Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002732.1 Hibiscus syriacus cultivar Beakdansim tig00005636_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: 75379
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:6012 original size:21 final size:22
Alignment explanation
Indices: 5971--6017 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
5961 ACTTAAATTA
5971 TATTTGAATTCTTAAATTTCAC
1 TATTTGAATTCTTAAATTTCAC
*
5993 TATTTGAATT-TTAGATTTCAC
1 TATTTGAATTCTTAAATTTCAC
6014 TATT
1 TATT
6018 AGAAATAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 14 0.58
22 10 0.42
ACGTcount: A:0.30, C:0.11, G:0.06, T:0.53
Consensus pattern (22 bp):
TATTTGAATTCTTAAATTTCAC
Found at i:12375 original size:2 final size:2
Alignment explanation
Indices: 12368--12393 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
12358 TTCTTCTCTA
12368 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
12394 TCCTTGTTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:26279 original size:2 final size:2
Alignment explanation
Indices: 26272--26314 Score: 54
Period size: 2 Copynumber: 22.5 Consensus size: 2
26262 ATTAAGTTGC
* *
26272 AT AT AT AT AT AT AT AT AT AT AT AT AT TT A- AT TT AT 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
26312 AT A
1 AT A
26315 ATCATTTCAG
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
1 2 0.06
2 33 0.94
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:34765 original size:14 final size:15
Alignment explanation
Indices: 34746--34783 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
34736 AAATACTATC
*
34746 AACCATTTAACGAT-
1 AACCATTTAACAATG
34760 AACCATTTAACAATG
1 AACCATTTAACAATG
34775 AA-CATTTAA
1 AACCATTTAA
34784 TCACATTACT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 20 0.91
15 2 0.09
ACGTcount: A:0.47, C:0.18, G:0.05, T:0.29
Consensus pattern (15 bp):
AACCATTTAACAATG
Found at i:37565 original size:59 final size:58
Alignment explanation
Indices: 37479--37599 Score: 136
Period size: 58 Copynumber: 2.1 Consensus size: 58
37469 TAAAATACAT
* * *
37479 AATAATCTATTATTAGAAGGTATTGTTTTATTAAATTATCTAATTATTAAAATTTATAA
1 AATAATCTATTATTAGAAGGTATTGTTTGATTAAATT-TCTAAATATTAAAAATTATAA
* * * * * *
37538 AATATTCTTTTATTA-AAGGTTTCTGTTTGGTTGAATTTTTAAATATTAAAAATTATAA
1 AATAATCTATTATTAGAAGGTAT-TGTTTGATTAAATTTCTAAATATTAAAAATTATAA
37596 AATA
1 AATA
37600 GTATCGTATC
Statistics
Matches: 52, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
58 28 0.54
59 24 0.46
ACGTcount: A:0.40, C:0.03, G:0.08, T:0.48
Consensus pattern (58 bp):
AATAATCTATTATTAGAAGGTATTGTTTGATTAAATTTCTAAATATTAAAAATTATAA
Found at i:37803 original size:19 final size:17
Alignment explanation
Indices: 37779--37820 Score: 50
Period size: 16 Copynumber: 2.4 Consensus size: 17
37769 AAAATTAATT
*
37779 AATAATTTAGATAATATAA
1 AATAATTTA-A-AATAAAA
37798 AATAA-TTAAAATAAAA
1 AATAATTTAAAATAAAA
37814 AATAATT
1 AATAATT
37821 AAACGATTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 11 0.52
17 2 0.10
18 3 0.14
19 5 0.24
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.33
Consensus pattern (17 bp):
AATAATTTAAAATAAAA
Found at i:37810 original size:16 final size:16
Alignment explanation
Indices: 37791--37823 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
37781 TAATTTAGAT
*
37791 AATATAAAATAATTAA
1 AATAAAAAATAATTAA
37807 AATAAAAAATAATTAA
1 AATAAAAAATAATTAA
37823 A
1 A
37824 CGATTAAATA
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:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (16 bp):
AATAAAAAATAATTAA
Found at i:38652 original size:20 final size:22
Alignment explanation
Indices: 38601--38655 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 22
38591 AAAAAAATCG
*
38601 AAAATATTATTAAAATTCATATA
1 AAAATATT-TAAAAATTCATATA
*
38624 AAACCTATTTAAAAATT-ATA-A
1 AAA-ATATTTAAAAATTCATATA
38645 AAAATATTTAA
1 AAAATATTTAA
38656 TTATTTTAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
20 7 0.25
21 4 0.14
22 3 0.11
23 10 0.36
24 4 0.14
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.36
Consensus pattern (22 bp):
AAAATATTTAAAAATTCATATA
Found at i:43757 original size:2 final size:2
Alignment explanation
Indices: 43746--43776 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
43736 GATTTCTATG
43746 AT AT -T 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
43777 GCAAAATTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:47641 original size:3 final size:3
Alignment explanation
Indices: 47633--47694 Score: 72
Period size: 3 Copynumber: 21.0 Consensus size: 3
47623 TTTAAAATTT
* * * * *
47633 TTA TTA TTA CTA TTA TAA TAA TAA TTA TTA ATA TTA -TA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
47680 TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA
47695 AATTTACATT
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
2 2 0.04
3 50 0.96
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (3 bp):
TTA
Found at i:48883 original size:14 final size:14
Alignment explanation
Indices: 48849--48890 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
48839 TAATTTCAAT
48849 ATTTTA-TATTTTA
1 ATTTTATTATTTTA
**
48862 ATCCTATTATTTTA
1 ATTTTATTATTTTA
48876 ATTTTATTTATTTTA
1 ATTTTA-TTATTTTA
48891 GTCACTATTT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
13 4 0.17
14 11 0.48
15 8 0.35
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.67
Consensus pattern (14 bp):
ATTTTATTATTTTA
Found at i:49316 original size:2 final size:2
Alignment explanation
Indices: 49309--49342 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
49299 TGCTTATAAA
49309 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
49343 TTACTTCATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:52428 original size:21 final size:21
Alignment explanation
Indices: 52402--52448 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
52392 GCATTCGTAT
*
52402 TTTTTTTTCATTACATTTGCA
1 TTTTTTATCATTACATTTGCA
** *
52423 TTTTTTATGTTTGCATTTGCA
1 TTTTTTATCATTACATTTGCA
52444 TTTTT
1 TTTTT
52449 ATATTTTCAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.15, C:0.11, G:0.09, T:0.66
Consensus pattern (21 bp):
TTTTTTATCATTACATTTGCA
Found at i:52449 original size:20 final size:20
Alignment explanation
Indices: 52415--52467 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
52405 TTTTTCATTA
*
52415 CATTTGCATTTTTTATGTTTG
1 CATTTGCA-TTTTTATATTTG
*
52436 CATTTGCATTTTTATATTTT
1 CATTTGCATTTTTATATTTG
*
52456 CATTTACATTTT
1 CATTTGCATTTT
52468 CATTTTATAT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 21 0.72
21 8 0.28
ACGTcount: A:0.19, C:0.11, G:0.08, T:0.62
Consensus pattern (20 bp):
CATTTGCATTTTTATATTTG
Found at i:53499 original size:19 final size:18
Alignment explanation
Indices: 53475--53511 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
53465 GAAGGAATTC
*
53475 GAGAATTTATTGATAAATG
1 GAGAATTAATTGA-AAATG
53494 GAGAATTAATTGAAAATG
1 GAGAATTAATTGAAAATG
53512 TGATCAACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.46, C:0.00, G:0.22, T:0.32
Consensus pattern (18 bp):
GAGAATTAATTGAAAATG
Found at i:58098 original size:28 final size:28
Alignment explanation
Indices: 58062--58128 Score: 116
Period size: 28 Copynumber: 2.4 Consensus size: 28
58052 AATAGTAAGA
* *
58062 AAACGATTTCCAAATTTTCTTACTTAGT
1 AAACTATTTCCAAAGTTTCTTACTTAGT
58090 AAACTATTTCCAAAGTTTCTTACTTAGT
1 AAACTATTTCCAAAGTTTCTTACTTAGT
58118 AAACTATTTCC
1 AAACTATTTCC
58129 CACATCTGCA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.33, C:0.19, G:0.06, T:0.42
Consensus pattern (28 bp):
AAACTATTTCCAAAGTTTCTTACTTAGT
Found at i:58195 original size:45 final size:45
Alignment explanation
Indices: 58131--58255 Score: 223
Period size: 45 Copynumber: 2.8 Consensus size: 45
58121 CTATTTCCCA
*
58131 CATCTGCAAGCCCTTCAGTGCATGATGTTTTCAAAGCCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAGCCTTCGGGT
58176 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAGCCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAGCCTTCGGGT
* *
58221 CATCTGTAAGCCCTACAGTGCAGGATGTTTTCAAA
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAA
58256 AAGTCTTCAG
Statistics
Matches: 77, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 77 1.00
ACGTcount: A:0.22, C:0.25, G:0.22, T:0.31
Consensus pattern (45 bp):
CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAGCCTTCGGGT
Found at i:58329 original size:76 final size:76
Alignment explanation
Indices: 58198--58569 Score: 586
Period size: 76 Copynumber: 4.9 Consensus size: 76
58188 CTTCAGTGCA
* * *
58198 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTACAGTGCAGGATGTTTTCAAAAAGTCTT
1 TGATATTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTT
*
58263 CAGGAGCTTTT
66 CGGGAGCTTTT
* *
58274 TGATATTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTACAGTGTAGGATGTTTTCAAAAAGCCTT
1 TGATATTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTT
58339 CGGGAGCTTTT
66 CGGGAGCTTTT
*
58350 TGATATTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGAGCAGGATGTTTTCAAAAAGCCTT
1 TGATATTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCAGGATGTTTTCAAAAAGCC-T
*
58415 TGGGGAGCTTTT
65 TCGGGAGCTTTT
* *
58427 TGATATTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCAAGATGTTTTCAAAAATCCTT
1 TGATATTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTT
58492 CGGGAGCTTTT
66 CGGGAGCTTTT
* * * * *
58503 TGATATTTTCAAAACCTTCGAGACATCTGTAAGACCTATAGTGCATGATGTTTTC-AAAA-CCTT
1 TGATATTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTT
58566 CGGG
66 CGGG
58570 TCATCTATAA
Statistics
Matches: 278, Mismatches: 17, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
74 8 0.03
75 4 0.01
76 194 0.70
77 72 0.26
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.34
Consensus pattern (76 bp):
TGATATTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTT
CGGGAGCTTTT
Found at i:58480 original size:153 final size:152
Alignment explanation
Indices: 58198--58561 Score: 584
Period size: 153 Copynumber: 2.4 Consensus size: 152
58188 CTTCAGTGCA
* * *
58198 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTACAGTGCAGGATGTTTTCAAAAAGTCTT
1 TGATATTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTT
* * *
58263 CAGGAGCTTTTTGATATTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTACAGTGTAGGATGTTTT
66 CAGGAGCTTTTTGATATTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCAAGATGTTTT
58328 CAAAAAGCCTTCGGGAGCTTTT
131 CAAAAAGCCTTCGGGAGCTTTT
*
58350 TGATATTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGAGCAGGATGTTTTCAAAAAGCCTT
1 TGATATTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCAGGATGTTTTCAAAAAGCC-T
**
58415 TGGGGAGCTTTTTGATATTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCAAGATGTTT
65 TCAGGAGCTTTTTGATATTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCAAGATGTTT
*
58480 TCAAAAATCCTTCGGGAGCTTTT
130 TCAAAAAGCCTTCGGGAGCTTTT
* * * * *
58503 TGATATTTTCAAAACCTTCGAGACATCTGTAAGACCTATAGTGCATGATGTTTTCAAAA
1 TGATATTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCAGGATGTTTTCAAAA
58562 CCTTCGGGTC
Statistics
Matches: 195, Mismatches: 16, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
152 59 0.30
153 136 0.70
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.34
Consensus pattern (152 bp):
TGATATTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTT
CAGGAGCTTTTTGATATTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCAAGATGTTTT
CAAAAAGCCTTCGGGAGCTTTT
Found at i:58575 original size:45 final size:45
Alignment explanation
Indices: 58503--58606 Score: 154
Period size: 45 Copynumber: 2.3 Consensus size: 45
58493 GGGAGCTTTT
* *
58503 TGATATTTTCAAAACCTTCGAGACATCTGTAAGACCTATAGTGCA
1 TGATGTTTTCAAAACCTTCGAGACATCTATAAGACCTATAGTGCA
* * *
58548 TGATGTTTTCAAAACCTTCGGGTCATCTATAAGCCCTATAGTGCA
1 TGATGTTTTCAAAACCTTCGAGACATCTATAAGACCTATAGTGCA
*
58593 GGATGTTTTCAAAA
1 TGATGTTTTCAAAA
58607 AACCTTCAGA
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 53 1.00
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (45 bp):
TGATGTTTTCAAAACCTTCGAGACATCTATAAGACCTATAGTGCA
Found at i:58634 original size:76 final size:76
Alignment explanation
Indices: 58553--58758 Score: 315
Period size: 76 Copynumber: 2.7 Consensus size: 76
58543 GTGCATGATG
* * *
58553 TTTTCAAAACCTTCGGGTCATCTATAAGCCCTATAGTGCAGGATGTTTTCAAAAAACCTTC-AGA
1 TTTTCAAAACCTTCGGGTCATCTGTAAGACCTACAGTGCAGGATGTTTTCAAAAAACCTTCGAG-
58617 AGCTTTTTAATA
65 AGCTTTTTAATA
* *
58629 TTTTCAAAACCTTCGGGTCATCTGTAAGACCTACAGTGTAGGATGTTTTCAAAAAGCCTTCGAGA
1 TTTTCAAAACCTTCGGGTCATCTGTAAGACCTACAGTGCAGGATGTTTTCAAAAAACCTTCGAGA
*
58694 GCTTTTTGATA
66 GCTTTTTAATA
* * *
58705 TTTTCAAAACATTCGGGACATCTGTAAGACCTACAGTGCATGATGTTTTCAAAA
1 TTTTCAAAACCTTCGGGTCATCTGTAAGACCTACAGTGCAGGATGTTTTCAAAA
58759 CCTTCGGGTC
Statistics
Matches: 119, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
76 117 0.98
77 2 0.02
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (76 bp):
TTTTCAAAACCTTCGGGTCATCTGTAAGACCTACAGTGCAGGATGTTTTCAAAAAACCTTCGAGA
GCTTTTTAATA
Found at i:58647 original size:274 final size:271
Alignment explanation
Indices: 58274--58766 Score: 797
Period size: 274 Copynumber: 1.8 Consensus size: 271
58264 AGGAGCTTTT
* * * *
58274 TGATATTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTACAGTGTAGGATGTTTTCAAAAAGCCTT
1 TGATATTTTCAAAACCTTCGGGTCATCTATAAGCCCTACAGTGCAGGATGTTTTCAAAAAACCTT
* * * *
58339 CGGGAGCTTTTTGATATTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGAGCAGGATGTTTT
66 CAGAAGCTTTTTAATATTTTCAAAACCTTCGGGTCATCTGTAAGACCTACAGAGCAGGATGTTTT
* * * * *
58404 CAAAAAGCCTTTGGGGAGCTTTTTGATATTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGT
131 CAAAAAGCC-TTCGAGAGCTTTTTGATATTTTCAAAACATTCGGGACATCTGTAAGACCTACAGT
58469 GCAAGATGTTTTCAAAAATCCTTCGGGAGCTTTTTGATATTTTCAAAACCTTCGAGACATCTGTA
195 GCAAGATGTTTTC-AAAA-CCTTCGGGAGCTTTTTGATATTTTCAAAACCTTCGAGACATCTGTA
58534 AGACCTATAGTGCA
258 AGACCTATAGTGCA
* *
58548 TGATGTTTTCAAAACCTTCGGGTCATCTATAAGCCCTATAGTGCAGGATGTTTTCAAAAAACCTT
1 TGATATTTTCAAAACCTTCGGGTCATCTATAAGCCCTACAGTGCAGGATGTTTTCAAAAAACCTT
* *
58613 CAGAAGCTTTTTAATATTTTCAAAACCTTCGGGTCATCTGTAAGACCTACAGTGTAGGATGTTTT
66 CAGAAGCTTTTTAATATTTTCAAAACCTTCGGGTCATCTGTAAGACCTACAGAGCAGGATGTTTT
58678 CAAAAAGCCTTCGAGAGCTTTTTGATATTTTCAAAACATTCGGGACATCTGTAAGACCTACAGTG
131 CAAAAAGCCTTCGAGAGCTTTTTGATATTTTCAAAACATTCGGGACATCTGTAAGACCTACAGTG
*
58743 CATGATGTTTTCAAAACCTTCGGG
196 CAAGATGTTTTCAAAACCTTCGGG
58767 TCATCCATAA
Statistics
Matches: 201, Mismatches: 18, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
271 8 0.04
272 4 0.02
273 62 0.31
274 127 0.63
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.33
Consensus pattern (271 bp):
TGATATTTTCAAAACCTTCGGGTCATCTATAAGCCCTACAGTGCAGGATGTTTTCAAAAAACCTT
CAGAAGCTTTTTAATATTTTCAAAACCTTCGGGTCATCTGTAAGACCTACAGAGCAGGATGTTTT
CAAAAAGCCTTCGAGAGCTTTTTGATATTTTCAAAACATTCGGGACATCTGTAAGACCTACAGTG
CAAGATGTTTTCAAAACCTTCGGGAGCTTTTTGATATTTTCAAAACCTTCGAGACATCTGTAAGA
CCTATAGTGCA
Found at i:58651 original size:121 final size:121
Alignment explanation
Indices: 58427--58682 Score: 377
Period size: 121 Copynumber: 2.1 Consensus size: 121
58417 GGGAGCTTTT
* * * *
58427 TGATATTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCAAGATGTTTTCAAAAATCCTT
1 TGATGTTTTCAAAACCTTCGGGTCATCTATAAGACCTACAGTGCAAGATGTTTTCAAAAAACCTT
* * * *
58492 CGGGAGCTTTTTGATATTTTCAAAACCTTCGAGACATCTGTAAGACCTATAGTGCA
66 CAGAAGCTTTTTAATATTTTCAAAACCTTCGAGACATCTGTAAGACCTACAGTGCA
* * *
58548 TGATGTTTTCAAAACCTTCGGGTCATCTATAAGCCCTATAGTGCAGGATGTTTTCAAAAAACCTT
1 TGATGTTTTCAAAACCTTCGGGTCATCTATAAGACCTACAGTGCAAGATGTTTTCAAAAAACCTT
* * *
58613 CAGAAGCTTTTTAATATTTTCAAAACCTTCGGGTCATCTGTAAGACCTACAGTGTA
66 CAGAAGCTTTTTAATATTTTCAAAACCTTCGAGACATCTGTAAGACCTACAGTGCA
*
58669 GGATGTTTTCAAAA
1 TGATGTTTTCAAAA
58683 AGCCTTCGAG
Statistics
Matches: 120, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
121 120 1.00
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.34
Consensus pattern (121 bp):
TGATGTTTTCAAAACCTTCGGGTCATCTATAAGACCTACAGTGCAAGATGTTTTCAAAAAACCTT
CAGAAGCTTTTTAATATTTTCAAAACCTTCGAGACATCTGTAAGACCTACAGTGCA
Found at i:58666 original size:197 final size:197
Alignment explanation
Indices: 58350--59084 Score: 1071
Period size: 197 Copynumber: 3.7 Consensus size: 197
58340 GGGAGCTTTT
* * ** * *
58350 TGATATTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGAGCAGGATGTTTTCAAAAAGCCTT
1 TGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAACC-T
** * *
58415 TGGGGAGCTTTTTGATATTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCAAGATGTTT
65 TCAGGAGCTTTTTGATATTTTCAAAACCTTCGGGTCATCTGTAAGACCTACAGTGCATGATGTTT
* *
58480 TCAAAAATCCTTCGGGAGCTTTTTGATATTTTCAAAACCTTCGAGACATCTGTAAGACCTATAGT
130 TCAAAAATCCTTCGGGAGCTTTTTGATATTTTCAAAACCTTCGGGACATCTGTAAGACCTACAGT
58545 GCA
195 GCA
* * *
58548 TGATGTTTTCAAAACCTTCGGGTCATCTATAAGCCCTATAGTGCAGGATGTTTTCAAAAAACCTT
1 TGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAACCTT
* * * *
58613 CAGAAGCTTTTTAATATTTTCAAAACCTTCGGGTCATCTGTAAGACCTACAGTGTAGGATGTTTT
66 CAGGAGCTTTTTGATATTTTCAAAACCTTCGGGTCATCTGTAAGACCTACAGTGCATGATGTTTT
* * *
58678 CAAAAAGCCTTCGAGAGCTTTTTGATATTTTCAAAACATTCGGGACATCTGTAAGACCTACAGTG
131 CAAAAATCCTTCGGGAGCTTTTTGATATTTTCAAAACCTTCGGGACATCTGTAAGACCTACAGTG
58743 CA
196 CA
** * * * *
58745 TGATGTTTTCAAAACCTTCGGGTCATCCATAATCCCTACAATGCAAGATGTTTTCAAAAAGCGTT
1 TGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAACCTT
*
58810 CAGGAGCTTTTTGATATTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCATGATGTTTT
66 CAGGAGCTTTTTGATATTTTCAAAACCTTCGGGTCATCTGTAAGACCTACAGTGCATGATGTTTT
* * * * *
58875 CAAAAAAATCCTTTGGGAGCTTTTTAATATTTTTAAAACCTTCGGGACATTTGTAAGACCTACAA
131 C--AAAAATCCTTCGGGAGCTTTTTGATATTTTCAAAACCTTCGGGACATCTGTAAGACCTACAG
58940 TGCA
194 TGCA
* *
58944 TGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGTAGGATGTTTTCAAAAAATCTT
1 TGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAACCTT
* * *
59009 CGGGAGC-TTTTGATATTTTCAAAACCTTCGGGACATCTGTAAGACCTACAGTGCATGTTGTTTT
66 CAGGAGCTTTTTGATATTTTCAAAACCTTCGGGTCATCTGTAAGACCTACAGTGCATGATGTTTT
59073 C-AAAA-CCTTCGG
131 CAAAAATCCTTCGG
59085 ATCATACATA
Statistics
Matches: 483, Mismatches: 52, Indels: 8
0.89 0.10 0.01
Matches are distributed among these distances:
194 6 0.01
195 4 0.01
197 241 0.50
198 111 0.23
199 121 0.25
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (197 bp):
TGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAACCTT
CAGGAGCTTTTTGATATTTTCAAAACCTTCGGGTCATCTGTAAGACCTACAGTGCATGATGTTTT
CAAAAATCCTTCGGGAGCTTTTTGATATTTTCAAAACCTTCGGGACATCTGTAAGACCTACAGTG
CA
Found at i:58754 original size:121 final size:121
Alignment explanation
Indices: 58629--58879 Score: 387
Period size: 121 Copynumber: 2.1 Consensus size: 121
58619 CTTTTTAATA
** * * *
58629 TTTTCAAAACCTTCGGGTCATCTGTAAGACCTACAGTGTAGGATGTTTTCAAAAAGCCTTC-GAG
1 TTTTCAAAACCTTCGGGTCATCCATAAGACCTACAATGCAAGATGTTTTCAAAAAGCCTTCAG-G
58693 AGCTTTTTGATATTTTCAAAACATTCGGGACATCTGTAAGACCTACAGTGCATGATG
65 AGCTTTTTGATATTTTCAAAACATTCGGGACATCTGTAAGACCTACAGTGCATGATG
** *
58750 TTTTCAAAACCTTCGGGTCATCCATAATCCCTACAATGCAAGATGTTTTCAAAAAGCGTTCAGGA
1 TTTTCAAAACCTTCGGGTCATCCATAAGACCTACAATGCAAGATGTTTTCAAAAAGCCTTCAGGA
* * *
58815 GCTTTTTGATATTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCATGATG
66 GCTTTTTGATATTTTCAAAACATTCGGGACATCTGTAAGACCTACAGTGCATGATG
58871 TTTTCAAAA
1 TTTTCAAAA
58880 AAATCCTTTG
Statistics
Matches: 118, Mismatches: 11, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
121 117 0.99
122 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (121 bp):
TTTTCAAAACCTTCGGGTCATCCATAAGACCTACAATGCAAGATGTTTTCAAAAAGCCTTCAGGA
GCTTTTTGATATTTTCAAAACATTCGGGACATCTGTAAGACCTACAGTGCATGATG
Found at i:58783 original size:45 final size:45
Alignment explanation
Indices: 58700--58803 Score: 127
Period size: 45 Copynumber: 2.3 Consensus size: 45
58690 GAGAGCTTTT
* ** *
58700 TGATATTTTCAAAACATTCGGGACATCTGTAAGACCTACAGTGCA
1 TGATGTTTTCAAAACATTCGGGACATCCATAAGACCTACAATGCA
* * **
58745 TGATGTTTTCAAAACCTTCGGGTCATCCATAATCCCTACAATGCA
1 TGATGTTTTCAAAACATTCGGGACATCCATAAGACCTACAATGCA
*
58790 AGATGTTTTCAAAA
1 TGATGTTTTCAAAA
58804 AGCGTTCAGG
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 50 1.00
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.31
Consensus pattern (45 bp):
TGATGTTTTCAAAACATTCGGGACATCCATAAGACCTACAATGCA
Found at i:58833 original size:76 final size:76
Alignment explanation
Indices: 58745--58957 Score: 264
Period size: 78 Copynumber: 2.8 Consensus size: 76
58735 CTACAGTGCA
* ** ** * *
58745 TGATGTTTTCAAAACCTTCGGGTCATCCATAATCCCTACAATGCAAGATGTTTTCAAAAAGCGTT
1 TGATATTTTCAAAACCTTCGGGTCATCTGTAAGACCTACAATGCATGATGTTTTCAAAAAGCCTT
58810 CAGGAGCTTTT
66 CAGGAGCTTTT
* * *
58821 TGATATTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAAATCC
1 TGATATTTTCAAAACCTTCGGGTCATCTGTAAGACCTACAATGCATGATGTTTTC--AAAAAGCC
**
58886 TTTGGGAGCTTTT
64 TTCAGGAGCTTTT
* * * *
58899 TAATATTTTTAAAACCTTCGGGACATTTGTAAGACCTACAATGCATGATGTTTTCAAAA
1 TGATATTTTCAAAACCTTCGGGTCATCTGTAAGACCTACAATGCATGATGTTTTCAAAA
58958 CCTTCGGGTC
Statistics
Matches: 117, Mismatches: 18, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
76 51 0.44
78 66 0.56
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.35
Consensus pattern (76 bp):
TGATATTTTCAAAACCTTCGGGTCATCTGTAAGACCTACAATGCATGATGTTTTCAAAAAGCCTT
CAGGAGCTTTT
Found at i:58977 original size:45 final size:45
Alignment explanation
Indices: 58904--59002 Score: 126
Period size: 45 Copynumber: 2.2 Consensus size: 45
58894 CTTTTTAATA
* *** *
58904 TTTTTAAAACCTTCGGGACATTTGTAAGACCTACAATGCATGATG
1 TTTTCAAAACCTTCGGGACATCCATAAGACCTACAATGCAGGATG
* * *
58949 TTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGTAGGATG
1 TTTTCAAAACCTTCGGGACATCCATAAGACCTACAATGCAGGATG
58994 TTTTCAAAA
1 TTTTCAAAA
59003 AATCTTCGGG
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.32
Consensus pattern (45 bp):
TTTTCAAAACCTTCGGGACATCCATAAGACCTACAATGCAGGATG
Found at i:58994 original size:123 final size:122
Alignment explanation
Indices: 58821--59231 Score: 637
Period size: 123 Copynumber: 3.4 Consensus size: 122
58811 AGGAGCTTTT
* * ** *
58821 TGATATTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAAATCC
1 TGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCAGGATGTTTTC-AAAAAATCC
* * * * *
58886 TTTGGGAGCTTTTTAATATTTTTAAAACCTTCGGGACATTTGTAAGACCTACAATGCA
65 TTCGGGAGCTTTTTGATATTTTCAAAACCTTCGGGACATCTGTAAGACCTACAGTGCA
*
58944 TGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGTAGGATGTTTTCAAAAAAT-CT
1 TGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAATCCT
59008 TCGGGAGC-TTTTGATATTTTCAAAACCTTCGGGACATCTGTAAGACCTACAGTGCA
66 TCGGGAGCTTTTTGATATTTTCAAAACCTTCGGGACATCTGTAAGACCTACAGTGCA
* * *
59064 TGTTGTTTTCAAAACCTTCGGATCATACATAAGACCTACAGTGCAGGATGTTTTCAAAAAATGCC
1 TGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAAT-CC
* *
59129 TTCGAGAGCTTTTTGATATTTTCAAAACCTTCGGGACATCTGTAAGACCTTCAGTGCA
65 TTCGGGAGCTTTTTGATATTTTCAAAACCTTCGGGACATCTGTAAGACCTACAGTGCA
*
59187 TGATGTTTTCAAAACCTCCGGGTCATCCATAAGACCTACAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCA
59232 AGATAATAAG
Statistics
Matches: 264, Mismatches: 21, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
120 102 0.39
121 9 0.03
122 16 0.06
123 137 0.52
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.32
Consensus pattern (122 bp):
TGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAATCCT
TCGGGAGCTTTTTGATATTTTCAAAACCTTCGGGACATCTGTAAGACCTACAGTGCA
Found at i:59097 original size:45 final size:45
Alignment explanation
Indices: 59024--59122 Score: 139
Period size: 45 Copynumber: 2.2 Consensus size: 45
59014 GCTTTTGATA
* * *
59024 TTTTCAAAACCTTCGGGACATCTGTAAGACCTACAGTGCATGTTG
1 TTTTCAAAACCTTCGGGACATCTATAAGACCTACAGTGCAGGATG
59069 TTTTCAAAACCTTC-GGATCATAC-ATAAGACCTACAGTGCAGGATG
1 TTTTCAAAACCTTCGGGA-CAT-CTATAAGACCTACAGTGCAGGATG
59114 TTTTCAAAA
1 TTTTCAAAA
59123 AATGCCTTCG
Statistics
Matches: 49, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
44 3 0.06
45 45 0.92
46 1 0.02
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.30
Consensus pattern (45 bp):
TTTTCAAAACCTTCGGGACATCTATAAGACCTACAGTGCAGGATG
Found at i:59198 original size:45 final size:45
Alignment explanation
Indices: 59142--59236 Score: 127
Period size: 45 Copynumber: 2.1 Consensus size: 45
59132 GAGAGCTTTT
* ** *
59142 TGATATTTTCAAAACCTTCGGGACATCTGTAAGACCTTCAGTGCA
1 TGATATTTTCAAAACCTCCGGGACATCCATAAGACCTACAGTGCA
* *
59187 TGATGTTTTCAAAACCTCCGGGTCATCCATAAGACCTACAGTGCA
1 TGATATTTTCAAAACCTCCGGGACATCCATAAGACCTACAGTGCA
*
59232 AGATA
1 TGATA
59237 ATAAGACCTC
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.28
Consensus pattern (45 bp):
TGATATTTTCAAAACCTCCGGGACATCCATAAGACCTACAGTGCA
Found at i:59416 original size:13 final size:13
Alignment explanation
Indices: 59398--59422 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
59388 AATACTACTT
59398 TTTTCATTTTATG
1 TTTTCATTTTATG
59411 TTTTCATTTTAT
1 TTTTCATTTTAT
59423 TATTATTATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.08, G:0.04, T:0.72
Consensus pattern (13 bp):
TTTTCATTTTATG
Found at i:59427 original size:3 final size:3
Alignment explanation
Indices: 59419--59482 Score: 110
Period size: 3 Copynumber: 21.0 Consensus size: 3
59409 TGTTTTCATT
*
59419 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTT TTA TTA TTA TTA TATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
59465 TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA
59483 AATTTACATT
Statistics
Matches: 58, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
3 55 0.95
4 3 0.05
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:60641 original size:21 final size:20
Alignment explanation
Indices: 60617--60661 Score: 63
Period size: 21 Copynumber: 2.2 Consensus size: 20
60607 AATTAGTATC
*
60617 TTTAATTTTAATATTTTATAT
1 TTTAATTCTAATATTTTA-AT
*
60638 TTTAATTCTATTATTTTAAT
1 TTTAATTCTAATATTTTAAT
60658 TTTA
1 TTTA
60662 TTTATTTTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 6 0.27
21 16 0.73
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (20 bp):
TTTAATTCTAATATTTTAAT
Found at i:60652 original size:14 final size:15
Alignment explanation
Indices: 60635--60670 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
60625 TAATATTTTA
60635 TATTTTAATTCTA-T
1 TATTTTAATTCTATT
*
60649 TATTTTAATTTTATT
1 TATTTTAATTCTATT
60664 TATTTTA
1 TATTTTA
60671 GTCACTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 12 0.60
15 8 0.40
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (15 bp):
TATTTTAATTCTATT
Found at i:60668 original size:15 final size:15
Alignment explanation
Indices: 60621--60670 Score: 59
Period size: 15 Copynumber: 3.4 Consensus size: 15
60611 AGTATCTTTA
*
60621 ATTTTAATATTT-TAT
1 ATTTTAAT-TTTATTT
*
60636 ATTTTAATTCTA-TT
1 ATTTTAATTTTATTT
60650 ATTTTAATTTTATTT
1 ATTTTAATTTTATTT
60665 ATTTTA
1 ATTTTA
60671 GTCACTATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
14 14 0.47
15 16 0.53
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (15 bp):
ATTTTAATTTTATTT
Found at i:60707 original size:26 final size:25
Alignment explanation
Indices: 60651--60711 Score: 70
Period size: 26 Copynumber: 2.4 Consensus size: 25
60641 AATTCTATTA
*
60651 TTTTAATTTTATTTATTTTAGTCAC
1 TTTTAATTTAATTTATTTTAGTCAC
*
60676 TATTTAATTGTAATTTATTTTA-TTATC
1 T-TTTAATT-TAATTTATTTTAGTCA-C
60703 TTTTAATTT
1 TTTTAATTT
60712 CAATATGTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
25 2 0.06
26 16 0.52
27 13 0.42
ACGTcount: A:0.26, C:0.05, G:0.03, T:0.66
Consensus pattern (25 bp):
TTTTAATTTAATTTATTTTAGTCAC
Found at i:62797 original size:172 final size:172
Alignment explanation
Indices: 62511--62860 Score: 637
Period size: 172 Copynumber: 2.0 Consensus size: 172
62501 ATGACAAAAA
* * ***
62511 GTGAAAGCAATTACATAAAATTTGAGACAGGGGGGCAGGACATGTCTTTTTCACACTCAAATTTA
1 GTGAAAGCAATTACAGAAAACTTGAGACAGGGAAACAGGACATGTCTTTTTCACACTCAAATTTA
62576 GAAGGAAAAAGAAAAGAGTAAATATCATCTTTCTAAATAGCCAAAACAAAGAACATGTCACACCC
66 GAAGGAAAAAGAAAAGAGTAAATATCATCTTTCTAAATAGCCAAAACAAAGAACATGTCACACCC
62641 AAGTCTAGAAACTATTGGCTGGTCATCCTAATGCTGGACATG
131 AAGTCTAGAAACTATTGGCTGGTCATCCTAATGCTGGACATG
*
62683 GTGAAAGCAATTACAGAAAACTTGAGACAGGGAAACAGGACATGTCTTTTTCACATTCAAATTTA
1 GTGAAAGCAATTACAGAAAACTTGAGACAGGGAAACAGGACATGTCTTTTTCACACTCAAATTTA
62748 GAAGGAAAAAGAAAAGAGTAAATATCATCTTTCTAAATAGCCAAAACAAAGAACATGTCACACCC
66 GAAGGAAAAAGAAAAGAGTAAATATCATCTTTCTAAATAGCCAAAACAAAGAACATGTCACACCC
*
62813 AAGTCTAGAAACTATTGGTTGGTCATCCTAATGCTGGACATG
131 AAGTCTAGAAACTATTGGCTGGTCATCCTAATGCTGGACATG
62855 GTGAAA
1 GTGAAA
62861 TTTAAGCATT
Statistics
Matches: 171, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
172 171 1.00
ACGTcount: A:0.41, C:0.17, G:0.19, T:0.24
Consensus pattern (172 bp):
GTGAAAGCAATTACAGAAAACTTGAGACAGGGAAACAGGACATGTCTTTTTCACACTCAAATTTA
GAAGGAAAAAGAAAAGAGTAAATATCATCTTTCTAAATAGCCAAAACAAAGAACATGTCACACCC
AAGTCTAGAAACTATTGGCTGGTCATCCTAATGCTGGACATG
Found at i:68115 original size:22 final size:22
Alignment explanation
Indices: 68072--68120 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
68062 ATACACTTAT
68072 TAAAT-TTAATTAATTAAAATA
1 TAAATATTAATTAATTAAAATA
*
68093 TAAATATTAAATTAA-TAATATA
1 TAAATATT-AATTAATTAAAATA
68115 TAAATA
1 TAAATA
68121 CTGAATATCA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
21 5 0.20
22 14 0.56
23 6 0.24
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (22 bp):
TAAATATTAATTAATTAAAATA
Found at i:74621 original size:14 final size:14
Alignment explanation
Indices: 74604--74638 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
74594 TGAAAAGTAA
74604 TATTATTTTTATAT
1 TATTATTTTTATAT
*
74618 TATTATTTTTGTAT
1 TATTATTTTTATAT
74632 TA-TATTT
1 TATTATTT
74639 CTCTTTGATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 5 0.25
14 15 0.75
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (14 bp):
TATTATTTTTATAT
Done.