Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001251.1 Hibiscus syriacus cultivar Beakdansim tig00002455_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: 66936
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Found at i:871 original size:23 final size:23
Alignment explanation
Indices: 803--863 Score: 86
Period size: 23 Copynumber: 2.7 Consensus size: 23
793 ACATTTTATA
*
803 TGGCACTTCGATGCAATTCTACG
1 TGGCACTTCGGTGCAATTCTACG
* * *
826 CGGCACTTTGGTGTAATTCTACG
1 TGGCACTTCGGTGCAATTCTACG
849 TGGCACTTCGGTGCA
1 TGGCACTTCGGTGCA
864 TTTATACGAG
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.18, C:0.25, G:0.26, T:0.31
Consensus pattern (23 bp):
TGGCACTTCGGTGCAATTCTACG
Found at i:9175 original size:12 final size:12
Alignment explanation
Indices: 9158--9182 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
9148 TGTTCAAACT
9158 TAGTTTTCAAAA
1 TAGTTTTCAAAA
9170 TAGTTTTCAAAA
1 TAGTTTTCAAAA
9182 T
1 T
9183 TGCCTGTTAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (12 bp):
TAGTTTTCAAAA
Found at i:11366 original size:44 final size:44
Alignment explanation
Indices: 11316--11408 Score: 125
Period size: 44 Copynumber: 2.1 Consensus size: 44
11306 TTAAGGTACT
** *
11316 GATACTACTTTACATAA-TAGTATCGATACCCCCTGGACAGTATC
1 GATACTACACTACA-AAGTAGTACCGATACCCCCTGGACAGTATC
* *
11360 GATACTACACTACAAAGTAGTACCGATACCCCTTGGCCAGTATC
1 GATACTACACTACAAAGTAGTACCGATACCCCCTGGACAGTATC
11404 GATAC
1 GATAC
11409 CATTGGAATG
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
43 2 0.05
44 41 0.95
ACGTcount: A:0.32, C:0.27, G:0.15, T:0.26
Consensus pattern (44 bp):
GATACTACACTACAAAGTAGTACCGATACCCCCTGGACAGTATC
Found at i:15887 original size:12 final size:11
Alignment explanation
Indices: 15848--15901 Score: 63
Period size: 12 Copynumber: 4.6 Consensus size: 11
15838 TAAATAAAAT
15848 AAAGAAGATTA
1 AAAGAAGATTA
* *
15859 AAGAGAAAAGTA
1 AA-AGAAGATTA
15871 AAAGAAGATTA
1 AAAGAAGATTA
15882 AGAAGAAGATTTA
1 A-AAGAAGA-TTA
15895 AAAGAAG
1 AAAGAAG
15902 TAAATTCAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
11 10 0.28
12 22 0.61
13 4 0.11
ACGTcount: A:0.63, C:0.00, G:0.22, T:0.15
Consensus pattern (11 bp):
AAAGAAGATTA
Found at i:18640 original size:17 final size:16
Alignment explanation
Indices: 18620--18680 Score: 52
Period size: 18 Copynumber: 3.7 Consensus size: 16
18610 AATTTAAAAC
18620 AAATAAAATATCAAATG
1 AAATAAAATAT-AAATG
* *
18637 AAATTAAATATAAATAAA
1 AAATAAAATATAAAT--G
* *
18655 AAATAAAAAATAATTG
1 AAATAAAATATAAATG
18671 -AATAAAATAT
1 AAATAAAATAT
18681 GGGTTGCCTC
Statistics
Matches: 35, Mismatches: 7, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
15 9 0.26
16 4 0.11
17 10 0.29
18 12 0.34
ACGTcount: A:0.69, C:0.02, G:0.03, T:0.26
Consensus pattern (16 bp):
AAATAAAATATAAATG
Found at i:18669 original size:28 final size:27
Alignment explanation
Indices: 18601--18679 Score: 67
Period size: 28 Copynumber: 3.0 Consensus size: 27
18591 CTACAAAATG
18601 AAAATAAAAAAT--TTAAA-ACAAATAA
1 AAAATAAAAAATAATTAAATA-AAATAA
* **
18626 AATATCAAATGA-AATTAAATATAAATAA
1 AAAAT-AAAAAATAATTAAATA-AAATAA
*
18654 AAAATAAAAAATAATTGAATAAAATA
1 AAAATAAAAAATAATTAAATAAAATA
18680 TGGGTTGCCT
Statistics
Matches: 41, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
25 4 0.10
26 4 0.10
27 14 0.34
28 19 0.46
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.24
Consensus pattern (27 bp):
AAAATAAAAAATAATTAAATAAAATAA
Found at i:22239 original size:13 final size:13
Alignment explanation
Indices: 22221--22245 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
22211 TGTAATTTGA
22221 AATAAATAAAAAG
1 AATAAATAAAAAG
22234 AATAAATAAAAA
1 AATAAATAAAAA
22246 AAAACTATAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.80, C:0.00, G:0.04, T:0.16
Consensus pattern (13 bp):
AATAAATAAAAAG
Found at i:22859 original size:55 final size:54
Alignment explanation
Indices: 22714--23149 Score: 301
Period size: 55 Copynumber: 8.1 Consensus size: 54
22704 TGGGTATGAG
* * * *
22714 ACTCGAATAATCTTCAACAATCGTG-TCAGCTCCCT-ATTCTTTCAGAGAGTATA-A
1 ACTCGAA-CATCTTCAACAAACGGGTTC-GCTCCCTCTTTC-TTCAGAGAGTATAGA
* * * * * * *
22768 GACTCAATATATCTTCAACGATCGCG-TCTGCCCCCTATTTCTTCAGAGAGTATA-A
1 -ACTCGA-ACATCTTCAACAAACGGGTTC-GCTCCCTCTTTCTTCAGAGAGTATAGA
* * * * *
22823 GACTCGAACAATCTTCAACAAATGGGTTCACTCCCTATTTC-TCTAGGGAGTATGGA
1 -ACTCGAAC-ATCTTCAACAAACGGGTTCGCTCCCTCTTTCTTC-AGAGAGTATAGA
* ** *
22879 ACTC-AGACATATTCTTCAAACGGGTTCGCTCCCTCTTTC-TCTAGGGAGTATAGA
1 ACTCGA-ACATCTTCAACAAACGGGTTCGCTCCCTCTTTCTTC-AGAGAGTATAGA
** * * *
22933 ACTCGAACATC-TCTTCAAACGGGTTCGCTCCTTCCTTCTTTA-AGGAGTATAGA
1 ACTCGAACATCTTCAACAAACGGGTTCGCTCCCTCTTTCTTCAGA-GAGTATAGA
* * *
22986 ACTCGAACATCTT---CAAACAGGTTCGCTCCTTCTTTCTTTA-AGGAGTATAGA
1 ACTCGAACATCTTCAACAAACGGGTTCGCTCCCTCTTTCTTCAGA-GAGTATAGA
** * *
23037 ACTCGAACATCTTCTTCAAACGGGTTCGCTCCCCCTTTC-TCTAGGGAGTATAGA
1 ACTCGAACATCTTCAACAAACGGGTTCGCTCCCTCTTTCTTC-AGAGAGTATAGA
** *
23091 ACTCGAACAATCTTCAACAAACATGTTCGCTCCCTCTTTC-TCTAGGGAGTATAGA
1 ACTCGAAC-ATCTTCAACAAACGGGTTCGCTCCCTCTTTCTTC-AGAGAGTATAGA
23146 ACTC
1 ACTC
23150 AAATAATCTT
Statistics
Matches: 323, Mismatches: 41, Indels: 34
0.81 0.10 0.09
Matches are distributed among these distances:
51 49 0.15
53 47 0.15
54 91 0.28
55 129 0.40
56 7 0.02
ACGTcount: A:0.27, C:0.26, G:0.16, T:0.31
Consensus pattern (54 bp):
ACTCGAACATCTTCAACAAACGGGTTCGCTCCCTCTTTCTTCAGAGAGTATAGA
Found at i:23017 original size:51 final size:52
Alignment explanation
Indices: 22815--23149 Score: 386
Period size: 54 Copynumber: 6.2 Consensus size: 52
22805 TTTCTTCAGA
* * * *
22815 GAGTATA-AGACTCGAACAATCTTCAACAAATGGGTTCACTCCCTATTTCTCTAGG
1 GAGTATAGA-ACTCGAACATTCTT---CAAACGGGTTCGCTCCCTCTTTCTCTAGG
* *
22870 GAGTATGGAACTCAGACATATTCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGG
1 GAGTATAGAACTC-GA-ACATTCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGG
* * * *
22924 GAGTATAGAACTCGAACATCTCTTCAAACGGGTTCGCTCCTTCCTTCTTTAAG
1 GAGTATAGAACTCGAACAT-TCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGG
* * * *
22977 GAGTATAGAACTCGAACA-TCTTCAAACAGGTTCGCTCCTTCTTTCTTTAAG
1 GAGTATAGAACTCGAACATTCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGG
*
23028 GAGTATAGAACTCGAACATCTTCTTCAAACGGGTTCGCTCCCCCTTTCTCTAGG
1 GAGTATAGAACTCGAACA--TTCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGG
* **
23082 GAGTATAGAACTCGAACAATCTTCAACAAACATGTTCGCTCCCTCTTTCTCTAGG
1 GAGTATAGAACTCGAACATTCTT---CAAACGGGTTCGCTCCCTCTTTCTCTAGG
23137 GAGTATAGAACTC
1 GAGTATAGAACTC
23150 AAATAATCTT
Statistics
Matches: 247, Mismatches: 23, Indels: 20
0.85 0.08 0.07
Matches are distributed among these distances:
51 49 0.20
52 7 0.03
53 49 0.20
54 84 0.34
55 49 0.20
56 3 0.01
57 6 0.02
ACGTcount: A:0.27, C:0.26, G:0.17, T:0.30
Consensus pattern (52 bp):
GAGTATAGAACTCGAACATTCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGG
Found at i:23032 original size:158 final size:163
Alignment explanation
Indices: 22815--23161 Score: 447
Period size: 158 Copynumber: 2.2 Consensus size: 163
22805 TTTCTTCAGA
* *
22815 GAGTATA-AGACTCGAACAATCTTCAACAAATGGGTTCACTCCCTATTTCTCTAGGGAGTATGGA
1 GAGTATAGA-ACTCGAACAATCTTCAACAAA-GGGTTCACTCCCTATTTCTCTAAGGAGTATAGA
*
22879 ACTC-AGACATATTCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATAGAACTCGAAC-A
64 ACTCGA-ACATATTCTTCAAACGGGTTCGCTCCCCCTTTCTCTAGGGAGTATAGAACTCGAACAA
** * * *
22942 TC-TCTTCAAACGGGTTCGCTCCTTCCTTCTTTAAG
128 TCTTCAACAAACAGGTTCGCTCCCTCCTTCTCTAAG
* * * * *
22977 GAGTATAGAACTCGAAC-ATCTTCAA-ACA-GGTTCGCTCCTTCTTTCTTTAAGGAGTATAGAAC
1 GAGTATAGAACTCGAACAATCTTCAACAAAGGGTTCACTCCCTATTTCTCTAAGGAGTATAGAAC
*
23039 TCGAACATCTTCTTCAAACGGGTTCGCTCCCCCTTTCTCTAGGGAGTATAGAACTCGAACAATCT
66 TCGAACATATTCTTCAAACGGGTTCGCTCCCCCTTTCTCTAGGGAGTATAGAACTCGAACAATCT
* * *
23104 TCAACAAACATGTTCGCTCCCTCTTTCTCTAGG
131 TCAACAAACAGGTTCGCTCCCTCCTTCTCTAAG
* *
23137 GAGTATAGAACTCAAATAATCTTCA
1 GAGTATAGAACTCGAACAATCTTCA
23162 TTTGCTTCAC
Statistics
Matches: 161, Mismatches: 19, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
158 84 0.52
159 4 0.02
160 42 0.26
161 15 0.09
162 15 0.09
163 1 0.01
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.31
Consensus pattern (163 bp):
GAGTATAGAACTCGAACAATCTTCAACAAAGGGTTCACTCCCTATTTCTCTAAGGAGTATAGAAC
TCGAACATATTCTTCAAACGGGTTCGCTCCCCCTTTCTCTAGGGAGTATAGAACTCGAACAATCT
TCAACAAACAGGTTCGCTCCCTCCTTCTCTAAG
Found at i:23588 original size:36 final size:36
Alignment explanation
Indices: 23530--23795 Score: 329
Period size: 36 Copynumber: 7.4 Consensus size: 36
23520 ACTCTTCTGA
* * **
23530 GAAGGCTTAAAATGGATCTGCTTCACTACTT-TTTGGT
1 GAAGGCTTAAGATGG-TTTGCTTCACTA-TTCTCCGGT
* * *
23567 GAAGACTTAAGATGGTTTGCTTCACTACTCTCTGGT
1 GAAGGCTTAAGATGGTTTGCTTCACTATTCTCCGGT
* *
23603 GAAGACTTATGATGGTTTGCTTCACTATTCTCCGGT
1 GAAGGCTTAAGATGGTTTGCTTCACTATTCTCCGGT
* * *
23639 GAAGGCTTCAGATTGATTGCTTCACTATTCTCCGGT
1 GAAGGCTTAAGATGGTTTGCTTCACTATTCTCCGGT
* *
23675 GAAGGCTTCAGATGGTTTGCTTCACTATTCTCCGAT
1 GAAGGCTTAAGATGGTTTGCTTCACTATTCTCCGGT
* *
23711 GAAGGCTTAGGATGGTTTGCTTCACTATTCTCCAGT
1 GAAGGCTTAAGATGGTTTGCTTCACTATTCTCCGGT
* *
23747 GAAGGCTTCAGATGGTTTGCTTCACT-TCTCTTCGGT
1 GAAGGCTTAAGATGGTTTGCTTCACTAT-TCTCCGGT
23783 GAAGGCTTAAGAT
1 GAAGGCTTAAGAT
23796 TGACTTTGCT
Statistics
Matches: 202, Mismatches: 25, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
35 2 0.01
36 187 0.93
37 13 0.06
ACGTcount: A:0.21, C:0.20, G:0.23, T:0.36
Consensus pattern (36 bp):
GAAGGCTTAAGATGGTTTGCTTCACTATTCTCCGGT
Found at i:33445 original size:53 final size:55
Alignment explanation
Indices: 33378--33704 Score: 425
Period size: 55 Copynumber: 6.0 Consensus size: 55
33368 TGCTTCCACG
* * * * *
33378 ATCGTGTCTGCCCCCTATATCTTCAGAGAGTATAAGAC-C-TACAATCTTCATCC
1 ATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACA
* *
33431 ATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGAC-C-TACAATCTTCATCA
1 ATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACA
33484 ATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACA
1 ATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACA
* * * * *
33539 ATCGTGTCTACTCCCTA-TTCTTTCAGAGAGTATGAGACTCGAATAATCTTCAACA
1 ATCGCGTCTGCCCCCTATTTC-TTCAGAGAGTATAAGACTCGAACAATCTTCAACA
* * * * *
33594 ATCGTGTCAGCTCCCTA-TTCTTTCAGAGAGTATAAGACTC-AATATATCTTCAACG
1 ATCGCGTCTGCCCCCTATTTC-TTCAGAGAGTATAAGACTCGAACA-ATCTTCAACA
33649 ATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACA
1 ATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACA
33704 A
1 A
33705 ATGGGTTCAC
Statistics
Matches: 249, Mismatches: 19, Indels: 10
0.90 0.07 0.04
Matches are distributed among these distances:
53 88 0.35
54 8 0.03
55 147 0.59
56 6 0.02
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.30
Consensus pattern (55 bp):
ATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACA
Found at i:33720 original size:55 final size:55
Alignment explanation
Indices: 33443--34022 Score: 326
Period size: 55 Copynumber: 10.7 Consensus size: 55
33433 CGCGTCTGCC
* * * *
33443 CCCTATTTCTTCAGAGAGTATA-AGAC-C-TACAATCTTCATC-AATCGCG-TCTGCC
1 CCCTATTTCTTCAGAGAGTATAGA-ACTCGAACAATCTTCAACAAAT-GGGTTC-GCT
* *
33496 CCCTATTTCTTCAGAGAGTATA-AGACTCGAACAATCTTCAAC-AAT-CGTGTCTACT
1 CCCTATTTCTTCAGAGAGTATAGA-ACTCGAACAATCTTCAACAAATGGGT-TC-GCT
* *
33551 CCCTA-TTCTTTCAGAGAGTAT-GAGACTCGAATAATCTTCAAC-AAT-CGTGTCAGCT
1 CCCTATTTC-TTCAGAGAGTATAGA-ACTCGAACAATCTTCAACAAATGGGT-TC-GCT
* * * *
33606 CCCTA-TTCTTTCAGAGAGTATA-AGACTC-AATATATCTTCAAC-GATCGCG-TCTGCC
1 CCCTATTTC-TTCAGAGAGTATAGA-ACTCGAACA-ATCTTCAACAAAT-GGGTTC-GCT
*
33661 CCCTATTTCTTCAGAGAGTATA-AGACTCGAACAATCTTCAACAAATGGGTTCACT
1 CCCTATTTCTTCAGAGAGTATAGA-ACTCGAACAATCTTCAACAAATGGGTTCGCT
* * * ** *
33716 CCCTATTTC-TCTAGGGAGTATGGAACTC-AGAC-ATATTCTTCAAACGGGTTCGCT
1 CCCTATTTCTTC-AGAGAGTATAGAACTCGA-ACAATCTTCAACAAATGGGTTCGCT
* * **
33770 CCCTCTTTC-TCTAGGGAGTATAGAACTCGAAC-ATC-TCTTCAAATGGGTTCGCT
1 CCCTATTTCTTC-AGAGAGTATAGAACTCGAACAATCTTCAACAAATGGGTTCGCT
* ** * *
33823 CCTTCCTTCTTTA-AGGAGTATAGAACTCGAAC-ATCTTCAA-ACA--GGTTCGCT
1 CCCTATTTCTTCAGA-GAGTATAGAACTCGAACAATCTTCAACAAATGGGTTCGCT
* * * ** *
33874 CCTTCTTTCTTTA-AGGAGTATAGAACTCGAAC-ATCTTCTTCAAACGGGTTCGCT
1 CCCTATTTCTTCAGA-GAGTATAGAACTCGAACAATCTTCAACAAATGGGTTCGCT
** * ***
33928 CCCCCTTTC-TCTAGGGAGTATAGAACTCGAACAATCTTCAACAAACATGTTCGCT
1 CCCTATTTCTTC-AGAGAGTATAGAACTCGAACAATCTTCAACAAATGGGTTCGCT
* * * *
33983 CCCTCTTTC-TCTAGGGAGTATAGAACTCAAATAATCTTCA
1 CCCTATTTCTTC-AGAGAGTATAGAACTCGAACAATCTTCA
34023 TTTGCTTCAC
Statistics
Matches: 452, Mismatches: 48, Indels: 52
0.82 0.09 0.09
Matches are distributed among these distances:
51 45 0.10
52 2 0.00
53 76 0.17
54 94 0.21
55 222 0.49
56 11 0.02
57 2 0.00
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.31
Consensus pattern (55 bp):
CCCTATTTCTTCAGAGAGTATAGAACTCGAACAATCTTCAACAAATGGGTTCGCT
Found at i:33779 original size:54 final size:54
Alignment explanation
Indices: 33676--34022 Score: 377
Period size: 54 Copynumber: 6.5 Consensus size: 54
33666 TTTCTTCAGA
* ** * * *
33676 GAGTATA-AGACTCGAACAATCTTCAACAAATGGGTTCACTCCCTATTTCTCTAGG
1 GAGTATAGA-ACTCGAAC-ATATTCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGG
*
33731 GAGTATGGAACTC-AGACATATTCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGG
1 GAGTATAGAACTCGA-ACATATTCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGG
* * * * * *
33785 GAGTATAGAACTCGAACAT-CTCTTCAAATGGGTTCGCTCCTTCCTTCTTTAAG
1 GAGTATAGAACTCGAACATATTCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGG
* * * *
33838 GAGTATAGAACTCGAAC--A-TCTTCAAACAGGTTCGCTCCTTCTTTCTTTAAG
1 GAGTATAGAACTCGAACATATTCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGG
* *
33889 GAGTATAGAACTCGAACATCTTCTTCAAACGGGTTCGCTCCCCCTTTCTCTAGG
1 GAGTATAGAACTCGAACATATTCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGG
* ** **
33943 GAGTATAGAACTCGAACAATCTTCAACAAACATGTTCGCTCCCTCTTTCTCTAGG
1 GAGTATAGAACTCGAAC-ATATTCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGG
*
33998 GAGTATAGAACTC-AA-ATAATCTTCA
1 GAGTATAGAACTCGAACATATTCTTCA
34023 TTTGCTTCAC
Statistics
Matches: 252, Mismatches: 32, Indels: 19
0.83 0.11 0.06
Matches are distributed among these distances:
51 47 0.19
52 6 0.02
53 45 0.18
54 95 0.38
55 58 0.23
56 1 0.00
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.31
Consensus pattern (54 bp):
GAGTATAGAACTCGAACATATTCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGG
Found at i:33811 original size:165 final size:161
Alignment explanation
Indices: 33474--33970 Score: 486
Period size: 165 Copynumber: 3.1 Consensus size: 161
33464 AAGACCTACA
*
33474 ATCTTCATCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAAC-
1 ATCTTCAAC-ATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACA
* * * *
33538 AATCGTGTCTACTCCCTA-TTCTTTCAGAGAGTATGAGACTCGA-ATAATCTTCAACAATCGTG-
65 AATGGT-TC-ACTCCCTATTTCTTT-AGGGAGTATGA-ACTCGACATATTCTTC-A-AA-CGGGT
* * * *
33600 TCAGCTCCCT-ATTCTTTCAGAGAGTATA-AGACTC-AATAT
123 TC-GCTCCCTCTTTCTCT-AGGGAGTATAGA-ACTCGAACAT
33639 ATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACA
1 ATCTTCAAC-ATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACA
*
33704 AATGGGTTCACTCCCTATTTCTCTAGGGAGTATGGAACTCAGACATATTCTTCAAACGGGTTCGC
65 AAT-GGTTCACTCCCTATTTCTTTAGGGAGTAT-GAACTC-GACATATTCTTCAAACGGGTTCGC
33769 TCCCTCTTTCTCTAGGGAGTATAGAACTCGAACAT
127 TCCCTCTTTCTCTAGGGAGTATAGAACTCGAACAT
* * * * ** *
33804 CTCTTCAA-AT-GGGT-TCGCTCCTTCCTTCTTTA-AGGAGTAT-AGAACTCGAAC-ATCTTCAA
1 ATCTTCAACATCGCGTCT-GCCCCCTATTTCTTCAGA-GAGTATAAG-ACTCGAACAATCTTCAA
* * * * * *
33863 -ACA-GGTTCGCTCCTTCTTTCTTTAAGGAGTATAGAACTCGAACATCTTCTTCAAACGGGTTCG
63 CAAATGGTTCACTCCCTATTTCTTTAGGGAGTAT-GAACTCG-ACATATTCTTCAAACGGGTTCG
*
33926 CTCCCCCTTTCTCTAGGGAGTATAGAACTCGAACA-
126 CTCCCTCTTTCTCTAGGGAGTATAGAACTCGAACAT
33961 ATCTTCAACA
1 ATCTTCAACA
33971 AACATGTTCG
Statistics
Matches: 289, Mismatches: 28, Indels: 37
0.82 0.08 0.10
Matches are distributed among these distances:
157 8 0.03
158 86 0.30
160 2 0.01
161 12 0.04
162 28 0.10
163 2 0.01
164 23 0.08
165 103 0.36
166 15 0.05
167 10 0.03
ACGTcount: A:0.27, C:0.26, G:0.16, T:0.31
Consensus pattern (161 bp):
ATCTTCAACATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAA
ATGGTTCACTCCCTATTTCTTTAGGGAGTATGAACTCGACATATTCTTCAAACGGGTTCGCTCCC
TCTTTCTCTAGGGAGTATAGAACTCGAACAT
Found at i:33893 original size:158 final size:163
Alignment explanation
Indices: 33676--34022 Score: 438
Period size: 158 Copynumber: 2.2 Consensus size: 163
33666 TTTCTTCAGA
* *
33676 GAGTATA-AGACTCGAACAATCTTCAACAAATGGGTTCACTCCCTATTTCTCTAGGGAGTATGGA
1 GAGTATAGA-ACTCGAACAATCTTCAACAAA-GGGTTCACTCCCTATTTCTCTAAGGAGTATAGA
*
33740 ACTC-AGACATATTCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATAGAACTCGAAC-A
64 ACTCGA-ACATATTCTTCAAACGGGTTCGCTCCCCCTTTCTCTAGGGAGTATAGAACTCGAACAA
** ** * *
33803 TC-TCTTCAAATGGGTTCGCTCCTTCCTTCTTTAAG
128 TCTTCAACAAACAGGTTCGCTCCCTCCTTCTCTAAG
* * * * *
33838 GAGTATAGAACTCGAAC-ATCTTCAA-ACA-GGTTCGCTCCTTCTTTCTTTAAGGAGTATAGAAC
1 GAGTATAGAACTCGAACAATCTTCAACAAAGGGTTCACTCCCTATTTCTCTAAGGAGTATAGAAC
*
33900 TCGAACATCTTCTTCAAACGGGTTCGCTCCCCCTTTCTCTAGGGAGTATAGAACTCGAACAATCT
66 TCGAACATATTCTTCAAACGGGTTCGCTCCCCCTTTCTCTAGGGAGTATAGAACTCGAACAATCT
* * *
33965 TCAACAAACATGTTCGCTCCCTCTTTCTCTAGG
131 TCAACAAACAGGTTCGCTCCCTCCTTCTCTAAG
* *
33998 GAGTATAGAACTCAAATAATCTTCA
1 GAGTATAGAACTCGAACAATCTTCA
34023 TTTGCTTCAC
Statistics
Matches: 160, Mismatches: 20, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
158 84 0.52
159 4 0.03
160 41 0.26
161 15 0.09
162 15 0.09
163 1 0.01
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.31
Consensus pattern (163 bp):
GAGTATAGAACTCGAACAATCTTCAACAAAGGGTTCACTCCCTATTTCTCTAAGGAGTATAGAAC
TCGAACATATTCTTCAAACGGGTTCGCTCCCCCTTTCTCTAGGGAGTATAGAACTCGAACAATCT
TCAACAAACAGGTTCGCTCCCTCCTTCTCTAAG
Found at i:34448 original size:36 final size:36
Alignment explanation
Indices: 34390--34655 Score: 329
Period size: 36 Copynumber: 7.4 Consensus size: 36
34380 ACTCTTCTGA
* * **
34390 GAAGGCTTAAAATGGATCTGCTTCACTACTT-TTTGGT
1 GAAGGCTTAAGATGG-TTTGCTTCACTA-TTCTCCGGT
* * *
34427 GAAGACTTAAGATGGTTTGCTTCACTACTCTCTGGT
1 GAAGGCTTAAGATGGTTTGCTTCACTATTCTCCGGT
* *
34463 GAAGACTTATGATGGTTTGCTTCACTATTCTCCGGT
1 GAAGGCTTAAGATGGTTTGCTTCACTATTCTCCGGT
* * *
34499 GAAGGCTTCAGATTGATTGCTTCACTATTCTCCGGT
1 GAAGGCTTAAGATGGTTTGCTTCACTATTCTCCGGT
* *
34535 GAAGGCTTCAGATGGTTTGCTTCACTATTCTCCGAT
1 GAAGGCTTAAGATGGTTTGCTTCACTATTCTCCGGT
* *
34571 GAAGGCTTAGGATGGTTTGCTTCACTATTCTCCAGT
1 GAAGGCTTAAGATGGTTTGCTTCACTATTCTCCGGT
* *
34607 GAAGGCTTCAGATGGTTTGCTTCACT-TCTCTTCGGT
1 GAAGGCTTAAGATGGTTTGCTTCACTAT-TCTCCGGT
34643 GAAGGCTTAAGAT
1 GAAGGCTTAAGAT
34656 TGACTTTGCT
Statistics
Matches: 202, Mismatches: 25, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
35 2 0.01
36 187 0.93
37 13 0.06
ACGTcount: A:0.21, C:0.20, G:0.23, T:0.36
Consensus pattern (36 bp):
GAAGGCTTAAGATGGTTTGCTTCACTATTCTCCGGT
Found at i:43791 original size:12 final size:11
Alignment explanation
Indices: 43744--43804 Score: 54
Period size: 12 Copynumber: 5.5 Consensus size: 11
43734 AAATAAAAAC
43744 AAGAAAA-T-A
1 AAGAAAATTAA
*
43753 AAGAAGATTAA
1 AAGAAAATTAA
*
43764 AGAGAAAAATAA
1 A-AGAAAATTAA
43776 AAGAAAATTAA
1 AAGAAAATTAA
*
43787 GAAGAATATTTAA
1 -AAGAA-AATTAA
43800 AAGAA
1 AAGAA
43805 GTAAATTCAA
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
9 6 0.14
10 1 0.02
11 11 0.26
12 19 0.45
13 5 0.12
ACGTcount: A:0.69, C:0.00, G:0.15, T:0.16
Consensus pattern (11 bp):
AAGAAAATTAA
Found at i:48427 original size:42 final size:41
Alignment explanation
Indices: 48366--48457 Score: 107
Period size: 42 Copynumber: 2.2 Consensus size: 41
48356 ACCATTACAA
*
48366 GAAAGGGATTGATCCTTTTCATCGAAGGG-T-TGATCCTTTTAGT
1 GAAA-GGATTGATCATTTTCATCG-AGGGATCT-ATCCTTTTA-T
*
48409 GAAAGGATTGATCATTTTCCTCGAGGGATCTATCCTTTTAT
1 GAAAGGATTGATCATTTTCATCGAGGGATCTATCCTTTTAT
*
48450 GAAGGGAT
1 GAAAGGAT
48458 CAATCCAAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
41 12 0.27
42 27 0.61
43 5 0.11
ACGTcount: A:0.25, C:0.14, G:0.25, T:0.36
Consensus pattern (41 bp):
GAAAGGATTGATCATTTTCATCGAGGGATCTATCCTTTTAT
Found at i:48437 original size:21 final size:22
Alignment explanation
Indices: 48368--48457 Score: 86
Period size: 21 Copynumber: 4.3 Consensus size: 22
48358 CATTACAAGA
48368 AAGGGATTGATCCTTTTCATCG
1 AAGGGATTGATCCTTTTCATCG
48390 AAGGG-TTGATCCTTTT-AGT-G
1 AAGGGATTGATCCTTTTCA-TCG
* * *
48410 AAAGGATTGATCATTTTCCTCG
1 AAGGGATTGATCCTTTTCATCG
48432 -AGGGATCT-ATCCTTTT-AT-G
1 AAGGGAT-TGATCCTTTTCATCG
48451 AAGGGAT
1 AAGGGAT
48458 CAATCCAAAA
Statistics
Matches: 56, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
19 1 0.02
20 13 0.23
21 35 0.62
22 7 0.12
ACGTcount: A:0.24, C:0.14, G:0.24, T:0.37
Consensus pattern (22 bp):
AAGGGATTGATCCTTTTCATCG
Found at i:50882 original size:30 final size:30
Alignment explanation
Indices: 50842--50898 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
50832 CTAATTTGAA
*
50842 CTAAAATTTAGATAAAATATTAATTTACAC
1 CTAAAATTTAGATAAAATATCAATTTACAC
* *
50872 CTAAACTTTAGATGAAATATCAATTTA
1 CTAAAATTTAGATAAAATATCAATTTA
50899 ACCCATGCAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.47, C:0.11, G:0.05, T:0.37
Consensus pattern (30 bp):
CTAAAATTTAGATAAAATATCAATTTACAC
Found at i:50912 original size:30 final size:31
Alignment explanation
Indices: 50847--50912 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 31
50837 TTGAACTAAA
* *
50847 ATTTAGATAAAATATTAATTTACACCTAAAC
1 ATTTAGATAAAATATCAATTTACACCCAAAC
* **
50878 -TTTAGATGAAATATCAATTTA-ACCCATGC
1 ATTTAGATAAAATATCAATTTACACCCAAAC
50907 ATTTAG
1 ATTTAG
50913 TCAAAATCTC
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
29 5 0.17
30 24 0.83
ACGTcount: A:0.42, C:0.14, G:0.08, T:0.36
Consensus pattern (31 bp):
ATTTAGATAAAATATCAATTTACACCCAAAC
Found at i:51341 original size:29 final size:28
Alignment explanation
Indices: 51281--51337 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
51271 GTCATAGGTG
51281 TCACAATACTTTTAAAAGAAAAAAAACT
1 TCACAATACTTTTAAAAGAAAAAAAACT
*
51309 TCACATTACTTTTAAAAGAAAAAAAACT
1 TCACAATACTTTTAAAAGAAAAAAAACT
51337 T
1 T
51338 TCACCCATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.54, C:0.14, G:0.04, T:0.28
Consensus pattern (28 bp):
TCACAATACTTTTAAAAGAAAAAAAACT
Found at i:51352 original size:28 final size:28
Alignment explanation
Indices: 51288--51353 Score: 82
Period size: 28 Copynumber: 2.4 Consensus size: 28
51278 GTGTCACAAT
**
51288 ACTTTTAAAAGAAAAAAAACTTCACATT
1 ACTTTTAAAAGAAAAAAAACTTCACACC
51316 ACTTTTAAAAGAAAAAAAACTTTCAC-CC
1 ACTTTTAAAAGAAAAAAAAC-TTCACACC
51344 A-TTTGTAAAA
1 ACTTT-TAAAA
51354 ACCATAAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
27 3 0.09
28 26 0.76
29 5 0.15
ACGTcount: A:0.52, C:0.15, G:0.05, T:0.29
Consensus pattern (28 bp):
ACTTTTAAAAGAAAAAAAACTTCACACC
Found at i:52096 original size:49 final size:48
Alignment explanation
Indices: 52040--52179 Score: 158
Period size: 47 Copynumber: 2.9 Consensus size: 48
52030 ACTATTTCCA
* ** *
52040 CATCTAACCTGCA-TACGTGGCACCTTTCTGCCAAGAGTGCACCGTTAGT
1 CATCTAACCTGCATTA-ATGGCACCTTTCTGCCAA-AAAGCACAGTTAGT
* * *
52089 CATCTAACTTGCATTAATGGAACCTTTCTACCAAAAAGCACAGTTAGT
1 CATCTAACCTGCATTAATGGCACCTTTCTGCCAAAAAGCACAGTTAGT
* *
52137 -ATCTAACCTGGATTAATGGCACCTTTATGCCAAAAATGCACAG
1 CATCTAACCTGCATTAATGGCACCTTTCTGCCAAAAA-GCACAG
52180 CTAGACATTT
Statistics
Matches: 77, Mismatches: 12, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
47 31 0.40
48 17 0.22
49 27 0.35
50 2 0.03
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.27
Consensus pattern (48 bp):
CATCTAACCTGCATTAATGGCACCTTTCTGCCAAAAAGCACAGTTAGT
Found at i:52604 original size:3 final size:3
Alignment explanation
Indices: 52596--52702 Score: 87
Period size: 3 Copynumber: 35.0 Consensus size: 3
52586 TTGTCCGTTT
* *
52596 TTA TTA TTAA TTA -TA TATA TTA TT- TCTA TATG TTA TTA TTA TCA -TA
1 TTA TTA TT-A TTA TTA T-TA TTA TTA T-TA T-TA TTA TTA TTA TTA TTA
* *
52642 TTA TTA TTA TTA TTAA TTA CATG TTA TTA TTA TTA -TA TTA TTA TTA
1 TTA TTA TTA TTA TT-A TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
52688 ATA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA
52703 AATAATATTA
Statistics
Matches: 84, Mismatches: 11, Indels: 18
0.74 0.10 0.16
Matches are distributed among these distances:
2 6 0.07
3 65 0.77
4 13 0.15
ACGTcount: A:0.36, C:0.03, G:0.02, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:52625 original size:13 final size:13
Alignment explanation
Indices: 52596--52700 Score: 98
Period size: 14 Copynumber: 8.3 Consensus size: 13
52586 TTGTCCGTTT
52596 TTAT-TATTAATTA
1 TTATATATT-ATTA
52609 -TATATATTATT-
1 TTATATATTATTA
*
52620 TCTATATGTTATTA
1 T-TATATATTATTA
52634 TTATCATATTATTA
1 TTAT-ATATTATTA
52648 TTAT-TATTA--A
1 TTATATATTATTA
* *
52658 TTACATGTTATTA
1 TTATATATTATTA
52671 TTATTATATTATTA
1 TTA-TATATTATTA
52685 TTA-ATATTATTA
1 TTATATATTATTA
52697 TTAT
1 TTAT
52701 TAAATAATAT
Statistics
Matches: 76, Mismatches: 6, Indels: 20
0.75 0.06 0.20
Matches are distributed among these distances:
10 4 0.05
11 4 0.05
12 23 0.30
13 21 0.28
14 24 0.32
ACGTcount: A:0.35, C:0.03, G:0.02, T:0.60
Consensus pattern (13 bp):
TTATATATTATTA
Found at i:52668 original size:23 final size:23
Alignment explanation
Indices: 52628--52712 Score: 86
Period size: 23 Copynumber: 3.7 Consensus size: 23
52618 TTTCTATATG
52628 TTATT-ATTATCATATTATTATTA
1 TTATTAATTA-CATATTATTATTA
*
52651 TTATTAATTACATGTTATTATTA
1 TTATTAATTACATATTATTATTA
* * *
52674 TTATATTATTA-TTAATATTATTA
1 TTAT-TAATTACATATTATTATTA
*
52697 TTATTAAATA-ATATTA
1 TTATTAATTACATATTA
52713 CAAACCCAAA
Statistics
Matches: 51, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
22 8 0.16
23 34 0.67
24 9 0.18
ACGTcount: A:0.39, C:0.02, G:0.01, T:0.58
Consensus pattern (23 bp):
TTATTAATTACATATTATTATTA
Found at i:52676 original size:26 final size:25
Alignment explanation
Indices: 52596--52712 Score: 88
Period size: 26 Copynumber: 4.8 Consensus size: 25
52586 TTGTCCGTTT
52596 TTATTATTA-ATTATA-T-ATATTA
1 TTATTATTATATTATATTAATATTA
*
52618 TT-TCTA-TATGTTATTATT-ATCA-TA
1 TTAT-TATTATATTA-TATTAAT-ATTA
*
52642 TTATTATTATTATTA-ATTACATGTTA
1 TTATTATTA-TATTATATTA-ATATTA
52668 TTATTATTATATTATTATTAATATTA
1 TTATTATTATATTA-TATTAATATTA
* *
52694 TTATTATTAAATAATATTA
1 TTATTATTATATTATATTA
52713 CAAACCCAAA
Statistics
Matches: 76, Mismatches: 6, Indels: 23
0.72 0.06 0.22
Matches are distributed among these distances:
21 3 0.04
22 7 0.09
23 2 0.03
24 12 0.16
25 14 0.18
26 34 0.45
27 4 0.05
ACGTcount: A:0.38, C:0.03, G:0.02, T:0.58
Consensus pattern (25 bp):
TTATTATTATATTATATTAATATTA
Found at i:59171 original size:56 final size:56
Alignment explanation
Indices: 59095--59204 Score: 202
Period size: 56 Copynumber: 2.0 Consensus size: 56
59085 ATCTTGTTCG
*
59095 AGATCTGATTAGATATGGAGACATGAAAGGAATTAGGATAAATCCTTCTTGTGAAA
1 AGATCTGATTAGATATGGAGACATGAAAGAAATTAGGATAAATCCTTCTTGTGAAA
*
59151 AGATCTGATTAGATGTGGAGACATGAAAGAAATTAGGATAAATCCTTCTTGTGA
1 AGATCTGATTAGATATGGAGACATGAAAGAAATTAGGATAAATCCTTCTTGTGA
59205 TATGTTTCAA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
56 52 1.00
ACGTcount: A:0.38, C:0.09, G:0.24, T:0.29
Consensus pattern (56 bp):
AGATCTGATTAGATATGGAGACATGAAAGAAATTAGGATAAATCCTTCTTGTGAAA
Found at i:59317 original size:22 final size:22
Alignment explanation
Indices: 59287--59344 Score: 80
Period size: 22 Copynumber: 2.6 Consensus size: 22
59277 CATATCTACA
59287 TTTTGCAAAGATGATAAAATCTC
1 TTTT-CAAAGATGATAAAATCTC
* * *
59310 TTTTCAAAGAAGATAGATTCTC
1 TTTTCAAAGATGATAAAATCTC
59332 TTTTCAAAGATGA
1 TTTTCAAAGATGA
59345 AGGCTTTATC
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
22 27 0.87
23 4 0.13
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (22 bp):
TTTTCAAAGATGATAAAATCTC
Found at i:59961 original size:20 final size:20
Alignment explanation
Indices: 59938--60000 Score: 56
Period size: 20 Copynumber: 3.0 Consensus size: 20
59928 TTGTAAATCC
59938 TTCGGGTCATCTGTAAGTCT
1 TTCGGGTCATCTGTAAGTCT
* * *
59958 TTCGAG-CATGATGTTTAAATCT
1 TTCGGGTCAT-CTG--TAAGTCT
*
59980 TTCGGGTCATCTGTCAGTCT
1 TTCGGGTCATCTGTAAGTCT
60000 T
1 T
60001 CCGAGCCAGA
Statistics
Matches: 32, Mismatches: 7, Indels: 8
0.68 0.15 0.17
Matches are distributed among these distances:
19 3 0.09
20 13 0.41
22 13 0.41
23 3 0.09
ACGTcount: A:0.17, C:0.19, G:0.22, T:0.41
Consensus pattern (20 bp):
TTCGGGTCATCTGTAAGTCT
Found at i:60508 original size:3 final size:3
Alignment explanation
Indices: 60502--60573 Score: 85
Period size: 3 Copynumber: 24.0 Consensus size: 3
60492 TTTATAGAAG
* * *
60502 TTA TTA TTA TCA -TA TTA TTA TTA TTA TTAA TTA CATG TTA TTA -TA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA -TTA TTA TTA TTA
60547 TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA
60574 ATAATAAATA
Statistics
Matches: 59, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
2 3 0.05
3 52 0.88
4 4 0.07
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:61896 original size:20 final size:19
Alignment explanation
Indices: 61863--61906 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
61853 TTATGAATTA
*
61863 ATTAT-TAATAATTAGTAT
1 ATTATATAATAATTAATAT
61881 ATTATATAATTAATTAATAT
1 ATTATATAA-TAATTAATAT
61901 -TTATAT
1 ATTATAT
61907 TTTAAGATCA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 5 0.22
19 9 0.39
20 9 0.39
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (19 bp):
ATTATATAATAATTAATAT
Done.