Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006032.1 Hibiscus syriacus cultivar Beakdansim tig00014239_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: 69401
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Found at i:4643 original size:113 final size:114
Alignment explanation
Indices: 4363--4682 Score: 554
Period size: 113 Copynumber: 2.8 Consensus size: 114
4353 CATGTTCTCG
* *
4363 TAGTAGAAATAA-AGAGCCCCAATAGCATATTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTT
1 TAGTAGAAATAAGA-AGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTT
4427 TGGTATGAACCCCAAAACCAATCATTGGATTTAAAAGATGAATTTGCTCA
65 TGGTATGAACCCCAAAACCAATCATTGGATTTAAAAGATGAATTTGCTCA
4477 TAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTT
1 TAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTT
4542 GGTATGAACCCCAAAACCAATCATTGGATTT-AAAGATGAATTTGCTCA
66 GGTATGAACCCCAAAACCAATCATTGGATTTAAAAGATGAATTTGCTCA
* *
4590 TAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAATGTTCTTTGAGTTATCTGATCTGGTTC
1 TAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTT
* * *
4655 GGTAGGAACCCCAGAGCCAATCATTGGA
66 GGTATGAACCCCAAAACCAATCATTGGA
4683 ATAGGAAGAT
Statistics
Matches: 198, Mismatches: 7, Indels: 3
0.95 0.03 0.01
Matches are distributed among these distances:
113 105 0.53
114 92 0.46
115 1 0.01
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.31
Consensus pattern (114 bp):
TAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTT
GGTATGAACCCCAAAACCAATCATTGGATTTAAAAGATGAATTTGCTCA
Found at i:7120 original size:22 final size:22
Alignment explanation
Indices: 7095--7170 Score: 107
Period size: 22 Copynumber: 3.5 Consensus size: 22
7085 TCTACACTTC
7095 TCAAAGATGATAGATTCTCTCT
1 TCAAAGATGATAGATTCTCTCT
* * *
7117 TCAAAGCTGATAAACTCTCTCT
1 TCAAAGATGATAGATTCTCTCT
* *
7139 TTAAAGATGATAGATTCTCTTT
1 TCAAAGATGATAGATTCTCTCT
7161 TCAAAGATGA
1 TCAAAGATGA
7171 AAGCTTTATT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 45 1.00
ACGTcount: A:0.34, C:0.17, G:0.13, T:0.36
Consensus pattern (22 bp):
TCAAAGATGATAGATTCTCTCT
Found at i:7936 original size:164 final size:163
Alignment explanation
Indices: 7665--7988 Score: 522
Period size: 164 Copynumber: 2.0 Consensus size: 163
7655 CACAAGAATG
**
7665 AGCATTATCTTGAGATTGAGGCATGTTACCCAATCAACATGTTATTTTGAAAATAATGAGAAAGT
1 AGCATTATCTTGAGATTGAGGCATGTTACCCAATCAACATGTTATTTTGAAAATAATGAGAAAAC
** *
7730 GATTTCCATAGTTTCTCATTTTATCTTTTCTAAAATGAAATTGTTGAAAAGTAAGAAAACAATTT
66 GATTTCCATAGTTTCTCATTCAATCTTTACTAAAATGAAATTGTTGAAAAGTAAGAAAACAATTT
* * *
7795 CCTTAGTTTTTTTACTTAGTAAACTATTTCCAAC
131 CCATAG-TATCTTACTTAGTAAACTATTTCCAAC
*
7829 AGCATTATCTTGAGATTGGGGCATGTTACCCAATCAACATGTTATTTTGAAAATAATGAGAAAAC
1 AGCATTATCTTGAGATTGAGGCATGTTACCCAATCAACATGTTATTTTGAAAATAATGAGAAAAC
* * *
7894 GATTTTCATAGTTTCTCATTCAATCTTTACTGAAATGAAATTGTTGAAAAGTAAGAAAACGATTT
66 GATTTCCATAGTTTCTCATTCAATCTTTACTAAAATGAAATTGTTGAAAAGTAAGAAAACAATTT
*
7959 CCATAGTATCTTACTTAGTAAATTATTTCC
131 CCATAGTATCTTACTTAGTAAACTATTTCC
7989 CACATCCTAA
Statistics
Matches: 147, Mismatches: 13, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
163 21 0.14
164 126 0.86
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.38
Consensus pattern (163 bp):
AGCATTATCTTGAGATTGAGGCATGTTACCCAATCAACATGTTATTTTGAAAATAATGAGAAAAC
GATTTCCATAGTTTCTCATTCAATCTTTACTAAAATGAAATTGTTGAAAAGTAAGAAAACAATTT
CCATAGTATCTTACTTAGTAAACTATTTCCAAC
Found at i:8069 original size:36 final size:36
Alignment explanation
Indices: 8029--8146 Score: 121
Period size: 36 Copynumber: 3.3 Consensus size: 36
8019 TTTAAATAGC
8029 AATTTATCTCACTTGAGATTGTTTTTCTTAAAACAA
1 AATTTATCTCACTTGAGATTGTTTTTCTTAAAACAA
* * * ** ** **
8065 AATTTGTCTCGCTCGAGACAGTTTCACTCGAAACAGA
1 AATTTATCTCACTTGAGATTGTTTTTCTTAAAACA-A
*
8102 ACTTTATCTCACTTGAGATTGTTTTTCTTAAAAC-A
1 AATTTATCTCACTTGAGATTGTTTTTCTTAAAACAA
*
8137 AATTTGTCTC
1 AATTTATCTC
8147 GCTCGAGACA
Statistics
Matches: 60, Mismatches: 21, Indels: 3
0.71 0.25 0.04
Matches are distributed among these distances:
35 9 0.15
36 26 0.43
37 25 0.42
ACGTcount: A:0.30, C:0.19, G:0.12, T:0.40
Consensus pattern (36 bp):
AATTTATCTCACTTGAGATTGTTTTTCTTAAAACAA
Found at i:8386 original size:114 final size:114
Alignment explanation
Indices: 8179--8486 Score: 535
Period size: 114 Copynumber: 2.7 Consensus size: 114
8169 CAGAAATTTC
* * *
8179 CATCACCTGATGGATCAGCATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTAAAGAAGGA
1 CATCACTTGATGGATCAGCATTTCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
*
8244 AGAAGAAATTCATAATGAGAAGAATTTGTTCCAACCTTTTGCTCGAATT
66 AGAACAAATTCATAATGAGAAGAATTTGTTCCAACCTTTTGCTCGAATT
* *
8293 CATTACTTGATGGATCAGCATTTCCAGGTAGAGTTCATAATGAGAAGAACTTATCTGAAGAAGGA
1 CATCACTTGATGGATCAGCATTTCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
*
8358 AGAATAAATTCATAATGAGAAGAATTTGTTCCAACCTTTTGCTCGAATT
66 AGAACAAATTCATAATGAGAAGAATTTGTTCCAACCTTTTGCTCGAATT
*
8407 CATCACTTGATGGATCAGTATTTCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1 CATCACTTGATGGATCAGCATTTCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
*
8472 ATAACAAATTCATAA
66 AGAACAAATTCATAA
8487 GAGTTCATAA
Statistics
Matches: 183, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
114 183 1.00
ACGTcount: A:0.37, C:0.15, G:0.19, T:0.28
Consensus pattern (114 bp):
CATCACTTGATGGATCAGCATTTCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
AGAACAAATTCATAATGAGAAGAATTTGTTCCAACCTTTTGCTCGAATT
Found at i:8495 original size:50 final size:50
Alignment explanation
Indices: 8436--8536 Score: 193
Period size: 50 Copynumber: 2.0 Consensus size: 50
8426 ATTTCCAGGT
8436 AGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAATAACAAATTCATA
1 AGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAATAACAAATTCATA
*
8486 AGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAATAAGAAATTCATA
1 AGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAATAACAAATTCATA
8536 A
1 A
8537 TGAGAAGAAT
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.49, C:0.11, G:0.19, T:0.22
Consensus pattern (50 bp):
AGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAATAACAAATTCATA
Found at i:8597 original size:164 final size:164
Alignment explanation
Indices: 8322--8650 Score: 518
Period size: 164 Copynumber: 2.0 Consensus size: 164
8312 ATTTCCAGGT
* *
8322 AGAGTTCATAATGAGAAGAACTTATCTGAAGAAGGAAGAATAAATTCATAATGAGAAGAATTTGT
1 AGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGT
* * *
8387 TCCAACCTTTTGCTCGAATTCATCACTTGATGGATCAGTATTTCCAG-GTAGAGTTCATAATGAG
66 TCCAACCTTTTGCTCGAATTCATCACTCGATGGATCACTATTTCCAGAG-AAAGTTCATAATGAG
* *
8451 AAGAACTCATCTGAAGAAGGAATAACAAATTCATA
130 AAGAACTCATCTGAAGAAAGAAGAACAAATTCATA
*
8486 AGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAATAAGAAATTCATAATGAGAAGAATTTGT
1 AGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGT
* *
8551 TCCAACCTTTTGTTTGAATTCATCACTCGATGGATCAACT-TTTCCAGAGAAAGTTCATAATGAG
66 TCCAACCTTTTGCTCGAATTCATCACTCGATGGATC-ACTATTTCCAGAGAAAGTTCATAATGAG
* *
8615 AAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATA
130 AAGAACTCATCTGAAGAAAGAAGAACAAATTCATA
8650 A
1 A
8651 TGAGAAGAGC
Statistics
Matches: 151, Mismatches: 12, Indels: 4
0.90 0.07 0.02
Matches are distributed among these distances:
164 148 0.98
165 3 0.02
ACGTcount: A:0.40, C:0.13, G:0.19, T:0.27
Consensus pattern (164 bp):
AGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGT
TCCAACCTTTTGCTCGAATTCATCACTCGATGGATCACTATTTCCAGAGAAAGTTCATAATGAGA
AGAACTCATCTGAAGAAAGAAGAACAAATTCATA
Found at i:8746 original size:122 final size:122
Alignment explanation
Indices: 8584--8911 Score: 506
Period size: 122 Copynumber: 2.7 Consensus size: 122
8574 CACTCGATGG
*
8584 ATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCAT
1 ATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG-AAGAAGAAGAAGTTCAT
* *
8649 AATGAGAAGAGCTTGTTCAACCTTTGCATAACTCTATCACAGAAGGAGATAGATCAAC
65 AATGAGAAGAACTTGTTCAACCTTTGCATAACTCTATCACAAAAGGAGATAGATCAAC
* * *
8707 ATCAAC-TTTCCAGAGAAAGTTCATAATAAGAAGAACTCATCTGAAGAGGAAGAAAAAGTTCATA
1 ATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGAAGTTCATA
*
8771 ATGAGAAGAACTTGTTCAACCTTTGCATGACTCTATCACAAAAGGAGATAGATCAAC
66 ATGAGAAGAACTTGTTCAACCTTTGCATAACTCTATCACAAAAGGAGATAGATCAAC
* * *
8828 ATCAACATTTCTAAAGAAAGTTCATAATGAGAAGAACTCATCTGAAGACGAAGAAG-A----ATA
1 ATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGAAGTTCATA
*
8888 ATGAGAAGAACTTGTTCAAACTTT
66 ATGAGAAGAACTTGTTCAACCTTT
8912 TTGCTAGATT
Statistics
Matches: 192, Mismatches: 12, Indels: 8
0.91 0.06 0.04
Matches are distributed among these distances:
117 26 0.14
121 77 0.40
122 83 0.43
123 6 0.03
ACGTcount: A:0.43, C:0.16, G:0.18, T:0.24
Consensus pattern (122 bp):
ATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGAAGTTCATA
ATGAGAAGAACTTGTTCAACCTTTGCATAACTCTATCACAAAAGGAGATAGATCAAC
Found at i:9146 original size:22 final size:23
Alignment explanation
Indices: 9118--9170 Score: 67
Period size: 21 Copynumber: 2.4 Consensus size: 23
9108 ATCCCGATTT
*
9118 TATTATTTATTATTA-T-AATAA
1 TATTATTTATTATTACTAAAAAA
9139 TAATTA-TTATTATTACTAAAAAA
1 T-ATTATTTATTATTACTAAAAAA
9162 TATTATTTA
1 TATTATTTA
9171 CAAACAGGGC
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
21 10 0.37
22 9 0.33
23 8 0.30
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (23 bp):
TATTATTTATTATTACTAAAAAA
Found at i:9587 original size:22 final size:23
Alignment explanation
Indices: 9551--9620 Score: 79
Period size: 23 Copynumber: 3.0 Consensus size: 23
9541 TGCAAGAAAA
* *
9551 AAAAAAGAGGAGACAGAGAGTAG
1 AAAAAAGAAGAGACAGAGAGCAG
9574 AAAAAAGAAG-GACAGAGAGCAG
1 AAAAAAGAAGAGACAGAGAGCAG
*
9596 AAAAATAGAGAAGAGACGGAGAGCA
1 -AAAA-A-AGAAGAGACAGAGAGCA
9621 ACCCAAAAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
22 11 0.28
23 13 0.32
24 1 0.03
25 5 0.12
26 10 0.25
ACGTcount: A:0.57, C:0.07, G:0.33, T:0.03
Consensus pattern (23 bp):
AAAAAAGAAGAGACAGAGAGCAG
Found at i:9610 original size:20 final size:20
Alignment explanation
Indices: 9560--9611 Score: 61
Period size: 22 Copynumber: 2.5 Consensus size: 20
9550 AAAAAAAGAG
*
9560 GAGACAGAGAGTAGAAAAAA
1 GAGACAGAGAGCAGAAAAAA
9580 GAAGGACAGAGAGCAGAAAAATA
1 G-A-GACAGAGAGCAGAAAAA-A
9603 GAGA-AGAGA
1 GAGACAGAGA
9612 CGGAGAGCAA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
20 6 0.21
21 3 0.11
22 17 0.61
23 2 0.07
ACGTcount: A:0.58, C:0.06, G:0.33, T:0.04
Consensus pattern (20 bp):
GAGACAGAGAGCAGAAAAAA
Found at i:10446 original size:26 final size:27
Alignment explanation
Indices: 10399--10456 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 27
10389 GCAATTTATT
* *
10399 TTATTATTATATATTTAAATTAATA-A
1 TTATTATTATATAATCAAATTAATATA
* *
10425 TTATTATTATTTAATCATATTAATATA
1 TTATTATTATATAATCAAATTAATATA
10452 TTATT
1 TTATT
10457 TGATTAATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
26 21 0.78
27 6 0.22
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (27 bp):
TTATTATTATATAATCAAATTAATATA
Found at i:14048 original size:95 final size:94
Alignment explanation
Indices: 13867--14049 Score: 228
Period size: 95 Copynumber: 1.9 Consensus size: 94
13857 TCTTCTTCTA
* * *
13867 TGATGTAATTGAGCAAAAGTTGAACAAATTCTTCTTCTTTTTCATATGAGTTCTTCTCATTATGA
1 TGATGTAATTGAGCAAAAGTTGAACAAATTCTTCTTCTTCTTCAGATGAGTTATTCTCATTATGA
** *
13932 ACTTTCTCTGGCAACGCTGATCCATCGGG
66 ACTTTCTCTGAAAACACTGATCCATCGGG
*
13961 TGATG-AATTTGAGCAAAAGATTGAACAAGTTCTTC-TCATTCTTCAGATGAGTTATTCTCATTA
1 TGATGTAA-TTGAGCAAAAG-TTGAACAAATTCTTCTTC-TTCTTCAGATGAGTTATTCTCATTA
* *
14024 TGAA-TTTCCTCTGAAAATATTGATCC
63 TGAACTTT-CTCTGAAAACACTGATCC
14050 TCAAATAAGG
Statistics
Matches: 76, Mismatches: 9, Indels: 7
0.83 0.10 0.08
Matches are distributed among these distances:
93 2 0.03
94 21 0.28
95 53 0.70
ACGTcount: A:0.28, C:0.17, G:0.16, T:0.38
Consensus pattern (94 bp):
TGATGTAATTGAGCAAAAGTTGAACAAATTCTTCTTCTTCTTCAGATGAGTTATTCTCATTATGA
ACTTTCTCTGAAAACACTGATCCATCGGG
Found at i:14453 original size:113 final size:113
Alignment explanation
Indices: 14219--15337 Score: 1685
Period size: 113 Copynumber: 10.0 Consensus size: 113
14209 TAGAGTTATG
** *
14219 CAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTT-CTTCTTCAG-TGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
** * * * * *
14282 TTATGAAC-ACTTCTGGCAACA-CTGATCCATCGGGTGATGAATTTGAG
66 TTATGAACTTTTTCTGG-AAAAGCTGATCCATCAGATGATGGATTTGAA
* * * *
14329 CAAAAGATTGAACAAGTTCTTCGCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
**** * * * * * *
14394 TTATGAACTCGACCTGGCAATGTTGATTCATC-GAATGAT-GAATTCAA
66 TTATGAACTTTTTCTGGAAAAGCTGATCCATCAG-ATGATGGATTTGAA
* *
14441 GCGAAAA-GTTGAACAAGTTCTTCTTATTATGAA---CTTCTT-CTTCTTCAGATGAGTTCTTCT
1 -C-AAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCT
** * * ** *
14501 CATTATGAAC-ACTTCTGG-AAAGATTGATCC-TCAAATGATATATTTGAG
64 CATTATGAACTTTTTCTGGAAAAG-CTGATCCATCAGATGATGGATTTGAA
*
14549 CAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTTTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
*
14614 TTATGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGAG
66 TTATGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGAA
* *
14662 CAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTTTTCTTA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
*
14727 TTATGAACTTTTTCTGGAAAAGCTGATCTATCAGATGATGGATTTGAA
66 TTATGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGAA
14775 CAAAAGGTTGAAC-AATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
14839 TTATGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGAA
66 TTATGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGAA
*
14887 CAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
14952 TTATGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGAA
66 TTATGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGAA
*
15000 CAAAAGGTTGAACAAATTCTTCTTATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
15065 TTATGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGAA
66 TTATGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGAA
15113 CAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* * *
15178 TTATGAACTTTTTTTGGAAAAGTTGATCCATCAGTTGATGGATTTGAA
66 TTATGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGAA
15226 CAAAAGGTTGAACAAATTCTTCTCA-TATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
*
15290 TTATGAACTTTTTCTGGAAAAGCTGATCCATCAGGTGATGGATTTGAA
66 TTATGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGAA
15338 TCTTTGCTAA
Statistics
Matches: 932, Mismatches: 58, Indels: 36
0.91 0.06 0.04
Matches are distributed among these distances:
106 4 0.00
107 35 0.04
108 14 0.02
109 31 0.03
110 49 0.05
111 40 0.04
112 232 0.25
113 523 0.56
114 4 0.00
ACGTcount: A:0.28, C:0.18, G:0.16, T:0.39
Consensus pattern (113 bp):
CAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
TTATGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGAA
Found at i:14972 original size:338 final size:339
Alignment explanation
Indices: 14099--15336 Score: 1719
Period size: 338 Copynumber: 3.7 Consensus size: 339
14089 GAATCAATGC
*
14099 AAGGTTGAACAAGTTCTTCTCATTATGAATTTTCTT-TTCC-TCTTCAGATAAGTTCTTCTCATT
1 AAGGTTGAACAAGTTCTTCTCATTATGAA-TTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* * *
14162 ATGAACTTTCTCTGGAAAAGTTGGTGTTGATCTATCTCCTTCTG-TGATAGAGTTATG--CAAAA
65 ATGAACTTTTTCTGGAAAA------GTTG----A--TCCATCAGATGATAGA-TT-TGAACAAAA
** *
14224 GGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTT-CTTCTTCAG-TGAGTTCTTCTCATTATG
116 GGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATG
** * * * * * *
14287 AAC-ACTTCTGGCAACA-CTGATCCATCGGGTGATGAATTTGAGCAAAAGATTGAACAAGTTCTT
181 AACTTTTTCTGG-AAAAGCTGATCCATCAGATGATGGATTTGAGCAAAAGGTTGAACAAATTCTT
* * **** * *
14350 CGCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGACCTGGCAAT
245 CTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGGAAAA
* * *
14415 GTTGAT-TCATC-GAATGAT-GAATTCAAGCGAA
310 GCTGATCT-ATCAG-ATGATGGATTTGAA-C-AA
*
14446 AA-GTTGAACAAGTTCTTCTTATTATGAA---CTTCTT-CTTCTTCAGATGAGTTCTTCTCATTA
1 AAGGTTGAACAAGTTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
** * * *
14506 TGAAC-ACTTCTGG-AAAGATTGATCC-TCAAATGATATATTTGAGCAAAAGGTTGAACAAATTC
66 TGAACTTTTTCTGGAAAAG-TTGATCCATCAGATGATAGATTTGAACAAAAGGTTGAACAAATTC
*
14568 TTCTCATTATGAATTTCTTTTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGGAA
130 TTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGGAA
14633 AAGCTGATCCATCAGATGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTC
195 AAGCTGATCCATCAGATGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTC
* *
14698 TTCTTCCTTCTTCAGATGAGTTTTTCTTATTATGAACTTTTTCTGGAAAAGCTGATCTATCAGAT
260 TTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGGAAAAGCTGATCTATCAGAT
14763 GATGGATTTGAACAA
325 GATGGATTTGAACAA
14778 AAGGTTGAACAA-TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
1 AAGGTTGAACAAGTTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
* *
14842 TGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGAACAAAAGGTTGAACAAATTCT
66 TGAACTTTTTCTGGAAAAGTTGATCCATCAGATGATAGATTTGAACAAAAGGTTGAACAAATTCT
*
14907 TCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTTTTTCTGGAAA
131 TCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGGAAA
* *
14972 AGCTGATCCATCAGATGATGGATTTGAACAAAAGGTTGAACAAATTCTTCTTATTATGAATTTCT
196 AGCTGATCCATCAGATGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCT
*
15037 TCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGGAAAAGCTGATCCATCAGATG
261 TCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGGAAAAGCTGATCTATCAGATG
15102 ATGGATTTGAACAA
326 ATGGATTTGAACAA
*
15116 AAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
1 AAGGTTGAACAAGTTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
* * *
15181 TGAACTTTTTTTGGAAAAGTTGATCCATCAGTTGATGGATTTGAACAAAAGGTTGAACAAATTCT
66 TGAACTTTTTCTGGAAAAGTTGATCCATCAGATGATAGATTTGAACAAAAGGTTGAACAAATTCT
15246 TCTCA-TATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGGAAA
131 TCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGGAAA
*
15310 AGCTGATCCATCAGGTGATGGATTTGA
196 AGCTGATCCATCAGATGATGGATTTGA
15337 ATCTTTGCTA
Statistics
Matches: 816, Mismatches: 53, Indels: 53
0.89 0.06 0.06
Matches are distributed among these distances:
328 2 0.00
329 4 0.00
330 46 0.06
331 9 0.01
332 44 0.05
333 126 0.15
334 8 0.01
335 7 0.01
336 34 0.04
337 12 0.01
338 336 0.41
339 119 0.15
341 3 0.00
342 9 0.01
343 30 0.04
346 25 0.03
347 2 0.00
ACGTcount: A:0.27, C:0.18, G:0.16, T:0.39
Consensus pattern (339 bp):
AAGGTTGAACAAGTTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
TGAACTTTTTCTGGAAAAGTTGATCCATCAGATGATAGATTTGAACAAAAGGTTGAACAAATTCT
TCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGGAAA
AGCTGATCCATCAGATGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCT
TCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGGAAAAGCTGATCTATCAGATG
ATGGATTTGAACAA
Found at i:15093 original size:451 final size:445
Alignment explanation
Indices: 14099--15337 Score: 1685
Period size: 451 Copynumber: 2.8 Consensus size: 445
14089 GAATCAATGC
* *
14099 AAGGTTGAACAAGTTCTTCTCATTATGAATTTTCTTTTCC-TCTTCAGATAAGTTCTTCTCATTA
1 AAGGTTGAACAAATTCTTCTCATTATGAA-TTTCTTTTCCTTCTTCAGATGAGTTCTTCTCATTA
* * * * * *
14163 TGAACTTTCTCTGGAAAAGTTGGTGTTGATCTATCTCCTTCTG-TGATAGAGTT-ATGCAAAAGG
65 TGAACTTTTTCTGGAAAA------GCTG----A--TCCATCAGATGATGGATTTGA-GCAAAAGG
** *
14226 TTGAACAAGCTCTTCTCATTATGAACTTCTTCTT-CTTCTTCAG-TGAGTTCTTCTCATTATGAA
117 TTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
** * * * * * * *
14289 C-ACTTCTGGCAACA-CTGATCCATCGGGTGATGAATTTGAGCAAAAGATTGAACAAGTTCTTCG
182 CTTTTTCTGG-AAAAGCTGATCCATCAGATGATGGATTTGAACAAAAGGTTGAACAA-TTCTTCT
* **** * * *
14352 CATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGACCTGGCAATGT
245 CATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGGAAAAGC
* * * * *
14417 TGATTCATC-GAATGAT-GAATTCAAGCGAAAAGTTGAACAAGTTCTTCTTATTATGAACTTCTT
310 TGATCCATCAG-ATGATGGATTTGAAGCGAAAAGTTGAACAAATTCTTCTCATTATGAACTTCTT
* *
14480 CTTCTTCAGATGAGTTCTTCTCATTATGAACACTTCTGGAAAGATTGATCCTCAAATGATATATT
374 CTTCTTCAGATGAGTTCTTCTCATTATGAACACTTCTGGAAAGACTGATCCTCAAATGATAGATT
*
14545 TGAGCAA
439 TGAACAA
14552 AAGGTTGAACAAATTCTTCTCATTATGAATTTCTTTTTCCTTCTTCAGATGAGTTCTTCTCATTA
1 AAGGTTGAACAAATTCTTCTCATTATGAATTTC-TTTTCCTTCTTCAGATGAGTTCTTCTCATTA
14617 TGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGAGCAAAAGGTTGAACAAATTCT
65 TGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGAGCAAAAGGTTGAACAAATTCT
* *
14682 TCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTTTTCTTATTATGAACTTTTTCTGGAAA
130 TCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGGAAA
*
14747 AGCTGATCTATCAGATGATGGATTTGAACAAAAGGTTGAACAATTCTTCTCATTATGAATTTCTT
195 AGCTGATCCATCAGATGATGGATTTGAACAAAAGGTTGAACAATTCTTCTCATTATGAATTTCTT
14812 CTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGGAAAAGCTGATCCATCAGATGA
260 CTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGGAAAAGCTGATCCATCAGATGA
14877 TGGATTTGAA-C-AAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGAT
325 TGGATTTGAAGCGAAAA-GTTGAACAAATTCTTCTCATTATGAA---CTTCTT-CTTCTTCAGAT
* ** * *
14940 GAGTTCTTCTTATTATGAACTTTTTCTGGAAA-AGCTGATCCATCAGATGATGGATTTGAACAA
385 GAGTTCTTCTCATTATGAAC-ACTTCTGGAAAGA-CTGATCC-TCAAATGATAGATTTGAACAA
*
15003 AAGGTTGAACAAATTCTTCTTATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
1 AAGGTTGAACAAATTCTTCTCATTATGAATTTCTT-TTCCTTCTTCAGATGAGTTCTTCTCATTA
*
15068 TGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGAACAAAAGGTTGAACAAATTCT
65 TGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGAGCAAAAGGTTGAACAAATTCT
*
15133 TCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTTTGGAAA
130 TCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGGAAA
* *
15198 AGTTGATCCATCAGTTGATGGATTTGAACAAAAGGTTGAACAAATTCTTCTCA-TATGAATTTCT
195 AGCTGATCCATCAGATGATGGATTTGAACAAAAGGTTGAAC-AATTCTTCTCATTATGAATTTCT
*
15262 TCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGGAAAAGCTGATCCATCAGGTG
259 TCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGGAAAAGCTGATCCATCAGATG
15327 ATGGATTTGAA
324 ATGGATTTGAA
15338 TCTTTGCTAA
Statistics
Matches: 713, Mismatches: 53, Indels: 42
0.88 0.07 0.05
Matches are distributed among these distances:
442 6 0.01
443 47 0.07
444 15 0.02
445 123 0.17
446 48 0.07
448 9 0.01
449 31 0.04
450 17 0.02
451 328 0.46
452 15 0.02
453 34 0.05
454 40 0.06
ACGTcount: A:0.27, C:0.18, G:0.16, T:0.39
Consensus pattern (445 bp):
AAGGTTGAACAAATTCTTCTCATTATGAATTTCTTTTCCTTCTTCAGATGAGTTCTTCTCATTAT
GAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGAGCAAAAGGTTGAACAAATTCTT
CTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGGAAAA
GCTGATCCATCAGATGATGGATTTGAACAAAAGGTTGAACAATTCTTCTCATTATGAATTTCTTC
TTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGGAAAAGCTGATCCATCAGATGAT
GGATTTGAAGCGAAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCTTCAGATGAGTTC
TTCTCATTATGAACACTTCTGGAAAGACTGATCCTCAAATGATAGATTTGAACAA
Found at i:15758 original size:22 final size:22
Alignment explanation
Indices: 15733--15793 Score: 95
Period size: 22 Copynumber: 2.8 Consensus size: 22
15723 TCTGATAAAG
15733 CTTTCATCTTTGAAAAGAGAAT
1 CTTTCATCTTTGAAAAGAGAAT
* *
15755 CTTTCATCTTTAAAAAGGGAAT
1 CTTTCATCTTTGAAAAGAGAAT
*
15777 CTATCATCTTTGAAAAG
1 CTTTCATCTTTGAAAAG
15794 TGTAGATGTA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (22 bp):
CTTTCATCTTTGAAAAGAGAAT
Found at i:23886 original size:14 final size:14
Alignment explanation
Indices: 23852--23905 Score: 63
Period size: 14 Copynumber: 3.8 Consensus size: 14
23842 TTGTGCAATA
* *
23852 CAAATGCAAAGATG
1 CAAATGTAAATATG
23866 CCAAATGTAAATATG
1 -CAAATGTAAATATG
*
23881 CAAATGTAAAAATG
1 CAAATGTAAATATG
*
23895 TAAATGTAAAT
1 CAAATGTAAAT
23906 TATTTAAAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
14 22 0.65
15 12 0.35
ACGTcount: A:0.52, C:0.09, G:0.15, T:0.24
Consensus pattern (14 bp):
CAAATGTAAATATG
Found at i:35576 original size:64 final size:65
Alignment explanation
Indices: 35507--35662 Score: 210
Period size: 65 Copynumber: 2.4 Consensus size: 65
35497 GGTTGTCCAA
* *
35507 GTGCATCGGTGCAC-AAAT-CAACTTCGATGTTTCAAAATAACCA-TGGTGCATCGATGCATGTC
1 GTGCATCGGTGCACTAAATGC-A-TTCGATGTTTCAAAATAACCAGGGGTGCATCGATGCATGGC
35569 TT
64 TT
* * **
35571 GTGCATCGGTGCACTGAATGCATTTGATGTTTCAAAATATTCAGGGGTGCATCGATGCATGGCTT
1 GTGCATCGGTGCACTAAATGCATTCGATGTTTCAAAATAACCAGGGGTGCATCGATGCATGGCTT
*
35636 GTGCATCAGTGCACTAAATGCATTCGA
1 GTGCATCGGTGCACTAAATGCATTCGA
35663 AATTCAATTA
Statistics
Matches: 80, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
64 32 0.40
65 47 0.59
66 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.30
Consensus pattern (65 bp):
GTGCATCGGTGCACTAAATGCATTCGATGTTTCAAAATAACCAGGGGTGCATCGATGCATGGCTT
Found at i:38329 original size:21 final size:20
Alignment explanation
Indices: 38296--38353 Score: 53
Period size: 21 Copynumber: 2.7 Consensus size: 20
38286 GCACGGCAGA
*
38296 GTGCATCGGTGCACCTTCATG
1 GTGCATCGATGCACCTTCA-G
* *
38317 GTGTATCGATGCACATTCAAGG
1 GTGCATCGATGCACCTTC-A-G
38339 GTTGCATCGATGCAC
1 G-TGCATCGATGCAC
38354 TAGGCAGTGT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
21 15 0.50
22 3 0.10
23 12 0.40
ACGTcount: A:0.21, C:0.24, G:0.28, T:0.28
Consensus pattern (20 bp):
GTGCATCGATGCACCTTCAG
Found at i:41023 original size:151 final size:149
Alignment explanation
Indices: 40823--41139 Score: 528
Period size: 151 Copynumber: 2.1 Consensus size: 149
40813 GACTCGAGGG
* * *
40823 TCTACGCGGTCCTTCGAGACATATGTATATTCCTTGGAACATGTGTGAAGTCTTGAAAGACACAT
1 TCTACGCGGTCCTTCGGGACATATATATATTCATTGGAACATGTGTGAAGTCTTGAAAGACACAT
40888 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTA
66 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTA
*
40953 TATGACACTATGGTGCAAT
131 TATGACACTACGGTGCAAT
* *
40972 TCTACGCGGTCCTTCGGGATATATATATATATTATGTGGAACATGTGTGAAGTCTTGAAAGACAC
1 TCTACGCGGTCCTTCGGGACATATATATAT-TCAT-TGGAACATGTGTGAAGTCTTGAAAGACAC
41037 ATACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTAT
64 ATACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTAT
*
41102 TATATGGCACTACGGTGCAAT
129 TATATGACACTACGGTGCAAT
*
41123 TATACGCGG-CACTTCGG
1 TCTACGCGGTC-CTTCGG
41140 TGCAATTATA
Statistics
Matches: 157, Mismatches: 8, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
149 27 0.17
150 3 0.02
151 127 0.81
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.34
Consensus pattern (149 bp):
TCTACGCGGTCCTTCGGGACATATATATATTCATTGGAACATGTGTGAAGTCTTGAAAGACACAT
ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTA
TATGACACTACGGTGCAAT
Found at i:41135 original size:23 final size:23
Alignment explanation
Indices: 41107--41151 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
41097 ATTATTATAT
41107 GGCACTACGGTGCAATTATACGC
1 GGCACTACGGTGCAATTATACGC
*
41130 GGCACTTCGGTGCAATTATACG
1 GGCACTACGGTGCAATTATACG
41152 AGCTGTGGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.24
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGC
Found at i:43742 original size:22 final size:21
Alignment explanation
Indices: 43700--43739 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
43690 AAGACTATTT
43700 TCATTTTTCAATTTTGAAATA
1 TCATTTTTCAATTTTGAAATA
**
43721 TCATTTTTGTATTTTGAAA
1 TCATTTTTCAATTTTGAAA
43740 ATAAAGTCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.07, G:0.07, T:0.55
Consensus pattern (21 bp):
TCATTTTTCAATTTTGAAATA
Found at i:45803 original size:65 final size:65
Alignment explanation
Indices: 45683--45849 Score: 198
Period size: 65 Copynumber: 2.6 Consensus size: 65
45673 ACAAATCAGC
** * * * * *
45683 TTCGATGTTTCAAAATAACCA-TAGTTCATCGATGCATGTCTTGTGCATCGGTGCACTGAATGCA
1 TTCGATGTTTCAAAATATTCAGGAGTGCATCGATGCATGGCTTGTGCATCGATGCACTAAATGCA
*
45747 TTCGATGTTTCAAAATATTCAGGGGTGCATCGATGCATGGCTTGTGCATCGATGCACTAAATGCA
1 TTCGATGTTTCAAAATATTCAGGAGTGCATCGATGCATGGCTTGTGCATCGATGCACTAAATGCA
**
45812 TTCGA-AATTCAATTAAT-TT-AGGAGTGCATCGATGCATG
1 TTCGATGTTTCAA--AATATTCAGGAGTGCATCGATGCATG
45850 AAGTAGTGCA
Statistics
Matches: 89, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
64 42 0.47
65 44 0.49
66 3 0.03
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.32
Consensus pattern (65 bp):
TTCGATGTTTCAAAATATTCAGGAGTGCATCGATGCATGGCTTGTGCATCGATGCACTAAATGCA
Found at i:53739 original size:23 final size:23
Alignment explanation
Indices: 53708--53768 Score: 77
Period size: 23 Copynumber: 2.7 Consensus size: 23
53698 CCTTATATAT
*
53708 CACTTCGGTGCATTTCTACGCGG
1 CACTTCGGTACATTTCTACGCGG
* * * *
53731 CACTACGGTACAATTCTATGTGG
1 CACTTCGGTACATTTCTACGCGG
53754 CACTTCGGTACATTT
1 CACTTCGGTACATTT
53769 ATACAAGCTA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.20, C:0.26, G:0.21, T:0.33
Consensus pattern (23 bp):
CACTTCGGTACATTTCTACGCGG
Found at i:60841 original size:38 final size:39
Alignment explanation
Indices: 60767--60852 Score: 131
Period size: 39 Copynumber: 2.3 Consensus size: 39
60757 ACGAAGTACT
*
60767 AAAA-TGAAACAAACACTAAACTTTAGGTATGATTTTGA
1 AAAATTGAAACAAAAACTAAACTTTAGGTATGATTTTGA
* *
60805 AAAATTGAAACAAAAATTTAACTTTAGGTATG-TTTTGA
1 AAAATTGAAACAAAAACTAAACTTTAGGTATGATTTTGA
60843 AAAATTGAAA
1 AAAATTGAAA
60853 GTGTATGTGT
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
38 20 0.45
39 24 0.55
ACGTcount: A:0.49, C:0.07, G:0.13, T:0.31
Consensus pattern (39 bp):
AAAATTGAAACAAAAACTAAACTTTAGGTATGATTTTGA
Done.