Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002310.1 Hibiscus syriacus cultivar Beakdansim tig00004706_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: 88000
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Found at i:2191 original size:2 final size:2
Alignment explanation
Indices: 2186--2210 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2176 TGTGTGTGTG
2186 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
2211 GTTTGTGTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2532 original size:20 final size:21
Alignment explanation
Indices: 2482--2529 Score: 96
Period size: 21 Copynumber: 2.3 Consensus size: 21
2472 TAGTTAAATC
2482 CCAAATTCCCAATTTTTTCCA
1 CCAAATTCCCAATTTTTTCCA
2503 CCAAATTCCCAATTTTTTCCA
1 CCAAATTCCCAATTTTTTCCA
2524 CCAAAT
1 CCAAAT
2530 CCCTAAGCCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.31, C:0.33, G:0.00, T:0.35
Consensus pattern (21 bp):
CCAAATTCCCAATTTTTTCCA
Found at i:3775 original size:27 final size:27
Alignment explanation
Indices: 3743--3794 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
3733 TTATGTAAAC
* *
3743 ACAAAATTTCCCCTGAAGTGTAAAAGG
1 ACAAAAATGCCCCTGAAGTGTAAAAGG
*
3770 ACAAAAATGCCCTTGAAGTGTAAAA
1 ACAAAAATGCCCCTGAAGTGTAAAA
3795 TGGCTATAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.44, C:0.17, G:0.17, T:0.21
Consensus pattern (27 bp):
ACAAAAATGCCCCTGAAGTGTAAAAGG
Found at i:7151 original size:19 final size:19
Alignment explanation
Indices: 7129--7169 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
7119 TGACAATTTA
* *
7129 ACTTTGACTTGACCCGTTG
1 ACTTTGACCTGACCCATTG
7148 ACTTTGACCTGACCCATTG
1 ACTTTGACCTGACCCATTG
7167 ACT
1 ACT
7170 GGTCTGACCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.20, C:0.29, G:0.17, T:0.34
Consensus pattern (19 bp):
ACTTTGACCTGACCCATTG
Found at i:7789 original size:27 final size:28
Alignment explanation
Indices: 7751--7804 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 28
7741 TATGAAAACA
7751 CAAAATTACCCTTGAAATGTAAAATGAC
1 CAAAATTACCCTTGAAATGTAAAATGAC
*
7779 CAAAA-TACCCTTGAAGTGTAAAATGA
1 CAAAATTACCCTTGAAATGTAAAATGA
7805 ATATATTATA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
27 20 0.80
28 5 0.20
ACGTcount: A:0.46, C:0.17, G:0.13, T:0.24
Consensus pattern (28 bp):
CAAAATTACCCTTGAAATGTAAAATGAC
Found at i:14782 original size:26 final size:26
Alignment explanation
Indices: 14751--14809 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 26
14741 AAATCTTGAT
14751 ACTCGATT-TGAAAAATTAAATTTTTG
1 ACTCGATTAT-AAAAATTAAATTTTTG
* *
14777 ACTCGATTCATAAAATTTAATTTTTTG
1 ACTCGATT-ATAAAAATTAAATTTTTG
14804 ACTCGA
1 ACTCGA
14810 CTCATAATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
26 8 0.28
27 20 0.69
28 1 0.03
ACGTcount: A:0.36, C:0.12, G:0.10, T:0.42
Consensus pattern (26 bp):
ACTCGATTATAAAAATTAAATTTTTG
Found at i:14791 original size:27 final size:27
Alignment explanation
Indices: 14761--14816 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
14751 ACTCGATTTG
*
14761 AAAAATTAAATTTTTGACTCGATTCAT
1 AAAAATTAAATTTTTGACTCGACTCAT
* *
14788 AAAATTTAATTTTTTGACTCGACTCAT
1 AAAAATTAAATTTTTGACTCGACTCAT
14815 AA
1 AA
14817 TTTCATAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.39, C:0.12, G:0.07, T:0.41
Consensus pattern (27 bp):
AAAAATTAAATTTTTGACTCGACTCAT
Found at i:17217 original size:21 final size:20
Alignment explanation
Indices: 17172--17227 Score: 60
Period size: 20 Copynumber: 2.7 Consensus size: 20
17162 CCTAAAACGA
17172 AAATGAAAAAAAAA-ATAAAT
1 AAAT-AAAAAAAAATATAAAT
*
17192 AAATAAAAAAAAATATTAAT
1 AAATAAAAAAAAATATAAAT
*
17212 ATAATATATAAAAAAT
1 A-AATA-AAAAAAAAT
17228 CATTTTTAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
19 9 0.29
20 10 0.32
21 4 0.13
22 8 0.26
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.23
Consensus pattern (20 bp):
AAATAAAAAAAAATATAAAT
Found at i:17265 original size:39 final size:37
Alignment explanation
Indices: 17231--17645 Score: 175
Period size: 35 Copynumber: 11.6 Consensus size: 37
17221 AAAAAATCAT
* * *
17231 TTTTAAAACTATATATTATATATGTTTTTTAAAAATTG
1 TTTTAAAACTATATAATATATAT-ATTTTCAAAAATTG
*
17269 TTTTAAAAATCATATAATATATATATTTTCAAAAATTG
1 TTTTAAAACT-ATATAATATATATATTTTCAAAAATTG
*
17307 CTTTAAAACTATAT-A-ATATATATTTTC-AAAA---
1 TTTTAAAACTATATAATATATATATTTTCAAAAATTG
* * ***
17338 --CT---AC-ATAT--TATATACATTTTCAAAAAAAAA
1 TTTTAAAACTATATAATATATATATTTTC-AAAAATTG
** * *
17368 TTCAAAAACTCTAT-ATATAC--ATTTTCAAAAAATT-
1 TTTTAAAACTATATAATATATATATTTTC-AAAAATTG
** *
17402 TTCAAAAACTATATATTATATATATTTTC-AAAA-TG
1 TTTTAAAACTATATAATATATATATTTTCAAAAATTG
* ***
17437 TTTTCAAAAACTATATATTATATATATTTTCAAAAAAAAA
1 TTTT--AAAACTATATAATATATATATTTTC-AAAAATTG
** *
17477 TTCAAAAACTATATATTATATATATGTTTTCAAAAA---
1 TTTTAAAACTATATA--ATATATATATTTTCAAAAATTG
**** ** **
17513 AAACAAAACTATATAATATATATATTTTTGAAAACCG
1 TTTTAAAACTATATAATATATATATTTTCAAAAATTG
*
17550 TTTTCAAAACTATAT-A-ATATATATTTTCAAAAATCG
1 TTTT-AAAACTATATAATATATATATTTTCAAAAATTG
* * *
17586 ATTTT-AAAGTATAT-AT-TATATGTTTTCAAAAAATG
1 -TTTTAAAACTATATAATATATATATTTTCAAAAATTG
*
17621 TTCTCTAAAAACTATATATTATATA
1 TT-T-T-AAAACTATATAATATATA
17646 AACCCGAACG
Statistics
Matches: 296, Mismatches: 44, Indels: 72
0.72 0.11 0.17
Matches are distributed among these distances:
25 15 0.05
26 2 0.01
27 4 0.01
29 1 0.00
32 1 0.00
34 36 0.12
35 62 0.21
36 33 0.11
37 44 0.15
38 58 0.20
39 22 0.07
40 18 0.06
ACGTcount: A:0.47, C:0.09, G:0.03, T:0.42
Consensus pattern (37 bp):
TTTTAAAACTATATAATATATATATTTTCAAAAATTG
Found at i:17321 original size:37 final size:37
Alignment explanation
Indices: 17232--17645 Score: 155
Period size: 38 Copynumber: 11.6 Consensus size: 37
17222 AAAAATCATT
* * * *
17232 TTTAAAACTATATATTATATATGTTTTTTAAAAATTGT
1 TTTAAAACTATATAATATATAT-ATTTTCAAAAATTGC
*
17270 TTTAAAAATCATATAATATATATATTTTCAAAAATTGC
1 TTTAAAACT-ATATAATATATATATTTTCAAAAATTGC
17308 TTTAAAACTATAT-A-ATATATATTTTC-AAAA---C
1 TTTAAAACTATATAATATATATATTTTCAAAAATTGC
* ****
17339 --T---AC-ATAT--TATATACATTTTCAAAAAAAAA
1 TTTAAAACTATATAATATATATATTTTCAAAAATTGC
* * *
17368 TTCAAAA--ACTCT-ATATATACATTTTCAAAAAATT--
1 TTTAAAACTA-TATAATATATATATTTTC-AAAAATTGC
* * *
17402 TTCAAAAACTATATATTATATATATTTTC-AAAA-TGT
1 TT-TAAAACTATATAATATATATATTTTCAAAAATTGC
* ****
17438 TTTCAAAAACTATATATTATATATATTTTCAAAAAAAAA
1 TTT--AAAACTATATAATATATATATTTTCAAAAATTGC
* * ***
17477 TTCAAAAACTATATATTATATATATGTTTTCAAAAAAAAC
1 TT-TAAAACTATATA--ATATATATATTTTCAAAAATTGC
** ** *
17517 ---AAAACTATATAATATATATATTTTTGAAAACCGT
1 TTTAAAACTATATAATATATATATTTTCAAAAATTGC
* *
17551 TTTCAAAACTATAT-A-ATATATATTTTCAAAAATCGA
1 TTT-AAAACTATATAATATATATATTTTCAAAAATTGC
* * * *
17587 TTTTAAAGTATAT-AT-TATATGTTTTCAAAAAATGTTC
1 TTTAAAACTATATAATATATATATTTTC-AAAAAT-TGC
* *
17624 TCTAAAAACTATATATTATATA
1 T-TTAAAACTATATAATATATA
17646 AACCCGAACG
Statistics
Matches: 294, Mismatches: 45, Indels: 72
0.72 0.11 0.18
Matches are distributed among these distances:
25 15 0.05
26 6 0.02
29 1 0.00
31 1 0.00
33 1 0.00
34 26 0.09
35 52 0.18
36 47 0.16
37 44 0.15
38 62 0.21
39 15 0.05
40 24 0.08
ACGTcount: A:0.47, C:0.09, G:0.03, T:0.42
Consensus pattern (37 bp):
TTTAAAACTATATAATATATATATTTTCAAAAATTGC
Found at i:17338 original size:23 final size:24
Alignment explanation
Indices: 17311--17362 Score: 70
Period size: 25 Copynumber: 2.2 Consensus size: 24
17301 AAATTGCTTT
*
17311 AAAACT-ATATAATATATATTTTC
1 AAAACTAATATAATATACATTTTC
*
17334 AAAACTACATATTATATACATTTTC
1 AAAACTA-ATATAATATACATTTTC
17359 AAAA
1 AAAA
17363 AAAAATTCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 6 0.24
25 19 0.76
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (24 bp):
AAAACTAATATAATATACATTTTC
Found at i:17490 original size:38 final size:38
Alignment explanation
Indices: 17334--17582 Score: 234
Period size: 37 Copynumber: 6.8 Consensus size: 38
17324 ATATATTTTC
* *
17334 AAAACTACATATTATATACATTTTCAAAAAAAAATTCA
1 AAAACTATATATTATATATATTTTCAAAAAAAAATTCA
* * **
17372 AAAAC--TCTA-TATATACATTTTC-AAAAAATTTTCA
1 AAAACTATATATTATATATATTTTCAAAAAAAAATTCA
****
17406 AAAACTATATATTATATATATTTTC-AAAATGTTTTCA
1 AAAACTATATATTATATATATTTTCAAAAAAAAATTCA
17443 AAAACTATATATTATATATATTTTCAAAAAAAAATTCA
1 AAAACTATATATTATATATATTTTCAAAAAAAAATTCA
17481 AAAACTATATATTATATATATGTTTTC-AAAAAAAA--C-
1 AAAACTATATATTATATATA--TTTTCAAAAAAAAATTCA
* * *****
17517 AAAACTATATAATATATATATTTTTGAAAACCGTTTTC-
1 AAAACTATATATTATATATA-TTTTCAAAAAAAAATTCA
17555 AAAACTATATA--ATATATATTTTCAAAAA
1 AAAACTATATATTATATATATTTTCAAAAA
17583 TCGATTTTAA
Statistics
Matches: 180, Mismatches: 22, Indels: 21
0.81 0.10 0.09
Matches are distributed among these distances:
34 15 0.08
35 25 0.14
36 34 0.19
37 48 0.27
38 45 0.25
39 8 0.04
40 5 0.03
ACGTcount: A:0.50, C:0.10, G:0.02, T:0.38
Consensus pattern (38 bp):
AAAACTATATATTATATATATTTTCAAAAAAAAATTCA
Found at i:17643 original size:38 final size:37
Alignment explanation
Indices: 17330--17645 Score: 225
Period size: 38 Copynumber: 8.6 Consensus size: 37
17320 TAATATATAT
* * **
17330 TTTC-AAAACTACATATTATATACATTTTCAAAAAAAA
1 TTTCAAAAACTATATA-TATATATATTTTCAAAAAATG
* * *
17367 ATTCAAAAAC--TCTATATATACATTTTCAAAAAAT-
1 TTTCAAAAACTATATATATATATATTTTCAAAAAATG
17401 TTTCAAAAACTATATATTATATATATTTTC--AAAATG
1 TTTCAAAAACTATATA-TATATATATTTTCAAAAAATG
**
17437 TTTTCAAAAACTATATATTATATATATTTTCAAAAAAAA
1 -TTTCAAAAACTATATA-TATATATATTTTCAAAAAATG
*
17476 ATTCAAAAACTATATATTATATATATGTTTTCAAAAAA--
1 TTTCAAAAACTATATA-TATATATA--TTTTCAAAAAATG
** ** **
17514 -AAC-AAAACTATATAATATATATATTTTTGAAAACCG
1 TTTCAAAAACTATAT-ATATATATATTTTCAAAAAATG
17550 TTTTC-AAAACTATATA-ATATATATTTTC-AAAAATCG
1 -TTTCAAAAACTATATATATATATATTTTCAAAAAAT-G
* * *
17586 ATTT--TAAAGTATATAT-TATATGTTTTCAAAAAATG
1 -TTTCAAAAACTATATATATATATATTTTCAAAAAATG
17621 TTCTCTAAAAACTATATAT-TATATA
1 TT-TC-AAAAACTATATATATATATA
17646 AACCCGAACG
Statistics
Matches: 230, Mismatches: 27, Indels: 43
0.77 0.09 0.14
Matches are distributed among these distances:
34 19 0.08
35 49 0.21
36 44 0.19
37 48 0.21
38 55 0.24
39 4 0.02
40 11 0.05
ACGTcount: A:0.48, C:0.10, G:0.03, T:0.40
Consensus pattern (37 bp):
TTTCAAAAACTATATATATATATATTTTCAAAAAATG
Found at i:18342 original size:85 final size:85
Alignment explanation
Indices: 18238--18708 Score: 665
Period size: 85 Copynumber: 5.5 Consensus size: 85
18228 ACTTGACAGT
* * * *
18238 TTTTTGTTGACAGATAGCCCTTCTCGTCTAGAGCTATGTTGTAAATTTGATATGCCCTTGAGCTG
1 TTTTCGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGCTGTAAATTTGATATGCCCTTGAGCTG
* *
18303 AATGGAATCGAACTCAAAGG
66 AATGTAATCGAACTCGAAGG
* ** *
18323 TCTTT-GTTGACATATAGCCCTTCTTACCTTGAGCTATGTTGTAAATTTGATATGCCCTTGAGCT
1 T-TTTCGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGCTGTAAATTTGATATGCCCTTGAGCT
*
18387 TAATGTAATCGAACTCGAAGG
65 GAATGTAATCGAACTCGAAGG
* * * * * *
18408 TTTTCGTTGACAAATAGCCTTTCTAGCCTTGAGATATGCTATAAATTAGATATGCCCTTGAGCTG
1 TTTTCGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGCTGTAAATTTGATATGCCCTTGAGCTG
*
18473 AATGTAATCAAACTCGAAGG
66 AATGTAATCGAACTCGAAGG
*
18493 TTTTCGTTGACAGATAGACCTTCTCGCCTTGAGCTATGCTGTAAATTTGATATGCCCTTGAGCTG
1 TTTTCGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGCTGTAAATTTGATATGCCCTTGAGCTG
*
18558 AATGTAATCGAAATCGAAGG
66 AATGTAATCGAACTCGAAGG
* * ** *
18578 TTTTCATTGACAGATAGCCCTTCTCGCCTTGAGTTATGCTACAAATTTGATATGCCCTTGAACTG
1 TTTTCGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGCTGTAAATTTGATATGCCCTTGAGCTG
18643 AATGTAATCGAACTCGAAGG
66 AATGTAATCGAACTCGAAGG
* * *
18663 TTTTTTGTTGACAGATAGTCCTTCTCGCCTTGAGCTATGTTGTAAA
1 -TTTTCGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGCTGTAAA
18709 CTTCCTCTGT
Statistics
Matches: 342, Mismatches: 41, Indels: 5
0.88 0.11 0.01
Matches are distributed among these distances:
84 3 0.01
85 298 0.87
86 41 0.12
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.35
Consensus pattern (85 bp):
TTTTCGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGCTGTAAATTTGATATGCCCTTGAGCTG
AATGTAATCGAACTCGAAGG
Found at i:31076 original size:20 final size:20
Alignment explanation
Indices: 31028--31180 Score: 209
Period size: 20 Copynumber: 7.7 Consensus size: 20
31018 AAGACTTCCA
* * *
31028 AAAGTCAAATTCACAATGGG
1 AAAGTCAAATTCGCAACGCG
* * *
31048 ATAGTCAAATTCGCAACACA
1 AAAGTCAAATTCGCAACGCG
* *
31068 AAAGACAAATTCGCAACGCA
1 AAAGTCAAATTCGCAACGCG
31088 AAAGAT-AAATTCGCAACGCG
1 AAAG-TCAAATTCGCAACGCG
*
31108 ATAGTCAAATTCGCAACGCG
1 AAAGTCAAATTCGCAACGCG
31128 AAAGTCAAATTCGCAACGCG
1 AAAGTCAAATTCGCAACGCG
31148 AAAGTCAAATTCGCAACGCG
1 AAAGTCAAATTCGCAACGCG
31168 AAAGTCAAATTCG
1 AAAGTCAAATTCG
31181 TAACACGATA
Statistics
Matches: 118, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
19 1 0.01
20 117 0.99
ACGTcount: A:0.43, C:0.22, G:0.18, T:0.17
Consensus pattern (20 bp):
AAAGTCAAATTCGCAACGCG
Found at i:31326 original size:22 final size:22
Alignment explanation
Indices: 31300--31350 Score: 77
Period size: 22 Copynumber: 2.3 Consensus size: 22
31290 CTACGGCGAC
31300 ATCCGTCCCCATCTCC-GACAAA
1 ATCCGTCCCCATCTCCAG-CAAA
*
31322 ATCCGTCCCCATCTCCAGCGAA
1 ATCCGTCCCCATCTCCAGCAAA
31344 ATCCGTC
1 ATCCGTC
31351 TATCTCCATC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 26 0.96
23 1 0.04
ACGTcount: A:0.24, C:0.45, G:0.12, T:0.20
Consensus pattern (22 bp):
ATCCGTCCCCATCTCCAGCAAA
Found at i:31718 original size:20 final size:20
Alignment explanation
Indices: 31695--31755 Score: 62
Period size: 20 Copynumber: 3.4 Consensus size: 20
31685 AAACTTAAAT
31695 TCGCAACACGAAAATGAAAA
1 TCGCAACACGAAAATGAAAA
*
31715 TCGCAACAC------CAAAA
1 TCGCAACACGAAAATGAAAA
*
31729 TCGCAACGCGAAAATGAAAA
1 TCGCAACACGAAAATGAAAA
31749 TCGCAAC
1 TCGCAAC
31756 GCGATTTTAG
Statistics
Matches: 32, Mismatches: 3, Indels: 12
0.68 0.06 0.26
Matches are distributed among these distances:
14 12 0.38
20 20 0.62
ACGTcount: A:0.49, C:0.26, G:0.15, T:0.10
Consensus pattern (20 bp):
TCGCAACACGAAAATGAAAA
Found at i:31742 original size:14 final size:14
Alignment explanation
Indices: 31710--31743 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
31700 ACACGAAAAT
31710 GAAAATCGCAACAC
1 GAAAATCGCAACAC
* *
31724 CAAAATCGCAACGC
1 GAAAATCGCAACAC
31738 GAAAAT
1 GAAAAT
31744 GAAAATCGCA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.50, C:0.26, G:0.15, T:0.09
Consensus pattern (14 bp):
GAAAATCGCAACAC
Found at i:35304 original size:66 final size:65
Alignment explanation
Indices: 35145--35320 Score: 257
Period size: 66 Copynumber: 2.6 Consensus size: 65
35135 TGGGGTACAC
35145 TTTTTTTGCTTGTTTAATTGAATTT-TACATTGAAAGTTGATTTGTTTAATTGATGAGGAAATAA
1 TTTTTTTGCTTGTTTAATTG-ATTTGT--A---AAAGTTGATTTGTTTAATTGATGAGGAAATAA
35209 GAATTA
60 GAATTA
* *
35215 -TTTTTTGCTTGTTTAATTGATTTGTAAAAGTTGATTTGTTTAATTTGATGTGTAAATAAGAATT
1 TTTTTTTGCTTGTTTAATTGATTTGTAAAAGTTGATTTGTTTAA-TTGATGAGGAAATAAGAATT
35279 A
65 A
35280 TTTTTTTGCTTGTTTAATTGATTTGTAAAAGTTGATTTGTT
1 TTTTTTTGCTTGTTTAATTGATTTGTAAAAGTTGATTTGTT
35321 GTTTTAAATT
Statistics
Matches: 101, Mismatches: 2, Indels: 10
0.89 0.02 0.09
Matches are distributed among these distances:
64 17 0.17
65 19 0.19
66 40 0.40
67 1 0.01
68 4 0.04
69 20 0.20
ACGTcount: A:0.28, C:0.02, G:0.17, T:0.53
Consensus pattern (65 bp):
TTTTTTTGCTTGTTTAATTGATTTGTAAAAGTTGATTTGTTTAATTGATGAGGAAATAAGAATTA
Found at i:35431 original size:19 final size:20
Alignment explanation
Indices: 35373--35439 Score: 102
Period size: 20 Copynumber: 3.4 Consensus size: 20
35363 TGTTGAAGGT
35373 AAATTCGCAACGCGAAAGGT-
1 AAATTCGCAACGCGAAA-GTC
*
35393 AAATTCGCAACACGAAAGTC
1 AAATTCGCAACGCGAAAGTC
35413 AAATTCGCAACGC-AAAGTC
1 AAATTCGCAACGCGAAAGTC
35432 AAATTCGC
1 AAATTCGC
35440 GTTGCGATTT
Statistics
Matches: 44, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
19 16 0.36
20 28 0.64
ACGTcount: A:0.42, C:0.24, G:0.18, T:0.16
Consensus pattern (20 bp):
AAATTCGCAACGCGAAAGTC
Found at i:35799 original size:18 final size:18
Alignment explanation
Indices: 35776--35811 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
35766 AAGCCGGTTG
*
35776 TGATTGGGATTTTGATTT
1 TGATTGCGATTTTGATTT
35794 TGATTGCGATTTTGATTT
1 TGATTGCGATTTTGATTT
35812 CCTTTTGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.03, G:0.25, T:0.56
Consensus pattern (18 bp):
TGATTGCGATTTTGATTT
Found at i:37901 original size:27 final size:27
Alignment explanation
Indices: 37850--37920 Score: 108
Period size: 27 Copynumber: 2.7 Consensus size: 27
37840 TGGCATTTTC
*
37850 TTCTTTTTC-TTTTCTTCGGGAACTTA
1 TTCTTCTTCTTTTTCTTCGGGAACTTA
*
37876 TTCTTCTTCTTTTTCTTCGGGGACTTA
1 TTCTTCTTCTTTTTCTTCGGGAACTTA
*
37903 TTTTTCTTCTTTTTCTTC
1 TTCTTCTTCTTTTTCTTC
37921 TTCAGGGTTA
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
26 8 0.20
27 33 0.80
ACGTcount: A:0.07, C:0.21, G:0.10, T:0.62
Consensus pattern (27 bp):
TTCTTCTTCTTTTTCTTCGGGAACTTA
Found at i:38132 original size:24 final size:24
Alignment explanation
Indices: 38105--38150 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
38095 ATATTCAAAA
*
38105 TCCGAGTATTGACCAAAATCAATG
1 TCCGAGTATTAACCAAAATCAATG
*
38129 TCCGAGTATTAACCAATATCAA
1 TCCGAGTATTAACCAAAATCAA
38151 ATTTTGAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.39, C:0.22, G:0.13, T:0.26
Consensus pattern (24 bp):
TCCGAGTATTAACCAAAATCAATG
Found at i:39110 original size:19 final size:20
Alignment explanation
Indices: 39086--39317 Score: 111
Period size: 20 Copynumber: 11.7 Consensus size: 20
39076 AACTAAAACC
*
39086 TGTTGCGAAATT-AAATTCG
1 TGTTGCGAATTTGAAATTCG
*
39105 TGTTGCGATTTTGAAATTC-
1 TGTTGCGAATTTGAAATTCG
*
39124 AGTTGCGAATTTGAAATTCCG
1 TGTTGCGAATTTGAAATT-CG
* ** *
39145 CGTTGCGAATTTGACTTTTG
1 TGTTGCGAATTTGAAATTCG
* * *
39165 TGTTACGAAATTG-ACTTCTG
1 TGTTGCGAATTTGAAATTC-G
**
39185 TGTTGCG-ATCTACAAATTCG
1 TGTTGCGAAT-TTGAAATTCG
* *
39205 CGTTGCGAATTTG-ACTATCG
1 TGTTGCGAATTTGAAAT-TCG
** *
39225 CATTGCGAATTTG-ACTTCTG
1 TGTTGCGAATTTGAAATTC-G
*
39245 TGTTGC-AATTTACAAATTCG
1 TGTTGCGAATTT-GAAATTCG
* * *
39265 CGTTGCGAAATTGGAAACT-G
1 TGTTGCG-AATTTGAAATTCG
* * * *
39285 GGTTGCGAAATTGGAGTTCG
1 TGTTGCGAATTTGAAATTCG
*
39305 CGTTGCGAATTTG
1 TGTTGCGAATTTG
39318 TTGGTCATTT
Statistics
Matches: 159, Mismatches: 40, Indels: 27
0.70 0.18 0.12
Matches are distributed among these distances:
19 44 0.28
20 82 0.52
21 29 0.18
22 4 0.03
ACGTcount: A:0.24, C:0.15, G:0.24, T:0.37
Consensus pattern (20 bp):
TGTTGCGAATTTGAAATTCG
Found at i:39151 original size:21 final size:20
Alignment explanation
Indices: 39087--39158 Score: 85
Period size: 19 Copynumber: 3.6 Consensus size: 20
39077 ACTAAAACCT
* *
39087 GTTGCGAAATT-AAATTCGT
1 GTTGCGAATTTGAAATTCGA
*
39106 GTTGCGATTTTGAAATTC-A
1 GTTGCGAATTTGAAATTCGA
*
39125 GTTGCGAATTTGAAATTCCGC
1 GTTGCGAATTTGAAATT-CGA
39146 GTTGCGAATTTGA
1 GTTGCGAATTTGA
39159 CTTTTGTGTT
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
19 25 0.56
20 7 0.16
21 13 0.29
ACGTcount: A:0.26, C:0.12, G:0.24, T:0.38
Consensus pattern (20 bp):
GTTGCGAATTTGAAATTCGA
Found at i:39202 original size:80 final size:79
Alignment explanation
Indices: 39086--39248 Score: 195
Period size: 80 Copynumber: 2.1 Consensus size: 79
39076 AACTAAAACC
* * ** *
39086 TGTTGCGAAATTAAATTCGTGTTGCGATTTTGAAATTC-AGTTGCGAATTTGAA-ATTCCGCGTT
1 TGTTACGAAATTAAATTCGTGTTGCGATCTACAAATTCGAGTTGCGAATTTGAATA-T-CGCATT
*
39149 GCGAATTTGACTTTTG
64 GCGAATTTGACTTCTG
* * * *
39165 TGTTACGAAATTGACTTCTGTGTTGCGATCTACAAATTCGCGTTGCGAATTTGACTATCGCATTG
1 TGTTACGAAATTAAATTC-GTGTTGCGATCTACAAATTCGAGTTGCGAATTTGAATATCGCATTG
39230 CGAATTTGACTTCTG
65 CGAATTTGACTTCTG
39245 TGTT
1 TGTT
39249 GCAATTTACA
Statistics
Matches: 71, Mismatches: 10, Indels: 5
0.83 0.12 0.06
Matches are distributed among these distances:
79 15 0.21
80 41 0.58
81 14 0.20
82 1 0.01
ACGTcount: A:0.23, C:0.15, G:0.22, T:0.40
Consensus pattern (79 bp):
TGTTACGAAATTAAATTCGTGTTGCGATCTACAAATTCGAGTTGCGAATTTGAATATCGCATTGC
GAATTTGACTTCTG
Found at i:39210 original size:60 final size:60
Alignment explanation
Indices: 39137--39273 Score: 193
Period size: 60 Copynumber: 2.3 Consensus size: 60
39127 TGCGAATTTG
* * ** *
39137 AAATTCCGCGTTGCGAATTTGACTTTTGTGTTACGAAATTGACTTCTGTGTTGCGATCTAC
1 AAATT-CGCGTTGCGAATTTGACTATCGCATTACGAAATTGACTTCTGTGTTGCAATCTAC
* * *
39198 AAATTCGCGTTGCGAATTTGACTATCGCATTGCGAATTTGACTTCTGTGTTGCAATTTAC
1 AAATTCGCGTTGCGAATTTGACTATCGCATTACGAAATTGACTTCTGTGTTGCAATCTAC
39258 AAATTCGCGTTGCGAA
1 AAATTCGCGTTGCGAA
39274 ATTGGAAACT
Statistics
Matches: 68, Mismatches: 8, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
60 63 0.93
61 5 0.07
ACGTcount: A:0.23, C:0.18, G:0.21, T:0.37
Consensus pattern (60 bp):
AAATTCGCGTTGCGAATTTGACTATCGCATTACGAAATTGACTTCTGTGTTGCAATCTAC
Found at i:39645 original size:24 final size:23
Alignment explanation
Indices: 39575--39637 Score: 110
Period size: 23 Copynumber: 2.7 Consensus size: 23
39565 AAGCGTGAAA
39575 TTAA-TCCAAAAATTATCTGATT
1 TTAATTCCAAAAATTATCTGATT
39597 TTAATTCCAAAAATTATCTGATT
1 TTAATTCCAAAAATTATCTGATT
39620 TTAATTCCAAAAAATTAT
1 TTAATTCC-AAAAATTAT
39638 ATATTTTTTA
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
22 4 0.10
23 26 0.67
24 9 0.23
ACGTcount: A:0.43, C:0.13, G:0.03, T:0.41
Consensus pattern (23 bp):
TTAATTCCAAAAATTATCTGATT
Found at i:40832 original size:29 final size:32
Alignment explanation
Indices: 40764--40829 Score: 84
Period size: 32 Copynumber: 2.1 Consensus size: 32
40754 TATATTAAAT
*
40764 AATAATAATAATAAAATGTCAGGTTATACGAA
1 AATAATAATAATAAAATGTCAGGTGATACGAA
*
40796 AATAATAATAATATAAT-TCAGAGTGAT-C-AA
1 AATAATAATAATAAAATGTCAG-GTGATACGAA
40826 AATA
1 AATA
40830 TAAGCCATTC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
30 6 0.19
31 5 0.16
32 20 0.65
ACGTcount: A:0.55, C:0.06, G:0.11, T:0.29
Consensus pattern (32 bp):
AATAATAATAATAAAATGTCAGGTGATACGAA
Found at i:40875 original size:10 final size:9
Alignment explanation
Indices: 40850--40890 Score: 64
Period size: 9 Copynumber: 4.6 Consensus size: 9
40840 GAAAGTTTAG
*
40850 TAAATAAAT
1 TAAAAAAAT
*
40859 TAAAAAATT
1 TAAAAAAAT
40868 TAAAAAAAT
1 TAAAAAAAT
40877 TAAAAAAAT
1 TAAAAAAAT
40886 TAAAA
1 TAAAA
40891 GTACAGTGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (9 bp):
TAAAAAAAT
Found at i:40929 original size:30 final size:30
Alignment explanation
Indices: 40872--40929 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 30
40862 AAAATTTAAA
40872 AAAATTAAAAAAATTAAAAGTACAGTGAAT
1 AAAATTAAAAAAATTAAAAGTACAGTGAAT
*
40902 AAAATATAAAAAGAA-TAAAATTA-AGTGA
1 AAAAT-TAAAAA-AATTAAAAGTACAGTGA
40930 GAAATGATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
30 10 0.40
31 13 0.52
32 2 0.08
ACGTcount: A:0.66, C:0.02, G:0.10, T:0.22
Consensus pattern (30 bp):
AAAATTAAAAAAATTAAAAGTACAGTGAAT
Found at i:41250 original size:18 final size:18
Alignment explanation
Indices: 41227--41264 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
41217 ATTCTGCTTC
*
41227 TTCTTCTTCTCGTTCTTT
1 TTCTTCTCCTCGTTCTTT
*
41245 TTCTTCTCCTCTTTCTTT
1 TTCTTCTCCTCGTTCTTT
41263 TT
1 TT
41265 TTTACTTTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.00, C:0.29, G:0.03, T:0.68
Consensus pattern (18 bp):
TTCTTCTCCTCGTTCTTT
Found at i:42575 original size:90 final size:90
Alignment explanation
Indices: 42417--43140 Score: 1225
Period size: 90 Copynumber: 8.0 Consensus size: 90
42407 TCAAGTAGCA
* * * * * *
42417 GACGACGATTCCA-TCCTTCATTCTTCTCTCTAAATGAAGTCCAATCGGAATGGCCGAGTACGGG
1 GACGTCGATTCCAGTTC-TCATTCTTCTCTCTAAACGAAGTCCAATCGGAATGGCCTAGAACCGG
*
42481 AAGTCTATCCTCATCTTGGAGTAATC
65 AAGTCCATCCTCATCTTGGAGTAATC
*
42507 GACGTCGATTCCAGTTCTCATTCTTCTCTCTAAACGAAGTCCAATCGGAATGTCCTAGAACCGGA
1 GACGTCGATTCCAGTTCTCATTCTTCTCTCTAAACGAAGTCCAATCGGAATGGCCTAGAACCGGA
42572 AGTCCATCCTCATCTTGGAGTAATC
66 AGTCCATCCTCATCTTGGAGTAATC
*
42597 GACGTCGATTCCAGTTCTCATTCTTCTCTCTAAACGAAGTCCAATCGGAATGTCCTAGAACCGGA
1 GACGTCGATTCCAGTTCTCATTCTTCTCTCTAAACGAAGTCCAATCGGAATGGCCTAGAACCGGA
42662 AGTCCATCCTCATCTTGGAGTAATC
66 AGTCCATCCTCATCTTGGAGTAATC
*
42687 GACGTCGATTCCAGTTCTCATTCTTTTCTCTAAACGAAGTCCAATCGGAATGGCCTAGAACCGGA
1 GACGTCGATTCCAGTTCTCATTCTTCTCTCTAAACGAAGTCCAATCGGAATGGCCTAGAACCGGA
42752 AGTCCATCCTCATCTTGGAGTAATC
66 AGTCCATCCTCATCTTGGAGTAATC
* * * *
42777 GGCGTCGATTCCAGTTCTCATTCTTCTCTCTAAAAGAAGTCCAATCGGAATGTCCTAGAACAGGA
1 GACGTCGATTCCAGTTCTCATTCTTCTCTCTAAACGAAGTCCAATCGGAATGGCCTAGAACCGGA
42842 AGTCCATCCTCATCTTGGAGTAATC
66 AGTCCATCCTCATCTTGGAGTAATC
* *
42867 GACGTCGATTCCAGTTCTCATTCTTTTCTCTAAACGAAGTCCAATCGGAATGTCCTAGAACCGGA
1 GACGTCGATTCCAGTTCTCATTCTTCTCTCTAAACGAAGTCCAATCGGAATGGCCTAGAACCGGA
42932 AGTCCATCCTCATCTTGGAGTAATC
66 AGTCCATCCTCATCTTGGAGTAATC
*
42957 GACGTCGATTCCAGTTCTCATTCTTTTCTCTAAACGAAGTCCAATCGGAATGGCCTAGAACCGGA
1 GACGTCGATTCCAGTTCTCATTCTTCTCTCTAAACGAAGTCCAATCGGAATGGCCTAGAACCGGA
43022 AGTCCATCCTCATCTTGGAGTAATC
66 AGTCCATCCTCATCTTGGAGTAATC
* * *
43047 GACGTCGATTCCAGTTCTTATTCTTCTCTCTAAACGAAGTCCAATCGGCATGGCCTAGAACAGGA
1 GACGTCGATTCCAGTTCTCATTCTTCTCTCTAAACGAAGTCCAATCGGAATGGCCTAGAACCGGA
* * *
43112 AGTCCATCCTCACCTTGAAGTAGTC
66 AGTCCATCCTCATCTTGGAGTAATC
43137 GACG
1 GACG
43141 ACCGGTAAAT
Statistics
Matches: 606, Mismatches: 27, Indels: 2
0.95 0.04 0.00
Matches are distributed among these distances:
90 604 1.00
91 2 0.00
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.29
Consensus pattern (90 bp):
GACGTCGATTCCAGTTCTCATTCTTCTCTCTAAACGAAGTCCAATCGGAATGGCCTAGAACCGGA
AGTCCATCCTCATCTTGGAGTAATC
Found at i:44834 original size:16 final size:16
Alignment explanation
Indices: 44809--44858 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 16
44799 CAAGGATTTC
*
44809 TATATATATAATATAT
1 TATATTTATAATATAT
*
44825 TATATTTAT-ATAATAG
1 TATATTTATAAT-ATAT
44841 TATA-TTATACATATAT
1 TATATTTATA-ATATAT
44857 TA
1 TA
44859 CATGCTTTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
15 6 0.21
16 20 0.71
17 2 0.07
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (16 bp):
TATATTTATAATATAT
Found at i:44855 original size:21 final size:22
Alignment explanation
Indices: 44809--44856 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
44799 CAAGGATTTC
**
44809 TATATATATAATATATTATATT
1 TATATATATAATATATTATACA
*
44831 TATATA-ATAGTATATTATACA
1 TATATATATAATATATTATACA
44852 TATAT
1 TATAT
44857 TACATGCTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 17 0.74
22 6 0.26
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (22 bp):
TATATATATAATATATTATACA
Found at i:44882 original size:2 final size:2
Alignment explanation
Indices: 44875--44919 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
44865 TTTAAAAATA
44875 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
44917 AC A
1 AC A
44920 TATATATATA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:44924 original size:2 final size:2
Alignment explanation
Indices: 44919--45044 Score: 125
Period size: 2 Copynumber: 64.0 Consensus size: 2
44909 ACACACACAC
44919 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * * * *
44961 AT AT AT AT AT AT A- AT AT GT AT AT TT TT GAA AA AC A- AT AT -T
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT
* * *
45001 AT AT AT AT AT AT AT AT TT CAA AA AT AT A- AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT
45043 AT
1 AT
45045 TACATAATTT
Statistics
Matches: 108, Mismatches: 10, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
1 4 0.04
2 104 0.96
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (2 bp):
AT
Found at i:46748 original size:20 final size:21
Alignment explanation
Indices: 46719--46779 Score: 83
Period size: 19 Copynumber: 3.0 Consensus size: 21
46709 TGTTGGACCC
*
46719 AAAGTATTGAAACT-TTAAGG
1 AAAGTTTTGAAACTCTTAAGG
*
46739 AAAGTTTTGAAACTCTT--GA
1 AAAGTTTTGAAACTCTTAAGG
46758 AAAGTTTTGAAACTCTTAAGG
1 AAAGTTTTGAAACTCTTAAGG
46779 A
1 A
46780 TATTGTCTTG
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
19 18 0.51
20 13 0.37
21 4 0.11
ACGTcount: A:0.41, C:0.08, G:0.18, T:0.33
Consensus pattern (21 bp):
AAAGTTTTGAAACTCTTAAGG
Found at i:47359 original size:22 final size:22
Alignment explanation
Indices: 47303--47366 Score: 58
Period size: 22 Copynumber: 2.9 Consensus size: 22
47293 AAGATTAAAG
* * *
47303 CATAATAAGCCAATATATACAA
1 CATAATAGGCCAAAATATATAA
* * *
47325 AATAAT-GATCCAACATATATAA
1 CATAATAG-GCCAAAATATATAA
47347 CATAATAGGCCAAAATATAT
1 CATAATAGGCCAAAATATAT
47367 CCACTGAAAA
Statistics
Matches: 32, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
22 31 0.97
23 1 0.03
ACGTcount: A:0.53, C:0.16, G:0.06, T:0.25
Consensus pattern (22 bp):
CATAATAGGCCAAAATATATAA
Found at i:79139 original size:24 final size:24
Alignment explanation
Indices: 79107--79157 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
79097 ATCAATTCTG
79107 ACAACTCCTTGTCATCAATCAATA
1 ACAACTCCTTGTCATCAATCAATA
79131 ACAACTCCTTGTCATCAATCAATA
1 ACAACTCCTTGTCATCAATCAATA
79155 ACA
1 ACA
79158 TGTTAGTCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.39, C:0.29, G:0.04, T:0.27
Consensus pattern (24 bp):
ACAACTCCTTGTCATCAATCAATA
Found at i:85934 original size:24 final size:24
Alignment explanation
Indices: 85907--85957 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
85897 ATAAATTCTG
85907 ACAACTCCTTGTCATCAATCAATA
1 ACAACTCCTTGTCATCAATCAATA
85931 ACAACTCCTTGTCATCAATCAATA
1 ACAACTCCTTGTCATCAATCAATA
85955 ACA
1 ACA
85958 TGTTAGTCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.39, C:0.29, G:0.04, T:0.27
Consensus pattern (24 bp):
ACAACTCCTTGTCATCAATCAATA
Found at i:86915 original size:12 final size:12
Alignment explanation
Indices: 86898--86922 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
86888 AACTTCATAA
86898 TTTGATAACATT
1 TTTGATAACATT
86910 TTTGATAACATT
1 TTTGATAACATT
86922 T
1 T
86923 ATCACAAAAT
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:0.32, C:0.08, G:0.08, T:0.52
Consensus pattern (12 bp):
TTTGATAACATT
Done.