Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008545.1 Hibiscus syriacus cultivar Beakdansim tig00111434_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: 65153
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.32
Found at i:2379 original size:23 final size:23
Alignment explanation
Indices: 2288--2371 Score: 123
Period size: 23 Copynumber: 3.7 Consensus size: 23
2278 CAATCTTATA
*
2288 TGGCACTACGGTGCAATTCTACG
1 TGGCACTTCGGTGCAATTCTACG
* *
2311 CGGCAGTTCGGTGCAATTCTACG
1 TGGCACTTCGGTGCAATTCTACG
*
2334 TGGCACTTCGGTGTAATTCTACG
1 TGGCACTTCGGTGCAATTCTACG
*
2357 TGGCACTTCTGTGCA
1 TGGCACTTCGGTGCA
2372 TTTATACGAG
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 53 1.00
ACGTcount: A:0.18, C:0.25, G:0.27, T:0.30
Consensus pattern (23 bp):
TGGCACTTCGGTGCAATTCTACG
Found at i:9215 original size:23 final size:23
Alignment explanation
Indices: 9162--9220 Score: 91
Period size: 23 Copynumber: 2.6 Consensus size: 23
9152 CAATCTTATA
* *
9162 TGGCACTACAGTGCAATTCTACG
1 TGGCACTTCGGTGCAATTCTACG
*
9185 CGGCACTTCGGTGCAATTCTACG
1 TGGCACTTCGGTGCAATTCTACG
9208 TGGCACTTCGGTG
1 TGGCACTTCGGTG
9221 TATTTATACG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.19, C:0.27, G:0.27, T:0.27
Consensus pattern (23 bp):
TGGCACTTCGGTGCAATTCTACG
Found at i:9230 original size:23 final size:23
Alignment explanation
Indices: 9163--9230 Score: 73
Period size: 23 Copynumber: 3.0 Consensus size: 23
9153 AATCTTATAT
* * *
9163 GGCACTACAGTGCAATTCTACGC
1 GGCACTTCGGTGCAATTATACGC
* *
9186 GGCACTTCGGTGCAATTCTACGT
1 GGCACTTCGGTGCAATTATACGC
* *
9209 GGCACTTCGGTGTATTTATACG
1 GGCACTTCGGTGCAATTATACG
9231 AGCTGTGGTG
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.21, C:0.25, G:0.25, T:0.29
Consensus pattern (23 bp):
GGCACTTCGGTGCAATTATACGC
Found at i:10807 original size:35 final size:35
Alignment explanation
Indices: 10756--10837 Score: 155
Period size: 35 Copynumber: 2.3 Consensus size: 35
10746 CTACCCTATG
*
10756 TATCGATGCATCCCTAGACGGGTGCATCGAAGCAC
1 TATCTATGCATCCCTAGACGGGTGCATCGAAGCAC
10791 TATCTATGCATCCCTAGACGGGTGCATCGAAGCAC
1 TATCTATGCATCCCTAGACGGGTGCATCGAAGCAC
10826 TATCTATGCATC
1 TATCTATGCATC
10838 GGTGCACAAA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
35 46 1.00
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (35 bp):
TATCTATGCATCCCTAGACGGGTGCATCGAAGCAC
Found at i:10897 original size:63 final size:63
Alignment explanation
Indices: 10810--10971 Score: 186
Period size: 63 Copynumber: 2.6 Consensus size: 63
10800 ATCCCTAGAC
* * **
10810 GGGTGCATCGAAGCACTATCTATGCATCGGTGCACAAATCCCATTCGATGTTTGTATTTT-AG
1 GGGTGCATCGATGCACTATCTATGCATCGATGCACAAATCCCATTCGATGTTTCCATTTTAAG
* * * *
10872 GGGATGCATCGATGCACT-CCTTATGCATCGATGCACCAATCGCATTCGATGTTTCCATTTTAAT
1 GGG-TGCATCGATGCACTATC-TATGCATCGATGCACAAATCCCATTCGATGTTTCCATTTTAAG
* *
10936 GGGTGCATCGATGCACT-TCCTGTGCATCGATACACA
1 GGGTGCATCGATGCACTAT-CTATGCATCGATGCACA
10972 CTGAACAATT
Statistics
Matches: 84, Mismatches: 12, Indels: 7
0.82 0.12 0.07
Matches are distributed among these distances:
62 4 0.05
63 75 0.89
64 5 0.06
ACGTcount: A:0.23, C:0.24, G:0.22, T:0.31
Consensus pattern (63 bp):
GGGTGCATCGATGCACTATCTATGCATCGATGCACAAATCCCATTCGATGTTTCCATTTTAAG
Found at i:12339 original size:18 final size:18
Alignment explanation
Indices: 12316--12356 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
12306 ATATCCCTAT
12316 TTCTTATACAAAAATTTA
1 TTCTTATACAAAAATTTA
* *
12334 TTCTTATACATAACTTTA
1 TTCTTATACAAAAATTTA
12352 TTCTT
1 TTCTT
12357 TATCATCTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.34, C:0.15, G:0.00, T:0.51
Consensus pattern (18 bp):
TTCTTATACAAAAATTTA
Found at i:15152 original size:44 final size:44
Alignment explanation
Indices: 15071--15170 Score: 130
Period size: 44 Copynumber: 2.3 Consensus size: 44
15061 GCACTATCTA
* **
15071 TGCATCGGTGCACAAATCCCATTCGATGTTTGTATTTT-AGGGG
1 TGCATCGATGCACAAATCCCATTCGATGTTTCCATTTTAAGGGG
* * *
15114 ATGTATCGATGCACCAATCCCATTCGATGTTTCCATTTTAATGGG
1 -TGCATCGATGCACAAATCCCATTCGATGTTTCCATTTTAAGGGG
15159 TGCATCGATGCA
1 TGCATCGATGCA
15171 TTTCCTGTGC
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
44 44 0.92
45 4 0.08
ACGTcount: A:0.23, C:0.21, G:0.22, T:0.34
Consensus pattern (44 bp):
TGCATCGATGCACAAATCCCATTCGATGTTTCCATTTTAAGGGG
Found at i:25446 original size:5 final size:5
Alignment explanation
Indices: 25417--25485 Score: 93
Period size: 5 Copynumber: 13.8 Consensus size: 5
25407 GTCCGTCCGT
* * * * *
25417 CTCGT CTCGT CTCGG CTCGG CTCGG CTCGG CACGG CACGG CACGG CTCGG
1 CTCGG CTCGG CTCGG CTCGG CTCGG CTCGG CTCGG CTCGG CTCGG CTCGG
25467 CTCGG CTCGG CTCGG CTCG
1 CTCGG CTCGG CTCGG CTCG
25486 TGGTCGTGGT
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
5 61 1.00
ACGTcount: A:0.04, C:0.41, G:0.36, T:0.19
Consensus pattern (5 bp):
CTCGG
Found at i:25494 original size:6 final size:6
Alignment explanation
Indices: 25483--25531 Score: 80
Period size: 6 Copynumber: 8.2 Consensus size: 6
25473 TCGGCTCGGC
* *
25483 TCGTGG TCGTGG TCGAGG TCGAGG TCGTGG TCGTGG TCGTGG TCGTGG
1 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG
25531 T
1 T
25532 AATACGTGTC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 41 1.00
ACGTcount: A:0.04, C:0.16, G:0.49, T:0.31
Consensus pattern (6 bp):
TCGTGG
Found at i:31418 original size:5 final size:5
Alignment explanation
Indices: 31394--31453 Score: 66
Period size: 5 Copynumber: 12.0 Consensus size: 5
31384 GTCCGTCCGT
* * * * * *
31394 CTCGT CTCGT CTCGG CTCGG CTCGG CACGG CACGG CACGG CACGG CTCGG
1 CTCGG CTCGG CTCGG CTCGG CTCGG CTCGG CTCGG CTCGG CTCGG CTCGG
31444 CTCGG CTCGG
1 CTCGG CTCGG
31454 TTCGTGGTCG
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
5 52 1.00
ACGTcount: A:0.07, C:0.40, G:0.37, T:0.17
Consensus pattern (5 bp):
CTCGG
Found at i:31466 original size:6 final size:6
Alignment explanation
Indices: 31455--31509 Score: 101
Period size: 6 Copynumber: 9.2 Consensus size: 6
31445 TCGGCTCGGT
*
31455 TCGTGG TCGTGG TCGAGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG
1 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG
31503 TCGTGG T
1 TCGTGG T
31510 AATACGTGTA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 47 1.00
ACGTcount: A:0.02, C:0.16, G:0.49, T:0.33
Consensus pattern (6 bp):
TCGTGG
Found at i:31809 original size:22 final size:22
Alignment explanation
Indices: 31784--31838 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
31774 TCAGGAGTTA
* *
31784 CAGGAGTTATTTGATTTAATTT
1 CAGGAGTTATATGATATAATTT
* *
31806 CAGGGGTTACATGATATAATTT
1 CAGGAGTTATATGATATAATTT
*
31828 CGGGAGTTATA
1 CAGGAGTTATA
31839 ACAGCTGAAT
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.29, C:0.07, G:0.24, T:0.40
Consensus pattern (22 bp):
CAGGAGTTATATGATATAATTT
Found at i:40990 original size:24 final size:23
Alignment explanation
Indices: 40954--41000 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
40944 GCCGATACAA
*
40954 TAATAATTTTAAATTGTGTTATTT
1 TAATAATTGTAAA-TGTGTTATTT
* *
40978 TAATTATTGTAAATGTTTTATTT
1 TAATAATTGTAAATGTGTTATTT
41001 ATTTATTTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 9 0.45
24 11 0.55
ACGTcount: A:0.32, C:0.00, G:0.09, T:0.60
Consensus pattern (23 bp):
TAATAATTGTAAATGTGTTATTT
Found at i:43323 original size:23 final size:22
Alignment explanation
Indices: 43297--43371 Score: 71
Period size: 23 Copynumber: 3.3 Consensus size: 22
43287 TGACATATGA
43297 ATATGCAATACGTGATACATGTG
1 ATATG-AATACGTGATACATGTG
* ** *
43320 ATATG-ATATGAAATGACATATG
1 ATATGAATACGTGAT-ACATGTG
43342 AATATGTAATACGTGATACATGTG
1 -ATATG-AATACGTGATACATGTG
43366 ATATGA
1 ATATGA
43372 TATGAAATAC
Statistics
Matches: 40, Mismatches: 8, Indels: 9
0.70 0.14 0.16
Matches are distributed among these distances:
21 6 0.15
22 7 0.17
23 15 0.38
24 6 0.15
25 6 0.15
ACGTcount: A:0.40, C:0.08, G:0.20, T:0.32
Consensus pattern (22 bp):
ATATGAATACGTGATACATGTG
Found at i:43329 original size:46 final size:46
Alignment explanation
Indices: 43279--43383 Score: 194
Period size: 46 Copynumber: 2.3 Consensus size: 46
43269 CTATGTGACT
43279 ATATGAAATGACATATGAATATGCAATACGTGATACATGTGATATG
1 ATATGAAATGACATATGAATATGCAATACGTGATACATGTGATATG
*
43325 ATATGAAATGACATATGAATATGTAATACGTGATACATGTGATATG
1 ATATGAAATGACATATGAATATGCAATACGTGATACATGTGATATG
43371 ATATGAAAT-ACAT
1 ATATGAAATGACAT
43384 GGTTACACAT
Statistics
Matches: 58, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
45 4 0.07
46 54 0.93
ACGTcount: A:0.43, C:0.08, G:0.18, T:0.31
Consensus pattern (46 bp):
ATATGAAATGACATATGAATATGCAATACGTGATACATGTGATATG
Found at i:43570 original size:21 final size:21
Alignment explanation
Indices: 43545--43591 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
43535 ATAGGTCCCA
*
43545 CGGGACACAGATTACATCCTT
1 CGGGACACAGATGACATCCTT
* *
43566 TGGGACACAGATGATATCCTT
1 CGGGACACAGATGACATCCTT
43587 CGGGA
1 CGGGA
43592 TGATAGGTCC
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:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (21 bp):
CGGGACACAGATGACATCCTT
Found at i:43595 original size:15 final size:16
Alignment explanation
Indices: 43575--43608 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
43565 TTGGGACACA
43575 GATGATA-TCCTTCGG
1 GATGATAGTCCTTCGG
43590 GATGATAGGTCCTTCGG
1 GATGATA-GTCCTTCGG
43607 GA
1 GA
43609 CATTTGTACG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.41
17 10 0.59
ACGTcount: A:0.21, C:0.18, G:0.32, T:0.29
Consensus pattern (16 bp):
GATGATAGTCCTTCGG
Found at i:50063 original size:46 final size:46
Alignment explanation
Indices: 50007--50099 Score: 141
Period size: 46 Copynumber: 2.0 Consensus size: 46
49997 CTATGTGACT
* * * *
50007 ATATGAAATGATATATGAATATGCAATACGTGATATATGTGATATG
1 ATATGAAATGACATATGAATATGCAATACGAGATACATATGATATG
*
50053 ATATGAAATGACATATGAATATGTAATACGAGATACATATGATATG
1 ATATGAAATGACATATGAATATGCAATACGAGATACATATGATATG
50099 A
1 A
50100 AATACATGGT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.44, C:0.05, G:0.18, T:0.32
Consensus pattern (46 bp):
ATATGAAATGACATATGAATATGCAATACGAGATACATATGATATG
Found at i:50104 original size:23 final size:23
Alignment explanation
Indices: 50019--50100 Score: 71
Period size: 23 Copynumber: 3.6 Consensus size: 23
50009 ATGAAATGAT
* *
50019 ATATGAATATGCAATACGTGATAT
1 ATATGAATATG-AATACGAGATAC
* * *
50043 ATGTG-ATATG-ATATGAAATGAC
1 ATATGAATATGAATACGAGAT-AC
50065 ATATGAATATGTAATACGAGATAC
1 ATATGAATATG-AATACGAGATAC
50089 ATATG-ATATGAA
1 ATATGAATATGAA
50101 ATACATGGTT
Statistics
Matches: 46, Mismatches: 8, Indels: 10
0.72 0.12 0.16
Matches are distributed among these distances:
21 6 0.13
22 7 0.15
23 15 0.33
24 11 0.24
25 7 0.15
ACGTcount: A:0.44, C:0.06, G:0.18, T:0.32
Consensus pattern (23 bp):
ATATGAATATGAATACGAGATAC
Found at i:50287 original size:21 final size:21
Alignment explanation
Indices: 50263--50314 Score: 86
Period size: 21 Copynumber: 2.5 Consensus size: 21
50253 ATATGATAGG
* *
50263 TCCTACGGGACACAGATTACA
1 TCCTTCGGGACACAGATGACA
50284 TCCTTCGGGACACAGATGACA
1 TCCTTCGGGACACAGATGACA
50305 TCCTTCGGGA
1 TCCTTCGGGA
50315 TGATAGGTCC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.27, C:0.29, G:0.23, T:0.21
Consensus pattern (21 bp):
TCCTTCGGGACACAGATGACA
Found at i:51520 original size:21 final size:21
Alignment explanation
Indices: 51442--51542 Score: 103
Period size: 21 Copynumber: 4.8 Consensus size: 21
51432 GCATCGTAGC
* * *
51442 CATTTCATATGGCACCGCATT
1 CATTTCAGATGGCACCACAGT
* * **
51463 CGTTTCAGATGGCACAACAAC
1 CATTTCAGATGGCACCACAGT
51484 CATTTCAGATGGCACCACAGT
1 CATTTCAGATGGCACCACAGT
* *
51505 CATTTCAGATGCCACCGCAGT
1 CATTTCAGATGGCACCACAGT
* *
51526 CAGTTCAGATGCCACCA
1 CATTTCAGATGGCACCA
51543 TTGCAGGATT
Statistics
Matches: 66, Mismatches: 14, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
21 66 1.00
ACGTcount: A:0.28, C:0.31, G:0.18, T:0.24
Consensus pattern (21 bp):
CATTTCAGATGGCACCACAGT
Found at i:54775 original size:31 final size:30
Alignment explanation
Indices: 54740--54831 Score: 73
Period size: 31 Copynumber: 3.0 Consensus size: 30
54730 TTAATATTTC
54740 AATTTCATCCCTAAATTATGACTCTCATTCT
1 AATTTCATCCCTAAATTATGAC-CTCATTCT
* * *
54771 AATTT-AGTCCTTAAACTTTTGA--ACATTCT
1 AATTTCA-TCCCTAAA-TTATGACCTCATTCT
* * *
54800 AATTCCATCCCTAAACTATGACCCTCTTTCT
1 AATTTCATCCCTAAATTATGA-CCTCATTCT
54831 A
1 A
54832 CATCCCCAAA
Statistics
Matches: 46, Mismatches: 9, Indels: 12
0.69 0.13 0.18
Matches are distributed among these distances:
28 4 0.09
29 17 0.37
30 2 0.04
31 18 0.39
32 5 0.11
ACGTcount: A:0.29, C:0.26, G:0.04, T:0.40
Consensus pattern (30 bp):
AATTTCATCCCTAAATTATGACCTCATTCT
Found at i:54782 original size:60 final size:60
Alignment explanation
Indices: 54692--54831 Score: 160
Period size: 60 Copynumber: 2.3 Consensus size: 60
54682 ATATGTCTTC
* * * * *
54692 AAACTATAACCCTCATTTTAAATT-GTTCCTTAAACTTCTT-AATATT-TCAATTTCATCCCT
1 AAACTATGACCCTCATTCTAATTTAG-TCCTTAAACTT-TTGAACATTCT-AATTCCATCCCT
* *
54752 AAATTATGACTCTCATTCTAATTTAGTCCTTAAACTTTTGAACATTCTAATTCCATCCCT
1 AAACTATGACCCTCATTCTAATTTAGTCCTTAAACTTTTGAACATTCTAATTCCATCCCT
*
54812 AAACTATGACCCTCTTTCTA
1 AAACTATGACCCTCATTCTA
54832 CATCCCCAAA
Statistics
Matches: 67, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
59 2 0.03
60 63 0.94
61 2 0.03
ACGTcount: A:0.31, C:0.24, G:0.04, T:0.41
Consensus pattern (60 bp):
AAACTATGACCCTCATTCTAATTTAGTCCTTAAACTTTTGAACATTCTAATTCCATCCCT
Found at i:61528 original size:3 final size:3
Alignment explanation
Indices: 61520--61635 Score: 126
Period size: 3 Copynumber: 38.0 Consensus size: 3
61510 TTATTTATTA
*
61520 AAT AAT AAT ATAT AAT ATT AAT AAT AAT AAT AAAT AAT AAT AAT AAT
1 AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT
* * * * *
61567 -AT TAT AAT TAT AAT AAT AAT AAT ACT AAT ACT AAT AAT AAT ACT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
**
61614 ATAT AAT TTT AAT AAT AAT AAT
1 A-AT AAT AAT AAT AAT AAT AAT
61636 TTTAAATGAA
Statistics
Matches: 94, Mismatches: 15, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
2 2 0.02
3 83 0.88
4 9 0.10
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.39
Consensus pattern (3 bp):
AAT
Found at i:62006 original size:76 final size:76
Alignment explanation
Indices: 61767--62325 Score: 977
Period size: 76 Copynumber: 7.4 Consensus size: 76
61757 GAAACGTTGA
*
61767 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGG-TTTGAAAATATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
61831 AGGCTTTTTGG
66 AGGCTTTTTGG
61842 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTG-AAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
*
61906 CGGCTTTTTGG
66 AGGCTTTTTGG
* *
61917 AAACATCATGCACTGGAGGACTTACAGATGACCCGAAGGTTTTTGAAAACATC-AAAAGCTCCCG
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGG-CTTTGAAAACATCAAAAAGCTCCCG
61981 AAGGCTTTTTGG
65 AAGGCTTTTTGG
61993 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
62058 AGGCTTTTTGG
66 AGGCTTTTTGG
* *
62069 AAACATCATGCACTGGAGGACTTACAGATGACCCGAAGGTTTTTGAAAACATC-AAAAGCTCCCG
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGG-CTTTGAAAACATCAAAAAGCTCCCG
62133 AAGGCTTTTTGG
65 AAGGCTTTTTGG
* *
62145 AAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
62210 AGGCTTTTTGG
66 AGGCTTTTTGG
62221 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATC-AAAAGCT-CCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
62284 AGGCTTTTTGG
66 AGGCTTTTTGG
*
62295 AAACATCATGCACTGGAGGACTTACAGATGA
1 AAACATCATGCACTGAAGGACTTACAGATGA
62326 GGGAAATAGA
Statistics
Matches: 464, Mismatches: 14, Indels: 13
0.95 0.03 0.03
Matches are distributed among these distances:
74 45 0.10
75 138 0.30
76 262 0.56
77 19 0.04
ACGTcount: A:0.35, C:0.21, G:0.22, T:0.22
Consensus pattern (76 bp):
AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
AGGCTTTTTGG
Found at i:63015 original size:22 final size:23
Alignment explanation
Indices: 62987--63041 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 23
62977 CATAAAATTT
* **
62987 TCATCTTTGGAAAGAG-AATCTG
1 TCATCTTTGAAAAGAGAAATCCA
63009 TCATCTTT-AAAAGAGAAATCCA
1 TCATCTTTGAAAAGAGAAATCCA
63031 TCATCTTTGAA
1 TCATCTTTGAA
63042 GAGTGTAGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 6 0.21
22 20 0.71
23 2 0.07
ACGTcount: A:0.36, C:0.16, G:0.15, T:0.33
Consensus pattern (23 bp):
TCATCTTTGAAAAGAGAAATCCA
Found at i:63520 original size:55 final size:54
Alignment explanation
Indices: 63396--63569 Score: 219
Period size: 55 Copynumber: 3.3 Consensus size: 54
63386 AGAATAGCAG
* ***
63396 GTTCGTAAAACATTTGATAGTGCATTCATCCTTTCCTGTGGCTTCTGCTCAGAT
1 GTTCGTAAAACATTTGACAACACATTCATCCTTTCCTGTGGCTTCTGCTCAGAT
* * *
63450 GTTCGTAAAACATTTGACAACACATTCATCCTTTCCTGTGGTTTTCTGTTTAGAT
1 GTTCGTAAAACATTTGACAACACATTCATCCTTTCCTGTGG-CTTCTGCTCAGAT
* **
63505 GTTCGTAAAACATTTGACAACATATTCAT--TTTTTTGTGGCTTCTGCTCAGAT
1 GTTCGTAAAACATTTGACAACACATTCATCCTTTCCTGTGGCTTCTGCTCAGAT
*
63557 GTTC-TCAAACATT
1 GTTCGTAAAACATT
63570 GAATCTCTTT
Statistics
Matches: 105, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
51 8 0.08
52 14 0.13
53 8 0.08
54 37 0.35
55 38 0.36
ACGTcount: A:0.24, C:0.20, G:0.16, T:0.41
Consensus pattern (54 bp):
GTTCGTAAAACATTTGACAACACATTCATCCTTTCCTGTGGCTTCTGCTCAGAT
Done.