Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01014301.1 Corchorus olitorius cultivar O-4 contig14334, 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: 76210
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:989 original size:333 final size:333
Alignment explanation
Indices: 337--3858 Score: 4746
Period size: 332 Copynumber: 10.6 Consensus size: 333
327 GTACTCATCA
*
337 CAGTTTTGCATGATTTTTGGAGCCGAGACTCCTTGAAATATCTATATTCATCTAATCAACTCTTA
1 CAGTTTTGCATGATTTTTGGAGCCGAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTTA
* * * * *
402 GCTACATTGGATTTAA-GATTATTTTTTTACGAGCATATGAATCTTTTTTCAATCTAATCAAAAA
66 GCCACATTGGATTTAAGGA-TATGTTTTTACGAGCATATGAATCTTGTTTCGATTTAATCAAAAA
* * * * * * * *
466 TTAATTT-GAAAAAAAAAGAGAAACGATATTAGAAGAGTGAAGAA-TCCTTCAATCTTTTT-AAT
130 TTAATTTGGAAAAAATAGGAAAAACGATATTAGAAGCGTGAA-AAGCCCTGCAATGTTTTTGGA-
* * * ** * *
528 GTTGAATTATATATTTTTTATGAGTATTGTGGCCAAAAATTGGCAAAAAAAAATTTCGGGTCAGT
193 GTTGAATTATATATTTTTTATGGGTATTGTGGCCAAAAATTGACGAAAAAATTTTTCGGATCAAT
* ** *
593 TTTTGCAAA-ATATGAACTAAAATCGTGTACTAACCATCACAGTGTTCTGCTAAAAACGCGTTCC
258 TTTTG-AAAGATTTGAACCGAAATCGTGTACTAACCATCACAGTTTTCTGCTAAAAACGCGTTCC
*
657 GGGGCCCTGGCT
322 GGGGCCCCGGCT
* ** *
669 CAGTTTTGCATAATTGATGGAGCCGAGACTCCTTGAAATATCTATATTCATCTAATTAAATCTTA
1 CAGTTTTGCATGATTTTTGGAGCCGAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTTA
* * * *
734 GCAACATTGGATTTAAGGATATATTTTTACAAGCATCTGAATCTTGTTTCGATTTAAT-AAAAAT
66 GCCACATTGGATTTAAGGATATGTTTTTACGAGCATATGAATCTTGTTTCGATTTAATCAAAAAT
* *
798 TAATTTGGAAATAAATTGGAAAAACGATATAAGAAGCGTGAAAAGCCCTGCAATGTTTTTGGAGT
131 TAATTTGGAAA-AAATAGGAAAAACGATATTAGAAGCGTGAAAAGCCCTGCAATGTTTTTGGAGT
*
863 TGAATTATATATTTTTTATGGGTATTGTGGCCAAAAATTGACGAAAAATTTTTTCGGATCAATTT
195 TGAATTATATATTTTTTATGGGTATTGTGGCCAAAAATTGACGAAAAAATTTTTCGGATCAATTT
* * *
928 TTGAAAGATTTGAACCGAAATCTTATACTAACCATCACAGTTTTCTGCTAAAAACGCGTTCCGAG
260 TTGAAAGATTTGAACCGAAATCGTGTACTAACCATCACAGTTTTCTGCTAAAAACGCGTTCCGGG
* *
993 GCCCTGGGT
325 GCCCCGGCT
* *
1002 CAGTTTTGCATGATTTTTGGAGCCGAGACTCCTTGAAATATCTATATTCATCTAATAAAATCTCA
1 CAGTTTTGCATGATTTTTGGAGCCGAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTTA
* *
1067 GCCACATTGGATTTAAGAATATGTTTTTACGAGCATATGAATCTTGTTTCAATTTAATCAAAAAT
66 GCCACATTGGATTTAAGGATATGTTTTTACGAGCATATGAATCTTGTTTCGATTTAATCAAAAAT
* * * * * * * * *
1132 TAATTTGAAAAAAAAAAAAGAGAAACGATATTAGAAGAGTGAGGAA-CCCTTCAATCTTTTT-AA
131 TAATTTG--GAAAAAATAGGAAAAACGATATTAGAAGCGTGA-AAAGCCCTGCAATGTTTTTGGA
* * * ** * *
1195 TGTTGAATTATATATTTTTTATGAGTATTGTGGCCAAAAATTGGCAAAAAAAAAATTTCGGGT-T
193 -GTTGAATTATATATTTTTTATGGGTATTGTGGCCAAAAATTGAC-GAAAAAATTTTTCGGATCA
* * * * *
1259 AGTTTTGCAAA-ATTTGAACTGAAATCGTGTACTAACCATCATAGTTTTTTGCTAAAGACGCGTT
256 ATTTTTG-AAAGATTTGAACCGAAATCGTGTACTAACCATCACAGTTTTCTGCTAAAAACGCGTT
* * *
1323 CCCGGGTCTCGGCT
320 CCGGGGCCCCGGCT
* * * *
1337 TAGTTTTGCATGATTTTTGGCGCCGAGACCCCTTGAAATATCTATATTCATCTAATTAAATCTTA
1 CAGTTTTGCATGATTTTTGGAGCCGAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTTA
* *
1402 GCCACATTGGATTTAAGGATATGTTTTTACAAGCATCT-AGATCTTGTTTCGATTTAAT-AAAAA
66 GCCACATTGGATTTAAGGATATGTTTTTACGAGCATATGA-ATCTTGTTTCGATTTAATCAAAAA
* * * *
1465 TTAATTTTTGAAAAAATTGGAAAAACGATATAAGAAGCGTGAAAAGCCCTTCAATGTTTTTGGAG
130 TTAA-TTTGGAAAAAATAGGAAAAACGATATTAGAAGCGTGAAAAGCCCTGCAATGTTTTTGGAG
* * * * **
1530 TTGAATTATATGTTTTTTATGGGTATCGTGACCAAAAATTGACGAAAAATTTTTTTTGATCAATT
194 TTGAATTATATATTTTTTATGGGTATTGTGGCCAAAAATTGACGAAAAAATTTTTCGGATCAATT
* * * *
1595 TTTGAAAAATTTGAACCGAAATCGTGTACTAACCATCACAGTGTTCTGCTAAAAACGGGTTACGG
259 TTTGAAAGATTTGAACCGAAATCGTGTACTAACCATCACAGTTTTCTGCTAAAAACGCGTTCCGG
*
1660 GGCCCCGACT
324 GGCCCCGGCT
* * *
1670 AAGTTTTGCATCATTTTTGGAACCGAGACT-C--GAAATATCTATATTCATCTAATCAAATCTTA
1 CAGTTTTGCATGATTTTTGGAGCCGAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTTA
* * * *
1732 GCCACATTAGATTTAAGGATATGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAGTGAAAAAT
66 GCCACATTGGATTTAAGGATATGTTTTTACGAGCATATGAATCTTGTTTCGATTTAATCAAAAAT
* * *
1797 TAGTTTGG-AAAAATAGTAAAAACAATATTAGAAGCGTG-AAAGCCCTGCAATGTTTTTGGAGTT
131 TAATTTGGAAAAAATAGGAAAAACGATATTAGAAGCGTGAAAAGCCCTGCAATGTTTTTGGAGTT
* * *
1860 GAA-T-TATATTTTTTAAGGGTATTGTTGCCAAAAATTGACGAAAAATTTTTTCGGATCAATTTT
196 GAATTATATATTTTTTATGGGTATTGTGGCCAAAAATTGACGAAAAAATTTTTCGGATCAATTTT
*
1923 TGAAAGATTTGAACCGAAATCGTGTACTAACCATCACAGTTTTCTGCTAAAAACGCGTTCCGGGT
261 TGAAAGATTTGAACCGAAATCGTGTACTAACCATCACAGTTTTCTGCTAAAAACGCGTTCCGGGG
*
1988 CTCCGGCT
326 CCCCGGCT
* *
1996 CAGATTTGCATGATTTTTGGAACCGAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTTA
1 CAGTTTTGCATGATTTTTGGAGCCGAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTTA
* * * *
2061 GGCACATTAGATTTAAGGATATGTTTTTACGAGCATATGAATCTTATTTCGATTTAATCTAAAAT
66 GCCACATTGGATTTAAGGATATGTTTTTACGAGCATATGAATCTTGTTTCGATTTAATCAAAAAT
*
2126 TAATTTGGAAAAAAATATGAAAAACGATATTAGAAGCGTGAAAAGCCCTGCAATGTTTTTGGAGT
131 TAATTTGG-AAAAAATAGGAAAAACGATATTAGAAGCGTGAAAAGCCCTGCAATGTTTTTGGAGT
* * * *
2191 TGAATTATATATTTTTTATAGGTATTGTGGCCTAAAATTGATGAAAAAAATTTT-GGATCAATTT
195 TGAATTATATATTTTTTATGGGTATTGTGGCCAAAAATTGACGAAAAAATTTTTCGGATCAATTT
* * * *
2255 TTGAAAAATTTGAACCGAAATCGTGTACTAACCATCACAATTTTCTACTAAAAAACGCGTTCCAG
260 TTGAAAGATTTGAACCGAAATCGTGTACTAACCATCACAGTTTTCTGCT-AAAAACGCGTTCCGG
2320 GGCCCCGGCT
324 GGCCCCGGCT
* *
2330 CAGTTCTGCATGATTTTTGGAACCGAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTTA
1 CAGTTTTGCATGATTTTTGGAGCCGAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTTA
** *
2395 GCCACATAAGATTTAAGGATATGTTTTTACGAGCA-ACTGAATCTTATTTCGATTTAATCAAAAA
66 GCCACATTGGATTTAAGGATATGTTTTTACGAGCATA-TGAATCTTGTTTCGATTTAATCAAAAA
* * * *
2459 TTAATTTGGAAAAAAAATAGGAAAAACAATATTGGAAGCGTTAAAAGTCCTGCAATGTTTTTGGA
130 TTAATTTGG--AAAAAATAGGAAAAACGATATTAGAAGCGTGAAAAGCCCTGCAATGTTTTTGGA
* *
2524 GTTGAATTATATA-TTTTTATGGGTATTGTGGCC-TAAATTGACG--AAAACTTTTCGGATCAAT
193 GTTGAATTATATATTTTTTATGGGTATTGTGGCCAAAAATTGACGAAAAAATTTTTCGGATCAAT
*
2585 TTTTGAAAGATTTGAACCGAAATCGTGTAGTAACCATCACAGTTTTCTGCTAAAAACGCGTTCC-
258 TTTTGAAAGATTTGAACCGAAATCGTGTACTAACCATCACAGTTTTCTGCTAAAAACGCGTTCCG
2649 GGGCCTCCGGCT
323 GGGCC-CCGGCT
*
2661 CAGTTTTGCATGATTTTTGGAGCCGAGACTCCTTGAAATATCTATATTCATCTAATCAACTCTTA
1 CAGTTTTGCATGATTTTTGGAGCCGAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTTA
* *
2726 GCCACATTGGATTTAA-GATTATGTTTTTACGAGCATATGAATCTTTTTTCAATTTAATCAAAAA
66 GCCACATTGGATTTAAGGA-TATGTTTTTACGAGCATATGAATCTTGTTTCGATTTAATCAAAAA
* * * * * * * *
2790 TTAATTT-GAAAAAAAAAGAGAAACGATATTAGAAGAGTGAAGAA-TCCTTCAAT-CTTTT-AAT
130 TTAATTTGGAAAAAATAGGAAAAACGATATTAGAAGCGTGAA-AAGCCCTGCAATGTTTTTGGA-
** * * * * *** *
2851 GTTGAATTATATATTTTTTATAAGTGTTCTGGCCAAAAATTGGCAAAAAAAAAATTCGGGTCAAT
193 GTTGAATTATATATTTTTTATGGGTATTGTGGCCAAAAATTGACGAAAAAATTTTTCGGATCAAT
* * *
2916 TTTTGCAAA-ATCTGTACCGAAATCGTGTACTAACCATCACAGTTTTCTGCTAAAAAACGCGTTA
258 TTTTG-AAAGATTTGAACCGAAATCGTGTACTAACCATCACAGTTTTCTGCT-AAAAACGCGTTC
*
2980 CGGGGCCCCGACT
321 CGGGGCCCCGGCT
*
2993 CAGTTTTGCATGATTTTTGGAACCGAGACT-C--GAAATATCTATATTCATCTAATCAAATCTTA
1 CAGTTTTGCATGATTTTTGGAGCCGAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTTA
* * * *
3055 GCCACATTAGATTTAAGGATATGTTTTTACGAGCATCTGAATCTTTTTTCGATTTAATGAAAAAT
66 GCCACATTGGATTTAAGGATATGTTTTTACGAGCATATGAATCTTGTTTCGATTTAATCAAAAAT
*
3120 TAGTTTGGAAAAAAT-GGAAAAAAACGATATTAGAAGCGTGAAAAGCCCTGCAATGTTTTTGGAG
131 TAATTTGGAAAAAATAGG--AAAAACGATATTAGAAGCGTGAAAAGCCCTGCAATGTTTTTGGAG
* * *
3184 TTGAATTATATATTTTTTATGAGTATTGTGGCCAAAAATTGATGAAAAATTTTTTCGGATCAATT
194 TTGAATTATATATTTTTTATGGGTATTGTGGCCAAAAATTGACGAAAAAATTTTTCGGATCAATT
* * * *
3249 TTTGAAAGATTTGAACCGAAATCTTATACTAACCATCACAGTTTTCTGCTAAAAACTCGTTCCGA
259 TTTGAAAGATTTGAACCGAAATCGTGTACTAACCATCACAGTTTTCTGCTAAAAACGCGTTCCGG
* *
3314 GGCCCTGGGT
324 GGCCCCGGCT
* * *
3324 CAGTTTTGCATGATTTTTGGAGCCGAGACTCCTTGAAATATCTATATCCATCTAATAAAATATTA
1 CAGTTTTGCATGATTTTTGGAGCCGAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTTA
*
3389 GCCACATTGGATTT-AGGAATATGTTTTTACGAGCATATGAATCTTGTTTCAATTTAATCAAAAA
66 GCCACATTGGATTTAAGG-ATATGTTTTTACGAGCATATGAATCTTGTTTCGATTTAATCAAAAA
* * * *
3453 TTAATTTGAAAAAAAATAGGAAAAACAATATTAGAAGCGTTAAAAGTCCTGCAATGTTTTTGGAG
130 TTAATTTG-GAAAAAATAGGAAAAACGATATTAGAAGCGTGAAAAGCCCTGCAATGTTTTTGGAG
* *
3518 TTGAA-TA-ATATTTTTTATGGGTATTGTGGCCTAAAATTGACGAAAAACTTTTTCGGATCAATT
194 TTGAATTATATATTTTTTATGGGTATTGTGGCCAAAAATTGACGAAAAAATTTTTCGGATCAATT
* *
3581 TTTTAAAGATTTGAACCGAAATCGTGTACTAACCATCACAATTTTCTGCTAAAAACGCGTTCCGG
259 TTTGAAAGATTTGAACCGAAATCGTGTACTAACCATCACAGTTTTCTGCTAAAAACGCGTTCCGG
3646 GGCCCCGGCT
324 GGCCCCGGCT
* *
3656 CAGTTTTGCATGATTTTTGGAGCCGAGACTCCTTGAAATATCAATATTCATCTAATCAAATCTCA
1 CAGTTTTGCATGATTTTTGGAGCCGAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTTA
* * * * *
3721 GCCACATTGGATTTAAGAATATGCTCTTACGAGCATTTGAATCTTGGTTCGATTTAATCAAAAAT
66 GCCACATTGGATTTAAGGATATGTTTTTACGAGCATATGAATCTTGTTTCGATTTAATCAAAAAT
* * *
3786 TAATTTGGAAAAAAATAGGAAAAACGATATTAGAAGCATGAAAAAACCCTTCAATGTTTTTGGAG
131 TAATTTGG-AAAAAATAGGAAAAACGATATTAGAAGCGTG-AAAAGCCCTGCAATGTTTTTGGAG
3851 TTGAATTA
194 TTGAATTA
3859 AATTTGACGA
Statistics
Matches: 2814, Mismatches: 313, Indels: 124
0.87 0.10 0.04
Matches are distributed among these distances:
326 146 0.05
327 19 0.01
328 77 0.03
329 226 0.08
330 106 0.04
331 337 0.12
332 638 0.23
333 542 0.19
334 377 0.13
335 324 0.12
336 22 0.01
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.35
Consensus pattern (333 bp):
CAGTTTTGCATGATTTTTGGAGCCGAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTTA
GCCACATTGGATTTAAGGATATGTTTTTACGAGCATATGAATCTTGTTTCGATTTAATCAAAAAT
TAATTTGGAAAAAATAGGAAAAACGATATTAGAAGCGTGAAAAGCCCTGCAATGTTTTTGGAGTT
GAATTATATATTTTTTATGGGTATTGTGGCCAAAAATTGACGAAAAAATTTTTCGGATCAATTTT
TGAAAGATTTGAACCGAAATCGTGTACTAACCATCACAGTTTTCTGCTAAAAACGCGTTCCGGGG
CCCCGGCT
Found at i:2821 original size:994 final size:995
Alignment explanation
Indices: 337--4083 Score: 4983
Period size: 994 Copynumber: 3.8 Consensus size: 995
327 GTACTCATCA
*
337 CAGTTTTGCATGATTTTTGGAGCCGAGACTCCTTGAAATATCTATATTCATCTAATCAACTCTTA
1 CAGTTTTGCATGATTTTTGGAGCCGAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTTA
* * * *
402 GCTACATTGGATTTAA-GATTATTTTTTTACGAGCATATGAATCTTTTTTCAATCTAATCAAAAA
66 GCCACATTGGATTTAAGGA-TATGTTTTTACGAGCATATGAATCTTGTTTCAATTTAATCAAAAA
* * * * * *
466 TTAATTTGAAAAAAAA-A-GAGAAACGATATTAGAAGAGTGAAGAA-TCCTTCAATCTTTTT-AA
130 TTAATTTGAAAAAAAATAGGAAAAACAATATTAGAAGCGTGAA-AAGTCCTGCAATGTTTTTGGA
* * * ** * *
527 TGTTGAATTATATATTTTTTATGAGTATTGTGGCCAAAAATTGGCAAAAAAAAATTTCGGGTCAG
194 -GTTGAATTATATA-TTTTTATGGGTATTGTGGCCAAAAATTGAC-GAAAAACTTTTCGGATCAA
* **
592 TTTTTGCAAA-ATATGAACTAAAATCGTGTACTAACCATCACAGTGTTCTGCTAAAAACGCGTTC
256 TTTTTG-AAAGATTTGAACCGAAATCGTGTACTAACCATCACAGTGTTCTGCTAAAAACGCGTTC
* * **
656 CGGGGCCCTGGCTCAGTTTTGCATAATTGATGGAGCCGAGACTCCTTGAAATATCTATATTCATC
320 CGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGAGCCGAGACTCCTTGAAATATCTATATTCATC
* * * *
721 TAATTAAATCTTAGCAACATTGGATTTAAGGATATATTTTTACAAGCATCTGAATCTTGTTTCGA
385 TAATCAAATCTTAGCCACATTGGATTTAAGGATATGTTTTTACGAGCATCTGAATCTTGTTTCGA
*** * *
786 TTTAAT-AAAAATTAATTTGGAAATAAATTGGAAAAACGATATAAGAAGCGTGAAAAGCCCTGCA
450 TTTAATCAAAAATTAATTTGGAAA-AAAAAAGAAAAACGATATTAGAAGCGTGAAAAACCCTGCA
*
850 ATGTTTTTGGAGTTGAATTATATATTTTTTATGGGTATTGTGGCCAAAAATTGACGAAAAATTTT
514 ATGTTTTTGGAGTTGAATTATATATTTTTTA-AGGTATTGTGGCCAAAAATTGACGAAAAATTTT
* *
915 TTCGGATCAATTTTTGAAAGATTTGAACCGAAATCTTATACTAACCATCACAGTTTTCTGCTAAA
578 TTCGGATCAATTTTTGAAAGATTTGAACCGAAATCGTGTACTAACCATCACAGTTTTCTGCTAAA
* * ** *
980 AACGCGTTCCGAGGCCCTGGGTCAGTTTTGCATGATTTTTGGAGCCGAGACTCCTTGAAATATCT
643 AACGCGTTCCGGGGCCCCGACTCAGTTTTGCATGATTTTTGGAACCGAGACTCCTTGAAATATCT
* * * *
1045 ATATTCATCTAATAAAATCTCAGCCACATTGGATTTAAGAATATGTTTTTACGAGCATATGAATC
708 ATATTCATCTAATCAAATCTTAGCCACATTAGATTTAAGGATATGTTTTTACGAGCATATGAATC
* * * * * *
1110 TTGTTTCAATTTAATCAAAAATTAATTTGAAAAAAAAAAAAGAGAAACGATATTAGAAGAGTGAG
773 TTATTTCGATTTAATCAAAAATTAATTTG--GAAAAAAATAGAAAAACGATATTAGAAGCGTGA-
* * * *
1175 GAA-CCCTTCAATCTTTTT-AATGTTGAATTATATATTTTTTATGAGTATTGTGGCCAAAAATTG
835 AAAGCCCTGCAATGTTTTTGGA-GTTGAATTATATATTTTTTATGAGTATTGTGGCCAAAAATT-
** * * * * * * *
1238 GCAAAAAAAAAATTTCGGGT-TAGTTTTGCAAAATTTGAACTGAAATCGTGTACTAACCATCATA
898 G-ATGAAAAAAATTTTGGATCAATTTTTGAAAAATTTGAACCGAAATCGTGTACTAACCATCACA
* * * *
1302 GTTTTTTGCTAAAGACGCGTTCCCGGGTCTCGGCT
962 GTTTTCTGCTAAAAACGCGTT-CCGGGCCCCGGCT
* * * *
1337 TAGTTTTGCATGATTTTTGGCGCCGAGACCCCTTGAAATATCTATATTCATCTAATTAAATCTTA
1 CAGTTTTGCATGATTTTTGGAGCCGAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTTA
* * *
1402 GCCACATTGGATTTAAGGATATGTTTTTACAAGCATCT-AGATCTTGTTTCGATTTAAT-AAAAA
66 GCCACATTGGATTTAAGGATATGTTTTTACGAGCATATGA-ATCTTGTTTCAATTTAATCAAAAA
*** * * * * *
1465 TTAATTTTTGAAAAAATTGGAAAAACGATATAAGAAGCGTGAAAAGCCCTTCAATGTTTTTGGAG
130 TTAATTTGAAAAAAAATAGGAAAAACAATATTAGAAGCGTGAAAAGTCCTGCAATGTTTTTGGAG
* * * * **
1530 TTGAATTATATGTTTTTTATGGGTATCGTGACCAAAAATTGACGAAAAATTTTTTTTGATCAATT
195 TTGAATTATAT-ATTTTTATGGGTATTGTGGCCAAAAATTGACGAAAAA-CTTTTCGGATCAATT
* * *
1595 TTTGAAAAATTTGAACCGAAATCGTGTACTAACCATCACAGTGTTCTGCTAAAAACGGGTTACGG
258 TTTGAAAGATTTGAACCGAAATCGTGTACTAACCATCACAGTGTTCTGCTAAAAACGCGTTCCGG
* * * *
1660 GGCCCCGACTAAGTTTTGCATCATTTTTGGAACCGAGACT-C--GAAATATCTATATTCATCTAA
323 GGCCCCGGCTCAGTTTTGCATGATTTTTGGAGCCGAGACTCCTTGAAATATCTATATTCATCTAA
*
1722 TCAAATCTTAGCCACATTAGATTTAAGGATATGTTTTTACGAGCATCTGAATCTTGTTTCGATTT
388 TCAAATCTTAGCCACATTGGATTTAAGGATATGTTTTTACGAGCATCTGAATCTTGTTTCGATTT
* * * * * *
1787 AGTGAAAAATTAGTTTGG--AAAAATAGTAAAAACAATATTAGAAGCGTG-AAAGCCCTGCAATG
453 AATCAAAAATTAATTTGGAAAAAAAAAG-AAAAACGATATTAGAAGCGTGAAAAACCCTGCAATG
*
1849 TTTTTGGAGTTGAA-T-TATATTTTTTAAGGGTATTGTTGCCAAAAATTGACGAAAAATTTTTTC
517 TTTTTGGAGTTGAATTATATATTTTTTAA-GGTATTGTGGCCAAAAATTGACGAAAAATTTTTTC
1912 GGATCAATTTTTGAAAGATTTGAACCGAAATCGTGTACTAACCATCACAGTTTTCTGCTAAAAAC
581 GGATCAATTTTTGAAAGATTTGAACCGAAATCGTGTACTAACCATCACAGTTTTCTGCTAAAAAC
* * * *
1977 GCGTTCCGGGTCTCCGGCTCAGATTTGCATGATTTTTGGAACCGAGACTCCTTGAAATATCTATA
646 GCGTTCCGGGGCCCCGACTCAGTTTTGCATGATTTTTGGAACCGAGACTCCTTGAAATATCTATA
*
2042 TTCATCTAATCAAATCTTAGGCACATTAGATTTAAGGATATGTTTTTACGAGCATATGAATCTTA
711 TTCATCTAATCAAATCTTAGCCACATTAGATTTAAGGATATGTTTTTACGAGCATATGAATCTTA
*
2107 TTTCGATTTAATCTAAAATTAATTTGGAAAAAAATATGAAAAACGATATTAGAAGCGTGAAAAGC
776 TTTCGATTTAATCAAAAATTAATTTGGAAAAAAATA-GAAAAACGATATTAGAAGCGTGAAAAGC
*
2172 CCTGCAATGTTTTTGGAGTTGAATTATATATTTTTTAT-AGGTATTGTGGCCTAAAATTGATGAA
840 CCTGCAATGTTTTTGGAGTTGAATTATATATTTTTTATGA-GTATTGTGGCCAAAAATTGATGAA
*
2236 AAAAATTTTGGATCAATTTTTGAAAAATTTGAACCGAAATCGTGTACTAACCATCACAATTTTCT
904 AAAAATTTTGGATCAATTTTTGAAAAATTTGAACCGAAATCGTGTACTAACCATCACAGTTTTCT
*
2301 ACTAAAAAACGCGTTCCAGGGCCCCGGCT
969 GCT-AAAAACGCGTTCC-GGGCCCCGGCT
* *
2330 CAGTTCTGCATGATTTTTGGAACCGAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTTA
1 CAGTTTTGCATGATTTTTGGAGCCGAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTTA
** * *
2395 GCCACATAAGATTTAAGGATATGTTTTTACGAGCA-ACTGAATCTTATTTCGATTTAATCAAAAA
66 GCCACATTGGATTTAAGGATATGTTTTTACGAGCATA-TGAATCTTGTTTCAATTTAATCAAAAA
* *
2459 TTAATTTGGAAAAAAAATAGGAAAAACAATATTGGAAGCGTTAAAAGTCCTGCAATGTTTTTGGA
130 TTAATTT-GAAAAAAAATAGGAAAAACAATATTAGAAGCGTGAAAAGTCCTGCAATGTTTTTGGA
*
2524 GTTGAATTATATATTTTTATGGGTATTGTGGCC-TAAATTGACG-AAAACTTTTCGGATCAATTT
194 GTTGAATTATATATTTTTATGGGTATTGTGGCCAAAAATTGACGAAAAACTTTTCGGATCAATTT
* *
2587 TTGAAAGATTTGAACCGAAATCGTGTAGTAACCATCACAGTTTTCTGCTAAAAACGCGTTCC-GG
259 TTGAAAGATTTGAACCGAAATCGTGTACTAACCATCACAGTGTTCTGCTAAAAACGCGTTCCGGG
2651 GCCTCCGGCTCAGTTTTGCATGATTTTTGGAGCCGAGACTCCTTGAAATATCTATATTCATCTAA
324 GCC-CCGGCTCAGTTTTGCATGATTTTTGGAGCCGAGACTCCTTGAAATATCTATATTCATCTAA
* * * *
2716 TCAACTCTTAGCCACATTGGATTTAA-GATTATGTTTTTACGAGCATATGAATCTTTTTTCAATT
388 TCAAATCTTAGCCACATTGGATTTAAGGA-TATGTTTTTACGAGCATCTGAATCTTGTTTCGATT
* * * * *
2780 TAATCAAAAATTAATTT-GAAAAAAAAAGAGAAACGATATTAGAAGAGTGAAGAATCCTTCAAT-
452 TAATCAAAAATTAATTTGGAAAAAAAAAGAAAAACGATATTAGAAGCGTGAAAAACCCTGCAATG
* * * * * * * ****
2843 CTTTT-AATGTTGAATTATATATTTTTTATAAGTGTTCTGGCCAAAAATTGGCAAAAAAAAAATT
517 TTTTTGGA-GTTGAATTATATATTTTTTA-AGGTATTGTGGCCAAAAATTGACGAAAAATTTTTT
* * *
2907 CGGGTCAATTTTTGCAAA-ATCTGTACCGAAATCGTGTACTAACCATCACAGTTTTCTGCTAAAA
580 CGGATCAATTTTTG-AAAGATTTGAACCGAAATCGTGTACTAACCATCACAGTTTTCTGCT-AAA
*
2971 AACGCGTTACGGGGCCCCGACTCAGTTTTGCATGATTTTTGGAACCGAGACT-C--GAAATATCT
643 AACGCGTTCCGGGGCCCCGACTCAGTTTTGCATGATTTTTGGAACCGAGACTCCTTGAAATATCT
*
3033 ATATTCATCTAATCAAATCTTAGCCACATTAGATTTAAGGATATGTTTTTACGAGCATCTGAATC
708 ATATTCATCTAATCAAATCTTAGCCACATTAGATTTAAGGATATGTTTTTACGAGCATATGAATC
* * * *
3098 TTTTTTCGATTTAATGAAAAATTAGTTTGG-AAAAAATGGAAAAAAACGATATTAGAAGCGTGAA
773 TTATTTCGATTTAATCAAAAATTAATTTGGAAAAAAAT--AGAAAAACGATATTAGAAGCGTGAA
3162 AAGCCCTGCAATGTTTTTGGAGTTGAATTATATATTTTTTATGAGTATTGTGGCCAAAAATTGAT
836 AAGCCCTGCAATGTTTTTGGAGTTGAATTATATATTTTTTATGAGTATTGTGGCCAAAAATTGAT
** * * *
3227 GAAAAATTTTTTCGGATCAATTTTTGAAAGATTTGAACCGAAATCTTATACTAACCATCACAGTT
901 GAAAAAAATTTT-GGATCAATTTTTGAAAAATTTGAACCGAAATCGTGTACTAACCATCACAGTT
* * *
3292 TTCTGCTAAAAACTCGTTCCGAGGCCCTGGGT
965 TTCTGCTAAAAACGCGTTCCG-GGCCCCGGCT
* * *
3324 CAGTTTTGCATGATTTTTGGAGCCGAGACTCCTTGAAATATCTATATCCATCTAATAAAATATTA
1 CAGTTTTGCATGATTTTTGGAGCCGAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTTA
3389 GCCACATTGGATTT-AGGAATATGTTTTTACGAGCATATGAATCTTGTTTCAATTTAATCAAAAA
66 GCCACATTGGATTTAAGG-ATATGTTTTTACGAGCATATGAATCTTGTTTCAATTTAATCAAAAA
*
3453 TTAATTTGAAAAAAAATAGGAAAAACAATATTAGAAGCGTTAAAAGTCCTGCAATGTTTTTGGAG
130 TTAATTTGAAAAAAAATAGGAAAAACAATATTAGAAGCGTGAAAAGTCCTGCAATGTTTTTGGAG
* *
3518 TTGAATAATAT-TTTTTATGGGTATTGTGGCCTAAAATTGACGAAAAACTTTTTCGGATCAATTT
195 TTGAATTATATATTTTTATGGGTATTGTGGCCAAAAATTGACGAAAAAC-TTTTCGGATCAATTT
* * *
3582 TTTAAAGATTTGAACCGAAATCGTGTACTAACCATCACAATTTTCTGCTAAAAACGCGTTCCGGG
259 TTGAAAGATTTGAACCGAAATCGTGTACTAACCATCACAGTGTTCTGCTAAAAACGCGTTCCGGG
*
3647 GCCCCGGCTCAGTTTTGCATGATTTTTGGAGCCGAGACTCCTTGAAATATCAATATTCATCTAAT
324 GCCCCGGCTCAGTTTTGCATGATTTTTGGAGCCGAGACTCCTTGAAATATCTATATTCATCTAAT
* * * * * *
3712 CAAATCTCAGCCACATTGGATTTAAGAATATGCTCTTACGAGCATTTGAATCTTGGTTCGATTTA
389 CAAATCTTAGCCACATTGGATTTAAGGATATGTTTTTACGAGCATCTGAATCTTGTTTCGATTTA
* * *
3777 ATCAAAAATTAATTTGGAAAAAAATAGGAAAAACGATATTAGAAGCATGAAAAAACCCTTCAATG
454 ATCAAAAATTAATTTGGAAAAAAA-AAGAAAAACGATATTAGAAGCGTG-AAAAACCCTGCAATG
* *
3842 TTTTTGGAGTTGAATTA-A-A---TTT---G-A-------C--GAA---A--AAAAA---TTTCA
517 TTTTTGGAGTTGAATTATATATTTTTTAAGGTATTGTGGCCAAAAATTGACGAAAAATTTTTTCG
* * *
3881 GATCAATTTTTGAAAAATTTGAACCGAAATCGTGTATTAACCATCATAGTTTTCTGCTAAAAACG
582 GATCAATTTTTGAAAGATTTGAACCGAAATCGTGTACTAACCATCACAGTTTTCTGCTAAAAACG
* *
3946 CGTTCCGGGGCCCCGACTCAGTTTTGCATAATTTTTGGAGCCGAGACTCCTTGAAATATCTATAT
647 CGTTCCGGGGCCCCGACTCAGTTTTGCATGATTTTTGGAACCGAGACTCCTTGAAATATCTATAT
4011 TCATCTAATCAAATCTTAGCCACATT-GAATTTAAGGATATGTTTTTACGAGCATATCGAATCTT
712 TCATCTAATCAAATCTTAGCCACATTAG-ATTTAAGGATATGTTTTTACGAGCATAT-GAATCTT
4075 ATTTCGATT
775 ATTTCGATT
4084 GAGATCCTAA
Statistics
Matches: 2448, Mismatches: 239, Indels: 145
0.86 0.08 0.05
Matches are distributed among these distances:
971 55 0.02
972 53 0.02
973 1 0.00
974 66 0.03
975 20 0.01
980 2 0.00
982 1 0.00
990 6 0.00
991 116 0.05
992 85 0.03
993 300 0.12
994 742 0.30
995 338 0.14
996 136 0.06
997 95 0.04
998 96 0.04
999 45 0.02
1000 118 0.05
1001 172 0.07
1002 1 0.00
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.35
Consensus pattern (995 bp):
CAGTTTTGCATGATTTTTGGAGCCGAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTTA
GCCACATTGGATTTAAGGATATGTTTTTACGAGCATATGAATCTTGTTTCAATTTAATCAAAAAT
TAATTTGAAAAAAAATAGGAAAAACAATATTAGAAGCGTGAAAAGTCCTGCAATGTTTTTGGAGT
TGAATTATATATTTTTATGGGTATTGTGGCCAAAAATTGACGAAAAACTTTTCGGATCAATTTTT
GAAAGATTTGAACCGAAATCGTGTACTAACCATCACAGTGTTCTGCTAAAAACGCGTTCCGGGGC
CCCGGCTCAGTTTTGCATGATTTTTGGAGCCGAGACTCCTTGAAATATCTATATTCATCTAATCA
AATCTTAGCCACATTGGATTTAAGGATATGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAAT
CAAAAATTAATTTGGAAAAAAAAAGAAAAACGATATTAGAAGCGTGAAAAACCCTGCAATGTTTT
TGGAGTTGAATTATATATTTTTTAAGGTATTGTGGCCAAAAATTGACGAAAAATTTTTTCGGATC
AATTTTTGAAAGATTTGAACCGAAATCGTGTACTAACCATCACAGTTTTCTGCTAAAAACGCGTT
CCGGGGCCCCGACTCAGTTTTGCATGATTTTTGGAACCGAGACTCCTTGAAATATCTATATTCAT
CTAATCAAATCTTAGCCACATTAGATTTAAGGATATGTTTTTACGAGCATATGAATCTTATTTCG
ATTTAATCAAAAATTAATTTGGAAAAAAATAGAAAAACGATATTAGAAGCGTGAAAAGCCCTGCA
ATGTTTTTGGAGTTGAATTATATATTTTTTATGAGTATTGTGGCCAAAAATTGATGAAAAAAATT
TTGGATCAATTTTTGAAAAATTTGAACCGAAATCGTGTACTAACCATCACAGTTTTCTGCTAAAA
ACGCGTTCCGGGCCCCGGCT
Found at i:5301 original size:38 final size:38
Alignment explanation
Indices: 5182--5314 Score: 142
Period size: 38 Copynumber: 3.4 Consensus size: 38
5172 AATTACTAAA
*
5182 TTTTTTAGA-TGTTTGGAGAGACAGCTCTCATCAGTCAC
1 TTTTTTA-ATTGTTTGGAGAGACAGCTCTCATCGGTCAC
* * * * *
5220 TTCTTAATTAAATGTTTGGAGAGACAGCTATCATTGATTAC
1 TT-TT--TTAATTGTTTGGAGAGACAGCTCTCATCGGTCAC
*
5261 TTTTTTAATTGTTTGGAGAGATAGCTCTCATCGGTCAC
1 TTTTTTAATTGTTTGGAGAGACAGCTCTCATCGGTCAC
*
5299 TTTTTTTTATTGTTTG
1 -TTTTTTAATTGTTTG
5315 TCACTTTTTT
Statistics
Matches: 78, Mismatches: 12, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
38 30 0.38
39 16 0.21
40 3 0.04
41 29 0.37
ACGTcount: A:0.23, C:0.14, G:0.19, T:0.44
Consensus pattern (38 bp):
TTTTTTAATTGTTTGGAGAGACAGCTCTCATCGGTCAC
Found at i:5324 original size:19 final size:20
Alignment explanation
Indices: 5294--5333 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
5284 GCTCTCATCG
*
5294 GTCACTTTTTTTTATTGTTT
1 GTCACTTTTTTTAATTGTTT
5314 GTCAC-TTTTTTAATTGTTT
1 GTCACTTTTTTTAATTGTTT
5333 G
1 G
5334 GAGAGACAGC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.12, C:0.10, G:0.12, T:0.65
Consensus pattern (20 bp):
GTCACTTTTTTTAATTGTTT
Found at i:5376 original size:137 final size:140
Alignment explanation
Indices: 5182--5445 Score: 322
Period size: 137 Copynumber: 1.9 Consensus size: 140
5172 AATTACTAAA
*
5182 TTTTTTAGATGTTTGGAGAGACAGCTCTCATCAGTCACTTCTTAATTAAATGTTTGGAGAGACAG
1 TTTTTTAGATGTTTGGAGAGACAGCTCTCATCAGTCACTTCTTAATTAAATGCTTGGAGAGACAG
* * *** *
5247 CTATCATTGATTAC-TTTTT-T-AATTGTTTGGAGAGATAGCTCTCATCGGTCACTTTTTTTTAT
66 CTATCATCGATCACATTTTTATCAAACATTTGGAGAGACAGCTCTCATCGGTCACTTTTTTTTAT
5309 TGTTTGTCAC
131 TGTTTGTCAC
* * * ** *
5319 TTTTTTA-ATTGTTTGGAGAGACAGCTCTCATCGGTCAGTTTTTTAATT-TTTGCTTGGAGAGAT
1 TTTTTTAGA-TGTTTGGAGAGACAGCTCTCATCAGTCA-CTTCTTAATTAAATGCTTGGAGAGAC
* * *
5382 AGCTCTCATCGGTCACAATTTTTATCAAACATTTGGAGAGACAGCTCTCATCGGTCAGTTTTTT
64 AGCTATCATCGATCAC-ATTTTTATCAAACATTTGGAGAGACAGCTCTCATCGGTCACTTTTTT
5446 AATTTTTGTT
Statistics
Matches: 105, Mismatches: 16, Indels: 8
0.81 0.12 0.06
Matches are distributed among these distances:
136 1 0.01
137 57 0.54
138 8 0.08
139 5 0.05
140 1 0.01
141 33 0.31
ACGTcount: A:0.23, C:0.16, G:0.19, T:0.42
Consensus pattern (140 bp):
TTTTTTAGATGTTTGGAGAGACAGCTCTCATCAGTCACTTCTTAATTAAATGCTTGGAGAGACAG
CTATCATCGATCACATTTTTATCAAACATTTGGAGAGACAGCTCTCATCGGTCACTTTTTTTTAT
TGTTTGTCAC
Found at i:5386 original size:41 final size:41
Alignment explanation
Indices: 5314--6333 Score: 648
Period size: 42 Copynumber: 24.3 Consensus size: 41
5304 TTTATTGTTT
*
5314 GTCACTTTTTTAA---TTGTTTGGAGAGACAGCTCTCATCG
1 GTCACTTTTTTAATTTTTGCTTGGAGAGACAGCTCTCATCG
* *
5352 GTCAGTTTTTTAATTTTTGCTTGGAGAGATAGCTCTCATCG
1 GTCACTTTTTTAATTTTTGCTTGGAGAGACAGCTCTCATCG
***
5393 GTCACAATTTTTATCAA-ACAT--TTGGAGAGACAGCTCTCATCG
1 GTCAC--TTTTT-T-AATTTTTGCTTGGAGAGACAGCTCTCATCG
* * *
5435 GTCAGTTTTTTAATTTTTG-TTGG-GAGAGTAGCTCTTATCG
1 GTCACTTTTTTAATTTTTGCTTGGAGAGA-CAGCTCTCATCG
*
5475 GT--CTTTTTT--TTATTTG-TTCGGAGAGGCAGCTCTCATCG
1 GTCACTTTTTTAATT-TTTGCTT-GGAGAGACAGCTCTCATCG
* * *
5513 GTTACTTTTTTAA---TTGTTTGGAGAGATAGCTCTCATCG
1 GTCACTTTTTTAATTTTTGCTTGGAGAGACAGCTCTCATCG
* * ** * * *
5551 GTCACTTTTTTTTATTGTTTCACTTTTTTAATTGTTTGAGAGACAGCTCTCATCG
1 GTCAC-TTTTTTAATT-TTT-GC---TTGGA--G--AGACAG-C-TCTC--ATCG
5606 GTCACTTTTTTAATTTATTGCTTGGAGAGACAGCTCTCATCG
1 GTCACTTTTTTAATTT-TTGCTTGGAGAGACAGCTCTCATCG
** * *
5648 GTCACTTTTTTAATTAAATGCTTGGAGAGACAGCTTTCATCA
1 GTCACTTTTTTAATT-TTTGCTTGGAGAGACAGCTCTCATCG
* *
5690 GTCACTTTTTTAATTTTTGCTTGGAGAAATAGCTCTCATCG
1 GTCACTTTTTTAATTTTTGCTTGGAGAGACAGCTCTCATCG
* **
5731 GTCACTTTTTTTATTAAATGCTTGGAGAGACAGCTCTCATCG
1 GTCACTTTTTTAATT-TTTGCTTGGAGAGACAGCTCTCATCG
* *
5773 ATCAC-TTTTTAA---TTGTTTGGAGAGACAGCTCTCATCG
1 GTCACTTTTTTAATTTTTGCTTGGAGAGACAGCTCTCATCG
*
5810 GTCACTTTTTTAA---TTGTTTGGAGAGACAGCTCTCATCG
1 GTCACTTTTTTAATTTTTGCTTGGAGAGACAGCTCTCATCG
* *
5848 GTCAATTTTTTAA---TTGTTTGGAGAGACAGCTCTCATCG
1 GTCACTTTTTTAATTTTTGCTTGGAGAGACAGCTCTCATCG
* *
5886 GTCACTTTTTTAA-TTTTGTTTGGAGAGATAGCTCTCATCG
1 GTCACTTTTTTAATTTTTGCTTGGAGAGACAGCTCTCATCG
* * ** ** * *** * *
5926 GTTACTTTTTAAAATGTTCGTCACATTTTTA-ATTGTTCGGAG-AGACAGCT
1 GTCACTTTTT-TAAT-TT--TTGC--TTGGAGA--G-AC--AGCTCTCATCG
* *** ** * * *
5976 CTCATCGGTCACTTTTTTAATTAAATACTTGGAGAGATAGCTCTCATCA
1 GTCA-C--TTTTTTAATT--TT---TGCTTGGAGAGACAGCTCTCATCG
*
6025 GTCACTTTTTAATTAAATGTTTT-TTTGGAGAGACAGCTCTCATCG
1 GTCAC-TTTT--TT-AAT-TTTTGCTTGGAGAGACAGCTCTCATCG
* * *
6070 GTAACTTTTTTAATTTAATGCTTGGAGAGATAGCTCTCATC-
1 GTCACTTTTTTAATTT-TTGCTTGGAGAGACAGCTCTCATCG
* *
6111 GTCACTTTTTT-ATTTAAATGCTTGGAGAGACAGCTCTCATCA
1 GTCACTTTTTTAATTT--TTGCTTGGAGAGACAGCTCTCATCG
* *
6153 GTCACTTTTCAATTAAATGTTTGTTTGGAGAGACAGCTCTCATCG
1 GTCACTTTT---TT-AATTTTTGCTTGGAGAGACAGCTCTCATCG
** *
6198 GTCACTTTTTTAATTAAATGTTTGGAGAGACAGCTCTCATCG
1 GTCACTTTTTTAATT-TTTGCTTGGAGAGACAGCTCTCATCG
* *
6240 GTCACTTTTTTAA-TTTTGTTTGGAGAGATAGCTCTCATCG
1 GTCACTTTTTTAATTTTTGCTTGGAGAGACAGCTCTCATCG
* *
6280 GTCACTTTTTTAATTTTTGTTTGGAGAGATAGCTCTCATCG
1 GTCACTTTTTTAATTTTTGCTTGGAGAGACAGCTCTCATCG
*
6321 TTCACTTTTTTAA
1 GTCACTTTTTTAA
6334 ATGTACATCA
Statistics
Matches: 786, Mismatches: 118, Indels: 153
0.74 0.11 0.14
Matches are distributed among these distances:
36 2 0.00
37 33 0.04
38 139 0.18
39 18 0.02
40 103 0.13
41 150 0.19
42 175 0.22
43 9 0.01
44 9 0.01
45 60 0.08
46 6 0.01
47 10 0.01
48 5 0.01
49 11 0.01
50 9 0.01
51 11 0.01
52 5 0.01
53 9 0.01
54 13 0.02
55 9 0.01
ACGTcount: A:0.23, C:0.17, G:0.19, T:0.42
Consensus pattern (41 bp):
GTCACTTTTTTAATTTTTGCTTGGAGAGACAGCTCTCATCG
Found at i:5404 original size:99 final size:96
Alignment explanation
Indices: 5227--5404 Score: 248
Period size: 96 Copynumber: 1.8 Consensus size: 96
5217 CACTTCTTAA
* * *
5227 TTAAATGTTTGGAGAGACAGCTATCATTGATTACTTTTTTAATTGTTTGGAGAGATAGCTCTCAT
1 TTAAATGTTTGGAGAGACAGCTATCATCGATCACTTTTTTAATTGCTTGGAGAGATAGCTCTCAT
**
5292 CGGTCACTTTTTTTTATTGTTTGTCACTTTT
66 CGGTCACAATTTTTTATTGTTTGTCACTTTT
* * * *
5323 TTAATTGTTTGGAGAGACAGCTCTCATCGGTCAGTTTTTTAATTTTTGCTTGGAGAGATAGCTCT
1 TTAAATGTTTGGAGAGACAGCTATCATCGATCACTTTTTTAA---TTGCTTGGAGAGATAGCTCT
5388 CATCGGTCACAATTTTT
63 CATCGGTCACAATTTTT
5405 ATCAAACATT
Statistics
Matches: 70, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
96 36 0.51
99 34 0.49
ACGTcount: A:0.22, C:0.14, G:0.19, T:0.45
Consensus pattern (96 bp):
TTAAATGTTTGGAGAGACAGCTATCATCGATCACTTTTTTAATTGCTTGGAGAGATAGCTCTCAT
CGGTCACAATTTTTTATTGTTTGTCACTTTT
Found at i:5506 original size:38 final size:38
Alignment explanation
Indices: 5319--5566 Score: 155
Period size: 38 Copynumber: 6.2 Consensus size: 38
5309 TGTTTGTCAC
* *
5319 TTTTTTAATTGTTTGGAGAGACAGCTCTCATCGGTCAGTT
1 TTTTTTATTTGTTCGGAGAGACAGCTCTCATCGGTC--TT
*
5359 TTTTAATT-TTTGCTT-GGAGAGATAGCTCTCATCGGTCACAATT
1 TTTT--TTATTTG-TTCGGAGAGACAGCTCTCATCGGT--C--TT
* * **** *
5402 TTTATCAAACATTTGGAGAGACAGCTCTCATCGGTCAGTT
1 TTTTTTATTTGTTCGGAGAGACAGCTCTCATCGGTC--TT
* * *
5442 TTTTAATT-TTTGTTGGGAGAG-TAGCTCTTATCGGTCTT
1 TTTT--TTATTTGTTCGGAGAGACAGCTCTCATCGGTCTT
* *
5480 TTTTTTATTTGTTCGGAGAGGCAGCTCTCATCGGT-TAC
1 TTTTTTATTTGTTCGGAGAGACAGCTCTCATCGGTCT-T
* * *
5518 TTTTTTAATTGTTTGGAGAGATAGCTCTCATCGGTCACTT
1 TTTTTTATTTGTTCGGAGAGACAGCTCTCATCGGT--CTT
5558 TTTTTTATT
1 TTTTTTATT
5567 GTTTCACTTT
Statistics
Matches: 163, Mismatches: 30, Indels: 30
0.73 0.13 0.13
Matches are distributed among these distances:
36 2 0.01
37 13 0.08
38 49 0.30
40 32 0.20
41 35 0.21
42 25 0.15
43 7 0.04
ACGTcount: A:0.20, C:0.15, G:0.21, T:0.44
Consensus pattern (38 bp):
TTTTTTATTTGTTCGGAGAGACAGCTCTCATCGGTCTT
Found at i:5579 original size:17 final size:18
Alignment explanation
Indices: 5552--5587 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
5542 CTCTCATCGG
*
5552 TCACTTTTTTTTATTGTT
1 TCACTTTTTTTAATTGTT
5570 TCAC-TTTTTTAATTGTT
1 TCACTTTTTTTAATTGTT
5587 T
1 T
5588 GAGAGACAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.14, C:0.11, G:0.06, T:0.69
Consensus pattern (18 bp):
TCACTTTTTTTAATTGTT
Found at i:5616 original size:56 final size:57
Alignment explanation
Indices: 5516--5625 Score: 179
Period size: 55 Copynumber: 1.9 Consensus size: 57
5506 CTCATCGGTT
*
5516 ACTTTTTTAATTGTTTGGAGAGATAGCTCTCATCGGTCACTTTTT-TTTATTGTTTC
1 ACTTTTTTAATTGTTTGGAGAGACAGCTCTCATCGGTCACTTTTTATTTATTGTTTC
5572 ACTTTTTTAATTGTTT-GAGAGACAGCTCTCATCGGTCACTTTTTTAATTTATTG
1 ACTTTTTTAATTGTTTGGAGAGACAGCTCTCATCGGTCAC-TTTTT-ATTTATTG
5626 CTTGGAGAGA
Statistics
Matches: 50, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
55 22 0.44
56 21 0.42
58 7 0.14
ACGTcount: A:0.20, C:0.15, G:0.15, T:0.50
Consensus pattern (57 bp):
ACTTTTTTAATTGTTTGGAGAGACAGCTCTCATCGGTCACTTTTTATTTATTGTTTC
Found at i:5658 original size:97 final size:94
Alignment explanation
Indices: 5480--5658 Score: 261
Period size: 97 Copynumber: 1.9 Consensus size: 94
5470 TATCGGTCTT
* * * * *
5480 TTTTTTATTTGTTCGGAGAGGCAGCTCTCATCGGTTACTTTTTTAATTGTTTGGAGAGATAGCTC
1 TTTTTTAATTGTTCGGAGAGACAGCTCTCATCGGTCACTTTTTTAATTGCTTGGAGAGACAGCTC
5545 TCATCGGTCACTTTTTTTTATTGTTTCAC
66 TCATCGGTCACTTTTTTTTATTGTTTCAC
*
5574 TTTTTTAATTGTT-TGAGAGACAGCTCTCATCGGTCACTTTTTTAATTTATTGCTTGGAGAGACA
1 TTTTTTAATTGTTCGGAGAGACAGCTCTCATCGGTCACTTTTTT-A---ATTGCTTGGAGAGACA
5638 GCTCTCATCGGTCACTTTTTT
62 GCTCTCATCGGTCACTTTTTT
5659 AATTAAATGC
Statistics
Matches: 75, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
93 27 0.36
94 13 0.17
97 35 0.47
ACGTcount: A:0.18, C:0.17, G:0.18, T:0.46
Consensus pattern (94 bp):
TTTTTTAATTGTTCGGAGAGACAGCTCTCATCGGTCACTTTTTTAATTGCTTGGAGAGACAGCTC
TCATCGGTCACTTTTTTTTATTGTTTCAC
Found at i:5735 original size:83 final size:78
Alignment explanation
Indices: 5570--5935 Score: 456
Period size: 83 Copynumber: 4.6 Consensus size: 78
5560 TTTTATTGTT
*
5570 TCACTTTTTTAA-T-TG-TTTGAGAGACAGCTCTCATCGGTCACTTTTTTAATTTATTGCTTGGA
1 TCACTTTTTTAATTATGCTTGGAGAGACAGCTCTCATCGGTCACTTTTTT-A---ATTGCTTGGA
5632 GAGACAGCTCTCATCGG
62 GAGACAGCTCTCATCGG
* *
5649 TCACTTTTTTAATTAAATGCTTGGAGAGACAGCTTTCATCAGTCACTTTTTTAATTTTTGCTTGG
1 TCACTTTTTTAATT--ATGCTTGGAGAGACAGCTCTCATCGGTCACTTTTTTAA---TTGCTTGG
* *
5714 AGAAATAGCTCTCATCGG
61 AGAGACAGCTCTCATCGG
* * *
5732 TCACTTTTTTTATTAAATGCTTGGAGAGACAGCTCTCATCGATCAC-TTTTTAATTGTTTGGAGA
1 TCACTTTTTTAATT--ATGCTTGGAGAGACAGCTCTCATCGGTCACTTTTTTAATTGCTTGGAGA
5796 GACAGCTCTCATCGG
64 GACAGCTCTCATCGG
* * *
5811 TCACTTTTTTAA-T-TGTTTGGAGAGACAGCTCTCATCGGTCAATTTTTTAATTGTTTGGAGAGA
1 TCACTTTTTTAATTATGCTTGGAGAGACAGCTCTCATCGGTCACTTTTTTAATTGCTTGGAGAGA
5874 CAGCTCTCATCGG
66 CAGCTCTCATCGG
* * * *
5887 TCACTTTTTTAATTTTGTTTGGAGAGATAGCTCTCATCGGTTACTTTTT
1 TCACTTTTTTAATTATGCTTGGAGAGACAGCTCTCATCGGTCACTTTTT
5936 AAAATGTTCG
Statistics
Matches: 257, Mismatches: 19, Indels: 23
0.86 0.06 0.08
Matches are distributed among these distances:
75 26 0.10
76 45 0.18
77 1 0.00
78 32 0.12
79 46 0.18
80 2 0.01
82 7 0.03
83 69 0.27
84 29 0.11
ACGTcount: A:0.23, C:0.17, G:0.19, T:0.41
Consensus pattern (78 bp):
TCACTTTTTTAATTATGCTTGGAGAGACAGCTCTCATCGGTCACTTTTTTAATTGCTTGGAGAGA
CAGCTCTCATCGG
Found at i:6020 original size:42 final size:42
Alignment explanation
Indices: 5964--6333 Score: 446
Period size: 41 Copynumber: 8.8 Consensus size: 42
5954 TTAATTGTTC
*
5964 GGAGAGACAGCTCTCATCGGTCACTTTTTTAATTAAATACTT
1 GGAGAGACAGCTCTCATCGGTCACTTTTTTAATTAAATGCTT
* * *
6006 GGAGAGATAGCTCTCATCAGTCAC-TTTTTAATTAAATGTTTTTTT
1 GGAGAGACAGCTCTCATCGGTCACTTTTTTAATTAAATG----CTT
* *
6051 GGAGAGACAGCTCTCATCGGTAACTTTTTTAATTTAATGCTT
1 GGAGAGACAGCTCTCATCGGTCACTTTTTTAATTAAATGCTT
* *
6093 GGAGAGATAGCTCTCATC-GTCACTTTTTTATTTAAATGCTT
1 GGAGAGACAGCTCTCATCGGTCACTTTTTTAATTAAATGCTT
* * *
6134 GGAGAGACAGCTCTCATCAGTCAC-TTTTCAATTAAATGTTTGTTT
1 GGAGAGACAGCTCTCATCGGTCACTTTTTTAATTAAA----TGCTT
*
6179 GGAGAGACAGCTCTCATCGGTCACTTTTTTAATTAAATGTTT
1 GGAGAGACAGCTCTCATCGGTCACTTTTTTAATTAAATGCTT
* *
6221 GGAGAGACAGCTCTCATCGGTCACTTTTTTAATT--TTGTTT
1 GGAGAGACAGCTCTCATCGGTCACTTTTTTAATTAAATGCTT
* ** *
6261 GGAGAGATAGCTCTCATCGGTCACTTTTTTAATT-TTTGTTT
1 GGAGAGACAGCTCTCATCGGTCACTTTTTTAATTAAATGCTT
* *
6302 GGAGAGATAGCTCTCATCGTTCACTTTTTTAA
1 GGAGAGACAGCTCTCATCGGTCACTTTTTTAA
6334 ATGTACATCA
Statistics
Matches: 294, Mismatches: 22, Indels: 25
0.86 0.06 0.07
Matches are distributed among these distances:
40 38 0.13
41 97 0.33
42 85 0.29
45 50 0.17
46 24 0.08
ACGTcount: A:0.25, C:0.17, G:0.18, T:0.40
Consensus pattern (42 bp):
GGAGAGACAGCTCTCATCGGTCACTTTTTTAATTAAATGCTT
Found at i:6110 original size:87 final size:82
Alignment explanation
Indices: 5954--6333 Score: 478
Period size: 87 Copynumber: 4.5 Consensus size: 82
5944 CGTCACATTT
* * * *
5954 TTAATTGTTCGGAGAGACAGCTCTCATCGGTCACTTTTTTAATTAAATACTTGGAGAGATAGCTC
1 TTAAATGTTTGGAGAGACAGCTCTCATCGGTCACTTTTTTAATT--TTGCTTGGAGAGATAGCTC
*
6019 TCATCAGTCAC-TTTTTAA
64 TCATCGGTCACTTTTTTAA
*
6037 TTAAATGTTTTTTTGGAGAGACAGCTCTCATCGGTAACTTTTTTAATTTAATGCTTGGAGAGATA
1 TTAAATG----TTTGGAGAGACAGCTCTCATCGGTCACTTTTTTAATTT--TGCTTGGAGAGATA
*
6102 GCTCTCATC-GTCACTTTTTTAT
60 GCTCTCATCGGTCACTTTTTTAA
* * * *
6124 TTAAATGCTTGGAGAGACAGCTCTCATCAGTCACTTTTCAATTAAATGTTTGTTTGGAGAGACAG
1 TTAAATGTTTGGAGAGACAGCTCTCATCGGTCACTTTT---TT-AAT-TTTGCTTGGAGAGATAG
6189 CTCTCATCGGTCACTTTTTTAA
61 CTCTCATCGGTCACTTTTTTAA
*
6211 TTAAATGTTTGGAGAGACAGCTCTCATCGGTCACTTTTTTAATTTTGTTTGGAGAGATAGCTCTC
1 TTAAATGTTTGGAGAGACAGCTCTCATCGGTCACTTTTTTAATTTTGCTTGGAGAGATAGCTCTC
6276 ATCGGTCACTTTTTTAA
66 ATCGGTCACTTTTTTAA
** * *
6293 TT-TTTGTTTGGAGAGATAGCTCTCATCGTTCACTTTTTTAA
1 TTAAATGTTTGGAGAGACAGCTCTCATCGGTCACTTTTTTAA
6334 ATGTACATCA
Statistics
Matches: 265, Mismatches: 19, Indels: 28
0.85 0.06 0.09
Matches are distributed among these distances:
81 35 0.13
82 40 0.15
83 37 0.14
84 2 0.01
86 28 0.11
87 121 0.46
88 2 0.01
ACGTcount: A:0.25, C:0.17, G:0.18, T:0.41
Consensus pattern (82 bp):
TTAAATGTTTGGAGAGACAGCTCTCATCGGTCACTTTTTTAATTTTGCTTGGAGAGATAGCTCTC
ATCGGTCACTTTTTTAA
Found at i:6448 original size:18 final size:19
Alignment explanation
Indices: 6419--6455 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
6409 GCCCTCATCA
6419 GTCACTTTTTTAATTGTTC
1 GTCACTTTTTTAATTGTTC
6438 GTCAC-TTTTTAATTGTTC
1 GTCACTTTTTTAATTGTTC
6456 AGAGAGACAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.16, C:0.16, G:0.11, T:0.57
Consensus pattern (19 bp):
GTCACTTTTTTAATTGTTC
Found at i:6473 original size:97 final size:97
Alignment explanation
Indices: 6246--6527 Score: 327
Period size: 97 Copynumber: 2.9 Consensus size: 97
6236 ATCGGTCACT
* * ** *
6246 TTTTTAATTTTGTTTGGAGAGATAGCTCTCATCGGTCACTTTTTTAATT-TTTGTTTGGAGAGAT
1 TTTTTAA--TTGTTAGGAGAGACAGCTCTCATCGGTCAC-TTTTTAATTAAATGCTTGGAGAGAT
*
6310 AGCTCTCATCGTTCACTTTTTTAAATGTACATCATG
63 AGCTCTCATCG-TCACTTTTTTAAATGTACATCATC
* * * *
6346 TTTTTAATTGTTAGGAGAGGCAGCTTTCATCAGTCACTTTTTAATTAAATGCTCGGAGAGATAGC
1 TTTTTAATTGTTAGGAGAGACAGCTCTCATCGGTCACTTTTTAATTAAATGCTTGGAGAGATAGC
* * * *
6411 CCTCATCAGTCACTTTTTTAATTGTTCGTCA-C
66 TCTCATC-GTCACTTTTTTAAATGTACATCATC
** *
6443 TTTTTAATTGTTCA-GAGAGACAGCTCTCATCGGTCACTTTTTAATTAAACACTTGGAGAGACAG
1 TTTTTAATTGTT-AGGAGAGACAGCTCTCATCGGTCACTTTTTAATTAAATGCTTGGAGAGATAG
6507 CTCTCATCGGTCACTTTTTTA
65 CTCTCATC-GTCACTTTTTTA
6528 TTAAATGCTT
Statistics
Matches: 156, Mismatches: 23, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
97 83 0.53
98 65 0.42
99 1 0.01
100 7 0.04
ACGTcount: A:0.24, C:0.17, G:0.17, T:0.41
Consensus pattern (97 bp):
TTTTTAATTGTTAGGAGAGACAGCTCTCATCGGTCACTTTTTAATTAAATGCTTGGAGAGATAGC
TCTCATCGTCACTTTTTTAAATGTACATCATC
Found at i:6511 original size:41 final size:37
Alignment explanation
Indices: 6438--6684 Score: 262
Period size: 41 Copynumber: 6.3 Consensus size: 37
6428 TTAATTGTTC
*
6438 GTCACTTTTTAATTG-TTCAGAGAGACAGCTCTCATCG
1 GTCACTTTTTAATTGCTT-GGAGAGACAGCTCTCATCG
*
6475 GTCACTTTTTAATTAAACACTTGGAGAGACAGCTCTCATCG
1 GTCACTTTTTAATT----GCTTGGAGAGACAGCTCTCATCG
*
6516 GTCACTTTTTTATTAAATGCTTGGAGAGACAGCTCTCATCG
1 GTCAC---TTT-TTAATTGCTTGGAGAGACAGCTCTCATCG
* *
6557 GTCACTTTTTAATTGGTTGGAGAGACAGCTCTCATTG
1 GTCACTTTTTAATTGCTTGGAGAGACAGCTCTCATCG
* **
6594 GTAACTTTTTTAATTATTTGGAGAGACAGCTCTCATCG
1 GTCAC-TTTTTAATTGCTTGGAGAGACAGCTCTCATCG
* * *
6632 GTCACTTTTTTAATTTTTGTTTGGAGAGATAGCTCTCATCT
1 GTCAC-TTTTTAA---TTGCTTGGAGAGACAGCTCTCATCG
6673 GTCACTTTTTAA
1 GTCACTTTTTAA
6685 AATGTTCGTC
Statistics
Matches: 182, Mismatches: 15, Indels: 23
0.83 0.07 0.10
Matches are distributed among these distances:
37 44 0.24
38 44 0.24
40 7 0.04
41 77 0.42
42 2 0.01
44 3 0.02
45 5 0.03
ACGTcount: A:0.24, C:0.18, G:0.19, T:0.39
Consensus pattern (37 bp):
GTCACTTTTTAATTGCTTGGAGAGACAGCTCTCATCG
Found at i:6611 original size:82 final size:80
Alignment explanation
Indices: 6457--6683 Score: 254
Period size: 79 Copynumber: 2.8 Consensus size: 80
6447 TAATTGTTCA
*
6457 GAGAGACAGCTCTCATCGGTCAC-TTTTTAATTAAACACTTGGAGAGACAGCTCTCATCGGTCAC
1 GAGAGACAGCTCTCATCGGTCACTTTTTTAATT----GCTTGGAGAGACAGCTCTCATCGGTCAC
6521 -TTTT-TTATTAAATGCTTG
62 TTTTTATTATTAAATG-TTG
* * *
6539 GAGAGACAGCTCTCATCGGTCAC-TTTTTAATTGGTTGGAGAGACAGCTCTCATTGGTAACTTTT
1 GAGAGACAGCTCTCATCGGTCACTTTTTTAATTGCTTGGAGAGACAGCTCTCATCGGTCACTTTT
*
6603 T-TAATT--AT-TTG
66 TATTATTAAATGTTG
* * *
6614 GAGAGACAGCTCTCATCGGTCACTTTTTTAATTTTTGTTTGGAGAGATAGCTCTCATCTGTCACT
1 GAGAGACAGCTCTCATCGGTCACTTTTTTAA---TTGCTTGGAGAGACAGCTCTCATCGGTCACT
6679 TTTTA
63 TTTTA
6684 AAATGTTCGT
Statistics
Matches: 129, Mismatches: 10, Indels: 14
0.84 0.07 0.09
Matches are distributed among these distances:
75 26 0.20
76 7 0.05
77 2 0.02
78 24 0.19
79 38 0.29
82 32 0.25
ACGTcount: A:0.24, C:0.19, G:0.19, T:0.38
Consensus pattern (80 bp):
GAGAGACAGCTCTCATCGGTCACTTTTTTAATTGCTTGGAGAGACAGCTCTCATCGGTCACTTTT
TATTATTAAATGTTG
Found at i:6656 original size:116 final size:116
Alignment explanation
Indices: 6438--6684 Score: 338
Period size: 116 Copynumber: 2.1 Consensus size: 116
6428 TTAATTGTTC
*
6438 GTCACTTTTTAATTGTTCAGAGAGACAGCTCTCATCGGTCACTTTTTAATTAAACACTTGGAGAG
1 GTCACTTTTTAATTGTTCAGAGAGACAGCTCTCATCGGTAACTTTTTAATT--A-ACTTGGAGAG
6503 ACAGCTCTCATCGGTCACTTTTTTATTAAATGCTTGGAGAGACAGCTCTCATCG
63 ACAGCTCTCATCGGTCACTTTTTTATTAAATGCTTGGAGAGACAGCTCTCATCG
* * *
6557 GTCACTTTTTAATTGGTT-GGAGAGACAGCTCTCATTGGTAACTTTTTTAATT-ATTTGGAGAGA
1 GTCACTTTTTAATT-GTTCAGAGAGACAGCTCTCATCGGTAAC-TTTTTAATTAACTTGGAGAGA
** * * *
6620 CAGCTCTCATCGGTCACTTTTTTAATT-TTTGTTTGGAGAGATAGCTCTCATCT
64 CAGCTCTCATCGGTCACTTTTTT-ATTAAATGCTTGGAGAGACAGCTCTCATCG
6673 GTCACTTTTTAA
1 GTCACTTTTTAA
6685 AATGTTCGTC
Statistics
Matches: 116, Mismatches: 9, Indels: 9
0.87 0.07 0.07
Matches are distributed among these distances:
116 66 0.57
117 3 0.03
119 35 0.30
120 12 0.10
ACGTcount: A:0.24, C:0.18, G:0.19, T:0.39
Consensus pattern (116 bp):
GTCACTTTTTAATTGTTCAGAGAGACAGCTCTCATCGGTAACTTTTTAATTAACTTGGAGAGACA
GCTCTCATCGGTCACTTTTTTATTAAATGCTTGGAGAGACAGCTCTCATCG
Found at i:6841 original size:41 final size:41
Alignment explanation
Indices: 6711--7149 Score: 443
Period size: 41 Copynumber: 10.7 Consensus size: 41
6701 TTAATTGTCC
*
6711 GGAGAGACAACTCTCATCGGTCACTTTTTTAATTAAATGCTT
1 GGAGAGACAGCTCTCATCGGTCAC-TTTTTAATTAAATGCTT
* * * **
6753 GGAGAGATAACTCTCATCGATCACTTTTTTCTTTAAATGCTT
1 GGAGAGACAGCTCTCATCGGTCAC-TTTTTAATTAAATGCTT
* *
6795 GGAGAGATAGCTCTCATCGGTCACTTTTTAATTAAAT-ATT
1 GGAGAGACAGCTCTCATCGGTCACTTTTTAATTAAATGCTT
* * **
6835 GAGAGAGACAGCTCTCATCGATTACTTTTTAATTAAATATTT
1 G-GAGAGACAGCTCTCATCGGTCACTTTTTAATTAAATGCTT
* **
6877 GGATAGACAGCTCTCATCGGTCACTTTTTTAATT-TTTGCTT
1 GGAGAGACAGCTCTCATCGGTCAC-TTTTTAATTAAATGCTT
* *
6918 GGAGAGATAGCTCTCATCGGTCAC-TTTT--TTAAATGTTT
1 GGAGAGACAGCTCTCATCGGTCACTTTTTAATTAAATGCTT
* * * * *
6956 GGAGAGACAACTCTCATTGGTTACTCTTTAATTAAATGTTT
1 GGAGAGACAGCTCTCATCGGTCACTTTTTAATTAAATGCTT
6997 GGAGAGACAGCTCTCATCGGTCACTTTTTAATTAAATG-TT
1 GGAGAGACAGCTCTCATCGGTCACTTTTTAATTAAATGCTT
* **
7037 TGAGAGACAGCTCTCATCGGTCACTTTTTTAATTGTTCAGAGA-GAGT
1 GGAGAGACAGCTCTCATCGGTCAC-TTTTTAA---TT-A-A-ATGCTT
*
7084 -GAGAGACAGCTCTCATCGGTCAC-CTTT--TTAAAT-CTTT
1 GGAGAGACAGCTCTCATCGGTCACTTTTTAATTAAATGC-TT
*
7121 AGAGAGACAGCTCTCATCGGTCACTTTTT
1 GGAGAGACAGCTCTCATCGGTCACTTTTT
7150 TTATTGTTTG
Statistics
Matches: 338, Mismatches: 40, Indels: 41
0.81 0.10 0.10
Matches are distributed among these distances:
36 1 0.00
37 4 0.01
38 48 0.14
39 12 0.04
40 28 0.08
41 140 0.41
42 72 0.21
44 5 0.01
45 1 0.00
46 25 0.07
47 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.37
Consensus pattern (41 bp):
GGAGAGACAGCTCTCATCGGTCACTTTTTAATTAAATGCTT
Found at i:7164 original size:19 final size:19
Alignment explanation
Indices: 7140--7178 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
7130 GCTCTCATCG
*
7140 GTCACTTTTTTTATTGTTT
1 GTCACTTTTTTAATTGTTT
7159 GTCACTTTTTTAATTGTTT
1 GTCACTTTTTTAATTGTTT
7178 G
1 G
7179 GAGATACAGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.13, C:0.10, G:0.13, T:0.64
Consensus pattern (19 bp):
GTCACTTTTTTAATTGTTT
Found at i:7232 original size:42 final size:42
Alignment explanation
Indices: 7168--7387 Score: 298
Period size: 42 Copynumber: 5.2 Consensus size: 42
7158 TGTCACTTTT
* * *
7168 TTAATTGTTTGGAGATACAGCTCTCATCAGTCACTTTTTTAA
1 TTAAATGTTTGGAGAGACAGCTCTCATCGGTCACTTTTTTAA
*
7210 TTAAATGTTTGGAAAGACAGCTCTCATCGGTCACTTTTTTAA
1 TTAAATGTTTGGAGAGACAGCTCTCATCGGTCACTTTTTTAA
* * * *
7252 TTAAATGCTTAGAGGGACAGCTCTCATCGGTCAC-TTTTTAG
1 TTAAATGTTTGGAGAGACAGCTCTCATCGGTCACTTTTTTAA
* *
7293 TTAAATGTTTGGAGAGATAGCTCTCATCGGTCACGTTTTTAA
1 TTAAATGTTTGGAGAGACAGCTCTCATCGGTCACTTTTTTAA
* * * *
7335 TTAAATGCTTGGAGAGATAGCTCTAATCGGTCATTTATTTTAA
1 TTAAATGTTTGGAGAGACAGCTCTCATCGGTCACTT-TTTTAA
7378 TTAAATGTTT
1 TTAAATGTTT
7388 AGAGTGTTTG
Statistics
Matches: 157, Mismatches: 19, Indels: 3
0.88 0.11 0.02
Matches are distributed among these distances:
41 36 0.23
42 106 0.68
43 15 0.10
ACGTcount: A:0.27, C:0.15, G:0.18, T:0.40
Consensus pattern (42 bp):
TTAAATGTTTGGAGAGACAGCTCTCATCGGTCACTTTTTTAA
Found at i:7315 original size:83 final size:83
Alignment explanation
Indices: 7179--7387 Score: 292
Period size: 83 Copynumber: 2.5 Consensus size: 83
7169 TAATTGTTTG
* *
7179 GAGATACAGCTCTCATCAGTCACTTTTTTAATTAAATGTTTGGAAAGACAGCTCTCATCGGTCAC
1 GAGAGACAGCTCTCATCGGTCAC-TTTTTAATTAAATGTTTGGAAAGACAGCTCTCATCGGTCAC
*
7244 TTTTTTAATTAAATGCTTA
65 GTTTTTAATTAAATGCTTA
* * * *
7263 GAGGGACAGCTCTCATCGGTCACTTTTTAGTTAAATGTTTGGAGAGATAGCTCTCATCGGTCACG
1 GAGAGACAGCTCTCATCGGTCACTTTTTAATTAAATGTTTGGAAAGACAGCTCTCATCGGTCACG
*
7328 TTTTTAATTAAATGCTTG
66 TTTTTAATTAAATGCTTA
* * *
7346 GAGAGATAGCTCTAATCGGTCATTTATTTTAATTAAATGTTT
1 GAGAGACAGCTCTCATCGGTCA-CT-TTTTAATTAAATGTTT
7388 AGAGTGTTTG
Statistics
Matches: 110, Mismatches: 13, Indels: 3
0.87 0.10 0.02
Matches are distributed among these distances:
83 74 0.67
84 21 0.19
85 15 0.14
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.38
Consensus pattern (83 bp):
GAGAGACAGCTCTCATCGGTCACTTTTTAATTAAATGTTTGGAAAGACAGCTCTCATCGGTCACG
TTTTTAATTAAATGCTTA
Found at i:7317 original size:467 final size:461
Alignment explanation
Indices: 6457--7379 Score: 1192
Period size: 467 Copynumber: 2.0 Consensus size: 461
6447 TAATTGTTCA
*
6457 GAGAGACAGCTCTCATCGGTCACTTTTTAATTAAACACTTGGAGAGACAGCTCTCATCGGTCACT
1 GAGAGACAGCTCTCATCGGTCACTTTTT-ATTAAACACTTGGAGAGACAACTCTCATCGGTCACT
* *
6522 TTTTTATTAAATGCTTGGAGAGACAGCTCTCATCGGTCACTTTTTAATTGGTTGGAGAGACAGCT
65 CTTTAATTAAATGCTTGGAGAGACAGCTCTCATCGGTCACTTTTTAATTGGTTGGAGAGACAGCT
* * * * *
6587 CTCATTGGTAACTTTTTTAATTATTTGGAGAGACAGCTCTCATCGGTCACTTTTTTAATTTTTGT
130 CTCATCGGTAACTTTTTTAATTATTAGGAGAGACAGCTCTCATCGGTCACCTTTTTAA--TATCT
* * *
6652 TTGGAGAGATAGCTCTCATCTGTCACTTTTTAAAATGTTCGTCACGTTTTTAATTGTCCGGAGAG
193 TTAGAGAGACAGCTCTCATCGGTCACTTTTTAAAATGTTCGTCACGTTTTTAATTGTCCGGAGAG
* * *
6717 ACAACTCTCATCGGTCACTTTTTTAATTAAATGCTTGGAGAGATAACTCTCATCGATCACTTTTT
258 ACAACTCTCATCAGTCACTTTTTTAATTAAATGCTTGGAAAGACAACTCTCATCGATCACTTTTT
** * *
6782 TCTTTAAATGCTTGGAGAGATAGCTCTCATCGGTCACTTTTTAATTAAATATTGAGAGAGACAGC
323 TAATTAAATGCTTAGAGAGACAGCTCTCATCGGTCACTTTTTAATTAAATATTGAGAGAGACAGC
* * * *
6847 TCTCATCGATTAC-TTTTTAATTAAATATTTGGATAGACAGCTCTCATCGGTCACTT-TTTTAAT
388 TCTCATCGATCACGTTTTTAATTAAATACTTGGAGAGACAGCTCTAATCGGTCACTTATTTTAAT
6910 TTTTGCTTG
453 TTTTGCTTG
* *** * *
6919 GAGAGATAGCTCTCATCGGTCAC-TTTT-TTAAATGTTTGGAGAGACAACTCTCATTGGTTACTC
1 GAGAGACAGCTCTCATCGGTCACTTTTTATTAAACACTTGGAGAGACAACTCTCATCGGTCACTC
* * *
6982 TTTAATTAAATGTTTGGAGAGACAGCTCTCATCGGTCACTTTTTAATTAAATGTTTGAGAGACAG
66 TTTAATTAAATGCTTGGAGAGACAGCTCTCATCGGTCACTTTTTAATT---GGTTGGAGAGACAG
* *
7047 CTCTCATCGGTCACTTTTTTAATTGTTCAGAGAGAGTGAGAGACAGCTCTCATCGGTCACCTTTT
128 CTCTCATCGGTAACTTTTTTAATTATT-------AG-GAGAGACAGCTCTCATCGGTCACCTTTT
** * * *
7112 TAA-ATCTTTAGAGAGACAGCTCTCATCGGTCACTTTTTTTATTGTTTGTCACTTTTTTAATTGT
185 TAATATCTTTAGAGAGACAGCTCTCATCGGTCACTTTTTAAAATGTTCGTCACGTTTTTAATTGT
** * * * * *
7176 TTGGAGATACAGCTCTCATCAGTCACTTTTTTAATTAAATGTTTGGAAAGACAGCTCTCATCGGT
250 CCGGAGAGACAACTCTCATCAGTCACTTTTTTAATTAAATGCTTGGAAAGACAACTCTCATCGAT
* * *
7241 CACTTTTTTAATTAAATGCTTAGAGGGACAGCTCTCATCGGTCACTTTTTAGTTAAATGTTTG-G
315 CACTTTTTTAATTAAATGCTTAGAGAGACAGCTCTCATCGGTCACTTTTTAATTAAAT-ATTGAG
* * * * *
7305 AGAGATAGCTCTCATCGGTCACGTTTTTAATTAAATGCTTGGAGAGATAGCTCTAATCGGTCATT
379 AGAGACAGCTCTCATCGATCACGTTTTTAATTAAATACTTGGAGAGACAGCTCTAATCGGTCACT
7370 TATTTTAATT
444 TATTTTAATT
7380 AAATGTTTAG
Statistics
Matches: 394, Mismatches: 53, Indels: 21
0.84 0.11 0.04
Matches are distributed among these distances:
459 75 0.19
461 4 0.01
462 58 0.15
467 178 0.45
468 40 0.10
469 9 0.02
470 30 0.08
ACGTcount: A:0.26, C:0.17, G:0.18, T:0.39
Consensus pattern (461 bp):
GAGAGACAGCTCTCATCGGTCACTTTTTATTAAACACTTGGAGAGACAACTCTCATCGGTCACTC
TTTAATTAAATGCTTGGAGAGACAGCTCTCATCGGTCACTTTTTAATTGGTTGGAGAGACAGCTC
TCATCGGTAACTTTTTTAATTATTAGGAGAGACAGCTCTCATCGGTCACCTTTTTAATATCTTTA
GAGAGACAGCTCTCATCGGTCACTTTTTAAAATGTTCGTCACGTTTTTAATTGTCCGGAGAGACA
ACTCTCATCAGTCACTTTTTTAATTAAATGCTTGGAAAGACAACTCTCATCGATCACTTTTTTAA
TTAAATGCTTAGAGAGACAGCTCTCATCGGTCACTTTTTAATTAAATATTGAGAGAGACAGCTCT
CATCGATCACGTTTTTAATTAAATACTTGGAGAGACAGCTCTAATCGGTCACTTATTTTAATTTT
TGCTTG
Found at i:7633 original size:20 final size:20
Alignment explanation
Indices: 7605--7642 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
7595 ATTAATTATA
*
7605 ATAGGCACGGAACATACTTG
1 ATAGACACGGAACATACTTG
*
7625 ATAGACACGGAAGATACT
1 ATAGACACGGAACATACT
7643 CGGCAGACAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.39, C:0.18, G:0.24, T:0.18
Consensus pattern (20 bp):
ATAGACACGGAACATACTTG
Found at i:12347 original size:14 final size:12
Alignment explanation
Indices: 12328--12370 Score: 52
Period size: 14 Copynumber: 3.5 Consensus size: 12
12318 AACTCAAAGC
12328 TAAAAAAAAAAA
1 TAAAAAAAAAAA
12340 TTTAAAAAAAAAAA
1 --TAAAAAAAAAAA
12354 -AAAAAAAAAAA
1 TAAAAAAAAAAA
*
12365 GAAAAA
1 TAAAAA
12371 GAAAGAAGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
11 11 0.39
12 5 0.18
14 12 0.43
ACGTcount: A:0.88, C:0.00, G:0.02, T:0.09
Consensus pattern (12 bp):
TAAAAAAAAAAA
Found at i:12371 original size:6 final size:6
Alignment explanation
Indices: 12343--12398 Score: 51
Period size: 6 Copynumber: 9.3 Consensus size: 6
12333 AAAAAAATTT
* * * *
12343 AAAAA- AAAAAA AAAAAA AAAAAG AAAAAG AAAGAAG AAGAAG AAGAAG
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAA-AAG AAAAAG AAAAAG
*
12391 AAGAAG AA
1 AAAAAG AA
12399 GCTCCCATAC
Statistics
Matches: 47, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
5 5 0.11
6 37 0.79
7 5 0.11
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:12379 original size:3 final size:3
Alignment explanation
Indices: 12363--12399 Score: 56
Period size: 3 Copynumber: 12.0 Consensus size: 3
12353 AAAAAAAAAA
*
12363 AAG AAA AAG AAAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG -AAG AAG AAG AAG AAG AAG AAG AAG AAG
12400 CTCCCATACC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
3 28 0.90
4 3 0.10
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:14992 original size:28 final size:29
Alignment explanation
Indices: 14958--15032 Score: 80
Period size: 30 Copynumber: 2.6 Consensus size: 29
14948 ACTTATAGCA
14958 TTTGGACGTTTTGTCCCTGAACT-TCAAT
1 TTTGGACGTTTTGTCCCTGAACTCTCAAT
* ** * *
14986 TTTGGACATTTTACCTCCTGAACTCTTATT
1 TTTGGACGTTTTGTC-CCTGAACTCTCAAT
*
15016 TTTGGATGTTTTGTCCC
1 TTTGGACGTTTTGTCCC
15033 CTCTCAAACA
Statistics
Matches: 36, Mismatches: 9, Indels: 3
0.75 0.19 0.06
Matches are distributed among these distances:
28 12 0.33
29 10 0.28
30 14 0.39
ACGTcount: A:0.16, C:0.21, G:0.16, T:0.47
Consensus pattern (29 bp):
TTTGGACGTTTTGTCCCTGAACTCTCAAT
Found at i:15141 original size:32 final size:32
Alignment explanation
Indices: 15103--15190 Score: 113
Period size: 32 Copynumber: 2.8 Consensus size: 32
15093 CAAGAACGAC
* *
15103 ACATGGCATTGCCACATCATCGGTTTGGTCCG
1 ACATGGCAATGCCACATCATCGGTTTGATCCG
* *
15135 ACATGGCAATACCACATCATCGGTTTGATCCT
1 ACATGGCAATGCCACATCATCGGTTTGATCCG
* **
15167 ACGTGGCAATGCCATGTCATCGGT
1 ACATGGCAATGCCACATCATCGGT
15191 ATGACAGTGT
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 48 1.00
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (32 bp):
ACATGGCAATGCCACATCATCGGTTTGATCCG
Found at i:16728 original size:13 final size:14
Alignment explanation
Indices: 16696--16731 Score: 56
Period size: 15 Copynumber: 2.6 Consensus size: 14
16686 ATATTTTTTT
16696 AAAAATATATTTCA
1 AAAAATATATTTCA
16710 ATAAAATATATTT-A
1 A-AAAATATATTTCA
16724 AAAAATAT
1 AAAAATAT
16732 TTAATTTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 7 0.33
14 3 0.14
15 11 0.52
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (14 bp):
AAAAATATATTTCA
Found at i:17169 original size:252 final size:255
Alignment explanation
Indices: 16709--17200 Score: 855
Period size: 252 Copynumber: 1.9 Consensus size: 255
16699 AATATATTTC
16709 AATAAAATATATTTAAAAAATATTTAATTTTTATTCCACGTGTCACCTGCCACGTCAGCAAAAAA
1 AATAAAATATATTTAAAAAATATTTAATTTTTATTCCACGTGTCACCTGCCACGTCAGC-AAAAA
* * **
16774 AAGACGGTGTTAGTGTCACGTCAGCATATTTGACGCGTCTGTCACGGCATGCTAACGTGAGGGGA
65 AAGACGGTGCTAGTGCCACGTCAGCATATTTGACGCGTCTGTCACGGCACACTAACGTGAGGGGA
*
16839 CCTCGGGTGATAGGTTCTGATAGTAGAGGGACGAATTTGTAGAAAAAAAAAGTACAGGGACCAAA
130 CCTCGGGTGATAGGTTCTGATAGTAGAGGGACGAATTTGTAGAAAAAAAAAGTACAAGGACCAAA
* *
16904 ATCAACATTTCGTATAGTACAGGGACCTCCCGGGTACTTTTACCAAAATAAATTTCAATAA
195 ATCAACATTTCGTATAGTACAGGGACCTCCCAGATACTTTTACCAAAATAAATTTCAATAA
*
16965 AATAAAATATA-TTAAAAAATATTTAATTTTTATTCCACGTGTCACCTGCCACGTCAGC-AAGAA
1 AATAAAATATATTTAAAAAATATTTAATTTTTATTCCACGTGTCACCTGCCACGTCAGCAAAAAA
*
17028 AGACGGTGCTAGTGCCACGTCAGCATATTTGACGGGTCTGTCACGGCACACTAACGTGA-GGGAC
66 AGACGGTGCTAGTGCCACGTCAGCATATTTGACGCGTCTGTCACGGCACACTAACGTGAGGGGAC
*
17092 CTCGGGTGATAGGTTCTGATAGTAGAGGGACGAATTTGTAGAAAAAAAAAGTACAAGGATCAAAA
131 CTCGGGTGATAGGTTCTGATAGTAGAGGGACGAATTTGTAGAAAAAAAAAGTACAAGGACCAAAA
*
17157 TCAACATTTCGTATAGTACAGGGACCTCCCATATACTTTTACCA
196 TCAACATTTCGTATAGTACAGGGACCTCCCAGATACTTTTACCA
17201 TTACATTCGC
Statistics
Matches: 225, Mismatches: 11, Indels: 4
0.94 0.05 0.02
Matches are distributed among these distances:
252 109 0.48
253 58 0.26
255 47 0.21
256 11 0.05
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.26
Consensus pattern (255 bp):
AATAAAATATATTTAAAAAATATTTAATTTTTATTCCACGTGTCACCTGCCACGTCAGCAAAAAA
AGACGGTGCTAGTGCCACGTCAGCATATTTGACGCGTCTGTCACGGCACACTAACGTGAGGGGAC
CTCGGGTGATAGGTTCTGATAGTAGAGGGACGAATTTGTAGAAAAAAAAAGTACAAGGACCAAAA
TCAACATTTCGTATAGTACAGGGACCTCCCAGATACTTTTACCAAAATAAATTTCAATAA
Found at i:24978 original size:26 final size:26
Alignment explanation
Indices: 24948--25002 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
24938 TGACCTGGTC
24948 CAAATCTTTAATGACCCAAACCCAAT
1 CAAATCTTTAATGACCCAAACCCAAT
* * *
24974 CAAATTTTTAATGACCCAAATCCGAT
1 CAAATCTTTAATGACCCAAACCCAAT
25000 CAA
1 CAA
25003 CCCGAAAGAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.42, C:0.27, G:0.05, T:0.25
Consensus pattern (26 bp):
CAAATCTTTAATGACCCAAACCCAAT
Found at i:27326 original size:2 final size:2
Alignment explanation
Indices: 27319--27345 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
27309 TATTTTTATT
27319 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 T
27346 TCTTTGATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:51117 original size:19 final size:20
Alignment explanation
Indices: 51080--51117 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
51070 TAAATGCTCC
* *
51080 AATTTTTTTCTTTTTAATTT
1 AATTTTTTTCTGTTGAATTT
51100 AATTTTTTT-TGTTGAATT
1 AATTTTTTTCTGTTGAATT
51118 CTTATTTTGT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 7 0.44
20 9 0.56
ACGTcount: A:0.21, C:0.03, G:0.05, T:0.71
Consensus pattern (20 bp):
AATTTTTTTCTGTTGAATTT
Found at i:55241 original size:13 final size:13
Alignment explanation
Indices: 55223--55247 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
55213 CGGAAAATTC
55223 AGAAGTGCTTTTT
1 AGAAGTGCTTTTT
55236 AGAAGTGCTTTT
1 AGAAGTGCTTTT
55248 CAGTTGTTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.08, G:0.24, T:0.44
Consensus pattern (13 bp):
AGAAGTGCTTTTT
Found at i:58487 original size:18 final size:19
Alignment explanation
Indices: 58464--58499 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
58454 TGTTTTGAGT
58464 GTTAATCCAA-AAAGAAAA
1 GTTAATCCAATAAAGAAAA
*
58482 GTTAATTCAATAAAGAAA
1 GTTAATCCAATAAAGAAA
58500 GGGGGAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.58, C:0.08, G:0.11, T:0.22
Consensus pattern (19 bp):
GTTAATCCAATAAAGAAAA
Found at i:60201 original size:11 final size:10
Alignment explanation
Indices: 60176--60203 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
60166 TATCATTTTC
60176 CAAAAACTGT
1 CAAAAACTGT
60186 CAAAAACTGT
1 CAAAAACTGT
60196 CAAAAACT
1 CAAAAACT
60204 ACTCACGTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.54, C:0.21, G:0.07, T:0.18
Consensus pattern (10 bp):
CAAAAACTGT
Found at i:63498 original size:24 final size:24
Alignment explanation
Indices: 63439--63499 Score: 88
Period size: 24 Copynumber: 2.5 Consensus size: 24
63429 AAGTGCTTCA
*
63439 TCTTCTTCTCCTTCTTCCCCAACT
1 TCTTCTTCTTCTTCTTCCCCAACT
63463 TCTTCCTT-TTCTTCTTCCCCAACT
1 TCTT-CTTCTTCTTCTTCCCCAACT
*
63487 TCTTTTTCTTCTT
1 TCTTCTTCTTCTT
63500 ACCCTAATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
23 2 0.06
24 28 0.85
25 3 0.09
ACGTcount: A:0.07, C:0.39, G:0.00, T:0.54
Consensus pattern (24 bp):
TCTTCTTCTTCTTCTTCCCCAACT
Found at i:64477 original size:13 final size:13
Alignment explanation
Indices: 64459--64484 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
64449 GTCTTAGGGA
64459 AAAAAAAAAAACC
1 AAAAAAAAAAACC
64472 AAAAAAAAAAACC
1 AAAAAAAAAAACC
64485 CTAGTATCAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAAACC
Found at i:65648 original size:19 final size:19
Alignment explanation
Indices: 65603--65660 Score: 71
Period size: 19 Copynumber: 2.9 Consensus size: 19
65593 CAGTGCTCTA
* *
65603 TAATCTCATCCGTACAGTACC
1 TAATCTCATCTGTACAGT--G
*
65624 TAATCTTATCTGTACAGTG
1 TAATCTCATCTGTACAGTG
65643 TAATCTCATCTGTACAGT
1 TAATCTCATCTGTACAGT
65661 TGCTAAACAG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
19 17 0.52
21 16 0.48
ACGTcount: A:0.28, C:0.24, G:0.12, T:0.36
Consensus pattern (19 bp):
TAATCTCATCTGTACAGTG
Found at i:69613 original size:120 final size:118
Alignment explanation
Indices: 69353--69715 Score: 594
Period size: 123 Copynumber: 3.1 Consensus size: 118
69343 AAACTTTTGG
69353 AATTAAAACTTTTTCTTTATTATATAATTATTATATTATCAAATATATATTAAATAAGTTTTTTT
1 AATTAAAAC-TTTTCTTTATTATATAATTATTATA-TATCAAATATATATTAAATAAG-TTTTTT
69418 TATAGAATTATTACAAGTTTCATAACGTATATTATACCATTGAATTTTGTGGTTATAAA
63 TATAGAATTATTACAAGTTTCATAACG--TA-TATACCATTGAATTTTGTGGTTATAAA
69477 AATTAAAACTTTTCTTTATTATATAATTATTATTACTATCAAATATATATTAAATAAGTTTTTTT
1 AATTAAAACTTTTCTTTATTATATAATTATTA-TA-TATCAAATATATATTAAATAAGTTTTTTT
*
69542 ATATAATTATTACAAGTTTCATAACGTATATACCATTGAATTTTGTGGTTATAAA
64 ATAGAATTATTACAAGTTTCATAACGTATATACCATTGAATTTTGTGGTTATAAA
69597 AATTAAAACTTTTCTTTATTATATAA-T-TTAT-TATCAAATATATATTAAATAAG--TTTTTAT
1 AATTAAAACTTTTCTTTATTATATAATTATTATATATCAAATATATATTAAATAAGTTTTTTTAT
*
69657 AGAATTATTGCAAGTTTCAT-ACGTATATACCATTGAATTTTGTGGTTATAAA
66 AGAATTATTACAAGTTTCATAACGTATATACCATTGAATTTTGTGGTTATAAA
69709 AATTAAA
1 AATTAAA
69716 TCTCTATAAA
Statistics
Matches: 234, Mismatches: 4, Indels: 14
0.93 0.02 0.06
Matches are distributed among these distances:
112 39 0.17
113 25 0.11
115 22 0.09
117 1 0.00
118 3 0.01
119 1 0.00
120 53 0.23
121 2 0.01
123 55 0.24
124 33 0.14
ACGTcount: A:0.39, C:0.07, G:0.07, T:0.47
Consensus pattern (118 bp):
AATTAAAACTTTTCTTTATTATATAATTATTATATATCAAATATATATTAAATAAGTTTTTTTAT
AGAATTATTACAAGTTTCATAACGTATATACCATTGAATTTTGTGGTTATAAA
Found at i:69708 original size:112 final size:114
Alignment explanation
Indices: 69353--69715 Score: 550
Period size: 120 Copynumber: 3.1 Consensus size: 114
69343 AAACTTTTGG
69353 AATTAAAACTTTTTCTTTATTATATAATTATTATATTATCAAATATATATTAAATAAGTTTTTTT
1 AATTAAAAC-TTTTCTTTATTATAT-A--ATT-TATTATCAAATATATATTAAATAAG--TTTTT
69418 TATAGAATTATTACAAGTTTCATAACGTATATTATACCATTGAATTTTGTGGTTATAAA
59 TATAGAATTATTACAAGTTTCATAACG--TA-TATACCATTGAATTTTGTGGTTATAAA
69477 AATTAAAACTTTTCTTTATTATATAATTATTATTACTATCAAATATATATTAAATAAGTTTTTTT
1 AATTAAAACTTTTCTTTATTATATAA-T-TTA-T--TATCAAATATATATTAAATAAG-TTTTTT
*
69542 ATATAATTATTACAAGTTTCATAACGTATATACCATTGAATTTTGTGGTTATAAA
60 ATAGAATTATTACAAGTTTCATAACGTATATACCATTGAATTTTGTGGTTATAAA
69597 AATTAAAACTTTTCTTTATTATATAATTTATTATCAAATATATATTAAATAAG-TTTTTATAGAA
1 AATTAAAACTTTTCTTTATTATATAATTTATTATCAAATATATATTAAATAAGTTTTTTATAGAA
*
69661 TTATTGCAAGTTTCAT-ACGTATATACCATTGAATTTTGTGGTTATAAA
66 TTATTACAAGTTTCATAACGTATATACCATTGAATTTTGTGGTTATAAA
69709 AATTAAA
1 AATTAAA
69716 TCTCTATAAA
Statistics
Matches: 231, Mismatches: 3, Indels: 22
0.90 0.01 0.09
Matches are distributed among these distances:
112 39 0.17
113 25 0.11
115 22 0.10
117 1 0.00
118 3 0.01
119 1 0.00
120 54 0.23
121 5 0.02
122 3 0.01
123 47 0.20
124 31 0.13
ACGTcount: A:0.39, C:0.07, G:0.07, T:0.47
Consensus pattern (114 bp):
AATTAAAACTTTTCTTTATTATATAATTTATTATCAAATATATATTAAATAAGTTTTTTATAGAA
TTATTACAAGTTTCATAACGTATATACCATTGAATTTTGTGGTTATAAA
Found at i:73641 original size:14 final size:14
Alignment explanation
Indices: 73619--73652 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
73609 AAGAAAATTT
73619 TATAAATAAATATA
1 TATAAATAAATATA
*
73633 TATAGATAAATATA
1 TATAAATAAATATA
73647 TATAAA
1 TATAAA
73653 CATTTTGCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (14 bp):
TATAAATAAATATA
Done.