Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold110
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: 1159294
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.33
File 5 of 6
Found at i:656819 original size:159 final size:155
Alignment explanation
Indices: 656140--657266 Score: 672
Period size: 157 Copynumber: 7.2 Consensus size: 155
656130 AGAGCAACAC
* * * * * * *** *
656140 CAAAGCATCAATATCTTGAATCACAATTAGGAAAACGTGTTTATGGTGAATAATCATGAAAAGAA
1 CAAAGCATCAATATCATGTATCCCAATGAGGAGAACGTATTTAT-GTGCCCAATCATGAAAA-TA
** * * * * * *
656205 TGTATATTATTACAATAATCCATGTTTGTCTAATTTAAGGGATGAACTTTGCTGCTAAGAAAAAT
64 TAAAGATTATTACAAGAATCCATGTTTGTCTCATTT-AGGGATGAACTTTGATTCTAAGGAAAAT
* *
656270 AGTGG-AAAAAATGCTTTTCTT-CAAAA
128 GGTGGAAAAAAAAGCTTTTCTTGCAAAA
* ** * *
656296 CCAAAGCATCAATATCATTTATCCCAATTTGGAGAATC-TATTT-TCTTGCCTAAT-AGTGAAAA
1 -CAAAGCATCAATATCATGTATCCCAATGAGGAGAA-CGTATTTAT-GTGCCCAATCA-TGAAAA
** * * *
656358 -A-AATAGAATTATTATGAGAATCCATGTGTG-CATCATTTGAGGCATGAACTTT-ATTTATAAG
62 TATAA-AG-ATTATTACAAGAATCCATGTTTGTC-TCATTT-AGGGATGAACTTTGA-TTCTAAG
* * * **
656419 GAAAATGGTGGAAAGAAAAGTTTTTTCTTGGAATC
122 GAAAATGGTGGAAAAAAAAG-CTTTTCTTGCAAAA
* * * * *
656454 CAAAGCATCAATATCGT-TATCCTAATGAGGAGAACATGTTTATGGTGCTCAAT--TGCAAAAAG
1 CAAAGCATCAATATCATGTATCCCAATGAGGAGAACGTATTTAT-GTGCCCAATCATG--AAAA-
* * * ** * * * *
656516 AATAGAGAATATTATGAGAATCCATGTTTGTCTCCTTCGAGAGATGAACTTTAATTCTAA-GAAG
62 TATAAAGATTATTACAAGAATCCATGTTTGTCTCATT-TAGGGATGAACTTTGATTCTAAGGAA-
** *
656580 AATGGT--AAACAATGAGCTTTTCTTCCAAAA
125 AATGGTGGAAA-AAAAAGCTTTTCTTGCAAAA
* * * *
656610 CCAAA-CATCAATATCTTATATCCAAATGAGGAGAATGTATTTATGGTGCCCAATCATGAAATAT
1 -CAAAGCATCAATATCATGTATCCCAATGAGGAGAACGTATTTAT-GTGCCCAATCATGAAA-AT
* * * * * * *
656674 ATATATATTATTACAAGAATCCATGTTTATCTCGTTTAAGGGATCAAATTTGACTCTAAGGAAAA
63 ATAAAGATTATTACAAGAATCCATGTTTGTCTCATTT-AGGGATGAACTTTGATTCTAAGGAAAA
*
656739 TGGTGGAAAAAAAAGCTTTCCTTGCAAAA
127 TGGTGGAAAAAAAAGCTTTTCTTGCAAAA
* * * * * * *
656768 CGAATGGATCAATATCATGTATCCCAATGTGGAGAACATATTTTTGTTGCCCAATCGTGAAAAGA
1 C-AAAGCATCAATATCATGTATCCCAATGAGGAGAACGTATTTATG-TGCCCAATCATGAAAA-T
* * ** * *
656833 ATAGAGATTACTATGATAATCCATGTTTGTCTCATTT-GGCAGATGAACTTCGATTCTAAGGAAA
63 ATAAAGATTATTACAAGAATCCATGTTTGTCTCATTTAGG--GATGAACTTTGATTCTAAGGAAA
* *
656897 AT-ATAGGAAAGAAAAGCTTTTCTTGCAAAAA
126 ATGGT-GGAAAAAAAAGCTTTTCTTGC-AAAA
* * * * * *
656928 CAAAGCTTCAATATCTTGTATCCTAATGAGG-GCAACGTGTTTATGTGGCCGATCATGAAAATAT
1 CAAAGCATCAATATCATGTATCCCAATGAGGAG-AACGTATTTATGTGCCCAATCATGAAAATA-
* *
656992 TAAAGATTATTACAAG-ATCCATGTTTGTCTCATTTGAGGAATGAACTTTGATTCAAAGGAAAAT
64 TAAAGATTATTACAAGAATCCATGTTTGTCTCATTT-AGGGATGAACTTTGATTCTAAGGAAAAT
*
657056 GGT--TAAAAAAAGCTTTTCTTG-AGAAA
128 GGTGGAAAAAAAAGCTTTTCTTGCA-AAA
* * * * * * **
657082 CTAAAGCATTAATATTATGTATCCCAATGAAGAAAACATGA-TTATGGTTCCCAATCACAAAAAT
1 C-AAAGCATCAATATCATGTATCCCAATGAGGAGAACGT-ATTTAT-GTGCCCAATCATGAAAAT
** * * * * * * * **
657146 AATGTACATTTTTAGAAGAATTCATGTTTGTCTCATTTGAAGAATGAACTTTGACTC-AAAAAAA
63 -ATAAAGATTATTACAAGAATCCATGTTTGTCTCATTT-AGGGATGAACTTTGATTCTAAGGAAA
* * * *
657210 ATAGTGG---AAAGAGCTTTTCTTGGAAATG
126 ATGGTGGAAAAAAAAGCTTTTCTTGCAAA-A
* *
657238 CAAAACATCAATATCTTGTATCCCAATGA
1 CAAAGCATCAATATCATGTATCCCAATGA
657267 TAGGAACTTG
Statistics
Matches: 754, Mismatches: 162, Indels: 110
0.73 0.16 0.11
Matches are distributed among these distances:
153 1 0.00
154 7 0.01
155 142 0.19
156 95 0.13
157 243 0.32
158 101 0.13
159 159 0.21
160 6 0.01
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.32
Consensus pattern (155 bp):
CAAAGCATCAATATCATGTATCCCAATGAGGAGAACGTATTTATGTGCCCAATCATGAAAATATA
AAGATTATTACAAGAATCCATGTTTGTCTCATTTAGGGATGAACTTTGATTCTAAGGAAAATGGT
GGAAAAAAAAGCTTTTCTTGCAAAA
Found at i:656879 original size:316 final size:315
Alignment explanation
Indices: 656415--657144 Score: 789
Period size: 316 Copynumber: 2.3 Consensus size: 315
656405 ACTTTATTTA
* * * * * *
656415 TAAGGAAAATGGTGGAAAGAAAAGTTTTTTCTTGGAATCCAAAGCATCAATATCGT-TATCCTAA
1 TAAGGAAAATGGTGGAAAAAAAAG-CTTTTCTTGAAAACCAAAGCATCAATATCATGTATCCCAA
* * * *
656479 TGAGGAGAACATGTTTATGGTGCTCAATTGCAAAAAGAATAGAGAATATTATGAGAATCCATGTT
65 TGAGGAGAACATATTTATGGTGCCCAATCGCAAAAAGAATAGAGAATACTATGAGAATCCATGTT
* * * *
656544 TGTCTCCTTCGAGAGATGAACTTTAATTCTAA-GAAGA-AT-GGTAAACAATGAGCTTTTCTTCC
130 TGTCTCATTCGAGAGATGAACTTCAATTCTAAGGAAAATATAGG-AAACAA-AAGCTTTTCTTCC
* *
656606 AAAACCAAA-CATCAATATCTTATATCCAAATGAGGAG-AATGTATTTATGGTGCCCAATCATG-
193 AAAAACAAAGCATCAATATCTTATATCCAAATGAGG-GCAACGTATTTAT-GTGCCCAATCATGA
* * * *
656668 AAATATATATATATTATTACAAGAATCCATGTTTATCTCGTTTAAGGGATCAAATTTGACTC
256 AAATAT-TAAAGATTATTACAAG-ATCCATGTTTATCTCATTTAAGGAATCAAATTTGACTC
* * * *
656730 TAAGGAAAATGGTGGAAAAAAAAGCTTTCCTTGCAAAACGAATGGATCAATATCATGTATCCCAA
1 TAAGGAAAATGGTGGAAAAAAAAGCTTTTCTTG-AAAACCAAAGCATCAATATCATGTATCCCAA
* * * ** * *
656795 TGTGGAGAACATATTTTTGTTGCCCAATCGTGAAAAGAATAGAGATTACTATGATAATCCATGTT
65 TGAGGAGAACATATTTATGGTGCCCAATCGCAAAAAGAATAGAGAATACTATGAGAATCCATGTT
* * * *
656860 TGTCTCATTTG-GCAGATGAACTTCGATTCTAAGGAAAATATAGGAAAGAAAAGCTTTTCTTGCA
130 TGTCTCATTCGAG-AGATGAACTTCAATTCTAAGGAAAATATAGGAAACAAAAGCTTTTCTTCCA
* * * * * *
656924 AAAACAAAGCTTCAATATCTTGTATCCTAATGAGGGCAACGTGTTTATGTGGCCGATCATGAAAA
194 AAAACAAAGCATCAATATCTTATATCCAAATGAGGGCAACGTATTTATGTGCCCAATCATGAAAA
* * * * *
656989 TATTAAAGATTATTACAAGATCCATGTTTGTCTCATTTGAGGAATGAACTTTGATTC
259 TATTAAAGATTATTACAAGATCCATGTTTATCTCATTTAAGGAATCAAATTTGACTC
* * * * *
657046 AAAGGAAAATGGT--TAAAAAAAGCTTTTCTTGAGAAACTAAAGCATTAATATTATGTATCCCAA
1 TAAGGAAAATGGTGGAAAAAAAAGCTTTTCTTGA-AAACCAAAGCATCAATATCATGTATCCCAA
* * * *
657109 TGAAGAAAACATGA-TTATGGTTCCCAATCACAAAAA
65 TGAGGAGAACAT-ATTTATGGTGCCCAATCGCAAAAA
657145 TAATGTACAT
Statistics
Matches: 341, Mismatches: 63, Indels: 23
0.80 0.15 0.05
Matches are distributed among these distances:
313 1 0.00
314 73 0.21
315 41 0.12
316 130 0.38
317 49 0.14
318 45 0.13
319 2 0.01
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.31
Consensus pattern (315 bp):
TAAGGAAAATGGTGGAAAAAAAAGCTTTTCTTGAAAACCAAAGCATCAATATCATGTATCCCAAT
GAGGAGAACATATTTATGGTGCCCAATCGCAAAAAGAATAGAGAATACTATGAGAATCCATGTTT
GTCTCATTCGAGAGATGAACTTCAATTCTAAGGAAAATATAGGAAACAAAAGCTTTTCTTCCAAA
AACAAAGCATCAATATCTTATATCCAAATGAGGGCAACGTATTTATGTGCCCAATCATGAAAATA
TTAAAGATTATTACAAGATCCATGTTTATCTCATTTAAGGAATCAAATTTGACTC
Found at i:657201 original size:473 final size:469
Alignment explanation
Indices: 656198--657219 Score: 1066
Period size: 473 Copynumber: 2.2 Consensus size: 469
656188 AATAATCATG
* * *
656198 AAAAGAATGTATATTATTACAATAATCCATGTTTGTCTAATTTAAGGGATGAACTTTG-CTGCTA
1 AAAATAATGTATATTATTACAAGAATCCATGTTTGTCTCATTTAAGGGATGAACTTTGACT-CTA
* * * *
656262 AGAAAAATAGTGG-AAAAAATGCTTTTCTTCAAAACCAAAGCATCAATATCATTTATCCCAATTT
65 AGAAAAATAGTGGAAAAAAAAGCTTTCCTTCAAAACCAAAGCATCAATATCATGTATCCCAATGT
* *
656326 GGAGAATCTATTTTCTTGCCTAATAGTGAAAAAAATAGAATTATTATGAGAATCCATGTGTGCAT
130 GGAGAATCTATTTTCTTGCCCAATAGTGAAAAAAATAGAATTACTATGAGAATCCATGTGTGCAT
* * * * **
656391 CATTTGAGGCATGAACTTTATTTATAAGGAAAATGGTGGAAAGAAAAGTTTTTTCTTGGAATCCA
195 CATTTGAGGCATGAACTTGATTTATAAGGAAAATGATGGAAAGAAAAGTCTTTTCTTGAAAAACA
*
656456 AAGCATCAATATCGTTATCCTAATGAGGAGAACATGTTTATGGTGCTCAATTGCAAAAAGAATAG
260 AAGCATCAATATCGTTATCCTAATGAGGAGAACATGTTTATGGTGCTCAATTG-AAAAAGAATAA
** * *
656521 AGAATATTATGAGAATCCATGTTTGTCTCCTTCGAGAGATGAACTTTAATTCTAAGAAGAATGGT
324 AGAATATTACAAGAATCCATGTTTGTCTCATTCGAGAGATGAACTTTAATTCAAAGAAGAATGGT
* * *
656586 AAACAATGAGCTTTTCTTCCAAAACCAAACATCAATATCTTATATCCAAATGAGGAGAATGTATT
389 AAACAATAAGCTTTTCTTCCAAAACCAAACATCAATATCTTATATCCAAATGAGAAAAATGTATT
*
656651 TATGGTGCCCAATCAT
454 TATGGTGCCCAATCAA
* * * * * *
656667 GAAATATATATATATTATTACAAGAATCCATGTTTATCTCGTTTAAGGGATCAAATTTGACTCTA
1 AAAATA-ATGTATATTATTACAAGAATCCATGTTTGTCTCATTTAAGGGATGAACTTTGACTCTA
* * * * *
656732 AGGAAAATGGTGGAAAAAAAAGCTTTCCTTGCAAAACGAATGGATCAATATCATGTATCCCAATG
65 AGAAAAATAGTGGAAAAAAAAGCTTTCCTT-CAAAACCAAAGCATCAATATCATGTATCCCAATG
* * * * *
656797 TGGAGAA-CATATTTTTGTTGCCCAATCGTGAAAAGAATAGAGATTACTATGATAATCCATGTTT
129 TGGAGAATC-TA-TTTTCTTGCCCAATAGTGAAAAAAATAGA-ATTACTATGAGAATCCATGTGT
*
656861 GTC-TCATTT--GGCAGATGAACTTCGA-TTCTAAGGAAAAT-ATAGGAAAGAAAAG-CTTTTCT
191 G-CATCATTTGAGGC--ATGAACTT-GATTTATAAGGAAAATGAT-GGAAAGAAAAGTCTTTTCT
* * * *
656920 TGCAAAAACAAAGCTTCAATATCTTGTATCCTAATGAGG-GCAACGTGTTTAT-GTGGC-CGATC
251 TG-AAAAACAAAGCATCAATATCGT-TATCCTAATGAGGAG-AACATGTTTATGGT-GCTCAAT-
* * * * *
656982 ATG-AAAATATTAAAGATTATTACAAG-ATCCATGTTTGTCTCATTTGAG-GAATGAACTTTGAT
311 -TGAAAAAGAATAAAGAATATTACAAGAATCCATGTTTGTCTCATTCGAGAG-ATGAACTTTAAT
* * * *
657044 TCAAAGGAA-AATGGTTAAA-AA-AAGCTTTTCTT-GAGAAACTAAAGCATTAATAT-TATGTAT
374 TCAAA-GAAGAATGG-TAAACAATAAGCTTTTCTTCCA-AAACCAAA-CATCAATATCT-TATAT
* *
657104 CCCAATGAAGAAAACATG-A-TTATGGTTCCCAATCACA
434 CCAAATG-AGAAAA-ATGTATTTATGGTGCCCAATCA-A
* * * * *
657141 AAAATAATGTACATTTTTAGAAGAATTCATGTTTGTCTCATTTGAA-GAATGAACTTTGACTC-A
1 AAAATAATGTATATTATTACAAGAATCCATGTTTGTCTCATTT-AAGGGATGAACTTTGACTCTA
*
657204 AAAAAAATAGTGGAAA
65 AGAAAAATAGTGGAAA
657220 GAGCTTTTCT
Statistics
Matches: 455, Mismatches: 70, Indels: 53
0.79 0.12 0.09
Matches are distributed among these distances:
469 4 0.01
470 59 0.13
471 18 0.04
472 74 0.16
473 152 0.33
474 116 0.25
475 30 0.07
476 2 0.00
ACGTcount: A:0.38, C:0.13, G:0.17, T:0.32
Consensus pattern (469 bp):
AAAATAATGTATATTATTACAAGAATCCATGTTTGTCTCATTTAAGGGATGAACTTTGACTCTAA
GAAAAATAGTGGAAAAAAAAGCTTTCCTTCAAAACCAAAGCATCAATATCATGTATCCCAATGTG
GAGAATCTATTTTCTTGCCCAATAGTGAAAAAAATAGAATTACTATGAGAATCCATGTGTGCATC
ATTTGAGGCATGAACTTGATTTATAAGGAAAATGATGGAAAGAAAAGTCTTTTCTTGAAAAACAA
AGCATCAATATCGTTATCCTAATGAGGAGAACATGTTTATGGTGCTCAATTGAAAAAGAATAAAG
AATATTACAAGAATCCATGTTTGTCTCATTCGAGAGATGAACTTTAATTCAAAGAAGAATGGTAA
ACAATAAGCTTTTCTTCCAAAACCAAACATCAATATCTTATATCCAAATGAGAAAAATGTATTTA
TGGTGCCCAATCAA
Found at i:659638 original size:84 final size:83
Alignment explanation
Indices: 659522--659682 Score: 232
Period size: 83 Copynumber: 1.9 Consensus size: 83
659512 ATAGTTCTAA
*
659522 TGGTTCAAAATGAAAATAGAAAAAGAAAATAAGAAACAAGAATCTAAAAGTCAAAATGATGGAAG
1 TGGTTCAAAATGAAAATAGAAAAAGAAAATAAG-AACAAGAATCTAAAAGTCAAAAGGATGGAAG
*
659587 GGATAAACTTTGAATTAAT
65 GGATAAACCTTGAATTAAT
* * * ** **
659606 TGGTTCAAAATGAAAATGGAAGAAGAATATAAGAACTGGAATCTAAAAGTTGAAAGGATGGAAGG
1 TGGTTCAAAATGAAAATAGAAAAAGAAAATAAGAACAAGAATCTAAAAGTCAAAAGGATGGAAGG
659671 GATAAACCTTGA
66 GATAAACCTTGA
659683 TTTGATTGAT
Statistics
Matches: 68, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
83 38 0.56
84 30 0.44
ACGTcount: A:0.51, C:0.06, G:0.22, T:0.21
Consensus pattern (83 bp):
TGGTTCAAAATGAAAATAGAAAAAGAAAATAAGAACAAGAATCTAAAAGTCAAAAGGATGGAAGG
GATAAACCTTGAATTAAT
Found at i:669441 original size:159 final size:158
Alignment explanation
Indices: 668371--669849 Score: 574
Period size: 159 Copynumber: 9.4 Consensus size: 158
668361 GAATGTGTTA
* * * ** *
668371 ATAAGAATCCATGTTTGCCTTATTTAAGGGATGAACTTTGATTCTAA-GAAAATGG-ACAAA-AA
1 ATAAGAATCCATGTTTGTCTCATTTGATAGATGAACTTTGATTCTAAGGAAAATGGAAGAAAGAA
** * ** *
668433 AACCTTTTATTAGCAAAACCAAAGCATCAATATTGTGTATCAAAATGAGGAGAAC--GTCTTATG
66 AAGGTTTTCTT-GCAAAACCAAAGCATCAATATTGTGTATCCCAATGAGAAGAACATGT-TTATG
* * * * **
668496 GT-TC-AATCATGAAAAGAAAAT-AGATTATT
129 GTGCCTAATCA-CAAAA-AAAGTGGGAAGATT
* ** * * **
668525 ACAAGAATCCATGTTTG-----TTTGAGGGATGAACTTTGACTCCAAGGAAAATGGTGGAAAGAA
1 ATAAGAATCCATGTTTGTCTCATTTGATAGATGAACTTTGATTCTAAGGAAAATGGAAGAAAGAA
* * * * ** ** * *
668585 AAGCTTTTTTTAG-AAAACCAAACCATTAATATCATGTATCCTTATGA-TAGAGATATGTTTATG
66 AAGGTTTTCTT-GCAAAACCAAAGCATCAATATTGTGTATCCCAATGAGAAGA-ACATGTTTATG
* * * **
668648 GTGTCC-AATC-CTGAAAAGATTGGAGATTATT
129 GTG-CCTAATCAC-AAAAAAAGTGG-GAAGATT
* * *
668679 ATGAGAATCCATGTTTGTCTCATTTGATAGATGAACTTTGATTCTAAGGAACATGG-GGAAAGAA
1 ATAAGAATCCATGTTTGTCTCATTTGATAGATGAACTTTGATTCTAAGGAAAATGGAAGAAAGAA
* ** ** * *
668743 AAGCTTTTTTTTCTT-CTACAAAAAAAAGCATCAATATCATGTATCCTAATGA-AA-AAAATGCA
66 AAG----GTTTTCTTGC-A-AAACCAAAGCATCAATATTGTGTATCCCAATGAGAAGAACATG--
* * * * *
668805 TTTAAGGTTCCTAATCACAAAAAAAATGGAAATTATT
123 TTTATGGTGCCTAATCACAAAAAAAGTGGGAA-GATT
* * ** * * *
668842 ATGAGAATTCATGCGTGTCTCATTTAAT-GAATGACCTTTGATTCTAAGGAAAAT-TATAGAAAG
1 ATAAGAATCCATGTTTGTCTCATTTGATAG-ATGAACTTTGATTCTAAGGAAAATGGA-AGAAAG
* ** * * * * *
668905 AAAATGTTTTCTTGTGAAACCATAGTATCAATA-TGATGTGT--CAATGAGGAGAGCATGTTTAT
64 AAAAGGTTTTCTTGCAAAACCAAAGCATCAATATTG-TGTATCCCAATGAGAAGAACATGTTTAT
** * * * *
668967 CCTGCCCAGTCATGAAAAGAA-T-GG-AGATT
128 GGTGCCTAATCA-CAAAAAAAGTGGGAAGATT
* * ** * *
668996 ATAGTGACAATCCATGTTTGTCTCATTTG-TGTGGCGAACTTTGATTCTAAAGAAAATGGTAGAA
1 ATA---AGAATCCATGTTTGTCTCATTTGAT-AGATGAACTTTGATTCTAAGGAAAATGGAAGAA
* * * * **
669060 AGAAAAGTTTTTTTTGCAAAACCAAAGCATAAATATTGTATATCCCAATGAGAAGAATGTGTTTA
62 AGAAAAGGTTTTCTTGCAAAACCAAAGCATCAATATTGTGTATCCCAATGAGAAGAACATGTTTA
** * * * **
669125 TCATGCCTAGTCTCGAAAATAAG-GGAGATTATT
127 TGGTGCCTAATCAC-AAAAAAAGTGG-GAAGATT
* * * ** * * ** *
669158 ATGAGAATTCATCTTTGTCTCATTTGGCAGATAAATTTTGATTCTAACAAAAATGGAGGAAAGAA
1 ATAAGAATCCATGTTTGTCTCATTTGATAGATGAACTTTGATTCTAAGGAAAATGGAAGAAAGAA
** * ** * *** * * * * **
669223 AATATTTTCTTGCAAAATCAATCCATGAATATCACGTATCTCATTAAGCAGAATGTGTTTATGGT
66 AAGGTTTTCTTGCAAAACCAAAGCATCAATATTGTGTATCCCAATGAGAAGAACATGTTTATGGT
* *
669288 GCCTAATCACAAAACAAGTAGGGAAGATC
131 GCCTAATCACAAAAAAAGT-GGGAAGATT
* *
669317 ACAAGAATCCATGTTTGTCTCATTTCATAGATGAACTTTGATTCTAAGGAAAATGGAAGAAAGAA
1 ATAAGAATCCATGTTTGTCTCATTTGATAGATGAACTTTGATTCTAAGGAAAATGGAAGAAAGAA
* *
669382 AAGGTTTTCTTGCAAAACCAAAGCATCAGTATTGTGTATCCCAATGAGAAGAACATGTTTTTGGT
66 AAGGTTTTCTTGCAAAACCAAAGCATCAATATTGTGTATCCCAATGAGAAGAACATGTTTATGGT
* * * * ** *
669447 GCCCAATTAGGAGATGAA-TGGAGAATATT
131 GCCTAATCA-CAAAAAAAGTGG-GAAGATT
* * * * ** * * ** *
669476 ATAAGAATCAATGATTT-TCTCATTCGACATACAAACATTGTTTCTAAGG-AAATGGTGGATAGA
1 ATAAGAATCCATG-TTTGTCTCATTTGATAGATGAACTTTGATTCTAAGGAAAATGGAAGAAAGA
* * * ** * * *
669539 AAAGCTTTT-TCT-CATGAAATCAATGCATCAATATCCTGTATACCCAATAAGGAGGACATGTTT
65 AAAGGTTTTCT-TGCA--AAACCAAAGCATCAATATTGTGTAT-CCCAATGAGAAGAACATGTTT
* * * * ** * ** * * *
669602 GTAGTACCCAATCATGAGATGATTGAAGAATATT
126 ATGGTGCCTAATCACAAAAAAAGTG-GGAAGATT
* * * ** * *
669636 ATGAGAATCGATGTTTATCTCATTTGAGGGAAGAACTTTGAATT-TAAGGAAAA-CGATA-ATAA
1 ATAAGAATCCATGTTTGTCTCATTTGATAGATGAACTTTG-ATTCTAAGGAAAATGGA-AGA-AA
** * * ** * * * *
669698 GAAAAACTTTTCTTGCAAAACCAAAGCATTAGTATCATGTATCCTAAAGAGGAGAACTTGTTTAT
63 GAAAAGGTTTTCTTGCAAAACCAAAGCATCAATATTGTGTATCCCAATGAGAAGAACATGTTTAT
* * * * * *
669763 GGTCCCCAATCATGAAAAGAA-TGGTG-ATATA
128 GGTGCCTAATCA-CAAAAAAAGTGG-GAAGATT
* * * *
669794 ATGAGAATCCATGTTTGTCTCATTTGGTGGGTGAACTTTGATTCTAAGGAAAATGG
1 ATAAGAATCCATGTTTGTCTCATTTGATAGATGAACTTTGATTCTAAGGAAAATGG
669850 TGATAAGAGG
Statistics
Matches: 990, Mismatches: 262, Indels: 141
0.71 0.19 0.10
Matches are distributed among these distances:
149 22 0.02
150 11 0.01
151 31 0.03
152 23 0.02
153 5 0.01
154 48 0.05
155 1 0.00
156 2 0.00
157 95 0.10
158 97 0.10
159 394 0.40
160 111 0.11
161 22 0.02
162 20 0.02
163 98 0.10
164 10 0.01
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.31
Consensus pattern (158 bp):
ATAAGAATCCATGTTTGTCTCATTTGATAGATGAACTTTGATTCTAAGGAAAATGGAAGAAAGAA
AAGGTTTTCTTGCAAAACCAAAGCATCAATATTGTGTATCCCAATGAGAAGAACATGTTTATGGT
GCCTAATCACAAAAAAAGTGGGAAGATT
Found at i:672743 original size:13 final size:13
Alignment explanation
Indices: 672725--672749 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
672715 ATGTTGCACA
672725 GTATCGATACATT
1 GTATCGATACATT
672738 GTATCGATACAT
1 GTATCGATACAT
672750 GACCAAATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:686782 original size:22 final size:22
Alignment explanation
Indices: 686757--686800 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
686747 ATGGGCCTAT
686757 TGTTTAGGATTTCAGATTATGA
1 TGTTTAGGATTTCAGATTATGA
686779 TGTTTAGGATTTCAGATTATGA
1 TGTTTAGGATTTCAGATTATGA
686801 ATAAGAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.27, C:0.05, G:0.23, T:0.45
Consensus pattern (22 bp):
TGTTTAGGATTTCAGATTATGA
Found at i:688583 original size:12 final size:11
Alignment explanation
Indices: 688561--688633 Score: 55
Period size: 12 Copynumber: 6.6 Consensus size: 11
688551 AGAGAAAGAA
*
688561 GAGATAAGAGG
1 GAGATAGGAGG
688572 GATGATAGGAGGG
1 GA-GATAGGA-GG
688585 GAGATAGGA--
1 GAGATAGGAGG
**
688594 GAGATA-G-TT
1 GAGATAGGAGG
688603 GAGATAGGAGG
1 GAGATAGGAGG
688614 GATGATAGGAGG
1 GA-GATAGGAGG
688626 AGAGATAG
1 -GAGATAG
688634 AAGAGATAAT
Statistics
Matches: 51, Mismatches: 3, Indels: 15
0.74 0.04 0.22
Matches are distributed among these distances:
8 1 0.02
9 12 0.24
10 1 0.02
11 4 0.08
12 27 0.53
13 6 0.12
ACGTcount: A:0.38, C:0.00, G:0.47, T:0.15
Consensus pattern (11 bp):
GAGATAGGAGG
Found at i:688614 original size:42 final size:42
Alignment explanation
Indices: 688560--688669 Score: 166
Period size: 42 Copynumber: 2.6 Consensus size: 42
688550 AAGAGAAAGA
* * * *
688560 AGAGATAAGAGGGATGATAGGAGGGGAGATAGGAGAGATAGT
1 AGAGATAGGAGGGATGATAGGAGGAGAGATAGAAGAGATAAT
*
688602 TGAGATAGGAGGGATGATAGGAGGAGAGATAGAAGAGATAAT
1 AGAGATAGGAGGGATGATAGGAGGAGAGATAGAAGAGATAAT
*
688644 AGAGAGAGGAGGGATGATAGGAGGAG
1 AGAGATAGGAGGGATGATAGGAGGAG
688670 GACGGAAGAA
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 61 1.00
ACGTcount: A:0.41, C:0.00, G:0.45, T:0.14
Consensus pattern (42 bp):
AGAGATAGGAGGGATGATAGGAGGAGAGATAGAAGAGATAAT
Found at i:693630 original size:64 final size:64
Alignment explanation
Indices: 693529--693684 Score: 312
Period size: 64 Copynumber: 2.4 Consensus size: 64
693519 GAGGGATTGG
693529 AAGGAATTGGAGGTCCAATGACTAGGGATCAACACCTATTTCCAACCTTCTTATAATCCTTTGC
1 AAGGAATTGGAGGTCCAATGACTAGGGATCAACACCTATTTCCAACCTTCTTATAATCCTTTGC
693593 AAGGAATTGGAGGTCCAATGACTAGGGATCAACACCTATTTCCAACCTTCTTATAATCCTTTGC
1 AAGGAATTGGAGGTCCAATGACTAGGGATCAACACCTATTTCCAACCTTCTTATAATCCTTTGC
693657 AAGGAATTGGAGGTCCAATGACTAGGGA
1 AAGGAATTGGAGGTCCAATGACTAGGGA
693685 AGACTAAATG
Statistics
Matches: 92, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 92 1.00
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.28
Consensus pattern (64 bp):
AAGGAATTGGAGGTCCAATGACTAGGGATCAACACCTATTTCCAACCTTCTTATAATCCTTTGC
Found at i:700371 original size:32 final size:32
Alignment explanation
Indices: 700335--700415 Score: 144
Period size: 32 Copynumber: 2.5 Consensus size: 32
700325 TAGCCCTCAA
700335 AGAGAAAGAAGAGATAGGAGGATGATAGGGGG
1 AGAGAAAGAAGAGATAGGAGGATGATAGGGGG
*
700367 AGAGAAAGAAGAGATAGGTGGATGATAGGGGG
1 AGAGAAAGAAGAGATAGGAGGATGATAGGGGG
*
700399 AGAGAAAGGAGAGATAG
1 AGAGAAAGAAGAGATAG
700416 TAGAGAAAAA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
32 47 1.00
ACGTcount: A:0.44, C:0.00, G:0.46, T:0.10
Consensus pattern (32 bp):
AGAGAAAGAAGAGATAGGAGGATGATAGGGGG
Found at i:700702 original size:10 final size:10
Alignment explanation
Indices: 700687--700711 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
700677 TGAAATGAAG
700687 AAAATTTTAA
1 AAAATTTTAA
700697 AAAATTTTAA
1 AAAATTTTAA
700707 AAAAT
1 AAAAT
700712 AGAGAAGAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (10 bp):
AAAATTTTAA
Found at i:705151 original size:42 final size:39
Alignment explanation
Indices: 705063--705152 Score: 99
Period size: 39 Copynumber: 2.2 Consensus size: 39
705053 TTTTTTTCTT
* * * *
705063 TAAAAAATTCTCCCCCTTAAACGATTATCTCCTCCTTTA
1 TAAAAAAATCTCCCCCTTAAACAATTATCTCCCCCCTTA
*
705102 TAAAAAAATCTCCCCCTTAAATAATTATCTTCTCCCCCCTTA
1 TAAAAAAATCTCCCCCTTAAACAATTA---TCTCCCCCCTTA
*
705144 TGAAAAAAT
1 TAAAAAAAT
705153 TTATTTTCAC
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
39 24 0.57
42 18 0.43
ACGTcount: A:0.36, C:0.29, G:0.02, T:0.33
Consensus pattern (39 bp):
TAAAAAAATCTCCCCCTTAAACAATTATCTCCCCCCTTA
Found at i:707980 original size:170 final size:169
Alignment explanation
Indices: 707667--707985 Score: 386
Period size: 170 Copynumber: 1.9 Consensus size: 169
707657 CAAAACGTCG
* * * ** *
707667 ACCACTTCATAGTGACCATTGAAGATCAGCTAGATGGGCGATTCATCTGCCGATCTTCCCCATTT
1 ACCACCTCATAGTGACCATCGAAGATAAGCTAGATGGGCGATTCATCCACCGATCTTCCCCACTT
* * ** * *
707732 CACTTAAAAAATCTCTTATCACACTATATTAATCCCTAATCACGAGGGATATTAAGTCAAGCATG
66 CACTCAAAAAATCTCTTATCACACCATAAAAACCCCTAATCACGAGAGATATTAAGTCAAGCATG
707797 CCTCATTTTCCCATCGCCAGGGTGAGCGCACGTCGCTAT
131 CCTCATTTTCCCATCGCCAGGGTGAGCGCACGTCGCTAT
* * * * *
707836 ACCACCTCATGGTGACCGTCGAAGATAAGTTGGATGGGCGATTCATCCACTGATCTTCCCCACTT
1 ACCACCTCATAGTGACCATCGAAGATAAGCTAGATGGGCGATTCATCCACCGATCTTCCCCACTT
* * ** * * **
707901 CACCTCAAAACATTTCTTATCATGCCATAAAAACCCCTAATCACGAGATATATTAAGTCAGGTGT
66 CA-CTCAAAAAATCTCTTATCACACCATAAAAACCCCTAATCACGAGAGATATTAAGTCAAGCAT
* *
707966 GTCTCATTTTCCCATTGCCA
130 GCCTCATTTTCCCATCGCCA
707986 AGGCAAACGC
Statistics
Matches: 122, Mismatches: 27, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
169 56 0.46
170 66 0.54
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.29
Consensus pattern (169 bp):
ACCACCTCATAGTGACCATCGAAGATAAGCTAGATGGGCGATTCATCCACCGATCTTCCCCACTT
CACTCAAAAAATCTCTTATCACACCATAAAAACCCCTAATCACGAGAGATATTAAGTCAAGCATG
CCTCATTTTCCCATCGCCAGGGTGAGCGCACGTCGCTAT
Found at i:711326 original size:12 final size:12
Alignment explanation
Indices: 711306--711340 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
711296 AAGAGAAAGA
711306 AGAGATAGGAGG
1 AGAGATAGGAGG
711318 -GATGATAGGAGG
1 AGA-GATAGGAGG
711330 AGAGATAGGAG
1 AGAGATAGGAG
711341 AGATAGTAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
11 2 0.10
12 17 0.81
13 2 0.10
ACGTcount: A:0.40, C:0.00, G:0.49, T:0.11
Consensus pattern (12 bp):
AGAGATAGGAGG
Found at i:711361 original size:42 final size:42
Alignment explanation
Indices: 711297--711383 Score: 129
Period size: 42 Copynumber: 2.1 Consensus size: 42
711287 TAGCTCTCAA
* **
711297 AGAGAAAGAAGAGATAGGAGGGATGATAGGAGGAGAGATAGG
1 AGAGAAAGAAGAGATAGAAGGGATGATAAAAGGAGAGATAGG
* *
711339 AGAGATAGTAGAGATAGAAGGGATGATAAAAGGAGAGATAGG
1 AGAGAAAGAAGAGATAGAAGGGATGATAAAAGGAGAGATAGG
711381 AGA
1 AGA
711384 CAAAAGGGAT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.47, C:0.00, G:0.41, T:0.11
Consensus pattern (42 bp):
AGAGAAAGAAGAGATAGAAGGGATGATAAAAGGAGAGATAGG
Found at i:711777 original size:160 final size:158
Alignment explanation
Indices: 711552--712088 Score: 422
Period size: 160 Copynumber: 3.4 Consensus size: 158
711542 CAAGAAAACA
* * * * * *
711552 TTTTCTTTCTACAATTTTCCTTAGAATCAAAGGTCAT-TCATTAAATGAGACACACATGAATTCT
1 TTTTCTTTCCACCATTTTCCTTAGAATCAAAGTTCATCT-ATCAAATGAGACAAACATGGATTCT
* * ** * * *
711616 CATAATAATTTCC-ATTTTTTTTGTGATTAGGA-ACCGTAAATGCA-ATTTCT-TCATTAGGATA
65 CATAATAATCTCCAATCTTTTCAG-GATT-GGACACCATAAA--CACATCTCTGTCATAAGGATA
* * *
711677 CATGATATTGATGCTTT-TTTTAGAAGAAAAAAAAGC
126 CACGATATTAATGCTTTGTTTT----CAAAAAAAAGC
*
711713 TTTTCTTTCC-CCATGTTT-CTTAGAATCAAAGTTCATCTATCAAATGAGAGAAACATGGATTCT
1 TTTTCTTTCCACCAT-TTTCCTTAGAATCAAAGTTCATCTATCAAATGAGACAAACATGGATTCT
711776 CATAATAATCTCCAATCTTTTCAGGATTGGACACCATAAACACATCTCTGTCATAAGGATACACG
65 CATAATAATCTCCAATCTTTTCAGGATTGGACACCATAAACACATCTCTGTCATAAGGATACACG
* *
711841 ATATTAATGGTTTGGTTTTCTAAAAAAAGC
130 ATATTAATGCTTT-GTTTTCAAAAAAAAGC
* * ** * *
711871 TTTTCTTTCCACCATTTTCCTTGGAGTCAAAGTTCATCCCTCAAATAAGACAAACATGGATTCTT
1 TTTTCTTTCCACCATTTTCCTTAGAATCAAAGTTCATCTATCAAATGAGACAAACATGGATTCTC
* **** * * * * * *
711936 GTAATAATCTATGTTATTTTCATGATT-GA-ACCAT-AAGACGT-TCTCCTCAT-TGTGATACAC
66 ATAATAATCTCCAATCTTTTCAGGATTGGACACCATAAACACATCTCT-GTCATAAG-GATACAC
* * * *
711996 AATATTGATGCTTTGGTTTTGCTAATAAAAGC
129 GATATTAATGCTTT-GTTTT-CAAAAAAAAGC
* * * * *
712028 TTTT-TTT-GACCATTTT-CTTAGAATCAAAGTTCATCTTTTAAATAAGGCAAACATGGATTCT
1 TTTTCTTTCCACCATTTTCCTTAGAATCAAAGTTCATCTATCAAATGAGACAAACATGGATTCT
712089 TATTAACACA
Statistics
Matches: 315, Mismatches: 48, Indels: 33
0.80 0.12 0.08
Matches are distributed among these distances:
154 39 0.12
155 12 0.04
156 36 0.11
157 19 0.06
158 26 0.08
159 71 0.23
160 88 0.28
161 20 0.06
162 4 0.01
ACGTcount: A:0.32, C:0.17, G:0.13, T:0.38
Consensus pattern (158 bp):
TTTTCTTTCCACCATTTTCCTTAGAATCAAAGTTCATCTATCAAATGAGACAAACATGGATTCTC
ATAATAATCTCCAATCTTTTCAGGATTGGACACCATAAACACATCTCTGTCATAAGGATACACGA
TATTAATGCTTTGTTTTCAAAAAAAAGC
Found at i:711926 original size:159 final size:156
Alignment explanation
Indices: 711704--712088 Score: 431
Period size: 159 Copynumber: 2.5 Consensus size: 156
711694 TTTTAGAAGA
* *
711704 AAAAAAAGCTTTTCTTTCC-CCATGTTTCTTAGAATCAAAGTTCATCTATCAAATGAGAGAAACA
1 AAAAAAAGCTTTTCTTTCCACCAT-TTTCTTAGAATCAAAGTTCATCTATCAAATAAGACAAACA
* * *
711768 TGGATTCTCATAATAATCTCCAATCTTTTCAGGATTGGACACCATAAACACA-TCTCTGTCATAA
65 TGGATTCTCATAATAATCTACAATATTTTCAGGATT-GA-ACCAT-AACACATTCTC-CTCAT-A
* *
711832 G-GATACACGATATTAATGGTTTGGTTTT-CT
125 GTGATACACAATATTAATGCTTTGGTTTTGCT
* * **
711862 AAAAAAAGCTTTTCTTTCCACCATTTTCCTTGGAGTCAAAGTTCATCCCTCAAATAAGACAAACA
1 AAAAAAAGCTTTTCTTTCCACCATTTT-CTTAGAATCAAAGTTCATCTATCAAATAAGACAAACA
** *** * * * *
711927 TGGATTCTTGTAATAATCTATGTTATTTTCATGATTGAACCATAAGACGTTCTCCTCATTGTGAT
65 TGGATTCTCATAATAATCTACAATATTTTCAGGATTGAACCATAACACATTCTCCTCATAGTGAT
*
711992 ACACAATATTGATGCTTTGGTTTTGCT
130 ACACAATATTAATGCTTTGGTTTTGCT
* * * * *
712019 AATAAAAGCTTTT-TTT-GACCATTTTCTTAGAATCAAAGTTCATCTTTTAAATAAGGCAAACAT
1 AAAAAAAGCTTTTCTTTCCACCATTTTCTTAGAATCAAAGTTCATCTATCAAATAAGACAAACAT
712082 GGATTCT
66 GGATTCT
712089 TATTAACACA
Statistics
Matches: 193, Mismatches: 29, Indels: 14
0.82 0.12 0.06
Matches are distributed among these distances:
154 39 0.20
155 9 0.05
156 35 0.18
157 23 0.12
158 24 0.12
159 63 0.33
ACGTcount: A:0.32, C:0.18, G:0.13, T:0.36
Consensus pattern (156 bp):
AAAAAAAGCTTTTCTTTCCACCATTTTCTTAGAATCAAAGTTCATCTATCAAATAAGACAAACAT
GGATTCTCATAATAATCTACAATATTTTCAGGATTGAACCATAACACATTCTCCTCATAGTGATA
CACAATATTAATGCTTTGGTTTTGCT
Found at i:712365 original size:277 final size:277
Alignment explanation
Indices: 711871--712488 Score: 1150
Period size: 277 Copynumber: 2.2 Consensus size: 277
711861 TAAAAAAAGC
* * * *
711871 TTTTCTTTCCACCATTTTCCTT-GGAGTCAAAGTTCATCCCTCAAATAAGACAAACATGGATTCT
1 TTTTCTTTCTACCATTTTTCTTAGTATTC-AAGTTCATCCCTCAAATAAGACAAACATGGATTCT
711935 TGTAATAATCTATGTTATTTTCATGATTGAACCATAAGACGTTCTCCTCATTGTGATACACAATA
65 TGTAATAATCTATGTTATTTTCATGATTGAACCATAAGACGTTCTCCTCATTGTGATACACAATA
712000 TTGATGCTTTGGTTTTGCTAATAAAAGCTTTTTTTGACCATTTTCTTAGAATCAAAGTTCATCTT
130 TTGATGCTTTGGTTTTGCTAATAAAAGCTTTTTTTGACCATTTTCTTAGAATCAAAGTTCATCTT
712065 TTAAATAAGGCAAACATGGATTCTTATTAACACATTTTCCTTGTCGGATACATGACATTGCTGCT
195 TTAAATAAGGCAAACATGGATTCTTATTAACACATTTTCCTTGTCGGATACATGACATTGCTGCT
*
712130 TTCATTTCACGAGAAGTA
260 TTCATTTCAAGAGAAGTA
712148 TTTTCTTTCTACCATTTTTCTTAGTATTCAAGTTCATCCCTCAAATAAGACAAACATGGATTCTT
1 TTTTCTTTCTACCATTTTTCTTAGTATTCAAGTTCATCCCTCAAATAAGACAAACATGGATTCTT
712213 GTAATAATCTATGTTATTTTCATGATTGAACCATAAGACGTTCTCCTCATTGTGATACACAATAT
66 GTAATAATCTATGTTATTTTCATGATTGAACCATAAGACGTTCTCCTCATTGTGATACACAATAT
712278 TGATGCTTTGGTTTTGCTAATAAAAGCTTTTTTTGACCATTTTCTTAGAATCAAAGTTCATCTTT
131 TGATGCTTTGGTTTTGCTAATAAAAGCTTTTTTTGACCATTTTCTTAGAATCAAAGTTCATCTTT
712343 TAAATAAGGCAAACATGGATTCTTATTAACACATTTTCCTTGTCGGATACATGACATTGCTGCTT
196 TAAATAAGGCAAACATGGATTCTTATTAACACATTTTCCTTGTCGGATACATGACATTGCTGCTT
712408 TCATTTCAAGAGAAGTA
261 TCATTTCAAGAGAAGTA
*
712425 TTTTCTTTCTACCATTTTTCTTAGTATTCAAGTTCAT-CCTACAAATGAGACAAACATGGATTCT
1 TTTTCTTTCTACCATTTTTCTTAGTATTCAAGTTCATCCCT-CAAATAAGACAAACATGGATTCT
712489 CATAAGATTC
Statistics
Matches: 333, Mismatches: 6, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
276 3 0.01
277 326 0.98
278 4 0.01
ACGTcount: A:0.29, C:0.18, G:0.13, T:0.40
Consensus pattern (277 bp):
TTTTCTTTCTACCATTTTTCTTAGTATTCAAGTTCATCCCTCAAATAAGACAAACATGGATTCTT
GTAATAATCTATGTTATTTTCATGATTGAACCATAAGACGTTCTCCTCATTGTGATACACAATAT
TGATGCTTTGGTTTTGCTAATAAAAGCTTTTTTTGACCATTTTCTTAGAATCAAAGTTCATCTTT
TAAATAAGGCAAACATGGATTCTTATTAACACATTTTCCTTGTCGGATACATGACATTGCTGCTT
TCATTTCAAGAGAAGTA
Found at i:712582 original size:277 final size:277
Alignment explanation
Indices: 711871--712645 Score: 1024
Period size: 277 Copynumber: 2.8 Consensus size: 277
711861 TAAAAAAAGC
* * * *
711871 TTTTCTTTCCACCATTTTCCTT-GGAGTCAAAGTTCATCCCTCAAATAAGACAAACATGGATTCT
1 TTTTCTTTCTACCATTTTTCTTAGTATTC-AAGTTCATCCCTCAAATAAGACAAACATGGATTCT
** * * * * * ** * *
711935 TGTAATAATCTATGTTATTTTCATGATTGAACCATAAGACGTTCTCCTCATTGTGATACACAATA
65 CATAAGAATCTATATTATTTTCATGATGGAACAAAAAGACAATCTCCTAATTGGGATACACAATA
712000 TTGATGCTTTGGTTTTGCTAATAAAAGCTTTTTTTGACCATTTTCTTAGAATCAAAGTTCATCTT
130 TTGATGCTTTGGTTTTGCTAATAAAAGCTTTTTTTGACCATTTTCTTAGAATCAAAGTTCATCTT
712065 TTAAATAAGGCAAACATGGATTCTTATTAACACATTTTCCTTGTCGGATACATGACATTGCTGCT
195 TTAAATAAGGCAAACATGGATTCTTATTAACACATTTTCCTTGTCGGATACATGACATTGCTGCT
*
712130 TTCATTTCACGAGAAGTA
260 TTCATTTCAAGAGAAGTA
*
712148 TTTTCTTTCTACCATTTTTCTTAGTATTCAAGTTCATCCCTCAAATAAGACAAACATGGATTCTT
1 TTTTCTTTCTACCATTTTTCTTAGTATTCAAGTTCATCCCTCAAATAAGACAAACATGGATTCTC
* * * * * * ** * *
712213 GTAATAATCTATGTTATTTTCATGATTGAACCATAAGACGTTCTCCTCATTGTGATACACAATAT
66 ATAAGAATCTATATTATTTTCATGATGGAACAAAAAGACAATCTCCTAATTGGGATACACAATAT
712278 TGATGCTTTGGTTTTGCTAATAAAAGCTTTTTTTGACCATTTTCTTAGAATCAAAGTTCATCTTT
131 TGATGCTTTGGTTTTGCTAATAAAAGCTTTTTTTGACCATTTTCTTAGAATCAAAGTTCATCTTT
712343 TAAATAAGGCAAACATGGATTCTTATTAACACATTTTCCTTGTCGGATACATGACATTGCTGCTT
196 TAAATAAGGCAAACATGGATTCTTATTAACACATTTTCCTTGTCGGATACATGACATTGCTGCTT
712408 TCATTTCAAGAGAAGTA
261 TCATTTCAAGAGAAGTA
*
712425 TTTTCTTTCTACCATTTTTCTTAGTATTCAAGTTCAT-CCTACAAATGAGACAAACATGGATTCT
1 TTTTCTTTCTACCATTTTTCTTAGTATTCAAGTTCATCCCT-CAAATAAGACAAACATGGATTCT
* * * *
712489 CATAAGATTCTCA-ATT-TTTTCATGACTAGGCAACAAAAATACAATGTCC-AATTGGGATACAT
65 CATAAGAATCT-ATATTATTTTCATGA-T-GG-AACAAAAAGACAATCTCCTAATTGGGATACAC
* * * * * *
712551 GATATGGATCCTTTAGTTTTGC-AAGAAAAGCTTTTCTTT-CCCTTATTTTCCTTAGAATCAAAG
126 AATATTGATGCTTTGGTTTTGCTAATAAAAGCTTTT-TTTGACC--ATTTT-CTTAGAATCAAAG
** * * *
712614 TTCATCCATCAAATGAGACAAACATGGATTCT
187 TTCATCTTTTAAATAAGGCAAACATGGATTCT
712646 CAAAATAATA
Statistics
Matches: 456, Mismatches: 32, Indels: 17
0.90 0.06 0.03
Matches are distributed among these distances:
276 12 0.03
277 350 0.77
278 37 0.08
279 17 0.04
280 40 0.09
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (277 bp):
TTTTCTTTCTACCATTTTTCTTAGTATTCAAGTTCATCCCTCAAATAAGACAAACATGGATTCTC
ATAAGAATCTATATTATTTTCATGATGGAACAAAAAGACAATCTCCTAATTGGGATACACAATAT
TGATGCTTTGGTTTTGCTAATAAAAGCTTTTTTTGACCATTTTCTTAGAATCAAAGTTCATCTTT
TAAATAAGGCAAACATGGATTCTTATTAACACATTTTCCTTGTCGGATACATGACATTGCTGCTT
TCATTTCAAGAGAAGTA
Found at i:712762 original size:159 final size:155
Alignment explanation
Indices: 712387--712762 Score: 372
Period size: 157 Copynumber: 2.4 Consensus size: 155
712377 TTTCCTTGTC
* * *
712387 GGATACATGACATTGCTGCTTTCA-TTTCAAGAGAAGTATTTTCTTTCTACC-ATTTTT-CTTAG
1 GGATACATGACATTGATGCTTT-ATTTTCAAGAAAAGT-TTTTCTTTC--CCTTTTTTTCCTTAG
* * * *
712449 TATTCAAGTTCATCCTACAAATGAGACAAACATGGATTCTCATAAGATTCTCAATTTTTTCATGA
62 TAATCAAGTTCATCCTACAAATGAGACAAACATGGATTCTCAAAAGAATATCAATTTTTTCATGA
* *
712514 CTAGGCAACAAAAATACAATGTCCAATTG
127 CTAGGAAACAAAAATACAATGTCCAATTA
* * * * *
712543 GGATACATGATATGGATCCTTTAGTTTTGCAAGAAAAGCTTTTCTTTCCCTTATTTTCCTTAG-A
1 GGATACATGACATTGATGCTTTA-TTTT-CAAGAAAAGTTTTTCTTTCCCTTTTTTTCCTTAGTA
* *
712607 ATCAAAGTTCATCC-ATCAAATGAGACAAACATGGATTCTCAAAATAATATCCATTATTTTCATG
64 ATC-AAGTTCATCCTA-CAAATGAGACAAACATGGATTCTCAAAAGAATATCAATT-TTTTCATG
* * * *
712671 A-TTGGAAACCATAA-AC-ATGTTCCCGTCATTA
126 ACTAGGAAACAAAAATACAATG-T-CC--AATTA
*
712702 GGATGCATGACATTGATGCTTTGATTTTCCAAGAAAAGTTTTTCTTTCCCTTTTTTTCCTT
1 GGATACATGACATTGATGCTTT-ATTTT-CAAGAAAAGTTTTTCTTTCCCTTTTTTTCCTT
712763 TAGGTCAAAG
Statistics
Matches: 180, Mismatches: 27, Indels: 23
0.78 0.12 0.10
Matches are distributed among these distances:
155 6 0.03
156 29 0.16
157 72 0.40
158 17 0.09
159 55 0.31
160 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.13, T:0.38
Consensus pattern (155 bp):
GGATACATGACATTGATGCTTTATTTTCAAGAAAAGTTTTTCTTTCCCTTTTTTTCCTTAGTAAT
CAAGTTCATCCTACAAATGAGACAAACATGGATTCTCAAAAGAATATCAATTTTTTCATGACTAG
GAAACAAAAATACAATGTCCAATTA
Found at i:714600 original size:42 final size:42
Alignment explanation
Indices: 714544--714682 Score: 124
Period size: 42 Copynumber: 3.3 Consensus size: 42
714534 TAGCTCTCAA
*
714544 AGAGAAAGAAGAGATAAGAGGGATGATATGAA-GAGAGATAAG
1 AGAGATAGAAGAGATAAGAGGGATGATA-GAAGGAGAGATAAG
* * *
714586 AGAGATAGTAGAGAT-AGAAAGGATGATAGAAGGAGAGATATG
1 AGAGATAGAAGAGATAAG-AGGGATGATAGAAGGAGAGATAAG
* * * * *
714628 AGAGATA-ACAGAGAGAGGAGGGATGGTAGGAGGAGGAGAGAAG
1 AGAGATAGA-AGAGATAAGAGGGATGATAGAAGGA-GAGATAAG
*
714671 A-AGATGGAAGAG
1 AGAGATAGAAGAG
714683 TGAGAGAAAA
Statistics
Matches: 78, Mismatches: 13, Indels: 12
0.76 0.13 0.12
Matches are distributed among these distances:
41 5 0.06
42 64 0.82
43 9 0.12
ACGTcount: A:0.47, C:0.01, G:0.40, T:0.12
Consensus pattern (42 bp):
AGAGATAGAAGAGATAAGAGGGATGATAGAAGGAGAGATAAG
Found at i:726373 original size:28 final size:28
Alignment explanation
Indices: 726309--726378 Score: 95
Period size: 29 Copynumber: 2.5 Consensus size: 28
726299 AAAGATCAAG
* **
726309 GAAGCGAAATCAATAAAAAATATCAAGG
1 GAAGAGAAATCAATAAAAAATATCAAAA
*
726337 GAAAAAGAAATCAATAAAAAATATCAAAA
1 G-AAGAGAAATCAATAAAAAATATCAAAA
726366 GAAGAGAAATCAA
1 GAAGAGAAATCAA
726379 CAAGGAAGGG
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
28 12 0.33
29 24 0.67
ACGTcount: A:0.64, C:0.09, G:0.14, T:0.13
Consensus pattern (28 bp):
GAAGAGAAATCAATAAAAAATATCAAAA
Found at i:737550 original size:4 final size:4
Alignment explanation
Indices: 737541--737569 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
737531 TTTTAGCATT
737541 AATA AATA AATA AATA AATA AAT- AATA AA
1 AATA AATA AATA AATA AATA AATA AATA AA
737570 AACTTAATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
3 3 0.12
4 21 0.88
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AATA
Found at i:741791 original size:8 final size:8
Alignment explanation
Indices: 741770--741816 Score: 60
Period size: 8 Copynumber: 5.8 Consensus size: 8
741760 TTTGGCTTAT
741770 TTTTTTTC
1 TTTTTTTC
*
741778 TATTTTCTC
1 T-TTTTTTC
741787 TTTTTTTC
1 TTTTTTTC
741795 TTTTTTTC
1 TTTTTTTC
741803 TCTTTTTT-
1 T-TTTTTTC
741811 TTTTTT
1 TTTTTT
741817 ACTTGCCCAA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
7 5 0.14
8 17 0.49
9 13 0.37
ACGTcount: A:0.02, C:0.13, G:0.00, T:0.85
Consensus pattern (8 bp):
TTTTTTTC
Found at i:741792 original size:18 final size:19
Alignment explanation
Indices: 741769--741812 Score: 65
Period size: 17 Copynumber: 2.4 Consensus size: 19
741759 GTTTGGCTTA
741769 TTTTTTTTC-TATTTTCTC
1 TTTTTTTTCTTATTTTCTC
*
741787 -TTTTTTTCTTTTTTTCTC
1 TTTTTTTTCTTATTTTCTC
741805 TTTTTTTT
1 TTTTTTTT
741813 TTTTACTTGC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 8 0.35
18 8 0.35
19 7 0.30
ACGTcount: A:0.02, C:0.14, G:0.00, T:0.84
Consensus pattern (19 bp):
TTTTTTTTCTTATTTTCTC
Found at i:741793 original size:10 final size:10
Alignment explanation
Indices: 741780--741811 Score: 50
Period size: 9 Copynumber: 3.4 Consensus size: 10
741770 TTTTTTTCTA
741780 TTTTCTC-TT
1 TTTTCTCTTT
741789 TTTT-TCTTT
1 TTTTCTCTTT
741798 TTTTCTCTTT
1 TTTTCTCTTT
741808 TTTT
1 TTTT
741812 TTTTTACTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 2 0.10
9 10 0.48
10 9 0.43
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (10 bp):
TTTTCTCTTT
Found at i:741816 original size:18 final size:18
Alignment explanation
Indices: 741769--741816 Score: 69
Period size: 18 Copynumber: 2.7 Consensus size: 18
741759 GTTTGGCTTA
* *
741769 TTTTTTTTCTATTTTCTC
1 TTTTTTTTTTTTTTTCTC
*
741787 TTTTTTTCTTTTTTTCTC
1 TTTTTTTTTTTTTTTCTC
741805 TTTTTTTTTTTT
1 TTTTTTTTTTTT
741817 ACTTGCCCAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.02, C:0.12, G:0.00, T:0.85
Consensus pattern (18 bp):
TTTTTTTTTTTTTTTCTC
Found at i:742545 original size:156 final size:155
Alignment explanation
Indices: 742374--742653 Score: 357
Period size: 156 Copynumber: 1.8 Consensus size: 155
742364 AATGATAATA
* ** * *
742374 TTAGATGAATTTTAAAATTTTTAAACCAAGAAAAATCCCCTTGAAAACATTTACGGAATA-AAAA
1 TTAGATAAATTTTAAAAAATTTAAACCAAGAAAAATCCCATCGAAAACATTTACGGAATAGAAAA
* * *
742438 GCTT-GATTTTTTAGAAACATGAGAATTTCAAAGAAAAAATGAAAAACTTATGAAAATAAATGAA
66 --TTCGATTTTTTAGAAACAGGAGAATTTC-AAGAAAAAATAAAAAACTCATGAAAATAAATGAA
742502 TTTTTCAAAATTGCTTTAAAGCACAATG
128 TTTTTCAAAATTGCTTTAAAGCACAATG
* * * * *
742530 TTAGATAAATTTTAAAAAATTTGAATCGAGAAAAATCTCATCGAAAACATTTATGGAATAGAAAA
1 TTAGATAAATTTTAAAAAATTTAAACCAAGAAAAATCCCATCGAAAACATTTACGGAATAGAAAA
* * * * *
742595 TTCTATTTTTTAGAAATAGGGGCATTTCAAGGAAAAATAAAAAACTCATGAAAATAAAT
66 TTCGATTTTTTAGAAACAGGAGAATTTCAAGAAAAAATAAAAAACTCATGAAAATAAAT
742654 AAAAATTTCA
Statistics
Matches: 104, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
155 30 0.29
156 70 0.67
157 4 0.04
ACGTcount: A:0.48, C:0.09, G:0.12, T:0.30
Consensus pattern (155 bp):
TTAGATAAATTTTAAAAAATTTAAACCAAGAAAAATCCCATCGAAAACATTTACGGAATAGAAAA
TTCGATTTTTTAGAAACAGGAGAATTTCAAGAAAAAATAAAAAACTCATGAAAATAAATGAATTT
TTCAAAATTGCTTTAAAGCACAATG
Found at i:754985 original size:12 final size:11
Alignment explanation
Indices: 754966--755041 Score: 70
Period size: 12 Copynumber: 6.9 Consensus size: 11
754956 AAGAGAAGAA
754966 GAGATAGGAGG
1 GAGATAGGAGG
754977 GATGATAGGAGG
1 GA-GATAGGAGG
754989 AGAGATAGGA--
1 -GAGATAGGAGG
*
754999 GAGATAGTA--
1 GAGATAGGAGG
755008 GAGATAGGAGG
1 GAGATAGGAGG
*
755019 GATGATAGTAGG
1 GA-GATAGGAGG
755031 AGAGATAGGAG
1 -GAGATAGGAG
755042 AGATAATAGA
Statistics
Matches: 55, Mismatches: 4, Indels: 11
0.79 0.06 0.16
Matches are distributed among these distances:
9 16 0.29
11 4 0.07
12 31 0.56
13 4 0.07
ACGTcount: A:0.39, C:0.00, G:0.46, T:0.14
Consensus pattern (11 bp):
GAGATAGGAGG
Found at i:754996 original size:24 final size:23
Alignment explanation
Indices: 754965--755051 Score: 94
Period size: 24 Copynumber: 3.9 Consensus size: 23
754955 AAAGAGAAGA
754965 AGAGATAGGAGGGATGATAGGAGG
1 AGAGATAGGAGGGATGATA-GAGG
*
754989 AGAGATAGGA--GA-GAT--AGT
1 AGAGATAGGAGGGATGATAGAGG
755007 AGAGATAGGAGGGATGATAGTAGG
1 AGAGATAGGAGGGATGATAG-AGG
* *
755031 AGAGATAGGAGAGATAATAGA
1 AGAGATAGGAGGGATGATAGA
755052 AAGAGGAGGG
Statistics
Matches: 53, Mismatches: 4, Indels: 13
0.76 0.06 0.19
Matches are distributed among these distances:
18 12 0.23
20 2 0.04
21 6 0.11
22 2 0.04
23 1 0.02
24 30 0.57
ACGTcount: A:0.43, C:0.00, G:0.43, T:0.15
Consensus pattern (23 bp):
AGAGATAGGAGGGATGATAGAGG
Found at i:755000 original size:9 final size:9
Alignment explanation
Indices: 754986--755046 Score: 74
Period size: 9 Copynumber: 7.1 Consensus size: 9
754976 GGATGATAGG
754986 AGGAGAGAT
1 AGGAGAGAT
754995 AGGAGAGAT
1 AGGAGAGAT
*
755004 AGTAGAGAT
1 AGGAGAGAT
*
755013 AGGAGGGAT
1 AGGAGAGAT
*
755022 --GATAG-T
1 AGGAGAGAT
755028 AGGAGAGAT
1 AGGAGAGAT
755037 AGGAGAGAT
1 AGGAGAGAT
755046 A
1 A
755047 ATAGAAAGAG
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
6 1 0.02
7 3 0.07
8 4 0.09
9 35 0.81
ACGTcount: A:0.43, C:0.00, G:0.43, T:0.15
Consensus pattern (9 bp):
AGGAGAGAT
Found at i:755015 original size:42 final size:42
Alignment explanation
Indices: 754957--755074 Score: 175
Period size: 42 Copynumber: 2.8 Consensus size: 42
754947 TAGCCCTCAA
*
754957 AGAGA-AGAAGAGATAGGAGGGATGATAGGAGGAGAGATAGG
1 AGAGATAGTAGAGATAGGAGGGATGATAGGAGGAGAGATAGG
*
754998 AGAGATAGTAGAGATAGGAGGGATGATAGTAGGAGAGATAGG
1 AGAGATAGTAGAGATAGGAGGGATGATAGGAGGAGAGATAGG
* * * *
755040 AGAGATAATAGAAAGAGGAGGGATGACAGGAGGAG
1 AGAGATAGTAGAGATAGGAGGGATGATAGGAGGAG
755075 GAGAGAAGAA
Statistics
Matches: 69, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
41 5 0.07
42 64 0.93
ACGTcount: A:0.43, C:0.01, G:0.44, T:0.12
Consensus pattern (42 bp):
AGAGATAGTAGAGATAGGAGGGATGATAGGAGGAGAGATAGG
Found at i:763111 original size:30 final size:30
Alignment explanation
Indices: 763063--763184 Score: 84
Period size: 31 Copynumber: 3.8 Consensus size: 30
763053 CCAAACCTTT
* **
763063 TCAAAGTCTACAGGAGTT-GTGGCACCCCAG
1 TCAAAGTCCACACAAGTTCGTGGCACCCC-G
* * *
763093 TCAAAGTCCACATAAGTTGGTGGCTACCAAACCTTT
1 TCAAAGTCCACACAAGTTCGTGGC-ACC---CC--G
763129 TCAAAGTCCACACAAGTTCGTGGCACCCTCG
1 TCAAAGTCCACACAAGTTCGTGGCACCC-CG
* * *
763160 TCAAACTCCACACGAGTTGGTGGCA
1 TCAAAGTCCACACAAGTTCGTGGCA
763185 ACCTTTTCAA
Statistics
Matches: 74, Mismatches: 11, Indels: 13
0.76 0.11 0.13
Matches are distributed among these distances:
30 15 0.20
31 27 0.36
32 4 0.05
33 1 0.01
35 5 0.07
36 22 0.30
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (30 bp):
TCAAAGTCCACACAAGTTCGTGGCACCCCG
Found at i:763170 original size:67 final size:66
Alignment explanation
Indices: 763052--763183 Score: 185
Period size: 67 Copynumber: 2.0 Consensus size: 66
763042 CGCGATAGTA
* ** * *
763052 ACCAAACCTTTTCAAAGTCTACAGGAGTTGTGGCACCCCAGTCAAAGTCCACATAAGTTGGTGGC
1 ACCAAACCTTTTCAAAGTCCACACAAGTTGTGGCACCCCAGTCAAACTCCACACAAGTTGGTGGC
763117 T
66 T
*
763118 ACCAAACCTTTTCAAAGTCCACACAAGTTCGTGGCACCCTC-GTCAAACTCCACACGAGTTGGTG
1 ACCAAACCTTTTCAAAGTCCACACAAGTT-GTGGCACCC-CAGTCAAACTCCACACAAGTTGGTG
763182 GC
64 GC
763184 AACCTTTTCA
Statistics
Matches: 58, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
66 26 0.45
67 31 0.53
68 1 0.02
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.23
Consensus pattern (66 bp):
ACCAAACCTTTTCAAAGTCCACACAAGTTGTGGCACCCCAGTCAAACTCCACACAAGTTGGTGGC
T
Found at i:763195 original size:31 final size:31
Alignment explanation
Indices: 763122--763195 Score: 94
Period size: 31 Copynumber: 2.4 Consensus size: 31
763112 GTGGCTACCA
*
763122 AACCTTTTCAAAGTCCACACAAGTTCGTGGC
1 AACCTTTTCAAACTCCACACAAGTTCGTGGC
* ** * *
763153 ACCCTCGTCAAACTCCACACGAGTTGGTGGC
1 AACCTTTTCAAACTCCACACAAGTTCGTGGC
763184 AACCTTTTCAAA
1 AACCTTTTCAAA
763196 GCCCATAAGT
Statistics
Matches: 34, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.28, C:0.31, G:0.16, T:0.24
Consensus pattern (31 bp):
AACCTTTTCAAACTCCACACAAGTTCGTGGC
Found at i:763384 original size:29 final size:29
Alignment explanation
Indices: 763352--763420 Score: 93
Period size: 29 Copynumber: 2.4 Consensus size: 29
763342 CCTAAGTCAA
*
763352 TGGCACCCTTTCAAAAGTCCACAAGTTAG
1 TGGCACCCTTTCAAAAGCCCACAAGTTAG
* * **
763381 TGGCATCCTCTCCTAAGCCCACAAGTTAG
1 TGGCACCCTTTCAAAAGCCCACAAGTTAG
763410 TGGCACCCTTT
1 TGGCACCCTTT
763421 TCAGGCCCAC
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.25, C:0.32, G:0.17, T:0.26
Consensus pattern (29 bp):
TGGCACCCTTTCAAAAGCCCACAAGTTAG
Found at i:763624 original size:37 final size:37
Alignment explanation
Indices: 763546--763624 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 37
763536 AGTGGTACCT
* *
763546 AAGTCAAAGCCTACACAAGTTGGTGCAACCTAAGTCT
1 AAGTCAAAGCCTACACAAGCTGGTGCAACCTAAGTCA
* *
763583 AAGTCAAAGCCTGCACAAGCTGGTGGCAACC-ATGTCA
1 AAGTCAAAGCCTACACAAGCTGGT-GCAACCTAAGTCA
763620 AAGTC
1 AAGTC
763625 CACATTACTT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 31 0.84
38 6 0.16
ACGTcount: A:0.34, C:0.25, G:0.22, T:0.19
Consensus pattern (37 bp):
AAGTCAAAGCCTACACAAGCTGGTGCAACCTAAGTCA
Found at i:774320 original size:32 final size:31
Alignment explanation
Indices: 774244--774501 Score: 174
Period size: 32 Copynumber: 8.2 Consensus size: 31
774234 TGTGGGCTTG
**
774244 TGTGGGCTTAAGAAGAGGT-TGCCACCAAACTTG
1 TGTGGGCTTAAGAAGAGGTCT--CACC-AACTCA
* *
774277 TGTGGGTTTAAAAAGAGGTCATCACCAACTCA
1 TGTGGGCTTAAGAAGAGGTC-TCACCAACTCA
* * *
774309 TGTGGACTTAAAAAGA-G-C-CACCATCTCA
1 TGTGGGCTTAAGAAGAGGTCTCACCAACTCA
* *
774337 TGTGGGCTTTAAGAAGAGGT-TGCCATCAAATCA
1 TGTGGGC-TTAAGAAGAGGTCT--CACCAACTCA
* * *
774370 TGTGAGCTTAAAAAGGAGTTGC-CACCAACTC-
1 TGTGGGCTTAAGAA-GAGGT-CTCACCAACTCA
* * *
774401 TGTGGGCCTAAGAAGAGGT-TGCGACTAACTCG
1 TGTGGGCTTAAGAAGAGGTCT-C-ACCAACTCA
774433 TGTGGGCTTAAGAAGAGGT-TGCCACCAACTCA
1 TGTGGGCTTAAGAAGAGGTCT--CACCAACTCA
* *
774465 TGTGGGCTTAAGACGAGGTTGTCACCAACTCA
1 TGTGGGCTTAAGAAGAGG-TCTCACCAACTCA
774497 TGTGG
1 TGTGG
774502 ACTTTAAGTG
Statistics
Matches: 180, Mismatches: 27, Indels: 37
0.74 0.11 0.15
Matches are distributed among these distances:
28 15 0.08
29 8 0.04
30 7 0.04
31 19 0.11
32 89 0.49
33 40 0.22
34 1 0.01
35 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (31 bp):
TGTGGGCTTAAGAAGAGGTCTCACCAACTCA
Found at i:774442 original size:63 final size:64
Alignment explanation
Indices: 774244--774500 Score: 215
Period size: 63 Copynumber: 4.1 Consensus size: 64
774234 TGTGGGCTTG
* * ** * * *** * *
774244 TGTGGGCTTAAGAAGAGGTTGCCACCAAACTTGTGTGGGTTTAAAAAGAGGTCATCACCAACTCA
1 TGTGAGCTTAAAAAGAGGTTGCCACC-AACTCATGTGGGCTTAAGAAGAGGTTGCCATCAAATCA
*
774309 TGTG-GACTTAAAAAGA----GCCACCATCTCATGTGGGCTTTAAGAAGAGGTTGCCATCAAATC
1 TGTGAG-CTTAAAAAGAGGTTGCCACCAACTCATGTGGGC-TTAAGAAGAGGTTGCCATCAAATC
774369 A
64 A
* * *
774370 TGTGAGCTTAAAAAG-GAGTTGCCACCAACTC-TGTGGGCCTAAGAAGAGGTTGCGA-CTAACTC
1 TGTGAGCTTAAAAAGAG-GTTGCCACCAACTCATGTGGGCTTAAGAAGAGGTTGCCATC-AAATC
*
774432 G
64 A
* * * * * *
774433 TGTGGGCTTAAGAAGAGGTTGCCACCAACTCATGTGGGCTTAAGACGAGGTTGTCACCAACTCA
1 TGTGAGCTTAAAAAGAGGTTGCCACCAACTCATGTGGGCTTAAGAAGAGGTTGCCATCAAATCA
774497 TGTG
1 TGTG
774501 GACTTTAAGT
Statistics
Matches: 157, Mismatches: 23, Indels: 25
0.77 0.11 0.12
Matches are distributed among these distances:
60 9 0.06
61 38 0.24
62 2 0.01
63 46 0.29
64 38 0.24
65 24 0.15
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (64 bp):
TGTGAGCTTAAAAAGAGGTTGCCACCAACTCATGTGGGCTTAAGAAGAGGTTGCCATCAAATCA
Found at i:775615 original size:164 final size:165
Alignment explanation
Indices: 775391--775755 Score: 416
Period size: 165 Copynumber: 2.2 Consensus size: 165
775381 TTCAAACATC
* * * * * * * **
775391 AAAATTCCTTAAATATTATTTTTTAA-TCACCATTAAATCAGTTTTCAAAGATTCATTCATTTTC
1 AAAATTCATCAAATATTATTATTTAATTCA-TATTAAATCAATTTTCAAAAATTAATTCATTACC
* ** *
775455 ATTCA-TTTTT-TATTTTTTCTTGAAATC-CTCCTATTTTCGAAATACG-TAGTTTTTTACTTCG
65 A-TCAGTTTTTGAATTTTTAATTGAAATCTCT-CTATTTTCGAAATACGTTA-TTTTCTACTTCG
* ** **
775516 TAATTTTTTTGGGGGGATTTTTCTTGGTTTTTATTTTTT
127 TAATTTCTTCAGGGGGATTTTTCTTAATTTTTATTTTTT
*
775555 AAAATTCATCAAATATTATTATTTAATTCATATTAAATCAATTTTTAAAAATTAATTCATTACCA
1 AAAATTCATCAAATATTATTATTTAATTCATATTAAATCAATTTTCAAAAATTAATTCATTACCA
* * * *
775620 TGAGTTTTTGAATTTTTAATTGAAATTTCTCTTTTTTCGAAATACGTTATTTTCTACTTCTTAAT
66 TCAGTTTTTGAATTTTTAATTGAAATCTCTCTATTTTCGAAATACGTTATTTTCTACTTCGTAAT
775685 TTCTTCAGGGGGATTTTTCTTAATTTTTATTTTTT
131 TTCTTCAGGGGGATTTTTCTTAATTTTTATTTTTT
* * * *
775720 AATATTCATCAATTATTATTATTTAGTTCATGTTAA
1 AAAATTCATCAAATATTATTATTTAATTCATATTAA
775756 TTTAGTTTGA
Statistics
Matches: 169, Mismatches: 27, Indels: 9
0.82 0.13 0.04
Matches are distributed among these distances:
163 2 0.01
164 56 0.33
165 107 0.63
166 4 0.02
ACGTcount: A:0.28, C:0.11, G:0.08, T:0.53
Consensus pattern (165 bp):
AAAATTCATCAAATATTATTATTTAATTCATATTAAATCAATTTTCAAAAATTAATTCATTACCA
TCAGTTTTTGAATTTTTAATTGAAATCTCTCTATTTTCGAAATACGTTATTTTCTACTTCGTAAT
TTCTTCAGGGGGATTTTTCTTAATTTTTATTTTTT
Found at i:775803 original size:165 final size:165
Alignment explanation
Indices: 775488--775800 Score: 396
Period size: 165 Copynumber: 1.9 Consensus size: 165
775478 AATCCTCCTA
* * ** **
775488 TTTTCGAAATACGTAGTTTTTTACTTCGTAATTTTTTTGGGGGGATTTTTCTTGGTTTTTATTTT
1 TTTTCGAAATACGTAGTTTTCTACTTCGTAATTTCTTCAGGGGGATTTTTCTTAATTTTTATTTT
* *
775553 TTAAAATTCATCAAATATTATTATTTAATTCATATTAAATCAATTTTTAAAAATTAATTCATTAC
66 TTAAAATTCATCAAATATTATTATTTAATTCATATTAAATCAAGTTTGAAAAATTAATTCATTAC
**
775618 CATGAGTTTTTGAATTTTTAATTGAAATTTCTCTT
131 CATGAGTTTCAGAATTTTTAATTGAAATTTCTCTT
*
775653 TTTTCGAAATACGTTA-TTTTCTACTTCTTAATTTCTTCAGGGGGATTTTTCTTAATTTTTATTT
1 TTTTCGAAATACG-TAGTTTTCTACTTCGTAATTTCTTCAGGGGGATTTTTCTTAATTTTTATTT
* * * * ** ** * *
775717 TTTAATATTCATCAATTATTATTATTTAGTTCATGTT-AATTTAGTTTGAAATTTTAATTTATTT
65 TTTAAAATTCATCAAATATTATTATTTAATTCATATTAAATCAAGTTTGAAAAATTAATTCATTA
* *
775781 TCATGAGTTTCAGATTTTTT
130 CCATGAGTTTCAGAATTTTT
775801 TAAATTCCCA
Statistics
Matches: 124, Mismatches: 23, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
164 35 0.28
165 87 0.70
166 2 0.02
ACGTcount: A:0.27, C:0.09, G:0.10, T:0.55
Consensus pattern (165 bp):
TTTTCGAAATACGTAGTTTTCTACTTCGTAATTTCTTCAGGGGGATTTTTCTTAATTTTTATTTT
TTAAAATTCATCAAATATTATTATTTAATTCATATTAAATCAAGTTTGAAAAATTAATTCATTAC
CATGAGTTTCAGAATTTTTAATTGAAATTTCTCTT
Found at i:776442 original size:10 final size:10
Alignment explanation
Indices: 776429--776467 Score: 62
Period size: 10 Copynumber: 3.9 Consensus size: 10
776419 ACTTGGAGAA
776429 AAAAAGAAAG
1 AAAAAGAAAG
776439 AAAAAGAAAG
1 AAAAAGAAAG
776449 AAAAAGAAA-
1 AAAAAGAAAG
776458 AAAATAGAAA
1 AAAA-AGAAA
776468 AAGTAGAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
9 4 0.14
10 24 0.86
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (10 bp):
AAAAAGAAAG
Found at i:776477 original size:16 final size:16
Alignment explanation
Indices: 776435--776470 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
776425 AGAAAAAAAG
776435 AAAGAAAAAGAA-AGAA
1 AAAGAAAAA-AATAGAA
776451 AAAGAAAAAAATAGAA
1 AAAGAAAAAAATAGAA
776467 AAAG
1 AAAG
776471 TAGAAAAATG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 2 0.11
16 17 0.89
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.03
Consensus pattern (16 bp):
AAAGAAAAAAATAGAA
Found at i:782158 original size:13 final size:13
Alignment explanation
Indices: 782140--782164 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
782130 CATTTTATGG
782140 TGTATCGATACAA
1 TGTATCGATACAA
782153 TGTATCGATACA
1 TGTATCGATACA
782165 TACTGTGTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:782180 original size:32 final size:33
Alignment explanation
Indices: 782116--782184 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
782106 CCGTTACAAG
**
782116 ACAATGTATCGATACATTTTATGGTGTATCGAT
1 ACAATGTATCGATACATACTATGGTGTATCGAT
*
782149 ACAATGTATCGATACATACTGT-GTGTATCGAT
1 ACAATGTATCGATACATACTATGGTGTATCGAT
782181 ACAA
1 ACAA
782185 GTTTGGTTAC
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 14 0.42
33 19 0.58
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.35
Consensus pattern (33 bp):
ACAATGTATCGATACATACTATGGTGTATCGAT
Found at i:784232 original size:20 final size:22
Alignment explanation
Indices: 784193--784237 Score: 67
Period size: 20 Copynumber: 2.1 Consensus size: 22
784183 GCTGCTAGTG
*
784193 TGGGGGCTGCCCGGTTGCGACC
1 TGGGGGCTGCCCGGTCGCGACC
784215 TGGGGG-TG-CCGGTCGCGACC
1 TGGGGGCTGCCCGGTCGCGACC
784235 TGG
1 TGG
784238 TGAGTGCTGC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 14 0.64
21 2 0.09
22 6 0.27
ACGTcount: A:0.04, C:0.29, G:0.49, T:0.18
Consensus pattern (22 bp):
TGGGGGCTGCCCGGTCGCGACC
Found at i:784696 original size:13 final size:13
Alignment explanation
Indices: 784678--784768 Score: 155
Period size: 13 Copynumber: 7.0 Consensus size: 13
784668 ATAATCCCCC
*
784678 TGTATCGATACAG
1 TGTATCGATACAA
784691 TGTATCGATACAA
1 TGTATCGATACAA
*
784704 TGTATCGATACAG
1 TGTATCGATACAA
784717 TGTATCGATACAA
1 TGTATCGATACAA
*
784730 TGTATCGATACAG
1 TGTATCGATACAA
784743 TGTATCGATACAA
1 TGTATCGATACAA
784756 TGTATCGATACAA
1 TGTATCGATACAA
784769 AGAATGCTAT
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 73 1.00
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:784707 original size:26 final size:26
Alignment explanation
Indices: 784678--784767 Score: 180
Period size: 26 Copynumber: 3.5 Consensus size: 26
784668 ATAATCCCCC
784678 TGTATCGATACAGTGTATCGATACAA
1 TGTATCGATACAGTGTATCGATACAA
784704 TGTATCGATACAGTGTATCGATACAA
1 TGTATCGATACAGTGTATCGATACAA
784730 TGTATCGATACAGTGTATCGATACAA
1 TGTATCGATACAGTGTATCGATACAA
784756 TGTATCGATACA
1 TGTATCGATACA
784768 AAGAATGCTA
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 64 1.00
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.31
Consensus pattern (26 bp):
TGTATCGATACAGTGTATCGATACAA
Found at i:789330 original size:9 final size:9
Alignment explanation
Indices: 789316--789346 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
789306 TCTGAGTCAC
*
789316 CATCATCAT
1 CATCATCTT
789325 CATCATCTT
1 CATCATCTT
789334 CATCATCTT
1 CATCATCTT
789343 CATC
1 CATC
789347 GTCCTTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.26, C:0.35, G:0.00, T:0.39
Consensus pattern (9 bp):
CATCATCTT
Found at i:790971 original size:13 final size:13
Alignment explanation
Indices: 790953--790977 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
790943 CATTTTATGG
790953 TGTATCGATACAA
1 TGTATCGATACAA
790966 TGTATCGATACA
1 TGTATCGATACA
790978 TACTGTGTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:790993 original size:32 final size:33
Alignment explanation
Indices: 790930--790997 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
790920 CGTTACAAGC
**
790930 CAATGTATCGATACATTTTATGGTGTATCGATA
1 CAATGTATCGATACATACTATGGTGTATCGATA
*
790963 CAATGTATCGATACATACTGT-GTGTATCGATA
1 CAATGTATCGATACATACTATGGTGTATCGATA
790995 CAA
1 CAA
790998 GTTTGGCTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 14 0.44
33 18 0.56
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.35
Consensus pattern (33 bp):
CAATGTATCGATACATACTATGGTGTATCGATA
Found at i:792048 original size:16 final size:16
Alignment explanation
Indices: 792029--792070 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
792019 GGAAAAGTGC
* *
792029 AAAAAAGAGAAAAATG
1 AAAAAAGAAAAAAAAG
792045 AAAAAAGAAAAAAAAG
1 AAAAAAGAAAAAAAAG
*
792061 AAAAATGAAA
1 AAAAAAGAAA
792071 GAAGATAAGG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.81, C:0.00, G:0.14, T:0.05
Consensus pattern (16 bp):
AAAAAAGAAAAAAAAG
Found at i:793207 original size:88 final size:86
Alignment explanation
Indices: 793088--793250 Score: 193
Period size: 88 Copynumber: 1.8 Consensus size: 86
793078 ATCGTTTCAT
* * * * *
793088 ATGCATTTGTATTATCTCACTTGCATCTGCATTTTAGATGATAG-TGGTATTTGCATCATTGCAT
1 ATGCATTTGTATCATCTCACATGCATCTGCA-TTCAG--GATAGATGGCATTTGCATCATTGAAT
793152 ATGCATTTGCCCTTTTGTTGATGC
63 ATGCATTTGCCCTTTTGTTGATGC
* * * *
793176 ATGCATTTGTATCATTTTACATGCATTTGCATTCAGGATAGCATTGGCATTTGCATCATTTAATA
1 ATGCATTTGTATCATCTCACATGCATCTGCATTCAGGATAG-A-TGGCATTTGCATCATTGAATA
793241 TGCATTTGCC
64 TGCATTTGCC
793251 ACTATACTGA
Statistics
Matches: 63, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
85 5 0.08
87 4 0.06
88 54 0.86
ACGTcount: A:0.23, C:0.17, G:0.17, T:0.43
Consensus pattern (86 bp):
ATGCATTTGTATCATCTCACATGCATCTGCATTCAGGATAGATGGCATTTGCATCATTGAATATG
CATTTGCCCTTTTGTTGATGC
Found at i:794416 original size:42 final size:42
Alignment explanation
Indices: 794371--794739 Score: 304
Period size: 42 Copynumber: 8.8 Consensus size: 42
794361 TGCCCATCAG
* * * *
794371 CTTTAACCTTGGAGACTCTTTCACCCTTTGTCTACCTGTCGG
1 CTTTGACCTTGGAGACTCCTTCACCCTTTGTCTACCCGTCGA
* * *
794413 CTTTGACC-TGAGAGACTCC-TCTACCCTTTGTCTTCTCGTTGA
1 CTTTGACCTTG-GAGACTCCTTC-ACCCTTTGTCTACCCGTCGA
* * * *
794455 CTTTGAGCC-TGGAGACTCCTTCACCCTTTGTTTGCCCATTGA
1 CTTTGA-CCTTGGAGACTCCTTCACCCTTTGTCTACCCGTCGA
* * * *
794497 CTTTGACCTAGGAGGCTCCTTCACCCTTTGTCTGCCCGT-TA
1 CTTTGACCTTGGAGACTCCTTCACCCTTTGTCTACCCGTCGA
* ** * *
794538 GCTTTAACCCGGGAGACTCCTTTACCCTTTCTCTACCCGTCGA
1 -CTTTGACCTTGGAGACTCCTTCACCCTTTGTCTACCCGTCGA
* *
794581 CTTTGA-CTTGGGAGACTCCTTCACCCTTCGTCTACCCATCGA
1 CTTTGACCTT-GGAGACTCCTTCACCCTTTGTCTACCCGTCGA
* * * *
794623 CTTTGA-CTTGGGAGACTCCTTCACCCTTTATCTGCCTGTCGG
1 CTTTGACCTT-GGAGACTCCTTCACCCTTTGTCTACCCGTCGA
* * * * *
794665 CTTTGA-CTCGAGTGACTTCTTCACCCTTTGTCTACCCATCGG
1 CTTTGACCTTG-GAGACTCCTTCACCCTTTGTCTACCCGTCGA
* * *
794707 TTTTGACC-CGAGAGACTCCTTCACACTTTGTCT
1 CTTTGACCTTG-GAGACTCCTTCACCCTTTGTCT
794740 GCTTGTCAGC
Statistics
Matches: 269, Mismatches: 48, Indels: 20
0.80 0.14 0.06
Matches are distributed among these distances:
41 9 0.03
42 252 0.94
43 8 0.03
ACGTcount: A:0.15, C:0.33, G:0.18, T:0.35
Consensus pattern (42 bp):
CTTTGACCTTGGAGACTCCTTCACCCTTTGTCTACCCGTCGA
Found at i:794489 original size:126 final size:125
Alignment explanation
Indices: 794351--794737 Score: 413
Period size: 126 Copynumber: 3.1 Consensus size: 125
794341 AGACTTTTTT
* * * *
794351 ACCCTTTTTTTGCCCATC-AGCTTTAACCTTGGAGACTCTTTCACCCTTTGTCTACCTGTCGGCT
1 ACCCTTTGTTTGCCCATCGA-CTTTGACCTTGGAGACTCCTTCACCCTTTGTCTGCCTGTCGGCT
* * *
794415 TTGACCTGAGAGACTCCTCTACCCTTTGTCTTCTCGTTGACTTTGAGCCT-GGAGACTCCTTC
65 TTGACCTGAGAGACTCCT-TACCCTTTGTCTACCCGTCGACTTTGA-CCTGGGAGACTCCTTC
* * * * **
794477 ACCCTTTGTTTGCCCATTGACTTTGACCTAGGAGGCTCCTTCACCCTTTGTCTGCCCGTTAGCTT
1 ACCCTTTGTTTGCCCATCGACTTTGACCTTGGAGACTCCTTCACCCTTTGTCTGCCTGTCGGCTT
* * * * *
794542 TAACCCGGGAGACTCCTTTACCCTTTCTCTACCCGTCGACTTTGACTTGGGAGACTCCTTC
66 TGACCTGAGAGACTCC-TTACCCTTTGTCTACCCGTCGACTTTGACCTGGGAGACTCCTTC
* * * *
794603 ACCCTTCGTCTACCCATCGACTTTGA-CTTGGGAGACTCCTTCACCCTTTATCTGCCTGTCGGCT
1 ACCCTTTGTTTGCCCATCGACTTTGACCTT-GGAGACTCCTTCACCCTTTGTCTGCCTGTCGGCT
* * * ** * *
794667 TTGA-CTCGAGTGACTTCTTCACCCTTTGTCTACCCATCGGTTTTGACCCGAGAGACTCCTTC
65 TTGACCT-GAGAGACTCCTT-ACCCTTTGTCTACCCGTCGACTTTGACCTGGGAGACTCCTTC
*
794729 ACACTTTGT
1 ACCCTTTGT
794738 CTGCTTGTCA
Statistics
Matches: 213, Mismatches: 42, Indels: 12
0.80 0.16 0.04
Matches are distributed among these distances:
125 7 0.03
126 204 0.96
127 2 0.01
ACGTcount: A:0.15, C:0.33, G:0.17, T:0.35
Consensus pattern (125 bp):
ACCCTTTGTTTGCCCATCGACTTTGACCTTGGAGACTCCTTCACCCTTTGTCTGCCTGTCGGCTT
TGACCTGAGAGACTCCTTACCCTTTGTCTACCCGTCGACTTTGACCTGGGAGACTCCTTC
Found at i:794741 original size:84 final size:84
Alignment explanation
Indices: 794337--794769 Score: 327
Period size: 84 Copynumber: 5.2 Consensus size: 84
794327 ATTTCAGACC
* * * * * * ** *
794337 CGAGAGACTTTTTTACCCTTTTTTTGCCCATC-AGCTTTAACCTTGGAGACTCTTTCACCCTTTG
1 CGAGAGACTTCTTCACCCTTTGTCTACCCATCGA-CTTTGACCCGGGAGACTCCTTCACCCTTTG
*
794401 TCTACCTGTCGGCTTTGAC-
65 TCTGCCTGTCGGCTTTGACT
* * * * * * *
794420 CTGAGAGAC-TCCTCTACCCTTTGTCTTCTCGTTGACTTTGAGCCTGGAGACTCCTTCACCCTTT
1 C-GAGAGACTTCTTC-ACCCTTTGTCTACCCATCGACTTTGACCCGGGAGACTCCTTCACCCTTT
* ** * *
794484 GTTTGCCCATTGACTTTGAC-
64 GTCTGCCTGTCGGCTTTGACT
* * * * * * * *
794504 CTAGGAGGCTCCTTCACCCTTTGTCTGCCCGT-TAGCTTTAACCCGGGAGACTCCTTTACCCTTT
1 CGA-GAGACTTCTTCACCCTTTGTCTACCCATCGA-CTTTGACCCGGGAGACTCCTTCACCCTTT
* * * *
794568 CTCTACCCGTCGACTTTGACT
64 GTCTGCCTGTCGGCTTTGACT
* * * * ** *
794589 TGGGAGACTCCTTCACCCTTCGTCTACCCATCGACTTTGACTTGGGAGACTCCTTCACCCTTTAT
1 CGAGAGACTTCTTCACCCTTTGTCTACCCATCGACTTTGACCCGGGAGACTCCTTCACCCTTTGT
794654 CTGCCTGTCGGCTTTGACT
66 CTGCCTGTCGGCTTTGACT
* ** * *
794673 CGAGTGACTTCTTCACCCTTTGTCTACCCATCGGTTTTGACCCGAGAGACTCCTTCACACTTTGT
1 CGAGAGACTTCTTCACCCTTTGTCTACCCATCGACTTTGACCCGGGAGACTCCTTCACCCTTTGT
* * **
794738 CTGCTTGTCAGCTTAAACT
66 CTGCCTGTCGGCTTTGACT
*
794757 CGAGAGACCTCTT
1 CGAGAGACTTCTT
794770 TTATTTTTTG
Statistics
Matches: 273, Mismatches: 69, Indels: 15
0.76 0.19 0.04
Matches are distributed among these distances:
83 5 0.02
84 263 0.96
85 5 0.02
ACGTcount: A:0.15, C:0.32, G:0.18, T:0.35
Consensus pattern (84 bp):
CGAGAGACTTCTTCACCCTTTGTCTACCCATCGACTTTGACCCGGGAGACTCCTTCACCCTTTGT
CTGCCTGTCGGCTTTGACT
Found at i:794783 original size:43 final size:43
Alignment explanation
Indices: 794733--794863 Score: 111
Period size: 43 Copynumber: 3.0 Consensus size: 43
794723 TCCTTCACAC
*
794733 TTTGTCTGCTTGTCAGCTTAAACTCGAGAGACCTCTTTTATTT
1 TTTGTCTGCTTGTCAGCTTAAACTCGAGAGACCTCTTTTATCT
*** ** * *
794776 TTTGTCTGCCCATTGGCTTAGACTCGGGAGACCTCTTTTATCT
1 TTTGTCTGCTTGTCAGCTTAAACTCGAGAGACCTCTTTTATCT
** * * * **
794819 TTCATCTGCTTGTC-GACTTAGACCCGAGAAACCTCCCTTATCT
1 TTTGTCTGCTTGTCAG-CTTAAACTCGAGAGACCTCTTTTATCT
794862 TT
1 TT
794864 CCTTTGCCCA
Statistics
Matches: 68, Mismatches: 19, Indels: 2
0.76 0.21 0.02
Matches are distributed among these distances:
42 1 0.01
43 67 0.99
ACGTcount: A:0.18, C:0.26, G:0.17, T:0.40
Consensus pattern (43 bp):
TTTGTCTGCTTGTCAGCTTAAACTCGAGAGACCTCTTTTATCT
Found at i:794853 original size:86 final size:86
Alignment explanation
Indices: 794737--795010 Score: 228
Period size: 86 Copynumber: 3.2 Consensus size: 86
794727 TCACACTTTG
* * ** * ** *
794737 TCTGCTTGTCAGCTTAAACTCGAGAGACCTCTTTTATTTTTTGTCTGCCCATTGGCTTAGACTCG
1 TCTGCTTGTCAGCTTAAACCCGAGAAACCTCCCTTATCTTTCCTCTGCCCATCGGCTTAGACTCG
*
794802 GGAGACCTCTTTTATCTTTCA
66 GAAGACCTCTTTTATCTTTCA
* * *
794823 TCTGCTTGTC-GACTTAGACCCGAGAAACCTCCCTTATCTTTCCTTTGCCCATCGGTTTAGACTC
1 TCTGCTTGTCAG-CTTAAACCCGAGAAACCTCCCTTATCTTTCCTCTGCCCATCGGCTTAGACTC
*
794887 GGAAGACCTCTTTTATCTTTCG
65 GGAAGACCTCTTTTATCTTTCA
*** * * * * ** * * * * *
794909 TCTGCCCATTAGCTTAGACCCAAGAGACCTCTTTTACCTTTCATCTACCCATCGACTTTGAC-CT
1 TCTGCTTGTCAGCTTAAACCCGAGAAACCTCCCTTATCTTTCCTCTGCCCATCGGCTTAGACTC-
* * *
794973 GGGAGACTTCTTTTATCTTTTA
65 GGAAGACCTCTTTTATCTTTCA
* *
794995 TCTGCCTGTTAGCTTA
1 TCTGCTTGTCAGCTTA
795011 GAAAGGGTTG
Statistics
Matches: 151, Mismatches: 34, Indels: 6
0.79 0.18 0.03
Matches are distributed among these distances:
85 2 0.01
86 148 0.98
87 1 0.01
ACGTcount: A:0.18, C:0.28, G:0.16, T:0.38
Consensus pattern (86 bp):
TCTGCTTGTCAGCTTAAACCCGAGAAACCTCCCTTATCTTTCCTCTGCCCATCGGCTTAGACTCG
GAAGACCTCTTTTATCTTTCA
Found at i:794926 original size:43 final size:43
Alignment explanation
Indices: 794747--795012 Score: 168
Period size: 43 Copynumber: 6.2 Consensus size: 43
794737 TCTGCTTGTC
* * **
794747 AGCTTAAACTC-GAGAGACCTCTTTTATTTTTTGTCTGCCCATT
1 AGCTTAGACTCGGA-AGACCTCTTTTATCTTTCATCTGCCCATT
* * *
794790 GGCTTAGACTCGGGAGACCTCTTTTATCTTTCATCTG--CTTGT
1 AGCTTAGACTCGGAAGACCTCTTTTATCTTTCATCTGCCCAT-T
* * ** * * *
794832 CGACTTAGACCCGAGAA-ACCTCCCTTATCTTTCCTTTGCCCATC
1 AG-CTTAGACTCG-GAAGACCTCTTTTATCTTTCATCTGCCCATT
* * *
794876 GGTTTAGACTCGGAAGACCTCTTTTATCTTTCGTCTGCCCATT
1 AGCTTAGACTCGGAAGACCTCTTTTATCTTTCATCTGCCCATT
** * *
794919 AGCTTAGAC-CCAAGAGACCTCTTTTACCTTTCATCTACCCA-T
1 AGCTTAGACTCGGA-AGACCTCTTTTATCTTTCATCTGCCCATT
* * * * * **
794961 CGACTTTGAC-CTGGGAGACTTCTTTTATCTTTTATCTGCCTGTT
1 AG-CTTAGACTC-GGAAGACCTCTTTTATCTTTCATCTGCCCATT
795005 AGCTTAGA
1 AGCTTAGA
795013 AAGGGTTGCC
Statistics
Matches: 168, Mismatches: 44, Indels: 22
0.72 0.19 0.09
Matches are distributed among these distances:
41 2 0.01
42 9 0.05
43 149 0.89
44 6 0.04
45 2 0.01
ACGTcount: A:0.19, C:0.27, G:0.16, T:0.38
Consensus pattern (43 bp):
AGCTTAGACTCGGAAGACCTCTTTTATCTTTCATCTGCCCATT
Found at i:795011 original size:86 final size:86
Alignment explanation
Indices: 794793--795012 Score: 239
Period size: 86 Copynumber: 2.6 Consensus size: 86
794783 GCCCATTGGC
* * *
794793 TTAGACTCGGGAGACCTCTTTTATCTTTCATCTGCTTG-TCGACTTAGACCCGAGAAACCTCCCT
1 TTAGACTCGGGAGACCTCTTTTATCTTTCATCTGCCTGTTAG-CTTAGACCCAAGAAACCTCCCT
* * * * *
794857 TATCTTTCCTTTGCCCATCGGT
65 TACCTTTCATCTACCCATCGCT
* * ** * **
794879 TTAGACTCGGAAGACCTCTTTTATCTTTCGTCTGCCCATTAGCTTAGACCCAAGAGACCTCTTTT
1 TTAGACTCGGGAGACCTCTTTTATCTTTCATCTGCCTGTTAGCTTAGACCCAAGAAACCTCCCTT
794944 ACCTTTCATCTACCCATCGACT
66 ACCTTTCATCTACCCATCG-CT
* *
794966 TT-GAC-CTGGGAGACTTCTTTTATCTTTTATCTGCCTGTTAGCTTAGA
1 TTAGACTC-GGGAGACCTCTTTTATCTTTCATCTGCCTGTTAGCTTAGA
795013 AAGGGTTGCC
Statistics
Matches: 110, Mismatches: 21, Indels: 6
0.80 0.15 0.04
Matches are distributed among these distances:
85 1 0.01
86 104 0.95
87 5 0.05
ACGTcount: A:0.19, C:0.28, G:0.15, T:0.37
Consensus pattern (86 bp):
TTAGACTCGGGAGACCTCTTTTATCTTTCATCTGCCTGTTAGCTTAGACCCAAGAAACCTCCCTT
ACCTTTCATCTACCCATCGCT
Found at i:795012 original size:129 final size:129
Alignment explanation
Indices: 794737--795012 Score: 284
Period size: 129 Copynumber: 2.1 Consensus size: 129
794727 TCACACTTTG
* * * * * * *
794737 TCTGCTTGTCAGCTTAAACTCGAGAGACCTCTTTTATTTTTTGTCTGCCCATTGGCTTAGACTCG
1 TCTGCCTGTCAGCTTAGACTCGAGAGACCTCTTTTATCTTTCGTCTGCCCATTAGCTTAGACCCA
* * * *** *
794802 GGAGACCTCTTTTATCTTTCATCTGCTTGTCGACTTAGACCCGAGAAACCTCCCTTATCTTTCC
66 AGAGACCTCTTTTACCTTTCATCTACCCATCGACTTAGACCCGAGAAACCTCCCTTATCTTTCA
* ** * *
794866 TTTGCCCATCGGTTTAGACTCG-GAAGACCTCTTTTATCTTTCGTCTGCCCATTAGCTTAGACCC
1 TCTGCCTGTCAGCTTAGACTCGAG-AGACCTCTTTTATCTTTCGTCTGCCCATTAGCTTAGACCC
* * * * * ** *
794930 AAGAGACCTCTTTTACCTTTCATCTACCCATCGACTTTGACCTGGGAGACTTCTTTTATCTTTTA
65 AAGAGACCTCTTTTACCTTTCATCTACCCATCGACTTAGACCCGAGAAACCTCCCTTATCTTTCA
*
794995 TCTGCCTGTTAGCTTAGA
1 TCTGCCTGTCAGCTTAGA
795013 AAGGGTTGCC
Statistics
Matches: 113, Mismatches: 33, Indels: 2
0.76 0.22 0.01
Matches are distributed among these distances:
128 1 0.01
129 112 0.99
ACGTcount: A:0.18, C:0.28, G:0.16, T:0.38
Consensus pattern (129 bp):
TCTGCCTGTCAGCTTAGACTCGAGAGACCTCTTTTATCTTTCGTCTGCCCATTAGCTTAGACCCA
AGAGACCTCTTTTACCTTTCATCTACCCATCGACTTAGACCCGAGAAACCTCCCTTATCTTTCA
Found at i:795075 original size:32 final size:32
Alignment explanation
Indices: 795016--795131 Score: 153
Period size: 32 Copynumber: 3.7 Consensus size: 32
795006 GCTTAGAAAG
*
795016 GGTTGCCACCAACTC-TGTGGGCCTAAGAAGA
1 GGTTGCCACCAACTCGTGTGGGCTTAAGAAGA
* * * *
795047 GGTTACGACCAACTCATGTGGGCTTAAGAAAA
1 GGTTGCCACCAACTCGTGTGGGCTTAAGAAGA
* * *
795079 GGTTGCCACTAACTTGTGTGGGCTTAAGATGA
1 GGTTGCCACCAACTCGTGTGGGCTTAAGAAGA
795111 GGTTGCCACCAACTCGTGTGG
1 GGTTGCCACCAACTCGTGTGG
795132 ACTTTGAGTG
Statistics
Matches: 71, Mismatches: 13, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
31 13 0.18
32 58 0.82
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.24
Consensus pattern (32 bp):
GGTTGCCACCAACTCGTGTGGGCTTAAGAAGA
Found at i:796592 original size:166 final size:165
Alignment explanation
Indices: 796039--796614 Score: 742
Period size: 164 Copynumber: 3.5 Consensus size: 165
796029 AAAATTGCTT
* * * * * * *
796039 AAATATTATTTTTTAA-TCACCATTAAAT-TAGTTTTCAAAGATTCATTCATTTTTATGAGTTTT
1 AAATATTATTATTTAATTCA-TATTAAATCCA-TTTTTAAAAATTAATTCATTTTCATGAGTTTT
* *
796102 TTA-TTTTTCTTTGAAATTTTTCTATTATTAAAATACAGAGTTTTCTACTTCATAATTTTTTTGG
64 TAATTTTTTCTTTGAAATTTTTCTATTTTTAAAATACAGAGTTTTCTACTTCATAATTTTTTTGG
796166 GAGGATTTTTCTTAGTTTTTGATTTTTAAAATTCATA
129 GAGGATTTTTCTTAGTTTTTGATTTTTAAAATTCATA
* *
796203 AAATATTATTATTTAATTCATATTAAATCCATTTTTAAAAATTAATTCATTTTTATGAGTTTTTT
1 AAATATTATTATTTAATTCATATTAAATCCATTTTTAAAAATTAATTCATTTTCATGAGTTTTTA
796268 A-TTTTTCTTTGAAATTTTTCTATTTTTAAAATACAGAGTTTTCTACTTCATAATTTTTTTGGGA
66 ATTTTTTCTTTGAAATTTTTCTATTTTTAAAATACAGAGTTTTCTACTTCATAATTTTTTTGGGA
796332 GGATTTTTCTTAGTTTTTGATTTTTAAAATTCATA
131 GGATTTTTCTTAGTTTTTGATTTTTAAAATTCATA
**
796367 AAATATTATTATTTAATTCATATTAAATCCATTTTTAAAAATTAATTCATTACCATGAGTTTTTG
1 AAATATTATTATTTAATTCATATTAAATCCATTTTTAAAAATTAATTCATTTTCATGAGTTTTT-
* * * *
796432 AATTTTTTCATTGAAATTTTTCT-TTTTTCGAAATA-TGTTA-TTTTCTACTTCGTAA-TTTTTT
65 AATTTTTTCTTTGAAATTTTTCTATTTTT-AAAATACAG--AGTTTTCTACTTCATAATTTTTTT
* * *
796493 CGAAGAGATTTTTCTTA-TTTTTTATTTTTTTAAAATTCATA
127 GGGAG-GATTTTTCTTAGTTTTTGA--TTTTTAAAATTCATA
* * * * * **
796534 AATTATTATTATTTAATTCATATT-AATTCA-GTTTAAAATTTTAATTTATTTTCATGAGTTTCA
1 AAATATTATTATTTAATTCATATTAAATCCATTTTTAAAA-ATTAATTCATTTTCATGAGTTTTT
796597 AATTTTTTCTTTGAAATT
65 AATTTTTTCTTTGAAATT
796615 CCTCTCTTTC
Statistics
Matches: 373, Mismatches: 28, Indels: 21
0.88 0.07 0.05
Matches are distributed among these distances:
164 212 0.57
165 50 0.13
166 72 0.19
167 39 0.10
ACGTcount: A:0.31, C:0.08, G:0.07, T:0.55
Consensus pattern (165 bp):
AAATATTATTATTTAATTCATATTAAATCCATTTTTAAAAATTAATTCATTTTCATGAGTTTTTA
ATTTTTTCTTTGAAATTTTTCTATTTTTAAAATACAGAGTTTTCTACTTCATAATTTTTTTGGGA
GGATTTTTCTTAGTTTTTGATTTTTAAAATTCATA
Found at i:797243 original size:12 final size:12
Alignment explanation
Indices: 797226--797259 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
797216 GAGAAACTTG
797226 GAGAAAAAAAGA
1 GAGAAAAAAAGA
797238 GAGAAAAAAAGA
1 GAGAAAAAAAGA
797250 -A-AAAAAAAGA
1 GAGAAAAAAAGA
797260 AAAAAATAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 9 0.41
11 1 0.05
12 12 0.55
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (12 bp):
GAGAAAAAAAGA
Found at i:797246 original size:11 final size:10
Alignment explanation
Indices: 797226--797286 Score: 70
Period size: 10 Copynumber: 6.0 Consensus size: 10
797216 GAGAAACTTG
797226 GAGAAAAAAA
1 GAGAAAAAAA
797236 GAGAGAAAAAA
1 GAGA-AAAAAA
797247 -AGAAAAAAA
1 GAGAAAAAAA
*
797256 AAGAAAAAAA
1 GAGAAAAAAA
*
797266 TAGAAAAAAAA
1 GAG-AAAAAAA
*
797277 TAGAAAAAAA
1 GAGAAAAAAA
797287 ATAGAAAAAT
Statistics
Matches: 47, Mismatches: 1, Indels: 6
0.87 0.02 0.11
Matches are distributed among these distances:
9 6 0.13
10 25 0.53
11 16 0.34
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (10 bp):
GAGAAAAAAA
Found at i:797287 original size:11 final size:11
Alignment explanation
Indices: 797229--797295 Score: 95
Period size: 11 Copynumber: 6.4 Consensus size: 11
797219 AAACTTGGAG
*
797229 AAAAAAAGAGA
1 AAAAAAATAGA
*
797240 GAAAAAA-AGA
1 AAAAAAATAGA
797250 AAAAAAA-AG-
1 AAAAAAATAGA
797259 AAAAAAATAGA
1 AAAAAAATAGA
797270 AAAAAAATAGA
1 AAAAAAATAGA
797281 AAAAAAATAGA
1 AAAAAAATAGA
797292 AAAA
1 AAAA
797296 TGGTGGGATT
Statistics
Matches: 52, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
9 7 0.13
10 13 0.25
11 32 0.62
ACGTcount: A:0.84, C:0.00, G:0.12, T:0.04
Consensus pattern (11 bp):
AAAAAAATAGA
Found at i:797294 original size:20 final size:20
Alignment explanation
Indices: 797227--797295 Score: 95
Period size: 20 Copynumber: 3.4 Consensus size: 20
797217 AGAAACTTGG
*
797227 AGAAAAAAAGAGAGAAAAAA-
1 AGAAAAAAAAAGA-AAAAAAT
797247 AGAAAAAAAAAGAAAAAAAT
1 AGAAAAAAAAAGAAAAAAAT
797267 AGAAAAAAAATAGAAAAAAAAT
1 AGAAAAAAAA-AG-AAAAAAAT
797289 AGAAAAA
1 AGAAAAA
797296 TGGTGGGATT
Statistics
Matches: 45, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
19 6 0.13
20 22 0.49
21 2 0.04
22 15 0.33
ACGTcount: A:0.83, C:0.00, G:0.13, T:0.04
Consensus pattern (20 bp):
AGAAAAAAAAAGAAAAAAAT
Found at i:806647 original size:76 final size:76
Alignment explanation
Indices: 806530--806693 Score: 265
Period size: 76 Copynumber: 2.2 Consensus size: 76
806520 CTTGAAAGAT
* * * *
806530 GGGGTTGGAGTATCCTCATGGATAACAAATAGTTTTGACAAAAGAAGAGTTCAAATCTTGATAAA
1 GGGGTTAGAGTATCCCCATGGATAACAAATAATTTTGACAAAAGAAGAGTTCAAATCTAGATAAA
*
806595 TTTTGAAGAGC
66 TTTTGAAAAGC
*
806606 GGGGTTAGAGTATCCCCATGGATAACAAATAATTTTGACAAAAGAGGAGTTCAAATCTAGATAAA
1 GGGGTTAGAGTATCCCCATGGATAACAAATAATTTTGACAAAAGAAGAGTTCAAATCTAGATAAA
806671 TTTTGAAAAGC
66 TTTTGAAAAGC
*
806682 AGGGTTAGAGTA
1 GGGGTTAGAGTA
806694 GGGGTGAGTA
Statistics
Matches: 81, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
76 81 1.00
ACGTcount: A:0.38, C:0.10, G:0.24, T:0.27
Consensus pattern (76 bp):
GGGGTTAGAGTATCCCCATGGATAACAAATAATTTTGACAAAAGAAGAGTTCAAATCTAGATAAA
TTTTGAAAAGC
Found at i:807092 original size:23 final size:23
Alignment explanation
Indices: 807057--807103 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
807047 ATAAAATTTT
807057 TGAAGTCAAGTTATTTACCCTGC
1 TGAAGTCAAGTTATTTACCCTGC
* *
807080 TGAAGTTAGGTTATTTACCCTGC
1 TGAAGTCAAGTTATTTACCCTGC
807103 T
1 T
807104 AGTAGAGCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.38
Consensus pattern (23 bp):
TGAAGTCAAGTTATTTACCCTGC
Found at i:817332 original size:45 final size:45
Alignment explanation
Indices: 817270--817372 Score: 181
Period size: 45 Copynumber: 2.3 Consensus size: 45
817260 CTTCCTTCCA
*
817270 TCCTTTAGAGTTGTAAGAAGTGGTGATTTTCTTCACAGTCTCCTT
1 TCCTTTAGAGTTGTAAGAAGTGGTGATTTTCTTCAAAGTCTCCTT
817315 TCCTTTAGAGTTGTAAGAAGTGGTGATTTTCTTCAAAGTCTCCTT
1 TCCTTTAGAGTTGTAAGAAGTGGTGATTTTCTTCAAAGTCTCCTT
*
817360 T-CTTTTGAGTTGT
1 TCCTTTAGAGTTGT
817373 GCTTCTACTT
Statistics
Matches: 56, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
44 11 0.20
45 45 0.80
ACGTcount: A:0.19, C:0.16, G:0.20, T:0.45
Consensus pattern (45 bp):
TCCTTTAGAGTTGTAAGAAGTGGTGATTTTCTTCAAAGTCTCCTT
Found at i:817941 original size:36 final size:36
Alignment explanation
Indices: 817901--818017 Score: 96
Period size: 33 Copynumber: 3.2 Consensus size: 36
817891 TCTTCCATCT
* *
817901 TCTCTTCTCCTCCTGTCATCCCTCCTTTCTCTA-T-
1 TCTCTTCTCCTCCTATCATCCCTCCTATCTCTACTA
* *
817935 TATC-TCTCCTCCTATCATCCCTCCTATCTTTACTA
1 TCTCTTCTCCTCCTATCATCCCTCCTATCTCTACTA
* * *
817970 TCTCTCATATCTCTCCTTTTATCATCCCTCCTATCTCTTCTT
1 TCTCT--TCTC-CTCC---TATCATCCCTCCTATCTCTACTA
818012 TCTCTT
1 TCTCTT
818018 TAAGGGCTAC
Statistics
Matches: 65, Mismatches: 9, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
33 25 0.38
34 4 0.06
35 3 0.05
38 3 0.05
39 4 0.06
40 1 0.02
42 25 0.38
ACGTcount: A:0.11, C:0.40, G:0.01, T:0.48
Consensus pattern (36 bp):
TCTCTTCTCCTCCTATCATCCCTCCTATCTCTACTA
Found at i:817946 original size:33 final size:33
Alignment explanation
Indices: 817906--817975 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
817896 CATCTTCTCT
* * *
817906 TCTCCTCCTGTCATCCCTCCTTTCTCTATTATC
1 TCTCCTCCTATCATCCCTCCTATCTCTACTATC
*
817939 TCTCCTCCTATCATCCCTCCTATCTTTACTATC
1 TCTCCTCCTATCATCCCTCCTATCTCTACTATC
817972 TCTC
1 TCTC
817976 ATATCTCTCC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.11, C:0.43, G:0.01, T:0.44
Consensus pattern (33 bp):
TCTCCTCCTATCATCCCTCCTATCTCTACTATC
Found at i:817958 original size:15 final size:15
Alignment explanation
Indices: 817907--817959 Score: 52
Period size: 15 Copynumber: 3.3 Consensus size: 15
817897 ATCTTCTCTT
*
817907 CTCCTCCTGTCATCC
1 CTCCTCCTATCATCC
* *
817922 CTCCTTTCTCTATTATCT
1 CTCC--TC-CTATCATCC
817940 CTCCTCCTATCATCC
1 CTCCTCCTATCATCC
817955 CTCCT
1 CTCCT
817960 ATCTTTACTA
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
15 16 0.53
16 2 0.07
17 2 0.07
18 10 0.33
ACGTcount: A:0.09, C:0.47, G:0.02, T:0.42
Consensus pattern (15 bp):
CTCCTCCTATCATCC
Found at i:818016 original size:42 final size:42
Alignment explanation
Indices: 817925--818016 Score: 125
Period size: 42 Copynumber: 2.2 Consensus size: 42
817915 GTCATCCCTC
817925 CTTTCTCTATTATCTCTCCTCCTATCATCCCTCCTATCTTTA
1 CTTTCTCTATTATCTCTCCTCCTATCATCCCTCCTATCTTTA
* **
817967 CTATCTCTCA-TATCTCTCCTTTTATCATCCCTCCTATCTCTT-
1 CTTTCTCT-ATTATCTCTCCTCCTATCATCCCTCCTATCT-TTA
818009 CTTTCTCT
1 CTTTCTCT
818017 TTAAGGGCTA
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
42 41 0.93
43 3 0.07
ACGTcount: A:0.13, C:0.38, G:0.00, T:0.49
Consensus pattern (42 bp):
CTTTCTCTATTATCTCTCCTCCTATCATCCCTCCTATCTTTA
Found at i:821204 original size:12 final size:11
Alignment explanation
Indices: 821182--821257 Score: 52
Period size: 12 Copynumber: 6.9 Consensus size: 11
821172 AGAGAAAGAA
*
821182 GAGAGAGGAGG
1 GAGATAGGAGG
821193 GATGATAGGAGG
1 GA-GATAGGAGG
*
821205 AGAGACAGGA--
1 -GAGATAGGAGG
*
821215 GAGATAGTA--
1 GAGATAGGAGG
821224 GAGATAGGAGG
1 GAGATAGGAGG
821235 GATGATAGGAGG
1 GA-GATAGGAGG
*
821247 AGAGACAGGAG
1 -GAGATAGGAG
821258 AGATAATAGA
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
9 15 0.28
11 4 0.08
12 30 0.57
13 4 0.08
ACGTcount: A:0.39, C:0.03, G:0.49, T:0.09
Consensus pattern (11 bp):
GAGATAGGAGG
Found at i:821214 original size:24 final size:24
Alignment explanation
Indices: 821181--821266 Score: 85
Period size: 24 Copynumber: 3.8 Consensus size: 24
821171 AAGAGAAAGA
*
821181 AGAGAGAGGAGGGATGATAGGAGG
1 AGAGACAGGAGGGATGATAGGAGG
*
821205 AGAGACAGGA--GA-GAT---AGT
1 AGAGACAGGAGGGATGATAGGAGG
*
821223 AGAGATAGGAGGGATGATAGGAGG
1 AGAGACAGGAGGGATGATAGGAGG
* *
821247 AGAGACAGGAGAGATAATAG
1 AGAGACAGGAGGGATGATAG
821267 AGAGAGGAGG
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
18 11 0.22
20 2 0.04
21 6 0.12
22 2 0.04
24 28 0.57
ACGTcount: A:0.42, C:0.02, G:0.45, T:0.10
Consensus pattern (24 bp):
AGAGACAGGAGGGATGATAGGAGG
Found at i:821233 original size:42 final size:42
Alignment explanation
Indices: 821172--821290 Score: 193
Period size: 42 Copynumber: 2.8 Consensus size: 42
821162 TAGCCCTCAA
* *
821172 AGAGAAAGAAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
*
821214 AGAGATAGTAGAGATAGGAGGGATGATAGGAGGAGAGACAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
* *
821256 AGAGATAATAGAGAGAGGAGGGATGACAGGAGGAG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAG
821291 GAGAGAAGAA
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 71 1.00
ACGTcount: A:0.43, C:0.03, G:0.46, T:0.08
Consensus pattern (42 bp):
AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
Found at i:830635 original size:12 final size:12
Alignment explanation
Indices: 830618--830644 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
830608 GTGGAAATAG
830618 GCTTATGAGAAA
1 GCTTATGAGAAA
830630 GCTTATGAGAAA
1 GCTTATGAGAAA
830642 GCT
1 GCT
830645 ATTAAGTGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.37, C:0.11, G:0.26, T:0.26
Consensus pattern (12 bp):
GCTTATGAGAAA
Found at i:833688 original size:42 final size:41
Alignment explanation
Indices: 833624--833741 Score: 137
Period size: 42 Copynumber: 2.8 Consensus size: 41
833614 TAGCCCTCAA
* *
833624 AGAGAAAGAAGAGAGAAGAGGGATGATAGGAGGAGAGACAGG
1 AGAGAAA-TAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
* * * * * *
833666 AGAGATAGTATAGATATGAGGGATGATTGGAGGAGAGATAGG
1 AGAGA-AATAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
*
833708 AGAGAAATAGAGAGAGGAGGGATGACAGGAGGAG
1 AGAGAAATAGAGAGAGGAGGGATGATAGGAGGAG
833742 GAGAGAAGAA
Statistics
Matches: 62, Mismatches: 13, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
41 23 0.37
42 38 0.61
43 1 0.02
ACGTcount: A:0.43, C:0.02, G:0.44, T:0.11
Consensus pattern (41 bp):
AGAGAAATAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
Found at i:845731 original size:9 final size:9
Alignment explanation
Indices: 845719--845863 Score: 95
Period size: 9 Copynumber: 16.1 Consensus size: 9
845709 CACTCTCTAT
845719 TATCTCTCC
1 TATCTCTCC
*
845728 TATCTTTCC
1 TATCTCTCC
*
845737 T-TCTAT-C
1 TATCTCTCC
*
845744 -ATCCCTCC
1 TATCTCTCC
*
845752 TATCTCTAC
1 TATCTCTCC
845761 TATCTCTCC
1 TATCTCTCC
845770 TATCTCTCCTCC
1 TA--TCT-CTCC
845782 TATCATCCATCC
1 TATC-T-C-TCC
*
845794 TATCTCTAC
1 TATCTCTCC
*
845803 TGTCTCTCC
1 TATCTCTCC
845812 TATCTCTCC
1 TATCTCTCC
* *
845821 T-CCTAT-C
1 TATCTCTCC
*
845828 -ATCCCTCC
1 TATCTCTCC
*
845836 TATCTCTAC
1 TATCTCTCC
845845 TATCTCTCC
1 TATCTCTCC
*
845854 TATATCTCC
1 TATCTCTCC
845863 T
1 T
845864 CCTATCATCC
Statistics
Matches: 105, Mismatches: 20, Indels: 22
0.71 0.14 0.15
Matches are distributed among these distances:
7 7 0.07
8 9 0.09
9 66 0.63
10 3 0.03
11 7 0.07
12 13 0.12
ACGTcount: A:0.14, C:0.42, G:0.01, T:0.43
Consensus pattern (9 bp):
TATCTCTCC
Found at i:845747 original size:42 final size:42
Alignment explanation
Indices: 845691--845893 Score: 300
Period size: 42 Copynumber: 4.8 Consensus size: 42
845681 TTCTTCTCTC
* *
845691 CTCCTCCTGTCATCCCTCC-ACTCTCTATTATCTCTCCTATCT
1 CTCCTCCTATCATCCCTCCTA-TCTCTACTATCTCTCCTATCT
* *
845733 TTCCTTCTATCATCCCTCCTATCTCTACTATCTCTCCTATCT
1 CTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCCTATCT
* *
845775 CTCCTCCTATCATCCATCCTATCTCTACTGTCTCTCCTATCT
1 CTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCCTATCT
*
845817 CTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCCTATAT
1 CTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCCTATCT
* * *
845859 CTCCTCCTATCATCCTTCCTATCTCTTCTTTCTCT
1 CTCCTCCTATCATCCCTCCTATCTCTACTATCTCT
845894 TTGAGGGCTA
Statistics
Matches: 146, Mismatches: 14, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
42 145 0.99
43 1 0.01
ACGTcount: A:0.13, C:0.43, G:0.01, T:0.43
Consensus pattern (42 bp):
CTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCCTATCT
Found at i:845842 original size:33 final size:30
Alignment explanation
Indices: 845720--845893 Score: 84
Period size: 33 Copynumber: 5.5 Consensus size: 30
845710 ACTCTCTATT
* *
845720 ATCTCTCCTATCTTTCCTTCTATCATCCCTCCT
1 ATCTCTCCTATCTCTCC-TATATC-T-CCTCCT
* *
845753 ATCTCTACTATCTCTCCTATCTCTCCTCCT
1 ATCTCTCCTATCTCTCCTATATCTCCTCCT
* * * *
845783 ATCATCCATCCTATCTCTACTGTCTCTCCT-AT
1 ATC-T-C-TCCTATCTCTCCTATATCTCCTCCT
* * *
845815 CTCTCCTCCTATCATC-CCTCCTATCT-CTACT
1 ATCT-CTCCTATC-TCTCCT-ATATCTCCTCCT
* *
845846 ATCTCTCCTATATCTCCTCCTATCATCCTTCCT
1 ATCTCTCCTATCTCTCCT-ATATC-TCC-TCCT
* *
845879 ATCTCTTCTTTCTCT
1 ATCTCTCCTATCTCT
845894 TTGAGGGCTA
Statistics
Matches: 112, Mismatches: 19, Indels: 20
0.74 0.13 0.13
Matches are distributed among these distances:
29 2 0.02
30 36 0.32
31 16 0.14
32 9 0.08
33 49 0.44
ACGTcount: A:0.14, C:0.42, G:0.01, T:0.44
Consensus pattern (30 bp):
ATCTCTCCTATCTCTCCTATATCTCCTCCT
Found at i:849254 original size:12 final size:11
Alignment explanation
Indices: 849232--849307 Score: 52
Period size: 12 Copynumber: 6.9 Consensus size: 11
849222 AGAGAAAGAA
*
849232 GAGAGAGGAGG
1 GAGATAGGAGG
849243 GATGATAGGAGG
1 GA-GATAGGAGG
*
849255 AGAGACAGGA--
1 -GAGATAGGAGG
*
849265 GAGATAGTA--
1 GAGATAGGAGG
849274 GAGATAGGAGG
1 GAGATAGGAGG
849285 GATGATAGGAGG
1 GA-GATAGGAGG
*
849297 AGAGACAGGAG
1 -GAGATAGGAG
849308 AGATAATAGA
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
9 15 0.28
11 4 0.08
12 30 0.57
13 4 0.08
ACGTcount: A:0.39, C:0.03, G:0.49, T:0.09
Consensus pattern (11 bp):
GAGATAGGAGG
Found at i:849264 original size:24 final size:24
Alignment explanation
Indices: 849231--849316 Score: 85
Period size: 24 Copynumber: 3.8 Consensus size: 24
849221 AAGAGAAAGA
*
849231 AGAGAGAGGAGGGATGATAGGAGG
1 AGAGACAGGAGGGATGATAGGAGG
*
849255 AGAGACAGGA--GA-GAT---AGT
1 AGAGACAGGAGGGATGATAGGAGG
*
849273 AGAGATAGGAGGGATGATAGGAGG
1 AGAGACAGGAGGGATGATAGGAGG
* *
849297 AGAGACAGGAGAGATAATAG
1 AGAGACAGGAGGGATGATAG
849317 AGAGAGGAGG
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
18 11 0.22
20 2 0.04
21 6 0.12
22 2 0.04
24 28 0.57
ACGTcount: A:0.42, C:0.02, G:0.45, T:0.10
Consensus pattern (24 bp):
AGAGACAGGAGGGATGATAGGAGG
Found at i:849283 original size:42 final size:42
Alignment explanation
Indices: 849222--849340 Score: 193
Period size: 42 Copynumber: 2.8 Consensus size: 42
849212 TAGCCCTCAA
* *
849222 AGAGAAAGAAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
*
849264 AGAGATAGTAGAGATAGGAGGGATGATAGGAGGAGAGACAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
* *
849306 AGAGATAATAGAGAGAGGAGGGATGACAGGAGGAG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAG
849341 GAGAGAAGAA
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 71 1.00
ACGTcount: A:0.43, C:0.03, G:0.46, T:0.08
Consensus pattern (42 bp):
AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
Found at i:860385 original size:9 final size:9
Alignment explanation
Indices: 860373--860433 Score: 65
Period size: 9 Copynumber: 7.1 Consensus size: 9
860363 CTCTCTCTAT
860373 TATCTCTCC
1 TATCTCTCC
860382 TATCTCTCC
1 TATCTCTCC
* *
860391 T-CCTAT-C
1 TATCTCTCC
*
860398 -ATCCCTCC
1 TATCTCTCC
*
860406 TATCTCTAC
1 TATCTCTCC
860415 TATCTCTCC
1 TATCTCTCC
860424 TATCTCTCC
1 TATCTCTCC
860433 T
1 T
860434 CCTATCATCC
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
7 3 0.07
8 4 0.10
9 34 0.83
ACGTcount: A:0.13, C:0.44, G:0.00, T:0.43
Consensus pattern (9 bp):
TATCTCTCC
Found at i:860392 original size:42 final size:42
Alignment explanation
Indices: 860345--860454 Score: 202
Period size: 42 Copynumber: 2.6 Consensus size: 42
860335 TTCTTCACTC
* *
860345 CTCCTCCTATCATCCCTCCTCTCTCTATTATCTCTCCTATCT
1 CTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCCTATCT
860387 CTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCCTATCT
1 CTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCCTATCT
860429 CTCCTCCTATCATCCCTCCTATCTCT
1 CTCCTCCTATCATCCCTCCTATCTCT
860455 TCTTTCTTTT
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 66 1.00
ACGTcount: A:0.13, C:0.46, G:0.00, T:0.41
Consensus pattern (42 bp):
CTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCCTATCT
Found at i:860393 original size:12 final size:12
Alignment explanation
Indices: 860378--860454 Score: 71
Period size: 12 Copynumber: 6.9 Consensus size: 12
860368 TCTATTATCT
860378 CTCCTATCTCTC
1 CTCCTATCTCTC
860390 CTCCTATCATC-C
1 CTCCTATC-TCTC
860402 CTCCTA--TCT-
1 CTCCTATCTCTC
*
860411 CTACTA--TCT-
1 CTCCTATCTCTC
860420 CTCCTATCTCTC
1 CTCCTATCTCTC
860432 CTCCTATCATC-C
1 CTCCTATC-TCTC
860444 CTCCTATCTCT
1 CTCCTATCTCT
860455 TCTTTCTTTT
Statistics
Matches: 56, Mismatches: 2, Indels: 14
0.78 0.03 0.19
Matches are distributed among these distances:
9 15 0.27
11 5 0.09
12 32 0.57
13 4 0.07
ACGTcount: A:0.13, C:0.47, G:0.00, T:0.40
Consensus pattern (12 bp):
CTCCTATCTCTC
Found at i:868743 original size:158 final size:157
Alignment explanation
Indices: 868445--869188 Score: 665
Period size: 158 Copynumber: 4.7 Consensus size: 157
868435 TATTCATTTG
* * * * *
868445 GGATAAATGATATTGATGCTTTGTTTTCTCAAGAAAA---TTT-TTTCGATCATTTTTCTTAGAA
1 GGATACATGATATTGATGCTTTGGTTTCTCAAGAAAAGCTTTTCTTTCCACCATTTTCCTTAGAA
* * * * * *
868506 TCAAAGTTCATCCCTC-AATAGAGATAAACATGGATTCTCATAAGATTTTCCATTATTTTCATAA
66 TCAAAGTTCATCCCTCAAATA-AGACAAACATGGATTCTCATAATAGTCTCCATT-CTTTCATGA
* *
868570 TTAGGCAGTAAAAACATGTTATCCTCAATA
129 TTAGGCAGCAAAAACATGTT-TCCTCATTA
* * * *
868600 GGATGCATGATATTGATGCTTTGGTTTCACAAG-AAAGCTTTTCTTTCAACCATTTCCCTTAGAA
1 GGATACATGATATTGATGCTTTGGTTTCTCAAGAAAAGCTTTTCTTTCCACCATTTTCCTTAGAA
* * * *
868664 TCAAAATTCATCCCTCAAATAAGACAAACATTGATTCTCATAATAGTCTTCATTCTCCTCATGAT
66 TCAAAGTTCATCCCTCAAATAAGACAAACATGGATTCTCATAATAGTCTCCATTCT-TTCATGAT
* * *
868729 TGGGCACCATAAACACAT-TTTTCTCATTA
130 TAGGCAGCA-AAA-ACATGTTTCCTCATTA
* * * * **
868758 GGATACAAGATTTTGATGCTTTGGATT-GCAAGAAAAGCTTTTCTTTCCATAATTTTCCTTAGAA
1 GGATACATGATATTGATGCTTTGGTTTCTCAAGAAAAGCTTTTCTTTCCACCATTTTCCTTAGAA
* * * *
868822 TCAAAGTTTATCTCTCAAATGAGATAAACATGGATTC-CTATAAT-GATCTCCATTCTTTC-TAG
66 TCAAAGTTCATCCCTCAAATAAGACAAACATGGATTCTC-ATAATAG-TCTCCATTCTTTCAT-G
* * *
868884 AATTAGGCAGCAGAGACATGTTCCCTTCATTA
128 -ATTAGGCAGCAAAAACATGTTTCC-TCATTA
* * * ** *
868916 GGATACATGATA-TGATGCTTTAGTTTCTTAAGAAAAACTTTTCTTTCCACCATAATCCTTAAAA
1 GGATACATGATATTGATGCTTTGGTTTCTCAAGAAAAGCTTTTCTTTCCACCATTTTCCTTAGAA
* * * * * **
868980 TCAAAGTTCATCCCTTAAATAAAACAAACATTGATTCTCATAATAATCTCCATTATTTTTTAGAT
66 TCAAAGTTCATCCCTCAAATAAGACAAACATGGATTCTCATAATAGTCTCCATTCTTTCAT-GAT
* * * *
869045 TAAGCAGCAAAACACCT-TCTTCAT-ATTG
130 TAGGCAGCAAAA-ACATGT-TTCCTCATTA
* * * * * *
869073 GGACACAAGATATTGATGCTTTGGTTTC-CTAGGAAAAGATTATCTTTGCACCATTTTCCTTAGA
1 GGATACATGATATTGATGCTTTGGTTTCTC-AAGAAAAGCTTTTCTTTCCACCATTTTCCTTAGA
* * *
869137 ATCAAAGTTCAAT-CCTTAAATAAGACAAACATGGATTCTCAAAATAATCTCC
65 ATCAAAGTTC-ATCCCTCAAATAAGACAAACATGGATTCTCATAATAGTCTCC
869189 CCTTTTATCA
Statistics
Matches: 475, Mismatches: 90, Indels: 45
0.78 0.15 0.07
Matches are distributed among these distances:
154 3 0.01
155 29 0.06
156 5 0.01
157 42 0.09
158 372 0.78
159 20 0.04
160 4 0.01
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.36
Consensus pattern (157 bp):
GGATACATGATATTGATGCTTTGGTTTCTCAAGAAAAGCTTTTCTTTCCACCATTTTCCTTAGAA
TCAAAGTTCATCCCTCAAATAAGACAAACATGGATTCTCATAATAGTCTCCATTCTTTCATGATT
AGGCAGCAAAAACATGTTTCCTCATTA
Found at i:869131 original size:316 final size:316
Alignment explanation
Indices: 868453--869174 Score: 763
Period size: 316 Copynumber: 2.3 Consensus size: 316
868443 TGGGATAAAT
** * * *
868453 GATATTGATGCTTTGTTTTCTCAAG-AAA-ATT-T-TTTCGATCATTTTTCTTAGAATCAAAGTT
1 GATATTGATGCTTTGGATTC-CAAGAAAAGATTATCTTTCCACCATTTTCCTTAGAATCAAAGTT
* * *
868514 CATCCCTC-AATAGAGATAAACATGGATT-CTCATAAGATTTTCCATTATTTTCATAATTAGGCA
65 AAT-CCTCAAAT-GAGATAAACATGGATTCCTCATAAGATTCTCCATTATTTTCAGAATTAGGCA
* * * * *
868577 GTAAAAACATGTTATCCTCAATAGGATGCATGATATTGATGCTTTGGTTTCACAAGAAAGCTTTT
128 GCAAAAACATGTTACCCTCAATAGGATACATGATATTGATGCTTTAGTTTCACAAGAAAACTTTT
* * *
868642 CTTTCAACCATTTCCCTTAGAATCAAAATTCATCCCTCAAATAAGACAAACATTGATTCTCATAA
193 CTTTCAACCATATCCCTTAAAATCAAAATTCATCCCTCAAATAAAACAAACATTGATTCTCATAA
* * ** * *
868707 TAGTCTTCATTCTCCTCATGATTGGGCACCATAAACACATTTTTCTCATTAGGATACAA
258 TAATCTCCATTCTCCTCATGATTAAGCACCATAAACACATTCTTCTCATTAGGACACAA
* * * * ** *
868766 GATTTTGATGCTTTGGATTGCAAGAAAAGCTTTTCTTTCCATAATTTTCCTTAGAATCAAAGTTT
1 GATATTGATGCTTTGGATTCCAAGAAAAGATTATCTTTCCACCATTTTCCTTAGAATCAAAGTTA
*
868831 ATCTCTCAAATGAGATAAACATGGATTCCT-ATAATGA-TCTCCATT-CTTTCTAGAATTAGGCA
66 ATC-CTCAAATGAGATAAACATGGATTCCTCATAA-GATTCTCCATTATTTTC-AGAATTAGGCA
* * * **
868893 GCAGAGACATGTT-CCCTTCATTAGGATACATGATA-TGATGCTTTAGTTTCTTAAGAAAAACTT
128 GCAAAAACATGTTACCC-TCAATAGGATACATGATATTGATGCTTTAGTTTCACAAG-AAAACTT
* * *
868956 TTCTTTCCACCATAAT-CCTTAAAATCAAAGTTCATCCCTTAAATAAAACAAACATTGATTCTCA
191 TTCTTTCAACCAT-ATCCCTTAAAATCAAAATTCATCCCTCAAATAAAACAAACATTGATTCTCA
* * ** * * *
869020 TAATAATCTCCATTAT-TTTTTAGATTAAGCAGCA-AAACACCTTCTTCAT-ATTGGGACACAA
255 TAATAATCTCCATTCTCCTCAT-GATTAAGCACCATAAACACATTCTTC-TCATTAGGACACAA
* * *
869081 GATATTGATGCTTTGGTTTCCTAGGAAAAGATTATCTTTGCACCATTTTCCTTAGAATCAAAGTT
1 GATATTGATGCTTTGGATTCC-AAGAAAAGATTATCTTTCCACCATTTTCCTTAGAATCAAAGTT
* * *
869146 CAATCCTTAAATAAGACAAACATGGATTC
65 -AATCCTCAAATGAGATAAACATGGATTC
869175 TCAAAATAAT
Statistics
Matches: 339, Mismatches: 54, Indels: 29
0.80 0.13 0.07
Matches are distributed among these distances:
312 4 0.01
313 19 0.06
314 2 0.01
315 66 0.19
316 237 0.70
317 11 0.03
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.36
Consensus pattern (316 bp):
GATATTGATGCTTTGGATTCCAAGAAAAGATTATCTTTCCACCATTTTCCTTAGAATCAAAGTTA
ATCCTCAAATGAGATAAACATGGATTCCTCATAAGATTCTCCATTATTTTCAGAATTAGGCAGCA
AAAACATGTTACCCTCAATAGGATACATGATATTGATGCTTTAGTTTCACAAGAAAACTTTTCTT
TCAACCATATCCCTTAAAATCAAAATTCATCCCTCAAATAAAACAAACATTGATTCTCATAATAA
TCTCCATTCTCCTCATGATTAAGCACCATAAACACATTCTTCTCATTAGGACACAA
Found at i:870092 original size:14 final size:16
Alignment explanation
Indices: 870063--870094 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
870053 CAAAGTGTTT
870063 TTTTTTTCTCTCTTCA
1 TTTTTTTCTCTCTTCA
870079 TTTTTTT-TCT-TTCA
1 TTTTTTTCTCTCTTCA
870093 TT
1 TT
870095 CTTGCTGGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.38
15 3 0.19
16 7 0.44
ACGTcount: A:0.06, C:0.19, G:0.00, T:0.75
Consensus pattern (16 bp):
TTTTTTTCTCTCTTCA
Found at i:871935 original size:157 final size:158
Alignment explanation
Indices: 871701--872074 Score: 358
Period size: 157 Copynumber: 2.4 Consensus size: 158
871691 TTCTGCATTA
* * * * * *
871701 GGATGCACAATATTAATGCCTTGGTTTTCTAAGAAAAGCTTAC-CTTTCCCCCATTTTCATTAGA
1 GGATGCAC-ATATTGATGCTTTGGTTTTGTAAGAAAAGCTT-CTCTTTCCACCATTTTCATAAAA
* * * ** * * * *
871765 ACCAATGTTCATCCCAAAAATTAGACAAAGGTGGATTCTTATAATAATCTAAATTCTCTTCATGA
64 ACCAAAGTACATCCCAAAAATAAGACAAACATGGAGTCTCAAAATAATCTAAATTATCTTCATGA
*
871830 TTGAGTACCATAAACACATTCTCCATAATG
129 TTGAGCACCATAAACACATTCTCCATAATG
*
871860 GGATGCACATA-TGATGCTTTGGTTTTGGAAGAAAAGCTTCTCTTTCCACCATTTTC-TAAAAAA
1 GGATGCACATATTGATGCTTTGGTTTTGTAAGAAAAGCTTCTCTTTCCACCATTTTCAT-AAAAA
* ** * *** *
871923 TCAAAGTACATCCCTTAAATAAGGCAAACATGGAGTCTCAAAATAATCTCCCTTATTTTCATGAT
65 CCAAAGTACATCCCAAAAATAAGACAAACATGGAGTCTCAAAATAATCTAAATTATCTTCATGAT
* * * *
871988 TGGGCACCATAGACACATTCTTCTTAATG
130 TGAGCACCATAAACACATTCTCCATAATG
** ** * * * *
872017 AAATATATGATATTGATGCTTTCGTTTTGTAAGAAAAGCTTTTCTTTCTACCATTTTC
1 GGATGCA-CATATTGATGCTTTGGTTTTGTAAGAAAAGCTTCTCTTTCCACCATTTTC
872075 CTTAGATTCA
Statistics
Matches: 173, Mismatches: 38, Indels: 8
0.79 0.17 0.04
Matches are distributed among these distances:
156 2 0.01
157 116 0.67
158 6 0.03
159 49 0.28
ACGTcount: A:0.32, C:0.20, G:0.13, T:0.35
Consensus pattern (158 bp):
GGATGCACATATTGATGCTTTGGTTTTGTAAGAAAAGCTTCTCTTTCCACCATTTTCATAAAAAC
CAAAGTACATCCCAAAAATAAGACAAACATGGAGTCTCAAAATAATCTAAATTATCTTCATGATT
GAGCACCATAAACACATTCTCCATAATG
Found at i:872573 original size:158 final size:153
Alignment explanation
Indices: 872026--872639 Score: 464
Period size: 159 Copynumber: 3.9 Consensus size: 153
872016 GAAATATATG
* * * * *
872026 ATATTGATGCTTTCGTTTTGTAAGAAAAGCTTTTCTTTCTACCATTTTCCTTAGATTCAAAGTTC
1 ATATTGATGCTTT-GGTTT-CAAGAAAA-CTTTTC-TTCAACCATTTTCCTTAGAATAAAAGTTC
* * ** * * *
872091 ATCCATCGAATGAGATAAATATGGATTCT-AGAAATAATCTTCATTTCTTTTCATGATTA--CAA
62 ATCCCTCAAATGAGACGAACAT-GATTCTCA-TAATAATCTCCA-TTCTTTTCATGATTAGGC-A
* * * * ** ** *
872153 CAAAAGAAATATTTTCCTTTTTTGGATACATA
123 TAAAA-ACATGTTCTCCTAATTAAGATACACA
* * *
872185 ATATTGATGCTTTGGTTTCACAAGAAAAGCTTCTCTTTCGACCATTTTCCTTAGAATTAAAGTTC
1 ATATTGATGCTTTGGTTT--CAAGAAAA-CTTTTC-TTCAACCATTTTCCTTAGAATAAAAGTTC
* * * *
872250 ATCCCTTAAATGACACGAACATAGATTCTCTTAATAATCTCTATTCTTTTCATGATTAGGCAATA
62 ATCCCTCAAATGAGACGAACAT-GATTCTCATAATAATCTCCATTCTTTTCATGATTAGGC-ATA
*
872315 AAAACATGTTCTCCTCATTAAGATACACA
125 AAAACATGTTCTCCTAATTAAGATACACA
* ** ** * * * *
872344 ATATTGATGCTTTGGTTTGCCAAGAAAAGTTTTTCTCTGTATTATTTTTCTTAAAATCAAAGTTT
1 ATATTGATGCTTTGGTTT--CAAGAAAA-CTTTTCT-TCAACCATTTTCCTTAGAATAAAAGTTC
** * * * *
872409 ATCCCTCAAATGAGGTGAACATGGATTCTCATAACAATATCCATTATTTTCATGATTAGGCATCA
62 ATCCCTCAAATGAGACGAACAT-GATTCTCATAATAATCTCCATTCTTTTCATGATTAGGCATAA
* * ***
872474 AAA-ATAGTTGTCCTAATTGAGATACTTG
126 AAACAT-GTTCTCCTAATTAAGATACACA
* *
872502 GTATTGATGCTTTGGTTTCTAATGAAAACATTTTCATTCAACCATTTTCCTTAGAATAAAAATTC
1 ATATTGATGCTTTGGTTTC-AA-GAAAAC-TTTTC-TTCAACCATTTTCCTTAGAATAAAAGTTC
* * * *
872567 ATCCCTCAAGTGAGACAAACATGATTCTCATAATAA-CTCCATCCTTTTCATGATTAGGCACTAT
62 ATCCCTCAAATGAGACGAACATGATTCTCATAATAATCTCCATTCTTTTCATGATTAGGCA-TAA
872631 AAACATGTT
126 AAACATGTT
872640 ATATGCATTA
Statistics
Matches: 365, Mismatches: 78, Indels: 26
0.78 0.17 0.06
Matches are distributed among these distances:
156 22 0.06
157 24 0.07
158 108 0.30
159 204 0.56
160 7 0.02
ACGTcount: A:0.32, C:0.17, G:0.12, T:0.38
Consensus pattern (153 bp):
ATATTGATGCTTTGGTTTCAAGAAAACTTTTCTTCAACCATTTTCCTTAGAATAAAAGTTCATCC
CTCAAATGAGACGAACATGATTCTCATAATAATCTCCATTCTTTTCATGATTAGGCATAAAAACA
TGTTCTCCTAATTAAGATACACA
Found at i:873946 original size:27 final size:28
Alignment explanation
Indices: 873892--873958 Score: 100
Period size: 27 Copynumber: 2.4 Consensus size: 28
873882 TTGTTCCCTC
* *
873892 CTTGTTGATTTCTCTTTCTTTGATATTT
1 CTTGTTGATTTCTCTTTCCTTGACATTT
*
873920 CTTGTTGATTT-TGTTTCCTTGACATTT
1 CTTGTTGATTTCTCTTTCCTTGACATTT
873947 CTTGTTGATTTC
1 CTTGTTGATTTC
873959 ACTTCATTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
27 24 0.69
28 11 0.31
ACGTcount: A:0.10, C:0.15, G:0.13, T:0.61
Consensus pattern (28 bp):
CTTGTTGATTTCTCTTTCCTTGACATTT
Found at i:875561 original size:148 final size:155
Alignment explanation
Indices: 875308--875681 Score: 403
Period size: 148 Copynumber: 2.5 Consensus size: 155
875298 ATAGTTTTAA
* * * * *
875308 AAAATT-TTGAAATATTATAATTTAATTTATATTAAATCAGTTTTAAAAAATTCAATTTATTTTA
1 AAAATTCTTCAAATATTATTATTTAATTCATATTAAATCAGTTTTAAAAATTTTAATTTATTTTA
* * * * **
875372 TGAATTTTAGAAATTTTTTTATTTTTAAAATACAAAA-TTTTTTAGTTTGTAAATTGCTCTAG-T
66 TGAGTTTCAGAAATTTTTTTATTTTCAAAATACAAAATTTTTTTACTCCGTAAATT-CTCTAGTT
* * *
875435 AGTAT-TTTTTTGAGTTTATAAT-TTT
130 AGT-TGCTTTTTGAGTTTATAATCATC
* * * *
875460 AAAATTTTTC-AA-A-TATTA-TT-GTTCATATTAAA-CTATTTTTGAAAATTTTAATTTATTTT
1 AAAATTCTTCAAATATTATTATTTAATTCATATTAAATC-AGTTTTAAAAATTTTAATTTATTTT
** * * * *
875519 ATGAGTTTCAG-AATTTTTCTTATTTTCAAAATATGAAGTTTTTTTACTCCGTAAATTTTTTCGT
65 ATGAGTTTCAGAAATTTTT-TTATTTTCAAAATACAAAATTTTTTTACTCCGTAAATTCTCTAGT
875583 TAGTTGCTTTTTGAGTTTATAATCATC
129 TAGTTGCTTTTTGAGTTTATAATCATC
*
875610 AAAATTCTTCAAATATTATTATTTAATTCATATTAAATCAGTTTTAAAAATTTTAATTTATTTTG
1 AAAATTCTTCAAATATTATTATTTAATTCATATTAAATCAGTTTTAAAAATTTTAATTTATTTTA
875675 TGAGTTT
66 TGAGTTT
875682 GCATTTTTTC
Statistics
Matches: 181, Mismatches: 28, Indels: 23
0.78 0.12 0.10
Matches are distributed among these distances:
147 8 0.04
148 59 0.33
149 37 0.20
150 14 0.08
151 3 0.02
152 9 0.05
153 7 0.04
154 2 0.01
155 41 0.23
156 1 0.01
ACGTcount: A:0.34, C:0.06, G:0.07, T:0.52
Consensus pattern (155 bp):
AAAATTCTTCAAATATTATTATTTAATTCATATTAAATCAGTTTTAAAAATTTTAATTTATTTTA
TGAGTTTCAGAAATTTTTTTATTTTCAAAATACAAAATTTTTTTACTCCGTAAATTCTCTAGTTA
GTTGCTTTTTGAGTTTATAATCATC
Found at i:878090 original size:353 final size:353
Alignment explanation
Indices: 876949--878365 Score: 2207
Period size: 353 Copynumber: 4.0 Consensus size: 353
876939 TTTGTTGTAA
* * * *
876949 TTAATATATGTACATTTTTATATGATTTTATGATTTTTAGCATATTTTACCATGTAGGGGCAAAT
1 TTAACATATGTACATTTTCATATGATTTTATGATTTTTAGCATATTTTACCATGTAAGGACAAAT
* * *
877014 AAAATTTTCAAAAGTTTAGGGATTAAATAGCAAATTTTAGTTTTTAGTGGTAAAATCATCATTTT
66 GAAATTTTCAAAAGTTTAAGGATTAAAAAGCAAATTTTAGTTTTTAGTGGTAAAATCATCATTTT
* *
877079 AATCATTTTAAAATATTTCTTTTATTCCTAGGGCCTTCCATAGGGATATAGAAATTTGCAAAACT
131 AATCATTTTTAAATATTTCTTTTATTCCTATGGCCTTCCATAGGG-TATAGAAATTTGCAAAACT
* * **
877144 TTCGTATCCTCTT-CGTTTTTGGTTAGGTACGAAATGAAATTTTCAAAAGTTTAGGGAATTAAAT
195 TTCATATCCT-TTCCATTTTTCTTTAGGTACGAAATGAAATTTTCAAAAGTTTAGGGAATTAAAT
* *
877208 AGAAAGTTTTAGTTTTTAGAGATAAAATTATCACTTTAGTTCA-TTTTAAAGATTTCTATTATTC
259 AGCAAGTTTTAGTTTTTAGAGATAAAATCATCACTTTAGTTCATTTTTAAAGATTTCTATTATTC
* *
877272 CCATGGCCTTCCTTAAGGTTATAGAAATTT
324 CCATGGCCTTCCCTAAGGGTATAGAAATTT
*
877302 TTAACATATGTACATTTTCATACGATTTTATGATTTTTAGCATATTTTACCATGTAAGGACAAAT
1 TTAACATATGTACATTTTCATATGATTTTATGATTTTTAGCATATTTTACCATGTAAGGACAAAT
* *
877367 GAAATTTTCAAAAGTTT-AGAGATTAAAAGGAAAATTTTAGTTTTTAGTGGTAAAATCATCATTT
66 GAAATTTTCAAAAGTTTAAG-GATTAAAAAGCAAATTTTAGTTTTTAGTGGTAAAATCATCATTT
* * *
877431 TTATCACTTTTAAATATTTCTTTTATTCCTATGGCCTTCTATAGGAGTATAGAAATTTGCAAAAC
130 TAATCATTTTTAAATATTTCTTTTATTCCTATGGCCTTCCATAGG-GTATAGAAATTTGCAAAAC
* * ** * * * *
877496 TTTCGTATCCTCTCTGTTTTTCATTAGATACAAAATGAAAATTTCAAAAGTTTAGGGAATTAAAT
194 TTTCATATCCTTTCCATTTTTCTTTAGGTACGAAATGAAATTTTCAAAAGTTTAGGGAATTAAAT
*
877561 AGCAAGTTTTAGTTTTTAGAGATAAAAATCATCACTTTAGTTCATTTTTAAAGATTTTTATTATT
259 AGCAAGTTTTAGTTTTTAGAGAT-AAAATCATCACTTTAGTTCATTTTTAAAGATTTCTATTATT
877626 CCCATGGCCTTCCCTAAGGGTATAGAAATTT
323 CCCATGGCCTTCCCTAAGGGTATAGAAATTT
* * *
877657 TTATCATATGTACATTTTTATATGATTTTATGATTTTTAGCATATTTTACCTTGTAAGGACAAAT
1 TTAACATATGTACATTTTCATATGATTTTATGATTTTTAGCATATTTTACCATGTAAGGACAAAT
877722 GAAATTTTCAAAAGTTTAAGGATTAAAAAGCAAATTTTAGTTTTTAGTGGTAAAATCATCATTTT
66 GAAATTTTCAAAAGTTTAAGGATTAAAAAGCAAATTTTAGTTTTTAGTGGTAAAATCATCATTTT
* * *
877787 AATCATTTTTAAATATTTCTTTTATTCCTAAGGCCTTCTATAAGGGTATAGAAGTTTGCAAAACT
131 AATCATTTTTAAATATTTCTTTTATTCCTATGGCCTTCCAT-AGGGTATAGAAATTTGCAAAACT
* *
877852 TTTATATCCTTTCCATTTTTCTTTAGGTATGAAATG-AATTTTCAAAAGTTTAGGGAATTAAATA
195 TTCATATCCTTTCCATTTTTCTTTAGGTACGAAATGAAATTTTCAAAAGTTTAGGGAATTAAATA
* *
877916 GCAAGTTTTAGTTTTTATAGATAAAATCATCACTTTAGTTCATTTTTAAAGATTTCTATTATTCT
260 GCAAGTTTTAGTTTTTAGAGATAAAATCATCACTTTAGTTCATTTTTAAAGATTTCTATTATTCC
*
877981 CATGGCTTTCCCTAAGGGTATAGAAATTT
325 CATGGCCTTCCCTAAGGGTATAGAAATTT
878010 TTAACATATGTACATTTTCATATGATTTTATGATTTTTAGCATATTTTACCATGTAAGGACAAAT
1 TTAACATATGTACATTTTCATATGATTTTATGATTTTTAGCATATTTTACCATGTAAGGACAAAT
* * * * *
878075 TAAATTTTTAAAAGTTTAGGGATTAAATAGCAAATTTTATTTTTTAGTGGTAAAATCATCATTTT
66 GAAATTTTCAAAAGTTTAAGGATTAAAAAGCAAATTTTAGTTTTTAGTGGTAAAATCATCATTTT
878140 AATCATTTTTAAATATTTCTTTTATTCCTATGGCCTTCCATAGAGGTATAGAAATTTGCAAAACT
131 AATCATTTTTAAATATTTCTTTTATTCCTATGGCCTTCCATAG-GGTATAGAAATTTGCAAAACT
* *
878205 TTCCATATCCTTTTCATTTTT-TGCTAGGTACGAAATGAAATTTTCAAAA-TTGTAGGGAATTAA
195 TT-CATATCCTTTCCATTTTTCT-TTAGGTACGAAATGAAATTTTCAAAAGTT-TAGGGAATTAA
* * *
878268 ATAGGAAATTTTAGTTTTTAGAGGTAAAATCATCACTTTAGTTCATTTTTAAAGATTTCTATTAT
257 ATAGCAAGTTTTAGTTTTTAGAGATAAAATCATCACTTTAGTTCATTTTTAAAGATTTCTATTAT
* *
878333 TCCTATGGCCTTCCCTAAAGGTATAGAAATTT
322 TCCCATGGCCTTCCCTAAGGGTATAGAAATTT
878365 T
1 T
878366 CAAGACTTTT
Statistics
Matches: 978, Mismatches: 74, Indels: 22
0.91 0.07 0.02
Matches are distributed among these distances:
352 4 0.00
353 506 0.52
354 98 0.10
355 365 0.37
356 5 0.01
ACGTcount: A:0.33, C:0.11, G:0.13, T:0.43
Consensus pattern (353 bp):
TTAACATATGTACATTTTCATATGATTTTATGATTTTTAGCATATTTTACCATGTAAGGACAAAT
GAAATTTTCAAAAGTTTAAGGATTAAAAAGCAAATTTTAGTTTTTAGTGGTAAAATCATCATTTT
AATCATTTTTAAATATTTCTTTTATTCCTATGGCCTTCCATAGGGTATAGAAATTTGCAAAACTT
TCATATCCTTTCCATTTTTCTTTAGGTACGAAATGAAATTTTCAAAAGTTTAGGGAATTAAATAG
CAAGTTTTAGTTTTTAGAGATAAAATCATCACTTTAGTTCATTTTTAAAGATTTCTATTATTCCC
ATGGCCTTCCCTAAGGGTATAGAAATTT
Found at i:878310 original size:708 final size:707
Alignment explanation
Indices: 876954--878365 Score: 2275
Period size: 708 Copynumber: 2.0 Consensus size: 707
876944 TGTAATTAAT
* *
876954 ATATGTACATTTTTATATGATTTTATGATTTTTAGCATATTTTACCATGTAGGGGCAAATAAAAT
1 ATATGTACATTTTTATATGATTTTATGATTTTTAGCATATTTTACCATGTAAGGACAAATAAAAT
* *
877019 TTTCAAAAGTTTAGGGATTAAATAGCAAATTTTAGTTTTTAGTGGTAAAATCATCATTTTAATCA
66 TTTCAAAAGTTTAAGGATTAAAAAGCAAATTTTAGTTTTTAGTGGTAAAATCATCATTTTAATCA
* *
877084 TTTTAAAATATTTCTTTTATTCCTAGGGCCTTCCATAGGGATATAGAAATTTGCAAAACTTTCGT
131 TTTTAAAATATTTCTTTTATTCCTAAGGCCTTCCATAGGGATATAGAAATTTGCAAAACTTTCAT
* *
877149 ATCCTCTTCGTTTTTGGTTAGGTACGAAATGAAATTTTCAAAAGTTTAGGGAATTAAATAGAAAG
196 ATCCTCTTCATTTTTCGTTAGGTACGAAATGAAATTTTCAAAAGTTTAGGGAATTAAATAGAAAG
*
877214 TTTTAGTTTTTAGAGATAAAATTATCACTTTAGTTCATTTTAAAGATTTCTATTATTCCCATGGC
261 TTTTAGTTTTTAGAGATAAAATCATCACTTTAGTTCATTTTAAAGATTTCTATTATTCCCATGGC
* *
877279 CTTCCTTAAGGTTATAGAAATTTTTAACATATGTACATTTTCATACGATTTTATGATTTTTAGCA
326 CTTCCCTAAGGGTATAGAAATTTTTAACATATGTACATTTTCATACGATTTTATGATTTTTAGCA
877344 TATTTTACCATGTAAGGACAAATGAAATTTTCAAAAGTTTAGAGATTAAAAGGAAAATTTTAGTT
391 TATTTTACCATGTAAGGACAAATGAAATTTTCAAAAGTTTAGAGATTAAAAGGAAAATTTTAGTT
* *
877409 TTTAGTGGTAAAATCATCATTTTTATCACTTTTAAATATTTCTTTTATTCCTATGGCCTTCTATA
456 TTTAGTGGTAAAATCATCATTTTAATCACTTTTAAATATTTCTTTTATTCCTATGGCCTTCCATA
*
877474 GGAGTATAGAAATTTGCAAAACTTTCGTATCCTCTCTGTTTTTCATTAGATACAAAATGAAAATT
521 GGAGTATAGAAATTTGCAAAACTTTCATATCCTCTCTGTTTTTCA-TAGATACAAAATGAAAATT
*
877539 TCAAAAGTTTAGGGAATTAAATAGCAAGTTTTAGTTTTTAGAGATAAAAATCATCACTTTAGTTC
585 TCAAAAGTTTAGGGAATTAAATAGCAAATTTTAGTTTTTAGAGATAAAAATCATCACTTTAGTTC
* *
877604 ATTTTTAAAGATTTTTATTATTCCCATGGCCTTCCCTAAGGGTATAGAAATTTTTATC
650 ATTTTTAAAGATTTCTATTATTCCCATGGCCTTCCCTAAAGGTATAGAAATTTTTATC
* *
877662 ATATGTACATTTTTATATGATTTTATGATTTTTAGCATATTTTACCTTGTAAGGACAAATGAAAT
1 ATATGTACATTTTTATATGATTTTATGATTTTTAGCATATTTTACCATGTAAGGACAAATAAAAT
877727 TTTCAAAAGTTTAAGGATTAAAAAGCAAATTTTAGTTTTTAGTGGTAAAATCATCATTTTAATCA
66 TTTCAAAAGTTTAAGGATTAAAAAGCAAATTTTAGTTTTTAGTGGTAAAATCATCATTTTAATCA
* * * *
877792 TTTTTAAATATTTCTTTTATTCCTAAGGCCTTCTATAAGGG-TATAGAAGTTTGCAAAACTTTTA
131 TTTTAAAATATTTCTTTTATTCCTAAGGCCTTCCAT-AGGGATATAGAAATTTGCAAAACTTTCA
* * *
877856 TATCCT-TTCCATTTTTCTTTAGGTATGAAATG-AATTTTCAAAAGTTTAGGGAATTAAATAGCA
195 TATCCTCTT-CATTTTTCGTTAGGTACGAAATGAAATTTTCAAAAGTTTAGGGAATTAAATAGAA
* *
877919 AGTTTTAGTTTTTATAGATAAAATCATCACTTTAGTTCATTTTTAAAGATTTCTATTATTCTCAT
259 AGTTTTAGTTTTTAGAGATAAAATCATCACTTTAGTTCA-TTTTAAAGATTTCTATTATTCCCAT
* *
877984 GGCTTTCCCTAAGGGTATAGAAATTTTTAACATATGTACATTTTCATATGATTTTATGATTTTTA
323 GGCCTTCCCTAAGGGTATAGAAATTTTTAACATATGTACATTTTCATACGATTTTATGATTTTTA
* * * *
878049 GCATATTTTACCATGTAAGGACAAATTAAATTTTTAAAAGTTTAGGGATTAAATA-GCAAATTTT
388 GCATATTTTACCATGTAAGGACAAATGAAATTTTCAAAAGTTTAGAGATTAAA-AGGAAAATTTT
* *
878113 ATTTTTTAGTGGTAAAATCATCATTTTAATCATTTTTAAATATTTCTTTTATTCCTATGGCCTTC
452 AGTTTTTAGTGGTAAAATCATCATTTTAATCACTTTTAAATATTTCTTTTATTCCTATGGCCTTC
* * *
878178 CATA-GAGGTATAGAAATTTGCAAAACTTTCCATATCCTTTTCAT-TTTTTGC-TAGGTACGAAA
517 CATAGGA-GTATAGAAATTTGCAAAACTTT-CATATCC-TCTC-TGTTTTT-CATAGATACAAAA
* * *
878240 TGAAATTTTCAAAA-TTGTAGGGAATTAAATAGGAAATTTTAGTTTTTAGAGGT-AAAATCATCA
577 TGAAAATTTCAAAAGTT-TAGGGAATTAAATAGCAAATTTTAGTTTTTAGAGATAAAAATCATCA
*
878303 CTTTAGTTCATTTTTAAAGATTTCTATTATTCCTATGGCCTTCCCTAAAGGTATAGAAATTTT
641 CTTTAGTTCATTTTTAAAGATTTCTATTATTCCCATGGCCTTCCCTAAAGGTATAGAAATTTT
878366 CAAGACTTTT
Statistics
Matches: 651, Mismatches: 43, Indels: 20
0.91 0.06 0.03
Matches are distributed among these distances:
707 71 0.11
708 504 0.77
709 66 0.10
710 8 0.01
711 2 0.00
ACGTcount: A:0.33, C:0.11, G:0.13, T:0.43
Consensus pattern (707 bp):
ATATGTACATTTTTATATGATTTTATGATTTTTAGCATATTTTACCATGTAAGGACAAATAAAAT
TTTCAAAAGTTTAAGGATTAAAAAGCAAATTTTAGTTTTTAGTGGTAAAATCATCATTTTAATCA
TTTTAAAATATTTCTTTTATTCCTAAGGCCTTCCATAGGGATATAGAAATTTGCAAAACTTTCAT
ATCCTCTTCATTTTTCGTTAGGTACGAAATGAAATTTTCAAAAGTTTAGGGAATTAAATAGAAAG
TTTTAGTTTTTAGAGATAAAATCATCACTTTAGTTCATTTTAAAGATTTCTATTATTCCCATGGC
CTTCCCTAAGGGTATAGAAATTTTTAACATATGTACATTTTCATACGATTTTATGATTTTTAGCA
TATTTTACCATGTAAGGACAAATGAAATTTTCAAAAGTTTAGAGATTAAAAGGAAAATTTTAGTT
TTTAGTGGTAAAATCATCATTTTAATCACTTTTAAATATTTCTTTTATTCCTATGGCCTTCCATA
GGAGTATAGAAATTTGCAAAACTTTCATATCCTCTCTGTTTTTCATAGATACAAAATGAAAATTT
CAAAAGTTTAGGGAATTAAATAGCAAATTTTAGTTTTTAGAGATAAAAATCATCACTTTAGTTCA
TTTTTAAAGATTTCTATTATTCCCATGGCCTTCCCTAAAGGTATAGAAATTTTTATC
Found at i:878446 original size:167 final size:167
Alignment explanation
Indices: 878071--878446 Score: 462
Period size: 168 Copynumber: 2.3 Consensus size: 167
878061 ATGTAAGGAC
* * *
878071 AAATTAAATTTTT-AAAAGTTTA-GGGATTAAATAGCAAATTTTATTTTTTAGTGGTAAAATCAT
1 AAATAAAATTTTTCAAAAGTTTAGGGGATTAAATAG-AAATTTTAGTTTTTAGAGGTAAAATCAT
* * * *
878134 CATTTTAATCATTTTTAAATATTTCTTTTATTCCTATGGCCTTCCATAGAGGTATAGAAATTTGC
65 CACTTTAATCATTTTTAAAGATTTCTATTATTCCTATGGCCTTCCATAAAGGTATAGAAATTTGC
* *
878199 AAAACTTTCCATATCCTTTTCATTTTTTGCTAGGTACG
130 AAAACTTTCCATATCCTTCTCAATTTTTGCTAGGTACG
* *
878237 AAATGAAA-TTTTCAAAA-TTGTAGGGAATTAAATAGGAAATTTTAGTTTTTAGAGGTAAAATCA
1 AAATAAAATTTTTCAAAAGTT-TAGGGGATTAAATA-GAAATTTTAGTTTTTAGAGGTAAAATCA
* *
878300 TCACTTTAGTTCATTTTTAAAGATTTCTATTATTCCTATGGCCTTCCCTAAAGGTATAGAAATTT
64 TCACTTTA-ATCATTTTTAAAGATTTCTATTATTCCTATGGCCTTCCATAAAGGTATAGAAATTT
* * **
878365 TCAAGACTTT-TTTAATCC-TCTCAATTTTT-CATCAGGTACG
128 GCAAAACTTTCCAT-ATCCTTCTCAATTTTTGC-T-AGGTACG
* *
878405 AAATAAAATTTTTCAAAAGTTTAGGGGCTTAATTA-AAATTTT
1 AAATAAAATTTTTCAAAAGTTTAGGGGATTAAATAGAAATTTT
878447 TGAATTTTAA
Statistics
Matches: 180, Mismatches: 20, Indels: 19
0.82 0.09 0.09
Matches are distributed among these distances:
165 6 0.03
166 14 0.08
167 60 0.33
168 78 0.43
169 20 0.11
170 2 0.01
ACGTcount: A:0.34, C:0.12, G:0.12, T:0.42
Consensus pattern (167 bp):
AAATAAAATTTTTCAAAAGTTTAGGGGATTAAATAGAAATTTTAGTTTTTAGAGGTAAAATCATC
ACTTTAATCATTTTTAAAGATTTCTATTATTCCTATGGCCTTCCATAAAGGTATAGAAATTTGCA
AAACTTTCCATATCCTTCTCAATTTTTGCTAGGTACG
Found at i:878842 original size:155 final size:153
Alignment explanation
Indices: 878506--878844 Score: 407
Period size: 155 Copynumber: 2.2 Consensus size: 153
878496 TTTATCATTT
* *
878506 CTTTTTAT--TATTTTAGTGTCCATTAGGATTACCGAAATACTTTCATGTCGAAGGTATACTTAA
1 CTTTTTATGATATTTTAGTGTCCTTTAGGGTTACCGAAATACTTTCATGTCGAAGGTATACTTAA
* * * * *
878569 GGGCATTTTTGTAATTTCATAAATTTGAGTCTTAGGTAGTCACCAAGTCGCTTTGATGCCAAAGG
66 GAGCATTTTTATAATTTCATAAAATCGAGTCTTAGGTAGTCAACAAGTCGCTTTGATGCCAAAGG
* *
878634 TCTACATATAGGATAGATTCGTC
131 TCTACATATAAGATAGATTCATC
* * * *
878657 CTTTTTATGATCCTTTCA-TGT-CTTTCAGGGTTACCGAGATACTTTCATGTCGAATGTATACCT
1 CTTTTTATGAT-ATTTTAGTGTCCTTT-AGGGTTACCGAAATACTTTCATGTCGAAGGTATA-CT
** * ** * *
878720 TAAGAGCATTTTTATGCTTTGCCTAAAATCGAGTCTTAGGTAGTCAACGGGTTGCTTTTATGCCA
63 TAAGAGCATTTTTATAATTT-CATAAAATCGAGTCTTAGGTAGTCAACAAGTCGCTTTGATGCCA
* *
878785 AAGGTCTACTTATAAGATAGGTTCATC
127 AAGGTCTACATATAAGATAGATTCATC
*
878812 CTTTTTATGATATTTTTGTGTCCTTTAGGGTTA
1 CTTTTTATGATATTTTAGTGTCCTTTAGGGTTA
878845 TTGGGGGACT
Statistics
Matches: 155, Mismatches: 25, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
151 8 0.05
152 3 0.02
153 35 0.23
154 25 0.16
155 80 0.52
156 4 0.03
ACGTcount: A:0.25, C:0.16, G:0.19, T:0.40
Consensus pattern (153 bp):
CTTTTTATGATATTTTAGTGTCCTTTAGGGTTACCGAAATACTTTCATGTCGAAGGTATACTTAA
GAGCATTTTTATAATTTCATAAAATCGAGTCTTAGGTAGTCAACAAGTCGCTTTGATGCCAAAGG
TCTACATATAAGATAGATTCATC
Found at i:878884 original size:155 final size:155
Alignment explanation
Indices: 878595--878886 Score: 343
Period size: 155 Copynumber: 1.9 Consensus size: 155
878585 TCATAAATTT
* * *
878595 GAGTCTTAGGTAGTCACCAAGTCGCTTTGATGCCAAAGGTCTACATATAGGATAGATTCGTCCTT
1 GAGTCTTAGGTAGTCAACAAGTCGCTTTGATGCCAAAGGTCTACATATAAGATAGATTCATCCTT
* * * * * **
878660 TTTATGATCCTTTCATGTCTTTCAGGGTTACCGAGATACTTTCATGTCGAATGTATACCTTAAGA
66 TTTATGATACTTTCATGTCTTTCAGGGTTACCGAGAGACTTTAATGTCAAAGGTATACCCCAAGA
878725 GCATTTTTATGCTTTGCCTAAAATC
131 GCATTTTTATGCTTTGCCTAAAATC
** * * * *
878750 GAGTCTTAGGTAGTCAACGGGTTGCTTTTATGCCAAAGGTCTACTTATAAGATAGGTTCATCCTT
1 GAGTCTTAGGTAGTCAACAAGTCGCTTTGATGCCAAAGGTCTACATATAAGATAGATTCATCCTT
* ** ** * * *
878815 TTTATGATATTTTTGTGTCCTTT-AGGGTTATTGGGGGACTTTAATGTTAAAGGTATACCCCAAG
66 TTTATGATACTTTCATGT-CTTTCAGGGTTACCGAGAGACTTTAATGTCAAAGGTATACCCCAAG
*
878879 GGCATTTT
130 AGCATTTT
878887 CATAATTTTT
Statistics
Matches: 111, Mismatches: 25, Indels: 2
0.80 0.18 0.01
Matches are distributed among these distances:
155 107 0.96
156 4 0.04
ACGTcount: A:0.24, C:0.17, G:0.21, T:0.38
Consensus pattern (155 bp):
GAGTCTTAGGTAGTCAACAAGTCGCTTTGATGCCAAAGGTCTACATATAAGATAGATTCATCCTT
TTTATGATACTTTCATGTCTTTCAGGGTTACCGAGAGACTTTAATGTCAAAGGTATACCCCAAGA
GCATTTTTATGCTTTGCCTAAAATC
Found at i:882636 original size:166 final size:165
Alignment explanation
Indices: 882308--882895 Score: 580
Period size: 166 Copynumber: 3.5 Consensus size: 165
882298 TGGGTTTAAT
* * * * * *
882308 ATTTTTAAAATTCATCAAACATTA-CTATTT-AGTTCATATTAAATTAGTCTTCAGAAATGCATT
1 ATTTTTAAAATTCATCAAATATTATC-ATTTGA-TTCACATTAAATCAGTTTTCAAAAATTCATT
** * * * *
882371 CATTTTCATGAGTTTTTTTAATTGTTTCCTTGAAATTTCTCGGTTTTCGAAAAATAAAGTTTTCT
64 CATTTTCAT-A-AATTTTTAATTTTTTCCTTGAAATTTCT-TGTTTTTGAAAAACAAAGTTTTCT
* * *
882436 ACTCCGTAAATGTTTTG-AAGGGAATTTTTCTTGGTTTTTA
126 ACTTCGTAAAT-ATTTGCAGGGGAATTTTTCTTGGTTTTTA
**
882476 ATTTTTAAAATTCATCAAATATTATCATTTGATTCACATTAAATCAGTTGGCAAAAATTCACTT-
1 ATTTTTAAAATTCATCAAATATTATCATTTGATTCACATTAAATCAGTTTTCAAAAATTCA-TTC
* * **
882540 ATTTTCATAAATTTTTCAATTTTTTCCATGAAATTTCTTGTTTTTGAAATACGGAGTTTTCTACT
65 ATTTTCATAAATTTTT-AATTTTTTCCTTGAAATTTCTTGTTTTTGAAAAACAAAGTTTTCTACT
*
882605 TCGTAAATATTTGCAGGGGAATTTTTCTTGGTTTTTG
129 TCGTAAATATTTGCAGGGGAATTTTTCTTGGTTTTTA
* * * * * *
882642 ATTTTTAAAACTCATCAACTATTGTCATTTGATTCATATTAAATCACTTTTAAAAAAATT-ATTT
1 ATTTTTAAAATTCATCAAATATTATCATTTGATTCACATTAAATCAGTTTT-CAAAAATTCA-TT
* * * ** *
882706 CATTTCCAT-AAGTTTTAGATTTTTTCTTTGAAATGCCCTT-TTTTTGAAAAACTAAGTTTTCTA
64 CATTTTCATAAATTTTTA-ATTTTTTCCTTGAAAT-TTCTTGTTTTTGAAAAACAAAGTTTTCTA
* * * * **
882769 CTTCGTAAATATTTTCGGGGGGATTTTTCTTGATTTAAA
127 CTTCGTAAATATTTGCAGGGGAATTTTTCTTGGTTTTTA
* * * * * *
882808 ATTTTTAAAATTCATCTAATATTGTTATTTAATTCCCATTAAATCAGTTTTCAAAAATTCAATTT
1 ATTTTTAAAATTCATCAAATATTATCATTTGATTCACATTAAATCAGTTTTCAAAAATTC-ATTC
*
882873 A-TTTCATAAATTTTGAATTTTTT
65 ATTTTCATAAATTTTTAATTTTTT
882896 GTTATATATA
Statistics
Matches: 348, Mismatches: 60, Indels: 27
0.80 0.14 0.06
Matches are distributed among these distances:
165 24 0.07
166 225 0.65
167 38 0.11
168 57 0.16
169 4 0.01
ACGTcount: A:0.31, C:0.12, G:0.10, T:0.48
Consensus pattern (165 bp):
ATTTTTAAAATTCATCAAATATTATCATTTGATTCACATTAAATCAGTTTTCAAAAATTCATTCA
TTTTCATAAATTTTTAATTTTTTCCTTGAAATTTCTTGTTTTTGAAAAACAAAGTTTTCTACTTC
GTAAATATTTGCAGGGGAATTTTTCTTGGTTTTTA
Found at i:883245 original size:21 final size:21
Alignment explanation
Indices: 883221--883268 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
883211 AACTCAACAA
*
883221 AAAAAAGAGAAAAAGAGAGAG
1 AAAAAAGAGAAAAAAAGAGAG
883242 AAAAAAGAGAAAAAAAGAGAG
1 AAAAAAGAGAAAAAAAGAGAG
883263 AAAAAA
1 AAAAAA
883269 ATGGGAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (21 bp):
AAAAAAGAGAAAAAAAGAGAG
Found at i:883245 original size:23 final size:23
Alignment explanation
Indices: 883219--883269 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
883209 AAAACTCAAC
883219 AAAAAAAAGAG--AAAAAGAGAG
1 AAAAAAAAGAGAAAAAAAGAGAG
*
883240 AGAAAAAAGAGAAAAAAAGAGAG
1 AAAAAAAAGAGAAAAAAAGAGAG
883263 AAAAAAA
1 AAAAAAA
883270 TGGGAAAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
21 10 0.38
23 16 0.62
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (23 bp):
AAAAAAAAGAGAAAAAAAGAGAG
Found at i:883277 original size:21 final size:20
Alignment explanation
Indices: 883220--883277 Score: 62
Period size: 23 Copynumber: 2.7 Consensus size: 20
883210 AAACTCAACA
*
883220 AAAAAAAGAGAAAAAGAGAG
1 AAAAAAAGGGAAAAAGAGAG
*
883240 AGAAAAAAGAGAAAAAAAGAGAG
1 A-AAAAAAG-G-GAAAAAGAGAG
883263 AAAAAAATGGGAAAA
1 AAAAAAA-GGGAAAA
883278 TTTGTTAGCA
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
20 1 0.03
21 11 0.35
22 7 0.23
23 12 0.39
ACGTcount: A:0.74, C:0.00, G:0.24, T:0.02
Consensus pattern (20 bp):
AAAAAAAGGGAAAAAGAGAG
Found at i:884474 original size:12 final size:11
Alignment explanation
Indices: 884458--884488 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
884448 TTTTCAAAAT
884458 TAAAAATTAAA
1 TAAAAATTAAA
*
884469 TAAAAATTAGA
1 TAAAAATTAAA
884480 TAAAAATTA
1 TAAAAATTA
884489 TTTTCCCAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (11 bp):
TAAAAATTAAA
Found at i:885675 original size:13 final size:13
Alignment explanation
Indices: 885659--885686 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
885649 TTTATAAAAT
885659 ATCATTTATGGGG
1 ATCATTTATGGGG
885672 ATCATTTATGGGG
1 ATCATTTATGGGG
885685 AT
1 AT
885687 TATAATTAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.25, C:0.07, G:0.29, T:0.39
Consensus pattern (13 bp):
ATCATTTATGGGG
Found at i:887432 original size:13 final size:13
Alignment explanation
Indices: 887400--887435 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
887390 TAGTAACCCA
*
887400 TGTATCAATACAT
1 TGTATCGATACAT
887413 TGTATCGATACAT
1 TGTATCGATACAT
887426 TGTATCGATA
1 TGTATCGATA
887436 TATCTGGGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:887475 original size:20 final size:21
Alignment explanation
Indices: 887447--887486 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
887437 ATCTGGGTTT
887447 TTTCAAATGTATCAATACATC
1 TTTCAAATGTATCAATACATC
887468 TTTC-AATGTATCAATACAT
1 TTTCAAATGTATCAATACAT
887487 TCTGGAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.38, C:0.17, G:0.05, T:0.40
Consensus pattern (21 bp):
TTTCAAATGTATCAATACATC
Found at i:891987 original size:15 final size:15
Alignment explanation
Indices: 891969--892003 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
891959 CGAGTCAACT
891969 TCATCATTATCATCA
1 TCATCATTATCATCA
*
891984 TCATCATTATCTTCA
1 TCATCATTATCATCA
891999 TCATC
1 TCATC
892004 TTTGATGGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.29, C:0.29, G:0.00, T:0.43
Consensus pattern (15 bp):
TCATCATTATCATCA
Found at i:893631 original size:21 final size:21
Alignment explanation
Indices: 893601--893648 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
893591 CAATGAATCA
*
893601 ATAC-AATTCTTCATGCATTG
1 ATACAAATTCTTCATGCATCG
*
893621 ATACAAATTCTTCATGTATCG
1 ATACAAATTCTTCATGCATCG
893642 ATACAAA
1 ATACAAA
893649 CAGTGGTAGG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 4 0.16
21 21 0.84
ACGTcount: A:0.38, C:0.19, G:0.08, T:0.35
Consensus pattern (21 bp):
ATACAAATTCTTCATGCATCG
Found at i:894078 original size:22 final size:22
Alignment explanation
Indices: 894053--894094 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
894043 TACTCATGAA
894053 ATTTTTATCTTTACCATTTTGG
1 ATTTTTATCTTTACCATTTTGG
894075 ATTTTTATCTTTACCATTTT
1 ATTTTTATCTTTACCATTTT
894095 TTAAAAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.19, C:0.14, G:0.05, T:0.62
Consensus pattern (22 bp):
ATTTTTATCTTTACCATTTTGG
Found at i:894675 original size:155 final size:151
Alignment explanation
Indices: 894361--894645 Score: 371
Period size: 155 Copynumber: 1.9 Consensus size: 151
894351 ATACAAGGCT
*
894361 TTTTTACTCTGTAAATTTCTCTAGTAGTATTTTTCTTACTTTATAATTGTCAAAATTCTTCAAAT
1 TTTTTACTCTGTAAATTTCTCAAGTAGTATTTTTCTTACTTTATAATTGTCAAAATTCTTCAAAT
* * * *
894426 ATTATTGTTTAATTCATATTAAATCAGTTTTGAAAATTTTAATTTATTTTATGAATTTTAAAATT
66 ATTATTGTTTAATTCATATTAAATCAATTTTGAAAATTTT-ATCTATTTTA-GAAATATAAAATT
894491 TTTCCTATTTTCAAAATATGGAGTA
129 TTTCCTATTTTCAAAATA-GGAG-A
* * * * **
894516 TTTTTGCTCTGTAAATTTCTCAAGTAGTATTTTT-TTGAGTTTATAATTTTCAAAATTCTTTATG
1 TTTTTACTCTGTAAATTTCTCAAGTAGTATTTTTCTT-ACTTTATAATTGTCAAAATTCTTCAAA
*
894580 TATTATTGTTTAATTCATATTAAATCAATTTTG-AAATTTT-TCCTATTTTCA-AAATATAGAAT
65 TATTATTGTTTAATTCATATTAAATCAATTTTGAAAATTTTAT-CTATTTT-AGAAATATAAAAT
894642 TTTT
128 TTTT
894646 TACTCCGTAA
Statistics
Matches: 115, Mismatches: 12, Indels: 9
0.85 0.09 0.07
Matches are distributed among these distances:
152 13 0.11
153 6 0.05
154 10 0.09
155 86 0.75
ACGTcount: A:0.31, C:0.09, G:0.07, T:0.53
Consensus pattern (151 bp):
TTTTTACTCTGTAAATTTCTCAAGTAGTATTTTTCTTACTTTATAATTGTCAAAATTCTTCAAAT
ATTATTGTTTAATTCATATTAAATCAATTTTGAAAATTTTATCTATTTTAGAAATATAAAATTTT
TCCTATTTTCAAAATAGGAGA
Found at i:894697 original size:126 final size:125
Alignment explanation
Indices: 894479--894853 Score: 486
Period size: 126 Copynumber: 3.0 Consensus size: 125
894469 TTATTTTATG
* * * *
894479 AATTTTAAAATTTTTCCTATTTTCAAAATATGGAGTATTTTTGCTCTGTAAATTTCTCAAGTAGT
1 AATTTTAAAATTTTTCCTATTTTCAAAATAT-GAAT-TTTTTACTCCGTAAATTTTTCAAGTAGT
* **
894544 ATTTTTTTGAGTTTATAATTTTCAAAATTCTTTATGTATTATTGTTTAATTCATATTAAATC
64 ATTTTTTTGAGTTTATAATTTTTAAAATTCTTTAAATATTATTGTTTAATTCATATTAAATC
* * *
894606 AATTTTGAAATTTTTCCTATTTTCAAAATATAGAATTTTTTACTCCGTAAATTTTTCAACTAGAA
1 AATTTTAAAATTTTTCCTATTTTCAAAATAT-GAATTTTTTACTCCGTAAATTTTTCAAGTAGTA
* * *
894671 TTTTTTTGAGTTTATAATTTTTAAAATT-TTTCAAATATTATGGTTTAATACACATTAAATC
65 TTTTTTTGAGTTTATAATTTTTAAAATTCTTT-AAATATTATTGTTTAATTCATATTAAATC
* * * *
894732 AATTTTAAAATTTTTCCTGTTTTCAAAATATGAAGTTTTTTTAATCCGTAAATTTTTTC-GGTTG
1 AATTTTAAAATTTTTCCTATTTTCAAAATATGAA--TTTTTTACTCCGTAAA-TTTTTCAAGTAG
* *
894796 TATTTTTCTT-AGTTTCTAATCTTTAAAATTCTTTAAATATTATTGTTTAATTCATATT
63 TATTTTT-TTGAGTTTATAATTTTTAAAATTCTTTAAATATTATTGTTTAATTCATATT
894854 TAATTTTGAA
Statistics
Matches: 216, Mismatches: 26, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
125 6 0.03
126 104 0.48
127 95 0.44
128 11 0.05
ACGTcount: A:0.31, C:0.09, G:0.07, T:0.52
Consensus pattern (125 bp):
AATTTTAAAATTTTTCCTATTTTCAAAATATGAATTTTTTACTCCGTAAATTTTTCAAGTAGTAT
TTTTTTGAGTTTATAATTTTTAAAATTCTTTAAATATTATTGTTTAATTCATATTAAATC
Found at i:903740 original size:20 final size:19
Alignment explanation
Indices: 903697--903748 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
903687 ACATTATGCT
***
903697 TTGTATCGATACATGTTCA
1 TTGTATCGATACACACTCA
903716 TTGTATCGATACACACTCAA
1 TTGTATCGATACACACTC-A
*
903736 TTGTATCAATACA
1 TTGTATCGATACA
903749 TAAAACTGGC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
19 15 0.54
20 13 0.46
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.37
Consensus pattern (19 bp):
TTGTATCGATACACACTCA
Found at i:906176 original size:158 final size:156
Alignment explanation
Indices: 905771--906259 Score: 450
Period size: 158 Copynumber: 3.2 Consensus size: 156
905761 AGGGTTATCG
* * * *
905771 GGATACTTTTATGTCGAAGGTATGCT-TAGGGGCATTTTCAGAA-TTTCCTAAAATTGAGTAC-T
1 GGATACTTTTATGTCGAAAGTATACTCTAAGGGCATTTTCATAATTTTCCT-AAATTGAGT-CTT
* * *
905833 AGGTAGTCACTAGGTCATTTTTATGCCAAA---GGTCTACATATAGGATAGGTTCATCCTTTTTA
64 AGGTAGTCAC-CGGACACTTTTATGCCAAAGGTGGTCTACATATAGGATAGGTTCATCCTTTTTA
* * *
905895 TGATCT-TTTTGTGTCCTTTAAGGTTA-TC
128 TGAT-TATTTTATGTCTTTTAAGGTTACTA
* * * * * * * *
905923 GGATACTTTTATGACGAAGGTATACCCT-AGAGGTAGTTTCTTAATGTTCCTAAATTCGAGTTTT
1 GGATACTTTTATGTCGAAAGTATACTCTAAG-GGCATTTTCATAATTTTCCTAAATT-GAGTCTT
** *
905987 AGGTAGTCACCAAATCACTTTTATGCCAAAGGTGGTCTACATATAGGATAGGTTAATCCTTTTTA
64 AGGTAGTCACCGGA-CACTTTTATGCCAAAGGTGGTCTACATATAGGATAGGTTCATCCTTTTTA
*
906052 TGATTATTTCATGTCTTTTAAGGTTACTA
128 TGATTATTTTATGTCTTTTAAGGTTACTA
* *
906081 GGATA-TTTTCATGTCGAAAGTATACTCTAAGGGCATTTTCATAATTTTCCTAGAACTAAGTCTT
1 GGATACTTTT-ATGTCGAAAGTATACTCTAAGGGCATTTTCATAATTTTCCTA-AATTGAGTCTT
* * * * **
906145 AGGTTGTCACCGGGACACTTTAATGCCAAAGGT-G--TGCATTTAGGATAGGTTCATCCCATTTA
64 AGGTAGTCACC-GGACACTTTTATGCCAAAGGTGGTCTACATATAGGATAGGTTCATCCTTTTTA
* * *
906207 TGATCATTTTTTAGTCTTTT-AGGGT-CTA
128 TGATTATTTTAT-GTCTTTTAAGGTTACTA
* * *
906235 AGATACTTTCAAGTCGAAAGTATAC
1 GGATACTTTTATGTCGAAAGTATAC
906260 CCTAGAGACA
Statistics
Matches: 274, Mismatches: 46, Indels: 32
0.78 0.13 0.09
Matches are distributed among these distances:
152 24 0.09
153 15 0.05
154 55 0.20
155 39 0.14
156 8 0.03
157 57 0.21
158 70 0.26
159 6 0.02
ACGTcount: A:0.27, C:0.15, G:0.19, T:0.39
Consensus pattern (156 bp):
GGATACTTTTATGTCGAAAGTATACTCTAAGGGCATTTTCATAATTTTCCTAAATTGAGTCTTAG
GTAGTCACCGGACACTTTTATGCCAAAGGTGGTCTACATATAGGATAGGTTCATCCTTTTTATGA
TTATTTTATGTCTTTTAAGGTTACTA
Found at i:909473 original size:20 final size:20
Alignment explanation
Indices: 909448--909505 Score: 75
Period size: 19 Copynumber: 3.0 Consensus size: 20
909438 CTGTCAATTT
*
909448 CATGTATCGATACAATTGTC
1 CATGTATCGATACAATTGTA
* *
909468 CATGTATCGATATAA-TGAA
1 CATGTATCGATACAATTGTA
909487 CATGTATCGATAC-ATTGTA
1 CATGTATCGATACAATTGTA
909506 TCGATACAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
18 1 0.03
19 17 0.53
20 14 0.44
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (20 bp):
CATGTATCGATACAATTGTA
Found at i:909507 original size:13 final size:13
Alignment explanation
Indices: 909489--909513 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
909479 ATAATGAACA
909489 TGTATCGATACAT
1 TGTATCGATACAT
909502 TGTATCGATACA
1 TGTATCGATACA
909514 AAGCATAATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:913451 original size:9 final size:9
Alignment explanation
Indices: 913416--913497 Score: 62
Period size: 9 Copynumber: 8.8 Consensus size: 9
913406 AAGAGAAAGA
913416 AGAGATAGG
1 AGAGATAGG
*
913425 AGGGAT--G
1 AGAGATAGG
*
913432 ATAGA-AGG
1 AGAGATAGG
913440 AGAGATAGG
1 AGAGATAGG
*
913449 AGAGATAGT
1 AGAGATAGG
913458 AGAGATAGG
1 AGAGATAGG
913467 AAGGATGATAGGAGG
1 -A-GA-GAT---AGG
913482 AGAGATAGG
1 AGAGATAGG
913491 AGAGATA
1 AGAGATA
913498 ATAGAGAGAG
Statistics
Matches: 58, Mismatches: 6, Indels: 18
0.71 0.07 0.22
Matches are distributed among these distances:
7 4 0.07
8 5 0.09
9 34 0.59
10 1 0.02
11 2 0.03
12 6 0.10
13 2 0.03
14 1 0.02
15 3 0.05
ACGTcount: A:0.44, C:0.00, G:0.43, T:0.13
Consensus pattern (9 bp):
AGAGATAGG
Found at i:913463 original size:18 final size:18
Alignment explanation
Indices: 913440--913510 Score: 61
Period size: 18 Copynumber: 3.6 Consensus size: 18
913430 TGATAGAAGG
913440 AGAGATAGGAGAGATAGT
1 AGAGATAGGAGAGATAGT
*
913458 AGAGATAGGAAGGATGATAGGAGG
1 AGAGATAGG-A-GA-GAT---AGT
*
913482 AGAGATAGGAGAGATAAT
1 AGAGATAGGAGAGATAGT
*
913500 AGAGAGAGGAG
1 AGAGATAGGAG
913511 GGATGACAAG
Statistics
Matches: 43, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
18 20 0.47
19 1 0.02
20 2 0.05
21 6 0.14
22 2 0.05
23 1 0.02
24 11 0.26
ACGTcount: A:0.45, C:0.00, G:0.42, T:0.13
Consensus pattern (18 bp):
AGAGATAGGAGAGATAGT
Done.