Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01009521.1 Corchorus capsularis cultivar CVL-1 contig09542, 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: 68016
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Found at i:755 original size:247 final size:248
Alignment explanation
Indices: 317--814 Score: 603
Period size: 247 Copynumber: 2.0 Consensus size: 248
307 TATTTAGGCC
*
317 AAAAATTGAGGAAAAATATTTCGGGTCAAATTTTGCAAAATTTTAGCCGAAATCGTGTACTAACC
1 AAAAATTGAGGAAAAATATTTCGGGTCAAATTTTGCAAAATTTTAGCCAAAATCGTGTACTAACC
* * *
382 ATCACGGTTTTTTGGCTAAAAACGCATTCCGGGTCCCCAGCTCAGTTTTGCAAGATTTTTAGTGT
66 ATCACGGTTTTTTGGCTAAAAACACATTCAGGGTCCCCAGCTCAGTTTTGCAAGATTTTTAGTGC
* *** * *
447 CGAGACTCCCAAAAGTATATATTCATGTAACCAAATCTCAATTTATAATGGATTTAAGGATTTGT
131 CAAGACTCCCAAAAGTATATATTCATGTAACCAAATCTCAAGCCACAATGGATTGAAGGATTTGT
**
512 TTTTACAAGCATTGGAAACCGT-TTTCAATTTCATTAAAAATTAATTC-AGAAA
196 TTTTACAAGCATCAGAAACCGTATTT-AATTTCATTAAAAATTAATTCAAGAAA
* * *
564 AAAAATTGAGGAAAACTATTTCGGGTCAATTTTTGCAAAATTTTAGCCAAAATCGTGTACTAATC
1 AAAAATTGAGGAAAAATATTTCGGGTCAAATTTTGCAAAATTTTAGCCAAAATCGTGTACTAACC
* * ** *
629 ATCACGG-TTTTTGGCTAAAAACACGTTCTAGGG-CCCCGGCTCAGTTTTGCTTGATTTTTGGTG
66 ATCACGGTTTTTTGGCTAAAAACACATTC-AGGGTCCCCAGCTCAGTTTTGCAAGATTTTTAGTG
* * * * ** * * ** *
692 CCAAGACTCCTTGAAATA-TCTTTATTCATGTTACTGAGTCT-TAGCCACGTTGGGTTGAAGGAT
130 CCAAGACTCC--CAAA-AGTATATATTCATGTAACCAAATCTCAAGCCACAATGGATTGAAGGAT
* * *
755 TTGTTTTTACGAGCATCAGAAACCGTATTTATTTTCATTAACAATTAATTCAAGAAA
192 TTGTTTTTACAAGCATCAGAAACCGTATTTAATTTCATTAAAAATTAATTCAAGAAA
812 AAA
1 AAA
815 TAGGAAAATC
Statistics
Matches: 211, Mismatches: 34, Indels: 11
0.82 0.13 0.04
Matches are distributed among these distances:
246 53 0.25
247 126 0.60
248 31 0.15
249 1 0.00
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.34
Consensus pattern (248 bp):
AAAAATTGAGGAAAAATATTTCGGGTCAAATTTTGCAAAATTTTAGCCAAAATCGTGTACTAACC
ATCACGGTTTTTTGGCTAAAAACACATTCAGGGTCCCCAGCTCAGTTTTGCAAGATTTTTAGTGC
CAAGACTCCCAAAAGTATATATTCATGTAACCAAATCTCAAGCCACAATGGATTGAAGGATTTGT
TTTTACAAGCATCAGAAACCGTATTTAATTTCATTAAAAATTAATTCAAGAAA
Found at i:1148 original size:581 final size:581
Alignment explanation
Indices: 5--1149 Score: 1556
Period size: 581 Copynumber: 2.0 Consensus size: 581
1 TTTT
*
5 GGGTCAATTTTTACAAAATTTTAACCGAAATCGTGTACTAACCATCACGCCTTTTGGCTAAAAAC
1 GGGTCAATTTTTACAAAATTTTAACCAAAATCGTGTACTAACCATCACGCCTTTTGGCTAAAAAC
* * * *
70 ACGTTCTGGGGCCCCAGCTCAGTTTTGCGTGATTTTTTGTGCCGAGACTCCTTTAAATATATTTA
66 ACGTTCTAGGGCCCCAGCTCAGTTTTGCGTGATTTTTGGTGCCAAGACTCCTTGAAATATATTTA
* *
135 TTCATGTTATTGAATCTCAGCCACGTTGGATTTAAGGATTTGTCTTTACGAGCATCAGAAACCGT
131 TTCATGTTACTGAATCTCAGCCACGTTGGATTGAAGGATTTGTCTTTACGAGCATCAGAAACCGT
* * * *
200 TTTCATTTTTCATTAGCAATTAATTCAGGAAAAAAATAGGTAAATCATTGTTCGAAAAGTTAAAA
196 TTTCATTTTTCATTAACAATTAATTCAAGAAAAAAATAGGAAAATCATTGTTCGAAAAGTGAAAA
* *
265 GCCCTTATATCTTTTTGGTGTTGAATTATATATTTTTATGGGTATTTAGGCCAAAAATTGAGGAA
261 GCCCTTATATCCTTTTGGTGTTGAATTATATATTTTTATGAGTATTTAGGCCAAAAATTGAGGAA
330 AAATATTTCGGGTCAAATTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTTT
326 AAATATTTCGGGTCAAATTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTTT
* * **
395 GGCTAAAAACGCATTCCGGGTCCCCAGCTCAGTTTTGCAAGATTTTTAGTGTCGAGACTCCCAAA
391 GGCTAAAAACGCATTCCGGGGCCCCAGCCCAGTTTTGCAAGATTTTTAGTACCGAGACTCCCAAA
*** * * * * *
460 AGTATATATTCATGTAACCAAATCTCAATTTATAATGGATTTAAGGATTTGTTTTTACAAGCATT
456 AGTATATATTCATGTAACCAAATCTCAAGCCACAATGAACTTAAGGATTTATTTTTACAAGCATC
525 GGAAACCGTTTTCAATTTCATTAAAAATTAATTCAGAAAAAAAATTGAGGAAAACTATTTC
521 GGAAACCGTTTTCAATTTCATTAAAAATTAATTCAGAAAAAAAATTGAGGAAAACTATTTC
* * * **
586 GGGTCAATTTTTGCAAAATTTTAGCCAAAATCGTGTACTAATCATCACGGTTTTTGGCTAAAAAC
1 GGGTCAATTTTTACAAAATTTTAACCAAAATCGTGTACTAACCATCACGCCTTTTGGCTAAAAAC
* * *
651 ACGTTCTAGGGCCCCGGCTCAGTTTTGCTTGATTTTTGGTGCCAAGACTCCTTGAAATATCTTTA
66 ACGTTCTAGGGCCCCAGCTCAGTTTTGCGTGATTTTTGGTGCCAAGACTCCTTGAAATATATTTA
* * * *
716 TTCATGTTACTGAGTCTTAGCCACGTTGGGTTGAAGGATTTGTTTTTACGAGCATCAGAAACCGT
131 TTCATGTTACTGAATCTCAGCCACGTTGGATTGAAGGATTTGTCTTTACGAGCATCAGAAACCGT
*
781 ATTT-A-TTTTCATTAACAATTAATTCAAG-AAAAAATAGGAAAATCGTTGTTCGAAAAGTGAAA
196 -TTTCATTTTTCATTAACAATTAATTCAAGAAAAAAATAGGAAAATCATTGTTCGAAAAGTGAAA
* *
843 AGCCCTTATGTCCTTTTGGTGTTGAATTATATATTTTTTATGAGTATTTCGGCCAAAAATTGAGG
260 AGCCCTTATATCCTTTTGGTGTTGAATTATATA-TTTTTATGAGTATTTAGGCCAAAAATTGAGG
* * * *
908 AAAAATATTTTGGGTCAATTTTTAG-AGAA-TTTAGCCGAAATCGTTTACTAACCATCACGG-TT
324 AAAAATATTTCGGGTCAAATTTT-GCAAAATTTTAGCCGAAATCGTGTACTAACCATCACGGTTT
** ** **** *
970 TTTGGCTAAAAACGTGTTATGGGGGCCCC-GACCCAGTTTTGCGTTCTTTTTGGTACCGAGACTC
388 TTTGGCTAAAAACGCATT-CCGGGGCCCCAG-CCCAGTTTTGCAAGATTTTTAGTACCGAGACTC
* * * * **
1034 CTTGAAATA-TCTTTATTCATGTTA-CAGAATCTC-AGCCACGTTGAACTTAAGGATTTATTTTT
451 C--CAAA-AGTATATATTCATGTAACCA-AATCTCAAGCCACAATGAACTTAAGGATTTATTTTT
* * **
1096 ACGAGCATCGGAAACCGGTTTT-ATTTTCATTAGCAATTAATTCAGAAAAAAAAT
512 ACAAGCATCGGAAACC-GTTTTCAATTTCATTAAAAATTAATTCAGAAAAAAAAT
1150 AGGTAAATCG
Statistics
Matches: 491, Mismatches: 63, Indels: 21
0.85 0.11 0.04
Matches are distributed among these distances:
578 19 0.04
579 125 0.25
580 139 0.28
581 204 0.42
582 4 0.01
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.36
Consensus pattern (581 bp):
GGGTCAATTTTTACAAAATTTTAACCAAAATCGTGTACTAACCATCACGCCTTTTGGCTAAAAAC
ACGTTCTAGGGCCCCAGCTCAGTTTTGCGTGATTTTTGGTGCCAAGACTCCTTGAAATATATTTA
TTCATGTTACTGAATCTCAGCCACGTTGGATTGAAGGATTTGTCTTTACGAGCATCAGAAACCGT
TTTCATTTTTCATTAACAATTAATTCAAGAAAAAAATAGGAAAATCATTGTTCGAAAAGTGAAAA
GCCCTTATATCCTTTTGGTGTTGAATTATATATTTTTATGAGTATTTAGGCCAAAAATTGAGGAA
AAATATTTCGGGTCAAATTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTTT
GGCTAAAAACGCATTCCGGGGCCCCAGCCCAGTTTTGCAAGATTTTTAGTACCGAGACTCCCAAA
AGTATATATTCATGTAACCAAATCTCAAGCCACAATGAACTTAAGGATTTATTTTTACAAGCATC
GGAAACCGTTTTCAATTTCATTAAAAATTAATTCAGAAAAAAAATTGAGGAAAACTATTTC
Found at i:1195 original size:333 final size:333
Alignment explanation
Indices: 564--4290 Score: 3662
Period size: 333 Copynumber: 11.1 Consensus size: 333
554 AATTCAGAAA
* * *
564 AAAAATTGAGGAAAACTATTTCGGGTCAATTTTTGCAAAATTTTAGCCAAAATCGTGTACTAATC
1 AAAAATTGAGGAAAAATATTTCGGGTCAATTTTTG-AAAATTTTAGCCGAAATCGTGTACTAACC
* * * *
629 ATCACGGTTTTTGGCTAAAAACACGTTCTAGGGCCCCGGCTCAGTTTTGCTTGATTTTTGGTGCC
65 ATCACGGTTTTTGGCTAAAAACGCGTTATGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGTGCC
* * * * * *
694 AAGACTCCTTGAAATATCTTTATTCATGTTACTGAGTCTTAGCCACGTTGGGTTGAAGGATTTGT
130 GAGACTCCTTGAAATATCTTTATTCATGTTACAGAATCTCAGCCACGTTGGATTTAAGGATTTGT
* *
759 TTTTACGAGCATCAGAAACCGTATTT-ATTTTCATTAACAATTAATTCA-AGAAAAAATAGGAAA
195 TTTTACGAGCATCAGAAACCGT-TTTCATTTTCATTAGCAATTAATTCAGAAAAAAAATAGGAAA
* * * * *
822 ATCGTTGTTCGAAAAGTGAAAAGCCCTTATGTCCTTTTGGTGTTGAATTATATATTTTTTATGAG
259 ATCGATGTTAGAAGAGTGAAAAGCCCTTATATCTTTTTGGTGTTGAATTATATATTTTTTATGAG
887 TATTTCGGCC
324 TATTTCGGCC
* * *
897 AAAAATTGAGGAAAAATATTTTGGGTCAATTTTTAGAGAA-TTTAGCCGAAATCGTTTACTAACC
1 AAAAATTGAGGAAAAATATTTCGGGTCAATTTTT-GAAAATTTTAGCCGAAATCGTGTACTAACC
* * * * ** *
961 ATCACGGTTTTTGGCTAAAAACGTGTTATGGGGGCCCCGACCCAGTTTTGCGTTCTTTTTGGTAC
65 ATCACGGTTTTTGGCTAAAAACGCGTTAT-GGGGCCCCGGCTCAGTTTTGCATGATTTTTGGTGC
* * *
1026 CGAGACTCCTTGAAATATCTTTATTCATGTTACAGAATCTCAGCCACGTTGAACTTAAGGATTTA
129 CGAGACTCCTTGAAATATCTTTATTCATGTTACAGAATCTCAGCCACGTTGGATTTAAGGATTTG
* *
1091 TTTTTACGAGCATCGGAAACCGGTTTT-ATTTTCATTAGCAATTAATTCAGAAAAAAAATAGGTA
194 TTTTTACGAGCATCAGAAACC-GTTTTCATTTTCATTAGCAATTAATTCAGAAAAAAAATAGGAA
* * *
1155 AATCGATGTTGGAAGAGTGAAAAGCCCTTATAT-TTTTTGGTGTTGAATTGTATATTATTTATGA
258 AATCGATGTTAGAAGAGTGAAAAGCCCTTATATCTTTTTGGTGTTGAATTATATATTTTTTATGA
1219 GTATTTCGGCC
323 GTATTTCGGCC
* * *
1230 AAAAATTGAGGAATAATATTTCGCGTCAAATTTTGCAAAATTTTAGCCGAAATCGTGTACTAACC
1 AAAAATTGAGGAAAAATATTTCGGGTCAATTTTTG-AAAATTTTAGCCGAAATCGTGTACTAACC
* * ** * *
1295 ATCCCGGTTTTTGTCTAAAAACGCGTTCCGGGTCCCCGGCTCAGTTTTGCATGATTTTTGGTGTC
65 ATCACGGTTTTTGGCTAAAAACGCGTTATGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGTGCC
* ** * * * *** *
1360 GACACTCCTAAAAATATAC---ATTCATATAACCA-AATCTCAGTCAAAATGGATTTAACGATTT
130 GAGACTCCTTGAAATAT-CTTTATTCATGTTA-CAGAATCTCAGCCACGTTGGATTTAAGGATTT
** * **
1421 GTTTTTACGAGCATTGGAAACCGTTTTCAATTTCATTAAAAATTAATTCAG----AAAA-A--AA
193 GTTTTTACGAGCATCAGAAACCGTTTTCATTTTCATTAGCAATTAATTCAGAAAAAAAATAGGAA
1479 AATCGATGTTAGAAGAGTGAAACA-CCCTTATATCTTTTTGGTGTTGAATTATATATTTTTTATG
258 AATCGATGTTAGAAGAGTGAAA-AGCCCTTATATCTTTTTGGTGTTGAATTATATATTTTTTATG
1543 AGTATTTCGGCC
322 AGTATTTCGGCC
* *
1555 AAAAATTGAGGAAAAATATTTCGGGTCAATTTTTGCAAAATTTTAGCCAAAATCGTGTACTAAAC
1 AAAAATTGAGGAAAAATATTTCGGGTCAATTTTTG-AAAATTTTAGCCGAAATCGTGTACTAACC
* * ** *** * *
1620 ATCACGGTTCTTGGCTAAAAAACGTGTTCCGAATCACCGGCTTAGTTTTGCATGATTTTTGGTGC
65 ATCACGGTTTTTGGCT-AAAAACGCGTTATGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGTGC
* * * * * *
1685 CGAGACTCCTAAAATAATATATATATATATATGTGTATGTATATATATATATTCATGTAACCAAA
129 CGAGACTCCT----TGA-A-ATATCT-T-TAT-T-CATGT-TACAGA-AT-CTCA-G---CC--A
** * *
1750 TTTCAGTTACATTGGATTTAAGAATTTGTTTTTACGAGCATCAGAAATC--TTT--TTTTCATTA
175 ---C-GTTGGATT---T--AAGGATTTGTTTTTACGAGCATCAGAAACCGTTTTCATTTTCATTA
** * * * *
1811 AAAATTAATTTAG-AAAAAAATAGGAAAATCGATGTAAGAAGAGTAAAAAACCCTTATATCTTTT
231 GCAATTAATTCAGAAAAAAAATAGGAAAATCGATGTTAGAAGAGTGAAAAGCCCTTATATCTTTT
** **
1875 TGGCATTGAATTATATATTTTTTATGAGTATTTCAACC
296 TGGTGTTGAATTATATATTTTTTATGAGTATTTCGGCC
* * *
1913 AAAAAATGAGGAAAAATATTTCGGGTCAATTTTTAAAAAATTTTAGCCGAAATCGTGCACTAACC
1 AAAAATTGAGGAAAAATATTTCGGGTCAATTTTT-GAAAATTTTAGCCGAAATCGTGTACTAACC
* * * * * *
1978 ATCACAGTTTTTTTGCTAAAAACGCGTTCTGGGGCCCCGGCTCAGTTTTGCGTGATTTCTGGTGT
65 ATCAC-GGTTTTTGGCTAAAAACGCGTTATGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGTGC
* * *
2043 CGAGACTCCTTAAAATATCTATATTCATGTTACTGAATCTCAGCCACGTTGGATTTAAGGATTTG
129 CGAGACTCCTTGAAATATCTTTATTCATGTTACAGAATCTCAGCCACGTTGGATTTAAGGATTTG
* *
2108 TATTTACGAGCATCAGAAACCGTTTTCATTTTCATTAGCAATTAATTC--AAGAAAAATAGGAAA
194 TTTTTACGAGCATCAGAAACCGTTTTCATTTTCATTAGCAATTAATTCAGAAAAAAAATAGGAAA
* * * * *
2171 ATCGTTTTTCGAAAAGTGAAAAACCCCTTATATCTTTTTGGTGTTGAATTATATATTTTTTATGA
259 ATCGATGTTAGAAGAGTG-AAAAGCCCTTATATCTTTTTGGTGTTGAATTATATATTTTTTATGA
*
2236 GTATTTCGGCA
323 GTATTTCGGCC
* * *
2247 AAAAATTGAGGAAAAATATTTCGGGTCAATTTTTACAAAATTTAAGCCGAAATCGTGTACTAAGC
1 AAAAATTGAGGAAAAATATTTCGGGTCAATTTTT-GAAAATTTTAGCCGAAATCGTGTACTAACC
* * * * * *
2312 ATCACGGTTTTTGGCTAAAAACGTGTTCTGGGGCCCCGGCCCAGTTTTGCGTAATTTTTGGTGTC
65 ATCACGGTTTTTGGCTAAAAACGCGTTATGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGTGCC
* * * *
2377 GAGACTCCTTGAAATATCTTTATTCATGTTACAGAATATCAGTCACGTTGAATTTAAGGATTTAT
130 GAGACTCCTTGAAATATCTTTATTCATGTTACAGAATCTCAGCCACGTTGGATTTAAGGATTTGT
* * *
2442 TTTTACGAGCATCGGAAACCGGTTTT-ATTTTCATTAGTAATTAATTTAG-AAAAAAATAGGAAA
195 TTTTACGAGCATCAGAAACC-GTTTTCATTTTCATTAGCAATTAATTCAGAAAAAAAATAGGAAA
* * *
2505 ACCGATGTTAGAAGAGTGAAAAGACCTTATATTTTTTTGGTGTTCG-ATTATATATTTTTTATGA
259 ATCGATGTTAGAAGAGTGAAAAGCCCTTATATCTTTTTGGTGTT-GAATTATATATTTTTTATGA
**
2569 GTATTTCGGAA
323 GTATTTCGGCC
* * *** * * *
2580 AAAAATTGATGAAAAATATTTCCGGTTGCTTTTTGCAAATTTTAGTCGAAATCGTATACTAACCA
1 AAAAATTGAGGAAAAATATTTCGGGTCAATTTTTGAAAATTTTAGCCGAAATCGTGTACTAACCA
** * * * * * * *
2645 TCACGGTTTTTTTCCTAGAAACGCATTTTGGGGCCCTGACACAGTTTTACATGATTTTTGGTGCC
66 TCACGG-TTTTTGGCTAAAAACGCGTTATGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGTGCC
* * * * * * *
2710 GAGACTCCTTGAAATATCTATATTCATGTAACAAAAAT-TTAGGCACATTTGATTTAAGGATTTG
130 GAGACTCCTTGAAATATCTTTATTCATGTTAC-AGAATCTCAGCCACGTTGGATTTAAGGATTTG
* * * * *
2774 TTTTTATGAGCATCGGAAACCTTTTTCAATTTCATTAGAAATTAATTCAG--AAAAAATAGGAAA
194 TTTTTACGAGCATCAGAAACCGTTTTCATTTTCATTAGCAATTAATTCAGAAAAAAAATAGGAAA
* * **
2837 ATCGATGTTATAAGAGTGAAAAACCCTTATATCTTTTTGGCATTGAATTATATA-TTTTTATGAG
259 ATCGATGTTAGAAGAGTGAAAAGCCCTTATATCTTTTTGGTGTTGAATTATATATTTTTTATGAG
*
2901 TATTTCAGCC
324 TATTTCGGCC
* *
2911 AAAAATTAAGGAAAAATATTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTATACTAACC
1 AAAAATTGAGGAAAAATATTTCGGGTCAATTTTTG-AAAATTTTAGCCGAAATCGTGTACTAACC
* *
2976 ATCACGATTTTTGGCTAAAAACGCGTTAT-GGGCCCCGGCTCAGTTTTGCGTGATTTTTGGTGCC
65 ATCACGGTTTTTGGCTAAAAACGCGTTATGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGTGCC
* * * * ** * * *
3040 -AGGACTCCTTGAAATATCTTTATTCATGTAACTGATTTTTTGCCACATTTGATTTAATGATTTG
130 GA-GACTCCTTGAAATATCTTTATTCATGTTACAGAATCTCAGCCACGTTGGATTTAAGGATTTG
** * *
3104 TTTTTACGAGTGTCAAAAACCGTTTTCATTTTCATTTGCAATTAATTC--AAAAAAAATAGGAAA
194 TTTTTACGAGCATCAGAAACCGTTTTCATTTTCATTAGCAATTAATTCAGAAAAAAAATAGGAAA
* * *
3167 ATCGTTGTTCGAGGAGTGAAAAGCCCTTATAT-TTTTTGGTGTTGAATTATATATTTTTTATGAG
259 ATCGATGTTAGAAGAGTGAAAAGCCCTTATATCTTTTTGGTGTTGAATTATATATTTTTTATGAG
3231 TATTTCGGCC
324 TATTTCGGCC
* * * * *
3241 AAAAATTGAGGAAAAACATTTCGGGTCAATCTCTGGAAAATTTTTGCCGAAATCGTGTACTAACA
1 AAAAATTGAGGAAAAATATTTCGGGTCAAT-TTTTGAAAATTTTAGCCGAAATCGTGTACTAACC
* ** *
3306 ATCATGGTTTTTTAATAGCAGAAAAAAAAAAAAAAGCAATCATGGTTTTTGTCTAAAAACGCGTT
65 ATCACGG--TTTT--T-G--G---------CTAAA--AA-C---G----CGT-T----A------
* ** * * * * *
3371 TCGGGTCCCCGGCTTTGTTTTGCATGATTTTTGGTGCCTAAACTCC-TAAAAGTATATATATTCA
93 T-GGGGCCCCGGCTCAGTTTTGCATGATTTTTGGTGCCGAGACTCCTTGAAA-TATCTTTATTCA
* * * ** * *
3435 TGTAACCA-AATATCAGTCACAATGGATTTAAGGATTTGTTTTTACGTGCATCGGAAACCGTTTT
156 TGTTA-CAGAATCTCAGCCACGTTGGATTTAAGGATTTGTTTTTACGAGCATCAGAAACCGTTTT
* * * *
3499 CAATTTCATTAGAAATTAATTGAGAAAAAAAATAGGAAAATCGATGTTAGAAGAGTGAAAACCCC
220 CATTTTCATTAGCAATTAATTCAGAAAAAAAATAGGAAAATCGATGTTAGAAGAGTGAAAAGCCC
* ** * * * *
3564 TTATATCTTTTTAGCATGGAATTATATATTTTTTATTAGTATTTTGTCC
285 TTATATCTTTTTGGTGTTGAATTATATATTTTTTATGAGTATTTCGGCC
* *
3613 AAAAATTGAGGAAAAATATTTCGGGTCAATTTTTACAAAATTTTAGCCGAAATCGTGTAATAACC
1 AAAAATTGAGGAAAAATATTTCGGGTCAATTTTT-GAAAATTTTAGCCGAAATCGTGTACTAACC
* * *
3678 ATCACAGTTTTTTCGGCTAAAAACGCGTTCA-AGAGCCCCGGCTCAGTTTTGCATGATTTTTGGT
65 ATCAC-GGTTTTT-GGCTAAAAACGCGTT-ATGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGT
* * * * * * **
3742 GCCAAGACTCCTCT-AAATATCTTTATTCATGTAACCGAACCTCATCCACATTGGATTTAAATAT
127 GCCGAGACTCCT-TGAAATATCTTTATTCATGTTACAGAATCTCAGCCACGTTGGATTTAAGGAT
* * *
3806 TTGTTTTTATGAGCATCAGAAACCGTTTTCATTTTCATTAACAATTAATTTAGAAAAAAAATAGG
191 TTGTTTTTACGAGCATCAGAAACCGTTTTCATTTTCATTAGCAATTAATTCAGAAAAAAAATAGG
* * * * *
3871 AAAATCGATGTTCGAAGAGTGAAAAGCTCTTATATCTTTTTGGTGTTTAATTATATACTTTTCAT
256 AAAATCGATGTTAGAAGAGTGAAAAGCCCTTATATCTTTTTGGTGTTGAATTATATATTTTTTAT
* *
3936 AAGTAATTCGGCC
321 GAGTATTTCGGCC
* * *
3949 AAAAATTGAGGAAAAATATTTCTGGTCAATTTTTGCGAAATTTTATCCGAAATC--G--------
1 AAAAATTGAGGAAAAATATTTCGGGTCAATTTTTG-AAAATTTTAGCCGAAATCGTGTACTAACC
* * * * * * * * * *
4004 -TCACGATTTTTGGCTAAAAACGCTTTTTGAGGACTCAGCTTAGTTTTGCGTGATTTTTGGTACC
65 ATCACGGTTTTTGGCTAAAAACGCGTTATGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGTGCC
* * * * * *
4068 GAGACTTCTTGAAATATCTTTATT--TTTTAACTGAAATCTCAGCAACATTGGATTTAGGGATTT
130 GAGACTCCTTGAAATATCTTTATTCATGTT-ACAG-AATCTCAGCCACGTTGGATTTAAGGATTT
* * ** *
4131 ATTTTTACGAGCATTAGAAACCGTTTTCATTTTCATTAGGTATTAATTCAG-AAAAAAATAGAAA
193 GTTTTTACGAGCATCAGAAACCGTTTTCATTTTCATTAGCAATTAATTCAGAAAAAAAATAGGAA
* * * * *
4195 AATTGATGTTAAAAGAGTGAAAAACTC-T-TATCTTTTTGGTGTTGAATTATATATTCTTTATGA
258 AATCGATGTTAGAAGAGTGAAAAGCCCTTATATCTTTTTGGTGTTGAATTATATATTTTTTATGA
*
4258 GTATTTCGGTC
323 GTATTTCGGCC
* *
4269 -AAAATTTATGAAAAAATATTTC
1 AAAAATTGA-GGAAAAATATTTC
4291 AATTCACTTT
Statistics
Matches: 2829, Mismatches: 435, Indels: 273
0.80 0.12 0.08
Matches are distributed among these distances:
319 7 0.00
320 51 0.02
321 3 0.00
322 39 0.01
323 128 0.05
324 37 0.01
325 118 0.04
326 52 0.02
327 4 0.00
329 22 0.01
330 273 0.10
331 138 0.05
332 188 0.07
333 666 0.24
334 263 0.09
335 8 0.00
336 246 0.09
337 5 0.00
338 5 0.00
339 3 0.00
340 2 0.00
341 5 0.00
342 1 0.00
344 2 0.00
345 4 0.00
346 5 0.00
347 5 0.00
348 8 0.00
349 2 0.00
350 3 0.00
351 4 0.00
352 27 0.01
353 1 0.00
354 7 0.00
355 5 0.00
356 30 0.01
357 2 0.00
358 185 0.07
359 8 0.00
361 1 0.00
367 2 0.00
368 4 0.00
369 114 0.04
370 2 0.00
371 49 0.02
372 94 0.03
373 1 0.00
ACGTcount: A:0.32, C:0.14, G:0.17, T:0.36
Consensus pattern (333 bp):
AAAAATTGAGGAAAAATATTTCGGGTCAATTTTTGAAAATTTTAGCCGAAATCGTGTACTAACCA
TCACGGTTTTTGGCTAAAAACGCGTTATGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGTGCCG
AGACTCCTTGAAATATCTTTATTCATGTTACAGAATCTCAGCCACGTTGGATTTAAGGATTTGTT
TTTACGAGCATCAGAAACCGTTTTCATTTTCATTAGCAATTAATTCAGAAAAAAAATAGGAAAAT
CGATGTTAGAAGAGTGAAAAGCCCTTATATCTTTTTGGTGTTGAATTATATATTTTTTATGAGTA
TTTCGGCC
Found at i:3978 original size:336 final size:320
Alignment explanation
Indices: 3377--4290 Score: 962
Period size: 336 Copynumber: 2.8 Consensus size: 320
3367 CGTTTCGGGT
* * * *
3377 CCCCGGCTTTGTTTTGCATGATTTTTGGTGCCTAA-ACTCCTAAAAGTATATATATTCATGTAAC
1 CCCCGGCTTAGTTTTGCATGATTTTTGGTGCC-AAGACTCCTTAAA-TATCTTTATTCATGTAAC
* * * * * *
3441 CAAATATCAGT-CACAATGGATTTAAGGATTTGTTTTTACGTGCATCGGAAACCGTTTTCAATTT
64 CGAATCTCA-TCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCAGAAACCGTTTTCATTTT
* * *
3505 CATTAGAAATTAATTGAGAAAAAAAATAGGAAAATCGATGTTAGAAGAGTGAAAACCCCTTATAT
128 CATTA-AAATTAATTCAGAAAAAAAATAGGAAAATCGATGTTAGAAGAGTGAAAAACTCTTATAT
* ** * * * *
3570 CTTTTTAGCATGGAATTATATATTTTTTATTAGTATTTTGTCCAAAAATTGAGGAAAAATATTTC
192 CTTTTTGGTGTTGAATTATATA-TTTTTATAAGTATTTCGGCCAAAAATTGAGGAAAAATATTTC
*
3635 GGGTCAATTTTTACAAAATTTTAGCCGAAATCGTGTAATAACCATCACAGTTTTTTCGGCTAAAA
256 GGGTCAATTTTTACAAAATTTTAGCCGAAATC--G---------TCAC-GATTTTT-GGCTAAAA
3700 ACGCGTTCAAGA-G
308 ACGC-TTCAAGAGG
*
3713 CCCCGGCTCAGTTTTGCATGATTTTTGGTGCCAAGACTCCTCTAAATATCTTTATTCATGTAACC
1 CCCCGGCTTAGTTTTGCATGATTTTTGGTGCCAAGACTCCT-TAAATATCTTTATTCATGTAACC
* ** *
3778 GAACCTCATCCACATTGGATTTAAATATTTGTTTTTATGAGCATCAGAAACCGTTTTCATTTTCA
65 GAATCTCATCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCAGAAACCGTTTTCATTTTCA
* * *
3843 TTAACAATTAATTTAGAAAAAAAATAGGAAAATCGATGTTCGAAGAGTGAAAAGCTCTTATATCT
130 TTAA-AATTAATTCAGAAAAAAAATAGGAAAATCGATGTTAGAAGAGTGAAAAACTCTTATATCT
* * * *
3908 TTTTGGTGTTTAATTATATACTTTTCATAAGTAATTCGGCCAAAAATTGAGGAAAAATATTTCTG
194 TTTTGGTGTTGAATTATATA-TTTTTATAAGTATTTCGGCCAAAAATTGAGGAAAAATATTTCGG
* * * ***
3973 GTCAATTTTTGCGAAATTTTATCCGAAATCGTCACGATTTTTGGCTAAAAACGCTTTTTGAGG
258 GTCAATTTTTACAAAATTTTAGCCGAAATCGTCACGATTTTTGGCTAAAAACGCTTCAAGAGG
* * * * * * * * * *
4036 ACTCAGCTTAGTTTTGCGTGATTTTTGGTACCGAGACTTCTTGAAATATCTTTATT-TTTTAACT
1 CCCCGGCTTAGTTTTGCATGATTTTTGGTGCCAAGACTCCTT-AAATATCTTTATTCATGTAACC
* * * * *
4100 GAAATCTCAGCAACATTGGATTTAGGGATTTATTTTTACGAGCATTAGAAACCGTTTTCATTTTC
65 G-AATCTCATCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCAGAAACCGTTTTCATTTTC
** * * *
4165 ATTAGGTATTAATTCAG-AAAAAAATAGAAAAATTGATGTTAAAAGAGTGAAAAACTC-T-TATC
129 ATTA-AAATTAATTCAGAAAAAAAATAGGAAAATCGATGTTAGAAGAGTGAAAAACTCTTATATC
* * * *
4227 TTTTTGGTGTTGAATTATATATTCTTTATGAGTATTTCGGTC-AAAATTTATGAAAAAATATTTC
193 TTTTTGGTGTTGAATTATATATT-TTTATAAGTATTTCGGCCAAAAATTGA-GGAAAAATATTTC
4291 AATTCACTTT
Statistics
Matches: 495, Mismatches: 73, Indels: 36
0.82 0.12 0.06
Matches are distributed among these distances:
319 9 0.02
320 50 0.10
321 1 0.00
322 46 0.09
323 126 0.25
324 6 0.01
325 4 0.01
334 1 0.00
335 4 0.01
336 245 0.49
337 3 0.01
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.38
Consensus pattern (320 bp):
CCCCGGCTTAGTTTTGCATGATTTTTGGTGCCAAGACTCCTTAAATATCTTTATTCATGTAACCG
AATCTCATCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCAGAAACCGTTTTCATTTTCAT
TAAAATTAATTCAGAAAAAAAATAGGAAAATCGATGTTAGAAGAGTGAAAAACTCTTATATCTTT
TTGGTGTTGAATTATATATTTTTATAAGTATTTCGGCCAAAAATTGAGGAAAAATATTTCGGGTC
AATTTTTACAAAATTTTAGCCGAAATCGTCACGATTTTTGGCTAAAAACGCTTCAAGAGG
Found at i:7016 original size:83 final size:83
Alignment explanation
Indices: 6872--7039 Score: 327
Period size: 83 Copynumber: 2.0 Consensus size: 83
6862 GGGCTGCTAG
6872 TATAGAATAATATAAATATCACATAATTCATATTTTTACTAGTACACCATTACCCTAAAATTAAT
1 TATAGAATAATATAAATATCACATAATTCATATTTTTACTAGTACACCATTACCCTAAAATTAAT
6937 TTAAATTAACGGAACGGC
66 TTAAATTAACGGAACGGC
*
6955 TATAGAATAATATAAATATCACATAATTCATATTTTTACTAGTACACCATTACCCTTAAATTAAT
1 TATAGAATAATATAAATATCACATAATTCATATTTTTACTAGTACACCATTACCCTAAAATTAAT
7020 TTAAATTAACGGAACGGC
66 TTAAATTAACGGAACGGC
7038 TA
1 TA
7040 AGATTAAAAT
Statistics
Matches: 84, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
83 84 1.00
ACGTcount: A:0.43, C:0.15, G:0.07, T:0.35
Consensus pattern (83 bp):
TATAGAATAATATAAATATCACATAATTCATATTTTTACTAGTACACCATTACCCTAAAATTAAT
TTAAATTAACGGAACGGC
Found at i:7727 original size:16 final size:15
Alignment explanation
Indices: 7706--7762 Score: 60
Period size: 16 Copynumber: 3.7 Consensus size: 15
7696 GGTGAGTGTG
7706 GGTGAGTATCTCACCA
1 GGTGAGTAT-TCACCA
*
7722 GGTGAGTATTACTCCA
1 GGTGAGTATT-CACCA
* *
7738 GATGAGTATTTACCA
1 GGTGAGTATTCACCA
*
7753 TGTGAGTATT
1 GGTGAGTATT
7763 GTATTGGGTG
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
15 12 0.35
16 22 0.65
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.33
Consensus pattern (15 bp):
GGTGAGTATTCACCA
Found at i:7771 original size:73 final size:72
Alignment explanation
Indices: 7676--7820 Score: 238
Period size: 73 Copynumber: 2.0 Consensus size: 72
7666 GCATGGCCTC
7676 ACCAGGTGAGTATTGTACTGGGTGAGTGTGGGTGAGTATCTCACCAGGTGAGTA-TTACTCCAGA
1 ACCAGGTGAGTATTGTACTGGGTGAGTGTGGGTGAGTATCTCACCAGGTGAGTATTTA--CCAGA
7740 TGAGTATTT
64 TGAGTATTT
* * *
7749 ACCATGTGAGTATTGTATTGGGTGAGTGTGGGTGAGTATCTCACCAGGTGAGTATTTACCAGGTG
1 ACCAGGTGAGTATTGTACTGGGTGAGTGTGGGTGAGTATCTCACCAGGTGAGTATTTACCAGATG
7814 AGTATTT
66 AGTATTT
7821 GTATTGGGTG
Statistics
Matches: 68, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
72 13 0.19
73 52 0.76
74 3 0.04
ACGTcount: A:0.23, C:0.12, G:0.32, T:0.33
Consensus pattern (72 bp):
ACCAGGTGAGTATTGTACTGGGTGAGTGTGGGTGAGTATCTCACCAGGTGAGTATTTACCAGATG
AGTATTT
Found at i:7783 original size:57 final size:58
Alignment explanation
Indices: 7722--7833 Score: 174
Period size: 57 Copynumber: 1.9 Consensus size: 58
7712 TATCTCACCA
* *
7722 GGTGAGTAT-TACTCCAGATGAGTATTTACCATGTGAGTA-TTGTATTGGGTGAGTGTG
1 GGTGAGTATCT-CACCAGATGAGTATTTACCAGGTGAGTATTTGTATTGGGTGAGTGTG
*
7779 GGTGAGTATCTCACCAGGTGAGTATTTACCAGGTGAGTATTTGTATTGGGTGAGT
1 GGTGAGTATCTCACCAGATGAGTATTTACCAGGTGAGTATTTGTATTGGGTGAGT
7834 AGGGTAGGAA
Statistics
Matches: 50, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
57 34 0.68
58 16 0.32
ACGTcount: A:0.22, C:0.10, G:0.32, T:0.36
Consensus pattern (58 bp):
GGTGAGTATCTCACCAGATGAGTATTTACCAGGTGAGTATTTGTATTGGGTGAGTGTG
Found at i:7811 original size:15 final size:15
Alignment explanation
Indices: 7779--7820 Score: 66
Period size: 15 Copynumber: 2.7 Consensus size: 15
7769 GGTGAGTGTG
*
7779 GGTGAGTATCTCACCA
1 GGTGAGTAT-TTACCA
7795 GGTGAGTATTTACCA
1 GGTGAGTATTTACCA
7810 GGTGAGTATTT
1 GGTGAGTATTT
7821 GTATTGGGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
15 16 0.64
16 9 0.36
ACGTcount: A:0.24, C:0.14, G:0.29, T:0.33
Consensus pattern (15 bp):
GGTGAGTATTTACCA
Found at i:9911 original size:30 final size:30
Alignment explanation
Indices: 9877--9953 Score: 100
Period size: 31 Copynumber: 2.5 Consensus size: 30
9867 GAAATTGTCA
* * * *
9877 ATTGATCCACTAAATTTGAAGTTTTATCAT
1 ATTGACCCACTAAAATTGAAATTTTATCAC
9907 ATTGACCCCACTAAAATTGAAATTTTATCAC
1 ATTGA-CCCACTAAAATTGAAATTTTATCAC
*
9938 ATTGACCCTCTAAAAT
1 ATTGACCCACTAAAAT
9954 AAAAGATTTA
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
30 15 0.37
31 26 0.63
ACGTcount: A:0.36, C:0.19, G:0.08, T:0.36
Consensus pattern (30 bp):
ATTGACCCACTAAAATTGAAATTTTATCAC
Found at i:9964 original size:30 final size:31
Alignment explanation
Indices: 9899--9983 Score: 77
Period size: 31 Copynumber: 2.8 Consensus size: 31
9889 AATTTGAAGT
* * *
9899 TTTATCATATTGACCCCACTAAAATTGAAAT
1 TTTATCACATTGACCCCACTAAAATTAAAAA
*
9930 TTTATCACATTGA-CCCTCTAAAA-TAAAAGA
1 TTTATCACATTGACCCCACTAAAATTAAAA-A
* *
9960 TTTAT-AGCATTAACCCCATTAAAA
1 TTTATCA-CATTGACCCCACTAAAA
9984 GTATTGAATA
Statistics
Matches: 44, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
29 5 0.11
30 19 0.43
31 20 0.45
ACGTcount: A:0.41, C:0.20, G:0.06, T:0.33
Consensus pattern (31 bp):
TTTATCACATTGACCCCACTAAAATTAAAAA
Found at i:11167 original size:12 final size:13
Alignment explanation
Indices: 11147--11198 Score: 56
Period size: 12 Copynumber: 4.2 Consensus size: 13
11137 GGGTTTATAG
11147 TAGTTTGTTTATT
1 TAGTTTGTTTATT
*
11160 TA-TTTGTTTGTT
1 TAGTTTGTTTATT
*
11172 TAGTTTG--TAAT
1 TAGTTTGTTTATT
11183 TAGTTTAGTTTATT
1 TAGTTT-GTTTATT
11197 TA
1 TA
11199 TGACAGTGTC
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
11 8 0.26
12 12 0.39
13 6 0.19
14 5 0.16
ACGTcount: A:0.19, C:0.00, G:0.15, T:0.65
Consensus pattern (13 bp):
TAGTTTGTTTATT
Found at i:11251 original size:2 final size:2
Alignment explanation
Indices: 11244--11272 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
11234 ATGTTTGTGC
11244 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
11273 AGAATTTATT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:22847 original size:10 final size:10
Alignment explanation
Indices: 22832--22879 Score: 60
Period size: 10 Copynumber: 4.7 Consensus size: 10
22822 CCTAGACTAA
22832 AAAAAAAAAC
1 AAAAAAAAAC
22842 AAAAAAAAAC
1 AAAAAAAAAC
*
22852 AAGAAATAAAC
1 AA-AAAAAAAC
*
22863 AAAACAAAAC
1 AAAAAAAAAC
*
22873 CAAAAAA
1 AAAAAAA
22880 CAAGAAATAA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
10 23 0.72
11 9 0.28
ACGTcount: A:0.83, C:0.12, G:0.02, T:0.02
Consensus pattern (10 bp):
AAAAAAAAAC
Found at i:22848 original size:13 final size:13
Alignment explanation
Indices: 22830--22882 Score: 52
Period size: 13 Copynumber: 4.1 Consensus size: 13
22820 TCCCTAGACT
22830 AAAAAAAAAAACA
1 AAAAAAAAAAACA
* *
22843 AAAAAAAACAAGA
1 AAAAAAAAAAACA
* *
22856 AATAAACAAAACA
1 AAAAAAAAAAACA
**
22869 AAACCAAAAAACA
1 AAAAAAAAAAACA
22882 A
1 A
22883 GAAATAAACA
Statistics
Matches: 30, Mismatches: 10, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
13 30 1.00
ACGTcount: A:0.83, C:0.13, G:0.02, T:0.02
Consensus pattern (13 bp):
AAAAAAAAAAACA
Found at i:22866 original size:16 final size:16
Alignment explanation
Indices: 22847--22894 Score: 57
Period size: 16 Copynumber: 3.2 Consensus size: 16
22837 AAAACAAAAA
22847 AAAACAAGAAATAAAC
1 AAAACAAGAAATAAAC
**
22863 AAAAC-A-AAACCAA-
1 AAAACAAGAAATAAAC
22876 AAAACAAGAAATAAAC
1 AAAACAAGAAATAAAC
22892 AAA
1 AAA
22895 CCAACAAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 6
0.71 0.11 0.17
Matches are distributed among these distances:
13 5 0.20
14 6 0.24
15 6 0.24
16 8 0.32
ACGTcount: A:0.77, C:0.15, G:0.04, T:0.04
Consensus pattern (16 bp):
AAAACAAGAAATAAAC
Found at i:22891 original size:11 final size:9
Alignment explanation
Indices: 22833--22894 Score: 54
Period size: 10 Copynumber: 6.3 Consensus size: 9
22823 CTAGACTAAA
22833 AAAAAAAAC
1 AAAAAAAAC
22842 AAAAAAAAAC
1 -AAAAAAAAC
22852 AAGAAATAAAC
1 AA-AAA-AAAC
22863 AAAACAAAAC
1 AAAA-AAAAC
*
22873 -CAAAAAAC
1 AAAAAAAAC
22881 AAGAAATAAAC
1 AA-AAA-AAAC
22892 AAA
1 AAA
22895 CCAACAAAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
8 5 0.11
9 4 0.09
10 22 0.50
11 13 0.30
ACGTcount: A:0.81, C:0.13, G:0.03, T:0.03
Consensus pattern (9 bp):
AAAAAAAAC
Found at i:25835 original size:28 final size:27
Alignment explanation
Indices: 25772--25836 Score: 112
Period size: 27 Copynumber: 2.4 Consensus size: 27
25762 TATTTCTGGA
25772 AAACAAGGGAAAGGGACAATTAAAAAG
1 AAACAAGGGAAAGGGACAATTAAAAAG
25799 AAACAAGGGAAAGGGACAATTAAAAAG
1 AAACAAGGGAAAGGGACAATTAAAAAG
*
25826 GAACAAAGGGA
1 AAAC-AAGGGA
25837 GTACTTTGCA
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
27 30 0.83
28 6 0.17
ACGTcount: A:0.58, C:0.08, G:0.28, T:0.06
Consensus pattern (27 bp):
AAACAAGGGAAAGGGACAATTAAAAAG
Found at i:30227 original size:24 final size:23
Alignment explanation
Indices: 30198--30243 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
30188 ATTTTTTATG
30198 TTGGGGCTGCT-CCTCTGCTTTTTT
1 TTGGGGCTG-TACCTCTG-TTTTTT
*
30222 TTGGGGTTGTACCTCTGTTTTT
1 TTGGGGCTGTACCTCTGTTTTT
30244 CTCGATTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 6 0.30
24 14 0.70
ACGTcount: A:0.02, C:0.20, G:0.26, T:0.52
Consensus pattern (23 bp):
TTGGGGCTGTACCTCTGTTTTTT
Found at i:40297 original size:119 final size:120
Alignment explanation
Indices: 40081--40317 Score: 334
Period size: 119 Copynumber: 2.0 Consensus size: 120
40071 AAAACAACAG
** * *
40081 TGTTGAGCATGGTACAATTGTTTGGCGTCCGACTACCTACAAAGTACGGCGCCCAATCACCTGGC
1 TGTTGAGCATGACACAATTGCTTGGCGTCCGACTACCTACAAAGCACGGCGCCCAATCACCTGGC
* * ** * *
40146 GCTCGACCATCTATGACTACAAGGAGTTGGACCTTATCGCTAGCTAGC-GGCAAT
66 GCTCGACCACCTATGACCACAAGGAGCCGGACCCTATCGCTAGCCAGCTGGCAAT
* * *
40200 TGTTGAGCATGACACAATTGCTTGGCGTCTGACTACCTACAAAGCCCGGCGCCCGA-CTACCTGG
1 TGTTGAGCATGACACAATTGCTTGGCGTCCGACTACCTACAAAGCACGGCGCCCAATC-ACCTGG
40264 CGCTCGACCACCTATGACCACAAGGAGCCGGACCCTATCGCTAGCCAGCTGGCA
65 CGCTCGACCACCTATGACCACAAGGAGCCGGACCCTATCGCTAGCCAGCTGGCA
40318 CTCCACACGT
Statistics
Matches: 103, Mismatches: 13, Indels: 3
0.87 0.11 0.03
Matches are distributed among these distances:
118 1 0.01
119 98 0.95
120 4 0.04
ACGTcount: A:0.24, C:0.31, G:0.24, T:0.21
Consensus pattern (120 bp):
TGTTGAGCATGACACAATTGCTTGGCGTCCGACTACCTACAAAGCACGGCGCCCAATCACCTGGC
GCTCGACCACCTATGACCACAAGGAGCCGGACCCTATCGCTAGCCAGCTGGCAAT
Found at i:40360 original size:26 final size:26
Alignment explanation
Indices: 40317--40438 Score: 124
Period size: 26 Copynumber: 4.7 Consensus size: 26
40307 GCCAGCTGGC
**
40317 ACTCCACACGTGACCTCCAACGTATG
1 ACTCCACACGTGACCTCCAACGTACA
*
40343 A-TCCCACACGTGAGCTCCGAA-GTACA
1 ACT-CCACACGTGACCTCC-AACGTACA
* *
40369 ACTCCACACGTGACCTCCAACGGATA
1 ACTCCACACGTGACCTCCAACGTACA
* *
40395 CCTTCAACACGTGACCTCCGAA-GTACA
1 AC-TCCACACGTGACCTCC-AACGTACA
40422 ACTCCACACGTGACCTC
1 ACTCCACACGTGACCTC
40439 GCGCGTGCGA
Statistics
Matches: 78, Mismatches: 12, Indels: 12
0.76 0.12 0.12
Matches are distributed among these distances:
25 3 0.04
26 51 0.65
27 22 0.28
28 2 0.03
ACGTcount: A:0.29, C:0.39, G:0.16, T:0.17
Consensus pattern (26 bp):
ACTCCACACGTGACCTCCAACGTACA
Found at i:40423 original size:53 final size:52
Alignment explanation
Indices: 40317--40438 Score: 185
Period size: 53 Copynumber: 2.3 Consensus size: 52
40307 GCCAGCTGGC
* *
40317 ACTCCACACGTGACCTCCAACGTATGATCCCACACGTGAGCTCCGAAGTACA
1 ACTCCACACGTGACCTCCAACGGATGATCCCACACGTGACCTCCGAAGTACA
40369 ACTCCACACGTGACCTCCAACGGAT-A-CCTTCAACACGTGACCTCCGAAGTACA
1 ACTCCACACGTGACCTCCAACGGATGATCC--C-ACACGTGACCTCCGAAGTACA
40422 ACTCCACACGTGACCTC
1 ACTCCACACGTGACCTC
40439 GCGCGTGCGA
Statistics
Matches: 65, Mismatches: 2, Indels: 5
0.90 0.03 0.07
Matches are distributed among these distances:
50 2 0.03
51 1 0.02
52 25 0.38
53 37 0.57
ACGTcount: A:0.29, C:0.39, G:0.16, T:0.17
Consensus pattern (52 bp):
ACTCCACACGTGACCTCCAACGGATGATCCCACACGTGACCTCCGAAGTACA
Found at i:43233 original size:27 final size:27
Alignment explanation
Indices: 43195--43250 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
43185 GTTACTTCAT
43195 TTGTTCCTTTTTAATTGTCCATTTCCC
1 TTGTTCCTTTTTAATTGTCCATTTCCC
43222 TTGTTCCTTTTTAATTGTCCATTTCCC
1 TTGTTCCTTTTTAATTGTCCATTTCCC
43249 TT
1 TT
43251 ATTTTCCAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.11, C:0.25, G:0.07, T:0.57
Consensus pattern (27 bp):
TTGTTCCTTTTTAATTGTCCATTTCCC
Found at i:46118 original size:17 final size:16
Alignment explanation
Indices: 46078--46120 Score: 59
Period size: 17 Copynumber: 2.6 Consensus size: 16
46068 CATGTAATCT
*
46078 TTGATCACCGGTGATC
1 TTGATCACTGGTGATC
46094 TTGCATCACTGGTGATC
1 TTG-ATCACTGGTGATC
46111 TTAGATCACT
1 TT-GATCACT
46121 AGTCATCTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 3 0.12
17 20 0.83
18 1 0.04
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.35
Consensus pattern (16 bp):
TTGATCACTGGTGATC
Found at i:46773 original size:23 final size:22
Alignment explanation
Indices: 46743--46827 Score: 91
Period size: 23 Copynumber: 3.8 Consensus size: 22
46733 GATAACCTCG
46743 CTATAAAATTTTGATAAATCTTT
1 CTATAAAATTTTGATAAA-CTTT
* **
46766 CTATAAAATTTTAATAAACATCC
1 CTATAAAATTTTGATAAAC-TTT
46789 CTATAAAATTTTGAT-AACTTT
1 CTATAAAATTTTGATAAACTTT
* *
46810 CTTATGAAATCTTGATAA
1 C-TATAAAATTTTGATAA
46828 CTACAAATTT
Statistics
Matches: 51, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
21 2 0.04
22 16 0.31
23 33 0.65
ACGTcount: A:0.41, C:0.12, G:0.05, T:0.42
Consensus pattern (22 bp):
CTATAAAATTTTGATAAACTTT
Found at i:46861 original size:22 final size:22
Alignment explanation
Indices: 46704--46928 Score: 121
Period size: 22 Copynumber: 10.4 Consensus size: 22
46694 TCACACTTTA
* *
46704 AAATTTTGATACTCACAC-TATG
1 AAATTTTGATAATCTC-CTTATG
* * *
46726 AAATTGTGATAACCTCGC-TATA
1 AAATTTTGATAATCTC-CTTATG
* *
46748 AAATTTTGATAAATCT-TTCTATA
1 AAATTTTGAT-AATCTCCT-TATG
* * * *
46771 AAATTTTAATAAACATCCCTATA
1 AAATTTTGATAATC-TCCTTATG
*
46794 AAATTTTGATAA-CTTTCTTATG
1 AAATTTTGATAATC-TCCTTATG
* *
46816 AAATCTTGATAA----C-TA-C
1 AAATTTTGATAATCTCCTTATG
46832 AAATTTTGATAATCTCCTTATG
1 AAATTTTGATAATCTCCTTATG
** * *
46854 ATTTTTTGATAACCTCATTATG
1 AAATTTTGATAATCTCCTTATG
* *
46876 AAATTTTGTTAATCTCCCTATG
1 AAATTTTGATAATCTCCTTATG
*
46898 AAATTTTGATAA-CCCTCTTATG
1 AAATTTTGATAATCTC-CTTATG
46920 AAATTTTGA
1 AAATTTTGA
46929 AAACTAAACT
Statistics
Matches: 156, Mismatches: 35, Indels: 24
0.73 0.16 0.11
Matches are distributed among these distances:
16 11 0.07
17 2 0.01
18 1 0.01
20 1 0.01
21 4 0.03
22 104 0.67
23 33 0.21
ACGTcount: A:0.36, C:0.15, G:0.08, T:0.42
Consensus pattern (22 bp):
AAATTTTGATAATCTCCTTATG
Found at i:46898 original size:44 final size:44
Alignment explanation
Indices: 46564--46974 Score: 152
Period size: 44 Copynumber: 9.4 Consensus size: 44
46554 TTTTAAACTT
* * * *
46564 TCTTATGAAATTTTGTTAACCTCCCTAAGGAATTTTGATAACCAAC
1 TCTTATGAAATTTTGATAATCTCCCTATGAAATTTTGATAACC--C
* * * * * * * *
46610 AC-TATGAGATGTTGATAACCTCCATATGATATATCGATAACCAC
1 TCTTATGAAATTTTGATAATCTCCCTATGAAATTTTGATAACC-C
* * * * * * *
46654 T-TTATAAAAATTTAAAAACCTCCATATG-AATTGTT-AGTAATCAC
1 TCTTATGAAATTTTGATAATCTCCCTATGAAATT-TTGA-TAA-CCC
* * * * * *
46698 ACTT-TAAAATTTTGATACTCACACTATGAAATTGTGATAA-CC
1 TCTTATGAAATTTTGATAATCTCCCTATGAAATTTTGATAACCC
* * ** * * * *
46740 TCGCTATAAAATTTTGATAAATCTTTCTATAAAATTTTAATAAACA
1 TC-TTATGAAATTTTGAT-AATCTCCCTATGAAATTTTGATAACCC
* * * * *
46786 TCCCTATAAAATTTTGATAA-CTTTCTTATGAAATCTTGATAA---
1 T-CTTATGAAATTTTGATAATC-TCCCTATGAAATTTTGATAACCC
* * **
46828 -C-TA-CAAATTTTGATAATCTCCTTATGATTTTTTGATAA-CC
1 TCTTATGAAATTTTGATAATCTCCCTATGAAATTTTGATAACCC
*
46868 TCATTATGAAATTTTGTTAATCTCCCTATGAAATTTTGATAACCC
1 TC-TTATGAAATTTTGATAATCTCCCTATGAAATTTTGATAACCC
* ** * *
46913 TCTTATGAAATTTTGA-AAACTAAACTATGAAAATTTGATAA-CA
1 TCTTATGAAATTTTGATAATCT-CCCTATGAAATTTTGATAACCC
*
46956 TTTGTATGAAATTTTGATA
1 TCT-TATGAAATTTTGATA
46975 TCCTCACAGA
Statistics
Matches: 277, Mismatches: 64, Indels: 49
0.71 0.16 0.13
Matches are distributed among these distances:
38 28 0.10
39 3 0.01
40 1 0.00
41 1 0.00
42 2 0.01
43 13 0.05
44 132 0.48
45 78 0.28
46 18 0.06
47 1 0.00
ACGTcount: A:0.37, C:0.15, G:0.09, T:0.39
Consensus pattern (44 bp):
TCTTATGAAATTTTGATAATCTCCCTATGAAATTTTGATAACCC
Found at i:46989 original size:19 final size:19
Alignment explanation
Indices: 46965--47031 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
46955 ATTTGTATGA
*
46965 AATTTTGATATCCTCACAG
1 AATTTTGATATCCTCCCAG
*
46984 AATTTTGATATCCTCCCTG
1 AATTTTGATATCCTCCCAG
* *
47003 AATTTTGGTATCCTCCCAAA
1 AATTTTGATATCCTCCC-AG
47023 AATTTTGAT
1 AATTTTGAT
47032 TACTCCGTCA
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
19 33 0.80
20 8 0.20
ACGTcount: A:0.28, C:0.21, G:0.10, T:0.40
Consensus pattern (19 bp):
AATTTTGATATCCTCCCAG
Found at i:47162 original size:22 final size:22
Alignment explanation
Indices: 47137--47327 Score: 124
Period size: 22 Copynumber: 8.6 Consensus size: 22
47127 AATCAGATTT
*
47137 TGAAAATTTGATAATCTCTTTA
1 TGAAATTTTGATAATCTCTTTA
*
47159 TGAAGTTTTGATAA-CATCTTTA
1 TGAAATTTTGATAATC-TCTTTA
* * * * * *
47181 TAAAATTTTGTTGACCCCTCTA
1 TGAAATTTTGATAATCTCTTTA
*
47203 TGAAATTTTGATAACCTCGTTT-
1 TGAAATTTTGATAATCTC-TTTA
* **
47225 TGAAATTTTGATAA-CAACACTA
1 TGAAATTTTGATAATC-TCTTTA
*
47247 TGAAATTTTGATAATCT-TCGTA
1 TGAAATTTTGATAATCTCT-TTA
47269 T-AAATTTTGATAATCATATCTTTA
1 TGAAATTTTGATAATC---TCTTTA
* * *
47293 TGAAATTTCGATAATCACTCTA
1 TGAAATTTTGATAATCTCTTTA
*
47315 TGAGA-TTTGATAA
1 TGAAATTTTGATAA
47328 CCTTCTATCA
Statistics
Matches: 132, Mismatches: 25, Indels: 25
0.73 0.14 0.14
Matches are distributed among these distances:
21 24 0.18
22 86 0.65
23 4 0.03
24 4 0.03
25 14 0.11
ACGTcount: A:0.35, C:0.12, G:0.11, T:0.42
Consensus pattern (22 bp):
TGAAATTTTGATAATCTCTTTA
Found at i:47396 original size:22 final size:22
Alignment explanation
Indices: 47201--47477 Score: 94
Period size: 22 Copynumber: 12.4 Consensus size: 22
47191 TTGACCCCTC
*
47201 TATGAAATTTTGATAACC-TCGT
1 TATGAAATTTTGATAACCTTC-A
* **
47223 TTTGAAATTTTGATAA-CAACA
1 TATGAAATTTTGATAACCTTCA
* *
47244 CTATGAAATTTTGATAATCTTCG
1 -TATGAAATTTTGATAACCTTCA
* *
47267 TAT-AAATTTTGATAATCATATCTT
1 TATGAAATTTTGATAA-CCT-TC-A
*
47291 TATGAAATTTCGATAATCAC-TC-
1 TATGAAATTTTGATAA-C-CTTCA
*
47313 TATGAGA-TTTGATAACCTTC-
1 TATGAAATTTTGATAACCTTCA
* * * *
47333 TATCAAATTATGGTACTCCTT-A
1 TATGAAATTTTGATA-ACCTTCA
*
47355 TGAAATTGAGACTTTT-ATAACCTTCA
1 T---A-TGA-AATTTTGATAACCTTCA
*
47381 TATGAAATTTTGATAACC-ACA
1 TATGAAATTTTGATAACCTTCA
* * *
47402 CTATAAAATTTTGATAACCTCCC
1 -TATGAAATTTTGATAACCTTCA
* * *
47425 GATGAAGTATT-AGTAACCTTC-
1 TATGAAATTTTGA-TAACCTTCA
* *
47446 TAATGAAATTTTGTTAACC-ACA
1 T-ATGAAATTTTGATAACCTTCA
47468 CTATGAAATT
1 -TATGAAATT
47478 CGTATAACCT
Statistics
Matches: 190, Mismatches: 39, Indels: 52
0.68 0.14 0.19
Matches are distributed among these distances:
19 1 0.01
20 8 0.04
21 34 0.18
22 107 0.56
23 7 0.04
24 5 0.03
25 18 0.09
26 6 0.03
27 4 0.02
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.39
Consensus pattern (22 bp):
TATGAAATTTTGATAACCTTCA
Found at i:47613 original size:46 final size:43
Alignment explanation
Indices: 47548--47657 Score: 112
Period size: 46 Copynumber: 2.5 Consensus size: 43
47538 AATTAACCAC
***
47548 CCTATGAAATTTCAATAACCAAGCTAAGAAATTTTAATAACTTGA
1 CCTATGAAATTTTGGTAACCAAGCTAAGAAATTTTAATAAC-T-A
** * **
47593 TCCTATGAAATTTTGGTAACCACTCTATGAAATTTTGGTAACTA
1 -CCTATGAAATTTTGGTAACCAAGCTAAGAAATTTTAATAACTA
47637 CACTATGAAATTTTGGTAACC
1 C-CTATGAAATTTTGGTAACC
47658 TCCTCATGGA
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
43 1 0.02
44 20 0.36
45 1 0.02
46 33 0.60
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.35
Consensus pattern (43 bp):
CCTATGAAATTTTGGTAACCAAGCTAAGAAATTTTAATAACTA
Found at i:47623 original size:22 final size:22
Alignment explanation
Indices: 47595--47657 Score: 108
Period size: 22 Copynumber: 2.9 Consensus size: 22
47585 TAACTTGATC
*
47595 CTATGAAATTTTGGTAACCACT
1 CTATGAAATTTTGGTAACCACA
*
47617 CTATGAAATTTTGGTAACTACA
1 CTATGAAATTTTGGTAACCACA
47639 CTATGAAATTTTGGTAACC
1 CTATGAAATTTTGGTAACC
47658 TCCTCATGGA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (22 bp):
CTATGAAATTTTGGTAACCACA
Found at i:47670 original size:22 final size:21
Alignment explanation
Indices: 47593--47670 Score: 95
Period size: 22 Copynumber: 3.6 Consensus size: 21
47583 AATAACTTGA
47593 TCCTATGAAATTTTGGTAACC
1 TCCTATGAAATTTTGGTAACC
*
47614 ACTCTATGAAATTTTGGTAA-C
1 TC-CTATGAAATTTTGGTAACC
47635 TACACTATGAAATTTTGGTAACC
1 T-C-CTATGAAATTTTGGTAACC
*
47658 TCCTCATGGAATT
1 TCCT-ATGAAATT
47671 ATAATAACCA
Statistics
Matches: 49, Mismatches: 4, Indels: 7
0.82 0.07 0.12
Matches are distributed among these distances:
21 4 0.08
22 43 0.88
23 2 0.04
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.37
Consensus pattern (21 bp):
TCCTATGAAATTTTGGTAACC
Found at i:49838 original size:8 final size:8
Alignment explanation
Indices: 49825--49849 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
49815 TTTTTTCTCG
49825 TCTTTTTT
1 TCTTTTTT
49833 TCTTTTTT
1 TCTTTTTT
49841 TCTTTTTT
1 TCTTTTTT
49849 T
1 T
49850 AATTAAAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (8 bp):
TCTTTTTT
Found at i:53941 original size:2 final size:2
Alignment explanation
Indices: 53936--53968 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
53926 AGACTGCTAG
53936 TA TA 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 TA TA T
53969 GAATGAAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:55148 original size:7 final size:7
Alignment explanation
Indices: 55136--55170 Score: 70
Period size: 7 Copynumber: 5.0 Consensus size: 7
55126 ATGGCAAATT
55136 GGCAATG
1 GGCAATG
55143 GGCAATG
1 GGCAATG
55150 GGCAATG
1 GGCAATG
55157 GGCAATG
1 GGCAATG
55164 GGCAATG
1 GGCAATG
55171 TGTGTTTTGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.29, C:0.14, G:0.43, T:0.14
Consensus pattern (7 bp):
GGCAATG
Found at i:55418 original size:5 final size:5
Alignment explanation
Indices: 55408--55453 Score: 92
Period size: 5 Copynumber: 9.2 Consensus size: 5
55398 TCATTTATCA
55408 TCTTT TCTTT TCTTT TCTTT TCTTT TCTTT TCTTT TCTTT TCTTT T
1 TCTTT TCTTT TCTTT TCTTT TCTTT TCTTT TCTTT TCTTT TCTTT T
55454 TGGACTTAAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 41 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (5 bp):
TCTTT
Found at i:57204 original size:25 final size:25
Alignment explanation
Indices: 57176--57224 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
57166 GAAAGTATTT
57176 GATTTTTCTCCTCATGAATCGGATA
1 GATTTTTCTCCTCATGAATCGGATA
57201 GATTTTTCTCCTCATGAATCGGAT
1 GATTTTTCTCCTCATGAATCGGAT
57225 GGAACAATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.22, C:0.20, G:0.16, T:0.41
Consensus pattern (25 bp):
GATTTTTCTCCTCATGAATCGGATA
Found at i:66333 original size:17 final size:16
Alignment explanation
Indices: 66311--66346 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
66301 ACAGTACATC
66311 ATGGCCCAAACAAACTA
1 ATGGCCCAAACAAA-TA
*
66328 ATGGCCCAGACAAATA
1 ATGGCCCAAACAAATA
66344 ATG
1 ATG
66347 AAGTATATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 5 0.28
17 13 0.72
ACGTcount: A:0.44, C:0.25, G:0.17, T:0.14
Consensus pattern (16 bp):
ATGGCCCAAACAAATA
Done.