Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003735.1 Hibiscus syriacus cultivar Beakdansim tig00007988_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 77400
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Found at i:19960 original size:43 final size:42
Alignment explanation
Indices: 19878--19972 Score: 129
Period size: 42 Copynumber: 2.2 Consensus size: 42
19868 TTACTCAATT
**
19878 CTTCACAAAAGAAGTTGGATCAGTGAAAACCTTTCCTTGATC
1 CTTCACAAAAGAAGTTGGATCAGTGAAAACCGCTCCTTGATC
*
19920 CTTCACAGAAAGAA-TTGGATCAGTGAAAACCGCTCACTTGATT
1 CTTCACA-AAAGAAGTTGGATCAGTGAAAACCGCTC-CTTGATC
*
19963 TTTCACAAAA
1 CTTCACAAAA
19973 TGAGTTAAAT
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
42 29 0.62
43 18 0.38
ACGTcount: A:0.36, C:0.21, G:0.16, T:0.27
Consensus pattern (42 bp):
CTTCACAAAAGAAGTTGGATCAGTGAAAACCGCTCCTTGATC
Found at i:20532 original size:7 final size:7
Alignment explanation
Indices: 20520--20560 Score: 64
Period size: 7 Copynumber: 5.9 Consensus size: 7
20510 AATATGTGGG
20520 CATATAT
1 CATATAT
20527 CATATAT
1 CATATAT
20534 CATATAT
1 CATATAT
20541 CATATAT
1 CATATAT
* *
20548 CATGTAA
1 CATATAT
20555 CATATA
1 CATATA
20561 ATTTTTACTA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.44, C:0.15, G:0.02, T:0.39
Consensus pattern (7 bp):
CATATAT
Found at i:20602 original size:19 final size:19
Alignment explanation
Indices: 20578--20632 Score: 68
Period size: 19 Copynumber: 3.2 Consensus size: 19
20568 CTAGGTGATT
20578 GCATATTAAATAATAGTTA
1 GCATATTAAATAATAGTTA
20597 GCATATT--AT-ATAG-TA
1 GCATATTAAATAATAGTTA
20612 -CATATTAAATAATAGTT-
1 GCATATTAAATAATAGTTA
20629 GCAT
1 GCAT
20633 TGCATATCAT
Statistics
Matches: 31, Mismatches: 0, Indels: 11
0.74 0.00 0.26
Matches are distributed among these distances:
14 6 0.19
15 2 0.06
16 6 0.19
17 6 0.19
18 4 0.13
19 7 0.23
ACGTcount: A:0.44, C:0.07, G:0.11, T:0.38
Consensus pattern (19 bp):
GCATATTAAATAATAGTTA
Found at i:20696 original size:18 final size:19
Alignment explanation
Indices: 20673--20711 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
20663 TATTAAATAA
20673 TTAGTATAT-TATATAGTT
1 TTAGTATATATATATAGTT
20691 TTAGTATATACTATATAGTT
1 TTAGTATATA-TATATAGTT
20711 T
1 T
20712 ACATGTTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 9 0.47
20 10 0.53
ACGTcount: A:0.33, C:0.03, G:0.10, T:0.54
Consensus pattern (19 bp):
TTAGTATATATATATAGTT
Found at i:22517 original size:20 final size:20
Alignment explanation
Indices: 22492--22530 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
22482 CTAACATTAA
*
22492 AATT-AAGCCTTAGACTTTTT
1 AATTAAAGCATTAGA-TTTTT
22512 AATTAAAGCATTAGATTTT
1 AATTAAAGCATTAGATTTT
22531 AAGTTCTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.36, C:0.10, G:0.10, T:0.44
Consensus pattern (20 bp):
AATTAAAGCATTAGATTTTT
Found at i:23788 original size:93 final size:93
Alignment explanation
Indices: 23405--24535 Score: 956
Period size: 93 Copynumber: 12.3 Consensus size: 93
23395 TCATGACAGA
* * * * * * * *
23405 GTTGAAATGTCTTAAGTAAACATTTTAATTTTTATGAACTAAAGAGGTTAACTTATACAAGTT-T
1 GTTGAAATGTCTTAACTAAACACTTTGATGTTTACGGACTAAAAAGGTTAACTTATCCAAGTTGT
* *
23469 TAACATTAATGAATGGAAGTTTAAATAGC
66 T-ACATTAATGGATGGAAGTTTGAATAGC
* * * * * * * * *
23498 GTTGAGATGTCTGAACTGAAGACTTTGAT-TTT-CTTGACTAAAGATGTTAACTTATTCAAGTTT
1 GTTGAAATGTCTTAACTAAACACTTTGATGTTTAC-GGACTAAAAAGGTTAACTTATCCAAGTTG
* * *
23561 TTACGTTAATGGATGGGAGTTTG-ATTGAC
65 TTACATTAATGGATGGAAGTTTGAATAG-C
* ** * * * * * * * *
23590 ATTTCAATGACTAAAGTCAACATTTTGATGTTTACAGACTAAAAAGATTAAATTAT-CAA--TGT
1 GTTGAAATGTCTTAACTAAACACTTTGATGTTTACGGACTAAAAAGGTTAACTTATCCAAGTTGT
* * * *
23652 TAGAATAACGGATGGAAGTTTGAATAAC
66 TACATTAATGGATGGAAGTTTGAATAGC
* * * * *
23680 TTTGAATTGTGTTAACTAAACACTTTGATGTTTATGGTCTAAAAAGGTTAACTTATCCAAGTTGT
1 GTTGAAATGTCTTAACTAAACACTTTGATGTTTACGGACTAAAAAGGTTAACTTATCCAAGTTGT
* * *
23745 TATATTAATGGATGGAAGTTGGAATGGC
66 TACATTAATGGATGGAAGTTTGAATAGC
* ** * * * * * * **
23773 ATTGAAATACCTTAACTAAACATTTTCAT-TTTATGGAGTATATAGAATAACTTATCCAAGTTGT
1 GTTGAAATGTCTTAACTAAACACTTTGATGTTTACGGACTAAAAAGGTTAACTTATCCAAGTTGT
* * *
23837 TAAATTAATGGATGAAATTTTGAATAGC
66 TACATTAATGGATGGAAGTTTGAATAGC
** * * * * *
23865 ACTGAAATGTTTTAACTAAGCGA-TTTGATGTTAAC-GA--AAAGAGGTTAACATATCCAAGTTG
1 GTTGAAATGTCTTAACTAAAC-ACTTTGATGTTTACGGACTAAAAAGGTTAACTTATCCAAGTTG
*
23926 TTACATTAGTGGATGGAAGTTTGAATAGC
65 TTACATTAATGGATGGAAGTTTGAATAGC
* * * * **
23955 GTTGAAATGTCTTAACTAAAAACTTTGATGTTTACAGACTAAAGATGTTAACTTGCCCAAGTTGT
1 GTTGAAATGTCTTAACTAAACACTTTGATGTTTACGGACTAAAAAGGTTAACTTATCCAAGTTGT
* * * *
24020 TACATCATTGGATAGAAGTTTAAATAGC
66 TACATTAATGGATGGAAGTTTGAATAGC
* * * * * * * *
24048 ATTGAAATGCCTTATCTAAACACTTTGATGTTTACAGTCGAAATAGGATAACTTATCCAAGTTGT
1 GTTGAAATGTCTTAACTAAACACTTTGATGTTTACGGACTAAAAAGGTTAACTTATCCAAGTTGT
* * ***
24113 TACTTTAATGGATGGAAATAAAAATAGC
66 TACATTAATGGATGGAAGTTTGAATAGC
* * * * * * * * *
24141 GTTGAACTATCTTGACTAAACACTTTAATGTTTACGAAATAAGAA-GTTTACTTATCCAAGTTCT
1 GTTGAAATGTCTTAACTAAACACTTTGATGTTTACGGACTAAAAAGGTTAACTTATCCAAGTTGT
*** **
24205 TACATTAACAAATGGAAGTTTGAATATT
66 TACATTAATGGATGGAAGTTTGAATAGC
* * * * *
24233 GTTGAAATGTATTAATTAAACACTTTGATGTTTACGGACCAAATAGTTTAACTTATCCAAGTTGT
1 GTTGAAATGTCTTAACTAAACACTTTGATGTTTACGGACTAAAAAGGTTAACTTATCCAAGTTGT
* **
24298 TACATTAATGTATATAAGTTTGAATAGC
66 TACATTAATGGATGGAAGTTTGAATAGC
* * ** * * *
24326 GTTTAAATGTCTTAAATAAACACTTTGATGTTTAATGACTAAAGAGGTTTATTTATCCAAGTTGT
1 GTTGAAATGTCTTAACTAAACACTTTGATGTTTACGGACTAAAAAGGTTAACTTATCCAAGTTGT
* * *
24391 TATATTAATGTATGGAAGTTTGAATAGG
66 TACATTAATGGATGGAAGTTTGAATAGC
* ** *
24419 GTTGAAATATCTTAACTAAACACTTTGATGTTTACAAACTAAAAAGATTAACTTATCCAAGTTGT
1 GTTGAAATGTCTTAACTAAACACTTTGATGTTTACGGACTAAAAAGGTTAACTTATCCAAGTTGT
* *
24484 TACATTAATGGCTGGAAGTTTGAATATC
66 TACATTAATGGATGGAAGTTTGAATAGC
** *
24512 ACTGATATGTCTTAACTAAACACT
1 GTTGAAATGTCTTAACTAAACACT
24536 CAAACATTTA
Statistics
Matches: 813, Mismatches: 209, Indels: 32
0.77 0.20 0.03
Matches are distributed among these distances:
89 1 0.00
90 132 0.16
91 10 0.01
92 210 0.26
93 459 0.56
94 1 0.00
ACGTcount: A:0.36, C:0.11, G:0.17, T:0.37
Consensus pattern (93 bp):
GTTGAAATGTCTTAACTAAACACTTTGATGTTTACGGACTAAAAAGGTTAACTTATCCAAGTTGT
TACATTAATGGATGGAAGTTTGAATAGC
Found at i:24144 original size:186 final size:186
Alignment explanation
Indices: 23405--24535 Score: 893
Period size: 185 Copynumber: 6.1 Consensus size: 186
23395 TCATGACAGA
* * * * * * *
23405 GTTGAAATGTCTTAAGTAAACATTTTAATTTTTA-TGAACTA-AAGAGGTTAACTTATACAAGTT
1 GTTGAAATATCTTAACTAAACACTTTGATGTTTACAG-ACTATAAGA-GTTAACTTATCCAAGTT
* * * * * * *
23468 -TTAACATTAATGAATGGAAGTTTAAATAGCGTTGAGATGTCTGAACTGAAGACTTTGAT-TTT-
64 GTT-ACATTAATGGATGGAAGTTTGAATAGCATTGAAATGTCTTAACTAAACACTTTGATGTTTA
* * * * * * * * *
23530 CTTGACTAAAGATGTTAACTTATTCAAGTTTTTACGTTAATGGATGGGAGTTTG-ATTGAC
128 C-AGACGAAATAGGTTAACTTATCCAAGTTGTTACATTAATGGATGGAAGTTTGAATAG-C
* ** * * * * * *
23590 ATTTCAATGA-CTAAAGTCAACATTTTGATGTTTACAGACTA-AAAAGATTAAATTAT-CAA--T
1 GTTGAAAT-ATCTTAACTAAACACTTTGATGTTTACAGACTATAAGAG-TTAACTTATCCAAGTT
* * * * * * * *
23650 GTTAGAATAACGGATGGAAGTTTGAATAACTTTGAATTGTGTTAACTAAACACTTTGATGTTTAT
64 GTTACATTAATGGATGGAAGTTTGAATAGCATTGAAATGTCTTAACTAAACACTTTGATGTTTAC
* * * * * * *
23715 GGTCTAAAAAGGTTAACTTATCCAAGTTGTTATATTAATGGATGGAAGTTGGAATGGC
129 AGACGAAATAGGTTAACTTATCCAAGTTGTTACATTAATGGATGGAAGTTTGAATAGC
* * * * ** * *
23773 ATTGAAATACCTTAACTAAACATTTTCAT-TTTATGGAGTATATAGA-ATAACTTATCCAAGTTG
1 GTTGAAATATCTTAACTAAACACTTTGATGTTTACAGACTATA-AGAGTTAACTTATCCAAGTTG
* * * * * * *
23836 TTAAATTAATGGATGAAATTTTGAATAGCACTGAAATGTTTTAACTAAGCGA-TTTGATGTTAAC
65 TTACATTAATGGATGGAAGTTTGAATAGCATTGAAATGTCTTAACTAAAC-ACTTTGATGTTTAC
* * *
23900 -GA--AAAGAGGTTAACATATCCAAGTTGTTACATTAGTGGATGGAAGTTTGAATAGC
129 AGACGAAATAGGTTAACTTATCCAAGTTGTTACATTAATGGATGGAAGTTTGAATAGC
* * **
23955 GTTGAAATGTCTTAACTAAAAACTTTGATGTTTACAGACTA-AAGATGTTAACTTGCCCAAGTTG
1 GTTGAAATATCTTAACTAAACACTTTGATGTTTACAGACTATAAGA-GTTAACTTATCCAAGTTG
* * * * * *
24019 TTACATCATTGGATAGAAGTTTAAATAGCATTGAAATGCCTTATCTAAACACTTTGATGTTTACA
65 TTACATTAATGGATGGAAGTTTGAATAGCATTGAAATGTCTTAACTAAACACTTTGATGTTTACA
* * * * ***
24084 GTCGAAATAGGATAACTTATCCAAGTTGTTACTTTAATGGATGGAAATAAAAATAGC
130 GACGAAATAGGTTAACTTATCCAAGTTGTTACATTAATGGATGGAAGTTTGAATAGC
* * * * * *
24141 GTTGAACTATCTTGACTAAACACTTTAATGTTTAC-GA-AATAAGAAGTTTACTTATCCAAGTTC
1 GTTGAAATATCTTAACTAAACACTTTGATGTTTACAGACTATAAG-AGTTAACTTATCCAAGTTG
*** *** * * *
24204 TTACATTAACAAATGGAAGTTTGAATATTGTTGAAATGTATTAATTAAACACTTTGATGTTTACG
65 TTACATTAATGGATGGAAGTTTGAATAGCATTGAAATGTCTTAACTAAACACTTTGATGTTTACA
* * * **
24269 GACCAAATAGTTTAACTTATCCAAGTTGTTACATTAATGTATATAAGTTTGAATAGC
130 GACGAAATAGGTTAACTTATCCAAGTTGTTACATTAATGGATGGAAGTTTGAATAGC
* * * * *
24326 GTTTAAATGTCTTAAATAAACACTTTGATGTTTA-ATGACTA-AAGAGGTTTATTTATCCAAGTT
1 GTTGAAATATCTTAACTAAACACTTTGATGTTTACA-GACTATAAGA-GTTAACTTATCCAAGTT
* * ** *
24389 GTTATATTAATGTATGGAAGTTTGAATAGGGTTGAAATATCTTAACTAAACACTTTGATGTTTAC
64 GTTACATTAATGGATGGAAGTTTGAATAGCATTGAAATGTCTTAACTAAACACTTTGATGTTTAC
* * * * * *
24454 AAACTAAAAAGATTAACTTATCCAAGTTGTTACATTAATGGCTGGAAGTTTGAATATC
129 AGACGAAATAGGTTAACTTATCCAAGTTGTTACATTAATGGATGGAAGTTTGAATAGC
** * *
24512 ACTGATATGTCTTAACTAAACACT
1 GTTGAAATATCTTAACTAAACACT
24536 CAAACATTTA
Statistics
Matches: 746, Mismatches: 173, Indels: 53
0.77 0.18 0.05
Matches are distributed among these distances:
181 3 0.00
182 132 0.18
183 144 0.19
184 12 0.02
185 234 0.31
186 220 0.29
187 1 0.00
ACGTcount: A:0.36, C:0.11, G:0.17, T:0.37
Consensus pattern (186 bp):
GTTGAAATATCTTAACTAAACACTTTGATGTTTACAGACTATAAGAGTTAACTTATCCAAGTTGT
TACATTAATGGATGGAAGTTTGAATAGCATTGAAATGTCTTAACTAAACACTTTGATGTTTACAG
ACGAAATAGGTTAACTTATCCAAGTTGTTACATTAATGGATGGAAGTTTGAATAGC
Found at i:24260 original size:278 final size:274
Alignment explanation
Indices: 23661--24535 Score: 893
Period size: 278 Copynumber: 3.2 Consensus size: 274
23651 TTAGAATAAC
* * * * *
23661 GGATGGAAGTTTGAATAACT-TTGAATTGTGTTAACTAAACACTTTGATGTTTATGGTCTAAAAA
1 GGATGGAAGTTTGAAT-ATTGTTGAAATGTATTAACTAAACACTTTGATGTTTACGGACTAAAAA
* * * * *
23725 GGTTAACTTATCCAAGTTGTTATATTAATGGATGGAAGTTGGAATGGCATTGAAATACCTTAACT
65 -GTTAACTTATCCAAGTTGTTACATTAATGGATAGAAGTTTGAATAGCATTGAAATGCCTTAACT
* * * * *
23790 AAACATTTTCAT-TTTATGGAGT-ATATAGAATAACTTATCCAAGTTGTTAAATTAATGGAT-GA
129 AAACACTTTGATGTTTA---AGTCAAATAGGATAACTTATCCAAGTTGTT-ATTTAATGGATGGA
** * * * * *
23852 AATTTTGAATAGCACTGAAATGTTTTAACTAAGCGA-TTTGATGTTAACG-AA-AAGAGGTTAAC
190 AA-TTTGAATAGCGTTGAAATATCTTAACTAAAC-ACTTTGATGTTTACGAAATAAGAAGTTAAC
* *
23914 ATATCCAAGTTGTTACATTAGT
253 TTATCCAAGTTGTTACATTAAT
** * * * *
23936 GGATGGAAGTTTGAATAGCGTTGAAATGTCTTAACTAAAAACTTTGATGTTTACAGACTAAAGAT
1 GGATGGAAGTTTGAATATTGTTGAAATGTATTAACTAAACACTTTGATGTTTACGGACTAAA-AA
** * * * *
24001 GTTAACTTGCCCAAGTTGTTACATCATTGGATAGAAGTTTAAATAGCATTGAAATGCCTTATCTA
65 GTTAACTTATCCAAGTTGTTACATTAATGGATAGAAGTTTGAATAGCATTGAAATGCCTTAACTA
24066 AACACTTTGATGTTTACAGTCGAAATAGGATAACTTATCCAAGTTGTTACTTTAATGGATGGAAA
130 AACACTTTGATGTTTA-AGTC-AAATAGGATAACTTATCCAAGTTGTTA-TTTAATGGATGGAAA
*** * * * *
24131 TAAAAATAGCGTTGAACTATCTTGACTAAACACTTTAATGTTTACGAAATAAGAAGTTTACTTAT
192 TTTGAATAGCGTTGAAATATCTTAACTAAACACTTTGATGTTTACGAAATAAGAAGTTAACTTAT
* *
24196 CCAAGTTCTTACATTAAC
257 CCAAGTTGTTACATTAAT
** * * *
24214 AAATGGAAGTTTGAATATTGTTGAAATGTATTAATTAAACACTTTGATGTTTACGGACCAAATAG
1 GGATGGAAGTTTGAATATTGTTGAAATGTATTAACTAAACACTTTGATGTTTACGGACTAAAAAG
* * * * * *
24279 TTTAACTTATCCAAGTTGTTACATTAATGTATATAAGTTTGAATAGCGTTTAAATGTCTTAAATA
66 -TTAACTTATCCAAGTTGTTACATTAATGGATAGAAGTTTGAATAGCATTGAAATGCCTTAACTA
* * * * * * *
24344 AACACTTTGATGTTTAATGACTAAAGAGGTTTATTTATCCAAGTTGTTATATTAATGTATGGAAG
130 AACACTTTGATGTTTAA-GTC-AAATAGGATAACTTATCCAAGTTGTTAT-TTAATGGATGGAAA
* *
24409 TTTGAATAGGGTTGAAATATCTTAACTAAACACTTTGATGTTTAC-AAACTAAAAAGATTAACTT
192 TTTGAATAGCGTTGAAATATCTTAACTAAACACTTTGATGTTTACGAAA-TAAGAAG-TTAACTT
24473 ATCCAAGTTGTTACATTAAT
255 ATCCAAGTTGTTACATTAAT
* *** * *
24493 GGCTGGAAGTTTGAATATCACTGATATGTCTTAACTAAACACT
1 GGATGGAAGTTTGAATATTGTTGAAATGTATTAACTAAACACT
24536 CAAACATTTA
Statistics
Matches: 490, Mismatches: 95, Indels: 26
0.80 0.16 0.04
Matches are distributed among these distances:
274 4 0.01
275 117 0.24
276 70 0.14
277 12 0.02
278 229 0.47
279 58 0.12
ACGTcount: A:0.36, C:0.11, G:0.17, T:0.36
Consensus pattern (274 bp):
GGATGGAAGTTTGAATATTGTTGAAATGTATTAACTAAACACTTTGATGTTTACGGACTAAAAAG
TTAACTTATCCAAGTTGTTACATTAATGGATAGAAGTTTGAATAGCATTGAAATGCCTTAACTAA
ACACTTTGATGTTTAAGTCAAATAGGATAACTTATCCAAGTTGTTATTTAATGGATGGAAATTTG
AATAGCGTTGAAATATCTTAACTAAACACTTTGATGTTTACGAAATAAGAAGTTAACTTATCCAA
GTTGTTACATTAAT
Found at i:24684 original size:93 final size:93
Alignment explanation
Indices: 24571--26812 Score: 918
Period size: 93 Copynumber: 24.0 Consensus size: 93
24561 AACATATCGC
* * *
24571 TGAAATGTCTTAACTAAACACCTTGTTGTTGACGAACTAAAGAGGTTAACTTATCCAA-TATGTG
1 TGAAATGTCTTAACTAAACACCTTGATGTTTACGAACTAAAGAGGTTAACTTATCCAAGT-TGTT
* **
24635 ACATTAATTGATGGAAGTTTGAATAGCGT
65 ACATTAATGGATGGAAGTTTGAATAGAAT
* * * * ** *
24664 TGAAATGTATTAACAAAACACTTTGATATTTACGAACTATAA-AAATTAACATATCCAAGTTGTT
1 TGAAATGTCTTAACTAAACACCTTGATGTTTACGAACTA-AAGAGGTTAACTTATCCAAGTTGTT
* *
24728 ACATTAATGGATGAAAGTTTGAATATAAT
65 ACATTAATGGATGGAAGTTTGAATAGAAT
* ** * * * * *
24757 T-AAAGTCTCTTTGCTAAACACTTTTATGTTTAC-AGGCTAAAGAGGTCAACTTATCCAAATTGT
1 TGAAA-TGTCTTAACTAAACACCTTGATGTTTACGA-ACTAAAGAGGTTAACTTATCCAAGTTGT
* * *
24820 TACAATAATTGATGGAAGTTTGAATAGAGT
64 TACATTAATGGATGGAAGTTTGAATAGAAT
* * * * *
24850 TAAAATGTCTAAACTAAACACTTTGATGTTTACAAACTAGAGAGGTTAACTTATCCAAGTTGTTA
1 TGAAATGTCTTAACTAAACACCTTGATGTTTACGAACTAAAGAGGTTAACTTATCCAAGTTGTTA
* * *
24915 CATTAATGGAT-GAAATTTGAATTGCAT
66 CATTAATGGATGGAAGTTTGAATAGAAT
** * * * * * * ** *
24942 TGAAACATCTTAACTAAACACTTTGATATTTA-TAGGCTATAGAGATTAACACATCCAAGTTTTT
1 TGAAATGTCTTAACTAAACACCTTGATGTTTACGA-ACTAAAGAGGTTAACTTATCCAAGTTGTT
* * *
25006 ACATTAATGGAAGGAAGTATAAATA-ATAT
65 ACATTAATGGATGGAAGTTTGAATAGA-AT
* * ** * * * * * *
25035 TGAAATGTGC-GAACTAAAAAATTTGATCTTTACAAACAACAACA-ATTAACTTATCAAAGTTGT
1 TGAAATGT-CTTAACTAAACACCTTGATGTTTACGAACTA-AAGAGGTTAACTTATCCAAGTTGT
*
25098 TACATTAATGGATGCAAGTTTGAATA-ACAT
64 TACATTAATGGATGGAAGTTTGAATAGA-AT
* * * *
25128 TGAAATGTCATAACTAAAC-CCTTTGATGTATATGAAAT-AAGAGGTTGAA-TTATCCAAGTAT-
1 TGAAATGTCTTAACTAAACACC-TTGATGTTTACGAACTAAAGAGGTT-AACTTATCCAAGT-TG
** * * **
25189 TTACAACAATGTATAGAAGTTTGAATAGTGT
63 TTACATTAATGGATGGAAGTTTGAATAGAAT
* * ** * * * * *
25220 TGCAATGTCTTATCTGCACACTTTGATGTTTA-TAGACTAAATATGTTAACTTATCCATGTTGTT
1 TGAAATGTCTTAACTAAACACCTTGATGTTTACGA-ACTAAAGAGGTTAACTTATCCAAGTTGTT
* **
25284 ACATTAATGCATGGAAGTTTGAATAGTGT
65 ACATTAATGGATGGAAGTTTGAATAGAAT
* * * * * * * **
25313 TGAAATGTCTTTACTGAACACTTTGATGTTTATTG-ATTAAAAAAGTTAA-TTATCTGAGTTGTT
1 TGAAATGTCTTAACTAAACACCTTGATGTTTA-CGAACTAAAGAGGTTAACTTATCCAAGTTGTT
* * * *
25376 ACGTTAATGGATGCAATTTTGAATAGCAT
65 ACATTAATGGATGGAAGTTTGAATAGAAT
* * * * ** * * *
25405 TGAAATGTTTTAACTAAATACTTTGATGTTTATGGGCTAAAGTGGTTAACATATCCAAGTTCTTA
1 TGAAATGTCTTAACTAAACACCTTGATGTTTACGAACTAAAGAGGTTAACTTATCCAAGTTGTTA
* *
25470 CATTAATGGATGGAAGTTTCAAAAGAGA-
66 CATTAATGGATGGAAGTTTGAATAGA-AT
* * * * * *
25498 TAAAATGTCTTAACTAAACACTTTGATGTTTAC-AGACTAAAAAGGTTAAATCATCCAAATTGTT
1 TGAAATGTCTTAACTAAACACCTTGATGTTTACGA-ACTAAAGAGGTTAACTTATCCAAGTTGTT
* * * * * *
25562 AAATTACTGGATGGATGCTTAAATA-AGGT
65 ACATTAATGGATGGAAGTTTGAATAGA-AT
* * * ** * * * *
25591 TGAAATATATTAACTAAATAGTTTGATGTTTATGGAGTAAAGAGGTTAACTTATCCAATTTG-TA
1 TGAAATGTCTTAACTAAACACCTTGATGTTTACGAACTAAAGAGGTTAACTTATCCAAGTTGTTA
* ** * **
25655 TATTAATGGATACAAGTTTGAACAGCGT
66 CATTAATGGATGGAAGTTTGAATAGAAT
* * ** * *
25683 TCAAAATGTCTTTACTAGTCACTTTGAAT-TTTAC-AGACTAAA-AGGTTAACTTATCCAA-ATG
1 T-GAAATGTCTTAACTAAACACCTTG-ATGTTTACGA-ACTAAAGAGGTTAACTTATCCAAGTTG
* * **
25744 TTACAGTAATGGATGAAAGTTTGAATAGTGT
63 TTACATTAATGGATGGAAGTTTGAATAGAAT
* * * ** * * *
25775 TGAAATTTCTCAAGTAAACATTTTGATGTTTACGAACTAAAGAGATTAACTTATCTAATTTGTTA
1 TGAAATGTCTTAACTAAACACCTTGATGTTTACGAACTAAAGAGGTTAACTTATCCAAGTTGTTA
* * * * **
25840 CATAAATAGTTGGACGTTTGAATATCAT
66 CATTAATGGATGGAAGTTTGAATAGAAT
*** * * ** * * * * * *
25868 TGAAA--TCTTAACTAAA-TTTTTACATATTTTTTG-ACTAAAAATGATATCTTCTCCAAATTGT
1 TGAAATGTCTTAACTAAACACCTT-GAT-GTTTACGAACTAAAGAGGTTAACTTATCCAAGTTGT
* * *
25929 TACATTATTGGATGGAGGTTTGAATAGCAT
64 TACATTAATGGATGGAAGTTTGAATAGAAT
* * * * * * * * *
25959 TGAAATGTATTAAGTATACACTTTGACGTTTACTGGA-TAAAAAGATTAACTTATCCAAGTTTTT
1 TGAAATGTCTTAACTAAACACCTTGATGTTTAC-GAACTAAAGAGGTTAACTTATCCAAG-TTGT
* * * * **
26023 TAAAATAATGGATGGAATTTTTAATAGTGT
64 TACATTAATGGATGGAAGTTTGAATAGAAT
* * * * * * ** * ** *
26053 TGAAATGTCTTTACTATACACTTTGATGCTTACAAAACTAAACACTTTGATATTTAT-GGACTT-
1 TGAAATGTCTTAACTAAACACCTTGATGTTTAC-GAACTAAAGAGGTT-A-ACTTATCCAAGTTG
* * * ** *
26116 TAAAGATTAACT-TATCTAA-TTTGTCAAATTA-AAGGA
63 T-TACATTAA-TGGATGGAAGTTTG---AA-TAGAA--T
* * * * * *
26152 TGGAA-GT-TTGAA-T-ATCA--TTGAATGCCTTAACTAAAC-ACATTGATGATTATGAACTAAA
1 TGAAATGTCTT-AACTAAACACCTTG-ATG--TTTAC-GAACTA-A-AGA-G-GT-T-AACT---
* * * * * **
26210 GAAGTTAACTTATACAAGTTGTTATATTAATGGATAGAAG-TTCAATCGTGT
52 -TA--T--C-----CAAGTTGTTACATTAATGGATGGAAGTTTGAATAGAAT
* * * * * * * * *
26261 TGAAATGTCTTTATTGAACACTTTGATGTTTAC-ATATTAAAGA-ATTCTACTTATCCAAATGGT
1 TGAAATGTCTTAACTAAACACCTTGATGTTTACGA-ACTAAAGAGGTT-AACTTATCCAAGTTGT
* *
26324 TACTTTAATGGATGGAAGTTTGAATA-ACGT
64 TACATTAATGGATGGAAGTTTGAATAGA-AT
* * * ** * ** * * * * *
26354 TGAAATATCTTAACTAAACACTTTAAAATTTATGGTCTTAATAGGTGAAGTTATCCATGTTGTTA
1 TGAAATGTCTTAACTAAACACCTTGATGTTTACGAACTAAAGAGGTTAACTTATCCAAGTTGTTA
* * *
26419 CATTAATGGATGCAAGTTTGAATTGCAT
66 CATTAATGGATGGAAGTTTGAATAGAAT
* * * * * * * *
26447 TGAAACGTATTAACTAAACACTTTGATGTTTATGGACTAAA-AGGGTTAACTCATCCCATTTGTT
1 TGAAATGTCTTAACTAAACACCTTGATGTTTACGAACTAAAGA-GGTTAACTTATCCAAGTTGTT
* *
26511 ACATTAGTGGATGGAAGTTTGAATAGCAT
65 ACATTAATGGATGGAAGTTTGAATAGAAT
* * * * * * * * * *
26540 TGGAGTATCTTAACTAAATACTTTGATGTTTATG--GTATAAGAGGTTAAGTTATGCAAGTTTTT
1 TGAAATGTCTTAACTAAACACCTTGATGTTTACGAACTA-AAGAGGTTAACTTATCCAAGTTGTT
* * **
26603 ACATTAATGGATAGAAGTTTGAGTAGCGT
65 ACATTAATGGATGGAAGTTTGAATAGAAT
* * ** * * * * * * *
26632 TGAAATTTCTTAATTAAACATTTTGATGTTTACCAATTAAAGAAGTTAGCTAATCCAATTTGTTT
1 TGAAATGTCTTAACTAAACACCTTGATGTTTACGAACTAAAGAGGTTAACTTATCCAAGTTGTTA
*
26697 CATTAATGGATGGAAG-TTGAATAGCATT
66 CATTAATGGATGGAAGTTTGAATAG-AAT
* * * * * *
26725 TAAAATGTCTTTAA-TGAACACTTTGATGTTTA-AAGACTAAAGAAGTTAACATATCCAAGTTGT
1 TGAAATGTC-TTAACTAAACACCTTGATGTTTACGA-ACTAAAGAGGTTAACTTATCCAAGTTGT
*
26788 TAC-TTAATGGATGTAAGTTTGAATA
64 TACATTAATGGATGGAAGTTTGAATA
26813 TCCTTGAAAT
Statistics
Matches: 1597, Mismatches: 443, Indels: 218
0.71 0.20 0.10
Matches are distributed among these distances:
90 6 0.00
91 98 0.06
92 410 0.26
93 876 0.55
94 86 0.05
95 21 0.01
96 6 0.00
97 19 0.01
98 6 0.00
99 5 0.00
100 4 0.00
101 4 0.00
104 1 0.00
105 4 0.00
106 2 0.00
109 7 0.00
110 6 0.00
111 10 0.01
112 3 0.00
113 4 0.00
114 18 0.01
115 1 0.00
ACGTcount: A:0.36, C:0.11, G:0.16, T:0.37
Consensus pattern (93 bp):
TGAAATGTCTTAACTAAACACCTTGATGTTTACGAACTAAAGAGGTTAACTTATCCAAGTTGTTA
CATTAATGGATGGAAGTTTGAATAGAAT
Found at i:24776 original size:243 final size:243
Alignment explanation
Indices: 24330--24778 Score: 602
Period size: 243 Copynumber: 1.8 Consensus size: 243
24320 AATAGCGTTT
* * * * * *
24330 AAATGTCTTAAATAAACACTTTGATGTTTAATGACTAAAGAGGTTTATTTATCCAAGTTGTTATA
1 AAATGTCTTAAATAAACACCTTGATGTTTAACGACTAAAGAGGTTAACTTATCCAAGTTGTGACA
* * * *
24395 TTAATGTATGGAAGTTTGAATAGGGTTGAAATATCTTAACTAAACACTTTGATGTTTACAAACTA
66 TTAATGTATGGAAGTTTGAATAGCGTTGAAATATATTAACAAAACACTTTGATATTTACAAACTA
* * * * * *
24460 AAAAGATTAACTTATCCAAGTTGTTACATTAATGGCTGGAAGTTTGAATATCACTGATATGTCTT
131 AAAAGATTAACATATCCAAGTTGTTACATTAATGGATGAAAGTTTGAATATCAATGAAATCTCTT
24525 AACTAAACACTCAAACATTTATGGACTAAAGAGGATAACATATCGCTG
196 AACTAAACACTCAAACATTTATGGACTAAAGAGGATAACATATCGCTG
* * *
24573 AAATGTCTTAACTAAACACCTTGTTG-TTGACGAACTAAAGAGGTTAACTTATCCAA-TATGTGA
1 AAATGTCTTAAATAAACACCTTGATGTTTAACG-ACTAAAGAGGTTAACTTATCCAAGT-TGTGA
* *
24636 CATTAAT-TGATGGAAGTTTGAATAGCGTTGAAATGTATTAACAAAACACTTTGATATTTACGAA
64 CATTAATGT-ATGGAAGTTTGAATAGCGTTGAAATATATTAACAAAACACTTTGATATTTACAAA
*
24700 CTATAAAA-ATTAACATATCCAAGTTGTTACATTAATGGATGAAAGTTTGAATAT-AATTAAAGT
128 CTA-AAAAGATTAACATATCCAAGTTGTTACATTAATGGATGAAAGTTTGAATATCAATGAAA-T
**
24763 CTCTTTGCTAAACACT
191 CTCTTAACTAAACACT
24779 TTTATGTTTA
Statistics
Matches: 177, Mismatches: 24, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
242 10 0.06
243 163 0.92
244 4 0.02
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (243 bp):
AAATGTCTTAAATAAACACCTTGATGTTTAACGACTAAAGAGGTTAACTTATCCAAGTTGTGACA
TTAATGTATGGAAGTTTGAATAGCGTTGAAATATATTAACAAAACACTTTGATATTTACAAACTA
AAAAGATTAACATATCCAAGTTGTTACATTAATGGATGAAAGTTTGAATATCAATGAAATCTCTT
AACTAAACACTCAAACATTTATGGACTAAAGAGGATAACATATCGCTG
Found at i:24867 original size:336 final size:336
Alignment explanation
Indices: 24235--24871 Score: 757
Period size: 336 Copynumber: 1.9 Consensus size: 336
24225 TGAATATTGT
* * * * * * *
24235 TGAAATGTATTAATTAAACACTTTGATGTTTACGGACCAAATAGTTTAACTTATCCAAGTTGTTA
1 TGAAATGTATTAACTAAACACCTTGATGTTGACGAACCAAAGAGGTTAACTTATCCAAGTTGTGA
* * * * *
24300 CATTAATGTATATAAGTTTGAATAGCGTTTAAATGTCTTAAATAAACACTTTGATGTTTAATGAC
66 CATTAATGTATAGAAGTTTGAATAGCGTTGAAATGTATTAAATAAACACTTTGATATTTAACGAC
** * ** * * * **
24365 TAAAGAGGTTTATTTATCCAAGTTGTTATATTAATGTATGGAAGTTTGAATAGGGTTGAAATATC
131 TAAAGAAATTAACATATCCAAGTTGTTACATTAATGGATGAAAGTTTGAATAGAATTGAAATATC
* * *
24430 TTAACTAAACACTTTGATGTTTACAAACTAAAAAGATTAACTTATCCAAGTTGTTACATTAATGG
196 TTAACTAAACACTTTGATGTTTACAAACTAAAAAGATCAACTTATCCAAATTGTTACAATAATGG
* * * *
24495 CTGGAAGTTTGAATATCACTGATATGTCTTAACTAAACACTCAAACATTTATGGACTAAAGAGGA
261 ATGGAAGTTTGAATATCACTAAAATGTCTAAACTAAACACTCAAACATTTATGGACTAAAGAGGA
24560 TAACATATCGC
326 TAACATATCGC
* * *
24571 TGAAATGTCTTAACTAAACACCTTGTTGTTGACGAACTAAAGAGGTTAACTTATCCAA-TATGTG
1 TGAAATGTATTAACTAAACACCTTGATGTTGACGAACCAAAGAGGTTAACTTATCCAAGT-TGTG
*
24635 ACATTAAT-TGATGGAAGTTTGAATAGCGTTGAAATGTATTAACA-AAACACTTTGATATTT-AC
65 ACATTAATGT-ATAGAAGTTTGAATAGCGTTGAAATGTATTAA-ATAAACACTTTGATATTTAAC
*
24697 GAACTATAA-AAATTAACATATCCAAGTTGTTACATTAATGGATGAAAGTTTGAATATAATT-AA
128 G-ACTA-AAGAAATTAACATATCCAAGTTGTTACATTAATGGATGAAAGTTTGAATAGAATTGAA
* ** * ** * *
24760 AGTCTCTTTGCTAAACACTTTTATGTTTACAGGCTAAAGAGGTCAACTTATCCAAATTGTTACAA
191 A-TATCTTAACTAAACACTTTGATGTTTACAAACTAAAAAGATCAACTTATCCAAATTGTTACAA
* * *
24825 TAATTGATGGAAGTTTGAATA-GAGTTAAAATGTCTAAACTAAACACT
255 TAATGGATGGAAGTTTGAATATCA-CTAAAATGTCTAAACTAAACACT
24872 TTGATGTTTA
Statistics
Matches: 249, Mismatches: 45, Indels: 14
0.81 0.15 0.05
Matches are distributed among these distances:
335 8 0.03
336 238 0.96
337 3 0.01
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (336 bp):
TGAAATGTATTAACTAAACACCTTGATGTTGACGAACCAAAGAGGTTAACTTATCCAAGTTGTGA
CATTAATGTATAGAAGTTTGAATAGCGTTGAAATGTATTAAATAAACACTTTGATATTTAACGAC
TAAAGAAATTAACATATCCAAGTTGTTACATTAATGGATGAAAGTTTGAATAGAATTGAAATATC
TTAACTAAACACTTTGATGTTTACAAACTAAAAAGATCAACTTATCCAAATTGTTACAATAATGG
ATGGAAGTTTGAATATCACTAAAATGTCTAAACTAAACACTCAAACATTTATGGACTAAAGAGGA
TAACATATCGC
Found at i:25088 original size:278 final size:279
Alignment explanation
Indices: 24573--25188 Score: 619
Period size: 278 Copynumber: 2.2 Consensus size: 279
24563 CATATCGCTG
* * * * *
24573 AAATGTCTTAACTAAACACCTTGTTGTTGACGAACTAAAGAGGTTAACTTATCCAA-TATGTGAC
1 AAATGTCTAAACTAAACACTTTGATGTTTACAAACT-AAGAGGTTAACTTATCCAAGTATGTGAC
* * * ** *
24637 ATTAATTGATGGAAGTTTGAATAGCGTTGAAATGTATTAACAAAACACTTTGATATTTACGAACT
65 ATTAATGGATGGAAATTTGAATAGCATTGAAACATATTAACAAAACACTTTGATATTTAAGAACT
* * * * *
24702 ATAAAAATTAACATATCCAAGTTGTTACATTAATGGATGAAAGTTTGAATATAATTAAAGTCTCT
130 ATAAAAATTAACACATCCAAGTTGTTACATTAATGGAAGAAAGTATAAATATAATTAAAGTCGCT
*** * * * * ** * * * *
24767 TTGCTAAACACTTTTATGTTTACAGGCTAAAGAGGTCAACTTATCCAAA-TTGTTACAATAATTG
195 GAACTAAAAAATTTGATCTTTACAAACAAAACAGATCAACTTAT-CAAAGTTGTTACAATAATGG
* *
24831 ATGGAAGTTTGAATAGA-GTTA
259 ATGCAAGTTTGAATA-ACATTA
*
24852 AAATGTCTAAACTAAACACTTTGATGTTTACAAACTAGAGAGGTTAACTTATCCAAGT-TGTTAC
1 AAATGTCTAAACTAAACACTTTGATGTTTACAAACTA-AGAGGTTAACTTATCCAAGTATGTGAC
* * * *
24916 ATTAATGGAT-GAAATTTGAATTGCATTGAAACATCTTAACTAAACACTTTGATATTTATAG-GC
65 ATTAATGGATGGAAATTTGAATAGCATTGAAACATATTAACAAAACACTTTGATATTTA-AGAAC
* * * *
24979 TATAGAGATTAACACATCCAAGTTTTTACATTAATGGAAGGAAGTATAAATA-ATATTGAAATGT
129 TATAAAAATTAACACATCCAAGTTGTTACATTAATGGAAGAAAGTATAAATATA-ATT-AAA-GT
* *
25043 -GC-GAACTAAAAAATTTGATCTTTACAAACAACAACA-ATTAACTTATCAAAGTTGTTACATTA
191 CGCTGAACTAAAAAATTTGATCTTTACAAACAA-AACAGATCAACTTATCAAAGTTGTTACAATA
*
25105 ATGGATGCAAGTTTGAATAACATTG
255 ATGGATGCAAGTTTGAATAACATTA
* * *
25130 AAATGTC-ATAACTAAACCCTTTGATGTATATGAAA-TAAGAGGTTGAA-TTATCCAAGTAT
1 AAATGTCTA-AACTAAACACTTTGATGTTTA-CAAACTAAGAGGTT-AACTTATCCAAGTAT
25189 TTACAACAAT
Statistics
Matches: 278, Mismatches: 46, Indels: 27
0.79 0.13 0.08
Matches are distributed among these distances:
277 24 0.09
278 177 0.64
279 74 0.27
280 3 0.01
ACGTcount: A:0.39, C:0.12, G:0.15, T:0.34
Consensus pattern (279 bp):
AAATGTCTAAACTAAACACTTTGATGTTTACAAACTAAGAGGTTAACTTATCCAAGTATGTGACA
TTAATGGATGGAAATTTGAATAGCATTGAAACATATTAACAAAACACTTTGATATTTAAGAACTA
TAAAAATTAACACATCCAAGTTGTTACATTAATGGAAGAAAGTATAAATATAATTAAAGTCGCTG
AACTAAAAAATTTGATCTTTACAAACAAAACAGATCAACTTATCAAAGTTGTTACAATAATGGAT
GCAAGTTTGAATAACATTA
Found at i:25366 original size:185 final size:185
Alignment explanation
Indices: 24571--26080 Score: 670
Period size: 185 Copynumber: 8.2 Consensus size: 185
24561 AACATATCGC
* * * * * *
24571 TGAAATGTCTTAACTAAACACCTTGTTGTTGACGAACTAAAGAGGTT-AACTTATCCAA-TATGT
1 TGAAATGTCTTAACTAAACACTTTGATGTTTATGAAAT-AAGAAGTTGAA-TTATCCAAGT-TGT
* ** * * * * * * *
24634 GACATTAATTGATGGAAGTTTGAATAGCGTTGAAATGTATTAACAAAACACTTTGATATTTA-CG
63 TACAACAATGGATGCAAGTTTGAATAGCATTGAAATGTCTTAACTAAACACTTTGATGTTTATAG
*** * * * *
24698 AACTATAA-AAATTAACATATCCAAGTTGTTACATTAATGGATGAAAGTTTGAATATAAT
128 -ACTA-AAGTGGTTAACTTATCCAAGTTGTTACATTAATGGATGGAAGTTTGAATAGAGT
* ** * * ** * * *
24757 T-AAAGTCTCTTTGCTAAACACTTTTATGTTTA-CAGGCTAA-AGAGGTCAACTTATCCAAATTG
1 TGAAA-TGTCTTAACTAAACACTTTGATGTTTATGA-AATAAGA-AGTTGAA-TTATCCAAGTTG
* * * * * *
24819 TTACAATAATTGATGGAAGTTTGAATAG-AGTTAAAATGTCTAAACTAAACACTTTGATGTTTAC
62 TTACAACAATGGATGCAAGTTTGAATAGCA-TTGAAATGTCTTAACTAAACACTTTGATGTTTAT
* * * * *
24883 AAACTAGAGAGGTTAACTTATCCAAGTTGTTACATTAATGGAT-GAAATTTGAATTGCA-T
126 AGACTAAAGTGGTTAACTTATCCAAGTTGTTACATTAATGGATGGAAGTTTGAATAG-AGT
** * ** ** *
24942 TGAAACATCTTAACTAAACACTTTGATATTTAT-AGGCTATAG-AGATT-AACACATCCAAGTTT
1 TGAAATGTCTTAACTAAACACTTTGATGTTTATGA-AATA-AGAAG-TTGAA-TTATCCAAGTTG
** * * * * ** * * * * *
25004 TTACATTAATGGAAGGAAGTATAAATAATATTGAAATGTGC-GAACTAAAAAATTTGATCTTTAC
62 TTACAACAATGGATGCAAGTTTGAATAGCATTGAAATGT-CTTAACTAAACACTTTGATGTTTAT
* **** * * *
25068 AAAC-AACAACAATTAACTTATCAAAGTTGTTACATTAATGGATGCAAGTTTGAATA-ACAT
126 AGACTAA-AGTGGTTAACTTATCCAAGTTGTTACATTAATGGATGGAAGTTTGAATAGA-GT
* * * *
25128 TGAAATGTCATAACTAAACCCTTTGATGTATATGAAATAAGAGGTTGAATTATCCAAGTAT-TTA
1 TGAAATGTCTTAACTAAACACTTTGATGTTTATGAAATAAGAAGTTGAATTATCCAAGT-TGTTA
* ** * * **
25192 CAACAATGTATAG-AAGTTTGAATAGTGTTGCAATGTCTTATCTGCACACTTTGATGTTTATAGA
65 CAACAATGGAT-GCAAGTTTGAATAGCATTGAAATGTCTTAACTAAACACTTTGATGTTTATAGA
* * * *
25256 CTAAA-TATGTTAACTTATCCATGTTGTTACATTAATGCATGGAAGTTTGAATAGTGT
129 CTAAAGT-GGTTAACTTATCCAAGTTGTTACATTAATGGATGGAAGTTTGAATAGAGT
* * **
25313 TGAAATGTCTTTACTGAACACTTTGATGTTTATTGATTAA-AA-AAGTT-AATTATCTGAGTTGT
1 TGAAATGTCTTAACTAAACACTTTGATGTTTA-TGA--AATAAGAAGTTGAATTATCCAAGTTGT
*** * * * *
25375 TACGTTAATGGATGCAATTTTGAATAGCATTGAAATGTTTTAACTAAATACTTTGATGTTTATGG
63 TACAACAATGGATGCAAGTTTGAATAGCATTGAAATGTCTTAACTAAACACTTTGATGTTTATAG
* * * * * *
25440 GCTAAAGTGGTTAACATATCCAAGTTCTTACATTAATGGATGGAAGTTTCAAAAGAGA
128 ACTAAAGTGGTTAACTTATCCAAGTTGTTACATTAATGGATGGAAGTTTGAATAGAGT
* * * * * * *
25498 TAAAATGTCTTAACTAAACACTTTGATGTTTA-CAGACTAAAAAGGTTAAATCATCCAAATTGTT
1 TGAAATGTCTTAACTAAACACTTTGATGTTTATGA-AATAAGAA-GTTGAATTATCCAAGTTGTT
* * * * * * * * * * * *
25562 A-AATTACTGGATGGATGCTTAAATAAG-GTTGAAATATATTAACTAAATAGTTTGATGTTTATG
64 ACAA-CAATGGATGCAAGTTTGAAT-AGCATTGAAATGTCTTAACTAAACACTTTGATGTTTATA
* * * * ** * *
25625 GAGTAAAGAGGTTAACTTATCCAATTTG-TATATTAATGGATACAAGTTTGAACAGCGT
127 GACTAAAGTGGTTAACTTATCCAAGTTGTTACATTAATGGATGGAAGTTTGAATAGAGT
* * ** * * *
25683 TCAAAATGTCTTTACTAGTCACTTTGAAT-TTTA-CAGACTAA-AAGGTT-AACTTATCCAA-AT
1 T-GAAATGTCTTAACTAAACACTTTG-ATGTTTATGA-AATAAGAA-GTTGAA-TTATCCAAGTT
** * ** * * * *
25743 GTTACAGTAATGGATGAAAGTTTGAATAGTGTTGAAATTTCTCAAGTAAACATTTTGATGTTTA-
61 GTTACAACAATGGATGCAAGTTTGAATAGCATTGAAATGTCTTAACTAAACACTTTGATGTTTAT
* * * * * * * * * *
25807 CGAACTAAAGAGATTAACTTATCTAATTTGTTACATAAATAGTTGGACGTTTGAATATCA-T
126 AG-ACTAAAGTGGTTAACTTATCCAAGTTGTTACATTAATGGATGGAAGTTTGAATA-GAGT
** * * * * * * *
25868 TGAAA--TCTTAACTAAA-TTTTTACATATTTTTTG-ACTAA-AA-ATGATATCTTCTCCAAATT
1 TGAAATGTCTTAACTAAACACTTT-GAT-GTTTATGAAATAAGAAGTTGA-A--TTATCCAAGTT
** * * * * * * *
25927 GTTACATTATTGGATGGAGGTTTGAATAGCATTGAAATGTATTAAGTATACACTTTGACGTTTAC
61 GTTACAACAATGGATGCAAGTTTGAATAGCATTGAAATGTCTTAACTAAACACTTTGATGTTTA-
* ** * * * * * * *
25992 TGGA-TAAAAAGATTAACTTATCCAAGTTTTTTAAAATAATGGATGGAATTTTTAATAGTGT
125 TAGACTAAAGTGGTTAACTTATCCAAG-TTGTTACATTAATGGATGGAAGTTTGAATAGAGT
* *
26053 TGAAATGTCTTTACTATACACTTTGATG
1 TGAAATGTCTTAACTAAACACTTTGATG
26081 CTTACAAAAC
Statistics
Matches: 1019, Mismatches: 241, Indels: 128
0.73 0.17 0.09
Matches are distributed among these distances:
180 1 0.00
181 6 0.01
182 17 0.02
183 17 0.02
184 157 0.15
185 495 0.49
186 302 0.30
187 19 0.02
188 5 0.00
ACGTcount: A:0.37, C:0.11, G:0.16, T:0.36
Consensus pattern (185 bp):
TGAAATGTCTTAACTAAACACTTTGATGTTTATGAAATAAGAAGTTGAATTATCCAAGTTGTTAC
AACAATGGATGCAAGTTTGAATAGCATTGAAATGTCTTAACTAAACACTTTGATGTTTATAGACT
AAAGTGGTTAACTTATCCAAGTTGTTACATTAATGGATGGAAGTTTGAATAGAGT
Found at i:25595 original size:278 final size:277
Alignment explanation
Indices: 25092--25676 Score: 611
Period size: 278 Copynumber: 2.1 Consensus size: 277
25082 AACTTATCAA
*
25092 AGTTGTTACATTAATGGATGCAAGTTTGAATAACATTGAAATGTCATAACTAAACCCTTTGATGT
1 AGTTGTTACATTAATGGATGCAAGTTTGAATAACATTGAAATGTCATAACTAAACACTTTGATGT
* * * * * * *
25157 ATATGAAATAAGAGGTTGAATTATCCAAGTATTTACAACAATGTATAGAAGTTTGAATAGTGTTG
66 ATATGAAATAAGAGGTTGAAATATCCAAGTATTTACAACAATGGATAGAAGTTTCAAAAGAGATA
* * ** * * * * * ** *
25222 CAATGTCTTATCTGCACACTTTGATGTTTATAGACTAAATATGTTAACTTATCCATGTTGTTACA
131 AAATGTCTTAACTAAACACTTTGATGTTTACAGACTAAAAAGGTTAAATCATCCAAATTGTTAAA
* * * * * *
25287 TTAATGCATGGAAGTTTGAATAGTGTTGAAATGTCTTTACTGAACACTTTGATGTTTATTGATTA
196 TTAATGCATGGAAGCTTAAATAGTGTTGAAATATATTAACTAAACACTTTGATGTTTATTGATTA
25352 AAAAAGTTAATTATCTG
261 AAAAAGTTAATTATCTG
* * * ** *
25369 AGTTGTTACGTTAATGGATGCAATTTTGAATAGCATTGAAATGTTTTAACTAAATACTTTGATGT
1 AGTTGTTACATTAATGGATGCAAGTTTGAATAACATTGAAATGTCATAACTAAACACTTTGATGT
* *** * ** *
25434 TTATGGGCTAAAGTGGTT-AACATATCCAAGT-TCTTACATTAATGGATGGAAGTTTCAAAAGAG
66 ATATGAAAT-AAGAGGTTGAA-ATATCCAAGTAT-TTACAACAATGGATAGAAGTTTCAAAAGAG
25497 ATAAAATGTCTTAACTAAACACTTTGATGTTTACAGACTAAAAAGGTTAAATCATCCAAATTGTT
128 ATAAAATGTCTTAACTAAACACTTTGATGTTTACAGACTAAAAAGGTTAAATCATCCAAATTGTT
* * * * * *
25562 AAATTACTGGATGGATGCTTAAATAAG-GTTGAAATATATTAACTAAATAGTTTGATGTTTATGG
193 AAATTAATGCATGGAAGCTTAAAT-AGTGTTGAAATATATTAACTAAACACTTTGATGTTTATTG
* * * **
25626 AGTAAAGAGGTTAACTTATCCA
257 ATTAAAAAAGTTAA-TTATCTG
* * *
25648 ATTTG-TATATTAATGGATACAAGTTTGAA
1 AGTTGTTACATTAATGGATGCAAGTTTGAA
25677 CAGCGTTCAA
Statistics
Matches: 247, Mismatches: 56, Indels: 9
0.79 0.18 0.03
Matches are distributed among these distances:
277 66 0.27
278 170 0.69
279 11 0.04
ACGTcount: A:0.36, C:0.10, G:0.17, T:0.37
Consensus pattern (277 bp):
AGTTGTTACATTAATGGATGCAAGTTTGAATAACATTGAAATGTCATAACTAAACACTTTGATGT
ATATGAAATAAGAGGTTGAAATATCCAAGTATTTACAACAATGGATAGAAGTTTCAAAAGAGATA
AAATGTCTTAACTAAACACTTTGATGTTTACAGACTAAAAAGGTTAAATCATCCAAATTGTTAAA
TTAATGCATGGAAGCTTAAATAGTGTTGAAATATATTAACTAAACACTTTGATGTTTATTGATTA
AAAAAGTTAATTATCTG
Found at i:26695 original size:185 final size:183
Alignment explanation
Indices: 26133--26822 Score: 581
Period size: 185 Copynumber: 3.7 Consensus size: 183
26123 TAACTTATCT
* * * * ** *
26133 AATTTGTCAAATTAAAGGATGGAAGTTTGAATATCATT-GAATGCCTTAACTAAACACATTGATG
1 AATTTGTTACATTAATGGATGGAAGTTTGAATAGCATTGGAATATCTTAACTAAACACTTTGATG
* * * * * * * *
26197 ATTAT-GAACTAAAGAAGTTAACTTATACAAGTTGTTATATTAATGGATAGAAG-TTCAATCGTG
66 TTTATGGTA-T-AAGAGGTTAAGTTATACAAGTTGTTACATTAATGGATAGAAGTTTGAATAGCG
* * * *
26260 TTGAAATGTCTTTATTGAACACTTTGATGTTTACATATTAAAGAATTCTACTTATCC
129 TTGAAATGTCTTAATTAAACACTTTGATGTTTACA-ATTAAAGAAGT-TACTAATCC
* * * * * * * **
26317 AAATGGTTACTTTAATGGATGGAAGTTTGAATAACGTTGAAATATCTTAACTAAACACTTTAAAA
1 AATTTGTTACATTAATGGATGGAAGTTTGAATAGCATTGGAATATCTTAACTAAACACTTTGATG
* * * * * * *
26382 TTTATGGTCTTAATAGGTGAAGTTATCCATGTTGTTACATTAATGGAT-GCAAGTTTGAATTGCA
66 TTTATGGT-ATAAGAGGTTAAGTTATACAAGTTGTTACATTAATGGATAG-AAGTTTGAATAGCG
* * * ** * * *
26446 TTGAAACGTATTAACTAAACACTTTGATGTTTATGGACTAAA-AGGGTTAACTCATCC
129 TTGAAATGTCTTAATTAAACACTTTGATGTTTA-CAATTAAAGA-AGTT-ACTAATCC
* * * *
26503 CATTTGTTACATTAGTGGATGGAAGTTTGAATAGCATTGGAGTATCTTAACTAAATACTTTGATG
1 AATTTGTTACATTAATGGATGGAAGTTTGAATAGCATTGGAATATCTTAACTAAACACTTTGATG
* * *
26568 TTTATGGTATAAGAGGTTAAGTTATGCAAGTTTTTACATTAATGGATAGAAGTTTGAGTAGCGTT
66 TTTATGGTATAAGAGGTTAAGTTATACAAGTTGTTACATTAATGGATAGAAGTTTGAATAGCGTT
* *
26633 GAAATTTCTTAATTAAACATTTTGATGTTTACCAATTAAAGAAGTTAGCTAATCC
131 GAAATGTCTTAATTAAACACTTTGATGTTTA-CAATTAAAGAAGTTA-CTAATCC
* ** * *
26688 AATTTGTTTCATTAATGGATGGAAG-TTGAATAGCATTTAAAATGTCTTTAA-TGAACACTTTGA
1 AATTTGTTACATTAATGGATGGAAGTTTGAATAGCA-TTGGAATATC-TTAACTAAACACTTTGA
** * ** *
26751 TGTTTAAAG-ACTAAAGAAGTTAACATATCCAAGTTGTTAC-TTAATGGAT-GTAAGTTTGAATA
64 TGTTTATGGTA-T-AAGAGGTTAAGTTATACAAGTTGTTACATTAATGGATAG-AAGTTTGAATA
* *
26813 TCCTTGAAAT
126 GCGTTGAAAT
26823 ACAATAGGAG
Statistics
Matches: 398, Mismatches: 92, Indels: 31
0.76 0.18 0.06
Matches are distributed among these distances:
184 44 0.11
185 217 0.55
186 137 0.34
ACGTcount: A:0.35, C:0.10, G:0.17, T:0.37
Consensus pattern (183 bp):
AATTTGTTACATTAATGGATGGAAGTTTGAATAGCATTGGAATATCTTAACTAAACACTTTGATG
TTTATGGTATAAGAGGTTAAGTTATACAAGTTGTTACATTAATGGATAGAAGTTTGAATAGCGTT
GAAATGTCTTAATTAAACACTTTGATGTTTACAATTAAAGAAGTTACTAATCC
Found at i:33051 original size:20 final size:20
Alignment explanation
Indices: 33026--33075 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
33016 TTGGTCCAGA
*
33026 AGTATCGATATTGTTCTTAC
1 AGTATCGATATTGTTCATAC
*
33046 AGTATCGATATTGTTCATAT
1 AGTATCGATATTGTTCATAC
*
33066 AGTACCGATA
1 AGTATCGATA
33076 CCAAAGGTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.30, C:0.14, G:0.16, T:0.40
Consensus pattern (20 bp):
AGTATCGATATTGTTCATAC
Found at i:33200 original size:20 final size:21
Alignment explanation
Indices: 33175--33214 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
33165 CTTTGTATAG
33175 TAGTATCGATACCAT-AGGCA
1 TAGTATCGATACCATCAGGCA
33195 TAGTATCGATACCATCAGGC
1 TAGTATCGATACCATCAGGC
33215 CCCACTGGCT
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:0.33, C:0.23, G:0.20, T:0.25
Consensus pattern (21 bp):
TAGTATCGATACCATCAGGCA
Found at i:33633 original size:82 final size:82
Alignment explanation
Indices: 33545--33708 Score: 319
Period size: 82 Copynumber: 2.0 Consensus size: 82
33535 AACACCTACC
33545 TTAGAGAGGTTTTATTTGTTTACTTATTTTTACCTTTGTAAAAGGGATTGTTTTAGTTTAGCCAA
1 TTAGAGAGGTTTTATTTGTTTACTTATTTTTACCTTTGTAAAAGGGATTGTTTTAGTTTAGCCAA
33610 GTGAAAAACTAGGGAGT
66 GTGAAAAACTAGGGAGT
*
33627 TTAGAGAGGTTTTATTTGTTTACTTATTTTTACCTTTGTAAAGGGGATTGTTTTAGTTTAGCCAA
1 TTAGAGAGGTTTTATTTGTTTACTTATTTTTACCTTTGTAAAAGGGATTGTTTTAGTTTAGCCAA
33692 GTGAAAAACTAGGGAGT
66 GTGAAAAACTAGGGAGT
33709 GTAAAAGTTT
Statistics
Matches: 81, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
82 81 1.00
ACGTcount: A:0.27, C:0.07, G:0.23, T:0.43
Consensus pattern (82 bp):
TTAGAGAGGTTTTATTTGTTTACTTATTTTTACCTTTGTAAAAGGGATTGTTTTAGTTTAGCCAA
GTGAAAAACTAGGGAGT
Found at i:36334 original size:17 final size:17
Alignment explanation
Indices: 36297--36334 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
36287 TGATCGGTTG
*
36297 TTGACCGTTGACCTGCG
1 TTGACCGTTGACCTGCA
36314 TTGACCGTTGA-CTGGCA
1 TTGACCGTTGACCT-GCA
36331 TTGA
1 TTGA
36335 TCGGGCGTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 2 0.11
17 17 0.89
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.32
Consensus pattern (17 bp):
TTGACCGTTGACCTGCA
Found at i:43692 original size:181 final size:180
Alignment explanation
Indices: 43379--43742 Score: 602
Period size: 181 Copynumber: 2.0 Consensus size: 180
43369 GCTAATGTGT
*
43379 TTTTAAAAACTAAGCCTTCGGGGGTTTCTTGATTTGTAAGTCCTTCGGGCCATCTATAAGACCTT
1 TTTTAAAAACTAAGCCTTCGGGGGTTTCTTGATTTGTAAGTCCTTCGGGCCATCCATAAGACCTT
* *
43444 CATTGCAGGATATTTTCAAATGAGATTTTAAAAACTAAGCCTTCGGGGGTTTCTTGATTTGTAAG
66 CAGTGCAGGATATTTTCAAATGAGATTTTAAAAACTAAGCCTTCGGGGGTTTCTTGATTTATAAG
*
43509 TCCTTCGGGCCATCCATAAGACCTTCAGTGCATGATGGTTTTCAAATGAGA
131 TCCTTCGGGCCATCCATAAGACCTTCAGTGCAGGAT-GTTTTCAAATGAGA
* *
43560 TTTTAGAAACTAAGCCTTCGGGGGTTTCTTGATTTGTAAGTCCTTCGGGCCATCCGTAAGACCTT
1 TTTTAAAAACTAAGCCTTCGGGGGTTTCTTGATTTGTAAGTCCTTCGGGCCATCCATAAGACCTT
* * * * * *
43625 CAGTGCATGATGTTTTCAAATTAGATTTTAGAAACTAAGCCTTCGGGTGTTTTTTGATTTATAAG
66 CAGTGCAGGATATTTTCAAATGAGATTTTAAAAACTAAGCCTTCGGGGGTTTCTTGATTTATAAG
*
43690 TCCTTCGGGTCATCCATAAGACCTTCAGTGCAGGATGTTTTCAAATGAGA
131 TCCTTCGGGCCATCCATAAGACCTTCAGTGCAGGATGTTTTCAAATGAGA
43740 TTT
1 TTT
43743 AAGTCTTCAG
Statistics
Matches: 170, Mismatches: 13, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
180 17 0.10
181 153 0.90
ACGTcount: A:0.25, C:0.18, G:0.21, T:0.36
Consensus pattern (180 bp):
TTTTAAAAACTAAGCCTTCGGGGGTTTCTTGATTTGTAAGTCCTTCGGGCCATCCATAAGACCTT
CAGTGCAGGATATTTTCAAATGAGATTTTAAAAACTAAGCCTTCGGGGGTTTCTTGATTTATAAG
TCCTTCGGGCCATCCATAAGACCTTCAGTGCAGGATGTTTTCAAATGAGA
Found at i:43768 original size:90 final size:90
Alignment explanation
Indices: 43379--43742 Score: 602
Period size: 90 Copynumber: 4.0 Consensus size: 90
43369 GCTAATGTGT
* *
43379 TTTTAAAAACTAAGCCTTCGGGGGTTTCTTGATTTGTAAGTCCTTCGGGCCATCTATAAGACCTT
1 TTTTAGAAACTAAGCCTTCGGGGGTTTCTTGATTTGTAAGTCCTTCGGGCCATCCATAAGACCTT
* *
43444 CATTGCAGGATATTTTCAAATGAGA
66 CAGTGCAGGATGTTTTCAAATGAGA
*
43469 TTTTAAAAACTAAGCCTTCGGGGGTTTCTTGATTTGTAAGTCCTTCGGGCCATCCATAAGACCTT
1 TTTTAGAAACTAAGCCTTCGGGGGTTTCTTGATTTGTAAGTCCTTCGGGCCATCCATAAGACCTT
*
43534 CAGTGCATGATGGTTTTCAAATGAGA
66 CAGTGCAGGAT-GTTTTCAAATGAGA
*
43560 TTTTAGAAACTAAGCCTTCGGGGGTTTCTTGATTTGTAAGTCCTTCGGGCCATCCGTAAGACCTT
1 TTTTAGAAACTAAGCCTTCGGGGGTTTCTTGATTTGTAAGTCCTTCGGGCCATCCATAAGACCTT
* *
43625 CAGTGCATGATGTTTTCAAATTAGA
66 CAGTGCAGGATGTTTTCAAATGAGA
* * * *
43650 TTTTAGAAACTAAGCCTTCGGGTGTTTTTTGATTTATAAGTCCTTCGGGTCATCCATAAGACCTT
1 TTTTAGAAACTAAGCCTTCGGGGGTTTCTTGATTTGTAAGTCCTTCGGGCCATCCATAAGACCTT
43715 CAGTGCAGGATGTTTTCAAATGAGA
66 CAGTGCAGGATGTTTTCAAATGAGA
43740 TTT
1 TTT
43743 AAGTCTTCAG
Statistics
Matches: 259, Mismatches: 14, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
90 172 0.66
91 87 0.34
ACGTcount: A:0.25, C:0.18, G:0.21, T:0.36
Consensus pattern (90 bp):
TTTTAGAAACTAAGCCTTCGGGGGTTTCTTGATTTGTAAGTCCTTCGGGCCATCCATAAGACCTT
CAGTGCAGGATGTTTTCAAATGAGA
Found at i:44076 original size:137 final size:135
Alignment explanation
Indices: 43886--44462 Score: 879
Period size: 137 Copynumber: 4.2 Consensus size: 135
43876 AATGCTTTCA
*
43886 ACATTTCCAATTGAGAGTTCATAATGAGAAGAACTCATCTGACAGATGGAGAAGAAGTTCATAAT
1 ACATTTCCAAATGAGAGTTCATAATGAGAAGAACTCATCTGACAGA-GGAGAAGAAGTTCATAAT
*
43951 GAGAAGAGCTTGTTCGACCTATCACTCGATTCACGGCATTTCGAATCAGTGACACCTCGCTTGAG
65 GAGAAGAGCTTGTTCGACCTATCACTCGATTCACGACATTTCGAATCAGTGACACCTCGCTTGAG
44016 GGATTG
130 GGATTG
* * *
44022 ACATTTCCAAATGAAGAGTTCATAATGAGAAGAACTCATCTGATAGAGGCAGAAGAATTTAATAA
1 ACATTTCCAAATG-AGAGTTCATAATGAGAAGAACTCATCTGACAGAGG-AGAAGAAGTTCATAA
* *
44087 TAAGAAGAGCTTGTTCGACCTATCACTCGATTCACGACATTTCGAATCAATGACACCTCGCTTGA
64 TGAGAAGAGCTTGTTCGACCTATCACTCGATTCACGACATTTCGAATCAGTGACACCTCGCTTGA
44152 GGGATTG
129 GGGATTG
* * * *
44159 ATATTTCCAAATGAAGAGTTCACAATGAGAAGAACTCAT-TCGATAGAGGGAGAATAAGTTCATA
1 ACATTTCCAAATG-AGAGTTCATAATGAGAAGAACTCATCT-GACAGA-GGAGAAGAAGTTCATA
* *
44223 ATGAGAAGAGCTTGTTCGACCTATCACTTGATTCACGGCATTTCGAATCAGTGACACCTCGCTTG
63 ATGAGAAGAGCTTGTTCGACCTATCACTCGATTCACGACATTTCGAATCAGTGACACCTCGCTTG
44288 AGGGATTG
128 AGGGATTG
* *
44296 ACATTTACAAATTGAGAGTTCATAATGAGAAGAACTCATCCGACAGAAGGAGAAGAAGTTCATAA
1 ACATTTCCAAA-TGAGAGTTCATAATGAGAAGAACTCATCTGACAG-AGGAGAAGAAGTTCATAA
** * *
44361 TGAGAAGAGCTTGTTCGACCTATCACTCGATTCTTGACATTTCGAATCACTGACGCCTCGCTTGA
64 TGAGAAGAGCTTGTTCGACCTATCACTCGATTCACGACATTTCGAATCAGTGACACCTCGCTTGA
44426 GGGATTG
129 GGGATTG
*
44433 ACATTT-CTAATGGAGAGTTCATAATGAGAA
1 ACATTTCCAAAT-GAGAGTTCATAATGAGAA
44463 CTCGTCCTAA
Statistics
Matches: 404, Mismatches: 29, Indels: 16
0.90 0.06 0.04
Matches are distributed among these distances:
135 1 0.00
136 36 0.09
137 362 0.90
138 5 0.01
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.27
Consensus pattern (135 bp):
ACATTTCCAAATGAGAGTTCATAATGAGAAGAACTCATCTGACAGAGGAGAAGAAGTTCATAATG
AGAAGAGCTTGTTCGACCTATCACTCGATTCACGACATTTCGAATCAGTGACACCTCGCTTGAGG
GATTG
Found at i:44483 original size:32 final size:32
Alignment explanation
Indices: 44445--44526 Score: 155
Period size: 32 Copynumber: 2.6 Consensus size: 32
44435 ATTTCTAATG
44445 GAGAGTTCATAATGAGAACTCGTCCTAAAGGA
1 GAGAGTTCATAATGAGAACTCGTCCTAAAGGA
44477 GAGAGTTCATAATGAGAACTCGTCCTAAAGGA
1 GAGAGTTCATAATGAGAACTCGTCCTAAAGGA
*
44509 GAAAGTTCATAATGAGAA
1 GAGAGTTCATAATGAGAA
44527 GAACTTGTTC
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 49 1.00
ACGTcount: A:0.40, C:0.13, G:0.24, T:0.22
Consensus pattern (32 bp):
GAGAGTTCATAATGAGAACTCGTCCTAAAGGA
Found at i:44692 original size:91 final size:90
Alignment explanation
Indices: 44572--44739 Score: 266
Period size: 91 Copynumber: 1.9 Consensus size: 90
44562 TGGATCAACA
* * *
44572 TTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCC-TACGATGAAGACGAAGTTCATAATGAG
1 TTTCCAGTGAAGAGTTCATAATGAGAAGAACTCATCCATAAGA-G-AGAAGAAGTTCATAATGAG
44636 AAAAACTTGTTCAACCTTGCATCAGTG
64 AAAAACTTGTTCAACCTTGCATCAGTG
44663 TTTCCAGTGAAGAGTTCATAATGAGAAGAACTCATCCATAAGAGAGAAGAAGTTCATAATGAGAA
1 TTTCCAGTGAAGAGTTCATAATGAGAAGAACTCATCCATAAGAGAGAAGAAGTTCATAATGAGAA
* *
44728 GAGCTTGTTCAA
66 AAACTTGTTCAA
44740 TCCAACAACG
Statistics
Matches: 71, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
90 30 0.42
91 37 0.52
92 4 0.06
ACGTcount: A:0.38, C:0.15, G:0.21, T:0.26
Consensus pattern (90 bp):
TTTCCAGTGAAGAGTTCATAATGAGAAGAACTCATCCATAAGAGAGAAGAAGTTCATAATGAGAA
AAACTTGTTCAACCTTGCATCAGTG
Found at i:44984 original size:3 final size:3
Alignment explanation
Indices: 44888--44971 Score: 136
Period size: 3 Copynumber: 28.7 Consensus size: 3
44878 TCAAAAAAAA
*
44888 TAT TAT TA- AAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
44935 TAT TAT TAT TAT TAT TAT TAT TAT CA- TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
44972 ATAAAATTAT
Statistics
Matches: 75, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
2 2 0.03
3 73 0.97
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:49198 original size:26 final size:27
Alignment explanation
Indices: 49169--49219 Score: 77
Period size: 26 Copynumber: 1.9 Consensus size: 27
49159 GGACTAAATG
*
49169 AAATAACCAAAATAC-CCTGAACTCCA
1 AAATAACCAAAATACACCTAAACTCCA
*
49195 AAATAACCAAATTACACCTAAACTC
1 AAATAACCAAAATACACCTAAACTC
49220 TAGAGTGACT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 14 0.64
27 8 0.36
ACGTcount: A:0.51, C:0.29, G:0.02, T:0.18
Consensus pattern (27 bp):
AAATAACCAAAATACACCTAAACTCCA
Found at i:50339 original size:39 final size:39
Alignment explanation
Indices: 50296--50409 Score: 115
Period size: 39 Copynumber: 2.9 Consensus size: 39
50286 CAGGGTAAGT
* *
50296 CTTTACCGTATGTTCCTTTGCTTCGTCCATAGGGGAAAA
1 CTTTACTGTATGTTCCTTTGCTTCGTGCATAGGGGAAAA
* * * * *
50335 CTTTATTGTAT-TCTACTTTTCTTCGTGCATAGAGGAAGA
1 CTTTACTGTATGT-TCCTTTGCTTCGTGCATAGGGGAAAA
* *
50374 CTTTACTATCTGTTCCTTTG-TATCGTGCATAGGGGA
1 CTTTACTGTATGTTCCTTTGCT-TCGTGCATAGGGGA
50410 GCAATTTATC
Statistics
Matches: 59, Mismatches: 13, Indels: 6
0.76 0.17 0.08
Matches are distributed among these distances:
38 2 0.03
39 56 0.95
40 1 0.02
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.40
Consensus pattern (39 bp):
CTTTACTGTATGTTCCTTTGCTTCGTGCATAGGGGAAAA
Found at i:52812 original size:180 final size:184
Alignment explanation
Indices: 52389--52769 Score: 452
Period size: 185 Copynumber: 2.1 Consensus size: 184
52379 AATTTTAAAT
* * * * *** * **
52389 ATTAAATATATTATATATAACATATGGGCTCAGCCCAAACCATTTAAAACCCAATTAATAATTTA
1 ATTAAATATATTATATATTACAAAT-GTCTAAGAAAAAACCAGTTAAAACAAAATTAATAATTTA
* *
52454 AGATCTAATAACGTTTAAACCTAAATCAATATTAATTAATTAAAAAAATTATATAAAATTTTTAT
65 AGATCCAATAACGTTTAAACATAAATCAATATTAATTAATTAAAAAAATTATATAAAATTTTTAT
* *
52519 TTTATAATTATATATTATTTAAATTAATTGTAAACTGTTTTTTTAATTAAAAAAT
130 TTTATAATTATATATTATTTAAATTAATTATAAACTGTTTTTTTAATTAAAAAAC
* *** * **
52574 ATTAAATATATTATATATTACATATGGTCTAAGCCCAAACCATTTAAAACTCAATTAATAATTTA
1 ATTAAATATATTATATATTACAAAT-GTCTAAGAAAAAACCAGTTAAAACAAAATTAATAATTTA
* * *
52639 AGATCCAATAACTTTTAAACATAAATC-ATATTAATTAATTAAAAAATTTATCT-AAATTTTT-T
65 AGATCCAATAACGTTTAAACATAAATCAATATTAATTAATTAAAAAAATTATATAAAATTTTTAT
52701 TTTATAA-T-TATATTATTTAAATTAATTATAAACT-TTTTTTTGAATTAAAAAAC
130 TTTATAATTATATATTATTTAAATTAATTATAAACTGTTTTTTT-AATTAAAAAAC
* *
52754 ATTTAAT-TTTTATATA
1 ATTAAATATATTATATA
52770 AATTTTAAAA
Statistics
Matches: 182, Mismatches: 13, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
179 15 0.08
180 41 0.23
181 1 0.01
182 8 0.04
183 8 0.04
184 24 0.13
185 85 0.47
ACGTcount: A:0.45, C:0.09, G:0.03, T:0.43
Consensus pattern (184 bp):
ATTAAATATATTATATATTACAAATGTCTAAGAAAAAACCAGTTAAAACAAAATTAATAATTTAA
GATCCAATAACGTTTAAACATAAATCAATATTAATTAATTAAAAAAATTATATAAAATTTTTATT
TTATAATTATATATTATTTAAATTAATTATAAACTGTTTTTTTAATTAAAAAAC
Found at i:52923 original size:15 final size:15
Alignment explanation
Indices: 52899--52936 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
52889 AAAAAATTCA
52899 ATTAATTCAATTATG
1 ATTAATTCAATTATG
*
52914 ATTTATTCAATTATG
1 ATTAATTCAATTATG
52929 ATTAATTC
1 ATTAATTC
52937 GATTCGATTC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.37, C:0.08, G:0.05, T:0.50
Consensus pattern (15 bp):
ATTAATTCAATTATG
Found at i:55739 original size:39 final size:39
Alignment explanation
Indices: 55690--55837 Score: 140
Period size: 39 Copynumber: 3.8 Consensus size: 39
55680 AGGGGTAAGT
*
55690 CTTTACTGTATGTTCCTTTGCTTCGTGCAAAGGGGAAAA
1 CTTTACTGTATGTTCCTTTGCTTCGTGCATAGGGGAAAA
* * * * * **
55729 CTTTATTGTATTTTACTTTGCTTAGTGCATAGGGGTAGT
1 CTTTACTGTATGTTCCTTTGCTTCGTGCATAGGGGAAAA
* *
55768 CTTTACTGTCT-TCTCCTTTGCTTCTTGCATAGGGGAACAA
1 CTTTACTGTATGT-TCCTTTGCTTCGTGCATAGGGGAA-AA
* *
55808 -TTTACCGTATGCTCCTTTGCATT-GTGCATA
1 CTTTACTGTATGTTCCTTTGC-TTCGTGCATA
55838 TGAAAAATCT
Statistics
Matches: 85, Mismatches: 20, Indels: 8
0.75 0.18 0.07
Matches are distributed among these distances:
38 1 0.01
39 82 0.96
40 2 0.02
ACGTcount: A:0.19, C:0.19, G:0.20, T:0.42
Consensus pattern (39 bp):
CTTTACTGTATGTTCCTTTGCTTCGTGCATAGGGGAAAA
Found at i:55826 original size:78 final size:79
Alignment explanation
Indices: 55680--55837 Score: 189
Period size: 78 Copynumber: 2.0 Consensus size: 79
55670 CTTTACACAC
** **
55680 AGGGGTAAGTCTTTACTGTATGTTCCTTTGCTTCGTGCAAAGGGGAAAACTTTATTGTATTTTAC
1 AGGGGTAAGTCTTTACTGTATGTTCCTTTGCTTCGTGCAAAGGGGAAAACTTTACCGTATGCTAC
55745 TTTGC-TTAGTGCAT
66 TTTGCATT-GTGCAT
* * *
55759 AGGGGT-AGTCTTTACTGTCT-TCTCCTTTGCTTCTTGCATAGGGGAACAA-TTTACCGTATGCT
1 AGGGGTAAGTCTTTACTGTATGT-TCCTTTGCTTCGTGCAAAGGGGAA-AACTTTACCGTATGCT
*
55821 CCTTTGCATTGTGCAT
64 ACTTTGCATTGTGCAT
55837 A
1 A
55838 TGAAAAATCT
Statistics
Matches: 68, Mismatches: 8, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
77 1 0.01
78 57 0.84
79 10 0.15
ACGTcount: A:0.20, C:0.18, G:0.22, T:0.41
Consensus pattern (79 bp):
AGGGGTAAGTCTTTACTGTATGTTCCTTTGCTTCGTGCAAAGGGGAAAACTTTACCGTATGCTAC
TTTGCATTGTGCAT
Found at i:58093 original size:20 final size:20
Alignment explanation
Indices: 58068--58110 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
58058 TCAAAATCAT
*
58068 TTTTCAAAATTTC-ATTTTGC
1 TTTTCAAAA-TCCAATTTTGC
58088 TTTTCAAAATCCAATTTTGC
1 TTTTCAAAATCCAATTTTGC
58108 TTT
1 TTT
58111 CAAGAGAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 2 0.10
20 19 0.90
ACGTcount: A:0.26, C:0.16, G:0.05, T:0.53
Consensus pattern (20 bp):
TTTTCAAAATCCAATTTTGC
Found at i:58531 original size:6 final size:6
Alignment explanation
Indices: 58516--58553 Score: 67
Period size: 6 Copynumber: 6.3 Consensus size: 6
58506 CTTGGCCATC
*
58516 TCTTCT TCTTCA TCTTCA TCTTCA TCTTCA TCTTCA TC
1 TCTTCA TCTTCA TCTTCA TCTTCA TCTTCA TCTTCA TC
58554 CACCTCTTCA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.13, C:0.34, G:0.00, T:0.53
Consensus pattern (6 bp):
TCTTCA
Found at i:58561 original size:18 final size:18
Alignment explanation
Indices: 58522--58563 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
58512 CATCTCTTCT
**
58522 TCTTCATCTTCATCTTCA
1 TCTTCATCTTCATCCACA
*
58540 TCTTCATCTTCATCCACC
1 TCTTCATCTTCATCCACA
58558 TCTTCA
1 TCTTCA
58564 CTTGAGTCTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.17, C:0.38, G:0.00, T:0.45
Consensus pattern (18 bp):
TCTTCATCTTCATCCACA
Found at i:60473 original size:20 final size:20
Alignment explanation
Indices: 60448--60510 Score: 55
Period size: 20 Copynumber: 3.4 Consensus size: 20
60438 TCTAACTCTA
60448 AATGCAATGTGATGGCAATG
1 AATGCAATGTGATGGCAATG
* * *
60468 AATGCAA-CTAACT--C--TA
1 AATGCAATGTGA-TGGCAATG
60484 AATGCAATGTGATGGCAATG
1 AATGCAATGTGATGGCAATG
60504 AATGCAA
1 AATGCAA
60511 CGAAAATTAT
Statistics
Matches: 31, Mismatches: 6, Indels: 12
0.63 0.12 0.24
Matches are distributed among these distances:
16 9 0.29
17 2 0.06
18 2 0.06
19 2 0.06
20 16 0.52
ACGTcount: A:0.40, C:0.14, G:0.22, T:0.24
Consensus pattern (20 bp):
AATGCAATGTGATGGCAATG
Found at i:60486 original size:36 final size:36
Alignment explanation
Indices: 60439--60511 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
60429 TGTAGAGAAT
60439 CTAACTCTAAATGCAATGTGATGGCAATGAATGCAA
1 CTAACTCTAAATGCAATGTGATGGCAATGAATGCAA
60475 CTAACTCTAAATGCAATGTGATGGCAATGAATGCAA
1 CTAACTCTAAATGCAATGTGATGGCAATGAATGCAA
60511 C
1 C
60512 GAAAATTATG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.38, C:0.18, G:0.19, T:0.25
Consensus pattern (36 bp):
CTAACTCTAAATGCAATGTGATGGCAATGAATGCAA
Found at i:61763 original size:2 final size:2
Alignment explanation
Indices: 61756--61845 Score: 153
Period size: 2 Copynumber: 45.0 Consensus size: 2
61746 TAATTAAGTC
61756 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * *
61798 AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT GT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
61840 AT AT AT
1 AT AT AT
61846 GCTTAGGGTA
Statistics
Matches: 82, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 82 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:70228 original size:29 final size:31
Alignment explanation
Indices: 70193--70250 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
70183 ATATCCTTCC
70193 ACTTTTAT-CCC-GACATTAATGGTCCTCCT
1 ACTTTTATCCCCTGACATTAATGGTCCTCCT
70222 ACTTTTATCCCCTGACATTAATGGTCCTC
1 ACTTTTATCCCCTGACATTAATGGTCCTC
70251 ATTCTCCACG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
29 8 0.30
30 3 0.11
31 16 0.59
ACGTcount: A:0.21, C:0.31, G:0.10, T:0.38
Consensus pattern (31 bp):
ACTTTTATCCCCTGACATTAATGGTCCTCCT
Done.