Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002992.1 Hibiscus syriacus cultivar Beakdansim tig00006188_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: 77250
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.34
Found at i:4047 original size:18 final size:18
Alignment explanation
Indices: 4026--4067 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
4016 ATATTCATTA
4026 AGATTAAGCCATTCTATT
1 AGATTAAGCCATTCTATT
4044 AGATTAAGCCATTCTATT
1 AGATTAAGCCATTCTATT
4062 AGATTA
1 AGATTA
4068 TGAGAAATCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38
Consensus pattern (18 bp):
AGATTAAGCCATTCTATT
Found at i:5358 original size:27 final size:27
Alignment explanation
Indices: 5320--5376 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
5310 AGGTGGAACA
5320 TCTTCTCAAAAGCATCTGCTTGTAAGC
1 TCTTCTCAAAAGCATCTGCTTGTAAGC
5347 TCTTCTCAAAAGCATCTGCTTGTAAGC
1 TCTTCTCAAAAGCATCTGCTTGTAAGC
5374 TCT
1 TCT
5377 CGGATAAACA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.25, C:0.26, G:0.14, T:0.35
Consensus pattern (27 bp):
TCTTCTCAAAAGCATCTGCTTGTAAGC
Found at i:20679 original size:35 final size:35
Alignment explanation
Indices: 20624--20694 Score: 106
Period size: 35 Copynumber: 2.0 Consensus size: 35
20614 TTGTATTAAA
* *
20624 AGTAAAAAATATCCAGAATTATAATAAAGAATTAC
1 AGTAAAAAATATCCAAAATTACAATAAAGAATTAC
* *
20659 AGTATAAAATATCCAAAATTACAATAAAGATTTAC
1 AGTAAAAAATATCCAAAATTACAATAAAGAATTAC
20694 A
1 A
20695 AATATAATTT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.56, C:0.10, G:0.07, T:0.27
Consensus pattern (35 bp):
AGTAAAAAATATCCAAAATTACAATAAAGAATTAC
Found at i:31260 original size:14 final size:14
Alignment explanation
Indices: 31241--31269 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
31231 AACTCGAATT
31241 CGCCAATTTCGCAA
1 CGCCAATTTCGCAA
31255 CGCCAATTTCGCAA
1 CGCCAATTTCGCAA
31269 C
1 C
31270 TCAATTACCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.38, G:0.14, T:0.21
Consensus pattern (14 bp):
CGCCAATTTCGCAA
Found at i:31262 original size:22 final size:22
Alignment explanation
Indices: 31221--31262 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
31211 AACACAGTTT
* *
31221 CCAAATTCGCAACTCGAATTCG
1 CCAAATTCGCAACGCCAATTCG
*
31243 CCAATTTCGCAACGCCAATT
1 CCAAATTCGCAACGCCAATT
31263 TCGCAACTCA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.31, C:0.33, G:0.12, T:0.24
Consensus pattern (22 bp):
CCAAATTCGCAACGCCAATTCG
Found at i:31340 original size:22 final size:21
Alignment explanation
Indices: 31312--31358 Score: 67
Period size: 22 Copynumber: 2.2 Consensus size: 21
31302 AAAAAATCTT
31312 AATTCGCAAATTTCGCAACTCG
1 AATTCGCAAATTTCGCAACT-G
* *
31334 AATTCGCCAATTTTGCAACTG
1 AATTCGCAAATTTCGCAACTG
31355 AATT
1 AATT
31359 ACCGATATAG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 5 0.22
22 18 0.78
ACGTcount: A:0.32, C:0.23, G:0.13, T:0.32
Consensus pattern (21 bp):
AATTCGCAAATTTCGCAACTG
Found at i:31606 original size:22 final size:22
Alignment explanation
Indices: 31577--31634 Score: 91
Period size: 22 Copynumber: 2.7 Consensus size: 22
31567 CTATATCGGT
31577 AATT-GAGTTGCGAAATTGGCG
1 AATTCGAGTTGCGAAATTGGCG
*
31598 AATTCGAGTTGCGAAGTTGGCG
1 AATTCGAGTTGCGAAATTGGCG
*
31620 AATTCGCGTTGCGAA
1 AATTCGAGTTGCGAA
31635 TTTGAAAACT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
21 4 0.12
22 30 0.88
ACGTcount: A:0.26, C:0.14, G:0.33, T:0.28
Consensus pattern (22 bp):
AATTCGAGTTGCGAAATTGGCG
Found at i:31973 original size:17 final size:16
Alignment explanation
Indices: 31953--31997 Score: 54
Period size: 17 Copynumber: 2.7 Consensus size: 16
31943 ATTTTAGATT
**
31953 TTTTATTAATTTTTTAA
1 TTTTA-TAATTTTAAAA
31970 TTTTATAATTCTTAAAA
1 TTTTATAATT-TTAAAA
31987 TTTTATAATTT
1 TTTTATAATTT
31998 GACCCTTCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 6 0.24
17 19 0.76
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (16 bp):
TTTTATAATTTTAAAA
Found at i:31996 original size:8 final size:8
Alignment explanation
Indices: 31953--31997 Score: 54
Period size: 8 Copynumber: 5.4 Consensus size: 8
31943 ATTTTAGATT
31953 TTTTATTAA
1 TTTTA-TAA
*
31962 TTTTTTAA
1 TTTTATAA
31970 TTTTATAA
1 TTTTATAA
*
31978 TTCTTAAAA
1 TT-TTATAA
31987 TTTTATAA
1 TTTTATAA
31995 TTT
1 TTT
31998 GACCCTTCTT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
8 20 0.65
9 11 0.35
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (8 bp):
TTTTATAA
Found at i:35744 original size:21 final size:21
Alignment explanation
Indices: 35720--35824 Score: 88
Period size: 21 Copynumber: 5.1 Consensus size: 21
35710 GCAAATTCGC
35720 GTTGCATTTCGCGTTGCGATA
1 GTTGCATTTCGCGTTGCGATA
* **
35741 GTTGGAAATCGCGTTGCGAT-
1 GTTGCATTTCGCGTTGCGATA
* *
35761 TTTCCATTTCGCGTTGCGATA
1 GTTGCATTTCGCGTTGCGATA
* ** *
35782 GTTGAAAATCGCATTGCGAT-
1 GTTGCATTTCGCGTTGCGATA
* * *
35802 TTTCCATTTCGCATTGCGATA
1 GTTGCATTTCGCGTTGCGATA
35823 GT
1 GT
35825 CTACAATATC
Statistics
Matches: 62, Mismatches: 20, Indels: 4
0.72 0.23 0.05
Matches are distributed among these distances:
20 30 0.48
21 32 0.52
ACGTcount: A:0.19, C:0.19, G:0.25, T:0.37
Consensus pattern (21 bp):
GTTGCATTTCGCGTTGCGATA
Found at i:35769 original size:41 final size:41
Alignment explanation
Indices: 35724--35824 Score: 175
Period size: 41 Copynumber: 2.5 Consensus size: 41
35714 ATTCGCGTTG
* *
35724 CATTTCGCGTTGCGATAGTTGGAAATCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCATTGCGATTTTC
35765 CATTTCGCGTTGCGATAGTTGAAAATCGCATTGCGATTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCATTGCGATTTTC
*
35806 CATTTCGCATTGCGATAGT
1 CATTTCGCGTTGCGATAGT
35825 CTACAATATC
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 57 1.00
ACGTcount: A:0.20, C:0.20, G:0.24, T:0.37
Consensus pattern (41 bp):
CATTTCGCGTTGCGATAGTTGAAAATCGCATTGCGATTTTC
Found at i:35774 original size:20 final size:20
Alignment explanation
Indices: 35749--35821 Score: 74
Period size: 20 Copynumber: 3.6 Consensus size: 20
35739 TAGTTGGAAA
*
35749 TCGCGTTGCGATTTTCCATT
1 TCGCATTGCGATTTTCCATT
* * ** **
35769 TCGCGTTGCGATAGTTGAAAA
1 TCGCATTGCGAT-TTTCCATT
35790 TCGCATTGCGATTTTCCATT
1 TCGCATTGCGATTTTCCATT
35810 TCGCATTGCGAT
1 TCGCATTGCGAT
35822 AGTCTACAAT
Statistics
Matches: 41, Mismatches: 11, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
20 27 0.66
21 14 0.34
ACGTcount: A:0.18, C:0.22, G:0.22, T:0.38
Consensus pattern (20 bp):
TCGCATTGCGATTTTCCATT
Found at i:36481 original size:6 final size:6
Alignment explanation
Indices: 36465--36496 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
36455 TCTCATCTCG
36465 GGTCG- GGTCGT GGTCGT GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
36497 AATACGTGTC
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 5 0.19
6 21 0.81
ACGTcount: A:0.00, C:0.16, G:0.53, T:0.31
Consensus pattern (6 bp):
GGTCGT
Found at i:36614 original size:19 final size:19
Alignment explanation
Indices: 36590--36658 Score: 75
Period size: 19 Copynumber: 3.5 Consensus size: 19
36580 CAACGACTTT
36590 TCGCAACGAATTTGGAAAA
1 TCGCAACGAATTTGGAAAA
* * **
36609 TCGCAACGATAACTGTAGACTA
1 TCGCAACG--AA-TTTGGAAAA
36631 TCGCAACGAATTTGGAAAA
1 TCGCAACGAATTTGGAAAA
36650 TCGCAACGA
1 TCGCAACGA
36659 CAACTGTAGA
Statistics
Matches: 39, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
19 22 0.56
20 2 0.05
21 2 0.05
22 13 0.33
ACGTcount: A:0.39, C:0.20, G:0.20, T:0.20
Consensus pattern (19 bp):
TCGCAACGAATTTGGAAAA
Found at i:36636 original size:22 final size:21
Alignment explanation
Indices: 36608--36679 Score: 67
Period size: 22 Copynumber: 3.4 Consensus size: 21
36598 AATTTGGAAA
36608 ATCGCAACGATAACTGTAGACT
1 ATCGCAACGA-AACTGTAGACT
* * **
36630 ATCGCAACG-AA-TTTGGAAA
1 ATCGCAACGAAACTGTAGACT
36649 ATCGCAACGACAACTGTAGACT
1 ATCGCAACGA-AACTGTAGACT
*
36671 GTCGCAACG
1 ATCGCAACG
36680 CATTTTTCAA
Statistics
Matches: 38, Mismatches: 9, Indels: 6
0.72 0.17 0.11
Matches are distributed among these distances:
19 13 0.34
20 2 0.05
21 2 0.05
22 21 0.55
ACGTcount: A:0.36, C:0.24, G:0.21, T:0.19
Consensus pattern (21 bp):
ATCGCAACGAAACTGTAGACT
Found at i:36647 original size:41 final size:41
Alignment explanation
Indices: 36590--36684 Score: 163
Period size: 41 Copynumber: 2.3 Consensus size: 41
36580 CAACGACTTT
*
36590 TCGCAACGAATTTGGAAAATCGCAACGATAACTGTAGACTA
1 TCGCAACGAATTTGGAAAATCGCAACGACAACTGTAGACTA
*
36631 TCGCAACGAATTTGGAAAATCGCAACGACAACTGTAGACTG
1 TCGCAACGAATTTGGAAAATCGCAACGACAACTGTAGACTA
*
36672 TCGCAACGCATTT
1 TCGCAACGAATTT
36685 TTCAACTATC
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.22
Consensus pattern (41 bp):
TCGCAACGAATTTGGAAAATCGCAACGACAACTGTAGACTA
Found at i:36717 original size:20 final size:20
Alignment explanation
Indices: 36692--36762 Score: 65
Period size: 20 Copynumber: 3.5 Consensus size: 20
36682 TTTTTCAACT
36692 ATCGCAACGCTGACTGGAAA
1 ATCGCAACGCTGACTGGAAA
* ** *
36712 ATCGCAACGC-GATTTTCAACT
1 ATCGCAACGCTGA-CTGGAA-A
36733 ATCGCAACG-TGAACTGGAAA
1 ATCGCAACGCTG-ACTGGAAA
36753 ATCGCAACGC
1 ATCGCAACGC
36763 GATTTTCGCA
Statistics
Matches: 38, Mismatches: 8, Indels: 9
0.69 0.15 0.16
Matches are distributed among these distances:
19 2 0.05
20 22 0.58
21 13 0.34
22 1 0.03
ACGTcount: A:0.34, C:0.27, G:0.21, T:0.18
Consensus pattern (20 bp):
ATCGCAACGCTGACTGGAAA
Found at i:36738 original size:21 final size:21
Alignment explanation
Indices: 36672--36741 Score: 65
Period size: 21 Copynumber: 3.4 Consensus size: 21
36662 CTGTAGACTG
36672 TCGCAACGC-ATTTTTCAACTA
1 TCGCAACGCGA-TTTTCAACTA
* ** *
36693 TCGCAACGCTGA-CTGGAA-AA
1 TCGCAACGC-GATTTTCAACTA
36713 TCGCAACGCGATTTTCAACTA
1 TCGCAACGCGATTTTCAACTA
36734 TCGCAACG
1 TCGCAACG
36742 TGAACTGGAA
Statistics
Matches: 37, Mismatches: 8, Indels: 8
0.70 0.15 0.15
Matches are distributed among these distances:
19 2 0.05
20 13 0.35
21 21 0.57
23 1 0.03
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.24
Consensus pattern (21 bp):
TCGCAACGCGATTTTCAACTA
Found at i:36769 original size:41 final size:41
Alignment explanation
Indices: 36672--36769 Score: 164
Period size: 41 Copynumber: 2.4 Consensus size: 41
36662 CTGTAGACTG
36672 TCGCAACGC-ATTTTTCAACTATCGCAACGCTGACTGGAAAA
1 TCGCAACGCGA-TTTTCAACTATCGCAACGCTGACTGGAAAA
36713 TCGCAACGCGATTTTCAACTATCGCAACG-TGAACTGGAAAA
1 TCGCAACGCGATTTTCAACTATCGCAACGCTG-ACTGGAAAA
36754 TCGCAACGCGATTTTC
1 TCGCAACGCGATTTTC
36770 GCAACGAATT
Statistics
Matches: 55, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
40 2 0.04
41 52 0.95
42 1 0.02
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (41 bp):
TCGCAACGCGATTTTCAACTATCGCAACGCTGACTGGAAAA
Found at i:36792 original size:19 final size:19
Alignment explanation
Indices: 36768--36836 Score: 66
Period size: 19 Copynumber: 3.5 Consensus size: 19
36758 AACGCGATTT
36768 TCGCAACGAATTTGGAAAA
1 TCGCAACGAATTTGGAAAA
* * **
36787 TCGCAACGACAACTGTAGACTA
1 TCGCAACG--AA-TTTGGAAAA
36809 TCGCAACGAATTTGGAAAA
1 TCGCAACGAATTTGGAAAA
*
36828 TCGTAACGA
1 TCGCAACGA
36837 CAACTGTAGA
Statistics
Matches: 38, Mismatches: 9, Indels: 6
0.72 0.17 0.11
Matches are distributed among these distances:
19 21 0.55
20 2 0.05
21 2 0.05
22 13 0.34
ACGTcount: A:0.39, C:0.20, G:0.20, T:0.20
Consensus pattern (19 bp):
TCGCAACGAATTTGGAAAA
Found at i:36814 original size:22 final size:22
Alignment explanation
Indices: 36786--36857 Score: 78
Period size: 22 Copynumber: 3.4 Consensus size: 22
36776 AATTTGGAAA
36786 ATCGCAACGACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
* * **
36808 ATCGCAACG--AA-TTTGGAAA
1 ATCGCAACGACAACTGTAGACT
*
36827 ATCGTAACGACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
36849 ATCGCAACG
1 ATCGCAACG
36858 CGAACTGGAA
Statistics
Matches: 37, Mismatches: 10, Indels: 6
0.70 0.19 0.11
Matches are distributed among these distances:
19 12 0.32
20 2 0.05
21 2 0.05
22 21 0.57
ACGTcount: A:0.38, C:0.24, G:0.19, T:0.19
Consensus pattern (22 bp):
ATCGCAACGACAACTGTAGACT
Found at i:36825 original size:41 final size:41
Alignment explanation
Indices: 36768--36877 Score: 177
Period size: 41 Copynumber: 2.7 Consensus size: 41
36758 AACGCGATTT
36768 TCGCAACGAATTTGGAAAATCGCAACGACAACTGTAGACTA
1 TCGCAACGAATTTGGAAAATCGCAACGACAACTGTAGACTA
*
36809 TCGCAACGAATTTGGAAAATCGTAACGACAACTGTAGACTA
1 TCGCAACGAATTTGGAAAATCGCAACGACAACTGTAGACTA
*
36850 TCGCAACGCGAA-CTGGAAAATCGCAACG
1 TCGCAA--CGAATTTGGAAAATCGCAACG
36878 CGAACTGGAA
Statistics
Matches: 64, Mismatches: 3, Indels: 3
0.91 0.04 0.04
Matches are distributed among these distances:
41 46 0.72
42 14 0.22
43 4 0.06
ACGTcount: A:0.38, C:0.23, G:0.21, T:0.18
Consensus pattern (41 bp):
TCGCAACGAATTTGGAAAATCGCAACGACAACTGTAGACTA
Found at i:36853 original size:137 final size:136
Alignment explanation
Indices: 36631--36905 Score: 358
Period size: 137 Copynumber: 2.0 Consensus size: 136
36621 CTGTAGACTA
* * * *
36631 TCGCAACGAATTTGGAAAATCGCAACGACAACTGTAGACTGTCGCAACGCATTTTTCAACTATCG
1 TCGCAACGAATTTGGAAAATCGCAACGACAACTGTAGACTATCGCAACGCAATTTGCAACAATCG
* ** * * *
36696 CAACGCTGACTGGAAAATCGCAACGCGATTTTCAACTATCGCAACGTGAACTGGAAAATCGCAAC
66 CAACGCTAACTGGAAAATCGCAACGCGAACTGCAA-AATCGCAACGCGAACTGGAAAATCGCAAC
36761 GCGATTT
130 GCGATTT
*
36768 TCGCAACGAATTTGGAAAATCGCAACGACAACTGTAGACTATCGCAACG-AATTTGGAA-AATCG
1 TCGCAACGAATTTGGAAAATCGCAACGACAACTGTAGACTATCGCAACGCAATTTGCAACAATCG
* ** *
36831 TAACGAC-AACTGTAGACTATCGCAACGCGAACTGGAAAATCGCAACGCGAACTGGAAAATCGCA
66 CAACG-CTAACTG--GAAAATCGCAACGCGAACTGCAAAATCGCAACGCGAACTGGAAAATCGCA
36895 ACGCGATTT
128 ACGCGATTT
36904 TC
1 TC
36906 AACTATCGCA
Statistics
Matches: 120, Mismatches: 15, Indels: 7
0.85 0.11 0.05
Matches are distributed among these distances:
135 12 0.10
136 43 0.36
137 65 0.54
ACGTcount: A:0.35, C:0.24, G:0.20, T:0.21
Consensus pattern (136 bp):
TCGCAACGAATTTGGAAAATCGCAACGACAACTGTAGACTATCGCAACGCAATTTGCAACAATCG
CAACGCTAACTGGAAAATCGCAACGCGAACTGCAAAATCGCAACGCGAACTGGAAAATCGCAACG
CGATTT
Found at i:36874 original size:20 final size:20
Alignment explanation
Indices: 36849--36900 Score: 104
Period size: 20 Copynumber: 2.6 Consensus size: 20
36839 ACTGTAGACT
36849 ATCGCAACGCGAACTGGAAA
1 ATCGCAACGCGAACTGGAAA
36869 ATCGCAACGCGAACTGGAAA
1 ATCGCAACGCGAACTGGAAA
36889 ATCGCAACGCGA
1 ATCGCAACGCGA
36901 TTTTCAACTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.38, C:0.27, G:0.25, T:0.10
Consensus pattern (20 bp):
ATCGCAACGCGAACTGGAAA
Found at i:36915 original size:21 final size:21
Alignment explanation
Indices: 36889--36942 Score: 99
Period size: 21 Copynumber: 2.6 Consensus size: 21
36879 GAACTGGAAA
36889 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGATTTTCAACT
*
36910 ATCGCAACGCGATTTTCAATT
1 ATCGCAACGCGATTTTCAACT
36931 ATCGCAACGCGA
1 ATCGCAACGCGA
36943 AATGCAACGC
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:0.30, C:0.28, G:0.17, T:0.26
Consensus pattern (21 bp):
ATCGCAACGCGATTTTCAACT
Found at i:36942 original size:178 final size:178
Alignment explanation
Indices: 36587--36921 Score: 541
Period size: 178 Copynumber: 1.9 Consensus size: 178
36577 TCACAACGAC
*
36587 TTTTCGCAACGAATTTGGAAAATCGCAACGATAACTGTAGACTATCGCAACGAATTTGGAAAATC
1 TTTTCGCAACGAATTTGGAAAATCGCAACGACAACTGTAGACTATCGCAACGAATTTGGAAAATC
* ** * *
36652 GCAACGACAACTGTAGACTGTCGCAACGCATTTTTCAACTATCGCAACGCTGACTGGAAAATCGC
66 GCAACGACAACTGTAGACTATCGCAACGCATACTGCAACAATCGCAACGCTGACTGGAAAATCGC
* *
36717 AACGCGATTTTCAACTATCGCAACGTGAACTGGAAAATCGCAACGCGA
131 AACGCGATTTTCAACTATCGCAACGCGAACTGCAAAATCGCAACGCGA
36765 TTTTCGCAACGAATTTGGAAAATCGCAACGACAACTGTAGACTATCGCAACGAATTTGGAAAATC
1 TTTTCGCAACGAATTTGGAAAATCGCAACGACAACTGTAGACTATCGCAACGAATTTGGAAAATC
* *
36830 GTAACGACAACTGTAGACTATCGCAACGCGA-ACTGGAA-AATCGCAACGC-GAACTGGAAAATC
66 GCAACGACAACTGTAGACTATCGCAACGC-ATACTGCAACAATCGCAACGCTG-ACTGGAAAATC
36892 GCAACGCGATTTTCAACTATCGCAACGCGA
129 GCAACGCGATTTTCAACTATCGCAACGCGA
36922 TTTTCAATTA
Statistics
Matches: 146, Mismatches: 9, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
176 1 0.01
177 50 0.34
178 94 0.64
179 1 0.01
ACGTcount: A:0.35, C:0.24, G:0.20, T:0.21
Consensus pattern (178 bp):
TTTTCGCAACGAATTTGGAAAATCGCAACGACAACTGTAGACTATCGCAACGAATTTGGAAAATC
GCAACGACAACTGTAGACTATCGCAACGCATACTGCAACAATCGCAACGCTGACTGGAAAATCGC
AACGCGATTTTCAACTATCGCAACGCGAACTGCAAAATCGCAACGCGA
Found at i:38628 original size:25 final size:24
Alignment explanation
Indices: 38596--38680 Score: 98
Period size: 24 Copynumber: 3.5 Consensus size: 24
38586 ATAATTGCTT
*
38596 AAATTGAACGCAGACGTAACTACTA
1 AAATTGAACGCAGTCGTAACTAC-A
* * *
38621 AAATTGAACACAGTCGTAATTGCA
1 AAATTGAACGCAGTCGTAACTACA
* *
38645 AAATTGAACGCAGTGGTAACTTCA
1 AAATTGAACGCAGTCGTAACTACA
*
38669 AAACTGAACGCA
1 AAATTGAACGCA
38681 CCCTTGGTGA
Statistics
Matches: 51, Mismatches: 9, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
24 32 0.63
25 19 0.37
ACGTcount: A:0.42, C:0.19, G:0.18, T:0.21
Consensus pattern (24 bp):
AAATTGAACGCAGTCGTAACTACA
Found at i:38652 original size:24 final size:25
Alignment explanation
Indices: 38582--38680 Score: 96
Period size: 24 Copynumber: 4.0 Consensus size: 25
38572 CACAATAAGT
* *
38582 AGTCATAATTGCTTAAATTGAACGC
1 AGTCGTAATTGCTAAAATTGAACGC
* * * *
38607 AGACGTAACTACTAAAATTGAACAC
1 AGTCGTAATTGCTAAAATTGAACGC
38632 AGTCGTAATTGC-AAAATTGAACGC
1 AGTCGTAATTGCTAAAATTGAACGC
* *
38656 AGTGGTAACTT-C-AAAACTGAACGC
1 AGTCGTAA-TTGCTAAAATTGAACGC
38680 A
1 A
38681 CCCTTGGTGA
Statistics
Matches: 61, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
24 31 0.51
25 30 0.49
ACGTcount: A:0.40, C:0.18, G:0.17, T:0.24
Consensus pattern (25 bp):
AGTCGTAATTGCTAAAATTGAACGC
Found at i:40284 original size:14 final size:14
Alignment explanation
Indices: 40259--40293 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
40249 TCATTCCTAA
40259 TCCAAC-TTAAAAT
1 TCCAACATTAAAAT
40272 TCCAACATTAAAAT
1 TCCAACATTAAAAT
40286 T-CAACATT
1 TCCAACATT
40294 GAACACCTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 13 0.62
14 8 0.38
ACGTcount: A:0.46, C:0.23, G:0.00, T:0.31
Consensus pattern (14 bp):
TCCAACATTAAAAT
Found at i:42655 original size:18 final size:18
Alignment explanation
Indices: 42649--42794 Score: 229
Period size: 18 Copynumber: 8.1 Consensus size: 18
42639 TTTCCTAGGC
42649 TCCTCTTCCTTCTTCGGT
1 TCCTCTTCCTTCTTCGGT
*
42667 TCTTCTTCCTTCTTCGGT
1 TCCTCTTCCTTCTTCGGT
* *
42685 TCTTCTTCCTTCTTCGGC
1 TCCTCTTCCTTCTTCGGT
42703 TCCTCTTCCTTCTTCGGT
1 TCCTCTTCCTTCTTCGGT
42721 TCCTCTTCCTTCTTCGGT
1 TCCTCTTCCTTCTTCGGT
42739 TCCTCTTCCTTCTTCGGT
1 TCCTCTTCCTTCTTCGGT
* *
42757 TCCTCTTCTTTCTTGGGT
1 TCCTCTTCCTTCTTCGGT
* *
42775 TCCTCTTCTTTCTTTGGT
1 TCCTCTTCCTTCTTCGGT
42793 TC
1 TC
42795 TTCCTTCTTT
Statistics
Matches: 121, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 121 1.00
ACGTcount: A:0.00, C:0.36, G:0.12, T:0.53
Consensus pattern (18 bp):
TCCTCTTCCTTCTTCGGT
Found at i:42704 original size:54 final size:54
Alignment explanation
Indices: 42596--42812 Score: 257
Period size: 54 Copynumber: 4.1 Consensus size: 54
42586 TGCAGCTGTT
* * * * * * *
42596 GCTCCTCTTCCTTCTTC---TCCTCCTCTTTCTTAGCTTCTTCTTCTTTCCTAG
1 GCTCCTCTTCCTTCTTCGGTTCCTCTTCCTTCTTCGGTTCTTCTTCCTTCTTCG
*
42647 GCTCCTCTTCCTTCTTCGGTTCTTCTTCCTTCTTCGGTTCTTCTTCCTTCTTCG
1 GCTCCTCTTCCTTCTTCGGTTCCTCTTCCTTCTTCGGTTCTTCTTCCTTCTTCG
*
42701 GCTCCTCTTCCTTCTTCGGTTCCTCTTCCTTCTTCGGTTCCTCTTCCTTCTTCG
1 GCTCCTCTTCCTTCTTCGGTTCCTCTTCCTTCTTCGGTTCTTCTTCCTTCTTCG
* * * * * *
42755 GTTCCTCTTCTTTCTTGGGTTCCTCTTCTTTCTTTGG---TTCTTCCTTCTTTG
1 GCTCCTCTTCCTTCTTCGGTTCCTCTTCCTTCTTCGGTTCTTCTTCCTTCTTCG
42806 GCTCCTC
1 GCTCCTC
42813 CTTCTTTGGT
Statistics
Matches: 145, Mismatches: 18, Indels: 6
0.86 0.11 0.04
Matches are distributed among these distances:
51 35 0.24
54 110 0.76
ACGTcount: A:0.01, C:0.37, G:0.11, T:0.52
Consensus pattern (54 bp):
GCTCCTCTTCCTTCTTCGGTTCCTCTTCCTTCTTCGGTTCTTCTTCCTTCTTCG
Found at i:42796 original size:15 final size:15
Alignment explanation
Indices: 42778--42832 Score: 83
Period size: 15 Copynumber: 3.7 Consensus size: 15
42768 CTTGGGTTCC
*
42778 TCTTCTTTCTTTGGT
1 TCTTCCTTCTTTGGT
*
42793 TCTTCCTTCTTTGGC
1 TCTTCCTTCTTTGGT
*
42808 TCCTCCTTCTTTGGT
1 TCTTCCTTCTTTGGT
42823 TCTTCCTTCT
1 TCTTCCTTCT
42833 CCGGCTCCTT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 35 1.00
ACGTcount: A:0.00, C:0.31, G:0.11, T:0.58
Consensus pattern (15 bp):
TCTTCCTTCTTTGGT
Found at i:42799 original size:21 final size:18
Alignment explanation
Indices: 42613--42788 Score: 123
Period size: 18 Copynumber: 9.8 Consensus size: 18
42603 TTCCTTCTTC
* *
42613 TCCTCCTCTTTCTTAGCT
1 TCCTCTTCTTTCTTGGCT
* *
42631 TCTTCTTCTTTCCTAGGC-
1 TCCTCTTCTTT-CTTGGCT
*
42649 TCCTCTTCCTTCTTCGG-T
1 TCCTCTTCTTTCTT-GGCT
* *
42667 TCTTCTTCCTTCTTCGG-T
1 TCCTCTTCTTTCTT-GGCT
* *
42685 TCTTCTTCCTTCTTCGGC-
1 TCCTCTTCTTTCTT-GGCT
*
42703 TCCTCTTCCTTCTTCGG-T
1 TCCTCTTCTTTCTT-GGCT
*
42721 TCCTCTTCCTTCTTCGG-T
1 TCCTCTTCTTTCTT-GGCT
*
42739 TCCTCTTCCTTCTTCGG-T
1 TCCTCTTCTTTCTT-GGCT
*
42757 TCCTCTTCTTTCTTGGGT
1 TCCTCTTCTTTCTTGGCT
42775 TCCTCTTCTTTCTT
1 TCCTCTTCTTTCTT
42789 TGGTTCTTCC
Statistics
Matches: 142, Mismatches: 10, Indels: 12
0.87 0.06 0.07
Matches are distributed among these distances:
17 4 0.03
18 134 0.94
19 4 0.03
ACGTcount: A:0.01, C:0.36, G:0.10, T:0.52
Consensus pattern (18 bp):
TCCTCTTCTTTCTTGGCT
Found at i:42818 original size:30 final size:30
Alignment explanation
Indices: 42784--42841 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
42774 TTCCTCTTCT
**
42784 TTCTTTGGTTCTTCCTTCTTTGGCTCCTCC
1 TTCTTTGGTTCTTCCTTCTCCGGCTCCTCC
42814 TTCTTTGGTTCTTCCTTCTCCGGCTCCT
1 TTCTTTGGTTCTTCCTTCTCCGGCTCCT
42842 TCGCTGGCCC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.00, C:0.34, G:0.14, T:0.52
Consensus pattern (30 bp):
TTCTTTGGTTCTTCCTTCTCCGGCTCCTCC
Found at i:45314 original size:21 final size:21
Alignment explanation
Indices: 45288--45331 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
45278 AGGGTTTATG
45288 TATAATTTAAGGGTTAGAATT
1 TATAATTTAAGGGTTAGAATT
* *
45309 TATAATTTAGGGGTTAGAGTT
1 TATAATTTAAGGGTTAGAATT
45330 TA
1 TA
45332 GGGTTTAGAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.34, C:0.00, G:0.23, T:0.43
Consensus pattern (21 bp):
TATAATTTAAGGGTTAGAATT
Found at i:45331 original size:14 final size:14
Alignment explanation
Indices: 45314--45345 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
45304 GAATTTATAA
45314 TTTAGGGGTTAGAG
1 TTTAGGGGTTAGAG
*
45328 TTTAGGGTTTAGAG
1 TTTAGGGGTTAGAG
45342 TTTA
1 TTTA
45346 AGATTTGAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.22, C:0.00, G:0.34, T:0.44
Consensus pattern (14 bp):
TTTAGGGGTTAGAG
Found at i:46469 original size:36 final size:35
Alignment explanation
Indices: 46378--46636 Score: 205
Period size: 37 Copynumber: 7.2 Consensus size: 35
46368 TGAAAATACG
* *
46378 TATATAATATATAGTTTCTAAAA-ACCTTTTGAAAA
1 TATATAATATATAGTTTTTAAAATA-TTTTTGAAAA
46413 TGAATATAATATAT-GATTTTTAAAATATTTTTGAAAA
1 T--ATATAATATATAG-TTTTTAAAATATTTTTGAAAA
* *
46450 CTGTATAATATATAGTTTTTAAAATATTTTAAGAAAA
1 -TATATAATATATAGTTTTTAAAATATTTT-TGAAAA
*
46487 TATATAATATATGATTTTTTAAAATCA-TTTTGAAAA
1 TATATAATATAT-AGTTTTTAAAAT-ATTTTTGAAAA
* * *
46523 CTTACATAATATATAATTTTTGAAAACATTTTTGAAAA
1 --TATATAATATATAGTTTTT-AAAATATTTTTGAAAA
*
46561 TTTATATAATATAT-GATTATTAAAAATATTTTTG--AA
1 --TATATAATATATAG-TT-TTTAAAATATTTTTGAAAA
46597 -A-AT--TATATAGTTTTTAAAAATATTTTTTGAAAA
1 TATATAATATATAGTTTTT-AAAATA-TTTTTGAAAA
46630 TCATATA
1 T-ATATA
46637 GTTTAAAAAA
Statistics
Matches: 184, Mismatches: 16, Indels: 46
0.75 0.07 0.19
Matches are distributed among these distances:
29 2 0.01
30 13 0.07
31 7 0.04
32 2 0.01
33 3 0.02
35 2 0.01
36 46 0.25
37 55 0.30
38 52 0.28
39 2 0.01
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.45
Consensus pattern (35 bp):
TATATAATATATAGTTTTTAAAATATTTTTGAAAA
Found at i:46532 original size:38 final size:38
Alignment explanation
Indices: 46378--46605 Score: 224
Period size: 38 Copynumber: 6.2 Consensus size: 38
46368 TGAAAATACG
* * *
46378 TATATAATATAT-AGTTTCTAAAA-ACCTTTTGAAAA-T
1 TATATAATATATGATTTTTTAAAATA-TTTTTGAAAACT
*
46414 GAATATAATATATGA-TTTTTAAAATATTTTTGAAAAC-
1 -TATATAATATATGATTTTTTAAAATATTTTTGAAAACT
* * *
46451 TGTATAATATAT-AGTTTTTAAAATATTTTAAGAAAA--
1 TATATAATATATGATTTTTTAAAATATTTT-TGAAAACT
46487 TATATAATATATGATTTTTTAAAATCA-TTTTGAAAACT
1 TATATAATATATGATTTTTTAAAAT-ATTTTTGAAAACT
* * * * *
46525 TACATAATATATAATTTTTGAAAACATTTTTGAAAATT
1 TATATAATATATGATTTTTTAAAATATTTTTGAAAACT
* *
46563 TATATAATATATGATTATTAAAAATATTTTTGAAAA-T
1 TATATAATATATGATTTTTTAAAATATTTTTGAAAACT
46600 TATATA
1 TATATA
46606 GTTTTTAAAA
Statistics
Matches: 162, Mismatches: 19, Indels: 20
0.81 0.09 0.10
Matches are distributed among these distances:
35 1 0.01
36 41 0.25
37 55 0.34
38 65 0.40
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.45
Consensus pattern (38 bp):
TATATAATATATGATTTTTTAAAATATTTTTGAAAACT
Found at i:46543 original size:74 final size:74
Alignment explanation
Indices: 46380--46598 Score: 252
Period size: 73 Copynumber: 3.0 Consensus size: 74
46370 AAAATACGTA
* * * * *
46380 TATAATATATAGTTTCTAAAAACCTTTT-GAAAATGAATATAATATATGA-TTTTTAAAATATTT
1 TATAATATATAATTTTTGAAAACATTTTAGAAAAT-TATATAATATATGATTTTTTAAAATATTT
46443 TTGAAAACTG
65 TTGAAAACTG
* *
46453 TATAATATATAGTTTTT-AAAATATTTTAAGAAAA-TATATAATATATGATTTTTTAAAATCA-T
1 TATAATATATAATTTTTGAAAACATTTT-AGAAAATTATATAATATATGATTTTTTAAAAT-ATT
46515 TTTGAAAACT-
64 TTTGAAAACTG
* * *
46525 TACATAATATATAATTTTTGAAAACATTTTTGAAAATTTATATAATATATGATTATTAAAAATAT
1 T--ATAATATATAATTTTTGAAAACATTTTAGAAAA-TTATATAATATATGATTTTTTAAAATAT
46590 TTTTGAAAA
63 TTTTGAAAA
46599 TTATATAGTT
Statistics
Matches: 127, Mismatches: 9, Indels: 17
0.83 0.06 0.11
Matches are distributed among these distances:
72 22 0.17
73 37 0.29
74 26 0.20
75 10 0.08
76 32 0.25
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.44
Consensus pattern (74 bp):
TATAATATATAATTTTTGAAAACATTTTAGAAAATTATATAATATATGATTTTTTAAAATATTTT
TGAAAACTG
Found at i:46570 original size:31 final size:30
Alignment explanation
Indices: 46532--46667 Score: 101
Period size: 31 Copynumber: 4.2 Consensus size: 30
46522 ACTTACATAA
*
46532 TATATAATTTTTGAAAACATTTTTGAAAATTT
1 TATATAATTTTTAAAAACATTTTTGAAAA--T
*
46564 ATATAATATATGATTATTAAAAATATTTTTGAAAAT
1 -TAT-ATA-AT--TT-TTAAAAACATTTTTGAAAAT
* *
46600 TATATAGTTTTTAAAAATATTTTTTGAAAAT
1 TATATAATTTTTAAAAACA-TTTTTGAAAAT
* * ** *
46631 CATATAGTTTAAAAAAACATTTTTAAAAATT
1 TATATAATTTTTAAAAACATTTTTGAAAA-T
46662 TATATA
1 TATATA
46668 TAATATATAG
Statistics
Matches: 87, Mismatches: 9, Indels: 16
0.78 0.08 0.14
Matches are distributed among these distances:
30 18 0.21
31 34 0.39
33 4 0.05
34 6 0.07
35 5 0.06
36 1 0.01
37 2 0.02
38 17 0.20
ACGTcount: A:0.46, C:0.02, G:0.05, T:0.46
Consensus pattern (30 bp):
TATATAATTTTTAAAAACATTTTTGAAAAT
Found at i:46653 original size:29 final size:30
Alignment explanation
Indices: 46590--46658 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 30
46580 TTAAAAATAT
* * **
46590 TTTTGAAAATTATATAGTTTTTAAAAATATT
1 TTTTGAAAATCATATAG-TTTTAAAAAAACA
46621 TTTTGAAAATCATATAG-TTTAAAAAAACA
1 TTTTGAAAATCATATAGTTTTAAAAAAACA
*
46650 TTTTTAAAA
1 TTTTGAAAA
46659 ATTTATATAT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
29 17 0.52
31 16 0.48
ACGTcount: A:0.46, C:0.03, G:0.06, T:0.45
Consensus pattern (30 bp):
TTTTGAAAATCATATAGTTTTAAAAAAACA
Found at i:47100 original size:21 final size:23
Alignment explanation
Indices: 47074--47118 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
47064 ACCACAGTAC
*
47074 ATCGAG-AAACAACAG-ACCACA
1 ATCGAGTAAACAAAAGAACCACA
*
47095 ATCGAGTACACAAAAGAACCACA
1 ATCGAGTAAACAAAAGAACCACA
47118 A
1 A
47119 CCATCACACT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 6 0.30
22 7 0.35
23 7 0.35
ACGTcount: A:0.53, C:0.27, G:0.13, T:0.07
Consensus pattern (23 bp):
ATCGAGTAAACAAAAGAACCACA
Found at i:48894 original size:28 final size:28
Alignment explanation
Indices: 48852--48911 Score: 95
Period size: 29 Copynumber: 2.1 Consensus size: 28
48842 ATGCAATGTC
48852 ATTGCTTTATCTGTT-TCCTTATAAAGG
1 ATTGCTTTATCTGTTGTCCTTATAAAGG
*
48879 ATTGCTGTTGTCTGTTGTCCTTATAAAGG
1 ATTGCT-TTATCTGTTGTCCTTATAAAGG
48908 ATTG
1 ATTG
48912 TTGGTGTTGT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
27 6 0.20
28 8 0.27
29 16 0.53
ACGTcount: A:0.20, C:0.13, G:0.20, T:0.47
Consensus pattern (28 bp):
ATTGCTTTATCTGTTGTCCTTATAAAGG
Found at i:58562 original size:24 final size:24
Alignment explanation
Indices: 58534--58580 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
58524 TTAATCATTA
58534 ATTTAAATTCAAGAAAAAAAAATT
1 ATTTAAATTCAAGAAAAAAAAATT
* *
58558 ATTTAAATTCGAGAAGAAAAAAT
1 ATTTAAATTCAAGAAAAAAAAAT
58581 AGTAAACGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.60, C:0.04, G:0.09, T:0.28
Consensus pattern (24 bp):
ATTTAAATTCAAGAAAAAAAAATT
Found at i:65577 original size:15 final size:16
Alignment explanation
Indices: 65557--65590 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
65547 AACAACTTAG
65557 GTTTATAGCCCAAT-T
1 GTTTATAGCCCAATAT
*
65572 GTTTATAGCTCAATAT
1 GTTTATAGCCCAATAT
65588 GTT
1 GTT
65591 GATAAACTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.44
Consensus pattern (16 bp):
GTTTATAGCCCAATAT
Found at i:66014 original size:16 final size:16
Alignment explanation
Indices: 65993--66037 Score: 81
Period size: 16 Copynumber: 2.8 Consensus size: 16
65983 GAGTCTCCAA
65993 CGTTTATGTTCGTGTT
1 CGTTTATGTTCGTGTT
*
66009 CGTTTATATTCGTGTT
1 CGTTTATGTTCGTGTT
66025 CGTTTATGTTCGT
1 CGTTTATGTTCGT
66038 TTATTTATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.09, C:0.13, G:0.22, T:0.56
Consensus pattern (16 bp):
CGTTTATGTTCGTGTT
Found at i:68770 original size:16 final size:17
Alignment explanation
Indices: 68736--68770 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
68726 ACTCAAGTCG
*
68736 TAAAATTATTATTATTT
1 TAAAATTATTATAATTT
68753 TAAAATTA-TATAATTT
1 TAAAATTATTATAATTT
68769 TA
1 TA
68771 TTTGTGATCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
TAAAATTATTATAATTT
Found at i:68951 original size:17 final size:17
Alignment explanation
Indices: 68919--68952 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
68909 TATTTATGAT
*
68919 TTAAATAATAATAATAA
1 TTAAATAATAACAATAA
*
68936 TTAAATAATTACAATAA
1 TTAAATAATAACAATAA
68953 AATTAATTAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (17 bp):
TTAAATAATAACAATAA
Found at i:70721 original size:11 final size:12
Alignment explanation
Indices: 70694--70720 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
70684 TTAAATTATA
70694 TTTTATTGATTT
1 TTTTATTGATTT
70706 TTTTATTGATTT
1 TTTTATTGATTT
70718 TTT
1 TTT
70721 AAATTTTGAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.15, C:0.00, G:0.07, T:0.78
Consensus pattern (12 bp):
TTTTATTGATTT
Done.