Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01020856.1 Corchorus olitorius cultivar O-4 contig20889, 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: 198655
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Found at i:617 original size:333 final size:331
Alignment explanation
Indices: 1--5763 Score: 5671
Period size: 333 Copynumber: 17.6 Consensus size: 331
* * * *
1 AAAAATTGAAAAAATGATATTACAAGCCTGAAAAGCCTTTCAATCTTCTTGGTGTTGAATAATAT
1 AAAAATGGAAAAAACGATATTAGAAGCCTGAAAAGCCTTTCAATCTTCTTGGCGTTGAATAATAT
*
66 ATTTTTTTCATGAGTATTGTGGCAAAAAATTG-GCGAAAAATTTCCGAGTTAGTTTTTGCAAAAT
66 A-TTTTTT-ATGAGTATTGTGGCAAAAAATTGAG-GAAAAATTTCCGGGTTAGTTTTTGCAAAAT
* * * * * *
130 TTTAGACGAAATCGTTTACTAACCATCACAGTTTTTTGCTAAAAGCGCATTCCGTAGATCCGTCT
128 TTTAGCCGAAATCGTTTACTAACCATCACGGTTTTTGGCTAAAAGCGCATTCCGGAGACCCGGCT
*
195 CAGTTTTTCCTGATTCTTGGCGCTAAGACTCATTGAAATATCTACATTCATCTAACCAAATCTCA
193 CAGTTTTGCCTGATTCTTGGCGCTAAGACTCATTGAAATATCTACATTCATCTAACCAAATCTCA
* * * *
260 TGCACTTTGGATTTAAGGATTTGTTTTTACAAGCATCTGATTTAAGTTTCGATTTAATCAGAAAT
258 TGCACTTTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCATGTTTCGATTTAATCAGAAAT
325 TAATTCAGTT
323 TAATTCAG-T
*
335 AAAAATGGAAAAAACGATATTACAAGCCTGAAAAGCCTTTCAATCTTCTTGGCGTTGAATAATAT
1 AAAAATGGAAAAAACGATATTAGAAGCCTGAAAAGCCTTTCAATCTTCTTGGCGTTGAATAATAT
*
400 ATTTTTTCATGAGTATTGTGGCAAAAAATTGACGAAAAATTTCCGGGTTAGTTTTTGCAAAATTT
66 ATTTTTT-ATGAGTATTGTGGCAAAAAATTGAGGAAAAATTTCCGGGTTAGTTTTTGCAAAATTT
*
465 TAGCCGAAATCGTTTACTAACCATCACGGTTTTTGGCTAAAAGCGCATTCTGGAGACCCGGCTCA
130 TAGCCGAAATCGTTTACTAACCATCACGGTTTTTGGCTAAAAGCGCATTCCGGAGACCCGGCTCA
* * * * * *
530 ATTTTGTCTGATTCATGACGCTAAGGCTCATTGAAATATCTACATTCATCTAACCAAAACTCATG
195 GTTTTGCCTGATTCTTGGCGCTAAGACTCATTGAAATATCTACATTCATCTAACCAAATCTCATG
* * * * * * *
595 CACTTTCGATTTAAGTATTTGTTTTTACGAGCATCTGATTTAAGTTTCAATTTAATAAGAAATTA
260 CACTTTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCATGTTTCGATTTAATCAGAAATTA
660 ATTCAGTT
325 ATTCAG-T
* *
668 AAAAATGGAAAAAACGATATTACAAGCCAGAAAAGCCTTTCAATCTTCTTGGCGTTGAATAATAT
1 AAAAATGGAAAAAACGATATTAGAAGCCTGAAAAGCCTTTCAATCTTCTTGGCGTTGAATAATAT
* * *
733 ATTTTTTCATGAGTATTGTGGCAAAAAATTGACGAAAAATTTCCGGGTTATTTTTTGTAAAATTT
66 ATTTTTT-ATGAGTATTGTGGCAAAAAATTGAGGAAAAATTTCCGGGTTAGTTTTTGCAAAATTT
*
798 TAGCCGAAATCGTTTACTAACCATCACGGTTTTTGGATAAAAGCGCATTCCGGAGACCCGGCTCA
130 TAGCCGAAATCGTTTACTAACCATCACGGTTTTTGGCTAAAAGCGCATTCCGGAGACCCGGCTCA
* *
863 GTTTTGCCTGATTCTTGGCGCTAAGACTCATTGAAATATCTACATTCATCTAACCAAGTCTCATA
195 GTTTTGCCTGATTCTTGGCGCTAAGACTCATTGAAATATCTACATTCATCTAACCAAATCTCATG
* * * * *
928 CAATTTGGATTTAAGAATTTGTTTTGACGAGCATCTAAATCAAGTTTCGATTTAATCAGAAATTA
260 CACTTTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCATGTTTCGATTTAATCAGAAATTA
*
993 ATTCCGCT
325 ATTCAG-T
* ** * **
1001 AAAAATTGAAAAAACGATATTAGAAGTTTGAAAAGCCTTTCAATCTTCTTCGCACTGAATAATAT
1 AAAAATGGAAAAAACGATATTAGAAGCCTGAAAAGCCTTTCAATCTTCTTGGCGTTGAATAATAT
* * * * * * *
1066 ATTTTGTTATGACTATTTTGGCCAAAATTTGAGGAAAAATTTTCGAGTTAGTTTTTGCAAAAATT
66 ATTTT-TTATGAGTATTGTGGCAAAAAATTGAGGAAAAATTTCCGGGTTAGTTTTTGCAAAATTT
* * * * **
1131 TGGTCGAAATCATTTACTAACTATCACGGTTTTTGGCTAAAAGCGCATTCAAGAGACCCGGCTCA
130 TAGCCGAAATCGTTTACTAACCATCACGGTTTTTGGCTAAAAGCGCATTCCGGAGACCCGGCTCA
* *
1196 GTTTTGTCTGATTCTTGGCGCTAAGGCTCATTGAAATATCTACATTCATCTAACCAAATCTCATG
195 GTTTTGCCTGATTCTTGGCGCTAAGACTCATTGAAATATCTACATTCATCTAACCAAATCTCATG
* * * * *
1261 CACTTTGGATTTAAGGATTTGTTTTTACAAGCATCTGATTTAAGTTTCGATTTAATAAGAAATTA
260 CACTTTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCATGTTTCGATTTAATCAGAAATTA
1326 ATTCAGTT
325 ATTCAG-T
* *
1334 AAAAATGGAAAAAACGATATTACAAGCCTGAAAAGCCATTCAATCTTCTTGGCGTTGAATAATAT
1 AAAAATGGAAAAAACGATATTAGAAGCCTGAAAAGCCTTTCAATCTTCTTGGCGTTGAATAATAT
* *
1399 ATTTTTTCATGAGTATTGTGGCAAAAAATTGA-CAAAAATTTTCGGGTTAGTTTTTGCAAAATTT
66 ATTTTTT-ATGAGTATTGTGGCAAAAAATTGAGGAAAAATTTCCGGGTTAGTTTTTGCAAAATTT
* * *
1463 TAGACGAAATCGTTTACTAACCATCACGGTTTTTTGCTAAAAGCGCATTCCGTAGACCCGGCTCA
130 TAGCCGAAATCGTTTACTAACCATCACGGTTTTTGGCTAAAAGCGCATTCCGGAGACCCGGCTCA
* * *
1528 GTTTTTCCTGATTCTTGGCGCTAAGACTCATTGAAATATCTACATTCATCTAACCAAGTCTCATA
195 GTTTTGCCTGATTCTTGGCGCTAAGACTCATTGAAATATCTACATTCATCTAACCAAATCTCATG
* * * * *
1593 CAATTTGGATTTAAGAATTTGTTTTGACGAGCATCTGAATCAAGTTTCGATTTAATCAAAAATTA
260 CACTTTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCATGTTTCGATTTAATCAGAAATTA
*
1658 ATTCCGCT
325 ATTCAG-T
* ** * *
1666 AAAAATTGAAAAAACGATATTAGAATTCTGAAAAGCCTTTCAATCTTCTTCGCGCTGAATAATAT
1 AAAAATGGAAAAAACGATATTAGAAGCCTGAAAAGCCTTTCAATCTTCTTGGCGTTGAATAATAT
* * * * *
1731 ATTTTGTTATGAGTATTGTGGCCAAAATTTGAGGAAAAATTTTCGAGTTAGTTTTTGCAAAAATT
66 ATTTT-TTATGAGTATTGTGGCAAAAAATTGAGGAAAAATTTCCGGGTTAGTTTTTGCAAAATTT
* * *
1796 TGGTCCAAAATCGTTTACTAACTATCACGGTTTTTGGCTAAAAGCGCATTCCGGAGACCCGGCTC
130 TAG-CCGAAATCGTTTACTAACCATCACGGTTTTTGGCTAAAAGCGCATTCCGGAGACCCGGCTC
* * * * *
1861 AGTTTTGTCTGATTCATGGCGCTAAGGCTAATTGAAATATCTATATTCATCTAACCAAATCTCAT
194 AGTTTTGCCTGATTCTTGGCGCTAAGACTCATTGAAATATCTACATTCATCTAACCAAATCTCAT
* * * *
1926 GAACTTTAGATTTAAGTATTTGTTTTTACGAGCATCTAAATCATGTTTCGA-TTAATCAGAAATT
259 GCACTTTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCATGTTTCGATTTAATCAGAAATT
*
1990 AATTCGGTT
324 AATTCAG-T
* * *
1999 AAAAATAGAAAAAACGATATTTGAAGCCTGAAAAGCCTTTCAATCTTCTTGGCGTTGAGTAATAT
1 AAAAATGGAAAAAACGATATTAGAAGCCTGAAAAGCCTTTCAATCTTCTTGGCGTTGAATAATAT
*
2064 ACTTTTTTATGAGTATTGTGGCCAAAAATTGAGGAAAAATTTCCGGGTTAGTTTTTGCAAAATTT
66 A-TTTTTTATGAGTATTGTGGCAAAAAATTGAGGAAAAATTTCCGGGTTAGTTTTTGCAAAATTT
* **
2129 TAGCCGAAATCGTTTACTAACCATCACGGTTTTTGGCTAAAAGCGCATTCCAGAGTTCCGGCTCA
130 TAGCCGAAATCGTTTACTAACCATCACGGTTTTTGGCTAAAAGCGCATTCCGGAGACCCGGCTCA
* * * * *
2194 GTGTTGCCTGATTCTTGGAGCTAAGCCTCATTGAAATATCTACATTCATCTAACCAAGTCTCATA
195 GTTTTGCCTGATTCTTGGCGCTAAGACTCATTGAAATATCTACATTCATCTAACCAAATCTCATG
* * *
2259 CAATTTGGATTTAAGGATTTGTTTTGACGAGCATCTGAATCAAT-TTTCGATTTAATCATAAATT
260 CACTTTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATC-ATGTTTCGATTTAATCAGAAATT
*
2323 AATTCCGCT
324 AATTCAG-T
* * * *
2332 AAAAATTGAAAAAACGATATTAGAAGTCTGAAAAGCCTTTCAATCTTCTTCGCGCTGAATAATAT
1 AAAAATGGAAAAAACGATATTAGAAGCCTGAAAAGCCTTTCAATCTTCTTGGCGTTGAATAATAT
* * * * *
2397 ATTTTGTTATGAGTATTGTGGCCAAAATTTGAGGAAAAATTTTCGAGTTAGTTTTTGCAAAAATT
66 ATTTT-TTATGAGTATTGTGGCAAAAAATTGAGGAAAAATTTCCGGGTTAGTTTTTGCAAAATTT
* * * *
2462 TGGTCGAAATCGTTTACTAACTATCACGGTTTTTGGCTAAAAGCGCATTCCGGAGACCCGACTCA
130 TAGCCGAAATCGTTTACTAACCATCACGGTTTTTGGCTAAAAGCGCATTCCGGAGACCCGGCTCA
** * * *
2527 GTTTTATCTGATTCATGGCGCTAAGGCTCATTGAAATATCTACATTTATCTAACCAAATCTCATG
195 GTTTTGCCTGATTCTTGGCGCTAAGACTCATTGAAATATCTACATTCATCTAACCAAATCTCATG
* * * *
2592 CACTTTGGATTTAAGGATTTG-TTTTACAAGCATCTGATTTAAGTTTCGATTTAATCAGAAATTA
260 CACTTTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCATGTTTCGATTTAATCAGAAATTA
2656 ATTCAGT
325 ATTCAGT
* * *
2663 TAAAATGGAAAAAGCGATATTACAAGCCTGAAAAGCCTTTCAATCTTCTTGGCGTTGAATAATAT
1 AAAAATGGAAAAAACGATATTAGAAGCCTGAAAAGCCTTTCAATCTTCTTGGCGTTGAATAATAT
*
2728 ATTTTTTCATGAGTATTGTGGCAAAAAATTGACGAAAAATTTCCGGGTTAGTTTTTGCAAAATTT
66 ATTTTTT-ATGAGTATTGTGGCAAAAAATTGAGGAAAAATTTCCGGGTTAGTTTTTGCAAAATTT
* * *
2793 TAGACGAAATCGTTTACTAATCATCACGGTTTATT-GCTAAAAGCGCATTCCGTAGACCCGGCTC
130 TAGCCGAAATCGTTTACTAACCATCACGGTTT-TTGGCTAAAAGCGCATTCCGGAGACCCGGCTC
* * * * *
2857 AGTTTTTCCTG-TTACTTGGCGCTATGACTCATTAAAATATCGACATTCATCTAAGCAAATCTCA
194 AGTTTTGCCTGATT-CTTGGCGCTAAGACTCATTGAAATATCTACATTCATCTAACCAAATCTCA
* * * * *
2921 TACTCTTTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATTAAGTTTCGATTTAATCAGTAAT
258 TGCACTTTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCATGTTTCGATTTAATCAGAAAT
2986 TAATT---T
323 TAATTCAGT
**** * * * * *
2992 -----T----TTTTC-AT-TTA-AAGGCTGAAAAGCCTTTCAATTTTTTTAGCATTGAA-ATATA
1 AAAAATGGAAAAAACGATATTAGAAGCCTGAAAAGCCTTTCAATCTTCTTGGCGTTGAATA-ATA
* * ** *
3044 TATTTTTCACGAGTATTGTGGCAAAAAATTGAGGAAAAAAATTTAAGGATTAGTTTTTGCAAAAT
65 TATTTTTTATGAGTATTGTGGCAAAAAATTGAGG--AAAAATTTCCGGGTTAGTTTTTGCAAAA-
* * ** * * * *
3109 TTTTAACCGAAATCGTGTACTAACCATCACGACTTTTGGCTAAAAACGCGTTTC-GAG-CACCGA
127 TTTTAGCCGAAATCGTTTACTAACCATCACGGTTTTTGGCTAAAAGCGCATTCCGGAGAC-CCGG
* * * * * * * * *
3172 CTCAGTTTTACCTGTTTCTAGGCGCCAAGAGTAATTGAAATATCTATATTCGTCTAACCAAATAT
191 CTCAGTTTTGCCTGATTCTTGGCGCTAAGACTCATTGAAATATCTACATTCATCTAACCAAATCT
* * * * * *
3237 CA-GCCACATTT-GATTTAAGGATTTGTTTTTACGATCATGTGAATTATGATTGGATTTAATCAA
256 CATG-CAC-TTTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCATGTTTCGATTTAATCAG
* *
3300 AAATTACTTCAGA
319 AAATTAATTCAGT
* * * * *
3313 AACAAATGGAAAAAACTATATTAGAAGTCTTAAAAGCCCTTCAAACTT-TGTGGCGTTGAATTAT
1 AA-AAATGGAAAAAACGATATTAGAAGCCTGAAAAGCCTTTCAATCTTCT-TGGCGTTGAA-TA-
* * * ** * ** ** **
3377 ATATATTTTTT-T-AGTATTATTGAGGAAAAAATTTTCAGG-GCAGTTT--TTGCAAAATTTTGC
62 ATATATTTTTTATGAGTATT-GTG-GCAAAAAA--TTGAGGAAAAATTTCCGGGTTAGTTTTTGC
* * * * * *
3437 AAAGTTTTTG-CAAAATCGTTTACTAACCATCACGGTTTTTGGGT-AAA-CGCGTTCCGGTGACC
123 AAAATTTTAGCCGAAATCGTTTACTAACCATCACGGTTTTTGGCTAAAAGCGCATTCCGGAGACC
* * * * * * * *
3499 CGGGTCAGTTTTGCCTAATTCTTGGCGCCAAGACTCACTGAAGTATCTATATTCTTTTAACCAAA
188 CGGCTCAGTTTTGCCTGATTCTTGGCGCTAAGACTCATTGAAATATCTACATTCATCTAACCAAA
* * *
3564 TGTCA-GACAAATTT-GATTTAAGGATTTGTTTTTACGAGTATCTGAATCATGTTTCGATTTAAT
253 TCTCATG-C-ACTTTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCATGTTTCGATTTAAT
* *
3627 TAAAAATTAATTCAG-
316 CAGAAATTAATTCAGT
* * * * * * *
3642 --GAA---AAAAAACAATATTAGAAGGCTGAAAAACCCTTCAATCTTTTTGGCGTTGAATTATAT
1 AAAAATGGAAAAAACGATATTAGAAGCCTGAAAAGCCTTTCAATCTTCTTGGCGTTGAATAATAT
* * *
3702 AATTTTTATGAGTACTGTGGCCAAAAATTGAGGAAAAAATTTCCGGGTTAGTTTTTGCAAAA-TT
66 ATTTTTTATGAGTATTGTGGCAAAAAATTGAGG-AAAAATTTCCGGGTTAGTTTTTGCAAAATTT
** * * * * * * *
3766 TAGCCG-AAT-AATT--T----GT----GTATTTGG-AAAATACACGAATAT-CGGGGCCCCGGC
130 TAGCCGAAATCGTTTACTAACCATCACGGTTTTTGGCTAAA-A-GCGCAT-TCCGGAGACCCGGC
* * * * * * *
3817 TCAGTTTTACCTGTTTCTTTGCGCCAAGACTCATTGAAATATCTATATTCATCTAACCGAATATC
192 TCAGTTTTGCCTGATTCTTGGCGCTAAGACTCATTGAAATATCTACATTCATCTAACCAAATCTC
* * * * *
3882 A-GCCACATTT-GATTGAA-AATTT-TGTTTACAAGTATCTGAATCATGTTTCGATTTAATCAGA
257 ATG-CAC-TTTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCATGTTTCGATTTAATCAGA
*
3943 AAATAATTCA--
320 AATTAATTCAGT
* ** * * * *
3953 AAAAATAG-AAAAACGATATTAGAATTCTAAAAATCCCTTCAATCTTCTTGGCATTGAATAATAT
1 AAAAATGGAAAAAACGATATTAGAAGCCTGAAAAGCCTTTCAATCTTCTTGGCGTTGAATAATAT
* * * *
4017 ATTTTTTAAGTGTATTGTGGCCAAAAATTGAGGAAAAATTTTTCGAGGTTAGTTTTTTGCAAAAT
66 ATTTTTTATGAGTATTGTGGCAAAAAATTGAGGAAAAA-TTTCCG-GGTTAG-TTTTTGCAAAA-
* * * * * ** ** * *
4082 TTTTAACCGAAATCGTGTACGTTATCA-CAAC---TTTTAGCTAAAAATG-AGTTATGGGGCCCC
127 TTTTAGCCGAAATCGTTTAC-TAACCATC-ACGGTTTTTGGCTAAAAGCGCA-TTCCGGAGACCC
* * * * * * * * *
4142 GGCTCAATTTTGTCTGATTCTTGCCGCTTAGACTCATCGTAATATATATATTCATCTAAACAAAT
189 GGCTCAGTTTTGCCTGATTCTTGGCGCTAAGACTCATTGAAATATCTACATTCATCTAACCAAAT
* * * * *
4207 CT-ATGC-CATATTGGATTCAATGATTTGTTTTTACGAGCATCTGAATCATGTTTCTATCTGATC
254 CTCATGCAC-T-TTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCATGTTTCGATTTAATC
*
4270 AAAAATTAATTCAG-
317 AGAAATTAATTCAGT
* * * * * *
4284 -AAAA---AAGAAACAATATTAGAAGGCTGAAAAGCCCTTCAATCTTTTTGGCTTTGAATAATAT
1 AAAAATGGAAAAAACGATATTAGAAGCCTGAAAAGCCTTTCAATCTTCTTGGCGTTGAATAATAT
* *
4345 ATTGTTGATGAGTATTGTGGCCAAAAAA-T---G----------GGG--A--------AAAATTT
66 ATTTTTTATGAGTATTGTGG-CAAAAAATTGAGGAAAAATTTCCGGGTTAGTTTTTGCAAAATTT
* * * * * * * *
4386 TAGCCGAAATCATGTACAAACCATCACAGTTTTTGGATAAAATCGCGTTCCGG-GGCCCTGGCTC
130 TAGCCGAAATCGTTTACTAACCATCACGGTTTTTGGCTAAAAGCGCATTCCGGAGACCC-GGCTC
** * * *
4450 AGTTTAACCTGATTCTTGGCGCCAAGACTCATTGAAATATCTATATTCATCTAACCAAATATCA-
194 AGTTTTGCCTGATTCTTGGCGCTAAGACTCATTGAAATATCTACATTCATCTAACCAAATCTCAT
* ** * * *
4514 GCCACATTT-GATTGAAAAATTTGTTTTTACGAGTATCTGAATCATGTTTCGATTTGATCATAAA
259 G-CAC-TTTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCATGTTTCGATTTAATCAGAAA
* *
4578 TTAATTTAGAA
322 TTAATTCAG-T
* * * * *
4589 AAAAATAG-AAAAACTATATTAGAAGCCTGAAAAGCCGTTCAATCTTCTTGGTGTTAAATAATAT
1 AAAAATGGAAAAAACGATATTAGAAGCCTGAAAAGCCTTTCAATCTTCTTGGCGTTGAATAATAT
* * *
4653 ATTTTTTATGAGTATTGTGGCCAAAAATTGAAGAAAAATTTTTCGGGTTAGTTTTTGCAAAATTT
66 ATTTTTTATGAGTATTGTGGCAAAAAATTGAGGAAAAA-TTTCCGGGTTAGTTTTTGCAAAATTT
* * * * ** *
4718 TAACCGAAA----TT-GT---CAT---GGCTTTTGGCTAAAAACGTGTTCCGTG-GA-CCTGCTC
130 TAGCCGAAATCGTTTACTAACCATCACGGTTTTTGGCTAAAAGCGCATTCCG-GAGACCCGGCTC
* * * * *
4770 AATTTTGCCTGATTCCTGGCACCAAGACTCATTGAATTATCTACATTCATCTAACCAAATAC-CA
194 AGTTTTGCCTGATTCTTGGCGCTAAGACTCATTGAAATATCTACATTCATCTAACCAAAT-CTCA
** * * * * * *
4834 TATACTTTGGATTTAAGGATTTCTTTCTATGAGCTTCTGAATCATGTTTCGATTTAATCATATAT
258 TGCACTTTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCATGTTTCGATTTAATCAGAAAT
4899 TAATTCAG-
323 TAATTCAGT
* * * * * * * *
4907 AAATAATAGACAAAACTATATTAGAAGGCC-GAAAAGCCCTTCAATTTTTTTAGCTTTGAA-ATA
1 AAA-AATGGAAAAAACGATATTAGAA-GCCTGAAAAGCCTTTCAATCTTCTTGGCGTTGAATA-A
* * * * *
4970 TATATTTCTTATGAGTATTGTGGCCAAAAATTGAGCAAAAAAAATTTCGGGGTTAGATTTTGCAA
63 TATATTTTTTATGAGTATTGTGGCAAAAAATTGAG---GAAAAATTTCCGGGTTAGTTTTTGCAA
** * * * *** *
5035 AATTTTTAGCCGAAATCGGGTACTAACCATCACAGCTTTTGGCTAAAAACATGTTCC-GAGTCCC
125 AA-TTTTAGCCGAAATCGTTTACTAACCATCACGGTTTTTGGCTAAAAGCGCATTCCGGAG-ACC
* * * * * * *
5099 CGGCTCAGTTTTGCCTGATTCTTTGCACCAAGTCTTATTAAAATATCTATATTCATCTAACC--A
188 CGGCTCAGTTTTGCCTGATTCTTGGCGCTAAGACTCATTGAAATATCTACATTCATCTAACCAAA
* *
5162 ----A---A---T-G---TAAGGATTTGTTTTTACGAGCATCTAAATTATGTTTCGATTTAATCA
253 TCTCATGCACTTTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCATGTTTCGATTTAATCA
* *
5213 GAAATTAATTCGGGA
318 GAAATTAATTC-AGT
* * * * *
5228 AAAAATAGAAAAAACGATATTAGAAGGCTGAAAAGCCCTACAATCTT-TTCGGCGTTGAATTATA
1 AAAAATGGAAAAAACGATATTAGAAGCCTGAAAAGCCTTTCAATCTTCTT-GGCGTTGAATAATA
* * * * * *
5292 TATGTTTTACGACTATTGTGGCCAATAAATTGAGGAAAAATTTTCAGGTTAGTTTTTGCAAAATT
65 TATTTTTTATGAGTATTGTGG-CAAAAAATTGAGGAAAAATTTCCGGGTTAGTTTTTGCAAAATT
* * * * * *
5357 TTAGCTGAAATCGTGTACTAACCATCACAGTTTTTGGCTAAAAACGCATTCCGGGGGCCCGGCTC
129 TTAGCCGAAATCGTTTACTAACCATCACGGTTTTTGGCTAAAAGCGCATTCCGGAGACCCGGCTC
* * * * * * * * * * *
5422 AGTTTTGCATGATTTTTGACACCAAGACTTATTGAATTATCTATATTCATTTAAACAAATCTTA-
194 AGTTTTGCCTGATTCTTGGCGCTAAGACTCATTGAAATATCTACATTCATCTAACCAAATCTCAT
* * * *
5486 GCCACATTGGATTTAAGGATTTGTTTTTATGAACAACT-ACATCATGTTTCGATTTAATCAGAAA
259 G-CACTTTGGATTTAAGGATTTGTTTTTACGAGCATCTGA-ATCATGTTTCGATTTAATCAGAAA
*
5550 TTAATTCAGA
322 TTAATTCAGT
* * * * ** *
5560 AAAAATAGAAAAAAAAAACTATATTAGAAGCCTAAAAAGCCCTGAAAAC-TCTGTGGCGTTGAAT
1 AAAAAT-G---GAAAAAACGATATTAGAAGCCTGAAAAGCCTTTCAATCTTCT-TGGCGTTGAAT
* * * * *
5624 AATATATTTTTTATGAGTATTGTGTCCAAAAATTAAGGAAAAAATTT-TGATGTTAGTTTTTGCA
61 AATATATTTTTTATGAGTATTGTGGCAAAAAATTGAGG-AAAAATTTCCG-GGTTAGTTTTTGCA
** * ** ** *
5688 AAATTTTAGCCGAAATCGTGAACTAACTATCACGGTTTTTGAATAAAAATGCGTTCCGG-GATCC
124 AAATTTTAGCCGAAATCGTTTACTAACCATCACGGTTTTTGGCTAAAAGCGCATTCCGGAGA-CC
*
5752 CGACTCAGTTTT
188 CGGCTCAGTTTT
5764 ACTTGATATC
Statistics
Matches: 4562, Mismatches: 670, Indels: 392
0.81 0.12 0.07
Matches are distributed among these distances:
300 5 0.00
301 19 0.00
302 8 0.00
303 127 0.03
304 4 0.00
305 3 0.00
306 4 0.00
307 6 0.00
308 67 0.01
311 11 0.00
312 45 0.01
313 9 0.00
314 85 0.02
315 84 0.02
316 31 0.01
317 156 0.03
318 171 0.04
319 126 0.03
320 254 0.06
321 61 0.01
322 37 0.01
323 79 0.02
324 7 0.00
325 1 0.00
326 7 0.00
327 8 0.00
328 138 0.03
329 25 0.01
330 177 0.04
331 279 0.06
332 570 0.12
333 1433 0.31
334 281 0.06
335 72 0.02
336 166 0.04
337 1 0.00
338 5 0.00
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (331 bp):
AAAAATGGAAAAAACGATATTAGAAGCCTGAAAAGCCTTTCAATCTTCTTGGCGTTGAATAATAT
ATTTTTTATGAGTATTGTGGCAAAAAATTGAGGAAAAATTTCCGGGTTAGTTTTTGCAAAATTTT
AGCCGAAATCGTTTACTAACCATCACGGTTTTTGGCTAAAAGCGCATTCCGGAGACCCGGCTCAG
TTTTGCCTGATTCTTGGCGCTAAGACTCATTGAAATATCTACATTCATCTAACCAAATCTCATGC
ACTTTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCATGTTTCGATTTAATCAGAAATTAA
TTCAGT
Found at i:2164 original size:998 final size:991
Alignment explanation
Indices: 1--6409 Score: 5877
Period size: 998 Copynumber: 6.6 Consensus size: 991
* * * **
1 AAAAATTGAAAAAATGATATTACAAGCCTGAAAAGCCTTTCAATCTTCTTGGTGTTGAATAATAT
1 AAAAATAGAAAAAACGATATTAGAAGCCTGAAAAGCCTTTCAATCTTCTTGGCATTGAATAATAT
* *
66 ATTTTTTTCATGAGTATTGTGGCAAAAAATTG-GCGAAAAATTTCCGAGTTAGTTTTTGCAAAAT
66 A-TTTTTT-ATGAGTATTGTGGCCAAAAATTGAG-GAAAAATTTCCGGGTTAGTTTTTGCAAAAT
* * * *
130 TTTAGACGAAATCGTTTACTAACCATCACAGTTTTTTGCTAAAAGCGCATTCCGTAGATCCGTCT
128 TTTAGCCGAAATCGTTTACTAACCATCACAGTTTTTGGCTAAAAGCGCATTCCG-AGACCCGGCT
*
195 CAGTTTTTCCTGATTCTTGGCGCTAAGACTCATTGAAATATCTACATTCATCTAACCAAATCTCA
192 CAGTTTTGCCTGATTCTTGGCGCTAAGACTCATTGAAATATCTACATTCATCTAACCAAATCTCA
* *
260 TGCACTTTGGATTTAAGGATTTGTTTTTACAAGCATCTGATTTAAGTTTCGATTTAATCAGAAAT
257 TGCACTTTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATTAAGTTTCGATTTAATCAGAAAT
* *
325 TAATTCAGTTAAAAATGGAAAAAACGATATTACAAGCCTGAAAAGCCTTTCAATCTTCTTGGCGT
322 TAATTCAG-TAAAAATGGAAAAAACGATATTAGAAGCCTGAAAAGCCCTTCAATCTTCTTGGCGT
*
390 TGAATAATATATTTTTTCATGAGTATTGTGGCAAAAAATTGACGAAAAATTTCCGGGTTAGTTTT
386 TGAATAATATATTTTTT-ATGAGTATTGTGGCAAAAAATTGAC-AAAAATTTTCGGGTTAGTTTT
*
455 TGCAAAATTTTAGCCGAAATCGTTTACTAACCATCACGGTTTTTGGCTAAAAGCGCATTCTGGAG
449 TGCAAAATTTTAGCCGAAATCGTTTACTAACCATCACGGTTTTTGGCTAAAAGCGCATTCCGGAG
* * * * * *
520 ACCCGGCTCAATTTTGTCTGATTCATGACGCTAAGGCTCATTGAAATATCTACATTCATCTAACC
514 ACCCGGCTCAGTTTTGCCTGATTCTTGGCGCCAAGACTCATTGAAATATCTACATTCATCTAACC
* * * * * * *
585 AAAACTCATG-CACTTTCGATTTAAGTATTTGTTTTTACGAGCATCTGATTTAAGTTTCAATTTA
579 AAATCTCA-GACAATTTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCAAGTTTCGATTTA
* * *
649 AT-AAGAAATTAATTCAGTTAAAAATGGAAAAAACGATATTACAAGCCAGAAAAGCCTTTCAATC
643 ATCAA-AAATTAATTCAG-TAAAAATAGAAAAAACGATATTAGAAGCCTGAAAAGCCTTTCAATC
* *
713 TTCTTGGCGTTGAATAATATATTTTTTCATGAGTATTGTGGCAAAAAATTGACGAAAAATTTCCG
706 TTCTTGGCGTTGAATAATATATTTTTT-ATGAGTATTGTGGCCAAAAATTGAGGAAAAATTTCCG
* * * * * *
778 GGTTATTTTTTGTAAAATTTTAGCCGAAATCGTTTACTAACCATCACGGTTTTTGGATAAAAGCG
770 GGTTAGTTTTTGCAAAAATTTAGCCGAAATCGTTTACTAACTATCACGGTTTTTGGCTAAAAACG
843 CATTCCGGAGACCCGGCTCAGTTTTGCCTGATTCTTGGCGCTAAGACTCATTGAAATATCTACAT
835 CATTCCGGAGACCCGGCTCAGTTTTGCCTGATTCTTGGCGCTAAGACTCATTGAAATATCTACAT
* * * * *
908 TCATCTAACCAAGTCTCATACAATTTGGATTTAAGAATTTGTTTTGACGAGCATCTAAATCAAGT
900 TCATCTAACCAAATCTCATACACTTTGGATTTAAGAATTTGTTTTTACGAGCATCTGAATCATGT
*
973 TTCGATTTAATCAGAAATTAATTCCGCT
965 TTCGATTTAATCAGAAATTAATT-CGTT
* ** * *
1001 AAAAATTGAAAAAACGATATTAGAAGTTTGAAAAGCCTTTCAATCTTCTTCGCACTGAATAATAT
1 AAAAATAGAAAAAACGATATTAGAAGCCTGAAAAGCCTTTCAATCTTCTTGGCATTGAATAATAT
* * * * * *
1066 ATTTTGTTATGACTATTTTGGCCAAAATTTGAGGAAAAATTTTCGAGTTAGTTTTTGCAAAAATT
66 ATTTT-TTATGAGTATTGTGGCCAAAAATTGAGGAAAAATTTCCGGGTTAGTTTTTGCAAAATTT
* * * * * *
1131 TGGTCGAAATCATTTACTAACTATCACGGTTTTTGGCTAAAAGCGCATTCAAGAGACCCGGCTCA
130 TAGCCGAAATCGTTTACTAACCATCACAGTTTTTGGCTAAAAGCGCATTC-CGAGACCCGGCTCA
* *
1196 GTTTTGTCTGATTCTTGGCGCTAAGGCTCATTGAAATATCTACATTCATCTAACCAAATCTCATG
194 GTTTTGCCTGATTCTTGGCGCTAAGACTCATTGAAATATCTACATTCATCTAACCAAATCTCATG
* * *
1261 CACTTTGGATTTAAGGATTTGTTTTTACAAGCATCTGATTTAAGTTTCGATTTAATAAGAAATTA
259 CACTTTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATTAAGTTTCGATTTAATCAGAAATTA
* *
1326 ATTCAGTTAAAAATGGAAAAAACGATATTACAAGCCTGAAAAGCCATTCAATCTTCTTGGCGTTG
324 ATTCAG-TAAAAATGGAAAAAACGATATTAGAAGCCTGAAAAGCCCTTCAATCTTCTTGGCGTTG
1391 AATAATATATTTTTTCATGAGTATTGTGGCAAAAAATTGACAAAAATTTTCGGGTTAGTTTTTGC
388 AATAATATATTTTTT-ATGAGTATTGTGGCAAAAAATTGACAAAAATTTTCGGGTTAGTTTTTGC
* * *
1456 AAAATTTTAGACGAAATCGTTTACTAACCATCACGGTTTTTTGCTAAAAGCGCATTCCGTAGACC
452 AAAATTTTAGCCGAAATCGTTTACTAACCATCACGGTTTTTGGCTAAAAGCGCATTCCGGAGACC
* * *
1521 CGGCTCAGTTTTTCCTGATTCTTGGCGCTAAGACTCATTGAAATATCTACATTCATCTAACCAAG
517 CGGCTCAGTTTTGCCTGATTCTTGGCGCCAAGACTCATTGAAATATCTACATTCATCTAACCAAA
* * *
1586 TCTCATACAATTTGGATTTAAGAATTTGTTTTGACGAGCATCTGAATCAAGTTTCGATTTAATCA
582 TCTCAGACAATTTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCAAGTTTCGATTTAATCA
* * **
1651 AAAATTAATTCCGCTAAAAATTGAAAAAACGATATTAGAATTCTGAAAAGCCTTTCAATCTTCTT
647 AAAATTAATTCAG-TAAAAATAGAAAAAACGATATTAGAAGCCTGAAAAGCCTTTCAATCTTCTT
* * * * *
1716 CGCGCTGAATAATATATTTTGTTATGAGTATTGTGGCCAAAATTTGAGGAAAAATTTTCGAGTTA
711 GGCGTTGAATAATATATTTT-TTATGAGTATTGTGGCCAAAAATTGAGGAAAAATTTCCGGGTTA
* * *
1781 GTTTTTGCAAAAATTTGGTCCAAAATCGTTTACTAACTATCACGGTTTTTGGCTAAAAGCGCATT
775 GTTTTTGCAAAAATTTAG-CCGAAATCGTTTACTAACTATCACGGTTTTTGGCTAAAAACGCATT
* * * * *
1846 CCGGAGACCCGGCTCAGTTTTGTCTGATTCATGGCGCTAAGGCTAATTGAAATATCTATATTCAT
839 CCGGAGACCCGGCTCAGTTTTGCCTGATTCTTGGCGCTAAGACTCATTGAAATATCTACATTCAT
* * *
1911 CTAACCAAATCTCATGA-ACTTTAGATTTAAGTATTTGTTTTTACGAGCATCTAAATCATGTTTC
904 CTAACCAAATCTCAT-ACACTTTGGATTTAAGAATTTGTTTTTACGAGCATCTGAATCATGTTTC
1975 GA-TTAATCAGAAATTAATTCGGTT
968 GATTTAATCAGAAATTAATTC-GTT
* * *
1999 AAAAATAGAAAAAACGATATTTGAAGCCTGAAAAGCCTTTCAATCTTCTTGGCGTTGAGTAATAT
1 AAAAATAGAAAAAACGATATTAGAAGCCTGAAAAGCCTTTCAATCTTCTTGGCATTGAATAATAT
2064 ACTTTTTTATGAGTATTGTGGCCAAAAATTGAGGAAAAATTTCCGGGTTAGTTTTTGCAAAATTT
66 A-TTTTTTATGAGTATTGTGGCCAAAAATTGAGGAAAAATTTCCGGGTTAGTTTTTGCAAAATTT
* **
2129 TAGCCGAAATCGTTTACTAACCATCACGGTTTTTGGCTAAAAGCGCATTCCAGAGTTCCGGCTCA
130 TAGCCGAAATCGTTTACTAACCATCACAGTTTTTGGCTAAAAGCGCATTCC-GAGACCCGGCTCA
* * * * *
2194 GTGTTGCCTGATTCTTGGAGCTAAGCCTCATTGAAATATCTACATTCATCTAACCAAGTCTCATA
194 GTTTTGCCTGATTCTTGGCGCTAAGACTCATTGAAATATCTACATTCATCTAACCAAATCTCATG
* * * * *
2259 CAATTTGGATTTAAGGATTTGTTTTGACGAGCATCTGAATCAATTTTCGATTTAATCATAAATTA
259 CACTTTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATTAAGTTTCGATTTAATCAGAAATTA
* * * * * *
2324 ATTCCGCTAAAAATTGAAAAAACGATATTAGAAGTCTGAAAAGCCTTTCAATCTTCTTCGCGCTG
324 ATTCAG-TAAAAATGGAAAAAACGATATTAGAAGCCTGAAAAGCCCTTCAATCTTCTTGGCGTTG
* * * *
2389 AATAATATATTTTGTTATGAGTATTGTGGCCAAAATTTGAGGAAAAATTTTCGAGTTAGTTTTTG
388 AATAATATATTTT-TTATGAGTATTGTGGCAAAAAATTGA-CAAAAATTTTCGGGTTAGTTTTTG
* * * *
2454 CAAAAATTTGGTCGAAATCGTTTACTAACTATCACGGTTTTTGGCTAAAAGCGCATTCCGGAGAC
451 CAAAATTTTAGCCGAAATCGTTTACTAACCATCACGGTTTTTGGCTAAAAGCGCATTCCGGAGAC
* ** * * * *
2519 CCGACTCAGTTTTATCTGATTCATGGCGCTAAGGCTCATTGAAATATCTACATTTATCTAACCAA
516 CCGGCTCAGTTTTGCCTGATTCTTGGCGCCAAGACTCATTGAAATATCTACATTCATCTAACCAA
* * * *
2584 ATCTCATG-CACTTTGGATTTAAGGATTTG-TTTTACAAGCATCTGATTTAAGTTTCGATTTAAT
581 ATCTCA-GACAATTTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCAAGTTTCGATTTAAT
* * * * *
2647 CAGAAATTAATTCAGTTAAAATGGAAAAAGCGATATTACAAGCCTGAAAAGCCTTTCAATCTTCT
645 CAAAAATTAATTCAGTAAAAATAGAAAAAACGATATTAGAAGCCTGAAAAGCCTTTCAATCTTCT
* *
2712 TGGCGTTGAATAATATATTTTTTCATGAGTATTGTGGCAAAAAATTGACGAAAAATTTCCGGGTT
710 TGGCGTTGAATAATATATTTTTT-ATGAGTATTGTGGCCAAAAATTGAGGAAAAATTTCCGGGTT
* * *
2777 AGTTTTTGCAAAATTTTAGACGAAATCGTTTACTAA-TCATCACGGTTTATT-GCTAAAAGCGCA
774 AGTTTTTGCAAAAATTTAGCCGAAATCGTTTACTAACT-ATCACGGTTT-TTGGCTAAAAACGCA
* * * * *
2840 TTCCGTAGACCCGGCTCAGTTTTTCCTG-TTACTTGGCGCTATGACTCATTAAAATATCGACATT
837 TTCCGGAGACCCGGCTCAGTTTTGCCTGATT-CTTGGCGCTAAGACTCATTGAAATATCTACATT
* * * * *
2904 CATCTAAGCAAATCTCATACTCTTTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATTAAGTT
901 CATCTAACCAAATCTCATACACTTTGGATTTAAGAATTTGTTTTTACGAGCATCTGAATCATGTT
*
2969 TCGATTTAATCAGTAATTAATT--TT
966 TCGATTTAATCAGAAATTAATTCGTT
*** * * * *
2993 -----T-----TTTC-AT-TTA-AAGGCTGAAAAGCCTTTCAATTTTTTTAGCATTGAA-ATATA
1 AAAAATAGAAAAAACGATATTAGAAGCCTGAAAAGCCTTTCAATCTTCTTGGCATTGAATA-ATA
* * * ** *
3044 TATTTTTCACGAGTATTGTGGCAAAAAATTGAGGAAAAAAATTTAAGGATTAGTTTTTGCAAAAT
65 TATTTTTTATGAGTATTGTGGCCAAAAATTGAGG--AAAAATTTCCGGGTTAGTTTTTGCAAAA-
* * * * * * *
3109 TTTTAACCGAAATCGTGTACTAACCATCAC-GACTTTTGGCTAAAAACGCGTTTCGAG-CACCGA
127 TTTTAGCCGAAATCGTTTACTAACCATCACAG-TTTTTGGCTAAAAGCGCATTCCGAGAC-CCGG
* * * * * * * * *
3172 CTCAGTTTTACCTGTTTCTAGGCGCCAAGAGTAATTGAAATATCTATATTCGTCTAACCAAATAT
190 CTCAGTTTTGCCTGATTCTTGGCGCTAAGACTCATTGAAATATCTACATTCATCTAACCAAATCT
* * * * * *
3237 CA-GCCACATTT-GATTTAAGGATTTGTTTTTACGATCATGTGAATTATGATTGGATTTAATCAA
255 CATG-CAC-TTTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATTAAGTTTCGATTTAATCAG
* * * * * *
3300 AAATTACTTCAGAAACAAATGGAAAAAACTATATTAGAAGTCTTAAAAGCCCTTCAAACTT-TGT
318 AAATTAATTCAGTAA-AAATGGAAAAAACGATATTAGAAGCCTGAAAAGCCCTTCAATCTTCT-T
* * ** ** * *
3364 GGCGTTGAATTATATATATTTTTT-T-AGTATTATTGAGGAAAAAATTTTCAGGGCAGTTTT--T
381 GGCGTTGAA-TA-ATATATTTTTTATGAGTATT-GTG-GCAAAAAATTGACA--AAAATTTTCGG
** ** * * * *
3425 GCAAAATTTTGCAAAGTTTTTG-CAAAATCGTTTACTAACCATCACGGTTTTTGGGT-AAA-CGC
440 GTTAGTTTTTGCAAAATTTTAGCCGAAATCGTTTACTAACCATCACGGTTTTTGGCTAAAAGCGC
* * * * * * *
3487 GTTCCGGTGACCCGGGTCAGTTTTGCCTAATTCTTGGCGCCAAGACTCACTGAAGTATCTATATT
505 ATTCCGGAGACCCGGCTCAGTTTTGCCTGATTCTTGGCGCCAAGACTCATTGAAATATCTACATT
* * * * *
3552 CTTTTAACCAAATGTCAGACAAATTT-GATTTAAGGATTTGTTTTTACGAGTATCTGAATCATGT
570 CATCTAACCAAATCTCAGAC-AATTTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCAAGT
* * * * * *
3616 TTCGATTTAATTAAAAATTAATTCAG----GA-A-AAAAAACAATATTAGAAGGCTGAAAAACCC
634 TTCGATTTAATCAAAAATTAATTCAGTAAAAATAGAAAAAACGATATTAGAAGCCTGAAAAGCCT
* * * *
3675 TTCAATCTTTTTGGCGTTGAATTATATAATTTTTATGAGTACTGTGGCCAAAAATTGAGGAAAAA
699 TTCAATCTTCTTGGCGTTGAATAATATATTTTTTATGAGTATTGTGGCCAAAAATTGAGG-AAAA
* *
3740 ATTTCCGGGTTAGTTTTTGC-AAAATTTAGCCG--A------A-TAA-T-T--TGTGTATTTGG-
763 ATTTCCGGGTTAGTTTTTGCAAAAATTTAGCCGAAATCGTTTACTAACTATCACG-GTTTTTGGC
* * * * * * * *
3790 AAAATACACGAATAT-CGGGGCCCCGGCTCAGTTTTACCTGTTTCTTTGCGCCAAGACTCATTGA
827 TAAA-A-ACGCAT-TCCGGAGACCCGGCTCAGTTTTGCCTGATTCTTGGCGCTAAGACTCATTGA
* * * ** * * * *
3854 AATATCTATATTCATCTAACCGAATATCAGCCACATTT-GATTGAA-AATTT-TGTTTACAAGTA
889 AATATCTACATTCATCTAACCAAATCTCATACAC-TTTGGATTTAAGAATTTGTTTTTACGAGCA
* *
3916 TCTGAATCATGTTTCGATTTAATCAGAAAATAATTC--A
953 TCTGAATCATGTTTCGATTTAATCAGAAATTAATTCGTT
** * * *
3953 AAAAATAG-AAAAACGATATTAGAATTCTAAAAATCCCTTCAATCTTCTTGGCATTGAATAATAT
1 AAAAATAGAAAAAACGATATTAGAAGCCTGAAAAGCCTTTCAATCTTCTTGGCATTGAATAATAT
* * *
4017 ATTTTTTAAGTGTATTGTGGCCAAAAATTGAGGAAAAATTTTTCGAGGTTAGTTTTTTGCAAAAT
66 ATTTTTTATGAGTATTGTGGCCAAAAATTGAGGAAAAA-TTTCCG-GGTTAG-TTTTTGCAAAA-
* * * ** * ** ** * *
4082 TTTTAACCGAAATCGTGTACGT---TATCACAACTTTTAGCTAAAAATG-AGTTATGGGGCCCCG
127 TTTTAGCCGAAATCGTTTAC-TAACCATCACAGTTTTTGGCTAAAAGCGCA-TT-CCGAGACCCG
* * * * * * * * *
4143 GCTCAATTTTGTCTGATTCTTGCCGCTTAGACTCATCGTAATATATATATTCATCTAAACAAATC
189 GCTCAGTTTTGCCTGATTCTTGGCGCTAAGACTCATTGAAATATCTACATTCATCTAACCAAATC
* * * * * * *
4208 T-ATGC-CATATTGGATTCAATGATTTGTTTTTACGAGCATCTGAATCATGTTTCTATCTGATCA
254 TCATGCAC-T-TTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATTAAGTTTCGATTTAATCA
* * * * *
4271 AAAATTAATTCAG--AAAA---AAGAAACAATATTAGAAGGCTGAAAAGCCCTTCAATCTTTTTG
317 GAAATTAATTCAGTAAAAATGGAAAAAACGATATTAGAAGCCTGAAAAGCCCTTCAATCTTCTTG
* * *
4331 GCTTTGAATAATATATTGTTGATGAGTATTGTGGCCAAAAAA-TG------------GGG--A--
382 GCGTTGAATAATATATTTTTTATGAGTATTGTGG-CAAAAAATTGACAAAAATTTTCGGGTTAGT
* * * * * * *
4379 ------AAAATTTTAGCCGAAATCATGTACAAACCATCACAGTTTTTGGATAAAATCGCGTTCCG
446 TTTTGCAAAATTTTAGCCGAAATCGTTTACTAACCATCACGGTTTTTGGCTAAAAGCGCATTCCG
* ** *
4438 G-GGCCCTGGCTCAGTTTAACCTGATTCTTGGCGCCAAGACTCATTGAAATATCTATATTCATCT
511 GAGACCC-GGCTCAGTTTTGCCTGATTCTTGGCGCCAAGACTCATTGAAATATCTACATTCATCT
* * * ** * *
4502 AACCAAATATCAGCCACATTT-GATTGAAAAATTTGTTTTTACGAGTATCTGAATCATGTTTCGA
575 AACCAAATCTCAGACA-ATTTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCAAGTTTCGA
* * * * * *
4566 TTTGATCATAAATTAATTTAGAAAAAAATAG-AAAAACTATATTAGAAGCCTGAAAAGCCGTTCA
639 TTTAATCAAAAATTAATTCAG-TAAAAATAGAAAAAACGATATTAGAAGCCTGAAAAGCCTTTCA
* * *
4630 ATCTTCTTGGTGTTAAATAATATATTTTTTATGAGTATTGTGGCCAAAAATTGAAGAAAAATTTT
703 ATCTTCTTGGCGTTGAATAATATATTTTTTATGAGTATTGTGGCCAAAAATTGAGGAAAAA-TTT
* * * * *
4695 TCGGGTTAGTTTTTGCAAAATTTTAACCGAAA----TT-GT--C-AT---GGCTTTTGGCTAAAA
767 CCGGGTTAGTTTTTGCAAAAATTTAGCCGAAATCGTTTACTAACTATCACGGTTTTTGGCTAAAA
** * * * * * *
4749 ACGTGTTCCGTG-GA-CCTGCTCAATTTTGCCTGATTCCTGGCACCAAGACTCATTGAATTATCT
832 ACGCATTCCG-GAGACCCGGCTCAGTTTTGCCTGATTCTTGGCGCTAAGACTCATTGAAATATCT
* * * * * *
4812 ACATTCATCTAACCAAATAC-CATATACTTTGGATTTAAGGATTTCTTTCTATGAGCTTCTGAAT
896 ACATTCATCTAACCAAAT-CTCATACACTTTGGATTTAAGAATTTGTTTTTACGAGCATCTGAAT
* *
4876 CATGTTTCGATTTAATCATATATTAATTCAG--
960 CATGTTTCGATTTAATCAGAAATTAATTC-GTT
* * * * * * *
4907 AAATAATAGACAAAACTATATTAGAAGGCC-GAAAAGCCCTTCAATTTTTTTAGCTTTGAA-ATA
1 AAA-AATAGAAAAAACGATATTAGAA-GCCTGAAAAGCCTTTCAATCTTCTTGGCATTGAATA-A
* * * *
4970 TATATTTCTTATGAGTATTGTGGCCAAAAATTGAGCAAAAAAAATTTCGGGGTTAGATTTTGCAA
63 TATATTTTTTATGAGTATTGTGGCCAAAAATTGAG---GAAAAATTTCCGGGTTAGTTTTTGCAA
** * * *** *
5035 AATTTTTAGCCGAAATCGGGTACTAACCATCACAGCTTTTGGCTAAAAACATGTTCCGAGTCCCC
125 AA-TTTTAGCCGAAATCGTTTACTAACCATCACAGTTTTTGGCTAAAAGCGCATTCCGAG-ACCC
* * * * * * *
5100 GGCTCAGTTTTGCCTGATTCTTTGCACCAAGTCTTATTAAAATATCTATATTCATCTAACC--A-
188 GGCTCAGTTTTGCCTGATTCTTGGCGCTAAGACTCATTGAAATATCTACATTCATCTAACCAAAT
* *
5162 ---A---A---T-G---TAAGGATTTGTTTTTACGAGCATCTAAATTATGTTTCGATTTAATCAG
253 CTCATGCACTTTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATTAAGTTTCGATTTAATCAG
* * * * *
5214 AAATTAATTCGGGAAAAAATAGAAAAAACGATATTAGAAGGCTGAAAAGCCCTACAATCTT-TTC
318 AAATTAATTC-AGTAAAAATGGAAAAAACGATATTAGAAGCCTGAAAAGCCCTTCAATCTTCTT-
* * * * * * *
5278 GGCGTTGAATTATATATGTTTTACGACTATTGTGGCCAATAAATTGAGGAAAAATTTTCAGGTTA
381 GGCGTTGAATAATATATTTTTTATGAGTATTGTGG-CAAAAAATTGA-CAAAAATTTTCGGGTTA
* * * *
5343 GTTTTTGCAAAATTTTAGCTGAAATCGTGTACTAACCATCACAGTTTTTGGCTAAAAACGCATTC
444 GTTTTTGCAAAATTTTAGCCGAAATCGTTTACTAACCATCACGGTTTTTGGCTAAAAGCGCATTC
* * * * * * * * * *
5408 CGGGGGCCCGGCTCAGTTTTGCATGATTTTTGACACCAAGACTTATTGAATTATCTATATTCATT
509 CGGAGACCCGGCTCAGTTTTGCCTGATTCTTGGCGCCAAGACTCATTGAAATATCTACATTCATC
* * * * * * *
5473 TAAACAAATCTTAGCCACA-TTGGATTTAAGGATTTGTTTTTATGAACAACT-ACATCATGTTTC
574 TAACCAAATCTCAGACA-ATTTGGATTTAAGGATTTGTTTTTACGAGCATCTGA-ATCAAGTTTC
* * * *
5536 GATTTAATCAGAAATTAATTCAGAAAAAATAGAAAAAAAAAACTATATTAGAAGCCTAAAAAGCC
637 GATTTAATCAAAAATTAATTCAGTAAAAATAG----AAAAAACGATATTAGAAGCCTGAAAAGCC
* ** * * *
5601 CTGAAAAC-TCTGTGGCGTTGAATAATATATTTTTTATGAGTATTGTGTCCAAAAATTAAGGAAA
698 TTTCAATCTTCT-TGGCGTTGAATAATATATTTTTTATGAGTATTGTGGCCAAAAATTGAGG-AA
* * * **
5665 AAATTT-TGATGTTAGTTTTTGCAAAATTTTAGCCGAAATCGTGAACTAACTATCACGGTTTTTG
761 AAATTTCCG-GGTTAGTTTTTGCAAAAATTTAGCCGAAATCGTTTACTAACTATCACGGTTTTTG
** * * * * * *
5729 AATAAAAATGCGTTCCGG-GATCCCGACTCAGTTTTACTTGA-T-AT----C--A-AC-C----A
825 GCTAAAAACGCATTCCGGAGA-CCCGGCTCAGTTTTGCCTGATTCTTGGCGCTAAGACTCATTGA
* * * * ** *
5779 CAT-T-T-GA-T--T-GAA--AAAT-T--T--A--TT---TTTACG-A---G--CAT-CG-GAAT
889 AATATCTACATTCATCTAACCAAATCTCATACACTTTGGATTTAAGAATTTGTTTTTACGAGCAT
* * * * * *
5817 CCTG-TTTA-GATTT--A-A---TCAAAAATTAATTCATG
954 -CTGAATCATG-TTTCGATTTAATCAGAAATTAATTCGTT
* * * * * * *
5849 AAAAATAGAAAAAACTATATTAGAAGCCTGAAAAGAC-TTCAATTTTTTTTGCGTTGAATAATGT
1 AAAAATAGAAAAAACGATATTAGAAGCCTGAAAAGCCTTTCAATCTTCTTGGCATTGAATAATAT
* * * * ** * *
5913 ATCTTTTTATGAGTATTGTAGCCAAAAACTGGGGGGAAAATTTTTTGGATTAGTTTTTGCAATAT
66 AT-TTTTTATGAGTATTGTGGCCAAAAA-T-TGAGGAAAAATTTCCGGGTTAGTTTTTGCAAAAT
* * * * * *
5978 TTTAGCCGAAATCATTTACTAACCATCACAGTGTTTGGATAAAAGCGCATTCCGTATACCTGACT
128 TTTAGCCGAAATCGTTTACTAACCATCACAGTTTTTGGCTAAAAGCGCATTCCG-AGACCCGGCT
* * * *
6043 CAGTTTTGCTTGATTCTTGGCGTTAAGACTCATTGAAATATTTACATTCATCTAACCAAATTTCA
192 CAGTTTTGCCTGATTCTTGGCGCTAAGACTCATTGAAATATCTACATTCATCTAACCAAATCTCA
* * *
6108 TACACTTTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCAAGTTTCGATTTAATCAGCAAT
257 TGCACTTTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATTAAGTTTCGATTTAATCAGAAAT
* * * * * * * * * * *
6173 TAATTTAGGAAAAATTAGACAAAGCTATATTAGAAAG-CTGAAAAGCCTTTCAATTTTTTTAGCA
322 TAATTCAGTAAAAA-TGGAAAAAACGATATTAG-AAGCCTGAAAAGCCCTTCAATCTTCTTGGCG
* * * *
6237 TTGAA-ATATATTTTTTTTACGAGTATTGTGGCAAAAAATTTAC---------GGGGTTAGTTTT
385 TTGAATA-ATATATTTTTTATGAGTATTGTGGCAAAAAATTGACAAAAATTTTCGGGTTAGTTTT
* ** ** * ***
6292 TGCAAAATTTTTAGCCTAAATCGAGTACTAACCATCACGACTTTTGGCTAAAATCATGTTCCGG-
449 TGCAAAA-TTTTAGCCGAAATCGTTTACTAACCATCACGGTTTTTGGCTAAAAGCGCATTCCGGA
* * *
6356 GATCCCGGCTCAGTTTTGCCTGACTCTTAGCGCCAAGACTCATTAAAATATCTA
513 GA-CCCGGCTCAGTTTTGCCTGATTCTTGGCGCCAAGACTCATTGAAATATCTA
6410 TTTAAGAAAA
Statistics
Matches: 4508, Mismatches: 693, Indels: 471
0.79 0.12 0.08
Matches are distributed among these distances:
939 97 0.02
940 50 0.01
941 65 0.01
942 62 0.01
943 31 0.01
944 26 0.01
945 228 0.05
946 2 0.00
947 9 0.00
948 76 0.02
949 3 0.00
950 10 0.00
951 166 0.04
952 23 0.01
953 48 0.01
954 24 0.01
955 126 0.03
956 107 0.02
957 9 0.00
958 78 0.02
959 5 0.00
960 47 0.01
961 9 0.00
962 78 0.02
963 6 0.00
964 16 0.00
965 17 0.00
966 49 0.01
967 3 0.00
968 1 0.00
969 4 0.00
970 12 0.00
971 46 0.01
972 345 0.08
973 73 0.02
974 82 0.02
975 4 0.00
976 106 0.02
977 5 0.00
978 2 0.00
979 85 0.02
980 80 0.02
981 76 0.02
982 211 0.05
983 63 0.01
984 17 0.00
986 4 0.00
987 21 0.00
988 14 0.00
989 1 0.00
994 2 0.00
995 4 0.00
996 150 0.03
997 135 0.03
998 759 0.17
999 673 0.15
1000 63 0.01
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (991 bp):
AAAAATAGAAAAAACGATATTAGAAGCCTGAAAAGCCTTTCAATCTTCTTGGCATTGAATAATAT
ATTTTTTATGAGTATTGTGGCCAAAAATTGAGGAAAAATTTCCGGGTTAGTTTTTGCAAAATTTT
AGCCGAAATCGTTTACTAACCATCACAGTTTTTGGCTAAAAGCGCATTCCGAGACCCGGCTCAGT
TTTGCCTGATTCTTGGCGCTAAGACTCATTGAAATATCTACATTCATCTAACCAAATCTCATGCA
CTTTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATTAAGTTTCGATTTAATCAGAAATTAAT
TCAGTAAAAATGGAAAAAACGATATTAGAAGCCTGAAAAGCCCTTCAATCTTCTTGGCGTTGAAT
AATATATTTTTTATGAGTATTGTGGCAAAAAATTGACAAAAATTTTCGGGTTAGTTTTTGCAAAA
TTTTAGCCGAAATCGTTTACTAACCATCACGGTTTTTGGCTAAAAGCGCATTCCGGAGACCCGGC
TCAGTTTTGCCTGATTCTTGGCGCCAAGACTCATTGAAATATCTACATTCATCTAACCAAATCTC
AGACAATTTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCAAGTTTCGATTTAATCAAAAA
TTAATTCAGTAAAAATAGAAAAAACGATATTAGAAGCCTGAAAAGCCTTTCAATCTTCTTGGCGT
TGAATAATATATTTTTTATGAGTATTGTGGCCAAAAATTGAGGAAAAATTTCCGGGTTAGTTTTT
GCAAAAATTTAGCCGAAATCGTTTACTAACTATCACGGTTTTTGGCTAAAAACGCATTCCGGAGA
CCCGGCTCAGTTTTGCCTGATTCTTGGCGCTAAGACTCATTGAAATATCTACATTCATCTAACCA
AATCTCATACACTTTGGATTTAAGAATTTGTTTTTACGAGCATCTGAATCATGTTTCGATTTAAT
CAGAAATTAATTCGTT
Found at i:3445 original size:11 final size:11
Alignment explanation
Indices: 3418--3450 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
3408 TTTTCAGGGC
3418 AGTTTTTGCAA
1 AGTTTTTGCAA
*
3429 A-ATTTTGCAA
1 AGTTTTTGCAA
3439 AGTTTTTGCAA
1 AGTTTTTGCAA
3450 A
1 A
3451 ATCGTTTACT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.33, C:0.09, G:0.15, T:0.42
Consensus pattern (11 bp):
AGTTTTTGCAA
Found at i:7281 original size:332 final size:326
Alignment explanation
Indices: 6738--7683 Score: 1056
Period size: 331 Copynumber: 2.8 Consensus size: 326
6728 ACGAAGGGGT
* * * * *
6738 TATATTTTTTATGAGTATTGTGTCCAAAAATTGAAGAAAAATCTTGCGTGTTAGCTTTTGCAAAA
1 TATATTTTTTATGAGTATTGTGGCCAAAAATTGAAGAAAAATATTTCGGGTTAGTTTTTGCAAAA
* * * *** * *
6803 TTTTAGCCGAAATCGTGTATCATCACGATTTTTTTATAAAAAAAACGCGTTTCGATGCCCCGGCT
66 TTTTAGCCGAAATCGTGTACCATAACG-GTTTTGGCT---AAAAACGCGTTACG-GGCCCCGGCT
* * *
6868 CAGTTTTACATGACTT-TTGGTGCCAAGACTCATTGAAATATCTATATTCATCTAACCAAATGTC
126 CAGTTTTGCATGA-TTCTTGGCGCCAAGACTCATTGAAATATCTATATTCATCTAACCAAATCTC
* * *
6932 AGCTACAATTGATTTAAGGATTTATTTTTACAAGTATCTAAATCATGTTTCGATTTAATCAGAAA
190 AG-TACATTTGATTTAAGGATTTGTTTTTACAAGCATCTAAATCATGTTTCGATTTAATCAGAAA
* * * **
6997 TTGATTCAGGAAAAAATAGAAAAAACGATATTAGAAGGCTGAGAGGCCCTTCATTCTTCTTGGCG
254 TTAATTCAGGAAAAAATAGAAAAAACGATATTAGAAGGCTGAAAAGCCCTTCAAACTTCTTGGCG
*
7062 TTGAATTA
319 TTGAATAA
* * * *
7070 TATTTTTTTTTACGAGTATTGTGGCCAAAAATTGAGGAAAAATTTTTCGGAGTTAGTTTTTGCAA
1 TA-TATTTTTTATGAGTATTGTGGCCAAAAATTGAAGAAAAATATTTCGG-GTTAGTTTTTGCAA
* * *
7135 AATTTTTAGCCGAAATCGTGTACCATAACGGCTTTTGGCTAAAAATGTGTTCCAGGGCCCCGGCT
64 AA-TTTTAGCCGAAATCGTGTACCATAACGG-TTTTGGCTAAAAACGCGTTAC-GGGCCCCGGCT
* * * * *
7200 CAGTTTTGCTTCATTCTTGGCGCCAAGACTCAATGAAATATCTACATTCATCTAAACAAATCTCA
126 CAGTTTTGCATGATTCTTGGCGCCAAGACTCATTGAAATATCTATATTCATCTAACCAAATCTCA
* *
7265 -TACACTTTGGATTTAAGGATTTGTTTTTACAAGCATCTAAATCATGTTTCAACTTAATCAGAAA
191 GTACA-TTT-GATTTAAGGATTTGTTTTTACAAGCATCTAAATCATGTTTCGATTTAATCAGAAA
* * *
7329 TTAATTCA-GAAAAAATAGACAAAACTATATTAGAAGGCTGAAAAGCCCTTCAAACTTTTTGGCG
254 TTAATTCAGGAAAAAATAGAAAAAACGATATTAGAAGGCTGAAAAGCCCTTCAAACTTCTTGGCG
7393 TTGAATAA
319 TTGAATAA
* * * *
7401 TATATTTTTTATGAGTATTAT-GCCAAAAAATTGAAGATAAGTATTTCGGGTTATTTTTTGCAAA
1 TATATTTTTTATGAGTATTGTGGCC-AAAAATTGAAGAAAAATATTTCGGGTTAGTTTTTGCAAA
* * * * * ** *
7465 ATTTTAGTCTAAATCGTTTACTAATCACCACGGTTATTGGCT-AAAACGCGATACGGGGATCCGA
65 ATTTTAGCCGAAATCGTGTAC-CAT-A--ACGGTT-TTGGCTAAAAACGCGTTAC-GGGCCCCGG
* * * * *
7529 CTCGGTTTTGCCTGATTCTTGGCCCCAAGACTCGTTGAAATATCTATATTCATCTAACCAAATTT
124 CTCAGTTTTGCATGATTCTTGGCGCCAAGACTCATTGAAATATCTATATTCATCTAACCAAATCT
* * * * * * *
7594 TAGTCAAATTTGATTTAAGGATTTGCTTTTACGAGCATCTGAATCATTTTTCGATTTAATCAAAA
189 CAGT-ACATTTGATTTAAGGATTTGTTTTTACAAGCATCTAAATCATGTTTCGATTTAATCAGAA
*
7659 ATTTATTCAGGAAAAAATAGAAAAA
253 ATTAATTCAGGAAAAAATAGAAAAA
7684 CATACTGAGC
Statistics
Matches: 517, Mismatches: 80, Indels: 34
0.82 0.13 0.05
Matches are distributed among these distances:
328 17 0.03
329 20 0.04
330 41 0.08
331 190 0.37
332 161 0.31
333 43 0.08
334 15 0.03
335 30 0.06
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (326 bp):
TATATTTTTTATGAGTATTGTGGCCAAAAATTGAAGAAAAATATTTCGGGTTAGTTTTTGCAAAA
TTTTAGCCGAAATCGTGTACCATAACGGTTTTGGCTAAAAACGCGTTACGGGCCCCGGCTCAGTT
TTGCATGATTCTTGGCGCCAAGACTCATTGAAATATCTATATTCATCTAACCAAATCTCAGTACA
TTTGATTTAAGGATTTGTTTTTACAAGCATCTAAATCATGTTTCGATTTAATCAGAAATTAATTC
AGGAAAAAATAGAAAAAACGATATTAGAAGGCTGAAAAGCCCTTCAAACTTCTTGGCGTTGAATA
A
Found at i:8380 original size:16 final size:16
Alignment explanation
Indices: 8359--8390 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
8349 TACAATATTG
8359 TGCTCTAATTGAGCAT
1 TGCTCTAATTGAGCAT
8375 TGCTCTAATTGAGCAT
1 TGCTCTAATTGAGCAT
8391 CATTTCTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.38
Consensus pattern (16 bp):
TGCTCTAATTGAGCAT
Found at i:9827 original size:40 final size:40
Alignment explanation
Indices: 9772--9868 Score: 149
Period size: 40 Copynumber: 2.4 Consensus size: 40
9762 TATTAAACGG
* *
9772 CTCTCGGCAGTGATGCTCCCCAAATACATCGCAGACGCGA
1 CTCTCGGCAGTGATGCTCCCCAAACACATCGCAGACGCAA
* *
9812 CTCTCGGCAGTGATGCTCCCCACACACATGGCAGACGCAA
1 CTCTCGGCAGTGATGCTCCCCAAACACATCGCAGACGCAA
*
9852 CTCTCGGAAGTGATGCT
1 CTCTCGGCAGTGATGCT
9869 TCGCCACACA
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 52 1.00
ACGTcount: A:0.24, C:0.34, G:0.24, T:0.19
Consensus pattern (40 bp):
CTCTCGGCAGTGATGCTCCCCAAACACATCGCAGACGCAA
Found at i:10010 original size:40 final size:40
Alignment explanation
Indices: 9955--10105 Score: 223
Period size: 40 Copynumber: 3.8 Consensus size: 40
9945 TATTAAACGG
9955 CTCTCGACAGTGATGCTCCCCACACACAACGCAGACGCGA
1 CTCTCGACAGTGATGCTCCCCACACACAACGCAGACGCGA
* * *
9995 CTCTCGACAGTGATGCTCCCCAAATACATCGCAGACGCGA
1 CTCTCGACAGTGATGCTCCCCACACACAACGCAGACGCGA
* * *
10035 CTCTCGGA-AGTGATGCTCCCCGCACACAACACAGACGAGA
1 CTCTC-GACAGTGATGCTCCCCACACACAACGCAGACGCGA
*
10075 CTCTCGGCAGTGATGCTCCCCACACACAACG
1 CTCTCGACAGTGATGCTCCCCACACACAACG
10106 GAAGATTATC
Statistics
Matches: 97, Mismatches: 12, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
39 1 0.01
40 94 0.97
41 2 0.02
ACGTcount: A:0.27, C:0.38, G:0.21, T:0.15
Consensus pattern (40 bp):
CTCTCGACAGTGATGCTCCCCACACACAACGCAGACGCGA
Found at i:15442 original size:14 final size:14
Alignment explanation
Indices: 15423--15452 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
15413 ACAGCAACTG
*
15423 CATATATATATATA
1 CATATACATATATA
15437 CATATACATATATA
1 CATATACATATATA
15451 CA
1 CA
15453 AAAGATTAGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.50, C:0.13, G:0.00, T:0.37
Consensus pattern (14 bp):
CATATACATATATA
Found at i:25970 original size:24 final size:24
Alignment explanation
Indices: 25943--25991 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
25933 TCAAACAAGA
* *
25943 GGAAATGTTTCATTGCCTGATGTT
1 GGAAATGCTTCATTACCTGATGTT
25967 GGAAATGCTTCATTACCTGATGTT
1 GGAAATGCTTCATTACCTGATGTT
25991 G
1 G
25992 AAGATAGGGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.22, C:0.14, G:0.24, T:0.39
Consensus pattern (24 bp):
GGAAATGCTTCATTACCTGATGTT
Found at i:28408 original size:29 final size:30
Alignment explanation
Indices: 28348--28419 Score: 92
Period size: 29 Copynumber: 2.4 Consensus size: 30
28338 ATACAGTACA
* *
28348 GGTCCCTCTACTTACAAAAAGGGATCGATTT
1 GGTCCCTCTAC-TACAAAAACGGATCAATTT
* *
28379 GGTCCCCCTACTACAAAAACTG-TCAATTT
1 GGTCCCTCTACTACAAAAACGGATCAATTT
28408 GGTCCCTCTACT
1 GGTCCCTCTACT
28420 TATAATTTGG
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
29 17 0.47
30 9 0.25
31 10 0.28
ACGTcount: A:0.26, C:0.29, G:0.15, T:0.29
Consensus pattern (30 bp):
GGTCCCTCTACTACAAAAACGGATCAATTT
Found at i:28756 original size:29 final size:31
Alignment explanation
Indices: 28721--28793 Score: 105
Period size: 29 Copynumber: 2.4 Consensus size: 31
28711 ATCAAATTGT
28721 AAGTAGAGGGACCAAATTGAT-AGTTTTT-A
1 AAGTAGAGGGACCAAATTGATCAGTTTTTGA
* **
28750 TAGTAGAGGGACCAAATTGATCCTTTTTTGA
1 AAGTAGAGGGACCAAATTGATCAGTTTTTGA
28781 AAGTAGAGGGACC
1 AAGTAGAGGGACC
28794 TGTACGGTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
29 20 0.53
30 5 0.13
31 13 0.34
ACGTcount: A:0.34, C:0.11, G:0.26, T:0.29
Consensus pattern (31 bp):
AAGTAGAGGGACCAAATTGATCAGTTTTTGA
Found at i:37165 original size:24 final size:24
Alignment explanation
Indices: 37137--37187 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
37127 TCTACCTTCA
37137 GATCTTGACGTGTAATCTTTTTTT
1 GATCTTGACGTGTAATCTTTTTTT
37161 GATCTTGACGTGTAATCTTTTTTT
1 GATCTTGACGTGTAATCTTTTTTT
37185 GAT
1 GAT
37188 TGTCGTGTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.18, C:0.12, G:0.18, T:0.53
Consensus pattern (24 bp):
GATCTTGACGTGTAATCTTTTTTT
Found at i:37194 original size:22 final size:23
Alignment explanation
Indices: 37140--37195 Score: 87
Period size: 24 Copynumber: 2.4 Consensus size: 23
37130 ACCTTCAGAT
37140 CTTGACGTGTAATCTTTTTTTGA
1 CTTGACGTGTAATCTTTTTTTGA
37163 TCTTGACGTGTAATCTTTTTTTGA
1 -CTTGACGTGTAATCTTTTTTTGA
*
37187 -TTGTCGTGT
1 CTTGACGTGT
37196 TTGGATAATG
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
22 8 0.26
24 23 0.74
ACGTcount: A:0.14, C:0.12, G:0.20, T:0.54
Consensus pattern (23 bp):
CTTGACGTGTAATCTTTTTTTGA
Found at i:45515 original size:17 final size:17
Alignment explanation
Indices: 45493--45529 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
45483 AAGACCAAAT
45493 CCAAATTAATCAAAGCA
1 CCAAATTAATCAAAGCA
45510 CCAAATTAATCAAAGCA
1 CCAAATTAATCAAAGCA
45527 CCA
1 CCA
45530 TAACCAGGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.51, C:0.27, G:0.05, T:0.16
Consensus pattern (17 bp):
CCAAATTAATCAAAGCA
Found at i:53794 original size:7 final size:7
Alignment explanation
Indices: 53784--53826 Score: 68
Period size: 7 Copynumber: 6.1 Consensus size: 7
53774 TCAAAATCAA
53784 TGACTCG
1 TGACTCG
53791 TGACTCG
1 TGACTCG
*
53798 TGAGTCG
1 TGACTCG
53805 TGACTCG
1 TGACTCG
*
53812 TGAGTCG
1 TGACTCG
53819 TGACTCG
1 TGACTCG
53826 T
1 T
53827 TCTCGCACGC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.14, C:0.23, G:0.33, T:0.30
Consensus pattern (7 bp):
TGACTCG
Found at i:53807 original size:14 final size:14
Alignment explanation
Indices: 53788--53826 Score: 78
Period size: 14 Copynumber: 2.8 Consensus size: 14
53778 AATCAATGAC
53788 TCGTGACTCGTGAG
1 TCGTGACTCGTGAG
53802 TCGTGACTCGTGAG
1 TCGTGACTCGTGAG
53816 TCGTGACTCGT
1 TCGTGACTCGT
53827 TCTCGCACGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.13, C:0.23, G:0.33, T:0.31
Consensus pattern (14 bp):
TCGTGACTCGTGAG
Found at i:54101 original size:6 final size:6
Alignment explanation
Indices: 54090--54115 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
54080 TCCCCGTCTT
54090 GGCACC GGCACC GGCACC GGCACC GG
1 GGCACC GGCACC GGCACC GGCACC GG
54116 TACCCGCTCC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.46, G:0.38, T:0.00
Consensus pattern (6 bp):
GGCACC
Found at i:61441 original size:13 final size:13
Alignment explanation
Indices: 61425--61453 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
61415 AGAAAACTAT
61425 ACTGGAAATATGA
1 ACTGGAAATATGA
61438 ACTGGAAATATGA
1 ACTGGAAATATGA
61451 ACT
1 ACT
61454 TTTTAGCAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.45, C:0.10, G:0.21, T:0.24
Consensus pattern (13 bp):
ACTGGAAATATGA
Found at i:71147 original size:38 final size:38
Alignment explanation
Indices: 71102--71174 Score: 146
Period size: 38 Copynumber: 1.9 Consensus size: 38
71092 GTAATGGAAA
71102 CAAGTTTTAACTCAACTGAAACAAAGAAGAAATAAACT
1 CAAGTTTTAACTCAACTGAAACAAAGAAGAAATAAACT
71140 CAAGTTTTAACTCAACTGAAACAAAGAAGAAATAA
1 CAAGTTTTAACTCAACTGAAACAAAGAAGAAATAA
71175 TAAGTGATAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.53, C:0.15, G:0.11, T:0.21
Consensus pattern (38 bp):
CAAGTTTTAACTCAACTGAAACAAAGAAGAAATAAACT
Found at i:81888 original size:168 final size:168
Alignment explanation
Indices: 81610--82084 Score: 896
Period size: 168 Copynumber: 2.8 Consensus size: 168
81600 TCATGTAGTG
*
81610 GGAAATTAGGAAGTTCATATGATGGATTACCTGTAACAAGCAATCGGTTAGGGTCTCTTAGTGAA
1 GGAAATTAGGAAGTTCATATGATGGAATACCTGTAACAAGCAATCGGTTAGGGTCTCTTAGTGAA
*
81675 AAACCTGATGGTCCAAAAGTTGGCAAATGGCAGCTTTTAGAGGATAGTCGGGATCCTTATGCATT
66 AAACCTGATGGTCCAAAAGCTGGCAAATGGCAGCTTTTAGAGGATAGTCGGGATCCTTATGCATT
81740 TGATGAAGAGGATAGTCAGGATCCTAAAGCTGGCAAAT
131 TGATGAAGAGGATAGTCAGGATCCTAAAGCTGGCAAAT
81778 GGAAATTAGGAAGTTCATATGATGGAATACCTGTAACAAGCAATCGGTTAGGGTCTCTTAGTGAA
1 GGAAATTAGGAAGTTCATATGATGGAATACCTGTAACAAGCAATCGGTTAGGGTCTCTTAGTGAA
*
81843 AAACCTGATGGTCCAAAAGCTGGCAAATTGCAGCTTTTAGAGGATAGTCGGGATCCTTATGCATT
66 AAACCTGATGGTCCAAAAGCTGGCAAATGGCAGCTTTTAGAGGATAGTCGGGATCCTTATGCATT
81908 TGATGAAGAGGATAGTCAGGATCCTAAAGCTGGCAAAT
131 TGATGAAGAGGATAGTCAGGATCCTAAAGCTGGCAAAT
*
81946 GGAAATTAGGAAGTTCATATGATGGAATACCTGTAACAAGCAATCGGTTAGGGTCTCTTAGTGTA
1 GGAAATTAGGAAGTTCATATGATGGAATACCTGTAACAAGCAATCGGTTAGGGTCTCTTAGTGAA
* *
82011 AAACCTGATGGTCTAAAAGCTGGCAAATGGCAGCTTTTAGAGGATAGTCAGGATCCTTATGCATT
66 AAACCTGATGGTCCAAAAGCTGGCAAATGGCAGCTTTTAGAGGATAGTCGGGATCCTTATGCATT
82076 TGATGAAGA
131 TGATGAAGA
82085 TGATTTTGTG
Statistics
Matches: 300, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
168 300 1.00
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.27
Consensus pattern (168 bp):
GGAAATTAGGAAGTTCATATGATGGAATACCTGTAACAAGCAATCGGTTAGGGTCTCTTAGTGAA
AAACCTGATGGTCCAAAAGCTGGCAAATGGCAGCTTTTAGAGGATAGTCGGGATCCTTATGCATT
TGATGAAGAGGATAGTCAGGATCCTAAAGCTGGCAAAT
Found at i:92742 original size:72 final size:72
Alignment explanation
Indices: 92622--92761 Score: 221
Period size: 72 Copynumber: 1.9 Consensus size: 72
92612 GTATGCTGTT
*
92622 AAAGAAGAGAATTTGCCTGTTATTCTAAAAACCCATTTCCCCCTTCTGCAAAAACCCAACCTTTC
1 AAAGAAGAGAATTTGCCTGTTATTCTAAAAACCCATTTCCCCCTTCTGCAAAAACCAAACCTTTC
92687 AACAGTG
66 AACAGTG
* *
92694 AAAGAAGAGAATTTGCCTGTTATTC-AAAAGACCCATTTTCCTCC-TCTGCAAAAACCAAACGTT
1 AAAGAAGAGAATTTGCCTGTTATTCTAAAA-ACCCA-TTTCCCCCTTCTGCAAAAACCAAACCTT
92757 TCAAC
64 TCAAC
92762 GGTTCCTTTT
Statistics
Matches: 63, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
71 4 0.06
72 52 0.83
73 7 0.11
ACGTcount: A:0.36, C:0.26, G:0.11, T:0.26
Consensus pattern (72 bp):
AAAGAAGAGAATTTGCCTGTTATTCTAAAAACCCATTTCCCCCTTCTGCAAAAACCAAACCTTTC
AACAGTG
Found at i:103025 original size:3 final size:3
Alignment explanation
Indices: 103011--103059 Score: 62
Period size: 3 Copynumber: 16.3 Consensus size: 3
103001 GGGTGATTTA
* * * *
103011 GAG GAA GAG GAG GAG GAG GAG GAG GAA GAG GAA GAA GAG GAG GAG GAG
1 GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG
103059 G
1 G
103060 TTGAAGAAGA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.41, C:0.00, G:0.59, T:0.00
Consensus pattern (3 bp):
GAG
Found at i:103065 original size:21 final size:21
Alignment explanation
Indices: 103011--103073 Score: 81
Period size: 21 Copynumber: 3.0 Consensus size: 21
103001 GGGTGATTTA
* *
103011 GAGGAAGAGGAGGAGGAGGAG
1 GAGGAAGAGGAAGAAGAGGAG
103032 GAGGAAGAGGAAGAAGAGGAG
1 GAGGAAGAGGAAGAAGAGGAG
* **
103053 GAGGAGGTTGAAGAAGAGGAG
1 GAGGAAGAGGAAGAAGAGGAG
103074 TTGGAGGATG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.41, C:0.00, G:0.56, T:0.03
Consensus pattern (21 bp):
GAGGAAGAGGAAGAAGAGGAG
Found at i:108798 original size:19 final size:19
Alignment explanation
Indices: 108774--108831 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 19
108764 CTGTTTGACA
*
108774 ACTGTATAGATGAGATTAC
1 ACTGTACAGATGAGATTAC
* *
108793 ACTGTACAGATTAGATTAGGT
1 ACTGTACAGATGAGATTA--C
*
108814 ACTGTACAAATGAGATTA
1 ACTGTACAGATGAGATTA
108832 TTAAAGCAGC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
19 16 0.50
21 16 0.50
ACGTcount: A:0.38, C:0.10, G:0.21, T:0.31
Consensus pattern (19 bp):
ACTGTACAGATGAGATTAC
Found at i:108906 original size:19 final size:19
Alignment explanation
Indices: 108882--108918 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
108872 TTTGGTCCCA
*
108882 AAACGGTGGTGAAACGGTC
1 AAACGGTAGTGAAACGGTC
108901 AAACGGTAGTGAAACGGT
1 AAACGGTAGTGAAACGGT
108919 TACAAATAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.35, C:0.14, G:0.35, T:0.16
Consensus pattern (19 bp):
AAACGGTAGTGAAACGGTC
Found at i:112650 original size:3 final size:3
Alignment explanation
Indices: 112644--112672 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
112634 GCCGCGGCCG
112644 CCA CCA CCA CCA CCA CCA CCA CCA CCA CC
1 CCA CCA CCA CCA CCA CCA CCA CCA CCA CC
112673 TCCTTCATGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.69, G:0.00, T:0.00
Consensus pattern (3 bp):
CCA
Found at i:119481 original size:2 final size:2
Alignment explanation
Indices: 119470--119512 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
119460 AGTGGGAACA
119470 AT AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
119511 AT
1 AT
119513 CAGAGAAATT
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:125328 original size:19 final size:19
Alignment explanation
Indices: 125292--125333 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
125282 ATTCAAAACA
*
125292 AAATAAAAACTATCTATTTT
1 AAATAAAAACTAACTA-TTT
*
125312 AAAT-AAAACTAAGTATTT
1 AAATAAAAACTAACTATTT
125330 AAAT
1 AAAT
125334 TTTATTTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 7 0.35
19 9 0.45
20 4 0.20
ACGTcount: A:0.55, C:0.07, G:0.02, T:0.36
Consensus pattern (19 bp):
AAATAAAAACTAACTATTT
Found at i:130156 original size:3 final size:3
Alignment explanation
Indices: 130143--130209 Score: 127
Period size: 3 Copynumber: 22.7 Consensus size: 3
130133 CCATAATTAT
130143 ATA AT- ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
130190 ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA AT
130210 CTATACTAAT
Statistics
Matches: 63, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 2 0.03
3 61 0.97
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:130328 original size:19 final size:20
Alignment explanation
Indices: 130292--130338 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
130282 ATTCAAAACA
130292 AAATAAAAACTATCCATT-TT
1 AAAT-AAAACTATCCATTATT
130312 AAATAAAACTA-CTCATTATT
1 AAATAAAACTATC-CATTATT
*
130332 AGATAAA
1 AAATAAA
130339 TATAAGTATT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
18 1 0.04
19 11 0.46
20 12 0.50
ACGTcount: A:0.53, C:0.13, G:0.02, T:0.32
Consensus pattern (20 bp):
AAATAAAACTATCCATTATT
Found at i:137257 original size:23 final size:23
Alignment explanation
Indices: 137227--137272 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
137217 GCAGGTGATG
137227 TTAATTATGCTCACAATGTCAAT
1 TTAATTATGCTCACAATGTCAAT
137250 TTAATTATGCTCACAATGTCAAT
1 TTAATTATGCTCACAATGTCAAT
137273 AATGTCATGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.35, C:0.17, G:0.09, T:0.39
Consensus pattern (23 bp):
TTAATTATGCTCACAATGTCAAT
Found at i:137736 original size:2 final size:2
Alignment explanation
Indices: 137729--137768 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
137719 TAAATCTTAT
137729 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
137769 CGGGTTTAGT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:155217 original size:58 final size:55
Alignment explanation
Indices: 155147--155319 Score: 220
Period size: 58 Copynumber: 3.0 Consensus size: 55
155137 AGTATATCTG
* * *
155147 TGGTTAATTAAATAGTTCTGGTACAAAGTACTACCTTTATAATAAGTAATGTAATAAA
1 TGGTTAATTAAATAGTTTTGGTACCAAGTACTACC-TT-T-ATAAGTAATGTTATAAA
* *
155205 TGGTTAATTAAATGGTTTTGGTACCAAGTATACTACCCTCTATAAGTAATGTTATAAA
1 TGGTTAATTAAATAGTTTTGGTACCAAG--TACTA-CCTTTATAAGTAATGTTATAAA
* *
155263 TGATTAATTAAATAATTTTGGTACCAAGTACTACCCTTTATAAGTAATGTTATAAA
1 TGGTTAATTAAATAGTTTTGGTACCAAGTACTA-CCTTTATAAGTAATGTTATAAA
155319 T
1 T
155320 AGTATTAGGT
Statistics
Matches: 103, Mismatches: 9, Indels: 8
0.86 0.08 0.07
Matches are distributed among these distances:
56 28 0.27
58 66 0.64
59 1 0.01
60 6 0.06
61 2 0.02
ACGTcount: A:0.38, C:0.10, G:0.13, T:0.38
Consensus pattern (55 bp):
TGGTTAATTAAATAGTTTTGGTACCAAGTACTACCTTTATAAGTAATGTTATAAA
Found at i:159580 original size:15 final size:15
Alignment explanation
Indices: 159560--159608 Score: 71
Period size: 15 Copynumber: 3.3 Consensus size: 15
159550 GAGAAGGCCC
159560 GGTCCACCCGGAAGG
1 GGTCCACCCGGAAGG
**
159575 GGTCCAGGCGGAAGG
1 GGTCCACCCGGAAGG
*
159590 GGCCCACCCGGAAGG
1 GGTCCACCCGGAAGG
159605 GGTC
1 GGTC
159609 GTGCTGGTGC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.18, C:0.31, G:0.45, T:0.06
Consensus pattern (15 bp):
GGTCCACCCGGAAGG
Found at i:162442 original size:1 final size:1
Alignment explanation
Indices: 162436--162470 Score: 61
Period size: 1 Copynumber: 35.0 Consensus size: 1
162426 AGAATTTGTC
*
162436 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTCTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
162471 CTCTCTCTCT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 32 1.00
ACGTcount: A:0.00, C:0.03, G:0.00, T:0.97
Consensus pattern (1 bp):
T
Found at i:166325 original size:30 final size:32
Alignment explanation
Indices: 166276--166341 Score: 91
Period size: 31 Copynumber: 2.1 Consensus size: 32
166266 CACATATTAA
*
166276 ATTAATCACCCCTTATC-TTTTTCTGGTACAT
1 ATTAATCACCCCATATCTTTTTTCTGGTACAT
* *
166307 ATTAATC-CCCCATATCTTTTTTTTGGTAGAT
1 ATTAATCACCCCATATCTTTTTTCTGGTACAT
166338 ATTA
1 ATTA
166342 TAATCCCCGC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
30 8 0.26
31 23 0.74
ACGTcount: A:0.24, C:0.21, G:0.08, T:0.47
Consensus pattern (32 bp):
ATTAATCACCCCATATCTTTTTTCTGGTACAT
Found at i:167995 original size:21 final size:21
Alignment explanation
Indices: 167969--168008 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
167959 GCCGGCAAGG
*
167969 GACCGGGAGGGAGGCCAGGCC
1 GACCGGGAAGGAGGCCAGGCC
167990 GACCGGGAAGGAGGCCAGG
1 GACCGGGAAGGAGGCCAGG
168009 GCCTCGTGGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.23, C:0.25, G:0.53, T:0.00
Consensus pattern (21 bp):
GACCGGGAAGGAGGCCAGGCC
Found at i:169927 original size:52 final size:53
Alignment explanation
Indices: 169721--169935 Score: 378
Period size: 53 Copynumber: 4.1 Consensus size: 53
169711 TGTTTATTCA
*
169721 ATTGAACCTATTAAATAAGCACACATACCAAATAATACAAAATGCAATGAACT
1 ATTGAACCTATTAAATAAACACACATACCAAATAATACAAAATGCAATGAACT
*
169774 ATCGAACCTATTAAATAAACACACATACCAAATAATACAAAATGCAATGAACT
1 ATTGAACCTATTAAATAAACACACATACCAAATAATACAAAATGCAATGAACT
*
169827 ATTGAACCTATTAAATAAACACACATACCAAATAATACAAAATGCAATGAGCT
1 ATTGAACCTATTAAATAAACACACATACCAAATAATACAAAATGCAATGAACT
* *
169880 ATTGAACCTATTAAATAAGCA-ACATACCAAATAATACAAAATGCAATGAGCT
1 ATTGAACCTATTAAATAAACACACATACCAAATAATACAAAATGCAATGAACT
169932 ATTG
1 ATTG
169936 GATTTAAAGA
Statistics
Matches: 157, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
52 35 0.22
53 122 0.78
ACGTcount: A:0.51, C:0.19, G:0.08, T:0.23
Consensus pattern (53 bp):
ATTGAACCTATTAAATAAACACACATACCAAATAATACAAAATGCAATGAACT
Found at i:170658 original size:55 final size:55
Alignment explanation
Indices: 170592--170696 Score: 201
Period size: 55 Copynumber: 1.9 Consensus size: 55
170582 AACTCTCACG
170592 GAATGTGAGTTTGTTTGTAATTTGTTTGTTTATTTGGTAGGTACCTAGTTCGTGA
1 GAATGTGAGTTTGTTTGTAATTTGTTTGTTTATTTGGTAGGTACCTAGTTCGTGA
*
170647 GAATGTGAGTTTGTTTGTAATTTGTTTGTTTATTTGGTAGGTATCTAGTT
1 GAATGTGAGTTTGTTTGTAATTTGTTTGTTTATTTGGTAGGTACCTAGTT
170697 TATGGTATAG
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 49 1.00
ACGTcount: A:0.18, C:0.04, G:0.27, T:0.51
Consensus pattern (55 bp):
GAATGTGAGTTTGTTTGTAATTTGTTTGTTTATTTGGTAGGTACCTAGTTCGTGA
Found at i:170799 original size:50 final size:51
Alignment explanation
Indices: 170715--170817 Score: 172
Period size: 50 Copynumber: 2.0 Consensus size: 51
170705 AGTTTCTAGT
* *
170715 TTGGGTTGAATTCTCAATTTAGATGTTTGAGTACATAGAGATTTATTTGAA
1 TTGGGTTGAATTCTCAATTTAAATGTTTGAGTACATAGAGATTTATTTAAA
*
170766 TTGGGTTGAATTCTC-ATTTAAATGTTTGGGTACATAGAGATTTATTTAAA
1 TTGGGTTGAATTCTCAATTTAAATGTTTGAGTACATAGAGATTTATTTAAA
170816 TT
1 TT
170818 CTCATATATA
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
50 34 0.69
51 15 0.31
ACGTcount: A:0.29, C:0.06, G:0.20, T:0.45
Consensus pattern (51 bp):
TTGGGTTGAATTCTCAATTTAAATGTTTGAGTACATAGAGATTTATTTAAA
Found at i:174471 original size:15 final size:15
Alignment explanation
Indices: 174451--174482 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
174441 TAAATTTGTC
174451 GTATTAACAACATTA
1 GTATTAACAACATTA
174466 GTATTAACAACATTA
1 GTATTAACAACATTA
174481 GT
1 GT
174483 TCATTTGGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.44, C:0.12, G:0.09, T:0.34
Consensus pattern (15 bp):
GTATTAACAACATTA
Found at i:180313 original size:72 final size:71
Alignment explanation
Indices: 180103--180506 Score: 370
Period size: 77 Copynumber: 5.4 Consensus size: 71
180093 TGTATTGTGG
* * **
180103 AGTGGAAATCTCCCCTTAGTTGGCTTTTTAATTACAAAACCAGAAGAAAAATAGAGTTTAATTAA
1 AGTGGAAATCTCCCCCTAGTTGGCCTTTTAATTACAAAAGTAGAAGAAAAATAGA-TTTAATTAA
*
180168 ATTTGCAA
65 ATTTG-TA
* **
180176 AGTGGAAATCTCCCCCTAGCTAGTTGGCTTTTTAATTACAACAA-CCGAAGAAAAATAGAGTTTA
1 AGTGGAAATCT-CCCC---CTAGTTGGCCTTTTAATTACAA-AAGTAGAAGAAAAATAGA-TTTA
*
180240 ATTAAATTTGTCT
60 ATTAAATTTGT-A
180253 AGTGGAAATCT-CCCCTAGTTGGCCTTTTAATTACAAAAGTAGAAGAAAAATAGATCTTAATTAT
1 AGTGGAAATCTCCCCCTAGTTGGCCTTTTAATTACAAAAGTAGAAGAAAAATAGAT-TTAATTA-
* *
180317 AAGTTGGA
64 AATTTGTA
* *
180325 AGTGGAAATCTCCCCCTAGTTGG-CTTTTGAATTACAAAAGTAATTAAGGAAAAATATATTTTAA
1 AGTGGAAATCTCCCCCTAGTTGGCCTTTT-AATTACAAAAGT-A-GAA-GAAAAATAGA-TTTAA
* *
180389 TTATATGTGTA
61 TTAAATTTGTA
*
180400 AGATGGAAATCTCTCCCTAGCTAGTTGG-CTTTTGAATTACAAAAGTAAAAGAAAAATAGATTTT
1 AG-TGGAAATCTC-CCC---CTAGTTGGCCTTTT-AATTACAAAAGTAGAAGAAAAATAGA-TTT
* *
180464 AATT--ATGTGTG
59 AATTAAATTTGTA
* *
180475 AGATGGAAAACTCCCCCTAGTTGGCATTTTAA
1 AG-TGGAAATCTCCCCCTAGTTGGCCTTTTAA
180507 ATTTTAATTA
Statistics
Matches: 289, Mismatches: 21, Indels: 44
0.82 0.06 0.12
Matches are distributed among these distances:
71 13 0.04
72 61 0.21
73 39 0.13
74 8 0.03
75 29 0.10
76 26 0.09
77 82 0.28
78 4 0.01
79 1 0.00
80 26 0.09
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.32
Consensus pattern (71 bp):
AGTGGAAATCTCCCCCTAGTTGGCCTTTTAATTACAAAAGTAGAAGAAAAATAGATTTAATTAAA
TTTGTA
Found at i:180608 original size:85 final size:84
Alignment explanation
Indices: 180373--180654 Score: 217
Period size: 81 Copynumber: 3.5 Consensus size: 84
180363 AGTAATTAAG
* * *
180373 GAAAAA-TATATTTTAATTATATGTGT-AAGATGGAAATCTCTCCCTA--GCTAGTTGGCT-TTT
1 GAAAAACTAGATTTTAATTATATGTGTGAAGATGGAAATCTCCCCCTAGGGCTAGTTGGATATTT
**
180433 GAATTAC--AAAAGTAAA-A
66 -AATTACAAAAAAAAAAACA
* ** *
180450 GAAAAA-TAGATTTTAA-T-TATGTGTG-AGATGGAAAACTCCCCCTAGTTGGC-A-TTTTAAAT
1 GAAAAACTAGATTTTAATTATATGTGTGAAGATGGAAATCTCCCCCTAG--GGCTAGTTGGATA-
180509 TTTAATTACAAAAAAAAAAAACA
63 TTTAATTAC-AAAAAAAAAAACA
*
180532 GAAGAAACTTAGATTTTAATTATATTTGTGAAG-TGGAAATCTCCCCCTAGGGCTAGTTGGATAT
1 GAA-AAAC-TAGATTTTAATTATATGTGTGAAGATGGAAATCTCCCCCTAGGGCTAGTTGGATAT
*
180596 TTAATTACAAAAACAAAAGACA
64 TTAATTACAAAAA-AAAAAACA
* * *
180618 -AATAGAC-A-A-TTTAATTATATTTGTGGAG-TGGAAATCT
1 GAA-AAACTAGATTTTAATTATATGTGTGAAGATGGAAATCT
180655 TCCCTAATTA
Statistics
Matches: 167, Mismatches: 18, Indels: 36
0.76 0.08 0.16
Matches are distributed among these distances:
75 24 0.14
76 1 0.01
77 17 0.10
78 7 0.04
79 5 0.03
81 34 0.20
82 5 0.03
83 4 0.02
85 23 0.14
86 18 0.11
87 27 0.16
88 2 0.01
ACGTcount: A:0.41, C:0.11, G:0.16, T:0.33
Consensus pattern (84 bp):
GAAAAACTAGATTTTAATTATATGTGTGAAGATGGAAATCTCCCCCTAGGGCTAGTTGGATATTT
AATTACAAAAAAAAAAACA
Found at i:180642 original size:81 final size:77
Alignment explanation
Indices: 180546--180697 Score: 207
Period size: 81 Copynumber: 1.9 Consensus size: 77
180536 AAACTTAGAT
*
180546 TTTAATTATATTTGTGAAGTGGAAATCTCCCCCTAGGGCTAGTTGGATATTT-AATTACAAAAAC
1 TTTAATTATATTTGTGAAGTGGAAATCT-CCCCTA--ACTAGTTGGAT-TTTCAATTACAAAAAC
180610 AAAAGACAAATAGACAA
62 AAAAGA-AAATAGACAA
* * * *
180627 TTTAATTATATTTGTGGAGTGGAAATCTTCCCTAATTAGTTGGCTTTTCAATTACAAAAACAAAA
1 TTTAATTATATTTGTGAAGTGGAAATCTCCCCTAACTAGTTGGATTTTCAATTACAAAAACAAAA
180692 GAAAAT
66 GAAAAT
180698 TTGATTTTAA
Statistics
Matches: 65, Mismatches: 5, Indels: 6
0.86 0.07 0.08
Matches are distributed among these distances:
77 7 0.11
78 26 0.40
80 5 0.08
81 27 0.42
ACGTcount: A:0.39, C:0.12, G:0.15, T:0.33
Consensus pattern (77 bp):
TTTAATTATATTTGTGAAGTGGAAATCTCCCCTAACTAGTTGGATTTTCAATTACAAAAACAAAA
GAAAATAGACAA
Found at i:187528 original size:36 final size:36
Alignment explanation
Indices: 187481--187552 Score: 126
Period size: 36 Copynumber: 2.0 Consensus size: 36
187471 ATATATATAT
187481 ACATATTTCTAGACTTATGACTTTTTGAGGAAAAAC
1 ACATATTTCTAGACTTATGACTTTTTGAGGAAAAAC
* *
187517 ACATATTTCTAGATTTCTGACTTTTTGAGGAAAAAC
1 ACATATTTCTAGACTTATGACTTTTTGAGGAAAAAC
187553 TATAAATTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.38
Consensus pattern (36 bp):
ACATATTTCTAGACTTATGACTTTTTGAGGAAAAAC
Found at i:187565 original size:5 final size:5
Alignment explanation
Indices: 187555--187584 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
187545 GGAAAAACTA
187555 TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT
1 TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT
187585 AAAAAAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TAAAT
Found at i:188610 original size:2 final size:2
Alignment explanation
Indices: 188603--188647 Score: 72
Period size: 2 Copynumber: 22.0 Consensus size: 2
188593 AAGCGTTTGG
*
188603 TA TA TA TA AA GTA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
188646 TA
1 TA
188648 GGTACAAAAG
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
2 39 0.98
3 1 0.03
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (2 bp):
TA
Found at i:189261 original size:132 final size:132
Alignment explanation
Indices: 189024--189283 Score: 421
Period size: 132 Copynumber: 2.0 Consensus size: 132
189014 ACAATAATCA
* * * *
189024 TAAAACATATATAATTCAAGGGCCAGAAGATTTGAGGGTTTTCACACTTCTAATATCGTTTTTCC
1 TAAAAAATATATAATTCAAGGGCCAGAAGATTGGAGGGTTTTCACACTTCTAACACCGTTTTTCC
* *
189089 TAATTTTTTCTAAATTAATTTCTAATTAAATCGAAACCGGTTTCAGATGCTCGTAAAAACATATT
66 TAATTTTTTCTAAATTAATTTCTAATTAAATCCAAACCGGTTTCAGATGCTCATAAAAACATATT
189154 CT
131 CT
* * * *
189156 TAAAAAATATATAATTGAAGGGCTAGAAGATTGGATGGTTTTCACGCTTCTAACACCGTTTTTCC
1 TAAAAAATATATAATTCAAGGGCCAGAAGATTGGAGGGTTTTCACACTTCTAACACCGTTTTTCC
*
189221 TAATTTTTTCTAAATTAATTTCTAATTCAATCCAAACCGGTTTCAGATGCTCATAAAAACATA
66 TAATTTTTTCTAAATTAATTTCTAATTAAATCCAAACCGGTTTCAGATGCTCATAAAAACATA
189284 ACTGTTAAAT
Statistics
Matches: 117, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
132 117 1.00
ACGTcount: A:0.35, C:0.16, G:0.12, T:0.37
Consensus pattern (132 bp):
TAAAAAATATATAATTCAAGGGCCAGAAGATTGGAGGGTTTTCACACTTCTAACACCGTTTTTCC
TAATTTTTTCTAAATTAATTTCTAATTAAATCCAAACCGGTTTCAGATGCTCATAAAAACATATT
CT
Found at i:190194 original size:333 final size:334
Alignment explanation
Indices: 189149--191398 Score: 2996
Period size: 333 Copynumber: 6.8 Consensus size: 334
189139 TCGTAAAAAC
* * * * *
189149 ATATTCTTAAAAAATATATAATTGAAGGGCTAGAAGATTGGATGGTTTTCACGCTTCTAACACCG
1 ATATTCATAAAAAATATATAATTCAAGGGCTAGAAGATTGGAGGGTTTTCACGCTTCTAATATCG
* * *
189214 TTTTTCCTAATTTTTTCTAAATTAATTTCTAATTCAATC-CAAACCGGTTTCAGATGCTCATAAA
66 TTTTTCCTAATTTTTTCTAAATTAATTTCTAATTAAATCTAAAACTGGTTTCAGATGCTCATAAA
* *
189278 AACATAACTGTTAAATCCAATGTGGTTGAAATTTGATTAGATGAATATAGATATTTAAAGGAGTT
131 AACATAACTCTTAAATCCAATGTGGTTGAGATTTGATTAGATGAATATAGATATTTAAAGGAGTT
* * * * * *
189343 TCCGCGCCAAAAATCAGGCAAAGATGAGACGGGATCCCGGAACTTGTTTTTAGCTAATAAACGTG
196 TCTGCGCCAAAAATCATGCAAAAATGAGACGGGGTCCCGGAACGTGTTTTTAGCTAAAAAACGTG
* *
189408 ATAGTTAGTATACGATTTCCGCTAAAATTTAGCAAAAACAGTCCCGAAAAATTTTTCCTCAATTT
261 ATAGTTAGTATACGATTTCGGCTAAAATTTAGCAAAAACTGTCCCGAAAAATTTTTCCTCAATTT
*
189473 TTTG-CAACA
326 TTGGAC-ACA
* *** * * *
189482 ACATTCATAAAAAATATATAATTCAATCTCCA-AAGATCGGAGGGCTTTTCATGCTTCTAATATC
1 ATATTCATAAAAAATATATAATTCAAGGGCTAGAAGATTGGAGGG-TTTTCACGCTTCTAATATC
* * * *
189546 GCTTTCCCTAATTTTTTCTAAATTAATTTCTAATTAAATC-AAAACTGGTTTCAGACGCTCGT--
65 GTTTTTCCTAATTTTTTCTAAATTAATTTCTAATTAAATCTAAAACTGGTTTCAGATGCTCATAA
* * * * *
189608 AAAC-TATATTTTTAAATCCCATGTGGCTGAGATTTGATTAGATGAATTTAGATATTTAAAGGAG
130 AAACATA-ACTCTTAAATCCAATGTGGTTGAGATTTGATTAGATGAATATAGATATTTAAAGGAG
* * * * * * *
189672 TCTCGGCGCCAAAAATCATGCGAAACTGAGACGGGGCCCCGAAACGTGTTTTTAAC-AAAAAACT
194 TTTCTGCGCCAAAAATCATGCAAAAATGAGACGGGGTCCCGGAACGTGTTTTTAGCTAAAAAAC-
* * ** * ** *
189736 GTGATGGTTAGTACACGATTTCGGCTAAAATTTTTCCAAAAGCTGAGCCGAAAAA-TATTCCTCA
258 GTGATAGTTAGTATACGATTTCGGCTAAAA-TTTAGCAAAAACTGTCCCGAAAAATTTTTCCTCA
189800 ATTTTTGGACACA
322 ATTTTTGGACACA
* *
189813 ATAATCATAAAAAATATATAATTCAAGGGCTAGAAGATTGGAGGGTTTTCACGCTTCAAATATCG
1 ATATTCATAAAAAATATATAATTCAAGGGCTAGAAGATTGGAGGGTTTTCACGCTTCTAATATCG
*
189878 TTTTTCCTAATTTTTT-TAAATTAATTTCTAATTAAATCTAAAAC-GATTTCAGATGCTCATAAA
66 TTTTTCCTAATTTTTTCTAAATTAATTTCTAATTAAATCTAAAACTGGTTTCAGATGCTCATAAA
* *
189941 AACATAACTCTTAAATCTAATGTGGTTGAGATTTGATTAGATGAATATGGATATTTAAAGGAGTT
131 AACATAACTCTTAAATCCAATGTGGTTGAGATTTGATTAGATGAATATAGATATTTAAAGGAGTT
* ** *
190006 TCTGCGCCAAAAATCATACAAAAATGAGACGGGGTCAAGGAACGCGTTTTTAGCTAAAAAAACGT
196 TCTGCGCCAAAAATCATGCAAAAATGAGACGGGGTCCCGGAACGTGTTTTTAGCT-AAAAAACGT
* * *
190071 GATAGTTAGTATAAGATTTCGGCTAAAATTTAGCAAAAACTGTCCCGAAAAATTTTTCCTTAAGT
260 GATAGTTAGTATACGATTTCGGCTAAAATTTAGCAAAAACTGTCCCGAAAAATTTTTCCTCAATT
190136 TTTGGACACA
325 TTTGGACACA
* *
190146 ATATTCATAAAAAATATATAATTCAATGGCTAGAAGATTGGAGGGTTTTCACGCTTCTAACATCG
1 ATATTCATAAAAAATATATAATTCAAGGGCTAGAAGATTGGAGGGTTTTCACGCTTCTAATATCG
* *
190211 TTTTTCCTAATTTTTTCTAAATTAATTTCTAATTAAAGCT-AAACTGATTTCAGATGCTCATAAA
66 TTTTTCCTAATTTTTTCTAAATTAATTTCTAATTAAATCTAAAACTGGTTTCAGATGCTCATAAA
* * *
190275 ATCATAACTCTTAAATCTAATGTGGTTGAGATTTGATTAGATGAATGTAGATATTTAAAGGAGTT
131 AACATAACTCTTAAATCCAATGTGGTTGAGATTTGATTAGATGAATATAGATATTTAAAGGAGTT
* * * * *
190340 TTTACGCCAAAAATCATGCAAAAATGAGACGGGGTCTCGGAACGCGTTTTTAGCTAAAAAACATG
196 TCTGCGCCAAAAATCATGCAAAAATGAGACGGGGTCCCGGAACGTGTTTTTAGCTAAAAAACGTG
* *
190405 ATAGTTAGTATATGATTTCGGCTAAAATTTAGCAAAAACTGTCCAGAAAAATTTTTCCTCAATTT
261 ATAGTTAGTATACGATTTCGGCTAAAATTTAGCAAAAACTGTCCCGAAAAATTTTTCCTCAATTT
* *
190470 TTTGCCACA
326 TTGGACACA
*
190479 ATATTCATAAAAAATATATAATTCAAGGGCTAGAAGATTGGAGGGTTTTCACACTTCTAATATCG
1 ATATTCATAAAAAATATATAATTCAAGGGCTAGAAGATTGGAGGGTTTTCACGCTTCTAATATCG
* * *
190544 TTTTTCCTAATTTTTTCTAAATTAATTTCTAATTCAATCT-GAACCGGTTTCAGATGCTCATAAA
66 TTTTTCCTAATTTTTTCTAAATTAATTTCTAATTAAATCTAAAACTGGTTTCAGATGCTCATAAA
* * *
190608 AACATAACTGTTAAATCCAATGTGGTTTAAATTTGATTAGATGAATATAGATATTTAAAGGAGTT
131 AACATAACTCTTAAATCCAATGTGGTTGAGATTTGATTAGATGAATATAGATATTTAAAGGAGTT
* * * * * * * *
190673 TCCGCGTCAAAAATCAGGCAAAGATGAGACGGGATCCCAGAACTTGTTCTTAGCTAAAAAACGTG
196 TCTGCGCCAAAAATCATGCAAAAATGAGACGGGGTCCCGGAACGTGTTTTTAGCTAAAAAACGTG
* *
190738 ATAGTTAGTATACGATTTCCGCTAAAATTTAGCAAAAACAGTCCCGAAAAATTTTTCCTCAATTT
261 ATAGTTAGTATACGATTTCGGCTAAAATTTAGCAAAAACTGTCCCGAAAAATTTTTCCTCAATTT
*
190803 TTTG-CAACA
326 TTGGAC-ACA
* *** * * *
190812 ACATTCATAAAAAATATATAATTCAATCTCCA-AAGATCGGAGGGCTTTTCACGCTTCTAATATT
1 ATATTCATAAAAAATATATAATTCAAGGGCTAGAAGATTGGAGGG-TTTTCACGCTTCTAATATC
* * * *
190876 GCTTTCCCTAATTTTTTCTAAATTAATTTCTAATTAAATC-AAAACTGGTTTCAGAAGCTCGT--
65 GTTTTTCCTAATTTTTTCTAAATTAATTTCTAATTAAATCTAAAACTGGTTTCAGATGCTCATAA
* * * * *
190938 AAAC-TATATTATTAAATCCCATGTGGCTGAGATTTGATTAGATGAATTTAGATATTTAAAGGAG
130 AAACATA-ACTCTTAAATCCAATGTGGTTGAGATTTGATTAGATGAATATAGATATTTAAAGGAG
* * * * * * * *
191002 TCTCGGCGCCAAAAATCATGCGAAACTGAGACGGGGCCCCGAAACGTGTTTTTAAC-GAAAAACT
194 TTTCTGCGCCAAAAATCATGCAAAAATGAGACGGGGTCCCGGAACGTGTTTTTAGCTAAAAAAC-
* ** * * ** *
191066 GTGATGGTTAGTATACGATTTCGATTAAAATTTTACCAAAAGCTGAGCCGAAAAA-TATTCCTCA
258 GTGATAGTTAGTATACGATTTCGGCTAAAA-TTTAGCAAAAACTGTCCCGAAAAATTTTTCCTCA
*
191130 ATTTTTGAACACA
322 ATTTTTGGACACA
* * *
191143 ATAATCATAAAAAATATATAATTCAAGGGCTAGAATATTGGACGGTTTTCACGCTTCTAATATCG
1 ATATTCATAAAAAATATATAATTCAAGGGCTAGAAGATTGGAGGGTTTTCACGCTTCTAATATCG
* *
191208 TTTTCCCTAATTTTTTCTAAATTAATTTCTATTTAAATCT-AAACTGGTTTCAGATGCTCATAAA
66 TTTTTCCTAATTTTTTCTAAATTAATTTCTAATTAAATCTAAAACTGGTTTCAGATGCTCATAAA
191272 AACATAACTCTTAAATCCAATGTGGTTGAGATTTGATTAGATGAATATAGATATTTAAAGGAGTT
131 AACATAACTCTTAAATCCAATGTGGTTGAGATTTGATTAGATGAATATAGATATTTAAAGGAGTT
* * * * *
191337 TCTGCGCCAAAAACCTTGCAAAAATAAGACGGGGTCCCGGAACGCGTTTTTAACTAAAAAAC
196 TCTGCGCCAAAAATCATGCAAAAATGAGACGGGGTCCCGGAACGTGTTTTTAGCTAAAAAAC
191399 ATGTTCTATT
Statistics
Matches: 1668, Mismatches: 221, Indels: 55
0.86 0.11 0.03
Matches are distributed among these distances:
330 51 0.03
331 448 0.27
332 199 0.12
333 802 0.48
334 168 0.10
ACGTcount: A:0.36, C:0.15, G:0.16, T:0.33
Consensus pattern (334 bp):
ATATTCATAAAAAATATATAATTCAAGGGCTAGAAGATTGGAGGGTTTTCACGCTTCTAATATCG
TTTTTCCTAATTTTTTCTAAATTAATTTCTAATTAAATCTAAAACTGGTTTCAGATGCTCATAAA
AACATAACTCTTAAATCCAATGTGGTTGAGATTTGATTAGATGAATATAGATATTTAAAGGAGTT
TCTGCGCCAAAAATCATGCAAAAATGAGACGGGGTCCCGGAACGTGTTTTTAGCTAAAAAACGTG
ATAGTTAGTATACGATTTCGGCTAAAATTTAGCAAAAACTGTCCCGAAAAATTTTTCCTCAATTT
TTGGACACA
Found at i:191088 original size:997 final size:995
Alignment explanation
Indices: 189149--191401 Score: 3092
Period size: 997 Copynumber: 2.3 Consensus size: 995
189139 TCGTAAAAAC
* * * *
189149 ATATTCTTAAAAAATATATAATTGAAGGGCTAGAAGATTGGATGGTTTTCACGCTTCTAACACCG
1 ATATTCATAAAAAATATATAATTCAAGGGCTAGAAGATTGGACGGTTTTCACGCTTCTAACATCG
* * *
189214 TTTTTCCTAATTTTTTCTAAATTAATTTCTAATTCAATCCAAACCGGTTTCAGATGCTCATAAAA
66 TTTTTCCTAATTTTTTCTAAATTAATTTCTAATTAAATCTAAACTGGTTTCAGATGCTCATAAAA
* *
189279 ACATAACTGTTAAATCCAATGTGGTTGAAATTTGATTAGATGAATATAGATATTTAAAGGAGTTT
131 ACATAACTCTTAAATCCAATGTGGTTGAGATTTGATTAGATGAATATAGATATTTAAAGGAGTTT
* * * * ** * *
189344 CCGCGCCAAAAATCAGGCAAAGATGAGACGGGATCCCGGAACTTGTTTTTAGCTAATAAACGTGA
196 CTGCGCCAAAAATCATGCAAAAATGAGACGGGGTCCCGGAACGCGTTTTTAGCTAAAAAACATGA
*
189409 TAGTTAGTATACGATTTCCGCTAAAATTTAGCAAAAACAGTCCCGAAAAATTTTTCCTCAATTTT
261 TAGTTAGTATACGATTTCCGCTAAAATTTAGCAAAAACAGTCCAGAAAAATTTTTCCTCAATTTT
* * **
189474 TTGCAACAACATTCATAAAAAATATATAATTCAATCTCCAAAGATCGGAGGGCTTTTCATGCTTC
326 TTGCAACAACATTCATAAAAAATATATAATTCAAGCGCCAAAGATCGGAGGGCTTTTCACACTTC
*
189539 TAATATCGCTTTCCCTAATTTTTTCTAAATTAATTTCTAATTAAATCAAAACTGGTTTCAGACGC
391 TAATATCGCTTTCCCTAATTTTTTCTAAATTAATTTCTAATTAAATCAAAACCGGTTTCAGACGC
* * * * * *
189604 TCGTAAACTATATTTTTAAATCCCATGTGGCTGAGATTTGATTAGATGAATTTAGATATTTAAAG
456 TCATAAACTATACTGTTAAATCCAATGTGGCTGAAATTTGATTAGATGAATATAGATATTTAAAG
* * * * *
189669 GAGTCTCGGCGCCAAAAATCATGCGAAACTGAGACGGGGCCCCGAAACGTGTTTTTAACAAAAAA
521 GAGTCTCCGCGCCAAAAATCAGGCGAAAATGAGACGGGGCCCAGAAACGTGTTCTTAACAAAAAA
* * * * * *
189734 CTGTGATGGTTAGTACACGATTTCGGCTAAAATTTTTCCAAAAGCTGAGCCGAAAAATATTCCTC
586 CTGTGATAGTTAGTACACGATTTCCGCTAAAATTTTACCAAAAACAGACCCGAAAAATATTCCTC
* * * * *
189799 AATTTTTGGACACAATAATCATAAAAAATATATAATTCAAGGGCTAGAAGATTGGAGGGTTTTCA
651 AATTTTTGCACACAACAATCATAAAAAATATATAATTCAAGCGCCAGAAGATCGGAGGGTTTTCA
* *
189864 CGCTTCAAATATCGTTTTTCCTAATTTTTTTAAATTAATTTCTAATTAAATCTAAAACGATTTCA
716 CGCTTCAAATATCGCTTTCCCTAATTTTTTTAAATTAATTTCTAATTAAATCTAAAACGATTTCA
* * * * *
189929 GATGCTCATAAAAACATAACTCTTAAATCTAATGTGGTTGAGATTTGATTAGATGAATATGGATA
781 GAAGCTCAT-AAAACATAACTATTAAATCCAATGTGGCTGAGATTTGATTAGATGAATATAGATA
* * * * *
189994 TTTAAAGGAGTTTCTGCGCCAAAAATCATACAAAAATGAGACGGGGTCAAGGAACGCGTTTTTAG
845 TTTAAAGGAGTCTCGGCGCCAAAAATCATACAAAAATGAGACGGGGCCAAGAAACGCGTTTTTAA
* * *
190059 CTAAAAAAACGTGATAGTTAGTATAAGATTTCGGCTAAAA-TTTAGCAAAAACTGTCCCGAAAAA
910 C-AAAAAAACGTGATAGTTAGTATAAGATTTCGACTAAAATTTTACCAAAAACTGACCCGAAAAA
* * *
190123 TTTTTCCTTAAGTTTTGGACACA
974 -TATTCCTCAAGTTTTGAACACA
* *
190146 ATATTCATAAAAAATATATAATTCAATGGCTAGAAGATTGGAGGGTTTTCACGCTTCTAACATCG
1 ATATTCATAAAAAATATATAATTCAAGGGCTAGAAGATTGGACGGTTTTCACGCTTCTAACATCG
* *
190211 TTTTTCCTAATTTTTTCTAAATTAATTTCTAATTAAAGCTAAACTGATTTCAGATGCTCATAAAA
66 TTTTTCCTAATTTTTTCTAAATTAATTTCTAATTAAATCTAAACTGGTTTCAGATGCTCATAAAA
* * *
190276 TCATAACTCTTAAATCTAATGTGGTTGAGATTTGATTAGATGAATGTAGATATTTAAAGGAGTTT
131 ACATAACTCTTAAATCCAATGTGGTTGAGATTTGATTAGATGAATATAGATATTTAAAGGAGTTT
* * *
190341 TTACGCCAAAAATCATGCAAAAATGAGACGGGGTCTCGGAACGCGTTTTTAGCTAAAAAACATGA
196 CTGCGCCAAAAATCATGCAAAAATGAGACGGGGTCCCGGAACGCGTTTTTAGCTAAAAAACATGA
* * *
190406 TAGTTAGTATATGATTTCGGCTAAAATTTAGCAAAAACTGTCCAGAAAAATTTTTCCTCAATTTT
261 TAGTTAGTATACGATTTCCGCTAAAATTTAGCAAAAACAGTCCAGAAAAATTTTTCCTCAATTTT
* * * * *
190471 TTGCCACAATATTCATAAAAAATATATAATTCAAGGGCTAGAAGATTGGAGGG-TTTTCACACTT
326 TTGCAACAACATTCATAAAAAATATATAATTCAAGCGCCA-AAGATCGGAGGGCTTTTCACACTT
* * * ** *
190535 CTAATATCGTTTTTCCTAATTTTTTCTAAATTAATTTCTAATTCAATCTGAACCGGTTTCAGATG
390 CTAATATCGCTTTCCCTAATTTTTTCTAAATTAATTTCTAATTAAATCAAAACCGGTTTCAGACG
* *
190600 CTCATAAAAAC-ATAACTGTTAAATCCAATGTGGTTTAAATTTGATTAGATGAATATAGATATTT
455 CTCAT--AAACTAT-ACTGTTAAATCCAATGTGGCTGAAATTTGATTAGATGAATATAGATATTT
* * * * *
190664 AAAGGAGTTTCCGCGTCAAAAATCAGGC-AAAGATGAGACGGGATCCCAG-AACTTGTTCTTAGC
517 AAAGGAGTCTCCGCGCCAAAAATCAGGCGAAA-ATGAGACGGG-GCCCAGAAACGTGTTCTTAAC
* * *
190727 TAAAAAAC-GTGATAGTTAGTATACGATTTCCGCTAAAA-TTTAGCAAAAACAGTCCCGAAAAAT
580 -AAAAAACTGTGATAGTTAGTACACGATTTCCGCTAAAATTTTACCAAAAACAGACCCGAAAAA-
* * * *
190790 TTTTCCTCAATTTTTTGCA-ACAACATTCATAAAAAATATATAATTCAATCTCCA-AAGATCGGA
643 TATTCCTCAA-TTTTTGCACACAACAATCATAAAAAATATATAATTCAAGCGCCAGAAGATCGGA
* *
190853 GGGCTTTTCACGCTTCTAATATTGCTTTCCCTAATTTTTTCTAAATTAATTTCTAATTAAATC-A
707 GGG-TTTTCACGCTTCAAATATCGCTTTCCCTAATTTTTT-TAAATTAATTTCTAATTAAATCTA
* * * *
190917 AAACTGGTTTCAGAAGCTCGT-AAAC-TATATTATTAAATCCCATGTGGCTGAGATTTGATTAGA
770 AAAC-GATTTCAGAAGCTCATAAAACATA-ACTATTAAATCCAATGTGGCTGAGATTTGATTAGA
* * * * **
190980 TGAATTTAGATATTTAAAGGAGTCTCGGCGCCAAAAATCATGCGAAACTGAGACGGGGCCCCGAA
833 TGAATATAGATATTTAAAGGAGTCTCGGCGCCAAAAATCATACAAAAATGAGACGGGGCCAAGAA
* * * * * *
191045 ACGTGTTTTTAAC-GAAAAACTGTGATGGTTAGTATACGATTTCGATTAAAATTTTACCAAAAGC
898 ACGCGTTTTTAACAAAAAAAC-GTGATAGTTAGTATAAGATTTCGACTAAAATTTTACCAAAAAC
* *
191109 TGAGCCGAAAAATATTCCTCAATTTTTGAACACA
962 TGACCCGAAAAATATTCCTCAAGTTTTGAACACA
* * *
191143 ATAATCATAAAAAATATATAATTCAAGGGCTAGAATATTGGACGGTTTTCACGCTTCTAATATCG
1 ATATTCATAAAAAATATATAATTCAAGGGCTAGAAGATTGGACGGTTTTCACGCTTCTAACATCG
* *
191208 TTTTCCCTAATTTTTTCTAAATTAATTTCTATTTAAATCTAAACTGGTTTCAGATGCTCATAAAA
66 TTTTTCCTAATTTTTTCTAAATTAATTTCTAATTAAATCTAAACTGGTTTCAGATGCTCATAAAA
191273 ACATAACTCTTAAATCCAATGTGGTTGAGATTTGATTAGATGAATATAGATATTTAAAGGAGTTT
131 ACATAACTCTTAAATCCAATGTGGTTGAGATTTGATTAGATGAATATAGATATTTAAAGGAGTTT
* * * *
191338 CTGCGCCAAAAACCTTGCAAAAATAAGACGGGGTCCCGGAACGCGTTTTTAACTAAAAAACATG
196 CTGCGCCAAAAATCATGCAAAAATGAGACGGGGTCCCGGAACGCGTTTTTAGCTAAAAAACATG
191402 TTCTATTTAG
Statistics
Matches: 1102, Mismatches: 139, Indels: 30
0.87 0.11 0.02
Matches are distributed among these distances:
996 6 0.01
997 686 0.62
998 164 0.15
999 193 0.18
1000 53 0.05
ACGTcount: A:0.36, C:0.15, G:0.16, T:0.33
Consensus pattern (995 bp):
ATATTCATAAAAAATATATAATTCAAGGGCTAGAAGATTGGACGGTTTTCACGCTTCTAACATCG
TTTTTCCTAATTTTTTCTAAATTAATTTCTAATTAAATCTAAACTGGTTTCAGATGCTCATAAAA
ACATAACTCTTAAATCCAATGTGGTTGAGATTTGATTAGATGAATATAGATATTTAAAGGAGTTT
CTGCGCCAAAAATCATGCAAAAATGAGACGGGGTCCCGGAACGCGTTTTTAGCTAAAAAACATGA
TAGTTAGTATACGATTTCCGCTAAAATTTAGCAAAAACAGTCCAGAAAAATTTTTCCTCAATTTT
TTGCAACAACATTCATAAAAAATATATAATTCAAGCGCCAAAGATCGGAGGGCTTTTCACACTTC
TAATATCGCTTTCCCTAATTTTTTCTAAATTAATTTCTAATTAAATCAAAACCGGTTTCAGACGC
TCATAAACTATACTGTTAAATCCAATGTGGCTGAAATTTGATTAGATGAATATAGATATTTAAAG
GAGTCTCCGCGCCAAAAATCAGGCGAAAATGAGACGGGGCCCAGAAACGTGTTCTTAACAAAAAA
CTGTGATAGTTAGTACACGATTTCCGCTAAAATTTTACCAAAAACAGACCCGAAAAATATTCCTC
AATTTTTGCACACAACAATCATAAAAAATATATAATTCAAGCGCCAGAAGATCGGAGGGTTTTCA
CGCTTCAAATATCGCTTTCCCTAATTTTTTTAAATTAATTTCTAATTAAATCTAAAACGATTTCA
GAAGCTCATAAAACATAACTATTAAATCCAATGTGGCTGAGATTTGATTAGATGAATATAGATAT
TTAAAGGAGTCTCGGCGCCAAAAATCATACAAAAATGAGACGGGGCCAAGAAACGCGTTTTTAAC
AAAAAAACGTGATAGTTAGTATAAGATTTCGACTAAAATTTTACCAAAAACTGACCCGAAAAATA
TTCCTCAAGTTTTGAACACA
Found at i:191202 original size:664 final size:663
Alignment explanation
Indices: 189156--191398 Score: 3411
Period size: 664 Copynumber: 3.4 Consensus size: 663
189146 AACATATTCT
* * * *
189156 TAAAAAATATATAATTGAAGGGCTAGAAGATTGGATGGTTTTCACGCTTCTAACACCGTTTTTCC
1 TAAAAAATATATAATTCAAGGGCTAGAAGATTGGAGGGTTTTCACGCTTCTAATATCGTTTTTCC
* *
189221 TAATTTTTTCTAAATTAATTTCTAATTCAATCCAAACCGGTTTCAGATGCTCATAAAAACATAAC
66 TAATTTTTTCTAAATTAATTTCTAATTAAATCTAAACCGGTTTCAGATGCTCATAAAAACATAAC
*
189286 TGTTAAATCCAATGTGGTTGAAATTTGATTAGATGAATATAGATATTTAAAGGAGTTTCCGCGCC
131 TCTTAAATCCAATGTGGTTGAAATTTGATTAGATGAATATAGATATTTAAAGGAGTTTCCGCGCC
* *
189351 AAAAATCAGGCAAAGATGAGACGGGATCCCGGAACTTGTTTTTAGCTAATAAACGTGATAGTTAG
196 AAAAATCAGGCAAAGATGAGACGGGATCCCAGAACTTGTTTTTAGCTAAAAAACGTGATAGTTAG
189416 TATACGATTTCCGCTAAAATTTAGCAAAAACAGTCCCGAAAAATTTTTCCTCAATTTTTTGCAAC
261 TATACGATTTCCGCTAAAATTTAGCAAAAACAGTCCCGAAAAATTTTTCCTCAATTTTTTGCAAC
*
189481 AACATTCATAAAAAATATATAATTCAATCTCCAAAGATCGGAGGGCTTTTCATGCTTCTAATATC
326 AACATTCATAAAAAATATATAATTCAATCTCCAAAGATCGGAGGGCTTTTCACGCTTCTAATATC
*
189546 GCTTTCCCTAATTTTTTCTAAATTAATTTCTAATTAAATCAAAACTGGTTTCAGACGCTCGTAAA
391 GCTTTCCCTAATTTTTTCTAAATTAATTTCTAATTAAATCAAAACTGGTTTCAGAAGCTCGTAAA
*
189611 CTATATTTTTAAATCCCATGTGGCTGAGATTTGATTAGATGAATTTAGATATTTAAAGGAGTCTC
456 CTATATTATTAAATCCCATGTGGCTGAGATTTGATTAGATGAATTTAGATATTTAAAGGAGTCTC
189676 GGCGCCAAAAATCATGCGAAACTGAGACGGGGCCCCGAAACGTGTTTTTAACAAAAAACTGTGAT
521 GGCGCCAAAAATCATGCGAAACTGAGACGGGGCCCCGAAACGTGTTTTTAACAAAAAACTGTGAT
* *
189741 GGTTAGTACACGATTTCGGCTAAAATTTTTCCAAAAGCTGAGCCGAAAAATATTCCTCAATTTTT
586 GGTTAGTATACGATTTCGGCTAAAATTTTACCAAAAGCTGAGCCGAAAAATATTCCTCAATTTTT
189806 GGACACAATAATCA
651 -GACACAATAATCA
*
189820 TAAAAAATATATAATTCAAGGGCTAGAAGATTGGAGGGTTTTCACGCTTCAAATATCGTTTTTCC
1 TAAAAAATATATAATTCAAGGGCTAGAAGATTGGAGGGTTTTCACGCTTCTAATATCGTTTTTCC
* *
189885 TAATTTTTT-TAAATTAATTTCTAATTAAATCTAAAACGATTTCAGATGCTCATAAAAACATAAC
66 TAATTTTTTCTAAATTAATTTCTAATTAAATCTAAACCGGTTTCAGATGCTCATAAAAACATAAC
* * * *
189949 TCTTAAATCTAATGTGGTTGAGATTTGATTAGATGAATATGGATATTTAAAGGAGTTTCTGCGCC
131 TCTTAAATCCAATGTGGTTGAAATTTGATTAGATGAATATAGATATTTAAAGGAGTTTCCGCGCC
** * * * **
190014 AAAAATCATACAAAAATGAGACGGGGT-CAAGGAACGCGTTTTTAGCTAAAAAAACGTGATAGTT
196 AAAAATCAGGCAAAGATGAGACGGGATCCCA-GAACTTGTTTTTAGCT-AAAAAACGTGATAGTT
* * * * * *
190078 AGTATAAGATTTCGGCTAAAATTTAGCAAAAACTGTCCCGAAAAATTTTTCCTTAA-GTTTTGGA
259 AGTATACGATTTCCGCTAAAATTTAGCAAAAACAGTCCCGAAAAATTTTTCCTCAATTTTTTGCA
* ** * *
190142 CACAATATTCATAAAAAATATATAATTCAATGGCTAGAAGATTGGAGGG-TTTTCACGCTTCTAA
324 -ACAACATTCATAAAAAATATATAATTCAATCTCCA-AAGATCGGAGGGCTTTTCACGCTTCTAA
* * * * * * * *
190206 CATCGTTTTTCCTAATTTTTTCTAAATTAATTTCTAATTAAAGCTAAACTGATTTCAGATGCTCA
387 TATCGCTTTCCCTAATTTTTTCTAAATTAATTTCTAATTAAATCAAAACTGGTTTCAGAAGCTCG
* * * ** * *
190271 TAAAATCATAACTCTTAAATCTAATGTGGTTGAGATTTGATTAGATGAATGTAGATATTTAAAGG
452 TAAACT-AT-ATTATTAAATCCCATGTGGCTGAGATTTGATTAGATGAATTTAGATATTTAAAGG
* *** * * * * * * *
190336 AGTTTTTACGCCAAAAATCATGCAAAAATGAGACGGGGTCTCGGAACGCGTTTTTAGCTAAAAAA
515 AGTCTCGGCGCCAAAAATCATGCGAAACTGAGACGGGGCCCCGAAACGTGTTTTTAAC-AAAAAA
* * * * * * *
190401 C-ATGATAGTTAGTATATGATTTCGGCTAAAA-TTTAGCAAAAACTG-TCCAGAAAAATTTTTCC
579 CTGTGATGGTTAGTATACGATTTCGGCTAAAATTTTACCAAAAGCTGAGCC-GAAAAA-TATTCC
* *
190463 TCAATTTTTTGCCACAATATTCA
642 TCAA-TTTTTGACACAATAATCA
*
190486 TAAAAAATATATAATTCAAGGGCTAGAAGATTGGAGGGTTTTCACACTTCTAATATCGTTTTTCC
1 TAAAAAATATATAATTCAAGGGCTAGAAGATTGGAGGGTTTTCACGCTTCTAATATCGTTTTTCC
* *
190551 TAATTTTTTCTAAATTAATTTCTAATTCAATCTGAACCGGTTTCAGATGCTCATAAAAACATAAC
66 TAATTTTTTCTAAATTAATTTCTAATTAAATCTAAACCGGTTTCAGATGCTCATAAAAACATAAC
* * *
190616 TGTTAAATCCAATGTGGTTTAAATTTGATTAGATGAATATAGATATTTAAAGGAGTTTCCGCGTC
131 TCTTAAATCCAATGTGGTTGAAATTTGATTAGATGAATATAGATATTTAAAGGAGTTTCCGCGCC
*
190681 AAAAATCAGGCAAAGATGAGACGGGATCCCAGAACTTGTTCTTAGCTAAAAAACGTGATAGTTAG
196 AAAAATCAGGCAAAGATGAGACGGGATCCCAGAACTTGTTTTTAGCTAAAAAACGTGATAGTTAG
190746 TATACGATTTCCGCTAAAATTTAGCAAAAACAGTCCCGAAAAATTTTTCCTCAATTTTTTGCAAC
261 TATACGATTTCCGCTAAAATTTAGCAAAAACAGTCCCGAAAAATTTTTCCTCAATTTTTTGCAAC
*
190811 AACATTCATAAAAAATATATAATTCAATCTCCAAAGATCGGAGGGCTTTTCACGCTTCTAATATT
326 AACATTCATAAAAAATATATAATTCAATCTCCAAAGATCGGAGGGCTTTTCACGCTTCTAATATC
190876 GCTTTCCCTAATTTTTTCTAAATTAATTTCTAATTAAATCAAAACTGGTTTCAGAAGCTCGTAAA
391 GCTTTCCCTAATTTTTTCTAAATTAATTTCTAATTAAATCAAAACTGGTTTCAGAAGCTCGTAAA
190941 CTATATTATTAAATCCCATGTGGCTGAGATTTGATTAGATGAATTTAGATATTTAAAGGAGTCTC
456 CTATATTATTAAATCCCATGTGGCTGAGATTTGATTAGATGAATTTAGATATTTAAAGGAGTCTC
*
191006 GGCGCCAAAAATCATGCGAAACTGAGACGGGGCCCCGAAACGTGTTTTTAACGAAAAACTGTGAT
521 GGCGCCAAAAATCATGCGAAACTGAGACGGGGCCCCGAAACGTGTTTTTAACAAAAAACTGTGAT
**
191071 GGTTAGTATACGATTTCGATTAAAATTTTACCAAAAGCTGAGCCGAAAAATATTCCTCAATTTTT
586 GGTTAGTATACGATTTCGGCTAAAATTTTACCAAAAGCTGAGCCGAAAAATATTCCTCAATTTTT
191136 GAACACAATAATCA
651 G-ACACAATAATCA
* * *
191150 TAAAAAATATATAATTCAAGGGCTAGAATATTGGACGGTTTTCACGCTTCTAATATCGTTTTCCC
1 TAAAAAATATATAATTCAAGGGCTAGAAGATTGGAGGGTTTTCACGCTTCTAATATCGTTTTTCC
* *
191215 TAATTTTTTCTAAATTAATTTCTATTTAAATCTAAACTGGTTTCAGATGCTCATAAAAACATAAC
66 TAATTTTTTCTAAATTAATTTCTAATTAAATCTAAACCGGTTTCAGATGCTCATAAAAACATAAC
* *
191280 TCTTAAATCCAATGTGGTTGAGATTTGATTAGATGAATATAGATATTTAAAGGAGTTTCTGCGCC
131 TCTTAAATCCAATGTGGTTGAAATTTGATTAGATGAATATAGATATTTAAAGGAGTTTCCGCGCC
* ** * * * * ** *
191345 AAAAACCTTGCAAAAATAAGACGGGGTCCCGGAACGCGTTTTTAACTAAAAAAC
196 AAAAATCAGGCAAAGATGAGACGGGATCCCAGAACTTGTTTTTAGCTAAAAAAC
191399 ATGTTCTATT
Statistics
Matches: 1394, Mismatches: 167, Indels: 36
0.87 0.10 0.02
Matches are distributed among these distances:
662 1 0.00
663 166 0.12
664 610 0.44
665 61 0.04
666 391 0.28
667 163 0.12
668 2 0.00
ACGTcount: A:0.36, C:0.15, G:0.16, T:0.33
Consensus pattern (663 bp):
TAAAAAATATATAATTCAAGGGCTAGAAGATTGGAGGGTTTTCACGCTTCTAATATCGTTTTTCC
TAATTTTTTCTAAATTAATTTCTAATTAAATCTAAACCGGTTTCAGATGCTCATAAAAACATAAC
TCTTAAATCCAATGTGGTTGAAATTTGATTAGATGAATATAGATATTTAAAGGAGTTTCCGCGCC
AAAAATCAGGCAAAGATGAGACGGGATCCCAGAACTTGTTTTTAGCTAAAAAACGTGATAGTTAG
TATACGATTTCCGCTAAAATTTAGCAAAAACAGTCCCGAAAAATTTTTCCTCAATTTTTTGCAAC
AACATTCATAAAAAATATATAATTCAATCTCCAAAGATCGGAGGGCTTTTCACGCTTCTAATATC
GCTTTCCCTAATTTTTTCTAAATTAATTTCTAATTAAATCAAAACTGGTTTCAGAAGCTCGTAAA
CTATATTATTAAATCCCATGTGGCTGAGATTTGATTAGATGAATTTAGATATTTAAAGGAGTCTC
GGCGCCAAAAATCATGCGAAACTGAGACGGGGCCCCGAAACGTGTTTTTAACAAAAAACTGTGAT
GGTTAGTATACGATTTCGGCTAAAATTTTACCAAAAGCTGAGCCGAAAAATATTCCTCAATTTTT
GACACAATAATCA
Found at i:194521 original size:332 final size:325
Alignment explanation
Indices: 193779--194586 Score: 876
Period size: 332 Copynumber: 2.4 Consensus size: 325
193769 TTCGGTCATA
* ** * * * * *
193779 ATACTCATAAAAAATATATAATTCAACGGTAAAAAA-ATTGAAGGCCTTTACACGCTTCCAAAAT
1 ATACTCATAAGAAATATATAATTCAA-TATAAAAAAGATT-AAAGACTTTACATGCTTCTAATAT
* * * *
193843 CGTTTTTCCTATTTTTTCCAAATTAATTTTCTAATTAAATCGAAACATGATTCAAATGTTTGTAA
64 CGTTTTTCCTATTTTTCCCGAATTAA-TTTCTAATTAAATCGAAACATGATTCAAATGCTAGTAA
* * * * *
193908 AAAAAAATCTTTAAATCCAAGTTGGCTGAGATTTGCTTGGATGAATATACATATTTCAAGTAGTA
128 AAACAAATCCTTAAATCCAAGTTGACTGAGATTTGCTTAGATGAATATACATATTTCAAGTAATA
*
193973 TCGATGCCAAAAATCATGCAAAACTGAGTCAGGGCTACGAAACACGTTTTTAGACAAAAAAAATC
193 TC-ATGCCAAAAATCATGCAAAACTGAGTCAGGGCCACGAAACACGTTTTTAGACAAAAAAAATC
* * * * *
194038 GTGATACACGATTTCAGTTAAAATTTTGCAAAAATTTAGTCGAAAGAATTTTCCTCAATTTTGGA
257 GTAATACACGATTTCAGCTAAAATTTCGCAAAAATTTAG-CGAAAGAATGTTACTCAATTTTGGA
194103 CCACG
321 CCACG
* * * * *
194108 ATACTCATAAGAAATATATAATTCTATCTAAAAAAGATTGAGAGGCTTTCCATGCTTCTAATATC
1 ATACTCATAAGAAATATATAATTCAATATAAAAAAGATT-AAAGACTTTACATGCTTCTAATATC
* * * * * *
194173 GTTTTTTCTCTTTTTCCCGAGTTAATTTCTGATTAAATCCAAACATGATTCAAATGCTCGTAAAA
65 GTTTTTCCTATTTTTCCCGAATTAATTTCTAATTAAATCGAAACATGATTCAAATGCTAGTAAAA
* * *
194238 ACAAATCCTTAAATTCAA-TGTGACTGAGATTTGGTTAGATGAATATAGATATTTCAATGATAAT
130 ACAAATCCTTAAATCCAAGT-TGACTGAGATTTGCTTAGATGAATATACATATTTCAA-G-TAAT
* * * ** *
194302 ATC-TGTCAAAAATCATGCAAAACTGAG-CTGGGCCCCCTTAACGCGTTTTTA-ACCAAAAACTG
192 ATCATGCCAAAAATCATGCAAAACTGAGTCAGGG-CCACGAAACACGTTTTTAGA-CAAAAA---
** * *
194364 TTATGGTTAATACACGATTTCGGCTAAAATTTCGCAAAAATTGTCA-CGGAAA-AATGTTACTCA
252 AAATCG-TAATACACGATTTCAGCTAAAATTTCGCAAAAATT-T-AGC-GAAAGAATGTTACTCA
* * *
194427 TTTTTTTG-CCATG
313 -ATTTTGGACCACG
* *
194440 ATACTCATAAGAAATATATAATTCAATATAAAAAAGATTAATTGACTTTTCATGCTTCTAATATC
1 ATACTCATAAGAAATATATAATTCAATATAAAAAAGATTAA-AGACTTTACATGCTTCTAATATC
* * * *
194505 GTTTTTCCTATTTTTCCTGAATTAATTTCTAATTAAATTGAAACATGATTCAGATGGTAGTAAAA
65 GTTTTTCCTATTTTTCCCGAATTAATTTCTAATTAAATCGAAACATGATTCAAATGCTAGTAAAA
194570 ACAAATCCTTAAATCCA
130 ACAAATCCTTAAATCCA
194587 TTACCACCAT
Statistics
Matches: 400, Mismatches: 64, Indels: 27
0.81 0.13 0.05
Matches are distributed among these distances:
327 6 0.01
328 133 0.33
329 67 0.17
330 6 0.01
331 4 0.01
332 173 0.43
333 10 0.03
334 1 0.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.34
Consensus pattern (325 bp):
ATACTCATAAGAAATATATAATTCAATATAAAAAAGATTAAAGACTTTACATGCTTCTAATATCG
TTTTTCCTATTTTTCCCGAATTAATTTCTAATTAAATCGAAACATGATTCAAATGCTAGTAAAAA
CAAATCCTTAAATCCAAGTTGACTGAGATTTGCTTAGATGAATATACATATTTCAAGTAATATCA
TGCCAAAAATCATGCAAAACTGAGTCAGGGCCACGAAACACGTTTTTAGACAAAAAAAATCGTAA
TACACGATTTCAGCTAAAATTTCGCAAAAATTTAGCGAAAGAATGTTACTCAATTTTGGACCACG
Found at i:194842 original size:227 final size:231
Alignment explanation
Indices: 194491--195041 Score: 882
Period size: 231 Copynumber: 2.4 Consensus size: 231
194481 TTGACTTTTC
* * * * *
194491 ATGCTTCTAATATCGT-TTTTCCTATTTTTCCTGAATTAATTTCTAATTAAATT-GAAACATGAT
1 ATGCTTCTAATAT-TTCTTTTCCTATTTTTTC-AAATTAATTTCTAATT-AATTCAAAACAAGAT
* * *
194554 TCAGATGGTAGTAAAAACAAATCCTTAAATCCATTACCACCATATTAGTACACGATTTCGGTTAA
63 TCAGATGCTCGTAAAAACAAATCCTTAAATTCATTACCACCATATTAGTACACGATTTCGGTTAA
**
194619 AATTTTGTGAAAA-TTGACCCGAAACATATTTCCTCAGTTATTTGCTAAAATACT-AAAAA-A-A
128 AATTTTGCAAAAATTTGACCCGAAACATATTTCCTCAGTTATTTGCTAAAATACTCAAAAATATA
*
194680 TATATATAATTTGACATCAAAAAGATTGAAGGGTTTTAA
193 TATATATAATCTGACATCAAAAAGATTGAAGGGTTTTAA
194719 ATGCTTCTAATATTTCTTTTCCTATTTTTTCAAATTAATTTCTAATTAATTCAAAACAAGATTCA
1 ATGCTTCTAATATTTCTTTTCCTATTTTTTCAAATTAATTTCTAATTAATTCAAAACAAGATTCA
*
194784 GATGCTCGTAAAAACAAATCCTTAAATTCATTGCCACCATATTAGTACACGATTTCGGTTAAAAT
66 GATGCTCGTAAAAACAAATCCTTAAATTCATTACCACCATATTAGTACACGATTTCGGTTAAAAT
*
194849 TTTGCAAAAATTTTACCCGAAACATATTTCCTCAGTTATTTGCTAAAATACTCAAAAATATATAT
131 TTTGCAAAAATTTGACCCGAAACATATTTCCTCAGTTATTTGCTAAAATACTCAAAAATATATAT
*
194914 ATATAATCTGACATCAAAAAGATTGAAGGGTTTTTA
196 ATATAATCTGACATCAAAAAGATTGAAGGGTTTTAA
* *
194950 ACGCTTCTAATATTTCTTTTCCTATTTTTTCAAATTAATTTCTAATTAAATCAAAACAAGATTCA
1 ATGCTTCTAATATTTCTTTTCCTATTTTTTCAAATTAATTTCTAATTAATTCAAAACAAGATTCA
195015 GATGCTCGTAAAAA-AAATCCTTAAATT
66 GATGCTCGTAAAAACAAATCCTTAAATT
195042 TAATGTGATT
Statistics
Matches: 301, Mismatches: 16, Indels: 10
0.92 0.05 0.03
Matches are distributed among these distances:
226 4 0.01
227 96 0.32
228 67 0.22
229 5 0.02
230 14 0.05
231 115 0.38
ACGTcount: A:0.38, C:0.15, G:0.09, T:0.38
Consensus pattern (231 bp):
ATGCTTCTAATATTTCTTTTCCTATTTTTTCAAATTAATTTCTAATTAATTCAAAACAAGATTCA
GATGCTCGTAAAAACAAATCCTTAAATTCATTACCACCATATTAGTACACGATTTCGGTTAAAAT
TTTGCAAAAATTTGACCCGAAACATATTTCCTCAGTTATTTGCTAAAATACTCAAAAATATATAT
ATATAATCTGACATCAAAAAGATTGAAGGGTTTTAA
Found at i:195730 original size:10 final size:10
Alignment explanation
Indices: 195717--195742 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
195707 AAGATTTGGT
195717 TAGATAAAAA
1 TAGATAAAAA
195727 TAGATAAAAA
1 TAGATAAAAA
195737 TAGATA
1 TAGATA
195743 TTTCAAGGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.65, C:0.00, G:0.12, T:0.23
Consensus pattern (10 bp):
TAGATAAAAA
Found at i:198288 original size:333 final size:331
Alignment explanation
Indices: 194825--198653 Score: 3442
Period size: 332 Copynumber: 11.6 Consensus size: 331
194815 TGCCACCATA
* * * * * *
194825 TTAGTACACGATTTCGGTTAAAATTTTGCAAAAATTTTACCCGAAACATATTTCCTCAGTTATTT
1 TTAGTACACGATTTCGGCTAAAATTTTGCAAAAA-CTGACCCGAAAAAT-TTTTCTCAATT-TTT
* * * * * * * * * *
194890 -GCTAAAATACTCAAAAATATATATATATAATCTGACA--TCAAAAAGATTGAAGGGTTTTTAAC
63 GGCCACAATATTCATAAA-A-A-ATATATAAT-TCA-AGGTCTAGAAGATTGGAGGGCTTTTCAC
* ** *
194952 GCTTCTAATAT-TTCTTTTCCT-ATTTTTTC-AAATTAATTTCTAATTAAATCAAAACAAGATTC
123 GCTTCTAATATCGT-TTTTCCTAATTTTTTCTAAATTAATTTCTAATTAAATCAAAACTGGTTTC
* ** * * ** * * *
195014 AGATGCTCGTAAAAAAAATCCTTAAATTTAATGTGATTGAGATTTGGTTAGATAAATATAGATAT
187 AGATGCTCATAAACTATATTCTTAAATCCAATGTGGTTGAGATTTGATTAGATGAATATAGATAT
* * * **
195079 TTCAAGGAGTCT-TG-GCATCATAAATCAAGCAAAACTGAG-CAAGG-CCC-G--CG-G-TTTTA
252 TTAAAGGAGTCTCTGCGC--CAAAAATCATGCAAAACTGAGACGGGGTCCCGGAACGCGTTTTTA
* *
195135 GCCGAAAACCGTGATGG
315 GCCAAAAACCGTGATAG
* * * * * * *
195152 TTATTACATGATTTCGGCTAAAATTTTGCAAAAATTGACTCGAAATATTTTTC-CACGATTTCTA
1 TTAGTACACGATTTCGGCTAAAATTTTGCAAAAACTGACCCGAAAAATTTTTCTCA--ATTTTTG
* * * * * * **
195216 GCGAAAATACTCATAAAAAA-ACTATAATTCAATGTC-AAAAGGATTGTAGAACTTTTCACGCTT
64 GCCACAATATTCATAAAAAATA-TATAATTCAAGGTCTAGAA-GATTGGAGGGCTTTTCACGCTT
* * * * * * ** * * *
195279 TTAATATCGTTTTTCAT-ATTTTTTCTGAATTAATTTATAATTGAATCGAAACAAGATTCATATT
127 CTAATATCGTTTTTCCTAATTTTTTCTAAATTAATTTCTAATTAAATCAAAACTGGTTTCAGATG
* * * *
195343 CACATAAAAAC-AAATCCTTAAATCCAATGT-GTCTGAGATTTGATTAGATGAATAAAGATATTT
192 CTCAT--AAACTATATTCTTAAATCCAATGTGGT-TGAGATTTGATTAGATGAATATAGATATTT
* * * ** * ** *
195406 CAAGGAGTCTCGGGGCCAAAAATCATGCAAAACAAAG-CTGTGG-CCCTGGATTGCTTTTTTAGC
254 AAAGGAGTCTCTGCGCCAAAAATCATGCAAAACTGAGAC-GGGGTCCC-GGAACGCGTTTTTAGC
* *
195469 CAAAAACTGTGATGG
317 CAAAAACCGTGATAG
** * * * *
195484 TTAGTACATTATTTCGGTTAAAATTTTGCAAAAATTGACCCGAAATATATTTGCTCAATTTTTGG
1 TTAGTACACGATTTCGGCTAAAATTTTGCAAAAACTGACCCGAAAAAT-TTTTCTCAATTTTTGG
** * * * * ** * * * * *
195549 GAAAAATACTCATAAAAAATATATGATTCGACATC-AAAAAATTGAAGGGTTTTTAACGCTTCTA
65 CCACAATATTCATAAAAAATATATAATTCAAGGTCTAGAAGATTGGAGGGCTTTTCACGCTTCTA
* * * ** * *
195613 ATATTGTTTTTCC-AATTTTTTC-AAATTAATTTCTAATTAAATCGAATCAAGATTCAGGTGCTC
130 ATATCGTTTTTCCTAATTTTTTCTAAATTAATTTCTAATTAAATCAAAACTGGTTTCAGATGCTC
* * * * ** * * * *
195676 GTAAAAATAAATCCTTAAATTTAATGTGATTAAGATTTGGTTAGATAAAAATAGATAAAAATAGA
195 AT-AAACTATATTCTTAAATCCAATGTGGTTGAGA--T--TT-GAT-----TAGATGAATATAGA
* * * * * * * *
195741 TATTTCAAGGTGTCT-TGGCACCAAAAATCAAGCAAAACTGAGCCGGGCT-CTGGAACGCGGTTT
249 TATTTAAAGGAGTCTCT-GCGCCAAAAATCATGCAAAACTGAGACGGGGTCCCGGAACGCGTTTT
* * *
195804 TAGCCGAAAATCGTGATGG
313 TAGCCAAAAACCGTGATAG
* * * **
195823 TTAGTACATGATTTCGGCTAAAATTTTGCAAAAATTGACCCGAAATATTTTTCCTCAATTTTTTT
1 TTAGTACACGATTTCGGCTAAAATTTTGCAAAAACTGACCCGAAAAATTTTT-CTCAATTTTTGG
* * ** * **
195888 TCACAGTATTCATAAAAAAATATATAATTCAATCTCCA-AAGATCAGAGGGCTTTTCACGCTTCT
65 CCACAATATTCAT-AAAAAATATATAATTCAAGGTCTAGAAGATTGGAGGGCTTTTCACGCTTCT
* * * * *
195952 AATATCGCTTTCCCTAATTTTTTCTAAATTAATTTCTAATTAAATCAAAACTGATTTCAGACGAT
129 AATATCGTTTTTCCTAATTTTTTCTAAATTAATTTCTAATTAAATCAAAACTGGTTTCAGATGCT
* * * *
196017 CGTAAACTATATTTTTAAATCCAATGTGGTTGAGATTTGATTGGATGAATTTAGATATTTAAAGG
194 CATAAACTATATTCTTAAATCCAATGTGGTTGAGATTTGATTAGATGAATATAGATATTTAAAGG
* * * * * * ** *
196082 ACTCT-TGGCGCTAAAAATCTTGCAAAACTGAGCCGGGGACCCGAAACATGTGTTTAGCCAAAAA
259 AGTCTCT-GCGCCAAAAATCATGCAAAACTGAGACGGGGTCCCGGAACGCGTTTTTAGCCAAAAA
*
196146 CCGTGATGG
323 CCGTGATAG
* ** * * *
196155 ATAGTACACGATTTCGATTAAAATTTTGCCAAAAGCTGAGCCGAAAAATTTTCCTCAATTTTTGG
1 TTAGTACACGATTTCGGCTAAAATTTTG-CAAAAACTGACCCGAAAAATTTTTCTCAATTTTTGG
* * * * *
196220 ACAAAATAATCATTAAAAATATATAATTCAAGGGCTAGAAGATTGGAGGG-TTTTCACGCTTCTA
65 CCACAATATTCATAAAAAATATATAATTCAAGGTCTAGAAGATTGGAGGGCTTTTCACGCTTCTA
* * *
196284 ATATCGTTTTTCCTAGTTTTTTCTAAATTTATTTCTAATTAAATCTAAACTGGTTTCAGATGCTC
130 ATATCGTTTTTCCTAATTTTTTCTAAATTAATTTCTAATTAAATCAAAACTGGTTTCAGATGCTC
*
196349 ATAGAAAC-ATAACTCTTAAATCCAATGTGGTTGAGATTTGATTAGAT-ATATATAGATATTTAA
195 AT--AAACTAT-ATTCTTAAATCCAATGTGGTTGAGATTTGATTAGATGA-ATATAGATATTTAA
* * * * * * * *
196412 AGGAGTTTTTGCGCCAAAAACCGTGCAAAAATAAGACGGGGTCCCGGAACGCGTTTTTAACTAAA
256 AGGAGTCTCTGCGCCAAAAATCATGCAAAACTGAGACGGGGTCCCGGAACGCGTTTTTAGCCAAA
*
196477 AA-----A-CG
321 AACCGTGATAG
* * * ** * *
196482 -T-GT--ACTATTTAGGCTAAAATTTAGCAAAAACTGTTCCGAAAAGTTTTTCCTCAATTTTTTG
1 TTAGTACACGATTTCGGCTAAAATTTTGCAAAAACTGACCCGAAAAATTTTT-CTCAATTTTTGG
* * * *
196543 CCACAATATTCATAAAAAAAATATATTTCAAGGGCTAGAAGATTGGAGGG-TTTTCACACTTCTA
65 CCACAATATTCATAAAAAATATATAATTCAAGGTCTAGAAGATTGGAGGGCTTTTCACGCTTCTA
* * *
196607 ATATCGTTTTTCCTAATTTTTTCTAAATTAATTTCTAATTAAATCTAAACCGATTTCAGATGCTC
130 ATATCGTTTTTCCTAATTTTTTCTAAATTAATTTCTAATTAAATCAAAACTGGTTTCAGATGCTC
* *
196672 ATAAAAAC-ATAACTCTTAAATCCAATGTGTTTGAGATTTGATTAGATGAATAT--ATATTTAAA
195 AT--AAACTAT-ATTCTTAAATCCAATGTGGTTGAGATTTGATTAGATGAATATAGATATTTAAA
* * * * * * * *
196734 GGAGTTTCTGCGCCAAAAATCATGCAAAAATGTGATGGGGTCTCAGAACGCATTTTTAGCTAAAA
257 GGAGTCTCTGCGCCAAAAATCATGCAAAACTGAGACGGGGTCCCGGAACGCGTTTTTAGC-CAAA
*
196799 AAACGTGATAG
321 AACCGTGATAG
* * * * ** *
196810 TTAGTATACGATTTTGGCTAAAATTTAGCAAAAACTGTCCAAAAAAAGTTTTCCTCAATATTTT-
1 TTAGTACACGATTTCGGCTAAAATTTTGCAAAAACTGACCCGAAAAA-TTTTTCTCAAT-TTTTG
* * *
196874 GCCAAAATATTCATAAAAAATATATAATTCAAGGGCTAGAAGATTGGATGG-TTTTCACGCTTCT
64 GCCACAATATTCATAAAAAATATATAATTCAAGGTCTAGAAGATTGGAGGGCTTTTCACGCTTCT
* * *
196938 AACATCGTTTTTCCTAATTTTTTCTAAATTAATTTCTAATTAAATCTAAA-TCGATTTCAGATGC
129 AATATCGTTTTTCCTAATTTTTTCTAAATTAATTTCTAATTAAATCAAAACT-GGTTTCAGATGC
* * *
197002 TCATAAAATCATAACTCTTAAATCCAATGTGGTTGAGATTTGATTAAATGAATATAGATATTTAA
193 TCATAAACT-AT-ATTCTTAAATCCAATGTGGTTGAGATTTGATTAGATGAATATAGATATTTAA
* * * * *
197067 AGGAGT-T-T----------TTATGTCAAAAATAAGACGGGGTCTC--AACGCGTTTTTAGCTAA
256 AGGAGTCTCTGCGCCAAAAATCATG-CAAAACTGAGACGGGGTCCCGGAACGCGTTTTTAGC-CA
*
197118 AAAAACGTGATAG
319 AAAACCGTGATAG
* * * * *
197131 TTAGTATACGATTTCGGCTAAAATTTAGCAAAAACAGTCCCGAAAAATTTTTCCTCAATTTTTCG
1 TTAGTACACGATTTCGGCTAAAATTTTGCAAAAACTGACCCGAAAAATTTTT-CTCAATTTTTGG
* * * ** * * *
197196 CAACAACA-TCTATGAAAAATATATAATTCAATCTCCA-AAGATCGGAGGGCTTTTCACACTTCT
65 CCACAATATTC-ATAAAAAATATATAATTCAAGGTCTAGAAGATTGGAGGGCTTTTCACGCTTCT
* * * *
197259 AATATCGCTTTCCCTAAGTTTTTTCAAAATTAATTTCTAATTAAATCAAAACTGGTTTCAGACGC
129 AATATCGTTTTTCCTAA-TTTTTTCTAAATTAATTTCTAATTAAATCAAAACTGGTTTCAGATGC
* * * * *
197324 TCGTAAACTATATTTTTAAATCCAATGTGGCTGAGATTTGAATAGATGAATTTAGATATTTAAAG
193 TCATAAACTATATTCTTAAATCCAATGTGGTTGAGATTTGATTAGATGAATATAGATATTTAAAG
* * * * * *
197389 GAGCCTCGGCG-CAAAATATCATGCAAAACTGAGACGGGGCCCCGAAACGTGTTTTTAG-TAAAA
258 GAGTCTCTGCGCCAAAA-ATCATGCAAAACTGAGACGGGGTCCCGGAACGCGTTTTTAGCCAAAA
*
197452 ACCGTGATGG
322 ACCGTGATAG
* * * * * *
197462 TTAGTACACGATTTCGGTTAAAATTTTGTCAAAAGCTGAGCCGAAATATTTTCCTCTATTTTTGG
1 TTAGTACACGATTTCGGCTAAAATTTTG-CAAAAACTGACCCGAAAAATTTTTCTCAATTTTTGG
* * * *
197527 ACACAATAATCATAAAAAATATATAATTCAAGGGCTAGAAGATTGGAGAG-TTTTCACGCTTCTA
65 CCACAATATTCATAAAAAATATATAATTCAAGGTCTAGAAGATTGGAGGGCTTTTCACGCTTCTA
*
197591 ATATCGTTTTTCCTAA-TTTTTCTAAATTAATTTCTAATTAAATCTAAA-TCGGTTTCAGATGCT
130 ATATCGTTTTTCCTAATTTTTTCTAAATTAATTTCTAATTAAATCAAAACT-GGTTTCAGATGCT
* * * *
197654 CATAAAATCATAACTCTCAAATCCAATGTGGTTGAGATTTGATTAGATGAATATAGATACTTAAA
194 CATAAACT-AT-ATTCTTAAATCCAATGTGGTTGAGATTTGATTAGATGAATATAGATATTTAAA
* * * *
197719 GGAGTTTCTGCGCCAAAAATCATGCAAAAATGAGACGGGATCCCGGAACGCGTTTTTAGCTAAAA
257 GGAGTCTCTGCGCCAAAAATCATGCAAAACTGAGACGGGGTCCCGGAACGCGTTTTTAGCCAAAA
* *
197784 AACGTGATATTT
322 ACCGTGATA--G
* * * * *
197796 TTAGTATACGATTTCGGCTAAAATTTAGCAAAAA-TTATCCAGAAAAATTTTTCCTCAATTTTTT
1 TTAGTACACGATTTCGGCTAAAATTTTGCAAAAACTGA-CCCGAAAAATTTTT-CTCAATTTTTG
* ** * *
197860 GCCACAATATTCAGAAAAAAATATATAATTCAATCTCCA-AAGATCGGAGGGCTTTTCACGCTTC
64 GCCACAATATTCA-TAAAAAATATATAATTCAAGGTCTAGAAGATTGGAGGGCTTTTCACGCTTC
* *
197924 TAATATCGTTTTCCCTAATTTTTTCTAAATTAATTTCTAATTAAATCAAAACTGGTTTTCAGACG
128 TAATATCGTTTTTCCTAATTTTTTCTAAATTAATTTCTAATTAAATCAAAACTGG-TTTCAGATG
* * * * *
197989 CTCGTAAACTATATTATTAAATCCAATGTGGCTGAGATTTGATTTGATGAATTTAGATATTTAAA
192 CTCATAAACTATATTCTTAAATCCAATGTGGTTGAGATTTGATTAGATGAATATAGATATTTAAA
* * *
198054 GGAGTCTCTGCGCCAAAAATCATGCAAAACTGAGACGGGGCCCCGAAACGTGTTTTTAGCCAAAA
257 GGAGTCTCTGCGCCAAAAATCATGCAAAACTGAGACGGGGTCCCGGAACGCGTTTTTAGCCAAAA
198119 ACCGTGATAG
322 ACCGTGATAG
** * *
198129 TTAGTACACGATTTCGATTAAAATTTTGTCAAAAGCTGAGCCGAAAAATTTTTCTCAATTTTTGG
1 TTAGTACACGATTTCGGCTAAAATTTTG-CAAAAACTGACCCGAAAAATTTTTCTCAATTTTTGG
* * *
198194 GCACAATAATCATAAAAATATATATAATTCAAGGGCTAGAAGATTGGAGGG-TTTTCACGCTTCT
65 CCACAATATTCATAAAAA-ATATATAATTCAAGGTCTAGAAGATTGGAGGGCTTTTCACGCTTCT
* *
198258 AATATCGTTTTTCCTAATTTTTTCTAAATTAATTTCTAATTAAATCTAAA-TCGATTTCAGATGC
129 AATATCGTTTTTCCTAATTTTTTCTAAATTAATTTCTAATTAAATCAAAACT-GGTTTCAGATGC
* * * *
198322 TCATAAAAAC-ATAACTCTTAAATCCAATGTGGTTGAGATTTCATTAGATGACTATGGATATTTA
193 TCAT--AAACTAT-ATTCTTAAATCCAATGTGGTTGAGATTTGATTAGATGAATATAGATATTTA
* * * *
198386 AAGGAGTTTCTGCGCCAAAAATCATGCAAAAATGAGACGGGGTCCCGGAACGCG-TTTAAGCTAA
255 AAGGAGTCTCTGCGCCAAAAATCATGCAAAACTGAGACGGGGTCCCGGAACGCGTTTTTAGC-CA
*
198450 AAAAACGTGATAG
319 AAAACCGTGATAG
* * * * *
198463 TTAGTATACAATTTCGGCTAAAATTTAGCAAAAA-TTATCCCGAAAAATTTTTCCTCAATTTTTT
1 TTAGTACACGATTTCGGCTAAAATTTTGCAAAAACTGA-CCCGAAAAATTTTT-CTCAATTTTTG
* ** * * *
198527 GCCACAATATTCAGAAAAAAATATATAATTCAATCTCCA-AAGATCGAAGGGCTTTTCACGCTTC
64 GCCACAATATTCA-TAAAAAATATATAATTCAAGGTCTAGAAGATTGGAGGGCTTTTCACGCTTC
* * *
198591 TAATATCGTTTTCCCTAATTTTTTCTAAATTAATTTCTAATTAAACCAAAATTGGTTTTCAGA
128 TAATATCGTTTTTCCTAATTTTTTCTAAATTAATTTCTAATTAAATCAAAACTGG-TTTCAGA
198654 CG
Statistics
Matches: 2914, Mismatches: 462, Indels: 244
0.80 0.13 0.07
Matches are distributed among these distances:
320 71 0.02
321 194 0.07
322 83 0.03
323 258 0.09
324 41 0.01
325 81 0.03
326 38 0.01
327 35 0.01
328 4 0.00
329 53 0.02
330 63 0.02
331 386 0.13
332 464 0.16
333 318 0.11
334 331 0.11
335 179 0.06
336 38 0.01
337 19 0.01
338 3 0.00
339 89 0.03
340 97 0.03
341 35 0.01
342 34 0.01
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.34
Consensus pattern (331 bp):
TTAGTACACGATTTCGGCTAAAATTTTGCAAAAACTGACCCGAAAAATTTTTCTCAATTTTTGGC
CACAATATTCATAAAAAATATATAATTCAAGGTCTAGAAGATTGGAGGGCTTTTCACGCTTCTAA
TATCGTTTTTCCTAATTTTTTCTAAATTAATTTCTAATTAAATCAAAACTGGTTTCAGATGCTCA
TAAACTATATTCTTAAATCCAATGTGGTTGAGATTTGATTAGATGAATATAGATATTTAAAGGAG
TCTCTGCGCCAAAAATCATGCAAAACTGAGACGGGGTCCCGGAACGCGTTTTTAGCCAAAAACCG
TGATAG
Done.