Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168161.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_400, 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: 28887
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Found at i:9265 original size:875 final size:873
Alignment explanation
Indices: 7287--10317 Score: 4059
Period size: 875 Copynumber: 3.5 Consensus size: 873
7277 CACGCACCGG
* *
7287 CAGAGA-GCGGGATGAGCAAGCCGTGGA-CTGATAGGGTGGTAGGT-GGTTTTGGCACATCTTCA
1 CAGAGAGGCGGGATGCGCAAGCCGTGGATC-GATAGGGTGGTAGGTGGGTTTAGGCACATCTTCA
*
7349 TATTTCTG-C-TGTCCAAATGCCATTTTTATGGC-TGTAAATTCATACAATGG-CCC-TAAGCC-
65 TATTTCAGCCATG-CC-AATGCCATTTTTATGGCTTGTAAATTCATACAATGGTCCCTTAAGCCT
* * ** *
7408 TCATAGTGAAGTTTGAT-GCAAAGATGACTTGTCTTT-TATTTTTCACGATTTTTGAAACTTTTT
128 TCAT-TTGAAGTTTCATGGC-AAGACAACTCGT-TTTCTATTTTTCACGATTTTTGAAACTTTTT
* **
7471 ACGGTTCGGGATTTTTTTTAAATTTTTTCAGAAGGAGTTTTGGCAACAAACTTGGTAGACGTGAT
190 ACGGTTCGGGATTTTTTTAAAATTTTTTCAGAAGGAGTTTTGGCCCCAAACTTGGTAGACGTGAT
* * * * * * * *
7536 CCTCGTATCTTTGTTCGTATCCACAAAAA-AATTCAGCTAAAAACTCGAAGTGTACAGGATTTTG
255 CCTTGTATTTTTGTTGGCATGCA-AAAAAGAATTCACCTAAAAAATCAAAGTGTACAGGATTTTG
*
7600 TGGCCATTTGAAAAAAGTGTCCCCATTTCAGACACTTTAATGGCTACTGGCAGCAAACCTGTAAA
319 TGACCATTTGAAAAAAGTGTCCCCATTTCAGACACTTTAATGGCTACTGGCAGCAAACCTGTAAA
* *
7665 ATCTCAAATGCTCTTTAAGGGGGTGTGAGTTCTCGAGGTTTGATGAGGGATAGGGGGCCAATATA
384 ATCTCAAATGCTCTTTAAGTGGGTGTGAGTTCTCGAGGTTTGATGAGGGATAGGGGGCCGATATA
* * *
7730 AGGG-CAAGTACCAGCACCCATCGCACATCATGTGCGCACA-CCCCCCGCCCCCCCAACCGCCGG
449 AGGGCCAAGTACCAGCACCCATCGCACATCATGTGCGCACACCCCCCCGGCACCCCAATCGCCGG
* *
7793 AACCCCAATGCGACCGGTCAGG-T-TT-------TTCGATGATGGTGCCCTGGGAGAAAAAAAAT
514 AACCCCAATGCG-CCGGTCAGGTTCTTGACGAGCTTCGACGATGGTGCCCCGGG-GAAAAAAAAT
* **
7849 ACGGCACCTGCACATGCCCAAGCCCAGCATGTGCACCCGCAACCCTCAATGTGGTCTGATCTTAG
577 ACGGCACCAGCACATGCCTGAGCCCAGCATGTGCACCCGCAA-CC-C------GTC-GATC----
* *
7914 ACTGGGAATGAACTTCATATGCTTAGACTGGGAATGAACTCTGTATGGCTAAGTCAACCCACGAA
629 -CT--G-AT---C-T--GAT-CTTAGACTGGGAATGAACTCTGTATGCCTAAGTCAACCCACGAA
* * *
7979 ATGAGCGTGCGGGCGCTCATTCGGCCAAAGGGGAAGGATGCGCGAGCCAGGGATC-GACTGGGTC
683 ATGAGCGTGCGGGCGCTCAGTCGGCCAGAGGGGAAGGATGCGCAAGCCAGGGATCGGAC-GGGTC
* * ** * * * * * **
8043 CCCCTTTGCGTGCTTTCAATCCTGCTATCACAACCCTTAGTCTGGTTCGGTCTTAGACTGGGAAT
747 CCCCTCTACGTGCTACCGATCCTGCTACCGCAACCCTCAGTCTGGTCCAATCTTAGACTGGGAAT
* *
8108 GAACTCCGTATGCCTAAGCCAACCGACAAAACGAGCGGGCGGGCGGGCGGGCGGGCATTACGCCT
812 GAACTCCGTATGCCTAAGCCAACCGACGAAA-GA----GCGGGCGGGCGGGCGGGCACTACG-CT
*
8173 -AC
871 GGC
* *
8175 TAGAGAGGCGGGATGCGCAAGCCATGGAAT-GATAGGGTGGTAGGTGGGTTTAGGCACATCTTCA
1 CAGAGAGGCGGGATGCGCAAGCCGTGG-ATCGATAGGGTGGTAGGTGGGTTTAGGCACATCTTCA
* *
8239 TATTTCAGCCGTGCCAATGCCTTTTTTATGGCTTGTAAATTCATACAATGGTCCCTTAAGCCTTC
65 TATTTCAGCCATGCCAATGCCATTTTTATGGCTTGTAAATTCATACAATGGTCCCTTAAGCCTTC
* *
8304 ATTTGAAGTTTCATGGCAAGACAACTCGTTTTTTATTTTTCATGATTTTTGAAACTTTTTACGGT
130 ATTTGAAGTTTCATGGCAAGACAACTCGTTTTCTATTTTTCACGATTTTTGAAACTTTTTACGGT
* * *
8369 TCGGAATTTTTTTAAAATTTTTTTAGAAGGCGTTTTGGCCCCAAACTTGGTAGACGTGATCCTTG
195 TCGGGATTTTTTTAAAATTTTTTCAGAAGGAGTTTTGGCCCCAAACTTGGTAGACGTGATCCTTG
* * *
8434 TACTTTTGTTGGCATGCAAAAAAGAATTCACCTAAAAAATCGAAGTGTATAGGATTTTGTGACCA
260 TATTTTTGTTGGCATGCAAAAAAGAATTCACCTAAAAAATCAAAGTGTACAGGATTTTGTGACCA
* * *
8499 TTTGAAAAAAGTGTCCCCATTTCAGACACTTTAATTGCGAATGGCAGCAAACCTGTAAAATCTCA
325 TTTGAAAAAAGTGTCCCCATTTCAGACACTTTAATGGCTACTGGCAGCAAACCTGTAAAATCTCA
*
8564 AATGCTCTTTAAGTGGGTGTGAGTTCTCAAGGTTTGATGAGGGATAGGGGGCCGATATAAGGGCC
390 AATGCTCTTTAAGTGGGTGTGAGTTCTCGAGGTTTGATGAGGGATAGGGGGCCGATATAAGGGCC
* * *
8629 AAGTACCAGCACCCATCGCACATCATGTGAGCACACCCCCCCGGCAACCCAGTCGCCGGAA-CCC
455 AAGTACCAGCACCCATCGCACATCATGTGCGCACACCCCCCCGGCACCCCAATCGCCGGAACCCC
* **
8693 AATGTCGTCGCCCAGGTTCTCTGACGAAGCTTCGACGATGGTGCCCCGGGCGAAAAAAAATACGG
520 AATG-CGCCGGTCAGGTTCT-TGACG-AGCTTCGACGATGGTGCCCCGGG-GAAAAAAAATACGG
*
8758 CACCAGCACATGCTTGAGCCCAGCATGTGCACCCGCAACCC-TCGATCCT-ATCTGATCTTAGAC
581 CACCAGCACATGCCTGAGCCCAGCATGTGCACCCGCAACCCGTCGATCCTGATCTGATCTTAGAC
* *
8821 TGGGAATGAACTCCGTATGCCTAAGTCAACCCACGAAATGAGCGTGCGGGCGCTCAGTCGGCTAG
646 TGGGAATGAACTCTGTATGCCTAAGTCAACCCACGAAATGAGCGTGCGGGCGCTCAGTCGGCCAG
*
8886 AGGGGAAGGATGCGCAAGCCAGGGATCGGTCGGGTCCCCCTCTACGTGCTACCGATCCTGCTACC
711 AGGGGAAGGATGCGCAAGCCAGGGATCGGACGGGTCCCCCTCTACGTGCTACCGATCCTGCTACC
* * *
8951 GCAACCCTCAGTCTGGTCCAATCTTAGATTGGGAATGAACTTCGTATGCCTAAGCCAACCGATGA
776 GCAACCCTCAGTCTGGTCCAATCTTAGACTGGGAATGAACTCCGTATGCCTAAGCCAACCGACGA
9016 AATGAGCGGGCGGGCGGGCGGGCACTACGCTGGC
841 AA-GAGCGGGCGGGCGGGCGGGCACTACGCTGGC
* *
9050 CAGAGAGACGGGATGCGCAAGCCGTGGATCGATAGGGTAGTAGGTGGGTTTAGGCACATCTTCAT
1 CAGAGAGGCGGGATGCGCAAGCCGTGGATCGATAGGGTGGTAGGTGGGTTTAGGCACATCTTCAT
9115 ATTTCAGCCATGCCAATGCCATTTTTATGGCTTGTAAATTCATACAATGGTCCCTTAAGCCTTCA
66 ATTTCAGCCATGCCAATGCCATTTTTATGGCTTGTAAATTCATACAATGGTCCCTTAAGCCTTCA
*
9180 TTTGAAGTTTCATGGCAAGACAACTCGTTTTCTATTTTTCACAATTTTTGAAACTTTTTACGGTT
131 TTTGAAGTTTCATGGCAAGACAACTCGTTTTCTATTTTTCACGATTTTTGAAACTTTTTACGGTT
* *
9245 CGGGATTTTTTAAAAATTTTTTCAGAAGGAGTTTTGGCCCCAAACTTGGTAGACGTTATCCTTGT
196 CGGGATTTTTTTAAAATTTTTTCAGAAGGAGTTTTGGCCCCAAACTTGGTAGACGTGATCCTTGT
*
9310 ATTTTTGTTGGCATGCAAAAAAGAATTCACCTAAAAAATCAAAGTGTACAAGATTTTGTGACCAT
261 ATTTTTGTTGGCATGCAAAAAAGAATTCACCTAAAAAATCAAAGTGTACAGGATTTTGTGACCAT
*
9375 TTGAAAAAAGTGTCCCCATTTCAGACACTTTAATTGCTACTGGCAGCAAACCTGTAAAATCTCAA
326 TTGAAAAAAGTGTCCCCATTTCAGACACTTTAATGGCTACTGGCAGCAAACCTGTAAAATCTCAA
* * *
9440 ATGCTCTTTAAGTGGGTGAGAGTTCTCGAGGTTTGATGAGGGATAGAGGGTCGATATAAGGGCCA
391 ATGCTCTTTAAGTGGGTGTGAGTTCTCGAGGTTTGATGAGGGATAGGGGGCCGATATAAGGGCCA
* * * *
9505 AGTACCAGCACCCATCGCACATCTTGTGCGTACACCCCCCCTGGCGCCCACAATCGCTGGAACCC
456 AGTACCAGCACCCATCGCACATCATGTGCGCACACCCCCCC-GGCACCC-CAATCGCCGGAACCC
*
9570 CAATGCCGCCGGTCAGGTTCTTCGACGATGCTCCGACGATGGTGCCCCGAGGGAAAAAAAATACG
519 CAATG-CGCCGGTCAGGTTCTT-GACGA-GCTTCGACGATGGTGCCCCG-GGGAAAAAAAATACG
* *** * * *
9635 GCACCAGCACATGCCTGAGCCCAACATGTGCACTTACAACCCTTCG-T-CTGATCCGATCTTAAA
580 GCACCAGCACATGCCTGAGCCCAGCATGTGCACCCGCAACCCGTCGATCCTGATCTGATCTTAGA
*
9698 CTGGGAATGAACTCTGTATGCCTAAGTCAACCCACGAAACGAGCGTGCGGGCGCTCAG-CTGGCC
645 CTGGGAATGAACTCTGTATGCCTAAGTCAACCCACGAAATGAGCGTGCGGGCGCTCAGTC-GGCC
* * * * * * *
9762 AGAGGGGCAGGATGCACAAGCCGGGGATC-GACCGGGTCCCTCTC-AGTGTGCTGCGGATCCTGC
709 AGAGGGGAAGGATGCGCAAGCCAGGGATCGGA-CGGGTCCCCCTCTA-CGTGCTACCGATCCTGC
* * * ** *
9825 TGCCGCAACCCTCGGTCCGACCCAATCTTAGACGGGGAATGAACTCCGTATGCCTAAGCCAACCG
772 TACCGCAACCCTCAGTCTGGTCCAATCTTAGACTGGGAATGAACTCCGTATGCCTAAGCCAACCG
*
9890 ACG-AA-A---------CGAGCGGGCACTACG-TCGGC
837 ACGAAAGAGCGGGCGGGCGGGCGGGCACTACGCT-GGC
9916 CAGAGAGGCGGGATGCGCAAGCCGTGGATCGATAGGGTGGTAGGTGGGTTTAGGCACATCTTCAT
1 CAGAGAGGCGGGATGCGCAAGCCGTGGATCGATAGGGTGGTAGGTGGGTTTAGGCACATCTTCAT
* * * *
9981 ATTTCTA-CCATCCCAATTCCATTTTTATGGCTTGTAAATTCATGCAATGGTCCCTTAAGCTTTC
66 ATTTC-AGCCATGCCAATGCCATTTTTATGGCTTGTAAATTCATACAATGGTCCCTTAAGCCTTC
* *
10045 ATTTGAAGTTTGATGGCAAGACAACTCATTTTCTATTTTTCACGATTTTTGAAACTTTTTACGGT
130 ATTTGAAGTTTCATGGCAAGACAACTCGTTTTCTATTTTTCACGATTTTTGAAACTTTTTACGGT
* * *
10110 TCGGGATTTTTTTTAAATTTTTTCAGAAGGAGTTTTGGTCCCAAACCTGGTAGACGTGATCCTTG
195 TCGGGATTTTTTTAAAATTTTTTCAGAAGGAGTTTTGGCCCCAAACTTGGTAGACGTGATCCTTG
10175 TATTTTTGTTGGCATGCAAAAAAGAATTCACCTAAAAAATCAAAGTGTACAGGATTTTGTGACCA
260 TATTTTTGTTGGCATGCAAAAAAGAATTCACCTAAAAAATCAAAGTGTACAGGATTTTGTGACCA
* * * * *
10240 TTTGAAAAAAGCGTCCCTATTTCAGACATTTTAATGGCTACTGCCAGCAGACCTGTAAAATCTCA
325 TTTGAAAAAAGTGTCCCCATTTCAGACACTTTAATGGCTACTGGCAGCAAACCTGTAAAATCTCA
10305 AATGCTCTTTAAG
390 AATGCTCTTTAAG
10318 AGTGTTGTCA
Statistics
Matches: 1939, Mismatches: 161, Indels: 108
0.88 0.07 0.05
Matches are distributed among these distances:
865 1 0.00
866 396 0.20
867 1 0.00
874 4 0.00
875 491 0.25
876 5 0.00
877 19 0.01
878 273 0.14
879 186 0.10
880 4 0.00
882 1 0.00
883 1 0.00
886 2 0.00
888 5 0.00
889 33 0.02
890 43 0.02
891 21 0.01
892 13 0.01
893 286 0.15
894 54 0.03
895 27 0.01
896 3 0.00
897 1 0.00
903 1 0.00
904 2 0.00
905 66 0.03
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.27
Consensus pattern (873 bp):
CAGAGAGGCGGGATGCGCAAGCCGTGGATCGATAGGGTGGTAGGTGGGTTTAGGCACATCTTCAT
ATTTCAGCCATGCCAATGCCATTTTTATGGCTTGTAAATTCATACAATGGTCCCTTAAGCCTTCA
TTTGAAGTTTCATGGCAAGACAACTCGTTTTCTATTTTTCACGATTTTTGAAACTTTTTACGGTT
CGGGATTTTTTTAAAATTTTTTCAGAAGGAGTTTTGGCCCCAAACTTGGTAGACGTGATCCTTGT
ATTTTTGTTGGCATGCAAAAAAGAATTCACCTAAAAAATCAAAGTGTACAGGATTTTGTGACCAT
TTGAAAAAAGTGTCCCCATTTCAGACACTTTAATGGCTACTGGCAGCAAACCTGTAAAATCTCAA
ATGCTCTTTAAGTGGGTGTGAGTTCTCGAGGTTTGATGAGGGATAGGGGGCCGATATAAGGGCCA
AGTACCAGCACCCATCGCACATCATGTGCGCACACCCCCCCGGCACCCCAATCGCCGGAACCCCA
ATGCGCCGGTCAGGTTCTTGACGAGCTTCGACGATGGTGCCCCGGGGAAAAAAAATACGGCACCA
GCACATGCCTGAGCCCAGCATGTGCACCCGCAACCCGTCGATCCTGATCTGATCTTAGACTGGGA
ATGAACTCTGTATGCCTAAGTCAACCCACGAAATGAGCGTGCGGGCGCTCAGTCGGCCAGAGGGG
AAGGATGCGCAAGCCAGGGATCGGACGGGTCCCCCTCTACGTGCTACCGATCCTGCTACCGCAAC
CCTCAGTCTGGTCCAATCTTAGACTGGGAATGAACTCCGTATGCCTAAGCCAACCGACGAAAGAG
CGGGCGGGCGGGCGGGCACTACGCTGGC
Found at i:10886 original size:156 final size:156
Alignment explanation
Indices: 10620--11218 Score: 1081
Period size: 156 Copynumber: 3.8 Consensus size: 156
10610 GTTAGTTGTT
*
10620 GAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAAG
1 GAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGG
*
10685 AGTATGCAAGAAAAACTATTGTTTCACTTGCAGAGGCTCCGTCGTCGGATTAATTAAAGAAAAAT
66 AGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGGATTAATTAAAGAAAAAT
10750 CAAGATCAACCAATTAATTAATTATC
131 CAAGATCAACCAATTAATTAATTATC
10776 GAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGG
1 GAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGG
10841 AGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGGATTAATTAAAGAAAAAT
66 AGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGGATTAATTAAAGAAAAAT
10906 CAAGATCAACCAATTAATTAATTATC
131 CAAGATCAACCAATTAATTAATTATC
10932 GAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGG
1 GAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGG
10997 AGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGGATTAATTAAAGAAAAAA
66 AGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGGATTAATTAAAG----AA
* * *
11062 AAATCAAAATCAGCCAAGTAATTAATTATC
127 AAATCAAGATCAACCAATTAATTAATTATC
*
11092 GGAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGG
1 GAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGG
* *
11157 AGTATGCAAGAAAAACTACTGTTTTTACTTGTAGAGGCTCCGTCGTCGGATTAATTAAAGAA
66 AGTATGCAAGAAAAACTACTG-TTTCACTTGCAGAGGCTCCGTCGTCGGATTAATTAAAGAA
11219 TAAAGAAAAA
Statistics
Matches: 430, Mismatches: 8, Indels: 9
0.96 0.02 0.02
Matches are distributed among these distances:
156 278 0.65
157 2 0.00
160 114 0.27
161 36 0.08
ACGTcount: A:0.38, C:0.18, G:0.15, T:0.29
Consensus pattern (156 bp):
GAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGG
AGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGGATTAATTAAAGAAAAAT
CAAGATCAACCAATTAATTAATTATC
Found at i:11270 original size:17 final size:17
Alignment explanation
Indices: 11217--11298 Score: 85
Period size: 17 Copynumber: 4.8 Consensus size: 17
11207 TTAATTAAAG
*
11217 AATAAAGAAAAAAAATCA
1 AATAAA-AAAAAAATTCA
* ** *
11235 AGATCAAAATCAAAGTCA
1 A-ATAAAAAAAAAATTCA
11253 AATAAAAAAAAAATTCA
1 AATAAAAAAAAAATTCA
*
11270 AAAAAAAAAAAAATTCA
1 AATAAAAAAAAAATTCA
11287 AA-AAAAAAAAAA
1 AATAAAAAAAAAA
11299 AAAAAAAAAA
Statistics
Matches: 54, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
16 10 0.19
17 30 0.56
18 10 0.19
19 4 0.07
ACGTcount: A:0.77, C:0.07, G:0.04, T:0.12
Consensus pattern (17 bp):
AATAAAAAAAAAATTCA
Found at i:11273 original size:1 final size:1
Alignment explanation
Indices: 11269--11309 Score: 55
Period size: 1 Copynumber: 41.0 Consensus size: 1
11259 AAAAAAATTC
***
11269 AAAAAAAAAAAAAATTCAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
11310 CCTGGAGCGG
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
1 37 1.00
ACGTcount: A:0.93, C:0.02, G:0.00, T:0.05
Consensus pattern (1 bp):
A
Found at i:11300 original size:18 final size:17
Alignment explanation
Indices: 11250--11299 Score: 91
Period size: 17 Copynumber: 2.9 Consensus size: 17
11240 AAAATCAAAG
*
11250 TCAAATAAAAAAAAAAT
1 TCAAAAAAAAAAAAAAT
11267 TCAAAAAAAAAAAAAAT
1 TCAAAAAAAAAAAAAAT
11284 TCAAAAAAAAAAAAAA
1 TCAAAAAAAAAAAAAA
11300 AAAAAAAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
17 32 1.00
ACGTcount: A:0.82, C:0.06, G:0.00, T:0.12
Consensus pattern (17 bp):
TCAAAAAAAAAAAAAAT
Found at i:11325 original size:5 final size:5
Alignment explanation
Indices: 11317--11399 Score: 125
Period size: 5 Copynumber: 16.6 Consensus size: 5
11307 AAACCTGGAG
*
11317 CGGCT CGGCT TGG-T GCGGCT CGGCT CGG-T GCGGCT CGGCT CGGCT CGGCT
1 CGGCT CGGCT CGGCT -CGGCT CGGCT CGGCT -CGGCT CGGCT CGGCT CGGCT
11367 CGGCT CGGCT CGGCT CGGCT CGGCT CGGCT CGG
1 CGGCT CGGCT CGGCT CGGCT CGGCT CGGCT CGG
11400 AGGGCTGAAA
Statistics
Matches: 72, Mismatches: 2, Indels: 8
0.88 0.02 0.10
Matches are distributed among these distances:
4 2 0.03
5 68 0.94
6 2 0.03
ACGTcount: A:0.00, C:0.36, G:0.43, T:0.20
Consensus pattern (5 bp):
CGGCT
Found at i:11642 original size:19 final size:19
Alignment explanation
Indices: 11618--11662 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
11608 GAACGCCGGT
*
11618 GCCGGATTCTGGAAATTTC
1 GCCGGAATCTGGAAATTTC
*
11637 GCCGGAATCTGGGAATTTC
1 GCCGGAATCTGGAAATTTC
11656 GCCGGAA
1 GCCGGAA
11663 ATGGGCCGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.22, C:0.22, G:0.31, T:0.24
Consensus pattern (19 bp):
GCCGGAATCTGGAAATTTC
Found at i:11762 original size:31 final size:31
Alignment explanation
Indices: 11724--11796 Score: 103
Period size: 31 Copynumber: 2.4 Consensus size: 31
11714 AAACTGGGTC
*
11724 TGTCGCCGGAAACTTC-AAAGTTCGCCGGAAT
1 TGTCGCCGGAAAATTCAAAAG-TCGCCGGAAT
*
11755 TGTCGCCGAAAAATTCAAAAGTCGCCGGAAT
1 TGTCGCCGGAAAATTCAAAAGTCGCCGGAAT
*
11786 TTTCGCCGGAA
1 TGTCGCCGGAA
11797 TCTGGAAATT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
31 33 0.89
32 4 0.11
ACGTcount: A:0.29, C:0.25, G:0.25, T:0.22
Consensus pattern (31 bp):
TGTCGCCGGAAAATTCAAAAGTCGCCGGAAT
Found at i:12131 original size:12 final size:12
Alignment explanation
Indices: 12114--12147 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
12104 CTAGCCCTCC
12114 AAAATAAAAATT
1 AAAATAAAAATT
12126 AAAAT-AAAATT
1 AAAATAAAAATT
*
12137 AAAAAAAAAAT
1 AAAATAAAAAT
12148 CTAGATAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (12 bp):
AAAATAAAAATT
Found at i:12395 original size:13 final size:14
Alignment explanation
Indices: 12370--12401 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
12360 CAAGAGAGAA
12370 AAAAATAATAAAAT
1 AAAAATAATAAAAT
12384 AAAAATAA-AAAAT
1 AAAAATAATAAAAT
12397 AAAAA
1 AAAAA
12402 ATACGGGTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 10 0.56
14 8 0.44
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (14 bp):
AAAAATAATAAAAT
Found at i:12396 original size:7 final size:7
Alignment explanation
Indices: 12369--12404 Score: 56
Period size: 7 Copynumber: 5.1 Consensus size: 7
12359 ACAAGAGAGA
12369 AAAAAAT
1 AAAAAAT
12376 AATAAAAT
1 AA-AAAAT
12384 -AAAAAT
1 AAAAAAT
12390 AAAAAAT
1 AAAAAAT
12397 AAAAAAT
1 AAAAAAT
12404 A
1 A
12405 CGGGTAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 5 0.19
7 17 0.63
8 5 0.19
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (7 bp):
AAAAAAT
Found at i:12400 original size:27 final size:28
Alignment explanation
Indices: 12339--12401 Score: 67
Period size: 27 Copynumber: 2.3 Consensus size: 28
12329 ATTAATACAT
* * *
12339 AATAATAAATAATAAAATACACAAGAGAG
1 AATAA-AAATAATAAAATACAAAAGAAAA
*
12368 AA-AAAAATAATAAAATA-AAAATAAAA
1 AATAAAAATAATAAAATACAAAAGAAAA
12394 AATAAAAA
1 AATAAAAA
12402 ATACGGGTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
26 7 0.24
27 18 0.62
28 2 0.07
29 2 0.07
ACGTcount: A:0.76, C:0.03, G:0.05, T:0.16
Consensus pattern (28 bp):
AATAAAAATAATAAAATACAAAAGAAAA
Found at i:12459 original size:20 final size:20
Alignment explanation
Indices: 12437--12501 Score: 94
Period size: 20 Copynumber: 3.2 Consensus size: 20
12427 TTGCCCATTT
* *
12437 GGGCCAGGCCCAAATGATCT
1 GGGCCAGGCCCAATTGATCC
*
12457 GGGTCAGGCCCAATTGATCC
1 GGGCCAGGCCCAATTGATCC
*
12477 GGGTCAGGCCCAATTGATCC
1 GGGCCAGGCCCAATTGATCC
12497 GGGCC
1 GGGCC
12502 CGGACCTGAT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.20, C:0.31, G:0.32, T:0.17
Consensus pattern (20 bp):
GGGCCAGGCCCAATTGATCC
Found at i:12614 original size:1 final size:1
Alignment explanation
Indices: 12608--12638 Score: 62
Period size: 1 Copynumber: 31.0 Consensus size: 1
12598 GACATTTTCA
12608 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
12639 AGCTCCTCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 30 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:12697 original size:41 final size:39
Alignment explanation
Indices: 12640--13132 Score: 599
Period size: 42 Copynumber: 12.0 Consensus size: 39
12630 TTTTTTTTTA
** *
12640 GCTCCTCTTGACAGAGGCTCTACGACTTTGAAAAATAAATT
1 GCTCCTCTAAACAGAGGC-C-ACGACTTTGAAAAGTAAATT
*
12681 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGATAAATT
1 GCTCCTCTAAACAGAGG--CCACGACTTTGAAAAG-TAAATT
*
12723 GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAAATAAATT
1 GCTCCTCTAAACAGAGG--CCACGACTTT-GAAAAGTAAATT
*
12765 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCCACG-ACTTTGAAAAGTAAATT
* *
12805 GCTCCTCTAAATAGAGGTACCACGACTTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGG--CCACGAC-TTTGAAAAGTAAATT
* *
12847 GCTCCTCTCAACAGAGGTACCACGACTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGG--CCACGACTTTGAAAAGTAAATT
*
12888 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCCACG-ACTTTGAAAAGTAAATT
* *
12928 GCTCCTCTAAACAGAGGCAACGGAACTTTGAAAAATAAATT
1 GCTCCTCTAAACAGAGGCCAC-G-ACTTTGAAAAGTAAATT
* *
12969 GCTCCTCTAAATAGAGGCAACGAACTTTGAAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCCACG-ACTTTG-AAAAGTAAATT
13010 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGG--CCACGAC-TTTGAAAAGTAAATT
13052 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGG--CCACGAC-TTTGAAAAGTAAATT
* *
13094 GCTCCTCTAAACAGAGGCAACGAACTTGGAAAAGTAAAT
1 GCTCCTCTAAACAGAGGCCACG-ACTTTGAAAAGTAAAT
13133 ACTCCTAGAC
Statistics
Matches: 413, Mismatches: 24, Indels: 31
0.88 0.05 0.07
Matches are distributed among these distances:
39 4 0.01
40 93 0.23
41 131 0.32
42 172 0.42
43 13 0.03
ACGTcount: A:0.37, C:0.21, G:0.18, T:0.24
Consensus pattern (39 bp):
GCTCCTCTAAACAGAGGCCACGACTTTGAAAAGTAAATT
Found at i:13128 original size:124 final size:122
Alignment explanation
Indices: 12664--13132 Score: 673
Period size: 124 Copynumber: 3.8 Consensus size: 122
12654 AGGCTCTACG
* *
12664 ACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGATAAATTGCTCCT
1 ACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAG-TAAATTGCTCCT
* *
12729 CTAAACAGAGGTACCACGACTTTGGAAAAATAAATTGCTCCTCTAAACAGAGGCAACGA
65 CTAAACAGAGG-ACAACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGA
* * *
12788 ACTTTGAAAAGTAAATTGCTCCTCTAAATAGAGGTACCACGACTTTTGGAAAGTAAATTGCTCCT
1 ACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGAC-TTTGAAAAGTAAATTGCTCCT
* *
12853 CTCAACAGAGGTACCACGACTTTGG-AAAGTAAATTGCTCCTCTAAACAGAGGCAACGA
65 CTAAACAGAGG-ACAACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGA
*
12911 ACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCA--ACGGAACTTTGAAAAATAAATTGCTCC
1 ACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC-G-ACTTTGAAAAGTAAATTGCTCC
* *
12974 TCTAAATAGAGG-CAACGAACTTTGAAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG-
64 TCTAAACAGAGGACAACG-ACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCA--ACGA
13034 ACTTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATTGCTCC
1 AC-TTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGAC-TTTGAAAAGTAAATTGCTCC
13099 TCTAAACAGAGG-CAACGAAC-TTGGAAAAGTAAAT
64 TCTAAACAGAGGACAACG-ACTTTGGAAAAGTAAAT
13133 ACTCCTAGAC
Statistics
Matches: 318, Mismatches: 16, Indels: 22
0.89 0.04 0.06
Matches are distributed among these distances:
120 4 0.01
121 8 0.03
122 58 0.18
123 70 0.22
124 128 0.40
125 48 0.15
126 2 0.01
ACGTcount: A:0.38, C:0.21, G:0.17, T:0.24
Consensus pattern (122 bp):
ACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTC
TAAACAGAGGACAACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGA
Found at i:14384 original size:8 final size:8
Alignment explanation
Indices: 14371--14409 Score: 60
Period size: 8 Copynumber: 4.9 Consensus size: 8
14361 TTCGGATCTC
14371 TTTTTTCA
1 TTTTTTCA
*
14379 TTTTTTTA
1 TTTTTTCA
14387 TTTTTTCA
1 TTTTTTCA
*
14395 TTTTCTCA
1 TTTTTTCA
14403 TTTTTTC
1 TTTTTTC
14410 TTCTTTCTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
8 27 1.00
ACGTcount: A:0.10, C:0.13, G:0.00, T:0.77
Consensus pattern (8 bp):
TTTTTTCA
Found at i:18581 original size:16 final size:15
Alignment explanation
Indices: 18562--18603 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 15
18552 AAAATCAAAG
18562 TCAAATAAAAAAAAAT
1 TCAAA-AAAAAAAAAT
18578 TCAAAAAAAAAAAA-
1 TCAAAAAAAAAAAAT
18592 --AAAAAAAAAAAA
1 TCAAAAAAAAAAAA
18604 AACCTGGAGC
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
12 12 0.46
15 9 0.35
16 5 0.19
ACGTcount: A:0.86, C:0.05, G:0.00, T:0.10
Consensus pattern (15 bp):
TCAAAAAAAAAAAAT
Found at i:18584 original size:1 final size:1
Alignment explanation
Indices: 18580--18605 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
18570 AAAAAAATTC
18580 AAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAA
18606 CCTGGAGCGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:18621 original size:5 final size:5
Alignment explanation
Indices: 18613--18680 Score: 95
Period size: 5 Copynumber: 13.6 Consensus size: 5
18603 AAACCTGGAG
*
18613 CGGCT CGGCT TGG-T GCGGCT CGGCT CGG-T GCGGCT CGGCT CGGCT CGGCT
1 CGGCT CGGCT CGGCT -CGGCT CGGCT CGGCT -CGGCT CGGCT CGGCT CGGCT
18663 CGGCT CGGCT CGGCT CGG
1 CGGCT CGGCT CGGCT CGG
18681 AGGGCTGAAA
Statistics
Matches: 57, Mismatches: 2, Indels: 8
0.85 0.03 0.12
Matches are distributed among these distances:
4 2 0.04
5 53 0.93
6 2 0.04
ACGTcount: A:0.00, C:0.35, G:0.44, T:0.21
Consensus pattern (5 bp):
CGGCT
Found at i:18923 original size:19 final size:19
Alignment explanation
Indices: 18899--18939 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
18889 GAACGCCGGT
*
18899 GCCGGATTCTGGAAATTTC
1 GCCGGAATCTGGAAATTTC
*
18918 GCCGGAATCTGGGAATTTC
1 GCCGGAATCTGGAAATTTC
18937 GCC
1 GCC
18940 AGAAATGGGC
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:0.24, G:0.29, T:0.27
Consensus pattern (19 bp):
GCCGGAATCTGGAAATTTC
Found at i:19043 original size:31 final size:30
Alignment explanation
Indices: 19005--19077 Score: 92
Period size: 31 Copynumber: 2.4 Consensus size: 30
18995 AAACTGGGTC
*
19005 TGTCGCCGGAAACTTCAAAGTTCGCCGGAAT
1 TGTCGCCGGAAACTTAAAAG-TCGCCGGAAT
* *
19036 TGTCGCCGAAAAATTTAAAAGTCGCCGGAAT
1 TGTCGCCG-GAAACTTAAAAGTCGCCGGAAT
*
19067 TTTCGCCGGAA
1 TGTCGCCGGAA
19078 TCTGGAAATT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
30 2 0.06
31 25 0.69
32 9 0.25
ACGTcount: A:0.29, C:0.23, G:0.25, T:0.23
Consensus pattern (30 bp):
TGTCGCCGGAAACTTAAAAGTCGCCGGAAT
Found at i:19413 original size:12 final size:12
Alignment explanation
Indices: 19396--19428 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
19386 CTAGCCCTCC
19396 AAAATAAAAATT
1 AAAATAAAAATT
19408 AAAAT-AAAATT
1 AAAATAAAAATT
19419 AAAA-AAAAAT
1 AAAATAAAAAT
19429 CTAGATAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 15 0.75
12 5 0.25
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (12 bp):
AAAATAAAAATT
Found at i:19737 original size:20 final size:20
Alignment explanation
Indices: 19715--19779 Score: 94
Period size: 20 Copynumber: 3.2 Consensus size: 20
19705 TTGCCCATTT
* *
19715 GGGCCAGGCCCAAATGATCT
1 GGGCCAGGCCCAATTGATCC
*
19735 GGGTCAGGCCCAATTGATCC
1 GGGCCAGGCCCAATTGATCC
*
19755 GGGTCAGGCCCAATTGATCC
1 GGGCCAGGCCCAATTGATCC
19775 GGGCC
1 GGGCC
19780 CGGACCTGAT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.20, C:0.31, G:0.32, T:0.17
Consensus pattern (20 bp):
GGGCCAGGCCCAATTGATCC
Found at i:21394 original size:873 final size:860
Alignment explanation
Indices: 19817--21627 Score: 2553
Period size: 873 Copynumber: 2.1 Consensus size: 860
19807 GTGAGTAATG
*
19817 GAGGTTTGATGAGGGATAGGGGGCCGATATAAGGGCCAAGTACCAGCACCCATCGCACATCATGT
1 GAGGTTTGATGAGGGATAGGGGGCCAATATAAGGGCCAAGTACCAGCACCCATCGCACATCATGT
* * *
19882 GCGCACAACCCCTCGGCACCCCAGTCACCGGAACCCCAATACCGTCGGTCAGGTTCTCTGACGAT
66 GCGCACAACCCCTCGGCACCCCAATCACCGGAACCCCAATACCGCCGGTCAGGTTCTCCGACGAT
* * * *
19947 GCTCCAGCGATGGTGCCCTGGACGAAAAAAAAATATGGCACCAGCACATGCTTGAGCCCAGCATG
131 GCTCCAGCGATGGTGCCCCGGACG-AAAAAAAATATGGCACCAGAACAAGCTCGAGCCCAGCATG
* *
20012 TGCACCCACAACCCTCAGTCCGGTCCGATCTTAGACTGGAAATGAACTCCGTATGCCTAAGTCAA
195 TGCACCCACAACCATCAGTCCAGTCCGATCTTAGACTGGAAATGAACTCCGTATGCCTAAGTCAA
* * ** **
20077 CCCATGAAACGAGCGTGCGGGCGCTCAACCGACCAGAGGGGCAGGATGCGTAAGTCGGGGATCGG
260 CCCACGAAACGAGCATGCGGGCGCTCAACCGACCAGAGGGGCAGGATGCACAAACCGGGGATCGG
* * *** *
20142 CCGGGTCCCCCTCAGCATGCTGCCGCAACCCTCGGTCTGGTCTGGTCTTAGATTGGGAATGAACT
325 CCGCGTCCCCCTCAGCATGCTGCCGCAACCCTCGGTCCGGTCCAATCTTAGACTGGGAATGAACT
* * * * * * **
20207 CCGTATGCCTGAGCCATCTGACGAAACAAGCGGACGGGCGGGCACTACGTCGGTTAGAGAGGCAG
390 CCATATGCCTAAGCCAACCGACGAAACAAGCGGACAGGCGGGCACTACGCCGGCCAGAGAGGCAG
* * * *
20272 GATGCGCAAGCCGTGGATCGATAGGGTGGTAGGTGGGTTTAGGCACATCTTCATATTTCTGCCAT
455 GATGCACAAGCCGTGCATCGATAGGGTGCTAGGTGGGTTTAGGCACATCTTAATATTTCTGCCAT
*
20337 GCCAATGTCACTTTTATGGCTTGTAAATTCATCCAATCATCCCTTAAGCCTTCATGTGAAGTTTC
520 GCCAATGTCACTTTTATGGCTTGTAAATTCATACAATCATCCCTTAAGCCTTCATGTGAAGTTTC
*
20402 ATGGCAAGACGACTCATTTTTTATTTTTCATGATTTTTGAAACTTTTTACGGGTAGGGATTTTTT
585 ATGGCAAGACGACTCATTTTTTATTTTTCACGATTTTTGAAACTTTTTACGGGTAGGGATTTTTT
** * **
20467 TTAAATTTTTTCAAAAGGAGTTTTGGCCCCAAACTTGGTAGATGTGATCCTTGTATTTTTGGTGG
650 AAAAATTTTTTCAAAAGGAGTTTTGGCCCCAAACTTGGAAGACATGATCCTTGTATTTTTGGTGG
20532 CATGCACAAAACAATTCAGCTAAAAACTCGAAGTGTACAGGATTTTGTGACCATTTGAAAAAAGT
715 CATGCACAAAACAATTCAGCTAAAAACTCGAAGTGTACAGGATTTTGTGACCATTTGAAAAAAGT
** *
20597 GTCCCCATTTCAGGTACTTTAATGGCTACTGGCAGCAAACTTGTAAAATCTCAAATGCTCTTTAA
780 GTCCCCATTTCAGACACTTTAATGGCTACTGGCAGCAAACCTGTAAAATCTCAAATGCTCTTTAA
20662 GGCGG-TGTGAGTTCTC
845 GG-GGATGTGAGTTCTC
*
20678 GAGGTTTGATGGGGGATAGGGGGCCAATATAAGGGCCAAGTACCAGCACCCATCGCACATCATGT
1 GAGGTTTGATGAGGGATAGGGGGCCAATATAAGGGCCAAGTACCAGCACCCATCGCACATCATGT
* **
20743 GCGC-CCACCCC-CGGTTC-CCCCAATCGTCGGAACCCCAA-AGCCGCCGGGTCAGGTTCTCCGA
66 GCGCACAACCCCTCGG--CACCCCAATCACCGGAACCCCAATA-CCGCC-GGTCAGGTTCTCCGA
* * * *
20804 CGATGGTTCAGCGATGGTGCCCCGGGCG-AAAAAAATATGGCACCAGAACAAGCTCGAGCCTAGC
127 CGATGCTCCAGCGATGGTGCCCCGGACGAAAAAAAATATGGCACCAGAACAAGCTCGAGCCCAGC
* * * ** * *
20868 GTGTGGACCCACAATCATTGGTCCAGTCCGATCTTGGACTGGGAATGAACTCCGTATGCCTAAGT
192 ATGTGCACCCACAACCATCAGTCCAGTCCGATCTTAGACTGGAAATGAACTCCGTATGCCTAAGT
**
20933 CAACCCACGAAACGAGCATGCGGGCGCTCAGTCGACCAGAGGGGCA-GATGCACAAACCGGGGAT
257 CAACCCACGAAACGAGCATGCGGGCGCTCAACCGACCAGAGGGGCAGGATGCACAAACCGGGGAT
* * **
20997 CGGTCGCGTCCCCCACTGCGTGCTGTCGATCCTGCTGCCGCAATGCTCGGTCCGGTCCAATCTTA
322 CGGCCGCGT--CCC-C--C-T-CAG-C-A---TGCTGCCGCAACCCTCGGTCCGGTCCAATCTTA
* * * *
21062 GACTGGGAATGAACTCCATATGCCTAAGCTAACCGATGAAACGAGCGGGTGGGCAGGCGGGCACT
375 GACTGGGAATGAACTCCATATGCCTAAGCCAACCGACGAAACAAGC----GGACAGGCGGGCACT
*
21127 ACGCCGGCCAGAGAGGCGGGATGCACAAGCCGTGCATCGATAGGGTGCTAGGTGGGTTTAGGCAC
436 ACGCCGGCCAGAGAGGCAGGATGCACAAGCCGTGCATCGATAGGGTGCTAGGTGGGTTTAGGCAC
* **
21192 ATCTTAATATTTCTGCCAT-CCAATGTCATTTTTATGGCTTGTAAATTCATACAATGGTCCCTTA
501 ATCTTAATATTTCTGCCATGCCAATGTCACTTTTATGGCTTGTAAATTCATACAATCATCCCTTA
* * *
21256 AGCGTTCATGTGAAGTTTTATGGCAAGACGACTCGTTTTCTT-TTTTTCACGATTTTTGAAACTT
566 AGCCTTCATGTGAAGTTTCATGGCAAGACGACTCATTTT-TTATTTTTCACGATTTTTGAAACTT
* * *
21320 TTTACGGTTTGGGATTTTTTAAAAAATTTTTT-GAAAGGAGTTTTGGCCCCAAACTTGGAAGACA
630 TTTACGGGTAGGGATTTTTT-AAAAATTTTTTCAAAAGGAGTTTTGGCCCCAAACTTGGAAGACA
* * *
21384 TGATCCTTGTATTTTTGTTGGCATGCACATAACAATTTAGCTAAAAACTCGAAGTGTACAGGATT
694 TGATCCTTGTATTTTTGGTGGCATGCACAAAACAATTCAGCTAAAAACTCGAAGTGTACAGGATT
*
21449 TTGTGACCATTTGAGAAAAGTGTCCCCATTTCAGACACTTTAATGGCTACTGGCAGCAAACCTGT
759 TTGTGACCATTTGAAAAAAGTGTCCCCATTTCAGACACTTTAATGGCTACTGGCAGCAAACCTGT
*
21514 AAAATCTCAAATGCTCTTTAAGGGGATGTGAGTTCTT
824 AAAATCTCAAATGCTCTTTAAGGGGATGTGAGTTCTC
**
21551 GAGGTTTGATGAGGGATAGGGGGCCAATATAAGGGCCAAGTACCAGCACCCATCGCACATCACAT
1 GAGGTTTGATGAGGGATAGGGGGCCAATATAAGGGCCAAGTACCAGCACCCATCGCACATCATGT
*
21616 GCGGACAACCCC
66 GCGCACAACCCC
21628 CCTGCCCCCC
Statistics
Matches: 837, Mismatches: 89, Indels: 35
0.87 0.09 0.04
Matches are distributed among these distances:
858 21 0.03
859 134 0.16
860 31 0.04
861 107 0.13
863 1 0.00
864 1 0.00
865 2 0.00
866 1 0.00
867 1 0.00
870 65 0.08
872 2 0.00
873 365 0.44
874 106 0.13
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (860 bp):
GAGGTTTGATGAGGGATAGGGGGCCAATATAAGGGCCAAGTACCAGCACCCATCGCACATCATGT
GCGCACAACCCCTCGGCACCCCAATCACCGGAACCCCAATACCGCCGGTCAGGTTCTCCGACGAT
GCTCCAGCGATGGTGCCCCGGACGAAAAAAAATATGGCACCAGAACAAGCTCGAGCCCAGCATGT
GCACCCACAACCATCAGTCCAGTCCGATCTTAGACTGGAAATGAACTCCGTATGCCTAAGTCAAC
CCACGAAACGAGCATGCGGGCGCTCAACCGACCAGAGGGGCAGGATGCACAAACCGGGGATCGGC
CGCGTCCCCCTCAGCATGCTGCCGCAACCCTCGGTCCGGTCCAATCTTAGACTGGGAATGAACTC
CATATGCCTAAGCCAACCGACGAAACAAGCGGACAGGCGGGCACTACGCCGGCCAGAGAGGCAGG
ATGCACAAGCCGTGCATCGATAGGGTGCTAGGTGGGTTTAGGCACATCTTAATATTTCTGCCATG
CCAATGTCACTTTTATGGCTTGTAAATTCATACAATCATCCCTTAAGCCTTCATGTGAAGTTTCA
TGGCAAGACGACTCATTTTTTATTTTTCACGATTTTTGAAACTTTTTACGGGTAGGGATTTTTTA
AAAATTTTTTCAAAAGGAGTTTTGGCCCCAAACTTGGAAGACATGATCCTTGTATTTTTGGTGGC
ATGCACAAAACAATTCAGCTAAAAACTCGAAGTGTACAGGATTTTGTGACCATTTGAAAAAAGTG
TCCCCATTTCAGACACTTTAATGGCTACTGGCAGCAAACCTGTAAAATCTCAAATGCTCTTTAAG
GGGATGTGAGTTCTC
Found at i:21921 original size:22 final size:22
Alignment explanation
Indices: 21893--21939 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
21883 CCAAGTACTA
21893 GCACCTATCGCACATCATGTGT
1 GCACCTATCGCACATCATGTGT
21915 GCACCTATCGCACATCATGTGT
1 GCACCTATCGCACATCATGTGT
21937 GCA
1 GCA
21940 AACCCTCTGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.23, C:0.32, G:0.19, T:0.26
Consensus pattern (22 bp):
GCACCTATCGCACATCATGTGT
Found at i:22027 original size:26 final size:26
Alignment explanation
Indices: 21991--22043 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
21981 GTTGACTTAG
*
21991 GCATACGGAGTTCATTCCTAGTCTAA
1 GCATACGGAGTTCATTCCCAGTCTAA
*
22017 GCATACGGAGTTCATTCCCAGTGTAA
1 GCATACGGAGTTCATTCCCAGTCTAA
22043 G
1 G
22044 ATCAGATCGG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.28
Consensus pattern (26 bp):
GCATACGGAGTTCATTCCCAGTCTAA
Found at i:23820 original size:26 final size:26
Alignment explanation
Indices: 23784--23836 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
23774 GTTGACTTAG
23784 GCATACGGAGTTCATTCCCAGTCTAA
1 GCATACGGAGTTCATTCCCAGTCTAA
*
23810 GCATACGGAGTTCATTCCCAGTGTAA
1 GCATACGGAGTTCATTCCCAGTCTAA
23836 G
1 G
23837 ATCGGATCGG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.26, C:0.25, G:0.23, T:0.26
Consensus pattern (26 bp):
GCATACGGAGTTCATTCCCAGTCTAA
Found at i:24077 original size:896 final size:895
Alignment explanation
Indices: 21942--28887 Score: 9287
Period size: 896 Copynumber: 7.8 Consensus size: 895
21932 TGTGTGCAAA
* ** **
21942 CCCTCTGGCTGGCTGAGCGCCCGCACATTTATTTCGTGGGTTGACTTAGGCATACGGAGTTCATT
1 CCCTCTGGCCGGCTGAGCGCCCGCACGCTCGTTTCGTGGGTTGACTTAGGCATACGGAGTTCATT
* * * * *
22007 CCTAGTCTAAGCATACGGAGTTCATTCCCAGTGTAAGATCAGATCGGATCGAGGGTTGTGGGTGC
66 CCCAGTCTAAGCATACGGAGTTCATTCCCAGTGTAAGATCGGACCGGACCAAGGGTTGTGGGTGC
** * * * * *
22072 ACATGCTGGGCTCAAGCATGTGCTGGT-AC-CATATTTTTTTTCACCCGCGGCAACATCGTCGAA
131 ACATGCTGGGCTCGGGCATGTGCTGGTGCCGCAT-TTTTTTTTCGCCCGGGGCACCATCGTCGGA
* * * *
22135 GCATCGTCAGAGAACCTGACCGACGACATTGGGGTTCC-AGCGATTGGGGGGGCGGGGGGTGTGT
195 GCATCGTCGGAGAACCTGACCGGCGGCATTGGGGTTCCGA-CGATT-GGGGGGCGGGGGGTGTGC
*
22199 GCACATGATGTGCGATGGTTGCTGGTACTTGGCCCTTATATTGGCCCCCTATCCCTCATCAAACC
258 GCACATGATGTGCGATGGGTGCTGGTACTTGGCCCTTATATTGGCCCCCTATCCCTCATCAAACC
* * *
22264 TCAAGAACTCACACCCCCTAAAAGAGCATTTGAGATTTTACAGGTTTGCTACCAGTAGCCATTAA
323 TCGAGAACTCACACCCCCTTAAAGAGCATTTGAGATTTTACAGGTTTGCTGCCAGTAGCCATTAA
*
22329 AGTGTCTGAAATGGGGACACTTTTTTCAAATGGTCACAAAATCCTGTACACGTCGAGTTTTTAGC
388 AGTGTCTGAAATGGGGACACTTTTTTCAAATGGTCACAAAATCCTGTACACTTCGAGTTTTTAGC
* * *
22394 TGAATTTTTTTGTGCAAGCCAATAAAAATACAAGGATCATGTCTACCAAGTTTGGGGCCAAAACT
453 TGAATTTTTTTGTGCATGCCAAAAAAAATACAAGGATCACGTCTACCAAG-TTGGGGCCAAAACT
* * * **
22459 CCTTCTGAAAAATTTTTTAAAAAATCCCAAACCGTAAAAAGTTTCAAAAATTGTGAAAAATAGAA
517 CCTTCTGAAAAAATTTTAAAAAAATCCCGAACCGTAAAAAGTTTCAAAAATCATGAAAAATAGAA
*
22524 AACGAGTCGTCTTGCCATGAAACTTCACATGAAGGCTTAAGGGACCATTGAATGAATTTACAAGC
582 AACGAGTCGTCTTGCCATGAAACTTCACATGAAGGCTTAAGGGACCATTGTATGAATTTACAAGC
* * *
22589 CATAAAAATGGCATTGGAATGGCAGAAATATGAAGATGTGCCTAAACCCACTTACCACCCAATCG
647 CATAAAAATGGCATTGGCATGGCAGAAATATGAAGATGTGCCTAAACCCACCTACCACCCTATCG
* * * * **
22654 ATCCACGACTTACGCATCCTGCCTCTCTGGCCCGTGTAGTGCCCGCCCACCCGCTCGTTTCGTCG
712 ATCCACGGCTTGCGCATCCTGCCTCTCTGGCCGGCGTAGTGCCCGCCTGCCCGCTCGTTTCGTCG
** **
22719 GTTGGCTTAGGCATACGGAGTTCATTCCCAGTCTAAGATTGGACCAGACTGAGGGTTGTAGCAGC
777 GTTGGCTTAGGCATACGGAGTTCATTCCCAGTCTAAGATCAGACCAGACTGAGGGTTGCGGCAGC
* * * *
22784 AGGA-CTGGTAGCACACAGGGGGGGACCCGATCAATCCCCGGCTTGCGCATCCTGC
842 AGGATC-GGCAGCACGCA-GGGGGGACCCGATCGATCCCCGGCTTGTGCATCCTGC
* * *
22839 CCCTCTGGCAGGCTTAGCACCCGCACG-TCGGTTTCGTGGGTTGACTTAGGCATACGGAGTTCAT
1 CCCTCTGGCCGGCTGAGCGCCCGCACGCTC-GTTTCGTGGGTTGACTTAGGCATACGGAGTTCAT
* * * *
22903 TCCCACTCTAAGCATACAGAGTTCATTCCCAGTGTAAGATCGGACCGGGCCGAA-GGTTGCTGGT
65 TCCCAGTCTAAGCATACGGAGTTCATTCCCAGTGTAAGATCGGACCGGACC-AAGGGTTG-TGGG
* ** * *
22967 TCCA-ATGCTGGGCTCAAGCATGTGCTGGTGCCGCATTTTTTTTTTGCTCGGGGCACCATCGTCG
128 TGCACATGCTGGGCTCGGGCATGTGCTGGTGCCGCATTTTTTTTTCGCCCGGGGCACCATCGTCG
* * * *
23031 GAGCATCGTCGGAGAACCTGACCGGCGGCATTGTGGTTTCGGCGATTGGGGAGCGGGGGGGTGTG
193 GAGCATCGTCGGAGAACCTGACCGGCGGCATTGGGGTTCCGACGATTGGGGGGC-GGGGGGTGTG
* *
23096 TGCACATGATGTGCG-TGGGTAG-TGGTACTTGGCCCTGATATTGGCCCCCTATCCCTCATCAAA
257 CGCACATGATGTGCGATGGGT-GCTGGTACTTGGCCCTTATATTGGCCCCCTATCCCTCATCAAA
* * * * *
23159 CTTTGGGAACTCACATCCCCTTAAAGAGTATTTGAGATTTTACAGGTTTGCTGCCAGTAGCCATT
321 CCTCGAGAACTCACACCCCCTTAAAGAGCATTTGAGATTTTACAGGTTTGCTGCCAGTAGCCATT
* * * * *
23224 AAAGTGTCTGAAATGGGGACAATTTTTTCTAAA-GGTCACAAAATGCTATACACATCAAGTTTTT
386 AAAGTGTCTGAAATGGGGACACTTTTTTC-AAATGGTCACAAAATCCTGTACACTTCGAGTTTTT
* * *
23288 AGCTAAATTTTTTTGTGCATGCCAACAAAAATACAAGGATCACATCTACCAAGCTTGGGGCCAAA
450 AGCTGAATTTTTTTGTGCATGCCAAAAAAAATACAAGGATCACGTCTACCAAG-TTGGGGCCAAA
* *
23353 ACTCCTTCTAAAAAAATTTTAAAAAAATCCCGAACCGTAAAAGGTTTCAAAAATCATGAAAAATA
514 ACTCCTTCTGAAAAAATTTTAAAAAAATCCCGAACCGTAAAAAGTTTCAAAAATCATGAAAAATA
* *
23418 GAAAACGAGTCGTCTTGCCATGAAACTTCACATGAAGGCTTAAGGGACCATTATTTGAATTTACA
579 GAAAACGAGTCGTCTTGCCATGAAACTTCACATGAAGGCTTAAGGGACCATTGTATGAATTTACA
* * * *
23483 AGCCATAAAAATGGCATTGGCATGGTAGAAAAAAGAAGATATGCCTAAACCCACCTACCACCCTA
644 AGCCATAAAAATGGCATTGGCATGGCAGAAATATGAAGATGTGCCTAAACCCACCTACCACCCTA
* *
23548 TCGATCCATGGCTTGCGCATCCTGCCTCTCT-GCTGGCGTAGTGCCCGCCTGCCCGCTCGTTTCG
709 TCGATCCACGGCTTGCGCATCCTGCCTCTCTGGCCGGCGTAGTGCCCGCCTGCCCGCTCGTTTCG
* * * *
23612 TCGGTTGGCTTAGGCATACGGAGTTTATTCCCAGTATAAGGTCAGATCAGACTGAGGGTTGCGGC
774 TCGGTTGGCTTAGGCATACGGAGTTCATTCCCAGTCTAAGATCAGACCAGACTGAGGGTTGCGGC
* * * * *
23677 AGTAGGATCGGCAGCACGTAGGGGCGGACCCGACCGATCCTCGGCTTTTGCATCCTGC
839 AGCAGGATCGGCAGCACGCAGGGG-GGACCCGATCGATCCCCGGCTTGTGCATCCTGC
* *
23735 CCCTCTGGCCGGCTGAGTGCCCGCACGCTTGTTTCGTGGGTTGACTTAGGCATACGGAGTTCATT
1 CCCTCTGGCCGGCTGAGCGCCCGCACGCTCGTTTCGTGGGTTGACTTAGGCATACGGAGTTCATT
*
23800 CCCAGTCTAAGCATACGGAGTTCATTCCCAGTGTAAGATCGGATCGGACCAAGGGTTGTGGGTGC
66 CCCAGTCTAAGCATACGGAGTTCATTCCCAGTGTAAGATCGGACCGGACCAAGGGTTGTGGGTGC
* * * *
23865 ACATGCTGGGCTCGGGCACGTGCTGGTGCCGCATTTTTTTTTTGCCCAGGGCACCATCATCGGAG
131 ACATGCTGGGCTCGGGCATGTGCTGGTGCCGCATTTTTTTTTCGCCCGGGGCACCATCGTCGGAG
* * ** ** * *
23930 CATTGCCGGAGAACCTGACCGATGGCATTAAGGTTCTGACGATTGGGGGGCGGGGGGTGTGCACA
196 CATCGTCGGAGAACCTGACCGGCGGCATTGGGGTTCCGACGATTGGGGGGCGGGGGGTGTGCGCA
** *
23995 CATGATGTGCGATGGGTGCTGGTACTTGGCCCTTATATTGGTGCCCTATCCCTCATCAAACCTCA
261 CATGATGTGCGATGGGTGCTGGTACTTGGCCCTTATATTGGCCCCCTATCCCTCATCAAACCTCG
* * *
24060 AGAACTCACACCCCCTTAAAGAGCATTTGAGATATTATAGGTTTGCTGCCAGTAGCCTTTAAAGT
326 AGAACTCACACCCCCTTAAAGAGCATTTGAGATTTTACAGGTTTGCTGCCAGTAGCCATTAAAGT
* *
24125 GTCTGAAATGGGGACAATTTTTTCAAATGGTCACAAAATCCTGTACACTTCGAGTTTTCAGCTGA
391 GTCTGAAATGGGGACACTTTTTTCAAATGGTCACAAAATCCTGTACACTTCGAGTTTTTAGCTGA
* * **
24190 ATTTTTTTGTGCTTGCCAAAAAAAATAAAAGGATCACGTCTACCAAGTTTGTTGCCAAAACTCCT
456 ATTTTTTTGTGCATGCCAAAAAAAATACAAGGATCACGTCTACCAAG-TTGGGGCCAAAACTCCT
* * * *
24255 TTTGAAAAAATTTTAAAAAAA-CCCAGAACCATGAAAAGTTTCAAAAATCATGAAAAAAAGAAAA
520 TCTGAAAAAATTTTAAAAAAATCCC-GAACCGTAAAAAGTTTCAAAAATCATGAAAAATAGAAAA
*
24319 CAAGTCGTCTTGCCATGAAACTTCACATGAAGGCTTAAGGGACCATTGTATGAATTTACAAGCCA
584 CGAGTCGTCTTGCCATGAAACTTCACATGAAGGCTTAAGGGACCATTGTATGAATTTACAAGCCA
** * *
24384 TAAAAATGGCATTGGCATGGTGGAAATATGGAGATGTGGCTAAACCCACCTACCACCCTATCGAT
649 TAAAAATGGCATTGGCATGGCAGAAATATGAAGATGTGCCTAAACCCACCTACCACCCTATCGAT
* * **
24449 CCACGGCTTGCGCATCCCGCCTCTCTGGCCGTCGTAGTGCCCGTCC-GCCTACTCGTTTCGTCGG
714 CCACGGCTTGCGCATCCTGCCTCTCTGGCCGGCGTAGTGCCCG-CCTGCCCGCTCGTTTCGTCGG
** * * * * *
24513 TTACCTTAGGCATATGAAGTTCATTCCCAGTCTAAGATCGGACCGGACTGAGGGTTGCAGCAGCA
778 TTGGCTTAGGCATACGGAGTTCATTCCCAGTCTAAGATCAGACCAGACTGAGGGTTGCGGCAGCA
* ** * ** * ** *
24578 GGATCAGCAGCACATAGGGGGGACTCGATCGATCCTTGACTTACGCATCCTGT
843 GGATCGGCAGCACGCAGGGGGGACCCGATCGATCCCCGGCTTGTGCATCCTGC
* *
24631 CCCTCTCGCCAGCTGAGCGCCCGCACGCTCGTTTCGTGGGTTGACTTAGGCATACGGAGTTCATT
1 CCCTCTGGCCGGCTGAGCGCCCGCACGCTCGTTTCGTGGGTTGACTTAGGCATACGGAGTTCATT
* * * * * *
24696 CCCAGTCTAAGCATATGAAGTTCATTCCCAGCGTAAGATCGGACCGGGCCGAGGGTTATGGGTGC
66 CCCAGTCTAAGCATACGGAGTTCATTCCCAGTGTAAGATCGGACCGGACCAAGGGTTGTGGGTGC
* **
24761 ACATGCTGGGCTTGGGCATGTGCTGGTGCCGCATTTTTTTTTCGCCTAGGGCACCATCGTCGGAG
131 ACATGCTGGGCTCGGGCATGTGCTGGTGCCGCATTTTTTTTTCGCCCGGGGCACCATCGTCGGAG
* * * * * ** *
24826 CATTGCCGGAGCACCTGACTGGCGGCATTGGGGTTCCGGCGATTGGGGGGCGGGGGGTAAGCACA
196 CATCGTCGGAGAACCTGACCGGCGGCATTGGGGTTCCGACGATTGGGGGGCGGGGGGTGTGCGCA
* * * *
24891 CATGATGTGTGATGGGTGCTGATACTTGGCCCTTATATTGGCGCCCTATCCCTCATCAAACCTCA
261 CATGATGTGCGATGGGTGCTGGTACTTGGCCCTTATATTGGCCCCCTATCCCTCATCAAACCTCG
* * * *
24956 AGAACTCACACCCCCTTAAAGAGCATTTGAGATTTTACAGGTTTACTGCCAATGGCCACTAAAGT
326 AGAACTCACACCCCCTTAAAGAGCATTTGAGATTTTACAGGTTTGCTGCCAGTAGCCATTAAAGT
* * * *
25021 GTTTGAAATAGGGACACTTTTTTTGAAATGGTCACAAAATCCTATACACTTCGAGTTTTTAGCTG
391 GTCTGAAATGGGGACAC-TTTTTTCAAATGGTCACAAAATCCTGTACACTTCGAGTTTTTAGCTG
* * * *
25086 AATTTTTTTGTGCATGCCAACAAAAATACAAGCATAACGTCTACCAAGATTGGGGCCAAAACTAC
455 AATTTTTTTGTGCATGCCAAAAAAAATACAAGGATCACGTCTACCAAG-TTGGGGCCAAAACTCC
* * *
25151 TACTGAAAAAATTTT-AAAAAATCTCGAACCGTAAAAAGTTTCAAAAATCATGAAAAGTAGAAAA
519 TTCTGAAAAAATTTTAAAAAAATCCCGAACCGTAAAAAGTTTCAAAAATCATGAAAAATAGAAAA
*
25215 TGAGTCGTCTTGCCATGAAACTTCACATGAAGGCTTAAGGGACCATTGTATGAATTTACAAGCCA
584 CGAGTCGTCTTGCCATGAAACTTCACATGAAGGCTTAAGGGACCATTGTATGAATTTACAAGCCA
*
25280 TAAAAATGGCATTGGCATGGCAGAAATATGAGGATGTGCCTAAACCCACCTACCACCCTATCGAT
649 TAAAAATGGCATTGGCATGGCAGAAATATGAAGATGTGCCTAAACCCACCTACCACCCTATCGAT
* * *
25345 CCGCGGCTTGCGCATCCTGCCTCTCTGGCCGGTGTAGTGCCCGCATGCCCGCTCGTTTCGTCGGT
714 CCACGGCTTGCGCATCCTGCCTCTCTGGCCGGCGTAGTGCCCGCCTGCCCGCTCGTTTCGTCGGT
* * *
25410 TGGCTTAGGCATACGGAGTTCATTCCTAGTCTAAGATTAGACC-GAATTGAGGGTTGCGGCAGCA
779 TGGCTTAGGCATACGGAGTTCATTCCCAGTCTAAGATCAGACCAG-ACTGAGGGTTGCGGCAGCA
* *
25474 GGATCAGCAGCATGCAGGGGGGACCCGATCGATCCCCGGCTTGTGCATCCTGC
843 GGATCGGCAGCACGCAGGGGGGACCCGATCGATCCCCGGCTTGTGCATCCTGC
* * * *
25527 CCCTCTGGCCGACTGAGCGCCCGCATGCTCGTTTCATGGGTTGACTTAGGCATACGGAGTTCACT
1 CCCTCTGGCCGGCTGAGCGCCCGCACGCTCGTTTCGTGGGTTGACTTAGGCATACGGAGTTCATT
* * * * ** *
25592 CCCAGTCTAAGCATACAGAGTTCATTCCTAGTGTAAGATCAGACCGGACCGAGGGTTACGAGTGC
66 CCCAGTCTAAGCATACGGAGTTCATTCCCAGTGTAAGATCGGACCGGACCAAGGGTTGTGGGTGC
* ** * * * * **
25657 ACATGTTGGGCTTAGGCATGTGCTGGTGCTGCATCTTTTTTTCACCCGGGGCACCATCGCCTAAG
131 ACATGCTGGGCTCGGGCATGTGCTGGTGCCGCATTTTTTTTTCGCCCGGGGCACCATCGTCGGAG
* *
25722 CATCGTTGGAGAACCTGACCGGCGACATT-GGGTTCCGACGATTGGGGGTGCGGAGGGGTGTGCG
196 CATCGTCGGAGAACCTGACCGGCGGCATTGGGGTTCCGACGATTGGGGG-GCGG-GGGGTGTGCG
* * * *
25786 CACATGATGTACGATGGGTGCTGGTTCTTGGCCCTTATATTAGCCCTCTATCCCTCATCAAACCT
259 CACATGATGTGCGATGGGTGCTGGTACTTGGCCCTTATATTGGCCCCCTATCCCTCATCAAACCT
* * * *
25851 CGACAACTCGCA-CCCCTTGAAAGAGCATTTGAGATTTTATAGGTTTGCTGCCAGTAGCCTTTAA
324 CGAGAACTCACACCCCCTT-AAAGAGCATTTGAGATTTTACAGGTTTGCTGCCAGTAGCCATTAA
* *
25915 AG-GATTTGAAATGGGGACACTTTTTTCAAATGGTCACAAAATCCTGTACACTTCGATTTTTTAG
388 AGTG-TCTGAAATGGGGACACTTTTTTCAAATGGTCACAAAATCCTGTACACTTCGAGTTTTTAG
* **
25979 CTGAATTTTTTTGTGCATGCCAAAAAAAACACAAGGATCACAACTACCAAGTTTGGGGCCAAGAA
452 CTGAATTTTTTTGTGCATGCCAAAAAAAATACAAGGATCACGTCTACCAAG-TTGGGGCCAA-AA
* ** *
26044 -TACTTCTGAAAAAATTTTAAAAAAATCCCGAACCGTAAAAAGTTTTGAAAATCGTGAAAAATAG
515 CTCCTTCTGAAAAAATTTTAAAAAAATCCCGAACCGTAAAAAGTTTCAAAAATCATGAAAAATAG
* * * *
26108 AAAACCAGTCGTCTTCCCATGAAACTTCACATGAAGGCTTAATGGACCATTGTATTAATTTACAA
580 AAAACGAGTCGTCTTGCCATGAAACTTCACATGAAGGCTTAAGGGACCATTGTATGAATTTACAA
*
26173 GCCATAAAAATGGCATTGGCAGGGCAGAAATATGAAGATGTGCCTAAACCCACCTACCACCCTAT
645 GCCATAAAAATGGCATTGGCATGGCAGAAATATGAAGATGTGCCTAAACCCACCTACCACCCTAT
* * * * * *
26238 CGAACCACGGCTTGCGTAT-CTCGCCTCTTTGGTCGACGTAGTGCCCG-CTCGCCCTCTCGTTTC
710 CGATCCACGGCTTGCGCATCCT-GCCTCTCTGGCCGGCGTAGTGCCCGCCT-GCCCGCTCGTTTC
* * **
26301 GTCGGTTGGCTTAGGCATACGAAGTTCATTCCCAGTCTAAGATCAAACCAGACCAAGGGTTGCGG
773 GTCGGTTGGCTTAGGCATACGGAGTTCATTCCCAGTCTAAGATCAGACCAGACTGAGGGTTGCGG
* * * * *
26366 TAGCAGGATCGGTAGCACGCAAGGGGGGACCCGGTCGATCCTCGACTTGTGCATCCTGC
838 CAGCAGGATCGGCAGCACGC-AGGGGGGACCCGATCGATCCCCGGCTTGTGCATCCTGC
* * * * * * * * *
26425 CCCTTTGCCCGGCTAAGCGCCCGCACACTTGTTTCATGGGTTGACATAGGCATACAGAGTTGATT
1 CCCTCTGGCCGGCTGAGCGCCCGCACGCTCGTTTCGTGGGTTGACTTAGGCATACGGAGTTCATT
* * ***
26490 CCCAGTCTAAGCATACGGAGTTCATTCCCAGTGTAAGATCGAACTGGA-CAGAGGGTTACAGGTG
66 CCCAGTCTAAGCATACGGAGTTCATTCCCAGTGTAAGATCGGACCGGACCA-AGGGTTGTGGGTG
* * *
26554 CACATGCTGGGCTCGTGCATGTGCTGGTGCCGTA-TTTTTTTTCGGCCGGGGCACCA---TC---
130 CACATGCTGGGCTCGGGCATGTGCTGGTGCCGCATTTTTTTTTCGCCCGGGGCACCATCGTCGGA
* * * * ** *
26612 G---C--CGGAGAAGCTGACCGACGGCATAGGGGTTCCGATGATTGGGGGGTAGGGGGTGTACGC
195 GCATCGTCGGAGAACCTGACCGGCGGCATTGGGGTTCCGACGATTGGGGGGCGGGGGGTGTGCGC
* *
26672 ACAAGATGTGCGATGGGTGCTGGTACTTGGCCCTTATATTGGCCCCCTATCCCTCATCAAACCTT
260 ACATGATGTGCGATGGGTGCTGGTACTTGGCCCTTATATTGGCCCCCTATCCCTCATCAAACCTC
26737 GAGAACTCACACCCCCTTAAAGAGCATTTGAGATTTTACAGG-TT--TG-C--T-G-C--TAAAG
325 GAGAACTCACACCCCCTTAAAGAGCATTTGAGATTTTACAGGTTTGCTGCCAGTAGCCATTAAAG
*
26792 TGTCTAAAATGGGGACACTTTTTTCAAATGGTCACAAAATCCTGTACACTTCGAGTTTTTAGCTG
390 TGTCTGAAATGGGGACACTTTTTTCAAATGGTCACAAAATCCTGTACACTTCGAGTTTTTAGCTG
* * * * *
26857 AATTTTTTTATGCATGCCAAAAAAAATATAAGGACCACGTCTACCAAGTGTGGGACCAAAAATCC
455 AATTTTTTTGTGCATGCCAAAAAAAATACAAGGATCACGTCTACCAAGT-TGGGGCCAAAACTCC
* * *
26922 TTCTGAAAAAATTTAAAAAAAATCCTGAACCGTAAAAAGTTTCAAAAAACATGAAAAATAGAAAA
519 TTCTGAAAAAATTTTAAAAAAATCCCGAACCGTAAAAAGTTTCAAAAATCATGAAAAATAGAAAA
* *
26987 CGAGTCGTCTTCCCATGAAACTTCACTTGAAGGCTTAAGGGACCATTGTATGAATTTACAACGCC
584 CGAGTCGTCTTGCCATGAAACTTCACATGAAGGCTTAAGGGACCATTGTATGAATTTACAA-GCC
*
27052 --CAAAATGGGCATTGTGCATGGCAGAAATATG-AGATGTGCCTAAACCCACCTACCACCACTAT
648 ATAAAAAT-GGCATTG-GCATGGCAGAAATATGAAGATGTGCCTAAACCCACCTACCACC-CTAT
* * * ** * *
27114 CGA-CCACGGGC-TGCGCATCCCGCCTCTTCTAGTCGGTATAG-GTCCCGCCCGCCCGGTCGTTT
710 CGATCCAC-GGCTTGCGCATCCTGCCTC-TCTGGCCGGCGTAGTG-CCCGCCTGCCCGCTCGTTT
* * * * *
27176 CGTCGGTTGGCTTAGGCATACGGAGTTCATTCCCAGTCTAAGATCGGATC-GAATCAAGGGTTGT
772 CGTCGGTTGGCTTAGGCATACGGAGTTCATTCCCAGTCTAAGATCAGACCAGACT-GAGGGTTGC
* * * * * *
27240 GGCAGTAGGATCGGTAGCAAGCAGGGGGGACCCGGTCGATCCCCGACTTGCGCATCCTGC
836 GGCAGCAGGATCGGCAGCACGCAGGGGGGACCCGATCGATCCCCGGCTTGTGCATCCTGC
* * *
27300 CCCTCTGGCCAGCTGAGGGCCCGCACGCTCGTTTCATGGGTTGACTTAGGCATACGGAGTTCATT
1 CCCTCTGGCCGGCTGAGCGCCCGCACGCTCGTTTCGTGGGTTGACTTAGGCATACGGAGTTCATT
* * *
27365 CCCAATCTAAGCATACGGAGTTCATTCCCAGTGTAAGATCAGACCGGACCAAGGGTTGGGGGTGC
66 CCCAGTCTAAGCATACGGAGTTCATTCCCAGTGTAAGATCGGACCGGACCAAGGGTTGTGGGTGC
* * * * * *
27430 ACATGATGGGCTCGGGCCTGTGCTGGTGCCGCATTTTTTTTTTTGGCTCGGGGCACCATCGCCGA
131 ACATGCTGGGCTCGGGCATGTGCTGGTGCCGCA--TTTTTTTTTCGCCCGGGGCACCATCGTCGG
* * * * *
27495 AACATCGTCGGAGAACCTGACCGGCGGCATTGGGGTTTCGCCCAGTGGGGGGCGAGGGGGGTTGT
194 AGCATCGTCGGAGAACCTGACCGGCGGCATTGGGGTTCCGACGATTGGGGGGC--GGGGGG-TGT
** *
27560 GCGCACATGATGTATGATGGGTGCTGGTACTTAGCCCTTATATTGGCCCCCTATCCCTCATCAAA
256 GCGCACATGATGTGCGATGGGTGCTGGTACTTGGCCCTTATATTGGCCCCCTATCCCTCATCAAA
* * * *
27625 CCTCTATAACTCACACCCCCTTAAAGAGCATTTGAGATTTTATAGGTTTGCTGCCAGTAGCCACT
321 CCTCGAGAACTCACACCCCCTTAAAGAGCATTTGAGATTTTACAGGTTTGCTGCCAGTAGCCATT
* *
27690 AAAGTGTCTGAAATTGGGACACTTTTTTCAAATGGTCCCAAAATCCTGTACACTTCGAGTTTTTA
386 AAAGTGTCTGAAATGGGGACACTTTTTTCAAATGGTCACAAAATCCTGTACACTTCGAGTTTTTA
* * *
27755 GCTGAATTTTTTTGTGCATGCCAAAAAAATTACAAGGATCACATCTACCAAG-TGTGGACCAAAA
451 GCTGAATTTTTTTGTGCATGCCAAAAAAAATACAAGGATCACGTCTACCAAGTTG-GGGCCAAAA
* **
27819 CTCCTTCTGAAAAAATTTTAAAAAAATCTCGAACCGTAAAAAGTTTTGAAAATCATGAAAAATAG
515 CTCCTTCTGAAAAAATTTTAAAAAAATCCCGAACCGTAAAAAGTTTCAAAAATCATGAAAAATAG
* *
27884 AAAACGAGTCGTCTTGCCATGAAACTTCACATGAAGGCTTAAGGGAGCATTTTATGAATTTACAA
580 AAAACGAGTCGTCTTGCCATGAAACTTCACATGAAGGCTTAAGGGACCATTGTATGAATTTACAA
* * *
27949 GCCATAAAAATGGCATTGGCATGGCAGAAATTTGAAGATGTGCCTAAACCCAGCTACTACCCTAT
645 GCCATAAAAATGGCATTGGCATGGCAGAAATATGAAGATGTGCCTAAACCCACCTACCACCCTAT
* * * * * *
28014 CGATCCACGGCTTGCGCATCCCGCCTCTCTGGCCGACGTAGTGCTCGCCTGTCCACTTGTTTCGT
710 CGATCCACGGCTTGCGCATCCTGCCTCTCTGGCCGGCGTAGTGCCCGCCTGCCCGCTCGTTTCGT
* * * * *
28079 CGGTTGGCTTAGGCATACGGAGTTCATTCCCAGCCTAAGATCAGACCAAACAGAGGGTTGCAGTA
775 CGGTTGGCTTAGGCATACGGAGTTCATTCCCAGTCTAAGATCAGACCAGACTGAGGGTTGCGGCA
* * *
28144 GCAGGATTGACAGCACTCAGGGGGGA-CCGA-CGGATCCCCGGCTTGCT-CATCCTGC
840 GCAGGATCGGCAGCACGCAGGGGGGACCCGATC-GATCCCCGGCTTG-TGCATCCTGC
* * * * * * *
28199 CCTTTTGGTCGGCTGAGCGTCCACACGCTCGTTTTGTGGGTTGATTTAGGCATACGGAGTTCATT
1 CCCTCTGGCCGGCTGAGCGCCCGCACGCTCGTTTCGTGGGTTGACTTAGGCATACGGAGTTCATT
* ** * * *
28264 CCCAATCTAAGCATATTGAGTTCATTCCCAGTGTAAGATCGGATCAGACCGAGGGTTGTGGGTGC
66 CCCAGTCTAAGCATACGGAGTTCATTCCCAGTGTAAGATCGGACCGGACCAAGGGTTGTGGGTGC
* * * * * *
28329 ACATGCTGGGCTCGGGCATGTGCTAGTACCG--TATTTTTTTCGCTCGAGGCACCATCGCCGGAG
131 ACATGCTGGGCTCGGGCATGTGCTGGTGCCGCATTTTTTTTTCGCCCGGGGCACCATCGTCGGAG
* * * ** * *
28392 CATCGTCGGAGAACTTGATCGGCGGCATT-AGG-TCCGACGATTGCGGGAACGGGGGTTGTACGC
196 CATCGTCGGAGAACCTGACCGGCGGCATTGGGGTTCCGACGATTG-GGGGGCGGGGGGTGTGCGC
* *
28455 ACATGATGTGCGATGGGTGCCGGTACTTGGCCCTTATATTGGCCCCCCATCCCTCATCAAACCTC
260 ACATGATGTGCGATGGGTGCTGGTACTTGGCCCTTATATTGGCCCCCTATCCCTCATCAAACCTC
* * *
28520 GAGAACTCACACCCCCTTAAAGAGCATTTGAAATTTTACAGGTTTGTTGCCAGTAGCCATAAAAG
325 GAGAACTCACACCCCCTTAAAGAGCATTTGAGATTTTACAGGTTTGCTGCCAGTAGCCATTAAAG
*
28585 TGTCTGAAATGGGGACACTTTTTTCAAATGGTCACAAAATCCTGTACACATCGAGTTTTTAGCTG
390 TGTCTGAAATGGGGACACTTTTTTCAAATGGTCACAAAATCCTGTACACTTCGAGTTTTTAGCTG
* * * * *
28650 AATTGTTTTCTACATGCCAACAAAAATACAAGGATCACGTCTACCAAGTGTGCGGCCAAAACTCC
455 AATTTTTTTGTGCATGCCAAAAAAAATACAAGGATCACGTCTACCAAGT-TGGGGCCAAAACTCC
* *
28715 TTCTGAAAAAATTTTTAAAAAATCACGAACCGTAAAAAGTTTCAAAAATCATGAAAAATAGAAAA
519 TTCTGAAAAAATTTTAAAAAAATCCCGAACCGTAAAAAGTTTCAAAAATCATGAAAAATAGAAAA
* *
28780 TGAGGCGTCTTGCCATGAAACTTCACATGAAGGCTTAAGGGACCATTGTATGAATTTACAAGCCA
584 CGAGTCGTCTTGCCATGAAACTTCACATGAAGGCTTAAGGGACCATTGTATGAATTTACAAGCCA
* *
28845 -GAAAATGGCATTGGCATGGCAAAAATATGAAGATGTGCCTAAA
649 TAAAAATGGCATTGGCATGGCAGAAATATGAAGATGTGCCTAAA
Statistics
Matches: 5319, Mismatches: 639, Indels: 188
0.87 0.10 0.03
Matches are distributed among these distances:
874 8 0.00
875 459 0.09
876 128 0.02
877 2 0.00
878 20 0.00
879 1 0.00
881 2 0.00
882 2 0.00
884 2 0.00
885 101 0.02
886 26 0.00
887 19 0.00
888 1 0.00
889 36 0.01
891 274 0.05
892 243 0.05
893 11 0.00
894 7 0.00
895 118 0.02
896 1782 0.34
897 1211 0.23
898 275 0.05
899 167 0.03
900 129 0.02
901 180 0.03
902 115 0.02
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.26
Consensus pattern (895 bp):
CCCTCTGGCCGGCTGAGCGCCCGCACGCTCGTTTCGTGGGTTGACTTAGGCATACGGAGTTCATT
CCCAGTCTAAGCATACGGAGTTCATTCCCAGTGTAAGATCGGACCGGACCAAGGGTTGTGGGTGC
ACATGCTGGGCTCGGGCATGTGCTGGTGCCGCATTTTTTTTTCGCCCGGGGCACCATCGTCGGAG
CATCGTCGGAGAACCTGACCGGCGGCATTGGGGTTCCGACGATTGGGGGGCGGGGGGTGTGCGCA
CATGATGTGCGATGGGTGCTGGTACTTGGCCCTTATATTGGCCCCCTATCCCTCATCAAACCTCG
AGAACTCACACCCCCTTAAAGAGCATTTGAGATTTTACAGGTTTGCTGCCAGTAGCCATTAAAGT
GTCTGAAATGGGGACACTTTTTTCAAATGGTCACAAAATCCTGTACACTTCGAGTTTTTAGCTGA
ATTTTTTTGTGCATGCCAAAAAAAATACAAGGATCACGTCTACCAAGTTGGGGCCAAAACTCCTT
CTGAAAAAATTTTAAAAAAATCCCGAACCGTAAAAAGTTTCAAAAATCATGAAAAATAGAAAACG
AGTCGTCTTGCCATGAAACTTCACATGAAGGCTTAAGGGACCATTGTATGAATTTACAAGCCATA
AAAATGGCATTGGCATGGCAGAAATATGAAGATGTGCCTAAACCCACCTACCACCCTATCGATCC
ACGGCTTGCGCATCCTGCCTCTCTGGCCGGCGTAGTGCCCGCCTGCCCGCTCGTTTCGTCGGTTG
GCTTAGGCATACGGAGTTCATTCCCAGTCTAAGATCAGACCAGACTGAGGGTTGCGGCAGCAGGA
TCGGCAGCACGCAGGGGGGACCCGATCGATCCCCGGCTTGTGCATCCTGC
Found at i:26510 original size:26 final size:26
Alignment explanation
Indices: 26474--26526 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
26464 GTTGACATAG
*
26474 GCATACAGAGTTGATTCCCAGTCTAA
1 GCATACAGAGTTCATTCCCAGTCTAA
* *
26500 GCATACGGAGTTCATTCCCAGTGTAA
1 GCATACAGAGTTCATTCCCAGTCTAA
26526 G
1 G
26527 ATCGAACTGG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.26
Consensus pattern (26 bp):
GCATACAGAGTTCATTCCCAGTCTAA
Done.