAGATAAG
1 ATTATCAA-ATTTCATAG-GA-AAG
67258 ATTATCAAATTTTCATAGGAAAG
1 ATTATCAAA-TTTCATAGGAAAG
67281 -TTATCAAAATTTCATAG
1 ATTATC-AAATTTCATAG
67298 TGTAGTTATC
Statistics
Matches: 38, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
22 13 0.34
23 6 0.16
24 3 0.08
25 16 0.42
ACGTcount: A:0.43, C:0.11, G:0.11, T:0.35
Consensus pattern (22 bp):
ATTATCAAATTTCATAGGAAAG
Found at i:67359 original size:67 final size:62
Alignment explanation
Indices: 67280--67435 Score: 206
Period size: 67 Copynumber: 2.4 Consensus size: 62
67270 TCATAGGAAA
*
67280 GTTATCAAAATTTCATAGTGTAGTTATCAAAATTTTATAGGGAGGTTATTAAAATTTCAAAAAAG
1 GTTATCAAAATTTCATAGTGTAGTTATCAAAATTTTATAGCGAGG---TT-AAATTTC-AAAAAG
67345 AG
61 AG
* *
67347 GTTATTAAAATTTCATTA-TGTAGTTGTCAAAATTTTATAGCGAGGTTAAATTTCAAAAAGAG
1 GTTATCAAAATTTCA-TAGTGTAGTTATCAAAATTTTATAGCGAGGTTAAATTTCAAAAAGAG
* *
67409 GTCATCAAAATTTCATAGTGTGGTTAT
1 GTTATCAAAATTTCATAGTGTAGTTAT
67436 GAATTAGGTT
Statistics
Matches: 80, Mismatches: 7, Indels: 9
0.83 0.07 0.09
Matches are distributed among these distances:
61 2 0.03
62 28 0.35
63 7 0.09
64 2 0.03
67 39 0.49
68 2 0.03
ACGTcount: A:0.38, C:0.07, G:0.17, T:0.38
Consensus pattern (62 bp):
GTTATCAAAATTTCATAGTGTAGTTATCAAAATTTTATAGCGAGGTTAAATTTCAAAAAGAG
Found at i:67527 original size:22 final size:22
Alignment explanation
Indices: 67502--67927 Score: 91
Period size: 22 Copynumber: 19.6 Consensus size: 22
67492 TGTGGAGTAG
*
67502 TCAAAATTTGATAAGGAGATTA
1 TCAAAATTTCATAAGGAGATTA
*
67524 TCAAAATTTCATAAGGAGGTTA
1 TCAAAATTTCATAAGGAGATTA
* * ** *
67546 TCGAAATTTTATAATTTA-ATTT
1 TCAAAATTTCATAA-GGAGATTA
* * * *
67568 TCAACATCTCATAAGGGGGTTA
1 TCAAAATTTCATAAGGAGATTA
* *
67590 TCAAAATTTCAT-AGTGTG-TAGA
1 TCAAAATTTCATAAG-GAGAT-TA
* *
67612 TCAAAATTTCATAGGGAGA-AA
1 TCAAAATTTCATAAGGAGATTA
*
67633 TCAAAATTT-GT---G-G-TTA
1 TCAAAATTTCATAAGGAGATTA
* * *
67649 TCAAAATTTTATAAGGGGGTTA
1 TCAAAATTTCATAAGGAGATTA
* * * * *
67671 TTAAAATTTTATAACGAGGTTTG
1 TCAAAATTTCATAAGGA-GATTA
* * *
67694 TC-AAATTTTAT-GGGAAGGTTTA
1 TCAAAATTTCATAAGG-A-GATTA
* * *
67716 TCAAAATTTTATAATGAGGTTA
1 TCAAAATTTCATAAGGAGATTA
* *
67738 TCATAATTTCAT-AGTGTGATTA
1 TCAAAATTTCATAAG-GAGATTA
* * *
67760 TTAAAATTTC-TCAGTGTGATTA
1 TCAAAATTTCATAAG-GAGATTA
* * *
67782 -CTAACATTTCATATGGATG-TTC
1 TC-AAAATTTCATAAGGA-GATTA
* * *
67804 TCAAAATTTTAT-AGTGTGCTTA
1 TCAAAATTTCATAAG-GAGATTA
* * * *
67826 CCAACATTTAATGAGGA-AGTTA
1 TCAAAATTTCATAAGGAGA-TTA
* * * *
67848 TCAAAATTTTATAGGGTGGTTA
1 TCAAAATTTCATAAGGAGATTA
* **
67870 TCAAAATTCCATTGGGAAGA-TA
1 TCAAAATTTCATAAGG-AGATTA
* * *
67892 TCAAAATTTCAT-AGTGCGGTTT
1 TCAAAATTTCATAAG-GAGATTA
67914 TCAAAATTTCATAA
1 TCAAAATTTCATAA
67928 CAATTTATAC
Statistics
Matches: 293, Mismatches: 79, Indels: 63
0.67 0.18 0.14
Matches are distributed among these distances:
16 11 0.04
17 2 0.01
20 2 0.01
21 21 0.07
22 232 0.79
23 24 0.08
24 1 0.00
ACGTcount: A:0.36, C:0.09, G:0.17, T:0.38
Consensus pattern (22 bp):
TCAAAATTTCATAAGGAGATTA
Found at i:67624 original size:44 final size:42
Alignment explanation
Indices: 67523--67679 Score: 112
Period size: 44 Copynumber: 3.8 Consensus size: 42
67513 TAAGGAGATT
* * *
67523 ATCAAAATTTCATAAGGAGGTTATCGAAATTTTATAAT-T-TA
1 ATCAAAATTTCATAAGGGGGTTATC-AAAATTTATAGTGTGTA
* *
67564 ATTTTCAACATCTCATAAGGGGGTTATCAAAATTTCATAGTGTGTA
1 A---TCAAAATTTCATAAGGGGGTTATCAAAATTT-ATAGTGTGTA
* ** *
67610 GATCAAAATTTCAT-AGGGAGAAATCAAAA-TT-T-GTG-GTT
1 -ATCAAAATTTCATAAGGGGGTTATCAAAATTTATAGTGTGTA
* *
67648 ATCAAAATTTTATAAGGGGGTTATTAAAATTT
1 ATCAAAATTTCATAAGGGGGTTATCAAAATTT
67680 TATAACGAGG
Statistics
Matches: 91, Mismatches: 16, Indels: 20
0.72 0.13 0.16
Matches are distributed among these distances:
37 12 0.13
38 13 0.14
39 5 0.05
40 1 0.01
41 1 0.01
42 2 0.02
43 18 0.20
44 35 0.38
45 1 0.01
46 2 0.02
47 1 0.01
ACGTcount: A:0.38, C:0.08, G:0.17, T:0.37
Consensus pattern (42 bp):
ATCAAAATTTCATAAGGGGGTTATCAAAATTTATAGTGTGTA
Found at i:67746 original size:45 final size:42
Alignment explanation
Indices: 67644--67751 Score: 110
Period size: 45 Copynumber: 2.4 Consensus size: 42
67634 CAAAATTTGT
*
67644 GGTTATCAAAATTTTATAAGGGGGTTATTAAAATTTTATAACGA
1 GGTTATC-AAATTTTAT-AGGGGGTTATCAAAATTTTATAACGA
* *
67688 GGTTTGTCAAATTTTAT-GGGAAGGTTTATCAAAATTTTATAATGA
1 GG-TTATCAAATTTTATAGGG--GG-TTATCAAAATTTTATAACGA
*
67733 GGTTATCATAATTTCATAG
1 GGTTATCA-AATTTTATAG
67752 TGTGATTATT
Statistics
Matches: 53, Mismatches: 5, Indels: 10
0.78 0.07 0.15
Matches are distributed among these distances:
42 3 0.06
44 18 0.34
45 31 0.58
46 1 0.02
ACGTcount: A:0.35, C:0.06, G:0.19, T:0.41
Consensus pattern (42 bp):
GGTTATCAAATTTTATAGGGGGTTATCAAAATTTTATAACGA
Found at i:67810 original size:44 final size:44
Alignment explanation
Indices: 67757--67858 Score: 109
Period size: 44 Copynumber: 2.3 Consensus size: 44
67747 CATAGTGTGA
* * * *
67757 TTATTAAAATTTCT-CAGTGTGATTACTAACATTTCAT-ATGGATG
1 TTATCAAAATTT-TACAGTGTGATTACCAACATTTAATGA-GGAAG
* * *
67801 TTCTCAAAATTTTATAGTGTGCTTACCAACATTTAATGAGGAAG
1 TTATCAAAATTTTACAGTGTGATTACCAACATTTAATGAGGAAG
67845 TTATCAAAATTTTA
1 TTATCAAAATTTTA
67859 TAGGGTGGTT
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
43 1 0.02
44 46 0.96
45 1 0.02
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.41
Consensus pattern (44 bp):
TTATCAAAATTTTACAGTGTGATTACCAACATTTAATGAGGAAG
Found at i:67859 original size:44 final size:44
Alignment explanation
Indices: 67772--67907 Score: 123
Period size: 44 Copynumber: 3.1 Consensus size: 44
67762 AAAATTTCTC
* * * *
67772 AGTGTGATTACTAACATTTCAT-ATGGATGTTCTCAAAATTTTAT
1 AGTGTGATTACCAACATTTAATGA-GGAAGTTATCAAAATTTTAT
*
67816 AGTGTGCTTACCAACATTTAATGAGGAAGTTATCAAAATTTTAT
1 AGTGTGATTACCAACATTTAATGAGGAAGTTATCAAAATTTTAT
* * * * * * * *
67860 AGGGTGGTTATCAAAATTCCATTG-GGAAGATATCAAAATTTCAT
1 AGTGTGATTACCAACATT-TAATGAGGAAGTTATCAAAATTTTAT
67904 AGTG
1 AGTG
67908 CGGTTTTCAA
Statistics
Matches: 76, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
44 72 0.95
45 4 0.05
ACGTcount: A:0.35, C:0.11, G:0.18, T:0.37
Consensus pattern (44 bp):
AGTGTGATTACCAACATTTAATGAGGAAGTTATCAAAATTTTAT
Found at i:68012 original size:23 final size:23
Alignment explanation
Indices: 67977--68021 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
67967 ATCGAAATTC
* *
67977 AATAGTGTCATTATCAAAATTTG
1 AATAGTATAATTATCAAAATTTG
*
68000 AATAGTATAATTATCATAATTT
1 AATAGTATAATTATCAAAATTT
68022 CATACTGAGG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.42, C:0.07, G:0.09, T:0.42
Consensus pattern (23 bp):
AATAGTATAATTATCAAAATTTG
Found at i:68134 original size:24 final size:24
Alignment explanation
Indices: 68102--68147 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
68092 GCACGAAAAC
*
68102 TAATTATATTAAAAATTGGTATTG
1 TAATAATATTAAAAATTGGTATTG
68126 TAATAATATTAAAAATTGGTAT
1 TAATAATATTAAAAATTGGTAT
68148 GGTATTACAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.46, C:0.00, G:0.11, T:0.43
Consensus pattern (24 bp):
TAATAATATTAAAAATTGGTATTG
Found at i:68553 original size:6 final size:6
Alignment explanation
Indices: 68542--68568 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
68532 GTCTGGTCCC
68542 CTGCAA CTGCAA CTGCAA CTGCAA CTG
1 CTGCAA CTGCAA CTGCAA CTGCAA CTG
68569 TGCAAGCGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.30, C:0.33, G:0.19, T:0.19
Consensus pattern (6 bp):
CTGCAA
Found at i:77196 original size:15 final size:16
Alignment explanation
Indices: 77171--77200 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
77161 ATAGGATGCA
77171 TATAGCTAGTATATAC
1 TATAGCTAGTATATAC
77187 TATA-CTAGTATATA
1 TATAGCTAGTATATA
77201 GTAGTAACAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.40, C:0.10, G:0.10, T:0.40
Consensus pattern (16 bp):
TATAGCTAGTATATAC
Found at i:79807 original size:40 final size:40
Alignment explanation
Indices: 79763--79841 Score: 124
Period size: 40 Copynumber: 2.0 Consensus size: 40
79753 TTTCACATAA
79763 ATGTTATAATAAATCATATCCC-CCTCAATTATCTAGAATC
1 ATGTTATAATAAATCATA-CCCTCCTCAATTATCTAGAATC
* *
79803 ATGTTATAATAAATCCTACCCTCCTTAATTATCTAGAAT
1 ATGTTATAATAAATCATACCCTCCTCAATTATCTAGAAT
79842 TGTAATCTCT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
39 3 0.08
40 33 0.92
ACGTcount: A:0.37, C:0.22, G:0.05, T:0.37
Consensus pattern (40 bp):
ATGTTATAATAAATCATACCCTCCTCAATTATCTAGAATC
Done.