Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005492.1 Hibiscus syriacus cultivar Beakdansim tig00012636_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: 61646
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Found at i:8566 original size:33 final size:33
Alignment explanation
Indices: 8499--8566 Score: 93
Period size: 33 Copynumber: 2.1 Consensus size: 33
8489 TATCAATCCA
* *
8499 TTCTTCAATTTATTTAAAATTCTTTAATTTTTC
1 TTCTTCAATTTATTTAAAATTCTTTAAGTATTC
*
8532 TTCTTTAATTTA-TTAAATATTCTTTAAGTATTC
1 TTCTTCAATTTATTTAAA-ATTCTTTAAGTATTC
8565 TT
1 TT
8567 TTCCATACCA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
32 5 0.16
33 26 0.84
ACGTcount: A:0.28, C:0.10, G:0.01, T:0.60
Consensus pattern (33 bp):
TTCTTCAATTTATTTAAAATTCTTTAAGTATTC
Found at i:9238 original size:33 final size:33
Alignment explanation
Indices: 9201--9281 Score: 162
Period size: 33 Copynumber: 2.5 Consensus size: 33
9191 AATGTTGAGC
9201 ATGTTGATGTTGATATAGTTGATAAGGCTAATA
1 ATGTTGATGTTGATATAGTTGATAAGGCTAATA
9234 ATGTTGATGTTGATATAGTTGATAAGGCTAATA
1 ATGTTGATGTTGATATAGTTGATAAGGCTAATA
9267 ATGTTGATGTTGATA
1 ATGTTGATGTTGATA
9282 ATGCTAATGC
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 48 1.00
ACGTcount: A:0.32, C:0.02, G:0.25, T:0.41
Consensus pattern (33 bp):
ATGTTGATGTTGATATAGTTGATAAGGCTAATA
Found at i:9241 original size:18 final size:18
Alignment explanation
Indices: 9218--9274 Score: 59
Period size: 18 Copynumber: 3.3 Consensus size: 18
9208 TGTTGATATA
9218 GTTGATAAGGCTAATAAT
1 GTTGATAAGGCTAATAAT
* *
9236 GTTGAT---GTTGAT-AT
1 GTTGATAAGGCTAATAAT
9250 AGTTGATAAGGCTAATAAT
1 -GTTGATAAGGCTAATAAT
9269 GTTGAT
1 GTTGAT
9275 GTTGATAATG
Statistics
Matches: 30, Mismatches: 4, Indels: 10
0.68 0.09 0.23
Matches are distributed among these distances:
14 2 0.07
15 10 0.33
18 16 0.53
19 2 0.07
ACGTcount: A:0.33, C:0.04, G:0.25, T:0.39
Consensus pattern (18 bp):
GTTGATAAGGCTAATAAT
Found at i:10255 original size:20 final size:21
Alignment explanation
Indices: 10214--10256 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
10204 AATCAGATTG
10214 CCCAGGGGGTACAGATTCCCC
1 CCCAGGGGGTACAGATTCCCC
*
10235 CCCAGGGGGTACCGATTCCCC
1 CCCAGGGGGTACAGATTCCCC
10256 C
1 C
10257 ATGTCTAACG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.42, G:0.28, T:0.14
Consensus pattern (21 bp):
CCCAGGGGGTACAGATTCCCC
Found at i:10670 original size:34 final size:34
Alignment explanation
Indices: 10605--10707 Score: 149
Period size: 34 Copynumber: 3.1 Consensus size: 34
10595 TTTTGTAAAG
* *
10605 GGGAAAGGTTCTATCTTAG-CCATGTAAAAGCTA
1 GGGAAAGGTTCTAGCTTAGCCCGTGTAAAAGCTA
10638 GGGAAAGGTTCTAGCTTAGCCCGTGTAAAAGCTA
1 GGGAAAGGTTCTAGCTTAGCCCGTGTAAAAGCTA
* *
10672 GGGAAAGGTTCTAGTTTAGCCCG-G-AAAAACTA
1 GGGAAAGGTTCTAGCTTAGCCCGTGTAAAAGCTA
10704 GGGA
1 GGGA
10708 GTTTGTAAGG
Statistics
Matches: 65, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
32 11 0.17
33 19 0.29
34 35 0.54
ACGTcount: A:0.32, C:0.16, G:0.29, T:0.23
Consensus pattern (34 bp):
GGGAAAGGTTCTAGCTTAGCCCGTGTAAAAGCTA
Found at i:13013 original size:18 final size:19
Alignment explanation
Indices: 12990--13034 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
12980 CAAGAAAAAT
*
12990 CAGATT-ACCCAGGGGGTA
1 CAGATTCACCCAGGGGGAA
*
13008 CAGATTCCCCCCAGGGGGAA
1 CAGATT-CACCCAGGGGGAA
13028 CAGATTC
1 CAGATTC
13035 CCCCCCATGG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 6 0.26
19 1 0.04
20 16 0.70
ACGTcount: A:0.27, C:0.29, G:0.29, T:0.16
Consensus pattern (19 bp):
CAGATTCACCCAGGGGGAA
Found at i:13022 original size:20 final size:20
Alignment explanation
Indices: 12997--13060 Score: 92
Period size: 20 Copynumber: 3.1 Consensus size: 20
12987 AATCAGATTA
12997 CCCAGGGGGTACAGATTCCC
1 CCCAGGGGGTACAGATTCCC
*
13017 CCCAGGGGGAACAGATTCCCC
1 CCCAGGGGGTACAGATT-CCC
* *
13038 CCCATGGGGTACCGATTCCC
1 CCCAGGGGGTACAGATTCCC
13058 CCC
1 CCC
13061 TGTCTAACGG
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
20 22 0.56
21 17 0.44
ACGTcount: A:0.19, C:0.41, G:0.27, T:0.14
Consensus pattern (20 bp):
CCCAGGGGGTACAGATTCCC
Found at i:13038 original size:21 final size:21
Alignment explanation
Indices: 12997--13060 Score: 94
Period size: 21 Copynumber: 3.1 Consensus size: 21
12987 AATCAGATTA
12997 CCCAGGGGGTACAGATT-CCC
1 CCCAGGGGGTACAGATTCCCC
*
13017 CCCAGGGGGAACAGATTCCCC
1 CCCAGGGGGTACAGATTCCCC
* *
13038 CCCATGGGGTACCGATTCCCC
1 CCCAGGGGGTACAGATTCCCC
13059 CC
1 CC
13061 TGTCTAACGG
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
20 16 0.41
21 23 0.59
ACGTcount: A:0.19, C:0.41, G:0.27, T:0.14
Consensus pattern (21 bp):
CCCAGGGGGTACAGATTCCCC
Found at i:13499 original size:34 final size:34
Alignment explanation
Indices: 13409--13512 Score: 151
Period size: 34 Copynumber: 3.1 Consensus size: 34
13399 TTTTGTAAAG
*
13409 GGGAAAGGTTCTA-TCTTAGCCCATGTAAAATCTA
1 GGGAAAGGTTCTAGT-TTAGCCCGTGTAAAATCTA
*
13443 GGGAAAGGTTCTAGCTTAGCCCGTGTAAAATCTA
1 GGGAAAGGTTCTAGTTTAGCCCGTGTAAAATCTA
*
13477 GGGAAAGGTTCTAGTTTAGCCCG-G-AAAAGCTA
1 GGGAAAGGTTCTAGTTTAGCCCGTGTAAAATCTA
13509 GGGA
1 GGGA
13513 GTTTGTAAGG
Statistics
Matches: 65, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
32 11 0.17
33 1 0.02
34 53 0.82
ACGTcount: A:0.31, C:0.16, G:0.28, T:0.25
Consensus pattern (34 bp):
GGGAAAGGTTCTAGTTTAGCCCGTGTAAAATCTA
Found at i:16424 original size:20 final size:20
Alignment explanation
Indices: 16396--16438 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
16386 CCAAATTTTT
*
16396 AACGTGAATCTGTAAATCGC
1 AACGCGAATCTGTAAATCGC
*
16416 AACGCGAATTTGTAAATCGC
1 AACGCGAATCTGTAAATCGC
16436 AAC
1 AAC
16439 ACATAAGTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.23
Consensus pattern (20 bp):
AACGCGAATCTGTAAATCGC
Found at i:16455 original size:20 final size:20
Alignment explanation
Indices: 16432--16637 Score: 149
Period size: 20 Copynumber: 10.3 Consensus size: 20
16422 AATTTGTAAA
*
16432 TCGCAACACATAAGTTAAAT
1 TCGCAACACATAAGTCAAAT
*
16452 TCGCAACGCGAT-AGTCAAAT
1 TCGCAACAC-ATAAGTCAAAT
* *
16472 TCACAACGCGAT-AGTCAAAT
1 TCGCAACAC-ATAAGTCAAAT
* **
16492 TTGCAACGTGAT-AGTCAAAT
1 TCGCAAC-ACATAAGTCAAAT
*
16512 TCGCAACAC-TGAACTCAAAT
1 TCGCAACACAT-AAGTCAAAT
16532 TCGCAACAC-TGAAGTCAAAT
1 TCGCAACACAT-AAGTCAAAT
* * **
16552 TCACAACGCGAATTTGT-AAA-
1 TCGCAACAC--ATAAGTCAAAT
*
16572 TCGCAACACAAAAGTCAAAT
1 TCGCAACACATAAGTCAAAT
*
16592 TCACAACACATAAGTCAAAT
1 TCGCAACACATAAGTCAAAT
*
16612 TCGCAACGCGAT-AGTCAAAT
1 TCGCAACAC-ATAAGTCAAAT
16632 TCGCAA
1 TCGCAA
16638 AGCGTATTTA
Statistics
Matches: 151, Mismatches: 25, Indels: 20
0.77 0.13 0.10
Matches are distributed among these distances:
18 4 0.03
19 3 0.02
20 134 0.89
21 7 0.05
22 2 0.01
23 1 0.01
ACGTcount: A:0.41, C:0.24, G:0.14, T:0.21
Consensus pattern (20 bp):
TCGCAACACATAAGTCAAAT
Found at i:16492 original size:40 final size:40
Alignment explanation
Indices: 16435--16633 Score: 194
Period size: 40 Copynumber: 5.0 Consensus size: 40
16425 TTGTAAATCG
*
16435 CAACAC-ATAAGTTAAATTCGCAACGCGATAGTCAAATTCA
1 CAACACGAT-AGTCAAATTCGCAACGCGATAGTCAAATTCA
* * * *
16475 CAACGCGATAGTCAAATTTGCAACGTGATAGTCAAATTCG
1 CAACACGATAGTCAAATTCGCAACGCGATAGTCAAATTCA
* *
16515 CAACACTGA-ACTCAAATTCGCAACACTGA-AGTCAAATTCA
1 CAACAC-GATAGTCAAATTCGCAACGC-GATAGTCAAATTCA
* * * * *
16555 CAACGCGAATTTGT-AAA-TCGCAACACAAAAGTCAAATTCA
1 CAACACG-A-TAGTCAAATTCGCAACGCGATAGTCAAATTCA
16595 CAACAC-ATAAGTCAAATTCGCAACGCGATAGTCAAATTC
1 CAACACGAT-AGTCAAATTCGCAACGCGATAGTCAAATTC
16634 GCAAAGCGTA
Statistics
Matches: 129, Mismatches: 20, Indels: 20
0.76 0.12 0.12
Matches are distributed among these distances:
37 1 0.01
38 3 0.02
39 5 0.04
40 110 0.85
41 9 0.07
42 1 0.01
ACGTcount: A:0.41, C:0.24, G:0.14, T:0.22
Consensus pattern (40 bp):
CAACACGATAGTCAAATTCGCAACGCGATAGTCAAATTCA
Found at i:16513 original size:60 final size:59
Alignment explanation
Indices: 16448--16637 Score: 208
Period size: 60 Copynumber: 3.2 Consensus size: 59
16438 CACATAAGTT
* * * *
16448 AAATTCGCAACGCGATAGTCAAATTCACAACGCGATAGTCAAATTTGCAACGTGATAGTC
1 AAATTCGCAACACGA-AGTCAAATTCACAACACGATAGTCAAATTCGCAACGCGATAGTC
* * * *
16508 AAATTCGCAACACTGAACTCAAATTCGCAACACTGA-AGTCAAATTCACAACGCGAATTTGT-
1 AAATTCGCAACAC-GAAGTCAAATTCACAACAC-GATAGTCAAATTCGCAACGCG-A-TAGTC
*
16569 AAA-TCGCAACACAAAAGTCAAATTCACAACAC-ATAAGTCAAATTCGCAACGCGATAGTC
1 AAATTCGCAACAC-GAAGTCAAATTCACAACACGAT-AGTCAAATTCGCAACGCGATAGTC
16628 AAATTCGCAA
1 AAATTCGCAA
16638 AGCGTATTTA
Statistics
Matches: 108, Mismatches: 14, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
58 4 0.04
59 4 0.04
60 89 0.82
61 8 0.07
62 3 0.03
ACGTcount: A:0.41, C:0.24, G:0.14, T:0.21
Consensus pattern (59 bp):
AAATTCGCAACACGAAGTCAAATTCACAACACGATAGTCAAATTCGCAACGCGATAGTC
Found at i:16665 original size:19 final size:20
Alignment explanation
Indices: 16631--16671 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
16621 GATAGTCAAA
*
16631 TTCGCAAAGCGTA-TTTATT
1 TTCGCAAAGCGAATTTTATT
*
16650 TTCGCAAAGTGAATTTTATT
1 TTCGCAAAGCGAATTTTATT
16670 TT
1 TT
16672 ATTTTCAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.27, C:0.12, G:0.15, T:0.46
Consensus pattern (20 bp):
TTCGCAAAGCGAATTTTATT
Found at i:16816 original size:22 final size:22
Alignment explanation
Indices: 16791--16841 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
16781 CTACGGCAAC
16791 ATCCGTCCCCATCTCCGACGAA
1 ATCCGTCCCCATCTCCGACGAA
* * *
16813 ATCCATCTCCATCTCCGGCGAA
1 ATCCGTCCCCATCTCCGACGAA
16835 ATCCGTC
1 ATCCGTC
16842 TATCTCCATC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.22, C:0.43, G:0.14, T:0.22
Consensus pattern (22 bp):
ATCCGTCCCCATCTCCGACGAA
Found at i:17214 original size:19 final size:20
Alignment explanation
Indices: 17192--17229 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
17182 ATTCGCAACG
17192 CGATTTT-AGTTTCGCGTTA
1 CGATTTTCAGTTTCGCGTTA
*
17211 CGATTTTCATTTTCGCGTT
1 CGATTTTCAGTTTCGCGTT
17230 GTGAATTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.13, C:0.18, G:0.18, T:0.50
Consensus pattern (20 bp):
CGATTTTCAGTTTCGCGTTA
Found at i:19103 original size:21 final size:21
Alignment explanation
Indices: 19057--19106 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
19047 CAATGGTGCG
* *
19057 CTACGTGATGAGGTATCTACT
1 CTACGTGATGAGGTAGCCACT
* *
19078 TTACGTGATGAGGTAGCCGCT
1 CTACGTGATGAGGTAGCCACT
19099 CTACGTGA
1 CTACGTGA
19107 GATTGTTTTA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (21 bp):
CTACGTGATGAGGTAGCCACT
Found at i:19439 original size:21 final size:21
Alignment explanation
Indices: 19415--19485 Score: 81
Period size: 21 Copynumber: 3.4 Consensus size: 21
19405 CCTCATATCA
*
19415 TTCAAGAGGTTCCTCCCACCG
1 TTCAAGAGGTCCCTCCCACCG
* ** *
19436 TTCAAGAGGCCCCTGTCATCG
1 TTCAAGAGGTCCCTCCCACCG
19457 TTCAATG-GGTCCCTCCCACCG
1 TTCAA-GAGGTCCCTCCCACCG
19478 TTCAAGAG
1 TTCAAGAG
19486 CCCGATTCAC
Statistics
Matches: 39, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
20 1 0.03
21 37 0.95
22 1 0.03
ACGTcount: A:0.20, C:0.35, G:0.21, T:0.24
Consensus pattern (21 bp):
TTCAAGAGGTCCCTCCCACCG
Found at i:19439 original size:42 final size:42
Alignment explanation
Indices: 19392--19485 Score: 120
Period size: 42 Copynumber: 2.2 Consensus size: 42
19382 CACATGTCAT
* *
19392 CGTTCAAGAGGCGCCTCAT-ATCATTCAA-GAGGTTCCTCCCAC
1 CGTTCAAGAGGCCCCT-ATCATCATTCAATG-GGTCCCTCCCAC
* *
19434 CGTTCAAGAGGCCCCTGTCATCGTTCAATGGGTCCCTCCCAC
1 CGTTCAAGAGGCCCCTATCATCATTCAATGGGTCCCTCCCAC
19476 CGTTCAAGAG
1 CGTTCAAGAG
19486 CCCGATTCAC
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
41 1 0.02
42 44 0.96
43 1 0.02
ACGTcount: A:0.21, C:0.34, G:0.21, T:0.23
Consensus pattern (42 bp):
CGTTCAAGAGGCCCCTATCATCATTCAATGGGTCCCTCCCAC
Found at i:20976 original size:66 final size:65
Alignment explanation
Indices: 20815--20990 Score: 257
Period size: 66 Copynumber: 2.6 Consensus size: 65
20805 TGGGGTACAC
*
20815 TTTTTTTGCTTGTTTAATTGAATTTTACCTTAAAAGTTGATTTGTTTAATTGATGAGGAAATAAG
1 TTTTTTTGCTTGTTTAATTG-A-TTT---GTAAAAGTTGATTTGTTTAATTGATGAGGAAATAAG
20880 AATTA
61 AATTA
*
20885 -TTTTTTGCTTGTTTAATTGATTTGTAAAAGTTGATTTGTTTAATTTGAT-ATGTAAATAAGAAT
1 TTTTTTTGCTTGTTTAATTGATTTGTAAAAGTTGATTTGTTTAA-TTGATGA-GGAAATAAGAAT
20948 TA
64 TA
20950 TTTTTTTGCTTGTTTAATTGATTTGTAAAAGTTGATTTGTT
1 TTTTTTTGCTTGTTTAATTGATTTGTAAAAGTTGATTTGTT
20991 ATTTTAAATT
Statistics
Matches: 101, Mismatches: 2, Indels: 10
0.89 0.02 0.09
Matches are distributed among these distances:
64 20 0.20
65 18 0.18
66 40 0.40
67 3 0.03
68 1 0.01
69 19 0.19
ACGTcount: A:0.28, C:0.03, G:0.16, T:0.53
Consensus pattern (65 bp):
TTTTTTTGCTTGTTTAATTGATTTGTAAAAGTTGATTTGTTTAATTGATGAGGAAATAAGAATTA
Found at i:21099 original size:20 final size:20
Alignment explanation
Indices: 21024--21092 Score: 113
Period size: 20 Copynumber: 3.5 Consensus size: 20
21014 ATTGAAGGTA
*
21024 CAAATTCGCAATGCGAAAGGT
1 CAAATTCGCAACGCGAAA-GT
21045 -AAATTCGCAACGCGAAAGT
1 CAAATTCGCAACGCGAAAGT
21064 CAAATTCGCAACGCGAAAGT
1 CAAATTCGCAACGCGAAAGT
21084 CAAATTCGC
1 CAAATTCGC
21093 GTTGCGATTT
Statistics
Matches: 46, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
19 2 0.04
20 44 0.96
ACGTcount: A:0.39, C:0.23, G:0.20, T:0.17
Consensus pattern (20 bp):
CAAATTCGCAACGCGAAAGT
Found at i:21354 original size:18 final size:18
Alignment explanation
Indices: 21331--21367 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
21321 AAGCCGGTTG
*
21331 TGATTGGGATTTTGATTT
1 TGATTGCGATTTTGATTT
21349 TGATTGCGATTTTGATTT
1 TGATTGCGATTTTGATTT
21367 T
1 T
21368 CTTTTGCTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.16, C:0.03, G:0.24, T:0.57
Consensus pattern (18 bp):
TGATTGCGATTTTGATTT
Found at i:23661 original size:24 final size:24
Alignment explanation
Indices: 23627--23704 Score: 129
Period size: 24 Copynumber: 3.2 Consensus size: 24
23617 CTGAAATATC
* *
23627 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAGTCCGGGTATTGACCAAG
23651 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAGTCCGGGTATTGACCAAG
*
23675 ATCAAAGTCTGGGTATTGACCAAG
1 ATCAAAGTCCGGGTATTGACCAAG
23699 ATCAAA
1 ATCAAA
23705 TTTCGAATAC
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 51 1.00
ACGTcount: A:0.38, C:0.19, G:0.21, T:0.22
Consensus pattern (24 bp):
ATCAAAGTCCGGGTATTGACCAAG
Found at i:23851 original size:12 final size:12
Alignment explanation
Indices: 23830--23863 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
23820 GGTTGTGGGT
*
23830 TTTGAGATTGTG
1 TTTGATATTGTG
23842 TTTGATATTGTG
1 TTTGATATTGTG
*
23854 TTTGTTATTG
1 TTTGATATTG
23864 GAAATGTGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.26, T:0.59
Consensus pattern (12 bp):
TTTGATATTGTG
Found at i:24495 original size:15 final size:17
Alignment explanation
Indices: 24458--24497 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
24448 GAAATCATTG
24458 AAAAATTATATAGAAAT
1 AAAAATTATATAGAAAT
*
24475 AAAAATTATGTA-AAA-
1 AAAAATTATATAGAAAT
24490 AAAAATTA
1 AAAAATTA
24498 GAGATAGGGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 8 0.36
16 3 0.14
17 11 0.50
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.28
Consensus pattern (17 bp):
AAAAATTATATAGAAAT
Found at i:24696 original size:19 final size:19
Alignment explanation
Indices: 24655--24727 Score: 83
Period size: 19 Copynumber: 3.7 Consensus size: 19
24645 ACTAAAACCT
* *
24655 GTTGCGAATTCGAAAATCGA
1 GTTGCGAATTTGAAATTC-A
*
24675 GTTGCAAATTTGAAATTCA
1 GTTGCGAATTTGAAATTCA
*
24694 GTTGTGAATTTGAAATTCA
1 GTTGCGAATTTGAAATTCA
24713 GTGTTGCGAATTTGA
1 --GTTGCGAATTTGA
24728 CTATCGCGTT
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
19 18 0.40
20 15 0.33
21 12 0.27
ACGTcount: A:0.32, C:0.10, G:0.23, T:0.36
Consensus pattern (19 bp):
GTTGCGAATTTGAAATTCA
Found at i:24758 original size:20 final size:19
Alignment explanation
Indices: 24694--24826 Score: 76
Period size: 20 Copynumber: 6.6 Consensus size: 19
24684 TTGAAATTCA
* *
24694 GTTGTGAATTTGAAATTCAGT
1 GTTGCGAATTTG-ACTTC-GT
*
24715 GTTGCGAATTTGACTATCGC
1 GTTGCGAATTTGACT-TCGT
24735 GTTGCGAATTTGACTTCTGT
1 GTTGCGAATTTGACTTC-GT
*
24755 GTTGCG-ATTT-ACAAATTAGT
1 GTTGCGAATTTGAC---TTCGT
24775 GTTGCG-ATTT-ACAGATTCGT
1 GTTGCGAATTTGAC---TTCGT
* *
24795 GTTGCGAATTTGGAGTTCGC
1 GTTGCGAATTT-GACTTCGT
*
24815 GTTGCAAATTTG
1 GTTGCGAATTTG
24827 TTGGTCATTT
Statistics
Matches: 94, Mismatches: 10, Indels: 18
0.77 0.08 0.15
Matches are distributed among these distances:
18 2 0.02
19 7 0.07
20 65 0.69
21 19 0.20
23 1 0.01
ACGTcount: A:0.22, C:0.13, G:0.26, T:0.40
Consensus pattern (19 bp):
GTTGCGAATTTGACTTCGT
Found at i:25041 original size:37 final size:37
Alignment explanation
Indices: 24987--25059 Score: 128
Period size: 37 Copynumber: 2.0 Consensus size: 37
24977 AGGACTTACC
* *
24987 CTAGACCACTAAGATCTAGGAGTCCAATATGGAAGAT
1 CTAGACCACTAAAATCTAGGAGTCCAATATGAAAGAT
25024 CTAGACCACTAAAATCTAGGAGTCCAATATGAAAGA
1 CTAGACCACTAAAATCTAGGAGTCCAATATGAAAGA
25060 CCAAAACATG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.41, C:0.19, G:0.19, T:0.21
Consensus pattern (37 bp):
CTAGACCACTAAAATCTAGGAGTCCAATATGAAAGAT
Found at i:25243 original size:22 final size:23
Alignment explanation
Indices: 25208--25254 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
25198 GATACCAGAC
*
25208 AATCAGAAGTTTCAGATTAGTAA
1 AATCAGAAGTTTCAGATCAGTAA
* *
25231 AATCATAA-TTTCATATCAGTAA
1 AATCAGAAGTTTCAGATCAGTAA
25253 AA
1 AA
25255 GCAAAATTCG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 14 0.67
23 7 0.33
ACGTcount: A:0.47, C:0.11, G:0.11, T:0.32
Consensus pattern (23 bp):
AATCAGAAGTTTCAGATCAGTAA
Found at i:25262 original size:22 final size:22
Alignment explanation
Indices: 25217--25262 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
25207 CAATCAGAAG
* * *
25217 TTTCAGATTAGTAAAATCATAA
1 TTTCAGATCAGTAAAAGCAAAA
*
25239 TTTCATATCAGTAAAAGCAAAA
1 TTTCAGATCAGTAAAAGCAAAA
25261 TT
1 TT
25263 CGAGAAAATC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.46, C:0.11, G:0.09, T:0.35
Consensus pattern (22 bp):
TTTCAGATCAGTAAAAGCAAAA
Found at i:27344 original size:27 final size:28
Alignment explanation
Indices: 27293--27359 Score: 127
Period size: 27 Copynumber: 2.4 Consensus size: 28
27283 AGACTGCCAG
27293 ATTGTGGGCAGTGGACGTGGAGTAGTCC
1 ATTGTGGGCAGTGGACGTGGAGTAGTCC
27321 ATTGTGGGCAGT-GACGTGGAGTAGTCC
1 ATTGTGGGCAGTGGACGTGGAGTAGTCC
27348 ATTGTGGGCAGT
1 ATTGTGGGCAGT
27360 TAGATTGAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
27 27 0.69
28 12 0.31
ACGTcount: A:0.18, C:0.13, G:0.42, T:0.27
Consensus pattern (28 bp):
ATTGTGGGCAGTGGACGTGGAGTAGTCC
Found at i:31786 original size:21 final size:21
Alignment explanation
Indices: 31757--31797 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
31747 AACGATTATT
31757 TTCGATTTAGTTATACTCACC
1 TTCGATTTAGTTATACTCACC
* * *
31778 TTCGTTTTATTTATGCTCAC
1 TTCGATTTAGTTATACTCAC
31798 TTTTTATTAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.20, C:0.22, G:0.10, T:0.49
Consensus pattern (21 bp):
TTCGATTTAGTTATACTCACC
Found at i:32285 original size:51 final size:52
Alignment explanation
Indices: 32205--32338 Score: 155
Period size: 52 Copynumber: 2.6 Consensus size: 52
32195 AAAATTGTAG
* * * * *
32205 CACTTAACACATA-TTTGCACCGTTATAAGTGAATAAAAT-AAACAAGTATAT
1 CACTTAACACATACTTT-CACCGATGTAAGTAAATAAAATAAAAAAAGTATAA
* *
32256 CACTTAACACATACTTTCACCGGTGTAAGTAAATAAAATAAAAAAAGTGTAA
1 CACTTAACACATACTTTCACCGATGTAAGTAAATAAAATAAAAAAAGTATAA
* * *
32308 CACTTAACGCATACTTACACTGATGTAAGTA
1 CACTTAACACATACTTTCACCGATGTAAGTA
32339 TGTGCATATA
Statistics
Matches: 71, Mismatches: 10, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
51 32 0.45
52 39 0.55
ACGTcount: A:0.44, C:0.17, G:0.11, T:0.28
Consensus pattern (52 bp):
CACTTAACACATACTTTCACCGATGTAAGTAAATAAAATAAAAAAAGTATAA
Found at i:32335 original size:52 final size:51
Alignment explanation
Indices: 32193--32338 Score: 157
Period size: 51 Copynumber: 2.8 Consensus size: 51
32183 TTCATACGAC
* * * * * * *
32193 AAAAAATTGTAGCACTTAACACATATTTGCACCGTTATAAGTGAATAAAAT
1 AAAAAAGTGTAACACTTAACACATACTTACACCGATGTAAGTAAATAAAAT
* * * * *
32244 AAACAAGTATATCACTTAACACATACTTTCACCGGTGTAAGTAAATAAAAT
1 AAAAAAGTGTAACACTTAACACATACTTACACCGATGTAAGTAAATAAAAT
* *
32295 AAAAAAAGTGTAACACTTAACGCATACTTACACTGATGTAAGTA
1 -AAAAAAGTGTAACACTTAACACATACTTACACCGATGTAAGTA
32339 TGTGCATATA
Statistics
Matches: 78, Mismatches: 16, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
51 42 0.54
52 36 0.46
ACGTcount: A:0.45, C:0.16, G:0.12, T:0.27
Consensus pattern (51 bp):
AAAAAAGTGTAACACTTAACACATACTTACACCGATGTAAGTAAATAAAAT
Found at i:33532 original size:22 final size:20
Alignment explanation
Indices: 33472--33534 Score: 90
Period size: 20 Copynumber: 3.0 Consensus size: 20
33462 ATATTAAATT
*
33472 TATCAAAGATTTTTTATACT
1 TATCAAAGATTTTTTATACA
33492 TATCAAAGATTTTTTATACA
1 TATCAAAGATTTTTTATACA
*
33512 TATCAAAAATATTATTTATACA
1 TATCAAAGAT-TT-TTTATACA
33534 T
1 T
33535 TATAATTAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
20 28 0.72
21 2 0.05
22 9 0.23
ACGTcount: A:0.41, C:0.10, G:0.03, T:0.46
Consensus pattern (20 bp):
TATCAAAGATTTTTTATACA
Found at i:39468 original size:38 final size:35
Alignment explanation
Indices: 39397--39478 Score: 83
Period size: 38 Copynumber: 2.3 Consensus size: 35
39387 TTATTTATTT
* * **
39397 AATATTAATTTAATATATTAGTATTATTTTAATAA
1 AATATTAATTTAAAATATTAATATTATCATAATAA
*
39432 AATATTAATCATTAAAATATTTAATATTATCATAATAT
1 AATATTAAT--TTAAAATA-TTAATATTATCATAATAA
*
39470 AATTTTAAT
1 AATATTAAT
39479 AATATTATAT
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
35 9 0.24
37 7 0.18
38 22 0.58
ACGTcount: A:0.48, C:0.02, G:0.01, T:0.49
Consensus pattern (35 bp):
AATATTAATTTAAAATATTAATATTATCATAATAA
Found at i:40124 original size:14 final size:14
Alignment explanation
Indices: 40105--40132 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
40095 TCGATTATAT
40105 GTTCATTTATGTTC
1 GTTCATTTATGTTC
40119 GTTCATTTATGTTC
1 GTTCATTTATGTTC
40133 ATTTATATTC
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:0.14, C:0.14, G:0.14, T:0.57
Consensus pattern (14 bp):
GTTCATTTATGTTC
Found at i:40422 original size:13 final size:12
Alignment explanation
Indices: 40408--40477 Score: 58
Period size: 13 Copynumber: 5.8 Consensus size: 12
40398 TGTGTTTGTG
40408 TTGTTCGTTTA-
1 TTGTTCGTTTAT
40419 -TGTTCGTTTAT
1 TTGTTCGTTTAT
40430 TGTGTTCGTTTA-
1 T-TGTTCGTTTAT
**
40442 -TGTTAATTTAT
1 TTGTTCGTTTAT
40453 TATGTTCGTTTAT
1 T-TGTTCGTTTAT
40466 GTTCGTTCGTTT
1 -TT-GTTCGTTT
40478 GTGTTCGTTT
Statistics
Matches: 47, Mismatches: 4, Indels: 13
0.73 0.06 0.20
Matches are distributed among these distances:
10 18 0.38
13 20 0.43
14 9 0.19
ACGTcount: A:0.11, C:0.09, G:0.19, T:0.61
Consensus pattern (12 bp):
TTGTTCGTTTAT
Found at i:40424 original size:10 final size:10
Alignment explanation
Indices: 40409--40472 Score: 56
Period size: 10 Copynumber: 5.8 Consensus size: 10
40399 GTGTTTGTGT
40409 TGTTCGTTTA
1 TGTTCGTTTA
40419 TGTTCGTTTA
1 TGTTCGTTTA
40429 TTGTGTTCGTTTA
1 ---TGTTCGTTTA
**
40442 TGTTAATTTATTA
1 TGTT--CGT-TTA
40455 TGTTCGTTTA
1 TGTTCGTTTA
40465 TGTTCGTT
1 TGTTCGTT
40473 CGTTTGTGTT
Statistics
Matches: 44, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
10 25 0.57
11 1 0.02
12 1 0.02
13 17 0.39
ACGTcount: A:0.12, C:0.08, G:0.19, T:0.61
Consensus pattern (10 bp):
TGTTCGTTTA
Found at i:40435 original size:23 final size:23
Alignment explanation
Indices: 40409--40499 Score: 121
Period size: 23 Copynumber: 3.9 Consensus size: 23
40399 GTGTTTGTGT
40409 TGTTCGTTTATGTTCGTTTATTG
1 TGTTCGTTTATGTTCGTTTATTG
** *
40432 TGTTCGTTTATGTTAATTTATTA
1 TGTTCGTTTATGTTCGTTTATTG
40455 TGTTCGTTTATGTTCGTTCGT-TTG
1 TGTTCGTTTATGTTCGTT--TATTG
*
40479 TGTTCGTTTACGTTCGTTTAT
1 TGTTCGTTTATGTTCGTTTAT
40500 CATTTAAATG
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
22 1 0.02
23 37 0.64
24 19 0.33
25 1 0.02
ACGTcount: A:0.11, C:0.10, G:0.20, T:0.59
Consensus pattern (23 bp):
TGTTCGTTTATGTTCGTTTATTG
Found at i:40475 original size:14 final size:14
Alignment explanation
Indices: 40456--40486 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
40446 AATTTATTAT
40456 GTTCGTTTATGTTC
1 GTTCGTTTATGTTC
*
40470 GTTCGTTTGTGTTC
1 GTTCGTTTATGTTC
40484 GTT
1 GTT
40487 TACGTTCGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.03, C:0.13, G:0.26, T:0.58
Consensus pattern (14 bp):
GTTCGTTTATGTTC
Found at i:40598 original size:16 final size:16
Alignment explanation
Indices: 40574--40606 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
40564 AAAAAAAATT
40574 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
*
40590 TGTTTGTTTATGTTCG
1 TGTTCGTTTATGTTCG
40606 T
1 T
40607 TTATTTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.06, C:0.09, G:0.24, T:0.61
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:40880 original size:30 final size:27
Alignment explanation
Indices: 40836--40895 Score: 75
Period size: 30 Copynumber: 2.1 Consensus size: 27
40826 TATTATGTTT
*
40836 AATATATAATTATTTTATAAGATTTTTTA
1 AATATATAATTATTTTA-AAG-TATTTTA
*
40865 AATATAATTATTATTTTAAAGTATTTTA
1 AATAT-ATAATTATTTTAAAGTATTTTA
40893 AAT
1 AAT
40896 TTTACCAACC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 9 0.32
29 8 0.29
30 11 0.39
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.53
Consensus pattern (27 bp):
AATATATAATTATTTTAAAGTATTTTA
Found at i:50882 original size:15 final size:15
Alignment explanation
Indices: 50813--50885 Score: 53
Period size: 15 Copynumber: 4.9 Consensus size: 15
50803 TTTAAATAGT
* *
50813 TATTATTTTTTATAT
1 TATTATTATTTATAA
*
50828 TAATATATTATGTA-AA
1 T-AT-TATTATTTATAA
50844 TATTATT-TTTATTAA
1 TATTATTATTTA-TAA
* *
50859 -AATAATATTTATAA
1 TATTATTATTTATAA
50873 TATTATTATTTAT
1 TATTATTATTTAT
50886 TTAGAATTAT
Statistics
Matches: 44, Mismatches: 8, Indels: 12
0.69 0.12 0.19
Matches are distributed among these distances:
13 3 0.07
14 11 0.25
15 19 0.43
16 4 0.09
17 7 0.16
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (15 bp):
TATTATTATTTATAA
Found at i:51049 original size:17 final size:17
Alignment explanation
Indices: 51027--51080 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 17
51017 AATGTTAATA
51027 TTTAAATTTATTTTTAT
1 TTTAAATTTATTTTTAT
* * * *
51044 TTTAAAGTTATTATGAA
1 TTTAAATTTATTTTTAT
* *
51061 TTTATATTAATTTTTAT
1 TTTAAATTTATTTTTAT
51078 TTT
1 TTT
51081 TATAATATAT
Statistics
Matches: 27, Mismatches: 10, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (17 bp):
TTTAAATTTATTTTTAT
Found at i:52678 original size:21 final size:21
Alignment explanation
Indices: 52652--52724 Score: 112
Period size: 21 Copynumber: 3.5 Consensus size: 21
52642 TATGCCATCT
*
52652 CCGCAGGGTTACATTCCGAGC
1 CCGCAGGGTTACATTCCTAGC
52673 CCGCAGGGTTACATTCCTAGC
1 CCGCAGGGTTACATTCCTAGC
*
52694 CCGCCA-GGTTACATGCCTAGC
1 CCG-CAGGGTTACATTCCTAGC
52715 CCGCAGGGTT
1 CCGCAGGGTT
52725 TTATACCATA
Statistics
Matches: 48, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
20 2 0.04
21 44 0.92
22 2 0.04
ACGTcount: A:0.18, C:0.34, G:0.27, T:0.21
Consensus pattern (21 bp):
CCGCAGGGTTACATTCCTAGC
Found at i:53326 original size:32 final size:33
Alignment explanation
Indices: 53238--53335 Score: 119
Period size: 33 Copynumber: 3.0 Consensus size: 33
53228 GATAAATGTT
*
53238 TTTAAAATACAAATTATATTATTCGAAATTTAAA
1 TTTAAAATA-AAATTATATTATTCAAAATTTAAA
* *
53272 -ATAAAATAAAAATAATATTATTC-AAATTTAAA
1 TTTAAAAT-AAAATTATATTATTCAAAATTTAAA
* *
53304 TTTAAAATATAATTATAGTATTCAAAATTTAA
1 TTTAAAATAAAATTATATTATTCAAAATTTAA
53336 CATTAAATTT
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
32 21 0.38
33 33 0.60
34 1 0.02
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.40
Consensus pattern (33 bp):
TTTAAAATAAAATTATATTATTCAAAATTTAAA
Found at i:53982 original size:127 final size:128
Alignment explanation
Indices: 53733--54482 Score: 1257
Period size: 126 Copynumber: 5.9 Consensus size: 128
53723 TTACCTGATT
53733 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
* * **** *
53798 TGACGAAATAACGGAAGGCGCG-CCCTGGGAACGCGCCTTCATGCCCCCT-GAGAAATAATAGG
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATG-TGAATAGTGAAATAATAGG
53860 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
* ****
53925 TGACGAAATAATGGAAGGCGCGCCCCCAGGAACGCGCCTTCATGT--CCCCTGAGAATAATAGG
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGA-AATAATAGG
53987 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
* *
54052 TAACGAAATAATGGAAGGCGCGCCCCCGGGAACGCACCTTCATGTGAATAGTGAAATAATAGG
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
54115 TACTG--ATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
*
54178 TGATGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
54241 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
*
54306 TGACGAAATAATGGAAGACGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
54369 TACTG--ATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
* *
54432 TGACGAAATAATGGAATGCGC-ACCCCGGGAACGCGCCTTCATGTGAATAGT
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGT
54483 ACTCCGATTA
Statistics
Matches: 594, Mismatches: 22, Indels: 16
0.94 0.03 0.03
Matches are distributed among these distances:
125 30 0.05
126 202 0.34
127 202 0.34
128 157 0.26
129 3 0.01
ACGTcount: A:0.32, C:0.21, G:0.25, T:0.23
Consensus pattern (128 bp):
TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
Found at i:54238 original size:254 final size:255
Alignment explanation
Indices: 53733--54482 Score: 1269
Period size: 254 Copynumber: 3.0 Consensus size: 255
53723 TTACCTGATT
53733 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
* * **** *
53798 TGACGAAATAACGGAAGGCGCG-CCCTGGGAACGCGCCTTCATGCCCCCT-GAGAAATAATAGGT
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATG-TGAATAGTGAAATAATAGGT
53861 ACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCT
130 ACTG--ATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCT
* ****
53926 GACGAAATAATGGAAGGCGCGCCCCCAGGAACGCGCCTTCATGT--CCCCTGAGAATAATAGG
193 GACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAGAATAATAGG
53987 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
* *
54052 TAACGAAATAATGGAAGGCGCGCCCCCGGGAACGCACCTTCATGTGAATAGTGAAATAATAGGTA
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTA
*
54117 CTGATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGAT
131 CTGATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGAC
54182 GAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGA-AATAATAGG
196 GAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAGAATAATAGG
54241 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
*
54306 TGACGAAATAATGGAAGACGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTA
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTA
54371 CTGATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGAC
131 CTGATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGAC
* *
54436 GAAATAATGGAATGCGC-ACCCCGGGAACGCGCCTTCATGTGAATAGT
196 GAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGT
54483 ACTCCGATTA
Statistics
Matches: 471, Mismatches: 21, Indels: 9
0.94 0.04 0.02
Matches are distributed among these distances:
253 130 0.28
254 302 0.64
255 39 0.08
ACGTcount: A:0.32, C:0.21, G:0.25, T:0.23
Consensus pattern (255 bp):
TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTA
CTGATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGAC
GAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAGAATAATAGG
Found at i:58392 original size:31 final size:33
Alignment explanation
Indices: 58357--58429 Score: 125
Period size: 33 Copynumber: 2.3 Consensus size: 33
58347 ATCGCATGCT
58357 CTCTCTTCAACTT-C-CTTTGTTGAGATGGTTA
1 CTCTCTTCAACTTCCTCTTTGTTGAGATGGTTA
58388 CTCTCTTCAACTTCCTCTTTGTTGAGATGGTTA
1 CTCTCTTCAACTTCCTCTTTGTTGAGATGGTTA
58421 CTCT-TTCAA
1 CTCTCTTCAA
58430 TTCATGATTT
Statistics
Matches: 40, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
31 13 0.32
32 6 0.15
33 21 0.52
ACGTcount: A:0.16, C:0.25, G:0.14, T:0.45
Consensus pattern (33 bp):
CTCTCTTCAACTTCCTCTTTGTTGAGATGGTTA
Found at i:59155 original size:20 final size:20
Alignment explanation
Indices: 59130--59168 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
59120 TATTTAGTAT
*
59130 TTTTTTAGTAATTTATTAAA
1 TTTTTTAATAATTTATTAAA
*
59150 TTTTTTAATATTTTATTAA
1 TTTTTTAATAATTTATTAA
59169 TTTGTTTTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (20 bp):
TTTTTTAATAATTTATTAAA
Found at i:59296 original size:4 final size:4
Alignment explanation
Indices: 59287--59314 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
59277 AGTAATAATT
59287 TTTA TTTA TTTA TTTA TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA
59315 ATGCATGATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTA
Done.