Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01016420.1 Corchorus olitorius cultivar O-4 contig16453, 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: 90866
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Found at i:1735 original size:666 final size:665
Alignment explanation
Indices: 433--3094 Score: 3956
Period size: 666 Copynumber: 4.0 Consensus size: 665
423 TATATATAAT
* * *
433 CATCTAACCAAATCTCAGCCAC-----ATACAAGGATTTGGTTTTACGAGCGTTTGAATCTTATT
1 CATCTAACCAAATCTCAGCCACATTGGATACAAGGATTTGGTTTTACGAGCATTTAAATATTATT
*
493 TTGATTTAGTTAGAAATTAATTCGAAAAAAATGGAAAAACGATATTAGAAGCGTGAAAATCCCGT
66 TCGATTTAGTTAGAAATTAATTCGAAAAAAATGGAAAAACGATATTAGAAGCGTGAAAATCCCGT
* * *
558 CAATCTTTTTGGCGTTGAATTATATATTGTCTCAGAGTATTGTGGCAAAAAATTGAGAAAGAAAG
131 CAATCTTTTCGGCGTTGAATTATATATTTTCTCAGAGTATTGTGGCAAAAAATTGAGAAA-ATAG
* * ** * * * **
623 TCTTCGGGTCAAATTTTAGCCAAAATCAG-ATACTAACCATGACAGTGTTTTTTTTTTTTGCAAA
195 CCTTCGGGTCAATTTTTAGCTGAAATC-GTGTACTAACCATCAC-G-G---TTTTTTTTGGGTAA
* * * *
687 AAACGCGTATTCGGGGCCTTGATGCGGATGAGATAGGCATATCATATATTGATCATATGGAACGT
254 AACCGCGTA-TCGGGGCCTTGATGCGGATGAGATGGGCATATCATATATGGATCATATGGACCGT
* * * * * * * * * * *
752 CAAAAGTCCGTTCGAAAGGGCGTATAACGTTTTGGAATTTGGGTCTGATGTTCCTGCATGTGGGT
318 TAGAAGTCCGTTCGAAAGGGCTTGTAACGTTTTGGATTTTGGGCCTAAAGTTCCTACAGGTGGCT
* *
817 CAACTTAAAAAGGTCATAACTTTCAAACCGTAAGTCGGTTTGACTATTATAATACCTTT-TCGGA
383 CAACTTAAAAACGTCATAACCTTCAAACCGTAAGTCGGTTTGACTA-TATAATACCTTTCT-GGA
*
881 TACTGATTTGAACCGACTACGCCGTGGTCAATTTTTAGAAATTTATTTTTACGAGCATTTCAATC
446 TACTGATTTGAACCGACTACGCCGTGGTCAATTTTTAGAAATTTGTTTTTACGAGCATTTCAATC
* * * * *
946 TTGTTTCGATTTAATTAGAAATTAAATTGTTAAAAAGGTTTTGGGGTCAATATTTAGCCGAAGTC
511 TTATTTCGATTTAATTAGAAATTAAATTGTTAAAAAAGTTTTCGGGTCAATTTTTAGCCGAAATC
* * *
1011 GTGTACTAATCATCACGGTTTTTTGGCTAAAAACACGCTTCGGGGCGTCGACTCAGTTCTGCATG
576 GTGTACTAACCATCACGGTTTTTTGGCTAAAAACGCGCTTCGGGGCCTCGACTCAGTTCTGCATG
*
1076 ATTTTTGGCATAAGACTCCTTGAAC
641 ATTTTTGGCATAAGACTCCTCGAAC
*
1101 CATCTAACCAAATCTCAGCCACATTGGATACAAGGATTTGGTTTTACTAGCATTTAAATATTATT
1 CATCTAACCAAATCTCAGCCACATTGGATACAAGGATTTGGTTTTACGAGCATTTAAATATTATT
* *
1166 TCGATTTAGTTAGAAATTAATTCGAAAAAAATTGAAAAAGGATATTAGAAGCGTGAAAATCCCGT
66 TCGATTTAGTTAGAAATTAATTCGAAAAAAATGGAAAAACGATATTAGAAGCGTGAAAATCCCGT
* * *
1231 CAATATTTTCGGTGTTGAATTATATATTTTCTCAGAGTATTGTGGCAAAAAATTTAGAAAATAGC
131 CAATCTTTTCGGCGTTGAATTATATATTTTCTCAGAGTATTGTGGCAAAAAATTGAGAAAATAGC
*
1296 CTTCGGGTCAATTTTTAG-TCGAAATCGTTTACTAACCATCACGGTTTTTTTTGGGTAAAACCGC
196 CTTCGGGTCAATTTTTAGCT-GAAATCGTGTACTAACCATCACGGTTTTTTTTGGGTAAAACCGC
* * * *
1360 GTATCGGGGCCTTGATGCGAATGAGATTGGCATATCATATGTGGATCGTATGGACCGTTAGAAGT
260 GTATCGGGGCCTTGATGCGGATGAGATGGGCATATCATATATGGATCATATGGACCGTTAGAAGT
*
1425 CCGTTCGAAAGGGCTTGTAACGTTTTGGATTTTGGGCCTAAAGTTCCTACTGGTGGCTCAACTTA
325 CCGTTCGAAAGGGCTTGTAACGTTTTGGATTTTGGGCCTAAAGTTCCTACAGGTGGCTCAACTTA
* *
1490 AAAACGTTATAACCTTCAAACCGTAAGTCGGTTTGAC-A-ATTATACCTTTCTGGATACTGATTT
390 AAAACGTCATAACCTTCAAACCGTAAGTCGGTTTGACTATATAATACCTTTCTGGATACTGATTT
*
1553 GAACCGGCTACGCCGTGGTCAATTTTTAGAAATTTGTTTTTACGAGCATTTCAATCTTATTTCGA
455 GAACCGACTACGCCGTGGTCAATTTTTAGAAATTTGTTTTTACGAGCATTTCAATCTTATTTCGA
* *
1618 TTTAATTAGGAATTAAATTGTTAAAAAAGTTTTCGGGTCCATTTTTAGCCGAAATCGTGTACTAA
520 TTTAATTAGAAATTAAATTGTTAAAAAAGTTTTCGGGTCAATTTTTAGCCGAAATCGTGTACTAA
* * * *
1683 CCATCATGGTTTTTTTTTGGCTAAAAACGCGTTTCGAGGCCTCGACTCAGTTCAGCATGATTTTT
585 CCATCACGG---TTTTTTGGCTAAAAACGCGCTTCGGGGCCTCGACTCAGTTCTGCATGATTTTT
1748 GGCATAAGACTCCTCGAAC
647 GGCATAAGACTCCTCGAAC
* * *
1767 CATCTAACCAAATCTCAGCCACATTGGATACAAGGATTTGCTTTTACGAGCATTTGAATCTTATT
1 CATCTAACCAAATCTCAGCCACATTGGATACAAGGATTTGGTTTTACGAGCATTTAAATATTATT
* *
1832 TCGATTTAGTTAGAAATTAATTCGAAAAAAATGGAAAAACGATACTAGAAGCGTGAAAATCCCGA
66 TCGATTTAGTTAGAAATTAATTCGAAAAAAATGGAAAAACGATATTAGAAGCGTGAAAATCCCGT
*
1897 CAATCTTTTCGACGTTGAATTATATATTTTCTCAGAGTATTGTGGCAAAAAATTGAGAAAATAGC
131 CAATCTTTTCGGCGTTGAATTATATATTTTCTCAGAGTATTGTGGCAAAAAATTGAGAAAATAGC
* * *
1962 CTTCAGGTCAATTTTTAGCTGAAATCATGTACTAACCATCAC-GATTTTTTTGGGTAAAACCGCG
196 CTTCGGGTCAATTTTTAGCTGAAATCGTGTACTAACCATCACGGTTTTTTTTGGGTAAAACCGCG
*
2026 TATCGGGGCCTTGATGCGGATGAGATGGGCATATCATATATGGATCATATGGACCGTTAGATGTC
261 TATCGGGGCCTTGATGCGGATGAGATGGGCATATCATATATGGATCATATGGACCGTTAGAAGTC
*
2091 CGTTCGAAAGGG-TGTGTAACGTTTTGGATTTTGGGCCTAAAGTTCCTGCAGGTGGCTCAACTTA
326 CGTTCGAAAGGGCT-TGTAACGTTTTGGATTTTGGGCCTAAAGTTCCTACAGGTGGCTCAACTTA
** * *
2155 AAAACGTCATAATTTTCAAACCGTAAGTCGGTTTGACTAATATAATATCTTTCCGGATACTGATT
390 AAAACGTCATAACCTTCAAACCGTAAGTCGGTTTGACT-ATATAATACCTTTCTGGATACTGATT
* * * *
2220 TGAACCGACTACGTCGTGGTCAATTTTTAGAAATTTGTTTCTACGAGCATTTTAAT-ATAGTTTC
454 TGAACCGACTACGCCGTGGTCAATTTTTAGAAATTTGTTTTTACGAGCATTTCAATCTTA-TTTC
* *
2284 GATTTAATTAGAAATTAAATTGTTAAAAAAGCTTTCGGGTCAATTTTTAGCCGAAGTCGTGTACT
518 GATTTAATTAGAAATTAAATTGTTAAAAAAGTTTTCGGGTCAATTTTTAGCCGAAATCGTGTACT
*
2349 AACCATCACGGTTTTTTGGCAAAAAACGCGCTTCGGGGCCTCGACTCAGTTCTGCATGATTTTTG
583 AACCATCACGGTTTTTTGGCTAAAAACGCGCTTCGGGGCCTCGACTCAGTTCTGCATGATTTTTG
*
2414 GCATAGGACTCCTCGAAC
648 GCATAAGACTCCTCGAAC
* *
2432 CATCTAACCAAATCTCAACCACATTGGAAACAAGGATTTGGTTTTACGAGCATTTAAATATTATT
1 CATCTAACCAAATCTCAGCCACATTGGATACAAGGATTTGGTTTTACGAGCATTTAAATATTATT
*
2497 TCGATTTAGTTAGAAATTAATTC-AAAAAAATGGAAAAAGGATATTAGAAGCGTGAAAATCCCGT
66 TCGATTTAGTTAGAAATTAATTCGAAAAAAATGGAAAAACGATATTAGAAGCGTGAAAATCCCGT
* * *
2561 CAATCTTTTAGGTGTTGAATTATATATTTTCTCAGAGTATTGTGGCAAAAAATTAAGAAAATAGC
131 CAATCTTTTCGGCGTTGAATTATATATTTTCTCAGAGTATTGTGGCAAAAAATTGAGAAAATAGC
* * *
2626 CTTCGAGTCAATTTTTAGCTGAAATCGTGTACTAACCATCACGG-TTTTTTTAGGTAAAACCACG
196 CTTCGGGTCAATTTTTAGCTGAAATCGTGTACTAACCATCACGGTTTTTTTTGGGTAAAACCGCG
* * * *
2690 TATCGGGGCCTTGATGCGGATGAGATGGGCATATCATATATAGATCGTATGCACTGTTAGAAGTC
261 TATCGGGGCCTTGATGCGGATGAGATGGGCATATCATATATGGATCATATGGACCGTTAGAAGTC
* *
2755 CGTTCGAAAGGGCTTGTAACATTTTGGATTTTGGGTCTAAAGTTCCTACAGGTGGCTCAACTT-A
326 CGTTCGAAAGGGCTTGTAACGTTTTGGATTTTGGGCCTAAAGTTCCTACAGGTGGCTCAACTTAA
*
2819 AAACGTCATAACCTTCAAACCGTAAGTCGGTTTGACTATTATAATACCTTTTTGGATACTGATTT
391 AAACGTCATAACCTTCAAACCGTAAGTCGGTTTGACTA-TATAATACCTTTCTGGATACTGATTT
* * * * *
2884 GAACCGACTACGCAC-AGGTCAGTTGTTAGAAATTCGTTTTTACGAGCATTTCAATCTTGTTTCG
455 GAACCGACTACGC-CGTGGTCAATTTTTAGAAATTTGTTTTTACGAGCATTTCAATCTTATTTCG
* * ** *
2948 ATTTAATTAGGAATTAAATTGTTGAAAAA-TTTTCTAGTCAATTTTTAGCCGAAATCGAGTACTA
519 ATTTAATTAGAAATTAAATTGTTAAAAAAGTTTTCGGGTCAATTTTTAGCCGAAATCGTGTACTA
* * * *
3012 ACCATTACGGTTTTTTGGCTAAAAACGTGTTTTGGGGCCTCGACTCAGTTCTGCATGATTTTTTT
584 ACCATCACGGTTTTTTGGCTAAAAACGCGCTTCGGGGCCTCGACTCAGTTCTGCATGA--TTTTT
3077 GGCATAAGACTCCTCGAA
647 GGCATAAGACTCCTCGAA
3095 ATATATATAT
Statistics
Matches: 1812, Mismatches: 158, Indels: 52
0.90 0.08 0.03
Matches are distributed among these distances:
662 84 0.05
663 287 0.16
664 300 0.17
665 328 0.18
666 429 0.24
667 23 0.01
668 170 0.09
670 1 0.00
671 2 0.00
672 37 0.02
673 151 0.08
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.34
Consensus pattern (665 bp):
CATCTAACCAAATCTCAGCCACATTGGATACAAGGATTTGGTTTTACGAGCATTTAAATATTATT
TCGATTTAGTTAGAAATTAATTCGAAAAAAATGGAAAAACGATATTAGAAGCGTGAAAATCCCGT
CAATCTTTTCGGCGTTGAATTATATATTTTCTCAGAGTATTGTGGCAAAAAATTGAGAAAATAGC
CTTCGGGTCAATTTTTAGCTGAAATCGTGTACTAACCATCACGGTTTTTTTTGGGTAAAACCGCG
TATCGGGGCCTTGATGCGGATGAGATGGGCATATCATATATGGATCATATGGACCGTTAGAAGTC
CGTTCGAAAGGGCTTGTAACGTTTTGGATTTTGGGCCTAAAGTTCCTACAGGTGGCTCAACTTAA
AAACGTCATAACCTTCAAACCGTAAGTCGGTTTGACTATATAATACCTTTCTGGATACTGATTTG
AACCGACTACGCCGTGGTCAATTTTTAGAAATTTGTTTTTACGAGCATTTCAATCTTATTTCGAT
TTAATTAGAAATTAAATTGTTAAAAAAGTTTTCGGGTCAATTTTTAGCCGAAATCGTGTACTAAC
CATCACGGTTTTTTGGCTAAAAACGCGCTTCGGGGCCTCGACTCAGTTCTGCATGATTTTTGGCA
TAAGACTCCTCGAAC
Found at i:3305 original size:226 final size:229
Alignment explanation
Indices: 2874--3332 Score: 683
Period size: 227 Copynumber: 2.0 Consensus size: 229
2864 ACCTTTTTGG
* *
2874 ATACTGATTTGAACCGACTACGCACAGGTCAGTTGTTAGAAATTCGTTTTTACGAGCATTTCAAT
1 ATACTGATTTGAACCGACTACGCACAGGTCAATTGTTAGAAATTC-TTTTTACGACCATTTCAAT
* * * * * * * *
2939 CTTGTTTCGATTTAATTAGGAATTAAATTGTTGAAAAATTTTCTAGTCAATTTTTAGCCGAAATC
65 CCTGTTTCGATTTAATTAGAAATTAAATTGTTAAAAAATTTACGAGTCAAGTTTTAACCAAAATC
* * *
3004 GAGTACTAACCATTACGGTTTTTTGGCTAAAAACGTGTTTTGGGGCCTCGACTCAGTTCTGCATG
130 GAGTACTAACCATCACGGTTTTTTGGCTAAAAACGCGTTTCGGGGCCTCGACTCAGTTCTGCATG
3069 ATTTTTTTGGCATAAGACTCCTCGAA-ATATATAT
195 ATTTTTTTGGCATAAGACTCCTCGAATATATATAT
*** *
3103 ATACTGATTTGAACCGACTACGCTGTGGTCAATTTTTAGAAA-T-TTTTTACGACCATTTCAATC
1 ATACTGATTTGAACCGACTACGCACAGGTCAATTGTTAGAAATTCTTTTTACGACCATTTCAATC
*
3166 CTGTTTCGATTTAATTAGAAATTAAATTGTTAAAAAAGTTTACGGGTCAAGTTTTAACCAAAATC
66 CTGTTTCGATTTAATTAGAAATTAAATTGTTAAAAAA-TTTACGAGTCAAGTTTTAACCAAAATC
* * *
3231 GTGTACTAACCATCACGGTTTTTTGGCTAAAAACGCGTTTCGGGGTCTCGACTTAGTTCTGCATG
130 GAGTACTAACCATCACGGTTTTTTGGCTAAAAACGCGTTTCGGGGCCTCGACTCAGTTCTGCATG
3296 A-TTTTTTGGCATAAGACTCCTCGAATATATATAT
195 ATTTTTTTGGCATAAGACTCCTCGAATATATATAT
3330 ATA
1 ATA
3333 TATATATATT
Statistics
Matches: 207, Mismatches: 21, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
226 77 0.37
227 92 0.44
228 1 0.00
229 37 0.18
ACGTcount: A:0.29, C:0.16, G:0.17, T:0.37
Consensus pattern (229 bp):
ATACTGATTTGAACCGACTACGCACAGGTCAATTGTTAGAAATTCTTTTTACGACCATTTCAATC
CTGTTTCGATTTAATTAGAAATTAAATTGTTAAAAAATTTACGAGTCAAGTTTTAACCAAAATCG
AGTACTAACCATCACGGTTTTTTGGCTAAAAACGCGTTTCGGGGCCTCGACTCAGTTCTGCATGA
TTTTTTTGGCATAAGACTCCTCGAATATATATAT
Found at i:4550 original size:678 final size:675
Alignment explanation
Indices: 3103--5171 Score: 3074
Period size: 678 Copynumber: 3.0 Consensus size: 675
3093 AAATATATAT
*
3103 ATACTGATTTGAACCGACTACGCTGTGGTCAATTTTTAGAAA-TT-TTTTACGACCATTTCAATC
1 ATACTGATTTGAACCGACTACGCTGTGGTCAATTTTTAGAAATTTGTTTTACGAGCATTTCAAT-
* *
3166 CTGTTTCGATTTAATTAGAAATTAAATTGTTAAAAAAGTTTACGGGTCAAGTTTTAACCAAAATC
65 CTTTTTCGATTTAATTAGAAATTAAATTGTTAAAAAAGTTTTCGGGTCAAGTTTTAACCAAAATC
* * *
3231 GTGTACTAACCATCACGGTTTTTTGGCTAAAAACGCGTTTCGGGGTCTCGACTTAGTTCTGCATG
130 GTGTACTAACCATCACAG-TTTTTGGCTAAAAACGCGTTTCGGGGCCTCGACTCAGTTCTGCATG
* *
3296 ATTTTTTGGCAT-AAGACTCCTCGAATATATATATATATATATATATTATCTAACCAAATCTCAG
194 A-TTTCTGGCATAAAAACTCCTCG---A-A-ATATATATATA-ATA--ATCTAACCAAATCTCAG
* *
3360 CCACATTGGATACAAGGATCTGGTTTTACGAGAATTTGAATCTTATTTCGATTCAAG-TAGAAAT
250 CCACATTGGATACAAGGATTTGGTTTTACGAGAATTTGAATCTTATTTCGATT-TAGTTAGAAAT
* *
3424 TAATTCGAAAAAAAATGGAAAAACGATATTAGAAGCGTGAAAATCCCGTCAATCTTTTCGGCGTT
314 TAATTC-AAAAAAAATGGAAAAACGATATTAGAAGCGTGAAAA-CCCATTAATCTTTTCGGCGTT
* * * * *
3489 GAATTATATGTTTTCTTAGAGTATTGTCGGAAAAAATTGAGAAAAAACTCTTCGGGTCAATTTTT
377 GAATTATATATTTTCTCAGAGTATTGTAGCAAAAAATTGAGAAAAAAGTCTTCGGGTCAATTTTT
* *
3554 AGCCGAAATCTTGTATTAACCATCACGGTTTTTTTTTTGCTAAAAACGCGTATCGGGGCCTTGAT
442 AGCCGAAATCGTGTACTAACCATCACGG-TTTTTTTTTGCTAAAAACGCGTATCGGGGCCTTGAT
* * * *
3619 GCGGATGAGATAGCCATATTATATATGGATCGTATGGACCATCAGAAGTCCGTTCGAAAGGGCGT
506 GCGGATGAGATAGGCATATCATATATGGATCGTATGGACCGTCAGAAATCCGTTCGAAAGGGCGT
*
3684 GTAACATTTTGGATTTCGGGCCTGAAGTTCCTGCAGGTGGGTCAACTTAAAAAGGTCATAACTTT
571 GTAACATTTTGGATTTTGGGCCTGAAGTTCCTGCAGGTGGGTCAACTTAAAAAGGTCATAACTTT
3749 CAAACCGTAAGTCGGTTTGACTATTATAATACCTTTCCGG
636 CAAACCGTAAGTCGGTTTGACTATTATAATACCTTTCCGG
* *
3789 ATACTGATTTGAACCGACTACGCCGTGGTC-ATTTTTAGAAATTTGTTTTTACGAGCGTTTCAAT
1 ATACTGATTTGAACCGACTACGCTGTGGTCAATTTTTAGAAATTTG-TTTTACGAGCATTTCAAT
* * * *
3853 CTTGTTTCGATTTAATTAGAAATTAAATTGTTAAAAAAGTTTTCAGGTCAATTTTTAGCCGAAAT
65 CTT-TTTCGATTTAATTAGAAATTAAATTGTTAAAAAAGTTTTCGGGTCAAGTTTTAACCAAAAT
* * *
3918 CGTGTACTAACCATCATAGTTTTTGGCTAAAAACGCGTTTCGGTGCCTACAACTCAGTTCTGCAT
129 CGTGTACTAACCATCACAGTTTTTGGCTAAAAACGCGTTTCGGGGCCT-CGACTCAGTTCTGCAT
* * *
3983 GATTTCTGGCATAAAAACTTCTCGAGATATATATATAATAATCTAACCAAATCTCAGTCACATTG
193 GATTTCTGGCATAAAAACTCCTCGAAATATATATATAATAATCTAACCAAATCTCAGCCACATTG
* * * * * *
4048 GATAAAAGGTTTTGGTTTTACGAGTATTTGAATCTTATTTTGATTTAGTTATAAACTAATTCAAA
258 GATACAAGGATTTGGTTTTACGAGAATTTGAATCTTATTTCGATTTAGTTAGAAATTAATTC-AA
* *
4113 AAAAAATGTAAAAACGATATTCGAAGCGTGAAAACCCCATTAATCTTTTCGGCGTTGAATTATAT
322 AAAAAATGGAAAAACGATATTAGAAGCGTGAAAA-CCCATTAATCTTTTCGGCGTTGAATTATAT
* * *
4178 ATTTTATCAGAGTATTGTAGCAAAAAAATGAGAAAATAGTCTTCGGGTCAATTTTTAGCCGAAAT
386 ATTTTCTCAGAGTATTGTAGCAAAAAATTGAGAAAAAAGTCTTCGGGTCAATTTTTAGCCGAAAT
* * * *
4243 CGTGTACTAACCATCACGG-TTTTTTTGGCTAATACCGCGTATCGGGGCCTTGATGCGGTTGAGA
451 CGTGTACTAACCATCACGGTTTTTTTTTGCTAAAAACGCGTATCGGGGCCTTGATGCGGATGAGA
** * *
4307 TAGGCATAGGATATATGGATCGTATGGACCGTTAGAAATCCGTTCGAAAGGGCGTGTAACCTTTT
516 TAGGCATATCATATATGGATCGTATGGACCGTCAGAAATCCGTTCGAAAGGGCGTGTAACATTTT
* * * *
4372 GGATTTTGGGCCTGAAGTTTCTGCAGGTGGCTCAGCTTAAAAA-GTCATAACTTTCAAACCTTAA
581 GGATTTTGGGCCTGAAGTTCCTGCAGGTGGGTCAACTTAAAAAGGTCATAACTTTCAAACCGTAA
* *
4436 ATCGGTTTGACTATTATAATACCTTTCCGA
646 GTCGGTTTGACTATTATAATACCTTTCCGG
4466 ATACTGATTTGAACCGACTACGCTGTGGTCAATTTTTAGAAATTTGGTTTTACGAGCATTTCAAT
1 ATACTGATTTGAACCGACTACGCTGTGGTCAATTTTTAGAAATTT-GTTTTACGAGCATTTCAAT
* *
4531 CTTTTGTCGATTTAATTAGAAATTAAATTGTTAAAAAAGTTTTCGGGTCTAGTTTTACCCAAAAT
65 CTTTT-TCGATTTAATTAGAAATTAAATTGTTAAAAAAGTTTTCGGGTCAAGTTTTAACCAAAAT
* *
4596 CGTGTACTAACCATCACGATTTTTTGGCTAAAAACGCATTTCGGGGCCTCGACTCAGTTCTGCAT
129 CGTGTACTAACCATCAC-AGTTTTTGGCTAAAAACGCGTTTCGGGGCCTCGACTCAGTTCTGCAT
* *
4661 GATTTCTTGGCATAAATACTCCTCGAAATATATATATAATCATCTAACCAAATCTCAGCCACATT
193 GATTTC-TGGCATAAAAACTCCTCGAAATATATATATAATAATCTAACCAAATCTCAGCCACATT
* * * *
4726 GGATACAAGGATTTGGTTTTACCAGCATTTGAAACTTATTTCGATTTAGTTAGAAATTAATTCGA
257 GGATACAAGGATTTGGTTTTACGAGAATTTGAATCTTATTTCGATTTAGTTAGAAATTAATTCAA
*
4791 AAAAAATGGAAAAACGATATTAGAAGCGTGAAAA-TCATGTCAATCTTTTCGGCGTTGAATTATA
322 AAAAAATGGAAAAACGATATTAGAAGCGTGAAAACCCAT-T-AATCTTTTCGGCGTTGAATTATA
* * *
4855 TATTTTCTCAGTGTATTGTGGCAAAAAATTGTGAAAAAAGTCTTCGGGTCAATTTTTAGCCGAAA
385 TATTTTCTCAGAGTATTGTAGCAAAAAATTGAGAAAAAAGTCTTCGGGTCAATTTTTAGCCGAAA
* *
4920 TCGTATACTAACCATCACGGTTTTTTTTTTTTGCTAAAAACGCGTATCGGGGCCTTAATGCGGAT
450 TCGTGTACTAACCATCACGG---TTTTTTTTTGCTAAAAACGCGTATCGGGGCCTTGATGCGGAT
* * *
4985 GAGATAGGCATATCATATATGGATCATATGGACCGTCAGAAATCCTTTCGAAAGGGCGTGTAACG
512 GAGATAGGCATATCATATATGGATCGTATGGACCGTCAGAAATCCGTTCGAAAGGGCGTGTAACA
* *
5050 TTTTAGATTTTGGGCATGAAGTTCCTGCAGGTGGGTCAACTTAAAAAGGTCATAACTTTCAAACC
577 TTTTGGATTTTGGGCCTGAAGTTCCTGCAGGTGGGTCAACTTAAAAAGGTCATAACTTTCAAACC
*
5115 GTAAGTCAGTTTGACTATTATAATACCTTTCCGG
642 GTAAGTCGGTTTGACTATTATAATACCTTTCCGG
5149 ATACTGATTTGAACCGACTACGC
1 ATACTGATTTGAACCGACTACGC
5172 CTTGGTGAAC
Statistics
Matches: 1246, Mismatches: 118, Indels: 41
0.89 0.08 0.03
Matches are distributed among these distances:
676 3 0.00
677 80 0.06
678 397 0.32
679 139 0.11
680 211 0.17
682 140 0.11
683 81 0.07
685 12 0.01
686 31 0.02
687 38 0.03
688 114 0.09
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (675 bp):
ATACTGATTTGAACCGACTACGCTGTGGTCAATTTTTAGAAATTTGTTTTACGAGCATTTCAATC
TTTTTCGATTTAATTAGAAATTAAATTGTTAAAAAAGTTTTCGGGTCAAGTTTTAACCAAAATCG
TGTACTAACCATCACAGTTTTTGGCTAAAAACGCGTTTCGGGGCCTCGACTCAGTTCTGCATGAT
TTCTGGCATAAAAACTCCTCGAAATATATATATAATAATCTAACCAAATCTCAGCCACATTGGAT
ACAAGGATTTGGTTTTACGAGAATTTGAATCTTATTTCGATTTAGTTAGAAATTAATTCAAAAAA
AATGGAAAAACGATATTAGAAGCGTGAAAACCCATTAATCTTTTCGGCGTTGAATTATATATTTT
CTCAGAGTATTGTAGCAAAAAATTGAGAAAAAAGTCTTCGGGTCAATTTTTAGCCGAAATCGTGT
ACTAACCATCACGGTTTTTTTTTGCTAAAAACGCGTATCGGGGCCTTGATGCGGATGAGATAGGC
ATATCATATATGGATCGTATGGACCGTCAGAAATCCGTTCGAAAGGGCGTGTAACATTTTGGATT
TTGGGCCTGAAGTTCCTGCAGGTGGGTCAACTTAAAAAGGTCATAACTTTCAAACCGTAAGTCGG
TTTGACTATTATAATACCTTTCCGG
Found at i:6576 original size:322 final size:321
Alignment explanation
Indices: 5473--6907 Score: 1916
Period size: 322 Copynumber: 4.5 Consensus size: 321
5463 TCAGGCTTTC
*
5473 ACTCAGTTTTGCATGGTTTTTGGCATAAAGACTCCTTGAAATATATATAATCATCTAACCAAATC
1 ACTCAGTTTTGCATGGTTTTTGGCATAAAGACTCCTTGAAATATATTTAATCATCTAACCAAATC
* * * * * *
5538 TCAGCCACATTGGAAACAAGGATTTGTTTTGACGAGCATTTGAATCTTGTTTCGATTCAATTAGA
66 TTAGCCACATTGGATATAAGGATTTGTTTTTACGTGCATTTGAATCTTGTTTCGATTTAATTAGA
* *
5603 AATTAATTCGGAAAAAATGGAAAAACGATATTAGAAA-CTTGAAAATCCCGTCAAACTTTTTGGC
131 AATTAATTCGGAAAAAATGGAAAAACGATATTA-AAAGCGTGAAAATCCCGTCAATCTTTTT-GC
* * *
5667 GTTGAATTATATATTTTTTCAGAGTATTGTGGCAAAAAATTGAGATTAAAGTCTTCGGGTCAATT
194 GTTGAATTATATATTTTTTCAGAGTATTGTGGCAAAAAATTGAGA-AAAAGTTTTCAGGTCAATT
5732 TTTAGCCGAAATCGTGTACTAACCATC-TCGGTTTTTTT-GCTAAAAACGCGTTTCGGGGCCTCG
258 TTTAGCCGAAATCGTGTACTAACCATCAT-GGTTTTTTTGGCTAAAAACGCGTTTCGGGGCCTCG
*
5795 ACTCAGTTTTGCATGGTTTTTGGCATAAAGAATCCTTGAAATATATTTAATCATCTAACCAAATC
1 ACTCAGTTTTGCATGGTTTTTGGCATAAAGACTCCTTGAAATATATTTAATCATCTAACCAAATC
* *
5860 TCA-CCTACATTGGATATAAGGATTTGTTTTTACGTGCATTTGAATCTTGTTTCAATTTAATTAG
66 TTAGCC-ACATTGGATATAAGGATTTGTTTTTACGTGCATTTGAATCTTGTTTCGATTTAATTAG
* *
5924 AAATTAATTCGGAAAAAAAAAT-GAAAAACCGATATTAAAAGCGTGAATATCCCGTCAATATTTT
130 AAATTAATTCGG---AAAAAATGGAAAAA-CGATATTAAAAGCGTGAAAATCCCGTCAATCTTTT
* *
5988 TGCTTTGAATTATATATTTTTTCAGAGTATTGTGGCAAAAAATTGAGAAAAAAGTTTTCGGGTCA
191 TGCGTTGAATTATATATTTTTTCAGAGTATTGTGGCAAAAAATTGAG-AAAAAGTTTTCAGGTCA
* * * *
6053 ATTTTTAGCCGAAATCATGTACTAACCATTATGGTTTTTTTTTTTTGCTAAAATCGCGTTTCGGG
255 ATTTTTAGCCGAAATCGTGTACTAACCATCATGG----TTTTTTTGGCTAAAAACGCGTTTCGGG
6118 GCCTCG
316 GCCTCG
* * * ** *
6124 AATCAATTTTGTATGGTTTTTGGCATAAAGAGACCTTGAAGTATATTTAATCATCTAACCAAATC
1 ACTCAGTTTTGCATGGTTTTTGGCATAAAGACTCCTTGAAATATATTTAATCATCTAACCAAATC
* * *
6189 TTAGCCACCTTGGATATAAGGATTTGTTTTTACGTGCATTTGAATCTCGTTTCAATTTAATTAGA
66 TTAGCCACATTGGATATAAGGATTTGTTTTTACGTGCATTTGAATCTTGTTTCGATTTAATTAGA
6254 AATTAATTCGGAAAAAAAGATGGAAAAACGATATTAAAAGCGTGAAAATCCCGTCAATCTTTTT-
131 AATTAATTCGG--AAAAA-ATGGAAAAACGATATTAAAAGCGTGAAAATCCCGTCAATCTTTTTG
*
6318 CGTTGAATTATATA-TTTTTCAGAGTATTATGGCAAAAAA-TGAGAAAAAGTTTTCAGGTCAATT
193 CGTTGAATTATATATTTTTTCAGAGTATTGTGGCAAAAAATTGAGAAAAAGTTTTCAGGTCAATT
* * *
6381 TTTAGCCGAAATCGTGTACTAACCATCATGGTTTCTTTTGGCTAAAATCGCGTTTTGGGGTCTCG
258 TTTAGCCGAAATCGTGTACTAACCATCATGGTTT-TTTTGGCTAAAAACGCGTTTCGGGGCCTCG
* *
6446 ACTCATTTTTGCATGGTTTTTGGCATAAAGACTCCTTGAAATATATTTAATCATCTAACCAAACC
1 ACTCAGTTTTGCATGGTTTTTGGCATAAAGACTCCTTGAAATATATTTAATCATCTAACCAAATC
* * *
6511 TTGGCCACATTGGATATAAGGATTTGTTTTTACGTGCATTCGAATCTTGTTTCGATTTGATTAGA
66 TTAGCCACATTGGATATAAGGATTTGTTTTTACGTGCATTTGAATCTTGTTTCGATTTAATTAGA
* *
6576 AATTAATTCGGAAAAAATGGAAAAACGATATTAAAAGCGTGAAAAAT--C-T--TTTTTTTCTGC
131 AATTAATTCGGAAAAAATGGAAAAACGATATTAAAAGCGTG-AAAATCCCGTCAATCTTTT-TGC
* * * * ** * *
6636 GTTGAAATATATATTTTTTCTGAGTATTGTAGCAAAGAATTGAGGAAAAAACTTCCAGGTC-AGT
194 GTTGAATTATATATTTTTTCAGAGTATTGTGGCAAAAAATTGA-GAAAAAGTTTTCAGGTCAATT
* * * * * *
6700 TTTAGCCAAAATCGTGTACTAATCATCACGG--TTTTCGGCTAAAAACGCATTTCGGGGTCTCG
258 TTTAGCCGAAATCGTGTACTAACCATCATGGTTTTTTTGGCTAAAAACGCGTTTCGGGGCCTCG
* * * * *
6762 ACTCAGTTTTGTATGGTTTTTGGCAAAAAGTCTCCTTGAAATATCTATAATCATCTAACCAAATC
1 ACTCAGTTTTGCATGGTTTTTGGCATAAAGACTCCTTGAAATATATTTAATCATCTAACCAAATC
* * ** * * * * *
6827 TTAGCCACATTGGATTTAAGGATCTGTTTTTACAAGTATTTAAATTTTTTTTCGATTTAATTCGA
66 TTAGCCACATTGGATATAAGGATTTGTTTTTACGTGCATTTGAATCTTGTTTCGATTTAATTAGA
6892 AATTAATTC--AAAAAAT
131 AATTAATTCGGAAAAAAT
6908 CAATTAAAAT
Statistics
Matches: 1003, Mismatches: 87, Indels: 54
0.88 0.08 0.05
Matches are distributed among these distances:
314 7 0.01
315 5 0.00
316 147 0.15
317 15 0.01
318 22 0.02
319 58 0.06
320 24 0.02
321 5 0.00
322 285 0.28
324 98 0.10
325 85 0.08
326 4 0.00
327 24 0.02
328 27 0.03
329 189 0.19
330 8 0.01
ACGTcount: A:0.32, C:0.14, G:0.17, T:0.36
Consensus pattern (321 bp):
ACTCAGTTTTGCATGGTTTTTGGCATAAAGACTCCTTGAAATATATTTAATCATCTAACCAAATC
TTAGCCACATTGGATATAAGGATTTGTTTTTACGTGCATTTGAATCTTGTTTCGATTTAATTAGA
AATTAATTCGGAAAAAATGGAAAAACGATATTAAAAGCGTGAAAATCCCGTCAATCTTTTTGCGT
TGAATTATATATTTTTTCAGAGTATTGTGGCAAAAAATTGAGAAAAAGTTTTCAGGTCAATTTTT
AGCCGAAATCGTGTACTAACCATCATGGTTTTTTTGGCTAAAAACGCGTTTCGGGGCCTCG
Found at i:8643 original size:13 final size:13
Alignment explanation
Indices: 8625--8650 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
8615 ATTCTTCCCC
8625 TTTTATATTTGTT
1 TTTTATATTTGTT
8638 TTTTATATTTGTT
1 TTTTATATTTGTT
8651 CAAATAAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.00, G:0.08, T:0.77
Consensus pattern (13 bp):
TTTTATATTTGTT
Found at i:9774 original size:32 final size:32
Alignment explanation
Indices: 9732--9814 Score: 85
Period size: 32 Copynumber: 2.6 Consensus size: 32
9722 GGTTTTTCAA
* * *
9732 GTTCGAGTTTTTTCGGGTTTCAGATTTTTCGG
1 GTTCGGGTTTTTTCGGGTTACAGATTTCTCGG
** * * *
9764 GTTTTGGTTTTTTCTGGTTAGAGCTTTCTCGG
1 GTTCGGGTTTTTTCGGGTTACAGATTTCTCGG
*
9796 GTTCGGGTTTTTTTGGGTT
1 GTTCGGGTTTTTTCGGGTT
9815 CGGATTCGGA
Statistics
Matches: 39, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
32 39 1.00
ACGTcount: A:0.06, C:0.11, G:0.30, T:0.53
Consensus pattern (32 bp):
GTTCGGGTTTTTTCGGGTTACAGATTTCTCGG
Found at i:9775 original size:16 final size:16
Alignment explanation
Indices: 9737--9782 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 16
9727 TTCAAGTTCG
9737 AGTTTTTTCGGGTTTC
1 AGTTTTTTCGGGTTTC
* *
9753 AGATTTTTCGGGTTTT
1 AGTTTTTTCGGGTTTC
* *
9769 GGTTTTTTCTGGTT
1 AGTTTTTTCGGGTT
9783 AGAGCTTTCT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.07, C:0.09, G:0.26, T:0.59
Consensus pattern (16 bp):
AGTTTTTTCGGGTTTC
Found at i:12228 original size:24 final size:24
Alignment explanation
Indices: 12196--12243 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
12186 GTAGGTTCAT
12196 CGAGCCTAATTGAGCCCCCTCTAA
1 CGAGCCTAATTGAGCCCCCTCTAA
*
12220 CGAGGCTAATTGAGCCCCCTCTAA
1 CGAGCCTAATTGAGCCCCCTCTAA
12244 TATTACATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.25, C:0.35, G:0.19, T:0.21
Consensus pattern (24 bp):
CGAGCCTAATTGAGCCCCCTCTAA
Found at i:14545 original size:21 final size:21
Alignment explanation
Indices: 14511--14571 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 21
14501 CCGGTGAGAG
*
14511 TAAAATTGGTTACTATACGGA
1 TAAAATTTGTTACTATACGGA
* * * *
14532 TTAGATTTGTTACTGTACAGA
1 TAAAATTTGTTACTATACGGA
*
14553 TAAAATTTGTTACCATACG
1 TAAAATTTGTTACTATACG
14572 TATATTCTCA
Statistics
Matches: 30, Mismatches: 10, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.34, C:0.11, G:0.16, T:0.38
Consensus pattern (21 bp):
TAAAATTTGTTACTATACGGA
Found at i:26030 original size:19 final size:19
Alignment explanation
Indices: 26006--26043 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
25996 ATAAAATAAA
26006 ATATATAAA-AAAGCAAATT
1 ATATATAAATAAA-CAAATT
26025 ATATATAAATAAACAAATT
1 ATATATAAATAAACAAATT
26044 TTTGTTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 15 0.83
20 3 0.17
ACGTcount: A:0.63, C:0.05, G:0.03, T:0.29
Consensus pattern (19 bp):
ATATATAAATAAACAAATT
Found at i:27127 original size:33 final size:33
Alignment explanation
Indices: 27090--27157 Score: 127
Period size: 33 Copynumber: 2.1 Consensus size: 33
27080 TCATTCTTAA
27090 CTGTTTAGAGTTTGAGATTTAGGATGATATCTT
1 CTGTTTAGAGTTTGAGATTTAGGATGATATCTT
*
27123 CTGTTTCGAGTTTGAGATTTAGGATGATATCTT
1 CTGTTTAGAGTTTGAGATTTAGGATGATATCTT
27156 CT
1 CT
27158 CAAGATTTAC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.22, C:0.09, G:0.24, T:0.46
Consensus pattern (33 bp):
CTGTTTAGAGTTTGAGATTTAGGATGATATCTT
Found at i:28625 original size:2 final size:2
Alignment explanation
Indices: 28618--28677 Score: 81
Period size: 2 Copynumber: 31.5 Consensus size: 2
28608 TTAAATTGAA
*
28618 AT AT AT AT AT A- AT AT AT AT AA AT AT AT AT AT A- 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
*
28658 AA AT AT AT AT AT A- AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT A
28678 GAGATAATGA
Statistics
Matches: 51, Mismatches: 4, Indels: 6
0.84 0.07 0.10
Matches are distributed among these distances:
1 3 0.06
2 48 0.94
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (2 bp):
AT
Found at i:28642 original size:21 final size:21
Alignment explanation
Indices: 28616--28677 Score: 124
Period size: 21 Copynumber: 3.0 Consensus size: 21
28606 GTTTAAATTG
28616 AAATATATATATAATATATAT
1 AAATATATATATAATATATAT
28637 AAATATATATATAATATATAT
1 AAATATATATATAATATATAT
28658 AAATATATATATAATATATA
1 AAATATATATATAATATATA
28678 GAGATAATGA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
AAATATATATATAATATATAT
Found at i:29898 original size:82 final size:82
Alignment explanation
Indices: 29761--29925 Score: 303
Period size: 82 Copynumber: 2.0 Consensus size: 82
29751 CTTAAAATAA
* *
29761 TGTGTATCATGATAGGAGATTTGGACATCTAAGCATATAAACTTAAGAAATTAAAATTAAATAAT
1 TGTGTATCATGAAAGGAGATATGGACATCTAAGCATATAAACTTAAGAAATTAAAATTAAATAAT
29826 CATCCCAAATCTTTATT
66 CATCCCAAATCTTTATT
*
29843 TGTGTATGATGAAAGGAGATATGGACATCTAAGCATATAAACTTAAGAAATTAAAATTAAATAAT
1 TGTGTATCATGAAAGGAGATATGGACATCTAAGCATATAAACTTAAGAAATTAAAATTAAATAAT
29908 CATCCCAAATCTTTATT
66 CATCCCAAATCTTTATT
29925 T
1 T
29926 TTTAATAATG
Statistics
Matches: 80, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
82 80 1.00
ACGTcount: A:0.42, C:0.12, G:0.13, T:0.33
Consensus pattern (82 bp):
TGTGTATCATGAAAGGAGATATGGACATCTAAGCATATAAACTTAAGAAATTAAAATTAAATAAT
CATCCCAAATCTTTATT
Found at i:38400 original size:10 final size:9
Alignment explanation
Indices: 38384--38443 Score: 59
Period size: 9 Copynumber: 6.3 Consensus size: 9
38374 AATCAAAAAC
38384 AAAAAAAGA
1 AAAAAAAGA
38393 AGAAAAAA-A
1 A-AAAAAAGA
*
38402 AGAAGAAAGA
1 A-AAAAAAGA
38412 AAAAGAAAGAA
1 AAAA-AAAG-A
*
38423 AAAAAAAGG
1 AAAAAAAGA
38432 AAAAAAAGA
1 AAAAAAAGA
38441 AAA
1 AAA
38444 CCCTCGGGAG
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
9 22 0.51
10 16 0.37
11 5 0.12
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (9 bp):
AAAAAAAGA
Found at i:38401 original size:12 final size:12
Alignment explanation
Indices: 38384--38438 Score: 76
Period size: 12 Copynumber: 4.5 Consensus size: 12
38374 AATCAAAAAC
38384 AAAAAAAGAAGA
1 AAAAAAAGAAGA
38396 AAAAAAAGAAGA
1 AAAAAAAGAAGA
38408 AAGAAAAAGAAAGA
1 AA-AAAAAG-AAGA
*
38422 AAAAAAA-AGGA
1 AAAAAAAGAAGA
38433 AAAAAA
1 AAAAAA
38439 GAAAACCCTC
Statistics
Matches: 40, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
11 9 0.22
12 14 0.35
13 11 0.28
14 6 0.15
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (12 bp):
AAAAAAAGAAGA
Found at i:38420 original size:29 final size:28
Alignment explanation
Indices: 38384--38443 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 28
38374 AATCAAAAAC
*
38384 AAAAAAAGAAGAAAAAAAAG-AAGAAAGA
1 AAAAAAAGAA-AAAAAAAAGAAAAAAAGA
*
38412 AAAAGAAAGAAAAAAAAAGGAAAAAAAGA
1 AAAA-AAAGAAAAAAAAAAGAAAAAAAGA
38441 AAA
1 AAA
38444 CCCTCGGGAG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 12 0.43
29 16 0.57
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (28 bp):
AAAAAAAGAAAAAAAAAAGAAAAAAAGA
Found at i:40614 original size:12 final size:12
Alignment explanation
Indices: 40597--40640 Score: 70
Period size: 12 Copynumber: 3.7 Consensus size: 12
40587 TGCTCTTCGC
*
40597 CCGCCACCGCTG
1 CCGCCACCGCCG
40609 CCGCCACCGCCG
1 CCGCCACCGCCG
*
40621 CCGCCACCGCCA
1 CCGCCACCGCCG
40633 CCGCCACC
1 CCGCCACC
40641 CCTTCGACGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 30 1.00
ACGTcount: A:0.11, C:0.66, G:0.20, T:0.02
Consensus pattern (12 bp):
CCGCCACCGCCG
Found at i:40618 original size:6 final size:6
Alignment explanation
Indices: 40597--40640 Score: 61
Period size: 6 Copynumber: 7.3 Consensus size: 6
40587 TGCTCTTCGC
** *
40597 CCGCCA CCGCTG CCGCCA CCGCCG CCGCCA CCGCCA CCGCCA CC
1 CCGCCA CCGCCA CCGCCA CCGCCA CCGCCA CCGCCA CCGCCA CC
40641 CCTTCGACGT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.11, C:0.66, G:0.20, T:0.02
Consensus pattern (6 bp):
CCGCCA
Found at i:43172 original size:21 final size:21
Alignment explanation
Indices: 43147--43206 Score: 84
Period size: 21 Copynumber: 2.9 Consensus size: 21
43137 GCTGCTCTAA
* *
43147 TAATCTCATCTGTATAATACC
1 TAATCTAATCTGTACAATACC
* *
43168 TAATCTAATATGTACAGTACC
1 TAATCTAATCTGTACAATACC
43189 TAATCTAATCTGTACAAT
1 TAATCTAATCTGTACAAT
43207 GTAATCTCAT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.37, C:0.20, G:0.07, T:0.37
Consensus pattern (21 bp):
TAATCTAATCTGTACAATACC
Found at i:43295 original size:21 final size:21
Alignment explanation
Indices: 43278--43328 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
43268 TAATAATTTC
43278 ATATGTACAGTACCTAATCTA
1 ATATGTACAGTACCTAATCTA
*
43299 ATCTGTACAGTACCTAATCTA
1 ATATGTACAGTACCTAATCTA
43320 ATATGTACA
1 ATATGTACA
43329 ATGTAATCTC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.37, C:0.20, G:0.10, T:0.33
Consensus pattern (21 bp):
ATATGTACAGTACCTAATCTA
Found at i:43348 original size:124 final size:124
Alignment explanation
Indices: 43128--43375 Score: 442
Period size: 124 Copynumber: 2.0 Consensus size: 124
43118 TGTAATCTTC
* *
43128 GTTTCAATCGCTGCTCTAATAATCTCATCTGTATAATACCTAATCTAATATGTACAGTACCTAAT
1 GTTTCAATCGCTGCTCTAATAATCTCATATGTACAATACCTAATCTAATATGTACAGTACCTAAT
*
43193 CTAATCTGTACAATGTAATCTCATCTATACAGTTGCTAAACAGTGTCAATCGCACCGCT
66 CTAATATGTACAATGTAATCTCATCTATACAGTTGCTAAACAGTGTCAATCGCACCGCT
* * *
43252 GTTTCAATCGCTGCTCTAATAATTTCATATGTACAGTACCTAATCTAATCTGTACAGTACCTAAT
1 GTTTCAATCGCTGCTCTAATAATCTCATATGTACAATACCTAATCTAATATGTACAGTACCTAAT
43317 CTAATATGTACAATGTAATCTCATCTATACAGTTGCTAAACAGTGTCAATCGCACCGCT
66 CTAATATGTACAATGTAATCTCATCTATACAGTTGCTAAACAGTGTCAATCGCACCGCT
43376 ACCGCAACGC
Statistics
Matches: 118, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
124 118 1.00
ACGTcount: A:0.31, C:0.23, G:0.12, T:0.34
Consensus pattern (124 bp):
GTTTCAATCGCTGCTCTAATAATCTCATATGTACAATACCTAATCTAATATGTACAGTACCTAAT
CTAATATGTACAATGTAATCTCATCTATACAGTTGCTAAACAGTGTCAATCGCACCGCT
Found at i:51667 original size:87 final size:87
Alignment explanation
Indices: 51494--51668 Score: 314
Period size: 88 Copynumber: 2.0 Consensus size: 87
51484 TTGAACAATC
*
51494 TATCTATAGTTAATAGTAGAACAAAATGAATTTGCAATATAAATTTTTTTATTTATCCTAATCAG
1 TATCTATAGTTAATAGTAGAACAAAATGAATTTGCAATATAAATTTTTTTATCTATCCTAATCAG
51559 TACCTTTATAATAATTAAAAAA
66 TACCTTTATAATAATTAAAAAA
* *
51581 TATCTGTAGTTAATAGTAGAACAAAATGAATTTGCAATATAAAATTTTTTTATCTATGCTAATCA
1 TATCTATAGTTAATAGTAGAACAAAATGAATTTGCAATAT-AAATTTTTTTATCTATCCTAATCA
51646 GTACCTTTATAATAATTAAAAAA
65 GTACCTTTATAATAATTAAAAAA
51669 AAAACTGGAA
Statistics
Matches: 84, Mismatches: 3, Indels: 1
0.95 0.03 0.01
Matches are distributed among these distances:
87 39 0.46
88 45 0.54
ACGTcount: A:0.43, C:0.09, G:0.08, T:0.39
Consensus pattern (87 bp):
TATCTATAGTTAATAGTAGAACAAAATGAATTTGCAATATAAATTTTTTTATCTATCCTAATCAG
TACCTTTATAATAATTAAAAAA
Found at i:52820 original size:19 final size:20
Alignment explanation
Indices: 52777--52820 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
52767 CAATTTATTT
*
52777 ATTTATCTTCAAAATGTTTC
1 ATTTATCTTCAAAATGTTAC
52797 ATTTATCATT-AAAAT-TTAC
1 ATTTATC-TTCAAAATGTTAC
52816 ATTTA
1 ATTTA
52821 CGTCGTGCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 8 0.36
20 12 0.55
21 2 0.09
ACGTcount: A:0.36, C:0.11, G:0.02, T:0.50
Consensus pattern (20 bp):
ATTTATCTTCAAAATGTTAC
Found at i:54099 original size:15 final size:16
Alignment explanation
Indices: 54079--54110 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
54069 TCCGAAATGC
54079 ATATATTTTAT-ATTT
1 ATATATTTTATAATTT
54094 ATATATTTTATAATTT
1 ATATATTTTATAATTT
54110 A
1 A
54111 AATGGGTTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
ATATATTTTATAATTT
Found at i:54406 original size:21 final size:21
Alignment explanation
Indices: 54382--54457 Score: 57
Period size: 21 Copynumber: 3.7 Consensus size: 21
54372 TATTGGATAA
54382 ATATAATATTTAAATTTATTT
1 ATATAATATTTAAATTTATTT
* * ** **
54403 ATATCATTTTTAAA-AAACTAA
1 ATATAATATTTAAATTTA-TTT
*
54424 ATATAATATTCAAATTTATTT
1 ATATAATATTTAAATTTATTT
*
54445 ATATCAT-TTTAAA
1 ATATAATATTTAAA
54458 AAAACGATCA
Statistics
Matches: 38, Mismatches: 15, Indels: 5
0.66 0.26 0.09
Matches are distributed among these distances:
20 6 0.16
21 31 0.82
22 1 0.03
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (21 bp):
ATATAATATTTAAATTTATTT
Found at i:54426 original size:42 final size:42
Alignment explanation
Indices: 54379--54462 Score: 150
Period size: 42 Copynumber: 2.0 Consensus size: 42
54369 AACTATTGGA
* *
54379 TAAATATAATATTTAAATTTATTTATATCATTTTTAAAAAAC
1 TAAATATAATATTCAAATTTATTTATATCATTTTAAAAAAAC
54421 TAAATATAATATTCAAATTTATTTATATCATTTTAAAAAAAC
1 TAAATATAATATTCAAATTTATTTATATCATTTTAAAAAAAC
54463 GATCATAAAC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.45
Consensus pattern (42 bp):
TAAATATAATATTCAAATTTATTTATATCATTTTAAAAAAAC
Found at i:54751 original size:29 final size:26
Alignment explanation
Indices: 54704--54761 Score: 73
Period size: 26 Copynumber: 2.1 Consensus size: 26
54694 AATACTTTAT
54704 ATTTATACTACTATTAATAATAAT-AA
1 ATTTATACTACTATTAATAA-AATGAA
54730 ATTTATACTACTATAATAAATAAAATGAA
1 ATTTATACTACTAT--T-AATAAAATGAA
54759 ATT
1 ATT
54762 GTTGTAATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
26 14 0.50
28 4 0.14
29 10 0.36
ACGTcount: A:0.52, C:0.07, G:0.02, T:0.40
Consensus pattern (26 bp):
ATTTATACTACTATTAATAAAATGAA
Found at i:76734 original size:18 final size:18
Alignment explanation
Indices: 76711--76747 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
76701 TAATGAGAAG
76711 ACCATGAAAAGTATGCAA
1 ACCATGAAAAGTATGCAA
*
76729 ACCATGAAAGGTATGCAA
1 ACCATGAAAAGTATGCAA
76747 A
1 A
76748 TAAAGAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.49, C:0.16, G:0.19, T:0.16
Consensus pattern (18 bp):
ACCATGAAAAGTATGCAA
Found at i:86253 original size:325 final size:324
Alignment explanation
Indices: 85162--86931 Score: 1456
Period size: 323 Copynumber: 5.3 Consensus size: 324
85152 TTCCCAATTT
* * * * * * * *
85162 TTTTTCCCGAATTAAATTCTAATTAAATAGAAACAAGATTCAAATTCTCCTAAAAACAAATGCTT
1 TTTTTCCCGAGTTTATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTT
* * * * * *
85227 AAATCGAATGTGGCTAGGATTTGGCT-CGATGAATATAGATATTTCAAGGAGTCTATATACCAAA
66 AATTCCAATGTGGCTAAGATTTGGTTAC-ATGAATATAGATATTTCAAGGAGTATTTATACCAAA
* *
85291 AATCATGCAAAACTGAGCCGGGG-CCCAAGAACGCATTTTTAGCCAAAAACTGTGAT-G----TA
130 AATCATGCAAAACTGAGCCGGGGCCCCGA-AACGCATTTTTAGCCAAAAACCGTGATGGTTAATA
* * * *
85350 CACGATTTCAGCTAAAATTTTGCAAAAATTGAA-CCGAAAAATTTTTTTCTCAATTTTTTTTGCC
194 CATGATTTCGGCTAAAATTTTGCAAAAACT-AACCCGAAAAA-TTTTTCCTCAA-TTTTTTTGCC
* * * * *
85414 AAAATACTCA-AAAAAATATATAATTCAACGCCAAAAAATTTGAAGAATTTT-TC-ACGCTTCTA
256 ACAATACTCAGAAAAAATATATAATTCAACGCCAAAAAAATTGAAGAGTTTTCTCTA--TTTATA
85476 ATATCG
319 ATATCG
85482 TTTTTCTTTTTTTTCCCGAGTTTATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAA
1 ---------TTTTTCCCGAGTTTATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAA
* * * * *
85547 CAAATCCTTAATTCCAATGTGGTTGAGATTGGGTTAAATGAATATAGATATTTGAAGGAGTATTT
57 CAAATCCTTAATTCCAATGTGGCTAAGATTTGGTTACATGAATATAGATATTTCAAGGAGTATTT
* * *
85612 ATACCAAAAATCATGTAAAACTGAGCCGGGGACCCCGAAACGAATTTTAAGCCAAAAACCGTGAT
122 ATACCAAAAATCATGCAAAACTGAGCCGGGG-CCCCGAAACGCATTTTTAGCCAAAAACCGTGAT
* * * *
85677 GGTGAGTACATGATTTC-G-----A--TT--AAAAACTGAA-CCG-AAAATTTCTTTCTCAA-AT
186 GGTTAATACATGATTTCGGCTAAAATTTTGCAAAAACT-AACCCGAAAAATTT-TTCCTCAATTT
* * * *
85729 TTTTGCCACAATACTCTG-AAAAATTTAATAATTCAACACCAAAAAGATTGAAGAGTTTT-TCAT
249 TTTTGCCACAATACTCAGAAAAAATAT-ATAATTCAACGCCAAAAAAATTGAAGAGTTTTCTC--
* * *
85792 TTTTCTAATAAAGTTTTTCCA
311 TATT-T-AT-AA---TAT-CG
* * *
85813 TTTTTCCCCGAATTAAATTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCT
1 TTTTT-CCCGAGTTTATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCT
* * * * ** * * * * * * * **
85878 TAAATCGAATATGACTTGGATTTAGCT-CGAAGAAAATAGATATATCAAGGAGTCTATACGCCAA
65 TAATTCCAATGTGGCTAAGATTTGGTTAC-ATGAATATAGATATTTCAAGGAGTATTTATACCAA
* * *
85942 TAATCATGCAAAACTGAGCCGGGGCCTCGAAACGCGTTTTTAGCCAAAAACCGTGATGGTTAATA
129 AAATCATGCAAAACTGAGCCGGGGCCCCGAAACGCATTTTTAGCCAAAAACCGTGATGGTTAATA
*
86007 CATGATTTCGGCTAAAATTTTTCAAAAACTAACCCGAAAAATTTTTCCTCAATTTTTTTTGCCAC
194 CATGATTTCGGCTAAAATTTTGCAAAAACTAACCCGAAAAATTTTTCCTCAA-TTTTTTTGCCAC
* *
86072 AATACTCAGAAAAATATATATAATTCAACGCCAAAAAAATTAAAGATGTTTTCTCTATTT-TGAT
258 AATACTCAGAAAAA-ATATATAATTCAACGCCAAAAAAATTGAAGA-GTTTTCTCTATTTATAAT
86136 ATCG
321 ATCG
* * * * *
86140 TTTTT-CTGAGTTTATTTCTAATTAAATCGAACCAAGATTTAGATGCACGTACAAACAAATCCTT
1 TTTTTCCCGAGTTTATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTT
* *
86204 AATTCCAATGTGGCTAAGATTTTGTTACATGAATATAGGTATTTCAAGGAGTATTTATACCAAAA
66 AATTCCAATGTGGCTAAGATTTGGTTACATGAATATAGATATTTCAAGGAGTATTTATACCAAAA
* * * * *
86269 ATCAAGCAAAACTGAGCCGGGGCCCCGAAATGAATTTTAAGCCAAAAACAGTGATGATTAGTACA
131 ATCATGCAAAACTGAGCCGGGGCCCCGAAACGCATTTTTAGCCAAAAAC-----CG--T-G---A
* * * *
86334 TGGTTTCGACTAAAAACTGACTCGATTTCGGCCAAAATTTTGCAAAAAATGACCC-AAAAATTTT
185 TGG--T----T-AATAC--A-T-GATTTCGGCTAAAATTTTGCAAAAACTAACCCGAAAAATTTT
* *
86398 TCCTTAATTTTTTTGCCACAATACTCAGAAAAAAAAAATATATAATTCAACGCCATAAAAATTGA
239 TCCTCAATTTTTTTGCCACAATACTCAG----AAAAAATATATAATTCAACGCCAAAAAAATTGA
* *
86463 AGAGTTTTTCCCACTTCTGATATTAT-TTTTCG
300 AGAG-TTTT----C-TCT-AT-TTATAATATCG
* *
86495 TTTTTTTTTGCCCGAGTTTATTTCTAATTAAATCGAAACAAGATTCAGATTCTTGTAAAAACAAA
1 ----TTTTT-CCCGAGTTTATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAA
* * * * *
86560 TCCTTAATTCCAACGTGGCTGAGATTTGGTTAGATGAATATAGATAATTCAAGGAGTGTTTATAC
61 TCCTTAATTCCAATGTGGCTAAGATTTGGTTACATGAATATAGATATTTCAAGGAGTATTTATAC
* * *
86625 CAAAAATCATGCAAAACTGATCCGGGGCCCCGGAACGC-TTTTTAAGCCAAAAACCGTGAAGGTT
126 CAAAAATCATGCAAAACTGAGCCGGGGCCCCGAAACGCATTTTT-AGCCAAAAACCGTGATGGTT
* * * * * *
86689 AATATACGATTACGGCTAAAATTTTGCAAAAACTTACCCGGAAAATATTTT--ACAATTTTTTTG
190 AATACATGATTTCGGCTAAAATTTTGCAAAAACTAACCCGAAAAAT-TTTTCCTCAATTTTTTTG
* * * * *
86752 CCACAATACTCAGAAAAAATATATAATTAAACTCCAAAAAAATCGAAGAGTTTT-TC-ACGCTTC
254 CCACAATACTCAGAAAAAATATATAATTCAACGCCAAAAAAATTGAAGAGTTTTCTCTA--TTTA
86815 TAATATCG
317 TAATATCG
* * *
86823 -TTTTCCTTTTTTTTTCGAGTTGATTTATAATTAAATCGAAACAAGATTCGGATGCTCGTAAAAA
1 TTTTTCC---------CGAGTTTATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAA
* * *
86887 CAAATCTTTAATTCCATTGTGGCTGAA-ATTTGGTTAGATGAATAT
57 CAAATCCTTAATTCCAATGTGGCT-AAGATTTGGTTACATGAATAT
86932 TGTGGCTGAA
Statistics
Matches: 1171, Mismatches: 171, Indels: 196
0.76 0.11 0.13
Matches are distributed among these distances:
322 74 0.06
323 160 0.14
324 13 0.01
325 153 0.13
326 3 0.00
327 13 0.01
328 9 0.01
329 132 0.11
330 29 0.02
331 92 0.08
332 20 0.02
333 8 0.01
334 24 0.02
335 74 0.06
336 12 0.01
337 2 0.00
338 1 0.00
339 51 0.04
340 5 0.00
341 5 0.00
342 1 0.00
343 7 0.01
344 1 0.00
345 22 0.02
346 16 0.01
347 29 0.02
348 34 0.03
349 5 0.00
350 3 0.00
352 1 0.00
353 4 0.00
354 3 0.00
355 6 0.01
356 2 0.00
359 5 0.00
360 4 0.00
361 148 0.13
ACGTcount: A:0.37, C:0.17, G:0.14, T:0.32
Consensus pattern (324 bp):
TTTTTCCCGAGTTTATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTT
AATTCCAATGTGGCTAAGATTTGGTTACATGAATATAGATATTTCAAGGAGTATTTATACCAAAA
ATCATGCAAAACTGAGCCGGGGCCCCGAAACGCATTTTTAGCCAAAAACCGTGATGGTTAATACA
TGATTTCGGCTAAAATTTTGCAAAAACTAACCCGAAAAATTTTTCCTCAATTTTTTTGCCACAAT
ACTCAGAAAAAATATATAATTCAACGCCAAAAAAATTGAAGAGTTTTCTCTATTTATAATATCG
Found at i:89246 original size:334 final size:333
Alignment explanation
Indices: 86988--90854 Score: 4081
Period size: 334 Copynumber: 11.8 Consensus size: 333
86978 TCGGGTCAGT
* * * * * * *
86988 TTTTAGCTGAAATCATATACTT-ACCATCACAGTTTTTGGCTTAAAAT-TCGTTTCGAGGTCCC-
1 TTTTAGCCGAAATCATGTA-TTAACCATCACGGTTTTTGGC-TAAAATCGCGTTCCGGGGCCCCG
* ** * * * * ** *
87050 GCTCAGTTTTGCATGATTTTTGGTATAAATACTCCTTGAAATATGTATATTCATCTAACCATAT-
64 GCTCAGTTCTGCATGATTTTTGGCGTATAGACTCCTTGAAATATCTATATTCATCGAGTCAAATC
* * * *
87114 TTCAGCCACATTGGAATTAAAGATTTGTTTTTACGAGCATCTAAATCTT-TGTTCGATTTAATTA
129 CT-AGCCACACTCGAATTAAAGATTTGTTTTTACGAGCATCTGAATCTTGT-TTCGATTTAATTA
* * * * * * ** * *
87178 AAAATAAACTCG-G-AAAAAAAGGGAAAACGATATCGGAAGCGTGAAAAACACTTCAA--ATTTT
192 GAATTTAATTCGAGCAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAACTCTTCAATTTTTTT
87239 GGCGTTAAATTATATATTTTTTTCTGAGTATTGTGGCAAAAAAAATTGAGGAAAAATTTTTCGGG
257 GGCGTTAAATTATATA-TTTTTTCTGAGTATTGTGGC-AAAAAAATTGAGGAAAAA-TTTTCGGG
87304 TCAGTTTTTGCAAAA
319 TCAGTTTTTGCAAAA
* *
87319 TTTTAGCCGAAATCGTTTATTAACCATCACGGTTTTTGGCTAAAATCGCGTTCCGGGGCCCCGGC
1 TTTTAGCCGAAATCATGTATTAACCATCACGGTTTTTGGCTAAAATCGCGTTCCGGGGCCCCGGC
* *
87384 TCAGTTCTGCATGATTTTTGGCATATAGACTCCTTGAAATATCTATATTCATTGAGTCAAATCCT
66 TCAGTTCTGCATGATTTTTGGCGTATAGACTCCTTGAAATATCTATATTCATCGAGTCAAATCCT
* * * *
87449 AGTCACACTCGAATTAAGGATTTGTTATTACGAGCATCTGAACCTTGTTTCGATTTAATTAGAAT
131 AGCCACACTCGAATTAAAGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAT
*
87514 TTAATTCGAGCAAAAAAATGAAAAAACGATATTAGAAGCGTGAAAAACTCTTCAATTTTTTTGGC
196 TTAATTCGAGC-AAAAAATGGAAAAACGATATTAGAAGCGTGAAAAACTCTTCAATTTTTTTGGC
*
87579 GTTAAATTATATATTTTTTCCTGAGTATTGTGGCAAAAAAATTGAGGAAAAATTTTTCGGGTTAG
260 GTTAAATTATATATTTTTT-CTGAGTATTGTGGCAAAAAAATTGAGGAAAAA-TTTTCGGGTCAG
*
87644 TTTTTGTAAAA
323 TTTTTGCAAAA
* *
87655 TTTTAGCCGAAATC--G---------T----G-TTTTGACTAAAAACGCGTTCCGGGGCCCCGGC
1 TTTTAGCCGAAATCATGTATTAACCATCACGGTTTTTGGCTAAAATCGCGTTCCGGGGCCCCGGC
*
87704 TCAGTTCTGCATGATTTTTGGCGTATAGACTCCTTGAAATATGTATATTCATCGAGTCAAATCCT
66 TCAGTTCTGCATGATTTTTGGCGTATAGACTCCTTGAAATATCTATATTCATCGAGTCAAATCCT
* **
87769 AGCCAGACTCGAATTAAAGATTTGTTTTTATAAGCATCTGAATCTTGTTTCGATTTAATTAGAAT
131 AGCCACACTCGAATTAAAGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAT
* * *
87834 TTAATTCGAGCAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAACCCTTCAATGTTTTTGGTG
196 TTAATTCGAGCAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAACTCTTCAATTTTTTTGGCG
* * * * * *
87899 TTGAATTAT-TTTATTTTTCAGAGTATTGTGGCAAAAGAATTCAGAAAGAAATTTTCGGGTCAGT
261 TTAAATTATATAT-TTTTTCTGAGTATTGTGGCAAAAAAATTGAGGAA-AAATTTTCGGGTCAGT
87963 TTTT-----A
324 TTTTGCAAAA
* * * *
87968 ----A-CCG-AATCA--TA-T-ACCATCACGGTTTTTGGCTTAAAAT-TCGTTTCGGGGTCCCGA
1 TTTTAGCCGAAATCATGTATTAACCATCACGGTTTTTGGC-TAAAATCGCGTTCCGGGGCCCCGG
* ** * * * * ** *
88022 CTCAGTTTTGCATGATTTTTGGTATAAATACTCCTTGAAATATATATATTCATCTAACCAAAT-T
65 CTCAGTTCTGCATGATTTTTGGCGTATAGACTCCTTGAAATATCTATATTCATCGAGTCAAATCC
* * * *
88086 TCAGCCACATTGGAATTAAAGATTTGTTTTTACAAGCATCTAAATCTTGTTTCGATTTAATTA-A
130 T-AGCCACACTCGAATTAAAGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGA
* * * * * ** * *
88150 A--AAACTCG-GTAAAAAAAGGGAAAACGATACCAGAAGTGTG-AAAACTCTTCAATTTTTTTGA
194 ATTTAATTCGAGCAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAACTCTTCAATTTTTTTGG
* *
88211 CGTTAAATTATATATTTTTTCTGAGTATTGTGGCAAAAAAATTGAGCAAATATTTTTCGGGTCAG
259 CGTTAAATTATATATTTTTTCTGAGTATTGTGGCAAAAAAATTGAGGAAA-AATTTTCGGGTCAG
88276 TTTTTGCAAAA
323 TTTTTGCAAAA
* * * * *
88287 TTTTAGTCGAAATCGTGTATTAACTATCACGGTTTTTAGCTAAAATCGCGTTCCGAGG-CCCGAG
1 TTTTAGCCGAAATCATGTATTAACCATCACGGTTTTTGGCTAAAATCGCGTTCCGGGGCCCCG-G
* *
88351 CTCAGTTCTGCATGATTTTTGGTGTATAGACTCCTTGAAATATCTATATTCATCGACT-AAATCC
65 CTCAGTTCTGCATGATTTTTGGCGTATAGACTCCTTGAAATATCTATATTCATCGAGTCAAATCC
* *
88415 TAGCCACACTCGAATTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAC
130 TAGCCACACTCGAATTAAAGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAA
* * *
88480 TTTAATTTGAGCAAAAAATGGAAAAACGATATTAGAAGCATGAAAAAAAC-CTTCAATCTTTTTG
195 TTTAATTCGAGCAAAAAATGGAAAAACGATATTAGAAGCGTG--AAAAACTCTTCAATTTTTTTG
* * * * * * * *
88544 GTGTTGAATTATTTAATTTTTCAGACTATTTTGGCAAAAAAATTGAGAAAGAAATTTTCGGGTCA
258 GCGTTAAATTATATATTTTTTCTGAGTATTGTGGCAAAAAAATTGAGGAA-AAATTTTCGGGTCA
88609 G----T------
322 GTTTTTGCAAAA
* * * * ** * *
88611 TTTTAGTCGAAATCATATATGT-----T-ACGGTTTTTGGTTTAAATTTCGTTTCGGGGTCCCGG
1 TTTTAGCCGAAATCATGTAT-TAACCATCACGGTTTTTGGCTAAAATCGCGTTCCGGGGCCCCGG
* * * ** * * * * * ** *
88670 CTTAATTTTGCATGATTTTTGGTATAAATACTCCTTTAAATATTTATATTCATCTAACCAAAT-T
65 CTCAGTTCTGCATGATTTTTGGCGTATAGACTCCTTGAAATATCTATATTCATCGAGTCAAATCC
* * * ** * * *
88734 TCAGCGACA-TTGTAATTAAAGAATTGTTTTTACGAAAATCTAAATCTTGTTTCAATTTAATTAA
130 T-AGCCACACTCG-AATTAAAGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAG
* * * * * **
88798 AAATAAACTT-G-GAAAAAAAAGGGAAAACGATATCGGAAGCGTGAAAAACTCTTCAATTTTTTT
193 AATTTAA-TTCGAGCAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAACTCTTCAATTTTTTT
* *
88861 GGTGTTAAATTATATATTTTTTCTGAGTATTGTAGCAAAAAAATTGAGGAAAAATTTATCGGGTC
257 GGCGTTAAATTATATATTTTTTCTGAGTATTGTGGCAAAAAAATTGAGGAAAAATTT-TCGGGTC
88926 AGTTTTTGCAAAA
321 AGTTTTTGCAAAA
* * * * * * * *
88939 TTTTAGCTGAAATCGTGTATTAACCACCACGCTTTTTGGCTAAAATCGCGTTCCAGGGACTCGGT
1 TTTTAGCCGAAATCATGTATTAACCATCACGGTTTTTGGCTAAAATCGCGTTCCGGGGCCCCGGC
* *
89004 TCAGTTCTGCTTAATTTTTGGCGTATAGACTCCTTGAAATATCTATATTCATCGAGTCAAATCCT
66 TCAGTTCTGCATGATTTTTGGCGTATAGACTCCTTGAAATATCTATATTCATCGAGTCAAATCCT
* *
89069 AGCCACACTCGAATTAAGGATTTGTTATTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAT
131 AGCCACACTCGAATTAAAGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAT
*
89134 TTCATTCGAGCAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAACTCTTCAATTTTTTTGGCG
196 TTAATTCGAGCAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAACTCTTCAATTTTTTTGGCG
* *
89199 TTAAATTATATATTTTTTCTGAGTATTGTGGGAAAAAAATTGAGGAAAAAATTTTCGAGTCAGTT
261 TTAAATTATATATTTTTTCTGAGTATTGTGGCAAAAAAATTGAGG-AAAAATTTTCGGGTCAGTT
89264 TTTGCAAAA
325 TTTGCAAAA
* * *
89273 TTTTAGCCGAAATCGTGTATTAACCATCACGGTTTTTGGTTAAAAACGCGTTCCGGGGCCCCGGC
1 TTTTAGCCGAAATCATGTATTAACCATCACGGTTTTTGGCTAAAATCGCGTTCCGGGGCCCCGGC
*
89338 TCAGTTTTGCATGATTTTTGGCGTATAGACTCCTTGAAATATCTATATTCATCGAGTCAAATCCT
66 TCAGTTCTGCATGATTTTTGGCGTATAGACTCCTTGAAATATCTATATTCATCGAGTCAAATCCT
* * *
89403 AGCCACACTCGAATTAAGGATTTGCTTCTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAT
131 AGCCACACTCGAATTAAAGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAT
* * *
89468 TTAATTCGAGCAAATAATGGAAAAACGATATTAGAAGCGTGAAAAAC-CTTTCAATCTTTTTGGT
196 TTAATTCGAGCAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAACTC-TTCAATTTTTTTGGC
* * * * *
89532 GTTTAATTATTTAATTTTTCAGAGTATTGTGGCAAAAAAATTGAGAAAGAAATTTTCGGGTCAG-
260 GTTAAATTATATATTTTTTCTGAGTATTGTGGCAAAAAAATTGAGGAA-AAATTTTCGGGTCAGT
89596 ---T------
324 TTTTGCAAAA
* * * * *
89597 TTTTAGCCGAAATCATATACTAACCATCACGGTTTTTGGCTTAAAAT-TCGTTTCGGGGTCCCGG
1 TTTTAGCCGAAATCATGTATTAACCATCACGGTTTTTGGC-TAAAATCGCGTTCCGGGGCCCCGG
* * *** * * * ** *
89661 ATCAGTTTTGCATGATTTTTGTTATAAATACTCCTTGAAATATCTATATTCATCTAACCAAAT-T
65 CTCAGTTCTGCATGATTTTTGGCGTATAGACTCCTTGAAATATCTATATTCATCGAGTCAAATCC
* * * * * * ** *
89725 TCAGCCACATTGGAATTAAAG-TTTTTTTTTACGAGCAACTAAATCATGTTTCGATTTAAACAAA
130 T-AGCCACACTCGAATTAAAGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGA
* * * * * * * * *
89789 AATAAACTCG-GAAAAAAATAGGGAAAACTATATCAAAAGCGTGAAAAACTCTTCAAGTTTTTTG
194 ATTTAATTCGAGCAAAAAAT-GGAAAAACGATATTAGAAGCGTGAAAAACTCTTCAATTTTTTTG
* *
89853 GCGTTAAATTATATATTTTTTCTGAGTATTGTGGCAAAAAAATTAAGGAAAAATTTTTCTGGTCA
258 GCGTTAAATTATATATTTTTTCTGAGTATTGTGGCAAAAAAATTGAGGAAAAA-TTTTCGGGTCA
*
89918 GTTTTTGCGAAA
322 GTTTTTGCAAAA
** *
89930 TTTTAGCCGAAATCATG---T----ATCACGGTTTTTGGCTAAAATCGCGTTCCGAAGCCCCAGC
1 TTTTAGCCGAAATCATGTATTAACCATCACGGTTTTTGGCTAAAATCGCGTTCCGGGGCCCCGGC
* *
89988 TCAGTTCTGCATGATTTTTGGCGTATAGACTCCTCGAAATATCTATATTCATCGGGTCAAATCCT
66 TCAGTTCTGCATGATTTTTGGCGTATAGACTCCTTGAAATATCTATATTCATCGAGTCAAATCCT
* * * * *
90053 AGCCACACTCGAATTAAGGAATTATTTGTACGAGAATCTGAATCTTGTTTCGATTTAATTAGAAT
131 AGCCACACTCGAATTAAAGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAT
* * * * * *
90118 TTAATTCGGGTAAAAAATGGAAAAACGATATTAGATGCGTG-AAAACCCTTCAATCTTTTTGGTG
196 TTAATTCGAGCAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAACTCTTCAATTTTTTTGGCG
* * * * * *
90182 TTGAATTATTTAATTTTTCAGAGTATTGTCGCAAAAAAATTGAGAAAGAAATTTTCGGGTC----
261 TTAAATTATATATTTTTTCTGAGTATTGTGGCAAAAAAATTGAGGAA-AAATTTTCGGGTCAGTT
*
90243 --TG----T
325 TTTGCAAAA
* * * * *
90246 TTTTAGCCGAAATCATATACTAACCATCACGGTTTTTGGCTTAAAAT-TCGTTTCGGGGTCCCGG
1 TTTTAGCCGAAATCATGTATTAACCATCACGGTTTTTGGC-TAAAATCGCGTTCCGGGGCCCCGG
* * ** * * * ** *
90310 CTCAGTTTTGCAAGATTTTTGGTATAAATACTCCTTGAAATATCTATATTCATCTAACCAAAT-T
65 CTCAGTTCTGCATGATTTTTGGCGTATAGACTCCTTGAAATATCTATATTCATCGAGTCAAATCC
* * * * *
90374 TCAGCCACATTGGAATTAAAGATTTGTTTTTATGAGCATCTAAATCTTGTTTCGATTTAATTAAA
130 T-AGCCACACTCGAATTAAAGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGA
* * * * * * * *
90439 AATAAACTCG-G-AAAAAAAGAATGAAAACGATATCAGAAGTGTGAAAAACTCTTCAATTTTTGT
194 ATTTAATTCGAGCAAAAAATGGA--AAAACGATATTAGAAGCGTGAAAAACTCTTCAATTTTTTT
* * * *
90502 GGCGTTAAATTATATATTATTTCAGAGTATTGTGGCAAAAGAATTGAGGAAAAATTTTTTGGGTC
257 GGCGTTAAATTATATATTTTTTCTGAGTATTGTGGCAAAAAAATTGAGGAAAAA-TTTTCGGGTC
*
90567 AGTTTTTGCGAAA
321 AGTTTTTGCAAAA
* * * *
90580 TTTTAGCCGAAATCATGTATTAACCATTACGGTTTTTGGTTAAAAACGCGTTCCGAGGCCCCGGC
1 TTTTAGCCGAAATCATGTATTAACCATCACGGTTTTTGGCTAAAATCGCGTTCCGGGGCCCCGGC
90645 TCAGTTCTGCATGATTTTTGGCGTATAGACTCCTTG-AA-A--TATATTCATCGAGTCAAATCCT
66 TCAGTTCTGCATGATTTTTGGCGTATAGACTCCTTGAAATATCTATATTCATCGAGTCAAATCCT
* * *
90706 AGCCACACTCGAATTAAGGATTTGCTTCTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAT
131 AGCCACACTCGAATTAAAGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAT
* * *
90771 TTAATTCGAGCAAATAATGGAAAAACGATATTAGAAGCGTGAAAAAC-CTTTCAATCTTTTTGGT
196 TTAATTCGAGCAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAACTC-TTCAATTTTTTTGGC
* * *
90835 GTTTAATTATCTAATTTTTC
260 GTTAAATTATATATTTTTTC
90855 AGTGTATTAT
Statistics
Matches: 2932, Mismatches: 469, Indels: 271
0.80 0.13 0.07
Matches are distributed among these distances:
307 4 0.00
308 3 0.00
309 1 0.00
313 2 0.00
314 76 0.03
315 28 0.01
316 21 0.01
317 12 0.00
318 111 0.04
319 297 0.10
320 232 0.08
321 11 0.00
322 13 0.00
323 291 0.10
324 215 0.07
325 17 0.01
326 161 0.05
327 66 0.02
328 95 0.03
329 77 0.03
330 143 0.05
331 50 0.02
332 149 0.05
333 158 0.05
334 554 0.19
335 51 0.02
336 60 0.02
337 34 0.01
ACGTcount: A:0.32, C:0.15, G:0.17, T:0.36
Consensus pattern (333 bp):
TTTTAGCCGAAATCATGTATTAACCATCACGGTTTTTGGCTAAAATCGCGTTCCGGGGCCCCGGC
TCAGTTCTGCATGATTTTTGGCGTATAGACTCCTTGAAATATCTATATTCATCGAGTCAAATCCT
AGCCACACTCGAATTAAAGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAT
TTAATTCGAGCAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAACTCTTCAATTTTTTTGGCG
TTAAATTATATATTTTTTCTGAGTATTGTGGCAAAAAAATTGAGGAAAAATTTTCGGGTCAGTTT
TTGCAAAA
Found at i:90116 original size:650 final size:650
Alignment explanation
Indices: 86944--90862 Score: 4144
Period size: 652 Copynumber: 6.0 Consensus size: 650
86934 TGGCTGAAAC
* *
86944 GAGTATTGTGGCAAAAATATTGAGAAAGAAATTTTCGGGTCAGTTTTTAGCTGAAATCATATACT
1 GAGTATTGTGGCAAAAAAATTGAGAAA-AAATTTTCGGGTCAGTTTTTAGCCGAAATCATATACT
* * * * * *
87009 TACCATCACAGTTTTTGGCTTAAAATTCGTTTCGAGGTCCC-GCTCAGTTTTGCATGATTTTTGG
65 AACCATCACGGTTTTTGGCTTAAAATGCGTTCCGGGGTCCCGGCTCAGTTCTGCATGATTTTTGG
* * * * * *
87073 TATAAATACTCCTTGAAATATGTATATTCATCTAACCATAT-TTCAGCCACATTGGAATTAAAGA
130 TATAAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCCT-AGCCACACTCGAATTAAAGA
*
87137 TTTGTTTTTACGAGCATCTAAATCTT-TGTTCGATTTAATTAAAAATAAACTCG-G-AAAAAAAG
194 TTTGTTTTTACGAGCATCTAAATCTTGT-TTCGATTTAATTAAAAATAAACTCGAGCAAAAAATG
* * * *
87199 GGAAAACGATATCGGAAGCGTGAAAAACACTTCAA-ATTTTGGCGTTAAATTATATATTTTTTTC
258 GAAAAACGATATCAGAAGCGTGAAAAACTCTTCAATTTTTTGGCGTTAAATTATATA-TTTTTTC
* * *
87263 TGAGTATTGTGGCAAAAAAAATTGAGGAAAAATTTTTCGGGTCAGTTTTTGCAAAATTTTAGCCG
322 AGAGTATTGTGGC-AAAAAAATTGAGGAAAAAATTTTCGGGTCAGTTTTTGCGAAATTTTAGCCG
87328 AAATCGTTTAT-TAACCATCACGGTTTTTGGCTAAAATCGCGTTCCGGGGCCCCGGCTCAGTTCT
386 AAATC----ATGT---CATCACGGTTTTTGGCTAAAATCGCGTTCCGGGGCCCCGGCTCAGTTCT
* *
87392 GCATGATTTTTGGCATATAGACTCCTTGAAATATCTATATTCATTGAGTCAAATCCTAGTCACAC
444 GCATGATTTTTGGCATATAGACTCCTTGAAATATCTATATTCATCGAGTCAAATCCTAGCCACAC
*
87457 TCGAATTAAGGATTTGTTAT-TACGAGCATCTGAACCTTGTTTCGATTTAATTAGAATTTAATTC
509 TCGAATTAAGGATTTGTT-TCTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAATTTAATTC
* * *
87521 GAGCAAAAAAATGAAAAAACGATATTAGAAGCGTGAAAAACTCTTCAATTTTTTTGGCGTTAAAT
573 GAGC-AAAAAATGGAAAAACGATATTAGAAGCGTGAAAAACTCTTCAATCTTTTTGGTGTTAAAT
* *
87586 TATATATTTTTTCCT
637 TATATAATTTTT-CA
* * ** ** ** *
87601 GAGTATTGTGGCAAAAAAATTGAGGAAAAATTTTTCGGGTTAGTTTTT-G-TAAAATTTTAGCCG
1 GAGTATTGTGGCAAAAAAATTGA-GAAAAAATTTTCGGGTCAGTTTTTAGCCGAAATCATATACT
* * * *
87664 AA--AT--C-GTGTTTTGACTAAAAACGCGTTCCGGGGCCCCGGCTCAGTTCTGCATGATTTTTG
65 AACCATCACGGT-TTTTGGCTTAAAATGCGTTCCGGGGTCCCGGCTCAGTTCTGCATGATTTTTG
** * * * ** *
87724 GCGTATAGACTCCTTGAAATATGTATATTCATCGAGTCAAATCCTAGCCAGACTCGAATTAAAGA
129 GTATAAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCCTAGCCACACTCGAATTAAAGA
** * * * * *
87789 TTTGTTTTTATAAGCATCTGAATCTTGTTTCGATTTAATTAGAATTTAATTCGAGCAAAAAATGG
194 TTTGTTTTTACGAGCATCTAAATCTTGTTTCGATTTAATTAAAAATAAACTCGAGCAAAAAATGG
* * * * *
87854 AAAAACGATATTAGAAGCGTGAAAAACCCTTCAATGTTTTTGGTGTTGAATTAT-TTTATTTTTC
259 AAAAACGATATCAGAAGCGTGAAAAACTCTTCAAT-TTTTTGGCGTTAAATTATATAT-TTTTTC
* *
87918 AGAGTATTGTGGCAAAAGAATTCA-GAAAGAAATTTTCGGGTCAGTTTTT-----A----A-CCG
322 AGAGTATTGTGGCAAAAAAATTGAGGAAA-AAATTTTCGGGTCAGTTTTTGCGAAATTTTAGCCG
* * * * * *
87972 -AATCATATACCATCACGGTTTTTGGCTTAAAAT-TCGTTTCGGGGTCCCGACTCAGTTTTGCAT
386 AAATCATGT--CATCACGGTTTTTGGC-TAAAATCGCGTTCCGGGGCCCCGGCTCAGTTCTGCAT
* * * * * ** * * *
88035 GATTTTTGGTATAAATACTCCTTGAAATATATATATTCATCTAACCAAAT-TTCAGCCACATTGG
448 GATTTTTGGCATATAGACTCCTTGAAATATCTATATTCATCGAGTCAAATCCT-AGCCACACTCG
* * * * * * *
88099 AATTAAAGATTTGTTTTTACAAGCATCTAAATCTTGTTTCGATTTAATTA-AA--AAACTCG-GT
512 AATTAAGGATTTGTTTCTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAATTTAATTCGAGC
* * ** * * **
88160 AAAAAAAGGGAAAACGATACCAGAAGTGTG-AAAACTCTTCAATTTTTTTGACGTTAAATTATAT
577 AAAAAATGGAAAAACGATATTAGAAGCGTGAAAAACTCTTCAATCTTTTTGGTGTTAAATTATAT
* *
88224 ATTTTTTCT
642 AATTTTTCA
* * *
88233 GAGTATTGTGGCAAAAAAATTGAGCAAATATTTTTCGGGTCAGTTTTTGCAAAATTTTAGTCGAA
1 GAGTATTGTGGCAAAAAAATTGAG-AAAAAATTTTCGGGTCAG----T------TTTTAGCCGAA
* * * * * *
88298 ATCGTGTATTAACTATCACGGTTTTTAGC-TAAAATCGCGTTCCGAGG-CCCGAGCTCAGTTCTG
55 ATCATATACTAACCATCACGGTTTTTGGCTTAAAAT-GCGTTCCGGGGTCCCG-GCTCAGTTCTG
* * * *
88361 CATGATTTTTGGTGTATAGACTCCTTGAAATATCTATATTCATC-GACTAAATCCTAGCCACACT
118 CATGATTTTTGGTATAAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCCTAGCCACACT
* * * ** * * *
88425 CGAATTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGACTTTAATTTGA
183 CGAATTAAAGATTTGTTTTTACGAGCATCTAAATCTTGTTTCGATTTAATTAAAAATAAACTCGA
* * * *
88490 GCAAAAAATGGAAAAACGATATTAGAAGCATGAAAAAAAC-CTTCAATCTTTTTGGTGTTGAATT
248 GCAAAAAATGGAAAAACGATATCAGAAGCGTG--AAAAACTCTTCAAT-TTTTTGGCGTTAAATT
* * * *
88554 ATTTAATTTTTCAGACTATTTTGGCAAAAAAATTGA-GAAAGAAATTTTCGGGTCAGTTTTTAGT
310 ATATATTTTTTCAGAGTATTGTGGCAAAAAAATTGAGGAAA-AAATTTTCGGGTCAGTTTTT-G-
* * * ** * *
88618 CGAAA---T---C-ATAT-ATGT--T-ACGGTTTTTGGTTTAAATTTCGTTTCGGGGTCCCGGCT
372 CGAAATTTTAGCCGAAATCATGTCATCACGGTTTTTGGCTAAAATCGCGTTCCGGGGCCCCGGCT
* * * * * * * * * ** *
88672 TAATTTTGCATGATTTTTGGTATAAATACTCCTTTAAATATTTATATTCATCTAACCAAAT-TTC
437 CAGTTCTGCATGATTTTTGGCATATAGACTCCTTGAAATATCTATATTCATCGAGTCAAATCCT-
* * * * * ** * * *
88736 AGCGACA-TTGTAATTAAAGAATTGTTTTTACGAAAATCTAAATCTTGTTTCAATTTAATTAAAA
501 AGCCACACTCG-AATTAAGGATTTGTTTCTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAA
* * * * * ** *
88800 ATAAACTT-G-GAAAAAAAAGGGAAAACGATATCGGAAGCGTGAAAAACTCTTCAATTTTTTTGG
565 TTTAA-TTCGAGCAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAACTCTTCAATCTTTTTGG
* *
88863 TGTTAAATTATATATTTTTTCT
629 TGTTAAATTATATAATTTTTCA
* * *
88885 GAGTATTGTAGCAAAAAAATTGAGGAAAAATTTATCGGGTCAGTTTTTGCAAAATTTTAGCTGAA
1 GAGTATTGTGGCAAAAAAATTGAGAAAAAATTT-TCGGGTCAG----T------TTTTAGCCGAA
* * * * * * * * *
88950 ATCGTGTATTAACCACCACGCTTTTTGGC-TAAAATCGCGTTCCAGGGACTCGGTTCAGTTCTGC
55 ATCATATACTAACCATCACGGTTTTTGGCTTAAAAT-GCGTTCCGGGGTCCCGGCTCAGTTCTGC
* * ** * * **
89014 TTAATTTTTGGCGTATAGACTCCTTGAAATATCTATATTCATCGAGTCAAATCCTAGCCACACTC
119 ATGATTTTTGGTATAAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCCTAGCCACACTC
* * * * * ** *
89079 GAATTAAGGATTTGTTATTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAATTTCATTCGAG
184 GAATTAAAGATTTGTTTTTACGAGCATCTAAATCTTGTTTCGATTTAATTAAAAATAAACTCGAG
*
89144 CAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAACTCTTCAATTTTTTTGGCGTTAAATTATA
249 CAAAAAATGGAAAAACGATATCAGAAGCGTGAAAAACTCTTCAA-TTTTTTGGCGTTAAATTATA
* * * *
89209 TATTTTTTCTGAGTATTGTGGGAAAAAAATTGAGGAAAAAATTTTCGAGTCAGTTTTTGCAAAAT
313 TATTTTTTCAGAGTATTGTGGCAAAAAAATTGAGGAAAAAATTTTCGGGTCAGTTTTTGCGAAAT
* * *
89274 TTTAGCCGAAATCGTGTATTAACCATCACGGTTTTTGGTTAAAAACGCGTTCCGGGGCCCCGGCT
378 TTTAGCCGAAATCATG---T---CATCACGGTTTTTGGCTAAAATCGCGTTCCGGGGCCCCGGCT
* *
89339 CAGTTTTGCATGATTTTTGGCGTATAGACTCCTTGAAATATCTATATTCATCGAGTCAAATCCTA
437 CAGTTCTGCATGATTTTTGGCATATAGACTCCTTGAAATATCTATATTCATCGAGTCAAATCCTA
*
89404 GCCACACTCGAATTAAGGATTTGCTTCTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAATT
502 GCCACACTCGAATTAAGGATTTGTTTCTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAATT
*
89469 TAATTCGAGCAAATAATGGAAAAACGATATTAGAAGCGTGAAAAAC-CTTTCAATCTTTTTGGTG
567 TAATTCGAGCAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAACTC-TTCAATCTTTTTGGTG
* *
89533 TTTAATTATTTAATTTTTCA
631 TTAAATTATATAATTTTTCA
89553 GAGTATTGTGGCAAAAAAATTGAGAAAGAAATTTTCGGGTCAGTTTTTAGCCGAAATCATATACT
1 GAGTATTGTGGCAAAAAAATTGAGAAA-AAATTTTCGGGTCAGTTTTTAGCCGAAATCATATACT
* * * * *
89618 AACCATCACGGTTTTTGGCTTAAAATTCGTTTCGGGGTCCCGGATCAGTTTTGCATGATTTTTGT
65 AACCATCACGGTTTTTGGCTTAAAATGCGTTCCGGGGTCCCGGCTCAGTTCTGCATGATTTTTGG
* * * *
89683 TATAAATACTCCTTGAAATATCTATATTCATCTAACCAAAT-TTCAGCCACATTGGAATTAAAG-
130 TATAAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCCT-AGCCACACTCGAATTAAAGA
* * * ** *
89746 TTTTTTTTTACGAGCAACTAAATCATGTTTCGATTTAAACAAAAATAAACTCG-GAAAAAAATAG
194 TTTGTTTTTACGAGCATCTAAATCTTGTTTCGATTTAATTAAAAATAAACTCGAGCAAAAAAT-G
* * *
89810 GGAAAACTATATCAAAAGCGTGAAAAACTCTTCAAGTTTTTTGGCGTTAAATTATATATTTTTTC
258 GAAAAACGATATCAGAAGCGTGAAAAACTCTTCAA-TTTTTTGGCGTTAAATTATATATTTTTTC
* * * *
89875 TGAGTATTGTGGCAAAAAAATTAAGGAAAAATTTTTCTGGTCAGTTTTTGCGAAATTTTAGCCGA
322 AGAGTATTGTGGCAAAAAAATTGAGGAAAAAATTTTCGGGTCAGTTTTTGCGAAATTTTAGCCGA
** *
89940 AATCATGT-ATCACGGTTTTTGGCTAAAATCGCGTTCCGAAGCCCCAGCTCAGTTCTGCATGATT
387 AATCATGTCATCACGGTTTTTGGCTAAAATCGCGTTCCGGGGCCCCGGCTCAGTTCTGCATGATT
* * *
90004 TTTGGCGTATAGACTCCTCGAAATATCTATATTCATCGGGTCAAATCCTAGCCACACTCGAATTA
452 TTTGGCATATAGACTCCTTGAAATATCTATATTCATCGAGTCAAATCCTAGCCACACTCGAATTA
* * * * * *
90069 AGGAATTATTTGTACGAGAATCTGAATCTTGTTTCGATTTAATTAGAATTTAATTCGGGTAAAAA
517 AGGATTTGTTTCTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAATTTAATTCGAGCAAAAA
* * * *
90134 ATGGAAAAACGATATTAGATGCGTG-AAAACCCTTCAATCTTTTTGGTGTTGAATTATTTAATTT
582 ATGGAAAAACGATATTAGAAGCGTGAAAAACTCTTCAATCTTTTTGGTGTTAAATTATATAATTT
90198 TTCA
647 TTCA
* *
90202 GAGTATTGTCGCAAAAAAATTGAGAAAGAAATTTTCGGGTCTGTTTTTAGCCGAAATCATATACT
1 GAGTATTGTGGCAAAAAAATTGAGAAA-AAATTTTCGGGTCAGTTTTTAGCCGAAATCATATACT
* * * *
90267 AACCATCACGGTTTTTGGCTTAAAATTCGTTTCGGGGTCCCGGCTCAGTTTTGCAAGATTTTTGG
65 AACCATCACGGTTTTTGGCTTAAAATGCGTTCCGGGGTCCCGGCTCAGTTCTGCATGATTTTTGG
* * * *
90332 TATAAATACTCCTTGAAATATCTATATTCATCTAACCAAAT-TTCAGCCACATTGGAATTAAAGA
130 TATAAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCCT-AGCCACACTCGAATTAAAGA
* * *
90396 TTTGTTTTTATGAGCATCTAAATCTTGTTTCGATTTAATTAAAAATAAACTCG-G-AAAAAAAGA
194 TTTGTTTTTACGAGCATCTAAATCTTGTTTCGATTTAATTAAAAATAAACTCGAGCAAAAAATGG
* *
90459 ATGAAAACGATATCAGAAGTGTGAAAAACTCTTCAATTTTTGTGGCGTTAAATTATATATTATTT
259 A--AAAACGATATCAGAAGCGTGAAAAACTCTTCAATTTTT-TGGCGTTAAATTATATATTTTTT
* * *
90524 CAGAGTATTGTGGCAAAAGAATTGAGGAAAAATTTTTTGGGTCAGTTTTTGCGAAATTTTAGCCG
321 CAGAGTATTGTGGCAAAAAAATTGAGGAAAAAATTTTCGGGTCAGTTTTTGCGAAATTTTAGCCG
* * * *
90589 AAATCATGTATTAACCATTACGGTTTTTGGTTAAAAACGCGTTCCGAGGCCCCGGCTCAGTTCTG
386 AAATCATG---T---CATCACGGTTTTTGGCTAAAATCGCGTTCCGGGGCCCCGGCTCAGTTCTG
*
90654 CATGATTTTTGGCGTATAGACTCCTTG-AA-A--TATATTCATCGAGTCAAATCCTAGCCACACT
445 CATGATTTTTGGCATATAGACTCCTTGAAATATCTATATTCATCGAGTCAAATCCTAGCCACACT
*
90715 CGAATTAAGGATTTGCTTCTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAATTTAATTCGA
510 CGAATTAAGGATTTGTTTCTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAATTTAATTCGA
* *
90780 GCAAATAATGGAAAAACGATATTAGAAGCGTGAAAAAC-CTTTCAATCTTTTTGGTGTTTAATTA
575 GCAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAACTC-TTCAATCTTTTTGGTGTTAAATTA
*
90844 TCTAATTTTTCA
639 TATAATTTTTCA
*
90856 GTGTATT
1 GAGTATT
90863 ATGG
Statistics
Matches: 2828, Mismatches: 334, Indels: 203
0.84 0.10 0.06
Matches are distributed among these distances:
631 1 0.00
632 41 0.01
633 40 0.01
634 24 0.01
635 1 0.00
636 6 0.00
638 4 0.00
639 139 0.05
640 7 0.00
642 4 0.00
643 5 0.00
644 10 0.00
645 1 0.00
646 2 0.00
647 121 0.04
648 286 0.10
649 252 0.09
650 369 0.13
651 68 0.02
652 371 0.13
653 249 0.09
654 116 0.04
655 30 0.01
656 27 0.01
657 281 0.10
658 119 0.04
659 6 0.00
661 1 0.00
664 1 0.00
666 3 0.00
667 137 0.05
668 100 0.04
669 6 0.00
ACGTcount: A:0.32, C:0.15, G:0.17, T:0.36
Consensus pattern (650 bp):
GAGTATTGTGGCAAAAAAATTGAGAAAAAATTTTCGGGTCAGTTTTTAGCCGAAATCATATACTA
ACCATCACGGTTTTTGGCTTAAAATGCGTTCCGGGGTCCCGGCTCAGTTCTGCATGATTTTTGGT
ATAAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCCTAGCCACACTCGAATTAAAGATT
TGTTTTTACGAGCATCTAAATCTTGTTTCGATTTAATTAAAAATAAACTCGAGCAAAAAATGGAA
AAACGATATCAGAAGCGTGAAAAACTCTTCAATTTTTTGGCGTTAAATTATATATTTTTTCAGAG
TATTGTGGCAAAAAAATTGAGGAAAAAATTTTCGGGTCAGTTTTTGCGAAATTTTAGCCGAAATC
ATGTCATCACGGTTTTTGGCTAAAATCGCGTTCCGGGGCCCCGGCTCAGTTCTGCATGATTTTTG
GCATATAGACTCCTTGAAATATCTATATTCATCGAGTCAAATCCTAGCCACACTCGAATTAAGGA
TTTGTTTCTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAATTTAATTCGAGCAAAAAATGG
AAAAACGATATTAGAAGCGTGAAAAACTCTTCAATCTTTTTGGTGTTAAATTATATAATTTTTCA
Done.