Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001757.1 Hibiscus syriacus cultivar Beakdansim tig00003553_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: 64574
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Found at i:124 original size:20 final size:19
Alignment explanation
Indices: 101--147 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
91 CGATATACCA
101 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
*
121 GGTATCAAAATGATAAAACC
1 GGTA-AAAAATGATAAAACC
141 GGTAAAA
1 GGTAAAA
148 CGTTACCGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.53, C:0.11, G:0.17, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:301 original size:178 final size:177
Alignment explanation
Indices: 1--355 Score: 561
Period size: 178 Copynumber: 2.0 Consensus size: 177
* *
1 ATATAAGGATCGACACTTTCGTGAATTAAACGAGAAGCAGTTTTAAATCCTATAAAGTGTCGATA
1 ATATAAGGATCGACACTTTCGTGAATTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATA
* ** *
66 CTTTGAAAAATGTATCGATCCAAAACGATATACCAGGTAAAAATATGATAAAACCGGTATCAAAA
66 CTTTAAAAAAAATATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATC-AAA
* *
131 TGATAAAACCGGTAAAACGTTACCGGATATATTGAAAGTGTCGATACTT
130 TGATAAAACCGGTAAAACGATA-CGGATATATTAAAAGTGTCGATACTT
** *
180 ATATAAGGATCGACACTTT-G-GAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAATGTGTCGAT
1 ATATAAGGATCGACACTTTCGTGAA-TTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGAT
*
243 ACTTTAAAAAAAATATCGATCCACAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAA
65 ACTTTAAAAAAAATATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAA
308 TGATAAAACCGGTAAAACGATACGGATATATTAAAAGTGTCGATACTT
130 TGATAAAACCGGTAAAACGATACGGATATATTAAAAGTGTCGATACTT
356 TCGTAAGTAC
Statistics
Matches: 163, Mismatches: 12, Indels: 5
0.91 0.07 0.03
Matches are distributed among these distances:
176 25 0.15
177 27 0.17
178 92 0.56
179 19 0.12
ACGTcount: A:0.42, C:0.14, G:0.17, T:0.26
Consensus pattern (177 bp):
ATATAAGGATCGACACTTTCGTGAATTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATA
CTTTAAAAAAAATATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAT
GATAAAACCGGTAAAACGATACGGATATATTAAAAGTGTCGATACTT
Found at i:2432 original size:15 final size:15
Alignment explanation
Indices: 2412--2440 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
2402 GTTGTATTGG
2412 GGGATGACGGTGAGT
1 GGGATGACGGTGAGT
2427 GGGATGACGGTGAG
1 GGGATGACGGTGAG
2441 GGAAAACATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.07, G:0.55, T:0.17
Consensus pattern (15 bp):
GGGATGACGGTGAGT
Found at i:2551 original size:21 final size:21
Alignment explanation
Indices: 2525--2576 Score: 79
Period size: 20 Copynumber: 2.5 Consensus size: 21
2515 AAGACAATCA
*
2525 AGAGTCGAAGAGAAACTTGAT
1 AGAGTCGAAGAGAAACTTGAG
*
2546 AGAGTCAAAG-GAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
2566 AGAGTCGAAGA
1 AGAGTCGAAGA
2577 TACATTGAGA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
20 18 0.67
21 9 0.33
ACGTcount: A:0.44, C:0.10, G:0.31, T:0.15
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:2584 original size:20 final size:20
Alignment explanation
Indices: 2525--2587 Score: 58
Period size: 20 Copynumber: 3.1 Consensus size: 20
2515 AAGACAATCA
*
2525 AGAGTCGAAGAGAA-ACTTGAT
1 AGAGTCGAAGA-AACA-TTGAG
*
2546 AGAGTCAAAGGAAAC-TTGAG
1 AGAGTCGAA-GAAACATTGAG
*
2566 AGAGTCGAAGATACATTGAG
1 AGAGTCGAAGAAACATTGAG
2586 AG
1 AG
2588 GCATAAGGGG
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
19 4 0.11
20 19 0.54
21 10 0.29
22 2 0.06
ACGTcount: A:0.43, C:0.10, G:0.30, T:0.17
Consensus pattern (20 bp):
AGAGTCGAAGAAACATTGAG
Found at i:4468 original size:17 final size:18
Alignment explanation
Indices: 4426--4473 Score: 71
Period size: 19 Copynumber: 2.7 Consensus size: 18
4416 AAATGTAGGG
4426 TTAATTTTGTATAAGATT
1 TTAATTTTGTATAAGATT
*
4444 TATAATTTTGTATACGA-T
1 T-TAATTTTGTATAAGATT
4462 TTAATTTTGTAT
1 TTAATTTTGTAT
4474 GTGAATATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
17 11 0.39
18 3 0.11
19 14 0.50
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.56
Consensus pattern (18 bp):
TTAATTTTGTATAAGATT
Found at i:4781 original size:16 final size:16
Alignment explanation
Indices: 4760--4792 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
4750 AAGTGCCGAT
4760 CCCATAAACATCGAAA
1 CCCATAAACATCGAAA
4776 CCCATAAACATCGAAA
1 CCCATAAACATCGAAA
4792 C
1 C
4793 AGAAGAGTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.48, C:0.33, G:0.06, T:0.12
Consensus pattern (16 bp):
CCCATAAACATCGAAA
Found at i:6272 original size:23 final size:23
Alignment explanation
Indices: 6246--6309 Score: 94
Period size: 23 Copynumber: 2.8 Consensus size: 23
6236 AAATATGATG
6246 TAATAGGTAGCGCTTATATAATA
1 TAATAGGTAGCGCTTATATAATA
* *
6269 TAATAGGTAGCGTTTATATAATG
1 TAATAGGTAGCGCTTATATAATA
*
6292 T-ATAGGTAGTGCTTATAT
1 TAATAGGTAGCGCTTATAT
6310 TGTAAAGATC
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
22 15 0.41
23 22 0.59
ACGTcount: A:0.34, C:0.06, G:0.20, T:0.39
Consensus pattern (23 bp):
TAATAGGTAGCGCTTATATAATA
Found at i:6591 original size:472 final size:478
Alignment explanation
Indices: 5874--7156 Score: 1873
Period size: 472 Copynumber: 2.7 Consensus size: 478
5864 AAACCCATCA
*
5874 TTTTTCACTGTGGAAAACATTAATTTAA---TCTTTTGAGTGAGTTTTAAGATATTAATTTAGTA
1 TTTTTCACTGTGGAAAACATTAATTTAAGGTTATTTTGAGTGAGTTTTAAGATATTAATTTAGTA
5936 ATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATAT-TATTATTAAATTAAAAACAATA
66 ATTATAGGCGTCTAATGATTTA-TTTTTACGTTACGGTATATATA-TATTAAATTAAAAACAATA
* *
6000 AAC-TATATATACATA-TTTATTATC-TTGGTTAATA-TGTTAAATTAAATACTAATAATATTTT
129 AACATATAT-TACATATTTTATTATCTTTGGTTAATATTGTTAAATTTAATACTAAAAATATTTT
6061 ATAAAATATCAAAACAATCAAATAATTTTTTGTG-AAATGAAATTATTAAATT-ATATTGTAGGT
193 ATAAAATATC-AAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGT
6124 GGAAAACATGAAACACTGTTAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAATATCGA
257 GGAAAACATGAAACACTGTTAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAATATCGA
* *
6189 CCCTTTTCTTTTTATAAAAA-TATGGACACTTTCAATATAATAGGCAAAAATATGATGTAATAGG
322 -----TCCTTTTTATAAAAAGTATAGACACTTTCAATATAATAGGCAAAAATATGATGTAATAGG
6253 TAGCGCTTATATAATATAATAGGTAGCGTTTATATAATGT-ATAGGTAGTGCTTATATTGTAAAG
382 TAGCGCTTATATAATATAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATATTGTAAAG
6317 -ATCTATCCTTTTTAT-AAAGTGTCCATAC-T
447 TATCTATCCTTTTTATAAAAGTGTCCATACTT
6346 TTTTTCACTGTGGAAAACATTAATTTAAGGTTATATTTGAGTGAGTTTTAAGATATTAATTTAGT
1 TTTTTCACTGTGGAAAACATTAATTTAAGGTTAT-TTTGAGTGAGTTTTAAGATATTAATTTAGT
6411 -ATTATA-GCGTCTAATGATTTA-TTTTACGTTACGGTATATATATATTAAATT-AAAACAATAA
65 AATTATAGGCGTCTAATGATTTATTTTTACGTTACGGTATATATATATTAAATTAAAAACAATAA
*
6472 ACATATATTACATATTTTATTATCTTTGGTTAATATTGTTAAATTTAATACTAAAAATAATTTAT
130 ACATATATTACATATTTTATTATCTTTGGTTAATATTGTTAAATTTAATACTAAAAATATTTTAT
*
6537 AAAATATC-AA-AA-CAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTACGTGGA
195 AAAATATCAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGA
6599 AAACATG-AA-AC-----------------C-TAAATTACATAACTTTAAAAAAAATATCGATCC
260 AAACATGAAACACTGTTAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAATATCGATCC
*
6644 TTTTTATAAAAAGTATAGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTT
325 TTTTTATAAAAAGTATAGACACTTTCAATATAATAGGCAAAAATATGATGTAATAGGTAGCGCTT
* *
6709 ATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGTTTATATTGTAAAGTATCTATC
390 ATATAATATAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATC
6774 CTTTTTATAAAAGTGTCCATACTT
455 CTTTTTATAAAAGTGTCCATACTT
*
6798 TTTTTCACTGTGGAAAACATTAATTT-AGGTTATCTTTTGAGTGAG-TTTAAGATATCAATTTAG
1 TTTTTCACTGTGGAAAACATTAATTTAAGGTTA--TTTTGAGTGAGTTTTAAGATATTAATTTAG
* ** * *
6861 TAATTATATGTATCTAATGATTTATTTTTTATGTTACGATATATATATCATTAAATTAAAAACAA
64 TAATTATAGGCGTCTAATGATTTA-TTTTTACGTTACGGTATATATAT-ATTAAATTAAAAACAA
6926 TAAACATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATACTAAATA
127 TAAAC--ATATATTACATA-TT-TTATTATCTTTGGTTAATATTGTTAAATTT-AATACTAAA-A
6991 ATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATAT
186 ATATTTTATAAAATATC-AAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATAT
7056 TGTAGGTGGAAAACATGAAACACTGTTAAAAAAAAATTGAAACATAAATTACATAACTTTTAAAA
250 TGTAGGTGGAAAACATGAAACACTGTT--AAAAAAATTGAAACATAAATTACATAAC-TTTAAAA
* *
7121 AAAATATCGAT-CATTTTATAAAAAGTATGGACACTT
312 AAAATATCGATCCTTTTTATAAAAAGTATAGACACTT
7157 ATATTTTATA
Statistics
Matches: 735, Mismatches: 19, Indels: 97
0.86 0.02 0.11
Matches are distributed among these distances:
447 14 0.02
448 81 0.11
449 23 0.03
450 15 0.02
451 37 0.05
452 73 0.10
453 15 0.02
455 20 0.03
456 8 0.01
457 12 0.02
459 12 0.02
460 2 0.00
461 30 0.04
462 9 0.01
463 17 0.02
465 2 0.00
466 2 0.00
467 56 0.08
468 2 0.00
469 2 0.00
470 18 0.02
471 40 0.05
472 91 0.12
473 12 0.02
474 49 0.07
475 8 0.01
476 30 0.04
488 1 0.00
489 36 0.05
490 18 0.02
ACGTcount: A:0.41, C:0.08, G:0.11, T:0.40
Consensus pattern (478 bp):
TTTTTCACTGTGGAAAACATTAATTTAAGGTTATTTTGAGTGAGTTTTAAGATATTAATTTAGTA
ATTATAGGCGTCTAATGATTTATTTTTACGTTACGGTATATATATATTAAATTAAAAACAATAAA
CATATATTACATATTTTATTATCTTTGGTTAATATTGTTAAATTTAATACTAAAAATATTTTATA
AAATATCAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAA
AACATGAAACACTGTTAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAATATCGATCCT
TTTTATAAAAAGTATAGACACTTTCAATATAATAGGCAAAAATATGATGTAATAGGTAGCGCTTA
TATAATATAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCC
TTTTTATAAAAGTGTCCATACTT
Found at i:6717 original size:23 final size:23
Alignment explanation
Indices: 6686--6758 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
6676 ATAGGTAAAA
* *
6686 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGTTT
6709 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGTTT
*
6732 ATATAATGTAATAGGTAGTGTTT
1 ATATAATGTAATAGGTAGCGTTT
6755 ATAT
1 ATAT
6759 TGTAAAGTAT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 47 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGTTT
Found at i:7431 original size:23 final size:23
Alignment explanation
Indices: 7405--7467 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
7395 ATATAAGCAC
7405 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
7428 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
7451 TACCTATTACATCATAT
1 TACCTATTACATTATAT
7468 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:7916 original size:23 final size:23
Alignment explanation
Indices: 7890--7951 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
7880 ATATAAGCAC
7890 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
7913 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
7936 TACCTATTACA-TATAT
1 TACCTATTACATTATAT
7952 TTTACCTATT
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
22 5 0.14
23 32 0.86
ACGTcount: A:0.39, C:0.19, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:8054 original size:482 final size:480
Alignment explanation
Indices: 7157--8294 Score: 2059
Period size: 482 Copynumber: 2.4 Consensus size: 480
7147 ATGGACACTT
7157 ATATTTTATAAAATAATATTTAG-ATTTAAATTTAACAATATTAACCAAAGATAATAAATA-GTA
1 ATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAAATATGTA
7220 ATATATGTTTATTGTTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGA
66 ATATATGTTTATTGTTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGA
*
7285 CG-CTATAATTACTAAATTAATATCTTAAACTCACTCAAAAGATAACCTTAAATTATGTTTTTTC
131 CGCCTATAATTACTAAATTAATATCTTAAACTCACTCAAAAGATAACCTTAAATTATGTTTTTCC
*
7349 ACAGTGAAAAAAGTATGGACACTTTTAAAAGGATAGATACTTTACAATATAAGCACTACCTATTA
196 ACAGTGAAAAAAGTATGAACACTTTTAAAAGGATAGATACTTTACAATATAAGCACTACCTATTA
7414 CATTATATAAACGATACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATT
261 CATTATATAAACGATACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATT
7479 ATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTAT
326 ATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTAT
7544 GTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTAC-ATA-TAATTTAAGAATTTCATTT
391 GTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAAGAATTTCATTT
7607 ACA-AAAAATTATTTGATTGTTTTG
456 ACACAAAAATTATTTGATTGTTTTG
7631 ATATTTTAT-AAATAATATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATAT
1 ATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATTAACCAAAG---ATAATAAATAT
7695 GTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCA
63 GT-A-ATATATGTTTATTGTTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCA
7760 TTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATG
126 TTAGACGCCTATAATTACTAAATTAATATCTT-AAACTCACTCAAAAGATAACCTTAAATT-ATG
*
7825 -TTTTCCACAGTGAAAAAAGTATGAACACTTTTATAAAAATGATAGATACTTTACAATATAAGCA
189 TTTTTCCACAGTGAAAAAAGTATGAACAC-TTT-T-AAAAGGATAGATACTTTACAATATAAGCA
7889 CTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACCTATTACAT-ATA-T
251 CTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACCTATTACATCATATT
7952 TTTACCTATTATATTGAAAGTGTCCATACTTTTTAT-AAAAGGATCGATACTTTTTTTAAAGTTA
316 TTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTA
8016 TGTAATTTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAAG
381 TGTAATTTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAAG
*
8081 AATTTCATTTATACAAAAATTATTTGATTGTTTTG
446 AATTTCATTTACACAAAAATTATTTGATTGTTTTG
8116 ATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAAATATGTA
1 ATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAAATATGTA
8181 ATATATGTTTATTGTTTTTAATTTAAT-ATAATATATATCGTAACGTAAAAAATAAATCATTAGA
66 ATATATGTTTATTGTTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGA
8245 CGCCTATAATTACTAAA-TAATATCTTAAACTCACTCAAAAGATAACCTTA
131 CGCCTATAATTACTAAATTAATATCTTAAACTCACTCAAAAGATAACCTTA
8295 TATCTAAATA
Statistics
Matches: 643, Mismatches: 4, Indels: 30
0.95 0.01 0.04
Matches are distributed among these distances:
473 13 0.02
474 36 0.06
477 10 0.02
478 26 0.04
479 10 0.02
480 121 0.19
481 51 0.08
482 134 0.21
483 59 0.09
484 25 0.04
485 117 0.18
486 41 0.06
ACGTcount: A:0.41, C:0.11, G:0.08, T:0.40
Consensus pattern (480 bp):
ATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAAATATGTA
ATATATGTTTATTGTTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGA
CGCCTATAATTACTAAATTAATATCTTAAACTCACTCAAAAGATAACCTTAAATTATGTTTTTCC
ACAGTGAAAAAAGTATGAACACTTTTAAAAGGATAGATACTTTACAATATAAGCACTACCTATTA
CATTATATAAACGATACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATT
ATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTAT
GTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAAGAATTTCATTT
ACACAAAAATTATTTGATTGTTTTG
Found at i:8332 original size:25 final size:25
Alignment explanation
Indices: 8298--8353 Score: 112
Period size: 25 Copynumber: 2.2 Consensus size: 25
8288 AACCTTATAT
8298 CTAAATATGTAGTTATTGTACATAC
1 CTAAATATGTAGTTATTGTACATAC
8323 CTAAATATGTAGTTATTGTACATAC
1 CTAAATATGTAGTTATTGTACATAC
8348 CTAAAT
1 CTAAAT
8354 TTAATGATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.38, C:0.12, G:0.11, T:0.39
Consensus pattern (25 bp):
CTAAATATGTAGTTATTGTACATAC
Found at i:9058 original size:183 final size:183
Alignment explanation
Indices: 8750--9634 Score: 1662
Period size: 183 Copynumber: 4.8 Consensus size: 183
8740 TATCGACACA
8750 TTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAATGTC
1 TTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAATGTC
8815 GACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAATA
66 GACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAATA
8880 TTAGAAAGTGTCGATACAGGTTGTAGACCTATTCGCTCATAAAACCGGTATAT
131 TTAGAAAGTGTCGATACAGGTTGTAGACCTATTCGCTCATAAAACCGGTATAT
*
8933 TTATACCGATTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAATGTC
1 TTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAATGTC
8998 GACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAATA
66 GACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAATA
* *
9063 TTAGAAAGTGTCGATACAGGTTGTAGACCTATTCGCTCATAAAATCGTTATAT
131 TTAGAAAGTGTCGATACAGGTTGTAGACCTATTCGCTCATAAAACCGGTATAT
*
9116 TTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAATTGTC
1 TTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAATGTC
** *
9181 GACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTAAACATAAAGTACAGACACAATA
66 GACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAATA
9246 TTAGAAAGTGTCGATACAGGTTGTAGACCTATTCGCTCATAAAACCGGTATAT
131 TTAGAAAGTGTCGATACAGGTTGTAGACCTATTCGCTCATAAAACCGGTATAT
*
9299 TTATACCGGTTATATTACAAAATTATCTATTACATTATAAATATGGGTTCCGATGTGTAAATGTC
1 TTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAATGTC
*
9364 GACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGAACATAAAGTACCGACACAATA
66 GACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAATA
*
9429 TTAGAAAGTGTCGATACAGGTTGTAGACCTATTCGCTCATAAAACCGATATAT
131 TTAGAAAGTGTCGATACAGGTTGTAGACCTATTCGCTCATAAAACCGGTATAT
*
9482 TTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCAATGTGTAAATGTC
1 TTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAATGTC
9547 GACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAATA
66 GACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAATA
*
9612 TTAGAAAGTGTCGATATAGGTTG
131 TTAGAAAGTGTCGATACAGGTTG
9635 AAAACTTTGT
Statistics
Matches: 683, Mismatches: 19, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
183 683 1.00
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.35
Consensus pattern (183 bp):
TTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAATGTC
GACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAATA
TTAGAAAGTGTCGATACAGGTTGTAGACCTATTCGCTCATAAAACCGGTATAT
Found at i:10846 original size:3 final size:3
Alignment explanation
Indices: 10838--10888 Score: 66
Period size: 3 Copynumber: 17.0 Consensus size: 3
10828 ACTTGTTTGG
* * * *
10838 ATC ATC ATC ATC ATC ATC ATC ATC GTC ATC ATT TTC ATC GTC ATC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
10886 ATC
1 ATC
10889 GTCAGCTTCA
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.27, C:0.31, G:0.04, T:0.37
Consensus pattern (3 bp):
ATC
Found at i:12716 original size:200 final size:199
Alignment explanation
Indices: 12369--13729 Score: 2362
Period size: 200 Copynumber: 6.9 Consensus size: 199
12359 TTTAAATTAG
* * * * *
12369 TATCGACA-AAACATTAAACAGTGTCGATACA-TATTATATACCA-ATTCTCTCATAAAATCGGT
1 TATCGACACAAAC-TAAAAAAGTGTCGACACATTATT-TAGA-CATATTCTCTCATAAAACCGGT
*
12431 ATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTGTACTTTTGGTTTTCGATGTTTTTG
63 ATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTG
*
12496 GGATCGACACTTTCTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGG
128 GGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGG
12561 ACCAAAAA
193 ACC-AAAA
*
12569 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTTATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
12634 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
12699 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGG---
131 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC
12761 ---A
196 AAAA
* *
12762 TATCGACACAAAC-ATAAAAAGTGTTGACACATTATTTAGACATATTCTCTCATAAAATCGGTAT
1 TATCGACACAAACTA-AAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAT
*
12826 ACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTTGATGTTTTTGGG
65 ACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGG
*
12891 GTCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAC
130 ATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAC
12956 CAAAAA
195 C-AAAA
*
12962 TATCGACACAAACTAAAAAAGTGTCGACATATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
13027 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTTGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
13092 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGG---
131 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC
13154 ---A
196 AAAA
*
13155 TATCGACACAAAC-ATAAAAAGTGTCGACACATTATTTCGACATATTCTCTCATAAAACCGGTAT
1 TATCGACACAAACTA-AAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAT
13219 ACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATG-TTTTGGG
65 ACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGG
*
13283 ATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTATTTTCCATTCATTCTGGAC
130 ATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAC
13348 CAAAA
195 CAAAA
13353 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
13418 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATATTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
*
13483 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTATTTTCCATTCATTCTGGACC
131 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC
13548 AAAAA
196 -AAAA
13553 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
13618 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
13683 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTT
131 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTT
13730 GGCCATATTG
Statistics
Matches: 1114, Mismatches: 25, Indels: 44
0.94 0.02 0.04
Matches are distributed among these distances:
192 71 0.06
193 303 0.27
198 118 0.11
199 76 0.07
200 537 0.48
201 9 0.01
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.37
Consensus pattern (199 bp):
TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC
AAAA
Found at i:13094 original size:393 final size:393
Alignment explanation
Indices: 12369--13729 Score: 2428
Period size: 393 Copynumber: 3.5 Consensus size: 393
12359 TTTAAATTAG
* * * *
12369 TATCGACA-AAACATTAAACAGTGTCGATACA-TATTATATACCA-ATTCTCTCATAAAATCGGT
1 TATCGACACAAACA-TAAAAAGTGTCGACACATTATT-TAGA-CATATTCTCTCATAAAACCGGT
*
12431 ATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTGTACTTTTGGTTTTCGATGTTTTTG
63 ATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTG
*
12496 GGATCGACACTTTCTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGG
128 GGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGG
*
12561 ACCAAAAATATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTTATAAAA
193 ACCAAAAATATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAA
12626 CCGGTATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGT
258 CCGGTATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGT
12691 TTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCAT
323 TTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCAT
12756 TCTGGA
388 TCTGGA
* *
12762 TATCGACACAAACATAAAAAGTGTTGACACATTATTTAGACATATTCTCTCATAAAATCGGTATA
1 TATCGACACAAACATAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
* *
12827 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTTGATGTTTTTGGGG
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
12892 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC
131 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC
*
12957 AAAAATATCGACACAAACTAAAAAAGTGTCGACATATTATTTAGACATATTCTCTCATAAAACCG
196 AAAAATATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCG
*
13022 GTATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTTGATGTTTT
261 GTATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTT
13087 TGGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCT
326 TGGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCT
13152 GGA
391 GGA
*
13155 TATCGACACAAACATAAAAAGTGTCGACACATTATTTCGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACATAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
13220 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATG-TTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
*
13284 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTATTTTCCATTCATTCTGGACC
131 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC
13349 -AAAATATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCG
196 AAAAATATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCG
*
13413 GTATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATATTTT
261 GTATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTT
*
13478 TGGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTATTTTCCATTCATTCT
326 TGGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCT
13543 GGACCAAAAA
391 GG-------A
13553 TATCGACACAAAC-TAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAT
1 TATCGACACAAACAT-AAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAT
13617 ACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGG
65 ACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGG
13682 ATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTT
130 ATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTT
13730 GGCCATATTG
Statistics
Matches: 933, Mismatches: 23, Indels: 18
0.96 0.02 0.02
Matches are distributed among these distances:
391 192 0.21
392 73 0.08
393 485 0.52
394 9 0.01
397 1 0.00
398 119 0.13
399 54 0.06
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.37
Consensus pattern (393 bp):
TATCGACACAAACATAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC
AAAAATATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCG
GTATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTT
TGGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCT
GGA
Found at i:13521 original size:591 final size:587
Alignment explanation
Indices: 12369--13729 Score: 2358
Period size: 591 Copynumber: 2.3 Consensus size: 587
12359 TTTAAATTAG
* * * * *
12369 TATCGACA-AAACATTAAACAGTGTCGATACATATTATATA-CCA-ATTCTCTCATAAAATCGGT
1 TATCGACACAAAC-TAAAAAAGTGTCG--ACATATTATTTAGACATATTCTCTCATAAAACCGGT
*
12431 ATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTGTACTTTTGGTTTTCGATGTTTTTG
63 ATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTG
*
12496 GGATCGACACTTTCTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGG
128 GGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGG
*
12561 ACCAAAAATATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTTATAAAA
193 ------AATATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAA
12626 CCGGTATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGT
252 CCGGTATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGT
*
12691 TTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCAT
317 TTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTATTTTCCATTCAT
* *
12756 TCTGGATATCGACACAAACATAAAAAGTGTTGACACATTATTTAGACATATTCTCTCATAAAATC
382 TCTGGATATCGACACAAACATAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACC
* *
12821 GGTATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTTGATGTTT
447 GGTATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATATTT
* *
12886 TTGGGGTCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTC
512 TTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTATTTTCCATTCATTC
12951 TGGACCAAAAA
577 TGGACCAAAAA
12962 TATCGACACAAACTAAAAAAGTGTCGACATATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACATATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
13027 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTTGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
13092 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGG-AT
131 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAAT
*
13156 ATCGACACAAAC-ATAAAAAGTGTCGACACATTATTTCGACATATTCTCTCATAAAACCGGTATA
196 ATCGACACAAACTA-AAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
13220 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATG-TTTTGGGA
260 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
13284 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTATTTTCCATTCATTCTGGACC
325 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTATTTTCCATTCATTCTGG---
13349 AAAATATCGACACAAAC-TAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCG
387 ---ATATCGACACAAACAT-AAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCG
13413 GTATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATATTTT
448 GTATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATATTTT
13478 TGGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTATTTTCCATTCATTCT
513 TGGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTATTTTCCATTCATTCT
13543 GGACCAAAAA
578 GGACCAAAAA
*
13553 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACATATTATTTAGACATATTCTCTCATAAAACCGGTATA
13618 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
13683 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTT
131 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTT
13730 GGCCATATTG
Statistics
Matches: 738, Mismatches: 19, Indels: 24
0.94 0.02 0.03
Matches are distributed among these distances:
585 70 0.09
586 118 0.16
590 1 0.00
591 379 0.51
592 2 0.00
593 164 0.22
594 4 0.01
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.37
Consensus pattern (587 bp):
TATCGACACAAACTAAAAAAGTGTCGACATATTATTTAGACATATTCTCTCATAAAACCGGTATA
CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAAT
ATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAC
TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGAT
CGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTATTTTCCATTCATTCTGGATAT
CGACACAAACATAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATACTT
GTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATATTTTTGGGATCG
ACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTATTTTCCATTCATTCTGGACCAAA
AA
Found at i:13859 original size:18 final size:18
Alignment explanation
Indices: 13836--13896 Score: 59
Period size: 19 Copynumber: 3.3 Consensus size: 18
13826 TATCATTCAT
*
13836 AATTATATTCACATACAA
1 AATTATAATCACATACAA
**
13854 AATTATAAATCGTATACAA
1 AATTAT-AATCACATACAA
**
13873 AATTATAAATCTTATACAA
1 AATTAT-AATCACATACAA
13892 AATTA
1 AATTA
13897 ACCCTACATT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
18 6 0.16
19 32 0.84
ACGTcount: A:0.52, C:0.11, G:0.02, T:0.34
Consensus pattern (18 bp):
AATTATAATCACATACAA
Found at i:13872 original size:19 final size:19
Alignment explanation
Indices: 13848--13896 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
13838 TTATATTCAC
13848 ATACAAAATTATAAATCGT
1 ATACAAAATTATAAATCGT
*
13867 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
13886 ATACAAAATTA
1 ATACAAAATTA
13897 ACCCTACATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.55, C:0.10, G:0.02, T:0.33
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:15724 original size:33 final size:33
Alignment explanation
Indices: 15687--15752 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
15677 CATCTTAATA
*
15687 TCACCCCTTAACACCCCAACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
* *
15720 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
15753 CCATCTATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.23, C:0.48, G:0.00, T:0.29
Consensus pattern (33 bp):
TCACCCCTCAACACCCCAACTTCTTTCACCACT
Found at i:15811 original size:21 final size:21
Alignment explanation
Indices: 15786--15850 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
15776 CCCCTTATTC
* *
15786 CTCTCAAGTGTATCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
15807 CTCTCAAGTTTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
*
15828 CTATCAAGTTTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
15849 CT
1 CT
15851 TGATTGTCTT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.17, C:0.31, G:0.11, T:0.42
Consensus pattern (21 bp):
CTCTCAAGTTTCTCTTCGACT
Found at i:17901 original size:24 final size:24
Alignment explanation
Indices: 17864--17916 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
17854 CCGTTCTATC
17864 TATTTTCAGAGGATAT-TTAGCTTA
1 TATTTTCAGAGGATATGTTA-CTTA
** *
17888 TATTTTCATCGGATATGTTATTTA
1 TATTTTCAGAGGATATGTTACTTA
17912 TATTT
1 TATTT
17917 AATCGATACA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 22 0.88
25 3 0.12
ACGTcount: A:0.26, C:0.08, G:0.13, T:0.53
Consensus pattern (24 bp):
TATTTTCAGAGGATATGTTACTTA
Found at i:18107 original size:20 final size:19
Alignment explanation
Indices: 18061--18119 Score: 64
Period size: 20 Copynumber: 3.0 Consensus size: 19
18051 TCCGGTATTA
*
18061 TTTTACCGGTTTTATCATT
1 TTTTACCTGTTTTATCATT
*
18080 TTGATACCTGTTTTATCATAT
1 TT-TTACCTGTTTTATCAT-T
* *
18101 TTTTACCTATTATATCATT
1 TTTTACCTGTTTTATCATT
18120 GTGGATCGAT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
19 3 0.09
20 27 0.82
21 3 0.09
ACGTcount: A:0.22, C:0.15, G:0.07, T:0.56
Consensus pattern (19 bp):
TTTTACCTGTTTTATCATT
Found at i:18287 original size:20 final size:19
Alignment explanation
Indices: 18242--18287 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 19
18232 TCCGGTAACG
18242 TTTTACCGGTTTTATCATT
1 TTTTACCGGTTTTATCATT
18261 TTCTTACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCAT-T
18282 TTTTAC
1 TTTTAC
18288 TTGGTATATC
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 2 0.08
20 20 0.80
21 3 0.12
ACGTcount: A:0.17, C:0.17, G:0.09, T:0.57
Consensus pattern (19 bp):
TTTTACCGGTTTTATCATT
Found at i:18331 original size:181 final size:182
Alignment explanation
Indices: 18027--18500 Score: 675
Period size: 181 Copynumber: 2.6 Consensus size: 182
18017 ACGTACTTAC
* * * *
18027 TAAAGTATCGACACTTTCAATATATCCGGTATTATTTTACCGGTTTTATCATTTTGATACCTGTT
1 TAAAGTATCGACACTTTCAATATATCCGGTAATGTTTTACCGGTTTTATCATTTTCATACCGGTT
* * * * *
18092 TTATCATATTTTTACCTATTATATCATTGTGGATCGATATATTTTTTTAAAGTATCGACACATTA
66 TTATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACATTA
18157 TAGG-CGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATA-
131 TAGGAC-CTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATAT
* *
18208 TAAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTCTTACCGGTT
1 TAAAGTATCGACACTTTCAATATATCCGGTAATGTTTTACCGGTTTTATCATTTTCATACCGGTT
* * *
18273 TTATCATATTTTTACTTGGTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACTTTA
66 TTATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACATTA
* *
18338 TAGGACTTAAAACTGCTTCTCTTTTAAATTCACGAAGTGTCGATCCTTATAT
131 TAGGACCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATAT
* * * * * * *
18390 TAAAGTACCGACACTTTAAATGTATCCGGTAGTGCTTTACCGGTTTTATTA-TTTCAATACTGGT
1 TAAAGTATCGACACTTTCAATATATCCGGTAATGTTTTACCGGTTTTATCATTTTC-ATACCGGT
* * *
18454 TTTGTCATAGTTTTACCTGTTATATCGTTTTGGATCGACACATTTTT
65 TTTATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTT
18501 AATTTGGATC
Statistics
Matches: 260, Mismatches: 30, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
181 167 0.64
182 93 0.36
ACGTcount: A:0.27, C:0.17, G:0.13, T:0.43
Consensus pattern (182 bp):
TAAAGTATCGACACTTTCAATATATCCGGTAATGTTTTACCGGTTTTATCATTTTCATACCGGTT
TTATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACATTA
TAGGACCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATAT
Found at i:19045 original size:19 final size:21
Alignment explanation
Indices: 19021--19062 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
19011 CAGGTTGCAC
*
19021 AAAAAT-A-TTATACAGGGTA
1 AAAAATGAGTTATACACGGTA
19040 AAAAATGAGTTATACACGGTA
1 AAAAATGAGTTATACACGGTA
19061 AA
1 AA
19063 TGTAATAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 6 0.30
20 1 0.05
21 13 0.65
ACGTcount: A:0.52, C:0.07, G:0.17, T:0.24
Consensus pattern (21 bp):
AAAAATGAGTTATACACGGTA
Found at i:19610 original size:263 final size:264
Alignment explanation
Indices: 19088--19634 Score: 765
Period size: 263 Copynumber: 2.1 Consensus size: 264
19078 TAACATTATA
* * * * *
19088 GGTTGGGCTTAAAATGTTATCATAATTTAAGTTGATGGACCCTTAGATTTTCCCACGATAAGAAT
1 GGTTGAGCCTAAAATGTTATAAGAATTTAAGTTGATGGACCCTTAGATTTTCCCAAGATAAGAAT
* ** *
19153 TTAAGTTAAAAACCGAAAATGTTATGAATATATATAAGAAAAACGGTTGTGCCCAATAATGTCAT
66 TTAAATTAAAAACCGAAAATGTTATGAATATATATAAGAAAAACAATTGT-CCCAATAATATCAT
* *
19218 GGTTCACTAAAAAATATGATTGAGCTCTATAATGTTACTACTTTTATTAATAAAACAGGTTGCCA
130 GGTTCACTAAAAAATATGATTGAGATCTATAATGTTAATACTTTTATTAATAAAACAGGTTGCCA
* *
19283 CCAAGAATGTCATGGTTAACTAATAAAGTTGGTTGCAATCTTAAATGTTAATATTTTCCATAACA
195 CCAAGAATGTCACGGTTAACTAATAAAGTAGGTTGCAATCTTAAATGTTAATATTTTCCATAACA
19348 AAATG
260 AAATG
* * * *
19353 GGTTGCGCCTAAAATGTTATAAGAGTTTAAGTTGATGGAGCCTTAGATTTTCTCAAGATAAGAAT
1 GGTTGAGCCTAAAATGTTATAAGAATTTAAGTTGATGGACCCTTAGATTTTCCCAAGATAAGAAT
* * *
19418 TTAAATTAAAAGCTGAAAATGTTATGAATATATATAGGAAAAACAATTG-CTCCAATAATATCAT
66 TTAAATTAAAAACCGAAAATGTTATGAATATATATAAGAAAAACAATTGTC-CCAATAATATCAT
* * * * * * * *
19482 GGTTTACTAAGAAATA-GGTTGTGATCTGTAGTGTTAATATTTTTATTAATAAAATAGGTTGCCA
130 GGTTCACTAAAAAATATGATTGAGATCTATAATGTTAATACTTTTATTAATAAAACAGGTTGCCA
* * * *
19546 CCAAGAATGTCACGGTTTACTAATAAAGTAGGTTTCAATCTTGAATGTTAATATTTTTCATAACA
195 CCAAGAATGTCACGGTTAACTAATAAAGTAGGTTGCAATCTTAAATGTTAATATTTTCCATAACA
19611 AAATG
260 AAATG
*
19616 GGTTGATCCTAAAATGTTA
1 GGTTGAGCCTAAAATGTTA
19635 ACAAAGTTTA
Statistics
Matches: 248, Mismatches: 33, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
263 122 0.49
264 26 0.10
265 100 0.40
ACGTcount: A:0.37, C:0.11, G:0.17, T:0.35
Consensus pattern (264 bp):
GGTTGAGCCTAAAATGTTATAAGAATTTAAGTTGATGGACCCTTAGATTTTCCCAAGATAAGAAT
TTAAATTAAAAACCGAAAATGTTATGAATATATATAAGAAAAACAATTGTCCCAATAATATCATG
GTTCACTAAAAAATATGATTGAGATCTATAATGTTAATACTTTTATTAATAAAACAGGTTGCCAC
CAAGAATGTCACGGTTAACTAATAAAGTAGGTTGCAATCTTAAATGTTAATATTTTCCATAACAA
AATG
Found at i:19924 original size:75 final size:75
Alignment explanation
Indices: 19845--20104 Score: 219
Period size: 75 Copynumber: 3.5 Consensus size: 75
19835 CCTTCAAAAG
* * *
19845 TTAAAATATCAATATTTATACAATAATGTTTGATACTTTTTAAAATTTTGGTAAAGTTGATAAGA
1 TTAAAATATCAATACTTATACAATAATGATTGATACTTTTTAAAATTTTGGTAAAGTTGATAAAA
19910 AGATTGAAAT
66 AGATTGAAAT
* * * * *** * ** *
19920 TTAAAATATCGATACTTATACGACAATGATTGATAC---TGAGTCTATTGAAAAAGTTGATGAAT
1 TTAAAATATCAATACTTATACAATAATGATTGATACTTTTTAAAATTTTGGTAAAGTTGAT-AAA
* ** *
19982 ATGATTGTTAG
65 AAGATTGAAAT
* * *
19993 TTAAAATATCGATATA-TATGTTCAA-AA-G-TTCGATACTTTTTTAAATTTTGGTAAAGTTGAT
1 TTAAAATATC-A-ATACT-TATACAATAATGATT-GATACTTTTTAAAATTTTGGTAAAGTTGAT
20054 AAAAAGATTGAAAT
62 AAAAAGATTGAAAT
* *
20068 TTAAAATATCGATACTTATACAATGATGATTGATACT
1 TTAAAATATCAATACTTATACAATAATGATTGATACT
20105 AAGGCTATTG
Statistics
Matches: 135, Mismatches: 38, Indels: 24
0.69 0.19 0.12
Matches are distributed among these distances:
72 17 0.13
73 33 0.24
74 5 0.04
75 64 0.47
76 16 0.12
ACGTcount: A:0.41, C:0.07, G:0.14, T:0.39
Consensus pattern (75 bp):
TTAAAATATCAATACTTATACAATAATGATTGATACTTTTTAAAATTTTGGTAAAGTTGATAAAA
AGATTGAAAT
Found at i:20039 original size:148 final size:148
Alignment explanation
Indices: 19876--20180 Score: 457
Period size: 148 Copynumber: 2.1 Consensus size: 148
19866 AATAATGTTT
*
19876 GATACTTTTTAAAATTTTGGTAAAGTTGATAAGAAGATTGAAATTTAAAATATCGATACTTATAC
1 GATACTTTTTAAAATTTTGGTAAAGTTGATAAAAAGATTGAAATTTAAAATATCGATACTTATAC
* * * ** *
19941 GACAATGATTGATACTGAGTCTATTGAAAAAGTTGATGAATATGATTGTTAGTTAAAATATCGAT
66 AACAATGATTGATACTAAGGCTATTGAAAAAGTTGATGAATATGAGAGATAGTTAAAATATCGAT
*
20006 ATATATGTTCAAAAGTTC
131 ACATATGTTCAAAAGTTC
*
20024 GATACTTTTTTAAATTTTGGTAAAGTTGATAAAAAGATTGAAATTTAAAATATCGATACTTATAC
1 GATACTTTTTAAAATTTTGGTAAAGTTGATAAAAAGATTGAAATTTAAAATATCGATACTTATAC
** * * *
20089 AATGATGATTGATACTAAGGCTATTGAACAAGTTGATGAATATGAGAGATGGTTAAAATATTGAT
66 AACAATGATTGATACTAAGGCTATTGAAAAAGTTGATGAATATGAGAGATAGTTAAAATATCGAT
* *
20154 ACATGTGTTCAAAGGTTC
131 ACATATGTTCAAAAGTTC
*
20172 AATACTTTT
1 GATACTTTT
20181 CTATTTATAT
Statistics
Matches: 140, Mismatches: 17, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
148 140 1.00
ACGTcount: A:0.39, C:0.07, G:0.17, T:0.37
Consensus pattern (148 bp):
GATACTTTTTAAAATTTTGGTAAAGTTGATAAAAAGATTGAAATTTAAAATATCGATACTTATAC
AACAATGATTGATACTAAGGCTATTGAAAAAGTTGATGAATATGAGAGATAGTTAAAATATCGAT
ACATATGTTCAAAAGTTC
Found at i:21148 original size:78 final size:78
Alignment explanation
Indices: 21015--21174 Score: 223
Period size: 78 Copynumber: 2.1 Consensus size: 78
21005 ATATAACCTT
*
21015 AACGGTTGACAATTTAAAAGGGTGCTACCTCTAATGTTATACCAATAAACATGTTTTATCTTATT
1 AACGGTTGACAATTTAAAAAGGTGCTACCTCTAATGTTATACCAATAAACATGTTTTATCTTATT
21080 TTGTCAAAATATA
66 TTGTCAAAATATA
* * * * * *
21093 AACGGTTGATAATTTAAAAATGTGGTACCTAC-AATGTTATACCATTAAACCTGTTTTGTCTTAT
1 AACGGTTGACAATTTAAAAAGGTGCTACCT-CTAATGTTATACCAATAAACATGTTTTATCTTAT
* *
21157 TTTTTCATAATATA
65 TTTGTCAAAATATA
21171 AACG
1 AACG
21175 ATTTCAAATG
Statistics
Matches: 72, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
78 71 0.99
79 1 0.01
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.39
Consensus pattern (78 bp):
AACGGTTGACAATTTAAAAAGGTGCTACCTCTAATGTTATACCAATAAACATGTTTTATCTTATT
TTGTCAAAATATA
Found at i:21292 original size:101 final size:101
Alignment explanation
Indices: 21098--21313 Score: 270
Period size: 101 Copynumber: 2.1 Consensus size: 101
21088 ATATAAACGG
* * * * * *
21098 TTGATAATTTAAAAATGTGGTACCTACAATGTTATACCATTAAACCTGTTTTGTCTTATTTTTTC
1 TTGATAATTTAAAAAGGCGCTACCTACAATGTTATACCAATAAACCTCTTTTGTCTTATTTTGTC
* **
21163 ATAATATAAACGATTTCAAATGTATAACATAAACAA
66 ATAACATAAACGATTTCAAACATATAACATAAACAA
* *
21199 TTGATAATTTAAAAAGGCGCTACCTATAATGTTATACCAATAAACTTCTTTTGTCTTATTTTGTC
1 TTGATAATTTAAAAAGGCGCTACCTACAATGTTATACCAATAAACCTCTTTTGTCTTATTTTGTC
* * * * *
21264 ATAACATAAATGGTTTGAAACATTTAACATAAACGA
66 ATAACATAAACGATTTCAAACATATAACATAAACAA
*
21300 TTGACAATGTTAAA
1 TTGATAAT-TTAAA
21314 CCTATAATCC
Statistics
Matches: 97, Mismatches: 17, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
101 92 0.95
102 5 0.05
ACGTcount: A:0.38, C:0.13, G:0.10, T:0.38
Consensus pattern (101 bp):
TTGATAATTTAAAAAGGCGCTACCTACAATGTTATACCAATAAACCTCTTTTGTCTTATTTTGTC
ATAACATAAACGATTTCAAACATATAACATAAACAA
Found at i:23646 original size:3 final size:3
Alignment explanation
Indices: 23638--23666 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
23628 TTTCGTCCTA
23638 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
23667 AATAATAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:32457 original size:64 final size:63
Alignment explanation
Indices: 32389--32569 Score: 227
Period size: 64 Copynumber: 2.8 Consensus size: 63
32379 TTGGAACACT
* ***
32389 TGATGCATCGGTGCACCAAGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAAATAGCC
1 TGATGCATCGATGCATGGAGTGTGCATCGATGCATGAAATGCATTCGATGTTTG-AAAATAGCC
* * **
32453 TGATGCATCGATGCATGGATTGTGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTC
1 TGATGCATCGATGCATGGAGTGTGCATCGATGCATGAAATGCATTCGATG-TTTGAAAATAGCC
* * * *
32517 AGAGTGCATCGATGCATGGAGAGTGCATCGGTGCATGGAATGCATTCGATGTT
1 TGA-TGCATCGATGCATGGAGTGTGCATCGATGCATGAAATGCATTCGATGTT
32570 CAATTAATTC
Statistics
Matches: 101, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
64 55 0.54
65 46 0.46
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.29
Consensus pattern (63 bp):
TGATGCATCGATGCATGGAGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAATAGCC
Found at i:32541 original size:19 final size:19
Alignment explanation
Indices: 32517--32567 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
32507 GAAAATATTC
32517 AGAGTGCATCGATGCATGG
1 AGAGTGCATCGATGCATGG
*
32536 AGAGTGCATCGGTGCATGG
1 AGAGTGCATCGATGCATGG
32555 A-A-TGCATTCGATG
1 AGAGTGCA-TCGATG
32568 TTCAATTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 4 0.14
18 6 0.21
19 19 0.66
ACGTcount: A:0.25, C:0.16, G:0.35, T:0.24
Consensus pattern (19 bp):
AGAGTGCATCGATGCATGG
Found at i:32543 original size:65 final size:65
Alignment explanation
Indices: 32410--32569 Score: 225
Period size: 65 Copynumber: 2.5 Consensus size: 65
32400 TGCACCAAGT
* **
32410 GTGCATCGATGCATGAAATGCATTCGATG-TTTGAAAAATAGCCTGATGCATCGATGCATGGATT
1 GTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAAATAGCCAGATGCATCGATGCATGGAGA
* **
32474 GTGCATCGATGCATCAAATGCATTCGATGTTTTG-AAAATATTCAGAGTGCATCGATGCATGGAG
1 GTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAAATAGCCAGA-TGCATCGATGCATGGAG
32538 A
65 A
* *
32539 GTGCATCGGTGCATGGAATGCATTCGATGTT
1 GTGCATCGATGCATGAAATGCATTCGATGTT
32570 CAATTAATTC
Statistics
Matches: 85, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
64 37 0.44
65 48 0.56
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (65 bp):
GTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAAATAGCCAGATGCATCGATGCATGGAGA
Found at i:37916 original size:22 final size:21
Alignment explanation
Indices: 37874--37913 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
37864 GAGTTTGTTT
*
37874 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
37895 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
37914 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:39908 original size:64 final size:65
Alignment explanation
Indices: 39840--40020 Score: 168
Period size: 64 Copynumber: 2.8 Consensus size: 65
39830 TTGGAACACT
* * *
39840 TGATGCATCGGTGCACCAAGTGTGCATCGATGCATGAAATGCATTATATG-TTTGAAAAATAGCC
1 TGATGCATCGATGCACCAAGTGTGCATCGATGCATCAAATGCATTAGATGTTTTGAAAAATAGCC
*** * * **
39904 TGATGCATCGATGCATGGATTGTGCATCGATGCATCAAATGCATTCGATGTTTTG-AAAATATTC
1 TGATGCATCGATGCACCAAGTGTGCATCGATGCATCAAATGCATTAGATGTTTTGAAAAATAGCC
* *** * * ** *
39968 AGAGTGCATCGATGCATGGAGAGTGCATCGGTGCATGGAATGCATTCGATGTT
1 TGA-TGCATCGATGCACCAAGTGTGCATCGATGCATCAAATGCATTAGATGTT
40021 CAATTAATTC
Statistics
Matches: 99, Mismatches: 16, Indels: 3
0.84 0.14 0.03
Matches are distributed among these distances:
64 51 0.52
65 48 0.48
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (65 bp):
TGATGCATCGATGCACCAAGTGTGCATCGATGCATCAAATGCATTAGATGTTTTGAAAAATAGCC
Found at i:39992 original size:19 final size:19
Alignment explanation
Indices: 39968--40018 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
39958 GAAAATATTC
39968 AGAGTGCATCGATGCATGG
1 AGAGTGCATCGATGCATGG
*
39987 AGAGTGCATCGGTGCATGG
1 AGAGTGCATCGATGCATGG
40006 A-A-TGCATTCGATG
1 AGAGTGCA-TCGATG
40019 TTCAATTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 4 0.14
18 6 0.21
19 19 0.66
ACGTcount: A:0.25, C:0.16, G:0.35, T:0.24
Consensus pattern (19 bp):
AGAGTGCATCGATGCATGG
Found at i:39994 original size:65 final size:65
Alignment explanation
Indices: 39861--40020 Score: 207
Period size: 65 Copynumber: 2.5 Consensus size: 65
39851 TGCACCAAGT
** * **
39861 GTGCATCGATGCATGAAATGCATTATATG-TTTGAAAAATAGCCTGATGCATCGATGCATGGATT
1 GTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAAATAGCCAGATGCATCGATGCATGGAGA
* **
39925 GTGCATCGATGCATCAAATGCATTCGATGTTTTG-AAAATATTCAGAGTGCATCGATGCATGGAG
1 GTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAAATAGCCAGA-TGCATCGATGCATGGAG
39989 A
65 A
* *
39990 GTGCATCGGTGCATGGAATGCATTCGATGTT
1 GTGCATCGATGCATGAAATGCATTCGATGTT
40021 CAATTAATTC
Statistics
Matches: 83, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
64 35 0.42
65 48 0.58
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.31
Consensus pattern (65 bp):
GTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAAATAGCCAGATGCATCGATGCATGGAGA
Found at i:40060 original size:65 final size:63
Alignment explanation
Indices: 39862--40069 Score: 190
Period size: 65 Copynumber: 3.2 Consensus size: 63
39852 GCACCAAGTG
* ** * ** *
39862 TGCATCGATGCATGAAATGCATTATATGTTTGAAAAATAGCCTGATGCATCGATGCATGGATTG-
1 TGCATCGGTGCATGAAATGCATTCGATGTTT-CAAAATATTCAGATGCATCGATGCATGGA-TGA
* * *
39926 TGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTCAGAGTGCATCGATGCATGGA-GA
1 TGCATCGGTGCATGAAATGCATTCGATG-TTTCAAAATATTCAGA-TGCATCGATGCATGGATGA
* * *
39990 GTGCATCGGTGCATGGAATGCATTCGATG-TTC-AATTAATTCATCGATGCATCGATGCATGTAC
1 -TGCATCGGTGCATGAAATGCATTCGATGTTTCAAAAT-ATTCA--GATGCATCGATGCATGGA-
40053 TGA
61 TGA
40056 TGCATCGGTGCATG
1 TGCATCGGTGCATG
40070 CCTTTGAATA
Statistics
Matches: 122, Mismatches: 13, Indels: 17
0.80 0.09 0.11
Matches are distributed among these distances:
62 3 0.02
63 8 0.07
64 49 0.40
65 60 0.49
66 2 0.02
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.31
Consensus pattern (63 bp):
TGCATCGGTGCATGAAATGCATTCGATGTTTCAAAATATTCAGATGCATCGATGCATGGATGA
Found at i:40705 original size:20 final size:20
Alignment explanation
Indices: 40680--40728 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
40670 AGCAAGATGA
40680 TAAGTCCTTCAGGCCATCTT
1 TAAGTCCTTCAGGCCATCTT
*
40700 TAAGTCCTTCGGGCCATCTT
1 TAAGTCCTTCAGGCCATCTT
*
40720 TAAGACCTT
1 TAAGTCCTT
40729 TGGATAAGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.20, C:0.29, G:0.16, T:0.35
Consensus pattern (20 bp):
TAAGTCCTTCAGGCCATCTT
Found at i:40864 original size:271 final size:271
Alignment explanation
Indices: 40429--40983 Score: 846
Period size: 271 Copynumber: 2.0 Consensus size: 271
40419 AACAAGATGA
* *
40429 TAAGTCCTTCAGGCCATCTGTAAGACCTTCGAGTAGGATGTTTTCACATGAAAATGAGAAAGCGA
1 TAAGTCCTTCGGGCCATCTGTAAGACCTTCGAGTAAGATGTTTTCACATGAAAATGAGAAAGCGA
* *
40494 TTACCAAAGTTTCACATTTAATGTTTTCAGGAATATGAAATTCTTGAAAAGTAAGAAAGCAATTA
66 TTACCAAAGTTTCACATTTAATGTTTTCAGAAAAATGAAATTCTTGAAAAGTAAGAAAGCAATTA
*
40559 CCAAAGTTTCTTACCTAGTAAATTATTTCCAAAATTTGTAAGTTCTTTGGGCCATCAGTAAGTCT
131 CCAAAGTTTCTTACCCAGTAAATTATTTCCAAAATTTGTAAGTTCTTTGGGCCATCAGTAAGTCT
* * *
40624 TTCAAGCATGAAGCTTAAATCCTTTGGGTCATCTAT-AAGTCTTTTGAGCAAGATGATAAGTCCT
196 TTCAAGCATGAAGATTAAATCCTTTGGGTCATCTATCAA-TCTTTCGAGCAAGATGATAAGTACT
**
40688 TCAGGCCATCTT
260 TCAGGCCATCCG
* *
40700 TAAGTCCTTCGGGCCATCTTTAAGACCTTTG-GATAAGATGTTTTCACATGAAAATGAGAAAGCG
1 TAAGTCCTTCGGGCCATCTGTAAGACCTTCGAG-TAAGATGTTTTCACATGAAAATGAGAAAGCG
* **
40764 ATTACCAAAGTTTCTCATTTAATGTTTTCA-AAAAATGAAATTCTTGAAAAGTAAGAAAGCGGTT
65 ATTACCAAAGTTTCACATTTAATGTTTTCAGAAAAATGAAATTCTTGAAAAGTAAGAAAGCAATT
*
40828 ACCAAAGTTTCTTACCCAGTAAATTATTTCCCAAAATTTGTAAGTTCTTTGGGCCATTAGTAAGT
130 ACCAAAGTTTCTTACCCAGTAAATTATTT-CCAAAATTTGTAAGTTCTTTGGGCCATCAGTAAGT
* * * * *
40893 CTTTCGAGCCTGATGATTAAATCCTTTGGGTCATTTGTCAATCTTTCGAGCAAGATGATAAGTAC
194 CTTTCAAGCATGAAGATTAAATCCTTTGGGTCATCTATCAATCTTTCGAGCAAGATGATAAGTAC
**
40958 TTTGGGCCATCCG
259 TTCAGGCCATCCG
*
40971 TAAGACCTTCGGG
1 TAAGTCCTTCGGG
40984 TAATATATTT
Statistics
Matches: 257, Mismatches: 24, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
270 59 0.23
271 196 0.76
272 2 0.01
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Consensus pattern (271 bp):
TAAGTCCTTCGGGCCATCTGTAAGACCTTCGAGTAAGATGTTTTCACATGAAAATGAGAAAGCGA
TTACCAAAGTTTCACATTTAATGTTTTCAGAAAAATGAAATTCTTGAAAAGTAAGAAAGCAATTA
CCAAAGTTTCTTACCCAGTAAATTATTTCCAAAATTTGTAAGTTCTTTGGGCCATCAGTAAGTCT
TTCAAGCATGAAGATTAAATCCTTTGGGTCATCTATCAATCTTTCGAGCAAGATGATAAGTACTT
CAGGCCATCCG
Found at i:40921 original size:42 final size:41
Alignment explanation
Indices: 40874--40967 Score: 109
Period size: 42 Copynumber: 2.3 Consensus size: 41
40864 TTTGTAAGTT
** *
40874 CTTTGGGCCATTAGT-AAGTCTTTCGAGCCTGATGATTAAATC
1 CTTTGGGCCATTAGTCAA-TCTTTCGAGCAAGATGA-TAAATA
* * *
40916 CTTTGGGTCATTTGTCAATCTTTCGAGCAAGATGATAAGTA
1 CTTTGGGCCATTAGTCAATCTTTCGAGCAAGATGATAAATA
40957 CTTTGGGCCAT
1 CTTTGGGCCAT
40968 CCGTAAGACC
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
41 14 0.32
42 28 0.64
43 2 0.05
ACGTcount: A:0.23, C:0.18, G:0.22, T:0.36
Consensus pattern (41 bp):
CTTTGGGCCATTAGTCAATCTTTCGAGCAAGATGATAAATA
Found at i:41081 original size:38 final size:40
Alignment explanation
Indices: 41000--41093 Score: 120
Period size: 38 Copynumber: 2.4 Consensus size: 40
40990 ATTTTTACTA
**
41000 TTTGTTATTATTGACTACCTCGTGAAGAGAGAAGTCAGTC
1 TTTGTTATTATTGACTACCTCGTGAAGAGAGAAGTCAACC
* * *
41040 TTTGTTATTATTGATTGCCTCTTG-A-AGAGAAGTCAACC
1 TTTGTTATTATTGACTACCTCGTGAAGAGAGAAGTCAACC
*
41078 TTTGTTATTTTTGACT
1 TTTGTTATTATTGACT
41094 CCCTAGTAGA
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
38 25 0.53
39 1 0.02
40 21 0.45
ACGTcount: A:0.24, C:0.14, G:0.19, T:0.43
Consensus pattern (40 bp):
TTTGTTATTATTGACTACCTCGTGAAGAGAGAAGTCAACC
Found at i:41297 original size:89 final size:88
Alignment explanation
Indices: 41146--41448 Score: 390
Period size: 89 Copynumber: 3.4 Consensus size: 88
41136 AATATTGCAA
* * * * * *
41146 ATTTGATCTTCCTGGAAAAGCAGCGAAACAAATCAAACTCGAGTATTATCTCTACGGAAGAATAG
1 ATTTGGTCTTCCTGGAAAAGTAGCGAATCAAATCAACCTCGAGTCTGATCT-TACGGAAGAATAG
41211 TGAAACAAATTCTTCTCATCCCAG
65 TGAAACAAATTCTTCTCATCCCAG
* * * * * *
41235 ATTTGGTCTTACTAGAAATGTAACGAATCAAATCAACCTCGAGTCTGATCTTGATGGAAGAATAA
1 ATTTGGTCTTCCTGGAAAAGTAGCGAATCAAATCAACCTCGAGTCTGATCTT-ACGGAAGAATAG
* * *
41300 TGAAATATATTCTTCTCATCCCAT
65 TGAAACAAATTCTTCTCATCCCAG
* * *
41324 ATTTGGTCTTCCTGGAAAAGTAGCGAATCAAATCAACCTCGAGTCTGATCTCCACGGAGGAGTAG
1 ATTTGGTCTTCCTGGAAAAGTAGCGAATCAAATCAACCTCGAGTCTGATCT-TACGGAAGAATAG
* *
41389 TGGAACAGATTCTTCTCATCCCAG
65 TGAAACAAATTCTTCTCATCCCAG
*
41413 ATTTGGTCTTCCTGGAAAAGCAGCGAATCAAATCAA
1 ATTTGGTCTTCCTGGAAAAGTAGCGAATCAAATCAA
41449 TCCTAAGCCT
Statistics
Matches: 183, Mismatches: 29, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
88 1 0.01
89 182 0.99
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.28
Consensus pattern (88 bp):
ATTTGGTCTTCCTGGAAAAGTAGCGAATCAAATCAACCTCGAGTCTGATCTTACGGAAGAATAGT
GAAACAAATTCTTCTCATCCCAG
Found at i:41497 original size:36 final size:37
Alignment explanation
Indices: 41441--41596 Score: 217
Period size: 36 Copynumber: 4.3 Consensus size: 37
41431 AGCAGCGAAT
** *
41441 CAAATCAATCCTAAGCCTTCATGGAAGAGTAGTGAAA
1 CAAATCAATCCTAAGCCTTCACAGAAGAGTAGTGAAG
* **
41478 CAAATCAA-CCTAAGACTTCATGGAAGAGTAGTGAAG
1 CAAATCAATCCTAAGCCTTCACAGAAGAGTAGTGAAG
*
41514 CAAATCAATCTTAAGCCTTCACAGAAGAGTAGTGAAG
1 CAAATCAATCCTAAGCCTTCACAGAAGAGTAGTGAAG
* *
41551 CAAATCAAT-CTCACCCTTCACAGAAGAGTAGTGAAG
1 CAAATCAATCCTAAGCCTTCACAGAAGAGTAGTGAAG
41587 CAAATCAATC
1 CAAATCAATC
41597 AAGTATGATA
Statistics
Matches: 108, Mismatches: 9, Indels: 4
0.89 0.07 0.03
Matches are distributed among these distances:
36 67 0.62
37 41 0.38
ACGTcount: A:0.41, C:0.21, G:0.18, T:0.21
Consensus pattern (37 bp):
CAAATCAATCCTAAGCCTTCACAGAAGAGTAGTGAAG
Found at i:41522 original size:73 final size:73
Alignment explanation
Indices: 41441--41596 Score: 222
Period size: 73 Copynumber: 2.1 Consensus size: 73
41431 AGCAGCGAAT
** * **
41441 CAAATCAATCCTAAGCCTTCATGGAAGAGTAGTGAAACAAATCAACCTAAGACTTCATGGAAGAG
1 CAAATCAATCCTAAGCCTTCACAGAAGAGTAGTGAAACAAATCAACCTAACACTTCACAGAAGAG
41506 TAGTGAAG
66 TAGTGAAG
* * * * *
41514 CAAATCAATCTTAAGCCTTCACAGAAGAGTAGTGAAGCAAATCAATCTCACCCTTCACAGAAGAG
1 CAAATCAATCCTAAGCCTTCACAGAAGAGTAGTGAAACAAATCAACCTAACACTTCACAGAAGAG
41579 TAGTGAAG
66 TAGTGAAG
41587 CAAATCAATC
1 CAAATCAATC
41597 AAGTATGATA
Statistics
Matches: 73, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
73 73 1.00
ACGTcount: A:0.41, C:0.21, G:0.18, T:0.21
Consensus pattern (73 bp):
CAAATCAATCCTAAGCCTTCACAGAAGAGTAGTGAAACAAATCAACCTAACACTTCACAGAAGAG
TAGTGAAG
Found at i:41856 original size:47 final size:47
Alignment explanation
Indices: 41797--41973 Score: 153
Period size: 47 Copynumber: 3.6 Consensus size: 47
41787 TGATCTCCCC
* *
41797 TGAATGAAGAGTGGAGCAGATTCGTCTTCCCTTGGATCTTATCTCCT
1 TGAAAGAAGAGTGGAGCAGATTCGTTTTCCCTTGGATCTTATCTCCT
*
41844 TGAAAGAAGAGTGGAGCAGATAT-GTTTTCCAAAGATTTCTT-GAGTCTTATGT-CT
1 TGAAAGAAGAGTGGAGCAGAT-TCGTTTTCC--------CTTGGA-TCTTATCTCCT
* * * * *
41898 CTAAAAGAAGAATGAAGCATATTCGTTTTCCCTTGGATCTTATCTCCC
1 -TGAAAGAAGAGTGGAGCAGATTCGTTTTCCCTTGGATCTTATCTCCT
*
41946 TGAAAGAATAGTGGAGCAGATTCGTTTT
1 TGAAAGAAGAGTGGAGCAGATTCGTTTT
41974 ACAAAGATTT
Statistics
Matches: 102, Mismatches: 14, Indels: 28
0.71 0.10 0.19
Matches are distributed among these distances:
47 59 0.58
48 4 0.04
54 5 0.05
55 34 0.33
ACGTcount: A:0.28, C:0.16, G:0.22, T:0.34
Consensus pattern (47 bp):
TGAAAGAAGAGTGGAGCAGATTCGTTTTCCCTTGGATCTTATCTCCT
Found at i:41871 original size:103 final size:100
Alignment explanation
Indices: 41683--42030 Score: 387
Period size: 102 Copynumber: 3.4 Consensus size: 100
41673 CAGATCAAGC
* * * **
41683 CTGATCTCCCCTGAATAAAGAGTGTAGCATATTCATCTTCCCTTTTATCTTATCTCACTGAAAGA
1 CTGATCT-CCCTGAAAAAAGAGTGGAGCAGATTCATCTTCCCTTGGATCTTATCTC-CTGAAAGA
*
41748 AGAGTGGAGCATG-TCCGTTTTCCAAAGATTTCTTAAGT
64 AGAGTGGAGCA-GAT-TGTTTTCCAAAGATTTCTTAAGT
** *
41786 CTGATCTCCCCTGAATGAAGAGTGGAGCAGATTCGTCTTCCCTTGGATCTTATCTCCTTGAAAGA
1 CTGATCT-CCCTGAAAAAAGAGTGGAGCAGATTCATCTTCCCTTGGATCTTATCTCC-TGAAAGA
*
41851 AGAGTGGAGCAGATATGTTTTCCAAAGATTTCTTGAGT
64 AGAGTGGAGCAGAT-TGTTTTCCAAAGATTTCTTAAGT
* * * * * * * *
41889 CTTATGTCTCT-AAAAGAAGAATGAAGCATATTCGTTTTCCCTTGGATCTTATCTCCCTGAAAGA
1 CTGATCTCCCTGAAAA-AAGAGTGGAGCAGATTCATCTTCCCTTGGATCTTATCT-CCTGAAAGA
* *
41953 ATAGTGGAGCAGATTCGTTTTACAAAGATTTC-TAGAGT
64 AGAGTGGAGCAGATT-GTTTTCCAAAGATTTCTTA-AGT
*
41991 CTTATCTCCCTGAAAAAAGAGTGGAGCAGATTCATCTTCC
1 CTGATCTCCCTGAAAAAAGAGTGGAGCAGATTCATCTTCC
42031 AAAATAGATC
Statistics
Matches: 210, Mismatches: 28, Indels: 15
0.83 0.11 0.06
Matches are distributed among these distances:
101 4 0.02
102 105 0.50
103 101 0.48
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (100 bp):
CTGATCTCCCTGAAAAAAGAGTGGAGCAGATTCATCTTCCCTTGGATCTTATCTCCTGAAAGAAG
AGTGGAGCAGATTGTTTTCCAAAGATTTCTTAAGT
Found at i:42199 original size:183 final size:184
Alignment explanation
Indices: 41931--42281 Score: 528
Period size: 183 Copynumber: 1.9 Consensus size: 184
41921 CGTTTTCCCT
* *
41931 TGGATCTTATCTCCCTGAAAGAATAGTGGAGCAGATTCGTTTTACAAAGATTTCTAGAGTCTTAT
1 TGGATCTTATCTCCCTGAAAGAAGAGTGGAGCAGATCCGTTTTACAAAGATTTCTAGAGTCTTAT
*
41996 CTCCCTGAAAAAAGAGTGGAGCAGAT-TCATCTTCCAAAATAGATCTGAATACCCAAAAAAGAGG
66 CTCCCTGAAAAAAGAGTGGAGCAG-TCCCATCTTCCAAAATAGATCTGAATACCCAAAAAAGAGG
* ** *
42060 CATAGATTGAGTCTTATAT-CCCTGAAAGAAGAGTGGAGAAGACACGTCTTTCCA
130 CACAGATCAAGTCTGATATCCCCTGAAAGAAGAGTGGAGAAGACACGTCTTTCCA
*
42114 TGGATCTTATCTCCCTGAAAGAAGAGTGGAGCAGATCCGTTTTACAAAGATTTCTCGAGTCTTAT
1 TGGATCTTATCTCCCTGAAAGAAGAGTGGAGCAGATCCGTTTTACAAAGATTTCTAGAGTCTTAT
* * * * *
42179 CTCCCT-AAAAGAATAGTGGAGCAGTCCCGTCTTCCAAAATTGATCTGACTACCCGAAAAAGAGG
66 CTCCCTGAAAA-AAGAGTGGAGCAGTCCCATCTTCCAAAATAGATCTGAATACCCAAAAAAGAGG
* *
42243 CACATATCAAGTCTGATCTCCCCTGAAAGAAGAGTGGAG
130 CACAGATCAAGTCTGATATCCCCTGAAAGAAGAGTGGAG
42282 CAGATTTCCC
Statistics
Matches: 150, Mismatches: 15, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
182 5 0.03
183 126 0.84
184 19 0.13
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.26
Consensus pattern (184 bp):
TGGATCTTATCTCCCTGAAAGAAGAGTGGAGCAGATCCGTTTTACAAAGATTTCTAGAGTCTTAT
CTCCCTGAAAAAAGAGTGGAGCAGTCCCATCTTCCAAAATAGATCTGAATACCCAAAAAAGAGGC
ACAGATCAAGTCTGATATCCCCTGAAAGAAGAGTGGAGAAGACACGTCTTTCCA
Found at i:42671 original size:17 final size:18
Alignment explanation
Indices: 42637--42671 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
42627 ATACAGATGA
42637 AACCCTAGGGTTTTATCAT
1 AACCCTAGGG-TTTATCAT
42656 AACCCTAGGG-TTATCA
1 AACCCTAGGGTTTATCA
42672 ACTCACCGCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
19 10 0.62
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (18 bp):
AACCCTAGGGTTTATCAT
Found at i:43508 original size:19 final size:17
Alignment explanation
Indices: 43484--43525 Score: 50
Period size: 16 Copynumber: 2.4 Consensus size: 17
43474 GATTTCTGTG
43484 TATTTTAATTTGGCTTTCA
1 TATTTTAATTTGG-TTT-A
*
43503 TATTTT-ATTTTGTTTA
1 TATTTTAATTTGGTTTA
43519 TATTTTA
1 TATTTTA
43526 GTCACTAACC
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 7 0.33
17 3 0.14
18 5 0.24
19 6 0.29
ACGTcount: A:0.21, C:0.05, G:0.07, T:0.67
Consensus pattern (17 bp):
TATTTTAATTTGGTTTA
Found at i:44177 original size:17 final size:16
Alignment explanation
Indices: 44148--44189 Score: 52
Period size: 15 Copynumber: 2.6 Consensus size: 16
44138 AACACATATC
44148 AATT-TTTTATCTTTTAA
1 AATTATTTTATC--TTAA
44165 AATTATTTT-TCTTAA
1 AATTATTTTATCTTAA
44180 AATTATTTTA
1 AATTATTTTA
44190 AAAAATGTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
15 13 0.57
17 6 0.26
18 4 0.17
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (16 bp):
AATTATTTTATCTTAA
Found at i:46087 original size:87 final size:88
Alignment explanation
Indices: 45940--46104 Score: 296
Period size: 87 Copynumber: 1.9 Consensus size: 88
45930 TAGGGGCAGG
* *
45940 GTTTCTTATTTTAAGTGTTCCTTTAATTTGTTTTGCAAGAATTAAGATGAAAAATTCTATACCTC
1 GTTTCTTATTTTAAGTGTTCCTTTAATTTGTTTAGCAAGAAATAAGATGAAAAATTCTATACCTC
46005 CATTAGAAATAAAACTGATATCT
66 CATTAGAAATAAAACTGATATCT
*
46028 GTTTCTTA-TTTAAGTGTTCCTTTAATTTGTTTAGCAAGAAATAAGATGAAAAATTCTATACCTT
1 GTTTCTTATTTTAAGTGTTCCTTTAATTTGTTTAGCAAGAAATAAGATGAAAAATTCTATACCTC
46092 CATTAGAAATAAA
66 CATTAGAAATAAA
46105 GCCTGCCTGC
Statistics
Matches: 74, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
87 66 0.89
88 8 0.11
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.41
Consensus pattern (88 bp):
GTTTCTTATTTTAAGTGTTCCTTTAATTTGTTTAGCAAGAAATAAGATGAAAAATTCTATACCTC
CATTAGAAATAAAACTGATATCT
Found at i:50879 original size:3 final size:3
Alignment explanation
Indices: 50871--50960 Score: 55
Period size: 3 Copynumber: 30.3 Consensus size: 3
50861 TTTGGGCCTG
* * * * *
50871 TAA TAA TAA TAA TAA T-A TGAA TAA CAA T-A TTA TTA TTA TTA TAA
1 TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA
*
50915 TTAA -AA TAA TTA TAA TAA TAA TGGAA TAA TAA -AA -AA TAA TAA TAA
1 -TAA TAA TAA TAA TAA TAA TAA T--AA TAA TAA TAA TAA TAA TAA TAA
50960 T
1 T
50961 GTATAAAATG
Statistics
Matches: 74, Mismatches: 5, Indels: 16
0.78 0.05 0.17
Matches are distributed among these distances:
2 10 0.14
3 56 0.76
4 5 0.07
5 3 0.04
ACGTcount: A:0.59, C:0.01, G:0.03, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:51481 original size:139 final size:137
Alignment explanation
Indices: 51172--51764 Score: 467
Period size: 123 Copynumber: 4.5 Consensus size: 137
51162 AATCTAGCAA
* *
51172 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCATCTTCAGATGAGTTCTTCTCTTTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
* * * * * *
51237 GAACTCATTATGGAAATGTTGATTCTCAAAAGTGGTGTCGTTGATTCAACTTCATATGTGATGAA
66 GAACTCATTATGAAAATGTTGATCCTCAAAAGAGGTGTCGTTCATTCAACTCCATAGGTGATGAA
*
51302 TTAAGGC
131 TCAAGGC
* *
51309 AAGGTTGAACAAGTTCTTCTCATTATAAACTTCTTCATCCTCTTCAGATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
* * * * *
51374 GAACT-TTCTCTGAAAATGTTGATCCTCAAGAGAGGTTCTTCTTTCATTCAACTCCATAGGTGAT
66 GAACTCAT-TATGAAAATGTTGATCCTCAAAAGAGG-T-GTCGTTCATTCAACTCCATAGGTGAT
*
51438 GAATCAA-TC
128 GAATCAAGGC
* * *
51447 TAAGGTCGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTCTTCATATGAGTTCTTCTCATTA
1 -AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTA
* * * *
51512 TGAACTC--TACCTGGAAATGTTGGTGCT-----GA----TC--T-ATCTC-A-TTC-T--GTGA
65 TGAACTCATTA--TGAAAATGTTGATCCTCAAAAGAGGTGTCGTTCAT-TCAACTCCATAGGTGA
51558 TAGAATCAA-GC
127 T-GAATCAAGGC
* *
51569 AAAAGGTTGAACAAGTTCTTCTCATTATAAACTTTTTCTTCCTCTTCAGATGAGTTCTTCTCATT
1 --AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATT
* * ** *
51634 ATGAACTC-TATCTGGAAATGTTGA---T-----GTTG-GTC--T-ATCTC--CTTC-T--GTGA
64 ATGAACTCAT-TATGAAAATGTTGATCCTCAAAAGAGGTGTCGTTCAT-TCAACTCCATAGGTGA
**
51681 TAGAATTGA-GC
127 T-GAATCAAGGC
51692 AAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATT
1 --AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATT
51757 ATGAACTC
64 ATGAACTC
51765 TATCTGGAAA
Statistics
Matches: 399, Mismatches: 41, Indels: 46
0.82 0.08 0.09
Matches are distributed among these distances:
120 2 0.01
121 5 0.01
122 8 0.02
123 174 0.44
124 2 0.01
125 4 0.01
126 3 0.01
128 2 0.01
134 2 0.01
136 1 0.00
137 89 0.22
138 2 0.01
139 105 0.26
ACGTcount: A:0.26, C:0.19, G:0.15, T:0.39
Consensus pattern (137 bp):
AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
GAACTCATTATGAAAATGTTGATCCTCAAAAGAGGTGTCGTTCATTCAACTCCATAGGTGATGAA
TCAAGGC
Found at i:51581 original size:123 final size:123
Alignment explanation
Indices: 51448--51778 Score: 554
Period size: 123 Copynumber: 2.7 Consensus size: 123
51438 GAATCAATCT
* * *
51448 AAGGTCGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTCTTCATATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
* *
51513 GAACTCTACCTGGAAATGTTGGTGCTGATCTATCTCATTCTGTGATAGAATCAAGCAA
66 GAACTCTATCTGGAAATGTTGATGCTGATCTATCTCATTCTGTGATAGAATCAAGCAA
* *
51571 AAGGTTGAACAAGTTCTTCTCATTATAAACTTTTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
* * * **
51636 GAACTCTATCTGGAAATGTTGATGTTGGTCTATCTCCTTCTGTGATAGAATTGAGCAA
66 GAACTCTATCTGGAAATGTTGATGCTGATCTATCTCATTCTGTGATAGAATCAAGCAA
51694 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
51759 GAACTCTATCTGGAAATGTT
66 GAACTCTATCTGGAAATGTT
51779 TTAAGAAAAA
Statistics
Matches: 194, Mismatches: 14, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
123 194 1.00
ACGTcount: A:0.26, C:0.20, G:0.15, T:0.40
Consensus pattern (123 bp):
AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
GAACTCTATCTGGAAATGTTGATGCTGATCTATCTCATTCTGTGATAGAATCAAGCAA
Found at i:51894 original size:73 final size:73
Alignment explanation
Indices: 51775--51962 Score: 322
Period size: 73 Copynumber: 2.6 Consensus size: 73
51765 TATCTGGAAA
*
51775 TGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGTTATTTCAAGTGAAACTTTCTCTAGCGAG
1 TGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGTTATTTCAAGTGAAACTTTCTCCAGCGAG
*
51840 AAACGGTT
66 AAACAGTT
* *
51848 TGTTTTAAGAAAAATAATCTCAAGTGAGATAAATTGTTATTTCAAGTGAAACTTTCTCCAGCGAT
1 TGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGTTATTTCAAGTGAAACTTTCTCCAGCGAG
51913 AAACAGTT
66 AAACAGTT
* *
51921 TGTTTTAAGAAAAACAATCTTAAGTGAGATAAATTGCTATTT
1 TGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGTTATTT
51963 GAAAACATCA
Statistics
Matches: 108, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
73 108 1.00
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.35
Consensus pattern (73 bp):
TGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGTTATTTCAAGTGAAACTTTCTCCAGCGAG
AAACAGTT
Found at i:56435 original size:10 final size:10
Alignment explanation
Indices: 56386--56435 Score: 64
Period size: 10 Copynumber: 4.8 Consensus size: 10
56376 CTTGATTCAA
*
56386 TTTTTTCTTT
1 TTTTTTCTCT
56396 TCTTTTTCATCT
1 T-TTTTTC-TCT
*
56408 TTTTTTCCCT
1 TTTTTTCTCT
56418 TTTTTTCTCT
1 TTTTTTCTCT
56428 TTTTTTCT
1 TTTTTTCT
56436 TATGATGAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
10 20 0.57
11 12 0.34
12 3 0.09
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (10 bp):
TTTTTTCTCT
Found at i:58352 original size:11 final size:12
Alignment explanation
Indices: 58325--58354 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
58315 TTATGCAAAG
58325 ATGCAAATGTAA
1 ATGCAAATGTAA
58337 ATGCAAATGT-A
1 ATGCAAATGTAA
58348 ATGCAAA
1 ATGCAAA
58355 CATGCGAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 8 0.44
12 10 0.56
ACGTcount: A:0.50, C:0.10, G:0.17, T:0.23
Consensus pattern (12 bp):
ATGCAAATGTAA
Found at i:58372 original size:31 final size:31
Alignment explanation
Indices: 58317--58375 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
58307 AAATGTAATT
* *
58317 ATGCAAAGATGCAAATGTAAATGCAAATGTA
1 ATGCAAACATGCAAATGCAAATGCAAATGTA
* *
58348 ATGCAAACATGCGAATGCAGATGCAAAT
1 ATGCAAACATGCAAATGCAAATGCAAAT
58376 ATATGAATAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.46, C:0.14, G:0.20, T:0.20
Consensus pattern (31 bp):
ATGCAAACATGCAAATGCAAATGCAAATGTA
Found at i:58568 original size:43 final size:42
Alignment explanation
Indices: 58520--58604 Score: 134
Period size: 43 Copynumber: 2.0 Consensus size: 42
58510 CGGTACATCA
* * *
58520 AACAAAACTTTACTTATAGGGGATAATTTTCACTCCTAACTTC
1 AACAAAACTTTACATATAAGGGATAACTTTCACTCCT-ACTTC
58563 AACAAAACTTTACATATAAGGGATAACTTTCACTCCTACTTC
1 AACAAAACTTTACATATAAGGGATAACTTTCACTCCTACTTC
58605 TCTAAAGACA
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
42 5 0.13
43 34 0.87
ACGTcount: A:0.36, C:0.22, G:0.08, T:0.33
Consensus pattern (42 bp):
AACAAAACTTTACATATAAGGGATAACTTTCACTCCTACTTC
Found at i:58658 original size:24 final size:24
Alignment explanation
Indices: 58614--58659 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
58604 CTCTAAAGAC
* *
58614 AAGTTAGTTTTCATTCATGCTTAA
1 AAGTTAGTTATCAATCATGCTTAA
58638 AAGTTGAGTTATCAATC-TGCTT
1 AAGTT-AGTTATCAATCATGCTT
58660 CAATTTCTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 10 0.53
25 9 0.47
ACGTcount: A:0.28, C:0.13, G:0.15, T:0.43
Consensus pattern (24 bp):
AAGTTAGTTATCAATCATGCTTAA
Found at i:59171 original size:36 final size:36
Alignment explanation
Indices: 59074--59176 Score: 134
Period size: 36 Copynumber: 2.9 Consensus size: 36
59064 CCATAAACTG
* * * * *
59074 CTTTTGGTACCAATTTAATAGGATATTGGTGGAATA
1 CTTTTGGTATCAATATAACAGGATCTTTGTGGAATA
*
59110 CTTTTGGTATCAATCTAACAGGATCTTTGTGGAATA
1 CTTTTGGTATCAATATAACAGGATCTTTGTGGAATA
* *
59146 CTTTTGGTATTAATATAACATGATCTTTGTG
1 CTTTTGGTATCAATATAACAGGATCTTTGTG
59177 TGCATAGCTC
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 59 1.00
ACGTcount: A:0.28, C:0.11, G:0.19, T:0.42
Consensus pattern (36 bp):
CTTTTGGTATCAATATAACAGGATCTTTGTGGAATA
Found at i:60769 original size:18 final size:17
Alignment explanation
Indices: 60746--60786 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
60736 AAAAATGAGG
*
60746 TAAATATATATATTTTT
1 TAAATATAGATATTTTT
60763 ATAAATA-AGATATTTTT
1 -TAAATATAGATATTTTT
60780 TAAATAT
1 TAAATAT
60787 CATAATAGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 6 0.29
17 9 0.43
18 6 0.29
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.51
Consensus pattern (17 bp):
TAAATATAGATATTTTT
Found at i:62124 original size:15 final size:15
Alignment explanation
Indices: 62100--62131 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
62090 CTTTGGATCT
*
62100 TGCCATATCCAATAG
1 TGCCAGATCCAATAG
62115 TGCCAGATCCAATAG
1 TGCCAGATCCAATAG
62130 TG
1 TG
62132 GATGGTTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (15 bp):
TGCCAGATCCAATAG
Found at i:62254 original size:3 final size:3
Alignment explanation
Indices: 62246--62325 Score: 56
Period size: 3 Copynumber: 26.0 Consensus size: 3
62236 GTATGGCCTG
* * * *
62246 TAA TAA TAA TAA TATA TTA TTA TTA TTA TAA TTAA -AA TAA TAA TAA
1 TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA
* *
62292 TGA T-A GAA TAA TAA TAAA TAA TAA TAA TGAA TAA
1 TAA TAA TAA TAA TAA T-AA TAA TAA TAA T-AA TAA
62326 ATGGAGAAAA
Statistics
Matches: 66, Mismatches: 5, Indels: 12
0.80 0.06 0.14
Matches are distributed among these distances:
2 3 0.05
3 52 0.79
4 11 0.17
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:62303 original size:11 final size:10
Alignment explanation
Indices: 62281--62318 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
62271 TTATAATTAA
62281 AATAAT-AAT
1 AATAATAAAT
*
62290 AATGATAGAAT
1 AATAATA-AAT
62301 AATAATAAAT
1 AATAATAAAT
62311 AATAATAA
1 AATAATAA
62319 TGAATAAATG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
9 5 0.20
10 11 0.44
11 9 0.36
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (10 bp):
AATAATAAAT
Found at i:62420 original size:13 final size:13
Alignment explanation
Indices: 62402--62430 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
62392 TAGTTACAAA
62402 TTTAAAAATATAT
1 TTTAAAAATATAT
62415 TTTAAAAATATAT
1 TTTAAAAATATAT
62428 TTT
1 TTT
62431 TAAATTAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
TTTAAAAATATAT
Found at i:62555 original size:116 final size:116
Alignment explanation
Indices: 62349--62653 Score: 376
Period size: 116 Copynumber: 2.6 Consensus size: 116
62339 GATGTCTACA
* * *
62349 ATATATTCAATAAATTAAGAAAAAATAA-AAAATAATATTTTTATAGTTACA-AATTTAAAAATA
1 ATATATTCGATAAATTAA-TAAAAATAATAATAT-ATA-TTTTATAGTTA-AGAATTT---AA-A
* * ** *
62412 TATTTTAAAAATATATTTTTAAATTAAATGGTAAACTTGGCGTACTTTAAACCAAAATAT
58 TA-TTTAAATATATATTCTTAAATTAAATAATAAACTTGGCCTACTTTAAACCAAAATAT
62472 ATATATTCGATAAATTAATAAAAATAATAATATATATTTTATAGTTAAGAATTTAAATATTTAAA
1 ATATATTCGATAAATTAATAAAAATAATAATATATATTTTATAGTTAAGAATTTAAATATTTAAA
*
62537 TATATATTCTTAACTTAAATAATAAACTTGGCCTACTTTAAACCAAAATAT
66 TATATATTCTTAAATTAAATAATAAACTTGGCCTACTTTAAACCAAAATAT
62588 ATATA-TCGATAAA-T--TAAAAA-AAT-ATA-ATATTTTATAGTTAAGAATTTAAATATTTAAA
1 ATATATTCGATAAATTAATAAAAATAATAATATATATTTTATAGTTAAGAATTTAAATATTT-AA
62646 ATATATAT
65 ATATATAT
62654 ATATATATAT
Statistics
Matches: 170, Mismatches: 9, Indels: 19
0.86 0.05 0.10
Matches are distributed among these distances:
109 29 0.17
110 13 0.08
111 3 0.02
112 6 0.04
114 1 0.01
115 8 0.05
116 56 0.33
117 3 0.02
118 2 0.01
120 1 0.01
121 16 0.09
122 11 0.06
123 21 0.12
ACGTcount: A:0.50, C:0.06, G:0.05, T:0.39
Consensus pattern (116 bp):
ATATATTCGATAAATTAATAAAAATAATAATATATATTTTATAGTTAAGAATTTAAATATTTAAA
TATATATTCTTAAATTAAATAATAAACTTGGCCTACTTTAAACCAAAATAT
Found at i:62653 original size:2 final size:2
Alignment explanation
Indices: 62646--62683 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
62636 AATATTTAAA
*
62646 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
62684 TCTTACCTCA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Done.