Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01017570.1 Corchorus olitorius cultivar O-4 contig17603, 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: 101307
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:723 original size:332 final size:330
Alignment explanation
Indices: 1--2679 Score: 3205
Period size: 333 Copynumber: 8.1 Consensus size: 330
* ** **
1 AGTTCTGCATGATTTTCGGCGTCGAGACTCCTTCAAAAATATATATTCATCTAATCAAATCAGAG
1 AGTTCTGCATGATTTTCGGCGTCGAGACTCCTTCAAATATCCATATTCATCTAATCAAATCTCAG
66 CCACATTGCATTTAAGGATTTGTTTTTACGAGCATCTAAATCTTGTTTCAATTTAATTAGAAATT
66 CCACATTGCATTTAAGGATTTGTTTTTACGAGCATCT-AATCTTGTTTCAATTTAATTAGAAATT
* * *
131 AATTCGGAAAAAGTATGAAAAATGAAATTAAACGCGTAAAAAACCCTTCAATATTTTTGGCGTTG
130 AATTCGGAAAAAGTATGAAAAACGATATTAAAAGCGTAAAAAACCCTTCAATATTTTTGGCGTTG
** * *
196 AATTATATATATCCCTATGAGTATTTCAGCTAAAAATCGAGGAAATATCTTTCGGGTCAATTTTT
195 AATTATATATAT-TATACGAGTATTT-AGCTAAAAATTGAGGAAATATCTTTCGGGTCAATTTTT
* * * **
261 GCAAAATTGTAGCCGAAATCGTGTACTAACCATCACGATTTTTT-ATGAAAACGTGTT--GTGGG
258 GCAAAATTTTAGCCGAAATCGTGTACTAACCATCACGATTTTTTGCTAAAAACACGTTCCG-GGG
*
323 CCCCGGCTC
322 CCCCGACTC
* ** * *
332 AGTTCTGCATGATTTTCGGCGTCGAGGCTTTTTCAAATATCTATATTCATCTAATCAAATCTCAA
1 AGTTCTGCATGATTTTCGGCGTCGAGACTCCTTCAAATATCCATATTCATCTAATCAAATCTCAG
* * *
397 CCAAATTGCATTTAAGAATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATT
66 CCACATTGCATTTAAGGATTTGTTTTTACGAGCATCT-AATCTTGTTTCAATTTAATTAGAAATT
* * * **** * *
462 AATTCGGAAAAATTAATGAAAAACGATATGAAAAGCGTGAACTGTCCTCCAATCA-TTTTGGAGT
130 AATTCGGAAAAAGT-ATGAAAAACGATATTAAAAGCGTAAAAAACCCTTCAAT-ATTTTTGGCGT
* * * * * *
526 TAAATTATATAGATTAGACGAGTATATTAGGC-AAAAATTGAGGAAA-ATTTTTTGGAT-AATTT
193 TGAATTATATATATTATACGAGTAT-TTA-GCTAAAAATTGAGGAAATATCTTTCGGGTCAA-TT
* * * **
588 TTTGCAGAATTTTAGCCGAAATCGTGTGC-AA-CATCACGATTTTATTTGCTAAAAACACTTTTT
255 TTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCACGA-TTT-TTTGCTAAAAACACGTTCC
651 GGGGCCCCGACTC
318 GGGGCCCCGACTC
* *
664 AGTTCTGCATGATTTTCGGCGTCAAGACTCCCTCAAATATCCATATTCATCTAATCAAATCTCAG
1 AGTTCTGCATGATTTTCGGCGTCGAGACTCCTTCAAATATCCATATTCATCTAATCAAATCTCAG
* * ** * * *
729 CGACATTACATTTAATAATTTATTTTTACGAGCATCTATATCTTATTTCAACTTAATTAGAAATT
66 CCACATTGCATTTAAGGATTTGTTTTTACGAGCATCTA-ATCTTGTTTCAATTTAATTAGAAATT
* *
794 AATTCGGAAAAAGTAGGAAAAACGATATTAGAAGCGTAAAAAACCCTTCAATATTTTTGGCGTTG
130 AATTCGGAAAAAGTATGAAAAACGATATTAAAAGCGTAAAAAACCCTTCAATATTTTTGGCGTTG
* * * * * *
859 ACTTATATATATCT-TAATGAGTATTTTATCTACAGATTGAGGAAATATCTTTCGGAT-AATTTC
195 AATTATATATAT-TAT-ACGAGTA-TTTAGCTAAAAATTGAGGAAATATCTTTCGGGTCAATTT-
** * * * * *
922 TTATAAAATTTTAGCCGAAATCGGGTACTAACTATCACGATTTTTTGCTAAAAACCCTTTCTGGG
256 TTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCACGATTTTTTGCTAAAAACACGTTCCGGG
*
987 GCCCCGGCTC
321 GCCCCGACTC
* * * *
997 AGTTGTGCATGATTTTCAGCGTCGAGACTCCATGAAATATCCATATTCATCTAATCAAATCTCAG
1 AGTTCTGCATGATTTTCGGCGTCGAGACTCCTTCAAATATCCATATTCATCTAATCAAATCTCAG
*
1062 CCACATTGCATTTAAGGATTTGCTTTTACGAGCATCTAAATCTTGTTTCAATTTAATTAGAAATT
66 CCACATTGCATTTAAGGATTTGTTTTTACGAGCATCT-AATCTTGTTTCAATTTAATTAGAAATT
* * *
1127 AATTCGGAAAAAGTA-GGAAAACGATATTAGAAGCGTAAAAAACCCTTCAACATTTTTGGCGTTG
130 AATTCGGAAAAAGTATGAAAAACGATATTAAAAGCGTAAAAAACCCTTCAATATTTTTGGCGTTG
* *
1191 AATTATATATATTTGTATGAGTATTTCAGCTAAAAATTGA-GATAATATCTTTCGGGTCAATTTT
195 AATTATATATA-TTATACGAGTATTT-AGCTAAAAATTGAGGA-AATATCTTTCGGGTCAATTTT
* *
1255 TACAAAATTTTAGCCGAAATCGTGTACTAACCATCACGATTTTTTGCTAAAAACACGTTCCGGTG
257 TGCAAAATTTTAGCCGAAATCGTGTACTAACCATCACGATTTTTTGCTAAAAACACGTTCCGGGG
1320 CCCCGACTC
322 CCCCGACTC
* * *
1329 AGTTCCGCATGATTTTCGGCGTCGAGACTCCTTCAAATATCCTTATTCATCTAATCAAATCTTAG
1 AGTTCTGCATGATTTTCGGCGTCGAGACTCCTTCAAATATCCATATTCATCTAATCAAATCTCAG
*
1394 CTACATTGCATTTAAGGATTTGTTTTTACGAGCATCTAAATCTTGTTTCAATTTAATTAGAAATT
66 CCACATTGCATTTAAGGATTTGTTTTTACGAGCATCT-AATCTTGTTTCAATTTAATTAGAAATT
* * * *
1459 AATTCGGAAGAAGTAGGAAAAACGATATTAGAAGTGTAAAAAACCCTTCAATATTTTTGGCGTTG
130 AATTCGGAAAAAGTATGAAAAACGATATTAAAAGCGTAAAAAACCCTTCAATATTTTTGGCGTTG
* * *
1524 AATTATATATATCTCTACGAGTATTTCAGCTAAAAATTAAGGAAATATATTTCGGGTCAATTTTT
195 AATTATATATAT-TATACGAGTATTT-AGCTAAAAATTGAGGAAATATCTTTCGGGTCAATTTTT
* * **
1589 GTAAAATTTTCGCCGAAATCGTGTACTAACCATCACGATTTTTTGCTAAAAACGTGTTCCGGGGC
258 GCAAAATTTTAGCCGAAATCGTGTACTAACCATCACGATTTTTTGCTAAAAACACGTTCCGGGGC
*
1654 CCCGGCTC
323 CCCGACTC
* *
1662 AGTTCTGCATGATTTTCAGCGTCGAGACTCCTTCAAATATCCATATTCATCTAATCAAATCTTAG
1 AGTTCTGCATGATTTTCGGCGTCGAGACTCCTTCAAATATCCATATTCATCTAATCAAATCTCAG
* * * * * *
1727 CCACTTTGCATTTAAGAATTTATTTTTACGAGCATCTATATCTTATTTTAACTTAATTAGAAATT
66 CCACATTGCATTTAAGGATTTGTTTTTACGAGCATCTA-ATCTTGTTTCAATTTAATTAGAAATT
* * * * * *
1792 AATTCGTAAAAAGTAGGAAAAACGATATTAGAAGAGAAAAAAACACTTCAATATTTGTT-GCGTT
130 AATTCGGAAAAAGTATGAAAAACGATATTAAAAGCGTAAAAAACCCTTCAATATTT-TTGGCGTT
* * *
1856 GAATTATATATATCTCTATGAGCATTTAAGCTAAAAATTGAGGAAATATCTTTCGGGTCAATTTT
194 GAATTATATATAT-TATACGAGTATTT-AGCTAAAAATTGAGGAAATATCTTTCGGGTCAATTTT
* * * *
1921 TGCAAAATTTTATCCGAAATCGTG-------CATCACGATTTTTTGCTAAAAACGCATTTCGGGG
257 TGCAAAATTTTAGCCGAAATCGTGTACTAACCATCACGATTTTTTGCTAAAAACACGTTCCGGGG
*
1979 CCCCGGCTC
322 CCCCGACTC
* ** *
1988 AGTTCTGCATGATTTTCGGCGGCGAGACTCCTTCAAATATCTTTATTCATCTAATCAAATCTCAT
1 AGTTCTGCATGATTTTCGGCGTCGAGACTCCTTCAAATATCCATATTCATCTAATCAAATCTCAG
* * *
2053 CCACATTGCATTTAAGGATTTGATTTTACGAGCATCTATATTTTGTTTCGATTTAATTAGAAATT
66 CCACATTGCATTTAAGGATTTGTTTTTACGAGCATCTA-ATCTTGTTTCAATTTAATTAGAAATT
* * * ** * * *
2118 ACTTCGGAAAAA-TCAATGAAAAACGATATGAAAAGCGTGAAAAGTCCTCCAACCA-TTTTGGAG
130 AATTCGGAAAAAGT--ATGAAAAACGATATTAAAAGCGTAAAAAACCCTTCAA-TATTTTTGGCG
* * * * *
2181 TTAAATTATATATATTACACGAGTATATTAGGC-AAAAATTAAGAAAATATCTTTCGGGTCAATA
192 TTGAATTATATATATTATACGAGTAT-TTA-GCTAAAAATTGAGGAAATATCTTTCGGGTCAATT
* *
2245 TTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCACAATTTTTTGCTAAAAACGCGTTCCGG
255 TTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCACGATTTTTTGCTAAAAACACGTTCCGG
*
2310 GGCCCCGATTC
320 GGCCCCGACTC
* * * * * *
2321 AGTTTTACATGATTTTCAGCGTCGAGACTCCTTCAAATATCTATACTCATCTAATCAAATTTCAG
1 AGTTCTGCATGATTTTCGGCGTCGAGACTCCTTCAAATATCCATATTCATCTAATCAAATCTCAG
* * *
2386 CCACATTGCAATTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCTATTTAATTAAAAATT
66 CCACATTGCATTTAAGGATTTGTTTTTACGAGCATCT-AATCTTGTTTCAATTTAATTAGAAATT
* * *** * ** * *
2451 AATTCGGAAAAAAAAATATCAAAAACGATCGGAAAAGCGTGAAAAGTCCTCCAATCA-TTTTGGA
130 AATTCGG---AAAAAGTATGAAAAACGATATTAAAAGCGTAAAAAACCCTTCAAT-ATTTTTGGC
* * * *** * * *
2515 GTTAAATTATATTTATTACACGAGTATATTATAAAAAAATTGAGGAAAAATTTTTCGGGTCATTT
191 GTTGAATTATATATATTATACGAGTAT-TTAGCTAAAAATTGAGGAAATATCTTTCGGGTCAATT
* * * *
2580 TTTGCAAAATTTTAGCCGAAATTGTGTAAC-AACTATCACGATTTTTTGCTAAAATCGCGTTCCG
255 TTTGCAAAATTTTAGCCGAAATCGTGT-ACTAACCATCACGATTTTTTGCTAAAAACACGTTCCG
*
2644 GGGCCCCGACTT
319 GGGCCCCGACTC
*
2656 GGTTCTGCATGATTTTCGGCGTCG
1 AGTTCTGCATGATTTTCGGCGTCG
2680 CAACTCCATG
Statistics
Matches: 2050, Mismatches: 246, Indels: 100
0.86 0.10 0.04
Matches are distributed among these distances:
325 1 0.00
326 228 0.11
327 49 0.02
328 9 0.00
329 7 0.00
330 40 0.02
331 215 0.10
332 506 0.25
333 785 0.38
334 11 0.01
335 191 0.09
336 7 0.00
337 1 0.00
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (330 bp):
AGTTCTGCATGATTTTCGGCGTCGAGACTCCTTCAAATATCCATATTCATCTAATCAAATCTCAG
CCACATTGCATTTAAGGATTTGTTTTTACGAGCATCTAATCTTGTTTCAATTTAATTAGAAATTA
ATTCGGAAAAAGTATGAAAAACGATATTAAAAGCGTAAAAAACCCTTCAATATTTTTGGCGTTGA
ATTATATATATTATACGAGTATTTAGCTAAAAATTGAGGAAATATCTTTCGGGTCAATTTTTGCA
AAATTTTAGCCGAAATCGTGTACTAACCATCACGATTTTTTGCTAAAAACACGTTCCGGGGCCCC
GACTC
Found at i:1349 original size:665 final size:662
Alignment explanation
Indices: 1--2679 Score: 3315
Period size: 665 Copynumber: 4.0 Consensus size: 662
* ** **
1 AGTTCTGCATGATTTTCGGCGTCGAGACTCCTTCAAAAATATATATTCATCTAATCAAATCAGAG
1 AGTTCTGCATGATTTTCGGCGTCGAGACTCCTTCAAATATCCATATTCATCTAATCAAATCTCAG
*
66 CCACATTGCATTTAAGGATTTGTTTTTACGAGCATCTAAATCTTGTTTCAATTTAATTAGAAATT
66 CCACATTGCATTTAAGGATTTATTTTTACGAGCATCTAAATCTTGTTTCAATTTAATTAGAAATT
* * *
131 AATTCGGAAAAAGTATGAAAAATGAAATTA-AACGCGTAAAAAACCCTTCAATATTTTTGGCGTT
131 AATTCGGAAAAAGTAGGAAAAACGATATTAGAA-GCGTAAAAAACCCTTCAATATTTTTGGCGTT
* * **
195 GAATTATATATATCCCTATGAGTATTTCAGCTAAAAATCGAGGAAATATCTTTCGGGTCAATTTT
195 GAATTATATATAT-CTTACGAGTATTTCAGCTAAAAATTAAGGAAATATCTTTCGGGTCAATTTT
* * * *
260 TGCAAAATTGTAGCCGAAATCGTGTACTAACCATCACGATTTTTT-ATGAAAACGTGTT--GTGG
259 TGCAAAATTTTAGCCGAAATCGTGTACTAACCATCACGATTTTTTGCTAAAAACCT-TTCCG-GG
* * ** *
322 GCCCCGGCTCAGTTCTGCATGATTTTCGGCGTCGAGGCTTTTTCAAATATCTATATTCATCTAAT
322 GCCCCGGCTCAGTTCTGCATGATTTTCAGCGTCGAGACTCCTTCAAATATCCATATTCATCTAAT
* * * *
387 CAAATCTCAACCAAATTGCATTTAAGAATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTA
387 CAAATCTCAGCCACATTGCATTTAAGAATTTGTTTTTACGAGCATCTAAATCTTGTTTCAATTTA
* * ****
452 ATTAGAAATTAATTCGGAAAAATTAATGAAAAACGATATGAAAAGCGTGAACTGTCCTCCAATCA
452 ATTAGAAATTAATTCGGAAAAAGT-ATGAAAAACGATATGAAAAGCGTAAAAAACCCTCCAATCA
* * * *
517 TTTTGGAGTTAAATTATATAGATTAG-ACGAGTATATTAGGC-AAAAATTGAGGAAA-ATTTTTT
516 TTTTGGAGTTAAATTATATATATTTGTACGAGTATATTA-GCTAAAAATTGAGGAAATATCTTTC
* * *
579 GGAT-AATTTTTTGCAGAATTTTAGCCGAAATCGTGTGCAACATCACGATTTTATTTGCTAAAAA
580 GGGTCAA-TTTTTGCAAAATTTTAGCCGAAATCGTGTACAACATCACGA-TTT-TTTGCTAAAAA
* **
643 CACTTTTTGGGGCCCCGACTC
642 CACGTTCCGGGGCCCCGACTC
* *
664 AGTTCTGCATGATTTTCGGCGTCAAGACTCCCTCAAATATCCATATTCATCTAATCAAATCTCAG
1 AGTTCTGCATGATTTTCGGCGTCGAGACTCCTTCAAATATCCATATTCATCTAATCAAATCTCAG
* * ** * * *
729 CGACATTACATTTAATAATTTATTTTTACGAGCATCTATATCTTATTTCAACTTAATTAGAAATT
66 CCACATTGCATTTAAGGATTTATTTTTACGAGCATCTAAATCTTGTTTCAATTTAATTAGAAATT
794 AATTCGGAAAAAGTAGGAAAAACGATATTAGAAGCGTAAAAAACCCTTCAATATTTTTGGCGTTG
131 AATTCGGAAAAAGTAGGAAAAACGATATTAGAAGCGTAAAAAACCCTTCAATATTTTTGGCGTTG
* * * * * * * *
859 ACTTATATATATCTTAATGAGTATTTTATCTACAGATTGAGGAAATATCTTTCGGAT-AATTTCT
196 AATTATATATATCTT-ACGAGTATTTCAGCTAAAAATTAAGGAAATATCTTTCGGGTCAATTT-T
** * * *
923 TATAAAATTTTAGCCGAAATCGGGTACTAACTATCACGATTTTTTGCTAAAAACCCTTTCTGGGG
259 TGCAAAATTTTAGCCGAAATCGTGTACTAACCATCACGATTTTTTGCTAAAAA-CCTTTCCGGGG
* * *
988 CCCCGGCTCAGTTGTGCATGATTTTCAGCGTCGAGACTCCATGAAATATCCATATTCATCTAATC
323 CCCCGGCTCAGTTCTGCATGATTTTCAGCGTCGAGACTCCTTCAAATATCCATATTCATCTAATC
* *
1053 AAATCTCAGCCACATTGCATTTAAGGATTTGCTTTTACGAGCATCTAAATCTTGTTTCAATTTAA
388 AAATCTCAGCCACATTGCATTTAAGAATTTGTTTTTACGAGCATCTAAATCTTGTTTCAATTTAA
* * * *
1118 TTAGAAATTAATTCGGAAAAAGTA-GGAAAACGATATTAGAAGCGTAAAAAACCCTTCAA-CATT
453 TTAGAAATTAATTCGGAAAAAGTATGAAAAACGATATGAAAAGCGTAAAAAACCCTCCAATCA-T
* * *
1181 TTTGGCGTTGAATTATATATATTTGTATGAGTAT-TTCAGCTAAAAATTGA-GATAATATCTTTC
517 TTTGGAGTTAAATTATATATATTTGTACGAGTATATT-AGCTAAAAATTGAGGA-AATATCTTTC
*
1244 GGGTCAATTTTTACAAAATTTTAGCCGAAATCGTGTACTAACCATCACGATTTTTTGCTAAAAAC
580 GGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTAC-AA-CATCACGATTTTTTGCTAAAAAC
*
1309 ACGTTCCGGTGCCCCGACTC
643 ACGTTCCGGGGCCCCGACTC
* * *
1329 AGTTCCGCATGATTTTCGGCGTCGAGACTCCTTCAAATATCCTTATTCATCTAATCAAATCTTAG
1 AGTTCTGCATGATTTTCGGCGTCGAGACTCCTTCAAATATCCATATTCATCTAATCAAATCTCAG
* *
1394 CTACATTGCATTTAAGGATTTGTTTTTACGAGCATCTAAATCTTGTTTCAATTTAATTAGAAATT
66 CCACATTGCATTTAAGGATTTATTTTTACGAGCATCTAAATCTTGTTTCAATTTAATTAGAAATT
* *
1459 AATTCGGAAGAAGTAGGAAAAACGATATTAGAAGTGTAAAAAACCCTTCAATATTTTTGGCGTTG
131 AATTCGGAAAAAGTAGGAAAAACGATATTAGAAGCGTAAAAAACCCTTCAATATTTTTGGCGTTG
*
1524 AATTATATATATCTCTACGAGTATTTCAGCTAAAAATTAAGGAAATATATTTCGGGTCAATTTTT
196 AATTATATATATCT-TACGAGTATTTCAGCTAAAAATTAAGGAAATATCTTTCGGGTCAATTTTT
* * *
1589 GTAAAATTTTCGCCGAAATCGTGTACTAACCATCACGATTTTTTGCTAAAAACGTGTTCCGGGGC
260 GCAAAATTTTAGCCGAAATCGTGTACTAACCATCACGATTTTTTGCTAAAAACCT-TTCCGGGGC
1654 CCCGGCTCAGTTCTGCATGATTTTCAGCGTCGAGACTCCTTCAAATATCCATATTCATCTAATCA
324 CCCGGCTCAGTTCTGCATGATTTTCAGCGTCGAGACTCCTTCAAATATCCATATTCATCTAATCA
* * * * * * *
1719 AATCTTAGCCACTTTGCATTTAAGAATTTATTTTTACGAGCATCTATATCTTATTTTAACTTAAT
389 AATCTCAGCCACATTGCATTTAAGAATTTGTTTTTACGAGCATCTAAATCTTGTTTCAATTTAAT
* * * * * * * *
1784 TAGAAATTAATTCGTAAAAAGTAGGAAAAACGATATTAGAAGAGAAAAAAACACTTCAAT-ATTT
454 TAGAAATTAATTCGGAAAAAGTATGAAAAACGATATGAAAAGCGTAAAAAACCCTCCAATCATTT
* * * * * * *
1848 GTTGCGTTGAATTATATATATCTCTATGAGCAT-TTAAGCTAAAAATTGAGGAAATATCTTTCGG
519 -TGGAGTTAAATTATATATATTTGTACGAGTATATT-AGCTAAAAATTGAGGAAATATCTTTCGG
* * *
1912 GTCAATTTTTGCAAAATTTTATCCGAAATCGTG-----CATCACGATTTTTTGCTAAAAACGCAT
582 GTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTACAACATCACGATTTTTTGCTAAAAACACGT
* *
1972 TTCGGGGCCCCGGCTC
647 TCCGGGGCCCCGACTC
* ** *
1988 AGTTCTGCATGATTTTCGGCGGCGAGACTCCTTCAAATATCTTTATTCATCTAATCAAATCTCAT
1 AGTTCTGCATGATTTTCGGCGTCGAGACTCCTTCAAATATCCATATTCATCTAATCAAATCTCAG
* * *
2053 CCACATTGCATTTAAGGATTTGA-TTTTACGAGCATCTATATTTTGTTTCGATTTAATTAGAAAT
66 CCACATTGCATTTAAGGATTT-ATTTTTACGAGCATCTAAATCTTGTTTCAATTTAATTAGAAAT
* * * * * ** * * *
2117 TACTTCGGAAAAA-TCAATGAAAAACGATATGAAAAGCGTGAAAAGTCCTCCAACCA-TTTTGGA
130 TAATTCGGAAAAAGT--AGGAAAAACGATATTAGAAGCGTAAAAAACCCTTCAA-TATTTTTGGC
* * *
2180 GTTAAATTATATATAT-TACACGAGTATATT-AGGC-AAAAATTAAGAAAATATCTTTCGGGTCA
192 GTTGAATTATATATATCT-TACGAGTAT-TTCA-GCTAAAAATTAAGGAAATATCTTTCGGGTCA
* * *
2242 ATATTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCACAATTTTTTGCTAAAAACGCGTTC
254 ATTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCACGATTTTTTGCTAAAAAC-CTTTC
** * * * *
2307 CGGGGCCCCGATTCAGTTTTACATGATTTTCAGCGTCGAGACTCCTTCAAATATCTATACTCATC
318 CGGGGCCCCGGCTCAGTTCTGCATGATTTTCAGCGTCGAGACTCCTTCAAATATCCATATTCATC
* * * * *
2372 TAATCAAATTTCAGCCACATTGCAATTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCTA
383 TAATCAAATCTCAGCCACATTGCATTTAAGAATTTGTTTTTACGAGCATCTAAATCTTGTTTCAA
* * * ** * **
2437 TTTAATTAAAAATTAATTCGGAAAAAAAAATATCAAAAACGATCGGAAAAGCGTGAAAAGTCCTC
448 TTTAATTAGAAATTAATTCGG---AAAAAGTATGAAAAACGATATGAAAAGCGTAAAAAACCCTC
* ** *** *
2502 CAATCATTTTGGAGTTAAATTATATTTA-TTACACGAGTATATTATAAAAAAATTGAGGAAAAAT
510 CAATCATTTTGGAGTTAAATTATATATATTTGTACGAGTATATTAGCTAAAAATTGAGGAAATAT
* * *
2566 TTTTCGGGTCATTTTTTGCAAAATTTTAGCCGAAATTGTGTAACAACTATCACGATTTTTTGCTA
575 CTTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGT-ACAAC-ATCACGATTTTTTGCTA
* * *
2631 AAATCGCGTTCCGGGGCCCCGACTT
638 AAAACACGTTCCGGGGCCCCGACTC
*
2656 GGTTCTGCATGATTTTCGGCGTCG
1 AGTTCTGCATGATTTTCGGCGTCG
2680 CAACTCCATG
Statistics
Matches: 1751, Mismatches: 223, Indels: 79
0.85 0.11 0.04
Matches are distributed among these distances:
658 1 0.00
659 392 0.22
660 54 0.03
661 61 0.03
662 57 0.03
663 319 0.18
664 31 0.02
665 634 0.36
666 132 0.08
667 11 0.01
668 59 0.03
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (662 bp):
AGTTCTGCATGATTTTCGGCGTCGAGACTCCTTCAAATATCCATATTCATCTAATCAAATCTCAG
CCACATTGCATTTAAGGATTTATTTTTACGAGCATCTAAATCTTGTTTCAATTTAATTAGAAATT
AATTCGGAAAAAGTAGGAAAAACGATATTAGAAGCGTAAAAAACCCTTCAATATTTTTGGCGTTG
AATTATATATATCTTACGAGTATTTCAGCTAAAAATTAAGGAAATATCTTTCGGGTCAATTTTTG
CAAAATTTTAGCCGAAATCGTGTACTAACCATCACGATTTTTTGCTAAAAACCTTTCCGGGGCCC
CGGCTCAGTTCTGCATGATTTTCAGCGTCGAGACTCCTTCAAATATCCATATTCATCTAATCAAA
TCTCAGCCACATTGCATTTAAGAATTTGTTTTTACGAGCATCTAAATCTTGTTTCAATTTAATTA
GAAATTAATTCGGAAAAAGTATGAAAAACGATATGAAAAGCGTAAAAAACCCTCCAATCATTTTG
GAGTTAAATTATATATATTTGTACGAGTATATTAGCTAAAAATTGAGGAAATATCTTTCGGGTCA
ATTTTTGCAAAATTTTAGCCGAAATCGTGTACAACATCACGATTTTTTGCTAAAAACACGTTCCG
GGGCCCCGACTC
Found at i:3436 original size:333 final size:334
Alignment explanation
Indices: 2853--3463 Score: 775
Period size: 333 Copynumber: 1.8 Consensus size: 334
2843 GCTCTGGGTC
** * *
2853 AGTTTCGCATGATTTTTTACGCCATGACTCCTTGAAATATCTATATTCATCTAATCGAATCTCAG
1 AGTTTCGCATGATTTTTTACGCCAAAACTCCTTGAAATATCCATATTCATCTAATCAAATCTCAG
* * ** * *
2918 CCACATTGAATTTAAAGATTTTTTTTTACGAACATCTAAATCTTGTTTCGATTTTGTTGGAACTT
66 CCACATTGAATTTAAAGATTTGTTTTTACGAACATCTAAATCTTATTTCGATTTAATTAGAAATT
* * * * * *
2983 AATTCGGAAAAAAGTAGAAAAATGATATTAGAAGCGTAAAAAACCTTTCAATATTTTTGACGTTG
131 AATTCAGAAAAAAGTAGAAAAACGATATTAAAAGCGTAAAAAACCTTCCAATATTTTTGACATTA
* * **
3048 AATTATATATACCTGTATGAGTATTTTAGCCAAAAATTGAGGAAAAATCTTTCGGGTCA-ATTTT
196 AATTATATATACATGTATGAGTATTTTAGACAAAAATTGAGGAAAAAAATTTCGGGTCATATTTT
*
3112 TGCAAAATTTTAGTCGAAATCGTGCAATAATCATCACGATTTTTGGCTAAAAATGGGTTCCGTGG
261 TGCAAAATTTTAGCCGAAATCGTGCAATAATCATCACGATTTTTGGCTAAAAATGGGTTCCGTGG
3177 CCCCGGCTA
326 CCCCGGCTA
* * * * * *
3186 AGTTTTGCATGATTTTTTGCTCCAAAACTCTTTGAGATATCCATATTTATCTAATCAAATCTCAG
1 AGTTTCGCATGATTTTTTACGCCAAAACTCCTTGAAATATCCATATTCATCTAATCAAATCTCAG
* * * *
3251 CTACATTGGATTT-AAGAATTTGTTTTTACGAGCATCTGAATCTTATTTCGATTTAATTAGAAAT
66 CCACATTGAATTTAAAG-ATTTGTTTTTACGAACATCTAAATCTTATTTCGATTTAATTAGAAAT
* * ** * *
3315 TAATTCAGAAAATA-T-TAAAAACGATATTAAAAGCGTGAAAAGTCC-TCCAATCTTTTTGGCAT
130 TAATTCAGAAAAAAGTAGAAAAACGATATTAAAAGCGT-AAAAAACCTTCCAATATTTTTGACAT
* *
3377 TAAATGATATATATATAT-TATGTGTATTTTAGACAAAAATTGAGGAAAAAAAATTTCGGGTCAT
194 TAAAT--TATATATACATGTATGAGTATTTTAGACAAAAATTGAGG-AAAAAAATTTCGGGTCAT
*
3441 TTTTTTGCAAAATTTTAGCCGAA
256 ATTTTTGCAAAATTTTAGCCGAA
3464 TAAAAAAGTG
Statistics
Matches: 232, Mismatches: 40, Indels: 11
0.82 0.14 0.04
Matches are distributed among these distances:
331 35 0.15
332 35 0.15
333 141 0.61
334 21 0.09
ACGTcount: A:0.34, C:0.14, G:0.15, T:0.37
Consensus pattern (334 bp):
AGTTTCGCATGATTTTTTACGCCAAAACTCCTTGAAATATCCATATTCATCTAATCAAATCTCAG
CCACATTGAATTTAAAGATTTGTTTTTACGAACATCTAAATCTTATTTCGATTTAATTAGAAATT
AATTCAGAAAAAAGTAGAAAAACGATATTAAAAGCGTAAAAAACCTTCCAATATTTTTGACATTA
AATTATATATACATGTATGAGTATTTTAGACAAAAATTGAGGAAAAAAATTTCGGGTCATATTTT
TGCAAAATTTTAGCCGAAATCGTGCAATAATCATCACGATTTTTGGCTAAAAATGGGTTCCGTGG
CCCCGGCTA
Found at i:4898 original size:330 final size:329
Alignment explanation
Indices: 3484--4971 Score: 1477
Period size: 330 Copynumber: 4.5 Consensus size: 329
3474 TTTCGAGGCT
* * * ** *
3484 CCGGCTTAGTTTTGCATGATTTTTAGCTCTGATACTCCTTGAAATATCTATATTCATCTAATCAA
1 CCGGCTCAGTTTTGCATGATTTTTGGCGCCAAGACTCCTTGAAATATCTATATTCATCTAATCAA
* ** * * * *
3549 ATCTCAACCACATTAAATTTAAGGAATTATTTTTACGAGCATCTGAATCTTGTTTCAATTTAGTT
66 ATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATT
* * * ** * *
3614 AGAAAGTAATTCAG--AAAATATGAAAGACGATATTTA-AAGCGTGAACGGTCCTCCAATCTTTT
131 AGAAATTAATTCAGAAAAAATAGGAAAAACGATA-TTAGAA--GTGAAAAGCCCTTCAATCTTTT
*
3676 TGGTGTTGAATTATATATACATTTTATGAGTATTGTGGCTAAAAATTGATGAAAAATATTTCGGG
193 TGATGTTGAATTATATATA-ATTTTATGAGTATTGTGGCTAAAAATTGA-GAAAAATATTTCGGG
* * * * * *
3741 TCAATTTTTCCAAAATTTTAGCCGAAATCGT-TTACT-ATCACGGTTTTTTGGCTAGAAACGCAT
256 TCAATTTTTGCAAAATTTTAGCCGAAATCGTGCTAATCATCACGATTTTTTGGCTAAAAACGCGT
3804 TCCGGGGCC
321 TCCGGGGCC
* * * * * * *
3813 CCGGGTCAGTTTTGCATGATTTTTTGTGGCAAAATTCCTTGAAATATCTATATTCATC-AAACAA
1 CCGGCTCAGTTTTGCATGATTTTTGGCGCCAAGACTCCTTGAAATATCTATATTCATCTAATCAA
* *
3877 A-CTTAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCAT-TCGAATCATGTTTCGATTTAAT
66 ATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCT-GAATCTTGTTTCGATTTAAT
* *
3940 TAGAAATTAATT-TGAAAAAATAGGAAAAACGATATTAGAAGCGTGAGAAGCCCTTCAATCTTTT
130 TAGAAATTAATTCAGAAAAAATAGGAAAAACGATATTAGAA--GTGAAAAGCCCTTCAATCTTTT
* *
4004 TGGA-GTTGAATTATATAT-ATTTTATGAGTATTGTGGCTAAAAATTGAGAAAATTATTTCGGCT
193 T-GATGTTGAATTATATATAATTTTATGAGTATTGTGGCTAAAAATTGAGAAAAATATTTCGGGT
* *
4067 CAATTTTTGC---A----AGCTGAAATCGTG-T-ATCATCACAATTTTTTGGCTAAAAACGCGTT
257 CAATTTTTGCAAAATTTTAGCCGAAATCGTGCTAATCATCACGATTTTTTGGCTAAAAACGCGTT
*
4123 TCGGGGCCC
322 CCGGGG-CC
* * * * * *
4132 CCGGGTCAATTTTGCATGACTTTTTGGCGTCAAGACTCCTTAAAATATATGTATATTCATCTAAC
1 CCGGCTCAGTTTTGCATGA-TTTTTGGCGCCAAGACTCCTT-GAA-ATATCTATATTCATCTAAT
* * ** * * *
4197 CAAATCTCAGTCACATTGTACATAAGGATTTGTTTTTACGAGTATCTAAATCTTGTTTTGATTTA
63 CAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTA
* * ** * * * * *
4262 ATGATAAATTAATTTGGAAATAAAATAGGAAAAACGGTATTAGAAGTGTGAAAAAGGCTTTGATT
128 ATTAGAAATTAATTCAG-AA-AAAATAGGAAAAACGATATTAGAA--GTG-AAAAGCCCTTCA-A
* ** * * * * * *
4327 TTTTTTTTTTTTTAGCATTGAATTATATATTTTTATGAGTATTTTCGCTAGAAATTGAGGAAAAA
187 TCTTTTTGATGTT-GAATT--A-TATATAATTTTATGAGTATTGTGGCTAAAAATTGA-GAAAAA
* * * * *
4392 TCTTTTGGGTCAATTTTTGCAAAATTTTAGCCGAAAACGTGTACTAATCATCAC-AATTTTCGGC
247 TATTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTG--CTAATCATCACGATTTTTTGGC
*
4456 TAAAAACGCGTTCCGGTG-C
310 TAAAAACGCGTTCCGGGGCC
* * * * *
4475 CTGGCTCAGTTTTGCATGATTGTTGGTGCCAAGAATCCTTGAAATATCTATATTAATCTAATC-A
1 CCGGCTCAGTTTTGCATGATTTTTGGCGCCAAGACTCCTTGAAATATCTATATTCATCTAATCAA
4539 ATACTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAAT
66 AT-CTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAAT
* *
4604 TAGAAATTAATTCAGAAAAAATAGGAAAAACAATATTAG-A-TTAAAAGCCCTTCAATCTTTTTG
130 TAGAAATTAATTCAGAAAAAATAGGAAAAACGATATTAGAAGTGAAAAGCCCTTCAATCTTTTTG
* * * * * * *
4667 ATGTCGAGTTATATAT-TTTTTATGAGTATTTTAGCTAAAAAATTGACGAAATATCTTTCGGGTC
195 ATGTTGAATTATATATAATTTTATGAGTATTGTGGCT-AAAAATTGA-GAAAAATATTTCGGGTC
* * *
4731 AAGTTTTGTAAAATTTTAACCGAAATCGTGAACTAATCATCACGATTTTTTGGCTAAAAACGCGT
258 AATTTTTGCAAAATTTTAGCCGAAATCGTG--CTAATCATCACGATTTTTTGGCTAAAAACGCGT
**
4796 TCCATGGCC
321 TCCGGGGCC
* * * * * * *
4805 ACGGCTCTGTTTTACATGATTTTTGGCGCCGAGACTCCCTAAAATATCTTTATTCATCTAATCAA
1 CCGGCTCAGTTTTGCATGATTTTTGGCGCCAAGACTCCTTGAAATATCTATATTCATCTAATCAA
*
4870 ATCTC-GACCACATTGGATTTAAGGATTTGTTTTTAC-ATGCA-CGTGAATCTTGTTTTGATTTA
66 ATCTCAG-CCACATTGGATTTAAGGATTTGTTTTTACGA-GCATC-TGAATCTTGTTTCGATTTA
* * *
4932 ATTAGAAATTAGTTCAGAAAAATTATGAAAAACGATATTA
128 ATTAGAAATTAATTCAGAAAAAATAGGAAAAACGATATTA
4972 AAAGCATGAA
Statistics
Matches: 959, Mismatches: 155, Indels: 89
0.80 0.13 0.07
Matches are distributed among these distances:
317 1 0.00
318 41 0.04
319 20 0.02
320 16 0.02
321 2 0.00
322 15 0.02
323 6 0.01
324 61 0.06
325 25 0.03
326 33 0.03
327 111 0.12
328 132 0.14
329 84 0.09
330 145 0.15
331 6 0.01
332 9 0.01
333 14 0.01
334 26 0.03
335 22 0.02
337 1 0.00
338 21 0.02
339 5 0.01
340 83 0.09
341 2 0.00
342 28 0.03
343 17 0.02
345 25 0.03
346 8 0.01
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.37
Consensus pattern (329 bp):
CCGGCTCAGTTTTGCATGATTTTTGGCGCCAAGACTCCTTGAAATATCTATATTCATCTAATCAA
ATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATT
AGAAATTAATTCAGAAAAAATAGGAAAAACGATATTAGAAGTGAAAAGCCCTTCAATCTTTTTGA
TGTTGAATTATATATAATTTTATGAGTATTGTGGCTAAAAATTGAGAAAAATATTTCGGGTCAAT
TTTTGCAAAATTTTAGCCGAAATCGTGCTAATCATCACGATTTTTTGGCTAAAAACGCGTTCCGG
GGCC
Found at i:5540 original size:24 final size:24
Alignment explanation
Indices: 5508--5553 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
5498 ATAATTATAA
*
5508 TTTTATAGAAGTATTAGTTCTTTT
1 TTTTATAGAAGTATTAATTCTTTT
*
5532 TTTTTTAGAAGTATTAATTCTT
1 TTTTATAGAAGTATTAATTCTT
5554 GAATGCCTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.26, C:0.04, G:0.11, T:0.59
Consensus pattern (24 bp):
TTTTATAGAAGTATTAATTCTTTT
Found at i:7508 original size:2 final size:2
Alignment explanation
Indices: 7501--7530 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
7491 TTAAAATGAA
*
7501 AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7531 GCCAAAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8075 original size:2 final size:2
Alignment explanation
Indices: 8068--8096 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
8058 CACCTGCATG
8068 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
8097 TTCAGAACAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:15034 original size:21 final size:20
Alignment explanation
Indices: 14996--15034 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
14986 CTGCAAGACA
*
14996 TGAATGATGAAAGTGAAATG
1 TGAATGATGAAAGAGAAATG
*
15016 TGAATGAATGAGAGAGAAA
1 TGAATG-ATGAAAGAGAAA
15035 GGCGAAGGCA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 6 0.38
21 10 0.62
ACGTcount: A:0.49, C:0.00, G:0.31, T:0.21
Consensus pattern (20 bp):
TGAATGATGAAAGAGAAATG
Found at i:27542 original size:20 final size:20
Alignment explanation
Indices: 27517--27558 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
27507 TTGGCCTTTG
27517 GGCTTAAATTATATATGAAA
1 GGCTTAAATTATATATGAAA
27537 GGCTTAAATTATATATGAAA
1 GGCTTAAATTATATATGAAA
27557 GG
1 GG
27559 TTTCGCATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.43, C:0.05, G:0.19, T:0.33
Consensus pattern (20 bp):
GGCTTAAATTATATATGAAA
Found at i:34357 original size:53 final size:52
Alignment explanation
Indices: 34278--34381 Score: 172
Period size: 53 Copynumber: 2.0 Consensus size: 52
34268 GGTGATCTTT
*
34278 GATCACCCGTGGTGATCTTGGGTGGTGATCTCAGATCACCCCGTTTGGTTAG
1 GATCACCCGTGGTGATCTTAGGTGGTGATCTCAGATCACCCCGTTTGGTTAG
* *
34330 GATCACCTGTTGGTGATCTTAGGTGGTGATCTCATATCACCCCGTTTGGTTA
1 GATCACCCG-TGGTGATCTTAGGTGGTGATCTCAGATCACCCCGTTTGGTTA
34382 CACCTTTTTT
Statistics
Matches: 48, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
52 8 0.17
53 40 0.83
ACGTcount: A:0.16, C:0.22, G:0.28, T:0.34
Consensus pattern (52 bp):
GATCACCCGTGGTGATCTTAGGTGGTGATCTCAGATCACCCCGTTTGGTTAG
Found at i:43157 original size:35 final size:35
Alignment explanation
Indices: 43118--43185 Score: 127
Period size: 35 Copynumber: 1.9 Consensus size: 35
43108 ATGTAAAAAG
*
43118 AAAAAACGATATATATTTTAATAATATTTTGAGAT
1 AAAAAACGATATATAGTTTAATAATATTTTGAGAT
43153 AAAAAACGATATATAGTTTAATAATATTTTGAG
1 AAAAAACGATATATAGTTTAATAATATTTTGAG
43186 TTATTGGAGA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.49, C:0.03, G:0.10, T:0.38
Consensus pattern (35 bp):
AAAAAACGATATATAGTTTAATAATATTTTGAGAT
Found at i:44485 original size:20 final size:21
Alignment explanation
Indices: 44442--44494 Score: 56
Period size: 20 Copynumber: 2.5 Consensus size: 21
44432 TTTTAATTGG
*
44442 TTATCTTCTCTTCGTCTCTTTTT
1 TTATCTTCT-TTC-TCTCTCTTT
44465 TTATCTTCTTT-TCTCTCTTT
1 TTATCTTCTTTCTCTCTCTTT
44485 TCT-TCTTCTT
1 T-TATCTTCTT
44495 CTAATCTGAT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
20 16 0.57
21 1 0.04
22 2 0.07
23 9 0.32
ACGTcount: A:0.04, C:0.26, G:0.02, T:0.68
Consensus pattern (21 bp):
TTATCTTCTTTCTCTCTCTTT
Found at i:44495 original size:23 final size:23
Alignment explanation
Indices: 44442--44485 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
44432 TTTTAATTGG
44442 TTATCTTCTCTTCGTCTCTTTTT
1 TTATCTTCTCTTCGTCTCTTTTT
*
44465 TTATCTTCTTTTC-TCTCTTTT
1 TTATCTTCTCTTCGTCTCTTTT
44486 CTTCTTCTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.05, C:0.25, G:0.02, T:0.68
Consensus pattern (23 bp):
TTATCTTCTCTTCGTCTCTTTTT
Found at i:76044 original size:7 final size:7
Alignment explanation
Indices: 76032--76057 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
76022 GTAAGTATAG
76032 TTAGAAC
1 TTAGAAC
76039 TTAGAAC
1 TTAGAAC
76046 TTAGAAC
1 TTAGAAC
76053 TTAGA
1 TTAGA
76058 TGTAACATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.31
Consensus pattern (7 bp):
TTAGAAC
Found at i:76350 original size:29 final size:28
Alignment explanation
Indices: 76302--76378 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 28
76292 CGTTAGTCTG
* * *
76302 AGGGGGAAAATGTCAAAAAATTGAAGTTT
1 AGGGGGAAAATGTC-CAAAATTGAAATTC
*
76331 AGGGGGTAAAATGTCCAAAATTTAAATTC
1 AGGGGG-AAAATGTCCAAAATTGAAATTC
*
76360 AGGGGGCAAAATATCCAAA
1 AGGGGG-AAAATGTCCAAA
76379 CGCTACAAGT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
29 33 0.80
30 8 0.20
ACGTcount: A:0.44, C:0.09, G:0.25, T:0.22
Consensus pattern (28 bp):
AGGGGGAAAATGTCCAAAATTGAAATTC
Found at i:85259 original size:11 final size:11
Alignment explanation
Indices: 85245--85274 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
85235 AATCAAAGTC
85245 TAATTAAGACT
1 TAATTAAGACT
*
85256 TAATTAAGTCT
1 TAATTAAGACT
85267 TAATTAAG
1 TAATTAAG
85275 CTGAGACAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.43, C:0.07, G:0.10, T:0.40
Consensus pattern (11 bp):
TAATTAAGACT
Done.