Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01012066.1 Kokia drynarioides strain JFW-HI SEQ_127064, 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: 130920
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.35
Warning! 41 characters in sequence are not A, C, G, or T
Found at i:2636 original size:189 final size:188
Alignment explanation
Indices: 2159--2737 Score: 936
Period size: 189 Copynumber: 3.1 Consensus size: 188
2149 CAAAGAGCAA
** * ** *
2159 AATTT-CTCAGCTGCTGCACACGGC-GACGCCACCGCTTCTGAAGGCCATCAAGTTGTCACAATG
1 AATTTACTCAGCTGCTGCTTACGGCGGA-GCCACCGCTTATGAAGGCTGTCAACTTGTCACAATG
* * *
2222 GCGGCGAATATTGATAATCAAAACAACATTCCAAATTCCTCAATTGCTTCGAACATCAACGCCGC
65 GCGGCGAATATTGATAATCAAAACAACATTCCAAATTCCTCAACTGCTTCGAACATCAACACCAC
*
2287 CGCTCTTGAAGGAGGTGAAACCGTCACGACGGTGGAGAATGAGGATTAT--AACATACT
130 CGCTCTTGAAGGAGGTGAAACCGTCACGACGGCGGAGAATGAGGATTATAAAACATACT
*
2344 AATTTACTCAGCTGCT-CTTTACGGCGGAGCCACCGCTTATGAAGGCTGCCAACTTGTCACAATG
1 AATTTACTCAGCTGCTGC-TTACGGCGGAGCCACCGCTTATGAAGGCTGTCAACTTGTCACAATG
2408 GCGGCGAATATTGATAATCAAAACAACATTCCAAATTCCTCAACTGCTTCGAACATCAACACCAC
65 GCGGCGAATATTGATAATCAAAACAACATTCCAAATTCCTCAACTGCTTCGAACATCAACACCAC
* *
2473 CGCTCTTGAAGGAGGTGAAACCGTCACAACGGCCGAGAATGAGGATTATAACAACATACT
130 CGCTCTTGAAGGAGGTGAAACCGTCACGACGGCGGAGAATGAGGATTATAA-AACATACT
2533 AATTTACTCAGCTGCTGCTTACGGCGGAGCCACCGCTTATGAAGGCTGTCAACTTGTCACAATGG
1 AATTTACTCAGCTGCTGCTTACGGCGGAGCCACCGCTTATGAAGGCTGTCAACTTGTCACAATGG
2598 CGGCGAATATTGATAATCAAAACAACATTCCAAATTCCTCAACTGCTTCGAACATCAA-AGCCAC
66 CGGCGAATATTGATAATCAAAACAACATTCCAAATTCCTCAACTGCTTCGAACATCAACA-CCAC
*
2662 CGCTCTTGAAGGAGATGAAACCGTCACGACGGCGGAGAATGAGGATTATGAAAACATACT
130 CGCTCTTGAAGGAGGTGAAACCGTCACGACGGCGGAGAATGAGGATTAT-AAAACATACT
*
2722 ATTTTACTCAGCTGCT
1 AATTTACTCAGCTGCT
2738 ACGGATGGCC
Statistics
Matches: 367, Mismatches: 18, Indels: 14
0.92 0.05 0.04
Matches are distributed among these distances:
185 6 0.02
186 154 0.42
187 2 0.01
188 1 0.00
189 201 0.55
190 3 0.01
ACGTcount: A:0.31, C:0.26, G:0.20, T:0.23
Consensus pattern (188 bp):
AATTTACTCAGCTGCTGCTTACGGCGGAGCCACCGCTTATGAAGGCTGTCAACTTGTCACAATGG
CGGCGAATATTGATAATCAAAACAACATTCCAAATTCCTCAACTGCTTCGAACATCAACACCACC
GCTCTTGAAGGAGGTGAAACCGTCACGACGGCGGAGAATGAGGATTATAAAACATACT
Found at i:2696 original size:96 final size:96
Alignment explanation
Indices: 2213--2701 Score: 334
Period size: 96 Copynumber: 5.2 Consensus size: 96
2203 CCATCAAGTT
* *
2213 GTCACAATGGCGGCGAATATTGATAATCAAAACAACATTCCAAATTCCTCAATTGCTTCGAACAT
1 GTCACAACGGCGGCGAATATTGATAATCAAAACAACATTCCAAATTCCTCAACTGCTTCGAACAT
* * *
2278 CAACGCCGCCGCTCTTGAAGGAGGTGAAACC
66 CAAAGCCACCGCTCTTGAAGGAGCTGAAACC
* * * * * * * * **
2309 GTCACGACGGTGGAGAATGA-GGAT--T-ATAACATAC--T--AATTTACTCAGCTGC-TCTTTA
1 GTCACAACGGCGGCGAAT-ATTGATAATCAAAACA-ACATTCCAAATTCCTCAACTGCTTC-GAA
** ** * *
2365 CGGCGGAGCCACCGCT-TATGAA-G-GCTGCCAACTT
63 CATCAAAGCCACCGCTCT-TGAAGGAGCTG-AAAC-C
*
2399 GTCACAATGGCGGCGAATATTGATAATCAAAACAACATTCCAAATTCCTCAACTGCTTCGAACAT
1 GTCACAACGGCGGCGAATATTGATAATCAAAACAACATTCCAAATTCCTCAACTGCTTCGAACAT
*
2464 CAACA-CCACCGCTCTTGAAGGAGGTGAAACC
66 CAA-AGCCACCGCTCTTGAAGGAGCTGAAACC
** * * * * * * * * ** *
2495 GTCACAACGGC--CGAGA-A-TGAGGATTATAACAACATACTAATTTACTCAGCTGCTGCTTACG
1 GTCACAACGGCGGCGA-ATATTGATAATCAAAACAACATTCCAAATTCCTCAACTGCTTCGAACA
* ** * *
2556 GCGGAGCCACCGCT-TATGAA-G-GCTGTCAACTT
65 TCAAAGCCACCGCTCT-TGAAGGAGCTG-AAAC-C
*
2588 GTCACAATGGCGGCGAATATTGATAATCAAAACAACATTCCAAATTCCTCAACTGCTTCGAACAT
1 GTCACAACGGCGGCGAATATTGATAATCAAAACAACATTCCAAATTCCTCAACTGCTTCGAACAT
*
2653 CAAAGCCACCGCTCTTGAAGGAGATGAAACC
66 CAAAGCCACCGCTCTTGAAGGAGCTGAAACC
* *
2684 GTCACGACGGCGGAGAAT
1 GTCACAACGGCGGCGAAT
2702 GAGGATTATG
Statistics
Matches: 280, Mismatches: 82, Indels: 62
0.66 0.19 0.15
Matches are distributed among these distances:
88 3 0.01
89 8 0.03
90 43 0.15
91 3 0.01
92 10 0.04
93 64 0.23
94 9 0.03
95 5 0.02
96 115 0.41
97 14 0.05
98 6 0.02
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.22
Consensus pattern (96 bp):
GTCACAACGGCGGCGAATATTGATAATCAAAACAACATTCCAAATTCCTCAACTGCTTCGAACAT
CAAAGCCACCGCTCTTGAAGGAGCTGAAACC
Found at i:2899 original size:96 final size:96
Alignment explanation
Indices: 2788--3054 Score: 259
Period size: 96 Copynumber: 2.8 Consensus size: 96
2778 CGACAAAGAT
* ** * * *
2788 GAAAGATATTTATAATCAAAACAG-GATGCTAAGTTACTTAGCCACTGCGGACAGT-GGCGCCAC
1 GAAA-ATATTTATAATCAAAACAGCG-TGCTAAATTACACAGCCACTCCGAACA-TCGACGCCAC
*
2851 CGCTTATGAAGGTGGTCAATTCTTCACGCAGGAG
63 AGCTTATGAAGGTGGTCAATTCTTCACGCAGGAG
* * ***
2885 GAAAATATTTATAATCAAAACAGCGTTCTAAATTCCACAGTTGCTCCGAACATCGACGCCACAGC
1 GAAAATATTTATAATCAAAACAGCGTGCTAAATTACACAGCCACTCCGAACATCGACGCCACAGC
* *
2950 TTTTGAAGGTGGTCAATTCTTCACGCAGGCG
66 TTATGAAGGTGGTCAATTCTTCACGCAGGAG
* * * * * *** * * *
2981 GAAAATTTTTATAATCAAAACAGCTTTCTAAGTTCCACAGTTGCTCTGAACATCGATGCCACCGC
1 GAAAATATTTATAATCAAAACAGCGTGCTAAATTACACAGCCACTCCGAACATCGACGCCACAGC
*
3046 TTTTGAAGG
66 TTATGAAGG
3055 AGGTGAAACC
Statistics
Matches: 148, Mismatches: 20, Indels: 5
0.86 0.12 0.03
Matches are distributed among these distances:
95 1 0.01
96 142 0.96
97 5 0.03
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (96 bp):
GAAAATATTTATAATCAAAACAGCGTGCTAAATTACACAGCCACTCCGAACATCGACGCCACAGC
TTATGAAGGTGGTCAATTCTTCACGCAGGAG
Found at i:3078 original size:96 final size:96
Alignment explanation
Indices: 2845--3078 Score: 272
Period size: 96 Copynumber: 2.4 Consensus size: 96
2835 CGGACAGTGG
* * * ** * * *
2845 CGCCACCGCTTATGAAGGTGGTCAATTCTTCACGCAGGAGGAAAATATTTATAATCAAAACAGCG
1 CGCCACAGCTTTTGAAGGAGGTCAAACCGTCACACAGGCGGAAAATATTTATAATCAAAACAGCG
2910 TTCTAAATTCCACAGTTGCTCCGAACATCGA
66 TTCTAAATTCCACAGTTGCTCCGAACATCGA
* ** * * * *
2941 CGCCACAGCTTTTGAAGGTGGTCAATTCTTCACGCAGGCGGAAAATTTTTATAATCAAAACAGCT
1 CGCCACAGCTTTTGAAGGAGGTCAAACCGTCACACAGGCGGAAAATATTTATAATCAAAACAGCG
* *
3006 TTCTAAGTTCCACAGTTGCTCTGAACATCGA
66 TTCTAAATTCCACAGTTGCTCCGAACATCGA
* * *
3037 TGCCACCGCTTTTGAAGGAGGTGAAACCGTCACAACA-GCGGA
1 CGCCACAGCTTTTGAAGGAGGTCAAACCGTCAC-ACAGGCGGA
3079 GAATGCCGAT
Statistics
Matches: 122, Mismatches: 15, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
96 120 0.98
97 2 0.02
ACGTcount: A:0.30, C:0.24, G:0.21, T:0.25
Consensus pattern (96 bp):
CGCCACAGCTTTTGAAGGAGGTCAAACCGTCACACAGGCGGAAAATATTTATAATCAAAACAGCG
TTCTAAATTCCACAGTTGCTCCGAACATCGA
Found at i:3414 original size:83 final size:83
Alignment explanation
Indices: 3275--3440 Score: 316
Period size: 83 Copynumber: 2.0 Consensus size: 83
3265 TATTTGGGAG
3275 GTTGATCTCTATGGAACAGATCCTGCCAAGCTCACTGGTAACCTAACTAAACCTTAATCATTCCT
1 GTTGATCTCTATGGAACAGATCCTGCCAAGCTCACTGGTAACCTAACTAAACCTTAATCATTCCT
3340 ATTATATTC-TTATTAGTT
66 ATTATATTCGTT-TTAGTT
3358 GTTGATCTCTATGGAACAGATCCTGCCAAGCTCACTGGTAACCTAACTAAACCTTAATCATTCCT
1 GTTGATCTCTATGGAACAGATCCTGCCAAGCTCACTGGTAACCTAACTAAACCTTAATCATTCCT
3423 ATTATATTCGTTTTAGTT
66 ATTATATTCGTTTTAGTT
3441 TTTTTTAGGT
Statistics
Matches: 82, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
83 80 0.98
84 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.13, T:0.36
Consensus pattern (83 bp):
GTTGATCTCTATGGAACAGATCCTGCCAAGCTCACTGGTAACCTAACTAAACCTTAATCATTCCT
ATTATATTCGTTTTAGTT
Found at i:17723 original size:30 final size:30
Alignment explanation
Indices: 17687--17756 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 30
17677 TTTACATATA
* * * *
17687 TATATATATAGGTTAATCCTAGAGATTTCT
1 TATATATATAGGTTAACCCTAGACATTGCC
* * *
17717 TATATATACATGTTTACCCTAGACATTGCC
1 TATATATATAGGTTAACCCTAGACATTGCC
17747 TATATATATA
1 TATATATATA
17757 AATATCTTCA
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.34, C:0.14, G:0.10, T:0.41
Consensus pattern (30 bp):
TATATATATAGGTTAACCCTAGACATTGCC
Found at i:33675 original size:138 final size:138
Alignment explanation
Indices: 33427--33703 Score: 500
Period size: 138 Copynumber: 2.0 Consensus size: 138
33417 TCTCGAGCTC
*
33427 AAACTCGAGTTTGAGTTCGAGTTGAAGATTTTCAATATTGTTAATTGAAACGAAGAAAATATAGA
1 AAACTCGAGTTTGAGTTCGACTTGAAGATTTTCAATATTGTTAATTGAAACGAAGAAAATATAGA
* * *
33492 ATAGCTTGATAGGTAAACTTTAGCTGCTTAAACCTGATTCCACAATGATTAAGTTAATTTCTAGT
66 ATAGCTTGATAGGTAAACTTCAACCGCTTAAACCTGATTCCACAATGATTAAGTTAATTTCTAGT
33557 AGGTAAAT
131 AGGTAAAT
33565 AAACTCGAGTTTGAGTTCGACTTGAAGATTTTCAATATTGTTAATTGAAACGAAGAAAATATAGA
1 AAACTCGAGTTTGAGTTCGACTTGAAGATTTTCAATATTGTTAATTGAAACGAAGAAAATATAGA
*
33630 ATAGCTTGATAGGTAAACTTCAACCGCTTAAACCTGATTCCACAATGATTAAGTTAATTTTTAGT
66 ATAGCTTGATAGGTAAACTTCAACCGCTTAAACCTGATTCCACAATGATTAAGTTAATTTCTAGT
*
33695 GGGTAAAT
131 AGGTAAAT
33703 A
1 A
33704 TACATTTTGG
Statistics
Matches: 133, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
138 133 1.00
ACGTcount: A:0.37, C:0.12, G:0.18, T:0.34
Consensus pattern (138 bp):
AAACTCGAGTTTGAGTTCGACTTGAAGATTTTCAATATTGTTAATTGAAACGAAGAAAATATAGA
ATAGCTTGATAGGTAAACTTCAACCGCTTAAACCTGATTCCACAATGATTAAGTTAATTTCTAGT
AGGTAAAT
Found at i:50555 original size:18 final size:17
Alignment explanation
Indices: 50513--50555 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
50503 GTTTTAAGTT
*
50513 TATAATATTTTATATTA
1 TATAATTTTTTATATTA
* *
50530 TGTTATTTTTATATATTA
1 TATAATTTTT-TATATTA
50548 TATAATTT
1 TATAATTT
50556 AGAATACATT
Statistics
Matches: 20, Mismatches: 5, Indels: 1
0.77 0.19 0.04
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (17 bp):
TATAATTTTTTATATTA
Found at i:52299 original size:1 final size:1
Alignment explanation
Indices: 52255--52279 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
52245 TAAATACATT
52255 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
52280 NNNNNNNNNN
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:62695 original size:31 final size:33
Alignment explanation
Indices: 62645--62707 Score: 94
Period size: 31 Copynumber: 2.0 Consensus size: 33
62635 TTTCGGATGC
62645 ATACCTGTATCCGAAATTTACACACGAGCTCGG
1 ATACCTGTATCCGAAATTTACACACGAGCTCGG
* *
62678 ATACCT-T-TCCGATATTTACACCCGAGCTCG
1 ATACCTGTATCCGAAATTTACACACGAGCTCG
62708 AGTACCCTCC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 21 0.75
32 1 0.04
33 6 0.21
ACGTcount: A:0.27, C:0.30, G:0.16, T:0.27
Consensus pattern (33 bp):
ATACCTGTATCCGAAATTTACACACGAGCTCGG
Found at i:70094 original size:145 final size:144
Alignment explanation
Indices: 69454--70599 Score: 1224
Period size: 145 Copynumber: 8.1 Consensus size: 144
69444 AGAACCACCC
* *
69454 AAAAAA-ACAAAAGAACACTAAAATTTTTCACCTAAATGACGAAATTTGGACAATTAAAGTAGCT
1 AAAAAATACAAAAGAACACTAAAGTTTTTCACCTAAATGACGAAATTTAGACAATTAAAGTAGCT
* * * * * *
69518 AAATTTAAGCTTATTCCACCATATTTTACTTTCTAAGCAACCAAAAAACAATATATATACATATA
66 AAA-TTAAGCTTATCCCACTATAATTTACTTTCTAAGTAACCAAACAACAAAATATATACATATA
* * *
69583 TTTATGAAGAAAC-T
130 TTCATAAAGAACCAT
* ** * *
69597 TACTAATAACAAAAGAACAC--AAGTTTTTCACCTAAATGGCAAAATTTAGACAATTAAAGTAGC
1 AAAAAAT-ACAAAAGAACACTAAAGTTTTTCACCTAAATGACGAAATTTAGACAATTAAAGTAGC
* * * *
69660 TAAATTAAGCTTACCCCACTACAATTTACTTTCTAAGAAACCAAACAACAAAATATATACAAATA
65 TAAATTAAGCTTATCCCACTATAATTTACTTTCTAAGTAACCAAACAACAAAATATATACATATA
69725 TTCATAAAGGAA-C-T
130 TTCATAAA-GAACCAT
**** * *
69739 TGCTAATAACAAAAGAACAC-AAAATATTTTCACCTAAATGACGAAATTTAGACAATGAAAGTAG
1 AAAAAAT-ACAAAAGAACACTAAAGT-TTTTCACCTAAATGACGAAATTTAGACAATTAAAGTAG
* * * *
69803 CTAAATTAAGCTCAAT-CCACTATAATTTACTTTCT-AGTAACCAAACAACATAATATATAAAGA
64 CTAAATTAAGCT-TATCCCACTATAATTTACTTTCTAAGTAACCAAACAACAAAATATATACATA
69866 TATTCATAAAGAACCAT
128 TATTCATAAAGAACCAT
* *
69883 CAAAAAAATAGCAATAGAACACTAAAGTTTTTCACCTAAATGAAGAAATTTAGACAATTAAAGTA
1 --AAAAAATA-CAAAAGAACACTAAAGTTTTTCACCTAAATGACGAAATTTAGACAATTAAAGTA
* * * *
69948 GCTAAATTAAGGTTATCCCACTGTAATTTACTTTCTAAGTAACCAAACAATAAATTATATACATA
63 GCTAAATTAAGCTTATCCCACTATAATTTACTTTCTAAGTAACCAAACAACAAAATATATACATA
*
70013 TATTCATAATGAACCAT
128 TATTCATAAAGAACCAT
* * * *
70030 AAAAAATAGCAAAAGAACACTAAAGGTTTTCACC-AAAGTGACGAAATTGAGAAAACTAAAGTAG
1 AAAAAATA-CAAAAGAACACTAAAGTTTTTCACCTAAA-TGACGAAATTTAGACAATTAAAGTAG
** ** *
70094 C-ATTCTTAAGCTTATCCCACTACCATTTACTTTCTAAGTAACCAAACAACAAAACATATACATA
64 CTA-AATTAAGCTTATCCCACTATAATTTACTTTCTAAGTAACCAAACAACAAAATATATACATA
70158 TATTCATAAAGTAA-C-T
128 TATTCATAAAG-AACCAT
* * * *
70174 ------TAC-TAA-TA-AC--AATTTTTTTACCTAAATGAC-AGAATTTAGACAATTAAAGTAGC
1 AAAAAATACAAAAGAACACTAAAGTTTTTCACCTAAATGACGA-AATTTAGACAATTAAAGTAGC
* ** *
70227 TAAATTATGCTTATCCCACTATAATTTACTTTCTAAGTAAAAAAAACAACAAATTATATACATAT
65 TAAATTAAGCTTATCCCACTATAATTTACTTTCTAAGT-AACCAAACAACAAAATATATACATAT
*
70292 ATTCATAAAGAACGAT
129 ATTCATAAAGAACCAT
* * * * *
70308 CAAAAAAATAGCAAAAGAACACTAATGTTTTTCGCCTAAATGACCATATTTAGACAATAAAAGTA
1 --AAAAAATA-CAAAAGAACACTAAAGTTTTTCACCTAAATGACGAAATTTAGACAATTAAAGTA
* * * * * *
70373 GCTAACTCAAGCTTATTCCACTATAATTTACTTTCTCAGTAACCCAACAACAAAATATATACTTA
63 GCTAAATTAAGCTTATCCCACTATAATTTACTTTCTAAGTAACCAAACAACAAAATATATACATA
70438 TATTCATAAAGAACCA-
128 TATTCATAAAGAACCAT
** * *
70454 CCAAAAT------GAACACTAAAATTTTTCACCTAAATGACGAAATTGAGACAATTAAAGTAGCT
1 AAAAAATACAAAAGAACACTAAAGTTTTTCACCTAAATGACGAAATTTAGACAATTAAAGTAGCT
* *
70513 AAATTAAGCTTAAT-CCACTAAAATTTACTTTCTAAGTAACCAAACAACAAAATATATACTTATA
66 AAATTAAGCTT-ATCCCACTATAATTTACTTTCTAAGTAACCAAACAACAAAATATATACATATA
*
70577 TTCATAAAGAACCAC
130 TTCATAAAGAACCAT
*
70592 CAAAAATA
1 AAAAAATA
70600 ACACTAAAAT
Statistics
Matches: 847, Mismatches: 115, Indels: 86
0.81 0.11 0.08
Matches are distributed among these distances:
131 1 0.00
132 64 0.08
133 36 0.04
134 3 0.00
135 1 0.00
136 2 0.00
137 116 0.14
138 10 0.01
142 84 0.10
143 88 0.10
144 78 0.09
145 135 0.16
146 82 0.10
147 78 0.09
148 68 0.08
149 1 0.00
ACGTcount: A:0.47, C:0.17, G:0.08, T:0.28
Consensus pattern (144 bp):
AAAAAATACAAAAGAACACTAAAGTTTTTCACCTAAATGACGAAATTTAGACAATTAAAGTAGCT
AAATTAAGCTTATCCCACTATAATTTACTTTCTAAGTAACCAAACAACAAAATATATACATATAT
TCATAAAGAACCAT
Found at i:70402 original size:425 final size:418
Alignment explanation
Indices: 69454--70961 Score: 1603
Period size: 425 Copynumber: 3.6 Consensus size: 418
69444 AGAACCACCC
* * *
69454 AAAAAA-ACAAAAGAACACTAAAATTTTTCACCTAAATGACGAAATTTGGACAATTAAAGTAGCT
1 AAAAAATACAAAAGAACACTAAAGTTTTTCACCTAAATGACGAAATTTAGACAATAAAAGTAGCT
* * * * *
69518 AAATTTAAGCTTATTCCACCATATTTTACTTTCTAAGCAACCAAAAAACAATATATATACATATA
66 AAA-TTAAGCTTATTCCACTATAATTTACTTTCTAAGTAACCAAACAACAAAATATATACATATA
* * ** * * *
69583 TTTATGAAGAAACTTACTAATAACAAAAGAACAC--AAGTTTTTCACCTAAATGGCAAAATTTAG
130 TTCATAAAGAAACTTAAAAATAACAAAAGAACACTAAAGTTTTTCACCTAAATGACGAAATTGAG
** *
69646 ACAATTAAAGTAGCTAAATTAAGCTTACCCCACTACAATTTACTTTCTAAGAAACCAAACAACAA
195 ACAATTAAAGTAGCTAAATTAAGCTTAATCCACTACAATTTACTTTCTAAGTAACCAAACAACAA
* * *
69711 AATATATACAAATATTCATAAAGGAACTTGCTAATAACAAAAGAACACAAAATATTTTCACCTAA
260 AATATATACATATATTCATAAA-GAACTTACTAAT---------A-AC--AAT-TTTTAACCTAA
* *
69776 ATGAC-GAAATTTAGACAATGAAAGTAGCTAAATTAAGCTCAATCCACTATAATTTACTTTCT-A
311 ATGACAG-AATTTAGACAATTAAAGTAGCTAAATTAAGCT-TATCCACTATAATTTACTTTCTAA
* *
69839 GTAACCAAACAACATAA-TATATAAAGATATTCATAAAGAACCATCA
374 GTAACCAAACAACA-AATTATATACATATATTCATAAAGAA-CATCA
* * *
69885 AAAAAATAGCAATAGAACACTAAAGTTTTTCACCTAAATGAAGAAATTTAGACAATTAAAGTAGC
1 AAAAAATA-CAAAAGAACACTAAAGTTTTTCACCTAAATGACGAAATTTAGACAATAAAAGTAGC
* * * * *
69950 TAAATTAAGGTTATCCCACTGTAATTTACTTTCTAAGTAACCAAACAATAAATTATATACATATA
65 TAAATTAAGCTTATTCCACTATAATTTACTTTCTAAGTAACCAAACAACAAAATATATACATATA
* * * * *
70015 TTCATAATGAACCATAAAAAATAGCAAAAGAACACTAAAGGTTTTCACC-AAAGTGACGAAATTG
130 TTCATAAAGAAAC-TTAAAAATAACAAAAGAACACTAAAGTTTTTCACCTAAA-TGACGAAATTG
* * ** *
70079 AGAAAACTAAAGTAGC-ATTCTTAAGCTT-ATCCCACTACCATTTACTTTCTAAGTAACCAAACA
193 AGACAATTAAAGTAGCTA-AATTAAGCTTAAT-CCACTACAATTTACTTTCTAAGTAACCAAACA
* *
70142 ACAAAACATATACATATATTCATAAAGTAACTTACTAATAACAATTTTTTTACCTAAATGACAGA
256 ACAAAATATATACATATATTCATAAAG-AACTTACTAATAACAA-TTTTTAACCTAAATGACAGA
* **
70207 ATTTAGACAATTAAAGTAGCTAAATTATGCTTATCCCACTATAATTTACTTTCTAAGTAAAAAAA
319 ATTTAGACAATTAAAGTAGCTAAATTAAGCTTAT-CCACTATAATTTACTTTCTAAGT-AACCAA
70272 ACAACAAATTATATACATATATTCATAAAGAACGATCA
382 ACAACAAATTATATACATATATTCATAAAGAAC-ATCA
* * * *
70310 AAAAAATAGCAAAAGAACACTAATGTTTTTCGCCTAAATGACCATATTTAGACAATAAAAGTAGC
1 AAAAAATA-CAAAAGAACACTAAAGTTTTTCACCTAAATGACGAAATTTAGACAATAAAAGTAGC
* * * * *
70375 TAACTCAAGCTTATTCCACTATAATTTACTTTCTCAGTAACCCAACAACAAAATATATACTTATA
65 TAAATTAAGCTTATTCCACTATAATTTACTTTCTAAGTAACCAAACAACAAAATATATACATATA
* * *
70440 TTCATAAAG-AAC-------CACCAAAATGAACACTAAAATTTTTCACCTAAATGACGAAATTGA
130 TTCATAAAGAAACTTAAAAATAACAAAA-GAACACTAAAGTTTTTCACCTAAATGACGAAATTGA
*
70497 GACAATTAAAGTAGCTAAATTAAGCTTAATCCACTAAAATTTACTTTCTAAGTAACCAAACAACA
194 GACAATTAAAGTAGCTAAATTAAGCTTAATCCACTACAATTTACTTTCTAAGTAACCAAACAACA
* * * *
70562 AAATATATACTTATATTCATAAAGAAC-CAC-CA-AA-AA----TAACACT--A--A-A-ATTTT
259 AAATATATACATATATTCATAAAGAACTTACTAATAACAATTTTTAAC-CTAAATGACAGAATTT
* * *
70613 CACGACGACTAAAGTAGCTAAATTAAGCTTAATCCACTATAATTTACTTTCTAAGTAACCAAAGA
323 -A-GACAATTAAAGTAGCTAAATTAAGCTT-ATCCACTATAATTTACTTTCTAAGTAACCAAACA
* *
70678 ACAAATTATATACTTGTATTCATAAAGAA-A-C-
385 ACAAATTATATACATATATTCATAAAGAACATCA
** * * *
70709 ----ACCA-AAAAGAACACTAAATTTTTTCACCTAAAT-TCGAAATTGAGACAATTAAAA-TAGC
1 AAAAAATACAAAAGAACACTAAAGTTTTTCACCTAAATGACGAAATTTAGACAA-TAAAAGTAGC
* * *
70767 TAAATTAAACTTAATCCACT-TCAATTTACTTTCTACGTAACCAAACAACAAAATATATACATAT
65 TAAATTAAGCTTATTCCACTAT-AATTTACTTTCTAAGTAACCAAACAACAAAATATATACATAT
* ** * *
70831 ATTCGTAAAGAAACTTATTAATAACAAAAGAACACTAAA-TTTTTCACCTAAATGACCAAATTTA
129 ATTCATAAAGAAACTTAAAAATAACAAAAGAACACTAAAGTTTTTCACCTAAATGACGAAATTGA
* *
70895 GACAATTAAAGTAGCTAAATTAAGCTTGATCCACTTCAATTTACTTTCTAA--AACCAAACAACA
194 GACAATTAAAGTAGCTAAATTAAGCTTAATCCACTACAATTTACTTTCTAAGTAACCAAACAACA
70958 AAAT
259 AAAT
70962 TTTTTTTTTC
Statistics
Matches: 930, Mismatches: 113, Indels: 103
0.81 0.10 0.09
Matches are distributed among these distances:
391 1 0.00
392 78 0.08
393 34 0.04
395 2 0.00
396 16 0.02
398 71 0.08
399 10 0.01
400 7 0.01
401 1 0.00
402 4 0.00
403 35 0.04
404 48 0.05
405 2 0.00
406 1 0.00
407 3 0.00
408 2 0.00
412 2 0.00
413 2 0.00
414 1 0.00
415 2 0.00
416 9 0.01
417 106 0.11
418 6 0.01
422 2 0.00
423 66 0.07
424 10 0.01
425 158 0.17
426 1 0.00
431 6 0.01
432 61 0.07
433 73 0.08
434 5 0.01
435 105 0.11
ACGTcount: A:0.47, C:0.17, G:0.08, T:0.29
Consensus pattern (418 bp):
AAAAAATACAAAAGAACACTAAAGTTTTTCACCTAAATGACGAAATTTAGACAATAAAAGTAGCT
AAATTAAGCTTATTCCACTATAATTTACTTTCTAAGTAACCAAACAACAAAATATATACATATAT
TCATAAAGAAACTTAAAAATAACAAAAGAACACTAAAGTTTTTCACCTAAATGACGAAATTGAGA
CAATTAAAGTAGCTAAATTAAGCTTAATCCACTACAATTTACTTTCTAAGTAACCAAACAACAAA
ATATATACATATATTCATAAAGAACTTACTAATAACAATTTTTAACCTAAATGACAGAATTTAGA
CAATTAAAGTAGCTAAATTAAGCTTATCCACTATAATTTACTTTCTAAGTAACCAAACAACAAAT
TATATACATATATTCATAAAGAACATCA
Found at i:70552 original size:562 final size:563
Alignment explanation
Indices: 69442--70961 Score: 1514
Period size: 562 Copynumber: 2.7 Consensus size: 563
69432 TCTATAATAA
* *
69442 AAAGAACCACCCAAAAAA-ACAAAAGAACACTAAAATTTTTCACCTAAATGACGAAATTTGGACA
1 AAAGAACCA--CAAAAAATACAAAAGAACACTAAAAGTTTTCACCTAAATGACGAAATTTGGAAA
* * * *
69506 ATTAAAGTAGCTAAATTTAAGCTTATTCCACCATATTTTACTTTCTAAGCAACCAAAAAACAATA
64 ACTAAAGTAGC-AAATTTAAGCTTATCCCACCACATTTTACTTTCTAAGCAACCAAAAAACAAAA
* * * *
69571 TATATACATATATTTATGAAGAAACTTACTAATAACAAAAGAACACAAGTTTTTCACCTAAATGG
128 CATATACATATATTCATAAAGAAACTTACTAAT--------AACACAAGTTTTTCACCTAAATGA
*
69636 CAAAATTTAGACAATTAAAGTAGCTAAATTAAGCTTACCCCACTACAATTTACTTTCTAAGAAAC
185 CAAAATTTAGACAATTAAAGTAGCTAAATTAAGCTTACCCCACTACAATTTACTTTCTAAGAAAA
* * *
69701 CAAACAACAAAATATATACAAATATTCATAAAGGAACTTGCTAATAACAAAAGAACACAAAATAT
250 AAAACAACAAAATATATACAAATATTCATAAAGGAACATGCAAATAACAAAAGAACACAAAATAT
* * *
69766 TTTCACCTAAATGACGAAATTTAGACAATGAAAGTAGCTAAATTAAGCTCAATCCACTATAATTT
315 TTTCACCTAAATGACCAAATTTAGACAATAAAAGTAGCTAAATCAAGCTCAATCCACTATAATTT
*
69831 ACTTTCTAGTAACCAAACAACATAATATATAAAGATATTCATAAAGAACCATCAAAAAAATAGCA
380 ACTTTCTAGTAACCAAACAACAAAATATATAAAGATATTCATAAAGAACCATC----AAATA-CA
* * *
69896 ATAGAACACTAAAGTTTTTCACCTAAATGAAGAAATTTAGACAATTAAAGTAGCTAAATTAAGGT
440 ATAGAACACTAAAATTTTTCACCTAAATGAAGAAATTGAGACAATTAAAGTAGCTAAATTAAGCT
** * *
69961 TATCCCACTGTAATTTACTTTCTAAGTAACCAAACAATAAATTATATACATATATTCAT
505 TATCCCACTAAAATTTACTTTCTAAGTAACCAAACAACAAAATATATACATATATTCAT
* * *
70020 AATGAACCATAAAAAATAGCAAAAGAACACTAAAGGTTTTCACC-AAAGTGACGAAA-TTGAGAA
1 AAAGAACCACAAAAAATA-CAAAAGAACACTAAAAGTTTTCACCTAAA-TGACGAAATTTG-GAA
* * * *
70083 AACTAAAGTAGC-ATTCTTAAGCTTATCCCACTACCA-TTTACTTTCTAAGTAACCAAACAACAA
63 AACTAAAGTAGCAAAT-TTAAGCTTATCCCACCA-CATTTTACTTTCTAAGCAACCAAAAAACAA
* * * *
70146 AACATATACATATATTCATAAAGTAACTTACTAAT-A-ACAATTTTTTTACCTAAATGACAGAAT
126 AACATATACATATATTCATAAAGAAACTTACTAATAACACAAGTTTTTCACCTAAATGACAAAAT
* * *
70209 TTAGACAATTAAAGTAGCTAAATTATGCTTATCCCACTATAATTTACTTTCTAAGTAAAAAAAAC
191 TTAGACAATTAAAGTAGCTAAATTAAGCTTACCCCACTACAATTTACTTTCTAAG-AAAAAAAAC
* * * * *
70274 AACAAATTATATACATATATTCATAAA-GAACGAT-CAAAAAAATAGCAAAAGAACAC-TAATGT
255 AACAAAATATATACAAATATTCATAAAGGAAC-ATGC----AAATAACAAAAGAACACAAAAT-A
* * * * *
70336 TTTTCGCCTAAATGACCATATTTAGACAATAAAAGTAGCTAACTCAAGCTTATTCCACTATAATT
314 TTTTCACCTAAATGACCAAATTTAGACAATAAAAGTAGCTAAATCAAGCTCAATCCACTATAATT
* *** *
70401 TACTTTCTCAGTAACCCAACAACAAAATATATACTTATATTCATAAAGAACCA-C-CA-A-AAT-
379 TACTTTCT-AGTAACCAAACAACAAAATATATAAAGATATTCATAAAGAACCATCAAATACAATA
*
70461 GAACACTAAAATTTTTCACCTAAATGACGAAATTGAGACAATTAAAGTAGCTAAATTAAGCTTAA
443 GAACACTAAAATTTTTCACCTAAATGAAGAAATTGAGACAATTAAAGTAGCTAAATTAAGCTT-A
*
70526 T-CCACTAAAATTTACTTTCTAAGTAACCAAACAACAAAATATATACTTATATTCAT
507 TCCCACTAAAATTTACTTTCTAAGTAACCAAACAACAAAATATATACATATATTCAT
*
70582 AAAGAACCACCAAAAAT-------AACACTAAAA-TTTTCA-C-----GAC--------G---AC
1 AAAGAACCACAAAAAATACAAAAGAACACTAAAAGTTTTCACCTAAATGACGAAATTTGGAAAAC
* * * * * **
70622 TAAAGTAGCTAAA-TTAAGCTTAAT-CCACTATAATTTACTTTCTAAGTAACCAAAGAACAAATT
66 TAAAGTAGC-AAATTTAAGCTT-ATCCCACCACATTTTACTTTCTAAGCAACCAAAAAACAAAAC
* * ** ** * * * *
70685 ATATACTTGTATTCATAAAGAAACACCAAAAAGAACACTAAATTTTTTCACCTAAAT-TCGAAAT
129 ATATACATATATTCATAAAGAAAC-TTACTAATAACAC--AAGTTTTTCACCTAAATGACAAAAT
* * * ** * * * **
70749 TGAGACAATTAAAATAGCTAAATTAAACTTAATCCACTTCAATTTACTTTCTACGTAACCAAACA
191 TTAGACAATTAAAGTAGCTAAATTAAGCTTACCCCACTACAATTTACTTTCTAAGAAAAAAAACA
* * * * *** *
70814 ACAAAATATATACATATATTCGTAAAGAAACTTATTAATAACAAAAGAACACTAAAT-TTTTCAC
256 ACAAAATATATACAAATATTCATAAAGGAACATGCAAATAACAAAAGAACACAAAATATTTTCAC
* * **
70878 CTAAATGACCAAATTTAGACAATTAAAGTAGCTAAATTAAGCTTGATCCACT-TCAATTTACTTT
321 CTAAATGACCAAATTTAGACAATAAAAGTAGCTAAATCAAGCTCAATCCACTAT-AATTTACTTT
*
70942 CTA-AAACCAAACAACAAAAT
385 CTAGTAACCAAACAACAAAAT
70962 TTTTTTTTTC
Statistics
Matches: 808, Mismatches: 106, Indels: 101
0.80 0.10 0.10
Matches are distributed among these distances:
533 15 0.02
534 2 0.00
535 65 0.08
536 88 0.11
537 8 0.01
538 2 0.00
539 35 0.04
540 53 0.07
541 16 0.02
547 3 0.00
552 1 0.00
553 6 0.01
554 9 0.01
562 123 0.15
563 5 0.01
565 1 0.00
566 1 0.00
567 80 0.10
568 34 0.04
570 3 0.00
571 81 0.10
572 39 0.05
576 8 0.01
577 77 0.10
578 53 0.07
ACGTcount: A:0.47, C:0.17, G:0.08, T:0.28
Consensus pattern (563 bp):
AAAGAACCACAAAAAATACAAAAGAACACTAAAAGTTTTCACCTAAATGACGAAATTTGGAAAAC
TAAAGTAGCAAATTTAAGCTTATCCCACCACATTTTACTTTCTAAGCAACCAAAAAACAAAACAT
ATACATATATTCATAAAGAAACTTACTAATAACACAAGTTTTTCACCTAAATGACAAAATTTAGA
CAATTAAAGTAGCTAAATTAAGCTTACCCCACTACAATTTACTTTCTAAGAAAAAAAACAACAAA
ATATATACAAATATTCATAAAGGAACATGCAAATAACAAAAGAACACAAAATATTTTCACCTAAA
TGACCAAATTTAGACAATAAAAGTAGCTAAATCAAGCTCAATCCACTATAATTTACTTTCTAGTA
ACCAAACAACAAAATATATAAAGATATTCATAAAGAACCATCAAATACAATAGAACACTAAAATT
TTTCACCTAAATGAAGAAATTGAGACAATTAAAGTAGCTAAATTAAGCTTATCCCACTAAAATTT
ACTTTCTAAGTAACCAAACAACAAAATATATACATATATTCAT
Found at i:70570 original size:137 final size:137
Alignment explanation
Indices: 69459--70612 Score: 1086
Period size: 137 Copynumber: 8.2 Consensus size: 137
69449 CACCCAAAAA
* *
69459 AACAAAA-GAACACTAAAATTTTTCACCTAAATGACGAAATTTGGACAATTAAAGTAGCTAAATT
1 AACAAAATGAACACTAAAGTTTTTCACCTAAATGACGAAATTTAGACAATTAAAGTAGCTAAA-T
* * * * * * *
69523 TAAGCTTATTCCACCATATTTTACTTTCTAAGCAACCAAAAAACAATATATATACATATATTTAT
65 TAAGCTTATCCCACTATAATTTACTTTCTAAGTAACCAAACAACAAAATATATACATATATTCAT
*
69588 GAAGAAACTTAC
130 AAAG-AAC---C
* *
69600 TAATAACAAAA-GAACAC--AAGTTTTTCACCTAAATGGCAAAATTTAGACAATTAAAGTAGCTA
1 ----AACAAAATGAACACTAAAGTTTTTCACCTAAATGACGAAATTTAGACAATTAAAGTAGCTA
* * * *
69662 AATTAAGCTTACCCCACTACAATTTACTTTCTAAGAAACCAAACAACAAAATATATACAAATATT
62 AATTAAGCTTATCCCACTATAATTTACTTTCTAAGTAACCAAACAACAAAATATATACATATATT
69727 CATAAAGGAACTTGC
127 CATAAA-GAAC---C
* *
69742 TAATAACAAAA-GAACAC-AAAATATTTTCACCTAAATGACGAAATTTAGACAATGAAAGTAGCT
1 ----AACAAAATGAACACTAAAGT-TTTTCACCTAAATGACGAAATTTAGACAATTAAAGTAGCT
* * * *
69805 AAATTAAGCTCAAT-CCACTATAATTTACTTTCT-AGTAACCAAACAACATAATATATAAAGATA
61 AAATTAAGCT-TATCCCACTATAATTTACTTTCTAAGTAACCAAACAACAAAATATATACATATA
69868 TTCATAAAGAACCATC
125 TTCATAAAGAA-C--C
* *
69884 AAAAAAATAGCAATAGAACACTAAAGTTTTTCACCTAAATGAAGAAATTTAGACAATTAAAGTAG
1 ---AACA-A--AAT-GAACACTAAAGTTTTTCACCTAAATGACGAAATTTAGACAATTAAAGTAG
* * * *
69949 CTAAATTAAGGTTATCCCACTGTAATTTACTTTCTAAGTAACCAAACAATAAATTATATACATAT
59 CTAAATTAAGCTTATCCCACTATAATTTACTTTCTAAGTAACCAAACAACAAAATATATACATAT
*
70014 ATTCATAATGAACC
124 ATTCATAAAGAACC
* * * * *
70028 ATAAAAAATAGCAAAAGAACACTAAAGGTTTTCACC-AAAGTGACGAAATTGAGAAAACTAAAGT
1 A-ACAAAAT-------GAACACTAAAGTTTTTCACCTAAA-TGACGAAATTTAGACAATTAAAGT
** ** *
70092 AGC-ATTCTTAAGCTTATCCCACTACCATTTACTTTCTAAGTAACCAAACAACAAAACATATACA
57 AGCTA-AATTAAGCTTATCCCACTATAATTTACTTTCTAAGTAACCAAACAACAAAATATATACA
*
70156 TATATTCATAAAGTAACT
121 TATATTCATAAAG-AACC
* * * *
70174 TAC-TAAT--A-AC--AATTTTTTTACCTAAATGAC-AGAATTTAGACAATTAAAGTAGCTAAAT
1 AACAAAATGAACACTAAAGTTTTTCACCTAAATGACGA-AATTTAGACAATTAAAGTAGCTAAAT
* ** *
70232 TATGCTTATCCCACTATAATTTACTTTCTAAGTAAAAAAAACAACAAATTATATACATATATTCA
65 TAAGCTTATCCCACTATAATTTACTTTCTAAGT-AACCAAACAACAAAATATATACATATATTCA
70297 TAAAGAACGATC
129 TAAAGAAC---C
* * * * * *
70309 AAAAAAATAGCAAAAGAACACTAATGTTTTTCGCCTAAATGACCATATTTAGACAATAAAAGTAG
1 AACAAAAT-------GAACACTAAAGTTTTTCACCTAAATGACGAAATTTAGACAATTAAAGTAG
* * * * * *
70374 CTAACTCAAGCTTATTCCACTATAATTTACTTTCTCAGTAACCCAACAACAAAATATATACTTAT
59 CTAAATTAAGCTTATCCCACTATAATTTACTTTCTAAGTAACCAAACAACAAAATATATACATAT
70439 ATTCATAAAGAACC
124 ATTCATAAAGAACC
* * *
70453 ACCAAAATGAACACTAAAATTTTTCACCTAAATGACGAAATTGAGACAATTAAAGTAGCTAAATT
1 AACAAAATGAACACTAAAGTTTTTCACCTAAATGACGAAATTTAGACAATTAAAGTAGCTAAATT
* *
70518 AAGCTTAAT-CCACTAAAATTTACTTTCTAAGTAACCAAACAACAAAATATATACTTATATTCAT
66 AAGCTT-ATCCCACTATAATTTACTTTCTAAGTAACCAAACAACAAAATATATACATATATTCAT
70582 AAAGAACC
130 AAAGAACC
* *
70590 ACCAAAAAT-AACACTAAAATTTT
1 AAC-AAAATGAACACTAAAGTTTT
70613 CACGACGACT
Statistics
Matches: 852, Mismatches: 111, Indels: 100
0.80 0.10 0.09
Matches are distributed among these distances:
131 1 0.00
132 65 0.08
133 36 0.04
134 2 0.00
135 2 0.00
136 3 0.00
137 131 0.15
138 7 0.01
139 3 0.00
141 7 0.01
142 89 0.10
143 82 0.10
144 82 0.10
145 123 0.14
146 77 0.09
147 73 0.09
148 68 0.08
149 1 0.00
ACGTcount: A:0.47, C:0.17, G:0.08, T:0.28
Consensus pattern (137 bp):
AACAAAATGAACACTAAAGTTTTTCACCTAAATGACGAAATTTAGACAATTAAAGTAGCTAAATT
AAGCTTATCCCACTATAATTTACTTTCTAAGTAACCAAACAACAAAATATATACATATATTCATA
AAGAACC
Found at i:70714 original size:119 final size:119
Alignment explanation
Indices: 70503--70731 Score: 395
Period size: 119 Copynumber: 1.9 Consensus size: 119
70493 TTGAGACAAT
70503 TAAAGTAGCTAAATTAAGCTTAATCCACTAAAATTTACTTTCTAAGTAACCAAACAACAAAATAT
1 TAAAGTAGCTAAATTAAGCTTAATCCACTAAAATTTACTTTCTAAGTAACCAAACAACAAAATAT
* *
70568 ATACTTATATTCATAAAGAACCACCAAAAATAACACTAAAATTTTCACGACGAC
66 ATACTTATATTCATAAAGAAACACCAAAAAGAACACTAAAATTTTCACGACGAC
* * *
70622 TAAAGTAGCTAAATTAAGCTTAATCCACTATAATTTACTTTCTAAGTAACCAAAGAACAAATTAT
1 TAAAGTAGCTAAATTAAGCTTAATCCACTAAAATTTACTTTCTAAGTAACCAAACAACAAAATAT
* *
70687 ATACTTGTATTCATAAAGAAACACCAAAAAGAACACTAAATTTTT
66 ATACTTATATTCATAAAGAAACACCAAAAAGAACACTAAAATTTT
70732 TCACCTAAAT
Statistics
Matches: 103, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
119 103 1.00
ACGTcount: A:0.47, C:0.17, G:0.07, T:0.29
Consensus pattern (119 bp):
TAAAGTAGCTAAATTAAGCTTAATCCACTAAAATTTACTTTCTAAGTAACCAAACAACAAAATAT
ATACTTATATTCATAAAGAAACACCAAAAAGAACACTAAAATTTTCACGACGAC
Found at i:70927 original size:143 final size:135
Alignment explanation
Indices: 70622--70961 Score: 434
Period size: 136 Copynumber: 2.5 Consensus size: 135
70612 TCACGACGAC
* *
70622 TAAAGTAGCTAAATTAAGCTTAATCCACTAT-AATTTACTTTCTAAGTAACCAAAGAACAAATTA
1 TAAAGTAGCTAAATTAAGCTTAATCCACT-TCAATTTACTTTCT-AGTAACCAAACAACAAAATA
* * * * *
70686 TATACTTGTATTCATAAAGAAACACCAAAAAGAACACTAAATTTTTTCACCTAAATTCGAAATTG
64 TATACATATATTCATAAAGAAACACAAAAAAGAACACTAAATTTTTTCACCTAAATACCAAATTG
70751 AGACAAT
129 AGACAAT
* *
70758 TAAAATAGCTAAATTAAACTTAATCCACTTCAATTTACTTTCTACGTAACCAAACAACAAAATAT
1 TAAAGTAGCTAAATTAAGCTTAATCCACTTCAATTTACTTTCTA-GTAACCAAACAACAAAATAT
* *
70823 ATACATATATTCGTAAAGAAACTTATTAATAACAAAAGAACACTAAA-TTTTTCACCTAAATGAC
65 ATACATATATTCATAAAGAAAC------ACAA-AAAAGAACACTAAATTTTTTCACCTAAAT-AC
*
70887 CAAATTTAGACAAT
122 CAAATTGAGACAAT
* *
70901 TAAAGTAGCTAAATTAAGCTTGATCCACTTCAATTTACTTTCTA-AAACCAAACAACAAAAT
1 TAAAGTAGCTAAATTAAGCTTAATCCACTTCAATTTACTTTCTAGTAACCAAACAACAAAAT
70962 TTTTTTTTTC
Statistics
Matches: 178, Mismatches: 16, Indels: 15
0.85 0.08 0.07
Matches are distributed among these distances:
135 2 0.01
136 76 0.43
141 16 0.09
142 16 0.09
143 68 0.38
ACGTcount: A:0.46, C:0.17, G:0.06, T:0.30
Consensus pattern (135 bp):
TAAAGTAGCTAAATTAAGCTTAATCCACTTCAATTTACTTTCTAGTAACCAAACAACAAAATATA
TACATATATTCATAAAGAAACACAAAAAAGAACACTAAATTTTTTCACCTAAATACCAAATTGAG
ACAAT
Found at i:71694 original size:37 final size:37
Alignment explanation
Indices: 71644--71724 Score: 137
Period size: 37 Copynumber: 2.2 Consensus size: 37
71634 AAATTAAAAT
*
71644 TTTATTATTTTTAAGATG-TCAAAATATAATTTTACTA
1 TTTACTATTTTTAAGA-GATCAAAATATAATTTTACTA
71681 TTTACTATTTTTAAGAGATCAAAATATAATTTTACTA
1 TTTACTATTTTTAAGAGATCAAAATATAATTTTACTA
71718 TTTACTA
1 TTTACTA
71725 ACATCTAATT
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
36 1 0.02
37 41 0.98
ACGTcount: A:0.38, C:0.07, G:0.05, T:0.49
Consensus pattern (37 bp):
TTTACTATTTTTAAGAGATCAAAATATAATTTTACTA
Found at i:74051 original size:30 final size:30
Alignment explanation
Indices: 74015--74077 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
74005 AAGCATATAT
74015 TTAAAAATATATTATATATCTTTCC-ATTTA
1 TTAAAAATATATTATATATCTTTCCTA-TTA
*
74045 TTAAAAATATATTATATATTTTTCCTATTA
1 TTAAAAATATATTATATATCTTTCCTATTA
74075 TTA
1 TTA
74078 CGTGATTACG
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 30 0.97
31 1 0.03
ACGTcount: A:0.40, C:0.08, G:0.00, T:0.52
Consensus pattern (30 bp):
TTAAAAATATATTATATATCTTTCCTATTA
Found at i:75194 original size:21 final size:22
Alignment explanation
Indices: 75162--75202 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
75152 ATATAAAAAA
*
75162 AACTTAAATATAAACGAATTCC
1 AACTTAAATATAAACAAATTCC
75184 AACTT-AATATAAACAAATT
1 AACTTAAATATAAACAAATT
75203 TTTTTTGATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.54, C:0.15, G:0.02, T:0.29
Consensus pattern (22 bp):
AACTTAAATATAAACAAATTCC
Found at i:77158 original size:19 final size:19
Alignment explanation
Indices: 77111--77158 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
77101 TTTATCAACA
** *
77111 AAAATAAAAATATTATTTT
1 AAAATAAAAATAAAATATT
*
77130 AAAATTAAAATAAAATATT
1 AAAATAAAAATAAAATATT
*
77149 GAAATAAAAA
1 AAAATAAAAA
77159 CTAGATTAGA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (19 bp):
AAAATAAAAATAAAATATT
Found at i:79330 original size:19 final size:19
Alignment explanation
Indices: 79295--79335 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
79285 CTTGTTAATT
* *
79295 TTTCACTATTTTGTTGTCA
1 TTTCACTATTATATTGTCA
*
79314 TTTCACTATTATATTGTTA
1 TTTCACTATTATATTGTCA
79333 TTT
1 TTT
79336 TAATATTATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.20, C:0.12, G:0.07, T:0.61
Consensus pattern (19 bp):
TTTCACTATTATATTGTCA
Found at i:85781 original size:22 final size:22
Alignment explanation
Indices: 85751--85793 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
85741 AACTCTATAC
85751 GTTTATATATTTTGTTA-AATTG
1 GTTTATATATTTT-TTATAATTG
*
85773 GTTTTTATATTTTTTATAATT
1 GTTTATATATTTTTTATAATT
85794 AATTTTGGTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 3 0.16
22 16 0.84
ACGTcount: A:0.26, C:0.00, G:0.09, T:0.65
Consensus pattern (22 bp):
GTTTATATATTTTTTATAATTG
Found at i:85799 original size:22 final size:22
Alignment explanation
Indices: 85756--85799 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
85746 TATACGTTTA
**
85756 TATATTTTGTTAAATTGGTTTT
1 TATATTTTGTTAAATTAATTTT
85778 TATATTTT-TTATAATTAATTTT
1 TATATTTTGTTA-AATTAATTTT
85800 GGTCATCAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 3 0.16
22 16 0.84
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.66
Consensus pattern (22 bp):
TATATTTTGTTAAATTAATTTT
Found at i:89696 original size:18 final size:20
Alignment explanation
Indices: 89669--89710 Score: 61
Period size: 18 Copynumber: 2.2 Consensus size: 20
89659 TCAAAGACAT
89669 AAATTATTTA-ATTTTT-AA
1 AAATTATTTATATTTTTGAA
*
89687 AAATTCTTTATATTTTTGAA
1 AAATTATTTATATTTTTGAA
89707 AAAT
1 AAAT
89711 ACATAAATGG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 9 0.43
19 6 0.29
20 6 0.29
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (20 bp):
AAATTATTTATATTTTTGAA
Found at i:92869 original size:17 final size:16
Alignment explanation
Indices: 92847--92878 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
92837 AAAATAGTTT
92847 TAAAATTATAAAAAAAA
1 TAAAATTA-AAAAAAAA
92864 TAAAATTAAAAAAAA
1 TAAAATTAAAAAAAA
92879 GTTCATAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (16 bp):
TAAAATTAAAAAAAAA
Found at i:93868 original size:30 final size:31
Alignment explanation
Indices: 93834--93896 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 31
93824 TGTTTATATA
*
93834 TTTATAATGTTTA-AGGGATTAAA-TCAAATT
1 TTTATAATGTTTAGAGGG-TTAAAGTAAAATT
* *
93864 TTTATTATTTTTAGAGGGTTAAAGTAAAATT
1 TTTATAATGTTTAGAGGGTTAAAGTAAAATT
93895 TT
1 TT
93897 ATCATTACTA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
30 16 0.57
31 12 0.43
ACGTcount: A:0.37, C:0.02, G:0.14, T:0.48
Consensus pattern (31 bp):
TTTATAATGTTTAGAGGGTTAAAGTAAAATT
Found at i:100467 original size:45 final size:45
Alignment explanation
Indices: 100384--100469 Score: 109
Period size: 45 Copynumber: 1.9 Consensus size: 45
100374 ACTTAACTTT
* * * * *
100384 TTTTTTTTCAAGTTAGTTATTAAAAAATTTGAAGTTTAGGTACAG
1 TTTTTGTTCAAGTTAATTATTAAAAAATCTAAAATTTAGGTACAG
* *
100429 TTTTTGTTCAAGTTAATTCTTAAAAACTCTAAAATTTAGGT
1 TTTTTGTTCAAGTTAATTATTAAAAAATCTAAAATTTAGGT
100470 TTAATATAAT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
45 34 1.00
ACGTcount: A:0.34, C:0.07, G:0.13, T:0.47
Consensus pattern (45 bp):
TTTTTGTTCAAGTTAATTATTAAAAAATCTAAAATTTAGGTACAG
Found at i:110571 original size:14 final size:14
Alignment explanation
Indices: 110552--110580 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
110542 AAAAGACTAA
110552 TTATCAAATATATG
1 TTATCAAATATATG
110566 TTATCAAATATATG
1 TTATCAAATATATG
110580 T
1 T
110581 ATAACCCTAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.45
Consensus pattern (14 bp):
TTATCAAATATATG
Found at i:112998 original size:194 final size:195
Alignment explanation
Indices: 112723--113266 Score: 627
Period size: 194 Copynumber: 2.7 Consensus size: 195
112713 AAGTCGTTTT
* * *
112723 TCTTCAACTCTTGAAAAACTC-AAGCAATATATAGCAACAAACAGCATATATCAACAATC-CTAA
1 TCTTCGACTTTTGAAAAACTCAAAGCAATATACAGCAACAAACAGCATATATCAACAATCAC-AA
* * * * *
112786 ACTCAAATTCAGCAGAATCAATAAGGAATCAAGATTTCATAGCTTCGGAAATGTCATAAAACCGG
65 ACACAACTTTAGCAGAATCAGTAAGGAATCAAGATTTCATAGCTTCGGAAATGTCGTAAAACCGG
* * *
112851 G-TTTTGTCGAGAAGCAATTC-GAACAGTTAAACGACACCTGAATTCCCATTCTT-AAA-AAAGT
130 GTTTTTGTCGAGAAGCAATTCAG-ACAGTTAAACAAAACCCGAATTCCCATTCTTCAAAGAAA-T
112912 TTC
193 TTC
* *
112915 TCTTTGACTTTTGAAAAACTCAAAAGCAATAAACAGCAACAAACAGCATATATCAACAATCACAA
1 TCTTCGACTTTTGAAAAACTC-AAAGCAATATACAGCAACAAACAGCATATATCAACAATCACAA
* * * *
112980 ACACAACTTTAGCAGAATCAGCAAGGAATCAAGATTTTATAACTTCGGAAATGTTGTAAAACCGG
65 ACACAACTTTAGCAGAATCAGTAAGGAATCAAGATTTCATAGCTTCGGAAATGTCGTAAAACCGG
*
113045 GTTTTGTCGAGAAGTTACTTGCGAGAAGCAATTCAGACAGTTAAACAAAACCCGAATTCCCTTTC
130 GTTTT-T------G-----T-CGAGAAGCAATTCAGACAGTTAAACAAAACCCGAATTCCCATTC
*
113110 TTCAAAGACATTTC
182 TTCAAAGAAATTTC
* * *
113124 TCTTCGATTTTTGAAAAACTCAAAGCAATATACAGCAACAAACAGCATACATCAACAATCATAAA
1 TCTTCGACTTTTGAAAAACTCAAAGCAATATACAGCAACAAACAGCATATATCAACAATCACAAA
* * * *
113189 CACGAC-ATAGCCGAATCAGTAAGGAATCAA-AGTTTCATAGCTTCGGAAATGTCGTAAAATCGG
66 CACAACTTTAGCAGAATCAGTAAGGAATCAAGA-TTTCATAGCTTCGGAAATGTCGTAAAACCGG
*
113252 GTTTTTTTCGAGAAG
130 GTTTTTGTCGAGAAG
113267 TTACTTGCGA
Statistics
Matches: 298, Mismatches: 33, Indels: 40
0.80 0.09 0.11
Matches are distributed among these distances:
192 18 0.06
194 102 0.34
195 5 0.02
196 1 0.00
202 1 0.00
206 2 0.01
207 54 0.18
208 86 0.29
209 27 0.09
210 2 0.01
ACGTcount: A:0.40, C:0.20, G:0.14, T:0.25
Consensus pattern (195 bp):
TCTTCGACTTTTGAAAAACTCAAAGCAATATACAGCAACAAACAGCATATATCAACAATCACAAA
CACAACTTTAGCAGAATCAGTAAGGAATCAAGATTTCATAGCTTCGGAAATGTCGTAAAACCGGG
TTTTTGTCGAGAAGCAATTCAGACAGTTAAACAAAACCCGAATTCCCATTCTTCAAAGAAATTTC
Found at i:113265 original size:208 final size:208
Alignment explanation
Indices: 112858--113277 Score: 589
Period size: 208 Copynumber: 2.0 Consensus size: 208
112848 CGGGTTTTGT
* * * *
112858 CGAGAAGCAATTCGAACAGTTAAACGACACCTGAATTCCCATTCTTAAAAAAGTTTCTCTTTGAC
1 CGAGAAGCAATTCGAACAGTTAAACAAAACCCGAATTCCCATTCTTAAAAAAGTTTCTCTTCGAC
*
112923 TTTTGAAAAACTCAAAAGCAATAAACAGCAACAAACAGCATATATCAACAATCACAAACACAACT
66 TTTTGAAAAACTCAAAAGCAATAAACAGCAACAAACAGCATACATCAACAATCACAAACACAACT
* * *
112988 TTAGCAGAATCAGCAAGGAATCAAGATTTTATAACTTCGGAAATGTTGTAAAACCGGGTTTTGTC
131 ATAGCAGAATCAGCAAGGAATCAAGATTTCATAACTTCGGAAATGTCGTAAAACCGGGTTTTGTC
113053 GAGAAGTTACTTG
196 GAGAAGTTACTTG
* *
113066 CGAGAAGCAATTC-AGACAGTTAAACAAAACCCGAATTCCCTTTCTTCAAAGACA-TTTCTCTTC
1 CGAGAAGCAATTCGA-ACAGTTAAACAAAACCCGAATTCCCATTCTT-AAA-AAAGTTTCTCTTC
* * * *
113129 GATTTTTGAAAAACTC-AAAGCAATATACAGCAACAAACAGCATACATCAACAATCATAAACACG
63 GACTTTTGAAAAACTCAAAAGCAATAAACAGCAACAAACAGCATACATCAACAATCACAAACACA
* * * *
113193 AC-ATAGCCGAATCAGTAAGGAATCAA-AGTTTCATAGCTTCGGAAATGTCGTAAAATCGGGTTT
128 ACTATAGCAGAATCAGCAAGGAATCAAGA-TTTCATAACTTCGGAAATGTCGTAAAACCGGG-TT
*
113256 TTTTCGAGAAGTTACTTG
191 TTGTCGAGAAGTTACTTG
113274 CGAG
1 CGAG
113278 TTACAACTAG
Statistics
Matches: 188, Mismatches: 19, Indels: 10
0.87 0.09 0.05
Matches are distributed among these distances:
206 1 0.01
207 50 0.27
208 109 0.58
209 26 0.14
210 2 0.01
ACGTcount: A:0.39, C:0.20, G:0.15, T:0.25
Consensus pattern (208 bp):
CGAGAAGCAATTCGAACAGTTAAACAAAACCCGAATTCCCATTCTTAAAAAAGTTTCTCTTCGAC
TTTTGAAAAACTCAAAAGCAATAAACAGCAACAAACAGCATACATCAACAATCACAAACACAACT
ATAGCAGAATCAGCAAGGAATCAAGATTTCATAACTTCGGAAATGTCGTAAAACCGGGTTTTGTC
GAGAAGTTACTTG
Found at i:123867 original size:30 final size:31
Alignment explanation
Indices: 123813--123870 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 31
123803 TGAATAATTC
123813 AAACTCAAAATAACTTAAAAAAAATTAATAT
1 AAACTCAAAATAACTTAAAAAAAATTAATAT
* **
123844 AAACTCGAAATAA-TTTTAAAAAATTAA
1 AAACTCAAAATAACTTAAAAAAAATTAA
123871 CAAATCAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 12 0.50
31 12 0.50
ACGTcount: A:0.62, C:0.09, G:0.02, T:0.28
Consensus pattern (31 bp):
AAACTCAAAATAACTTAAAAAAAATTAATAT
Found at i:124773 original size:2 final size:2
Alignment explanation
Indices: 124766--124802 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
124756 TCATATTGCA
124766 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
124803 AAAGTTTCAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:128167 original size:36 final size:36
Alignment explanation
Indices: 128113--128184 Score: 126
Period size: 36 Copynumber: 2.0 Consensus size: 36
128103 TATGAAATCA
128113 CAGTTTTTTACATACATTGAACATGGACAGTTTTGC
1 CAGTTTTTTACATACATTGAACATGGACAGTTTTGC
* *
128149 CAGTTTTTTACGTTCATTGAACATGGACAGTTTTGC
1 CAGTTTTTTACATACATTGAACATGGACAGTTTTGC
128185 TAAAAGAAAC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.25, C:0.17, G:0.18, T:0.40
Consensus pattern (36 bp):
CAGTTTTTTACATACATTGAACATGGACAGTTTTGC
Found at i:128615 original size:2 final size:2
Alignment explanation
Indices: 128608--128636 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
128598 AACAATTACA
128608 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
128637 ACTTTTAGCC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:129910 original size:46 final size:44
Alignment explanation
Indices: 129784--129930 Score: 152
Period size: 46 Copynumber: 3.2 Consensus size: 44
129774 CGAAGTACTT
* *
129784 AACAGTAAGCACACACAGTGCAATCCAGTAGGCACACACAGTGCA
1 AACAGTAAGCACACACAGTGCAA-ACAGTAGGCACACAAAGTGCA
* * * * *
129829 ATCAGTAGGCGCACATAGCGCAAATCAGTAGGCACACAAAGTGCGA
1 AACAGTAAGCACACACAGTGCAAA-CAGTAGGCACACAAAGTGC-A
* *
129875 AACAGTAAGCACACGA-AGTGCGAAACAGTAAGCACACGAAGTGCAA
1 AACAGTAAGCACAC-ACAGTGC-AAACAGTAGGCACACAAAGTGC-A
129921 AACAGTAAGC
1 AACAGTAAGC
129931 GCGCTAGCGT
Statistics
Matches: 84, Mismatches: 14, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
45 36 0.43
46 44 0.52
47 4 0.05
ACGTcount: A:0.41, C:0.24, G:0.23, T:0.11
Consensus pattern (44 bp):
AACAGTAAGCACACACAGTGCAAACAGTAGGCACACAAAGTGCA
Found at i:129923 original size:23 final size:23
Alignment explanation
Indices: 129784--129930 Score: 138
Period size: 23 Copynumber: 6.4 Consensus size: 23
129774 CGAAGTACTT
129784 AACAGTAAGCACACACAGTGCAA
1 AACAGTAAGCACACACAGTGCAA
** *
129807 TCCAGTAGGCACACACAGTGC-A
1 AACAGTAAGCACACACAGTGCAA
* * * * *
129829 ATCAGTAGGCGCACATAGCGCAA
1 AACAGTAAGCACACACAGTGCAA
* * * *
129852 ATCAGTAGGCACACAAAGTGCGA
1 AACAGTAAGCACACACAGTGCAA
*
129875 AACAGTAAGCACACGA-AGTGCGA
1 AACAGTAAGCACAC-ACAGTGCAA
129898 AACAGTAAGCACACGA-AGTGCAA
1 AACAGTAAGCACAC-ACAGTGCAA
129921 AACAGTAAGC
1 AACAGTAAGC
129931 GCGCTAGCGT
Statistics
Matches: 107, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
22 17 0.16
23 89 0.83
24 1 0.01
ACGTcount: A:0.41, C:0.24, G:0.23, T:0.11
Consensus pattern (23 bp):
AACAGTAAGCACACACAGTGCAA
Found at i:130385 original size:11 final size:11
Alignment explanation
Indices: 130358--130388 Score: 55
Period size: 10 Copynumber: 2.9 Consensus size: 11
130348 TCAGTCTCTA
130358 ATGATTTTTCT
1 ATGATTTTTCT
130369 AT-ATTTTTCT
1 ATGATTTTTCT
130379 ATGATTTTTC
1 ATGATTTTTC
130389 AAAGTCAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.53
11 9 0.47
ACGTcount: A:0.19, C:0.10, G:0.06, T:0.65
Consensus pattern (11 bp):
ATGATTTTTCT
Done.